From 23c9fd4779f4e13c53fe1d3c2529faff1a254aa9 Mon Sep 17 00:00:00 2001 From: Randy LeVeque Date: Tue, 3 Oct 2023 14:43:28 -0600 Subject: [PATCH] trying to get new 5.9.x branch to show up on web --- dev/.buildinfo | 2 +- dev/.doctrees/ClawPlotAxes.doctree | Bin 56222 -> 56222 bytes dev/.doctrees/ClawPlotData.doctree | Bin 44301 -> 44301 bytes dev/.doctrees/ClawPlotFigure.doctree | Bin 18963 -> 18963 bytes dev/.doctrees/ClawPlotItem.doctree | Bin 68310 -> 68310 bytes dev/.doctrees/about.doctree | Bin 46961 -> 46961 bytes dev/.doctrees/adjoint.doctree | Bin 33270 -> 33270 bytes dev/.doctrees/amr_algorithm.doctree | Bin 38918 -> 38918 bytes dev/.doctrees/amrclaw.doctree | Bin 10889 -> 10889 bytes dev/.doctrees/amrclaw1d.doctree | Bin 8036 -> 8036 bytes dev/.doctrees/amrclaw_doxygen.doctree | Bin 5673 -> 5673 bytes dev/.doctrees/amrclaw_flowcharts.doctree | Bin 6142 -> 6142 bytes .../application_documentation.doctree | Bin 8859 -> 8859 bytes dev/.doctrees/apps.doctree | Bin 15922 -> 15922 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-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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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], 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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], 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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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88, 96, 98, 100, 103, 110, 112, 131, 144, 145, 146, 147, 157], "dimens": [5, 6, 7, 16, 20, 22, 25, 45, 48, 54, 60, 68, 69, 85, 86, 88, 94, 96, 98, 99, 100, 103, 105, 112, 123, 126, 135, 143, 144, 145, 147, 159, 162], "int_a": 5, "phi": 5, "dx": [5, 15, 30, 32, 33, 34, 48, 54, 61, 72, 74, 86, 91, 95, 119, 123, 140, 157, 159, 162], "leq": [5, 137], "backward": [5, 28, 30, 33, 48, 60, 72, 74, 94, 116, 117, 132, 149, 159], "small": [5, 16, 34, 40, 45, 65, 67, 112, 113, 115, 120, 134, 143, 145, 146, 157, 159, 161], "sai": [5, 13, 16, 28, 60, 104, 112], "x_1": [5, 137], "x_2": [5, 137], "might": [5, 10, 13, 14, 16, 22, 28, 29, 35, 36, 37, 38, 39, 40, 48, 52, 54, 55, 59, 64, 67, 68, 69, 73, 79, 82, 85, 95, 99, 108, 110, 111, 112, 115, 143, 144, 157, 159, 161, 162], "box": [5, 30, 33, 52, 60, 137, 159], "interv": [5, 45, 48, 85, 105, 112, 128, 137, 143, 146], "elsewher": [5, 24, 40, 93, 137], "sharpli": 5, "peak": 5, "gaussian": [5, 85, 105, 147], "final": [5, 30, 35, 42, 55, 61, 68, 72, 85, 88, 95, 105, 110, 115, 134, 136, 143, 145, 147, 159], "necessari": [5, 6, 13, 34, 35, 36, 37, 47, 49, 52, 55, 56, 59, 60, 68, 72, 74, 75, 81, 85, 86, 91, 94, 119, 121, 123, 134, 135, 142, 143, 144, 157, 160, 162], "place": [5, 16, 20, 24, 28, 36, 37, 52, 55, 59, 63, 64, 71, 93, 95, 96, 98, 102, 108, 115, 121, 162], "earlier": [5, 20, 22, 30, 32, 39, 45, 54, 72, 85, 98, 115, 122, 134, 157, 159], "help": [5, 7, 9, 23, 24, 25, 28, 29, 40, 41, 50, 55, 57, 63, 78, 81, 93, 96, 102, 106, 113, 120, 126, 135, 148, 160], "identifi": [5, 36, 37, 40, 52, 67, 86, 112, 126, 153], "hat": 5, "given": [5, 30, 40, 48, 52, 54, 60, 65, 68, 72, 89, 96, 100, 101, 103, 106, 112, 128, 137, 138, 139, 146, 157, 159, 162], "t_r": 5, "reach": [5, 112, 134], "acoustics_1d_adjoint": 5, "acoustics_2d_adjoint": 5, "main": [5, 11, 12, 19, 28, 40, 44, 55, 56, 67, 68, 75, 86, 88, 94, 98, 105, 106, 113, 122, 131], "subdirectori": [5, 12, 20, 22, 23, 36, 37, 55, 56, 59, 63, 71, 81, 90, 95, 108, 113, 131, 142, 146, 148, 155, 159], "must": [5, 6, 13, 16, 20, 22, 28, 30, 32, 34, 40, 44, 47, 52, 55, 58, 62, 63, 64, 67, 68, 72, 73, 74, 83, 86, 93, 94, 95, 98, 100, 101, 103, 104, 105, 106, 108, 112, 115, 119, 135, 137, 138, 139, 143, 144, 145, 146, 147, 153, 159, 160, 161, 162, 165], "makefil": [5, 6, 11, 14, 15, 16, 19, 20, 23, 25, 28, 34, 36, 37, 42, 55, 73, 75, 79, 81, 86, 92, 93, 112, 115, 119, 121, 123, 124, 126, 132, 139, 140, 143, 145, 146, 147, 148, 151, 152, 157, 160, 162], "coeffici": [5, 65, 98, 99, 101, 103, 104, 105, 135, 146], "matric": [5, 135, 165], "transpos": 5, "vice": 5, "versa": 5, "q_t": [5, 98, 99, 101, 105, 162, 165], "q_x": [5, 99, 105, 165], "_x": [5, 40, 67, 99, 101, 159, 162, 165], "eigenvalu": 5, "unchang": [5, 68], "upon": [5, 103], "transform": [5, 42], "eigenvector": [5, 135, 165], "right": [5, 32, 62, 65, 72, 83, 91, 96, 98, 99, 103, 105, 128, 134, 135, 137, 165], "rp1_acoustics_variable_adjoint": 5, "f90": [5, 9, 15, 20, 31, 32, 34, 40, 45, 53, 63, 64, 73, 74, 82, 98, 109, 112, 115, 119, 121, 123, 124, 125, 126, 128, 129, 132, 135, 136, 139, 140, 149, 151, 152, 157, 160, 162], "boundari": [5, 7, 20, 25, 40, 52, 60, 64, 67, 72, 73, 86, 91, 99, 101, 105, 110, 116, 119, 123, 137, 143, 145, 147], "condit": [5, 7, 20, 25, 62, 64, 75, 83, 84, 85, 86, 88, 95, 101, 109, 115, 116, 119, 123, 138, 143, 145, 146, 147], "adjust": [5, 13, 20, 32, 33, 46, 60, 74, 91, 95, 132, 134, 138, 143, 149, 162], "principl": [5, 159, 162], "vanish": 5, "dure": [5, 22, 32, 40, 45, 60, 72, 75, 115, 138, 139, 145, 146, 147, 149, 157], "integr": [5, 22, 