diff --git a/_sources/changes_to_master.rst.txt b/_sources/changes_to_master.rst.txt index bf12cc293..2d016a31d 100644 --- a/_sources/changes_to_master.rst.txt +++ b/_sources/changes_to_master.rst.txt @@ -25,10 +25,31 @@ Changes that are not backward compatible General changes --------------- +- `'binary32`' added as an `output_format` option in both amrclaw and + geoclaw. (So far classic only supports `'ascii'` output.) The old + `'binary'` option now defaults to `'binary64'`, which dumps the raw + binary of the full float64 (kind=8) Fortran variables. The new + `'binary32'` option trucates to float32 (kind=4) before dumping, and + results in binary output files that are only half as large. Since + float32 values have about 8 significant figures, this is generally + sufficient for most plotting and post-processing needs. These files + are also much smaller than the files created with the `'ascii'` + option, which is generally recommended only for debugging if you need to + examine the output files directly. + +- Adding support for `'binary32'` required changes in the pyclaw, clawutil + and visclaw repositories as well. + +- A new `fgout` capability was added to geoclaw (see below and :ref:`fgout`), + which also required additional changes to other repositories. + + Changes to classic ------------------ +- Comments in some sample `setrun.py` files were changed to make it clear + that only `output_format = 'ascii'` is supported so far in classic. See `classic diffs `_ @@ -36,6 +57,7 @@ See `classic diffs Changes to clawutil ------------------- +- Support for `'binary32'` and `fgout` grids added. See `clawutil diffs `_ @@ -43,6 +65,16 @@ See `clawutil diffs Changes to visclaw ------------------ +- Support for `'binary32'` and `fgout` grids added. + +- `pcolor` plots are now rasterized by default, which greatly reduces the + file size in some cases. When e.g. `savefig('filename.svg')` is used + the labels are still vector graphics but the flow field is rasterized. + Passing the option `pcolor_kwargs = {"rasterized":False}` in setplot + turns this off. See ``. + +- The `JSAnimation` subdirectory was removed, since we now use + `anim.to_jshtml` instead. See `visclaw diffs `_ @@ -50,6 +82,7 @@ See `visclaw diffs Changes to riemann ------------------ +- None. See `riemann diffs `_ @@ -57,6 +90,8 @@ See `riemann diffs Changes to amrclaw ------------------ +- Support for `output_format='binary32'` added for both output frames and + gauges. See `amrclaw diffs `_ @@ -64,19 +99,48 @@ See `amrclaw diffs Changes to geoclaw ------------------ +- Support for `output_format='binary32'` added for both output frames and + gauges. + +- New `fgout` grid capabilities added, as described at :ref:`fgout`. + This allows specifying one or more fixed resolution rectangular grids on + which the AMR solution will be interpolated (in both space and time) + at each time in a specified set of times. This does not affect the + time steps used in the computation and allows frequent output on a + fixed portion of the domain for making animations or doing + post-processing, such as particle tracking based on the velocity field. -See `geoclaw diffs `_ +- The new `fgout` capability (together with :ref:`fgmax`) + replaces the very old `fixedgrid` capability, + which has now been further deprecated. + +- `$CLAW/geoclaw/examples/tsunami/chile2010_fgmax` has been replaced by + `$CLAW/geoclaw/examples/tsunami/chile2010_fgmax-fgout`. This example + now also shows how to plot results on fgout grids either by + using a special `setplot` function or by reading them directly. + It also shows how to make an animation from the fgout results. + +See `geoclaw diffs `_ Changes to PyClaw ------------------ +- Support for reading fgout frames added, by passing the parameter + `file_prefix` more consistently (which can be e.g. `fgout` rather than + `fort`, as used for output frames). -For changes in PyClaw, see the `PyClaw changelog -`_. +- Support for reading binary output files with format `'binary32'` or + `'binary64'`. Added for both output frames and gauges. The old `'binary'` + format is equivalent to `'binary64'`. -See `pyclaw diffs -`_ +- Support reading `file_format` from the `fort.t` files, now one of `ascii`, + `binary32`, or `binary64`. See General Changes above for more details. + +See `pyclaw diffs `_ + +For older changes in PyClaw, see also the `PyClaw changelog +`_. =========================== Other Clawpack Repositories diff --git a/_sources/sealevel.rst.txt b/_sources/sealevel.rst.txt index d16ec6bca..b2f373dee 100644 --- a/_sources/sealevel.rst.txt +++ b/_sources/sealevel.rst.txt @@ -1,10 +1,10 @@ .. _sealevel: ========================== -Setting sealevel +Setting sea_level ========================== -GeoClaw has a parameter *sealevel* (see :ref:`setrun_geoclaw`) that can be +GeoClaw has a parameter *sea_level* (see :ref:`setrun_geoclaw`) that can be used to specify the initialization of the fluid depth relative to the specified topography (see :ref:`topo`). @@ -13,8 +13,8 @@ elevation, see :ref:`set_eta_init`. Unless a different set of initial conditions is specified (see :ref:`setrun_qinit`), the default is to -initialize with zero velocity and depth *h* chosen so that *h+B = sealevel* -at any point where *B < sealevel*, where *B* is the topography or bathymetry +initialize with zero velocity and depth *h* chosen so that *h+B = sea_level* +at any point where *B < sea_level*, where *B* is the topography or bathymetry in the grid cell (as determined by interpolation from the specified *topo* files as described in :ref:`topo`). @@ -25,9 +25,9 @@ modeling (e.g. from `NOAA NGDC inundataion relief `_) is often relative to Mean High Water (MHW), in -which case setting *sealevel = 0.* corresponds to assuming the water level +which case setting *sea_level = 0.* corresponds to assuming the water level is initially at MHW. To adjust to use a different tide level, the value of -*sealevel* must be set appropriately. The relation between MHW and other +*sea_level* must be set appropriately. The relation between MHW and other tide levels such as Mean Sea Level (MSL) can often be found from the NGDC webpages for a nearby tide gauge. For example, if you go to a station page such as @@ -58,7 +58,7 @@ to be at rest before the tsunami arrives. If GeoClaw is used for hazard assessment based on potential tsunami scenarios, then thought should be given to the appropriate value of -*sealevel* to assume. The NCEI coastal bathymetry data is often referenced to MHW +*sea_level* to assume. The NCEI coastal bathymetry data is often referenced to MHW because this is often the level assumed for tsunami hazard assessment, but higher tide levels such as Mean Higher High Water (MHHW) or the Astronomical High Tide (AHT) are sometimes used for worst-case scenarios. diff --git a/changes_to_master.html b/changes_to_master.html index 2da6dea05..1de804421 100644 --- a/changes_to_master.html +++ b/changes_to_master.html @@ -88,35 +88,105 @@

Changes that are not backward compatible

General changes

+
    +

  • ‘binary32’ added as an output_format option in both amrclaw and +geoclaw. (So far classic only supports ‘ascii’ output.) The old +‘binary’ option now defaults to ‘binary64’, which dumps the raw +binary of the full float64 (kind=8) Fortran variables. The new +‘binary32’ option trucates to float32 (kind=4) before dumping, and +results in binary output files that are only half as large. Since +float32 values have about 8 significant figures, this is generally +sufficient for most plotting and post-processing needs. These files +are also much smaller than the files created with the ‘ascii’ +option, which is generally recommended only for debugging if you need to +examine the output files directly.

    • +

  • Adding support for ‘binary32’ required changes in the pyclaw, clawutil +and visclaw repositories as well.

    • +

  • A new fgout capability was added to geoclaw (see below and Fixed grid output), +which also required additional changes to other repositories.

    • +

Changes to classic

+
    +

  • Comments in some sample setrun.py files were changed to make it clear +that only output_format = ‘ascii’ is supported so far in classic.

    • +

See classic diffs

Changes to clawutil

+
    +

  • Support for ‘binary32’ and fgout grids added.

    • +

See clawutil diffs

Changes to visclaw

+
    +

  • Support for ‘binary32’ and fgout grids added.

    • +

  • pcolor plots are now rasterized by default, which greatly reduces the +file size in some cases. When e.g. savefig(‘filename.svg’) is used +the labels are still vector graphics but the flow field is rasterized. +Passing the option pcolor_kwargs = {“rasterized”:False} in setplot +turns this off. See <https://github.com/clawpack/visclaw/pull/286>.

    • +

  • The JSAnimation subdirectory was removed, since we now use +anim.to_jshtml instead.

    • +

See visclaw diffs

Changes to riemann

+
    +

  • None.

    • +

See riemann diffs

Changes to amrclaw

+
    +

  • Support for output_format=’binary32’ added for both output frames and +gauges.

    • +

See amrclaw diffs

Changes to geoclaw

-

See geoclaw diffs

+
    +

  • Support for output_format=’binary32’ added for both output frames and +gauges.

    • +

  • New fgout grid capabilities added, as described at Fixed grid output. +This allows specifying one or more fixed resolution rectangular grids on +which the AMR solution will be interpolated (in both space and time) +at each time in a specified set of times. This does not affect the +time steps used in the computation and allows frequent output on a +fixed portion of the domain for making animations or doing +post-processing, such as particle tracking based on the velocity field.

    • +

  • The new fgout capability (together with Fixed grid monitoring) +replaces the very old fixedgrid capability, +which has now been further deprecated.

    • +

  • $CLAW/geoclaw/examples/tsunami/chile2010_fgmax has been replaced by +$CLAW/geoclaw/examples/tsunami/chile2010_fgmax-fgout. This example +now also shows how to plot results on fgout grids either by +using a special setplot function or by reading them directly. +It also shows how to make an animation from the fgout results.

    • +
+

See geoclaw diffs

Changes to PyClaw

-

For changes in PyClaw, see the PyClaw changelog.

+
    +

  • Support for reading fgout frames added, by passing the parameter +file_prefix more consistently (which can be e.g. fgout rather than +fort, as used for output frames).

    • +

  • Support for reading binary output files with format ‘binary32’ or +‘binary64’. Added for both output frames and gauges. The old ‘binary’ +format is equivalent to ‘binary64’.

    • +

  • Support reading file_format from the fort.t files, now one of ascii, +binary32, or binary64. See General Changes above for more details.

    • +

See pyclaw diffs

+

For older changes in PyClaw, see also the PyClaw changelog.

diff --git a/contents.html b/contents.html index d965998ee..b7f244132 100644 --- a/contents.html +++ b/contents.html @@ -229,7 +229,7 @@

GeoClaw: geophysical flowsQuick start guide for tsunami modeling
  • Quick start guide for storm surge modeling
  • Earthquake sources: Fault slip and the Okada model
    • -
  • Setting sealevel
    • +
  • Setting sea_level
  • Set Eta Init – spatially varying initial surface elevation
  • Lagrangian gauges for particle tracking
  • Manning friction term
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b/dev/.doctrees/wp_algorithms.doctree index f6af9e8d0..8d351db3a 100644 Binary files a/dev/.doctrees/wp_algorithms.doctree and b/dev/.doctrees/wp_algorithms.doctree differ diff --git a/dev/_sources/changes_to_master.rst.txt b/dev/_sources/changes_to_master.rst.txt index f6bdab74a..2d016a31d 100644 --- a/dev/_sources/changes_to_master.rst.txt +++ b/dev/_sources/changes_to_master.rst.txt @@ -66,6 +66,15 @@ Changes to visclaw ------------------ - Support for `'binary32'` and `fgout` grids added. + +- `pcolor` plots are now rasterized by default, which greatly reduces the + file size in some cases. When e.g. `savefig('filename.svg')` is used + the labels are still vector graphics but the flow field is rasterized. + Passing the option `pcolor_kwargs = {"rasterized":False}` in setplot + turns this off. See ``. + +- The `JSAnimation` subdirectory was removed, since we now use + `anim.to_jshtml` instead. See `visclaw diffs `_ @@ -73,6 +82,7 @@ See `visclaw diffs Changes to riemann ------------------ +- None. See `riemann diffs `_ @@ -80,7 +90,8 @@ See `riemann diffs Changes to amrclaw ------------------ -- Support for `output_format='binary32'` added. +- Support for `output_format='binary32'` added for both output frames and + gauges. See `amrclaw diffs `_ @@ -88,7 +99,8 @@ See `amrclaw diffs Changes to geoclaw ------------------ -- Support for `output_format='binary32'` added. +- Support for `output_format='binary32'` added for both output frames and + gauges. - New `fgout` grid capabilities added, as described at :ref:`fgout`. This allows specifying one or more fixed resolution rectangular grids on @@ -102,18 +114,33 @@ Changes to geoclaw replaces the very old `fixedgrid` capability, which has now been further deprecated. +- `$CLAW/geoclaw/examples/tsunami/chile2010_fgmax` has been replaced by + `$CLAW/geoclaw/examples/tsunami/chile2010_fgmax-fgout`. This example + now also shows how to plot results on fgout grids either by + using a special `setplot` function or by reading them directly. + It also shows how to make an animation from the fgout results. + See `geoclaw diffs `_ Changes to PyClaw ------------------ +- Support for reading fgout frames added, by passing the parameter + `file_prefix` more consistently (which can be e.g. `fgout` rather than + `fort`, as used for output frames). -For changes in PyClaw, see the `PyClaw changelog -`_. +- Support for reading binary output files with format `'binary32'` or + `'binary64'`. Added for both output frames and gauges. The old `'binary'` + format is equivalent to `'binary64'`. -See `pyclaw diffs -`_ +- Support reading `file_format` from the `fort.t` files, now one of `ascii`, + `binary32`, or `binary64`. See General Changes above for more details. + +See `pyclaw diffs `_ + +For older changes in PyClaw, see also the `PyClaw changelog +`_. =========================== Other Clawpack Repositories diff --git a/dev/_sources/releases.rst.txt b/dev/_sources/releases.rst.txt index 02beb9205..e218ba022 100644 --- a/dev/_sources/releases.rst.txt +++ b/dev/_sources/releases.rst.txt @@ -13,7 +13,9 @@ Other notes: * Please see :ref:`citing` for the suggested way to cite the version of Clawpack that you are using in publications. -* For changes in PyClaw, see the `PyClaw changelog `_. +* For older changes in PyClaw, see the `PyClaw changelog `_. + Starting with v5.9.0, changes will be recorded in the release notes along + with those for other repositories. * See :ref:`changes_to_master` for changes to the master branch on Github that are not in the most recent release. diff --git a/dev/changes_to_master.html b/dev/changes_to_master.html index fa5485be8..d7ee92fd9 100644 --- a/dev/changes_to_master.html +++ b/dev/changes_to_master.html @@ -125,24 +125,36 @@

    Changes to clawutil

    • Support for ‘binary32’ and fgout grids added.

      • +

    • pcolor plots are now rasterized by default, which greatly reduces the +file size in some cases. When e.g. savefig(‘filename.svg’) is used +the labels are still vector graphics but the flow field is rasterized. +Passing the option pcolor_kwargs = {“rasterized”:False} in setplot +turns this off. See <https://github.com/clawpack/visclaw/pull/286>.

      • +

    • The JSAnimation subdirectory was removed, since we now use +anim.to_jshtml instead.

    See visclaw diffs

    Changes to riemann

    +
      +

    • None.

      • +

    See riemann diffs

    Changes to amrclaw

      -

    • Support for output_format=’binary32’ added.

      • +

    • Support for output_format=’binary32’ added for both output frames and +gauges.

    See amrclaw diffs

    Changes to geoclaw

      -

    • Support for output_format=’binary32’ added.

      • +

    • Support for output_format=’binary32’ added for both output frames and +gauges.

    • New fgout grid capabilities added, as described at Fixed grid output. This allows specifying one or more fixed resolution rectangular grids on which the AMR solution will be interpolated (in both space and time) @@ -153,13 +165,28 @@

      Changes to geoclawFixed grid monitoring) replaces the very old fixedgrid capability, which has now been further deprecated.

      • +

    • $CLAW/geoclaw/examples/tsunami/chile2010_fgmax has been replaced by +$CLAW/geoclaw/examples/tsunami/chile2010_fgmax-fgout. This example +now also shows how to plot results on fgout grids either by +using a special setplot function or by reading them directly. +It also shows how to make an animation from the fgout results.

    See geoclaw diffs

    Changes to PyClaw

    -

    For changes in PyClaw, see the PyClaw changelog.

    +
      +

    • Support for reading fgout frames added, by passing the parameter +file_prefix more consistently (which can be e.g. fgout rather than +fort, as used for output frames).

      • +

    • Support for reading binary output files with format ‘binary32’ or +‘binary64’. Added for both output frames and gauges. The old ‘binary’ +format is equivalent to ‘binary64’.

      • +

    • Support reading file_format from the fort.t files, now one of ascii, +binary32, or binary64. See General Changes above for more details.

      • +

    See pyclaw diffs

    +

    For older changes in PyClaw, see also the PyClaw changelog.

    diff --git a/dev/genindex.html b/dev/genindex.html index 128341026..4a49ec5ff 100644 --- a/dev/genindex.html +++ b/dev/genindex.html @@ -109,6 +109,8 @@

    A

    - +
    @@ -214,19 +220,29 @@

    C

  • clawpack.geoclaw.surge.storm (module)
    • - - + - - +
  • step_hyperbolic() (clawpack.pyclaw.classic.solver.ClawSolver method)
    • -
  • step_source (clawpack.pyclaw.classic.solver.ClawSolver attribute) +
  • step_source (clawpack.petclaw.geometry.Domain attribute) + +
  • Storm (class in clawpack.geoclaw.surge.storm)
  • strike (clawpack.geoclaw.dtopotools.SubFault attribute) @@ -1020,10 +1080,10 @@

    T

  • tfluct_solver (clawpack.pyclaw.sharpclaw.solver.SharpClawSolver attribute)
    • - - + @@ -1066,8 +1128,12 @@

    V

  • van_leer_klein_sharpening_limiter() (in module clawpack.pyclaw.limiters.tvd)
    • -
  • verbosity (clawpack.pyclaw.classic.solver.ClawSolver attribute) +
  • verbosity (clawpack.petclaw.geometry.Domain attribute) + +
    • verbosity() (clawpack.pyclaw.controller.Controller property) diff --git a/dev/geoclaw_util_module.html b/dev/geoclaw_util_module.html index 77e2cee3d..4a682eb33 100644 --- a/dev/geoclaw_util_module.html +++ b/dev/geoclaw_util_module.html @@ -112,7 +112,7 @@

      Navigation

      Note: If using this to initialize a radially-symmetric 2d velocity on the sphere based on a radial velocity U(r), symmetric about (x0, y0), set:

      -

      System Message: ERROR/3 (/Users/rjl/git/clawpack/clawpack/geoclaw/util.py:docstring of clawpack.geoclaw.util.bearing, line 9)

      +

      System Message: ERROR/3 (/Users/rjl/clawpack_src/clawpack_master/clawpack/geoclaw/util.py:docstring of clawpack.geoclaw.util.bearing, line 9)

      Unexpected indentation.

      diff --git a/dev/kmltools_module.html b/dev/kmltools_module.html index e72ef2586..bc7e6b0fa 100644 --- a/dev/kmltools_module.html +++ b/dev/kmltools_module.html @@ -110,6 +110,7 @@

      Navigation

    • topo2kml - create a kml outline for each topo grid specified in setrun

    • dtopo2kml - create a kml outline for each dtopo grid specified in setrun

    • fgmax2kml - create a kml outline for each fgmax grid specified in setrun

      • +

    • fgout2kml - create a kml outline for each fgout grid specified in setrun

    • make_input_data_kmls - make kml files for many things specified in setrun

    • pcolorcells_for_kml - version of pcolormesh with appropriate dpi and size

    • png2kml - create kml file wrapping a png figure to be viewed on GE

      • @@ -189,6 +190,28 @@

      Navigation

      +
      +
      +clawpack.geoclaw.kmltools.fgout2kml(rundata=None, fname='fgout_grids.kml', verbose=True, combined=False)
      +

      Create a KML box for each fgout grid specified for a GeoClaw run.

      +
      +
      Inputs
      +
        +

      • rundata - an object of class ClawRunData or None

        +

        If rundata==None, try to create based on executing function setrun +from the setrun.py file in the current directory.

        +
        • +

      • fname (str) - resulting kml file.

        • +

      • verbose (bool) - If True, print out info about each region found

        • +

      • combined (bool) - If True, combine into single kml file with +name given by fname. NOT YET IMPLEMENTED. +If False, fname is ignored and individual files are created for +each fgout grid.

        • +
      +
      +
      +
      +
      clawpack.geoclaw.kmltools.gauges2kml(rundata=None, fname='gauges.kml', verbose=True)
      @@ -336,7 +359,7 @@

      Navigation

      Internally the value dpi (dots per inch) for the png file is determined so that it is at least 16 and so that:

      -

      System Message: ERROR/3 (/Users/rjl/git/clawpack/clawpack/geoclaw/kmltools.py:docstring of clawpack.geoclaw.kmltools.pcolorcells_for_kml, line 36)

      +

      System Message: ERROR/3 (/Users/rjl/clawpack_src/clawpack_master/clawpack/geoclaw/kmltools.py:docstring of clawpack.geoclaw.kmltools.pcolorcells_for_kml, line 36)

      Unexpected indentation.

      @@ -344,7 +367,7 @@

      Navigation

      dpi * y_inches = dcp * y_cells

    -

    System Message: WARNING/2 (/Users/rjl/git/clawpack/clawpack/geoclaw/kmltools.py:docstring of clawpack.geoclaw.kmltools.pcolorcells_for_kml, line 38)

    +

    System Message: WARNING/2 (/Users/rjl/clawpack_src/clawpack_master/clawpack/geoclaw/kmltools.py:docstring of clawpack.geoclaw.kmltools.pcolorcells_for_kml, line 38)

    Block quote ends without a blank line; unexpected unindent.

    where x_cells, y_cells are the number of cells in each direction.

    @@ -354,14 +377,14 @@

    Navigation

    annotate the figure befor saving it as a png file, which should then be done with:

    -

    System Message: ERROR/3 (/Users/rjl/git/clawpack/clawpack/geoclaw/kmltools.py:docstring of clawpack.geoclaw.kmltools.pcolorcells_for_kml, line 46)

    +

    System Message: ERROR/3 (/Users/rjl/clawpack_src/clawpack_master/clawpack/geoclaw/kmltools.py:docstring of clawpack.geoclaw.kmltools.pcolorcells_for_kml, line 46)

    Unexpected indentation.

    plt.savefig(png_filename, transparent=True, dpi=kml_dpi)

    -

    System Message: WARNING/2 (/Users/rjl/git/clawpack/clawpack/geoclaw/kmltools.py:docstring of clawpack.geoclaw.kmltools.pcolorcells_for_kml, line 47)

    +

    System Message: WARNING/2 (/Users/rjl/clawpack_src/clawpack_master/clawpack/geoclaw/kmltools.py:docstring of clawpack.geoclaw.kmltools.pcolorcells_for_kml, line 47)

    Block quote ends without a blank line; unexpected unindent.

    The png_extent is needed in construcing a kml file to display the @@ -497,7 +520,7 @@

    Navigation

    -

    System Message: WARNING/2 (/Users/rjl/git/clawpack/clawpack/geoclaw/kmltools.py:docstring of clawpack.geoclaw.kmltools.topo2kmz, line 18)

    +

    System Message: WARNING/2 (/Users/rjl/clawpack_src/clawpack_master/clawpack/geoclaw/kmltools.py:docstring of clawpack.geoclaw.kmltools.topo2kmz, line 18)

    Field list ends without a blank line; unexpected unindent.

    If force_dry is an array of the same shape as topo.Z then another png diff --git a/dev/objects.inv b/dev/objects.inv index 735479d3c..fd33e8e14 100644 Binary files a/dev/objects.inv and b/dev/objects.inv differ diff --git a/dev/py-modindex.html b/dev/py-modindex.html index befab106b..51b1b1044 100644 --- a/dev/py-modindex.html +++ b/dev/py-modindex.html @@ -148,6 +148,31 @@

    Python Module Index

        clawpack.pyclaw.util + + +     + clawpack.riemann.acoustics_1D_py + + + +     + clawpack.riemann.advection_1D_py + + + +     + clawpack.riemann.burgers_1D_py + + + +     + clawpack.riemann.euler_1D_py + + + +     + clawpack.riemann.shallow_1D_py + diff --git a/dev/pyclaw/geometry.html b/dev/pyclaw/geometry.html index b26976d3f..f172ff7c6 100644 --- a/dev/pyclaw/geometry.html +++ b/dev/pyclaw/geometry.html @@ -620,6 +620,103 @@

    Parallel Geometry Objects

    petclaw.geometry.Domain

    +
    +
    +class clawpack.petclaw.geometry.Domain(geom)
    +

    Bases: clawpack.pyclaw.geometry.Domain

    +

    Parallel Domain Class

    +

    Parent Class Documentation:

    +

    2D Classic (Clawpack) solver.

    +

    Solve using the wave propagation algorithms of Randy LeVeque’s +Clawpack code (www.clawpack.org).

    +

    In addition to the attributes of ClawSolver1D, ClawSolver2D +also has the following options:

    +
    +
    +dimensional_split
    +

    If True, use dimensional splitting (Godunov splitting). +Dimensional splitting with Strang splitting is not supported +at present but could easily be enabled if necessary. +If False, use unsplit Clawpack algorithms, possibly including +transverse Riemann solves.

    +
    + +
    +
    +transverse_waves
    +

    If dimensional_split is True, this option has no effect. If +dimensional_split is False, then transverse_waves should be one of +the following values:

    +

    ClawSolver2D.no_trans: Transverse Riemann solver +not used. The stable CFL for this algorithm is 0.5. Not recommended.

    +

    ClawSolver2D.trans_inc: Transverse increment waves are computed +and propagated.

    +

    ClawSolver2D.trans_cor: Transverse increment waves and transverse +correction waves are computed and propagated.

    +
    + +

    Note that only the fortran routines are supported for now in 2D.

    +

    Parent Class Documentation:

    +

    Generic classic Clawpack solver

    +

    All Clawpack solvers inherit from this base class.

    +
    +
    +mthlim
    +

    Limiter(s) to be used. Specified either as one value or a list. +If one value, the specified limiter is used for all wave families. +If a list, the specified values indicate which limiter to apply to +each wave family. Take a look at pyclaw.limiters.tvd for an enumeration. +Default = limiters.tvd.minmod

    +
    + +
    +
    +order
    +

    Order of the solver, either 1 for first order (i.e., Godunov’s method) +or 2 for second order (Lax-Wendroff-LeVeque). +Default = 2

    +
    + +
    +
    +source_split
    +

    Which source splitting method to use: 1 for first +order Godunov splitting and 2 for second order Strang splitting. +Default = 1

    +
    + +
    +
    +fwave
    +

    Whether to split the flux jump (rather than the jump in Q) into waves; +requires that the Riemann solver performs the splitting. +Default = False

    +
    + +
    +
    +step_source
    +

    Handle for function that evaluates the source term. +The required signature for this function is:

    +

    def step_source(solver,state,dt)

    +
    + +
    +
    +kernel_language
    +

    Specifies whether to use wrapped Fortran routines (‘Fortran’) +or pure Python (‘Python’). Default = 'Fortran'.

    +
    + +
    +
    +verbosity
    +

    The level of detail of logged messages from the Fortran solver. +Default = 0.

    +
    + +
    +

    petclaw.geometry.Patch

    diff --git a/dev/pyclaw/rp.html b/dev/pyclaw/rp.html index b196f8274..c1818cd60 100644 --- a/dev/pyclaw/rp.html +++ b/dev/pyclaw/rp.html @@ -163,18 +163,328 @@

    Navigation

    Acoustics

    +

    Riemann solvers for constant coefficient acoustics.

    +
    +\[q_t + A q_x = 0\]
    +

    where

    +
    +\[\begin{split}q(x,t) = \left [ \begin{array}{c} p(x,t) \\ u(x,t) \end{array} \right ]\end{split}\]
    +

    and the coefficient matrix is

    +
    +\[\begin{split}A = \left [\begin{matrix} +0 & K\\ +1/\rho & 0 +\end{matrix} \right ]\end{split}\]
    +

    The parameters \(\rho =\) density and \(K =\) bulk modulus are used +to calculate the impedence \(= Z\) and speed of sound = c.

    +
    +
    Authors
    +

    Kyle T. Mandli (2009-02-03): Initial version

    +
    +
    +
    +
    +clawpack.riemann.acoustics_1D_py.acoustics_1D(q_l, q_r, aux_l, aux_r, problem_data)
    +

    Basic 1d acoustics riemann solver, with interleaved arrays

    +
    +
    problem_data is expected to contain -
      +

    • zz - (float) Impedence

      • +

    • cc - (float) Speed of sound

      • +
    +
    +
    +

    See Riemann Solver Package for more details.

    +
    +
    Version
    +

    1.0 (2009-02-03)

    +
    +
    +
    +

    Advection

    +

    Simple advection Riemann solvers

    +

    Basic advection Riemann solvers of the form (1d)

    +
    +\[q_t + A q_x = 0.\]
    +
    +
    Authors
    +

    Kyle T. Mandli (2008-2-20): Initial version

    +
    +
    +
    +
    +clawpack.riemann.advection_1D_py.advection_1D(q_l, q_r, aux_l, aux_r, problem_data)
    +

    Basic 1d advection riemann solver

    +
    +
    problem_data should contain -
      +

    • u - (float) Determines advection speed

      • +
    +
    +
    +

    See Riemann Solver Package for more details.

