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Navigation

-read_output(fgno=None, outdir=None, verbose=True, indexing='ij')
+read_output(fgno=None, outdir=None, verbose=True)

Read the GeoClaw results on the fgmax grid numbered fgno.

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indexing=’ij’ gives backward compatibility.

X[i,j],Y[i,j] corresponds to point x[i],y[j]

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Alternatively, can set indexing==’xy’ so that X,Y and other -arrays have same layout as topo arrays:

- -
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X[j,i],Y[j,i] corresponds to point x[i],y[j]

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- -

This is useful if you want to save the fgmax results in same format as -topofiles, using topotools.Topography.write().

diff --git a/dev/searchindex.js b/dev/searchindex.js index 0585aae3e..b59ef8212 100644 --- a/dev/searchindex.js +++ b/dev/searchindex.js @@ -1 +1 @@ -Search.setIndex({"docnames": ["ClawPlotAxes", "ClawPlotData", "ClawPlotFigure", "ClawPlotItem", "about", "adjoint", "amr_algorithm", "amrclaw", "amrclaw1d", "amrclaw_doxygen", "amrclaw_flowcharts", "application_documentation", "apps", "aws", "b4run", "b4step_defaults", "bc", "biblio", "changes_to_master", "claw43to46", "claw46to50", "claw4x", "clawpack5", "clawpack_components", "community", "contents", "contribute_apps", "current_data", "developers", "docker_image", "dtopotools_module", "f77_vs_f90", "fgmax", "fgmax_tools_module", "fgout", "fgout_tools_module", "first_run", "first_run_fortran", "first_run_pyclaw", "flagregions", "force_dry", "fortran", "fortran_compilers", "fvmbook", "galleries", "gauges", "geoclaw", "geoclaw_started", "geoclaw_util_module", "geohints", "geoplot", "git_versions", "googleearth_plotting", "gpu", 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161, 162, 165], "assum": [3, 5, 20, 22, 30, 32, 34, 35, 37, 40, 48, 49, 52, 54, 55, 56, 60, 68, 72, 78, 94, 95, 97, 98, 99, 105, 106, 112, 119, 132, 137, 138, 143, 146, 153, 154, 157, 159, 161, 165], "instanc": [3, 28, 35, 52, 72, 75, 81, 85, 86, 88, 91, 94, 95, 98, 137, 146], "type": [3, 4, 7, 13, 20, 28, 30, 36, 37, 41, 45, 52, 63, 68, 79, 80, 81, 85, 86, 87, 89, 91, 96, 97, 101, 102, 105, 106, 137, 144, 145, 146, 153, 154, 157, 159, 165], "dimension": [3, 7, 8, 17, 22, 25, 30, 32, 34, 36, 37, 45, 49, 53, 68, 91, 98, 119, 120, 122, 125, 145, 146, 147, 159, 162], "point": [3, 5, 6, 13, 15, 16, 17, 20, 28, 30, 33, 34, 36, 37, 39, 40, 42, 45, 46, 47, 48, 49, 52, 54, 55, 56, 58, 59, 60, 61, 68, 69, 72, 85, 95, 96, 100, 106, 107, 108, 112, 122, 124, 126, 132, 134, 135, 137, 138, 139, 140, 141, 143, 144, 145, 146, 151, 152, 153, 157, 159, 160, 162], "slice": [3, 68, 135], "scatter": [3, 22, 68], "radial": [3, 32, 48, 146, 162], "symmetr": [3, 48, 162], "between": [3, 4, 5, 6, 13, 16, 23, 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81, 91, 98, 99, 105, 122, 128, 131, 132, 133, 134, 135, 138, 144, 157, 159, 161, 165], "mappedgrid": [3, 68], "map": [3, 16, 29, 30, 40, 60, 67, 68, 79, 83, 86, 91, 93, 98, 112, 119, 123, 128, 136, 159, 165], "mapc2p": [3, 25, 27, 68, 86, 91, 128], "underli": [3, 52, 121], "requir": [3, 4, 16, 20, 22, 25, 27, 30, 32, 34, 35, 36, 37, 41, 46, 48, 49, 56, 59, 67, 68, 72, 75, 78, 81, 82, 85, 86, 91, 94, 97, 98, 101, 102, 103, 105, 106, 107, 112, 113, 115, 116, 119, 121, 124, 126, 128, 131, 135, 136, 137, 142, 143, 144, 145, 146, 147, 153, 154, 157, 160, 163, 165], "depend": [3, 13, 16, 28, 29, 30, 32, 35, 36, 37, 41, 42, 47, 49, 52, 63, 65, 68, 72, 79, 84, 94, 99, 100, 101, 106, 108, 112, 123, 139, 144, 146, 159, 160, 162, 165], "summar": [3, 28, 31, 112, 114, 162], "plotstyl": [3, 45, 79, 142], "anyth": [3, 6, 28, 29, 59, 64, 113, 123], "valid": [3, 49, 72, 88, 95, 100, 103, 121, 146, 153, 154, 159], "fmt": 3, "group": [3, 13, 24, 28, 30, 49, 90, 94, 96, 104, 120, 135], "solid": [3, 16, 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145, 147, 153, 154], "contour_color": 3, "specif": [3, 5, 12, 22, 28, 30, 45, 46, 48, 52, 53, 59, 62, 64, 65, 74, 83, 84, 86, 88, 93, 94, 95, 99, 100, 106, 110, 121, 122, 123, 126, 142, 143, 144, 145, 147, 154, 157], "b": [3, 5, 17, 28, 30, 32, 33, 34, 35, 40, 45, 53, 55, 56, 65, 69, 79, 101, 112, 119, 126, 137, 138, 139, 146, 159, 161], "0000ff": [3, 60], "colormap": [3, 30, 40, 47, 52, 67, 68, 78, 80, 120, 126, 159], "amr_contour_color": 3, "As": [3, 37, 40, 46, 49, 55, 56, 60, 61, 85, 105, 107, 111, 115, 126, 135, 136, 139, 146, 149, 155, 162], "black": [3, 45], "subsequ": [3, 10, 68], "both": [3, 16, 28, 30, 33, 34, 35, 36, 37, 39, 40, 45, 49, 54, 57, 59, 64, 67, 68, 72, 74, 86, 94, 95, 96, 101, 102, 112, 113, 119, 120, 123, 126, 131, 135, 136, 137, 139, 143, 144, 145, 147, 151, 157, 162], "fine": [3, 32, 33, 34, 40, 55, 71, 75, 93, 98, 112, 121, 128, 137, 139, 143, 144, 146, 157, 162], "coars": [3, 32, 34, 52, 112, 121, 128, 143, 157, 162], "anoth": [3, 22, 34, 40, 45, 52, 59, 60, 74, 78, 82, 90, 101, 104, 113, 123, 153, 162], "refin": [3, 4, 5, 7, 8, 17, 22, 34, 46, 49, 52, 53, 54, 67, 68, 74, 75, 85, 121, 123, 124, 126, 128, 137, 139, 142, 143, 144, 145, 156, 157, 162], "region": [3, 6, 7, 13, 16, 22, 32, 34, 39, 40, 46, 49, 50, 52, 60, 65, 69, 72, 75, 110, 123, 126, 128, 138, 139, 144, 145, 149, 157, 159], "lack": 3, "hidden": [3, 63, 79], "blank": [3, 33, 60, 153], "coarser": [3, 16, 54, 121, 139, 143, 144, 162], "easili": [3, 13, 28, 32, 52, 55, 68, 79, 86, 91, 102, 106, 113, 126, 148], "contour_show": 3, "commonli": [3, 68, 79, 81], "amr_contour_show": 3, "determin": [3, 5, 6, 30, 32, 35, 40, 45, 46, 49, 51, 52, 55, 60, 69, 72, 79, 89, 91, 94, 99, 103, 108, 112, 116, 120, 121, 134, 137, 138, 142, 143, 144, 146, 159, 162], "whether": [3, 6, 13, 16, 22, 48, 54, 57, 59, 61, 62, 63, 68, 83, 91, 94, 95, 99, 100, 101, 112, 113, 121, 135, 137, 143, 144, 146, 159], "view": [3, 4, 22, 34, 36, 37, 45, 46, 52, 54, 55, 60, 74, 78, 80, 81, 85, 96, 102, 107, 119, 123, 148, 150], "finest": [3, 32, 34, 40, 45, 69, 123, 156, 159], "contour_kwarg": [3, 159], "pcolor_cmap": [3, 52], "pcolor_cmin": 3, "pcolor_cmax": 3, "thei": [3, 5, 6, 13, 16, 24, 27, 28, 30, 32, 34, 39, 40, 45, 49, 52, 55, 56, 59, 60, 61, 64, 67, 68, 74, 78, 91, 93, 98, 101, 106, 112, 113, 121, 128, 139, 142, 146, 149, 153, 157, 159, 162], "chosen": [3, 29, 32, 39, 40, 52, 54, 67, 105, 112, 128, 138, 144], "vari": [3, 15, 17, 25, 30, 40, 46, 54, 65, 69, 98, 100, 119, 126, 135, 136, 138, 140, 144, 146, 165], "yield": 3, "veri": [3, 5, 16, 22, 49, 52, 56, 57, 60, 72, 79, 83, 86, 94, 95, 96, 97, 98, 101, 113, 116, 120, 131, 137, 139, 143, 154, 157], "confus": [3, 54, 59, 108, 128, 135], "add_colorbar": [3, 30, 159], "ad": [3, 12, 16, 20, 22, 24, 25, 27, 29, 32, 34, 35, 42, 45, 48, 54, 55, 56, 59, 60, 61, 65, 68, 69, 72, 79, 84, 86, 89, 91, 92, 95, 96, 108, 109, 110, 112, 115, 116, 117, 118, 119, 120, 121, 122, 123, 124, 125, 126, 127, 129, 131, 132, 134, 139, 143, 144, 146, 149, 153, 156, 159, 163], "imshow_cmap": 3, "imshow_cmin": 3, "imshow_cmax": 3, "relat": [3, 7, 22, 24, 55, 75, 99, 110, 122, 126, 128, 138], "pre": [3, 13, 33, 56, 87, 94], "pend": 3, "amr_": [3, 7], "whose": [3, 79, 86, 98, 99, 139, 143, 144, 159], "origin": [3, 6, 13, 16, 20, 28, 30, 34, 35, 45, 53, 55, 67, 73, 74, 86, 101, 106, 115, 121, 128, 134, 144, 145, 146, 147, 159], "hand": [3, 5, 18, 19, 20, 65, 85, 113, 131, 132, 137], "higher": [3, 6, 52, 91, 101, 102, 112, 126, 135, 137, 138, 139], "shorter": [3, 112, 159], "last": [3, 18, 27, 32, 34, 56, 58, 79, 85, 86, 98, 105, 120, 131, 132, 143, 153], "repeatedli": [3, 96, 102, 144], "finer": [3, 7, 32, 52, 112, 115, 116, 137, 143, 144], "celledg": 3, "colorbar_shrink": [3, 30], "colorbar_label": 3, "colorbar_tick": 3, "colorbar_tick_label": 3, "colorbar_extend": [3, 132], "colorbar_kwarg": [3, 123], "stand": [4, 128], "conserv": [4, 5, 6, 17, 95, 101, 103, 124, 136, 162, 165], "law": [4, 17, 60, 146, 165], "packag": [4, 25, 28, 29, 36, 37, 52, 56, 57, 64, 74, 75, 78, 82, 83, 85, 91, 93, 95, 97, 98, 100, 102, 105, 107, 108, 125, 126, 160, 163], "wa": [4, 5, 6, 14, 19, 20, 25, 29, 30, 32, 33, 34, 35, 40, 49, 51, 55, 56, 63, 65, 67, 68, 72, 79, 96, 100, 101, 103, 112, 113, 114, 115, 116, 117, 118, 119, 120, 121, 122, 123, 124, 125, 126, 127, 128, 129, 130, 131, 132, 134, 137, 139, 156, 157, 159], "initi": [4, 5, 7, 12, 13, 22, 25, 30, 34, 35, 45, 46, 48, 49, 52, 56, 61, 64, 68, 69, 72, 74, 75, 81, 83, 84, 85, 86, 88, 89, 91, 92, 94, 95, 99, 100, 101, 103, 104, 106, 109, 112, 120, 123, 126, 128, 135, 138, 143, 144, 145, 147, 149, 153, 157, 159], "develop": [4, 6, 7, 12, 13, 18, 22, 23, 49, 53, 55, 58, 59, 62, 67, 68, 78, 82, 83, 86, 93, 98, 101, 102, 108, 110, 113, 123, 124, 126, 128, 131, 132, 135, 138, 139, 145], "linear": [4, 5, 17, 30, 34, 35, 45, 52, 69, 72, 79, 85, 89, 101, 124, 135, 136, 137], "nonlinear": [4, 5, 17, 49, 89, 135, 143, 165], "hyperbol": [4, 5, 6, 17, 43, 75, 86, 93, 98, 99, 105, 135, 143, 146, 162, 165], "system": [4, 16, 17, 23, 37, 38, 52, 53, 59, 60, 64, 73, 74, 83, 93, 95, 96, 98, 99, 102, 105, 108, 113, 135, 143, 145, 147, 155, 162, 165], "focu": [4, 46], "high": [4, 17, 32, 49, 52, 67, 69, 72, 75, 86, 93, 101, 135, 138, 139, 161, 162], "resolut": [4, 6, 17, 30, 32, 34, 40, 45, 61, 69, 72, 91, 101, 105, 106, 115, 119, 123, 124, 131, 135, 138, 157, 159, 161, 162], "godunov": [4, 91, 101, 143, 145, 147, 162], "method": [4, 5, 7, 17, 32, 34, 35, 39, 43, 45, 54, 67, 69, 79, 81, 85, 88, 89, 91, 96, 100, 101, 106, 112, 113, 119, 135, 142, 143, 144, 145, 147, 153, 156, 157, 159, 162], "framework": [4, 83, 86, 120, 121], "applic": [4, 6, 15, 16, 19, 20, 22, 23, 24, 28, 29, 32, 34, 35, 36, 37, 38, 42, 43, 44, 45, 46, 47, 56, 58, 59, 64, 67, 73, 74, 81, 90, 91, 92, 93, 95, 101, 106, 109, 111, 112, 113, 115, 118, 119, 121, 122, 123, 125, 126, 135, 137, 139, 140, 143, 146, 151, 152, 157, 159, 160, 162, 163], "finit": [4, 17, 32, 34, 43, 54, 60, 67, 68, 69, 72, 101, 126, 137, 146, 156, 157, 162], "volum": [4, 17, 29, 32, 34, 43, 54, 60, 67, 68, 69, 93, 126, 137, 144, 146, 156, 157, 162], "riemann": [4, 5, 8, 20, 22, 23, 28, 29, 46, 56, 59, 64, 75, 83, 85, 91, 92, 101, 102, 103, 105, 108, 141, 143, 145, 147, 151, 152, 165], "solver": [4, 5, 6, 20, 22, 23, 25, 28, 46, 57, 58, 59, 64, 82, 83, 84, 88, 91, 92, 95, 103, 117, 119, 121, 122, 123, 124, 125, 126, 128, 143, 145, 147, 151, 152, 165], "resolv": [4, 32, 34, 52, 55, 59, 110, 123, 139], "jump": [4, 5, 68, 81, 91, 101, 121, 143, 165], "discontinu": [4, 101, 165], "interfac": [4, 19, 22, 68, 83, 86, 89, 93, 94, 99, 101, 106, 135, 162, 163, 165], "wave": [4, 5, 6, 16, 17, 25, 32, 40, 49, 52, 53, 72, 89, 91, 93, 98, 99, 101, 112, 119, 121, 122, 128, 136, 137, 138, 143, 144, 145, 146, 147, 149, 162], "propag": [4, 5, 6, 17, 25, 30, 49, 52, 53, 72, 91, 93, 101, 112, 121, 135], "neighbor": [4, 34, 40, 67, 69, 112, 121, 139, 144, 145, 159], "formul": [4, 5, 49, 65, 135, 143], "allow": [4, 6, 13, 22, 27, 28, 29, 32, 34, 35, 39, 40, 45, 46, 48, 51, 52, 54, 55, 59, 65, 67, 68, 72, 73, 75, 78, 79, 88, 93, 94, 95, 101, 103, 106, 107, 108, 112, 113, 115, 116, 119, 120, 121, 122, 123, 125, 126, 128, 131, 132, 135, 137, 143, 145, 146, 147, 148, 149, 153, 157, 159, 161], "easi": [4, 6, 11, 29, 39, 59, 68, 86, 95, 96, 97, 137, 148, 162], "extens": [4, 17, 22, 24, 28, 30, 49, 52, 55, 59, 64, 68, 86, 93, 94, 106, 121, 122, 128, 143, 155, 159, 165], "problem": [4, 5, 7, 16, 17, 20, 24, 25, 27, 28, 29, 36, 37, 40, 43, 46, 59, 63, 67, 68, 69, 72, 75, 79, 82, 84, 85, 90, 92, 93, 96, 99, 101, 104, 108, 113, 115, 116, 118, 119, 122, 126, 128, 132, 135, 137, 139, 143, 144, 145, 146, 147, 148, 156, 160], "algorithm": [4, 7, 25, 32, 39, 40, 46, 53, 85, 91, 93, 94, 101, 105, 112, 123, 135, 137, 143, 145, 147, 159], "brief": [4, 56, 136, 146], "subroutin": [4, 6, 9, 16, 22, 32, 34, 64, 112, 119, 135, 143, 144, 156, 162, 165], "equat": [4, 5, 16, 17, 25, 36, 37, 46, 49, 61, 65, 79, 84, 85, 86, 88, 93, 94, 95, 98, 101, 102, 103, 116, 119, 121, 123, 124, 135, 143, 145, 146, 147, 149, 157, 162, 165], "solv": [4, 5, 8, 16, 17, 20, 26, 36, 37, 49, 57, 59, 61, 84, 86, 88, 91, 93, 98, 99, 102, 124, 135, 136, 143, 157, 162, 165], "adapt": [4, 7, 17, 30, 40, 53, 54, 67, 68, 75, 85, 112, 123, 126, 128, 135, 137, 142, 143, 144, 146, 162], "mesh": [4, 7, 17, 33, 53, 67, 68, 75, 78, 85, 112, 126, 142, 143, 162], "amrclaw": [4, 5, 6, 12, 15, 16, 19, 20, 22, 23, 24, 28, 37, 39, 40, 42, 44, 45, 46, 47, 53, 56, 57, 58, 59, 61, 67, 68, 73, 74, 75, 82, 93, 94, 102, 108, 109, 112, 113, 134, 135, 137, 140, 141, 143, 146, 151, 152, 155, 156, 160], "detail": [4, 5, 10, 16, 22, 23, 25, 26, 28, 29, 30, 32, 34, 36, 37, 39, 42, 45, 47, 49, 52, 55, 58, 59, 61, 62, 63, 67, 68, 72, 75, 79, 83, 88, 89, 90, 91, 93, 94, 95, 96, 97, 98, 99, 101, 111, 112, 113, 116, 121, 123, 128, 131, 135, 137, 142, 143, 146, 148, 153, 157, 160, 161, 162, 165], "content": [4, 6, 23, 35, 52, 56, 74, 75, 86, 93, 146, 157, 162, 163], "routin": [4, 5, 6, 16, 20, 25, 27, 30, 32, 36, 37, 45, 46, 47, 52, 53, 63, 68, 69, 73, 74, 75, 78, 81, 83, 86, 88, 91, 94, 97, 98, 101, 103, 104, 112, 115, 116, 119, 121, 123, 124, 126, 135, 139, 143, 145, 147, 153, 159, 160, 162, 163, 165], "special": [4, 7, 16, 46, 47, 52, 62, 75, 83, 112, 131, 137, 159], "depth": [4, 5, 16, 17, 22, 30, 32, 33, 35, 40, 45, 46, 49, 65, 69, 72, 78, 80, 136, 138, 139, 146, 157], "averag": [4, 6, 15, 17, 32, 40, 46, 49, 50, 54, 68, 69, 99, 103, 116, 128, 135, 139, 140, 157, 159, 162], "geophys": [4, 16, 17, 23, 46, 49, 75, 143], "flow": [4, 16, 17, 23, 32, 33, 46, 47, 49, 75, 93, 110, 126, 131, 135, 143, 146, 157, 162], "geoclaw": [4, 7, 12, 17, 23, 24, 28, 29, 30, 32, 33, 34, 35, 37, 39, 42, 44, 45, 53, 54, 56, 57, 58, 59, 60, 61, 65, 67, 69, 72, 74, 75, 78, 82, 93, 102, 108, 110, 111, 113, 134, 135, 136, 138, 139, 141, 143, 144, 149, 153, 154, 155, 156, 157, 158, 159, 160, 161, 162], "parallel": [4, 22, 23, 45, 73, 84, 90, 92, 93, 95, 98, 100, 102, 106, 112, 113, 121, 144], 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101, 103, 107, 108, 112, 121, 123, 126, 132, 133, 135, 137, 140, 143, 144, 145, 146, 147, 155, 156, 157, 159, 162, 165], "pointer": [4, 16, 55, 72, 78, 81, 101, 106, 119], "code": [4, 5, 6, 7, 8, 12, 14, 16, 19, 20, 21, 22, 23, 24, 27, 29, 32, 33, 34, 35, 36, 37, 39, 41, 42, 43, 45, 46, 49, 51, 53, 54, 55, 57, 62, 63, 64, 65, 71, 72, 73, 74, 75, 77, 79, 81, 82, 83, 85, 86, 91, 93, 94, 95, 96, 98, 101, 102, 105, 107, 108, 111, 114, 115, 116, 119, 120, 121, 122, 123, 124, 125, 126, 128, 134, 135, 136, 137, 141, 143, 144, 145, 146, 147, 148, 153, 155, 156, 157], "bibliographi": [4, 25], "paper": [4, 5, 6, 16, 30, 46, 55, 89, 93], "distribut": [4, 12, 13, 29, 30, 55, 62, 72, 75, 83, 101, 107, 126], "under": [4, 7, 22, 32, 34, 38, 52, 53, 55, 58, 62, 64, 78, 83, 91, 93, 113, 121, 123, 133], "term": [4, 25, 46, 49, 62, 72, 86, 91, 92, 101, 112, 122, 123, 132, 136, 143, 145, 146, 147, 151, 152], "berkelei": [4, 62, 83], "bsd": [4, 62, 83, 123], "peopl": [4, 12, 13, 83], "contribut": [4, 24, 25, 58, 83, 86, 93, 98, 101, 110, 113], "its": [4, 6, 13, 22, 29, 40, 49, 52, 62, 64, 67, 72, 74, 83, 88, 89, 90, 91, 93, 98, 100, 101, 103, 106, 112, 145, 159, 165], "incept": 4, "1994": [4, 62], "major": [4, 22, 56, 83, 86, 114, 115, 116, 117, 122, 124, 129, 132], "design": [4, 27, 28, 52, 83, 85, 105, 137, 161], "made": [4, 18, 22, 28, 30, 35, 59, 100, 103, 115, 116, 121, 123, 126, 128, 131, 132, 137, 139, 146, 154, 157, 159, 162], "individu": [4, 22, 23, 52, 60, 63, 64, 68, 91, 112, 113, 153], "randal": [4, 17, 93], "univers": [4, 17, 24, 55, 62, 83, 100], "washington": [4, 17, 24, 55, 62, 125, 137, 159], "rjlevequ": [4, 28, 29], "marsha": [4, 6, 17], "berger": [4, 6, 17], "courant": [4, 6, 112, 122, 143, 144, 145, 147], "institut": 4, "nyu": 4, "mjberger": 4, "jan": [4, 56], "olav": 4, "langseth": [4, 17], "norwegian": 4, "defenc": 4, "research": [4, 17, 46, 49, 83, 101, 111], "establish": 4, "david": [4, 17, 83, 93, 101], "georg": [4, 17, 30], "usg": [4, 30, 161], "cascad": 4, 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151, 152, 157], "attribut": [5, 7, 22, 30, 34, 35, 39, 45, 67, 72, 78, 80, 81, 85, 88, 91, 94, 96, 98, 100, 101, 112, 115, 120, 124, 132, 134, 142, 143, 144, 146, 153, 159], "clawutil": [5, 11, 14, 19, 20, 23, 28, 41, 42, 51, 56, 57, 58, 63, 108, 113, 141, 143, 144, 145, 147, 159, 160], "clawrundata": [5, 45, 60, 124, 134, 143, 144, 145, 147], "adjointdata": [5, 124, 125], "ia": 5, "attribur": 5, "toler": [5, 32, 99, 106, 112, 113, 121, 144, 145, 146], "rundata": [5, 22, 32, 34, 39, 40, 45, 60, 61, 112, 115, 126, 134, 139, 143, 144, 145, 146, 147], "use_adjoint": 5, "adjoint_outdir": 5, "abspath": [5, 39], "_output": [5, 13, 14, 32, 34, 36, 37, 45, 51, 61, 68, 79, 81, 90, 95, 97, 100, 120, 127, 160], "period": [5, 6, 16, 32, 63, 85, 98, 112, 143, 145, 147], "t1": [5, 39, 45, 60, 61, 112, 128, 144, 145, 146], "t0": [5, 74, 134, 143, 145, 146, 147, 157], "t2": [5, 39, 45, 60, 61, 112, 128, 144, 145, 146], "addit": [5, 7, 13, 16, 23, 24, 28, 29, 32, 34, 37, 38, 39, 46, 47, 60, 67, 72, 74, 75, 79, 80, 86, 89, 91, 93, 95, 101, 102, 103, 110, 112, 119, 121, 122, 123, 124, 127, 128, 130, 131, 132, 135, 137, 143, 147, 153, 156, 157, 162, 163], "aux": [5, 6, 15, 20, 22, 27, 45, 54, 86, 93, 94, 95, 98, 100, 101, 103, 104, 115, 116, 121, 123, 135, 136, 140, 143, 144, 145, 146, 147, 162], "inner": [5, 112, 124], "product": [5, 30, 62, 83, 106, 112, 124], "amrdata": [5, 22, 32, 112, 126, 128, 144, 145, 146], "aux_typ": [5, 144, 145], "append": [5, 20, 32, 34, 39, 40, 45, 52, 61, 79, 88, 100, 112, 120, 121, 134, 135, 145, 146], "num_aux": [5, 86, 94, 96, 98, 99, 103, 135, 143, 144, 145, 147, 162], "len": [5, 30, 35, 91, 145, 147, 159], "innerprod_index": 5, "base": [5, 6, 13, 20, 21, 22, 28, 29, 30, 32, 33, 34, 46, 48, 52, 53, 54, 55, 60, 61, 64, 65, 67, 68, 72, 75, 86, 88, 89, 91, 93, 94, 99, 100, 101, 103, 105, 106, 112, 114, 119, 122, 124, 128, 131, 132, 138, 143, 144, 145, 146, 147, 153, 159, 162, 165], "richardson": [5, 7, 22, 144, 145], "error": [5, 16, 20, 36, 37, 41, 52, 59, 68, 73, 79, 88, 93, 94, 95, 106, 112, 113, 124, 128, 144, 145, 153, 160], "estimat": [5, 145], "flag_richardson": [5, 112, 120, 144, 145], "flag_richardson_tol": [5, 112, 144, 145], "1e": [5, 67, 147], "flag2refin": [5, 7, 22, 144, 145], "flag2refine_tol": [5, 112, 144, 145], "01": [5, 40, 74, 91, 159], "we": [5, 6, 22, 24, 26, 32, 36, 37, 39, 40, 45, 49, 52, 54, 55, 56, 57, 59, 64, 67, 69, 72, 78, 81, 85, 86, 87, 88, 90, 91, 94, 95, 96, 97, 98, 101, 102, 103, 104, 105, 106, 107, 110, 113, 123, 126, 131, 135, 136, 137, 159], "attempt": [5, 8, 11, 20, 33, 36, 37, 63, 94, 100, 106, 113, 115, 129, 153, 159, 160], "estim": [5, 65, 112, 144, 146], "step": [5, 6, 10, 16, 19, 28, 32, 34, 36, 37, 38, 45, 52, 55, 56, 61, 68, 74, 75, 78, 81, 83, 84, 85, 86, 88, 95, 98, 101, 103, 105, 110, 112, 115, 120, 121, 131, 134, 135, 141, 143, 144, 145, 146, 147, 157, 165], "extrapol": [5, 7, 16, 22, 69, 98, 105, 123, 143, 144, 145, 147], "togeth": [5, 16, 28, 29, 30, 55, 57, 72, 112, 131], "experiment": [5, 83], "simpli": [5, 13, 34, 36, 37, 38, 40, 45, 52, 54, 63, 64, 67, 69, 85, 87, 88, 90, 95, 96, 102, 113, 135, 137, 148, 153, 159, 162, 163], "magnitud": [5, 30, 112, 123, 146], "greater": [5, 32, 60, 65, 67, 102, 112, 134, 143, 144, 146], "model": [5, 12, 16, 17, 24, 25, 30, 32, 42, 46, 47, 53, 54, 65, 95, 112, 120, 125, 126, 127, 137, 138, 139, 146, 149, 153, 154, 157], "davisleveque2016": [5, 17], "chile2010_adjoint": 5, "shallow": [5, 15, 16, 17, 25, 32, 34, 40, 46, 49, 53, 67, 75, 86, 93, 109, 116, 117, 119, 121, 123, 124, 132, 135, 139, 140, 146, 151, 152, 157, 162], "water": [5, 16, 17, 25, 34, 40, 45, 46, 47, 48, 49, 60, 67, 75, 78, 86, 93, 116, 117, 121, 123, 124, 135, 137, 138, 139, 146, 157, 159, 161, 162], "while": [5, 13, 16, 30, 40, 52, 68, 72, 79, 81, 86, 91, 95, 96, 101, 106, 123, 135, 139, 146, 161], "suitabl": [5, 8, 16, 20, 46, 49, 52, 70, 74, 100, 111, 135, 138, 153, 159], "To": [5, 6, 13, 14, 18, 22, 25, 28, 29, 36, 37, 38, 39, 40, 41, 45, 47, 50, 52, 53, 56, 63, 66, 67, 68, 72, 73, 74, 79, 81, 82, 85, 87, 89, 90, 93, 94, 95, 96, 97, 98, 101, 102, 105, 108, 110, 111, 112, 113, 119, 121, 124, 125, 126, 127, 128, 129, 130, 131, 132, 134, 138, 141, 143, 144, 148, 157, 163], "date": [5, 28, 41, 48, 52, 55, 56, 63, 79, 153, 160], "across": [5, 112, 121, 157, 159], "ocean": [5, 16, 17, 32, 49, 52, 110, 112, 137, 146, 151, 152, 157], "wai": [5, 6, 13, 16, 26, 28, 34, 36, 37, 39, 40, 45, 52, 54, 55, 58, 59, 60, 62, 63, 79, 81, 82, 83, 85, 88, 90, 91, 96, 98, 100, 102, 105, 107, 108, 110, 111, 115, 121, 122, 123, 126, 133, 135, 137, 142, 143, 150, 154, 157, 162, 164, 165], "target": [5, 59, 79, 86, 98, 126], "possibli": [5, 30, 34, 67, 85, 91, 108, 120, 139], "deep": [5, 67], "amplitud": [5, 121], "compar": [5, 22, 37, 45, 49, 52, 56, 79, 95, 112, 113, 138, 144, 155, 161, 165], "essenti": [5, 54, 68, 101, 146, 157], "rest": [5, 22, 81, 110, 123, 138, 151, 152, 157, 159], "henc": [5, 34, 54, 55, 64, 69, 101, 107, 108, 112, 139], "take": [5, 6, 22, 27, 28, 30, 32, 35, 48, 55, 65, 67, 68, 72, 79, 85, 91, 98, 101, 105, 106, 107, 112, 113, 118, 124, 132, 139, 143, 144, 145, 146, 159, 162, 165], "rpn2_geoclaw_adjoint_qwav": 5, "rpt2_geoclaw_adjoint_qwav": 5, "non": [5, 16, 56, 67, 75, 86, 98, 105, 124, 126, 143, 145, 147, 153, 165], "vector": [5, 22, 85, 89, 95, 103, 123, 131, 135, 136], "split": [5, 6, 73, 91, 94, 101, 119, 120, 128, 143, 144, 145, 147, 156, 162, 165], "flux": [5, 17, 32, 34, 35, 91, 99, 101, 135, 143, 165], "comment": [5, 11, 24, 50, 56, 122, 131, 134], "rpn2": [5, 135], "basic": [6, 10, 12, 25, 30, 36, 38, 46, 58, 67, 68, 85, 91, 93, 94, 95, 99, 101, 113, 135, 136, 153, 165], "strategi": 6, "logic": [6, 16, 17, 32, 128, 146], "rectangular": [6, 7, 16, 17, 30, 32, 35, 39, 40, 46, 47, 60, 67, 91, 112, 123, 126, 131, 144, 146, 157], "too": [6, 48, 52, 55, 56, 120, 137, 145, 147], "portion": [6, 34, 40, 52, 67, 86, 131, 156], "factor": [6, 52, 144, 146, 156, 159], "direct": [6, 8, 16, 22, 30, 32, 34, 36, 37, 45, 48, 52, 56, 60, 62, 63, 68, 72, 73, 79, 83, 88, 98, 105, 112, 122, 135, 143, 144, 146, 159], "anisotrop": [6, 22], "perhap": [6, 12, 32, 40, 45, 55, 79, 103, 106, 112, 137], "section": [6, 13, 16, 34, 36, 37, 40, 42, 47, 49, 55, 56, 64, 68, 78, 81, 93, 113, 128, 134, 143, 146, 159], "cfl": [6, 91, 95, 101, 105, 115, 120, 143, 145, 146, 147], "spatial": [6, 17, 25, 30, 34, 35, 39, 40, 45, 46, 61, 65, 69, 98, 112, 115, 119, 126, 128, 135, 138, 144, 145, 146, 147, 165], "reduc": [6, 16, 34, 40, 52, 120, 122, 131, 165], "thu": [6, 48, 95, 98, 123, 153], "proce": [6, 28, 146], "advanc": [6, 17, 34, 53, 67, 73, 105, 120, 132, 143, 144, 162], "taken": [6, 32, 67, 72, 95, 101, 112, 143, 162], "around": [6, 30, 32, 40, 60, 94, 110, 113, 126, 144, 145, 153, 159, 162], "librari": [6, 13, 15, 16, 20, 22, 25, 27, 28, 32, 34, 36, 37, 42, 45, 53, 60, 63, 73, 74, 75, 83, 89, 94, 96, 101, 106, 108, 109, 112, 121, 126, 139, 140, 144, 151, 152, 160, 162], "bcnamr": [6, 16, 123, 143, 145, 162], "check": [6, 14, 15, 16, 20, 32, 36, 37, 41, 42, 51, 52, 53, 55, 56, 57, 59, 63, 68, 79, 82, 85, 86, 88, 93, 96, 100, 101, 103, 105, 106, 108, 109, 112, 116, 125, 137, 139, 140, 144, 145, 151, 152, 153, 159, 160, 161, 162], "denot": [6, 22, 35, 45, 54, 135, 159], "procedur": [6, 16, 40, 46, 56, 162], "updat": [6, 12, 13, 22, 23, 25, 32, 50, 53, 58, 59, 61, 81, 93, 101, 103, 104, 107, 110, 115, 119, 121, 122, 123, 124, 125, 126, 135, 144, 145, 147, 150, 153, 156, 162], "consist": [6, 25, 32, 34, 48, 52, 56, 60, 96, 107, 121, 131, 132, 135, 137, 146, 157, 162], "replac": [6, 13, 29, 34, 39, 45, 49, 53, 55, 56, 58, 61, 63, 78, 86, 90, 94, 96, 97, 98, 99, 103, 106, 113, 115, 121, 123, 125, 126, 131, 134, 135, 139, 159, 160], "ly": [6, 67], "within": [6, 16, 28, 34, 35, 55, 59, 67, 69, 75, 79, 97, 106, 108, 112, 135, 137, 142, 148, 159], "approxim": [6, 16, 25, 33, 49, 52, 69, 72, 135], "lead": [6, 13, 22, 32, 34, 49, 52, 65, 68, 72, 108, 111, 128, 139, 144], "total": [6, 30, 34, 52, 72, 74, 95, 101, 143, 144, 145, 147, 156], "mass": [6, 95, 149], "restor": 6, "global": [6, 14, 91, 103, 106, 138, 157, 161, 162], "fix": [6, 19, 20, 22, 25, 33, 35, 39, 45, 46, 55, 56, 60, 61, 63, 67, 69, 83, 94, 99, 115, 116, 117, 118, 119, 120, 121, 122, 124, 125, 126, 127, 128, 129, 130, 131, 132, 136, 143, 145, 147, 159], "up": [6, 13, 22, 28, 29, 30, 32, 34, 36, 37, 40, 41, 45, 46, 52, 55, 56, 60, 63, 67, 68, 72, 74, 79, 85, 86, 88, 90, 92, 93, 94, 96, 101, 102, 105, 108, 110, 112, 113, 119, 120, 123, 126, 128, 137, 139, 142, 145, 147, 156, 157, 160, 161], "style": [6, 22, 28, 30, 34, 39, 50, 52, 67, 70, 79, 83, 88, 123, 146], "olig": [6, 17], "colella": [6, 17], "bergeroliger84": [6, 17], "bergercolella89": [6, 17], "fortran": [6, 9, 11, 13, 14, 20, 23, 27, 28, 30, 32, 33, 34, 35, 36, 45, 46, 47, 54, 57, 59, 63, 64, 65, 69, 73, 74, 75, 78, 81, 83, 85, 86, 88, 91, 93, 94, 96, 98, 99, 101, 102, 103, 106, 108, 119, 120, 121, 123, 124, 125, 131, 132, 135, 136, 141, 144, 145, 146, 147, 153, 155, 156, 157], "written": [6, 11, 25, 30, 32, 34, 35, 41, 45, 59, 60, 61, 62, 72, 74, 75, 79, 83, 92, 93, 94, 98, 121, 135, 143, 144, 145, 146, 147, 153, 159, 162], "ga": [6, 99], "dynam": [6, 20, 30, 34, 49, 72, 75, 144], "merg": [6, 13, 25, 28, 53, 55, 56, 59, 119], "earli": [6, 20, 139], "mjb": [6, 17], "rjl": [6, 17, 108, 125], "fulli": [6, 49, 52, 53, 122, 126, 135, 146, 153, 154], "consid": [6, 40, 49, 59, 67, 86, 108, 141, 148, 159], "adjac": [6, 16, 32, 46, 112, 139, 143], "equival": [6, 45, 53, 54, 60, 61, 74, 125, 131, 157], "copi": [6, 14, 15, 16, 36, 37, 45, 52, 55, 56, 59, 68, 85, 88, 98, 103, 109, 110, 111, 112, 116, 120, 123, 127, 139, 140, 144, 148, 151, 152, 157, 162], "interior": [6, 16, 40, 74, 103], "howev": [6, 13, 16, 22, 32, 36, 37, 40, 42, 47, 49, 52, 59, 62, 64, 67, 69, 72, 73, 74, 83, 86, 93, 112, 113, 121, 123, 125, 138, 139, 142, 146, 156], "lie": [6, 32, 33, 35, 67, 69, 112, 126, 137], "outsid": [6, 16, 39, 60, 67, 126, 137, 139, 157, 159], "li": [6, 16, 32, 35, 69, 112, 137], "along": [6, 14, 16, 24, 27, 30, 32, 40, 45, 52, 55, 58, 72, 74, 108, 112, 119, 133, 134, 137, 139, 146, 161], "proper": [6, 15, 40, 45, 53, 54, 55, 56, 60, 65, 67, 68, 94, 106, 115, 121, 140, 144, 145, 151, 152, 153, 162], "unless": [6, 32, 41, 42, 60, 99, 107, 138, 143, 144, 159], "standard": [6, 16, 30, 32, 34, 52, 54, 68, 74, 86, 89, 101, 108, 112, 113, 145, 146, 147, 148, 157, 162, 165], "beyond": [6, 30, 107, 123], "modifi": [6, 9, 14, 15, 16, 20, 22, 27, 32, 36, 37, 40, 45, 46, 55, 56, 59, 61, 63, 68, 71, 79, 86, 89, 91, 93, 98, 108, 109, 110, 111, 112, 118, 120, 121, 122, 123, 128, 137, 139, 140, 143, 145, 146, 147, 151, 152, 157, 159, 162], "damag": [6, 62, 83], "bcn": [6, 16, 147, 162], "nd": [6, 16, 112, 123, 126, 162], "actual": [6, 27, 30, 34, 54, 59, 60, 68, 72, 79, 89, 94, 106, 110, 138, 146], "softwar": [6, 13, 24, 25, 29, 46, 49, 62, 83, 93, 94, 95, 148, 157], "With": [6, 22, 28, 45, 50, 52, 59, 67, 75, 112, 120, 135, 137, 143], "opposit": [6, 16, 94], "side": [6, 16, 18, 32, 52, 55, 65, 72, 94, 113, 131, 132, 135, 165], "everi": [6, 12, 28, 32, 34, 45, 61, 63, 64, 74, 85, 88, 90, 94, 95, 103, 112, 113, 121, 122, 135, 139, 141, 143, 145, 147, 153, 157, 159, 162], "few": [6, 12, 13, 22, 26, 29, 37, 49, 55, 67, 68, 86, 101, 105, 107, 112, 113, 126, 138, 155, 157, 162], "coarsest": [6, 34, 52, 74, 115, 134, 143], "revis": [6, 121], "shock": [6, 17, 49, 101, 112], "accord": [6, 54], "criteria": [6, 7, 22, 25, 32, 67, 103], "cluster": [6, 17, 112, 144, 145], "rigoutsi": 6, "bergerrigoutsis91": [6, 17], "nonoverlap": 6, "rectangl": [6, 7, 25, 30, 34, 67, 72, 112, 126, 159], "balanc": [6, 17, 75, 122, 136, 151, 152], "conflict": [6, 28, 59, 63, 68, 104, 108], "goal": 6, "possibl": [6, 13, 22, 26, 28, 30, 32, 34, 35, 45, 48, 49, 52, 61, 62, 63, 72, 79, 83, 91, 94, 96, 97, 101, 106, 108, 112, 135, 137, 138, 143, 144, 157, 161, 162], "minim": [6, 59, 67, 94, 137, 144, 159], "overhead": [6, 73, 112, 156], "cutoff": [6, 145], "control": [6, 7, 23, 25, 32, 34, 42, 45, 55, 59, 61, 68, 74, 81, 84, 89, 91, 93, 94, 95, 96, 98, 112, 121, 126, 136, 146], "fraction": [6, 13, 30, 112, 143, 162, 165], "70": [6, 34, 52], "realli": [6, 69, 113, 162], "At": [6, 13, 27, 28, 34, 36, 37, 40, 67, 96, 101, 105, 107, 112, 126, 143], "present": [6, 24, 60, 69, 91, 99, 100, 101, 106, 148, 162, 165], "previous": [6, 22, 32, 67, 74, 81, 119, 126, 139], "bilinear": [6, 32, 40, 45, 54, 69, 115, 116, 157], "doxygen": [6, 7, 25, 122], "flowchart": [6, 7, 25], "capabl": [7, 12, 22, 32, 34, 45, 49, 53, 61, 67, 75, 86, 93, 115, 120, 121, 123, 124, 125, 126, 127, 131, 132, 159, 161], "block": [7, 30, 33, 40, 60, 72, 74, 75, 85, 94, 103, 106, 113, 162], "structur": [7, 10, 22, 32, 34, 35, 39, 56, 59, 63, 75, 100, 101, 121, 137, 142, 159], "input": [7, 14, 16, 20, 23, 25, 27, 30, 33, 35, 41, 46, 52, 60, 64, 67, 68, 74, 85, 88, 89, 91, 93, 99, 100, 101, 106, 110, 120, 123, 124, 125, 135, 145, 146, 147, 153, 154, 157, 159, 162], "indic": [7, 16, 20, 22, 25, 29, 30, 32, 34, 39, 40, 42, 45, 46, 52, 54, 56, 59, 64, 68, 69, 77, 81, 91, 95, 96, 99, 101, 105, 108, 112, 113, 121, 126, 128, 135, 136, 143, 144, 145, 146, 147, 149, 157, 159, 162], "tool": [7, 8, 17, 22, 23, 28, 30, 32, 33, 34, 35, 36, 37, 40, 46, 47, 48, 49, 52, 54, 57, 58, 59, 60, 68, 72, 77, 78, 79, 80, 82, 93, 108, 111, 116, 117, 121, 122, 126, 127, 146, 148, 157, 159, 161, 163], "matlab": [7, 22, 25, 36, 37, 77, 78, 79, 97, 107, 123, 126, 127], "deprec": [7, 30, 46, 55, 59, 119, 123, 131, 157, 159], "debug": [7, 42, 63, 74, 78, 95, 103, 108, 113, 131, 143, 145], "flag": [7, 12, 13, 22, 25, 28, 29, 39, 41, 42, 46, 53, 59, 73, 86, 104, 106, 108, 119, 124, 128, 145, 146], "sampl": [7, 8, 14, 17, 25, 29, 32, 42, 45, 46, 52, 61, 72, 108, 113, 131, 134, 137, 143, 144, 157, 159, 162], "ghost": [7, 16, 73, 74, 91, 94, 101, 103, 121, 128, 132, 143, 145, 147, 156, 162, 165], "flagregion": [7, 25, 67, 112, 126, 128, 137, 144, 146], "rule": [7, 13, 25, 60, 67, 86], "convex": [7, 32], "slu": 7, "bounding_box": [7, 33], "mask_outsid": [7, 67], "write": [7, 28, 30, 33, 34, 35, 39, 40, 45, 46, 51, 54, 55, 65, 72, 74, 75, 78, 85, 88, 91, 92, 94, 95, 96, 100, 121, 123, 145, 147, 153, 157, 159], "instanti": [7, 88, 96, 98, 101, 103, 132, 145, 147], "make_kml": 7, "simpl": [7, 29, 36, 37, 39, 46, 56, 69, 72, 86, 93, 98, 99, 101, 106, 111, 113, 159], "select": [7, 12, 13, 15, 16, 28, 32, 40, 67, 95, 101, 109, 112, 115, 122, 126, 133, 140, 143, 146, 151, 152, 161], "continent": [7, 67], "shelf": [7, 67], "guid": [7, 13, 17, 18, 23, 24, 25, 46, 47, 53, 58, 93, 107, 112, 122, 126, 131, 132, 150], "adjoint": [7, 17, 25, 53, 112, 123, 124], "gaug": [7, 25, 32, 34, 46, 60, 69, 91, 92, 103, 110, 115, 119, 120, 121, 122, 123, 126, 131, 134, 138, 142, 145], "extend": [8, 16, 22, 40, 60, 67, 68, 91, 123, 137, 139, 146, 157, 159, 165], "directli": [8, 19, 23, 32, 46, 49, 58, 68, 72, 79, 81, 85, 86, 89, 93, 103, 106, 108, 123, 131, 159, 163], "obviou": [8, 52], "elimin": [8, 22, 67, 86, 108, 123, 146], "gallery_classic_amrclaw": [8, 36], "num_cel": [8, 22, 91, 135, 143, 144, 145, 147], "refinement_ratios_i": [8, 144, 145], "sweep": [8, 135], "transvers": [8, 91, 121, 128, 135, 136, 143, 162, 165], "graph": 9, "understand": [9, 25, 36, 37, 49, 78, 93, 105, 112, 135], "filpatch": [9, 40, 121, 125, 128], "idea": [10, 24, 30, 67, 68, 75, 85, 105, 116, 159, 165], "overal": [10, 85], "who": [10, 12, 19, 22, 24, 32, 42, 49, 57], "gori": 10, "monster": 10, "column": [10, 30, 32, 45, 49, 61, 95, 99, 119, 137, 159], "markup": 11, "languag": [11, 78, 106], "restructur": [11, 55], "text": [11, 55, 56, 60, 74, 88, 94, 101, 119], "sphinx": [11, 23, 25, 56, 122], "covert": 11, "convert_readm": 11, "brows": [11, 24, 43, 52, 68, 148, 162], "insert": [11, 16, 72, 94, 141], "script": [11, 19, 20, 28, 30, 32, 41, 45, 52, 55, 63, 68, 75, 78, 83, 86, 90, 92, 93, 95, 96, 101, 106, 108, 113, 123, 127, 135, 142, 146, 147, 159], "invok": [11, 14, 73, 139, 160], "minor": [11, 52, 55, 95, 115, 116, 117, 118, 119, 120, 121, 122, 123, 124, 126, 128, 130, 132], "syntax": [11, 58, 141], "highlight": [11, 13], "header": [11, 30, 32, 34, 40, 45, 54, 67, 72, 74, 94, 100, 119, 121, 123, 153, 157, 159], "complex": [12, 34, 39, 91], "archiv": [12, 21, 37, 52, 56, 113, 148, 155, 159, 161], "github": [12, 15, 22, 23, 24, 25, 26, 29, 53, 55, 58, 59, 90, 98, 102, 109, 113, 118, 120, 121, 122, 131, 133, 135, 136, 140, 151, 152, 160], "app": [12, 13, 18, 23, 26, 28, 29, 32, 38, 43, 44, 72, 110, 111, 118, 122, 123, 124, 125, 126, 127, 128, 129, 130, 131, 132, 136], "com": [12, 13, 23, 24, 26, 28, 29, 53, 55, 56, 58, 59, 94, 96, 98, 102, 118, 120, 121, 122, 131, 133, 136], "fvmbook": [12, 43], "galleri": [12, 25, 36, 37, 38, 43, 56, 77, 78, 90, 93, 107, 113, 118, 122, 148, 155, 162], "anim": [12, 16, 34, 43, 52, 119, 126, 127, 131, 148], "instal": [12, 13, 18, 23, 25, 29, 36, 44, 52, 55, 56, 81, 83, 84, 87, 92, 94, 105, 107, 113, 114, 115, 116, 117, 118, 119, 120, 121, 122, 123, 124, 125, 126, 127, 128, 129, 130, 131, 132, 133, 141, 164], "collect": [12, 25, 26, 28, 30, 32, 72, 78, 85, 101, 148], "either": [12, 16, 20, 30, 32, 34, 40, 46, 47, 52, 61, 63, 67, 68, 72, 74, 79, 81, 85, 91, 93, 94, 95, 101, 106, 108, 112, 113, 119, 120, 121, 123, 131, 135, 137, 139, 144, 146, 153, 157, 159, 162, 165], "clone": [12, 18, 23, 24, 43, 53, 55, 56, 59, 82, 96, 102, 111, 131, 132, 160], "git": [12, 13, 23, 24, 25, 26, 53, 56, 59, 93, 102, 113, 125], "navig": [12, 29, 55, 148], "green": [12, 60, 67, 72, 79, 113, 159], "button": [12, 13, 28, 52, 60, 122], "download": [12, 13, 28, 29, 30, 37, 38, 40, 46, 52, 56, 58, 59, 90, 96, 102, 123, 124, 133, 155, 159, 160, 161], "zip": [12, 52, 56], "illustr": [12, 25, 30, 32, 36, 44, 52, 67, 68, 72, 74, 111, 118, 119, 123, 125, 135, 137, 148, 159], "variou": [12, 20, 22, 30, 34, 39, 44, 49, 55, 68, 69, 72, 79, 81, 91, 105, 107, 108, 112, 121, 135, 142, 146, 153], "visibl": [12, 13, 44, 52, 111, 148], "render": [12, 22, 44, 52, 60, 163], "advantag": [12, 34, 45, 61, 78, 94, 107, 113, 137], "independ": [12, 23, 30, 34, 35], "contact": [12, 90, 93, 102], "u": [12, 13, 16, 24, 29, 32, 34, 35, 48, 49, 56, 57, 59, 61, 83, 90, 93, 99, 102, 103, 104, 105, 110, 122, 135, 144, 147, 153, 161], "storm": [12, 17, 24, 25, 46, 119, 122, 123, 124, 125, 127, 128, 129], "surg": [12, 17, 24, 25, 46, 119, 122, 123, 124, 125, 128, 153], "empti": [12, 34, 45, 100, 103, 106, 108, 143, 146, 153, 159], "gitmodul": 12, "pull": [12, 24, 26, 29, 55, 56, 58, 90, 98, 113, 118, 121, 122, 128, 131, 135], "request": [12, 24, 26, 30, 34, 35, 45, 55, 58, 74, 85, 90, 91, 95, 98, 100, 113, 121, 123, 128, 135, 146, 153, 159], "init": [12, 25, 28, 40, 46, 53, 56, 58, 138, 146], "leav": [12, 13, 16, 45, 59, 144, 159], "off": [12, 13, 45, 49, 52, 60, 68, 81, 88, 95, 112, 131, 144, 149, 159], "won": [12, 13, 67, 86, 159], "hurt": [12, 64], "maintain": [12, 28, 107, 123, 144, 157, 162], "flavor": [12, 21, 94], "demonstr": [12, 25, 90, 96], "agre": [12, 28, 40, 54, 135, 156, 159, 162], "seen": [12, 22, 32, 36, 37, 38, 49, 73, 98, 143, 148], "cloud": 13, "elast": [13, 72], "sign": [13, 24, 79, 128, 153], "account": [13, 24, 28, 56, 87, 96, 134], "750": 13, "free": [13, 52, 63, 72, 83, 87, 98, 102, 104], "micro": 13, "suffici": [13, 16, 20, 34, 45, 72, 73, 74, 110, 115, 131, 143, 146], "tier": 13, "inform": [13, 14, 22, 25, 32, 33, 35, 36, 37, 47, 48, 49, 50, 51, 59, 64, 74, 79, 80, 81, 85, 86, 91, 93, 95, 96, 97, 99, 100, 106, 108, 120, 123, 124, 126, 132, 133, 134, 135, 138, 141, 143, 144, 146, 153, 156, 157, 160, 161, 162, 163], "uw": [13, 24], "escienc": 13, "aw": 13, "tutori": [13, 29, 56, 81, 84, 88, 93, 102, 108, 111], "gear": 13, "faq": [13, 25, 78], "price": 13, "charg": 13, "per": [13, 30, 35, 45, 52, 60, 68, 73, 94, 144], "thereof": 13, "regardless": [13, 35, 40, 67, 112, 143], "cpu": [13, 53, 120, 123, 125, 156], "consol": [13, 95, 146], "tab": [13, 55, 133], "east": [13, 157], "cheaper": 13, "rate": 13, "menu": [13, 18, 25, 55, 60, 122, 131, 132, 133, 138, 161], "imag": [13, 36, 37, 40, 56, 60, 67, 113, 123, 137], "platform": [13, 52, 88, 96, 107, 113], "finish": [13, 79, 85], "load": [13, 60, 95, 97, 100, 106, 113, 159, 163], "databas": [13, 30, 72, 106, 110, 123, 157], "uwamath": 13, "bar": [13, 55, 153], "screen": [13, 28, 52, 60, 88, 95, 96, 120, 145, 147], "shapshot": 13, "machin": [13, 25, 73, 75, 113, 121, 141], "disk": [13, 45, 85, 94, 95, 113, 121], "ubuntu": 13, "linux": [13, 71, 82, 104, 113, 141], "popup": 13, "look": [13, 14, 22, 25, 28, 30, 40, 52, 55, 56, 60, 68, 79, 81, 86, 91, 96, 100, 101, 105, 106, 108, 113, 116, 123, 132, 137, 143, 144, 146, 156, 159, 160], "sort": [13, 40, 123, 142, 160], "larger": [13, 20, 32, 52, 60, 72, 73, 74, 79, 91, 115, 121, 128, 144, 146, 157], "cost": [13, 101], "continu": [13, 22, 28, 30, 50, 55, 83, 107, 135, 143, 165], "eventu": [13, 46, 126], "don": [13, 27, 28, 55, 56, 79, 95, 96, 102, 113, 145, 160], "pair": [13, 94, 113, 159], "secur": 13, "quick": [13, 25, 37, 46, 47, 57, 82, 113, 155], "close": [13, 40, 52, 55, 60, 67, 68, 94, 112, 126, 144, 153], "back": [13, 27, 29, 55, 56, 122], "statu": [13, 28, 51, 88, 105], "wait": 13, "until": [13, 32, 61, 67, 139], "refresh": [13, 45], "bottom": [13, 15, 30, 36, 37, 46, 49, 65, 67, 72, 85, 98, 99, 121, 122, 140, 151, 152], "scroll": 13, "down": [13, 30, 95, 120, 153, 157, 159], "dn": 13, "screenshot": [13, 52], "rjlkei": 13, "pem": 13, "abl": [13, 55, 108], "ssh": [13, 28], "keypair": 13, "50": [13, 17, 32, 52, 69, 101, 116, 145], "19": [13, 17, 24, 129, 130, 133, 156], "75": [13, 17, 89, 105, 137], "229": 13, "amazonaw": 13, "gfortran": [13, 59, 73, 82, 84, 104, 141, 160], "ipython": [13, 75, 79, 81, 86, 87, 93, 95, 102, 105, 108, 119, 120], "scipi": [13, 35, 86, 107, 153, 159], "netcdf": [13, 35, 42, 46, 120, 123, 125, 127, 153, 159, 161], "apach": 13, "server": [13, 29, 40, 52, 55, 56, 67, 123, 157, 161], "apt": [13, 82], "fetch": [13, 48], "bring": [13, 52, 55, 68, 146], "master": [13, 15, 25, 29, 55, 56, 59, 98, 109, 120, 121, 122, 123, 124, 125, 126, 127, 128, 129, 130, 131, 132, 133, 136, 140, 151, 152], "make_lib": 13, "compil": [13, 25, 36, 37, 41, 47, 59, 64, 73, 75, 81, 82, 86, 93, 94, 98, 102, 106, 115, 135, 136, 141], "bashrc": [13, 42, 104, 141], "Of": [13, 26, 72, 105, 110, 157], "cours": [13, 26, 32, 45, 47, 61, 72, 96, 97, 105, 107, 110, 146, 157], "tar": [13, 60, 125, 133], "instruct": [13, 18, 24, 25, 36, 37, 40, 52, 53, 55, 56, 85, 87, 93, 96, 102, 105, 108, 122, 129, 131, 132, 133, 134, 160], "window": [13, 30, 68, 81, 141], "respons": [13, 49, 85, 100], "pretti": 13, "slow": [13, 52, 95, 104], "_plot": [13, 36, 37, 45, 68, 81, 142, 148], "local": [13, 17, 20, 25, 28, 52, 55, 60, 63, 64, 68, 89, 91, 98, 103, 121, 123, 132, 139, 157, 159, 162], "sftp": 13, "much": [13, 28, 32, 34, 42, 52, 74, 75, 78, 82, 107, 112, 115, 119, 126, 131, 132, 137, 143, 146, 156, 159], "smaller": [13, 34, 52, 65, 75, 91, 95, 115, 131, 139, 143, 145, 146, 147, 159], "quicker": [13, 137], "browser": [13, 28, 29, 36, 37, 52, 55, 148], "explain": [13, 32, 49, 67, 128, 143, 148], "webserv": 13, "inbound": 13, "port": [13, 29, 92, 93, 98, 144], "22": [13, 24, 144, 159], "80": [13, 17, 52, 96, 137], "drop": [13, 55, 82, 126, 128, 139, 143], "tcp": 13, "Then": [13, 16, 28, 29, 30, 34, 45, 55, 56, 57, 64, 67, 72, 73, 81, 85, 88, 96, 102, 103, 104, 108, 135, 137, 159, 160], "someth": [13, 27, 28, 55, 63, 71, 78, 95, 100, 101, 108, 157, 160, 162], "shot": 13, "ln": 13, "expos": [13, 75], "home": [13, 29, 30, 59, 141], "scp": 13, "TO": [13, 62, 83], "send": [13, 24, 98, 135], "remot": [13, 52, 56, 123, 159, 161], "rel": [13, 20, 30, 41, 47, 49, 52, 72, 73, 79, 93, 106, 108, 113, 116, 117, 118, 119, 120, 121, 122, 123, 124, 125, 126, 127, 128, 129, 130, 131, 132, 138, 144, 146, 148, 157, 161], "end": [13, 29, 30, 32, 33, 34, 45, 48, 52, 56, 60, 88, 95, 99, 105, 107, 110, 112, 120, 121, 123, 134, 136, 137, 145, 147, 153, 156], "retriev": [13, 35, 48, 81, 86, 101, 159, 161], "sit": 13, "idl": 13, "action": [13, 14, 86], "restart": [13, 25, 45, 74, 81, 93, 120, 121, 122, 123, 125, 128, 132, 143, 145, 147], "later": [13, 34, 35, 40, 51, 52, 59, 81, 101, 134], "But": [13, 32, 40, 52, 69, 79, 104, 116, 123, 139, 141], "futur": [13, 22, 25, 26, 36, 37, 40, 49, 54, 60, 65, 85, 101, 107, 120, 121, 123, 126, 132, 144, 149, 153, 157], "job": [13, 130], "eb": 13, "runclaw": [14, 51, 116, 125, 127, 135], "autom": [14, 55, 86, 113], "certain": [14, 32, 46, 58, 67, 95, 112, 120, 137, 143], "keep": [14, 25, 28, 32, 33, 35, 36, 37, 73, 85, 88, 93, 103, 106, 113, 116], "log": [14, 25, 28, 29, 91, 92, 93, 100, 101], "came": 14, "rundir": [14, 88], "environ": [14, 25, 28, 36, 37, 38, 41, 51, 52, 55, 58, 59, 68, 71, 73, 75, 97, 104, 106, 108, 121, 159, 160], "noth": [15, 61, 103, 124, 140, 151, 152, 159, 162], "rememb": [15, 27, 73, 79, 96, 140, 151, 152], "b4step1": [15, 64, 162], "b4step2": [15, 140, 162], "b4step3": 15, "branch": [15, 18, 25, 29, 42, 51, 53, 56, 58, 59, 109, 113, 122, 123, 124, 125, 126, 127, 128, 129, 130, 131, 132, 133, 140, 151, 152], "tag": [15, 52, 56, 58, 109, 140, 144, 145, 151, 152], "bathymetri": [15, 46, 49, 52, 60, 99, 110, 121, 123, 136, 138, 140, 146, 157, 159], "area": [15, 22, 46, 101, 110, 121, 139, 140], "dy": [15, 48, 54, 60, 61, 74, 86, 91, 95, 119, 123, 140, 157, 159], "capac": [15, 99, 140, 143, 144, 145, 147], "length": [15, 30, 35, 49, 60, 72, 98, 103, 121, 128, 140, 143, 144, 145, 146, 162], "latter": [15, 45, 67, 69, 98, 126, 137, 140, 143, 153, 162], "quantiti": [15, 32, 35, 60, 68, 69, 88, 92, 93, 99, 103, 136, 140, 146], "coordinate_system": [15, 61, 140, 146], "impos": [16, 86, 112, 151, 152, 165], "chapter": [16, 135, 143, 162], "choic": [16, 46, 78, 101, 143, 145, 146, 147, 162], "bc_lower": [16, 85, 98, 105, 143, 145, 147], "bc_upper": [16, 85, 98, 105, 143, 145, 147], "extrap": [16, 98, 105, 143, 145], "outflow": [16, 143, 145, 147], "move": [16, 32, 36, 37, 46, 55, 59, 61, 72, 98, 112, 115, 117, 122, 146, 149, 157, 158], "normal": [16, 33, 34, 53, 55, 61, 79, 98, 108, 135, 136, 143, 144, 145, 146, 147], "fairli": [16, 49, 121], "good": [16, 28, 49, 52, 62, 73, 83, 105, 110, 113, 121, 128, 135], "outgo": 16, "let": [16, 46, 59, 83, 110, 122, 128, 135], "without": [16, 22, 33, 41, 45, 49, 60, 62, 63, 64, 67, 68, 79, 81, 83, 89, 93, 94, 95, 106, 108, 113, 132, 137, 141, 145, 147, 153, 160, 162], "particularli": [16, 27, 29, 32, 34, 51, 52, 57, 58, 59, 72, 74, 108, 116, 119, 123, 128, 132, 139, 157], "perfect": 16, "hit": [16, 34, 68, 74, 81, 95, 143], "obliqu": 16, "angl": [16, 30, 48, 72], "perfectli": 16, "wall": [16, 42, 98, 105, 120, 123, 125, 143, 145, 147, 156], "veloc": [16, 32, 34, 48, 61, 68, 81, 98, 99, 105, 121, 131, 138, 143, 144, 145, 146, 147, 162], "momentum": [16, 32, 34, 35, 49, 61, 65, 95, 128, 136, 146, 157], "third": [16, 32, 54, 89, 156, 159], "acoust": [16, 29, 36, 37, 49, 84, 85, 88, 90, 93, 101, 102, 119, 135, 145, 162], "p": [16, 17, 29, 81, 83, 85, 91, 94, 95, 99, 103, 135, 165], "hu": [16, 34, 35, 61, 65, 99, 136, 146], "hv": [16, 34, 35, 61, 65, 136, 146], "equal": [16, 30, 32, 33, 34, 35, 52, 69, 72, 74, 96, 98, 112, 134, 137, 143, 145, 147, 157, 159], "far": [16, 39, 43, 67, 78, 124, 126, 128, 131], "symmetri": 16, "physic": [16, 45, 52, 86, 91, 93, 105, 112, 165], "slightli": [16, 40, 54, 121, 122, 128, 137], "complic": [16, 79, 86, 137, 142], "alwai": [16, 22, 26, 27, 28, 32, 34, 35, 42, 54, 55, 59, 68, 85, 94, 111, 112, 115, 116, 128, 132, 139, 143, 145, 147, 157, 162], "alon": [16, 52], "topographi": [16, 17, 25, 32, 33, 34, 35, 45, 46, 49, 54, 60, 65, 69, 72, 80, 110, 111, 115, 116, 117, 119, 120, 123, 126, 129, 132, 137, 138, 139, 151, 152, 158], "artifici": [16, 139], "ignor": [16, 52, 60, 94, 119, 128, 138, 159], "incom": 16, "truncat": [16, 34, 74, 94, 143], "spuriou": [16, 32, 113], "extropl": 16, "dry": [16, 17, 25, 32, 46, 99, 126, 129, 136, 139], "land": [16, 40, 46, 47, 52, 55, 56, 60, 67, 69, 80, 126, 139, 146, 159], "tank": [16, 49], "bc2amr": [16, 123], "calhounhelzellevequ": 16, "envis": 16, "fold": 16, "piec": [16, 49, 91], "glu": 16, "inflat": 16, "websit": [16, 52, 55, 148, 159], "bergercalhounhelzellevequ": 16, "hint": [16, 25, 46, 78, 81, 108, 146, 160], "suppos": [16, 64, 67, 68, 79, 108, 112], "bit": [16, 22, 30, 56, 94, 96, 104, 136], "examin": [16, 36, 37, 45, 67, 108, 131], "own": [16, 20, 24, 28, 34, 59, 85, 86, 92, 93, 102, 103, 110, 112, 123, 135, 148], "todo": [16, 135, 153, 159, 165], "poster": 17, "resourc": [17, 24, 28, 47, 107], "bale": 17, "rossmanith": 17, "siam": [17, 24, 25, 93, 135], "sci": 17, "24": [17, 52, 69, 137], "2002": 17, "955": [17, 137], "978": 17, "author": [17, 25, 46, 49, 89, 93, 94, 99, 111], "1989": 17, "hydrodynam": 17, "phy": 17, "82": 17, "64": [17, 91, 94, 96, 104], "84": [17, 52], "34": [17, 52, 60, 93], "2011": [17, 24, 83], "pp": 17, "1195": 17, "1206": 17, "adv": 17, "awr11": 17, "1998": 17, "anal": 17, "35": [17, 32, 54, 72, 93], "2298": 17, "2316": 17, "1984": 17, "partial": [17, 75, 110], "differenti": [17, 30], "53": 17, "484": 17, "512": 17, "rigoutso": 17, "1991": 17, "ieee": 17, "tran": 17, "sy": [17, 40, 67, 88, 145, 147], "man": [17, 25, 46, 49, 146, 151, 152], "cyber": 17, "21": [17, 68, 89, 91, 119, 120, 133], "1278": 17, "1286": 17, "2018": [17, 24, 55, 123, 124, 133], "phd": 17, "thesi": [17, 101], "pure": [17, 53, 81, 91, 93, 94, 96, 101, 113, 136], "appl": 17, "geophi": 17, "173": 17, "4055": 17, "4074": 17, "info": [17, 29, 30, 33, 34, 35, 45, 56, 60, 68, 88, 91, 94, 95, 101, 121, 131, 144, 145, 153], "analysi": 17, "evalu": [17, 27, 30, 34, 35, 65, 69, 85, 91, 101, 159, 162], "preprint": 17, "2000": [17, 54, 157, 159], "165": [17, 156], "126": [17, 159], "166": 17, "leveque96": 17, "1996": 17, "advect": [17, 79, 93, 96, 135, 136, 147, 162], "incompress": 17, "leveque1996": 17, "33": [17, 91, 137], "627": 17, "665": 17, "1997": [17, 93], "multi": [17, 52, 85, 115, 117, 120, 123, 162], "131": [17, 93], "327": [17, 93], "353": [17, 93], "wpalg": 17, "cambridg": 17, "press": [17, 96, 102], "uk": [17, 30], "gallery_fvmbook": 17, "acta": 17, "numerica": 17, "211": 17, "289": 17, "dg": 17, "actanum2011": 17, "techniqu": [17, 26], "2013": [17, 24, 93], "a351": [17, 93], "a377": [17, 93], "manuel": [17, 83, 93], "quezada": [17, 83, 93], "luna": [17, 83, 93], "matthew": [17, 83, 93], "kneplei": [17, 83, 93], "emmett": [17, 83, 93], "2012": [17, 22, 24, 49, 93], "scalabl": [17, 93], "c210": [17, 93], "c231": [17, 93], "sisc": [17, 93], "month": [17, 52, 93], "nov": [17, 93], "mandlietal2016": 17, "calhellev08": 17, "helzel": 17, "circular": 17, "spheric": [17, 52], "review": [17, 89], "2008": [17, 83, 89, 99], "723": 17, "752": 17, "leveque09": 17, "reproduc": [17, 54, 62, 83], "engin": [17, 52], "cise": 17, "11": [17, 32, 79, 99, 127, 128, 133], "2009": [17, 89, 94, 99], "27": [17, 52, 60, 69, 137], "levyon03": 17, "darryl": 17, "yong": 17, "solitari": 17, "layer": 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[[17, "papers-describing-the-clawpack-software-and-algorithms"]], "Papers describing applications": [[17, "papers-describing-applications"]], "Other references": [[17, "other-references"]], "Changes to master since v5.9.1": [[18, "changes-to-master-since-v5-9-1"]], "Changes that are not backward compatible": [[18, "changes-that-are-not-backward-compatible"], [123, "changes-that-are-not-backward-compatible"], [124, "changes-that-are-not-backward-compatible"], [125, "changes-that-are-not-backward-compatible"], [126, "changes-that-are-not-backward-compatible"], [127, "changes-that-are-not-backward-compatible"], [128, "changes-that-are-not-backward-compatible"], [129, "changes-that-are-not-backward-compatible"], [130, "changes-that-are-not-backward-compatible"], [131, "changes-that-are-not-backward-compatible"]], "General changes": [[18, "general-changes"], [123, "general-changes"], [124, "general-changes"], [125, "general-changes"], [126, "general-changes"], [127, "general-changes"], [128, "general-changes"], [129, "general-changes"], [130, "general-changes"], [131, "general-changes"]], "Changes to classic": [[18, "changes-to-classic"], [115, "changes-to-classic"], [116, "changes-to-classic"], [117, "changes-to-classic"], [118, "changes-to-classic"], [119, "changes-to-classic"], [120, "changes-to-classic"], [121, "changes-to-classic"], [122, "changes-to-classic"], [123, "changes-to-classic"], [124, "changes-to-classic"], [125, "changes-to-classic"], [126, "changes-to-classic"], [127, "changes-to-classic"], [128, "changes-to-classic"], [129, "changes-to-classic"], [130, "changes-to-classic"], [131, "changes-to-classic"], [132, "changes-to-classic"]], "Changes to clawutil": [[18, "changes-to-clawutil"], [115, "changes-to-clawutil"], [116, "changes-to-clawutil"], [117, "changes-to-clawutil"], [118, "changes-to-clawutil"], [119, "changes-to-clawutil"], [120, "changes-to-clawutil"], [121, "changes-to-clawutil"], [122, "changes-to-clawutil"], [123, "changes-to-clawutil"], [124, "changes-to-clawutil"], [125, "changes-to-clawutil"], [126, "changes-to-clawutil"], [127, "changes-to-clawutil"], [128, "changes-to-clawutil"], [129, "changes-to-clawutil"], [130, "changes-to-clawutil"], [131, "changes-to-clawutil"], [132, "changes-to-clawutil"]], "Changes to visclaw": [[18, "changes-to-visclaw"], [115, "changes-to-visclaw"], [116, "changes-to-visclaw"], [117, "changes-to-visclaw"], [118, "changes-to-visclaw"], [119, "changes-to-visclaw"], [120, "changes-to-visclaw"], [121, "changes-to-visclaw"], [122, "changes-to-visclaw"], [123, "changes-to-visclaw"], [124, "changes-to-visclaw"], [125, "changes-to-visclaw"], [126, "changes-to-visclaw"], [127, "changes-to-visclaw"], [128, "changes-to-visclaw"], [129, "changes-to-visclaw"], [130, "changes-to-visclaw"], [131, "changes-to-visclaw"], [132, "changes-to-visclaw"]], "Changes to riemann": [[18, "changes-to-riemann"], [115, "changes-to-riemann"], [116, "changes-to-riemann"], [117, "changes-to-riemann"], [118, "changes-to-riemann"], [119, "changes-to-riemann"], [120, "changes-to-riemann"], [121, "changes-to-riemann"], [122, "changes-to-riemann"], [123, "changes-to-riemann"], [124, "changes-to-riemann"], [125, "changes-to-riemann"], [126, "changes-to-riemann"], [127, "changes-to-riemann"], [128, "changes-to-riemann"], [129, "changes-to-riemann"], [130, "changes-to-riemann"], [131, "changes-to-riemann"], [132, "changes-to-riemann"]], "Changes to amrclaw": [[18, "changes-to-amrclaw"], [115, "changes-to-amrclaw"], [116, "changes-to-amrclaw"], [117, "changes-to-amrclaw"], [118, "changes-to-amrclaw"], [119, "changes-to-amrclaw"], [120, "changes-to-amrclaw"], [121, "changes-to-amrclaw"], [122, "changes-to-amrclaw"], [123, "changes-to-amrclaw"], [124, "changes-to-amrclaw"], [125, "changes-to-amrclaw"], [126, "changes-to-amrclaw"], [127, "changes-to-amrclaw"], [128, "changes-to-amrclaw"], [129, "changes-to-amrclaw"], [130, "changes-to-amrclaw"], [131, "changes-to-amrclaw"], [132, "changes-to-amrclaw"]], "Changes to geoclaw": [[18, "changes-to-geoclaw"], [115, "changes-to-geoclaw"], [116, "changes-to-geoclaw"], [117, "changes-to-geoclaw"], [118, "changes-to-geoclaw"], [119, "changes-to-geoclaw"], [120, "changes-to-geoclaw"], [121, "changes-to-geoclaw"], [122, "changes-to-geoclaw"], [123, "changes-to-geoclaw"], [124, "changes-to-geoclaw"], [125, "changes-to-geoclaw"], [126, "changes-to-geoclaw"], [127, "changes-to-geoclaw"], [128, "changes-to-geoclaw"], [129, "changes-to-geoclaw"], [130, "changes-to-geoclaw"], [131, "changes-to-geoclaw"], [132, "changes-to-geoclaw"]], "Changes to PyClaw": [[18, "changes-to-pyclaw"], [114, "changes-to-pyclaw"], [115, "changes-to-pyclaw"], [116, "changes-to-pyclaw"], [117, "changes-to-pyclaw"], [118, "changes-to-pyclaw"], [119, "changes-to-pyclaw"], [120, "changes-to-pyclaw"], [121, "changes-to-pyclaw"], [122, "changes-to-pyclaw"], [123, "changes-to-pyclaw"], [124, "changes-to-pyclaw"], [125, "changes-to-pyclaw"], [126, "changes-to-pyclaw"], [127, "changes-to-pyclaw"], [128, "changes-to-pyclaw"], [129, "changes-to-pyclaw"], [130, "changes-to-pyclaw"], [131, "changes-to-pyclaw"], [132, "changes-to-pyclaw"]], "Other Clawpack Repositories": [[18, "other-clawpack-repositories"], [122, "other-clawpack-repositories"], [123, "other-clawpack-repositories"], [124, "other-clawpack-repositories"], [125, "other-clawpack-repositories"], [126, "other-clawpack-repositories"], [127, "other-clawpack-repositories"], [128, "other-clawpack-repositories"], [129, "other-clawpack-repositories"], [130, "other-clawpack-repositories"], [131, "other-clawpack-repositories"], [132, "other-clawpack-repositories"]], "Converting from Clawpack 4.3 to 4.6": [[19, "converting-from-clawpack-4-3-to-4-6"]], "Converting from Clawpack 4.6 to 5.0": [[20, "converting-from-clawpack-4-6-to-5-0"]], "Python conversion tool": [[20, "python-conversion-tool"]], "Clawpack 4.x links": [[21, "clawpack-4-x-links"]], "Changes in Clawpack 5.0": [[22, "changes-in-clawpack-5-0"]], "PyClaw in 5.0": [[22, "pyclaw-in-5-0"]], "Fortran package changes": [[22, "fortran-package-changes"]], "Changes to input parameters in setrun.py from 4.x to 5.0": [[22, "changes-to-input-parameters-in-setrun-py-from-4-x-to-5-0"]], "Changes to general parameters": [[22, "changes-to-general-parameters"]], "Changes to AMR parameters": [[22, "changes-to-amr-parameters"]], "Changes to GeoClaw parameters": [[22, "changes-to-geoclaw-parameters"]], "Changes to plotting routines": [[22, "changes-to-plotting-routines"]], "Clawpack components": [[23, "clawpack-components"]], "Other repositories": [[23, "other-repositories"]], "Clawpack Community": [[24, "clawpack-community"]], "User Workshops, Clinics, and Tutorials": [[24, "user-workshops-clinics-and-tutorials"]], "Available for streaming": [[24, "available-for-streaming"]], "Upcoming": [[24, "upcoming"], [24, "id1"]], "Recent": [[24, "recent"]], "Developer Workshops and Sprint Sessions": [[24, "developer-workshops-and-sprint-sessions"]], "Previous": [[24, "previous"]], "Other Clawpack events": [[24, "other-clawpack-events"]], "Contents": [[25, "id1"], [28, "contents"], [40, "contents"], [67, "contents"], [79, "contents"], [85, "contents"], [95, "contents"], [101, "contents"], [113, "contents"], [137, "contents"]], "Full Table of Contents": [[25, "full-table-of-contents"]], "Overview and Getting Started": [[25, "overview-and-getting-started"]], "Examples and Applications": [[25, "examples-and-applications"]], "Classic, AMRClaw, and GeoClaw": [[25, "classic-amrclaw-and-geoclaw"]], "Using the Fortran codes": [[25, "using-the-fortran-codes"]], "AMRClaw: adaptive mesh refinement": [[25, "amrclaw-adaptive-mesh-refinement"]], "GeoClaw: geophysical flows": [[25, "geoclaw-geophysical-flows"]], "PyClaw": [[25, "pyclaw"], [36, "pyclaw"], [93, "pyclaw"], [113, "pyclaw"], [155, "pyclaw"]], "Riemann": [[25, "riemann"]], "VisClaw: Plotting and Visualization Tools": [[25, "visclaw-plotting-and-visualization-tools"]], "Migrating applications from older versions of Clawpack": [[25, "migrating-applications-from-older-versions-of-clawpack"]], "Developers\u2019 resources": [[25, "developers-resources"]], "References": [[25, "references"], [53, "references"]], "Contributing examples and applications": [[26, "contributing-examples-and-applications"]], "current_data": [[27, "current-data"]], "Attributes of current_data:": [[27, "attributes-of-current-data"]], "Developers\u2019 Guide": [[28, "developers-guide"]], "Guidelines for contributing": [[28, "guidelines-for-contributing"]], "Reporting and fixing bugs": [[28, "reporting-and-fixing-bugs"]], "Developer communication": [[28, "developer-communication"]], "Installation instructions for developers": [[28, "installation-instructions-for-developers"]], "Cloning the most recent code from Github": [[28, "cloning-the-most-recent-code-from-github"]], "Checking out the master branch on each repository": [[28, "checking-out-the-master-branch-on-each-repository"]], "Updating to the latest master branch": [[28, "updating-to-the-latest-master-branch"]], "Never commit to master": [[28, "never-commit-to-master"]], "Adding your fork as a remote": [[28, "adding-your-fork-as-a-remote"]], "Modifying code": [[28, "modifying-code"]], "Issuing a pull request": [[28, "issuing-a-pull-request"]], "Testing a pull request": [[28, "testing-a-pull-request"]], "Top-level pull requests": [[28, "top-level-pull-requests"]], "Git workflow": [[28, "git-workflow"]], "Catching errors with Pyflakes and Pylint": [[28, "catching-errors-with-pyflakes-and-pylint"]], "Checking test coverage": [[28, "checking-test-coverage"]], "Trouble-Shooting Tips": [[28, "trouble-shooting-tips"]], "Docker for Clawpack": [[29, "docker-for-clawpack"]], "Using Version 5.9.0 or above": [[29, "using-version-5-9-0-or-above"]], "Getting started": [[29, "getting-started"]], "Stopping a container": [[29, "stopping-a-container"]], "Restarting a container": [[29, "restarting-a-container"]], "Running Jupyter notebooks": [[29, "running-jupyter-notebooks"]], "Moving files between the docker container and the host machine": [[29, "moving-files-between-the-docker-container-and-the-host-machine"]], "Some other useful docker commands": [[29, "some-other-useful-docker-commands"]], "Creating your own docker image": [[29, "creating-your-own-docker-image"]], "Dockerfiles for binder": [[29, "dockerfiles-for-binder"]], "dtopotools module for moving topography": [[30, "dtopotools-module-for-moving-topography"]], "Documentation auto-generated from the module docstrings": [[30, "module-clawpack.geoclaw.dtopotools"], [33, "module-clawpack.geoclaw.fgmax_tools"], [35, "module-clawpack.geoclaw.fgout_tools"], [48, "module-clawpack.geoclaw.util"], [60, "module-clawpack.geoclaw.kmltools"], [159, "module-clawpack.geoclaw.topotools"]], "Fortran 77 vs. Fortran 90 files": [[31, "fortran-77-vs-fortran-90-files"]], "Fixed grid monitoring": [[32, "fixed-grid-monitoring"]], "Input file specification": [[32, "input-file-specification"], [34, "input-file-specification"]], "Different point styles": [[32, "different-point-styles"]], "Other attributes": [[32, "other-attributes"]], "Values to monitor": [[32, "values-to-monitor"]], "Choice of interpolation procedure": [[32, "choice-of-interpolation-procedure"], [34, "choice-of-interpolation-procedure"]], "A simple example": [[32, "a-simple-example"], [34, "a-simple-example"]], "Processing and plotting fgmax output": [[32, "processing-and-plotting-fgmax-output"]], "Format of the output files": [[32, "format-of-the-output-files"]], "fgmax_tools module for working with fgmax grids": [[33, "fgmax-tools-module-for-working-with-fgmax-grids"]], "Fixed grid output": [[34, "fixed-grid-output"], [146, "fixed-grid-output"]], "Format of fgout output": [[34, "format-of-fgout-output"]], "Using setplot.py to produce plots": [[34, "using-setplot-py-to-produce-plots"]], "Reading and plotting fgout arrays directly": [[34, "reading-and-plotting-fgout-arrays-directly"]], "fgout grid registration": [[34, "fgout-grid-registration"]], "fgout_tools module for working with fgout grids": [[35, "fgout-tools-module-for-working-with-fgout-grids"]], "Running an example": [[36, "running-an-example"], [37, "running-an-example"], [38, "running-an-example"]], "Classic": [[36, "classic"], [37, "classic"], [155, "classic"]], "Testing your Fortran installation and running an example": [[37, "testing-your-fortran-installation-and-running-an-example"]], "More examples": [[37, "more-examples"]], "Testing a PyClaw installation and running an example": [[38, "testing-a-pyclaw-installation-and-running-an-example"]], "From the Jupyter notebook": [[38, "from-the-jupyter-notebook"]], "From the IPython interpreter": [[38, "from-the-ipython-interpreter"]], "From the command line": [[38, "from-the-command-line"], [90, "from-the-command-line"]], "Specifying flagregions for adaptive refinement": [[39, "specifying-flagregions-for-adaptive-refinement"]], "Using ruled rectangles as flagregions": [[39, "using-ruled-rectangles-as-flagregions"]], "Force Cells to be Dry Initially": [[40, "force-cells-to-be-dry-initially"]], "Examples": [[40, "examples"], [45, "examples"], [67, "examples"], [93, "examples"], [137, "examples"]], "Sample topography from a 1/3 arcsecond DEM": [[40, "sample-topography-from-a-1-3-arcsecond-dem"], [67, "sample-topography-from-a-1-3-arcsecond-dem"]], "Creating the force_dry_init array": [[40, "creating-the-force-dry-init-array"]], "Create file to read into GeoClaw": [[40, "create-file-to-read-into-geoclaw"]], "Usage in GeoClaw Fortran code": [[40, "usage-in-geoclaw-fortran-code"]], "Internal GeoClaw modifications": [[40, "internal-geoclaw-modifications"]], "Fortran version": [[41, "fortran-version"]], "Makefiles": [[41, "makefiles"]], "More tips": [[41, "more-tips"]], "Fortran Compilers": [[42, "fortran-compilers"]], "FC environment variable": [[42, "fc-environment-variable"]], "FFLAGS environment variable": [[42, "fflags-environment-variable"]], "LFLAGS environment variable": [[42, "lflags-environment-variable"]], "Pre-Processor and the PPFLAGS environment variable": [[42, "pre-processor-and-the-ppflags-environment-variable"]], "gfortran compiler": [[42, "gfortran-compiler"]], "Intel fortran compiler": [[42, "intel-fortran-compiler"]], "Examples from the book FVMHP": [[43, "examples-from-the-book-fvmhp"]], "Available examples": [[43, "available-examples"]], "Clawpack Gallery": [[44, "clawpack-gallery"]], "Gauges": [[45, "gauges"]], "Gauge parameters in setrun": [[45, "gauge-parameters-in-setrun"]], "Plotting tools": [[45, "plotting-tools"]], "Plotting gauge locations": [[45, "plotting-gauge-locations"]], "GeoClaw Description and Detailed Contents": [[46, "geoclaw-description-and-detailed-contents"]], "Getting started with GeoClaw": [[47, "getting-started-with-geoclaw"]], "Running a GeoClaw code": [[47, "running-a-geoclaw-code"]], "Topography": [[47, "topography"]], "Plotting GeoClaw results": [[47, "plotting-geoclaw-results"]], "Setting up a new example": [[47, "setting-up-a-new-example"]], "geoclaw.util module of utility functions": [[48, "geoclaw-util-module-of-utility-functions"]], "Cautionary Hints on using GeoClaw": [[49, "cautionary-hints-on-using-geoclaw"]], "Tsunami hazard modeling": [[49, "tsunami-hazard-modeling"]], "GeoClaw plotting tools": [[50, "geoclaw-plotting-tools"]], "Plotting water depth or surface elevation": [[50, "plotting-water-depth-or-surface-elevation"]], "Tips on latitude-longitude coordinate axes": [[50, "tips-on-latitude-longitude-coordinate-axes"]], "Keeping track of repository versions with Git": [[51, "keeping-track-of-repository-versions-with-git"]], "Visualizing GeoClaw results in Google Earth": [[52, "visualizing-geoclaw-results-in-google-earth"]], "Basic requirements": [[52, "basic-requirements"]], "Optional GDAL library": [[52, "optional-gdal-library"]], "An example : The Chile 2010 tsunami event": [[52, "an-example-the-chile-2010-tsunami-event"]], "Plotting attributes needed for Google Earth": [[52, "plotting-attributes-needed-for-google-earth"]], "plotdata attributes": [[52, "plotdata-attributes"]], "plotfigure attributes": [[52, "plotfigure-attributes"]], "Creating the figures": [[52, "creating-the-figures"]], "plotaxes attributes": [[52, "plotaxes-attributes"]], "plotitem attributes": [[52, "plotitem-attributes"]], "Adding a colorbar overlay": [[52, "adding-a-colorbar-overlay"]], "Gauge plots": [[52, "gauge-plots"]], "Additional plotdata attributes": [[52, "additional-plotdata-attributes"]], "Plotting tips": [[52, "plotting-tips"]], "KML and KMZ files": [[52, "kml-and-kmz-files"]], "Tiling images for faster loading": [[52, "tiling-images-for-faster-loading"]], "Removing aliasing artifacts": [[52, "removing-aliasing-artifacts"]], "Creating multiple figures at different resolutions": [[52, "creating-multiple-figures-at-different-resolutions"]], "Mapping topography data to latitude/longitude coordinates": [[52, "mapping-topography-data-to-latitude-longitude-coordinates"]], "Publishing your results": [[52, "id1"]], "Using the GPU version of Clawpack": [[53, "using-the-gpu-version-of-clawpack"]], "Grid registration": [[54, "grid-registration"]], "NetCDF files": [[54, "netcdf-files"]], "Guide for updating this documentation": [[55, "guide-for-updating-this-documentation"]], "Git branches and tags": [[55, "git-branches-and-tags"]], "Configuration and style files": [[55, "configuration-and-style-files"]], "Updating the docs for a new release": [[55, "updating-the-docs-for-a-new-release"]], "To generate docs including previous versions": [[55, "to-generate-docs-including-previous-versions"]], "Updating for a new major version": [[55, "updating-for-a-new-major-version"]], "Updating the gallery": [[55, "updating-the-gallery"]], "Updating the webpages": [[55, "updating-the-webpages"]], "Extra files for webpages not built by Sphinx": [[55, "extra-files-for-webpages-not-built-by-sphinx"]], "Pages from other clawpack repositories": [[55, "pages-from-other-clawpack-repositories"]], "Guide for doing a Clawpack release": [[56, "guide-for-doing-a-clawpack-release"]], "Preparation": [[56, "preparation"]], "Version numbers": [[56, "version-numbers"]], "Release candidates": [[56, "release-candidates"]], "Create a tar file and a Github release": [[56, "create-a-tar-file-and-a-github-release"]], "Final release": [[56, "final-release"]], "Pypi": [[56, "pypi"]], "Zenodo": [[56, "zenodo"]], "Open Science Framework (OSF)": [[56, "open-science-framework-osf"]], "Updating the documentation": [[56, "updating-the-documentation"]], "Updating the apps repository": [[56, "updating-the-apps-repository"]], "Updating the Dockerfile": [[56, "updating-the-dockerfile"]], "Installing Clawpack": [[57, "installing-clawpack"]], "Next steps:": [[57, "next-steps"], [58, "next-steps"], [59, "next-steps"]], "Options for installing Clawpack Fortran codes": [[58, "options-for-installing-clawpack-fortran-codes"]], "tar file": [[58, "tar-file"]], "git clone": [[58, "git-clone"]], "pip install instructions": [[59, "pip-install-instructions"]], "Quick Installation of PyClaw with pip": [[59, "quick-installation-of-pyclaw-with-pip"]], "Quick Installation of all packages with pip": [[59, "quick-installation-of-all-packages-with-pip"]], "Using pip to install a different version": [[59, "using-pip-to-install-a-different-version"]], "Experimenting with code in the examples directories": [[59, "experimenting-with-code-in-the-examples-directories"]], "Troubleshooting pip install": [[59, "troubleshooting-pip-install"]], "kmltools module of utility functions": [[60, "kmltools-module-of-utility-functions"]], "Lagrangian gauges for particle tracking": [[61, "lagrangian-gauges-for-particle-tracking"]], "Specifying Lagrangian Gauges": [[61, "specifying-lagrangian-gauges"]], "Visclaw tools for plotting": [[61, "visclaw-tools-for-plotting"]], "An alternative using fgout grids": [[61, "an-alternative-using-fgout-grids"]], "Clawpack Makefiles": [[63, "clawpack-makefiles"]], "Applications directory Makefiles": [[63, "applications-directory-makefiles"]], "output": [[63, "output"]], "plots": [[63, "plots"]], "Variables": [[63, "variables"]], "Compiler flags": [[63, "compiler-flags"]], "Duplicate Base Source Name": [[63, "duplicate-base-source-name"]], "Library routines in Makefiles": [[64, "library-routines-in-makefiles"]], "Replacing files with the same name as library files": [[64, "replacing-files-with-the-same-name-as-library-files"]], "Using a modified library routine with a different name": [[64, "using-a-modified-library-routine-with-a-different-name"]], "Manning friction term": [[65, "manning-friction-term"]], "The mapc2p function": [[66, "the-mapc2p-function"]], "Marching Front algorithm": [[67, "marching-front-algorithm"]], "Function arguments": [[67, "function-arguments"]], "output array": [[67, "output-array"]], "creating a masked array": [[67, "creating-a-masked-array"]], "topofile mask for initializing dry points": [[67, "topofile-mask-for-initializing-dry-points"]], "fgmax points": [[67, "fgmax-points"]], "flag regions": [[67, "flag-regions"]], "The mask argument": [[67, "the-mask-argument"]], "The previous_pts_chosen argument": [[67, "the-previous-pts-chosen-argument"]], "Finding all points below a given elevation": [[67, "finding-all-points-below-a-given-elevation"]], "Create a buffer zone along shore": [[67, "create-a-buffer-zone-along-shore"]], "Choose points only near shore": [[67, "choose-points-only-near-shore"]], "Write out the masked array indicating fgmax points": [[67, "write-out-the-masked-array-indicating-fgmax-points"]], "Creating an AMR flag region": [[67, "creating-an-amr-flag-region"]], "Determining dry areas below MHW": [[67, "determining-dry-areas-below-mhw"]], "Plotting using Matlab": [[68, "plotting-using-matlab"]], "The Matlab search path": [[68, "the-matlab-search-path"]], "Creating output files": [[68, "creating-output-files"]], "The plotclaw command": [[68, "the-plotclaw-command"]], "The setplot file": [[68, "the-setplot-file"]], "The afterframe file": [[68, "the-afterframe-file"]], "Getting help": [[68, "getting-help"]], "Trouble shooting": [[68, "trouble-shooting"]], "Output files not found": [[68, "output-files-not-found"]], "MaxFrames not set": [[68, "maxframes-not-set"]], "Switching examples": [[68, "switching-examples"]], "Matlab Gallery": [[68, "matlab-gallery"]], "Nearshore interpolation": [[69, "nearshore-interpolation"]], "Using NetCDF output": [[70, "using-netcdf-output"]], "Creating a new application directory": [[71, "creating-a-new-application-directory"]], "Copying an existing example": [[71, "copying-an-existing-example"]], "Earthquake sources: Fault slip and the Okada model": [[72, "earthquake-sources-fault-slip-and-the-okada-model"]], "Fault slip on rectangular subfaults": [[72, "fault-slip-on-rectangular-subfaults"]], "Okada model": [[72, "okada-model"]], "Kinematic rupture": [[72, "kinematic-rupture"]], "Fault slip on triangular subfaults": [[72, "fault-slip-on-triangular-subfaults"]], "Using OpenMP": [[73, "using-openmp"]], "Using OpenMP with AMR": [[73, "using-openmp-with-amr"]], "Fixed grid output in GeoClaw": [[73, "fixed-grid-output-in-geoclaw"]], "Output data sytles and formats": [[74, "output-data-sytles-and-formats"]], "Output style": [[74, "output-style"]], "Output data formats": [[74, "output-data-formats"]], "ASCII output data format": [[74, "ascii-output-data-format"]], "fort.t0002": [[74, "fort-t0002"]], "fort.q0002": [[74, "fort-q0002"]], "Raw binary output data formats": [[74, "raw-binary-output-data-formats"]], "NetCDF output data format": [[74, "netcdf-output-data-format"]], "Output of aux arrays": [[74, "output-of-aux-arrays"]], "Which Clawpack solver should I use?": [[75, "which-clawpack-solver-should-i-use"]], "Installation and user interface": [[75, "installation-and-user-interface"]], "Algorithmic differences": [[75, "algorithmic-differences"]], "Parallel computing": [[75, "parallel-computing"]], "Clawpack Community Photos": [[76, "clawpack-community-photos"]], "2016 Developers\u2019 workshop at University of Washington": [[76, "id1"]], "2015 Developers\u2019 workshop at University of Utah": [[76, "id2"]], "2014 HPC3 workshop at KAUST": [[76, "id3"]], "2013 Claw-Dev workshop at UW": [[76, "id4"]], "2012 HPC3 workshop at KAUST": [[76, "id6"]], "2011 coding sprints at UW": [[76, "coding-sprints-at-uw"]], "2010 GeoClaw hacking UW": [[76, "geoclaw-hacking-uw"]], "Plotting examples": [[77, "plotting-examples"]], "Plotting with Visclaw": [[78, "plotting-with-visclaw"]], "Plotting as post-processing": [[78, "plotting-as-post-processing"]], "Plotting on the fly": [[78, "plotting-on-the-fly"]], "Plotting hints and FAQ": [[79, "plotting-hints-and-faq"]], "What\u2019s the difference between make .plots and make plots ?": [[79, "what-s-the-difference-between-make-plots-and-make-plots"]], "How to plot a something other than a component of q?": [[79, "how-to-plot-a-something-other-than-a-component-of-q"]], "How to add another curve to a plot, e.g. the true solution?": [[79, "how-to-add-another-curve-to-a-plot-e-g-the-true-solution"]], "How to change the title in a plot?": [[79, "how-to-change-the-title-in-a-plot"]], "How to specify outdir, the directory to find fort.* files for plotting?": [[79, "how-to-specify-outdir-the-directory-to-find-fort-files-for-plotting"]], "How to specify a different outdir for some plot item?": [[79, "how-to-specify-a-different-outdir-for-some-plot-item"]], "How to set plot parameters that are not provided as attributes of ClawPlotItem?": [[79, "how-to-set-plot-parameters-that-are-not-provided-as-attributes-of-clawplotitem"]], "How to change the size or background color of a figure?": [[79, "how-to-change-the-size-or-background-color-of-a-figure"]], "Specifying colormaps for pcolor or contourf plots": [[79, "specifying-colormaps-for-pcolor-or-contourf-plots"]], "How to debug setplot.py?": [[79, "how-to-debug-setplot-py"]], "Plotting routines for GeoClaw": [[80, "plotting-routines-for-geoclaw"]], "Plotting options in Python": [[81, "plotting-options-in-python"]], "Producing html plots from the command line": [[81, "producing-html-plots-from-the-command-line"]], "Producing a latex file with plots from the command line": [[81, "producing-a-latex-file-with-plots-from-the-command-line"]], "Setting plot parameters with a setplot function": [[81, "setting-plot-parameters-with-a-setplot-function"]], "Interactive plotting with Iplotclaw": [[81, "interactive-plotting-with-iplotclaw"]], "Access to current_data": [[81, "access-to-current-data"]], "printframes": [[81, "printframes"]], "Specifying what and how to plot": [[81, "specifying-what-and-how-to-plot"]], "Installation Prerequisites": [[82, "installation-prerequisites"]], "Operating system": [[82, "operating-system"]], "Fortran": [[82, "fortran"]], "Python": [[82, "python"]], "pip": [[82, "pip"]], "Git": [[82, "git"]], "About PyClaw": [[83, "about-pyclaw"]], "Contributors": [[83, "contributors"]], "PyClaw Basics": [[84, "pyclaw-basics"]], "Understanding Pyclaw Classes": [[85, "understanding-pyclaw-classes"]], "Flow of a Pyclaw Simulation": [[85, "flow-of-a-pyclaw-simulation"]], "Creation of a Pyclaw Solution": [[85, "creation-of-a-pyclaw-solution"]], "Creation of a Pyclaw Solver": [[85, "creation-of-a-pyclaw-solver"]], "Creating and Running a Simulation with Controller": [[85, "creating-and-running-a-simulation-with-controller"]], "Restarting a simulation": [[85, "restarting-a-simulation"]], "Outputting aux values": [[85, "outputting-aux-values"]], "Outputting derived quantities": [[85, "outputting-derived-quantities"], [95, "outputting-derived-quantities"]], "Porting a problem from Clawpack 4.6.x to PyClaw": [[86, "porting-a-problem-from-clawpack-4-6-x-to-pyclaw"]], "Running PyClaw in the cloud": [[87, "running-pyclaw-in-the-cloud"]], "Sage Math Cloud": [[87, "sage-math-cloud"]], "Pyclaw Controller Class": [[88, "pyclaw-controller-class"]], "pyclaw.controller.Controller": [[88, "pyclaw-controller-controller"]], "Pyclaw Limiters": [[89, "pyclaw-limiters"]], "clawpack.pyclaw.limiters.tvd": [[89, "module-clawpack.pyclaw.limiters.tvd"]], "CFL Independent Limiters": [[89, "cfl-independent-limiters"]], "CFL Dependent Limiters": [[89, "cfl-dependent-limiters"]], "Working with PyClaw\u2019s built-in examples": [[90, "working-with-pyclaw-s-built-in-examples"]], "Running and plotting examples": [[90, "running-and-plotting-examples"]], "Interactively in IPython": [[90, "interactively-in-ipython"]], "Built-in examples": [[90, "built-in-examples"]], "Adding new examples": [[90, "adding-new-examples"]], "PyClaw Geometry": [[91, "pyclaw-geometry"]], "Serial Geometry Objects": [[91, "serial-geometry-objects"]], "pyclaw.geometry.Domain": [[91, "pyclaw-geometry-domain"]], "pyclaw.geometry.Patch": [[91, "pyclaw-geometry-patch"]], "pyclaw.geometry.Grid": [[91, "pyclaw-geometry-grid"]], "pyclaw.geometry.Dimension": [[91, "pyclaw-geometry-dimension"]], "Parallel Geometry Objects": [[91, "parallel-geometry-objects"]], "petclaw.geometry.Domain": [[91, "petclaw-geometry-domain"]], "petclaw.geometry.Patch": [[91, "petclaw-geometry-patch"]], "Going Further": [[92, "going-further"]], "PyClaw installation": [[93, "pyclaw-installation"]], "Features": [[93, "features"]], "PyClaw Documentation": [[93, "pyclaw-documentation"]], "PyClaw Modules reference documentation": [[93, "pyclaw-modules-reference-documentation"]], "Riemann Solvers reference documentation": [[93, "riemann-solvers-reference-documentation"]], "Indices and tables": [[93, "indices-and-tables"]], "Citing PyClaw": [[93, "citing-pyclaw"]], "Pyclaw Input/Output Package": [[94, "pyclaw-input-output-package"]], "pyclaw.fileio.ascii": [[94, "module-clawpack.pyclaw.fileio.ascii"]], "pyclaw.fileio.binary": [[94, "module-clawpack.pyclaw.fileio.binary"]], "pyclaw.fileio.hdf5": [[94, "pyclaw-fileio-hdf5"]], "pyclaw.fileio.netcdf": [[94, "module-clawpack.pyclaw.fileio.netcdf"]], "PyClaw output": [[95, "pyclaw-output"]], "Output frames": [[95, "output-frames"]], "When output is saved/written": [[95, "when-output-is-saved-written"]], "Where and how output is written": [[95, "where-and-how-output-is-written"]], "What output is written": [[95, "what-output-is-written"]], "Outputting functionals": [[95, "outputting-functionals"]], "Using gauges": [[95, "using-gauges"]], "Logging": [[95, "logging"]], "Running in parallel": [[96, "running-in-parallel"]], "Installing PETSc": [[96, "installing-petsc"]], "Testing your installation": [[96, "testing-your-installation"], [155, "testing-your-installation"]], "Running and plotting an example": [[96, "running-and-plotting-an-example"]], "Tips for making your application run correctly in parallel": [[96, "tips-for-making-your-application-run-correctly-in-parallel"]], "Passing options to PETSc": [[96, "passing-options-to-petsc"]], "Plotting PyClaw results": [[97, "plotting-pyclaw-results"]], "Basics": [[97, "basics"]], "Plotting result from parallel runs": [[97, "plotting-result-from-parallel-runs"]], "Setting up your own problem": [[98, "setting-up-your-own-problem"]], "Writing the initialization script": [[98, "writing-the-initialization-script"]], "Setting initial conditions": [[98, "setting-initial-conditions"]], "Setting auxiliary variables": [[98, "setting-auxiliary-variables"]], "Setting boundary conditions": [[98, "setting-boundary-conditions"]], "Setting solver options": [[98, "setting-solver-options"]], "Using your own Riemann solver": [[98, "using-your-own-riemann-solver"]], "Adding source terms": [[98, "adding-source-terms"]], "Setting up the Makefile": [[98, "setting-up-the-makefile"]], "Riemann Solver Package": [[99, "riemann-solver-package"]], "Acoustics": [[99, "acoustics"]], "Advection": [[99, "advection"]], "Burgers Equation": [[99, "burgers-equation"]], "Euler Equations": [[99, "euler-equations"]], "Shallow Water Equations": [[99, "shallow-water-equations"]], "PyClaw Solutions": [[100, "pyclaw-solutions"]], "pyclaw.solution.Solution": [[100, "pyclaw-solution-solution"]], "Using PyClaw\u2019s solvers: Classic and SharpClaw": [[101, "using-pyclaw-s-solvers-classic-and-sharpclaw"]], "SharpClaw Solvers": [[101, "sharpclaw-solvers"]], "pyclaw.sharpclaw": [[101, "pyclaw-sharpclaw"]], "Pyclaw Classic Clawpack Solvers": [[101, "pyclaw-classic-clawpack-solvers"]], "pyclaw.classic.solver": [[101, "pyclaw-classic-solver"]], "Change to Custom BC Function Signatures": [[101, "change-to-custom-bc-function-signatures"]], "Installing PyClaw": [[102, "installing-pyclaw"]], "Dependencies: Python, gfortran, numpy, and matplotlib": [[102, "dependencies-python-gfortran-numpy-and-matplotlib"]], "Obtaining Python, numpy, and matplotlib": [[102, "obtaining-python-numpy-and-matplotlib"]], "Clawpack": [[102, "clawpack"]], "Testing your installation with nose": [[102, "testing-your-installation-with-nose"]], "Next steps": [[102, "next-steps"]], "PyClaw State": [[103, "pyclaw-state"]], "Serial pyclaw.state.State": [[103, "serial-pyclaw-state-state"]], "Parallel petclaw.state.State": [[103, "parallel-petclaw-state-state"]], "Troubleshooting": [[104, "troubleshooting"], [160, "troubleshooting"]], "Compilation errors": [[104, "compilation-errors"]], "Use Fortran-ordered arrays": [[104, "use-fortran-ordered-arrays"]], "Installation": [[104, "installation"]], "PyClaw tutorial: Solve the acoustics equations": [[105, "pyclaw-tutorial-solve-the-acoustics-equations"]], "The Solver": [[105, "the-solver"]], "The domain": [[105, "the-domain"]], "Initial condition": [[105, "initial-condition"]], "Problem-specific parameters": [[105, "problem-specific-parameters"]], "The controller": [[105, "the-controller"]], "Pyclaw Utility Module": [[106, "pyclaw-utility-module"]], "pyclaw.util": [[106, "module-clawpack.pyclaw.util"]], "Python Hints": [[107, "python-hints"]], "Dropping support for Python 2.7": [[107, "dropping-support-for-python-2-7"]], "References and tutorials": [[107, "references-and-tutorials"]], "Notebooks": [[107, "notebooks"]], "Python path": [[108, "python-path"]], "whichclaw.py": [[108, "whichclaw-py"]], "Which version was imported?": [[108, "which-version-was-imported"]], "sys.path": [[108, "sys-path"]], "easy-install.pth": [[108, "easy-install-pth"]], "PYTHONPATH": [[108, "pythonpath"], [141, "pythonpath"]], "qinit default routines": [[109, "qinit-default-routines"]], "qinit routine in GeoClaw": [[109, "qinit-routine-in-geoclaw"]], "Quick start guide for storm surge modeling": [[110, "quick-start-guide-for-storm-surge-modeling"]], "Quick start guide for tsunami modeling": [[111, "quick-start-guide-for-tsunami-modeling"]], "AMR refinement criteria": [[112, "amr-refinement-criteria"]], "Flagging criteria": [[112, "flagging-criteria"]], "flag2refine": [[112, "flag2refine"]], "Richardson extrapolation": [[112, "richardson-extrapolation"]], "Specifying AMR regions": [[112, "specifying-amr-regions"]], "Implementation": [[112, "implementation"]], "Flagging criteria in GeoClaw": [[112, "flagging-criteria-in-geoclaw"]], "Regression testing": [[113, "regression-testing"]], "Running the tests": [[113, "running-the-tests"], [113, "id2"]], "Fortran codes": [[113, "fortran-codes"]], "Travis continuous integration": [[113, "travis-continuous-integration"]], "Diff tools for checking test output": [[113, "diff-tools-for-checking-test-output"]], "chardiff tool for line-by-line comparison of output files": [[113, "chardiff-tool-for-line-by-line-comparison-of-output-files"]], "imagediff tool for pixel comparison of plots": [[113, "imagediff-tool-for-pixel-comparison-of-plots"]], "Running and writing tests in PyClaw": [[113, "running-and-writing-tests-in-pyclaw"]], "Running serial tests simultaneously": [[113, "running-serial-tests-simultaneously"]], "Running a specific test": [[113, "running-a-specific-test"]], "Doctests": [[113, "doctests"]], "Writing New Tests": [[113, "writing-new-tests"]], "v5.0.0 release notes": [[114, "v5-0-0-release-notes"]], "Changes to classic, riemann, amrclaw, geoclaw, visclaw": [[114, "changes-to-classic-riemann-amrclaw-geoclaw-visclaw"]], "v5.1.0 release notes": [[115, "v5-1-0-release-notes"]], "v5.2.0 release notes": [[116, "v5-2-0-release-notes"]], "v5.2.1 release notes": [[117, "v5-2-1-release-notes"]], "v5.2.2 release notes": [[118, "v5-2-2-release-notes"]], "v5.3.0 release notes": [[119, "v5-3-0-release-notes"]], "v5.3.1 release notes": [[120, "v5-3-1-release-notes"]], "v5.4.0 release notes": [[121, "v5-4-0-release-notes"]], "Global changes": [[121, "global-changes"]], "v5.4.1 release notes": [[122, "v5-4-1-release-notes"]], "Changes to documentation": [[122, "changes-to-documentation"], [123, "changes-to-documentation"]], "v5.5.0 release notes": [[123, "v5-5-0-release-notes"]], "v5.6.0 release notes": [[124, "v5-6-0-release-notes"]], "v5.6.1 release notes": [[125, "v5-6-1-release-notes"]], "v5.7.0 release notes": [[126, "v5-7-0-release-notes"]], "Python support": [[126, "python-support"]], "v5.7.1 release notes": [[127, "v5-7-1-release-notes"]], "v5.8.0 release notes": [[128, "v5-8-0-release-notes"]], "v5.8.1 release notes": [[129, "v5-8-1-release-notes"]], "v5.8.2 release notes": [[130, "v5-8-2-release-notes"]], "v5.9.0 release notes": [[131, "v5-9-0-release-notes"]], "v5.9.1 release notes": [[132, "v5-9-1-release-notes"]], "Releases of Clawpack and release notes": [[133, "releases-of-clawpack-and-release-notes"]], "Other notes:": [[133, "other-notes"]], "Releases:": [[133, "id1"]], "Clawpack 4.x": [[133, "clawpack-4-x"]], "Checkpointing and restarting": [[134, "checkpointing-and-restarting"]], "Checkpointing a computation": [[134, "checkpointing-a-computation"]], "Restarting a computation": [[134, "restarting-a-computation"]], "Modifying the Makefile for a restart": [[134, "modifying-the-makefile-for-a-restart"]], "Output files after a restart": [[134, "output-files-after-a-restart"]], "Riemann solvers": [[135, "riemann-solvers"]], "One-dimensional Riemann solver": [[135, "one-dimensional-riemann-solver"]], "Pointwise Riemann solvers": [[135, "pointwise-riemann-solvers"]], "f-wave Riemann solvers": [[135, "f-wave-riemann-solvers"]], "2D Riemann solvers": [[135, "d-riemann-solvers"]], "Using a custom solver": [[135, "using-a-custom-solver"]], "Adding a solver to the Riemann repository": [[135, "adding-a-solver-to-the-riemann-repository"]], "Shallow water Riemann solvers in Clawpack": [[136, "shallow-water-riemann-solvers-in-clawpack"]], "One dimension": [[136, "one-dimension"]], "Two dimensions": [[136, "two-dimensions"]], "Layered shallow water equations": [[136, "layered-shallow-water-equations"]], "Potentially useful contributions (what\u2019s missing)": [[136, "potentially-useful-contributions-whats-missing"]], "Demonstrations": [[136, "demonstrations"]], "Roe": [[136, "roe"]], "HLL": [[136, "hll"]], "Ruled Rectangles": [[137, "ruled-rectangles"]], "Relation to convex polygons": [[137, "relation-to-convex-polygons"]], "Other attributes and methods": [[137, "other-attributes-and-methods"]], "ds": [[137, "ds"]], "slu": [[137, "slu"]], "bounding_box": [[137, "bounding-box"]], "mask_outside": [[137, "mask-outside"]], "read and write, and instantiating from a file": [[137, "read-and-write-and-instantiating-from-a-file"]], "make_kml": [[137, "make-kml"]], "A GeoClaw AMR flag region": [[137, "a-geoclaw-amr-flag-region"]], "A simple rectangle": [[137, "a-simple-rectangle"]], "Defining a Ruled Rectangle covering selected cells": [[137, "defining-a-ruled-rectangle-covering-selected-cells"]], "Example covering the continental shelf": [[137, "example-covering-the-continental-shelf"]], "Setting sea_level": [[138, "setting-sea-level"]], "Set Eta Init \u2013 spatially varying initial surface elevation": [[139, "set-eta-init-spatially-varying-initial-surface-elevation"]], "Default behavior, adjusting sea level by seismic deformation": [[139, "default-behavior-adjusting-sea-level-by-seismic-deformation"]], "Other use cases": [[139, "other-use-cases"]], "setaux default routines": [[140, "setaux-default-routines"]], "setaux routine in GeoClaw": [[140, "setaux-routine-in-geoclaw"]], "Set environment variables": [[141, "set-environment-variables"]], "CLAW": [[141, "claw"]], "FC": [[141, "fc"]], "Using setplot.py to specify the desired plots": [[142, "using-setplot-py-to-specify-the-desired-plots"]], "Plotting Data Objects": [[142, "plotting-data-objects"]], "Overview": [[142, "overview"]], "Specifying classic run-time parameters in setrun.py": [[143, "specifying-classic-run-time-parameters-in-setrun-py"]], "Input": [[143, "input"], [144, "input"]], "Output": [[143, "output"], [144, "output"]], "Run-time parameters": [[143, "run-time-parameters"], [144, "run-time-parameters"]], "Specifying AMRClaw run-time parameters in setrun.py": [[144, "specifying-amrclaw-run-time-parameters-in-setrun-py"]], "Special AMR parameters": [[144, "special-amr-parameters"]], "Debugging flags for additional printing": [[144, "debugging-flags-for-additional-printing"]], "Sample setrun.py module for AMRClaw": [[145, "sample-setrun-py-module-for-amrclaw"]], "Specifying GeoClaw parameters in setrun.py": [[146, "specifying-geoclaw-parameters-in-setrun-py"]], "Additional AMR parameters": [[146, "additional-amr-parameters"]], "General geo parameters": [[146, "general-geo-parameters"]], "Topography data file parameters": [[146, "topography-data-file-parameters"]], "qinit data file parameters": [[146, "qinit-data-file-parameters"]], "Force some cells to be initially dry": [[146, "force-some-cells-to-be-initially-dry"]], "Adjust sea level in some regions": [[146, "adjust-sea-level-in-some-regions"]], "AMR refinement region parameters": [[146, "amr-refinement-region-parameters"]], "Deprecated Fixedgrid output parameters": [[146, "deprecated-fixedgrid-output-parameters"]], "Fixed grid maximum monitoring / arrival times": [[146, "fixed-grid-maximum-monitoring-arrival-times"]], "Storm Specification Data": [[146, "storm-specification-data"]], "Sample setrun.py module for classic Clawpack": [[147, "sample-setrun-py-module-for-classic-clawpack"]], "Saving and sharing results": [[148, "saving-and-sharing-results"]], "Making webpages of plots": [[148, "making-webpages-of-plots"]], "Sharing your results": [[148, "sharing-your-results"]], "Jupyter notebooks": [[148, "jupyter-notebooks"]], "Source terms for shallow water on the sphere": [[149, "source-terms-for-shallow-water-on-the-sphere"]], "Compiling the Sphinx documentation locally": [[150, "compiling-the-sphinx-documentation-locally"]], "src1d default routines": [[151, "src1d-default-routines"]], "src1d routine in GeoClaw": [[151, "src1d-routine-in-geoclaw"]], "src default routines": [[152, "src-default-routines"]], "src routine in GeoClaw": [[152, "src-routine-in-geoclaw"]], "Storm Specification Class and Tools": [[153, "storm-specification-class-and-tools"]], "Sources for Storm Surge Data": [[154, "sources-for-storm-surge-data"]], "Timing Statistics": [[156, "timing-statistics"]], "Topography data": [[157, "topography-data"]], "Downloading topography files": [[157, "downloading-topography-files"]], "NetCDF format": [[157, "netcdf-format"]], "Topography displacement files": [[157, "topography-displacement-files"]], "qinit data file": [[157, "qinit-data-file"]], "Python tools for working with topo and dtopo": [[158, "python-tools-for-working-with-topo-and-dtopo"]], "topotools module for working with topography data": [[159, "topotools-module-for-working-with-topography-data"]], "Troubleshooting Installation": [[160, "troubleshooting-installation"]], "Troubleshooting Fortran:": [[160, "troubleshooting-fortran"]], "Setting the Fortran compiler to be used by f2py (pip)": [[160, "setting-the-fortran-compiler-to-be-used-by-f2py-pip"]], "Trouble compiling Fortran code at the command line": [[160, "trouble-compiling-fortran-code-at-the-command-line"]], "Trouble running \u201cmake .exe\u201d": [[160, "trouble-running-make-exe"]], "Trouble running \u201cmake .data\u201d": [[160, "trouble-running-make-data"]], "Trouble running \u201cmake .output\u201d": [[160, "trouble-running-make-output"]], "Trouble running \u201cmake .plots\u201d": [[160, "trouble-running-make-plots"]], "Some sources of tsunami data": [[161, "some-sources-of-tsunami-data"]], "Topography / bathymetry": [[161, "topography-bathymetry"]], "Earthquake source models": [[161, "earthquake-source-models"]], "DART buoy data": [[161, "dart-buoy-data"]], "Tide gauges": [[161, "tide-gauges"]], "User files required for the Fortran code": [[162, "user-files-required-for-the-fortran-code"]], "Specifying the initial conditions": [[162, "specifying-the-initial-conditions"]], "Specifying the Riemann solver": [[162, "specifying-the-riemann-solver"]], "Specifying boundary conditions": [[162, "specifying-boundary-conditions"]], "Specifying problem-specific data": [[162, "specifying-problem-specific-data"]], "Specifying spatially-varying data using setaux": [[162, "specifying-spatially-varying-data-using-setaux"]], "Using b4step for work to be done before each time step": [[162, "using-b4step-for-work-to-be-done-before-each-time-step"]], "Using src for source terms": [[162, "using-src-for-source-terms"]], "Using src1d for source terms with AMRClaw": [[162, "using-src1d-for-source-terms-with-amrclaw"]], "Plotting with VisIt": [[163, "plotting-with-visit"]], "Clawpack Virtual Machine": [[164, "clawpack-virtual-machine"]], "Wave-propagation algorithms": [[165, "wave-propagation-algorithms"]], "One space dimension": [[165, "one-space-dimension"]], "Godunov\u2019s method": [[165, "godunov-s-method"]], "High-resolution methods": [[165, "high-resolution-methods"]], "f-wave formulation": [[165, "f-wave-formulation"]], "Capacity functions": [[165, "capacity-functions"]], "Source terms": [[165, "source-terms"]]}, "indexentries": {"clawplotaxes (built-in class)": [[0, "ClawPlotAxes"]], "gethandle()": [[0, "gethandle"], [2, "gethandle"], [3, "gethandle"]], "new_plotitem()": [[0, "new_plotitem"]], "clawplotdata (built-in class)": [[1, "ClawPlotData"]], "clearfigures()": [[1, "clearfigures"]], "clearframes()": [[1, "clearframes"]], "getaxes()": [[1, "getaxes"]], "getfigure()": [[1, "getfigure"]], "getframe()": [[1, "getframe"], [3, "getframe"]], "getitem()": [[1, "getitem"]], "iplotclaw()": [[1, "iplotclaw"]], "new_plotfigure()": [[1, "new_plotfigure"]], "plotframe()": [[1, "plotframe"]], "printframes()": [[1, "printframes"]], "showitems()": [[1, "showitems"]], "clawplotfigure (built-in class)": [[2, "ClawPlotFigure"]], "new_plotaxes()": [[2, "new_plotaxes"]], "clawplotitem (built-in class)": [[3, "ClawPlotItem"]], "csvfault (class in clawpack.geoclaw.dtopotools)": [[30, "clawpack.geoclaw.dtopotools.CSVFault"]], "dtopography (class in clawpack.geoclaw.dtopotools)": [[30, "clawpack.geoclaw.dtopotools.DTopography"]], "fault (class in clawpack.geoclaw.dtopotools)": [[30, "clawpack.geoclaw.dtopotools.Fault"]], "mo() (clawpack.geoclaw.dtopotools.fault method)": [[30, "clawpack.geoclaw.dtopotools.Fault.Mo"]], "mo() (clawpack.geoclaw.dtopotools.subfault method)": [[30, "clawpack.geoclaw.dtopotools.SubFault.Mo"]], "mw() (clawpack.geoclaw.dtopotools.fault method)": [[30, "clawpack.geoclaw.dtopotools.Fault.Mw"]], "mw() (in module clawpack.geoclaw.dtopotools)": [[30, "clawpack.geoclaw.dtopotools.Mw"]], "siftfault (class in clawpack.geoclaw.dtopotools)": [[30, "clawpack.geoclaw.dtopotools.SiftFault"]], "subfault (class in clawpack.geoclaw.dtopotools)": [[30, "clawpack.geoclaw.dtopotools.SubFault"]], "subdividedplanefault (class in clawpack.geoclaw.dtopotools)": [[30, "clawpack.geoclaw.dtopotools.SubdividedPlaneFault"]], "tensorproductfault (class in clawpack.geoclaw.dtopotools)": [[30, "clawpack.geoclaw.dtopotools.TensorProductFault"]], "ucsbfault (class in clawpack.geoclaw.dtopotools)": [[30, "clawpack.geoclaw.dtopotools.UCSBFault"]], "calculate_geometry() (clawpack.geoclaw.dtopotools.subfault method)": [[30, "clawpack.geoclaw.dtopotools.SubFault.calculate_geometry"]], "calculate_geometry_triangles() (clawpack.geoclaw.dtopotools.subfault method)": [[30, "clawpack.geoclaw.dtopotools.SubFault.calculate_geometry_triangles"]], "centers (clawpack.geoclaw.dtopotools.subfault property)": [[30, "clawpack.geoclaw.dtopotools.SubFault.centers"]], "clawpack.geoclaw.dtopotools": [[30, "module-clawpack.geoclaw.dtopotools"]], "containing_rect() (clawpack.geoclaw.dtopotools.fault method)": [[30, "clawpack.geoclaw.dtopotools.Fault.containing_rect"]], "convert_to_standard_units() (clawpack.geoclaw.dtopotools.subfault method)": [[30, "clawpack.geoclaw.dtopotools.SubFault.convert_to_standard_units"]], "coordinate_specification (clawpack.geoclaw.dtopotools.subfault attribute)": [[30, "clawpack.geoclaw.dtopotools.SubFault.coordinate_specification"]], "corners (clawpack.geoclaw.dtopotools.subfault property)": [[30, "clawpack.geoclaw.dtopotools.SubFault.corners"]], "create_dtopo_xy() (clawpack.geoclaw.dtopotools.fault method)": [[30, "clawpack.geoclaw.dtopotools.Fault.create_dtopo_xy"]], "create_dtopography() (clawpack.geoclaw.dtopotools.fault method)": [[30, "clawpack.geoclaw.dtopotools.Fault.create_dtopography"]], "dz_at_t() (clawpack.geoclaw.dtopotools.dtopography method)": [[30, "clawpack.geoclaw.dtopotools.DTopography.dZ_at_t"]], "dz_max() (clawpack.geoclaw.dtopotools.dtopography method)": [[30, "clawpack.geoclaw.dtopotools.DTopography.dZ_max"]], "depth (clawpack.geoclaw.dtopotools.subfault attribute)": [[30, "clawpack.geoclaw.dtopotools.SubFault.depth"]], "dip (clawpack.geoclaw.dtopotools.subfault attribute)": [[30, "clawpack.geoclaw.dtopotools.SubFault.dip"]], "dynamic_slip() (clawpack.geoclaw.dtopotools.subfault method)": [[30, "clawpack.geoclaw.dtopotools.SubFault.dynamic_slip"]], "gauss_pts (clawpack.geoclaw.dtopotools.subfault property)": [[30, "clawpack.geoclaw.dtopotools.SubFault.gauss_pts"]], "latitude (clawpack.geoclaw.dtopotools.subfault attribute)": [[30, "clawpack.geoclaw.dtopotools.SubFault.latitude"]], "length (clawpack.geoclaw.dtopotools.subfault attribute)": [[30, "clawpack.geoclaw.dtopotools.SubFault.length"]], "longitude (clawpack.geoclaw.dtopotools.subfault attribute)": [[30, "clawpack.geoclaw.dtopotools.SubFault.longitude"]], "module": [[30, "module-clawpack.geoclaw.dtopotools"], [33, "module-clawpack.geoclaw.fgmax_tools"], [35, "module-clawpack.geoclaw.fgout_tools"], [48, "module-clawpack.geoclaw.util"], [60, "module-clawpack.geoclaw.kmltools"], [89, "module-clawpack.pyclaw.limiters.tvd"], [94, "module-clawpack.pyclaw.fileio.ascii"], [94, "module-clawpack.pyclaw.fileio.binary"], [94, "module-clawpack.pyclaw.fileio.netcdf"], [99, "module-clawpack.riemann.acoustics_1D_py"], [99, "module-clawpack.riemann.advection_1D_py"], [99, "module-clawpack.riemann.burgers_1D_py"], [99, "module-clawpack.riemann.euler_1D_py"], [99, "module-clawpack.riemann.shallow_1D_py"], [106, "module-clawpack.pyclaw.util"], [153, "module-clawpack.geoclaw.surge.storm"], [159, "module-clawpack.geoclaw.topotools"]], "mu (clawpack.geoclaw.dtopotools.subfault attribute)": [[30, "clawpack.geoclaw.dtopotools.SubFault.mu"]], "okada() (clawpack.geoclaw.dtopotools.subfault method)": [[30, "clawpack.geoclaw.dtopotools.SubFault.okada"]], "plot_dz_colors() (clawpack.geoclaw.dtopotools.dtopography method)": [[30, "clawpack.geoclaw.dtopotools.DTopography.plot_dZ_colors"]], "plot_dz_colors() (in module clawpack.geoclaw.dtopotools)": [[30, "clawpack.geoclaw.dtopotools.plot_dZ_colors"]], "plot_dz_contours() (clawpack.geoclaw.dtopotools.dtopography method)": [[30, "clawpack.geoclaw.dtopotools.DTopography.plot_dZ_contours"]], "plot_dz_contours() (in module clawpack.geoclaw.dtopotools)": [[30, "clawpack.geoclaw.dtopotools.plot_dZ_contours"]], "plot_subfaults() (clawpack.geoclaw.dtopotools.fault method)": [[30, "clawpack.geoclaw.dtopotools.Fault.plot_subfaults"]], "plot_subfaults_depth() (clawpack.geoclaw.dtopotools.fault method)": [[30, "clawpack.geoclaw.dtopotools.Fault.plot_subfaults_depth"]], "rake (clawpack.geoclaw.dtopotools.subfault attribute)": [[30, "clawpack.geoclaw.dtopotools.SubFault.rake"]], "read() (clawpack.geoclaw.dtopotools.csvfault method)": [[30, "clawpack.geoclaw.dtopotools.CSVFault.read"]], "read() (clawpack.geoclaw.dtopotools.dtopography method)": [[30, "clawpack.geoclaw.dtopotools.DTopography.read"]], "read() (clawpack.geoclaw.dtopotools.fault method)": [[30, "clawpack.geoclaw.dtopotools.Fault.read"]], "read() (clawpack.geoclaw.dtopotools.ucsbfault method)": [[30, "clawpack.geoclaw.dtopotools.UCSBFault.read"]], "rise_fraction() (in module clawpack.geoclaw.dtopotools)": [[30, "clawpack.geoclaw.dtopotools.rise_fraction"]], "rise_shape (clawpack.geoclaw.dtopotools.subfault attribute)": [[30, "clawpack.geoclaw.dtopotools.SubFault.rise_shape"]], "rise_time (clawpack.geoclaw.dtopotools.subfault attribute)": [[30, "clawpack.geoclaw.dtopotools.SubFault.rise_time"]], "rise_time_starting (clawpack.geoclaw.dtopotools.subfault attribute)": [[30, "clawpack.geoclaw.dtopotools.SubFault.rise_time_starting"]], "rupture_time (clawpack.geoclaw.dtopotools.subfault attribute)": [[30, "clawpack.geoclaw.dtopotools.SubFault.rupture_time"]], "rupture_type (clawpack.geoclaw.dtopotools.subfault attribute)": [[30, "clawpack.geoclaw.dtopotools.SubFault.rupture_type"]], "set_corners() (clawpack.geoclaw.dtopotools.subfault method)": [[30, "clawpack.geoclaw.dtopotools.SubFault.set_corners"]], "set_dynamic_slip() (clawpack.geoclaw.dtopotools.fault method)": [[30, "clawpack.geoclaw.dtopotools.Fault.set_dynamic_slip"]], "set_subfaults() (clawpack.geoclaw.dtopotools.siftfault method)": [[30, "clawpack.geoclaw.dtopotools.SiftFault.set_subfaults"]], "slip (clawpack.geoclaw.dtopotools.subfault attribute)": [[30, "clawpack.geoclaw.dtopotools.SubFault.slip"]], "strike (clawpack.geoclaw.dtopotools.subfault attribute)": [[30, "clawpack.geoclaw.dtopotools.SubFault.strike"]], "strike_direction() (in module clawpack.geoclaw.dtopotools)": [[30, "clawpack.geoclaw.dtopotools.strike_direction"]], "subdivide() (clawpack.geoclaw.dtopotools.subdividedplanefault method)": [[30, "clawpack.geoclaw.dtopotools.SubdividedPlaneFault.subdivide"]], "width (clawpack.geoclaw.dtopotools.subfault attribute)": [[30, "clawpack.geoclaw.dtopotools.SubFault.width"]], "write() (clawpack.geoclaw.dtopotools.dtopography method)": [[30, "clawpack.geoclaw.dtopotools.DTopography.write"]], "write() (clawpack.geoclaw.dtopotools.fault method)": [[30, "clawpack.geoclaw.dtopotools.Fault.write"]], "fgmaxgrid (class in clawpack.geoclaw.fgmax_tools)": [[33, "clawpack.geoclaw.fgmax_tools.FGmaxGrid"]], "adjust_fgmax_1d() 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(clawpack.geoclaw.fgout_tools.fgoutframe property)": [[35, "clawpack.geoclaw.fgout_tools.FGoutFrame.B"]], "fgoutframe (class in clawpack.geoclaw.fgout_tools)": [[35, "clawpack.geoclaw.fgout_tools.FGoutFrame"]], "fgoutgrid (class in clawpack.geoclaw.fgout_tools)": [[35, "clawpack.geoclaw.fgout_tools.FGoutGrid"]], "x (clawpack.geoclaw.fgout_tools.fgoutgrid property)": [[35, "clawpack.geoclaw.fgout_tools.FGoutGrid.X"], [35, "clawpack.geoclaw.fgout_tools.FGoutGrid.x"]], "y (clawpack.geoclaw.fgout_tools.fgoutgrid property)": [[35, "clawpack.geoclaw.fgout_tools.FGoutGrid.Y"], [35, "clawpack.geoclaw.fgout_tools.FGoutGrid.y"]], "clawpack.geoclaw.fgout_tools": [[35, "module-clawpack.geoclaw.fgout_tools"]], "eta (clawpack.geoclaw.fgout_tools.fgoutframe property)": [[35, "clawpack.geoclaw.fgout_tools.FGoutFrame.eta"]], "extent_centers (clawpack.geoclaw.fgout_tools.fgoutgrid property)": [[35, "clawpack.geoclaw.fgout_tools.FGoutGrid.extent_centers"]], "extent_edges (clawpack.geoclaw.fgout_tools.fgoutgrid property)": [[35, "clawpack.geoclaw.fgout_tools.FGoutGrid.extent_edges"]], "get_as_array() (in module clawpack.geoclaw.fgout_tools)": [[35, "clawpack.geoclaw.fgout_tools.get_as_array"]], "h (clawpack.geoclaw.fgout_tools.fgoutframe property)": [[35, "clawpack.geoclaw.fgout_tools.FGoutFrame.h"]], "hss (clawpack.geoclaw.fgout_tools.fgoutframe property)": [[35, "clawpack.geoclaw.fgout_tools.FGoutFrame.hss"]], "hu (clawpack.geoclaw.fgout_tools.fgoutframe property)": [[35, "clawpack.geoclaw.fgout_tools.FGoutFrame.hu"]], "hv (clawpack.geoclaw.fgout_tools.fgoutframe property)": [[35, "clawpack.geoclaw.fgout_tools.FGoutFrame.hv"]], "make_fgout_fcn_xy() (in module clawpack.geoclaw.fgout_tools)": [[35, "clawpack.geoclaw.fgout_tools.make_fgout_fcn_xy"]], "make_fgout_fcn_xyt() (in module clawpack.geoclaw.fgout_tools)": [[35, "clawpack.geoclaw.fgout_tools.make_fgout_fcn_xyt"]], "print_netcdf_info() (in module clawpack.geoclaw.fgout_tools)": [[35, "clawpack.geoclaw.fgout_tools.print_netcdf_info"]], "read_fgout_grids_data() (clawpack.geoclaw.fgout_tools.fgoutgrid method)": [[35, "clawpack.geoclaw.fgout_tools.FGoutGrid.read_fgout_grids_data"]], "read_frame() (clawpack.geoclaw.fgout_tools.fgoutgrid method)": [[35, "clawpack.geoclaw.fgout_tools.FGoutGrid.read_frame"]], "read_netcdf() (in module clawpack.geoclaw.fgout_tools)": [[35, "clawpack.geoclaw.fgout_tools.read_netcdf"]], "read_netcdf_arrays() (in module clawpack.geoclaw.fgout_tools)": [[35, "clawpack.geoclaw.fgout_tools.read_netcdf_arrays"]], "s (clawpack.geoclaw.fgout_tools.fgoutframe property)": [[35, "clawpack.geoclaw.fgout_tools.FGoutFrame.s"]], "set_plotdata() (clawpack.geoclaw.fgout_tools.fgoutgrid method)": [[35, "clawpack.geoclaw.fgout_tools.FGoutGrid.set_plotdata"]], "u (clawpack.geoclaw.fgout_tools.fgoutframe property)": [[35, "clawpack.geoclaw.fgout_tools.FGoutFrame.u"]], "v (clawpack.geoclaw.fgout_tools.fgoutframe property)": [[35, "clawpack.geoclaw.fgout_tools.FGoutFrame.v"]], "write_netcdf() (in module clawpack.geoclaw.fgout_tools)": [[35, "clawpack.geoclaw.fgout_tools.write_netcdf"]], "write_to_fgout_data() (clawpack.geoclaw.fgout_tools.fgoutgrid method)": [[35, "clawpack.geoclaw.fgout_tools.FGoutGrid.write_to_fgout_data"]], "bearing() (in module clawpack.geoclaw.util)": [[48, "clawpack.geoclaw.util.bearing"]], "clawpack.geoclaw.util": [[48, "module-clawpack.geoclaw.util"]], "dist_latlong2meters() (in module clawpack.geoclaw.util)": [[48, "clawpack.geoclaw.util.dist_latlong2meters"]], "dist_meters2latlong() (in module clawpack.geoclaw.util)": [[48, "clawpack.geoclaw.util.dist_meters2latlong"]], "dms2decimal() (in module clawpack.geoclaw.util)": [[48, "clawpack.geoclaw.util.dms2decimal"]], "fetch_noaa_tide_data() (in module clawpack.geoclaw.util)": [[48, "clawpack.geoclaw.util.fetch_noaa_tide_data"]], "haversine() (in module clawpack.geoclaw.util)": [[48, "clawpack.geoclaw.util.haversine"]], "inv_haversine() (in module clawpack.geoclaw.util)": [[48, "clawpack.geoclaw.util.inv_haversine"]], "box2kml() (in module clawpack.geoclaw.kmltools)": [[60, "clawpack.geoclaw.kmltools.box2kml"]], "clawpack.geoclaw.kmltools": [[60, "module-clawpack.geoclaw.kmltools"]], "deg2dms() (in module clawpack.geoclaw.kmltools)": [[60, "clawpack.geoclaw.kmltools.deg2dms"]], "dtopo2kml() (in module clawpack.geoclaw.kmltools)": [[60, "clawpack.geoclaw.kmltools.dtopo2kml"]], "f2s() (in module clawpack.geoclaw.kmltools)": [[60, "clawpack.geoclaw.kmltools.f2s"]], "fgmax2kml() (in module clawpack.geoclaw.kmltools)": [[60, "clawpack.geoclaw.kmltools.fgmax2kml"]], "fgout2kml() (in module clawpack.geoclaw.kmltools)": [[60, "clawpack.geoclaw.kmltools.fgout2kml"]], "gauges2kml() (in module clawpack.geoclaw.kmltools)": [[60, "clawpack.geoclaw.kmltools.gauges2kml"]], "kml_build_colorbar() (in module clawpack.geoclaw.kmltools)": [[60, "clawpack.geoclaw.kmltools.kml_build_colorbar"]], "kml_cb() (in module clawpack.geoclaw.kmltools)": [[60, "clawpack.geoclaw.kmltools.kml_cb"]], "kml_png() (in module clawpack.geoclaw.kmltools)": [[60, "clawpack.geoclaw.kmltools.kml_png"]], "kml_timespan() (in module clawpack.geoclaw.kmltools)": [[60, "clawpack.geoclaw.kmltools.kml_timespan"]], "line2kml() (in module clawpack.geoclaw.kmltools)": [[60, "clawpack.geoclaw.kmltools.line2kml"]], "make_input_data_kmls() (in module clawpack.geoclaw.kmltools)": [[60, "clawpack.geoclaw.kmltools.make_input_data_kmls"]], "pcolorcells_for_kml() (in module clawpack.geoclaw.kmltools)": [[60, "clawpack.geoclaw.kmltools.pcolorcells_for_kml"]], "png2kml() (in module clawpack.geoclaw.kmltools)": [[60, "clawpack.geoclaw.kmltools.png2kml"]], "poly2kml() (in module clawpack.geoclaw.kmltools)": [[60, "clawpack.geoclaw.kmltools.poly2kml"]], "quad2kml() (in module clawpack.geoclaw.kmltools)": [[60, "clawpack.geoclaw.kmltools.quad2kml"]], "regions2kml() (in module clawpack.geoclaw.kmltools)": [[60, "clawpack.geoclaw.kmltools.regions2kml"]], "topo2kml() (in module clawpack.geoclaw.kmltools)": [[60, "clawpack.geoclaw.kmltools.topo2kml"]], "topo2kmz() (in module clawpack.geoclaw.kmltools)": [[60, "clawpack.geoclaw.kmltools.topo2kmz"]], "controller (class in clawpack.pyclaw.controller)": [[88, "clawpack.pyclaw.controller.Controller"]], "f_file_name (clawpack.pyclaw.controller.controller attribute)": [[88, "clawpack.pyclaw.controller.Controller.F_file_name"]], "f_path (clawpack.pyclaw.controller.controller property)": [[88, "clawpack.pyclaw.controller.Controller.F_path"]], "check_validity() (clawpack.pyclaw.controller.controller method)": [[88, "clawpack.pyclaw.controller.Controller.check_validity"]], "compute_f (clawpack.pyclaw.controller.controller attribute)": [[88, "clawpack.pyclaw.controller.Controller.compute_F"]], "compute_p (clawpack.pyclaw.controller.controller attribute)": [[88, "clawpack.pyclaw.controller.Controller.compute_p"]], "file_prefix_p (clawpack.pyclaw.controller.controller attribute)": [[88, "clawpack.pyclaw.controller.Controller.file_prefix_p"]], "frames (clawpack.pyclaw.controller.controller attribute)": [[88, "clawpack.pyclaw.controller.Controller.frames"]], "keep_copy (clawpack.pyclaw.controller.controller attribute)": [[88, "clawpack.pyclaw.controller.Controller.keep_copy"]], "nstepout (clawpack.pyclaw.controller.controller attribute)": [[88, "clawpack.pyclaw.controller.Controller.nstepout"]], "num_output_times (clawpack.pyclaw.controller.controller attribute)": [[88, "clawpack.pyclaw.controller.Controller.num_output_times"]], "out_times (clawpack.pyclaw.controller.controller attribute)": [[88, "clawpack.pyclaw.controller.Controller.out_times"]], "outdir (clawpack.pyclaw.controller.controller attribute)": [[88, "clawpack.pyclaw.controller.Controller.outdir"]], "outdir_p (clawpack.pyclaw.controller.controller property)": [[88, "clawpack.pyclaw.controller.Controller.outdir_p"]], "output_file_prefix (clawpack.pyclaw.controller.controller attribute)": [[88, "clawpack.pyclaw.controller.Controller.output_file_prefix"]], "output_format (clawpack.pyclaw.controller.controller attribute)": [[88, "clawpack.pyclaw.controller.Controller.output_format"]], "output_options (clawpack.pyclaw.controller.controller attribute)": [[88, "clawpack.pyclaw.controller.Controller.output_options"]], "output_style (clawpack.pyclaw.controller.controller attribute)": [[88, "clawpack.pyclaw.controller.Controller.output_style"]], "overwrite (clawpack.pyclaw.controller.controller attribute)": [[88, "clawpack.pyclaw.controller.Controller.overwrite"]], "plot() (clawpack.pyclaw.controller.controller method)": [[88, "clawpack.pyclaw.controller.Controller.plot"]], "plotdata (clawpack.pyclaw.controller.controller attribute)": [[88, "clawpack.pyclaw.controller.Controller.plotdata"]], "run() (clawpack.pyclaw.controller.controller method)": [[88, "clawpack.pyclaw.controller.Controller.run"]], "rundir (clawpack.pyclaw.controller.controller attribute)": [[88, "clawpack.pyclaw.controller.Controller.rundir"]], "runmake (clawpack.pyclaw.controller.controller attribute)": [[88, "clawpack.pyclaw.controller.Controller.runmake"]], "savecode (clawpack.pyclaw.controller.controller attribute)": [[88, "clawpack.pyclaw.controller.Controller.savecode"]], "solver (clawpack.pyclaw.controller.controller attribute)": [[88, "clawpack.pyclaw.controller.Controller.solver"]], "tfinal (clawpack.pyclaw.controller.controller attribute)": [[88, "clawpack.pyclaw.controller.Controller.tfinal"]], "verbosity (clawpack.pyclaw.controller.controller property)": [[88, "clawpack.pyclaw.controller.Controller.verbosity"]], "viewable_attributes (clawpack.pyclaw.controller.controller attribute)": [[88, "clawpack.pyclaw.controller.Controller.viewable_attributes"]], "write_aux_always (clawpack.pyclaw.controller.controller attribute)": [[88, "clawpack.pyclaw.controller.Controller.write_aux_always"]], "write_aux_init (clawpack.pyclaw.controller.controller attribute)": [[88, "clawpack.pyclaw.controller.Controller.write_aux_init"]], "xclawcmd (clawpack.pyclaw.controller.controller attribute)": [[88, "clawpack.pyclaw.controller.Controller.xclawcmd"]], "xclawerr (clawpack.pyclaw.controller.controller attribute)": [[88, "clawpack.pyclaw.controller.Controller.xclawerr"]], "xclawout (clawpack.pyclaw.controller.controller attribute)": [[88, "clawpack.pyclaw.controller.Controller.xclawout"]], "xdir (clawpack.pyclaw.controller.controller attribute)": [[88, "clawpack.pyclaw.controller.Controller.xdir"]], "arora_roe() (in module clawpack.pyclaw.limiters.tvd)": [[89, "clawpack.pyclaw.limiters.tvd.arora_roe"]], "beta_limiter() (in module clawpack.pyclaw.limiters.tvd)": [[89, "clawpack.pyclaw.limiters.tvd.beta_limiter"]], "cada_torrilhon_limiter() (in module clawpack.pyclaw.limiters.tvd)": [[89, "clawpack.pyclaw.limiters.tvd.cada_torrilhon_limiter"]], "cada_torrilhon_limiter_nonlinear() (in module 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"superpower_limiter() (in module clawpack.pyclaw.limiters.tvd)": [[89, "clawpack.pyclaw.limiters.tvd.superpower_limiter"]], "theta_limiter() (in module clawpack.pyclaw.limiters.tvd)": [[89, "clawpack.pyclaw.limiters.tvd.theta_limiter"]], "upper_bound_limiter() (in module clawpack.pyclaw.limiters.tvd)": [[89, "clawpack.pyclaw.limiters.tvd.upper_bound_limiter"]], "van_leer_klein_sharpening_limiter() (in module clawpack.pyclaw.limiters.tvd)": [[89, "clawpack.pyclaw.limiters.tvd.van_leer_klein_sharpening_limiter"]], "dimension (class in clawpack.pyclaw.geometry)": [[91, "clawpack.pyclaw.geometry.Dimension"]], "domain (class in clawpack.petclaw.geometry)": [[91, "clawpack.petclaw.geometry.Domain"]], "domain (class in clawpack.pyclaw.geometry)": [[91, "clawpack.pyclaw.geometry.Domain"]], "grid (class in clawpack.pyclaw.geometry)": [[91, "clawpack.pyclaw.geometry.Grid"]], "patch (class in clawpack.petclaw.geometry)": [[91, "clawpack.petclaw.geometry.Patch"]], "patch (class in 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(clawpack.pyclaw.geometry.dimension property)": [[91, "clawpack.pyclaw.geometry.Dimension.centers"]], "centers_with_ghost() (clawpack.pyclaw.geometry.dimension method)": [[91, "clawpack.pyclaw.geometry.Dimension.centers_with_ghost"]], "delta (clawpack.pyclaw.geometry.dimension property)": [[91, "clawpack.pyclaw.geometry.Dimension.delta"]], "delta (clawpack.pyclaw.geometry.patch property)": [[91, "clawpack.pyclaw.geometry.Patch.delta"]], "dimensional_split (clawpack.petclaw.geometry.domain attribute)": [[91, "clawpack.petclaw.geometry.Domain.dimensional_split"]], "dimensions (clawpack.pyclaw.geometry.grid property)": [[91, "clawpack.pyclaw.geometry.Grid.dimensions"]], "dimensions (clawpack.pyclaw.geometry.patch property)": [[91, "clawpack.pyclaw.geometry.Patch.dimensions"]], "fwave (clawpack.petclaw.geometry.domain attribute)": [[91, "clawpack.petclaw.geometry.Domain.fwave"]], "gauge_dir_name (clawpack.pyclaw.geometry.grid attribute)": [[91, "clawpack.pyclaw.geometry.Grid.gauge_dir_name"]], "gauge_file_names (clawpack.pyclaw.geometry.grid attribute)": [[91, "clawpack.pyclaw.geometry.Grid.gauge_file_names"]], "gauge_files (clawpack.pyclaw.geometry.grid attribute)": [[91, "clawpack.pyclaw.geometry.Grid.gauge_files"]], "gauges (clawpack.pyclaw.geometry.grid attribute)": [[91, "clawpack.pyclaw.geometry.Grid.gauges"]], "get_dim_attribute() (clawpack.pyclaw.geometry.grid method)": [[91, "clawpack.pyclaw.geometry.Grid.get_dim_attribute"]], "get_dim_attribute() (clawpack.pyclaw.geometry.patch method)": [[91, "clawpack.pyclaw.geometry.Patch.get_dim_attribute"]], "grid (clawpack.pyclaw.geometry.domain property)": [[91, "clawpack.pyclaw.geometry.Domain.grid"]], "kernel_language (clawpack.petclaw.geometry.domain attribute)": [[91, "clawpack.petclaw.geometry.Domain.kernel_language"]], "level (clawpack.pyclaw.geometry.patch attribute)": [[91, "clawpack.pyclaw.geometry.Patch.level"]], "lower_global (clawpack.pyclaw.geometry.patch property)": [[91, "clawpack.pyclaw.geometry.Patch.lower_global"]], "mthlim (clawpack.petclaw.geometry.domain attribute)": [[91, "clawpack.petclaw.geometry.Domain.mthlim"]], "name (clawpack.pyclaw.geometry.patch property)": [[91, "clawpack.pyclaw.geometry.Patch.name"]], "nodes (clawpack.pyclaw.geometry.dimension property)": [[91, "clawpack.pyclaw.geometry.Dimension.nodes"]], "nodes_with_ghost() (clawpack.pyclaw.geometry.dimension method)": [[91, "clawpack.pyclaw.geometry.Dimension.nodes_with_ghost"]], "num_cells_global (clawpack.pyclaw.geometry.patch property)": [[91, "clawpack.pyclaw.geometry.Patch.num_cells_global"]], "num_dim (clawpack.pyclaw.geometry.domain property)": [[91, "clawpack.pyclaw.geometry.Domain.num_dim"]], "num_dim (clawpack.pyclaw.geometry.grid property)": [[91, "clawpack.pyclaw.geometry.Grid.num_dim"]], "num_dim (clawpack.pyclaw.geometry.patch property)": [[91, "clawpack.pyclaw.geometry.Patch.num_dim"]], "order (clawpack.petclaw.geometry.domain attribute)": [[91, "clawpack.petclaw.geometry.Domain.order"]], "p_center() (clawpack.pyclaw.geometry.grid method)": [[91, "clawpack.pyclaw.geometry.Grid.p_center"]], "p_centers (clawpack.pyclaw.geometry.grid property)": [[91, "clawpack.pyclaw.geometry.Grid.p_centers"]], "p_nodes (clawpack.pyclaw.geometry.grid property)": [[91, "clawpack.pyclaw.geometry.Grid.p_nodes"]], "patch (clawpack.pyclaw.geometry.domain property)": [[91, "clawpack.pyclaw.geometry.Domain.patch"]], "patch_index (clawpack.pyclaw.geometry.patch attribute)": [[91, "clawpack.pyclaw.geometry.Patch.patch_index"]], "plot() (clawpack.pyclaw.geometry.grid method)": [[91, "clawpack.pyclaw.geometry.Grid.plot"]], "setup_gauge_files() (clawpack.pyclaw.geometry.grid method)": [[91, "clawpack.pyclaw.geometry.Grid.setup_gauge_files"]], "source_split (clawpack.petclaw.geometry.domain attribute)": [[91, "clawpack.petclaw.geometry.Domain.source_split"]], "step_source (clawpack.petclaw.geometry.domain attribute)": [[91, 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"clawpack.pyclaw.fileio.ascii.read_array"]], "read_patch_header() (in module clawpack.pyclaw.fileio.ascii)": [[94, "clawpack.pyclaw.fileio.ascii.read_patch_header"]], "read_t() (in module clawpack.pyclaw.fileio.ascii)": [[94, "clawpack.pyclaw.fileio.ascii.read_t"]], "write() (in module clawpack.pyclaw.fileio.ascii)": [[94, "clawpack.pyclaw.fileio.ascii.write"]], "write() (in module clawpack.pyclaw.fileio.netcdf)": [[94, "clawpack.pyclaw.fileio.netcdf.write"]], "write_array() (in module clawpack.pyclaw.fileio.ascii)": [[94, "clawpack.pyclaw.fileio.ascii.write_array"]], "acoustics_1d() (in module clawpack.riemann.acoustics_1d_py)": [[99, "clawpack.riemann.acoustics_1D_py.acoustics_1D"]], "advection_1d() (in module clawpack.riemann.advection_1d_py)": [[99, "clawpack.riemann.advection_1D_py.advection_1D"]], "burgers_1d() (in module clawpack.riemann.burgers_1d_py)": [[99, "clawpack.riemann.burgers_1D_py.burgers_1D"]], "clawpack.riemann.acoustics_1d_py": [[99, "module-clawpack.riemann.acoustics_1D_py"]], "clawpack.riemann.advection_1d_py": [[99, "module-clawpack.riemann.advection_1D_py"]], "clawpack.riemann.burgers_1d_py": [[99, "module-clawpack.riemann.burgers_1D_py"]], "clawpack.riemann.euler_1d_py": [[99, "module-clawpack.riemann.euler_1D_py"]], "clawpack.riemann.shallow_1d_py": [[99, "module-clawpack.riemann.shallow_1D_py"]], "euler_exact_1d() (in module clawpack.riemann.euler_1d_py)": [[99, "clawpack.riemann.euler_1D_py.euler_exact_1D"]], "euler_hll_1d() (in module clawpack.riemann.euler_1d_py)": [[99, "clawpack.riemann.euler_1D_py.euler_hll_1D"]], "euler_hllc_1d() (in module clawpack.riemann.euler_1d_py)": [[99, "clawpack.riemann.euler_1D_py.euler_hllc_1D"]], "euler_roe_1d() (in module clawpack.riemann.euler_1d_py)": [[99, "clawpack.riemann.euler_1D_py.euler_roe_1D"]], "shallow_exact_1d() (in module clawpack.riemann.shallow_1d_py)": [[99, "clawpack.riemann.shallow_1D_py.shallow_exact_1D"]], "shallow_fwave_1d() (in module 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(clawpack.pyclaw.solution.solution property)": [[100, "clawpack.pyclaw.solution.Solution.start_frame"]], "state (clawpack.pyclaw.solution.solution property)": [[100, "clawpack.pyclaw.solution.Solution.state"]], "write() (clawpack.pyclaw.solution.solution method)": [[100, "clawpack.pyclaw.solution.Solution.write"]], "clawsolver (class in clawpack.pyclaw.classic.solver)": [[101, "clawpack.pyclaw.classic.solver.ClawSolver"]], "sharpclawsolver (class in clawpack.pyclaw.sharpclaw.solver)": [[101, "clawpack.pyclaw.sharpclaw.solver.SharpClawSolver"]], "accept_reject_step() (clawpack.pyclaw.sharpclaw.solver.sharpclawsolver method)": [[101, "clawpack.pyclaw.sharpclaw.solver.SharpClawSolver.accept_reject_step"]], "aux_time_dep (clawpack.pyclaw.sharpclaw.solver.sharpclawsolver attribute)": [[101, "clawpack.pyclaw.sharpclaw.solver.SharpClawSolver.aux_time_dep"]], "call_before_step_each_stage (clawpack.pyclaw.sharpclaw.solver.sharpclawsolver attribute)": [[101, 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65, 68, 75, 95, 116, 117, 118, 119, 120, 121, 122, 123, 124, 125, 126, 127, 128, 129, 130, 131, 132, 137, 159, 162], "fragment": 3, "typic": [3, 20, 40, 63, 64, 68, 69, 72, 74, 75, 81, 86, 96, 98, 101, 103, 112, 144, 145, 156, 157, 160, 161, 162, 165], "assum": [3, 5, 20, 22, 30, 32, 34, 35, 37, 40, 48, 49, 52, 54, 55, 56, 60, 68, 72, 78, 94, 95, 97, 98, 99, 105, 106, 112, 119, 132, 137, 138, 143, 146, 153, 154, 157, 159, 161, 165], "instanc": [3, 28, 35, 52, 72, 75, 81, 85, 86, 88, 91, 94, 95, 98, 137, 146], "type": [3, 4, 7, 13, 20, 28, 30, 36, 37, 41, 45, 52, 63, 68, 79, 80, 81, 85, 86, 87, 89, 91, 96, 97, 101, 102, 105, 106, 137, 144, 145, 146, 153, 154, 157, 159, 165], "dimension": [3, 7, 8, 17, 22, 25, 30, 32, 34, 36, 37, 45, 49, 53, 68, 91, 98, 119, 120, 122, 125, 145, 146, 147, 159, 162], "point": [3, 5, 6, 13, 15, 16, 17, 20, 28, 30, 33, 34, 36, 37, 39, 40, 42, 45, 46, 47, 48, 49, 52, 54, 55, 56, 58, 59, 60, 61, 68, 69, 72, 85, 95, 96, 100, 106, 107, 108, 112, 122, 124, 126, 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143, 145, 146, 147, 154, 157, 162, 165], "signatur": [3, 86, 89, 91, 92, 94, 99, 153], "hold": [3, 35, 81, 105, 112], "current": [3, 5, 13, 14, 20, 22, 24, 27, 28, 29, 30, 32, 35, 39, 40, 42, 45, 46, 49, 54, 55, 56, 58, 59, 60, 61, 68, 70, 74, 79, 81, 91, 94, 95, 96, 101, 103, 106, 108, 112, 113, 120, 122, 123, 134, 138, 142, 143, 144, 145, 146, 147, 149, 153, 154, 157, 159, 161], "afteritem": [3, 27], "afterpatch": [3, 27], "There": [3, 6, 13, 22, 34, 37, 41, 52, 55, 56, 63, 67, 72, 74, 81, 82, 95, 102, 110, 122, 123, 142, 143, 154, 155, 162, 164], "calcul": [3, 5, 6, 27, 30, 33, 35, 46, 48, 68, 72, 79, 91, 99, 101, 116, 121, 159], "cd": [3, 13, 28, 36, 37, 38, 53, 55, 56, 58, 59, 81, 90, 93, 96, 102, 113, 155], "On": [3, 5, 13, 52, 73, 82, 122, 132, 137, 141, 162], "ylower": [3, 22, 27, 40, 86, 123, 145, 157, 159], "patchno": [3, 27], "out": [3, 16, 24, 26, 29, 30, 32, 34, 35, 36, 37, 40, 45, 46, 51, 53, 54, 55, 56, 59, 60, 61, 62, 63, 68, 72, 79, 82, 83, 85, 86, 88, 94, 95, 96, 97, 100, 105, 107, 108, 110, 113, 121, 123, 125, 126, 135, 137, 144, 145, 147, 153, 159, 160], "lower": [3, 22, 30, 32, 33, 39, 54, 67, 74, 91, 96, 137, 139, 143, 145, 147, 157, 159, 161], "left": [3, 5, 10, 13, 16, 18, 25, 27, 32, 54, 74, 81, 91, 98, 99, 105, 122, 128, 131, 132, 133, 134, 135, 138, 144, 157, 159, 161, 165], "mappedgrid": [3, 68], "map": [3, 16, 29, 30, 40, 60, 67, 68, 79, 83, 86, 91, 93, 98, 112, 119, 123, 128, 136, 159, 165], "mapc2p": [3, 25, 27, 68, 86, 91, 128], "underli": [3, 52, 121], "requir": [3, 4, 16, 20, 22, 25, 27, 30, 32, 34, 35, 36, 37, 41, 46, 48, 49, 56, 59, 67, 68, 72, 75, 78, 81, 82, 85, 86, 91, 94, 97, 98, 101, 102, 103, 105, 106, 107, 112, 113, 115, 116, 119, 121, 124, 126, 128, 131, 135, 136, 137, 142, 143, 144, 145, 146, 147, 153, 154, 157, 160, 163, 165], "depend": [3, 13, 16, 28, 29, 30, 32, 35, 36, 37, 41, 42, 47, 49, 52, 63, 65, 68, 72, 79, 84, 94, 99, 100, 101, 106, 108, 112, 123, 139, 144, 146, 159, 160, 162, 165], "summar": [3, 28, 31, 112, 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160, 161, 162, 164, 165], "overrul": 3, "r": [3, 4, 6, 17, 45, 48, 53, 55, 67, 68, 71, 79, 85, 89, 96, 98, 135, 137, 142, 159, 165], "ff0000": [3, 60], "No": [3, 41, 52, 56, 68, 91, 101, 129, 135, 143, 146, 160], "extra": [3, 52, 136], "give": [3, 6, 9, 10, 13, 16, 24, 28, 30, 32, 33, 34, 36, 37, 45, 53, 60, 61, 67, 69, 72, 73, 74, 79, 81, 96, 97, 101, 113, 116, 120, 121, 125, 128, 137, 143, 146, 157, 159, 161], "polygon": [3, 7, 39, 52, 60, 126, 159], "curv": [3, 45, 78, 137], "fill_between": 3, "plot_var2": 3, "zero": [3, 16, 30, 32, 40, 42, 45, 60, 68, 69, 85, 98, 99, 103, 105, 128, 137, 138], "fill_wher": 3, "plotitem": [3, 27, 45, 79, 142], "mean": [3, 13, 22, 28, 32, 40, 45, 49, 53, 59, 68, 69, 95, 96, 112, 135, 138, 143, 145, 147, 161], "map_2d_to_1d": 3, "In": [3, 5, 6, 8, 11, 12, 15, 16, 19, 20, 22, 27, 30, 32, 34, 39, 42, 45, 46, 49, 52, 53, 54, 55, 56, 59, 60, 61, 63, 64, 67, 68, 69, 71, 72, 74, 75, 79, 80, 81, 85, 86, 91, 93, 94, 95, 96, 97, 98, 99, 101, 103, 106, 108, 109, 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13, 16, 22, 48, 54, 57, 59, 61, 62, 63, 68, 83, 91, 94, 95, 99, 100, 101, 112, 113, 121, 135, 137, 143, 144, 146, 159], "view": [3, 4, 22, 34, 36, 37, 45, 46, 52, 54, 55, 60, 74, 78, 80, 81, 85, 96, 102, 107, 119, 123, 148, 150], "finest": [3, 32, 34, 40, 45, 69, 123, 156, 159], "contour_kwarg": [3, 159], "pcolor_cmap": [3, 52], "pcolor_cmin": 3, "pcolor_cmax": 3, "thei": [3, 5, 6, 13, 16, 24, 27, 28, 30, 32, 34, 39, 40, 45, 49, 52, 55, 56, 59, 60, 61, 64, 67, 68, 74, 78, 91, 93, 98, 101, 106, 112, 113, 121, 128, 139, 142, 146, 149, 153, 157, 159, 162], "chosen": [3, 29, 32, 39, 40, 52, 54, 67, 105, 112, 128, 138, 144], "vari": [3, 15, 17, 25, 30, 40, 46, 54, 65, 69, 98, 100, 119, 126, 135, 136, 138, 140, 144, 146, 165], "yield": 3, "veri": [3, 5, 16, 22, 49, 52, 56, 57, 60, 72, 79, 83, 86, 94, 95, 96, 97, 98, 101, 113, 116, 120, 131, 137, 139, 143, 154, 157], "confus": [3, 54, 59, 108, 128, 135], "add_colorbar": [3, 30, 159], "ad": [3, 12, 16, 20, 22, 24, 25, 27, 29, 32, 34, 35, 42, 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138, 139, 145], "linear": [4, 5, 17, 30, 34, 35, 45, 52, 69, 72, 79, 85, 89, 101, 124, 135, 136, 137], "nonlinear": [4, 5, 17, 49, 89, 135, 143, 165], "hyperbol": [4, 5, 6, 17, 43, 75, 86, 93, 98, 99, 105, 135, 143, 146, 162, 165], "system": [4, 16, 17, 23, 37, 38, 52, 53, 59, 60, 64, 73, 74, 83, 93, 95, 96, 98, 99, 102, 105, 108, 113, 135, 143, 145, 147, 155, 162, 165], "focu": [4, 46], "high": [4, 17, 32, 49, 52, 67, 69, 72, 75, 86, 93, 101, 135, 138, 139, 161, 162], "resolut": [4, 6, 17, 30, 32, 34, 40, 45, 61, 69, 72, 91, 101, 105, 106, 115, 119, 123, 124, 131, 135, 138, 157, 159, 161, 162], "godunov": [4, 91, 101, 143, 145, 147, 162], "method": [4, 5, 7, 17, 32, 34, 35, 39, 43, 45, 54, 67, 69, 79, 81, 85, 88, 89, 91, 96, 100, 101, 106, 112, 113, 119, 135, 142, 143, 144, 145, 147, 153, 156, 157, 159, 162], "framework": [4, 83, 86, 120, 121], "applic": [4, 6, 15, 16, 19, 20, 22, 23, 24, 28, 29, 32, 34, 35, 36, 37, 38, 42, 43, 44, 45, 46, 47, 56, 58, 59, 64, 67, 73, 74, 81, 90, 91, 92, 93, 95, 101, 106, 109, 111, 112, 113, 115, 118, 119, 121, 122, 123, 125, 126, 135, 137, 139, 140, 143, 146, 151, 152, 157, 159, 160, 162, 163], "finit": [4, 17, 32, 34, 43, 54, 60, 67, 68, 69, 72, 101, 126, 137, 146, 156, 157, 162], "volum": [4, 17, 29, 32, 34, 43, 54, 60, 67, 68, 69, 93, 126, 137, 144, 146, 156, 157, 162], "riemann": [4, 5, 8, 20, 22, 23, 28, 29, 46, 56, 59, 64, 75, 83, 85, 91, 92, 101, 102, 103, 105, 108, 141, 143, 145, 147, 151, 152, 165], "solver": [4, 5, 6, 20, 22, 23, 25, 28, 46, 57, 58, 59, 64, 82, 83, 84, 88, 91, 92, 95, 103, 117, 119, 121, 122, 123, 124, 125, 126, 128, 143, 145, 147, 151, 152, 165], "resolv": [4, 32, 34, 52, 55, 59, 110, 123, 139], "jump": [4, 5, 68, 81, 91, 101, 121, 143, 165], "discontinu": [4, 101, 165], "interfac": [4, 19, 22, 68, 83, 86, 89, 93, 94, 99, 101, 106, 135, 162, 163, 165], "wave": [4, 5, 6, 16, 17, 25, 32, 40, 49, 52, 53, 72, 89, 91, 93, 98, 99, 101, 112, 119, 121, 122, 128, 136, 137, 138, 143, 144, 145, 146, 147, 149, 162], "propag": [4, 5, 6, 17, 25, 30, 49, 52, 53, 72, 91, 93, 101, 112, 121, 135], "neighbor": [4, 34, 40, 67, 69, 112, 121, 139, 144, 145, 159], "formul": [4, 5, 49, 65, 135, 143], "allow": [4, 6, 13, 22, 27, 28, 29, 32, 34, 35, 39, 40, 45, 46, 48, 51, 52, 54, 55, 59, 65, 67, 68, 72, 73, 75, 78, 79, 88, 93, 94, 95, 101, 103, 106, 107, 108, 112, 113, 115, 116, 119, 120, 121, 122, 123, 125, 126, 128, 131, 132, 135, 137, 143, 145, 146, 147, 148, 149, 153, 157, 159, 161], "easi": [4, 6, 11, 29, 39, 59, 68, 86, 95, 96, 97, 137, 148, 162], "extens": [4, 17, 22, 24, 28, 30, 49, 52, 55, 59, 64, 68, 86, 93, 94, 106, 121, 122, 128, 143, 155, 159, 165], "problem": [4, 5, 7, 16, 17, 20, 24, 25, 27, 28, 29, 36, 37, 40, 43, 46, 59, 63, 67, 68, 69, 72, 75, 79, 82, 84, 85, 90, 92, 93, 96, 99, 101, 104, 108, 113, 115, 116, 118, 119, 122, 126, 128, 132, 135, 137, 139, 143, 144, 145, 146, 147, 148, 156, 160], "algorithm": [4, 7, 25, 32, 39, 40, 46, 53, 85, 91, 93, 94, 101, 105, 112, 123, 135, 137, 143, 145, 147, 159], "brief": [4, 56, 136, 146], "subroutin": [4, 6, 9, 16, 22, 32, 34, 64, 112, 119, 135, 143, 144, 156, 162, 165], "equat": [4, 5, 16, 17, 25, 36, 37, 46, 49, 61, 65, 79, 84, 85, 86, 88, 93, 94, 95, 98, 101, 102, 103, 116, 119, 121, 123, 124, 135, 143, 145, 146, 147, 149, 157, 162, 165], "solv": [4, 5, 8, 16, 17, 20, 26, 36, 37, 49, 57, 59, 61, 84, 86, 88, 91, 93, 98, 99, 102, 124, 135, 136, 143, 157, 162, 165], "adapt": [4, 7, 17, 30, 40, 53, 54, 67, 68, 75, 85, 112, 123, 126, 128, 135, 137, 142, 143, 144, 146, 162], "mesh": [4, 7, 17, 33, 53, 67, 68, 75, 78, 85, 112, 126, 142, 143, 162], "amrclaw": [4, 5, 6, 12, 15, 16, 19, 20, 22, 23, 24, 28, 37, 39, 40, 42, 44, 45, 46, 47, 53, 56, 57, 58, 59, 61, 67, 68, 73, 74, 75, 82, 93, 94, 102, 108, 109, 112, 113, 134, 135, 137, 140, 141, 143, 146, 151, 152, 155, 156, 160], "detail": [4, 5, 10, 16, 22, 23, 25, 26, 28, 29, 30, 32, 34, 36, 37, 39, 42, 45, 47, 49, 52, 55, 58, 59, 61, 62, 63, 67, 68, 72, 75, 79, 83, 88, 89, 90, 91, 93, 94, 95, 96, 97, 98, 99, 101, 111, 112, 113, 116, 121, 123, 128, 131, 135, 137, 142, 143, 146, 148, 153, 157, 160, 161, 162, 165], "content": [4, 6, 23, 35, 52, 56, 74, 75, 86, 93, 146, 157, 162, 163], "routin": [4, 5, 6, 16, 20, 25, 27, 30, 32, 36, 37, 45, 46, 47, 52, 53, 63, 68, 69, 73, 74, 75, 78, 81, 83, 86, 88, 91, 94, 97, 98, 101, 103, 104, 112, 115, 116, 119, 121, 123, 124, 126, 135, 139, 143, 145, 147, 153, 159, 160, 162, 163, 165], "special": [4, 7, 16, 46, 47, 52, 62, 75, 83, 112, 131, 137, 159], "depth": [4, 5, 16, 17, 22, 30, 32, 33, 35, 40, 45, 46, 49, 65, 69, 72, 78, 80, 136, 138, 139, 146, 157], "averag": [4, 6, 15, 17, 32, 40, 46, 49, 50, 54, 68, 69, 99, 103, 116, 128, 135, 139, 140, 157, 159, 162], "geophys": [4, 16, 17, 23, 46, 49, 75, 143], "flow": [4, 16, 17, 23, 32, 33, 46, 47, 49, 75, 93, 110, 126, 131, 135, 143, 146, 157, 162], "geoclaw": [4, 7, 12, 17, 23, 24, 28, 29, 30, 32, 33, 34, 35, 37, 39, 42, 44, 45, 53, 54, 56, 57, 58, 59, 60, 61, 65, 67, 69, 72, 74, 75, 78, 82, 93, 102, 108, 110, 111, 113, 134, 135, 136, 138, 139, 141, 143, 144, 149, 153, 154, 155, 156, 157, 158, 159, 160, 161, 162], "parallel": [4, 22, 23, 45, 73, 84, 90, 92, 93, 95, 98, 100, 102, 106, 112, 113, 121, 144], "ten": [4, 75], "thousand": [4, 75], "core": [4, 12, 75, 113, 123], "wish": [4, 13, 14, 15, 22, 29, 36, 37, 49, 52, 59, 68, 77, 78, 93, 98, 101, 102, 104, 108, 110, 112, 121, 140, 148, 151, 152, 160], "discrib": 4, "book": [4, 12, 17, 25, 29, 82, 100, 135], "levequ": [4, 16, 17, 24, 30, 53, 75, 89, 91, 93, 101, 107, 135, 143, 162, 165], "fvmhp": [4, 12, 16, 17, 25, 75, 135, 143, 162, 165], "virtual": [4, 13, 25, 27, 103], "were": [4, 6, 14, 20, 32, 45, 55, 61, 64, 68, 69, 86, 112, 115, 121, 124, 128, 131, 132, 137, 139, 149, 157], "4": [4, 7, 8, 9, 13, 16, 17, 23, 25, 28, 30, 32, 33, 34, 37, 39, 40, 42, 43, 45, 46, 49, 52, 54, 55, 56, 63, 64, 65, 67, 68, 69, 73, 74, 78, 79, 81, 92, 93, 94, 95, 96, 98, 99, 101, 102, 106, 108, 112, 113, 115, 120, 123, 128, 129, 131, 134, 137, 143, 144, 145, 146, 147, 155, 156, 157, 159, 164], "3": [4, 6, 7, 15, 16, 20, 22, 24, 25, 30, 32, 33, 34, 37, 39, 43, 45, 46, 52, 54, 56, 59, 60, 65, 68, 69, 72, 74, 79, 81, 82, 85, 88, 89, 91, 94, 95, 96, 99, 100, 101, 103, 107, 108, 112, 121, 123, 126, 132, 133, 135, 137, 140, 143, 144, 145, 146, 147, 155, 156, 157, 159, 162, 165], "pointer": [4, 16, 55, 72, 78, 81, 101, 106, 119], "code": [4, 5, 6, 7, 8, 12, 14, 16, 19, 20, 21, 22, 23, 24, 27, 29, 32, 33, 34, 35, 36, 37, 39, 41, 42, 43, 45, 46, 49, 51, 53, 54, 55, 57, 62, 63, 64, 65, 71, 72, 73, 74, 75, 77, 79, 81, 82, 83, 85, 86, 91, 93, 94, 95, 96, 98, 101, 102, 105, 107, 108, 111, 114, 115, 116, 119, 120, 121, 122, 123, 124, 125, 126, 128, 134, 135, 136, 137, 141, 143, 144, 145, 146, 147, 148, 153, 155, 156, 157], "bibliographi": [4, 25], "paper": [4, 5, 6, 16, 30, 46, 55, 89, 93], "distribut": [4, 12, 13, 29, 30, 55, 62, 72, 75, 83, 101, 107, 126], "under": [4, 7, 22, 32, 34, 38, 52, 53, 55, 58, 62, 64, 78, 83, 91, 93, 113, 121, 123, 133], "term": [4, 25, 46, 49, 62, 72, 86, 91, 92, 101, 112, 122, 123, 132, 136, 143, 145, 146, 147, 151, 152], "berkelei": [4, 62, 83], "bsd": [4, 62, 83, 123], "peopl": [4, 12, 13, 83], "contribut": [4, 24, 25, 58, 83, 86, 93, 98, 101, 110, 113], "its": [4, 6, 13, 22, 29, 40, 49, 52, 62, 64, 67, 72, 74, 83, 88, 89, 90, 91, 93, 98, 100, 101, 103, 106, 112, 145, 159, 165], "incept": 4, "1994": [4, 62], "major": [4, 22, 56, 83, 86, 114, 115, 116, 117, 122, 124, 129, 132], "design": [4, 27, 28, 52, 83, 85, 105, 137, 161], "made": [4, 18, 22, 28, 30, 35, 59, 100, 103, 115, 116, 121, 123, 126, 128, 131, 132, 137, 139, 146, 154, 157, 159, 162], "individu": [4, 22, 23, 52, 60, 63, 64, 68, 91, 112, 113, 153], "randal": [4, 17, 93], "univers": [4, 17, 24, 55, 62, 83, 100], "washington": [4, 17, 24, 55, 62, 125, 137, 159], "rjlevequ": [4, 28, 29], "marsha": [4, 6, 17], "berger": [4, 6, 17], "courant": [4, 6, 112, 122, 143, 144, 145, 147], "institut": 4, "nyu": 4, 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4, "xinsheng": [4, 53], "qin": [4, 53], "xinshengqin": [4, 53], "avi": 4, "schwarzschild": 4, "aks2203": 4, "andi": 4, "terrel": 4, "aterrel": 4, "chri": 4, "vogl": 4, "cjvogl": 4, "numer": [4, 17, 52, 107, 124], "student": 4, "toward": [4, 30], "bug": [4, 8, 12, 22, 24, 42, 52, 65, 73, 79, 83, 118, 119, 120, 121, 123, 128, 129, 130], "suggest": [4, 24, 29, 48, 54, 55, 57, 59, 81, 82, 107, 133, 135, 146, 164], "improv": [4, 13, 22, 24, 32, 34, 52, 55, 94, 107, 115, 116, 118, 119, 120, 121, 122, 124, 125, 126, 127, 128, 129, 143], "explor": [4, 34, 60, 79, 81], "thank": [4, 93], "pleas": [4, 24, 28, 55, 57, 58, 59, 83, 85, 88, 90, 93, 94, 96, 98, 100, 101, 102, 104, 110, 123, 128, 133, 135, 153], "itself": [4, 72, 78, 107, 126, 135, 146, 159], "well": [4, 6, 28, 33, 46, 52, 53, 55, 59, 60, 67, 72, 73, 74, 75, 78, 81, 82, 100, 101, 110, 122, 123, 126, 131, 136, 139, 143, 144, 151, 152, 153, 162, 165], "citat": [4, 56], "similar": [4, 13, 16, 28, 32, 34, 37, 45, 52, 61, 85, 86, 94, 98, 101, 105, 123, 128, 146, 153, 154, 155, 157], "team": [4, 24, 62], "2020": [4, 24, 25, 55, 62, 107, 110, 126, 127, 128, 133, 135], "7": [4, 6, 14, 29, 32, 34, 39, 40, 45, 48, 55, 61, 65, 67, 74, 79, 82, 91, 102, 108, 112, 128, 133, 137, 138, 139, 144, 145], "http": [4, 12, 13, 17, 24, 26, 28, 29, 30, 40, 48, 52, 53, 55, 56, 58, 59, 62, 67, 72, 82, 83, 86, 87, 94, 96, 98, 107, 108, 118, 120, 121, 122, 124, 125, 128, 129, 130, 131, 132, 133, 136, 153, 159], "www": [4, 13, 17, 30, 40, 46, 55, 62, 67, 83, 86, 91, 94, 96, 122, 124, 131, 132, 153, 159], "org": [4, 17, 46, 53, 55, 56, 62, 83, 86, 87, 91, 94, 96, 107, 108, 120, 122, 124, 128, 129, 130, 131, 132, 159], "doi": [4, 17, 53, 56, 58, 126, 127, 128, 129, 130, 131, 132, 133], "10": [4, 17, 30, 32, 34, 40, 52, 53, 54, 56, 79, 85, 88, 91, 112, 120, 121, 123, 126, 127, 128, 129, 130, 131, 132, 133, 137, 143, 144, 145, 147, 157], "5281": [4, 56, 126, 127, 128, 129, 130, 131, 132, 133], "zenodo": [4, 58, 126, 127, 128, 129, 130, 131, 132, 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65, 67, 68, 72, 75, 86, 88, 89, 91, 93, 94, 99, 100, 101, 103, 105, 106, 112, 114, 119, 122, 124, 128, 131, 132, 138, 143, 144, 145, 146, 147, 153, 159, 162, 165], "richardson": [5, 7, 22, 144, 145], "error": [5, 16, 20, 36, 37, 41, 52, 59, 68, 73, 79, 88, 93, 94, 95, 106, 112, 113, 124, 128, 144, 145, 153, 160], "estimat": [5, 145], "flag_richardson": [5, 112, 120, 144, 145], "flag_richardson_tol": [5, 112, 144, 145], "1e": [5, 67, 147], "flag2refin": [5, 7, 22, 144, 145], "flag2refine_tol": [5, 112, 144, 145], "01": [5, 40, 74, 91, 159], "we": [5, 6, 22, 24, 26, 32, 36, 37, 39, 40, 45, 49, 52, 54, 55, 56, 57, 59, 64, 67, 69, 72, 78, 81, 85, 86, 87, 88, 90, 91, 94, 95, 96, 97, 98, 101, 102, 103, 104, 105, 106, 107, 110, 113, 123, 126, 131, 135, 136, 137, 159], "attempt": [5, 8, 11, 20, 33, 36, 37, 63, 94, 100, 106, 113, 115, 129, 153, 159, 160], "estim": [5, 65, 112, 144, 146], "step": [5, 6, 10, 16, 19, 28, 32, 34, 36, 37, 38, 45, 52, 55, 56, 61, 68, 74, 75, 78, 81, 83, 84, 85, 86, 88, 95, 98, 101, 103, 105, 110, 112, 115, 120, 121, 131, 134, 135, 141, 143, 144, 145, 146, 147, 157, 165], "extrapol": [5, 7, 16, 22, 69, 98, 105, 123, 143, 144, 145, 147], "togeth": [5, 16, 28, 29, 30, 55, 57, 72, 112, 131], "experiment": [5, 83], "simpli": [5, 13, 34, 36, 37, 38, 40, 45, 52, 54, 63, 64, 67, 69, 85, 87, 88, 90, 95, 96, 102, 113, 135, 137, 148, 153, 159, 162, 163], "magnitud": [5, 30, 112, 123, 146], "greater": [5, 32, 60, 65, 67, 102, 112, 134, 143, 144, 146], "model": [5, 12, 16, 17, 24, 25, 30, 32, 42, 46, 47, 53, 54, 65, 95, 112, 120, 125, 126, 127, 137, 138, 139, 146, 149, 153, 154, 157], "davisleveque2016": [5, 17], "chile2010_adjoint": 5, "shallow": [5, 15, 16, 17, 25, 32, 34, 40, 46, 49, 53, 67, 75, 86, 93, 109, 116, 117, 119, 121, 123, 124, 132, 135, 139, 140, 146, 151, 152, 157, 162], "water": [5, 16, 17, 25, 34, 40, 45, 46, 47, 48, 49, 60, 67, 75, 78, 86, 93, 116, 117, 121, 123, 124, 135, 137, 138, 139, 146, 157, 159, 161, 162], "while": [5, 13, 16, 30, 40, 52, 68, 72, 79, 81, 86, 91, 95, 96, 101, 106, 123, 135, 139, 146, 161], "suitabl": [5, 8, 16, 20, 46, 49, 52, 70, 74, 100, 111, 135, 138, 153, 159], "To": [5, 6, 13, 14, 18, 22, 25, 28, 29, 36, 37, 38, 39, 40, 41, 45, 47, 50, 52, 53, 56, 63, 66, 67, 68, 72, 73, 74, 79, 81, 82, 85, 87, 89, 90, 93, 94, 95, 96, 97, 98, 101, 102, 105, 108, 110, 111, 112, 113, 119, 121, 124, 125, 126, 127, 128, 129, 130, 131, 132, 134, 138, 141, 143, 144, 148, 157, 163], "date": [5, 28, 41, 48, 52, 55, 56, 63, 79, 153, 160], "across": [5, 112, 121, 157, 159], "ocean": [5, 16, 17, 32, 49, 52, 110, 112, 137, 146, 151, 152, 157], "wai": [5, 6, 13, 16, 26, 28, 34, 36, 37, 39, 40, 45, 52, 54, 55, 58, 59, 60, 62, 63, 79, 81, 82, 83, 85, 88, 90, 91, 96, 98, 100, 102, 105, 107, 108, 110, 111, 115, 121, 122, 123, 126, 133, 135, 137, 142, 143, 150, 154, 157, 162, 164, 165], "target": [5, 59, 79, 86, 98, 126], "possibli": [5, 30, 34, 67, 85, 91, 108, 120, 139], "deep": [5, 67], "amplitud": [5, 121], "compar": [5, 22, 37, 45, 49, 52, 56, 79, 95, 112, 113, 138, 144, 155, 161, 165], "essenti": [5, 54, 68, 101, 146, 157], "rest": [5, 22, 81, 110, 123, 138, 151, 152, 157, 159], "henc": [5, 34, 54, 55, 64, 69, 101, 107, 108, 112, 139], "take": [5, 6, 22, 27, 28, 30, 32, 35, 48, 55, 65, 67, 68, 72, 79, 85, 91, 98, 101, 105, 106, 107, 112, 113, 118, 124, 132, 139, 143, 144, 145, 146, 159, 162, 165], "rpn2_geoclaw_adjoint_qwav": 5, "rpt2_geoclaw_adjoint_qwav": 5, "non": [5, 16, 56, 67, 75, 86, 98, 105, 124, 126, 143, 145, 147, 153, 165], "vector": [5, 22, 85, 89, 95, 103, 123, 131, 135, 136], "split": [5, 6, 73, 91, 94, 101, 119, 120, 128, 143, 144, 145, 147, 156, 162, 165], "flux": [5, 17, 32, 34, 35, 91, 99, 101, 135, 143, 165], "comment": [5, 11, 24, 50, 56, 122, 131, 134], "rpn2": [5, 135], "basic": [6, 10, 12, 25, 30, 36, 38, 46, 58, 67, 68, 85, 91, 93, 94, 95, 99, 101, 113, 135, 136, 153, 165], "strategi": 6, "logic": [6, 16, 17, 32, 128, 146], "rectangular": [6, 7, 16, 17, 30, 32, 35, 39, 40, 46, 47, 60, 67, 91, 112, 123, 126, 131, 144, 146, 157], "too": [6, 48, 52, 55, 56, 120, 137, 145, 147], "portion": [6, 34, 40, 52, 67, 86, 131, 156], "factor": [6, 52, 144, 146, 156, 159], "direct": [6, 8, 16, 22, 30, 32, 34, 36, 37, 45, 48, 52, 56, 60, 62, 63, 68, 72, 73, 79, 83, 88, 98, 105, 112, 122, 135, 143, 144, 146, 159], "anisotrop": [6, 22], "perhap": [6, 12, 32, 40, 45, 55, 79, 103, 106, 112, 137], "section": [6, 13, 16, 34, 36, 37, 40, 42, 47, 49, 55, 56, 64, 68, 78, 81, 93, 113, 128, 134, 143, 146, 159], "cfl": [6, 91, 95, 101, 105, 115, 120, 143, 145, 146, 147], "spatial": [6, 17, 25, 30, 34, 35, 39, 40, 45, 46, 61, 65, 69, 98, 112, 115, 119, 126, 128, 135, 138, 144, 145, 146, 147, 165], "reduc": [6, 16, 34, 40, 52, 120, 122, 131, 165], "thu": [6, 48, 95, 98, 123, 153], "proce": [6, 28, 146], "advanc": [6, 17, 34, 53, 67, 73, 105, 120, 132, 143, 144, 162], "taken": [6, 32, 67, 72, 95, 101, 112, 143, 162], "around": [6, 30, 32, 40, 60, 94, 110, 113, 126, 144, 145, 153, 159, 162], "librari": [6, 13, 15, 16, 20, 22, 25, 27, 28, 32, 34, 36, 37, 42, 45, 53, 60, 63, 73, 74, 75, 83, 89, 94, 96, 101, 106, 108, 109, 112, 121, 126, 139, 140, 144, 151, 152, 160, 162], "bcnamr": [6, 16, 123, 143, 145, 162], "check": [6, 14, 15, 16, 20, 32, 36, 37, 41, 42, 51, 52, 53, 55, 56, 57, 59, 63, 68, 79, 82, 85, 86, 88, 93, 96, 100, 101, 103, 105, 106, 108, 109, 112, 116, 125, 137, 139, 140, 144, 145, 151, 152, 153, 159, 160, 161, 162], "denot": [6, 22, 35, 45, 54, 135, 159], "procedur": [6, 16, 40, 46, 56, 162], "updat": [6, 12, 13, 22, 23, 25, 32, 50, 53, 58, 59, 61, 81, 93, 101, 103, 104, 107, 110, 115, 119, 121, 122, 123, 124, 125, 126, 135, 144, 145, 147, 150, 153, 156, 162], "consist": [6, 25, 32, 34, 48, 52, 56, 60, 96, 107, 121, 131, 132, 135, 137, 146, 157, 162], "replac": [6, 13, 29, 34, 39, 45, 49, 53, 55, 56, 58, 61, 63, 78, 86, 90, 94, 96, 97, 98, 99, 103, 106, 113, 115, 121, 123, 125, 126, 131, 134, 135, 139, 159, 160], "ly": [6, 67], "within": [6, 16, 28, 34, 35, 55, 59, 67, 69, 75, 79, 97, 106, 108, 112, 135, 137, 142, 148, 159], "approxim": [6, 16, 25, 33, 49, 52, 69, 72, 135], "lead": [6, 13, 22, 32, 34, 49, 52, 65, 68, 72, 108, 111, 128, 139, 144], "total": [6, 30, 34, 52, 72, 74, 95, 101, 143, 144, 145, 147, 156], "mass": [6, 95, 149], "restor": 6, "global": [6, 14, 91, 103, 106, 138, 157, 161, 162], "fix": [6, 19, 20, 22, 25, 33, 35, 39, 45, 46, 55, 56, 60, 61, 63, 67, 69, 83, 94, 99, 115, 116, 117, 118, 119, 120, 121, 122, 124, 125, 126, 127, 128, 129, 130, 131, 132, 136, 143, 145, 147, 159], "up": [6, 13, 22, 28, 29, 30, 32, 34, 36, 37, 40, 41, 45, 46, 52, 55, 56, 60, 63, 67, 68, 72, 74, 79, 85, 86, 88, 90, 92, 93, 94, 96, 101, 102, 105, 108, 110, 112, 113, 119, 120, 123, 126, 128, 137, 139, 142, 145, 147, 156, 157, 160, 161], "style": [6, 22, 28, 30, 34, 39, 50, 52, 67, 70, 79, 83, 88, 123, 146], "olig": [6, 17], "colella": [6, 17], "bergeroliger84": [6, 17], "bergercolella89": [6, 17], "fortran": [6, 9, 11, 13, 14, 20, 23, 27, 28, 30, 32, 33, 34, 35, 36, 45, 46, 47, 54, 57, 59, 63, 64, 65, 69, 73, 74, 75, 78, 81, 83, 85, 86, 88, 91, 93, 94, 96, 98, 99, 101, 102, 103, 106, 108, 119, 120, 121, 123, 124, 125, 131, 132, 135, 136, 141, 144, 145, 146, 147, 153, 155, 156, 157], "written": [6, 11, 25, 30, 32, 34, 35, 41, 45, 59, 60, 61, 62, 72, 74, 75, 79, 83, 92, 93, 94, 98, 121, 135, 143, 144, 145, 146, 147, 153, 159, 162], "ga": [6, 99], "dynam": [6, 20, 30, 34, 49, 72, 75, 144], "merg": [6, 13, 25, 28, 53, 55, 56, 59, 119], "earli": [6, 20, 139], "mjb": [6, 17], "rjl": [6, 17, 108, 125], "fulli": [6, 49, 52, 53, 122, 126, 135, 146, 153, 154], "consid": [6, 40, 49, 59, 67, 86, 108, 141, 148, 159], "adjac": [6, 16, 32, 46, 112, 139, 143], "equival": [6, 45, 53, 54, 60, 61, 74, 125, 131, 157], "copi": [6, 14, 15, 16, 36, 37, 45, 52, 55, 56, 59, 68, 85, 88, 98, 103, 109, 110, 111, 112, 116, 120, 123, 127, 139, 140, 144, 148, 151, 152, 157, 162], "interior": [6, 16, 40, 74, 103], "howev": [6, 13, 16, 22, 32, 36, 37, 40, 42, 47, 49, 52, 59, 62, 64, 67, 69, 72, 73, 74, 83, 86, 93, 112, 113, 121, 123, 125, 138, 139, 142, 146, 156], "lie": [6, 32, 33, 35, 67, 69, 112, 126, 137], "outsid": [6, 16, 39, 60, 67, 126, 137, 139, 157, 159], "li": [6, 16, 32, 35, 69, 112, 137], "along": [6, 14, 16, 24, 27, 30, 32, 40, 45, 52, 55, 58, 72, 74, 108, 112, 119, 133, 134, 137, 139, 146, 161], "proper": [6, 15, 40, 45, 53, 54, 55, 56, 60, 65, 67, 68, 94, 106, 115, 121, 140, 144, 145, 151, 152, 153, 162], "unless": [6, 32, 41, 42, 60, 99, 107, 138, 143, 144, 159], "standard": [6, 16, 30, 32, 34, 52, 54, 68, 74, 86, 89, 101, 108, 112, 113, 145, 146, 147, 148, 157, 162, 165], "beyond": [6, 30, 107, 123], "modifi": [6, 9, 14, 15, 16, 20, 22, 27, 32, 36, 37, 40, 45, 46, 55, 56, 59, 61, 63, 68, 71, 79, 86, 89, 91, 93, 98, 108, 109, 110, 111, 112, 118, 120, 121, 122, 123, 128, 137, 139, 140, 143, 145, 146, 147, 151, 152, 157, 159, 162], "damag": [6, 62, 83], "bcn": [6, 16, 147, 162], "nd": [6, 16, 112, 123, 126, 162], "actual": [6, 27, 30, 34, 54, 59, 60, 68, 72, 79, 89, 94, 106, 110, 138, 146], "softwar": [6, 13, 24, 25, 29, 46, 49, 62, 83, 93, 94, 95, 148, 157], "With": [6, 22, 28, 45, 50, 52, 59, 67, 75, 112, 120, 135, 137, 143], "opposit": [6, 16, 94], "side": [6, 16, 18, 32, 52, 55, 65, 72, 94, 113, 131, 132, 135, 165], "everi": [6, 12, 28, 32, 34, 45, 61, 63, 64, 74, 85, 88, 90, 94, 95, 103, 112, 113, 121, 122, 135, 139, 141, 143, 145, 147, 153, 157, 159, 162], "few": [6, 12, 13, 22, 26, 29, 37, 49, 55, 67, 68, 86, 101, 105, 107, 112, 113, 126, 138, 155, 157, 162], "coarsest": [6, 34, 52, 74, 115, 134, 143], "revis": [6, 121], "shock": [6, 17, 49, 101, 112], "accord": [6, 54], "criteria": [6, 7, 22, 25, 32, 67, 103], "cluster": [6, 17, 112, 144, 145], "rigoutsi": 6, "bergerrigoutsis91": [6, 17], "nonoverlap": 6, "rectangl": [6, 7, 25, 30, 34, 67, 72, 112, 126, 159], "balanc": [6, 17, 75, 122, 136, 151, 152], "conflict": [6, 28, 59, 63, 68, 104, 108], "goal": 6, "possibl": [6, 13, 22, 26, 28, 30, 32, 34, 35, 45, 48, 49, 52, 61, 62, 63, 72, 79, 83, 91, 94, 96, 97, 101, 106, 108, 112, 135, 137, 138, 143, 144, 157, 161, 162], "minim": [6, 59, 67, 94, 137, 144, 159], "overhead": [6, 73, 112, 156], "cutoff": [6, 145], "control": [6, 7, 23, 25, 32, 34, 42, 45, 55, 59, 61, 68, 74, 81, 84, 89, 91, 93, 94, 95, 96, 98, 112, 121, 126, 136, 146], "fraction": [6, 13, 30, 112, 143, 162, 165], "70": [6, 34, 52], "realli": [6, 69, 113, 162], "At": [6, 13, 27, 28, 34, 36, 37, 40, 67, 96, 101, 105, 107, 112, 126, 143], "present": [6, 24, 60, 69, 91, 99, 100, 101, 106, 148, 162, 165], "previous": [6, 22, 32, 67, 74, 81, 119, 126, 139], "bilinear": [6, 32, 40, 45, 54, 69, 115, 116, 157], "doxygen": [6, 7, 25, 122], "flowchart": [6, 7, 25], "capabl": [7, 12, 22, 32, 34, 45, 49, 53, 61, 67, 75, 86, 93, 115, 120, 121, 123, 124, 125, 126, 127, 131, 132, 159, 161], "block": [7, 30, 40, 60, 72, 74, 75, 85, 94, 103, 106, 113, 162], "structur": [7, 10, 22, 32, 34, 35, 39, 56, 59, 63, 75, 100, 101, 121, 137, 142, 159], "input": [7, 14, 16, 20, 23, 25, 27, 30, 33, 35, 41, 46, 52, 60, 64, 67, 68, 74, 85, 88, 89, 91, 93, 99, 100, 101, 106, 110, 120, 123, 124, 125, 135, 145, 146, 147, 153, 154, 157, 159, 162], "indic": [7, 16, 20, 22, 25, 29, 30, 32, 34, 39, 40, 42, 45, 46, 52, 54, 56, 59, 64, 68, 69, 77, 81, 91, 95, 96, 99, 101, 105, 108, 112, 113, 121, 126, 128, 135, 136, 143, 144, 145, 146, 147, 149, 157, 159, 162], "tool": [7, 8, 17, 22, 23, 28, 30, 32, 33, 34, 35, 36, 37, 40, 46, 47, 48, 49, 52, 54, 57, 58, 59, 60, 68, 72, 77, 78, 79, 80, 82, 93, 108, 111, 116, 117, 121, 122, 126, 127, 146, 148, 157, 159, 161, 163], "matlab": [7, 22, 25, 36, 37, 77, 78, 79, 97, 107, 123, 126, 127], "deprec": [7, 30, 46, 55, 59, 119, 123, 131, 157, 159], "debug": [7, 42, 63, 74, 78, 95, 103, 108, 113, 131, 143, 145], "flag": [7, 12, 13, 22, 25, 28, 29, 39, 41, 42, 46, 53, 59, 73, 86, 104, 106, 108, 119, 124, 128, 145, 146], "sampl": [7, 8, 14, 17, 25, 29, 32, 42, 45, 46, 52, 61, 72, 108, 113, 131, 134, 137, 143, 144, 157, 159, 162], "ghost": [7, 16, 73, 74, 91, 94, 101, 103, 121, 128, 132, 143, 145, 147, 156, 162, 165], "flagregion": [7, 25, 67, 112, 126, 128, 137, 144, 146], "rule": [7, 13, 25, 60, 67, 86], "convex": [7, 32], "slu": 7, "bounding_box": [7, 33], "mask_outsid": [7, 67], "write": [7, 28, 30, 33, 34, 35, 39, 40, 45, 46, 51, 54, 55, 65, 72, 74, 75, 78, 85, 88, 91, 92, 94, 95, 96, 100, 121, 123, 145, 147, 153, 157, 159], "instanti": [7, 88, 96, 98, 101, 103, 132, 145, 147], "make_kml": 7, "simpl": [7, 29, 36, 37, 39, 46, 56, 69, 72, 86, 93, 98, 99, 101, 106, 111, 113, 159], "select": [7, 12, 13, 15, 16, 28, 32, 40, 67, 95, 101, 109, 112, 115, 122, 126, 133, 140, 143, 146, 151, 152, 161], "continent": [7, 67], "shelf": [7, 67], "guid": [7, 13, 17, 18, 23, 24, 25, 46, 47, 53, 58, 93, 107, 112, 122, 126, 131, 132, 150], "adjoint": [7, 17, 25, 53, 112, 123, 124], "gaug": [7, 25, 32, 34, 46, 60, 69, 91, 92, 103, 110, 115, 119, 120, 121, 122, 123, 126, 131, 134, 138, 142, 145], "extend": [8, 16, 22, 40, 60, 67, 68, 91, 123, 137, 139, 146, 157, 159, 165], "directli": [8, 19, 23, 32, 46, 49, 58, 68, 72, 79, 81, 85, 86, 89, 93, 103, 106, 108, 123, 131, 159, 163], "obviou": [8, 52], "elimin": [8, 22, 67, 86, 108, 123, 146], "gallery_classic_amrclaw": [8, 36], "num_cel": [8, 22, 91, 135, 143, 144, 145, 147], "refinement_ratios_i": [8, 144, 145], "sweep": [8, 135], "transvers": [8, 91, 121, 128, 135, 136, 143, 162, 165], "graph": 9, "understand": [9, 25, 36, 37, 49, 78, 93, 105, 112, 135], "filpatch": [9, 40, 121, 125, 128], "idea": [10, 24, 30, 67, 68, 75, 85, 105, 116, 159, 165], "overal": [10, 85], "who": [10, 12, 19, 22, 24, 32, 42, 49, 57], "gori": 10, "monster": 10, "column": [10, 30, 32, 45, 49, 61, 95, 99, 119, 137, 159], "markup": 11, "languag": [11, 78, 106], "restructur": [11, 55], "text": [11, 55, 56, 60, 74, 88, 94, 101, 119], "sphinx": [11, 23, 25, 56, 122], "covert": 11, "convert_readm": 11, "brows": [11, 24, 43, 52, 68, 148, 162], "insert": [11, 16, 72, 94, 141], "script": [11, 19, 20, 28, 30, 32, 41, 45, 52, 55, 63, 68, 75, 78, 83, 86, 90, 92, 93, 95, 96, 101, 106, 108, 113, 123, 127, 135, 142, 146, 147, 159], "invok": [11, 14, 73, 139, 160], "minor": [11, 52, 55, 95, 115, 116, 117, 118, 119, 120, 121, 122, 123, 124, 126, 128, 130, 132], "syntax": [11, 58, 141], "highlight": [11, 13], "header": [11, 30, 32, 34, 40, 45, 54, 67, 72, 74, 94, 100, 119, 121, 123, 153, 157, 159], "complex": [12, 34, 39, 91], "archiv": [12, 21, 37, 52, 56, 113, 148, 155, 159, 161], "github": [12, 15, 22, 23, 24, 25, 26, 29, 53, 55, 58, 59, 90, 98, 102, 109, 113, 118, 120, 121, 122, 131, 133, 135, 136, 140, 151, 152, 160], "app": [12, 13, 18, 23, 26, 28, 29, 32, 38, 43, 44, 72, 110, 111, 118, 122, 123, 124, 125, 126, 127, 128, 129, 130, 131, 132, 136], "com": [12, 13, 23, 24, 26, 28, 29, 53, 55, 56, 58, 59, 94, 96, 98, 102, 118, 120, 121, 122, 131, 133, 136], "fvmbook": [12, 43], "galleri": [12, 25, 36, 37, 38, 43, 56, 77, 78, 90, 93, 107, 113, 118, 122, 148, 155, 162], "anim": [12, 16, 34, 43, 52, 119, 126, 127, 131, 148], "instal": [12, 13, 18, 23, 25, 29, 36, 44, 52, 55, 56, 81, 83, 84, 87, 92, 94, 105, 107, 113, 114, 115, 116, 117, 118, 119, 120, 121, 122, 123, 124, 125, 126, 127, 128, 129, 130, 131, 132, 133, 141, 164], "collect": [12, 25, 26, 28, 30, 32, 72, 78, 85, 101, 148], "either": [12, 16, 20, 30, 32, 34, 40, 46, 47, 52, 61, 63, 67, 68, 72, 74, 79, 81, 85, 91, 93, 94, 95, 101, 106, 108, 112, 113, 119, 120, 121, 123, 131, 135, 137, 139, 144, 146, 153, 157, 159, 162, 165], "clone": [12, 18, 23, 24, 43, 53, 55, 56, 59, 82, 96, 102, 111, 131, 132, 160], "git": [12, 13, 23, 24, 25, 26, 53, 56, 59, 93, 102, 113, 125], "navig": [12, 29, 55, 148], "green": [12, 60, 67, 72, 79, 113, 159], "button": [12, 13, 28, 52, 60, 122], "download": [12, 13, 28, 29, 30, 37, 38, 40, 46, 52, 56, 58, 59, 90, 96, 102, 123, 124, 133, 155, 159, 160, 161], "zip": [12, 52, 56], "illustr": [12, 25, 30, 32, 36, 44, 52, 67, 68, 72, 74, 111, 118, 119, 123, 125, 135, 137, 148, 159], "variou": [12, 20, 22, 30, 34, 39, 44, 49, 55, 68, 69, 72, 79, 81, 91, 105, 107, 108, 112, 121, 135, 142, 146, 153], "visibl": [12, 13, 44, 52, 111, 148], "render": [12, 22, 44, 52, 60, 163], "advantag": [12, 34, 45, 61, 78, 94, 107, 113, 137], "independ": [12, 23, 30, 34, 35], "contact": [12, 90, 93, 102], "u": [12, 13, 16, 24, 29, 32, 34, 35, 48, 49, 56, 57, 59, 61, 83, 90, 93, 99, 102, 103, 104, 105, 110, 122, 135, 144, 147, 153, 161], "storm": [12, 17, 24, 25, 46, 119, 122, 123, 124, 125, 127, 128, 129], "surg": [12, 17, 24, 25, 46, 119, 122, 123, 124, 125, 128, 153], "empti": [12, 34, 45, 100, 103, 106, 108, 143, 146, 153, 159], "gitmodul": 12, "pull": [12, 24, 26, 29, 55, 56, 58, 90, 98, 113, 118, 121, 122, 128, 131, 135], "request": [12, 24, 26, 30, 34, 35, 45, 55, 58, 74, 85, 90, 91, 95, 98, 100, 113, 121, 123, 128, 135, 146, 153, 159], "init": [12, 25, 28, 40, 46, 53, 56, 58, 138, 146], "leav": [12, 13, 16, 45, 59, 144, 159], "off": [12, 13, 45, 49, 52, 60, 68, 81, 88, 95, 112, 131, 144, 149, 159], "won": [12, 13, 67, 86, 159], "hurt": [12, 64], "maintain": [12, 28, 107, 123, 144, 157, 162], "flavor": [12, 21, 94], "demonstr": [12, 25, 90, 96], "agre": [12, 28, 40, 54, 135, 156, 159, 162], "seen": [12, 22, 32, 36, 37, 38, 49, 73, 98, 143, 148], "cloud": 13, "elast": [13, 72], "sign": [13, 24, 79, 128, 153], "account": [13, 24, 28, 56, 87, 96, 134], "750": 13, "free": [13, 52, 63, 72, 83, 87, 98, 102, 104], "micro": 13, "suffici": [13, 16, 20, 34, 45, 72, 73, 74, 110, 115, 131, 143, 146], "tier": 13, "inform": [13, 14, 22, 25, 32, 33, 35, 36, 37, 47, 48, 49, 50, 51, 59, 64, 74, 79, 80, 81, 85, 86, 91, 93, 95, 96, 97, 99, 100, 106, 108, 120, 123, 124, 126, 132, 133, 134, 135, 138, 141, 143, 144, 146, 153, 156, 157, 160, 161, 162, 163], "uw": [13, 24], "escienc": 13, "aw": 13, "tutori": [13, 29, 56, 81, 84, 88, 93, 102, 108, 111], "gear": 13, "faq": [13, 25, 78], "price": 13, "charg": 13, "per": [13, 30, 35, 45, 52, 60, 68, 73, 94, 144], "thereof": 13, "regardless": [13, 35, 40, 67, 112, 143], "cpu": [13, 53, 120, 123, 125, 156], "consol": [13, 95, 146], "tab": [13, 55, 133], "east": [13, 157], "cheaper": 13, "rate": 13, "menu": [13, 18, 25, 55, 60, 122, 131, 132, 133, 138, 161], "imag": [13, 36, 37, 40, 56, 60, 67, 113, 123, 137], "platform": [13, 52, 88, 96, 107, 113], "finish": [13, 79, 85], "load": [13, 60, 95, 97, 100, 106, 113, 159, 163], "databas": [13, 30, 72, 106, 110, 123, 157], "uwamath": 13, "bar": [13, 55, 153], "screen": [13, 28, 52, 60, 88, 95, 96, 120, 145, 147], "shapshot": 13, "machin": [13, 25, 73, 75, 113, 121, 141], "disk": [13, 45, 85, 94, 95, 113, 121], "ubuntu": 13, "linux": [13, 71, 82, 104, 113, 141], "popup": 13, "look": [13, 14, 22, 25, 28, 30, 40, 52, 55, 56, 60, 68, 79, 81, 86, 91, 96, 100, 101, 105, 106, 108, 113, 116, 123, 132, 137, 143, 144, 146, 156, 159, 160], "sort": [13, 40, 123, 142, 160], "larger": [13, 20, 32, 52, 60, 72, 73, 74, 79, 91, 115, 121, 128, 144, 146, 157], "cost": [13, 101], "continu": [13, 22, 28, 30, 50, 55, 83, 107, 135, 143, 165], "eventu": [13, 46, 126], "don": [13, 27, 28, 55, 56, 79, 95, 96, 102, 113, 145, 160], "pair": [13, 94, 113, 159], "secur": 13, "quick": [13, 25, 37, 46, 47, 57, 82, 113, 155], "close": [13, 40, 52, 55, 60, 67, 68, 94, 112, 126, 144, 153], "back": [13, 27, 29, 55, 56, 122], "statu": [13, 28, 51, 88, 105], "wait": 13, "until": [13, 32, 61, 67, 139], "refresh": [13, 45], "bottom": [13, 15, 30, 36, 37, 46, 49, 65, 67, 72, 85, 98, 99, 121, 122, 140, 151, 152], "scroll": 13, "down": [13, 30, 95, 120, 153, 157, 159], "dn": 13, "screenshot": [13, 52], "rjlkei": 13, "pem": 13, "abl": [13, 55, 108], "ssh": [13, 28], "keypair": 13, "50": [13, 17, 32, 52, 69, 101, 116, 145], "19": [13, 17, 24, 129, 130, 133, 156], "75": [13, 17, 89, 105, 137], "229": 13, "amazonaw": 13, "gfortran": [13, 59, 73, 82, 84, 104, 141, 160], "ipython": [13, 75, 79, 81, 86, 87, 93, 95, 102, 105, 108, 119, 120], "scipi": [13, 35, 86, 107, 153, 159], "netcdf": [13, 35, 42, 46, 120, 123, 125, 127, 153, 159, 161], "apach": 13, "server": [13, 29, 40, 52, 55, 56, 67, 123, 157, 161], "apt": [13, 82], "fetch": [13, 48], "bring": [13, 52, 55, 68, 146], "master": [13, 15, 25, 29, 55, 56, 59, 98, 109, 120, 121, 122, 123, 124, 125, 126, 127, 128, 129, 130, 131, 132, 133, 136, 140, 151, 152], "make_lib": 13, "compil": [13, 25, 36, 37, 41, 47, 59, 64, 73, 75, 81, 82, 86, 93, 94, 98, 102, 106, 115, 135, 136, 141], "bashrc": [13, 42, 104, 141], "Of": [13, 26, 72, 105, 110, 157], "cours": [13, 26, 32, 45, 47, 61, 72, 96, 97, 105, 107, 110, 146, 157], "tar": [13, 60, 125, 133], "instruct": [13, 18, 24, 25, 36, 37, 40, 52, 53, 55, 56, 85, 87, 93, 96, 102, 105, 108, 122, 129, 131, 132, 133, 134, 160], "window": [13, 30, 68, 81, 141], "respons": [13, 49, 85, 100], "pretti": 13, "slow": [13, 52, 95, 104], "_plot": [13, 36, 37, 45, 68, 81, 142, 148], "local": [13, 17, 20, 25, 28, 52, 55, 60, 63, 64, 68, 89, 91, 98, 103, 121, 123, 132, 139, 157, 159, 162], "sftp": 13, "much": [13, 28, 32, 34, 42, 52, 74, 75, 78, 82, 107, 112, 115, 119, 126, 131, 132, 137, 143, 146, 156, 159], "smaller": [13, 34, 52, 65, 75, 91, 95, 115, 131, 139, 143, 145, 146, 147, 159], "quicker": [13, 137], "browser": [13, 28, 29, 36, 37, 52, 55, 148], "explain": [13, 32, 49, 67, 128, 143, 148], "webserv": 13, "inbound": 13, "port": [13, 29, 92, 93, 98, 144], "22": [13, 24, 144, 159], "80": [13, 17, 52, 96, 137], "drop": [13, 55, 82, 126, 128, 139, 143], "tcp": 13, "Then": [13, 16, 28, 29, 30, 34, 45, 55, 56, 57, 64, 67, 72, 73, 81, 85, 88, 96, 102, 103, 104, 108, 135, 137, 159, 160], "someth": [13, 27, 28, 55, 63, 71, 78, 95, 100, 101, 108, 157, 160, 162], "shot": 13, "ln": 13, "expos": [13, 75], "home": [13, 29, 30, 59, 141], "scp": 13, "TO": [13, 62, 83], "send": [13, 24, 98, 135], "remot": [13, 52, 56, 123, 159, 161], "rel": [13, 20, 30, 41, 47, 49, 52, 72, 73, 79, 93, 106, 108, 113, 116, 117, 118, 119, 120, 121, 122, 123, 124, 125, 126, 127, 128, 129, 130, 131, 132, 138, 144, 146, 148, 157, 161], "end": [13, 29, 30, 32, 34, 45, 48, 52, 56, 60, 88, 95, 99, 105, 107, 110, 112, 120, 121, 123, 134, 136, 137, 145, 147, 153, 156], "retriev": [13, 35, 48, 81, 86, 101, 159, 161], "sit": 13, "idl": 13, "action": [13, 14, 86], "restart": [13, 25, 45, 74, 81, 93, 120, 121, 122, 123, 125, 128, 132, 143, 145, 147], "later": [13, 34, 35, 40, 51, 52, 59, 81, 101, 134], "But": [13, 32, 40, 52, 69, 79, 104, 116, 123, 139, 141], "futur": [13, 22, 25, 26, 36, 37, 40, 49, 54, 60, 65, 85, 101, 107, 120, 121, 123, 126, 132, 144, 149, 153, 157], "job": [13, 130], "eb": 13, "runclaw": [14, 51, 116, 125, 127, 135], "autom": [14, 55, 86, 113], "certain": [14, 32, 46, 58, 67, 95, 112, 120, 137, 143], "keep": [14, 25, 28, 32, 33, 35, 36, 37, 73, 85, 88, 93, 103, 106, 113, 116], "log": [14, 25, 28, 29, 91, 92, 93, 100, 101], "came": 14, "rundir": [14, 88], "environ": [14, 25, 28, 36, 37, 38, 41, 51, 52, 55, 58, 59, 68, 71, 73, 75, 97, 104, 106, 108, 121, 159, 160], "noth": [15, 61, 103, 124, 140, 151, 152, 159, 162], "rememb": [15, 27, 73, 79, 96, 140, 151, 152], "b4step1": [15, 64, 162], "b4step2": [15, 140, 162], "b4step3": 15, "branch": [15, 18, 25, 29, 42, 51, 53, 56, 58, 59, 109, 113, 122, 123, 124, 125, 126, 127, 128, 129, 130, 131, 132, 133, 140, 151, 152], "tag": [15, 52, 56, 58, 109, 140, 144, 145, 151, 152], "bathymetri": [15, 46, 49, 52, 60, 99, 110, 121, 123, 136, 138, 140, 146, 157, 159], "area": [15, 22, 46, 101, 110, 121, 139, 140], "dy": [15, 48, 54, 60, 61, 74, 86, 91, 95, 119, 123, 140, 157, 159], "capac": [15, 99, 140, 143, 144, 145, 147], "length": [15, 30, 35, 49, 60, 72, 98, 103, 121, 128, 140, 143, 144, 145, 146, 162], "latter": [15, 45, 67, 69, 98, 126, 137, 140, 143, 153, 162], "quantiti": [15, 32, 35, 60, 68, 69, 88, 92, 93, 99, 103, 136, 140, 146], "coordinate_system": [15, 61, 140, 146], "impos": [16, 86, 112, 151, 152, 165], "chapter": [16, 135, 143, 162], "choic": [16, 46, 78, 101, 143, 145, 146, 147, 162], "bc_lower": [16, 85, 98, 105, 143, 145, 147], "bc_upper": [16, 85, 98, 105, 143, 145, 147], "extrap": [16, 98, 105, 143, 145], "outflow": [16, 143, 145, 147], "move": [16, 32, 36, 37, 46, 55, 59, 61, 72, 98, 112, 115, 117, 122, 146, 149, 157, 158], "normal": [16, 33, 34, 53, 55, 61, 79, 98, 108, 135, 136, 143, 144, 145, 146, 147], "fairli": [16, 49, 121], "good": [16, 28, 49, 52, 62, 73, 83, 105, 110, 113, 121, 128, 135], "outgo": 16, "let": [16, 46, 59, 83, 110, 122, 128, 135], "without": [16, 22, 41, 45, 49, 60, 62, 63, 64, 67, 68, 79, 81, 83, 89, 93, 94, 95, 106, 108, 113, 132, 137, 141, 145, 147, 153, 160, 162], "particularli": [16, 27, 29, 32, 34, 51, 52, 57, 58, 59, 72, 74, 108, 116, 119, 123, 128, 132, 139, 157], "perfect": 16, "hit": [16, 34, 68, 74, 81, 95, 143], "obliqu": 16, "angl": [16, 30, 48, 72], "perfectli": 16, "wall": [16, 42, 98, 105, 120, 123, 125, 143, 145, 147, 156], "veloc": [16, 32, 34, 48, 61, 68, 81, 98, 99, 105, 121, 131, 138, 143, 144, 145, 146, 147, 162], "momentum": [16, 32, 34, 35, 49, 61, 65, 95, 128, 136, 146, 157], "third": [16, 32, 54, 89, 156, 159], "acoust": [16, 29, 36, 37, 49, 84, 85, 88, 90, 93, 101, 102, 119, 135, 145, 162], "p": [16, 17, 29, 81, 83, 85, 91, 94, 95, 99, 103, 135, 165], "hu": [16, 34, 35, 61, 65, 99, 136, 146], "hv": [16, 34, 35, 61, 65, 136, 146], "equal": [16, 30, 32, 33, 34, 35, 52, 69, 72, 74, 96, 98, 112, 134, 137, 143, 145, 147, 157, 159], "far": [16, 39, 43, 67, 78, 124, 126, 128, 131], "symmetri": 16, "physic": [16, 45, 52, 86, 91, 93, 105, 112, 165], "slightli": [16, 40, 54, 121, 122, 128, 137], "complic": [16, 79, 86, 137, 142], "alwai": [16, 22, 26, 27, 28, 32, 34, 35, 42, 54, 55, 59, 68, 85, 94, 111, 112, 115, 116, 128, 132, 139, 143, 145, 147, 157, 162], "alon": [16, 52], "topographi": [16, 17, 25, 32, 33, 34, 35, 45, 46, 49, 54, 60, 65, 69, 72, 80, 110, 111, 115, 116, 117, 119, 120, 123, 126, 129, 132, 137, 138, 139, 151, 152, 158], "artifici": [16, 139], "ignor": [16, 52, 60, 94, 119, 128, 138, 159], "incom": 16, "truncat": [16, 34, 74, 94, 143], "spuriou": [16, 32, 113], "extropl": 16, "dry": [16, 17, 25, 32, 46, 99, 126, 129, 136, 139], "land": [16, 40, 46, 47, 52, 55, 56, 60, 67, 69, 80, 126, 139, 146, 159], "tank": [16, 49], "bc2amr": [16, 123], "calhounhelzellevequ": 16, "envis": 16, "fold": 16, "piec": [16, 49, 91], "glu": 16, "inflat": 16, "websit": [16, 52, 55, 148, 159], "bergercalhounhelzellevequ": 16, "hint": [16, 25, 46, 78, 81, 108, 146, 160], "suppos": [16, 64, 67, 68, 79, 108, 112], "bit": [16, 22, 30, 56, 94, 96, 104, 136], "examin": [16, 36, 37, 45, 67, 108, 131], "own": [16, 20, 24, 28, 34, 59, 85, 86, 92, 93, 102, 103, 110, 112, 123, 135, 148], "todo": [16, 135, 153, 159, 165], "poster": 17, "resourc": [17, 24, 28, 47, 107], "bale": 17, "rossmanith": 17, "siam": [17, 24, 25, 93, 135], "sci": 17, "24": [17, 52, 69, 137], "2002": 17, "955": [17, 137], "978": 17, "author": [17, 25, 46, 49, 89, 93, 94, 99, 111], "1989": 17, "hydrodynam": 17, "phy": 17, "82": 17, "64": [17, 91, 94, 96, 104], "84": [17, 52], "34": [17, 52, 60, 93], "2011": [17, 24, 83], "pp": 17, "1195": 17, "1206": 17, "adv": 17, "awr11": 17, "1998": 17, "anal": 17, "35": [17, 32, 54, 72, 93], "2298": 17, "2316": 17, "1984": 17, "partial": [17, 75, 110], "differenti": [17, 30], "53": 17, "484": 17, "512": 17, "rigoutso": 17, "1991": 17, "ieee": 17, "tran": 17, "sy": [17, 40, 67, 88, 145, 147], "man": [17, 25, 46, 49, 146, 151, 152], "cyber": 17, "21": [17, 68, 89, 91, 119, 120, 133], "1278": 17, "1286": 17, "2018": [17, 24, 55, 123, 124, 133], "phd": 17, "thesi": [17, 101], "pure": [17, 53, 81, 91, 93, 94, 96, 101, 113, 136], "appl": 17, "geophi": 17, "173": 17, "4055": 17, "4074": 17, "info": [17, 29, 30, 33, 34, 35, 45, 56, 60, 68, 88, 91, 94, 95, 101, 121, 131, 144, 145, 153], "analysi": 17, "evalu": [17, 27, 30, 34, 35, 65, 69, 85, 91, 101, 159, 162], "preprint": 17, "2000": [17, 54, 157, 159], "165": [17, 156], "126": [17, 159], "166": 17, "leveque96": 17, "1996": 17, "advect": [17, 79, 93, 96, 135, 136, 147, 162], "incompress": 17, "leveque1996": 17, "33": [17, 91, 137], "627": 17, "665": 17, "1997": [17, 93], "multi": [17, 52, 85, 115, 117, 120, 123, 162], "131": [17, 93], "327": [17, 93], "353": [17, 93], "wpalg": 17, "cambridg": 17, "press": [17, 96, 102], "uk": [17, 30], "gallery_fvmbook": 17, "acta": 17, "numerica": 17, "211": 17, "289": 17, "dg": 17, "actanum2011": 17, "techniqu": [17, 26], "2013": [17, 24, 93], "a351": [17, 93], "a377": [17, 93], "manuel": [17, 83, 93], "quezada": [17, 83, 93], "luna": [17, 83, 93], "matthew": [17, 83, 93], "kneplei": [17, 83, 93], "emmett": [17, 83, 93], "2012": [17, 22, 24, 49, 93], "scalabl": [17, 93], "c210": [17, 93], "c231": [17, 93], "sisc": [17, 93], "month": [17, 52, 93], "nov": [17, 93], "mandlietal2016": 17, "calhellev08": 17, "helzel": 17, "circular": 17, "spheric": [17, 52], "review": [17, 89], "2008": [17, 83, 89, 99], "723": 17, "752": 17, "leveque09": 17, "reproduc": [17, 54, 62, 83], "engin": [17, 52], "cise": 17, "11": [17, 32, 79, 99, 127, 128, 133], "2009": [17, 89, 94, 99], "27": [17, 52, 60, 69, 137], "levyon03": 17, "darryl": 17, "yong": 17, "solitari": 17, "layer": [17, 25, 45, 60, 91, 115, 117, 120, 121, 123], "media": 17, "math": [17, 52, 105], "63": [17, 137], "2003": 17, "1539": 17, "1560": 17, "mandli13a": 17, "72": [17, 52, 72], "91": 17, "2013it": 17, "aug": [17, 124], "mandli13b": 17, "dawson": 17, "36": [17, 48, 74, 91], "2014": [17, 24, 99, 114, 115, 116, 117, 118, 119, 133], "clint": 17, "okada85": [17, 30, 72], "okada": [17, 25, 30, 46, 111, 157, 161], "deform": [17, 30, 33, 35, 46, 72, 161], "due": [17, 24, 30, 40, 48, 72, 113, 122, 123, 128, 139, 149, 160], "shear": [17, 30], "tensil": 17, "fault": [17, 25, 30, 46, 111, 123, 130, 157, 161], "bull": [17, 30], "seism": [17, 30], "soc": [17, 30], "am": [17, 30], "1985": [17, 30], "1135": 17, "1154": 17, "octob": [18, 117, 118, 119, 125, 126, 129, 130, 132, 133], "2023": [18, 132, 133], "accompani": [18, 21, 131, 132], "featur": [18, 22, 25, 28, 32, 40, 52, 55, 68, 79, 86, 112, 113, 118, 120, 121, 123, 128, 131, 132, 133, 153, 157], "dev": [18, 24, 28, 55, 56, 96, 123, 124, 129, 130, 131, 132, 133], "diff": [18, 51, 56, 115, 116, 117, 118, 119, 120, 121, 122, 123, 124, 125, 126, 127, 128, 129, 130, 131, 132], "tarfil": [18, 56, 59, 122, 123, 124, 125, 126, 127, 128, 129, 130, 131, 132], "pip": [18, 25, 28, 52, 56, 57, 87, 93, 96, 102, 104, 108, 122, 123, 124, 125, 126, 127, 128, 129, 130, 131, 132, 133, 141], "doc": [18, 23, 24, 28, 30, 52, 56, 89, 106, 107, 108, 122, 123, 124, 125, 126, 127, 128, 129, 130, 131, 132, 150], "docker": [18, 25, 56, 57, 122, 123, 124, 125, 126, 127, 128, 129, 130, 131, 132, 164], "migrat": 19, "intermedi": [19, 32, 35, 72, 134, 162], "easiest": [19, 28, 42, 75, 79, 81, 112, 162], "bulk": [19, 85, 99, 105, 135, 145, 162], "convers": [19, 25, 86, 94, 112, 137, 157, 161], "convert43to46": 19, "inspect": [19, 20, 52], "broken": [19, 20, 28, 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"changes-to-visclaw"]], "Changes to riemann": [[18, "changes-to-riemann"], [115, "changes-to-riemann"], [116, "changes-to-riemann"], [117, "changes-to-riemann"], [118, "changes-to-riemann"], [119, "changes-to-riemann"], [120, "changes-to-riemann"], [121, "changes-to-riemann"], [122, "changes-to-riemann"], [123, "changes-to-riemann"], [124, "changes-to-riemann"], [125, "changes-to-riemann"], [126, "changes-to-riemann"], [127, "changes-to-riemann"], [128, "changes-to-riemann"], [129, "changes-to-riemann"], [130, "changes-to-riemann"], [131, "changes-to-riemann"], [132, "changes-to-riemann"]], "Changes to amrclaw": [[18, "changes-to-amrclaw"], [115, "changes-to-amrclaw"], [116, "changes-to-amrclaw"], [117, "changes-to-amrclaw"], [118, "changes-to-amrclaw"], [119, "changes-to-amrclaw"], [120, "changes-to-amrclaw"], [121, "changes-to-amrclaw"], [122, "changes-to-amrclaw"], [123, "changes-to-amrclaw"], [124, "changes-to-amrclaw"], [125, "changes-to-amrclaw"], [126, "changes-to-amrclaw"], [127, "changes-to-amrclaw"], [128, "changes-to-amrclaw"], [129, "changes-to-amrclaw"], [130, "changes-to-amrclaw"], [131, "changes-to-amrclaw"], [132, "changes-to-amrclaw"]], "Changes to geoclaw": [[18, "changes-to-geoclaw"], [115, "changes-to-geoclaw"], [116, "changes-to-geoclaw"], [117, "changes-to-geoclaw"], [118, "changes-to-geoclaw"], [119, "changes-to-geoclaw"], [120, "changes-to-geoclaw"], [121, "changes-to-geoclaw"], [122, "changes-to-geoclaw"], [123, "changes-to-geoclaw"], [124, "changes-to-geoclaw"], [125, "changes-to-geoclaw"], [126, "changes-to-geoclaw"], [127, "changes-to-geoclaw"], [128, "changes-to-geoclaw"], [129, "changes-to-geoclaw"], [130, "changes-to-geoclaw"], [131, "changes-to-geoclaw"], [132, "changes-to-geoclaw"]], "Changes to PyClaw": [[18, "changes-to-pyclaw"], [114, "changes-to-pyclaw"], [115, "changes-to-pyclaw"], [116, "changes-to-pyclaw"], [117, "changes-to-pyclaw"], [118, "changes-to-pyclaw"], [119, "changes-to-pyclaw"], [120, "changes-to-pyclaw"], [121, "changes-to-pyclaw"], [122, "changes-to-pyclaw"], [123, "changes-to-pyclaw"], [124, "changes-to-pyclaw"], [125, "changes-to-pyclaw"], [126, "changes-to-pyclaw"], [127, "changes-to-pyclaw"], [128, "changes-to-pyclaw"], [129, "changes-to-pyclaw"], [130, "changes-to-pyclaw"], [131, "changes-to-pyclaw"], [132, "changes-to-pyclaw"]], "Other Clawpack Repositories": [[18, "other-clawpack-repositories"], [122, "other-clawpack-repositories"], [123, "other-clawpack-repositories"], [124, "other-clawpack-repositories"], [125, "other-clawpack-repositories"], [126, "other-clawpack-repositories"], [127, "other-clawpack-repositories"], [128, "other-clawpack-repositories"], [129, "other-clawpack-repositories"], [130, "other-clawpack-repositories"], [131, "other-clawpack-repositories"], [132, "other-clawpack-repositories"]], "Converting from Clawpack 4.3 to 4.6": [[19, "converting-from-clawpack-4-3-to-4-6"]], "Converting from Clawpack 4.6 to 5.0": [[20, "converting-from-clawpack-4-6-to-5-0"]], "Python conversion tool": [[20, "python-conversion-tool"]], "Clawpack 4.x links": [[21, "clawpack-4-x-links"]], "Changes in Clawpack 5.0": [[22, "changes-in-clawpack-5-0"]], "PyClaw in 5.0": [[22, "pyclaw-in-5-0"]], "Fortran package changes": [[22, "fortran-package-changes"]], "Changes to input parameters in setrun.py from 4.x to 5.0": [[22, "changes-to-input-parameters-in-setrun-py-from-4-x-to-5-0"]], "Changes to general parameters": [[22, "changes-to-general-parameters"]], "Changes to AMR parameters": [[22, "changes-to-amr-parameters"]], "Changes to GeoClaw parameters": [[22, "changes-to-geoclaw-parameters"]], "Changes to plotting routines": [[22, "changes-to-plotting-routines"]], "Clawpack components": [[23, "clawpack-components"]], "Other repositories": [[23, "other-repositories"]], "Clawpack Community": [[24, "clawpack-community"]], "User Workshops, Clinics, and Tutorials": [[24, "user-workshops-clinics-and-tutorials"]], "Available for streaming": [[24, "available-for-streaming"]], "Upcoming": [[24, "upcoming"], [24, "id1"]], "Recent": [[24, "recent"]], "Developer Workshops and Sprint Sessions": [[24, "developer-workshops-and-sprint-sessions"]], "Previous": [[24, "previous"]], "Other Clawpack events": [[24, "other-clawpack-events"]], "Contents": [[25, "id1"], [28, "contents"], [40, "contents"], [67, "contents"], [79, "contents"], [85, "contents"], [95, "contents"], [101, "contents"], [113, "contents"], [137, "contents"]], "Full Table of Contents": [[25, "full-table-of-contents"]], "Overview and Getting Started": [[25, "overview-and-getting-started"]], "Examples and Applications": [[25, "examples-and-applications"]], "Classic, AMRClaw, and GeoClaw": [[25, "classic-amrclaw-and-geoclaw"]], "Using the Fortran codes": [[25, "using-the-fortran-codes"]], "AMRClaw: adaptive mesh refinement": [[25, "amrclaw-adaptive-mesh-refinement"]], "GeoClaw: geophysical flows": [[25, "geoclaw-geophysical-flows"]], "PyClaw": [[25, "pyclaw"], [36, "pyclaw"], [93, "pyclaw"], [113, "pyclaw"], [155, "pyclaw"]], "Riemann": [[25, "riemann"]], "VisClaw: Plotting and Visualization Tools": [[25, "visclaw-plotting-and-visualization-tools"]], "Migrating applications from older versions of Clawpack": [[25, "migrating-applications-from-older-versions-of-clawpack"]], "Developers\u2019 resources": [[25, "developers-resources"]], "References": [[25, "references"], [53, "references"]], "Contributing examples and applications": [[26, "contributing-examples-and-applications"]], "current_data": [[27, "current-data"]], "Attributes of current_data:": [[27, "attributes-of-current-data"]], "Developers\u2019 Guide": [[28, "developers-guide"]], "Guidelines for contributing": [[28, "guidelines-for-contributing"]], "Reporting and fixing bugs": [[28, "reporting-and-fixing-bugs"]], "Developer communication": [[28, "developer-communication"]], "Installation instructions for developers": [[28, "installation-instructions-for-developers"]], "Cloning the most recent code from Github": [[28, "cloning-the-most-recent-code-from-github"]], "Checking out the master branch on each repository": [[28, "checking-out-the-master-branch-on-each-repository"]], "Updating to the latest master branch": [[28, "updating-to-the-latest-master-branch"]], "Never commit to master": [[28, "never-commit-to-master"]], "Adding your fork as a remote": [[28, "adding-your-fork-as-a-remote"]], "Modifying code": [[28, "modifying-code"]], "Issuing a pull request": [[28, "issuing-a-pull-request"]], "Testing a pull request": [[28, "testing-a-pull-request"]], "Top-level pull requests": [[28, "top-level-pull-requests"]], "Git workflow": [[28, "git-workflow"]], "Catching errors with Pyflakes and Pylint": [[28, "catching-errors-with-pyflakes-and-pylint"]], "Checking test coverage": [[28, "checking-test-coverage"]], "Trouble-Shooting Tips": [[28, "trouble-shooting-tips"]], "Docker for Clawpack": [[29, "docker-for-clawpack"]], "Using Version 5.9.0 or above": [[29, "using-version-5-9-0-or-above"]], "Getting started": [[29, "getting-started"]], "Stopping a container": [[29, "stopping-a-container"]], "Restarting a container": [[29, "restarting-a-container"]], "Running Jupyter notebooks": [[29, "running-jupyter-notebooks"]], "Moving files between the docker container and the host machine": [[29, "moving-files-between-the-docker-container-and-the-host-machine"]], "Some other useful docker commands": [[29, "some-other-useful-docker-commands"]], "Creating your own docker image": [[29, "creating-your-own-docker-image"]], "Dockerfiles for binder": [[29, "dockerfiles-for-binder"]], "dtopotools module for moving topography": [[30, "dtopotools-module-for-moving-topography"]], "Documentation auto-generated from the module docstrings": [[30, "module-clawpack.geoclaw.dtopotools"], [33, "module-clawpack.geoclaw.fgmax_tools"], [35, "module-clawpack.geoclaw.fgout_tools"], [48, "module-clawpack.geoclaw.util"], [60, "module-clawpack.geoclaw.kmltools"], [159, "module-clawpack.geoclaw.topotools"]], "Fortran 77 vs. Fortran 90 files": [[31, "fortran-77-vs-fortran-90-files"]], "Fixed grid monitoring": [[32, "fixed-grid-monitoring"]], "Input file specification": [[32, "input-file-specification"], [34, "input-file-specification"]], "Different point styles": [[32, "different-point-styles"]], "Other attributes": [[32, "other-attributes"]], "Values to monitor": [[32, "values-to-monitor"]], "Choice of interpolation procedure": [[32, "choice-of-interpolation-procedure"], [34, "choice-of-interpolation-procedure"]], "A simple example": [[32, "a-simple-example"], [34, "a-simple-example"]], "Processing and plotting fgmax output": [[32, "processing-and-plotting-fgmax-output"]], "Format of the output files": [[32, "format-of-the-output-files"]], "fgmax_tools module for working with fgmax grids": [[33, "fgmax-tools-module-for-working-with-fgmax-grids"]], "Fixed grid output": [[34, "fixed-grid-output"], [146, "fixed-grid-output"]], "Format of fgout output": [[34, "format-of-fgout-output"]], "Using setplot.py to produce plots": [[34, "using-setplot-py-to-produce-plots"]], "Reading and plotting fgout arrays directly": [[34, "reading-and-plotting-fgout-arrays-directly"]], "fgout grid registration": [[34, "fgout-grid-registration"]], "fgout_tools module for working with fgout grids": [[35, "fgout-tools-module-for-working-with-fgout-grids"]], "Running an example": [[36, "running-an-example"], [37, "running-an-example"], [38, "running-an-example"]], "Classic": [[36, "classic"], [37, "classic"], [155, "classic"]], "Testing your Fortran installation and running an example": [[37, "testing-your-fortran-installation-and-running-an-example"]], "More examples": [[37, "more-examples"]], "Testing a PyClaw installation and running an example": [[38, "testing-a-pyclaw-installation-and-running-an-example"]], "From the Jupyter notebook": [[38, "from-the-jupyter-notebook"]], "From the IPython interpreter": [[38, "from-the-ipython-interpreter"]], "From the command line": [[38, "from-the-command-line"], [90, "from-the-command-line"]], "Specifying flagregions for adaptive refinement": [[39, "specifying-flagregions-for-adaptive-refinement"]], "Using ruled rectangles as flagregions": [[39, "using-ruled-rectangles-as-flagregions"]], "Force Cells to be Dry Initially": [[40, "force-cells-to-be-dry-initially"]], "Examples": [[40, "examples"], [45, "examples"], [67, "examples"], [93, "examples"], [137, "examples"]], "Sample topography from a 1/3 arcsecond DEM": [[40, "sample-topography-from-a-1-3-arcsecond-dem"], [67, "sample-topography-from-a-1-3-arcsecond-dem"]], "Creating the force_dry_init array": [[40, "creating-the-force-dry-init-array"]], "Create file to read into GeoClaw": [[40, "create-file-to-read-into-geoclaw"]], "Usage in GeoClaw Fortran code": [[40, "usage-in-geoclaw-fortran-code"]], "Internal GeoClaw modifications": [[40, "internal-geoclaw-modifications"]], "Fortran version": [[41, "fortran-version"]], "Makefiles": [[41, "makefiles"]], "More tips": [[41, "more-tips"]], "Fortran Compilers": [[42, "fortran-compilers"]], "FC environment variable": [[42, "fc-environment-variable"]], "FFLAGS environment variable": [[42, "fflags-environment-variable"]], "LFLAGS environment variable": [[42, "lflags-environment-variable"]], "Pre-Processor and the PPFLAGS environment variable": [[42, "pre-processor-and-the-ppflags-environment-variable"]], "gfortran compiler": [[42, "gfortran-compiler"]], "Intel fortran compiler": [[42, "intel-fortran-compiler"]], "Examples from the book FVMHP": [[43, "examples-from-the-book-fvmhp"]], "Available examples": [[43, "available-examples"]], "Clawpack Gallery": [[44, "clawpack-gallery"]], "Gauges": [[45, "gauges"]], "Gauge parameters in setrun": [[45, "gauge-parameters-in-setrun"]], "Plotting tools": [[45, "plotting-tools"]], "Plotting gauge locations": [[45, "plotting-gauge-locations"]], "GeoClaw Description and Detailed Contents": [[46, "geoclaw-description-and-detailed-contents"]], "Getting started with GeoClaw": [[47, "getting-started-with-geoclaw"]], "Running a GeoClaw code": [[47, "running-a-geoclaw-code"]], "Topography": [[47, "topography"]], "Plotting GeoClaw results": [[47, "plotting-geoclaw-results"]], "Setting up a new example": [[47, "setting-up-a-new-example"]], "geoclaw.util module of utility functions": [[48, "geoclaw-util-module-of-utility-functions"]], "Cautionary Hints on using GeoClaw": [[49, "cautionary-hints-on-using-geoclaw"]], "Tsunami hazard modeling": [[49, "tsunami-hazard-modeling"]], "GeoClaw plotting tools": [[50, "geoclaw-plotting-tools"]], "Plotting water depth or surface elevation": [[50, "plotting-water-depth-or-surface-elevation"]], "Tips on latitude-longitude coordinate axes": [[50, "tips-on-latitude-longitude-coordinate-axes"]], "Keeping track of repository versions with Git": [[51, "keeping-track-of-repository-versions-with-git"]], "Visualizing GeoClaw results in Google Earth": [[52, "visualizing-geoclaw-results-in-google-earth"]], "Basic requirements": [[52, "basic-requirements"]], "Optional GDAL library": [[52, "optional-gdal-library"]], "An example : The Chile 2010 tsunami event": [[52, "an-example-the-chile-2010-tsunami-event"]], "Plotting attributes needed for Google Earth": [[52, "plotting-attributes-needed-for-google-earth"]], "plotdata attributes": [[52, "plotdata-attributes"]], "plotfigure attributes": [[52, "plotfigure-attributes"]], "Creating the figures": [[52, "creating-the-figures"]], "plotaxes attributes": [[52, "plotaxes-attributes"]], "plotitem attributes": [[52, "plotitem-attributes"]], "Adding a colorbar overlay": [[52, "adding-a-colorbar-overlay"]], "Gauge plots": [[52, "gauge-plots"]], "Additional plotdata attributes": [[52, "additional-plotdata-attributes"]], "Plotting tips": [[52, "plotting-tips"]], "KML and KMZ files": [[52, "kml-and-kmz-files"]], "Tiling images for faster loading": [[52, "tiling-images-for-faster-loading"]], "Removing aliasing artifacts": [[52, "removing-aliasing-artifacts"]], "Creating multiple figures at different resolutions": [[52, "creating-multiple-figures-at-different-resolutions"]], "Mapping topography data to latitude/longitude coordinates": [[52, "mapping-topography-data-to-latitude-longitude-coordinates"]], "Publishing your results": [[52, "id1"]], "Using the GPU version of Clawpack": [[53, "using-the-gpu-version-of-clawpack"]], "Grid registration": [[54, "grid-registration"]], "NetCDF files": [[54, "netcdf-files"]], "Guide for updating this documentation": [[55, "guide-for-updating-this-documentation"]], "Git branches and tags": [[55, "git-branches-and-tags"]], "Configuration and style files": [[55, "configuration-and-style-files"]], "Updating the docs for a new release": [[55, "updating-the-docs-for-a-new-release"]], "To generate docs including previous versions": [[55, "to-generate-docs-including-previous-versions"]], "Updating for a new major version": [[55, "updating-for-a-new-major-version"]], "Updating the gallery": [[55, "updating-the-gallery"]], "Updating the webpages": [[55, "updating-the-webpages"]], "Extra files for webpages not built by Sphinx": [[55, "extra-files-for-webpages-not-built-by-sphinx"]], "Pages from other clawpack repositories": [[55, "pages-from-other-clawpack-repositories"]], "Guide for doing a Clawpack release": [[56, "guide-for-doing-a-clawpack-release"]], "Preparation": [[56, "preparation"]], "Version numbers": [[56, "version-numbers"]], "Release candidates": [[56, "release-candidates"]], "Create a tar file and a Github release": [[56, "create-a-tar-file-and-a-github-release"]], "Final release": [[56, "final-release"]], "Pypi": [[56, "pypi"]], "Zenodo": [[56, "zenodo"]], "Open Science Framework (OSF)": [[56, "open-science-framework-osf"]], "Updating the documentation": [[56, "updating-the-documentation"]], "Updating the apps repository": [[56, "updating-the-apps-repository"]], "Updating the Dockerfile": [[56, "updating-the-dockerfile"]], "Installing Clawpack": [[57, "installing-clawpack"]], "Next steps:": [[57, "next-steps"], [58, "next-steps"], [59, "next-steps"]], "Options for installing Clawpack Fortran codes": [[58, "options-for-installing-clawpack-fortran-codes"]], "tar file": [[58, "tar-file"]], "git clone": [[58, "git-clone"]], "pip install instructions": [[59, "pip-install-instructions"]], "Quick Installation of PyClaw with pip": [[59, "quick-installation-of-pyclaw-with-pip"]], "Quick Installation of all packages with pip": [[59, "quick-installation-of-all-packages-with-pip"]], "Using pip to install a different version": [[59, "using-pip-to-install-a-different-version"]], "Experimenting with code in the examples directories": [[59, "experimenting-with-code-in-the-examples-directories"]], "Troubleshooting pip install": [[59, "troubleshooting-pip-install"]], "kmltools module of utility functions": [[60, "kmltools-module-of-utility-functions"]], "Lagrangian gauges for particle tracking": [[61, "lagrangian-gauges-for-particle-tracking"]], "Specifying Lagrangian Gauges": [[61, "specifying-lagrangian-gauges"]], "Visclaw tools for plotting": [[61, "visclaw-tools-for-plotting"]], "An alternative using fgout grids": [[61, "an-alternative-using-fgout-grids"]], "Clawpack Makefiles": [[63, "clawpack-makefiles"]], "Applications directory Makefiles": [[63, "applications-directory-makefiles"]], "output": [[63, "output"]], "plots": [[63, "plots"]], "Variables": [[63, "variables"]], "Compiler flags": [[63, "compiler-flags"]], "Duplicate Base Source Name": [[63, "duplicate-base-source-name"]], "Library routines in Makefiles": [[64, "library-routines-in-makefiles"]], "Replacing files with the same name as library files": [[64, "replacing-files-with-the-same-name-as-library-files"]], "Using a modified library routine with a different name": [[64, "using-a-modified-library-routine-with-a-different-name"]], "Manning friction term": [[65, "manning-friction-term"]], "The mapc2p function": [[66, "the-mapc2p-function"]], "Marching Front algorithm": [[67, "marching-front-algorithm"]], "Function arguments": [[67, "function-arguments"]], "output array": [[67, "output-array"]], "creating a masked array": [[67, "creating-a-masked-array"]], "topofile mask for initializing dry points": [[67, "topofile-mask-for-initializing-dry-points"]], "fgmax points": [[67, "fgmax-points"]], "flag regions": [[67, "flag-regions"]], "The mask argument": [[67, "the-mask-argument"]], "The previous_pts_chosen argument": [[67, "the-previous-pts-chosen-argument"]], "Finding all points below a given elevation": [[67, "finding-all-points-below-a-given-elevation"]], "Create a buffer zone along shore": [[67, "create-a-buffer-zone-along-shore"]], "Choose points only near shore": [[67, "choose-points-only-near-shore"]], "Write out the masked array indicating fgmax points": [[67, "write-out-the-masked-array-indicating-fgmax-points"]], "Creating an AMR flag region": [[67, "creating-an-amr-flag-region"]], "Determining dry areas below MHW": [[67, "determining-dry-areas-below-mhw"]], "Plotting using Matlab": [[68, "plotting-using-matlab"]], "The Matlab search path": [[68, "the-matlab-search-path"]], "Creating output files": [[68, "creating-output-files"]], "The plotclaw command": [[68, "the-plotclaw-command"]], "The setplot file": [[68, "the-setplot-file"]], "The afterframe file": [[68, "the-afterframe-file"]], "Getting help": [[68, "getting-help"]], "Trouble shooting": [[68, "trouble-shooting"]], "Output files not found": [[68, "output-files-not-found"]], "MaxFrames not set": [[68, "maxframes-not-set"]], "Switching examples": [[68, "switching-examples"]], "Matlab Gallery": [[68, "matlab-gallery"]], "Nearshore interpolation": [[69, "nearshore-interpolation"]], "Using NetCDF output": [[70, "using-netcdf-output"]], "Creating a new application directory": [[71, "creating-a-new-application-directory"]], "Copying an existing example": [[71, "copying-an-existing-example"]], "Earthquake sources: Fault slip and the Okada model": [[72, "earthquake-sources-fault-slip-and-the-okada-model"]], "Fault slip on rectangular subfaults": [[72, "fault-slip-on-rectangular-subfaults"]], "Okada model": [[72, "okada-model"]], "Kinematic rupture": [[72, "kinematic-rupture"]], "Fault slip on triangular subfaults": [[72, "fault-slip-on-triangular-subfaults"]], "Using OpenMP": [[73, "using-openmp"]], "Using OpenMP with AMR": [[73, "using-openmp-with-amr"]], "Fixed grid output in GeoClaw": [[73, "fixed-grid-output-in-geoclaw"]], "Output data sytles and formats": [[74, "output-data-sytles-and-formats"]], "Output style": [[74, "output-style"]], "Output data formats": [[74, "output-data-formats"]], "ASCII output data format": [[74, "ascii-output-data-format"]], "fort.t0002": [[74, "fort-t0002"]], "fort.q0002": [[74, "fort-q0002"]], "Raw binary output data formats": [[74, "raw-binary-output-data-formats"]], "NetCDF output data format": [[74, "netcdf-output-data-format"]], "Output of aux arrays": [[74, "output-of-aux-arrays"]], "Which Clawpack solver should I use?": [[75, "which-clawpack-solver-should-i-use"]], "Installation and user interface": [[75, "installation-and-user-interface"]], "Algorithmic differences": [[75, "algorithmic-differences"]], "Parallel computing": [[75, "parallel-computing"]], "Clawpack Community Photos": [[76, "clawpack-community-photos"]], "2016 Developers\u2019 workshop at University of Washington": [[76, "id1"]], "2015 Developers\u2019 workshop at University of Utah": [[76, "id2"]], "2014 HPC3 workshop at KAUST": [[76, "id3"]], "2013 Claw-Dev workshop at UW": [[76, "id4"]], "2012 HPC3 workshop at KAUST": [[76, "id6"]], "2011 coding sprints at UW": [[76, "coding-sprints-at-uw"]], "2010 GeoClaw hacking UW": [[76, "geoclaw-hacking-uw"]], "Plotting examples": [[77, "plotting-examples"]], "Plotting with Visclaw": [[78, "plotting-with-visclaw"]], "Plotting as post-processing": [[78, "plotting-as-post-processing"]], "Plotting on the fly": [[78, "plotting-on-the-fly"]], "Plotting hints and FAQ": [[79, "plotting-hints-and-faq"]], "What\u2019s the difference between make .plots and make plots ?": [[79, "what-s-the-difference-between-make-plots-and-make-plots"]], "How to plot a something other than a component of q?": [[79, "how-to-plot-a-something-other-than-a-component-of-q"]], "How to add another curve to a plot, e.g. the true solution?": [[79, "how-to-add-another-curve-to-a-plot-e-g-the-true-solution"]], "How to change the title in a plot?": [[79, "how-to-change-the-title-in-a-plot"]], "How to specify outdir, the directory to find fort.* files for plotting?": [[79, "how-to-specify-outdir-the-directory-to-find-fort-files-for-plotting"]], "How to specify a different outdir for some plot item?": [[79, "how-to-specify-a-different-outdir-for-some-plot-item"]], "How to set plot parameters that are not provided as attributes of ClawPlotItem?": [[79, "how-to-set-plot-parameters-that-are-not-provided-as-attributes-of-clawplotitem"]], "How to change the size or background color of a figure?": [[79, "how-to-change-the-size-or-background-color-of-a-figure"]], "Specifying colormaps for pcolor or contourf plots": [[79, "specifying-colormaps-for-pcolor-or-contourf-plots"]], "How to debug setplot.py?": [[79, "how-to-debug-setplot-py"]], "Plotting routines for GeoClaw": [[80, "plotting-routines-for-geoclaw"]], "Plotting options in Python": [[81, "plotting-options-in-python"]], "Producing html plots from the command line": [[81, "producing-html-plots-from-the-command-line"]], "Producing a latex file with plots from the command line": [[81, "producing-a-latex-file-with-plots-from-the-command-line"]], "Setting plot parameters with a setplot function": [[81, "setting-plot-parameters-with-a-setplot-function"]], "Interactive plotting with Iplotclaw": [[81, "interactive-plotting-with-iplotclaw"]], "Access to current_data": [[81, "access-to-current-data"]], "printframes": [[81, "printframes"]], "Specifying what and how to plot": [[81, "specifying-what-and-how-to-plot"]], "Installation Prerequisites": [[82, "installation-prerequisites"]], "Operating system": [[82, "operating-system"]], "Fortran": [[82, "fortran"]], "Python": [[82, "python"]], "pip": [[82, "pip"]], "Git": [[82, "git"]], "About PyClaw": [[83, "about-pyclaw"]], "Contributors": [[83, "contributors"]], "PyClaw Basics": [[84, "pyclaw-basics"]], "Understanding Pyclaw Classes": [[85, "understanding-pyclaw-classes"]], "Flow of a Pyclaw Simulation": [[85, "flow-of-a-pyclaw-simulation"]], "Creation of a Pyclaw Solution": [[85, "creation-of-a-pyclaw-solution"]], "Creation of a Pyclaw Solver": [[85, "creation-of-a-pyclaw-solver"]], "Creating and Running a Simulation with Controller": [[85, "creating-and-running-a-simulation-with-controller"]], "Restarting a simulation": [[85, "restarting-a-simulation"]], "Outputting aux values": [[85, "outputting-aux-values"]], "Outputting derived quantities": [[85, "outputting-derived-quantities"], [95, "outputting-derived-quantities"]], "Porting a problem from Clawpack 4.6.x to PyClaw": [[86, "porting-a-problem-from-clawpack-4-6-x-to-pyclaw"]], "Running PyClaw in the cloud": [[87, "running-pyclaw-in-the-cloud"]], "Sage Math Cloud": [[87, "sage-math-cloud"]], "Pyclaw Controller Class": [[88, "pyclaw-controller-class"]], "pyclaw.controller.Controller": [[88, "pyclaw-controller-controller"]], "Pyclaw Limiters": [[89, "pyclaw-limiters"]], "clawpack.pyclaw.limiters.tvd": [[89, "module-clawpack.pyclaw.limiters.tvd"]], "CFL Independent Limiters": [[89, "cfl-independent-limiters"]], "CFL Dependent Limiters": [[89, "cfl-dependent-limiters"]], "Working with PyClaw\u2019s built-in examples": [[90, "working-with-pyclaw-s-built-in-examples"]], "Running and plotting examples": [[90, "running-and-plotting-examples"]], "Interactively in IPython": [[90, "interactively-in-ipython"]], "Built-in examples": [[90, "built-in-examples"]], "Adding new examples": [[90, "adding-new-examples"]], "PyClaw Geometry": [[91, "pyclaw-geometry"]], "Serial Geometry Objects": [[91, "serial-geometry-objects"]], "pyclaw.geometry.Domain": [[91, "pyclaw-geometry-domain"]], "pyclaw.geometry.Patch": [[91, "pyclaw-geometry-patch"]], "pyclaw.geometry.Grid": [[91, "pyclaw-geometry-grid"]], "pyclaw.geometry.Dimension": [[91, "pyclaw-geometry-dimension"]], "Parallel Geometry Objects": [[91, "parallel-geometry-objects"]], "petclaw.geometry.Domain": [[91, "petclaw-geometry-domain"]], "petclaw.geometry.Patch": [[91, "petclaw-geometry-patch"]], "Going Further": [[92, "going-further"]], "PyClaw installation": [[93, "pyclaw-installation"]], "Features": [[93, "features"]], "PyClaw Documentation": [[93, "pyclaw-documentation"]], "PyClaw Modules reference documentation": [[93, "pyclaw-modules-reference-documentation"]], "Riemann Solvers reference documentation": [[93, "riemann-solvers-reference-documentation"]], "Indices and tables": [[93, "indices-and-tables"]], "Citing PyClaw": [[93, "citing-pyclaw"]], "Pyclaw Input/Output Package": [[94, "pyclaw-input-output-package"]], "pyclaw.fileio.ascii": [[94, "module-clawpack.pyclaw.fileio.ascii"]], "pyclaw.fileio.binary": [[94, "module-clawpack.pyclaw.fileio.binary"]], "pyclaw.fileio.hdf5": [[94, "pyclaw-fileio-hdf5"]], "pyclaw.fileio.netcdf": [[94, "module-clawpack.pyclaw.fileio.netcdf"]], "PyClaw output": [[95, "pyclaw-output"]], "Output frames": [[95, "output-frames"]], "When output is saved/written": [[95, "when-output-is-saved-written"]], "Where and how output is written": [[95, "where-and-how-output-is-written"]], "What output is written": [[95, "what-output-is-written"]], "Outputting functionals": [[95, "outputting-functionals"]], "Using gauges": [[95, "using-gauges"]], "Logging": [[95, "logging"]], "Running in parallel": [[96, "running-in-parallel"]], "Installing PETSc": [[96, "installing-petsc"]], "Testing your installation": [[96, "testing-your-installation"], [155, "testing-your-installation"]], "Running and plotting an example": [[96, "running-and-plotting-an-example"]], "Tips for making your application run correctly in parallel": [[96, "tips-for-making-your-application-run-correctly-in-parallel"]], "Passing options to PETSc": [[96, "passing-options-to-petsc"]], "Plotting PyClaw results": [[97, "plotting-pyclaw-results"]], "Basics": [[97, "basics"]], "Plotting result from parallel runs": [[97, "plotting-result-from-parallel-runs"]], "Setting up your own problem": [[98, "setting-up-your-own-problem"]], "Writing the initialization script": [[98, "writing-the-initialization-script"]], "Setting initial conditions": [[98, "setting-initial-conditions"]], "Setting auxiliary variables": [[98, "setting-auxiliary-variables"]], "Setting boundary conditions": [[98, "setting-boundary-conditions"]], "Setting solver options": [[98, "setting-solver-options"]], "Using your own Riemann solver": [[98, "using-your-own-riemann-solver"]], "Adding source terms": [[98, "adding-source-terms"]], "Setting up the Makefile": [[98, "setting-up-the-makefile"]], "Riemann Solver Package": [[99, "riemann-solver-package"]], "Acoustics": [[99, "acoustics"]], "Advection": [[99, "advection"]], "Burgers Equation": [[99, "burgers-equation"]], "Euler Equations": [[99, "euler-equations"]], "Shallow Water Equations": [[99, "shallow-water-equations"]], "PyClaw Solutions": [[100, "pyclaw-solutions"]], "pyclaw.solution.Solution": [[100, "pyclaw-solution-solution"]], "Using PyClaw\u2019s solvers: Classic and SharpClaw": [[101, "using-pyclaw-s-solvers-classic-and-sharpclaw"]], "SharpClaw Solvers": [[101, "sharpclaw-solvers"]], "pyclaw.sharpclaw": [[101, "pyclaw-sharpclaw"]], "Pyclaw Classic Clawpack Solvers": [[101, "pyclaw-classic-clawpack-solvers"]], "pyclaw.classic.solver": [[101, "pyclaw-classic-solver"]], "Change to Custom BC Function Signatures": [[101, "change-to-custom-bc-function-signatures"]], "Installing PyClaw": [[102, "installing-pyclaw"]], "Dependencies: Python, gfortran, numpy, and matplotlib": [[102, "dependencies-python-gfortran-numpy-and-matplotlib"]], "Obtaining Python, numpy, and matplotlib": [[102, "obtaining-python-numpy-and-matplotlib"]], "Clawpack": [[102, "clawpack"]], "Testing your installation with nose": [[102, "testing-your-installation-with-nose"]], "Next steps": [[102, "next-steps"]], "PyClaw State": [[103, "pyclaw-state"]], "Serial pyclaw.state.State": [[103, "serial-pyclaw-state-state"]], "Parallel petclaw.state.State": [[103, "parallel-petclaw-state-state"]], "Troubleshooting": [[104, "troubleshooting"], [160, "troubleshooting"]], "Compilation errors": [[104, "compilation-errors"]], "Use Fortran-ordered arrays": [[104, "use-fortran-ordered-arrays"]], "Installation": [[104, "installation"]], "PyClaw tutorial: Solve the acoustics equations": [[105, "pyclaw-tutorial-solve-the-acoustics-equations"]], "The Solver": [[105, "the-solver"]], "The domain": [[105, "the-domain"]], "Initial condition": [[105, "initial-condition"]], "Problem-specific parameters": [[105, "problem-specific-parameters"]], "The controller": [[105, "the-controller"]], "Pyclaw Utility Module": [[106, "pyclaw-utility-module"]], "pyclaw.util": [[106, "module-clawpack.pyclaw.util"]], "Python Hints": [[107, "python-hints"]], "Dropping support for Python 2.7": [[107, "dropping-support-for-python-2-7"]], "References and tutorials": [[107, "references-and-tutorials"]], "Notebooks": [[107, "notebooks"]], "Python path": [[108, "python-path"]], "whichclaw.py": [[108, "whichclaw-py"]], "Which version was imported?": [[108, "which-version-was-imported"]], "sys.path": [[108, "sys-path"]], "easy-install.pth": [[108, "easy-install-pth"]], "PYTHONPATH": [[108, "pythonpath"], [141, "pythonpath"]], "qinit default routines": [[109, "qinit-default-routines"]], "qinit routine in GeoClaw": [[109, "qinit-routine-in-geoclaw"]], "Quick start guide for storm surge modeling": [[110, "quick-start-guide-for-storm-surge-modeling"]], "Quick start guide for tsunami modeling": [[111, "quick-start-guide-for-tsunami-modeling"]], "AMR refinement criteria": [[112, "amr-refinement-criteria"]], "Flagging criteria": [[112, "flagging-criteria"]], "flag2refine": [[112, "flag2refine"]], "Richardson extrapolation": [[112, "richardson-extrapolation"]], "Specifying AMR regions": [[112, "specifying-amr-regions"]], "Implementation": [[112, "implementation"]], "Flagging criteria in GeoClaw": [[112, "flagging-criteria-in-geoclaw"]], "Regression testing": [[113, "regression-testing"]], "Running the tests": [[113, "running-the-tests"], [113, "id2"]], "Fortran codes": [[113, "fortran-codes"]], "Travis continuous integration": [[113, "travis-continuous-integration"]], "Diff tools for checking test output": [[113, "diff-tools-for-checking-test-output"]], "chardiff tool for line-by-line comparison of output files": [[113, "chardiff-tool-for-line-by-line-comparison-of-output-files"]], "imagediff tool for pixel comparison of plots": [[113, "imagediff-tool-for-pixel-comparison-of-plots"]], "Running and writing tests in PyClaw": [[113, "running-and-writing-tests-in-pyclaw"]], "Running serial tests simultaneously": [[113, "running-serial-tests-simultaneously"]], "Running a specific test": [[113, "running-a-specific-test"]], "Doctests": [[113, "doctests"]], "Writing New Tests": [[113, "writing-new-tests"]], "v5.0.0 release notes": [[114, "v5-0-0-release-notes"]], "Changes to classic, riemann, amrclaw, geoclaw, visclaw": [[114, "changes-to-classic-riemann-amrclaw-geoclaw-visclaw"]], "v5.1.0 release notes": [[115, "v5-1-0-release-notes"]], "v5.2.0 release notes": [[116, "v5-2-0-release-notes"]], "v5.2.1 release notes": [[117, "v5-2-1-release-notes"]], "v5.2.2 release notes": [[118, "v5-2-2-release-notes"]], "v5.3.0 release notes": [[119, "v5-3-0-release-notes"]], "v5.3.1 release notes": [[120, "v5-3-1-release-notes"]], "v5.4.0 release notes": [[121, "v5-4-0-release-notes"]], "Global changes": [[121, "global-changes"]], "v5.4.1 release notes": [[122, "v5-4-1-release-notes"]], "Changes to documentation": [[122, "changes-to-documentation"], [123, "changes-to-documentation"]], "v5.5.0 release notes": [[123, "v5-5-0-release-notes"]], "v5.6.0 release notes": [[124, "v5-6-0-release-notes"]], "v5.6.1 release notes": [[125, "v5-6-1-release-notes"]], "v5.7.0 release notes": [[126, "v5-7-0-release-notes"]], "Python support": [[126, "python-support"]], "v5.7.1 release notes": [[127, "v5-7-1-release-notes"]], "v5.8.0 release notes": [[128, "v5-8-0-release-notes"]], "v5.8.1 release notes": [[129, "v5-8-1-release-notes"]], "v5.8.2 release notes": [[130, "v5-8-2-release-notes"]], "v5.9.0 release notes": [[131, "v5-9-0-release-notes"]], "v5.9.1 release notes": [[132, "v5-9-1-release-notes"]], "Releases of Clawpack and release notes": [[133, "releases-of-clawpack-and-release-notes"]], "Other notes:": [[133, "other-notes"]], "Releases:": [[133, "id1"]], "Clawpack 4.x": [[133, "clawpack-4-x"]], "Checkpointing and restarting": [[134, "checkpointing-and-restarting"]], "Checkpointing a computation": [[134, "checkpointing-a-computation"]], "Restarting a computation": [[134, "restarting-a-computation"]], "Modifying the Makefile for a restart": [[134, "modifying-the-makefile-for-a-restart"]], "Output files after a restart": [[134, "output-files-after-a-restart"]], "Riemann solvers": [[135, "riemann-solvers"]], "One-dimensional Riemann solver": [[135, "one-dimensional-riemann-solver"]], "Pointwise Riemann solvers": [[135, "pointwise-riemann-solvers"]], "f-wave Riemann solvers": [[135, "f-wave-riemann-solvers"]], "2D Riemann solvers": [[135, "d-riemann-solvers"]], "Using a custom solver": [[135, "using-a-custom-solver"]], "Adding a solver to the Riemann repository": [[135, "adding-a-solver-to-the-riemann-repository"]], "Shallow water Riemann solvers in Clawpack": [[136, "shallow-water-riemann-solvers-in-clawpack"]], "One dimension": [[136, "one-dimension"]], "Two dimensions": [[136, "two-dimensions"]], "Layered shallow water equations": [[136, "layered-shallow-water-equations"]], "Potentially useful contributions (what\u2019s missing)": [[136, "potentially-useful-contributions-whats-missing"]], "Demonstrations": [[136, "demonstrations"]], "Roe": [[136, "roe"]], "HLL": [[136, "hll"]], "Ruled Rectangles": [[137, "ruled-rectangles"]], "Relation to convex polygons": [[137, "relation-to-convex-polygons"]], "Other attributes and methods": [[137, "other-attributes-and-methods"]], "ds": [[137, "ds"]], "slu": [[137, "slu"]], "bounding_box": [[137, "bounding-box"]], "mask_outside": [[137, "mask-outside"]], "read and write, and instantiating from a file": [[137, "read-and-write-and-instantiating-from-a-file"]], "make_kml": [[137, "make-kml"]], "A GeoClaw AMR flag region": [[137, "a-geoclaw-amr-flag-region"]], "A simple rectangle": [[137, "a-simple-rectangle"]], "Defining a Ruled Rectangle covering selected cells": [[137, "defining-a-ruled-rectangle-covering-selected-cells"]], "Example covering the continental shelf": [[137, "example-covering-the-continental-shelf"]], "Setting sea_level": [[138, "setting-sea-level"]], "Set Eta Init \u2013 spatially varying initial surface elevation": [[139, "set-eta-init-spatially-varying-initial-surface-elevation"]], "Default behavior, adjusting sea level by seismic deformation": [[139, "default-behavior-adjusting-sea-level-by-seismic-deformation"]], "Other use cases": [[139, "other-use-cases"]], "setaux default routines": [[140, "setaux-default-routines"]], "setaux routine in GeoClaw": [[140, "setaux-routine-in-geoclaw"]], "Set environment variables": [[141, "set-environment-variables"]], "CLAW": [[141, "claw"]], "FC": [[141, "fc"]], "Using setplot.py to specify the desired plots": [[142, "using-setplot-py-to-specify-the-desired-plots"]], "Plotting Data Objects": [[142, "plotting-data-objects"]], "Overview": [[142, "overview"]], "Specifying classic run-time parameters in setrun.py": [[143, "specifying-classic-run-time-parameters-in-setrun-py"]], "Input": [[143, "input"], [144, "input"]], "Output": [[143, "output"], [144, "output"]], "Run-time parameters": [[143, "run-time-parameters"], [144, "run-time-parameters"]], "Specifying AMRClaw run-time parameters in setrun.py": [[144, "specifying-amrclaw-run-time-parameters-in-setrun-py"]], "Special AMR parameters": [[144, "special-amr-parameters"]], "Debugging flags for additional printing": [[144, "debugging-flags-for-additional-printing"]], "Sample setrun.py module for AMRClaw": [[145, "sample-setrun-py-module-for-amrclaw"]], "Specifying GeoClaw parameters in setrun.py": [[146, "specifying-geoclaw-parameters-in-setrun-py"]], "Additional AMR parameters": [[146, "additional-amr-parameters"]], "General geo parameters": [[146, "general-geo-parameters"]], "Topography data file parameters": [[146, "topography-data-file-parameters"]], "qinit data file parameters": [[146, "qinit-data-file-parameters"]], "Force some cells to be initially dry": [[146, "force-some-cells-to-be-initially-dry"]], "Adjust sea level in some regions": [[146, "adjust-sea-level-in-some-regions"]], "AMR refinement region parameters": [[146, "amr-refinement-region-parameters"]], "Deprecated Fixedgrid output parameters": [[146, "deprecated-fixedgrid-output-parameters"]], "Fixed grid maximum monitoring / arrival times": [[146, "fixed-grid-maximum-monitoring-arrival-times"]], "Storm Specification Data": [[146, "storm-specification-data"]], "Sample setrun.py module for classic Clawpack": [[147, "sample-setrun-py-module-for-classic-clawpack"]], "Saving and sharing results": [[148, "saving-and-sharing-results"]], "Making webpages of plots": [[148, "making-webpages-of-plots"]], "Sharing your results": [[148, "sharing-your-results"]], "Jupyter notebooks": [[148, "jupyter-notebooks"]], "Source terms for shallow water on the sphere": [[149, "source-terms-for-shallow-water-on-the-sphere"]], "Compiling the Sphinx documentation locally": [[150, "compiling-the-sphinx-documentation-locally"]], "src1d default routines": [[151, "src1d-default-routines"]], "src1d routine in GeoClaw": [[151, "src1d-routine-in-geoclaw"]], "src default routines": [[152, "src-default-routines"]], "src routine in GeoClaw": [[152, "src-routine-in-geoclaw"]], "Storm Specification Class and Tools": [[153, "storm-specification-class-and-tools"]], "Sources for Storm Surge Data": [[154, "sources-for-storm-surge-data"]], "Timing Statistics": [[156, "timing-statistics"]], "Topography data": [[157, "topography-data"]], "Downloading topography files": [[157, "downloading-topography-files"]], "NetCDF format": [[157, "netcdf-format"]], "Topography displacement files": [[157, "topography-displacement-files"]], "qinit data file": [[157, "qinit-data-file"]], "Python tools for working with topo and dtopo": [[158, "python-tools-for-working-with-topo-and-dtopo"]], "topotools module for working with topography data": [[159, "topotools-module-for-working-with-topography-data"]], "Troubleshooting Installation": [[160, "troubleshooting-installation"]], "Troubleshooting Fortran:": [[160, "troubleshooting-fortran"]], "Setting the Fortran compiler to be used by f2py (pip)": [[160, "setting-the-fortran-compiler-to-be-used-by-f2py-pip"]], "Trouble compiling Fortran code at the command line": [[160, "trouble-compiling-fortran-code-at-the-command-line"]], "Trouble running \u201cmake .exe\u201d": [[160, "trouble-running-make-exe"]], "Trouble running \u201cmake .data\u201d": [[160, "trouble-running-make-data"]], "Trouble running \u201cmake .output\u201d": [[160, "trouble-running-make-output"]], "Trouble running \u201cmake .plots\u201d": [[160, "trouble-running-make-plots"]], "Some sources of tsunami data": [[161, "some-sources-of-tsunami-data"]], "Topography / bathymetry": [[161, "topography-bathymetry"]], "Earthquake source models": [[161, "earthquake-source-models"]], "DART buoy data": [[161, "dart-buoy-data"]], "Tide gauges": [[161, "tide-gauges"]], "User files required for the Fortran code": [[162, "user-files-required-for-the-fortran-code"]], "Specifying the initial conditions": [[162, "specifying-the-initial-conditions"]], "Specifying the Riemann solver": [[162, "specifying-the-riemann-solver"]], "Specifying boundary conditions": [[162, "specifying-boundary-conditions"]], "Specifying problem-specific data": [[162, "specifying-problem-specific-data"]], "Specifying spatially-varying data using setaux": [[162, "specifying-spatially-varying-data-using-setaux"]], "Using b4step for work to be done before each time step": [[162, "using-b4step-for-work-to-be-done-before-each-time-step"]], "Using src for source terms": [[162, "using-src-for-source-terms"]], "Using src1d for source terms with AMRClaw": [[162, "using-src1d-for-source-terms-with-amrclaw"]], "Plotting with VisIt": [[163, "plotting-with-visit"]], "Clawpack Virtual Machine": [[164, "clawpack-virtual-machine"]], "Wave-propagation algorithms": [[165, "wave-propagation-algorithms"]], "One space dimension": [[165, "one-space-dimension"]], "Godunov\u2019s method": [[165, "godunov-s-method"]], "High-resolution methods": [[165, "high-resolution-methods"]], "f-wave formulation": [[165, "f-wave-formulation"]], "Capacity functions": [[165, "capacity-functions"]], "Source terms": [[165, "source-terms"]]}, "indexentries": {"clawplotaxes (built-in class)": [[0, "ClawPlotAxes"]], "gethandle()": [[0, "gethandle"], [2, "gethandle"], [3, "gethandle"]], "new_plotitem()": [[0, "new_plotitem"]], "clawplotdata (built-in class)": [[1, "ClawPlotData"]], "clearfigures()": [[1, "clearfigures"]], "clearframes()": [[1, "clearframes"]], "getaxes()": [[1, "getaxes"]], "getfigure()": [[1, "getfigure"]], "getframe()": [[1, "getframe"], [3, "getframe"]], "getitem()": [[1, "getitem"]], "iplotclaw()": [[1, "iplotclaw"]], "new_plotfigure()": [[1, "new_plotfigure"]], "plotframe()": [[1, "plotframe"]], "printframes()": [[1, "printframes"]], "showitems()": [[1, "showitems"]], "clawplotfigure (built-in class)": [[2, "ClawPlotFigure"]], "new_plotaxes()": [[2, "new_plotaxes"]], "clawplotitem (built-in class)": [[3, "ClawPlotItem"]], "csvfault (class in clawpack.geoclaw.dtopotools)": [[30, "clawpack.geoclaw.dtopotools.CSVFault"]], "dtopography (class in clawpack.geoclaw.dtopotools)": [[30, "clawpack.geoclaw.dtopotools.DTopography"]], "fault (class in clawpack.geoclaw.dtopotools)": [[30, "clawpack.geoclaw.dtopotools.Fault"]], "mo() (clawpack.geoclaw.dtopotools.fault method)": [[30, "clawpack.geoclaw.dtopotools.Fault.Mo"]], "mo() (clawpack.geoclaw.dtopotools.subfault method)": [[30, "clawpack.geoclaw.dtopotools.SubFault.Mo"]], "mw() (clawpack.geoclaw.dtopotools.fault method)": [[30, "clawpack.geoclaw.dtopotools.Fault.Mw"]], "mw() (in module clawpack.geoclaw.dtopotools)": [[30, "clawpack.geoclaw.dtopotools.Mw"]], "siftfault (class in clawpack.geoclaw.dtopotools)": [[30, "clawpack.geoclaw.dtopotools.SiftFault"]], "subfault (class in clawpack.geoclaw.dtopotools)": [[30, "clawpack.geoclaw.dtopotools.SubFault"]], "subdividedplanefault (class in clawpack.geoclaw.dtopotools)": [[30, "clawpack.geoclaw.dtopotools.SubdividedPlaneFault"]], "tensorproductfault (class in clawpack.geoclaw.dtopotools)": [[30, "clawpack.geoclaw.dtopotools.TensorProductFault"]], "ucsbfault (class in clawpack.geoclaw.dtopotools)": [[30, "clawpack.geoclaw.dtopotools.UCSBFault"]], "calculate_geometry() (clawpack.geoclaw.dtopotools.subfault method)": [[30, "clawpack.geoclaw.dtopotools.SubFault.calculate_geometry"]], "calculate_geometry_triangles() (clawpack.geoclaw.dtopotools.subfault method)": [[30, "clawpack.geoclaw.dtopotools.SubFault.calculate_geometry_triangles"]], "centers (clawpack.geoclaw.dtopotools.subfault property)": [[30, "clawpack.geoclaw.dtopotools.SubFault.centers"]], "clawpack.geoclaw.dtopotools": [[30, "module-clawpack.geoclaw.dtopotools"]], "containing_rect() (clawpack.geoclaw.dtopotools.fault method)": [[30, "clawpack.geoclaw.dtopotools.Fault.containing_rect"]], "convert_to_standard_units() (clawpack.geoclaw.dtopotools.subfault method)": [[30, "clawpack.geoclaw.dtopotools.SubFault.convert_to_standard_units"]], "coordinate_specification (clawpack.geoclaw.dtopotools.subfault attribute)": [[30, "clawpack.geoclaw.dtopotools.SubFault.coordinate_specification"]], "corners (clawpack.geoclaw.dtopotools.subfault property)": [[30, "clawpack.geoclaw.dtopotools.SubFault.corners"]], "create_dtopo_xy() (clawpack.geoclaw.dtopotools.fault method)": [[30, "clawpack.geoclaw.dtopotools.Fault.create_dtopo_xy"]], "create_dtopography() (clawpack.geoclaw.dtopotools.fault method)": [[30, "clawpack.geoclaw.dtopotools.Fault.create_dtopography"]], "dz_at_t() (clawpack.geoclaw.dtopotools.dtopography method)": [[30, "clawpack.geoclaw.dtopotools.DTopography.dZ_at_t"]], "dz_max() (clawpack.geoclaw.dtopotools.dtopography method)": [[30, "clawpack.geoclaw.dtopotools.DTopography.dZ_max"]], "depth (clawpack.geoclaw.dtopotools.subfault attribute)": [[30, "clawpack.geoclaw.dtopotools.SubFault.depth"]], "dip (clawpack.geoclaw.dtopotools.subfault attribute)": [[30, "clawpack.geoclaw.dtopotools.SubFault.dip"]], "dynamic_slip() (clawpack.geoclaw.dtopotools.subfault method)": [[30, "clawpack.geoclaw.dtopotools.SubFault.dynamic_slip"]], "gauss_pts (clawpack.geoclaw.dtopotools.subfault property)": [[30, "clawpack.geoclaw.dtopotools.SubFault.gauss_pts"]], "latitude (clawpack.geoclaw.dtopotools.subfault attribute)": [[30, "clawpack.geoclaw.dtopotools.SubFault.latitude"]], "length (clawpack.geoclaw.dtopotools.subfault attribute)": [[30, "clawpack.geoclaw.dtopotools.SubFault.length"]], "longitude (clawpack.geoclaw.dtopotools.subfault attribute)": [[30, "clawpack.geoclaw.dtopotools.SubFault.longitude"]], "module": [[30, "module-clawpack.geoclaw.dtopotools"], [33, "module-clawpack.geoclaw.fgmax_tools"], [35, "module-clawpack.geoclaw.fgout_tools"], [48, "module-clawpack.geoclaw.util"], [60, "module-clawpack.geoclaw.kmltools"], [89, "module-clawpack.pyclaw.limiters.tvd"], [94, "module-clawpack.pyclaw.fileio.ascii"], [94, 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"clawpack.geoclaw.dtopotools.DTopography.plot_dZ_contours"]], "plot_dz_contours() (in module clawpack.geoclaw.dtopotools)": [[30, "clawpack.geoclaw.dtopotools.plot_dZ_contours"]], "plot_subfaults() (clawpack.geoclaw.dtopotools.fault method)": [[30, "clawpack.geoclaw.dtopotools.Fault.plot_subfaults"]], "plot_subfaults_depth() (clawpack.geoclaw.dtopotools.fault method)": [[30, "clawpack.geoclaw.dtopotools.Fault.plot_subfaults_depth"]], "rake (clawpack.geoclaw.dtopotools.subfault attribute)": [[30, "clawpack.geoclaw.dtopotools.SubFault.rake"]], "read() (clawpack.geoclaw.dtopotools.csvfault method)": [[30, "clawpack.geoclaw.dtopotools.CSVFault.read"]], "read() (clawpack.geoclaw.dtopotools.dtopography method)": [[30, "clawpack.geoclaw.dtopotools.DTopography.read"]], "read() (clawpack.geoclaw.dtopotools.fault method)": [[30, "clawpack.geoclaw.dtopotools.Fault.read"]], "read() (clawpack.geoclaw.dtopotools.ucsbfault method)": [[30, "clawpack.geoclaw.dtopotools.UCSBFault.read"]], "rise_fraction() (in module clawpack.geoclaw.dtopotools)": [[30, "clawpack.geoclaw.dtopotools.rise_fraction"]], "rise_shape (clawpack.geoclaw.dtopotools.subfault attribute)": [[30, "clawpack.geoclaw.dtopotools.SubFault.rise_shape"]], "rise_time (clawpack.geoclaw.dtopotools.subfault attribute)": [[30, "clawpack.geoclaw.dtopotools.SubFault.rise_time"]], "rise_time_starting (clawpack.geoclaw.dtopotools.subfault attribute)": [[30, "clawpack.geoclaw.dtopotools.SubFault.rise_time_starting"]], "rupture_time (clawpack.geoclaw.dtopotools.subfault attribute)": [[30, "clawpack.geoclaw.dtopotools.SubFault.rupture_time"]], "rupture_type (clawpack.geoclaw.dtopotools.subfault attribute)": [[30, "clawpack.geoclaw.dtopotools.SubFault.rupture_type"]], "set_corners() (clawpack.geoclaw.dtopotools.subfault method)": [[30, "clawpack.geoclaw.dtopotools.SubFault.set_corners"]], "set_dynamic_slip() (clawpack.geoclaw.dtopotools.fault method)": [[30, "clawpack.geoclaw.dtopotools.Fault.set_dynamic_slip"]], "set_subfaults() (clawpack.geoclaw.dtopotools.siftfault method)": [[30, "clawpack.geoclaw.dtopotools.SiftFault.set_subfaults"]], "slip (clawpack.geoclaw.dtopotools.subfault attribute)": [[30, "clawpack.geoclaw.dtopotools.SubFault.slip"]], "strike (clawpack.geoclaw.dtopotools.subfault attribute)": [[30, "clawpack.geoclaw.dtopotools.SubFault.strike"]], "strike_direction() (in module clawpack.geoclaw.dtopotools)": [[30, "clawpack.geoclaw.dtopotools.strike_direction"]], "subdivide() (clawpack.geoclaw.dtopotools.subdividedplanefault method)": [[30, "clawpack.geoclaw.dtopotools.SubdividedPlaneFault.subdivide"]], "width (clawpack.geoclaw.dtopotools.subfault attribute)": [[30, "clawpack.geoclaw.dtopotools.SubFault.width"]], "write() (clawpack.geoclaw.dtopotools.dtopography method)": [[30, "clawpack.geoclaw.dtopotools.DTopography.write"]], "write() (clawpack.geoclaw.dtopotools.fault method)": [[30, "clawpack.geoclaw.dtopotools.Fault.write"]], "fgmaxgrid (class in clawpack.geoclaw.fgmax_tools)": [[33, "clawpack.geoclaw.fgmax_tools.FGmaxGrid"]], "adjust_fgmax_1d() (in module clawpack.geoclaw.fgmax_tools)": [[33, "clawpack.geoclaw.fgmax_tools.adjust_fgmax_1d"]], "bounding_box() (clawpack.geoclaw.fgmax_tools.fgmaxgrid method)": [[33, "clawpack.geoclaw.fgmax_tools.FGmaxGrid.bounding_box"]], "clawpack.geoclaw.fgmax_tools": [[33, "module-clawpack.geoclaw.fgmax_tools"]], "interp_dz() (clawpack.geoclaw.fgmax_tools.fgmaxgrid method)": [[33, "clawpack.geoclaw.fgmax_tools.FGmaxGrid.interp_dz"]], "ps4_to_arrays() (clawpack.geoclaw.fgmax_tools.fgmaxgrid method)": [[33, "clawpack.geoclaw.fgmax_tools.FGmaxGrid.ps4_to_arrays"]], "read_fgmax_grids_data() (clawpack.geoclaw.fgmax_tools.fgmaxgrid method)": [[33, "clawpack.geoclaw.fgmax_tools.FGmaxGrid.read_fgmax_grids_data"]], "read_output() (clawpack.geoclaw.fgmax_tools.fgmaxgrid method)": [[33, "clawpack.geoclaw.fgmax_tools.FGmaxGrid.read_output"]], "write_to_fgmax_data() (clawpack.geoclaw.fgmax_tools.fgmaxgrid method)": [[33, "clawpack.geoclaw.fgmax_tools.FGmaxGrid.write_to_fgmax_data"]], "b (clawpack.geoclaw.fgout_tools.fgoutframe property)": [[35, "clawpack.geoclaw.fgout_tools.FGoutFrame.B"]], "fgoutframe (class in clawpack.geoclaw.fgout_tools)": [[35, "clawpack.geoclaw.fgout_tools.FGoutFrame"]], "fgoutgrid (class in clawpack.geoclaw.fgout_tools)": [[35, "clawpack.geoclaw.fgout_tools.FGoutGrid"]], "x (clawpack.geoclaw.fgout_tools.fgoutgrid property)": [[35, "clawpack.geoclaw.fgout_tools.FGoutGrid.X"], [35, "clawpack.geoclaw.fgout_tools.FGoutGrid.x"]], "y (clawpack.geoclaw.fgout_tools.fgoutgrid property)": [[35, "clawpack.geoclaw.fgout_tools.FGoutGrid.Y"], [35, "clawpack.geoclaw.fgout_tools.FGoutGrid.y"]], "clawpack.geoclaw.fgout_tools": [[35, "module-clawpack.geoclaw.fgout_tools"]], "eta (clawpack.geoclaw.fgout_tools.fgoutframe property)": [[35, "clawpack.geoclaw.fgout_tools.FGoutFrame.eta"]], "extent_centers (clawpack.geoclaw.fgout_tools.fgoutgrid property)": [[35, "clawpack.geoclaw.fgout_tools.FGoutGrid.extent_centers"]], "extent_edges (clawpack.geoclaw.fgout_tools.fgoutgrid property)": [[35, "clawpack.geoclaw.fgout_tools.FGoutGrid.extent_edges"]], "get_as_array() (in module clawpack.geoclaw.fgout_tools)": [[35, "clawpack.geoclaw.fgout_tools.get_as_array"]], "h (clawpack.geoclaw.fgout_tools.fgoutframe property)": [[35, "clawpack.geoclaw.fgout_tools.FGoutFrame.h"]], "hss (clawpack.geoclaw.fgout_tools.fgoutframe property)": [[35, "clawpack.geoclaw.fgout_tools.FGoutFrame.hss"]], "hu (clawpack.geoclaw.fgout_tools.fgoutframe property)": [[35, "clawpack.geoclaw.fgout_tools.FGoutFrame.hu"]], "hv (clawpack.geoclaw.fgout_tools.fgoutframe property)": [[35, "clawpack.geoclaw.fgout_tools.FGoutFrame.hv"]], "make_fgout_fcn_xy() (in module clawpack.geoclaw.fgout_tools)": [[35, "clawpack.geoclaw.fgout_tools.make_fgout_fcn_xy"]], "make_fgout_fcn_xyt() (in module clawpack.geoclaw.fgout_tools)": [[35, "clawpack.geoclaw.fgout_tools.make_fgout_fcn_xyt"]], "print_netcdf_info() (in module clawpack.geoclaw.fgout_tools)": [[35, "clawpack.geoclaw.fgout_tools.print_netcdf_info"]], "read_fgout_grids_data() (clawpack.geoclaw.fgout_tools.fgoutgrid method)": [[35, "clawpack.geoclaw.fgout_tools.FGoutGrid.read_fgout_grids_data"]], "read_frame() (clawpack.geoclaw.fgout_tools.fgoutgrid method)": [[35, "clawpack.geoclaw.fgout_tools.FGoutGrid.read_frame"]], "read_netcdf() (in module clawpack.geoclaw.fgout_tools)": [[35, "clawpack.geoclaw.fgout_tools.read_netcdf"]], "read_netcdf_arrays() (in module clawpack.geoclaw.fgout_tools)": [[35, "clawpack.geoclaw.fgout_tools.read_netcdf_arrays"]], "s (clawpack.geoclaw.fgout_tools.fgoutframe property)": [[35, "clawpack.geoclaw.fgout_tools.FGoutFrame.s"]], "set_plotdata() (clawpack.geoclaw.fgout_tools.fgoutgrid method)": [[35, "clawpack.geoclaw.fgout_tools.FGoutGrid.set_plotdata"]], "u (clawpack.geoclaw.fgout_tools.fgoutframe property)": [[35, "clawpack.geoclaw.fgout_tools.FGoutFrame.u"]], "v (clawpack.geoclaw.fgout_tools.fgoutframe property)": [[35, "clawpack.geoclaw.fgout_tools.FGoutFrame.v"]], "write_netcdf() (in module clawpack.geoclaw.fgout_tools)": [[35, "clawpack.geoclaw.fgout_tools.write_netcdf"]], "write_to_fgout_data() (clawpack.geoclaw.fgout_tools.fgoutgrid method)": [[35, "clawpack.geoclaw.fgout_tools.FGoutGrid.write_to_fgout_data"]], "bearing() (in module clawpack.geoclaw.util)": [[48, "clawpack.geoclaw.util.bearing"]], "clawpack.geoclaw.util": [[48, "module-clawpack.geoclaw.util"]], "dist_latlong2meters() (in module clawpack.geoclaw.util)": [[48, "clawpack.geoclaw.util.dist_latlong2meters"]], "dist_meters2latlong() (in module clawpack.geoclaw.util)": [[48, "clawpack.geoclaw.util.dist_meters2latlong"]], "dms2decimal() (in module clawpack.geoclaw.util)": [[48, "clawpack.geoclaw.util.dms2decimal"]], "fetch_noaa_tide_data() (in module clawpack.geoclaw.util)": [[48, "clawpack.geoclaw.util.fetch_noaa_tide_data"]], "haversine() (in module clawpack.geoclaw.util)": [[48, "clawpack.geoclaw.util.haversine"]], "inv_haversine() (in module clawpack.geoclaw.util)": [[48, "clawpack.geoclaw.util.inv_haversine"]], "box2kml() (in module clawpack.geoclaw.kmltools)": [[60, "clawpack.geoclaw.kmltools.box2kml"]], "clawpack.geoclaw.kmltools": [[60, "module-clawpack.geoclaw.kmltools"]], "deg2dms() (in module clawpack.geoclaw.kmltools)": [[60, "clawpack.geoclaw.kmltools.deg2dms"]], "dtopo2kml() (in module clawpack.geoclaw.kmltools)": [[60, "clawpack.geoclaw.kmltools.dtopo2kml"]], "f2s() (in module clawpack.geoclaw.kmltools)": [[60, "clawpack.geoclaw.kmltools.f2s"]], "fgmax2kml() (in module clawpack.geoclaw.kmltools)": [[60, "clawpack.geoclaw.kmltools.fgmax2kml"]], "fgout2kml() (in module clawpack.geoclaw.kmltools)": [[60, "clawpack.geoclaw.kmltools.fgout2kml"]], "gauges2kml() (in module clawpack.geoclaw.kmltools)": [[60, "clawpack.geoclaw.kmltools.gauges2kml"]], "kml_build_colorbar() (in module clawpack.geoclaw.kmltools)": [[60, "clawpack.geoclaw.kmltools.kml_build_colorbar"]], "kml_cb() (in module clawpack.geoclaw.kmltools)": [[60, "clawpack.geoclaw.kmltools.kml_cb"]], "kml_png() (in module clawpack.geoclaw.kmltools)": [[60, "clawpack.geoclaw.kmltools.kml_png"]], "kml_timespan() (in module clawpack.geoclaw.kmltools)": [[60, "clawpack.geoclaw.kmltools.kml_timespan"]], "line2kml() (in module clawpack.geoclaw.kmltools)": [[60, "clawpack.geoclaw.kmltools.line2kml"]], "make_input_data_kmls() (in module clawpack.geoclaw.kmltools)": [[60, "clawpack.geoclaw.kmltools.make_input_data_kmls"]], "pcolorcells_for_kml() (in module clawpack.geoclaw.kmltools)": [[60, "clawpack.geoclaw.kmltools.pcolorcells_for_kml"]], "png2kml() (in module clawpack.geoclaw.kmltools)": [[60, "clawpack.geoclaw.kmltools.png2kml"]], "poly2kml() (in module clawpack.geoclaw.kmltools)": [[60, "clawpack.geoclaw.kmltools.poly2kml"]], "quad2kml() (in module clawpack.geoclaw.kmltools)": [[60, "clawpack.geoclaw.kmltools.quad2kml"]], "regions2kml() (in module clawpack.geoclaw.kmltools)": [[60, "clawpack.geoclaw.kmltools.regions2kml"]], "topo2kml() (in module clawpack.geoclaw.kmltools)": [[60, "clawpack.geoclaw.kmltools.topo2kml"]], "topo2kmz() (in module clawpack.geoclaw.kmltools)": [[60, "clawpack.geoclaw.kmltools.topo2kmz"]], "controller (class in clawpack.pyclaw.controller)": [[88, "clawpack.pyclaw.controller.Controller"]], "f_file_name (clawpack.pyclaw.controller.controller attribute)": [[88, "clawpack.pyclaw.controller.Controller.F_file_name"]], "f_path (clawpack.pyclaw.controller.controller property)": [[88, "clawpack.pyclaw.controller.Controller.F_path"]], "check_validity() (clawpack.pyclaw.controller.controller method)": [[88, "clawpack.pyclaw.controller.Controller.check_validity"]], "compute_f (clawpack.pyclaw.controller.controller attribute)": [[88, "clawpack.pyclaw.controller.Controller.compute_F"]], "compute_p (clawpack.pyclaw.controller.controller attribute)": [[88, "clawpack.pyclaw.controller.Controller.compute_p"]], "file_prefix_p (clawpack.pyclaw.controller.controller attribute)": [[88, "clawpack.pyclaw.controller.Controller.file_prefix_p"]], "frames (clawpack.pyclaw.controller.controller attribute)": [[88, "clawpack.pyclaw.controller.Controller.frames"]], "keep_copy (clawpack.pyclaw.controller.controller attribute)": [[88, "clawpack.pyclaw.controller.Controller.keep_copy"]], "nstepout (clawpack.pyclaw.controller.controller attribute)": [[88, "clawpack.pyclaw.controller.Controller.nstepout"]], "num_output_times (clawpack.pyclaw.controller.controller attribute)": [[88, "clawpack.pyclaw.controller.Controller.num_output_times"]], "out_times (clawpack.pyclaw.controller.controller attribute)": [[88, "clawpack.pyclaw.controller.Controller.out_times"]], "outdir (clawpack.pyclaw.controller.controller attribute)": [[88, "clawpack.pyclaw.controller.Controller.outdir"]], "outdir_p (clawpack.pyclaw.controller.controller property)": [[88, "clawpack.pyclaw.controller.Controller.outdir_p"]], "output_file_prefix (clawpack.pyclaw.controller.controller attribute)": [[88, "clawpack.pyclaw.controller.Controller.output_file_prefix"]], "output_format (clawpack.pyclaw.controller.controller attribute)": [[88, "clawpack.pyclaw.controller.Controller.output_format"]], "output_options (clawpack.pyclaw.controller.controller attribute)": [[88, "clawpack.pyclaw.controller.Controller.output_options"]], "output_style (clawpack.pyclaw.controller.controller attribute)": [[88, "clawpack.pyclaw.controller.Controller.output_style"]], "overwrite (clawpack.pyclaw.controller.controller attribute)": [[88, "clawpack.pyclaw.controller.Controller.overwrite"]], "plot() (clawpack.pyclaw.controller.controller method)": [[88, "clawpack.pyclaw.controller.Controller.plot"]], "plotdata (clawpack.pyclaw.controller.controller attribute)": [[88, "clawpack.pyclaw.controller.Controller.plotdata"]], "run() (clawpack.pyclaw.controller.controller method)": [[88, "clawpack.pyclaw.controller.Controller.run"]], "rundir (clawpack.pyclaw.controller.controller attribute)": [[88, "clawpack.pyclaw.controller.Controller.rundir"]], "runmake (clawpack.pyclaw.controller.controller attribute)": [[88, "clawpack.pyclaw.controller.Controller.runmake"]], "savecode (clawpack.pyclaw.controller.controller attribute)": [[88, "clawpack.pyclaw.controller.Controller.savecode"]], "solver (clawpack.pyclaw.controller.controller attribute)": [[88, "clawpack.pyclaw.controller.Controller.solver"]], "tfinal (clawpack.pyclaw.controller.controller attribute)": [[88, "clawpack.pyclaw.controller.Controller.tfinal"]], "verbosity (clawpack.pyclaw.controller.controller property)": [[88, "clawpack.pyclaw.controller.Controller.verbosity"]], "viewable_attributes (clawpack.pyclaw.controller.controller attribute)": [[88, "clawpack.pyclaw.controller.Controller.viewable_attributes"]], "write_aux_always (clawpack.pyclaw.controller.controller attribute)": [[88, "clawpack.pyclaw.controller.Controller.write_aux_always"]], "write_aux_init (clawpack.pyclaw.controller.controller attribute)": [[88, "clawpack.pyclaw.controller.Controller.write_aux_init"]], "xclawcmd (clawpack.pyclaw.controller.controller attribute)": [[88, "clawpack.pyclaw.controller.Controller.xclawcmd"]], "xclawerr (clawpack.pyclaw.controller.controller attribute)": [[88, "clawpack.pyclaw.controller.Controller.xclawerr"]], "xclawout (clawpack.pyclaw.controller.controller attribute)": [[88, "clawpack.pyclaw.controller.Controller.xclawout"]], "xdir (clawpack.pyclaw.controller.controller attribute)": [[88, "clawpack.pyclaw.controller.Controller.xdir"]], "arora_roe() (in module clawpack.pyclaw.limiters.tvd)": [[89, "clawpack.pyclaw.limiters.tvd.arora_roe"]], "beta_limiter() (in module clawpack.pyclaw.limiters.tvd)": [[89, "clawpack.pyclaw.limiters.tvd.beta_limiter"]], "cada_torrilhon_limiter() (in module clawpack.pyclaw.limiters.tvd)": [[89, "clawpack.pyclaw.limiters.tvd.cada_torrilhon_limiter"]], "cada_torrilhon_limiter_nonlinear() (in module 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(clawpack.pyclaw.geometry.dimension property)": [[91, "clawpack.pyclaw.geometry.Dimension.centers"]], "centers_with_ghost() (clawpack.pyclaw.geometry.dimension method)": [[91, "clawpack.pyclaw.geometry.Dimension.centers_with_ghost"]], "delta (clawpack.pyclaw.geometry.dimension property)": [[91, "clawpack.pyclaw.geometry.Dimension.delta"]], "delta (clawpack.pyclaw.geometry.patch property)": [[91, "clawpack.pyclaw.geometry.Patch.delta"]], "dimensional_split (clawpack.petclaw.geometry.domain attribute)": [[91, "clawpack.petclaw.geometry.Domain.dimensional_split"]], "dimensions (clawpack.pyclaw.geometry.grid property)": [[91, "clawpack.pyclaw.geometry.Grid.dimensions"]], "dimensions (clawpack.pyclaw.geometry.patch property)": [[91, "clawpack.pyclaw.geometry.Patch.dimensions"]], "fwave (clawpack.petclaw.geometry.domain attribute)": [[91, "clawpack.petclaw.geometry.Domain.fwave"]], "gauge_dir_name (clawpack.pyclaw.geometry.grid attribute)": [[91, "clawpack.pyclaw.geometry.Grid.gauge_dir_name"]], "gauge_file_names (clawpack.pyclaw.geometry.grid attribute)": [[91, "clawpack.pyclaw.geometry.Grid.gauge_file_names"]], "gauge_files (clawpack.pyclaw.geometry.grid attribute)": [[91, "clawpack.pyclaw.geometry.Grid.gauge_files"]], "gauges (clawpack.pyclaw.geometry.grid attribute)": [[91, "clawpack.pyclaw.geometry.Grid.gauges"]], "get_dim_attribute() (clawpack.pyclaw.geometry.grid method)": [[91, "clawpack.pyclaw.geometry.Grid.get_dim_attribute"]], "get_dim_attribute() (clawpack.pyclaw.geometry.patch method)": [[91, "clawpack.pyclaw.geometry.Patch.get_dim_attribute"]], "grid (clawpack.pyclaw.geometry.domain property)": [[91, "clawpack.pyclaw.geometry.Domain.grid"]], "kernel_language (clawpack.petclaw.geometry.domain attribute)": [[91, "clawpack.petclaw.geometry.Domain.kernel_language"]], "level (clawpack.pyclaw.geometry.patch attribute)": [[91, "clawpack.pyclaw.geometry.Patch.level"]], "lower_global (clawpack.pyclaw.geometry.patch property)": [[91, "clawpack.pyclaw.geometry.Patch.lower_global"]], "mthlim (clawpack.petclaw.geometry.domain attribute)": [[91, "clawpack.petclaw.geometry.Domain.mthlim"]], "name (clawpack.pyclaw.geometry.patch property)": [[91, "clawpack.pyclaw.geometry.Patch.name"]], "nodes (clawpack.pyclaw.geometry.dimension property)": [[91, "clawpack.pyclaw.geometry.Dimension.nodes"]], "nodes_with_ghost() (clawpack.pyclaw.geometry.dimension method)": [[91, "clawpack.pyclaw.geometry.Dimension.nodes_with_ghost"]], "num_cells_global (clawpack.pyclaw.geometry.patch property)": [[91, "clawpack.pyclaw.geometry.Patch.num_cells_global"]], "num_dim (clawpack.pyclaw.geometry.domain property)": [[91, "clawpack.pyclaw.geometry.Domain.num_dim"]], "num_dim (clawpack.pyclaw.geometry.grid property)": [[91, "clawpack.pyclaw.geometry.Grid.num_dim"]], "num_dim (clawpack.pyclaw.geometry.patch property)": [[91, "clawpack.pyclaw.geometry.Patch.num_dim"]], "order (clawpack.petclaw.geometry.domain attribute)": [[91, 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"clawpack.pyclaw.fileio.ascii.read_array"]], "read_patch_header() (in module clawpack.pyclaw.fileio.ascii)": [[94, "clawpack.pyclaw.fileio.ascii.read_patch_header"]], "read_t() (in module clawpack.pyclaw.fileio.ascii)": [[94, "clawpack.pyclaw.fileio.ascii.read_t"]], "write() (in module clawpack.pyclaw.fileio.ascii)": [[94, "clawpack.pyclaw.fileio.ascii.write"]], "write() (in module clawpack.pyclaw.fileio.netcdf)": [[94, "clawpack.pyclaw.fileio.netcdf.write"]], "write_array() (in module clawpack.pyclaw.fileio.ascii)": [[94, "clawpack.pyclaw.fileio.ascii.write_array"]], "acoustics_1d() (in module clawpack.riemann.acoustics_1d_py)": [[99, "clawpack.riemann.acoustics_1D_py.acoustics_1D"]], "advection_1d() (in module clawpack.riemann.advection_1d_py)": [[99, "clawpack.riemann.advection_1D_py.advection_1D"]], "burgers_1d() (in module clawpack.riemann.burgers_1d_py)": [[99, "clawpack.riemann.burgers_1D_py.burgers_1D"]], "clawpack.riemann.acoustics_1d_py": [[99, "module-clawpack.riemann.acoustics_1D_py"]], "clawpack.riemann.advection_1d_py": [[99, "module-clawpack.riemann.advection_1D_py"]], "clawpack.riemann.burgers_1d_py": [[99, "module-clawpack.riemann.burgers_1D_py"]], "clawpack.riemann.euler_1d_py": [[99, "module-clawpack.riemann.euler_1D_py"]], "clawpack.riemann.shallow_1d_py": [[99, "module-clawpack.riemann.shallow_1D_py"]], "euler_exact_1d() (in module clawpack.riemann.euler_1d_py)": [[99, "clawpack.riemann.euler_1D_py.euler_exact_1D"]], "euler_hll_1d() (in module clawpack.riemann.euler_1d_py)": [[99, "clawpack.riemann.euler_1D_py.euler_hll_1D"]], "euler_hllc_1d() (in module clawpack.riemann.euler_1d_py)": [[99, "clawpack.riemann.euler_1D_py.euler_hllc_1D"]], "euler_roe_1d() (in module clawpack.riemann.euler_1d_py)": [[99, "clawpack.riemann.euler_1D_py.euler_roe_1D"]], "shallow_exact_1d() (in module clawpack.riemann.shallow_1d_py)": [[99, "clawpack.riemann.shallow_1D_py.shallow_exact_1D"]], "shallow_fwave_1d() (in module 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(clawpack.pyclaw.solution.solution property)": [[100, "clawpack.pyclaw.solution.Solution.start_frame"]], "state (clawpack.pyclaw.solution.solution property)": [[100, "clawpack.pyclaw.solution.Solution.state"]], "write() (clawpack.pyclaw.solution.solution method)": [[100, "clawpack.pyclaw.solution.Solution.write"]], "clawsolver (class in clawpack.pyclaw.classic.solver)": [[101, "clawpack.pyclaw.classic.solver.ClawSolver"]], "sharpclawsolver (class in clawpack.pyclaw.sharpclaw.solver)": [[101, "clawpack.pyclaw.sharpclaw.solver.SharpClawSolver"]], "accept_reject_step() (clawpack.pyclaw.sharpclaw.solver.sharpclawsolver method)": [[101, "clawpack.pyclaw.sharpclaw.solver.SharpClawSolver.accept_reject_step"]], "aux_time_dep (clawpack.pyclaw.sharpclaw.solver.sharpclawsolver attribute)": [[101, "clawpack.pyclaw.sharpclaw.solver.SharpClawSolver.aux_time_dep"]], "call_before_step_each_stage (clawpack.pyclaw.sharpclaw.solver.sharpclawsolver attribute)": [[101, "clawpack.pyclaw.sharpclaw.solver.SharpClawSolver.call_before_step_each_stage"]], "cfl_desired (clawpack.pyclaw.sharpclaw.solver.sharpclawsolver attribute)": [[101, "clawpack.pyclaw.sharpclaw.solver.SharpClawSolver.cfl_desired"]], "cfl_max (clawpack.pyclaw.sharpclaw.solver.sharpclawsolver attribute)": [[101, "clawpack.pyclaw.sharpclaw.solver.SharpClawSolver.cfl_max"]], "char_decomp (clawpack.pyclaw.sharpclaw.solver.sharpclawsolver attribute)": [[101, "clawpack.pyclaw.sharpclaw.solver.SharpClawSolver.char_decomp"]], "check_3rd_ord_cond() (clawpack.pyclaw.sharpclaw.solver.sharpclawsolver method)": [[101, "clawpack.pyclaw.sharpclaw.solver.SharpClawSolver.check_3rd_ord_cond"]], "dq() (clawpack.pyclaw.sharpclaw.solver.sharpclawsolver method)": [[101, "clawpack.pyclaw.sharpclaw.solver.SharpClawSolver.dq"]], "dq_src (clawpack.pyclaw.sharpclaw.solver.sharpclawsolver attribute)": [[101, "clawpack.pyclaw.sharpclaw.solver.SharpClawSolver.dq_src"]], "dqdt() 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clawpack.geoclaw.topotools)": [[159, "clawpack.geoclaw.topotools.topo1writer"]], "topo2writer() (in module clawpack.geoclaw.topotools)": [[159, "clawpack.geoclaw.topotools.topo2writer"]], "topo3writer() (in module clawpack.geoclaw.topotools)": [[159, "clawpack.geoclaw.topotools.topo3writer"]], "write() (clawpack.geoclaw.topotools.topography method)": [[159, "clawpack.geoclaw.topotools.Topography.write"]]}}) \ No newline at end of file diff --git a/dev/topotools_module.html b/dev/topotools_module.html index fe10c0740..af4927768 100644 --- a/dev/topotools_module.html +++ b/dev/topotools_module.html @@ -136,7 +136,7 @@