54, 61, 83, 93, 95, 101, 115, 116, 120, 145, 147, 156, 157, 162], "qinit": [5, 20, 22, 40, 46, 63, 64, 86, 128, 138, 139, 162], "setrun": [5, 6, 7, 8, 14, 16, 19, 20, 25, 32, 33, 34, 35, 36, 37, 39, 40, 41, 43, 46, 47, 49, 60, 61, 63, 65, 67, 74, 75, 79, 93, 109, 110, 112, 115, 119, 120, 121, 124, 126, 128, 131, 132, 134, 135, 138, 139, 149, 153, 157, 160, 162], "clawdata": [5, 39, 74, 115, 119, 134, 143, 144, 145, 146, 147], "tfinal": 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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, 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164, "propag": 165, "space": 165, "godunov": 165, "high": 165, "formul": 165, "capac": 165}, "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"]], "Attributes for gauge plots": [[0, "attributes-for-gauge-plots"]], "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"]], "Special attributes for plot_type = \u20182d_imshow\u2019": [[3, "special-attributes-for-plot-type-2d-imshow"]], "AMR Attributes": [[3, "amr-attributes"]], "Colorbar attributes": [[3, "colorbar-attributes"]], "About this software": [[4, "about-this-software"]], "License": [[4, "license"], [62, "license"], [83, "license"]], "Authors": [[4, "authors"]], "Citing this work": [[4, "citing-this-work"]], "Funding": [[4, "funding"], [83, "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"], [165, "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 v5.9.1": [[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 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"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 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(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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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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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, 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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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[5, 42], "eigenvector": [5, 135, 165], "right": [5, 32, 62, 65, 72, 83, 91, 96, 98, 99, 103, 105, 128, 134, 135, 137, 165], "rp1_acoustics_variable_adjoint": 5, "f90": [5, 9, 15, 20, 31, 32, 34, 40, 45, 53, 63, 64, 73, 74, 82, 98, 109, 112, 115, 119, 121, 123, 124, 125, 126, 128, 129, 132, 135, 136, 139, 140, 149, 151, 152, 157, 160, 162], "boundari": [5, 7, 20, 25, 40, 52, 60, 64, 67, 72, 73, 86, 91, 99, 101, 105, 110, 116, 119, 123, 137, 143, 145, 147], "condit": [5, 7, 20, 25, 62, 64, 75, 83, 84, 85, 86, 88, 95, 101, 109, 115, 116, 119, 123, 138, 143, 145, 146, 147], "adjust": [5, 13, 20, 32, 33, 46, 60, 74, 91, 95, 132, 134, 138, 143, 149, 162], "principl": [5, 159, 162], "vanish": 5, "dure": [5, 22, 32, 40, 45, 60, 72, 75, 115, 138, 139, 145, 146, 147, 149, 157], "integr": [5, 22, 54, 61, 83, 93, 95, 101, 115, 116, 120, 145, 147, 156, 157, 162], "qinit": [5, 20, 22, 40, 46, 63, 64, 86, 128, 138, 139, 162], "setrun": [5, 6, 7, 8, 14, 16, 19, 20, 25, 32, 33, 34, 35, 36, 37, 39, 40, 41, 43, 46, 47, 49, 60, 61, 63, 65, 67, 74, 75, 79, 93, 109, 110, 112, 115, 119, 120, 121, 124, 126, 128, 131, 132, 134, 135, 138, 139, 149, 153, 157, 160, 162], "clawdata": [5, 39, 74, 115, 119, 134, 143, 144, 145, 146, 147], "tfinal": [5, 74, 85, 88, 105, 134, 143, 145, 147], "via": [5, 13, 22, 23, 24, 28, 29, 30, 34, 36, 37, 42, 43, 45, 47, 49, 52, 55, 56, 58, 59, 61, 63, 67, 68, 72, 73, 75, 79, 82, 85, 91, 94, 97, 100, 102, 104, 108, 112, 113, 123, 126, 135, 137, 141, 146, 148, 151, 152, 157, 159, 162], "num_output_tim": [5, 74, 85, 88, 95, 134, 143, 145, 147], "larg": [5, 6, 12, 20, 34, 35, 36, 37, 40, 49, 52, 54, 55, 68, 73, 78, 93, 95, 96, 112, 113, 120, 128, 131, 134, 137, 139, 143, 144, 159, 161], "frequent": [5, 20, 27, 34, 45, 61, 104, 120, 131], "enough": [5, 45, 55, 61, 67, 144, 154, 156, 157], "them": [5, 13, 18, 22, 28, 29, 30, 32, 45, 52, 55, 68, 75, 83, 85, 90, 94, 95, 96, 98, 106, 110, 113, 116, 125, 131, 132, 137, 149, 150, 153, 159, 162], "reason": [5, 49, 52, 60, 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, 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], 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"f2py": 160, "ex": 160, "bathymetri": 161, "dart": 161, "buoi": 161, "tide": 161, "done": 162, "befor": 162, "visit": 163, "virtual": 164, "propag": 165, "space": 165, "godunov": 165, "high": 165, "formul": 165, "capac": 165}, "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"]], "Attributes for gauge plots": [[0, "attributes-for-gauge-plots"]], "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"]], "Special attributes for plot_type = \u20182d_imshow\u2019": [[3, "special-attributes-for-plot-type-2d-imshow"]], "AMR Attributes": [[3, "amr-attributes"]], "Colorbar attributes": [[3, "colorbar-attributes"]], "About this software": [[4, "about-this-software"]], "License": [[4, "license"], [62, "license"], [83, "license"]], "Authors": [[4, "authors"]], "Citing this work": [[4, "citing-this-work"]], "Funding": [[4, "funding"], [83, "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"], [165, "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 v5.9.1": [[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, 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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 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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 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"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"]], 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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 (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.