    +
    +
    Version
    +

    1.0 (2008-2-20)

    +
    +
    +
    +

    Burgers Equation

    +

    Riemann solvers for Burgers equation

    +
    +\[u_t + \left ( \frac{1}{2} u^2 \right)_x = 0\]
    +
    +
    Authors
    +

    Kyle T. Mandli (2009-2-4): Initial version

    +
    +
    +
    +
    +clawpack.riemann.burgers_1D_py.burgers_1D(q_l, q_r, aux_l, aux_r, problem_data)
    +

    Riemann solver for Burgers equation in 1d

    +
    +
    problem_data should contain -
      +

    • efix - (bool) Whether a entropy fix should be used, if not present, +false is assumed

      • +
    +
    +
    +

    See Riemann Solver Package for more details.

    +
    +
    Version
    +

    1.0 (2009-2-4)

    +
    +
    +
    +

    Euler Equations

    +

    Riemann solvers for the Euler equations

    +

    This module contains Riemann solvers for the Euler equations which have the +form (in 1d):

    +
    +\[q_t + f(q)_x = 0\]
    +

    where

    +
    +\[\begin{split}q(x,t) = \left [ \begin{array}{c} \rho \\ \rho u \\ E \end{array} \right ],\end{split}\]
    +

    the flux function is

    +
    +\[\begin{split}f(q) = \left [ \begin{array}{c} \rho u \\ \rho u^2 + p \\ u(E+p) \end{array}\right ].\end{split}\]
    +

    and \(\rho\) is the density, \(u\) the velocity, \(E\) is the +energy and \(p\) is the pressure.

    +

    Unless otherwise noted, the ideal gas equation of state is used:

    +
    +\[E = (\gamma - 1) \left (E - \frac{1}{2}\rho u^2 \right)\]
    +
    +
    +clawpack.riemann.euler_1D_py.euler_exact_1D(q_l, q_r, aux_l, aux_r, problem_data)
    +

    Exact euler Riemann solver

    +
    +

    Warning

    +

    This solver has not been implemented.

    +
    +
    + +
    +
    +clawpack.riemann.euler_1D_py.euler_hll_1D(q_l, q_r, aux_l, aux_r, problem_data)
    +

    HLL euler solver

    +
    W_1 = Q_hat - Q_l    s_1 = min(u_l-c_l,u_l+c_l,lambda_roe_1,lambda_roe_2)
+W_2 = Q_r - Q_hat    s_2 = max(u_r-c_r,u_r+c_r,lambda_roe_1,lambda_roe_2)
+
+Q_hat = ( f(q_r) - f(q_l) - s_2 * q_r + s_1 * q_l ) / (s_1 - s_2)
+
    +
    +
    +
    problem_data should contain:
      +

    • gamma - (float) Ratio of the heat capacities

      • +

    • gamma1 - (float) \(1 - \gamma\)

      • +
    +
    +
    +
    +
    Version
    +

    1.0 (2014-03-04)

    +
    +
    +
    + +
    +
    +clawpack.riemann.euler_1D_py.euler_hllc_1D(q_l, q_r, aux_l, aux_r, problem_data)
    +

    HLLC Euler solver

    +
    W_1 = q_hat_l - q_l      s_1 = min(u_l-c_l,u_l+c_l,lambda_roe_1,lambda_roe_2)
+W_2 = q_hat_r - q_hat_l  s_2 = s_m
+W_3 = q_r - q_hat_r      s_3 = max(u_r-c_r,u_r+c_r,lambda_roe_1,lambda_roe_2)
+s_m = (p_r - p_l + rho_l*u_l*(s_l - u_l) - rho_r*u_r*(s_r - u_r))\
+  / (rho_l*(s_l-u_l) - rho_r*(s_r - u_r))
+
    +
    +

    left middle state:

    +
    q_hat_l[0,:] = rho_l*(s_l - u_l)/(s_l - s_m)
+q_hat_l[1,:] = rho_l*(s_l - u_l)/(s_l - s_m)*s_m
+q_hat_l[2,:] = rho_l*(s_l - u_l)/(s_l - s_m)\
+        *(E_l/rho_l + (s_m - u_l)*(s_m + p_l/(rho_l*(s_l - u_l))))
+
    +
    +

    right middle state:

    +
    q_hat_r[0,:] = rho_r*(s_r - u_r)/(s_r - s_m)
+q_hat_r[1,:] = rho_r*(s_r - u_r)/(s_r - s_m)*s_m
+q_hat_r[2,:] = rho_r*(s_r - u_r)/(s_r - s_m)\
+        *(E_r/rho_r + (s_m - u_r)*(s_m + p_r/(rho_r*(s_r - u_r))))
+
    +
    +

    problem_data should contain:

    +
    +
      +

    • gamma: (float) Ratio of specific heat capacities

      • +

    • gamma1: (float) \(\gamma - 1\)

      • +
    +
    +

    :Version 1.0 (2015-11-18)

    +
    + +
    +
    +clawpack.riemann.euler_1D_py.euler_roe_1D(q_l, q_r, aux_l, aux_r, problem_data)
    +

    Roe Euler solver in 1d

    +
    +
    aug_global should contain -
      +

    • gamma - (float) Ratio of the heat capacities

      • +

    • gamma1 - (float) \(1 - \gamma\)

      • +

    • efix - (bool) Whether to use an entropy fix or not

      • +
    +
    +
    +

    See Riemann Solver Package for more details.

    +
    +
    Version
    +

    1.0 (2009-6-26)

    +
    +
    +
    +

    Shallow Water Equations

    +

    Riemann solvers for the shallow water equations.

    +
    +
    The available solvers are:
      +

    • Roe - Use Roe averages to caluclate the solution to the Riemann problem

      • +

    • HLL - Use a HLL solver

      • +
    • +
      Exact - Use a newton iteration to calculate the exact solution to the

      Riemann problem

      +
      +
      +
      • +
    +
    +
    +
    +\[q_t + f(q)_x = 0\]
    +

    where

    +
    +\[\begin{split}q(x,t) = \left [ \begin{array}{c} h \\ h u \end{array} \right ],\end{split}\]
    +

    the flux function is

    +
    +\[\begin{split}f(q) = \left [ \begin{array}{c} h u \\ hu^2 + 1/2 g h^2 \end{array}\right ].\end{split}\]
    +

    and \(h\) is the water column height, \(u\) the velocity and \(g\) +is the gravitational acceleration.

    +
    +
    +clawpack.riemann.shallow_1D_py.shallow_exact_1D(q_l, q_r, aux_l, aux_r, problem_data)
    +

    Exact shallow water Riemann solver

    +
    +

    Warning

    +

    This solver has not been implemented.

    +
    +
    + +
    +
    +clawpack.riemann.shallow_1D_py.shallow_fwave_1d(q_l, q_r, aux_l, aux_r, problem_data)
    +

    Shallow water Riemann solver using fwaves

    +

    Also includes support for bathymetry but be wary if you think you might have +dry states as this has not been tested.

    +
    +
    problem_data should contain:
      +

    • grav - (float) Gravitational constant

      • +

    • dry_tolerance - (float) Set velocities to zero if h is below this +tolerance.

      • +

    • sea_level - (float) Datum from which the dry-state is calculated.

      • +
    +
    +
    +
    +
    Version
    +

    1.0 (2014-09-05)

    +
    +
    Version
    +

    2.0 (2017-03-07)

    +
    +
    +
    + +
    +
    +clawpack.riemann.shallow_1D_py.shallow_hll_1D(q_l, q_r, aux_l, aux_r, problem_data)
    +

    HLL shallow water solver

    +
    W_1 = Q_hat - Q_l    s_1 = min(u_l-c_l,u_l+c_l,lambda_roe_1,lambda_roe_2)
+W_2 = Q_r - Q_hat    s_2 = max(u_r-c_r,u_r+c_r,lambda_roe_1,lambda_roe_2)
+
+Q_hat = ( f(q_r) - f(q_l) - s_2 * q_r + s_1 * q_l ) / (s_1 - s_2)
+
    +
    +
    +
    problem_data should contain:
      +

    • g - (float) Gravitational constant

      • +
    +
    +
    +
    +
    Version
    +

    1.0 (2009-02-05)

    +
    +
    +
    + +
    +
    +clawpack.riemann.shallow_1D_py.shallow_roe_1D(q_l, q_r, aux_l, aux_r, problem_data)
    +

    Roe shallow water solver in 1d:

    +
    ubar = (sqrt(u_l) + sqrt(u_r)) / (sqrt(h_l) + sqrt(h_r))
+cbar = sqrt( 0.5 * g * (h_l + h_r))
+
+W_1 = |      1      |  s_1 = ubar - cbar
+      | ubar - cbar |
+
+W_2 = |      1      |  s_1 = ubar + cbar
+      | ubar + cbar |
+
+a1 = 0.5 * ( - delta_hu + (ubar + cbar) * delta_h ) / cbar
+a2 = 0.5 * (   delta_hu - (ubar - cbar) * delta_h ) / cbar
+
    +
    +
    +
    problem_data should contain:
      +

    • g - (float) Gravitational constant

      • +

    • efix - (bool) Boolean as to whether a entropy fix should be used, if +not present, false is assumed

      • +
    +
    +
    +
    +
    Version
    +

    1.0 (2009-02-05)

    +
    +
    +
    +
    diff --git a/dev/releases.html b/dev/releases.html index 2c98355d2..81d66d96c 100644 --- a/dev/releases.html +++ b/dev/releases.html @@ -91,7 +91,9 @@

    Other notes:

  • Please see Citing this work for the suggested way to cite the version of Clawpack that you are using in publications.

    • -

  • For changes in PyClaw, see the PyClaw changelog.

    • +

  • For older changes in PyClaw, see the PyClaw changelog. +Starting with v5.9.0, changes will be recorded in the release notes along +with those for other repositories.

  • See Changes to master since v5.8.2 for changes to the master branch on Github that are not in the most recent release.