Navigation

-class clawpack.geoclaw.topotools.Topography(path=None, topo_type=None, topo_func=None, unstructured=False)
+class clawpack.geoclaw.topotools.Topography(path=None, topo_func=None, topo_type=None, unstructured=False)

Base topography class.

A class representing a single topography file.

diff --git a/fgmax_tools_module.html b/fgmax_tools_module.html index 4a6d5dd01..57692bb96 100644 --- a/fgmax_tools_module.html +++ b/fgmax_tools_module.html @@ -127,27 +127,8 @@

Navigation

-read_output(fgno=None, outdir=None, verbose=True, indexing='ij')
+read_output(fgno=None, outdir=None, verbose=True)

Read the GeoClaw results on the fgmax grid numbered fgno.

-
-
indexing=’ij’ gives backward compatibility.

X[i,j],Y[i,j] corresponds to point x[i],y[j]

-
-
-

Alternatively, can set indexing==’xy’ so that X,Y and other -arrays have same layout as topo arrays:

- -
-

X[j,i],Y[j,i] corresponds to point x[i],y[j]

-
- -

This is useful if you want to save the fgmax results in same format as -topofiles, using topotools.Topography.write().

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"dtopotools module for moving topography", "Fortran 77 vs. Fortran 90 files", "Fixed grid monitoring", "fgmax_tools module for working with fgmax grids", "Fixed grid output", "fgout_tools module for working with fgout grids", "Running an example", "Testing your Fortran installation and running an example", "Testing a PyClaw installation and running an example", "Specifying flagregions for adaptive refinement", "Force Cells to be Dry Initially", "Fortran version", "Fortran Compilers", "Examples from the book FVMHP", "Clawpack Gallery", "Gauges", "GeoClaw Description and Detailed Contents", "Getting started with GeoClaw", "geoclaw.util module of utility functions", "Cautionary Hints on using GeoClaw", "GeoClaw plotting tools", "Keeping track of repository versions with Git", "Visualizing GeoClaw results in Google Earth", "Using the GPU version of Clawpack", "Grid registration", "Guide for updating this documentation", "Guide for doing a Clawpack release", "Installing Clawpack", "Options 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132, 133, 134, 135, 138, 144, 157, 159, 161, 165], "mappedgrid": [3, 68], "map": [3, 16, 29, 30, 40, 60, 67, 68, 79, 83, 86, 91, 93, 98, 112, 119, 123, 128, 136, 159, 165], "mapc2p": [3, 25, 27, 68, 86, 91, 128], "underli": [3, 52, 121], "requir": [3, 4, 16, 20, 22, 25, 27, 30, 32, 34, 35, 36, 37, 41, 46, 48, 49, 56, 59, 67, 68, 72, 75, 78, 81, 82, 85, 86, 91, 94, 97, 98, 101, 102, 103, 105, 106, 107, 112, 113, 115, 116, 119, 121, 124, 126, 128, 131, 135, 136, 137, 142, 143, 144, 145, 146, 147, 153, 154, 157, 160, 163, 165], "depend": [3, 13, 16, 28, 29, 30, 32, 35, 36, 37, 41, 42, 47, 49, 52, 63, 65, 68, 72, 79, 84, 94, 99, 100, 101, 106, 108, 112, 123, 139, 144, 146, 159, 160, 162, 165], "summar": [3, 28, 31, 112, 114, 162], "plotstyl": [3, 45, 79, 142], "anyth": [3, 6, 28, 29, 59, 64, 113, 123], "valid": [3, 49, 72, 88, 95, 100, 103, 121, 146, 153, 154, 159], "fmt": 3, "group": [3, 13, 24, 28, 30, 49, 90, 94, 96, 104, 120, 135], "solid": [3, 16, 52, 72, 98, 142, 143, 145, 147], 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16, 22, 26, 28, 34, 42, 52, 54, 56, 57, 63, 69, 71, 73, 78, 79, 94, 98, 110, 111, 112, 113, 123, 133, 135, 146, 150, 153, 157, 162], "descript": [3, 4, 6, 9, 22, 23, 25, 30, 35, 60, 68, 72, 75, 78, 93, 94, 106, 110, 112, 135, 136, 146, 153, 157, 165], "celledges_show": [3, 22], "draw": 3, "amr_celledges_show": 3, "level": [3, 6, 7, 16, 23, 27, 29, 32, 34, 39, 40, 45, 46, 47, 48, 49, 52, 55, 56, 58, 59, 68, 69, 73, 74, 86, 88, 91, 93, 94, 95, 101, 108, 109, 112, 113, 115, 116, 120, 121, 123, 126, 134, 137, 138, 141, 143, 144, 145, 147, 156, 157, 159, 161, 162], "patchedges_show": [3, 22], "mostli": [3, 78, 93, 126], "contour_level": [3, 159], "three": [3, 13, 17, 22, 30, 32, 35, 49, 52, 64, 68, 72, 96, 100, 106, 113, 137, 143, 146, 157, 159, 162], "contour_nlevel": 3, "contour_min": 3, "minimum": [3, 32, 45, 52, 72, 105, 121, 146, 159], "contour_max": 3, "maximum": [3, 22, 30, 32, 33, 34, 46, 68, 69, 101, 105, 112, 115, 116, 123, 126, 143, 144, 145, 147, 153, 154], "contour_color": 3, 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69, 123, 156, 159], "contour_kwarg": [3, 159], "pcolor_cmap": [3, 52], "pcolor_cmin": 3, "pcolor_cmax": 3, "thei": [3, 5, 6, 13, 16, 24, 27, 28, 30, 32, 34, 39, 40, 45, 49, 52, 55, 56, 59, 60, 61, 64, 67, 68, 74, 78, 91, 93, 98, 101, 106, 112, 113, 121, 128, 139, 142, 146, 149, 153, 157, 159, 162], "chosen": [3, 29, 32, 39, 40, 52, 54, 67, 105, 112, 128, 138, 144], "vari": [3, 15, 17, 25, 30, 40, 46, 54, 65, 69, 98, 100, 119, 126, 135, 136, 138, 140, 144, 146, 165], "yield": 3, "veri": [3, 5, 16, 22, 49, 52, 56, 57, 60, 72, 79, 83, 86, 94, 95, 96, 97, 98, 101, 113, 116, 120, 131, 137, 139, 143, 154, 157], "confus": [3, 54, 59, 108, 128, 135], "add_colorbar": [3, 30, 159], "ad": [3, 12, 16, 20, 22, 24, 25, 27, 29, 32, 34, 35, 42, 45, 48, 54, 55, 56, 59, 60, 61, 65, 68, 69, 72, 79, 84, 86, 89, 91, 92, 95, 96, 108, 109, 110, 112, 115, 116, 117, 118, 119, 120, 121, 122, 123, 124, 125, 126, 127, 129, 131, 132, 134, 139, 143, 144, 146, 149, 153, 156, 159, 163], "imshow_cmap": 3, 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85, 91, 93, 95, 97, 98, 100, 102, 105, 107, 108, 125, 126, 160, 163], "wa": [4, 5, 6, 14, 19, 20, 25, 29, 30, 32, 33, 34, 35, 40, 49, 51, 55, 56, 63, 65, 67, 68, 72, 79, 96, 100, 101, 103, 112, 113, 114, 115, 116, 117, 118, 119, 120, 121, 122, 123, 124, 125, 126, 127, 128, 129, 130, 131, 132, 134, 137, 139, 156, 157, 159], "initi": [4, 5, 7, 12, 13, 22, 25, 30, 34, 35, 45, 46, 48, 49, 52, 56, 61, 64, 68, 69, 72, 74, 75, 81, 83, 84, 85, 86, 88, 89, 91, 92, 94, 95, 99, 100, 101, 103, 104, 106, 109, 112, 120, 123, 126, 128, 135, 138, 143, 144, 145, 147, 149, 153, 157, 159], "develop": [4, 6, 7, 12, 13, 18, 22, 23, 49, 53, 55, 58, 59, 62, 67, 68, 78, 82, 83, 86, 93, 98, 101, 102, 108, 110, 113, 123, 124, 126, 128, 131, 132, 135, 138, 139, 145], "linear": [4, 5, 17, 30, 34, 35, 45, 52, 69, 72, 79, 85, 89, 101, 124, 135, 136, 137], "nonlinear": [4, 5, 17, 49, 89, 135, 143, 165], "hyperbol": [4, 5, 6, 17, 43, 75, 86, 93, 98, 99, 105, 135, 143, 146, 162, 165], "system": [4, 16, 17, 23, 37, 38, 52, 53, 59, 60, 64, 73, 74, 83, 93, 95, 96, 98, 99, 102, 105, 108, 113, 135, 143, 145, 147, 155, 162, 165], "focu": [4, 46], "high": [4, 17, 32, 49, 52, 67, 69, 72, 75, 86, 93, 101, 135, 138, 139, 161, 162], "resolut": [4, 6, 17, 30, 32, 34, 40, 45, 61, 69, 72, 91, 101, 105, 106, 115, 119, 123, 124, 131, 135, 138, 157, 159, 161, 162], "godunov": [4, 91, 101, 143, 145, 147, 162], "method": [4, 5, 7, 17, 32, 34, 35, 39, 43, 45, 54, 67, 69, 79, 81, 85, 88, 89, 91, 96, 100, 101, 106, 112, 113, 119, 135, 142, 143, 144, 145, 147, 153, 156, 157, 159, 162], "framework": [4, 83, 86, 120, 121], "applic": [4, 6, 15, 16, 19, 20, 22, 23, 24, 28, 29, 32, 34, 35, 36, 37, 38, 42, 43, 44, 45, 46, 47, 56, 58, 59, 64, 67, 73, 74, 81, 90, 91, 92, 93, 95, 101, 106, 109, 111, 112, 113, 115, 118, 119, 121, 122, 123, 125, 126, 135, 137, 139, 140, 143, 146, 151, 152, 157, 159, 160, 162, 163], "finit": [4, 17, 32, 34, 43, 54, 60, 67, 68, 69, 72, 101, 126, 137, 146, 156, 157, 162], "volum": [4, 17, 29, 32, 34, 43, 54, 60, 67, 68, 69, 93, 126, 137, 144, 146, 156, 157, 162], "riemann": [4, 5, 8, 20, 22, 23, 28, 29, 46, 56, 59, 64, 75, 83, 85, 91, 92, 101, 102, 103, 105, 108, 141, 143, 145, 147, 151, 152, 165], "solver": [4, 5, 6, 20, 22, 23, 25, 28, 46, 57, 58, 59, 64, 82, 83, 84, 88, 91, 92, 95, 103, 117, 119, 121, 122, 123, 124, 125, 126, 128, 143, 145, 147, 151, 152, 165], "resolv": [4, 32, 34, 52, 55, 59, 110, 123, 139], "jump": [4, 5, 68, 81, 91, 101, 121, 143, 165], "discontinu": [4, 101, 165], "interfac": [4, 19, 22, 68, 83, 86, 89, 93, 94, 99, 101, 106, 135, 162, 163, 165], "wave": [4, 5, 6, 16, 17, 25, 32, 40, 49, 52, 53, 72, 89, 91, 93, 98, 99, 101, 112, 119, 121, 122, 128, 136, 137, 138, 143, 144, 145, 146, 147, 149, 162], "propag": [4, 5, 6, 17, 25, 30, 49, 52, 53, 72, 91, 93, 101, 112, 121, 135], "neighbor": [4, 34, 40, 67, 69, 112, 121, 139, 144, 145, 159], "formul": [4, 5, 49, 65, 135, 143], "allow": [4, 6, 13, 22, 27, 28, 29, 32, 34, 35, 39, 40, 45, 46, 48, 51, 52, 54, 55, 59, 65, 67, 68, 72, 73, 75, 78, 79, 88, 93, 94, 95, 101, 103, 106, 107, 108, 112, 113, 115, 116, 119, 120, 121, 122, 123, 125, 126, 128, 131, 132, 135, 137, 143, 145, 146, 147, 148, 149, 153, 157, 159, 161], "easi": [4, 6, 11, 29, 39, 59, 68, 86, 95, 96, 97, 137, 148, 162], "extens": [4, 17, 22, 24, 28, 30, 49, 52, 55, 59, 64, 68, 86, 93, 94, 106, 121, 122, 128, 143, 155, 159, 165], "problem": [4, 5, 7, 16, 17, 20, 24, 25, 27, 28, 29, 36, 37, 40, 43, 46, 59, 63, 67, 68, 69, 72, 75, 79, 82, 84, 85, 90, 92, 93, 96, 99, 101, 104, 108, 113, 115, 116, 118, 119, 122, 126, 128, 132, 135, 137, 139, 143, 144, 145, 146, 147, 148, 156, 160], "algorithm": [4, 7, 25, 32, 39, 40, 46, 53, 85, 91, 93, 94, 101, 105, 112, 123, 135, 137, 143, 145, 147, 159], "brief": [4, 56, 136, 146], "subroutin": [4, 6, 9, 16, 22, 32, 34, 64, 112, 119, 135, 143, 144, 156, 162, 165], "equat": [4, 5, 16, 17, 25, 36, 37, 46, 49, 61, 65, 79, 84, 85, 86, 88, 93, 94, 95, 98, 101, 102, 103, 116, 119, 121, 123, 124, 135, 143, 145, 146, 147, 149, 157, 162, 165], "solv": [4, 5, 8, 16, 17, 20, 26, 36, 37, 49, 57, 59, 61, 84, 86, 88, 91, 93, 98, 99, 102, 124, 135, 136, 143, 157, 162, 165], "adapt": [4, 7, 17, 30, 40, 53, 54, 67, 68, 75, 85, 112, 123, 126, 128, 135, 137, 142, 143, 144, 146, 162], "mesh": [4, 7, 17, 33, 53, 67, 68, 75, 78, 85, 112, 126, 142, 143, 162], "amrclaw": [4, 5, 6, 12, 15, 16, 19, 20, 22, 23, 24, 28, 37, 39, 40, 42, 44, 45, 46, 47, 53, 56, 57, 58, 59, 61, 67, 68, 73, 74, 75, 82, 93, 94, 102, 108, 109, 112, 113, 134, 135, 137, 140, 141, 143, 146, 151, 152, 155, 156, 160], "detail": [4, 5, 10, 16, 22, 23, 25, 26, 28, 29, 30, 32, 34, 36, 37, 39, 42, 45, 47, 49, 52, 55, 58, 59, 61, 62, 63, 67, 68, 72, 75, 79, 83, 88, 89, 90, 91, 93, 94, 95, 96, 97, 98, 99, 101, 111, 112, 113, 116, 121, 123, 128, 131, 135, 137, 142, 143, 146, 148, 153, 157, 160, 161, 162, 165], "content": [4, 6, 23, 35, 52, 56, 74, 75, 86, 93, 146, 157, 162, 163], "routin": [4, 5, 6, 16, 20, 25, 27, 30, 32, 36, 37, 45, 46, 47, 52, 53, 63, 68, 69, 73, 74, 75, 78, 81, 83, 86, 88, 91, 94, 97, 98, 101, 103, 104, 112, 115, 116, 119, 121, 123, 124, 126, 135, 139, 143, 145, 147, 153, 159, 160, 162, 163, 165], "special": [4, 7, 16, 46, 47, 52, 62, 75, 83, 112, 131, 137, 159], "depth": [4, 5, 16, 17, 22, 30, 32, 33, 35, 40, 45, 46, 49, 65, 69, 72, 78, 80, 136, 138, 139, 146, 157], "averag": [4, 6, 15, 17, 32, 40, 46, 49, 50, 54, 68, 69, 99, 103, 116, 128, 135, 139, 140, 157, 159, 162], "geophys": [4, 16, 17, 23, 46, 49, 75, 143], "flow": [4, 16, 17, 23, 32, 33, 46, 47, 49, 75, 93, 110, 126, 131, 135, 143, 146, 157, 162], "geoclaw": [4, 7, 12, 17, 23, 24, 28, 29, 30, 32, 33, 34, 35, 37, 39, 42, 44, 45, 53, 54, 56, 57, 58, 59, 60, 61, 65, 67, 69, 72, 74, 75, 78, 82, 93, 102, 108, 110, 111, 113, 134, 135, 136, 138, 139, 141, 143, 144, 149, 153, 154, 155, 156, 157, 158, 159, 160, 161, 162], "parallel": [4, 22, 23, 45, 73, 84, 90, 92, 93, 95, 98, 100, 102, 106, 112, 113, 121, 144], "ten": [4, 75], "thousand": [4, 75], "core": 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133, 135, 137, 140, 143, 144, 145, 146, 147, 155, 156, 157, 159, 162, 165], "pointer": [4, 16, 55, 72, 78, 81, 101, 106, 119], "code": [4, 5, 6, 7, 8, 12, 14, 16, 19, 20, 21, 22, 23, 24, 27, 29, 32, 33, 34, 35, 36, 37, 39, 41, 42, 43, 45, 46, 49, 51, 53, 54, 55, 57, 62, 63, 64, 65, 71, 72, 73, 74, 75, 77, 79, 81, 82, 83, 85, 86, 91, 93, 94, 95, 96, 98, 101, 102, 105, 107, 108, 111, 114, 115, 116, 119, 120, 121, 122, 123, 124, 125, 126, 128, 134, 135, 136, 137, 141, 143, 144, 145, 146, 147, 148, 153, 155, 156, 157], "bibliographi": [4, 25], "paper": [4, 5, 6, 16, 30, 46, 55, 89, 93], "distribut": [4, 12, 13, 29, 30, 55, 62, 72, 75, 83, 101, 107, 126], "under": [4, 7, 22, 32, 34, 38, 52, 53, 55, 58, 62, 64, 78, 83, 91, 93, 113, 121, 123, 133], "term": [4, 25, 46, 49, 62, 72, 86, 91, 92, 101, 112, 122, 123, 132, 136, 143, 145, 146, 147, 151, 152], "berkelei": [4, 62, 83], "bsd": [4, 62, 83, 123], "peopl": [4, 12, 13, 83], "contribut": [4, 24, 25, 58, 83, 86, 93, 98, 101, 110, 113], "its": 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"ketcheson": [4, 17, 76, 83, 93, 101], "kaust": [4, 24], "ketch": 4, "kyle": [4, 17, 83, 89, 93, 94, 99], "mandli": [4, 17, 83, 89, 93, 94, 99], "ut": 4, "austin": 4, "contributor": [4, 24, 62, 93], "aron": [4, 17, 83, 93], "ahmadia": [4, 17, 83, 93], "amal": [4, 17, 83, 93], "alghamdi": [4, 17, 83, 93], "ghamdi": 4, "ian": 4, "bollig": 4, "bolliger32": 4, "peter": 4, "blossei": 4, "donna": [4, 17], "calhoun": [4, 17, 52], "donnabois": 4, "ond\u0159ej": 4, "\u010dert\u00edk": 4, "certik": [4, 83], "brisa": 4, "davi": [4, 17], "brisadavi": [4, 124], "gradi": [4, 17, 83], "lemoin": [4, 17, 83], "gradylemoin": 4, "sorin": 4, "mitran": [4, 17], "matteo": [4, 17, 83, 93], "parsani": [4, 17, 83, 93], "mparsani": 4, "xinsheng": [4, 53], "qin": [4, 53], "xinshengqin": [4, 53], "avi": 4, "schwarzschild": 4, "aks2203": 4, "andi": 4, "terrel": 4, "aterrel": 4, "chri": 4, "vogl": 4, "cjvogl": 4, "numer": [4, 17, 52, 107, 124], "student": 4, "toward": [4, 30], "bug": [4, 8, 12, 22, 24, 42, 52, 65, 73, 79, 83, 118, 119, 120, 121, 123, 128, 129, 130], "suggest": [4, 24, 29, 48, 54, 55, 57, 59, 81, 82, 107, 133, 135, 146, 164], "improv": [4, 13, 22, 24, 32, 34, 52, 55, 94, 107, 115, 116, 118, 119, 120, 121, 122, 124, 125, 126, 127, 128, 129, 143], "explor": [4, 34, 60, 79, 81], "thank": [4, 93], "pleas": [4, 24, 28, 55, 57, 58, 59, 83, 85, 88, 90, 93, 94, 96, 98, 100, 101, 102, 104, 110, 123, 128, 133, 135, 153], "itself": [4, 72, 78, 107, 126, 135, 146, 159], "well": [4, 6, 28, 33, 46, 52, 53, 55, 59, 60, 67, 72, 73, 74, 75, 78, 81, 82, 100, 101, 110, 122, 123, 126, 131, 136, 139, 143, 144, 151, 152, 153, 162, 165], "citat": [4, 56], "similar": [4, 13, 16, 28, 32, 34, 37, 45, 52, 61, 85, 86, 94, 98, 101, 105, 123, 128, 146, 153, 154, 155, 157], "team": [4, 24, 62], "2020": [4, 24, 25, 55, 62, 107, 110, 126, 127, 128, 133, 135], "7": [4, 6, 14, 29, 32, 34, 39, 40, 45, 48, 55, 61, 65, 67, 74, 79, 82, 91, 102, 108, 112, 128, 133, 137, 138, 139, 144, 145], "http": [4, 12, 13, 17, 24, 26, 28, 29, 30, 40, 48, 52, 53, 55, 56, 58, 59, 62, 67, 72, 82, 83, 86, 87, 94, 96, 98, 107, 108, 118, 120, 121, 122, 124, 125, 128, 129, 130, 131, 132, 133, 136, 153, 159], "www": [4, 13, 17, 30, 40, 46, 55, 62, 67, 83, 86, 91, 94, 96, 122, 124, 131, 132, 153, 159], "org": [4, 17, 46, 53, 55, 56, 62, 83, 86, 87, 91, 94, 96, 107, 108, 120, 122, 124, 128, 129, 130, 131, 132, 159], "doi": [4, 17, 53, 56, 58, 126, 127, 128, 129, 130, 131, 132, 133], "10": [4, 17, 30, 32, 34, 40, 52, 53, 54, 56, 79, 85, 88, 91, 112, 120, 121, 123, 126, 127, 128, 129, 130, 131, 132, 133, 137, 143, 144, 145, 147, 157], "5281": [4, 56, 126, 127, 128, 129, 130, 131, 132, 133], "zenodo": [4, 58, 126, 127, 128, 129, 130, 131, 132, 133], "4025432": [4, 127, 133], "here": [4, 13, 16, 29, 34, 39, 40, 49, 56, 59, 60, 67, 75, 79, 81, 85, 88, 93, 94, 96, 98, 99, 104, 105, 108, 110, 112, 119, 135, 136, 137, 149, 154, 159, 165], "bibtex": [4, 56], "misc": [4, 125, 127], "url": [4, 12, 17, 52, 56, 123, 124, 157, 159], 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113, 124, 128, 144, 145, 153, 160], "estimat": [5, 145], "flag_richardson": [5, 112, 120, 144, 145], "flag_richardson_tol": [5, 112, 144, 145], "1e": [5, 67, 147], "flag2refin": [5, 7, 22, 144, 145], "flag2refine_tol": [5, 112, 144, 145], "01": [5, 40, 74, 91, 159], "we": [5, 6, 22, 24, 26, 32, 36, 37, 39, 40, 45, 49, 52, 54, 55, 56, 57, 59, 64, 67, 69, 72, 78, 81, 85, 86, 87, 88, 90, 91, 94, 95, 96, 97, 98, 101, 102, 103, 104, 105, 106, 107, 110, 113, 123, 126, 131, 135, 136, 137, 159], "attempt": [5, 8, 11, 20, 33, 36, 37, 63, 94, 100, 106, 113, 115, 129, 153, 159, 160], "estim": [5, 65, 112, 144, 146], "step": [5, 6, 10, 16, 19, 28, 32, 34, 36, 37, 38, 45, 52, 55, 56, 61, 68, 74, 75, 78, 81, 83, 84, 85, 86, 88, 95, 98, 101, 103, 105, 110, 112, 115, 120, 121, 131, 134, 135, 141, 143, 144, 145, 146, 147, 157, 165], "extrapol": [5, 7, 16, 22, 69, 98, 105, 123, 143, 144, 145, 147], "togeth": [5, 16, 28, 29, 30, 55, 57, 72, 112, 131], "experiment": [5, 83], "simpli": [5, 13, 34, 36, 37, 38, 40, 45, 52, 54, 63, 64, 67, 69, 85, 87, 88, 90, 95, 96, 102, 113, 135, 137, 148, 153, 159, 162, 163], "magnitud": [5, 30, 112, 123, 146], "greater": [5, 32, 60, 65, 67, 102, 112, 134, 143, 144, 146], "model": [5, 12, 16, 17, 24, 25, 30, 32, 42, 46, 47, 53, 54, 65, 95, 112, 120, 125, 126, 127, 137, 138, 139, 146, 149, 153, 154, 157], "davisleveque2016": [5, 17], "chile2010_adjoint": 5, "shallow": [5, 15, 16, 17, 25, 32, 34, 40, 46, 49, 53, 67, 75, 86, 93, 109, 116, 117, 119, 121, 123, 124, 132, 135, 139, 140, 146, 151, 152, 157, 162], "water": [5, 16, 17, 25, 34, 40, 45, 46, 47, 48, 49, 60, 67, 75, 78, 86, 93, 116, 117, 121, 123, 124, 135, 137, 138, 139, 146, 157, 159, 161, 162], "while": [5, 13, 16, 30, 40, 52, 68, 72, 79, 81, 86, 91, 95, 96, 101, 106, 123, 135, 139, 146, 161], "suitabl": [5, 8, 16, 20, 46, 49, 52, 70, 74, 100, 111, 135, 138, 153, 159], "To": [5, 6, 13, 14, 18, 22, 25, 28, 29, 36, 37, 38, 39, 40, 41, 45, 47, 50, 52, 53, 56, 63, 66, 67, 68, 72, 73, 74, 79, 81, 82, 85, 87, 89, 90, 93, 94, 95, 96, 97, 98, 101, 102, 105, 108, 110, 111, 112, 113, 119, 121, 124, 125, 126, 127, 128, 129, 130, 131, 132, 134, 138, 141, 143, 144, 148, 157, 163], "date": [5, 28, 41, 48, 52, 55, 56, 63, 79, 153, 160], "across": [5, 112, 121, 157, 159], "ocean": [5, 16, 17, 32, 49, 52, 110, 112, 137, 146, 151, 152, 157], "wai": [5, 6, 13, 16, 26, 28, 34, 36, 37, 39, 40, 45, 52, 54, 55, 58, 59, 60, 62, 63, 79, 81, 82, 83, 85, 88, 90, 91, 96, 98, 100, 102, 105, 107, 108, 110, 111, 115, 121, 122, 123, 126, 133, 135, 137, 142, 143, 150, 154, 157, 162, 164, 165], "target": [5, 59, 79, 86, 98, 126], "possibli": [5, 30, 34, 67, 85, 91, 108, 120, 139], "deep": [5, 67], "amplitud": [5, 121], "compar": [5, 22, 37, 45, 49, 52, 56, 79, 95, 112, 113, 138, 144, 155, 161, 165], "essenti": [5, 54, 68, 101, 146, 157], "rest": [5, 22, 81, 110, 123, 138, 151, 152, 157, 159], "henc": [5, 34, 54, 55, 64, 69, 101, 107, 108, 112, 139], "take": [5, 6, 22, 27, 28, 30, 32, 35, 48, 55, 65, 67, 68, 72, 79, 85, 91, 98, 101, 105, 106, 107, 112, 113, 118, 124, 132, 139, 143, 144, 145, 146, 159, 162, 165], "rpn2_geoclaw_adjoint_qwav": 5, "rpt2_geoclaw_adjoint_qwav": 5, "non": [5, 16, 56, 67, 75, 86, 98, 105, 124, 126, 143, 145, 147, 153, 165], "vector": [5, 22, 85, 89, 95, 103, 123, 131, 135, 136], "split": [5, 6, 73, 91, 94, 101, 119, 120, 128, 143, 144, 145, 147, 156, 162, 165], "flux": [5, 17, 32, 34, 35, 91, 99, 101, 135, 143, 165], "comment": [5, 11, 24, 50, 56, 122, 131, 134], "rpn2": [5, 135], "basic": [6, 10, 12, 25, 30, 36, 38, 46, 58, 67, 68, 85, 91, 93, 94, 95, 99, 101, 113, 135, 136, 153, 165], "strategi": 6, "logic": [6, 16, 17, 32, 128, 146], "rectangular": [6, 7, 16, 17, 30, 32, 35, 39, 40, 46, 47, 60, 67, 91, 112, 123, 126, 131, 144, 146, 157], "too": [6, 48, 52, 55, 56, 120, 137, 145, 147], "portion": [6, 34, 40, 52, 67, 86, 131, 156], "factor": [6, 52, 144, 146, 156, 159], "direct": [6, 8, 16, 22, 30, 32, 34, 36, 37, 45, 48, 52, 56, 60, 62, 63, 68, 72, 73, 79, 83, 88, 98, 105, 112, 122, 135, 143, 144, 146, 159], "anisotrop": [6, 22], "perhap": [6, 12, 32, 40, 45, 55, 79, 103, 106, 112, 137], "section": [6, 13, 16, 34, 36, 37, 40, 42, 47, 49, 55, 56, 64, 68, 78, 81, 93, 113, 128, 134, 143, 146, 159], "cfl": [6, 91, 95, 101, 105, 115, 120, 143, 145, 146, 147], "spatial": [6, 17, 25, 30, 34, 35, 39, 40, 45, 46, 61, 65, 69, 98, 112, 115, 119, 126, 128, 135, 138, 144, 145, 146, 147, 165], "reduc": [6, 16, 34, 40, 52, 120, 122, 131, 165], "thu": [6, 48, 95, 98, 123, 153], "proce": [6, 28, 146], "advanc": [6, 17, 34, 53, 67, 73, 105, 120, 132, 143, 144, 162], "taken": [6, 32, 67, 72, 95, 101, 112, 143, 162], "around": [6, 30, 32, 40, 60, 94, 110, 113, 126, 144, 145, 153, 159, 162], "librari": [6, 13, 15, 16, 20, 22, 25, 27, 28, 32, 34, 36, 37, 42, 45, 53, 60, 63, 73, 74, 75, 83, 89, 94, 96, 101, 106, 108, 109, 112, 121, 126, 139, 140, 144, 151, 152, 160, 162], "bcnamr": [6, 16, 123, 143, 145, 162], "check": [6, 14, 15, 16, 20, 32, 36, 37, 41, 42, 51, 52, 53, 55, 56, 57, 59, 63, 68, 79, 82, 85, 86, 88, 93, 96, 100, 101, 103, 105, 106, 108, 109, 112, 116, 125, 137, 139, 140, 144, 145, 151, 152, 153, 159, 160, 161, 162], "denot": [6, 22, 35, 45, 54, 135, 159], "procedur": [6, 16, 40, 46, 56, 162], "updat": [6, 12, 13, 22, 23, 25, 32, 50, 53, 58, 59, 61, 81, 93, 101, 103, 104, 107, 110, 115, 119, 121, 122, 123, 124, 125, 126, 135, 144, 145, 147, 150, 153, 156, 162], "consist": [6, 25, 32, 34, 48, 52, 56, 60, 96, 107, 121, 131, 132, 135, 137, 146, 157, 162], "replac": [6, 13, 29, 34, 39, 45, 49, 53, 55, 56, 58, 61, 63, 78, 86, 90, 94, 96, 97, 98, 99, 103, 106, 113, 115, 121, 123, 125, 126, 131, 134, 135, 139, 159, 160], "ly": [6, 67], "within": [6, 16, 28, 34, 35, 55, 59, 67, 69, 75, 79, 97, 106, 108, 112, 135, 137, 142, 148, 159], "approxim": [6, 16, 25, 33, 49, 52, 69, 72, 135], "lead": [6, 13, 22, 32, 34, 49, 52, 65, 68, 72, 108, 111, 128, 139, 144], "total": [6, 30, 34, 52, 72, 74, 95, 101, 143, 144, 145, 147, 156], "mass": [6, 95, 149], "restor": 6, "global": [6, 14, 91, 103, 106, 138, 157, 161, 162], "fix": [6, 19, 20, 22, 25, 33, 35, 39, 45, 46, 55, 56, 60, 61, 63, 67, 69, 83, 94, 99, 115, 116, 117, 118, 119, 120, 121, 122, 124, 125, 126, 127, 128, 129, 130, 131, 132, 136, 143, 145, 147, 159], "up": [6, 13, 22, 28, 29, 30, 32, 34, 36, 37, 40, 41, 45, 46, 52, 55, 56, 60, 63, 67, 68, 72, 74, 79, 85, 86, 88, 90, 92, 93, 94, 96, 101, 102, 105, 108, 110, 112, 113, 119, 120, 123, 126, 128, 137, 139, 142, 145, 147, 156, 157, 160, 161], "style": [6, 22, 28, 30, 34, 39, 50, 52, 67, 70, 79, 83, 88, 123, 146], "olig": [6, 17], "colella": [6, 17], "bergeroliger84": [6, 17], "bergercolella89": [6, 17], "fortran": [6, 9, 11, 13, 14, 20, 23, 27, 28, 30, 32, 33, 34, 35, 36, 45, 46, 47, 54, 57, 59, 63, 64, 65, 69, 73, 74, 75, 78, 81, 83, 85, 86, 88, 91, 93, 94, 96, 98, 99, 101, 102, 103, 106, 108, 119, 120, 121, 123, 124, 125, 131, 132, 135, 136, 141, 144, 145, 146, 147, 153, 155, 156, 157], "written": [6, 11, 25, 30, 32, 34, 35, 41, 45, 59, 60, 61, 62, 72, 74, 75, 79, 83, 92, 93, 94, 98, 121, 135, 143, 144, 145, 146, 147, 153, 159, 162], "ga": [6, 99], "dynam": [6, 20, 30, 34, 49, 72, 75, 144], "merg": [6, 13, 25, 28, 53, 55, 56, 59, 119], "earli": [6, 20, 139], "mjb": [6, 17], "rjl": [6, 17, 108, 125], "fulli": [6, 49, 52, 53, 122, 126, 135, 146, 153, 154], "consid": [6, 40, 49, 59, 67, 86, 108, 141, 148, 159], "adjac": [6, 16, 32, 46, 112, 139, 143], "equival": [6, 45, 53, 54, 60, 61, 74, 125, 131, 157], "copi": [6, 14, 15, 16, 36, 37, 45, 52, 55, 56, 59, 68, 85, 88, 98, 103, 109, 110, 111, 112, 116, 120, 123, 127, 139, 140, 144, 148, 151, 152, 157, 162], "interior": [6, 16, 40, 74, 103], "howev": [6, 13, 16, 22, 32, 36, 37, 40, 42, 47, 49, 52, 59, 62, 64, 67, 69, 72, 73, 74, 83, 86, 93, 112, 113, 121, 123, 125, 138, 139, 142, 146, 156], "lie": [6, 32, 33, 35, 67, 69, 112, 126, 137], "outsid": [6, 16, 39, 60, 67, 126, 137, 139, 157, 159], "li": [6, 16, 32, 35, 69, 112, 137], "along": [6, 14, 16, 24, 27, 30, 32, 40, 45, 52, 55, 58, 72, 74, 108, 112, 119, 133, 134, 137, 139, 146, 161], "proper": [6, 15, 40, 45, 53, 54, 55, 56, 60, 65, 67, 68, 94, 106, 115, 121, 140, 144, 145, 151, 152, 153, 162], "unless": [6, 32, 41, 42, 60, 99, 107, 138, 143, 144, 159], "standard": [6, 16, 30, 32, 34, 52, 54, 68, 74, 86, 89, 101, 108, 112, 113, 145, 146, 147, 148, 157, 162, 165], "beyond": [6, 30, 107, 123], "modifi": [6, 9, 14, 15, 16, 20, 22, 27, 32, 36, 37, 40, 45, 46, 55, 56, 59, 61, 63, 68, 71, 79, 86, 89, 91, 93, 98, 108, 109, 110, 111, 112, 118, 120, 121, 122, 123, 128, 137, 139, 140, 143, 145, 146, 147, 151, 152, 157, 159, 162], "damag": [6, 62, 83], "bcn": [6, 16, 147, 162], "nd": [6, 16, 112, 123, 126, 162], "actual": [6, 27, 30, 34, 54, 59, 60, 68, 72, 79, 89, 94, 106, 110, 138, 146], "softwar": [6, 13, 24, 25, 29, 46, 49, 62, 83, 93, 94, 95, 148, 157], "With": [6, 22, 28, 45, 50, 52, 59, 67, 75, 112, 120, 135, 137, 143], "opposit": [6, 16, 94], "side": [6, 16, 18, 32, 52, 55, 65, 72, 94, 113, 131, 132, 135, 165], "everi": [6, 12, 28, 32, 34, 45, 61, 63, 64, 74, 85, 88, 90, 94, 95, 103, 112, 113, 121, 122, 135, 139, 141, 143, 145, 147, 153, 157, 159, 162], "few": [6, 12, 13, 22, 26, 29, 37, 49, 55, 67, 68, 86, 101, 105, 107, 112, 113, 126, 138, 155, 157, 162], "coarsest": [6, 34, 52, 74, 115, 134, 143], "revis": [6, 121], "shock": [6, 17, 49, 101, 112], "accord": [6, 54], "criteria": [6, 7, 22, 25, 32, 67, 103], "cluster": [6, 17, 112, 144, 145], "rigoutsi": 6, "bergerrigoutsis91": [6, 17], "nonoverlap": 6, "rectangl": [6, 7, 25, 30, 34, 67, 72, 112, 126, 159], "balanc": [6, 17, 75, 122, 136, 151, 152], "conflict": [6, 28, 59, 63, 68, 104, 108], "goal": 6, "possibl": [6, 13, 22, 26, 28, 30, 32, 34, 35, 45, 48, 49, 52, 61, 62, 63, 72, 79, 83, 91, 94, 96, 97, 101, 106, 108, 112, 135, 137, 138, 143, 144, 157, 161, 162], "minim": [6, 59, 67, 94, 137, 144, 159], "overhead": [6, 73, 112, 156], "cutoff": [6, 145], "control": [6, 7, 23, 25, 32, 34, 42, 45, 55, 59, 61, 68, 74, 81, 84, 89, 91, 93, 94, 95, 96, 98, 112, 121, 126, 136, 146], "fraction": [6, 13, 30, 112, 143, 162, 165], "70": [6, 34, 52], "realli": [6, 69, 113, 162], "At": [6, 13, 27, 28, 34, 36, 37, 40, 67, 96, 101, 105, 107, 112, 126, 143], "present": [6, 24, 60, 69, 91, 99, 100, 101, 106, 148, 162, 165], "previous": [6, 22, 32, 67, 74, 81, 119, 126, 139], "bilinear": [6, 32, 40, 45, 54, 69, 115, 116, 157], "doxygen": [6, 7, 25, 122], "flowchart": [6, 7, 25], "capabl": [7, 12, 22, 32, 34, 45, 49, 53, 61, 67, 75, 86, 93, 115, 120, 121, 123, 124, 125, 126, 127, 131, 132, 159, 161], "block": [7, 30, 33, 40, 60, 72, 74, 75, 85, 94, 103, 106, 113, 162], "structur": [7, 10, 22, 32, 34, 35, 39, 56, 59, 63, 75, 100, 101, 121, 137, 142, 159], "input": [7, 14, 16, 20, 23, 25, 27, 30, 33, 35, 41, 46, 52, 60, 64, 67, 68, 74, 85, 88, 89, 91, 93, 99, 100, 101, 106, 110, 120, 123, 124, 125, 135, 145, 146, 147, 153, 154, 157, 159, 162], "indic": [7, 16, 20, 22, 25, 29, 30, 32, 34, 39, 40, 42, 45, 46, 52, 54, 56, 59, 64, 68, 69, 77, 81, 91, 95, 96, 99, 101, 105, 108, 112, 113, 121, 126, 128, 135, 136, 143, 144, 145, 146, 147, 149, 157, 159, 162], "tool": [7, 8, 17, 22, 23, 28, 30, 32, 33, 34, 35, 36, 37, 40, 46, 47, 48, 49, 52, 54, 57, 58, 59, 60, 68, 72, 77, 78, 79, 80, 82, 93, 108, 111, 116, 117, 121, 122, 126, 127, 146, 148, 157, 159, 161, 163], "matlab": [7, 22, 25, 36, 37, 77, 78, 79, 97, 107, 123, 126, 127], "deprec": [7, 30, 46, 55, 59, 119, 123, 131, 157, 159], "debug": [7, 42, 63, 74, 78, 95, 103, 108, 113, 131, 143, 145], "flag": [7, 12, 13, 22, 25, 28, 29, 39, 41, 42, 46, 53, 59, 73, 86, 104, 106, 108, 119, 124, 128, 145, 146], "sampl": [7, 8, 14, 17, 25, 29, 32, 42, 45, 46, 52, 61, 72, 108, 113, 131, 134, 137, 143, 144, 157, 159, 162], "ghost": [7, 16, 73, 74, 91, 94, 101, 103, 121, 128, 132, 143, 145, 147, 156, 162, 165], "flagregion": [7, 25, 67, 112, 126, 128, 137, 144, 146], "rule": [7, 13, 25, 60, 67, 86], "convex": [7, 32], "slu": 7, "bounding_box": [7, 33], "mask_outsid": [7, 67], "write": [7, 28, 30, 33, 34, 35, 39, 40, 45, 46, 51, 54, 55, 65, 72, 74, 75, 78, 85, 88, 91, 92, 94, 95, 96, 100, 121, 123, 145, 147, 153, 157, 159], "instanti": [7, 88, 96, 98, 101, 103, 132, 145, 147], "make_kml": 7, "simpl": [7, 29, 36, 37, 39, 46, 56, 69, 72, 86, 93, 98, 99, 101, 106, 111, 113, 159], "select": [7, 12, 13, 15, 16, 28, 32, 40, 67, 95, 101, 109, 112, 115, 122, 126, 133, 140, 143, 146, 151, 152, 161], "continent": [7, 67], "shelf": [7, 67], "guid": [7, 13, 17, 18, 23, 24, 25, 46, 47, 53, 58, 93, 107, 112, 122, 126, 131, 132, 150], "adjoint": [7, 17, 25, 53, 112, 123, 124], "gaug": [7, 25, 32, 34, 46, 60, 69, 91, 92, 103, 110, 115, 119, 120, 121, 122, 123, 126, 131, 134, 138, 142, 145], "extend": [8, 16, 22, 40, 60, 67, 68, 91, 123, 137, 139, 146, 157, 159, 165], "directli": [8, 19, 23, 32, 46, 49, 58, 68, 72, 79, 81, 85, 86, 89, 93, 103, 106, 108, 123, 131, 159, 163], "obviou": [8, 52], "elimin": [8, 22, 67, 86, 108, 123, 146], "gallery_classic_amrclaw": [8, 36], "num_cel": [8, 22, 91, 135, 143, 144, 145, 147], "refinement_ratios_i": [8, 144, 145], "sweep": [8, 135], "transvers": [8, 91, 121, 128, 135, 136, 143, 162, 165], "graph": 9, "understand": [9, 25, 36, 37, 49, 78, 93, 105, 112, 135], "filpatch": [9, 40, 121, 125, 128], "idea": [10, 24, 30, 67, 68, 75, 85, 105, 116, 159, 165], "overal": [10, 85], "who": [10, 12, 19, 22, 24, 32, 42, 49, 57], "gori": 10, "monster": 10, "column": [10, 30, 32, 45, 49, 61, 95, 99, 119, 137, 159], "markup": 11, "languag": [11, 78, 106], "restructur": [11, 55], "text": [11, 55, 56, 60, 74, 88, 94, 101, 119], "sphinx": [11, 23, 25, 56, 122], "covert": 11, "convert_readm": 11, "brows": [11, 24, 43, 52, 68, 148, 162], "insert": [11, 16, 72, 94, 141], "script": [11, 19, 20, 28, 30, 32, 41, 45, 52, 55, 63, 68, 75, 78, 83, 86, 90, 92, 93, 95, 96, 101, 106, 108, 113, 123, 127, 135, 142, 146, 147, 159], "invok": [11, 14, 73, 139, 160], "minor": [11, 52, 55, 95, 115, 116, 117, 118, 119, 120, 121, 122, 123, 124, 126, 128, 130, 132], "syntax": [11, 58, 141], "highlight": [11, 13], "header": [11, 30, 32, 34, 40, 45, 54, 67, 72, 74, 94, 100, 119, 121, 123, 153, 157, 159], "complex": [12, 34, 39, 91], "archiv": [12, 21, 37, 52, 56, 113, 148, 155, 159, 161], "github": [12, 15, 22, 23, 24, 25, 26, 29, 53, 55, 58, 59, 90, 98, 102, 109, 113, 118, 120, 121, 122, 131, 133, 135, 136, 140, 151, 152, 160], "app": [12, 13, 18, 23, 26, 28, 29, 32, 38, 43, 44, 72, 110, 111, 118, 122, 123, 124, 125, 126, 127, 128, 129, 130, 131, 132, 136], "com": [12, 13, 23, 24, 26, 28, 29, 53, 55, 56, 58, 59, 94, 96, 98, 102, 118, 120, 121, 122, 131, 133, 136], "fvmbook": [12, 43], "galleri": [12, 25, 36, 37, 38, 43, 56, 77, 78, 90, 93, 107, 113, 118, 122, 148, 155, 162], "anim": [12, 16, 34, 43, 52, 119, 126, 127, 131, 148], "instal": [12, 13, 18, 23, 25, 29, 36, 44, 52, 55, 56, 81, 83, 84, 87, 92, 94, 105, 107, 113, 114, 115, 116, 117, 118, 119, 120, 121, 122, 123, 124, 125, 126, 127, 128, 129, 130, 131, 132, 133, 141, 164], "collect": [12, 25, 26, 28, 30, 32, 72, 78, 85, 101, 148], "either": [12, 16, 20, 30, 32, 34, 40, 46, 47, 52, 61, 63, 67, 68, 72, 74, 79, 81, 85, 91, 93, 94, 95, 101, 106, 108, 112, 113, 119, 120, 121, 123, 131, 135, 137, 139, 144, 146, 153, 157, 159, 162, 165], "clone": [12, 18, 23, 24, 43, 53, 55, 56, 59, 82, 96, 102, 111, 131, 132, 160], "git": [12, 13, 23, 24, 25, 26, 53, 56, 59, 93, 102, 113, 125], "navig": [12, 29, 55, 148], "green": [12, 60, 67, 72, 79, 113, 159], "button": [12, 13, 28, 52, 60, 122], "download": [12, 13, 28, 29, 30, 37, 38, 40, 46, 52, 56, 58, 59, 90, 96, 102, 123, 124, 133, 155, 159, 160, 161], "zip": [12, 52, 56], "illustr": [12, 25, 30, 32, 36, 44, 52, 67, 68, 72, 74, 111, 118, 119, 123, 125, 135, 137, 148, 159], "variou": [12, 20, 22, 30, 34, 39, 44, 49, 55, 68, 69, 72, 79, 81, 91, 105, 107, 108, 112, 121, 135, 142, 146, 153], "visibl": [12, 13, 44, 52, 111, 148], "render": [12, 22, 44, 52, 60, 163], "advantag": [12, 34, 45, 61, 78, 94, 107, 113, 137], "independ": [12, 23, 30, 34, 35], "contact": [12, 90, 93, 102], "u": [12, 13, 16, 24, 29, 32, 34, 35, 48, 49, 56, 57, 59, 61, 83, 90, 93, 99, 102, 103, 104, 105, 110, 122, 135, 144, 147, 153, 161], "storm": [12, 17, 24, 25, 46, 119, 122, 123, 124, 125, 127, 128, 129], "surg": [12, 17, 24, 25, 46, 119, 122, 123, 124, 125, 128, 153], "empti": [12, 34, 45, 100, 103, 106, 108, 143, 146, 153, 159], "gitmodul": 12, "pull": [12, 24, 26, 29, 55, 56, 58, 90, 98, 113, 118, 121, 122, 128, 131, 135], "request": [12, 24, 26, 30, 34, 35, 45, 55, 58, 74, 85, 90, 91, 95, 98, 100, 113, 121, 123, 128, 135, 146, 153, 159], "init": [12, 25, 28, 40, 46, 53, 56, 58, 138, 146], "leav": [12, 13, 16, 45, 59, 144, 159], "off": [12, 13, 45, 49, 52, 60, 68, 81, 88, 95, 112, 131, 144, 149, 159], "won": [12, 13, 67, 86, 159], "hurt": [12, 64], "maintain": [12, 28, 107, 123, 144, 157, 162], "flavor": [12, 21, 94], "demonstr": [12, 25, 90, 96], "agre": [12, 28, 40, 54, 135, 156, 159, 162], "seen": [12, 22, 32, 36, 37, 38, 49, 73, 98, 143, 148], "cloud": 13, "elast": [13, 72], "sign": [13, 24, 79, 128, 153], "account": [13, 24, 28, 56, 87, 96, 134], "750": 13, "free": [13, 52, 63, 72, 83, 87, 98, 102, 104], "micro": 13, "suffici": [13, 16, 20, 34, 45, 72, 73, 74, 110, 115, 131, 143, 146], "tier": 13, "inform": [13, 14, 22, 25, 32, 33, 35, 36, 37, 47, 48, 49, 50, 51, 59, 64, 74, 79, 80, 81, 85, 86, 91, 93, 95, 96, 97, 99, 100, 106, 108, 120, 123, 124, 126, 132, 133, 134, 135, 138, 141, 143, 144, 146, 153, 156, 157, 160, 161, 162, 163], "uw": [13, 24], "escienc": 13, "aw": 13, "tutori": [13, 29, 56, 81, 84, 88, 93, 102, 108, 111], "gear": 13, "faq": [13, 25, 78], "price": 13, "charg": 13, "per": [13, 30, 35, 45, 52, 60, 68, 73, 94, 144], "thereof": 13, "regardless": [13, 35, 40, 67, 112, 143], "cpu": [13, 53, 120, 123, 125, 156], "consol": [13, 95, 146], "tab": [13, 55, 133], "east": [13, 157], "cheaper": 13, "rate": 13, "menu": [13, 18, 25, 55, 60, 122, 131, 132, 133, 138, 161], "imag": [13, 36, 37, 40, 56, 60, 67, 113, 123, 137], "platform": [13, 52, 88, 96, 107, 113], "finish": [13, 79, 85], "load": [13, 60, 95, 97, 100, 106, 113, 159, 163], "databas": [13, 30, 72, 106, 110, 123, 157], "uwamath": 13, "bar": [13, 55, 153], "screen": [13, 28, 52, 60, 88, 95, 96, 120, 145, 147], "shapshot": 13, "machin": [13, 25, 73, 75, 113, 121, 141], "disk": [13, 45, 85, 94, 95, 113, 121], "ubuntu": 13, "linux": [13, 71, 82, 104, 113, 141], "popup": 13, "look": [13, 14, 22, 25, 28, 30, 40, 52, 55, 56, 60, 68, 79, 81, 86, 91, 96, 100, 101, 105, 106, 108, 113, 116, 123, 132, 137, 143, 144, 146, 156, 159, 160], "sort": [13, 40, 123, 142, 160], "larger": [13, 20, 32, 52, 60, 72, 73, 74, 79, 91, 115, 121, 128, 144, 146, 157], "cost": [13, 101], "continu": [13, 22, 28, 30, 50, 55, 83, 107, 135, 143, 165], "eventu": [13, 46, 126], "don": [13, 27, 28, 55, 56, 79, 95, 96, 102, 113, 145, 160], "pair": [13, 94, 113, 159], "secur": 13, "quick": [13, 25, 37, 46, 47, 57, 82, 113, 155], "close": [13, 40, 52, 55, 60, 67, 68, 94, 112, 126, 144, 153], "back": [13, 27, 29, 55, 56, 122], "statu": [13, 28, 51, 88, 105], "wait": 13, "until": [13, 32, 61, 67, 139], "refresh": [13, 45], "bottom": [13, 15, 30, 36, 37, 46, 49, 65, 67, 72, 85, 98, 99, 121, 122, 140, 151, 152], "scroll": 13, "down": [13, 30, 95, 120, 153, 157, 159], "dn": 13, "screenshot": [13, 52], "rjlkei": 13, "pem": 13, "abl": [13, 55, 108], "ssh": [13, 28], "keypair": 13, "50": [13, 17, 32, 52, 69, 101, 116, 145], "19": [13, 17, 24, 129, 130, 133, 156], "75": [13, 17, 89, 105, 137], "229": 13, "amazonaw": 13, "gfortran": [13, 59, 73, 82, 84, 104, 141, 160], "ipython": [13, 75, 79, 81, 86, 87, 93, 95, 102, 105, 108, 119, 120], "scipi": [13, 35, 86, 107, 153, 159], "netcdf": [13, 35, 42, 46, 120, 123, 125, 127, 153, 159, 161], "apach": 13, "server": [13, 29, 40, 52, 55, 56, 67, 123, 157, 161], "apt": [13, 82], "fetch": [13, 48], "bring": [13, 52, 55, 68, 146], "master": [13, 15, 25, 29, 55, 56, 59, 98, 109, 120, 121, 122, 123, 124, 125, 126, 127, 128, 129, 130, 131, 132, 133, 136, 140, 151, 152], "make_lib": 13, "compil": [13, 25, 36, 37, 41, 47, 59, 64, 73, 75, 81, 82, 86, 93, 94, 98, 102, 106, 115, 135, 136, 141], "bashrc": [13, 42, 104, 141], "Of": [13, 26, 72, 105, 110, 157], "cours": [13, 26, 32, 45, 47, 61, 72, 96, 97, 105, 107, 110, 146, 157], "tar": [13, 60, 125, 133], "instruct": [13, 18, 24, 25, 36, 37, 40, 52, 53, 55, 56, 85, 87, 93, 96, 102, 105, 108, 122, 129, 131, 132, 133, 134, 160], "window": [13, 30, 68, 81, 141], "respons": [13, 49, 85, 100], "pretti": 13, "slow": [13, 52, 95, 104], "_plot": [13, 36, 37, 45, 68, 81, 142, 148], "local": [13, 17, 20, 25, 28, 52, 55, 60, 63, 64, 68, 89, 91, 98, 103, 121, 123, 132, 139, 157, 159, 162], "sftp": 13, "much": [13, 28, 32, 34, 42, 52, 74, 75, 78, 82, 107, 112, 115, 119, 126, 131, 132, 137, 143, 146, 156, 159], "smaller": [13, 34, 52, 65, 75, 91, 95, 115, 131, 139, 143, 145, 146, 147, 159], "quicker": [13, 137], "browser": [13, 28, 29, 36, 37, 52, 55, 148], "explain": [13, 32, 49, 67, 128, 143, 148], "webserv": 13, "inbound": 13, "port": [13, 29, 92, 93, 98, 144], "22": [13, 24, 144, 159], "80": [13, 17, 52, 96, 137], "drop": [13, 55, 82, 126, 128, 139, 143], "tcp": 13, "Then": [13, 16, 28, 29, 30, 34, 45, 55, 56, 57, 64, 67, 72, 73, 81, 85, 88, 96, 102, 103, 104, 108, 135, 137, 159, 160], "someth": [13, 27, 28, 55, 63, 71, 78, 95, 100, 101, 108, 157, 160, 162], "shot": 13, "ln": 13, "expos": [13, 75], "home": [13, 29, 30, 59, 141], "scp": 13, "TO": [13, 62, 83], "send": [13, 24, 98, 135], "remot": [13, 52, 56, 123, 159, 161], "rel": [13, 20, 30, 41, 47, 49, 52, 72, 73, 79, 93, 106, 108, 113, 116, 117, 118, 119, 120, 121, 122, 123, 124, 125, 126, 127, 128, 129, 130, 131, 132, 138, 144, 146, 148, 157, 161], "end": [13, 29, 30, 32, 33, 34, 45, 48, 52, 56, 60, 88, 95, 99, 105, 107, 110, 112, 120, 121, 123, 134, 136, 137, 145, 147, 153, 156], "retriev": [13, 35, 48, 81, 86, 101, 159, 161], "sit": 13, "idl": 13, "action": [13, 14, 86], "restart": [13, 25, 45, 74, 81, 93, 120, 121, 122, 123, 125, 128, 132, 143, 145, 147], "later": [13, 34, 35, 40, 51, 52, 59, 81, 101, 134], "But": [13, 32, 40, 52, 69, 79, 104, 116, 123, 139, 141], "futur": [13, 22, 25, 26, 36, 37, 40, 49, 54, 60, 65, 85, 101, 107, 120, 121, 123, 126, 132, 144, 149, 153, 157], "job": [13, 130], "eb": 13, "runclaw": [14, 51, 116, 125, 127, 135], "autom": [14, 55, 86, 113], "certain": [14, 32, 46, 58, 67, 95, 112, 120, 137, 143], "keep": [14, 25, 28, 32, 33, 35, 36, 37, 73, 85, 88, 93, 103, 106, 113, 116], "log": [14, 25, 28, 29, 91, 92, 93, 100, 101], "came": 14, "rundir": [14, 88], "environ": [14, 25, 28, 36, 37, 38, 41, 51, 52, 55, 58, 59, 68, 71, 73, 75, 97, 104, 106, 108, 121, 159, 160], "noth": [15, 61, 103, 124, 140, 151, 152, 159, 162], "rememb": [15, 27, 73, 79, 96, 140, 151, 152], "b4step1": [15, 64, 162], "b4step2": [15, 140, 162], "b4step3": 15, "branch": [15, 18, 25, 29, 42, 51, 53, 56, 58, 59, 109, 113, 122, 123, 124, 125, 126, 127, 128, 129, 130, 131, 132, 133, 140, 151, 152], "tag": [15, 52, 56, 58, 109, 140, 144, 145, 151, 152], "bathymetri": [15, 46, 49, 52, 60, 99, 110, 121, 123, 136, 138, 140, 146, 157, 159], "area": [15, 22, 46, 101, 110, 121, 139, 140], "dy": [15, 48, 54, 60, 61, 74, 86, 91, 95, 119, 123, 140, 157, 159], "capac": [15, 99, 140, 143, 144, 145, 147], "length": [15, 30, 35, 49, 60, 72, 98, 103, 121, 128, 140, 143, 144, 145, 146, 162], "latter": [15, 45, 67, 69, 98, 126, 137, 140, 143, 153, 162], "quantiti": [15, 32, 35, 60, 68, 69, 88, 92, 93, 99, 103, 136, 140, 146], "coordinate_system": [15, 61, 140, 146], "impos": [16, 86, 112, 151, 152, 165], "chapter": [16, 135, 143, 162], "choic": [16, 46, 78, 101, 143, 145, 146, 147, 162], "bc_lower": [16, 85, 98, 105, 143, 145, 147], "bc_upper": [16, 85, 98, 105, 143, 145, 147], "extrap": [16, 98, 105, 143, 145], "outflow": [16, 143, 145, 147], "move": [16, 32, 36, 37, 46, 55, 59, 61, 72, 98, 112, 115, 117, 122, 146, 149, 157, 158], "normal": [16, 33, 34, 53, 55, 61, 79, 98, 108, 135, 136, 143, 144, 145, 146, 147], "fairli": [16, 49, 121], "good": [16, 28, 49, 52, 62, 73, 83, 105, 110, 113, 121, 128, 135], "outgo": 16, "let": [16, 46, 59, 83, 110, 122, 128, 135], "without": [16, 22, 33, 41, 45, 49, 60, 62, 63, 64, 67, 68, 79, 81, 83, 89, 93, 94, 95, 106, 108, 113, 132, 137, 141, 145, 147, 153, 160, 162], "particularli": [16, 27, 29, 32, 34, 51, 52, 57, 58, 59, 72, 74, 108, 116, 119, 123, 128, 132, 139, 157], "perfect": 16, "hit": [16, 34, 68, 74, 81, 95, 143], "obliqu": 16, "angl": [16, 30, 48, 72], "perfectli": 16, "wall": [16, 42, 98, 105, 120, 123, 125, 143, 145, 147, 156], "veloc": [16, 32, 34, 48, 61, 68, 81, 98, 99, 105, 121, 131, 138, 143, 144, 145, 146, 147, 162], "momentum": [16, 32, 34, 35, 49, 61, 65, 95, 128, 136, 146, 157], "third": [16, 32, 54, 89, 156, 159], "acoust": [16, 29, 36, 37, 49, 84, 85, 88, 90, 93, 101, 102, 119, 135, 145, 162], "p": [16, 17, 29, 81, 83, 85, 91, 94, 95, 99, 103, 135, 165], "hu": [16, 34, 35, 61, 65, 99, 136, 146], "hv": [16, 34, 35, 61, 65, 136, 146], "equal": [16, 30, 32, 33, 34, 35, 52, 69, 72, 74, 96, 98, 112, 134, 137, 143, 145, 147, 157, 159], "far": [16, 39, 43, 67, 78, 124, 126, 128, 131], "symmetri": 16, "physic": [16, 45, 52, 86, 91, 93, 105, 112, 165], "slightli": [16, 40, 54, 121, 122, 128, 137], "complic": [16, 79, 86, 137, 142], "alwai": [16, 22, 26, 27, 28, 32, 34, 35, 42, 54, 55, 59, 68, 85, 94, 111, 112, 115, 116, 128, 132, 139, 143, 145, 147, 157, 162], "alon": [16, 52], "topographi": [16, 17, 25, 32, 33, 34, 35, 45, 46, 49, 54, 60, 65, 69, 72, 80, 110, 111, 115, 116, 117, 119, 120, 123, 126, 129, 132, 137, 138, 139, 151, 152, 158], "artifici": [16, 139], "ignor": [16, 52, 60, 94, 119, 128, 138, 159], "incom": 16, "truncat": [16, 34, 74, 94, 143], "spuriou": [16, 32, 113], "extropl": 16, "dry": [16, 17, 25, 32, 46, 99, 126, 129, 136, 139], "land": [16, 40, 46, 47, 52, 55, 56, 60, 67, 69, 80, 126, 139, 146, 159], "tank": [16, 49], "bc2amr": [16, 123], "calhounhelzellevequ": 16, "envis": 16, "fold": 16, "piec": [16, 49, 91], "glu": 16, "inflat": 16, "websit": [16, 52, 55, 148, 159], "bergercalhounhelzellevequ": 16, "hint": [16, 25, 46, 78, 81, 108, 146, 160], "suppos": [16, 64, 67, 68, 79, 108, 112], "bit": [16, 22, 30, 56, 94, 96, 104, 136], "examin": [16, 36, 37, 45, 67, 108, 131], "own": [16, 20, 24, 28, 34, 59, 85, 86, 92, 93, 102, 103, 110, 112, 123, 135, 148], "todo": [16, 135, 153, 159, 165], "poster": 17, "resourc": [17, 24, 28, 47, 107], "bale": 17, "rossmanith": 17, "siam": [17, 24, 25, 93, 135], "sci": 17, "24": [17, 52, 69, 137], "2002": 17, "955": [17, 137], "978": 17, "author": [17, 25, 46, 49, 89, 93, 94, 99, 111], "1989": 17, "hydrodynam": 17, "phy": 17, "82": 17, "64": [17, 91, 94, 96, 104], "84": [17, 52], "34": [17, 52, 60, 93], "2011": [17, 24, 83], "pp": 17, "1195": 17, "1206": 17, "adv": 17, "awr11": 17, "1998": 17, "anal": 17, "35": [17, 32, 54, 72, 93], "2298": 17, "2316": 17, "1984": 17, "partial": [17, 75, 110], "differenti": [17, 30], "53": 17, "484": 17, "512": 17, "rigoutso": 17, "1991": 17, "ieee": 17, "tran": 17, "sy": [17, 40, 67, 88, 145, 147], "man": [17, 25, 46, 49, 146, 151, 152], "cyber": 17, "21": [17, 68, 89, 91, 119, 120, 133], "1278": 17, "1286": 17, "2018": [17, 24, 55, 123, 124, 133], "phd": 17, "thesi": [17, 101], "pure": [17, 53, 81, 91, 93, 94, 96, 101, 113, 136], "appl": 17, "geophi": 17, "173": 17, "4055": 17, "4074": 17, "info": [17, 29, 30, 33, 34, 35, 45, 56, 60, 68, 88, 91, 94, 95, 101, 121, 131, 144, 145, 153], "analysi": 17, "evalu": [17, 27, 30, 34, 35, 65, 69, 85, 91, 101, 159, 162], "preprint": 17, "2000": [17, 54, 157, 159], "165": [17, 156], "126": [17, 159], "166": 17, "leveque96": 17, "1996": 17, "advect": [17, 79, 93, 96, 135, 136, 147, 162], "incompress": 17, "leveque1996": 17, "33": [17, 91, 137], "627": 17, "665": 17, "1997": [17, 93], "multi": [17, 52, 85, 115, 117, 120, 123, 162], "131": [17, 93], "327": [17, 93], "353": [17, 93], "wpalg": 17, "cambridg": 17, "press": [17, 96, 102], "uk": [17, 30], "gallery_fvmbook": 17, "acta": 17, "numerica": 17, "211": 17, "289": 17, "dg": 17, "actanum2011": 17, "techniqu": [17, 26], "2013": [17, 24, 93], "a351": [17, 93], "a377": [17, 93], "manuel": [17, 83, 93], "quezada": [17, 83, 93], "luna": [17, 83, 93], "matthew": [17, 83, 93], "kneplei": [17, 83, 93], "emmett": [17, 83, 93], "2012": [17, 22, 24, 49, 93], "scalabl": [17, 93], "c210": [17, 93], "c231": [17, 93], "sisc": [17, 93], "month": [17, 52, 93], "nov": [17, 93], "mandlietal2016": 17, "calhellev08": 17, "helzel": 17, "circular": 17, "spheric": [17, 52], "review": [17, 89], "2008": [17, 83, 89, 99], "723": 17, "752": 17, "leveque09": 17, "reproduc": [17, 54, 62, 83], "engin": [17, 52], "cise": 17, "11": [17, 32, 79, 99, 127, 128, 133], "2009": [17, 89, 94, 99], "27": [17, 52, 60, 69, 137], "levyon03": 17, "darryl": 17, "yong": 17, "solitari": 17, "layer": [17, 25, 45, 60, 91, 115, 117, 120, 121, 123], "media": 17, "math": [17, 52, 105], "63": [17, 137], "2003": 17, "1539": 17, "1560": 17, "mandli13a": 17, "72": [17, 52, 72], "91": 17, "2013it": 17, "aug": [17, 124], "mandli13b": 17, "dawson": 17, "36": [17, 48, 74, 91], "2014": [17, 24, 99, 114, 115, 116, 117, 118, 119, 133], "clint": 17, "okada85": [17, 30, 72], "okada": [17, 25, 30, 46, 111, 157, 161], "deform": [17, 30, 33, 35, 46, 72, 161], "due": [17, 24, 30, 40, 48, 72, 113, 122, 123, 128, 139, 149, 160], "shear": [17, 30], "tensil": 17, "fault": [17, 25, 30, 46, 111, 123, 130, 157, 161], "bull": [17, 30], "seism": [17, 30], "soc": [17, 30], "am": [17, 30], "1985": [17, 30], "1135": 17, "1154": 17, "octob": [18, 117, 118, 119, 125, 126, 129, 130, 132, 133], "2023": [18, 132, 133], "accompani": [18, 21, 131, 132], "featur": [18, 22, 25, 28, 32, 40, 52, 55, 68, 79, 86, 112, 113, 118, 120, 121, 123, 128, 131, 132, 133, 153, 157], "dev": [18, 24, 28, 55, 56, 96, 123, 124, 129, 130, 131, 132, 133], "diff": [18, 51, 56, 115, 116, 117, 118, 119, 120, 121, 122, 123, 124, 125, 126, 127, 128, 129, 130, 131, 132], "tarfil": [18, 56, 59, 122, 123, 124, 125, 126, 127, 128, 129, 130, 131, 132], "pip": [18, 25, 28, 52, 56, 57, 87, 93, 96, 102, 104, 108, 122, 123, 124, 125, 126, 127, 128, 129, 130, 131, 132, 133, 141], "doc": [18, 23, 24, 28, 30, 52, 56, 89, 106, 107, 108, 122, 123, 124, 125, 126, 127, 128, 129, 130, 131, 132, 150], "docker": [18, 25, 56, 57, 122, 123, 124, 125, 126, 127, 128, 129, 130, 131, 132, 164], "migrat": 19, "intermedi": [19, 32, 35, 72, 134, 162], "easiest": [19, 28, 42, 75, 79, 81, 112, 162], "bulk": [19, 85, 99, 105, 135, 145, 162], "convers": [19, 25, 86, 94, 112, 137, 157, 161], "convert43to46": 19, "inspect": [19, 20, 52], "broken": [19, 20, 28, 72, 113], "renam": [20, 22, 36, 37, 63, 98, 101], "achiev": [20, 86, 151, 152], "convert46to50": 20, "_4": 20, "complet": [20, 22, 28, 48, 63, 81, 85, 86, 96, 106, 113], "delet": [20, 28, 55, 59], "variant": [20, 57, 106, 113], "combin": [20, 55, 60, 120, 161], "properli": 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"changes-to-riemann"], [121, "changes-to-riemann"], [122, "changes-to-riemann"], [123, "changes-to-riemann"], [124, "changes-to-riemann"], [125, "changes-to-riemann"], [126, "changes-to-riemann"], [127, "changes-to-riemann"], [128, "changes-to-riemann"], [129, "changes-to-riemann"], [130, "changes-to-riemann"], [131, "changes-to-riemann"], [132, "changes-to-riemann"]], "Changes to amrclaw": [[18, "changes-to-amrclaw"], [115, "changes-to-amrclaw"], [116, "changes-to-amrclaw"], [117, "changes-to-amrclaw"], [118, "changes-to-amrclaw"], [119, "changes-to-amrclaw"], [120, "changes-to-amrclaw"], [121, "changes-to-amrclaw"], [122, "changes-to-amrclaw"], [123, "changes-to-amrclaw"], [124, "changes-to-amrclaw"], [125, "changes-to-amrclaw"], [126, "changes-to-amrclaw"], [127, "changes-to-amrclaw"], [128, "changes-to-amrclaw"], [129, "changes-to-amrclaw"], [130, "changes-to-amrclaw"], [131, "changes-to-amrclaw"], [132, "changes-to-amrclaw"]], "Changes to geoclaw": [[18, "changes-to-geoclaw"], [115, "changes-to-geoclaw"], [116, "changes-to-geoclaw"], [117, "changes-to-geoclaw"], [118, "changes-to-geoclaw"], [119, "changes-to-geoclaw"], [120, "changes-to-geoclaw"], [121, "changes-to-geoclaw"], [122, "changes-to-geoclaw"], [123, "changes-to-geoclaw"], [124, "changes-to-geoclaw"], [125, "changes-to-geoclaw"], [126, "changes-to-geoclaw"], [127, "changes-to-geoclaw"], [128, "changes-to-geoclaw"], [129, "changes-to-geoclaw"], [130, "changes-to-geoclaw"], [131, "changes-to-geoclaw"], [132, "changes-to-geoclaw"]], "Changes to PyClaw": [[18, "changes-to-pyclaw"], [114, "changes-to-pyclaw"], [115, "changes-to-pyclaw"], [116, "changes-to-pyclaw"], [117, "changes-to-pyclaw"], [118, "changes-to-pyclaw"], [119, "changes-to-pyclaw"], [120, "changes-to-pyclaw"], [121, "changes-to-pyclaw"], [122, "changes-to-pyclaw"], [123, "changes-to-pyclaw"], [124, "changes-to-pyclaw"], [125, "changes-to-pyclaw"], [126, "changes-to-pyclaw"], [127, "changes-to-pyclaw"], [128, "changes-to-pyclaw"], [129, "changes-to-pyclaw"], [130, "changes-to-pyclaw"], [131, "changes-to-pyclaw"], [132, "changes-to-pyclaw"]], "Other Clawpack Repositories": [[18, "other-clawpack-repositories"], [122, "other-clawpack-repositories"], [123, "other-clawpack-repositories"], [124, "other-clawpack-repositories"], [125, "other-clawpack-repositories"], [126, "other-clawpack-repositories"], [127, "other-clawpack-repositories"], [128, "other-clawpack-repositories"], [129, "other-clawpack-repositories"], [130, "other-clawpack-repositories"], [131, "other-clawpack-repositories"], [132, "other-clawpack-repositories"]], "Converting from Clawpack 4.3 to 4.6": [[19, "converting-from-clawpack-4-3-to-4-6"]], "Converting from Clawpack 4.6 to 5.0": [[20, "converting-from-clawpack-4-6-to-5-0"]], "Python conversion tool": [[20, "python-conversion-tool"]], "Clawpack 4.x links": [[21, "clawpack-4-x-links"]], "Changes in Clawpack 5.0": [[22, "changes-in-clawpack-5-0"]], "PyClaw in 5.0": [[22, "pyclaw-in-5-0"]], "Fortran package changes": [[22, "fortran-package-changes"]], "Changes to input parameters in setrun.py from 4.x to 5.0": [[22, "changes-to-input-parameters-in-setrun-py-from-4-x-to-5-0"]], "Changes to general parameters": [[22, "changes-to-general-parameters"]], "Changes to AMR parameters": [[22, "changes-to-amr-parameters"]], "Changes to GeoClaw parameters": [[22, "changes-to-geoclaw-parameters"]], "Changes to plotting routines": [[22, "changes-to-plotting-routines"]], "Clawpack components": [[23, "clawpack-components"]], "Other repositories": [[23, "other-repositories"]], "Clawpack Community": [[24, "clawpack-community"]], "User Workshops, Clinics, and Tutorials": [[24, "user-workshops-clinics-and-tutorials"]], "Available for streaming": [[24, "available-for-streaming"]], "Upcoming": [[24, "upcoming"], [24, "id1"]], "Recent": [[24, "recent"]], "Developer Workshops and Sprint Sessions": [[24, "developer-workshops-and-sprint-sessions"]], "Previous": [[24, "previous"]], "Other Clawpack events": [[24, "other-clawpack-events"]], "Contents": [[25, "id1"], [28, "contents"], [40, "contents"], [67, "contents"], [79, "contents"], [85, "contents"], [95, "contents"], [101, "contents"], [113, "contents"], [137, "contents"]], "Full Table of Contents": [[25, "full-table-of-contents"]], "Overview and Getting Started": [[25, "overview-and-getting-started"]], "Examples and Applications": [[25, "examples-and-applications"]], "Classic, AMRClaw, and GeoClaw": [[25, "classic-amrclaw-and-geoclaw"]], "Using the Fortran codes": [[25, "using-the-fortran-codes"]], "AMRClaw: adaptive mesh refinement": [[25, "amrclaw-adaptive-mesh-refinement"]], "GeoClaw: geophysical flows": [[25, "geoclaw-geophysical-flows"]], "PyClaw": [[25, "pyclaw"], [36, "pyclaw"], [93, "pyclaw"], [113, "pyclaw"], [155, "pyclaw"]], "Riemann": [[25, "riemann"]], "VisClaw: Plotting and Visualization Tools": [[25, "visclaw-plotting-and-visualization-tools"]], "Migrating applications from older versions of Clawpack": [[25, "migrating-applications-from-older-versions-of-clawpack"]], "Developers\u2019 resources": [[25, "developers-resources"]], "References": [[25, "references"], [53, "references"]], "Contributing examples and applications": [[26, "contributing-examples-and-applications"]], "current_data": [[27, "current-data"]], "Attributes of current_data:": [[27, "attributes-of-current-data"]], "Developers\u2019 Guide": [[28, "developers-guide"]], "Guidelines for contributing": [[28, "guidelines-for-contributing"]], "Reporting and fixing bugs": [[28, "reporting-and-fixing-bugs"]], "Developer communication": [[28, "developer-communication"]], "Installation instructions for developers": [[28, "installation-instructions-for-developers"]], "Cloning the most recent code from Github": [[28, "cloning-the-most-recent-code-from-github"]], "Checking out the master branch on each repository": [[28, "checking-out-the-master-branch-on-each-repository"]], "Updating to the latest master branch": [[28, "updating-to-the-latest-master-branch"]], "Never commit to master": [[28, "never-commit-to-master"]], "Adding your fork as a remote": [[28, "adding-your-fork-as-a-remote"]], "Modifying code": [[28, "modifying-code"]], "Issuing a pull request": [[28, "issuing-a-pull-request"]], "Testing a pull request": [[28, "testing-a-pull-request"]], "Top-level pull requests": [[28, "top-level-pull-requests"]], "Git workflow": [[28, "git-workflow"]], "Catching errors with Pyflakes and Pylint": [[28, "catching-errors-with-pyflakes-and-pylint"]], "Checking test coverage": [[28, "checking-test-coverage"]], "Trouble-Shooting Tips": [[28, "trouble-shooting-tips"]], "Docker for Clawpack": [[29, "docker-for-clawpack"]], "Using Version 5.9.0 or above": [[29, "using-version-5-9-0-or-above"]], "Getting started": [[29, "getting-started"]], "Stopping a container": [[29, "stopping-a-container"]], "Restarting a container": [[29, "restarting-a-container"]], "Running Jupyter notebooks": [[29, "running-jupyter-notebooks"]], "Moving files between the docker container and the host machine": [[29, "moving-files-between-the-docker-container-and-the-host-machine"]], "Some other useful docker commands": [[29, "some-other-useful-docker-commands"]], "Creating your own docker image": [[29, "creating-your-own-docker-image"]], "Dockerfiles for binder": [[29, "dockerfiles-for-binder"]], "dtopotools module for moving topography": [[30, "dtopotools-module-for-moving-topography"]], "Documentation auto-generated from the module docstrings": [[30, "module-clawpack.geoclaw.dtopotools"], [33, "module-clawpack.geoclaw.fgmax_tools"], [35, "module-clawpack.geoclaw.fgout_tools"], [48, "module-clawpack.geoclaw.util"], [60, "module-clawpack.geoclaw.kmltools"], [159, "module-clawpack.geoclaw.topotools"]], "Fortran 77 vs. Fortran 90 files": [[31, "fortran-77-vs-fortran-90-files"]], "Fixed grid monitoring": [[32, "fixed-grid-monitoring"]], "Input file specification": [[32, "input-file-specification"], [34, "input-file-specification"]], "Different point styles": [[32, "different-point-styles"]], "Other attributes": [[32, "other-attributes"]], "Values to monitor": [[32, "values-to-monitor"]], "Choice of interpolation procedure": [[32, "choice-of-interpolation-procedure"], [34, "choice-of-interpolation-procedure"]], "A simple example": [[32, "a-simple-example"], [34, "a-simple-example"]], "Processing and plotting fgmax output": [[32, "processing-and-plotting-fgmax-output"]], "Format of the output files": [[32, "format-of-the-output-files"]], "fgmax_tools module for working with fgmax grids": [[33, "fgmax-tools-module-for-working-with-fgmax-grids"]], "Fixed grid output": [[34, "fixed-grid-output"], [146, "fixed-grid-output"]], "Format of fgout output": [[34, "format-of-fgout-output"]], "Using setplot.py to produce plots": [[34, "using-setplot-py-to-produce-plots"]], "Reading and plotting fgout arrays directly": [[34, "reading-and-plotting-fgout-arrays-directly"]], "fgout grid registration": [[34, "fgout-grid-registration"]], "fgout_tools module for working with fgout grids": [[35, "fgout-tools-module-for-working-with-fgout-grids"]], "Running an example": [[36, "running-an-example"], [37, "running-an-example"], [38, "running-an-example"]], "Classic": [[36, "classic"], [37, "classic"], [155, "classic"]], "Testing your Fortran installation and running an example": [[37, "testing-your-fortran-installation-and-running-an-example"]], "More examples": [[37, "more-examples"]], "Testing a PyClaw installation and running an example": [[38, "testing-a-pyclaw-installation-and-running-an-example"]], "From the Jupyter notebook": [[38, "from-the-jupyter-notebook"]], "From the IPython interpreter": [[38, "from-the-ipython-interpreter"]], "From the command line": [[38, "from-the-command-line"], [90, "from-the-command-line"]], "Specifying flagregions for adaptive refinement": [[39, "specifying-flagregions-for-adaptive-refinement"]], "Using ruled rectangles as flagregions": [[39, "using-ruled-rectangles-as-flagregions"]], "Force Cells to be Dry Initially": [[40, "force-cells-to-be-dry-initially"]], "Examples": [[40, "examples"], [45, "examples"], [67, "examples"], [93, "examples"], [137, "examples"]], "Sample topography from a 1/3 arcsecond DEM": [[40, "sample-topography-from-a-1-3-arcsecond-dem"], [67, "sample-topography-from-a-1-3-arcsecond-dem"]], "Creating the force_dry_init array": [[40, "creating-the-force-dry-init-array"]], "Create file to read into GeoClaw": [[40, "create-file-to-read-into-geoclaw"]], "Usage in GeoClaw Fortran code": [[40, "usage-in-geoclaw-fortran-code"]], "Internal GeoClaw modifications": [[40, "internal-geoclaw-modifications"]], "Fortran version": [[41, "fortran-version"]], "Makefiles": [[41, "makefiles"]], "More tips": [[41, "more-tips"]], "Fortran Compilers": [[42, "fortran-compilers"]], "FC environment variable": [[42, "fc-environment-variable"]], "FFLAGS environment variable": [[42, "fflags-environment-variable"]], "LFLAGS environment variable": [[42, "lflags-environment-variable"]], "Pre-Processor and the PPFLAGS environment variable": [[42, "pre-processor-and-the-ppflags-environment-variable"]], "gfortran compiler": [[42, "gfortran-compiler"]], "Intel fortran compiler": [[42, "intel-fortran-compiler"]], "Examples from the book FVMHP": [[43, "examples-from-the-book-fvmhp"]], "Available examples": [[43, "available-examples"]], "Clawpack Gallery": [[44, "clawpack-gallery"]], "Gauges": [[45, "gauges"]], "Gauge parameters in setrun": [[45, "gauge-parameters-in-setrun"]], "Plotting tools": [[45, "plotting-tools"]], "Plotting gauge locations": [[45, "plotting-gauge-locations"]], "GeoClaw Description and Detailed Contents": [[46, "geoclaw-description-and-detailed-contents"]], "Getting started with GeoClaw": [[47, "getting-started-with-geoclaw"]], "Running a GeoClaw code": [[47, "running-a-geoclaw-code"]], "Topography": [[47, "topography"]], "Plotting GeoClaw results": [[47, "plotting-geoclaw-results"]], "Setting up a new example": [[47, "setting-up-a-new-example"]], "geoclaw.util module of utility functions": [[48, "geoclaw-util-module-of-utility-functions"]], "Cautionary Hints on using GeoClaw": [[49, "cautionary-hints-on-using-geoclaw"]], "Tsunami hazard modeling": [[49, "tsunami-hazard-modeling"]], "GeoClaw plotting tools": [[50, "geoclaw-plotting-tools"]], "Plotting water depth or surface elevation": [[50, "plotting-water-depth-or-surface-elevation"]], "Tips on latitude-longitude coordinate axes": [[50, "tips-on-latitude-longitude-coordinate-axes"]], "Keeping track of repository versions with Git": [[51, "keeping-track-of-repository-versions-with-git"]], "Visualizing GeoClaw results in Google Earth": [[52, "visualizing-geoclaw-results-in-google-earth"]], "Basic requirements": [[52, "basic-requirements"]], "Optional GDAL library": [[52, "optional-gdal-library"]], "An example : The Chile 2010 tsunami event": [[52, "an-example-the-chile-2010-tsunami-event"]], "Plotting attributes needed for Google Earth": [[52, "plotting-attributes-needed-for-google-earth"]], "plotdata attributes": [[52, "plotdata-attributes"]], "plotfigure attributes": [[52, "plotfigure-attributes"]], "Creating the figures": [[52, "creating-the-figures"]], "plotaxes attributes": [[52, "plotaxes-attributes"]], "plotitem attributes": [[52, "plotitem-attributes"]], "Adding a colorbar overlay": [[52, "adding-a-colorbar-overlay"]], "Gauge plots": [[52, "gauge-plots"]], "Additional plotdata attributes": [[52, "additional-plotdata-attributes"]], "Plotting tips": [[52, "plotting-tips"]], "KML and KMZ files": [[52, "kml-and-kmz-files"]], "Tiling images for faster loading": [[52, "tiling-images-for-faster-loading"]], "Removing aliasing artifacts": [[52, "removing-aliasing-artifacts"]], "Creating multiple figures at different resolutions": [[52, "creating-multiple-figures-at-different-resolutions"]], "Mapping topography data to latitude/longitude coordinates": [[52, "mapping-topography-data-to-latitude-longitude-coordinates"]], "Publishing your results": [[52, "id1"]], "Using the GPU version of Clawpack": [[53, "using-the-gpu-version-of-clawpack"]], "Grid registration": [[54, "grid-registration"]], "NetCDF files": [[54, "netcdf-files"]], "Guide for updating this documentation": [[55, "guide-for-updating-this-documentation"]], "Git branches and tags": [[55, "git-branches-and-tags"]], "Configuration and style files": [[55, "configuration-and-style-files"]], "Updating the docs for a new release": [[55, "updating-the-docs-for-a-new-release"]], "To generate docs including previous versions": [[55, "to-generate-docs-including-previous-versions"]], "Updating for a new major version": [[55, "updating-for-a-new-major-version"]], "Updating the gallery": [[55, "updating-the-gallery"]], "Updating the webpages": [[55, "updating-the-webpages"]], "Extra files for webpages not built by Sphinx": [[55, "extra-files-for-webpages-not-built-by-sphinx"]], "Pages from other clawpack repositories": [[55, "pages-from-other-clawpack-repositories"]], "Guide for doing a Clawpack release": [[56, "guide-for-doing-a-clawpack-release"]], "Preparation": [[56, "preparation"]], "Version numbers": [[56, "version-numbers"]], "Release candidates": [[56, "release-candidates"]], "Create a tar file and a Github release": [[56, "create-a-tar-file-and-a-github-release"]], "Final release": [[56, "final-release"]], "Pypi": [[56, "pypi"]], "Zenodo": [[56, "zenodo"]], "Open Science Framework (OSF)": [[56, "open-science-framework-osf"]], "Updating the documentation": [[56, "updating-the-documentation"]], "Updating the apps repository": [[56, "updating-the-apps-repository"]], "Updating the Dockerfile": [[56, "updating-the-dockerfile"]], "Installing Clawpack": [[57, "installing-clawpack"]], "Next steps:": [[57, "next-steps"], [58, "next-steps"], [59, "next-steps"]], "Options for installing Clawpack Fortran codes": [[58, "options-for-installing-clawpack-fortran-codes"]], "tar file": [[58, "tar-file"]], "git clone": [[58, "git-clone"]], "pip install instructions": [[59, "pip-install-instructions"]], "Quick Installation of PyClaw with pip": [[59, "quick-installation-of-pyclaw-with-pip"]], "Quick Installation of all packages with pip": [[59, "quick-installation-of-all-packages-with-pip"]], "Using pip to install a different version": [[59, "using-pip-to-install-a-different-version"]], "Experimenting with code in the examples directories": [[59, "experimenting-with-code-in-the-examples-directories"]], "Troubleshooting pip install": [[59, "troubleshooting-pip-install"]], "kmltools module of utility functions": [[60, "kmltools-module-of-utility-functions"]], "Lagrangian gauges for particle tracking": [[61, "lagrangian-gauges-for-particle-tracking"]], "Specifying Lagrangian Gauges": [[61, "specifying-lagrangian-gauges"]], "Visclaw tools for plotting": [[61, "visclaw-tools-for-plotting"]], "An alternative using fgout grids": [[61, "an-alternative-using-fgout-grids"]], "Clawpack Makefiles": [[63, "clawpack-makefiles"]], "Applications directory Makefiles": [[63, "applications-directory-makefiles"]], "output": [[63, "output"]], "plots": [[63, "plots"]], "Variables": [[63, "variables"]], "Compiler flags": [[63, "compiler-flags"]], "Duplicate Base Source Name": [[63, "duplicate-base-source-name"]], "Library routines in Makefiles": [[64, "library-routines-in-makefiles"]], "Replacing files with the same name as library files": [[64, "replacing-files-with-the-same-name-as-library-files"]], "Using a modified library routine with a different name": [[64, "using-a-modified-library-routine-with-a-different-name"]], "Manning friction term": [[65, "manning-friction-term"]], "The mapc2p function": [[66, "the-mapc2p-function"]], "Marching Front algorithm": [[67, "marching-front-algorithm"]], "Function arguments": [[67, "function-arguments"]], "output array": [[67, "output-array"]], "creating a masked array": [[67, "creating-a-masked-array"]], "topofile mask for initializing dry points": [[67, "topofile-mask-for-initializing-dry-points"]], "fgmax points": [[67, "fgmax-points"]], "flag regions": [[67, "flag-regions"]], "The mask argument": [[67, "the-mask-argument"]], "The previous_pts_chosen argument": [[67, "the-previous-pts-chosen-argument"]], "Finding all points below a given elevation": [[67, "finding-all-points-below-a-given-elevation"]], "Create a buffer zone along shore": [[67, "create-a-buffer-zone-along-shore"]], "Choose points only near shore": [[67, "choose-points-only-near-shore"]], "Write out the masked array indicating fgmax points": [[67, "write-out-the-masked-array-indicating-fgmax-points"]], "Creating an AMR flag region": [[67, "creating-an-amr-flag-region"]], "Determining dry areas below MHW": [[67, "determining-dry-areas-below-mhw"]], "Plotting using Matlab": [[68, "plotting-using-matlab"]], "The Matlab search path": [[68, "the-matlab-search-path"]], "Creating output files": [[68, "creating-output-files"]], "The plotclaw command": [[68, "the-plotclaw-command"]], "The setplot file": [[68, "the-setplot-file"]], "The afterframe file": [[68, "the-afterframe-file"]], "Getting help": [[68, "getting-help"]], "Trouble shooting": [[68, "trouble-shooting"]], "Output files not found": [[68, "output-files-not-found"]], "MaxFrames not set": [[68, "maxframes-not-set"]], "Switching examples": [[68, "switching-examples"]], "Matlab Gallery": [[68, "matlab-gallery"]], "Nearshore interpolation": [[69, "nearshore-interpolation"]], "Using NetCDF output": [[70, "using-netcdf-output"]], "Creating a new application directory": [[71, "creating-a-new-application-directory"]], "Copying an existing example": [[71, "copying-an-existing-example"]], "Earthquake sources: Fault slip and the Okada model": [[72, "earthquake-sources-fault-slip-and-the-okada-model"]], "Fault slip on rectangular subfaults": [[72, "fault-slip-on-rectangular-subfaults"]], "Okada model": [[72, "okada-model"]], "Kinematic rupture": [[72, "kinematic-rupture"]], "Fault slip on triangular subfaults": [[72, "fault-slip-on-triangular-subfaults"]], "Using OpenMP": [[73, "using-openmp"]], "Using OpenMP with AMR": [[73, "using-openmp-with-amr"]], "Fixed grid output in GeoClaw": [[73, "fixed-grid-output-in-geoclaw"]], "Output data sytles and formats": [[74, "output-data-sytles-and-formats"]], "Output style": [[74, "output-style"]], "Output data formats": [[74, "output-data-formats"]], "ASCII output data format": [[74, "ascii-output-data-format"]], "fort.t0002": [[74, "fort-t0002"]], "fort.q0002": [[74, "fort-q0002"]], "Raw binary output data formats": [[74, "raw-binary-output-data-formats"]], "NetCDF output data format": [[74, "netcdf-output-data-format"]], "Output of aux arrays": [[74, "output-of-aux-arrays"]], "Which Clawpack solver should I use?": [[75, "which-clawpack-solver-should-i-use"]], "Installation and user interface": [[75, "installation-and-user-interface"]], "Algorithmic differences": [[75, "algorithmic-differences"]], "Parallel computing": [[75, "parallel-computing"]], "Clawpack Community Photos": [[76, "clawpack-community-photos"]], "2016 Developers\u2019 workshop at University of Washington": [[76, "id1"]], "2015 Developers\u2019 workshop at University of Utah": [[76, "id2"]], "2014 HPC3 workshop at KAUST": [[76, "id3"]], "2013 Claw-Dev workshop at UW": [[76, "id4"]], "2012 HPC3 workshop at KAUST": [[76, "id6"]], "2011 coding sprints at UW": [[76, "coding-sprints-at-uw"]], "2010 GeoClaw hacking UW": [[76, "geoclaw-hacking-uw"]], "Plotting examples": [[77, "plotting-examples"]], "Plotting with Visclaw": [[78, "plotting-with-visclaw"]], "Plotting as post-processing": [[78, "plotting-as-post-processing"]], "Plotting on the fly": [[78, "plotting-on-the-fly"]], "Plotting hints and FAQ": [[79, "plotting-hints-and-faq"]], "What\u2019s the difference between make .plots and make plots ?": [[79, "what-s-the-difference-between-make-plots-and-make-plots"]], "How to plot a something other than a component of q?": [[79, "how-to-plot-a-something-other-than-a-component-of-q"]], "How to add another curve to a plot, e.g. the true solution?": [[79, "how-to-add-another-curve-to-a-plot-e-g-the-true-solution"]], "How to change the title in a plot?": [[79, "how-to-change-the-title-in-a-plot"]], "How to specify outdir, the directory to find fort.* files for plotting?": [[79, "how-to-specify-outdir-the-directory-to-find-fort-files-for-plotting"]], "How to specify a different outdir for some plot item?": [[79, "how-to-specify-a-different-outdir-for-some-plot-item"]], "How to set plot parameters that are not provided as attributes of ClawPlotItem?": [[79, "how-to-set-plot-parameters-that-are-not-provided-as-attributes-of-clawplotitem"]], "How to change the size or background color of a figure?": [[79, "how-to-change-the-size-or-background-color-of-a-figure"]], "Specifying colormaps for pcolor or contourf plots": [[79, "specifying-colormaps-for-pcolor-or-contourf-plots"]], "How to debug setplot.py?": [[79, "how-to-debug-setplot-py"]], "Plotting routines for GeoClaw": [[80, "plotting-routines-for-geoclaw"]], "Plotting options in Python": [[81, "plotting-options-in-python"]], "Producing html plots from the command line": [[81, "producing-html-plots-from-the-command-line"]], "Producing a latex file with plots from the command line": [[81, "producing-a-latex-file-with-plots-from-the-command-line"]], "Setting plot parameters with a setplot function": [[81, "setting-plot-parameters-with-a-setplot-function"]], "Interactive plotting with Iplotclaw": [[81, "interactive-plotting-with-iplotclaw"]], "Access to current_data": [[81, "access-to-current-data"]], "printframes": [[81, "printframes"]], "Specifying what and how to plot": [[81, "specifying-what-and-how-to-plot"]], "Installation Prerequisites": [[82, "installation-prerequisites"]], "Operating system": [[82, "operating-system"]], "Fortran": [[82, "fortran"]], "Python": [[82, "python"]], "pip": [[82, "pip"]], "Git": [[82, "git"]], "About PyClaw": [[83, "about-pyclaw"]], "Contributors": [[83, "contributors"]], "PyClaw Basics": [[84, "pyclaw-basics"]], "Understanding Pyclaw Classes": [[85, "understanding-pyclaw-classes"]], "Flow of a Pyclaw Simulation": [[85, "flow-of-a-pyclaw-simulation"]], "Creation of a Pyclaw Solution": [[85, "creation-of-a-pyclaw-solution"]], "Creation of a Pyclaw Solver": [[85, "creation-of-a-pyclaw-solver"]], "Creating and Running a Simulation with Controller": [[85, "creating-and-running-a-simulation-with-controller"]], "Restarting a simulation": [[85, "restarting-a-simulation"]], "Outputting aux values": [[85, "outputting-aux-values"]], "Outputting derived quantities": [[85, "outputting-derived-quantities"], [95, "outputting-derived-quantities"]], "Porting a problem from Clawpack 4.6.x to PyClaw": [[86, "porting-a-problem-from-clawpack-4-6-x-to-pyclaw"]], "Running PyClaw in the cloud": [[87, "running-pyclaw-in-the-cloud"]], "Sage Math Cloud": [[87, "sage-math-cloud"]], "Pyclaw Controller Class": [[88, "pyclaw-controller-class"]], "pyclaw.controller.Controller": [[88, "pyclaw-controller-controller"]], "Pyclaw Limiters": [[89, "pyclaw-limiters"]], "clawpack.pyclaw.limiters.tvd": [[89, "module-clawpack.pyclaw.limiters.tvd"]], "CFL Independent Limiters": [[89, "cfl-independent-limiters"]], "CFL Dependent Limiters": [[89, "cfl-dependent-limiters"]], "Working with PyClaw\u2019s built-in examples": [[90, "working-with-pyclaw-s-built-in-examples"]], "Running and plotting examples": [[90, "running-and-plotting-examples"]], "Interactively in IPython": [[90, "interactively-in-ipython"]], "Built-in examples": [[90, "built-in-examples"]], "Adding new examples": [[90, "adding-new-examples"]], "PyClaw Geometry": [[91, "pyclaw-geometry"]], "Serial Geometry Objects": [[91, "serial-geometry-objects"]], "pyclaw.geometry.Domain": [[91, "pyclaw-geometry-domain"]], "pyclaw.geometry.Patch": [[91, "pyclaw-geometry-patch"]], "pyclaw.geometry.Grid": [[91, "pyclaw-geometry-grid"]], "pyclaw.geometry.Dimension": [[91, "pyclaw-geometry-dimension"]], "Parallel Geometry Objects": [[91, "parallel-geometry-objects"]], "petclaw.geometry.Domain": [[91, "petclaw-geometry-domain"]], "petclaw.geometry.Patch": [[91, "petclaw-geometry-patch"]], "Going Further": [[92, "going-further"]], "PyClaw installation": [[93, "pyclaw-installation"]], "Features": [[93, "features"]], "PyClaw Documentation": [[93, "pyclaw-documentation"]], "PyClaw Modules reference documentation": [[93, "pyclaw-modules-reference-documentation"]], "Riemann Solvers reference documentation": [[93, "riemann-solvers-reference-documentation"]], "Indices and tables": [[93, "indices-and-tables"]], "Citing PyClaw": [[93, "citing-pyclaw"]], "Pyclaw Input/Output Package": [[94, "pyclaw-input-output-package"]], "pyclaw.fileio.ascii": [[94, "module-clawpack.pyclaw.fileio.ascii"]], "pyclaw.fileio.binary": [[94, "module-clawpack.pyclaw.fileio.binary"]], "pyclaw.fileio.hdf5": [[94, "pyclaw-fileio-hdf5"]], "pyclaw.fileio.netcdf": [[94, "module-clawpack.pyclaw.fileio.netcdf"]], "PyClaw output": [[95, "pyclaw-output"]], "Output frames": [[95, "output-frames"]], "When output is saved/written": [[95, "when-output-is-saved-written"]], "Where and how output is written": [[95, "where-and-how-output-is-written"]], "What output is written": [[95, "what-output-is-written"]], "Outputting functionals": [[95, "outputting-functionals"]], "Using gauges": [[95, "using-gauges"]], "Logging": [[95, "logging"]], "Running in parallel": [[96, "running-in-parallel"]], "Installing PETSc": [[96, "installing-petsc"]], "Testing your installation": [[96, "testing-your-installation"], [155, "testing-your-installation"]], "Running and plotting an example": [[96, "running-and-plotting-an-example"]], "Tips for making your application run correctly in parallel": [[96, "tips-for-making-your-application-run-correctly-in-parallel"]], "Passing options to PETSc": [[96, "passing-options-to-petsc"]], "Plotting PyClaw results": [[97, "plotting-pyclaw-results"]], "Basics": [[97, "basics"]], "Plotting result from parallel runs": [[97, "plotting-result-from-parallel-runs"]], "Setting up your own problem": [[98, "setting-up-your-own-problem"]], "Writing the initialization script": [[98, "writing-the-initialization-script"]], "Setting initial conditions": [[98, "setting-initial-conditions"]], "Setting auxiliary variables": [[98, "setting-auxiliary-variables"]], "Setting boundary conditions": [[98, "setting-boundary-conditions"]], "Setting solver options": [[98, "setting-solver-options"]], "Using your own Riemann solver": [[98, "using-your-own-riemann-solver"]], "Adding source terms": [[98, "adding-source-terms"]], "Setting up the Makefile": [[98, "setting-up-the-makefile"]], "Riemann Solver Package": [[99, "riemann-solver-package"]], "Acoustics": [[99, "acoustics"]], "Advection": [[99, "advection"]], "Burgers Equation": [[99, "burgers-equation"]], "Euler Equations": [[99, "euler-equations"]], "Shallow Water Equations": [[99, "shallow-water-equations"]], "PyClaw Solutions": [[100, "pyclaw-solutions"]], "pyclaw.solution.Solution": [[100, "pyclaw-solution-solution"]], "Using PyClaw\u2019s solvers: Classic and SharpClaw": [[101, "using-pyclaw-s-solvers-classic-and-sharpclaw"]], "SharpClaw Solvers": [[101, "sharpclaw-solvers"]], "pyclaw.sharpclaw": [[101, "pyclaw-sharpclaw"]], "Pyclaw Classic Clawpack Solvers": [[101, "pyclaw-classic-clawpack-solvers"]], "pyclaw.classic.solver": [[101, "pyclaw-classic-solver"]], "Change to Custom BC Function Signatures": [[101, "change-to-custom-bc-function-signatures"]], "Installing PyClaw": [[102, "installing-pyclaw"]], "Dependencies: Python, gfortran, numpy, and matplotlib": [[102, "dependencies-python-gfortran-numpy-and-matplotlib"]], "Obtaining Python, numpy, and matplotlib": [[102, "obtaining-python-numpy-and-matplotlib"]], "Clawpack": [[102, "clawpack"]], "Testing your installation with nose": [[102, "testing-your-installation-with-nose"]], "Next steps": [[102, "next-steps"]], "PyClaw State": [[103, "pyclaw-state"]], "Serial pyclaw.state.State": [[103, "serial-pyclaw-state-state"]], "Parallel petclaw.state.State": [[103, "parallel-petclaw-state-state"]], "Troubleshooting": [[104, "troubleshooting"], [160, "troubleshooting"]], "Compilation errors": [[104, "compilation-errors"]], "Use Fortran-ordered arrays": [[104, "use-fortran-ordered-arrays"]], "Installation": [[104, "installation"]], "PyClaw tutorial: Solve the acoustics equations": [[105, "pyclaw-tutorial-solve-the-acoustics-equations"]], "The Solver": [[105, "the-solver"]], "The domain": [[105, "the-domain"]], "Initial condition": [[105, "initial-condition"]], "Problem-specific parameters": [[105, "problem-specific-parameters"]], "The controller": [[105, "the-controller"]], "Pyclaw Utility Module": [[106, "pyclaw-utility-module"]], "pyclaw.util": [[106, "module-clawpack.pyclaw.util"]], "Python Hints": [[107, "python-hints"]], "Dropping support for Python 2.7": [[107, "dropping-support-for-python-2-7"]], "References and tutorials": [[107, "references-and-tutorials"]], "Notebooks": [[107, "notebooks"]], "Python path": [[108, "python-path"]], "whichclaw.py": [[108, "whichclaw-py"]], "Which version was imported?": [[108, "which-version-was-imported"]], "sys.path": [[108, "sys-path"]], "easy-install.pth": [[108, "easy-install-pth"]], "PYTHONPATH": [[108, "pythonpath"], [141, "pythonpath"]], "qinit default routines": [[109, "qinit-default-routines"]], "qinit routine in GeoClaw": [[109, "qinit-routine-in-geoclaw"]], "Quick start guide for storm surge modeling": [[110, "quick-start-guide-for-storm-surge-modeling"]], "Quick start guide for tsunami modeling": [[111, "quick-start-guide-for-tsunami-modeling"]], "AMR refinement criteria": [[112, "amr-refinement-criteria"]], "Flagging criteria": [[112, "flagging-criteria"]], "flag2refine": [[112, "flag2refine"]], "Richardson extrapolation": [[112, "richardson-extrapolation"]], "Specifying AMR regions": [[112, "specifying-amr-regions"]], "Implementation": [[112, "implementation"]], "Flagging criteria in GeoClaw": [[112, "flagging-criteria-in-geoclaw"]], "Regression testing": [[113, "regression-testing"]], "Running the tests": [[113, "running-the-tests"], [113, "id2"]], "Fortran codes": [[113, "fortran-codes"]], "Travis continuous integration": [[113, "travis-continuous-integration"]], "Diff tools for checking test output": [[113, "diff-tools-for-checking-test-output"]], "chardiff tool for line-by-line comparison of output files": [[113, "chardiff-tool-for-line-by-line-comparison-of-output-files"]], "imagediff tool for pixel comparison of plots": [[113, "imagediff-tool-for-pixel-comparison-of-plots"]], "Running and writing tests in PyClaw": [[113, "running-and-writing-tests-in-pyclaw"]], "Running serial tests simultaneously": [[113, "running-serial-tests-simultaneously"]], "Running a specific test": [[113, "running-a-specific-test"]], "Doctests": [[113, "doctests"]], "Writing New Tests": [[113, "writing-new-tests"]], "v5.0.0 release notes": [[114, "v5-0-0-release-notes"]], "Changes to classic, riemann, amrclaw, geoclaw, visclaw": [[114, "changes-to-classic-riemann-amrclaw-geoclaw-visclaw"]], "v5.1.0 release notes": [[115, "v5-1-0-release-notes"]], "v5.2.0 release notes": [[116, "v5-2-0-release-notes"]], "v5.2.1 release notes": [[117, "v5-2-1-release-notes"]], "v5.2.2 release notes": [[118, "v5-2-2-release-notes"]], "v5.3.0 release notes": [[119, "v5-3-0-release-notes"]], "v5.3.1 release notes": [[120, "v5-3-1-release-notes"]], "v5.4.0 release notes": [[121, "v5-4-0-release-notes"]], "Global changes": [[121, "global-changes"]], "v5.4.1 release notes": [[122, "v5-4-1-release-notes"]], "Changes to documentation": [[122, "changes-to-documentation"], [123, "changes-to-documentation"]], "v5.5.0 release notes": [[123, "v5-5-0-release-notes"]], "v5.6.0 release notes": [[124, "v5-6-0-release-notes"]], "v5.6.1 release notes": [[125, "v5-6-1-release-notes"]], "v5.7.0 release notes": [[126, "v5-7-0-release-notes"]], "Python support": [[126, "python-support"]], "v5.7.1 release notes": [[127, "v5-7-1-release-notes"]], "v5.8.0 release notes": [[128, "v5-8-0-release-notes"]], "v5.8.1 release notes": [[129, "v5-8-1-release-notes"]], "v5.8.2 release notes": [[130, "v5-8-2-release-notes"]], "v5.9.0 release notes": [[131, "v5-9-0-release-notes"]], "v5.9.1 release notes": [[132, "v5-9-1-release-notes"]], "Releases of Clawpack and release notes": [[133, "releases-of-clawpack-and-release-notes"]], "Other notes:": [[133, "other-notes"]], "Releases:": [[133, "id1"]], "Clawpack 4.x": [[133, "clawpack-4-x"]], "Checkpointing and restarting": [[134, "checkpointing-and-restarting"]], "Checkpointing a computation": [[134, "checkpointing-a-computation"]], "Restarting a computation": [[134, "restarting-a-computation"]], "Modifying the Makefile for a restart": [[134, "modifying-the-makefile-for-a-restart"]], "Output files after a restart": [[134, "output-files-after-a-restart"]], "Riemann solvers": [[135, "riemann-solvers"]], "One-dimensional Riemann solver": [[135, "one-dimensional-riemann-solver"]], "Pointwise Riemann solvers": [[135, "pointwise-riemann-solvers"]], "f-wave Riemann solvers": [[135, "f-wave-riemann-solvers"]], "2D Riemann solvers": [[135, "d-riemann-solvers"]], "Using a custom solver": [[135, "using-a-custom-solver"]], "Adding a solver to the Riemann repository": [[135, "adding-a-solver-to-the-riemann-repository"]], "Shallow water Riemann solvers in Clawpack": [[136, "shallow-water-riemann-solvers-in-clawpack"]], "One dimension": [[136, "one-dimension"]], "Two dimensions": [[136, "two-dimensions"]], "Layered shallow water equations": [[136, "layered-shallow-water-equations"]], "Potentially useful contributions (what\u2019s missing)": [[136, "potentially-useful-contributions-whats-missing"]], "Demonstrations": [[136, "demonstrations"]], "Roe": [[136, "roe"]], "HLL": [[136, "hll"]], "Ruled Rectangles": [[137, "ruled-rectangles"]], "Relation to convex polygons": [[137, "relation-to-convex-polygons"]], "Other attributes and methods": [[137, "other-attributes-and-methods"]], "ds": [[137, "ds"]], "slu": [[137, "slu"]], "bounding_box": [[137, "bounding-box"]], "mask_outside": [[137, "mask-outside"]], "read and write, and instantiating from a file": [[137, "read-and-write-and-instantiating-from-a-file"]], "make_kml": [[137, "make-kml"]], "A GeoClaw AMR flag region": [[137, "a-geoclaw-amr-flag-region"]], "A simple rectangle": [[137, "a-simple-rectangle"]], "Defining a Ruled Rectangle covering selected cells": [[137, "defining-a-ruled-rectangle-covering-selected-cells"]], "Example covering the continental shelf": [[137, "example-covering-the-continental-shelf"]], "Setting sea_level": [[138, "setting-sea-level"]], "Set Eta Init \u2013 spatially varying initial surface elevation": [[139, "set-eta-init-spatially-varying-initial-surface-elevation"]], "Default behavior, adjusting sea level by seismic deformation": [[139, "default-behavior-adjusting-sea-level-by-seismic-deformation"]], "Other use cases": [[139, "other-use-cases"]], "setaux default routines": [[140, "setaux-default-routines"]], "setaux routine in GeoClaw": [[140, "setaux-routine-in-geoclaw"]], "Set environment variables": [[141, "set-environment-variables"]], "CLAW": [[141, "claw"]], "FC": [[141, "fc"]], "Using setplot.py to specify the desired plots": [[142, "using-setplot-py-to-specify-the-desired-plots"]], "Plotting Data Objects": [[142, "plotting-data-objects"]], "Overview": [[142, "overview"]], "Specifying classic run-time parameters in setrun.py": [[143, "specifying-classic-run-time-parameters-in-setrun-py"]], "Input": [[143, "input"], [144, "input"]], "Output": [[143, "output"], [144, "output"]], "Run-time parameters": [[143, "run-time-parameters"], [144, "run-time-parameters"]], "Specifying AMRClaw run-time parameters in setrun.py": [[144, "specifying-amrclaw-run-time-parameters-in-setrun-py"]], "Special AMR parameters": [[144, "special-amr-parameters"]], "Debugging flags for additional printing": [[144, "debugging-flags-for-additional-printing"]], "Sample setrun.py module for AMRClaw": [[145, "sample-setrun-py-module-for-amrclaw"]], "Specifying GeoClaw parameters in setrun.py": [[146, "specifying-geoclaw-parameters-in-setrun-py"]], "Additional AMR parameters": [[146, "additional-amr-parameters"]], "General geo parameters": [[146, "general-geo-parameters"]], "Topography data file parameters": [[146, "topography-data-file-parameters"]], "qinit data file parameters": [[146, "qinit-data-file-parameters"]], "Force some cells to be initially dry": [[146, "force-some-cells-to-be-initially-dry"]], "Adjust sea level in some regions": [[146, "adjust-sea-level-in-some-regions"]], "AMR refinement region parameters": [[146, "amr-refinement-region-parameters"]], "Deprecated Fixedgrid output parameters": [[146, "deprecated-fixedgrid-output-parameters"]], "Fixed grid maximum monitoring / arrival times": [[146, "fixed-grid-maximum-monitoring-arrival-times"]], "Storm Specification Data": [[146, "storm-specification-data"]], "Sample setrun.py module for classic Clawpack": [[147, "sample-setrun-py-module-for-classic-clawpack"]], "Saving and sharing results": [[148, "saving-and-sharing-results"]], "Making webpages of plots": [[148, "making-webpages-of-plots"]], "Sharing your results": [[148, "sharing-your-results"]], "Jupyter notebooks": [[148, "jupyter-notebooks"]], "Source terms for shallow water on the sphere": [[149, "source-terms-for-shallow-water-on-the-sphere"]], "Compiling the Sphinx documentation locally": [[150, "compiling-the-sphinx-documentation-locally"]], "src1d default routines": [[151, "src1d-default-routines"]], "src1d routine in GeoClaw": [[151, "src1d-routine-in-geoclaw"]], "src default routines": [[152, "src-default-routines"]], "src routine in GeoClaw": [[152, "src-routine-in-geoclaw"]], "Storm Specification Class and Tools": [[153, "storm-specification-class-and-tools"]], "Sources for Storm Surge Data": [[154, "sources-for-storm-surge-data"]], "Timing Statistics": [[156, "timing-statistics"]], "Topography data": [[157, "topography-data"]], "Downloading topography files": [[157, "downloading-topography-files"]], "NetCDF format": [[157, "netcdf-format"]], "Topography displacement files": [[157, "topography-displacement-files"]], "qinit data file": [[157, "qinit-data-file"]], "Python tools for working with topo and dtopo": [[158, "python-tools-for-working-with-topo-and-dtopo"]], "topotools module for working with topography data": [[159, "topotools-module-for-working-with-topography-data"]], "Troubleshooting Installation": [[160, "troubleshooting-installation"]], "Troubleshooting Fortran:": [[160, "troubleshooting-fortran"]], "Setting the Fortran compiler to be used by f2py (pip)": [[160, "setting-the-fortran-compiler-to-be-used-by-f2py-pip"]], "Trouble compiling Fortran code at the command line": [[160, "trouble-compiling-fortran-code-at-the-command-line"]], "Trouble running \u201cmake .exe\u201d": [[160, "trouble-running-make-exe"]], "Trouble running \u201cmake .data\u201d": [[160, "trouble-running-make-data"]], "Trouble running \u201cmake .output\u201d": [[160, "trouble-running-make-output"]], "Trouble running \u201cmake .plots\u201d": [[160, "trouble-running-make-plots"]], "Some sources of tsunami data": [[161, "some-sources-of-tsunami-data"]], "Topography / bathymetry": [[161, "topography-bathymetry"]], "Earthquake source models": [[161, "earthquake-source-models"]], "DART buoy data": [[161, "dart-buoy-data"]], "Tide gauges": [[161, "tide-gauges"]], "User files required for the Fortran code": [[162, "user-files-required-for-the-fortran-code"]], "Specifying the initial conditions": [[162, "specifying-the-initial-conditions"]], "Specifying the Riemann solver": [[162, "specifying-the-riemann-solver"]], "Specifying boundary conditions": [[162, "specifying-boundary-conditions"]], "Specifying problem-specific data": [[162, "specifying-problem-specific-data"]], "Specifying spatially-varying data using setaux": [[162, "specifying-spatially-varying-data-using-setaux"]], "Using b4step for work to be done before each time step": [[162, "using-b4step-for-work-to-be-done-before-each-time-step"]], "Using src for source terms": [[162, "using-src-for-source-terms"]], "Using src1d for source terms with AMRClaw": [[162, "using-src1d-for-source-terms-with-amrclaw"]], "Plotting with VisIt": [[163, "plotting-with-visit"]], "Clawpack Virtual Machine": [[164, "clawpack-virtual-machine"]], "Wave-propagation algorithms": [[165, "wave-propagation-algorithms"]], "One space dimension": [[165, "one-space-dimension"]], "Godunov\u2019s method": [[165, "godunov-s-method"]], "High-resolution methods": [[165, "high-resolution-methods"]], "f-wave formulation": [[165, "f-wave-formulation"]], "Capacity functions": [[165, "capacity-functions"]], "Source terms": [[165, "source-terms"]]}, "indexentries": {"clawplotaxes (built-in class)": [[0, "ClawPlotAxes"]], "gethandle()": [[0, "gethandle"], [2, "gethandle"], [3, "gethandle"]], "new_plotitem()": [[0, "new_plotitem"]], "clawplotdata (built-in class)": [[1, "ClawPlotData"]], "clearfigures()": [[1, "clearfigures"]], "clearframes()": [[1, "clearframes"]], "getaxes()": [[1, "getaxes"]], "getfigure()": [[1, "getfigure"]], "getframe()": [[1, "getframe"], [3, "getframe"]], "getitem()": [[1, "getitem"]], "iplotclaw()": [[1, "iplotclaw"]], "new_plotfigure()": [[1, "new_plotfigure"]], "plotframe()": [[1, "plotframe"]], "printframes()": [[1, "printframes"]], "showitems()": [[1, "showitems"]], "clawplotfigure (built-in class)": [[2, "ClawPlotFigure"]], "new_plotaxes()": [[2, "new_plotaxes"]], "clawplotitem (built-in class)": [[3, "ClawPlotItem"]], "csvfault (class in clawpack.geoclaw.dtopotools)": [[30, "clawpack.geoclaw.dtopotools.CSVFault"]], "dtopography (class in clawpack.geoclaw.dtopotools)": [[30, "clawpack.geoclaw.dtopotools.DTopography"]], "fault (class in clawpack.geoclaw.dtopotools)": [[30, "clawpack.geoclaw.dtopotools.Fault"]], "mo() (clawpack.geoclaw.dtopotools.fault method)": [[30, "clawpack.geoclaw.dtopotools.Fault.Mo"]], "mo() (clawpack.geoclaw.dtopotools.subfault method)": [[30, "clawpack.geoclaw.dtopotools.SubFault.Mo"]], "mw() (clawpack.geoclaw.dtopotools.fault method)": [[30, "clawpack.geoclaw.dtopotools.Fault.Mw"]], "mw() (in module clawpack.geoclaw.dtopotools)": [[30, "clawpack.geoclaw.dtopotools.Mw"]], "siftfault (class in clawpack.geoclaw.dtopotools)": [[30, "clawpack.geoclaw.dtopotools.SiftFault"]], "subfault (class in clawpack.geoclaw.dtopotools)": [[30, "clawpack.geoclaw.dtopotools.SubFault"]], "subdividedplanefault (class in clawpack.geoclaw.dtopotools)": [[30, "clawpack.geoclaw.dtopotools.SubdividedPlaneFault"]], "tensorproductfault (class in clawpack.geoclaw.dtopotools)": [[30, "clawpack.geoclaw.dtopotools.TensorProductFault"]], "ucsbfault (class in clawpack.geoclaw.dtopotools)": [[30, "clawpack.geoclaw.dtopotools.UCSBFault"]], "calculate_geometry() (clawpack.geoclaw.dtopotools.subfault method)": [[30, "clawpack.geoclaw.dtopotools.SubFault.calculate_geometry"]], "calculate_geometry_triangles() (clawpack.geoclaw.dtopotools.subfault method)": [[30, "clawpack.geoclaw.dtopotools.SubFault.calculate_geometry_triangles"]], "centers (clawpack.geoclaw.dtopotools.subfault property)": [[30, "clawpack.geoclaw.dtopotools.SubFault.centers"]], "clawpack.geoclaw.dtopotools": [[30, "module-clawpack.geoclaw.dtopotools"]], "containing_rect() (clawpack.geoclaw.dtopotools.fault method)": [[30, "clawpack.geoclaw.dtopotools.Fault.containing_rect"]], "convert_to_standard_units() (clawpack.geoclaw.dtopotools.subfault method)": [[30, "clawpack.geoclaw.dtopotools.SubFault.convert_to_standard_units"]], "coordinate_specification (clawpack.geoclaw.dtopotools.subfault attribute)": [[30, "clawpack.geoclaw.dtopotools.SubFault.coordinate_specification"]], "corners (clawpack.geoclaw.dtopotools.subfault property)": [[30, "clawpack.geoclaw.dtopotools.SubFault.corners"]], "create_dtopo_xy() (clawpack.geoclaw.dtopotools.fault method)": [[30, "clawpack.geoclaw.dtopotools.Fault.create_dtopo_xy"]], "create_dtopography() (clawpack.geoclaw.dtopotools.fault method)": [[30, "clawpack.geoclaw.dtopotools.Fault.create_dtopography"]], "dz_at_t() (clawpack.geoclaw.dtopotools.dtopography method)": [[30, "clawpack.geoclaw.dtopotools.DTopography.dZ_at_t"]], "dz_max() (clawpack.geoclaw.dtopotools.dtopography method)": [[30, "clawpack.geoclaw.dtopotools.DTopography.dZ_max"]], "depth (clawpack.geoclaw.dtopotools.subfault attribute)": [[30, "clawpack.geoclaw.dtopotools.SubFault.depth"]], "dip (clawpack.geoclaw.dtopotools.subfault attribute)": [[30, "clawpack.geoclaw.dtopotools.SubFault.dip"]], "dynamic_slip() (clawpack.geoclaw.dtopotools.subfault method)": [[30, "clawpack.geoclaw.dtopotools.SubFault.dynamic_slip"]], "gauss_pts (clawpack.geoclaw.dtopotools.subfault property)": [[30, "clawpack.geoclaw.dtopotools.SubFault.gauss_pts"]], "latitude (clawpack.geoclaw.dtopotools.subfault attribute)": [[30, "clawpack.geoclaw.dtopotools.SubFault.latitude"]], "length (clawpack.geoclaw.dtopotools.subfault attribute)": [[30, "clawpack.geoclaw.dtopotools.SubFault.length"]], "longitude (clawpack.geoclaw.dtopotools.subfault attribute)": [[30, "clawpack.geoclaw.dtopotools.SubFault.longitude"]], "module": [[30, "module-clawpack.geoclaw.dtopotools"], [33, "module-clawpack.geoclaw.fgmax_tools"], [35, "module-clawpack.geoclaw.fgout_tools"], [48, "module-clawpack.geoclaw.util"], [60, "module-clawpack.geoclaw.kmltools"], [89, "module-clawpack.pyclaw.limiters.tvd"], [94, "module-clawpack.pyclaw.fileio.ascii"], [94, "module-clawpack.pyclaw.fileio.binary"], [94, "module-clawpack.pyclaw.fileio.netcdf"], [99, 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"clawpack.geoclaw.dtopotools.rise_fraction"]], "rise_shape (clawpack.geoclaw.dtopotools.subfault attribute)": [[30, "clawpack.geoclaw.dtopotools.SubFault.rise_shape"]], "rise_time (clawpack.geoclaw.dtopotools.subfault attribute)": [[30, "clawpack.geoclaw.dtopotools.SubFault.rise_time"]], "rise_time_starting (clawpack.geoclaw.dtopotools.subfault attribute)": [[30, "clawpack.geoclaw.dtopotools.SubFault.rise_time_starting"]], "rupture_time (clawpack.geoclaw.dtopotools.subfault attribute)": [[30, "clawpack.geoclaw.dtopotools.SubFault.rupture_time"]], "rupture_type (clawpack.geoclaw.dtopotools.subfault attribute)": [[30, "clawpack.geoclaw.dtopotools.SubFault.rupture_type"]], "set_corners() (clawpack.geoclaw.dtopotools.subfault method)": [[30, "clawpack.geoclaw.dtopotools.SubFault.set_corners"]], "set_dynamic_slip() (clawpack.geoclaw.dtopotools.fault method)": [[30, "clawpack.geoclaw.dtopotools.Fault.set_dynamic_slip"]], "set_subfaults() (clawpack.geoclaw.dtopotools.siftfault method)": [[30, "clawpack.geoclaw.dtopotools.SiftFault.set_subfaults"]], "slip (clawpack.geoclaw.dtopotools.subfault attribute)": [[30, "clawpack.geoclaw.dtopotools.SubFault.slip"]], "strike (clawpack.geoclaw.dtopotools.subfault attribute)": [[30, "clawpack.geoclaw.dtopotools.SubFault.strike"]], "strike_direction() (in module clawpack.geoclaw.dtopotools)": [[30, "clawpack.geoclaw.dtopotools.strike_direction"]], "subdivide() (clawpack.geoclaw.dtopotools.subdividedplanefault method)": [[30, "clawpack.geoclaw.dtopotools.SubdividedPlaneFault.subdivide"]], "width (clawpack.geoclaw.dtopotools.subfault attribute)": [[30, "clawpack.geoclaw.dtopotools.SubFault.width"]], "write() (clawpack.geoclaw.dtopotools.dtopography method)": [[30, "clawpack.geoclaw.dtopotools.DTopography.write"]], "write() (clawpack.geoclaw.dtopotools.fault method)": [[30, "clawpack.geoclaw.dtopotools.Fault.write"]], "fgmaxgrid (class in clawpack.geoclaw.fgmax_tools)": [[33, "clawpack.geoclaw.fgmax_tools.FGmaxGrid"]], "adjust_fgmax_1d() 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(clawpack.geoclaw.fgout_tools.fgoutframe property)": [[35, "clawpack.geoclaw.fgout_tools.FGoutFrame.B"]], "fgoutframe (class in clawpack.geoclaw.fgout_tools)": [[35, "clawpack.geoclaw.fgout_tools.FGoutFrame"]], "fgoutgrid (class in clawpack.geoclaw.fgout_tools)": [[35, "clawpack.geoclaw.fgout_tools.FGoutGrid"]], "x (clawpack.geoclaw.fgout_tools.fgoutgrid property)": [[35, "clawpack.geoclaw.fgout_tools.FGoutGrid.X"], [35, "clawpack.geoclaw.fgout_tools.FGoutGrid.x"]], "y (clawpack.geoclaw.fgout_tools.fgoutgrid property)": [[35, "clawpack.geoclaw.fgout_tools.FGoutGrid.Y"], [35, "clawpack.geoclaw.fgout_tools.FGoutGrid.y"]], "clawpack.geoclaw.fgout_tools": [[35, "module-clawpack.geoclaw.fgout_tools"]], "eta (clawpack.geoclaw.fgout_tools.fgoutframe property)": [[35, "clawpack.geoclaw.fgout_tools.FGoutFrame.eta"]], "extent_centers (clawpack.geoclaw.fgout_tools.fgoutgrid property)": [[35, "clawpack.geoclaw.fgout_tools.FGoutGrid.extent_centers"]], "extent_edges (clawpack.geoclaw.fgout_tools.fgoutgrid property)": [[35, "clawpack.geoclaw.fgout_tools.FGoutGrid.extent_edges"]], "get_as_array() (in module clawpack.geoclaw.fgout_tools)": [[35, "clawpack.geoclaw.fgout_tools.get_as_array"]], "h (clawpack.geoclaw.fgout_tools.fgoutframe property)": [[35, "clawpack.geoclaw.fgout_tools.FGoutFrame.h"]], "hss (clawpack.geoclaw.fgout_tools.fgoutframe property)": [[35, "clawpack.geoclaw.fgout_tools.FGoutFrame.hss"]], "hu (clawpack.geoclaw.fgout_tools.fgoutframe property)": [[35, "clawpack.geoclaw.fgout_tools.FGoutFrame.hu"]], "hv (clawpack.geoclaw.fgout_tools.fgoutframe property)": [[35, "clawpack.geoclaw.fgout_tools.FGoutFrame.hv"]], "make_fgout_fcn_xy() (in module clawpack.geoclaw.fgout_tools)": [[35, "clawpack.geoclaw.fgout_tools.make_fgout_fcn_xy"]], "make_fgout_fcn_xyt() (in module clawpack.geoclaw.fgout_tools)": [[35, "clawpack.geoclaw.fgout_tools.make_fgout_fcn_xyt"]], "print_netcdf_info() (in module clawpack.geoclaw.fgout_tools)": [[35, "clawpack.geoclaw.fgout_tools.print_netcdf_info"]], "read_fgout_grids_data() (clawpack.geoclaw.fgout_tools.fgoutgrid method)": [[35, "clawpack.geoclaw.fgout_tools.FGoutGrid.read_fgout_grids_data"]], "read_frame() (clawpack.geoclaw.fgout_tools.fgoutgrid method)": [[35, "clawpack.geoclaw.fgout_tools.FGoutGrid.read_frame"]], "read_netcdf() (in module clawpack.geoclaw.fgout_tools)": [[35, "clawpack.geoclaw.fgout_tools.read_netcdf"]], "read_netcdf_arrays() (in module clawpack.geoclaw.fgout_tools)": [[35, "clawpack.geoclaw.fgout_tools.read_netcdf_arrays"]], "s (clawpack.geoclaw.fgout_tools.fgoutframe property)": [[35, "clawpack.geoclaw.fgout_tools.FGoutFrame.s"]], "set_plotdata() (clawpack.geoclaw.fgout_tools.fgoutgrid method)": [[35, "clawpack.geoclaw.fgout_tools.FGoutGrid.set_plotdata"]], "u (clawpack.geoclaw.fgout_tools.fgoutframe property)": [[35, "clawpack.geoclaw.fgout_tools.FGoutFrame.u"]], "v (clawpack.geoclaw.fgout_tools.fgoutframe property)": [[35, "clawpack.geoclaw.fgout_tools.FGoutFrame.v"]], "write_netcdf() (in module clawpack.geoclaw.fgout_tools)": [[35, "clawpack.geoclaw.fgout_tools.write_netcdf"]], "write_to_fgout_data() (clawpack.geoclaw.fgout_tools.fgoutgrid method)": [[35, "clawpack.geoclaw.fgout_tools.FGoutGrid.write_to_fgout_data"]], "bearing() (in module clawpack.geoclaw.util)": [[48, "clawpack.geoclaw.util.bearing"]], "clawpack.geoclaw.util": [[48, "module-clawpack.geoclaw.util"]], "dist_latlong2meters() (in module clawpack.geoclaw.util)": [[48, "clawpack.geoclaw.util.dist_latlong2meters"]], "dist_meters2latlong() (in module clawpack.geoclaw.util)": [[48, "clawpack.geoclaw.util.dist_meters2latlong"]], "dms2decimal() (in module clawpack.geoclaw.util)": [[48, "clawpack.geoclaw.util.dms2decimal"]], "fetch_noaa_tide_data() (in module clawpack.geoclaw.util)": [[48, "clawpack.geoclaw.util.fetch_noaa_tide_data"]], "haversine() (in module clawpack.geoclaw.util)": [[48, "clawpack.geoclaw.util.haversine"]], "inv_haversine() (in module clawpack.geoclaw.util)": [[48, "clawpack.geoclaw.util.inv_haversine"]], "box2kml() (in module clawpack.geoclaw.kmltools)": [[60, "clawpack.geoclaw.kmltools.box2kml"]], "clawpack.geoclaw.kmltools": [[60, "module-clawpack.geoclaw.kmltools"]], "deg2dms() (in module clawpack.geoclaw.kmltools)": [[60, "clawpack.geoclaw.kmltools.deg2dms"]], "dtopo2kml() (in module clawpack.geoclaw.kmltools)": [[60, "clawpack.geoclaw.kmltools.dtopo2kml"]], "f2s() (in module clawpack.geoclaw.kmltools)": [[60, "clawpack.geoclaw.kmltools.f2s"]], "fgmax2kml() (in module clawpack.geoclaw.kmltools)": [[60, "clawpack.geoclaw.kmltools.fgmax2kml"]], "fgout2kml() (in module clawpack.geoclaw.kmltools)": [[60, "clawpack.geoclaw.kmltools.fgout2kml"]], "gauges2kml() (in module clawpack.geoclaw.kmltools)": [[60, "clawpack.geoclaw.kmltools.gauges2kml"]], "kml_build_colorbar() (in module clawpack.geoclaw.kmltools)": [[60, "clawpack.geoclaw.kmltools.kml_build_colorbar"]], "kml_cb() (in module clawpack.geoclaw.kmltools)": [[60, "clawpack.geoclaw.kmltools.kml_cb"]], "kml_png() (in module clawpack.geoclaw.kmltools)": [[60, "clawpack.geoclaw.kmltools.kml_png"]], "kml_timespan() (in module clawpack.geoclaw.kmltools)": [[60, "clawpack.geoclaw.kmltools.kml_timespan"]], "line2kml() (in module clawpack.geoclaw.kmltools)": [[60, "clawpack.geoclaw.kmltools.line2kml"]], "make_input_data_kmls() (in module clawpack.geoclaw.kmltools)": [[60, "clawpack.geoclaw.kmltools.make_input_data_kmls"]], "pcolorcells_for_kml() (in module clawpack.geoclaw.kmltools)": [[60, "clawpack.geoclaw.kmltools.pcolorcells_for_kml"]], "png2kml() (in module clawpack.geoclaw.kmltools)": [[60, "clawpack.geoclaw.kmltools.png2kml"]], "poly2kml() (in module clawpack.geoclaw.kmltools)": [[60, "clawpack.geoclaw.kmltools.poly2kml"]], "quad2kml() (in module clawpack.geoclaw.kmltools)": [[60, "clawpack.geoclaw.kmltools.quad2kml"]], "regions2kml() (in module clawpack.geoclaw.kmltools)": [[60, "clawpack.geoclaw.kmltools.regions2kml"]], "topo2kml() (in module clawpack.geoclaw.kmltools)": [[60, "clawpack.geoclaw.kmltools.topo2kml"]], "topo2kmz() (in module clawpack.geoclaw.kmltools)": [[60, "clawpack.geoclaw.kmltools.topo2kmz"]], "controller (class in clawpack.pyclaw.controller)": [[88, "clawpack.pyclaw.controller.Controller"]], "f_file_name (clawpack.pyclaw.controller.controller attribute)": [[88, "clawpack.pyclaw.controller.Controller.F_file_name"]], "f_path (clawpack.pyclaw.controller.controller property)": [[88, "clawpack.pyclaw.controller.Controller.F_path"]], "check_validity() (clawpack.pyclaw.controller.controller method)": [[88, "clawpack.pyclaw.controller.Controller.check_validity"]], "compute_f (clawpack.pyclaw.controller.controller attribute)": [[88, "clawpack.pyclaw.controller.Controller.compute_F"]], "compute_p (clawpack.pyclaw.controller.controller attribute)": [[88, "clawpack.pyclaw.controller.Controller.compute_p"]], "file_prefix_p (clawpack.pyclaw.controller.controller attribute)": [[88, "clawpack.pyclaw.controller.Controller.file_prefix_p"]], "frames (clawpack.pyclaw.controller.controller attribute)": [[88, "clawpack.pyclaw.controller.Controller.frames"]], "keep_copy (clawpack.pyclaw.controller.controller attribute)": [[88, "clawpack.pyclaw.controller.Controller.keep_copy"]], "nstepout (clawpack.pyclaw.controller.controller attribute)": [[88, "clawpack.pyclaw.controller.Controller.nstepout"]], "num_output_times (clawpack.pyclaw.controller.controller attribute)": [[88, "clawpack.pyclaw.controller.Controller.num_output_times"]], "out_times (clawpack.pyclaw.controller.controller attribute)": [[88, "clawpack.pyclaw.controller.Controller.out_times"]], "outdir (clawpack.pyclaw.controller.controller attribute)": [[88, "clawpack.pyclaw.controller.Controller.outdir"]], "outdir_p (clawpack.pyclaw.controller.controller property)": [[88, "clawpack.pyclaw.controller.Controller.outdir_p"]], "output_file_prefix (clawpack.pyclaw.controller.controller attribute)": [[88, "clawpack.pyclaw.controller.Controller.output_file_prefix"]], "output_format (clawpack.pyclaw.controller.controller attribute)": [[88, "clawpack.pyclaw.controller.Controller.output_format"]], "output_options (clawpack.pyclaw.controller.controller attribute)": [[88, "clawpack.pyclaw.controller.Controller.output_options"]], "output_style (clawpack.pyclaw.controller.controller attribute)": [[88, "clawpack.pyclaw.controller.Controller.output_style"]], "overwrite (clawpack.pyclaw.controller.controller attribute)": [[88, "clawpack.pyclaw.controller.Controller.overwrite"]], "plot() (clawpack.pyclaw.controller.controller method)": [[88, "clawpack.pyclaw.controller.Controller.plot"]], "plotdata (clawpack.pyclaw.controller.controller attribute)": [[88, "clawpack.pyclaw.controller.Controller.plotdata"]], "run() (clawpack.pyclaw.controller.controller method)": [[88, "clawpack.pyclaw.controller.Controller.run"]], "rundir (clawpack.pyclaw.controller.controller attribute)": [[88, "clawpack.pyclaw.controller.Controller.rundir"]], "runmake (clawpack.pyclaw.controller.controller attribute)": [[88, "clawpack.pyclaw.controller.Controller.runmake"]], "savecode (clawpack.pyclaw.controller.controller attribute)": [[88, "clawpack.pyclaw.controller.Controller.savecode"]], "solver (clawpack.pyclaw.controller.controller attribute)": [[88, "clawpack.pyclaw.controller.Controller.solver"]], "tfinal (clawpack.pyclaw.controller.controller attribute)": [[88, "clawpack.pyclaw.controller.Controller.tfinal"]], "verbosity (clawpack.pyclaw.controller.controller property)": [[88, "clawpack.pyclaw.controller.Controller.verbosity"]], "viewable_attributes (clawpack.pyclaw.controller.controller attribute)": [[88, "clawpack.pyclaw.controller.Controller.viewable_attributes"]], "write_aux_always (clawpack.pyclaw.controller.controller attribute)": [[88, "clawpack.pyclaw.controller.Controller.write_aux_always"]], "write_aux_init (clawpack.pyclaw.controller.controller attribute)": [[88, "clawpack.pyclaw.controller.Controller.write_aux_init"]], "xclawcmd (clawpack.pyclaw.controller.controller attribute)": [[88, "clawpack.pyclaw.controller.Controller.xclawcmd"]], "xclawerr (clawpack.pyclaw.controller.controller attribute)": [[88, "clawpack.pyclaw.controller.Controller.xclawerr"]], "xclawout (clawpack.pyclaw.controller.controller attribute)": [[88, "clawpack.pyclaw.controller.Controller.xclawout"]], "xdir (clawpack.pyclaw.controller.controller attribute)": [[88, "clawpack.pyclaw.controller.Controller.xdir"]], "arora_roe() (in module clawpack.pyclaw.limiters.tvd)": [[89, "clawpack.pyclaw.limiters.tvd.arora_roe"]], "beta_limiter() (in module clawpack.pyclaw.limiters.tvd)": [[89, "clawpack.pyclaw.limiters.tvd.beta_limiter"]], "cada_torrilhon_limiter() (in module clawpack.pyclaw.limiters.tvd)": [[89, "clawpack.pyclaw.limiters.tvd.cada_torrilhon_limiter"]], "cada_torrilhon_limiter_nonlinear() (in module 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"superpower_limiter() (in module clawpack.pyclaw.limiters.tvd)": [[89, "clawpack.pyclaw.limiters.tvd.superpower_limiter"]], "theta_limiter() (in module clawpack.pyclaw.limiters.tvd)": [[89, "clawpack.pyclaw.limiters.tvd.theta_limiter"]], "upper_bound_limiter() (in module clawpack.pyclaw.limiters.tvd)": [[89, "clawpack.pyclaw.limiters.tvd.upper_bound_limiter"]], "van_leer_klein_sharpening_limiter() (in module clawpack.pyclaw.limiters.tvd)": [[89, "clawpack.pyclaw.limiters.tvd.van_leer_klein_sharpening_limiter"]], "dimension (class in clawpack.pyclaw.geometry)": [[91, "clawpack.pyclaw.geometry.Dimension"]], "domain (class in clawpack.petclaw.geometry)": [[91, "clawpack.petclaw.geometry.Domain"]], "domain (class in clawpack.pyclaw.geometry)": [[91, "clawpack.pyclaw.geometry.Domain"]], "grid (class in clawpack.pyclaw.geometry)": [[91, "clawpack.pyclaw.geometry.Grid"]], "patch (class in clawpack.petclaw.geometry)": [[91, "clawpack.petclaw.geometry.Patch"]], "patch (class in 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(clawpack.pyclaw.geometry.dimension property)": [[91, "clawpack.pyclaw.geometry.Dimension.centers"]], "centers_with_ghost() (clawpack.pyclaw.geometry.dimension method)": [[91, "clawpack.pyclaw.geometry.Dimension.centers_with_ghost"]], "delta (clawpack.pyclaw.geometry.dimension property)": [[91, "clawpack.pyclaw.geometry.Dimension.delta"]], "delta (clawpack.pyclaw.geometry.patch property)": [[91, "clawpack.pyclaw.geometry.Patch.delta"]], "dimensional_split (clawpack.petclaw.geometry.domain attribute)": [[91, "clawpack.petclaw.geometry.Domain.dimensional_split"]], "dimensions (clawpack.pyclaw.geometry.grid property)": [[91, "clawpack.pyclaw.geometry.Grid.dimensions"]], "dimensions (clawpack.pyclaw.geometry.patch property)": [[91, "clawpack.pyclaw.geometry.Patch.dimensions"]], "fwave (clawpack.petclaw.geometry.domain attribute)": [[91, "clawpack.petclaw.geometry.Domain.fwave"]], "gauge_dir_name (clawpack.pyclaw.geometry.grid attribute)": [[91, "clawpack.pyclaw.geometry.Grid.gauge_dir_name"]], "gauge_file_names (clawpack.pyclaw.geometry.grid attribute)": [[91, "clawpack.pyclaw.geometry.Grid.gauge_file_names"]], "gauge_files (clawpack.pyclaw.geometry.grid attribute)": [[91, "clawpack.pyclaw.geometry.Grid.gauge_files"]], "gauges (clawpack.pyclaw.geometry.grid attribute)": [[91, "clawpack.pyclaw.geometry.Grid.gauges"]], "get_dim_attribute() (clawpack.pyclaw.geometry.grid method)": [[91, "clawpack.pyclaw.geometry.Grid.get_dim_attribute"]], "get_dim_attribute() (clawpack.pyclaw.geometry.patch method)": [[91, "clawpack.pyclaw.geometry.Patch.get_dim_attribute"]], "grid (clawpack.pyclaw.geometry.domain property)": [[91, "clawpack.pyclaw.geometry.Domain.grid"]], "kernel_language (clawpack.petclaw.geometry.domain attribute)": [[91, "clawpack.petclaw.geometry.Domain.kernel_language"]], "level (clawpack.pyclaw.geometry.patch attribute)": [[91, "clawpack.pyclaw.geometry.Patch.level"]], "lower_global (clawpack.pyclaw.geometry.patch property)": [[91, "clawpack.pyclaw.geometry.Patch.lower_global"]], "mthlim (clawpack.petclaw.geometry.domain attribute)": [[91, "clawpack.petclaw.geometry.Domain.mthlim"]], "name (clawpack.pyclaw.geometry.patch property)": [[91, "clawpack.pyclaw.geometry.Patch.name"]], "nodes (clawpack.pyclaw.geometry.dimension property)": [[91, "clawpack.pyclaw.geometry.Dimension.nodes"]], "nodes_with_ghost() (clawpack.pyclaw.geometry.dimension method)": [[91, "clawpack.pyclaw.geometry.Dimension.nodes_with_ghost"]], "num_cells_global (clawpack.pyclaw.geometry.patch property)": [[91, "clawpack.pyclaw.geometry.Patch.num_cells_global"]], "num_dim (clawpack.pyclaw.geometry.domain property)": [[91, "clawpack.pyclaw.geometry.Domain.num_dim"]], "num_dim (clawpack.pyclaw.geometry.grid property)": [[91, "clawpack.pyclaw.geometry.Grid.num_dim"]], "num_dim (clawpack.pyclaw.geometry.patch property)": [[91, "clawpack.pyclaw.geometry.Patch.num_dim"]], "order (clawpack.petclaw.geometry.domain attribute)": [[91, "clawpack.petclaw.geometry.Domain.order"]], "p_center() (clawpack.pyclaw.geometry.grid method)": [[91, "clawpack.pyclaw.geometry.Grid.p_center"]], "p_centers (clawpack.pyclaw.geometry.grid property)": [[91, "clawpack.pyclaw.geometry.Grid.p_centers"]], "p_nodes (clawpack.pyclaw.geometry.grid property)": [[91, "clawpack.pyclaw.geometry.Grid.p_nodes"]], "patch (clawpack.pyclaw.geometry.domain property)": [[91, "clawpack.pyclaw.geometry.Domain.patch"]], "patch_index (clawpack.pyclaw.geometry.patch attribute)": [[91, "clawpack.pyclaw.geometry.Patch.patch_index"]], "plot() (clawpack.pyclaw.geometry.grid method)": [[91, "clawpack.pyclaw.geometry.Grid.plot"]], "setup_gauge_files() (clawpack.pyclaw.geometry.grid method)": [[91, "clawpack.pyclaw.geometry.Grid.setup_gauge_files"]], "source_split (clawpack.petclaw.geometry.domain attribute)": [[91, "clawpack.petclaw.geometry.Domain.source_split"]], "step_source (clawpack.petclaw.geometry.domain attribute)": [[91, 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"clawpack.pyclaw.fileio.ascii.read_array"]], "read_patch_header() (in module clawpack.pyclaw.fileio.ascii)": [[94, "clawpack.pyclaw.fileio.ascii.read_patch_header"]], "read_t() (in module clawpack.pyclaw.fileio.ascii)": [[94, "clawpack.pyclaw.fileio.ascii.read_t"]], "write() (in module clawpack.pyclaw.fileio.ascii)": [[94, "clawpack.pyclaw.fileio.ascii.write"]], "write() (in module clawpack.pyclaw.fileio.netcdf)": [[94, "clawpack.pyclaw.fileio.netcdf.write"]], "write_array() (in module clawpack.pyclaw.fileio.ascii)": [[94, "clawpack.pyclaw.fileio.ascii.write_array"]], "acoustics_1d() (in module clawpack.riemann.acoustics_1d_py)": [[99, "clawpack.riemann.acoustics_1D_py.acoustics_1D"]], "advection_1d() (in module clawpack.riemann.advection_1d_py)": [[99, "clawpack.riemann.advection_1D_py.advection_1D"]], "burgers_1d() (in module clawpack.riemann.burgers_1d_py)": [[99, "clawpack.riemann.burgers_1D_py.burgers_1D"]], "clawpack.riemann.acoustics_1d_py": [[99, "module-clawpack.riemann.acoustics_1D_py"]], "clawpack.riemann.advection_1d_py": [[99, "module-clawpack.riemann.advection_1D_py"]], "clawpack.riemann.burgers_1d_py": [[99, "module-clawpack.riemann.burgers_1D_py"]], "clawpack.riemann.euler_1d_py": [[99, "module-clawpack.riemann.euler_1D_py"]], "clawpack.riemann.shallow_1d_py": [[99, "module-clawpack.riemann.shallow_1D_py"]], "euler_exact_1d() (in module clawpack.riemann.euler_1d_py)": [[99, "clawpack.riemann.euler_1D_py.euler_exact_1D"]], "euler_hll_1d() (in module clawpack.riemann.euler_1d_py)": [[99, "clawpack.riemann.euler_1D_py.euler_hll_1D"]], "euler_hllc_1d() (in module clawpack.riemann.euler_1d_py)": [[99, "clawpack.riemann.euler_1D_py.euler_hllc_1D"]], "euler_roe_1d() (in module clawpack.riemann.euler_1d_py)": [[99, "clawpack.riemann.euler_1D_py.euler_roe_1D"]], "shallow_exact_1d() (in module clawpack.riemann.shallow_1d_py)": [[99, "clawpack.riemann.shallow_1D_py.shallow_exact_1D"]], "shallow_fwave_1d() (in module 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(clawpack.pyclaw.solution.solution property)": [[100, "clawpack.pyclaw.solution.Solution.start_frame"]], "state (clawpack.pyclaw.solution.solution property)": [[100, "clawpack.pyclaw.solution.Solution.state"]], "write() (clawpack.pyclaw.solution.solution method)": [[100, "clawpack.pyclaw.solution.Solution.write"]], "clawsolver (class in clawpack.pyclaw.classic.solver)": [[101, "clawpack.pyclaw.classic.solver.ClawSolver"]], "sharpclawsolver (class in clawpack.pyclaw.sharpclaw.solver)": [[101, "clawpack.pyclaw.sharpclaw.solver.SharpClawSolver"]], "accept_reject_step() (clawpack.pyclaw.sharpclaw.solver.sharpclawsolver method)": [[101, "clawpack.pyclaw.sharpclaw.solver.SharpClawSolver.accept_reject_step"]], "aux_time_dep (clawpack.pyclaw.sharpclaw.solver.sharpclawsolver attribute)": [[101, "clawpack.pyclaw.sharpclaw.solver.SharpClawSolver.aux_time_dep"]], "call_before_step_each_stage (clawpack.pyclaw.sharpclaw.solver.sharpclawsolver attribute)": [[101, "clawpack.pyclaw.sharpclaw.solver.SharpClawSolver.call_before_step_each_stage"]], "cfl_desired (clawpack.pyclaw.sharpclaw.solver.sharpclawsolver attribute)": [[101, "clawpack.pyclaw.sharpclaw.solver.SharpClawSolver.cfl_desired"]], "cfl_max (clawpack.pyclaw.sharpclaw.solver.sharpclawsolver attribute)": [[101, "clawpack.pyclaw.sharpclaw.solver.SharpClawSolver.cfl_max"]], "char_decomp (clawpack.pyclaw.sharpclaw.solver.sharpclawsolver attribute)": [[101, "clawpack.pyclaw.sharpclaw.solver.SharpClawSolver.char_decomp"]], "check_3rd_ord_cond() (clawpack.pyclaw.sharpclaw.solver.sharpclawsolver method)": [[101, "clawpack.pyclaw.sharpclaw.solver.SharpClawSolver.check_3rd_ord_cond"]], "dq() (clawpack.pyclaw.sharpclaw.solver.sharpclawsolver method)": [[101, "clawpack.pyclaw.sharpclaw.solver.SharpClawSolver.dq"]], "dq_src (clawpack.pyclaw.sharpclaw.solver.sharpclawsolver attribute)": [[101, "clawpack.pyclaw.sharpclaw.solver.SharpClawSolver.dq_src"]], "dqdt() 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"setaux_defaults.rst", "setenv.rst", "setplot.rst", "setrun.rst", "setrun_amrclaw.rst", "setrun_amrclaw_sample.rst", "setrun_geoclaw.rst", "setrun_sample.rst", "sharing.rst", "sphere_source.rst", "sphinxdoc.rst", "src1d_defaults.rst", "src_defaults.rst", "storm_module.rst", "surgedata.rst", "testing.rst", "timing.rst", "topo.rst", "topotools.rst", "topotools_module.rst", "trouble.rst", "tsunamidata.rst", "user_routines.rst", "visit_plotting.rst", "vm.rst", "wp_algorithms.rst"], "titles": ["ClawPlotAxes", "ClawPlotData", "ClawPlotFigure", "ClawPlotItem", "About this software", "Guiding AMR with adjoint flagging", "Adaptive mesh refinement (AMR) algorithms", "AMRClaw Description and Detailed Contents", "AMRClaw for 1d problems", "Doxygen documentation of AMRClaw", "AMRClaw Flowcharts", "Application documentation", "Clawpack Applications repository", "Amazon Web Services EC2 Clawpack AMI", "b4run function", "b4step default routines", "Boundary conditions", "Bibliography", "Changes to 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"Cautionary Hints on using GeoClaw", "GeoClaw plotting tools", "Keeping track of repository versions with Git", "Visualizing GeoClaw results in Google Earth", "Using the GPU version of Clawpack", "Grid registration", "Guide for updating this documentation", "Guide for doing a Clawpack release", "Installing Clawpack", "Options for installing Clawpack Fortran codes", "pip install instructions", "kmltools module of utility functions", "Lagrangian gauges for particle tracking", "License", "Clawpack Makefiles", "Library routines in Makefiles", "Manning friction term", "The mapc2p function", "Marching Front algorithm", "Plotting using Matlab", "Nearshore interpolation", "Using NetCDF output", "Creating a new application directory", "Earthquake sources: Fault slip and the Okada model", "Using OpenMP", "Output data sytles and formats", "Which Clawpack solver should I use?", "Clawpack Community Photos", "Plotting examples", "Plotting with Visclaw", "Plotting hints and FAQ", "Plotting routines for GeoClaw", "Plotting options in Python", "Installation Prerequisites", "About PyClaw", "PyClaw Basics", "Understanding Pyclaw Classes", "Porting a problem from Clawpack 4.6.x to PyClaw", "Running PyClaw in the cloud", "Pyclaw Controller Class", "Pyclaw Limiters", "Working with PyClaw\u2019s built-in examples", "PyClaw Geometry", "Going Further", "PyClaw", "Pyclaw Input/Output Package", "PyClaw output", "Running in parallel", "Plotting PyClaw results", "Setting up your own problem", "Riemann Solver Package", "PyClaw Solutions", "Using PyClaw\u2019s solvers: Classic and SharpClaw", "Installing PyClaw", "PyClaw State", "Troubleshooting", "PyClaw tutorial: Solve the acoustics equations", "Pyclaw Utility Module", "Python Hints", "Python path", "qinit default routines", "Quick start guide for storm surge modeling", "Quick start guide for tsunami modeling", "AMR refinement criteria", "Regression testing", "v5.0.0 release notes", "v5.1.0 release notes", "v5.2.0 release notes", "v5.2.1 release notes", "v5.2.2 release notes", "v5.3.0 release notes", "v5.3.1 release notes", "v5.4.0 release notes", "v5.4.1 release notes", "v5.5.0 release notes", "v5.6.0 release notes", "v5.6.1 release notes", "v5.7.0 release notes", "v5.7.1 release notes", "v5.8.0 release notes", "v5.8.1 release notes", "v5.8.2 release notes", "v5.9.0 release notes", "v5.9.1 release notes", "Releases of Clawpack and release notes", "Checkpointing and restarting", "Riemann solvers", "Shallow water Riemann solvers in Clawpack", "Ruled Rectangles", "Setting sea_level", "Set Eta Init \u2013 spatially varying initial surface elevation", "setaux default routines", "Set environment variables", "Using setplot.py to specify the desired plots", "Specifying classic run-time parameters in setrun.py", "Specifying AMRClaw run-time parameters in setrun.py", "Sample setrun.py module for AMRClaw", "Specifying GeoClaw parameters in setrun.py", "Sample setrun.py module for classic Clawpack", "Saving and sharing results", 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65, 68, 75, 95, 116, 117, 118, 119, 120, 121, 122, 123, 124, 125, 126, 127, 128, 129, 130, 131, 132, 137, 159, 162], "fragment": 3, "typic": [3, 20, 40, 63, 64, 68, 69, 72, 74, 75, 81, 86, 96, 98, 101, 103, 112, 144, 145, 156, 157, 160, 161, 162, 165], "assum": [3, 5, 20, 22, 30, 32, 34, 35, 37, 40, 48, 49, 52, 54, 55, 56, 60, 68, 72, 78, 94, 95, 97, 98, 99, 105, 106, 112, 119, 132, 137, 138, 143, 146, 153, 154, 157, 159, 161, 165], "instanc": [3, 28, 35, 52, 72, 75, 81, 85, 86, 88, 91, 94, 95, 98, 137, 146], "type": [3, 4, 7, 13, 20, 28, 30, 36, 37, 41, 45, 52, 63, 68, 79, 80, 81, 85, 86, 87, 89, 91, 96, 97, 101, 102, 105, 106, 137, 144, 145, 146, 153, 154, 157, 159, 165], "dimension": [3, 7, 8, 17, 22, 25, 30, 32, 34, 36, 37, 45, 49, 53, 68, 91, 98, 119, 120, 122, 125, 145, 146, 147, 159, 162], "point": [3, 5, 6, 13, 15, 16, 17, 20, 28, 30, 33, 34, 36, 37, 39, 40, 42, 45, 46, 47, 48, 49, 52, 54, 55, 56, 58, 59, 60, 61, 68, 69, 72, 85, 95, 96, 100, 106, 107, 108, 112, 122, 124, 126, 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143, 145, 146, 147, 154, 157, 162, 165], "signatur": [3, 86, 89, 91, 92, 94, 99, 153], "hold": [3, 35, 81, 105, 112], "current": [3, 5, 13, 14, 20, 22, 24, 27, 28, 29, 30, 32, 35, 39, 40, 42, 45, 46, 49, 54, 55, 56, 58, 59, 60, 61, 68, 70, 74, 79, 81, 91, 94, 95, 96, 101, 103, 106, 108, 112, 113, 120, 122, 123, 134, 138, 142, 143, 144, 145, 146, 147, 149, 153, 154, 157, 159, 161], "afteritem": [3, 27], "afterpatch": [3, 27], "There": [3, 6, 13, 22, 34, 37, 41, 52, 55, 56, 63, 67, 72, 74, 81, 82, 95, 102, 110, 122, 123, 142, 143, 154, 155, 162, 164], "calcul": [3, 5, 6, 27, 30, 33, 35, 46, 48, 68, 72, 79, 91, 99, 101, 116, 121, 159], "cd": [3, 13, 28, 36, 37, 38, 53, 55, 56, 58, 59, 81, 90, 93, 96, 102, 113, 155], "On": [3, 5, 13, 52, 73, 82, 122, 132, 137, 141, 162], "ylower": [3, 22, 27, 40, 86, 123, 145, 157, 159], "patchno": [3, 27], "out": [3, 16, 24, 26, 29, 30, 32, 34, 35, 36, 37, 40, 45, 46, 51, 53, 54, 55, 56, 59, 60, 61, 62, 63, 68, 72, 79, 82, 83, 85, 86, 88, 94, 95, 96, 97, 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160, 161, 162, 164, 165], "overrul": 3, "r": [3, 4, 6, 17, 45, 48, 53, 55, 67, 68, 71, 79, 85, 89, 96, 98, 135, 137, 142, 159, 165], "ff0000": [3, 60], "No": [3, 41, 52, 56, 68, 91, 101, 129, 135, 143, 146, 160], "extra": [3, 52, 136], "give": [3, 6, 9, 10, 13, 16, 24, 28, 30, 32, 33, 34, 36, 37, 45, 53, 60, 61, 67, 69, 72, 73, 74, 79, 81, 96, 97, 101, 113, 116, 120, 121, 125, 128, 137, 143, 146, 157, 159, 161], "polygon": [3, 7, 39, 52, 60, 126, 159], "curv": [3, 45, 78, 137], "fill_between": 3, "plot_var2": 3, "zero": [3, 16, 30, 32, 40, 42, 45, 60, 68, 69, 85, 98, 99, 103, 105, 128, 137, 138], "fill_wher": 3, "plotitem": [3, 27, 45, 79, 142], "mean": [3, 13, 22, 28, 32, 40, 45, 49, 53, 59, 68, 69, 95, 96, 112, 135, 138, 143, 145, 147, 161], "map_2d_to_1d": 3, "In": [3, 5, 6, 8, 11, 12, 15, 16, 19, 20, 22, 27, 30, 32, 34, 39, 42, 45, 46, 49, 52, 53, 54, 55, 56, 59, 60, 61, 63, 64, 67, 68, 69, 71, 72, 74, 75, 79, 80, 81, 85, 86, 91, 93, 94, 95, 96, 97, 98, 99, 101, 103, 106, 108, 109, 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145, 147, 151, 157, 162], "fine": [3, 32, 33, 34, 40, 55, 71, 75, 93, 98, 112, 121, 128, 137, 139, 143, 144, 146, 157, 162], "coars": [3, 32, 34, 52, 112, 121, 128, 143, 157, 162], "anoth": [3, 22, 34, 40, 45, 52, 59, 60, 74, 78, 82, 90, 101, 104, 113, 123, 153, 162], "refin": [3, 4, 5, 7, 8, 17, 22, 34, 46, 49, 52, 53, 54, 67, 68, 74, 75, 85, 121, 123, 124, 126, 128, 137, 139, 142, 143, 144, 145, 156, 157, 162], "region": [3, 6, 7, 13, 16, 22, 32, 34, 39, 40, 46, 49, 50, 52, 60, 65, 69, 72, 75, 110, 123, 126, 128, 138, 139, 144, 145, 149, 157, 159], "lack": 3, "hidden": [3, 63, 79], "blank": [3, 60, 153], "coarser": [3, 16, 54, 121, 139, 143, 144, 162], "easili": [3, 13, 28, 32, 52, 55, 68, 79, 86, 91, 102, 106, 113, 126, 148], "contour_show": 3, "commonli": [3, 68, 79, 81], "amr_contour_show": 3, "determin": [3, 5, 6, 30, 32, 35, 40, 45, 46, 49, 51, 52, 55, 60, 69, 72, 79, 89, 91, 94, 99, 103, 108, 112, 116, 120, 121, 134, 137, 138, 142, 143, 144, 146, 159, 162], "whether": [3, 6, 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138, 139, 145], "linear": [4, 5, 17, 30, 34, 35, 45, 52, 69, 72, 79, 85, 89, 101, 124, 135, 136, 137], "nonlinear": [4, 5, 17, 49, 89, 135, 143, 165], "hyperbol": [4, 5, 6, 17, 43, 75, 86, 93, 98, 99, 105, 135, 143, 146, 162, 165], "system": [4, 16, 17, 23, 37, 38, 52, 53, 59, 60, 64, 73, 74, 83, 93, 95, 96, 98, 99, 102, 105, 108, 113, 135, 143, 145, 147, 155, 162, 165], "focu": [4, 46], "high": [4, 17, 32, 49, 52, 67, 69, 72, 75, 86, 93, 101, 135, 138, 139, 161, 162], "resolut": [4, 6, 17, 30, 32, 34, 40, 45, 61, 69, 72, 91, 101, 105, 106, 115, 119, 123, 124, 131, 135, 138, 157, 159, 161, 162], "godunov": [4, 91, 101, 143, 145, 147, 162], "method": [4, 5, 7, 17, 32, 34, 35, 39, 43, 45, 54, 67, 69, 79, 81, 85, 88, 89, 91, 96, 100, 101, 106, 112, 113, 119, 135, 142, 143, 144, 145, 147, 153, 156, 157, 159, 162], "framework": [4, 83, 86, 120, 121], "applic": [4, 6, 15, 16, 19, 20, 22, 23, 24, 28, 29, 32, 34, 35, 36, 37, 38, 42, 43, 44, 45, 46, 47, 56, 58, 59, 64, 67, 73, 74, 81, 90, 91, 92, 93, 95, 101, 106, 109, 111, 112, 113, 115, 118, 119, 121, 122, 123, 125, 126, 135, 137, 139, 140, 143, 146, 151, 152, 157, 159, 160, 162, 163], "finit": [4, 17, 32, 34, 43, 54, 60, 67, 68, 69, 72, 101, 126, 137, 146, 156, 157, 162], "volum": [4, 17, 29, 32, 34, 43, 54, 60, 67, 68, 69, 93, 126, 137, 144, 146, 156, 157, 162], "riemann": [4, 5, 8, 20, 22, 23, 28, 29, 46, 56, 59, 64, 75, 83, 85, 91, 92, 101, 102, 103, 105, 108, 141, 143, 145, 147, 151, 152, 165], "solver": [4, 5, 6, 20, 22, 23, 25, 28, 46, 57, 58, 59, 64, 82, 83, 84, 88, 91, 92, 95, 103, 117, 119, 121, 122, 123, 124, 125, 126, 128, 143, 145, 147, 151, 152, 165], "resolv": [4, 32, 34, 52, 55, 59, 110, 123, 139], "jump": [4, 5, 68, 81, 91, 101, 121, 143, 165], "discontinu": [4, 101, 165], "interfac": [4, 19, 22, 68, 83, 86, 89, 93, 94, 99, 101, 106, 135, 162, 163, 165], "wave": [4, 5, 6, 16, 17, 25, 32, 40, 49, 52, 53, 72, 89, 91, 93, 98, 99, 101, 112, 119, 121, 122, 128, 136, 137, 138, 143, 144, 145, 146, 147, 149, 162], "propag": [4, 5, 6, 17, 25, 30, 49, 52, 53, 72, 91, 93, 101, 112, 121, 135], "neighbor": [4, 34, 40, 67, 69, 112, 121, 139, 144, 145, 159], "formul": [4, 5, 49, 65, 135, 143], "allow": [4, 6, 13, 22, 27, 28, 29, 32, 34, 35, 39, 40, 45, 46, 48, 51, 52, 54, 55, 59, 65, 67, 68, 72, 73, 75, 78, 79, 88, 93, 94, 95, 101, 103, 106, 107, 108, 112, 113, 115, 116, 119, 120, 121, 122, 123, 125, 126, 128, 131, 132, 135, 137, 143, 145, 146, 147, 148, 149, 153, 157, 159, 161], "easi": [4, 6, 11, 29, 39, 59, 68, 86, 95, 96, 97, 137, 148, 162], "extens": [4, 17, 22, 24, 28, 30, 49, 52, 55, 59, 64, 68, 86, 93, 94, 106, 121, 122, 128, 143, 155, 159, 165], "problem": [4, 5, 7, 16, 17, 20, 24, 25, 27, 28, 29, 36, 37, 40, 43, 46, 59, 63, 67, 68, 69, 72, 75, 79, 82, 84, 85, 90, 92, 93, 96, 99, 101, 104, 108, 113, 115, 116, 118, 119, 122, 126, 128, 132, 135, 137, 139, 143, 144, 145, 146, 147, 148, 156, 160], "algorithm": [4, 7, 25, 32, 39, 40, 46, 53, 85, 91, 93, 94, 101, 105, 112, 123, 135, 137, 143, 145, 147, 159], "brief": [4, 56, 136, 146], "subroutin": [4, 6, 9, 16, 22, 32, 34, 64, 112, 119, 135, 143, 144, 156, 162, 165], "equat": [4, 5, 16, 17, 25, 36, 37, 46, 49, 61, 65, 79, 84, 85, 86, 88, 93, 94, 95, 98, 101, 102, 103, 116, 119, 121, 123, 124, 135, 143, 145, 146, 147, 149, 157, 162, 165], "solv": [4, 5, 8, 16, 17, 20, 26, 36, 37, 49, 57, 59, 61, 84, 86, 88, 91, 93, 98, 99, 102, 124, 135, 136, 143, 157, 162, 165], "adapt": [4, 7, 17, 30, 40, 53, 54, 67, 68, 75, 85, 112, 123, 126, 128, 135, 137, 142, 143, 144, 146, 162], "mesh": [4, 7, 17, 33, 53, 67, 68, 75, 78, 85, 112, 126, 142, 143, 162], "amrclaw": [4, 5, 6, 12, 15, 16, 19, 20, 22, 23, 24, 28, 37, 39, 40, 42, 44, 45, 46, 47, 53, 56, 57, 58, 59, 61, 67, 68, 73, 74, 75, 82, 93, 94, 102, 108, 109, 112, 113, 134, 135, 137, 140, 141, 143, 146, 151, 152, 155, 156, 160], "detail": [4, 5, 10, 16, 22, 23, 25, 26, 28, 29, 30, 32, 34, 36, 37, 39, 42, 45, 47, 49, 52, 55, 58, 59, 61, 62, 63, 67, 68, 72, 75, 79, 83, 88, 89, 90, 91, 93, 94, 95, 96, 97, 98, 99, 101, 111, 112, 113, 116, 121, 123, 128, 131, 135, 137, 142, 143, 146, 148, 153, 157, 160, 161, 162, 165], "content": [4, 6, 23, 35, 52, 56, 74, 75, 86, 93, 146, 157, 162, 163], "routin": [4, 5, 6, 16, 20, 25, 27, 30, 32, 36, 37, 45, 46, 47, 52, 53, 63, 68, 69, 73, 74, 75, 78, 81, 83, 86, 88, 91, 94, 97, 98, 101, 103, 104, 112, 115, 116, 119, 121, 123, 124, 126, 135, 139, 143, 145, 147, 153, 159, 160, 162, 163, 165], "special": [4, 7, 16, 46, 47, 52, 62, 75, 83, 112, 131, 137, 159], "depth": [4, 5, 16, 17, 22, 30, 32, 33, 35, 40, 45, 46, 49, 65, 69, 72, 78, 80, 136, 138, 139, 146, 157], "averag": [4, 6, 15, 17, 32, 40, 46, 49, 50, 54, 68, 69, 99, 103, 116, 128, 135, 139, 140, 157, 159, 162], "geophys": [4, 16, 17, 23, 46, 49, 75, 143], "flow": [4, 16, 17, 23, 32, 33, 46, 47, 49, 75, 93, 110, 126, 131, 135, 143, 146, 157, 162], "geoclaw": [4, 7, 12, 17, 23, 24, 28, 29, 30, 32, 33, 34, 35, 37, 39, 42, 44, 45, 53, 54, 56, 57, 58, 59, 60, 61, 65, 67, 69, 72, 74, 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131, 134, 137, 143, 144, 145, 146, 147, 155, 156, 157, 159, 164], "3": [4, 6, 7, 15, 16, 20, 22, 24, 25, 30, 32, 33, 34, 37, 39, 43, 45, 46, 52, 54, 56, 59, 60, 65, 68, 69, 72, 74, 79, 81, 82, 85, 88, 89, 91, 94, 95, 96, 99, 100, 101, 103, 107, 108, 112, 121, 123, 126, 132, 133, 135, 137, 140, 143, 144, 145, 146, 147, 155, 156, 157, 159, 162, 165], "pointer": [4, 16, 55, 72, 78, 81, 101, 106, 119], "code": [4, 5, 6, 7, 8, 12, 14, 16, 19, 20, 21, 22, 23, 24, 27, 29, 32, 33, 34, 35, 36, 37, 39, 41, 42, 43, 45, 46, 49, 51, 53, 54, 55, 57, 62, 63, 64, 65, 71, 72, 73, 74, 75, 77, 79, 81, 82, 83, 85, 86, 91, 93, 94, 95, 96, 98, 101, 102, 105, 107, 108, 111, 114, 115, 116, 119, 120, 121, 122, 123, 124, 125, 126, 128, 134, 135, 136, 137, 141, 143, 144, 145, 146, 147, 148, 153, 155, 156, 157], "bibliographi": [4, 25], "paper": [4, 5, 6, 16, 30, 46, 55, 89, 93], "distribut": [4, 12, 13, 29, 30, 55, 62, 72, 75, 83, 101, 107, 126], "under": [4, 7, 22, 32, 34, 38, 52, 53, 55, 58, 62, 64, 78, 83, 91, 93, 113, 121, 123, 133], "term": [4, 25, 46, 49, 62, 72, 86, 91, 92, 101, 112, 122, 123, 132, 136, 143, 145, 146, 147, 151, 152], "berkelei": [4, 62, 83], "bsd": [4, 62, 83, 123], "peopl": [4, 12, 13, 83], "contribut": [4, 24, 25, 58, 83, 86, 93, 98, 101, 110, 113], "its": [4, 6, 13, 22, 29, 40, 49, 52, 62, 64, 67, 72, 74, 83, 88, 89, 90, 91, 93, 98, 100, 101, 103, 106, 112, 145, 159, 165], "incept": 4, "1994": [4, 62], "major": [4, 22, 56, 83, 86, 114, 115, 116, 117, 122, 124, 129, 132], "design": [4, 27, 28, 52, 83, 85, 105, 137, 161], "made": [4, 18, 22, 28, 30, 35, 59, 100, 103, 115, 116, 121, 123, 126, 128, 131, 132, 137, 139, 146, 154, 157, 159, 162], "individu": [4, 22, 23, 52, 60, 63, 64, 68, 91, 112, 113, 153], "randal": [4, 17, 93], "univers": [4, 17, 24, 55, 62, 83, 100], "washington": [4, 17, 24, 55, 62, 125, 137, 159], "rjlevequ": [4, 28, 29], "marsha": [4, 6, 17], "berger": [4, 6, 17], "courant": [4, 6, 112, 122, 143, 144, 145, 147], "institut": 4, "nyu": 4, 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101, 105, 123, 128, 146, 153, 154, 155, 157], "team": [4, 24, 62], "2020": [4, 24, 25, 55, 62, 107, 110, 126, 127, 128, 133, 135], "7": [4, 6, 14, 29, 32, 34, 39, 40, 45, 48, 55, 61, 65, 67, 74, 79, 82, 91, 102, 108, 112, 128, 133, 137, 138, 139, 144, 145], "http": [4, 12, 13, 17, 24, 26, 28, 29, 30, 40, 48, 52, 53, 55, 56, 58, 59, 62, 67, 72, 82, 83, 86, 87, 94, 96, 98, 107, 108, 118, 120, 121, 122, 124, 125, 128, 129, 130, 131, 132, 133, 136, 153, 159], "www": [4, 13, 17, 30, 40, 46, 55, 62, 67, 83, 86, 91, 94, 96, 122, 124, 131, 132, 153, 159], "org": [4, 17, 46, 53, 55, 56, 62, 83, 86, 87, 91, 94, 96, 107, 108, 120, 122, 124, 128, 129, 130, 131, 132, 159], "doi": [4, 17, 53, 56, 58, 126, 127, 128, 129, 130, 131, 132, 133], "10": [4, 17, 30, 32, 34, 40, 52, 53, 54, 56, 79, 85, 88, 91, 112, 120, 121, 123, 126, 127, 128, 129, 130, 131, 132, 133, 137, 143, 144, 145, 147, 157], "5281": [4, 56, 126, 127, 128, 129, 130, 131, 132, 133], "zenodo": [4, 58, 126, 127, 128, 129, 130, 131, 132, 133], "4025432": [4, 127, 133], "here": [4, 13, 16, 29, 34, 39, 40, 49, 56, 59, 60, 67, 75, 79, 81, 85, 88, 93, 94, 96, 98, 99, 104, 105, 108, 110, 112, 119, 135, 136, 137, 149, 154, 159, 165], "bibtex": [4, 56], "misc": [4, 125, 127], "url": [4, 12, 17, 52, 56, 123, 124, 157, 159], "year": [4, 17, 22, 52, 60, 93, 114, 124, 153], "releas": [4, 18, 22, 25, 28, 29, 44, 52, 57, 58, 59, 87, 93, 101, 102, 107], "refer": [4, 5, 20, 30, 32, 33, 34, 36, 37, 39, 46, 47, 52, 56, 63, 64, 68, 72, 85, 89, 91, 94, 95, 99, 101, 103, 108, 110, 123, 125, 134, 135, 137, 146, 153, 157, 159, 161, 162], "particular": [4, 6, 12, 20, 22, 28, 30, 32, 42, 45, 46, 47, 49, 52, 53, 56, 62, 63, 64, 68, 75, 79, 80, 82, 83, 85, 99, 100, 101, 103, 105, 110, 111, 112, 113, 116, 119, 120, 121, 122, 123, 125, 126, 128, 142, 153, 154, 165], "obtain": [4, 6, 12, 32, 44, 45, 47, 49, 59, 60, 69, 94, 95, 96, 112, 128, 135, 139, 148, 157, 165], "your": [4, 6, 15, 16, 19, 20, 24, 25, 26, 34, 36, 38, 42, 45, 54, 55, 56, 57, 58, 59, 73, 78, 79, 81, 83, 84, 85, 86, 87, 90, 92, 93, 94, 95, 104, 105, 107, 108, 109, 110, 112, 113, 115, 123, 135, 140, 141, 151, 152, 157, 160, 162], "multipl": [4, 5, 6, 13, 23, 28, 32, 33, 40, 45, 78, 85, 91, 94, 95, 106, 108, 113, 115, 121, 125, 134, 135, 144, 153, 154], "past": [4, 21, 25, 55, 61, 67, 100, 121, 124, 128, 133, 137, 138, 146], "17605": [4, 56, 133], "osf": [4, 133], "io": [4, 55, 56, 82, 95, 100, 133], "kmw6h": [4, 56, 133], "recent": [4, 13, 22, 27, 30, 51, 55, 58, 63, 65, 73, 79, 81, 82, 120, 124, 125, 126, 127, 128, 129, 130, 131, 132, 133, 135, 149, 161], "articl": [4, 17, 93, 148], "l": [4, 7, 17, 32, 41, 58, 112, 135, 141, 145], "hadjimichael": [4, 17, 83], "2016": [4, 17, 24, 55], "build": [4, 17, 28, 29, 55, 56, 68, 86, 96, 106, 122, 137], "open": [4, 13, 17, 25, 28, 29, 30, 52, 60, 78, 83, 87, 91, 94, 106, 137, 141, 161, 163], "sourc": [4, 17, 23, 25, 28, 30, 42, 46, 52, 53, 55, 56, 58, 59, 60, 62, 64, 65, 78, 83, 86, 90, 91, 92, 101, 102, 104, 105, 106, 110, 111, 113, 121, 122, 123, 132, 136, 138, 143, 145, 146, 147, 150, 151, 152, 153, 157], "ecosystem": [4, 17], "pde": [4, 5, 17, 57, 58, 59, 75, 82, 93, 105, 143, 162], "peerj": [4, 17], "scienc": [4, 17, 83], "7717": [4, 17], "c": [4, 16, 17, 28, 29, 30, 42, 52, 60, 62, 79, 83, 85, 86, 91, 99, 104, 105, 135], "68": [4, 17], "mandli2016clawpack": [4, 17], "yianni": [4, 17, 83], "journal": [4, 17, 53, 93, 148], "e68": [4, 17], "publish": [4, 17, 55, 93], "inc": [4, 17, 68], "least": [4, 5, 6, 13, 35, 45, 52, 60, 61, 67, 68, 104, 112, 113, 120, 121, 128, 143, 145, 149, 157, 159], "regard": [4, 39, 120, 153], "click": [4, 12, 13, 18, 28, 52, 55, 56, 113, 122, 131, 132, 133], "link": [4, 11, 13, 15, 17, 18, 19, 20, 24, 25, 28, 42, 43, 46, 52, 53, 54, 55, 56, 58, 60, 107, 108, 109, 122, 131, 132, 133, 135, 136, 138, 140, 147, 149, 151, 152, 157, 161], "classic": [4, 6, 12, 15, 16, 19, 20, 22, 23, 24, 28, 42, 43, 44, 47, 56, 57, 58, 59, 64, 71, 73, 74, 75, 82, 83, 85, 88, 90, 91, 92, 93, 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52, 68, 72, 79, 81, 86, 91, 95, 96, 101, 106, 123, 135, 139, 146, 161], "suitabl": [5, 8, 16, 20, 46, 49, 52, 70, 74, 100, 111, 135, 138, 153, 159], "To": [5, 6, 13, 14, 18, 22, 25, 28, 29, 36, 37, 38, 39, 40, 41, 45, 47, 50, 52, 53, 56, 63, 66, 67, 68, 72, 73, 74, 79, 81, 82, 85, 87, 89, 90, 93, 94, 95, 96, 97, 98, 101, 102, 105, 108, 110, 111, 112, 113, 119, 121, 124, 125, 126, 127, 128, 129, 130, 131, 132, 134, 138, 141, 143, 144, 148, 157, 163], "date": [5, 28, 41, 48, 52, 55, 56, 63, 79, 153, 160], "across": [5, 112, 121, 157, 159], "ocean": [5, 16, 17, 32, 49, 52, 110, 112, 137, 146, 151, 152, 157], "wai": [5, 6, 13, 16, 26, 28, 34, 36, 37, 39, 40, 45, 52, 54, 55, 58, 59, 60, 62, 63, 79, 81, 82, 83, 85, 88, 90, 91, 96, 98, 100, 102, 105, 107, 108, 110, 111, 115, 121, 122, 123, 126, 133, 135, 137, 142, 143, 150, 154, 157, 162, 164, 165], "target": [5, 59, 79, 86, 98, 126], "possibli": [5, 30, 34, 67, 85, 91, 108, 120, 139], "deep": [5, 67], "amplitud": [5, 121], "compar": [5, 22, 37, 45, 49, 52, 56, 79, 95, 112, 113, 138, 144, 155, 161, 165], "essenti": [5, 54, 68, 101, 146, 157], "rest": [5, 22, 81, 110, 123, 138, 151, 152, 157, 159], "henc": [5, 34, 54, 55, 64, 69, 101, 107, 108, 112, 139], "take": [5, 6, 22, 27, 28, 30, 32, 35, 48, 55, 65, 67, 68, 72, 79, 85, 91, 98, 101, 105, 106, 107, 112, 113, 118, 124, 132, 139, 143, 144, 145, 146, 159, 162, 165], "rpn2_geoclaw_adjoint_qwav": 5, "rpt2_geoclaw_adjoint_qwav": 5, "non": [5, 16, 56, 67, 75, 86, 98, 105, 124, 126, 143, 145, 147, 153, 165], "vector": [5, 22, 85, 89, 95, 103, 123, 131, 135, 136], "split": [5, 6, 73, 91, 94, 101, 119, 120, 128, 143, 144, 145, 147, 156, 162, 165], "flux": [5, 17, 32, 34, 35, 91, 99, 101, 135, 143, 165], "comment": [5, 11, 24, 50, 56, 122, 131, 134], "rpn2": [5, 135], "basic": [6, 10, 12, 25, 30, 36, 38, 46, 58, 67, 68, 85, 91, 93, 94, 95, 99, 101, 113, 135, 136, 153, 165], "strategi": 6, "logic": [6, 16, 17, 32, 128, 146], "rectangular": [6, 7, 16, 17, 30, 32, 35, 39, 40, 46, 47, 60, 67, 91, 112, 123, 126, 131, 144, 146, 157], "too": [6, 48, 52, 55, 56, 120, 137, 145, 147], "portion": [6, 34, 40, 52, 67, 86, 131, 156], "factor": [6, 52, 144, 146, 156, 159], "direct": [6, 8, 16, 22, 30, 32, 34, 36, 37, 45, 48, 52, 56, 60, 62, 63, 68, 72, 73, 79, 83, 88, 98, 105, 112, 122, 135, 143, 144, 146, 159], "anisotrop": [6, 22], "perhap": [6, 12, 32, 40, 45, 55, 79, 103, 106, 112, 137], "section": [6, 13, 16, 34, 36, 37, 40, 42, 47, 49, 55, 56, 64, 68, 78, 81, 93, 113, 128, 134, 143, 146, 159], "cfl": [6, 91, 95, 101, 105, 115, 120, 143, 145, 146, 147], "spatial": [6, 17, 25, 30, 34, 35, 39, 40, 45, 46, 61, 65, 69, 98, 112, 115, 119, 126, 128, 135, 138, 144, 145, 146, 147, 165], "reduc": [6, 16, 34, 40, 52, 120, 122, 131, 165], "thu": [6, 48, 95, 98, 123, 153], "proce": [6, 28, 146], "advanc": [6, 17, 34, 53, 67, 73, 105, 120, 132, 143, 144, 162], "taken": [6, 32, 67, 72, 95, 101, 112, 143, 162], "around": [6, 30, 32, 40, 60, 94, 110, 113, 126, 144, 145, 153, 159, 162], "librari": [6, 13, 15, 16, 20, 22, 25, 27, 28, 32, 34, 36, 37, 42, 45, 53, 60, 63, 73, 74, 75, 83, 89, 94, 96, 101, 106, 108, 109, 112, 121, 126, 139, 140, 144, 151, 152, 160, 162], "bcnamr": [6, 16, 123, 143, 145, 162], "check": [6, 14, 15, 16, 20, 32, 36, 37, 41, 42, 51, 52, 53, 55, 56, 57, 59, 63, 68, 79, 82, 85, 86, 88, 93, 96, 100, 101, 103, 105, 106, 108, 109, 112, 116, 125, 137, 139, 140, 144, 145, 151, 152, 153, 159, 160, 161, 162], "denot": [6, 22, 35, 45, 54, 135, 159], "procedur": [6, 16, 40, 46, 56, 162], "updat": [6, 12, 13, 22, 23, 25, 32, 50, 53, 58, 59, 61, 81, 93, 101, 103, 104, 107, 110, 115, 119, 121, 122, 123, 124, 125, 126, 135, 144, 145, 147, 150, 153, 156, 162], "consist": [6, 25, 32, 34, 48, 52, 56, 60, 96, 107, 121, 131, 132, 135, 137, 146, 157, 162], "replac": [6, 13, 29, 34, 39, 45, 49, 53, 55, 56, 58, 61, 63, 78, 86, 90, 94, 96, 97, 98, 99, 103, 106, 113, 115, 121, 123, 125, 126, 131, 134, 135, 139, 159, 160], "ly": [6, 67], "within": [6, 16, 28, 34, 35, 55, 59, 67, 69, 75, 79, 97, 106, 108, 112, 135, 137, 142, 148, 159], "approxim": [6, 16, 25, 33, 49, 52, 69, 72, 135], "lead": [6, 13, 22, 32, 34, 49, 52, 65, 68, 72, 108, 111, 128, 139, 144], "total": [6, 30, 34, 52, 72, 74, 95, 101, 143, 144, 145, 147, 156], "mass": [6, 95, 149], "restor": 6, "global": [6, 14, 91, 103, 106, 138, 157, 161, 162], "fix": [6, 19, 20, 22, 25, 33, 35, 39, 45, 46, 55, 56, 60, 61, 63, 67, 69, 83, 94, 99, 115, 116, 117, 118, 119, 120, 121, 122, 124, 125, 126, 127, 128, 129, 130, 131, 132, 136, 143, 145, 147, 159], "up": [6, 13, 22, 28, 29, 30, 32, 34, 36, 37, 40, 41, 45, 46, 52, 55, 56, 60, 63, 67, 68, 72, 74, 79, 85, 86, 88, 90, 92, 93, 94, 96, 101, 102, 105, 108, 110, 112, 113, 119, 120, 123, 126, 128, 137, 139, 142, 145, 147, 156, 157, 160, 161], "style": [6, 22, 28, 30, 34, 39, 50, 52, 67, 70, 79, 83, 88, 123, 146], "olig": [6, 17], "colella": [6, 17], "bergeroliger84": [6, 17], "bergercolella89": [6, 17], "fortran": [6, 9, 11, 13, 14, 20, 23, 27, 28, 30, 32, 33, 34, 35, 36, 45, 46, 47, 54, 57, 59, 63, 64, 65, 69, 73, 74, 75, 78, 81, 83, 85, 86, 88, 91, 93, 94, 96, 98, 99, 101, 102, 103, 106, 108, 119, 120, 121, 123, 124, 125, 131, 132, 135, 136, 141, 144, 145, 146, 147, 153, 155, 156, 157], "written": [6, 11, 25, 30, 32, 34, 35, 41, 45, 59, 60, 61, 62, 72, 74, 75, 79, 83, 92, 93, 94, 98, 121, 135, 143, 144, 145, 146, 147, 153, 159, 162], "ga": [6, 99], "dynam": [6, 20, 30, 34, 49, 72, 75, 144], "merg": [6, 13, 25, 28, 53, 55, 56, 59, 119], "earli": [6, 20, 139], "mjb": [6, 17], "rjl": [6, 17, 108, 125], "fulli": [6, 49, 52, 53, 122, 126, 135, 146, 153, 154], "consid": [6, 40, 49, 59, 67, 86, 108, 141, 148, 159], "adjac": [6, 16, 32, 46, 112, 139, 143], "equival": [6, 45, 53, 54, 60, 61, 74, 125, 131, 157], "copi": [6, 14, 15, 16, 36, 37, 45, 52, 55, 56, 59, 68, 85, 88, 98, 103, 109, 110, 111, 112, 116, 120, 123, 127, 139, 140, 144, 148, 151, 152, 157, 162], "interior": [6, 16, 40, 74, 103], "howev": [6, 13, 16, 22, 32, 36, 37, 40, 42, 47, 49, 52, 59, 62, 64, 67, 69, 72, 73, 74, 83, 86, 93, 112, 113, 121, 123, 125, 138, 139, 142, 146, 156], "lie": [6, 32, 33, 35, 67, 69, 112, 126, 137], "outsid": [6, 16, 39, 60, 67, 126, 137, 139, 157, 159], "li": [6, 16, 32, 35, 69, 112, 137], "along": [6, 14, 16, 24, 27, 30, 32, 40, 45, 52, 55, 58, 72, 74, 108, 112, 119, 133, 134, 137, 139, 146, 161], "proper": [6, 15, 40, 45, 53, 54, 55, 56, 60, 65, 67, 68, 94, 106, 115, 121, 140, 144, 145, 151, 152, 153, 162], "unless": [6, 32, 41, 42, 60, 99, 107, 138, 143, 144, 159], "standard": [6, 16, 30, 32, 34, 52, 54, 68, 74, 86, 89, 101, 108, 112, 113, 145, 146, 147, 148, 157, 162, 165], "beyond": [6, 30, 107, 123], "modifi": [6, 9, 14, 15, 16, 20, 22, 27, 32, 36, 37, 40, 45, 46, 55, 56, 59, 61, 63, 68, 71, 79, 86, 89, 91, 93, 98, 108, 109, 110, 111, 112, 118, 120, 121, 122, 123, 128, 137, 139, 140, 143, 145, 146, 147, 151, 152, 157, 159, 162], "damag": [6, 62, 83], "bcn": [6, 16, 147, 162], "nd": [6, 16, 112, 123, 126, 162], "actual": [6, 27, 30, 34, 54, 59, 60, 68, 72, 79, 89, 94, 106, 110, 138, 146], "softwar": [6, 13, 24, 25, 29, 46, 49, 62, 83, 93, 94, 95, 148, 157], "With": [6, 22, 28, 45, 50, 52, 59, 67, 75, 112, 120, 135, 137, 143], "opposit": [6, 16, 94], "side": [6, 16, 18, 32, 52, 55, 65, 72, 94, 113, 131, 132, 135, 165], "everi": [6, 12, 28, 32, 34, 45, 61, 63, 64, 74, 85, 88, 90, 94, 95, 103, 112, 113, 121, 122, 135, 139, 141, 143, 145, 147, 153, 157, 159, 162], "few": [6, 12, 13, 22, 26, 29, 37, 49, 55, 67, 68, 86, 101, 105, 107, 112, 113, 126, 138, 155, 157, 162], "coarsest": [6, 34, 52, 74, 115, 134, 143], "revis": [6, 121], "shock": [6, 17, 49, 101, 112], "accord": [6, 54], "criteria": [6, 7, 22, 25, 32, 67, 103], "cluster": [6, 17, 112, 144, 145], "rigoutsi": 6, "bergerrigoutsis91": [6, 17], "nonoverlap": 6, "rectangl": [6, 7, 25, 30, 34, 67, 72, 112, 126, 159], "balanc": [6, 17, 75, 122, 136, 151, 152], "conflict": [6, 28, 59, 63, 68, 104, 108], "goal": 6, "possibl": [6, 13, 22, 26, 28, 30, 32, 34, 35, 45, 48, 49, 52, 61, 62, 63, 72, 79, 83, 91, 94, 96, 97, 101, 106, 108, 112, 135, 137, 138, 143, 144, 157, 161, 162], "minim": [6, 59, 67, 94, 137, 144, 159], "overhead": [6, 73, 112, 156], "cutoff": [6, 145], "control": [6, 7, 23, 25, 32, 34, 42, 45, 55, 59, 61, 68, 74, 81, 84, 89, 91, 93, 94, 95, 96, 98, 112, 121, 126, 136, 146], "fraction": [6, 13, 30, 112, 143, 162, 165], "70": [6, 34, 52], "realli": [6, 69, 113, 162], "At": [6, 13, 27, 28, 34, 36, 37, 40, 67, 96, 101, 105, 107, 112, 126, 143], "present": [6, 24, 60, 69, 91, 99, 100, 101, 106, 148, 162, 165], "previous": [6, 22, 32, 67, 74, 81, 119, 126, 139], "bilinear": [6, 32, 40, 45, 54, 69, 115, 116, 157], "doxygen": [6, 7, 25, 122], "flowchart": [6, 7, 25], "capabl": [7, 12, 22, 32, 34, 45, 49, 53, 61, 67, 75, 86, 93, 115, 120, 121, 123, 124, 125, 126, 127, 131, 132, 159, 161], "block": [7, 30, 40, 60, 72, 74, 75, 85, 94, 103, 106, 113, 162], "structur": [7, 10, 22, 32, 34, 35, 39, 56, 59, 63, 75, 100, 101, 121, 137, 142, 159], "input": [7, 14, 16, 20, 23, 25, 27, 30, 33, 35, 41, 46, 52, 60, 64, 67, 68, 74, 85, 88, 89, 91, 93, 99, 100, 101, 106, 110, 120, 123, 124, 125, 135, 145, 146, 147, 153, 154, 157, 159, 162], "indic": [7, 16, 20, 22, 25, 29, 30, 32, 34, 39, 40, 42, 45, 46, 52, 54, 56, 59, 64, 68, 69, 77, 81, 91, 95, 96, 99, 101, 105, 108, 112, 113, 121, 126, 128, 135, 136, 143, 144, 145, 146, 147, 149, 157, 159, 162], "tool": [7, 8, 17, 22, 23, 28, 30, 32, 33, 34, 35, 36, 37, 40, 46, 47, 48, 49, 52, 54, 57, 58, 59, 60, 68, 72, 77, 78, 79, 80, 82, 93, 108, 111, 116, 117, 121, 122, 126, 127, 146, 148, 157, 159, 161, 163], "matlab": [7, 22, 25, 36, 37, 77, 78, 79, 97, 107, 123, 126, 127], "deprec": [7, 30, 46, 55, 59, 119, 123, 131, 157, 159], "debug": [7, 42, 63, 74, 78, 95, 103, 108, 113, 131, 143, 145], "flag": [7, 12, 13, 22, 25, 28, 29, 39, 41, 42, 46, 53, 59, 73, 86, 104, 106, 108, 119, 124, 128, 145, 146], "sampl": [7, 8, 14, 17, 25, 29, 32, 42, 45, 46, 52, 61, 72, 108, 113, 131, 134, 137, 143, 144, 157, 159, 162], "ghost": [7, 16, 73, 74, 91, 94, 101, 103, 121, 128, 132, 143, 145, 147, 156, 162, 165], "flagregion": [7, 25, 67, 112, 126, 128, 137, 144, 146], "rule": [7, 13, 25, 60, 67, 86], "convex": [7, 32], "slu": 7, "bounding_box": [7, 33], "mask_outsid": [7, 67], "write": [7, 28, 30, 33, 34, 35, 39, 40, 45, 46, 51, 54, 55, 65, 72, 74, 75, 78, 85, 88, 91, 92, 94, 95, 96, 100, 121, 123, 145, 147, 153, 157, 159], "instanti": [7, 88, 96, 98, 101, 103, 132, 145, 147], "make_kml": 7, "simpl": [7, 29, 36, 37, 39, 46, 56, 69, 72, 86, 93, 98, 99, 101, 106, 111, 113, 159], "select": [7, 12, 13, 15, 16, 28, 32, 40, 67, 95, 101, 109, 112, 115, 122, 126, 133, 140, 143, 146, 151, 152, 161], "continent": [7, 67], "shelf": [7, 67], "guid": [7, 13, 17, 18, 23, 24, 25, 46, 47, 53, 58, 93, 107, 112, 122, 126, 131, 132, 150], "adjoint": [7, 17, 25, 53, 112, 123, 124], "gaug": [7, 25, 32, 34, 46, 60, 69, 91, 92, 103, 110, 115, 119, 120, 121, 122, 123, 126, 131, 134, 138, 142, 145], "extend": [8, 16, 22, 40, 60, 67, 68, 91, 123, 137, 139, 146, 157, 159, 165], "directli": [8, 19, 23, 32, 46, 49, 58, 68, 72, 79, 81, 85, 86, 89, 93, 103, 106, 108, 123, 131, 159, 163], "obviou": [8, 52], "elimin": [8, 22, 67, 86, 108, 123, 146], "gallery_classic_amrclaw": [8, 36], "num_cel": [8, 22, 91, 135, 143, 144, 145, 147], "refinement_ratios_i": [8, 144, 145], "sweep": [8, 135], "transvers": [8, 91, 121, 128, 135, 136, 143, 162, 165], "graph": 9, "understand": [9, 25, 36, 37, 49, 78, 93, 105, 112, 135], "filpatch": [9, 40, 121, 125, 128], "idea": [10, 24, 30, 67, 68, 75, 85, 105, 116, 159, 165], "overal": [10, 85], "who": [10, 12, 19, 22, 24, 32, 42, 49, 57], "gori": 10, "monster": 10, "column": [10, 30, 32, 45, 49, 61, 95, 99, 119, 137, 159], "markup": 11, "languag": [11, 78, 106], "restructur": [11, 55], "text": [11, 55, 56, 60, 74, 88, 94, 101, 119], "sphinx": [11, 23, 25, 56, 122], "covert": 11, "convert_readm": 11, "brows": [11, 24, 43, 52, 68, 148, 162], "insert": [11, 16, 72, 94, 141], "script": [11, 19, 20, 28, 30, 32, 41, 45, 52, 55, 63, 68, 75, 78, 83, 86, 90, 92, 93, 95, 96, 101, 106, 108, 113, 123, 127, 135, 142, 146, 147, 159], "invok": [11, 14, 73, 139, 160], "minor": [11, 52, 55, 95, 115, 116, 117, 118, 119, 120, 121, 122, 123, 124, 126, 128, 130, 132], "syntax": [11, 58, 141], "highlight": [11, 13], "header": [11, 30, 32, 34, 40, 45, 54, 67, 72, 74, 94, 100, 119, 121, 123, 153, 157, 159], "complex": [12, 34, 39, 91], "archiv": [12, 21, 37, 52, 56, 113, 148, 155, 159, 161], "github": [12, 15, 22, 23, 24, 25, 26, 29, 53, 55, 58, 59, 90, 98, 102, 109, 113, 118, 120, 121, 122, 131, 133, 135, 136, 140, 151, 152, 160], "app": [12, 13, 18, 23, 26, 28, 29, 32, 38, 43, 44, 72, 110, 111, 118, 122, 123, 124, 125, 126, 127, 128, 129, 130, 131, 132, 136], "com": [12, 13, 23, 24, 26, 28, 29, 53, 55, 56, 58, 59, 94, 96, 98, 102, 118, 120, 121, 122, 131, 133, 136], "fvmbook": [12, 43], "galleri": [12, 25, 36, 37, 38, 43, 56, 77, 78, 90, 93, 107, 113, 118, 122, 148, 155, 162], "anim": [12, 16, 34, 43, 52, 119, 126, 127, 131, 148], "instal": [12, 13, 18, 23, 25, 29, 36, 44, 52, 55, 56, 81, 83, 84, 87, 92, 94, 105, 107, 113, 114, 115, 116, 117, 118, 119, 120, 121, 122, 123, 124, 125, 126, 127, 128, 129, 130, 131, 132, 133, 141, 164], "collect": [12, 25, 26, 28, 30, 32, 72, 78, 85, 101, 148], "either": [12, 16, 20, 30, 32, 34, 40, 46, 47, 52, 61, 63, 67, 68, 72, 74, 79, 81, 85, 91, 93, 94, 95, 101, 106, 108, 112, 113, 119, 120, 121, 123, 131, 135, 137, 139, 144, 146, 153, 157, 159, 162, 165], "clone": [12, 18, 23, 24, 43, 53, 55, 56, 59, 82, 96, 102, 111, 131, 132, 160], "git": [12, 13, 23, 24, 25, 26, 53, 56, 59, 93, 102, 113, 125], "navig": [12, 29, 55, 148], "green": [12, 60, 67, 72, 79, 113, 159], "button": [12, 13, 28, 52, 60, 122], "download": [12, 13, 28, 29, 30, 37, 38, 40, 46, 52, 56, 58, 59, 90, 96, 102, 123, 124, 133, 155, 159, 160, 161], "zip": [12, 52, 56], "illustr": [12, 25, 30, 32, 36, 44, 52, 67, 68, 72, 74, 111, 118, 119, 123, 125, 135, 137, 148, 159], "variou": [12, 20, 22, 30, 34, 39, 44, 49, 55, 68, 69, 72, 79, 81, 91, 105, 107, 108, 112, 121, 135, 142, 146, 153], "visibl": [12, 13, 44, 52, 111, 148], "render": [12, 22, 44, 52, 60, 163], "advantag": [12, 34, 45, 61, 78, 94, 107, 113, 137], "independ": [12, 23, 30, 34, 35], "contact": [12, 90, 93, 102], "u": [12, 13, 16, 24, 29, 32, 34, 35, 48, 49, 56, 57, 59, 61, 83, 90, 93, 99, 102, 103, 104, 105, 110, 122, 135, 144, 147, 153, 161], "storm": [12, 17, 24, 25, 46, 119, 122, 123, 124, 125, 127, 128, 129], "surg": [12, 17, 24, 25, 46, 119, 122, 123, 124, 125, 128, 153], "empti": [12, 34, 45, 100, 103, 106, 108, 143, 146, 153, 159], "gitmodul": 12, "pull": [12, 24, 26, 29, 55, 56, 58, 90, 98, 113, 118, 121, 122, 128, 131, 135], "request": [12, 24, 26, 30, 34, 35, 45, 55, 58, 74, 85, 90, 91, 95, 98, 100, 113, 121, 123, 128, 135, 146, 153, 159], "init": [12, 25, 28, 40, 46, 53, 56, 58, 138, 146], "leav": [12, 13, 16, 45, 59, 144, 159], "off": [12, 13, 45, 49, 52, 60, 68, 81, 88, 95, 112, 131, 144, 149, 159], "won": [12, 13, 67, 86, 159], "hurt": [12, 64], "maintain": [12, 28, 107, 123, 144, 157, 162], "flavor": [12, 21, 94], "demonstr": [12, 25, 90, 96], "agre": [12, 28, 40, 54, 135, 156, 159, 162], "seen": [12, 22, 32, 36, 37, 38, 49, 73, 98, 143, 148], "cloud": 13, "elast": [13, 72], "sign": [13, 24, 79, 128, 153], "account": [13, 24, 28, 56, 87, 96, 134], "750": 13, "free": [13, 52, 63, 72, 83, 87, 98, 102, 104], "micro": 13, "suffici": [13, 16, 20, 34, 45, 72, 73, 74, 110, 115, 131, 143, 146], "tier": 13, "inform": [13, 14, 22, 25, 32, 33, 35, 36, 37, 47, 48, 49, 50, 51, 59, 64, 74, 79, 80, 81, 85, 86, 91, 93, 95, 96, 97, 99, 100, 106, 108, 120, 123, 124, 126, 132, 133, 134, 135, 138, 141, 143, 144, 146, 153, 156, 157, 160, 161, 162, 163], "uw": [13, 24], "escienc": 13, "aw": 13, "tutori": [13, 29, 56, 81, 84, 88, 93, 102, 108, 111], "gear": 13, "faq": [13, 25, 78], "price": 13, "charg": 13, "per": [13, 30, 35, 45, 52, 60, 68, 73, 94, 144], "thereof": 13, "regardless": [13, 35, 40, 67, 112, 143], "cpu": [13, 53, 120, 123, 125, 156], "consol": [13, 95, 146], "tab": [13, 55, 133], "east": [13, 157], "cheaper": 13, "rate": 13, "menu": [13, 18, 25, 55, 60, 122, 131, 132, 133, 138, 161], "imag": [13, 36, 37, 40, 56, 60, 67, 113, 123, 137], "platform": [13, 52, 88, 96, 107, 113], "finish": [13, 79, 85], "load": [13, 60, 95, 97, 100, 106, 113, 159, 163], "databas": [13, 30, 72, 106, 110, 123, 157], "uwamath": 13, "bar": [13, 55, 153], "screen": [13, 28, 52, 60, 88, 95, 96, 120, 145, 147], "shapshot": 13, "machin": [13, 25, 73, 75, 113, 121, 141], "disk": [13, 45, 85, 94, 95, 113, 121], "ubuntu": 13, "linux": [13, 71, 82, 104, 113, 141], "popup": 13, "look": [13, 14, 22, 25, 28, 30, 40, 52, 55, 56, 60, 68, 79, 81, 86, 91, 96, 100, 101, 105, 106, 108, 113, 116, 123, 132, 137, 143, 144, 146, 156, 159, 160], "sort": [13, 40, 123, 142, 160], "larger": [13, 20, 32, 52, 60, 72, 73, 74, 79, 91, 115, 121, 128, 144, 146, 157], "cost": [13, 101], "continu": [13, 22, 28, 30, 50, 55, 83, 107, 135, 143, 165], "eventu": [13, 46, 126], "don": [13, 27, 28, 55, 56, 79, 95, 96, 102, 113, 145, 160], "pair": [13, 94, 113, 159], "secur": 13, "quick": [13, 25, 37, 46, 47, 57, 82, 113, 155], "close": [13, 40, 52, 55, 60, 67, 68, 94, 112, 126, 144, 153], "back": [13, 27, 29, 55, 56, 122], "statu": [13, 28, 51, 88, 105], "wait": 13, "until": [13, 32, 61, 67, 139], "refresh": [13, 45], "bottom": [13, 15, 30, 36, 37, 46, 49, 65, 67, 72, 85, 98, 99, 121, 122, 140, 151, 152], "scroll": 13, "down": [13, 30, 95, 120, 153, 157, 159], "dn": 13, "screenshot": [13, 52], "rjlkei": 13, "pem": 13, "abl": [13, 55, 108], "ssh": [13, 28], "keypair": 13, "50": [13, 17, 32, 52, 69, 101, 116, 145], "19": [13, 17, 24, 129, 130, 133, 156], "75": [13, 17, 89, 105, 137], "229": 13, "amazonaw": 13, "gfortran": [13, 59, 73, 82, 84, 104, 141, 160], "ipython": [13, 75, 79, 81, 86, 87, 93, 95, 102, 105, 108, 119, 120], "scipi": [13, 35, 86, 107, 153, 159], "netcdf": [13, 35, 42, 46, 120, 123, 125, 127, 153, 159, 161], "apach": 13, "server": [13, 29, 40, 52, 55, 56, 67, 123, 157, 161], "apt": [13, 82], "fetch": [13, 48], "bring": [13, 52, 55, 68, 146], "master": [13, 15, 25, 29, 55, 56, 59, 98, 109, 120, 121, 122, 123, 124, 125, 126, 127, 128, 129, 130, 131, 132, 133, 136, 140, 151, 152], "make_lib": 13, "compil": [13, 25, 36, 37, 41, 47, 59, 64, 73, 75, 81, 82, 86, 93, 94, 98, 102, 106, 115, 135, 136, 141], "bashrc": [13, 42, 104, 141], "Of": [13, 26, 72, 105, 110, 157], "cours": [13, 26, 32, 45, 47, 61, 72, 96, 97, 105, 107, 110, 146, 157], "tar": [13, 60, 125, 133], "instruct": [13, 18, 24, 25, 36, 37, 40, 52, 53, 55, 56, 85, 87, 93, 96, 102, 105, 108, 122, 129, 131, 132, 133, 134, 160], "window": [13, 30, 68, 81, 141], "respons": [13, 49, 85, 100], "pretti": 13, "slow": [13, 52, 95, 104], "_plot": [13, 36, 37, 45, 68, 81, 142, 148], "local": [13, 17, 20, 25, 28, 52, 55, 60, 63, 64, 68, 89, 91, 98, 103, 121, 123, 132, 139, 157, 159, 162], "sftp": 13, "much": [13, 28, 32, 34, 42, 52, 74, 75, 78, 82, 107, 112, 115, 119, 126, 131, 132, 137, 143, 146, 156, 159], "smaller": [13, 34, 52, 65, 75, 91, 95, 115, 131, 139, 143, 145, 146, 147, 159], "quicker": [13, 137], "browser": [13, 28, 29, 36, 37, 52, 55, 148], "explain": [13, 32, 49, 67, 128, 143, 148], "webserv": 13, "inbound": 13, "port": [13, 29, 92, 93, 98, 144], "22": [13, 24, 144, 159], "80": [13, 17, 52, 96, 137], "drop": [13, 55, 82, 126, 128, 139, 143], "tcp": 13, "Then": [13, 16, 28, 29, 30, 34, 45, 55, 56, 57, 64, 67, 72, 73, 81, 85, 88, 96, 102, 103, 104, 108, 135, 137, 159, 160], "someth": [13, 27, 28, 55, 63, 71, 78, 95, 100, 101, 108, 157, 160, 162], "shot": 13, "ln": 13, "expos": [13, 75], "home": [13, 29, 30, 59, 141], "scp": 13, "TO": [13, 62, 83], "send": [13, 24, 98, 135], "remot": [13, 52, 56, 123, 159, 161], "rel": [13, 20, 30, 41, 47, 49, 52, 72, 73, 79, 93, 106, 108, 113, 116, 117, 118, 119, 120, 121, 122, 123, 124, 125, 126, 127, 128, 129, 130, 131, 132, 138, 144, 146, 148, 157, 161], "end": [13, 29, 30, 32, 34, 45, 48, 52, 56, 60, 88, 95, 99, 105, 107, 110, 112, 120, 121, 123, 134, 136, 137, 145, 147, 153, 156], "retriev": [13, 35, 48, 81, 86, 101, 159, 161], "sit": 13, "idl": 13, "action": [13, 14, 86], "restart": [13, 25, 45, 74, 81, 93, 120, 121, 122, 123, 125, 128, 132, 143, 145, 147], "later": [13, 34, 35, 40, 51, 52, 59, 81, 101, 134], "But": [13, 32, 40, 52, 69, 79, 104, 116, 123, 139, 141], "futur": [13, 22, 25, 26, 36, 37, 40, 49, 54, 60, 65, 85, 101, 107, 120, 121, 123, 126, 132, 144, 149, 153, 157], "job": [13, 130], "eb": 13, "runclaw": [14, 51, 116, 125, 127, 135], "autom": [14, 55, 86, 113], "certain": [14, 32, 46, 58, 67, 95, 112, 120, 137, 143], "keep": [14, 25, 28, 32, 33, 35, 36, 37, 73, 85, 88, 93, 103, 106, 113, 116], "log": [14, 25, 28, 29, 91, 92, 93, 100, 101], "came": 14, "rundir": [14, 88], "environ": [14, 25, 28, 36, 37, 38, 41, 51, 52, 55, 58, 59, 68, 71, 73, 75, 97, 104, 106, 108, 121, 159, 160], "noth": [15, 61, 103, 124, 140, 151, 152, 159, 162], "rememb": [15, 27, 73, 79, 96, 140, 151, 152], "b4step1": [15, 64, 162], "b4step2": [15, 140, 162], "b4step3": 15, "branch": [15, 18, 25, 29, 42, 51, 53, 56, 58, 59, 109, 113, 122, 123, 124, 125, 126, 127, 128, 129, 130, 131, 132, 133, 140, 151, 152], "tag": [15, 52, 56, 58, 109, 140, 144, 145, 151, 152], "bathymetri": [15, 46, 49, 52, 60, 99, 110, 121, 123, 136, 138, 140, 146, 157, 159], "area": [15, 22, 46, 101, 110, 121, 139, 140], "dy": [15, 48, 54, 60, 61, 74, 86, 91, 95, 119, 123, 140, 157, 159], "capac": [15, 99, 140, 143, 144, 145, 147], "length": [15, 30, 35, 49, 60, 72, 98, 103, 121, 128, 140, 143, 144, 145, 146, 162], "latter": [15, 45, 67, 69, 98, 126, 137, 140, 143, 153, 162], "quantiti": [15, 32, 35, 60, 68, 69, 88, 92, 93, 99, 103, 136, 140, 146], "coordinate_system": [15, 61, 140, 146], "impos": [16, 86, 112, 151, 152, 165], "chapter": [16, 135, 143, 162], "choic": [16, 46, 78, 101, 143, 145, 146, 147, 162], "bc_lower": [16, 85, 98, 105, 143, 145, 147], "bc_upper": [16, 85, 98, 105, 143, 145, 147], "extrap": [16, 98, 105, 143, 145], "outflow": [16, 143, 145, 147], "move": [16, 32, 36, 37, 46, 55, 59, 61, 72, 98, 112, 115, 117, 122, 146, 149, 157, 158], "normal": [16, 33, 34, 53, 55, 61, 79, 98, 108, 135, 136, 143, 144, 145, 146, 147], "fairli": [16, 49, 121], "good": [16, 28, 49, 52, 62, 73, 83, 105, 110, 113, 121, 128, 135], "outgo": 16, "let": [16, 46, 59, 83, 110, 122, 128, 135], "without": [16, 22, 41, 45, 49, 60, 62, 63, 64, 67, 68, 79, 81, 83, 89, 93, 94, 95, 106, 108, 113, 132, 137, 141, 145, 147, 153, 160, 162], "particularli": [16, 27, 29, 32, 34, 51, 52, 57, 58, 59, 72, 74, 108, 116, 119, 123, 128, 132, 139, 157], "perfect": 16, "hit": [16, 34, 68, 74, 81, 95, 143], "obliqu": 16, "angl": [16, 30, 48, 72], "perfectli": 16, "wall": [16, 42, 98, 105, 120, 123, 125, 143, 145, 147, 156], "veloc": [16, 32, 34, 48, 61, 68, 81, 98, 99, 105, 121, 131, 138, 143, 144, 145, 146, 147, 162], "momentum": [16, 32, 34, 35, 49, 61, 65, 95, 128, 136, 146, 157], "third": [16, 32, 54, 89, 156, 159], "acoust": [16, 29, 36, 37, 49, 84, 85, 88, 90, 93, 101, 102, 119, 135, 145, 162], "p": [16, 17, 29, 81, 83, 85, 91, 94, 95, 99, 103, 135, 165], "hu": [16, 34, 35, 61, 65, 99, 136, 146], "hv": [16, 34, 35, 61, 65, 136, 146], "equal": [16, 30, 32, 33, 34, 35, 52, 69, 72, 74, 96, 98, 112, 134, 137, 143, 145, 147, 157, 159], "far": [16, 39, 43, 67, 78, 124, 126, 128, 131], "symmetri": 16, "physic": [16, 45, 52, 86, 91, 93, 105, 112, 165], "slightli": [16, 40, 54, 121, 122, 128, 137], "complic": [16, 79, 86, 137, 142], "alwai": [16, 22, 26, 27, 28, 32, 34, 35, 42, 54, 55, 59, 68, 85, 94, 111, 112, 115, 116, 128, 132, 139, 143, 145, 147, 157, 162], "alon": [16, 52], "topographi": [16, 17, 25, 32, 33, 34, 35, 45, 46, 49, 54, 60, 65, 69, 72, 80, 110, 111, 115, 116, 117, 119, 120, 123, 126, 129, 132, 137, 138, 139, 151, 152, 158], "artifici": [16, 139], "ignor": [16, 52, 60, 94, 119, 128, 138, 159], "incom": 16, "truncat": [16, 34, 74, 94, 143], "spuriou": [16, 32, 113], "extropl": 16, "dry": [16, 17, 25, 32, 46, 99, 126, 129, 136, 139], "land": [16, 40, 46, 47, 52, 55, 56, 60, 67, 69, 80, 126, 139, 146, 159], "tank": [16, 49], "bc2amr": [16, 123], "calhounhelzellevequ": 16, "envis": 16, "fold": 16, "piec": [16, 49, 91], "glu": 16, "inflat": 16, "websit": [16, 52, 55, 148, 159], "bergercalhounhelzellevequ": 16, "hint": [16, 25, 46, 78, 81, 108, 146, 160], "suppos": [16, 64, 67, 68, 79, 108, 112], "bit": [16, 22, 30, 56, 94, 96, 104, 136], "examin": [16, 36, 37, 45, 67, 108, 131], "own": [16, 20, 24, 28, 34, 59, 85, 86, 92, 93, 102, 103, 110, 112, 123, 135, 148], "todo": [16, 135, 153, 159, 165], "poster": 17, "resourc": [17, 24, 28, 47, 107], "bale": 17, "rossmanith": 17, "siam": [17, 24, 25, 93, 135], "sci": 17, "24": [17, 52, 69, 137], "2002": 17, "955": [17, 137], "978": 17, "author": [17, 25, 46, 49, 89, 93, 94, 99, 111], "1989": 17, "hydrodynam": 17, "phy": 17, "82": 17, "64": [17, 91, 94, 96, 104], "84": [17, 52], "34": [17, 52, 60, 93], "2011": [17, 24, 83], "pp": 17, "1195": 17, "1206": 17, "adv": 17, "awr11": 17, "1998": 17, "anal": 17, "35": [17, 32, 54, 72, 93], "2298": 17, "2316": 17, "1984": 17, "partial": [17, 75, 110], "differenti": [17, 30], "53": 17, "484": 17, "512": 17, "rigoutso": 17, "1991": 17, "ieee": 17, "tran": 17, "sy": [17, 40, 67, 88, 145, 147], "man": [17, 25, 46, 49, 146, 151, 152], "cyber": 17, "21": [17, 68, 89, 91, 119, 120, 133], "1278": 17, "1286": 17, "2018": [17, 24, 55, 123, 124, 133], "phd": 17, "thesi": [17, 101], "pure": [17, 53, 81, 91, 93, 94, 96, 101, 113, 136], "appl": 17, "geophi": 17, "173": 17, "4055": 17, "4074": 17, "info": [17, 29, 30, 33, 34, 35, 45, 56, 60, 68, 88, 91, 94, 95, 101, 121, 131, 144, 145, 153], "analysi": 17, "evalu": [17, 27, 30, 34, 35, 65, 69, 85, 91, 101, 159, 162], "preprint": 17, "2000": [17, 54, 157, 159], "165": [17, 156], "126": [17, 159], "166": 17, "leveque96": 17, "1996": 17, 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"engin": [17, 52], "cise": 17, "11": [17, 32, 79, 99, 127, 128, 133], "2009": [17, 89, 94, 99], "27": [17, 52, 60, 69, 137], "levyon03": 17, "darryl": 17, "yong": 17, "solitari": 17, "layer": [17, 25, 45, 60, 91, 115, 117, 120, 121, 123], "media": 17, "math": [17, 52, 105], "63": [17, 137], "2003": 17, "1539": 17, "1560": 17, "mandli13a": 17, "72": [17, 52, 72], "91": 17, "2013it": 17, "aug": [17, 124], "mandli13b": 17, "dawson": 17, "36": [17, 48, 74, 91], "2014": [17, 24, 99, 114, 115, 116, 117, 118, 119, 133], "clint": 17, "okada85": [17, 30, 72], "okada": [17, 25, 30, 46, 111, 157, 161], "deform": [17, 30, 33, 35, 46, 72, 161], "due": [17, 24, 30, 40, 48, 72, 113, 122, 123, 128, 139, 149, 160], "shear": [17, 30], "tensil": 17, "fault": [17, 25, 30, 46, 111, 123, 130, 157, 161], "bull": [17, 30], "seism": [17, 30], "soc": [17, 30], "am": [17, 30], "1985": [17, 30], "1135": 17, "1154": 17, "octob": [18, 117, 118, 119, 125, 126, 129, 130, 132, 133], "2023": [18, 132, 133], "accompani": [18, 21, 131, 132], "featur": [18, 22, 25, 28, 32, 40, 52, 55, 68, 79, 86, 112, 113, 118, 120, 121, 123, 128, 131, 132, 133, 153, 157], "dev": [18, 24, 28, 55, 56, 96, 123, 124, 129, 130, 131, 132, 133], "diff": [18, 51, 56, 115, 116, 117, 118, 119, 120, 121, 122, 123, 124, 125, 126, 127, 128, 129, 130, 131, 132], "tarfil": [18, 56, 59, 122, 123, 124, 125, 126, 127, 128, 129, 130, 131, 132], "pip": [18, 25, 28, 52, 56, 57, 87, 93, 96, 102, 104, 108, 122, 123, 124, 125, 126, 127, 128, 129, 130, 131, 132, 133, 141], "doc": [18, 23, 24, 28, 30, 52, 56, 89, 106, 107, 108, 122, 123, 124, 125, 126, 127, 128, 129, 130, 131, 132, 150], "docker": [18, 25, 56, 57, 122, 123, 124, 125, 126, 127, 128, 129, 130, 131, 132, 164], "migrat": 19, "intermedi": [19, 32, 35, 72, 134, 162], "easiest": [19, 28, 42, 75, 79, 81, 112, 162], "bulk": [19, 85, 99, 105, 135, 145, 162], "convers": [19, 25, 86, 94, 112, 137, 157, 161], "convert43to46": 19, "inspect": [19, 20, 52], "broken": [19, 20, 28, 72, 113], "renam": [20, 22, 36, 37, 63, 98, 101], "achiev": [20, 86, 151, 152], "convert46to50": 20, "_4": 20, "complet": [20, 22, 28, 48, 63, 81, 85, 86, 96, 106, 113], "delet": [20, 28, 55, 59], "variant": [20, 57, 106, 113], "combin": [20, 55, 60, 120, 161], "properli": [20, 32, 36, 37, 40, 41, 49, 52, 54, 55, 59, 60, 67, 71, 74, 88, 113, 115, 118, 123, 126, 128, 141, 143, 146, 149, 157, 159, 160, 162], "correct": [20, 28, 42, 55, 56, 64, 65, 68, 79, 85, 91, 96, 100, 106, 115, 116, 120, 139, 143, 145, 146, 147], "permut": 20, "th": [20, 22, 45, 135, 162], "reorder": [20, 22], "pattern": [20, 47, 52, 138], "carefulli": [20, 22, 65], "setaux": [20, 22, 64, 86, 115, 116, 135, 143, 145, 147], "sequenc": [20, 22, 34, 35, 64, 67, 69, 96, 102, 105, 106, 113, 115, 122, 135, 162], "maxmx": [20, 86], "maxmi": [20, 86], "maxmz": 20, "longer": [20, 28, 45, 55, 56, 60, 82, 107, 121, 123, 126, 128, 132, 134, 135, 146, 157, 161], "declar": [20, 22, 103, 128, 162], "memori": [20, 22, 73, 74, 75, 85, 88, 95, 103, 128, 144, 145], "alloc": [20, 101, 119, 128, 144], "mx": [20, 22, 54, 74, 86, 96, 99, 135, 145, 157, 162], "resp": [20, 30, 128], "mz": [20, 22], "driver": [20, 64], "led": [20, 124], "homepag": [21, 25], "reorgan": [22, 86, 114, 129], "incorpor": [22, 49, 55, 83, 101, 115, 122, 136, 159], "changelog": [22, 114, 115, 116, 117, 118, 119, 120, 121, 122, 123, 124, 125, 126, 127, 128, 129, 130, 131, 133], "concern": [22, 46, 144], "evolv": [22, 85, 88, 101], "organ": [22, 23, 36, 37, 88], "affect": [22, 63, 121, 122, 128, 131, 143, 157, 160], "assist": [22, 126], "older": [22, 42, 53, 55, 58, 59, 101, 127, 131, 133, 144], "compris": [22, 93, 159], "repositori": [22, 24, 25, 26, 29, 32, 37, 38, 43, 44, 46, 53, 58, 59, 63, 64, 93, 101, 108, 110, 111, 113, 118, 121, 133, 150], "webpag": [22, 24, 36, 37, 43, 47, 52, 56, 63, 124, 138], "primari": [22, 28, 29, 46, 110, 113, 153], "auxiliari": [22, 86, 88, 94, 99, 100, 101, 103, 135, 143, 145, 147, 162], "cach": [22, 48, 56, 81, 83, 126, 144], "petsc": [22, 23, 75, 83, 85, 92, 95, 102, 103, 104, 106], "stride": [22, 159], "contingu": 22, "maux": [22, 135, 162], "ma": [22, 34, 40, 67, 137, 159], "relev": [22, 27, 40, 42, 46, 52, 55, 94, 112, 113, 153], "flexibl": [22, 30, 60, 86, 119, 122, 135, 137, 144], "clean": [22, 55, 56, 106, 119, 123], "systemat": 22, "obscur": 22, "clarifi": 22, "regress": [22, 25, 28, 51, 93, 96, 121, 122, 155], "test": [22, 25, 30, 36, 39, 42, 51, 52, 56, 57, 58, 59, 65, 78, 83, 84, 86, 92, 93, 99, 106, 107, 112, 116, 120, 121, 122, 123, 126, 128, 132, 135, 147, 149, 153, 156, 157, 159], "travi": [22, 128], "miss": [22, 25, 94, 125, 132, 149, 153, 157, 159, 160], "conform": [22, 28, 33, 100, 123, 157], "construct": [22, 30, 32, 54, 69, 85, 91, 106, 132, 153, 154, 157], "visit": [22, 25, 78, 133], "gui": [22, 163], "openmp": [22, 25, 42, 75, 106, 112, 120, 126, 156], "monitor": [22, 25, 33, 34, 39, 46, 67, 69, 73, 116, 118, 121, 131], "arriv": [22, 32, 34, 40, 46, 121, 138, 139], 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[127, "changes-to-amrclaw"], [128, "changes-to-amrclaw"], [129, "changes-to-amrclaw"], [130, "changes-to-amrclaw"], [131, "changes-to-amrclaw"], [132, "changes-to-amrclaw"]], "Changes to geoclaw": [[18, "changes-to-geoclaw"], [115, "changes-to-geoclaw"], [116, "changes-to-geoclaw"], [117, "changes-to-geoclaw"], [118, "changes-to-geoclaw"], [119, "changes-to-geoclaw"], [120, "changes-to-geoclaw"], [121, "changes-to-geoclaw"], [122, "changes-to-geoclaw"], [123, "changes-to-geoclaw"], [124, "changes-to-geoclaw"], [125, "changes-to-geoclaw"], [126, "changes-to-geoclaw"], [127, "changes-to-geoclaw"], [128, "changes-to-geoclaw"], [129, "changes-to-geoclaw"], [130, "changes-to-geoclaw"], [131, "changes-to-geoclaw"], [132, "changes-to-geoclaw"]], "Changes to PyClaw": [[18, "changes-to-pyclaw"], [114, "changes-to-pyclaw"], [115, "changes-to-pyclaw"], [116, "changes-to-pyclaw"], [117, "changes-to-pyclaw"], [118, "changes-to-pyclaw"], [119, "changes-to-pyclaw"], [120, "changes-to-pyclaw"], [121, "changes-to-pyclaw"], [122, "changes-to-pyclaw"], [123, "changes-to-pyclaw"], [124, "changes-to-pyclaw"], [125, "changes-to-pyclaw"], [126, "changes-to-pyclaw"], [127, "changes-to-pyclaw"], [128, "changes-to-pyclaw"], [129, "changes-to-pyclaw"], [130, "changes-to-pyclaw"], [131, "changes-to-pyclaw"], [132, "changes-to-pyclaw"]], "Other Clawpack Repositories": [[18, "other-clawpack-repositories"], [122, "other-clawpack-repositories"], [123, "other-clawpack-repositories"], [124, "other-clawpack-repositories"], [125, "other-clawpack-repositories"], [126, "other-clawpack-repositories"], [127, "other-clawpack-repositories"], [128, "other-clawpack-repositories"], [129, "other-clawpack-repositories"], [130, "other-clawpack-repositories"], [131, "other-clawpack-repositories"], [132, "other-clawpack-repositories"]], "Converting from Clawpack 4.3 to 4.6": [[19, "converting-from-clawpack-4-3-to-4-6"]], "Converting from Clawpack 4.6 to 5.0": [[20, "converting-from-clawpack-4-6-to-5-0"]], "Python conversion tool": [[20, "python-conversion-tool"]], "Clawpack 4.x links": [[21, "clawpack-4-x-links"]], "Changes in Clawpack 5.0": [[22, "changes-in-clawpack-5-0"]], "PyClaw in 5.0": [[22, "pyclaw-in-5-0"]], "Fortran package changes": [[22, "fortran-package-changes"]], "Changes to input parameters in setrun.py from 4.x to 5.0": [[22, "changes-to-input-parameters-in-setrun-py-from-4-x-to-5-0"]], "Changes to general parameters": [[22, "changes-to-general-parameters"]], "Changes to AMR parameters": [[22, "changes-to-amr-parameters"]], "Changes to GeoClaw parameters": [[22, "changes-to-geoclaw-parameters"]], "Changes to plotting routines": [[22, "changes-to-plotting-routines"]], "Clawpack components": [[23, "clawpack-components"]], "Other repositories": [[23, "other-repositories"]], "Clawpack Community": [[24, "clawpack-community"]], "User Workshops, Clinics, and Tutorials": [[24, "user-workshops-clinics-and-tutorials"]], "Available for streaming": [[24, "available-for-streaming"]], "Upcoming": [[24, "upcoming"], [24, "id1"]], "Recent": [[24, "recent"]], "Developer Workshops and Sprint Sessions": [[24, "developer-workshops-and-sprint-sessions"]], "Previous": [[24, "previous"]], "Other Clawpack events": [[24, "other-clawpack-events"]], "Contents": [[25, "id1"], [28, "contents"], [40, "contents"], [67, "contents"], [79, "contents"], [85, "contents"], [95, "contents"], [101, "contents"], [113, "contents"], [137, "contents"]], "Full Table of Contents": [[25, "full-table-of-contents"]], "Overview and Getting Started": [[25, "overview-and-getting-started"]], "Examples and Applications": [[25, "examples-and-applications"]], "Classic, AMRClaw, and GeoClaw": [[25, "classic-amrclaw-and-geoclaw"]], "Using the Fortran codes": [[25, "using-the-fortran-codes"]], "AMRClaw: adaptive mesh refinement": [[25, "amrclaw-adaptive-mesh-refinement"]], "GeoClaw: geophysical flows": [[25, "geoclaw-geophysical-flows"]], "PyClaw": [[25, "pyclaw"], [36, "pyclaw"], [93, "pyclaw"], [113, "pyclaw"], [155, "pyclaw"]], "Riemann": [[25, "riemann"]], "VisClaw: Plotting and Visualization Tools": [[25, "visclaw-plotting-and-visualization-tools"]], "Migrating applications from older versions of Clawpack": [[25, "migrating-applications-from-older-versions-of-clawpack"]], "Developers\u2019 resources": [[25, "developers-resources"]], "References": [[25, "references"], [53, "references"]], "Contributing examples and applications": [[26, "contributing-examples-and-applications"]], "current_data": [[27, "current-data"]], "Attributes of current_data:": [[27, "attributes-of-current-data"]], "Developers\u2019 Guide": [[28, "developers-guide"]], "Guidelines for contributing": [[28, "guidelines-for-contributing"]], "Reporting and fixing bugs": [[28, "reporting-and-fixing-bugs"]], "Developer communication": [[28, "developer-communication"]], "Installation instructions for developers": [[28, "installation-instructions-for-developers"]], "Cloning the most recent code from Github": [[28, "cloning-the-most-recent-code-from-github"]], "Checking out the master branch on each repository": [[28, "checking-out-the-master-branch-on-each-repository"]], "Updating to the latest master branch": [[28, "updating-to-the-latest-master-branch"]], "Never commit to master": [[28, "never-commit-to-master"]], "Adding your fork as a remote": [[28, "adding-your-fork-as-a-remote"]], "Modifying code": [[28, "modifying-code"]], "Issuing a pull request": [[28, "issuing-a-pull-request"]], "Testing a pull request": [[28, "testing-a-pull-request"]], "Top-level pull requests": [[28, "top-level-pull-requests"]], "Git workflow": [[28, "git-workflow"]], "Catching errors with Pyflakes and Pylint": [[28, "catching-errors-with-pyflakes-and-pylint"]], "Checking test coverage": [[28, "checking-test-coverage"]], "Trouble-Shooting Tips": [[28, "trouble-shooting-tips"]], "Docker for Clawpack": [[29, "docker-for-clawpack"]], "Using Version 5.9.0 or above": [[29, "using-version-5-9-0-or-above"]], "Getting started": [[29, "getting-started"]], "Stopping a container": [[29, "stopping-a-container"]], "Restarting a container": [[29, "restarting-a-container"]], "Running Jupyter notebooks": [[29, "running-jupyter-notebooks"]], "Moving files between the docker container and the host machine": [[29, "moving-files-between-the-docker-container-and-the-host-machine"]], "Some other useful docker commands": [[29, "some-other-useful-docker-commands"]], "Creating your own docker image": [[29, "creating-your-own-docker-image"]], "Dockerfiles for binder": [[29, "dockerfiles-for-binder"]], "dtopotools module for moving topography": [[30, "dtopotools-module-for-moving-topography"]], "Documentation auto-generated from the module docstrings": [[30, "module-clawpack.geoclaw.dtopotools"], [33, "module-clawpack.geoclaw.fgmax_tools"], [35, "module-clawpack.geoclaw.fgout_tools"], [48, "module-clawpack.geoclaw.util"], [60, "module-clawpack.geoclaw.kmltools"], [159, "module-clawpack.geoclaw.topotools"]], "Fortran 77 vs. Fortran 90 files": [[31, "fortran-77-vs-fortran-90-files"]], "Fixed grid monitoring": [[32, "fixed-grid-monitoring"]], "Input file specification": [[32, "input-file-specification"], [34, "input-file-specification"]], "Different point styles": [[32, "different-point-styles"]], "Other attributes": [[32, "other-attributes"]], "Values to monitor": [[32, "values-to-monitor"]], "Choice of interpolation procedure": [[32, "choice-of-interpolation-procedure"], [34, "choice-of-interpolation-procedure"]], "A simple example": [[32, "a-simple-example"], [34, "a-simple-example"]], "Processing and plotting fgmax output": [[32, "processing-and-plotting-fgmax-output"]], "Format of the output files": [[32, "format-of-the-output-files"]], "fgmax_tools module for working with fgmax grids": [[33, "fgmax-tools-module-for-working-with-fgmax-grids"]], "Fixed grid output": [[34, "fixed-grid-output"], [146, "fixed-grid-output"]], "Format of fgout output": [[34, "format-of-fgout-output"]], "Using setplot.py to produce plots": [[34, "using-setplot-py-to-produce-plots"]], "Reading and plotting fgout arrays directly": [[34, "reading-and-plotting-fgout-arrays-directly"]], "fgout grid registration": [[34, "fgout-grid-registration"]], "fgout_tools module for working with fgout grids": [[35, "fgout-tools-module-for-working-with-fgout-grids"]], "Running an example": [[36, "running-an-example"], [37, "running-an-example"], [38, "running-an-example"]], "Classic": [[36, "classic"], [37, "classic"], [155, "classic"]], "Testing your Fortran installation and running an example": [[37, "testing-your-fortran-installation-and-running-an-example"]], "More examples": [[37, "more-examples"]], "Testing a PyClaw installation and running an example": [[38, "testing-a-pyclaw-installation-and-running-an-example"]], "From the Jupyter notebook": [[38, "from-the-jupyter-notebook"]], "From the IPython interpreter": [[38, "from-the-ipython-interpreter"]], "From the command line": [[38, "from-the-command-line"], [90, "from-the-command-line"]], "Specifying flagregions for adaptive refinement": [[39, "specifying-flagregions-for-adaptive-refinement"]], "Using ruled rectangles as flagregions": [[39, "using-ruled-rectangles-as-flagregions"]], "Force Cells to be Dry Initially": [[40, "force-cells-to-be-dry-initially"]], "Examples": [[40, "examples"], [45, "examples"], [67, "examples"], [93, "examples"], [137, "examples"]], "Sample topography from a 1/3 arcsecond DEM": [[40, "sample-topography-from-a-1-3-arcsecond-dem"], [67, "sample-topography-from-a-1-3-arcsecond-dem"]], "Creating the force_dry_init array": [[40, "creating-the-force-dry-init-array"]], "Create file to read into GeoClaw": [[40, "create-file-to-read-into-geoclaw"]], "Usage in GeoClaw Fortran code": [[40, "usage-in-geoclaw-fortran-code"]], "Internal GeoClaw modifications": [[40, "internal-geoclaw-modifications"]], "Fortran version": [[41, "fortran-version"]], "Makefiles": [[41, "makefiles"]], "More tips": [[41, "more-tips"]], "Fortran Compilers": [[42, "fortran-compilers"]], "FC environment variable": [[42, "fc-environment-variable"]], "FFLAGS environment variable": [[42, "fflags-environment-variable"]], "LFLAGS environment variable": [[42, "lflags-environment-variable"]], "Pre-Processor and the PPFLAGS environment variable": [[42, "pre-processor-and-the-ppflags-environment-variable"]], "gfortran compiler": [[42, "gfortran-compiler"]], "Intel fortran compiler": [[42, "intel-fortran-compiler"]], "Examples from the book FVMHP": [[43, "examples-from-the-book-fvmhp"]], "Available examples": [[43, "available-examples"]], "Clawpack Gallery": [[44, "clawpack-gallery"]], "Gauges": [[45, "gauges"]], "Gauge parameters in setrun": [[45, "gauge-parameters-in-setrun"]], "Plotting tools": [[45, "plotting-tools"]], "Plotting gauge locations": [[45, "plotting-gauge-locations"]], "GeoClaw Description and Detailed Contents": [[46, "geoclaw-description-and-detailed-contents"]], "Getting started with GeoClaw": [[47, "getting-started-with-geoclaw"]], "Running a GeoClaw code": [[47, "running-a-geoclaw-code"]], "Topography": [[47, "topography"]], "Plotting GeoClaw results": [[47, "plotting-geoclaw-results"]], "Setting up a new example": [[47, "setting-up-a-new-example"]], "geoclaw.util module of utility functions": [[48, "geoclaw-util-module-of-utility-functions"]], "Cautionary Hints on using GeoClaw": [[49, "cautionary-hints-on-using-geoclaw"]], "Tsunami hazard modeling": [[49, "tsunami-hazard-modeling"]], "GeoClaw plotting tools": [[50, "geoclaw-plotting-tools"]], "Plotting water depth or surface elevation": [[50, "plotting-water-depth-or-surface-elevation"]], "Tips on latitude-longitude coordinate axes": [[50, "tips-on-latitude-longitude-coordinate-axes"]], "Keeping track of repository versions with Git": [[51, "keeping-track-of-repository-versions-with-git"]], "Visualizing GeoClaw results in Google Earth": [[52, "visualizing-geoclaw-results-in-google-earth"]], "Basic requirements": [[52, "basic-requirements"]], "Optional GDAL library": [[52, "optional-gdal-library"]], "An example : The Chile 2010 tsunami event": [[52, "an-example-the-chile-2010-tsunami-event"]], "Plotting attributes needed for Google Earth": [[52, "plotting-attributes-needed-for-google-earth"]], "plotdata attributes": [[52, "plotdata-attributes"]], "plotfigure attributes": [[52, "plotfigure-attributes"]], "Creating the figures": [[52, "creating-the-figures"]], "plotaxes attributes": [[52, "plotaxes-attributes"]], "plotitem attributes": [[52, "plotitem-attributes"]], "Adding a colorbar overlay": [[52, "adding-a-colorbar-overlay"]], "Gauge plots": [[52, "gauge-plots"]], "Additional plotdata attributes": [[52, "additional-plotdata-attributes"]], "Plotting tips": [[52, "plotting-tips"]], "KML and KMZ files": [[52, "kml-and-kmz-files"]], "Tiling images for faster loading": [[52, "tiling-images-for-faster-loading"]], "Removing aliasing artifacts": [[52, "removing-aliasing-artifacts"]], "Creating multiple figures at different resolutions": [[52, "creating-multiple-figures-at-different-resolutions"]], "Mapping topography data to latitude/longitude coordinates": [[52, "mapping-topography-data-to-latitude-longitude-coordinates"]], "Publishing your results": [[52, "id1"]], "Using the GPU version of Clawpack": [[53, "using-the-gpu-version-of-clawpack"]], "Grid registration": [[54, "grid-registration"]], "NetCDF files": [[54, "netcdf-files"]], "Guide for updating this documentation": [[55, "guide-for-updating-this-documentation"]], "Git branches and tags": [[55, "git-branches-and-tags"]], "Configuration and style files": [[55, "configuration-and-style-files"]], "Updating the docs for a new release": [[55, "updating-the-docs-for-a-new-release"]], "To generate docs including previous versions": [[55, "to-generate-docs-including-previous-versions"]], "Updating for a new major version": [[55, "updating-for-a-new-major-version"]], "Updating the gallery": [[55, "updating-the-gallery"]], "Updating the webpages": [[55, "updating-the-webpages"]], "Extra files for webpages not built by Sphinx": [[55, "extra-files-for-webpages-not-built-by-sphinx"]], "Pages from other clawpack repositories": [[55, "pages-from-other-clawpack-repositories"]], "Guide for doing a Clawpack release": [[56, "guide-for-doing-a-clawpack-release"]], "Preparation": [[56, "preparation"]], "Version numbers": [[56, "version-numbers"]], "Release candidates": [[56, "release-candidates"]], "Create a tar file and a Github release": [[56, "create-a-tar-file-and-a-github-release"]], "Final release": [[56, "final-release"]], "Pypi": [[56, "pypi"]], "Zenodo": [[56, "zenodo"]], "Open Science Framework (OSF)": [[56, "open-science-framework-osf"]], "Updating the documentation": [[56, "updating-the-documentation"]], "Updating the apps repository": [[56, "updating-the-apps-repository"]], "Updating the Dockerfile": [[56, "updating-the-dockerfile"]], "Installing Clawpack": [[57, "installing-clawpack"]], "Next steps:": [[57, "next-steps"], [58, "next-steps"], [59, "next-steps"]], "Options for installing Clawpack Fortran codes": [[58, "options-for-installing-clawpack-fortran-codes"]], "tar file": [[58, "tar-file"]], "git clone": [[58, "git-clone"]], "pip install instructions": [[59, "pip-install-instructions"]], "Quick Installation of PyClaw with pip": [[59, "quick-installation-of-pyclaw-with-pip"]], "Quick Installation of all packages with pip": [[59, "quick-installation-of-all-packages-with-pip"]], "Using pip to install a different version": [[59, "using-pip-to-install-a-different-version"]], "Experimenting with code in the examples directories": [[59, "experimenting-with-code-in-the-examples-directories"]], "Troubleshooting pip install": [[59, "troubleshooting-pip-install"]], "kmltools module of utility functions": [[60, "kmltools-module-of-utility-functions"]], "Lagrangian gauges for particle tracking": [[61, "lagrangian-gauges-for-particle-tracking"]], "Specifying Lagrangian Gauges": [[61, "specifying-lagrangian-gauges"]], "Visclaw tools for plotting": [[61, "visclaw-tools-for-plotting"]], "An alternative using fgout grids": [[61, "an-alternative-using-fgout-grids"]], "Clawpack Makefiles": [[63, "clawpack-makefiles"]], "Applications directory Makefiles": [[63, "applications-directory-makefiles"]], "output": [[63, "output"]], "plots": [[63, "plots"]], "Variables": [[63, "variables"]], "Compiler flags": [[63, "compiler-flags"]], "Duplicate Base Source Name": [[63, "duplicate-base-source-name"]], "Library routines in Makefiles": [[64, "library-routines-in-makefiles"]], "Replacing files with the same name as library files": [[64, "replacing-files-with-the-same-name-as-library-files"]], "Using a modified library routine with a different name": [[64, "using-a-modified-library-routine-with-a-different-name"]], "Manning friction term": [[65, "manning-friction-term"]], "The mapc2p function": [[66, "the-mapc2p-function"]], "Marching Front algorithm": [[67, "marching-front-algorithm"]], "Function arguments": [[67, "function-arguments"]], "output array": [[67, "output-array"]], "creating a masked array": [[67, "creating-a-masked-array"]], "topofile mask for initializing dry points": [[67, "topofile-mask-for-initializing-dry-points"]], "fgmax points": [[67, "fgmax-points"]], "flag regions": [[67, "flag-regions"]], "The mask argument": [[67, "the-mask-argument"]], "The previous_pts_chosen argument": [[67, "the-previous-pts-chosen-argument"]], "Finding all points below a given elevation": [[67, "finding-all-points-below-a-given-elevation"]], "Create a buffer zone along shore": [[67, "create-a-buffer-zone-along-shore"]], "Choose points only near shore": [[67, "choose-points-only-near-shore"]], "Write out the masked array indicating fgmax points": [[67, "write-out-the-masked-array-indicating-fgmax-points"]], "Creating an AMR flag region": [[67, "creating-an-amr-flag-region"]], "Determining dry areas below MHW": [[67, "determining-dry-areas-below-mhw"]], "Plotting using Matlab": [[68, "plotting-using-matlab"]], "The Matlab search path": [[68, "the-matlab-search-path"]], "Creating output files": [[68, "creating-output-files"]], "The plotclaw command": [[68, "the-plotclaw-command"]], "The setplot file": [[68, "the-setplot-file"]], "The afterframe file": [[68, "the-afterframe-file"]], "Getting help": [[68, "getting-help"]], "Trouble shooting": [[68, "trouble-shooting"]], "Output files not found": [[68, "output-files-not-found"]], "MaxFrames not set": [[68, "maxframes-not-set"]], "Switching examples": [[68, "switching-examples"]], "Matlab Gallery": [[68, "matlab-gallery"]], "Nearshore interpolation": [[69, "nearshore-interpolation"]], "Using NetCDF output": [[70, "using-netcdf-output"]], "Creating a new application directory": [[71, "creating-a-new-application-directory"]], "Copying an existing example": [[71, "copying-an-existing-example"]], "Earthquake sources: Fault slip and the Okada model": [[72, "earthquake-sources-fault-slip-and-the-okada-model"]], "Fault slip on rectangular subfaults": [[72, "fault-slip-on-rectangular-subfaults"]], "Okada model": [[72, "okada-model"]], "Kinematic rupture": [[72, "kinematic-rupture"]], "Fault slip on triangular subfaults": [[72, "fault-slip-on-triangular-subfaults"]], "Using OpenMP": [[73, "using-openmp"]], "Using OpenMP with AMR": [[73, "using-openmp-with-amr"]], "Fixed grid output in GeoClaw": [[73, "fixed-grid-output-in-geoclaw"]], "Output data sytles and formats": [[74, "output-data-sytles-and-formats"]], "Output style": [[74, "output-style"]], "Output data formats": [[74, "output-data-formats"]], "ASCII output data format": [[74, "ascii-output-data-format"]], "fort.t0002": [[74, "fort-t0002"]], "fort.q0002": [[74, "fort-q0002"]], "Raw binary output data formats": [[74, "raw-binary-output-data-formats"]], "NetCDF output data format": [[74, "netcdf-output-data-format"]], "Output of aux arrays": [[74, "output-of-aux-arrays"]], "Which Clawpack solver should I use?": [[75, "which-clawpack-solver-should-i-use"]], "Installation and user interface": [[75, "installation-and-user-interface"]], "Algorithmic differences": [[75, "algorithmic-differences"]], "Parallel computing": [[75, "parallel-computing"]], "Clawpack Community Photos": [[76, "clawpack-community-photos"]], "2016 Developers\u2019 workshop at University of Washington": [[76, "id1"]], "2015 Developers\u2019 workshop at University of Utah": [[76, "id2"]], "2014 HPC3 workshop at KAUST": [[76, "id3"]], "2013 Claw-Dev workshop at UW": [[76, "id4"]], "2012 HPC3 workshop at KAUST": [[76, "id6"]], "2011 coding sprints at UW": [[76, "coding-sprints-at-uw"]], "2010 GeoClaw hacking UW": [[76, "geoclaw-hacking-uw"]], "Plotting examples": [[77, "plotting-examples"]], "Plotting with Visclaw": [[78, "plotting-with-visclaw"]], "Plotting as post-processing": [[78, "plotting-as-post-processing"]], "Plotting on the fly": [[78, "plotting-on-the-fly"]], "Plotting hints and FAQ": [[79, "plotting-hints-and-faq"]], "What\u2019s the difference between make .plots and make plots ?": [[79, "what-s-the-difference-between-make-plots-and-make-plots"]], "How to plot a something other than a component of q?": [[79, "how-to-plot-a-something-other-than-a-component-of-q"]], "How to add another curve to a plot, e.g. the true solution?": [[79, "how-to-add-another-curve-to-a-plot-e-g-the-true-solution"]], "How to change the title in a plot?": [[79, "how-to-change-the-title-in-a-plot"]], "How to specify outdir, the directory to find fort.* files for plotting?": [[79, "how-to-specify-outdir-the-directory-to-find-fort-files-for-plotting"]], "How to specify a different outdir for some plot item?": [[79, "how-to-specify-a-different-outdir-for-some-plot-item"]], "How to set plot parameters that are not provided as attributes of ClawPlotItem?": [[79, "how-to-set-plot-parameters-that-are-not-provided-as-attributes-of-clawplotitem"]], "How to change the size or background color of a figure?": [[79, "how-to-change-the-size-or-background-color-of-a-figure"]], "Specifying colormaps for pcolor or contourf plots": [[79, "specifying-colormaps-for-pcolor-or-contourf-plots"]], "How to debug setplot.py?": [[79, "how-to-debug-setplot-py"]], "Plotting routines for GeoClaw": [[80, "plotting-routines-for-geoclaw"]], "Plotting options in Python": [[81, "plotting-options-in-python"]], "Producing html plots from the command line": [[81, "producing-html-plots-from-the-command-line"]], "Producing a latex file with plots from the command line": [[81, "producing-a-latex-file-with-plots-from-the-command-line"]], "Setting plot parameters with a setplot function": [[81, "setting-plot-parameters-with-a-setplot-function"]], "Interactive plotting with Iplotclaw": [[81, "interactive-plotting-with-iplotclaw"]], "Access to current_data": [[81, "access-to-current-data"]], "printframes": [[81, "printframes"]], "Specifying what and how to plot": [[81, "specifying-what-and-how-to-plot"]], "Installation Prerequisites": [[82, "installation-prerequisites"]], "Operating system": [[82, "operating-system"]], "Fortran": [[82, "fortran"]], "Python": [[82, "python"]], "pip": [[82, "pip"]], "Git": [[82, "git"]], "About PyClaw": [[83, "about-pyclaw"]], "Contributors": [[83, "contributors"]], "PyClaw Basics": [[84, "pyclaw-basics"]], "Understanding Pyclaw Classes": [[85, "understanding-pyclaw-classes"]], "Flow of a Pyclaw Simulation": [[85, "flow-of-a-pyclaw-simulation"]], "Creation of a Pyclaw Solution": [[85, "creation-of-a-pyclaw-solution"]], "Creation of a Pyclaw Solver": [[85, "creation-of-a-pyclaw-solver"]], "Creating and Running a Simulation with Controller": [[85, "creating-and-running-a-simulation-with-controller"]], "Restarting a simulation": [[85, "restarting-a-simulation"]], "Outputting aux values": [[85, "outputting-aux-values"]], "Outputting derived quantities": [[85, "outputting-derived-quantities"], [95, "outputting-derived-quantities"]], "Porting a problem from Clawpack 4.6.x to PyClaw": [[86, "porting-a-problem-from-clawpack-4-6-x-to-pyclaw"]], "Running PyClaw in the cloud": [[87, "running-pyclaw-in-the-cloud"]], "Sage Math Cloud": [[87, "sage-math-cloud"]], "Pyclaw Controller Class": [[88, "pyclaw-controller-class"]], "pyclaw.controller.Controller": [[88, "pyclaw-controller-controller"]], "Pyclaw Limiters": [[89, "pyclaw-limiters"]], "clawpack.pyclaw.limiters.tvd": [[89, "module-clawpack.pyclaw.limiters.tvd"]], "CFL Independent Limiters": [[89, "cfl-independent-limiters"]], "CFL Dependent Limiters": [[89, "cfl-dependent-limiters"]], "Working with PyClaw\u2019s built-in examples": [[90, "working-with-pyclaw-s-built-in-examples"]], "Running and plotting examples": [[90, "running-and-plotting-examples"]], "Interactively in IPython": [[90, "interactively-in-ipython"]], "Built-in examples": [[90, "built-in-examples"]], "Adding new examples": [[90, "adding-new-examples"]], "PyClaw Geometry": [[91, "pyclaw-geometry"]], "Serial Geometry Objects": [[91, "serial-geometry-objects"]], "pyclaw.geometry.Domain": [[91, "pyclaw-geometry-domain"]], "pyclaw.geometry.Patch": [[91, "pyclaw-geometry-patch"]], "pyclaw.geometry.Grid": [[91, "pyclaw-geometry-grid"]], "pyclaw.geometry.Dimension": [[91, "pyclaw-geometry-dimension"]], "Parallel Geometry Objects": [[91, "parallel-geometry-objects"]], "petclaw.geometry.Domain": [[91, "petclaw-geometry-domain"]], "petclaw.geometry.Patch": [[91, "petclaw-geometry-patch"]], "Going Further": [[92, "going-further"]], "PyClaw installation": [[93, "pyclaw-installation"]], "Features": [[93, "features"]], "PyClaw Documentation": [[93, "pyclaw-documentation"]], "PyClaw Modules reference documentation": [[93, "pyclaw-modules-reference-documentation"]], "Riemann Solvers reference documentation": [[93, "riemann-solvers-reference-documentation"]], "Indices and tables": [[93, "indices-and-tables"]], "Citing PyClaw": [[93, "citing-pyclaw"]], "Pyclaw Input/Output Package": [[94, "pyclaw-input-output-package"]], "pyclaw.fileio.ascii": [[94, "module-clawpack.pyclaw.fileio.ascii"]], "pyclaw.fileio.binary": [[94, "module-clawpack.pyclaw.fileio.binary"]], "pyclaw.fileio.hdf5": [[94, "pyclaw-fileio-hdf5"]], "pyclaw.fileio.netcdf": [[94, "module-clawpack.pyclaw.fileio.netcdf"]], "PyClaw output": [[95, "pyclaw-output"]], "Output frames": [[95, "output-frames"]], "When output is saved/written": [[95, "when-output-is-saved-written"]], "Where and how output is written": [[95, "where-and-how-output-is-written"]], "What output is written": [[95, "what-output-is-written"]], "Outputting functionals": [[95, "outputting-functionals"]], "Using gauges": [[95, "using-gauges"]], "Logging": [[95, "logging"]], "Running in parallel": [[96, "running-in-parallel"]], "Installing PETSc": [[96, "installing-petsc"]], "Testing your installation": [[96, "testing-your-installation"], [155, "testing-your-installation"]], "Running and plotting an example": [[96, "running-and-plotting-an-example"]], "Tips for making your application run correctly in parallel": [[96, "tips-for-making-your-application-run-correctly-in-parallel"]], "Passing options to PETSc": [[96, "passing-options-to-petsc"]], "Plotting PyClaw results": [[97, "plotting-pyclaw-results"]], "Basics": [[97, "basics"]], "Plotting result from parallel runs": [[97, "plotting-result-from-parallel-runs"]], "Setting up your own problem": [[98, "setting-up-your-own-problem"]], "Writing the initialization script": [[98, "writing-the-initialization-script"]], "Setting initial conditions": [[98, "setting-initial-conditions"]], "Setting auxiliary variables": [[98, "setting-auxiliary-variables"]], "Setting boundary conditions": [[98, "setting-boundary-conditions"]], "Setting solver options": [[98, "setting-solver-options"]], "Using your own Riemann solver": [[98, "using-your-own-riemann-solver"]], "Adding source terms": [[98, "adding-source-terms"]], "Setting up the Makefile": [[98, "setting-up-the-makefile"]], "Riemann Solver Package": [[99, "riemann-solver-package"]], "Acoustics": [[99, "acoustics"]], "Advection": [[99, "advection"]], "Burgers Equation": [[99, "burgers-equation"]], "Euler Equations": [[99, "euler-equations"]], "Shallow Water Equations": [[99, "shallow-water-equations"]], "PyClaw Solutions": [[100, "pyclaw-solutions"]], "pyclaw.solution.Solution": [[100, "pyclaw-solution-solution"]], "Using PyClaw\u2019s solvers: Classic and SharpClaw": [[101, "using-pyclaw-s-solvers-classic-and-sharpclaw"]], "SharpClaw Solvers": [[101, "sharpclaw-solvers"]], "pyclaw.sharpclaw": [[101, "pyclaw-sharpclaw"]], "Pyclaw Classic Clawpack Solvers": [[101, "pyclaw-classic-clawpack-solvers"]], "pyclaw.classic.solver": [[101, "pyclaw-classic-solver"]], "Change to Custom BC Function Signatures": [[101, "change-to-custom-bc-function-signatures"]], "Installing PyClaw": [[102, "installing-pyclaw"]], "Dependencies: Python, gfortran, numpy, and matplotlib": [[102, "dependencies-python-gfortran-numpy-and-matplotlib"]], "Obtaining Python, numpy, and matplotlib": [[102, "obtaining-python-numpy-and-matplotlib"]], "Clawpack": [[102, "clawpack"]], "Testing your installation with nose": [[102, "testing-your-installation-with-nose"]], "Next steps": [[102, "next-steps"]], "PyClaw State": [[103, "pyclaw-state"]], "Serial pyclaw.state.State": [[103, "serial-pyclaw-state-state"]], "Parallel petclaw.state.State": [[103, "parallel-petclaw-state-state"]], "Troubleshooting": [[104, "troubleshooting"], [160, "troubleshooting"]], "Compilation errors": [[104, "compilation-errors"]], "Use Fortran-ordered arrays": [[104, "use-fortran-ordered-arrays"]], "Installation": [[104, "installation"]], "PyClaw tutorial: Solve the acoustics equations": [[105, "pyclaw-tutorial-solve-the-acoustics-equations"]], "The Solver": [[105, "the-solver"]], "The domain": [[105, "the-domain"]], "Initial condition": [[105, "initial-condition"]], "Problem-specific parameters": [[105, "problem-specific-parameters"]], "The controller": [[105, "the-controller"]], "Pyclaw Utility Module": [[106, "pyclaw-utility-module"]], "pyclaw.util": [[106, "module-clawpack.pyclaw.util"]], "Python Hints": [[107, "python-hints"]], "Dropping support for Python 2.7": [[107, "dropping-support-for-python-2-7"]], "References and tutorials": [[107, "references-and-tutorials"]], "Notebooks": [[107, "notebooks"]], "Python path": [[108, "python-path"]], "whichclaw.py": [[108, "whichclaw-py"]], "Which version was imported?": [[108, "which-version-was-imported"]], "sys.path": [[108, "sys-path"]], "easy-install.pth": [[108, "easy-install-pth"]], "PYTHONPATH": [[108, "pythonpath"], [141, "pythonpath"]], "qinit default routines": [[109, "qinit-default-routines"]], "qinit routine in GeoClaw": [[109, "qinit-routine-in-geoclaw"]], "Quick start guide for storm surge modeling": [[110, "quick-start-guide-for-storm-surge-modeling"]], "Quick start guide for tsunami modeling": [[111, "quick-start-guide-for-tsunami-modeling"]], "AMR refinement criteria": [[112, "amr-refinement-criteria"]], "Flagging criteria": [[112, "flagging-criteria"]], "flag2refine": [[112, "flag2refine"]], "Richardson extrapolation": [[112, "richardson-extrapolation"]], "Specifying AMR regions": [[112, "specifying-amr-regions"]], "Implementation": [[112, "implementation"]], "Flagging criteria in GeoClaw": [[112, "flagging-criteria-in-geoclaw"]], "Regression testing": [[113, "regression-testing"]], "Running the tests": [[113, "running-the-tests"], [113, "id2"]], "Fortran codes": [[113, "fortran-codes"]], "Travis continuous integration": [[113, "travis-continuous-integration"]], "Diff tools for checking test output": [[113, "diff-tools-for-checking-test-output"]], "chardiff tool for line-by-line comparison of output files": [[113, "chardiff-tool-for-line-by-line-comparison-of-output-files"]], "imagediff tool for pixel comparison of plots": [[113, "imagediff-tool-for-pixel-comparison-of-plots"]], "Running and writing tests in PyClaw": [[113, "running-and-writing-tests-in-pyclaw"]], "Running serial tests simultaneously": [[113, "running-serial-tests-simultaneously"]], "Running a specific test": [[113, "running-a-specific-test"]], "Doctests": [[113, "doctests"]], "Writing New Tests": [[113, "writing-new-tests"]], "v5.0.0 release notes": [[114, "v5-0-0-release-notes"]], "Changes to classic, riemann, amrclaw, geoclaw, visclaw": [[114, "changes-to-classic-riemann-amrclaw-geoclaw-visclaw"]], "v5.1.0 release notes": [[115, "v5-1-0-release-notes"]], "v5.2.0 release notes": [[116, "v5-2-0-release-notes"]], "v5.2.1 release notes": [[117, "v5-2-1-release-notes"]], "v5.2.2 release notes": [[118, "v5-2-2-release-notes"]], "v5.3.0 release notes": [[119, "v5-3-0-release-notes"]], "v5.3.1 release notes": [[120, "v5-3-1-release-notes"]], "v5.4.0 release notes": [[121, "v5-4-0-release-notes"]], "Global changes": [[121, "global-changes"]], "v5.4.1 release notes": [[122, "v5-4-1-release-notes"]], "Changes to documentation": [[122, "changes-to-documentation"], [123, "changes-to-documentation"]], "v5.5.0 release notes": [[123, "v5-5-0-release-notes"]], "v5.6.0 release notes": [[124, "v5-6-0-release-notes"]], "v5.6.1 release notes": [[125, "v5-6-1-release-notes"]], "v5.7.0 release notes": [[126, "v5-7-0-release-notes"]], "Python support": [[126, "python-support"]], "v5.7.1 release notes": [[127, "v5-7-1-release-notes"]], "v5.8.0 release notes": [[128, "v5-8-0-release-notes"]], "v5.8.1 release notes": [[129, "v5-8-1-release-notes"]], "v5.8.2 release notes": [[130, "v5-8-2-release-notes"]], "v5.9.0 release notes": [[131, "v5-9-0-release-notes"]], "v5.9.1 release notes": [[132, "v5-9-1-release-notes"]], "Releases of Clawpack and release notes": [[133, "releases-of-clawpack-and-release-notes"]], "Other notes:": [[133, "other-notes"]], "Releases:": [[133, "id1"]], "Clawpack 4.x": [[133, "clawpack-4-x"]], "Checkpointing and restarting": [[134, "checkpointing-and-restarting"]], "Checkpointing a computation": [[134, "checkpointing-a-computation"]], "Restarting a computation": [[134, "restarting-a-computation"]], "Modifying the Makefile for a restart": [[134, "modifying-the-makefile-for-a-restart"]], "Output files after a restart": [[134, "output-files-after-a-restart"]], "Riemann solvers": [[135, "riemann-solvers"]], "One-dimensional Riemann solver": [[135, "one-dimensional-riemann-solver"]], "Pointwise Riemann solvers": [[135, "pointwise-riemann-solvers"]], "f-wave Riemann solvers": [[135, "f-wave-riemann-solvers"]], "2D Riemann solvers": [[135, "d-riemann-solvers"]], "Using a custom solver": [[135, "using-a-custom-solver"]], "Adding a solver to the Riemann repository": [[135, "adding-a-solver-to-the-riemann-repository"]], "Shallow water Riemann solvers in Clawpack": [[136, "shallow-water-riemann-solvers-in-clawpack"]], "One dimension": [[136, "one-dimension"]], "Two dimensions": [[136, "two-dimensions"]], "Layered shallow water equations": [[136, "layered-shallow-water-equations"]], "Potentially useful contributions (what\u2019s missing)": [[136, "potentially-useful-contributions-whats-missing"]], "Demonstrations": [[136, "demonstrations"]], "Roe": [[136, "roe"]], "HLL": [[136, "hll"]], "Ruled Rectangles": [[137, "ruled-rectangles"]], "Relation to convex polygons": [[137, "relation-to-convex-polygons"]], "Other attributes and methods": [[137, "other-attributes-and-methods"]], "ds": [[137, "ds"]], "slu": [[137, "slu"]], "bounding_box": [[137, "bounding-box"]], "mask_outside": [[137, "mask-outside"]], "read and write, and instantiating from a file": [[137, "read-and-write-and-instantiating-from-a-file"]], "make_kml": [[137, "make-kml"]], "A GeoClaw AMR flag region": [[137, "a-geoclaw-amr-flag-region"]], "A simple rectangle": [[137, "a-simple-rectangle"]], "Defining a Ruled Rectangle covering selected cells": [[137, "defining-a-ruled-rectangle-covering-selected-cells"]], "Example covering the continental shelf": [[137, "example-covering-the-continental-shelf"]], "Setting sea_level": [[138, "setting-sea-level"]], "Set Eta Init \u2013 spatially varying initial surface elevation": [[139, "set-eta-init-spatially-varying-initial-surface-elevation"]], "Default behavior, adjusting sea level by seismic deformation": [[139, "default-behavior-adjusting-sea-level-by-seismic-deformation"]], "Other use cases": [[139, "other-use-cases"]], "setaux default routines": [[140, "setaux-default-routines"]], "setaux routine in GeoClaw": [[140, "setaux-routine-in-geoclaw"]], "Set environment variables": [[141, "set-environment-variables"]], "CLAW": [[141, "claw"]], "FC": [[141, "fc"]], "Using setplot.py to specify the desired plots": [[142, "using-setplot-py-to-specify-the-desired-plots"]], "Plotting Data Objects": [[142, "plotting-data-objects"]], "Overview": [[142, "overview"]], "Specifying classic run-time parameters in setrun.py": [[143, "specifying-classic-run-time-parameters-in-setrun-py"]], "Input": [[143, "input"], [144, "input"]], "Output": [[143, "output"], [144, "output"]], "Run-time parameters": [[143, "run-time-parameters"], [144, "run-time-parameters"]], "Specifying AMRClaw run-time parameters in setrun.py": [[144, "specifying-amrclaw-run-time-parameters-in-setrun-py"]], "Special AMR parameters": [[144, "special-amr-parameters"]], "Debugging flags for additional printing": [[144, "debugging-flags-for-additional-printing"]], "Sample setrun.py module for AMRClaw": [[145, "sample-setrun-py-module-for-amrclaw"]], "Specifying GeoClaw parameters in setrun.py": [[146, "specifying-geoclaw-parameters-in-setrun-py"]], "Additional AMR parameters": [[146, "additional-amr-parameters"]], "General geo parameters": [[146, "general-geo-parameters"]], "Topography data file parameters": [[146, "topography-data-file-parameters"]], "qinit data file parameters": [[146, "qinit-data-file-parameters"]], "Force some cells to be initially dry": [[146, "force-some-cells-to-be-initially-dry"]], "Adjust sea level in some regions": [[146, "adjust-sea-level-in-some-regions"]], "AMR refinement region parameters": [[146, "amr-refinement-region-parameters"]], "Deprecated Fixedgrid output parameters": [[146, "deprecated-fixedgrid-output-parameters"]], "Fixed grid maximum monitoring / arrival times": [[146, "fixed-grid-maximum-monitoring-arrival-times"]], "Storm Specification Data": [[146, "storm-specification-data"]], "Sample setrun.py module for classic Clawpack": [[147, "sample-setrun-py-module-for-classic-clawpack"]], "Saving and sharing results": [[148, "saving-and-sharing-results"]], "Making webpages of plots": [[148, "making-webpages-of-plots"]], "Sharing your results": [[148, "sharing-your-results"]], "Jupyter notebooks": [[148, "jupyter-notebooks"]], "Source terms for shallow water on the sphere": [[149, "source-terms-for-shallow-water-on-the-sphere"]], "Compiling the Sphinx documentation locally": [[150, "compiling-the-sphinx-documentation-locally"]], "src1d default routines": [[151, "src1d-default-routines"]], "src1d routine in GeoClaw": [[151, "src1d-routine-in-geoclaw"]], "src default routines": [[152, "src-default-routines"]], "src routine in GeoClaw": [[152, "src-routine-in-geoclaw"]], "Storm Specification Class and Tools": [[153, "storm-specification-class-and-tools"]], "Sources for Storm Surge Data": [[154, "sources-for-storm-surge-data"]], "Timing Statistics": [[156, "timing-statistics"]], "Topography data": [[157, "topography-data"]], "Downloading topography files": [[157, "downloading-topography-files"]], "NetCDF format": [[157, "netcdf-format"]], "Topography displacement files": [[157, "topography-displacement-files"]], "qinit data file": [[157, "qinit-data-file"]], "Python tools for working with topo and dtopo": [[158, "python-tools-for-working-with-topo-and-dtopo"]], "topotools module for working with topography data": [[159, "topotools-module-for-working-with-topography-data"]], "Troubleshooting Installation": [[160, "troubleshooting-installation"]], "Troubleshooting Fortran:": [[160, "troubleshooting-fortran"]], "Setting the Fortran compiler to be used by f2py (pip)": [[160, "setting-the-fortran-compiler-to-be-used-by-f2py-pip"]], "Trouble compiling Fortran code at the command line": [[160, "trouble-compiling-fortran-code-at-the-command-line"]], "Trouble running \u201cmake .exe\u201d": [[160, "trouble-running-make-exe"]], "Trouble running \u201cmake .data\u201d": [[160, "trouble-running-make-data"]], "Trouble running \u201cmake .output\u201d": [[160, "trouble-running-make-output"]], "Trouble running \u201cmake .plots\u201d": [[160, "trouble-running-make-plots"]], "Some sources of tsunami data": [[161, "some-sources-of-tsunami-data"]], "Topography / bathymetry": [[161, "topography-bathymetry"]], "Earthquake source models": [[161, "earthquake-source-models"]], "DART buoy data": [[161, "dart-buoy-data"]], "Tide gauges": [[161, "tide-gauges"]], "User files required for the Fortran code": [[162, "user-files-required-for-the-fortran-code"]], "Specifying the initial conditions": [[162, "specifying-the-initial-conditions"]], "Specifying the Riemann solver": [[162, "specifying-the-riemann-solver"]], "Specifying boundary conditions": [[162, "specifying-boundary-conditions"]], "Specifying problem-specific data": [[162, "specifying-problem-specific-data"]], "Specifying spatially-varying data using setaux": [[162, "specifying-spatially-varying-data-using-setaux"]], "Using b4step for work to be done before each time step": [[162, "using-b4step-for-work-to-be-done-before-each-time-step"]], "Using src for source terms": [[162, "using-src-for-source-terms"]], "Using src1d for source terms with AMRClaw": [[162, "using-src1d-for-source-terms-with-amrclaw"]], "Plotting with VisIt": [[163, "plotting-with-visit"]], "Clawpack Virtual Machine": [[164, "clawpack-virtual-machine"]], "Wave-propagation algorithms": [[165, "wave-propagation-algorithms"]], "One space dimension": [[165, "one-space-dimension"]], "Godunov\u2019s method": [[165, "godunov-s-method"]], "High-resolution methods": [[165, "high-resolution-methods"]], "f-wave formulation": [[165, "f-wave-formulation"]], "Capacity functions": [[165, "capacity-functions"]], "Source terms": [[165, "source-terms"]]}, "indexentries": {"clawplotaxes (built-in class)": [[0, "ClawPlotAxes"]], "gethandle()": [[0, "gethandle"], [2, "gethandle"], [3, "gethandle"]], "new_plotitem()": [[0, "new_plotitem"]], "clawplotdata (built-in class)": [[1, "ClawPlotData"]], "clearfigures()": [[1, "clearfigures"]], "clearframes()": [[1, "clearframes"]], "getaxes()": [[1, "getaxes"]], "getfigure()": [[1, "getfigure"]], "getframe()": [[1, "getframe"], [3, "getframe"]], "getitem()": [[1, "getitem"]], "iplotclaw()": [[1, "iplotclaw"]], "new_plotfigure()": [[1, "new_plotfigure"]], "plotframe()": [[1, "plotframe"]], "printframes()": [[1, "printframes"]], "showitems()": [[1, "showitems"]], "clawplotfigure (built-in class)": [[2, "ClawPlotFigure"]], "new_plotaxes()": [[2, "new_plotaxes"]], "clawplotitem (built-in class)": [[3, "ClawPlotItem"]], "csvfault (class in clawpack.geoclaw.dtopotools)": [[30, "clawpack.geoclaw.dtopotools.CSVFault"]], "dtopography (class in clawpack.geoclaw.dtopotools)": [[30, "clawpack.geoclaw.dtopotools.DTopography"]], "fault (class in clawpack.geoclaw.dtopotools)": [[30, "clawpack.geoclaw.dtopotools.Fault"]], "mo() (clawpack.geoclaw.dtopotools.fault method)": [[30, "clawpack.geoclaw.dtopotools.Fault.Mo"]], "mo() (clawpack.geoclaw.dtopotools.subfault method)": [[30, "clawpack.geoclaw.dtopotools.SubFault.Mo"]], "mw() (clawpack.geoclaw.dtopotools.fault method)": [[30, "clawpack.geoclaw.dtopotools.Fault.Mw"]], "mw() (in module clawpack.geoclaw.dtopotools)": [[30, "clawpack.geoclaw.dtopotools.Mw"]], "siftfault (class in clawpack.geoclaw.dtopotools)": [[30, "clawpack.geoclaw.dtopotools.SiftFault"]], "subfault (class in clawpack.geoclaw.dtopotools)": [[30, "clawpack.geoclaw.dtopotools.SubFault"]], "subdividedplanefault (class in clawpack.geoclaw.dtopotools)": [[30, "clawpack.geoclaw.dtopotools.SubdividedPlaneFault"]], "tensorproductfault (class in clawpack.geoclaw.dtopotools)": [[30, "clawpack.geoclaw.dtopotools.TensorProductFault"]], "ucsbfault (class in clawpack.geoclaw.dtopotools)": [[30, "clawpack.geoclaw.dtopotools.UCSBFault"]], "calculate_geometry() (clawpack.geoclaw.dtopotools.subfault method)": [[30, "clawpack.geoclaw.dtopotools.SubFault.calculate_geometry"]], "calculate_geometry_triangles() (clawpack.geoclaw.dtopotools.subfault method)": [[30, "clawpack.geoclaw.dtopotools.SubFault.calculate_geometry_triangles"]], "centers (clawpack.geoclaw.dtopotools.subfault property)": [[30, "clawpack.geoclaw.dtopotools.SubFault.centers"]], "clawpack.geoclaw.dtopotools": [[30, "module-clawpack.geoclaw.dtopotools"]], "containing_rect() (clawpack.geoclaw.dtopotools.fault method)": [[30, "clawpack.geoclaw.dtopotools.Fault.containing_rect"]], "convert_to_standard_units() (clawpack.geoclaw.dtopotools.subfault method)": 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"clawpack.geoclaw.dtopotools.DTopography.plot_dZ_contours"]], "plot_dz_contours() (in module clawpack.geoclaw.dtopotools)": [[30, "clawpack.geoclaw.dtopotools.plot_dZ_contours"]], "plot_subfaults() (clawpack.geoclaw.dtopotools.fault method)": [[30, "clawpack.geoclaw.dtopotools.Fault.plot_subfaults"]], "plot_subfaults_depth() (clawpack.geoclaw.dtopotools.fault method)": [[30, "clawpack.geoclaw.dtopotools.Fault.plot_subfaults_depth"]], "rake (clawpack.geoclaw.dtopotools.subfault attribute)": [[30, "clawpack.geoclaw.dtopotools.SubFault.rake"]], "read() (clawpack.geoclaw.dtopotools.csvfault method)": [[30, "clawpack.geoclaw.dtopotools.CSVFault.read"]], "read() (clawpack.geoclaw.dtopotools.dtopography method)": [[30, "clawpack.geoclaw.dtopotools.DTopography.read"]], "read() (clawpack.geoclaw.dtopotools.fault method)": [[30, "clawpack.geoclaw.dtopotools.Fault.read"]], "read() (clawpack.geoclaw.dtopotools.ucsbfault method)": [[30, "clawpack.geoclaw.dtopotools.UCSBFault.read"]], "rise_fraction() (in module clawpack.geoclaw.dtopotools)": [[30, "clawpack.geoclaw.dtopotools.rise_fraction"]], "rise_shape (clawpack.geoclaw.dtopotools.subfault attribute)": [[30, "clawpack.geoclaw.dtopotools.SubFault.rise_shape"]], "rise_time (clawpack.geoclaw.dtopotools.subfault attribute)": [[30, "clawpack.geoclaw.dtopotools.SubFault.rise_time"]], "rise_time_starting (clawpack.geoclaw.dtopotools.subfault attribute)": [[30, "clawpack.geoclaw.dtopotools.SubFault.rise_time_starting"]], "rupture_time (clawpack.geoclaw.dtopotools.subfault attribute)": [[30, "clawpack.geoclaw.dtopotools.SubFault.rupture_time"]], "rupture_type (clawpack.geoclaw.dtopotools.subfault attribute)": [[30, "clawpack.geoclaw.dtopotools.SubFault.rupture_type"]], "set_corners() (clawpack.geoclaw.dtopotools.subfault method)": [[30, "clawpack.geoclaw.dtopotools.SubFault.set_corners"]], "set_dynamic_slip() (clawpack.geoclaw.dtopotools.fault method)": [[30, "clawpack.geoclaw.dtopotools.Fault.set_dynamic_slip"]], 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"clawpack.geoclaw.fgout_tools.FGoutGrid.extent_centers"]], "extent_edges (clawpack.geoclaw.fgout_tools.fgoutgrid property)": [[35, "clawpack.geoclaw.fgout_tools.FGoutGrid.extent_edges"]], "get_as_array() (in module clawpack.geoclaw.fgout_tools)": [[35, "clawpack.geoclaw.fgout_tools.get_as_array"]], "h (clawpack.geoclaw.fgout_tools.fgoutframe property)": [[35, "clawpack.geoclaw.fgout_tools.FGoutFrame.h"]], "hss (clawpack.geoclaw.fgout_tools.fgoutframe property)": [[35, "clawpack.geoclaw.fgout_tools.FGoutFrame.hss"]], "hu (clawpack.geoclaw.fgout_tools.fgoutframe property)": [[35, "clawpack.geoclaw.fgout_tools.FGoutFrame.hu"]], "hv (clawpack.geoclaw.fgout_tools.fgoutframe property)": [[35, "clawpack.geoclaw.fgout_tools.FGoutFrame.hv"]], "make_fgout_fcn_xy() (in module clawpack.geoclaw.fgout_tools)": [[35, "clawpack.geoclaw.fgout_tools.make_fgout_fcn_xy"]], "make_fgout_fcn_xyt() (in module clawpack.geoclaw.fgout_tools)": [[35, "clawpack.geoclaw.fgout_tools.make_fgout_fcn_xyt"]], "print_netcdf_info() (in module clawpack.geoclaw.fgout_tools)": [[35, "clawpack.geoclaw.fgout_tools.print_netcdf_info"]], "read_fgout_grids_data() (clawpack.geoclaw.fgout_tools.fgoutgrid method)": [[35, "clawpack.geoclaw.fgout_tools.FGoutGrid.read_fgout_grids_data"]], "read_frame() (clawpack.geoclaw.fgout_tools.fgoutgrid method)": [[35, "clawpack.geoclaw.fgout_tools.FGoutGrid.read_frame"]], "read_netcdf() (in module clawpack.geoclaw.fgout_tools)": [[35, "clawpack.geoclaw.fgout_tools.read_netcdf"]], "read_netcdf_arrays() (in module clawpack.geoclaw.fgout_tools)": [[35, "clawpack.geoclaw.fgout_tools.read_netcdf_arrays"]], "s (clawpack.geoclaw.fgout_tools.fgoutframe property)": [[35, "clawpack.geoclaw.fgout_tools.FGoutFrame.s"]], "set_plotdata() (clawpack.geoclaw.fgout_tools.fgoutgrid method)": [[35, "clawpack.geoclaw.fgout_tools.FGoutGrid.set_plotdata"]], "u (clawpack.geoclaw.fgout_tools.fgoutframe property)": [[35, "clawpack.geoclaw.fgout_tools.FGoutFrame.u"]], "v 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module clawpack.geoclaw.kmltools)": [[60, "clawpack.geoclaw.kmltools.regions2kml"]], "topo2kml() (in module clawpack.geoclaw.kmltools)": [[60, "clawpack.geoclaw.kmltools.topo2kml"]], "topo2kmz() (in module clawpack.geoclaw.kmltools)": [[60, "clawpack.geoclaw.kmltools.topo2kmz"]], "controller (class in clawpack.pyclaw.controller)": [[88, "clawpack.pyclaw.controller.Controller"]], "f_file_name (clawpack.pyclaw.controller.controller attribute)": [[88, "clawpack.pyclaw.controller.Controller.F_file_name"]], "f_path (clawpack.pyclaw.controller.controller property)": [[88, "clawpack.pyclaw.controller.Controller.F_path"]], "check_validity() (clawpack.pyclaw.controller.controller method)": [[88, "clawpack.pyclaw.controller.Controller.check_validity"]], "compute_f (clawpack.pyclaw.controller.controller attribute)": [[88, "clawpack.pyclaw.controller.Controller.compute_F"]], "compute_p (clawpack.pyclaw.controller.controller attribute)": [[88, "clawpack.pyclaw.controller.Controller.compute_p"]], "file_prefix_p (clawpack.pyclaw.controller.controller attribute)": [[88, "clawpack.pyclaw.controller.Controller.file_prefix_p"]], "frames (clawpack.pyclaw.controller.controller attribute)": [[88, "clawpack.pyclaw.controller.Controller.frames"]], "keep_copy (clawpack.pyclaw.controller.controller attribute)": [[88, "clawpack.pyclaw.controller.Controller.keep_copy"]], "nstepout (clawpack.pyclaw.controller.controller attribute)": [[88, "clawpack.pyclaw.controller.Controller.nstepout"]], "num_output_times (clawpack.pyclaw.controller.controller attribute)": [[88, "clawpack.pyclaw.controller.Controller.num_output_times"]], "out_times (clawpack.pyclaw.controller.controller attribute)": [[88, "clawpack.pyclaw.controller.Controller.out_times"]], "outdir (clawpack.pyclaw.controller.controller attribute)": [[88, "clawpack.pyclaw.controller.Controller.outdir"]], "outdir_p (clawpack.pyclaw.controller.controller property)": [[88, "clawpack.pyclaw.controller.Controller.outdir_p"]], "output_file_prefix (clawpack.pyclaw.controller.controller attribute)": [[88, "clawpack.pyclaw.controller.Controller.output_file_prefix"]], "output_format (clawpack.pyclaw.controller.controller attribute)": [[88, "clawpack.pyclaw.controller.Controller.output_format"]], "output_options (clawpack.pyclaw.controller.controller attribute)": [[88, "clawpack.pyclaw.controller.Controller.output_options"]], "output_style (clawpack.pyclaw.controller.controller attribute)": [[88, "clawpack.pyclaw.controller.Controller.output_style"]], "overwrite (clawpack.pyclaw.controller.controller attribute)": [[88, "clawpack.pyclaw.controller.Controller.overwrite"]], "plot() (clawpack.pyclaw.controller.controller method)": [[88, "clawpack.pyclaw.controller.Controller.plot"]], "plotdata (clawpack.pyclaw.controller.controller attribute)": [[88, "clawpack.pyclaw.controller.Controller.plotdata"]], "run() (clawpack.pyclaw.controller.controller method)": [[88, "clawpack.pyclaw.controller.Controller.run"]], "rundir 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(clawpack.pyclaw.controller.controller attribute)": [[88, "clawpack.pyclaw.controller.Controller.write_aux_init"]], "xclawcmd (clawpack.pyclaw.controller.controller attribute)": [[88, "clawpack.pyclaw.controller.Controller.xclawcmd"]], "xclawerr (clawpack.pyclaw.controller.controller attribute)": [[88, "clawpack.pyclaw.controller.Controller.xclawerr"]], "xclawout (clawpack.pyclaw.controller.controller attribute)": [[88, "clawpack.pyclaw.controller.Controller.xclawout"]], "xdir (clawpack.pyclaw.controller.controller attribute)": [[88, "clawpack.pyclaw.controller.Controller.xdir"]], "arora_roe() (in module clawpack.pyclaw.limiters.tvd)": [[89, "clawpack.pyclaw.limiters.tvd.arora_roe"]], "beta_limiter() (in module clawpack.pyclaw.limiters.tvd)": [[89, "clawpack.pyclaw.limiters.tvd.beta_limiter"]], "cada_torrilhon_limiter() (in module clawpack.pyclaw.limiters.tvd)": [[89, "clawpack.pyclaw.limiters.tvd.cada_torrilhon_limiter"]], "cada_torrilhon_limiter_nonlinear() (in module 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"clawpack.pyclaw.geometry.Grid.gauge_dir_name"]], "gauge_file_names (clawpack.pyclaw.geometry.grid attribute)": [[91, "clawpack.pyclaw.geometry.Grid.gauge_file_names"]], "gauge_files (clawpack.pyclaw.geometry.grid attribute)": [[91, "clawpack.pyclaw.geometry.Grid.gauge_files"]], "gauges (clawpack.pyclaw.geometry.grid attribute)": [[91, "clawpack.pyclaw.geometry.Grid.gauges"]], "get_dim_attribute() (clawpack.pyclaw.geometry.grid method)": [[91, "clawpack.pyclaw.geometry.Grid.get_dim_attribute"]], "get_dim_attribute() (clawpack.pyclaw.geometry.patch method)": [[91, "clawpack.pyclaw.geometry.Patch.get_dim_attribute"]], "grid (clawpack.pyclaw.geometry.domain property)": [[91, "clawpack.pyclaw.geometry.Domain.grid"]], "kernel_language (clawpack.petclaw.geometry.domain attribute)": [[91, "clawpack.petclaw.geometry.Domain.kernel_language"]], "level (clawpack.pyclaw.geometry.patch attribute)": [[91, "clawpack.pyclaw.geometry.Patch.level"]], "lower_global (clawpack.pyclaw.geometry.patch property)": [[91, "clawpack.pyclaw.geometry.Patch.lower_global"]], "mthlim (clawpack.petclaw.geometry.domain attribute)": [[91, "clawpack.petclaw.geometry.Domain.mthlim"]], "name (clawpack.pyclaw.geometry.patch property)": [[91, "clawpack.pyclaw.geometry.Patch.name"]], "nodes (clawpack.pyclaw.geometry.dimension property)": [[91, "clawpack.pyclaw.geometry.Dimension.nodes"]], "nodes_with_ghost() (clawpack.pyclaw.geometry.dimension method)": [[91, "clawpack.pyclaw.geometry.Dimension.nodes_with_ghost"]], "num_cells_global (clawpack.pyclaw.geometry.patch property)": [[91, "clawpack.pyclaw.geometry.Patch.num_cells_global"]], "num_dim (clawpack.pyclaw.geometry.domain property)": [[91, "clawpack.pyclaw.geometry.Domain.num_dim"]], "num_dim (clawpack.pyclaw.geometry.grid property)": [[91, "clawpack.pyclaw.geometry.Grid.num_dim"]], "num_dim (clawpack.pyclaw.geometry.patch property)": [[91, "clawpack.pyclaw.geometry.Patch.num_dim"]], "order (clawpack.petclaw.geometry.domain attribute)": [[91, 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"clawpack.pyclaw.fileio.ascii.read_array"]], "read_patch_header() (in module clawpack.pyclaw.fileio.ascii)": [[94, "clawpack.pyclaw.fileio.ascii.read_patch_header"]], "read_t() (in module clawpack.pyclaw.fileio.ascii)": [[94, "clawpack.pyclaw.fileio.ascii.read_t"]], "write() (in module clawpack.pyclaw.fileio.ascii)": [[94, "clawpack.pyclaw.fileio.ascii.write"]], "write() (in module clawpack.pyclaw.fileio.netcdf)": [[94, "clawpack.pyclaw.fileio.netcdf.write"]], "write_array() (in module clawpack.pyclaw.fileio.ascii)": [[94, "clawpack.pyclaw.fileio.ascii.write_array"]], "acoustics_1d() (in module clawpack.riemann.acoustics_1d_py)": [[99, "clawpack.riemann.acoustics_1D_py.acoustics_1D"]], "advection_1d() (in module clawpack.riemann.advection_1d_py)": [[99, "clawpack.riemann.advection_1D_py.advection_1D"]], "burgers_1d() (in module clawpack.riemann.burgers_1d_py)": [[99, "clawpack.riemann.burgers_1D_py.burgers_1D"]], "clawpack.riemann.acoustics_1d_py": [[99, "module-clawpack.riemann.acoustics_1D_py"]], "clawpack.riemann.advection_1d_py": [[99, "module-clawpack.riemann.advection_1D_py"]], "clawpack.riemann.burgers_1d_py": [[99, "module-clawpack.riemann.burgers_1D_py"]], "clawpack.riemann.euler_1d_py": [[99, "module-clawpack.riemann.euler_1D_py"]], "clawpack.riemann.shallow_1d_py": [[99, "module-clawpack.riemann.shallow_1D_py"]], "euler_exact_1d() (in module clawpack.riemann.euler_1d_py)": [[99, "clawpack.riemann.euler_1D_py.euler_exact_1D"]], "euler_hll_1d() (in module clawpack.riemann.euler_1d_py)": [[99, "clawpack.riemann.euler_1D_py.euler_hll_1D"]], "euler_hllc_1d() (in module clawpack.riemann.euler_1d_py)": [[99, "clawpack.riemann.euler_1D_py.euler_hllc_1D"]], "euler_roe_1d() (in module clawpack.riemann.euler_1d_py)": [[99, "clawpack.riemann.euler_1D_py.euler_roe_1D"]], "shallow_exact_1d() (in module clawpack.riemann.shallow_1d_py)": [[99, "clawpack.riemann.shallow_1D_py.shallow_exact_1D"]], "shallow_fwave_1d() (in module 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(clawpack.pyclaw.solution.solution property)": [[100, "clawpack.pyclaw.solution.Solution.start_frame"]], "state (clawpack.pyclaw.solution.solution property)": [[100, "clawpack.pyclaw.solution.Solution.state"]], "write() (clawpack.pyclaw.solution.solution method)": [[100, "clawpack.pyclaw.solution.Solution.write"]], "clawsolver (class in clawpack.pyclaw.classic.solver)": [[101, "clawpack.pyclaw.classic.solver.ClawSolver"]], "sharpclawsolver (class in clawpack.pyclaw.sharpclaw.solver)": [[101, "clawpack.pyclaw.sharpclaw.solver.SharpClawSolver"]], "accept_reject_step() (clawpack.pyclaw.sharpclaw.solver.sharpclawsolver method)": [[101, "clawpack.pyclaw.sharpclaw.solver.SharpClawSolver.accept_reject_step"]], "aux_time_dep (clawpack.pyclaw.sharpclaw.solver.sharpclawsolver attribute)": [[101, "clawpack.pyclaw.sharpclaw.solver.SharpClawSolver.aux_time_dep"]], "call_before_step_each_stage (clawpack.pyclaw.sharpclaw.solver.sharpclawsolver attribute)": [[101, 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clawpack.geoclaw.topotools)": [[159, "clawpack.geoclaw.topotools.topo1writer"]], "topo2writer() (in module clawpack.geoclaw.topotools)": [[159, "clawpack.geoclaw.topotools.topo2writer"]], "topo3writer() (in module clawpack.geoclaw.topotools)": [[159, "clawpack.geoclaw.topotools.topo3writer"]], "write() (clawpack.geoclaw.topotools.topography method)": [[159, "clawpack.geoclaw.topotools.Topography.write"]]}}) \ No newline at end of file diff --git a/topotools_module.html b/topotools_module.html index bad7a438e..bb1aa40c9 100644 --- a/topotools_module.html +++ b/topotools_module.html @@ -136,7 +136,7 @@

Navigation

-class clawpack.geoclaw.topotools.Topography(path=None, topo_type=None, topo_func=None, unstructured=False)
+class clawpack.geoclaw.topotools.Topography(path=None, topo_func=None, topo_type=None, unstructured=False)

Base topography class.

A class representing a single topography file.

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a/v5.7.x/fgmax_tools_module.html b/v5.7.x/fgmax_tools_module.html index da432daaf..d0c18c858 100644 --- a/v5.7.x/fgmax_tools_module.html +++ b/v5.7.x/fgmax_tools_module.html @@ -127,27 +127,8 @@

Navigation

-read_output(fgno=None, outdir=None, verbose=True, indexing='ij')
+read_output(fgno=None, outdir=None, verbose=True)

Read the GeoClaw results on the fgmax grid numbered fgno.

-
-
indexing=’ij’ gives backward compatibility.

X[i,j],Y[i,j] corresponds to point x[i],y[j]

-
-
-

Alternatively, can set indexing==’xy’ so that X,Y and other -arrays have same layout as topo arrays:

- -
-

X[j,i],Y[j,i] corresponds to point x[i],y[j]

-
- -

This is useful if you want to save the fgmax results in same format as -topofiles, using topotools.Topography.write().