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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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": 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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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147, 159], "necessari": [5, 6, 13, 34, 35, 36, 37, 47, 49, 52, 55, 56, 59, 60, 68, 72, 74, 75, 81, 85, 86, 91, 94, 119, 121, 123, 134, 135, 142, 143, 144, 157, 160, 162], "place": [5, 16, 20, 24, 28, 36, 37, 52, 55, 59, 63, 64, 71, 93, 95, 96, 98, 102, 108, 115, 121, 162], "earlier": [5, 20, 22, 30, 32, 39, 45, 54, 72, 85, 98, 115, 122, 134, 157, 159], "help": [5, 7, 9, 23, 24, 25, 28, 29, 40, 41, 50, 55, 57, 63, 78, 81, 93, 96, 102, 106, 113, 120, 126, 135, 148, 160], "identifi": [5, 36, 37, 40, 52, 67, 86, 112, 126, 153], "hat": 5, "given": [5, 30, 40, 48, 52, 54, 60, 65, 68, 72, 89, 96, 100, 101, 103, 106, 112, 128, 137, 138, 139, 146, 157, 159, 162], "t_r": 5, "reach": [5, 112, 134], "acoustics_1d_adjoint": 5, "acoustics_2d_adjoint": 5, "main": [5, 11, 12, 19, 28, 40, 44, 55, 56, 67, 68, 75, 86, 88, 94, 98, 105, 106, 113, 122, 131], "subdirectori": [5, 12, 20, 22, 23, 36, 37, 55, 56, 59, 63, 71, 81, 90, 95, 108, 113, 131, 142, 146, 148, 155, 159], "must": [5, 6, 13, 16, 20, 22, 28, 30, 32, 34, 40, 44, 47, 52, 55, 58, 62, 63, 64, 67, 68, 72, 73, 74, 83, 86, 93, 94, 95, 98, 100, 101, 103, 104, 105, 106, 108, 112, 115, 119, 135, 137, 138, 139, 143, 144, 145, 146, 147, 153, 159, 160, 161, 162, 165], "makefil": [5, 6, 11, 14, 15, 16, 19, 20, 23, 25, 28, 34, 36, 37, 42, 55, 73, 75, 79, 81, 86, 92, 93, 112, 115, 119, 121, 123, 124, 126, 132, 139, 140, 143, 145, 146, 147, 148, 151, 152, 157, 160, 162], "coeffici": [5, 65, 98, 99, 101, 103, 104, 105, 135, 146], "matric": [5, 135, 165], "transpos": 5, "vice": 5, "versa": 5, "q_t": [5, 98, 99, 101, 105, 162, 165], "q_x": [5, 99, 105, 165], "_x": [5, 40, 67, 99, 101, 159, 162, 165], "eigenvalu": 5, "unchang": [5, 68], "upon": [5, 103], "transform": [5, 42], "eigenvector": [5, 135, 165], "right": [5, 32, 62, 65, 72, 83, 91, 96, 98, 99, 103, 105, 128, 134, 135, 137, 165], "rp1_acoustics_variable_adjoint": 5, "f90": [5, 9, 15, 20, 31, 32, 34, 40, 45, 53, 63, 64, 73, 74, 82, 98, 109, 112, 115, 119, 121, 123, 124, 125, 126, 128, 129, 132, 135, 136, 139, 140, 149, 151, 152, 157, 160, 162], "boundari": [5, 7, 20, 25, 40, 52, 60, 64, 67, 72, 73, 86, 91, 99, 101, 105, 110, 116, 119, 123, 137, 143, 145, 147], "condit": [5, 7, 20, 25, 62, 64, 75, 83, 84, 85, 86, 88, 95, 101, 109, 115, 116, 119, 123, 138, 143, 145, 146, 147], "adjust": [5, 13, 20, 32, 33, 46, 60, 74, 91, 95, 132, 134, 138, 143, 149, 162], "principl": [5, 159, 162], "vanish": 5, "dure": [5, 22, 32, 40, 45, 60, 72, 75, 115, 138, 139, 145, 146, 147, 149, 157], "integr": [5, 22, 54, 61, 83, 93, 95, 101, 115, 116, 120, 145, 147, 156, 157, 162], "qinit": [5, 20, 22, 40, 46, 63, 64, 86, 128, 138, 139, 162], "setrun": [5, 6, 7, 8, 14, 16, 19, 20, 25, 32, 33, 34, 35, 36, 37, 39, 40, 41, 43, 46, 47, 49, 60, 61, 63, 65, 67, 74, 75, 79, 93, 109, 110, 112, 115, 119, 120, 121, 124, 126, 128, 131, 132, 134, 135, 138, 139, 149, 153, 157, 160, 162], "clawdata": [5, 39, 74, 115, 119, 134, 143, 144, 145, 146, 147], "tfinal": [5, 74, 85, 88, 105, 134, 143, 145, 147], "via": [5, 13, 22, 23, 24, 28, 29, 30, 34, 36, 37, 42, 43, 45, 47, 49, 52, 55, 56, 58, 59, 61, 63, 67, 68, 72, 73, 75, 79, 82, 85, 91, 94, 97, 100, 102, 104, 108, 112, 113, 123, 126, 135, 137, 141, 146, 148, 151, 152, 157, 159, 162], "num_output_tim": [5, 74, 85, 88, 95, 134, 143, 145, 147], "larg": [5, 6, 12, 20, 34, 35, 36, 37, 40, 49, 52, 54, 55, 68, 73, 78, 93, 95, 96, 112, 113, 120, 128, 131, 134, 137, 139, 143, 144, 159, 161], "frequent": [5, 20, 27, 34, 45, 61, 104, 120, 131], "enough": [5, 45, 55, 61, 67, 144, 154, 156, 157], "them": [5, 13, 18, 22, 28, 29, 30, 32, 45, 52, 55, 68, 75, 83, 85, 90, 94, 95, 96, 98, 106, 110, 113, 116, 125, 131, 132, 137, 149, 150, 153, 159, 162], "reason": [5, 49, 52, 60, 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, 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, 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165, "capac": 165}, "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"]], "Attributes for gauge