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40,141,151,152,159,161],These:[1,4,5,12,16,18,23,28,30,32,34,39,43,45,49,52,55,60,61,64,67,68,75,79,81,85,90,93,94,95,97,103,105,109,111,112,113,115,121,122,123,124,128,132,142,146,150,151,154,158,162],USE:[62,83],Use:[30,52,93,101,123,134,141,143,144,145,154,156],Used:134,Useful:[1,3,134,141],Uses:[30,134,156],Using:[0,1,2,3,7,17,22,42,43,46,52,54,77,78,79,81,91,92,93,125,141,148,149,153,156,157,162],WCS:158,Will:100,With:[6,22,28,45,50,52,59,67,75,112,120,133,135,141],__________________o:156,__file__:108,__future__:121,__init__:[56,98,108],__main__:[143,145],__name__:[143,145],_build1:55,_build:55,_compute_c_cent:91,_compute_c_nod:91,_compute_p_cent:91,_compute_p_nod:91,_fillvalu:94,_googleearth:52,_outdir:95,_output2:[79,81],_output:[5,13,14,32,34,36,37,45,51,61,68,79,81,90,95,97,100,120,127,157],_output_from_previous_run:45,_output_new:113,_output_old:113,_plot:[13,36,37,45,68,81,140,146],_plotindex:[1,45],_plots_new:113,_plots_old:113,_ptwise:133,_pyclaw_io:88,_static:55,_storm_modul:151,_subpackag:108,_surge_modul:110,_templat:[55,56],_theme:55,a351:[17,93],a377:[17,93],a_0:69,a_1x:69,a_2i:69,a_3xi:69,aabbggrr:60,abdullah:[4,83],abil:[42,119,121,125,150,156],abl:[13,55,108],abort:63,about:[3,5,7,13,14,16,18,22,25,33,34,35,36,37,41,48,49,54,56,60,63,65,68,74,80,82,85,93,96,101,108,113,120,124,126,133,140,142,143,144,154,157,159,162],aboutu:30,abov:[3,5,13,14,16,20,28,32,34,36,37,39,40,41,42,45,49,52,54,55,56,59,62,64,67,69,72,74,79,82,83,86,95,97,102,105,106,112,121,123,128,133,135,137,139,140,141,143,144,145,150,153,154,156,159],abs:[30,53,98,106,112,135,156],absolut:[95,112,113,123,142,143],absolute_import:121,abspath:[5,39],abstol:106,academ:104,acceler:53,accept:[45,85,95,101,141],accept_reject_step:101,access:[0,17,27,29,56,59,90,91,93,101,103,106],accid:28,accident:[28,79],accompani:[18,21],accomplish:[29,40,63],accord:[6,54],accordingli:[52,154],account:[13,24,28,56,87,96],accumul:[45,121,132],accur:[5,49,69,72,93,101,128,141,159,162],accuraci:[45,65,75,143,145],achiev:[20,86,148,149],acou:79,acoust:[16,29,36,37,49,84,85,88,90,93,101,102,119,133,143,159],acoustics1dheterogeneoustest:[37,152],acoustics3dheterogeneoustest:[37,152],acoustics_1d:[85,105],acoustics_1d_adjoint:5,acoustics_1d_example1:[36,37,71],acoustics_1d_heterogen:[37,152,159],acoustics_1d_homogen:[90,113],acoustics_2d:101,acoustics_2d_adjoint:5,acoustics_2d_radi:[143,159],acoustics_3d_heterogen:[37,152],acoustics_3d_vari:113,acquaint:105,acquir:79,across:[5,112,121,154,156],acsza1:30,acszb1:30,act:[89,156],acta:17,actanum2011:17,action:[13,14,86],activ:[24,32,34,39,55,101,110,144],actual:[6,27,30,34,54,59,60,68,72,79,89,94,106,110,136,144],adapt:[4,7,17,30,40,53,54,67,68,75,85,112,123,126,128,133,135,140,141,142,144,159],add:[0,11,12,13,16,17,27,28,30,45,48,52,55,56,58,59,64,67,68,70,72,78,85,90,91,95,96,98,106,116,119,121,122,123,126,134,145,150,154,156,160],add_colorbar:[30,156],add_colormap:[40,67,120,126],add_dimens:91,add_gaug:[91,95],add_label:45,add_param:[143,145],add_parent_doc:106,add_titl:79,add_true_solut:79,added:[3,12,16,18,20,22,24,28,34,35,45,48,54,56,59,60,61,65,68,79,91,95,108,110,112,115,116,118,119,120,121,122,123,124,125,126,127,132,137,141,142,144,150,153,156,160],addgaug:45,adding:[22,27,28,29,32,34,42,45,55,60,69,72,96,109,120,122],addit:[5,7,13,16,18,23,24,28,29,32,34,37,38,39,46,47,60,67,72,74,75,79,80,86,89,93,95,101,102,103,110,112,119,121,122,123,124,127,128,130,133,135,141,145,150,153,154,159,160],addition:[96,150],address:[52,55,121],adequ:49,adjac:[6,16,32,46,112,137,141],adjoint:[7,17,25,53,112,123,124],adjoint_flag:112,adjoint_modul:124,adjoint_outdir:5,adjointdata:[5,124,125],adjointsup_modul:124,adjust:[5,13,20,32,33,46,60,91,95,136,141,159],adjust_fgmax_1d:33,admiralti:135,adopt:[30,101],adv:17,advanc:[6,17,34,53,67,73,105,120,141,142,159],advantag:[12,34,45,61,78,94,107,113,135],advect:[17,79,93,96,133,134,145,159],advection2dannulustest:[37,152],advection_1d_example1:64,advection_2d_annulu:[37,152],advection_2d_flagregion:39,advection_2d_inflow:119,advection_2d_swirl:159,advection_3d_swirl:[119,153],advertis:128,advis:[62,83],affect:[18,22,63,121,122,128,141,154,157],afosr:4,after:[0,1,3,5,6,12,13,19,23,27,28,29,32,33,34,36,37,40,45,49,55,56,58,60,61,63,64,67,68,70,74,79,86,87,88,90,95,101,103,108,112,113,115,119,120,134,137,141,142,143,145,150,159],afterax:[0,27,45,52,79],afterfram:[1,27,78],aftergrid:68,afteritem:[3,27],afterpatch:[3,27],again:[22,41,63,67,72,79,81,85,86,95,99,104,108,123,129,154,157],against:[106,113,120,152],agenc:[4,57,150,151],agency_pref:150,agre:[12,28,40,54,133,153,156,159],agreement:49,ahmadia:[4,17,83,93],aht:136,aid:86,aim:28,aks2203:4,albada:89,alg:143,alghamdi:[4,17,83,93],algorithm:[4,7,25,32,39,40,46,53,85,93,94,101,105,112,123,133,135,141,143,145,156],align:[32,34,40,52,60,67,126,128,144],all:[0,1,4,6,11,12,13,16,20,22,23,25,27,28,29,30,32,33,34,35,36,37,40,41,42,45,46,49,51,52,54,55,56,57,58,60,61,62,63,64,68,69,71,72,73,74,75,78,79,81,82,83,85,88,89,91,93,9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[6,28,59,63,68,104,108],conform:[22,28,33,100,123,154],confus:[3,54,59,108,128,133],conjunct:[24,40,67,94,112],conlict:63,connect:[32,55,60,67,126,135],consequenti:[62,83],conserv:[4,5,6,17,95,101,103,124,134,159,162],consid:[6,40,49,59,67,86,108,139,146,156],consider:[49,85],consist:[6,25,32,34,48,52,56,60,96,107,121,133,135,144,154,159],consol:[13,95,144],consolid:119,constant:[30,32,34,49,60,65,69,96,133,134,135,137,144,156,159],constant_storm_modul:119,constrain:112,constraint:[40,45,135,142,162],construc:60,construct:[22,30,32,54,69,85,91,106,150,151,154],construct_function_handl:106,constructor:103,consult:104,contact:[12,90,93,102],contain:[1,3,5,12,13,20,23,25,26,30,32,33,34,35,36,37,38,41,43,44,45,46,48,50,51,52,53,54,55,56,60,61,63,64,67,68,70,74,75,79,81,82,85,86,88,89,91,93,94,96,98,99,100,101,103,105,106,107,108,112,113,115,116,123,124,131,133,135,140,141,144,146,150,154,156,157,159],containing_rect:30,contains:29,containt:132,contamin:141,contan:52,content:[4,6,23,35,52,56,75,86,93,144,154,159,160],context:[27,52,159],contigu:[74,94,103,135],contin:35,continent:[7,67],contingu:22,continu:[13,22,28,30,50,55,83,107,133,141,162],contour:[3,30,45,52,54,68,107,140,156],contour_color:3,contour_kwarg:[3,156],contour_level:[3,156],contour_max:3,contour_min:3,contour_nlevel:3,contour_show:3,contourf:[52,78],contract:[4,62,83],contrast:[54,135],contribut:[4,24,25,58,83,86,93,98,101,110,113],contributor:[4,24,62,93],control:[6,7,23,25,32,34,42,45,55,59,61,68,81,84,89,91,93,94,95,96,98,112,121,126,134,144],conveni:[1,27,32,34,36,37,40,45,52,81,88,90,93,95,97,105,159,162],convens:154,convent:[3,22,30,47,54,72,99,154],converg:[67,78],convers:[19,25,86,94,112,135,154,158],convert43to46:19,convert46to50:20,convert:[3,22,25,30,33,35,43,48,52,59,60,63,72,75,86,93,98,106,107,123,126,141,142,150,154,158],convert_fort_double_to_float:106,convert_readm:11,convert_to_standard_unit:30,convex:[7,32],coodin:30,coord:[48,52],coordin:[4,23,30,32,34,48,74,78,85,91,95,96,105,112,135,144,156],coordinate_specif:[30,72],coordinate_system:[15,61,138,144],coorind:156,copi:[6,14,15,16,36,37,45,52,55,56,59,68,85,88,98,103,109,110,111,112,116,120,123,127,137,138,142,146,148,149,154,159],copyq1:64,copyright:[62,83],core:[4,12,75,113,123],corioli:[49,144,148,149],coriolis_forc:[49,144],corner:[3,30,32,54,72,74,91,135,141,143,145,154,156],correct:[20,28,42,55,56,64,65,68,79,85,96,100,106,115,116,120,137,141,143,144,145],correctli:[28,32,86,92,119],correspond:[3,6,12,23,25,27,30,34,35,45,48,49,54,55,56,60,68,72,79,85,89,91,94,95,98,100,103,112,113,133,135,136,141,142,143,144,145,150,154,158,159],correspondingli:32,cos:[40,48,50,67,85,98],coseism:144,cosin:85,cost:[13,101],costli:134,could:[5,12,13,27,32,35,36,37,40,45,54,61,67,69,72,73,79,81,85,91,95,103,104,108,119,128,135,137,142,143,144,145,156,159],council:4,count:85,count_from_zero:85,counter:[106,156],counterclockwis:72,coupl:[121,162],courant:[4,6,112,122,141,142,143,145],cours:[13,26,32,45,47,61,72,96,97,105,107,110,144,154],cover:[6,7,27,28,30,32,34,35,39,40,52,60,67,72,112,116,121,137,143,154],coverag:[93,113],covert:11,covid:24,cparam:[85,103],cpp:53,cpu:[13,53,120,123,125,153],crash:[120,141,142],creat:[0,1,2,3,5,6,7,18,19,24,25,28,30,32,33,34,35,36,37,39,41,43,45,46,47,51,53,55,59,60,63,72,74,78,79,81,86,87,90,91,93,94,97,100,103,104,105,106,112,113,115,119,120,121,123,124,125,128,135,140,141,142,143,146,147,150,156,158,159,160],create_dtopo_xi:[30,72],create_dtopographi:[30,72],create_topo_func:156,creation:[40,79,93,115],criteria:[6,7,22,25,32,67,103],criterion:[32,112,143],critic:[52,95,133],crop:[54,156],cross:28,crucial:[52,154],csdm:24,cse:24,csh:96,csv:[30,72,123],csvfault:[30,72],ctrl:[29,79],cube:68,cultu:67,cumul:123,current:[3,5,13,14,20,22,24,27,28,29,30,32,35,39,40,42,45,46,49,54,55,56,58,59,60,61,68,70,74,79,81,91,94,95,96,101,103,106,108,112,113,120,122,123,132,136,140,141,142,143,144,145,150,151,154,156,158],current_data:[0,3,25,45,78,79],curv:[3,45,78,135],custom:[0,13,16,20,22,25,64,68,75,78,86,92,98,137],custom_bc:98,customari:95,cut:142,cutoff:[6,143],cvf:56,cvs:52,cxx:96,cyber:17,cygwin:88,cython:96,dai:[6,13,52,144],dalcin:83,dam:[52,137],dam_break:134,damag:[6,62,83],damiansra:98,dark:135,darker:52,darryl:17,dart:46,dash:[3,96],daspect:68,dat:[30,150],data:[0,1,3,5,25,27,30,32,33,34,35,36,37,39,40,41,43,45,46,47,48,54,55,60,61,62,63,67,68,78,79,80,81,83,85,88,91,94,95,97,99,100,101,103,106,109,110,111,112,115,117,118,120,121,123,124,125,126,128,133,135,136,142,143,145,150,153,155,160],data_break:[40,67,156],data_fil:[33,35],data_limit:[40,67],data_storm:150,data_typ:106,databas:[13,30,72,106,110,123,154],datadir:120,dataset:[154,156,158],datatyp:35,date:[5,28,41,48,52,55,56,63,79,150,157],date_tim:48,datetiem:150,datetim:[48,150],datum:[48,49,136,144,158],dave:30,davi:[4,17],david:[4,17,83,93,101],davis2018:[5,17],davisleveque2016:[5,17],davisleveque2018:[5,17],dawson:17,daylight:60,dcp:60,deal:[30,49,78,95,96,103,150,156],dealt:[32,40],debri:34,debug:[7,18,42,63,74,78,95,103,108,113,141,143],debugg:79,decemb:[18,130,131],decid:[85,101],decim:[48,60],decimc:150,decis:52,declar:[20,22,103,128,159],decompos:[74,133,162],decomposit:141,decor:106,decoupl:55,decreas:[45,137,154],deduc:154,deep:[5,67],deeper:[135,144,154],deepli:105,def:[0,1,3,45,52,67,79,85,95,98,101,143,145,150],default_tfluct:101,defenc:4,defens:4,defin:[0,1,3,5,6,7,22,27,30,32,34,35,39,40,42,52,60,61,63,67,68,72,79,81,85,88,91,97,98,100,101,103,105,106,112,115,123,128,133,143,145,150,154,156,157,159,162],definit:[30,68,85,112,118],deform:[17,30,33,35,46,72,158],deg2dm:60,degener:135,degrad:34,degre:[30,48,52,60,69,72],delet:[20,28,59],delimit:30,delin:144,delta:[69,89,91,98,101,133,156,159,162],delta_i:156,delta_limit:156,delta_x:156,dem:[32,46,54,60,123,154,156,158],demo:96,demonstr:[12,25,90,96],denot:[6,22,35,45,54,133,156],dens:151,densiti:[88,95,103,105,142,143,159],depart:[4,150],depdend:89,depend:[3,13,16,28,29,30,32,35,36,37,41,42,47,49,52,63,65,68,72,79,84,94,99,100,101,106,108,112,123,137,142,144,156,157,159,162],deprec:[7,18,30,46,55,59,119,123,154,156],depress:32,depth:[4,5,16,17,22,30,32,33,35,40,45,46,49,65,69,72,78,80,134,136,137,144,154],deriv:[62,72,83,88,92,93,103,113],describ:[3,4,5,6,7,13,14,16,18,19,26,28,30,31,32,34,36,37,39,40,45,47,48,49,52,53,55,56,58,60,61,63,64,67,68,72,74,75,78,79,80,91,93,94,100,106,110,112,113,121,124,125,133,135,136,140,141,142,144,150,151,154,156,158,159,162],descript:[3,4,6,9,22,23,25,30,35,60,68,72,75,78,93,94,106,110,112,133,134,144,150,154,162],design:[4,27,28,52,83,85,105,135,158],desir:[0,1,2,3,6,7,16,22,25,26,30,32,33,34,35,40,43,45,56,59,60,61,67,69,72,77,78,79,81,85,86,88,95,100,101,109,121,123,126,137,139,141,142,143,144,145,150,154,156,157],desktop:96,destin:52,detail:[4,5,10,16,22,23,25,26,28,29,30,32,34,36,37,39,42,45,47,49,52,55,58,59,61,62,63,67,68,72,75,79,83,88,89,90,93,94,95,96,97,98,99,101,111,112,113,116,121,123,128,133,135,140,141,144,146,150,154,157,158,159,162],detect:[52,63,94,102,106,157],deterimin:[144,156],determin:[3,5,6,30,32,35,40,45,46,49,51,52,55,60,69,72,79,89,91,94,103,108,112,116,120,121,132,135,136,140,141,142,144,156,159],determine_topo_typ:156,dev:[18,24,28,55,56,96,123,124,129,130,131],develop:[4,6,7,12,13,18,22,23,49,53,55,58,59,62,67,68,78,82,83,86,93,98,101,102,108,110,113,123,124,126,128,133,136,137,143],dict:[30,35,88,94,99,100,103,150,156],dictionari:[0,1,2,3,30,35,45,61,79,85,88,94,99,100,103,105,108,150,154,156],dicuss:30,did:[123,128,135,154],didn:118,died:115,diff:[18,51,56,115,116,117,118,119,120,121,122,123,124,125,126,127,128,129,130],differ:[1,3,6,7,12,15,16,22,28,30,31,34,35,36,37,40,45,47,49,51,54,58,60,63,65,67,68,72,73,78,81,85,86,88,90,91,93,94,99,101,106,107,108,109,112,113,119,120,121,122,123,126,128,129,133,136,137,138,139,141,142,143,144,148,149,154,156,157,158,159,162],differenti:[17,30],difficult:45,difficulti:[102,104,108],diffus:98,digit:[32,34,40,54,60,61,79,121,122,123,156],dike:[40,67,126,144],dim:[98,99,101],dimens:[5,6,7,16,20,22,25,45,48,54,60,68,69,85,86,88,94,96,98,99,100,103,105,112,123,126,133,141,142,143,145,156,159],dimension:[3,7,8,17,22,25,30,32,34,36,37,45,49,53,68,91,98,119,120,122,125,143,144,145,156,159],dimensional_split:[119,141,143,145],dip:[30,72],dir:[56,96,160],direct:[6,8,16,22,30,32,34,36,37,45,48,52,56,60,62,63,68,72,73,79,83,88,98,105,112,122,133,141,142,144,156],directli:[8,18,19,23,32,46,49,58,68,72,79,81,85,86,89,93,103,106,108,123,156,160],directori:[1,3,5,6,11,12,13,14,15,16,19,20,22,23,25,28,29,31,32,34,35,36,37,38,41,43,44,45,46,48,51,52,55,56,58,60,64,68,70,73,77,78,81,88,90,91,93,94,95,98,105,108,109,110,112,113,115,120,121,122,123,125,132,133,137,138,139,140,141,142,146,148,149,152,153,154,157,159,160],directorti:110,disabl:[50,102,144],disable_petsc:106,discard:[32,101],disclaim:[62,83],discontinu:[4,101,162],discov:65,discoveri:113,discret:101,discrib:4,discuss:[5,24,28,30,49,54,67,72,94,105,107,108,112,121,123,133,144,162],disk:[13,45,85,94,95,113,121],dispers:49,displac:[30,34,46,49,72,137,144,158],displai:[1,13,36,37,41,45,52,60,79,95,113,144],display_format:[45,61],display_landfall_tim:144,dist:56,dist_latlong2met:48,dist_meters2latlong:48,distanc:[30,34,48,52,72,144,154,156],distant:[110,112],distinct:[45,121],distinguish:40,distribut:[4,12,13,29,30,55,62,72,75,83,101,107,126],disturb:52,distutil:86,divid:[112,141],divis:[4,52],dlgeorg:4,dms2decim:48,dnetcdf:[42,154],doc:[18,23,24,28,30,52,56,89,106,107,108,122,123,124,125,126,127,128,129,130,147],docker:[18,25,56,57,122,123,124,125,126,127,128,129,130,161],docker_disk:29,docker_imag:56,dockerfile_v5:29,dockerhub:[29,56],dockeril:29,docstr:[86,90,113],doctest:91,documen:55,document:[0,1,2,3,6,7,18,21,22,23,24,25,28,29,32,46,49,54,59,62,72,78,79,80,81,83,89,91,94,95,96,97,101,103,106,108,116,129,130,131,140,143,160,161],dodsc:[40,67],doe:[4,5,11,16,18,20,27,28,34,40,41,49,52,54,55,59,68,75,79,82,91,100,103,106,112,113,116,121,125,128,132,133,134,137,150,156,157,159],doesn:[28,32,5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0,x_mask:156,xarr:91,xarrai:156,xarray_d:156,xclaw:[36,37,88],xclawcmd:88,xclawerr:88,xclawout:88,xcode:82,xdir:88,xiaom:30,xinsheng:[4,53],xinshengqin:[4,53],xleft:[142,143],xlf:102,xlimit:[0,45,52,126],xllcenter:[54,123,154],xllcorner:[54,154],xllower:123,xlow:74,xlower:[0,3,16,22,27,40,86,123,143,145,154,156,159],xlowerg:86,xmax:[0,35],xmin:[0,35],xrang:98,xtick:[40,50],xupper:[0,22,143,145,156],xxdiff:113,xxx:154,xxxx:68,xy_fil:32,xy_fnam:33,xylim:30,xzf:58,y_c:135,y_cell:60,y_center:135,y_edg:[60,135],y_inch:60,year:[4,17,22,52,60,93,114,124,150],yellow:[60,79,150],yellow_red_blu:79,yes:68,yet:[1,13,18,20,25,49,53,55,58,60,78,101,121,122,123,124,125,126,127,128,129,130,131,133,141,143,161],yianni:[4,17,83],yield:3,yleft:[142,143],ylimit:[0,45,52,126,140],yllcenter:[54,123,154],yllcorner:[54,154],yllower:123,ylow:74,ylower:[3,22,27,40,86,123,143,154,156],ylowerg:86,ymax:[0,35],ymin:[0,35],yml:113,yong:17,you:[0,3,4,5,12,13,14,15,16,18,19,20,22,23,24,25,26,27,28,29,32,34,35,36,37,38,39,41,42,43,45,48,51,52,53,54,55,56,57,58,59,60,63,64,67,68,70,71,72,73,74,75,77,78,79,81,82,83,85,86,87,88,90,93,94,95,96,97,98,101,102,103,104,105,107,108,109,110,111,113,115,120,121,122,123,126,128,131,132,133,134,135,136,137,138,139,140,142,143,144,145,146,147,148,149,150,152,154,157,158,159,161],your:[4,6,15,16,19,20,24,25,26,34,36,38,42,45,54,55,56,57,58,59,70,73,78,79,81,83,84,85,86,87,90,92,93,95,104,105,107,108,109,110,112,113,115,123,133,138,139,148,149,154,157,159],yourself:[42,45,58],youtub:[24,110,126],yupper:[22,143,156],z_allow_wet:40,z_dry:40,z_format:[40,67,156],zdry:[40,67],zenodo:[4,58,126,127,128,129,130,131],zero:[3,16,30,32,40,42,45,60,68,69,85,98,103,105,128,135,136],zip:[12,52,56],zipinfo:52,zlib:94,zlim:60,zlower:22,zmask:67,zmax:[40,67],zmin:[40,67],znearshor:67,zone:[49,52,60,142,143],zoom:[24,52],zsh:96,zshallow:67,ztopo:67,zupper:22,zvar:156},titles:["ClawPlotAxes","ClawPlotData","ClawPlotFigure","ClawPlotItem","About this software","Guiding AMR with adjoint flagging","Adaptive mesh refinement (AMR) algorithms","AMRClaw Description and Detailed Contents","AMRClaw for 1d problems","Doxygen documentation of AMRClaw","AMRClaw Flowcharts","Application documentation","Clawpack Applications repository","Amazon Web Services EC2 Clawpack AMI","b4run function","b4step default routines","Boundary conditions","Bibliography","Changes to master since v5.8.2","Converting from Clawpack 4.3 to 4.6","Converting from Clawpack 4.6 to 5.0","Clawpack 4.x links","Changes in Clawpack 5.0","Clawpack components","Clawpack Community","Full Table of Contents","Contributing examples and applications","current_data","Developers\u2019 Guide","Docker for Clawpack","dtopotools module for moving topography","Fortran 77 vs. Fortran 90 files","Fixed grid monitoring","fgmax_tools module for working with fgmax grids","Fixed grid output","fgout_tools module for working with fgout grids","Running an example","Testing your Fortran installation and running an example","Testing a PyClaw installation and running an example","Specifying flagregions for adaptive refinement","Force Cells to be Dry Initially","Fortran version","Fortran Compilers","Examples from the book FVMHP","Clawpack Gallery","Gauges","GeoClaw Description and Detailed Contents","Getting started with GeoClaw","geoclaw.util module of utility functions","Cautionary Hints on using GeoClaw","GeoClaw plotting tools","Keeping track of repository versions with Git","Visualizing GeoClaw results in Google Earth","Using the GPU version of Clawpack","Grid registration","Guide for updating this documentation","Guide for doing a Clawpack release","Installing Clawpack","Options for installing Clawpack Fortran codes","pip install instructions","kmltools module of utility functions","Lagrangian gauges for particle tracking","License","Clawpack Makefiles","Library routines in Makefiles","Manning friction term","The mapc2p function","Marching Front algorithm","Plotting using Matlab","Nearshore interpolation","Using NetCDF output","Creating a new application directory","Earthquake sources: Fault slip and the Okada model","Using OpenMP","Output data formats","Which Clawpack solver should I use?","Clawpack Community Photos","Plotting examples","Plotting with Visclaw","Plotting hints and FAQ","Plotting routines for GeoClaw","Plotting options in Python","Installation Prerequisites","About PyClaw","PyClaw Basics","Understanding Pyclaw Classes","Porting a problem from Clawpack 4.6.x to PyClaw","Running PyClaw in the cloud","Pyclaw Controller Class","Pyclaw Limiters","Working with PyClaw\u2019s built-in examples","PyClaw Geometry","Going Further","PyClaw","Pyclaw Input/Output Package","PyClaw output","Running in parallel","Plotting PyClaw results","Setting up your own problem","Riemann Solver Package","PyClaw Solutions","Using PyClaw\u2019s solvers: Classic and SharpClaw","Installing PyClaw","PyClaw State","Troubleshooting","PyClaw tutorial: Solve the acoustics equations","Pyclaw Utility Module","Python Hints","Python path","qinit default routines","Quick start guide for storm surge modeling","Quick start guide for tsunami modeling","AMR refinement criteria","Regression testing","v5.0.0 release notes","v5.1.0 release notes","v5.2.0 release notes","v5.2.1 release notes","v5.2.2 release notes","v5.3.0 release notes","v5.3.1 release notes","v5.4.0 release notes","v5.4.1 release notes","v5.5.0 release notes","v5.6.0 release notes","v5.6.1 release notes","v5.7.0 release notes","v5.7.1 release notes","v5.8.0 release notes","v5.8.1 release notes","v5.8.2 release notes","Releases of Clawpack and release notes","Checkpointing and restarting","Riemann solvers","Shallow water Riemann solvers in Clawpack","Ruled Rectangles","Setting sea_level","Set Eta Init \u2013 spatially varying initial surface elevation","setaux default routines","Set environment variables","Using setplot.py to specify the desired plots","Specifying classic run-time parameters in setrun.py","Specifying AMRClaw run-time parameters in setrun.py","Sample setrun.py module for AMRClaw","Specifying GeoClaw parameters in setrun.py","Sample setrun.py module for classic Clawpack","Saving and sharing results","Compiling the Sphinx documentation locally","src1d default routines","src default routines","Storm Specification Class and Tools","Sources for Storm Surge Data","Testing your installation","Timing Statistics","Topography data","Python tools for working with topo and dtopo","topotools module for working with topography data","Troubleshooting","Some sources of tsunami data","User files required for the Fortran code","Plotting with VisIt","Clawpack Virtual Machine","Wave-propagation 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3],concern:[22,46,142],conclud:69,conclus:[4,52],conda:52,condit:[5,7,20,25,62,64,75,83,84,85,86,88,95,101,109,115,116,119,123,136,141,143,144,145],conduct:123,conf:[55,56],confer:24,config:96,config_fc:157,configur:[79,85,96,156],confirm:49,conflict:[6,28,59,63,68,104,108],conform:[22,28,33,100,123,154],confus:[3,54,59,108,128,133],conjunct:[24,40,67,94,112],conlict:63,connect:[32,55,60,67,126,135],consequenti:[62,83],conserv:[4,5,6,17,95,101,103,124,134,159,162],consid:[6,40,49,59,67,86,108,139,146,156],consider:[49,85],consist:[6,18,25,32,34,48,52,56,60,96,107,121,133,135,144,154,159],consol:[13,95,144],consolid:119,constant:[30,32,34,49,60,65,69,96,99,133,134,135,137,144,156,159],constant_storm_modul:119,constrain:112,constraint:[40,45,135,142,162],construc:60,construct:[22,30,32,54,69,85,91,106,150,151,154],construct_function_handl:106,constructor:103,consult:104,contact:[12,90,93,102],contain:[1,3,5,12,13,20,23,25,26,30,32,33,34,35,36,37,38,41,43,44,45,46,48,50,51,52,53,54,55,56,60,61,63,64,67,68,70,74,75,79,81,82,85,86,88,89,91,93,94,96,98,99,100,101,103,105,106,107,108,112,113,115,116,123,124,131,133,135,140,141,144,146,150,154,156,157,159],containing_rect:30,contains:29,containt:132,contamin:141,contan:52,content:[4,6,23,35,52,56,75,86,93,144,154,159,160],context:[27,52,159],contigu:[74,94,103,135],contin:35,continent:[7,67],contingu:22,continu:[13,22,28,30,50,55,83,107,133,141,162],contour:[3,30,45,52,54,68,107,140,156],contour_color:3,contour_kwarg:[3,156],contour_level:[3,156],contour_max:3,contour_min:3,contour_nlevel:3,contour_show:3,contourf:[52,78],contract:[4,62,83],contrast:[54,135],contribut:[4,24,25,58,83,86,93,98,101,110,113],contributor:[4,24,62,93],control:[6,7,23,25,32,34,42,45,55,59,61,68,81,84,89,91,93,94,95,96,98,112,121,126,134,144],conveni:[1,27,32,34,36,37,40,45,52,81,88,90,93,95,97,105,159,162],convens:154,convent:[3,22,30,47,54,72,99,154],converg:[67,78],convers:[19,25,86,94,112,135,154,158],convert43to46:19,convert46to50:20,convert:[3,22,25,30,33,35,43,48,52,59,60,63,72,75,86,93,98,106,107,123,126,141,142,150,154,158],convert_fort_double_to_float:106,convert_readm:11,convert_to_standard_unit:30,convex:[7,32],coodin:30,coord:[48,52],coordin:[4,23,30,32,34,48,74,78,85,91,95,96,105,112,135,144,156],coordinate_specif:[30,72],coordinate_system:[15,61,138,144],coorind:156,copi:[6,14,15,16,36,37,45,52,55,56,59,68,85,88,98,103,109,110,111,112,116,120,123,127,137,138,142,146,148,149,154,159],copyq1:64,copyright:[62,83],core:[4,12,75,113,123],corioli:[49,144,148,149],coriolis_forc:[49,144],corner:[3,30,32,54,72,74,91,135,141,143,145,154,156],correct:[20,28,42,55,56,64,65,68,79,85,91,96,100,106,115,116,120,137,141,143,144,145],correctli:[28,32,86,92,119],correspond:[3,6,12,23,25,27,30,34,35,45,48,49,54,55,56,60,68,72,79,85,89,91,94,95,98,100,103,112,113,133,135,136,141,142,143,144,145,150,154,158,159],correspondingli:32,cos:[40,48,50,67,85,98],coseism:144,cosin:85,cost:[13,101],costli:134,could:[5,12,13,27,32,35,36,37,40,45,54,61,67,69,72,73,79,81,85,91,95,103,104,108,119,128,135,137,142,143,144,145,156,159],council:4,count:85,count_from_zero:85,counter:[106,156],counterclockwis:72,coupl:[121,162],courant:[4,6,112,122,141,142,143,145],cours:[13,26,32,45,47,61,72,96,97,105,107,110,144,154],cover:[6,7,27,28,30,32,34,35,39,40,52,60,67,72,112,116,121,137,143,154],coverag:[93,113],covert:11,covid:24,cparam:[85,103],cpp:53,cpu:[13,53,120,123,125,153],crash:[120,141,142],creat:[0,1,2,3,5,6,7,18,19,24,25,28,30,32,33,34,35,36,37,39,41,43,45,46,47,51,53,55,59,60,63,72,74,78,79,81,86,87,90,91,93,94,97,100,103,104,105,106,112,113,115,119,120,121,123,124,125,128,135,140,141,142,143,146,147,150,156,158,159,160],create_dtopo_xi:[30,72],create_dtopographi:[30,72],create_topo_func:156,creation:[40,79,93,115],criteria:[6,7,22,25,32,67,103],criterion:[32,112,143],critic:[52,95,133],crop:[54,156],cross:28,crucial:[52,154],csdm:24,cse:24,csh:96,csv:[30,72,123],csvfault:[30,72],ctrl:[29,79],cube:68,cultu:67,cumul:123,current:[3,5,13,14,20,22,24,27,28,29,30,32,35,39,40,42,45,46,49,54,55,56,58,59,60,61,68,70,74,79,81,91,94,95,96,101,103,106,108,112,113,120,122,123,132,136,140,141,142,143,144,145,150,151,154,156,158],current_data:[0,3,25,45,78,79],curv:[3,45,78,135],custom:[0,13,16,20,22,25,64,68,75,78,86,92,98,137],custom_bc:98,customari:95,cut:142,cutoff:[6,143],cvf:56,cvs:52,cxx:96,cyber:17,cygwin:88,cython:96,dai:[6,13,52,144],dalcin:83,dam:[52,137],dam_break:134,damag:[6,62,83],damiansra:98,dark:135,darker:52,darryl:17,dart:46,dash:[3,96],daspect:68,dat:[30,150],data:[0,1,3,5,25,27,30,32,33,34,35,36,37,39,40,41,43,45,46,47,48,54,55,60,61,62,63,67,68,78,79,80,81,83,85,88,91,94,95,97,99,100,101,103,106,109,110,111,112,115,117,118,120,121,123,124,125,126,128,133,135,136,142,143,145,150,153,155,160],data_break:[40,67,156],data_fil:[33,35],data_limit:[40,67],data_storm:150,data_typ:106,databas:[13,30,72,106,110,123,154],datadir:120,dataset:[154,156,158],datatyp:35,date:[5,28,41,48,52,55,56,63,79,150,157],date_tim:48,datetiem:150,datetim:[48,150],datum:[48,49,99,136,144,158],dave:30,davi:[4,17],david:[4,17,83,93,101],davis2018:[5,17],davisleveque2016:[5,17],davisleveque2018:[5,17],dawson:17,daylight:60,dcp:60,deal:[30,49,78,95,96,103,150,156],dealt:[32,40],debri:34,debug:[7,18,42,63,74,78,95,103,108,113,141,143],debugg:79,decemb:[18,130,131],decid:[85,101],decim:[48,60],decimc:150,decis:52,declar:[20,22,103,128,159],decompos:[74,133,162],decomposit:141,decor:106,decoupl:55,decreas:[45,137,154],deduc:154,deep:[5,67],deeper:[135,144,154],deepli:105,def:[0,1,3,45,52,67,79,85,91,95,98,101,143,145,150],default_tfluct:101,defenc:4,defens:4,defin:[0,1,3,5,6,7,22,27,30,32,34,35,39,40,42,52,60,61,63,67,68,72,79,81,85,88,91,97,98,100,101,103,105,106,112,115,123,128,133,143,145,150,154,156,157,159,162],definit:[30,68,85,112,118],deform:[17,30,33,35,46,72,158],deg2dm:60,degener:135,degrad:34,degre:[30,48,52,60,69,72],delet:[20,28,59],delimit:30,delin:144,delta:[69,89,91,98,101,133,156,159,162],delta_h:99,delta_hu:99,delta_i:156,delta_limit:156,delta_x:156,dem:[32,46,54,60,123,154,156,158],demo:96,demonstr:[12,25,90,96],denot:[6,22,35,45,54,133,156],dens:151,densiti:[88,95,99,103,105,142,143,159],depart:[4,150],depdend:89,depend:[3,13,16,28,29,30,32,35,36,37,41,42,47,49,52,63,65,68,72,79,84,94,99,100,101,106,108,112,123,137,142,144,156,157,159,162],deprec:[7,18,30,46,55,59,119,123,154,156],depress:32,depth:[4,5,16,17,22,30,32,33,35,40,45,46,49,65,69,72,78,80,134,136,137,144,154],deriv:[62,72,83,88,92,93,103,113],describ:[3,4,5,6,7,13,14,16,18,19,26,28,30,31,32,34,36,37,39,40,45,47,48,49,52,53,55,56,58,60,61,63,64,67,68,72,74,75,78,79,80,91,93,94,100,106,110,112,113,121,124,125,133,135,136,140,141,142,144,150,151,154,156,158,159,162],descript:[3,4,6,9,22,23,25,30,35,60,68,72,75,78,93,94,106,110,112,133,134,144,150,154,162],design:[4,27,28,52,83,85,105,135,158],desir:[0,1,2,3,6,7,16,22,25,26,30,32,33,34,35,40,43,45,56,59,60,61,67,69,72,77,78,79,81,85,86,88,95,100,101,109,121,123,126,137,139,141,142,143,144,145,150,154,156,157],desktop:96,destin:52,detail:[4,5,10,16,18,22,23,25,26,28,29,30,32,34,36,37,39,42,45,47,49,52,55,58,59,61,62,63,67,68,72,75,79,83,88,89,90,91,93,94,95,96,97,98,99,101,111,112,113,116,121,123,128,133,135,140,141,144,146,150,154,157,158,159,162],detect:[52,63,94,102,106,157],deterimin:[144,156],determin:[3,5,6,30,32,35,40,45,46,49,51,52,55,60,69,72,79,89,91,94,99,103,108,112,116,120,121,132,135,136,140,141,142,144,156,159],determine_topo_typ:156,dev:[18,24,28,55,56,96,123,124,129,130,131],develop:[4,6,7,12,13,18,22,23,49,53,55,58,59,62,67,68,78,82,83,86,93,98,101,102,108,110,113,123,124,126,128,133,136,137,143],dict:[30,35,88,94,99,100,103,150,156],dictionari:[0,1,2,3,30,35,45,61,79,85,88,94,99,100,103,105,108,150,154,156],dicuss:30,did:[123,128,135,154],didn:118,died:115,diff:[18,51,56,115,116,117,118,119,120,121,122,123,124,125,126,127,128,129,130],differ:[1,3,6,7,12,15,16,22,28,30,31,34,35,36,37,40,45,47,49,51,54,58,60,63,65,67,68,72,73,78,81,85,86,88,90,91,93,94,99,101,106,107,108,109,112,113,119,120,121,122,123,126,128,129,133,136,137,138,139,141,142,143,144,148,149,154,156,157,158,159,162],differenti:[17,30],difficult:45,difficulti:[102,104,108],diffus:98,digit:[32,34,40,54,60,61,79,121,122,123,156],dike:[40,67,126,144],dim:[98,99,101],dimens:[5,6,7,16,20,22,25,45,48,54,60,68,69,85,86,88,94,96,98,99,100,103,105,112,123,126,133,141,142,143,145,156,159],dimension:[3,7,8,17,22,25,30,32,34,36,37,45,49,53,68,91,98,119,120,122,125,143,144,145,156,159],dimensional_split:[91,119,141,143,145],dip:[30,72],dir:[56,96,160],direct:[6,8,16,22,30,32,34,36,37,45,48,52,56,60,62,63,68,72,73,79,83,88,98,105,112,122,133,141,142,144,156],directli:[8,18,19,23,32,46,49,58,68,72,79,81,85,86,89,93,103,106,108,123,156,160],directori:[1,3,5,6,11,12,13,14,15,16,19,20,22,23,25,28,29,31,32,34,35,36,37,38,41,43,44,45,46,48,51,52,55,56,58,60,64,68,70,73,77,78,81,88,90,91,93,94,95,98,105,108,109,110,112,113,115,120,121,122,123,125,132,133,137,138,139,140,141,142,146,148,149,152,153,154,157,159,160],directorti:110,disabl:[50,102,144],disable_petsc:106,discard:[32,101],disclaim:[62,83],discontinu:[4,101,162],discov:65,discoveri:113,discret:101,discrib:4,discuss:[5,24,28,30,49,54,67,72,94,105,107,108,112,121,123,133,144,162],disk:[13,45,85,94,95,113,121],dispers:49,displac:[30,34,46,49,72,137,144,158],displai:[1,13,36,37,41,45,52,60,79,95,113,144],display_format:[45,61],display_landfall_tim:144,dist:56,dist_latlong2met:48,dist_meters2latlong:48,distanc:[30,34,48,52,72,144,154,156],distant:[110,112],distinct:[45,121],distinguish:40,distribut:[4,12,13,29,30,55,62,72,75,83,101,107,126],disturb:52,distutil:86,divid:[112,141],divis:[4,52],dlgeorg:4,dms2decim:48,dnetcdf:[42,154],doc:[18,23,24,28,30,52,56,89,106,107,108,122,123,124,125,126,127,128,129,130,147],docker:[18,25,56,57,122,123,124,125,126,127,128,129,130,161],docker_disk:29,docker_imag:56,dockerfile_v5:29,dockerhub:[29,56],dockeril:29,docstr:[86,90,113],doctest:91,documen:55,document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,19,20,22,24,25,26,28,29,32,34,36,37,41,46,49,52,53,54,55,56,57,58,59,60,67,68,71,72,73,79,82,83,84,85,87,88,89,93,94,95,96,99,101,102,107,108,110,111,112,113,117,118,119,120,121,122,123,126,128,129,131,133,139,140,141,142,146,151,154,157,161],workflow:[110,146,150],workshop:[110,126],workspac:[24,68,103],world:[49,65,93,96,150],worst:136,worth:103,worthwhil:98,would:[2,3,12,13,16,24,27,28,32,34,39,42,52,54,56,59,61,63,64,67,69,72,74,79,83,85,88,91,95,106,113,121,135,136,137,140,141,144,150,154,159],wouldn:64,wpalg:17,wrap:[60,83,86,91,101,106,150],wrapper:156,write:[7,28,30,33,34,35,39,40,45,46,51,54,55,65,72,74,75,78,85,88,91,92,94,95,96,100,121,123,143,145,150,154,156],write_:94,write_arrai:94,write_atcf:150,write_aux:[94,100],write_aux_alwai:[85,88,95],write_aux_init:[85,88],write_aux_int:95,write_geoclaw:150,write_hurdat:150,write_imd:150,write_jma:150,write_netcdf:35,write_p:[94,100],write_tcvit:150,write_to_fgmax_data:33,write_to_fgout_data:35,written:[6,11,25,30,32,34,35,41,45,59,60,61,62,72,74,75,79,83,92,93,94,98,121,133,141,142,143,144,145,150,156,159],wrong:[59,64,68,95,108],www:[4,13,17,30,40,46,55,62,67,70,83,86,91,94,96,122,124,150,156],x1_desir:33,x1_domain:33,x1_new:33,x2_desir:33,x2_new:33,x_1:[5,135],x_2:[5,135],x_c:135,x_cell:60,x_center:135,x_edg:[60,135],x_i:[133,159,162],x_inch:60,x_mask:156,xarr:91,xarrai:156,xarray_d:156,xclaw:[36,37,88],xclawcmd:88,xclawerr:88,xclawout:88,xcode:82,xdir:88,xiaom:30,xinsheng:[4,53],xinshengqin:[4,53],xleft:[142,143],xlf:102,xlimit:[0,45,52,126],xllcenter:[54,123,154],xllcorner:[54,154],xllower:123,xlow:74,xlower:[0,3,16,22,27,40,86,123,143,145,154,156,159],xlowerg:86,xmax:[0,35],xmin:[0,35],xrang:98,xtick:[40,50],xupper:[0,22,143,145,156],xxdiff:113,xxx:154,xxxx:68,xy_fil:32,xy_fnam:33,xylim:30,xzf:58,y_c:135,y_cell:60,y_center:135,y_edg:[60,135],y_inch:60,year:[4,17,22,52,60,93,114,124,150],yellow:[60,79,150],yellow_red_blu:79,yes:68,yet:[1,13,18,20,25,49,53,55,58,60,78,101,121,122,123,124,125,126,127,128,129,130,131,133,141,143,161],yianni:[4,17,83],yield:3,yleft:[142,143],ylimit:[0,45,52,126,140],yllcenter:[54,123,154],yllcorner:[54,154],yllower:123,ylow:74,ylower:[3,22,27,40,86,123,143,154,156],ylowerg:86,ymax:[0,35],ymin:[0,35],yml:113,yong:17,you:[0,3,4,5,12,13,14,15,16,18,19,20,22,23,24,25,26,27,28,29,32,34,35,36,37,38,39,41,42,43,45,48,51,52,53,54,55,56,57,58,59,60,63,64,67,68,70,71,72,73,74,75,77,78,79,81,82,83,85,86,87,88,90,93,94,95,96,97,98,99,101,102,103,104,105,107,108,109,110,111,113,115,120,121,122,123,126,128,131,132,133,134,135,136,137,138,139,140,142,143,144,145,146,147,148,149,150,152,154,157,158,159,161],your:[4,6,15,16,19,20,24,25,26,34,36,38,42,45,54,55,56,57,58,59,70,73,78,79,81,83,84,85,86,87,90,92,93,95,104,105,107,108,109,110,112,113,115,123,133,138,139,148,149,154,157,159],yourself:[42,45,58],youtub:[24,110,126],yupper:[22,143,156],z_allow_wet:40,z_dry:40,z_format:[40,67,156],zdry:[40,67],zenodo:[4,58,126,127,128,129,130,131],zero:[3,16,30,32,40,42,45,60,68,69,85,98,99,103,105,128,135,136],zip:[12,52,56],zipinfo:52,zlib:94,zlim:60,zlower:22,zmask:67,zmax:[40,67],zmin:[40,67],znearshor:67,zone:[49,52,60,142,143],zoom:[24,52],zsh:96,zshallow:67,ztopo:67,zupper:22,zvar:156},titles:["ClawPlotAxes","ClawPlotData","ClawPlotFigure","ClawPlotItem","About this software","Guiding AMR with adjoint flagging","Adaptive mesh refinement (AMR) algorithms","AMRClaw Description and Detailed Contents","AMRClaw for 1d problems","Doxygen documentation of AMRClaw","AMRClaw Flowcharts","Application documentation","Clawpack Applications repository","Amazon Web Services EC2 Clawpack AMI","b4run function","b4step default routines","Boundary conditions","Bibliography","Changes to master since v5.8.2","Converting from Clawpack 4.3 to 4.6","Converting from Clawpack 4.6 to 5.0","Clawpack 4.x links","Changes in Clawpack 5.0","Clawpack components","Clawpack Community","Full Table of Contents","Contributing examples and applications","current_data","Developers\u2019 Guide","Docker for Clawpack","dtopotools module for moving topography","Fortran 77 vs. Fortran 90 files","Fixed grid monitoring","fgmax_tools module for working with fgmax grids","Fixed grid output","fgout_tools module for working with fgout grids","Running an example","Testing your Fortran installation and running an example","Testing a PyClaw installation and running an example","Specifying flagregions for adaptive refinement","Force Cells to be Dry Initially","Fortran version","Fortran Compilers","Examples from the book FVMHP","Clawpack Gallery","Gauges","GeoClaw Description and Detailed Contents","Getting started with GeoClaw","geoclaw.util module of utility functions","Cautionary Hints on using GeoClaw","GeoClaw plotting tools","Keeping track of repository versions with Git","Visualizing GeoClaw results in Google Earth","Using the GPU version of Clawpack","Grid registration","Guide for updating this documentation","Guide for doing a Clawpack release","Installing Clawpack","Options for installing Clawpack Fortran codes","pip install instructions","kmltools module of utility functions","Lagrangian gauges for particle tracking","License","Clawpack Makefiles","Library routines in Makefiles","Manning friction term","The mapc2p function","Marching Front algorithm","Plotting using Matlab","Nearshore interpolation","Using NetCDF output","Creating a new application directory","Earthquake sources: Fault slip and the Okada model","Using OpenMP","Output data formats","Which Clawpack solver should I use?","Clawpack Community Photos","Plotting examples","Plotting with Visclaw","Plotting hints and FAQ","Plotting routines for GeoClaw","Plotting options in Python","Installation Prerequisites","About PyClaw","PyClaw Basics","Understanding Pyclaw Classes","Porting a problem from Clawpack 4.6.x to PyClaw","Running PyClaw in the cloud","Pyclaw Controller Class","Pyclaw Limiters","Working with PyClaw\u2019s built-in examples","PyClaw Geometry","Going Further","PyClaw","Pyclaw Input/Output Package","PyClaw output","Running in parallel","Plotting PyClaw results","Setting up your own problem","Riemann Solver Package","PyClaw Solutions","Using PyClaw\u2019s solvers: Classic and SharpClaw","Installing PyClaw","PyClaw State","Troubleshooting","PyClaw 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html:[11,81],imag:[29,52],imagediff:113,implement:112,includ:[12,55],independ:89,indic:[67,93],init:137,initi:[6,40,67,98,105,137,144,159],input:[22,32,34,94,141,142],instal:[28,37,38,57,58,59,70,75,82,93,96,102,104,108,152,157],instanc:13,instanti:135,instruct:[28,59],integr:113,intel:42,interact:[81,90],interfac:75,intern:40,interpol:[32,34,69],interpret:38,iplotclaw:81,ipython:[38,90],issu:28,item:79,jupyt:[12,29,38,146],kaust:76,keep:51,kinemat:72,kml:52,kmltool:60,kmz:52,lagrangian:61,latest:28,latex:81,latitud:[50,52],launch:13,layer:134,level:[28,137,144],lflag:42,librari:[52,64],licens:[4,62,83],limit:89,line:[38,81,90,113,157],link:21,load:52,local:147,locat:45,log:[13,95],longitud:[50,52],machin:[29,161],make:[79,96,146,157],make_kml:135,makefil:[41,63,64,98,132],man:65,map:52,mapc2p:66,march:67,mask:67,mask_outsid:135,master:[18,28],math:87,matlab:68,matplotlib:102,maxfram:68,maximum:144,mesh:[6,25],method:[0,1,2,3,135,162],mhw:67,migrat:25,miss:134,model:[49,72,110,111,158],modif:40,modifi:[28,64,132],modul:[30,33,35,48,60,93,106,143,145,156],monitor:[32,144],more:[6,37,41],most:28,move:[29,30],multipl:52,name:[63,64],nearshor:69,need:52,netcdf:[54,70,74,94,154],never:28,next:[57,58,59,102],nose:102,note:[114,115,116,117,118,119,120,121,122,123,124,125,126,127,128,129,130,131],notebook:[12,29,38,107,146],number:56,numpi:102,object:[91,140],obtain:102,okada:72,old:8,older:25,onli:67,open:56,openmp:73,oper:82,option:[52,58,81,96,98],order:104,osf:56,other:[17,18,23,24,29,32,55,79,122,123,124,125,126,127,128,129,130,131,135,137],out:[28,67],outdir:79,output:[32,34,63,67,68,70,73,74,85,94,95,113,132,141,142,144,157],overlai:52,overview:[25,140],own:[13,29,98],packag:[22,59,94,99],page:55,paper:17,parallel:[75,91,96,97,103],paramet:[22,45,79,81,105,141,142,144],particl:61,pass:96,patch:91,path:[68,108],pcolor:79,petclaw:[91,103],petsc:96,photo:76,pip:[59,82,157],pixel:113,plot:[3,13,22,25,32,34,45,47,50,52,61,63,68,70,77,78,79,80,81,90,96,97,113,140,146,157,160],plot_typ:3,plotax:52,plotclaw:68,plotdata:52,plotfigur:52,plotitem:52,point:[32,67],pointwis:133,polygon:135,port:86,post:78,potenti:134,ppflag:42,pre:42,prepar:56,prerequisit:82,previou:[24,55],previous_pts_chosen:67,print:142,printfram:81,problem:[8,86,98,105,159],procedur:[32,34],process:[32,78],processor:42,produc:[34,81],propag:162,provid:79,pth:108,publish:52,pull:28,pyclaw:[18,22,25,36,38,59,83,84,85,86,87,88,89,90,91,93,94,95,97,100,101,102,103,105,106,113,114,115,116,117,118,119,120,121,122,123,124,125,126,127,128,129,130,152],pyflak:28,pylint:28,pypi:56,python:[20,81,82,102,107,108,126,155],pythonpath:[108,139],q0002:74,qinit:[109,144,154],quantiti:[85,95],quick:[59,110,111],raw:74,read:[34,40,135],readm:11,recent:[24,28],rectangl:[39,135],rectangular:72,refer:[17,25,53,93,107],refin:[6,16,25,39,112,144],region:[67,112,135,144],registr:[34,54],regress:113,relat:135,releas:[55,56,114,115,116,117,118,119,120,121,122,123,124,125,126,127,128,129,130,131],remot:28,remov:52,replac:64,report:28,repositori:[12,18,23,28,51,55,56,122,123,124,125,126,127,128,129,130,133],request:28,requir:[52,159],resolut:[52,162],resourc:25,restart:[29,85,132],result:[13,47,52,70,97,146],richardson:112,riemann:[18,25,93,98,99,114,115,116,117,118,119,120,121,122,123,124,125,126,127,128,129,130,133,134,159],roe:134,routin:[15,22,64,80,109,138,148,149],rst:11,rule:[39,135],run:[29,36,37,38,47,85,87,90,96,97,113,141,142,157],ruptur:72,sage:87,same:64,sampl:[40,67,143,145],save:[95,146],scienc:56,script:98,sea:[137,144],sea_level:136,search:68,seismic:137,select:135,serial:[91,103,113],servic:13,session:24,set:[47,68,79,81,98,136,137,139,157],setaux:[138,159],setplot:[34,68,79,81,140],setrun:[22,45,141,142,143,144,145],shallow:[99,134],share:146,sharpclaw:101,shelf:135,shoot:[28,68],shore:67,should:75,signatur:101,simpl:[32,34,135],simul:85,simultan:113,sinc:18,size:79,slip:72,slu:135,softwar:[4,17],solut:[79,85,100],solv:105,solver:[75,85,93,98,99,101,105,133,134,159],some:[29,79,144,158],someth:79,sourc:[63,72,98,151,158,159,162],space:162,spatial:[137,159],special:[3,142],specif:[32,34,105,113,144,150,159],specifi:[39,61,79,81,112,140,141,142,144,159],sphere:16,sphinx:[55,147],sprint:[24,76],src1d:[148,159],src:[149,159],start:[25,29,47,110,111],state:103,statist:153,step:[57,58,59,102,159],stop:[13,29],storm:[110,144,150,151],stream:24,style:[32,55],subfault:72,submodul:12,support:[107,126],surfac:[50,137],surg:[110,151],sys:108,system:82,t0002:74,tabl:[25,93],tag:55,tar:[56,58],term:[65,98,159,162],test:[28,37,38,96,102,113,152],than:79,thi:[4,55],tide:158,tile:52,time:[141,142,144,153,159],tip:[28,41,50,52,96],titl:79,tool:[20,25,45,50,61,113,150,155],top:28,topo:155,topofil:67,topographi:[30,40,47,52,67,144,154,156,158],topotool:156,track:[51,61],transfer:13,travi:113,triangular:72,troubl:[28,68,157],troubleshoot:[59,104,157],tsunami:[49,52,111,158],tutori:[24,105,107],tvd:89,two:134,understand:85,univers:76,upcom:24,updat:[28,55,56],usag:40,use:[75,137],used:157,useful:[29,134],user:[16,24,29,75,159],using:[49,61,68,159],utah:76,util:[48,60,106],valu:[32,85],vari:[137,159],variabl:[42,63,98,139],version:[25,29,41,51,53,55,56,59,108],view:13,virtual:161,visclaw:[18,25,61,78,114,115,116,117,118,119,120,121,122,123,124,125,126,127,128,129,130],visit:160,visual:[25,52],washington:76,water:[50,99,134],wave:[133,162],web:13,webpag:[13,55,146],what:[79,81,95,134],when:95,where:95,which:[75,108],whichclaw:108,work:[4,33,35,90,155,156,159],workflow:28,workshop:[24,76],write:[67,98,113,135],written:95,your:[13,28,29,37,52,96,98,102,146,152],zenodo:56,zone:67}}) \ No newline at end of file diff --git a/dev/storm_module.html b/dev/storm_module.html index e2d9ee5a0..eb224793c 100644 --- a/dev/storm_module.html +++ b/dev/storm_module.html @@ -586,7 +586,7 @@