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22, 27, 39, 84, 121, 138, 149, 151], "patchno": [3, 27], "out": [3, 16, 24, 26, 29, 30, 32, 35, 36, 39, 44, 45, 50, 52, 53, 54, 55, 56, 58, 59, 60, 61, 62, 67, 70, 77, 81, 83, 84, 86, 92, 93, 94, 95, 98, 103, 105, 106, 108, 111, 119, 121, 123, 124, 128, 130, 138, 140, 145, 151, 152], "lower": [3, 22, 30, 32, 33, 38, 53, 66, 72, 89, 94, 130, 132, 136, 138, 140, 149, 151, 153], "left": [3, 5, 10, 13, 16, 18, 25, 27, 32, 53, 72, 79, 89, 96, 97, 103, 120, 126, 127, 128, 131, 137, 149, 151, 153, 157], "corner": [3, 30, 32, 53, 70, 72, 89, 130, 136, 138, 140, 149, 151], "mappedgrid": [3, 67], "map": [3, 16, 29, 30, 39, 59, 66, 67, 77, 81, 84, 89, 91, 96, 110, 117, 121, 129, 151, 157], "mapc2p": [3, 25, 27, 67, 84, 89], "underli": [3, 51, 119], "other": [3, 4, 5, 6, 7, 9, 12, 13, 16, 20, 22, 27, 30, 33, 35, 36, 38, 44, 45, 46, 48, 51, 52, 53, 55, 57, 58, 61, 62, 64, 66, 67, 68, 70, 71, 72, 76, 79, 80, 81, 83, 84, 86, 89, 91, 93, 95, 96, 97, 100, 103, 105, 106, 110, 111, 113, 114, 116, 117, 119, 128, 131, 134, 135, 136, 139, 141, 145, 149, 151, 153, 154, 155], "requir": [3, 4, 16, 20, 22, 25, 27, 30, 32, 35, 36, 40, 45, 47, 48, 55, 56, 58, 66, 67, 70, 73, 76, 79, 80, 83, 84, 89, 91, 92, 95, 96, 99, 100, 101, 103, 104, 110, 111, 113, 114, 117, 119, 122, 124, 128, 129, 130, 135, 136, 137, 138, 139, 140, 145, 146, 149, 152, 155, 157], "depend": [3, 13, 16, 28, 29, 30, 32, 35, 36, 40, 41, 46, 48, 51, 56, 57, 62, 64, 67, 70, 77, 82, 91, 92, 97, 98, 99, 104, 106, 110, 121, 132, 139, 151, 152, 154, 157], "summar": [3, 28, 31, 56, 110, 112, 154], "plotstyl": [3, 44, 77, 135], "anyth": [3, 6, 28, 29, 56, 58, 63, 111, 121], "valid": [3, 48, 70, 86, 93, 98, 101, 119, 139, 145, 146, 151], "fmt": 3, "group": [3, 13, 24, 28, 30, 48, 88, 92, 94, 102, 118, 128], "solid": [3, 16, 51, 70, 96, 135, 136, 138, 140], "dash": [3, 94], "o": [3, 5, 17, 38, 39, 40, 57, 66, 77, 80, 81, 84, 92, 93, 102, 105, 121, 138, 151, 154], "circl": [3, 47, 77], "bo": 3, "blue": [3, 11, 39, 44, 59, 66, 77, 130, 151], "though": [3, 39, 73, 145, 149], "color": [3, 30, 39, 51, 59, 66, 67, 76, 130, 135, 151], "also": [3, 4, 5, 6, 7, 8, 9, 11, 12, 16, 17, 18, 20, 22, 23, 24, 25, 28, 29, 30, 32, 33, 35, 36, 37, 38, 39, 41, 42, 44, 47, 48, 51, 52, 53, 54, 55, 56, 57, 58, 59, 62, 63, 66, 67, 68, 70, 71, 72, 73, 76, 77, 79, 83, 85, 86, 89, 91, 92, 93, 94, 96, 97, 98, 99, 100, 101, 102, 103, 104, 105, 106, 107, 108, 109, 110, 111, 113, 118, 119, 120, 121, 122, 123, 124, 125, 126, 127, 128, 129, 130, 131, 132, 134, 136, 138, 139, 140, 141, 143, 144, 145, 146, 147, 148, 149, 151, 152, 153, 154, 156, 157], "overrul": 3, "ani": [3, 4, 5, 6, 8, 13, 16, 18, 19, 20, 22, 27, 28, 29, 32, 35, 36, 37, 45, 48, 50, 51, 54, 55, 56, 58, 61, 62, 64, 66, 67, 69, 71, 72, 73, 77, 81, 87, 88, 89, 91, 92, 93, 94, 96, 98, 100, 104, 106, 109, 110, 111, 117, 121, 123, 127, 130, 131, 132, 135, 136, 137, 139, 145, 154, 157], "r": [3, 4, 6, 17, 44, 47, 52, 54, 66, 67, 69, 77, 83, 87, 94, 96, 128, 130, 135, 151, 157], "ff0000": [3, 59], "No": [3, 40, 51, 67, 89, 99, 128, 136, 139, 152], "extra": [3, 51, 129], "give": [3, 6, 9, 10, 13, 16, 24, 28, 30, 32, 33, 35, 36, 44, 52, 58, 59, 66, 70, 71, 72, 77, 79, 94, 95, 99, 111, 114, 118, 119, 123, 130, 136, 139, 149, 151, 153], "polygon": [3, 7, 38, 51, 59, 124, 151], "curv": [3, 44, 76, 130], "fill_between": 3, "describ": [3, 4, 5, 6, 7, 13, 14, 16, 19, 26, 28, 30, 31, 32, 35, 36, 38, 39, 44, 46, 47, 48, 51, 52, 54, 55, 59, 60, 62, 63, 66, 67, 70, 72, 73, 76, 77, 78, 89, 92, 98, 104, 108, 110, 111, 119, 122, 123, 128, 130, 131, 135, 136, 137, 139, 145, 146, 149, 151, 153, 154, 157], "abov": [3, 5, 13, 14, 16, 20, 28, 29, 32, 35, 36, 38, 39, 40, 41, 44, 48, 51, 53, 54, 55, 56, 58, 61, 63, 66, 70, 72, 77, 80, 81, 84, 93, 95, 100, 103, 104, 105, 110, 119, 121, 128, 130, 132, 134, 135, 136, 138, 139, 140, 145, 148, 149, 151, 154], "plot_var2": 3, "second": [3, 16, 30, 32, 36, 44, 47, 51, 55, 59, 67, 83, 89, 93, 99, 110, 113, 119, 127, 136, 139, 145, 147, 148, 151, 154, 157], "zero": [3, 16, 18, 30, 32, 39, 41, 59, 67, 83, 96, 97, 101, 103, 130, 131], "fill_wher": 3, "plotitem": [3, 27, 44, 77, 135], "mean": [3, 13, 22, 28, 32, 39, 44, 48, 52, 58, 67, 93, 94, 110, 128, 131, 136, 138, 140, 153], "map_2d_to_1d": 3, "In": [3, 5, 6, 8, 11, 12, 15, 16, 18, 19, 20, 22, 27, 30, 32, 38, 41, 44, 45, 48, 51, 52, 53, 54, 55, 56, 58, 59, 60, 62, 63, 66, 67, 68, 69, 70, 72, 77, 78, 79, 83, 84, 89, 92, 93, 94, 95, 96, 97, 99, 101, 104, 106, 107, 108, 110, 113, 114, 117, 118, 119, 121, 122, 127, 128, 130, 132, 133, 134, 136, 137, 139, 143, 144, 149, 151, 152, 154, 157], "about": [3, 5, 7, 13, 14, 16, 22, 25, 33, 35, 36, 40, 47, 48, 53, 55, 59, 62, 64, 67, 72, 78, 80, 83, 91, 94, 99, 106, 111, 118, 122, 124, 128, 135, 138, 139, 149, 152, 154, 157], "valu": [3, 5, 6, 7, 16, 20, 22, 27, 30, 33, 34, 35, 36, 38, 39, 41, 44, 45, 47, 49, 50, 51, 53, 59, 60, 62, 64, 66, 67, 70, 71, 72, 77, 84, 89, 91, 92, 93, 96, 97, 98, 99, 101, 103, 104, 110, 111, 113, 114, 116, 117, 119, 121, 123, 124, 127, 128, 130, 131, 132, 136, 137, 138, 139, 140, 145, 146, 149, 151, 152, 154, 157], "j": [3, 4, 5, 15, 17, 20, 22, 27, 33, 39, 52, 59, 66, 67, 72, 79, 91, 92, 110, 113, 114, 132, 133], "v": [3, 16, 25, 29, 30, 32, 47, 60, 63, 111, 118, 137, 149], "radiu": [3, 139, 145, 146, 151], "q0_vs_radiu": 3, "convert": [3, 22, 25, 30, 33, 42, 47, 51, 56, 58, 59, 62, 70, 84, 96, 104, 105, 121, 124, 136, 137, 145, 149, 153], "numpi": [3, 13, 30, 32, 39, 47, 66, 80, 82, 83, 84, 86, 89, 96, 101, 102, 103, 105, 111, 129, 130, 138, 151, 152], "sqrt": [3, 32, 64, 83, 96, 97, 103, 138], "q0": [3, 96], "work": [3, 5, 8, 13, 16, 19, 20, 22, 24, 25, 26, 28, 29, 32, 35, 36, 40, 45, 48, 51, 52, 53, 54, 55, 56, 57, 58, 59, 66, 67, 69, 70, 71, 77, 80, 81, 82, 83, 85, 86, 87, 91, 92, 93, 94, 97, 99, 100, 105, 106, 108, 109, 110, 111, 115, 116, 117, 118, 119, 120, 121, 124, 126, 128, 135, 136, 137, 139, 141, 146, 149, 152, 156], "symbol": [3, 67, 106], "best": [3, 4, 16, 22, 26, 28, 41, 51, 53, 55, 62, 69, 71, 76, 77, 92, 96, 108, 109, 110, 111, 121, 126, 128, 139, 142, 145, 149, 154], "descript": [3, 4, 6, 9, 22, 23, 25, 30, 59, 67, 70, 73, 76, 92, 104, 108, 110, 128, 129, 139, 145, 149, 157], "celledges_show": [3, 22], "draw": 3, "amr_celledges_show": 3, "some": [3, 4, 5, 6, 7, 8, 10, 12, 16, 17, 18, 19, 20, 21, 22, 23, 24, 25, 27, 28, 30, 32, 35, 36, 39, 41, 42, 44, 45, 46, 48, 49, 51, 52, 53, 54, 55, 56, 58, 63, 66, 70, 71, 72, 76, 78, 79, 81, 84, 85, 87, 91, 92, 93, 95, 96, 98, 100, 101, 102, 103, 105, 106, 108, 109, 110, 111, 113, 114, 115, 116, 117, 118, 119, 120, 121, 122, 123, 124, 125, 126, 128, 130, 131, 132, 135, 136, 137, 138, 139, 140, 141, 145, 146, 148, 149, 151, 154], "level": [3, 6, 7, 16, 23, 27, 29, 32, 38, 39, 44, 45, 46, 47, 48, 51, 54, 55, 56, 58, 67, 71, 72, 84, 86, 89, 92, 93, 99, 106, 107, 110, 111, 113, 114, 118, 119, 121, 124, 127, 130, 131, 134, 136, 137, 138, 139, 140, 148, 149, 151, 153, 154], "patchedges_show": [3, 22], "mostli": [3, 76, 124], "contour_level": [3, 151], "three": [3, 13, 17, 22, 30, 32, 48, 51, 63, 67, 70, 94, 98, 104, 111, 130, 136, 139, 149, 151, 154], "contour_nlevel": 3, "contour_min": 3, "float": [3, 30, 32, 44, 47, 59, 86, 89, 97, 101, 104, 136, 137, 139, 140, 145, 151], "minimum": [3, 32, 44, 51, 70, 103, 119, 139, 151], "contour_max": 3, "maximum": [3, 22, 30, 32, 33, 34, 45, 67, 99, 103, 110, 113, 114, 121, 124, 136, 137, 138, 140, 145, 146], "contour_color": 3, "specif": [3, 5, 12, 22, 28, 30, 44, 45, 47, 51, 52, 58, 61, 63, 64, 81, 82, 84, 86, 91, 92, 93, 97, 98, 104, 108, 119, 120, 121, 124, 135, 136, 137, 138, 140, 146, 149], "b": [3, 5, 17, 28, 30, 32, 33, 39, 44, 52, 54, 55, 64, 77, 99, 110, 117, 124, 130, 131, 132, 139, 151, 153], "0000ff": [3, 59], "colormap": [3, 30, 39, 46, 51, 66, 67, 76, 78, 118, 124, 151], "amr_contour_color": 3, "As": [3, 36, 39, 45, 48, 54, 55, 59, 83, 103, 105, 109, 113, 124, 128, 129, 132, 147, 154], "instead": [3, 13, 32, 35, 36, 39, 41, 44, 52, 54, 55, 57, 58, 62, 63, 68, 100, 101, 104, 106, 118, 119, 122, 127, 128, 129, 130, 134, 149, 151], "black": [3, 44], "subsequ": [3, 10, 67], "both": [3, 16, 28, 30, 33, 35, 36, 38, 39, 44, 48, 53, 63, 66, 67, 70, 72, 84, 92, 93, 94, 99, 100, 110, 111, 117, 118, 121, 124, 128, 129, 130, 132, 136, 138, 140, 143, 149, 154], "fine": [3, 18, 32, 33, 39, 54, 69, 73, 96, 110, 119, 130, 132, 136, 139, 149, 154], "coars": [3, 18, 32, 51, 110, 119, 136, 149, 154], "anoth": [3, 22, 39, 44, 51, 55, 57, 58, 59, 72, 76, 80, 88, 99, 102, 111, 121, 145, 154], "refin": [3, 4, 5, 7, 8, 17, 22, 45, 48, 51, 52, 53, 66, 67, 72, 73, 83, 119, 121, 122, 124, 130, 132, 135, 136, 137, 138, 148, 149, 154], "region": [3, 6, 7, 13, 16, 22, 32, 38, 39, 45, 48, 49, 51, 59, 64, 70, 73, 108, 121, 124, 131, 132, 137, 138, 149, 151], "lack": 3, "hidden": [3, 62, 77], "blank": [3, 33, 59, 145], "coarser": [3, 16, 53, 119, 132, 136, 137, 154], "easili": [3, 13, 28, 32, 51, 54, 67, 77, 84, 89, 100, 104, 105, 111, 124, 141], "contour_show": 3, "boolean": [3, 51, 66, 92, 97, 136, 137, 139], "most": [3, 20, 22, 27, 29, 32, 35, 36, 40, 41, 44, 48, 50, 51, 52, 53, 54, 57, 59, 62, 66, 67, 71, 73, 76, 77, 79, 81, 89, 93, 94, 99, 102, 103, 105, 110, 111, 118, 120, 126, 127, 128, 129, 130, 131, 135, 136, 137, 139, 142, 154], "commonli": [3, 67, 77, 79], "amr_contour_show": 3, "tupl": [3, 30, 47, 59, 70, 77, 89, 93, 151], "determin": [3, 5, 6, 30, 32, 39, 44, 45, 48, 50, 51, 54, 59, 70, 77, 87, 89, 92, 97, 101, 106, 110, 114, 118, 119, 127, 130, 131, 135, 136, 137, 139, 151, 154], "whether": [3, 6, 13, 16, 22, 47, 53, 60, 61, 62, 67, 81, 89, 92, 93, 97, 98, 99, 110, 111, 119, 128, 130, 136, 137, 139, 151], "view": [3, 4, 22, 35, 36, 44, 45, 51, 53, 54, 59, 72, 76, 78, 79, 83, 94, 100, 105, 117, 121, 141, 142], "finest": [3, 32, 39, 44, 121, 148, 151], "contour_kwarg": [3, 151], "pcolor_cmap": [3, 51], "pcolor_cmin": 3, "pcolor_cmax": 3, "rang": [3, 5, 13, 30, 44, 47, 51, 110, 113, 118, 129, 130], "thei": [3, 5, 6, 13, 16, 24, 27, 28, 30, 32, 38, 39, 44, 48, 51, 54, 55, 58, 59, 60, 63, 66, 67, 72, 76, 89, 96, 99, 104, 110, 111, 119, 132, 135, 139, 145, 149, 151, 154], "chosen": [3, 18, 29, 32, 38, 39, 51, 53, 66, 103, 110, 131, 137], "vari": [3, 15, 17, 25, 30, 39, 45, 53, 64, 96, 98, 117, 124, 128, 129, 131, 133, 157], "yield": 3, "veri": [3, 5, 16, 22, 48, 51, 55, 58, 59, 70, 77, 81, 84, 92, 93, 94, 95, 96, 99, 111, 114, 118, 130, 132, 136, 146, 149], "confus": [3, 53, 58, 106, 128], "pcolor_colorbar": 3, "colorbar": [3, 39, 59, 66, 121, 124, 130, 151], "ad": [3, 12, 16, 20, 22, 24, 25, 27, 29, 32, 34, 41, 44, 47, 53, 54, 55, 58, 59, 60, 64, 67, 70, 77, 82, 84, 87, 89, 90, 93, 94, 106, 107, 108, 110, 113, 114, 115, 116, 117, 118, 119, 120, 121, 122, 123, 124, 125, 127, 132, 136, 137, 139, 145, 148, 151, 155], "relat": [3, 7, 18, 22, 24, 54, 73, 97, 108, 120, 124, 131], "same": [3, 5, 6, 8, 13, 16, 22, 25, 28, 31, 32, 33, 39, 41, 44, 46, 47, 48, 51, 53, 55, 58, 59, 60, 62, 64, 66, 68, 70, 73, 76, 77, 78, 79, 83, 87, 89, 91, 92, 93, 96, 97, 99, 104, 105, 113, 114, 118, 119, 124, 127, 128, 130, 136, 137, 138, 139, 143, 149, 151, 154], "pre": [3, 13, 33, 55, 85, 92, 105], "pend": 3, "amr_": [3, 7], "whose": [3, 77, 84, 96, 97, 132, 136, 137, 151], "origin": [3, 6, 13, 16, 20, 28, 30, 34, 44, 52, 54, 66, 71, 72, 84, 99, 104, 113, 119, 127, 137, 138, 140, 151], "hand": [3, 5, 18, 19, 20, 64, 83, 111, 130], "higher": [3, 6, 32, 51, 89, 99, 100, 110, 124, 128, 130, 131, 132], "shorter": [3, 110, 151], "last": [3, 18, 27, 32, 55, 77, 83, 84, 96, 103, 118, 136, 145], "repeatedli": [3, 94, 100], "common": [3, 23, 28, 35, 36, 40, 41, 62, 63, 73, 76, 83, 97, 99, 101, 102, 119, 121, 124, 152, 154], "finer": [3, 7, 32, 51, 110, 113, 114, 130, 136, 137], "celledg": 3, "stand": [4, 18], "conserv": [4, 5, 6, 17, 93, 99, 101, 122, 129, 154, 157], "law": [4, 17, 59, 139, 157], "packag": [4, 25, 28, 29, 35, 36, 51, 55, 56, 57, 63, 73, 76, 80, 81, 83, 89, 91, 93, 95, 96, 98, 100, 103, 105, 106, 123, 124, 152, 155], "wa": [4, 5, 6, 14, 19, 20, 25, 29, 30, 32, 33, 39, 48, 50, 54, 55, 62, 64, 66, 67, 70, 77, 94, 98, 99, 101, 110, 111, 112, 113, 114, 115, 116, 117, 118, 119, 120, 121, 122, 123, 124, 125, 127, 130, 132, 139, 148, 149, 151], "initi": [4, 5, 7, 12, 13, 18, 22, 25, 30, 44, 45, 47, 48, 51, 55, 60, 63, 67, 70, 73, 79, 81, 82, 83, 84, 86, 87, 89, 90, 92, 93, 97, 98, 99, 101, 102, 104, 107, 110, 118, 121, 124, 128, 131, 136, 138, 139, 140, 145, 149, 151], "develop": [4, 6, 7, 12, 13, 18, 22, 23, 48, 52, 54, 57, 58, 61, 66, 67, 76, 80, 81, 84, 91, 96, 99, 100, 106, 108, 111, 121, 122, 124, 128, 131, 132, 138], "linear": [4, 5, 17, 30, 32, 51, 70, 77, 83, 87, 99, 122, 128, 129, 130], "nonlinear": [4, 5, 17, 48, 87, 128, 136, 157], "hyperbol": [4, 5, 6, 17, 42, 73, 84, 91, 96, 97, 103, 128, 136, 139, 154, 157], "system": [4, 16, 17, 23, 36, 37, 51, 52, 56, 58, 59, 63, 71, 72, 81, 91, 93, 94, 96, 97, 100, 103, 106, 111, 128, 136, 138, 140, 147, 154, 157], "focu": [4, 45], "high": [4, 17, 32, 48, 51, 66, 70, 73, 84, 91, 99, 128, 131, 132, 139, 153, 154], "resolut": [4, 6, 17, 30, 32, 39, 44, 70, 89, 99, 103, 104, 113, 117, 121, 122, 128, 131, 139, 149, 151, 153, 154], "godunov": [4, 89, 99, 136, 138, 140, 154], "method": [4, 5, 7, 17, 32, 38, 42, 44, 53, 66, 77, 79, 83, 86, 87, 89, 94, 98, 99, 104, 110, 111, 117, 128, 135, 136, 137, 138, 140, 145, 148, 149, 151, 154], "framework": [4, 55, 81, 84, 118, 119], "applic": [4, 6, 15, 16, 19, 20, 22, 23, 24, 28, 29, 32, 35, 36, 37, 41, 42, 45, 46, 55, 56, 58, 63, 66, 68, 71, 79, 88, 89, 90, 91, 93, 99, 104, 107, 109, 110, 111, 113, 116, 117, 119, 120, 121, 123, 124, 128, 130, 132, 133, 136, 139, 143, 144, 149, 151, 152, 154, 155], "finit": [4, 17, 32, 42, 53, 59, 66, 67, 70, 99, 124, 130, 148, 149, 154], "volum": [4, 17, 29, 32, 42, 53, 59, 66, 67, 91, 124, 130, 137, 148, 149, 154], "riemann": [4, 5, 8, 20, 22, 23, 28, 29, 45, 55, 56, 58, 63, 73, 81, 83, 89, 90, 99, 100, 101, 103, 106, 134, 136, 138, 140, 143, 144, 157], "solver": [4, 5, 6, 20, 22, 23, 25, 28, 45, 56, 58, 63, 81, 82, 86, 89, 90, 93, 101, 115, 117, 119, 120, 121, 122, 123, 124, 136, 138, 140, 143, 144, 157], "resolv": [4, 32, 51, 54, 108, 121, 132], "jump": [4, 5, 67, 79, 89, 99, 119, 136, 157], "discontinu": [4, 99, 157], "interfac": [4, 19, 22, 67, 81, 84, 87, 91, 92, 97, 99, 104, 128, 154, 155, 157], "grid": [4, 7, 17, 18, 19, 20, 22, 23, 25, 27, 28, 33, 38, 39, 44, 45, 46, 48, 51, 52, 59, 66, 67, 72, 73, 76, 81, 83, 91, 93, 94, 96, 97, 98, 99, 101, 103, 110, 111, 113, 114, 116, 117, 119, 120, 121, 124, 128, 129, 130, 131, 132, 136, 137, 138, 140, 146, 148, 149, 151, 153, 154, 157], "wave": [4, 5, 6, 16, 17, 25, 32, 39, 48, 51, 52, 70, 87, 89, 91, 96, 97, 99, 110, 117, 119, 120, 129, 130, 131, 136, 137, 138, 139, 140, 154], "propag": [4, 5, 6, 17, 25, 30, 48, 51, 52, 70, 89, 91, 99, 110, 119, 128], "neighbor": [4, 32, 39, 66, 110, 119, 132, 137, 138, 151], "formul": [4, 5, 48, 64, 128, 136], "allow": [4, 6, 13, 22, 27, 28, 29, 32, 38, 39, 44, 45, 47, 50, 51, 53, 54, 56, 58, 64, 66, 67, 70, 71, 73, 76, 77, 86, 92, 93, 99, 101, 104, 105, 106, 110, 111, 113, 114, 117, 118, 119, 120, 121, 123, 124, 128, 130, 136, 138, 139, 140, 141, 145, 149, 151, 153], "easi": [4, 6, 11, 29, 38, 58, 67, 80, 84, 93, 94, 95, 130, 141, 154], "extens": [4, 17, 22, 24, 28, 30, 48, 51, 54, 58, 63, 67, 84, 91, 92, 104, 119, 120, 136, 147, 151, 157], "problem": [4, 5, 7, 16, 17, 18, 20, 24, 25, 27, 28, 29, 35, 36, 39, 42, 45, 58, 62, 66, 67, 70, 73, 77, 80, 82, 83, 88, 90, 91, 94, 97, 99, 102, 106, 111, 113, 114, 116, 117, 120, 124, 128, 130, 132, 136, 138, 139, 140, 141, 148, 152], "algorithm": [4, 7, 25, 32, 38, 39, 45, 52, 83, 89, 91, 92, 99, 103, 110, 121, 128, 130, 136, 138, 140, 151], "brief": [4, 55, 129, 139], "subroutin": [4, 6, 9, 16, 22, 32, 63, 110, 117, 128, 136, 137, 148, 154, 157], "equat": [4, 5, 16, 17, 25, 35, 36, 45, 48, 60, 64, 77, 82, 83, 84, 86, 91, 92, 93, 96, 99, 100, 101, 114, 117, 119, 121, 122, 128, 136, 138, 139, 140, 149, 154, 157], "solv": [4, 5, 8, 16, 17, 20, 26, 35, 36, 48, 58, 60, 82, 84, 86, 89, 91, 96, 97, 100, 122, 128, 129, 136, 149, 154, 157], "adapt": [4, 7, 17, 30, 39, 52, 53, 66, 67, 73, 83, 110, 121, 124, 128, 130, 135, 136, 154], "mesh": [4, 7, 17, 33, 52, 66, 67, 73, 76, 83, 110, 124, 135, 136, 154], "includ": [4, 6, 13, 18, 21, 22, 23, 27, 28, 29, 30, 32, 35, 36, 38, 40, 41, 44, 48, 51, 53, 55, 56, 58, 59, 61, 63, 64, 66, 67, 68, 70, 71, 73, 76, 77, 79, 81, 83, 84, 88, 89, 91, 92, 93, 94, 95, 96, 97, 98, 99, 100, 101, 103, 105, 106, 108, 110, 111, 113, 119, 120, 121, 122, 123, 124, 125, 128, 129, 130, 136, 138, 139, 141, 142, 145, 146, 148, 149, 151, 154], "amrclaw": [4, 5, 6, 12, 15, 16, 19, 20, 22, 23, 24, 28, 36, 38, 39, 41, 44, 45, 46, 52, 55, 56, 57, 58, 60, 66, 67, 68, 71, 72, 73, 100, 106, 107, 110, 111, 127, 128, 130, 133, 134, 136, 139, 143, 144, 147, 148, 152], "detail": [4, 5, 10, 16, 22, 23, 25, 26, 28, 29, 30, 32, 35, 36, 38, 41, 46, 48, 51, 54, 56, 57, 58, 61, 62, 66, 67, 70, 73, 77, 81, 86, 87, 88, 89, 92, 93, 94, 95, 96, 97, 99, 109, 110, 111, 114, 119, 121, 128, 130, 135, 136, 139, 141, 145, 149, 152, 153, 154, 157], "content": [4, 6, 23, 51, 55, 73, 84, 139, 149, 154, 155], "routin": [4, 5, 6, 16, 20, 25, 27, 30, 32, 35, 36, 44, 45, 46, 51, 52, 62, 67, 68, 71, 72, 73, 76, 79, 81, 84, 86, 89, 92, 95, 96, 99, 101, 102, 105, 110, 113, 114, 117, 119, 121, 122, 124, 128, 132, 136, 138, 140, 145, 151, 152, 154, 155, 157], "special": [4, 7, 16, 45, 46, 51, 61, 73, 81, 105, 110, 130, 151], "depth": [4, 5, 16, 17, 22, 30, 32, 33, 39, 44, 45, 48, 64, 70, 76, 78, 129, 131, 132, 139, 149], "averag": [4, 6, 15, 17, 32, 39, 45, 48, 49, 53, 67, 97, 101, 114, 128, 132, 133, 149, 151, 154], "geophys": [4, 16, 17, 23, 45, 48, 73, 136], "flow": [4, 16, 17, 23, 32, 33, 45, 46, 48, 91, 108, 124, 128, 136, 139, 149, 154], "geoclaw": [4, 7, 12, 17, 23, 24, 28, 30, 32, 33, 34, 36, 38, 41, 44, 52, 53, 55, 56, 57, 58, 59, 60, 64, 66, 68, 70, 73, 76, 100, 106, 108, 109, 111, 127, 128, 129, 131, 132, 134, 136, 137, 145, 146, 147, 148, 149, 150, 151, 152, 153, 154], "parallel": [4, 22, 23, 44, 56, 71, 82, 88, 90, 91, 93, 96, 98, 100, 104, 110, 111, 119], "scale": [4, 30, 49, 51, 67, 73, 91, 92, 113, 119, 121, 139], "ten": [4, 73], "thousand": [4, 73], "core": [4, 12, 73, 111, 121], "wish": [4, 13, 14, 15, 22, 29, 35, 36, 48, 51, 56, 58, 67, 75, 76, 91, 96, 99, 100, 102, 106, 108, 110, 119, 133, 141, 143, 144, 152], "discrib": 4, "book": [4, 12, 17, 25, 29, 80, 98, 105, 128], "levequ": [4, 16, 17, 24, 30, 52, 73, 87, 89, 91, 99, 105, 128, 136, 154, 157], "fvmhp": [4, 12, 16, 17, 25, 73, 128, 136, 154, 157], "virtual": [4, 13, 25, 27, 101, 105], "were": [4, 6, 14, 18, 20, 32, 44, 54, 60, 63, 67, 68, 84, 110, 113, 119, 122, 130, 132, 149], "4": [4, 7, 8, 9, 13, 16, 17, 23, 25, 28, 30, 32, 33, 34, 36, 38, 39, 41, 42, 44, 45, 48, 51, 53, 54, 55, 62, 63, 64, 66, 67, 71, 76, 77, 79, 80, 90, 91, 92, 93, 94, 96, 97, 99, 100, 104, 106, 110, 111, 113, 118, 121, 127, 130, 136, 137, 138, 139, 140, 147, 148, 149, 151, 156], "3": [4, 6, 7, 15, 16, 20, 22, 24, 25, 30, 32, 33, 36, 38, 42, 44, 45, 51, 53, 55, 57, 58, 59, 64, 67, 70, 77, 79, 80, 83, 86, 87, 89, 92, 93, 94, 97, 98, 99, 101, 105, 106, 110, 119, 121, 124, 126, 128, 130, 133, 136, 137, 138, 139, 140, 147, 148, 149, 151, 154, 157], "pointer": [4, 16, 54, 70, 76, 79, 99, 104, 117], "code": [4, 5, 6, 7, 8, 12, 14, 16, 19, 20, 21, 22, 23, 24, 27, 29, 32, 33, 35, 36, 38, 40, 41, 42, 44, 45, 48, 50, 52, 53, 54, 56, 57, 61, 62, 63, 64, 68, 69, 70, 71, 72, 73, 75, 77, 79, 81, 83, 84, 89, 91, 92, 93, 94, 96, 99, 100, 103, 105, 106, 109, 112, 113, 114, 117, 118, 119, 120, 121, 122, 123, 124, 127, 128, 129, 130, 136, 138, 139, 140, 141, 145, 147, 148, 149], "bibliographi": [4, 25], "paper": [4, 5, 6, 16, 30, 45, 54, 87, 91], "distribut": [4, 12, 13, 29, 30, 54, 61, 70, 73, 80, 81, 99, 105, 124], "under": [4, 7, 22, 32, 37, 51, 52, 54, 56, 61, 63, 76, 81, 89, 111, 119, 121, 126], 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54, 61, 105, 108, 124, 125, 126, 128], "7": [4, 6, 14, 25, 29, 32, 38, 39, 44, 47, 54, 55, 56, 57, 58, 64, 66, 77, 80, 89, 100, 106, 110, 122, 123, 126, 130, 131, 132, 137, 138], "http": [4, 12, 13, 17, 24, 26, 28, 29, 30, 39, 43, 47, 51, 52, 54, 55, 56, 57, 58, 60, 61, 66, 68, 70, 80, 81, 84, 85, 92, 94, 96, 105, 106, 116, 118, 119, 120, 122, 123, 126, 129, 145, 151], "www": [4, 13, 17, 30, 39, 43, 45, 54, 60, 61, 66, 68, 81, 84, 89, 92, 94, 120, 122, 145, 151], "org": [4, 17, 43, 45, 52, 54, 55, 60, 61, 81, 84, 85, 89, 92, 94, 105, 106, 118, 120, 122, 151], "doi": [4, 17, 52, 55, 57, 124, 125, 126], "10": [4, 17, 30, 32, 39, 51, 52, 53, 55, 77, 83, 86, 89, 110, 118, 119, 121, 124, 125, 126, 130, 136, 137, 138, 140, 149], "5281": [4, 55, 124, 125, 126], "zenodo": [4, 57, 124, 125, 126], "4025432": [4, 125, 126], "here": [4, 13, 16, 29, 38, 39, 48, 55, 58, 59, 66, 73, 77, 79, 83, 86, 91, 92, 94, 96, 97, 102, 103, 106, 108, 110, 117, 128, 129, 130, 146, 151, 157], "bibtex": [4, 55], "misc": [4, 123, 125], "url": [4, 12, 17, 51, 55, 121, 122, 149, 151], "year": [4, 17, 22, 51, 59, 91, 112, 122, 145], "appropri": [4, 5, 6, 13, 16, 24, 28, 45, 48, 49, 51, 55, 56, 58, 59, 60, 64, 67, 68, 69, 71, 83, 86, 87, 88, 92, 94, 95, 96, 97, 98, 111, 123, 128, 131, 134, 136, 145, 154, 157], "releas": [4, 18, 22, 25, 28, 29, 43, 51, 56, 57, 58, 85, 91, 99, 100, 105], "refer": [4, 5, 20, 30, 32, 33, 35, 36, 38, 45, 46, 51, 62, 63, 67, 70, 83, 87, 89, 92, 93, 97, 99, 101, 106, 108, 121, 123, 127, 128, 130, 139, 145, 149, 151, 153, 154], "particular": [4, 6, 12, 20, 22, 28, 30, 32, 41, 44, 45, 46, 48, 51, 52, 55, 56, 61, 62, 63, 67, 77, 78, 80, 81, 83, 97, 98, 99, 101, 103, 108, 109, 110, 111, 114, 117, 118, 119, 120, 121, 123, 124, 135, 139, 145, 146, 157], "obtain": [4, 6, 12, 18, 32, 44, 46, 48, 58, 59, 92, 93, 94, 110, 128, 132, 139, 141, 149, 157], "your": [4, 6, 15, 16, 19, 20, 24, 25, 26, 35, 37, 41, 44, 53, 54, 55, 56, 57, 58, 68, 71, 76, 77, 79, 81, 82, 83, 84, 85, 88, 90, 91, 92, 93, 102, 103, 105, 106, 107, 108, 110, 111, 113, 121, 128, 133, 134, 143, 144, 149, 152, 154], "multipl": [4, 5, 6, 13, 23, 28, 32, 33, 39, 44, 56, 76, 83, 89, 92, 93, 104, 106, 111, 113, 119, 123, 127, 128, 145, 146], "past": [4, 21, 25, 54, 60, 66, 98, 119, 122, 126, 130, 131, 139], "17605": [4, 126], "osf": [4, 126], "io": [4, 54, 80, 93, 98, 126], "kmw6h": [4, 126], "recent": [4, 13, 22, 27, 30, 50, 54, 57, 62, 64, 71, 77, 79, 80, 118, 122, 123, 124, 125, 126, 128, 153], "articl": [4, 17, 91, 141], "m": [4, 17, 20, 22, 28, 30, 44, 47, 51, 52, 54, 55, 59, 66, 67, 70, 72, 84, 110, 116, 128, 130, 139, 151, 154, 157], "d": [4, 7, 17, 28, 30, 47, 51, 59, 88, 97, 106, 111, 128], "l": [4, 7, 17, 32, 40, 110, 128, 134, 138], "hadjimichael": [4, 17, 81], "2016": [4, 17, 24, 54], "build": [4, 17, 28, 29, 54, 55, 67, 84, 94, 104, 120, 130], "open": [4, 13, 17, 25, 28, 29, 30, 51, 59, 76, 81, 85, 89, 92, 104, 130, 134, 153, 155], "sourc": [4, 17, 23, 25, 28, 30, 41, 45, 51, 52, 54, 55, 56, 57, 58, 59, 61, 63, 64, 76, 81, 84, 88, 89, 90, 99, 100, 102, 103, 104, 108, 109, 111, 119, 120, 121, 129, 131, 136, 138, 139, 140, 142, 143, 144, 145, 149], "ecosystem": [4, 17], "pde": [4, 5, 17, 73, 91, 103, 136, 154], "peerj": [4, 17], "scienc": [4, 17, 81], "7717": [4, 17], "c": [4, 16, 17, 28, 29, 30, 41, 51, 57, 59, 61, 77, 81, 83, 84, 89, 91, 97, 102, 103, 128], "68": [4, 17], "mandli2016clawpack": [4, 17], "yianni": [4, 17, 81], "journal": [4, 17, 52, 91, 141], "e68": [4, 17], "publish": [4, 17, 54, 91], "inc": [4, 17, 67], "least": [4, 5, 6, 13, 18, 51, 59, 66, 67, 102, 110, 111, 118, 119, 136, 138, 149, 151], "regard": [4, 38, 118, 145], "click": [4, 12, 13, 18, 28, 51, 54, 111, 120, 126], "link": [4, 11, 13, 15, 17, 18, 19, 20, 24, 25, 28, 41, 42, 45, 51, 52, 53, 54, 55, 57, 59, 68, 105, 106, 107, 120, 126, 128, 129, 131, 133, 140, 143, 144, 149, 153], "classic": [4, 6, 12, 15, 16, 19, 20, 22, 23, 24, 28, 41, 42, 46, 55, 56, 57, 58, 63, 69, 71, 72, 73, 81, 83, 86, 88, 89, 90, 91, 92, 96, 106, 107, 111, 127, 128, 133, 134, 137, 139, 144, 152, 154], "2d": [4, 7, 8, 15, 16, 19, 22, 25, 27, 32, 38, 39, 45, 47, 52, 59, 67, 71, 76, 81, 83, 89, 91, 95, 99, 105, 107, 110, 117, 119, 120, 121, 122, 123, 129, 130, 132, 133, 136, 140, 143, 144, 151, 155, 157], "leveque97": [4, 17], "3d": [4, 7, 15, 22, 30, 67, 71, 76, 81, 91, 95, 99, 107, 110, 113, 115, 117, 118, 119, 122, 128, 130, 133, 136, 137, 143, 144, 155, 157], "langsethleveque00": [4, 17], "amr": [4, 7, 8, 16, 20, 23, 25, 27, 28, 32, 34, 38, 44, 45, 52, 59, 67, 72, 73, 76, 81, 89, 118, 120, 121, 122, 124, 132, 135, 136, 138, 140, 148, 154], "bergerleveque98": [4, 6, 7, 17], "f": [4, 5, 6, 16, 20, 22, 25, 27, 28, 31, 62, 63, 68, 72, 84, 86, 92, 93, 96, 97, 99, 101, 102, 104, 113, 117, 120, 121, 122, 129, 136, 137, 138, 140, 151, 152, 154], "balelevmitross02": [4, 17, 136, 157], "bergergeorgelevequemandli11": [4, 17], "levequegeorgeberg": [4, 17], "order": [4, 5, 6, 13, 16, 17, 29, 30, 32, 48, 53, 56, 58, 63, 66, 67, 70, 72, 73, 77, 79, 80, 81, 83, 86, 87, 89, 91, 92, 93, 95, 96, 99, 103, 104, 105, 106, 110, 117, 121, 128, 130, 132, 135, 136, 137, 138, 140, 145, 149, 151, 152, 154, 157], "sharpclaw": [4, 23, 25, 73, 81, 88, 90, 91, 96, 113, 128], "ketparlev13": [4, 17, 73, 91, 128], "ketchesonmandliet": [4, 17], "support": [4, 8, 13, 22, 38, 41, 48, 51, 58, 70, 81, 83, 84, 89, 92, 93, 95, 97, 99, 110, 117, 119, 120, 121, 122, 128, 130, 136, 145, 146, 149, 152, 155], "part": [4, 5, 22, 24, 30, 45, 48, 56, 58, 59, 60, 68, 81, 84, 94, 100, 101, 103, 105, 109, 111, 123, 139, 154], "nsf": 4, "grant": [4, 81], "dm": 4, "8657319": 4, "9204329": 4, "9303404": 4, "9505021": 4, "96226645": 4, "9803442": 4, "0106511": 4, "cm": [4, 30, 70, 77, 130], "0245206": 4, "0609661": 4, "0914942": 4, "1216732": 4, "ear": 4, "1331412": 4, "cmmi": 4, "1536198": 4, "doe": [4, 5, 11, 16, 20, 27, 28, 39, 40, 48, 51, 53, 54, 56, 67, 73, 77, 80, 89, 91, 98, 101, 104, 110, 111, 114, 119, 123, 127, 128, 129, 132, 145, 151, 152, 154], "de": [4, 17, 81, 91, 130], "fg06": 4, "93er25181": 4, "fg03": 4, "96er25292": 4, "fg02": 4, "88er25053": 4, "92er25139": 4, "00er2592": 4, "fc02": 4, "01er25474": 4, "afosr": 4, "f49620": 4, "94": 4, "0132": 4, "nih": 4, "5r01ar53652": 4, "onr": 4, "n00014": 4, "09": [4, 89, 97, 148], "0649": 4, "council": 4, "nfr": 4, "through": [4, 13, 28, 35, 36, 44, 48, 51, 66, 67, 73, 76, 84, 96, 101, 103, 104, 106, 109, 110], "program": [4, 46, 48, 63, 73, 105], "101039": 4, "420": 4, "scientif": [4, 17, 91, 94, 105], "divis": [4, 51], "nation": [4, 48, 145], "center": [4, 5, 27, 30, 32, 33, 39, 44, 51, 53, 59, 70, 83, 89, 96, 97, 103, 110, 121, 130, 132, 137, 138, 139, 145, 146, 149, 154], "atmospher": 4, "ncar": 4, "boe": 4, "professorship": 4, "founder": 4, "depart": [4, 145], "mathemat": 4, "comot": 4, "fellowship": 4, "king": [4, 81], "abdullah": [4, 81], "technologi": [4, 81], "contract": [4, 61, 81], "state": [4, 13, 17, 25, 28, 54, 70, 77, 83, 84, 86, 89, 91, 92, 93, 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77, 83, 89, 92, 94, 96, 98, 104, 106, 110, 111, 114, 117, 118, 119, 120, 121, 127, 130, 131, 139, 145, 149, 151, 152, 154, 157], "shift": [5, 30, 48, 53], "perform": [5, 6, 17, 18, 22, 27, 48, 51, 53, 71, 73, 76, 77, 86, 89, 92, 96, 99, 104, 111, 123, 127, 128, 134, 139, 147], "snapshot": [5, 28, 93, 122], "save": [5, 13, 25, 26, 33, 39, 50, 59, 72, 86, 90, 99, 118, 119, 121, 127, 146, 151], "space": [5, 6, 7, 16, 17, 30, 32, 33, 44, 51, 53, 70, 89, 93, 96, 110, 117, 127, 130, 136, 137, 138, 139, 140, 149, 151, 154], "interpol": [5, 6, 16, 18, 30, 33, 34, 39, 44, 45, 53, 59, 67, 70, 77, 119, 130, 131, 132, 139, 145, 146, 151], "regrid": [5, 10, 110, 113, 114, 119, 122, 123, 137, 138, 148], "davisleveque2018": [5, 17], "davis2018": [5, 17], "discuss": [5, 24, 28, 30, 48, 53, 56, 66, 70, 92, 103, 105, 106, 110, 119, 121, 128, 139, 157], "when": [5, 14, 15, 16, 20, 28, 29, 30, 32, 39, 40, 41, 44, 49, 50, 51, 53, 54, 55, 56, 58, 60, 64, 66, 67, 70, 71, 72, 73, 76, 77, 79, 83, 90, 92, 94, 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59, 70, 92, 105, 114, 115, 151], "small": [5, 16, 39, 44, 64, 66, 110, 111, 113, 118, 127, 136, 138, 139, 149, 151, 153], "sai": [5, 13, 16, 28, 59, 102, 110], "x_1": [5, 130], "x_2": [5, 130], "might": [5, 10, 13, 14, 16, 22, 28, 29, 35, 36, 37, 38, 39, 47, 51, 53, 54, 56, 57, 58, 63, 66, 67, 71, 77, 83, 93, 97, 105, 106, 108, 109, 110, 113, 136, 137, 149, 151, 153, 154], "box": [5, 30, 33, 51, 59, 130, 151], "interv": [5, 44, 47, 83, 103, 110, 130, 136, 139], "elsewher": [5, 24, 39, 130], "could": [5, 12, 13, 18, 27, 32, 35, 36, 39, 44, 53, 58, 60, 66, 70, 71, 77, 79, 83, 89, 93, 101, 102, 105, 106, 117, 130, 132, 137, 138, 139, 140, 151, 154], "sharpli": 5, "peak": 5, "gaussian": [5, 83, 103, 140], "locat": [5, 6, 7, 13, 30, 32, 46, 47, 51, 53, 55, 58, 60, 67, 72, 89, 93, 95, 97, 98, 104, 106, 108, 110, 118, 120, 131, 132, 145, 146, 151], "final": [5, 30, 41, 54, 60, 67, 70, 83, 86, 93, 103, 108, 113, 127, 129, 136, 138, 140, 151], "necessari": [5, 6, 13, 35, 36, 46, 48, 51, 54, 55, 56, 57, 58, 59, 67, 70, 72, 73, 79, 83, 84, 89, 92, 117, 119, 121, 127, 128, 135, 136, 149, 152, 154], "place": [5, 16, 20, 24, 28, 35, 36, 51, 54, 56, 58, 62, 63, 69, 93, 94, 96, 100, 106, 113, 119, 154], "earlier": [5, 20, 22, 30, 32, 38, 53, 70, 83, 96, 113, 120, 149, 151], "help": [5, 7, 9, 23, 24, 25, 28, 29, 39, 40, 49, 54, 58, 62, 76, 79, 91, 94, 100, 104, 111, 118, 124, 128, 141, 152], "identifi": [5, 35, 36, 39, 51, 66, 84, 110, 124, 145], "hat": 5, "given": [5, 30, 39, 47, 51, 53, 59, 64, 67, 70, 87, 94, 98, 99, 101, 104, 110, 130, 131, 132, 139, 149, 151, 154], "t_r": 5, "reach": [5, 110], "claw": [5, 6, 8, 11, 12, 13, 14, 15, 16, 19, 20, 22, 24, 28, 30, 32, 33, 35, 36, 37, 38, 40, 41, 44, 45, 47, 49, 50, 52, 54, 55, 56, 57, 58, 59, 62, 63, 67, 69, 70, 71, 78, 83, 86, 88, 91, 92, 93, 94, 100, 102, 106, 107, 108, 109, 110, 111, 113, 114, 116, 117, 120, 121, 123, 128, 132, 133, 138, 139, 140, 142, 143, 144, 147, 148, 149, 151, 152, 154, 155], "acoustics_1d_adjoint": 5, 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139, 140], "adjust": [5, 13, 20, 32, 33, 45, 59, 89, 93, 131, 136, 154], "principl": [5, 151, 154], "vanish": 5, "dure": [5, 22, 32, 39, 44, 59, 70, 73, 113, 131, 132, 138, 139, 140, 149], "integr": [5, 22, 53, 60, 81, 91, 93, 99, 113, 114, 118, 138, 140, 148, 149, 154], "qinit": [5, 20, 22, 39, 45, 62, 63, 84, 131, 132, 154], "setrun": [5, 6, 7, 8, 14, 16, 19, 20, 25, 32, 33, 35, 36, 38, 39, 40, 42, 45, 46, 48, 59, 60, 62, 64, 66, 72, 73, 77, 107, 108, 110, 113, 117, 118, 119, 122, 124, 127, 128, 131, 132, 145, 149, 152, 154], "clawdata": [5, 38, 113, 117, 127, 136, 137, 138, 139, 140], "tfinal": [5, 83, 86, 103, 127, 136, 138, 140], "via": [5, 13, 22, 23, 24, 28, 29, 30, 35, 36, 41, 42, 44, 46, 48, 51, 54, 55, 56, 57, 58, 60, 62, 66, 67, 70, 71, 73, 77, 80, 83, 89, 92, 95, 98, 100, 102, 106, 110, 111, 121, 124, 128, 130, 134, 141, 143, 144, 149, 151, 154], "num_output_tim": [5, 83, 86, 93, 127, 136, 138, 140], "larg": [5, 6, 12, 20, 35, 36, 39, 48, 51, 53, 54, 67, 71, 76, 91, 93, 94, 110, 111, 118, 127, 130, 132, 136, 151, 153], "frequent": [5, 20, 27, 102, 118], "enough": [5, 54, 66, 146, 148, 149], "them": [5, 13, 18, 22, 28, 29, 30, 32, 44, 51, 54, 56, 67, 68, 73, 81, 83, 88, 92, 93, 94, 96, 104, 108, 111, 114, 123, 130, 142, 145, 151, 154], "reason": [5, 48, 51, 59, 70, 71, 73, 94, 96, 110, 136], "output_format": [5, 86, 93, 136, 138, 140], "binari": [5, 41, 55, 57, 61, 68, 81, 92, 93, 95, 118, 127, 136, 138, 151, 155], "so": [5, 6, 8, 9, 13, 16, 18, 19, 22, 27, 28, 29, 30, 32, 33, 35, 36, 38, 39, 40, 41, 42, 44, 48, 49, 51, 52, 53, 54, 55, 56, 58, 59, 60, 62, 63, 66, 67, 70, 71, 72, 73, 76, 77, 80, 83, 84, 85, 92, 93, 96, 101, 103, 104, 108, 110, 111, 113, 114, 118, 119, 120, 121, 122, 123, 124, 128, 130, 131, 132, 135, 136, 137, 138, 145, 148, 149, 151, 153, 154, 155], "manner": [5, 39, 44, 51, 60, 66, 70, 76, 121, 132, 136, 143, 144, 149], "v5": [5, 14, 29, 32, 38, 52, 54, 55, 56, 57, 58, 63, 98, 105, 106, 110, 126, 131, 132], "attribut": [5, 7, 22, 30, 38, 44, 66, 70, 76, 78, 79, 83, 86, 89, 92, 94, 96, 98, 99, 110, 113, 118, 122, 127, 135, 136, 137, 139, 145, 151], "clawutil": [5, 11, 14, 19, 20, 23, 28, 40, 41, 50, 55, 57, 62, 106, 111, 134, 136, 137, 138, 140, 151, 152], "clawrundata": [5, 44, 59, 122, 127, 136, 137, 138, 140], "adjointdata": [5, 122, 123], "ia": 5, "attribur": 5, "toler": [5, 32, 97, 104, 110, 111, 119, 137, 138, 139], "rundata": [5, 22, 32, 38, 39, 44, 59, 60, 110, 113, 124, 127, 132, 136, 137, 138, 139, 140], "use_adjoint": 5, "adjoint_outdir": 5, "abspath": [5, 38], "_output": [5, 13, 14, 32, 35, 36, 44, 50, 60, 67, 77, 79, 88, 93, 95, 98, 118, 125, 152], "period": [5, 6, 16, 32, 62, 83, 96, 110, 136, 138, 140], "t1": [5, 38, 44, 59, 60, 110, 137, 138, 139], "t0": [5, 127, 136, 138, 139, 140, 149], "t2": [5, 38, 44, 59, 60, 110, 137, 138, 139], "addit": [5, 7, 13, 16, 23, 24, 25, 28, 29, 32, 36, 37, 38, 45, 46, 56, 58, 59, 66, 70, 72, 73, 77, 78, 84, 87, 89, 91, 93, 99, 100, 101, 108, 110, 117, 119, 120, 121, 122, 125, 128, 130, 136, 140, 145, 148, 149, 154, 155], "aux": [5, 6, 15, 20, 22, 27, 44, 53, 84, 91, 92, 93, 96, 98, 99, 101, 102, 113, 114, 119, 121, 128, 129, 133, 136, 137, 138, 139, 140, 154], "inner": [5, 110, 122], "product": [5, 30, 61, 81, 104, 110, 122], "amrdata": [5, 22, 32, 110, 124, 137, 138, 139], "aux_typ": [5, 137, 138], "append": [5, 20, 32, 38, 39, 44, 51, 60, 77, 86, 98, 110, 118, 119, 127, 128, 138], "num_aux": [5, 84, 92, 94, 96, 97, 101, 128, 136, 137, 138, 140, 154], "len": [5, 30, 89, 138, 140, 151], "innerprod_index": 5, "base": [5, 6, 13, 20, 21, 22, 28, 29, 30, 32, 33, 45, 47, 51, 52, 53, 54, 59, 60, 63, 64, 66, 67, 70, 73, 84, 86, 87, 89, 91, 92, 97, 98, 99, 101, 103, 104, 110, 112, 117, 120, 122, 131, 136, 137, 138, 139, 140, 145, 151, 154, 157], "richardson": [5, 7, 22, 137, 138], "error": [5, 16, 18, 20, 35, 36, 40, 51, 58, 67, 71, 77, 86, 91, 92, 93, 104, 110, 111, 122, 137, 138, 145, 152], "estimat": [5, 138], "flag_richardson": [5, 110, 118, 137, 138], "flag_richardson_tol": [5, 110, 137, 138], "1e": [5, 66, 140], "flag2refin": [5, 7, 22, 137, 138], "flag2refine_tol": [5, 110, 137, 138], "01": [5, 39, 72, 89, 151], "we": [5, 6, 22, 24, 26, 32, 35, 36, 38, 39, 44, 48, 51, 53, 54, 55, 56, 58, 63, 66, 70, 76, 79, 83, 84, 85, 86, 88, 89, 92, 93, 94, 95, 96, 99, 100, 101, 102, 103, 104, 105, 108, 111, 121, 124, 128, 129, 130, 134, 151], "attempt": [5, 8, 11, 20, 33, 35, 36, 62, 92, 98, 104, 111, 113, 145, 151, 152], "estim": [5, 64, 110, 137, 139], "step": [5, 6, 10, 16, 19, 28, 32, 35, 36, 37, 44, 51, 54, 55, 60, 67, 76, 79, 81, 82, 83, 84, 86, 93, 96, 99, 101, 103, 108, 110, 113, 118, 119, 127, 128, 134, 136, 137, 138, 139, 140, 149, 157], "extrapol": [5, 7, 16, 22, 96, 103, 121, 136, 137, 138, 140], "togeth": [5, 16, 28, 29, 30, 54, 70, 110], "experiment": [5, 81], "otherwis": [5, 30, 54, 56, 58, 61, 66, 81, 93, 97, 98, 99, 100, 101, 104, 110, 136, 151], "simpli": [5, 13, 35, 36, 37, 39, 44, 51, 53, 56, 57, 62, 63, 66, 83, 85, 86, 88, 93, 94, 100, 111, 128, 130, 141, 145, 151, 154, 155], "magnitud": [5, 30, 110, 121, 139], "greater": [5, 32, 59, 64, 66, 100, 105, 110, 127, 136, 137, 139], "model": [5, 12, 16, 17, 24, 25, 30, 32, 41, 45, 46, 52, 53, 64, 93, 110, 118, 123, 124, 125, 130, 131, 132, 139, 145, 146, 149], "davisleveque2016": [5, 17], "chile2010_adjoint": 5, "shallow": [5, 15, 16, 17, 25, 32, 39, 45, 48, 52, 66, 73, 84, 91, 107, 114, 115, 117, 119, 121, 122, 128, 132, 133, 139, 143, 144, 149, 154], "water": [5, 16, 17, 25, 39, 44, 45, 46, 47, 48, 59, 66, 73, 76, 84, 91, 114, 115, 119, 121, 122, 128, 130, 131, 132, 139, 149, 151, 153, 154], "while": [5, 13, 16, 30, 39, 51, 67, 70, 77, 79, 84, 89, 93, 94, 99, 104, 121, 128, 132, 139, 153], "suitabl": [5, 8, 16, 20, 45, 48, 51, 98, 109, 128, 131, 145, 151], "To": [5, 6, 13, 14, 18, 22, 25, 28, 29, 35, 36, 37, 38, 39, 40, 44, 46, 49, 51, 52, 55, 57, 62, 65, 66, 67, 70, 71, 72, 77, 79, 80, 83, 85, 87, 88, 91, 92, 93, 94, 95, 96, 99, 100, 103, 105, 106, 108, 109, 110, 111, 117, 119, 122, 123, 124, 125, 127, 131, 134, 136, 137, 141, 149, 155], "date": [5, 28, 40, 47, 51, 54, 55, 62, 77, 145, 152], "across": [5, 110, 119, 149, 151], "ocean": [5, 16, 17, 32, 48, 51, 108, 110, 130, 139, 143, 144, 149], "wai": [5, 6, 13, 16, 26, 28, 35, 36, 38, 39, 44, 51, 53, 54, 58, 59, 61, 62, 77, 79, 80, 81, 83, 86, 88, 89, 94, 96, 98, 100, 103, 105, 106, 108, 109, 113, 119, 120, 121, 124, 126, 128, 130, 135, 136, 142, 146, 149, 154, 156, 157], "target": [5, 56, 58, 77, 84, 96, 124], "possibli": [5, 30, 56, 58, 66, 83, 89, 106, 118, 132], "deep": [5, 66, 139], "amplitud": [5, 119], "compar": [5, 22, 36, 44, 48, 51, 55, 77, 93, 110, 111, 131, 137, 139, 147, 153, 157], "essenti": [5, 53, 67, 99, 139, 149], "rest": [5, 22, 79, 108, 121, 131, 143, 144, 149, 151], "henc": [5, 32, 53, 54, 63, 99, 105, 106, 110, 132], "take": [5, 6, 22, 27, 28, 30, 32, 47, 54, 64, 66, 67, 70, 77, 83, 89, 96, 99, 103, 104, 105, 110, 111, 116, 122, 132, 136, 137, 138, 139, 151, 154, 157], "rpn2_geoclaw_adjoint_qwav": 5, "rpt2_geoclaw_adjoint_qwav": 5, "non": [5, 16, 55, 66, 73, 84, 96, 103, 122, 124, 136, 138, 140, 145, 157], "vector": [5, 22, 83, 87, 93, 101, 121, 128, 129], "split": [5, 6, 71, 89, 92, 99, 117, 118, 136, 138, 140, 148, 154, 157], "flux": [5, 17, 32, 89, 97, 99, 128, 136, 157], "comment": [5, 11, 24, 49, 55, 120, 127], "rpn2": [5, 128], "basic": [6, 10, 12, 25, 30, 35, 37, 45, 57, 66, 67, 83, 89, 91, 92, 93, 97, 99, 111, 128, 129, 145, 157], "strategi": 6, "logic": [6, 16, 17, 32], "rectangular": [6, 7, 16, 17, 30, 32, 38, 39, 45, 46, 59, 66, 89, 110, 121, 124, 137, 139, 149], "cover": [6, 7, 27, 28, 30, 32, 38, 39, 51, 59, 66, 70, 110, 114, 119, 132, 138, 139, 149], "too": [6, 47, 51, 54, 55, 118, 130, 138, 140], "portion": [6, 39, 51, 66, 84, 148], "factor": [6, 51, 137, 139, 148, 151], "direct": [6, 8, 16, 22, 30, 32, 35, 36, 44, 47, 51, 55, 59, 61, 62, 67, 70, 71, 77, 81, 86, 96, 103, 110, 120, 128, 136, 137, 139, 151], "anisotrop": [6, 22], "further": [6, 16, 25, 32, 41, 48, 59, 62, 67, 91, 105, 110, 111], "perhap": [6, 12, 32, 39, 44, 54, 77, 101, 104, 110, 130], "ratio": [6, 15, 22, 49, 67, 70, 87, 97, 99, 133, 136, 137, 138], "And": [6, 20, 54, 56], "section": [6, 13, 16, 35, 36, 39, 41, 46, 48, 54, 55, 63, 67, 76, 79, 111, 127, 136, 139, 151], "cfl": [6, 89, 93, 99, 103, 113, 118, 136, 138, 139, 140], "spatial": [6, 17, 25, 30, 38, 39, 45, 64, 96, 110, 113, 117, 124, 128, 131, 138, 140, 157], "reduc": [6, 16, 39, 51, 118, 120, 157], "thu": [6, 47, 93, 96, 121, 145], "proce": [6, 28], "advanc": [6, 17, 52, 66, 71, 103, 118, 136, 154], "taken": [6, 32, 66, 70, 93, 99, 110, 136, 154], "around": [6, 30, 32, 39, 59, 92, 108, 111, 124, 137, 138, 145, 151, 154], "librari": [6, 13, 15, 16, 20, 22, 25, 27, 28, 32, 35, 36, 41, 44, 52, 59, 62, 68, 71, 72, 73, 81, 87, 92, 94, 99, 104, 106, 107, 110, 119, 124, 132, 133, 137, 143, 144, 152, 154], "bcnamr": [6, 16, 121, 136, 138, 154], "check": [6, 14, 15, 16, 20, 32, 35, 36, 40, 41, 50, 51, 52, 54, 55, 56, 58, 62, 67, 77, 83, 84, 86, 91, 94, 98, 99, 101, 103, 104, 106, 107, 110, 114, 123, 130, 132, 133, 137, 138, 143, 144, 145, 151, 152, 153, 154], "denot": [6, 22, 44, 53, 128, 151], "procedur": [6, 16, 39, 45, 55, 154], "updat": [6, 12, 13, 22, 23, 25, 32, 49, 52, 56, 57, 58, 60, 79, 91, 99, 101, 102, 105, 108, 113, 117, 119, 120, 121, 122, 123, 124, 128, 137, 138, 140, 142, 145, 148, 154], "consist": [6, 25, 32, 47, 51, 55, 59, 94, 105, 119, 128, 130, 139, 149, 154], "replac": [6, 13, 29, 38, 44, 48, 52, 54, 55, 60, 62, 76, 84, 88, 92, 94, 95, 96, 97, 101, 104, 111, 113, 119, 121, 123, 124, 127, 128, 132, 151, 152], "ly": [6, 66], "within": [6, 16, 28, 54, 56, 58, 66, 73, 77, 95, 104, 106, 110, 128, 130, 135, 141, 151], "approxim": [6, 16, 25, 33, 48, 51, 70, 128], "lead": [6, 13, 18, 22, 32, 48, 51, 64, 67, 70, 106, 109, 132, 137], "total": [6, 30, 51, 70, 93, 99, 136, 137, 138, 140, 148], "mass": [6, 93], "restor": 6, "global": [6, 14, 89, 101, 104, 131, 149, 153, 154], "fix": [6, 18, 19, 20, 22, 25, 33, 38, 45, 54, 55, 59, 60, 62, 66, 81, 92, 97, 113, 114, 115, 116, 117, 118, 119, 120, 122, 123, 124, 125, 129, 136, 138, 140, 151], "up": [6, 13, 22, 28, 29, 30, 32, 35, 36, 39, 40, 44, 45, 51, 54, 55, 59, 62, 66, 67, 70, 77, 83, 84, 86, 88, 90, 91, 92, 94, 99, 100, 103, 106, 108, 110, 111, 117, 118, 121, 124, 130, 132, 135, 138, 140, 148, 149, 152, 153], "style": [6, 22, 28, 30, 38, 49, 51, 66, 72, 77, 81, 86, 121], "often": [6, 11, 13, 16, 20, 27, 29, 32, 35, 36, 40, 41, 44, 45, 48, 49, 50, 59, 60, 64, 70, 72, 93, 105, 106, 110, 111, 127, 128, 130, 131, 132, 135, 136, 139, 145, 149, 153, 154, 157], "olig": [6, 17], "colella": [6, 17], "bergeroliger84": [6, 17], "bergercolella89": [6, 17], "fortran": [6, 9, 11, 13, 14, 20, 23, 27, 28, 30, 32, 33, 35, 44, 45, 46, 53, 56, 58, 62, 63, 64, 71, 72, 73, 76, 79, 81, 83, 84, 86, 89, 91, 92, 94, 96, 97, 99, 100, 101, 104, 117, 118, 119, 121, 122, 123, 128, 129, 134, 138, 139, 140, 145, 147, 148, 149], "written": [6, 11, 25, 30, 32, 40, 44, 58, 59, 60, 61, 70, 72, 73, 77, 81, 90, 92, 96, 105, 119, 128, 136, 137, 138, 139, 140, 145, 151, 154], "ga": [6, 97], "dynam": [6, 20, 30, 48, 70, 73], "merg": [6, 13, 25, 28, 52, 54, 55, 58, 117], "earli": [6, 20, 132], "dai": [6, 13, 51, 139], "mjb": [6, 17], "rjl": [6, 17, 106, 123], "fulli": [6, 48, 51, 52, 120, 124, 128, 139, 145, 146], "consid": [6, 39, 48, 57, 58, 66, 84, 106, 134, 141, 151], "adjac": [6, 16, 32, 45, 110, 132, 136], "equival": [6, 44, 52, 53, 59, 60, 123, 149], "copi": [6, 14, 15, 16, 35, 36, 44, 51, 54, 55, 58, 67, 83, 86, 96, 101, 107, 108, 109, 110, 114, 118, 121, 125, 132, 133, 141, 143, 144, 149, 154], "interior": [6, 16, 39, 72, 101], "howev": [6, 13, 16, 22, 32, 35, 36, 39, 41, 46, 48, 51, 58, 61, 63, 66, 70, 71, 72, 81, 84, 110, 111, 119, 121, 123, 131, 132, 135, 139, 148], "lie": [6, 32, 33, 66, 110, 124, 130], "outsid": [6, 16, 38, 59, 66, 124, 130, 132, 149, 151], "li": [6, 16, 32, 110, 130, 139], "along": [6, 14, 16, 24, 27, 30, 32, 39, 44, 51, 54, 68, 70, 106, 110, 117, 127, 130, 132, 139, 153], "proper": [6, 15, 39, 44, 52, 53, 55, 59, 64, 66, 67, 92, 104, 113, 119, 133, 137, 138, 143, 144, 145, 154], "unless": [6, 32, 40, 41, 59, 97, 105, 131, 136, 151], "standard": [6, 16, 30, 32, 51, 53, 67, 72, 84, 87, 99, 105, 106, 110, 111, 138, 139, 140, 141, 149, 154, 157], "beyond": [6, 30, 105, 121], "modifi": [6, 9, 14, 15, 16, 20, 22, 27, 32, 35, 36, 39, 44, 45, 54, 55, 56, 58, 60, 62, 67, 69, 77, 84, 87, 89, 91, 96, 106, 107, 108, 109, 110, 116, 118, 119, 120, 121, 130, 132, 133, 136, 138, 139, 140, 143, 144, 149, 151, 154], "damag": [6, 61, 81], "bcn": [6, 16, 140, 154], "nd": [6, 16, 110, 121, 124, 154], "actual": [6, 27, 30, 32, 53, 58, 59, 67, 70, 77, 87, 92, 104, 108, 131, 139], "softwar": [6, 13, 24, 25, 29, 45, 48, 61, 68, 81, 91, 92, 93, 141, 149], "intern": [6, 30, 44, 53, 59, 70, 119, 149, 151, 157], "With": [6, 22, 28, 44, 49, 51, 66, 73, 105, 110, 118, 128, 130, 136], "opposit": [6, 16, 92], "side": [6, 16, 18, 32, 51, 54, 64, 70, 92, 111, 128, 157], "everi": [6, 12, 28, 32, 44, 60, 62, 63, 83, 86, 88, 92, 93, 101, 110, 111, 119, 120, 128, 132, 134, 136, 138, 140, 145, 149, 151, 154], "few": [6, 12, 13, 22, 26, 29, 36, 48, 54, 66, 67, 84, 99, 103, 105, 110, 111, 124, 131, 147, 149, 154], "coarsest": [6, 51, 72, 113, 127, 136], "revis": [6, 119], "shock": [6, 17, 48, 99, 110], "accord": [6, 53], "criteria": [6, 7, 22, 25, 32, 66, 101], "cluster": [6, 17, 57, 110, 137, 138], "rigoutsi": 6, "bergerrigoutsis91": [6, 17], "nonoverlap": 6, "rectangl": [6, 7, 25, 30, 66, 70, 110, 124, 151], "balanc": [6, 17, 73, 120, 129, 143, 144], "conflict": [6, 28, 58, 62, 67, 102, 106], "goal": 6, "possibl": [6, 13, 22, 26, 28, 30, 32, 44, 47, 48, 51, 56, 61, 62, 70, 77, 81, 89, 92, 94, 95, 99, 104, 106, 110, 128, 130, 131, 136, 137, 149, 153, 154], "minim": [6, 58, 66, 92, 130, 137, 151], "overhead": [6, 71, 110, 148], "cutoff": [6, 138], "control": [6, 7, 23, 25, 32, 41, 44, 54, 56, 58, 60, 67, 79, 82, 87, 89, 91, 92, 93, 94, 96, 110, 119, 124, 129, 139], "fraction": [6, 13, 30, 110, 136, 154, 157], "70": [6, 51], "realli": [6, 111, 154], "At": [6, 13, 27, 28, 35, 36, 39, 66, 94, 99, 103, 105, 110, 124, 136], "present": [6, 24, 59, 89, 97, 98, 99, 104, 141, 154, 157], "previous": [6, 22, 32, 66, 79, 117, 124, 132], "bilinear": [6, 32, 39, 44, 53, 113, 114, 149], "doxygen": [6, 7, 25, 120], "flowchart": [6, 7, 25], "capabl": [7, 12, 22, 32, 34, 48, 52, 66, 73, 84, 113, 118, 119, 121, 122, 123, 124, 125, 151, 153], "block": [7, 30, 33, 39, 59, 70, 72, 73, 83, 92, 101, 104, 111, 154], "structur": [7, 10, 22, 32, 38, 55, 58, 62, 73, 98, 99, 119, 130, 135, 151], "input": [7, 14, 16, 20, 23, 25, 27, 30, 33, 40, 45, 51, 59, 63, 66, 67, 83, 86, 87, 89, 91, 97, 98, 99, 104, 108, 118, 121, 122, 123, 128, 138, 139, 140, 145, 146, 149, 151, 154], "indic": [7, 16, 20, 22, 25, 29, 30, 32, 38, 39, 41, 44, 45, 51, 53, 55, 57, 58, 63, 67, 75, 79, 89, 93, 94, 97, 99, 103, 106, 110, 111, 119, 124, 128, 129, 136, 138, 139, 140, 149, 151, 154], "tool": [7, 8, 17, 22, 23, 28, 30, 32, 33, 35, 36, 39, 45, 46, 47, 48, 51, 53, 58, 59, 67, 70, 75, 76, 77, 78, 80, 91, 106, 109, 114, 115, 119, 120, 124, 125, 139, 141, 149, 151, 153, 155], "matlab": [7, 22, 25, 35, 36, 75, 76, 77, 95, 105, 121, 124, 125], "deprec": [7, 30, 34, 54, 117, 121, 139, 149, 151], "debug": [7, 41, 62, 72, 76, 93, 101, 106, 111, 136, 138], "flag": [7, 12, 13, 22, 25, 28, 29, 38, 40, 41, 45, 52, 56, 58, 68, 71, 84, 102, 104, 106, 117, 122, 138, 139], "sampl": [7, 8, 14, 17, 25, 29, 32, 41, 45, 51, 70, 106, 111, 127, 130, 136, 137, 149, 151, 154], "ghost": [7, 16, 18, 71, 72, 89, 92, 99, 101, 119, 136, 138, 140, 148, 154, 157], "flagregion": [7, 25, 66, 110, 124, 130], "rule": [7, 13, 25, 59, 66, 84], "convex": [7, 32], "slu": 7, "bounding_box": [7, 33], "mask_outsid": [7, 66], "write": [7, 28, 30, 33, 38, 39, 44, 45, 50, 53, 54, 64, 70, 72, 73, 76, 83, 86, 89, 90, 92, 93, 94, 98, 119, 121, 138, 140, 145, 149, 151], "instanti": [7, 86, 94, 96, 99, 101, 138, 140], "make_kml": 7, "simpl": [7, 29, 35, 36, 38, 45, 55, 70, 84, 91, 96, 97, 99, 104, 109, 111, 151], "select": [7, 12, 13, 15, 16, 28, 32, 39, 66, 93, 99, 107, 110, 113, 120, 124, 126, 133, 136, 139, 143, 144, 153], "continent": [7, 66], "shelf": [7, 66], "guid": [7, 13, 17, 18, 23, 24, 25, 45, 46, 52, 57, 91, 105, 110, 120, 124, 142], "adjoint": [7, 17, 25, 52, 110, 121, 122], "gaug": [7, 25, 32, 45, 59, 89, 90, 101, 108, 113, 117, 118, 119, 120, 121, 124, 127, 131, 138], "extend": [8, 16, 22, 39, 59, 66, 67, 89, 121, 130, 132, 139, 149, 151, 157], "directli": [8, 19, 23, 32, 48, 56, 67, 70, 77, 79, 83, 84, 87, 91, 101, 104, 106, 121, 151, 155], "obviou": [8, 51], "elimin": [8, 22, 66, 84, 106, 121, 139], "gallery_classic_amrclaw": [8, 35], "num_cel": [8, 22, 89, 128, 136, 137, 138, 140], "refinement_ratios_i": [8, 137, 138], "sweep": [8, 128], "transvers": [8, 89, 119, 128, 129, 136, 154, 157], "graph": 9, "understand": [9, 25, 35, 36, 48, 76, 91, 103, 110, 128], "filpatch": [9, 18, 39, 119, 123], "idea": [10, 24, 30, 66, 67, 73, 83, 103, 114, 151, 157], "overal": [10, 83], "who": [10, 12, 19, 22, 24, 32, 41, 48, 58], "gori": 10, "monster": 10, "column": [10, 30, 32, 44, 48, 60, 93, 97, 117, 130, 151], "markup": 11, "languag": [11, 76, 104, 105], "restructur": [11, 54], "text": [11, 54, 55, 59, 72, 86, 92, 99, 117], "sphinx": [11, 23, 25, 55, 120], "covert": 11, "convert_readm": 11, "brows": [11, 24, 42, 51, 67, 141, 154], "insert": [11, 16, 70, 92, 149], "script": [11, 19, 20, 28, 30, 32, 40, 44, 51, 54, 57, 62, 67, 73, 76, 81, 84, 88, 90, 91, 93, 94, 99, 104, 105, 106, 111, 121, 125, 128, 135, 139, 140, 151], "invok": [11, 14, 71, 132, 152], "minor": [11, 18, 51, 54, 93, 113, 114, 115, 116, 117, 118, 119, 120, 121, 122, 124], "syntax": 11, "highlight": [11, 13], "header": [11, 30, 32, 39, 44, 53, 66, 70, 72, 92, 98, 117, 119, 121, 145, 149, 151], "complex": [12, 38, 89], "archiv": [12, 21, 36, 51, 55, 111, 141, 147, 151, 153], "github": [12, 15, 22, 23, 24, 25, 26, 29, 52, 54, 56, 57, 58, 88, 96, 100, 107, 111, 116, 118, 119, 120, 126, 128, 129, 133, 143, 144, 152], "app": [12, 13, 18, 23, 26, 28, 29, 32, 37, 42, 70, 108, 109, 116, 120, 121, 122, 123, 124, 125, 129], "com": [12, 13, 23, 24, 26, 28, 29, 52, 54, 55, 56, 57, 58, 92, 94, 96, 100, 116, 118, 119, 120, 126, 129], "fvmbook": [12, 42], "galleri": [12, 35, 36, 37, 42, 43, 55, 75, 76, 88, 91, 105, 111, 116, 120, 141, 147, 154], "anim": [12, 16, 42, 51, 117, 124, 125, 141], "instal": [12, 13, 18, 23, 25, 29, 35, 51, 54, 55, 79, 81, 82, 85, 90, 92, 103, 111, 112, 113, 114, 115, 116, 117, 118, 119, 120, 121, 122, 123, 124, 125, 126, 134, 156], "collect": [12, 25, 26, 28, 30, 32, 70, 76, 83, 99, 141], "either": [12, 16, 20, 30, 32, 39, 45, 46, 51, 60, 62, 66, 67, 70, 77, 79, 83, 89, 92, 93, 99, 104, 106, 110, 111, 117, 118, 119, 121, 128, 130, 132, 139, 145, 149, 151, 154, 157], "clone": [12, 18, 23, 24, 42, 52, 54, 55, 56, 58, 80, 94, 100, 109, 152], "git": [12, 13, 23, 24, 25, 26, 52, 55, 56, 58, 91, 100, 111, 123], "navig": [12, 29, 54, 141], "green": [12, 59, 66, 70, 77, 111, 151], "button": [12, 13, 28, 51, 59, 120], "download": [12, 13, 28, 29, 30, 36, 37, 39, 45, 51, 55, 56, 57, 58, 68, 88, 94, 100, 121, 122, 126, 147, 151, 152, 153], "zip": [12, 51, 55], "illustr": [12, 25, 30, 32, 35, 51, 66, 67, 70, 109, 116, 117, 121, 123, 128, 130, 141, 151], "variou": [12, 20, 22, 30, 38, 48, 54, 67, 70, 77, 79, 89, 103, 105, 106, 110, 119, 128, 135, 139, 145], "aspect": [12, 24, 29, 48, 49, 67, 151], "visibl": [12, 13, 51, 109, 141], "render": [12, 22, 51, 59, 155], "advantag": [12, 76, 92, 105, 111, 130], "independ": [12, 23, 30], "contact": [12, 88, 91, 100], "u": [12, 13, 16, 24, 29, 32, 47, 48, 55, 58, 60, 81, 88, 91, 97, 100, 101, 102, 103, 108, 120, 128, 137, 140, 145, 153], "like": [12, 13, 24, 28, 29, 39, 41, 51, 54, 55, 59, 60, 67, 68, 79, 84, 86, 89, 92, 93, 94, 97, 98, 99, 101, 105, 106, 111, 118, 128, 130, 135, 148, 149, 152], "storm": [12, 17, 24, 25, 45, 117, 120, 121, 122, 123, 125], "surg": [12, 17, 24, 25, 45, 117, 120, 121, 122, 123, 145], "empti": [12, 44, 98, 101, 104, 106, 136, 145, 151], "gitmodul": 12, "pull": [12, 24, 26, 29, 54, 55, 57, 88, 96, 111, 116, 119, 120, 128], "request": [12, 24, 26, 30, 54, 57, 72, 83, 88, 89, 93, 96, 98, 111, 119, 121, 128, 139, 145, 151], "init": [12, 25, 28, 39, 45, 52, 57, 131], "leav": [12, 13, 16, 44, 56, 58, 137, 151], "off": [12, 13, 44, 48, 51, 59, 67, 79, 86, 93, 110, 137, 151], "won": [12, 13, 66, 84, 151], "hurt": [12, 63], "maintain": [12, 28, 105, 121, 137, 149, 154], "flavor": [12, 21, 57, 92], "demonstr": [12, 25, 88, 94], "agre": [12, 28, 39, 53, 128, 148, 151, 154], "seen": [12, 22, 32, 35, 36, 37, 48, 71, 96, 136, 141], "cloud": 13, "elast": [13, 70], "sign": [13, 18, 24, 77, 145], "account": [13, 24, 28, 55, 85, 94], "750": 13, "hour": [13, 51, 59], "free": [13, 51, 62, 70, 81, 85, 96, 100, 102, 105], "micro": 13, "suffici": [13, 16, 20, 70, 71, 108, 113, 139], "tier": 13, "inform": [13, 14, 22, 25, 32, 33, 35, 36, 46, 47, 48, 49, 50, 56, 58, 63, 72, 77, 78, 79, 80, 83, 84, 89, 93, 94, 95, 97, 98, 104, 106, 118, 121, 122, 124, 126, 127, 128, 131, 134, 136, 137, 139, 145, 148, 149, 152, 153, 154, 155], "uw": [13, 24], "escienc": 13, "aw": [13, 56], "tutori": [13, 29, 55, 79, 82, 86, 91, 100, 106, 109], "gear": 13, "faq": [13, 25, 76, 105], "price": 13, "charg": 13, "per": [13, 30, 44, 51, 59, 67, 71, 92, 137], "thereof": 13, "regardless": [13, 39, 66, 110, 136, 139], "cpu": [13, 52, 118, 121, 123, 148], "consol": [13, 93, 139], "tab": [13, 54, 126], "east": [13, 149], "cheaper": 13, "rate": 13, "menu": [13, 18, 25, 54, 59, 120, 126, 131, 153], "imag": [13, 35, 36, 39, 55, 57, 59, 66, 111, 121, 130], "platform": [13, 51, 86, 94, 105, 111], "finish": [13, 77, 83], "load": [13, 59, 93, 95, 98, 104, 105, 111, 151, 155], "databas": [13, 30, 70, 104, 108, 121, 149], "uwamath": 13, "bar": [13, 54, 145], "screen": [13, 28, 51, 59, 86, 93, 94, 118, 138, 140], "shapshot": 13, "machin": [13, 25, 57, 71, 73, 105, 111, 119, 134], "disk": [13, 44, 83, 92, 93, 111, 119], "ubuntu": [13, 57, 105], "linux": [13, 57, 69, 80, 102, 105, 111, 134], "popup": 13, "look": [13, 14, 22, 25, 28, 30, 39, 51, 54, 55, 59, 67, 68, 77, 79, 84, 89, 94, 98, 99, 103, 104, 105, 106, 111, 114, 121, 130, 136, 137, 139, 148, 151, 152], "sort": [13, 39, 56, 121, 135, 152], "larger": [13, 20, 32, 51, 59, 70, 71, 72, 77, 89, 113, 119, 139, 149], "cost": [13, 99], "continu": [13, 22, 28, 30, 49, 54, 81, 105, 128, 136, 157], "eventu": [13, 45, 124], "don": [13, 27, 28, 54, 55, 77, 93, 94, 100, 111, 138, 152], "pair": [13, 92, 111, 151], "secur": 13, "quick": [13, 25, 36, 45, 46, 80, 105, 111, 147], "close": [13, 39, 51, 54, 59, 66, 67, 92, 110, 124, 137, 145], "back": [13, 27, 29, 54, 55, 120], "statu": [13, 28, 50, 86, 103], "wait": 13, "until": [13, 32, 60, 66, 132], "refresh": [13, 44], "bottom": [13, 15, 30, 35, 36, 45, 48, 64, 66, 70, 83, 96, 97, 119, 120, 133, 143, 144], "scroll": 13, "down": [13, 30, 93, 118, 145, 149, 151], "dn": 13, "screenshot": [13, 51], "rjlkei": 13, "pem": 13, "abl": [13, 54, 106], "ssh": [13, 28], "keypair": 13, "50": [13, 17, 32, 51, 99, 114, 138], "19": [13, 17, 24, 148], "75": [13, 17, 87, 103, 130], "229": 13, "amazonaw": 13, "gfortran": [13, 56, 58, 71, 80, 82, 102, 134, 152], "ipython": [13, 73, 77, 79, 84, 85, 91, 93, 100, 103, 105, 106, 117, 118], "scipi": [13, 84, 105, 145, 151], "netcdf": [13, 41, 45, 118, 121, 123, 125, 136, 138, 140, 145, 151, 153], "apach": 13, "server": [13, 29, 39, 51, 54, 55, 66, 121, 149, 153], "apt": [13, 105], "fetch": [13, 47], "bring": [13, 51, 54, 67], "master": [13, 15, 25, 29, 54, 55, 58, 96, 107, 118, 119, 120, 121, 122, 123, 124, 125, 126, 129, 133, 143, 144], "make_lib": 13, "compil": [13, 25, 35, 36, 40, 46, 56, 58, 63, 71, 73, 79, 80, 84, 91, 92, 96, 100, 104, 113, 128, 129, 134], "bashrc": [13, 41, 102, 134], "Of": [13, 26, 70, 103, 108, 149], "cours": [13, 26, 32, 44, 46, 60, 70, 94, 95, 103, 105, 108, 139, 149], "tar": [13, 56, 59, 123, 126], "instruct": [13, 18, 24, 25, 35, 36, 39, 51, 52, 54, 55, 56, 57, 68, 83, 85, 91, 94, 100, 103, 106, 120, 126, 127, 134, 152], "probabl": [13, 28, 51, 64, 66, 105, 106], "window": [13, 30, 67, 79, 105, 134], "respons": [13, 48, 83, 98], "pretti": 13, "slow": [13, 51, 93, 102], "_plot": [13, 35, 36, 44, 67, 79, 135, 141], "local": [13, 17, 20, 25, 28, 51, 54, 59, 62, 63, 67, 87, 89, 96, 101, 119, 121, 132, 149, 151, 154], "sftp": 13, "much": [13, 28, 32, 41, 51, 54, 72, 73, 76, 105, 110, 113, 117, 124, 130, 136, 139, 148, 151], "smaller": [13, 51, 64, 73, 89, 93, 113, 132, 136, 138, 139, 140, 151], "quicker": [13, 130], "browser": [13, 28, 29, 35, 36, 51, 54, 141], "explain": [13, 32, 48, 66, 136, 141], "webserv": 13, "inbound": 13, "port": [13, 29, 90, 91, 96, 137], "22": [13, 24, 151], "80": [13, 17, 51, 94, 130], "drop": [13, 54, 124, 132, 136], "tcp": 13, "Then": [13, 16, 28, 29, 30, 44, 54, 55, 57, 63, 66, 70, 71, 79, 83, 86, 94, 100, 101, 102, 106, 128, 130, 151, 152], "someth": [13, 27, 28, 54, 62, 69, 76, 93, 98, 99, 106, 149, 152, 154], "shot": 13, "ln": 13, "expos": 13, "home": [13, 29, 30, 56, 58, 134], "scp": 13, "TO": [13, 61, 81], "send": [13, 24, 96, 128], "remot": [13, 51, 55, 121, 151, 153], "rel": [13, 20, 30, 40, 46, 48, 51, 70, 71, 77, 104, 106, 111, 114, 115, 116, 117, 118, 119, 120, 121, 122, 123, 124, 125, 131, 137, 139, 141, 149, 153], "end": [13, 29, 30, 32, 33, 44, 47, 51, 55, 59, 86, 93, 97, 103, 105, 108, 110, 118, 119, 121, 127, 129, 130, 138, 140, 145, 148], "retriev": [13, 47, 79, 84, 99, 151, 153], "sit": 13, "idl": 13, "action": [13, 14, 84], "restart": [13, 25, 44, 79, 91, 118, 119, 120, 121, 123, 136, 138, 140], "later": [13, 39, 50, 51, 58, 79, 99, 127], "But": [13, 32, 39, 51, 77, 102, 114, 121, 132], "futur": [13, 22, 25, 26, 35, 36, 39, 48, 53, 59, 64, 83, 99, 105, 118, 119, 121, 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"bergercalhounhelzellevequ": 16, "hint": [16, 25, 45, 56, 76, 79, 80, 106, 139, 152], "suppos": [16, 63, 66, 67, 77, 106, 110], "mark": [16, 51, 66, 110, 111], "bit": [16, 22, 30, 55, 92, 94, 102, 129], "examin": [16, 35, 36, 44, 66, 106], "own": [16, 20, 24, 28, 58, 83, 84, 90, 91, 100, 101, 108, 110, 121, 128, 141], "todo": [16, 128, 145, 151, 157], "poster": 17, "resourc": [17, 24, 28, 46, 105], "bale": 17, "rossmanith": 17, "siam": [17, 24, 25, 91, 128], "sci": 17, "24": [17, 32, 51, 130], "2002": 17, "955": [17, 130], "978": 17, "author": [17, 25, 45, 48, 87, 91, 92, 97, 109], "1989": 17, "hydrodynam": 17, "phy": 17, "82": 17, "64": [17, 89, 94, 102], "84": [17, 51], "34": [17, 51, 59, 91], "2011": [17, 24, 81], "pp": 17, "1195": 17, "1206": 17, "adv": 17, "awr11": 17, "1998": 17, "anal": 17, "35": [17, 32, 53, 70, 91], "2298": 17, "2316": 17, "1984": 17, "partial": [17, 73, 108], "differenti": [17, 30], "53": 17, "484": 17, "512": 17, "rigoutso": 17, "1991": 17, "ieee": 17, 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38, 41, 50, 51, 55, 56, 57, 58, 64, 76, 81, 82, 84, 90, 91, 97, 104, 105, 110, 114, 118, 119, 120, 121, 124, 128, 140, 145, 148, 149, 151], "thought": [18, 131], "know": [18, 48, 58, 62, 70, 81, 108, 120, 124, 128, 131, 151, 152, 153], "slope": [18, 30, 99], "had": [18, 44, 52, 53, 119, 120, 121, 122, 132], "affect": [18, 22, 62, 119, 120, 136, 149, 152], "properli": [18, 20, 32, 35, 36, 39, 40, 48, 51, 53, 54, 58, 59, 66, 69, 86, 105, 111, 113, 116, 121, 124, 134, 136, 139, 149, 151, 152, 154], "loop": [18, 44, 67, 76, 104, 110, 121, 124, 128, 132, 135, 136, 154], "fgmax_interp": [18, 32], "wip": 18, "rpt2_geoclaw": [18, 129], "changelog": [18, 22, 112, 113, 114, 115, 116, 117, 118, 119, 120, 121, 122, 123, 124, 125, 126], "tarfil": [18, 56, 58, 120, 121, 122, 123, 124, 125], "pip": [18, 25, 28, 51, 55, 57, 85, 91, 94, 100, 102, 106, 120, 121, 122, 123, 124, 125, 126, 134], "doc": [18, 23, 24, 28, 30, 51, 55, 87, 104, 105, 106, 120, 121, 122, 123, 124, 125, 142], "docker": [18, 25, 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130, "d": 130, "slu": 130, "bounding_box": 130, "mask_outsid": 130, "instanti": 130, "make_kml": 130, "cover": 130, "select": 130, "continent": 130, "shelf": 130, "sealevel": 131, "eta": 132, "init": 132, "spatial": [132, 154], "vari": [132, 154], "behavior": 132, "adjust": 132, "sea": 132, "seismic": 132, "deform": 132, "case": 132, "setaux": [133, 154], "desir": 135, "time": [136, 137, 139, 148, 154], "print": 137, "geo": 139, "maximum": 139, "arriv": 139, "share": 141, "local": 142, "src1d": [143, 154], "src": [144, 154], "statist": 148, "download": 149, "displac": 149, "topo": 150, "dtopo": 150, "topotool": 151, "f2py": 152, "ex": 152, "bathymetri": 153, "dart": 153, "buoi": 153, "tide": 153, "done": 154, "befor": 154, "visit": 155, "virtual": 156, "propag": 157, "space": 157, "godunov": 157, "high": 157, "formul": 157, "capac": 157}, "envversion": {"sphinx.domains.c": 2, "sphinx.domains.changeset": 1, "sphinx.domains.citation": 1, "sphinx.domains.cpp": 8, "sphinx.domains.index": 1, "sphinx.domains.javascript": 2, "sphinx.domains.math": 2, "sphinx.domains.python": 3, "sphinx.domains.rst": 2, "sphinx.domains.std": 2, "sphinx": 57}, "alltitles": {"ClawPlotAxes": [[0, "clawplotaxes"]], "Attributes": [[0, "attributes"], [1, "attributes"], [2, "attributes"], [3, "attributes"]], "Methods": [[0, "methods"], [1, "methods"], [2, "methods"], [3, "methods"]], "ClawPlotData": [[1, "clawplotdata"]], "ClawPlotFigure": [[2, "clawplotfigure"]], "ClawPlotItem": [[3, "clawplotitem"]], "Special attributes for all 1d plots, plot_type = \u20181d\u2026\u2019": [[3, "special-attributes-for-all-1d-plots-plot-type-1d"]], "Special attributes for plot_type = \u20181d_plot\u2019": [[3, "special-attributes-for-plot-type-1d-plot"]], "Special attributes for plot_type = \u20181d_fill_between\u2019": [[3, "special-attributes-for-plot-type-1d-fill-between"]], "Special attributes for plot_type = \u20181d_from_2d_data\u2019": [[3, "special-attributes-for-plot-type-1d-from-2d-data"]], "Special attributes for all 2d plots, plot_type = \u20182d\u2026\u2019": [[3, "special-attributes-for-all-2d-plots-plot-type-2d"]], "Special attributes for plot_type = \u20182d_contour\u2019": [[3, "special-attributes-for-plot-type-2d-contour"]], "Special attributes for plot_type = \u20182d_pcolor\u2019": [[3, "special-attributes-for-plot-type-2d-pcolor"]], "AMR Attributes": [[3, "amr-attributes"]], "About this software": [[4, "about-this-software"]], "License": [[4, "license"], [61, "license"], [81, "license"]], "Authors": [[4, "authors"]], "Citing this work": [[4, "citing-this-work"]], "Funding": [[4, "funding"], [81, "funding"]], "Guiding AMR with adjoint flagging": [[5, "guiding-amr-with-adjoint-flagging"]], "Using adjoint flagging in GeoClaw": [[5, "using-adjoint-flagging-in-geoclaw"]], "Adaptive mesh refinement (AMR) algorithms": [[6, "adaptive-mesh-refinement-amr-algorithms"]], "Ghost cells and boundary conditions for AMR": [[6, "ghost-cells-and-boundary-conditions-for-amr"]], "Choosing and initializing finer grids": [[6, "choosing-and-initializing-finer-grids"]], "Flagging cells for refinement": [[6, "flagging-cells-for-refinement"]], "For more details": [[6, "for-more-details"]], "AMRClaw Description and Detailed Contents": [[7, "amrclaw-description-and-detailed-contents"]], "AMRClaw for 1d problems": [[8, "amrclaw-for-1d-problems"]], "Old approach, deprecated:": [[8, "old-approach-deprecated"]], "Doxygen documentation of AMRClaw": [[9, "doxygen-documentation-of-amrclaw"]], "AMRClaw Flowcharts": [[10, "amrclaw-flowcharts"]], "Application documentation": [[11, "application-documentation"]], "Converting README.rst to README.html": [[11, "converting-readme-rst-to-readme-html"]], "Converting code to html with clawcode2html": [[11, "converting-code-to-html-with-clawcode2html"]], "Clawpack Applications repository": [[12, "clawpack-applications-repository"]], "Jupyter Notebooks": [[12, "jupyter-notebooks"]], "Submodules": [[12, "submodules"]], "Examples included with Clawpack": [[12, "examples-included-with-clawpack"]], "Amazon Web Services EC2 Clawpack AMI": [[13, "amazon-web-services-ec2-clawpack-ami"]], "Finding the Clawpack AMI": [[13, "finding-the-clawpack-ami"]], "Launching an instance": [[13, "launching-an-instance"]], "Logging on to your instance": [[13, "logging-on-to-your-instance"]], "Using Clawpack": [[13, "using-clawpack"]], "Viewing plots of results": [[13, "viewing-plots-of-results"]], "Viewing webpages directly from your instance": [[13, "viewing-webpages-directly-from-your-instance"]], "Transferring files to/from your instance": [[13, "transferring-files-to-from-your-instance"]], "Stopping your instance": [[13, "stopping-your-instance"]], "Creating your own AMI": [[13, "creating-your-own-ami"]], "b4run function": [[14, "b4run-function"]], "b4step default routines": [[15, "b4step-default-routines"]], "b4step routine in GeoClaw": [[15, "b4step-routine-in-geoclaw"]], "Boundary conditions": [[16, "boundary-conditions"], [157, "boundary-conditions"]], "Boundary conditions for adaptive refinement": [[16, "boundary-conditions-for-adaptive-refinement"]], "Boundary conditions for GeoClaw": [[16, "boundary-conditions-for-geoclaw"]], "Boundary conditions for clamshell grids on the sphere": [[16, "boundary-conditions-for-clamshell-grids-on-the-sphere"]], "User-defined boundary conditions": [[16, "user-defined-boundary-conditions"]], "Bibliography": [[17, "bibliography"]], "Papers describing the Clawpack software and algorithms": [[17, "papers-describing-the-clawpack-software-and-algorithms"]], "Papers describing applications": [[17, "papers-describing-applications"]], "Other references": [[17, "other-references"]], "Changes to master since v5.7.1": [[18, "changes-to-master-since-v5-7-1"]], "Changes that are not backward compatible": [[18, "changes-that-are-not-backward-compatible"], [121, "changes-that-are-not-backward-compatible"], [122, "changes-that-are-not-backward-compatible"], [123, "changes-that-are-not-backward-compatible"], [124, "changes-that-are-not-backward-compatible"], [125, "changes-that-are-not-backward-compatible"]], "General changes": [[18, "general-changes"], [121, "general-changes"], [122, "general-changes"], [123, "general-changes"], [124, "general-changes"], [125, "general-changes"]], "Changes to classic": [[18, "changes-to-classic"], [113, "changes-to-classic"], [114, "changes-to-classic"], [115, "changes-to-classic"], [116, "changes-to-classic"], [117, "changes-to-classic"], [118, "changes-to-classic"], [119, "changes-to-classic"], [120, "changes-to-classic"], [121, "changes-to-classic"], [122, "changes-to-classic"], [123, "changes-to-classic"], [124, "changes-to-classic"], [125, "changes-to-classic"]], "Changes to clawutil": [[18, "changes-to-clawutil"], [113, "changes-to-clawutil"], [114, "changes-to-clawutil"], [115, "changes-to-clawutil"], [116, "changes-to-clawutil"], [117, "changes-to-clawutil"], [118, "changes-to-clawutil"], [119, "changes-to-clawutil"], [120, "changes-to-clawutil"], [121, "changes-to-clawutil"], [122, "changes-to-clawutil"], [123, "changes-to-clawutil"], [124, "changes-to-clawutil"], [125, "changes-to-clawutil"]], "Changes to visclaw": [[18, "changes-to-visclaw"], [113, "changes-to-visclaw"], [114, "changes-to-visclaw"], [115, "changes-to-visclaw"], [116, "changes-to-visclaw"], [117, "changes-to-visclaw"], [118, "changes-to-visclaw"], [119, "changes-to-visclaw"], [120, "changes-to-visclaw"], [121, "changes-to-visclaw"], [122, "changes-to-visclaw"], [123, "changes-to-visclaw"], [124, "changes-to-visclaw"], [125, "changes-to-visclaw"]], "Changes to riemann": [[18, "changes-to-riemann"], [113, "changes-to-riemann"], [114, "changes-to-riemann"], [115, "changes-to-riemann"], [116, "changes-to-riemann"], [117, "changes-to-riemann"], [118, "changes-to-riemann"], [119, "changes-to-riemann"], [120, "changes-to-riemann"], [121, "changes-to-riemann"], [122, "changes-to-riemann"], [123, "changes-to-riemann"], [124, "changes-to-riemann"], [125, "changes-to-riemann"]], "Changes to amrclaw": [[18, "changes-to-amrclaw"], [113, "changes-to-amrclaw"], [114, "changes-to-amrclaw"], [115, "changes-to-amrclaw"], [116, "changes-to-amrclaw"], [117, "changes-to-amrclaw"], [118, "changes-to-amrclaw"], [119, "changes-to-amrclaw"], [120, "changes-to-amrclaw"], [121, "changes-to-amrclaw"], [122, "changes-to-amrclaw"], [123, "changes-to-amrclaw"], [124, "changes-to-amrclaw"], [125, "changes-to-amrclaw"]], "Changes to geoclaw": [[18, "changes-to-geoclaw"], [113, "changes-to-geoclaw"], [114, "changes-to-geoclaw"], [115, "changes-to-geoclaw"], [116, "changes-to-geoclaw"], [117, "changes-to-geoclaw"], [118, "changes-to-geoclaw"], [119, "changes-to-geoclaw"], [120, "changes-to-geoclaw"], [121, "changes-to-geoclaw"], [122, "changes-to-geoclaw"], [123, "changes-to-geoclaw"], [124, "changes-to-geoclaw"], [125, "changes-to-geoclaw"]], "Changes to PyClaw": [[18, "changes-to-pyclaw"], [112, "changes-to-pyclaw"], [113, "changes-to-pyclaw"], [114, "changes-to-pyclaw"], [115, "changes-to-pyclaw"], [116, "changes-to-pyclaw"], [117, "changes-to-pyclaw"], [118, "changes-to-pyclaw"], [119, "changes-to-pyclaw"], [120, "changes-to-pyclaw"], [121, "changes-to-pyclaw"], [122, "changes-to-pyclaw"], [123, "changes-to-pyclaw"], [124, "changes-to-pyclaw"], [125, "changes-to-pyclaw"]], "Other Clawpack Repositories": [[18, "other-clawpack-repositories"], [120, "other-clawpack-repositories"], [121, "other-clawpack-repositories"], [122, "other-clawpack-repositories"], [123, "other-clawpack-repositories"], [124, "other-clawpack-repositories"], [125, "other-clawpack-repositories"]], "Converting from Clawpack 4.3 to 4.6": [[19, "converting-from-clawpack-4-3-to-4-6"]], "Converting from Clawpack 4.6 to 5.0": [[20, "converting-from-clawpack-4-6-to-5-0"]], "Python conversion tool": [[20, "python-conversion-tool"]], "Clawpack 4.x links": [[21, "clawpack-4-x-links"]], "Changes in Clawpack 5.0": [[22, "changes-in-clawpack-5-0"]], "PyClaw in 5.0": [[22, "pyclaw-in-5-0"]], "Fortran package changes": [[22, "fortran-package-changes"]], "Changes to input parameters in setrun.py from 4.x to 5.0": [[22, "changes-to-input-parameters-in-setrun-py-from-4-x-to-5-0"]], "Changes to general parameters": [[22, "changes-to-general-parameters"]], "Changes to AMR parameters": [[22, "changes-to-amr-parameters"]], "Changes to GeoClaw parameters": [[22, "changes-to-geoclaw-parameters"]], "Changes to plotting routines": [[22, "changes-to-plotting-routines"]], "Clawpack components": [[23, "clawpack-components"]], "Other repositories": [[23, "other-repositories"]], "Clawpack Community": [[24, "clawpack-community"]], "User Workshops, Clinics, and Tutorials": [[24, "user-workshops-clinics-and-tutorials"]], "Available for streaming": [[24, "available-for-streaming"]], "Upcoming": [[24, "upcoming"], [24, "id1"]], "Recent": [[24, "recent"]], "Developer Workshops and Sprint Sessions": [[24, "developer-workshops-and-sprint-sessions"]], "Previous": [[24, "previous"]], "Other Clawpack events": [[24, "other-clawpack-events"]], "Contents": [[25, "id1"], [28, "contents"], [39, "contents"], [66, "contents"], [77, "contents"], [83, "contents"], [93, "contents"], [99, "contents"], [105, "contents"], [111, "contents"], [130, "contents"]], "Full Table of Contents": [[25, "full-table-of-contents"]], "Overview and Getting Started": [[25, "overview-and-getting-started"]], "Examples and Applications": [[25, "examples-and-applications"]], "Classic, AMRClaw, and GeoClaw": [[25, "classic-amrclaw-and-geoclaw"]], "Using the Fortran codes": [[25, "using-the-fortran-codes"]], "AMRClaw: adaptive mesh refinement": [[25, "amrclaw-adaptive-mesh-refinement"]], "GeoClaw: geophysical flows": [[25, "geoclaw-geophysical-flows"]], "PyClaw": [[25, "pyclaw"], [35, "pyclaw"], [111, "pyclaw"], [147, "pyclaw"]], "Riemann": [[25, "riemann"]], "VisClaw: Plotting and Visualization Tools": [[25, "visclaw-plotting-and-visualization-tools"]], "Migrating applications from older versions of Clawpack": [[25, "migrating-applications-from-older-versions-of-clawpack"]], "Developers\u2019 resources": [[25, "developers-resources"]], "References": [[25, "references"], [52, "references"]], "Contributing examples and applications": [[26, "contributing-examples-and-applications"]], "current_data": [[27, "current-data"]], "Attributes of current_data:": [[27, "attributes-of-current-data"]], "Developers\u2019 Guide": [[28, "developers-guide"]], "Guidelines for contributing": [[28, "guidelines-for-contributing"]], "Reporting and fixing bugs": [[28, "reporting-and-fixing-bugs"]], "Developer communication": [[28, "developer-communication"]], "Installation instructions for developers": [[28, "installation-instructions-for-developers"]], "Cloning the most recent code from Github": [[28, "cloning-the-most-recent-code-from-github"]], "Checking out the master branch on each repository": [[28, "checking-out-the-master-branch-on-each-repository"]], "Updating to the latest master branch": [[28, "updating-to-the-latest-master-branch"]], "Never commit to master": [[28, "never-commit-to-master"]], "Adding your fork as a remote": [[28, "adding-your-fork-as-a-remote"]], "Modifying code": [[28, "modifying-code"]], "Issuing a pull request": [[28, "issuing-a-pull-request"]], "Testing a pull request": [[28, "testing-a-pull-request"]], "Top-level pull requests": [[28, "top-level-pull-requests"]], "Git workflow": [[28, "git-workflow"]], "Catching errors with Pyflakes and Pylint": [[28, "catching-errors-with-pyflakes-and-pylint"]], "Checking test coverage": [[28, "checking-test-coverage"]], "Trouble-Shooting Tips": [[28, "trouble-shooting-tips"]], "Docker for Clawpack": [[29, "docker-for-clawpack"]], "A better image for GeoClaw users": [[29, "a-better-image-for-geoclaw-users"]], "Stopping a container": [[29, "stopping-a-container"]], "Restarting a container": [[29, "restarting-a-container"]], "Running Jupyter notebooks": [[29, "running-jupyter-notebooks"]], "Moving files between the docker container and the host machine": [[29, "moving-files-between-the-docker-container-and-the-host-machine"]], "Some other useful docker commands": [[29, "some-other-useful-docker-commands"]], "Creating your own docker image": [[29, "creating-your-own-docker-image"]], "Dockerfiles for binder": [[29, "dockerfiles-for-binder"]], "dtopotools module for moving topography": [[30, "dtopotools-module-for-moving-topography"]], "Documentation auto-generated from the module docstrings": [[30, "module-clawpack.geoclaw.dtopotools"], [33, "module-clawpack.geoclaw.fgmax_tools"], [47, "module-clawpack.geoclaw.util"], [59, "module-clawpack.geoclaw.kmltools"], [151, "module-clawpack.geoclaw.topotools"]], "Fortran 77 vs. Fortran 90 files": [[31, "fortran-77-vs-fortran-90-files"]], "Fixed grid monitoring": [[32, "fixed-grid-monitoring"]], "Input file specification": [[32, "input-file-specification"]], "Different point styles": [[32, "different-point-styles"]], "Other attributes": [[32, "other-attributes"]], "Values to monitor": [[32, "values-to-monitor"]], "Choice of interpolation procedure": [[32, "choice-of-interpolation-procedure"]], "A simple example": [[32, "a-simple-example"]], "Processing and plotting fgmax output": [[32, "processing-and-plotting-fgmax-output"]], "Format of the output files": [[32, "format-of-the-output-files"]], "fgmax_tools module for working with topography data": [[33, "fgmax-tools-module-for-working-with-topography-data"]], "Fixed grid output": [[34, "fixed-grid-output"]], "Running an example": [[35, "running-an-example"], [36, "running-an-example"], [37, "running-an-example"]], "Classic": [[35, "classic"], [36, "classic"], [147, "classic"]], "Testing your Fortran installation and running an example": [[36, "testing-your-fortran-installation-and-running-an-example"]], "More examples": [[36, "more-examples"]], "Testing a PyClaw installation and running an example": [[37, "testing-a-pyclaw-installation-and-running-an-example"]], "From the Jupyter notebook": [[37, "from-the-jupyter-notebook"]], "From the IPython interpreter": [[37, "from-the-ipython-interpreter"]], "From the command line": [[37, "from-the-command-line"], [88, "from-the-command-line"]], "Specifying flagregions for adaptive refinement": [[38, "specifying-flagregions-for-adaptive-refinement"]], "Using ruled rectangles as flagregions": [[38, "using-ruled-rectangles-as-flagregions"]], "Force Cells to be Dry Initially": [[39, "force-cells-to-be-dry-initially"]], "Examples": [[39, "examples"], [44, "examples"], [66, "examples"], [91, "examples"], [130, "examples"]], "Sample topography from a 1/3 arcsecond DEM": [[39, "sample-topography-from-a-1-3-arcsecond-dem"], [66, "sample-topography-from-a-1-3-arcsecond-dem"]], "Creating the force_dry_init array": [[39, "creating-the-force-dry-init-array"]], "Create file to read into GeoClaw": [[39, "create-file-to-read-into-geoclaw"]], "Usage in GeoClaw Fortran code": [[39, "usage-in-geoclaw-fortran-code"]], "Internal GeoClaw modifications": [[39, "internal-geoclaw-modifications"]], "Fortran version": [[40, "fortran-version"]], "Makefiles": [[40, "makefiles"]], "More tips": [[40, "more-tips"]], "Fortran Compilers": [[41, "fortran-compilers"]], "FC environment variable": [[41, "fc-environment-variable"]], "FFLAGS environment variable": [[41, "fflags-environment-variable"]], "LFLAGS environment variable": [[41, "lflags-environment-variable"]], "Pre-Processor and the PPFLAGS environment variable": [[41, "pre-processor-and-the-ppflags-environment-variable"]], "gfortran compiler": [[41, "gfortran-compiler"]], "Intel fortran compiler": [[41, "intel-fortran-compiler"]], "Examples from the book FVMHP": [[42, "examples-from-the-book-fvmhp"]], "Available examples": [[42, "available-examples"]], "Gauges": [[44, "gauges"]], "Gauge parameters in setrun": [[44, "gauge-parameters-in-setrun"]], "Plotting tools": [[44, "plotting-tools"]], "Plotting gauge locations": [[44, "plotting-gauge-locations"]], "GeoClaw Description and Detailed Contents": [[45, "geoclaw-description-and-detailed-contents"]], "Getting started with GeoClaw": [[46, "getting-started-with-geoclaw"]], "Running a GeoClaw code": [[46, "running-a-geoclaw-code"]], "Topography": [[46, "topography"]], "Plotting GeoClaw results": [[46, "plotting-geoclaw-results"]], "Setting up a new example": [[46, "setting-up-a-new-example"]], "geoclaw.util module of utility functions": [[47, "geoclaw-util-module-of-utility-functions"]], "Cautionary Hints on using GeoClaw": [[48, "cautionary-hints-on-using-geoclaw"]], "Tsunami hazard modeling": [[48, "tsunami-hazard-modeling"]], "GeoClaw plotting tools": [[49, "geoclaw-plotting-tools"]], "Plotting water depth or surface elevation": [[49, "plotting-water-depth-or-surface-elevation"]], "Tips on latitude-longitude coordinate axes": [[49, "tips-on-latitude-longitude-coordinate-axes"]], "Keeping track of repository versions with Git": [[50, "keeping-track-of-repository-versions-with-git"]], "Visualizing GeoClaw results in Google Earth": [[51, "visualizing-geoclaw-results-in-google-earth"]], "Basic requirements": [[51, "basic-requirements"]], "Optional GDAL library": [[51, "optional-gdal-library"]], "An example : The Chile 2010 tsunami event": [[51, "an-example-the-chile-2010-tsunami-event"]], "Plotting attributes needed for Google Earth": [[51, "plotting-attributes-needed-for-google-earth"]], "plotdata attributes": [[51, "plotdata-attributes"]], "plotfigure attributes": [[51, "plotfigure-attributes"]], "Creating the figures": [[51, "creating-the-figures"]], "plotaxes attributes": [[51, "plotaxes-attributes"]], "plotitem attributes": [[51, "plotitem-attributes"]], "Adding a colorbar overlay": [[51, "adding-a-colorbar-overlay"]], "Gauge plots": [[51, "gauge-plots"]], "Additional plotdata attributes": [[51, "additional-plotdata-attributes"]], "Plotting tips": [[51, "plotting-tips"]], "KML and KMZ files": [[51, "kml-and-kmz-files"]], "Tiling images for faster loading": [[51, "tiling-images-for-faster-loading"]], "Removing aliasing artifacts": [[51, "removing-aliasing-artifacts"]], "Creating multiple figures at different resolutions": [[51, "creating-multiple-figures-at-different-resolutions"]], "Mapping topography data to latitude/longitude coordinates": [[51, "mapping-topography-data-to-latitude-longitude-coordinates"]], "Publishing your results": [[51, "id1"]], "Using the GPU version of Clawpack": [[52, "using-the-gpu-version-of-clawpack"]], "Grid registration": [[53, "grid-registration"]], "NetCDF files": [[53, "netcdf-files"]], "Guide for updating this documentation": [[54, "guide-for-updating-this-documentation"]], "Git branches and tags": [[54, "git-branches-and-tags"]], "Configuration and style files": [[54, "configuration-and-style-files"]], "Updating the docs for a new release": [[54, "updating-the-docs-for-a-new-release"]], "To generate docs including previous versions": [[54, "to-generate-docs-including-previous-versions"]], "Updating the gallery": [[54, "updating-the-gallery"]], "Updating the webpages": [[54, "updating-the-webpages"]], "Extra files for webpages not built by Sphinx": [[54, "extra-files-for-webpages-not-built-by-sphinx"]], "Pages from other clawpack repositories": [[54, "pages-from-other-clawpack-repositories"]], "Guide for doing a Clawpack release": [[55, "guide-for-doing-a-clawpack-release"]], "Preparation": [[55, "preparation"]], "Version numbers": [[55, "version-numbers"]], "Release candidates": [[55, "release-candidates"]], "Create a tar file and a Github release": [[55, "create-a-tar-file-and-a-github-release"]], "Final release": [[55, "final-release"]], "Pypi": [[55, "pypi"]], "Zenodo": [[55, "zenodo"]], "Updating the documentation": [[55, "updating-the-documentation"]], "Updating the apps repository": [[55, "updating-the-apps-repository"]], "Updating the Dockerfile": [[55, "updating-the-dockerfile"]], "Installing Clawpack": [[56, "installing-clawpack"]], "pip install": [[56, "pip-install"]], "Other Installation Options": [[56, "other-installation-options"]], "Next steps:": [[56, "next-steps"], [57, "next-steps"], [58, "next-steps"]], "Additional options for installing Clawpack": [[57, "additional-options-for-installing-clawpack"]], "tar file": [[57, "tar-file"]], "git clone": [[57, "git-clone"]], "Using conda (does not require a Fortran compiler)": [[57, "using-conda-does-not-require-a-fortran-compiler"]], "Docker": [[57, "docker"]], "Launching an AWS instance with Clawpack installed": [[57, "launching-an-aws-instance-with-clawpack-installed"]], "Installing PyClaw for parallel processing with PETSc": [[57, "installing-pyclaw-for-parallel-processing-with-petsc"]], "pip install instructions": [[58, "pip-install-instructions"]], "Quick Installation of all packages": [[58, "quick-installation-of-all-packages"]], "Quick Installation of only PyClaw": [[58, "quick-installation-of-only-pyclaw"]], "Using pip to install a different version": [[58, "using-pip-to-install-a-different-version"]], "Experimenting with code in the examples directories": [[58, "experimenting-with-code-in-the-examples-directories"]], "Troubleshooting pip install": [[58, "troubleshooting-pip-install"]], "kmltools module of utility functions": [[59, "kmltools-module-of-utility-functions"]], "Lagrangian gauges for particle tracking": [[60, "lagrangian-gauges-for-particle-tracking"]], "Specifying Lagrangian Gauges": [[60, "specifying-lagrangian-gauges"]], "Visclaw tools for plotting": [[60, "visclaw-tools-for-plotting"]], "Clawpack Makefiles": [[62, "clawpack-makefiles"]], "Applications directory Makefiles": [[62, "applications-directory-makefiles"]], "output": [[62, "output"]], "plots": [[62, "plots"]], "Variables": [[62, "variables"]], "Compiler flags": [[62, "compiler-flags"]], "Duplicate Base Source Name": [[62, "duplicate-base-source-name"]], "Library routines in Makefiles": [[63, "library-routines-in-makefiles"]], "Replacing files with the same name as library files": [[63, "replacing-files-with-the-same-name-as-library-files"]], "Using a modified library routine with a different name": [[63, "using-a-modified-library-routine-with-a-different-name"]], "Manning friction term": [[64, "manning-friction-term"]], "The mapc2p function": [[65, "the-mapc2p-function"]], "Marching Front algorithm": [[66, "marching-front-algorithm"]], "Function arguments": [[66, "function-arguments"]], "output array": [[66, "output-array"]], "creating a masked array": [[66, "creating-a-masked-array"]], "topofile mask for initializing dry points": [[66, "topofile-mask-for-initializing-dry-points"]], "fgmax points": [[66, "fgmax-points"]], "flag regions": [[66, "flag-regions"]], "The mask argument": [[66, "the-mask-argument"]], "The previous_pts_chosen argument": [[66, "the-previous-pts-chosen-argument"]], "Finding all points below a given elevation": [[66, "finding-all-points-below-a-given-elevation"]], "Create a buffer zone along shore": [[66, "create-a-buffer-zone-along-shore"]], "Choose points only near shore": [[66, "choose-points-only-near-shore"]], "Write out the masked array indicating fgmax points": [[66, "write-out-the-masked-array-indicating-fgmax-points"]], "Creating an AMR flag region": [[66, "creating-an-amr-flag-region"]], "Determining dry areas below MHW": [[66, "determining-dry-areas-below-mhw"]], "Plotting using Matlab": [[67, "plotting-using-matlab"]], "The Matlab search path": [[67, "the-matlab-search-path"]], "Creating output files": [[67, "creating-output-files"]], "The plotclaw command": [[67, "the-plotclaw-command"]], "The setplot file": [[67, "the-setplot-file"]], "The afterframe file": [[67, "the-afterframe-file"]], "Getting help": [[67, "getting-help"]], "Trouble shooting": [[67, "trouble-shooting"]], "Output files not found": [[67, "output-files-not-found"]], "MaxFrames not set": [[67, "maxframes-not-set"]], "Switching examples": [[67, "switching-examples"]], "Matlab Gallery": [[67, "matlab-gallery"]], "Using NetCDF output": [[68, "using-netcdf-output"]], "To install netcdf": [[68, "to-install-netcdf"]], "To compile with netcdf": [[68, "to-compile-with-netcdf"]], "To plot the results": [[68, "to-plot-the-results"]], "Creating a new application directory": [[69, "creating-a-new-application-directory"]], "Copying an existing example": [[69, "copying-an-existing-example"]], "Earthquake sources: Fault slip and the Okada model": [[70, "earthquake-sources-fault-slip-and-the-okada-model"]], "Fault slip on rectangular subfaults": [[70, "fault-slip-on-rectangular-subfaults"]], "Okada model": [[70, "okada-model"]], "Kinematic rupture": [[70, "kinematic-rupture"]], "Fault slip on triangular subfaults": [[70, "fault-slip-on-triangular-subfaults"]], "Using OpenMP": [[71, "using-openmp"]], "Using OpenMP with AMR": [[71, "using-openmp-with-amr"]], "Fixed grid output in GeoClaw": [[71, "fixed-grid-output-in-geoclaw"]], "Output data formats": [[72, "output-data-formats"]], "ASCII output data format": [[72, "ascii-output-data-format"]], "fort.t0002": [[72, "fort-t0002"]], "fort.q0002": [[72, "fort-q0002"]], "Raw binary output data format": [[72, "raw-binary-output-data-format"]], "NetCDF output data format": [[72, "netcdf-output-data-format"]], "Output of aux arrays": [[72, "output-of-aux-arrays"]], "Which Clawpack solver should I use?": [[73, "which-clawpack-solver-should-i-use"]], "Installation and user interface": [[73, "installation-and-user-interface"]], "Algorithmic differences": [[73, "algorithmic-differences"]], "Parallel computing": [[73, "parallel-computing"]], "Clawpack Community Photos": [[74, "clawpack-community-photos"]], "2016 Developers\u2019 workshop at University of Washington": [[74, "id1"]], "2015 Developers\u2019 workshop at University of Utah": [[74, "id2"]], "2014 HPC3 workshop at KAUST": [[74, "id3"]], "2013 Claw-Dev workshop at UW": [[74, "id4"]], "2012 HPC3 workshop at KAUST": [[74, "id6"]], "2011 coding sprints at UW": [[74, "coding-sprints-at-uw"]], "2010 GeoClaw hacking UW": [[74, "geoclaw-hacking-uw"]], "Plotting examples": [[75, "plotting-examples"]], "Plotting with Visclaw": [[76, "plotting-with-visclaw"]], "Plotting as post-processing": [[76, "plotting-as-post-processing"]], "Plotting on the fly": [[76, "plotting-on-the-fly"]], "Plotting hints and FAQ": [[77, "plotting-hints-and-faq"]], "What\u2019s the difference between make .plots and make plots ?": [[77, "what-s-the-difference-between-make-plots-and-make-plots"]], "How to plot a something other than a component of q?": [[77, "how-to-plot-a-something-other-than-a-component-of-q"]], "How to add another curve to a plot, e.g. the true solution?": [[77, "how-to-add-another-curve-to-a-plot-e-g-the-true-solution"]], "How to change the title in a plot?": [[77, "how-to-change-the-title-in-a-plot"]], "How to specify outdir, the directory to find fort.* files for plotting?": [[77, "how-to-specify-outdir-the-directory-to-find-fort-files-for-plotting"]], "How to specify a different outdir for some plot item?": [[77, "how-to-specify-a-different-outdir-for-some-plot-item"]], "How to set plot parameters that are not provided as attributes of ClawPlotItem?": [[77, "how-to-set-plot-parameters-that-are-not-provided-as-attributes-of-clawplotitem"]], "How to change the size or background color of a figure?": [[77, "how-to-change-the-size-or-background-color-of-a-figure"]], "Specifying colormaps for pcolor or contourf plots": [[77, "specifying-colormaps-for-pcolor-or-contourf-plots"]], "How to debug setplot.py?": [[77, "how-to-debug-setplot-py"]], "Plotting routines for GeoClaw": [[78, "plotting-routines-for-geoclaw"]], "Plotting options in Python": [[79, "plotting-options-in-python"]], "Producing html plots from the command line": [[79, "producing-html-plots-from-the-command-line"]], "Producing a latex file with plots from the command line": [[79, "producing-a-latex-file-with-plots-from-the-command-line"]], "Setting plot parameters with a setplot function": [[79, "setting-plot-parameters-with-a-setplot-function"]], "Interactive plotting with Iplotclaw": [[79, "interactive-plotting-with-iplotclaw"]], "Access to current_data": [[79, "access-to-current-data"]], "printframes": [[79, "printframes"]], "Specifying what and how to plot": [[79, "specifying-what-and-how-to-plot"]], "Installation Prerequisites": [[80, "installation-prerequisites"]], "Operating system": [[80, "operating-system"]], "Fortran": [[80, "fortran"]], "Python": [[80, "python"]], "pip": [[80, "pip"]], "Git": [[80, "git"]], "About PyClaw": [[81, "about-pyclaw"]], "Contributors": [[81, "contributors"]], "PyClaw Basics": [[82, "pyclaw-basics"]], "Understanding Pyclaw Classes": [[83, "understanding-pyclaw-classes"]], "Flow of a Pyclaw Simulation": [[83, "flow-of-a-pyclaw-simulation"]], "Creation of a Pyclaw Solution": [[83, "creation-of-a-pyclaw-solution"]], "Creation of a Pyclaw Solver": [[83, "creation-of-a-pyclaw-solver"]], "Creating and Running a Simulation with Controller": [[83, "creating-and-running-a-simulation-with-controller"]], "Restarting a simulation": [[83, "restarting-a-simulation"]], "Outputting aux values": [[83, "outputting-aux-values"]], "Outputting derived quantities": [[83, "outputting-derived-quantities"], [93, "outputting-derived-quantities"]], "Porting a problem from Clawpack 4.6.x to PyClaw": [[84, "porting-a-problem-from-clawpack-4-6-x-to-pyclaw"]], "Running PyClaw in the cloud": [[85, "running-pyclaw-in-the-cloud"]], "Sage Math Cloud": [[85, "sage-math-cloud"]], "Pyclaw Controller Class": [[86, "pyclaw-controller-class"]], "pyclaw.controller.Controller": [[86, "pyclaw-controller-controller"]], "Pyclaw Limiters": [[87, "pyclaw-limiters"]], "clawpack.pyclaw.limiters.tvd": [[87, "module-clawpack.pyclaw.limiters.tvd"]], "CFL Independent Limiters": [[87, "cfl-independent-limiters"]], "CFL Dependent Limiters": [[87, "cfl-dependent-limiters"]], "Working with PyClaw\u2019s built-in examples": [[88, "working-with-pyclaw-s-built-in-examples"]], "Running and plotting examples": [[88, "running-and-plotting-examples"]], "Interactively in IPython": [[88, "interactively-in-ipython"]], "Built-in examples": [[88, "built-in-examples"]], "Adding new examples": [[88, "adding-new-examples"]], "PyClaw Geometry": [[89, "pyclaw-geometry"]], "Serial Geometry Objects": [[89, "serial-geometry-objects"]], "pyclaw.geometry.Domain": [[89, "pyclaw-geometry-domain"]], "pyclaw.geometry.Patch": [[89, "pyclaw-geometry-patch"]], "pyclaw.geometry.Grid": [[89, "pyclaw-geometry-grid"]], "pyclaw.geometry.Dimension": [[89, "pyclaw-geometry-dimension"]], "Parallel Geometry Objects": [[89, "parallel-geometry-objects"]], "petclaw.geometry.Domain": [[89, "petclaw-geometry-domain"]], "petclaw.geometry.Patch": [[89, "petclaw-geometry-patch"]], "Going Further": [[90, "going-further"]], "Pyclaw": [[91, "pyclaw"]], "PyClaw installation": [[91, "pyclaw-installation"]], "Features": [[91, "features"]], "PyClaw Documentation": [[91, "pyclaw-documentation"]], "PyClaw Modules reference documentation": [[91, "pyclaw-modules-reference-documentation"]], "Riemann Solvers reference documentation": [[91, "riemann-solvers-reference-documentation"]], "Indices and tables": [[91, "indices-and-tables"]], "Citing PyClaw": [[91, "citing-pyclaw"]], "Pyclaw Input/Output Package": [[92, "pyclaw-input-output-package"]], "pyclaw.fileio.ascii": [[92, "module-clawpack.pyclaw.fileio.ascii"]], "pyclaw.fileio.hdf5": [[92, "pyclaw-fileio-hdf5"]], "pyclaw.fileio.netcdf": [[92, "module-clawpack.pyclaw.fileio.netcdf"]], "PyClaw output": [[93, "pyclaw-output"]], "Output frames": [[93, "output-frames"]], "When output is saved/written": [[93, "when-output-is-saved-written"]], "Where and how output is written": [[93, "where-and-how-output-is-written"]], "What output is written": [[93, "what-output-is-written"]], "Outputting functionals": [[93, "outputting-functionals"]], "Using gauges": [[93, "using-gauges"]], "Logging": [[93, "logging"]], "Running in parallel": [[94, "running-in-parallel"]], "Installing PETSc": [[94, "installing-petsc"]], "Testing your installation": [[94, "testing-your-installation"], [147, "testing-your-installation"]], "Running and plotting an example": [[94, "running-and-plotting-an-example"]], "Tips for making your application run correctly in parallel": [[94, "tips-for-making-your-application-run-correctly-in-parallel"]], "Passing options to PETSc": [[94, "passing-options-to-petsc"]], "Plotting PyClaw results": [[95, "plotting-pyclaw-results"]], "Basics": [[95, "basics"]], "Plotting result from parallel runs": [[95, "plotting-result-from-parallel-runs"]], "Setting up your own problem": [[96, "setting-up-your-own-problem"]], "Writing the initialization script": [[96, "writing-the-initialization-script"]], "Setting initial conditions": [[96, "setting-initial-conditions"]], "Setting auxiliary variables": [[96, "setting-auxiliary-variables"]], "Setting boundary conditions": [[96, "setting-boundary-conditions"]], "Setting solver options": [[96, "setting-solver-options"]], "Using your own Riemann solver": [[96, "using-your-own-riemann-solver"]], "Adding source terms": [[96, "adding-source-terms"]], "Setting up the Makefile": [[96, "setting-up-the-makefile"]], "Riemann Solver Package": [[97, "riemann-solver-package"]], "Acoustics": [[97, "acoustics"]], "Advection": [[97, "advection"]], "Burgers Equation": [[97, "burgers-equation"]], "Euler Equations": [[97, "euler-equations"]], "Shallow Water Equations": [[97, "shallow-water-equations"]], "PyClaw Solutions": [[98, "pyclaw-solutions"]], "pyclaw.solution.Solution": [[98, "pyclaw-solution-solution"]], "Using PyClaw\u2019s solvers: Classic and SharpClaw": [[99, "using-pyclaw-s-solvers-classic-and-sharpclaw"]], "SharpClaw Solvers": [[99, "sharpclaw-solvers"]], "pyclaw.sharpclaw": [[99, "pyclaw-sharpclaw"]], "Pyclaw Classic Clawpack Solvers": [[99, "pyclaw-classic-clawpack-solvers"]], "pyclaw.classic.solver": [[99, "pyclaw-classic-solver"]], "Change to Custom BC Function Signatures": [[99, "change-to-custom-bc-function-signatures"]], "Installing PyClaw": [[100, "installing-pyclaw"]], "Dependencies: Python, gfortran, numpy, and matplotlib": [[100, "dependencies-python-gfortran-numpy-and-matplotlib"]], "Obtaining Python, numpy, and matplotlib": [[100, "obtaining-python-numpy-and-matplotlib"]], "Clawpack": [[100, "clawpack"]], "Testing your installation with nose": [[100, "testing-your-installation-with-nose"]], "Next steps": [[100, "next-steps"]], "PyClaw State": [[101, "pyclaw-state"]], "Serial pyclaw.state.State": [[101, "serial-pyclaw-state-state"]], "Parallel petclaw.state.State": [[101, "parallel-petclaw-state-state"]], "Troubleshooting": [[102, "troubleshooting"], [152, "troubleshooting"]], "Compilation errors": [[102, "compilation-errors"]], "Use Fortran-ordered arrays": [[102, "use-fortran-ordered-arrays"]], "Installation": [[102, "installation"]], "PyClaw tutorial: Solve the acoustics equations": [[103, "pyclaw-tutorial-solve-the-acoustics-equations"]], "The Solver": [[103, "the-solver"]], "The domain": [[103, "the-domain"]], "Initial condition": [[103, "initial-condition"]], "Problem-specific parameters": [[103, "problem-specific-parameters"]], "The controller": [[103, "the-controller"]], "Pyclaw Utility Module": [[104, "pyclaw-utility-module"]], "pyclaw.util": [[104, "module-clawpack.pyclaw.util"]], "Python Hints": [[105, "python-hints"]], "Dropping support for Python 2.7": [[105, "dropping-support-for-python-2-7"]], "What is Python?": [[105, "what-is-python"]], "Installation of required modules": [[105, "installation-of-required-modules"]], "References and tutorials": [[105, "references-and-tutorials"]], "Notebooks": [[105, "notebooks"]], "Python path": [[106, "python-path"]], "whichclaw.py": [[106, "whichclaw-py"]], "Which version was imported?": [[106, "which-version-was-imported"]], "sys.path": [[106, "sys-path"]], "easy-install.pth": [[106, "easy-install-pth"]], "PYTHONPATH": [[106, "pythonpath"], [134, "pythonpath"]], "qinit default routines": [[107, "qinit-default-routines"]], "qinit routine in GeoClaw": [[107, "qinit-routine-in-geoclaw"]], "Quick start guide for storm surge modeling": [[108, "quick-start-guide-for-storm-surge-modeling"]], "Quick start guide for tsunami modeling": [[109, "quick-start-guide-for-tsunami-modeling"]], "AMR refinement criteria": [[110, "amr-refinement-criteria"]], "Flagging criteria": [[110, "flagging-criteria"]], "flag2refine": [[110, "flag2refine"]], "Richardson extrapolation": [[110, "richardson-extrapolation"]], "Specifying AMR regions": [[110, "specifying-amr-regions"]], "Implementation": [[110, "implementation"]], "Flagging criteria in GeoClaw": [[110, "flagging-criteria-in-geoclaw"]], "Regression testing": [[111, "regression-testing"]], "Running the tests": [[111, "running-the-tests"], [111, "id2"]], "Fortran codes": [[111, "fortran-codes"]], "Travis continuous integration": [[111, "travis-continuous-integration"]], "Diff tools for checking test output": [[111, "diff-tools-for-checking-test-output"]], "chardiff tool for line-by-line comparison of output files": [[111, "chardiff-tool-for-line-by-line-comparison-of-output-files"]], "imagediff tool for pixel comparison of plots": [[111, "imagediff-tool-for-pixel-comparison-of-plots"]], "Running and writing tests in PyClaw": [[111, "running-and-writing-tests-in-pyclaw"]], "Running serial tests simultaneously": [[111, "running-serial-tests-simultaneously"]], "Running a specific test": [[111, "running-a-specific-test"]], "Doctests": [[111, "doctests"]], "Writing New Tests": [[111, "writing-new-tests"]], "v5.0.0 release notes": [[112, "v5-0-0-release-notes"]], "Changes to classic, riemann, amrclaw, geoclaw, visclaw": [[112, "changes-to-classic-riemann-amrclaw-geoclaw-visclaw"]], "v5.1.0 release notes": [[113, "v5-1-0-release-notes"]], "v5.2.0 release notes": [[114, "v5-2-0-release-notes"]], "v5.2.1 release notes": [[115, "v5-2-1-release-notes"]], "v5.2.2 release notes": [[116, "v5-2-2-release-notes"]], "v5.3.0 release notes": [[117, "v5-3-0-release-notes"]], "v5.3.1 release notes": [[118, "v5-3-1-release-notes"]], "v5.4.0 release notes": [[119, "v5-4-0-release-notes"]], "Global changes": [[119, "global-changes"]], "v5.4.1 release notes": [[120, "v5-4-1-release-notes"]], "Changes to documentation": [[120, "changes-to-documentation"], [121, "changes-to-documentation"]], "v5.5.0 release notes": [[121, "v5-5-0-release-notes"]], "v5.6.0 release notes": [[122, "v5-6-0-release-notes"]], "v5.6.1 release notes": [[123, "v5-6-1-release-notes"]], "v5.7.0 release notes": [[124, "v5-7-0-release-notes"]], "Python support": [[124, "python-support"]], "v5.7.1 release notes": [[125, "v5-7-1-release-notes"]], "Releases of Clawpack and release notes": [[126, "releases-of-clawpack-and-release-notes"]], "Other notes:": [[126, "other-notes"]], "Releases:": [[126, "id1"]], "Clawpack 4.x": [[126, "clawpack-4-x"]], "Checkpointing and restarting": [[127, "checkpointing-and-restarting"]], "Checkpointing a computation": [[127, "checkpointing-a-computation"]], "Restarting a computation": [[127, "restarting-a-computation"]], "Modifying the Makefile for a restart": [[127, "modifying-the-makefile-for-a-restart"]], "Output files after a restart": [[127, "output-files-after-a-restart"]], "Riemann solvers": [[128, "riemann-solvers"]], "One-dimensional Riemann solver": [[128, "one-dimensional-riemann-solver"]], "Pointwise Riemann solvers": [[128, "pointwise-riemann-solvers"]], "f-wave Riemann solvers": [[128, "f-wave-riemann-solvers"]], "2D Riemann solvers": [[128, "d-riemann-solvers"]], "Using a custom solver": [[128, "using-a-custom-solver"]], "Adding a solver to the Riemann repository": [[128, "adding-a-solver-to-the-riemann-repository"]], "Shallow water Riemann solvers in Clawpack": [[129, "shallow-water-riemann-solvers-in-clawpack"]], "One dimension": [[129, "one-dimension"]], "Two dimensions": [[129, "two-dimensions"]], "Layered shallow water equations": [[129, "layered-shallow-water-equations"]], "Potentially useful contributions (what\u2019s missing)": [[129, "potentially-useful-contributions-whats-missing"]], "Demonstrations": [[129, "demonstrations"]], "Roe": [[129, "roe"]], "HLL": [[129, "hll"]], "Ruled Rectangles": [[130, "ruled-rectangles"]], "Relation to convex polygons": [[130, "relation-to-convex-polygons"]], "Other attributes and methods": [[130, "other-attributes-and-methods"]], "ds": [[130, "ds"]], "slu": [[130, "slu"]], "bounding_box": [[130, "bounding-box"]], "mask_outside": [[130, "mask-outside"]], "read and write, and instantiating from a file": [[130, "read-and-write-and-instantiating-from-a-file"]], "make_kml": [[130, "make-kml"]], "A GeoClaw AMR flag region": [[130, "a-geoclaw-amr-flag-region"]], "A simple rectangle": [[130, "a-simple-rectangle"]], "Defining a Ruled Rectangle covering selected cells": [[130, "defining-a-ruled-rectangle-covering-selected-cells"]], "Example covering the continental shelf": [[130, "example-covering-the-continental-shelf"]], "Setting sealevel": [[131, "setting-sealevel"]], "Set Eta Init \u2013 spatially varying initial surface elevation": [[132, "set-eta-init-spatially-varying-initial-surface-elevation"]], "Default behavior, adjusting sea level by seismic deformation": [[132, "default-behavior-adjusting-sea-level-by-seismic-deformation"]], "Other use cases": [[132, "other-use-cases"]], "setaux default routines": [[133, "setaux-default-routines"]], "setaux routine in GeoClaw": [[133, "setaux-routine-in-geoclaw"]], "Set environment variables": [[134, "set-environment-variables"]], "CLAW": [[134, "claw"]], "FC": [[134, "fc"]], "Using setplot.py to specify the desired plots": [[135, "using-setplot-py-to-specify-the-desired-plots"]], "Plotting Data Objects": [[135, "plotting-data-objects"]], "Overview": [[135, "overview"]], "Specifying classic run-time parameters in setrun.py": [[136, "specifying-classic-run-time-parameters-in-setrun-py"]], "Input": [[136, "input"], [137, "input"]], "Output": [[136, "output"], [137, "output"]], "Run-time parameters": [[136, "run-time-parameters"], [137, "run-time-parameters"]], "Specifying AMRClaw run-time parameters in setrun.py": [[137, "specifying-amrclaw-run-time-parameters-in-setrun-py"]], "Special AMR parameters": [[137, "special-amr-parameters"]], "Debugging flags for additional printing": [[137, "debugging-flags-for-additional-printing"]], "Sample setrun.py module for AMRClaw": [[138, "sample-setrun-py-module-for-amrclaw"]], "Specifying GeoClaw parameters in setrun.py": [[139, "specifying-geoclaw-parameters-in-setrun-py"]], "Additional AMR parameters": [[139, "additional-amr-parameters"]], "General geo parameters": [[139, "general-geo-parameters"]], "Topography data file parameters": [[139, "topography-data-file-parameters"]], "qinit data file parameters": [[139, "qinit-data-file-parameters"]], "AMR refinement region parameters": [[139, "amr-refinement-region-parameters"]], "Fixed grid output parameters": [[139, "fixed-grid-output-parameters"]], "Fixed grid maximum monitoring / arrival times": [[139, "fixed-grid-maximum-monitoring-arrival-times"]], "Storm Specification Data": [[139, "storm-specification-data"]], "Sample setrun.py module for classic Clawpack": [[140, "sample-setrun-py-module-for-classic-clawpack"]], "Saving and sharing results": [[141, "saving-and-sharing-results"]], "Making webpages of plots": [[141, "making-webpages-of-plots"]], "Sharing your results": [[141, "sharing-your-results"]], "IPython notebooks": [[141, "ipython-notebooks"]], "Compiling the Sphinx documentation locally": [[142, "compiling-the-sphinx-documentation-locally"]], "src1d default routines": [[143, "src1d-default-routines"]], "src1d routine in GeoClaw": [[143, "src1d-routine-in-geoclaw"]], "src default routines": [[144, "src-default-routines"]], "src routine in GeoClaw": [[144, "src-routine-in-geoclaw"]], "Storm Specification Class and Tools": [[145, "storm-specification-class-and-tools"]], "Sources for Storm Surge Data": [[146, "sources-for-storm-surge-data"]], "Timing Statistics": [[148, "timing-statistics"]], "Topography data": [[149, "topography-data"]], "Downloading topography files": [[149, "downloading-topography-files"]], "NetCDF format": [[149, "netcdf-format"]], "Topography displacement files": [[149, "topography-displacement-files"]], "qinit data file": [[149, "qinit-data-file"]], "Python tools for working with topo and dtopo": [[150, "python-tools-for-working-with-topo-and-dtopo"]], "topotools module for working with topography data": [[151, "topotools-module-for-working-with-topography-data"]], "Troubleshooting Installation": [[152, "troubleshooting-installation"]], "Troubleshooting Fortran:": [[152, "troubleshooting-fortran"]], "Setting the Fortran compiler to be used by f2py (pip)": [[152, "setting-the-fortran-compiler-to-be-used-by-f2py-pip"]], "Trouble compiling Fortran code at the command line": [[152, "trouble-compiling-fortran-code-at-the-command-line"]], "Trouble running \u201cmake .exe\u201d": [[152, "trouble-running-make-exe"]], "Trouble running \u201cmake .data\u201d": [[152, "trouble-running-make-data"]], "Trouble running \u201cmake .output\u201d": [[152, "trouble-running-make-output"]], "Trouble running \u201cmake .plots\u201d": [[152, "trouble-running-make-plots"]], "Some sources of tsunami data": [[153, "some-sources-of-tsunami-data"]], "Topography / bathymetry": [[153, "topography-bathymetry"]], "Earthquake source models": [[153, "earthquake-source-models"]], "DART buoy data": [[153, "dart-buoy-data"]], "Tide gauges": [[153, "tide-gauges"]], "User files required for the Fortran code": [[154, "user-files-required-for-the-fortran-code"]], "Specifying the initial conditions": [[154, "specifying-the-initial-conditions"]], "Specifying the Riemann solver": [[154, "specifying-the-riemann-solver"]], "Specifying boundary conditions": [[154, "specifying-boundary-conditions"]], "Specifying problem-specific data": [[154, "specifying-problem-specific-data"]], "Specifying spatially-varying data using setaux": [[154, "specifying-spatially-varying-data-using-setaux"]], "Using b4step for work to be done before each time step": [[154, "using-b4step-for-work-to-be-done-before-each-time-step"]], "Using src for source terms": [[154, "using-src-for-source-terms"]], "Using src1d for source terms with AMRClaw": [[154, "using-src1d-for-source-terms-with-amrclaw"]], "Plotting with VisIt": [[155, "plotting-with-visit"]], "Clawpack Virtual Machine": [[156, "clawpack-virtual-machine"]], "Wave-propagation algorithms": [[157, "wave-propagation-algorithms"]], "One space dimension": [[157, "one-space-dimension"]], "Godunov\u2019s method": [[157, "godunov-s-method"]], "High-resolution methods": [[157, "high-resolution-methods"]], "f-wave formulation": [[157, "f-wave-formulation"]], "Capacity functions": [[157, "capacity-functions"]], "Source terms": [[157, "source-terms"]]}, "indexentries": {"clawplotaxes (built-in class)": [[0, "ClawPlotAxes"]], "gethandle()": [[0, "gethandle"], [2, "gethandle"], [3, "gethandle"]], "new_plotitem()": [[0, "new_plotitem"]], "clawplotdata (built-in class)": [[1, "ClawPlotData"]], "clearfigures()": [[1, "clearfigures"]], "clearframes()": [[1, "clearframes"]], "getaxes()": [[1, "getaxes"]], "getfigure()": [[1, "getfigure"]], "getframe()": [[1, "getframe"], [3, "getframe"]], "getitem()": [[1, "getitem"]], "iplotclaw()": [[1, "iplotclaw"]], "new_plotfigure()": [[1, "new_plotfigure"]], "plotframe()": [[1, "plotframe"]], "printframes()": [[1, "printframes"]], "showitems()": [[1, "showitems"]], "clawplotfigure (built-in class)": [[2, "ClawPlotFigure"]], "new_plotaxes()": [[2, "new_plotaxes"]], "clawplotitem (built-in class)": [[3, "ClawPlotItem"]], "csvfault (class in clawpack.geoclaw.dtopotools)": [[30, "clawpack.geoclaw.dtopotools.CSVFault"]], "dtopography (class in clawpack.geoclaw.dtopotools)": [[30, "clawpack.geoclaw.dtopotools.DTopography"]], "fault (class in clawpack.geoclaw.dtopotools)": [[30, "clawpack.geoclaw.dtopotools.Fault"]], "mo() (clawpack.geoclaw.dtopotools.fault method)": [[30, "clawpack.geoclaw.dtopotools.Fault.Mo"]], "mo() (clawpack.geoclaw.dtopotools.subfault method)": [[30, "clawpack.geoclaw.dtopotools.SubFault.Mo"]], "mw() (clawpack.geoclaw.dtopotools.fault method)": [[30, "clawpack.geoclaw.dtopotools.Fault.Mw"]], "mw() (in module clawpack.geoclaw.dtopotools)": [[30, "clawpack.geoclaw.dtopotools.Mw"]], "siftfault (class in clawpack.geoclaw.dtopotools)": [[30, "clawpack.geoclaw.dtopotools.SiftFault"]], "subfault (class in clawpack.geoclaw.dtopotools)": [[30, "clawpack.geoclaw.dtopotools.SubFault"]], "subdividedplanefault (class in clawpack.geoclaw.dtopotools)": [[30, "clawpack.geoclaw.dtopotools.SubdividedPlaneFault"]], "tensorproductfault (class in clawpack.geoclaw.dtopotools)": [[30, "clawpack.geoclaw.dtopotools.TensorProductFault"]], "ucsbfault (class in clawpack.geoclaw.dtopotools)": [[30, "clawpack.geoclaw.dtopotools.UCSBFault"]], "calculate_geometry() (clawpack.geoclaw.dtopotools.subfault method)": [[30, "clawpack.geoclaw.dtopotools.SubFault.calculate_geometry"]], "calculate_geometry_triangles() (clawpack.geoclaw.dtopotools.subfault method)": [[30, "clawpack.geoclaw.dtopotools.SubFault.calculate_geometry_triangles"]], "centers (clawpack.geoclaw.dtopotools.subfault property)": [[30, "clawpack.geoclaw.dtopotools.SubFault.centers"]], "clawpack.geoclaw.dtopotools": [[30, "module-clawpack.geoclaw.dtopotools"]], "containing_rect() (clawpack.geoclaw.dtopotools.fault method)": [[30, "clawpack.geoclaw.dtopotools.Fault.containing_rect"]], "convert_to_standard_units() (clawpack.geoclaw.dtopotools.subfault method)": [[30, "clawpack.geoclaw.dtopotools.SubFault.convert_to_standard_units"]], "coordinate_specification (clawpack.geoclaw.dtopotools.subfault attribute)": [[30, "clawpack.geoclaw.dtopotools.SubFault.coordinate_specification"]], "corners (clawpack.geoclaw.dtopotools.subfault property)": [[30, "clawpack.geoclaw.dtopotools.SubFault.corners"]], "create_dtopo_xy() (clawpack.geoclaw.dtopotools.fault method)": [[30, "clawpack.geoclaw.dtopotools.Fault.create_dtopo_xy"]], "create_dtopography() (clawpack.geoclaw.dtopotools.fault method)": [[30, "clawpack.geoclaw.dtopotools.Fault.create_dtopography"]], "dz_at_t() (clawpack.geoclaw.dtopotools.dtopography method)": [[30, "clawpack.geoclaw.dtopotools.DTopography.dZ_at_t"]], "dz_max() (clawpack.geoclaw.dtopotools.dtopography method)": [[30, "clawpack.geoclaw.dtopotools.DTopography.dZ_max"]], "depth (clawpack.geoclaw.dtopotools.subfault attribute)": [[30, "clawpack.geoclaw.dtopotools.SubFault.depth"]], "dip (clawpack.geoclaw.dtopotools.subfault attribute)": [[30, "clawpack.geoclaw.dtopotools.SubFault.dip"]], "dynamic_slip() (clawpack.geoclaw.dtopotools.subfault method)": [[30, "clawpack.geoclaw.dtopotools.SubFault.dynamic_slip"]], "gauss_pts (clawpack.geoclaw.dtopotools.subfault property)": [[30, "clawpack.geoclaw.dtopotools.SubFault.gauss_pts"]], "latitude (clawpack.geoclaw.dtopotools.subfault attribute)": [[30, "clawpack.geoclaw.dtopotools.SubFault.latitude"]], "length (clawpack.geoclaw.dtopotools.subfault attribute)": [[30, "clawpack.geoclaw.dtopotools.SubFault.length"]], "longitude (clawpack.geoclaw.dtopotools.subfault attribute)": [[30, "clawpack.geoclaw.dtopotools.SubFault.longitude"]], "module": [[30, "module-clawpack.geoclaw.dtopotools"], [33, "module-clawpack.geoclaw.fgmax_tools"], [47, "module-clawpack.geoclaw.util"], [59, "module-clawpack.geoclaw.kmltools"], [87, "module-clawpack.pyclaw.limiters.tvd"], [92, "module-clawpack.pyclaw.fileio.ascii"], [92, "module-clawpack.pyclaw.fileio.netcdf"], [97, "module-clawpack.riemann.acoustics_1D_py"], [97, "module-clawpack.riemann.advection_1D_py"], [97, "module-clawpack.riemann.burgers_1D_py"], [97, "module-clawpack.riemann.euler_1D_py"], [97, "module-clawpack.riemann.shallow_1D_py"], [104, "module-clawpack.pyclaw.util"], [145, "module-clawpack.geoclaw.surge.storm"], [151, "module-clawpack.geoclaw.topotools"]], "mu (clawpack.geoclaw.dtopotools.subfault attribute)": [[30, "clawpack.geoclaw.dtopotools.SubFault.mu"]], "okada() (clawpack.geoclaw.dtopotools.subfault method)": [[30, "clawpack.geoclaw.dtopotools.SubFault.okada"]], "plot_dz_colors() (clawpack.geoclaw.dtopotools.dtopography method)": [[30, "clawpack.geoclaw.dtopotools.DTopography.plot_dZ_colors"]], "plot_dz_colors() (in module clawpack.geoclaw.dtopotools)": [[30, "clawpack.geoclaw.dtopotools.plot_dZ_colors"]], "plot_dz_contours() (clawpack.geoclaw.dtopotools.dtopography method)": [[30, "clawpack.geoclaw.dtopotools.DTopography.plot_dZ_contours"]], "plot_dz_contours() (in module clawpack.geoclaw.dtopotools)": [[30, "clawpack.geoclaw.dtopotools.plot_dZ_contours"]], "plot_subfaults() (clawpack.geoclaw.dtopotools.fault method)": [[30, "clawpack.geoclaw.dtopotools.Fault.plot_subfaults"]], "plot_subfaults_depth() (clawpack.geoclaw.dtopotools.fault method)": [[30, "clawpack.geoclaw.dtopotools.Fault.plot_subfaults_depth"]], "rake (clawpack.geoclaw.dtopotools.subfault attribute)": [[30, "clawpack.geoclaw.dtopotools.SubFault.rake"]], "read() (clawpack.geoclaw.dtopotools.csvfault method)": [[30, "clawpack.geoclaw.dtopotools.CSVFault.read"]], "read() (clawpack.geoclaw.dtopotools.dtopography method)": [[30, "clawpack.geoclaw.dtopotools.DTopography.read"]], "read() (clawpack.geoclaw.dtopotools.fault method)": [[30, "clawpack.geoclaw.dtopotools.Fault.read"]], "read() (clawpack.geoclaw.dtopotools.ucsbfault method)": [[30, "clawpack.geoclaw.dtopotools.UCSBFault.read"]], "rise_fraction() (in module clawpack.geoclaw.dtopotools)": [[30, "clawpack.geoclaw.dtopotools.rise_fraction"]], "rise_shape (clawpack.geoclaw.dtopotools.subfault attribute)": [[30, "clawpack.geoclaw.dtopotools.SubFault.rise_shape"]], "rise_time (clawpack.geoclaw.dtopotools.subfault attribute)": [[30, "clawpack.geoclaw.dtopotools.SubFault.rise_time"]], "rise_time_starting (clawpack.geoclaw.dtopotools.subfault attribute)": [[30, "clawpack.geoclaw.dtopotools.SubFault.rise_time_starting"]], "rupture_time (clawpack.geoclaw.dtopotools.subfault attribute)": [[30, "clawpack.geoclaw.dtopotools.SubFault.rupture_time"]], "rupture_type (clawpack.geoclaw.dtopotools.subfault attribute)": [[30, "clawpack.geoclaw.dtopotools.SubFault.rupture_type"]], "set_corners() (clawpack.geoclaw.dtopotools.subfault method)": [[30, "clawpack.geoclaw.dtopotools.SubFault.set_corners"]], "set_dynamic_slip() (clawpack.geoclaw.dtopotools.fault method)": [[30, "clawpack.geoclaw.dtopotools.Fault.set_dynamic_slip"]], "set_subfaults() (clawpack.geoclaw.dtopotools.siftfault method)": [[30, "clawpack.geoclaw.dtopotools.SiftFault.set_subfaults"]], "slip (clawpack.geoclaw.dtopotools.subfault attribute)": [[30, "clawpack.geoclaw.dtopotools.SubFault.slip"]], "strike (clawpack.geoclaw.dtopotools.subfault attribute)": [[30, "clawpack.geoclaw.dtopotools.SubFault.strike"]], "strike_direction() (in module clawpack.geoclaw.dtopotools)": [[30, "clawpack.geoclaw.dtopotools.strike_direction"]], "subdivide() (clawpack.geoclaw.dtopotools.subdividedplanefault method)": [[30, "clawpack.geoclaw.dtopotools.SubdividedPlaneFault.subdivide"]], "width (clawpack.geoclaw.dtopotools.subfault attribute)": [[30, "clawpack.geoclaw.dtopotools.SubFault.width"]], "write() (clawpack.geoclaw.dtopotools.dtopography method)": [[30, "clawpack.geoclaw.dtopotools.DTopography.write"]], "write() (clawpack.geoclaw.dtopotools.fault method)": [[30, "clawpack.geoclaw.dtopotools.Fault.write"]], "fgmaxgrid (class in clawpack.geoclaw.fgmax_tools)": [[33, "clawpack.geoclaw.fgmax_tools.FGmaxGrid"]], "adjust_fgmax_1d() (in module clawpack.geoclaw.fgmax_tools)": [[33, "clawpack.geoclaw.fgmax_tools.adjust_fgmax_1d"]], "bounding_box() (clawpack.geoclaw.fgmax_tools.fgmaxgrid method)": [[33, "clawpack.geoclaw.fgmax_tools.FGmaxGrid.bounding_box"]], "clawpack.geoclaw.fgmax_tools": [[33, "module-clawpack.geoclaw.fgmax_tools"]], "interp_dz() (clawpack.geoclaw.fgmax_tools.fgmaxgrid method)": [[33, "clawpack.geoclaw.fgmax_tools.FGmaxGrid.interp_dz"]], "ps4_to_arrays() (clawpack.geoclaw.fgmax_tools.fgmaxgrid method)": [[33, "clawpack.geoclaw.fgmax_tools.FGmaxGrid.ps4_to_arrays"]], "read_fgmax_grids_data() (clawpack.geoclaw.fgmax_tools.fgmaxgrid method)": [[33, "clawpack.geoclaw.fgmax_tools.FGmaxGrid.read_fgmax_grids_data"]], "read_output() (clawpack.geoclaw.fgmax_tools.fgmaxgrid method)": [[33, "clawpack.geoclaw.fgmax_tools.FGmaxGrid.read_output"]], "write_to_fgmax_data() (clawpack.geoclaw.fgmax_tools.fgmaxgrid method)": [[33, "clawpack.geoclaw.fgmax_tools.FGmaxGrid.write_to_fgmax_data"]], "bearing() (in module clawpack.geoclaw.util)": [[47, "clawpack.geoclaw.util.bearing"]], "clawpack.geoclaw.util": [[47, "module-clawpack.geoclaw.util"]], "dist_latlong2meters() (in module clawpack.geoclaw.util)": [[47, "clawpack.geoclaw.util.dist_latlong2meters"]], "dist_meters2latlong() (in module clawpack.geoclaw.util)": [[47, "clawpack.geoclaw.util.dist_meters2latlong"]], "dms2decimal() (in module clawpack.geoclaw.util)": [[47, "clawpack.geoclaw.util.dms2decimal"]], "fetch_noaa_tide_data() (in module clawpack.geoclaw.util)": [[47, "clawpack.geoclaw.util.fetch_noaa_tide_data"]], "haversine() (in module clawpack.geoclaw.util)": [[47, "clawpack.geoclaw.util.haversine"]], "inv_haversine() (in module clawpack.geoclaw.util)": [[47, "clawpack.geoclaw.util.inv_haversine"]], "box2kml() (in module clawpack.geoclaw.kmltools)": [[59, "clawpack.geoclaw.kmltools.box2kml"]], "clawpack.geoclaw.kmltools": [[59, "module-clawpack.geoclaw.kmltools"]], "deg2dms() (in module clawpack.geoclaw.kmltools)": [[59, "clawpack.geoclaw.kmltools.deg2dms"]], "dtopo2kml() (in module clawpack.geoclaw.kmltools)": [[59, "clawpack.geoclaw.kmltools.dtopo2kml"]], "f2s() (in module clawpack.geoclaw.kmltools)": [[59, "clawpack.geoclaw.kmltools.f2s"]], "fgmax2kml() (in module clawpack.geoclaw.kmltools)": [[59, "clawpack.geoclaw.kmltools.fgmax2kml"]], "fgout2kml() (in module clawpack.geoclaw.kmltools)": [[59, "clawpack.geoclaw.kmltools.fgout2kml"]], "gauges2kml() (in module clawpack.geoclaw.kmltools)": [[59, "clawpack.geoclaw.kmltools.gauges2kml"]], "kml_build_colorbar() (in module clawpack.geoclaw.kmltools)": [[59, "clawpack.geoclaw.kmltools.kml_build_colorbar"]], "kml_cb() (in module clawpack.geoclaw.kmltools)": [[59, "clawpack.geoclaw.kmltools.kml_cb"]], "kml_png() (in module clawpack.geoclaw.kmltools)": [[59, "clawpack.geoclaw.kmltools.kml_png"]], "kml_timespan() (in module clawpack.geoclaw.kmltools)": [[59, "clawpack.geoclaw.kmltools.kml_timespan"]], "line2kml() (in module clawpack.geoclaw.kmltools)": [[59, "clawpack.geoclaw.kmltools.line2kml"]], "make_input_data_kmls() (in module clawpack.geoclaw.kmltools)": [[59, "clawpack.geoclaw.kmltools.make_input_data_kmls"]], "pcolorcells_for_kml() (in module clawpack.geoclaw.kmltools)": [[59, "clawpack.geoclaw.kmltools.pcolorcells_for_kml"]], "png2kml() (in module clawpack.geoclaw.kmltools)": [[59, "clawpack.geoclaw.kmltools.png2kml"]], "poly2kml() (in module clawpack.geoclaw.kmltools)": [[59, "clawpack.geoclaw.kmltools.poly2kml"]], "quad2kml() (in module clawpack.geoclaw.kmltools)": [[59, "clawpack.geoclaw.kmltools.quad2kml"]], "regions2kml() (in module clawpack.geoclaw.kmltools)": [[59, "clawpack.geoclaw.kmltools.regions2kml"]], "topo2kml() (in module clawpack.geoclaw.kmltools)": [[59, "clawpack.geoclaw.kmltools.topo2kml"]], "topo2kmz() (in module clawpack.geoclaw.kmltools)": [[59, "clawpack.geoclaw.kmltools.topo2kmz"]], "controller (class in clawpack.pyclaw.controller)": [[86, "clawpack.pyclaw.controller.Controller"]], "f_file_name (clawpack.pyclaw.controller.controller attribute)": [[86, "clawpack.pyclaw.controller.Controller.F_file_name"]], "f_path (clawpack.pyclaw.controller.controller property)": [[86, "clawpack.pyclaw.controller.Controller.F_path"]], "check_validity() (clawpack.pyclaw.controller.controller method)": [[86, "clawpack.pyclaw.controller.Controller.check_validity"]], "compute_f (clawpack.pyclaw.controller.controller attribute)": [[86, "clawpack.pyclaw.controller.Controller.compute_F"]], "compute_p (clawpack.pyclaw.controller.controller attribute)": [[86, "clawpack.pyclaw.controller.Controller.compute_p"]], "file_prefix_p (clawpack.pyclaw.controller.controller attribute)": [[86, "clawpack.pyclaw.controller.Controller.file_prefix_p"]], "frames (clawpack.pyclaw.controller.controller attribute)": [[86, "clawpack.pyclaw.controller.Controller.frames"]], "keep_copy (clawpack.pyclaw.controller.controller attribute)": [[86, "clawpack.pyclaw.controller.Controller.keep_copy"]], "nstepout (clawpack.pyclaw.controller.controller attribute)": [[86, "clawpack.pyclaw.controller.Controller.nstepout"]], "num_output_times (clawpack.pyclaw.controller.controller attribute)": [[86, "clawpack.pyclaw.controller.Controller.num_output_times"]], "out_times (clawpack.pyclaw.controller.controller attribute)": [[86, "clawpack.pyclaw.controller.Controller.out_times"]], "outdir (clawpack.pyclaw.controller.controller attribute)": [[86, "clawpack.pyclaw.controller.Controller.outdir"]], "outdir_p (clawpack.pyclaw.controller.controller property)": [[86, "clawpack.pyclaw.controller.Controller.outdir_p"]], "output_file_prefix (clawpack.pyclaw.controller.controller attribute)": [[86, "clawpack.pyclaw.controller.Controller.output_file_prefix"]], "output_format (clawpack.pyclaw.controller.controller attribute)": [[86, "clawpack.pyclaw.controller.Controller.output_format"]], "output_options (clawpack.pyclaw.controller.controller attribute)": [[86, "clawpack.pyclaw.controller.Controller.output_options"]], "output_style (clawpack.pyclaw.controller.controller attribute)": [[86, "clawpack.pyclaw.controller.Controller.output_style"]], "overwrite (clawpack.pyclaw.controller.controller attribute)": [[86, "clawpack.pyclaw.controller.Controller.overwrite"]], "plot() (clawpack.pyclaw.controller.controller method)": [[86, "clawpack.pyclaw.controller.Controller.plot"]], "plotdata (clawpack.pyclaw.controller.controller attribute)": [[86, "clawpack.pyclaw.controller.Controller.plotdata"]], "run() (clawpack.pyclaw.controller.controller method)": [[86, "clawpack.pyclaw.controller.Controller.run"]], "rundir (clawpack.pyclaw.controller.controller attribute)": [[86, "clawpack.pyclaw.controller.Controller.rundir"]], "runmake (clawpack.pyclaw.controller.controller attribute)": [[86, "clawpack.pyclaw.controller.Controller.runmake"]], "savecode (clawpack.pyclaw.controller.controller attribute)": [[86, "clawpack.pyclaw.controller.Controller.savecode"]], "solver (clawpack.pyclaw.controller.controller attribute)": [[86, "clawpack.pyclaw.controller.Controller.solver"]], "tfinal (clawpack.pyclaw.controller.controller attribute)": [[86, "clawpack.pyclaw.controller.Controller.tfinal"]], "verbosity (clawpack.pyclaw.controller.controller property)": [[86, "clawpack.pyclaw.controller.Controller.verbosity"]], "viewable_attributes (clawpack.pyclaw.controller.controller attribute)": [[86, "clawpack.pyclaw.controller.Controller.viewable_attributes"]], "write_aux_always (clawpack.pyclaw.controller.controller attribute)": [[86, "clawpack.pyclaw.controller.Controller.write_aux_always"]], "write_aux_init (clawpack.pyclaw.controller.controller attribute)": [[86, "clawpack.pyclaw.controller.Controller.write_aux_init"]], "xclawcmd (clawpack.pyclaw.controller.controller attribute)": [[86, "clawpack.pyclaw.controller.Controller.xclawcmd"]], "xclawerr (clawpack.pyclaw.controller.controller attribute)": [[86, "clawpack.pyclaw.controller.Controller.xclawerr"]], "xclawout (clawpack.pyclaw.controller.controller attribute)": [[86, "clawpack.pyclaw.controller.Controller.xclawout"]], "xdir (clawpack.pyclaw.controller.controller attribute)": [[86, "clawpack.pyclaw.controller.Controller.xdir"]], "arora_roe() (in module clawpack.pyclaw.limiters.tvd)": [[87, "clawpack.pyclaw.limiters.tvd.arora_roe"]], "beta_limiter() (in module clawpack.pyclaw.limiters.tvd)": [[87, "clawpack.pyclaw.limiters.tvd.beta_limiter"]], "cada_torrilhon_limiter() (in module clawpack.pyclaw.limiters.tvd)": [[87, "clawpack.pyclaw.limiters.tvd.cada_torrilhon_limiter"]], "cada_torrilhon_limiter_nonlinear() (in module clawpack.pyclaw.limiters.tvd)": [[87, "clawpack.pyclaw.limiters.tvd.cada_torrilhon_limiter_nonlinear"]], "cfl_superbee() (in module clawpack.pyclaw.limiters.tvd)": [[87, "clawpack.pyclaw.limiters.tvd.cfl_superbee"]], "cfl_superbee_theta() (in module clawpack.pyclaw.limiters.tvd)": [[87, "clawpack.pyclaw.limiters.tvd.cfl_superbee_theta"]], "clawpack.pyclaw.limiters.tvd": [[87, "module-clawpack.pyclaw.limiters.tvd"]], "hyperbee_limiter() (in module clawpack.pyclaw.limiters.tvd)": [[87, "clawpack.pyclaw.limiters.tvd.hyperbee_limiter"]], "limit() (in module clawpack.pyclaw.limiters.tvd)": [[87, "clawpack.pyclaw.limiters.tvd.limit"]], "mc_limiter() (in module clawpack.pyclaw.limiters.tvd)": [[87, "clawpack.pyclaw.limiters.tvd.mc_limiter"]], "minmod_limiter() (in module clawpack.pyclaw.limiters.tvd)": [[87, "clawpack.pyclaw.limiters.tvd.minmod_limiter"]], "superbee_limiter() (in module clawpack.pyclaw.limiters.tvd)": [[87, "clawpack.pyclaw.limiters.tvd.superbee_limiter"]], "superpower_limiter() (in module clawpack.pyclaw.limiters.tvd)": [[87, "clawpack.pyclaw.limiters.tvd.superpower_limiter"]], "theta_limiter() (in module clawpack.pyclaw.limiters.tvd)": [[87, "clawpack.pyclaw.limiters.tvd.theta_limiter"]], "upper_bound_limiter() (in module clawpack.pyclaw.limiters.tvd)": [[87, "clawpack.pyclaw.limiters.tvd.upper_bound_limiter"]], "van_leer_klein_sharpening_limiter() (in module 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(clawpack.pyclaw.geometry.grid method)": [[89, "clawpack.pyclaw.geometry.Grid.c_center"]], "c_centers (clawpack.pyclaw.geometry.grid property)": [[89, "clawpack.pyclaw.geometry.Grid.c_centers"]], "c_centers_with_ghost() (clawpack.pyclaw.geometry.grid