plots": [[0, "attributes-for-gauge-plots"]], "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 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"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"], [165, "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 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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, 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[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 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[[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"]], 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(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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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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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, 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[5, 42], "eigenvector": [5, 135, 165], "right": [5, 32, 62, 65, 72, 83, 91, 96, 98, 99, 103, 105, 128, 134, 135, 137, 165], "rp1_acoustics_variable_adjoint": 5, "f90": [5, 9, 15, 20, 31, 32, 34, 40, 45, 53, 63, 64, 73, 74, 82, 98, 109, 112, 115, 119, 121, 123, 124, 125, 126, 128, 129, 132, 135, 136, 139, 140, 149, 151, 152, 157, 160, 162], "boundari": [5, 7, 20, 25, 40, 52, 60, 64, 67, 72, 73, 86, 91, 99, 101, 105, 110, 116, 119, 123, 137, 143, 145, 147], "condit": [5, 7, 20, 25, 62, 64, 75, 83, 84, 85, 86, 88, 95, 101, 109, 115, 116, 119, 123, 138, 143, 145, 146, 147], "adjust": [5, 13, 20, 32, 33, 46, 60, 74, 91, 95, 132, 134, 138, 143, 149, 162], "principl": [5, 159, 162], "vanish": 5, "dure": [5, 22, 32, 40, 45, 60, 72, 75, 115, 138, 139, 145, 146, 147, 149, 157], "integr": [5, 22, 54, 61, 83, 93, 95, 101, 115, 116, 120, 145, 147, 156, 157, 162], "qinit": [5, 20, 22, 40, 46, 63, 64, 86, 128, 138, 139, 162], "setrun": [5, 6, 7, 8, 14, 16, 19, 20, 25, 32, 33, 34, 35, 36, 37, 39, 40, 41, 43, 46, 47, 49, 60, 61, 63, 65, 67, 74, 75, 79, 93, 109, 110, 112, 115, 119, 120, 121, 124, 126, 128, 131, 132, 134, 135, 138, 139, 149, 153, 157, 160, 162], "clawdata": [5, 39, 74, 115, 119, 134, 143, 144, 145, 146, 147], "tfinal": [5, 74, 85, 88, 105, 134, 143, 145, 147], "via": [5, 13, 22, 23, 24, 28, 29, 30, 34, 36, 37, 42, 43, 45, 47, 49, 52, 55, 56, 58, 59, 61, 63, 67, 68, 72, 73, 75, 79, 82, 85, 91, 94, 97, 100, 102, 104, 108, 112, 113, 123, 126, 135, 137, 141, 146, 148, 151, 152, 157, 159, 162], "num_output_tim": [5, 74, 85, 88, 95, 134, 143, 145, 147], "larg": [5, 6, 12, 20, 34, 35, 36, 37, 40, 49, 52, 54, 55, 68, 73, 78, 93, 95, 96, 112, 113, 120, 128, 131, 134, 137, 139, 143, 144, 159, 161], "frequent": [5, 20, 27, 34, 45, 61, 104, 120, 131], "enough": [5, 45, 55, 61, 67, 144, 154, 156, 157], "them": [5, 13, 18, 22, 28, 29, 30, 32, 45, 52, 55, 68, 75, 83, 85, 90, 94, 95, 96, 98, 106, 110, 113, 116, 125, 131, 132, 137, 149, 150, 153, 159, 162], "reason": [5, 49, 52, 60, 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, 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, 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\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"]], "Special attributes for plot_type = \u20182d_imshow\u2019": [[3, "special-attributes-for-plot-type-2d-imshow"]], "AMR Attributes": [[3, "amr-attributes"]], "Colorbar attributes": [[3, "colorbar-attributes"]], "About this software": [[4, "about-this-software"]], "License": [[4, "license"], [62, "license"], [83, "license"]], "Authors": [[4, "authors"]], "Citing this work": [[4, "citing-this-work"]], "Funding": [[4, "funding"], [83, "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"], [165, "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 v5.9.1": [[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 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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 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"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() (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, 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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 (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.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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-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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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, 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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, 33, 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, 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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, 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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], "term": [4, 25, 45, 48, 61, 70, 84, 89, 90, 99, 110, 120, 121, 129, 136, 138, 139, 140, 143, 144], "berkelei": [4, 61, 81], "bsd": [4, 61, 81, 