    Navigation

    -

    System Message: WARNING/2 (/Users/rjl/git/clawpack/clawpack/geoclaw/surge/storm.py:docstring of clawpack.geoclaw.surge.storm.fill_rad_w_other_source, line 15)

    +

    System Message: WARNING/2 (/Users/rjl/clawpack_src/clawpack_master/clawpack/geoclaw/surge/storm.py:docstring of clawpack.geoclaw.surge.storm.fill_rad_w_other_source, line 15)

    Field list ends without a blank line; unexpected unindent.

      @@ -617,7 +617,7 @@

      Navigation

      -

      System Message: WARNING/2 (/Users/rjl/git/clawpack/clawpack/geoclaw/surge/storm.py:docstring of clawpack.geoclaw.surge.storm.fill_rad_w_other_source, line 26)

      +

      System Message: WARNING/2 (/Users/rjl/clawpack_src/clawpack_master/clawpack/geoclaw/surge/storm.py:docstring of clawpack.geoclaw.surge.storm.fill_rad_w_other_source, line 26)

      Field list ends without a blank line; unexpected unindent.

      - +
      • clawpack.pyclaw.fileio.netcdf (module)
      • clawpack.pyclaw.limiters.tvd (module)
      • clawpack.pyclaw.util (module) +
        • +
      • clawpack.riemann.acoustics_1D_py (module) +
        • +
      • clawpack.riemann.advection_1D_py (module) +
        • +
      • clawpack.riemann.burgers_1D_py (module) +
        • +
      • clawpack.riemann.euler_1D_py (module) +
        • +
      • clawpack.riemann.shallow_1D_py (module)
      • ClawPlotAxes (built-in class)
        • @@ -336,6 +352,16 @@

        D

        E

        + @@ -365,6 +391,8 @@

        F

        + - + + + + + + + + + + + + + + +
      • setup_gauge_files() (clawpack.pyclaw.geometry.Grid method) +
        • +
      • shallow_exact_1D() (in module clawpack.riemann.shallow_1D_py) +
        • +
      • shallow_fwave_1d() (in module clawpack.riemann.shallow_1D_py) +
        • +
      • shallow_hll_1D() (in module clawpack.riemann.shallow_1D_py) +
        • +
      • shallow_roe_1D() (in module clawpack.riemann.shallow_1D_py)
      • SharpClawSolver (class in clawpack.pyclaw.sharpclaw.solver)
        • @@ -922,12 +958,12 @@

        S

      • slip (clawpack.geoclaw.dtopotools.SubFault attribute)
        • +         		-
      • Setting sealevel
        • +
      • Setting sea_level
      • Set Eta Init – spatially varying initial surface elevation
        • Default behavior, adjusting sea level by seismic deformation
        • Other use cases
          • diff --git a/geoclaw_util_module.html b/geoclaw_util_module.html index 4b243f66b..0d88cf20d 100644 --- a/geoclaw_util_module.html +++ b/geoclaw_util_module.html @@ -112,7 +112,7 @@

          Navigation

          Note: If using this to initialize a radially-symmetric 2d velocity on the sphere based on a radial velocity U(r), symmetric about (x0, y0), set:

          -

          System Message: ERROR/3 (/Users/rjl/git/clawpack/clawpack/geoclaw/util.py:docstring of clawpack.geoclaw.util.bearing, line 9)

          +

          System Message: ERROR/3 (/Users/rjl/clawpack_src/clawpack_master/clawpack/geoclaw/util.py:docstring of clawpack.geoclaw.util.bearing, line 9)

          Unexpected indentation.

          diff --git a/kmltools_module.html b/kmltools_module.html index 7218f6351..084a9f866 100644 --- a/kmltools_module.html +++ b/kmltools_module.html @@ -110,6 +110,7 @@

          Navigation

        • topo2kml - create a kml outline for each topo grid specified in setrun

        • dtopo2kml - create a kml outline for each dtopo grid specified in setrun

        • fgmax2kml - create a kml outline for each fgmax grid specified in setrun

          • +

        • fgout2kml - create a kml outline for each fgout grid specified in setrun

        • make_input_data_kmls - make kml files for many things specified in setrun

        • pcolorcells_for_kml - version of pcolormesh with appropriate dpi and size

        • png2kml - create kml file wrapping a png figure to be viewed on GE

          • @@ -189,6 +190,28 @@

          Navigation

          +
          +
          +clawpack.geoclaw.kmltools.fgout2kml(rundata=None, fname='fgout_grids.kml', verbose=True, combined=False)
          +

          Create a KML box for each fgout grid specified for a GeoClaw run.

          +
          +
          Inputs
          +
            +

          • rundata - an object of class ClawRunData or None

            +

            If rundata==None, try to create based on executing function setrun +from the setrun.py file in the current directory.

            +
            • +

          • fname (str) - resulting kml file.

            • +

          • verbose (bool) - If True, print out info about each region found

            • +

          • combined (bool) - If True, combine into single kml file with +name given by fname. NOT YET IMPLEMENTED. +If False, fname is ignored and individual files are created for +each fgout grid.

            • +
          +
          +
          +
          +
          clawpack.geoclaw.kmltools.gauges2kml(rundata=None, fname='gauges.kml', verbose=True)
          @@ -336,7 +359,7 @@

          Navigation

          Internally the value dpi (dots per inch) for the png file is determined so that it is at least 16 and so that:

          -

          System Message: ERROR/3 (/Users/rjl/git/clawpack/clawpack/geoclaw/kmltools.py:docstring of clawpack.geoclaw.kmltools.pcolorcells_for_kml, line 36)

          +

          System Message: ERROR/3 (/Users/rjl/clawpack_src/clawpack_master/clawpack/geoclaw/kmltools.py:docstring of clawpack.geoclaw.kmltools.pcolorcells_for_kml, line 36)

          Unexpected indentation.

          @@ -344,7 +367,7 @@

          Navigation

          dpi * y_inches = dcp * y_cells

          -

          System Message: WARNING/2 (/Users/rjl/git/clawpack/clawpack/geoclaw/kmltools.py:docstring of clawpack.geoclaw.kmltools.pcolorcells_for_kml, line 38)

          +

          System Message: WARNING/2 (/Users/rjl/clawpack_src/clawpack_master/clawpack/geoclaw/kmltools.py:docstring of clawpack.geoclaw.kmltools.pcolorcells_for_kml, line 38)

          Block quote ends without a blank line; unexpected unindent.

          where x_cells, y_cells are the number of cells in each direction.

          @@ -354,14 +377,14 @@

          Navigation

          annotate the figure befor saving it as a png file, which should then be done with:

          -

          System Message: ERROR/3 (/Users/rjl/git/clawpack/clawpack/geoclaw/kmltools.py:docstring of clawpack.geoclaw.kmltools.pcolorcells_for_kml, line 46)

          +

          System Message: ERROR/3 (/Users/rjl/clawpack_src/clawpack_master/clawpack/geoclaw/kmltools.py:docstring of clawpack.geoclaw.kmltools.pcolorcells_for_kml, line 46)

          Unexpected indentation.

          plt.savefig(png_filename, transparent=True, dpi=kml_dpi)

          -

          System Message: WARNING/2 (/Users/rjl/git/clawpack/clawpack/geoclaw/kmltools.py:docstring of clawpack.geoclaw.kmltools.pcolorcells_for_kml, line 47)

          +

          System Message: WARNING/2 (/Users/rjl/clawpack_src/clawpack_master/clawpack/geoclaw/kmltools.py:docstring of clawpack.geoclaw.kmltools.pcolorcells_for_kml, line 47)

          Block quote ends without a blank line; unexpected unindent.

          The png_extent is needed in construcing a kml file to display the @@ -497,7 +520,7 @@

          Navigation

          -

          System Message: WARNING/2 (/Users/rjl/git/clawpack/clawpack/geoclaw/kmltools.py:docstring of clawpack.geoclaw.kmltools.topo2kmz, line 18)

          +

          System Message: WARNING/2 (/Users/rjl/clawpack_src/clawpack_master/clawpack/geoclaw/kmltools.py:docstring of clawpack.geoclaw.kmltools.topo2kmz, line 18)

          Field list ends without a blank line; unexpected unindent.

          If force_dry is an array of the same shape as topo.Z then another png diff --git a/objects.inv b/objects.inv index 866206076..8e9c58d73 100644 Binary files a/objects.inv and b/objects.inv differ diff --git a/okada.html b/okada.html index dd8363f25..7c0366d6f 100644 --- a/okada.html +++ b/okada.html @@ -20,7 +20,7 @@ - +

        diff --git a/py-modindex.html b/py-modindex.html index e604ae3d0..c1597a206 100644 --- a/py-modindex.html +++ b/py-modindex.html @@ -143,6 +143,31 @@

        Python Module Index

        		•     clawpack.pyclaw.util
            + clawpack.riemann.acoustics_1D_py +
            + clawpack.riemann.advection_1D_py +
            + clawpack.riemann.burgers_1D_py +
            + clawpack.riemann.euler_1D_py +
            + clawpack.riemann.shallow_1D_py +
        diff --git a/pyclaw/rp.html b/pyclaw/rp.html index 07fe388ba..e6a91c4bd 100644 --- a/pyclaw/rp.html +++ b/pyclaw/rp.html @@ -163,18 +163,328 @@

        Navigation

        Acoustics

        +

        Riemann solvers for constant coefficient acoustics.

        +
        +\[q_t + A q_x = 0\]
        +

        where

        +
        +\[\begin{split}q(x,t) = \left [ \begin{array}{c} p(x,t) \\ u(x,t) \end{array} \right ]\end{split}\]
        +

        and the coefficient matrix is

        +
        +\[\begin{split}A = \left [\begin{matrix} +0 & K\\ +1/\rho & 0 +\end{matrix} \right ]\end{split}\]
        +

        The parameters \(\rho =\) density and \(K =\) bulk modulus are used +to calculate the impedence \(= Z\) and speed of sound = c.

        +
        +
        Authors
        +

        Kyle T. Mandli (2009-02-03): Initial version

        +
        +
        +
        +
        +clawpack.riemann.acoustics_1D_py.acoustics_1D(q_l, q_r, aux_l, aux_r, problem_data)
        +

        Basic 1d acoustics riemann solver, with interleaved arrays

        +
        +
        problem_data is expected to contain -
          +

        • zz - (float) Impedence

          • +

        • cc - (float) Speed of sound

          • +
        +
        +
        +

        See Riemann Solver Package for more details.

        +
        +
        Version
        +

        1.0 (2009-02-03)

        +
        +
        +
        +

        Advection

        +

        Simple advection Riemann solvers

        +

        Basic advection Riemann solvers of the form (1d)

        +
        +\[q_t + A q_x = 0.\]
        +
        +
        Authors
        +

        Kyle T. Mandli (2008-2-20): Initial version

        +
        +
        +
        +
        +clawpack.riemann.advection_1D_py.advection_1D(q_l, q_r, aux_l, aux_r, problem_data)
        +

        Basic 1d advection riemann solver

        +
        +
        problem_data should contain -
          +

        • u - (float) Determines advection speed

          • +
        +
        +
        +

        See Riemann Solver Package for more details.

        +
        +
        Version
        +

        1.0 (2008-2-20)

        +
        +
        +
        +

        Burgers Equation

        +

        Riemann solvers for Burgers equation

        +
        +\[u_t + \left ( \frac{1}{2} u^2 \right)_x = 0\]
        +
        +
        Authors
        +

        Kyle T. Mandli (2009-2-4): Initial version

        +
        +
        +
        +
        +clawpack.riemann.burgers_1D_py.burgers_1D(q_l, q_r, aux_l, aux_r, problem_data)
        +

        Riemann solver for Burgers equation in 1d

        +
        +
        problem_data should contain -
          +

        • efix - (bool) Whether a entropy fix should be used, if not present, +false is assumed

          • +
        +
        +
        +

        See Riemann Solver Package for more details.

        +
        +
        Version
        +

        1.0 (2009-2-4)

        +
        +
        +
        +

        Euler Equations

        +

        Riemann solvers for the Euler equations

        +

        This module contains Riemann solvers for the Euler equations which have the +form (in 1d):

        +
        +\[q_t + f(q)_x = 0\]
        +

        where

        +
        +\[\begin{split}q(x,t) = \left [ \begin{array}{c} \rho \\ \rho u \\ E \end{array} \right ],\end{split}\]
        +

        the flux function is

        +
        +\[\begin{split}f(q) = \left [ \begin{array}{c} \rho u \\ \rho u^2 + p \\ u(E+p) \end{array}\right ].\end{split}\]
        +

        and \(\rho\) is the density, \(u\) the velocity, \(E\) is the +energy and \(p\) is the pressure.

        +

        Unless otherwise noted, the ideal gas equation of state is used:

        +
        +\[E = (\gamma - 1) \left (E - \frac{1}{2}\rho u^2 \right)\]
        +
        +
        +clawpack.riemann.euler_1D_py.euler_exact_1D(q_l, q_r, aux_l, aux_r, problem_data)
        +

        Exact euler Riemann solver

        +
        +

        Warning

        +

        This solver has not been implemented.

        +
        +
        + +
        +
        +clawpack.riemann.euler_1D_py.euler_hll_1D(q_l, q_r, aux_l, aux_r, problem_data)
        +

        HLL euler solver

        +
        W_1 = Q_hat - Q_l    s_1 = min(u_l-c_l,u_l+c_l,lambda_roe_1,lambda_roe_2)
+W_2 = Q_r - Q_hat    s_2 = max(u_r-c_r,u_r+c_r,lambda_roe_1,lambda_roe_2)
+
+Q_hat = ( f(q_r) - f(q_l) - s_2 * q_r + s_1 * q_l ) / (s_1 - s_2)
+
        +
        +
        +
        problem_data should contain:
          +

        • gamma - (float) Ratio of the heat capacities

          • +

        • gamma1 - (float) \(1 - \gamma\)

          • +
        +
        +
        +
        +
        Version
        +

        1.0 (2014-03-04)

        +
        +
        +
        + +
        +
        +clawpack.riemann.euler_1D_py.euler_hllc_1D(q_l, q_r, aux_l, aux_r, problem_data)
        +

        HLLC Euler solver

        +
        W_1 = q_hat_l - q_l      s_1 = min(u_l-c_l,u_l+c_l,lambda_roe_1,lambda_roe_2)
+W_2 = q_hat_r - q_hat_l  s_2 = s_m
+W_3 = q_r - q_hat_r      s_3 = max(u_r-c_r,u_r+c_r,lambda_roe_1,lambda_roe_2)
+s_m = (p_r - p_l + rho_l*u_l*(s_l - u_l) - rho_r*u_r*(s_r - u_r))\
+  / (rho_l*(s_l-u_l) - rho_r*(s_r - u_r))
+
        +
        +

        left middle state:

        +
        q_hat_l[0,:] = rho_l*(s_l - u_l)/(s_l - s_m)
+q_hat_l[1,:] = rho_l*(s_l - u_l)/(s_l - s_m)*s_m
+q_hat_l[2,:] = rho_l*(s_l - u_l)/(s_l - s_m)\
+        *(E_l/rho_l + (s_m - u_l)*(s_m + p_l/(rho_l*(s_l - u_l))))
+
        +
        +

        right middle state:

        +
        q_hat_r[0,:] = rho_r*(s_r - u_r)/(s_r - s_m)
+q_hat_r[1,:] = rho_r*(s_r - u_r)/(s_r - s_m)*s_m
+q_hat_r[2,:] = rho_r*(s_r - u_r)/(s_r - s_m)\
+        *(E_r/rho_r + (s_m - u_r)*(s_m + p_r/(rho_r*(s_r - u_r))))
+
        +
        +

        problem_data should contain:

        +
        +
          +

        • gamma: (float) Ratio of specific heat capacities

          • +

        • gamma1: (float) \(\gamma - 1\)

          • +
        +
        +

        :Version 1.0 (2015-11-18)

        +
        + +
        +
        +clawpack.riemann.euler_1D_py.euler_roe_1D(q_l, q_r, aux_l, aux_r, problem_data)
        +

        Roe Euler solver in 1d

        +
        +
        aug_global should contain -
          +

        • gamma - (float) Ratio of the heat capacities

          • +

        • gamma1 - (float) \(1 - \gamma\)

          • +

        • efix - (bool) Whether to use an entropy fix or not

          • +
        +
        +
        +

        See Riemann Solver Package for more details.

        +
        +
        Version
        +

        1.0 (2009-6-26)

        +
        +
        +
        +

        Shallow Water Equations

        +

        Riemann solvers for the shallow water equations.

        +
        +
        The available solvers are:
          +

        • Roe - Use Roe averages to caluclate the solution to the Riemann problem

          • +

        • HLL - Use a HLL solver

          • +
        • +
          Exact - Use a newton iteration to calculate the exact solution to the

          Riemann problem

          +
          +
          +
          • +
        +
        +
        +
        +\[q_t + f(q)_x = 0\]
        +

        where

        +
        +\[\begin{split}q(x,t) = \left [ \begin{array}{c} h \\ h u \end{array} \right ],\end{split}\]
        +

        the flux function is

        +
        +\[\begin{split}f(q) = \left [ \begin{array}{c} h u \\ hu^2 + 1/2 g h^2 \end{array}\right ].\end{split}\]
        +

        and \(h\) is the water column height, \(u\) the velocity and \(g\) +is the gravitational acceleration.

        +
        +
        +clawpack.riemann.shallow_1D_py.shallow_exact_1D(q_l, q_r, aux_l, aux_r, problem_data)
        +

        Exact shallow water Riemann solver

        +
        +

        Warning

        +

        This solver has not been implemented.

        +
        +
        + +
        +
        +clawpack.riemann.shallow_1D_py.shallow_fwave_1d(q_l, q_r, aux_l, aux_r, problem_data)
        +

        Shallow water Riemann solver using fwaves

        +

        Also includes support for bathymetry but be wary if you think you might have +dry states as this has not been tested.

        +
        +
        problem_data should contain:
          +

        • grav - (float) Gravitational constant

          • +

        • dry_tolerance - (float) Set velocities to zero if h is below this +tolerance.

          • +

        • sea_level - (float) Datum from which the dry-state is calculated.