method)": [[89, "clawpack.pyclaw.geometry.Grid.c_centers_with_ghost"]], "c_nodes (clawpack.pyclaw.geometry.grid property)": [[89, "clawpack.pyclaw.geometry.Grid.c_nodes"]], "c_nodes_with_ghost() (clawpack.pyclaw.geometry.grid method)": [[89, "clawpack.pyclaw.geometry.Grid.c_nodes_with_ghost"]], "centers (clawpack.pyclaw.geometry.dimension property)": [[89, "clawpack.pyclaw.geometry.Dimension.centers"]], "centers_with_ghost() (clawpack.pyclaw.geometry.dimension method)": [[89, "clawpack.pyclaw.geometry.Dimension.centers_with_ghost"]], "delta (clawpack.pyclaw.geometry.dimension property)": [[89, "clawpack.pyclaw.geometry.Dimension.delta"]], "delta (clawpack.pyclaw.geometry.patch property)": [[89, "clawpack.pyclaw.geometry.Patch.delta"]], "dimensional_split (clawpack.petclaw.geometry.domain attribute)": [[89, "clawpack.petclaw.geometry.Domain.dimensional_split"]], "dimensions (clawpack.pyclaw.geometry.grid property)": [[89, "clawpack.pyclaw.geometry.Grid.dimensions"]], "dimensions (clawpack.pyclaw.geometry.patch property)": [[89, "clawpack.pyclaw.geometry.Patch.dimensions"]], "fwave (clawpack.petclaw.geometry.domain attribute)": [[89, "clawpack.petclaw.geometry.Domain.fwave"]], "gauge_dir_name (clawpack.pyclaw.geometry.grid attribute)": [[89, "clawpack.pyclaw.geometry.Grid.gauge_dir_name"]], "gauge_file_names (clawpack.pyclaw.geometry.grid attribute)": [[89, "clawpack.pyclaw.geometry.Grid.gauge_file_names"]], "gauge_files (clawpack.pyclaw.geometry.grid attribute)": [[89, "clawpack.pyclaw.geometry.Grid.gauge_files"]], "gauges (clawpack.pyclaw.geometry.grid attribute)": [[89, "clawpack.pyclaw.geometry.Grid.gauges"]], "get_dim_attribute() (clawpack.pyclaw.geometry.grid method)": [[89, "clawpack.pyclaw.geometry.Grid.get_dim_attribute"]], "get_dim_attribute() (clawpack.pyclaw.geometry.patch method)": [[89, "clawpack.pyclaw.geometry.Patch.get_dim_attribute"]], "grid (clawpack.pyclaw.geometry.domain property)": [[89, "clawpack.pyclaw.geometry.Domain.grid"]], "kernel_language (clawpack.petclaw.geometry.domain attribute)": [[89, "clawpack.petclaw.geometry.Domain.kernel_language"]], "level (clawpack.pyclaw.geometry.patch attribute)": [[89, "clawpack.pyclaw.geometry.Patch.level"]], "lower_global (clawpack.pyclaw.geometry.patch property)": [[89, "clawpack.pyclaw.geometry.Patch.lower_global"]], "mthlim (clawpack.petclaw.geometry.domain attribute)": [[89, "clawpack.petclaw.geometry.Domain.mthlim"]], "name (clawpack.pyclaw.geometry.patch property)": [[89, "clawpack.pyclaw.geometry.Patch.name"]], "nodes (clawpack.pyclaw.geometry.dimension property)": [[89, "clawpack.pyclaw.geometry.Dimension.nodes"]], "nodes_with_ghost() (clawpack.pyclaw.geometry.dimension method)": [[89, "clawpack.pyclaw.geometry.Dimension.nodes_with_ghost"]], "num_cells_global (clawpack.pyclaw.geometry.patch property)": [[89, "clawpack.pyclaw.geometry.Patch.num_cells_global"]], "num_dim (clawpack.pyclaw.geometry.domain property)": [[89, "clawpack.pyclaw.geometry.Domain.num_dim"]], "num_dim (clawpack.pyclaw.geometry.grid property)": [[89, "clawpack.pyclaw.geometry.Grid.num_dim"]], "num_dim (clawpack.pyclaw.geometry.patch property)": [[89, "clawpack.pyclaw.geometry.Patch.num_dim"]], "order (clawpack.petclaw.geometry.domain attribute)": [[89, "clawpack.petclaw.geometry.Domain.order"]], "p_center() (clawpack.pyclaw.geometry.grid method)": [[89, "clawpack.pyclaw.geometry.Grid.p_center"]], "p_centers (clawpack.pyclaw.geometry.grid property)": [[89, "clawpack.pyclaw.geometry.Grid.p_centers"]], "p_nodes (clawpack.pyclaw.geometry.grid property)": [[89, "clawpack.pyclaw.geometry.Grid.p_nodes"]], "patch (clawpack.pyclaw.geometry.domain property)": [[89, "clawpack.pyclaw.geometry.Domain.patch"]], "patch_index (clawpack.pyclaw.geometry.patch attribute)": [[89, "clawpack.pyclaw.geometry.Patch.patch_index"]], "plot() (clawpack.pyclaw.geometry.grid method)": [[89, "clawpack.pyclaw.geometry.Grid.plot"]], "setup_gauge_files() (clawpack.pyclaw.geometry.grid method)": [[89, "clawpack.pyclaw.geometry.Grid.setup_gauge_files"]], "source_split (clawpack.petclaw.geometry.domain attribute)": [[89, "clawpack.petclaw.geometry.Domain.source_split"]], "step_source (clawpack.petclaw.geometry.domain attribute)": [[89, "clawpack.petclaw.geometry.Domain.step_source"]], "transverse_waves (clawpack.petclaw.geometry.domain attribute)": [[89, "clawpack.petclaw.geometry.Domain.transverse_waves"]], "upper_global (clawpack.pyclaw.geometry.patch property)": [[89, "clawpack.pyclaw.geometry.Patch.upper_global"]], "verbosity (clawpack.petclaw.geometry.domain attribute)": [[89, "clawpack.petclaw.geometry.Domain.verbosity"]], "clawpack.pyclaw.fileio.ascii": [[92, "module-clawpack.pyclaw.fileio.ascii"]], "clawpack.pyclaw.fileio.netcdf": [[92, "module-clawpack.pyclaw.fileio.netcdf"]], "read() (in module clawpack.pyclaw.fileio.ascii)": [[92, "clawpack.pyclaw.fileio.ascii.read"]], "read() (in module clawpack.pyclaw.fileio.netcdf)": [[92, "clawpack.pyclaw.fileio.netcdf.read"]], "read_array() (in module clawpack.pyclaw.fileio.ascii)": [[92, "clawpack.pyclaw.fileio.ascii.read_array"]], "read_patch_header() (in module clawpack.pyclaw.fileio.ascii)": [[92, "clawpack.pyclaw.fileio.ascii.read_patch_header"]], "read_t() (in module clawpack.pyclaw.fileio.ascii)": [[92, "clawpack.pyclaw.fileio.ascii.read_t"]], "write() (in module clawpack.pyclaw.fileio.ascii)": [[92, "clawpack.pyclaw.fileio.ascii.write"]], "write() (in module clawpack.pyclaw.fileio.netcdf)": [[92, "clawpack.pyclaw.fileio.netcdf.write"]], "write_array() (in module clawpack.pyclaw.fileio.ascii)": [[92, "clawpack.pyclaw.fileio.ascii.write_array"]], "acoustics_1d() (in module clawpack.riemann.acoustics_1d_py)": [[97, "clawpack.riemann.acoustics_1D_py.acoustics_1D"]], "advection_1d() (in module clawpack.riemann.advection_1d_py)": [[97, "clawpack.riemann.advection_1D_py.advection_1D"]], "burgers_1d() (in module clawpack.riemann.burgers_1d_py)": [[97, "clawpack.riemann.burgers_1D_py.burgers_1D"]], "clawpack.riemann.acoustics_1d_py": [[97, "module-clawpack.riemann.acoustics_1D_py"]], "clawpack.riemann.advection_1d_py": [[97, "module-clawpack.riemann.advection_1D_py"]], "clawpack.riemann.burgers_1d_py": [[97, "module-clawpack.riemann.burgers_1D_py"]], "clawpack.riemann.euler_1d_py": [[97, "module-clawpack.riemann.euler_1D_py"]], "clawpack.riemann.shallow_1d_py": [[97, "module-clawpack.riemann.shallow_1D_py"]], "euler_exact_1d() (in module clawpack.riemann.euler_1d_py)": [[97, "clawpack.riemann.euler_1D_py.euler_exact_1D"]], "euler_hll_1d() (in module clawpack.riemann.euler_1d_py)": [[97, "clawpack.riemann.euler_1D_py.euler_hll_1D"]], "euler_hllc_1d() (in module clawpack.riemann.euler_1d_py)": [[97, "clawpack.riemann.euler_1D_py.euler_hllc_1D"]], "euler_roe_1d() (in module clawpack.riemann.euler_1d_py)": [[97, "clawpack.riemann.euler_1D_py.euler_roe_1D"]], "shallow_exact_1d() (in module clawpack.riemann.shallow_1d_py)": [[97, "clawpack.riemann.shallow_1D_py.shallow_exact_1D"]], "shallow_fwave_1d() (in module clawpack.riemann.shallow_1d_py)": [[97, "clawpack.riemann.shallow_1D_py.shallow_fwave_1d"]], "shallow_hll_1d() (in module clawpack.riemann.shallow_1d_py)": [[97, "clawpack.riemann.shallow_1D_py.shallow_hll_1D"]], "shallow_roe_1d() (in module clawpack.riemann.shallow_1d_py)": [[97, "clawpack.riemann.shallow_1D_py.shallow_roe_1D"]], "solution (class in clawpack.pyclaw.solution)": [[98, "clawpack.pyclaw.solution.Solution"]], "is_valid() (clawpack.pyclaw.solution.solution method)": [[98, "clawpack.pyclaw.solution.Solution.is_valid"]], "patch (clawpack.pyclaw.solution.solution property)": [[98, "clawpack.pyclaw.solution.Solution.patch"]], "plot() (clawpack.pyclaw.solution.solution 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14, 19, 20, 22, 28, 30, 32, 35, 36, 38, 39, 51, 54, 55, 56, 57, 58, 59, 62, 66, 67, 77, 79, 83, 84, 89, 92, 93, 94, 96, 99, 100, 101, 103, 104, 106, 108, 110, 113, 117, 122, 128, 129, 130, 132, 136, 138, 139, 145, 147, 149, 151, 157], "sure": [1, 20, 28, 40, 54, 55, 67, 73, 83, 92, 94, 96, 98, 102, 104, 131, 151, 152, 153], "previou": [1, 18, 28, 29, 44, 53, 55, 57, 63, 66, 67, 79, 83, 99, 108, 113, 118, 119, 120, 121, 127, 132, 136, 138, 140, 149, 151], "chang": [1, 6, 8, 13, 15, 16, 19, 20, 25, 28, 29, 30, 32, 40, 41, 50, 51, 52, 53, 54, 55, 56, 58, 59, 62, 63, 64, 66, 67, 68, 71, 72, 73, 76, 79, 83, 84, 90, 92, 93, 101, 104, 105, 108, 109, 110, 111, 126, 128, 132, 133, 136, 137, 138, 139, 140, 143, 144, 149, 152, 154], "re": [1, 17, 28, 40, 44, 62, 67, 73, 77, 79, 83, 100, 110, 111, 123, 152], "session": [1, 35, 36, 37, 95, 100], "iplotclaw": [1, 13, 22, 35, 36, 44, 46, 76, 77, 95, 106], "being": [1, 3, 4, 8, 13, 32, 39, 44, 48, 53, 58, 66, 79, 86, 92, 97, 98, 99, 104, 106, 108, 110, 118, 120, 122, 128, 130, 132, 136, 139, 152, 154], "getfigur": 1, "fignam": [1, 79], "getax": 1, "axesnam": [1, 79], "clawplotax": [1, 2, 3, 27, 77, 121, 135], "search": [1, 13, 14, 58, 76, 91, 104, 106, 119, 121, 130], "over": [1, 3, 5, 6, 13, 16, 17, 22, 28, 30, 32, 38, 39, 44, 45, 46, 48, 51, 53, 59, 66, 67, 70, 76, 92, 93, 99, 110, 113, 114, 122, 124, 128, 130, 132, 135, 138, 139, 148, 149, 154, 157], "found": [1, 4, 5, 6, 11, 12, 13, 16, 22, 24, 27, 29, 32, 35, 36, 40, 42, 44, 47, 48, 50, 54, 59, 62, 63, 75, 77, 78, 79, 83, 87, 94, 98, 102, 104, 106, 108, 111, 118, 121, 127, 131, 135, 145, 151, 152], "uniqu": [1, 72, 118, 145], "getitem": 1, "itemnam": [1, 79], "showitem": 1, "plotfram": 1, "number": [1, 2, 3, 4, 6, 8, 12, 16, 17, 19, 22, 27, 28, 30, 32, 33, 35, 36, 44, 51, 54, 59, 62, 67, 71, 72, 73, 79, 83, 84, 86, 87, 88, 89, 91, 92, 93, 94, 96, 98, 99, 101, 103, 104, 108, 110, 111, 113, 114, 116, 117, 118, 119, 120, 121, 123, 127, 128, 130, 136, 137, 138, 139, 140, 145, 146, 147, 151, 154], "conveni": [1, 27, 32, 35, 36, 39, 44, 51, 79, 86, 88, 91, 93, 95, 103, 154, 157], "pyclaw": [1, 3, 4, 12, 17, 23, 24, 27, 28, 29, 44, 55, 56, 72, 73, 79, 80, 90, 94, 96, 102, 105, 106, 126, 128, 129, 134], "plotter": [1, 3, 27, 79], "frametool": [1, 27, 79, 124], "printfram": [1, 76], "still": [1, 5, 7, 8, 13, 16, 22, 24, 26, 32, 34, 39, 51, 52, 56, 63, 66, 67, 72, 76, 81, 99, 105, 110, 111, 117, 118, 119, 120, 121, 122, 124, 127, 128, 139, 145], "clawplotdata": [2, 3, 27, 44, 51, 77, 79, 86, 135], "next": [2, 3, 6, 13, 18, 35, 37, 44, 54, 55, 67, 72, 77, 79, 82, 83, 91, 92, 94, 99, 103, 108, 110, 111, 136, 137, 139], "unus": [2, 92], "1001": 2, "kwarg": [2, 30, 59, 77, 104, 111, 135, 145], "keyword": [2, 3, 77, 83, 88, 89, 92, 98, 104, 111, 121, 135, 145, 151], "figsiz": [2, 39, 66, 77, 130, 135], "12": [2, 32, 39, 51, 66, 77, 130, 135], "5": [2, 4, 5, 8, 9, 11, 13, 19, 25, 29, 30, 32, 33, 38, 39, 42, 44, 47, 51, 52, 53, 54, 55, 59, 62, 63, 64, 66, 68, 70, 77, 80, 87, 89, 93, 94, 96, 97, 99, 105, 106, 110, 112, 113, 114, 115, 116, 117, 118, 119, 120, 122, 123, 124, 125, 126, 127, 128, 129, 130, 131, 132, 136, 137, 138, 139, 140, 145, 148, 149, 151, 156], "facecolor": [2, 77, 135], "would": [2, 3, 12, 13, 16, 24, 27, 28, 32, 38, 41, 51, 53, 55, 56, 58, 60, 62, 63, 66, 70, 72, 77, 81, 83, 86, 89, 93, 104, 111, 119, 130, 131, 132, 135, 136, 139, 145, 149, 154], "inch": [2, 51, 59, 77, 135], "red": [2, 3, 28, 44, 59, 77, 111, 135], "background": [2, 76, 121, 135], "option": [2, 12, 13, 16, 20, 22, 25, 28, 29, 30, 32, 35, 36, 40, 41, 47, 50, 53, 58, 62, 67, 68, 76, 77, 83, 84, 86, 88, 89, 90, 91, 92, 93, 95, 98, 99, 100, 103, 104, 107, 110, 111, 114, 117, 118, 119, 122, 124, 130, 135, 136, 138, 139, 140, 141, 145, 151], "clf_each_fram": 2, "clf": 2, "axes1": [2, 79], "shown": [3, 13, 54, 59, 63, 64, 67, 73, 93, 114, 115, 116, 117, 118, 119, 120, 121, 122, 123, 124, 125, 130, 151, 154], "below": [3, 6, 13, 15, 16, 18, 22, 24, 29, 30, 32, 39, 45, 51, 52, 54, 55, 56, 58, 59, 64, 67, 70, 79, 81, 83, 85, 93, 97, 103, 105, 106, 107, 110, 111, 114, 115, 116, 117, 118, 119, 120, 121, 122, 123, 124, 125, 126, 128, 130, 133, 135, 136, 137, 138, 139, 140, 143, 144, 145, 149, 151, 154], "fragment": 3, "typic": [3, 20, 39, 62, 63, 67, 70, 72, 73, 79, 84, 94, 96, 99, 101, 110, 137, 138, 148, 149, 152, 153, 154, 157], "assum": [3, 5, 20, 22, 30, 32, 36, 39, 47, 48, 51, 53, 54, 55, 59, 67, 70, 76, 92, 93, 95, 96, 97, 103, 104, 110, 117, 130, 131, 136, 139, 145, 146, 149, 151, 153, 157], "plotax": [3, 44, 77, 124, 135], "instanc": [3, 28, 51, 56, 70, 73, 79, 83, 84, 86, 89, 92, 93, 96, 130, 139], "type": [3, 4, 7, 13, 20, 28, 30, 35, 36, 40, 44, 51, 62, 67, 77, 78, 79, 83, 84, 85, 87, 89, 94, 95, 99, 100, 103, 104, 105, 130, 137, 138, 139, 145, 146, 149, 151, 157], "dimension": [3, 7, 8, 17, 22, 25, 30, 32, 35, 36, 44, 48, 52, 67, 89, 96, 117, 118, 120, 123, 138, 139, 140, 151, 154], "point": [3, 5, 6, 13, 15, 16, 17, 20, 28, 30, 33, 35, 36, 38, 39, 41, 44, 45, 46, 47, 48, 51, 53, 54, 55, 56, 57, 58, 59, 67, 68, 70, 83, 93, 94, 98, 104, 105, 106, 110, 120, 122, 124, 127, 128, 130, 131, 132, 133, 134, 136, 137, 138, 139, 143, 144, 145, 149, 151, 152, 154], "slice": [3, 67, 128], "scatter": [3, 22, 67], "radial": [3, 32, 47, 139, 154], "symmetr": [3, 47, 154], "between": [3, 4, 5, 6, 13, 16, 23, 25, 28, 30, 31, 32, 38, 47, 51, 55, 56, 59, 66, 67, 70, 71, 73, 76, 86, 89, 93, 99, 101, 102, 104, 105, 106, 110, 118, 119, 128, 130, 131, 136, 137, 138, 139, 140, 141, 148, 149, 151, 153, 154], "plot_var": [3, 27, 44, 51, 77, 78], "fill_var2": 3, "contour": [3, 30, 44, 51, 53, 67, 105, 135, 151], "pcolor": [3, 44, 76, 105, 151], "2d_schlieren": 3, "schlieren": [3, 67], "2d_patch": [3, 22], "cell": [3, 4, 5, 7, 8, 15, 16, 18, 20, 22, 25, 27, 32, 33, 44, 45, 51, 53, 59, 66, 67, 71, 72, 73, 83, 89, 92, 94, 97, 99, 101, 103, 110, 113, 114, 118, 119, 120, 121, 122, 123, 124, 128, 131, 132, 133, 136, 137, 138, 139, 140, 146, 148, 149, 154, 157], "patch": [3, 6, 7, 16, 18, 22, 27, 32, 39, 51, 67, 70, 71, 72, 76, 77, 92, 94, 98, 101, 110, 119, 121, 124, 132, 135, 137, 139, 148, 149, 154], "edg": [3, 6, 15, 16, 27, 30, 32, 33, 38, 59, 70, 89, 97, 128, 130, 133, 137, 138, 140, 154], "come": [3, 28, 77, 79, 88, 94, 99, 117, 149, 154], "parent": [3, 27, 89, 101, 104], "integ": [3, 32, 33, 44, 51, 59, 64, 66, 77, 84, 98, 110, 120, 123, 128, 136, 139, 145, 151], "compon": [3, 16, 18, 20, 22, 25, 36, 44, 56, 58, 67, 72, 76, 96, 98, 100, 101, 110, 117, 129, 136, 137, 138, 149, 154], "python": [3, 4, 7, 8, 11, 13, 14, 17, 19, 22, 23, 25, 27, 28, 29, 30, 33, 35, 36, 37, 40, 42, 44, 45, 46, 47, 50, 51, 53, 54, 55, 56, 57, 58, 59, 70, 72, 73, 76, 77, 78, 81, 82, 84, 88, 89, 91, 92, 94, 95, 96, 97, 99, 102, 103, 104, 111, 114, 115, 117, 119, 120, 121, 122, 123, 128, 129, 134, 139, 149, 151, 152, 155], "convent": [3, 22, 30, 46, 53, 70, 97, 149], "correspond": [3, 6, 12, 23, 25, 27, 30, 44, 47, 48, 53, 54, 55, 59, 67, 70, 77, 83, 87, 89, 92, 93, 96, 98, 101, 110, 111, 128, 130, 131, 136, 137, 138, 139, 140, 145, 149, 153, 154], "appli": [3, 4, 5, 6, 13, 16, 25, 30, 48, 51, 53, 64, 66, 70, 77, 79, 87, 89, 92, 99, 110, 127, 136, 139, 154], "comput": [3, 4, 5, 6, 13, 16, 17, 27, 29, 30, 32, 33, 39, 44, 47, 51, 53, 56, 58, 59, 60, 62, 68, 70, 76, 77, 79, 84, 86, 89, 91, 92, 93, 94, 99, 103, 105, 106, 108, 110, 113, 114, 118, 119, 123, 128, 132, 136, 138, 139, 140, 146, 149, 154, 157], "signatur": [3, 84, 87, 89, 90, 92, 97, 145], "hold": [3, 79, 103, 110], "current": [3, 5, 13, 14, 20, 22, 24, 27, 28, 29, 30, 32, 38, 39, 41, 44, 45, 48, 53, 54, 55, 56, 57, 58, 59, 60, 67, 68, 72, 77, 79, 89, 92, 93, 94, 99, 101, 104, 106, 110, 111, 118, 120, 121, 127, 131, 135, 136, 138, 139, 140, 145, 146, 149, 151, 153], "afteritem": [3, 27], "afterpatch": [3, 27], "There": [3, 6, 13, 22, 36, 40, 51, 54, 55, 62, 66, 70, 72, 79, 93, 100, 108, 120, 121, 135, 136, 146, 147, 154, 156], "than": [3, 5, 6, 13, 16, 18, 20, 22, 28, 29, 30, 32, 39, 44, 51, 54, 55, 56, 58, 59, 60, 62, 63, 64, 66, 69, 70, 72, 76, 79, 83, 84, 86, 89, 92, 93, 94, 96, 97, 99, 104, 105, 106, 110, 111, 113, 116, 117, 118, 119, 120, 121, 123, 124, 126, 127, 130, 131, 132, 135, 136, 137, 139, 145, 146, 148, 149, 151, 154, 157], "calcul": [3, 5, 6, 27, 30, 33, 45, 47, 67, 70, 77, 89, 97, 99, 114, 119, 151], "cd": [3, 13, 28, 35, 36, 37, 52, 54, 55, 57, 58, 79, 88, 91, 94, 100, 111, 147], "On": [3, 5, 13, 51, 71, 120, 130, 134, 154], "ylower": [3, 22, 27, 39, 84, 121, 138, 149, 151], "patchno": [3, 27], "out": [3, 16, 24, 26, 29, 30, 32, 35, 36, 39, 44, 45, 50, 52, 53, 54, 55, 56, 58, 59, 60, 61, 62, 67, 70, 77, 81, 83, 84, 86, 92, 93, 94, 95, 98, 103, 105, 106, 108, 111, 119, 121, 123, 124, 128, 130, 138, 140, 145, 151, 152], "lower": [3, 22, 30, 32, 33, 38, 53, 66, 72, 89, 94, 130, 132, 136, 138, 140, 149, 151, 153], "left": [3, 5, 10, 13, 16, 18, 25, 27, 32, 53, 72, 79, 89, 96, 97, 103, 120, 126, 127, 128, 131, 137, 149, 151, 153, 157], "corner": [3, 30, 32, 53, 70, 72, 89, 130, 136, 138, 140, 149, 151], "mappedgrid": [3, 67], "map": [3, 16, 29, 30, 39, 59, 66, 67, 77, 81, 84, 89, 91, 96, 110, 117, 121, 129, 151, 157], "mapc2p": [3, 25, 27, 67, 84, 89], "underli": [3, 51, 119], "other": [3, 4, 5, 6, 7, 9, 12, 13, 16, 20, 22, 27, 30, 35, 36, 38, 44, 45, 46, 48, 51, 52, 53, 55, 57, 58, 61, 62, 64, 66, 67, 68, 70, 71, 72, 76, 79, 80, 81, 83, 84, 86, 89, 91, 93, 95, 96, 97, 100, 103, 105, 106, 110, 111, 113, 114, 116, 117, 119, 128, 131, 134, 135, 136, 139, 141, 145, 149, 151, 153, 154, 155], "requir": [3, 4, 16, 20, 22, 25, 27, 30, 32, 35, 36, 40, 45, 47, 48, 55, 56, 58, 66, 67, 70, 73, 76, 79, 80, 83, 84, 89, 91, 92, 95, 96, 99, 100, 101, 103, 104, 110, 111, 113, 114, 117, 119, 122, 124, 128, 129, 130, 135, 136, 137, 138, 139, 140, 145, 146, 149, 152, 155, 157], "depend": [3, 13, 16, 28, 29, 30, 32, 35, 36, 40, 41, 46, 48, 51, 56, 57, 62, 64, 67, 70, 77, 82, 91, 92, 97, 98, 99, 104, 106, 110, 121, 132, 139, 151, 152, 154, 157], "summar": [3, 28, 31, 56, 110, 112, 154], "plotstyl": [3, 44, 77, 135], "anyth": [3, 6, 28, 29, 56, 58, 63, 111, 121], "valid": [3, 48, 70, 86, 93, 98, 101, 119, 139, 145, 146, 151], "fmt": 3, "group": [3, 13, 24, 28, 30, 48, 88, 92, 94, 102, 118, 128], "solid": [3, 16, 51, 70, 96, 135, 136, 138, 140], "dash": [3, 94], "o": [3, 5, 17, 38, 39, 40, 57, 66, 77, 80, 81, 84, 92, 93, 102, 105, 121, 138, 151, 154], "circl": [3, 47, 77], "bo": 3, "blue": [3, 11, 39, 44, 59, 66, 77, 130, 151], "though": [3, 39, 73, 145, 149], "color": [3, 30, 39, 51, 59, 66, 67, 76, 130, 135, 151], "also": [3, 4, 5, 6, 7, 8, 9, 11, 12, 16, 17, 18, 20, 22, 23, 24, 25, 28, 29, 30, 32, 33, 35, 36, 37, 38, 39, 41, 42, 44, 47, 48, 51, 52, 53, 54, 55, 56, 57, 58, 59, 62, 63, 66, 67, 68, 70, 71, 72, 73, 76, 77, 79, 83, 85, 86, 89, 91, 92, 93, 94, 96, 97, 98, 99, 100, 101, 102, 103, 104, 105, 106, 107, 108, 109, 110, 111, 113, 118, 119, 120, 121, 122, 123, 124, 125, 126, 127, 128, 129, 130, 131, 132, 134, 136, 138, 139, 140, 141, 143, 144, 145, 146, 147, 148, 149, 151, 152, 153, 154, 156, 157], "overrul": 3, "ani": [3, 4, 5, 6, 8, 13, 16, 18, 19, 20, 22, 27, 28, 29, 32, 35, 36, 37, 45, 48, 50, 51, 54, 55, 56, 58, 61, 62, 64, 66, 67, 69, 71, 72, 73, 77, 81, 87, 88, 89, 91, 92, 93, 94, 96, 98, 100, 104, 106, 109, 110, 111, 117, 121, 123, 127, 130, 131, 132, 135, 136, 137, 139, 145, 154, 157], "r": [3, 4, 6, 17, 44, 47, 52, 54, 66, 67, 69, 77, 83, 87, 94, 96, 128, 130, 135, 151, 157], "ff0000": [3, 59], "No": [3, 40, 51, 67, 89, 99, 128, 136, 139, 152], "extra": [3, 51, 129], "give": [3, 6, 9, 10, 13, 16, 24, 28, 30, 32, 33, 35, 36, 44, 52, 58, 59, 66, 70, 71, 72, 77, 79, 94, 95, 99, 111, 114, 118, 119, 123, 130, 136, 139, 149, 151, 153], "polygon": [3, 7, 38, 51, 59, 124, 151], "curv": [3, 44, 76, 130], "fill_between": 3, "describ": [3, 4, 5, 6, 7, 13, 14, 16, 19, 26, 28, 30, 31, 32, 35, 36, 38, 39, 44, 46, 47, 48, 51, 52, 54, 55, 59, 60, 62, 63, 66, 67, 70, 72, 73, 76, 77, 78, 89, 92, 98, 104, 108, 110, 111, 119, 122, 123, 128, 130, 131, 135, 136, 137, 139, 145, 146, 149, 151, 153, 154, 157], "abov": [3, 5, 13, 14, 16, 20, 28, 29, 32, 35, 36, 38, 39, 40, 41, 44, 48, 51, 53, 54, 55, 56, 58, 61, 63, 66, 70, 72, 77, 80, 81, 84, 93, 95, 100, 103, 104, 105, 110, 119, 121, 128, 130, 132, 134, 135, 136, 138, 139, 140, 145, 148, 149, 151, 154], "plot_var2": 3, "second": [3, 16, 30, 32, 36, 44, 47, 51, 55, 59, 67, 83, 89, 93, 99, 110, 113, 119, 127, 136, 139, 145, 147, 148, 151, 154, 157], "zero": [3, 16, 18, 30, 32, 39, 41, 59, 67, 83, 96, 97, 101, 103, 130, 131], "fill_wher": 3, "plotitem": [3, 27, 44, 77, 135], "mean": [3, 13, 22, 28, 32, 39, 44, 48, 52, 58, 67, 93, 94, 110, 128, 131, 136, 138, 140, 153], "map_2d_to_1d": 3, "In": [3, 5, 6, 8, 11, 12, 15, 16, 18, 19, 20, 22, 27, 30, 32, 38, 41, 44, 45, 48, 51, 52, 53, 54, 55, 56, 58, 59, 60, 62, 63, 66, 67, 68, 69, 70, 72, 77, 78, 79, 83, 84, 89, 92, 93, 94, 95, 96, 97, 99, 101, 104, 106, 107, 108, 110, 113, 114, 117, 118, 119, 121, 122, 127, 128, 130, 132, 133, 134, 136, 137, 139, 143, 144, 149, 151, 152, 154, 157], "about": [3, 5, 7, 13, 14, 16, 22, 25, 33, 35, 36, 40, 47, 48, 53, 55, 59, 62, 64, 67, 72, 78, 80, 83, 91, 94, 99, 106, 111, 118, 122, 124, 128, 135, 138, 139, 149, 152, 154, 157], "valu": [3, 5, 6, 7, 16, 20, 22, 27, 30, 33, 34, 35, 36, 38, 39, 41, 44, 45, 47, 49, 50, 51, 53, 59, 60, 62, 64, 66, 67, 70, 71, 72, 77, 84, 89, 91, 92, 93, 96, 97, 98, 99, 101, 103, 104, 110, 111, 113, 114, 116, 117, 119, 121, 123, 124, 127, 128, 130, 131, 132, 136, 137, 138, 139, 140, 145, 146, 149, 151, 152, 154, 157], "j": [3, 4, 5, 15, 17, 20, 22, 27, 39, 52, 59, 66, 67, 72, 79, 91, 92, 110, 113, 114, 132, 133], "v": [3, 16, 25, 29, 30, 32, 47, 60, 63, 111, 118, 137, 149], "radiu": [3, 139, 145, 146, 151], "q0_vs_radiu": 3, "convert": [3, 22, 25, 30, 33, 42, 47, 51, 56, 58, 59, 62, 70, 84, 96, 104, 105, 121, 124, 136, 137, 145, 149, 153], "numpi": [3, 13, 30, 32, 39, 47, 66, 80, 82, 83, 84, 86, 89, 96, 101, 102, 103, 105, 111, 129, 130, 138, 151, 152], "sqrt": [3, 32, 64, 83, 96, 97, 103, 138], "q0": [3, 96], "work": [3, 5, 8, 13, 16, 19, 20, 22, 24, 25, 26, 28, 29, 32, 35, 36, 40, 45, 48, 51, 52, 53, 54, 55, 56, 57, 58, 59, 66, 67, 69, 70, 71, 77, 80, 81, 82, 83, 85, 86, 87, 91, 92, 93, 94, 97, 99, 100, 105, 106, 108, 109, 110, 111, 115, 116, 117, 118, 119, 120, 121, 124, 126, 128, 135, 136, 137, 139, 141, 146, 149, 152, 156], "symbol": [3, 67, 106], "best": [3, 4, 16, 22, 26, 28, 41, 51, 53, 55, 62, 69, 71, 76, 77, 92, 96, 108, 109, 110, 111, 121, 126, 128, 139, 142, 145, 149, 154], "descript": [3, 4, 6, 9, 22, 23, 25, 30, 59, 67, 70, 73, 76, 92, 104, 108, 110, 128, 129, 139, 145, 149, 157], "celledges_show": [3, 22], "draw": 3, "amr_celledges_show": 3, "some": [3, 4, 5, 6, 7, 8, 10, 12, 16, 17, 18, 19, 20, 21, 22, 23, 24, 25, 27, 28, 30, 32, 35, 36, 39, 41, 42, 44, 45, 46, 48, 49, 51, 52, 53, 54, 55, 56, 58, 63, 66, 70, 71, 72, 76, 78, 79, 81, 84, 85, 87, 91, 92, 93, 95, 96, 98, 100, 101, 102, 103, 105, 106, 108, 109, 110, 111, 113, 114, 115, 116, 117, 118, 119, 120, 121, 122, 123, 124, 125, 126, 128, 130, 131, 132, 135, 136, 137, 138, 139, 140, 141, 145, 146, 148, 149, 151, 154], "level": [3, 6, 7, 16, 23, 27, 29, 32, 38, 39, 44, 45, 46, 47, 48, 51, 54, 55, 56, 58, 67, 71, 72, 84, 86, 89, 92, 93, 99, 106, 107, 110, 111, 113, 114, 118, 119, 121, 124, 127, 130, 131, 134, 136, 137, 138, 139, 140, 148, 149, 151, 153, 154], "patchedges_show": [3, 22], "mostli": [3, 76, 124], "contour_level": [3, 151], "three": [3, 13, 17, 22, 30, 32, 48, 51, 63, 67, 70, 94, 98, 104, 111, 130, 136, 139, 149, 151, 154], "contour_nlevel": 3, "contour_min": 3, "float": [3, 30, 32, 44, 47, 59, 86, 89, 97, 101, 104, 136, 137, 139, 140, 145, 151], "minimum": [3, 32, 44, 51, 70, 103, 119, 139, 151], "contour_max": 3, "maximum": [3, 22, 30, 32, 33, 34, 45, 67, 99, 103, 110, 113, 114, 121, 124, 136, 137, 138, 140, 145, 146], "contour_color": 3, "specif": [3, 5, 12, 22, 28, 30, 44, 45, 47, 51, 52, 58, 61, 63, 64, 81, 82, 84, 86, 91, 92, 93, 97, 98, 104, 108, 119, 120, 121, 124, 135, 136, 137, 138, 140, 146, 149], "b": [3, 5, 17, 28, 30, 32, 33, 39, 44, 52, 54, 55, 64, 77, 99, 110, 117, 124, 130, 131, 132, 139, 151, 153], "0000ff": [3, 59], "colormap": [3, 30, 39, 46, 51, 66, 67, 76, 78, 118, 124, 151], "amr_contour_color": 3, "As": [3, 36, 39, 45, 48, 54, 55, 59, 83, 103, 105, 109, 113, 124, 128, 129, 132, 147, 154], "instead": [3, 13, 32, 35, 36, 39, 41, 44, 52, 54, 55, 57, 58, 62, 63, 68, 100, 101, 104, 106, 118, 119, 122, 127, 128, 129, 130, 134, 149, 151], "black": [3, 44], "subsequ": [3, 10, 67], "both": [3, 16, 28, 30, 33, 35, 36, 38, 39, 44, 48, 53, 63, 66, 67, 70, 72, 84, 92, 93, 94, 99, 100, 110, 111, 117, 118, 121, 124, 128, 129, 130, 132, 136, 138, 140, 143, 149, 154], "fine": [3, 18, 32, 33, 39, 54, 69, 73, 96, 110, 119, 130, 132, 136, 139, 149, 154], "coars": [3, 18, 32, 51, 110, 119, 136, 149, 154], "anoth": [3, 22, 39, 44, 51, 55, 57, 58, 59, 72, 76, 80, 88, 99, 102, 111, 121, 145, 154], "refin": [3, 4, 5, 7, 8, 17, 22, 45, 48, 51, 52, 53, 66, 67, 72, 73, 83, 119, 121, 122, 124, 130, 132, 135, 136, 137, 138, 148, 149, 154], "region": [3, 6, 7, 13, 16, 22, 32, 38, 39, 45, 48, 49, 51, 59, 64, 70, 73, 108, 121, 124, 131, 132, 137, 138, 149, 151], "lack": 3, "hidden": [3, 62, 77], "blank": [3, 59, 145], "coarser": [3, 16, 53, 119, 132, 136, 137, 154], "easili": [3, 13, 28, 32, 51, 54, 67, 77, 84, 89, 100, 104, 105, 111, 124, 141], "contour_show": 3, "boolean": [3, 51, 66, 92, 97, 136, 137, 139], "most": [3, 20, 22, 27, 29, 32, 35, 36, 40, 41, 44, 48, 50, 51, 52, 53, 54, 57, 59, 62, 66, 67, 71, 73, 76, 77, 79, 81, 89, 93, 94, 99, 102, 103, 105, 110, 111, 118, 120, 126, 127, 128, 129, 130, 131, 135, 136, 137, 139, 142, 154], "commonli": [3, 67, 77, 79], "amr_contour_show": 3, "tupl": [3, 30, 47, 59, 70, 77, 89, 93, 151], "determin": [3, 5, 6, 30, 32, 39, 44, 45, 48, 50, 51, 54, 59, 70, 77, 87, 89, 92, 97, 101, 106, 110, 114, 118, 119, 127, 130, 131, 135, 136, 137, 139, 151, 154], "whether": [3, 6, 13, 16, 22, 47, 53, 60, 61, 62, 67, 81, 89, 92, 93, 97, 98, 99, 110, 111, 119, 128, 130, 136, 137, 139, 151], "view": [3, 4, 22, 35, 36, 44, 45, 51, 53, 54, 59, 72, 76, 78, 79, 83, 94, 100, 105, 117, 121, 141, 142], "finest": [3, 32, 39, 44, 121, 148, 151], "contour_kwarg": [3, 151], "pcolor_cmap": [3, 51], "pcolor_cmin": 3, "pcolor_cmax": 3, "rang": [3, 5, 13, 30, 44, 47, 51, 110, 113, 118, 129, 130], "thei": [3, 5, 6, 13, 16, 24, 27, 28, 30, 32, 38, 39, 44, 48, 51, 54, 55, 58, 59, 60, 63, 66, 67, 72, 76, 89, 96, 99, 104, 110, 111, 119, 132, 135, 139, 145, 149, 151, 154], "chosen": [3, 18, 29, 32, 38, 39, 51, 53, 66, 103, 110, 131, 137], "vari": [3, 15, 17, 25, 30, 39, 45, 53, 64, 96, 98, 117, 124, 128, 129, 131, 133, 157], "yield": 3, "veri": [3, 5, 16, 22, 48, 51, 55, 58, 59, 70, 77, 81, 84, 92, 93, 94, 95, 96, 99, 111, 114, 118, 130, 132, 136, 146, 149], "confus": [3, 53, 58, 106, 128], "pcolor_colorbar": 3, "colorbar": [3, 39, 59, 66, 121, 124, 130, 151], "ad": [3, 12, 16, 20, 22, 24, 25, 27, 29, 32, 34, 41, 44, 47, 53, 54, 55, 58, 59, 60, 64, 67, 70, 77, 82, 84, 87, 89, 90, 93, 94, 106, 107, 108, 110, 113, 114, 115, 116, 117, 118, 119, 120, 121, 122, 123, 124, 125, 127, 132, 136, 137, 139, 145, 148, 151, 155], "relat": [3, 7, 18, 22, 24, 54, 73, 97, 108, 120, 124, 131], "same": [3, 5, 6, 8, 13, 16, 22, 25, 28, 31, 32, 39, 41, 44, 46, 47, 48, 51, 53, 55, 58, 59, 60, 62, 64, 66, 68, 70, 73, 76, 77, 78, 79, 83, 87, 89, 91, 92, 93, 96, 97, 99, 104, 105, 113, 114, 118, 119, 124, 127, 128, 130, 136, 137, 138, 139, 143, 149, 151, 154], "pre": [3, 13, 33, 55, 85, 92, 105], "pend": 3, "amr_": [3, 7], "whose": [3, 77, 84, 96, 97, 132, 136, 137, 151], "origin": [3, 6, 13, 16, 20, 28, 30, 34, 44, 52, 54, 66, 71, 72, 84, 99, 104, 113, 119, 127, 137, 138, 140, 151], "hand": [3, 5, 18, 19, 20, 64, 83, 111, 130], "higher": [3, 6, 32, 51, 89, 99, 100, 110, 124, 128, 130, 131, 132], "shorter": [3, 110, 151], "last": [3, 18, 27, 32, 55, 77, 83, 84, 96, 103, 118, 136, 145], "repeatedli": [3, 94, 100], "common": [3, 23, 28, 35, 36, 40, 41, 62, 63, 73, 76, 83, 97, 99, 101, 102, 119, 121, 124, 152, 154], "finer": [3, 7, 32, 51, 110, 113, 114, 130, 136, 137], "celledg": 3, "stand": [4, 18], "conserv": [4, 5, 6, 17, 93, 99, 101, 122, 129, 154, 157], "law": [4, 17, 59, 139, 157], "packag": [4, 25, 28, 29, 35, 36, 51, 55, 56, 57, 63, 73, 76, 80, 81, 83, 89, 91, 93, 95, 96, 98, 100, 103, 105, 106, 123, 124, 152, 155], "wa": [4, 5, 6, 14, 19, 20, 25, 29, 30, 32, 33, 39, 48, 50, 54, 55, 62, 64, 66, 67, 70, 77, 94, 98, 99, 101, 110, 111, 112, 113, 114, 115, 116, 117, 118, 119, 120, 121, 122, 123, 124, 125, 127, 130, 132, 139, 148, 149, 151], "initi": [4, 5, 7, 12, 13, 18, 22, 25, 30, 44, 45, 47, 48, 51, 55, 60, 63, 67, 70, 73, 79, 81, 82, 83, 84, 86, 87, 89, 90, 92, 93, 97, 98, 99, 101, 102, 104, 107, 110, 118, 121, 124, 128, 131, 136, 138, 139, 140, 145, 149, 151], "develop": [4, 6, 7, 12, 13, 18, 22, 23, 48, 52, 54, 57, 58, 61, 66, 67, 76, 80, 81, 84, 91, 96, 99, 100, 106, 108, 111, 121, 122, 124, 128, 131, 132, 138], "linear": [4, 5, 17, 30, 32, 51, 70, 77, 83, 87, 99, 122, 128, 129, 130], "nonlinear": [4, 5, 17, 48, 87, 128, 136, 157], "hyperbol": [4, 5, 6, 17, 42, 73, 84, 91, 96, 97, 103, 128, 136, 139, 154, 157], "system": [4, 16, 17, 23, 36, 37, 51, 52, 56, 58, 59, 63, 71, 72, 81, 91, 93, 94, 96, 97, 100, 103, 106, 111, 128, 136, 138, 140, 147, 154, 157], "focu": [4, 45], "high": [4, 17, 32, 48, 51, 66, 70, 73, 84, 91, 99, 128, 131, 132, 139, 153, 154], "resolut": [4, 6, 17, 30, 32, 39, 44, 70, 89, 99, 103, 104, 113, 117, 121, 122, 128, 131, 139, 149, 151, 153, 154], "godunov": [4, 89, 99, 136, 138, 140, 154], "method": [4, 5, 7, 17, 32, 38, 42, 44, 53, 66, 77, 79, 83, 86, 87, 89, 94, 98, 99, 104, 110, 111, 117, 128, 135, 136, 137, 138, 140, 145, 148, 149, 151, 154], "framework": [4, 55, 81, 84, 118, 119], "applic": [4, 6, 15, 16, 19, 20, 22, 23, 24, 28, 29, 32, 35, 36, 37, 41, 42, 45, 46, 55, 56, 58, 63, 66, 68, 71, 79, 88, 89, 90, 91, 93, 99, 104, 107, 109, 110, 111, 113, 116, 117, 119, 120, 121, 123, 124, 128, 130, 132, 133, 136, 139, 143, 144, 149, 151, 152, 154, 155], "finit": [4, 17, 32, 42, 53, 59, 66, 67, 70, 99, 124, 130, 148, 149, 154], "volum": [4, 17, 29, 32, 42, 53, 59, 66, 67, 91, 124, 130, 137, 148, 149, 154], "riemann": [4, 5, 8, 20, 22, 23, 28, 29, 45, 55, 56, 58, 63, 73, 81, 83, 89, 90, 99, 100, 101, 103, 106, 134, 136, 138, 140, 143, 144, 157], "solver": [4, 5, 6, 20, 22, 23, 25, 28, 45, 56, 58, 63, 81, 82, 86, 89, 90, 93, 101, 115, 117, 119, 120, 121, 122, 123, 124, 136, 138, 140, 143, 144, 157], "resolv": [4, 32, 51, 54, 108, 121, 132], "jump": [4, 5, 67, 79, 89, 99, 119, 136, 157], "discontinu": [4, 99, 157], "interfac": [4, 19, 22, 67, 81, 84, 87, 91, 92, 97, 99, 104, 128, 154, 155, 157], "grid": [4, 7, 17, 18, 19, 20, 22, 23, 25, 27, 28, 33, 38, 39, 44, 45, 46, 48, 51, 52, 59, 66, 67, 72, 73, 76, 81, 83, 91, 93, 94, 96, 97, 98, 99, 101, 103, 110, 111, 113, 114, 116, 117, 119, 120, 121, 124, 128, 129, 130, 131, 132, 136, 137, 138, 140, 146, 148, 149, 151, 153, 154, 157], "wave": [4, 5, 6, 16, 17, 25, 32, 39, 48, 51, 52, 70, 87, 89, 91, 96, 97, 99, 110, 117, 119, 120, 129, 130, 131, 136, 137, 138, 139, 140, 154], "propag": [4, 5, 6, 17, 25, 30, 48, 51, 52, 70, 89, 91, 99, 110, 119, 128], "neighbor": [4, 32, 39, 66, 110, 119, 132, 137, 138, 151], "formul": [4, 5, 48, 64, 128, 136], "allow": [4, 6, 13, 22, 27, 28, 29, 32, 38, 39, 44, 45, 47, 50, 51, 53, 54, 56, 58, 64, 66, 67, 70, 71, 73, 76, 77, 86, 92, 93, 99, 101, 104, 105, 106, 110, 111, 113, 114, 117, 118, 119, 120, 121, 123, 124, 128, 130, 136, 138, 139, 140, 141, 145, 149, 151, 153], "easi": [4, 6, 11, 29, 38, 58, 67, 80, 84, 93, 94, 95, 130, 141, 154], "extens": [4, 17, 22, 24, 28, 30, 48, 51, 54, 58, 63, 67, 84, 91, 92, 104, 119, 120, 136, 147, 151, 157], "problem": [4, 5, 7, 16, 17, 18, 20, 24, 25, 27, 28, 29, 35, 36, 39, 42, 45, 58, 62, 66, 67, 70, 73, 77, 80, 82, 83, 88, 90, 91, 94, 97, 99, 102, 106, 111, 113, 114, 116, 117, 120, 124, 128, 130, 132, 136, 138, 139, 140, 141, 148, 152], "algorithm": [4, 7, 25, 32, 38, 39, 45, 52, 83, 89, 91, 92, 99, 103, 110, 121, 128, 130, 136, 138, 140, 151], "brief": [4, 55, 129, 139], "subroutin": [4, 6, 9, 16, 22, 32, 63, 110, 117, 128, 136, 137, 148, 154, 157], "equat": [4, 5, 16, 17, 25, 35, 36, 45, 48, 60, 64, 77, 82, 83, 84, 86, 91, 92, 93, 96, 99, 100, 101, 114, 117, 119, 121, 122, 128, 136, 138, 139, 140, 149, 154, 157], "solv": [4, 5, 8, 16, 17, 20, 26, 35, 36, 48, 58, 60, 82, 84, 86, 89, 91, 96, 97, 100, 122, 128, 129, 136, 149, 154, 157], "adapt": [4, 7, 17, 30, 39, 52, 53, 66, 67, 73, 83, 110, 121, 124, 128, 130, 135, 136, 154], "mesh": [4, 7, 17, 33, 52, 66, 67, 73, 76, 83, 110, 124, 135, 136, 154], "includ": [4, 6, 13, 18, 21, 22, 23, 27, 28, 29, 30, 32, 35, 36, 38, 40, 41, 44, 48, 51, 53, 55, 56, 58, 59, 61, 63, 64, 66, 67, 68, 70, 71, 73, 76, 77, 79, 81, 83, 84, 88, 89, 91, 92, 93, 94, 95, 96, 97, 98, 99, 100, 101, 103, 105, 106, 108, 110, 111, 113, 119, 120, 121, 122, 123, 124, 125, 128, 129, 130, 136, 138, 139, 141, 142, 145, 146, 148, 149, 151, 154], "amrclaw": [4, 5, 6, 12, 15, 16, 19, 20, 22, 23, 24, 28, 36, 38, 39, 41, 44, 45, 46, 52, 55, 56, 57, 58, 60, 66, 67, 68, 71, 72, 73, 100, 106, 107, 110, 111, 127, 128, 130, 133, 134, 136, 139, 143, 144, 147, 148, 152], "detail": [4, 5, 10, 16, 22, 23, 25, 26, 28, 29, 30, 32, 35, 36, 38, 41, 46, 48, 51, 54, 56, 57, 58, 61, 62, 66, 67, 70, 73, 77, 81, 86, 87, 88, 89, 92, 93, 94, 95, 96, 97, 99, 109, 110, 111, 114, 119, 121, 128, 130, 135, 136, 139, 141, 145, 149, 152, 153, 154, 157], "content": [4, 6, 23, 51, 55, 73, 84, 139, 149, 154, 155], "routin": [4, 5, 6, 16, 20, 25, 27, 30, 32, 35, 36, 44, 45, 46, 51, 52, 62, 67, 68, 71, 72, 73, 76, 79, 81, 84, 86, 89, 92, 95, 96, 99, 101, 102, 105, 110, 113, 114, 117, 119, 121, 122, 124, 128, 132, 136, 138, 140, 145, 151, 152, 154, 155, 157], "special": [4, 7, 16, 45, 46, 51, 61, 73, 81, 105, 110, 130, 151], "depth": [4, 5, 16, 17, 22, 30, 32, 33, 39, 44, 45, 48, 64, 70, 76, 78, 129, 131, 132, 139, 149], "averag": [4, 6, 15, 17, 32, 39, 45, 48, 49, 53, 67, 97, 101, 114, 128, 132, 133, 149, 151, 154], "geophys": [4, 16, 17, 23, 45, 48, 73, 136], "flow": [4, 16, 17, 23, 32, 33, 45, 46, 48, 91, 108, 124, 128, 136, 139, 149, 154], "geoclaw": [4, 7, 12, 17, 23, 24, 28, 30, 32, 33, 34, 36, 38, 41, 44, 52, 53, 55, 56, 57, 58, 59, 60, 64, 66, 68, 70, 73, 76, 100, 106, 108, 109, 111, 127, 128, 129, 131, 132, 134, 136, 137, 145, 146, 147, 148, 149, 150, 151, 152, 153, 154], "parallel": [4, 22, 23, 44, 56, 71, 82, 88, 90, 91, 93, 96, 98, 100, 104, 110, 111, 119], "scale": [4, 30, 49, 51, 67, 73, 91, 92, 113, 119, 121, 139], "ten": [4, 73], "thousand": [4, 73], "core": [4, 12, 73, 111, 121], "wish": [4, 13, 14, 15, 22, 29, 35, 36, 48, 51, 56, 58, 67, 75, 76, 91, 96, 99, 100, 102, 106, 108, 110, 119, 133, 141, 143, 144, 152], "discrib": 4, "book": [4, 12, 17, 25, 29, 80, 98, 105, 128], "levequ": [4, 16, 17, 24, 30, 52, 73, 87, 89, 91, 99, 105, 128, 136, 154, 157], "fvmhp": [4, 12, 16, 17, 25, 73, 128, 136, 154, 157], "virtual": [4, 13, 25, 27, 101, 105], "were": [4, 6, 14, 18, 20, 32, 44, 54, 60, 63, 67, 68, 84, 110, 113, 119, 122, 130, 132, 149], "4": [4, 7, 8, 9, 13, 16, 17, 23, 25, 28, 30, 32, 33, 34, 36, 38, 39, 41, 42, 44, 45, 48, 51, 53, 54, 55, 62, 63, 64, 66, 67, 71, 76, 77, 79, 80, 90, 91, 92, 93, 94, 96, 97, 99, 100, 104, 106, 110, 111, 113, 118, 121, 127, 130, 136, 137, 138, 139, 140, 147, 148, 149, 151, 156], "3": [4, 6, 7, 15, 16, 20, 22, 24, 25, 30, 32, 33, 36, 38, 42, 44, 45, 51, 53, 55, 57, 58, 59, 64, 67, 70, 77, 79, 80, 83, 86, 87, 89, 92, 93, 94, 97, 98, 99, 101, 105, 106, 110, 119, 121, 124, 126, 128, 130, 133, 136, 137, 138, 139, 140, 147, 148, 149, 151, 154, 157], "pointer": [4, 16, 54, 70, 76, 79, 99, 104, 117], "code": [4, 5, 6, 7, 8, 12, 14, 16, 19, 20, 21, 22, 23, 24, 27, 29, 32, 33, 35, 36, 38, 40, 41, 42, 44, 45, 48, 50, 52, 53, 54, 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18, 22, 28, 30, 58, 98, 101, 113, 114, 119, 121, 124, 130, 132, 139, 146, 149, 151, 154], "individu": [4, 22, 23, 51, 59, 62, 63, 67, 89, 110, 111, 145], "randal": [4, 17, 91], "univers": [4, 17, 24, 54, 61, 81, 98], "washington": [4, 17, 24, 54, 61, 123, 130, 151], "rjlevequ": [4, 28, 29], "marsha": [4, 6, 17], "berger": [4, 6, 17], "courant": [4, 6, 110, 120, 136, 137, 138, 140], "institut": 4, "nyu": 4, "mjberger": 4, "jan": [4, 55], "olav": 4, "langseth": [4, 17], "norwegian": 4, "defenc": 4, "research": [4, 17, 45, 48, 81, 99, 109], "establish": 4, "david": [4, 17, 81, 91, 99], "georg": [4, 17, 30], "usg": [4, 30, 153], "cascad": 4, "volcano": 4, "observatori": 4, "dlgeorg": 4, "ketcheson": [4, 17, 74, 81, 91, 99], "kaust": [4, 24], "ketch": 4, "kyle": [4, 17, 81, 87, 91, 92, 97], "mandli": [4, 17, 81, 87, 91, 92, 97], "ut": 4, "austin": 4, "contributor": [4, 24, 61, 91], "aron": [4, 17, 81, 91], "ahmadia": [4, 17, 81, 91], "amal": [4, 17, 81, 91], "alghamdi": [4, 17, 81, 91], 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99, 101, 104, 110, 130, 131, 132, 139, 149, 151, 154], "t_r": 5, "reach": [5, 110], "claw": [5, 6, 8, 11, 12, 13, 14, 15, 16, 19, 20, 22, 24, 28, 30, 32, 33, 35, 36, 37, 38, 40, 41, 44, 45, 47, 49, 50, 52, 54, 55, 56, 57, 58, 59, 62, 63, 67, 69, 70, 71, 78, 83, 86, 88, 91, 92, 93, 94, 100, 102, 106, 107, 108, 109, 110, 111, 113, 114, 116, 117, 120, 121, 123, 128, 132, 133, 138, 139, 140, 142, 143, 144, 147, 148, 149, 151, 152, 154, 155], "acoustics_1d_adjoint": 5, "acoustics_2d_adjoint": 5, "main": [5, 11, 12, 19, 28, 39, 54, 55, 66, 67, 73, 84, 86, 92, 96, 103, 104, 111, 120], "subdirectori": [5, 12, 20, 22, 23, 35, 36, 54, 55, 58, 62, 69, 79, 88, 93, 106, 111, 135, 139, 141, 147, 151], "must": [5, 6, 13, 16, 20, 22, 28, 30, 32, 39, 46, 51, 54, 61, 62, 63, 66, 67, 70, 71, 72, 81, 84, 92, 93, 96, 98, 99, 101, 102, 103, 104, 106, 110, 113, 117, 128, 130, 131, 132, 136, 138, 139, 140, 145, 151, 152, 153, 154, 157], "makefil": [5, 6, 11, 14, 15, 16, 19, 20, 23, 25, 28, 35, 36, 41, 54, 56, 58, 68, 71, 73, 77, 79, 84, 90, 110, 113, 117, 119, 121, 122, 124, 132, 133, 136, 138, 139, 140, 141, 143, 144, 149, 152, 154], "coeffici": [5, 64, 96, 97, 99, 101, 102, 103, 128, 139], "matric": [5, 128, 157], "transpos": 5, "vice": 5, "versa": 5, "q_t": [5, 96, 97, 99, 103, 154, 157], "q_x": [5, 97, 103, 157], "_x": [5, 39, 66, 97, 99, 151, 154, 157], "eigenvalu": 5, "unchang": [5, 67], "upon": [5, 101], "transform": [5, 41], "eigenvector": [5, 128, 157], "now": [5, 6, 7, 13, 18, 20, 22, 24, 26, 28, 29, 30, 32, 33, 38, 39, 41, 50, 53, 54, 55, 60, 64, 66, 70, 72, 77, 80, 83, 84, 89, 91, 92, 93, 94, 95, 96, 98, 99, 100, 103, 108, 110, 111, 113, 114, 117, 118, 119, 120, 121, 123, 124, 131, 135, 139, 141, 149, 156], "right": [5, 32, 61, 64, 70, 81, 89, 94, 96, 97, 101, 103, 127, 128, 130, 157], "src": [5, 6, 11, 14, 15, 16, 18, 19, 20, 28, 30, 32, 33, 39, 40, 41, 47, 50, 52, 55, 56, 58, 59, 62, 63, 67, 70, 71, 78, 95, 96, 104, 106, 107, 110, 111, 114, 117, 118, 120, 121, 122, 123, 124, 128, 132, 133, 136, 138, 140, 143, 151, 152, 157], "rp1_acoustics_variable_adjoint": 5, "f90": [5, 9, 15, 18, 20, 31, 32, 39, 44, 52, 62, 63, 71, 80, 96, 107, 110, 113, 117, 119, 121, 122, 123, 124, 128, 129, 132, 133, 143, 144, 149, 152, 154], "boundari": [5, 7, 20, 25, 39, 51, 59, 63, 66, 70, 71, 84, 89, 97, 99, 103, 108, 114, 117, 121, 130, 136, 138, 140], "condit": [5, 7, 20, 25, 61, 63, 73, 81, 82, 83, 84, 86, 93, 99, 107, 113, 114, 117, 121, 131, 136, 138, 139, 140], "adjust": [5, 13, 20, 32, 33, 45, 59, 89, 93, 131, 136, 154], "principl": [5, 151, 154], "vanish": 5, "dure": [5, 22, 32, 39, 44, 59, 70, 73, 113, 131, 132, 138, 139, 140, 149], "integr": [5, 22, 53, 60, 81, 91, 93, 99, 113, 114, 118, 138, 140, 148, 149, 154], "qinit": [5, 20, 22, 39, 45, 62, 63, 84, 131, 132, 154], "setrun": [5, 6, 7, 8, 14, 16, 19, 20, 25, 32, 33, 35, 36, 38, 39, 40, 42, 45, 46, 48, 59, 60, 62, 64, 66, 72, 73, 77, 107, 108, 110, 113, 117, 118, 119, 122, 124, 127, 128, 131, 132, 145, 149, 152, 154], "clawdata": [5, 38, 113, 117, 127, 136, 137, 138, 139, 140], "tfinal": [5, 83, 86, 103, 127, 136, 138, 140], "via": [5, 13, 22, 23, 24, 28, 29, 30, 35, 36, 41, 42, 44, 46, 48, 51, 54, 55, 56, 57, 58, 60, 62, 66, 67, 70, 71, 73, 77, 80, 83, 89, 92, 95, 98, 100, 102, 106, 110, 111, 121, 124, 128, 130, 134, 141, 143, 144, 149, 151, 154], "num_output_tim": [5, 83, 86, 93, 127, 136, 138, 140], "larg": [5, 6, 12, 20, 35, 36, 39, 48, 51, 53, 54, 67, 71, 76, 91, 93, 94, 110, 111, 118, 127, 130, 132, 136, 151, 153], "frequent": [5, 20, 27, 102, 118], "enough": [5, 54, 66, 146, 148, 149], "them": [5, 13, 18, 22, 28, 29, 30, 32, 44, 51, 54, 56, 67, 68, 73, 81, 83, 88, 92, 93, 94, 96, 104, 108, 111, 114, 123, 130, 142, 145, 151, 154], "reason": [5, 48, 51, 59, 70, 71, 73, 94, 96, 110, 136], "output_format": [5, 86, 93, 136, 138, 140], "binari": [5, 41, 55, 57, 61, 68, 81, 92, 93, 95, 118, 127, 136, 138, 151, 155], "so": [5, 6, 8, 9, 13, 16, 18, 19, 22, 27, 28, 29, 30, 32, 33, 35, 36, 38, 39, 40, 41, 42, 44, 48, 49, 51, 52, 53, 54, 55, 56, 58, 59, 60, 62, 63, 66, 67, 70, 71, 72, 73, 76, 77, 80, 83, 84, 85, 92, 93, 96, 101, 103, 104, 108, 110, 111, 113, 114, 118, 119, 120, 121, 122, 123, 124, 128, 130, 131, 132, 135, 136, 137, 138, 145, 148, 149, 151, 153, 154, 155], "manner": [5, 39, 44, 51, 60, 66, 70, 76, 121, 132, 136, 143, 144, 149], "v5": [5, 14, 29, 32, 38, 52, 54, 55, 56, 57, 58, 63, 98, 105, 106, 110, 126, 131, 132], "attribut": [5, 7, 22, 30, 38, 44, 66, 70, 76, 78, 79, 83, 86, 89, 92, 94, 96, 98, 99, 110, 113, 118, 122, 127, 135, 136, 137, 139, 145, 151], "clawutil": [5, 11, 14, 19, 20, 23, 28, 40, 41, 50, 55, 57, 62, 106, 111, 134, 136, 137, 138, 140, 151, 152], "clawrundata": [5, 44, 59, 122, 127, 136, 137, 138, 140], "adjointdata": [5, 122, 123], "ia": 5, "attribur": 5, "toler": [5, 32, 97, 104, 110, 111, 119, 137, 138, 139], "rundata": [5, 22, 32, 38, 39, 44, 59, 60, 110, 113, 124, 127, 132, 136, 137, 138, 139, 140], "use_adjoint": 5, "adjoint_outdir": 5, "abspath": [5, 38], "_output": [5, 13, 14, 32, 35, 36, 44, 50, 60, 67, 77, 79, 88, 93, 95, 98, 118, 125, 152], "period": [5, 6, 16, 32, 62, 83, 96, 110, 136, 138, 140], "t1": [5, 38, 44, 59, 60, 110, 137, 138, 139], "t0": [5, 127, 136, 138, 139, 140, 149], "t2": [5, 38, 44, 59, 60, 110, 137, 138, 139], "addit": [5, 7, 13, 16, 23, 24, 25, 28, 29, 32, 36, 37, 38, 45, 46, 56, 58, 59, 66, 70, 72, 73, 77, 78, 84, 87, 89, 91, 93, 99, 100, 101, 108, 110, 117, 119, 120, 121, 122, 125, 128, 130, 136, 140, 145, 148, 149, 154, 155], "aux": [5, 6, 15, 20, 22, 27, 44, 53, 84, 91, 92, 93, 96, 98, 99, 101, 102, 113, 114, 119, 121, 128, 129, 133, 136, 137, 138, 139, 140, 154], "inner": [5, 110, 122], "product": [5, 30, 61, 81, 104, 110, 122], "amrdata": [5, 22, 32, 110, 124, 137, 138, 139], "aux_typ": [5, 137, 138], "append": [5, 20, 32, 38, 39, 44, 51, 60, 77, 86, 98, 110, 118, 119, 127, 128, 138], "num_aux": [5, 84, 92, 94, 96, 97, 101, 128, 136, 137, 138, 140, 154], "len": [5, 30, 89, 138, 140, 151], "innerprod_index": 5, "base": [5, 6, 13, 20, 21, 22, 28, 29, 30, 32, 33, 45, 47, 51, 52, 53, 54, 59, 60, 63, 64, 66, 67, 70, 73, 84, 86, 87, 89, 91, 92, 97, 98, 99, 101, 103, 104, 110, 112, 117, 120, 122, 131, 136, 137, 138, 139, 140, 145, 151, 154, 157], "richardson": [5, 7, 22, 137, 138], "error": [5, 16, 18, 20, 35, 36, 40, 51, 58, 67, 71, 77, 86, 91, 92, 93, 104, 110, 111, 122, 137, 138, 145, 152], "estimat": [5, 138], "flag_richardson": [5, 110, 118, 137, 138], "flag_richardson_tol": [5, 110, 137, 138], "1e": [5, 66, 140], "flag2refin": [5, 7, 22, 137, 138], "flag2refine_tol": [5, 110, 137, 138], "01": [5, 39, 72, 89, 151], "we": [5, 6, 22, 24, 26, 32, 35, 36, 38, 39, 44, 48, 51, 53, 54, 55, 56, 58, 63, 66, 70, 76, 79, 83, 84, 85, 86, 88, 89, 92, 93, 94, 95, 96, 99, 100, 101, 102, 103, 104, 105, 108, 111, 121, 124, 128, 129, 130, 134, 151], "attempt": [5, 8, 11, 20, 33, 35, 36, 62, 92, 98, 104, 111, 113, 145, 151, 152], "estim": [5, 64, 110, 137, 139], "step": [5, 6, 10, 16, 19, 28, 32, 35, 36, 37, 44, 51, 54, 55, 60, 67, 76, 79, 81, 82, 83, 84, 86, 93, 96, 99, 101, 103, 108, 110, 113, 118, 119, 127, 128, 134, 136, 137, 138, 139, 140, 149, 157], "extrapol": [5, 7, 16, 22, 96, 103, 121, 136, 137, 138, 140], "togeth": [5, 16, 28, 29, 30, 54, 70, 110], "experiment": [5, 81], "otherwis": [5, 30, 54, 56, 58, 61, 66, 81, 93, 97, 98, 99, 100, 101, 104, 110, 136, 151], "simpli": [5, 13, 35, 36, 37, 39, 44, 51, 53, 56, 57, 62, 63, 66, 83, 85, 86, 88, 93, 94, 100, 111, 128, 130, 141, 145, 151, 154, 155], "magnitud": [5, 30, 110, 121, 139], "greater": [5, 32, 59, 64, 66, 100, 105, 110, 127, 136, 137, 139], "model": [5, 12, 16, 17, 24, 25, 30, 32, 41, 45, 46, 52, 53, 64, 93, 110, 118, 123, 124, 125, 130, 131, 132, 139, 145, 146, 149], "davisleveque2016": [5, 17], "chile2010_adjoint": 5, "shallow": [5, 15, 16, 17, 25, 32, 39, 45, 48, 52, 66, 73, 84, 91, 107, 114, 115, 117, 119, 121, 122, 128, 132, 133, 139, 143, 144, 149, 154], "water": [5, 16, 17, 25, 39, 44, 45, 46, 47, 48, 59, 66, 73, 76, 84, 91, 114, 115, 119, 121, 122, 128, 130, 131, 132, 139, 149, 151, 153, 154], "while": [5, 13, 16, 30, 39, 51, 67, 70, 77, 79, 84, 89, 93, 94, 99, 104, 121, 128, 132, 139, 153], "suitabl": [5, 8, 16, 20, 45, 48, 51, 98, 109, 128, 131, 145, 151], "To": [5, 6, 13, 14, 18, 22, 25, 28, 29, 35, 36, 37, 38, 39, 40, 44, 46, 49, 51, 52, 55, 57, 62, 65, 66, 67, 70, 71, 72, 77, 79, 80, 83, 85, 87, 88, 91, 92, 93, 94, 95, 96, 99, 100, 103, 105, 106, 108, 109, 110, 111, 117, 119, 122, 123, 124, 125, 127, 131, 134, 136, 137, 141, 149, 155], "date": [5, 28, 40, 47, 51, 54, 55, 62, 77, 145, 152], "across": [5, 110, 119, 149, 151], "ocean": [5, 16, 17, 32, 48, 51, 108, 110, 130, 139, 143, 144, 149], "wai": [5, 6, 13, 16, 26, 28, 35, 36, 38, 39, 44, 51, 53, 54, 58, 59, 61, 62, 77, 79, 80, 81, 83, 86, 88, 89, 94, 96, 98, 100, 103, 105, 106, 108, 109, 113, 119, 120, 121, 124, 126, 128, 130, 135, 136, 142, 146, 149, 154, 156, 157], "target": [5, 56, 58, 77, 84, 96, 124], "possibli": [5, 30, 56, 58, 66, 83, 89, 106, 118, 132], "deep": [5, 66, 139], "amplitud": [5, 119], "compar": [5, 22, 36, 44, 48, 51, 55, 77, 93, 110, 111, 131, 137, 139, 147, 153, 157], "essenti": [5, 53, 67, 99, 139, 149], "rest": [5, 22, 79, 108, 121, 131, 143, 144, 149, 151], "henc": [5, 32, 53, 54, 63, 99, 105, 106, 110, 132], "take": [5, 6, 22, 27, 28, 30, 32, 47, 54, 64, 66, 67, 70, 77, 83, 89, 96, 99, 103, 104, 105, 110, 111, 116, 122, 132, 136, 137, 138, 139, 151, 154, 157], "rpn2_geoclaw_adjoint_qwav": 5, "rpt2_geoclaw_adjoint_qwav": 5, "non": [5, 16, 55, 66, 73, 84, 96, 103, 122, 124, 136, 138, 140, 145, 157], "vector": [5, 22, 83, 87, 93, 101, 121, 128, 129], "split": [5, 6, 71, 89, 92, 99, 117, 118, 136, 138, 140, 148, 154, 157], "flux": [5, 17, 32, 89, 97, 99, 128, 136, 157], "comment": [5, 11, 24, 49, 55, 120, 127], "rpn2": [5, 128], "basic": [6, 10, 12, 25, 30, 35, 37, 45, 57, 66, 67, 83, 89, 91, 92, 93, 97, 99, 111, 128, 129, 145, 157], "strategi": 6, "logic": [6, 16, 17, 32], "rectangular": [6, 7, 16, 17, 30, 32, 38, 39, 45, 46, 59, 66, 89, 110, 121, 124, 137, 139, 149], "cover": [6, 7, 27, 28, 30, 32, 38, 39, 51, 59, 66, 70, 110, 114, 119, 132, 138, 139, 149], "too": [6, 47, 51, 54, 55, 118, 130, 138, 140], "portion": [6, 39, 51, 66, 84, 148], "factor": [6, 51, 137, 139, 148, 151], "direct": [6, 8, 16, 22, 30, 32, 35, 36, 44, 47, 51, 55, 59, 61, 62, 67, 70, 71, 77, 81, 86, 96, 103, 110, 120, 128, 136, 137, 139, 151], "anisotrop": [6, 22], "further": [6, 16, 25, 32, 41, 48, 59, 62, 67, 91, 105, 110, 111], "perhap": [6, 12, 32, 39, 44, 54, 77, 101, 104, 110, 130], "ratio": [6, 15, 22, 49, 67, 70, 87, 97, 99, 133, 136, 137, 138], "And": [6, 20, 54, 56], "section": [6, 13, 16, 35, 36, 39, 41, 46, 48, 54, 55, 63, 67, 76, 79, 111, 127, 136, 139, 151], "cfl": [6, 89, 93, 99, 103, 113, 118, 136, 138, 139, 140], "spatial": [6, 17, 25, 30, 38, 39, 45, 64, 96, 110, 113, 117, 124, 128, 131, 138, 140, 157], "reduc": [6, 16, 39, 51, 118, 120, 157], "thu": [6, 47, 93, 96, 121, 145], "proce": [6, 28], "advanc": [6, 17, 52, 66, 71, 103, 118, 136, 154], "taken": [6, 32, 66, 70, 93, 99, 110, 136, 154], "around": [6, 30, 32, 39, 59, 92, 108, 111, 124, 137, 138, 145, 151, 154], "librari": [6, 13, 15, 16, 20, 22, 25, 27, 28, 32, 35, 36, 41, 44, 52, 59, 62, 68, 71, 72, 73, 81, 87, 92, 94, 99, 104, 106, 107, 110, 119, 124, 132, 133, 137, 143, 144, 152, 154], "bcnamr": [6, 16, 121, 136, 138, 154], "check": [6, 14, 15, 16, 20, 32, 35, 36, 40, 41, 50, 51, 52, 54, 55, 56, 58, 62, 67, 77, 83, 84, 86, 91, 94, 98, 99, 101, 103, 104, 106, 107, 110, 114, 123, 130, 132, 133, 137, 138, 143, 144, 145, 151, 152, 153, 154], "denot": [6, 22, 44, 53, 128, 151], "procedur": [6, 16, 39, 45, 55, 154], "updat": [6, 12, 13, 22, 23, 25, 32, 49, 52, 56, 57, 58, 60, 79, 91, 99, 101, 102, 105, 108, 113, 117, 119, 120, 121, 122, 123, 124, 128, 137, 138, 140, 142, 145, 148, 154], "consist": [6, 25, 32, 47, 51, 55, 59, 94, 105, 119, 128, 130, 139, 149, 154], "replac": [6, 13, 29, 38, 44, 48, 52, 54, 55, 60, 62, 76, 84, 88, 92, 94, 95, 96, 97, 101, 104, 111, 113, 119, 121, 123, 124, 127, 128, 132, 151, 152], "ly": [6, 66], "within": [6, 16, 28, 54, 56, 58, 66, 73, 77, 95, 104, 106, 110, 128, 130, 135, 141, 151], "approxim": [6, 16, 25, 33, 48, 51, 70, 128], "lead": [6, 13, 18, 22, 32, 48, 51, 64, 67, 70, 106, 109, 132, 137], "total": [6, 30, 51, 70, 93, 99, 136, 137, 138, 140, 148], "mass": [6, 93], "restor": 6, "global": [6, 14, 89, 101, 104, 131, 149, 153, 154], "fix": [6, 18, 19, 20, 22, 25, 33, 38, 45, 54, 55, 59, 60, 62, 66, 81, 92, 97, 113, 114, 115, 116, 117, 118, 119, 120, 122, 123, 124, 125, 129, 136, 138, 140, 151], "up": [6, 13, 22, 28, 29, 30, 32, 35, 36, 39, 40, 44, 45, 51, 54, 55, 59, 62, 66, 67, 70, 77, 83, 84, 86, 88, 90, 91, 92, 94, 99, 100, 103, 106, 108, 110, 111, 117, 118, 121, 124, 130, 132, 135, 138, 140, 148, 149, 152, 153], "style": [6, 22, 28, 30, 38, 49, 51, 66, 72, 77, 81, 86, 121], "often": [6, 11, 13, 16, 20, 27, 29, 32, 35, 36, 40, 41, 44, 45, 48, 49, 50, 59, 60, 64, 70, 72, 93, 105, 106, 110, 111, 127, 128, 130, 131, 132, 135, 136, 139, 145, 149, 153, 154, 157], "olig": [6, 17], "colella": [6, 17], "bergeroliger84": [6, 17], "bergercolella89": [6, 17], "fortran": [6, 9, 11, 13, 14, 20, 23, 27, 28, 30, 32, 33, 35, 44, 45, 46, 53, 56, 58, 62, 63, 64, 71, 72, 73, 76, 79, 81, 83, 84, 86, 89, 91, 92, 94, 96, 97, 99, 100, 101, 104, 117, 118, 119, 121, 122, 123, 128, 129, 134, 138, 139, 140, 145, 147, 148, 149], "written": [6, 11, 25, 30, 32, 40, 44, 58, 59, 60, 61, 70, 72, 73, 77, 81, 90, 92, 96, 105, 119, 128, 136, 137, 138, 139, 140, 145, 151, 154], "ga": [6, 97], "dynam": [6, 20, 30, 48, 70, 73], "merg": [6, 13, 25, 28, 52, 54, 55, 58, 117], "earli": [6, 20, 132], "dai": [6, 13, 51, 139], "mjb": [6, 17], "rjl": [6, 17, 106, 123], "fulli": [6, 48, 51, 52, 120, 124, 128, 139, 145, 146], "consid": [6, 39, 48, 57, 58, 66, 84, 106, 134, 141, 151], "adjac": [6, 16, 32, 45, 110, 132, 136], "equival": [6, 44, 52, 53, 59, 60, 123, 149], "copi": [6, 14, 15, 16, 35, 36, 44, 51, 54, 55, 58, 67, 83, 86, 96, 101, 107, 108, 109, 110, 114, 118, 121, 125, 132, 133, 141, 143, 144, 149, 154], "interior": [6, 16, 39, 72, 101], "howev": [6, 13, 16, 22, 32, 35, 36, 39, 41, 46, 48, 51, 58, 61, 63, 66, 70, 71, 72, 81, 84, 110, 111, 119, 121, 123, 131, 132, 135, 139, 148], "lie": [6, 32, 33, 66, 110, 124, 130], "outsid": [6, 16, 38, 59, 66, 124, 130, 132, 149, 151], "li": [6, 16, 32, 110, 130, 139], "along": [6, 14, 16, 24, 27, 30, 32, 39, 44, 51, 54, 68, 70, 106, 110, 117, 127, 130, 132, 139, 153], "proper": [6, 15, 39, 44, 52, 53, 55, 59, 64, 66, 67, 92, 104, 113, 119, 133, 137, 138, 143, 144, 145, 154], "unless": [6, 32, 40, 41, 59, 97, 105, 131, 136, 151], "standard": [6, 16, 30, 32, 51, 53, 67, 72, 84, 87, 99, 105, 106, 110, 111, 138, 139, 140, 141, 149, 154, 157], "beyond": [6, 30, 105, 121], "modifi": [6, 9, 14, 15, 16, 20, 22, 27, 32, 35, 36, 39, 44, 45, 54, 55, 56, 58, 60, 62, 67, 69, 77, 84, 87, 89, 91, 96, 106, 107, 108, 109, 110, 116, 118, 119, 120, 121, 130, 132, 133, 136, 138, 139, 140, 143, 144, 149, 151, 154], "damag": [6, 61, 81], "bcn": [6, 16, 140, 154], "nd": [6, 16, 110, 121, 124, 154], "actual": [6, 27, 30, 32, 53, 58, 59, 67, 70, 77, 87, 92, 104, 108, 131, 139], "softwar": [6, 13, 24, 25, 29, 45, 48, 61, 68, 81, 91, 92, 93, 141, 149], "intern": [6, 30, 44, 53, 59, 70, 119, 149, 151, 157], "With": [6, 22, 28, 44, 49, 51, 66, 73, 105, 110, 118, 128, 130, 136], "opposit": [6, 16, 92], "side": [6, 16, 18, 32, 51, 54, 64, 70, 92, 111, 128, 157], "everi": [6, 12, 28, 32, 44, 60, 62, 63, 83, 86, 88, 92, 93, 101, 110, 111, 119, 120, 128, 132, 134, 136, 138, 140, 145, 149, 151, 154], "few": [6, 12, 13, 22, 26, 29, 36, 48, 54, 66, 67, 84, 99, 103, 105, 110, 111, 124, 131, 147, 149, 154], "coarsest": [6, 51, 72, 113, 127, 136], "revis": [6, 119], "shock": [6, 17, 48, 99, 110], "accord": [6, 53], "criteria": [6, 7, 22, 25, 32, 66, 101], "cluster": [6, 17, 57, 110, 137, 138], "rigoutsi": 6, "bergerrigoutsis91": [6, 17], "nonoverlap": 6, "rectangl": [6, 7, 25, 30, 66, 70, 110, 124, 151], "balanc": [6, 17, 73, 120, 129, 143, 144], "conflict": [6, 28, 58, 62, 67, 102, 106], "goal": 6, "possibl": [6, 13, 22, 26, 28, 30, 32, 44, 47, 48, 51, 56, 61, 62, 70, 77, 81, 89, 92, 94, 95, 99, 104, 106, 110, 128, 130, 131, 136, 137, 149, 153, 154], "minim": [6, 58, 66, 92, 130, 137, 151], "overhead": [6, 71, 110, 148], "cutoff": [6, 138], "control": [6, 7, 23, 25, 32, 41, 44, 54, 56, 58, 60, 67, 79, 82, 87, 89, 91, 92, 93, 94, 96, 110, 119, 124, 129, 139], "fraction": [6, 13, 30, 110, 136, 154, 157], "70": [6, 51], "realli": [6, 111, 154], "At": [6, 13, 27, 28, 35, 36, 39, 66, 94, 99, 103, 105, 110, 124, 136], "present": [6, 24, 59, 89, 97, 98, 99, 104, 141, 154, 157], "previous": [6, 22, 32, 66, 79, 117, 124, 132], "bilinear": [6, 32, 39, 44, 53, 113, 114, 149], "doxygen": [6, 7, 25, 120], "flowchart": [6, 7, 25], "capabl": [7, 12, 22, 32, 34, 48, 52, 66, 73, 84, 113, 118, 119, 121, 122, 123, 124, 125, 151, 153], "block": [7, 30, 39, 59, 70, 72, 73, 83, 92, 101, 104, 111, 154], "structur": [7, 10, 22, 32, 38, 55, 58, 62, 73, 98, 99, 119, 130, 135, 151], "input": [7, 14, 16, 20, 23, 25, 27, 30, 33, 40, 45, 51, 59, 63, 66, 67, 83, 86, 87, 89, 91, 97, 98, 99, 104, 108, 118, 121, 122, 123, 128, 138, 139, 140, 145, 146, 149, 151, 154], "indic": [7, 16, 20, 22, 25, 29, 30, 32, 38, 39, 41, 44, 45, 51, 53, 55, 57, 58, 63, 67, 75, 79, 89, 93, 94, 97, 99, 103, 106, 110, 111, 119, 124, 128, 129, 136, 138, 139, 140, 149, 151, 154], "tool": [7, 8, 17, 22, 23, 28, 30, 32, 33, 35, 36, 39, 45, 46, 47, 48, 51, 53, 58, 59, 67, 70, 75, 76, 77, 78, 80, 91, 106, 109, 114, 115, 119, 120, 124, 125, 139, 141, 149, 151, 153, 155], "matlab": [7, 22, 25, 35, 36, 75, 76, 77, 95, 105, 121, 124, 125], "deprec": [7, 30, 34, 54, 117, 121, 139, 149, 151], "debug": [7, 41, 62, 72, 76, 93, 101, 106, 111, 136, 138], "flag": [7, 12, 13, 22, 25, 28, 29, 38, 40, 41, 45, 52, 56, 58, 68, 71, 84, 102, 104, 106, 117, 122, 138, 139], "sampl": [7, 8, 14, 17, 25, 29, 32, 41, 45, 51, 70, 106, 111, 127, 130, 136, 137, 149, 151, 154], "ghost": [7, 16, 18, 71, 72, 89, 92, 99, 101, 119, 136, 138, 140, 148, 154, 157], "flagregion": [7, 25, 66, 110, 124, 130], "rule": [7, 13, 25, 59, 66, 84], "convex": [7, 32], "slu": 7, "bounding_box": [7, 33], "mask_outsid": [7, 66], "write": [7, 28, 30, 33, 38, 39, 44, 45, 50, 53, 54, 64, 70, 72, 73, 76, 83, 86, 89, 90, 92, 93, 94, 98, 119, 121, 138, 140, 145, 149, 151], "instanti": [7, 86, 94, 96, 99, 101, 138, 140], "make_kml": 7, "simpl": [7, 29, 35, 36, 38, 45, 55, 70, 84, 91, 96, 97, 99, 104, 109, 111, 151], "select": [7, 12, 13, 15, 16, 28, 32, 39, 66, 93, 99, 107, 110, 113, 120, 124, 126, 133, 136, 139, 143, 144, 153], "continent": [7, 66], "shelf": [7, 66], "guid": [7, 13, 17, 18, 23, 24, 25, 45, 46, 52, 57, 91, 105, 110, 120, 124, 142], "adjoint": [7, 17, 25, 52, 110, 121, 122], "gaug": [7, 25, 32, 45, 59, 89, 90, 101, 108, 113, 117, 118, 119, 120, 121, 124, 127, 131, 138], "extend": [8, 16, 22, 39, 59, 66, 67, 89, 121, 130, 132, 139, 149, 151, 157], "directli": [8, 19, 23, 32, 48, 56, 67, 70, 77, 79, 83, 84, 87, 91, 101, 104, 106, 121, 151, 155], "obviou": [8, 51], "elimin": [8, 22, 66, 84, 106, 121, 139], "gallery_classic_amrclaw": [8, 35], "num_cel": [8, 22, 89, 128, 136, 137, 138, 140], "refinement_ratios_i": [8, 137, 138], "sweep": [8, 128], "transvers": [8, 89, 119, 128, 129, 136, 154, 157], "graph": 9, "understand": [9, 25, 35, 36, 48, 76, 91, 103, 110, 128], "filpatch": [9, 18, 39, 119, 123], "idea": [10, 24, 30, 66, 67, 73, 83, 103, 114, 151, 157], "overal": [10, 83], "who": [10, 12, 19, 22, 24, 32, 41, 48, 58], "gori": 10, "monster": 10, "column": [10, 30, 32, 44, 48, 60, 93, 97, 117, 130, 151], "markup": 11, "languag": [11, 76, 104, 105], "restructur": [11, 54], "text": [11, 54, 55, 59, 72, 86, 92, 99, 117], "sphinx": [11, 23, 25, 55, 120], "covert": 11, "convert_readm": 11, "brows": [11, 24, 42, 51, 67, 141, 154], "insert": [11, 16, 70, 92, 149], "script": [11, 19, 20, 28, 30, 32, 40, 44, 51, 54, 57, 62, 67, 73, 76, 81, 84, 88, 90, 91, 93, 94, 99, 104, 105, 106, 111, 121, 125, 128, 135, 139, 140, 151], "invok": [11, 14, 71, 132, 152], "minor": [11, 18, 51, 54, 93, 113, 114, 115, 116, 117, 118, 119, 120, 121, 122, 124], "syntax": 11, "highlight": [11, 13], "header": [11, 30, 32, 39, 44, 53, 66, 70, 72, 92, 98, 117, 119, 121, 145, 149, 151], "complex": [12, 38, 89], "archiv": [12, 21, 36, 51, 55, 111, 141, 147, 151, 153], "github": [12, 15, 22, 23, 24, 25, 26, 29, 52, 54, 56, 57, 58, 88, 96, 100, 107, 111, 116, 118, 119, 120, 126, 128, 129, 133, 143, 144, 152], "app": [12, 13, 18, 23, 26, 28, 29, 32, 37, 42, 70, 108, 109, 116, 120, 121, 122, 123, 124, 125, 129], "com": [12, 13, 23, 24, 26, 28, 29, 52, 54, 55, 56, 57, 58, 92, 94, 96, 100, 116, 118, 119, 120, 126, 129], "fvmbook": [12, 42], "galleri": [12, 35, 36, 37, 42, 43, 55, 75, 76, 88, 91, 105, 111, 116, 120, 141, 147, 154], "anim": [12, 16, 42, 51, 117, 124, 125, 141], "instal": [12, 13, 18, 23, 25, 29, 35, 51, 54, 55, 79, 81, 82, 85, 90, 92, 103, 111, 112, 113, 114, 115, 116, 117, 118, 119, 120, 121, 122, 123, 124, 125, 126, 134, 156], "collect": [12, 25, 26, 28, 30, 32, 70, 76, 83, 99, 141], "either": [12, 16, 20, 30, 32, 39, 45, 46, 51, 60, 62, 66, 67, 70, 77, 79, 83, 89, 92, 93, 99, 104, 106, 110, 111, 117, 118, 119, 121, 128, 130, 132, 139, 145, 149, 151, 154, 157], "clone": [12, 18, 23, 24, 42, 52, 54, 55, 56, 58, 80, 94, 100, 109, 152], "git": [12, 13, 23, 24, 25, 26, 52, 55, 56, 58, 91, 100, 111, 123], "navig": [12, 29, 54, 141], "green": [12, 59, 66, 70, 77, 111, 151], "button": [12, 13, 28, 51, 59, 120], "download": [12, 13, 28, 29, 30, 36, 37, 39, 45, 51, 55, 56, 57, 58, 68, 88, 94, 100, 121, 122, 126, 147, 151, 152, 153], "zip": [12, 51, 55], "illustr": [12, 25, 30, 32, 35, 51, 66, 67, 70, 109, 116, 117, 121, 123, 128, 130, 141, 151], "variou": [12, 20, 22, 30, 38, 48, 54, 67, 70, 77, 79, 89, 103, 105, 106, 110, 119, 128, 135, 139, 145], "aspect": [12, 24, 29, 48, 49, 67, 151], "visibl": [12, 13, 51, 109, 141], "render": [12, 22, 51, 59, 155], "advantag": [12, 76, 92, 105, 111, 130], "independ": [12, 23, 30], "contact": [12, 88, 91, 100], "u": [12, 13, 16, 24, 29, 32, 47, 48, 55, 58, 60, 81, 88, 91, 97, 100, 101, 102, 103, 108, 120, 128, 137, 140, 145, 153], "like": [12, 13, 24, 28, 29, 39, 41, 51, 54, 55, 59, 60, 67, 68, 79, 84, 86, 89, 92, 93, 94, 97, 98, 99, 101, 105, 106, 111, 118, 128, 130, 135, 148, 149, 152], "storm": [12, 17, 24, 25, 45, 117, 120, 121, 122, 123, 125], "surg": [12, 17, 24, 25, 45, 117, 120, 121, 122, 123, 145], "empti": [12, 44, 98, 101, 104, 106, 136, 145, 151], "gitmodul": 12, "pull": [12, 24, 26, 29, 54, 55, 57, 88, 96, 111, 116, 119, 120, 128], "request": [12, 24, 26, 30, 54, 57, 72, 83, 88, 89, 93, 96, 98, 111, 119, 121, 128, 139, 145, 151], "init": [12, 25, 28, 39, 45, 52, 57, 131], "leav": [12, 13, 16, 44, 56, 58, 137, 151], "off": [12, 13, 44, 48, 51, 59, 67, 79, 86, 93, 110, 137, 151], "won": [12, 13, 66, 84, 151], "hurt": [12, 63], "maintain": [12, 28, 105, 121, 137, 149, 154], "flavor": [12, 21, 57, 92], "demonstr": [12, 25, 88, 94], "agre": [12, 28, 39, 53, 128, 148, 151, 154], "seen": [12, 22, 32, 35, 36, 37, 48, 71, 96, 136, 141], "cloud": 13, "elast": [13, 70], "sign": [13, 18, 24, 77, 145], "account": [13, 24, 28, 55, 85, 94], "750": 13, "hour": [13, 51, 59], "free": [13, 51, 62, 70, 81, 85, 96, 100, 102, 105], "micro": 13, "suffici": [13, 16, 20, 70, 71, 108, 113, 139], "tier": 13, "inform": [13, 14, 22, 25, 32, 33, 35, 36, 46, 47, 48, 49, 50, 56, 58, 63, 72, 77, 78, 79, 80, 83, 84, 89, 93, 94, 95, 97, 98, 104, 106, 118, 121, 122, 124, 126, 127, 128, 131, 134, 136, 137, 139, 145, 148, 149, 152, 153, 154, 155], "uw": [13, 24], "escienc": 13, "aw": [13, 56], "tutori": [13, 29, 55, 79, 82, 86, 91, 100, 106, 109], "gear": 13, "faq": [13, 25, 76, 105], "price": 13, "charg": 13, "per": [13, 30, 44, 51, 59, 67, 71, 92, 137], "thereof": 13, "regardless": [13, 39, 66, 110, 136, 139], "cpu": [13, 52, 118, 121, 123, 148], "consol": [13, 93, 139], "tab": [13, 54, 126], "east": [13, 149], "cheaper": 13, "rate": 13, "menu": [13, 18, 25, 54, 59, 120, 126, 131, 153], "imag": [13, 35, 36, 39, 55, 57, 59, 66, 111, 121, 130], "platform": [13, 51, 86, 94, 105, 111], "finish": [13, 77, 83], "load": [13, 59, 93, 95, 98, 104, 105, 111, 151, 155], "databas": [13, 30, 70, 104, 108, 121, 149], "uwamath": 13, "bar": [13, 54, 145], "screen": [13, 28, 51, 59, 86, 93, 94, 118, 138, 140], "shapshot": 13, "machin": [13, 25, 57, 71, 73, 105, 111, 119, 134], "disk": [13, 44, 83, 92, 93, 111, 119], "ubuntu": [13, 57, 105], "linux": [13, 57, 69, 80, 102, 105, 111, 134], "popup": 13, "look": [13, 14, 22, 25, 28, 30, 39, 51, 54, 55, 59, 67, 68, 77, 79, 84, 89, 94, 98, 99, 103, 104, 105, 106, 111, 114, 121, 130, 136, 137, 139, 148, 151, 152], "sort": [13, 39, 56, 121, 135, 152], "larger": [13, 20, 32, 51, 59, 70, 71, 72, 77, 89, 113, 119, 139, 149], "cost": [13, 99], "continu": [13, 22, 28, 30, 49, 54, 81, 105, 128, 136, 157], "eventu": [13, 45, 124], "don": [13, 27, 28, 54, 55, 77, 93, 94, 100, 111, 138, 152], "pair": [13, 92, 111, 151], "secur": 13, "quick": [13, 25, 36, 45, 46, 80, 105, 111, 147], "close": [13, 39, 51, 54, 59, 66, 67, 92, 110, 124, 137, 145], "back": [13, 27, 29, 54, 55, 120], "statu": [13, 28, 50, 86, 103], "wait": 13, "until": [13, 32, 60, 66, 132], "refresh": [13, 44], "bottom": [13, 15, 30, 35, 36, 45, 48, 64, 66, 70, 83, 96, 97, 119, 120, 133, 143, 144], "scroll": 13, "down": [13, 30, 93, 118, 145, 149, 151], "dn": 13, "screenshot": [13, 51], "rjlkei": 13, "pem": 13, "abl": [13, 54, 106], "ssh": [13, 28], "keypair": 13, "50": [13, 17, 32, 51, 99, 114, 138], "19": [13, 17, 24, 148], "75": [13, 17, 87, 103, 130], "229": 13, "amazonaw": 13, "gfortran": [13, 56, 58, 71, 80, 82, 102, 134, 152], "ipython": [13, 73, 77, 79, 84, 85, 91, 93, 100, 103, 105, 106, 117, 118], "scipi": [13, 84, 105, 145, 151], "netcdf": [13, 41, 45, 118, 121, 123, 125, 136, 138, 140, 145, 151, 153], "apach": 13, "server": [13, 29, 39, 51, 54, 55, 66, 121, 149, 153], "apt": [13, 105], "fetch": [13, 47], "bring": [13, 51, 54, 67], "master": [13, 15, 25, 29, 54, 55, 58, 96, 107, 118, 119, 120, 121, 122, 123, 124, 125, 126, 129, 133, 143, 144], "make_lib": 13, "compil": [13, 25, 35, 36, 40, 46, 56, 58, 63, 71, 73, 79, 80, 84, 91, 92, 96, 100, 104, 113, 128, 129, 134], "bashrc": [13, 41, 102, 134], "Of": [13, 26, 70, 103, 108, 149], "cours": [13, 26, 32, 44, 46, 60, 70, 94, 95, 103, 105, 108, 139, 149], "tar": [13, 56, 59, 123, 126], "instruct": [13, 18, 24, 25, 35, 36, 39, 51, 52, 54, 55, 56, 57, 68, 83, 85, 91, 94, 100, 103, 106, 120, 126, 127, 134, 152], "probabl": [13, 28, 51, 64, 66, 105, 106], "window": [13, 30, 67, 79, 105, 134], "respons": [13, 48, 83, 98], "pretti": 13, "slow": [13, 51, 93, 102], "_plot": [13, 35, 36, 44, 67, 79, 135, 141], "local": [13, 17, 20, 25, 28, 51, 54, 59, 62, 63, 67, 87, 89, 96, 101, 119, 121, 132, 149, 151, 154], "sftp": 13, "much": [13, 28, 32, 41, 51, 54, 72, 73, 76, 105, 110, 113, 117, 124, 130, 136, 139, 148, 151], "smaller": [13, 51, 64, 73, 89, 93, 113, 132, 136, 138, 139, 140, 151], "quicker": [13, 130], "browser": [13, 28, 29, 35, 36, 51, 54, 141], "explain": [13, 32, 48, 66, 136, 141], "webserv": 13, "inbound": 13, "port": [13, 29, 90, 91, 96, 137], "22": [13, 24, 151], "80": [13, 17, 51, 94, 130], "drop": [13, 54, 124, 132, 136], "tcp": 13, "Then": [13, 16, 28, 29, 30, 44, 54, 55, 57, 63, 66, 70, 71, 79, 83, 86, 94, 100, 101, 102, 106, 128, 130, 151, 152], "someth": [13, 27, 28, 54, 62, 69, 76, 93, 98, 99, 106, 149, 152, 154], "shot": 13, "ln": 13, "expos": 13, "home": [13, 29, 30, 56, 58, 134], "scp": 13, "TO": [13, 61, 81], "send": [13, 24, 96, 128], "remot": [13, 51, 55, 121, 151, 153], "rel": [13, 20, 30, 40, 46, 48, 51, 70, 71, 77, 104, 106, 111, 114, 115, 116, 117, 118, 119, 120, 121, 122, 123, 124, 125, 131, 137, 139, 141, 149, 153], "end": [13, 29, 30, 32, 44, 47, 51, 55, 59, 86, 93, 97, 103, 105, 108, 110, 118, 119, 121, 127, 129, 130, 138, 140, 145, 148], "retriev": [13, 47, 79, 84, 99, 151, 153], "sit": 13, "idl": 13, "action": [13, 14, 84], "restart": [13, 25, 44, 79, 91, 118, 119, 120, 121, 123, 136, 138, 140], "later": [13, 39, 50, 51, 58, 79, 99, 127], "But": [13, 32, 39, 51, 77, 102, 114, 121, 132], "futur": [13, 22, 25, 26, 35, 36, 39, 48, 53, 59, 64, 83, 99, 105, 118, 119, 121, 124, 145, 149], "job": 13, "eb": 13, "runclaw": [14, 50, 114, 123, 125, 128], "autom": [14, 54, 84, 111], "certain": [14, 32, 45, 57, 66, 93, 110, 118, 130, 136], "keep": [14, 25, 28, 32, 33, 35, 36, 71, 83, 86, 91, 101, 104, 111, 114, 139], "log": [14, 25, 28, 29, 89, 90, 91, 98, 99], "came": 14, "rundir": [14, 86], "environ": [14, 25, 28, 35, 36, 40, 50, 51, 54, 56, 57, 58, 67, 69, 71, 73, 95, 102, 104, 106, 119, 151, 152], "By": [15, 30, 41, 47, 51, 53, 59, 70, 77, 79, 83, 89, 93, 95, 102, 121, 130, 133, 143, 144, 151, 157], "noth": [15, 60, 101, 122, 133, 143, 144, 151, 154], "rememb": [15, 27, 71, 77, 94, 133, 143, 144], "b4step1": [15, 63, 154], "b4step2": [15, 133, 154], "b4step3": 15, "branch": [15, 18, 25, 29, 41, 50, 52, 55, 57, 58, 107, 111, 120, 121, 122, 123, 124, 125, 126, 133, 143, 144], "tag": [15, 51, 55, 107, 133, 137, 138, 143, 144], "bathymetri": [15, 45, 48, 51, 59, 97, 108, 119, 121, 129, 131, 133, 139, 149, 151], "area": [15, 22, 45, 99, 108, 119, 132, 133], "dy": [15, 47, 53, 59, 60, 72, 84, 89, 93, 117, 121, 133, 149, 151], "capac": [15, 97, 133, 136, 137, 138, 140], "length": [15, 30, 48, 59, 70, 96, 101, 119, 133, 136, 137, 138, 139, 154], "latter": [15, 66, 96, 124, 130, 133, 136, 145, 154], "quantiti": [15, 32, 59, 67, 86, 90, 91, 97, 101, 129, 133, 139], "latitud": [15, 30, 32, 46, 47, 53, 70, 76, 117, 130, 133, 139, 145, 151], "coordinate_system": [15, 60, 133, 139], "impos": [16, 84, 110, 139, 143, 144, 157], "chapter": [16, 128, 136, 154], "choic": [16, 45, 76, 99, 136, 138, 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Flowcharts": [[10, "amrclaw-flowcharts"]], "Application documentation": [[11, "application-documentation"]], "Converting README.rst to README.html": [[11, "converting-readme-rst-to-readme-html"]], "Converting code to html with clawcode2html": [[11, "converting-code-to-html-with-clawcode2html"]], "Clawpack Applications repository": [[12, "clawpack-applications-repository"]], "Jupyter Notebooks": [[12, "jupyter-notebooks"]], "Submodules": [[12, "submodules"]], "Examples included with Clawpack": [[12, "examples-included-with-clawpack"]], "Amazon Web Services EC2 Clawpack AMI": [[13, "amazon-web-services-ec2-clawpack-ami"]], "Finding the Clawpack AMI": [[13, "finding-the-clawpack-ami"]], "Launching an instance": [[13, "launching-an-instance"]], "Logging on to your instance": [[13, "logging-on-to-your-instance"]], "Using Clawpack": [[13, "using-clawpack"]], "Viewing plots of results": [[13, "viewing-plots-of-results"]], "Viewing webpages directly from your instance": [[13, "viewing-webpages-directly-from-your-instance"]], "Transferring files to/from your instance": [[13, "transferring-files-to-from-your-instance"]], "Stopping your instance": [[13, "stopping-your-instance"]], "Creating your own AMI": [[13, "creating-your-own-ami"]], "b4run function": [[14, "b4run-function"]], "b4step default routines": [[15, "b4step-default-routines"]], "b4step routine in GeoClaw": [[15, "b4step-routine-in-geoclaw"]], "Boundary conditions": [[16, "boundary-conditions"], [157, "boundary-conditions"]], "Boundary conditions for adaptive refinement": [[16, "boundary-conditions-for-adaptive-refinement"]], "Boundary conditions for GeoClaw": [[16, "boundary-conditions-for-geoclaw"]], "Boundary conditions for clamshell grids on the sphere": [[16, "boundary-conditions-for-clamshell-grids-on-the-sphere"]], "User-defined boundary conditions": [[16, "user-defined-boundary-conditions"]], "Bibliography": [[17, "bibliography"]], "Papers describing the Clawpack software and algorithms": [[17, "papers-describing-the-clawpack-software-and-algorithms"]], "Papers describing applications": [[17, "papers-describing-applications"]], "Other references": [[17, "other-references"]], "Changes to master since v5.7.1": [[18, "changes-to-master-since-v5-7-1"]], "Changes that are not backward compatible": [[18, "changes-that-are-not-backward-compatible"], [121, "changes-that-are-not-backward-compatible"], [122, "changes-that-are-not-backward-compatible"], [123, "changes-that-are-not-backward-compatible"], [124, "changes-that-are-not-backward-compatible"], [125, "changes-that-are-not-backward-compatible"]], "General changes": [[18, "general-changes"], [121, "general-changes"], [122, "general-changes"], [123, "general-changes"], [124, "general-changes"], [125, "general-changes"]], "Changes to classic": [[18, "changes-to-classic"], [113, "changes-to-classic"], [114, "changes-to-classic"], [115, "changes-to-classic"], [116, "changes-to-classic"], [117, "changes-to-classic"], [118, "changes-to-classic"], [119, "changes-to-classic"], [120, "changes-to-classic"], [121, "changes-to-classic"], [122, "changes-to-classic"], [123, "changes-to-classic"], [124, "changes-to-classic"], [125, "changes-to-classic"]], "Changes to clawutil": [[18, "changes-to-clawutil"], [113, "changes-to-clawutil"], [114, "changes-to-clawutil"], [115, "changes-to-clawutil"], [116, "changes-to-clawutil"], [117, "changes-to-clawutil"], [118, "changes-to-clawutil"], [119, "changes-to-clawutil"], [120, "changes-to-clawutil"], [121, "changes-to-clawutil"], [122, "changes-to-clawutil"], [123, "changes-to-clawutil"], [124, "changes-to-clawutil"], [125, "changes-to-clawutil"]], "Changes to visclaw": [[18, "changes-to-visclaw"], [113, "changes-to-visclaw"], [114, "changes-to-visclaw"], [115, "changes-to-visclaw"], [116, "changes-to-visclaw"], [117, "changes-to-visclaw"], [118, "changes-to-visclaw"], [119, "changes-to-visclaw"], [120, "changes-to-visclaw"], [121, "changes-to-visclaw"], [122, "changes-to-visclaw"], [123, "changes-to-visclaw"], [124, "changes-to-visclaw"], [125, "changes-to-visclaw"]], "Changes to riemann": [[18, "changes-to-riemann"], [113, "changes-to-riemann"], [114, "changes-to-riemann"], [115, "changes-to-riemann"], [116, "changes-to-riemann"], [117, "changes-to-riemann"], [118, "changes-to-riemann"], [119, "changes-to-riemann"], [120, "changes-to-riemann"], [121, "changes-to-riemann"], [122, "changes-to-riemann"], [123, "changes-to-riemann"], [124, "changes-to-riemann"], [125, "changes-to-riemann"]], "Changes to amrclaw": [[18, "changes-to-amrclaw"], [113, "changes-to-amrclaw"], [114, "changes-to-amrclaw"], [115, "changes-to-amrclaw"], [116, "changes-to-amrclaw"], [117, "changes-to-amrclaw"], [118, "changes-to-amrclaw"], [119, "changes-to-amrclaw"], [120, "changes-to-amrclaw"], [121, "changes-to-amrclaw"], [122, "changes-to-amrclaw"], [123, "changes-to-amrclaw"], [124, "changes-to-amrclaw"], [125, "changes-to-amrclaw"]], "Changes to geoclaw": [[18, "changes-to-geoclaw"], [113, "changes-to-geoclaw"], [114, "changes-to-geoclaw"], [115, "changes-to-geoclaw"], [116, "changes-to-geoclaw"], [117, "changes-to-geoclaw"], [118, "changes-to-geoclaw"], [119, "changes-to-geoclaw"], [120, "changes-to-geoclaw"], [121, "changes-to-geoclaw"], [122, "changes-to-geoclaw"], [123, "changes-to-geoclaw"], [124, "changes-to-geoclaw"], [125, "changes-to-geoclaw"]], "Changes to PyClaw": [[18, "changes-to-pyclaw"], [112, "changes-to-pyclaw"], [113, "changes-to-pyclaw"], [114, "changes-to-pyclaw"], [115, "changes-to-pyclaw"], [116, "changes-to-pyclaw"], [117, "changes-to-pyclaw"], [118, "changes-to-pyclaw"], [119, "changes-to-pyclaw"], [120, "changes-to-pyclaw"], [121, "changes-to-pyclaw"], [122, "changes-to-pyclaw"], [123, "changes-to-pyclaw"], [124, "changes-to-pyclaw"], [125, "changes-to-pyclaw"]], "Other Clawpack Repositories": [[18, "other-clawpack-repositories"], [120, "other-clawpack-repositories"], [121, "other-clawpack-repositories"], [122, "other-clawpack-repositories"], [123, "other-clawpack-repositories"], [124, "other-clawpack-repositories"], [125, "other-clawpack-repositories"]], "Converting from Clawpack 4.3 to 4.6": [[19, "converting-from-clawpack-4-3-to-4-6"]], "Converting from Clawpack 4.6 to 5.0": [[20, "converting-from-clawpack-4-6-to-5-0"]], "Python conversion tool": [[20, "python-conversion-tool"]], "Clawpack 4.x links": [[21, "clawpack-4-x-links"]], "Changes in Clawpack 5.0": [[22, "changes-in-clawpack-5-0"]], "PyClaw in 5.0": [[22, "pyclaw-in-5-0"]], "Fortran package changes": [[22, "fortran-package-changes"]], "Changes to input parameters in setrun.py from 4.x to 5.0": [[22, "changes-to-input-parameters-in-setrun-py-from-4-x-to-5-0"]], "Changes to general parameters": [[22, "changes-to-general-parameters"]], "Changes to AMR parameters": [[22, "changes-to-amr-parameters"]], "Changes to GeoClaw parameters": [[22, "changes-to-geoclaw-parameters"]], "Changes to plotting routines": [[22, "changes-to-plotting-routines"]], "Clawpack components": [[23, "clawpack-components"]], "Other repositories": [[23, "other-repositories"]], "Clawpack Community": [[24, "clawpack-community"]], "User Workshops, Clinics, and Tutorials": [[24, "user-workshops-clinics-and-tutorials"]], "Available for streaming": [[24, "available-for-streaming"]], "Upcoming": [[24, "upcoming"], [24, "id1"]], "Recent": [[24, "recent"]], "Developer Workshops and Sprint Sessions": [[24, "developer-workshops-and-sprint-sessions"]], "Previous": [[24, "previous"]], "Other Clawpack events": [[24, "other-clawpack-events"]], "Contents": [[25, "id1"], [28, "contents"], [39, "contents"], [66, "contents"], [77, "contents"], [83, "contents"], [93, "contents"], [99, "contents"], [105, "contents"], [111, "contents"], [130, "contents"]], "Full Table of Contents": [[25, "full-table-of-contents"]], "Overview and Getting Started": [[25, "overview-and-getting-started"]], "Examples and Applications": [[25, "examples-and-applications"]], "Classic, AMRClaw, and GeoClaw": [[25, "classic-amrclaw-and-geoclaw"]], "Using the Fortran codes": [[25, "using-the-fortran-codes"]], "AMRClaw: adaptive mesh refinement": [[25, "amrclaw-adaptive-mesh-refinement"]], "GeoClaw: geophysical flows": [[25, "geoclaw-geophysical-flows"]], "PyClaw": [[25, "pyclaw"], [35, "pyclaw"], [111, "pyclaw"], [147, "pyclaw"]], "Riemann": [[25, "riemann"]], "VisClaw: Plotting and Visualization Tools": [[25, "visclaw-plotting-and-visualization-tools"]], "Migrating applications from older versions of Clawpack": [[25, "migrating-applications-from-older-versions-of-clawpack"]], "Developers\u2019 resources": [[25, "developers-resources"]], "References": [[25, "references"], [52, "references"]], "Contributing examples and applications": [[26, "contributing-examples-and-applications"]], "current_data": [[27, "current-data"]], "Attributes of current_data:": [[27, "attributes-of-current-data"]], "Developers\u2019 Guide": [[28, "developers-guide"]], "Guidelines for contributing": [[28, "guidelines-for-contributing"]], "Reporting and fixing bugs": [[28, "reporting-and-fixing-bugs"]], "Developer communication": [[28, "developer-communication"]], "Installation instructions for developers": [[28, "installation-instructions-for-developers"]], "Cloning the most recent code from Github": [[28, "cloning-the-most-recent-code-from-github"]], "Checking out the master branch on each repository": [[28, "checking-out-the-master-branch-on-each-repository"]], "Updating to the latest master branch": [[28, "updating-to-the-latest-master-branch"]], "Never commit to master": [[28, "never-commit-to-master"]], "Adding your fork as a remote": [[28, "adding-your-fork-as-a-remote"]], "Modifying code": [[28, "modifying-code"]], "Issuing a pull request": [[28, "issuing-a-pull-request"]], "Testing a pull request": [[28, "testing-a-pull-request"]], "Top-level pull requests": [[28, "top-level-pull-requests"]], "Git workflow": [[28, "git-workflow"]], "Catching errors with Pyflakes and Pylint": [[28, "catching-errors-with-pyflakes-and-pylint"]], "Checking test coverage": [[28, "checking-test-coverage"]], "Trouble-Shooting Tips": [[28, "trouble-shooting-tips"]], "Docker for Clawpack": [[29, "docker-for-clawpack"]], "A better image for GeoClaw users": [[29, "a-better-image-for-geoclaw-users"]], "Stopping a container": [[29, "stopping-a-container"]], "Restarting a container": [[29, "restarting-a-container"]], "Running Jupyter notebooks": [[29, "running-jupyter-notebooks"]], "Moving files between the docker container and the host machine": [[29, "moving-files-between-the-docker-container-and-the-host-machine"]], "Some other useful docker commands": [[29, "some-other-useful-docker-commands"]], "Creating your own docker image": [[29, "creating-your-own-docker-image"]], "Dockerfiles for binder": [[29, "dockerfiles-for-binder"]], "dtopotools module for moving topography": [[30, "dtopotools-module-for-moving-topography"]], "Documentation auto-generated from the module docstrings": [[30, "module-clawpack.geoclaw.dtopotools"], [33, "module-clawpack.geoclaw.fgmax_tools"], [47, "module-clawpack.geoclaw.util"], [59, "module-clawpack.geoclaw.kmltools"], [151, "module-clawpack.geoclaw.topotools"]], "Fortran 77 vs. Fortran 90 files": [[31, "fortran-77-vs-fortran-90-files"]], "Fixed grid monitoring": [[32, "fixed-grid-monitoring"]], "Input file specification": [[32, "input-file-specification"]], "Different point styles": [[32, "different-point-styles"]], "Other attributes": [[32, "other-attributes"]], "Values to monitor": [[32, "values-to-monitor"]], "Choice of interpolation procedure": [[32, "choice-of-interpolation-procedure"]], "A simple example": [[32, "a-simple-example"]], "Processing and plotting fgmax output": [[32, "processing-and-plotting-fgmax-output"]], "Format of the output files": [[32, "format-of-the-output-files"]], "fgmax_tools module for working with topography data": [[33, "fgmax-tools-module-for-working-with-topography-data"]], "Fixed grid output": [[34, "fixed-grid-output"]], "Running an example": [[35, "running-an-example"], [36, "running-an-example"], [37, "running-an-example"]], "Classic": [[35, "classic"], [36, "classic"], [147, "classic"]], "Testing your Fortran installation and running an example": [[36, "testing-your-fortran-installation-and-running-an-example"]], "More examples": [[36, "more-examples"]], "Testing a PyClaw installation and running an example": [[37, "testing-a-pyclaw-installation-and-running-an-example"]], "From the Jupyter notebook": [[37, "from-the-jupyter-notebook"]], "From the IPython interpreter": [[37, "from-the-ipython-interpreter"]], "From the command line": [[37, "from-the-command-line"], [88, "from-the-command-line"]], "Specifying flagregions for adaptive refinement": [[38, "specifying-flagregions-for-adaptive-refinement"]], "Using ruled rectangles as flagregions": [[38, "using-ruled-rectangles-as-flagregions"]], "Force Cells to be Dry Initially": [[39, "force-cells-to-be-dry-initially"]], "Examples": [[39, "examples"], [44, "examples"], [66, "examples"], [91, "examples"], [130, "examples"]], "Sample topography from a 1/3 arcsecond DEM": [[39, "sample-topography-from-a-1-3-arcsecond-dem"], [66, "sample-topography-from-a-1-3-arcsecond-dem"]], "Creating the force_dry_init array": [[39, "creating-the-force-dry-init-array"]], "Create file to read into GeoClaw": [[39, "create-file-to-read-into-geoclaw"]], "Usage in GeoClaw Fortran code": [[39, "usage-in-geoclaw-fortran-code"]], "Internal GeoClaw modifications": [[39, "internal-geoclaw-modifications"]], "Fortran version": [[40, "fortran-version"]], "Makefiles": [[40, "makefiles"]], "More tips": [[40, "more-tips"]], "Fortran Compilers": [[41, "fortran-compilers"]], "FC environment variable": [[41, "fc-environment-variable"]], "FFLAGS environment variable": [[41, "fflags-environment-variable"]], "LFLAGS environment variable": [[41, "lflags-environment-variable"]], "Pre-Processor and the PPFLAGS environment variable": [[41, "pre-processor-and-the-ppflags-environment-variable"]], "gfortran compiler": [[41, "gfortran-compiler"]], "Intel fortran compiler": [[41, "intel-fortran-compiler"]], "Examples from the book FVMHP": [[42, "examples-from-the-book-fvmhp"]], "Available examples": [[42, "available-examples"]], "Gauges": [[44, "gauges"]], "Gauge parameters in setrun": [[44, "gauge-parameters-in-setrun"]], "Plotting tools": [[44, "plotting-tools"]], "Plotting gauge locations": [[44, "plotting-gauge-locations"]], "GeoClaw Description and Detailed Contents": [[45, "geoclaw-description-and-detailed-contents"]], "Getting started with GeoClaw": [[46, "getting-started-with-geoclaw"]], "Running a GeoClaw code": [[46, "running-a-geoclaw-code"]], "Topography": [[46, "topography"]], "Plotting GeoClaw results": [[46, "plotting-geoclaw-results"]], "Setting up a new example": [[46, "setting-up-a-new-example"]], "geoclaw.util module of utility functions": [[47, "geoclaw-util-module-of-utility-functions"]], "Cautionary Hints on using GeoClaw": [[48, "cautionary-hints-on-using-geoclaw"]], "Tsunami hazard modeling": [[48, "tsunami-hazard-modeling"]], "GeoClaw plotting tools": [[49, "geoclaw-plotting-tools"]], "Plotting water depth or surface elevation": [[49, "plotting-water-depth-or-surface-elevation"]], "Tips on latitude-longitude coordinate axes": [[49, "tips-on-latitude-longitude-coordinate-axes"]], "Keeping track of repository versions with Git": [[50, "keeping-track-of-repository-versions-with-git"]], "Visualizing GeoClaw results in Google Earth": [[51, "visualizing-geoclaw-results-in-google-earth"]], "Basic requirements": [[51, "basic-requirements"]], "Optional GDAL library": [[51, "optional-gdal-library"]], "An example : The Chile 2010 tsunami event": [[51, "an-example-the-chile-2010-tsunami-event"]], "Plotting attributes needed for Google Earth": [[51, "plotting-attributes-needed-for-google-earth"]], "plotdata attributes": [[51, "plotdata-attributes"]], "plotfigure attributes": [[51, "plotfigure-attributes"]], "Creating the figures": [[51, "creating-the-figures"]], "plotaxes attributes": [[51, "plotaxes-attributes"]], "plotitem attributes": [[51, "plotitem-attributes"]], "Adding a colorbar overlay": [[51, "adding-a-colorbar-overlay"]], "Gauge plots": [[51, "gauge-plots"]], "Additional plotdata attributes": [[51, "additional-plotdata-attributes"]], "Plotting tips": [[51, "plotting-tips"]], "KML and KMZ files": [[51, "kml-and-kmz-files"]], "Tiling images for faster loading": [[51, "tiling-images-for-faster-loading"]], "Removing aliasing artifacts": [[51, "removing-aliasing-artifacts"]], "Creating multiple figures at different resolutions": [[51, "creating-multiple-figures-at-different-resolutions"]], "Mapping topography data to latitude/longitude coordinates": [[51, "mapping-topography-data-to-latitude-longitude-coordinates"]], "Publishing your results": [[51, "id1"]], "Using the GPU version of Clawpack": [[52, "using-the-gpu-version-of-clawpack"]], "Grid registration": [[53, "grid-registration"]], "NetCDF files": [[53, "netcdf-files"]], "Guide for updating this documentation": [[54, "guide-for-updating-this-documentation"]], "Git branches and tags": [[54, "git-branches-and-tags"]], "Configuration and style files": [[54, "configuration-and-style-files"]], "Updating the docs for a new release": [[54, "updating-the-docs-for-a-new-release"]], "To generate docs including previous versions": [[54, "to-generate-docs-including-previous-versions"]], "Updating the gallery": [[54, "updating-the-gallery"]], "Updating the webpages": [[54, "updating-the-webpages"]], "Extra files for webpages not built by Sphinx": [[54, "extra-files-for-webpages-not-built-by-sphinx"]], "Pages from other clawpack repositories": [[54, "pages-from-other-clawpack-repositories"]], "Guide for doing a Clawpack release": [[55, "guide-for-doing-a-clawpack-release"]], "Preparation": [[55, "preparation"]], "Version numbers": [[55, "version-numbers"]], "Release candidates": [[55, "release-candidates"]], "Create a tar file and a Github release": [[55, "create-a-tar-file-and-a-github-release"]], "Final release": [[55, "final-release"]], "Pypi": [[55, "pypi"]], "Zenodo": [[55, "zenodo"]], "Updating the documentation": [[55, "updating-the-documentation"]], "Updating the apps repository": [[55, "updating-the-apps-repository"]], "Updating the Dockerfile": [[55, "updating-the-dockerfile"]], "Installing Clawpack": [[56, "installing-clawpack"]], "pip install": [[56, "pip-install"]], "Other Installation Options": [[56, "other-installation-options"]], "Next steps:": [[56, "next-steps"], [57, "next-steps"], [58, "next-steps"]], "Additional options for installing Clawpack": [[57, "additional-options-for-installing-clawpack"]], "tar file": [[57, "tar-file"]], "git clone": [[57, "git-clone"]], "Using conda (does not require a Fortran compiler)": [[57, "using-conda-does-not-require-a-fortran-compiler"]], "Docker": [[57, "docker"]], "Launching an AWS instance with Clawpack installed": [[57, "launching-an-aws-instance-with-clawpack-installed"]], "Installing PyClaw for parallel processing with PETSc": [[57, "installing-pyclaw-for-parallel-processing-with-petsc"]], "pip install instructions": [[58, "pip-install-instructions"]], "Quick Installation of all packages": [[58, "quick-installation-of-all-packages"]], "Quick Installation of only PyClaw": [[58, "quick-installation-of-only-pyclaw"]], "Using pip to install a different version": [[58, "using-pip-to-install-a-different-version"]], "Experimenting with code in the examples directories": [[58, "experimenting-with-code-in-the-examples-directories"]], "Troubleshooting pip install": [[58, "troubleshooting-pip-install"]], "kmltools module of utility functions": [[59, "kmltools-module-of-utility-functions"]], "Lagrangian gauges for particle tracking": [[60, "lagrangian-gauges-for-particle-tracking"]], "Specifying Lagrangian Gauges": [[60, "specifying-lagrangian-gauges"]], "Visclaw tools for plotting": [[60, "visclaw-tools-for-plotting"]], "Clawpack Makefiles": [[62, "clawpack-makefiles"]], "Applications directory Makefiles": [[62, "applications-directory-makefiles"]], "output": [[62, "output"]], "plots": [[62, "plots"]], "Variables": [[62, "variables"]], "Compiler flags": [[62, "compiler-flags"]], "Duplicate Base Source Name": [[62, "duplicate-base-source-name"]], "Library routines in Makefiles": [[63, "library-routines-in-makefiles"]], "Replacing files with the same name as library files": [[63, "replacing-files-with-the-same-name-as-library-files"]], "Using a modified library routine with a different name": [[63, "using-a-modified-library-routine-with-a-different-name"]], "Manning friction term": [[64, "manning-friction-term"]], "The mapc2p function": [[65, "the-mapc2p-function"]], "Marching Front algorithm": [[66, "marching-front-algorithm"]], "Function arguments": [[66, "function-arguments"]], "output array": [[66, "output-array"]], "creating a masked array": [[66, "creating-a-masked-array"]], "topofile mask for initializing dry points": [[66, "topofile-mask-for-initializing-dry-points"]], "fgmax points": [[66, "fgmax-points"]], "flag regions": [[66, "flag-regions"]], "The mask argument": [[66, "the-mask-argument"]], "The previous_pts_chosen argument": [[66, "the-previous-pts-chosen-argument"]], "Finding all points below a given elevation": [[66, "finding-all-points-below-a-given-elevation"]], "Create a buffer zone along shore": [[66, "create-a-buffer-zone-along-shore"]], "Choose points only near shore": [[66, "choose-points-only-near-shore"]], "Write out the masked array indicating fgmax points": [[66, "write-out-the-masked-array-indicating-fgmax-points"]], "Creating an AMR flag region": [[66, "creating-an-amr-flag-region"]], "Determining dry areas below MHW": [[66, "determining-dry-areas-below-mhw"]], "Plotting using Matlab": [[67, "plotting-using-matlab"]], "The Matlab search path": [[67, "the-matlab-search-path"]], "Creating output files": [[67, "creating-output-files"]], "The plotclaw command": [[67, "the-plotclaw-command"]], "The setplot file": [[67, "the-setplot-file"]], "The afterframe file": [[67, "the-afterframe-file"]], "Getting help": [[67, "getting-help"]], "Trouble shooting": [[67, "trouble-shooting"]], "Output files not found": [[67, "output-files-not-found"]], "MaxFrames not set": [[67, "maxframes-not-set"]], "Switching examples": [[67, "switching-examples"]], "Matlab Gallery": [[67, "matlab-gallery"]], "Using NetCDF output": [[68, "using-netcdf-output"]], "To install netcdf": [[68, "to-install-netcdf"]], "To compile with netcdf": [[68, "to-compile-with-netcdf"]], "To plot the results": [[68, "to-plot-the-results"]], "Creating a new application directory": [[69, "creating-a-new-application-directory"]], "Copying an existing example": [[69, "copying-an-existing-example"]], "Earthquake sources: Fault slip and the Okada model": [[70, "earthquake-sources-fault-slip-and-the-okada-model"]], "Fault slip on rectangular subfaults": [[70, "fault-slip-on-rectangular-subfaults"]], "Okada model": [[70, "okada-model"]], "Kinematic rupture": [[70, "kinematic-rupture"]], "Fault slip on triangular subfaults": [[70, "fault-slip-on-triangular-subfaults"]], "Using OpenMP": [[71, "using-openmp"]], "Using OpenMP with AMR": [[71, "using-openmp-with-amr"]], "Fixed grid output in GeoClaw": [[71, "fixed-grid-output-in-geoclaw"]], "Output data formats": [[72, "output-data-formats"]], "ASCII output data format": [[72, "ascii-output-data-format"]], "fort.t0002": [[72, "fort-t0002"]], "fort.q0002": [[72, "fort-q0002"]], "Raw binary output data format": [[72, "raw-binary-output-data-format"]], "NetCDF output data format": [[72, "netcdf-output-data-format"]], "Output of aux arrays": [[72, "output-of-aux-arrays"]], "Which Clawpack solver should I use?": [[73, "which-clawpack-solver-should-i-use"]], "Installation and user interface": [[73, "installation-and-user-interface"]], "Algorithmic differences": [[73, "algorithmic-differences"]], "Parallel computing": [[73, "parallel-computing"]], "Clawpack Community Photos": [[74, "clawpack-community-photos"]], "2016 Developers\u2019 workshop at University of Washington": [[74, "id1"]], "2015 Developers\u2019 workshop at University of Utah": [[74, "id2"]], "2014 HPC3 workshop at KAUST": [[74, "id3"]], "2013 Claw-Dev workshop at UW": [[74, "id4"]], "2012 HPC3 workshop at KAUST": [[74, "id6"]], "2011 coding sprints at UW": [[74, "coding-sprints-at-uw"]], "2010 GeoClaw hacking UW": [[74, "geoclaw-hacking-uw"]], "Plotting examples": [[75, "plotting-examples"]], "Plotting with Visclaw": [[76, "plotting-with-visclaw"]], "Plotting as post-processing": [[76, "plotting-as-post-processing"]], "Plotting on the fly": [[76, "plotting-on-the-fly"]], "Plotting hints and FAQ": [[77, "plotting-hints-and-faq"]], "What\u2019s the difference between make .plots and make plots ?": [[77, "what-s-the-difference-between-make-plots-and-make-plots"]], "How to plot a something other than a component of q?": [[77, "how-to-plot-a-something-other-than-a-component-of-q"]], "How to add another curve to a plot, e.g. the true solution?": [[77, "how-to-add-another-curve-to-a-plot-e-g-the-true-solution"]], "How to change the title in a plot?": [[77, "how-to-change-the-title-in-a-plot"]], "How to specify outdir, the directory to find fort.* files for plotting?": [[77, "how-to-specify-outdir-the-directory-to-find-fort-files-for-plotting"]], "How to specify a different outdir for some plot item?": [[77, "how-to-specify-a-different-outdir-for-some-plot-item"]], "How to set plot parameters that are not provided as attributes of ClawPlotItem?": [[77, "how-to-set-plot-parameters-that-are-not-provided-as-attributes-of-clawplotitem"]], "How to change the size or background color of a figure?": [[77, "how-to-change-the-size-or-background-color-of-a-figure"]], "Specifying colormaps for pcolor or contourf plots": [[77, "specifying-colormaps-for-pcolor-or-contourf-plots"]], "How to debug setplot.py?": [[77, "how-to-debug-setplot-py"]], "Plotting routines for GeoClaw": [[78, "plotting-routines-for-geoclaw"]], "Plotting options in Python": [[79, "plotting-options-in-python"]], "Producing html plots from the command line": [[79, "producing-html-plots-from-the-command-line"]], "Producing a latex file with plots from the command line": [[79, "producing-a-latex-file-with-plots-from-the-command-line"]], "Setting plot parameters with a setplot function": [[79, "setting-plot-parameters-with-a-setplot-function"]], "Interactive plotting with Iplotclaw": [[79, "interactive-plotting-with-iplotclaw"]], "Access to current_data": [[79, "access-to-current-data"]], "printframes": [[79, "printframes"]], "Specifying what and how to plot": [[79, "specifying-what-and-how-to-plot"]], "Installation Prerequisites": [[80, "installation-prerequisites"]], "Operating system": [[80, "operating-system"]], "Fortran": [[80, "fortran"]], "Python": [[80, "python"]], "pip": [[80, "pip"]], "Git": [[80, "git"]], "About PyClaw": [[81, "about-pyclaw"]], "Contributors": [[81, "contributors"]], "PyClaw Basics": [[82, "pyclaw-basics"]], "Understanding Pyclaw Classes": [[83, "understanding-pyclaw-classes"]], "Flow of a Pyclaw Simulation": [[83, "flow-of-a-pyclaw-simulation"]], "Creation of a Pyclaw Solution": [[83, "creation-of-a-pyclaw-solution"]], "Creation of a Pyclaw Solver": [[83, "creation-of-a-pyclaw-solver"]], "Creating and Running a Simulation with Controller": [[83, "creating-and-running-a-simulation-with-controller"]], "Restarting a simulation": [[83, "restarting-a-simulation"]], "Outputting aux values": [[83, "outputting-aux-values"]], "Outputting derived quantities": [[83, "outputting-derived-quantities"], [93, "outputting-derived-quantities"]], "Porting a problem from Clawpack 4.6.x to PyClaw": [[84, "porting-a-problem-from-clawpack-4-6-x-to-pyclaw"]], "Running PyClaw in the cloud": [[85, "running-pyclaw-in-the-cloud"]], "Sage Math Cloud": [[85, "sage-math-cloud"]], "Pyclaw Controller Class": [[86, "pyclaw-controller-class"]], "pyclaw.controller.Controller": [[86, "pyclaw-controller-controller"]], "Pyclaw Limiters": [[87, "pyclaw-limiters"]], "clawpack.pyclaw.limiters.tvd": [[87, "module-clawpack.pyclaw.limiters.tvd"]], "CFL Independent Limiters": [[87, "cfl-independent-limiters"]], "CFL Dependent Limiters": [[87, "cfl-dependent-limiters"]], "Working with PyClaw\u2019s built-in examples": [[88, "working-with-pyclaw-s-built-in-examples"]], "Running and plotting examples": [[88, "running-and-plotting-examples"]], "Interactively in IPython": [[88, "interactively-in-ipython"]], "Built-in examples": [[88, "built-in-examples"]], "Adding new examples": [[88, "adding-new-examples"]], "PyClaw Geometry": [[89, "pyclaw-geometry"]], "Serial Geometry Objects": [[89, "serial-geometry-objects"]], "pyclaw.geometry.Domain": [[89, "pyclaw-geometry-domain"]], "pyclaw.geometry.Patch": [[89, "pyclaw-geometry-patch"]], "pyclaw.geometry.Grid": [[89, "pyclaw-geometry-grid"]], "pyclaw.geometry.Dimension": [[89, "pyclaw-geometry-dimension"]], "Parallel Geometry Objects": [[89, "parallel-geometry-objects"]], "petclaw.geometry.Domain": [[89, "petclaw-geometry-domain"]], "petclaw.geometry.Patch": [[89, "petclaw-geometry-patch"]], "Going Further": [[90, "going-further"]], "Pyclaw": [[91, "pyclaw"]], "PyClaw installation": [[91, "pyclaw-installation"]], "Features": [[91, "features"]], "PyClaw Documentation": [[91, "pyclaw-documentation"]], "PyClaw Modules reference documentation": [[91, "pyclaw-modules-reference-documentation"]], "Riemann Solvers reference documentation": [[91, "riemann-solvers-reference-documentation"]], "Indices and tables": [[91, "indices-and-tables"]], "Citing PyClaw": [[91, "citing-pyclaw"]], "Pyclaw Input/Output Package": [[92, "pyclaw-input-output-package"]], "pyclaw.fileio.ascii": [[92, "module-clawpack.pyclaw.fileio.ascii"]], "pyclaw.fileio.hdf5": [[92, "pyclaw-fileio-hdf5"]], "pyclaw.fileio.netcdf": [[92, "module-clawpack.pyclaw.fileio.netcdf"]], "PyClaw output": [[93, "pyclaw-output"]], "Output frames": [[93, "output-frames"]], "When output is saved/written": [[93, "when-output-is-saved-written"]], "Where and how output is written": [[93, "where-and-how-output-is-written"]], "What output is written": [[93, "what-output-is-written"]], "Outputting functionals": [[93, "outputting-functionals"]], "Using gauges": [[93, "using-gauges"]], "Logging": [[93, "logging"]], "Running in parallel": [[94, "running-in-parallel"]], "Installing PETSc": [[94, "installing-petsc"]], "Testing your installation": [[94, "testing-your-installation"], [147, "testing-your-installation"]], "Running and plotting an example": [[94, "running-and-plotting-an-example"]], "Tips for making your application run correctly in parallel": [[94, "tips-for-making-your-application-run-correctly-in-parallel"]], "Passing options to PETSc": [[94, "passing-options-to-petsc"]], "Plotting PyClaw results": [[95, "plotting-pyclaw-results"]], "Basics": [[95, "basics"]], "Plotting result from parallel runs": [[95, "plotting-result-from-parallel-runs"]], "Setting up your own problem": [[96, "setting-up-your-own-problem"]], "Writing the initialization script": [[96, "writing-the-initialization-script"]], "Setting initial conditions": [[96, "setting-initial-conditions"]], "Setting auxiliary variables": [[96, "setting-auxiliary-variables"]], "Setting boundary conditions": [[96, "setting-boundary-conditions"]], "Setting solver options": [[96, "setting-solver-options"]], "Using your own Riemann solver": [[96, "using-your-own-riemann-solver"]], "Adding source terms": [[96, "adding-source-terms"]], "Setting up the Makefile": [[96, "setting-up-the-makefile"]], "Riemann Solver Package": [[97, "riemann-solver-package"]], "Acoustics": [[97, "acoustics"]], "Advection": [[97, "advection"]], "Burgers Equation": [[97, "burgers-equation"]], "Euler Equations": [[97, "euler-equations"]], "Shallow Water Equations": [[97, "shallow-water-equations"]], "PyClaw Solutions": [[98, "pyclaw-solutions"]], "pyclaw.solution.Solution": [[98, "pyclaw-solution-solution"]], "Using PyClaw\u2019s solvers: Classic and SharpClaw": [[99, "using-pyclaw-s-solvers-classic-and-sharpclaw"]], "SharpClaw Solvers": [[99, "sharpclaw-solvers"]], "pyclaw.sharpclaw": [[99, "pyclaw-sharpclaw"]], "Pyclaw Classic Clawpack Solvers": [[99, "pyclaw-classic-clawpack-solvers"]], "pyclaw.classic.solver": [[99, "pyclaw-classic-solver"]], "Change to Custom BC Function Signatures": [[99, "change-to-custom-bc-function-signatures"]], "Installing PyClaw": [[100, "installing-pyclaw"]], "Dependencies: Python, gfortran, numpy, and matplotlib": [[100, "dependencies-python-gfortran-numpy-and-matplotlib"]], "Obtaining Python, numpy, and matplotlib": [[100, "obtaining-python-numpy-and-matplotlib"]], "Clawpack": [[100, "clawpack"]], "Testing your installation with nose": [[100, "testing-your-installation-with-nose"]], "Next steps": [[100, "next-steps"]], "PyClaw State": [[101, "pyclaw-state"]], "Serial pyclaw.state.State": [[101, "serial-pyclaw-state-state"]], "Parallel petclaw.state.State": [[101, "parallel-petclaw-state-state"]], "Troubleshooting": [[102, "troubleshooting"], [152, "troubleshooting"]], "Compilation errors": [[102, "compilation-errors"]], "Use Fortran-ordered arrays": [[102, "use-fortran-ordered-arrays"]], "Installation": [[102, "installation"]], "PyClaw tutorial: Solve the acoustics equations": [[103, "pyclaw-tutorial-solve-the-acoustics-equations"]], "The Solver": [[103, "the-solver"]], "The domain": [[103, "the-domain"]], "Initial condition": [[103, "initial-condition"]], "Problem-specific parameters": [[103, "problem-specific-parameters"]], "The controller": [[103, "the-controller"]], "Pyclaw Utility Module": [[104, "pyclaw-utility-module"]], "pyclaw.util": [[104, "module-clawpack.pyclaw.util"]], "Python Hints": [[105, "python-hints"]], "Dropping support for Python 2.7": [[105, "dropping-support-for-python-2-7"]], "What is Python?": [[105, "what-is-python"]], "Installation of required modules": [[105, "installation-of-required-modules"]], "References and tutorials": [[105, "references-and-tutorials"]], "Notebooks": [[105, "notebooks"]], "Python path": [[106, "python-path"]], "whichclaw.py": [[106, "whichclaw-py"]], "Which version was imported?": [[106, "which-version-was-imported"]], "sys.path": [[106, "sys-path"]], "easy-install.pth": [[106, "easy-install-pth"]], "PYTHONPATH": [[106, "pythonpath"], [134, "pythonpath"]], "qinit default routines": [[107, "qinit-default-routines"]], "qinit routine in GeoClaw": [[107, "qinit-routine-in-geoclaw"]], "Quick start guide for storm surge modeling": [[108, "quick-start-guide-for-storm-surge-modeling"]], "Quick start guide for tsunami modeling": [[109, "quick-start-guide-for-tsunami-modeling"]], "AMR refinement criteria": [[110, "amr-refinement-criteria"]], "Flagging criteria": [[110, "flagging-criteria"]], "flag2refine": [[110, "flag2refine"]], "Richardson extrapolation": [[110, "richardson-extrapolation"]], "Specifying AMR regions": [[110, "specifying-amr-regions"]], "Implementation": [[110, "implementation"]], "Flagging criteria in GeoClaw": [[110, "flagging-criteria-in-geoclaw"]], "Regression testing": [[111, "regression-testing"]], "Running the tests": [[111, "running-the-tests"], [111, "id2"]], "Fortran codes": [[111, "fortran-codes"]], "Travis continuous integration": [[111, "travis-continuous-integration"]], "Diff tools for checking test output": [[111, "diff-tools-for-checking-test-output"]], "chardiff tool for line-by-line comparison of output files": [[111, "chardiff-tool-for-line-by-line-comparison-of-output-files"]], "imagediff tool for pixel comparison of plots": [[111, "imagediff-tool-for-pixel-comparison-of-plots"]], "Running and writing tests in PyClaw": [[111, "running-and-writing-tests-in-pyclaw"]], "Running serial tests simultaneously": [[111, "running-serial-tests-simultaneously"]], "Running a specific test": [[111, "running-a-specific-test"]], "Doctests": [[111, "doctests"]], "Writing New Tests": [[111, "writing-new-tests"]], "v5.0.0 release notes": [[112, "v5-0-0-release-notes"]], "Changes to classic, riemann, amrclaw, geoclaw, visclaw": [[112, "changes-to-classic-riemann-amrclaw-geoclaw-visclaw"]], "v5.1.0 release notes": [[113, "v5-1-0-release-notes"]], "v5.2.0 release notes": [[114, "v5-2-0-release-notes"]], "v5.2.1 release notes": [[115, "v5-2-1-release-notes"]], "v5.2.2 release notes": [[116, "v5-2-2-release-notes"]], "v5.3.0 release notes": [[117, "v5-3-0-release-notes"]], "v5.3.1 release notes": [[118, "v5-3-1-release-notes"]], "v5.4.0 release notes": [[119, "v5-4-0-release-notes"]], "Global changes": [[119, "global-changes"]], "v5.4.1 release notes": [[120, "v5-4-1-release-notes"]], "Changes to documentation": [[120, "changes-to-documentation"], [121, "changes-to-documentation"]], "v5.5.0 release notes": [[121, "v5-5-0-release-notes"]], "v5.6.0 release notes": [[122, "v5-6-0-release-notes"]], "v5.6.1 release notes": [[123, "v5-6-1-release-notes"]], "v5.7.0 release notes": [[124, "v5-7-0-release-notes"]], "Python support": [[124, "python-support"]], "v5.7.1 release notes": [[125, "v5-7-1-release-notes"]], "Releases of Clawpack and release notes": [[126, "releases-of-clawpack-and-release-notes"]], "Other notes:": [[126, "other-notes"]], "Releases:": [[126, "id1"]], "Clawpack 4.x": [[126, "clawpack-4-x"]], "Checkpointing and restarting": [[127, "checkpointing-and-restarting"]], "Checkpointing a computation": [[127, "checkpointing-a-computation"]], "Restarting a computation": [[127, "restarting-a-computation"]], "Modifying the Makefile for a restart": [[127, "modifying-the-makefile-for-a-restart"]], "Output files after a restart": [[127, "output-files-after-a-restart"]], "Riemann solvers": [[128, "riemann-solvers"]], "One-dimensional Riemann solver": [[128, "one-dimensional-riemann-solver"]], "Pointwise Riemann solvers": [[128, "pointwise-riemann-solvers"]], "f-wave Riemann solvers": [[128, "f-wave-riemann-solvers"]], "2D Riemann solvers": [[128, "d-riemann-solvers"]], "Using a custom solver": [[128, "using-a-custom-solver"]], "Adding a solver to the Riemann repository": [[128, "adding-a-solver-to-the-riemann-repository"]], "Shallow water Riemann solvers in Clawpack": [[129, "shallow-water-riemann-solvers-in-clawpack"]], "One dimension": [[129, "one-dimension"]], "Two dimensions": [[129, "two-dimensions"]], "Layered shallow water equations": [[129, "layered-shallow-water-equations"]], "Potentially useful contributions (what\u2019s missing)": [[129, "potentially-useful-contributions-whats-missing"]], "Demonstrations": [[129, "demonstrations"]], "Roe": [[129, "roe"]], "HLL": [[129, "hll"]], "Ruled Rectangles": [[130, "ruled-rectangles"]], "Relation to convex polygons": [[130, "relation-to-convex-polygons"]], "Other attributes and methods": [[130, "other-attributes-and-methods"]], "ds": [[130, "ds"]], "slu": [[130, "slu"]], "bounding_box": [[130, "bounding-box"]], "mask_outside": [[130, "mask-outside"]], "read and write, and instantiating from a file": [[130, "read-and-write-and-instantiating-from-a-file"]], "make_kml": [[130, "make-kml"]], "A GeoClaw AMR flag region": [[130, "a-geoclaw-amr-flag-region"]], "A simple rectangle": [[130, "a-simple-rectangle"]], "Defining a Ruled Rectangle covering selected cells": [[130, "defining-a-ruled-rectangle-covering-selected-cells"]], "Example covering the continental shelf": [[130, "example-covering-the-continental-shelf"]], "Setting sealevel": [[131, "setting-sealevel"]], "Set Eta Init \u2013 spatially varying initial surface elevation": [[132, "set-eta-init-spatially-varying-initial-surface-elevation"]], "Default behavior, adjusting sea level by seismic deformation": [[132, "default-behavior-adjusting-sea-level-by-seismic-deformation"]], "Other use cases": [[132, "other-use-cases"]], "setaux default routines": [[133, "setaux-default-routines"]], "setaux routine in GeoClaw": [[133, "setaux-routine-in-geoclaw"]], "Set environment variables": [[134, "set-environment-variables"]], "CLAW": [[134, "claw"]], "FC": [[134, "fc"]], "Using setplot.py to specify the desired plots": [[135, "using-setplot-py-to-specify-the-desired-plots"]], "Plotting Data Objects": [[135, "plotting-data-objects"]], "Overview": [[135, "overview"]], "Specifying classic run-time parameters in setrun.py": [[136, "specifying-classic-run-time-parameters-in-setrun-py"]], "Input": [[136, "input"], [137, "input"]], "Output": [[136, "output"], [137, "output"]], "Run-time parameters": [[136, "run-time-parameters"], [137, "run-time-parameters"]], "Specifying AMRClaw run-time parameters in setrun.py": [[137, "specifying-amrclaw-run-time-parameters-in-setrun-py"]], "Special AMR parameters": [[137, "special-amr-parameters"]], "Debugging flags for additional printing": [[137, "debugging-flags-for-additional-printing"]], "Sample setrun.py module for AMRClaw": [[138, "sample-setrun-py-module-for-amrclaw"]], "Specifying GeoClaw parameters in setrun.py": [[139, "specifying-geoclaw-parameters-in-setrun-py"]], "Additional AMR parameters": [[139, "additional-amr-parameters"]], "General geo parameters": [[139, "general-geo-parameters"]], "Topography data file parameters": [[139, "topography-data-file-parameters"]], "qinit data file parameters": [[139, "qinit-data-file-parameters"]], "AMR refinement region parameters": [[139, "amr-refinement-region-parameters"]], "Fixed grid output parameters": [[139, "fixed-grid-output-parameters"]], "Fixed grid maximum monitoring / arrival times": [[139, "fixed-grid-maximum-monitoring-arrival-times"]], "Storm Specification Data": [[139, "storm-specification-data"]], "Sample setrun.py module for classic Clawpack": [[140, "sample-setrun-py-module-for-classic-clawpack"]], "Saving and sharing results": [[141, "saving-and-sharing-results"]], "Making webpages of plots": [[141, "making-webpages-of-plots"]], "Sharing your results": [[141, "sharing-your-results"]], "IPython notebooks": [[141, "ipython-notebooks"]], "Compiling the Sphinx documentation locally": [[142, "compiling-the-sphinx-documentation-locally"]], "src1d default routines": [[143, "src1d-default-routines"]], "src1d routine in GeoClaw": [[143, "src1d-routine-in-geoclaw"]], "src default routines": [[144, "src-default-routines"]], "src routine in GeoClaw": [[144, "src-routine-in-geoclaw"]], "Storm Specification Class and Tools": [[145, "storm-specification-class-and-tools"]], "Sources for Storm Surge Data": [[146, "sources-for-storm-surge-data"]], "Timing Statistics": [[148, "timing-statistics"]], "Topography data": [[149, "topography-data"]], "Downloading topography files": [[149, "downloading-topography-files"]], "NetCDF format": [[149, "netcdf-format"]], "Topography displacement files": [[149, "topography-displacement-files"]], "qinit data file": [[149, "qinit-data-file"]], "Python tools for working with topo and dtopo": [[150, "python-tools-for-working-with-topo-and-dtopo"]], "topotools module for working with topography data": [[151, "topotools-module-for-working-with-topography-data"]], "Troubleshooting Installation": [[152, "troubleshooting-installation"]], "Troubleshooting Fortran:": [[152, "troubleshooting-fortran"]], "Setting the Fortran compiler to be used by f2py (pip)": [[152, "setting-the-fortran-compiler-to-be-used-by-f2py-pip"]], "Trouble compiling Fortran code at the command line": [[152, "trouble-compiling-fortran-code-at-the-command-line"]], "Trouble running \u201cmake .exe\u201d": [[152, "trouble-running-make-exe"]], "Trouble running \u201cmake .data\u201d": [[152, "trouble-running-make-data"]], "Trouble running \u201cmake .output\u201d": [[152, "trouble-running-make-output"]], "Trouble running \u201cmake .plots\u201d": [[152, "trouble-running-make-plots"]], "Some sources of tsunami data": [[153, "some-sources-of-tsunami-data"]], "Topography / bathymetry": [[153, "topography-bathymetry"]], "Earthquake source models": [[153, "earthquake-source-models"]], "DART buoy data": [[153, "dart-buoy-data"]], "Tide gauges": [[153, "tide-gauges"]], "User files required for the Fortran code": [[154, "user-files-required-for-the-fortran-code"]], "Specifying the initial conditions": [[154, "specifying-the-initial-conditions"]], "Specifying the Riemann solver": [[154, "specifying-the-riemann-solver"]], "Specifying boundary conditions": [[154, "specifying-boundary-conditions"]], "Specifying problem-specific data": [[154, "specifying-problem-specific-data"]], "Specifying spatially-varying data using setaux": [[154, "specifying-spatially-varying-data-using-setaux"]], "Using b4step for work to be done before each time step": [[154, "using-b4step-for-work-to-be-done-before-each-time-step"]], "Using src for source terms": [[154, "using-src-for-source-terms"]], "Using src1d for source terms with AMRClaw": [[154, "using-src1d-for-source-terms-with-amrclaw"]], "Plotting with VisIt": [[155, "plotting-with-visit"]], "Clawpack Virtual Machine": [[156, "clawpack-virtual-machine"]], "Wave-propagation algorithms": [[157, "wave-propagation-algorithms"]], "One space dimension": [[157, "one-space-dimension"]], "Godunov\u2019s method": [[157, "godunov-s-method"]], "High-resolution methods": [[157, "high-resolution-methods"]], "f-wave formulation": [[157, "f-wave-formulation"]], "Capacity functions": [[157, "capacity-functions"]], "Source terms": [[157, "source-terms"]]}, "indexentries": {"clawplotaxes (built-in class)": [[0, "ClawPlotAxes"]], "gethandle()": [[0, "gethandle"], [2, "gethandle"], [3, "gethandle"]], "new_plotitem()": [[0, "new_plotitem"]], "clawplotdata (built-in class)": [[1, "ClawPlotData"]], "clearfigures()": [[1, "clearfigures"]], "clearframes()": [[1, "clearframes"]], "getaxes()": [[1, "getaxes"]], "getfigure()": [[1, "getfigure"]], "getframe()": [[1, "getframe"], [3, "getframe"]], "getitem()": [[1, "getitem"]], "iplotclaw()": [[1, "iplotclaw"]], "new_plotfigure()": [[1, "new_plotfigure"]], "plotframe()": [[1, "plotframe"]], "printframes()": [[1, "printframes"]], "showitems()": [[1, "showitems"]], "clawplotfigure (built-in class)": [[2, "ClawPlotFigure"]], "new_plotaxes()": [[2, "new_plotaxes"]], "clawplotitem (built-in class)": [[3, "ClawPlotItem"]], "csvfault (class in clawpack.geoclaw.dtopotools)": [[30, "clawpack.geoclaw.dtopotools.CSVFault"]], "dtopography (class in clawpack.geoclaw.dtopotools)": [[30, "clawpack.geoclaw.dtopotools.DTopography"]], "fault (class in clawpack.geoclaw.dtopotools)": [[30, "clawpack.geoclaw.dtopotools.Fault"]], "mo() (clawpack.geoclaw.dtopotools.fault method)": [[30, "clawpack.geoclaw.dtopotools.Fault.Mo"]], "mo() (clawpack.geoclaw.dtopotools.subfault method)": [[30, "clawpack.geoclaw.dtopotools.SubFault.Mo"]], "mw() (clawpack.geoclaw.dtopotools.fault method)": [[30, "clawpack.geoclaw.dtopotools.Fault.Mw"]], "mw() (in module clawpack.geoclaw.dtopotools)": [[30, "clawpack.geoclaw.dtopotools.Mw"]], "siftfault (class in clawpack.geoclaw.dtopotools)": [[30, "clawpack.geoclaw.dtopotools.SiftFault"]], "subfault (class in clawpack.geoclaw.dtopotools)": [[30, "clawpack.geoclaw.dtopotools.SubFault"]], "subdividedplanefault (class in clawpack.geoclaw.dtopotools)": [[30, "clawpack.geoclaw.dtopotools.SubdividedPlaneFault"]], "tensorproductfault (class in clawpack.geoclaw.dtopotools)": [[30, "clawpack.geoclaw.dtopotools.TensorProductFault"]], "ucsbfault (class in clawpack.geoclaw.dtopotools)": [[30, "clawpack.geoclaw.dtopotools.UCSBFault"]], "calculate_geometry() (clawpack.geoclaw.dtopotools.subfault method)": [[30, "clawpack.geoclaw.dtopotools.SubFault.calculate_geometry"]], "calculate_geometry_triangles() (clawpack.geoclaw.dtopotools.subfault method)": [[30, "clawpack.geoclaw.dtopotools.SubFault.calculate_geometry_triangles"]], "centers (clawpack.geoclaw.dtopotools.subfault property)": [[30, "clawpack.geoclaw.dtopotools.SubFault.centers"]], "clawpack.geoclaw.dtopotools": [[30, "module-clawpack.geoclaw.dtopotools"]], "containing_rect() (clawpack.geoclaw.dtopotools.fault method)": [[30, "clawpack.geoclaw.dtopotools.Fault.containing_rect"]], "convert_to_standard_units() (clawpack.geoclaw.dtopotools.subfault method)": [[30, "clawpack.geoclaw.dtopotools.SubFault.convert_to_standard_units"]], "coordinate_specification (clawpack.geoclaw.dtopotools.subfault attribute)": [[30, "clawpack.geoclaw.dtopotools.SubFault.coordinate_specification"]], "corners (clawpack.geoclaw.dtopotools.subfault property)": [[30, "clawpack.geoclaw.dtopotools.SubFault.corners"]], "create_dtopo_xy() (clawpack.geoclaw.dtopotools.fault method)": [[30, "clawpack.geoclaw.dtopotools.Fault.create_dtopo_xy"]], "create_dtopography() (clawpack.geoclaw.dtopotools.fault method)": [[30, "clawpack.geoclaw.dtopotools.Fault.create_dtopography"]], "dz_at_t() (clawpack.geoclaw.dtopotools.dtopography method)": [[30, "clawpack.geoclaw.dtopotools.DTopography.dZ_at_t"]], "dz_max() (clawpack.geoclaw.dtopotools.dtopography method)": [[30, "clawpack.geoclaw.dtopotools.DTopography.dZ_max"]], "depth (clawpack.geoclaw.dtopotools.subfault attribute)": [[30, "clawpack.geoclaw.dtopotools.SubFault.depth"]], "dip (clawpack.geoclaw.dtopotools.subfault attribute)": [[30, "clawpack.geoclaw.dtopotools.SubFault.dip"]], "dynamic_slip() (clawpack.geoclaw.dtopotools.subfault method)": [[30, "clawpack.geoclaw.dtopotools.SubFault.dynamic_slip"]], "gauss_pts (clawpack.geoclaw.dtopotools.subfault property)": [[30, "clawpack.geoclaw.dtopotools.SubFault.gauss_pts"]], "latitude (clawpack.geoclaw.dtopotools.subfault attribute)": [[30, "clawpack.geoclaw.dtopotools.SubFault.latitude"]], "length (clawpack.geoclaw.dtopotools.subfault attribute)": [[30, "clawpack.geoclaw.dtopotools.SubFault.length"]], "longitude (clawpack.geoclaw.dtopotools.subfault attribute)": [[30, "clawpack.geoclaw.dtopotools.SubFault.longitude"]], "module": 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"clawpack.geoclaw.dtopotools.DTopography.plot_dZ_colors"]], "plot_dz_colors() (in module clawpack.geoclaw.dtopotools)": [[30, "clawpack.geoclaw.dtopotools.plot_dZ_colors"]], "plot_dz_contours() (clawpack.geoclaw.dtopotools.dtopography method)": [[30, "clawpack.geoclaw.dtopotools.DTopography.plot_dZ_contours"]], "plot_dz_contours() (in module clawpack.geoclaw.dtopotools)": [[30, "clawpack.geoclaw.dtopotools.plot_dZ_contours"]], "plot_subfaults() (clawpack.geoclaw.dtopotools.fault method)": [[30, "clawpack.geoclaw.dtopotools.Fault.plot_subfaults"]], "plot_subfaults_depth() (clawpack.geoclaw.dtopotools.fault method)": [[30, "clawpack.geoclaw.dtopotools.Fault.plot_subfaults_depth"]], "rake (clawpack.geoclaw.dtopotools.subfault attribute)": [[30, "clawpack.geoclaw.dtopotools.SubFault.rake"]], "read() (clawpack.geoclaw.dtopotools.csvfault method)": [[30, "clawpack.geoclaw.dtopotools.CSVFault.read"]], "read() (clawpack.geoclaw.dtopotools.dtopography method)": [[30, "clawpack.geoclaw.dtopotools.DTopography.read"]], "read() (clawpack.geoclaw.dtopotools.fault method)": [[30, "clawpack.geoclaw.dtopotools.Fault.read"]], "read() (clawpack.geoclaw.dtopotools.ucsbfault method)": [[30, "clawpack.geoclaw.dtopotools.UCSBFault.read"]], "rise_fraction() (in module clawpack.geoclaw.dtopotools)": [[30, "clawpack.geoclaw.dtopotools.rise_fraction"]], "rise_shape (clawpack.geoclaw.dtopotools.subfault attribute)": [[30, "clawpack.geoclaw.dtopotools.SubFault.rise_shape"]], "rise_time (clawpack.geoclaw.dtopotools.subfault attribute)": [[30, "clawpack.geoclaw.dtopotools.SubFault.rise_time"]], "rise_time_starting (clawpack.geoclaw.dtopotools.subfault attribute)": [[30, "clawpack.geoclaw.dtopotools.SubFault.rise_time_starting"]], "rupture_time (clawpack.geoclaw.dtopotools.subfault attribute)": [[30, "clawpack.geoclaw.dtopotools.SubFault.rupture_time"]], "rupture_type (clawpack.geoclaw.dtopotools.subfault attribute)": [[30, "clawpack.geoclaw.dtopotools.SubFault.rupture_type"]], "set_corners() (clawpack.geoclaw.dtopotools.subfault method)": [[30, "clawpack.geoclaw.dtopotools.SubFault.set_corners"]], "set_dynamic_slip() (clawpack.geoclaw.dtopotools.fault method)": [[30, "clawpack.geoclaw.dtopotools.Fault.set_dynamic_slip"]], "set_subfaults() (clawpack.geoclaw.dtopotools.siftfault method)": [[30, "clawpack.geoclaw.dtopotools.SiftFault.set_subfaults"]], "slip (clawpack.geoclaw.dtopotools.subfault attribute)": [[30, "clawpack.geoclaw.dtopotools.SubFault.slip"]], "strike (clawpack.geoclaw.dtopotools.subfault attribute)": [[30, "clawpack.geoclaw.dtopotools.SubFault.strike"]], "strike_direction() (in module clawpack.geoclaw.dtopotools)": [[30, "clawpack.geoclaw.dtopotools.strike_direction"]], "subdivide() (clawpack.geoclaw.dtopotools.subdividedplanefault method)": [[30, "clawpack.geoclaw.dtopotools.SubdividedPlaneFault.subdivide"]], "width (clawpack.geoclaw.dtopotools.subfault attribute)": [[30, "clawpack.geoclaw.dtopotools.SubFault.width"]], "write() (clawpack.geoclaw.dtopotools.dtopography method)": [[30, "clawpack.geoclaw.dtopotools.DTopography.write"]], "write() (clawpack.geoclaw.dtopotools.fault method)": [[30, "clawpack.geoclaw.dtopotools.Fault.write"]], "fgmaxgrid (class in clawpack.geoclaw.fgmax_tools)": [[33, "clawpack.geoclaw.fgmax_tools.FGmaxGrid"]], "adjust_fgmax_1d() (in module clawpack.geoclaw.fgmax_tools)": [[33, "clawpack.geoclaw.fgmax_tools.adjust_fgmax_1d"]], "bounding_box() (clawpack.geoclaw.fgmax_tools.fgmaxgrid method)": [[33, "clawpack.geoclaw.fgmax_tools.FGmaxGrid.bounding_box"]], "clawpack.geoclaw.fgmax_tools": [[33, "module-clawpack.geoclaw.fgmax_tools"]], "interp_dz() (clawpack.geoclaw.fgmax_tools.fgmaxgrid method)": [[33, "clawpack.geoclaw.fgmax_tools.FGmaxGrid.interp_dz"]], "ps4_to_arrays() (clawpack.geoclaw.fgmax_tools.fgmaxgrid method)": [[33, "clawpack.geoclaw.fgmax_tools.FGmaxGrid.ps4_to_arrays"]], "read_fgmax_grids_data() 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module clawpack.geoclaw.util)": [[47, "clawpack.geoclaw.util.haversine"]], "inv_haversine() (in module clawpack.geoclaw.util)": [[47, "clawpack.geoclaw.util.inv_haversine"]], "box2kml() (in module clawpack.geoclaw.kmltools)": [[59, "clawpack.geoclaw.kmltools.box2kml"]], "clawpack.geoclaw.kmltools": [[59, "module-clawpack.geoclaw.kmltools"]], "deg2dms() (in module clawpack.geoclaw.kmltools)": [[59, "clawpack.geoclaw.kmltools.deg2dms"]], "dtopo2kml() (in module clawpack.geoclaw.kmltools)": [[59, "clawpack.geoclaw.kmltools.dtopo2kml"]], "f2s() (in module clawpack.geoclaw.kmltools)": [[59, "clawpack.geoclaw.kmltools.f2s"]], "fgmax2kml() (in module clawpack.geoclaw.kmltools)": [[59, "clawpack.geoclaw.kmltools.fgmax2kml"]], "fgout2kml() (in module clawpack.geoclaw.kmltools)": [[59, "clawpack.geoclaw.kmltools.fgout2kml"]], "gauges2kml() (in module clawpack.geoclaw.kmltools)": [[59, "clawpack.geoclaw.kmltools.gauges2kml"]], "kml_build_colorbar() (in module clawpack.geoclaw.kmltools)": [[59, "clawpack.geoclaw.kmltools.kml_build_colorbar"]], "kml_cb() (in module clawpack.geoclaw.kmltools)": [[59, "clawpack.geoclaw.kmltools.kml_cb"]], "kml_png() (in module clawpack.geoclaw.kmltools)": [[59, "clawpack.geoclaw.kmltools.kml_png"]], "kml_timespan() (in module clawpack.geoclaw.kmltools)": [[59, "clawpack.geoclaw.kmltools.kml_timespan"]], "line2kml() (in module clawpack.geoclaw.kmltools)": [[59, "clawpack.geoclaw.kmltools.line2kml"]], "make_input_data_kmls() (in module clawpack.geoclaw.kmltools)": [[59, "clawpack.geoclaw.kmltools.make_input_data_kmls"]], "pcolorcells_for_kml() (in module clawpack.geoclaw.kmltools)": [[59, "clawpack.geoclaw.kmltools.pcolorcells_for_kml"]], "png2kml() (in module clawpack.geoclaw.kmltools)": [[59, "clawpack.geoclaw.kmltools.png2kml"]], "poly2kml() (in module clawpack.geoclaw.kmltools)": [[59, "clawpack.geoclaw.kmltools.poly2kml"]], "quad2kml() (in module clawpack.geoclaw.kmltools)": [[59, "clawpack.geoclaw.kmltools.quad2kml"]], "regions2kml() (in 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"file_prefix_p (clawpack.pyclaw.controller.controller attribute)": [[86, "clawpack.pyclaw.controller.Controller.file_prefix_p"]], "frames (clawpack.pyclaw.controller.controller attribute)": [[86, "clawpack.pyclaw.controller.Controller.frames"]], "keep_copy (clawpack.pyclaw.controller.controller attribute)": [[86, "clawpack.pyclaw.controller.Controller.keep_copy"]], "nstepout (clawpack.pyclaw.controller.controller attribute)": [[86, "clawpack.pyclaw.controller.Controller.nstepout"]], "num_output_times (clawpack.pyclaw.controller.controller attribute)": [[86, "clawpack.pyclaw.controller.Controller.num_output_times"]], "out_times (clawpack.pyclaw.controller.controller attribute)": [[86, "clawpack.pyclaw.controller.Controller.out_times"]], "outdir (clawpack.pyclaw.controller.controller attribute)": [[86, "clawpack.pyclaw.controller.Controller.outdir"]], "outdir_p (clawpack.pyclaw.controller.controller property)": [[86, "clawpack.pyclaw.controller.Controller.outdir_p"]], "output_file_prefix 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"clawpack.pyclaw.geometry.Grid.gauge_dir_name"]], "gauge_file_names (clawpack.pyclaw.geometry.grid attribute)": [[89, "clawpack.pyclaw.geometry.Grid.gauge_file_names"]], "gauge_files (clawpack.pyclaw.geometry.grid attribute)": [[89, "clawpack.pyclaw.geometry.Grid.gauge_files"]], "gauges (clawpack.pyclaw.geometry.grid attribute)": [[89, "clawpack.pyclaw.geometry.Grid.gauges"]], "get_dim_attribute() (clawpack.pyclaw.geometry.grid method)": [[89, "clawpack.pyclaw.geometry.Grid.get_dim_attribute"]], "get_dim_attribute() (clawpack.pyclaw.geometry.patch method)": [[89, "clawpack.pyclaw.geometry.Patch.get_dim_attribute"]], "grid (clawpack.pyclaw.geometry.domain property)": [[89, "clawpack.pyclaw.geometry.Domain.grid"]], "kernel_language (clawpack.petclaw.geometry.domain attribute)": [[89, "clawpack.petclaw.geometry.Domain.kernel_language"]], "level (clawpack.pyclaw.geometry.patch attribute)": [[89, "clawpack.pyclaw.geometry.Patch.level"]], "lower_global (clawpack.pyclaw.geometry.patch property)": [[89, "clawpack.pyclaw.geometry.Patch.lower_global"]], "mthlim (clawpack.petclaw.geometry.domain attribute)": [[89, "clawpack.petclaw.geometry.Domain.mthlim"]], "name (clawpack.pyclaw.geometry.patch property)": [[89, "clawpack.pyclaw.geometry.Patch.name"]], "nodes (clawpack.pyclaw.geometry.dimension property)": [[89, "clawpack.pyclaw.geometry.Dimension.nodes"]], "nodes_with_ghost() (clawpack.pyclaw.geometry.dimension method)": [[89, "clawpack.pyclaw.geometry.Dimension.nodes_with_ghost"]], "num_cells_global (clawpack.pyclaw.geometry.patch property)": [[89, "clawpack.pyclaw.geometry.Patch.num_cells_global"]], "num_dim (clawpack.pyclaw.geometry.domain property)": [[89, "clawpack.pyclaw.geometry.Domain.num_dim"]], "num_dim (clawpack.pyclaw.geometry.grid property)": [[89, "clawpack.pyclaw.geometry.Grid.num_dim"]], "num_dim (clawpack.pyclaw.geometry.patch property)": [[89, "clawpack.pyclaw.geometry.Patch.num_dim"]], "order (clawpack.petclaw.geometry.domain attribute)": [[89, 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"clawpack.geoclaw.topotools.topo3writer"]], "write() (clawpack.geoclaw.topotools.topography method)": [[151, "clawpack.geoclaw.topotools.Topography.write"]]}}) \ No newline at end of file diff --git a/v5.7.x/topotools_module.html b/v5.7.x/topotools_module.html index 48274c76a..914fc28fb 100644 --- a/v5.7.x/topotools_module.html +++ b/v5.7.x/topotools_module.html @@ -136,7 +136,7 @@