121], "peopl": [4, 12, 13, 81, 105], "contribut": [4, 24, 25, 57, 81, 84, 91, 96, 99, 108, 111], "its": [4, 6, 13, 22, 29, 34, 39, 48, 51, 57, 61, 63, 66, 70, 72, 81, 86, 87, 88, 89, 91, 96, 98, 99, 101, 104, 110, 138, 151, 157], "incept": 4, "1994": [4, 61], "major": [4, 22, 54, 55, 81, 84, 112, 113, 114, 115, 120, 122], "design": [4, 27, 28, 51, 81, 83, 103, 130, 153], "made": [4, 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, 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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], 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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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[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, 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, 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], 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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() 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"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 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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)": 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"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, 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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, 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], "term": [4, 25, 45, 48, 61, 70, 84, 89, 90, 99, 110, 120, 121, 129, 136, 138, 139, 140, 143, 144], "berkelei": [4, 61, 81], "bsd": [4, 61, 81, 121], "peopl": [4, 12, 13, 81, 105], "contribut": [4, 24, 25, 57, 81, 84, 91, 96, 99, 108, 111], "its": [4, 6, 13, 22, 29, 34, 39, 48, 51, 57, 61, 63, 66, 70, 72, 81, 86, 87, 88, 89, 91, 96, 98, 99, 101, 104, 110, 138, 151, 157], "incept": 4, "1994": [4, 61], "major": [4, 22, 54, 55, 81, 84, 112, 113, 114, 115, 120, 122], "design": [4, 27, 28, 51, 81, 83, 103, 130, 153], "made": [4, 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], "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, 18, 22, 24, 41, 51, 64, 71, 77, 81, 116, 117, 118, 119, 121], "suggest": [4, 24, 29, 47, 53, 54, 58, 79, 80, 105, 126, 128, 139, 156], "improv": [4, 13, 22, 24, 32, 34, 51, 54, 92, 105, 113, 114, 116, 117, 118, 119, 120, 122, 123, 124, 125, 136], "explor": [4, 59, 77, 79], "thank": [4, 91], "public": [4, 13, 21, 126], "pleas": [4, 18, 24, 28, 43, 54, 58, 81, 83, 86, 88, 91, 92, 94, 96, 98, 99, 100, 102, 108, 121, 126, 128, 145], "itself": [4, 70, 76, 105, 124, 128, 139, 151], "well": [4, 6, 28, 33, 45, 51, 52, 54, 58, 59, 66, 70, 71, 72, 73, 76, 79, 80, 98, 99, 108, 120, 121, 124, 129, 132, 136, 137, 143, 144, 145, 154, 157], "citat": [4, 55], "similar": [4, 13, 16, 28, 32, 36, 44, 51, 83, 84, 92, 96, 99, 103, 121, 139, 145, 146, 147, 149], "team": [4, 24, 61], "2020": [4, 18, 24, 25, 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, 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"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, 139, 140, 154], "bc_lower": [16, 83, 96, 103, 136, 138, 140], "bc_upper": [16, 83, 96, 103, 136, 138, 140], "extrap": [16, 96, 103, 136, 138], "outflow": [16, 136, 138, 140], "move": [16, 32, 35, 36, 45, 54, 56, 58, 60, 70, 96, 110, 113, 115, 120, 139, 149, 150], "normal": [16, 33, 52, 54, 60, 77, 96, 106, 128, 129, 136, 137, 138, 140], "fairli": [16, 48, 119], "good": [16, 28, 48, 51, 61, 71, 81, 103, 108, 111, 119, 128], "outgo": 16, "let": [16, 18, 45, 58, 81, 108, 120, 128], "pass": [16, 19, 20, 28, 30, 44, 51, 59, 71, 77, 83, 86, 88, 90, 96, 99, 101, 102, 104, 111, 128, 138, 145, 151, 154], "without": [16, 22, 40, 44, 48, 57, 59, 61, 62, 63, 66, 67, 77, 79, 80, 81, 87, 92, 93, 104, 106, 111, 130, 138, 140, 145, 152, 154], "particularli": [16, 27, 29, 32, 50, 51, 57, 70, 72, 114, 117, 121, 132, 149], "perfect": 16, "hit": [16, 67, 79, 93, 136], "obliqu": 16, "angl": [16, 30, 47, 70], "perfectli": 16, "wall": [16, 41, 96, 103, 118, 121, 123, 136, 138, 140, 148], "veloc": [16, 32, 47, 60, 67, 79, 96, 97, 103, 119, 131, 136, 137, 138, 139, 140, 154], "momentum": [16, 18, 32, 48, 60, 64, 93, 129, 139, 149], "third": [16, 32, 53, 87, 148, 151], "acoust": [16, 29, 35, 36, 48, 82, 83, 86, 88, 91, 99, 100, 117, 128, 138, 154], "p": [16, 17, 29, 79, 81, 83, 89, 92, 93, 97, 101, 128, 157], "h": [16, 17, 32, 39, 44, 45, 48, 51, 52, 59, 64, 97, 110, 117, 124, 129, 131, 132, 139, 149], "hu": [16, 60, 64, 97, 129, 139], "hv": [16, 60, 64, 129, 139], "equal": [16, 30, 32, 33, 51, 70, 94, 96, 110, 127, 130, 136, 138, 140, 149, 151], "far": [16, 18, 38, 42, 66, 76, 122, 124], "symmetri": 16, "physic": [16, 44, 51, 84, 89, 91, 103, 110, 157], "slightli": [16, 18, 39, 53, 119, 120, 130], "complic": [16, 77, 84, 130, 135], "alwai": [16, 18, 22, 26, 27, 28, 32, 41, 53, 54, 58, 67, 83, 92, 109, 110, 113, 114, 132, 138, 139, 140, 149, 154], "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, 130, 131, 132, 143, 144, 150], "artifici": [16, 132], "ignor": [16, 