          • +
        +
        +
        +
        +
        Version
        +

        1.0 (2014-09-05)

        +
        +
        Version
        +

        2.0 (2017-03-07)

        +
        +
        +
        + +
        +
        +clawpack.riemann.shallow_1D_py.shallow_hll_1D(q_l, q_r, aux_l, aux_r, problem_data)
        +

        HLL shallow water solver

        +
        W_1 = Q_hat - Q_l    s_1 = min(u_l-c_l,u_l+c_l,lambda_roe_1,lambda_roe_2)
+W_2 = Q_r - Q_hat    s_2 = max(u_r-c_r,u_r+c_r,lambda_roe_1,lambda_roe_2)
+
+Q_hat = ( f(q_r) - f(q_l) - s_2 * q_r + s_1 * q_l ) / (s_1 - s_2)
+
        +
        +
        +
        problem_data should contain:
          +

        • g - (float) Gravitational constant

          • +
        +
        +
        +
        +
        Version
        +

        1.0 (2009-02-05)

        +
        +
        +
        + +
        +
        +clawpack.riemann.shallow_1D_py.shallow_roe_1D(q_l, q_r, aux_l, aux_r, problem_data)
        +

        Roe shallow water solver in 1d:

        +
        ubar = (sqrt(u_l) + sqrt(u_r)) / (sqrt(h_l) + sqrt(h_r))
+cbar = sqrt( 0.5 * g * (h_l + h_r))
+
+W_1 = |      1      |  s_1 = ubar - cbar
+      | ubar - cbar |
+
+W_2 = |      1      |  s_1 = ubar + cbar
+      | ubar + cbar |
+
+a1 = 0.5 * ( - delta_hu + (ubar + cbar) * delta_h ) / cbar
+a2 = 0.5 * (   delta_hu - (ubar - cbar) * delta_h ) / cbar
+
        +
        +
        +
        problem_data should contain:
          +

        • g - (float) Gravitational constant

          • +

        • efix - (bool) Boolean as to whether a entropy fix should be used, if +not present, false is assumed

          • +
        +
        +
        +
        +
        Version
        +

        1.0 (2009-02-05)

        +
        +
        +
        +
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93,95,101,103,107,109,110,111,113,119,120,121,122,126,130,140,144,148,149,152,156,160],USE:[61,81],Use:[30,51,91,99,121,132,139,141,143,152,154],Used:132,Useful:[1,3,132,139],Uses:[30,132,154],Using:[0,1,2,3,7,17,22,41,42,51,53,75,76,77,79,89,90,91,123,139,146,147,151,154,155,160],WCS:156,Will:98,With:[6,22,28,44,49,51,58,66,73,110,118,131,133,139],__________________o:154,__file__:106,__future__:119,__init__:[55,96,106],__main__:[141,143],__name__:[141,143],_build1:54,_build:54,_compute_c_cent:89,_compute_c_nod:89,_compute_p_cent:89,_compute_p_nod:89,_fillvalu:92,_googleearth:51,_outdir:93,_output2:[77,79],_output:[5,13,14,32,35,36,44,50,60,67,77,79,88,93,95,98,118,125,155],_output_from_previous_run:44,_output_new:111,_output_old:111,_plot:[13,35,36,44,67,79,138,144],_plotindex:[1,44],_plots_new:111,_plots_old:111,_ptwise:131,_pyclaw_io:86,_static:54,_storm_modul:149,_subpackag:106,_surge_modul:108,_templat:[54,55],_theme:54,a351:[17,91],a377:[17,91],aabbggrr:59,abdullah:[4,81],abil:[41,117,119,123,148,154],abl:[13,54,106],abort:62,about:[3,5,7,13,14,16,22,25,33,35,36,40,47,48,53,55,59,62,64,67,72,78,80,83,91,94,99,106,111,118,122,124,131,138,140,141,142,152,155,157,160],aboutu:30,abov:[3,5,13,14,16,20,28,32,35,36,38,39,40,41,44,48,51,53,54,55,58,61,63,66,70,72,77,80,81,84,93,95,100,103,104,110,119,121,126,131,133,135,137,138,139,141,143,148,151,152,154,157],abs:[30,52,96,104,110,133,154],absolut:[93,110,111,121,140,141],absolute_import:119,abspath:[5,38],abstol:104,academ:102,acceler:52,accept:[44,83,93,99,139],accept_reject_step:99,access:[0,17,27,29,55,58,88,89,91,99,101,104],accid:28,accident:[28,77],accompani:[18,21],accomplish:[29,39,62],accord:[6,53],accordingli:[51,152],account:[13,24,28,55,85,94],accumul:[44,119,130],accur:[5,48,70,91,99,126,139,157,160],accuraci:[44,64,73,141,143],achiev:[20,84,146,147],acou:77,acoust:[16,29,35,36,48,82,83,86,88,91,99,100,117,131,141,157],acoustics1dheterogeneoustest:[36,150],acoustics3dheterogeneoustest:[36,150],acoustics_1d:[83,103],acoustics_1d_adjoint:5,acoustics_1d_example1:[35,36,69],acoustics_1d_heterogen:[36,150,157],acoustics_1d_homogen:[88,111],acoustics_2d:99,acoustics_2d_adjoint:5,acoustics_2d_radi:[141,157],acoustics_3d_heterogen:[36,150],acoustics_3d_vari:111,acquaint:103,acquir:77,across:[5,110,119,152,154],acsza1:30,acszb1:30,act:[87,154],acta:17,actanum2011:17,action:[13,14,84],activ:[24,32,34,38,54,99,108,142],actual:[6,27,30,32,53,58,59,67,70,77,87,92,104,108,134,142],adapt:[4,7,17,30,39,52,53,66,67,73,83,110,121,124,126,131,133,138,139,140,142,157],add:[0,11,12,13,16,17,27,28,30,44,47,51,54,55,57,58,63,66,67,68,70,76,83,88,89,93,94,96,104,114,117,119,120,121,124,132,143,148,152,154,158],add_colorbar:[30,154],add_colormap:[39,66,118,124],add_dimens:89,add_gaug:[89,93],add_label:44,add_param:[141,143],add_parent_doc:104,add_titl:77,add_true_solut:77,added:[3,12,16,20,22,24,28,34,47,53,55,58,59,60,64,67,77,89,93,106,108,110,113,114,116,117,118,119,120,121,122,123,124,125,130,135,139,140,142,148,151,154,158],addgaug:44,adding:[22,27,28,29,32,41,44,54,59,70,94,107,118,120],addit:[5,7,13,16,23,24,28,29,32,36,37,38,45,46,59,66,70,72,73,77,78,84,87,89,91,93,99,100,101,108,110,117,119,120,121,122,125,126,128,131,133,139,143,148,151,152,157,158],addition:[94,148],address:[51,54,119],adequ:48,adjac:[6,16,32,45,110,135,139],adjoint:[7,17,25,52,110,121,122],adjoint_flag:110,adjoint_modul:122,adjoint_outdir:5,adjointdata:[5,122,123],adjointsup_modul:122,adjust:[5,13,20,32,33,45,59,89,93,134,139,157],adjust_fgmax_1d:33,admiralti:133,adopt:[30,99],adv:17,advanc:[6,17,52,66,71,103,118,139,140,157],advantag:[12,76,92,105,111,133],advect:[17,77,91,94,131,132,143,157],advection2dannulustest:[36,150],advection_1d_example1:63,advection_2d_annulu:[36,150],advection_2d_flagregion:38,advection_2d_inflow:117,advection_2d_swirl:157,advection_3d_swirl:[117,151],advertis:126,advis:[34,61,81],affect:[22,62,119,120,126,139,152,155],afosr:4,after:[0,1,3,5,6,12,13,19,23,27,28,29,32,33,35,36,39,44,48,54,55,57,59,60,62,63,66,67,68,72,77,84,85,86,88,93,99,101,106,110,111,113,117,118,132,135,139,140,141,143,148,157],afterax:[0,27,44,51,77],afterfram:[1,27,76],aftergrid:67,afteritem:[3,27],afterpatch:[3,27],again:[22,40,62,66,70,77,79,83,84,93,97,102,106,121,127,152,155],against:[104,111,118,150],agenc:[4,56,148,149],agency_pref:148,agre:[12,28,39,53,131,151,154,157],agreement:48,ahmadia:[4,17,81,91],aht:134,aid:84,aim:28,aks2203:4,albada:87,alg:141,alghamdi:[4,17,81,91],algorithm:[4,7,25,32,38,39,45,52,83,89,91,92,99,103,110,121,131,133,139,141,143,154],align:[32,39,51,59,66,124,126,142],all:[0,1,4,6,11,12,13,16,20,22,23,25,27,28,29,30,32,33,35,36,39,40,41,44,45,48,50,51,53,54,55,56,57,59,60,61,62,63,67,69,70,71,72,73,76,77,79,80,81,83,86,87,89,91,92,93,94,96,97,98,99,101,104,105,106,109,110,111,113,114,117,118,119,121,124,126,129,130,131,132,133,135,138,139,140,141,142,143,144,149,150,151,152,154,155,157],alloc:[20,99,117,126,140],allocat:117,allot:59,allow:[4,6,13,22,27,28,29,32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67,68,72,73,77,79,80,83,84,86,87,89,91,92,94,96,97,98,99,101,103,104,105,106,110,111,113,114,121,122,129,131,133,138,139,142,144,148,152,154,155,157],containing_rect:30,contains:29,containt:130,contamin:139,contan:51,content:[4,6,23,51,55,73,84,91,142,152,157,158],context:[27,51,157],contigu:[72,92,101,133],continent:[7,66],contingu:22,continu:[13,22,28,30,49,54,81,105,131,139,160],contour:[3,30,44,51,53,67,105,138,154],contour_color:3,contour_kwarg:[3,154],contour_level:[3,154],contour_max:3,contour_min:3,contour_nlevel:3,contour_show:3,contourf:[51,76],contract:[4,61,81],contrast:[53,133],contribut:[4,24,25,57,81,84,91,96,99,108,111],contributor:[4,24,61,91],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],conveni:[1,27,32,35,36,39,44,51,79,86,88,91,93,95,103,157,160],convens:152,convent:[3,22,30,46,53,70,97,152],converg:[66,76],convers:[19,25,84,92,110,133,152,156],convert43to46:19,convert46to50:20,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],convert_fort_double_to_float:104,convert_readm:11,convert_to_standard_unit:30,convex:[7,32],coodin:30,coord:[47,51],coordin:[4,23,30,32,47,72,76,83,89,93,94,103,110,133,142,154],coordinate_specif:[30,70],coordinate_system:[15,60,136,142],coorind:154,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],copyq1:63,copyright:[61,81],core:[4,12,73,111,121],corioli:[48,142,146,147],coriolis_forc:[48,142],corner:[3,30,32,53,70,72,89,133,139,141,143,152,154],correct:[20,28,41,54,55,63,64,67,77,83,89,94,98,104,113,114,118,135,139,141,142,143],correctli:[28,32,84,90,117,142],correspond:[3,6,12,23,25,27,30,44,47,48,53,54,55,59,67,70,77,83,87,89,92,93,96,98,101,110,111,131,133,134,139,140,141,142,143,148,152,156,157],correspondingli:32,cos:[39,47,49,66,83,96],cosin:83,cost:[13,99],costli:132,could:[5,12,13,27,32,35,36,39,44,53,60,66,70,71,77,79,83,89,93,101,102,106,117,126,133,135,140,141,142,143,154,157],council:4,count:83,count_from_zero:83,counter:[104,154],counterclockwis:70,coupl:[119,160],courant:[4,6,110,120,139,140,141,143],cours:[13,26,32,44,46,60,70,94,95,103,105,108,142,152],cover:[6,7,27,28,30,32,38,39,51,59,66,70,110,114,119,135,141,152],coverag:[91,111],covert:11,covid:24,cparam:[83,101],cpp:52,cpu:[13,52,118,121,123,151],crash:[118,139,140],creat:[0,1,2,3,5,6,7,19,24,25,28,30,32,33,35,36,38,40,42,44,45,46,50,52,54,58,59,62,70,72,76,77,79,84,85,88,89,91,92,95,98,101,102,103,104,110,111,113,117,118,119,121,122,123,126,133,138,139,140,141,144,145,148,154,156,157,158],create_dtopo_xi:[30,70],create_dtopographi:[30,70],create_topo_func:154,creation:[39,77,91,113],criteria:[6,7,22,25,32,66,101],criterion:[32,110,141],critic:[51,93,131],crop:[53,154],cross:28,crucial:[51,152],csdm:24,cse:24,csh:94,csv:[30,70,121],csvfault:[30,70],ctrl:[29,77],cube:67,cultu:66,cumul:121,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],current_data:[0,3,25,44,76,77],curv:[3,44,76,133],custom:[0,13,16,20,22,25,63,67,73,76,84,90,96,135],custom_bc:96,customari:93,cut:140,cutoff:[6,141],cvf:55,cvs:51,cxx:94,cyber:17,cygwin:86,cython:94,dai:[6,13,51,142],dalcin:81,dam:[51,135],dam_break:132,damag:[6,61,81],damiansra:96,dark:133,darker:51,darryl:17,dart:45,dash:[3,94],daspect:67,dat:[30,148],data:[0,1,3,5,25,27,30,32,35,36,38,39,40,42,44,45,46,47,53,54,59,60,61,62,66,67,76,77,78,79,81,83,86,89,92,93,95,97,98,99,101,104,107,108,109,110,113,115,116,118,119,121,122,123,124,126,131,133,134,140,141,143,148,151,153,158],data_break:[39,66,154],data_fil:33,data_limit:[39,66],data_storm:148,data_typ:104,databas:[13,30,70,104,108,121,152],datadir:118,dataset:[152,154,156],date:[5,28,40,47,51,54,55,62,77,148,155],date_tim:47,datetiem:148,datetim:[47,148],datum:[47,48,134,142,156],dave:30,davi:[4,17],david:[4,17,81,91,99],davis2018:[5,17],davisleveque2016:[5,17],davisleveque2018:[5,17],dawson:17,daylight:59,dcp:59,deal:[30,48,76,93,94,101,148,154],dealt:[32,39],debug:[7,41,62,72,76,93,101,106,111,139,141],debugg:77,decemb:[18,128,129],decid:[83,99],decim:[47,59],decimc:148,decis:51,declar:[20,22,101,126,157],decompos:[72,131,160],decomposit:139,decor:104,decoupl:54,decreas:[44,135,152],deduc:152,deep:[5,66],deeper:[133,142,152],deepli:103,def:[0,1,3,44,51,66,77,83,89,93,96,99,141,143,148],default_tfluct:99,defenc:4,defens:4,defin:[0,1,3,5,6,7,22,27,30,32,38,39,41,51,59,60,62,66,67,70,77,79,83,86,89,95,96,98,99,101,103,104,110,113,121,126,131,141,143,148,152,154,155,157,160],definit:[30,67,83,110,116],deform:[17,30,33,45,70,156],deg2dm:59,degener:133,degre:[30,47,51,59,70],delet:[20,28,58],delimit:30,delin:142,delta:[87,89,96,99,131,154,157,160],delta_i:154,delta_limit:154,delta_x:154,dem:[32,45,53,59,121,152,154,156],demo:94,demonstr:[12,25,88,94],denot:[6,22,44,53,131,154],dens:149,densiti:[86,93,101,103,140,141,157],depart:[4,148],depdend:87,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],deprec:[7,30,34,54,58,117,121,142,152,154],depress:32,depth:[4,5,16,17,22,30,32,33,39,44,45,48,64,70,76,78,132,134,135,142,152],deriv:[61,70,81,86,90,91,101,111],describ:[3,4,5,6,7,13,14,16,19,26,28,30,31,32,35,36,38,39,44,46,47,48,51,52,54,55,57,59,60,62,63,66,67,70,72,73,76,77,78,89,91,92,98,104,108,110,111,119,122,123,131,133,134,138,139,140,142,148,149,152,154,156,157,160],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],design:[4,27,28,51,81,83,103,133,156],desir:[0,1,2,3,6,7,16,22,25,26,30,32,33,39,42,44,55,58,59,60,66,70,75,76,77,79,83,84,86,93,98,99,107,119,121,124,135,137,139,140,141,143,148,152,154,155],desktop:94,destin:51,detail:[4,5,10,16,22,23,25,26,28,29,30,32,35,36,38,41,46,48,51,54,57,58,61,62,66,67,70,73,77,81,86,87,88,89,91,92,93,94,95,96,97,99,109,110,111,114,119,121,126,131,133,138,139,142,144,148,152,155,156,157,160],detect:[51,62,92,100,104,155],deterimin:[142,154],determin:[3,5,6,30,32,39,44,45,48,50,51,54,59,70,77,87,89,92,101,106,110,114,118,119,130,133,134,138,139,140,142,154,157],determine_topo_typ:154,dev:[18,24,28,54,55,94,121,122,127,128,129],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],dict:[30,86,92,97,98,101,148,154],dictionari:[0,1,2,3,30,44,60,77,83,86,92,97,98,101,103,106,148,152,154],dicuss:30,did:[121,126,133,152],didn:116,died:113,diff:[18,50,55,113,114,115,116,117,118,119,120,121,122,123,124,125,126,127,128],differ:[1,3,6,7,12,15,16,22,28,30,31,35,36,39,44,46,48,50,53,57,59,62,64,66,67,70,71,76,79,83,84,86,88,89,91,92,97,99,104,105,106,107,110,111,117,118,119,120,121,124,126,127,131,134,135,136,137,139,140,141,142,146,147,152,154,155,156,157,160],differenti:[17,30],difficult:44,difficulti:[100,102,106],diffus:96,digit:[32,39,53,59,60,77,119,120,121,154],dike:[39,66,124],dim:[96,97,99],dimens:[5,6,7,16,20,22,25,44,47,53,59,67,83,84,86,92,94,96,97,98,101,103,110,121,124,131,139,140,141,143,154,157],dimension:[3,7,8,17,22,25,30,32,35,36,44,48,52,67,89,96,117,118,120,123,141,142,143,154,157],dimensional_split:[89,117,139,141,143],dip:[30,70],dir:[55,94,158],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],directli:[8,19,23,32,48,57,67,70,77,79,83,84,87,91,101,104,106,121,154,158],directori:[1,3,5,6,11,12,13,14,15,16,19,20,22,23,25,28,29,31,32,35,36,37,40,42,43,44,45,47,50,51,54,55,57,59,63,67,68,71,75,76,79,86,88,89,91,92,93,96,103,106,107,108,110,111,113,118,119,120,121,123,130,131,135,136,137,138,139,140,144,146,147,150,151,152,155,157,158],directorti:108,disabl:[49,100,142],disable_petsc:104,discard:[32,99],disclaim:[61,81],discontinu:[4,99,160],discov:64,discoveri:111,discret:99,discrib:4,discuss:[5,24,28,30,48,53,66,70,92,103,105,106,110,119,121,131,142,160],disk:[13,44,83,92,93,111,119],dispers:48,displac:[30,45,48,70,135,142,156],displai:[1,13,35,36,40,44,51,59,77,93,111,142],display_format:[44,60],display_landfall_tim:142,dist:55,dist_latlong2met:47,dist_meters2latlong:47,distanc:[30,47,51,70,142,152,154],distant:[108,110],distinct:[44,119],distinguish:39,distribut:[4,12,13,29,30,54,61,70,73,81,99,105,124],disturb:51,distutil:84,divid:[110,139],divis:[4,51],dlgeorg:4,dms2decim:47,dnetcdf:[41,152],doc:[18,23,24,28,30,51,55,87,104,105,106,120,121,122,123,124,125,126,127,128,145],docker:[18,25,55,56,120,121,122,123,124,125,126,127,128,159],docker_disk:29,docker_imag:55,dockerfile_v5:29,dockerhub:[29,55],dockeril:29,docstr:[84,88,111],doctest:89,documen:54,document:[0,1,2,3,6,7,18,21,22,23,24,25,28,29,32,45,48,53,58,61,70,76,77,78,79,81,87,89,92,93,94,95,99,101,104,106,114,127,128,129,138,141,158,159],dodsc:[39,66],doe:[4,5,11,16,20,27,28,39,40,48,51,53,54,58,67,73,77,80,89,98,101,104,110,111,114,119,123,126,130,131,132,135,148,154,155,157],doesn:[28,32,58,63,101],doflag:110,doi:[4,17,52,55,57,124,125,126,127,128,129],doing:[6,11,19,25,28,33,39,44,48,50,52,54,58,63,77,79,89,91,110,111,118,119,120,121],domain:[5,6,16,17,33,38,39,48,51,54,59,70,72,82,83,84,86,94,96,98,101,108,110,140,141,143,152],don:[13,27,28,54,55,77,93,94,100,111,141,155],done:[1,6,7,8,11,13,16,19,20,28,35,36,39,44,46,51,53,54,56,59,62,66,67,70,76,77,79,83,87,88,91,104,110,114,118,119,123,130,131,133,138,140,142,151,154,155,156],donna:[4,17],donnabois:4,donor:[139,141,143],dontflag:110,dot:[40,44,51,58,59,62,155],doubl:[67,84,89,104,131,140],down:[13,30,93,118,148,152,154],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],downward:70,doxygen:[6,7,25,120],dpc:59,dpi:[51,59],dpng:67,dprint:[140,141],dq_src:[96,99],dqdt:99,draft:55,drag:142,drag_law:142,draw:3,drawback:106,drawcontourlin:67,drawn:[30,51,138],driver:[20,63],drop:[13,54,80,124,126,135,139],dry:[16,17,25,32,45,124,127,132,135],dry_point:39,dry_points_sum:39,ds824:148,dst:5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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],workflow:[108,144,148],workshop:[108,124],workspac:[24,67,101],world:[48,64,91,94,148],worst:134,worth:101,worthwhil:96,would:[2,3,12,13,16,24,27,28,32,38,41,51,53,55,58,60,62,63,66,70,72,77,81,83,86,89,93,104,111,119,133,134,135,138,139,142,148,152,157],wouldn:63,wpalg:17,wrap:[59,81,84,89,99,104,148],wrapper:154,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],write_:92,write_arrai:92,write_atcf:148,write_aux:[92,98],write_aux_alwai:[83,86,93],write_aux_init:[83,86],write_aux_int:93,write_geoclaw:148,write_hurdat:148,write_imd:148,write_jma:148,write_p:[92,98],write_tcvit:148,write_to_fgmax_data:33,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],wrong:[58,63,67,93,106],www:[4,13,17,30,39,45,54,60,61,66,68,81,84,89,92,94,120,122,148,154],x1_desir:33,x1_domain:33,x1_new:33,x2_desir:33,x2_new:33,x_1:[5,133],x_2:[5,133],x_c:133,x_cell:59,x_center:133,x_edg:[59,133],x_i:[131,157,160],x_inch:59,x_mask:154,xarr:89,xarrai:154,xarray_d:154,xclaw:[35,36,86],xclawcmd:86,xclawerr:86,xclawout:86,xcode:80,xdir:86,xiaom:30,xinsheng:[4,52],xinshengqin:[4,52],xleft:[140,141],xlf:100,xlimit:[0,44,51,124],xllcenter:[53,121,152],xllcorner:[53,152],xllower:121,xlow:72,xlower:[0,3,16,22,27,39,84,121,141,143,152,154,157],xlowerg:84,xmax:0,xmin:0,xpoint:142,xrang:96,xtick:[39,49],xupper:[0,22,141,143,154],xxdiff:111,xxx:152,xxxx:67,xy_fil:32,xy_fnam:33,xylim:30,xzf:57,y_c:133,y_cell:59,y_center:133,y_edg:[59,133],y_inch:59,year:[4,17,22,51,59,91,112,122,148],yellow:[59,77,148],yellow_red_blu:77,yes:67,yet:[1,13,18,20,25,48,52,54,57,59,76,99,119,120,121,122,123,124,125,126,127,128,129,131,139,141,159],yianni:[4,17,81],yield:3,yleft:[140,141],ylimit:[0,44,51,124,138],yllcenter:[53,121,152],yllcorner:[53,152],yllower:121,ylow:72,ylower:[3,22,27,39,84,121,141,152,154],ylowerg:84,ymax:0,ymin:0,yml:111,yong:17,you:[0,3,4,5,12,13,14,15,16,18,19,20,22,23,24,25,26,27,28,29,32,35,36,37,38,40,41,42,44,47,50,51,52,53,54,55,56,57,58,59,62,63,66,67,68,69,70,71,72,73,75,76,77,79,80,81,83,84,85,86,88,91,92,93,94,95,96,99,100,101,102,103,105,106,107,108,109,111,113,118,119,120,121,124,126,129,130,131,132,133,134,135,136,137,138,140,141,142,143,144,145,146,147,148,150,152,155,156,157,159],your:[4,6,15,16,19,20,24,25,26,35,37,41,44,53,54,55,56,57,58,68,71,76,77,79,81,82,83,84,85,88,90,91,93,102,103,105,106,107,108,110,111,113,121,131,136,137,146,147,152,155,157],yourself:[41,44,57],youtub:[24,108,124],ypoint:142,yupper:[22,141,154],z_allow_wet:39,z_dry:39,z_format:[39,66,154],zdry:[39,66],zenodo:[4,57,124,125,126,127,128,129],zero:[3,16,30,32,39,41,59,67,83,96,101,103,126,133,134],zip:[12,51,55],zipinfo:51,zlib:92,zlim:59,zlower:22,zmask:66,zmax:[39,66],zmin:[39,66],znearshor:66,zone:[48,51,59,140,141],zoom:[24,51],zsh:94,zshallow:66,ztopo:66,zupper:22,zvar:154},titles:["ClawPlotAxes","ClawPlotData","ClawPlotFigure","ClawPlotItem","About this software","Guiding AMR with adjoint flagging","Adaptive mesh refinement (AMR) algorithms","AMRClaw Description and Detailed Contents","AMRClaw for 1d problems","Doxygen documentation of AMRClaw","AMRClaw Flowcharts","Application documentation","Clawpack Applications repository","Amazon Web Services EC2 Clawpack AMI","b4run function","b4step default routines","Boundary conditions","Bibliography","Changes to master since v5.8.2","Converting from Clawpack 4.3 to 4.6","Converting from Clawpack 4.6 to 5.0","Clawpack 4.x links","Changes in Clawpack 5.0","Clawpack components","Clawpack Community","Full Table of Contents","Contributing examples and applications","current_data","Developers\u2019 Guide","Docker for Clawpack","dtopotools module for moving topography","Fortran 77 vs. Fortran 90 files","Fixed grid monitoring","fgmax_tools module for working with topography data","Fixed grid output","Running an example","Testing your Fortran installation and running an example","Testing a PyClaw installation and running an example","Specifying flagregions for adaptive refinement","Force Cells to be Dry Initially","Fortran version","Fortran Compilers","Examples from the book FVMHP","Clawpack Gallery","Gauges","GeoClaw Description and Detailed Contents","Getting started with GeoClaw","geoclaw.util module of utility functions","Cautionary Hints on using GeoClaw","GeoClaw plotting tools","Keeping track of repository versions with Git","Visualizing GeoClaw results in Google Earth","Using the GPU version of Clawpack","Grid registration","Guide for updating this documentation","Guide for doing a Clawpack release","Installing Clawpack","Options for installing Clawpack Fortran codes","pip install instructions","kmltools module of utility functions","Lagrangian gauges for particle tracking","License","Clawpack Makefiles","Library routines in Makefiles","Manning friction term","The mapc2p function","Marching Front algorithm","Plotting using Matlab","Using NetCDF output","Creating a new application directory","Earthquake sources: Fault slip and the Okada model","Using OpenMP","Output data formats","Which Clawpack solver should I use?","Clawpack Community Photos","Plotting examples","Plotting with Visclaw","Plotting hints and FAQ","Plotting routines for GeoClaw","Plotting options in Python","Installation Prerequisites","About PyClaw","PyClaw Basics","Understanding Pyclaw Classes","Porting a problem from Clawpack 4.6.x to PyClaw","Running PyClaw in the cloud","Pyclaw Controller Class","Pyclaw Limiters","Working with PyClaw\u2019s built-in examples","PyClaw Geometry","Going Further","PyClaw","Pyclaw Input/Output Package","PyClaw output","Running in parallel","Plotting PyClaw results","Setting up your own problem","Riemann Solver Package","PyClaw Solutions","Using PyClaw\u2019s solvers: Classic and SharpClaw","Installing PyClaw","PyClaw State","Troubleshooting","PyClaw tutorial: Solve the acoustics equations","Pyclaw Utility Module","Python Hints","Python 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73,77,79,83,88,91,92,93,95,101,103,107,109,110,111,113,119,120,121,122,126,130,140,144,148,149,152,156,160],USE:[61,81],Use:[30,51,91,97,99,121,132,139,141,143,152,154],Used:132,Useful:[1,3,132,139],Uses:[30,132,154],Using:[0,1,2,3,7,17,22,41,42,51,53,75,76,77,79,89,90,91,123,139,146,147,151,154,155,160],WCS:156,Will:98,With:[6,22,28,44,49,51,58,66,73,110,118,131,133,139],__________________o:154,__file__:106,__future__:119,__init__:[55,96,106],__main__:[141,143],__name__:[141,143],_build1:54,_build:54,_compute_c_cent:89,_compute_c_nod:89,_compute_p_cent:89,_compute_p_nod:89,_fillvalu:92,_googleearth:51,_outdir:93,_output2:[77,79],_output:[5,13,14,32,35,36,44,50,60,67,77,79,88,93,95,98,118,125,155],_output_from_previous_run:44,_output_new:111,_output_old:111,_plot:[13,35,36,44,67,79,138,144],_plotindex:[1,44],_plots_new:111,_plots_old:111,_ptwise:131,_pyclaw_io:86,_static:54,_storm_modul:149,_subpackag:106,_surge_modul:108,_templat:[54,55],_theme:54,a351:[17,91],a377:[17,91],aabbggrr:59,abdullah:[4,81],abil:[41,117,119,123,148,154],abl:[13,54,106],abort:62,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],aboutu:30,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],abs:[30,52,96,104,110,133,154],absolut:[93,110,111,121,140,141],absolute_import:119,abspath:[5,38],abstol:104,academ:102,acceler:[52,97],accept:[44,83,93,99,139],accept_reject_step:99,access:[0,17,27,29,55,58,88,89,91,99,101,104],accid:28,accident:[28,77],accompani:[18,21],accomplish:[29,39,62],accord:[6,53],accordingli:[51,152],account:[13,24,28,55,85,94],accumul:[44,119,130],accur:[5,48,70,91,99,126,139,157,160],accuraci:[44,64,73,141,143],achiev:[20,84,146,147],acou:77,acoust:[16,29,35,36,48,82,83,86,88,91,99,100,117,131,141,157],acoustics1dheterogeneoustest:[36,150],acoustics3dheterogeneoustest:[36,150],acoustics_1d:[83,97,103],acoustics_1d_adjoint:5,acoustics_1d_example1:[35,36,69],acoustics_1d_heterogen:[36,150,157],acoustics_1d_homogen:[88,111],acoustics_1d_pi:97,acoustics_2d:99,acoustics_2d_adjoint:5,acoustics_2d_radi:[141,157],acoustics_3d_heterogen:[36,150],acoustics_3d_vari:111,acquaint:103,acquir:77,across:[5,110,119,152,154],acsza1:30,acszb1:30,act:[87,154],acta:17,actanum2011:17,action:[13,14,84],activ:[24,32,34,38,54,99,108,142],actual:[6,27,30,32,53,58,59,67,70,77,87,92,104,108,134,142],adapt:[4,7,17,30,39,52,53,66,67,73,83,110,121,124,126,131,133,138,139,140,142,157],add:[0,11,12,13,16,17,27,28,30,44,47,51,54,55,57,58,63,66,67,68,70,76,83,88,89,93,94,96,104,114,117,119,120,121,124,132,143,148,152,154,158],add_colorbar:[30,154],add_colormap:[39,66,118,124],add_dimens:89,add_gaug:[89,93],add_label:44,add_param:[141,143],add_parent_doc:104,add_titl:77,add_true_solut:77,added:[3,12,16,18,20,22,24,28,34,47,53,55,58,59,60,64,67,77,89,93,106,108,110,113,114,116,117,118,119,120,121,122,123,124,125,130,135,139,140,142,148,151,154,158],addgaug:44,adding:[22,27,28,29,32,41,44,54,59,70,94,107,118,120],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],addition:[94,148],address:[51,54,119],adequ:48,adjac:[6,16,32,45,110,135,139],adjoint:[7,17,25,52,110,121,122],adjoint_flag:110,adjoint_modul:122,adjoint_outdir:5,adjointdata:[5,122,123],adjointsup_modul:122,adjust:[5,13,20,32,33,45,59,89,93,134,139,157],adjust_fgmax_1d:33,admiralti:133,adopt:[30,99],adv:17,advanc:[6,17,52,66,71,103,118,139,140,157],advantag:[12,76,92,105,111,133],advect:[17,77,91,94,131,132,143,157],advection2dannulustest:[36,150],advection_1d:97,advection_1d_example1:63,advection_1d_pi:97,advection_2d_annulu:[36,150],advection_2d_flagregion:38,advection_2d_inflow:117,advection_2d_swirl:157,advection_3d_swirl:[117,151],advertis:126,advis:[34,61,81],affect:[18,22,62,119,120,126,139,152,155],afosr:4,after:[0,1,3,5,6,12,13,19,23,27,28,29,32,33,35,36,39,44,48,54,55,57,59,60,62,63,66,67,68,72,77,84,85,86,88,93,99,101,106,110,111,113,117,118,132,135,139,140,141,143,148,157],afterax:[0,27,44,51,77],afterfram:[1,27,76],aftergrid:67,afteritem:[3,27],afterpatch:[3,27],again:[22,40,62,66,70,77,79,83,84,93,97,102,106,121,127,152,155],against:[104,111,118,150],agenc:[4,56,148,149],agency_pref:148,agre:[12,28,39,53,131,151,154,157],agreement:48,ahmadia:[4,17,81,91],aht:134,aid:84,aim:28,aks2203:4,albada:87,alg:141,alghamdi:[4,17,81,91],algorithm:[4,7,25,32,38,39,45,52,83,89,91,92,99,103,110,121,131,133,139,141,143,154],align:[32,39,51,59,66,124,126,142],all:[0,1,4,6,11,12,13,16,20,22,23,25,27,28,29,30,32,33,35,36,39,40,41,44,45,48,50,51,53,54,55,56,57,59,60,61,62,63,67,69,70,71,72,73,76,77,79,80,81,83,86,87,89,91,92,93,94,96,97,98,99,101,104,105,106,109,110,111,113,114,117,118,119,121,124,126,129,130,131,132,133,135,138,139,140,141,142,143,144,149,150,151,152,154,155,157],alloc:[20,99,117,126,140],allocat:117,allot:59,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],alon:[16,51],along:[6,14,16,24,27,30,32,39,44,51,54,57,68,70,106,110,117,130,133,135,142,148,156],alpha:[51,55,99],alphabet:81,alreadi:[0,1,6,12,13,18,28,29,41,55,56,58,59,60,66,79,80,94,98,100,103,105,114,122,137,154],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],alter:51,altern:[30,35,36,44,47,51,56,60,62,67,76,91,94,106,110,117,118,119],although:[30,51,63,67,95,96,98,110,122,128,154],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],amal:[4,17,81,91],amazon:25,amazonaw:13,amdq:[97,131],ami:25,among:124,amount:[44,48,54],amplitud:[5,119],amr:[4,7,8,16,18,20,23,25,27,28,32,34,38,44,45,52,59,67,72,73,76,81,89,118,120,121,122,124,126,135,138,139,141,143,151,157],amr_1d:122,amr_2d:[121,122],amr_:[3,7],amr_celledges_show:3,amr_contour_color:3,amr_contour_show:3,amr_data_show:118,amr_level:72,amr_level_max:141,amr_levels_max:[32,110,140,141],amr_modul:[71,110,117,123,124],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],amrdata:[5,22,32,110,124,126,140,141,142],amrflag:110,amrlib:117,amrnez:110,an11:54,anaconda:[51,100],anal:17,analog:[139,140],analysi:17,andi:4,angl:[16,30,47,70],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],anim:[12,16,18,42,51,117,124,125,144],animation_tool:[124,125],anisotrop:[6,22],anl:94,annot:[27,59],annual:24,anoth:[3,22,39,44,51,55,58,59,72,76,80,88,99,102,111,121,148,157],answer:24,anyth:[3,6,28,29,58,63,111,121],anywher:110,aoml:148,apach:13,apdq:[97,131],api:[47,121],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],appar:[30,32,71],appeal:51,appear:[0,1,3,5,8,13,18,23,32,44,45,51,54,59,62,65,77,93,98,101,119,126,142,144,152],append:[5,20,32,38,39,44,51,60,77,86,98,110,118,119,130,131,141],appl:17,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],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],appreci:81,approach:[5,7,13,28,29,38,44,54,57,69,76,84,91,94,96,104,110,117,119,120,122,131,132,138,142,157,160],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],approv:48,approxim:[6,16,25,33,48,51,70,131],april:[24,124,125,129],apt:[13,80],arbitrari:[32,59,99,113,133,142],arbitrarili:66,arc:134,arcgi:154,architectur:94,archiv:[12,21,36,51,55,111,144,150,154,156],arcminut:[70,152],arcsecond:[45,152],area:[15,22,45,99,108,119,135,136],arg:[89,98],argument:[0,1,2,3,27,30,45,47,50,51,53,77,83,84,88,89,92,96,98,99,101,104,111,121,131,133,138,139,140,148,154,157],argv:[141,143],aris:[61,81],arithmet:64,aron:[4,17,81,91],arora:87,arora_ro:87,around:[6,30,32,39,59,92,108,111,124,140,141,148,154,157],arrai:[0,3,6,15,20,22,27,30,32,33,38,44,45,47,49,53,59,77,83,84,86,87,89,91,92,93,96,97,98,99,101,103,104,105,113,114,115,119,121,124,126,131,132,133,136,139,140,141,142,143,148,152,154,157],arrang:154,arriv:[22,32,34,39,45,119,134,135],arrival_tol:32,articl:[4,17,91,144],artifici:[16,135],arxiv:52,asc:154,ascii:[18,44,53,67,83,86,93,98,119,130,139,141,143,152,158],ascii_output_format:68,ask:24,ask_us:154,aspect:[12,24,29,43,48,49,67,154],assert:[141,143],assess:[4,48,134],assign:[30,32,83,86,92,98],assist:[22,124],associ:[0,1,2,6,22,51,58,71,89,92,93,111],assum:[3,5,20,22,30,32,36,39,47,48,51,53,54,55,59,67,70,76,92,93,95,96,97,103,104,110,117,133,134,139,142,148,149,152,154,156,160],assumpt:[51,54],asteroid:4,astronom:134,atcf:[108,121,148,149],aterrel:4,atmospher:4,attach:[55,92,101],attempt:[5,8,11,20,33,35,36,62,92,98,104,111,113,127,148,154,155],attirbut:22,attr:[89,98],attribur:5,attribut:[5,7,22,30,38,44,66,70,76,78,79,83,86,89,92,94,96,98,99,110,113,118,122,130,138,139,140,142,148,154],attributeerror:77,aug:[17,122],aug_glob:97,augment:[66,132],august:[24,121,129],austin:4,author:[17,25,45,48,87,91,92,97,109],auto:[0,44,84],autom:[14,54,84,111],automat:[0,2,3,8,11,16,30,35,36,41,51,55,62,76,77,79,83,88,92,94,100,10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onstrain:110,constraint:[39,44,133,140,160],construc:59,construct:[22,30,32,53,83,89,104,148,149,152],construct_function_handl:104,constructor:101,consult:102,contact:[12,88,91,100],contain:[1,3,5,12,13,20,23,25,26,30,32,33,35,36,37,40,42,43,44,45,47,49,50,51,52,53,54,55,59,60,62,63,66,67,68,72,73,77,79,80,83,84,86,87,89,91,92,94,96,97,98,99,101,103,104,105,106,110,111,113,114,121,122,129,131,133,138,139,142,144,148,152,154,155,157],containing_rect:30,contains:29,containt:130,contamin:139,contan:51,content:[4,6,23,51,55,73,84,91,142,152,157,158],context:[27,51,157],contigu:[72,92,101,133],continent:[7,66],contingu:22,continu:[13,22,28,30,49,54,81,105,131,139,160],contour:[3,30,44,51,53,67,105,138,154],contour_color:3,contour_kwarg:[3,154],contour_level:[3,154],contour_max:3,contour_min:3,contour_nlevel:3,contour_show:3,contourf:[51,76],contract:[4,61,81],contrast:[53,133],contribut:[4,24,25,57,81,84,91,96,99,108,111],contributor:[4,24,61,91],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],conveni:[1,27,32,35,36,39,44,51,79,86,88,91,93,95,103,157,160],convens:152,convent:[3,22,30,46,53,70,97,152],converg:[66,76],convers:[19,25,84,92,110,133,152,156],convert43to46:19,convert46to50:20,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],convert_fort_double_to_float:104,convert_readm:11,convert_to_standard_unit:30,convex:[7,32],coodin:30,coord:[47,51],coordin:[4,23,30,32,47,72,76,83,89,93,94,103,110,133,142,154],coordinate_specif:[30,70],coordinate_system:[15,60,136,142],coorind:154,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],copyq1:63,copyright:[61,81],core:[4,12,73,111,121],corioli:[48,142,146,147],coriolis_forc:[48,142],corner:[3,30,32,53,70,72,89,133,139,141,143,152,154],correct:[20,28,41,54,55,63,64,67,77,83,89,94,98,104,113,114,118,135,139,141,142,143],correctli:[28,32,84,90,117,142],correspond:[3,6,12,23,25,27,30,44,47,48,53,54,55,59,67,70,77,83,87,89,92,93,96,98,101,110,111,131,133,134,139,140,141,142,143,148,152,156,157],correspondingli:32,cos:[39,47,49,66,83,96],cosin:83,cost:[13,99],costli:132,could:[5,12,13,27,32,35,36,39,44,53,60,66,70,71,77,79,83,89,93,101,102,106,117,126,133,135,140,141,142,143,154,157],council:4,count:83,count_from_zero:83,counter:[104,154],counterclockwis:70,coupl:[119,160],courant:[4,6,110,120,139,140,141,143],cours:[13,26,32,44,46,60,70,94,95,103,105,108,142,152],cover:[6,7,27,28,30,32,38,39,51,59,66,70,110,114,119,135,141,152],coverag:[91,111],covert:11,covid:24,cparam:[83,101],cpp:52,cpu:[13,52,118,121,123,151],crash:[118,139,140],creat:[0,1,2,3,5,6,7,18,19,24,25,28,30,32,33,35,36,38,40,42,44,45,46,50,52,54,58,59,62,70,72,76,77,79,84,85,88,89,91,92,95,98,101,102,103,104,110,111,113,117,118,119,121,122,123,126,133,138,139,140,141,144,145,148,154,156,157,158],create_dtopo_xi:[30,70],create_dtopographi:[30,70],create_topo_func:154,creation:[39,77,91,113],criteria:[6,7,22,25,32,66,101],criterion:[32,110,141],critic:[51,93,131],crop:[53,154],cross:28,crucial:[51,152],csdm:24,cse:24,csh:94,csv:[30,70,121],csvfault:[30,70],ctrl:[29,77],cube:67,cultu:66,cumul:121,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],current_data:[0,3,25,44,76,77],curv:[3,44,76,133],custom:[0,13,16,20,22,25,63,67,73,76,84,90,96,135],custom_bc:96,customari:93,cut:140,cutoff:[6,141],cvf:55,cvs:51,cxx:94,cyber:17,cygwin:86,cython:94,dai:[6,13,51,142],dalcin:81,dam:[51,135],dam_break:132,damag:[6,61,81],damiansra:96,dark:133,darker:51,darryl:17,dart:45,dash:[3,94],daspect:67,dat:[30,148],data:[0,1,3,5,25,27,30,32,35,36,38,39,40,42,44,45,46,47,53,54,59,60,61,62,66,67,76,77,78,79,81,83,86,89,92,93,95,97,98,99,101,104,107,108,109,110,113,115,116,118,119,121,122,123,124,126,131,133,134,140,141,143,148,151,153,158],data_break:[39,66,154],data_fil:33,data_limit:[39,66],data_storm:148,data_typ:104,databas:[13,30,70,104,108,121,152],datadir:118,dataset:[152,154,156],date:[5,28,40,47,51,54,55,62,77,148,155],date_tim:47,datetiem:148,datetim:[47,148],datum:[47,48,97,134,142,156],dave:30,davi:[4,17],david:[4,17,81,91,99],davis2018:[5,17],davisleveque2016:[5,17],davisleveque2018:[5,17],dawson:17,daylight:59,dcp:59,deal:[30,48,76,93,94,101,148,154],dealt:[32,39],debug:[7,18,41,62,72,76,93,101,106,111,139,141],debugg:77,decemb:[18,128,129],decid:[83,99],decim:[47,59],decimc:148,decis:51,declar:[20,22,101,126,157],decompos:[72,131,160],decomposit:139,decor:104,decoupl:54,decreas:[44,135,152],deduc:152,deep:[5,66],deeper:[133,142,152],deepli:103,def:[0,1,3,44,51,66,77,83,89,93,96,99,141,143,148],default_tfluct:99,defenc:4,defens:4,defin:[0,1,3,5,6,7,22,27,30,32,38,39,41,51,59,60,62,66,67,70,77,79,83,86,89,95,96,98,99,101,103,104,110,113,121,126,131,141,143,148,152,154,155,157,160],definit:[30,67,83,110,116],deform:[17,30,33,45,70,156],deg2dm:59,degener:133,degre:[30,47,51,59,70],delet:[20,28,58],delimit:30,delin:142,delta:[87,89,96,99,131,154,157,160],delta_h:97,delta_hu:97,delta_i:154,delta_limit:154,delta_x:154,dem:[32,45,53,59,121,152,154,156],demo:94,demonstr:[12,25,88,94],denot:[6,22,44,53,131,154],dens:149,densiti:[86,93,97,101,103,140,141,157],depart:[4,148],depdend:87,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],deprec:[7,18,30,34,54,58,117,121,142,152,154],depress:32,depth:[4,5,16,17,22,30,32,33,39,44,45,48,64,70,76,78,132,134,135,142,152],deriv:[61,70,81,86,90,91,101,111],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],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],design:[4,27,28,51,81,83,103,133,156],desir:[0,1,2,3,6,7,16,22,25,26,30,32,33,39,42,44,55,58,59,60,66,70,75,76,77,79,83,84,86,93,98,99,107,119,121,124,135,137,139,140,141,143,148,152,154,155],desktop:94,destin:51,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],detect:[51,62,92,100,104,155],deterimin:[142,154],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],determine_topo_typ:154,dev:[18,24,28,54,55,94,121,122,127,128,129],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],dict:[30,86,92,97,98,101,148,154],dictionari:[0,1,2,3,30,44,60,77,83,86,92,97,98,101,103,106,148,152,154],dicuss:30,did:[121,126,133,152],didn:116,died:113,diff:[18,50,55,113,114,115,116,117,118,119,120,121,122,123,124,125,126,127,128],differ:[1,3,6,7,12,15,16,22,28,30,31,35,36,39,44,46,48,50,53,57,59,62,64,66,67,70,71,76,79,83,84,86,88,89,91,92,97,99,104,105,106,107,110,111,117,118,119,120,121,124,126,127,131,134,135,136,137,139,140,141,142,146,147,152,154,155,156,157,160],differenti:[17,30],difficult:44,difficulti:[100,102,106],diffus:96,digit:[32,39,53,59,60,77,119,120,121,154],dike:[39,66,124],dim:[96,97,99],dimens:[5,6,7,16,20,22,25,44,47,53,59,67,83,84,86,92,94,96,97,98,101,103,110,121,124,131,139,140,141,143,154,157],dimension:[3,7,8,17,22,25,30,32,35,36,44,48,52,67,89,96,117,118,120,123,141,142,143,154,157],dimensional_split:[89,117,139,141,143],dip:[30,70],dir:[55,94,158],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],directli:[8,18,19,23,32,48,57,67,70,77,79,83,84,87,91,101,104,106,121,154,158],directori:[1,3,5,6,11,12,13,14,15,16,19,20,22,23,25,28,29,31,32,35,36,37,40,42,43,44,45,47,50,51,54,55,57,59,63,67,68,71,75,76,79,86,88,89,91,92,93,96,103,106,107,108,110,111,113,118,119,120,121,123,130,131,135,136,137,138,139,140,144,146,147,150,151,152,155,157,158],directorti:108,disabl:[49,100,142],disable_petsc:104,discard:[32,99],disclaim:[61,81],discontinu:[4,99,160],discov:64,discoveri:111,discret:99,discrib:4,discuss:[5,24,28,30,48,53,66,70,92,103,105,106,110,119,121,131,142,160],disk:[13,44,83,92,93,111,119],dispers:48,displac:[30,45,48,70,135,142,156],displai:[1,13,35,36,40,44,51,59,77,93,111,142],display_format:[44,60],display_landfall_tim:142,dist:55,dist_latlong2met:47,dist_meters2latlong:47,distanc:[30,47,51,70,142,152,154],distant:[108,110],distinct:[44,119],distinguish:39,distribut:[4,12,13,29,30,54,61,70,73,81,99,105,124],disturb:51,distutil:84,divid:[110,139],divis:[4,51],dlgeorg:4,dms2decim:47,dnetcdf:[41,152],doc:[18,23,24,28,30,51,55,87,104,105,106,120,121,122,123,124,125,126,127,128,145],docker:[18,25,55,56,120,121,122,123,124,125,126,127,128,159],docker_disk:29,docker_imag:55,dockerfile_v5:29,dockerhub:[29,55],dockeril:29,docstr:[84,88,111],doctest:89,documen:54,document:[0,1,2,3,6,7,18,21,22,23,24,25,28,29,32,45,48,53,58,61,70,76,77,78,79,81,87,89,92,93,94,95,99,101,104,106,114,127,128,129,138,141,158,159],dodsc:[39,66],doe:[4,5,11,16,18,20,27,28,39,40,48,51,53,54,58,67,73,77,80,89,98,101,104,110,111,114,119,123,126,130,131,132,135,148,154,155,157],doesn:[28,32,58,63,101],doflag:110,doi:[4,17,52,55,57,124,125,126,127,128,129],doing:[6,11,18,19,25,28,33,39,44,48,50,52,54,58,63,77,79,89,91,110,111,118,119,120,121],domain:[5,6,16,17,18,33,38,39,48,51,54,59,70,72,82,83,84,86,94,96,98,101,108,110,140,141,143,152],don:[13,27,28,54,55,77,93,94,100,111,141,155],done:[1,6,7,8,11,13,16,19,20,28,35,36,39,44,46,51,53,54,56,59,62,66,67,70,76,77,79,83,87,88,91,104,110,114,118,119,123,130,131,133,138,140,142,151,154,155,156],donna:[4,17],donnabois:4,donor:[139,141,143],dontflag:110,dot:[40,44,51,58,59,62,155],doubl:[67,84,89,104,131,140],down:[13,30,93,118,148,152,154],download:[12,13,28,29,30,36,37,39,45,51,55,57,58,68,88,94,100,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this software","Guiding AMR with adjoint flagging","Adaptive mesh refinement (AMR) algorithms","AMRClaw Description and Detailed Contents","AMRClaw for 1d problems","Doxygen documentation of AMRClaw","AMRClaw Flowcharts","Application documentation","Clawpack Applications repository","Amazon Web Services EC2 Clawpack AMI","b4run function","b4step default routines","Boundary conditions","Bibliography","Changes to master since v5.8.2","Converting from Clawpack 4.3 to 4.6","Converting from Clawpack 4.6 to 5.0","Clawpack 4.x links","Changes in Clawpack 5.0","Clawpack components","Clawpack Community","Full Table of Contents","Contributing examples and applications","current_data","Developers\u2019 Guide","Docker for Clawpack","dtopotools module for moving topography","Fortran 77 vs. Fortran 90 files","Fixed grid monitoring","fgmax_tools module for working with topography data","Fixed grid output","Running an example","Testing your Fortran installation and running an example","Testing a 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a new application directory","Earthquake sources: Fault slip and the Okada model","Using OpenMP","Output data formats","Which Clawpack solver should I use?","Clawpack Community Photos","Plotting examples","Plotting with Visclaw","Plotting hints and FAQ","Plotting routines for GeoClaw","Plotting options in Python","Installation Prerequisites","About PyClaw","PyClaw Basics","Understanding Pyclaw Classes","Porting a problem from Clawpack 4.6.x to PyClaw","Running PyClaw in the cloud","Pyclaw Controller Class","Pyclaw Limiters","Working with PyClaw\u2019s built-in examples","PyClaw Geometry","Going Further","PyClaw","Pyclaw Input/Output Package","PyClaw output","Running in parallel","Plotting PyClaw results","Setting up your own problem","Riemann Solver Package","PyClaw Solutions","Using PyClaw\u2019s solvers: Classic and SharpClaw","Installing PyClaw","PyClaw State","Troubleshooting","PyClaw tutorial: Solve the acoustics equations","Pyclaw Utility Module","Python Hints","Python path","qinit default routines","Quick start guide for storm surge modeling","Quick start guide for tsunami modeling","AMR refinement criteria","Regression testing","v5.0.0 release notes","v5.1.0 release notes","v5.2.0 release notes","v5.2.1 release notes","v5.2.2 release notes","v5.3.0 release notes","v5.3.1 release notes","v5.4.0 release notes","v5.4.1 release notes","v5.5.0 release notes","v5.6.0 release notes","v5.6.1 release notes","v5.7.0 release notes","v5.7.1 release notes","v5.8.0 release notes","v5.8.1 release notes","v5.8.2 release notes","Releases of Clawpack and release notes","Checkpointing and restarting","Riemann solvers","Shallow water Riemann solvers in Clawpack","Ruled Rectangles","Setting sea_level","Set Eta Init \u2013 spatially varying initial surface elevation","setaux default routines","Set environment variables","Using setplot.py to specify the desired plots","Specifying classic run-time parameters in setrun.py","Specifying AMRClaw run-time parameters in 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        Navigation