Navigation

-class clawpack.geoclaw.topotools.Topography(path=None, topo_type=None, topo_func=None, unstructured=False)
+class clawpack.geoclaw.topotools.Topography(path=None, topo_func=None, topo_type=None, unstructured=False)

Base topography class.

A class representing a single topography file.

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Navigation

-read_output(fgno=None, outdir=None, verbose=True, indexing='ij')
+read_output(fgno=None, outdir=None, verbose=True)

Read the GeoClaw results on the fgmax grid numbered fgno.

-
-
indexing=’ij’ gives backward compatibility.

X[i,j],Y[i,j] corresponds to point x[i],y[j]

-
-
-

Alternatively, can set indexing==’xy’ so that X,Y and other -arrays have same layout as topo arrays:

- -
-

X[j,i],Y[j,i] corresponds to point x[i],y[j]

-
- -

This is useful if you want to save the fgmax results in same format as -topofiles, using topotools.Topography.write().

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157], "ylower": [3, 22, 27, 39, 84, 121, 141, 152, 154], "patchno": [3, 27], "out": [3, 16, 24, 26, 29, 30, 32, 35, 36, 39, 44, 45, 50, 52, 53, 54, 55, 58, 59, 60, 61, 62, 67, 70, 77, 80, 81, 83, 84, 86, 92, 93, 94, 95, 98, 103, 105, 106, 108, 111, 119, 121, 123, 124, 131, 133, 140, 141, 143, 148, 154, 155], "lower": [3, 22, 30, 32, 33, 38, 53, 66, 72, 89, 94, 133, 135, 139, 141, 143, 152, 154, 156], "left": [3, 5, 10, 13, 16, 18, 25, 27, 32, 53, 72, 79, 89, 96, 97, 103, 120, 126, 129, 130, 131, 134, 140, 152, 154, 156, 160], "corner": [3, 30, 32, 53, 70, 72, 89, 133, 139, 141, 143, 152, 154], "mappedgrid": [3, 67], "map": [3, 16, 29, 30, 39, 59, 66, 67, 77, 81, 84, 89, 91, 96, 110, 117, 121, 126, 132, 154, 160], "mapc2p": [3, 25, 27, 67, 84, 89, 126], "underli": [3, 51, 119], "other": [3, 4, 5, 6, 7, 9, 12, 13, 16, 20, 22, 27, 30, 33, 35, 36, 38, 44, 45, 46, 48, 51, 52, 53, 55, 56, 57, 58, 61, 62, 64, 66, 67, 68, 70, 71, 72, 76, 79, 81, 83, 84, 86, 89, 91, 93, 95, 96, 97, 100, 103, 105, 106, 110, 111, 113, 114, 116, 117, 119, 131, 134, 137, 138, 139, 142, 144, 148, 152, 154, 156, 157, 158], "requir": [3, 4, 16, 18, 20, 22, 25, 27, 30, 32, 35, 36, 40, 45, 47, 48, 55, 58, 66, 67, 70, 73, 76, 79, 80, 83, 84, 89, 92, 95, 96, 99, 100, 101, 103, 104, 105, 110, 111, 113, 114, 117, 119, 122, 124, 126, 131, 132, 133, 138, 139, 140, 141, 142, 143, 148, 149, 152, 155, 158, 160], "depend": [3, 13, 16, 28, 29, 30, 32, 35, 36, 40, 41, 46, 48, 51, 62, 64, 67, 70, 77, 82, 92, 97, 98, 99, 104, 106, 110, 121, 135, 140, 142, 154, 155, 157, 160], "summar": [3, 28, 31, 110, 112, 157], "plotstyl": [3, 44, 77, 138], "anyth": [3, 6, 28, 29, 58, 63, 111, 121], "valid": [3, 48, 70, 86, 93, 98, 101, 119, 142, 148, 149, 154], "fmt": 3, "group": [3, 13, 24, 28, 30, 48, 88, 92, 94, 102, 118, 131], "solid": [3, 16, 51, 70, 96, 138, 139, 141, 143], "dash": [3, 94], "o": [3, 5, 17, 38, 39, 40, 66, 77, 80, 81, 84, 92, 93, 102, 121, 141, 154, 157], "circl": [3, 47, 77], "bo": 3, "blue": [3, 11, 39, 44, 59, 66, 77, 133, 154], "though": [3, 39, 73, 148, 152], "color": [3, 30, 39, 51, 59, 66, 67, 76, 133, 138, 154], "also": [3, 4, 5, 6, 7, 8, 9, 11, 12, 16, 17, 18, 20, 22, 23, 24, 25, 28, 29, 30, 32, 33, 35, 36, 37, 38, 39, 41, 42, 43, 44, 47, 48, 51, 52, 53, 54, 55, 56, 57, 58, 59, 62, 63, 66, 67, 68, 70, 71, 72, 73, 76, 77, 79, 83, 85, 86, 89, 91, 92, 93, 94, 96, 97, 98, 99, 100, 101, 102, 103, 104, 105, 106, 107, 108, 109, 110, 111, 113, 118, 119, 120, 121, 122, 123, 124, 125, 126, 127, 128, 129, 130, 131, 132, 133, 134, 135, 137, 139, 140, 141, 142, 143, 144, 146, 147, 148, 149, 150, 151, 152, 154, 155, 156, 157, 159, 160], "overrul": 3, "ani": [3, 4, 5, 6, 8, 13, 16, 18, 19, 20, 22, 27, 28, 29, 32, 35, 36, 37, 45, 48, 50, 51, 54, 55, 57, 58, 61, 62, 64, 66, 67, 69, 71, 72, 73, 77, 81, 87, 88, 89, 91, 92, 93, 94, 96, 98, 100, 104, 106, 109, 110, 111, 117, 121, 123, 130, 133, 134, 135, 138, 139, 140, 142, 148, 157, 160], "r": [3, 4, 6, 17, 44, 47, 52, 54, 66, 67, 69, 77, 83, 87, 94, 96, 131, 133, 138, 154, 160], "ff0000": [3, 59], "No": [3, 40, 51, 55, 67, 89, 99, 127, 131, 139, 142, 155], "extra": [3, 51, 132], "give": [3, 6, 9, 10, 13, 16, 24, 28, 30, 32, 33, 35, 36, 44, 52, 59, 66, 70, 71, 72, 77, 79, 94, 95, 99, 111, 114, 118, 119, 123, 126, 133, 139, 142, 152, 154, 156], "polygon": [3, 7, 38, 51, 59, 124, 154], "curv": [3, 44, 76, 133], "fill_between": 3, "describ": [3, 4, 5, 6, 7, 13, 14, 16, 18, 19, 26, 28, 30, 31, 32, 35, 36, 38, 39, 44, 46, 47, 48, 51, 52, 54, 55, 57, 59, 60, 62, 63, 66, 67, 70, 72, 73, 76, 77, 78, 89, 91, 92, 98, 104, 108, 110, 111, 119, 122, 123, 131, 133, 134, 138, 139, 140, 142, 148, 149, 152, 154, 156, 157, 160], "abov": [3, 5, 13, 14, 16, 18, 20, 28, 32, 35, 36, 38, 39, 40, 41, 44, 48, 51, 53, 54, 55, 58, 61, 63, 66, 70, 72, 77, 80, 81, 84, 93, 95, 100, 103, 104, 110, 119, 121, 126, 131, 133, 135, 137, 138, 139, 141, 143, 148, 151, 152, 154, 157], "plot_var2": 3, "second": [3, 16, 30, 32, 36, 44, 47, 51, 55, 59, 67, 83, 89, 93, 99, 110, 113, 119, 130, 139, 142, 148, 150, 151, 154, 157, 160], "zero": [3, 16, 30, 32, 39, 41, 59, 67, 83, 96, 97, 101, 103, 126, 133, 134], "fill_wher": 3, "plotitem": [3, 27, 44, 77, 138], "mean": [3, 13, 22, 28, 32, 39, 44, 48, 52, 58, 67, 93, 94, 110, 131, 134, 139, 141, 143, 156], "map_2d_to_1d": 3, "In": [3, 5, 6, 8, 11, 12, 15, 16, 19, 20, 22, 27, 30, 32, 38, 41, 44, 45, 48, 51, 52, 53, 54, 55, 58, 59, 60, 62, 63, 66, 67, 68, 69, 70, 72, 73, 77, 78, 79, 83, 84, 89, 91, 92, 93, 94, 95, 96, 97, 99, 101, 104, 106, 107, 108, 110, 113, 114, 117, 118, 119, 121, 122, 126, 130, 131, 133, 135, 136, 137, 139, 140, 142, 146, 147, 152, 154, 155, 157, 160], "about": [3, 5, 7, 13, 14, 16, 18, 22, 25, 33, 35, 36, 40, 47, 48, 53, 55, 59, 62, 64, 67, 72, 78, 80, 83, 91, 94, 99, 106, 111, 118, 122, 124, 131, 138, 140, 141, 142, 152, 155, 157, 160], "valu": [3, 5, 6, 7, 16, 18, 20, 22, 27, 30, 33, 34, 35, 36, 38, 39, 41, 44, 45, 47, 49, 50, 51, 53, 59, 60, 62, 64, 66, 67, 70, 71, 72, 77, 84, 89, 91, 92, 93, 96, 97, 98, 99, 101, 103, 104, 110, 111, 113, 114, 116, 117, 119, 121, 123, 124, 126, 130, 131, 133, 134, 135, 139, 140, 141, 142, 143, 148, 149, 152, 154, 155, 157, 160], "j": [3, 4, 5, 15, 17, 20, 22, 27, 33, 39, 52, 59, 66, 67, 72, 79, 91, 92, 110, 113, 114, 135, 136], "v": [3, 16, 25, 29, 30, 32, 47, 60, 63, 111, 118, 140, 152], "radiu": [3, 142, 148, 149, 154], "q0_vs_radiu": 3, "convert": [3, 22, 25, 30, 33, 42, 47, 51, 58, 59, 62, 70, 73, 84, 91, 96, 104, 105, 121, 124, 139, 140, 148, 152, 156], "numpi": [3, 13, 30, 32, 39, 47, 66, 80, 82, 83, 84, 86, 89, 96, 101, 102, 103, 105, 111, 132, 133, 141, 154, 155], "sqrt": [3, 32, 64, 83, 96, 97, 103, 141], "q0": [3, 96], "work": [3, 5, 8, 13, 16, 19, 20, 22, 24, 25, 26, 28, 29, 32, 35, 36, 40, 45, 48, 51, 52, 53, 54, 55, 56, 57, 58, 59, 66, 67, 69, 70, 71, 77, 80, 81, 82, 83, 85, 86, 87, 91, 92, 93, 94, 97, 99, 100, 105, 106, 108, 109, 110, 111, 115, 116, 117, 118, 119, 120, 121, 124, 126, 127, 129, 131, 137, 138, 139, 140, 142, 144, 149, 152, 155, 159], "symbol": [3, 67, 106], "best": [3, 4, 16, 22, 26, 28, 41, 51, 53, 55, 56, 62, 69, 71, 76, 77, 92, 96, 108, 109, 110, 111, 121, 129, 131, 142, 145, 148, 152, 157], "descript": [3, 4, 6, 9, 22, 23, 25, 30, 59, 67, 70, 73, 76, 91, 92, 104, 108, 110, 131, 132, 142, 148, 152, 160], "celledges_show": [3, 22], "draw": 3, "amr_celledges_show": 3, "some": [3, 4, 5, 6, 7, 8, 10, 12, 16, 17, 18, 19, 20, 21, 22, 23, 24, 25, 27, 28, 30, 32, 35, 36, 39, 41, 42, 44, 45, 46, 48, 49, 51, 52, 53, 54, 55, 58, 63, 66, 70, 71, 72, 76, 78, 79, 81, 84, 85, 87, 91, 92, 93, 95, 96, 98, 100, 101, 102, 103, 105, 106, 108, 109, 110, 111, 113, 114, 115, 116, 117, 118, 119, 120, 121, 122, 123, 124, 125, 126, 127, 128, 129, 131, 133, 134, 135, 138, 139, 140, 141, 142, 143, 144, 148, 149, 151, 152, 154, 157], "level": [3, 6, 7, 16, 23, 27, 29, 32, 38, 39, 44, 45, 46, 47, 48, 51, 54, 55, 57, 58, 67, 71, 72, 84, 86, 89, 91, 92, 93, 99, 106, 107, 110, 111, 113, 114, 118, 119, 121, 124, 130, 133, 134, 137, 139, 140, 141, 142, 143, 151, 152, 154, 156, 157], "patchedges_show": [3, 22], "mostli": [3, 76, 91, 124], "contour_level": [3, 154], "three": [3, 13, 17, 22, 30, 32, 48, 51, 63, 67, 70, 94, 98, 104, 111, 133, 139, 142, 152, 154, 157], "contour_nlevel": 3, "contour_min": 3, "float": [3, 30, 32, 44, 47, 59, 86, 89, 97, 101, 104, 139, 140, 142, 143, 148, 154], "minimum": [3, 32, 44, 51, 70, 103, 119, 142, 154], "contour_max": 3, "maximum": [3, 22, 30, 32, 33, 34, 45, 67, 99, 103, 110, 113, 114, 121, 124, 139, 140, 141, 143, 148, 149], "contour_color": 3, "specif": [3, 5, 12, 22, 28, 30, 44, 45, 47, 51, 52, 58, 61, 63, 64, 81, 82, 84, 86, 91, 92, 93, 97, 98, 104, 108, 119, 120, 121, 124, 138, 139, 140, 141, 143, 149, 152], "b": [3, 5, 17, 28, 30, 32, 33, 39, 44, 52, 54, 55, 64, 77, 99, 110, 117, 124, 133, 134, 135, 142, 154, 156], "0000ff": [3, 59], "colormap": [3, 30, 39, 46, 51, 66, 67, 76, 78, 118, 124, 154], "amr_contour_color": 3, "As": [3, 36, 39, 45, 48, 54, 55, 59, 83, 103, 105, 109, 113, 124, 131, 132, 135, 142, 150, 157], "instead": [3, 13, 18, 32, 35, 36, 39, 41, 44, 52, 54, 55, 58, 62, 63, 68, 100, 101, 104, 106, 118, 119, 122, 126, 130, 131, 132, 133, 152, 154], "black": [3, 44], "subsequ": [3, 10, 67], "both": [3, 16, 18, 28, 30, 33, 35, 36, 38, 39, 44, 48, 53, 56, 58, 63, 66, 67, 70, 72, 84, 92, 93, 94, 99, 100, 110, 111, 117, 118, 121, 124, 131, 132, 133, 135, 139, 140, 141, 143, 146, 152, 157], "fine": [3, 32, 33, 39, 54, 69, 73, 91, 96, 110, 119, 126, 133, 135, 139, 140, 142, 152, 157], "coars": [3, 32, 51, 110, 119, 126, 139, 152, 157], "anoth": [3, 22, 39, 44, 51, 55, 58, 59, 72, 76, 80, 88, 99, 102, 111, 121, 148, 157], "refin": [3, 4, 5, 7, 8, 17, 22, 45, 48, 51, 52, 53, 66, 67, 72, 73, 83, 119, 121, 122, 124, 126, 133, 135, 138, 139, 140, 141, 151, 152, 157], "region": [3, 6, 7, 13, 16, 22, 32, 38, 39, 45, 48, 49, 51, 59, 64, 70, 73, 108, 121, 124, 126, 134, 135, 140, 141, 152, 154], "lack": 3, "hidden": [3, 62, 77], "blank": [3, 33, 59, 148], "coarser": [3, 16, 53, 119, 135, 139, 140, 157], "easili": [3, 13, 28, 32, 51, 54, 67, 77, 84, 89, 100, 104, 111, 124, 144], "contour_show": 3, "boolean": [3, 51, 66, 92, 97, 139, 140, 142], "most": [3, 18, 20, 22, 27, 29, 32, 35, 36, 40, 41, 44, 48, 50, 51, 52, 53, 54, 57, 59, 62, 66, 67, 71, 73, 76, 77, 79, 81, 89, 93, 94, 99, 102, 103, 105, 110, 111, 118, 120, 126, 129, 130, 131, 132, 133, 134, 138, 139, 140, 142, 145, 157], "commonli": [3, 67, 77, 79], "amr_contour_show": 3, "tupl": [3, 30, 47, 59, 70, 77, 89, 93, 154], "determin": [3, 5, 6, 30, 32, 39, 44, 45, 48, 50, 51, 54, 59, 70, 77, 87, 89, 92, 97, 101, 106, 110, 114, 118, 119, 130, 133, 134, 138, 139, 140, 142, 154, 157], "whether": [3, 6, 13, 16, 22, 47, 53, 56, 58, 60, 61, 62, 67, 81, 89, 92, 93, 97, 98, 99, 110, 111, 119, 131, 133, 139, 140, 142, 154], "view": [3, 4, 22, 35, 36, 44, 45, 51, 53, 54, 59, 72, 76, 78, 79, 83, 94, 100, 105, 117, 121, 144, 145], "finest": [3, 32, 39, 44, 121, 151, 154], "contour_kwarg": [3, 154], "pcolor_cmap": [3, 51], "pcolor_cmin": 3, "pcolor_cmax": 3, "rang": [3, 5, 13, 30, 44, 47, 51, 110, 113, 118, 132, 133], "thei": [3, 5, 6, 13, 16, 24, 27, 28, 30, 32, 38, 39, 44, 48, 51, 54, 55, 58, 59, 60, 63, 66, 67, 72, 76, 89, 91, 96, 99, 104, 110, 111, 119, 126, 135, 138, 142, 148, 152, 154, 157], "chosen": [3, 29, 32, 38, 39, 51, 53, 66, 103, 110, 126, 134, 140], "vari": [3, 15, 17, 25, 30, 39, 45, 53, 64, 96, 98, 117, 124, 131, 132, 134, 136, 140, 160], "yield": 3, "veri": [3, 5, 16, 18, 22, 48, 51, 55, 56, 59, 70, 77, 81, 84, 92, 93, 94, 95, 96, 99, 111, 114, 118, 133, 135, 139, 149, 152], "confus": [3, 53, 58, 106, 126, 131], "pcolor_colorbar": 3, "colorbar": [3, 39, 59, 66, 121, 124, 133, 154], "ad": [3, 12, 16, 18, 20, 22, 24, 25, 27, 29, 32, 34, 41, 44, 47, 53, 54, 55, 58, 59, 60, 64, 67, 70, 77, 82, 84, 87, 89, 90, 93, 94, 106, 107, 108, 110, 113, 114, 115, 116, 117, 118, 119, 120, 121, 122, 123, 124, 125, 127, 130, 135, 139, 140, 142, 148, 151, 154, 158], "relat": [3, 7, 22, 24, 54, 73, 97, 108, 120, 124, 126, 134], "same": [3, 5, 6, 8, 13, 16, 22, 25, 28, 31, 32, 33, 39, 41, 44, 46, 47, 48, 51, 53, 55, 58, 59, 60, 62, 64, 66, 68, 70, 73, 76, 77, 78, 79, 83, 87, 89, 91, 92, 93, 96, 97, 99, 104, 105, 113, 114, 118, 119, 124, 126, 130, 131, 133, 139, 140, 141, 142, 146, 152, 154, 157], "pre": [3, 13, 33, 55, 85, 92], "pend": 3, "amr_": [3, 7], "whose": [3, 77, 84, 96, 97, 135, 139, 140, 154], "origin": [3, 6, 13, 16, 20, 28, 30, 34, 44, 52, 54, 66, 71, 72, 84, 99, 104, 113, 119, 126, 130, 140, 141, 143, 154], "hand": [3, 5, 18, 19, 20, 64, 83, 111, 133], "higher": [3, 6, 32, 51, 89, 99, 100, 110, 124, 131, 133, 134, 135], "shorter": [3, 110, 154], "last": [3, 18, 27, 32, 55, 57, 77, 83, 84, 96, 103, 118, 139, 148], "repeatedli": [3, 94, 100, 140], "common": [3, 23, 28, 35, 36, 40, 41, 62, 63, 73, 76, 83, 97, 99, 101, 102, 119, 121, 124, 155, 157], "finer": [3, 7, 32, 51, 110, 113, 114, 133, 139, 140], "celledg": 3, "stand": [4, 126], "conserv": [4, 5, 6, 17, 93, 99, 101, 122, 132, 157, 160], "law": [4, 17, 59, 142, 160], "packag": [4, 25, 28, 29, 35, 36, 51, 55, 56, 63, 73, 76, 80, 81, 83, 89, 91, 93, 95, 96, 98, 100, 103, 105, 106, 123, 124, 155, 158], "wa": [4, 5, 6, 14, 18, 19, 20, 25, 29, 30, 32, 33, 39, 48, 50, 54, 55, 62, 64, 66, 67, 70, 77, 94, 98, 99, 101, 110, 111, 112, 113, 114, 115, 116, 117, 118, 119, 120, 121, 122, 123, 124, 125, 126, 127, 128, 130, 133, 135, 142, 151, 152, 154], "initi": [4, 5, 7, 12, 13, 22, 25, 30, 44, 45, 47, 48, 51, 55, 60, 63, 67, 70, 73, 79, 81, 82, 83, 84, 86, 87, 89, 90, 92, 93, 97, 98, 99, 101, 102, 104, 107, 110, 118, 121, 124, 126, 131, 134, 139, 140, 141, 142, 143, 148, 152, 154], "develop": [4, 6, 7, 12, 13, 18, 22, 23, 48, 52, 54, 57, 58, 61, 66, 67, 76, 80, 81, 84, 91, 96, 99, 100, 106, 108, 111, 121, 122, 124, 126, 131, 134, 135, 141], "linear": [4, 5, 17, 30, 32, 51, 70, 77, 83, 87, 99, 122, 131, 132, 133], "nonlinear": [4, 5, 17, 48, 87, 131, 139, 160], "hyperbol": [4, 5, 6, 17, 42, 73, 84, 91, 96, 97, 103, 131, 139, 142, 157, 160], "system": [4, 16, 17, 23, 36, 37, 51, 52, 58, 59, 63, 71, 72, 81, 91, 93, 94, 96, 97, 100, 103, 106, 111, 131, 139, 141, 143, 150, 157, 160], "focu": [4, 45], "high": [4, 17, 32, 48, 51, 66, 70, 73, 84, 91, 99, 131, 134, 135, 156, 157], "resolut": [4, 6, 17, 18, 30, 32, 39, 44, 70, 89, 99, 103, 104, 113, 117, 121, 122, 131, 134, 142, 152, 154, 156, 157], "godunov": [4, 89, 99, 139, 141, 143, 157], "method": [4, 5, 7, 17, 32, 38, 42, 44, 53, 66, 77, 79, 83, 86, 87, 89, 94, 98, 99, 104, 110, 111, 117, 131, 138, 139, 140, 141, 143, 148, 151, 152, 154, 157], "framework": [4, 81, 84, 118, 119], "applic": [4, 6, 15, 16, 19, 20, 22, 23, 24, 28, 29, 32, 35, 36, 37, 41, 42, 43, 45, 46, 55, 57, 58, 63, 66, 68, 71, 79, 88, 89, 90, 91, 93, 99, 104, 107, 109, 110, 111, 113, 116, 117, 119, 120, 121, 123, 124, 131, 133, 135, 136, 139, 142, 146, 147, 152, 154, 155, 157, 158], "finit": [4, 17, 32, 42, 53, 59, 66, 67, 70, 99, 124, 133, 151, 152, 157], "volum": [4, 17, 29, 32, 42, 53, 59, 66, 67, 91, 124, 133, 140, 151, 152, 157], "riemann": [4, 5, 8, 20, 22, 23, 28, 29, 45, 55, 58, 63, 73, 81, 83, 89, 90, 99, 100, 101, 103, 106, 137, 139, 141, 143, 146, 147, 160], "solver": [4, 5, 6, 20, 22, 23, 25, 28, 45, 56, 57, 58, 63, 80, 81, 82, 86, 89, 90, 93, 101, 115, 117, 119, 120, 121, 122, 123, 124, 126, 139, 141, 143, 146, 147, 160], "resolv": [4, 32, 51, 54, 58, 108, 121, 135], "jump": [4, 5, 67, 79, 89, 99, 119, 139, 160], "discontinu": [4, 99, 160], "interfac": [4, 19, 22, 67, 81, 84, 87, 91, 92, 97, 99, 104, 131, 157, 158, 160], "grid": [4, 7, 17, 18, 19, 20, 22, 23, 25, 27, 28, 33, 38, 39, 44, 45, 46, 48, 51, 52, 59, 66, 67, 72, 73, 76, 81, 83, 91, 93, 94, 96, 97, 98, 99, 101, 103, 110, 111, 113, 114, 116, 117, 119, 120, 121, 124, 126, 128, 131, 132, 133, 134, 135, 139, 140, 141, 143, 149, 151, 152, 154, 156, 157, 160], "wave": [4, 5, 6, 16, 17, 25, 32, 39, 48, 51, 52, 70, 87, 89, 91, 96, 97, 99, 110, 117, 119, 120, 126, 132, 133, 134, 139, 140, 141, 142, 143, 157], "propag": [4, 5, 6, 17, 25, 30, 48, 51, 52, 70, 89, 91, 99, 110, 119, 131], "neighbor": [4, 32, 39, 66, 110, 119, 135, 140, 141, 154], "formul": [4, 5, 48, 64, 131, 139], "allow": [4, 6, 13, 18, 22, 27, 28, 29, 32, 38, 39, 44, 45, 47, 50, 51, 53, 54, 58, 64, 66, 67, 70, 71, 73, 76, 77, 86, 91, 92, 93, 99, 101, 104, 105, 106, 110, 111, 113, 114, 117, 118, 119, 120, 121, 123, 124, 126, 131, 133, 139, 141, 142, 143, 144, 148, 152, 154, 156], "easi": [4, 6, 11, 29, 38, 58, 67, 84, 93, 94, 95, 133, 144, 157], "extens": [4, 17, 22, 24, 28, 30, 48, 51, 54, 58, 63, 67, 84, 91, 92, 104, 119, 120, 126, 139, 150, 154, 160], "problem": [4, 5, 7, 16, 17, 20, 24, 25, 27, 28, 29, 35, 36, 39, 42, 45, 58, 62, 66, 67, 70, 73, 77, 80, 82, 83, 88, 90, 91, 94, 97, 99, 102, 106, 111, 113, 114, 116, 117, 120, 124, 126, 131, 133, 135, 139, 140, 141, 142, 143, 144, 151, 155], "algorithm": [4, 7, 25, 32, 38, 39, 45, 52, 83, 89, 91, 92, 99, 103, 110, 121, 131, 133, 139, 141, 143, 154], "brief": [4, 55, 132, 142], "subroutin": [4, 6, 9, 16, 22, 32, 63, 110, 117, 131, 139, 140, 151, 157, 160], "equat": [4, 5, 16, 17, 25, 35, 36, 45, 48, 60, 64, 77, 82, 83, 84, 86, 91, 92, 93, 96, 99, 100, 101, 114, 117, 119, 121, 122, 131, 139, 141, 142, 143, 152, 157, 160], "solv": [4, 5, 8, 16, 17, 20, 26, 35, 36, 48, 56, 58, 60, 82, 84, 86, 89, 91, 96, 97, 100, 122, 131, 132, 139, 152, 157, 160], "adapt": [4, 7, 17, 30, 39, 52, 53, 66, 67, 73, 83, 110, 121, 124, 126, 131, 133, 138, 139, 140, 142, 157], "mesh": [4, 7, 17, 33, 52, 66, 67, 73, 76, 83, 110, 124, 138, 139, 157], "includ": [4, 6, 13, 18, 21, 22, 23, 27, 28, 29, 30, 32, 35, 36, 38, 40, 41, 43, 44, 48, 51, 53, 55, 57, 58, 59, 61, 63, 64, 66, 67, 68, 70, 71, 73, 76, 77, 79, 81, 83, 84, 88, 89, 91, 92, 93, 94, 95, 96, 97, 98, 99, 100, 101, 103, 106, 108, 110, 111, 113, 119, 120, 121, 122, 123, 124, 125, 126, 127, 128, 131, 132, 133, 137, 139, 141, 142, 144, 145, 148, 149, 151, 152, 154, 157], "amrclaw": [4, 5, 6, 12, 15, 16, 19, 20, 22, 23, 24, 28, 36, 38, 39, 41, 43, 44, 45, 46, 52, 55, 56, 57, 58, 60, 66, 67, 68, 71, 72, 73, 80, 91, 100, 106, 107, 110, 111, 130, 131, 133, 136, 137, 139, 142, 146, 147, 150, 151, 155], "detail": [4, 5, 10, 16, 18, 22, 23, 25, 26, 28, 29, 30, 32, 35, 36, 38, 41, 46, 48, 51, 54, 57, 58, 61, 62, 66, 67, 70, 73, 77, 81, 86, 87, 88, 89, 91, 92, 93, 94, 95, 96, 97, 99, 109, 110, 111, 114, 119, 121, 126, 131, 133, 138, 139, 142, 144, 148, 152, 155, 156, 157, 160], "content": [4, 6, 23, 51, 55, 73, 84, 91, 142, 152, 157, 158], "routin": [4, 5, 6, 16, 20, 25, 27, 30, 32, 35, 36, 44, 45, 46, 51, 52, 62, 67, 68, 71, 72, 73, 76, 79, 81, 84, 86, 89, 92, 95, 96, 99, 101, 102, 110, 113, 114, 117, 119, 121, 122, 124, 131, 135, 139, 141, 143, 148, 154, 155, 157, 158, 160], "special": [4, 7, 16, 18, 45, 46, 51, 61, 73, 81, 110, 133, 154], "depth": [4, 5, 16, 17, 22, 30, 32, 33, 39, 44, 45, 48, 64, 70, 76, 78, 132, 134, 135, 142, 152], 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96, 99, 100, 103, 105, 106, 109, 112, 113, 114, 117, 118, 119, 120, 121, 122, 123, 124, 126, 130, 131, 132, 133, 137, 139, 140, 141, 142, 143, 144, 148, 150, 151, 152], "bibliographi": [4, 25], "paper": [4, 5, 6, 16, 30, 45, 54, 87, 91], "distribut": [4, 12, 13, 29, 30, 54, 61, 70, 73, 81, 99, 105, 124], "under": [4, 7, 22, 32, 37, 51, 52, 54, 57, 61, 63, 76, 81, 89, 91, 111, 119, 121, 129], "term": [4, 25, 45, 48, 61, 70, 84, 89, 90, 99, 110, 120, 121, 132, 139, 141, 142, 143, 146, 147], "berkelei": [4, 61, 81], "bsd": [4, 61, 81, 121], "peopl": [4, 12, 13, 81], "contribut": [4, 24, 25, 57, 81, 84, 91, 96, 99, 108, 111], "its": [4, 6, 13, 22, 29, 34, 39, 48, 51, 61, 63, 66, 70, 72, 81, 86, 87, 88, 89, 91, 96, 98, 99, 101, 104, 110, 141, 154, 160], "incept": 4, "1994": [4, 61], "major": [4, 22, 54, 55, 81, 84, 112, 113, 114, 115, 120, 122, 127], "design": [4, 27, 28, 51, 81, 83, 103, 133, 156], "made": [4, 18, 22, 28, 30, 58, 98, 101, 113, 114, 119, 121, 124, 126, 133, 135, 142, 149, 152, 154, 157], "individu": [4, 22, 23, 51, 59, 62, 63, 67, 89, 110, 111, 148], "randal": [4, 17, 91], "univers": [4, 17, 24, 54, 61, 81, 98], "washington": [4, 17, 24, 54, 61, 123, 133, 154], "rjlevequ": [4, 28, 29], "marsha": [4, 6, 17], "berger": [4, 6, 17], "courant": [4, 6, 110, 120, 139, 140, 141, 143], "institut": 4, "nyu": 4, "mjberger": 4, "jan": [4, 55], "olav": 4, "langseth": [4, 17], "norwegian": 4, "defenc": 4, "research": [4, 17, 45, 48, 81, 99, 109], "establish": 4, "david": [4, 17, 81, 91, 99], "georg": [4, 17, 30], "usg": [4, 30, 156], "cascad": 4, "volcano": 4, "observatori": 4, "dlgeorg": 4, "ketcheson": [4, 17, 74, 81, 91, 99], "kaust": [4, 24], "ketch": 4, "kyle": [4, 17, 81, 87, 91, 92, 97], "mandli": [4, 17, 81, 87, 91, 92, 97], "ut": 4, "austin": 4, "contributor": [4, 24, 61, 91], "aron": [4, 17, 81, 91], "ahmadia": [4, 17, 81, 91], "amal": [4, 17, 81, 91], "alghamdi": [4, 17, 81, 91], "ghamdi": 4, "ian": 4, "bollig": 4, "bolliger32": 4, "peter": 4, "blossei": 4, "donna": [4, 17], "calhoun": [4, 17, 51], "donnabois": 4, "ond\u0159ej": 4, "\u010dert\u00edk": 4, "certik": [4, 81], "brisa": 4, "davi": [4, 17], "brisadavi": [4, 122], "gradi": [4, 17, 81], "lemoin": [4, 17, 81], "gradylemoin": 4, "sorin": 4, "mitran": [4, 17], "matteo": [4, 17, 81, 91], "parsani": [4, 17, 81, 91], "mparsani": 4, "xinsheng": [4, 52], "qin": [4, 52], "xinshengqin": [4, 52], "avi": 4, "schwarzschild": 4, "aks2203": 4, "andi": 4, "terrel": 4, "aterrel": 4, "chri": 4, "vogl": 4, "cjvogl": 4, "numer": [4, 17, 51, 105, 122], "student": 4, "toward": [4, 30], "bug": [4, 8, 12, 22, 24, 41, 51, 64, 71, 77, 81, 116, 117, 118, 119, 121, 126, 127, 128], "suggest": [4, 24, 29, 47, 53, 54, 56, 58, 79, 80, 105, 129, 131, 142, 159], "improv": [4, 13, 22, 24, 32, 34, 51, 54, 92, 105, 113, 114, 116, 117, 118, 119, 120, 122, 123, 124, 125, 126, 127, 139], "explor": [4, 59, 77, 79], "thank": [4, 91], "public": [4, 13, 21, 129], "pleas": [4, 24, 28, 54, 56, 57, 58, 81, 83, 86, 88, 91, 92, 94, 96, 98, 99, 100, 102, 108, 121, 126, 129, 131, 148], "itself": [4, 70, 76, 105, 124, 131, 142, 154], "well": [4, 6, 18, 28, 33, 45, 51, 52, 54, 58, 59, 66, 70, 71, 72, 73, 76, 79, 80, 98, 99, 108, 120, 121, 124, 132, 135, 139, 140, 146, 147, 148, 157, 160], "citat": [4, 55], "similar": [4, 13, 16, 28, 32, 36, 44, 51, 83, 84, 92, 96, 99, 103, 121, 126, 142, 148, 149, 150, 152], "team": [4, 24, 61], "2020": [4, 24, 25, 54, 61, 105, 108, 124, 125, 126, 129, 131], "7": [4, 6, 14, 29, 32, 38, 39, 44, 47, 54, 64, 66, 77, 80, 89, 100, 106, 110, 126, 129, 133, 134, 135, 140, 141], "http": [4, 12, 13, 17, 18, 24, 26, 28, 29, 30, 39, 47, 51, 52, 54, 55, 57, 58, 60, 61, 66, 68, 70, 80, 81, 84, 85, 92, 94, 96, 105, 106, 116, 118, 119, 120, 122, 123, 126, 127, 128, 129, 132, 148, 154], "www": [4, 13, 17, 30, 39, 45, 54, 60, 61, 66, 68, 81, 84, 89, 92, 94, 120, 122, 148, 154], "org": [4, 17, 45, 52, 54, 55, 60, 61, 81, 84, 85, 89, 92, 94, 105, 106, 118, 120, 122, 126, 127, 128, 154], "doi": [4, 17, 52, 55, 57, 124, 125, 126, 127, 128, 129], "10": [4, 17, 30, 32, 39, 51, 52, 53, 55, 77, 83, 86, 89, 110, 118, 119, 121, 124, 125, 126, 127, 128, 129, 133, 139, 140, 141, 143, 152], "5281": [4, 55, 124, 125, 126, 127, 128, 129], "zenodo": [4, 57, 124, 125, 126, 127, 128, 129], "4025432": [4, 125, 129], "here": [4, 13, 16, 29, 38, 39, 48, 55, 58, 59, 66, 73, 77, 79, 83, 86, 91, 92, 94, 96, 97, 102, 103, 106, 108, 110, 117, 131, 132, 133, 149, 154, 160], "bibtex": [4, 55], "misc": [4, 123, 125], "url": [4, 12, 17, 51, 55, 121, 122, 152, 154], "year": [4, 17, 22, 51, 59, 91, 112, 122, 148], "appropri": [4, 5, 6, 13, 16, 24, 28, 45, 48, 49, 51, 55, 57, 59, 60, 64, 67, 68, 69, 71, 83, 86, 87, 88, 92, 94, 95, 96, 97, 98, 111, 123, 131, 134, 139, 148, 157, 160], "releas": [4, 18, 22, 25, 28, 29, 43, 51, 56, 57, 58, 85, 91, 99, 100, 105], "refer": [4, 5, 20, 30, 32, 33, 35, 36, 38, 45, 46, 51, 62, 63, 67, 70, 83, 87, 89, 92, 93, 97, 99, 101, 106, 108, 121, 123, 130, 131, 133, 142, 148, 152, 154, 156, 157], "particular": [4, 6, 12, 20, 22, 28, 30, 32, 41, 44, 45, 46, 48, 51, 52, 55, 61, 62, 63, 67, 73, 77, 78, 80, 81, 83, 97, 98, 99, 101, 103, 108, 109, 110, 111, 114, 117, 118, 119, 120, 121, 123, 124, 126, 138, 148, 149, 160], "obtain": [4, 6, 12, 32, 43, 44, 46, 48, 58, 59, 92, 93, 94, 110, 126, 131, 135, 142, 144, 152, 160], "your": [4, 6, 15, 16, 19, 20, 24, 25, 26, 35, 37, 41, 44, 53, 54, 55, 56, 57, 58, 68, 71, 76, 77, 79, 81, 82, 83, 84, 85, 88, 90, 91, 92, 93, 102, 103, 105, 106, 107, 108, 110, 111, 113, 121, 131, 136, 137, 146, 147, 152, 155, 157], "multipl": [4, 5, 6, 13, 23, 28, 32, 33, 39, 44, 76, 83, 89, 92, 93, 104, 106, 111, 113, 119, 123, 130, 131, 140, 148, 149], "past": [4, 21, 25, 54, 60, 66, 98, 119, 122, 126, 129, 133, 134, 142], "17605": [4, 55, 129], "osf": [4, 129], "io": [4, 54, 55, 80, 93, 98, 129], "kmw6h": [4, 55, 129], "recent": [4, 13, 22, 27, 30, 50, 54, 57, 62, 64, 71, 77, 79, 80, 118, 122, 123, 124, 125, 126, 127, 128, 129, 131, 156], "articl": [4, 17, 91, 144], "m": [4, 17, 20, 22, 28, 30, 44, 47, 51, 52, 54, 55, 59, 66, 67, 70, 72, 84, 110, 116, 131, 133, 142, 154, 157, 160], "d": [4, 7, 17, 28, 30, 47, 51, 59, 88, 97, 106, 111, 131], "l": [4, 7, 17, 32, 40, 57, 110, 131, 137, 141], "hadjimichael": [4, 17, 81], "2016": [4, 17, 24, 54], "build": [4, 17, 28, 29, 54, 55, 67, 84, 94, 104, 120, 133], "open": [4, 13, 17, 25, 28, 29, 30, 51, 59, 76, 81, 85, 89, 92, 104, 133, 137, 156, 158], "sourc": [4, 17, 23, 25, 28, 30, 41, 45, 51, 52, 54, 55, 57, 58, 59, 61, 63, 64, 76, 81, 84, 88, 89, 90, 99, 100, 102, 103, 104, 108, 109, 111, 119, 120, 121, 132, 134, 139, 141, 142, 143, 145, 146, 147, 148, 152], "ecosystem": [4, 17], "pde": [4, 5, 17, 56, 57, 58, 73, 80, 91, 103, 139, 157], "peerj": [4, 17], "scienc": [4, 17, 81], "7717": [4, 17], "c": [4, 16, 17, 28, 29, 30, 41, 51, 59, 61, 77, 81, 83, 84, 89, 97, 102, 103, 131], "68": [4, 17], "mandli2016clawpack": [4, 17], "yianni": [4, 17, 81], "journal": [4, 17, 52, 91, 144], 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121, 122, 126, 127, 131, 133, 139, 140, 142, 148, 149, 152, 155, 158], "part": [4, 5, 22, 24, 30, 45, 48, 58, 59, 60, 68, 81, 84, 94, 100, 101, 103, 105, 109, 111, 123, 157], "nsf": 4, "grant": [4, 81], "dm": 4, "8657319": 4, "9204329": 4, "9303404": 4, "9505021": 4, "96226645": 4, "9803442": 4, "0106511": 4, "cm": [4, 30, 70, 77, 133], "0245206": 4, "0609661": 4, "0914942": 4, "1216732": 4, "ear": 4, "1331412": 4, "cmmi": 4, "1536198": 4, "doe": [4, 5, 11, 16, 18, 20, 27, 28, 39, 40, 48, 51, 53, 54, 58, 67, 73, 77, 80, 89, 98, 101, 104, 110, 111, 114, 119, 123, 126, 130, 131, 132, 135, 148, 154, 155, 157], "de": [4, 17, 81, 91, 133], "fg06": 4, "93er25181": 4, "fg03": 4, "96er25292": 4, "fg02": 4, "88er25053": 4, "92er25139": 4, "00er2592": 4, "fc02": 4, "01er25474": 4, "afosr": 4, "f49620": 4, "94": 4, "0132": 4, "nih": 4, "5r01ar53652": 4, "onr": 4, "n00014": 4, "09": [4, 89, 97, 151], "0649": 4, "council": 4, "nfr": 4, "through": [4, 13, 28, 35, 36, 44, 48, 51, 66, 67, 73, 76, 84, 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39, 40, 49, 54, 56, 62, 76, 79, 91, 94, 100, 104, 111, 118, 124, 131, 144, 155], "identifi": [5, 35, 36, 39, 51, 66, 84, 110, 124, 148], "hat": 5, "given": [5, 30, 39, 47, 51, 53, 59, 64, 67, 70, 87, 94, 98, 99, 101, 104, 110, 126, 133, 134, 135, 142, 152, 154, 157], "t_r": 5, "reach": [5, 110], "claw": [5, 6, 8, 11, 12, 13, 14, 15, 16, 18, 19, 20, 22, 24, 28, 30, 32, 33, 35, 36, 37, 38, 40, 41, 43, 44, 45, 47, 49, 50, 52, 54, 55, 57, 58, 59, 62, 63, 67, 69, 70, 71, 78, 83, 86, 88, 91, 92, 93, 94, 100, 102, 106, 107, 108, 109, 110, 111, 113, 114, 116, 117, 120, 121, 123, 131, 135, 136, 141, 142, 143, 145, 146, 147, 150, 151, 152, 154, 155, 157, 158], "acoustics_1d_adjoint": 5, "acoustics_2d_adjoint": 5, "main": [5, 11, 12, 19, 28, 39, 43, 54, 55, 66, 67, 73, 84, 86, 92, 96, 103, 104, 111, 120], "subdirectori": [5, 12, 18, 20, 22, 23, 35, 36, 54, 55, 58, 62, 69, 79, 88, 93, 106, 111, 138, 142, 144, 150, 154], "must": [5, 6, 13, 16, 20, 22, 28, 30, 32, 39, 43, 46, 51, 54, 57, 61, 62, 63, 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70, 81, 89, 94, 96, 97, 101, 103, 126, 130, 131, 133, 160], "src": [5, 6, 11, 14, 15, 16, 19, 20, 28, 29, 30, 32, 33, 39, 40, 41, 47, 50, 52, 55, 58, 59, 62, 63, 67, 70, 71, 78, 95, 96, 104, 106, 107, 110, 111, 114, 117, 118, 120, 121, 122, 123, 124, 126, 131, 135, 136, 139, 141, 143, 146, 154, 155, 160], "rp1_acoustics_variable_adjoint": 5, "f90": [5, 9, 15, 20, 31, 32, 39, 44, 52, 62, 63, 71, 80, 96, 107, 110, 113, 117, 119, 121, 122, 123, 124, 126, 127, 131, 132, 135, 136, 146, 147, 152, 155, 157], "boundari": [5, 7, 20, 25, 39, 51, 59, 63, 66, 70, 71, 84, 89, 97, 99, 103, 108, 114, 117, 121, 133, 139, 141, 143], "condit": [5, 7, 20, 25, 61, 63, 73, 81, 82, 83, 84, 86, 93, 99, 107, 113, 114, 117, 121, 134, 139, 141, 142, 143], "adjust": [5, 13, 20, 32, 33, 45, 59, 89, 93, 134, 139, 157], "principl": [5, 154, 157], "vanish": 5, "dure": [5, 22, 32, 39, 44, 59, 70, 73, 113, 134, 135, 141, 142, 143, 152], "integr": [5, 22, 53, 60, 81, 91, 93, 99, 113, 114, 118, 141, 143, 151, 152, 157], 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155], "clawrundata": [5, 44, 59, 122, 130, 139, 140, 141, 143], "adjointdata": [5, 122, 123], "ia": 5, "attribur": 5, "toler": [5, 32, 97, 104, 110, 111, 119, 140, 141, 142], "rundata": [5, 22, 32, 38, 39, 44, 59, 60, 110, 113, 124, 130, 135, 139, 140, 141, 142, 143], "use_adjoint": 5, "adjoint_outdir": 5, "abspath": [5, 38], "_output": [5, 13, 14, 32, 35, 36, 44, 50, 60, 67, 77, 79, 88, 93, 95, 98, 118, 125, 155], "period": [5, 6, 16, 32, 62, 83, 96, 110, 139, 141, 143], "t1": [5, 38, 44, 59, 60, 110, 126, 140, 141, 142], "t0": [5, 130, 139, 141, 142, 143, 152], "t2": [5, 38, 44, 59, 60, 110, 126, 140, 141, 142], "addit": [5, 7, 13, 16, 18, 23, 24, 28, 29, 32, 36, 37, 38, 45, 46, 59, 66, 70, 72, 73, 77, 78, 84, 87, 89, 91, 93, 99, 100, 101, 108, 110, 117, 119, 120, 121, 122, 125, 126, 128, 131, 133, 139, 143, 148, 151, 152, 157, 158], "aux": [5, 6, 15, 20, 22, 27, 44, 53, 84, 91, 92, 93, 96, 98, 99, 101, 102, 113, 114, 119, 121, 131, 132, 136, 139, 140, 141, 142, 143, 157], "inner": 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26, 29, 32, 35, 36, 38, 39, 44, 48, 51, 53, 54, 55, 56, 58, 63, 66, 70, 76, 79, 83, 84, 85, 86, 88, 89, 92, 93, 94, 95, 96, 99, 100, 101, 102, 103, 104, 105, 108, 111, 121, 124, 131, 132, 133, 154], "attempt": [5, 8, 11, 20, 33, 35, 36, 62, 92, 98, 104, 111, 113, 127, 148, 154, 155], "estim": [5, 64, 110, 140, 142], "step": [5, 6, 10, 16, 18, 19, 28, 32, 35, 36, 37, 44, 51, 54, 55, 60, 67, 73, 76, 79, 81, 82, 83, 84, 86, 93, 96, 99, 101, 103, 108, 110, 113, 118, 119, 130, 131, 137, 139, 140, 141, 142, 143, 152, 160], "extrapol": [5, 7, 16, 22, 96, 103, 121, 139, 140, 141, 143], "togeth": [5, 16, 18, 28, 29, 30, 54, 56, 70, 110], "experiment": [5, 81], "otherwis": [5, 30, 54, 58, 61, 66, 81, 93, 97, 98, 99, 100, 101, 104, 110, 139, 154], "simpli": [5, 13, 35, 36, 37, 39, 44, 51, 53, 62, 63, 66, 83, 85, 86, 88, 93, 94, 100, 111, 131, 133, 144, 148, 154, 157, 158], "magnitud": [5, 30, 110, 121, 142], "greater": [5, 32, 59, 64, 66, 100, 110, 130, 139, 140, 142], "model": [5, 12, 16, 17, 24, 25, 30, 32, 41, 45, 46, 52, 53, 64, 93, 110, 118, 123, 124, 125, 133, 134, 135, 142, 148, 149, 152], "davisleveque2016": [5, 17], "chile2010_adjoint": 5, "shallow": [5, 15, 16, 17, 25, 32, 39, 45, 48, 52, 66, 73, 84, 91, 107, 114, 115, 117, 119, 121, 122, 131, 135, 136, 142, 146, 147, 152, 157], "water": [5, 16, 17, 25, 39, 44, 45, 46, 47, 48, 59, 66, 73, 76, 84, 91, 114, 115, 119, 121, 122, 131, 133, 134, 135, 142, 152, 154, 156, 157], "while": [5, 13, 16, 30, 39, 51, 67, 70, 77, 79, 84, 89, 93, 94, 99, 104, 121, 131, 135, 142, 156], "suitabl": [5, 8, 16, 20, 45, 48, 51, 98, 109, 131, 134, 148, 154], "To": [5, 6, 13, 14, 18, 22, 25, 28, 29, 35, 36, 37, 38, 39, 40, 44, 46, 49, 51, 52, 55, 62, 65, 66, 67, 70, 71, 72, 77, 79, 80, 83, 85, 87, 88, 91, 92, 93, 94, 95, 96, 99, 100, 103, 106, 108, 109, 110, 111, 117, 119, 122, 123, 124, 125, 126, 127, 128, 130, 134, 137, 139, 140, 144, 152, 158], "date": [5, 28, 40, 47, 51, 54, 55, 62, 77, 148, 155], "across": [5, 110, 119, 152, 154], "ocean": [5, 16, 17, 32, 48, 51, 108, 110, 133, 146, 147, 152], "wai": [5, 6, 13, 16, 26, 28, 35, 36, 38, 39, 44, 51, 53, 54, 57, 58, 59, 61, 62, 77, 79, 80, 81, 83, 86, 88, 89, 94, 96, 98, 100, 103, 105, 106, 108, 109, 113, 119, 120, 121, 124, 129, 131, 133, 138, 139, 145, 149, 152, 157, 159, 160], "target": [5, 58, 77, 84, 96, 124], "possibli": [5, 30, 66, 83, 89, 106, 118, 135], "deep": [5, 66], "amplitud": [5, 119], "compar": [5, 22, 36, 44, 48, 51, 55, 77, 93, 110, 111, 134, 140, 142, 150, 156, 160], "essenti": [5, 53, 67, 99, 142, 152], "rest": [5, 22, 79, 108, 121, 134, 146, 147, 152, 154], "henc": [5, 32, 53, 54, 63, 99, 105, 106, 110, 135], "take": [5, 6, 22, 27, 28, 30, 32, 47, 54, 64, 66, 67, 70, 77, 83, 89, 96, 99, 103, 104, 105, 110, 111, 116, 122, 135, 139, 140, 141, 142, 154, 157, 160], "rpn2_geoclaw_adjoint_qwav": 5, "rpt2_geoclaw_adjoint_qwav": 5, "non": [5, 16, 55, 66, 73, 84, 96, 103, 122, 124, 139, 141, 143, 148, 160], "vector": [5, 18, 22, 83, 87, 93, 101, 121, 131, 132], "split": [5, 6, 71, 89, 92, 99, 117, 118, 126, 139, 140, 141, 143, 151, 157, 160], "flux": [5, 17, 32, 89, 97, 99, 131, 139, 160], "comment": [5, 11, 18, 24, 49, 55, 120, 130], "rpn2": [5, 131], "basic": [6, 10, 12, 25, 30, 35, 37, 45, 57, 66, 67, 83, 89, 91, 92, 93, 97, 99, 111, 131, 132, 148, 160], "strategi": 6, "logic": [6, 16, 17, 32, 126], "rectangular": [6, 7, 16, 17, 18, 30, 32, 38, 39, 45, 46, 59, 66, 89, 110, 121, 124, 140, 142, 152], "cover": [6, 7, 27, 28, 30, 32, 38, 39, 51, 59, 66, 70, 110, 114, 119, 135, 141, 152], "too": [6, 47, 51, 54, 55, 118, 133, 141, 143], "portion": [6, 18, 39, 51, 66, 84, 151], "factor": [6, 51, 140, 142, 151, 154], "direct": [6, 8, 16, 22, 30, 32, 35, 36, 44, 47, 51, 55, 59, 61, 62, 67, 70, 71, 77, 81, 86, 96, 103, 110, 120, 131, 139, 140, 142, 154], "anisotrop": [6, 22], "further": [6, 16, 18, 25, 32, 41, 48, 59, 62, 67, 91, 105, 110, 111, 140], "perhap": [6, 12, 32, 39, 44, 54, 77, 101, 104, 110, 133], "ratio": [6, 15, 22, 49, 67, 70, 87, 97, 99, 136, 139, 140, 141], "And": [6, 20, 54, 57], "section": [6, 13, 16, 35, 36, 39, 41, 46, 48, 54, 55, 63, 67, 76, 79, 91, 111, 126, 130, 139, 142, 154], "cfl": [6, 89, 93, 99, 103, 113, 118, 139, 141, 142, 143], "spatial": [6, 17, 25, 30, 38, 39, 45, 64, 96, 110, 113, 117, 124, 126, 131, 134, 140, 141, 143, 160], "reduc": [6, 16, 18, 39, 51, 118, 120, 160], "thu": [6, 47, 93, 96, 121, 148], "proce": [6, 28], "advanc": [6, 17, 52, 66, 71, 103, 118, 139, 140, 157], "taken": [6, 32, 66, 70, 93, 99, 110, 139, 157], "around": [6, 30, 32, 39, 59, 92, 108, 111, 124, 140, 141, 148, 154, 157], "librari": [6, 13, 15, 16, 20, 22, 25, 27, 28, 32, 35, 36, 41, 44, 52, 59, 62, 68, 71, 72, 73, 81, 87, 92, 94, 99, 104, 106, 107, 110, 119, 124, 135, 136, 140, 146, 147, 155, 157], "bcnamr": [6, 16, 121, 139, 141, 157], "check": [6, 14, 15, 16, 20, 32, 35, 36, 40, 41, 50, 51, 52, 54, 55, 56, 58, 62, 67, 77, 80, 83, 84, 86, 91, 94, 98, 99, 101, 103, 104, 106, 107, 110, 114, 123, 133, 135, 136, 140, 141, 146, 147, 148, 154, 155, 156, 157], "denot": [6, 22, 44, 53, 131, 154], "procedur": [6, 16, 39, 45, 55, 157], "updat": [6, 12, 13, 22, 23, 25, 32, 49, 52, 57, 58, 60, 79, 91, 99, 101, 102, 105, 108, 113, 117, 119, 120, 121, 122, 123, 124, 131, 140, 141, 143, 145, 148, 151, 157], "consist": [6, 18, 25, 32, 47, 51, 55, 59, 94, 105, 119, 131, 133, 142, 152, 157], "replac": [6, 13, 18, 29, 38, 44, 48, 52, 54, 55, 57, 60, 62, 76, 84, 88, 92, 94, 95, 96, 97, 101, 104, 111, 113, 119, 121, 123, 124, 130, 131, 135, 154, 155], "ly": [6, 66], "within": [6, 16, 28, 29, 54, 58, 66, 73, 77, 95, 104, 106, 110, 131, 133, 138, 144, 154], "approxim": [6, 16, 25, 33, 48, 51, 70, 131], "lead": [6, 13, 22, 32, 48, 51, 64, 67, 70, 106, 109, 126, 135, 140], "total": [6, 30, 51, 70, 93, 99, 139, 140, 141, 143, 151], "mass": [6, 93], "restor": 6, "global": [6, 14, 89, 101, 104, 134, 152, 156, 157], "fix": [6, 18, 19, 20, 22, 25, 33, 38, 45, 54, 55, 59, 60, 62, 66, 81, 92, 97, 113, 114, 115, 116, 117, 118, 119, 120, 122, 123, 124, 125, 126, 127, 128, 132, 139, 141, 143, 154], "up": [6, 13, 22, 28, 29, 30, 32, 35, 36, 39, 40, 44, 45, 51, 54, 55, 59, 62, 66, 67, 70, 77, 83, 84, 86, 88, 90, 91, 92, 94, 99, 100, 103, 106, 108, 110, 111, 117, 118, 121, 124, 126, 133, 135, 138, 141, 143, 151, 152, 155, 156], "style": [6, 22, 28, 30, 38, 49, 51, 66, 72, 77, 81, 86, 121, 142], "often": [6, 11, 13, 16, 20, 27, 29, 32, 35, 36, 40, 41, 44, 45, 48, 49, 50, 59, 60, 64, 70, 72, 93, 105, 106, 110, 111, 126, 130, 131, 133, 134, 135, 138, 139, 142, 148, 152, 156, 157, 160], "olig": [6, 17], "colella": [6, 17], "bergeroliger84": [6, 17], "bergercolella89": [6, 17], "fortran": [6, 9, 11, 13, 14, 18, 20, 23, 27, 28, 30, 32, 33, 35, 44, 45, 46, 53, 56, 58, 62, 63, 64, 71, 72, 73, 76, 79, 81, 83, 84, 86, 89, 91, 92, 94, 96, 97, 99, 100, 101, 104, 106, 117, 118, 119, 121, 122, 123, 131, 132, 137, 140, 141, 142, 143, 148, 150, 151, 152], "written": [6, 11, 25, 30, 32, 40, 44, 58, 59, 60, 61, 70, 72, 73, 77, 81, 90, 91, 92, 96, 119, 131, 139, 140, 141, 142, 143, 148, 154, 157], "ga": [6, 97], "dynam": [6, 20, 30, 48, 70, 73, 140], "merg": [6, 13, 25, 28, 52, 54, 55, 58, 117], "earli": [6, 20, 135], "dai": [6, 13, 51, 142], "mjb": [6, 17], "rjl": [6, 17, 106, 123], "fulli": [6, 48, 51, 52, 120, 124, 131, 142, 148, 149], "consid": [6, 39, 48, 58, 66, 84, 106, 137, 144, 154], "adjac": [6, 16, 32, 45, 110, 135, 139], "equival": [6, 18, 44, 52, 53, 59, 60, 123, 152], "copi": [6, 14, 15, 16, 35, 36, 44, 51, 54, 55, 58, 67, 83, 86, 96, 101, 107, 108, 109, 110, 114, 118, 121, 125, 135, 136, 140, 144, 146, 147, 152, 157], "interior": [6, 16, 39, 72, 101], "howev": [6, 13, 16, 22, 29, 32, 35, 36, 39, 41, 46, 48, 51, 58, 61, 63, 66, 70, 71, 72, 81, 84, 91, 110, 111, 119, 121, 123, 134, 135, 138, 142, 151], "lie": [6, 32, 33, 66, 110, 124, 133], "outsid": [6, 16, 38, 59, 66, 124, 133, 135, 152, 154], "li": [6, 16, 32, 110, 133, 142], "along": [6, 14, 16, 24, 27, 30, 32, 39, 44, 51, 54, 57, 68, 70, 106, 110, 117, 130, 133, 135, 142, 156], "proper": [6, 15, 39, 44, 52, 53, 55, 59, 64, 66, 67, 92, 104, 113, 119, 136, 140, 141, 146, 147, 148, 157], "unless": [6, 32, 40, 41, 59, 97, 105, 134, 139, 140, 154], "standard": [6, 16, 30, 32, 51, 53, 67, 72, 84, 87, 99, 106, 110, 111, 141, 142, 143, 144, 152, 157, 160], "beyond": [6, 30, 105, 121], "modifi": [6, 9, 14, 15, 16, 20, 22, 27, 32, 35, 36, 39, 44, 45, 54, 55, 58, 60, 62, 67, 69, 77, 84, 87, 89, 91, 96, 106, 107, 108, 109, 110, 116, 118, 119, 120, 121, 126, 133, 135, 136, 139, 141, 142, 143, 146, 147, 152, 154, 157], "damag": [6, 61, 81], "bcn": [6, 16, 143, 157], "nd": [6, 16, 110, 121, 124, 157], "actual": [6, 27, 30, 32, 53, 58, 59, 67, 70, 77, 87, 92, 104, 108, 134, 142], "softwar": [6, 13, 24, 25, 29, 45, 48, 61, 68, 81, 91, 92, 93, 144, 152], "intern": [6, 30, 44, 53, 59, 70, 119, 140, 152, 154, 160], "With": [6, 22, 28, 44, 49, 51, 58, 66, 73, 110, 118, 131, 133, 139], "opposit": [6, 16, 92], "side": [6, 16, 18, 32, 51, 54, 64, 70, 92, 111, 131, 160], "everi": [6, 12, 28, 32, 44, 60, 62, 63, 83, 86, 88, 92, 93, 101, 110, 111, 119, 120, 131, 135, 137, 139, 141, 143, 148, 152, 154, 157], "few": [6, 12, 13, 22, 26, 29, 36, 48, 54, 66, 67, 84, 99, 103, 105, 110, 111, 124, 134, 150, 152, 157], "coarsest": [6, 51, 72, 113, 130, 139], "revis": [6, 119], "shock": [6, 17, 48, 99, 110], "accord": [6, 53], "criteria": [6, 7, 22, 25, 32, 66, 101], "cluster": [6, 17, 110, 140, 141], "rigoutsi": 6, "bergerrigoutsis91": [6, 17], "nonoverlap": 6, "rectangl": [6, 7, 25, 30, 66, 70, 110, 124, 154], "balanc": [6, 17, 73, 120, 132, 146, 147], "conflict": [6, 28, 58, 62, 67, 102, 106], "goal": 6, "possibl": [6, 13, 22, 26, 28, 30, 32, 44, 47, 48, 51, 61, 62, 70, 77, 81, 89, 92, 94, 95, 99, 104, 106, 110, 131, 133, 134, 139, 140, 152, 156, 157], "minim": [6, 58, 66, 92, 133, 140, 154], "overhead": [6, 71, 110, 151], "cutoff": [6, 141], "control": [6, 7, 23, 25, 32, 41, 44, 54, 58, 60, 67, 79, 82, 87, 89, 91, 92, 93, 94, 96, 110, 119, 124, 132, 142], "fraction": [6, 13, 30, 110, 139, 157, 160], "70": [6, 51], "realli": [6, 111, 157], "At": [6, 13, 27, 28, 35, 36, 39, 66, 94, 99, 103, 105, 110, 124, 139], "present": [6, 24, 59, 89, 97, 98, 99, 104, 144, 157, 160], "previous": [6, 22, 32, 66, 79, 117, 124, 135], "bilinear": [6, 32, 39, 44, 53, 113, 114, 152], "doxygen": [6, 7, 25, 120], "flowchart": [6, 7, 25], "capabl": [7, 12, 18, 22, 32, 34, 48, 52, 66, 73, 84, 91, 113, 118, 119, 121, 122, 123, 124, 125, 154, 156], "block": [7, 30, 33, 39, 59, 70, 72, 73, 83, 92, 101, 104, 111, 157], "structur": [7, 10, 22, 32, 38, 55, 58, 62, 73, 98, 99, 119, 133, 138, 154], "input": [7, 14, 16, 20, 23, 25, 27, 30, 33, 40, 45, 51, 59, 63, 66, 67, 83, 86, 87, 89, 91, 97, 98, 99, 104, 108, 118, 121, 122, 123, 131, 141, 142, 143, 148, 149, 152, 154, 157], "indic": [7, 16, 20, 22, 25, 29, 30, 32, 38, 39, 41, 44, 45, 51, 53, 55, 58, 63, 67, 75, 79, 89, 93, 94, 97, 99, 103, 106, 110, 111, 119, 124, 126, 131, 132, 139, 140, 141, 142, 143, 152, 154, 157], "tool": [7, 8, 17, 22, 23, 28, 30, 32, 33, 35, 36, 39, 45, 46, 47, 48, 51, 53, 56, 57, 58, 59, 67, 70, 75, 76, 77, 78, 80, 91, 106, 109, 114, 115, 119, 120, 124, 125, 142, 144, 152, 154, 156, 158], "matlab": [7, 22, 25, 35, 36, 75, 76, 77, 95, 105, 121, 124, 125], "deprec": [7, 18, 30, 34, 54, 58, 117, 121, 142, 152, 154], "debug": [7, 18, 41, 62, 72, 76, 93, 101, 106, 111, 139, 141], "flag": [7, 12, 13, 22, 25, 28, 29, 38, 40, 41, 45, 52, 58, 68, 71, 84, 102, 104, 106, 117, 122, 126, 141, 142], "sampl": [7, 8, 14, 17, 18, 25, 29, 32, 41, 45, 51, 70, 106, 111, 130, 133, 139, 140, 152, 154, 157], "ghost": [7, 16, 71, 72, 89, 92, 99, 101, 119, 126, 139, 141, 143, 151, 157, 160], "flagregion": [7, 25, 66, 110, 124, 126, 133, 140, 142], "rule": [7, 13, 25, 59, 66, 84], "convex": [7, 32], "slu": 7, "bounding_box": [7, 33], "mask_outsid": [7, 66], "write": [7, 28, 30, 33, 38, 39, 44, 45, 50, 53, 54, 64, 70, 72, 73, 76, 83, 86, 89, 90, 92, 93, 94, 98, 119, 121, 141, 143, 148, 152, 154], "instanti": [7, 86, 94, 96, 99, 101, 141, 143], "make_kml": 7, "simpl": [7, 29, 35, 36, 38, 45, 55, 70, 84, 91, 96, 97, 99, 104, 109, 111, 154], "select": [7, 12, 13, 15, 16, 28, 32, 39, 66, 93, 99, 107, 110, 113, 120, 124, 129, 136, 139, 142, 146, 147, 156], "continent": [7, 66], "shelf": [7, 66], "guid": [7, 13, 17, 18, 23, 24, 25, 45, 46, 52, 57, 91, 105, 110, 120, 124, 145], "adjoint": [7, 17, 25, 52, 110, 121, 122], "gaug": [7, 18, 25, 32, 45, 59, 89, 90, 101, 108, 113, 117, 118, 119, 120, 121, 124, 130, 134, 141], "extend": [8, 16, 22, 39, 59, 66, 67, 89, 121, 133, 135, 142, 152, 154, 160], "directli": [8, 18, 19, 23, 32, 48, 57, 67, 70, 77, 79, 83, 84, 87, 91, 101, 104, 106, 121, 154, 158], "obviou": [8, 51], "elimin": [8, 22, 66, 84, 106, 121, 142], "gallery_classic_amrclaw": [8, 35], "num_cel": [8, 22, 89, 131, 139, 140, 141, 143], "refinement_ratios_i": [8, 140, 141], "sweep": [8, 131], "transvers": [8, 89, 119, 126, 131, 132, 139, 157, 160], "graph": 9, "understand": [9, 25, 35, 36, 48, 76, 91, 103, 110, 131], "filpatch": [9, 39, 119, 123, 126], "idea": [10, 24, 30, 66, 67, 73, 83, 103, 114, 154, 160], "overal": [10, 83], "who": [10, 12, 19, 22, 24, 32, 41, 48, 56], "gori": 10, "monster": 10, "column": [10, 30, 32, 44, 48, 60, 93, 97, 117, 133, 154], "markup": 11, "languag": [11, 76, 104], "restructur": [11, 54], "text": [11, 54, 55, 59, 72, 86, 92, 99, 117], "sphinx": [11, 23, 25, 55, 120], "covert": 11, "convert_readm": 11, "brows": [11, 24, 42, 51, 67, 144, 157], "insert": [11, 16, 70, 92, 137], "script": [11, 19, 20, 28, 30, 32, 40, 44, 51, 54, 62, 67, 73, 76, 81, 84, 88, 90, 91, 93, 94, 99, 104, 106, 111, 121, 125, 131, 138, 142, 143, 154], "invok": [11, 14, 71, 135, 155], "minor": [11, 51, 54, 93, 113, 114, 115, 116, 117, 118, 119, 120, 121, 122, 124, 126, 128], "syntax": [11, 57, 137], "highlight": [11, 13], "header": [11, 30, 32, 39, 44, 53, 66, 70, 72, 92, 98, 117, 119, 121, 148, 152, 154], "complex": [12, 38, 89], "archiv": [12, 21, 36, 51, 55, 111, 144, 150, 154, 156], "github": [12, 15, 18, 22, 23, 24, 25, 26, 29, 52, 54, 57, 58, 88, 96, 100, 107, 111, 116, 118, 119, 120, 129, 131, 132, 136, 146, 147, 155], "app": [12, 13, 18, 23, 26, 28, 29, 32, 37, 42, 43, 70, 108, 109, 116, 120, 121, 122, 123, 124, 125, 126, 127, 128, 132], "com": [12, 13, 18, 23, 24, 26, 28, 29, 52, 54, 55, 57, 58, 92, 94, 96, 100, 116, 118, 119, 120, 129, 132], "fvmbook": [12, 42], "galleri": [12, 25, 35, 36, 37, 42, 55, 75, 76, 88, 91, 105, 111, 116, 120, 144, 150, 157], "anim": [12, 16, 18, 42, 51, 117, 124, 125, 144], "instal": [12, 13, 18, 23, 25, 29, 35, 43, 51, 54, 55, 79, 81, 82, 85, 90, 92, 103, 105, 111, 112, 113, 114, 115, 116, 117, 118, 119, 120, 121, 122, 123, 124, 125, 126, 127, 128, 129, 137, 159], "collect": [12, 25, 26, 28, 30, 32, 70, 76, 83, 99, 144], "either": [12, 16, 18, 20, 30, 32, 39, 45, 46, 51, 60, 62, 66, 67, 70, 77, 79, 83, 89, 91, 92, 93, 99, 104, 106, 110, 111, 117, 118, 119, 121, 131, 133, 135, 140, 142, 148, 152, 154, 157, 160], "clone": [12, 18, 23, 24, 42, 52, 54, 55, 58, 80, 94, 100, 109, 155], "git": [12, 13, 23, 24, 25, 26, 29, 52, 55, 58, 91, 100, 111, 123], "navig": [12, 29, 54, 144], "green": [12, 59, 66, 70, 77, 111, 154], "button": [12, 13, 28, 51, 59, 120], "download": [12, 13, 28, 29, 30, 36, 37, 39, 45, 51, 55, 57, 58, 68, 88, 94, 100, 121, 122, 129, 150, 154, 155, 156], "zip": [12, 51, 55], "illustr": [12, 25, 30, 32, 35, 43, 51, 66, 67, 70, 109, 116, 117, 121, 123, 131, 133, 144, 154], "variou": [12, 20, 22, 30, 38, 43, 48, 54, 67, 70, 77, 79, 89, 103, 105, 106, 110, 119, 131, 138, 142, 148], "aspect": [12, 24, 29, 43, 48, 49, 67, 154], "visibl": [12, 13, 43, 51, 109, 144], "render": [12, 22, 43, 51, 59, 158], "advantag": [12, 76, 92, 105, 111, 133], "independ": [12, 23, 30], "contact": [12, 88, 91, 100], "u": [12, 13, 16, 24, 29, 32, 47, 48, 55, 56, 58, 60, 81, 88, 91, 97, 100, 101, 102, 103, 108, 120, 131, 140, 143, 148, 156], "like": [12, 13, 24, 28, 29, 39, 41, 51, 54, 55, 59, 60, 67, 68, 79, 84, 86, 89, 92, 93, 94, 97, 98, 99, 101, 105, 106, 111, 118, 131, 133, 138, 151, 152, 155], "storm": [12, 17, 24, 25, 45, 117, 120, 121, 122, 123, 125, 126, 127], "surg": [12, 17, 24, 25, 45, 117, 120, 121, 122, 123, 126, 148], "empti": [12, 44, 98, 101, 104, 106, 139, 148, 154], "gitmodul": 12, "pull": [12, 18, 24, 26, 29, 54, 55, 57, 88, 96, 111, 116, 119, 120, 126, 131], "request": [12, 24, 26, 30, 54, 57, 72, 83, 88, 89, 93, 96, 98, 111, 119, 121, 126, 131, 142, 148, 154], "init": [12, 25, 28, 39, 45, 52, 57, 134], "leav": [12, 13, 16, 44, 58, 140, 154], "off": [12, 13, 18, 44, 48, 51, 59, 67, 79, 86, 93, 110, 140, 154], "won": [12, 13, 66, 84, 154], "hurt": [12, 63], "maintain": [12, 28, 105, 121, 140, 152, 157], "flavor": [12, 21, 92], "demonstr": [12, 25, 88, 94], "agre": [12, 28, 39, 53, 131, 151, 154, 157], "seen": [12, 22, 32, 35, 36, 37, 48, 71, 96, 139, 144], "cloud": 13, "elast": [13, 70], "sign": [13, 24, 77, 126, 148], "account": [13, 24, 28, 55, 85, 94], "750": 13, "hour": [13, 51, 59], "free": [13, 51, 62, 70, 81, 85, 96, 100, 102], "micro": 13, "suffici": [13, 16, 18, 20, 70, 71, 108, 113, 142], "tier": 13, "inform": [13, 14, 22, 25, 32, 33, 35, 36, 46, 47, 48, 49, 50, 58, 63, 72, 77, 78, 79, 83, 84, 89, 91, 93, 94, 95, 97, 98, 104, 106, 118, 121, 122, 124, 129, 130, 131, 134, 137, 139, 140, 142, 148, 151, 152, 155, 156, 157, 158], "uw": [13, 24], "escienc": 13, "aw": 13, "tutori": [13, 29, 55, 79, 82, 86, 91, 100, 106, 109], "gear": 13, "faq": [13, 25, 76], "price": 13, "charg": 13, "per": [13, 30, 44, 51, 59, 67, 71, 92, 140], "thereof": 13, "regardless": [13, 39, 66, 110, 139, 142], "cpu": [13, 52, 118, 121, 123, 151], "consol": [13, 93, 142], "tab": [13, 54, 129], "east": [13, 152], "cheaper": 13, "rate": 13, "menu": [13, 18, 25, 54, 59, 120, 129, 134, 156], "imag": [13, 35, 36, 39, 55, 59, 66, 111, 121, 133], "platform": [13, 51, 86, 94, 105, 111], "finish": [13, 77, 83], "load": [13, 59, 93, 95, 98, 104, 111, 154, 158], "databas": [13, 30, 70, 104, 108, 121, 152], "uwamath": 13, "bar": [13, 54, 148], "screen": [13, 28, 51, 59, 86, 93, 94, 118, 141, 143], "shapshot": 13, "machin": [13, 25, 71, 73, 111, 119, 137], "disk": [13, 44, 83, 92, 93, 111, 119], "ubuntu": 13, "linux": [13, 69, 80, 102, 111, 137], "popup": 13, "look": [13, 14, 22, 25, 28, 30, 39, 51, 54, 55, 59, 67, 68, 77, 79, 84, 89, 94, 98, 99, 103, 104, 106, 111, 114, 121, 133, 139, 140, 142, 151, 154, 155], "sort": [13, 39, 121, 138, 155], "larger": [13, 20, 32, 51, 59, 70, 71, 72, 77, 89, 113, 119, 126, 140, 142, 152], "cost": [13, 99], "continu": [13, 22, 28, 30, 49, 54, 81, 105, 131, 139, 160], "eventu": [13, 45, 124], "don": [13, 27, 28, 54, 55, 77, 93, 94, 100, 111, 141, 155], "pair": [13, 92, 111, 154], "secur": 13, "quick": [13, 25, 36, 45, 46, 56, 80, 111, 150], "close": [13, 39, 51, 54, 59, 66, 67, 92, 110, 124, 140, 148], "back": [13, 27, 29, 54, 55, 120], "statu": [13, 28, 50, 86, 103], "wait": 13, "until": [13, 32, 60, 66, 135], "refresh": [13, 44], "bottom": [13, 15, 30, 35, 36, 45, 48, 64, 66, 70, 83, 96, 97, 119, 120, 136, 146, 147], "scroll": 13, "down": [13, 30, 93, 118, 148, 152, 154], "dn": 13, "screenshot": [13, 51], "rjlkei": 13, "pem": 13, "abl": [13, 54, 106], "ssh": [13, 28], "keypair": 13, "50": [13, 17, 32, 51, 99, 114, 141], "19": [13, 17, 24, 127, 128, 129, 151], "75": [13, 17, 87, 103, 133], "229": 13, "amazonaw": 13, "gfortran": [13, 58, 71, 80, 82, 102, 137, 155], "ipython": [13, 73, 77, 79, 84, 85, 91, 93, 100, 103, 106, 117, 118], "scipi": [13, 84, 105, 148, 154], "netcdf": [13, 41, 45, 118, 121, 123, 125, 139, 141, 143, 148, 154, 156], "apach": 13, "server": [13, 29, 39, 51, 54, 55, 66, 121, 152, 156], "apt": [13, 80], "fetch": [13, 47], "bring": [13, 51, 54, 67], "master": [13, 15, 25, 29, 54, 55, 58, 96, 107, 118, 119, 120, 121, 122, 123, 124, 125, 126, 127, 128, 129, 132, 136, 146, 147], "make_lib": 13, "compil": [13, 25, 35, 36, 40, 46, 58, 63, 71, 73, 79, 80, 84, 91, 92, 96, 100, 104, 113, 131, 132, 137], "bashrc": [13, 41, 102, 137], "Of": [13, 26, 70, 103, 108, 152], "cours": [13, 26, 32, 44, 46, 60, 70, 94, 95, 103, 105, 108, 142, 152], "tar": [13, 59, 123, 129], "instruct": [13, 18, 24, 25, 29, 35, 36, 39, 51, 52, 54, 55, 68, 83, 85, 91, 94, 100, 103, 106, 120, 127, 129, 130, 155], "probabl": [13, 28, 51, 64, 66, 105, 106], "window": [13, 30, 67, 79, 137], "respons": [13, 48, 83, 98], "pretti": 13, "slow": [13, 51, 93, 102], "_plot": [13, 35, 36, 44, 67, 79, 138, 144], "local": [13, 17, 20, 25, 28, 51, 54, 59, 62, 63, 67, 87, 89, 96, 101, 119, 121, 135, 152, 154, 157], "sftp": 13, "much": [13, 18, 28, 32, 41, 51, 54, 72, 73, 76, 80, 105, 110, 113, 117, 124, 133, 139, 142, 151, 154], "smaller": [13, 18, 51, 64, 73, 89, 93, 113, 135, 139, 141, 142, 143, 154], "quicker": [13, 133], "browser": [13, 28, 29, 35, 36, 51, 54, 144], "explain": [13, 32, 48, 66, 126, 139, 144], "webserv": 13, "inbound": 13, "port": [13, 29, 90, 91, 96, 140], "22": [13, 24, 140, 154], "80": [13, 17, 51, 94, 133], "drop": [13, 54, 80, 124, 126, 135, 139], "tcp": 13, "Then": [13, 16, 28, 29, 30, 44, 54, 55, 56, 63, 66, 70, 71, 79, 83, 86, 94, 100, 101, 102, 106, 131, 133, 154, 155], "someth": [13, 27, 28, 54, 62, 69, 76, 93, 98, 99, 106, 152, 155, 157], "shot": 13, "ln": 13, "expos": [13, 73], "home": [13, 29, 30, 58, 137], "scp": 13, "TO": [13, 61, 81], "send": [13, 24, 96, 131], "remot": [13, 51, 55, 121, 154, 156], "rel": [13, 20, 30, 40, 46, 48, 51, 70, 71, 77, 91, 104, 106, 111, 114, 115, 116, 117, 118, 119, 120, 121, 122, 123, 124, 125, 126, 127, 128, 134, 140, 142, 144, 152, 156], "end": [13, 29, 30, 32, 33, 44, 47, 51, 55, 59, 86, 93, 97, 103, 105, 108, 110, 118, 119, 121, 130, 132, 133, 141, 143, 148, 151], "retriev": [13, 47, 79, 84, 99, 154, 156], "sit": 13, "idl": 13, "action": [13, 14, 84], "restart": [13, 25, 44, 79, 91, 118, 119, 120, 121, 123, 126, 139, 141, 143], "later": [13, 39, 50, 51, 58, 79, 99, 130], "But": [13, 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132, 139, 140, 141, 143], "fairli": [16, 48, 119], "good": [16, 28, 48, 51, 61, 71, 81, 103, 108, 111, 119, 126, 131], "outgo": 16, "let": [16, 45, 58, 81, 108, 120, 126, 131], "pass": [16, 18, 19, 20, 28, 30, 44, 51, 59, 71, 77, 83, 86, 88, 90, 96, 99, 101, 102, 104, 111, 131, 141, 148, 154, 157], "without": [16, 22, 33, 40, 44, 48, 59, 61, 62, 63, 66, 67, 77, 79, 81, 87, 91, 92, 93, 104, 106, 111, 133, 137, 141, 143, 148, 155, 157], "particularli": [16, 27, 29, 32, 50, 51, 56, 57, 58, 70, 72, 106, 114, 117, 121, 126, 135, 152], "perfect": 16, "hit": [16, 67, 79, 93, 139], "obliqu": 16, "angl": [16, 30, 47, 70], "perfectli": 16, "wall": [16, 41, 96, 103, 118, 121, 123, 139, 141, 143, 151], "veloc": [16, 18, 32, 47, 60, 67, 79, 96, 97, 103, 119, 134, 139, 140, 141, 142, 143, 157], "momentum": [16, 32, 48, 60, 64, 93, 126, 132, 142, 152], "third": [16, 32, 53, 87, 151, 154], "acoust": [16, 29, 35, 36, 48, 82, 83, 86, 88, 91, 99, 100, 117, 131, 141, 157], "p": [16, 17, 29, 79, 81, 83, 89, 92, 93, 97, 101, 131, 160], "h": [16, 17, 32, 39, 44, 45, 48, 51, 52, 59, 64, 97, 110, 117, 124, 132, 134, 135, 142, 152], "hu": [16, 60, 64, 97, 132, 142], "hv": [16, 60, 64, 132, 142], "equal": [16, 30, 32, 33, 51, 70, 94, 96, 110, 130, 133, 139, 141, 143, 152, 154], "far": [16, 18, 38, 42, 66, 76, 122, 124, 126], "symmetri": 16, "physic": [16, 44, 51, 84, 89, 91, 103, 110, 160], "slightli": [16, 39, 53, 119, 120, 126, 133], "complic": [16, 77, 84, 133, 138], "alwai": [16, 22, 26, 27, 28, 32, 41, 53, 54, 58, 67, 83, 92, 109, 110, 113, 114, 126, 135, 141, 142, 143, 152, 157], "alon": [16, 51], "topographi": [16, 17, 25, 32, 44, 45, 48, 53, 59, 64, 70, 78, 108, 109, 113, 114, 115, 117, 118, 121, 124, 127, 133, 134, 135, 146, 147, 153], "artifici": [16, 135], "ignor": [16, 51, 59, 92, 117, 126, 134, 154], "incom": 16, "truncat": [16, 92], "spuriou": [16, 32, 111], "extropl": 16, "dry": [16, 17, 25, 32, 45, 97, 124, 127, 132, 135], "land": [16, 39, 45, 46, 51, 54, 55, 59, 66, 78, 124, 135, 142, 154], "tank": [16, 48], "bc2amr": [16, 121], "calhounhelzellevequ": 16, "envis": 16, "fold": 16, "piec": [16, 48, 89], "glu": 16, "inflat": 16, "websit": [16, 51, 54, 144, 154], "bergercalhounhelzellevequ": 16, "hint": [16, 25, 45, 76, 79, 106, 142, 155], "suppos": [16, 63, 66, 67, 77, 106, 110], "mark": [16, 51, 66, 110, 111], "bit": [16, 22, 30, 55, 92, 94, 102, 132], "examin": [16, 18, 35, 36, 44, 66, 106], "own": [16, 20, 24, 28, 58, 83, 84, 90, 91, 100, 101, 108, 110, 121, 131, 144], "todo": [16, 131, 148, 154, 160], "poster": 17, "resourc": [17, 24, 28, 46, 105], "bale": 17, "rossmanith": 17, "siam": [17, 24, 25, 91, 131], "sci": 17, "24": [17, 32, 51, 133], "2002": 17, "955": [17, 133], "978": 17, "author": [17, 25, 45, 48, 87, 91, 92, 97, 109], "1989": 17, "hydrodynam": 17, "phy": 17, "82": 17, "64": [17, 89, 94, 102], "84": [17, 51], "34": [17, 51, 59, 91], "2011": [17, 24, 81], "pp": 17, "1195": 17, "1206": 17, "adv": 17, "awr11": 17, "1998": 17, "anal": 17, "35": [17, 32, 53, 70, 91], "2298": 17, "2316": 17, "1984": 17, "partial": [17, 73, 108], "differenti": [17, 30], "53": 17, "484": 17, "512": 17, "rigoutso": 17, "1991": 17, "ieee": 17, "tran": 17, "sy": [17, 39, 66, 86, 141, 143], "man": [17, 25, 45, 48, 142, 146, 147], "cyber": 17, "21": [17, 67, 87, 89, 117, 118, 129], "1278": 17, "1286": 17, "2018": [17, 24, 54, 121, 122, 129], "phd": 17, "thesi": [17, 99], "pure": [17, 52, 79, 89, 91, 92, 94, 99, 111, 132], "appl": 17, "geophi": 17, "173": 17, "4055": 17, "4074": 17, "info": [17, 29, 30, 33, 44, 55, 59, 67, 86, 89, 93, 99, 119, 140, 141, 148], "analysi": 17, "evalu": [17, 27, 30, 64, 83, 89, 99, 154, 157], "preprint": 17, "2000": [17, 53, 152, 154], "165": [17, 151], "126": [17, 154], "166": 17, "leveque96": 17, "1996": 17, "advect": [17, 77, 91, 94, 131, 132, 143, 157], "incompress": 17, "leveque1996": 17, "33": [17, 89, 133], "627": 17, "665": 17, "1997": [17, 91], "multi": [17, 51, 83, 113, 115, 118, 121, 157], "131": [17, 91], 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110, 111, 116, 118, 119, 121, 126, 129, 142, 148, 152], "dev": [18, 24, 28, 54, 55, 94, 121, 122, 127, 128, 129], "binary32": [18, 92], "ascii": [18, 44, 53, 67, 83, 86, 93, 98, 119, 130, 139, 141, 143, 152, 158], "binary64": [18, 92], "dump": [18, 72, 139], "raw": [18, 139], "float64": 18, "kind": [18, 86, 88, 93, 123, 131], "trucat": 18, "float32": 18, "signific": [18, 64, 129, 134, 154], "post": [18, 24, 25, 26, 28, 51, 94, 127, 128, 144], "process": [18, 25, 35, 36, 45, 51, 52, 70, 83, 88, 89, 94, 100, 101, 104, 111, 119, 155], "fgout": [18, 59], "diff": [18, 50, 55, 113, 114, 115, 116, 117, 118, 119, 120, 121, 122, 123, 124, 125, 126, 127, 128], "raster": [18, 51, 53, 152], "greatli": [18, 26, 81, 134], "size": [18, 20, 30, 39, 44, 51, 59, 71, 72, 76, 89, 92, 94, 99, 119, 124, 140, 141, 143, 152, 154], "savefig": [18, 59], "filenam": [18, 31, 51, 117, 154], "svg": 18, "label": [18, 30, 49, 51, 53, 59, 117, 133, 152, 154], "graphic": [18, 23, 28, 52, 67, 76], "field": [18, 44, 59, 96, 98, 101, 119, 121, 148, 149], "pcolor_kwarg": 18, "turn": [18, 44, 46, 48, 59, 74, 77, 93, 111, 118, 124], "286": 18, "jsanim": [18, 113, 117], "to_jshtml": 18, "affect": [18, 22, 62, 119, 120, 126, 139, 152, 155], "particl": [18, 25, 45, 124], "track": [18, 24, 25, 28, 32, 33, 45, 51, 54, 56, 58, 71, 83, 91, 104, 111, 113, 122, 124, 127, 132, 142, 148], "monitor": [18, 22, 25, 33, 34, 38, 45, 66, 71, 114, 116, 119], "fixedgrid": [18, 142], "chile2010_fgmax": [18, 32], "file_prefix": [18, 92, 98], "file_format": [18, 44, 92, 98, 148], "older": [18, 22, 41, 52, 54, 57, 58, 99, 125, 140, 142], "changelog": [18, 22, 112, 113, 114, 115, 116, 117, 118, 119, 120, 121, 122, 123, 124, 125, 126, 127, 128, 129], "tarfil": [18, 55, 58, 120, 121, 122, 123, 124, 125, 126, 127, 128], "pip": [18, 25, 28, 29, 51, 55, 56, 85, 91, 94, 100, 102, 106, 120, 121, 122, 123, 124, 125, 126, 127, 128, 129, 137], "doc": [18, 23, 24, 28, 30, 51, 55, 87, 104, 105, 106, 120, 121, 122, 123, 124, 125, 126, 127, 128, 145], "docker": [18, 25, 55, 56, 120, 121, 122, 123, 124, 125, 126, 127, 128, 159], "migrat": 19, "intermedi": [19, 32, 70, 157], "easiest": [19, 28, 41, 73, 77, 79, 110, 157], "bulk": [19, 83, 97, 103, 131, 141, 157], "convers": [19, 25, 84, 92, 110, 133, 152, 156], "convert43to46": 19, "inspect": [19, 20, 51], "broken": [19, 20, 28, 68, 70, 111], "renam": [20, 22, 35, 36, 62, 96, 99], "achiev": [20, 84, 146, 147], "convert46to50": 20, "_4": 20, "complet": [20, 22, 28, 47, 62, 79, 83, 84, 94, 104, 111], "delet": [20, 28, 58], "variant": [20, 56, 104, 111], "combin": [20, 54, 59, 118, 156], "properli": [20, 32, 35, 36, 39, 40, 48, 51, 53, 54, 58, 59, 66, 69, 86, 111, 113, 116, 121, 124, 126, 137, 139, 142, 152, 154, 155, 157], "correct": [20, 28, 41, 54, 55, 63, 64, 67, 77, 83, 89, 94, 98, 104, 113, 114, 118, 135, 139, 141, 142, 143], "permut": 20, "th": [20, 22, 44, 131, 157], "reorder": [20, 22], "pattern": [20, 46, 51, 134], "carefulli": [20, 22, 64], "setaux": [20, 22, 63, 84, 113, 114, 131, 139, 141, 143], "sequenc": [20, 22, 63, 66, 94, 100, 103, 104, 111, 113, 120, 131, 157], "maxmx": [20, 84], "maxmi": [20, 84], "maxmz": 20, "longer": [20, 28, 44, 54, 55, 59, 80, 105, 119, 121, 124, 126, 130, 131, 142, 152, 156], "declar": [20, 22, 101, 126, 157], "memori": [20, 22, 71, 72, 73, 83, 86, 93, 101, 126, 140, 141], "alloc": [20, 99, 117, 126, 140], "mx": [20, 22, 53, 72, 84, 94, 97, 131, 141, 152, 157], "resp": [20, 30, 126], "mz": [20, 22], "driver": [20, 63], "led": [20, 122], "homepag": [21, 25], "reorgan": [22, 84, 112, 127], "incorpor": [22, 48, 54, 81, 99, 113, 120, 132, 154], "concern": [22, 45, 140], "evolv": [22, 83, 86, 99], "organ": [22, 23, 35, 36, 86], "assist": [22, 124], "compris": [22, 91, 154], "repositori": [22, 24, 25, 26, 29, 32, 36, 37, 42, 43, 45, 52, 57, 58, 62, 63, 91, 99, 106, 108, 109, 111, 116, 119, 145], "webpag": [22, 24, 35, 36, 42, 46, 51, 55, 62, 122, 134], "issu": [22, 24, 26, 54, 55, 58, 67, 83, 88, 89, 91, 99, 100, 102, 111, 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"befor": 157, "visit": 158, "virtual": 159, "propag": 160, "space": 160, "godunov": 160, "high": 160, "formul": 160, "capac": 160}, "envversion": {"sphinx.domains.c": 2, "sphinx.domains.changeset": 1, "sphinx.domains.citation": 1, "sphinx.domains.cpp": 8, "sphinx.domains.index": 1, "sphinx.domains.javascript": 2, "sphinx.domains.math": 2, "sphinx.domains.python": 3, "sphinx.domains.rst": 2, "sphinx.domains.std": 2, "sphinx": 57}, "alltitles": {"ClawPlotAxes": [[0, "clawplotaxes"]], "Attributes": [[0, "attributes"], [1, "attributes"], [2, "attributes"], [3, "attributes"]], "Methods": [[0, "methods"], [1, "methods"], [2, "methods"], [3, "methods"]], "ClawPlotData": [[1, "clawplotdata"]], "ClawPlotFigure": [[2, "clawplotfigure"]], "ClawPlotItem": [[3, "clawplotitem"]], "Special attributes for all 1d plots, plot_type = \u20181d\u2026\u2019": [[3, "special-attributes-for-all-1d-plots-plot-type-1d"]], "Special attributes for plot_type = \u20181d_plot\u2019": [[3, "special-attributes-for-plot-type-1d-plot"]], "Special attributes for plot_type = \u20181d_fill_between\u2019": [[3, "special-attributes-for-plot-type-1d-fill-between"]], "Special attributes for plot_type = \u20181d_from_2d_data\u2019": [[3, "special-attributes-for-plot-type-1d-from-2d-data"]], "Special attributes for all 2d plots, plot_type = \u20182d\u2026\u2019": [[3, "special-attributes-for-all-2d-plots-plot-type-2d"]], "Special attributes for plot_type = \u20182d_contour\u2019": [[3, "special-attributes-for-plot-type-2d-contour"]], "Special attributes for plot_type = \u20182d_pcolor\u2019": [[3, "special-attributes-for-plot-type-2d-pcolor"]], "AMR Attributes": [[3, "amr-attributes"]], "About this software": [[4, "about-this-software"]], "License": [[4, "license"], [61, "license"], [81, "license"]], "Authors": [[4, "authors"]], "Citing this work": [[4, "citing-this-work"]], "Funding": [[4, "funding"], [81, "funding"]], "Guiding AMR with adjoint flagging": [[5, "guiding-amr-with-adjoint-flagging"]], "Using adjoint flagging in GeoClaw": [[5, "using-adjoint-flagging-in-geoclaw"]], "Adaptive mesh refinement (AMR) algorithms": [[6, "adaptive-mesh-refinement-amr-algorithms"]], "Ghost cells and boundary conditions for AMR": [[6, "ghost-cells-and-boundary-conditions-for-amr"]], "Choosing and initializing finer grids": [[6, "choosing-and-initializing-finer-grids"]], "Flagging cells for refinement": [[6, "flagging-cells-for-refinement"]], "For more details": [[6, "for-more-details"]], "AMRClaw Description and Detailed Contents": [[7, "amrclaw-description-and-detailed-contents"]], "AMRClaw for 1d problems": [[8, "amrclaw-for-1d-problems"]], "Old approach, deprecated:": [[8, "old-approach-deprecated"]], "Doxygen documentation of AMRClaw": [[9, "doxygen-documentation-of-amrclaw"]], "AMRClaw Flowcharts": [[10, "amrclaw-flowcharts"]], "Application documentation": [[11, "application-documentation"]], "Converting README.rst to README.html": [[11, "converting-readme-rst-to-readme-html"]], "Converting code to html with clawcode2html": [[11, "converting-code-to-html-with-clawcode2html"]], "Clawpack Applications repository": [[12, "clawpack-applications-repository"]], "Jupyter Notebooks": [[12, "jupyter-notebooks"]], "Submodules": [[12, "submodules"]], "Examples included with Clawpack": [[12, "examples-included-with-clawpack"]], "Amazon Web Services EC2 Clawpack AMI": [[13, "amazon-web-services-ec2-clawpack-ami"]], "Finding the Clawpack AMI": [[13, "finding-the-clawpack-ami"]], "Launching an instance": [[13, "launching-an-instance"]], "Logging on to your instance": [[13, "logging-on-to-your-instance"]], "Using Clawpack": [[13, "using-clawpack"]], "Viewing plots of results": [[13, "viewing-plots-of-results"]], "Viewing webpages directly from your instance": [[13, "viewing-webpages-directly-from-your-instance"]], "Transferring files to/from your instance": [[13, "transferring-files-to-from-your-instance"]], "Stopping your instance": [[13, "stopping-your-instance"]], "Creating your own AMI": [[13, "creating-your-own-ami"]], "b4run function": [[14, "b4run-function"]], "b4step default routines": [[15, "b4step-default-routines"]], "b4step routine in GeoClaw": [[15, "b4step-routine-in-geoclaw"]], "Boundary conditions": [[16, "boundary-conditions"], [160, "boundary-conditions"]], "Boundary conditions for adaptive refinement": [[16, "boundary-conditions-for-adaptive-refinement"]], "Boundary conditions for GeoClaw": [[16, "boundary-conditions-for-geoclaw"]], "Boundary conditions for clamshell grids on the sphere": [[16, "boundary-conditions-for-clamshell-grids-on-the-sphere"]], "User-defined boundary conditions": [[16, "user-defined-boundary-conditions"]], "Bibliography": [[17, "bibliography"]], "Papers describing the Clawpack software and algorithms": [[17, "papers-describing-the-clawpack-software-and-algorithms"]], "Papers describing applications": [[17, "papers-describing-applications"]], "Other references": [[17, "other-references"]], "Changes to master since v5.8.2": [[18, "changes-to-master-since-v5-8-2"]], "Changes that are not backward compatible": [[18, "changes-that-are-not-backward-compatible"], [121, "changes-that-are-not-backward-compatible"], [122, "changes-that-are-not-backward-compatible"], [123, "changes-that-are-not-backward-compatible"], [124, "changes-that-are-not-backward-compatible"], [125, "changes-that-are-not-backward-compatible"], [126, "changes-that-are-not-backward-compatible"], [127, "changes-that-are-not-backward-compatible"], [128, "changes-that-are-not-backward-compatible"]], "General changes": [[18, "general-changes"], [121, "general-changes"], [122, "general-changes"], [123, "general-changes"], [124, "general-changes"], [125, "general-changes"], [126, "general-changes"], [127, "general-changes"], [128, "general-changes"]], "Changes to classic": [[18, "changes-to-classic"], [113, "changes-to-classic"], [114, "changes-to-classic"], [115, "changes-to-classic"], [116, "changes-to-classic"], [117, "changes-to-classic"], [118, "changes-to-classic"], [119, "changes-to-classic"], [120, "changes-to-classic"], [121, "changes-to-classic"], [122, "changes-to-classic"], [123, "changes-to-classic"], [124, "changes-to-classic"], [125, "changes-to-classic"], [126, "changes-to-classic"], [127, "changes-to-classic"], [128, "changes-to-classic"]], "Changes to clawutil": [[18, "changes-to-clawutil"], [113, "changes-to-clawutil"], [114, "changes-to-clawutil"], [115, "changes-to-clawutil"], [116, "changes-to-clawutil"], [117, "changes-to-clawutil"], [118, "changes-to-clawutil"], [119, "changes-to-clawutil"], [120, "changes-to-clawutil"], [121, "changes-to-clawutil"], [122, "changes-to-clawutil"], [123, "changes-to-clawutil"], [124, "changes-to-clawutil"], [125, "changes-to-clawutil"], [126, "changes-to-clawutil"], [127, "changes-to-clawutil"], [128, "changes-to-clawutil"]], "Changes to visclaw": [[18, "changes-to-visclaw"], [113, "changes-to-visclaw"], [114, "changes-to-visclaw"], [115, "changes-to-visclaw"], [116, "changes-to-visclaw"], [117, "changes-to-visclaw"], [118, "changes-to-visclaw"], [119, "changes-to-visclaw"], [120, "changes-to-visclaw"], [121, "changes-to-visclaw"], [122, "changes-to-visclaw"], [123, "changes-to-visclaw"], [124, "changes-to-visclaw"], [125, "changes-to-visclaw"], [126, "changes-to-visclaw"], [127, "changes-to-visclaw"], [128, "changes-to-visclaw"]], "Changes to riemann": [[18, "changes-to-riemann"], [113, "changes-to-riemann"], [114, "changes-to-riemann"], [115, "changes-to-riemann"], [116, "changes-to-riemann"], [117, "changes-to-riemann"], [118, "changes-to-riemann"], [119, "changes-to-riemann"], [120, "changes-to-riemann"], [121, "changes-to-riemann"], [122, "changes-to-riemann"], [123, "changes-to-riemann"], [124, "changes-to-riemann"], [125, "changes-to-riemann"], [126, "changes-to-riemann"], [127, "changes-to-riemann"], [128, "changes-to-riemann"]], "Changes to amrclaw": [[18, "changes-to-amrclaw"], [113, "changes-to-amrclaw"], [114, "changes-to-amrclaw"], [115, "changes-to-amrclaw"], [116, "changes-to-amrclaw"], [117, "changes-to-amrclaw"], [118, "changes-to-amrclaw"], [119, "changes-to-amrclaw"], [120, "changes-to-amrclaw"], [121, "changes-to-amrclaw"], [122, "changes-to-amrclaw"], [123, "changes-to-amrclaw"], [124, "changes-to-amrclaw"], [125, "changes-to-amrclaw"], [126, "changes-to-amrclaw"], [127, "changes-to-amrclaw"], [128, "changes-to-amrclaw"]], "Changes to geoclaw": [[18, "changes-to-geoclaw"], [113, "changes-to-geoclaw"], [114, "changes-to-geoclaw"], [115, "changes-to-geoclaw"], [116, "changes-to-geoclaw"], [117, "changes-to-geoclaw"], [118, "changes-to-geoclaw"], [119, "changes-to-geoclaw"], [120, "changes-to-geoclaw"], [121, "changes-to-geoclaw"], [122, "changes-to-geoclaw"], [123, "changes-to-geoclaw"], [124, "changes-to-geoclaw"], [125, "changes-to-geoclaw"], [126, "changes-to-geoclaw"], [127, "changes-to-geoclaw"], [128, "changes-to-geoclaw"]], "Changes to 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"converting-from-clawpack-4-3-to-4-6"]], "Converting from Clawpack 4.6 to 5.0": [[20, "converting-from-clawpack-4-6-to-5-0"]], "Python conversion tool": [[20, "python-conversion-tool"]], "Clawpack 4.x links": [[21, "clawpack-4-x-links"]], "Changes in Clawpack 5.0": [[22, "changes-in-clawpack-5-0"]], "PyClaw in 5.0": [[22, "pyclaw-in-5-0"]], "Fortran package changes": [[22, "fortran-package-changes"]], "Changes to input parameters in setrun.py from 4.x to 5.0": [[22, "changes-to-input-parameters-in-setrun-py-from-4-x-to-5-0"]], "Changes to general parameters": [[22, "changes-to-general-parameters"]], "Changes to AMR parameters": [[22, "changes-to-amr-parameters"]], "Changes to GeoClaw parameters": [[22, "changes-to-geoclaw-parameters"]], "Changes to plotting routines": [[22, "changes-to-plotting-routines"]], "Clawpack components": [[23, "clawpack-components"]], "Other repositories": [[23, "other-repositories"]], "Clawpack Community": [[24, "clawpack-community"]], "User Workshops, Clinics, and Tutorials": [[24, "user-workshops-clinics-and-tutorials"]], "Available for streaming": [[24, "available-for-streaming"]], "Upcoming": [[24, "upcoming"], [24, "id1"]], "Recent": [[24, "recent"]], "Developer Workshops and Sprint Sessions": [[24, "developer-workshops-and-sprint-sessions"]], "Previous": [[24, "previous"]], "Other Clawpack events": [[24, "other-clawpack-events"]], "Contents": [[25, "id1"], [28, "contents"], [39, "contents"], [66, "contents"], [77, "contents"], [83, "contents"], [93, "contents"], [99, "contents"], [111, "contents"], [133, "contents"]], "Full Table of Contents": [[25, "full-table-of-contents"]], "Overview and Getting Started": [[25, "overview-and-getting-started"]], "Examples and Applications": [[25, "examples-and-applications"]], "Classic, AMRClaw, and GeoClaw": [[25, "classic-amrclaw-and-geoclaw"]], "Using the Fortran codes": [[25, "using-the-fortran-codes"]], "AMRClaw: adaptive mesh refinement": [[25, "amrclaw-adaptive-mesh-refinement"]], "GeoClaw: geophysical flows": [[25, "geoclaw-geophysical-flows"]], "PyClaw": [[25, "pyclaw"], [35, "pyclaw"], [91, "pyclaw"], [111, "pyclaw"], [150, "pyclaw"]], "Riemann": [[25, "riemann"]], "VisClaw: Plotting and Visualization Tools": [[25, "visclaw-plotting-and-visualization-tools"]], "Migrating applications from older versions of Clawpack": [[25, "migrating-applications-from-older-versions-of-clawpack"]], "Developers\u2019 resources": [[25, "developers-resources"]], "References": [[25, "references"], [52, "references"]], "Contributing examples and applications": [[26, "contributing-examples-and-applications"]], "current_data": [[27, "current-data"]], "Attributes of current_data:": [[27, "attributes-of-current-data"]], "Developers\u2019 Guide": [[28, "developers-guide"]], "Guidelines for contributing": [[28, "guidelines-for-contributing"]], "Reporting and fixing bugs": [[28, "reporting-and-fixing-bugs"]], "Developer communication": [[28, "developer-communication"]], "Installation instructions for developers": [[28, "installation-instructions-for-developers"]], "Cloning the most recent code from Github": [[28, "cloning-the-most-recent-code-from-github"]], "Checking out the master branch on each repository": [[28, "checking-out-the-master-branch-on-each-repository"]], "Updating to the latest master branch": [[28, "updating-to-the-latest-master-branch"]], "Never commit to master": [[28, "never-commit-to-master"]], "Adding your fork as a remote": [[28, "adding-your-fork-as-a-remote"]], "Modifying code": [[28, "modifying-code"]], "Issuing a pull request": [[28, "issuing-a-pull-request"]], "Testing a pull request": [[28, "testing-a-pull-request"]], "Top-level pull requests": [[28, "top-level-pull-requests"]], "Git workflow": [[28, "git-workflow"]], "Catching errors with Pyflakes and Pylint": [[28, "catching-errors-with-pyflakes-and-pylint"]], "Checking test coverage": [[28, "checking-test-coverage"]], "Trouble-Shooting Tips": [[28, "trouble-shooting-tips"]], "Docker for Clawpack": [[29, "docker-for-clawpack"]], "Using Version 5.8.0 or above": [[29, "using-version-5-8-0-or-above"]], "Getting started": [[29, "getting-started"]], "A better image for GeoClaw users": [[29, "a-better-image-for-geoclaw-users"]], "Stopping a container": [[29, "stopping-a-container"]], "Restarting a container": [[29, "restarting-a-container"]], "Running Jupyter notebooks": [[29, "running-jupyter-notebooks"]], "Moving files between the docker container and the host machine": [[29, "moving-files-between-the-docker-container-and-the-host-machine"]], "Some other useful docker commands": [[29, "some-other-useful-docker-commands"]], "Creating your own docker image": [[29, "creating-your-own-docker-image"]], "Dockerfiles for binder": [[29, "dockerfiles-for-binder"]], "dtopotools module for moving topography": [[30, "dtopotools-module-for-moving-topography"]], "Documentation auto-generated from the module docstrings": [[30, "module-clawpack.geoclaw.dtopotools"], [33, "module-clawpack.geoclaw.fgmax_tools"], [47, "module-clawpack.geoclaw.util"], [59, "module-clawpack.geoclaw.kmltools"], [154, "module-clawpack.geoclaw.topotools"]], "Fortran 77 vs. Fortran 90 files": [[31, "fortran-77-vs-fortran-90-files"]], "Fixed grid monitoring": [[32, "fixed-grid-monitoring"]], "Input file specification": [[32, "input-file-specification"]], "Different point styles": [[32, "different-point-styles"]], "Other attributes": [[32, "other-attributes"]], "Values to monitor": [[32, "values-to-monitor"]], "Choice of interpolation procedure": [[32, "choice-of-interpolation-procedure"]], "A simple example": [[32, "a-simple-example"]], "Processing and plotting fgmax output": [[32, "processing-and-plotting-fgmax-output"]], "Format of the output files": [[32, "format-of-the-output-files"]], "fgmax_tools module for working with topography data": [[33, "fgmax-tools-module-for-working-with-topography-data"]], "Fixed grid output": [[34, "fixed-grid-output"]], "Running an example": [[35, "running-an-example"], [36, "running-an-example"], [37, "running-an-example"]], "Classic": [[35, "classic"], [36, "classic"], [150, "classic"]], "Testing your Fortran installation and running an example": [[36, "testing-your-fortran-installation-and-running-an-example"]], "More examples": [[36, "more-examples"]], "Testing a PyClaw installation and running an example": [[37, "testing-a-pyclaw-installation-and-running-an-example"]], "From the Jupyter notebook": [[37, "from-the-jupyter-notebook"]], "From the IPython interpreter": [[37, "from-the-ipython-interpreter"]], "From the command line": [[37, "from-the-command-line"], [88, "from-the-command-line"]], "Specifying flagregions for adaptive refinement": [[38, "specifying-flagregions-for-adaptive-refinement"]], "Using ruled rectangles as flagregions": [[38, "using-ruled-rectangles-as-flagregions"]], "Force Cells to be Dry Initially": [[39, "force-cells-to-be-dry-initially"]], "Examples": [[39, "examples"], [44, "examples"], [66, "examples"], [91, "examples"], [133, "examples"]], "Sample topography from a 1/3 arcsecond DEM": [[39, "sample-topography-from-a-1-3-arcsecond-dem"], [66, "sample-topography-from-a-1-3-arcsecond-dem"]], "Creating the force_dry_init array": [[39, "creating-the-force-dry-init-array"]], "Create file to read into GeoClaw": [[39, "create-file-to-read-into-geoclaw"]], "Usage in GeoClaw Fortran code": [[39, "usage-in-geoclaw-fortran-code"]], "Internal GeoClaw modifications": [[39, "internal-geoclaw-modifications"]], "Fortran version": [[40, "fortran-version"]], "Makefiles": [[40, "makefiles"]], "More tips": [[40, "more-tips"]], "Fortran Compilers": [[41, "fortran-compilers"]], "FC environment variable": [[41, "fc-environment-variable"]], "FFLAGS environment variable": [[41, "fflags-environment-variable"]], "LFLAGS environment variable": [[41, "lflags-environment-variable"]], "Pre-Processor and the PPFLAGS environment variable": [[41, "pre-processor-and-the-ppflags-environment-variable"]], "gfortran compiler": [[41, "gfortran-compiler"]], "Intel fortran compiler": [[41, "intel-fortran-compiler"]], "Examples from the book FVMHP": [[42, "examples-from-the-book-fvmhp"]], "Available examples": [[42, "available-examples"]], "Clawpack Gallery": [[43, "clawpack-gallery"]], "Gauges": [[44, "gauges"]], "Gauge parameters in setrun": [[44, "gauge-parameters-in-setrun"]], "Plotting tools": [[44, "plotting-tools"]], "Plotting gauge locations": [[44, "plotting-gauge-locations"]], "GeoClaw Description and Detailed Contents": [[45, "geoclaw-description-and-detailed-contents"]], "Getting started with GeoClaw": [[46, "getting-started-with-geoclaw"]], "Running a GeoClaw code": [[46, "running-a-geoclaw-code"]], "Topography": [[46, "topography"]], "Plotting GeoClaw results": [[46, "plotting-geoclaw-results"]], "Setting up a new example": [[46, "setting-up-a-new-example"]], "geoclaw.util module of utility functions": [[47, "geoclaw-util-module-of-utility-functions"]], "Cautionary Hints on using GeoClaw": [[48, "cautionary-hints-on-using-geoclaw"]], "Tsunami hazard modeling": [[48, "tsunami-hazard-modeling"]], "GeoClaw plotting tools": [[49, "geoclaw-plotting-tools"]], "Plotting water depth or surface elevation": [[49, "plotting-water-depth-or-surface-elevation"]], "Tips on latitude-longitude coordinate axes": [[49, "tips-on-latitude-longitude-coordinate-axes"]], "Keeping track of repository versions with Git": [[50, "keeping-track-of-repository-versions-with-git"]], "Visualizing GeoClaw results in Google Earth": [[51, "visualizing-geoclaw-results-in-google-earth"]], "Basic requirements": [[51, "basic-requirements"]], "Optional GDAL library": [[51, "optional-gdal-library"]], "An example : The Chile 2010 tsunami event": [[51, "an-example-the-chile-2010-tsunami-event"]], "Plotting attributes needed for Google Earth": [[51, "plotting-attributes-needed-for-google-earth"]], "plotdata attributes": [[51, "plotdata-attributes"]], "plotfigure attributes": [[51, "plotfigure-attributes"]], "Creating the figures": [[51, "creating-the-figures"]], "plotaxes attributes": [[51, "plotaxes-attributes"]], "plotitem attributes": [[51, "plotitem-attributes"]], "Adding a colorbar overlay": [[51, "adding-a-colorbar-overlay"]], "Gauge plots": [[51, "gauge-plots"]], "Additional plotdata attributes": [[51, "additional-plotdata-attributes"]], "Plotting tips": [[51, "plotting-tips"]], "KML and KMZ files": [[51, "kml-and-kmz-files"]], "Tiling images for faster loading": [[51, "tiling-images-for-faster-loading"]], "Removing aliasing artifacts": [[51, "removing-aliasing-artifacts"]], "Creating multiple figures at different resolutions": [[51, "creating-multiple-figures-at-different-resolutions"]], "Mapping topography data to latitude/longitude coordinates": [[51, "mapping-topography-data-to-latitude-longitude-coordinates"]], "Publishing your results": [[51, "id1"]], "Using the GPU version of Clawpack": [[52, "using-the-gpu-version-of-clawpack"]], "Grid registration": [[53, "grid-registration"]], "NetCDF files": [[53, "netcdf-files"]], "Guide for updating this documentation": [[54, "guide-for-updating-this-documentation"]], "Git branches and tags": [[54, "git-branches-and-tags"]], "Configuration and style files": [[54, "configuration-and-style-files"]], "Updating the docs for a new release": [[54, "updating-the-docs-for-a-new-release"]], "To generate docs including previous versions": [[54, "to-generate-docs-including-previous-versions"]], "Updating the gallery": [[54, "updating-the-gallery"]], "Updating the webpages": [[54, "updating-the-webpages"]], "Extra files for webpages not built by Sphinx": [[54, "extra-files-for-webpages-not-built-by-sphinx"]], "Pages from other clawpack repositories": [[54, "pages-from-other-clawpack-repositories"]], "Guide for doing a Clawpack release": [[55, "guide-for-doing-a-clawpack-release"]], "Preparation": [[55, "preparation"]], "Version numbers": [[55, "version-numbers"]], "Release candidates": [[55, "release-candidates"]], "Create a tar file and a Github release": [[55, "create-a-tar-file-and-a-github-release"]], "Final release": [[55, "final-release"]], "Pypi": [[55, "pypi"]], "Zenodo": [[55, "zenodo"]], "Open Science Framework (OSF)": [[55, "open-science-framework-osf"]], "Updating the documentation": [[55, "updating-the-documentation"]], "Updating the apps repository": [[55, "updating-the-apps-repository"]], "Updating the Dockerfile": [[55, "updating-the-dockerfile"]], "Installing Clawpack": [[56, "installing-clawpack"]], "Next steps:": [[56, "next-steps"], [57, "next-steps"], [58, "next-steps"]], "Options for installing Clawpack Fortran codes": [[57, "options-for-installing-clawpack-fortran-codes"]], "tar file": [[57, "tar-file"]], "git clone": [[57, "git-clone"]], "pip install instructions": [[58, "pip-install-instructions"]], "Quick Installation of PyClaw with pip": [[58, "quick-installation-of-pyclaw-with-pip"]], "Quick Installation of all packages with pip": [[58, "quick-installation-of-all-packages-with-pip"]], "Using pip to install a different version": [[58, "using-pip-to-install-a-different-version"]], "Experimenting with code in the examples directories": [[58, "experimenting-with-code-in-the-examples-directories"]], "Troubleshooting pip install": [[58, "troubleshooting-pip-install"]], "kmltools module of utility functions": [[59, "kmltools-module-of-utility-functions"]], "Lagrangian gauges for particle tracking": [[60, "lagrangian-gauges-for-particle-tracking"]], "Specifying Lagrangian Gauges": [[60, "specifying-lagrangian-gauges"]], "Visclaw tools for plotting": [[60, "visclaw-tools-for-plotting"]], "Clawpack Makefiles": [[62, "clawpack-makefiles"]], "Applications directory Makefiles": [[62, "applications-directory-makefiles"]], "output": [[62, "output"]], "plots": [[62, "plots"]], "Variables": [[62, "variables"]], "Compiler flags": [[62, "compiler-flags"]], "Duplicate Base Source Name": [[62, "duplicate-base-source-name"]], "Library routines in Makefiles": [[63, "library-routines-in-makefiles"]], "Replacing files with the same name as library files": [[63, "replacing-files-with-the-same-name-as-library-files"]], "Using a modified library routine with a different name": [[63, "using-a-modified-library-routine-with-a-different-name"]], "Manning friction term": [[64, "manning-friction-term"]], "The mapc2p function": [[65, "the-mapc2p-function"]], "Marching Front algorithm": [[66, "marching-front-algorithm"]], "Function arguments": [[66, "function-arguments"]], "output array": [[66, "output-array"]], "creating a masked array": [[66, "creating-a-masked-array"]], "topofile mask for initializing dry points": [[66, "topofile-mask-for-initializing-dry-points"]], "fgmax points": [[66, "fgmax-points"]], "flag regions": [[66, "flag-regions"]], "The mask argument": [[66, "the-mask-argument"]], "The previous_pts_chosen argument": [[66, "the-previous-pts-chosen-argument"]], "Finding all points below a given elevation": [[66, "finding-all-points-below-a-given-elevation"]], "Create a buffer zone along shore": [[66, "create-a-buffer-zone-along-shore"]], "Choose points only near shore": [[66, "choose-points-only-near-shore"]], "Write out the masked array indicating fgmax points": [[66, "write-out-the-masked-array-indicating-fgmax-points"]], "Creating an AMR flag region": [[66, "creating-an-amr-flag-region"]], "Determining dry areas below MHW": [[66, "determining-dry-areas-below-mhw"]], "Plotting using Matlab": [[67, "plotting-using-matlab"]], "The Matlab search path": [[67, "the-matlab-search-path"]], "Creating output files": [[67, "creating-output-files"]], "The plotclaw command": [[67, "the-plotclaw-command"]], "The setplot file": [[67, "the-setplot-file"]], "The afterframe file": [[67, "the-afterframe-file"]], "Getting help": [[67, "getting-help"]], "Trouble shooting": [[67, "trouble-shooting"]], "Output files not found": [[67, "output-files-not-found"]], "MaxFrames not set": [[67, "maxframes-not-set"]], "Switching examples": [[67, "switching-examples"]], "Matlab Gallery": [[67, "matlab-gallery"]], "Using NetCDF output": [[68, "using-netcdf-output"]], "To install netcdf": [[68, "to-install-netcdf"]], "To compile with netcdf": [[68, "to-compile-with-netcdf"]], "To plot the results": [[68, "to-plot-the-results"]], "Creating a new application directory": [[69, "creating-a-new-application-directory"]], "Copying an existing example": [[69, "copying-an-existing-example"]], "Earthquake sources: Fault slip and the Okada model": [[70, "earthquake-sources-fault-slip-and-the-okada-model"]], "Fault slip on rectangular subfaults": [[70, "fault-slip-on-rectangular-subfaults"]], "Okada model": [[70, "okada-model"]], "Kinematic rupture": [[70, "kinematic-rupture"]], "Fault slip on triangular subfaults": [[70, "fault-slip-on-triangular-subfaults"]], "Using OpenMP": [[71, "using-openmp"]], "Using OpenMP with AMR": [[71, "using-openmp-with-amr"]], "Fixed grid output in GeoClaw": [[71, "fixed-grid-output-in-geoclaw"]], "Output data formats": [[72, "output-data-formats"]], "ASCII output data format": [[72, "ascii-output-data-format"]], "fort.t0002": [[72, "fort-t0002"]], "fort.q0002": [[72, "fort-q0002"]], "Raw binary output data format": [[72, "raw-binary-output-data-format"]], "NetCDF output data format": [[72, "netcdf-output-data-format"]], "Output of aux arrays": [[72, "output-of-aux-arrays"]], "Which Clawpack solver should I use?": [[73, "which-clawpack-solver-should-i-use"]], "Installation and user interface": [[73, "installation-and-user-interface"]], "Algorithmic differences": [[73, "algorithmic-differences"]], "Parallel computing": [[73, "parallel-computing"]], "Clawpack Community Photos": [[74, "clawpack-community-photos"]], "2016 Developers\u2019 workshop at University of Washington": [[74, "id1"]], "2015 Developers\u2019 workshop at University of Utah": [[74, "id2"]], "2014 HPC3 workshop at KAUST": [[74, "id3"]], "2013 Claw-Dev workshop at UW": [[74, "id4"]], "2012 HPC3 workshop at KAUST": [[74, "id6"]], "2011 coding sprints at UW": [[74, "coding-sprints-at-uw"]], "2010 GeoClaw hacking UW": [[74, "geoclaw-hacking-uw"]], "Plotting examples": [[75, "plotting-examples"]], "Plotting with Visclaw": [[76, "plotting-with-visclaw"]], "Plotting as post-processing": [[76, "plotting-as-post-processing"]], "Plotting on the fly": [[76, "plotting-on-the-fly"]], "Plotting hints and FAQ": [[77, "plotting-hints-and-faq"]], "What\u2019s the difference between make .plots and make plots ?": [[77, "what-s-the-difference-between-make-plots-and-make-plots"]], "How to plot a something other than a component of q?": [[77, "how-to-plot-a-something-other-than-a-component-of-q"]], "How to add another curve to a plot, e.g. the true solution?": [[77, "how-to-add-another-curve-to-a-plot-e-g-the-true-solution"]], "How to change the title in a plot?": [[77, "how-to-change-the-title-in-a-plot"]], "How to specify outdir, the directory to find fort.* files for plotting?": [[77, "how-to-specify-outdir-the-directory-to-find-fort-files-for-plotting"]], "How to specify a different outdir for some plot item?": [[77, "how-to-specify-a-different-outdir-for-some-plot-item"]], "How to set plot parameters that are not provided as attributes of ClawPlotItem?": [[77, "how-to-set-plot-parameters-that-are-not-provided-as-attributes-of-clawplotitem"]], "How to change the size or background color of a figure?": [[77, "how-to-change-the-size-or-background-color-of-a-figure"]], "Specifying colormaps for pcolor or contourf plots": [[77, "specifying-colormaps-for-pcolor-or-contourf-plots"]], "How to debug setplot.py?": [[77, "how-to-debug-setplot-py"]], "Plotting routines for GeoClaw": [[78, "plotting-routines-for-geoclaw"]], "Plotting options in Python": [[79, "plotting-options-in-python"]], "Producing html plots from the command line": [[79, "producing-html-plots-from-the-command-line"]], "Producing a latex file with plots from the command line": [[79, "producing-a-latex-file-with-plots-from-the-command-line"]], "Setting plot parameters with a setplot function": [[79, "setting-plot-parameters-with-a-setplot-function"]], "Interactive plotting with Iplotclaw": [[79, "interactive-plotting-with-iplotclaw"]], "Access to current_data": [[79, "access-to-current-data"]], "printframes": [[79, "printframes"]], "Specifying what and how to plot": [[79, "specifying-what-and-how-to-plot"]], "Installation Prerequisites": [[80, "installation-prerequisites"]], "Operating system": [[80, "operating-system"]], "Fortran": [[80, "fortran"]], "Python": [[80, "python"]], "pip": [[80, "pip"]], "Git": [[80, "git"]], "About PyClaw": [[81, "about-pyclaw"]], "Contributors": [[81, "contributors"]], "PyClaw Basics": [[82, "pyclaw-basics"]], "Understanding Pyclaw Classes": [[83, "understanding-pyclaw-classes"]], "Flow of a Pyclaw Simulation": [[83, "flow-of-a-pyclaw-simulation"]], "Creation of a Pyclaw Solution": [[83, "creation-of-a-pyclaw-solution"]], "Creation of a Pyclaw Solver": [[83, "creation-of-a-pyclaw-solver"]], "Creating and Running a Simulation with Controller": [[83, "creating-and-running-a-simulation-with-controller"]], "Restarting a simulation": [[83, "restarting-a-simulation"]], "Outputting aux values": [[83, "outputting-aux-values"]], "Outputting derived quantities": [[83, "outputting-derived-quantities"], [93, "outputting-derived-quantities"]], "Porting a problem from Clawpack 4.6.x to PyClaw": [[84, "porting-a-problem-from-clawpack-4-6-x-to-pyclaw"]], "Running PyClaw in the cloud": [[85, "running-pyclaw-in-the-cloud"]], "Sage Math Cloud": [[85, "sage-math-cloud"]], "Pyclaw Controller Class": [[86, "pyclaw-controller-class"]], "pyclaw.controller.Controller": [[86, "pyclaw-controller-controller"]], "Pyclaw Limiters": [[87, "pyclaw-limiters"]], "clawpack.pyclaw.limiters.tvd": [[87, "module-clawpack.pyclaw.limiters.tvd"]], "CFL Independent Limiters": [[87, "cfl-independent-limiters"]], "CFL Dependent Limiters": [[87, "cfl-dependent-limiters"]], "Working with PyClaw\u2019s built-in examples": [[88, "working-with-pyclaw-s-built-in-examples"]], "Running and plotting examples": [[88, "running-and-plotting-examples"]], "Interactively in IPython": [[88, "interactively-in-ipython"]], "Built-in examples": [[88, "built-in-examples"]], "Adding new examples": [[88, "adding-new-examples"]], "PyClaw Geometry": [[89, "pyclaw-geometry"]], "Serial Geometry Objects": [[89, "serial-geometry-objects"]], "pyclaw.geometry.Domain": [[89, "pyclaw-geometry-domain"]], "pyclaw.geometry.Patch": [[89, "pyclaw-geometry-patch"]], "pyclaw.geometry.Grid": [[89, "pyclaw-geometry-grid"]], "pyclaw.geometry.Dimension": [[89, "pyclaw-geometry-dimension"]], "Parallel Geometry Objects": [[89, "parallel-geometry-objects"]], "petclaw.geometry.Domain": [[89, "petclaw-geometry-domain"]], "petclaw.geometry.Patch": [[89, "petclaw-geometry-patch"]], "Going Further": [[90, "going-further"]], "PyClaw installation": [[91, "pyclaw-installation"]], "Features": [[91, "features"]], "PyClaw Documentation": [[91, "pyclaw-documentation"]], "PyClaw Modules reference documentation": [[91, "pyclaw-modules-reference-documentation"]], "Riemann Solvers reference documentation": [[91, "riemann-solvers-reference-documentation"]], "Indices and tables": [[91, "indices-and-tables"]], "Citing PyClaw": [[91, "citing-pyclaw"]], "Pyclaw Input/Output Package": [[92, "pyclaw-input-output-package"]], "pyclaw.fileio.ascii": [[92, "module-clawpack.pyclaw.fileio.ascii"]], "pyclaw.fileio.hdf5": [[92, "pyclaw-fileio-hdf5"]], "pyclaw.fileio.netcdf": [[92, "module-clawpack.pyclaw.fileio.netcdf"]], "PyClaw output": [[93, "pyclaw-output"]], "Output frames": [[93, "output-frames"]], "When output is saved/written": [[93, "when-output-is-saved-written"]], "Where and how output is written": [[93, "where-and-how-output-is-written"]], "What output is written": [[93, "what-output-is-written"]], "Outputting functionals": [[93, "outputting-functionals"]], "Using gauges": [[93, "using-gauges"]], "Logging": [[93, "logging"]], "Running in parallel": [[94, "running-in-parallel"]], "Installing PETSc": [[94, "installing-petsc"]], "Testing your installation": [[94, "testing-your-installation"], [150, "testing-your-installation"]], "Running and plotting an example": [[94, "running-and-plotting-an-example"]], "Tips for making your application run correctly in parallel": [[94, "tips-for-making-your-application-run-correctly-in-parallel"]], "Passing options to PETSc": [[94, "passing-options-to-petsc"]], "Plotting PyClaw results": [[95, "plotting-pyclaw-results"]], "Basics": [[95, "basics"]], "Plotting result from parallel runs": [[95, "plotting-result-from-parallel-runs"]], "Setting up your own problem": [[96, "setting-up-your-own-problem"]], "Writing the initialization script": [[96, "writing-the-initialization-script"]], "Setting initial conditions": [[96, "setting-initial-conditions"]], "Setting auxiliary variables": [[96, "setting-auxiliary-variables"]], "Setting boundary conditions": [[96, "setting-boundary-conditions"]], "Setting solver options": [[96, "setting-solver-options"]], "Using your own Riemann solver": [[96, "using-your-own-riemann-solver"]], "Adding source terms": [[96, "adding-source-terms"]], "Setting up the Makefile": [[96, "setting-up-the-makefile"]], "Riemann Solver Package": [[97, "riemann-solver-package"]], "Acoustics": [[97, "acoustics"]], "Advection": [[97, "advection"]], "Burgers Equation": [[97, "burgers-equation"]], "Euler Equations": [[97, "euler-equations"]], "Shallow Water Equations": [[97, "shallow-water-equations"]], "PyClaw Solutions": [[98, "pyclaw-solutions"]], "pyclaw.solution.Solution": [[98, "pyclaw-solution-solution"]], "Using PyClaw\u2019s solvers: Classic and SharpClaw": [[99, "using-pyclaw-s-solvers-classic-and-sharpclaw"]], "SharpClaw Solvers": [[99, "sharpclaw-solvers"]], "pyclaw.sharpclaw": [[99, "pyclaw-sharpclaw"]], "Pyclaw Classic Clawpack Solvers": [[99, "pyclaw-classic-clawpack-solvers"]], "pyclaw.classic.solver": [[99, "pyclaw-classic-solver"]], "Change to Custom BC Function Signatures": [[99, "change-to-custom-bc-function-signatures"]], "Installing PyClaw": [[100, "installing-pyclaw"]], "Dependencies: Python, gfortran, numpy, and matplotlib": [[100, "dependencies-python-gfortran-numpy-and-matplotlib"]], "Obtaining Python, numpy, and matplotlib": [[100, "obtaining-python-numpy-and-matplotlib"]], "Clawpack": [[100, "clawpack"]], "Testing your installation with nose": [[100, "testing-your-installation-with-nose"]], "Next steps": [[100, "next-steps"]], "PyClaw State": [[101, "pyclaw-state"]], "Serial pyclaw.state.State": [[101, "serial-pyclaw-state-state"]], "Parallel petclaw.state.State": [[101, "parallel-petclaw-state-state"]], "Troubleshooting": [[102, "troubleshooting"], [155, "troubleshooting"]], "Compilation errors": [[102, "compilation-errors"]], "Use Fortran-ordered arrays": [[102, "use-fortran-ordered-arrays"]], "Installation": [[102, "installation"]], "PyClaw tutorial: Solve the acoustics equations": [[103, "pyclaw-tutorial-solve-the-acoustics-equations"]], "The Solver": [[103, "the-solver"]], "The domain": [[103, "the-domain"]], "Initial condition": [[103, "initial-condition"]], "Problem-specific parameters": [[103, "problem-specific-parameters"]], "The controller": [[103, "the-controller"]], "Pyclaw Utility Module": [[104, "pyclaw-utility-module"]], "pyclaw.util": [[104, "module-clawpack.pyclaw.util"]], "Python Hints": [[105, "python-hints"]], "Dropping support for Python 2.7": [[105, "dropping-support-for-python-2-7"]], "References and tutorials": [[105, "references-and-tutorials"]], "Notebooks": [[105, "notebooks"]], "Python path": [[106, "python-path"]], "whichclaw.py": [[106, "whichclaw-py"]], "Which version was imported?": [[106, "which-version-was-imported"]], "sys.path": [[106, "sys-path"]], "easy-install.pth": [[106, "easy-install-pth"]], "PYTHONPATH": [[106, "pythonpath"], [137, "pythonpath"]], "qinit default routines": [[107, "qinit-default-routines"]], "qinit routine in GeoClaw": [[107, "qinit-routine-in-geoclaw"]], "Quick start guide for storm surge modeling": [[108, "quick-start-guide-for-storm-surge-modeling"]], "Quick start guide for tsunami modeling": [[109, "quick-start-guide-for-tsunami-modeling"]], "AMR refinement criteria": [[110, "amr-refinement-criteria"]], "Flagging criteria": [[110, "flagging-criteria"]], "flag2refine": [[110, "flag2refine"]], "Richardson extrapolation": [[110, "richardson-extrapolation"]], "Specifying AMR regions": [[110, "specifying-amr-regions"]], "Implementation": [[110, "implementation"]], "Flagging criteria in GeoClaw": [[110, "flagging-criteria-in-geoclaw"]], "Regression testing": [[111, "regression-testing"]], "Running the tests": [[111, "running-the-tests"], [111, "id2"]], "Fortran codes": [[111, "fortran-codes"]], "Travis continuous integration": [[111, "travis-continuous-integration"]], "Diff tools for checking test output": [[111, "diff-tools-for-checking-test-output"]], "chardiff tool for line-by-line comparison of output files": [[111, "chardiff-tool-for-line-by-line-comparison-of-output-files"]], "imagediff tool for pixel comparison of plots": [[111, "imagediff-tool-for-pixel-comparison-of-plots"]], "Running and writing tests in PyClaw": [[111, "running-and-writing-tests-in-pyclaw"]], "Running serial tests simultaneously": [[111, "running-serial-tests-simultaneously"]], "Running a specific test": [[111, "running-a-specific-test"]], "Doctests": [[111, "doctests"]], "Writing New Tests": [[111, "writing-new-tests"]], "v5.0.0 release notes": [[112, "v5-0-0-release-notes"]], "Changes to classic, riemann, amrclaw, geoclaw, visclaw": [[112, "changes-to-classic-riemann-amrclaw-geoclaw-visclaw"]], "v5.1.0 release notes": [[113, "v5-1-0-release-notes"]], "v5.2.0 release notes": [[114, "v5-2-0-release-notes"]], "v5.2.1 release notes": [[115, "v5-2-1-release-notes"]], "v5.2.2 release notes": [[116, "v5-2-2-release-notes"]], "v5.3.0 release notes": [[117, "v5-3-0-release-notes"]], "v5.3.1 release notes": [[118, "v5-3-1-release-notes"]], "v5.4.0 release notes": [[119, "v5-4-0-release-notes"]], "Global changes": [[119, "global-changes"]], "v5.4.1 release notes": [[120, "v5-4-1-release-notes"]], "Changes to documentation": [[120, "changes-to-documentation"], [121, "changes-to-documentation"]], "v5.5.0 release notes": [[121, "v5-5-0-release-notes"]], "v5.6.0 release notes": [[122, "v5-6-0-release-notes"]], "v5.6.1 release notes": [[123, "v5-6-1-release-notes"]], "v5.7.0 release notes": [[124, "v5-7-0-release-notes"]], "Python support": [[124, "python-support"]], "v5.7.1 release notes": [[125, "v5-7-1-release-notes"]], "v5.8.0 release notes": [[126, "v5-8-0-release-notes"]], "v5.8.1 release notes": [[127, "v5-8-1-release-notes"]], "v5.8.2 release notes": [[128, "v5-8-2-release-notes"]], "Releases of Clawpack and release notes": [[129, "releases-of-clawpack-and-release-notes"]], "Other notes:": [[129, "other-notes"]], "Releases:": [[129, "id1"]], "Clawpack 4.x": [[129, "clawpack-4-x"]], "Checkpointing and restarting": [[130, "checkpointing-and-restarting"]], "Checkpointing a computation": [[130, "checkpointing-a-computation"]], "Restarting a computation": [[130, "restarting-a-computation"]], "Modifying the Makefile for a restart": [[130, "modifying-the-makefile-for-a-restart"]], "Output files after a restart": [[130, "output-files-after-a-restart"]], "Riemann solvers": [[131, "riemann-solvers"]], "One-dimensional Riemann solver": [[131, "one-dimensional-riemann-solver"]], "Pointwise Riemann solvers": [[131, "pointwise-riemann-solvers"]], "f-wave Riemann solvers": [[131, "f-wave-riemann-solvers"]], "2D Riemann solvers": [[131, "d-riemann-solvers"]], "Using a custom solver": [[131, "using-a-custom-solver"]], "Adding a solver to the Riemann repository": [[131, "adding-a-solver-to-the-riemann-repository"]], "Shallow water Riemann solvers in Clawpack": [[132, "shallow-water-riemann-solvers-in-clawpack"]], "One dimension": [[132, "one-dimension"]], "Two dimensions": [[132, "two-dimensions"]], "Layered shallow water equations": [[132, "layered-shallow-water-equations"]], "Potentially useful contributions (what\u2019s missing)": [[132, "potentially-useful-contributions-whats-missing"]], "Demonstrations": [[132, "demonstrations"]], "Roe": [[132, "roe"]], "HLL": [[132, "hll"]], "Ruled Rectangles": [[133, "ruled-rectangles"]], "Relation to convex polygons": [[133, "relation-to-convex-polygons"]], "Other attributes and methods": [[133, "other-attributes-and-methods"]], "ds": [[133, "ds"]], "slu": [[133, "slu"]], "bounding_box": [[133, "bounding-box"]], "mask_outside": [[133, "mask-outside"]], "read and write, and instantiating from a file": [[133, "read-and-write-and-instantiating-from-a-file"]], "make_kml": [[133, "make-kml"]], "A GeoClaw AMR flag region": [[133, "a-geoclaw-amr-flag-region"]], "A simple rectangle": [[133, "a-simple-rectangle"]], "Defining a Ruled Rectangle covering selected cells": [[133, "defining-a-ruled-rectangle-covering-selected-cells"]], "Example covering the continental shelf": [[133, "example-covering-the-continental-shelf"]], "Setting sea_level": [[134, "setting-sea-level"]], "Set Eta Init \u2013 spatially varying initial surface elevation": [[135, "set-eta-init-spatially-varying-initial-surface-elevation"]], "Default behavior, adjusting sea level by seismic deformation": [[135, "default-behavior-adjusting-sea-level-by-seismic-deformation"]], "Other use cases": [[135, "other-use-cases"]], "setaux default routines": [[136, "setaux-default-routines"]], "setaux routine in GeoClaw": [[136, "setaux-routine-in-geoclaw"]], "Set environment variables": [[137, "set-environment-variables"]], "CLAW": [[137, "claw"]], "FC": [[137, "fc"]], "Using setplot.py to specify the desired plots": [[138, "using-setplot-py-to-specify-the-desired-plots"]], "Plotting Data Objects": [[138, "plotting-data-objects"]], "Overview": [[138, "overview"]], "Specifying classic run-time parameters in setrun.py": [[139, "specifying-classic-run-time-parameters-in-setrun-py"]], "Input": [[139, "input"], [140, "input"]], "Output": [[139, "output"], [140, "output"]], "Run-time parameters": [[139, "run-time-parameters"], [140, "run-time-parameters"]], "Specifying AMRClaw run-time parameters in setrun.py": [[140, "specifying-amrclaw-run-time-parameters-in-setrun-py"]], "Special AMR parameters": [[140, "special-amr-parameters"]], "Debugging flags for additional printing": [[140, "debugging-flags-for-additional-printing"]], "Sample setrun.py module for AMRClaw": [[141, "sample-setrun-py-module-for-amrclaw"]], "Specifying GeoClaw parameters in setrun.py": [[142, "specifying-geoclaw-parameters-in-setrun-py"]], "Additional AMR parameters": [[142, "additional-amr-parameters"]], "General geo parameters": [[142, "general-geo-parameters"]], "Topography data file parameters": [[142, "topography-data-file-parameters"]], "qinit data file parameters": [[142, "qinit-data-file-parameters"]], "AMR refinement region parameters": [[142, "amr-refinement-region-parameters"]], "Fixed grid output parameters": [[142, "fixed-grid-output-parameters"]], "Fixed grid maximum monitoring / arrival times": [[142, "fixed-grid-maximum-monitoring-arrival-times"]], "Storm Specification Data": [[142, "storm-specification-data"]], "Sample setrun.py module for classic Clawpack": [[143, "sample-setrun-py-module-for-classic-clawpack"]], "Saving and sharing results": [[144, "saving-and-sharing-results"]], "Making webpages of plots": [[144, "making-webpages-of-plots"]], "Sharing your results": [[144, "sharing-your-results"]], "Jupyter notebooks": [[144, "jupyter-notebooks"]], "Compiling the Sphinx documentation locally": [[145, "compiling-the-sphinx-documentation-locally"]], "src1d default routines": [[146, "src1d-default-routines"]], "src1d routine in GeoClaw": [[146, "src1d-routine-in-geoclaw"]], "src default routines": [[147, "src-default-routines"]], "src routine in GeoClaw": [[147, "src-routine-in-geoclaw"]], "Storm Specification Class and Tools": [[148, "storm-specification-class-and-tools"]], "Sources for Storm Surge Data": [[149, "sources-for-storm-surge-data"]], "Timing Statistics": [[151, "timing-statistics"]], "Topography data": [[152, "topography-data"]], "Downloading topography files": [[152, "downloading-topography-files"]], "NetCDF format": [[152, "netcdf-format"]], "Topography displacement files": [[152, "topography-displacement-files"]], "qinit data file": [[152, "qinit-data-file"]], "Python tools for working with topo and dtopo": [[153, "python-tools-for-working-with-topo-and-dtopo"]], "topotools module for working with topography data": [[154, "topotools-module-for-working-with-topography-data"]], "Troubleshooting Installation": [[155, "troubleshooting-installation"]], "Troubleshooting Fortran:": [[155, "troubleshooting-fortran"]], "Setting the Fortran compiler to be used by f2py (pip)": [[155, "setting-the-fortran-compiler-to-be-used-by-f2py-pip"]], "Trouble compiling Fortran code at the command line": [[155, "trouble-compiling-fortran-code-at-the-command-line"]], "Trouble running \u201cmake .exe\u201d": [[155, "trouble-running-make-exe"]], "Trouble running \u201cmake .data\u201d": [[155, "trouble-running-make-data"]], "Trouble running \u201cmake .output\u201d": [[155, "trouble-running-make-output"]], "Trouble running \u201cmake .plots\u201d": [[155, "trouble-running-make-plots"]], "Some sources of tsunami data": [[156, "some-sources-of-tsunami-data"]], "Topography / bathymetry": [[156, "topography-bathymetry"]], "Earthquake source models": [[156, "earthquake-source-models"]], "DART buoy data": [[156, "dart-buoy-data"]], "Tide gauges": [[156, "tide-gauges"]], "User files required for the Fortran code": [[157, "user-files-required-for-the-fortran-code"]], "Specifying the initial conditions": [[157, "specifying-the-initial-conditions"]], "Specifying the Riemann solver": [[157, "specifying-the-riemann-solver"]], "Specifying boundary conditions": [[157, "specifying-boundary-conditions"]], "Specifying problem-specific data": [[157, "specifying-problem-specific-data"]], "Specifying spatially-varying data using setaux": [[157, "specifying-spatially-varying-data-using-setaux"]], "Using b4step for work to be done before each time step": [[157, "using-b4step-for-work-to-be-done-before-each-time-step"]], "Using src for source terms": [[157, "using-src-for-source-terms"]], "Using src1d for source terms with AMRClaw": [[157, "using-src1d-for-source-terms-with-amrclaw"]], "Plotting with VisIt": [[158, "plotting-with-visit"]], "Clawpack Virtual Machine": [[159, "clawpack-virtual-machine"]], "Wave-propagation algorithms": [[160, "wave-propagation-algorithms"]], "One space dimension": [[160, "one-space-dimension"]], "Godunov\u2019s method": [[160, "godunov-s-method"]], "High-resolution methods": [[160, "high-resolution-methods"]], "f-wave formulation": [[160, "f-wave-formulation"]], "Capacity functions": [[160, "capacity-functions"]], "Source terms": [[160, "source-terms"]]}, "indexentries": {"clawplotaxes (built-in class)": [[0, "ClawPlotAxes"]], "gethandle()": [[0, "gethandle"], [2, "gethandle"], [3, "gethandle"]], "new_plotitem()": [[0, "new_plotitem"]], "clawplotdata (built-in class)": [[1, "ClawPlotData"]], "clearfigures()": [[1, "clearfigures"]], "clearframes()": [[1, "clearframes"]], "getaxes()": [[1, "getaxes"]], "getfigure()": [[1, "getfigure"]], "getframe()": [[1, "getframe"], [3, "getframe"]], "getitem()": [[1, "getitem"]], "iplotclaw()": [[1, "iplotclaw"]], "new_plotfigure()": [[1, "new_plotfigure"]], "plotframe()": [[1, "plotframe"]], "printframes()": [[1, "printframes"]], "showitems()": [[1, "showitems"]], "clawplotfigure (built-in class)": [[2, "ClawPlotFigure"]], "new_plotaxes()": [[2, "new_plotaxes"]], "clawplotitem (built-in class)": [[3, "ClawPlotItem"]], "csvfault (class in clawpack.geoclaw.dtopotools)": [[30, "clawpack.geoclaw.dtopotools.CSVFault"]], "dtopography (class in clawpack.geoclaw.dtopotools)": [[30, "clawpack.geoclaw.dtopotools.DTopography"]], "fault (class in clawpack.geoclaw.dtopotools)": [[30, "clawpack.geoclaw.dtopotools.Fault"]], "mo() (clawpack.geoclaw.dtopotools.fault method)": [[30, "clawpack.geoclaw.dtopotools.Fault.Mo"]], "mo() (clawpack.geoclaw.dtopotools.subfault method)": [[30, "clawpack.geoclaw.dtopotools.SubFault.Mo"]], "mw() (clawpack.geoclaw.dtopotools.fault method)": [[30, "clawpack.geoclaw.dtopotools.Fault.Mw"]], "mw() (in module clawpack.geoclaw.dtopotools)": [[30, "clawpack.geoclaw.dtopotools.Mw"]], "siftfault (class in clawpack.geoclaw.dtopotools)": [[30, "clawpack.geoclaw.dtopotools.SiftFault"]], "subfault (class in clawpack.geoclaw.dtopotools)": [[30, "clawpack.geoclaw.dtopotools.SubFault"]], "subdividedplanefault (class in clawpack.geoclaw.dtopotools)": [[30, "clawpack.geoclaw.dtopotools.SubdividedPlaneFault"]], "tensorproductfault (class in clawpack.geoclaw.dtopotools)": [[30, "clawpack.geoclaw.dtopotools.TensorProductFault"]], "ucsbfault (class in clawpack.geoclaw.dtopotools)": [[30, "clawpack.geoclaw.dtopotools.UCSBFault"]], "calculate_geometry() (clawpack.geoclaw.dtopotools.subfault method)": [[30, "clawpack.geoclaw.dtopotools.SubFault.calculate_geometry"]], "calculate_geometry_triangles() (clawpack.geoclaw.dtopotools.subfault method)": [[30, "clawpack.geoclaw.dtopotools.SubFault.calculate_geometry_triangles"]], "centers (clawpack.geoclaw.dtopotools.subfault property)": [[30, "clawpack.geoclaw.dtopotools.SubFault.centers"]], "clawpack.geoclaw.dtopotools": [[30, "module-clawpack.geoclaw.dtopotools"]], "containing_rect() (clawpack.geoclaw.dtopotools.fault method)": [[30, "clawpack.geoclaw.dtopotools.Fault.containing_rect"]], "convert_to_standard_units() (clawpack.geoclaw.dtopotools.subfault method)": [[30, "clawpack.geoclaw.dtopotools.SubFault.convert_to_standard_units"]], "coordinate_specification (clawpack.geoclaw.dtopotools.subfault attribute)": [[30, "clawpack.geoclaw.dtopotools.SubFault.coordinate_specification"]], "corners (clawpack.geoclaw.dtopotools.subfault property)": [[30, "clawpack.geoclaw.dtopotools.SubFault.corners"]], "create_dtopo_xy() (clawpack.geoclaw.dtopotools.fault method)": [[30, "clawpack.geoclaw.dtopotools.Fault.create_dtopo_xy"]], "create_dtopography() (clawpack.geoclaw.dtopotools.fault method)": [[30, "clawpack.geoclaw.dtopotools.Fault.create_dtopography"]], "dz_at_t() (clawpack.geoclaw.dtopotools.dtopography method)": [[30, "clawpack.geoclaw.dtopotools.DTopography.dZ_at_t"]], "dz_max() (clawpack.geoclaw.dtopotools.dtopography method)": [[30, "clawpack.geoclaw.dtopotools.DTopography.dZ_max"]], "depth (clawpack.geoclaw.dtopotools.subfault attribute)": [[30, "clawpack.geoclaw.dtopotools.SubFault.depth"]], "dip (clawpack.geoclaw.dtopotools.subfault attribute)": [[30, "clawpack.geoclaw.dtopotools.SubFault.dip"]], "dynamic_slip() (clawpack.geoclaw.dtopotools.subfault method)": [[30, "clawpack.geoclaw.dtopotools.SubFault.dynamic_slip"]], "gauss_pts (clawpack.geoclaw.dtopotools.subfault property)": [[30, "clawpack.geoclaw.dtopotools.SubFault.gauss_pts"]], "latitude (clawpack.geoclaw.dtopotools.subfault attribute)": [[30, "clawpack.geoclaw.dtopotools.SubFault.latitude"]], "length (clawpack.geoclaw.dtopotools.subfault attribute)": [[30, "clawpack.geoclaw.dtopotools.SubFault.length"]], "longitude (clawpack.geoclaw.dtopotools.subfault attribute)": [[30, "clawpack.geoclaw.dtopotools.SubFault.longitude"]], "module": [[30, "module-clawpack.geoclaw.dtopotools"], [33, "module-clawpack.geoclaw.fgmax_tools"], [47, "module-clawpack.geoclaw.util"], [59, "module-clawpack.geoclaw.kmltools"], [87, "module-clawpack.pyclaw.limiters.tvd"], [92, "module-clawpack.pyclaw.fileio.ascii"], [92, "module-clawpack.pyclaw.fileio.netcdf"], [97, "module-clawpack.riemann.acoustics_1D_py"], [97, "module-clawpack.riemann.advection_1D_py"], [97, "module-clawpack.riemann.burgers_1D_py"], [97, "module-clawpack.riemann.euler_1D_py"], [97, "module-clawpack.riemann.shallow_1D_py"], [104, "module-clawpack.pyclaw.util"], [148, "module-clawpack.geoclaw.surge.storm"], [154, "module-clawpack.geoclaw.topotools"]], "mu (clawpack.geoclaw.dtopotools.subfault attribute)": [[30, "clawpack.geoclaw.dtopotools.SubFault.mu"]], "okada() (clawpack.geoclaw.dtopotools.subfault method)": [[30, "clawpack.geoclaw.dtopotools.SubFault.okada"]], "plot_dz_colors() (clawpack.geoclaw.dtopotools.dtopography method)": [[30, "clawpack.geoclaw.dtopotools.DTopography.plot_dZ_colors"]], "plot_dz_colors() (in module clawpack.geoclaw.dtopotools)": [[30, "clawpack.geoclaw.dtopotools.plot_dZ_colors"]], "plot_dz_contours() (clawpack.geoclaw.dtopotools.dtopography method)": [[30, "clawpack.geoclaw.dtopotools.DTopography.plot_dZ_contours"]], "plot_dz_contours() (in module clawpack.geoclaw.dtopotools)": [[30, "clawpack.geoclaw.dtopotools.plot_dZ_contours"]], "plot_subfaults() (clawpack.geoclaw.dtopotools.fault method)": [[30, "clawpack.geoclaw.dtopotools.Fault.plot_subfaults"]], "plot_subfaults_depth() (clawpack.geoclaw.dtopotools.fault method)": [[30, "clawpack.geoclaw.dtopotools.Fault.plot_subfaults_depth"]], "rake (clawpack.geoclaw.dtopotools.subfault attribute)": [[30, "clawpack.geoclaw.dtopotools.SubFault.rake"]], "read() (clawpack.geoclaw.dtopotools.csvfault method)": [[30, "clawpack.geoclaw.dtopotools.CSVFault.read"]], "read() (clawpack.geoclaw.dtopotools.dtopography method)": [[30, "clawpack.geoclaw.dtopotools.DTopography.read"]], "read() (clawpack.geoclaw.dtopotools.fault method)": [[30, "clawpack.geoclaw.dtopotools.Fault.read"]], "read() (clawpack.geoclaw.dtopotools.ucsbfault method)": [[30, "clawpack.geoclaw.dtopotools.UCSBFault.read"]], "rise_fraction() (in module clawpack.geoclaw.dtopotools)": [[30, "clawpack.geoclaw.dtopotools.rise_fraction"]], "rise_shape (clawpack.geoclaw.dtopotools.subfault attribute)": [[30, "clawpack.geoclaw.dtopotools.SubFault.rise_shape"]], "rise_time (clawpack.geoclaw.dtopotools.subfault attribute)": [[30, "clawpack.geoclaw.dtopotools.SubFault.rise_time"]], "rise_time_starting (clawpack.geoclaw.dtopotools.subfault attribute)": [[30, "clawpack.geoclaw.dtopotools.SubFault.rise_time_starting"]], "rupture_time (clawpack.geoclaw.dtopotools.subfault attribute)": [[30, "clawpack.geoclaw.dtopotools.SubFault.rupture_time"]], "rupture_type (clawpack.geoclaw.dtopotools.subfault attribute)": [[30, "clawpack.geoclaw.dtopotools.SubFault.rupture_type"]], "set_corners() (clawpack.geoclaw.dtopotools.subfault method)": [[30, "clawpack.geoclaw.dtopotools.SubFault.set_corners"]], "set_dynamic_slip() (clawpack.geoclaw.dtopotools.fault method)": [[30, "clawpack.geoclaw.dtopotools.Fault.set_dynamic_slip"]], "set_subfaults() (clawpack.geoclaw.dtopotools.siftfault method)": [[30, "clawpack.geoclaw.dtopotools.SiftFault.set_subfaults"]], "slip (clawpack.geoclaw.dtopotools.subfault attribute)": [[30, "clawpack.geoclaw.dtopotools.SubFault.slip"]], "strike (clawpack.geoclaw.dtopotools.subfault attribute)": [[30, "clawpack.geoclaw.dtopotools.SubFault.strike"]], "strike_direction() (in module clawpack.geoclaw.dtopotools)": [[30, "clawpack.geoclaw.dtopotools.strike_direction"]], "subdivide() (clawpack.geoclaw.dtopotools.subdividedplanefault method)": [[30, "clawpack.geoclaw.dtopotools.SubdividedPlaneFault.subdivide"]], "width (clawpack.geoclaw.dtopotools.subfault attribute)": [[30, "clawpack.geoclaw.dtopotools.SubFault.width"]], "write() (clawpack.geoclaw.dtopotools.dtopography method)": [[30, "clawpack.geoclaw.dtopotools.DTopography.write"]], "write() (clawpack.geoclaw.dtopotools.fault method)": [[30, "clawpack.geoclaw.dtopotools.Fault.write"]], "fgmaxgrid (class in clawpack.geoclaw.fgmax_tools)": [[33, "clawpack.geoclaw.fgmax_tools.FGmaxGrid"]], "adjust_fgmax_1d() (in module clawpack.geoclaw.fgmax_tools)": [[33, "clawpack.geoclaw.fgmax_tools.adjust_fgmax_1d"]], "bounding_box() (clawpack.geoclaw.fgmax_tools.fgmaxgrid method)": [[33, "clawpack.geoclaw.fgmax_tools.FGmaxGrid.bounding_box"]], "clawpack.geoclaw.fgmax_tools": [[33, "module-clawpack.geoclaw.fgmax_tools"]], "interp_dz() (clawpack.geoclaw.fgmax_tools.fgmaxgrid method)": [[33, "clawpack.geoclaw.fgmax_tools.FGmaxGrid.interp_dz"]], "ps4_to_arrays() (clawpack.geoclaw.fgmax_tools.fgmaxgrid method)": [[33, "clawpack.geoclaw.fgmax_tools.FGmaxGrid.ps4_to_arrays"]], "read_fgmax_grids_data() (clawpack.geoclaw.fgmax_tools.fgmaxgrid method)": [[33, "clawpack.geoclaw.fgmax_tools.FGmaxGrid.read_fgmax_grids_data"]], "read_output() (clawpack.geoclaw.fgmax_tools.fgmaxgrid method)": [[33, "clawpack.geoclaw.fgmax_tools.FGmaxGrid.read_output"]], "write_to_fgmax_data() (clawpack.geoclaw.fgmax_tools.fgmaxgrid method)": [[33, "clawpack.geoclaw.fgmax_tools.FGmaxGrid.write_to_fgmax_data"]], "bearing() (in module clawpack.geoclaw.util)": [[47, "clawpack.geoclaw.util.bearing"]], "clawpack.geoclaw.util": [[47, "module-clawpack.geoclaw.util"]], "dist_latlong2meters() (in module clawpack.geoclaw.util)": [[47, "clawpack.geoclaw.util.dist_latlong2meters"]], "dist_meters2latlong() (in module clawpack.geoclaw.util)": [[47, "clawpack.geoclaw.util.dist_meters2latlong"]], "dms2decimal() (in module clawpack.geoclaw.util)": [[47, "clawpack.geoclaw.util.dms2decimal"]], "fetch_noaa_tide_data() (in module clawpack.geoclaw.util)": [[47, "clawpack.geoclaw.util.fetch_noaa_tide_data"]], "haversine() (in module clawpack.geoclaw.util)": [[47, "clawpack.geoclaw.util.haversine"]], "inv_haversine() (in module clawpack.geoclaw.util)": [[47, "clawpack.geoclaw.util.inv_haversine"]], "box2kml() (in module clawpack.geoclaw.kmltools)": [[59, "clawpack.geoclaw.kmltools.box2kml"]], "clawpack.geoclaw.kmltools": [[59, "module-clawpack.geoclaw.kmltools"]], "deg2dms() (in module clawpack.geoclaw.kmltools)": [[59, "clawpack.geoclaw.kmltools.deg2dms"]], "dtopo2kml() (in module clawpack.geoclaw.kmltools)": [[59, "clawpack.geoclaw.kmltools.dtopo2kml"]], "f2s() (in module clawpack.geoclaw.kmltools)": [[59, "clawpack.geoclaw.kmltools.f2s"]], "fgmax2kml() (in module clawpack.geoclaw.kmltools)": [[59, "clawpack.geoclaw.kmltools.fgmax2kml"]], "fgout2kml() (in module clawpack.geoclaw.kmltools)": [[59, "clawpack.geoclaw.kmltools.fgout2kml"]], "gauges2kml() (in module clawpack.geoclaw.kmltools)": [[59, "clawpack.geoclaw.kmltools.gauges2kml"]], "kml_build_colorbar() (in module clawpack.geoclaw.kmltools)": [[59, "clawpack.geoclaw.kmltools.kml_build_colorbar"]], "kml_cb() (in module clawpack.geoclaw.kmltools)": [[59, "clawpack.geoclaw.kmltools.kml_cb"]], "kml_png() (in module clawpack.geoclaw.kmltools)": [[59, "clawpack.geoclaw.kmltools.kml_png"]], "kml_timespan() (in module clawpack.geoclaw.kmltools)": [[59, "clawpack.geoclaw.kmltools.kml_timespan"]], "line2kml() (in module clawpack.geoclaw.kmltools)": [[59, "clawpack.geoclaw.kmltools.line2kml"]], "make_input_data_kmls() (in module clawpack.geoclaw.kmltools)": [[59, "clawpack.geoclaw.kmltools.make_input_data_kmls"]], "pcolorcells_for_kml() (in module clawpack.geoclaw.kmltools)": [[59, "clawpack.geoclaw.kmltools.pcolorcells_for_kml"]], "png2kml() (in module clawpack.geoclaw.kmltools)": [[59, "clawpack.geoclaw.kmltools.png2kml"]], "poly2kml() (in module clawpack.geoclaw.kmltools)": [[59, "clawpack.geoclaw.kmltools.poly2kml"]], "quad2kml() (in module clawpack.geoclaw.kmltools)": [[59, "clawpack.geoclaw.kmltools.quad2kml"]], "regions2kml() (in module clawpack.geoclaw.kmltools)": [[59, "clawpack.geoclaw.kmltools.regions2kml"]], "topo2kml() (in module clawpack.geoclaw.kmltools)": [[59, "clawpack.geoclaw.kmltools.topo2kml"]], "topo2kmz() (in module clawpack.geoclaw.kmltools)": [[59, "clawpack.geoclaw.kmltools.topo2kmz"]], "controller (class in clawpack.pyclaw.controller)": [[86, "clawpack.pyclaw.controller.Controller"]], "f_file_name (clawpack.pyclaw.controller.controller attribute)": [[86, "clawpack.pyclaw.controller.Controller.F_file_name"]], "f_path (clawpack.pyclaw.controller.controller property)": [[86, "clawpack.pyclaw.controller.Controller.F_path"]], "check_validity() (clawpack.pyclaw.controller.controller method)": [[86, "clawpack.pyclaw.controller.Controller.check_validity"]], "compute_f (clawpack.pyclaw.controller.controller attribute)": [[86, "clawpack.pyclaw.controller.Controller.compute_F"]], "compute_p (clawpack.pyclaw.controller.controller attribute)": [[86, "clawpack.pyclaw.controller.Controller.compute_p"]], "file_prefix_p (clawpack.pyclaw.controller.controller attribute)": [[86, "clawpack.pyclaw.controller.Controller.file_prefix_p"]], "frames (clawpack.pyclaw.controller.controller attribute)": [[86, "clawpack.pyclaw.controller.Controller.frames"]], "keep_copy (clawpack.pyclaw.controller.controller attribute)": [[86, "clawpack.pyclaw.controller.Controller.keep_copy"]], "nstepout (clawpack.pyclaw.controller.controller attribute)": [[86, "clawpack.pyclaw.controller.Controller.nstepout"]], "num_output_times (clawpack.pyclaw.controller.controller attribute)": [[86, "clawpack.pyclaw.controller.Controller.num_output_times"]], "out_times (clawpack.pyclaw.controller.controller attribute)": [[86, "clawpack.pyclaw.controller.Controller.out_times"]], "outdir (clawpack.pyclaw.controller.controller attribute)": [[86, "clawpack.pyclaw.controller.Controller.outdir"]], "outdir_p (clawpack.pyclaw.controller.controller property)": [[86, "clawpack.pyclaw.controller.Controller.outdir_p"]], "output_file_prefix (clawpack.pyclaw.controller.controller attribute)": [[86, "clawpack.pyclaw.controller.Controller.output_file_prefix"]], "output_format (clawpack.pyclaw.controller.controller attribute)": [[86, "clawpack.pyclaw.controller.Controller.output_format"]], "output_options (clawpack.pyclaw.controller.controller attribute)": [[86, "clawpack.pyclaw.controller.Controller.output_options"]], "output_style (clawpack.pyclaw.controller.controller attribute)": [[86, "clawpack.pyclaw.controller.Controller.output_style"]], "overwrite (clawpack.pyclaw.controller.controller attribute)": [[86, "clawpack.pyclaw.controller.Controller.overwrite"]], "plot() (clawpack.pyclaw.controller.controller method)": [[86, "clawpack.pyclaw.controller.Controller.plot"]], "plotdata (clawpack.pyclaw.controller.controller attribute)": [[86, "clawpack.pyclaw.controller.Controller.plotdata"]], "run() (clawpack.pyclaw.controller.controller method)": [[86, "clawpack.pyclaw.controller.Controller.run"]], "rundir (clawpack.pyclaw.controller.controller attribute)": [[86, "clawpack.pyclaw.controller.Controller.rundir"]], "runmake (clawpack.pyclaw.controller.controller attribute)": [[86, "clawpack.pyclaw.controller.Controller.runmake"]], "savecode (clawpack.pyclaw.controller.controller attribute)": [[86, "clawpack.pyclaw.controller.Controller.savecode"]], "solver (clawpack.pyclaw.controller.controller attribute)": [[86, "clawpack.pyclaw.controller.Controller.solver"]], "tfinal (clawpack.pyclaw.controller.controller attribute)": [[86, "clawpack.pyclaw.controller.Controller.tfinal"]], "verbosity (clawpack.pyclaw.controller.controller property)": [[86, "clawpack.pyclaw.controller.Controller.verbosity"]], "viewable_attributes (clawpack.pyclaw.controller.controller attribute)": [[86, "clawpack.pyclaw.controller.Controller.viewable_attributes"]], "write_aux_always (clawpack.pyclaw.controller.controller attribute)": [[86, "clawpack.pyclaw.controller.Controller.write_aux_always"]], "write_aux_init (clawpack.pyclaw.controller.controller attribute)": [[86, "clawpack.pyclaw.controller.Controller.write_aux_init"]], "xclawcmd (clawpack.pyclaw.controller.controller attribute)": [[86, "clawpack.pyclaw.controller.Controller.xclawcmd"]], "xclawerr (clawpack.pyclaw.controller.controller attribute)": [[86, "clawpack.pyclaw.controller.Controller.xclawerr"]], "xclawout (clawpack.pyclaw.controller.controller attribute)": [[86, "clawpack.pyclaw.controller.Controller.xclawout"]], "xdir (clawpack.pyclaw.controller.controller attribute)": [[86, "clawpack.pyclaw.controller.Controller.xdir"]], "arora_roe() (in module clawpack.pyclaw.limiters.tvd)": [[87, "clawpack.pyclaw.limiters.tvd.arora_roe"]], "beta_limiter() (in module clawpack.pyclaw.limiters.tvd)": [[87, "clawpack.pyclaw.limiters.tvd.beta_limiter"]], "cada_torrilhon_limiter() (in module clawpack.pyclaw.limiters.tvd)": [[87, "clawpack.pyclaw.limiters.tvd.cada_torrilhon_limiter"]], "cada_torrilhon_limiter_nonlinear() (in module clawpack.pyclaw.limiters.tvd)": [[87, "clawpack.pyclaw.limiters.tvd.cada_torrilhon_limiter_nonlinear"]], "cfl_superbee() (in module clawpack.pyclaw.limiters.tvd)": [[87, "clawpack.pyclaw.limiters.tvd.cfl_superbee"]], "cfl_superbee_theta() (in module clawpack.pyclaw.limiters.tvd)": [[87, "clawpack.pyclaw.limiters.tvd.cfl_superbee_theta"]], "clawpack.pyclaw.limiters.tvd": [[87, "module-clawpack.pyclaw.limiters.tvd"]], "hyperbee_limiter() (in module clawpack.pyclaw.limiters.tvd)": [[87, "clawpack.pyclaw.limiters.tvd.hyperbee_limiter"]], "limit() (in module clawpack.pyclaw.limiters.tvd)": [[87, "clawpack.pyclaw.limiters.tvd.limit"]], "mc_limiter() (in module clawpack.pyclaw.limiters.tvd)": [[87, "clawpack.pyclaw.limiters.tvd.mc_limiter"]], "minmod_limiter() (in module clawpack.pyclaw.limiters.tvd)": [[87, "clawpack.pyclaw.limiters.tvd.minmod_limiter"]], "superbee_limiter() (in module clawpack.pyclaw.limiters.tvd)": [[87, "clawpack.pyclaw.limiters.tvd.superbee_limiter"]], "superpower_limiter() (in module clawpack.pyclaw.limiters.tvd)": [[87, "clawpack.pyclaw.limiters.tvd.superpower_limiter"]], "theta_limiter() (in module clawpack.pyclaw.limiters.tvd)": [[87, "clawpack.pyclaw.limiters.tvd.theta_limiter"]], "upper_bound_limiter() (in module clawpack.pyclaw.limiters.tvd)": [[87, "clawpack.pyclaw.limiters.tvd.upper_bound_limiter"]], "van_leer_klein_sharpening_limiter() (in module clawpack.pyclaw.limiters.tvd)": [[87, "clawpack.pyclaw.limiters.tvd.van_leer_klein_sharpening_limiter"]], "dimension (class in clawpack.pyclaw.geometry)": [[89, "clawpack.pyclaw.geometry.Dimension"]], "domain (class in clawpack.petclaw.geometry)": [[89, "clawpack.petclaw.geometry.Domain"]], "domain (class in clawpack.pyclaw.geometry)": [[89, "clawpack.pyclaw.geometry.Domain"]], "grid (class in clawpack.pyclaw.geometry)": [[89, "clawpack.pyclaw.geometry.Grid"]], "patch (class in clawpack.petclaw.geometry)": [[89, "clawpack.petclaw.geometry.Patch"]], "patch (class in clawpack.pyclaw.geometry)": [[89, "clawpack.pyclaw.geometry.Patch"]], "add_dimension() (clawpack.pyclaw.geometry.grid method)": [[89, "clawpack.pyclaw.geometry.Grid.add_dimension"]], "add_dimension() (clawpack.pyclaw.geometry.patch method)": [[89, "clawpack.pyclaw.geometry.Patch.add_dimension"]], "add_gauges() (clawpack.pyclaw.geometry.grid method)": [[89, "clawpack.pyclaw.geometry.Grid.add_gauges"]], "c_center() (clawpack.pyclaw.geometry.grid method)": [[89, "clawpack.pyclaw.geometry.Grid.c_center"]], "c_centers (clawpack.pyclaw.geometry.grid property)": [[89, "clawpack.pyclaw.geometry.Grid.c_centers"]], "c_centers_with_ghost() (clawpack.pyclaw.geometry.grid method)": [[89, "clawpack.pyclaw.geometry.Grid.c_centers_with_ghost"]], "c_nodes (clawpack.pyclaw.geometry.grid property)": [[89, "clawpack.pyclaw.geometry.Grid.c_nodes"]], "c_nodes_with_ghost() (clawpack.pyclaw.geometry.grid method)": [[89, "clawpack.pyclaw.geometry.Grid.c_nodes_with_ghost"]], "centers (clawpack.pyclaw.geometry.dimension property)": [[89, "clawpack.pyclaw.geometry.Dimension.centers"]], "centers_with_ghost() (clawpack.pyclaw.geometry.dimension method)": [[89, "clawpack.pyclaw.geometry.Dimension.centers_with_ghost"]], "delta (clawpack.pyclaw.geometry.dimension property)": [[89, "clawpack.pyclaw.geometry.Dimension.delta"]], "delta (clawpack.pyclaw.geometry.patch property)": [[89, "clawpack.pyclaw.geometry.Patch.delta"]], "dimensional_split (clawpack.petclaw.geometry.domain attribute)": [[89, "clawpack.petclaw.geometry.Domain.dimensional_split"]], "dimensions (clawpack.pyclaw.geometry.grid property)": [[89, "clawpack.pyclaw.geometry.Grid.dimensions"]], "dimensions (clawpack.pyclaw.geometry.patch property)": [[89, "clawpack.pyclaw.geometry.Patch.dimensions"]], "fwave (clawpack.petclaw.geometry.domain attribute)": [[89, "clawpack.petclaw.geometry.Domain.fwave"]], "gauge_dir_name (clawpack.pyclaw.geometry.grid attribute)": [[89, "clawpack.pyclaw.geometry.Grid.gauge_dir_name"]], "gauge_file_names (clawpack.pyclaw.geometry.grid attribute)": [[89, "clawpack.pyclaw.geometry.Grid.gauge_file_names"]], "gauge_files (clawpack.pyclaw.geometry.grid attribute)": [[89, "clawpack.pyclaw.geometry.Grid.gauge_files"]], "gauges (clawpack.pyclaw.geometry.grid attribute)": [[89, "clawpack.pyclaw.geometry.Grid.gauges"]], "get_dim_attribute() (clawpack.pyclaw.geometry.grid method)": [[89, "clawpack.pyclaw.geometry.Grid.get_dim_attribute"]], "get_dim_attribute() (clawpack.pyclaw.geometry.patch method)": [[89, "clawpack.pyclaw.geometry.Patch.get_dim_attribute"]], "grid (clawpack.pyclaw.geometry.domain property)": [[89, "clawpack.pyclaw.geometry.Domain.grid"]], "kernel_language (clawpack.petclaw.geometry.domain attribute)": [[89, "clawpack.petclaw.geometry.Domain.kernel_language"]], "level (clawpack.pyclaw.geometry.patch attribute)": [[89, "clawpack.pyclaw.geometry.Patch.level"]], "lower_global (clawpack.pyclaw.geometry.patch property)": [[89, "clawpack.pyclaw.geometry.Patch.lower_global"]], "mthlim (clawpack.petclaw.geometry.domain attribute)": [[89, "clawpack.petclaw.geometry.Domain.mthlim"]], "name (clawpack.pyclaw.geometry.patch property)": [[89, "clawpack.pyclaw.geometry.Patch.name"]], "nodes (clawpack.pyclaw.geometry.dimension property)": [[89, "clawpack.pyclaw.geometry.Dimension.nodes"]], "nodes_with_ghost() (clawpack.pyclaw.geometry.dimension method)": [[89, "clawpack.pyclaw.geometry.Dimension.nodes_with_ghost"]], "num_cells_global (clawpack.pyclaw.geometry.patch property)": [[89, "clawpack.pyclaw.geometry.Patch.num_cells_global"]], "num_dim (clawpack.pyclaw.geometry.domain property)": [[89, "clawpack.pyclaw.geometry.Domain.num_dim"]], "num_dim (clawpack.pyclaw.geometry.grid property)": [[89, "clawpack.pyclaw.geometry.Grid.num_dim"]], "num_dim (clawpack.pyclaw.geometry.patch property)": [[89, "clawpack.pyclaw.geometry.Patch.num_dim"]], "order (clawpack.petclaw.geometry.domain attribute)": [[89, "clawpack.petclaw.geometry.Domain.order"]], "p_center() (clawpack.pyclaw.geometry.grid method)": [[89, "clawpack.pyclaw.geometry.Grid.p_center"]], "p_centers (clawpack.pyclaw.geometry.grid property)": [[89, "clawpack.pyclaw.geometry.Grid.p_centers"]], "p_nodes (clawpack.pyclaw.geometry.grid property)": [[89, "clawpack.pyclaw.geometry.Grid.p_nodes"]], "patch (clawpack.pyclaw.geometry.domain property)": [[89, "clawpack.pyclaw.geometry.Domain.patch"]], "patch_index (clawpack.pyclaw.geometry.patch attribute)": [[89, "clawpack.pyclaw.geometry.Patch.patch_index"]], "plot() (clawpack.pyclaw.geometry.grid method)": [[89, "clawpack.pyclaw.geometry.Grid.plot"]], "setup_gauge_files() (clawpack.pyclaw.geometry.grid method)": [[89, "clawpack.pyclaw.geometry.Grid.setup_gauge_files"]], "source_split (clawpack.petclaw.geometry.domain attribute)": [[89, "clawpack.petclaw.geometry.Domain.source_split"]], "step_source (clawpack.petclaw.geometry.domain attribute)": [[89, "clawpack.petclaw.geometry.Domain.step_source"]], "transverse_waves (clawpack.petclaw.geometry.domain attribute)": [[89, "clawpack.petclaw.geometry.Domain.transverse_waves"]], "upper_global (clawpack.pyclaw.geometry.patch property)": [[89, "clawpack.pyclaw.geometry.Patch.upper_global"]], "verbosity (clawpack.petclaw.geometry.domain attribute)": [[89, "clawpack.petclaw.geometry.Domain.verbosity"]], "clawpack.pyclaw.fileio.ascii": [[92, "module-clawpack.pyclaw.fileio.ascii"]], 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98, 101, 110, 111, 131, 133, 134, 139, 140, 141, 142, 143, 148, 152, 156, 157], "appli": [3, 4, 5, 6, 13, 16, 25, 30, 