51, 59, 92, 117, 131, 151], "incom": 16, "truncat": [16, 92], "spuriou": [16, 32, 111], "extropl": 16, "dry": [16, 17, 25, 32, 45, 97, 124, 129, 132], "land": [16, 39, 45, 46, 51, 54, 55, 59, 66, 78, 124, 132, 139, 151], "tank": [16, 48], "bc2amr": [16, 121], "calhounhelzellevequ": 16, "envis": 16, "fold": 16, "piec": [16, 48, 89], "glu": 16, "inflat": 16, "websit": [16, 51, 54, 141, 151], "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, "tran": 17, "sy": [17, 39, 66, 86, 138, 140], "man": [17, 25, 45, 48, 139, 143, 144], "cyber": 17, "21": [17, 67, 87, 89, 117, 118, 126], "1278": 17, "1286": 17, "2018": [17, 24, 54, 121, 122, 126], "phd": 17, "thesi": [17, 99], "pure": [17, 52, 79, 89, 91, 92, 94, 99, 105, 111, 129], "appl": 17, "geophi": 17, "173": 17, "4055": 17, "4074": 17, "info": [17, 29, 30, 33, 44, 55, 59, 67, 86, 89, 93, 99, 119, 137, 138, 145], "analysi": 17, "evalu": [17, 27, 30, 64, 83, 89, 99, 151, 154], "preprint": 17, "2000": [17, 53, 149, 151], "165": [17, 148], "126": [17, 151], "166": 17, "leveque96": 17, "1996": 17, "advect": [17, 77, 91, 94, 128, 129, 140, 154], "incompress": 17, "leveque1996": 17, "33": [17, 89, 130], "627": 17, "665": 17, "1997": [17, 91], "multi": [17, 51, 83, 113, 115, 118, 121, 154], "131": [17, 91], "327": [17, 91], "353": [17, 91], "wpalg": 17, "cambridg": 17, "press": [17, 94, 100], "uk": [17, 30], "gallery_fvmbook": 17, "acta": 17, "numerica": 17, "211": 17, "289": 17, "dg": 17, "actanum2011": 17, "techniqu": [17, 26], "2013": [17, 24, 91], "a351": [17, 91], "a377": [17, 91], "manuel": [17, 81, 91], "quezada": [17, 81, 91], "luna": [17, 81, 91], "matthew": [17, 81, 91], "kneplei": [17, 81, 91], "emmett": [17, 81, 91], "2012": [17, 22, 24, 48, 91], "scalabl": [17, 91], "c210": [17, 91], "c231": [17, 91], "sisc": [17, 91], "month": [17, 51, 91], "nov": [17, 91], "mandlietal2016": 17, "calhellev08": 17, "helzel": 17, "circular": 17, "spheric": [17, 51], "review": [17, 87], "2008": [17, 81, 87, 97], "723": 17, "752": 17, "leveque09": 17, "reproduc": [17, 53, 61, 81], "engin": [17, 51], "cise": 17, "11": [17, 18, 32, 77, 97, 125, 126], "2009": [17, 87, 92, 97], "27": [17, 32, 51, 59, 130], "levyon03": 17, "darryl": 17, "yong": 17, "solitari": 17, "layer": [17, 25, 44, 59, 89, 113, 115, 118, 119, 121], "media": 17, "math": [17, 51, 103], "63": [17, 130], "2003": 17, "1539": 17, "1560": 17, "mandli13a": 17, "72": [17, 51, 70], "91": 17, "2013it": 17, "aug": [17, 122], "mandli13b": 17, "dawson": 17, "36": [17, 47, 72, 89], "2014": [17, 24, 97, 112, 113, 114, 115, 116, 117, 126], "w": [17, 47, 128, 157], "clint": 17, "okada85": [17, 30, 70], "okada": [17, 25, 30, 45, 109, 149, 153], "surfac": [17, 22, 25, 30, 32, 39, 44, 45, 46, 48, 51, 70, 76, 78, 84, 91, 103, 107, 110, 117, 130, 131, 139, 149], "deform": [17, 30, 33, 45, 70, 153], "due": [17, 24, 30, 39, 47, 70, 111, 120, 121, 132, 152], "shear": [17, 30], "tensil": 17, "fault": [17, 25, 30, 45, 109, 121, 149, 153], "bull": [17, 30], "seism": [17, 30], 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"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 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"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, 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"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": 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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"], 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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.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 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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, 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(clawpack.geoclaw.topotools.topography method)": [[151, "clawpack.geoclaw.topotools.Topography.generate_2d_topo"]], "get_topo() (in module clawpack.geoclaw.topotools)": [[151, "clawpack.geoclaw.topotools.get_topo"]], "in_poly() (clawpack.geoclaw.topotools.topography method)": [[151, "clawpack.geoclaw.topotools.Topography.in_poly"]], "interp_unstructured() (clawpack.geoclaw.topotools.topography method)": [[151, "clawpack.geoclaw.topotools.Topography.interp_unstructured"]], "make_shoreline_xy() (clawpack.geoclaw.topotools.topography method)": [[151, "clawpack.geoclaw.topotools.Topography.make_shoreline_xy"]], "plot() (clawpack.geoclaw.topotools.topography method)": [[151, "clawpack.geoclaw.topotools.Topography.plot"]], "read() (clawpack.geoclaw.topotools.topography method)": [[151, "clawpack.geoclaw.topotools.Topography.read"]], "read_header() (clawpack.geoclaw.topotools.topography method)": [[151, "clawpack.geoclaw.topotools.Topography.read_header"]], "read_netcdf() (in module clawpack.geoclaw.topotools)": [[151, "clawpack.geoclaw.topotools.read_netcdf"]], "replace_no_data_values() (clawpack.geoclaw.topotools.topography method)": [[151, "clawpack.geoclaw.topotools.Topography.replace_no_data_values"]], "replace_values() (clawpack.geoclaw.topotools.topography