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        • @@ -197,7 +197,7 @@

        Related Topics

        • Documentation overview
          • diff --git a/setrun_geoclaw.html b/setrun_geoclaw.html index 412e128ae..9a17325fa 100644 --- a/setrun_geoclaw.html +++ b/setrun_geoclaw.html @@ -178,7 +178,7 @@

          Additional AMR parametersSetting sealevel.

          +Setting sea_level.

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              Navigation

              as needed. Remember to change to Makefile to point to the proper version.

              $CLAW/classic/src/1d/b4step1.f90:

              -

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              +

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              $CLAW/classic/src/2d/b4step2.f90:

              -

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              +

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              $CLAW/classic/src/3d/b4step3.f90:

              -

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              +

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              Navigation

              with latitude when coordinate_system == 2).

              $CLAW/geoclaw/src/2d/shallow/b4step2.f90:

              -

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              +

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              Navigation

              Galleries of all Clawpack applications

              See also IPython notebook examples.

              -

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              +

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              +

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              +

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              toctree contains reference to nonexisting document ‘gallery/gallery_geoclaw’

              -

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              +

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              diff --git a/v5.1.x/genindex.html b/v5.1.x/genindex.html index 08731c2b2..67e67bdbb 100644 --- a/v5.1.x/genindex.html +++ b/v5.1.x/genindex.html @@ -82,6 +82,7 @@

              Index

              | B | C | D + | E | F | G | H @@ -106,6 +107,8 @@

              A

              - +
            • Dimension (class in pyclaw.geometry) +
              • +
            • dimensional_split (petclaw.geometry.Domain attribute)
            • dimensions() (pyclaw.geometry.Grid property) @@ -225,8 +246,12 @@

              D

              		•
              +

              E

              + + + +
              +

              F

              - +
              -
              @@ -480,7 +529,11 @@

              O

              @@ -700,7 +775,11 @@

              V

            • van_leer_klein_sharpening_limiter() (in module pyclaw.limiters.tvd)
            • verbosity (clawpack.pyclaw.classic.solver.ClawSolver attribute) + +
            -

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            +

            System Message: SEVERE/4 (/var/folders/_s/dx0xgftn3_x04rdx0_w5nq7w0000gn/T/tmpp0jqt8z_/6c7c4a351d3bdc60fa855e7f5fa7fcf9fa1676ae/git_resources.rst, line 62)

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            +InputError: [Errno 2] No such file or directory: ‘/var/folders/_s/dx0xgftn3_x04rdx0_w5nq7w0000gn/T/tmpp0jqt8z_/6c7c4a351d3bdc60fa855e7f5fa7fcf9fa1676ae/git_links.inc’.

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            Navigation

            Python Module Index

            + c | p
            + + + + + + + + + + + + + + + + + + + + + id="toggle-2" style="display: none" alt="-" /> - + - + - + - + @@ -215,7 +215,7 @@

            Navigation

            -read(frame, path='./_output', file_format='ascii', file_prefix=None, read_aux=True, options={}, **kargs)
            +read(frame, path='./_output', file_format=None, file_prefix='fort', read_aux=True, options={}, **kargs)

            Reads in a Solution object from a file

            Reads in and initializes this Solution with the data specified. This function will raise an IOError if it was unsuccessful.

            @@ -234,7 +234,8 @@

            Navigation

          • path - (string) Base path to the files to be read. default = './_output'

          • file_format - (string) Format of the file, should match on of the -modules inside of the io package. default = 'ascii'

            • +modules inside of the io package. default = None +but now attempts to read from header file (as of v5.9.0).

          • file_prefix - (string) Name prefix in front of all the files, defaults to whatever the format defaults to, e.g. fort for ascii

          • options - (dict) Dictionary of optional arguments dependent on diff --git a/v5.1.x/pyclaw/state.html b/v5.1.x/pyclaw/state.html index 230fe1cc3..638347335 100644 --- a/v5.1.x/pyclaw/state.html +++ b/v5.1.x/pyclaw/state.html @@ -92,7 +92,7 @@

            Navigation

            object also handles some of the parallel communication required of the state on the given patch such that only the parts of the fields local to the process. If you are interested in the geometry of the local state you can find it through the -Patch object’s reference to its own +Patch object’s reference to its own Grid.

            Serial pyclaw.state.State

            diff --git a/v5.1.x/python.html b/v5.1.x/python.html index 95ddcb913..07f55c2fa 100644 --- a/v5.1.x/python.html +++ b/v5.1.x/python.html @@ -163,7 +163,7 @@

            References and tutorialsMatplotlib gallery

          • `LeVeque’s class notes

            -

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            +

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            Navigation

            the initial conditions as desired.

            $CLAW/classic/src/1d/qinit.f90:

            -

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            +

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            $CLAW/classic/src/2d/qinit.f90:

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            +

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            Include file ‘/var/folders/_s/dx0xgftn3_x04rdx0_w5nq7w0000gn/T/classic/src/2d/qinit.f90’ not found or reading it failed

            $CLAW/classic/src/3d/qinit.f90:

            -

            System Message: WARNING/2 (/var/folders/_s/dx0xgftn3_x04rdx0_w5nq7w0000gn/T/tmp8prh_j6r/6c7c4a351d3bdc60fa855e7f5fa7fcf9fa1676ae/qinit_defaults.rst, line 30)

            +

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            Include file ‘/var/folders/_s/dx0xgftn3_x04rdx0_w5nq7w0000gn/T/classic/src/3d/qinit.f90’ not found or reading it failed

            @@ -103,7 +103,7 @@

            Navigation

            qinit data file parameters.