48, 51, 53, 64, 66, 70, 77, 79, 87, 89, 92, 99, 110, 130, 139, 142, 157], "comput": [3, 4, 5, 6, 13, 16, 17, 18, 27, 29, 30, 32, 33, 39, 44, 47, 51, 53, 58, 59, 60, 62, 68, 70, 76, 77, 79, 84, 86, 89, 91, 92, 93, 94, 99, 103, 106, 108, 110, 113, 114, 118, 119, 123, 126, 131, 135, 139, 141, 142, 143, 149, 152, 157, 160], "signatur": [3, 84, 87, 89, 90, 92, 97, 148], "hold": [3, 79, 103, 110], "current": [3, 5, 13, 14, 20, 22, 24, 27, 28, 29, 30, 32, 38, 39, 41, 44, 45, 48, 53, 54, 55, 57, 58, 59, 60, 67, 68, 72, 77, 79, 89, 92, 93, 94, 99, 101, 104, 106, 110, 111, 118, 120, 121, 130, 134, 138, 139, 140, 141, 142, 143, 148, 149, 152, 154, 156], "afteritem": [3, 27], "afterpatch": [3, 27], "There": [3, 6, 13, 22, 36, 40, 51, 54, 55, 62, 66, 70, 72, 79, 80, 93, 100, 108, 120, 121, 138, 139, 149, 150, 157, 159], "than": [3, 5, 6, 13, 16, 18, 20, 22, 28, 29, 30, 32, 39, 44, 51, 54, 55, 58, 59, 60, 62, 63, 64, 66, 69, 70, 72, 76, 79, 83, 84, 86, 89, 92, 93, 94, 96, 97, 99, 104, 106, 110, 111, 113, 116, 117, 118, 119, 120, 121, 123, 124, 126, 129, 130, 133, 134, 135, 138, 139, 140, 142, 148, 149, 151, 152, 154, 157, 160], "calcul": [3, 5, 6, 27, 30, 33, 45, 47, 67, 70, 77, 89, 97, 99, 114, 119, 154], "cd": [3, 13, 28, 35, 36, 37, 52, 54, 55, 57, 58, 79, 88, 91, 94, 100, 111, 150], "On": [3, 5, 13, 51, 71, 80, 120, 133, 137, 157], "ylower": [3, 22, 27, 39, 84, 121, 141, 152, 154], "patchno": [3, 27], "out": [3, 16, 24, 26, 29, 30, 32, 35, 36, 39, 44, 45, 50, 52, 53, 54, 55, 58, 59, 60, 61, 62, 67, 70, 77, 80, 81, 83, 84, 86, 92, 93, 94, 95, 98, 103, 105, 106, 108, 111, 119, 121, 123, 124, 131, 133, 140, 141, 143, 148, 154, 155], "lower": [3, 22, 30, 32, 33, 38, 53, 66, 72, 89, 94, 133, 135, 139, 141, 143, 152, 154, 156], "left": [3, 5, 10, 13, 16, 18, 25, 27, 32, 53, 72, 79, 89, 96, 97, 103, 120, 126, 129, 130, 131, 134, 140, 152, 154, 156, 160], "corner": [3, 30, 32, 53, 70, 72, 89, 133, 139, 141, 143, 152, 154], "mappedgrid": [3, 67], "map": [3, 16, 29, 30, 39, 59, 66, 67, 77, 81, 84, 89, 91, 96, 110, 117, 121, 126, 132, 154, 160], "mapc2p": [3, 25, 27, 67, 84, 89, 126], "underli": [3, 51, 119], "other": [3, 4, 5, 6, 7, 9, 12, 13, 16, 20, 22, 27, 30, 35, 36, 38, 44, 45, 46, 48, 51, 52, 53, 55, 56, 57, 58, 61, 62, 64, 66, 67, 68, 70, 71, 72, 76, 79, 81, 83, 84, 86, 89, 91, 93, 95, 96, 97, 100, 103, 105, 106, 110, 111, 113, 114, 116, 117, 119, 131, 134, 137, 138, 139, 142, 144, 148, 152, 154, 156, 157, 158], "requir": [3, 4, 16, 18, 20, 22, 25, 27, 30, 32, 35, 36, 40, 45, 47, 48, 55, 58, 66, 67, 70, 73, 76, 79, 80, 83, 84, 89, 92, 95, 96, 99, 100, 101, 103, 104, 105, 110, 111, 113, 114, 117, 119, 122, 124, 126, 131, 132, 133, 138, 139, 140, 141, 142, 143, 148, 149, 152, 155, 158, 160], "depend": [3, 13, 16, 28, 29, 30, 32, 35, 36, 40, 41, 46, 48, 51, 62, 64, 67, 70, 77, 82, 92, 97, 98, 99, 104, 106, 110, 121, 135, 140, 142, 154, 155, 157, 160], "summar": [3, 28, 31, 110, 112, 157], "plotstyl": [3, 44, 77, 138], "anyth": [3, 6, 28, 29, 58, 63, 111, 121], "valid": [3, 48, 70, 86, 93, 98, 101, 119, 142, 148, 149, 154], "fmt": 3, "group": [3, 13, 24, 28, 30, 48, 88, 92, 94, 102, 118, 131], "solid": [3, 16, 51, 70, 96, 138, 139, 141, 143], "dash": [3, 94], "o": [3, 5, 17, 38, 39, 40, 66, 77, 80, 81, 84, 92, 93, 102, 121, 141, 154, 157], "circl": [3, 47, 77], "bo": 3, "blue": [3, 11, 39, 44, 59, 66, 77, 133, 154], "though": [3, 39, 73, 148, 152], "color": [3, 30, 39, 51, 59, 66, 67, 76, 133, 138, 154], "also": [3, 4, 5, 6, 7, 8, 9, 11, 12, 16, 17, 18, 20, 22, 23, 24, 25, 28, 29, 30, 32, 33, 35, 36, 37, 38, 39, 41, 42, 43, 44, 47, 48, 51, 52, 53, 54, 55, 56, 57, 58, 59, 62, 63, 66, 67, 68, 70, 71, 72, 73, 76, 77, 79, 83, 85, 86, 89, 91, 92, 93, 94, 96, 97, 98, 99, 100, 101, 102, 103, 104, 105, 106, 107, 108, 109, 110, 111, 113, 118, 119, 120, 121, 122, 123, 124, 125, 126, 127, 128, 129, 130, 131, 132, 133, 134, 135, 137, 139, 140, 141, 142, 143, 144, 146, 147, 148, 149, 150, 151, 152, 154, 155, 156, 157, 159, 160], "overrul": 3, "ani": [3, 4, 5, 6, 8, 13, 16, 18, 19, 20, 22, 27, 28, 29, 32, 35, 36, 37, 45, 48, 50, 51, 54, 55, 57, 58, 61, 62, 64, 66, 67, 69, 71, 72, 73, 77, 81, 87, 88, 89, 91, 92, 93, 94, 96, 98, 100, 104, 106, 109, 110, 111, 117, 121, 123, 130, 133, 134, 135, 138, 139, 140, 142, 148, 157, 160], "r": [3, 4, 6, 17, 44, 47, 52, 54, 66, 67, 69, 77, 83, 87, 94, 96, 131, 133, 138, 154, 160], "ff0000": [3, 59], "No": [3, 40, 51, 55, 67, 89, 99, 127, 131, 139, 142, 155], "extra": [3, 51, 132], "give": [3, 6, 9, 10, 13, 16, 24, 28, 30, 32, 33, 35, 36, 44, 52, 59, 66, 70, 71, 72, 77, 79, 94, 95, 99, 111, 114, 118, 119, 123, 126, 133, 139, 142, 152, 154, 156], "polygon": [3, 7, 38, 51, 59, 124, 154], "curv": [3, 44, 76, 133], "fill_between": 3, "describ": [3, 4, 5, 6, 7, 13, 14, 16, 18, 19, 26, 28, 30, 31, 32, 35, 36, 38, 39, 44, 46, 47, 48, 51, 52, 54, 55, 57, 59, 60, 62, 63, 66, 67, 70, 72, 73, 76, 77, 78, 89, 91, 92, 98, 104, 108, 110, 111, 119, 122, 123, 131, 133, 134, 138, 139, 140, 142, 148, 149, 152, 154, 156, 157, 160], "abov": [3, 5, 13, 14, 16, 18, 20, 28, 32, 35, 36, 38, 39, 40, 41, 44, 48, 51, 53, 54, 55, 58, 61, 63, 66, 70, 72, 77, 80, 81, 84, 93, 95, 100, 103, 104, 110, 119, 121, 126, 131, 133, 135, 137, 138, 139, 141, 143, 148, 151, 152, 154, 157], "plot_var2": 3, "second": [3, 16, 30, 32, 36, 44, 47, 51, 55, 59, 67, 83, 89, 93, 99, 110, 113, 119, 130, 139, 142, 148, 150, 151, 154, 157, 160], "zero": [3, 16, 30, 32, 39, 41, 59, 67, 83, 96, 97, 101, 103, 126, 133, 134], "fill_wher": 3, "plotitem": [3, 27, 44, 77, 138], "mean": [3, 13, 22, 28, 32, 39, 44, 48, 52, 58, 67, 93, 94, 110, 131, 134, 139, 141, 143, 156], "map_2d_to_1d": 3, "In": [3, 5, 6, 8, 11, 12, 15, 16, 19, 20, 22, 27, 30, 32, 38, 41, 44, 45, 48, 51, 52, 53, 54, 55, 58, 59, 60, 62, 63, 66, 67, 68, 69, 70, 72, 73, 77, 78, 79, 83, 84, 89, 91, 92, 93, 94, 95, 96, 97, 99, 101, 104, 106, 107, 108, 110, 113, 114, 117, 118, 119, 121, 122, 126, 130, 131, 133, 135, 136, 137, 139, 140, 142, 146, 147, 152, 154, 155, 157, 160], "about": [3, 5, 7, 13, 14, 16, 18, 22, 25, 33, 35, 36, 40, 47, 48, 53, 55, 59, 62, 64, 67, 72, 78, 80, 83, 91, 94, 99, 106, 111, 118, 122, 124, 131, 138, 140, 141, 142, 152, 155, 157, 160], "valu": [3, 5, 6, 7, 16, 18, 20, 22, 27, 30, 33, 34, 35, 36, 38, 39, 41, 44, 45, 47, 49, 50, 51, 53, 59, 60, 62, 64, 66, 67, 70, 71, 72, 77, 84, 89, 91, 92, 93, 96, 97, 98, 99, 101, 103, 104, 110, 111, 113, 114, 116, 117, 119, 121, 123, 124, 126, 130, 131, 133, 134, 135, 139, 140, 141, 142, 143, 148, 149, 152, 154, 155, 157, 160], "j": [3, 4, 5, 15, 17, 20, 22, 27, 39, 52, 59, 66, 67, 72, 79, 91, 92, 110, 113, 114, 135, 136], "v": [3, 16, 25, 29, 30, 32, 47, 60, 63, 111, 118, 140, 152], "radiu": [3, 142, 148, 149, 154], "q0_vs_radiu": 3, "convert": [3, 22, 25, 30, 33, 42, 47, 51, 58, 59, 62, 70, 73, 84, 91, 96, 104, 105, 121, 124, 139, 140, 148, 152, 156], "numpi": [3, 13, 30, 32, 39, 47, 66, 80, 82, 83, 84, 86, 89, 96, 101, 102, 103, 105, 111, 132, 133, 141, 154, 155], "sqrt": [3, 32, 64, 83, 96, 97, 103, 141], "q0": [3, 96], "work": [3, 5, 8, 13, 16, 19, 20, 22, 24, 25, 26, 28, 29, 32, 35, 36, 40, 45, 48, 51, 52, 53, 54, 55, 56, 57, 58, 59, 66, 67, 69, 70, 71, 77, 80, 81, 82, 83, 85, 86, 87, 91, 92, 93, 94, 97, 99, 100, 105, 106, 108, 109, 110, 111, 115, 116, 117, 118, 119, 120, 121, 124, 126, 127, 129, 131, 137, 138, 139, 140, 142, 144, 149, 152, 155, 159], "symbol": [3, 67, 106], "best": [3, 4, 16, 22, 26, 28, 41, 51, 53, 55, 56, 62, 69, 71, 76, 77, 92, 96, 108, 109, 110, 111, 121, 129, 131, 142, 145, 148, 152, 157], "descript": [3, 4, 6, 9, 22, 23, 25, 30, 59, 67, 70, 73, 76, 91, 92, 104, 108, 110, 131, 132, 142, 148, 152, 160], "celledges_show": [3, 22], "draw": 3, "amr_celledges_show": 3, "some": [3, 4, 5, 6, 7, 8, 10, 12, 16, 17, 18, 19, 20, 21, 22, 23, 24, 25, 27, 28, 30, 32, 35, 36, 39, 41, 42, 44, 45, 46, 48, 49, 51, 52, 53, 54, 55, 58, 63, 66, 70, 71, 72, 76, 78, 79, 81, 84, 85, 87, 91, 92, 93, 95, 96, 98, 100, 101, 102, 103, 105, 106, 108, 109, 110, 111, 113, 114, 115, 116, 117, 118, 119, 120, 121, 122, 123, 124, 125, 126, 127, 128, 129, 131, 133, 134, 135, 138, 139, 140, 141, 142, 143, 144, 148, 149, 151, 152, 154, 157], "level": [3, 6, 7, 16, 23, 27, 29, 32, 38, 39, 44, 45, 46, 47, 48, 51, 54, 55, 57, 58, 67, 71, 72, 84, 86, 89, 91, 92, 93, 99, 106, 107, 110, 111, 113, 114, 118, 119, 121, 124, 130, 133, 134, 137, 139, 140, 141, 142, 143, 151, 152, 154, 156, 157], "patchedges_show": [3, 22], "mostli": [3, 76, 91, 124], "contour_level": [3, 154], "three": [3, 13, 17, 22, 30, 32, 48, 51, 63, 67, 70, 94, 98, 104, 111, 133, 139, 142, 152, 154, 157], "contour_nlevel": 3, "contour_min": 3, "float": [3, 30, 32, 44, 47, 59, 86, 89, 97, 101, 104, 139, 140, 142, 143, 148, 154], "minimum": [3, 32, 44, 51, 70, 103, 119, 142, 154], "contour_max": 3, "maximum": [3, 22, 30, 32, 33, 34, 45, 67, 99, 103, 110, 113, 114, 121, 124, 139, 140, 141, 143, 148, 149], "contour_color": 3, "specif": [3, 5, 12, 22, 28, 30, 44, 45, 47, 51, 52, 58, 61, 63, 64, 81, 82, 84, 86, 91, 92, 93, 97, 98, 104, 108, 119, 120, 121, 124, 138, 139, 140, 141, 143, 149, 152], "b": [3, 5, 17, 28, 30, 32, 33, 39, 44, 52, 54, 55, 64, 77, 99, 110, 117, 124, 133, 134, 135, 142, 154, 156], "0000ff": [3, 59], "colormap": [3, 30, 39, 46, 51, 66, 67, 76, 78, 118, 124, 154], "amr_contour_color": 3, "As": [3, 36, 39, 45, 48, 54, 55, 59, 83, 103, 105, 109, 113, 124, 131, 132, 135, 142, 150, 157], "instead": [3, 13, 18, 32, 35, 36, 39, 41, 44, 52, 54, 55, 58, 62, 63, 68, 100, 101, 104, 106, 118, 119, 122, 126, 130, 131, 132, 133, 152, 154], "black": [3, 44], "subsequ": [3, 10, 67], "both": [3, 16, 18, 28, 30, 33, 35, 36, 38, 39, 44, 48, 53, 56, 58, 63, 66, 67, 70, 72, 84, 92, 93, 94, 99, 100, 110, 111, 117, 118, 121, 124, 131, 132, 133, 135, 139, 140, 141, 143, 146, 152, 157], "fine": [3, 32, 33, 39, 54, 69, 73, 91, 96, 110, 119, 126, 133, 135, 139, 140, 142, 152, 157], "coars": [3, 32, 51, 110, 119, 126, 139, 152, 157], "anoth": [3, 22, 39, 44, 51, 55, 58, 59, 72, 76, 80, 88, 99, 102, 111, 121, 148, 157], "refin": [3, 4, 5, 7, 8, 17, 22, 45, 48, 51, 52, 53, 66, 67, 72, 73, 83, 119, 121, 122, 124, 126, 133, 135, 138, 139, 140, 141, 151, 152, 157], "region": [3, 6, 7, 13, 16, 22, 32, 38, 39, 45, 48, 49, 51, 59, 64, 70, 73, 108, 121, 124, 126, 134, 135, 140, 141, 152, 154], "lack": 3, "hidden": [3, 62, 77], "blank": [3, 59, 148], "coarser": [3, 16, 53, 119, 135, 139, 140, 157], "easili": [3, 13, 28, 32, 51, 54, 67, 77, 84, 89, 100, 104, 111, 124, 144], "contour_show": 3, "boolean": [3, 51, 66, 92, 97, 139, 140, 142], "most": [3, 18, 20, 22, 27, 29, 32, 35, 36, 40, 41, 44, 48, 50, 51, 52, 53, 54, 57, 59, 62, 66, 67, 71, 73, 76, 77, 79, 81, 89, 93, 94, 99, 102, 103, 105, 110, 111, 118, 120, 126, 129, 130, 131, 132, 133, 134, 138, 139, 140, 142, 145, 157], "commonli": [3, 67, 77, 79], "amr_contour_show": 3, "tupl": [3, 30, 47, 59, 70, 77, 89, 93, 154], "determin": [3, 5, 6, 30, 32, 39, 44, 45, 48, 50, 51, 54, 59, 70, 77, 87, 89, 92, 97, 101, 106, 110, 114, 118, 119, 130, 133, 134, 138, 139, 140, 142, 154, 157], "whether": [3, 6, 13, 16, 22, 47, 53, 56, 58, 60, 61, 62, 67, 81, 89, 92, 93, 97, 98, 99, 110, 111, 119, 131, 133, 139, 140, 142, 154], "view": [3, 4, 22, 35, 36, 44, 45, 51, 53, 54, 59, 72, 76, 78, 79, 83, 94, 100, 105, 117, 121, 144, 145], "finest": [3, 32, 39, 44, 121, 151, 154], "contour_kwarg": [3, 154], "pcolor_cmap": [3, 51], "pcolor_cmin": 3, "pcolor_cmax": 3, "rang": [3, 5, 13, 30, 44, 47, 51, 110, 113, 118, 132, 133], "thei": [3, 5, 6, 13, 16, 24, 27, 28, 30, 32, 38, 39, 44, 48, 51, 54, 55, 58, 59, 60, 63, 66, 67, 72, 76, 89, 91, 96, 99, 104, 110, 111, 119, 126, 135, 138, 142, 148, 152, 154, 157], "chosen": [3, 29, 32, 38, 39, 51, 53, 66, 103, 110, 126, 134, 140], "vari": [3, 15, 17, 25, 30, 39, 45, 53, 64, 96, 98, 117, 124, 131, 132, 134, 136, 140, 160], "yield": 3, "veri": [3, 5, 16, 18, 22, 48, 51, 55, 56, 59, 70, 77, 81, 84, 92, 93, 94, 95, 96, 99, 111, 114, 118, 133, 135, 139, 149, 152], "confus": [3, 53, 58, 106, 126, 131], "pcolor_colorbar": 3, "colorbar": [3, 39, 59, 66, 121, 124, 133, 154], "ad": [3, 12, 16, 18, 20, 22, 24, 25, 27, 29, 32, 34, 41, 44, 47, 53, 54, 55, 58, 59, 60, 64, 67, 70, 77, 82, 84, 87, 89, 90, 93, 94, 106, 107, 108, 110, 113, 114, 115, 116, 117, 118, 119, 120, 121, 122, 123, 124, 125, 127, 130, 135, 139, 140, 142, 148, 151, 154, 158], "relat": [3, 7, 22, 24, 54, 73, 97, 108, 120, 124, 126, 134], "same": [3, 5, 6, 8, 13, 16, 22, 25, 28, 31, 32, 39, 41, 44, 46, 47, 48, 51, 53, 55, 58, 59, 60, 62, 64, 66, 68, 70, 73, 76, 77, 78, 79, 83, 87, 89, 91, 92, 93, 96, 97, 99, 104, 105, 113, 114, 118, 119, 124, 126, 130, 131, 133, 139, 140, 141, 142, 146, 152, 154, 157], "pre": [3, 13, 33, 55, 85, 92], "pend": 3, "amr_": [3, 7], "whose": [3, 77, 84, 96, 97, 135, 139, 140, 154], "origin": [3, 6, 13, 16, 20, 28, 30, 34, 44, 52, 54, 66, 71, 72, 84, 99, 104, 113, 119, 126, 130, 140, 141, 143, 154], "hand": [3, 5, 18, 19, 20, 64, 83, 111, 133], "higher": [3, 6, 32, 51, 89, 99, 100, 110, 124, 131, 133, 134, 135], "shorter": [3, 110, 154], "last": [3, 18, 27, 32, 55, 57, 77, 83, 84, 96, 103, 118, 139, 148], "repeatedli": [3, 94, 100, 140], "common": [3, 23, 28, 35, 36, 40, 41, 62, 63, 73, 76, 83, 97, 99, 101, 102, 119, 121, 124, 155, 157], "finer": [3, 7, 32, 51, 110, 113, 114, 133, 139, 140], "celledg": 3, "stand": [4, 126], "conserv": [4, 5, 6, 17, 93, 99, 101, 122, 132, 157, 160], "law": [4, 17, 59, 142, 160], "packag": [4, 25, 28, 29, 35, 36, 51, 55, 56, 63, 73, 76, 80, 81, 83, 89, 91, 93, 95, 96, 98, 100, 103, 105, 106, 123, 124, 155, 158], "wa": [4, 5, 6, 14, 18, 19, 20, 25, 29, 30, 32, 33, 39, 48, 50, 54, 55, 62, 64, 66, 67, 70, 77, 94, 98, 99, 101, 110, 111, 112, 113, 114, 115, 116, 117, 118, 119, 120, 121, 122, 123, 124, 125, 126, 127, 128, 130, 133, 135, 142, 151, 152, 154], "initi": [4, 5, 7, 12, 13, 22, 25, 30, 44, 45, 47, 48, 51, 55, 60, 63, 67, 70, 73, 79, 81, 82, 83, 84, 86, 87, 89, 90, 92, 93, 97, 98, 99, 101, 102, 104, 107, 110, 118, 121, 124, 126, 131, 134, 139, 140, 141, 142, 143, 148, 152, 154], "develop": [4, 6, 7, 12, 13, 18, 22, 23, 48, 52, 54, 57, 58, 61, 66, 67, 76, 80, 81, 84, 91, 96, 99, 100, 106, 108, 111, 121, 122, 124, 126, 131, 134, 135, 141], "linear": [4, 5, 17, 30, 32, 51, 70, 77, 83, 87, 99, 122, 131, 132, 133], "nonlinear": [4, 5, 17, 48, 87, 131, 139, 160], "hyperbol": [4, 5, 6, 17, 42, 73, 84, 91, 96, 97, 103, 131, 139, 142, 157, 160], "system": [4, 16, 17, 23, 36, 37, 51, 52, 58, 59, 63, 71, 72, 81, 91, 93, 94, 96, 97, 100, 103, 106, 111, 131, 139, 141, 143, 150, 157, 160], "focu": [4, 45], "high": [4, 17, 32, 48, 51, 66, 70, 73, 84, 91, 99, 131, 134, 135, 156, 157], "resolut": [4, 6, 17, 18, 30, 32, 39, 44, 70, 89, 99, 103, 104, 113, 117, 121, 122, 131, 134, 142, 152, 154, 156, 157], "godunov": [4, 89, 99, 139, 141, 143, 157], "method": [4, 5, 7, 17, 32, 38, 42, 44, 53, 66, 77, 79, 83, 86, 87, 89, 94, 98, 99, 104, 110, 111, 117, 131, 138, 139, 140, 141, 143, 148, 151, 152, 154, 157], "framework": [4, 81, 84, 118, 119], "applic": [4, 6, 15, 16, 19, 20, 22, 23, 24, 28, 29, 32, 35, 36, 37, 41, 42, 43, 45, 46, 55, 57, 58, 63, 66, 68, 71, 79, 88, 89, 90, 91, 93, 99, 104, 107, 109, 110, 111, 113, 116, 117, 119, 120, 121, 123, 124, 131, 133, 135, 136, 139, 142, 146, 147, 152, 154, 155, 157, 158], "finit": [4, 17, 32, 42, 53, 59, 66, 67, 70, 99, 124, 133, 151, 152, 157], "volum": [4, 17, 29, 32, 42, 53, 59, 66, 67, 91, 124, 133, 140, 151, 152, 157], "riemann": [4, 5, 8, 20, 22, 23, 28, 29, 45, 55, 58, 63, 73, 81, 83, 89, 90, 99, 100, 101, 103, 106, 137, 139, 141, 143, 146, 147, 160], "solver": [4, 5, 6, 20, 22, 23, 25, 28, 45, 56, 57, 58, 63, 80, 81, 82, 86, 89, 90, 93, 101, 115, 117, 119, 120, 121, 122, 123, 124, 126, 139, 141, 143, 146, 147, 160], "resolv": [4, 32, 51, 54, 58, 108, 121, 135], "jump": [4, 5, 67, 79, 89, 99, 119, 139, 160], "discontinu": [4, 99, 160], "interfac": [4, 19, 22, 67, 81, 84, 87, 91, 92, 97, 99, 104, 131, 157, 158, 160], "grid": [4, 7, 17, 18, 19, 20, 22, 23, 25, 27, 28, 33, 38, 39, 44, 45, 46, 48, 51, 52, 59, 66, 67, 72, 73, 76, 81, 83, 91, 93, 94, 96, 97, 98, 99, 101, 103, 110, 111, 113, 114, 116, 117, 119, 120, 121, 124, 126, 128, 131, 132, 133, 134, 135, 139, 140, 141, 143, 149, 151, 152, 154, 156, 157, 160], "wave": [4, 5, 6, 16, 17, 25, 32, 39, 48, 51, 52, 70, 87, 89, 91, 96, 97, 99, 110, 117, 119, 120, 126, 132, 133, 134, 139, 140, 141, 142, 143, 157], "propag": [4, 5, 6, 17, 25, 30, 48, 51, 52, 70, 89, 91, 99, 110, 119, 131], "neighbor": [4, 32, 39, 66, 110, 119, 135, 140, 141, 154], "formul": [4, 5, 48, 64, 131, 139], "allow": [4, 6, 13, 18, 22, 27, 28, 29, 32, 38, 39, 44, 45, 47, 50, 51, 53, 54, 58, 64, 66, 67, 70, 71, 73, 76, 77, 86, 91, 92, 93, 99, 101, 104, 105, 106, 110, 111, 113, 114, 117, 118, 119, 120, 121, 123, 124, 126, 131, 133, 139, 141, 142, 143, 144, 148, 152, 154, 156], "easi": [4, 6, 11, 29, 38, 58, 67, 84, 93, 94, 95, 133, 144, 157], "extens": [4, 17, 22, 24, 28, 30, 48, 51, 54, 58, 63, 67, 84, 91, 92, 104, 119, 120, 126, 139, 150, 154, 160], "problem": [4, 5, 7, 16, 17, 20, 24, 25, 27, 28, 29, 35, 36, 39, 42, 45, 58, 62, 66, 67, 70, 73, 77, 80, 82, 83, 88, 90, 91, 94, 97, 99, 102, 106, 111, 113, 114, 116, 117, 120, 124, 126, 131, 133, 135, 139, 140, 141, 142, 143, 144, 151, 155], "algorithm": [4, 7, 25, 32, 38, 39, 45, 52, 83, 89, 91, 92, 99, 103, 110, 121, 131, 133, 139, 141, 143, 154], "brief": [4, 55, 132, 142], "subroutin": [4, 6, 9, 16, 22, 32, 63, 110, 117, 131, 139, 140, 151, 157, 160], "equat": [4, 5, 16, 17, 25, 35, 36, 45, 48, 60, 64, 77, 82, 83, 84, 86, 91, 92, 93, 96, 99, 100, 101, 114, 117, 119, 121, 122, 131, 139, 141, 142, 143, 152, 157, 160], "solv": [4, 5, 8, 16, 17, 20, 26, 35, 36, 48, 56, 58, 60, 82, 84, 86, 89, 91, 96, 97, 100, 122, 131, 132, 139, 152, 157, 160], "adapt": [4, 7, 17, 30, 39, 52, 53, 66, 67, 73, 83, 110, 121, 124, 126, 131, 133, 138, 139, 140, 142, 157], "mesh": [4, 7, 17, 33, 52, 66, 67, 73, 76, 83, 110, 124, 138, 139, 157], "includ": [4, 6, 13, 18, 21, 22, 23, 27, 28, 29, 30, 32, 35, 36, 38, 40, 41, 43, 44, 48, 51, 53, 55, 57, 58, 59, 61, 63, 64, 66, 67, 68, 70, 71, 73, 76, 77, 79, 81, 83, 84, 88, 89, 91, 92, 93, 94, 95, 96, 97, 98, 99, 100, 101, 103, 106, 108, 110, 111, 113, 119, 120, 121, 122, 123, 124, 125, 126, 127, 128, 131, 132, 133, 137, 139, 141, 142, 144, 145, 148, 149, 151, 152, 154, 157], "amrclaw": [4, 5, 6, 12, 15, 16, 19, 20, 22, 23, 24, 28, 36, 38, 39, 41, 43, 44, 45, 46, 52, 55, 56, 57, 58, 60, 66, 67, 68, 71, 72, 73, 80, 91, 100, 106, 107, 110, 111, 130, 131, 133, 136, 137, 139, 142, 146, 147, 150, 151, 155], "detail": [4, 5, 10, 16, 18, 22, 23, 25, 26, 28, 29, 30, 32, 35, 36, 38, 41, 46, 48, 51, 54, 57, 58, 61, 62, 66, 67, 70, 73, 77, 81, 86, 87, 88, 89, 91, 92, 93, 94, 95, 96, 97, 99, 109, 110, 111, 114, 119, 121, 126, 131, 133, 138, 139, 142, 144, 148, 152, 155, 156, 157, 160], "content": [4, 6, 23, 51, 55, 73, 84, 91, 142, 152, 157, 158], "routin": [4, 5, 6, 16, 20, 25, 27, 30, 32, 35, 36, 44, 45, 46, 51, 52, 62, 67, 68, 71, 72, 73, 76, 79, 81, 84, 86, 89, 92, 95, 96, 99, 101, 102, 110, 113, 114, 117, 119, 121, 122, 124, 131, 135, 139, 141, 143, 148, 154, 155, 157, 158, 160], "special": [4, 7, 16, 18, 45, 46, 51, 61, 73, 81, 110, 133, 154], "depth": [4, 5, 16, 17, 22, 30, 32, 33, 39, 44, 45, 48, 64, 70, 76, 78, 132, 134, 135, 142, 152], "averag": [4, 6, 15, 17, 32, 39, 45, 48, 49, 53, 67, 97, 101, 114, 126, 131, 135, 136, 152, 154, 157], "geophys": [4, 16, 17, 23, 45, 48, 73, 139], "flow": [4, 16, 17, 18, 23, 32, 33, 45, 46, 48, 73, 91, 108, 124, 131, 139, 142, 152, 157], "geoclaw": [4, 7, 12, 17, 23, 24, 28, 30, 32, 33, 34, 36, 38, 41, 43, 44, 52, 53, 55, 56, 57, 58, 59, 60, 64, 66, 68, 70, 73, 76, 80, 91, 100, 106, 108, 109, 111, 130, 131, 132, 134, 135, 137, 139, 140, 148, 149, 150, 151, 152, 153, 154, 155, 156, 157], "parallel": [4, 22, 23, 44, 71, 82, 88, 90, 91, 93, 96, 98, 100, 104, 110, 111, 119, 140], "scale": [4, 30, 49, 51, 67, 73, 91, 92, 113, 119, 121, 126, 142], "ten": [4, 73], "thousand": [4, 73], "core": [4, 12, 73, 111, 121], "wish": [4, 13, 14, 15, 22, 29, 35, 36, 48, 51, 58, 67, 75, 76, 91, 96, 99, 100, 102, 106, 108, 110, 119, 136, 144, 146, 147, 155], "discrib": 4, "book": [4, 12, 17, 25, 29, 80, 98, 131], "levequ": [4, 16, 17, 24, 30, 52, 73, 87, 89, 91, 99, 105, 131, 139, 157, 160], "fvmhp": [4, 12, 16, 17, 25, 73, 131, 139, 157, 160], "virtual": [4, 13, 25, 27, 101], "were": [4, 6, 14, 18, 20, 32, 44, 54, 60, 63, 67, 68, 84, 110, 113, 119, 122, 126, 133, 135, 152], "4": [4, 7, 8, 9, 13, 16, 17, 18, 23, 25, 28, 30, 32, 33, 34, 36, 38, 39, 41, 42, 44, 45, 48, 51, 53, 54, 55, 62, 63, 64, 66, 67, 71, 76, 77, 79, 90, 91, 92, 93, 94, 96, 97, 99, 100, 104, 106, 110, 111, 113, 118, 121, 126, 127, 130, 133, 139, 140, 141, 142, 143, 150, 151, 152, 154, 159], "3": [4, 6, 7, 15, 16, 20, 22, 24, 25, 30, 32, 33, 36, 38, 42, 44, 45, 51, 53, 55, 58, 59, 64, 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133, 134, 135, 140, 141], "http": [4, 12, 13, 17, 18, 24, 26, 28, 29, 30, 39, 47, 51, 52, 54, 55, 57, 58, 60, 61, 66, 68, 70, 80, 81, 84, 85, 92, 94, 96, 105, 106, 116, 118, 119, 120, 122, 123, 126, 127, 128, 129, 132, 148, 154], "www": [4, 13, 17, 30, 39, 45, 54, 60, 61, 66, 68, 81, 84, 89, 92, 94, 120, 122, 148, 154], "org": [4, 17, 45, 52, 54, 55, 60, 61, 81, 84, 85, 89, 92, 94, 105, 106, 118, 120, 122, 126, 127, 128, 154], "doi": [4, 17, 52, 55, 57, 124, 125, 126, 127, 128, 129], "10": [4, 17, 30, 32, 39, 51, 52, 53, 55, 77, 83, 86, 89, 110, 118, 119, 121, 124, 125, 126, 127, 128, 129, 133, 139, 140, 141, 143, 152], "5281": [4, 55, 124, 125, 126, 127, 128, 129], "zenodo": [4, 57, 124, 125, 126, 127, 128, 129], "4025432": [4, 125, 129], "here": [4, 13, 16, 29, 38, 39, 48, 55, 58, 59, 66, 73, 77, 79, 83, 86, 91, 92, 94, 96, 97, 102, 103, 106, 108, 110, 117, 131, 132, 133, 149, 154, 160], "bibtex": [4, 55], "misc": [4, 123, 125], "url": [4, 12, 17, 51, 55, 121, 122, 152, 154], "year": 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147, 152, 155, 157], "multipl": [4, 5, 6, 13, 23, 28, 32, 33, 39, 44, 76, 83, 89, 92, 93, 104, 106, 111, 113, 119, 123, 130, 131, 140, 148, 149], "past": [4, 21, 25, 54, 60, 66, 98, 119, 122, 126, 129, 133, 134, 142], "17605": [4, 55, 129], "osf": [4, 129], "io": [4, 54, 55, 80, 93, 98, 129], "kmw6h": [4, 55, 129], "recent": [4, 13, 22, 27, 30, 50, 54, 57, 62, 64, 71, 77, 79, 80, 118, 122, 123, 124, 125, 126, 127, 128, 129, 131, 156], "articl": [4, 17, 91, 144], "m": [4, 17, 20, 22, 28, 30, 44, 47, 51, 52, 54, 55, 59, 66, 67, 70, 72, 84, 110, 116, 131, 133, 142, 154, 157, 160], "d": [4, 7, 17, 28, 30, 47, 51, 59, 88, 97, 106, 111, 131], "l": [4, 7, 17, 32, 40, 57, 110, 131, 137, 141], "hadjimichael": [4, 17, 81], "2016": [4, 17, 24, 54], "build": [4, 17, 28, 29, 54, 55, 67, 84, 94, 104, 120, 133], "open": [4, 13, 17, 25, 28, 29, 30, 51, 59, 76, 81, 85, 89, 92, 104, 133, 137, 156, 158], "sourc": [4, 17, 23, 25, 28, 30, 41, 45, 51, 52, 54, 55, 57, 58, 59, 61, 63, 64, 76, 81, 84, 88, 89, 90, 99, 100, 102, 103, 104, 108, 109, 111, 119, 120, 121, 132, 134, 139, 141, 142, 143, 145, 146, 147, 148, 152], "ecosystem": [4, 17], "pde": [4, 5, 17, 56, 57, 58, 73, 80, 91, 103, 139, 157], "peerj": [4, 17], "scienc": [4, 17, 81], "7717": [4, 17], "c": [4, 16, 17, 28, 29, 30, 41, 51, 59, 61, 77, 81, 83, 84, 89, 97, 102, 103, 131], "68": [4, 17], "mandli2016clawpack": [4, 17], "yianni": [4, 17, 81], "journal": [4, 17, 52, 91, 144], "e68": [4, 17], "publish": [4, 17, 54, 91], "inc": [4, 17, 67], "least": [4, 5, 6, 13, 51, 59, 66, 67, 102, 110, 111, 118, 119, 126, 139, 141, 152, 154], "regard": [4, 38, 118, 148], "click": [4, 12, 13, 18, 28, 51, 54, 111, 120, 129], "link": [4, 11, 13, 15, 17, 18, 19, 20, 24, 25, 28, 41, 42, 45, 51, 52, 53, 54, 55, 57, 59, 68, 105, 106, 107, 120, 129, 131, 132, 134, 136, 143, 146, 147, 152, 156], "classic": [4, 6, 12, 15, 16, 19, 20, 22, 23, 24, 28, 41, 42, 43, 46, 55, 56, 57, 58, 63, 69, 71, 72, 73, 80, 81, 83, 86, 88, 89, 90, 91, 92, 96, 106, 107, 111, 130, 131, 136, 137, 140, 142, 147, 155, 157], "2d": [4, 7, 8, 15, 16, 19, 22, 25, 27, 32, 38, 39, 45, 47, 52, 59, 67, 71, 76, 81, 83, 89, 91, 95, 99, 105, 107, 110, 117, 119, 120, 121, 122, 123, 126, 132, 133, 135, 136, 139, 140, 143, 146, 147, 154, 158, 160], "leveque97": [4, 17], "3d": [4, 7, 15, 22, 30, 67, 71, 76, 81, 91, 95, 99, 107, 110, 113, 115, 117, 118, 119, 122, 131, 133, 136, 139, 140, 146, 147, 158, 160], "langsethleveque00": [4, 17], "amr": [4, 7, 8, 16, 18, 20, 23, 25, 27, 28, 32, 34, 38, 44, 45, 52, 59, 67, 72, 73, 76, 81, 89, 118, 120, 121, 122, 124, 126, 135, 138, 139, 141, 143, 151, 157], "bergerleveque98": [4, 6, 7, 17], "f": [4, 5, 6, 16, 20, 22, 25, 27, 28, 31, 62, 63, 68, 72, 84, 86, 92, 93, 96, 97, 99, 101, 102, 104, 113, 117, 120, 121, 122, 126, 132, 139, 140, 141, 143, 154, 155, 157], "balelevmitross02": [4, 17, 139, 160], "bergergeorgelevequemandli11": [4, 17], "levequegeorgeberg": [4, 17], "order": [4, 5, 6, 13, 16, 17, 29, 30, 32, 48, 53, 58, 63, 66, 67, 70, 72, 73, 77, 79, 80, 81, 83, 86, 87, 89, 91, 92, 93, 95, 96, 99, 103, 104, 105, 106, 110, 117, 121, 126, 131, 133, 135, 138, 139, 140, 141, 143, 148, 152, 154, 155, 157, 160], "sharpclaw": [4, 23, 25, 73, 81, 88, 90, 91, 96, 113, 131], "ketparlev13": [4, 17, 73, 91, 131], "ketchesonmandliet": [4, 17], "support": [4, 8, 13, 18, 22, 38, 41, 48, 51, 56, 57, 70, 80, 81, 83, 84, 89, 92, 93, 95, 97, 99, 110, 117, 119, 120, 121, 122, 126, 127, 131, 133, 139, 140, 142, 148, 149, 152, 155, 158], "part": [4, 5, 22, 24, 30, 45, 48, 58, 59, 60, 68, 81, 84, 94, 100, 101, 103, 105, 109, 111, 123, 157], "nsf": 4, "grant": [4, 81], "dm": 4, "8657319": 4, "9204329": 4, "9303404": 4, "9505021": 4, "96226645": 4, "9803442": 4, "0106511": 4, "cm": [4, 30, 70, 77, 133], "0245206": 4, "0609661": 4, "0914942": 4, "1216732": 4, "ear": 4, "1331412": 4, "cmmi": 4, "1536198": 4, "doe": [4, 5, 11, 16, 18, 20, 27, 28, 39, 40, 48, 51, 53, 54, 58, 67, 73, 77, 80, 89, 98, 101, 104, 110, 111, 114, 119, 123, 126, 130, 131, 132, 135, 148, 154, 155, 157], "de": [4, 17, 81, 91, 133], "fg06": 4, "93er25181": 4, "fg03": 4, "96er25292": 4, "fg02": 4, "88er25053": 4, "92er25139": 4, "00er2592": 4, "fc02": 4, "01er25474": 4, "afosr": 4, "f49620": 4, "94": 4, "0132": 4, "nih": 4, "5r01ar53652": 4, "onr": 4, "n00014": 4, "09": [4, 89, 97, 151], "0649": 4, "council": 4, "nfr": 4, "through": [4, 13, 28, 35, 36, 44, 48, 51, 66, 67, 73, 76, 84, 96, 101, 103, 104, 106, 109, 110], "program": [4, 46, 48, 63, 73], "101039": 4, "420": 4, "scientif": [4, 17, 80, 91, 94, 105], "divis": [4, 51], "nation": [4, 48, 148], "center": [4, 5, 27, 30, 32, 33, 39, 44, 51, 53, 59, 70, 83, 89, 96, 97, 103, 110, 121, 133, 135, 140, 141, 142, 148, 149, 152, 157], "atmospher": 4, "ncar": 4, "boe": 4, "professorship": 4, "founder": 4, "depart": [4, 148], "mathemat": 4, "comot": 4, "fellowship": 4, "king": [4, 81], "abdullah": [4, 81], "technologi": [4, 81], "contract": [4, 61, 81], "state": [4, 13, 17, 25, 28, 54, 70, 77, 83, 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18, 19, 22, 30, 32, 38, 41, 44, 45, 48, 51, 58, 59, 63, 66, 67, 70, 77, 83, 89, 92, 94, 96, 98, 104, 106, 110, 111, 114, 117, 118, 119, 120, 121, 126, 130, 133, 134, 140, 142, 148, 152, 154, 155, 157, 160], "shift": [5, 30, 48, 53], "perform": [5, 6, 17, 22, 27, 48, 51, 53, 71, 73, 76, 77, 86, 89, 92, 96, 99, 104, 111, 123, 126, 130, 131, 137, 142, 150], "snapshot": [5, 28, 93, 122], "save": [5, 13, 25, 26, 39, 50, 59, 72, 86, 90, 99, 118, 119, 121, 126, 130, 149, 154], "space": [5, 6, 7, 16, 17, 18, 30, 32, 33, 44, 51, 53, 70, 89, 93, 96, 110, 117, 130, 133, 139, 140, 141, 142, 143, 152, 154, 157], "interpol": [5, 6, 16, 18, 30, 33, 34, 39, 44, 45, 53, 59, 67, 70, 77, 119, 126, 133, 134, 135, 142, 148, 149, 154], "regrid": [5, 10, 110, 113, 114, 119, 122, 123, 140, 141, 151], "davisleveque2018": [5, 17], "davis2018": [5, 17], "discuss": [5, 24, 28, 30, 48, 53, 66, 70, 92, 103, 105, 106, 110, 119, 121, 131, 142, 160], "when": [5, 14, 15, 16, 18, 20, 28, 29, 30, 32, 39, 40, 41, 44, 49, 50, 51, 53, 54, 55, 57, 58, 60, 64, 66, 67, 70, 71, 72, 73, 76, 77, 79, 83, 90, 91, 92, 94, 95, 99, 102, 106, 110, 111, 113, 114, 116, 118, 119, 120, 124, 126, 128, 131, 133, 134, 135, 136, 138, 139, 140, 141, 142, 143, 144, 148, 152, 154, 155, 156, 157, 158, 160], "accur": [5, 48, 70, 91, 99, 126, 139, 157, 160], "entir": [5, 6, 38, 48, 51, 59, 66, 70, 71, 73, 83, 93, 98, 108, 110, 114, 133, 154], "domain": [5, 6, 16, 17, 18, 33, 38, 39, 48, 51, 54, 59, 70, 72, 82, 83, 84, 86, 94, 96, 98, 101, 108, 110, 140, 141, 143, 152], "rather": [5, 6, 18, 20, 22, 28, 29, 32, 39, 54, 55, 58, 62, 63, 64, 69, 70, 89, 94, 96, 99, 106, 107, 110, 117, 118, 119, 121, 123, 124, 126, 129, 130, 133, 138, 139, 140, 148, 149, 152, 154, 157, 160], "dimens": [5, 6, 7, 16, 20, 22, 25, 44, 47, 53, 59, 67, 83, 84, 86, 92, 94, 96, 97, 98, 101, 103, 110, 121, 124, 131, 139, 140, 141, 143, 154, 157], "int_a": 5, "phi": 5, "dx": [5, 15, 30, 32, 33, 47, 53, 60, 70, 72, 84, 89, 93, 117, 121, 136, 152, 154, 157], 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83, 86, 93, 103, 108, 113, 130, 132, 139, 141, 143, 154], "necessari": [5, 6, 13, 35, 36, 46, 48, 51, 54, 55, 58, 59, 67, 70, 72, 73, 79, 83, 84, 89, 92, 117, 119, 121, 130, 131, 138, 139, 140, 152, 155, 157], "place": [5, 16, 20, 24, 28, 35, 36, 51, 54, 58, 62, 63, 69, 91, 93, 94, 96, 100, 106, 113, 119, 157], "earlier": [5, 20, 22, 30, 32, 38, 53, 70, 83, 96, 113, 120, 152, 154], "help": [5, 7, 9, 23, 24, 25, 28, 29, 39, 40, 49, 54, 56, 62, 76, 79, 91, 94, 100, 104, 111, 118, 124, 131, 144, 155], "identifi": [5, 35, 36, 39, 51, 66, 84, 110, 124, 148], "hat": 5, "given": [5, 30, 39, 47, 51, 53, 59, 64, 67, 70, 87, 94, 98, 99, 101, 104, 110, 126, 133, 134, 135, 142, 152, 154, 157], "t_r": 5, "reach": [5, 110], "claw": [5, 6, 8, 11, 12, 13, 14, 15, 16, 18, 19, 20, 22, 24, 28, 30, 32, 33, 35, 36, 37, 38, 40, 41, 43, 44, 45, 47, 49, 50, 52, 54, 55, 57, 58, 59, 62, 63, 67, 69, 70, 71, 78, 83, 86, 88, 91, 92, 93, 94, 100, 102, 106, 107, 108, 109, 110, 111, 113, 114, 116, 117, 120, 121, 123, 131, 135, 136, 141, 142, 143, 145, 146, 147, 150, 151, 152, 154, 155, 157, 158], "acoustics_1d_adjoint": 5, "acoustics_2d_adjoint": 5, "main": [5, 11, 12, 19, 28, 39, 43, 54, 55, 66, 67, 73, 84, 86, 92, 96, 103, 104, 111, 120], "subdirectori": [5, 12, 18, 20, 22, 23, 35, 36, 54, 55, 58, 62, 69, 79, 88, 93, 106, 111, 138, 142, 144, 150, 154], "must": [5, 6, 13, 16, 20, 22, 28, 30, 32, 39, 43, 46, 51, 54, 57, 61, 62, 63, 66, 67, 70, 71, 72, 81, 84, 91, 92, 93, 96, 98, 99, 101, 102, 103, 104, 106, 110, 113, 117, 131, 133, 134, 135, 139, 140, 141, 142, 143, 148, 154, 155, 156, 157, 160], "makefil": [5, 6, 11, 14, 15, 16, 19, 20, 23, 25, 28, 35, 36, 41, 54, 68, 71, 73, 77, 79, 84, 90, 91, 110, 113, 117, 119, 121, 122, 124, 135, 136, 139, 141, 142, 143, 144, 146, 147, 152, 155, 157], "coeffici": [5, 64, 96, 97, 99, 101, 102, 103, 131, 142], "matric": [5, 131, 160], "transpos": 5, "vice": 5, "versa": 5, "q_t": [5, 96, 97, 99, 103, 157, 160], "q_x": [5, 97, 103, 160], "_x": [5, 39, 66, 97, 99, 154, 157, 160], "eigenvalu": 5, "unchang": [5, 67], "upon": [5, 101], "transform": [5, 41], "eigenvector": [5, 131, 160], "now": [5, 6, 7, 13, 18, 20, 22, 24, 26, 28, 29, 30, 32, 33, 38, 39, 41, 50, 53, 54, 55, 60, 64, 66, 70, 72, 77, 83, 84, 89, 91, 92, 93, 94, 95, 96, 98, 99, 100, 103, 108, 110, 111, 113, 114, 117, 118, 119, 120, 121, 123, 124, 126, 127, 134, 138, 140, 142, 144, 152, 159], "right": [5, 32, 61, 64, 70, 81, 89, 94, 96, 97, 101, 103, 126, 130, 131, 133, 160], "src": [5, 6, 11, 14, 15, 16, 19, 20, 28, 29, 30, 32, 33, 39, 40, 41, 47, 50, 52, 55, 58, 59, 62, 63, 67, 70, 71, 78, 95, 96, 104, 106, 107, 110, 111, 114, 117, 118, 120, 121, 122, 123, 124, 126, 131, 135, 136, 139, 141, 143, 146, 154, 155, 160], "rp1_acoustics_variable_adjoint": 5, "f90": [5, 9, 15, 20, 31, 32, 39, 44, 52, 62, 63, 71, 80, 96, 107, 110, 113, 117, 119, 121, 122, 123, 124, 126, 127, 131, 132, 135, 136, 146, 147, 152, 155, 157], "boundari": [5, 7, 20, 25, 39, 51, 59, 63, 66, 70, 71, 84, 89, 97, 99, 103, 108, 114, 117, 121, 133, 139, 141, 143], "condit": [5, 7, 20, 25, 61, 63, 73, 81, 82, 83, 84, 86, 93, 99, 107, 113, 114, 117, 121, 134, 139, 141, 142, 143], "adjust": [5, 13, 20, 32, 33, 45, 59, 89, 93, 134, 139, 157], "principl": [5, 154, 157], "vanish": 5, "dure": [5, 22, 32, 39, 44, 59, 70, 73, 113, 134, 135, 141, 142, 143, 152], "integr": [5, 22, 53, 60, 81, 91, 93, 99, 113, 114, 118, 141, 143, 151, 152, 157], "qinit": [5, 20, 22, 39, 45, 62, 63, 84, 126, 134, 135, 157], "setrun": [5, 6, 7, 8, 14, 16, 18, 19, 20, 25, 32, 33, 35, 36, 38, 39, 40, 42, 45, 46, 48, 59, 60, 62, 64, 66, 72, 73, 77, 91, 107, 108, 110, 113, 117, 118, 119, 122, 124, 126, 130, 131, 134, 135, 148, 152, 155, 157], "clawdata": [5, 38, 113, 117, 130, 139, 140, 141, 142, 143], "tfinal": [5, 83, 86, 103, 130, 139, 141, 143], "via": [5, 13, 22, 23, 24, 28, 29, 30, 35, 36, 41, 42, 44, 46, 48, 51, 54, 55, 57, 58, 60, 62, 66, 67, 70, 71, 73, 77, 80, 83, 89, 92, 95, 98, 100, 102, 106, 110, 111, 121, 124, 131, 133, 137, 144, 146, 147, 152, 154, 157], "num_output_tim": [5, 83, 86, 93, 130, 139, 141, 143], "larg": [5, 6, 12, 18, 20, 35, 36, 39, 48, 51, 53, 54, 67, 71, 76, 91, 93, 94, 110, 111, 118, 126, 130, 133, 135, 139, 140, 154, 156], "frequent": [5, 18, 20, 27, 102, 118], "enough": [5, 54, 66, 140, 149, 151, 152], "them": [5, 13, 18, 22, 28, 29, 30, 32, 44, 51, 54, 67, 68, 73, 81, 83, 88, 92, 93, 94, 96, 104, 108, 111, 114, 123, 133, 145, 148, 154, 157], "reason": [5, 48, 51, 59, 70, 71, 73, 94, 96, 110, 139], "output_format": [5, 18, 86, 93, 139, 141, 143], "binari": [5, 18, 41, 55, 61, 68, 81, 92, 93, 95, 118, 130, 139, 141, 154, 158], "so": [5, 6, 8, 9, 13, 16, 18, 19, 22, 27, 28, 29, 30, 32, 33, 35, 36, 38, 39, 40, 41, 42, 44, 48, 49, 51, 52, 53, 54, 55, 56, 59, 60, 62, 63, 66, 67, 70, 71, 72, 73, 76, 77, 80, 83, 84, 85, 92, 93, 96, 101, 103, 104, 108, 110, 111, 113, 114, 118, 119, 120, 121, 122, 123, 124, 126, 131, 133, 134, 135, 138, 139, 140, 141, 148, 151, 152, 154, 156, 157, 158], "manner": [5, 39, 44, 51, 60, 66, 70, 76, 121, 135, 139, 146, 147, 152], "v5": [5, 14, 29, 32, 38, 52, 54, 55, 57, 58, 63, 98, 105, 106, 110, 129, 134, 135, 140, 142], "attribut": [5, 7, 22, 30, 38, 44, 66, 70, 76, 78, 79, 83, 86, 89, 92, 94, 96, 98, 99, 110, 113, 118, 122, 130, 138, 139, 140, 142, 148, 154], "clawutil": [5, 11, 14, 19, 20, 23, 28, 40, 41, 50, 55, 56, 57, 62, 106, 111, 137, 139, 140, 141, 143, 154, 155], "clawrundata": [5, 44, 59, 122, 130, 139, 140, 141, 143], "adjointdata": [5, 122, 123], "ia": 5, "attribur": 5, "toler": [5, 32, 97, 104, 110, 111, 119, 140, 141, 142], "rundata": [5, 22, 32, 38, 39, 44, 59, 60, 110, 113, 124, 130, 135, 139, 140, 141, 142, 143], "use_adjoint": 5, "adjoint_outdir": 5, "abspath": [5, 38], "_output": [5, 13, 14, 32, 35, 36, 44, 50, 60, 67, 77, 79, 88, 93, 95, 98, 118, 125, 155], "period": [5, 6, 16, 32, 62, 83, 96, 110, 139, 141, 143], "t1": [5, 38, 44, 59, 60, 110, 126, 140, 141, 142], "t0": [5, 130, 139, 141, 142, 143, 152], "t2": [5, 38, 44, 59, 60, 110, 126, 140, 141, 142], "addit": [5, 7, 13, 16, 18, 23, 24, 28, 29, 32, 36, 37, 38, 45, 46, 59, 66, 70, 72, 73, 77, 78, 84, 87, 89, 91, 93, 99, 100, 101, 108, 110, 117, 119, 120, 121, 122, 125, 126, 128, 131, 133, 139, 143, 148, 151, 152, 157, 158], "aux": [5, 6, 15, 20, 22, 27, 44, 53, 84, 91, 92, 93, 96, 98, 99, 101, 102, 113, 114, 119, 121, 131, 132, 136, 139, 140, 141, 142, 143, 157], "inner": [5, 110, 122], "product": [5, 30, 61, 81, 104, 110, 122], "amrdata": [5, 22, 32, 110, 124, 126, 140, 141, 142], "aux_typ": [5, 140, 141], "append": [5, 20, 32, 38, 39, 44, 51, 60, 77, 86, 98, 110, 118, 119, 130, 131, 141], "num_aux": [5, 84, 92, 94, 96, 97, 101, 131, 139, 140, 141, 143, 157], "len": [5, 30, 89, 141, 143, 154], "innerprod_index": 5, "base": [5, 6, 13, 18, 20, 21, 22, 28, 29, 30, 32, 33, 45, 47, 51, 52, 53, 54, 59, 60, 63, 64, 66, 67, 70, 73, 84, 86, 87, 89, 91, 92, 97, 98, 99, 101, 103, 104, 110, 112, 117, 120, 122, 126, 134, 139, 140, 141, 142, 143, 148, 154, 157, 160], "richardson": [5, 7, 22, 140, 141], "error": [5, 16, 20, 35, 36, 40, 51, 58, 67, 71, 77, 86, 91, 92, 93, 104, 110, 111, 122, 126, 140, 141, 148, 155], "estimat": [5, 141], "flag_richardson": [5, 110, 118, 140, 141], "flag_richardson_tol": [5, 110, 140, 141], "1e": [5, 66, 143], "flag2refin": [5, 7, 22, 140, 141], "flag2refine_tol": [5, 110, 140, 141], "01": [5, 39, 72, 89, 154], "we": [5, 6, 18, 22, 24, 26, 29, 32, 35, 36, 38, 39, 44, 48, 51, 53, 54, 55, 56, 58, 63, 66, 70, 76, 79, 83, 84, 85, 86, 88, 89, 92, 93, 94, 95, 96, 99, 100, 101, 102, 103, 104, 105, 108, 111, 121, 124, 131, 132, 133, 154], "attempt": [5, 8, 11, 20, 33, 35, 36, 62, 92, 98, 104, 111, 113, 127, 148, 154, 155], "estim": [5, 64, 110, 140, 142], "step": [5, 6, 10, 16, 18, 19, 28, 32, 35, 36, 37, 44, 51, 54, 55, 60, 67, 73, 76, 79, 81, 82, 83, 84, 86, 93, 96, 99, 101, 103, 108, 110, 113, 118, 119, 130, 131, 137, 139, 140, 141, 142, 143, 152, 160], "extrapol": [5, 7, 16, 22, 96, 103, 121, 139, 140, 141, 143], "togeth": [5, 16, 18, 28, 29, 30, 54, 56, 70, 110], "experiment": [5, 81], "otherwis": [5, 30, 54, 58, 61, 66, 81, 93, 97, 98, 99, 100, 101, 104, 110, 139, 154], "simpli": [5, 13, 35, 36, 37, 39, 44, 51, 53, 62, 63, 66, 83, 85, 86, 88, 93, 94, 100, 111, 131, 133, 144, 148, 154, 157, 158], "magnitud": [5, 30, 110, 121, 142], "greater": [5, 32, 59, 64, 66, 100, 110, 130, 139, 140, 142], "model": [5, 12, 16, 17, 24, 25, 30, 32, 41, 45, 46, 52, 53, 64, 93, 110, 118, 123, 124, 125, 133, 134, 135, 142, 148, 149, 152], "davisleveque2016": [5, 17], "chile2010_adjoint": 5, "shallow": [5, 15, 16, 17, 25, 32, 39, 45, 48, 52, 66, 73, 84, 91, 107, 114, 115, 117, 119, 121, 122, 131, 135, 136, 142, 146, 147, 152, 157], "water": [5, 16, 17, 25, 39, 44, 45, 46, 47, 48, 59, 66, 73, 76, 84, 91, 114, 115, 119, 121, 122, 131, 133, 134, 135, 142, 152, 154, 156, 157], "while": [5, 13, 16, 30, 39, 51, 67, 70, 77, 79, 84, 89, 93, 94, 99, 104, 121, 131, 135, 142, 156], "suitabl": [5, 8, 16, 20, 45, 48, 51, 98, 109, 131, 134, 148, 154], "To": [5, 6, 13, 14, 18, 22, 25, 28, 29, 35, 36, 37, 38, 39, 40, 44, 46, 49, 51, 52, 55, 62, 65, 66, 67, 70, 71, 72, 77, 79, 80, 83, 85, 87, 88, 91, 92, 93, 94, 95, 96, 99, 100, 103, 106, 108, 109, 110, 111, 117, 119, 122, 123, 124, 125, 126, 127, 128, 130, 134, 137, 139, 140, 144, 152, 158], "date": [5, 28, 40, 47, 51, 54, 55, 62, 77, 148, 155], "across": [5, 110, 119, 152, 154], "ocean": [5, 16, 17, 32, 48, 51, 108, 110, 133, 146, 147, 152], "wai": [5, 6, 13, 16, 26, 28, 35, 36, 38, 39, 44, 51, 53, 54, 57, 58, 59, 61, 62, 77, 79, 80, 81, 83, 86, 88, 89, 94, 96, 98, 100, 103, 105, 106, 108, 109, 113, 119, 120, 121, 124, 129, 131, 133, 138, 139, 145, 149, 152, 157, 159, 160], "target": [5, 58, 77, 84, 96, 124], "possibli": [5, 30, 66, 83, 89, 106, 118, 135], "deep": [5, 66], "amplitud": [5, 119], "compar": [5, 22, 36, 44, 48, 51, 55, 77, 93, 110, 111, 134, 140, 142, 150, 156, 160], "essenti": [5, 53, 67, 99, 142, 152], "rest": [5, 22, 79, 108, 121, 134, 146, 147, 152, 154], "henc": [5, 32, 53, 54, 63, 99, 105, 106, 110, 135], "take": [5, 6, 22, 27, 28, 30, 32, 47, 54, 64, 66, 67, 70, 77, 83, 89, 96, 99, 103, 104, 105, 110, 111, 116, 122, 135, 139, 140, 141, 142, 154, 157, 160], "rpn2_geoclaw_adjoint_qwav": 5, "rpt2_geoclaw_adjoint_qwav": 5, "non": [5, 16, 55, 66, 73, 84, 96, 103, 122, 124, 139, 141, 143, 148, 160], "vector": [5, 18, 22, 83, 87, 93, 101, 121, 131, 132], "split": [5, 6, 71, 89, 92, 99, 117, 118, 126, 139, 140, 141, 143, 151, 157, 160], "flux": [5, 17, 32, 89, 97, 99, 131, 139, 160], "comment": [5, 11, 18, 24, 49, 55, 120, 130], "rpn2": [5, 131], "basic": [6, 10, 12, 25, 30, 35, 37, 45, 57, 66, 67, 83, 89, 91, 92, 93, 97, 99, 111, 131, 132, 148, 160], "strategi": 6, "logic": [6, 16, 17, 32, 126], "rectangular": [6, 7, 16, 17, 18, 30, 32, 38, 39, 45, 46, 59, 66, 89, 110, 121, 124, 140, 142, 152], "cover": [6, 7, 27, 28, 30, 32, 38, 39, 51, 59, 66, 70, 110, 114, 119, 135, 141, 152], "too": [6, 47, 51, 54, 55, 118, 133, 141, 143], "portion": [6, 18, 39, 51, 66, 84, 151], "factor": [6, 51, 140, 142, 151, 154], "direct": [6, 8, 16, 22, 30, 32, 35, 36, 44, 47, 51, 55, 59, 61, 62, 67, 70, 71, 77, 81, 86, 96, 103, 110, 120, 131, 139, 140, 142, 154], "anisotrop": [6, 22], "further": [6, 16, 18, 25, 32, 41, 48, 59, 62, 67, 91, 105, 110, 111, 140], "perhap": [6, 12, 32, 39, 44, 54, 77, 101, 104, 110, 133], "ratio": [6, 15, 22, 49, 67, 70, 87, 97, 99, 136, 139, 140, 141], "And": [6, 20, 54, 57], "section": [6, 13, 16, 35, 36, 39, 41, 46, 48, 54, 55, 63, 67, 76, 79, 91, 111, 126, 130, 139, 142, 154], "cfl": [6, 89, 93, 99, 103, 113, 118, 139, 141, 142, 143], "spatial": [6, 17, 25, 30, 38, 39, 45, 64, 96, 110, 113, 117, 124, 126, 131, 134, 140, 141, 143, 160], "reduc": [6, 16, 18, 39, 51, 118, 120, 160], "thu": [6, 47, 93, 96, 121, 148], "proce": [6, 28], "advanc": [6, 17, 52, 66, 71, 103, 118, 139, 140, 157], "taken": [6, 32, 66, 70, 93, 99, 110, 139, 157], "around": [6, 30, 32, 39, 59, 92, 108, 111, 124, 140, 141, 148, 154, 157], "librari": [6, 13, 15, 16, 20, 22, 25, 27, 28, 32, 35, 36, 41, 44, 52, 59, 62, 68, 71, 72, 73, 81, 87, 92, 94, 99, 104, 106, 107, 110, 119, 124, 135, 136, 140, 146, 147, 155, 157], "bcnamr": [6, 16, 121, 139, 141, 157], "check": [6, 14, 15, 16, 20, 32, 35, 36, 40, 41, 50, 51, 52, 54, 55, 56, 58, 62, 67, 77, 80, 83, 84, 86, 91, 94, 98, 99, 101, 103, 104, 106, 107, 110, 114, 123, 133, 135, 136, 140, 141, 146, 147, 148, 154, 155, 156, 157], "denot": [6, 22, 44, 53, 131, 154], "procedur": [6, 16, 39, 45, 55, 157], "updat": [6, 12, 13, 22, 23, 25, 32, 49, 52, 57, 58, 60, 79, 91, 99, 101, 102, 105, 108, 113, 117, 119, 120, 121, 122, 123, 124, 131, 140, 141, 143, 145, 148, 151, 157], "consist": [6, 18, 25, 32, 47, 51, 55, 59, 94, 105, 119, 131, 133, 142, 152, 157], "replac": [6, 13, 18, 29, 38, 44, 48, 52, 54, 55, 57, 60, 62, 76, 84, 88, 92, 94, 95, 96, 97, 101, 104, 111, 113, 119, 121, 123, 124, 130, 131, 135, 154, 155], "ly": [6, 66], "within": [6, 16, 28, 29, 54, 58, 66, 73, 77, 95, 104, 106, 110, 131, 133, 138, 144, 154], "approxim": [6, 16, 25, 33, 48, 51, 70, 131], "lead": [6, 13, 22, 32, 48, 51, 64, 67, 70, 106, 109, 126, 135, 140], "total": [6, 30, 51, 70, 93, 99, 139, 140, 141, 143, 151], "mass": [6, 93], "restor": 6, "global": [6, 14, 89, 101, 104, 134, 152, 156, 157], "fix": [6, 18, 19, 20, 22, 25, 33, 38, 45, 54, 55, 59, 60, 62, 66, 81, 92, 97, 113, 114, 115, 116, 117, 118, 119, 120, 122, 123, 124, 125, 126, 127, 128, 132, 139, 141, 143, 154], "up": [6, 13, 22, 28, 29, 30, 32, 35, 36, 39, 40, 44, 45, 51, 54, 55, 59, 62, 66, 67, 70, 77, 83, 84, 86, 88, 90, 91, 92, 94, 99, 100, 103, 106, 108, 110, 111, 117, 118, 121, 124, 126, 133, 135, 138, 141, 143, 151, 152, 155, 156], "style": [6, 22, 28, 30, 38, 49, 51, 66, 72, 77, 81, 86, 121, 142], "often": [6, 11, 13, 16, 20, 27, 29, 32, 35, 36, 40, 41, 44, 45, 48, 49, 50, 59, 60, 64, 70, 72, 93, 105, 106, 110, 111, 126, 130, 131, 133, 134, 135, 138, 139, 142, 148, 152, 156, 157, 160], "olig": [6, 17], "colella": [6, 17], "bergeroliger84": [6, 17], "bergercolella89": [6, 17], "fortran": [6, 9, 11, 13, 14, 18, 20, 23, 27, 28, 30, 32, 33, 35, 44, 45, 46, 53, 56, 58, 62, 63, 64, 71, 72, 73, 76, 79, 81, 83, 84, 86, 89, 91, 92, 94, 96, 97, 99, 100, 101, 104, 106, 117, 118, 119, 121, 122, 123, 131, 132, 137, 140, 141, 142, 143, 148, 150, 151, 152], "written": [6, 11, 25, 30, 32, 40, 44, 58, 59, 60, 61, 70, 72, 73, 77, 81, 90, 91, 92, 96, 119, 131, 139, 140, 141, 142, 143, 148, 154, 157], "ga": [6, 97], "dynam": [6, 20, 30, 48, 70, 73, 140], "merg": [6, 13, 25, 28, 52, 54, 55, 58, 117], "earli": [6, 20, 135], "dai": [6, 13, 51, 142], "mjb": [6, 17], "rjl": [6, 17, 106, 123], "fulli": [6, 48, 51, 52, 120, 124, 131, 142, 148, 149], "consid": [6, 39, 48, 58, 66, 84, 106, 137, 144, 154], "adjac": [6, 16, 32, 45, 110, 135, 139], "equival": [6, 18, 44, 52, 53, 59, 60, 123, 152], "copi": [6, 14, 15, 16, 35, 36, 44, 51, 54, 55, 58, 67, 83, 86, 96, 101, 107, 108, 109, 110, 114, 118, 121, 125, 135, 136, 140, 144, 146, 147, 152, 157], "interior": [6, 16, 39, 72, 101], "howev": [6, 13, 16, 22, 29, 32, 35, 36, 39, 41, 46, 48, 51, 58, 61, 63, 66, 70, 71, 72, 81, 84, 91, 110, 111, 119, 121, 123, 134, 135, 138, 142, 151], "lie": [6, 32, 33, 66, 110, 124, 133], "outsid": [6, 16, 38, 59, 66, 124, 133, 135, 152, 154], "li": [6, 16, 32, 110, 133, 142], "along": [6, 14, 16, 24, 27, 30, 32, 39, 44, 51, 54, 57, 68, 70, 106, 110, 117, 130, 133, 135, 142, 156], "proper": [6, 15, 39, 44, 52, 53, 55, 59, 64, 66, 67, 92, 104, 113, 119, 136, 140, 141, 146, 147, 148, 157], "unless": [6, 32, 40, 41, 59, 97, 105, 134, 139, 140, 154], "standard": [6, 16, 30, 32, 51, 53, 67, 72, 84, 87, 99, 106, 110, 111, 141, 142, 143, 144, 152, 157, 160], "beyond": [6, 30, 105, 121], "modifi": [6, 9, 14, 15, 16, 20, 22, 27, 32, 35, 36, 39, 44, 45, 54, 55, 58, 60, 62, 67, 69, 77, 84, 87, 89, 91, 96, 106, 107, 108, 109, 110, 116, 118, 119, 120, 121, 126, 133, 135, 136, 139, 141, 142, 143, 146, 147, 152, 154, 157], "damag": [6, 61, 81], "bcn": [6, 16, 143, 157], "nd": [6, 16, 110, 121, 124, 157], "actual": [6, 27, 30, 32, 53, 58, 59, 67, 70, 77, 87, 92, 104, 108, 134, 142], "softwar": [6, 13, 24, 25, 29, 45, 48, 61, 68, 81, 91, 92, 93, 144, 152], "intern": [6, 30, 44, 53, 59, 70, 119, 140, 152, 154, 160], "With": [6, 22, 28, 44, 49, 51, 58, 66, 73, 110, 118, 131, 133, 139], "opposit": [6, 16, 92], "side": [6, 16, 18, 32, 51, 54, 64, 70, 92, 111, 131, 160], "everi": [6, 12, 28, 32, 44, 60, 62, 63, 83, 86, 88, 92, 93, 101, 110, 111, 119, 120, 131, 135, 137, 139, 141, 143, 148, 152, 154, 157], "few": [6, 12, 13, 22, 26, 29, 36, 48, 54, 66, 67, 84, 99, 103, 105, 110, 111, 124, 134, 150, 152, 157], "coarsest": [6, 51, 72, 113, 130, 139], "revis": [6, 119], "shock": [6, 17, 48, 99, 110], "accord": [6, 53], "criteria": [6, 7, 22, 25, 32, 66, 101], "cluster": [6, 17, 110, 140, 141], "rigoutsi": 6, "bergerrigoutsis91": [6, 17], "nonoverlap": 6, "rectangl": [6, 7, 25, 30, 66, 70, 110, 124, 154], "balanc": [6, 17, 73, 120, 132, 146, 147], "conflict": [6, 28, 58, 62, 67, 102, 106], "goal": 6, "possibl": [6, 13, 22, 26, 28, 30, 32, 44, 47, 48, 51, 61, 62, 70, 77, 81, 89, 92, 94, 95, 99, 104, 106, 110, 131, 133, 134, 139, 140, 152, 156, 157], "minim": [6, 58, 66, 92, 133, 140, 154], "overhead": [6, 71, 110, 151], "cutoff": [6, 141], "control": [6, 7, 23, 25, 32, 41, 44, 54, 58, 60, 67, 79, 82, 87, 89, 91, 92, 93, 94, 96, 110, 119, 124, 132, 142], "fraction": [6, 13, 30, 110, 139, 157, 160], "70": [6, 51], "realli": [6, 111, 157], "At": [6, 13, 27, 28, 35, 36, 39, 66, 94, 99, 103, 105, 110, 124, 139], "present": [6, 24, 59, 89, 97, 98, 99, 104, 144, 157, 160], "previous": [6, 22, 32, 66, 79, 117, 124, 135], "bilinear": [6, 32, 39, 44, 53, 113, 114, 152], "doxygen": [6, 7, 25, 120], "flowchart": [6, 7, 25], "capabl": [7, 12, 18, 22, 32, 34, 48, 52, 66, 73, 84, 91, 113, 118, 119, 121, 122, 123, 124, 125, 154, 156], "block": [7, 30, 39, 59, 70, 72, 73, 83, 92, 101, 104, 111, 157], "structur": [7, 10, 22, 32, 38, 55, 58, 62, 73, 98, 99, 119, 133, 138, 154], "input": [7, 14, 16, 20, 23, 25, 27, 30, 33, 40, 45, 51, 59, 63, 66, 67, 83, 86, 87, 89, 91, 97, 98, 99, 104, 108, 118, 121, 122, 123, 131, 141, 142, 143, 148, 149, 152, 154, 157], "indic": [7, 16, 20, 22, 25, 29, 30, 32, 38, 39, 41, 44, 45, 51, 53, 55, 58, 63, 67, 75, 79, 89, 93, 94, 97, 99, 103, 106, 110, 111, 119, 124, 126, 131, 132, 139, 140, 141, 142, 143, 152, 154, 157], "tool": [7, 8, 17, 22, 23, 28, 30, 32, 33, 35, 36, 39, 45, 46, 47, 48, 51, 53, 56, 57, 58, 59, 67, 70, 75, 76, 77, 78, 80, 91, 106, 109, 114, 115, 119, 120, 124, 125, 142, 144, 152, 154, 156, 158], "matlab": [7, 22, 25, 35, 36, 75, 76, 77, 95, 105, 121, 124, 125], "deprec": [7, 18, 30, 34, 54, 58, 117, 121, 142, 152, 154], "debug": [7, 18, 41, 62, 72, 76, 93, 101, 106, 111, 139, 141], "flag": [7, 12, 13, 22, 25, 28, 29, 38, 40, 41, 45, 52, 58, 68, 71, 84, 102, 104, 106, 117, 122, 126, 141, 142], "sampl": [7, 8, 14, 17, 18, 25, 29, 32, 41, 45, 51, 70, 106, 111, 130, 133, 139, 140, 152, 154, 157], "ghost": [7, 16, 71, 72, 89, 92, 99, 101, 119, 126, 139, 141, 143, 151, 157, 160], "flagregion": [7, 25, 66, 110, 124, 126, 133, 140, 142], "rule": [7, 13, 25, 59, 66, 84], "convex": [7, 32], "slu": 7, "bounding_box": [7, 33], "mask_outsid": [7, 66], "write": [7, 28, 30, 33, 38, 39, 44, 45, 50, 53, 54, 64, 70, 72, 73, 76, 83, 86, 89, 90, 92, 93, 94, 98, 119, 121, 141, 143, 148, 152, 154], "instanti": [7, 86, 94, 96, 99, 101, 141, 143], "make_kml": 7, "simpl": [7, 29, 35, 36, 38, 45, 55, 70, 84, 91, 96, 97, 99, 104, 109, 111, 154], "select": [7, 12, 13, 15, 16, 28, 32, 39, 66, 93, 99, 107, 110, 113, 120, 124, 129, 136, 139, 142, 146, 147, 156], "continent": [7, 66], "shelf": [7, 66], "guid": [7, 13, 17, 18, 23, 24, 25, 45, 46, 52, 57, 91, 105, 110, 120, 124, 145], "adjoint": [7, 17, 25, 52, 110, 121, 122], "gaug": [7, 18, 25, 32, 45, 59, 89, 90, 101, 108, 113, 117, 118, 119, 120, 121, 124, 130, 134, 141], "extend": [8, 16, 22, 39, 59, 66, 67, 89, 121, 133, 135, 142, 152, 154, 160], "directli": [8, 18, 19, 23, 32, 48, 57, 67, 70, 77, 79, 83, 84, 87, 91, 101, 104, 106, 121, 154, 158], "obviou": [8, 51], "elimin": [8, 22, 66, 84, 106, 121, 142], "gallery_classic_amrclaw": [8, 35], "num_cel": [8, 22, 89, 131, 139, 140, 141, 143], "refinement_ratios_i": [8, 140, 141], "sweep": [8, 131], "transvers": [8, 89, 119, 126, 131, 132, 139, 157, 160], "graph": 9, "understand": [9, 25, 35, 36, 48, 76, 91, 103, 110, 131], "filpatch": [9, 39, 119, 123, 126], "idea": [10, 24, 30, 66, 67, 73, 83, 103, 114, 154, 160], "overal": [10, 83], "who": [10, 12, 19, 22, 24, 32, 41, 48, 56], "gori": 10, "monster": 10, "column": [10, 30, 32, 44, 48, 60, 93, 97, 117, 133, 154], "markup": 11, "languag": [11, 76, 104], "restructur": [11, 54], "text": [11, 54, 55, 59, 72, 86, 92, 99, 117], "sphinx": [11, 23, 25, 55, 120], "covert": 11, "convert_readm": 11, "brows": [11, 24, 42, 51, 67, 144, 157], "insert": [11, 16, 70, 92, 137], "script": [11, 19, 20, 28, 30, 32, 40, 44, 51, 54, 62, 67, 73, 76, 81, 84, 88, 90, 91, 93, 94, 99, 104, 106, 111, 121, 125, 131, 138, 142, 143, 154], "invok": [11, 14, 71, 135, 155], "minor": [11, 51, 54, 93, 113, 114, 115, 116, 117, 118, 119, 120, 121, 122, 124, 126, 128], "syntax": [11, 57, 137], "highlight": [11, 13], "header": [11, 30, 32, 39, 44, 53, 66, 70, 72, 92, 98, 117, 119, 121, 148, 152, 154], "complex": [12, 38, 89], "archiv": [12, 21, 36, 51, 55, 111, 144, 150, 154, 156], "github": [12, 15, 18, 22, 23, 24, 25, 26, 29, 52, 54, 57, 58, 88, 96, 100, 107, 111, 116, 118, 119, 120, 129, 131, 132, 136, 146, 147, 155], "app": [12, 13, 18, 23, 26, 28, 29, 32, 37, 42, 43, 70, 108, 109, 116, 120, 121, 122, 123, 124, 125, 126, 127, 128, 132], "com": [12, 13, 18, 23, 24, 26, 28, 29, 52, 54, 55, 57, 58, 92, 94, 96, 100, 116, 118, 119, 120, 129, 132], "fvmbook": [12, 42], "galleri": [12, 25, 35, 36, 37, 42, 55, 75, 76, 88, 91, 105, 111, 116, 120, 144, 150, 157], "anim": [12, 16, 18, 42, 51, 117, 124, 125, 144], "instal": [12, 13, 18, 23, 25, 29, 35, 43, 51, 54, 55, 79, 81, 82, 85, 90, 92, 103, 105, 111, 112, 113, 114, 115, 116, 117, 118, 119, 120, 121, 122, 123, 124, 125, 126, 127, 128, 129, 137, 159], "collect": [12, 25, 26, 28, 30, 32, 70, 76, 83, 99, 144], "either": [12, 16, 18, 20, 30, 32, 39, 45, 46, 51, 60, 62, 66, 67, 70, 77, 79, 83, 89, 91, 92, 93, 99, 104, 106, 110, 111, 117, 118, 119, 121, 131, 133, 135, 140, 142, 148, 152, 154, 157, 160], "clone": [12, 18, 23, 24, 42, 52, 54, 55, 58, 80, 94, 100, 109, 155], "git": [12, 13, 23, 24, 25, 26, 29, 52, 55, 58, 91, 100, 111, 123], "navig": [12, 29, 54, 144], "green": [12, 59, 66, 70, 77, 111, 154], "button": [12, 13, 28, 51, 59, 120], "download": [12, 13, 28, 29, 30, 36, 37, 39, 45, 51, 55, 57, 58, 68, 88, 94, 100, 121, 122, 129, 150, 154, 155, 156], "zip": [12, 51, 55], "illustr": [12, 25, 30, 32, 35, 43, 51, 66, 67, 70, 109, 116, 117, 121, 123, 131, 133, 144, 154], "variou": [12, 20, 22, 30, 38, 43, 48, 54, 67, 70, 77, 79, 89, 103, 105, 106, 110, 119, 131, 138, 142, 148], "aspect": [12, 24, 29, 43, 48, 49, 67, 154], "visibl": [12, 13, 43, 51, 109, 144], "render": [12, 22, 43, 51, 59, 158], "advantag": [12, 76, 92, 105, 111, 133], "independ": [12, 23, 30], "contact": [12, 88, 91, 100], "u": [12, 13, 16, 24, 29, 32, 47, 48, 55, 56, 58, 60, 81, 88, 91, 97, 100, 101, 102, 103, 108, 120, 131, 140, 143, 148, 156], "like": [12, 13, 24, 28, 29, 39, 41, 51, 54, 55, 59, 60, 67, 68, 79, 84, 86, 89, 92, 93, 94, 97, 98, 99, 101, 105, 106, 111, 118, 131, 133, 138, 151, 152, 155], "storm": [12, 17, 24, 25, 45, 117, 120, 121, 122, 123, 125, 126, 127], "surg": [12, 17, 24, 25, 45, 117, 120, 121, 122, 123, 126, 148], "empti": [12, 44, 98, 101, 104, 106, 139, 148, 154], "gitmodul": 12, "pull": [12, 18, 24, 26, 29, 54, 55, 57, 88, 96, 111, 116, 119, 120, 126, 131], "request": [12, 24, 26, 30, 54, 57, 72, 83, 88, 89, 93, 96, 98, 111, 119, 121, 126, 131, 142, 148, 154], "init": [12, 25, 28, 39, 45, 52, 57, 134], "leav": [12, 13, 16, 44, 58, 140, 154], "off": [12, 13, 18, 44, 48, 51, 59, 67, 79, 86, 93, 110, 140, 154], "won": [12, 13, 66, 84, 154], "hurt": [12, 63], "maintain": [12, 28, 105, 121, 140, 152, 157], "flavor": [12, 21, 92], "demonstr": [12, 25, 88, 94], "agre": [12, 28, 39, 53, 131, 151, 154, 157], "seen": [12, 22, 32, 35, 36, 37, 48, 71, 96, 139, 144], "cloud": 13, "elast": [13, 70], "sign": [13, 24, 77, 126, 148], "account": [13, 24, 28, 55, 85, 94], "750": 13, "hour": [13, 51, 59], "free": [13, 51, 62, 70, 81, 85, 96, 100, 102], "micro": 13, "suffici": [13, 16, 18, 20, 70, 71, 108, 113, 142], "tier": 13, "inform": [13, 14, 22, 25, 32, 33, 35, 36, 46, 47, 48, 49, 50, 58, 63, 72, 77, 78, 79, 83, 84, 89, 91, 93, 94, 95, 97, 98, 104, 106, 118, 121, 122, 124, 129, 130, 131, 134, 137, 139, 140, 142, 148, 151, 152, 155, 156, 157, 158], "uw": [13, 24], "escienc": 13, "aw": 13, "tutori": [13, 29, 55, 79, 82, 86, 91, 100, 106, 109], "gear": 13, "faq": [13, 25, 76], "price": 13, "charg": 13, "per": [13, 30, 44, 51, 59, 67, 71, 92, 140], "thereof": 13, "regardless": [13, 39, 66, 110, 139, 142], "cpu": [13, 52, 118, 121, 123, 151], "consol": [13, 93, 142], "tab": [13, 54, 129], "east": [13, 152], "cheaper": 13, "rate": 13, "menu": [13, 18, 25, 54, 59, 120, 129, 134, 156], "imag": [13, 35, 36, 39, 55, 59, 66, 111, 121, 133], "platform": [13, 51, 86, 94, 105, 111], "finish": [13, 77, 83], "load": [13, 59, 93, 95, 98, 104, 111, 154, 158], "databas": [13, 30, 70, 104, 108, 121, 152], "uwamath": 13, "bar": [13, 54, 148], "screen": [13, 28, 51, 59, 86, 93, 94, 118, 141, 143], "shapshot": 13, "machin": [13, 25, 71, 73, 111, 119, 137], "disk": [13, 44, 83, 92, 93, 111, 119], "ubuntu": 13, "linux": [13, 69, 80, 102, 111, 137], "popup": 13, "look": [13, 14, 22, 25, 28, 30, 39, 51, 54, 55, 59, 67, 68, 77, 79, 84, 89, 94, 98, 99, 103, 104, 106, 111, 114, 121, 133, 139, 140, 142, 151, 154, 155], "sort": [13, 39, 121, 138, 155], "larger": [13, 20, 32, 51, 59, 70, 71, 72, 77, 89, 113, 119, 126, 140, 142, 152], "cost": [13, 99], "continu": [13, 22, 28, 30, 49, 54, 81, 105, 131, 139, 160], "eventu": [13, 45, 124], "don": [13, 27, 28, 54, 55, 77, 93, 94, 100, 111, 141, 155], "pair": [13, 92, 111, 154], "secur": 13, "quick": [13, 25, 36, 45, 46, 56, 80, 111, 150], "close": [13, 39, 51, 54, 59, 66, 67, 92, 110, 124, 140, 148], "back": [13, 27, 29, 54, 55, 120], "statu": [13, 28, 50, 86, 103], "wait": 13, "until": [13, 32, 60, 66, 135], "refresh": [13, 44], "bottom": [13, 15, 30, 35, 36, 45, 48, 64, 66, 70, 83, 96, 97, 119, 120, 136, 146, 147], "scroll": 13, "down": [13, 30, 93, 118, 148, 152, 154], "dn": 13, "screenshot": [13, 51], "rjlkei": 13, "pem": 13, "abl": [13, 54, 106], "ssh": [13, 28], "keypair": 13, "50": [13, 17, 32, 51, 99, 114, 141], "19": [13, 17, 24, 127, 128, 129, 151], "75": [13, 17, 87, 103, 133], "229": 13, "amazonaw": 13, "gfortran": [13, 58, 71, 80, 82, 102, 137, 155], "ipython": [13, 73, 77, 79, 84, 85, 91, 93, 100, 103, 106, 117, 118], "scipi": [13, 84, 105, 148, 154], "netcdf": [13, 41, 45, 118, 121, 123, 125, 139, 141, 143, 148, 154, 156], "apach": 13, "server": [13, 29, 39, 51, 54, 55, 66, 121, 152, 156], "apt": [13, 80], "fetch": [13, 47], "bring": [13, 51, 54, 67], "master": [13, 15, 25, 29, 54, 55, 58, 96, 107, 118, 119, 120, 121, 122, 123, 124, 125, 126, 127, 128, 129, 132, 136, 146, 147], "make_lib": 13, "compil": [13, 25, 35, 36, 40, 46, 58, 63, 71, 73, 79, 80, 84, 91, 92, 96, 100, 104, 113, 131, 132, 137], "bashrc": [13, 41, 102, 137], "Of": [13, 26, 70, 103, 108, 152], "cours": [13, 26, 32, 44, 46, 60, 70, 94, 95, 103, 105, 108, 142, 152], "tar": [13, 59, 123, 129], "instruct": [13, 18, 24, 25, 29, 35, 36, 39, 51, 52, 54, 55, 68, 83, 85, 91, 94, 100, 103, 106, 120, 127, 129, 130, 155], "probabl": [13, 28, 51, 64, 66, 105, 106], "window": [13, 30, 67, 79, 137], "respons": [13, 48, 83, 98], "pretti": 13, "slow": [13, 51, 93, 102], "_plot": [13, 35, 36, 44, 67, 79, 138, 144], "local": [13, 17, 20, 25, 28, 51, 54, 59, 62, 63, 67, 87, 89, 96, 101, 119, 121, 135, 152, 154, 157], "sftp": 13, "much": [13, 18, 28, 32, 41, 51, 54, 72, 73, 76, 80, 105, 110, 113, 117, 124, 133, 139, 142, 151, 154], "smaller": [13, 18, 51, 64, 73, 89, 93, 113, 135, 139, 141, 142, 143, 154], "quicker": [13, 133], "browser": [13, 28, 29, 35, 36, 51, 54, 144], "explain": [13, 32, 48, 66, 126, 139, 144], "webserv": 13, "inbound": 13, "port": [13, 29, 90, 91, 96, 140], "22": [13, 24, 140, 154], "80": [13, 17, 51, 94, 133], "drop": [13, 54, 80, 124, 126, 135, 139], "tcp": 13, "Then": [13, 16, 28, 29, 30, 44, 54, 55, 56, 63, 66, 70, 71, 79, 83, 86, 94, 100, 101, 102, 106, 131, 133, 154, 155], "someth": [13, 27, 28, 54, 62, 69, 76, 93, 98, 99, 106, 152, 155, 157], "shot": 13, "ln": 13, "expos": [13, 73], "home": [13, 29, 30, 58, 137], "scp": 13, "TO": [13, 61, 81], "send": [13, 24, 96, 131], "remot": [13, 51, 55, 121, 154, 156], "rel": [13, 20, 30, 40, 46, 48, 51, 70, 71, 77, 91, 104, 106, 111, 114, 115, 116, 117, 118, 119, 120, 121, 122, 123, 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116, 117, 118, 119, 120, 121, 122, 123, 124, 125, 126, 127, 128], "raster": [18, 51, 53, 152], "greatli": [18, 26, 81, 134], "size": [18, 20, 30, 39, 44, 51, 59, 71, 72, 76, 89, 92, 94, 99, 119, 124, 140, 141, 143, 152, 154], "savefig": [18, 59], "filenam": [18, 31, 51, 117, 154], "svg": 18, "label": [18, 30, 49, 51, 53, 59, 117, 133, 152, 154], "graphic": [18, 23, 28, 52, 67, 76], "field": [18, 44, 59, 96, 98, 101, 119, 121, 148, 149], "pcolor_kwarg": 18, "turn": [18, 44, 46, 48, 59, 74, 77, 93, 111, 118, 124], "286": 18, "jsanim": [18, 113, 117], "to_jshtml": 18, "affect": [18, 22, 62, 119, 120, 126, 139, 152, 155], "particl": [18, 25, 45, 124], "track": [18, 24, 25, 28, 32, 33, 45, 51, 54, 56, 58, 71, 83, 91, 104, 111, 113, 122, 124, 127, 132, 142, 148], "monitor": [18, 22, 25, 33, 34, 38, 45, 66, 71, 114, 116, 119], "fixedgrid": [18, 142], "chile2010_fgmax": [18, 32], "file_prefix": [18, 92, 98], "file_format": [18, 44, 92, 98, 148], "older": [18, 22, 41, 52, 54, 57, 58, 99, 125, 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[136, 157], "desir": 138, "time": [139, 140, 142, 151, 157], "print": 140, "geo": 142, "maximum": 142, "arriv": 142, "share": 144, "local": 145, "src1d": [146, 157], "src": [147, 157], "statist": 151, "download": 152, "displac": 152, "topo": 153, "dtopo": 153, "topotool": 154, "f2py": 155, "ex": 155, "bathymetri": 156, "dart": 156, "buoi": 156, "tide": 156, "done": 157, "befor": 157, "visit": 158, "virtual": 159, "propag": 160, "space": 160, "godunov": 160, "high": 160, "formul": 160, "capac": 160}, "envversion": {"sphinx.domains.c": 2, "sphinx.domains.changeset": 1, "sphinx.domains.citation": 1, "sphinx.domains.cpp": 8, "sphinx.domains.index": 1, "sphinx.domains.javascript": 2, "sphinx.domains.math": 2, "sphinx.domains.python": 3, "sphinx.domains.rst": 2, "sphinx.domains.std": 2, "sphinx": 57}, "alltitles": {"ClawPlotAxes": [[0, "clawplotaxes"]], "Attributes": [[0, "attributes"], [1, "attributes"], [2, "attributes"], [3, "attributes"]], "Methods": [[0, "methods"], [1, "methods"], [2, "methods"], [3, "methods"]], "ClawPlotData": [[1, "clawplotdata"]], "ClawPlotFigure": [[2, "clawplotfigure"]], "ClawPlotItem": [[3, "clawplotitem"]], "Special attributes for all 1d plots, plot_type = \u20181d\u2026\u2019": [[3, "special-attributes-for-all-1d-plots-plot-type-1d"]], "Special attributes for plot_type = \u20181d_plot\u2019": [[3, "special-attributes-for-plot-type-1d-plot"]], "Special attributes for plot_type = \u20181d_fill_between\u2019": [[3, "special-attributes-for-plot-type-1d-fill-between"]], "Special attributes for plot_type = \u20181d_from_2d_data\u2019": [[3, "special-attributes-for-plot-type-1d-from-2d-data"]], "Special attributes for all 2d plots, plot_type = \u20182d\u2026\u2019": [[3, "special-attributes-for-all-2d-plots-plot-type-2d"]], "Special attributes for plot_type = \u20182d_contour\u2019": [[3, "special-attributes-for-plot-type-2d-contour"]], "Special attributes for plot_type = \u20182d_pcolor\u2019": [[3, "special-attributes-for-plot-type-2d-pcolor"]], "AMR Attributes": [[3, "amr-attributes"]], "About this software": [[4, "about-this-software"]], "License": [[4, "license"], [61, "license"], [81, "license"]], "Authors": [[4, "authors"]], "Citing this work": [[4, "citing-this-work"]], "Funding": [[4, "funding"], [81, "funding"]], "Guiding AMR with adjoint flagging": [[5, "guiding-amr-with-adjoint-flagging"]], "Using adjoint flagging in GeoClaw": [[5, "using-adjoint-flagging-in-geoclaw"]], "Adaptive mesh refinement (AMR) algorithms": [[6, "adaptive-mesh-refinement-amr-algorithms"]], "Ghost cells and boundary conditions for AMR": [[6, "ghost-cells-and-boundary-conditions-for-amr"]], "Choosing and initializing finer grids": [[6, "choosing-and-initializing-finer-grids"]], "Flagging cells for refinement": [[6, "flagging-cells-for-refinement"]], "For more details": [[6, "for-more-details"]], "AMRClaw Description and Detailed Contents": [[7, "amrclaw-description-and-detailed-contents"]], "AMRClaw for 1d problems": [[8, "amrclaw-for-1d-problems"]], "Old approach, deprecated:": [[8, "old-approach-deprecated"]], "Doxygen documentation of AMRClaw": [[9, "doxygen-documentation-of-amrclaw"]], "AMRClaw Flowcharts": [[10, "amrclaw-flowcharts"]], "Application documentation": [[11, "application-documentation"]], "Converting README.rst to README.html": [[11, "converting-readme-rst-to-readme-html"]], "Converting code to html with clawcode2html": [[11, "converting-code-to-html-with-clawcode2html"]], "Clawpack Applications repository": [[12, "clawpack-applications-repository"]], "Jupyter Notebooks": [[12, "jupyter-notebooks"]], "Submodules": [[12, "submodules"]], "Examples included with Clawpack": [[12, "examples-included-with-clawpack"]], "Amazon Web Services EC2 Clawpack AMI": [[13, "amazon-web-services-ec2-clawpack-ami"]], "Finding the Clawpack AMI": [[13, "finding-the-clawpack-ami"]], "Launching an instance": [[13, "launching-an-instance"]], "Logging on to your instance": [[13, "logging-on-to-your-instance"]], "Using Clawpack": [[13, "using-clawpack"]], "Viewing plots of results": [[13, "viewing-plots-of-results"]], "Viewing webpages directly from your instance": [[13, "viewing-webpages-directly-from-your-instance"]], "Transferring files to/from your instance": [[13, "transferring-files-to-from-your-instance"]], "Stopping your instance": [[13, "stopping-your-instance"]], "Creating your own AMI": [[13, "creating-your-own-ami"]], "b4run function": [[14, "b4run-function"]], "b4step default routines": [[15, "b4step-default-routines"]], "b4step routine in GeoClaw": [[15, "b4step-routine-in-geoclaw"]], "Boundary conditions": [[16, "boundary-conditions"], [160, "boundary-conditions"]], "Boundary conditions for adaptive refinement": [[16, "boundary-conditions-for-adaptive-refinement"]], "Boundary conditions for GeoClaw": [[16, "boundary-conditions-for-geoclaw"]], "Boundary conditions for clamshell grids on the sphere": [[16, "boundary-conditions-for-clamshell-grids-on-the-sphere"]], "User-defined boundary conditions": [[16, "user-defined-boundary-conditions"]], "Bibliography": [[17, "bibliography"]], "Papers describing the Clawpack software and algorithms": [[17, "papers-describing-the-clawpack-software-and-algorithms"]], "Papers describing applications": [[17, "papers-describing-applications"]], "Other references": [[17, "other-references"]], "Changes to master since v5.8.2": [[18, "changes-to-master-since-v5-8-2"]], "Changes that are not backward compatible": [[18, "changes-that-are-not-backward-compatible"], [121, "changes-that-are-not-backward-compatible"], [122, "changes-that-are-not-backward-compatible"], [123, "changes-that-are-not-backward-compatible"], [124, "changes-that-are-not-backward-compatible"], [125, "changes-that-are-not-backward-compatible"], [126, "changes-that-are-not-backward-compatible"], [127, "changes-that-are-not-backward-compatible"], [128, "changes-that-are-not-backward-compatible"]], "General changes": [[18, "general-changes"], [121, "general-changes"], [122, "general-changes"], [123, "general-changes"], [124, "general-changes"], [125, "general-changes"], [126, "general-changes"], [127, "general-changes"], [128, "general-changes"]], "Changes to classic": [[18, "changes-to-classic"], [113, "changes-to-classic"], [114, "changes-to-classic"], [115, "changes-to-classic"], [116, "changes-to-classic"], [117, "changes-to-classic"], [118, "changes-to-classic"], [119, "changes-to-classic"], [120, "changes-to-classic"], [121, "changes-to-classic"], [122, "changes-to-classic"], [123, "changes-to-classic"], [124, "changes-to-classic"], [125, "changes-to-classic"], [126, "changes-to-classic"], [127, "changes-to-classic"], [128, "changes-to-classic"]], "Changes to clawutil": [[18, "changes-to-clawutil"], [113, "changes-to-clawutil"], [114, "changes-to-clawutil"], [115, "changes-to-clawutil"], [116, "changes-to-clawutil"], [117, "changes-to-clawutil"], [118, "changes-to-clawutil"], [119, "changes-to-clawutil"], [120, "changes-to-clawutil"], [121, "changes-to-clawutil"], [122, "changes-to-clawutil"], [123, "changes-to-clawutil"], [124, "changes-to-clawutil"], [125, "changes-to-clawutil"], [126, "changes-to-clawutil"], [127, "changes-to-clawutil"], [128, "changes-to-clawutil"]], "Changes to visclaw": [[18, "changes-to-visclaw"], [113, "changes-to-visclaw"], [114, "changes-to-visclaw"], [115, "changes-to-visclaw"], [116, "changes-to-visclaw"], [117, "changes-to-visclaw"], [118, "changes-to-visclaw"], [119, "changes-to-visclaw"], [120, "changes-to-visclaw"], [121, "changes-to-visclaw"], [122, "changes-to-visclaw"], [123, "changes-to-visclaw"], [124, "changes-to-visclaw"], [125, "changes-to-visclaw"], [126, "changes-to-visclaw"], [127, "changes-to-visclaw"], [128, "changes-to-visclaw"]], "Changes to riemann": [[18, "changes-to-riemann"], [113, "changes-to-riemann"], [114, "changes-to-riemann"], [115, "changes-to-riemann"], [116, "changes-to-riemann"], [117, "changes-to-riemann"], [118, "changes-to-riemann"], [119, "changes-to-riemann"], [120, "changes-to-riemann"], [121, "changes-to-riemann"], [122, "changes-to-riemann"], [123, "changes-to-riemann"], [124, "changes-to-riemann"], [125, "changes-to-riemann"], [126, "changes-to-riemann"], [127, "changes-to-riemann"], [128, "changes-to-riemann"]], "Changes to amrclaw": [[18, "changes-to-amrclaw"], [113, "changes-to-amrclaw"], [114, "changes-to-amrclaw"], [115, "changes-to-amrclaw"], [116, "changes-to-amrclaw"], [117, "changes-to-amrclaw"], [118, "changes-to-amrclaw"], [119, "changes-to-amrclaw"], [120, "changes-to-amrclaw"], [121, "changes-to-amrclaw"], [122, "changes-to-amrclaw"], [123, "changes-to-amrclaw"], [124, "changes-to-amrclaw"], [125, "changes-to-amrclaw"], [126, "changes-to-amrclaw"], [127, "changes-to-amrclaw"], [128, "changes-to-amrclaw"]], "Changes to geoclaw": [[18, "changes-to-geoclaw"], [113, "changes-to-geoclaw"], [114, "changes-to-geoclaw"], [115, "changes-to-geoclaw"], [116, "changes-to-geoclaw"], [117, "changes-to-geoclaw"], [118, "changes-to-geoclaw"], [119, "changes-to-geoclaw"], [120, "changes-to-geoclaw"], [121, "changes-to-geoclaw"], [122, "changes-to-geoclaw"], [123, "changes-to-geoclaw"], [124, "changes-to-geoclaw"], [125, "changes-to-geoclaw"], [126, "changes-to-geoclaw"], [127, "changes-to-geoclaw"], [128, "changes-to-geoclaw"]], "Changes to PyClaw": [[18, "changes-to-pyclaw"], [112, "changes-to-pyclaw"], [113, "changes-to-pyclaw"], [114, "changes-to-pyclaw"], [115, "changes-to-pyclaw"], [116, "changes-to-pyclaw"], [117, "changes-to-pyclaw"], [118, "changes-to-pyclaw"], [119, "changes-to-pyclaw"], [120, "changes-to-pyclaw"], [121, "changes-to-pyclaw"], [122, "changes-to-pyclaw"], [123, "changes-to-pyclaw"], [124, "changes-to-pyclaw"], [125, "changes-to-pyclaw"], [126, "changes-to-pyclaw"], [127, "changes-to-pyclaw"], [128, "changes-to-pyclaw"]], "Other Clawpack Repositories": [[18, "other-clawpack-repositories"], [120, "other-clawpack-repositories"], [121, "other-clawpack-repositories"], [122, "other-clawpack-repositories"], [123, "other-clawpack-repositories"], [124, "other-clawpack-repositories"], [125, "other-clawpack-repositories"], [126, "other-clawpack-repositories"], [127, "other-clawpack-repositories"], [128, "other-clawpack-repositories"]], "Converting from Clawpack 4.3 to 4.6": [[19, "converting-from-clawpack-4-3-to-4-6"]], "Converting from Clawpack 4.6 to 5.0": [[20, "converting-from-clawpack-4-6-to-5-0"]], "Python conversion tool": [[20, "python-conversion-tool"]], "Clawpack 4.x links": [[21, "clawpack-4-x-links"]], "Changes in Clawpack 5.0": [[22, "changes-in-clawpack-5-0"]], "PyClaw in 5.0": [[22, "pyclaw-in-5-0"]], "Fortran package changes": [[22, "fortran-package-changes"]], "Changes to input parameters in setrun.py from 4.x to 5.0": [[22, "changes-to-input-parameters-in-setrun-py-from-4-x-to-5-0"]], "Changes to general parameters": [[22, "changes-to-general-parameters"]], "Changes to AMR parameters": [[22, "changes-to-amr-parameters"]], "Changes to GeoClaw parameters": [[22, "changes-to-geoclaw-parameters"]], "Changes to plotting routines": [[22, "changes-to-plotting-routines"]], "Clawpack components": [[23, "clawpack-components"]], "Other repositories": [[23, "other-repositories"]], "Clawpack Community": [[24, "clawpack-community"]], "User Workshops, Clinics, and Tutorials": [[24, "user-workshops-clinics-and-tutorials"]], "Available for streaming": [[24, "available-for-streaming"]], "Upcoming": [[24, "upcoming"], [24, "id1"]], "Recent": [[24, "recent"]], "Developer Workshops and Sprint Sessions": [[24, "developer-workshops-and-sprint-sessions"]], "Previous": [[24, "previous"]], "Other Clawpack events": [[24, "other-clawpack-events"]], "Contents": [[25, "id1"], [28, "contents"], [39, "contents"], [66, "contents"], [77, "contents"], [83, "contents"], [93, "contents"], [99, "contents"], [111, "contents"], [133, "contents"]], "Full Table of Contents": [[25, "full-table-of-contents"]], "Overview and Getting Started": [[25, "overview-and-getting-started"]], "Examples and Applications": [[25, "examples-and-applications"]], "Classic, AMRClaw, and GeoClaw": [[25, "classic-amrclaw-and-geoclaw"]], "Using the Fortran codes": [[25, "using-the-fortran-codes"]], "AMRClaw: adaptive mesh refinement": [[25, "amrclaw-adaptive-mesh-refinement"]], "GeoClaw: geophysical flows": [[25, "geoclaw-geophysical-flows"]], "PyClaw": [[25, "pyclaw"], [35, "pyclaw"], [91, "pyclaw"], [111, "pyclaw"], [150, "pyclaw"]], "Riemann": [[25, "riemann"]], "VisClaw: Plotting and Visualization Tools": [[25, "visclaw-plotting-and-visualization-tools"]], "Migrating applications from older versions of Clawpack": [[25, "migrating-applications-from-older-versions-of-clawpack"]], "Developers\u2019 resources": [[25, "developers-resources"]], "References": [[25, "references"], [52, "references"]], "Contributing examples and applications": [[26, "contributing-examples-and-applications"]], "current_data": [[27, "current-data"]], "Attributes of current_data:": [[27, "attributes-of-current-data"]], "Developers\u2019 Guide": [[28, "developers-guide"]], "Guidelines for contributing": [[28, "guidelines-for-contributing"]], "Reporting and fixing bugs": [[28, "reporting-and-fixing-bugs"]], "Developer communication": [[28, "developer-communication"]], "Installation instructions for developers": [[28, "installation-instructions-for-developers"]], "Cloning the most recent code from Github": [[28, "cloning-the-most-recent-code-from-github"]], "Checking out the master branch on each repository": [[28, "checking-out-the-master-branch-on-each-repository"]], "Updating to the latest master branch": [[28, "updating-to-the-latest-master-branch"]], "Never commit to master": [[28, "never-commit-to-master"]], "Adding your fork as a remote": [[28, "adding-your-fork-as-a-remote"]], "Modifying code": [[28, "modifying-code"]], "Issuing a pull request": [[28, "issuing-a-pull-request"]], "Testing a pull request": [[28, "testing-a-pull-request"]], "Top-level pull requests": [[28, "top-level-pull-requests"]], "Git workflow": [[28, "git-workflow"]], "Catching errors with Pyflakes and Pylint": [[28, "catching-errors-with-pyflakes-and-pylint"]], "Checking test coverage": [[28, "checking-test-coverage"]], "Trouble-Shooting Tips": [[28, "trouble-shooting-tips"]], "Docker for Clawpack": [[29, "docker-for-clawpack"]], "Using Version 5.8.0 or above": [[29, "using-version-5-8-0-or-above"]], "Getting started": [[29, "getting-started"]], "A better image for GeoClaw users": [[29, "a-better-image-for-geoclaw-users"]], "Stopping a container": [[29, "stopping-a-container"]], "Restarting a container": [[29, "restarting-a-container"]], "Running Jupyter notebooks": [[29, "running-jupyter-notebooks"]], "Moving files between the docker container and the host machine": [[29, "moving-files-between-the-docker-container-and-the-host-machine"]], "Some other useful docker commands": [[29, "some-other-useful-docker-commands"]], "Creating your own docker image": [[29, "creating-your-own-docker-image"]], "Dockerfiles for binder": [[29, "dockerfiles-for-binder"]], "dtopotools module for moving topography": [[30, "dtopotools-module-for-moving-topography"]], "Documentation auto-generated from the module docstrings": [[30, "module-clawpack.geoclaw.dtopotools"], [33, "module-clawpack.geoclaw.fgmax_tools"], [47, "module-clawpack.geoclaw.util"], [59, "module-clawpack.geoclaw.kmltools"], [154, "module-clawpack.geoclaw.topotools"]], "Fortran 77 vs. Fortran 90 files": [[31, "fortran-77-vs-fortran-90-files"]], "Fixed grid monitoring": [[32, "fixed-grid-monitoring"]], "Input file specification": [[32, "input-file-specification"]], "Different point styles": [[32, "different-point-styles"]], "Other attributes": [[32, "other-attributes"]], "Values to monitor": [[32, "values-to-monitor"]], "Choice of interpolation procedure": [[32, "choice-of-interpolation-procedure"]], "A simple example": [[32, "a-simple-example"]], "Processing and plotting fgmax output": [[32, "processing-and-plotting-fgmax-output"]], "Format of the output files": [[32, "format-of-the-output-files"]], "fgmax_tools module for working with topography data": [[33, "fgmax-tools-module-for-working-with-topography-data"]], "Fixed grid output": [[34, "fixed-grid-output"]], "Running an example": [[35, "running-an-example"], [36, "running-an-example"], [37, "running-an-example"]], "Classic": [[35, "classic"], [36, "classic"], [150, "classic"]], "Testing your Fortran installation and running an example": [[36, "testing-your-fortran-installation-and-running-an-example"]], "More examples": [[36, "more-examples"]], "Testing a PyClaw installation and running an example": [[37, "testing-a-pyclaw-installation-and-running-an-example"]], "From the Jupyter notebook": [[37, "from-the-jupyter-notebook"]], "From the IPython interpreter": [[37, "from-the-ipython-interpreter"]], "From the command line": [[37, "from-the-command-line"], [88, "from-the-command-line"]], "Specifying flagregions for adaptive refinement": [[38, "specifying-flagregions-for-adaptive-refinement"]], "Using ruled rectangles as flagregions": [[38, "using-ruled-rectangles-as-flagregions"]], "Force Cells to be Dry Initially": [[39, "force-cells-to-be-dry-initially"]], "Examples": [[39, "examples"], [44, "examples"], [66, "examples"], [91, "examples"], [133, "examples"]], "Sample topography from a 1/3 arcsecond DEM": [[39, "sample-topography-from-a-1-3-arcsecond-dem"], [66, "sample-topography-from-a-1-3-arcsecond-dem"]], "Creating the force_dry_init array": [[39, "creating-the-force-dry-init-array"]], "Create file to read into GeoClaw": [[39, "create-file-to-read-into-geoclaw"]], "Usage in GeoClaw Fortran code": [[39, "usage-in-geoclaw-fortran-code"]], "Internal GeoClaw modifications": [[39, "internal-geoclaw-modifications"]], "Fortran version": [[40, "fortran-version"]], "Makefiles": [[40, "makefiles"]], "More tips": [[40, "more-tips"]], "Fortran Compilers": [[41, "fortran-compilers"]], "FC environment variable": [[41, "fc-environment-variable"]], "FFLAGS environment variable": [[41, "fflags-environment-variable"]], "LFLAGS environment variable": [[41, "lflags-environment-variable"]], "Pre-Processor and the PPFLAGS environment variable": [[41, "pre-processor-and-the-ppflags-environment-variable"]], "gfortran compiler": [[41, "gfortran-compiler"]], "Intel fortran compiler": [[41, "intel-fortran-compiler"]], "Examples from the book FVMHP": [[42, "examples-from-the-book-fvmhp"]], "Available examples": [[42, "available-examples"]], "Clawpack Gallery": [[43, "clawpack-gallery"]], "Gauges": [[44, "gauges"]], "Gauge parameters in setrun": [[44, "gauge-parameters-in-setrun"]], "Plotting tools": [[44, "plotting-tools"]], "Plotting gauge locations": [[44, "plotting-gauge-locations"]], "GeoClaw Description and Detailed Contents": [[45, "geoclaw-description-and-detailed-contents"]], "Getting started with GeoClaw": [[46, "getting-started-with-geoclaw"]], "Running a GeoClaw code": [[46, "running-a-geoclaw-code"]], "Topography": [[46, "topography"]], "Plotting GeoClaw results": [[46, "plotting-geoclaw-results"]], "Setting up a new example": [[46, "setting-up-a-new-example"]], "geoclaw.util module of utility functions": [[47, "geoclaw-util-module-of-utility-functions"]], "Cautionary Hints on using GeoClaw": [[48, "cautionary-hints-on-using-geoclaw"]], "Tsunami hazard modeling": [[48, "tsunami-hazard-modeling"]], "GeoClaw plotting tools": [[49, "geoclaw-plotting-tools"]], "Plotting water depth or surface elevation": [[49, "plotting-water-depth-or-surface-elevation"]], "Tips on latitude-longitude coordinate axes": [[49, "tips-on-latitude-longitude-coordinate-axes"]], "Keeping track of repository versions with Git": [[50, "keeping-track-of-repository-versions-with-git"]], "Visualizing GeoClaw results in Google Earth": [[51, "visualizing-geoclaw-results-in-google-earth"]], "Basic requirements": [[51, "basic-requirements"]], "Optional GDAL library": [[51, "optional-gdal-library"]], "An example : The Chile 2010 tsunami event": [[51, "an-example-the-chile-2010-tsunami-event"]], "Plotting attributes needed for Google Earth": [[51, "plotting-attributes-needed-for-google-earth"]], "plotdata attributes": [[51, "plotdata-attributes"]], "plotfigure attributes": [[51, "plotfigure-attributes"]], "Creating the figures": [[51, "creating-the-figures"]], "plotaxes attributes": [[51, "plotaxes-attributes"]], "plotitem attributes": [[51, "plotitem-attributes"]], "Adding a colorbar overlay": [[51, "adding-a-colorbar-overlay"]], "Gauge plots": [[51, "gauge-plots"]], "Additional plotdata attributes": [[51, "additional-plotdata-attributes"]], "Plotting tips": [[51, "plotting-tips"]], "KML and KMZ files": [[51, "kml-and-kmz-files"]], "Tiling images for faster loading": [[51, "tiling-images-for-faster-loading"]], "Removing aliasing artifacts": [[51, "removing-aliasing-artifacts"]], "Creating multiple figures at different resolutions": [[51, "creating-multiple-figures-at-different-resolutions"]], "Mapping topography data to latitude/longitude coordinates": [[51, "mapping-topography-data-to-latitude-longitude-coordinates"]], "Publishing your results": [[51, "id1"]], "Using the GPU version of Clawpack": [[52, "using-the-gpu-version-of-clawpack"]], "Grid registration": [[53, "grid-registration"]], "NetCDF files": [[53, "netcdf-files"]], "Guide for updating this documentation": [[54, "guide-for-updating-this-documentation"]], "Git branches and tags": [[54, "git-branches-and-tags"]], "Configuration and style files": [[54, "configuration-and-style-files"]], "Updating the docs for a new release": [[54, "updating-the-docs-for-a-new-release"]], "To generate docs including previous versions": [[54, "to-generate-docs-including-previous-versions"]], "Updating the gallery": [[54, "updating-the-gallery"]], "Updating the webpages": [[54, "updating-the-webpages"]], "Extra files for webpages not built by Sphinx": [[54, "extra-files-for-webpages-not-built-by-sphinx"]], "Pages from other clawpack repositories": [[54, "pages-from-other-clawpack-repositories"]], "Guide for doing a Clawpack release": [[55, "guide-for-doing-a-clawpack-release"]], "Preparation": [[55, "preparation"]], "Version numbers": [[55, "version-numbers"]], "Release candidates": [[55, "release-candidates"]], "Create a tar file and a Github release": [[55, "create-a-tar-file-and-a-github-release"]], "Final release": [[55, "final-release"]], "Pypi": [[55, "pypi"]], "Zenodo": [[55, "zenodo"]], "Open Science Framework (OSF)": [[55, "open-science-framework-osf"]], "Updating the documentation": [[55, "updating-the-documentation"]], "Updating the apps repository": [[55, "updating-the-apps-repository"]], "Updating the Dockerfile": [[55, "updating-the-dockerfile"]], "Installing Clawpack": [[56, "installing-clawpack"]], "Next steps:": [[56, "next-steps"], [57, "next-steps"], [58, "next-steps"]], "Options for installing Clawpack Fortran codes": [[57, "options-for-installing-clawpack-fortran-codes"]], "tar file": [[57, "tar-file"]], "git clone": [[57, "git-clone"]], "pip install instructions": [[58, "pip-install-instructions"]], "Quick Installation of PyClaw with pip": [[58, "quick-installation-of-pyclaw-with-pip"]], "Quick Installation of all packages with pip": [[58, "quick-installation-of-all-packages-with-pip"]], "Using pip to install a different version": [[58, "using-pip-to-install-a-different-version"]], "Experimenting with code in the examples directories": [[58, "experimenting-with-code-in-the-examples-directories"]], "Troubleshooting pip install": [[58, "troubleshooting-pip-install"]], "kmltools module of utility functions": [[59, "kmltools-module-of-utility-functions"]], "Lagrangian gauges for particle tracking": [[60, "lagrangian-gauges-for-particle-tracking"]], "Specifying Lagrangian Gauges": [[60, "specifying-lagrangian-gauges"]], "Visclaw tools for plotting": [[60, "visclaw-tools-for-plotting"]], "Clawpack Makefiles": [[62, "clawpack-makefiles"]], "Applications directory Makefiles": [[62, "applications-directory-makefiles"]], "output": [[62, "output"]], "plots": [[62, "plots"]], "Variables": [[62, "variables"]], "Compiler flags": [[62, "compiler-flags"]], "Duplicate Base Source Name": [[62, "duplicate-base-source-name"]], "Library routines in Makefiles": [[63, "library-routines-in-makefiles"]], "Replacing files with the same name as library files": [[63, "replacing-files-with-the-same-name-as-library-files"]], "Using a modified library routine with a different name": [[63, "using-a-modified-library-routine-with-a-different-name"]], "Manning friction term": [[64, "manning-friction-term"]], "The mapc2p function": [[65, "the-mapc2p-function"]], "Marching Front algorithm": [[66, "marching-front-algorithm"]], "Function arguments": [[66, "function-arguments"]], "output array": [[66, "output-array"]], "creating a masked array": [[66, "creating-a-masked-array"]], "topofile mask for initializing dry points": [[66, "topofile-mask-for-initializing-dry-points"]], "fgmax points": [[66, "fgmax-points"]], "flag regions": [[66, "flag-regions"]], "The mask argument": [[66, "the-mask-argument"]], "The previous_pts_chosen argument": [[66, "the-previous-pts-chosen-argument"]], "Finding all points below a given elevation": [[66, "finding-all-points-below-a-given-elevation"]], "Create a buffer zone along shore": [[66, "create-a-buffer-zone-along-shore"]], "Choose points only near shore": [[66, "choose-points-only-near-shore"]], "Write out the masked array indicating fgmax points": [[66, "write-out-the-masked-array-indicating-fgmax-points"]], "Creating an AMR flag region": [[66, "creating-an-amr-flag-region"]], "Determining dry areas below MHW": [[66, "determining-dry-areas-below-mhw"]], "Plotting using Matlab": [[67, "plotting-using-matlab"]], "The Matlab search path": [[67, "the-matlab-search-path"]], "Creating output files": [[67, "creating-output-files"]], "The plotclaw command": [[67, "the-plotclaw-command"]], "The setplot file": [[67, "the-setplot-file"]], "The afterframe file": [[67, "the-afterframe-file"]], "Getting help": [[67, "getting-help"]], "Trouble shooting": [[67, "trouble-shooting"]], "Output files not found": [[67, "output-files-not-found"]], "MaxFrames not set": [[67, "maxframes-not-set"]], "Switching examples": [[67, "switching-examples"]], "Matlab Gallery": [[67, "matlab-gallery"]], "Using NetCDF output": [[68, "using-netcdf-output"]], "To install netcdf": [[68, "to-install-netcdf"]], "To compile with netcdf": [[68, "to-compile-with-netcdf"]], "To plot the results": [[68, "to-plot-the-results"]], "Creating a new application directory": [[69, "creating-a-new-application-directory"]], "Copying an existing example": [[69, "copying-an-existing-example"]], "Earthquake sources: Fault slip and the Okada model": [[70, "earthquake-sources-fault-slip-and-the-okada-model"]], "Fault slip on rectangular subfaults": [[70, "fault-slip-on-rectangular-subfaults"]], "Okada model": [[70, "okada-model"]], "Kinematic rupture": [[70, "kinematic-rupture"]], "Fault slip on triangular subfaults": [[70, "fault-slip-on-triangular-subfaults"]], "Using OpenMP": [[71, "using-openmp"]], "Using OpenMP with AMR": [[71, "using-openmp-with-amr"]], "Fixed grid output in GeoClaw": [[71, "fixed-grid-output-in-geoclaw"]], "Output data formats": [[72, "output-data-formats"]], "ASCII output data format": [[72, "ascii-output-data-format"]], "fort.t0002": [[72, "fort-t0002"]], "fort.q0002": [[72, "fort-q0002"]], "Raw binary output data format": [[72, "raw-binary-output-data-format"]], "NetCDF output data format": [[72, "netcdf-output-data-format"]], "Output of aux arrays": [[72, "output-of-aux-arrays"]], "Which Clawpack solver should I use?": [[73, "which-clawpack-solver-should-i-use"]], "Installation and user interface": [[73, "installation-and-user-interface"]], "Algorithmic differences": [[73, "algorithmic-differences"]], "Parallel computing": [[73, "parallel-computing"]], "Clawpack Community Photos": [[74, "clawpack-community-photos"]], "2016 Developers\u2019 workshop at University of Washington": [[74, "id1"]], "2015 Developers\u2019 workshop at University of Utah": [[74, "id2"]], "2014 HPC3 workshop at KAUST": [[74, "id3"]], "2013 Claw-Dev workshop at UW": [[74, "id4"]], "2012 HPC3 workshop at KAUST": [[74, "id6"]], "2011 coding sprints at UW": [[74, "coding-sprints-at-uw"]], "2010 GeoClaw hacking UW": [[74, "geoclaw-hacking-uw"]], "Plotting examples": [[75, "plotting-examples"]], "Plotting with Visclaw": [[76, "plotting-with-visclaw"]], "Plotting as post-processing": [[76, "plotting-as-post-processing"]], "Plotting on the fly": [[76, "plotting-on-the-fly"]], "Plotting hints and FAQ": [[77, "plotting-hints-and-faq"]], "What\u2019s the difference between make .plots and make plots ?": [[77, "what-s-the-difference-between-make-plots-and-make-plots"]], "How to plot a something other than a component of q?": [[77, "how-to-plot-a-something-other-than-a-component-of-q"]], "How to add another curve to a plot, e.g. the true solution?": [[77, "how-to-add-another-curve-to-a-plot-e-g-the-true-solution"]], "How to change the title in a plot?": [[77, "how-to-change-the-title-in-a-plot"]], "How to specify outdir, the directory to find fort.* files for plotting?": [[77, "how-to-specify-outdir-the-directory-to-find-fort-files-for-plotting"]], "How to specify a different outdir for some plot item?": [[77, "how-to-specify-a-different-outdir-for-some-plot-item"]], "How to set plot parameters that are not provided as attributes of ClawPlotItem?": [[77, "how-to-set-plot-parameters-that-are-not-provided-as-attributes-of-clawplotitem"]], "How to change the size or background color of a figure?": [[77, "how-to-change-the-size-or-background-color-of-a-figure"]], "Specifying colormaps for pcolor or contourf plots": [[77, "specifying-colormaps-for-pcolor-or-contourf-plots"]], "How to debug setplot.py?": [[77, "how-to-debug-setplot-py"]], "Plotting routines for GeoClaw": [[78, "plotting-routines-for-geoclaw"]], "Plotting options in Python": [[79, "plotting-options-in-python"]], "Producing html plots from the command line": [[79, "producing-html-plots-from-the-command-line"]], "Producing a latex file with plots from the command line": [[79, "producing-a-latex-file-with-plots-from-the-command-line"]], "Setting plot parameters with a setplot function": [[79, "setting-plot-parameters-with-a-setplot-function"]], "Interactive plotting with Iplotclaw": [[79, "interactive-plotting-with-iplotclaw"]], "Access to current_data": [[79, "access-to-current-data"]], "printframes": [[79, "printframes"]], "Specifying what and how to plot": [[79, "specifying-what-and-how-to-plot"]], "Installation Prerequisites": [[80, "installation-prerequisites"]], "Operating system": [[80, "operating-system"]], "Fortran": [[80, "fortran"]], "Python": [[80, "python"]], "pip": [[80, "pip"]], "Git": [[80, "git"]], "About PyClaw": [[81, "about-pyclaw"]], "Contributors": [[81, "contributors"]], "PyClaw Basics": [[82, "pyclaw-basics"]], "Understanding Pyclaw Classes": [[83, "understanding-pyclaw-classes"]], "Flow of a Pyclaw Simulation": [[83, "flow-of-a-pyclaw-simulation"]], "Creation of a Pyclaw Solution": [[83, "creation-of-a-pyclaw-solution"]], "Creation of a Pyclaw Solver": [[83, "creation-of-a-pyclaw-solver"]], "Creating and Running a Simulation with Controller": [[83, "creating-and-running-a-simulation-with-controller"]], "Restarting a simulation": [[83, "restarting-a-simulation"]], "Outputting aux values": [[83, "outputting-aux-values"]], "Outputting derived quantities": [[83, "outputting-derived-quantities"], [93, "outputting-derived-quantities"]], "Porting a problem from Clawpack 4.6.x to PyClaw": [[84, "porting-a-problem-from-clawpack-4-6-x-to-pyclaw"]], "Running PyClaw in the cloud": [[85, "running-pyclaw-in-the-cloud"]], "Sage Math Cloud": [[85, "sage-math-cloud"]], "Pyclaw Controller Class": [[86, "pyclaw-controller-class"]], "pyclaw.controller.Controller": [[86, "pyclaw-controller-controller"]], "Pyclaw Limiters": [[87, "pyclaw-limiters"]], "clawpack.pyclaw.limiters.tvd": [[87, "module-clawpack.pyclaw.limiters.tvd"]], "CFL Independent Limiters": [[87, "cfl-independent-limiters"]], "CFL Dependent Limiters": [[87, "cfl-dependent-limiters"]], "Working with PyClaw\u2019s built-in examples": [[88, "working-with-pyclaw-s-built-in-examples"]], "Running and plotting examples": [[88, "running-and-plotting-examples"]], "Interactively in IPython": [[88, "interactively-in-ipython"]], "Built-in examples": [[88, "built-in-examples"]], "Adding new examples": [[88, "adding-new-examples"]], "PyClaw Geometry": [[89, "pyclaw-geometry"]], "Serial Geometry Objects": [[89, "serial-geometry-objects"]], "pyclaw.geometry.Domain": [[89, "pyclaw-geometry-domain"]], "pyclaw.geometry.Patch": [[89, "pyclaw-geometry-patch"]], "pyclaw.geometry.Grid": [[89, "pyclaw-geometry-grid"]], "pyclaw.geometry.Dimension": [[89, "pyclaw-geometry-dimension"]], "Parallel Geometry Objects": [[89, "parallel-geometry-objects"]], "petclaw.geometry.Domain": [[89, "petclaw-geometry-domain"]], "petclaw.geometry.Patch": [[89, "petclaw-geometry-patch"]], "Going Further": [[90, "going-further"]], "PyClaw installation": [[91, "pyclaw-installation"]], "Features": [[91, "features"]], "PyClaw Documentation": [[91, "pyclaw-documentation"]], "PyClaw Modules reference documentation": [[91, "pyclaw-modules-reference-documentation"]], "Riemann Solvers reference documentation": [[91, "riemann-solvers-reference-documentation"]], "Indices and tables": [[91, "indices-and-tables"]], "Citing PyClaw": [[91, "citing-pyclaw"]], "Pyclaw Input/Output Package": [[92, "pyclaw-input-output-package"]], "pyclaw.fileio.ascii": [[92, "module-clawpack.pyclaw.fileio.ascii"]], "pyclaw.fileio.hdf5": [[92, "pyclaw-fileio-hdf5"]], "pyclaw.fileio.netcdf": [[92, "module-clawpack.pyclaw.fileio.netcdf"]], "PyClaw output": [[93, "pyclaw-output"]], "Output frames": [[93, "output-frames"]], "When output is saved/written": [[93, "when-output-is-saved-written"]], "Where and how output is written": [[93, "where-and-how-output-is-written"]], "What output is written": [[93, "what-output-is-written"]], "Outputting functionals": [[93, "outputting-functionals"]], "Using gauges": [[93, "using-gauges"]], "Logging": [[93, "logging"]], "Running in parallel": [[94, "running-in-parallel"]], "Installing PETSc": [[94, "installing-petsc"]], "Testing your installation": [[94, "testing-your-installation"], [150, "testing-your-installation"]], "Running and plotting an example": [[94, "running-and-plotting-an-example"]], "Tips for making your application run correctly in parallel": [[94, "tips-for-making-your-application-run-correctly-in-parallel"]], "Passing options to PETSc": [[94, "passing-options-to-petsc"]], "Plotting PyClaw results": [[95, "plotting-pyclaw-results"]], "Basics": [[95, "basics"]], "Plotting result from parallel runs": [[95, "plotting-result-from-parallel-runs"]], "Setting up your own problem": [[96, "setting-up-your-own-problem"]], "Writing the initialization script": [[96, "writing-the-initialization-script"]], "Setting initial conditions": [[96, "setting-initial-conditions"]], "Setting auxiliary variables": [[96, "setting-auxiliary-variables"]], "Setting boundary conditions": [[96, "setting-boundary-conditions"]], "Setting solver options": [[96, "setting-solver-options"]], "Using your own Riemann solver": [[96, "using-your-own-riemann-solver"]], "Adding source terms": [[96, "adding-source-terms"]], "Setting up the Makefile": [[96, "setting-up-the-makefile"]], "Riemann Solver Package": [[97, "riemann-solver-package"]], "Acoustics": [[97, "acoustics"]], "Advection": [[97, "advection"]], "Burgers Equation": [[97, "burgers-equation"]], "Euler Equations": [[97, "euler-equations"]], "Shallow Water Equations": [[97, "shallow-water-equations"]], "PyClaw Solutions": [[98, "pyclaw-solutions"]], "pyclaw.solution.Solution": [[98, "pyclaw-solution-solution"]], "Using PyClaw\u2019s solvers: Classic and SharpClaw": [[99, "using-pyclaw-s-solvers-classic-and-sharpclaw"]], "SharpClaw Solvers": [[99, "sharpclaw-solvers"]], "pyclaw.sharpclaw": [[99, "pyclaw-sharpclaw"]], "Pyclaw Classic Clawpack Solvers": [[99, "pyclaw-classic-clawpack-solvers"]], "pyclaw.classic.solver": [[99, "pyclaw-classic-solver"]], "Change to Custom BC Function Signatures": [[99, "change-to-custom-bc-function-signatures"]], "Installing PyClaw": [[100, "installing-pyclaw"]], "Dependencies: Python, gfortran, numpy, and matplotlib": [[100, "dependencies-python-gfortran-numpy-and-matplotlib"]], "Obtaining Python, numpy, and matplotlib": [[100, "obtaining-python-numpy-and-matplotlib"]], "Clawpack": [[100, "clawpack"]], "Testing your installation with nose": [[100, "testing-your-installation-with-nose"]], "Next steps": [[100, "next-steps"]], "PyClaw State": [[101, "pyclaw-state"]], "Serial pyclaw.state.State": [[101, "serial-pyclaw-state-state"]], "Parallel petclaw.state.State": [[101, "parallel-petclaw-state-state"]], "Troubleshooting": [[102, "troubleshooting"], [155, "troubleshooting"]], "Compilation errors": [[102, "compilation-errors"]], "Use Fortran-ordered arrays": [[102, "use-fortran-ordered-arrays"]], "Installation": [[102, "installation"]], "PyClaw tutorial: Solve the acoustics equations": [[103, "pyclaw-tutorial-solve-the-acoustics-equations"]], "The Solver": [[103, "the-solver"]], "The domain": [[103, "the-domain"]], "Initial condition": [[103, "initial-condition"]], "Problem-specific parameters": [[103, "problem-specific-parameters"]], "The controller": [[103, "the-controller"]], "Pyclaw Utility Module": [[104, "pyclaw-utility-module"]], "pyclaw.util": [[104, "module-clawpack.pyclaw.util"]], "Python Hints": [[105, "python-hints"]], "Dropping support for Python 2.7": [[105, "dropping-support-for-python-2-7"]], "References and tutorials": [[105, "references-and-tutorials"]], "Notebooks": [[105, "notebooks"]], "Python path": [[106, "python-path"]], "whichclaw.py": [[106, "whichclaw-py"]], "Which version was imported?": [[106, "which-version-was-imported"]], "sys.path": [[106, "sys-path"]], "easy-install.pth": [[106, "easy-install-pth"]], "PYTHONPATH": [[106, "pythonpath"], [137, "pythonpath"]], "qinit default routines": [[107, "qinit-default-routines"]], "qinit routine in GeoClaw": [[107, "qinit-routine-in-geoclaw"]], "Quick start guide for storm surge modeling": [[108, "quick-start-guide-for-storm-surge-modeling"]], "Quick start guide for tsunami modeling": [[109, "quick-start-guide-for-tsunami-modeling"]], "AMR refinement criteria": [[110, "amr-refinement-criteria"]], "Flagging criteria": [[110, "flagging-criteria"]], "flag2refine": [[110, "flag2refine"]], "Richardson extrapolation": [[110, "richardson-extrapolation"]], "Specifying AMR regions": [[110, "specifying-amr-regions"]], "Implementation": [[110, "implementation"]], "Flagging criteria in GeoClaw": [[110, "flagging-criteria-in-geoclaw"]], "Regression testing": [[111, "regression-testing"]], "Running the tests": [[111, "running-the-tests"], [111, "id2"]], "Fortran codes": [[111, "fortran-codes"]], "Travis continuous integration": [[111, "travis-continuous-integration"]], "Diff tools for checking test output": [[111, "diff-tools-for-checking-test-output"]], "chardiff tool for line-by-line comparison of output files": [[111, "chardiff-tool-for-line-by-line-comparison-of-output-files"]], "imagediff tool for pixel comparison of plots": [[111, "imagediff-tool-for-pixel-comparison-of-plots"]], "Running and writing tests in PyClaw": [[111, "running-and-writing-tests-in-pyclaw"]], "Running serial tests simultaneously": [[111, "running-serial-tests-simultaneously"]], "Running a specific test": [[111, "running-a-specific-test"]], "Doctests": [[111, "doctests"]], "Writing New Tests": [[111, "writing-new-tests"]], "v5.0.0 release notes": [[112, "v5-0-0-release-notes"]], "Changes to classic, riemann, amrclaw, geoclaw, visclaw": [[112, "changes-to-classic-riemann-amrclaw-geoclaw-visclaw"]], "v5.1.0 release notes": [[113, "v5-1-0-release-notes"]], "v5.2.0 release notes": [[114, "v5-2-0-release-notes"]], "v5.2.1 release notes": [[115, "v5-2-1-release-notes"]], "v5.2.2 release notes": [[116, "v5-2-2-release-notes"]], "v5.3.0 release notes": [[117, "v5-3-0-release-notes"]], "v5.3.1 release notes": [[118, "v5-3-1-release-notes"]], "v5.4.0 release notes": [[119, "v5-4-0-release-notes"]], "Global changes": [[119, "global-changes"]], "v5.4.1 release notes": [[120, "v5-4-1-release-notes"]], "Changes to documentation": [[120, "changes-to-documentation"], [121, "changes-to-documentation"]], "v5.5.0 release notes": [[121, "v5-5-0-release-notes"]], "v5.6.0 release notes": [[122, "v5-6-0-release-notes"]], "v5.6.1 release notes": [[123, "v5-6-1-release-notes"]], "v5.7.0 release notes": [[124, "v5-7-0-release-notes"]], "Python support": [[124, "python-support"]], "v5.7.1 release notes": [[125, "v5-7-1-release-notes"]], "v5.8.0 release notes": [[126, "v5-8-0-release-notes"]], "v5.8.1 release notes": [[127, "v5-8-1-release-notes"]], "v5.8.2 release notes": [[128, "v5-8-2-release-notes"]], "Releases of Clawpack and release notes": [[129, "releases-of-clawpack-and-release-notes"]], "Other notes:": [[129, "other-notes"]], "Releases:": [[129, "id1"]], "Clawpack 4.x": [[129, "clawpack-4-x"]], "Checkpointing and restarting": [[130, "checkpointing-and-restarting"]], "Checkpointing a computation": [[130, "checkpointing-a-computation"]], "Restarting a computation": [[130, "restarting-a-computation"]], "Modifying the Makefile for a restart": [[130, "modifying-the-makefile-for-a-restart"]], "Output files after a restart": [[130, "output-files-after-a-restart"]], "Riemann solvers": [[131, "riemann-solvers"]], "One-dimensional Riemann solver": [[131, "one-dimensional-riemann-solver"]], "Pointwise Riemann solvers": [[131, "pointwise-riemann-solvers"]], "f-wave Riemann solvers": [[131, "f-wave-riemann-solvers"]], "2D Riemann solvers": [[131, "d-riemann-solvers"]], "Using a custom solver": [[131, "using-a-custom-solver"]], "Adding a solver to the Riemann repository": [[131, "adding-a-solver-to-the-riemann-repository"]], "Shallow water Riemann solvers in Clawpack": [[132, "shallow-water-riemann-solvers-in-clawpack"]], "One dimension": [[132, "one-dimension"]], "Two dimensions": [[132, "two-dimensions"]], "Layered shallow water equations": [[132, "layered-shallow-water-equations"]], "Potentially useful contributions (what\u2019s missing)": [[132, "potentially-useful-contributions-whats-missing"]], "Demonstrations": [[132, "demonstrations"]], "Roe": [[132, "roe"]], "HLL": [[132, "hll"]], "Ruled Rectangles": [[133, "ruled-rectangles"]], "Relation to convex polygons": [[133, "relation-to-convex-polygons"]], "Other attributes and methods": [[133, "other-attributes-and-methods"]], "ds": [[133, "ds"]], "slu": [[133, "slu"]], "bounding_box": [[133, "bounding-box"]], "mask_outside": [[133, "mask-outside"]], "read and write, and instantiating from a file": [[133, "read-and-write-and-instantiating-from-a-file"]], "make_kml": [[133, "make-kml"]], "A GeoClaw AMR flag region": [[133, "a-geoclaw-amr-flag-region"]], "A simple rectangle": [[133, "a-simple-rectangle"]], "Defining a Ruled Rectangle covering selected cells": [[133, "defining-a-ruled-rectangle-covering-selected-cells"]], "Example covering the continental shelf": [[133, "example-covering-the-continental-shelf"]], "Setting sea_level": [[134, "setting-sea-level"]], "Set Eta Init \u2013 spatially varying initial surface elevation": [[135, "set-eta-init-spatially-varying-initial-surface-elevation"]], "Default behavior, adjusting sea level by seismic deformation": [[135, "default-behavior-adjusting-sea-level-by-seismic-deformation"]], "Other use cases": [[135, "other-use-cases"]], "setaux default routines": [[136, "setaux-default-routines"]], "setaux routine in GeoClaw": [[136, "setaux-routine-in-geoclaw"]], "Set environment variables": [[137, "set-environment-variables"]], "CLAW": [[137, "claw"]], "FC": [[137, "fc"]], "Using setplot.py to specify the desired plots": [[138, "using-setplot-py-to-specify-the-desired-plots"]], "Plotting Data Objects": [[138, "plotting-data-objects"]], "Overview": [[138, "overview"]], "Specifying classic run-time parameters in setrun.py": [[139, "specifying-classic-run-time-parameters-in-setrun-py"]], "Input": [[139, "input"], [140, "input"]], "Output": [[139, "output"], [140, "output"]], "Run-time parameters": [[139, "run-time-parameters"], [140, "run-time-parameters"]], "Specifying AMRClaw run-time parameters in setrun.py": [[140, "specifying-amrclaw-run-time-parameters-in-setrun-py"]], "Special AMR parameters": [[140, "special-amr-parameters"]], "Debugging flags for additional printing": [[140, "debugging-flags-for-additional-printing"]], "Sample setrun.py module for AMRClaw": [[141, "sample-setrun-py-module-for-amrclaw"]], "Specifying GeoClaw parameters in setrun.py": [[142, "specifying-geoclaw-parameters-in-setrun-py"]], "Additional AMR parameters": [[142, "additional-amr-parameters"]], "General geo parameters": [[142, "general-geo-parameters"]], "Topography data file parameters": [[142, "topography-data-file-parameters"]], "qinit data file parameters": [[142, "qinit-data-file-parameters"]], "AMR refinement region parameters": [[142, "amr-refinement-region-parameters"]], "Fixed grid output parameters": [[142, "fixed-grid-output-parameters"]], "Fixed grid maximum monitoring / arrival times": [[142, "fixed-grid-maximum-monitoring-arrival-times"]], "Storm Specification Data": [[142, "storm-specification-data"]], "Sample setrun.py module for classic Clawpack": [[143, "sample-setrun-py-module-for-classic-clawpack"]], "Saving and sharing results": [[144, "saving-and-sharing-results"]], "Making webpages of plots": [[144, "making-webpages-of-plots"]], "Sharing your results": [[144, "sharing-your-results"]], "Jupyter notebooks": [[144, "jupyter-notebooks"]], "Compiling the Sphinx documentation locally": [[145, "compiling-the-sphinx-documentation-locally"]], "src1d default routines": [[146, "src1d-default-routines"]], "src1d routine in GeoClaw": [[146, "src1d-routine-in-geoclaw"]], "src default routines": [[147, "src-default-routines"]], "src routine in GeoClaw": [[147, "src-routine-in-geoclaw"]], "Storm Specification Class and Tools": [[148, "storm-specification-class-and-tools"]], "Sources for Storm Surge Data": [[149, "sources-for-storm-surge-data"]], "Timing Statistics": [[151, "timing-statistics"]], "Topography data": [[152, "topography-data"]], "Downloading topography files": [[152, "downloading-topography-files"]], "NetCDF format": [[152, "netcdf-format"]], "Topography displacement files": [[152, "topography-displacement-files"]], "qinit data file": [[152, "qinit-data-file"]], "Python tools for working with topo and dtopo": [[153, "python-tools-for-working-with-topo-and-dtopo"]], "topotools module for working with topography data": [[154, "topotools-module-for-working-with-topography-data"]], "Troubleshooting Installation": [[155, "troubleshooting-installation"]], "Troubleshooting Fortran:": [[155, "troubleshooting-fortran"]], "Setting the Fortran compiler to be used by f2py (pip)": [[155, "setting-the-fortran-compiler-to-be-used-by-f2py-pip"]], "Trouble compiling Fortran code at the command line": [[155, "trouble-compiling-fortran-code-at-the-command-line"]], "Trouble running \u201cmake .exe\u201d": [[155, "trouble-running-make-exe"]], "Trouble running \u201cmake .data\u201d": [[155, "trouble-running-make-data"]], "Trouble running \u201cmake .output\u201d": [[155, "trouble-running-make-output"]], "Trouble running \u201cmake .plots\u201d": [[155, "trouble-running-make-plots"]], "Some sources of tsunami data": [[156, "some-sources-of-tsunami-data"]], "Topography / bathymetry": [[156, "topography-bathymetry"]], "Earthquake source models": [[156, "earthquake-source-models"]], "DART buoy data": [[156, "dart-buoy-data"]], "Tide gauges": [[156, "tide-gauges"]], "User files required for the Fortran code": [[157, "user-files-required-for-the-fortran-code"]], "Specifying the initial conditions": [[157, "specifying-the-initial-conditions"]], "Specifying the Riemann solver": [[157, "specifying-the-riemann-solver"]], "Specifying boundary conditions": [[157, "specifying-boundary-conditions"]], "Specifying problem-specific data": [[157, "specifying-problem-specific-data"]], "Specifying spatially-varying data using setaux": [[157, "specifying-spatially-varying-data-using-setaux"]], "Using b4step for work to be done before each time step": [[157, "using-b4step-for-work-to-be-done-before-each-time-step"]], "Using src for source terms": [[157, "using-src-for-source-terms"]], "Using src1d for source terms with AMRClaw": [[157, "using-src1d-for-source-terms-with-amrclaw"]], "Plotting with VisIt": [[158, "plotting-with-visit"]], "Clawpack Virtual Machine": [[159, "clawpack-virtual-machine"]], "Wave-propagation algorithms": [[160, "wave-propagation-algorithms"]], "One space dimension": [[160, "one-space-dimension"]], "Godunov\u2019s method": [[160, "godunov-s-method"]], "High-resolution methods": [[160, "high-resolution-methods"]], "f-wave formulation": [[160, "f-wave-formulation"]], "Capacity functions": [[160, "capacity-functions"]], "Source terms": [[160, "source-terms"]]}, "indexentries": {"clawplotaxes (built-in class)": [[0, "ClawPlotAxes"]], "gethandle()": [[0, "gethandle"], [2, "gethandle"], [3, "gethandle"]], "new_plotitem()": [[0, "new_plotitem"]], "clawplotdata (built-in class)": [[1, "ClawPlotData"]], "clearfigures()": [[1, "clearfigures"]], "clearframes()": [[1, "clearframes"]], "getaxes()": [[1, "getaxes"]], "getfigure()": [[1, "getfigure"]], "getframe()": [[1, "getframe"], [3, "getframe"]], "getitem()": [[1, "getitem"]], "iplotclaw()": [[1, "iplotclaw"]], "new_plotfigure()": [[1, "new_plotfigure"]], "plotframe()": [[1, "plotframe"]], "printframes()": [[1, "printframes"]], "showitems()": [[1, "showitems"]], "clawplotfigure (built-in class)": [[2, "ClawPlotFigure"]], "new_plotaxes()": [[2, "new_plotaxes"]], "clawplotitem (built-in class)": [[3, "ClawPlotItem"]], "csvfault (class in clawpack.geoclaw.dtopotools)": [[30, "clawpack.geoclaw.dtopotools.CSVFault"]], "dtopography (class in clawpack.geoclaw.dtopotools)": [[30, "clawpack.geoclaw.dtopotools.DTopography"]], "fault (class in clawpack.geoclaw.dtopotools)": [[30, "clawpack.geoclaw.dtopotools.Fault"]], "mo() (clawpack.geoclaw.dtopotools.fault method)": [[30, "clawpack.geoclaw.dtopotools.Fault.Mo"]], "mo() (clawpack.geoclaw.dtopotools.subfault method)": [[30, "clawpack.geoclaw.dtopotools.SubFault.Mo"]], "mw() (clawpack.geoclaw.dtopotools.fault method)": [[30, "clawpack.geoclaw.dtopotools.Fault.Mw"]], "mw() (in module clawpack.geoclaw.dtopotools)": [[30, "clawpack.geoclaw.dtopotools.Mw"]], "siftfault (class in clawpack.geoclaw.dtopotools)": [[30, "clawpack.geoclaw.dtopotools.SiftFault"]], "subfault (class in clawpack.geoclaw.dtopotools)": [[30, "clawpack.geoclaw.dtopotools.SubFault"]], "subdividedplanefault (class in clawpack.geoclaw.dtopotools)": [[30, "clawpack.geoclaw.dtopotools.SubdividedPlaneFault"]], "tensorproductfault (class in clawpack.geoclaw.dtopotools)": [[30, "clawpack.geoclaw.dtopotools.TensorProductFault"]], "ucsbfault (class in clawpack.geoclaw.dtopotools)": [[30, "clawpack.geoclaw.dtopotools.UCSBFault"]], "calculate_geometry() (clawpack.geoclaw.dtopotools.subfault method)": [[30, "clawpack.geoclaw.dtopotools.SubFault.calculate_geometry"]], "calculate_geometry_triangles() (clawpack.geoclaw.dtopotools.subfault method)": [[30, "clawpack.geoclaw.dtopotools.SubFault.calculate_geometry_triangles"]], "centers (clawpack.geoclaw.dtopotools.subfault property)": [[30, "clawpack.geoclaw.dtopotools.SubFault.centers"]], "clawpack.geoclaw.dtopotools": [[30, "module-clawpack.geoclaw.dtopotools"]], "containing_rect() (clawpack.geoclaw.dtopotools.fault method)": [[30, "clawpack.geoclaw.dtopotools.Fault.containing_rect"]], "convert_to_standard_units() (clawpack.geoclaw.dtopotools.subfault method)": [[30, "clawpack.geoclaw.dtopotools.SubFault.convert_to_standard_units"]], "coordinate_specification (clawpack.geoclaw.dtopotools.subfault attribute)": [[30, "clawpack.geoclaw.dtopotools.SubFault.coordinate_specification"]], "corners (clawpack.geoclaw.dtopotools.subfault property)": [[30, "clawpack.geoclaw.dtopotools.SubFault.corners"]], "create_dtopo_xy() (clawpack.geoclaw.dtopotools.fault method)": [[30, "clawpack.geoclaw.dtopotools.Fault.create_dtopo_xy"]], "create_dtopography() (clawpack.geoclaw.dtopotools.fault method)": [[30, "clawpack.geoclaw.dtopotools.Fault.create_dtopography"]], "dz_at_t() (clawpack.geoclaw.dtopotools.dtopography method)": [[30, "clawpack.geoclaw.dtopotools.DTopography.dZ_at_t"]], "dz_max() (clawpack.geoclaw.dtopotools.dtopography method)": [[30, "clawpack.geoclaw.dtopotools.DTopography.dZ_max"]], "depth (clawpack.geoclaw.dtopotools.subfault attribute)": [[30, "clawpack.geoclaw.dtopotools.SubFault.depth"]], "dip (clawpack.geoclaw.dtopotools.subfault attribute)": [[30, "clawpack.geoclaw.dtopotools.SubFault.dip"]], "dynamic_slip() (clawpack.geoclaw.dtopotools.subfault method)": [[30, "clawpack.geoclaw.dtopotools.SubFault.dynamic_slip"]], "gauss_pts (clawpack.geoclaw.dtopotools.subfault property)": [[30, "clawpack.geoclaw.dtopotools.SubFault.gauss_pts"]], "latitude (clawpack.geoclaw.dtopotools.subfault attribute)": [[30, "clawpack.geoclaw.dtopotools.SubFault.latitude"]], "length (clawpack.geoclaw.dtopotools.subfault attribute)": [[30, "clawpack.geoclaw.dtopotools.SubFault.length"]], "longitude (clawpack.geoclaw.dtopotools.subfault attribute)": [[30, "clawpack.geoclaw.dtopotools.SubFault.longitude"]], "module": [[30, "module-clawpack.geoclaw.dtopotools"], [33, "module-clawpack.geoclaw.fgmax_tools"], [47, "module-clawpack.geoclaw.util"], [59, "module-clawpack.geoclaw.kmltools"], [87, "module-clawpack.pyclaw.limiters.tvd"], [92, "module-clawpack.pyclaw.fileio.ascii"], [92, "module-clawpack.pyclaw.fileio.netcdf"], [97, "module-clawpack.riemann.acoustics_1D_py"], [97, "module-clawpack.riemann.advection_1D_py"], [97, "module-clawpack.riemann.burgers_1D_py"], [97, "module-clawpack.riemann.euler_1D_py"], [97, "module-clawpack.riemann.shallow_1D_py"], [104, "module-clawpack.pyclaw.util"], [148, "module-clawpack.geoclaw.surge.storm"], [154, "module-clawpack.geoclaw.topotools"]], "mu (clawpack.geoclaw.dtopotools.subfault attribute)": [[30, "clawpack.geoclaw.dtopotools.SubFault.mu"]], "okada() (clawpack.geoclaw.dtopotools.subfault method)": [[30, "clawpack.geoclaw.dtopotools.SubFault.okada"]], "plot_dz_colors() (clawpack.geoclaw.dtopotools.dtopography method)": [[30, "clawpack.geoclaw.dtopotools.DTopography.plot_dZ_colors"]], "plot_dz_colors() (in module clawpack.geoclaw.dtopotools)": [[30, "clawpack.geoclaw.dtopotools.plot_dZ_colors"]], "plot_dz_contours() (clawpack.geoclaw.dtopotools.dtopography method)": [[30, "clawpack.geoclaw.dtopotools.DTopography.plot_dZ_contours"]], "plot_dz_contours() (in module clawpack.geoclaw.dtopotools)": [[30, "clawpack.geoclaw.dtopotools.plot_dZ_contours"]], "plot_subfaults() (clawpack.geoclaw.dtopotools.fault method)": [[30, "clawpack.geoclaw.dtopotools.Fault.plot_subfaults"]], "plot_subfaults_depth() (clawpack.geoclaw.dtopotools.fault method)": [[30, "clawpack.geoclaw.dtopotools.Fault.plot_subfaults_depth"]], "rake (clawpack.geoclaw.dtopotools.subfault attribute)": [[30, "clawpack.geoclaw.dtopotools.SubFault.rake"]], "read() (clawpack.geoclaw.dtopotools.csvfault method)": [[30, "clawpack.geoclaw.dtopotools.CSVFault.read"]], "read() (clawpack.geoclaw.dtopotools.dtopography method)": [[30, "clawpack.geoclaw.dtopotools.DTopography.read"]], "read() (clawpack.geoclaw.dtopotools.fault method)": [[30, "clawpack.geoclaw.dtopotools.Fault.read"]], "read() (clawpack.geoclaw.dtopotools.ucsbfault method)": [[30, "clawpack.geoclaw.dtopotools.UCSBFault.read"]], "rise_fraction() (in module clawpack.geoclaw.dtopotools)": [[30, "clawpack.geoclaw.dtopotools.rise_fraction"]], "rise_shape (clawpack.geoclaw.dtopotools.subfault attribute)": [[30, "clawpack.geoclaw.dtopotools.SubFault.rise_shape"]], "rise_time (clawpack.geoclaw.dtopotools.subfault attribute)": [[30, "clawpack.geoclaw.dtopotools.SubFault.rise_time"]], "rise_time_starting (clawpack.geoclaw.dtopotools.subfault attribute)": [[30, "clawpack.geoclaw.dtopotools.SubFault.rise_time_starting"]], "rupture_time (clawpack.geoclaw.dtopotools.subfault attribute)": [[30, "clawpack.geoclaw.dtopotools.SubFault.rupture_time"]], "rupture_type (clawpack.geoclaw.dtopotools.subfault attribute)": [[30, "clawpack.geoclaw.dtopotools.SubFault.rupture_type"]], "set_corners() (clawpack.geoclaw.dtopotools.subfault method)": [[30, "clawpack.geoclaw.dtopotools.SubFault.set_corners"]], "set_dynamic_slip() (clawpack.geoclaw.dtopotools.fault method)": [[30, "clawpack.geoclaw.dtopotools.Fault.set_dynamic_slip"]], "set_subfaults() (clawpack.geoclaw.dtopotools.siftfault method)": [[30, "clawpack.geoclaw.dtopotools.SiftFault.set_subfaults"]], "slip (clawpack.geoclaw.dtopotools.subfault attribute)": [[30, "clawpack.geoclaw.dtopotools.SubFault.slip"]], "strike (clawpack.geoclaw.dtopotools.subfault attribute)": [[30, "clawpack.geoclaw.dtopotools.SubFault.strike"]], "strike_direction() (in module clawpack.geoclaw.dtopotools)": [[30, "clawpack.geoclaw.dtopotools.strike_direction"]], "subdivide() (clawpack.geoclaw.dtopotools.subdividedplanefault method)": [[30, "clawpack.geoclaw.dtopotools.SubdividedPlaneFault.subdivide"]], "width (clawpack.geoclaw.dtopotools.subfault attribute)": [[30, "clawpack.geoclaw.dtopotools.SubFault.width"]], "write() (clawpack.geoclaw.dtopotools.dtopography method)": [[30, "clawpack.geoclaw.dtopotools.DTopography.write"]], "write() (clawpack.geoclaw.dtopotools.fault method)": [[30, "clawpack.geoclaw.dtopotools.Fault.write"]], "fgmaxgrid (class in clawpack.geoclaw.fgmax_tools)": [[33, "clawpack.geoclaw.fgmax_tools.FGmaxGrid"]], "adjust_fgmax_1d() (in module clawpack.geoclaw.fgmax_tools)": [[33, "clawpack.geoclaw.fgmax_tools.adjust_fgmax_1d"]], "bounding_box() (clawpack.geoclaw.fgmax_tools.fgmaxgrid method)": [[33, "clawpack.geoclaw.fgmax_tools.FGmaxGrid.bounding_box"]], "clawpack.geoclaw.fgmax_tools": [[33, "module-clawpack.geoclaw.fgmax_tools"]], "interp_dz() (clawpack.geoclaw.fgmax_tools.fgmaxgrid method)": [[33, "clawpack.geoclaw.fgmax_tools.FGmaxGrid.interp_dz"]], "ps4_to_arrays() (clawpack.geoclaw.fgmax_tools.fgmaxgrid method)": [[33, "clawpack.geoclaw.fgmax_tools.FGmaxGrid.ps4_to_arrays"]], "read_fgmax_grids_data() (clawpack.geoclaw.fgmax_tools.fgmaxgrid method)": [[33, "clawpack.geoclaw.fgmax_tools.FGmaxGrid.read_fgmax_grids_data"]], "read_output() (clawpack.geoclaw.fgmax_tools.fgmaxgrid method)": [[33, "clawpack.geoclaw.fgmax_tools.FGmaxGrid.read_output"]], "write_to_fgmax_data() (clawpack.geoclaw.fgmax_tools.fgmaxgrid method)": [[33, "clawpack.geoclaw.fgmax_tools.FGmaxGrid.write_to_fgmax_data"]], "bearing() (in module clawpack.geoclaw.util)": [[47, "clawpack.geoclaw.util.bearing"]], "clawpack.geoclaw.util": [[47, "module-clawpack.geoclaw.util"]], "dist_latlong2meters() (in module clawpack.geoclaw.util)": [[47, "clawpack.geoclaw.util.dist_latlong2meters"]], "dist_meters2latlong() (in module clawpack.geoclaw.util)": [[47, "clawpack.geoclaw.util.dist_meters2latlong"]], "dms2decimal() (in module clawpack.geoclaw.util)": [[47, "clawpack.geoclaw.util.dms2decimal"]], "fetch_noaa_tide_data() (in module clawpack.geoclaw.util)": [[47, "clawpack.geoclaw.util.fetch_noaa_tide_data"]], "haversine() (in module clawpack.geoclaw.util)": [[47, "clawpack.geoclaw.util.haversine"]], "inv_haversine() (in module clawpack.geoclaw.util)": [[47, "clawpack.geoclaw.util.inv_haversine"]], "box2kml() (in module clawpack.geoclaw.kmltools)": [[59, "clawpack.geoclaw.kmltools.box2kml"]], "clawpack.geoclaw.kmltools": [[59, "module-clawpack.geoclaw.kmltools"]], "deg2dms() (in module clawpack.geoclaw.kmltools)": [[59, "clawpack.geoclaw.kmltools.deg2dms"]], "dtopo2kml() (in module clawpack.geoclaw.kmltools)": [[59, "clawpack.geoclaw.kmltools.dtopo2kml"]], "f2s() (in module clawpack.geoclaw.kmltools)": [[59, "clawpack.geoclaw.kmltools.f2s"]], "fgmax2kml() (in module clawpack.geoclaw.kmltools)": [[59, "clawpack.geoclaw.kmltools.fgmax2kml"]], "fgout2kml() (in module clawpack.geoclaw.kmltools)": [[59, "clawpack.geoclaw.kmltools.fgout2kml"]], "gauges2kml() (in module clawpack.geoclaw.kmltools)": [[59, "clawpack.geoclaw.kmltools.gauges2kml"]], "kml_build_colorbar() (in module clawpack.geoclaw.kmltools)": [[59, "clawpack.geoclaw.kmltools.kml_build_colorbar"]], "kml_cb() (in module clawpack.geoclaw.kmltools)": [[59, "clawpack.geoclaw.kmltools.kml_cb"]], "kml_png() (in module clawpack.geoclaw.kmltools)": [[59, "clawpack.geoclaw.kmltools.kml_png"]], "kml_timespan() (in module clawpack.geoclaw.kmltools)": [[59, "clawpack.geoclaw.kmltools.kml_timespan"]], "line2kml() (in module clawpack.geoclaw.kmltools)": [[59, "clawpack.geoclaw.kmltools.line2kml"]], "make_input_data_kmls() (in module clawpack.geoclaw.kmltools)": [[59, "clawpack.geoclaw.kmltools.make_input_data_kmls"]], "pcolorcells_for_kml() (in module clawpack.geoclaw.kmltools)": [[59, "clawpack.geoclaw.kmltools.pcolorcells_for_kml"]], "png2kml() (in module clawpack.geoclaw.kmltools)": [[59, "clawpack.geoclaw.kmltools.png2kml"]], "poly2kml() (in module clawpack.geoclaw.kmltools)": [[59, "clawpack.geoclaw.kmltools.poly2kml"]], "quad2kml() (in module clawpack.geoclaw.kmltools)": [[59, "clawpack.geoclaw.kmltools.quad2kml"]], "regions2kml() (in module clawpack.geoclaw.kmltools)": [[59, "clawpack.geoclaw.kmltools.regions2kml"]], "topo2kml() (in module clawpack.geoclaw.kmltools)": [[59, "clawpack.geoclaw.kmltools.topo2kml"]], "topo2kmz() (in module clawpack.geoclaw.kmltools)": [[59, "clawpack.geoclaw.kmltools.topo2kmz"]], "controller (class in clawpack.pyclaw.controller)": [[86, "clawpack.pyclaw.controller.Controller"]], "f_file_name (clawpack.pyclaw.controller.controller attribute)": [[86, "clawpack.pyclaw.controller.Controller.F_file_name"]], "f_path (clawpack.pyclaw.controller.controller property)": [[86, "clawpack.pyclaw.controller.Controller.F_path"]], "check_validity() (clawpack.pyclaw.controller.controller method)": [[86, "clawpack.pyclaw.controller.Controller.check_validity"]], "compute_f (clawpack.pyclaw.controller.controller attribute)": [[86, "clawpack.pyclaw.controller.Controller.compute_F"]], "compute_p (clawpack.pyclaw.controller.controller attribute)": [[86, "clawpack.pyclaw.controller.Controller.compute_p"]], "file_prefix_p (clawpack.pyclaw.controller.controller attribute)": [[86, "clawpack.pyclaw.controller.Controller.file_prefix_p"]], "frames (clawpack.pyclaw.controller.controller attribute)": [[86, "clawpack.pyclaw.controller.Controller.frames"]], "keep_copy (clawpack.pyclaw.controller.controller attribute)": [[86, "clawpack.pyclaw.controller.Controller.keep_copy"]], "nstepout (clawpack.pyclaw.controller.controller attribute)": [[86, "clawpack.pyclaw.controller.Controller.nstepout"]], "num_output_times (clawpack.pyclaw.controller.controller attribute)": [[86, "clawpack.pyclaw.controller.Controller.num_output_times"]], "out_times (clawpack.pyclaw.controller.controller attribute)": [[86, "clawpack.pyclaw.controller.Controller.out_times"]], "outdir (clawpack.pyclaw.controller.controller attribute)": [[86, "clawpack.pyclaw.controller.Controller.outdir"]], "outdir_p (clawpack.pyclaw.controller.controller property)": [[86, "clawpack.pyclaw.controller.Controller.outdir_p"]], "output_file_prefix (clawpack.pyclaw.controller.controller attribute)": [[86, "clawpack.pyclaw.controller.Controller.output_file_prefix"]], "output_format (clawpack.pyclaw.controller.controller attribute)": [[86, "clawpack.pyclaw.controller.Controller.output_format"]], "output_options (clawpack.pyclaw.controller.controller attribute)": [[86, "clawpack.pyclaw.controller.Controller.output_options"]], "output_style (clawpack.pyclaw.controller.controller attribute)": [[86, "clawpack.pyclaw.controller.Controller.output_style"]], "overwrite (clawpack.pyclaw.controller.controller attribute)": [[86, "clawpack.pyclaw.controller.Controller.overwrite"]], "plot() (clawpack.pyclaw.controller.controller method)": [[86, "clawpack.pyclaw.controller.Controller.plot"]], "plotdata (clawpack.pyclaw.controller.controller attribute)": [[86, "clawpack.pyclaw.controller.Controller.plotdata"]], "run() (clawpack.pyclaw.controller.controller method)": [[86, "clawpack.pyclaw.controller.Controller.run"]], "rundir (clawpack.pyclaw.controller.controller attribute)": [[86, "clawpack.pyclaw.controller.Controller.rundir"]], "runmake (clawpack.pyclaw.controller.controller attribute)": [[86, "clawpack.pyclaw.controller.Controller.runmake"]], "savecode (clawpack.pyclaw.controller.controller attribute)": [[86, "clawpack.pyclaw.controller.Controller.savecode"]], "solver (clawpack.pyclaw.controller.controller attribute)": [[86, "clawpack.pyclaw.controller.Controller.solver"]], "tfinal (clawpack.pyclaw.controller.controller attribute)": [[86, "clawpack.pyclaw.controller.Controller.tfinal"]], "verbosity (clawpack.pyclaw.controller.controller property)": [[86, "clawpack.pyclaw.controller.Controller.verbosity"]], "viewable_attributes (clawpack.pyclaw.controller.controller attribute)": [[86, "clawpack.pyclaw.controller.Controller.viewable_attributes"]], "write_aux_always (clawpack.pyclaw.controller.controller attribute)": [[86, "clawpack.pyclaw.controller.Controller.write_aux_always"]], "write_aux_init (clawpack.pyclaw.controller.controller attribute)": [[86, "clawpack.pyclaw.controller.Controller.write_aux_init"]], "xclawcmd (clawpack.pyclaw.controller.controller attribute)": [[86, "clawpack.pyclaw.controller.Controller.xclawcmd"]], "xclawerr (clawpack.pyclaw.controller.controller attribute)": [[86, "clawpack.pyclaw.controller.Controller.xclawerr"]], "xclawout (clawpack.pyclaw.controller.controller attribute)": [[86, "clawpack.pyclaw.controller.Controller.xclawout"]], "xdir (clawpack.pyclaw.controller.controller attribute)": [[86, "clawpack.pyclaw.controller.Controller.xdir"]], "arora_roe() (in module clawpack.pyclaw.limiters.tvd)": [[87, "clawpack.pyclaw.limiters.tvd.arora_roe"]], "beta_limiter() (in module clawpack.pyclaw.limiters.tvd)": [[87, "clawpack.pyclaw.limiters.tvd.beta_limiter"]], "cada_torrilhon_limiter() (in module clawpack.pyclaw.limiters.tvd)": [[87, "clawpack.pyclaw.limiters.tvd.cada_torrilhon_limiter"]], "cada_torrilhon_limiter_nonlinear() (in module 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"superpower_limiter() (in module clawpack.pyclaw.limiters.tvd)": [[87, "clawpack.pyclaw.limiters.tvd.superpower_limiter"]], "theta_limiter() (in module clawpack.pyclaw.limiters.tvd)": [[87, "clawpack.pyclaw.limiters.tvd.theta_limiter"]], "upper_bound_limiter() (in module clawpack.pyclaw.limiters.tvd)": [[87, "clawpack.pyclaw.limiters.tvd.upper_bound_limiter"]], "van_leer_klein_sharpening_limiter() (in module clawpack.pyclaw.limiters.tvd)": [[87, "clawpack.pyclaw.limiters.tvd.van_leer_klein_sharpening_limiter"]], "dimension (class in clawpack.pyclaw.geometry)": [[89, "clawpack.pyclaw.geometry.Dimension"]], "domain (class in clawpack.petclaw.geometry)": [[89, "clawpack.petclaw.geometry.Domain"]], "domain (class in clawpack.pyclaw.geometry)": [[89, "clawpack.pyclaw.geometry.Domain"]], "grid (class in clawpack.pyclaw.geometry)": [[89, "clawpack.pyclaw.geometry.Grid"]], "patch (class in clawpack.petclaw.geometry)": [[89, "clawpack.petclaw.geometry.Patch"]], "patch (class in 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(clawpack.pyclaw.geometry.dimension property)": [[89, "clawpack.pyclaw.geometry.Dimension.centers"]], "centers_with_ghost() (clawpack.pyclaw.geometry.dimension method)": [[89, "clawpack.pyclaw.geometry.Dimension.centers_with_ghost"]], "delta (clawpack.pyclaw.geometry.dimension property)": [[89, "clawpack.pyclaw.geometry.Dimension.delta"]], "delta (clawpack.pyclaw.geometry.patch property)": [[89, "clawpack.pyclaw.geometry.Patch.delta"]], "dimensional_split (clawpack.petclaw.geometry.domain attribute)": [[89, "clawpack.petclaw.geometry.Domain.dimensional_split"]], "dimensions (clawpack.pyclaw.geometry.grid property)": [[89, "clawpack.pyclaw.geometry.Grid.dimensions"]], "dimensions (clawpack.pyclaw.geometry.patch property)": [[89, "clawpack.pyclaw.geometry.Patch.dimensions"]], "fwave (clawpack.petclaw.geometry.domain attribute)": [[89, "clawpack.petclaw.geometry.Domain.fwave"]], "gauge_dir_name (clawpack.pyclaw.geometry.grid attribute)": [[89, "clawpack.pyclaw.geometry.Grid.gauge_dir_name"]], "gauge_file_names (clawpack.pyclaw.geometry.grid attribute)": [[89, "clawpack.pyclaw.geometry.Grid.gauge_file_names"]], "gauge_files (clawpack.pyclaw.geometry.grid attribute)": [[89, "clawpack.pyclaw.geometry.Grid.gauge_files"]], "gauges (clawpack.pyclaw.geometry.grid attribute)": [[89, "clawpack.pyclaw.geometry.Grid.gauges"]], "get_dim_attribute() (clawpack.pyclaw.geometry.grid method)": [[89, "clawpack.pyclaw.geometry.Grid.get_dim_attribute"]], "get_dim_attribute() (clawpack.pyclaw.geometry.patch method)": [[89, "clawpack.pyclaw.geometry.Patch.get_dim_attribute"]], "grid (clawpack.pyclaw.geometry.domain property)": [[89, "clawpack.pyclaw.geometry.Domain.grid"]], "kernel_language (clawpack.petclaw.geometry.domain attribute)": [[89, "clawpack.petclaw.geometry.Domain.kernel_language"]], "level (clawpack.pyclaw.geometry.patch attribute)": [[89, "clawpack.pyclaw.geometry.Patch.level"]], "lower_global (clawpack.pyclaw.geometry.patch property)": [[89, "clawpack.pyclaw.geometry.Patch.lower_global"]], "mthlim (clawpack.petclaw.geometry.domain attribute)": [[89, "clawpack.petclaw.geometry.Domain.mthlim"]], "name (clawpack.pyclaw.geometry.patch property)": [[89, "clawpack.pyclaw.geometry.Patch.name"]], "nodes (clawpack.pyclaw.geometry.dimension property)": [[89, "clawpack.pyclaw.geometry.Dimension.nodes"]], "nodes_with_ghost() (clawpack.pyclaw.geometry.dimension method)": [[89, "clawpack.pyclaw.geometry.Dimension.nodes_with_ghost"]], "num_cells_global (clawpack.pyclaw.geometry.patch property)": [[89, "clawpack.pyclaw.geometry.Patch.num_cells_global"]], "num_dim (clawpack.pyclaw.geometry.domain property)": [[89, "clawpack.pyclaw.geometry.Domain.num_dim"]], "num_dim (clawpack.pyclaw.geometry.grid property)": [[89, "clawpack.pyclaw.geometry.Grid.num_dim"]], "num_dim (clawpack.pyclaw.geometry.patch property)": [[89, "clawpack.pyclaw.geometry.Patch.num_dim"]], "order (clawpack.petclaw.geometry.domain attribute)": [[89, "clawpack.petclaw.geometry.Domain.order"]], "p_center() (clawpack.pyclaw.geometry.grid method)": [[89, "clawpack.pyclaw.geometry.Grid.p_center"]], "p_centers (clawpack.pyclaw.geometry.grid property)": [[89, "clawpack.pyclaw.geometry.Grid.p_centers"]], "p_nodes (clawpack.pyclaw.geometry.grid property)": [[89, "clawpack.pyclaw.geometry.Grid.p_nodes"]], "patch (clawpack.pyclaw.geometry.domain property)": [[89, "clawpack.pyclaw.geometry.Domain.patch"]], "patch_index (clawpack.pyclaw.geometry.patch attribute)": [[89, "clawpack.pyclaw.geometry.Patch.patch_index"]], "plot() (clawpack.pyclaw.geometry.grid method)": [[89, "clawpack.pyclaw.geometry.Grid.plot"]], "setup_gauge_files() (clawpack.pyclaw.geometry.grid method)": [[89, "clawpack.pyclaw.geometry.Grid.setup_gauge_files"]], "source_split (clawpack.petclaw.geometry.domain attribute)": [[89, "clawpack.petclaw.geometry.Domain.source_split"]], "step_source (clawpack.petclaw.geometry.domain attribute)": [[89, "clawpack.petclaw.geometry.Domain.step_source"]], "transverse_waves (clawpack.petclaw.geometry.domain attribute)": [[89, "clawpack.petclaw.geometry.Domain.transverse_waves"]], "upper_global (clawpack.pyclaw.geometry.patch property)": [[89, "clawpack.pyclaw.geometry.Patch.upper_global"]], "verbosity (clawpack.petclaw.geometry.domain attribute)": [[89, "clawpack.petclaw.geometry.Domain.verbosity"]], "clawpack.pyclaw.fileio.ascii": [[92, "module-clawpack.pyclaw.fileio.ascii"]], "clawpack.pyclaw.fileio.netcdf": [[92, "module-clawpack.pyclaw.fileio.netcdf"]], "read() (in module clawpack.pyclaw.fileio.ascii)": [[92, "clawpack.pyclaw.fileio.ascii.read"]], "read() (in module clawpack.pyclaw.fileio.netcdf)": [[92, "clawpack.pyclaw.fileio.netcdf.read"]], "read_array() (in module clawpack.pyclaw.fileio.ascii)": [[92, "clawpack.pyclaw.fileio.ascii.read_array"]], "read_patch_header() (in module clawpack.pyclaw.fileio.ascii)": [[92, "clawpack.pyclaw.fileio.ascii.read_patch_header"]], "read_t() (in 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"module-clawpack.riemann.burgers_1D_py"]], "clawpack.riemann.euler_1d_py": [[97, "module-clawpack.riemann.euler_1D_py"]], "clawpack.riemann.shallow_1d_py": [[97, "module-clawpack.riemann.shallow_1D_py"]], "euler_exact_1d() (in module clawpack.riemann.euler_1d_py)": [[97, "clawpack.riemann.euler_1D_py.euler_exact_1D"]], "euler_hll_1d() (in module clawpack.riemann.euler_1d_py)": [[97, "clawpack.riemann.euler_1D_py.euler_hll_1D"]], "euler_hllc_1d() (in module clawpack.riemann.euler_1d_py)": [[97, "clawpack.riemann.euler_1D_py.euler_hllc_1D"]], "euler_roe_1d() (in module clawpack.riemann.euler_1d_py)": [[97, "clawpack.riemann.euler_1D_py.euler_roe_1D"]], "shallow_exact_1d() (in module clawpack.riemann.shallow_1d_py)": [[97, "clawpack.riemann.shallow_1D_py.shallow_exact_1D"]], "shallow_fwave_1d() (in module clawpack.riemann.shallow_1d_py)": [[97, "clawpack.riemann.shallow_1D_py.shallow_fwave_1d"]], "shallow_hll_1d() (in module clawpack.riemann.shallow_1d_py)": [[97, 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"clawpack.geoclaw.topotools.topo3writer"]], "write() (clawpack.geoclaw.topotools.topography method)": [[154, "clawpack.geoclaw.topotools.Topography.write"]]}}) \ No newline at end of file diff --git a/v5.8.x/topotools_module.html b/v5.8.x/topotools_module.html index 3895d1d1a..3372723fb 100644 --- a/v5.8.x/topotools_module.html +++ b/v5.8.x/topotools_module.html @@ -136,7 +136,7 @@