method)": [[151, "clawpack.geoclaw.topotools.Topography.replace_values"]], "set_xyz() (clawpack.geoclaw.topotools.topography method)": [[151, "clawpack.geoclaw.topotools.Topography.set_xyZ"]], "smooth_data() (clawpack.geoclaw.topotools.topography method)": [[151, "clawpack.geoclaw.topotools.Topography.smooth_data"]], "swapheader() (in module clawpack.geoclaw.topotools)": [[151, "clawpack.geoclaw.topotools.swapheader"]], "topo1writer() (in module clawpack.geoclaw.topotools)": [[151, "clawpack.geoclaw.topotools.topo1writer"]], "topo2writer() (in module clawpack.geoclaw.topotools)": [[151, "clawpack.geoclaw.topotools.topo2writer"]], "topo3writer() (in module clawpack.geoclaw.topotools)": [[151, "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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-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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96, 98, 100, 101, 110, 117, 126, 132, 139, 140, 141, 152, 157], "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, 126, 131, 132, 137, 142, 152, 154, 155, 158], "convent": [3, 22, 30, 46, 53, 70, 97, 152], "correspond": [3, 6, 12, 23, 25, 27, 30, 33, 44, 47, 48, 53, 54, 55, 59, 67, 70, 77, 83, 87, 89, 92, 93, 96, 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, 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], "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, 67, 70, 77, 79, 80, 83, 86, 87, 89, 92, 93, 94, 97, 98, 99, 101, 105, 106, 110, 119, 121, 124, 129, 131, 133, 136, 139, 140, 141, 142, 143, 150, 151, 152, 154, 157, 160], "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, 61, 62, 63, 64, 68, 69, 70, 71, 72, 73, 75, 77, 79, 80, 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, 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], 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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, 32, 39, 51, 77, 102, 114, 121, 135, 137], "futur": [13, 22, 25, 26, 35, 36, 39, 48, 53, 59, 64, 83, 99, 105, 118, 119, 121, 124, 140, 148, 152], "job": [13, 128], "eb": 13, "runclaw": [14, 50, 114, 123, 125, 131], "autom": [14, 54, 84, 111], "certain": [14, 32, 45, 57, 66, 93, 110, 118, 133, 139], "keep": [14, 25, 28, 32, 33, 35, 36, 71, 83, 86, 91, 101, 104, 111, 114, 142], "log": [14, 25, 28, 29, 89, 90, 91, 98, 99], "came": 14, "rundir": [14, 86], "environ": [14, 25, 28, 35, 36, 37, 40, 50, 51, 54, 57, 58, 67, 69, 71, 73, 95, 102, 104, 106, 119, 154, 155], "By": [15, 30, 41, 47, 51, 53, 59, 70, 77, 79, 83, 89, 93, 95, 102, 121, 133, 136, 146, 147, 154, 160], "noth": [15, 60, 101, 122, 136, 146, 147, 154, 157], "rememb": [15, 27, 71, 77, 94, 136, 146, 147], "b4step1": [15, 63, 157], "b4step2": [15, 136, 157], "b4step3": 15, "branch": [15, 18, 25, 29, 41, 50, 52, 55, 57, 58, 107, 111, 120, 121, 122, 123, 124, 125, 126, 127, 128, 129, 136, 146, 147], "tag": [15, 51, 55, 57, 107, 136, 140, 141, 146, 147], "bathymetri": [15, 45, 48, 51, 59, 97, 108, 119, 121, 132, 134, 136, 142, 152, 154], "area": [15, 22, 45, 99, 108, 119, 135, 136], "dy": [15, 47, 53, 59, 60, 72, 84, 89, 93, 117, 121, 136, 152, 154], "capac": [15, 97, 136, 139, 140, 141, 143], "length": [15, 30, 48, 59, 70, 96, 101, 119, 126, 136, 139, 140, 141, 142, 157], "latter": [15, 66, 96, 124, 133, 136, 139, 148, 157], "quantiti": [15, 32, 59, 67, 86, 90, 91, 97, 101, 132, 136, 142], "latitud": [15, 30, 32, 46, 47, 53, 70, 76, 117, 133, 136, 142, 148, 154], "coordinate_system": [15, 60, 136, 142], "impos": [16, 84, 110, 146, 147, 160], "chapter": [16, 131, 139, 157], "choic": [16, 45, 76, 99, 139, 141, 142, 143, 157], "bc_lower": [16, 83, 96, 103, 139, 141, 143], "bc_upper": [16, 83, 96, 103, 139, 141, 143], "extrap": [16, 96, 103, 139, 141], "outflow": [16, 139, 141, 143], "move": [16, 32, 35, 36, 45, 54, 58, 60, 70, 96, 110, 113, 115, 120, 142, 152, 153], "normal": [16, 33, 52, 54, 60, 77, 96, 106, 131, 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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[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 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() 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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, 67, 70, 77, 79, 80, 83, 86, 87, 89, 92, 93, 94, 97, 98, 99, 101, 105, 106, 110, 119, 121, 124, 129, 131, 133, 136, 139, 140, 141, 142, 143, 150, 151, 152, 154, 157, 160], "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, 61, 62, 63, 64, 68, 69, 70, 71, 72, 73, 75, 77, 79, 80, 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, 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], 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"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, 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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, 124, 125, 126, 127, 128, 134, 140, 142, 144, 152, 156], "end": [13, 29, 30, 32, 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, 32, 39, 51, 77, 102, 114, 121, 135, 137], "futur": [13, 22, 25, 26, 