            $CLAW/geoclaw/src/2d/shallow/qinit.f90:

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            +

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this software","Adaptive mesh refinement (AMR) algorithms","AMRClaw","AMRClaw for 1d problems","Application documentation","Clawpack Applications repository","Amazon Web Services EC2 Clawpack AMI","b4step default routines","Boundary conditions","Bibliography","Examples from the book FVMHP","Recent changes \u2014 release notes","Converting from Clawpack 4.3 to 4.6","Converting from Clawpack 4.6 to 5.0","Clawpack 4.x links","Changes in Clawpack 5.0","Clawpack components","Full Table of Contents","current_data","Developers\u2019 Guide","Fixed grid monitoring","Fixed grid output","Running an example","Flagging cells for adaptive refinement","Fortran version","Fortran Compilers","FVMHP book","Galleries of all Clawpack applications","Gauges","GeoClaw","Cautionary Hints on using GeoClaw","GeoClaw plotting tools","git resources","Keeping track of git versions","Guide for updating this documentation","Installation instructions","License","Clawpack Makefiles","Manning friction term","The mapc2p function","Plotting using Matlab","Using NetCDF output","Creating a new application directory","IPython notebook examples","Earthquake sources: Fault slip and the Okada model","Using OpenMP","Output data formats","Which Clawpack solver should I use?","Plotting examples","Visclaw Plotting options","Plotting hints and FAQ","Plotting routines for GeoClaw","Plotting options in Python","Previous versions of Clawpack","About PyClaw","PyClaw Basics","Understanding Pyclaw Classes","Porting a problem from Clawpack 4.6.x to PyClaw","Running PyClaw in the cloud","Pyclaw Controller Class","Development workflow","Installing and configuring git","git resources","Maintainer workflow","Contributing to PyClaw code development","General information for developers","Pyclaw Limiters","Working with PyClaw\u2019s built-in examples","Information for developers","Future work","Building the PyClaw gallery locally","PyClaw Geometry","Going Further","Pyclaw","Pyclaw Input/Output Package","Advanced output options","Running in parallel","Plotting PyClaw results","Setting up your own problem","Riemann Solver Package","Conventions for coding and documenting PyClaw","PyClaw Solutions","Using PyClaw\u2019s solvers: Classic and SharpClaw","Installing PyClaw","PyClaw State","Troubleshooting","PyClaw tutorial: Solve the acoustics equations","Pyclaw Utility Module","Python Hints","qinit default routines","Quick start guide for tsunami modeling","AMR refinement criteria","Regression testing","Release 5.0.0","Release 5.1.0","Checkpointing and restarting","Riemann solvers","Setting sealevel","setaux default routines","Using setplot.py to specify the desired plots","Specifying classic run-time parameters in setrun.py","Specifying AMRClaw run-time parameters in setrun.py","Sample setrun.py module for AMRClaw","Specifying GeoClaw parameters in setrun.py","Sample setrun.py module for classic Clawpack","Saving and sharing results","Compiling the Sphinx documentation locally","src1d default routines","src default routines","Testing your installation","Condensed Table of Contents","Topography data","Troubleshooting","Some sources of tsunami data","User files required for the Fortran code","Plotting with VisIt","Clawpack Virtual Machine","Wave-propagation 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,xlf:87,xlim:94,xlimit:[0,32,94],xll:94,xllcenter:94,xllcorner:115,xlow:50,xlower:[0,3,12,19,22,61,94,106,108,115,118],xlowerg:61,xmax:0,xmin:0,xpoint:107,xrang:82,xtick:35,xupper:[0,19,94,106,108],xxdiff:96,xxxx:44,xyz03:94,xzvf:39,year:[4,13,19,77,97],yellow:[54,65],yellow_red_blu:54,yes:44,yet:[1,10,17,34,53,86,104,106,120],yianni:58,yield:3,yleft:[105,106],ylim:94,ylimit:[0,32,94,103],yllcenter:94,yllcorner:115,ylow:50,ylower:[3,19,22,61,94,106,115],ylowerg:61,ymax:0,ymin:0,yml:96,yong:13,you:[0,3,4,10,11,12,14,16,17,19,20,22,23,26,28,29,32,36,37,38,39,41,44,45,46,47,48,49,50,51,52,53,54,56,58,60,61,62,63,65,66,67,68,69,71,72,74,77,78,80,81,82,83,86,87,88,89,90,92,94,98,99,101,102,103,106,107,108,109,110,111,112,115,116,117,118,120],your:[5,11,12,16,17,21,26,29,32,36,38,45,46,49,53,54,56,58,59,60,61,62,65,66,67,69,71,72,76,77,84,89,90,92,93,94,95,98,102,111,112,115,116,118],yourdomain:[65,68],yourself:[29,32,47,64,68],ypoint:107,yum:65,yupper:[19,94,106],yuri:65,zaytsev:65,zero:[3,12,29,44,60,82,83,88,90,101],zip:9,zlower:19,zone:[34,105,106],zoom:94,zsh:80,zupper:19,zxvf:94},titles:["ClawPlotAxes","ClawPlotData","ClawPlotFigure","ClawPlotItem","About this software","Adaptive mesh refinement (AMR) algorithms","AMRClaw","AMRClaw for 1d problems","Application documentation","Clawpack Applications repository","Amazon Web Services EC2 Clawpack AMI","b4step default routines","Boundary conditions","Bibliography","Examples from the book FVMHP","Recent changes \u2014 release notes","Converting from Clawpack 4.3 to 4.6","Converting from Clawpack 4.6 to 5.0","Clawpack 4.x links","Changes in Clawpack 5.0","Clawpack components","Full Table of Contents","current_data","Developers\u2019 Guide","Fixed grid monitoring","Fixed grid output","Running an example","Flagging cells for adaptive refinement","Fortran version","Fortran Compilers","FVMHP book","Galleries of all Clawpack applications","Gauges","GeoClaw","Cautionary Hints on using GeoClaw","GeoClaw plotting tools","git resources","Keeping track of git versions","Guide for updating this documentation","Installation instructions","License","Clawpack Makefiles","Manning friction term","The mapc2p function","Plotting using Matlab","Using NetCDF output","Creating a new application directory","IPython notebook examples","Earthquake sources: Fault slip and the Okada model","Using OpenMP","Output data formats","Which Clawpack solver should I use?","Plotting examples","Visclaw Plotting options","Plotting hints and FAQ","Plotting routines for GeoClaw","Plotting options in Python","Previous versions of Clawpack","About PyClaw","PyClaw Basics","Understanding Pyclaw Classes","Porting a problem from Clawpack 4.6.x to PyClaw","Running PyClaw in the cloud","Pyclaw Controller Class","Development workflow","Installing and configuring git","git resources","Maintainer workflow","Contributing to PyClaw code development","General information for developers","Pyclaw Limiters","Working with PyClaw\u2019s built-in examples","Information for developers","Future work","Building the PyClaw gallery locally","PyClaw Geometry","Going Further","Pyclaw","Pyclaw Input/Output Package","Advanced output options","Running in parallel","Plotting PyClaw results","Setting up your own problem","Riemann Solver Package","Conventions for coding and documenting PyClaw","PyClaw Solutions","Using PyClaw\u2019s solvers: Classic and SharpClaw","Installing PyClaw","PyClaw State","Troubleshooting","PyClaw tutorial: Solve the acoustics equations","Pyclaw Utility Module","Python Hints","qinit default routines","Quick start guide for tsunami modeling","AMR refinement criteria","Regression testing","Release 5.0.0","Release 5.1.0","Checkpointing and restarting","Riemann solvers","Setting sealevel","setaux default routines","Using setplot.py to specify the desired plots","Specifying classic run-time parameters in setrun.py","Specifying AMRClaw run-time parameters in setrun.py","Sample setrun.py module for AMRClaw","Specifying GeoClaw parameters in setrun.py","Sample setrun.py module for classic Clawpack","Saving and sharing results","Compiling the Sphinx documentation locally","src1d default routines","src default routines","Testing your installation","Condensed Table of Contents","Topography data","Troubleshooting","Some sources of tsunami data","User files required for the Fortran code","Plotting with VisIt","Clawpack Virtual Machine","Wave-propagation 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            (an ocean at rest remains at rest).

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            @@ -104,7 +104,7 @@

            Navigation

            with latitude when coordinate_system == 2).

            $CLAW/geoclaw/src/2d/shallow/b4step2.f90:

            -

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            +

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            diff --git a/v5.2.x/galleries.html b/v5.2.x/galleries.html index 8540248bf..d02afe637 100644 --- a/v5.2.x/galleries.html +++ b/v5.2.x/galleries.html @@ -85,19 +85,19 @@

            Navigation

            Galleries of all Clawpack applications

            See also IPython notebook examples.

            -

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            +

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            +

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            +

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            -

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            +

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            diff --git a/v5.2.x/genindex.html b/v5.2.x/genindex.html index 8da5a9490..931ff8d40 100644 --- a/v5.2.x/genindex.html +++ b/v5.2.x/genindex.html @@ -109,6 +109,8 @@

            A

             
            + c
            + clawpack +
                + clawpack.riemann.acoustics_1D_py +
                + clawpack.riemann.advection_1D_py +
                + clawpack.riemann.burgers_1D_py +
                + clawpack.riemann.euler_1D_py +
                + clawpack.riemann.shallow_1D_py +
             
            p
            pyclaw
                pyclaw.limiters.tvd
                pyclaw.util diff --git a/v5.1.x/pyclaw/examples.html b/v5.1.x/pyclaw/examples.html index 7d74c6e11..2678bf0db 100644 --- a/v5.1.x/pyclaw/examples.html +++ b/v5.1.x/pyclaw/examples.html @@ -136,47 +136,47 @@

            From the command lineList of built-in examples

            You can see results from many of the examples in the Galleries of all Clawpack applications.

            -

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            +

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            +

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            +

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            +

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            +

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            +

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            +

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            diff --git a/v5.1.x/pyclaw/geometry.html b/v5.1.x/pyclaw/geometry.html index 871f93129..2e0ce48ea 100644 --- a/v5.1.x/pyclaw/geometry.html +++ b/v5.1.x/pyclaw/geometry.html @@ -619,10 +619,120 @@

            Parallel Geometry Objects

            -

            petclaw.geometry.Domain

            +

            petclaw.geometry.Domain

            +
            +
            +class petclaw.geometry.Domain(geom)
            +

            Bases: clawpack.pyclaw.geometry.Domain

            +

            Parallel Domain Class

            +

            Parent Class Documentation:

            +

            2D Classic (Clawpack) solver.

            +

            Solve using the wave propagation algorithms of Randy LeVeque’s +Clawpack code (www.clawpack.org).

            +

            In addition to the attributes of ClawSolver1D, ClawSolver2D +also has the following options:

            +
            +
            +dimensional_split
            +

            If True, use dimensional splitting (Godunov splitting). +Dimensional splitting with Strang splitting is not supported +at present but could easily be enabled if necessary. +If False, use unsplit Clawpack algorithms, possibly including +transverse Riemann solves.

            +
            + +
            +
            +transverse_waves
            +

            If dimensional_split is True, this option has no effect. If +dimensional_split is False, then transverse_waves should be one of +the following values:

            +

            ClawSolver2D.no_trans: Transverse Riemann solver +not used. The stable CFL for this algorithm is 0.5. Not recommended.

            +

            ClawSolver2D.trans_inc: Transverse increment waves are computed +and propagated.

            +

            ClawSolver2D.trans_cor: Transverse increment waves and transverse +correction waves are computed and propagated.

            +
            + +

            Note that only the fortran routines are supported for now in 2D.

            +

            Parent Class Documentation:

            +

            Generic classic Clawpack solver

            +

            All Clawpack solvers inherit from this base class.

            +
            +
            +mthlim
            +

            Limiter(s) to be used. Specified either as one value or a list. +If one value, the specified limiter is used for all wave families. +If a list, the specified values indicate which limiter to apply to +each wave family. Take a look at pyclaw.limiters.tvd for an enumeration. +Default = limiters.tvd.minmod

            +
            + +
            +
            +order
            +

            Order of the solver, either 1 for first order (i.e., Godunov’s method) +or 2 for second order (Lax-Wendroff-LeVeque). +Default = 2

            +
            + +
            +
            +source_split
            +

            Which source splitting method to use: 1 for first +order Godunov splitting and 2 for second order Strang splitting. +Default = 1

            +
            + +
            +
            +fwave
            +

            Whether to split the flux jump (rather than the jump in Q) into waves; +requires that the Riemann solver performs the splitting. +Default = False

            +
            + +
            +
            +step_source
            +

            Handle for function that evaluates the source term. +The required signature for this function is:

            +

            def step_source(solver,state,dt)

            +
            + +
            +
            +kernel_language
            +

            Specifies whether to use wrapped Fortran routines (‘Fortran’) +or pure Python (‘Python’). Default = 'Fortran'.

            +
            + +
            +
            +verbosity
            +

            The level of detail of logged messages from the Fortran solver. +Default = 0.

            +
            + +
            +
            -

            petclaw.geometry.Patch

            +

            petclaw.geometry.Patch

            +
            +
            +class petclaw.geometry.Patch(dimensions)
            +

            Bases: clawpack.pyclaw.geometry.Patch

            +

            Parallel Patch class.

            +

            Parent Class Documentation:

            +
            +
            Global Patch information
            +

            Each patch has a value for level and patch_index.

            +
            +
            +
            +

            diff --git a/v5.1.x/pyclaw/index.html b/v5.1.x/pyclaw/index.html index fc6dae00c..48c07de70 100644 --- a/v5.1.x/pyclaw/index.html +++ b/v5.1.x/pyclaw/index.html @@ -116,7 +116,7 @@

            PyClaw is:

            PyClaw Documentation

            -

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            +

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            diff --git a/v5.1.x/pyclaw/rp.html b/v5.1.x/pyclaw/rp.html index a34d27b9c..c841f6177 100644 --- a/v5.1.x/pyclaw/rp.html +++ b/v5.1.x/pyclaw/rp.html @@ -163,18 +163,328 @@

            Navigation

            Acoustics

            +

            Riemann solvers for constant coefficient acoustics.

            +
            +\[q_t + A q_x = 0\]
            +

            where

            +
            +\[\begin{split}q(x,t) = \left [ \begin{array}{c} p(x,t) \\ u(x,t) \end{array} \right ]\end{split}\]
            +

            and the coefficient matrix is

            +
            +\[\begin{split}A = \left [\begin{matrix} +0 & K\\ +1/\rho & 0 +\end{matrix} \right ]\end{split}\]
            +

            The parameters \(\rho =\) density and \(K =\) bulk modulus are used +to calculate the impedence \(= Z\) and speed of sound = c.

            +
            +
            Authors
            +

            Kyle T. Mandli (2009-02-03): Initial version

            +
            +
            +
            +
            +clawpack.riemann.acoustics_1D_py.acoustics_1D(q_l, q_r, aux_l, aux_r, problem_data)
            +

            Basic 1d acoustics riemann solver, with interleaved arrays

            +
            +
            problem_data is expected to contain -
              +

            • zz - (float) Impedence

              • +

            • cc - (float) Speed of sound

              • +
            +
            +
            +

            See Riemann Solver Package for more details.

            +
            +
            Version
            +

            1.0 (2009-02-03)

            +
            +
            +
            +

            Advection

            +

            Simple advection Riemann solvers

            +

            Basic advection Riemann solvers of the form (1d)

            +
            +\[q_t + A q_x = 0.\]
            +
            +
            Authors
            +

            Kyle T. Mandli (2008-2-20): Initial version

            +
            +
            +
            +
            +clawpack.riemann.advection_1D_py.advection_1D(q_l, q_r, aux_l, aux_r, problem_data)
            +

            Basic 1d advection riemann solver

            +
            +
            problem_data should contain -
              +

            • u - (float) Determines advection speed

              • +
            +
            +
            +

            See Riemann Solver Package for more details.

            +
            +
            Version
            +

            1.0 (2008-2-20)

            +
            +
            +
            +

            Burgers Equation

            +

            Riemann solvers for Burgers equation

            +
            +\[u_t + \left ( \frac{1}{2} u^2 \right)_x = 0\]
            +
            +
            Authors
            +

            Kyle T. Mandli (2009-2-4): Initial version

            +
            +
            +
            +
            +clawpack.riemann.burgers_1D_py.burgers_1D(q_l, q_r, aux_l, aux_r, problem_data)
            +

            Riemann solver for Burgers equation in 1d

            +
            +
            problem_data should contain -
              +

            • efix - (bool) Whether a entropy fix should be used, if not present, +false is assumed

              • +
            +
            +
            +

            See Riemann Solver Package for more details.

            +
            +
            Version
            +

            1.0 (2009-2-4)

            +
            +
            +
            +

            Euler Equations

            +

            Riemann solvers for the Euler equations

            +

            This module contains Riemann solvers for the Euler equations which have the +form (in 1d):

            +
            +\[q_t + f(q)_x = 0\]
            +

            where

            +
            +\[\begin{split}q(x,t) = \left [ \begin{array}{c} \rho \\ \rho u \\ E \end{array} \right ],\end{split}\]
            +

            the flux function is

            +
            +\[\begin{split}f(q) = \left [ \begin{array}{c} \rho u \\ \rho u^2 + p \\ u(E+p) \end{array}\right ].\end{split}\]
            +

            and \(\rho\) is the density, \(u\) the velocity, \(E\) is the +energy and \(p\) is the pressure.

            +

            Unless otherwise noted, the ideal gas equation of state is used:

            +
            +\[E = (\gamma - 1) \left (E - \frac{1}{2}\rho u^2 \right)\]
            +
            +
            +clawpack.riemann.euler_1D_py.euler_exact_1D(q_l, q_r, aux_l, aux_r, problem_data)
            +

            Exact euler Riemann solver

            +
            +

            Warning

            +

            This solver has not been implemented.

            +
            +
            + +
            +
            +clawpack.riemann.euler_1D_py.euler_hll_1D(q_l, q_r, aux_l, aux_r, problem_data)
            +

            HLL euler solver

            +
            W_1 = Q_hat - Q_l    s_1 = min(u_l-c_l,u_l+c_l,lambda_roe_1,lambda_roe_2)
+W_2 = Q_r - Q_hat    s_2 = max(u_r-c_r,u_r+c_r,lambda_roe_1,lambda_roe_2)
+
+Q_hat = ( f(q_r) - f(q_l) - s_2 * q_r + s_1 * q_l ) / (s_1 - s_2)
+
            +
            +
            +
            problem_data should contain:
              +

            • gamma - (float) Ratio of the heat capacities

              • +

            • gamma1 - (float) \(1 - \gamma\)

              • +
            +
            +
            +
            +
            Version
            +

            1.0 (2014-03-04)

            +
            +
            +
            + +
            +
            +clawpack.riemann.euler_1D_py.euler_hllc_1D(q_l, q_r, aux_l, aux_r, problem_data)
            +

            HLLC Euler solver

            +
            W_1 = q_hat_l - q_l      s_1 = min(u_l-c_l,u_l+c_l,lambda_roe_1,lambda_roe_2)
+W_2 = q_hat_r - q_hat_l  s_2 = s_m
+W_3 = q_r - q_hat_r      s_3 = max(u_r-c_r,u_r+c_r,lambda_roe_1,lambda_roe_2)
+s_m = (p_r - p_l + rho_l*u_l*(s_l - u_l) - rho_r*u_r*(s_r - u_r))\
+  / (rho_l*(s_l-u_l) - rho_r*(s_r - u_r))
+
            +
            +

            left middle state:

            +
            q_hat_l[0,:] = rho_l*(s_l - u_l)/(s_l - s_m)
+q_hat_l[1,:] = rho_l*(s_l - u_l)/(s_l - s_m)*s_m
+q_hat_l[2,:] = rho_l*(s_l - u_l)/(s_l - s_m)\
+        *(E_l/rho_l + (s_m - u_l)*(s_m + p_l/(rho_l*(s_l - u_l))))
+
            +
            +

            right middle state:

            +
            q_hat_r[0,:] = rho_r*(s_r - u_r)/(s_r - s_m)
+q_hat_r[1,:] = rho_r*(s_r - u_r)/(s_r - s_m)*s_m
+q_hat_r[2,:] = rho_r*(s_r - u_r)/(s_r - s_m)\
+        *(E_r/rho_r + (s_m - u_r)*(s_m + p_r/(rho_r*(s_r - u_r))))
+
            +
            +

            problem_data should contain:

            +
            +
              +

            • gamma: (float) Ratio of specific heat capacities

              • +

            • gamma1: (float) \(\gamma - 1\)

              • +
            +
            +

            :Version 1.0 (2015-11-18)

            +
            + +
            +
            +clawpack.riemann.euler_1D_py.euler_roe_1D(q_l, q_r, aux_l, aux_r, problem_data)
            +

            Roe Euler solver in 1d

            +
            +
            aug_global should contain -
              +

            • gamma - (float) Ratio of the heat capacities

              • +

            • gamma1 - (float) \(1 - \gamma\)

              • +

            • efix - (bool) Whether to use an entropy fix or not

              • +
            +
            +
            +

            See Riemann Solver Package for more details.

            +
            +
            Version
            +

            1.0 (2009-6-26)

            +
            +
            +
            +

            Shallow Water Equations

            +

            Riemann solvers for the shallow water equations.

            +
            +
            The available solvers are:
              +

            • Roe - Use Roe averages to caluclate the solution to the Riemann problem

              • +

            • HLL - Use a HLL solver

              • +
            • +
              Exact - Use a newton iteration to calculate the exact solution to the

              Riemann problem

              +
              +
              +
              • +
            +
            +
            +
            +\[q_t + f(q)_x = 0\]
            +

            where

            +
            +\[\begin{split}q(x,t) = \left [ \begin{array}{c} h \\ h u \end{array} \right ],\end{split}\]
            +

            the flux function is

            +
            +\[\begin{split}f(q) = \left [ \begin{array}{c} h u \\ hu^2 + 1/2 g h^2 \end{array}\right ].\end{split}\]
            +

            and \(h\) is the water column height, \(u\) the velocity and \(g\) +is the gravitational acceleration.

            +
            +
            +clawpack.riemann.shallow_1D_py.shallow_exact_1D(q_l, q_r, aux_l, aux_r, problem_data)
            +

            Exact shallow water Riemann solver

            +
            +

            Warning

            +

            This solver has not been implemented.

            +
            +
            + +
            +
            +clawpack.riemann.shallow_1D_py.shallow_fwave_1d(q_l, q_r, aux_l, aux_r, problem_data)
            +

            Shallow water Riemann solver using fwaves

            +

            Also includes support for bathymetry but be wary if you think you might have +dry states as this has not been tested.

            +
            +
            problem_data should contain:
              +

            • grav - (float) Gravitational constant

              • +

            • dry_tolerance - (float) Set velocities to zero if h is below this +tolerance.

              • +

            • sea_level - (float) Datum from which the dry-state is calculated.

              • +
            +
            +
            +
            +
            Version
            +

            1.0 (2014-09-05)

            +
            +
            Version
            +

            2.0 (2017-03-07)

            +
            +
            +
            + +
            +
            +clawpack.riemann.shallow_1D_py.shallow_hll_1D(q_l, q_r, aux_l, aux_r, problem_data)
            +

            HLL shallow water solver

            +
            W_1 = Q_hat - Q_l    s_1 = min(u_l-c_l,u_l+c_l,lambda_roe_1,lambda_roe_2)
+W_2 = Q_r - Q_hat    s_2 = max(u_r-c_r,u_r+c_r,lambda_roe_1,lambda_roe_2)
+
+Q_hat = ( f(q_r) - f(q_l) - s_2 * q_r + s_1 * q_l ) / (s_1 - s_2)
+
            +
            +
            +
            problem_data should contain:
              +

            • g - (float) Gravitational constant

              • +
            +
            +
            +
            +
            Version
            +

            1.0 (2009-02-05)

            +
            +
            +
            + +
            +
            +clawpack.riemann.shallow_1D_py.shallow_roe_1D(q_l, q_r, aux_l, aux_r, problem_data)
            +

            Roe shallow water solver in 1d:

            +
            ubar = (sqrt(u_l) + sqrt(u_r)) / (sqrt(h_l) + sqrt(h_r))
+cbar = sqrt( 0.5 * g * (h_l + h_r))
+
+W_1 = |      1      |  s_1 = ubar - cbar
+      | ubar - cbar |
+
+W_2 = |      1      |  s_1 = ubar + cbar
+      | ubar + cbar |
+
+a1 = 0.5 * ( - delta_hu + (ubar + cbar) * delta_h ) / cbar
+a2 = 0.5 * (   delta_hu - (ubar - cbar) * delta_h ) / cbar
+
            +
            +
            +
            problem_data should contain:
              +

            • g - (float) Gravitational constant

              • +

            • efix - (bool) Boolean as to whether a entropy fix should be used, if +not present, false is assumed

              • +
            +
            +
            +
            +
            Version
            +

            1.0 (2009-02-05)

            +
            +
            +
            +
            diff --git a/v5.1.x/pyclaw/solution.html b/v5.1.x/pyclaw/solution.html index ad255a1c3..a965e9366 100644 --- a/v5.1.x/pyclaw/solution.html +++ b/v5.1.x/pyclaw/solution.html @@ -116,10 +116,10 @@

            Navigation

            petclaw.state.State

            pyclaw.geometry.Domain

            petclaw.geometry.Domain

            petclaw.geometry.Domain

            pyclaw.geometry.Patch

            petclaw.geometry.Patch

            petclaw.geometry.Patch

            pyclaw.geometry.Grid
            - +
            @@ -196,11 +202,21 @@

            C

          • clawpack.geoclaw.kmltools (module)
            • -
          - +
          • verbosity() (pyclaw.controller.Controller property) diff --git a/v5.2.x/geoclaw_util_module.html b/v5.2.x/geoclaw_util_module.html index 400f358dc..25d974437 100644 --- a/v5.2.x/geoclaw_util_module.html +++ b/v5.2.x/geoclaw_util_module.html @@ -105,7 +105,7 @@

            Navigation

            Note: If using this to initialize a radially-symmetric 2d velocity on the sphere based on a radial velocity U(r), symmetric about (x0, y0), set:

            -

            System Message: ERROR/3 (/Users/rjl/git/clawpack/clawpack/geoclaw/util.py:docstring of clawpack.geoclaw.util.bearing, line 9)

            +

            System Message: ERROR/3 (/Users/rjl/clawpack_src/clawpack_master/clawpack/geoclaw/util.py:docstring of clawpack.geoclaw.util.bearing, line 9)

            Unexpected indentation.

            diff --git a/v5.2.x/git_resources.html b/v5.2.x/git_resources.html index fdabb4da3..640b2bcc4 100644 --- a/v5.2.x/git_resources.html +++ b/v5.2.x/git_resources.html @@ -139,9 +139,9 @@

            Manual pages online`git status`_

          -

          System Message: SEVERE/4 (/var/folders/_s/dx0xgftn3_x04rdx0_w5nq7w0000gn/T/tmp8prh_j6r/5fcd911597685d99d94bee49a3dcea97a4bab85a/git_resources.rst, line 62)

          +

          System Message: SEVERE/4 (/var/folders/_s/dx0xgftn3_x04rdx0_w5nq7w0000gn/T/tmpp0jqt8z_/5fcd911597685d99d94bee49a3dcea97a4bab85a/git_resources.rst, line 62)

          Problems with “include” directive path: -InputError: [Errno 2] No such file or directory: ‘/var/folders/_s/dx0xgftn3_x04rdx0_w5nq7w0000gn/T/tmp8prh_j6r/5fcd911597685d99d94bee49a3dcea97a4bab85a/git_links.inc’.

          +InputError: [Errno 2] No such file or directory: ‘/var/folders/_s/dx0xgftn3_x04rdx0_w5nq7w0000gn/T/tmpp0jqt8z_/5fcd911597685d99d94bee49a3dcea97a4bab85a/git_links.inc’.

          .. include:: git_links.inc
          diff --git a/v5.2.x/kmltools_module.html b/v5.2.x/kmltools_module.html index b286bff37..bcd973216 100644 --- a/v5.2.x/kmltools_module.html +++ b/v5.2.x/kmltools_module.html @@ -103,6 +103,7 @@

          Navigation

        • topo2kml - create a kml outline for each topo grid specified in setrun

        • dtopo2kml - create a kml outline for each dtopo grid specified in setrun

        • fgmax2kml - create a kml outline for each fgmax grid specified in setrun

          • +

        • fgout2kml - create a kml outline for each fgout grid specified in setrun

        • make_input_data_kmls - make kml files for many things specified in setrun

        • pcolorcells_for_kml - version of pcolormesh with appropriate dpi and size

        • png2kml - create kml file wrapping a png figure to be viewed on GE

          • @@ -182,6 +183,28 @@

          Navigation

          +
          +
          +clawpack.geoclaw.kmltools.fgout2kml(rundata=None, fname='fgout_grids.kml', verbose=True, combined=False)
          +

          Create a KML box for each fgout grid specified for a GeoClaw run.

          +
          +
          Inputs
          +
            +

          • rundata - an object of class ClawRunData or None

            +

            If rundata==None, try to create based on executing function setrun +from the setrun.py file in the current directory.

            +
            • +

          • fname (str) - resulting kml file.

            • +

          • verbose (bool) - If True, print out info about each region found

            • +

          • combined (bool) - If True, combine into single kml file with +name given by fname. NOT YET IMPLEMENTED. +If False, fname is ignored and individual files are created for +each fgout grid.

            • +
          +
          +
          +
          +
          clawpack.geoclaw.kmltools.gauges2kml(rundata=None, fname='gauges.kml', verbose=True)
          @@ -329,7 +352,7 @@

          Navigation

          Internally the value dpi (dots per inch) for the png file is determined so that it is at least 16 and so that:

          -

          System Message: ERROR/3 (/Users/rjl/git/clawpack/clawpack/geoclaw/kmltools.py:docstring of clawpack.geoclaw.kmltools.pcolorcells_for_kml, line 36)

          +

          System Message: ERROR/3 (/Users/rjl/clawpack_src/clawpack_master/clawpack/geoclaw/kmltools.py:docstring of clawpack.geoclaw.kmltools.pcolorcells_for_kml, line 36)

          Unexpected indentation.

          @@ -337,7 +360,7 @@

          Navigation

          dpi * y_inches = dcp * y_cells

          -

          System Message: WARNING/2 (/Users/rjl/git/clawpack/clawpack/geoclaw/kmltools.py:docstring of clawpack.geoclaw.kmltools.pcolorcells_for_kml, line 38)

          +

          System Message: WARNING/2 (/Users/rjl/clawpack_src/clawpack_master/clawpack/geoclaw/kmltools.py:docstring of clawpack.geoclaw.kmltools.pcolorcells_for_kml, line 38)

          Block quote ends without a blank line; unexpected unindent.

          where x_cells, y_cells are the number of cells in each direction.

          @@ -347,14 +370,14 @@

          Navigation

          annotate the figure befor saving it as a png file, which should then be done with:

          -

          System Message: ERROR/3 (/Users/rjl/git/clawpack/clawpack/geoclaw/kmltools.py:docstring of clawpack.geoclaw.kmltools.pcolorcells_for_kml, line 46)

          +

          System Message: ERROR/3 (/Users/rjl/clawpack_src/clawpack_master/clawpack/geoclaw/kmltools.py:docstring of clawpack.geoclaw.kmltools.pcolorcells_for_kml, line 46)

          Unexpected indentation.

          plt.savefig(png_filename, transparent=True, dpi=kml_dpi)

          -

          System Message: WARNING/2 (/Users/rjl/git/clawpack/clawpack/geoclaw/kmltools.py:docstring of clawpack.geoclaw.kmltools.pcolorcells_for_kml, line 47)

          +

          System Message: WARNING/2 (/Users/rjl/clawpack_src/clawpack_master/clawpack/geoclaw/kmltools.py:docstring of clawpack.geoclaw.kmltools.pcolorcells_for_kml, line 47)

          Block quote ends without a blank line; unexpected unindent.