Navigation

-class clawpack.geoclaw.topotools.Topography(path=None, topo_type=None, topo_func=None, unstructured=False)
+class clawpack.geoclaw.topotools.Topography(path=None, topo_func=None, topo_type=None, unstructured=False)

Base topography class.

A class representing a single topography file.

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+127,8 @@

Navigation

-read_output(fgno=None, outdir=None, verbose=True, indexing='ij')
+read_output(fgno=None, outdir=None, verbose=True)

Read the GeoClaw results on the fgmax grid numbered fgno.

-
-
indexing=’ij’ gives backward compatibility.

X[i,j],Y[i,j] corresponds to point x[i],y[j]

-
-
-

Alternatively, can set indexing==’xy’ so that X,Y and other -arrays have same layout as topo arrays:

- -
-

X[j,i],Y[j,i] corresponds to point x[i],y[j]

-
- -

This is useful if you want to save the fgmax results in same format as -topofiles, using topotools.Topography.write().

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25, 28, 30, 31, 32, 34, 35, 39, 48, 52, 56, 60, 67, 68, 69, 72, 73, 75, 78, 88, 91, 95, 101, 103, 104, 106, 107, 108, 112, 120, 121, 135, 137, 138, 143, 144, 145, 146, 147, 148, 149, 156, 157, 159, 161, 162], "plot_var": [3, 27, 45, 52, 79, 80], "fill_var2": 3, "contour": [3, 30, 45, 52, 54, 68, 107, 142, 159], "pcolor": [3, 45, 78, 107, 131, 159], "2d_schlieren": 3, "schlieren": [3, 68], "2d_patch": [3, 22], "cell": [3, 4, 5, 7, 8, 15, 16, 20, 22, 25, 27, 32, 33, 34, 35, 45, 46, 52, 54, 60, 67, 68, 69, 73, 74, 75, 85, 91, 94, 96, 99, 101, 103, 105, 112, 115, 116, 120, 121, 122, 123, 124, 125, 126, 128, 132, 135, 138, 139, 140, 143, 144, 145, 147, 149, 154, 156, 157, 162, 165], "patch": [3, 6, 7, 16, 22, 27, 32, 40, 52, 68, 72, 73, 74, 78, 79, 94, 96, 100, 103, 112, 121, 123, 126, 128, 139, 142, 144, 156, 157, 162], "edg": [3, 6, 15, 16, 27, 30, 32, 33, 34, 35, 39, 60, 72, 91, 99, 135, 137, 140, 144, 145, 147, 162], "come": [3, 28, 79, 81, 90, 96, 101, 119, 157, 162], "parent": [3, 27, 91, 103, 106], "integ": [3, 32, 33, 34, 45, 52, 60, 65, 67, 79, 86, 100, 112, 122, 125, 135, 143, 146, 153, 159], "compon": [3, 16, 20, 22, 25, 37, 45, 58, 59, 68, 74, 78, 98, 100, 102, 103, 112, 119, 128, 136, 143, 144, 145, 157, 162], "correspond": [3, 6, 12, 23, 25, 27, 30, 33, 34, 35, 45, 48, 49, 54, 55, 56, 60, 68, 72, 79, 85, 89, 91, 94, 95, 98, 100, 103, 112, 113, 135, 137, 138, 143, 144, 145, 146, 147, 153, 157, 161, 162], "appli": [3, 4, 5, 6, 13, 16, 25, 30, 49, 52, 54, 65, 67, 72, 79, 81, 89, 91, 94, 101, 112, 134, 143, 146, 162], "comput": [3, 4, 5, 6, 13, 16, 17, 27, 29, 30, 32, 33, 34, 35, 40, 45, 48, 52, 54, 59, 60, 61, 63, 69, 72, 78, 79, 81, 86, 88, 91, 93, 94, 95, 96, 101, 105, 108, 110, 112, 115, 116, 120, 121, 125, 128, 131, 135, 139, 143, 145, 146, 147, 154, 157, 162, 165], "signatur": [3, 86, 89, 91, 92, 94, 99, 153], "hold": [3, 35, 81, 105, 112], "current": [3, 5, 13, 14, 20, 22, 24, 27, 28, 29, 30, 32, 35, 39, 40, 42, 45, 46, 49, 54, 55, 56, 58, 59, 60, 61, 68, 70, 74, 79, 81, 91, 94, 95, 96, 101, 103, 106, 108, 112, 113, 120, 122, 123, 134, 138, 142, 143, 144, 145, 146, 147, 149, 153, 154, 157, 159, 161], "afteritem": [3, 27], "afterpatch": [3, 27], "There": [3, 6, 13, 22, 34, 37, 41, 52, 55, 56, 63, 67, 72, 74, 81, 82, 95, 102, 110, 122, 123, 142, 143, 154, 155, 162, 164], "calcul": [3, 5, 6, 27, 30, 33, 35, 46, 48, 68, 72, 79, 91, 99, 101, 116, 121, 159], "cd": [3, 13, 28, 36, 37, 38, 53, 55, 56, 58, 59, 81, 90, 93, 96, 102, 113, 155], "On": [3, 5, 13, 52, 73, 82, 122, 132, 137, 141, 162], "ylower": [3, 22, 27, 40, 86, 123, 145, 157, 159], "patchno": [3, 27], "out": [3, 16, 24, 26, 29, 30, 32, 34, 35, 36, 37, 40, 45, 46, 51, 53, 54, 55, 56, 59, 60, 61, 62, 63, 68, 72, 79, 82, 83, 85, 86, 88, 94, 95, 96, 97, 100, 105, 107, 108, 110, 113, 121, 123, 125, 126, 135, 137, 144, 145, 147, 153, 159, 160], "lower": [3, 22, 30, 32, 33, 39, 54, 67, 74, 91, 96, 137, 139, 143, 145, 147, 157, 159, 161], "left": [3, 5, 10, 13, 16, 18, 25, 27, 32, 54, 74, 81, 91, 98, 99, 105, 122, 128, 131, 132, 133, 134, 135, 138, 144, 157, 159, 161, 165], "mappedgrid": [3, 68], "map": [3, 16, 29, 30, 40, 60, 67, 68, 79, 83, 86, 91, 93, 98, 112, 119, 123, 128, 136, 159, 165], "mapc2p": [3, 25, 27, 68, 86, 91, 128], "underli": [3, 52, 121], "requir": [3, 4, 16, 20, 22, 25, 27, 30, 32, 34, 35, 36, 37, 41, 46, 48, 49, 56, 59, 67, 68, 72, 75, 78, 81, 82, 85, 86, 91, 94, 97, 98, 101, 102, 103, 105, 106, 107, 112, 113, 115, 116, 119, 121, 124, 126, 128, 131, 135, 136, 137, 142, 143, 144, 145, 146, 147, 153, 154, 157, 160, 163, 165], "depend": [3, 13, 16, 28, 29, 30, 32, 35, 36, 37, 41, 42, 47, 49, 52, 63, 65, 68, 72, 79, 84, 94, 99, 100, 101, 106, 108, 112, 123, 139, 144, 146, 159, 160, 162, 165], "summar": [3, 28, 31, 112, 114, 162], "plotstyl": [3, 45, 79, 142], "anyth": [3, 6, 28, 29, 59, 64, 113, 123], "valid": [3, 49, 72, 88, 95, 100, 103, 121, 146, 153, 154, 159], "fmt": 3, "group": [3, 13, 24, 28, 30, 49, 90, 94, 96, 104, 120, 135], "solid": [3, 16, 52, 72, 98, 142, 143, 145, 147], "dash": [3, 96], "o": [3, 5, 17, 39, 40, 41, 67, 69, 79, 82, 83, 86, 94, 95, 104, 123, 145, 159, 162], "circl": [3, 48, 79], "bo": 3, "blue": [3, 11, 40, 45, 60, 67, 79, 137, 159], "though": [3, 40, 75, 153, 157], "also": [3, 4, 5, 6, 7, 8, 9, 11, 12, 16, 17, 18, 20, 22, 23, 24, 25, 28, 29, 30, 32, 33, 34, 35, 36, 37, 38, 39, 40, 42, 43, 44, 45, 48, 49, 52, 53, 54, 55, 56, 57, 58, 59, 60, 61, 63, 64, 67, 68, 72, 73, 74, 75, 78, 79, 81, 85, 87, 88, 91, 93, 94, 95, 96, 98, 99, 100, 101, 102, 103, 104, 105, 106, 107, 108, 109, 110, 111, 112, 113, 115, 120, 121, 122, 123, 124, 125, 126, 127, 128, 129, 130, 131, 132, 133, 134, 135, 136, 137, 138, 139, 141, 143, 144, 145, 146, 147, 148, 151, 152, 153, 154, 155, 156, 157, 159, 160, 161, 162, 164, 165], "overrul": 3, "r": [3, 4, 6, 17, 45, 48, 53, 55, 67, 68, 71, 79, 85, 89, 96, 98, 135, 137, 142, 159, 165], "ff0000": [3, 60], "No": [3, 41, 52, 56, 68, 91, 101, 129, 135, 143, 146, 160], "extra": [3, 52, 136], "give": [3, 6, 9, 10, 13, 16, 24, 28, 30, 32, 33, 34, 36, 37, 45, 53, 60, 61, 67, 69, 72, 73, 74, 79, 81, 96, 97, 101, 113, 116, 120, 121, 125, 128, 137, 143, 146, 157, 159, 161], "polygon": [3, 7, 39, 52, 60, 126, 159], "curv": [3, 45, 78, 137], "fill_between": 3, "plot_var2": 3, "zero": [3, 16, 30, 32, 40, 42, 45, 60, 68, 69, 85, 98, 99, 103, 105, 128, 137, 138], "fill_wher": 3, "plotitem": [3, 27, 45, 79, 142], "mean": [3, 13, 22, 28, 32, 40, 45, 49, 53, 59, 68, 69, 95, 96, 112, 135, 138, 143, 145, 147, 161], "map_2d_to_1d": 3, "In": [3, 5, 6, 8, 11, 12, 15, 16, 19, 20, 22, 27, 30, 32, 34, 39, 42, 45, 46, 49, 52, 53, 54, 55, 56, 59, 60, 61, 63, 64, 67, 68, 69, 71, 72, 74, 75, 79, 80, 81, 85, 86, 91, 93, 94, 95, 96, 97, 98, 99, 101, 103, 106, 108, 109, 110, 112, 115, 116, 119, 120, 121, 123, 124, 128, 132, 134, 135, 137, 139, 140, 141, 143, 144, 146, 149, 151, 152, 157, 159, 160, 162, 165], "about": [3, 5, 7, 13, 14, 16, 22, 25, 33, 34, 35, 36, 37, 41, 48, 49, 54, 56, 60, 63, 65, 68, 74, 80, 82, 85, 93, 94, 96, 101, 108, 113, 120, 124, 126, 131, 132, 135, 142, 144, 145, 146, 157, 160, 162, 165], "j": [3, 4, 5, 15, 17, 20, 22, 27, 33, 40, 53, 60, 67, 68, 74, 81, 93, 94, 112, 115, 116, 139, 140], "v": [3, 16, 25, 29, 30, 32, 34, 35, 48, 61, 64, 113, 120, 144, 157], "radiu": [3, 146, 153, 154, 159], "q0_vs_radiu": 3, "convert": [3, 22, 25, 30, 33, 35, 43, 48, 52, 59, 60, 63, 72, 75, 86, 93, 98, 106, 107, 123, 126, 132, 143, 144, 153, 157, 161], "numpi": [3, 13, 30, 32, 34, 35, 40, 48, 67, 82, 84, 85, 86, 88, 91, 98, 103, 104, 105, 107, 113, 136, 137, 145, 159, 160], "sqrt": [3, 32, 35, 65, 85, 98, 99, 105, 145], "q0": [3, 98], "work": [3, 5, 8, 13, 16, 19, 20, 22, 24, 25, 26, 28, 29, 32, 34, 36, 37, 41, 46, 49, 52, 53, 54, 55, 56, 57, 58, 59, 60, 67, 68, 71, 72, 73, 79, 82, 83, 84, 85, 87, 88, 89, 93, 94, 95, 96, 99, 101, 102, 107, 108, 110, 111, 112, 113, 117, 118, 119, 120, 121, 122, 123, 126, 128, 129, 133, 135, 141, 142, 143, 144, 148, 154, 157, 160, 164], "symbol": [3, 68, 108], "best": [3, 4, 16, 22, 26, 28, 34, 42, 52, 54, 56, 57, 63, 69, 71, 73, 78, 79, 94, 98, 110, 111, 112, 113, 123, 133, 135, 146, 150, 153, 157, 162], "descript": [3, 4, 6, 9, 22, 23, 25, 30, 35, 60, 68, 72, 75, 78, 93, 94, 106, 110, 112, 135, 136, 146, 153, 157, 165], "celledges_show": [3, 22], "draw": 3, "amr_celledges_show": 3, "level": [3, 6, 7, 16, 23, 27, 29, 32, 34, 39, 40, 45, 46, 47, 48, 49, 52, 55, 56, 58, 59, 68, 69, 73, 74, 86, 88, 91, 93, 94, 95, 101, 108, 109, 112, 113, 115, 116, 120, 121, 123, 126, 134, 137, 138, 141, 143, 144, 145, 147, 156, 157, 159, 161, 162], "patchedges_show": [3, 22], "mostli": [3, 78, 93, 126], "contour_level": [3, 159], "three": [3, 13, 17, 22, 30, 32, 35, 49, 52, 64, 68, 72, 96, 100, 106, 113, 137, 143, 146, 157, 159, 162], "contour_nlevel": 3, "contour_min": 3, "minimum": [3, 32, 45, 52, 72, 105, 121, 146, 159], "contour_max": 3, "maximum": [3, 22, 30, 32, 33, 34, 46, 68, 69, 101, 105, 112, 115, 116, 123, 126, 143, 144, 145, 147, 153, 154], "contour_color": 3, "specif": [3, 5, 12, 22, 28, 30, 45, 46, 48, 52, 53, 59, 62, 64, 65, 74, 83, 84, 86, 88, 93, 94, 95, 99, 100, 106, 110, 121, 122, 123, 126, 142, 143, 144, 145, 147, 154, 157], "b": [3, 5, 17, 28, 30, 32, 33, 34, 35, 40, 45, 53, 55, 56, 65, 69, 79, 101, 112, 119, 126, 137, 138, 139, 146, 159, 161], "0000ff": [3, 60], "colormap": [3, 30, 40, 47, 52, 67, 68, 78, 80, 120, 126, 159], "amr_contour_color": 3, "As": [3, 37, 40, 46, 49, 55, 56, 60, 61, 85, 105, 107, 111, 115, 126, 135, 136, 139, 146, 149, 155, 162], "black": [3, 45], "subsequ": [3, 10, 68], "both": [3, 16, 28, 30, 33, 34, 35, 36, 37, 39, 40, 45, 49, 54, 57, 59, 64, 67, 68, 72, 74, 86, 94, 95, 96, 101, 102, 112, 113, 119, 120, 123, 126, 131, 135, 136, 137, 139, 143, 144, 145, 147, 151, 157, 162], "fine": [3, 32, 33, 34, 40, 55, 71, 75, 93, 98, 112, 121, 128, 137, 139, 143, 144, 146, 157, 162], "coars": [3, 32, 34, 52, 112, 121, 128, 143, 157, 162], "anoth": [3, 22, 34, 40, 45, 52, 59, 60, 74, 78, 82, 90, 101, 104, 113, 123, 153, 162], "refin": [3, 4, 5, 7, 8, 17, 22, 34, 46, 49, 52, 53, 54, 67, 68, 74, 75, 85, 121, 123, 124, 126, 128, 137, 139, 142, 143, 144, 145, 156, 157, 162], "region": [3, 6, 7, 13, 16, 22, 32, 34, 39, 40, 46, 49, 50, 52, 60, 65, 69, 72, 75, 110, 123, 126, 128, 138, 139, 144, 145, 149, 157, 159], "lack": 3, "hidden": [3, 63, 79], "blank": [3, 33, 60, 153], "coarser": [3, 16, 54, 121, 139, 143, 144, 162], "easili": [3, 13, 28, 32, 52, 55, 68, 79, 86, 91, 102, 106, 113, 126, 148], "contour_show": 3, "commonli": [3, 68, 79, 81], "amr_contour_show": 3, "determin": [3, 5, 6, 30, 32, 35, 40, 45, 46, 49, 51, 52, 55, 60, 69, 72, 79, 89, 91, 94, 99, 103, 108, 112, 116, 120, 121, 134, 137, 138, 142, 143, 144, 146, 159, 162], "whether": [3, 6, 13, 16, 22, 48, 54, 57, 59, 61, 62, 63, 68, 83, 91, 94, 95, 99, 100, 101, 112, 113, 121, 135, 137, 143, 144, 146, 159], "view": [3, 4, 22, 34, 36, 37, 45, 46, 52, 54, 55, 60, 74, 78, 80, 81, 85, 96, 102, 107, 119, 123, 148, 150], "finest": [3, 32, 34, 40, 45, 69, 123, 156, 159], "contour_kwarg": [3, 159], "pcolor_cmap": [3, 52], "pcolor_cmin": 3, "pcolor_cmax": 3, "thei": [3, 5, 6, 13, 16, 24, 27, 28, 30, 32, 34, 39, 40, 45, 49, 52, 55, 56, 59, 60, 61, 64, 67, 68, 74, 78, 91, 93, 98, 101, 106, 112, 113, 121, 128, 139, 142, 146, 149, 153, 157, 159, 162], "chosen": [3, 29, 32, 39, 40, 52, 54, 67, 105, 112, 128, 138, 144], "vari": [3, 15, 17, 25, 30, 40, 46, 54, 65, 69, 98, 100, 119, 126, 135, 136, 138, 140, 144, 146, 165], "yield": 3, "veri": [3, 5, 16, 22, 49, 52, 56, 57, 60, 72, 79, 83, 86, 94, 95, 96, 97, 98, 101, 113, 116, 120, 131, 137, 139, 143, 154, 157], "confus": [3, 54, 59, 108, 128, 135], "add_colorbar": [3, 30, 159], "ad": [3, 12, 16, 20, 22, 24, 25, 27, 29, 32, 34, 35, 42, 45, 48, 54, 55, 56, 59, 60, 61, 65, 68, 69, 72, 79, 84, 86, 89, 91, 92, 95, 96, 108, 109, 110, 112, 115, 116, 117, 118, 119, 120, 121, 122, 123, 124, 125, 126, 127, 129, 131, 132, 134, 139, 143, 144, 146, 149, 153, 156, 159, 163], "imshow_cmap": 3, "imshow_cmin": 3, "imshow_cmax": 3, "relat": [3, 7, 22, 24, 55, 75, 99, 110, 122, 126, 128, 138], "pre": [3, 13, 33, 56, 87, 94], "pend": 3, "amr_": [3, 7], "whose": [3, 79, 86, 98, 99, 139, 143, 144, 159], "origin": [3, 6, 13, 16, 20, 28, 30, 34, 35, 45, 53, 55, 67, 73, 74, 86, 101, 106, 115, 121, 128, 134, 144, 145, 146, 147, 159], "hand": [3, 5, 18, 19, 20, 65, 85, 113, 131, 132, 137], "higher": [3, 6, 52, 91, 101, 102, 112, 126, 135, 137, 138, 139], "shorter": [3, 112, 159], "last": [3, 18, 27, 32, 34, 56, 58, 79, 85, 86, 98, 105, 120, 131, 132, 143, 153], "repeatedli": [3, 96, 102, 144], "finer": [3, 7, 32, 52, 112, 115, 116, 137, 143, 144], "celledg": 3, "colorbar_shrink": [3, 30], "colorbar_label": 3, "colorbar_tick": 3, "colorbar_tick_label": 3, "colorbar_extend": [3, 132], "colorbar_kwarg": [3, 123], "stand": [4, 128], "conserv": [4, 5, 6, 17, 95, 101, 103, 124, 136, 162, 165], "law": [4, 17, 60, 146, 165], "packag": [4, 25, 28, 29, 36, 37, 52, 56, 57, 64, 74, 75, 78, 82, 83, 85, 91, 93, 95, 97, 98, 100, 102, 105, 107, 108, 125, 126, 160, 163], "wa": [4, 5, 6, 14, 19, 20, 25, 29, 30, 32, 33, 34, 35, 40, 49, 51, 55, 56, 63, 65, 67, 68, 72, 79, 96, 100, 101, 103, 112, 113, 114, 115, 116, 117, 118, 119, 120, 121, 122, 123, 124, 125, 126, 127, 128, 129, 130, 131, 132, 134, 137, 139, 156, 157, 159], "initi": [4, 5, 7, 12, 13, 22, 25, 30, 34, 35, 45, 46, 48, 49, 52, 56, 61, 64, 68, 69, 72, 74, 75, 81, 83, 84, 85, 86, 88, 89, 91, 92, 94, 95, 99, 100, 101, 103, 104, 106, 109, 112, 120, 123, 126, 128, 135, 138, 143, 144, 145, 147, 149, 153, 157, 159], "develop": [4, 6, 7, 12, 13, 18, 22, 23, 49, 53, 55, 58, 59, 62, 67, 68, 78, 82, 83, 86, 93, 98, 101, 102, 108, 110, 113, 123, 124, 126, 128, 131, 132, 135, 138, 139, 145], "linear": [4, 5, 17, 30, 34, 35, 45, 52, 69, 72, 79, 85, 89, 101, 124, 135, 136, 137], "nonlinear": [4, 5, 17, 49, 89, 135, 143, 165], "hyperbol": [4, 5, 6, 17, 43, 75, 86, 93, 98, 99, 105, 135, 143, 146, 162, 165], "system": [4, 16, 17, 23, 37, 38, 52, 53, 59, 60, 64, 73, 74, 83, 93, 95, 96, 98, 99, 102, 105, 108, 113, 135, 143, 145, 147, 155, 162, 165], "focu": [4, 46], "high": [4, 17, 32, 49, 52, 67, 69, 72, 75, 86, 93, 101, 135, 138, 139, 161, 162], "resolut": [4, 6, 17, 30, 32, 34, 40, 45, 61, 69, 72, 91, 101, 105, 106, 115, 119, 123, 124, 131, 135, 138, 157, 159, 161, 162], "godunov": [4, 91, 101, 143, 145, 147, 162], "method": [4, 5, 7, 17, 32, 34, 35, 39, 43, 45, 54, 67, 69, 79, 81, 85, 88, 89, 91, 96, 100, 101, 106, 112, 113, 119, 135, 142, 143, 144, 145, 147, 153, 156, 157, 159, 162], "framework": [4, 83, 86, 120, 121], "applic": [4, 6, 15, 16, 19, 20, 22, 23, 24, 28, 29, 32, 34, 35, 36, 37, 38, 42, 43, 44, 45, 46, 47, 56, 58, 59, 64, 67, 73, 74, 81, 90, 91, 92, 93, 95, 101, 106, 109, 111, 112, 113, 115, 118, 119, 121, 122, 123, 125, 126, 135, 137, 139, 140, 143, 146, 151, 152, 157, 159, 160, 162, 163], "finit": [4, 17, 32, 34, 43, 54, 60, 67, 68, 69, 72, 101, 126, 137, 146, 156, 157, 162], "volum": [4, 17, 29, 32, 34, 43, 54, 60, 67, 68, 69, 93, 126, 137, 144, 146, 156, 157, 162], "riemann": [4, 5, 8, 20, 22, 23, 28, 29, 46, 56, 59, 64, 75, 83, 85, 91, 92, 101, 102, 103, 105, 108, 141, 143, 145, 147, 151, 152, 165], "solver": [4, 5, 6, 20, 22, 23, 25, 28, 46, 57, 58, 59, 64, 82, 83, 84, 88, 91, 92, 95, 103, 117, 119, 121, 122, 123, 124, 125, 126, 128, 143, 145, 147, 151, 152, 165], "resolv": [4, 32, 34, 52, 55, 59, 110, 123, 139], "jump": [4, 5, 68, 81, 91, 101, 121, 143, 165], "discontinu": [4, 101, 165], "interfac": [4, 19, 22, 68, 83, 86, 89, 93, 94, 99, 101, 106, 135, 162, 163, 165], "wave": [4, 5, 6, 16, 17, 25, 32, 40, 49, 52, 53, 72, 89, 91, 93, 98, 99, 101, 112, 119, 121, 122, 128, 136, 137, 138, 143, 144, 145, 146, 147, 149, 162], "propag": [4, 5, 6, 17, 25, 30, 49, 52, 53, 72, 91, 93, 101, 112, 121, 135], "neighbor": [4, 34, 40, 67, 69, 112, 121, 139, 144, 145, 159], "formul": [4, 5, 49, 65, 135, 143], "allow": [4, 6, 13, 22, 27, 28, 29, 32, 34, 35, 39, 40, 45, 46, 48, 51, 52, 54, 55, 59, 65, 67, 68, 72, 73, 75, 78, 79, 88, 93, 94, 95, 101, 103, 106, 107, 108, 112, 113, 115, 116, 119, 120, 121, 122, 123, 125, 126, 128, 131, 132, 135, 137, 143, 145, 146, 147, 148, 149, 153, 157, 159, 161], "easi": [4, 6, 11, 29, 39, 59, 68, 86, 95, 96, 97, 137, 148, 162], "extens": [4, 17, 22, 24, 28, 30, 49, 52, 55, 59, 64, 68, 86, 93, 94, 106, 121, 122, 128, 143, 155, 159, 165], "problem": [4, 5, 7, 16, 17, 20, 24, 25, 27, 28, 29, 36, 37, 40, 43, 46, 59, 63, 67, 68, 69, 72, 75, 79, 82, 84, 85, 90, 92, 93, 96, 99, 101, 104, 108, 113, 115, 116, 118, 119, 122, 126, 128, 132, 135, 137, 139, 143, 144, 145, 146, 147, 148, 156, 160], "algorithm": [4, 7, 25, 32, 39, 40, 46, 53, 85, 91, 93, 94, 101, 105, 112, 123, 135, 137, 143, 145, 147, 159], "brief": [4, 56, 136, 146], "subroutin": [4, 6, 9, 16, 22, 32, 34, 64, 112, 119, 135, 143, 144, 156, 162, 165], "equat": [4, 5, 16, 17, 25, 36, 37, 46, 49, 61, 65, 79, 84, 85, 86, 88, 93, 94, 95, 98, 101, 102, 103, 116, 119, 121, 123, 124, 135, 143, 145, 146, 147, 149, 157, 162, 165], "solv": [4, 5, 8, 16, 17, 20, 26, 36, 37, 49, 57, 59, 61, 84, 86, 88, 91, 93, 98, 99, 102, 124, 135, 136, 143, 157, 162, 165], "adapt": [4, 7, 17, 30, 40, 53, 54, 67, 68, 75, 85, 112, 123, 126, 128, 135, 137, 142, 143, 144, 146, 162], "mesh": [4, 7, 17, 33, 53, 67, 68, 75, 78, 85, 112, 126, 142, 143, 162], "amrclaw": [4, 5, 6, 12, 15, 16, 19, 20, 22, 23, 24, 28, 37, 39, 40, 42, 44, 45, 46, 47, 53, 56, 57, 58, 59, 61, 67, 68, 73, 74, 75, 82, 93, 94, 102, 108, 109, 112, 113, 134, 135, 137, 140, 141, 143, 146, 151, 152, 155, 156, 160], "detail": [4, 5, 10, 16, 22, 23, 25, 26, 28, 29, 30, 32, 34, 36, 37, 39, 42, 45, 47, 49, 52, 55, 58, 59, 61, 62, 63, 67, 68, 72, 75, 79, 83, 88, 89, 90, 91, 93, 94, 95, 96, 97, 98, 99, 101, 111, 112, 113, 116, 121, 123, 128, 131, 135, 137, 142, 143, 146, 148, 153, 157, 160, 161, 162, 165], "content": [4, 6, 23, 35, 52, 56, 74, 75, 86, 93, 146, 157, 162, 163], "routin": [4, 5, 6, 16, 20, 25, 27, 30, 32, 36, 37, 45, 46, 47, 52, 53, 63, 68, 69, 73, 74, 75, 78, 81, 83, 86, 88, 91, 94, 97, 98, 101, 103, 104, 112, 115, 116, 119, 121, 123, 124, 126, 135, 139, 143, 145, 147, 153, 159, 160, 162, 163, 165], "special": [4, 7, 16, 46, 47, 52, 62, 75, 83, 112, 131, 137, 159], "depth": [4, 5, 16, 17, 22, 30, 32, 33, 35, 40, 45, 46, 49, 65, 69, 72, 78, 80, 136, 138, 139, 146, 157], "averag": [4, 6, 15, 17, 32, 40, 46, 49, 50, 54, 68, 69, 99, 103, 116, 128, 135, 139, 140, 157, 159, 162], "geophys": [4, 16, 17, 23, 46, 49, 75, 143], "flow": [4, 16, 17, 23, 32, 33, 46, 47, 49, 75, 93, 110, 126, 131, 135, 143, 146, 157, 162], "geoclaw": [4, 7, 12, 17, 23, 24, 28, 29, 30, 32, 33, 34, 35, 37, 39, 42, 44, 45, 53, 54, 56, 57, 58, 59, 60, 61, 65, 67, 69, 72, 74, 75, 78, 82, 93, 102, 108, 110, 111, 113, 134, 135, 136, 138, 139, 141, 143, 144, 149, 153, 154, 155, 156, 157, 158, 159, 160, 161, 162], "parallel": [4, 22, 23, 45, 73, 84, 90, 92, 93, 95, 98, 100, 102, 106, 112, 113, 121, 144], "ten": [4, 75], "thousand": [4, 75], "core": [4, 12, 75, 113, 123], "wish": [4, 13, 14, 15, 22, 29, 36, 37, 49, 52, 59, 68, 77, 78, 93, 98, 101, 102, 104, 108, 110, 112, 121, 140, 148, 151, 152, 160], "discrib": 4, "book": [4, 12, 17, 25, 29, 82, 100, 135], "levequ": [4, 16, 17, 24, 30, 53, 75, 89, 91, 93, 101, 107, 135, 143, 162, 165], "fvmhp": [4, 12, 16, 17, 25, 75, 135, 143, 162, 165], "virtual": [4, 13, 25, 27, 103], "were": [4, 6, 14, 20, 32, 45, 55, 61, 64, 68, 69, 86, 112, 115, 121, 124, 128, 131, 132, 137, 139, 149, 157], "4": [4, 7, 8, 9, 13, 16, 17, 23, 25, 28, 30, 32, 33, 34, 37, 39, 40, 42, 43, 45, 46, 49, 52, 54, 55, 56, 63, 64, 65, 67, 68, 69, 73, 74, 78, 79, 81, 92, 93, 94, 95, 96, 98, 99, 101, 102, 106, 108, 112, 113, 115, 120, 123, 128, 129, 131, 134, 137, 143, 144, 145, 146, 147, 155, 156, 157, 159, 164], "3": [4, 6, 7, 15, 16, 20, 22, 24, 25, 30, 32, 33, 34, 37, 39, 43, 45, 46, 52, 54, 56, 59, 60, 65, 68, 69, 72, 74, 79, 81, 82, 85, 88, 89, 91, 94, 95, 96, 99, 100, 101, 103, 107, 108, 112, 121, 123, 126, 132, 133, 135, 137, 140, 143, 144, 145, 146, 147, 155, 156, 157, 159, 162, 165], "pointer": [4, 16, 55, 72, 78, 81, 101, 106, 119], "code": [4, 5, 6, 7, 8, 12, 14, 16, 19, 20, 21, 22, 23, 24, 27, 29, 32, 33, 34, 35, 36, 37, 39, 41, 42, 43, 45, 46, 49, 51, 53, 54, 55, 57, 62, 63, 64, 65, 71, 72, 73, 74, 75, 77, 79, 81, 82, 83, 85, 86, 91, 93, 94, 95, 96, 98, 101, 102, 105, 107, 108, 111, 114, 115, 116, 119, 120, 121, 122, 123, 124, 125, 126, 128, 134, 135, 136, 137, 141, 143, 144, 145, 146, 147, 148, 153, 155, 156, 157], "bibliographi": [4, 25], "paper": [4, 5, 6, 16, 30, 46, 55, 89, 93], "distribut": [4, 12, 13, 29, 30, 55, 62, 72, 75, 83, 101, 107, 126], "under": [4, 7, 22, 32, 34, 38, 52, 53, 55, 58, 62, 64, 78, 83, 91, 93, 113, 121, 123, 133], "term": [4, 25, 46, 49, 62, 72, 86, 91, 92, 101, 112, 122, 123, 132, 136, 143, 145, 146, 147, 151, 152], "berkelei": [4, 62, 83], "bsd": [4, 62, 83, 123], "peopl": [4, 12, 13, 83], "contribut": [4, 24, 25, 58, 83, 86, 93, 98, 101, 110, 113], "its": [4, 6, 13, 22, 29, 40, 49, 52, 62, 64, 67, 72, 74, 83, 88, 89, 90, 91, 93, 98, 100, 101, 103, 106, 112, 145, 159, 165], "incept": 4, "1994": [4, 62], "major": [4, 22, 56, 83, 86, 114, 115, 116, 117, 122, 124, 129, 132], "design": [4, 27, 28, 52, 83, 85, 105, 137, 161], "made": [4, 18, 22, 28, 30, 35, 59, 100, 103, 115, 116, 121, 123, 126, 128, 131, 132, 137, 139, 146, 154, 157, 159, 162], "individu": [4, 22, 23, 52, 60, 63, 64, 68, 91, 112, 113, 153], "randal": [4, 17, 93], "univers": [4, 17, 24, 55, 62, 83, 100], "washington": [4, 17, 24, 55, 62, 125, 137, 159], "rjlevequ": [4, 28, 29], "marsha": [4, 6, 17], "berger": [4, 6, 17], "courant": [4, 6, 112, 122, 143, 144, 145, 147], "institut": 4, "nyu": 4, "mjberger": 4, "jan": [4, 56], "olav": 4, "langseth": [4, 17], "norwegian": 4, "defenc": 4, "research": [4, 17, 46, 49, 83, 101, 111], "establish": 4, "david": [4, 17, 83, 93, 101], "georg": [4, 17, 30], "usg": [4, 30, 161], "cascad": 4, "volcano": 4, "observatori": 4, "dlgeorg": 4, "ketcheson": [4, 17, 76, 83, 93, 101], "kaust": [4, 24], "ketch": 4, "kyle": [4, 17, 83, 89, 93, 94, 99], "mandli": [4, 17, 83, 89, 93, 94, 99], "ut": 4, "austin": 4, "contributor": [4, 24, 62, 93], "aron": [4, 17, 83, 93], "ahmadia": [4, 17, 83, 93], "amal": [4, 17, 83, 93], "alghamdi": [4, 17, 83, 93], "ghamdi": 4, "ian": 4, "bollig": 4, "bolliger32": 4, "peter": 4, "blossei": 4, "donna": [4, 17], "calhoun": [4, 17, 52], "donnabois": 4, "ond\u0159ej": 4, "\u010dert\u00edk": 4, "certik": [4, 83], "brisa": 4, "davi": [4, 17], "brisadavi": [4, 124], "gradi": [4, 17, 83], "lemoin": [4, 17, 83], "gradylemoin": 4, "sorin": 4, "mitran": [4, 17], "matteo": [4, 17, 83, 93], "parsani": [4, 17, 83, 93], "mparsani": 4, "xinsheng": [4, 53], "qin": [4, 53], "xinshengqin": [4, 53], "avi": 4, "schwarzschild": 4, "aks2203": 4, "andi": 4, "terrel": 4, "aterrel": 4, "chri": 4, "vogl": 4, "cjvogl": 4, "numer": [4, 17, 52, 107, 124], "student": 4, "toward": [4, 30], "bug": [4, 8, 12, 22, 24, 42, 52, 65, 73, 79, 83, 118, 119, 120, 121, 123, 128, 129, 130], "suggest": [4, 24, 29, 48, 54, 55, 57, 59, 81, 82, 107, 133, 135, 146, 164], "improv": [4, 13, 22, 24, 32, 34, 52, 55, 94, 107, 115, 116, 118, 119, 120, 121, 122, 124, 125, 126, 127, 128, 129, 143], "explor": [4, 34, 60, 79, 81], "thank": [4, 93], "pleas": [4, 24, 28, 55, 57, 58, 59, 83, 85, 88, 90, 93, 94, 96, 98, 100, 101, 102, 104, 110, 123, 128, 133, 135, 153], "itself": [4, 72, 78, 107, 126, 135, 146, 159], "well": [4, 6, 28, 33, 46, 52, 53, 55, 59, 60, 67, 72, 73, 74, 75, 78, 81, 82, 100, 101, 110, 122, 123, 126, 131, 136, 139, 143, 144, 151, 152, 153, 162, 165], "citat": [4, 56], "similar": [4, 13, 16, 28, 32, 34, 37, 45, 52, 61, 85, 86, 94, 98, 101, 105, 123, 128, 146, 153, 154, 155, 157], "team": [4, 24, 62], "2020": [4, 24, 25, 55, 62, 107, 110, 126, 127, 128, 133, 135], "7": [4, 6, 14, 29, 32, 34, 39, 40, 45, 48, 55, 61, 65, 67, 74, 79, 82, 91, 102, 108, 112, 128, 133, 137, 138, 139, 144, 145], "http": [4, 12, 13, 17, 24, 26, 28, 29, 30, 40, 48, 52, 53, 55, 56, 58, 59, 62, 67, 72, 82, 83, 86, 87, 94, 96, 98, 107, 108, 118, 120, 121, 122, 124, 125, 128, 129, 130, 131, 132, 133, 136, 153, 159], "www": [4, 13, 17, 30, 40, 46, 55, 62, 67, 83, 86, 91, 94, 96, 122, 124, 131, 132, 153, 159], "org": [4, 17, 46, 53, 55, 56, 62, 83, 86, 87, 91, 94, 96, 107, 108, 120, 122, 124, 128, 129, 130, 131, 132, 159], "doi": [4, 17, 53, 56, 58, 126, 127, 128, 129, 130, 131, 132, 133], "10": [4, 17, 30, 32, 34, 40, 52, 53, 54, 56, 79, 85, 88, 91, 112, 120, 121, 123, 126, 127, 128, 129, 130, 131, 132, 133, 137, 143, 144, 145, 147, 157], "5281": [4, 56, 126, 127, 128, 129, 130, 131, 132, 133], "zenodo": [4, 58, 126, 127, 128, 129, 130, 131, 132, 133], "4025432": [4, 127, 133], "here": [4, 13, 16, 29, 34, 39, 40, 49, 56, 59, 60, 67, 75, 79, 81, 85, 88, 93, 94, 96, 98, 99, 104, 105, 108, 110, 112, 119, 135, 136, 137, 149, 154, 159, 165], "bibtex": [4, 56], "misc": [4, 125, 127], "url": [4, 12, 17, 52, 56, 123, 124, 157, 159], "year": [4, 17, 22, 52, 60, 93, 114, 124, 153], "releas": [4, 18, 22, 25, 28, 29, 44, 52, 57, 58, 59, 87, 93, 101, 102, 107], "refer": [4, 5, 20, 30, 32, 33, 34, 36, 37, 39, 46, 47, 52, 56, 63, 64, 68, 72, 85, 89, 91, 94, 95, 99, 101, 103, 108, 110, 123, 125, 134, 135, 137, 146, 153, 157, 159, 161, 162], "particular": [4, 6, 12, 20, 22, 28, 30, 32, 42, 45, 46, 47, 49, 52, 53, 56, 62, 63, 64, 68, 75, 79, 80, 82, 83, 85, 99, 100, 101, 103, 105, 110, 111, 112, 113, 116, 119, 120, 121, 122, 123, 125, 126, 128, 142, 153, 154, 165], "obtain": [4, 6, 12, 32, 44, 45, 47, 49, 59, 60, 69, 94, 95, 96, 112, 128, 135, 139, 148, 157, 165], "your": [4, 6, 15, 16, 19, 20, 24, 25, 26, 34, 36, 38, 42, 45, 54, 55, 56, 57, 58, 59, 73, 78, 79, 81, 83, 84, 85, 86, 87, 90, 92, 93, 94, 95, 104, 105, 107, 108, 109, 110, 112, 113, 115, 123, 135, 140, 141, 151, 152, 157, 160, 162], "multipl": [4, 5, 6, 13, 23, 28, 32, 33, 40, 45, 78, 85, 91, 94, 95, 106, 108, 113, 115, 121, 125, 134, 135, 144, 153, 154], "past": [4, 21, 25, 55, 61, 67, 100, 121, 124, 128, 133, 137, 138, 146], "17605": [4, 56, 133], "osf": [4, 133], "io": [4, 55, 56, 82, 95, 100, 133], "kmw6h": [4, 56, 133], "recent": [4, 13, 22, 27, 30, 51, 55, 58, 63, 65, 73, 79, 81, 82, 120, 124, 125, 126, 127, 128, 129, 130, 131, 132, 133, 135, 149, 161], "articl": [4, 17, 93, 148], "l": [4, 7, 17, 32, 41, 58, 112, 135, 141, 145], "hadjimichael": [4, 17, 83], "2016": [4, 17, 24, 55], "build": [4, 17, 28, 29, 55, 56, 68, 86, 96, 106, 122, 137], "open": [4, 13, 17, 25, 28, 29, 30, 52, 60, 78, 83, 87, 91, 94, 106, 137, 141, 161, 163], "sourc": [4, 17, 23, 25, 28, 30, 42, 46, 52, 53, 55, 56, 58, 59, 60, 62, 64, 65, 78, 83, 86, 90, 91, 92, 101, 102, 104, 105, 106, 110, 111, 113, 121, 122, 123, 132, 136, 138, 143, 145, 146, 147, 150, 151, 152, 153, 157], "ecosystem": [4, 17], "pde": [4, 5, 17, 57, 58, 59, 75, 82, 93, 105, 143, 162], "peerj": [4, 17], "scienc": [4, 17, 83], "7717": [4, 17], "c": [4, 16, 17, 28, 29, 30, 42, 52, 60, 62, 79, 83, 85, 86, 91, 99, 104, 105, 135], "68": [4, 17], "mandli2016clawpack": [4, 17], "yianni": [4, 17, 83], "journal": [4, 17, 53, 93, 148], "e68": [4, 17], "publish": [4, 17, 55, 93], "inc": [4, 17, 68], "least": [4, 5, 6, 13, 35, 45, 52, 60, 61, 67, 68, 104, 112, 113, 120, 121, 128, 143, 145, 149, 157, 159], "regard": [4, 39, 120, 153], "click": [4, 12, 13, 18, 28, 52, 55, 56, 113, 122, 131, 132, 133], "link": [4, 11, 13, 15, 17, 18, 19, 20, 24, 25, 28, 42, 43, 46, 52, 53, 54, 55, 56, 58, 60, 107, 108, 109, 122, 131, 132, 133, 135, 136, 138, 140, 147, 149, 151, 152, 157, 161], "classic": [4, 6, 12, 15, 16, 19, 20, 22, 23, 24, 28, 42, 43, 44, 47, 56, 57, 58, 59, 64, 71, 73, 74, 75, 82, 83, 85, 88, 90, 91, 92, 93, 94, 98, 108, 109, 113, 134, 135, 140, 141, 144, 146, 152, 160, 162], "2d": [4, 7, 8, 15, 16, 19, 22, 25, 27, 32, 34, 35, 39, 40, 46, 48, 53, 60, 68, 73, 78, 83, 85, 91, 93, 97, 101, 107, 109, 112, 119, 121, 122, 123, 124, 125, 128, 132, 136, 137, 139, 140, 143, 144, 147, 149, 151, 152, 159, 163, 165], "leveque97": [4, 17], "3d": [4, 7, 15, 22, 30, 68, 73, 78, 83, 93, 97, 101, 109, 112, 115, 117, 119, 120, 121, 124, 132, 135, 137, 140, 143, 144, 151, 152, 163, 165], "langsethleveque00": [4, 17], "amr": [4, 7, 8, 16, 20, 23, 25, 27, 28, 32, 34, 35, 39, 45, 46, 53, 60, 68, 69, 70, 74, 75, 78, 83, 91, 120, 122, 123, 124, 126, 128, 131, 139, 142, 143, 145, 147, 156, 162], "bergerleveque98": [4, 6, 7, 17], "f": [4, 5, 6, 16, 20, 22, 25, 27, 28, 31, 63, 64, 86, 88, 94, 95, 98, 99, 101, 103, 104, 106, 115, 119, 122, 123, 124, 128, 136, 143, 144, 145, 147, 159, 160, 162], "balelevmitross02": [4, 17, 143, 165], "bergergeorgelevequemandli11": [4, 17], "levequegeorgeberg": [4, 17], "order": [4, 5, 6, 13, 16, 17, 29, 30, 32, 34, 45, 49, 54, 59, 61, 64, 67, 68, 69, 72, 74, 75, 79, 81, 82, 83, 85, 88, 89, 91, 93, 94, 95, 97, 98, 101, 105, 106, 107, 108, 112, 119, 123, 128, 132, 135, 137, 139, 142, 143, 144, 145, 147, 153, 157, 159, 160, 162, 165], "sharpclaw": [4, 23, 25, 75, 83, 90, 92, 93, 98, 115, 135], "ketparlev13": [4, 17, 75, 93, 135], "ketchesonmandliet": [4, 17], "support": [4, 8, 13, 22, 34, 35, 39, 42, 49, 52, 57, 58, 70, 72, 74, 82, 83, 85, 86, 91, 94, 95, 97, 99, 101, 112, 119, 121, 122, 123, 124, 128, 129, 131, 132, 135, 137, 143, 144, 146, 153, 154, 157, 160, 163], "part": [4, 5, 22, 24, 30, 34, 46, 49, 59, 60, 61, 83, 86, 96, 102, 103, 105, 107, 111, 113, 125, 162], "nsf": 4, "grant": [4, 83], "dm": 4, "8657319": 4, "9204329": 4, "9303404": 4, "9505021": 4, "96226645": 4, "9803442": 4, "0106511": 4, "cm": [4, 30, 72, 79, 137], "0245206": 4, "0609661": 4, "0914942": 4, "1216732": 4, "ear": 4, "1331412": 4, "cmmi": 4, "1536198": 4, "doe": [4, 5, 11, 16, 20, 27, 28, 34, 40, 41, 49, 52, 54, 55, 59, 68, 75, 79, 82, 91, 100, 103, 106, 112, 113, 116, 121, 125, 128, 131, 134, 135, 136, 139, 153, 159, 160, 162], "de": [4, 17, 83, 93, 137], "fg06": 4, "93er25181": 4, "fg03": 4, "96er25292": 4, "fg02": 4, 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59, 68, 73, 79, 88, 93, 94, 95, 106, 112, 113, 124, 128, 144, 145, 153, 160], "estimat": [5, 145], "flag_richardson": [5, 112, 120, 144, 145], "flag_richardson_tol": [5, 112, 144, 145], "1e": [5, 67, 147], "flag2refin": [5, 7, 22, 144, 145], "flag2refine_tol": [5, 112, 144, 145], "01": [5, 40, 74, 91, 159], "we": [5, 6, 22, 24, 26, 32, 36, 37, 39, 40, 45, 49, 52, 54, 55, 56, 57, 59, 64, 67, 69, 72, 78, 81, 85, 86, 87, 88, 90, 91, 94, 95, 96, 97, 98, 101, 102, 103, 104, 105, 106, 107, 110, 113, 123, 126, 131, 135, 136, 137, 159], "attempt": [5, 8, 11, 20, 33, 36, 37, 63, 94, 100, 106, 113, 115, 129, 153, 159, 160], "estim": [5, 65, 112, 144, 146], "step": [5, 6, 10, 16, 19, 28, 32, 34, 36, 37, 38, 45, 52, 55, 56, 61, 68, 74, 75, 78, 81, 83, 84, 85, 86, 88, 95, 98, 101, 103, 105, 110, 112, 115, 120, 121, 131, 134, 135, 141, 143, 144, 145, 146, 147, 157, 165], "extrapol": [5, 7, 16, 22, 69, 98, 105, 123, 143, 144, 145, 147], "togeth": [5, 16, 28, 29, 30, 55, 57, 72, 112, 131], 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[5, 6, 22, 27, 28, 30, 32, 35, 48, 55, 65, 67, 68, 72, 79, 85, 91, 98, 101, 105, 106, 107, 112, 113, 118, 124, 132, 139, 143, 144, 145, 146, 159, 162, 165], "rpn2_geoclaw_adjoint_qwav": 5, "rpt2_geoclaw_adjoint_qwav": 5, "non": [5, 16, 56, 67, 75, 86, 98, 105, 124, 126, 143, 145, 147, 153, 165], "vector": [5, 22, 85, 89, 95, 103, 123, 131, 135, 136], "split": [5, 6, 73, 91, 94, 101, 119, 120, 128, 143, 144, 145, 147, 156, 162, 165], "flux": [5, 17, 32, 34, 35, 91, 99, 101, 135, 143, 165], "comment": [5, 11, 24, 50, 56, 122, 131, 134], "rpn2": [5, 135], "basic": [6, 10, 12, 25, 30, 36, 38, 46, 58, 67, 68, 85, 91, 93, 94, 95, 99, 101, 113, 135, 136, 153, 165], "strategi": 6, "logic": [6, 16, 17, 32, 128, 146], "rectangular": [6, 7, 16, 17, 30, 32, 35, 39, 40, 46, 47, 60, 67, 91, 112, 123, 126, 131, 144, 146, 157], "too": [6, 48, 52, 55, 56, 120, 137, 145, 147], "portion": [6, 34, 40, 52, 67, 86, 131, 156], "factor": [6, 52, 144, 146, 156, 159], "direct": [6, 8, 16, 22, 30, 32, 34, 36, 37, 45, 48, 52, 56, 60, 62, 63, 68, 72, 73, 79, 83, 88, 98, 105, 112, 122, 135, 143, 144, 146, 159], "anisotrop": [6, 22], "perhap": [6, 12, 32, 40, 45, 55, 79, 103, 106, 112, 137], "section": [6, 13, 16, 34, 36, 37, 40, 42, 47, 49, 55, 56, 64, 68, 78, 81, 93, 113, 128, 134, 143, 146, 159], "cfl": [6, 91, 95, 101, 105, 115, 120, 143, 145, 146, 147], "spatial": [6, 17, 25, 30, 34, 35, 39, 40, 45, 46, 61, 65, 69, 98, 112, 115, 119, 126, 128, 135, 138, 144, 145, 146, 147, 165], "reduc": [6, 16, 34, 40, 52, 120, 122, 131, 165], "thu": [6, 48, 95, 98, 123, 153], "proce": [6, 28, 146], "advanc": [6, 17, 34, 53, 67, 73, 105, 120, 132, 143, 144, 162], "taken": [6, 32, 67, 72, 95, 101, 112, 143, 162], "around": [6, 30, 32, 40, 60, 94, 110, 113, 126, 144, 145, 153, 159, 162], "librari": [6, 13, 15, 16, 20, 22, 25, 27, 28, 32, 34, 36, 37, 42, 45, 53, 60, 63, 73, 74, 75, 83, 89, 94, 96, 101, 106, 108, 109, 112, 121, 126, 139, 140, 144, 151, 152, 160, 162], "bcnamr": [6, 16, 123, 143, 145, 162], "check": [6, 14, 15, 16, 20, 32, 36, 37, 41, 42, 51, 52, 53, 55, 56, 57, 59, 63, 68, 79, 82, 85, 86, 88, 93, 96, 100, 101, 103, 105, 106, 108, 109, 112, 116, 125, 137, 139, 140, 144, 145, 151, 152, 153, 159, 160, 161, 162], "denot": [6, 22, 35, 45, 54, 135, 159], "procedur": [6, 16, 40, 46, 56, 162], "updat": [6, 12, 13, 22, 23, 25, 32, 50, 53, 58, 59, 61, 81, 93, 101, 103, 104, 107, 110, 115, 119, 121, 122, 123, 124, 125, 126, 135, 144, 145, 147, 150, 153, 156, 162], "consist": [6, 25, 32, 34, 48, 52, 56, 60, 96, 107, 121, 131, 132, 135, 137, 146, 157, 162], "replac": [6, 13, 29, 34, 39, 45, 49, 53, 55, 56, 58, 61, 63, 78, 86, 90, 94, 96, 97, 98, 99, 103, 106, 113, 115, 121, 123, 125, 126, 131, 134, 135, 139, 159, 160], "ly": [6, 67], "within": [6, 16, 28, 34, 35, 55, 59, 67, 69, 75, 79, 97, 106, 108, 112, 135, 137, 142, 148, 159], "approxim": [6, 16, 25, 33, 49, 52, 69, 72, 135], "lead": [6, 13, 22, 32, 34, 49, 52, 65, 68, 72, 108, 111, 128, 139, 144], "total": [6, 30, 34, 52, 72, 74, 95, 101, 143, 144, 145, 147, 156], "mass": [6, 95, 149], "restor": 6, "global": [6, 14, 91, 103, 106, 138, 157, 161, 162], "fix": [6, 19, 20, 22, 25, 33, 35, 39, 45, 46, 55, 56, 60, 61, 63, 67, 69, 83, 94, 99, 115, 116, 117, 118, 119, 120, 121, 122, 124, 125, 126, 127, 128, 129, 130, 131, 132, 136, 143, 145, 147, 159], "up": [6, 13, 22, 28, 29, 30, 32, 34, 36, 37, 40, 41, 45, 46, 52, 55, 56, 60, 63, 67, 68, 72, 74, 79, 85, 86, 88, 90, 92, 93, 94, 96, 101, 102, 105, 108, 110, 112, 113, 119, 120, 123, 126, 128, 137, 139, 142, 145, 147, 156, 157, 160, 161], "style": [6, 22, 28, 30, 34, 39, 50, 52, 67, 70, 79, 83, 88, 123, 146], "olig": [6, 17], "colella": [6, 17], "bergeroliger84": [6, 17], "bergercolella89": [6, 17], "fortran": [6, 9, 11, 13, 14, 20, 23, 27, 28, 30, 32, 33, 34, 35, 36, 45, 46, 47, 54, 57, 59, 63, 64, 65, 69, 73, 74, 75, 78, 81, 83, 85, 86, 88, 91, 93, 94, 96, 98, 99, 101, 102, 103, 106, 108, 119, 120, 121, 123, 124, 125, 131, 132, 135, 136, 141, 144, 145, 146, 147, 153, 155, 156, 157], "written": [6, 11, 25, 30, 32, 34, 35, 41, 45, 59, 60, 61, 62, 72, 74, 75, 79, 83, 92, 93, 94, 98, 121, 135, 143, 144, 145, 146, 147, 153, 159, 162], "ga": [6, 99], "dynam": [6, 20, 30, 34, 49, 72, 75, 144], "merg": [6, 13, 25, 28, 53, 55, 56, 59, 119], "earli": [6, 20, 139], "mjb": [6, 17], "rjl": [6, 17, 108, 125], "fulli": [6, 49, 52, 53, 122, 126, 135, 146, 153, 154], "consid": [6, 40, 49, 59, 67, 86, 108, 141, 148, 159], "adjac": [6, 16, 32, 46, 112, 139, 143], "equival": [6, 45, 53, 54, 60, 61, 74, 125, 131, 157], "copi": [6, 14, 15, 16, 36, 37, 45, 52, 55, 56, 59, 68, 85, 88, 98, 103, 109, 110, 111, 112, 116, 120, 123, 127, 139, 140, 144, 148, 151, 152, 157, 162], "interior": [6, 16, 40, 74, 103], "howev": [6, 13, 16, 22, 32, 36, 37, 40, 42, 47, 49, 52, 59, 62, 64, 67, 69, 72, 73, 74, 83, 86, 93, 112, 113, 121, 123, 125, 138, 139, 142, 146, 156], "lie": [6, 32, 33, 35, 67, 69, 112, 126, 137], "outsid": [6, 16, 39, 60, 67, 126, 137, 139, 157, 159], "li": [6, 16, 32, 35, 69, 112, 137], "along": [6, 14, 16, 24, 27, 30, 32, 40, 45, 52, 55, 58, 72, 74, 108, 112, 119, 133, 134, 137, 139, 146, 161], "proper": [6, 15, 40, 45, 53, 54, 55, 56, 60, 65, 67, 68, 94, 106, 115, 121, 140, 144, 145, 151, 152, 153, 162], "unless": [6, 32, 41, 42, 60, 99, 107, 138, 143, 144, 159], "standard": [6, 16, 30, 32, 34, 52, 54, 68, 74, 86, 89, 101, 108, 112, 113, 145, 146, 147, 148, 157, 162, 165], "beyond": [6, 30, 107, 123], "modifi": [6, 9, 14, 15, 16, 20, 22, 27, 32, 36, 37, 40, 45, 46, 55, 56, 59, 61, 63, 68, 71, 79, 86, 89, 91, 93, 98, 108, 109, 110, 111, 112, 118, 120, 121, 122, 123, 128, 137, 139, 140, 143, 145, 146, 147, 151, 152, 157, 159, 162], "damag": [6, 62, 83], "bcn": [6, 16, 147, 162], "nd": [6, 16, 112, 123, 126, 162], "actual": [6, 27, 30, 34, 54, 59, 60, 68, 72, 79, 89, 94, 106, 110, 138, 146], "softwar": [6, 13, 24, 25, 29, 46, 49, 62, 83, 93, 94, 95, 148, 157], "With": [6, 22, 28, 45, 50, 52, 59, 67, 75, 112, 120, 135, 137, 143], "opposit": [6, 16, 94], "side": [6, 16, 18, 32, 52, 55, 65, 72, 94, 113, 131, 132, 135, 165], "everi": [6, 12, 28, 32, 34, 45, 61, 63, 64, 74, 85, 88, 90, 94, 95, 103, 112, 113, 121, 122, 135, 139, 141, 143, 145, 147, 153, 157, 159, 162], "few": [6, 12, 13, 22, 26, 29, 37, 49, 55, 67, 68, 86, 101, 105, 107, 112, 113, 126, 138, 155, 157, 162], "coarsest": [6, 34, 52, 74, 115, 134, 143], "revis": [6, 121], "shock": [6, 17, 49, 101, 112], "accord": [6, 54], "criteria": [6, 7, 22, 25, 32, 67, 103], "cluster": [6, 17, 112, 144, 145], "rigoutsi": 6, "bergerrigoutsis91": [6, 17], "nonoverlap": 6, "rectangl": [6, 7, 25, 30, 34, 67, 72, 112, 126, 159], "balanc": [6, 17, 75, 122, 136, 151, 152], "conflict": [6, 28, 59, 63, 68, 104, 108], "goal": 6, "possibl": [6, 13, 22, 26, 28, 30, 32, 34, 35, 45, 48, 49, 52, 61, 62, 63, 72, 79, 83, 91, 94, 96, 97, 101, 106, 108, 112, 135, 137, 138, 143, 144, 157, 161, 162], "minim": [6, 59, 67, 94, 137, 144, 159], "overhead": [6, 73, 112, 156], "cutoff": [6, 145], "control": [6, 7, 23, 25, 32, 34, 42, 45, 55, 59, 61, 68, 74, 81, 84, 89, 91, 93, 94, 95, 96, 98, 112, 121, 126, 136, 146], "fraction": [6, 13, 30, 112, 143, 162, 165], "70": [6, 34, 52], "realli": [6, 69, 113, 162], "At": [6, 13, 27, 28, 34, 36, 37, 40, 67, 96, 101, 105, 107, 112, 126, 143], "present": [6, 24, 60, 69, 91, 99, 100, 101, 106, 148, 162, 165], "previous": [6, 22, 32, 67, 74, 81, 119, 126, 139], "bilinear": [6, 32, 40, 45, 54, 69, 115, 116, 157], "doxygen": [6, 7, 25, 122], "flowchart": [6, 7, 25], "capabl": [7, 12, 22, 32, 34, 45, 49, 53, 61, 67, 75, 86, 93, 115, 120, 121, 123, 124, 125, 126, 127, 131, 132, 159, 161], "block": [7, 30, 33, 40, 60, 72, 74, 75, 85, 94, 103, 106, 113, 162], "structur": [7, 10, 22, 32, 34, 35, 39, 56, 59, 63, 75, 100, 101, 121, 137, 142, 159], "input": [7, 14, 16, 20, 23, 25, 27, 30, 33, 35, 41, 46, 52, 60, 64, 67, 68, 74, 85, 88, 89, 91, 93, 99, 100, 101, 106, 110, 120, 123, 124, 125, 135, 145, 146, 147, 153, 154, 157, 159, 162], "indic": [7, 16, 20, 22, 25, 29, 30, 32, 34, 39, 40, 42, 45, 46, 52, 54, 56, 59, 64, 68, 69, 77, 81, 91, 95, 96, 99, 101, 105, 108, 112, 113, 121, 126, 128, 135, 136, 143, 144, 145, 146, 147, 149, 157, 159, 162], "tool": [7, 8, 17, 22, 23, 28, 30, 32, 33, 34, 35, 36, 37, 40, 46, 47, 48, 49, 52, 54, 57, 58, 59, 60, 68, 72, 77, 78, 79, 80, 82, 93, 108, 111, 116, 117, 121, 122, 126, 127, 146, 148, 157, 159, 161, 163], "matlab": [7, 22, 25, 36, 37, 77, 78, 79, 97, 107, 123, 126, 127], "deprec": [7, 30, 46, 55, 59, 119, 123, 131, 157, 159], "debug": [7, 42, 63, 74, 78, 95, 103, 108, 113, 131, 143, 145], "flag": [7, 12, 13, 22, 25, 28, 29, 39, 41, 42, 46, 53, 59, 73, 86, 104, 106, 108, 119, 124, 128, 145, 146], "sampl": [7, 8, 14, 17, 25, 29, 32, 42, 45, 46, 52, 61, 72, 108, 113, 131, 134, 137, 143, 144, 157, 159, 162], "ghost": [7, 16, 73, 74, 91, 94, 101, 103, 121, 128, 132, 143, 145, 147, 156, 162, 165], "flagregion": [7, 25, 67, 112, 126, 128, 137, 144, 146], "rule": [7, 13, 25, 60, 67, 86], "convex": [7, 32], "slu": 7, "bounding_box": [7, 33], "mask_outsid": [7, 67], "write": [7, 28, 30, 33, 34, 35, 39, 40, 45, 46, 51, 54, 55, 65, 72, 74, 75, 78, 85, 88, 91, 92, 94, 95, 96, 100, 121, 123, 145, 147, 153, 157, 159], "instanti": [7, 88, 96, 98, 101, 103, 132, 145, 147], "make_kml": 7, "simpl": [7, 29, 36, 37, 39, 46, 56, 69, 72, 86, 93, 98, 99, 101, 106, 111, 113, 159], "select": [7, 12, 13, 15, 16, 28, 32, 40, 67, 95, 101, 109, 112, 115, 122, 126, 133, 140, 143, 146, 151, 152, 161], "continent": [7, 67], "shelf": [7, 67], "guid": [7, 13, 17, 18, 23, 24, 25, 46, 47, 53, 58, 93, 107, 112, 122, 126, 131, 132, 150], "adjoint": [7, 17, 25, 53, 112, 123, 124], "gaug": [7, 25, 32, 34, 46, 60, 69, 91, 92, 103, 110, 115, 119, 120, 121, 122, 123, 126, 131, 134, 138, 142, 145], "extend": [8, 16, 22, 40, 60, 67, 68, 91, 123, 137, 139, 146, 157, 159, 165], "directli": [8, 19, 23, 32, 46, 49, 58, 68, 72, 79, 81, 85, 86, 89, 93, 103, 106, 108, 123, 131, 159, 163], "obviou": [8, 52], "elimin": [8, 22, 67, 86, 108, 123, 146], "gallery_classic_amrclaw": [8, 36], "num_cel": [8, 22, 91, 135, 143, 144, 145, 147], "refinement_ratios_i": [8, 144, 145], "sweep": [8, 135], "transvers": [8, 91, 121, 128, 135, 136, 143, 162, 165], "graph": 9, "understand": [9, 25, 36, 37, 49, 78, 93, 105, 112, 135], "filpatch": [9, 40, 121, 125, 128], "idea": [10, 24, 30, 67, 68, 75, 85, 105, 116, 159, 165], "overal": [10, 85], "who": [10, 12, 19, 22, 24, 32, 42, 49, 57], "gori": 10, "monster": 10, "column": [10, 30, 32, 45, 49, 61, 95, 99, 119, 137, 159], "markup": 11, "languag": [11, 78, 106], "restructur": [11, 55], "text": [11, 55, 56, 60, 74, 88, 94, 101, 119], "sphinx": [11, 23, 25, 56, 122], "covert": 11, "convert_readm": 11, "brows": [11, 24, 43, 52, 68, 148, 162], "insert": [11, 16, 72, 94, 141], "script": [11, 19, 20, 28, 30, 32, 41, 45, 52, 55, 63, 68, 75, 78, 83, 86, 90, 92, 93, 95, 96, 101, 106, 108, 113, 123, 127, 135, 142, 146, 147, 159], "invok": [11, 14, 73, 139, 160], "minor": [11, 52, 55, 95, 115, 116, 117, 118, 119, 120, 121, 122, 123, 124, 126, 128, 130, 132], "syntax": [11, 58, 141], "highlight": [11, 13], "header": [11, 30, 32, 34, 40, 45, 54, 67, 72, 74, 94, 100, 119, 121, 123, 153, 157, 159], "complex": [12, 34, 39, 91], "archiv": [12, 21, 37, 52, 56, 113, 148, 155, 159, 161], "github": [12, 15, 22, 23, 24, 25, 26, 29, 53, 55, 58, 59, 90, 98, 102, 109, 113, 118, 120, 121, 122, 131, 133, 135, 136, 140, 151, 152, 160], "app": [12, 13, 18, 23, 26, 28, 29, 32, 38, 43, 44, 72, 110, 111, 118, 122, 123, 124, 125, 126, 127, 128, 129, 130, 131, 132, 136], "com": [12, 13, 23, 24, 26, 28, 29, 53, 55, 56, 58, 59, 94, 96, 98, 102, 118, 120, 121, 122, 131, 133, 136], "fvmbook": [12, 43], "galleri": [12, 25, 36, 37, 38, 43, 56, 77, 78, 90, 93, 107, 113, 118, 122, 148, 155, 162], "anim": [12, 16, 34, 43, 52, 119, 126, 127, 131, 148], "instal": [12, 13, 18, 23, 25, 29, 36, 44, 52, 55, 56, 81, 83, 84, 87, 92, 94, 105, 107, 113, 114, 115, 116, 117, 118, 119, 120, 121, 122, 123, 124, 125, 126, 127, 128, 129, 130, 131, 132, 133, 141, 164], "collect": [12, 25, 26, 28, 30, 32, 72, 78, 85, 101, 148], "either": [12, 16, 20, 30, 32, 34, 40, 46, 47, 52, 61, 63, 67, 68, 72, 74, 79, 81, 85, 91, 93, 94, 95, 101, 106, 108, 112, 113, 119, 120, 121, 123, 131, 135, 137, 139, 144, 146, 153, 157, 159, 162, 165], "clone": [12, 18, 23, 24, 43, 53, 55, 56, 59, 82, 96, 102, 111, 131, 132, 160], "git": [12, 13, 23, 24, 25, 26, 53, 56, 59, 93, 102, 113, 125], "navig": [12, 29, 55, 148], "green": [12, 60, 67, 72, 79, 113, 159], "button": [12, 13, 28, 52, 60, 122], "download": [12, 13, 28, 29, 30, 37, 38, 40, 46, 52, 56, 58, 59, 90, 96, 102, 123, 124, 133, 155, 159, 160, 161], "zip": [12, 52, 56], "illustr": [12, 25, 30, 32, 36, 44, 52, 67, 68, 72, 74, 111, 118, 119, 123, 125, 135, 137, 148, 159], "variou": [12, 20, 22, 30, 34, 39, 44, 49, 55, 68, 69, 72, 79, 81, 91, 105, 107, 108, 112, 121, 135, 142, 146, 153], "visibl": [12, 13, 44, 52, 111, 148], "render": [12, 22, 44, 52, 60, 163], "advantag": [12, 34, 45, 61, 78, 94, 107, 113, 137], "independ": [12, 23, 30, 34, 35], "contact": [12, 90, 93, 102], "u": [12, 13, 16, 24, 29, 32, 34, 35, 48, 49, 56, 57, 59, 61, 83, 90, 93, 99, 102, 103, 104, 105, 110, 122, 135, 144, 147, 153, 161], "storm": [12, 17, 24, 25, 46, 119, 122, 123, 124, 125, 127, 128, 129], "surg": [12, 17, 24, 25, 46, 119, 122, 123, 124, 125, 128, 153], "empti": [12, 34, 45, 100, 103, 106, 108, 143, 146, 153, 159], "gitmodul": 12, "pull": [12, 24, 26, 29, 55, 56, 58, 90, 98, 113, 118, 121, 122, 128, 131, 135], "request": [12, 24, 26, 30, 34, 35, 45, 55, 58, 74, 85, 90, 91, 95, 98, 100, 113, 121, 123, 128, 135, 146, 153, 159], "init": [12, 25, 28, 40, 46, 53, 56, 58, 138, 146], "leav": [12, 13, 16, 45, 59, 144, 159], "off": [12, 13, 45, 49, 52, 60, 68, 81, 88, 95, 112, 131, 144, 149, 159], "won": [12, 13, 67, 86, 159], "hurt": [12, 64], "maintain": [12, 28, 107, 123, 144, 157, 162], "flavor": [12, 21, 94], "demonstr": [12, 25, 90, 96], "agre": [12, 28, 40, 54, 135, 156, 159, 162], "seen": [12, 22, 32, 36, 37, 38, 49, 73, 98, 143, 148], "cloud": 13, "elast": [13, 72], "sign": [13, 24, 79, 128, 153], "account": [13, 24, 28, 56, 87, 96, 134], "750": 13, "free": [13, 52, 63, 72, 83, 87, 98, 102, 104], "micro": 13, "suffici": [13, 16, 20, 34, 45, 72, 73, 74, 110, 115, 131, 143, 146], "tier": 13, "inform": [13, 14, 22, 25, 32, 33, 35, 36, 37, 47, 48, 49, 50, 51, 59, 64, 74, 79, 80, 81, 85, 86, 91, 93, 95, 96, 97, 99, 100, 106, 108, 120, 123, 124, 126, 132, 133, 134, 135, 138, 141, 143, 144, 146, 153, 156, 157, 160, 161, 162, 163], "uw": [13, 24], "escienc": 13, "aw": 13, "tutori": [13, 29, 56, 81, 84, 88, 93, 102, 108, 111], "gear": 13, "faq": [13, 25, 78], "price": 13, "charg": 13, "per": [13, 30, 35, 45, 52, 60, 68, 73, 94, 144], "thereof": 13, "regardless": [13, 35, 40, 67, 112, 143], "cpu": [13, 53, 120, 123, 125, 156], "consol": [13, 95, 146], "tab": [13, 55, 133], "east": [13, 157], "cheaper": 13, "rate": 13, "menu": [13, 18, 25, 55, 60, 122, 131, 132, 133, 138, 161], "imag": [13, 36, 37, 40, 56, 60, 67, 113, 123, 137], "platform": [13, 52, 88, 96, 107, 113], "finish": [13, 79, 85], "load": [13, 60, 95, 97, 100, 106, 113, 159, 163], "databas": [13, 30, 72, 106, 110, 123, 157], "uwamath": 13, "bar": [13, 55, 153], "screen": [13, 28, 52, 60, 88, 95, 96, 120, 145, 147], "shapshot": 13, "machin": [13, 25, 73, 75, 113, 121, 141], "disk": [13, 45, 85, 94, 95, 113, 121], "ubuntu": 13, "linux": [13, 71, 82, 104, 113, 141], "popup": 13, "look": [13, 14, 22, 25, 28, 30, 40, 52, 55, 56, 60, 68, 79, 81, 86, 91, 96, 100, 101, 105, 106, 108, 113, 116, 123, 132, 137, 143, 144, 146, 156, 159, 160], "sort": [13, 40, 123, 142, 160], "larger": [13, 20, 32, 52, 60, 72, 73, 74, 79, 91, 115, 121, 128, 144, 146, 157], "cost": [13, 101], "continu": [13, 22, 28, 30, 50, 55, 83, 107, 135, 143, 165], "eventu": [13, 46, 126], "don": [13, 27, 28, 55, 56, 79, 95, 96, 102, 113, 145, 160], "pair": [13, 94, 113, 159], "secur": 13, "quick": [13, 25, 37, 46, 47, 57, 82, 113, 155], "close": [13, 40, 52, 55, 60, 67, 68, 94, 112, 126, 144, 153], "back": [13, 27, 29, 55, 56, 122], "statu": [13, 28, 51, 88, 105], "wait": 13, "until": [13, 32, 61, 67, 139], "refresh": [13, 45], "bottom": [13, 15, 30, 36, 37, 46, 49, 65, 67, 72, 85, 98, 99, 121, 122, 140, 151, 152], "scroll": 13, "down": [13, 30, 95, 120, 153, 157, 159], "dn": 13, "screenshot": [13, 52], "rjlkei": 13, "pem": 13, "abl": [13, 55, 108], "ssh": [13, 28], "keypair": 13, "50": [13, 17, 32, 52, 69, 101, 116, 145], "19": [13, 17, 24, 129, 130, 133, 156], "75": [13, 17, 89, 105, 137], "229": 13, "amazonaw": 13, "gfortran": [13, 59, 73, 82, 84, 104, 141, 160], "ipython": [13, 75, 79, 81, 86, 87, 93, 95, 102, 105, 108, 119, 120], "scipi": [13, 35, 86, 107, 153, 159], "netcdf": [13, 35, 42, 46, 120, 123, 125, 127, 153, 159, 161], "apach": 13, "server": [13, 29, 40, 52, 55, 56, 67, 123, 157, 161], "apt": [13, 82], "fetch": [13, 48], "bring": [13, 52, 55, 68, 146], "master": [13, 15, 25, 29, 55, 56, 59, 98, 109, 120, 121, 122, 123, 124, 125, 126, 127, 128, 129, 130, 131, 132, 133, 136, 140, 151, 152], "make_lib": 13, "compil": [13, 25, 36, 37, 41, 47, 59, 64, 73, 75, 81, 82, 86, 93, 94, 98, 102, 106, 115, 135, 136, 141], "bashrc": [13, 42, 104, 141], "Of": [13, 26, 72, 105, 110, 157], "cours": [13, 26, 32, 45, 47, 61, 72, 96, 97, 105, 107, 110, 146, 157], "tar": [13, 60, 125, 133], "instruct": [13, 18, 24, 25, 36, 37, 40, 52, 53, 55, 56, 85, 87, 93, 96, 102, 105, 108, 122, 129, 131, 132, 133, 134, 160], "window": [13, 30, 68, 81, 141], "respons": [13, 49, 85, 100], "pretti": 13, "slow": [13, 52, 95, 104], "_plot": [13, 36, 37, 45, 68, 81, 142, 148], "local": [13, 17, 20, 25, 28, 52, 55, 60, 63, 64, 68, 89, 91, 98, 103, 121, 123, 132, 139, 157, 159, 162], "sftp": 13, "much": [13, 28, 32, 34, 42, 52, 74, 75, 78, 82, 107, 112, 115, 119, 126, 131, 132, 137, 143, 146, 156, 159], "smaller": [13, 34, 52, 65, 75, 91, 95, 115, 131, 139, 143, 145, 146, 147, 159], "quicker": [13, 137], "browser": [13, 28, 29, 36, 37, 52, 55, 148], "explain": [13, 32, 49, 67, 128, 143, 148], "webserv": 13, "inbound": 13, "port": [13, 29, 92, 93, 98, 144], "22": [13, 24, 144, 159], "80": [13, 17, 52, 96, 137], "drop": [13, 55, 82, 126, 128, 139, 143], "tcp": 13, "Then": [13, 16, 28, 29, 30, 34, 45, 55, 56, 57, 64, 67, 72, 73, 81, 85, 88, 96, 102, 103, 104, 108, 135, 137, 159, 160], "someth": [13, 27, 28, 55, 63, 71, 78, 95, 100, 101, 108, 157, 160, 162], "shot": 13, "ln": 13, "expos": [13, 75], "home": [13, 29, 30, 59, 141], "scp": 13, "TO": [13, 62, 83], "send": [13, 24, 98, 135], "remot": [13, 52, 56, 123, 159, 161], "rel": [13, 20, 30, 41, 47, 49, 52, 72, 73, 79, 93, 106, 108, 113, 116, 117, 118, 119, 120, 121, 122, 123, 124, 125, 126, 127, 128, 129, 130, 131, 132, 138, 144, 146, 148, 157, 161], "end": [13, 29, 30, 32, 33, 34, 45, 48, 52, 56, 60, 88, 95, 99, 105, 107, 110, 112, 120, 121, 123, 134, 136, 137, 145, 147, 153, 156], "retriev": 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59, 61, 72, 98, 112, 115, 117, 122, 146, 149, 157, 158], "normal": [16, 33, 34, 53, 55, 61, 79, 98, 108, 135, 136, 143, 144, 145, 146, 147], "fairli": [16, 49, 121], "good": [16, 28, 49, 52, 62, 73, 83, 105, 110, 113, 121, 128, 135], "outgo": 16, "let": [16, 46, 59, 83, 110, 122, 128, 135], "without": [16, 22, 33, 41, 45, 49, 60, 62, 63, 64, 67, 68, 79, 81, 83, 89, 93, 94, 95, 106, 108, 113, 132, 137, 141, 145, 147, 153, 160, 162], "particularli": [16, 27, 29, 32, 34, 51, 52, 57, 58, 59, 72, 74, 108, 116, 119, 123, 128, 132, 139, 157], "perfect": 16, "hit": [16, 34, 68, 74, 81, 95, 143], "obliqu": 16, "angl": [16, 30, 48, 72], "perfectli": 16, "wall": [16, 42, 98, 105, 120, 123, 125, 143, 145, 147, 156], "veloc": [16, 32, 34, 48, 61, 68, 81, 98, 99, 105, 121, 131, 138, 143, 144, 145, 146, 147, 162], "momentum": [16, 32, 34, 35, 49, 61, 65, 95, 128, 136, 146, 157], "third": [16, 32, 54, 89, 156, 159], "acoust": [16, 29, 36, 37, 49, 84, 85, 88, 90, 93, 101, 102, 119, 135, 145, 162], "p": [16, 17, 29, 81, 83, 85, 91, 94, 95, 99, 103, 135, 165], "hu": [16, 34, 35, 61, 65, 99, 136, 146], "hv": [16, 34, 35, 61, 65, 136, 146], "equal": [16, 30, 32, 33, 34, 35, 52, 69, 72, 74, 96, 98, 112, 134, 137, 143, 145, 147, 157, 159], "far": [16, 39, 43, 67, 78, 124, 126, 128, 131], "symmetri": 16, "physic": [16, 45, 52, 86, 91, 93, 105, 112, 165], "slightli": [16, 40, 54, 121, 122, 128, 137], "complic": [16, 79, 86, 137, 142], "alwai": [16, 22, 26, 27, 28, 32, 34, 35, 42, 54, 55, 59, 68, 85, 94, 111, 112, 115, 116, 128, 132, 139, 143, 145, 147, 157, 162], "alon": [16, 52], "topographi": [16, 17, 25, 32, 33, 34, 35, 45, 46, 49, 54, 60, 65, 69, 72, 80, 110, 111, 115, 116, 117, 119, 120, 123, 126, 129, 132, 137, 138, 139, 151, 152, 158], "artifici": [16, 139], "ignor": [16, 52, 60, 94, 119, 128, 138, 159], "incom": 16, "truncat": [16, 34, 74, 94, 143], "spuriou": [16, 32, 113], "extropl": 16, "dry": [16, 17, 25, 32, 46, 99, 126, 129, 136, 139], "land": [16, 40, 46, 47, 52, 55, 56, 60, 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131, 132, 133], "diff": [18, 51, 56, 115, 116, 117, 118, 119, 120, 121, 122, 123, 124, 125, 126, 127, 128, 129, 130, 131, 132], "tarfil": [18, 56, 59, 122, 123, 124, 125, 126, 127, 128, 129, 130, 131, 132], "pip": [18, 25, 28, 52, 56, 57, 87, 93, 96, 102, 104, 108, 122, 123, 124, 125, 126, 127, 128, 129, 130, 131, 132, 133, 141], "doc": [18, 23, 24, 28, 30, 52, 56, 89, 106, 107, 108, 122, 123, 124, 125, 126, 127, 128, 129, 130, 131, 132, 150], "docker": [18, 25, 56, 57, 122, 123, 124, 125, 126, 127, 128, 129, 130, 131, 132, 164], "migrat": 19, "intermedi": [19, 32, 35, 72, 134, 162], "easiest": [19, 28, 42, 75, 79, 81, 112, 162], "bulk": [19, 85, 99, 105, 135, 145, 162], "convers": [19, 25, 86, 94, 112, 137, 157, 161], "convert43to46": 19, "inspect": [19, 20, 52], "broken": [19, 20, 28, 72, 113], "renam": [20, 22, 36, 37, 63, 98, 101], "achiev": [20, 86, 151, 152], "convert46to50": 20, "_4": 20, "complet": [20, 22, 28, 48, 63, 81, 85, 86, 96, 106, 113], "delet": [20, 28, 55, 59], "variant": [20, 57, 106, 113], "combin": [20, 55, 60, 120, 161], "properli": [20, 32, 36, 37, 40, 41, 49, 52, 54, 55, 59, 60, 67, 71, 74, 88, 113, 115, 118, 123, 126, 128, 141, 143, 146, 149, 157, 159, 160, 162], "correct": [20, 28, 42, 55, 56, 64, 65, 68, 79, 85, 91, 96, 100, 106, 115, 116, 120, 139, 143, 145, 146, 147], "permut": 20, "th": [20, 22, 45, 135, 162], "reorder": [20, 22], "pattern": [20, 47, 52, 138], "carefulli": [20, 22, 65], "setaux": [20, 22, 64, 86, 115, 116, 135, 143, 145, 147], "sequenc": [20, 22, 34, 35, 64, 67, 69, 96, 102, 105, 106, 113, 115, 122, 135, 162], "maxmx": [20, 86], "maxmi": [20, 86], "maxmz": 20, "longer": [20, 28, 45, 55, 56, 60, 82, 107, 121, 123, 126, 128, 132, 134, 135, 146, 157, 161], "declar": [20, 22, 103, 128, 162], "memori": [20, 22, 73, 74, 75, 85, 88, 95, 103, 128, 144, 145], "alloc": [20, 101, 119, 128, 144], "mx": [20, 22, 54, 74, 86, 96, 99, 135, 145, 157, 162], "resp": [20, 30, 128], "mz": [20, 22], "driver": [20, 64], "led": [20, 124], "homepag": [21, 25], "reorgan": [22, 86, 114, 129], "incorpor": [22, 49, 55, 83, 101, 115, 122, 136, 159], "changelog": [22, 114, 115, 116, 117, 118, 119, 120, 121, 122, 123, 124, 125, 126, 127, 128, 129, 130, 131, 133], "concern": [22, 46, 144], "evolv": [22, 85, 88, 101], "organ": [22, 23, 36, 37, 88], "affect": [22, 63, 121, 122, 128, 131, 143, 157, 160], "assist": [22, 126], "older": [22, 42, 53, 55, 58, 59, 101, 127, 131, 133, 144], "compris": [22, 93, 159], "repositori": [22, 24, 25, 26, 29, 32, 37, 38, 43, 44, 46, 53, 58, 59, 63, 64, 93, 101, 108, 110, 111, 113, 118, 121, 133, 150], "webpag": [22, 24, 36, 37, 43, 47, 52, 56, 63, 124, 138], "primari": [22, 28, 29, 46, 110, 113, 153], "auxiliari": [22, 86, 88, 94, 99, 100, 101, 103, 135, 143, 145, 147, 162], "cach": [22, 48, 56, 81, 83, 126, 144], "petsc": [22, 23, 75, 83, 85, 92, 95, 102, 103, 104, 106], "stride": [22, 159], "contingu": 22, "maux": [22, 135, 162], "ma": [22, 34, 40, 67, 137, 159], "relev": [22, 27, 40, 42, 46, 52, 55, 94, 112, 113, 153], "flexibl": [22, 30, 60, 86, 119, 122, 135, 137, 144], "clean": [22, 55, 56, 106, 119, 123], "systemat": 22, "obscur": 22, "clarifi": 22, "regress": [22, 25, 28, 51, 93, 96, 121, 122, 155], "test": [22, 25, 30, 36, 39, 42, 51, 52, 56, 57, 58, 59, 65, 78, 83, 84, 86, 92, 93, 99, 106, 107, 112, 116, 120, 121, 122, 123, 126, 128, 132, 135, 147, 149, 153, 156, 157, 159], "travi": [22, 128], "miss": [22, 25, 94, 125, 132, 149, 153, 157, 159, 160], "conform": [22, 28, 33, 100, 123, 157], "construct": [22, 30, 32, 54, 69, 85, 91, 106, 132, 153, 154, 157], "visit": [22, 25, 78, 133], "gui": [22, 163], "openmp": [22, 25, 42, 75, 106, 112, 120, 126, 156], "monitor": [22, 25, 33, 34, 39, 46, 67, 69, 73, 116, 118, 121, 131], "arriv": [22, 32, 34, 40, 46, 121, 138, 139], "ndim": [22, 74, 81, 143, 144], "num_dim": [22, 39, 91, 94, 98, 143, 144, 145, 147], "zlower": 22, "yupper": [22, 145, 159], "zupper": 22, "upper": [22, 32, 33, 39, 89, 91, 98, 137, 143, 145, 147, 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"changes-to-pyclaw"], [126, "changes-to-pyclaw"], [127, "changes-to-pyclaw"], [128, "changes-to-pyclaw"], [129, "changes-to-pyclaw"], [130, "changes-to-pyclaw"], [131, "changes-to-pyclaw"], [132, "changes-to-pyclaw"]], "Other Clawpack Repositories": [[18, "other-clawpack-repositories"], [122, "other-clawpack-repositories"], [123, "other-clawpack-repositories"], [124, "other-clawpack-repositories"], [125, "other-clawpack-repositories"], [126, "other-clawpack-repositories"], [127, "other-clawpack-repositories"], [128, "other-clawpack-repositories"], [129, "other-clawpack-repositories"], [130, "other-clawpack-repositories"], [131, "other-clawpack-repositories"], [132, "other-clawpack-repositories"]], "Converting from Clawpack 4.3 to 4.6": [[19, "converting-from-clawpack-4-3-to-4-6"]], "Converting from Clawpack 4.6 to 5.0": [[20, "converting-from-clawpack-4-6-to-5-0"]], "Python conversion tool": [[20, "python-conversion-tool"]], "Clawpack 4.x links": [[21, "clawpack-4-x-links"]], "Changes in Clawpack 5.0": [[22, "changes-in-clawpack-5-0"]], "PyClaw in 5.0": [[22, "pyclaw-in-5-0"]], "Fortran package changes": [[22, "fortran-package-changes"]], "Changes to input parameters in setrun.py from 4.x to 5.0": [[22, "changes-to-input-parameters-in-setrun-py-from-4-x-to-5-0"]], "Changes to general parameters": [[22, "changes-to-general-parameters"]], "Changes to AMR parameters": [[22, "changes-to-amr-parameters"]], "Changes to GeoClaw parameters": [[22, "changes-to-geoclaw-parameters"]], "Changes to plotting routines": [[22, "changes-to-plotting-routines"]], "Clawpack components": [[23, "clawpack-components"]], "Other repositories": [[23, "other-repositories"]], "Clawpack Community": [[24, "clawpack-community"]], "User Workshops, Clinics, and Tutorials": [[24, "user-workshops-clinics-and-tutorials"]], "Available for streaming": [[24, "available-for-streaming"]], "Upcoming": [[24, "upcoming"], [24, "id1"]], "Recent": [[24, "recent"]], "Developer Workshops and Sprint Sessions": [[24, "developer-workshops-and-sprint-sessions"]], "Previous": [[24, "previous"]], "Other Clawpack events": [[24, "other-clawpack-events"]], "Contents": [[25, "id1"], [28, "contents"], [40, "contents"], [67, "contents"], [79, "contents"], [85, "contents"], [95, "contents"], [101, "contents"], [113, "contents"], [137, "contents"]], "Full Table of Contents": [[25, "full-table-of-contents"]], "Overview and Getting Started": [[25, "overview-and-getting-started"]], "Examples and Applications": [[25, "examples-and-applications"]], "Classic, AMRClaw, and GeoClaw": [[25, "classic-amrclaw-and-geoclaw"]], "Using the Fortran codes": [[25, "using-the-fortran-codes"]], "AMRClaw: adaptive mesh refinement": [[25, "amrclaw-adaptive-mesh-refinement"]], "GeoClaw: geophysical flows": [[25, "geoclaw-geophysical-flows"]], "PyClaw": [[25, "pyclaw"], [36, "pyclaw"], [93, "pyclaw"], [113, "pyclaw"], [155, "pyclaw"]], "Riemann": [[25, "riemann"]], "VisClaw: Plotting and Visualization Tools": [[25, "visclaw-plotting-and-visualization-tools"]], "Migrating applications from older versions of Clawpack": [[25, "migrating-applications-from-older-versions-of-clawpack"]], "Developers\u2019 resources": [[25, "developers-resources"]], "References": [[25, "references"], [53, "references"]], "Contributing examples and applications": [[26, "contributing-examples-and-applications"]], "current_data": [[27, "current-data"]], "Attributes of current_data:": [[27, "attributes-of-current-data"]], "Developers\u2019 Guide": [[28, "developers-guide"]], "Guidelines for contributing": [[28, "guidelines-for-contributing"]], "Reporting and fixing bugs": [[28, "reporting-and-fixing-bugs"]], "Developer communication": [[28, "developer-communication"]], "Installation instructions for developers": [[28, "installation-instructions-for-developers"]], "Cloning the most recent code from Github": [[28, "cloning-the-most-recent-code-from-github"]], "Checking out the master branch on each repository": [[28, "checking-out-the-master-branch-on-each-repository"]], "Updating to the latest master branch": [[28, "updating-to-the-latest-master-branch"]], "Never commit to master": [[28, "never-commit-to-master"]], "Adding your fork as a remote": [[28, "adding-your-fork-as-a-remote"]], "Modifying code": [[28, "modifying-code"]], "Issuing a pull request": [[28, "issuing-a-pull-request"]], "Testing a pull request": [[28, "testing-a-pull-request"]], "Top-level pull requests": [[28, "top-level-pull-requests"]], "Git workflow": [[28, "git-workflow"]], "Catching errors with Pyflakes and Pylint": [[28, "catching-errors-with-pyflakes-and-pylint"]], "Checking test coverage": [[28, "checking-test-coverage"]], "Trouble-Shooting Tips": [[28, "trouble-shooting-tips"]], "Docker for Clawpack": [[29, "docker-for-clawpack"]], "Using Version 5.9.0 or above": [[29, "using-version-5-9-0-or-above"]], "Getting started": [[29, "getting-started"]], "Stopping a container": [[29, "stopping-a-container"]], "Restarting a container": [[29, "restarting-a-container"]], "Running Jupyter notebooks": [[29, "running-jupyter-notebooks"]], "Moving files between the docker container and the host machine": [[29, "moving-files-between-the-docker-container-and-the-host-machine"]], "Some other useful docker commands": [[29, "some-other-useful-docker-commands"]], "Creating your own docker image": [[29, "creating-your-own-docker-image"]], "Dockerfiles for binder": [[29, "dockerfiles-for-binder"]], "dtopotools module for moving topography": [[30, "dtopotools-module-for-moving-topography"]], "Documentation auto-generated from the module docstrings": [[30, "module-clawpack.geoclaw.dtopotools"], [33, "module-clawpack.geoclaw.fgmax_tools"], [35, "module-clawpack.geoclaw.fgout_tools"], [48, "module-clawpack.geoclaw.util"], [60, "module-clawpack.geoclaw.kmltools"], [159, "module-clawpack.geoclaw.topotools"]], "Fortran 77 vs. Fortran 90 files": [[31, "fortran-77-vs-fortran-90-files"]], "Fixed grid monitoring": [[32, "fixed-grid-monitoring"]], "Input file specification": [[32, "input-file-specification"], [34, "input-file-specification"]], "Different point styles": [[32, "different-point-styles"]], "Other attributes": [[32, "other-attributes"]], "Values to monitor": [[32, "values-to-monitor"]], "Choice of interpolation procedure": [[32, "choice-of-interpolation-procedure"], [34, "choice-of-interpolation-procedure"]], "A simple example": [[32, "a-simple-example"], [34, "a-simple-example"]], "Processing and plotting fgmax output": [[32, "processing-and-plotting-fgmax-output"]], "Format of the output files": [[32, "format-of-the-output-files"]], "fgmax_tools module for working with fgmax grids": [[33, "fgmax-tools-module-for-working-with-fgmax-grids"]], "Fixed grid output": [[34, "fixed-grid-output"], [146, "fixed-grid-output"]], "Format of fgout output": [[34, "format-of-fgout-output"]], "Using setplot.py to produce plots": [[34, "using-setplot-py-to-produce-plots"]], "Reading and plotting fgout arrays directly": [[34, "reading-and-plotting-fgout-arrays-directly"]], "fgout grid registration": [[34, "fgout-grid-registration"]], "fgout_tools module for working with fgout grids": [[35, "fgout-tools-module-for-working-with-fgout-grids"]], "Running an example": [[36, "running-an-example"], [37, "running-an-example"], [38, "running-an-example"]], "Classic": [[36, "classic"], [37, "classic"], [155, "classic"]], "Testing your Fortran installation and running an example": [[37, "testing-your-fortran-installation-and-running-an-example"]], "More examples": [[37, "more-examples"]], "Testing a PyClaw installation and running an example": [[38, "testing-a-pyclaw-installation-and-running-an-example"]], "From the Jupyter notebook": [[38, "from-the-jupyter-notebook"]], "From the IPython interpreter": [[38, "from-the-ipython-interpreter"]], "From the command line": [[38, "from-the-command-line"], [90, "from-the-command-line"]], "Specifying flagregions for adaptive refinement": [[39, "specifying-flagregions-for-adaptive-refinement"]], "Using ruled rectangles as flagregions": [[39, "using-ruled-rectangles-as-flagregions"]], "Force Cells to be Dry Initially": [[40, "force-cells-to-be-dry-initially"]], "Examples": [[40, "examples"], [45, "examples"], [67, "examples"], [93, "examples"], [137, "examples"]], "Sample topography from a 1/3 arcsecond DEM": [[40, "sample-topography-from-a-1-3-arcsecond-dem"], [67, "sample-topography-from-a-1-3-arcsecond-dem"]], "Creating the force_dry_init array": [[40, "creating-the-force-dry-init-array"]], "Create file to read into GeoClaw": [[40, "create-file-to-read-into-geoclaw"]], "Usage in GeoClaw Fortran code": [[40, "usage-in-geoclaw-fortran-code"]], "Internal GeoClaw modifications": [[40, "internal-geoclaw-modifications"]], "Fortran version": [[41, "fortran-version"]], "Makefiles": [[41, "makefiles"]], "More tips": [[41, "more-tips"]], "Fortran Compilers": [[42, "fortran-compilers"]], "FC environment variable": [[42, "fc-environment-variable"]], "FFLAGS environment variable": [[42, "fflags-environment-variable"]], "LFLAGS environment variable": [[42, "lflags-environment-variable"]], "Pre-Processor and the PPFLAGS environment variable": [[42, "pre-processor-and-the-ppflags-environment-variable"]], "gfortran compiler": [[42, "gfortran-compiler"]], "Intel fortran compiler": [[42, "intel-fortran-compiler"]], "Examples from the book FVMHP": [[43, "examples-from-the-book-fvmhp"]], "Available examples": [[43, "available-examples"]], "Clawpack Gallery": [[44, "clawpack-gallery"]], "Gauges": [[45, "gauges"]], "Gauge parameters in setrun": [[45, "gauge-parameters-in-setrun"]], "Plotting tools": [[45, "plotting-tools"]], "Plotting gauge locations": [[45, "plotting-gauge-locations"]], "GeoClaw Description and Detailed Contents": [[46, "geoclaw-description-and-detailed-contents"]], "Getting started with GeoClaw": [[47, "getting-started-with-geoclaw"]], "Running a GeoClaw code": [[47, "running-a-geoclaw-code"]], "Topography": [[47, "topography"]], "Plotting GeoClaw results": [[47, "plotting-geoclaw-results"]], "Setting up a new example": [[47, "setting-up-a-new-example"]], "geoclaw.util module of utility functions": [[48, "geoclaw-util-module-of-utility-functions"]], "Cautionary Hints on using GeoClaw": [[49, "cautionary-hints-on-using-geoclaw"]], "Tsunami hazard modeling": [[49, "tsunami-hazard-modeling"]], "GeoClaw plotting tools": [[50, "geoclaw-plotting-tools"]], "Plotting water depth or surface elevation": [[50, "plotting-water-depth-or-surface-elevation"]], "Tips on latitude-longitude coordinate axes": [[50, "tips-on-latitude-longitude-coordinate-axes"]], "Keeping track of repository versions with Git": [[51, "keeping-track-of-repository-versions-with-git"]], "Visualizing GeoClaw results in Google Earth": [[52, "visualizing-geoclaw-results-in-google-earth"]], "Basic requirements": [[52, "basic-requirements"]], "Optional GDAL library": [[52, "optional-gdal-library"]], "An example : The Chile 2010 tsunami event": [[52, "an-example-the-chile-2010-tsunami-event"]], "Plotting attributes needed for Google Earth": [[52, "plotting-attributes-needed-for-google-earth"]], "plotdata attributes": [[52, "plotdata-attributes"]], "plotfigure attributes": [[52, "plotfigure-attributes"]], "Creating the figures": [[52, "creating-the-figures"]], "plotaxes attributes": [[52, "plotaxes-attributes"]], "plotitem attributes": [[52, "plotitem-attributes"]], "Adding a colorbar overlay": [[52, "adding-a-colorbar-overlay"]], "Gauge plots": [[52, "gauge-plots"]], "Additional plotdata attributes": [[52, "additional-plotdata-attributes"]], "Plotting tips": [[52, "plotting-tips"]], "KML and KMZ files": [[52, "kml-and-kmz-files"]], "Tiling images for faster loading": [[52, "tiling-images-for-faster-loading"]], "Removing aliasing artifacts": [[52, "removing-aliasing-artifacts"]], "Creating multiple figures at different resolutions": [[52, "creating-multiple-figures-at-different-resolutions"]], "Mapping topography data to latitude/longitude coordinates": [[52, "mapping-topography-data-to-latitude-longitude-coordinates"]], "Publishing your results": [[52, "id1"]], "Using the GPU version of Clawpack": [[53, "using-the-gpu-version-of-clawpack"]], "Grid registration": [[54, "grid-registration"]], "NetCDF files": [[54, "netcdf-files"]], "Guide for updating this documentation": [[55, "guide-for-updating-this-documentation"]], "Git branches and tags": [[55, "git-branches-and-tags"]], "Configuration and style files": [[55, "configuration-and-style-files"]], "Updating the docs for a new release": [[55, "updating-the-docs-for-a-new-release"]], "To generate docs including previous versions": [[55, "to-generate-docs-including-previous-versions"]], "Updating for a new major version": [[55, "updating-for-a-new-major-version"]], "Updating the gallery": [[55, "updating-the-gallery"]], "Updating the webpages": [[55, "updating-the-webpages"]], "Extra files for webpages not built by Sphinx": [[55, "extra-files-for-webpages-not-built-by-sphinx"]], "Pages from other clawpack repositories": [[55, "pages-from-other-clawpack-repositories"]], "Guide for doing a Clawpack release": [[56, "guide-for-doing-a-clawpack-release"]], "Preparation": [[56, "preparation"]], "Version numbers": [[56, "version-numbers"]], "Release candidates": [[56, "release-candidates"]], "Create a tar file and a Github release": [[56, "create-a-tar-file-and-a-github-release"]], "Final release": [[56, "final-release"]], "Pypi": [[56, "pypi"]], "Zenodo": [[56, "zenodo"]], "Open Science Framework (OSF)": [[56, "open-science-framework-osf"]], "Updating the documentation": [[56, "updating-the-documentation"]], "Updating the apps repository": [[56, "updating-the-apps-repository"]], "Updating the Dockerfile": [[56, "updating-the-dockerfile"]], "Installing Clawpack": [[57, "installing-clawpack"]], "Next steps:": [[57, "next-steps"], [58, "next-steps"], [59, "next-steps"]], "Options for installing Clawpack Fortran codes": [[58, "options-for-installing-clawpack-fortran-codes"]], "tar file": [[58, "tar-file"]], "git clone": [[58, "git-clone"]], "pip install instructions": [[59, "pip-install-instructions"]], "Quick Installation of PyClaw with pip": [[59, "quick-installation-of-pyclaw-with-pip"]], "Quick Installation of all packages with pip": [[59, "quick-installation-of-all-packages-with-pip"]], "Using pip to install a different version": [[59, "using-pip-to-install-a-different-version"]], "Experimenting with code in the examples directories": [[59, "experimenting-with-code-in-the-examples-directories"]], "Troubleshooting pip install": [[59, "troubleshooting-pip-install"]], "kmltools module of utility functions": [[60, "kmltools-module-of-utility-functions"]], "Lagrangian gauges for particle tracking": [[61, "lagrangian-gauges-for-particle-tracking"]], "Specifying Lagrangian Gauges": [[61, "specifying-lagrangian-gauges"]], "Visclaw tools for plotting": [[61, "visclaw-tools-for-plotting"]], "An alternative using fgout grids": [[61, "an-alternative-using-fgout-grids"]], "Clawpack Makefiles": [[63, "clawpack-makefiles"]], "Applications directory Makefiles": [[63, "applications-directory-makefiles"]], "output": [[63, "output"]], "plots": [[63, "plots"]], "Variables": [[63, "variables"]], "Compiler flags": [[63, "compiler-flags"]], "Duplicate Base Source Name": [[63, "duplicate-base-source-name"]], "Library routines in Makefiles": [[64, "library-routines-in-makefiles"]], "Replacing files with the same name as library files": [[64, "replacing-files-with-the-same-name-as-library-files"]], "Using a modified library routine with a different name": [[64, "using-a-modified-library-routine-with-a-different-name"]], "Manning friction term": [[65, "manning-friction-term"]], "The mapc2p function": [[66, "the-mapc2p-function"]], "Marching Front algorithm": [[67, "marching-front-algorithm"]], "Function arguments": [[67, "function-arguments"]], "output array": [[67, "output-array"]], "creating a masked array": [[67, "creating-a-masked-array"]], "topofile mask for initializing dry points": [[67, "topofile-mask-for-initializing-dry-points"]], "fgmax points": [[67, "fgmax-points"]], "flag regions": [[67, "flag-regions"]], "The mask argument": [[67, "the-mask-argument"]], "The previous_pts_chosen argument": [[67, "the-previous-pts-chosen-argument"]], "Finding all points below a given elevation": [[67, "finding-all-points-below-a-given-elevation"]], "Create a buffer zone along shore": [[67, "create-a-buffer-zone-along-shore"]], "Choose points only near shore": [[67, "choose-points-only-near-shore"]], "Write out the masked array indicating fgmax points": [[67, "write-out-the-masked-array-indicating-fgmax-points"]], "Creating an AMR flag region": [[67, "creating-an-amr-flag-region"]], "Determining dry areas below MHW": [[67, "determining-dry-areas-below-mhw"]], "Plotting using Matlab": [[68, "plotting-using-matlab"]], "The Matlab search path": [[68, "the-matlab-search-path"]], "Creating output files": [[68, "creating-output-files"]], "The plotclaw command": [[68, "the-plotclaw-command"]], "The setplot file": [[68, "the-setplot-file"]], "The afterframe file": [[68, "the-afterframe-file"]], "Getting help": [[68, "getting-help"]], "Trouble shooting": [[68, "trouble-shooting"]], "Output files not found": [[68, "output-files-not-found"]], "MaxFrames not set": [[68, "maxframes-not-set"]], "Switching examples": [[68, "switching-examples"]], "Matlab Gallery": [[68, "matlab-gallery"]], "Nearshore interpolation": [[69, "nearshore-interpolation"]], "Using NetCDF output": [[70, "using-netcdf-output"]], "Creating a new application directory": [[71, "creating-a-new-application-directory"]], "Copying an existing example": [[71, "copying-an-existing-example"]], "Earthquake sources: Fault slip and the Okada model": [[72, "earthquake-sources-fault-slip-and-the-okada-model"]], "Fault slip on rectangular subfaults": [[72, "fault-slip-on-rectangular-subfaults"]], "Okada model": [[72, "okada-model"]], "Kinematic rupture": [[72, "kinematic-rupture"]], "Fault slip on triangular subfaults": [[72, "fault-slip-on-triangular-subfaults"]], "Using OpenMP": [[73, "using-openmp"]], "Using OpenMP with AMR": [[73, "using-openmp-with-amr"]], "Fixed grid output in GeoClaw": [[73, "fixed-grid-output-in-geoclaw"]], "Output data sytles and formats": [[74, "output-data-sytles-and-formats"]], "Output style": [[74, "output-style"]], "Output data formats": [[74, "output-data-formats"]], "ASCII output data format": [[74, "ascii-output-data-format"]], "fort.t0002": [[74, "fort-t0002"]], "fort.q0002": [[74, "fort-q0002"]], "Raw binary output data formats": [[74, "raw-binary-output-data-formats"]], "NetCDF output data format": [[74, "netcdf-output-data-format"]], "Output of aux arrays": [[74, "output-of-aux-arrays"]], "Which Clawpack solver should I use?": [[75, "which-clawpack-solver-should-i-use"]], "Installation and user interface": [[75, "installation-and-user-interface"]], "Algorithmic differences": [[75, "algorithmic-differences"]], "Parallel computing": [[75, "parallel-computing"]], "Clawpack Community Photos": [[76, "clawpack-community-photos"]], "2016 Developers\u2019 workshop at University of Washington": [[76, "id1"]], "2015 Developers\u2019 workshop at University of Utah": [[76, "id2"]], "2014 HPC3 workshop at KAUST": [[76, "id3"]], "2013 Claw-Dev workshop at UW": [[76, "id4"]], "2012 HPC3 workshop at KAUST": [[76, "id6"]], "2011 coding sprints at UW": [[76, "coding-sprints-at-uw"]], "2010 GeoClaw hacking UW": [[76, "geoclaw-hacking-uw"]], "Plotting examples": [[77, "plotting-examples"]], "Plotting with Visclaw": [[78, "plotting-with-visclaw"]], "Plotting as post-processing": [[78, "plotting-as-post-processing"]], "Plotting on the fly": [[78, "plotting-on-the-fly"]], "Plotting hints and FAQ": [[79, "plotting-hints-and-faq"]], "What\u2019s the difference between make .plots and make plots ?": [[79, "what-s-the-difference-between-make-plots-and-make-plots"]], "How to plot a something other than a component of q?": [[79, "how-to-plot-a-something-other-than-a-component-of-q"]], "How to add another curve to a plot, e.g. the true solution?": [[79, "how-to-add-another-curve-to-a-plot-e-g-the-true-solution"]], "How to change the title in a plot?": [[79, "how-to-change-the-title-in-a-plot"]], "How to specify outdir, the directory to find fort.* files for plotting?": [[79, "how-to-specify-outdir-the-directory-to-find-fort-files-for-plotting"]], "How to specify a different outdir for some plot item?": [[79, "how-to-specify-a-different-outdir-for-some-plot-item"]], "How to set plot parameters that are not provided as attributes of ClawPlotItem?": [[79, "how-to-set-plot-parameters-that-are-not-provided-as-attributes-of-clawplotitem"]], "How to change the size or background color of a figure?": [[79, "how-to-change-the-size-or-background-color-of-a-figure"]], "Specifying colormaps for pcolor or contourf plots": [[79, "specifying-colormaps-for-pcolor-or-contourf-plots"]], "How to debug setplot.py?": [[79, "how-to-debug-setplot-py"]], "Plotting routines for GeoClaw": [[80, "plotting-routines-for-geoclaw"]], "Plotting options in Python": [[81, "plotting-options-in-python"]], "Producing html plots from the command line": [[81, "producing-html-plots-from-the-command-line"]], "Producing a latex file with plots from the command line": [[81, "producing-a-latex-file-with-plots-from-the-command-line"]], "Setting plot parameters with a setplot function": [[81, "setting-plot-parameters-with-a-setplot-function"]], "Interactive plotting with Iplotclaw": [[81, "interactive-plotting-with-iplotclaw"]], "Access to current_data": [[81, "access-to-current-data"]], "printframes": [[81, "printframes"]], "Specifying what and how to plot": [[81, "specifying-what-and-how-to-plot"]], "Installation Prerequisites": [[82, "installation-prerequisites"]], "Operating system": [[82, "operating-system"]], "Fortran": [[82, "fortran"]], "Python": [[82, "python"]], "pip": [[82, "pip"]], "Git": [[82, "git"]], "About PyClaw": [[83, "about-pyclaw"]], "Contributors": [[83, "contributors"]], "PyClaw Basics": [[84, "pyclaw-basics"]], "Understanding Pyclaw Classes": [[85, "understanding-pyclaw-classes"]], "Flow of a Pyclaw Simulation": [[85, "flow-of-a-pyclaw-simulation"]], "Creation of a Pyclaw Solution": [[85, "creation-of-a-pyclaw-solution"]], "Creation of a Pyclaw Solver": [[85, "creation-of-a-pyclaw-solver"]], "Creating and Running a Simulation with Controller": [[85, "creating-and-running-a-simulation-with-controller"]], "Restarting a simulation": [[85, "restarting-a-simulation"]], "Outputting aux values": [[85, "outputting-aux-values"]], "Outputting derived quantities": [[85, "outputting-derived-quantities"], [95, "outputting-derived-quantities"]], "Porting a problem from Clawpack 4.6.x to PyClaw": [[86, "porting-a-problem-from-clawpack-4-6-x-to-pyclaw"]], "Running PyClaw in the cloud": [[87, "running-pyclaw-in-the-cloud"]], "Sage Math Cloud": [[87, "sage-math-cloud"]], "Pyclaw Controller Class": [[88, "pyclaw-controller-class"]], "pyclaw.controller.Controller": [[88, "pyclaw-controller-controller"]], "Pyclaw Limiters": [[89, "pyclaw-limiters"]], "clawpack.pyclaw.limiters.tvd": [[89, "module-clawpack.pyclaw.limiters.tvd"]], "CFL Independent Limiters": [[89, "cfl-independent-limiters"]], "CFL Dependent Limiters": [[89, "cfl-dependent-limiters"]], "Working with PyClaw\u2019s built-in examples": [[90, "working-with-pyclaw-s-built-in-examples"]], "Running and plotting examples": [[90, "running-and-plotting-examples"]], "Interactively in IPython": [[90, "interactively-in-ipython"]], "Built-in examples": [[90, "built-in-examples"]], "Adding new examples": [[90, "adding-new-examples"]], "PyClaw Geometry": [[91, "pyclaw-geometry"]], "Serial Geometry Objects": [[91, "serial-geometry-objects"]], "pyclaw.geometry.Domain": [[91, "pyclaw-geometry-domain"]], "pyclaw.geometry.Patch": [[91, "pyclaw-geometry-patch"]], "pyclaw.geometry.Grid": [[91, "pyclaw-geometry-grid"]], "pyclaw.geometry.Dimension": [[91, "pyclaw-geometry-dimension"]], "Parallel Geometry Objects": [[91, "parallel-geometry-objects"]], "petclaw.geometry.Domain": [[91, "petclaw-geometry-domain"]], "petclaw.geometry.Patch": [[91, "petclaw-geometry-patch"]], "Going Further": [[92, "going-further"]], "PyClaw installation": [[93, "pyclaw-installation"]], "Features": [[93, "features"]], "PyClaw Documentation": [[93, "pyclaw-documentation"]], "PyClaw Modules reference documentation": [[93, "pyclaw-modules-reference-documentation"]], "Riemann Solvers reference documentation": [[93, "riemann-solvers-reference-documentation"]], "Indices and tables": [[93, "indices-and-tables"]], "Citing PyClaw": [[93, "citing-pyclaw"]], "Pyclaw Input/Output Package": [[94, "pyclaw-input-output-package"]], "pyclaw.fileio.ascii": [[94, "module-clawpack.pyclaw.fileio.ascii"]], "pyclaw.fileio.binary": [[94, "module-clawpack.pyclaw.fileio.binary"]], "pyclaw.fileio.hdf5": [[94, "pyclaw-fileio-hdf5"]], "pyclaw.fileio.netcdf": [[94, "module-clawpack.pyclaw.fileio.netcdf"]], "PyClaw output": [[95, "pyclaw-output"]], "Output frames": [[95, "output-frames"]], "When output is saved/written": [[95, "when-output-is-saved-written"]], "Where and how output is written": [[95, "where-and-how-output-is-written"]], "What output is written": [[95, "what-output-is-written"]], "Outputting functionals": [[95, "outputting-functionals"]], "Using gauges": [[95, "using-gauges"]], "Logging": [[95, "logging"]], "Running in parallel": [[96, "running-in-parallel"]], "Installing PETSc": [[96, "installing-petsc"]], "Testing your installation": [[96, "testing-your-installation"], [155, "testing-your-installation"]], "Running and plotting an example": [[96, "running-and-plotting-an-example"]], "Tips for making your application run correctly in parallel": [[96, "tips-for-making-your-application-run-correctly-in-parallel"]], "Passing options to PETSc": [[96, "passing-options-to-petsc"]], "Plotting PyClaw results": [[97, "plotting-pyclaw-results"]], "Basics": [[97, "basics"]], "Plotting result from parallel runs": [[97, "plotting-result-from-parallel-runs"]], "Setting up your own problem": [[98, "setting-up-your-own-problem"]], "Writing the initialization script": [[98, "writing-the-initialization-script"]], "Setting initial conditions": [[98, "setting-initial-conditions"]], "Setting auxiliary variables": [[98, "setting-auxiliary-variables"]], "Setting boundary conditions": [[98, "setting-boundary-conditions"]], "Setting solver options": [[98, "setting-solver-options"]], "Using your own Riemann solver": [[98, "using-your-own-riemann-solver"]], "Adding source terms": [[98, "adding-source-terms"]], "Setting up the Makefile": [[98, "setting-up-the-makefile"]], "Riemann Solver Package": [[99, "riemann-solver-package"]], "Acoustics": [[99, "acoustics"]], "Advection": [[99, "advection"]], "Burgers Equation": [[99, "burgers-equation"]], "Euler Equations": [[99, "euler-equations"]], "Shallow Water Equations": [[99, "shallow-water-equations"]], "PyClaw Solutions": [[100, "pyclaw-solutions"]], "pyclaw.solution.Solution": [[100, "pyclaw-solution-solution"]], "Using PyClaw\u2019s solvers: Classic and SharpClaw": [[101, "using-pyclaw-s-solvers-classic-and-sharpclaw"]], "SharpClaw Solvers": [[101, "sharpclaw-solvers"]], "pyclaw.sharpclaw": [[101, "pyclaw-sharpclaw"]], "Pyclaw Classic Clawpack Solvers": [[101, "pyclaw-classic-clawpack-solvers"]], "pyclaw.classic.solver": [[101, "pyclaw-classic-solver"]], "Change to Custom BC Function Signatures": [[101, "change-to-custom-bc-function-signatures"]], "Installing PyClaw": [[102, "installing-pyclaw"]], "Dependencies: Python, gfortran, numpy, and matplotlib": [[102, "dependencies-python-gfortran-numpy-and-matplotlib"]], "Obtaining Python, numpy, and matplotlib": [[102, "obtaining-python-numpy-and-matplotlib"]], "Clawpack": [[102, "clawpack"]], "Testing your installation with nose": [[102, "testing-your-installation-with-nose"]], "Next steps": [[102, "next-steps"]], "PyClaw State": [[103, "pyclaw-state"]], "Serial pyclaw.state.State": [[103, "serial-pyclaw-state-state"]], "Parallel petclaw.state.State": [[103, "parallel-petclaw-state-state"]], "Troubleshooting": [[104, "troubleshooting"], [160, "troubleshooting"]], "Compilation errors": [[104, "compilation-errors"]], "Use Fortran-ordered arrays": [[104, "use-fortran-ordered-arrays"]], "Installation": [[104, "installation"]], "PyClaw tutorial: Solve the acoustics equations": [[105, "pyclaw-tutorial-solve-the-acoustics-equations"]], "The Solver": [[105, "the-solver"]], "The domain": [[105, "the-domain"]], "Initial condition": [[105, "initial-condition"]], "Problem-specific parameters": [[105, "problem-specific-parameters"]], "The controller": [[105, "the-controller"]], "Pyclaw Utility Module": [[106, "pyclaw-utility-module"]], "pyclaw.util": [[106, "module-clawpack.pyclaw.util"]], "Python Hints": [[107, "python-hints"]], "Dropping support for Python 2.7": [[107, "dropping-support-for-python-2-7"]], "References and tutorials": [[107, "references-and-tutorials"]], "Notebooks": [[107, "notebooks"]], "Python path": [[108, "python-path"]], "whichclaw.py": [[108, "whichclaw-py"]], "Which version was imported?": [[108, "which-version-was-imported"]], "sys.path": [[108, "sys-path"]], "easy-install.pth": [[108, "easy-install-pth"]], "PYTHONPATH": [[108, "pythonpath"], [141, "pythonpath"]], "qinit default routines": [[109, "qinit-default-routines"]], "qinit routine in GeoClaw": [[109, "qinit-routine-in-geoclaw"]], "Quick start guide for storm surge modeling": [[110, "quick-start-guide-for-storm-surge-modeling"]], "Quick start guide for tsunami modeling": [[111, "quick-start-guide-for-tsunami-modeling"]], "AMR refinement criteria": [[112, "amr-refinement-criteria"]], "Flagging criteria": [[112, "flagging-criteria"]], "flag2refine": [[112, "flag2refine"]], "Richardson extrapolation": [[112, "richardson-extrapolation"]], "Specifying AMR regions": [[112, "specifying-amr-regions"]], "Implementation": [[112, "implementation"]], "Flagging criteria in GeoClaw": [[112, "flagging-criteria-in-geoclaw"]], "Regression testing": [[113, "regression-testing"]], "Running the tests": [[113, "running-the-tests"], [113, "id2"]], "Fortran codes": [[113, "fortran-codes"]], "Travis continuous integration": [[113, "travis-continuous-integration"]], "Diff tools for checking test output": [[113, "diff-tools-for-checking-test-output"]], "chardiff tool for line-by-line comparison of output files": [[113, "chardiff-tool-for-line-by-line-comparison-of-output-files"]], "imagediff tool for pixel comparison of plots": [[113, "imagediff-tool-for-pixel-comparison-of-plots"]], "Running and writing tests in PyClaw": [[113, "running-and-writing-tests-in-pyclaw"]], "Running serial tests simultaneously": [[113, "running-serial-tests-simultaneously"]], "Running a specific test": [[113, "running-a-specific-test"]], "Doctests": [[113, "doctests"]], "Writing New Tests": [[113, "writing-new-tests"]], "v5.0.0 release notes": [[114, "v5-0-0-release-notes"]], "Changes to classic, riemann, amrclaw, geoclaw, visclaw": [[114, "changes-to-classic-riemann-amrclaw-geoclaw-visclaw"]], "v5.1.0 release notes": [[115, "v5-1-0-release-notes"]], "v5.2.0 release notes": [[116, "v5-2-0-release-notes"]], "v5.2.1 release notes": [[117, "v5-2-1-release-notes"]], "v5.2.2 release notes": [[118, "v5-2-2-release-notes"]], "v5.3.0 release notes": [[119, "v5-3-0-release-notes"]], "v5.3.1 release notes": [[120, "v5-3-1-release-notes"]], "v5.4.0 release notes": [[121, "v5-4-0-release-notes"]], "Global changes": [[121, "global-changes"]], "v5.4.1 release notes": [[122, "v5-4-1-release-notes"]], "Changes to documentation": [[122, "changes-to-documentation"], [123, "changes-to-documentation"]], "v5.5.0 release notes": [[123, "v5-5-0-release-notes"]], "v5.6.0 release notes": [[124, "v5-6-0-release-notes"]], "v5.6.1 release notes": [[125, "v5-6-1-release-notes"]], "v5.7.0 release notes": [[126, "v5-7-0-release-notes"]], "Python support": [[126, "python-support"]], "v5.7.1 release notes": [[127, "v5-7-1-release-notes"]], "v5.8.0 release notes": [[128, "v5-8-0-release-notes"]], "v5.8.1 release notes": [[129, "v5-8-1-release-notes"]], "v5.8.2 release notes": [[130, "v5-8-2-release-notes"]], "v5.9.0 release notes": [[131, "v5-9-0-release-notes"]], "v5.9.1 release notes": [[132, "v5-9-1-release-notes"]], "Releases of Clawpack and release notes": [[133, "releases-of-clawpack-and-release-notes"]], "Other notes:": [[133, "other-notes"]], "Releases:": [[133, "id1"]], "Clawpack 4.x": [[133, "clawpack-4-x"]], "Checkpointing and restarting": [[134, "checkpointing-and-restarting"]], "Checkpointing a computation": [[134, "checkpointing-a-computation"]], "Restarting a computation": [[134, "restarting-a-computation"]], "Modifying the Makefile for a restart": [[134, "modifying-the-makefile-for-a-restart"]], "Output files after a restart": [[134, "output-files-after-a-restart"]], "Riemann solvers": [[135, "riemann-solvers"]], "One-dimensional Riemann solver": [[135, "one-dimensional-riemann-solver"]], "Pointwise Riemann solvers": [[135, "pointwise-riemann-solvers"]], "f-wave Riemann solvers": [[135, "f-wave-riemann-solvers"]], "2D Riemann solvers": [[135, "d-riemann-solvers"]], "Using a custom solver": [[135, "using-a-custom-solver"]], "Adding a solver to the Riemann repository": [[135, "adding-a-solver-to-the-riemann-repository"]], "Shallow water Riemann solvers in Clawpack": [[136, "shallow-water-riemann-solvers-in-clawpack"]], "One dimension": [[136, "one-dimension"]], "Two dimensions": [[136, "two-dimensions"]], "Layered shallow water equations": [[136, "layered-shallow-water-equations"]], "Potentially useful contributions (what\u2019s missing)": [[136, "potentially-useful-contributions-whats-missing"]], "Demonstrations": [[136, "demonstrations"]], "Roe": [[136, "roe"]], "HLL": [[136, "hll"]], "Ruled Rectangles": [[137, "ruled-rectangles"]], "Relation to convex polygons": [[137, "relation-to-convex-polygons"]], "Other attributes and methods": [[137, "other-attributes-and-methods"]], "ds": [[137, "ds"]], "slu": [[137, "slu"]], "bounding_box": [[137, "bounding-box"]], "mask_outside": [[137, "mask-outside"]], "read and write, and instantiating from a file": [[137, "read-and-write-and-instantiating-from-a-file"]], "make_kml": [[137, "make-kml"]], "A GeoClaw AMR flag region": [[137, "a-geoclaw-amr-flag-region"]], "A simple rectangle": [[137, "a-simple-rectangle"]], "Defining a Ruled Rectangle covering selected cells": [[137, "defining-a-ruled-rectangle-covering-selected-cells"]], "Example covering the continental shelf": [[137, "example-covering-the-continental-shelf"]], "Setting sea_level": [[138, "setting-sea-level"]], "Set Eta Init \u2013 spatially varying initial surface elevation": [[139, "set-eta-init-spatially-varying-initial-surface-elevation"]], "Default behavior, adjusting sea level by seismic deformation": [[139, "default-behavior-adjusting-sea-level-by-seismic-deformation"]], "Other use cases": [[139, "other-use-cases"]], "setaux default routines": [[140, "setaux-default-routines"]], "setaux routine in GeoClaw": [[140, "setaux-routine-in-geoclaw"]], "Set environment variables": [[141, "set-environment-variables"]], "CLAW": [[141, "claw"]], "FC": [[141, "fc"]], "Using setplot.py to specify the desired plots": [[142, "using-setplot-py-to-specify-the-desired-plots"]], "Plotting Data Objects": [[142, "plotting-data-objects"]], "Overview": [[142, "overview"]], "Specifying classic run-time parameters in setrun.py": [[143, "specifying-classic-run-time-parameters-in-setrun-py"]], "Input": [[143, "input"], [144, "input"]], "Output": [[143, "output"], [144, "output"]], "Run-time parameters": [[143, "run-time-parameters"], [144, "run-time-parameters"]], "Specifying AMRClaw run-time parameters in setrun.py": [[144, "specifying-amrclaw-run-time-parameters-in-setrun-py"]], "Special AMR parameters": [[144, "special-amr-parameters"]], "Debugging flags for additional printing": [[144, "debugging-flags-for-additional-printing"]], "Sample setrun.py module for AMRClaw": [[145, "sample-setrun-py-module-for-amrclaw"]], "Specifying GeoClaw parameters in setrun.py": [[146, "specifying-geoclaw-parameters-in-setrun-py"]], "Additional AMR parameters": [[146, "additional-amr-parameters"]], "General geo parameters": [[146, "general-geo-parameters"]], "Topography data file parameters": [[146, "topography-data-file-parameters"]], "qinit data file parameters": [[146, "qinit-data-file-parameters"]], "Force some cells to be initially dry": [[146, "force-some-cells-to-be-initially-dry"]], "Adjust sea level in some regions": [[146, "adjust-sea-level-in-some-regions"]], "AMR refinement region parameters": [[146, "amr-refinement-region-parameters"]], "Deprecated Fixedgrid output parameters": [[146, "deprecated-fixedgrid-output-parameters"]], "Fixed grid maximum monitoring / arrival times": [[146, "fixed-grid-maximum-monitoring-arrival-times"]], "Storm Specification Data": [[146, "storm-specification-data"]], "Sample setrun.py module for classic Clawpack": [[147, "sample-setrun-py-module-for-classic-clawpack"]], "Saving and sharing results": [[148, "saving-and-sharing-results"]], "Making webpages of plots": [[148, "making-webpages-of-plots"]], "Sharing your results": [[148, "sharing-your-results"]], "Jupyter notebooks": [[148, "jupyter-notebooks"]], "Source terms for shallow water on the sphere": [[149, "source-terms-for-shallow-water-on-the-sphere"]], "Compiling the Sphinx documentation locally": [[150, "compiling-the-sphinx-documentation-locally"]], "src1d default routines": [[151, "src1d-default-routines"]], "src1d routine in GeoClaw": [[151, "src1d-routine-in-geoclaw"]], "src default 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by f2py (pip)": [[160, "setting-the-fortran-compiler-to-be-used-by-f2py-pip"]], "Trouble compiling Fortran code at the command line": [[160, "trouble-compiling-fortran-code-at-the-command-line"]], "Trouble running \u201cmake .exe\u201d": [[160, "trouble-running-make-exe"]], "Trouble running \u201cmake .data\u201d": [[160, "trouble-running-make-data"]], "Trouble running \u201cmake .output\u201d": [[160, "trouble-running-make-output"]], "Trouble running \u201cmake .plots\u201d": [[160, "trouble-running-make-plots"]], "Some sources of tsunami data": [[161, "some-sources-of-tsunami-data"]], "Topography / bathymetry": [[161, "topography-bathymetry"]], "Earthquake source models": [[161, "earthquake-source-models"]], "DART buoy data": [[161, "dart-buoy-data"]], "Tide gauges": [[161, "tide-gauges"]], "User files required for the Fortran code": [[162, "user-files-required-for-the-fortran-code"]], "Specifying the initial conditions": [[162, "specifying-the-initial-conditions"]], "Specifying the Riemann solver": [[162, "specifying-the-riemann-solver"]], "Specifying boundary conditions": [[162, "specifying-boundary-conditions"]], "Specifying problem-specific data": [[162, "specifying-problem-specific-data"]], "Specifying spatially-varying data using setaux": [[162, "specifying-spatially-varying-data-using-setaux"]], "Using b4step for work to be done before each time step": [[162, "using-b4step-for-work-to-be-done-before-each-time-step"]], "Using src for source terms": [[162, "using-src-for-source-terms"]], "Using src1d for source terms with AMRClaw": [[162, "using-src1d-for-source-terms-with-amrclaw"]], "Plotting with VisIt": [[163, "plotting-with-visit"]], "Clawpack Virtual Machine": [[164, "clawpack-virtual-machine"]], "Wave-propagation algorithms": [[165, "wave-propagation-algorithms"]], "One space dimension": [[165, "one-space-dimension"]], "Godunov\u2019s method": [[165, "godunov-s-method"]], "High-resolution methods": [[165, "high-resolution-methods"]], "f-wave formulation": [[165, "f-wave-formulation"]], "Capacity functions": [[165, "capacity-functions"]], "Source terms": [[165, "source-terms"]]}, "indexentries": {"clawplotaxes (built-in class)": [[0, "ClawPlotAxes"]], "gethandle()": [[0, "gethandle"], [2, "gethandle"], [3, "gethandle"]], "new_plotitem()": [[0, "new_plotitem"]], "clawplotdata (built-in class)": [[1, "ClawPlotData"]], "clearfigures()": [[1, "clearfigures"]], "clearframes()": [[1, "clearframes"]], "getaxes()": [[1, "getaxes"]], "getfigure()": [[1, "getfigure"]], "getframe()": [[1, "getframe"], [3, "getframe"]], "getitem()": [[1, "getitem"]], "iplotclaw()": [[1, "iplotclaw"]], "new_plotfigure()": [[1, "new_plotfigure"]], "plotframe()": [[1, "plotframe"]], "printframes()": [[1, "printframes"]], "showitems()": [[1, "showitems"]], "clawplotfigure (built-in class)": [[2, "ClawPlotFigure"]], "new_plotaxes()": [[2, "new_plotaxes"]], "clawplotitem (built-in class)": [[3, "ClawPlotItem"]], "csvfault (class in clawpack.geoclaw.dtopotools)": [[30, "clawpack.geoclaw.dtopotools.CSVFault"]], "dtopography (class in clawpack.geoclaw.dtopotools)": [[30, "clawpack.geoclaw.dtopotools.DTopography"]], "fault (class in clawpack.geoclaw.dtopotools)": [[30, "clawpack.geoclaw.dtopotools.Fault"]], "mo() (clawpack.geoclaw.dtopotools.fault method)": [[30, "clawpack.geoclaw.dtopotools.Fault.Mo"]], "mo() (clawpack.geoclaw.dtopotools.subfault method)": [[30, "clawpack.geoclaw.dtopotools.SubFault.Mo"]], "mw() (clawpack.geoclaw.dtopotools.fault method)": [[30, "clawpack.geoclaw.dtopotools.Fault.Mw"]], "mw() (in module clawpack.geoclaw.dtopotools)": [[30, "clawpack.geoclaw.dtopotools.Mw"]], "siftfault (class in clawpack.geoclaw.dtopotools)": [[30, "clawpack.geoclaw.dtopotools.SiftFault"]], "subfault (class in clawpack.geoclaw.dtopotools)": [[30, "clawpack.geoclaw.dtopotools.SubFault"]], "subdividedplanefault (class in clawpack.geoclaw.dtopotools)": [[30, "clawpack.geoclaw.dtopotools.SubdividedPlaneFault"]], "tensorproductfault (class in clawpack.geoclaw.dtopotools)": [[30, "clawpack.geoclaw.dtopotools.TensorProductFault"]], "ucsbfault (class in clawpack.geoclaw.dtopotools)": [[30, "clawpack.geoclaw.dtopotools.UCSBFault"]], "calculate_geometry() (clawpack.geoclaw.dtopotools.subfault method)": [[30, "clawpack.geoclaw.dtopotools.SubFault.calculate_geometry"]], "calculate_geometry_triangles() (clawpack.geoclaw.dtopotools.subfault method)": [[30, "clawpack.geoclaw.dtopotools.SubFault.calculate_geometry_triangles"]], "centers (clawpack.geoclaw.dtopotools.subfault property)": [[30, "clawpack.geoclaw.dtopotools.SubFault.centers"]], "clawpack.geoclaw.dtopotools": [[30, "module-clawpack.geoclaw.dtopotools"]], "containing_rect() (clawpack.geoclaw.dtopotools.fault method)": [[30, "clawpack.geoclaw.dtopotools.Fault.containing_rect"]], "convert_to_standard_units() (clawpack.geoclaw.dtopotools.subfault method)": [[30, "clawpack.geoclaw.dtopotools.SubFault.convert_to_standard_units"]], "coordinate_specification (clawpack.geoclaw.dtopotools.subfault attribute)": [[30, "clawpack.geoclaw.dtopotools.SubFault.coordinate_specification"]], "corners (clawpack.geoclaw.dtopotools.subfault property)": [[30, "clawpack.geoclaw.dtopotools.SubFault.corners"]], "create_dtopo_xy() (clawpack.geoclaw.dtopotools.fault method)": [[30, "clawpack.geoclaw.dtopotools.Fault.create_dtopo_xy"]], "create_dtopography() (clawpack.geoclaw.dtopotools.fault method)": [[30, "clawpack.geoclaw.dtopotools.Fault.create_dtopography"]], "dz_at_t() (clawpack.geoclaw.dtopotools.dtopography method)": [[30, "clawpack.geoclaw.dtopotools.DTopography.dZ_at_t"]], "dz_max() (clawpack.geoclaw.dtopotools.dtopography method)": [[30, "clawpack.geoclaw.dtopotools.DTopography.dZ_max"]], "depth (clawpack.geoclaw.dtopotools.subfault attribute)": [[30, "clawpack.geoclaw.dtopotools.SubFault.depth"]], "dip (clawpack.geoclaw.dtopotools.subfault attribute)": [[30, "clawpack.geoclaw.dtopotools.SubFault.dip"]], "dynamic_slip() (clawpack.geoclaw.dtopotools.subfault method)": [[30, "clawpack.geoclaw.dtopotools.SubFault.dynamic_slip"]], "gauss_pts (clawpack.geoclaw.dtopotools.subfault property)": [[30, "clawpack.geoclaw.dtopotools.SubFault.gauss_pts"]], "latitude (clawpack.geoclaw.dtopotools.subfault attribute)": [[30, "clawpack.geoclaw.dtopotools.SubFault.latitude"]], "length (clawpack.geoclaw.dtopotools.subfault attribute)": [[30, "clawpack.geoclaw.dtopotools.SubFault.length"]], "longitude (clawpack.geoclaw.dtopotools.subfault attribute)": [[30, "clawpack.geoclaw.dtopotools.SubFault.longitude"]], "module": [[30, "module-clawpack.geoclaw.dtopotools"], [33, "module-clawpack.geoclaw.fgmax_tools"], [35, "module-clawpack.geoclaw.fgout_tools"], [48, "module-clawpack.geoclaw.util"], [60, "module-clawpack.geoclaw.kmltools"], [89, "module-clawpack.pyclaw.limiters.tvd"], [94, "module-clawpack.pyclaw.fileio.ascii"], [94, "module-clawpack.pyclaw.fileio.binary"], [94, "module-clawpack.pyclaw.fileio.netcdf"], [99, "module-clawpack.riemann.acoustics_1D_py"], [99, "module-clawpack.riemann.advection_1D_py"], [99, "module-clawpack.riemann.burgers_1D_py"], [99, "module-clawpack.riemann.euler_1D_py"], [99, "module-clawpack.riemann.shallow_1D_py"], [106, "module-clawpack.pyclaw.util"], [153, "module-clawpack.geoclaw.surge.storm"], [159, "module-clawpack.geoclaw.topotools"]], "mu (clawpack.geoclaw.dtopotools.subfault attribute)": [[30, "clawpack.geoclaw.dtopotools.SubFault.mu"]], "okada() (clawpack.geoclaw.dtopotools.subfault method)": [[30, "clawpack.geoclaw.dtopotools.SubFault.okada"]], "plot_dz_colors() (clawpack.geoclaw.dtopotools.dtopography method)": [[30, "clawpack.geoclaw.dtopotools.DTopography.plot_dZ_colors"]], "plot_dz_colors() (in module clawpack.geoclaw.dtopotools)": [[30, "clawpack.geoclaw.dtopotools.plot_dZ_colors"]], "plot_dz_contours() (clawpack.geoclaw.dtopotools.dtopography method)": [[30, "clawpack.geoclaw.dtopotools.DTopography.plot_dZ_contours"]], "plot_dz_contours() (in module clawpack.geoclaw.dtopotools)": [[30, "clawpack.geoclaw.dtopotools.plot_dZ_contours"]], "plot_subfaults() (clawpack.geoclaw.dtopotools.fault method)": [[30, "clawpack.geoclaw.dtopotools.Fault.plot_subfaults"]], "plot_subfaults_depth() (clawpack.geoclaw.dtopotools.fault method)": [[30, "clawpack.geoclaw.dtopotools.Fault.plot_subfaults_depth"]], "rake (clawpack.geoclaw.dtopotools.subfault attribute)": [[30, "clawpack.geoclaw.dtopotools.SubFault.rake"]], "read() (clawpack.geoclaw.dtopotools.csvfault method)": [[30, "clawpack.geoclaw.dtopotools.CSVFault.read"]], "read() (clawpack.geoclaw.dtopotools.dtopography method)": [[30, "clawpack.geoclaw.dtopotools.DTopography.read"]], "read() (clawpack.geoclaw.dtopotools.fault method)": [[30, "clawpack.geoclaw.dtopotools.Fault.read"]], "read() (clawpack.geoclaw.dtopotools.ucsbfault method)": [[30, "clawpack.geoclaw.dtopotools.UCSBFault.read"]], "rise_fraction() (in module clawpack.geoclaw.dtopotools)": [[30, "clawpack.geoclaw.dtopotools.rise_fraction"]], "rise_shape (clawpack.geoclaw.dtopotools.subfault attribute)": [[30, "clawpack.geoclaw.dtopotools.SubFault.rise_shape"]], "rise_time (clawpack.geoclaw.dtopotools.subfault attribute)": [[30, "clawpack.geoclaw.dtopotools.SubFault.rise_time"]], "rise_time_starting (clawpack.geoclaw.dtopotools.subfault attribute)": [[30, "clawpack.geoclaw.dtopotools.SubFault.rise_time_starting"]], "rupture_time (clawpack.geoclaw.dtopotools.subfault attribute)": [[30, "clawpack.geoclaw.dtopotools.SubFault.rupture_time"]], "rupture_type (clawpack.geoclaw.dtopotools.subfault attribute)": [[30, "clawpack.geoclaw.dtopotools.SubFault.rupture_type"]], "set_corners() (clawpack.geoclaw.dtopotools.subfault method)": [[30, "clawpack.geoclaw.dtopotools.SubFault.set_corners"]], "set_dynamic_slip() (clawpack.geoclaw.dtopotools.fault method)": [[30, "clawpack.geoclaw.dtopotools.Fault.set_dynamic_slip"]], "set_subfaults() (clawpack.geoclaw.dtopotools.siftfault method)": [[30, "clawpack.geoclaw.dtopotools.SiftFault.set_subfaults"]], "slip (clawpack.geoclaw.dtopotools.subfault attribute)": [[30, "clawpack.geoclaw.dtopotools.SubFault.slip"]], "strike (clawpack.geoclaw.dtopotools.subfault attribute)": [[30, "clawpack.geoclaw.dtopotools.SubFault.strike"]], "strike_direction() (in module clawpack.geoclaw.dtopotools)": [[30, "clawpack.geoclaw.dtopotools.strike_direction"]], "subdivide() (clawpack.geoclaw.dtopotools.subdividedplanefault method)": [[30, "clawpack.geoclaw.dtopotools.SubdividedPlaneFault.subdivide"]], "width (clawpack.geoclaw.dtopotools.subfault attribute)": [[30, "clawpack.geoclaw.dtopotools.SubFault.width"]], "write() (clawpack.geoclaw.dtopotools.dtopography method)": [[30, "clawpack.geoclaw.dtopotools.DTopography.write"]], "write() (clawpack.geoclaw.dtopotools.fault method)": [[30, "clawpack.geoclaw.dtopotools.Fault.write"]], "fgmaxgrid (class in clawpack.geoclaw.fgmax_tools)": [[33, "clawpack.geoclaw.fgmax_tools.FGmaxGrid"]], "adjust_fgmax_1d() (in module clawpack.geoclaw.fgmax_tools)": [[33, "clawpack.geoclaw.fgmax_tools.adjust_fgmax_1d"]], "bounding_box() (clawpack.geoclaw.fgmax_tools.fgmaxgrid method)": [[33, "clawpack.geoclaw.fgmax_tools.FGmaxGrid.bounding_box"]], "clawpack.geoclaw.fgmax_tools": [[33, "module-clawpack.geoclaw.fgmax_tools"]], "interp_dz() (clawpack.geoclaw.fgmax_tools.fgmaxgrid method)": [[33, "clawpack.geoclaw.fgmax_tools.FGmaxGrid.interp_dz"]], "ps4_to_arrays() (clawpack.geoclaw.fgmax_tools.fgmaxgrid method)": [[33, "clawpack.geoclaw.fgmax_tools.FGmaxGrid.ps4_to_arrays"]], "read_fgmax_grids_data() (clawpack.geoclaw.fgmax_tools.fgmaxgrid method)": [[33, "clawpack.geoclaw.fgmax_tools.FGmaxGrid.read_fgmax_grids_data"]], "read_output() (clawpack.geoclaw.fgmax_tools.fgmaxgrid method)": [[33, "clawpack.geoclaw.fgmax_tools.FGmaxGrid.read_output"]], "write_to_fgmax_data() (clawpack.geoclaw.fgmax_tools.fgmaxgrid method)": [[33, "clawpack.geoclaw.fgmax_tools.FGmaxGrid.write_to_fgmax_data"]], "b (clawpack.geoclaw.fgout_tools.fgoutframe property)": [[35, "clawpack.geoclaw.fgout_tools.FGoutFrame.B"]], "fgoutframe (class in clawpack.geoclaw.fgout_tools)": [[35, "clawpack.geoclaw.fgout_tools.FGoutFrame"]], "fgoutgrid (class in clawpack.geoclaw.fgout_tools)": [[35, "clawpack.geoclaw.fgout_tools.FGoutGrid"]], "x (clawpack.geoclaw.fgout_tools.fgoutgrid property)": [[35, "clawpack.geoclaw.fgout_tools.FGoutGrid.X"], [35, "clawpack.geoclaw.fgout_tools.FGoutGrid.x"]], "y (clawpack.geoclaw.fgout_tools.fgoutgrid property)": [[35, "clawpack.geoclaw.fgout_tools.FGoutGrid.Y"], [35, "clawpack.geoclaw.fgout_tools.FGoutGrid.y"]], "clawpack.geoclaw.fgout_tools": [[35, "module-clawpack.geoclaw.fgout_tools"]], "eta (clawpack.geoclaw.fgout_tools.fgoutframe property)": [[35, "clawpack.geoclaw.fgout_tools.FGoutFrame.eta"]], "extent_centers (clawpack.geoclaw.fgout_tools.fgoutgrid property)": [[35, "clawpack.geoclaw.fgout_tools.FGoutGrid.extent_centers"]], "extent_edges (clawpack.geoclaw.fgout_tools.fgoutgrid property)": [[35, "clawpack.geoclaw.fgout_tools.FGoutGrid.extent_edges"]], "get_as_array() (in module clawpack.geoclaw.fgout_tools)": [[35, "clawpack.geoclaw.fgout_tools.get_as_array"]], "h (clawpack.geoclaw.fgout_tools.fgoutframe property)": [[35, "clawpack.geoclaw.fgout_tools.FGoutFrame.h"]], "hss (clawpack.geoclaw.fgout_tools.fgoutframe property)": [[35, "clawpack.geoclaw.fgout_tools.FGoutFrame.hss"]], "hu (clawpack.geoclaw.fgout_tools.fgoutframe property)": [[35, "clawpack.geoclaw.fgout_tools.FGoutFrame.hu"]], "hv (clawpack.geoclaw.fgout_tools.fgoutframe property)": [[35, "clawpack.geoclaw.fgout_tools.FGoutFrame.hv"]], "make_fgout_fcn_xy() (in module clawpack.geoclaw.fgout_tools)": [[35, "clawpack.geoclaw.fgout_tools.make_fgout_fcn_xy"]], "make_fgout_fcn_xyt() (in module clawpack.geoclaw.fgout_tools)": [[35, "clawpack.geoclaw.fgout_tools.make_fgout_fcn_xyt"]], "print_netcdf_info() (in module clawpack.geoclaw.fgout_tools)": [[35, "clawpack.geoclaw.fgout_tools.print_netcdf_info"]], "read_fgout_grids_data() (clawpack.geoclaw.fgout_tools.fgoutgrid method)": [[35, "clawpack.geoclaw.fgout_tools.FGoutGrid.read_fgout_grids_data"]], "read_frame() (clawpack.geoclaw.fgout_tools.fgoutgrid method)": [[35, "clawpack.geoclaw.fgout_tools.FGoutGrid.read_frame"]], "read_netcdf() (in module clawpack.geoclaw.fgout_tools)": [[35, "clawpack.geoclaw.fgout_tools.read_netcdf"]], "read_netcdf_arrays() (in module clawpack.geoclaw.fgout_tools)": [[35, "clawpack.geoclaw.fgout_tools.read_netcdf_arrays"]], "s (clawpack.geoclaw.fgout_tools.fgoutframe property)": [[35, "clawpack.geoclaw.fgout_tools.FGoutFrame.s"]], "set_plotdata() (clawpack.geoclaw.fgout_tools.fgoutgrid method)": [[35, "clawpack.geoclaw.fgout_tools.FGoutGrid.set_plotdata"]], "u (clawpack.geoclaw.fgout_tools.fgoutframe property)": [[35, "clawpack.geoclaw.fgout_tools.FGoutFrame.u"]], "v (clawpack.geoclaw.fgout_tools.fgoutframe property)": [[35, "clawpack.geoclaw.fgout_tools.FGoutFrame.v"]], "write_netcdf() (in module clawpack.geoclaw.fgout_tools)": [[35, "clawpack.geoclaw.fgout_tools.write_netcdf"]], "write_to_fgout_data() (clawpack.geoclaw.fgout_tools.fgoutgrid method)": [[35, "clawpack.geoclaw.fgout_tools.FGoutGrid.write_to_fgout_data"]], "bearing() (in module clawpack.geoclaw.util)": [[48, "clawpack.geoclaw.util.bearing"]], "clawpack.geoclaw.util": [[48, "module-clawpack.geoclaw.util"]], "dist_latlong2meters() (in module clawpack.geoclaw.util)": [[48, "clawpack.geoclaw.util.dist_latlong2meters"]], "dist_meters2latlong() (in module clawpack.geoclaw.util)": [[48, "clawpack.geoclaw.util.dist_meters2latlong"]], "dms2decimal() (in module clawpack.geoclaw.util)": [[48, "clawpack.geoclaw.util.dms2decimal"]], "fetch_noaa_tide_data() (in module clawpack.geoclaw.util)": [[48, "clawpack.geoclaw.util.fetch_noaa_tide_data"]], "haversine() (in module clawpack.geoclaw.util)": [[48, "clawpack.geoclaw.util.haversine"]], "inv_haversine() (in module clawpack.geoclaw.util)": [[48, "clawpack.geoclaw.util.inv_haversine"]], "box2kml() (in module clawpack.geoclaw.kmltools)": [[60, "clawpack.geoclaw.kmltools.box2kml"]], "clawpack.geoclaw.kmltools": [[60, "module-clawpack.geoclaw.kmltools"]], "deg2dms() (in module clawpack.geoclaw.kmltools)": [[60, "clawpack.geoclaw.kmltools.deg2dms"]], "dtopo2kml() (in module clawpack.geoclaw.kmltools)": [[60, "clawpack.geoclaw.kmltools.dtopo2kml"]], "f2s() (in module clawpack.geoclaw.kmltools)": [[60, "clawpack.geoclaw.kmltools.f2s"]], "fgmax2kml() (in module clawpack.geoclaw.kmltools)": [[60, "clawpack.geoclaw.kmltools.fgmax2kml"]], "fgout2kml() (in module clawpack.geoclaw.kmltools)": [[60, "clawpack.geoclaw.kmltools.fgout2kml"]], "gauges2kml() (in module clawpack.geoclaw.kmltools)": [[60, "clawpack.geoclaw.kmltools.gauges2kml"]], "kml_build_colorbar() (in module clawpack.geoclaw.kmltools)": [[60, "clawpack.geoclaw.kmltools.kml_build_colorbar"]], "kml_cb() (in module clawpack.geoclaw.kmltools)": [[60, "clawpack.geoclaw.kmltools.kml_cb"]], "kml_png() (in module clawpack.geoclaw.kmltools)": [[60, "clawpack.geoclaw.kmltools.kml_png"]], "kml_timespan() (in module clawpack.geoclaw.kmltools)": [[60, "clawpack.geoclaw.kmltools.kml_timespan"]], "line2kml() (in module clawpack.geoclaw.kmltools)": [[60, "clawpack.geoclaw.kmltools.line2kml"]], "make_input_data_kmls() (in module clawpack.geoclaw.kmltools)": [[60, "clawpack.geoclaw.kmltools.make_input_data_kmls"]], "pcolorcells_for_kml() (in module clawpack.geoclaw.kmltools)": [[60, "clawpack.geoclaw.kmltools.pcolorcells_for_kml"]], "png2kml() (in module clawpack.geoclaw.kmltools)": [[60, "clawpack.geoclaw.kmltools.png2kml"]], "poly2kml() (in module clawpack.geoclaw.kmltools)": [[60, "clawpack.geoclaw.kmltools.poly2kml"]], "quad2kml() (in module clawpack.geoclaw.kmltools)": [[60, "clawpack.geoclaw.kmltools.quad2kml"]], "regions2kml() (in module clawpack.geoclaw.kmltools)": [[60, "clawpack.geoclaw.kmltools.regions2kml"]], "topo2kml() (in module clawpack.geoclaw.kmltools)": [[60, "clawpack.geoclaw.kmltools.topo2kml"]], "topo2kmz() (in module clawpack.geoclaw.kmltools)": [[60, "clawpack.geoclaw.kmltools.topo2kmz"]], "controller (class in clawpack.pyclaw.controller)": [[88, "clawpack.pyclaw.controller.Controller"]], "f_file_name (clawpack.pyclaw.controller.controller attribute)": [[88, "clawpack.pyclaw.controller.Controller.F_file_name"]], "f_path (clawpack.pyclaw.controller.controller property)": [[88, "clawpack.pyclaw.controller.Controller.F_path"]], "check_validity() (clawpack.pyclaw.controller.controller method)": [[88, "clawpack.pyclaw.controller.Controller.check_validity"]], "compute_f (clawpack.pyclaw.controller.controller attribute)": [[88, "clawpack.pyclaw.controller.Controller.compute_F"]], "compute_p (clawpack.pyclaw.controller.controller attribute)": [[88, "clawpack.pyclaw.controller.Controller.compute_p"]], "file_prefix_p (clawpack.pyclaw.controller.controller attribute)": [[88, "clawpack.pyclaw.controller.Controller.file_prefix_p"]], "frames (clawpack.pyclaw.controller.controller attribute)": [[88, "clawpack.pyclaw.controller.Controller.frames"]], "keep_copy (clawpack.pyclaw.controller.controller attribute)": [[88, "clawpack.pyclaw.controller.Controller.keep_copy"]], "nstepout (clawpack.pyclaw.controller.controller attribute)": [[88, "clawpack.pyclaw.controller.Controller.nstepout"]], "num_output_times (clawpack.pyclaw.controller.controller attribute)": [[88, "clawpack.pyclaw.controller.Controller.num_output_times"]], "out_times (clawpack.pyclaw.controller.controller attribute)": [[88, "clawpack.pyclaw.controller.Controller.out_times"]], "outdir (clawpack.pyclaw.controller.controller attribute)": [[88, "clawpack.pyclaw.controller.Controller.outdir"]], "outdir_p (clawpack.pyclaw.controller.controller property)": [[88, "clawpack.pyclaw.controller.Controller.outdir_p"]], "output_file_prefix (clawpack.pyclaw.controller.controller attribute)": [[88, "clawpack.pyclaw.controller.Controller.output_file_prefix"]], "output_format (clawpack.pyclaw.controller.controller attribute)": [[88, "clawpack.pyclaw.controller.Controller.output_format"]], "output_options (clawpack.pyclaw.controller.controller attribute)": [[88, "clawpack.pyclaw.controller.Controller.output_options"]], "output_style (clawpack.pyclaw.controller.controller attribute)": [[88, "clawpack.pyclaw.controller.Controller.output_style"]], "overwrite (clawpack.pyclaw.controller.controller attribute)": [[88, "clawpack.pyclaw.controller.Controller.overwrite"]], "plot() (clawpack.pyclaw.controller.controller method)": [[88, "clawpack.pyclaw.controller.Controller.plot"]], "plotdata (clawpack.pyclaw.controller.controller attribute)": [[88, "clawpack.pyclaw.controller.Controller.plotdata"]], "run() (clawpack.pyclaw.controller.controller method)": [[88, "clawpack.pyclaw.controller.Controller.run"]], "rundir (clawpack.pyclaw.controller.controller attribute)": [[88, "clawpack.pyclaw.controller.Controller.rundir"]], "runmake (clawpack.pyclaw.controller.controller attribute)": [[88, "clawpack.pyclaw.controller.Controller.runmake"]], "savecode (clawpack.pyclaw.controller.controller attribute)": [[88, "clawpack.pyclaw.controller.Controller.savecode"]], "solver (clawpack.pyclaw.controller.controller attribute)": [[88, "clawpack.pyclaw.controller.Controller.solver"]], "tfinal (clawpack.pyclaw.controller.controller attribute)": [[88, "clawpack.pyclaw.controller.Controller.tfinal"]], "verbosity (clawpack.pyclaw.controller.controller property)": [[88, "clawpack.pyclaw.controller.Controller.verbosity"]], "viewable_attributes (clawpack.pyclaw.controller.controller attribute)": [[88, "clawpack.pyclaw.controller.Controller.viewable_attributes"]], "write_aux_always (clawpack.pyclaw.controller.controller attribute)": [[88, "clawpack.pyclaw.controller.Controller.write_aux_always"]], "write_aux_init (clawpack.pyclaw.controller.controller attribute)": [[88, "clawpack.pyclaw.controller.Controller.write_aux_init"]], "xclawcmd (clawpack.pyclaw.controller.controller attribute)": [[88, "clawpack.pyclaw.controller.Controller.xclawcmd"]], "xclawerr (clawpack.pyclaw.controller.controller attribute)": [[88, "clawpack.pyclaw.controller.Controller.xclawerr"]], "xclawout (clawpack.pyclaw.controller.controller attribute)": [[88, "clawpack.pyclaw.controller.Controller.xclawout"]], "xdir (clawpack.pyclaw.controller.controller attribute)": [[88, "clawpack.pyclaw.controller.Controller.xdir"]], "arora_roe() (in module