35, 36, 39, 48, 53, 59, 64, 83, 99, 105, 118, 119, 121, 124, 140, 148, 152], "job": [13, 128], "eb": 13, "runclaw": [14, 50, 114, 123, 125, 131], "autom": [14, 54, 84, 111], "certain": [14, 32, 45, 57, 66, 93, 110, 118, 133, 139], "keep": [14, 25, 28, 32, 33, 35, 36, 71, 83, 86, 91, 101, 104, 111, 114, 142], "log": [14, 25, 28, 29, 89, 90, 91, 98, 99], "came": 14, "rundir": [14, 86], "environ": [14, 25, 28, 35, 36, 37, 40, 50, 51, 54, 57, 58, 67, 69, 71, 73, 95, 102, 104, 106, 119, 154, 155], "By": [15, 30, 41, 47, 51, 53, 59, 70, 77, 79, 83, 89, 93, 95, 102, 121, 133, 136, 146, 147, 154, 160], "noth": [15, 60, 101, 122, 136, 146, 147, 154, 157], "rememb": [15, 27, 71, 77, 94, 136, 146, 147], "b4step1": [15, 63, 157], "b4step2": [15, 136, 157], "b4step3": 15, "branch": [15, 18, 25, 29, 41, 50, 52, 55, 57, 58, 107, 111, 120, 121, 122, 123, 124, 125, 126, 127, 128, 129, 136, 146, 147], "tag": [15, 51, 55, 57, 107, 136, 140, 141, 146, 147], "bathymetri": [15, 45, 48, 51, 59, 97, 108, 119, 121, 132, 134, 136, 142, 152, 154], "area": [15, 22, 45, 99, 108, 119, 135, 136], "dy": [15, 47, 53, 59, 60, 72, 84, 89, 93, 117, 121, 136, 152, 154], "capac": [15, 97, 136, 139, 140, 141, 143], "length": [15, 30, 48, 59, 70, 96, 101, 119, 126, 136, 139, 140, 141, 142, 157], "latter": [15, 66, 96, 124, 133, 136, 139, 148, 157], "quantiti": [15, 32, 59, 67, 86, 90, 91, 97, 101, 132, 136, 142], "latitud": [15, 30, 32, 46, 47, 53, 70, 76, 117, 133, 136, 142, 148, 154], "coordinate_system": [15, 60, 136, 142], "impos": [16, 84, 110, 146, 147, 160], "chapter": [16, 131, 139, 157], "choic": [16, 45, 76, 99, 139, 141, 142, 143, 157], "bc_lower": [16, 83, 96, 103, 139, 141, 143], "bc_upper": [16, 83, 96, 103, 139, 141, 143], "extrap": [16, 96, 103, 139, 141], "outflow": [16, 139, 141, 143], "move": [16, 32, 35, 36, 45, 54, 58, 60, 70, 96, 110, 113, 115, 120, 142, 152, 153], "normal": [16, 33, 52, 54, 60, 77, 96, 106, 131, 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, 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], "327": [17, 91], "353": [17, 91], "wpalg": 17, "cambridg": 17, "press": [17, 94, 100], "uk": [17, 30], "gallery_fvmbook": 17, "acta": 17, "numerica": 17, "211": 17, "289": 17, "dg": 17, "actanum2011": 17, "techniqu": [17, 26], "2013": [17, 24, 91], "a351": [17, 91], "a377": [17, 91], "manuel": [17, 81, 91], "quezada": [17, 81, 91], "luna": [17, 81, 91], "matthew": [17, 81, 91], "kneplei": [17, 81, 91], "emmett": [17, 81, 91], "2012": [17, 22, 24, 48, 91], "scalabl": [17, 91], "c210": [17, 91], "c231": [17, 91], "sisc": [17, 91], "month": [17, 51, 91], "nov": [17, 91], "mandlietal2016": 17, 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120, 121, 126, 135, 155], "shear": [17, 30], "tensil": 17, "fault": [17, 25, 30, 45, 109, 121, 128, 152, 156], "bull": [17, 30], "seism": [17, 30], "soc": [17, 30], "am": [17, 30], "1985": [17, 30], "1135": 17, "1154": 17, "decemb": [18, 128, 129], "14": [18, 32, 51, 70, 77, 128, 129, 133], "2021": [18, 126, 127, 128, 129], "accompani": [18, 21], "featur": [18, 22, 25, 28, 32, 39, 51, 54, 67, 77, 84, 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, 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"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"]], 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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, 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"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"], 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"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.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 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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)": [[154, "clawpack.geoclaw.topotools.read_netcdf"]], "replace_no_data_values() (clawpack.geoclaw.topotools.topography method)": [[154, "clawpack.geoclaw.topotools.Topography.replace_no_data_values"]], "replace_values() (clawpack.geoclaw.topotools.topography method)": [[154, "clawpack.geoclaw.topotools.Topography.replace_values"]], "set_xyz() (clawpack.geoclaw.topotools.topography method)": [[154, "clawpack.geoclaw.topotools.Topography.set_xyZ"]], "smooth_data() (clawpack.geoclaw.topotools.topography method)": [[154, "clawpack.geoclaw.topotools.Topography.smooth_data"]], "swapheader() (in module clawpack.geoclaw.topotools)": [[154, "clawpack.geoclaw.topotools.swapheader"]], "topo1writer() (in module clawpack.geoclaw.topotools)": [[154, "clawpack.geoclaw.topotools.topo1writer"]], "topo2writer() (in module clawpack.geoclaw.topotools)": [[154, "clawpack.geoclaw.topotools.topo2writer"]], "topo3writer() (in module clawpack.geoclaw.topotools)": [[154, "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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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/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 @@

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.

-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().