clawpack.pyclaw.limiters.tvd)": [[89, "clawpack.pyclaw.limiters.tvd.arora_roe"]], "beta_limiter() (in module clawpack.pyclaw.limiters.tvd)": [[89, "clawpack.pyclaw.limiters.tvd.beta_limiter"]], "cada_torrilhon_limiter() (in module clawpack.pyclaw.limiters.tvd)": [[89, "clawpack.pyclaw.limiters.tvd.cada_torrilhon_limiter"]], "cada_torrilhon_limiter_nonlinear() (in module clawpack.pyclaw.limiters.tvd)": [[89, "clawpack.pyclaw.limiters.tvd.cada_torrilhon_limiter_nonlinear"]], "cfl_superbee() (in module clawpack.pyclaw.limiters.tvd)": [[89, "clawpack.pyclaw.limiters.tvd.cfl_superbee"]], "cfl_superbee_theta() (in module clawpack.pyclaw.limiters.tvd)": [[89, "clawpack.pyclaw.limiters.tvd.cfl_superbee_theta"]], "clawpack.pyclaw.limiters.tvd": [[89, "module-clawpack.pyclaw.limiters.tvd"]], "hyperbee_limiter() (in module clawpack.pyclaw.limiters.tvd)": [[89, "clawpack.pyclaw.limiters.tvd.hyperbee_limiter"]], "limit() (in module clawpack.pyclaw.limiters.tvd)": [[89, "clawpack.pyclaw.limiters.tvd.limit"]], "mc_limiter() (in module clawpack.pyclaw.limiters.tvd)": [[89, "clawpack.pyclaw.limiters.tvd.mc_limiter"]], "minmod_limiter() (in module clawpack.pyclaw.limiters.tvd)": [[89, "clawpack.pyclaw.limiters.tvd.minmod_limiter"]], "superbee_limiter() (in module clawpack.pyclaw.limiters.tvd)": [[89, "clawpack.pyclaw.limiters.tvd.superbee_limiter"]], 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"clawpack.pyclaw.geometry.Grid.gauge_dir_name"]], "gauge_file_names (clawpack.pyclaw.geometry.grid attribute)": [[91, "clawpack.pyclaw.geometry.Grid.gauge_file_names"]], "gauge_files (clawpack.pyclaw.geometry.grid attribute)": [[91, "clawpack.pyclaw.geometry.Grid.gauge_files"]], "gauges (clawpack.pyclaw.geometry.grid attribute)": [[91, "clawpack.pyclaw.geometry.Grid.gauges"]], "get_dim_attribute() (clawpack.pyclaw.geometry.grid method)": [[91, "clawpack.pyclaw.geometry.Grid.get_dim_attribute"]], "get_dim_attribute() (clawpack.pyclaw.geometry.patch method)": [[91, "clawpack.pyclaw.geometry.Patch.get_dim_attribute"]], "grid (clawpack.pyclaw.geometry.domain property)": [[91, "clawpack.pyclaw.geometry.Domain.grid"]], "kernel_language (clawpack.petclaw.geometry.domain attribute)": [[91, "clawpack.petclaw.geometry.Domain.kernel_language"]], "level (clawpack.pyclaw.geometry.patch attribute)": [[91, "clawpack.pyclaw.geometry.Patch.level"]], "lower_global (clawpack.pyclaw.geometry.patch property)": [[91, "clawpack.pyclaw.geometry.Patch.lower_global"]], "mthlim (clawpack.petclaw.geometry.domain attribute)": [[91, "clawpack.petclaw.geometry.Domain.mthlim"]], "name (clawpack.pyclaw.geometry.patch property)": [[91, "clawpack.pyclaw.geometry.Patch.name"]], "nodes (clawpack.pyclaw.geometry.dimension property)": [[91, "clawpack.pyclaw.geometry.Dimension.nodes"]], "nodes_with_ghost() (clawpack.pyclaw.geometry.dimension method)": [[91, "clawpack.pyclaw.geometry.Dimension.nodes_with_ghost"]], "num_cells_global (clawpack.pyclaw.geometry.patch property)": [[91, "clawpack.pyclaw.geometry.Patch.num_cells_global"]], "num_dim (clawpack.pyclaw.geometry.domain property)": [[91, "clawpack.pyclaw.geometry.Domain.num_dim"]], "num_dim (clawpack.pyclaw.geometry.grid property)": [[91, "clawpack.pyclaw.geometry.Grid.num_dim"]], "num_dim (clawpack.pyclaw.geometry.patch property)": [[91, "clawpack.pyclaw.geometry.Patch.num_dim"]], "order (clawpack.petclaw.geometry.domain attribute)": [[91, 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100, 103, 112, 121, 123, 126, 128, 139, 142, 144, 156, 157, 162], "edg": [3, 6, 15, 16, 27, 30, 32, 33, 34, 35, 39, 60, 72, 91, 99, 135, 137, 140, 144, 145, 147, 162], "come": [3, 28, 79, 81, 90, 96, 101, 119, 157, 162], "parent": [3, 27, 91, 103, 106], "integ": [3, 32, 33, 34, 45, 52, 60, 65, 67, 79, 86, 100, 112, 122, 125, 135, 143, 146, 153, 159], "compon": [3, 16, 20, 22, 25, 37, 45, 58, 59, 68, 74, 78, 98, 100, 102, 103, 112, 119, 128, 136, 143, 144, 145, 157, 162], "correspond": [3, 6, 12, 23, 25, 27, 30, 34, 35, 45, 48, 49, 54, 55, 56, 60, 68, 72, 79, 85, 89, 91, 94, 95, 98, 100, 103, 112, 113, 135, 137, 138, 143, 144, 145, 146, 147, 153, 157, 161, 162], "appli": [3, 4, 5, 6, 13, 16, 25, 30, 49, 52, 54, 65, 67, 72, 79, 81, 89, 91, 94, 101, 112, 134, 143, 146, 162], "comput": [3, 4, 5, 6, 13, 16, 17, 27, 29, 30, 32, 33, 34, 35, 40, 45, 48, 52, 54, 59, 60, 61, 63, 69, 72, 78, 79, 81, 86, 88, 91, 93, 94, 95, 96, 101, 105, 108, 110, 112, 115, 116, 120, 121, 125, 128, 131, 135, 139, 143, 145, 146, 147, 154, 157, 162, 165], "signatur": [3, 86, 89, 91, 92, 94, 99, 153], "hold": [3, 35, 81, 105, 112], "current": [3, 5, 13, 14, 20, 22, 24, 27, 28, 29, 30, 32, 35, 39, 40, 42, 45, 46, 49, 54, 55, 56, 58, 59, 60, 61, 68, 70, 74, 79, 81, 91, 94, 95, 96, 101, 103, 106, 108, 112, 113, 120, 122, 123, 134, 138, 142, 143, 144, 145, 146, 147, 149, 153, 154, 157, 159, 161], "afteritem": [3, 27], "afterpatch": [3, 27], "There": [3, 6, 13, 22, 34, 37, 41, 52, 55, 56, 63, 67, 72, 74, 81, 82, 95, 102, 110, 122, 123, 142, 143, 154, 155, 162, 164], "calcul": [3, 5, 6, 27, 30, 33, 35, 46, 48, 68, 72, 79, 91, 99, 101, 116, 121, 159], "cd": [3, 13, 28, 36, 37, 38, 53, 55, 56, 58, 59, 81, 90, 93, 96, 102, 113, 155], "On": [3, 5, 13, 52, 73, 82, 122, 132, 137, 141, 162], "ylower": [3, 22, 27, 40, 86, 123, 145, 157, 159], "patchno": [3, 27], "out": [3, 16, 24, 26, 29, 30, 32, 34, 35, 36, 37, 40, 45, 46, 51, 53, 54, 55, 56, 59, 60, 61, 62, 63, 68, 72, 79, 82, 83, 85, 86, 88, 94, 95, 96, 97, 100, 105, 107, 108, 110, 113, 121, 123, 125, 126, 135, 137, 144, 145, 147, 153, 159, 160], "lower": [3, 22, 30, 32, 33, 39, 54, 67, 74, 91, 96, 137, 139, 143, 145, 147, 157, 159, 161], "left": [3, 5, 10, 13, 16, 18, 25, 27, 32, 54, 74, 81, 91, 98, 99, 105, 122, 128, 131, 132, 133, 134, 135, 138, 144, 157, 159, 161, 165], "mappedgrid": [3, 68], "map": [3, 16, 29, 30, 40, 60, 67, 68, 79, 83, 86, 91, 93, 98, 112, 119, 123, 128, 136, 159, 165], "mapc2p": [3, 25, 27, 68, 86, 91, 128], "underli": [3, 52, 121], "requir": [3, 4, 16, 20, 22, 25, 27, 30, 32, 34, 35, 36, 37, 41, 46, 48, 49, 56, 59, 67, 68, 72, 75, 78, 81, 82, 85, 86, 91, 94, 97, 98, 101, 102, 103, 105, 106, 107, 112, 113, 115, 116, 119, 121, 124, 126, 128, 131, 135, 136, 137, 142, 143, 144, 145, 146, 147, 153, 154, 157, 160, 163, 165], "depend": [3, 13, 16, 28, 29, 30, 32, 35, 36, 37, 41, 42, 47, 49, 52, 63, 65, 68, 72, 79, 84, 94, 99, 100, 101, 106, 108, 112, 123, 139, 144, 146, 159, 160, 162, 165], "summar": [3, 28, 31, 112, 114, 162], "plotstyl": [3, 45, 79, 142], "anyth": [3, 6, 28, 29, 59, 64, 113, 123], "valid": [3, 49, 72, 88, 95, 100, 103, 121, 146, 153, 154, 159], "fmt": 3, "group": [3, 13, 24, 28, 30, 49, 90, 94, 96, 104, 120, 135], "solid": [3, 16, 52, 72, 98, 142, 143, 145, 147], "dash": [3, 96], "o": [3, 5, 17, 39, 40, 41, 67, 69, 79, 82, 83, 86, 94, 95, 104, 123, 145, 159, 162], "circl": [3, 48, 79], "bo": 3, "blue": [3, 11, 40, 45, 60, 67, 79, 137, 159], "though": [3, 40, 75, 153, 157], "also": [3, 4, 5, 6, 7, 8, 9, 11, 12, 16, 17, 18, 20, 22, 23, 24, 25, 28, 29, 30, 32, 33, 34, 35, 36, 37, 38, 39, 40, 42, 43, 44, 45, 48, 49, 52, 53, 54, 55, 56, 57, 58, 59, 60, 61, 63, 64, 67, 68, 72, 73, 74, 75, 78, 79, 81, 85, 87, 88, 91, 93, 94, 95, 96, 98, 99, 100, 101, 102, 103, 104, 105, 106, 107, 108, 109, 110, 111, 112, 113, 115, 120, 121, 122, 123, 124, 125, 126, 127, 128, 129, 130, 131, 132, 133, 134, 135, 136, 137, 138, 139, 141, 143, 144, 145, 146, 147, 148, 151, 152, 153, 154, 155, 156, 157, 159, 160, 161, 162, 164, 165], "overrul": 3, "r": [3, 4, 6, 17, 45, 48, 53, 55, 67, 68, 71, 79, 85, 89, 96, 98, 135, 137, 142, 159, 165], "ff0000": [3, 60], "No": [3, 41, 52, 56, 68, 91, 101, 129, 135, 143, 146, 160], "extra": [3, 52, 136], "give": [3, 6, 9, 10, 13, 16, 24, 28, 30, 32, 33, 34, 36, 37, 45, 53, 60, 61, 67, 69, 72, 73, 74, 79, 81, 96, 97, 101, 113, 116, 120, 121, 125, 128, 137, 143, 146, 157, 159, 161], "polygon": [3, 7, 39, 52, 60, 126, 159], "curv": [3, 45, 78, 137], "fill_between": 3, "plot_var2": 3, "zero": [3, 16, 30, 32, 40, 42, 45, 60, 68, 69, 85, 98, 99, 103, 105, 128, 137, 138], "fill_wher": 3, "plotitem": [3, 27, 45, 79, 142], "mean": [3, 13, 22, 28, 32, 40, 45, 49, 53, 59, 68, 69, 95, 96, 112, 135, 138, 143, 145, 147, 161], "map_2d_to_1d": 3, "In": [3, 5, 6, 8, 11, 12, 15, 16, 19, 20, 22, 27, 30, 32, 34, 39, 42, 45, 46, 49, 52, 53, 54, 55, 56, 59, 60, 61, 63, 64, 67, 68, 69, 71, 72, 74, 75, 79, 80, 81, 85, 86, 91, 93, 94, 95, 96, 97, 98, 99, 101, 103, 106, 108, 109, 110, 112, 115, 116, 119, 120, 121, 123, 124, 128, 132, 134, 135, 137, 139, 140, 141, 143, 144, 146, 149, 151, 152, 157, 159, 160, 162, 165], "about": [3, 5, 7, 13, 14, 16, 22, 25, 33, 34, 35, 36, 37, 41, 48, 49, 54, 56, 60, 63, 65, 68, 74, 80, 82, 85, 93, 94, 96, 101, 108, 113, 120, 124, 126, 131, 132, 135, 142, 144, 145, 146, 157, 160, 162, 165], "j": [3, 4, 5, 15, 17, 20, 22, 27, 40, 53, 60, 67, 68, 74, 81, 93, 94, 112, 115, 116, 139, 140], "v": [3, 16, 25, 29, 30, 32, 34, 35, 48, 61, 64, 113, 120, 144, 157], "radiu": [3, 146, 153, 154, 159], "q0_vs_radiu": 3, "convert": [3, 22, 25, 30, 33, 35, 43, 48, 52, 59, 60, 63, 72, 75, 86, 93, 98, 106, 107, 123, 126, 132, 143, 144, 153, 157, 161], "numpi": [3, 13, 30, 32, 34, 35, 40, 48, 67, 82, 84, 85, 86, 88, 91, 98, 103, 104, 105, 107, 113, 136, 137, 145, 159, 160], "sqrt": [3, 32, 35, 65, 85, 98, 99, 105, 145], "q0": [3, 98], "work": [3, 5, 8, 13, 16, 19, 20, 22, 24, 25, 26, 28, 29, 32, 34, 36, 37, 41, 46, 49, 52, 53, 54, 55, 56, 57, 58, 59, 60, 67, 68, 71, 72, 73, 79, 82, 83, 84, 85, 87, 88, 89, 93, 94, 95, 96, 99, 101, 102, 107, 108, 110, 111, 112, 113, 117, 118, 119, 120, 121, 122, 123, 126, 128, 129, 133, 135, 141, 142, 143, 144, 148, 154, 157, 160, 164], "symbol": [3, 68, 108], "best": [3, 4, 16, 22, 26, 28, 34, 42, 52, 54, 56, 57, 63, 69, 71, 73, 78, 79, 94, 98, 110, 111, 112, 113, 123, 133, 135, 146, 150, 153, 157, 162], "descript": [3, 4, 6, 9, 22, 23, 25, 30, 35, 60, 68, 72, 75, 78, 93, 94, 106, 110, 112, 135, 136, 146, 153, 157, 165], "celledges_show": [3, 22], "draw": 3, "amr_celledges_show": 3, "level": [3, 6, 7, 16, 23, 27, 29, 32, 34, 39, 40, 45, 46, 47, 48, 49, 52, 55, 56, 58, 59, 68, 69, 73, 74, 86, 88, 91, 93, 94, 95, 101, 108, 109, 112, 113, 115, 116, 120, 121, 123, 126, 134, 137, 138, 141, 143, 144, 145, 147, 156, 157, 159, 161, 162], "patchedges_show": [3, 22], "mostli": [3, 78, 93, 126], "contour_level": [3, 159], "three": [3, 13, 17, 22, 30, 32, 35, 49, 52, 64, 68, 72, 96, 100, 106, 113, 137, 143, 146, 157, 159, 162], "contour_nlevel": 3, "contour_min": 3, "minimum": [3, 32, 45, 52, 72, 105, 121, 146, 159], "contour_max": 3, "maximum": [3, 22, 30, 32, 33, 34, 46, 68, 69, 101, 105, 112, 115, 116, 123, 126, 143, 144, 145, 147, 153, 154], "contour_color": 3, "specif": [3, 5, 12, 22, 28, 30, 45, 46, 48, 52, 53, 59, 62, 64, 65, 74, 83, 84, 86, 88, 93, 94, 95, 99, 100, 106, 110, 121, 122, 123, 126, 142, 143, 144, 145, 147, 154, 157], "b": [3, 5, 17, 28, 30, 32, 33, 34, 35, 40, 45, 53, 55, 56, 65, 69, 79, 101, 112, 119, 126, 137, 138, 139, 146, 159, 161], "0000ff": [3, 60], "colormap": [3, 30, 40, 47, 52, 67, 68, 78, 80, 120, 126, 159], "amr_contour_color": 3, "As": [3, 37, 40, 46, 49, 55, 56, 60, 61, 85, 105, 107, 111, 115, 126, 135, 136, 139, 146, 149, 155, 162], "black": [3, 45], "subsequ": [3, 10, 68], "both": [3, 16, 28, 30, 33, 34, 35, 36, 37, 39, 40, 45, 49, 54, 57, 59, 64, 67, 68, 72, 74, 86, 94, 95, 96, 101, 102, 112, 113, 119, 120, 123, 126, 131, 135, 136, 137, 139, 143, 144, 145, 147, 151, 157, 162], "fine": [3, 32, 33, 34, 40, 55, 71, 75, 93, 98, 112, 121, 128, 137, 139, 143, 144, 146, 157, 162], "coars": [3, 32, 34, 52, 112, 121, 128, 143, 157, 162], "anoth": [3, 22, 34, 40, 45, 52, 59, 60, 74, 78, 82, 90, 101, 104, 113, 123, 153, 162], "refin": [3, 4, 5, 7, 8, 17, 22, 34, 46, 49, 52, 53, 54, 67, 68, 74, 75, 85, 121, 123, 124, 126, 128, 137, 139, 142, 143, 144, 145, 156, 157, 162], "region": [3, 6, 7, 13, 16, 22, 32, 34, 39, 40, 46, 49, 50, 52, 60, 65, 69, 72, 75, 110, 123, 126, 128, 138, 139, 144, 145, 149, 157, 159], "lack": 3, "hidden": [3, 63, 79], "blank": [3, 60, 153], "coarser": [3, 16, 54, 121, 139, 143, 144, 162], "easili": [3, 13, 28, 32, 52, 55, 68, 79, 86, 91, 102, 106, 113, 126, 148], "contour_show": 3, "commonli": [3, 68, 79, 81], "amr_contour_show": 3, "determin": [3, 5, 6, 30, 32, 35, 40, 45, 46, 49, 51, 52, 55, 60, 69, 72, 79, 89, 91, 94, 99, 103, 108, 112, 116, 120, 121, 134, 137, 138, 142, 143, 144, 146, 159, 162], "whether": [3, 6, 13, 16, 22, 48, 54, 57, 59, 61, 62, 63, 68, 83, 91, 94, 95, 99, 100, 101, 112, 113, 121, 135, 137, 143, 144, 146, 159], "view": [3, 4, 22, 34, 36, 37, 45, 46, 52, 54, 55, 60, 74, 78, 80, 81, 85, 96, 102, 107, 119, 123, 148, 150], "finest": [3, 32, 34, 40, 45, 69, 123, 156, 159], "contour_kwarg": [3, 159], "pcolor_cmap": [3, 52], "pcolor_cmin": 3, "pcolor_cmax": 3, "thei": [3, 5, 6, 13, 16, 24, 27, 28, 30, 32, 34, 39, 40, 45, 49, 52, 55, 56, 59, 60, 61, 64, 67, 68, 74, 78, 91, 93, 98, 101, 106, 112, 113, 121, 128, 139, 142, 146, 149, 153, 157, 159, 162], "chosen": [3, 29, 32, 39, 40, 52, 54, 67, 105, 112, 128, 138, 144], "vari": [3, 15, 17, 25, 30, 40, 46, 54, 65, 69, 98, 100, 119, 126, 135, 136, 138, 140, 144, 146, 165], "yield": 3, "veri": [3, 5, 16, 22, 49, 52, 56, 57, 60, 72, 79, 83, 86, 94, 95, 96, 97, 98, 101, 113, 116, 120, 131, 137, 139, 143, 154, 157], "confus": [3, 54, 59, 108, 128, 135], "add_colorbar": [3, 30, 159], "ad": [3, 12, 16, 20, 22, 24, 25, 27, 29, 32, 34, 35, 42, 45, 48, 54, 55, 56, 59, 60, 61, 65, 68, 69, 72, 79, 84, 86, 89, 91, 92, 95, 96, 108, 109, 110, 112, 115, 116, 117, 118, 119, 120, 121, 122, 123, 124, 125, 126, 127, 129, 131, 132, 134, 139, 143, 144, 146, 149, 153, 156, 159, 163], "imshow_cmap": 3, "imshow_cmin": 3, "imshow_cmax": 3, "relat": [3, 7, 22, 24, 55, 75, 99, 110, 122, 126, 128, 138], "pre": [3, 13, 33, 56, 87, 94], "pend": 3, "amr_": [3, 7], "whose": [3, 79, 86, 98, 99, 139, 143, 144, 159], "origin": [3, 6, 13, 16, 20, 28, 30, 34, 35, 45, 53, 55, 67, 73, 74, 86, 101, 106, 115, 121, 128, 134, 144, 145, 146, 147, 159], "hand": [3, 5, 18, 19, 20, 65, 85, 113, 131, 132, 137], "higher": [3, 6, 52, 91, 101, 102, 112, 126, 135, 137, 138, 139], "shorter": [3, 112, 159], "last": [3, 18, 27, 32, 34, 56, 58, 79, 85, 86, 98, 105, 120, 131, 132, 143, 153], "repeatedli": [3, 96, 102, 144], "finer": [3, 7, 32, 52, 112, 115, 116, 137, 143, 144], "celledg": 3, "colorbar_shrink": [3, 30], "colorbar_label": 3, "colorbar_tick": 3, "colorbar_tick_label": 3, "colorbar_extend": [3, 132], "colorbar_kwarg": [3, 123], "stand": [4, 128], "conserv": [4, 5, 6, 17, 95, 101, 103, 124, 136, 162, 165], "law": [4, 17, 60, 146, 165], "packag": [4, 25, 28, 29, 36, 37, 52, 56, 57, 64, 74, 75, 78, 82, 83, 85, 91, 93, 95, 97, 98, 100, 102, 105, 107, 108, 125, 126, 160, 163], "wa": [4, 5, 6, 14, 19, 20, 25, 29, 30, 32, 33, 34, 35, 40, 49, 51, 55, 56, 63, 65, 67, 68, 72, 79, 96, 100, 101, 103, 112, 113, 114, 115, 116, 117, 118, 119, 120, 121, 122, 123, 124, 125, 126, 127, 128, 129, 130, 131, 132, 134, 137, 139, 156, 157, 159], "initi": [4, 5, 7, 12, 13, 22, 25, 30, 34, 35, 45, 46, 48, 49, 52, 56, 61, 64, 68, 69, 72, 74, 75, 81, 83, 84, 85, 86, 88, 89, 91, 92, 94, 95, 99, 100, 101, 103, 104, 106, 109, 112, 120, 123, 126, 128, 135, 138, 143, 144, 145, 147, 149, 153, 157, 159], "develop": [4, 6, 7, 12, 13, 18, 22, 23, 49, 53, 55, 58, 59, 62, 67, 68, 78, 82, 83, 86, 93, 98, 101, 102, 108, 110, 113, 123, 124, 126, 128, 131, 132, 135, 138, 139, 145], "linear": [4, 5, 17, 30, 34, 35, 45, 52, 69, 72, 79, 85, 89, 101, 124, 135, 136, 137], "nonlinear": [4, 5, 17, 49, 89, 135, 143, 165], "hyperbol": [4, 5, 6, 17, 43, 75, 86, 93, 98, 99, 105, 135, 143, 146, 162, 165], "system": [4, 16, 17, 23, 37, 38, 52, 53, 59, 60, 64, 73, 74, 83, 93, 95, 96, 98, 99, 102, 105, 108, 113, 135, 143, 145, 147, 155, 162, 165], "focu": [4, 46], "high": [4, 17, 32, 49, 52, 67, 69, 72, 75, 86, 93, 101, 135, 138, 139, 161, 162], "resolut": [4, 6, 17, 30, 32, 34, 40, 45, 61, 69, 72, 91, 101, 105, 106, 115, 119, 123, 124, 131, 135, 138, 157, 159, 161, 162], "godunov": [4, 91, 101, 143, 145, 147, 162], "method": [4, 5, 7, 17, 32, 34, 35, 39, 43, 45, 54, 67, 69, 79, 81, 85, 88, 89, 91, 96, 100, 101, 106, 112, 113, 119, 135, 142, 143, 144, 145, 147, 153, 156, 157, 159, 162], "framework": [4, 83, 86, 120, 121], "applic": [4, 6, 15, 16, 19, 20, 22, 23, 24, 28, 29, 32, 34, 35, 36, 37, 38, 42, 43, 44, 45, 46, 47, 56, 58, 59, 64, 67, 73, 74, 81, 90, 91, 92, 93, 95, 101, 106, 109, 111, 112, 113, 115, 118, 119, 121, 122, 123, 125, 126, 135, 137, 139, 140, 143, 146, 151, 152, 157, 159, 160, 162, 163], "finit": [4, 17, 32, 34, 43, 54, 60, 67, 68, 69, 72, 101, 126, 137, 146, 156, 157, 162], "volum": [4, 17, 29, 32, 34, 43, 54, 60, 67, 68, 69, 93, 126, 137, 144, 146, 156, 157, 162], "riemann": [4, 5, 8, 20, 22, 23, 28, 29, 46, 56, 59, 64, 75, 83, 85, 91, 92, 101, 102, 103, 105, 108, 141, 143, 145, 147, 151, 152, 165], "solver": [4, 5, 6, 20, 22, 23, 25, 28, 46, 57, 58, 59, 64, 82, 83, 84, 88, 91, 92, 95, 103, 117, 119, 121, 122, 123, 124, 125, 126, 128, 143, 145, 147, 151, 152, 165], "resolv": [4, 32, 34, 52, 55, 59, 110, 123, 139], "jump": [4, 5, 68, 81, 91, 101, 121, 143, 165], "discontinu": [4, 101, 165], "interfac": [4, 19, 22, 68, 83, 86, 89, 93, 94, 99, 101, 106, 135, 162, 163, 165], "wave": [4, 5, 6, 16, 17, 25, 32, 40, 49, 52, 53, 72, 89, 91, 93, 98, 99, 101, 112, 119, 121, 122, 128, 136, 137, 138, 143, 144, 145, 146, 147, 149, 162], "propag": [4, 5, 6, 17, 25, 30, 49, 52, 53, 72, 91, 93, 101, 112, 121, 135], "neighbor": [4, 34, 40, 67, 69, 112, 121, 139, 144, 145, 159], "formul": [4, 5, 49, 65, 135, 143], "allow": [4, 6, 13, 22, 27, 28, 29, 32, 34, 35, 39, 40, 45, 46, 48, 51, 52, 54, 55, 59, 65, 67, 68, 72, 73, 75, 78, 79, 88, 93, 94, 95, 101, 103, 106, 107, 108, 112, 113, 115, 116, 119, 120, 121, 122, 123, 125, 126, 128, 131, 132, 135, 137, 143, 145, 146, 147, 148, 149, 153, 157, 159, 161], "easi": [4, 6, 11, 29, 39, 59, 68, 86, 95, 96, 97, 137, 148, 162], "extens": [4, 17, 22, 24, 28, 30, 49, 52, 55, 59, 64, 68, 86, 93, 94, 106, 121, 122, 128, 143, 155, 159, 165], "problem": [4, 5, 7, 16, 17, 20, 24, 25, 27, 28, 29, 36, 37, 40, 43, 46, 59, 63, 67, 68, 69, 72, 75, 79, 82, 84, 85, 90, 92, 93, 96, 99, 101, 104, 108, 113, 115, 116, 118, 119, 122, 126, 128, 132, 135, 137, 139, 143, 144, 145, 146, 147, 148, 156, 160], "algorithm": [4, 7, 25, 32, 39, 40, 46, 53, 85, 91, 93, 94, 101, 105, 112, 123, 135, 137, 143, 145, 147, 159], "brief": [4, 56, 136, 146], "subroutin": [4, 6, 9, 16, 22, 32, 34, 64, 112, 119, 135, 143, 144, 156, 162, 165], "equat": [4, 5, 16, 17, 25, 36, 37, 46, 49, 61, 65, 79, 84, 85, 86, 88, 93, 94, 95, 98, 101, 102, 103, 116, 119, 121, 123, 124, 135, 143, 145, 146, 147, 149, 157, 162, 165], "solv": [4, 5, 8, 16, 17, 20, 26, 36, 37, 49, 57, 59, 61, 84, 86, 88, 91, 93, 98, 99, 102, 124, 135, 136, 143, 157, 162, 165], "adapt": [4, 7, 17, 30, 40, 53, 54, 67, 68, 75, 85, 112, 123, 126, 128, 135, 137, 142, 143, 144, 146, 162], "mesh": [4, 7, 17, 33, 53, 67, 68, 75, 78, 85, 112, 126, 142, 143, 162], "amrclaw": [4, 5, 6, 12, 15, 16, 19, 20, 22, 23, 24, 28, 37, 39, 40, 42, 44, 45, 46, 47, 53, 56, 57, 58, 59, 61, 67, 68, 73, 74, 75, 82, 93, 94, 102, 108, 109, 112, 113, 134, 135, 137, 140, 141, 143, 146, 151, 152, 155, 156, 160], "detail": [4, 5, 10, 16, 22, 23, 25, 26, 28, 29, 30, 32, 34, 36, 37, 39, 42, 45, 47, 49, 52, 55, 58, 59, 61, 62, 63, 67, 68, 72, 75, 79, 83, 88, 89, 90, 91, 93, 94, 95, 96, 97, 98, 99, 101, 111, 112, 113, 116, 121, 123, 128, 131, 135, 137, 142, 143, 146, 148, 153, 157, 160, 161, 162, 165], "content": [4, 6, 23, 35, 52, 56, 74, 75, 86, 93, 146, 157, 162, 163], "routin": [4, 5, 6, 16, 20, 25, 27, 30, 32, 36, 37, 45, 46, 47, 52, 53, 63, 68, 69, 73, 74, 75, 78, 81, 83, 86, 88, 91, 94, 97, 98, 101, 103, 104, 112, 115, 116, 119, 121, 123, 124, 126, 135, 139, 143, 145, 147, 153, 159, 160, 162, 163, 165], "special": [4, 7, 16, 46, 47, 52, 62, 75, 83, 112, 131, 137, 159], "depth": [4, 5, 16, 17, 22, 30, 32, 33, 35, 40, 45, 46, 49, 65, 69, 72, 78, 80, 136, 138, 139, 146, 157], "averag": [4, 6, 15, 17, 32, 40, 46, 49, 50, 54, 68, 69, 99, 103, 116, 128, 135, 139, 140, 157, 159, 162], "geophys": [4, 16, 17, 23, 46, 49, 75, 143], "flow": [4, 16, 17, 23, 32, 33, 46, 47, 49, 75, 93, 110, 126, 131, 135, 143, 146, 157, 162], "geoclaw": [4, 7, 12, 17, 23, 24, 28, 29, 30, 32, 33, 34, 35, 37, 39, 42, 44, 45, 53, 54, 56, 57, 58, 59, 60, 61, 65, 67, 69, 72, 74, 75, 78, 82, 93, 102, 108, 110, 111, 113, 134, 135, 136, 138, 139, 141, 143, 144, 149, 153, 154, 155, 156, 157, 158, 159, 160, 161, 162], "parallel": [4, 22, 23, 45, 73, 84, 90, 92, 93, 95, 98, 100, 102, 106, 112, 113, 121, 144], "ten": [4, 75], "thousand": [4, 75], "core": [4, 12, 75, 113, 123], "wish": [4, 13, 14, 15, 22, 29, 36, 37, 49, 52, 59, 68, 77, 78, 93, 98, 101, 102, 104, 108, 110, 112, 121, 140, 148, 151, 152, 160], "discrib": 4, "book": [4, 12, 17, 25, 29, 82, 100, 135], "levequ": [4, 16, 17, 24, 30, 53, 75, 89, 91, 93, 101, 107, 135, 143, 162, 165], "fvmhp": [4, 12, 16, 17, 25, 75, 135, 143, 162, 165], "virtual": [4, 13, 25, 27, 103], "were": [4, 6, 14, 20, 32, 45, 55, 61, 64, 68, 69, 86, 112, 115, 121, 124, 128, 131, 132, 137, 139, 149, 157], "4": [4, 7, 8, 9, 13, 16, 17, 23, 25, 28, 30, 32, 33, 34, 37, 39, 40, 42, 43, 45, 46, 49, 52, 54, 55, 56, 63, 64, 65, 67, 68, 69, 73, 74, 78, 79, 81, 92, 93, 94, 95, 96, 98, 99, 101, 102, 106, 108, 112, 113, 115, 120, 123, 128, 129, 131, 134, 137, 143, 144, 145, 146, 147, 155, 156, 157, 159, 164], "3": [4, 6, 7, 15, 16, 20, 22, 24, 25, 30, 32, 33, 34, 37, 39, 43, 45, 46, 52, 54, 56, 59, 60, 65, 68, 69, 72, 74, 79, 81, 82, 85, 88, 89, 91, 94, 95, 96, 99, 100, 101, 103, 107, 108, 112, 121, 123, 126, 132, 133, 135, 137, 140, 143, 144, 145, 146, 147, 155, 156, 157, 159, 162, 165], "pointer": [4, 16, 55, 72, 78, 81, 101, 106, 119], "code": [4, 5, 6, 7, 8, 12, 14, 16, 19, 20, 21, 22, 23, 24, 27, 29, 32, 33, 34, 35, 36, 37, 39, 41, 42, 43, 45, 46, 49, 51, 53, 54, 55, 57, 62, 63, 64, 65, 71, 72, 73, 74, 75, 77, 79, 81, 82, 83, 85, 86, 91, 93, 94, 95, 96, 98, 101, 102, 105, 107, 108, 111, 114, 115, 116, 119, 120, 121, 122, 123, 124, 125, 126, 128, 134, 135, 136, 137, 141, 143, 144, 145, 146, 147, 148, 153, 155, 156, 157], "bibliographi": [4, 25], "paper": [4, 5, 6, 16, 30, 46, 55, 89, 93], "distribut": [4, 12, 13, 29, 30, 55, 62, 72, 75, 83, 101, 107, 126], "under": [4, 7, 22, 32, 34, 38, 52, 53, 55, 58, 62, 64, 78, 83, 91, 93, 113, 121, 123, 133], "term": [4, 25, 46, 49, 62, 72, 86, 91, 92, 101, 112, 122, 123, 132, 136, 143, 145, 146, 147, 151, 152], "berkelei": [4, 62, 83], "bsd": [4, 62, 83, 123], "peopl": [4, 12, 13, 83], "contribut": [4, 24, 25, 58, 83, 86, 93, 98, 101, 110, 113], "its": [4, 6, 13, 22, 29, 40, 49, 52, 62, 64, 67, 72, 74, 83, 88, 89, 90, 91, 93, 98, 100, 101, 103, 106, 112, 145, 159, 165], "incept": 4, "1994": [4, 62], "major": [4, 22, 56, 83, 86, 114, 115, 116, 117, 122, 124, 129, 132], "design": [4, 27, 28, 52, 83, 85, 105, 137, 161], "made": [4, 18, 22, 28, 30, 35, 59, 100, 103, 115, 116, 121, 123, 126, 128, 131, 132, 137, 139, 146, 154, 157, 159, 162], "individu": [4, 22, 23, 52, 60, 63, 64, 68, 91, 112, 113, 153], "randal": [4, 17, 93], "univers": [4, 17, 24, 55, 62, 83, 100], "washington": [4, 17, 24, 55, 62, 125, 137, 159], "rjlevequ": [4, 28, 29], "marsha": [4, 6, 17], "berger": [4, 6, 17], "courant": [4, 6, 112, 122, 143, 144, 145, 147], "institut": 4, "nyu": 4, 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4, "xinsheng": [4, 53], "qin": [4, 53], "xinshengqin": [4, 53], "avi": 4, "schwarzschild": 4, "aks2203": 4, "andi": 4, "terrel": 4, "aterrel": 4, "chri": 4, "vogl": 4, "cjvogl": 4, "numer": [4, 17, 52, 107, 124], "student": 4, "toward": [4, 30], "bug": [4, 8, 12, 22, 24, 42, 52, 65, 73, 79, 83, 118, 119, 120, 121, 123, 128, 129, 130], "suggest": [4, 24, 29, 48, 54, 55, 57, 59, 81, 82, 107, 133, 135, 146, 164], "improv": [4, 13, 22, 24, 32, 34, 52, 55, 94, 107, 115, 116, 118, 119, 120, 121, 122, 124, 125, 126, 127, 128, 129, 143], "explor": [4, 34, 60, 79, 81], "thank": [4, 93], "pleas": [4, 24, 28, 55, 57, 58, 59, 83, 85, 88, 90, 93, 94, 96, 98, 100, 101, 102, 104, 110, 123, 128, 133, 135, 153], "itself": [4, 72, 78, 107, 126, 135, 146, 159], "well": [4, 6, 28, 33, 46, 52, 53, 55, 59, 60, 67, 72, 73, 74, 75, 78, 81, 82, 100, 101, 110, 122, 123, 126, 131, 136, 139, 143, 144, 151, 152, 153, 162, 165], "citat": [4, 56], "similar": [4, 13, 16, 28, 32, 34, 37, 45, 52, 61, 85, 86, 94, 98, 101, 105, 123, 128, 146, 153, 154, 155, 157], "team": [4, 24, 62], "2020": [4, 24, 25, 55, 62, 107, 110, 126, 127, 128, 133, 135], "7": [4, 6, 14, 29, 32, 34, 39, 40, 45, 48, 55, 61, 65, 67, 74, 79, 82, 91, 102, 108, 112, 128, 133, 137, 138, 139, 144, 145], "http": [4, 12, 13, 17, 24, 26, 28, 29, 30, 40, 48, 52, 53, 55, 56, 58, 59, 62, 67, 72, 82, 83, 86, 87, 94, 96, 98, 107, 108, 118, 120, 121, 122, 124, 125, 128, 129, 130, 131, 132, 133, 136, 153, 159], "www": [4, 13, 17, 30, 40, 46, 55, 62, 67, 83, 86, 91, 94, 96, 122, 124, 131, 132, 153, 159], "org": [4, 17, 46, 53, 55, 56, 62, 83, 86, 87, 91, 94, 96, 107, 108, 120, 122, 124, 128, 129, 130, 131, 132, 159], "doi": [4, 17, 53, 56, 58, 126, 127, 128, 129, 130, 131, 132, 133], "10": [4, 17, 30, 32, 34, 40, 52, 53, 54, 56, 79, 85, 88, 91, 112, 120, 121, 123, 126, 127, 128, 129, 130, 131, 132, 133, 137, 143, 144, 145, 147, 157], "5281": [4, 56, 126, 127, 128, 129, 130, 131, 132, 133], "zenodo": [4, 58, 126, 127, 128, 129, 130, 131, 132, 133], "4025432": [4, 127, 133], "here": [4, 13, 16, 29, 34, 39, 40, 49, 56, 59, 60, 67, 75, 79, 81, 85, 88, 93, 94, 96, 98, 99, 104, 105, 108, 110, 112, 119, 135, 136, 137, 149, 154, 159, 165], "bibtex": [4, 56], "misc": [4, 125, 127], "url": [4, 12, 17, 52, 56, 123, 124, 157, 159], "year": [4, 17, 22, 52, 60, 93, 114, 124, 153], "releas": [4, 18, 22, 25, 28, 29, 44, 52, 57, 58, 59, 87, 93, 101, 102, 107], "refer": [4, 5, 20, 30, 32, 33, 34, 36, 37, 39, 46, 47, 52, 56, 63, 64, 68, 72, 85, 89, 91, 94, 95, 99, 101, 103, 108, 110, 123, 125, 134, 135, 137, 146, 153, 157, 159, 161, 162], "particular": [4, 6, 12, 20, 22, 28, 30, 32, 42, 45, 46, 47, 49, 52, 53, 56, 62, 63, 64, 68, 75, 79, 80, 82, 83, 85, 99, 100, 101, 103, 105, 110, 111, 112, 113, 116, 119, 120, 121, 122, 123, 125, 126, 128, 142, 153, 154, 165], "obtain": [4, 6, 12, 32, 44, 45, 47, 49, 59, 60, 69, 94, 95, 96, 112, 128, 135, 139, 148, 157, 165], "your": [4, 6, 15, 16, 19, 20, 24, 25, 26, 34, 36, 38, 42, 45, 54, 55, 56, 57, 58, 59, 73, 78, 79, 81, 83, 84, 85, 86, 87, 90, 92, 93, 94, 95, 104, 105, 107, 108, 109, 110, 112, 113, 115, 123, 135, 140, 141, 151, 152, 157, 160, 162], "multipl": [4, 5, 6, 13, 23, 28, 32, 33, 40, 45, 78, 85, 91, 94, 95, 106, 108, 113, 115, 121, 125, 134, 135, 144, 153, 154], "past": [4, 21, 25, 55, 61, 67, 100, 121, 124, 128, 133, 137, 138, 146], "17605": [4, 56, 133], "osf": [4, 133], "io": [4, 55, 56, 82, 95, 100, 133], "kmw6h": [4, 56, 133], "recent": [4, 13, 22, 27, 30, 51, 55, 58, 63, 65, 73, 79, 81, 82, 120, 124, 125, 126, 127, 128, 129, 130, 131, 132, 133, 135, 149, 161], "articl": [4, 17, 93, 148], "l": [4, 7, 17, 32, 41, 58, 112, 135, 141, 145], "hadjimichael": [4, 17, 83], "2016": [4, 17, 24, 55], "build": [4, 17, 28, 29, 55, 56, 68, 86, 96, 106, 122, 137], "open": [4, 13, 17, 25, 28, 29, 30, 52, 60, 78, 83, 87, 91, 94, 106, 137, 141, 161, 163], "sourc": [4, 17, 23, 25, 28, 30, 42, 46, 52, 53, 55, 56, 58, 59, 60, 62, 64, 65, 78, 83, 86, 90, 91, 92, 101, 102, 104, 105, 106, 110, 111, 113, 121, 122, 123, 132, 136, 138, 143, 145, 146, 147, 150, 151, 152, 153, 157], "ecosystem": [4, 17], "pde": [4, 5, 17, 57, 58, 59, 75, 82, 93, 105, 143, 162], "peerj": [4, 17], "scienc": [4, 17, 83], "7717": [4, 17], "c": [4, 16, 17, 28, 29, 30, 42, 52, 60, 62, 79, 83, 85, 86, 91, 99, 104, 105, 135], "68": [4, 17], "mandli2016clawpack": [4, 17], "yianni": [4, 17, 83], "journal": [4, 17, 53, 93, 148], "e68": [4, 17], "publish": [4, 17, 55, 93], "inc": [4, 17, 68], "least": [4, 5, 6, 13, 35, 45, 52, 60, 61, 67, 68, 104, 112, 113, 120, 121, 128, 143, 145, 149, 157, 159], "regard": [4, 39, 120, 153], "click": [4, 12, 13, 18, 28, 52, 55, 56, 113, 122, 131, 132, 133], "link": [4, 11, 13, 15, 17, 18, 19, 20, 24, 25, 28, 42, 43, 46, 52, 53, 54, 55, 56, 58, 60, 107, 108, 109, 122, 131, 132, 133, 135, 136, 138, 140, 147, 149, 151, 152, 157, 161], "classic": [4, 6, 12, 15, 16, 19, 20, 22, 23, 24, 28, 42, 43, 44, 47, 56, 57, 58, 59, 64, 71, 73, 74, 75, 82, 83, 85, 88, 90, 91, 92, 93, 94, 98, 108, 109, 113, 134, 135, 140, 141, 144, 146, 152, 160, 162], "2d": [4, 7, 8, 15, 16, 19, 22, 25, 27, 32, 34, 35, 39, 40, 46, 48, 53, 60, 68, 73, 78, 83, 85, 91, 93, 97, 101, 107, 109, 112, 119, 121, 122, 123, 124, 125, 128, 132, 136, 137, 139, 140, 143, 144, 147, 149, 151, 152, 159, 163, 165], "leveque97": [4, 17], "3d": [4, 7, 15, 22, 30, 68, 73, 78, 83, 93, 97, 101, 109, 112, 115, 117, 119, 120, 121, 124, 132, 135, 137, 140, 143, 144, 151, 152, 163, 165], "langsethleveque00": [4, 17], "amr": [4, 7, 8, 16, 20, 23, 25, 27, 28, 32, 34, 35, 39, 45, 46, 53, 60, 68, 69, 70, 74, 75, 78, 83, 91, 120, 122, 123, 124, 126, 128, 131, 139, 142, 143, 145, 147, 156, 162], "bergerleveque98": [4, 6, 7, 17], "f": [4, 5, 6, 16, 20, 22, 25, 27, 28, 31, 63, 64, 86, 88, 94, 95, 98, 99, 101, 103, 104, 106, 115, 119, 122, 123, 124, 128, 136, 143, 144, 145, 147, 159, 160, 162], "balelevmitross02": [4, 17, 143, 165], "bergergeorgelevequemandli11": [4, 17], "levequegeorgeberg": [4, 17], "order": [4, 5, 6, 13, 16, 17, 29, 30, 32, 34, 45, 49, 54, 59, 61, 64, 67, 68, 69, 72, 74, 75, 79, 81, 82, 83, 85, 88, 89, 91, 93, 94, 95, 97, 98, 101, 105, 106, 107, 108, 112, 119, 123, 128, 132, 135, 137, 139, 142, 143, 144, 145, 147, 153, 157, 159, 160, 162, 165], "sharpclaw": [4, 23, 25, 75, 83, 90, 92, 93, 98, 115, 135], "ketparlev13": [4, 17, 75, 93, 135], "ketchesonmandliet": [4, 17], "support": [4, 8, 13, 22, 34, 35, 39, 42, 49, 52, 57, 58, 70, 72, 74, 82, 83, 85, 86, 91, 94, 95, 97, 99, 101, 112, 119, 121, 122, 123, 124, 128, 129, 131, 132, 135, 137, 143, 144, 146, 153, 154, 157, 160, 163], "part": [4, 5, 22, 24, 30, 34, 46, 49, 59, 60, 61, 83, 86, 96, 102, 103, 105, 107, 111, 113, 125, 162], "nsf": 4, "grant": [4, 83], "dm": 4, "8657319": 4, "9204329": 4, "9303404": 4, "9505021": 4, "96226645": 4, "9803442": 4, "0106511": 4, "cm": [4, 30, 72, 79, 137], "0245206": 4, "0609661": 4, "0914942": 4, "1216732": 4, "ear": 4, "1331412": 4, "cmmi": 4, "1536198": 4, "doe": [4, 5, 11, 16, 20, 27, 28, 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72, 73, 75, 96, 98, 112, 143], "output_format": [5, 34, 35, 74, 88, 95, 131, 143, 145, 147], "binari": [5, 34, 42, 45, 56, 62, 83, 95, 97, 120, 131, 132, 134, 143, 159, 163], "manner": [5, 34, 40, 45, 52, 61, 67, 72, 78, 123, 139, 143, 151, 152, 157], "attribut": [5, 7, 22, 30, 34, 35, 39, 45, 67, 72, 78, 80, 81, 85, 88, 91, 94, 96, 98, 100, 101, 112, 115, 120, 124, 132, 134, 142, 143, 144, 146, 153, 159], "clawutil": [5, 11, 14, 19, 20, 23, 28, 41, 42, 51, 56, 57, 58, 63, 108, 113, 141, 143, 144, 145, 147, 159, 160], "clawrundata": [5, 45, 60, 124, 134, 143, 144, 145, 147], "adjointdata": [5, 124, 125], "ia": 5, "attribur": 5, "toler": [5, 32, 99, 106, 112, 113, 121, 144, 145, 146], "rundata": [5, 22, 32, 34, 39, 40, 45, 60, 61, 112, 115, 126, 134, 139, 143, 144, 145, 146, 147], "use_adjoint": 5, "adjoint_outdir": 5, "abspath": [5, 39], "_output": [5, 13, 14, 32, 34, 36, 37, 45, 51, 61, 68, 79, 81, 90, 95, 97, 100, 120, 127, 160], "period": [5, 6, 16, 32, 63, 85, 98, 112, 143, 145, 147], "t1": [5, 39, 45, 60, 61, 112, 128, 144, 145, 146], "t0": [5, 74, 134, 143, 145, 146, 147, 157], "t2": [5, 39, 45, 60, 61, 112, 128, 144, 145, 146], "addit": [5, 7, 13, 16, 23, 24, 28, 29, 32, 34, 37, 38, 39, 46, 47, 60, 67, 72, 74, 75, 79, 80, 86, 89, 91, 93, 95, 101, 102, 103, 110, 112, 119, 121, 122, 123, 124, 127, 128, 130, 131, 132, 135, 137, 143, 147, 153, 156, 157, 162, 163], "aux": [5, 6, 15, 20, 22, 27, 45, 54, 86, 93, 94, 95, 98, 100, 101, 103, 104, 115, 116, 121, 123, 135, 136, 140, 143, 144, 145, 146, 147, 162], "inner": [5, 112, 124], "product": [5, 30, 62, 83, 106, 112, 124], "amrdata": [5, 22, 32, 112, 126, 128, 144, 145, 146], "aux_typ": [5, 144, 145], "append": [5, 20, 32, 34, 39, 40, 45, 52, 61, 79, 88, 100, 112, 120, 121, 134, 135, 145, 146], "num_aux": [5, 86, 94, 96, 98, 99, 103, 135, 143, 144, 145, 147, 162], "len": [5, 30, 35, 91, 145, 147, 159], "innerprod_index": 5, "base": [5, 6, 13, 20, 21, 22, 28, 29, 30, 32, 33, 34, 46, 48, 52, 53, 54, 55, 60, 61, 64, 65, 67, 68, 72, 75, 86, 88, 89, 91, 93, 94, 99, 100, 101, 103, 105, 106, 112, 114, 119, 122, 124, 128, 131, 132, 138, 143, 144, 145, 146, 147, 153, 159, 162, 165], "richardson": [5, 7, 22, 144, 145], "error": [5, 16, 20, 36, 37, 41, 52, 59, 68, 73, 79, 88, 93, 94, 95, 106, 112, 113, 124, 128, 144, 145, 153, 160], "estimat": [5, 145], "flag_richardson": [5, 112, 120, 144, 145], "flag_richardson_tol": [5, 112, 144, 145], "1e": [5, 67, 147], "flag2refin": [5, 7, 22, 144, 145], "flag2refine_tol": [5, 112, 144, 145], "01": [5, 40, 74, 91, 159], "we": [5, 6, 22, 24, 26, 32, 36, 37, 39, 40, 45, 49, 52, 54, 55, 56, 57, 59, 64, 67, 69, 72, 78, 81, 85, 86, 87, 88, 90, 91, 94, 95, 96, 97, 98, 101, 102, 103, 104, 105, 106, 107, 110, 113, 123, 126, 131, 135, 136, 137, 159], "attempt": [5, 8, 11, 20, 33, 36, 37, 63, 94, 100, 106, 113, 115, 129, 153, 159, 160], "estim": [5, 65, 112, 144, 146], "step": [5, 6, 10, 16, 19, 28, 32, 34, 36, 37, 38, 45, 52, 55, 56, 61, 68, 74, 75, 78, 81, 83, 84, 85, 86, 88, 95, 98, 101, 103, 105, 110, 112, 115, 120, 121, 131, 134, 135, 141, 143, 144, 145, 146, 147, 157, 165], "extrapol": [5, 7, 16, 22, 69, 98, 105, 123, 143, 144, 145, 147], "togeth": [5, 16, 28, 29, 30, 55, 57, 72, 112, 131], "experiment": [5, 83], "simpli": [5, 13, 34, 36, 37, 38, 40, 45, 52, 54, 63, 64, 67, 69, 85, 87, 88, 90, 95, 96, 102, 113, 135, 137, 148, 153, 159, 162, 163], "magnitud": [5, 30, 112, 123, 146], "greater": [5, 32, 60, 65, 67, 102, 112, 134, 143, 144, 146], "model": [5, 12, 16, 17, 24, 25, 30, 32, 42, 46, 47, 53, 54, 65, 95, 112, 120, 125, 126, 127, 137, 138, 139, 146, 149, 153, 154, 157], "davisleveque2016": [5, 17], "chile2010_adjoint": 5, "shallow": [5, 15, 16, 17, 25, 32, 34, 40, 46, 49, 53, 67, 75, 86, 93, 109, 116, 117, 119, 121, 123, 124, 132, 135, 139, 140, 146, 151, 152, 157, 162], "water": [5, 16, 17, 25, 34, 40, 45, 46, 47, 48, 49, 60, 67, 75, 78, 86, 93, 116, 117, 121, 123, 124, 135, 137, 138, 139, 146, 157, 159, 161, 162], "while": [5, 13, 16, 30, 40, 52, 68, 72, 79, 81, 86, 91, 95, 96, 101, 106, 123, 135, 139, 146, 161], "suitabl": [5, 8, 16, 20, 46, 49, 52, 70, 74, 100, 111, 135, 138, 153, 159], "To": [5, 6, 13, 14, 18, 22, 25, 28, 29, 36, 37, 38, 39, 40, 41, 45, 47, 50, 52, 53, 56, 63, 66, 67, 68, 72, 73, 74, 79, 81, 82, 85, 87, 89, 90, 93, 94, 95, 96, 97, 98, 101, 102, 105, 108, 110, 111, 112, 113, 119, 121, 124, 125, 126, 127, 128, 129, 130, 131, 132, 134, 138, 141, 143, 144, 148, 157, 163], "date": [5, 28, 41, 48, 52, 55, 56, 63, 79, 153, 160], "across": [5, 112, 121, 157, 159], "ocean": [5, 16, 17, 32, 49, 52, 110, 112, 137, 146, 151, 152, 157], "wai": [5, 6, 13, 16, 26, 28, 34, 36, 37, 39, 40, 45, 52, 54, 55, 58, 59, 60, 62, 63, 79, 81, 82, 83, 85, 88, 90, 91, 96, 98, 100, 102, 105, 107, 108, 110, 111, 115, 121, 122, 123, 126, 133, 135, 137, 142, 143, 150, 154, 157, 162, 164, 165], "target": [5, 59, 79, 86, 98, 126], "possibli": [5, 30, 34, 67, 85, 91, 108, 120, 139], "deep": [5, 67], "amplitud": [5, 121], "compar": [5, 22, 37, 45, 49, 52, 56, 79, 95, 112, 113, 138, 144, 155, 161, 165], "essenti": [5, 54, 68, 101, 146, 157], "rest": [5, 22, 81, 110, 123, 138, 151, 152, 157, 159], "henc": [5, 34, 54, 55, 64, 69, 101, 107, 108, 112, 139], "take": [5, 6, 22, 27, 28, 30, 32, 35, 48, 55, 65, 67, 68, 72, 79, 85, 91, 98, 101, 105, 106, 107, 112, 113, 118, 124, 132, 139, 143, 144, 145, 146, 159, 162, 165], "rpn2_geoclaw_adjoint_qwav": 5, "rpt2_geoclaw_adjoint_qwav": 5, "non": [5, 16, 56, 67, 75, 86, 98, 105, 124, 126, 143, 145, 147, 153, 165], "vector": [5, 22, 85, 89, 95, 103, 123, 131, 135, 136], "split": [5, 6, 73, 91, 94, 101, 119, 120, 128, 143, 144, 145, 147, 156, 162, 165], "flux": [5, 17, 32, 34, 35, 91, 99, 101, 135, 143, 165], "comment": [5, 11, 24, 50, 56, 122, 131, 134], "rpn2": [5, 135], "basic": [6, 10, 12, 25, 30, 36, 38, 46, 58, 67, 68, 85, 91, 93, 94, 95, 99, 101, 113, 135, 136, 153, 165], "strategi": 6, "logic": [6, 16, 17, 32, 128, 146], "rectangular": [6, 7, 16, 17, 30, 32, 35, 39, 40, 46, 47, 60, 67, 91, 112, 123, 126, 131, 144, 146, 157], "too": [6, 48, 52, 55, 56, 120, 137, 145, 147], "portion": [6, 34, 40, 52, 67, 86, 131, 156], "factor": [6, 52, 144, 146, 156, 159], "direct": [6, 8, 16, 22, 30, 32, 34, 36, 37, 45, 48, 52, 56, 60, 62, 63, 68, 72, 73, 79, 83, 88, 98, 105, 112, 122, 135, 143, 144, 146, 159], "anisotrop": [6, 22], "perhap": [6, 12, 32, 40, 45, 55, 79, 103, 106, 112, 137], "section": [6, 13, 16, 34, 36, 37, 40, 42, 47, 49, 55, 56, 64, 68, 78, 81, 93, 113, 128, 134, 143, 146, 159], "cfl": [6, 91, 95, 101, 105, 115, 120, 143, 145, 146, 147], "spatial": [6, 17, 25, 30, 34, 35, 39, 40, 45, 46, 61, 65, 69, 98, 112, 115, 119, 126, 128, 135, 138, 144, 145, 146, 147, 165], "reduc": [6, 16, 34, 40, 52, 120, 122, 131, 165], "thu": [6, 48, 95, 98, 123, 153], "proce": [6, 28, 146], "advanc": [6, 17, 34, 53, 67, 73, 105, 120, 132, 143, 144, 162], "taken": [6, 32, 67, 72, 95, 101, 112, 143, 162], "around": [6, 30, 32, 40, 60, 94, 110, 113, 126, 144, 145, 153, 159, 162], "librari": [6, 13, 15, 16, 20, 22, 25, 27, 28, 32, 34, 36, 37, 42, 45, 53, 60, 63, 73, 74, 75, 83, 89, 94, 96, 101, 106, 108, 109, 112, 121, 126, 139, 140, 144, 151, 152, 160, 162], "bcnamr": [6, 16, 123, 143, 145, 162], "check": [6, 14, 15, 16, 20, 32, 36, 37, 41, 42, 51, 52, 53, 55, 56, 57, 59, 63, 68, 79, 82, 85, 86, 88, 93, 96, 100, 101, 103, 105, 106, 108, 109, 112, 116, 125, 137, 139, 140, 144, 145, 151, 152, 153, 159, 160, 161, 162], "denot": [6, 22, 35, 45, 54, 135, 159], "procedur": [6, 16, 40, 46, 56, 162], "updat": [6, 12, 13, 22, 23, 25, 32, 50, 53, 58, 59, 61, 81, 93, 101, 103, 104, 107, 110, 115, 119, 121, 122, 123, 124, 125, 126, 135, 144, 145, 147, 150, 153, 156, 162], "consist": [6, 25, 32, 34, 48, 52, 56, 60, 96, 107, 121, 131, 132, 135, 137, 146, 157, 162], "replac": [6, 13, 29, 34, 39, 45, 49, 53, 55, 56, 58, 61, 63, 78, 86, 90, 94, 96, 97, 98, 99, 103, 106, 113, 115, 121, 123, 125, 126, 131, 134, 135, 139, 159, 160], "ly": [6, 67], "within": [6, 16, 28, 34, 35, 55, 59, 67, 69, 75, 79, 97, 106, 108, 112, 135, 137, 142, 148, 159], "approxim": [6, 16, 25, 33, 49, 52, 69, 72, 135], "lead": [6, 13, 22, 32, 34, 49, 52, 65, 68, 72, 108, 111, 128, 139, 144], "total": [6, 30, 34, 52, 72, 74, 95, 101, 143, 144, 145, 147, 156], "mass": [6, 95, 149], "restor": 6, "global": [6, 14, 91, 103, 106, 138, 157, 161, 162], "fix": [6, 19, 20, 22, 25, 33, 35, 39, 45, 46, 55, 56, 60, 61, 63, 67, 69, 83, 94, 99, 115, 116, 117, 118, 119, 120, 121, 122, 124, 125, 126, 127, 128, 129, 130, 131, 132, 136, 143, 145, 147, 159], "up": [6, 13, 22, 28, 29, 30, 32, 34, 36, 37, 40, 41, 45, 46, 52, 55, 56, 60, 63, 67, 68, 72, 74, 79, 85, 86, 88, 90, 92, 93, 94, 96, 101, 102, 105, 108, 110, 112, 113, 119, 120, 123, 126, 128, 137, 139, 142, 145, 147, 156, 157, 160, 161], "style": [6, 22, 28, 30, 34, 39, 50, 52, 67, 70, 79, 83, 88, 123, 146], "olig": [6, 17], "colella": [6, 17], "bergeroliger84": [6, 17], "bergercolella89": [6, 17], "fortran": [6, 9, 11, 13, 14, 20, 23, 27, 28, 30, 32, 33, 34, 35, 36, 45, 46, 47, 54, 57, 59, 63, 64, 65, 69, 73, 74, 75, 78, 81, 83, 85, 86, 88, 91, 93, 94, 96, 98, 99, 101, 102, 103, 106, 108, 119, 120, 121, 123, 124, 125, 131, 132, 135, 136, 141, 144, 145, 146, 147, 153, 155, 156, 157], "written": [6, 11, 25, 30, 32, 34, 35, 41, 45, 59, 60, 61, 62, 72, 74, 75, 79, 83, 92, 93, 94, 98, 121, 135, 143, 144, 145, 146, 147, 153, 159, 162], "ga": [6, 99], "dynam": [6, 20, 30, 34, 49, 72, 75, 144], "merg": [6, 13, 25, 28, 53, 55, 56, 59, 119], "earli": [6, 20, 139], "mjb": [6, 17], "rjl": [6, 17, 108, 125], "fulli": [6, 49, 52, 53, 122, 126, 135, 146, 153, 154], "consid": [6, 40, 49, 59, 67, 86, 108, 141, 148, 159], "adjac": [6, 16, 32, 46, 112, 139, 143], "equival": [6, 45, 53, 54, 60, 61, 74, 125, 131, 157], "copi": [6, 14, 15, 16, 36, 37, 45, 52, 55, 56, 59, 68, 85, 88, 98, 103, 109, 110, 111, 112, 116, 120, 123, 127, 139, 140, 144, 148, 151, 152, 157, 162], "interior": [6, 16, 40, 74, 103], "howev": [6, 13, 16, 22, 32, 36, 37, 40, 42, 47, 49, 52, 59, 62, 64, 67, 69, 72, 73, 74, 83, 86, 93, 112, 113, 121, 123, 125, 138, 139, 142, 146, 156], "lie": [6, 32, 33, 35, 67, 69, 112, 126, 137], "outsid": [6, 16, 39, 60, 67, 126, 137, 139, 157, 159], "li": [6, 16, 32, 35, 69, 112, 137], "along": [6, 14, 16, 24, 27, 30, 32, 40, 45, 52, 55, 58, 72, 74, 108, 112, 119, 133, 134, 137, 139, 146, 161], "proper": [6, 15, 40, 45, 53, 54, 55, 56, 60, 65, 67, 68, 94, 106, 115, 121, 140, 144, 145, 151, 152, 153, 162], "unless": [6, 32, 41, 42, 60, 99, 107, 138, 143, 144, 159], "standard": [6, 16, 30, 32, 34, 52, 54, 68, 74, 86, 89, 101, 108, 112, 113, 145, 146, 147, 148, 157, 162, 165], "beyond": [6, 30, 107, 123], "modifi": [6, 9, 14, 15, 16, 20, 22, 27, 32, 36, 37, 40, 45, 46, 55, 56, 59, 61, 63, 68, 71, 79, 86, 89, 91, 93, 98, 108, 109, 110, 111, 112, 118, 120, 121, 122, 123, 128, 137, 139, 140, 143, 145, 146, 147, 151, 152, 157, 159, 162], "damag": [6, 62, 83], "bcn": [6, 16, 147, 162], "nd": [6, 16, 112, 123, 126, 162], "actual": [6, 27, 30, 34, 54, 59, 60, 68, 72, 79, 89, 94, 106, 110, 138, 146], "softwar": [6, 13, 24, 25, 29, 46, 49, 62, 83, 93, 94, 95, 148, 157], "With": [6, 22, 28, 45, 50, 52, 59, 67, 75, 112, 120, 135, 137, 143], "opposit": [6, 16, 94], "side": [6, 16, 18, 32, 52, 55, 65, 72, 94, 113, 131, 132, 135, 165], "everi": [6, 12, 28, 32, 34, 45, 61, 63, 64, 74, 85, 88, 90, 94, 95, 103, 112, 113, 121, 122, 135, 139, 141, 143, 145, 147, 153, 157, 159, 162], "few": [6, 12, 13, 22, 26, 29, 37, 49, 55, 67, 68, 86, 101, 105, 107, 112, 113, 126, 138, 155, 157, 162], "coarsest": [6, 34, 52, 74, 115, 134, 143], "revis": [6, 121], "shock": [6, 17, 49, 101, 112], "accord": [6, 54], "criteria": [6, 7, 22, 25, 32, 67, 103], "cluster": [6, 17, 112, 144, 145], "rigoutsi": 6, "bergerrigoutsis91": [6, 17], "nonoverlap": 6, "rectangl": [6, 7, 25, 30, 34, 67, 72, 112, 126, 159], "balanc": [6, 17, 75, 122, 136, 151, 152], "conflict": [6, 28, 59, 63, 68, 104, 108], "goal": 6, "possibl": [6, 13, 22, 26, 28, 30, 32, 34, 35, 45, 48, 49, 52, 61, 62, 63, 72, 79, 83, 91, 94, 96, 97, 101, 106, 108, 112, 135, 137, 138, 143, 144, 157, 161, 162], "minim": [6, 59, 67, 94, 137, 144, 159], "overhead": [6, 73, 112, 156], "cutoff": [6, 145], "control": [6, 7, 23, 25, 32, 34, 42, 45, 55, 59, 61, 68, 74, 81, 84, 89, 91, 93, 94, 95, 96, 98, 112, 121, 126, 136, 146], "fraction": [6, 13, 30, 112, 143, 162, 165], "70": [6, 34, 52], "realli": [6, 69, 113, 162], "At": [6, 13, 27, 28, 34, 36, 37, 40, 67, 96, 101, 105, 107, 112, 126, 143], "present": [6, 24, 60, 69, 91, 99, 100, 101, 106, 148, 162, 165], "previous": [6, 22, 32, 67, 74, 81, 119, 126, 139], "bilinear": [6, 32, 40, 45, 54, 69, 115, 116, 157], "doxygen": [6, 7, 25, 122], "flowchart": [6, 7, 25], "capabl": [7, 12, 22, 32, 34, 45, 49, 53, 61, 67, 75, 86, 93, 115, 120, 121, 123, 124, 125, 126, 127, 131, 132, 159, 161], "block": [7, 30, 40, 60, 72, 74, 75, 85, 94, 103, 106, 113, 162], "structur": [7, 10, 22, 32, 34, 35, 39, 56, 59, 63, 75, 100, 101, 121, 137, 142, 159], "input": [7, 14, 16, 20, 23, 25, 27, 30, 33, 35, 41, 46, 52, 60, 64, 67, 68, 74, 85, 88, 89, 91, 93, 99, 100, 101, 106, 110, 120, 123, 124, 125, 135, 145, 146, 147, 153, 154, 157, 159, 162], "indic": [7, 16, 20, 22, 25, 29, 30, 32, 34, 39, 40, 42, 45, 46, 52, 54, 56, 59, 64, 68, 69, 77, 81, 91, 95, 96, 99, 101, 105, 108, 112, 113, 121, 126, 128, 135, 136, 143, 144, 145, 146, 147, 149, 157, 159, 162], "tool": [7, 8, 17, 22, 23, 28, 30, 32, 33, 34, 35, 36, 37, 40, 46, 47, 48, 49, 52, 54, 57, 58, 59, 60, 68, 72, 77, 78, 79, 80, 82, 93, 108, 111, 116, 117, 121, 122, 126, 127, 146, 148, 157, 159, 161, 163], "matlab": [7, 22, 25, 36, 37, 77, 78, 79, 97, 107, 123, 126, 127], "deprec": [7, 30, 46, 55, 59, 119, 123, 131, 157, 159], "debug": [7, 42, 63, 74, 78, 95, 103, 108, 113, 131, 143, 145], "flag": [7, 12, 13, 22, 25, 28, 29, 39, 41, 42, 46, 53, 59, 73, 86, 104, 106, 108, 119, 124, 128, 145, 146], "sampl": [7, 8, 14, 17, 25, 29, 32, 42, 45, 46, 52, 61, 72, 108, 113, 131, 134, 137, 143, 144, 157, 159, 162], "ghost": [7, 16, 73, 74, 91, 94, 101, 103, 121, 128, 132, 143, 145, 147, 156, 162, 165], "flagregion": [7, 25, 67, 112, 126, 128, 137, 144, 146], "rule": [7, 13, 25, 60, 67, 86], "convex": [7, 32], "slu": 7, "bounding_box": [7, 33], "mask_outsid": [7, 67], "write": [7, 28, 30, 33, 34, 35, 39, 40, 45, 46, 51, 54, 55, 65, 72, 74, 75, 78, 85, 88, 91, 92, 94, 95, 96, 100, 121, 123, 145, 147, 153, 157, 159], "instanti": [7, 88, 96, 98, 101, 103, 132, 145, 147], "make_kml": 7, "simpl": [7, 29, 36, 37, 39, 46, 56, 69, 72, 86, 93, 98, 99, 101, 106, 111, 113, 159], "select": [7, 12, 13, 15, 16, 28, 32, 40, 67, 95, 101, 109, 112, 115, 122, 126, 133, 140, 143, 146, 151, 152, 161], "continent": [7, 67], "shelf": [7, 67], "guid": [7, 13, 17, 18, 23, 24, 25, 46, 47, 53, 58, 93, 107, 112, 122, 126, 131, 132, 150], "adjoint": [7, 17, 25, 53, 112, 123, 124], "gaug": [7, 25, 32, 34, 46, 60, 69, 91, 92, 103, 110, 115, 119, 120, 121, 122, 123, 126, 131, 134, 138, 142, 145], "extend": [8, 16, 22, 40, 60, 67, 68, 91, 123, 137, 139, 146, 157, 159, 165], "directli": [8, 19, 23, 32, 46, 49, 58, 68, 72, 79, 81, 85, 86, 89, 93, 103, 106, 108, 123, 131, 159, 163], "obviou": [8, 52], "elimin": [8, 22, 67, 86, 108, 123, 146], "gallery_classic_amrclaw": [8, 36], "num_cel": [8, 22, 91, 135, 143, 144, 145, 147], "refinement_ratios_i": [8, 144, 145], "sweep": [8, 135], "transvers": [8, 91, 121, 128, 135, 136, 143, 162, 165], "graph": 9, "understand": [9, 25, 36, 37, 49, 78, 93, 105, 112, 135], "filpatch": [9, 40, 121, 125, 128], "idea": [10, 24, 30, 67, 68, 75, 85, 105, 116, 159, 165], "overal": [10, 85], "who": [10, 12, 19, 22, 24, 32, 42, 49, 57], "gori": 10, "monster": 10, "column": [10, 30, 32, 45, 49, 61, 95, 99, 119, 137, 159], "markup": 11, "languag": [11, 78, 106], "restructur": [11, 55], "text": [11, 55, 56, 60, 74, 88, 94, 101, 119], "sphinx": [11, 23, 25, 56, 122], "covert": 11, "convert_readm": 11, "brows": [11, 24, 43, 52, 68, 148, 162], "insert": [11, 16, 72, 94, 141], "script": [11, 19, 20, 28, 30, 32, 41, 45, 52, 55, 63, 68, 75, 78, 83, 86, 90, 92, 93, 95, 96, 101, 106, 108, 113, 123, 127, 135, 142, 146, 147, 159], "invok": [11, 14, 73, 139, 160], "minor": [11, 52, 55, 95, 115, 116, 117, 118, 119, 120, 121, 122, 123, 124, 126, 128, 130, 132], "syntax": [11, 58, 141], "highlight": [11, 13], "header": [11, 30, 32, 34, 40, 45, 54, 67, 72, 74, 94, 100, 119, 121, 123, 153, 157, 159], "complex": [12, 34, 39, 91], "archiv": [12, 21, 37, 52, 56, 113, 148, 155, 159, 161], "github": [12, 15, 22, 23, 24, 25, 26, 29, 53, 55, 58, 59, 90, 98, 102, 109, 113, 118, 120, 121, 122, 131, 133, 135, 136, 140, 151, 152, 160], "app": [12, 13, 18, 23, 26, 28, 29, 32, 38, 43, 44, 72, 110, 111, 118, 122, 123, 124, 125, 126, 127, 128, 129, 130, 131, 132, 136], "com": [12, 13, 23, 24, 26, 28, 29, 53, 55, 56, 58, 59, 94, 96, 98, 102, 118, 120, 121, 122, 131, 133, 136], "fvmbook": [12, 43], "galleri": [12, 25, 36, 37, 38, 43, 56, 77, 78, 90, 93, 107, 113, 118, 122, 148, 155, 162], "anim": [12, 16, 34, 43, 52, 119, 126, 127, 131, 148], "instal": [12, 13, 18, 23, 25, 29, 36, 44, 52, 55, 56, 81, 83, 84, 87, 92, 94, 105, 107, 113, 114, 115, 116, 117, 118, 119, 120, 121, 122, 123, 124, 125, 126, 127, 128, 129, 130, 131, 132, 133, 141, 164], "collect": [12, 25, 26, 28, 30, 32, 72, 78, 85, 101, 148], "either": [12, 16, 20, 30, 32, 34, 40, 46, 47, 52, 61, 63, 67, 68, 72, 74, 79, 81, 85, 91, 93, 94, 95, 101, 106, 108, 112, 113, 119, 120, 121, 123, 131, 135, 137, 139, 144, 146, 153, 157, 159, 162, 165], "clone": [12, 18, 23, 24, 43, 53, 55, 56, 59, 82, 96, 102, 111, 131, 132, 160], "git": [12, 13, 23, 24, 25, 26, 53, 56, 59, 93, 102, 113, 125], "navig": [12, 29, 55, 148], "green": [12, 60, 67, 72, 79, 113, 159], "button": [12, 13, 28, 52, 60, 122], "download": [12, 13, 28, 29, 30, 37, 38, 40, 46, 52, 56, 58, 59, 90, 96, 102, 123, 124, 133, 155, 159, 160, 161], "zip": [12, 52, 56], "illustr": [12, 25, 30, 32, 36, 44, 52, 67, 68, 72, 74, 111, 118, 119, 123, 125, 135, 137, 148, 159], "variou": [12, 20, 22, 30, 34, 39, 44, 49, 55, 68, 69, 72, 79, 81, 91, 105, 107, 108, 112, 121, 135, 142, 146, 153], "visibl": [12, 13, 44, 52, 111, 148], "render": [12, 22, 44, 52, 60, 163], "advantag": [12, 34, 45, 61, 78, 94, 107, 113, 137], "independ": [12, 23, 30, 34, 35], "contact": [12, 90, 93, 102], "u": [12, 13, 16, 24, 29, 32, 34, 35, 48, 49, 56, 57, 59, 61, 83, 90, 93, 99, 102, 103, 104, 105, 110, 122, 135, 144, 147, 153, 161], "storm": [12, 17, 24, 25, 46, 119, 122, 123, 124, 125, 127, 128, 129], "surg": [12, 17, 24, 25, 46, 119, 122, 123, 124, 125, 128, 153], "empti": [12, 34, 45, 100, 103, 106, 108, 143, 146, 153, 159], "gitmodul": 12, "pull": [12, 24, 26, 29, 55, 56, 58, 90, 98, 113, 118, 121, 122, 128, 131, 135], "request": [12, 24, 26, 30, 34, 35, 45, 55, 58, 74, 85, 90, 91, 95, 98, 100, 113, 121, 123, 128, 135, 146, 153, 159], "init": [12, 25, 28, 40, 46, 53, 56, 58, 138, 146], "leav": [12, 13, 16, 45, 59, 144, 159], "off": [12, 13, 45, 49, 52, 60, 68, 81, 88, 95, 112, 131, 144, 149, 159], "won": [12, 13, 67, 86, 159], "hurt": [12, 64], "maintain": [12, 28, 107, 123, 144, 157, 162], "flavor": [12, 21, 94], "demonstr": [12, 25, 90, 96], "agre": [12, 28, 40, 54, 135, 156, 159, 162], "seen": [12, 22, 32, 36, 37, 38, 49, 73, 98, 143, 148], "cloud": 13, "elast": [13, 72], "sign": [13, 24, 79, 128, 153], "account": [13, 24, 28, 56, 87, 96, 134], "750": 13, "free": [13, 52, 63, 72, 83, 87, 98, 102, 104], "micro": 13, "suffici": [13, 16, 20, 34, 45, 72, 73, 74, 110, 115, 131, 143, 146], "tier": 13, "inform": [13, 14, 22, 25, 32, 33, 35, 36, 37, 47, 48, 49, 50, 51, 59, 64, 74, 79, 80, 81, 85, 86, 91, 93, 95, 96, 97, 99, 100, 106, 108, 120, 123, 124, 126, 132, 133, 134, 135, 138, 141, 143, 144, 146, 153, 156, 157, 160, 161, 162, 163], "uw": [13, 24], "escienc": 13, "aw": 13, "tutori": [13, 29, 56, 81, 84, 88, 93, 102, 108, 111], "gear": 13, "faq": [13, 25, 78], "price": 13, "charg": 13, "per": [13, 30, 35, 45, 52, 60, 68, 73, 94, 144], "thereof": 13, "regardless": [13, 35, 40, 67, 112, 143], "cpu": [13, 53, 120, 123, 125, 156], "consol": [13, 95, 146], "tab": [13, 55, 133], "east": [13, 157], "cheaper": 13, "rate": 13, "menu": [13, 18, 25, 55, 60, 122, 131, 132, 133, 138, 161], "imag": [13, 36, 37, 40, 56, 60, 67, 113, 123, 137], "platform": [13, 52, 88, 96, 107, 113], "finish": [13, 79, 85], "load": [13, 60, 95, 97, 100, 106, 113, 159, 163], "databas": [13, 30, 72, 106, 110, 123, 157], "uwamath": 13, "bar": [13, 55, 153], "screen": [13, 28, 52, 60, 88, 95, 96, 120, 145, 147], "shapshot": 13, "machin": [13, 25, 73, 75, 113, 121, 141], "disk": [13, 45, 85, 94, 95, 113, 121], "ubuntu": 13, "linux": [13, 71, 82, 104, 113, 141], "popup": 13, "look": [13, 14, 22, 25, 28, 30, 40, 52, 55, 56, 60, 68, 79, 81, 86, 91, 96, 100, 101, 105, 106, 108, 113, 116, 123, 132, 137, 143, 144, 146, 156, 159, 160], "sort": [13, 40, 123, 142, 160], "larger": [13, 20, 32, 52, 60, 72, 73, 74, 79, 91, 115, 121, 128, 144, 146, 157], "cost": [13, 101], "continu": [13, 22, 28, 30, 50, 55, 83, 107, 135, 143, 165], "eventu": [13, 46, 126], "don": [13, 27, 28, 55, 56, 79, 95, 96, 102, 113, 145, 160], "pair": [13, 94, 113, 159], "secur": 13, "quick": [13, 25, 37, 46, 47, 57, 82, 113, 155], "close": [13, 40, 52, 55, 60, 67, 68, 94, 112, 126, 144, 153], "back": [13, 27, 29, 55, 56, 122], "statu": [13, 28, 51, 88, 105], "wait": 13, "until": [13, 32, 61, 67, 139], "refresh": [13, 45], "bottom": [13, 15, 30, 36, 37, 46, 49, 65, 67, 72, 85, 98, 99, 121, 122, 140, 151, 152], "scroll": 13, "down": [13, 30, 95, 120, 153, 157, 159], "dn": 13, "screenshot": [13, 52], "rjlkei": 13, "pem": 13, "abl": [13, 55, 108], "ssh": [13, 28], "keypair": 13, "50": [13, 17, 32, 52, 69, 101, 116, 145], "19": [13, 17, 24, 129, 130, 133, 156], "75": [13, 17, 89, 105, 137], "229": 13, "amazonaw": 13, "gfortran": [13, 59, 73, 82, 84, 104, 141, 160], "ipython": [13, 75, 79, 81, 86, 87, 93, 95, 102, 105, 108, 119, 120], "scipi": [13, 35, 86, 107, 153, 159], "netcdf": [13, 35, 42, 46, 120, 123, 125, 127, 153, 159, 161], "apach": 13, "server": [13, 29, 40, 52, 55, 56, 67, 123, 157, 161], "apt": [13, 82], "fetch": [13, 48], "bring": [13, 52, 55, 68, 146], "master": [13, 15, 25, 29, 55, 56, 59, 98, 109, 120, 121, 122, 123, 124, 125, 126, 127, 128, 129, 130, 131, 132, 133, 136, 140, 151, 152], "make_lib": 13, "compil": [13, 25, 36, 37, 41, 47, 59, 64, 73, 75, 81, 82, 86, 93, 94, 98, 102, 106, 115, 135, 136, 141], "bashrc": [13, 42, 104, 141], "Of": [13, 26, 72, 105, 110, 157], "cours": [13, 26, 32, 45, 47, 61, 72, 96, 97, 105, 107, 110, 146, 157], "tar": [13, 60, 125, 133], "instruct": [13, 18, 24, 25, 36, 37, 40, 52, 53, 55, 56, 85, 87, 93, 96, 102, 105, 108, 122, 129, 131, 132, 133, 134, 160], "window": [13, 30, 68, 81, 141], "respons": [13, 49, 85, 100], "pretti": 13, "slow": [13, 52, 95, 104], "_plot": [13, 36, 37, 45, 68, 81, 142, 148], "local": [13, 17, 20, 25, 28, 52, 55, 60, 63, 64, 68, 89, 91, 98, 103, 121, 123, 132, 139, 157, 159, 162], "sftp": 13, "much": [13, 28, 32, 34, 42, 52, 74, 75, 78, 82, 107, 112, 115, 119, 126, 131, 132, 137, 143, 146, 156, 159], "smaller": [13, 34, 52, 65, 75, 91, 95, 115, 131, 139, 143, 145, 146, 147, 159], "quicker": [13, 137], "browser": [13, 28, 29, 36, 37, 52, 55, 148], "explain": [13, 32, 49, 67, 128, 143, 148], "webserv": 13, "inbound": 13, "port": [13, 29, 92, 93, 98, 144], "22": [13, 24, 144, 159], "80": [13, 17, 52, 96, 137], "drop": [13, 55, 82, 126, 128, 139, 143], "tcp": 13, "Then": [13, 16, 28, 29, 30, 34, 45, 55, 56, 57, 64, 67, 72, 73, 81, 85, 88, 96, 102, 103, 104, 108, 135, 137, 159, 160], "someth": [13, 27, 28, 55, 63, 71, 78, 95, 100, 101, 108, 157, 160, 162], "shot": 13, "ln": 13, "expos": [13, 75], "home": [13, 29, 30, 59, 141], "scp": 13, "TO": [13, 62, 83], "send": [13, 24, 98, 135], "remot": [13, 52, 56, 123, 159, 161], "rel": [13, 20, 30, 41, 47, 49, 52, 72, 73, 79, 93, 106, 108, 113, 116, 117, 118, 119, 120, 121, 122, 123, 124, 125, 126, 127, 128, 129, 130, 131, 132, 138, 144, 146, 148, 157, 161], "end": [13, 29, 30, 32, 34, 45, 48, 52, 56, 60, 88, 95, 99, 105, 107, 110, 112, 120, 121, 123, 134, 136, 137, 145, 147, 153, 156], "retriev": [13, 35, 48, 81, 86, 101, 159, 161], "sit": 13, "idl": 13, "action": [13, 14, 86], "restart": [13, 25, 45, 74, 81, 93, 120, 121, 122, 123, 125, 128, 132, 143, 145, 147], "later": [13, 34, 35, 40, 51, 52, 59, 81, 101, 134], "But": [13, 32, 40, 52, 69, 79, 104, 116, 123, 139, 141], "futur": [13, 22, 25, 26, 36, 37, 40, 49, 54, 60, 65, 85, 101, 107, 120, 121, 123, 126, 132, 144, 149, 153, 157], "job": [13, 130], "eb": 13, "runclaw": [14, 51, 116, 125, 127, 135], "autom": [14, 55, 86, 113], "certain": [14, 32, 46, 58, 67, 95, 112, 120, 137, 143], "keep": [14, 25, 28, 32, 33, 35, 36, 37, 73, 85, 88, 93, 103, 106, 113, 116], "log": [14, 25, 28, 29, 91, 92, 93, 100, 101], "came": 14, "rundir": [14, 88], "environ": [14, 25, 28, 36, 37, 38, 41, 51, 52, 55, 58, 59, 68, 71, 73, 75, 97, 104, 106, 108, 121, 159, 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[[16, "user-defined-boundary-conditions"]], "Bibliography": [[17, "bibliography"]], "Papers describing the Clawpack software and algorithms": [[17, "papers-describing-the-clawpack-software-and-algorithms"]], "Papers describing applications": [[17, "papers-describing-applications"]], "Other references": [[17, "other-references"]], "Changes to master since v5.9.1": [[18, "changes-to-master-since-v5-9-1"]], "Changes that are not backward compatible": [[18, "changes-that-are-not-backward-compatible"], [123, "changes-that-are-not-backward-compatible"], [124, "changes-that-are-not-backward-compatible"], [125, "changes-that-are-not-backward-compatible"], [126, "changes-that-are-not-backward-compatible"], [127, "changes-that-are-not-backward-compatible"], [128, "changes-that-are-not-backward-compatible"], [129, "changes-that-are-not-backward-compatible"], [130, "changes-that-are-not-backward-compatible"], [131, "changes-that-are-not-backward-compatible"]], "General changes": [[18, 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conversion tool": [[20, "python-conversion-tool"]], "Clawpack 4.x links": [[21, "clawpack-4-x-links"]], "Changes in Clawpack 5.0": [[22, "changes-in-clawpack-5-0"]], "PyClaw in 5.0": [[22, "pyclaw-in-5-0"]], "Fortran package changes": [[22, "fortran-package-changes"]], "Changes to input parameters in setrun.py from 4.x to 5.0": [[22, "changes-to-input-parameters-in-setrun-py-from-4-x-to-5-0"]], "Changes to general parameters": [[22, "changes-to-general-parameters"]], "Changes to AMR parameters": [[22, "changes-to-amr-parameters"]], "Changes to GeoClaw parameters": [[22, "changes-to-geoclaw-parameters"]], "Changes to plotting routines": [[22, "changes-to-plotting-routines"]], "Clawpack components": [[23, "clawpack-components"]], "Other repositories": [[23, "other-repositories"]], "Clawpack Community": [[24, "clawpack-community"]], "User Workshops, Clinics, and Tutorials": [[24, "user-workshops-clinics-and-tutorials"]], "Available for streaming": [[24, "available-for-streaming"]], "Upcoming": [[24, "upcoming"], [24, "id1"]], "Recent": [[24, "recent"]], "Developer Workshops and Sprint Sessions": [[24, "developer-workshops-and-sprint-sessions"]], "Previous": [[24, "previous"]], "Other Clawpack events": [[24, "other-clawpack-events"]], "Contents": [[25, "id1"], [28, "contents"], [40, "contents"], [67, "contents"], [79, "contents"], [85, "contents"], [95, "contents"], [101, "contents"], [113, "contents"], [137, "contents"]], "Full Table of Contents": [[25, "full-table-of-contents"]], "Overview and Getting Started": [[25, "overview-and-getting-started"]], "Examples and Applications": [[25, "examples-and-applications"]], "Classic, AMRClaw, and GeoClaw": [[25, "classic-amrclaw-and-geoclaw"]], "Using the Fortran codes": [[25, "using-the-fortran-codes"]], "AMRClaw: adaptive mesh refinement": [[25, "amrclaw-adaptive-mesh-refinement"]], "GeoClaw: geophysical flows": [[25, "geoclaw-geophysical-flows"]], "PyClaw": [[25, "pyclaw"], [36, "pyclaw"], [93, "pyclaw"], [113, "pyclaw"], [155, "pyclaw"]], "Riemann": [[25, "riemann"]], "VisClaw: Plotting and Visualization Tools": [[25, "visclaw-plotting-and-visualization-tools"]], "Migrating applications from older versions of Clawpack": [[25, "migrating-applications-from-older-versions-of-clawpack"]], "Developers\u2019 resources": [[25, "developers-resources"]], "References": [[25, "references"], [53, "references"]], "Contributing examples and applications": [[26, "contributing-examples-and-applications"]], "current_data": [[27, "current-data"]], "Attributes of current_data:": [[27, "attributes-of-current-data"]], "Developers\u2019 Guide": [[28, "developers-guide"]], "Guidelines for contributing": [[28, "guidelines-for-contributing"]], "Reporting and fixing bugs": [[28, "reporting-and-fixing-bugs"]], "Developer communication": [[28, "developer-communication"]], "Installation instructions for developers": [[28, "installation-instructions-for-developers"]], "Cloning the most recent code from Github": [[28, "cloning-the-most-recent-code-from-github"]], "Checking out the master branch on each repository": [[28, "checking-out-the-master-branch-on-each-repository"]], "Updating to the latest master branch": [[28, "updating-to-the-latest-master-branch"]], "Never commit to master": [[28, "never-commit-to-master"]], "Adding your fork as a remote": [[28, "adding-your-fork-as-a-remote"]], "Modifying code": [[28, "modifying-code"]], "Issuing a pull request": [[28, "issuing-a-pull-request"]], "Testing a pull request": [[28, "testing-a-pull-request"]], "Top-level pull requests": [[28, "top-level-pull-requests"]], "Git workflow": [[28, "git-workflow"]], "Catching errors with Pyflakes and Pylint": [[28, "catching-errors-with-pyflakes-and-pylint"]], "Checking test coverage": [[28, "checking-test-coverage"]], "Trouble-Shooting Tips": [[28, "trouble-shooting-tips"]], "Docker for Clawpack": [[29, "docker-for-clawpack"]], "Using Version 5.9.0 or above": [[29, "using-version-5-9-0-or-above"]], "Getting started": [[29, "getting-started"]], "Stopping a container": [[29, "stopping-a-container"]], "Restarting a container": [[29, "restarting-a-container"]], "Running Jupyter notebooks": [[29, "running-jupyter-notebooks"]], "Moving files between the docker container and the host machine": [[29, "moving-files-between-the-docker-container-and-the-host-machine"]], "Some other useful docker commands": [[29, "some-other-useful-docker-commands"]], "Creating your own docker image": [[29, "creating-your-own-docker-image"]], "Dockerfiles for binder": [[29, "dockerfiles-for-binder"]], "dtopotools module for moving topography": [[30, "dtopotools-module-for-moving-topography"]], "Documentation auto-generated from the module docstrings": [[30, "module-clawpack.geoclaw.dtopotools"], [33, "module-clawpack.geoclaw.fgmax_tools"], [35, "module-clawpack.geoclaw.fgout_tools"], [48, "module-clawpack.geoclaw.util"], [60, "module-clawpack.geoclaw.kmltools"], [159, "module-clawpack.geoclaw.topotools"]], "Fortran 77 vs. Fortran 90 files": [[31, "fortran-77-vs-fortran-90-files"]], "Fixed grid monitoring": [[32, "fixed-grid-monitoring"]], "Input file specification": [[32, "input-file-specification"], [34, "input-file-specification"]], "Different point styles": [[32, "different-point-styles"]], "Other attributes": [[32, "other-attributes"]], "Values to monitor": [[32, "values-to-monitor"]], "Choice of interpolation procedure": [[32, "choice-of-interpolation-procedure"], [34, "choice-of-interpolation-procedure"]], "A simple example": [[32, "a-simple-example"], [34, "a-simple-example"]], "Processing and plotting fgmax output": [[32, "processing-and-plotting-fgmax-output"]], "Format of the output files": [[32, "format-of-the-output-files"]], "fgmax_tools module for working with fgmax grids": [[33, "fgmax-tools-module-for-working-with-fgmax-grids"]], "Fixed grid output": [[34, "fixed-grid-output"], [146, "fixed-grid-output"]], "Format of fgout output": [[34, "format-of-fgout-output"]], "Using setplot.py to produce plots": [[34, "using-setplot-py-to-produce-plots"]], "Reading and plotting fgout arrays directly": [[34, "reading-and-plotting-fgout-arrays-directly"]], "fgout grid registration": [[34, "fgout-grid-registration"]], "fgout_tools module for working with fgout grids": [[35, "fgout-tools-module-for-working-with-fgout-grids"]], "Running an example": [[36, "running-an-example"], [37, "running-an-example"], [38, "running-an-example"]], "Classic": [[36, "classic"], [37, "classic"], [155, "classic"]], "Testing your Fortran installation and running an example": [[37, "testing-your-fortran-installation-and-running-an-example"]], "More examples": [[37, "more-examples"]], "Testing a PyClaw installation and running an example": [[38, "testing-a-pyclaw-installation-and-running-an-example"]], "From the Jupyter notebook": [[38, "from-the-jupyter-notebook"]], "From the IPython interpreter": [[38, "from-the-ipython-interpreter"]], "From the command line": [[38, "from-the-command-line"], [90, "from-the-command-line"]], "Specifying flagregions for adaptive refinement": [[39, "specifying-flagregions-for-adaptive-refinement"]], "Using ruled rectangles as flagregions": [[39, "using-ruled-rectangles-as-flagregions"]], "Force Cells to be Dry Initially": [[40, "force-cells-to-be-dry-initially"]], "Examples": [[40, "examples"], [45, "examples"], [67, "examples"], [93, "examples"], [137, "examples"]], "Sample topography from a 1/3 arcsecond DEM": [[40, "sample-topography-from-a-1-3-arcsecond-dem"], [67, "sample-topography-from-a-1-3-arcsecond-dem"]], "Creating the force_dry_init array": [[40, "creating-the-force-dry-init-array"]], "Create file to read into GeoClaw": [[40, "create-file-to-read-into-geoclaw"]], "Usage in GeoClaw Fortran code": [[40, "usage-in-geoclaw-fortran-code"]], "Internal GeoClaw modifications": [[40, "internal-geoclaw-modifications"]], "Fortran version": [[41, "fortran-version"]], "Makefiles": [[41, "makefiles"]], "More tips": [[41, "more-tips"]], "Fortran Compilers": [[42, "fortran-compilers"]], "FC environment variable": [[42, "fc-environment-variable"]], "FFLAGS environment variable": [[42, "fflags-environment-variable"]], "LFLAGS environment variable": [[42, "lflags-environment-variable"]], "Pre-Processor and the PPFLAGS environment variable": [[42, "pre-processor-and-the-ppflags-environment-variable"]], "gfortran compiler": [[42, "gfortran-compiler"]], "Intel fortran compiler": [[42, "intel-fortran-compiler"]], "Examples from the book FVMHP": [[43, "examples-from-the-book-fvmhp"]], "Available examples": [[43, "available-examples"]], "Clawpack Gallery": [[44, "clawpack-gallery"]], "Gauges": [[45, "gauges"]], "Gauge parameters in setrun": [[45, "gauge-parameters-in-setrun"]], "Plotting tools": [[45, "plotting-tools"]], "Plotting gauge locations": [[45, "plotting-gauge-locations"]], "GeoClaw Description and Detailed Contents": [[46, "geoclaw-description-and-detailed-contents"]], "Getting started with GeoClaw": [[47, "getting-started-with-geoclaw"]], "Running a GeoClaw code": [[47, "running-a-geoclaw-code"]], "Topography": [[47, "topography"]], "Plotting GeoClaw results": [[47, "plotting-geoclaw-results"]], "Setting up a new example": [[47, "setting-up-a-new-example"]], "geoclaw.util module of utility functions": [[48, "geoclaw-util-module-of-utility-functions"]], "Cautionary Hints on using GeoClaw": [[49, "cautionary-hints-on-using-geoclaw"]], "Tsunami hazard modeling": [[49, "tsunami-hazard-modeling"]], "GeoClaw plotting tools": [[50, "geoclaw-plotting-tools"]], "Plotting water depth or surface elevation": [[50, "plotting-water-depth-or-surface-elevation"]], "Tips on latitude-longitude coordinate axes": [[50, "tips-on-latitude-longitude-coordinate-axes"]], "Keeping track of repository versions with Git": [[51, "keeping-track-of-repository-versions-with-git"]], "Visualizing GeoClaw results in Google Earth": [[52, "visualizing-geoclaw-results-in-google-earth"]], "Basic requirements": [[52, "basic-requirements"]], "Optional GDAL library": [[52, "optional-gdal-library"]], "An example : The Chile 2010 tsunami event": [[52, "an-example-the-chile-2010-tsunami-event"]], "Plotting attributes needed for Google Earth": [[52, "plotting-attributes-needed-for-google-earth"]], "plotdata attributes": [[52, "plotdata-attributes"]], "plotfigure attributes": [[52, "plotfigure-attributes"]], "Creating the figures": [[52, "creating-the-figures"]], "plotaxes attributes": [[52, "plotaxes-attributes"]], "plotitem attributes": [[52, "plotitem-attributes"]], "Adding a colorbar overlay": [[52, "adding-a-colorbar-overlay"]], "Gauge plots": [[52, "gauge-plots"]], "Additional plotdata attributes": [[52, "additional-plotdata-attributes"]], "Plotting tips": [[52, "plotting-tips"]], "KML and KMZ files": [[52, "kml-and-kmz-files"]], "Tiling images for faster loading": [[52, "tiling-images-for-faster-loading"]], "Removing aliasing artifacts": [[52, "removing-aliasing-artifacts"]], "Creating multiple figures at different resolutions": [[52, "creating-multiple-figures-at-different-resolutions"]], "Mapping topography data to latitude/longitude coordinates": [[52, "mapping-topography-data-to-latitude-longitude-coordinates"]], "Publishing your results": [[52, "id1"]], "Using the GPU version of Clawpack": [[53, "using-the-gpu-version-of-clawpack"]], "Grid registration": [[54, "grid-registration"]], "NetCDF files": [[54, "netcdf-files"]], "Guide for updating this documentation": [[55, "guide-for-updating-this-documentation"]], "Git branches and tags": [[55, "git-branches-and-tags"]], "Configuration and style files": [[55, "configuration-and-style-files"]], "Updating the docs for a new release": [[55, "updating-the-docs-for-a-new-release"]], "To generate docs including previous versions": [[55, "to-generate-docs-including-previous-versions"]], "Updating for a new major version": [[55, "updating-for-a-new-major-version"]], "Updating the gallery": [[55, "updating-the-gallery"]], "Updating the webpages": [[55, "updating-the-webpages"]], "Extra files for webpages not built by Sphinx": [[55, "extra-files-for-webpages-not-built-by-sphinx"]], "Pages from other clawpack repositories": [[55, "pages-from-other-clawpack-repositories"]], "Guide for doing a Clawpack release": [[56, "guide-for-doing-a-clawpack-release"]], "Preparation": [[56, "preparation"]], "Version numbers": [[56, "version-numbers"]], "Release candidates": [[56, "release-candidates"]], "Create a tar file and a Github release": [[56, "create-a-tar-file-and-a-github-release"]], "Final release": [[56, "final-release"]], "Pypi": [[56, "pypi"]], "Zenodo": [[56, "zenodo"]], "Open Science Framework (OSF)": [[56, "open-science-framework-osf"]], "Updating the documentation": [[56, "updating-the-documentation"]], "Updating the apps repository": [[56, "updating-the-apps-repository"]], "Updating the Dockerfile": [[56, "updating-the-dockerfile"]], "Installing Clawpack": [[57, "installing-clawpack"]], "Next steps:": [[57, "next-steps"], [58, "next-steps"], [59, "next-steps"]], "Options for installing Clawpack Fortran codes": [[58, "options-for-installing-clawpack-fortran-codes"]], "tar file": [[58, "tar-file"]], "git clone": [[58, "git-clone"]], "pip install instructions": [[59, "pip-install-instructions"]], "Quick Installation of PyClaw with pip": [[59, "quick-installation-of-pyclaw-with-pip"]], "Quick Installation of all packages with pip": [[59, "quick-installation-of-all-packages-with-pip"]], "Using pip to install a different version": [[59, "using-pip-to-install-a-different-version"]], "Experimenting with code in the examples directories": [[59, "experimenting-with-code-in-the-examples-directories"]], "Troubleshooting pip install": [[59, "troubleshooting-pip-install"]], "kmltools module of utility functions": [[60, "kmltools-module-of-utility-functions"]], "Lagrangian gauges for particle tracking": [[61, "lagrangian-gauges-for-particle-tracking"]], "Specifying Lagrangian Gauges": [[61, "specifying-lagrangian-gauges"]], "Visclaw tools for plotting": [[61, "visclaw-tools-for-plotting"]], "An alternative using fgout grids": [[61, "an-alternative-using-fgout-grids"]], "Clawpack Makefiles": [[63, "clawpack-makefiles"]], "Applications directory Makefiles": [[63, "applications-directory-makefiles"]], "output": [[63, "output"]], "plots": [[63, "plots"]], "Variables": [[63, "variables"]], "Compiler flags": [[63, "compiler-flags"]], "Duplicate Base Source Name": [[63, "duplicate-base-source-name"]], "Library routines in Makefiles": [[64, "library-routines-in-makefiles"]], "Replacing files with the same name as library files": [[64, "replacing-files-with-the-same-name-as-library-files"]], "Using a modified library routine with a different name": [[64, "using-a-modified-library-routine-with-a-different-name"]], "Manning friction term": [[65, "manning-friction-term"]], "The mapc2p function": [[66, "the-mapc2p-function"]], "Marching Front algorithm": [[67, "marching-front-algorithm"]], "Function arguments": [[67, "function-arguments"]], "output array": [[67, "output-array"]], "creating a masked array": [[67, "creating-a-masked-array"]], "topofile mask for initializing dry points": [[67, "topofile-mask-for-initializing-dry-points"]], "fgmax points": [[67, "fgmax-points"]], "flag regions": [[67, "flag-regions"]], "The mask argument": [[67, "the-mask-argument"]], "The previous_pts_chosen argument": [[67, "the-previous-pts-chosen-argument"]], "Finding all points below a given elevation": [[67, "finding-all-points-below-a-given-elevation"]], "Create a buffer zone along shore": [[67, "create-a-buffer-zone-along-shore"]], "Choose points only near shore": [[67, "choose-points-only-near-shore"]], "Write out the masked array indicating fgmax points": [[67, "write-out-the-masked-array-indicating-fgmax-points"]], "Creating an AMR flag region": [[67, "creating-an-amr-flag-region"]], "Determining dry areas below MHW": [[67, "determining-dry-areas-below-mhw"]], "Plotting using Matlab": [[68, "plotting-using-matlab"]], "The Matlab search path": [[68, "the-matlab-search-path"]], "Creating output files": [[68, "creating-output-files"]], "The plotclaw command": [[68, "the-plotclaw-command"]], "The setplot file": [[68, "the-setplot-file"]], "The afterframe file": [[68, "the-afterframe-file"]], "Getting help": [[68, "getting-help"]], "Trouble shooting": [[68, "trouble-shooting"]], "Output files not found": [[68, "output-files-not-found"]], "MaxFrames not set": [[68, "maxframes-not-set"]], "Switching examples": [[68, "switching-examples"]], "Matlab Gallery": [[68, "matlab-gallery"]], "Nearshore interpolation": [[69, "nearshore-interpolation"]], "Using NetCDF output": [[70, "using-netcdf-output"]], "Creating a new application directory": [[71, "creating-a-new-application-directory"]], "Copying an existing example": [[71, "copying-an-existing-example"]], "Earthquake sources: Fault slip and the Okada model": [[72, "earthquake-sources-fault-slip-and-the-okada-model"]], "Fault slip on rectangular subfaults": [[72, "fault-slip-on-rectangular-subfaults"]], "Okada model": [[72, "okada-model"]], "Kinematic rupture": [[72, "kinematic-rupture"]], "Fault slip on triangular subfaults": [[72, "fault-slip-on-triangular-subfaults"]], "Using OpenMP": [[73, "using-openmp"]], "Using OpenMP with AMR": [[73, "using-openmp-with-amr"]], "Fixed grid output in GeoClaw": [[73, "fixed-grid-output-in-geoclaw"]], "Output data sytles and formats": [[74, "output-data-sytles-and-formats"]], "Output style": [[74, "output-style"]], "Output data formats": [[74, "output-data-formats"]], "ASCII output data format": [[74, "ascii-output-data-format"]], "fort.t0002": [[74, "fort-t0002"]], "fort.q0002": [[74, "fort-q0002"]], "Raw binary output data formats": [[74, "raw-binary-output-data-formats"]], "NetCDF output data format": [[74, "netcdf-output-data-format"]], "Output of aux arrays": [[74, "output-of-aux-arrays"]], "Which Clawpack solver should I use?": [[75, "which-clawpack-solver-should-i-use"]], "Installation and user interface": [[75, "installation-and-user-interface"]], "Algorithmic differences": [[75, "algorithmic-differences"]], "Parallel computing": [[75, "parallel-computing"]], "Clawpack Community Photos": [[76, "clawpack-community-photos"]], "2016 Developers\u2019 workshop at University of Washington": [[76, "id1"]], "2015 Developers\u2019 workshop at University of Utah": [[76, "id2"]], "2014 HPC3 workshop at KAUST": [[76, "id3"]], "2013 Claw-Dev workshop at UW": [[76, "id4"]], "2012 HPC3 workshop at KAUST": [[76, "id6"]], "2011 coding sprints at UW": [[76, "coding-sprints-at-uw"]], "2010 GeoClaw hacking UW": [[76, "geoclaw-hacking-uw"]], "Plotting examples": [[77, "plotting-examples"]], "Plotting with Visclaw": [[78, "plotting-with-visclaw"]], "Plotting as post-processing": [[78, "plotting-as-post-processing"]], "Plotting on the fly": [[78, "plotting-on-the-fly"]], "Plotting hints and FAQ": [[79, "plotting-hints-and-faq"]], "What\u2019s the difference between make .plots and make plots ?": [[79, "what-s-the-difference-between-make-plots-and-make-plots"]], "How to plot a something other than a component of q?": [[79, "how-to-plot-a-something-other-than-a-component-of-q"]], "How to add another curve to a plot, e.g. the true solution?": [[79, "how-to-add-another-curve-to-a-plot-e-g-the-true-solution"]], "How to change the title in a plot?": [[79, "how-to-change-the-title-in-a-plot"]], "How to specify outdir, the directory to find fort.* files for plotting?": [[79, "how-to-specify-outdir-the-directory-to-find-fort-files-for-plotting"]], "How to specify a different outdir for some plot item?": [[79, "how-to-specify-a-different-outdir-for-some-plot-item"]], "How to set plot parameters that are not provided as attributes of ClawPlotItem?": [[79, "how-to-set-plot-parameters-that-are-not-provided-as-attributes-of-clawplotitem"]], "How to change the size or background color of a figure?": [[79, "how-to-change-the-size-or-background-color-of-a-figure"]], "Specifying colormaps for pcolor or contourf plots": [[79, "specifying-colormaps-for-pcolor-or-contourf-plots"]], "How to debug setplot.py?": [[79, "how-to-debug-setplot-py"]], "Plotting routines for GeoClaw": [[80, "plotting-routines-for-geoclaw"]], "Plotting options in Python": [[81, "plotting-options-in-python"]], "Producing html plots from the command line": [[81, "producing-html-plots-from-the-command-line"]], "Producing a latex file with plots from the command line": [[81, "producing-a-latex-file-with-plots-from-the-command-line"]], "Setting plot parameters with a setplot function": [[81, "setting-plot-parameters-with-a-setplot-function"]], "Interactive plotting with Iplotclaw": [[81, "interactive-plotting-with-iplotclaw"]], "Access to current_data": [[81, "access-to-current-data"]], "printframes": [[81, "printframes"]], "Specifying what and how to plot": [[81, "specifying-what-and-how-to-plot"]], "Installation Prerequisites": [[82, "installation-prerequisites"]], "Operating system": [[82, "operating-system"]], "Fortran": [[82, "fortran"]], "Python": [[82, "python"]], "pip": [[82, "pip"]], "Git": [[82, "git"]], "About PyClaw": [[83, "about-pyclaw"]], "Contributors": [[83, "contributors"]], "PyClaw Basics": [[84, "pyclaw-basics"]], "Understanding Pyclaw Classes": [[85, "understanding-pyclaw-classes"]], "Flow of a Pyclaw Simulation": [[85, "flow-of-a-pyclaw-simulation"]], "Creation of a Pyclaw Solution": [[85, "creation-of-a-pyclaw-solution"]], "Creation of a Pyclaw Solver": [[85, "creation-of-a-pyclaw-solver"]], "Creating and Running a Simulation with Controller": [[85, "creating-and-running-a-simulation-with-controller"]], "Restarting a simulation": [[85, "restarting-a-simulation"]], "Outputting aux values": [[85, "outputting-aux-values"]], "Outputting derived quantities": [[85, "outputting-derived-quantities"], [95, "outputting-derived-quantities"]], "Porting a problem from Clawpack 4.6.x to PyClaw": [[86, "porting-a-problem-from-clawpack-4-6-x-to-pyclaw"]], "Running PyClaw in the cloud": [[87, "running-pyclaw-in-the-cloud"]], "Sage Math Cloud": [[87, "sage-math-cloud"]], "Pyclaw Controller Class": [[88, "pyclaw-controller-class"]], "pyclaw.controller.Controller": [[88, "pyclaw-controller-controller"]], "Pyclaw Limiters": [[89, "pyclaw-limiters"]], "clawpack.pyclaw.limiters.tvd": [[89, "module-clawpack.pyclaw.limiters.tvd"]], "CFL Independent Limiters": [[89, "cfl-independent-limiters"]], "CFL Dependent Limiters": [[89, "cfl-dependent-limiters"]], "Working with PyClaw\u2019s built-in examples": [[90, "working-with-pyclaw-s-built-in-examples"]], "Running and plotting examples": [[90, "running-and-plotting-examples"]], "Interactively in IPython": [[90, "interactively-in-ipython"]], "Built-in examples": [[90, "built-in-examples"]], "Adding new examples": [[90, "adding-new-examples"]], "PyClaw Geometry": [[91, "pyclaw-geometry"]], "Serial Geometry Objects": [[91, "serial-geometry-objects"]], "pyclaw.geometry.Domain": [[91, "pyclaw-geometry-domain"]], "pyclaw.geometry.Patch": [[91, "pyclaw-geometry-patch"]], "pyclaw.geometry.Grid": [[91, "pyclaw-geometry-grid"]], "pyclaw.geometry.Dimension": [[91, "pyclaw-geometry-dimension"]], "Parallel Geometry Objects": [[91, "parallel-geometry-objects"]], "petclaw.geometry.Domain": [[91, "petclaw-geometry-domain"]], "petclaw.geometry.Patch": [[91, "petclaw-geometry-patch"]], "Going Further": [[92, "going-further"]], "PyClaw installation": [[93, "pyclaw-installation"]], "Features": [[93, "features"]], "PyClaw Documentation": [[93, "pyclaw-documentation"]], "PyClaw Modules reference documentation": [[93, "pyclaw-modules-reference-documentation"]], "Riemann Solvers reference documentation": [[93, "riemann-solvers-reference-documentation"]], "Indices and tables": [[93, "indices-and-tables"]], "Citing PyClaw": [[93, "citing-pyclaw"]], "Pyclaw Input/Output Package": [[94, "pyclaw-input-output-package"]], "pyclaw.fileio.ascii": [[94, "module-clawpack.pyclaw.fileio.ascii"]], "pyclaw.fileio.binary": [[94, "module-clawpack.pyclaw.fileio.binary"]], "pyclaw.fileio.hdf5": [[94, "pyclaw-fileio-hdf5"]], "pyclaw.fileio.netcdf": [[94, "module-clawpack.pyclaw.fileio.netcdf"]], "PyClaw output": [[95, "pyclaw-output"]], "Output frames": [[95, "output-frames"]], "When output is saved/written": [[95, "when-output-is-saved-written"]], "Where and how output is written": [[95, "where-and-how-output-is-written"]], "What output is written": [[95, "what-output-is-written"]], "Outputting functionals": [[95, "outputting-functionals"]], "Using gauges": [[95, "using-gauges"]], "Logging": [[95, "logging"]], "Running in parallel": [[96, "running-in-parallel"]], "Installing PETSc": [[96, "installing-petsc"]], "Testing your installation": [[96, "testing-your-installation"], [155, "testing-your-installation"]], "Running and plotting an example": [[96, "running-and-plotting-an-example"]], "Tips for making your application run correctly in parallel": [[96, "tips-for-making-your-application-run-correctly-in-parallel"]], "Passing options to PETSc": [[96, "passing-options-to-petsc"]], "Plotting PyClaw results": [[97, "plotting-pyclaw-results"]], "Basics": [[97, "basics"]], "Plotting result from parallel runs": [[97, "plotting-result-from-parallel-runs"]], "Setting up your own problem": [[98, "setting-up-your-own-problem"]], "Writing the initialization script": [[98, "writing-the-initialization-script"]], "Setting initial conditions": [[98, "setting-initial-conditions"]], "Setting auxiliary variables": [[98, "setting-auxiliary-variables"]], "Setting boundary conditions": [[98, "setting-boundary-conditions"]], "Setting solver options": [[98, "setting-solver-options"]], "Using your own Riemann solver": [[98, "using-your-own-riemann-solver"]], "Adding source terms": [[98, "adding-source-terms"]], "Setting up the Makefile": [[98, "setting-up-the-makefile"]], "Riemann Solver Package": [[99, "riemann-solver-package"]], "Acoustics": [[99, "acoustics"]], "Advection": [[99, "advection"]], "Burgers Equation": [[99, "burgers-equation"]], "Euler Equations": [[99, "euler-equations"]], "Shallow Water Equations": [[99, "shallow-water-equations"]], "PyClaw Solutions": [[100, "pyclaw-solutions"]], "pyclaw.solution.Solution": [[100, "pyclaw-solution-solution"]], "Using PyClaw\u2019s solvers: Classic and SharpClaw": [[101, "using-pyclaw-s-solvers-classic-and-sharpclaw"]], "SharpClaw Solvers": [[101, "sharpclaw-solvers"]], "pyclaw.sharpclaw": [[101, "pyclaw-sharpclaw"]], "Pyclaw Classic Clawpack Solvers": [[101, "pyclaw-classic-clawpack-solvers"]], "pyclaw.classic.solver": [[101, "pyclaw-classic-solver"]], "Change to Custom BC Function Signatures": [[101, "change-to-custom-bc-function-signatures"]], "Installing PyClaw": [[102, "installing-pyclaw"]], "Dependencies: Python, gfortran, numpy, and matplotlib": [[102, "dependencies-python-gfortran-numpy-and-matplotlib"]], "Obtaining Python, numpy, and matplotlib": [[102, "obtaining-python-numpy-and-matplotlib"]], "Clawpack": [[102, "clawpack"]], "Testing your installation with nose": [[102, "testing-your-installation-with-nose"]], "Next steps": [[102, "next-steps"]], "PyClaw State": [[103, "pyclaw-state"]], "Serial pyclaw.state.State": [[103, "serial-pyclaw-state-state"]], "Parallel petclaw.state.State": [[103, "parallel-petclaw-state-state"]], "Troubleshooting": [[104, "troubleshooting"], [160, "troubleshooting"]], "Compilation errors": [[104, "compilation-errors"]], "Use Fortran-ordered arrays": [[104, "use-fortran-ordered-arrays"]], "Installation": [[104, "installation"]], "PyClaw tutorial: Solve the acoustics equations": [[105, "pyclaw-tutorial-solve-the-acoustics-equations"]], "The Solver": [[105, "the-solver"]], "The domain": [[105, "the-domain"]], "Initial condition": [[105, "initial-condition"]], "Problem-specific parameters": [[105, "problem-specific-parameters"]], "The controller": [[105, "the-controller"]], "Pyclaw Utility Module": [[106, "pyclaw-utility-module"]], "pyclaw.util": [[106, "module-clawpack.pyclaw.util"]], "Python Hints": [[107, "python-hints"]], "Dropping support for Python 2.7": [[107, "dropping-support-for-python-2-7"]], "References and tutorials": [[107, "references-and-tutorials"]], "Notebooks": [[107, "notebooks"]], "Python path": [[108, "python-path"]], "whichclaw.py": [[108, "whichclaw-py"]], "Which version was imported?": [[108, "which-version-was-imported"]], "sys.path": [[108, "sys-path"]], "easy-install.pth": [[108, "easy-install-pth"]], "PYTHONPATH": [[108, "pythonpath"], [141, "pythonpath"]], "qinit default routines": [[109, "qinit-default-routines"]], "qinit routine in GeoClaw": [[109, "qinit-routine-in-geoclaw"]], "Quick start guide for storm surge modeling": [[110, "quick-start-guide-for-storm-surge-modeling"]], "Quick start guide for tsunami modeling": [[111, "quick-start-guide-for-tsunami-modeling"]], "AMR refinement criteria": [[112, "amr-refinement-criteria"]], "Flagging criteria": [[112, "flagging-criteria"]], "flag2refine": [[112, "flag2refine"]], "Richardson extrapolation": [[112, "richardson-extrapolation"]], "Specifying AMR regions": [[112, "specifying-amr-regions"]], "Implementation": [[112, "implementation"]], "Flagging criteria in GeoClaw": [[112, "flagging-criteria-in-geoclaw"]], "Regression testing": [[113, "regression-testing"]], "Running the tests": [[113, "running-the-tests"], [113, "id2"]], "Fortran codes": [[113, "fortran-codes"]], "Travis continuous integration": [[113, "travis-continuous-integration"]], "Diff tools for checking test output": [[113, "diff-tools-for-checking-test-output"]], "chardiff tool for line-by-line comparison of output files": [[113, "chardiff-tool-for-line-by-line-comparison-of-output-files"]], "imagediff tool for pixel comparison of plots": [[113, "imagediff-tool-for-pixel-comparison-of-plots"]], "Running and writing tests in PyClaw": [[113, "running-and-writing-tests-in-pyclaw"]], "Running serial tests simultaneously": [[113, "running-serial-tests-simultaneously"]], "Running a specific test": [[113, "running-a-specific-test"]], "Doctests": [[113, "doctests"]], "Writing New Tests": [[113, "writing-new-tests"]], "v5.0.0 release notes": [[114, "v5-0-0-release-notes"]], "Changes to classic, riemann, amrclaw, geoclaw, visclaw": [[114, "changes-to-classic-riemann-amrclaw-geoclaw-visclaw"]], "v5.1.0 release notes": [[115, "v5-1-0-release-notes"]], "v5.2.0 release notes": [[116, "v5-2-0-release-notes"]], "v5.2.1 release notes": [[117, "v5-2-1-release-notes"]], "v5.2.2 release notes": [[118, "v5-2-2-release-notes"]], "v5.3.0 release notes": [[119, "v5-3-0-release-notes"]], "v5.3.1 release notes": [[120, "v5-3-1-release-notes"]], "v5.4.0 release notes": [[121, "v5-4-0-release-notes"]], "Global changes": [[121, "global-changes"]], "v5.4.1 release notes": [[122, "v5-4-1-release-notes"]], "Changes to documentation": [[122, "changes-to-documentation"], [123, "changes-to-documentation"]], "v5.5.0 release notes": [[123, "v5-5-0-release-notes"]], "v5.6.0 release notes": [[124, "v5-6-0-release-notes"]], "v5.6.1 release notes": [[125, "v5-6-1-release-notes"]], "v5.7.0 release notes": [[126, "v5-7-0-release-notes"]], "Python support": [[126, "python-support"]], "v5.7.1 release notes": [[127, "v5-7-1-release-notes"]], "v5.8.0 release notes": [[128, "v5-8-0-release-notes"]], "v5.8.1 release notes": [[129, "v5-8-1-release-notes"]], "v5.8.2 release notes": [[130, "v5-8-2-release-notes"]], "v5.9.0 release notes": [[131, "v5-9-0-release-notes"]], "v5.9.1 release notes": [[132, "v5-9-1-release-notes"]], "Releases of Clawpack and release notes": [[133, "releases-of-clawpack-and-release-notes"]], "Other notes:": [[133, "other-notes"]], "Releases:": [[133, "id1"]], "Clawpack 4.x": [[133, "clawpack-4-x"]], "Checkpointing and restarting": [[134, "checkpointing-and-restarting"]], "Checkpointing a computation": [[134, "checkpointing-a-computation"]], "Restarting a computation": [[134, "restarting-a-computation"]], "Modifying the Makefile for a restart": [[134, "modifying-the-makefile-for-a-restart"]], "Output files after a restart": [[134, "output-files-after-a-restart"]], "Riemann solvers": [[135, "riemann-solvers"]], "One-dimensional Riemann solver": [[135, "one-dimensional-riemann-solver"]], "Pointwise Riemann solvers": [[135, "pointwise-riemann-solvers"]], "f-wave Riemann solvers": [[135, "f-wave-riemann-solvers"]], "2D Riemann solvers": [[135, "d-riemann-solvers"]], "Using a custom solver": [[135, "using-a-custom-solver"]], "Adding a solver to the Riemann repository": [[135, "adding-a-solver-to-the-riemann-repository"]], "Shallow water Riemann solvers in Clawpack": [[136, "shallow-water-riemann-solvers-in-clawpack"]], "One dimension": [[136, "one-dimension"]], "Two dimensions": [[136, "two-dimensions"]], "Layered shallow water equations": [[136, "layered-shallow-water-equations"]], "Potentially useful contributions (what\u2019s missing)": [[136, "potentially-useful-contributions-whats-missing"]], "Demonstrations": [[136, "demonstrations"]], "Roe": [[136, "roe"]], "HLL": [[136, "hll"]], "Ruled Rectangles": [[137, "ruled-rectangles"]], "Relation to convex polygons": [[137, "relation-to-convex-polygons"]], "Other attributes and methods": [[137, "other-attributes-and-methods"]], "ds": [[137, "ds"]], "slu": [[137, "slu"]], "bounding_box": [[137, "bounding-box"]], "mask_outside": [[137, "mask-outside"]], "read and write, and instantiating from a file": [[137, "read-and-write-and-instantiating-from-a-file"]], "make_kml": [[137, "make-kml"]], "A GeoClaw AMR flag region": [[137, "a-geoclaw-amr-flag-region"]], "A simple rectangle": [[137, "a-simple-rectangle"]], "Defining a Ruled Rectangle covering selected cells": [[137, "defining-a-ruled-rectangle-covering-selected-cells"]], "Example covering the continental shelf": [[137, "example-covering-the-continental-shelf"]], "Setting sea_level": [[138, "setting-sea-level"]], "Set Eta Init \u2013 spatially varying initial surface elevation": [[139, "set-eta-init-spatially-varying-initial-surface-elevation"]], "Default behavior, adjusting sea level by seismic deformation": [[139, "default-behavior-adjusting-sea-level-by-seismic-deformation"]], "Other use cases": [[139, "other-use-cases"]], "setaux default routines": [[140, "setaux-default-routines"]], "setaux routine in GeoClaw": [[140, "setaux-routine-in-geoclaw"]], "Set environment variables": [[141, "set-environment-variables"]], "CLAW": [[141, "claw"]], "FC": [[141, "fc"]], "Using setplot.py to specify the desired plots": [[142, "using-setplot-py-to-specify-the-desired-plots"]], "Plotting Data Objects": [[142, "plotting-data-objects"]], "Overview": [[142, "overview"]], "Specifying classic run-time parameters in setrun.py": [[143, "specifying-classic-run-time-parameters-in-setrun-py"]], "Input": [[143, "input"], [144, "input"]], "Output": [[143, "output"], [144, "output"]], "Run-time parameters": [[143, "run-time-parameters"], [144, "run-time-parameters"]], "Specifying AMRClaw run-time parameters in setrun.py": [[144, "specifying-amrclaw-run-time-parameters-in-setrun-py"]], "Special AMR parameters": [[144, "special-amr-parameters"]], "Debugging flags for additional printing": [[144, "debugging-flags-for-additional-printing"]], "Sample setrun.py module for AMRClaw": [[145, "sample-setrun-py-module-for-amrclaw"]], "Specifying GeoClaw parameters in setrun.py": [[146, "specifying-geoclaw-parameters-in-setrun-py"]], "Additional AMR parameters": [[146, "additional-amr-parameters"]], "General geo parameters": [[146, "general-geo-parameters"]], "Topography data file parameters": [[146, "topography-data-file-parameters"]], "qinit data file parameters": [[146, "qinit-data-file-parameters"]], "Force some cells to be initially dry": [[146, "force-some-cells-to-be-initially-dry"]], "Adjust sea level in some regions": [[146, "adjust-sea-level-in-some-regions"]], "AMR refinement region parameters": [[146, "amr-refinement-region-parameters"]], "Deprecated Fixedgrid output parameters": [[146, "deprecated-fixedgrid-output-parameters"]], "Fixed grid maximum monitoring / arrival times": [[146, "fixed-grid-maximum-monitoring-arrival-times"]], "Storm Specification Data": [[146, "storm-specification-data"]], "Sample setrun.py module for classic Clawpack": [[147, "sample-setrun-py-module-for-classic-clawpack"]], "Saving and sharing results": [[148, "saving-and-sharing-results"]], "Making webpages of plots": [[148, "making-webpages-of-plots"]], "Sharing your results": [[148, "sharing-your-results"]], "Jupyter notebooks": [[148, "jupyter-notebooks"]], "Source terms for shallow water on the sphere": [[149, "source-terms-for-shallow-water-on-the-sphere"]], "Compiling the Sphinx documentation locally": [[150, "compiling-the-sphinx-documentation-locally"]], "src1d default routines": [[151, "src1d-default-routines"]], "src1d routine in GeoClaw": [[151, "src1d-routine-in-geoclaw"]], "src default routines": [[152, "src-default-routines"]], "src routine in GeoClaw": [[152, "src-routine-in-geoclaw"]], "Storm Specification Class and Tools": [[153, "storm-specification-class-and-tools"]], "Sources for Storm Surge Data": [[154, "sources-for-storm-surge-data"]], "Timing Statistics": [[156, "timing-statistics"]], "Topography data": [[157, "topography-data"]], "Downloading topography files": [[157, "downloading-topography-files"]], "NetCDF format": [[157, "netcdf-format"]], "Topography displacement files": [[157, "topography-displacement-files"]], "qinit data file": [[157, "qinit-data-file"]], "Python tools for working with topo and dtopo": [[158, "python-tools-for-working-with-topo-and-dtopo"]], "topotools module for working with topography data": [[159, "topotools-module-for-working-with-topography-data"]], "Troubleshooting Installation": [[160, "troubleshooting-installation"]], "Troubleshooting Fortran:": [[160, "troubleshooting-fortran"]], "Setting the Fortran compiler to be used by f2py (pip)": [[160, "setting-the-fortran-compiler-to-be-used-by-f2py-pip"]], "Trouble compiling Fortran code at the command line": [[160, "trouble-compiling-fortran-code-at-the-command-line"]], "Trouble running \u201cmake .exe\u201d": [[160, "trouble-running-make-exe"]], "Trouble running \u201cmake .data\u201d": [[160, "trouble-running-make-data"]], "Trouble running \u201cmake .output\u201d": [[160, "trouble-running-make-output"]], "Trouble running \u201cmake .plots\u201d": [[160, "trouble-running-make-plots"]], "Some sources of tsunami data": [[161, "some-sources-of-tsunami-data"]], "Topography / bathymetry": [[161, "topography-bathymetry"]], "Earthquake source models": [[161, "earthquake-source-models"]], "DART buoy data": [[161, "dart-buoy-data"]], "Tide gauges": [[161, "tide-gauges"]], "User files required for the Fortran code": [[162, "user-files-required-for-the-fortran-code"]], "Specifying the 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"godunov-s-method"]], "High-resolution methods": [[165, "high-resolution-methods"]], "f-wave formulation": [[165, "f-wave-formulation"]], "Capacity functions": [[165, "capacity-functions"]], "Source terms": [[165, "source-terms"]]}, "indexentries": {"clawplotaxes (built-in class)": [[0, "ClawPlotAxes"]], "gethandle()": [[0, "gethandle"], [2, "gethandle"], [3, "gethandle"]], "new_plotitem()": [[0, "new_plotitem"]], "clawplotdata (built-in class)": [[1, "ClawPlotData"]], "clearfigures()": [[1, "clearfigures"]], "clearframes()": [[1, "clearframes"]], "getaxes()": [[1, "getaxes"]], "getfigure()": [[1, "getfigure"]], "getframe()": [[1, "getframe"], [3, "getframe"]], "getitem()": [[1, "getitem"]], "iplotclaw()": [[1, "iplotclaw"]], "new_plotfigure()": [[1, "new_plotfigure"]], "plotframe()": [[1, "plotframe"]], "printframes()": [[1, "printframes"]], "showitems()": [[1, "showitems"]], "clawplotfigure (built-in class)": [[2, "ClawPlotFigure"]], "new_plotaxes()": [[2, "new_plotaxes"]], "clawplotitem (built-in class)": [[3, "ClawPlotItem"]], "csvfault (class in clawpack.geoclaw.dtopotools)": [[30, "clawpack.geoclaw.dtopotools.CSVFault"]], "dtopography (class in clawpack.geoclaw.dtopotools)": [[30, "clawpack.geoclaw.dtopotools.DTopography"]], "fault (class in clawpack.geoclaw.dtopotools)": [[30, "clawpack.geoclaw.dtopotools.Fault"]], "mo() (clawpack.geoclaw.dtopotools.fault method)": [[30, "clawpack.geoclaw.dtopotools.Fault.Mo"]], "mo() (clawpack.geoclaw.dtopotools.subfault method)": [[30, "clawpack.geoclaw.dtopotools.SubFault.Mo"]], "mw() (clawpack.geoclaw.dtopotools.fault method)": [[30, "clawpack.geoclaw.dtopotools.Fault.Mw"]], "mw() (in module clawpack.geoclaw.dtopotools)": [[30, "clawpack.geoclaw.dtopotools.Mw"]], "siftfault (class in clawpack.geoclaw.dtopotools)": [[30, "clawpack.geoclaw.dtopotools.SiftFault"]], "subfault (class in clawpack.geoclaw.dtopotools)": [[30, "clawpack.geoclaw.dtopotools.SubFault"]], "subdividedplanefault (class in clawpack.geoclaw.dtopotools)": [[30, "clawpack.geoclaw.dtopotools.SubdividedPlaneFault"]], "tensorproductfault (class in clawpack.geoclaw.dtopotools)": [[30, "clawpack.geoclaw.dtopotools.TensorProductFault"]], "ucsbfault (class in clawpack.geoclaw.dtopotools)": [[30, "clawpack.geoclaw.dtopotools.UCSBFault"]], "calculate_geometry() (clawpack.geoclaw.dtopotools.subfault method)": [[30, "clawpack.geoclaw.dtopotools.SubFault.calculate_geometry"]], "calculate_geometry_triangles() (clawpack.geoclaw.dtopotools.subfault method)": [[30, "clawpack.geoclaw.dtopotools.SubFault.calculate_geometry_triangles"]], "centers (clawpack.geoclaw.dtopotools.subfault property)": [[30, "clawpack.geoclaw.dtopotools.SubFault.centers"]], "clawpack.geoclaw.dtopotools": [[30, "module-clawpack.geoclaw.dtopotools"]], "containing_rect() (clawpack.geoclaw.dtopotools.fault method)": [[30, "clawpack.geoclaw.dtopotools.Fault.containing_rect"]], "convert_to_standard_units() (clawpack.geoclaw.dtopotools.subfault method)": [[30, "clawpack.geoclaw.dtopotools.SubFault.convert_to_standard_units"]], "coordinate_specification (clawpack.geoclaw.dtopotools.subfault attribute)": [[30, "clawpack.geoclaw.dtopotools.SubFault.coordinate_specification"]], "corners (clawpack.geoclaw.dtopotools.subfault property)": [[30, "clawpack.geoclaw.dtopotools.SubFault.corners"]], "create_dtopo_xy() (clawpack.geoclaw.dtopotools.fault method)": [[30, "clawpack.geoclaw.dtopotools.Fault.create_dtopo_xy"]], "create_dtopography() (clawpack.geoclaw.dtopotools.fault method)": [[30, "clawpack.geoclaw.dtopotools.Fault.create_dtopography"]], "dz_at_t() (clawpack.geoclaw.dtopotools.dtopography method)": [[30, "clawpack.geoclaw.dtopotools.DTopography.dZ_at_t"]], "dz_max() (clawpack.geoclaw.dtopotools.dtopography method)": [[30, "clawpack.geoclaw.dtopotools.DTopography.dZ_max"]], "depth (clawpack.geoclaw.dtopotools.subfault attribute)": [[30, "clawpack.geoclaw.dtopotools.SubFault.depth"]], "dip (clawpack.geoclaw.dtopotools.subfault attribute)": [[30, "clawpack.geoclaw.dtopotools.SubFault.dip"]], "dynamic_slip() (clawpack.geoclaw.dtopotools.subfault method)": [[30, "clawpack.geoclaw.dtopotools.SubFault.dynamic_slip"]], "gauss_pts (clawpack.geoclaw.dtopotools.subfault property)": [[30, "clawpack.geoclaw.dtopotools.SubFault.gauss_pts"]], "latitude (clawpack.geoclaw.dtopotools.subfault attribute)": [[30, "clawpack.geoclaw.dtopotools.SubFault.latitude"]], "length (clawpack.geoclaw.dtopotools.subfault attribute)": [[30, "clawpack.geoclaw.dtopotools.SubFault.length"]], "longitude (clawpack.geoclaw.dtopotools.subfault attribute)": [[30, "clawpack.geoclaw.dtopotools.SubFault.longitude"]], "module": [[30, "module-clawpack.geoclaw.dtopotools"], [33, "module-clawpack.geoclaw.fgmax_tools"], [35, "module-clawpack.geoclaw.fgout_tools"], [48, "module-clawpack.geoclaw.util"], [60, "module-clawpack.geoclaw.kmltools"], [89, "module-clawpack.pyclaw.limiters.tvd"], [94, "module-clawpack.pyclaw.fileio.ascii"], [94, 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"clawpack.geoclaw.dtopotools.DTopography.plot_dZ_contours"]], "plot_dz_contours() (in module clawpack.geoclaw.dtopotools)": [[30, "clawpack.geoclaw.dtopotools.plot_dZ_contours"]], "plot_subfaults() (clawpack.geoclaw.dtopotools.fault method)": [[30, "clawpack.geoclaw.dtopotools.Fault.plot_subfaults"]], "plot_subfaults_depth() (clawpack.geoclaw.dtopotools.fault method)": [[30, "clawpack.geoclaw.dtopotools.Fault.plot_subfaults_depth"]], "rake (clawpack.geoclaw.dtopotools.subfault attribute)": [[30, "clawpack.geoclaw.dtopotools.SubFault.rake"]], "read() (clawpack.geoclaw.dtopotools.csvfault method)": [[30, "clawpack.geoclaw.dtopotools.CSVFault.read"]], "read() (clawpack.geoclaw.dtopotools.dtopography method)": [[30, "clawpack.geoclaw.dtopotools.DTopography.read"]], "read() (clawpack.geoclaw.dtopotools.fault method)": [[30, "clawpack.geoclaw.dtopotools.Fault.read"]], "read() (clawpack.geoclaw.dtopotools.ucsbfault method)": [[30, "clawpack.geoclaw.dtopotools.UCSBFault.read"]], "rise_fraction() (in module clawpack.geoclaw.dtopotools)": [[30, "clawpack.geoclaw.dtopotools.rise_fraction"]], "rise_shape (clawpack.geoclaw.dtopotools.subfault attribute)": [[30, "clawpack.geoclaw.dtopotools.SubFault.rise_shape"]], "rise_time (clawpack.geoclaw.dtopotools.subfault attribute)": [[30, "clawpack.geoclaw.dtopotools.SubFault.rise_time"]], "rise_time_starting (clawpack.geoclaw.dtopotools.subfault attribute)": [[30, "clawpack.geoclaw.dtopotools.SubFault.rise_time_starting"]], "rupture_time (clawpack.geoclaw.dtopotools.subfault attribute)": [[30, "clawpack.geoclaw.dtopotools.SubFault.rupture_time"]], "rupture_type (clawpack.geoclaw.dtopotools.subfault attribute)": [[30, "clawpack.geoclaw.dtopotools.SubFault.rupture_type"]], "set_corners() (clawpack.geoclaw.dtopotools.subfault method)": [[30, "clawpack.geoclaw.dtopotools.SubFault.set_corners"]], "set_dynamic_slip() (clawpack.geoclaw.dtopotools.fault method)": [[30, "clawpack.geoclaw.dtopotools.Fault.set_dynamic_slip"]], "set_subfaults() (clawpack.geoclaw.dtopotools.siftfault method)": [[30, "clawpack.geoclaw.dtopotools.SiftFault.set_subfaults"]], "slip (clawpack.geoclaw.dtopotools.subfault attribute)": [[30, "clawpack.geoclaw.dtopotools.SubFault.slip"]], "strike (clawpack.geoclaw.dtopotools.subfault attribute)": [[30, "clawpack.geoclaw.dtopotools.SubFault.strike"]], "strike_direction() (in module clawpack.geoclaw.dtopotools)": [[30, "clawpack.geoclaw.dtopotools.strike_direction"]], "subdivide() (clawpack.geoclaw.dtopotools.subdividedplanefault method)": [[30, "clawpack.geoclaw.dtopotools.SubdividedPlaneFault.subdivide"]], "width (clawpack.geoclaw.dtopotools.subfault attribute)": [[30, "clawpack.geoclaw.dtopotools.SubFault.width"]], "write() (clawpack.geoclaw.dtopotools.dtopography method)": [[30, "clawpack.geoclaw.dtopotools.DTopography.write"]], "write() (clawpack.geoclaw.dtopotools.fault method)": [[30, "clawpack.geoclaw.dtopotools.Fault.write"]], "fgmaxgrid (class in clawpack.geoclaw.fgmax_tools)": 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"clawpack.geoclaw.fgmax_tools.FGmaxGrid.write_to_fgmax_data"]], "b (clawpack.geoclaw.fgout_tools.fgoutframe property)": [[35, "clawpack.geoclaw.fgout_tools.FGoutFrame.B"]], "fgoutframe (class in clawpack.geoclaw.fgout_tools)": [[35, "clawpack.geoclaw.fgout_tools.FGoutFrame"]], "fgoutgrid (class in clawpack.geoclaw.fgout_tools)": [[35, "clawpack.geoclaw.fgout_tools.FGoutGrid"]], "x (clawpack.geoclaw.fgout_tools.fgoutgrid property)": [[35, "clawpack.geoclaw.fgout_tools.FGoutGrid.X"], [35, "clawpack.geoclaw.fgout_tools.FGoutGrid.x"]], "y (clawpack.geoclaw.fgout_tools.fgoutgrid property)": [[35, "clawpack.geoclaw.fgout_tools.FGoutGrid.Y"], [35, "clawpack.geoclaw.fgout_tools.FGoutGrid.y"]], "clawpack.geoclaw.fgout_tools": [[35, "module-clawpack.geoclaw.fgout_tools"]], "eta (clawpack.geoclaw.fgout_tools.fgoutframe property)": [[35, "clawpack.geoclaw.fgout_tools.FGoutFrame.eta"]], "extent_centers (clawpack.geoclaw.fgout_tools.fgoutgrid property)": [[35, "clawpack.geoclaw.fgout_tools.FGoutGrid.extent_centers"]], "extent_edges (clawpack.geoclaw.fgout_tools.fgoutgrid property)": [[35, "clawpack.geoclaw.fgout_tools.FGoutGrid.extent_edges"]], "get_as_array() (in module clawpack.geoclaw.fgout_tools)": [[35, "clawpack.geoclaw.fgout_tools.get_as_array"]], "h (clawpack.geoclaw.fgout_tools.fgoutframe property)": [[35, "clawpack.geoclaw.fgout_tools.FGoutFrame.h"]], "hss (clawpack.geoclaw.fgout_tools.fgoutframe property)": [[35, "clawpack.geoclaw.fgout_tools.FGoutFrame.hss"]], "hu (clawpack.geoclaw.fgout_tools.fgoutframe property)": [[35, "clawpack.geoclaw.fgout_tools.FGoutFrame.hu"]], "hv (clawpack.geoclaw.fgout_tools.fgoutframe property)": [[35, "clawpack.geoclaw.fgout_tools.FGoutFrame.hv"]], "make_fgout_fcn_xy() (in module clawpack.geoclaw.fgout_tools)": [[35, "clawpack.geoclaw.fgout_tools.make_fgout_fcn_xy"]], "make_fgout_fcn_xyt() (in module clawpack.geoclaw.fgout_tools)": [[35, "clawpack.geoclaw.fgout_tools.make_fgout_fcn_xyt"]], "print_netcdf_info() (in module clawpack.geoclaw.fgout_tools)": [[35, "clawpack.geoclaw.fgout_tools.print_netcdf_info"]], "read_fgout_grids_data() (clawpack.geoclaw.fgout_tools.fgoutgrid method)": [[35, "clawpack.geoclaw.fgout_tools.FGoutGrid.read_fgout_grids_data"]], "read_frame() (clawpack.geoclaw.fgout_tools.fgoutgrid method)": [[35, "clawpack.geoclaw.fgout_tools.FGoutGrid.read_frame"]], "read_netcdf() (in module clawpack.geoclaw.fgout_tools)": [[35, "clawpack.geoclaw.fgout_tools.read_netcdf"]], "read_netcdf_arrays() (in module clawpack.geoclaw.fgout_tools)": [[35, "clawpack.geoclaw.fgout_tools.read_netcdf_arrays"]], "s (clawpack.geoclaw.fgout_tools.fgoutframe property)": [[35, "clawpack.geoclaw.fgout_tools.FGoutFrame.s"]], "set_plotdata() (clawpack.geoclaw.fgout_tools.fgoutgrid method)": [[35, "clawpack.geoclaw.fgout_tools.FGoutGrid.set_plotdata"]], "u (clawpack.geoclaw.fgout_tools.fgoutframe property)": [[35, "clawpack.geoclaw.fgout_tools.FGoutFrame.u"]], "v (clawpack.geoclaw.fgout_tools.fgoutframe property)": [[35, "clawpack.geoclaw.fgout_tools.FGoutFrame.v"]], "write_netcdf() (in module clawpack.geoclaw.fgout_tools)": [[35, "clawpack.geoclaw.fgout_tools.write_netcdf"]], "write_to_fgout_data() (clawpack.geoclaw.fgout_tools.fgoutgrid method)": [[35, "clawpack.geoclaw.fgout_tools.FGoutGrid.write_to_fgout_data"]], "bearing() (in module clawpack.geoclaw.util)": [[48, "clawpack.geoclaw.util.bearing"]], "clawpack.geoclaw.util": [[48, "module-clawpack.geoclaw.util"]], "dist_latlong2meters() (in module clawpack.geoclaw.util)": [[48, "clawpack.geoclaw.util.dist_latlong2meters"]], "dist_meters2latlong() (in module clawpack.geoclaw.util)": [[48, "clawpack.geoclaw.util.dist_meters2latlong"]], "dms2decimal() (in module clawpack.geoclaw.util)": [[48, "clawpack.geoclaw.util.dms2decimal"]], "fetch_noaa_tide_data() (in module clawpack.geoclaw.util)": [[48, "clawpack.geoclaw.util.fetch_noaa_tide_data"]], "haversine() (in module clawpack.geoclaw.util)": [[48, "clawpack.geoclaw.util.haversine"]], "inv_haversine() (in module clawpack.geoclaw.util)": [[48, "clawpack.geoclaw.util.inv_haversine"]], "box2kml() (in module clawpack.geoclaw.kmltools)": [[60, "clawpack.geoclaw.kmltools.box2kml"]], "clawpack.geoclaw.kmltools": [[60, "module-clawpack.geoclaw.kmltools"]], "deg2dms() (in module clawpack.geoclaw.kmltools)": [[60, "clawpack.geoclaw.kmltools.deg2dms"]], "dtopo2kml() (in module clawpack.geoclaw.kmltools)": [[60, "clawpack.geoclaw.kmltools.dtopo2kml"]], "f2s() (in module clawpack.geoclaw.kmltools)": [[60, "clawpack.geoclaw.kmltools.f2s"]], "fgmax2kml() (in module clawpack.geoclaw.kmltools)": [[60, "clawpack.geoclaw.kmltools.fgmax2kml"]], "fgout2kml() (in module clawpack.geoclaw.kmltools)": [[60, "clawpack.geoclaw.kmltools.fgout2kml"]], "gauges2kml() (in module clawpack.geoclaw.kmltools)": [[60, "clawpack.geoclaw.kmltools.gauges2kml"]], "kml_build_colorbar() (in module clawpack.geoclaw.kmltools)": [[60, "clawpack.geoclaw.kmltools.kml_build_colorbar"]], "kml_cb() (in module clawpack.geoclaw.kmltools)": [[60, "clawpack.geoclaw.kmltools.kml_cb"]], "kml_png() (in module clawpack.geoclaw.kmltools)": [[60, "clawpack.geoclaw.kmltools.kml_png"]], "kml_timespan() (in module clawpack.geoclaw.kmltools)": [[60, "clawpack.geoclaw.kmltools.kml_timespan"]], "line2kml() (in module clawpack.geoclaw.kmltools)": [[60, "clawpack.geoclaw.kmltools.line2kml"]], "make_input_data_kmls() (in module clawpack.geoclaw.kmltools)": [[60, "clawpack.geoclaw.kmltools.make_input_data_kmls"]], "pcolorcells_for_kml() (in module clawpack.geoclaw.kmltools)": [[60, "clawpack.geoclaw.kmltools.pcolorcells_for_kml"]], "png2kml() (in module clawpack.geoclaw.kmltools)": [[60, "clawpack.geoclaw.kmltools.png2kml"]], "poly2kml() (in module clawpack.geoclaw.kmltools)": [[60, "clawpack.geoclaw.kmltools.poly2kml"]], "quad2kml() (in module clawpack.geoclaw.kmltools)": [[60, "clawpack.geoclaw.kmltools.quad2kml"]], "regions2kml() (in module clawpack.geoclaw.kmltools)": [[60, "clawpack.geoclaw.kmltools.regions2kml"]], "topo2kml() (in module clawpack.geoclaw.kmltools)": [[60, "clawpack.geoclaw.kmltools.topo2kml"]], "topo2kmz() (in module clawpack.geoclaw.kmltools)": [[60, "clawpack.geoclaw.kmltools.topo2kmz"]], "controller (class in clawpack.pyclaw.controller)": [[88, "clawpack.pyclaw.controller.Controller"]], "f_file_name (clawpack.pyclaw.controller.controller attribute)": [[88, "clawpack.pyclaw.controller.Controller.F_file_name"]], "f_path (clawpack.pyclaw.controller.controller property)": [[88, "clawpack.pyclaw.controller.Controller.F_path"]], "check_validity() (clawpack.pyclaw.controller.controller method)": [[88, "clawpack.pyclaw.controller.Controller.check_validity"]], "compute_f (clawpack.pyclaw.controller.controller attribute)": [[88, "clawpack.pyclaw.controller.Controller.compute_F"]], "compute_p (clawpack.pyclaw.controller.controller attribute)": [[88, "clawpack.pyclaw.controller.Controller.compute_p"]], "file_prefix_p (clawpack.pyclaw.controller.controller attribute)": [[88, "clawpack.pyclaw.controller.Controller.file_prefix_p"]], "frames (clawpack.pyclaw.controller.controller attribute)": [[88, "clawpack.pyclaw.controller.Controller.frames"]], "keep_copy (clawpack.pyclaw.controller.controller attribute)": [[88, "clawpack.pyclaw.controller.Controller.keep_copy"]], "nstepout (clawpack.pyclaw.controller.controller attribute)": [[88, "clawpack.pyclaw.controller.Controller.nstepout"]], "num_output_times (clawpack.pyclaw.controller.controller attribute)": [[88, "clawpack.pyclaw.controller.Controller.num_output_times"]], "out_times (clawpack.pyclaw.controller.controller attribute)": [[88, "clawpack.pyclaw.controller.Controller.out_times"]], "outdir (clawpack.pyclaw.controller.controller attribute)": [[88, "clawpack.pyclaw.controller.Controller.outdir"]], "outdir_p (clawpack.pyclaw.controller.controller property)": [[88, "clawpack.pyclaw.controller.Controller.outdir_p"]], "output_file_prefix (clawpack.pyclaw.controller.controller attribute)": [[88, "clawpack.pyclaw.controller.Controller.output_file_prefix"]], "output_format (clawpack.pyclaw.controller.controller attribute)": [[88, "clawpack.pyclaw.controller.Controller.output_format"]], "output_options (clawpack.pyclaw.controller.controller attribute)": [[88, "clawpack.pyclaw.controller.Controller.output_options"]], "output_style (clawpack.pyclaw.controller.controller attribute)": [[88, "clawpack.pyclaw.controller.Controller.output_style"]], "overwrite (clawpack.pyclaw.controller.controller attribute)": [[88, "clawpack.pyclaw.controller.Controller.overwrite"]], "plot() (clawpack.pyclaw.controller.controller method)": [[88, "clawpack.pyclaw.controller.Controller.plot"]], "plotdata (clawpack.pyclaw.controller.controller attribute)": [[88, "clawpack.pyclaw.controller.Controller.plotdata"]], "run() (clawpack.pyclaw.controller.controller method)": [[88, "clawpack.pyclaw.controller.Controller.run"]], "rundir (clawpack.pyclaw.controller.controller attribute)": [[88, "clawpack.pyclaw.controller.Controller.rundir"]], "runmake (clawpack.pyclaw.controller.controller attribute)": [[88, "clawpack.pyclaw.controller.Controller.runmake"]], "savecode (clawpack.pyclaw.controller.controller attribute)": [[88, "clawpack.pyclaw.controller.Controller.savecode"]], "solver (clawpack.pyclaw.controller.controller attribute)": [[88, "clawpack.pyclaw.controller.Controller.solver"]], "tfinal (clawpack.pyclaw.controller.controller attribute)": [[88, "clawpack.pyclaw.controller.Controller.tfinal"]], "verbosity (clawpack.pyclaw.controller.controller property)": [[88, "clawpack.pyclaw.controller.Controller.verbosity"]], "viewable_attributes (clawpack.pyclaw.controller.controller attribute)": [[88, "clawpack.pyclaw.controller.Controller.viewable_attributes"]], "write_aux_always (clawpack.pyclaw.controller.controller attribute)": [[88, "clawpack.pyclaw.controller.Controller.write_aux_always"]], "write_aux_init (clawpack.pyclaw.controller.controller attribute)": [[88, "clawpack.pyclaw.controller.Controller.write_aux_init"]], "xclawcmd (clawpack.pyclaw.controller.controller attribute)": [[88, "clawpack.pyclaw.controller.Controller.xclawcmd"]], "xclawerr (clawpack.pyclaw.controller.controller attribute)": [[88, "clawpack.pyclaw.controller.Controller.xclawerr"]], "xclawout (clawpack.pyclaw.controller.controller attribute)": [[88, "clawpack.pyclaw.controller.Controller.xclawout"]], "xdir (clawpack.pyclaw.controller.controller attribute)": [[88, "clawpack.pyclaw.controller.Controller.xdir"]], "arora_roe() (in module clawpack.pyclaw.limiters.tvd)": [[89, "clawpack.pyclaw.limiters.tvd.arora_roe"]], "beta_limiter() (in module clawpack.pyclaw.limiters.tvd)": [[89, "clawpack.pyclaw.limiters.tvd.beta_limiter"]], "cada_torrilhon_limiter() (in module clawpack.pyclaw.limiters.tvd)": [[89, "clawpack.pyclaw.limiters.tvd.cada_torrilhon_limiter"]], "cada_torrilhon_limiter_nonlinear() (in module clawpack.pyclaw.limiters.tvd)": [[89, "clawpack.pyclaw.limiters.tvd.cada_torrilhon_limiter_nonlinear"]], "cfl_superbee() (in module clawpack.pyclaw.limiters.tvd)": [[89, "clawpack.pyclaw.limiters.tvd.cfl_superbee"]], "cfl_superbee_theta() (in module clawpack.pyclaw.limiters.tvd)": [[89, "clawpack.pyclaw.limiters.tvd.cfl_superbee_theta"]], "clawpack.pyclaw.limiters.tvd": [[89, "module-clawpack.pyclaw.limiters.tvd"]], "hyperbee_limiter() (in module clawpack.pyclaw.limiters.tvd)": [[89, "clawpack.pyclaw.limiters.tvd.hyperbee_limiter"]], "limit() (in module clawpack.pyclaw.limiters.tvd)": [[89, "clawpack.pyclaw.limiters.tvd.limit"]], "mc_limiter() (in module clawpack.pyclaw.limiters.tvd)": [[89, "clawpack.pyclaw.limiters.tvd.mc_limiter"]], "minmod_limiter() (in module clawpack.pyclaw.limiters.tvd)": [[89, "clawpack.pyclaw.limiters.tvd.minmod_limiter"]], "superbee_limiter() (in module clawpack.pyclaw.limiters.tvd)": [[89, "clawpack.pyclaw.limiters.tvd.superbee_limiter"]], 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clawpack.geoclaw.topotools)": [[159, "clawpack.geoclaw.topotools.topo1writer"]], "topo2writer() (in module clawpack.geoclaw.topotools)": [[159, "clawpack.geoclaw.topotools.topo2writer"]], "topo3writer() (in module clawpack.geoclaw.topotools)": [[159, "clawpack.geoclaw.topotools.topo3writer"]], "write() (clawpack.geoclaw.topotools.topography method)": [[159, "clawpack.geoclaw.topotools.Topography.write"]]}}) \ No newline at end of file diff --git a/v5.9.x/topotools_module.html b/v5.9.x/topotools_module.html index 0149ecc5b..c5e9943ae 100644 --- a/v5.9.x/topotools_module.html +++ b/v5.9.x/topotools_module.html @@ -136,7 +136,7 @@

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-class clawpack.geoclaw.topotools.Topography(path=None, topo_type=None, topo_func=None, unstructured=False)
+class clawpack.geoclaw.topotools.Topography(path=None, topo_func=None, topo_type=None, unstructured=False)

Base topography class.

A class representing a single topography file.