          The png_extent is needed in construcing a kml file to display the @@ -490,7 +513,7 @@

          Navigation

          -

          System Message: WARNING/2 (/Users/rjl/git/clawpack/clawpack/geoclaw/kmltools.py:docstring of clawpack.geoclaw.kmltools.topo2kmz, line 18)

          +

          System Message: WARNING/2 (/Users/rjl/clawpack_src/clawpack_master/clawpack/geoclaw/kmltools.py:docstring of clawpack.geoclaw.kmltools.topo2kmz, line 18)

          Field list ends without a blank line; unexpected unindent.

          If force_dry is an array of the same shape as topo.Z then another png diff --git a/v5.2.x/objects.inv b/v5.2.x/objects.inv index 963cd5566..c081a2090 100644 Binary files a/v5.2.x/objects.inv and b/v5.2.x/objects.inv differ diff --git a/v5.2.x/py-modindex.html b/v5.2.x/py-modindex.html index 941afc2be..daf605c94 100644 --- a/v5.2.x/py-modindex.html +++ b/v5.2.x/py-modindex.html @@ -114,6 +114,31 @@

          Python Module Index

              clawpack.geoclaw.util + + +     + clawpack.riemann.acoustics_1D_py + + + +     + clawpack.riemann.advection_1D_py + + + +     + clawpack.riemann.burgers_1D_py + + + +     + clawpack.riemann.euler_1D_py + + + +     + clawpack.riemann.shallow_1D_py +   p diff --git a/v5.2.x/pyclaw/examples.html b/v5.2.x/pyclaw/examples.html index a5da96581..66bb382e9 100644 --- a/v5.2.x/pyclaw/examples.html +++ b/v5.2.x/pyclaw/examples.html @@ -136,47 +136,47 @@

          From the command lineList of built-in examples

          You can see results from many of the examples in the Galleries of all Clawpack applications.

          -

          System Message: WARNING/2 (/var/folders/_s/dx0xgftn3_x04rdx0_w5nq7w0000gn/T/tmp8prh_j6r/5fcd911597685d99d94bee49a3dcea97a4bab85a/pyclaw/examples.rst, line 62)

          +

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          toctree glob pattern ‘gallery/*adv*’ didn’t match any documents

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          +

          System Message: WARNING/2 (/var/folders/_s/dx0xgftn3_x04rdx0_w5nq7w0000gn/T/tmpp0jqt8z_/5fcd911597685d99d94bee49a3dcea97a4bab85a/pyclaw/examples.rst, line 62)

          toctree glob pattern ‘gallery/*acoust*’ didn’t match any documents

          -

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          +

          System Message: WARNING/2 (/var/folders/_s/dx0xgftn3_x04rdx0_w5nq7w0000gn/T/tmpp0jqt8z_/5fcd911597685d99d94bee49a3dcea97a4bab85a/pyclaw/examples.rst, line 62)

          toctree glob pattern ‘gallery/*burg*’ didn’t match any documents

          -

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          +

          System Message: WARNING/2 (/var/folders/_s/dx0xgftn3_x04rdx0_w5nq7w0000gn/T/tmpp0jqt8z_/5fcd911597685d99d94bee49a3dcea97a4bab85a/pyclaw/examples.rst, line 62)

          toctree glob pattern ‘gallery/*shallow*’ didn’t match any documents

          -

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          +

          System Message: WARNING/2 (/var/folders/_s/dx0xgftn3_x04rdx0_w5nq7w0000gn/T/tmpp0jqt8z_/5fcd911597685d99d94bee49a3dcea97a4bab85a/pyclaw/examples.rst, line 62)

          toctree glob pattern ‘gallery/*blast*’ didn’t match any documents

          -

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          +

          System Message: WARNING/2 (/var/folders/_s/dx0xgftn3_x04rdx0_w5nq7w0000gn/T/tmpp0jqt8z_/5fcd911597685d99d94bee49a3dcea97a4bab85a/pyclaw/examples.rst, line 62)

          toctree glob pattern ‘gallery/*shock*’ didn’t match any documents

          -

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          +

          System Message: WARNING/2 (/var/folders/_s/dx0xgftn3_x04rdx0_w5nq7w0000gn/T/tmpp0jqt8z_/5fcd911597685d99d94bee49a3dcea97a4bab85a/pyclaw/examples.rst, line 62)

          toctree glob pattern ‘gallery/*psystem*’ didn’t match any documents

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          +

          System Message: WARNING/2 (/var/folders/_s/dx0xgftn3_x04rdx0_w5nq7w0000gn/T/tmpp0jqt8z_/5fcd911597685d99d94bee49a3dcea97a4bab85a/pyclaw/examples.rst, line 62)

          toctree glob pattern ‘gallery/*Rossby*’ didn’t match any documents

          -

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          +

          System Message: WARNING/2 (/var/folders/_s/dx0xgftn3_x04rdx0_w5nq7w0000gn/T/tmpp0jqt8z_/5fcd911597685d99d94bee49a3dcea97a4bab85a/pyclaw/examples.rst, line 62)

          toctree glob pattern ‘gallery/*dam*’ didn’t match any documents

          -

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          +

          System Message: WARNING/2 (/var/folders/_s/dx0xgftn3_x04rdx0_w5nq7w0000gn/T/tmpp0jqt8z_/5fcd911597685d99d94bee49a3dcea97a4bab85a/pyclaw/examples.rst, line 62)

          toctree contains reference to nonexisting document ‘pyclaw/gallery/kpp’

          -

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          +

          System Message: WARNING/2 (/var/folders/_s/dx0xgftn3_x04rdx0_w5nq7w0000gn/T/tmpp0jqt8z_/5fcd911597685d99d94bee49a3dcea97a4bab85a/pyclaw/examples.rst, line 62)

          toctree contains reference to nonexisting document ‘pyclaw/gallery/stegoton’

          diff --git a/v5.2.x/pyclaw/geometry.html b/v5.2.x/pyclaw/geometry.html index 7468ed6b5..3034f39f8 100644 --- a/v5.2.x/pyclaw/geometry.html +++ b/v5.2.x/pyclaw/geometry.html @@ -619,10 +619,120 @@

          Parallel Geometry Objects

          -

          petclaw.geometry.Domain

          +

          petclaw.geometry.Domain

          +
          +
          +class petclaw.geometry.Domain(geom)
          +

          Bases: clawpack.pyclaw.geometry.Domain

          +

          Parallel Domain Class

          +

          Parent Class Documentation:

          +

          2D Classic (Clawpack) solver.

          +

          Solve using the wave propagation algorithms of Randy LeVeque’s +Clawpack code (www.clawpack.org).

          +

          In addition to the attributes of ClawSolver1D, ClawSolver2D +also has the following options:

          +
          +
          +dimensional_split
          +

          If True, use dimensional splitting (Godunov splitting). +Dimensional splitting with Strang splitting is not supported +at present but could easily be enabled if necessary. +If False, use unsplit Clawpack algorithms, possibly including +transverse Riemann solves.

          +
          + +
          +
          +transverse_waves
          +

          If dimensional_split is True, this option has no effect. If +dimensional_split is False, then transverse_waves should be one of +the following values:

          +

          ClawSolver2D.no_trans: Transverse Riemann solver +not used. The stable CFL for this algorithm is 0.5. Not recommended.

          +

          ClawSolver2D.trans_inc: Transverse increment waves are computed +and propagated.

          +

          ClawSolver2D.trans_cor: Transverse increment waves and transverse +correction waves are computed and propagated.

          +
          + +

          Note that only the fortran routines are supported for now in 2D.

          +

          Parent Class Documentation:

          +

          Generic classic Clawpack solver

          +

          All Clawpack solvers inherit from this base class.

          +
          +
          +mthlim
          +

          Limiter(s) to be used. Specified either as one value or a list. +If one value, the specified limiter is used for all wave families. +If a list, the specified values indicate which limiter to apply to +each wave family. Take a look at pyclaw.limiters.tvd for an enumeration. +Default = limiters.tvd.minmod

          +
          + +
          +
          +order
          +

          Order of the solver, either 1 for first order (i.e., Godunov’s method) +or 2 for second order (Lax-Wendroff-LeVeque). +Default = 2

          +
          + +
          +
          +source_split
          +

          Which source splitting method to use: 1 for first +order Godunov splitting and 2 for second order Strang splitting. +Default = 1

          +
          + +
          +
          +fwave
          +

          Whether to split the flux jump (rather than the jump in Q) into waves; +requires that the Riemann solver performs the splitting. +Default = False

          +
          + +
          +
          +step_source
          +

          Handle for function that evaluates the source term. +The required signature for this function is:

          +

          def step_source(solver,state,dt)

          +
          + +
          +
          +kernel_language
          +

          Specifies whether to use wrapped Fortran routines (‘Fortran’) +or pure Python (‘Python’). Default = 'Fortran'.

          +
          + +
          +
          +verbosity
          +

          The level of detail of logged messages from the Fortran solver. +Default = 0.

          +
          + +
          +
          -

          petclaw.geometry.Patch

          +

          petclaw.geometry.Patch

          +
          +
          +class petclaw.geometry.Patch(dimensions)
          +

          Bases: clawpack.pyclaw.geometry.Patch

          +

          Parallel Patch class.

          +

          Parent Class Documentation:

          +
          +
          Global Patch information
          +

          Each patch has a value for level and patch_index.

          +
          +
          +
          +

        diff --git a/v5.2.x/pyclaw/index.html b/v5.2.x/pyclaw/index.html index bd4a54e65..40bed51f9 100644 --- a/v5.2.x/pyclaw/index.html +++ b/v5.2.x/pyclaw/index.html @@ -116,7 +116,7 @@

        PyClaw is:

        PyClaw Documentation

        -

        System Message: WARNING/2 (/var/folders/_s/dx0xgftn3_x04rdx0_w5nq7w0000gn/T/tmp8prh_j6r/5fcd911597685d99d94bee49a3dcea97a4bab85a/pyclaw/index.rst, line 42)

        +

        System Message: WARNING/2 (/var/folders/_s/dx0xgftn3_x04rdx0_w5nq7w0000gn/T/tmpp0jqt8z_/5fcd911597685d99d94bee49a3dcea97a4bab85a/pyclaw/index.rst, line 42)

        toctree contains reference to nonexisting document ‘pyclaw/gallery/gallery_all’

        diff --git a/v5.2.x/pyclaw/rp.html b/v5.2.x/pyclaw/rp.html index 65c2cea94..d3af9e4f0 100644 --- a/v5.2.x/pyclaw/rp.html +++ b/v5.2.x/pyclaw/rp.html @@ -163,18 +163,328 @@

        Navigation

        Acoustics

        +

        Riemann solvers for constant coefficient acoustics.

        +
        +\[q_t + A q_x = 0\]
        +

        where

        +
        +\[\begin{split}q(x,t) = \left [ \begin{array}{c} p(x,t) \\ u(x,t) \end{array} \right ]\end{split}\]
        +

        and the coefficient matrix is

        +
        +\[\begin{split}A = \left [\begin{matrix} +0 & K\\ +1/\rho & 0 +\end{matrix} \right ]\end{split}\]
        +

        The parameters \(\rho =\) density and \(K =\) bulk modulus are used +to calculate the impedence \(= Z\) and speed of sound = c.

        +
        +
        Authors
        +

        Kyle T. Mandli (2009-02-03): Initial version

        +
        +
        +
        +
        +clawpack.riemann.acoustics_1D_py.acoustics_1D(q_l, q_r, aux_l, aux_r, problem_data)
        +

        Basic 1d acoustics riemann solver, with interleaved arrays

        +
        +
        problem_data is expected to contain -
          +

        • zz - (float) Impedence

          • +

        • cc - (float) Speed of sound

          • +
        +
        +
        +

        See Riemann Solver Package for more details.

        +
        +
        Version
        +

        1.0 (2009-02-03)

        +
        +
        +
        +

        Advection

        +

        Simple advection Riemann solvers

        +

        Basic advection Riemann solvers of the form (1d)

        +
        +\[q_t + A q_x = 0.\]
        +
        +
        Authors
        +

        Kyle T. Mandli (2008-2-20): Initial version

        +
        +
        +
        +
        +clawpack.riemann.advection_1D_py.advection_1D(q_l, q_r, aux_l, aux_r, problem_data)
        +

        Basic 1d advection riemann solver

        +
        +
        problem_data should contain -
          +

        • u - (float) Determines advection speed

          • +
        +
        +
        +

        See Riemann Solver Package for more details.

        +
        +
        Version
        +

        1.0 (2008-2-20)

        +
        +
        +
        +

        Burgers Equation

        +

        Riemann solvers for Burgers equation

        +
        +\[u_t + \left ( \frac{1}{2} u^2 \right)_x = 0\]
        +
        +
        Authors
        +

        Kyle T. Mandli (2009-2-4): Initial version

        +
        +
        +
        +
        +clawpack.riemann.burgers_1D_py.burgers_1D(q_l, q_r, aux_l, aux_r, problem_data)
        +

        Riemann solver for Burgers equation in 1d

        +
        +
        problem_data should contain -
          +

        • efix - (bool) Whether a entropy fix should be used, if not present, +false is assumed

          • +
        +
        +
        +

        See Riemann Solver Package for more details.

        +
        +
        Version
        +

        1.0 (2009-2-4)

        +
        +
        +
        +

        Euler Equations

        +

        Riemann solvers for the Euler equations

        +

        This module contains Riemann solvers for the Euler equations which have the +form (in 1d):

        +
        +\[q_t + f(q)_x = 0\]
        +

        where

        +
        +\[\begin{split}q(x,t) = \left [ \begin{array}{c} \rho \\ \rho u \\ E \end{array} \right ],\end{split}\]
        +

        the flux function is

        +
        +\[\begin{split}f(q) = \left [ \begin{array}{c} \rho u \\ \rho u^2 + p \\ u(E+p) \end{array}\right ].\end{split}\]
        +

        and \(\rho\) is the density, \(u\) the velocity, \(E\) is the +energy and \(p\) is the pressure.

        +

        Unless otherwise noted, the ideal gas equation of state is used:

        +
        +\[E = (\gamma - 1) \left (E - \frac{1}{2}\rho u^2 \right)\]
        +
        +
        +clawpack.riemann.euler_1D_py.euler_exact_1D(q_l, q_r, aux_l, aux_r, problem_data)
        +

        Exact euler Riemann solver

        +
        +

        Warning

        +

        This solver has not been implemented.

        +
        +
        + +
        +
        +clawpack.riemann.euler_1D_py.euler_hll_1D(q_l, q_r, aux_l, aux_r, problem_data)
        +

        HLL euler solver

        +
        W_1 = Q_hat - Q_l    s_1 = min(u_l-c_l,u_l+c_l,lambda_roe_1,lambda_roe_2)
+W_2 = Q_r - Q_hat    s_2 = max(u_r-c_r,u_r+c_r,lambda_roe_1,lambda_roe_2)
+
+Q_hat = ( f(q_r) - f(q_l) - s_2 * q_r + s_1 * q_l ) / (s_1 - s_2)
+
        +
        +
        +
        problem_data should contain:
          +

        • gamma - (float) Ratio of the heat capacities

          • +

        • gamma1 - (float) \(1 - \gamma\)

          • +
        +
        +
        +
        +
        Version
        +

        1.0 (2014-03-04)

        +
        +
        +
        + +
        +
        +clawpack.riemann.euler_1D_py.euler_hllc_1D(q_l, q_r, aux_l, aux_r, problem_data)
        +

        HLLC Euler solver

        +
        W_1 = q_hat_l - q_l      s_1 = min(u_l-c_l,u_l+c_l,lambda_roe_1,lambda_roe_2)
+W_2 = q_hat_r - q_hat_l  s_2 = s_m
+W_3 = q_r - q_hat_r      s_3 = max(u_r-c_r,u_r+c_r,lambda_roe_1,lambda_roe_2)
+s_m = (p_r - p_l + rho_l*u_l*(s_l - u_l) - rho_r*u_r*(s_r - u_r))\
+  / (rho_l*(s_l-u_l) - rho_r*(s_r - u_r))
+
        +
        +

        left middle state:

        +
        q_hat_l[0,:] = rho_l*(s_l - u_l)/(s_l - s_m)
+q_hat_l[1,:] = rho_l*(s_l - u_l)/(s_l - s_m)*s_m
+q_hat_l[2,:] = rho_l*(s_l - u_l)/(s_l - s_m)\
+        *(E_l/rho_l + (s_m - u_l)*(s_m + p_l/(rho_l*(s_l - u_l))))
+
        +
        +

        right middle state:

        +
        q_hat_r[0,:] = rho_r*(s_r - u_r)/(s_r - s_m)
+q_hat_r[1,:] = rho_r*(s_r - u_r)/(s_r - s_m)*s_m
+q_hat_r[2,:] = rho_r*(s_r - u_r)/(s_r - s_m)\
+        *(E_r/rho_r + (s_m - u_r)*(s_m + p_r/(rho_r*(s_r - u_r))))
+
        +
        +

        problem_data should contain:

        +
        +
          +

        • gamma: (float) Ratio of specific heat capacities

          • +

        • gamma1: (float) \(\gamma - 1\)

          • +
        +
        +

        :Version 1.0 (2015-11-18)

        +
        + +
        +
        +clawpack.riemann.euler_1D_py.euler_roe_1D(q_l, q_r, aux_l, aux_r, problem_data)
        +

        Roe Euler solver in 1d

        +
        +
        aug_global should contain -
          +

        • gamma - (float) Ratio of the heat capacities

          • +

        • gamma1 - (float) \(1 - \gamma\)

          • +

        • efix - (bool) Whether to use an entropy fix or not

          • +
        +
        +
        +

        See Riemann Solver Package for more details.

        +
        +
        Version
        +

        1.0 (2009-6-26)

        +
        +
        +
        +

        Shallow Water Equations

        +

        Riemann solvers for the shallow water equations.

        +
        +
        The available solvers are:
          +

        • Roe - Use Roe averages to caluclate the solution to the Riemann problem

          • +

        • HLL - Use a HLL solver

          • +
        • +
          Exact - Use a newton iteration to calculate the exact solution to the

          Riemann problem

          +
          +
          +
          • +
        +
        +
        +
        +\[q_t + f(q)_x = 0\]
        +

        where

        +
        +\[\begin{split}q(x,t) = \left [ \begin{array}{c} h \\ h u \end{array} \right ],\end{split}\]
        +

        the flux function is

        +
        +\[\begin{split}f(q) = \left [ \begin{array}{c} h u \\ hu^2 + 1/2 g h^2 \end{array}\right ].\end{split}\]
        +

        and \(h\) is the water column height, \(u\) the velocity and \(g\) +is the gravitational acceleration.

        +
        +
        +clawpack.riemann.shallow_1D_py.shallow_exact_1D(q_l, q_r, aux_l, aux_r, problem_data)
        +

        Exact shallow water Riemann solver

        +
        +

        Warning

        +

        This solver has not been implemented.

        +
        +
        + +
        +
        +clawpack.riemann.shallow_1D_py.shallow_fwave_1d(q_l, q_r, aux_l, aux_r, problem_data)
        +

        Shallow water Riemann solver using fwaves

        +

        Also includes support for bathymetry but be wary if you think you might have +dry states as this has not been tested.

        +
        +
        problem_data should contain:
          +

        • grav - (float) Gravitational constant

          • +

        • dry_tolerance - (float) Set velocities to zero if h is below this +tolerance.

          • +

        • sea_level - (float) Datum from which the dry-state is calculated.

          • +
        +
        +
        +
        +
        Version
        +

        1.0 (2014-09-05)

        +
        +
        Version
        +

        2.0 (2017-03-07)

        +
        +
        +
        + +
        +
        +clawpack.riemann.shallow_1D_py.shallow_hll_1D(q_l, q_r, aux_l, aux_r, problem_data)
        +

        HLL shallow water solver

        +
        W_1 = Q_hat - Q_l    s_1 = min(u_l-c_l,u_l+c_l,lambda_roe_1,lambda_roe_2)
+W_2 = Q_r - Q_hat    s_2 = max(u_r-c_r,u_r+c_r,lambda_roe_1,lambda_roe_2)
+
+Q_hat = ( f(q_r) - f(q_l) - s_2 * q_r + s_1 * q_l ) / (s_1 - s_2)
+
        +
        +
        +
        problem_data should contain:
          +

        • g - (float) Gravitational constant

          • +
        +
        +
        +
        +
        Version
        +

        1.0 (2009-02-05)

        +
        +
        +
        + +
        +
        +clawpack.riemann.shallow_1D_py.shallow_roe_1D(q_l, q_r, aux_l, aux_r, problem_data)
        +

        Roe shallow water solver in 1d:

        +
        ubar = (sqrt(u_l) + sqrt(u_r)) / (sqrt(h_l) + sqrt(h_r))
+cbar = sqrt( 0.5 * g * (h_l + h_r))
+
+W_1 = |      1      |  s_1 = ubar - cbar
+      | ubar - cbar |
+
+W_2 = |      1      |  s_1 = ubar + cbar
+      | ubar + cbar |
+
+a1 = 0.5 * ( - delta_hu + (ubar + cbar) * delta_h ) / cbar
+a2 = 0.5 * (   delta_hu - (ubar - cbar) * delta_h ) / cbar
+
        +
        +
        +
        problem_data should contain:
          +

        • g - (float) Gravitational constant

          • +

        • efix - (bool) Boolean as to whether a entropy fix should be used, if +not present, false is assumed

          • +
        +
        +
        +
        +
        Version
        +

        1.0 (2009-02-05)

        +
        +
        +
        +

        diff --git a/v5.2.x/pyclaw/solution.html b/v5.2.x/pyclaw/solution.html index 5ccb5807e..42105d6aa 100644 --- a/v5.2.x/pyclaw/solution.html +++ b/v5.2.x/pyclaw/solution.html @@ -116,10 +116,10 @@

        Navigation

        petclaw.state.State

        pyclaw.geometry.Domain

        -

        petclaw.geometry.Domain

        +

        petclaw.geometry.Domain

        pyclaw.geometry.Patch

        -

        petclaw.geometry.Patch

        +

        petclaw.geometry.Patch

        pyclaw.geometry.Grid

        @@ -215,7 +215,7 @@

        Navigation

        -read(frame, path='./_output', file_format='ascii', file_prefix=None, read_aux=True, options={}, **kargs)
        +read(frame, path='./_output', file_format=None, file_prefix='fort', read_aux=True, options={}, **kargs)

        Reads in a Solution object from a file

        Reads in and initializes this Solution with the data specified. This function will raise an IOError if it was unsuccessful.

        @@ -234,7 +234,8 @@

        Navigation

      • path - (string) Base path to the files to be read. default = './_output'

      • file_format - (string) Format of the file, should match on of the -modules inside of the io package. default = 'ascii'

        • +modules inside of the io package. default = None +but now attempts to read from header file (as of v5.9.0).

      • file_prefix - (string) Name prefix in front of all the files, defaults to whatever the format defaults to, e.g. fort for ascii

      • options - (dict) Dictionary of optional arguments dependent on diff --git a/v5.2.x/pyclaw/state.html b/v5.2.x/pyclaw/state.html index 739659e33..cd61b4413 100644 --- a/v5.2.x/pyclaw/state.html +++ b/v5.2.x/pyclaw/state.html @@ -92,7 +92,7 @@

        Navigation

        object also handles some of the parallel communication required of the state on the given patch such that only the parts of the fields local to the process. If you are interested in the geometry of the local state you can find it through the -Patch object’s reference to its own +Patch object’s reference to its own Grid.

        Serial pyclaw.state.State

        diff --git a/v5.2.x/python.html b/v5.2.x/python.html index 6fec94114..e4ef675b1 100644 --- a/v5.2.x/python.html +++ b/v5.2.x/python.html @@ -163,7 +163,7 @@

        References and tutorialsMatplotlib gallery

      • `LeVeque’s class notes

        -

        System Message: WARNING/2 (/var/folders/_s/dx0xgftn3_x04rdx0_w5nq7w0000gn/T/tmp8prh_j6r/5fcd911597685d99d94bee49a3dcea97a4bab85a/python.rst, line 96); backlink

        +

        System Message: WARNING/2 (/var/folders/_s/dx0xgftn3_x04rdx0_w5nq7w0000gn/T/tmpp0jqt8z_/5fcd911597685d99d94bee49a3dcea97a4bab85a/python.rst, line 96); backlink

        Inline interpreted text or phrase reference start-string without end-string.

        • diff --git a/v5.2.x/qinit_defaults.html b/v5.2.x/qinit_defaults.html index cc03f83e7..38491ce58 100644 --- a/v5.2.x/qinit_defaults.html +++ b/v5.2.x/qinit_defaults.html @@ -82,17 +82,17 @@

        Navigation

        the initial conditions as desired.

        $CLAW/classic/src/1d/qinit.f90:

        -

        System Message: WARNING/2 (/var/folders/_s/dx0xgftn3_x04rdx0_w5nq7w0000gn/T/tmp8prh_j6r/5fcd911597685d99d94bee49a3dcea97a4bab85a/qinit_defaults.rst, line 18)

        +

        System Message: WARNING/2 (/var/folders/_s/dx0xgftn3_x04rdx0_w5nq7w0000gn/T/tmpp0jqt8z_/5fcd911597685d99d94bee49a3dcea97a4bab85a/qinit_defaults.rst, line 18)

        Include file ‘/var/folders/_s/dx0xgftn3_x04rdx0_w5nq7w0000gn/T/classic/src/1d/qinit.f90’ not found or reading it failed

        $CLAW/classic/src/2d/qinit.f90:

        -

        System Message: WARNING/2 (/var/folders/_s/dx0xgftn3_x04rdx0_w5nq7w0000gn/T/tmp8prh_j6r/5fcd911597685d99d94bee49a3dcea97a4bab85a/qinit_defaults.rst, line 24)

        +

        System Message: WARNING/2 (/var/folders/_s/dx0xgftn3_x04rdx0_w5nq7w0000gn/T/tmpp0jqt8z_/5fcd911597685d99d94bee49a3dcea97a4bab85a/qinit_defaults.rst, line 24)

        Include file ‘/var/folders/_s/dx0xgftn3_x04rdx0_w5nq7w0000gn/T/classic/src/2d/qinit.f90’ not found or reading it failed

        $CLAW/classic/src/3d/qinit.f90:

        -

        System Message: WARNING/2 (/var/folders/_s/dx0xgftn3_x04rdx0_w5nq7w0000gn/T/tmp8prh_j6r/5fcd911597685d99d94bee49a3dcea97a4bab85a/qinit_defaults.rst, line 30)

        +

        System Message: WARNING/2 (/var/folders/_s/dx0xgftn3_x04rdx0_w5nq7w0000gn/T/tmpp0jqt8z_/5fcd911597685d99d94bee49a3dcea97a4bab85a/qinit_defaults.rst, line 30)

        Include file ‘/var/folders/_s/dx0xgftn3_x04rdx0_w5nq7w0000gn/T/classic/src/3d/qinit.f90’ not found or reading it failed

        @@ -103,7 +103,7 @@

        Navigation

        qinit data file parameters.

        $CLAW/geoclaw/src/2d/shallow/qinit.f90:

        -

        System Message: WARNING/2 (/var/folders/_s/dx0xgftn3_x04rdx0_w5nq7w0000gn/T/tmp8prh_j6r/5fcd911597685d99d94bee49a3dcea97a4bab85a/qinit_defaults.rst, line 47)

        +

        System Message: WARNING/2 (/var/folders/_s/dx0xgftn3_x04rdx0_w5nq7w0000gn/T/tmpp0jqt8z_/5fcd911597685d99d94bee49a3dcea97a4bab85a/qinit_defaults.rst, line 47)

        Include file ‘/var/folders/_s/dx0xgftn3_x04rdx0_w5nq7w0000gn/T/geoclaw/src/2d/shallow/qinit.f90’ not found or reading it failed

        diff --git a/v5.2.x/searchindex.js b/v5.2.x/searchindex.js index 0604c5297..6bfc2b323 100644 --- a/v5.2.x/searchindex.js +++ b/v5.2.x/searchindex.js @@ -1 +1 @@ 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73,79,83,88,95,98,107,109,110,121,126],wpalg:13,wrap:[43,62,65,90,95],wrapper:123,write:[25,40,46,54,55,57,64,67,68,69,71,72,76,79,80,83,84,89,98,112,114,123],write_:82,write_aux:[82,89],write_aux_alwai:[64,67],write_aux_init:[64,67],write_input_data:26,write_p:89,written:[5,8,25,30,43,44,54,55,58,62,68,82,83,86,96,110,111,112,113,114,123,126],wrong:[48,68,83],www:[4,10,13,25,41,44,49,62,65,66,81,84,98,123],x_cell:43,x_edg:43,x_i:[106,126,129],x_inch:43,x_mask:123,xarr:79,xarrai:123,xarray_d:123,xclaw:[28,67],xclawcmd:67,xclawerr:67,xclawout:67,xcode:42,xdir:67,xiaom:25,xleft:[111,112],xlf:91,xlimit:[0,34],xllcenter:98,xllcorner:121,xlow:54,xlower:[0,3,12,20,23,65,98,112,114,121,123,126],xlowerg:65,xmax:0,xmin:0,xpoint:113,xrang:86,xtick:38,xupper:[0,20,98,112,114,123],xxdiff:100,xxxx:48,xylim:25,xzvf:42,y_cell:43,y_edg:43,y_inch:43,year:[4,13,20,43,81,101],yellow:[43,58,69],yellow_red_blu:58,yes:48,yet:[1,10,18,37,43,57,90,110,112,128],yianni:62,yield:3,yleft:[111,112],ylimit:[0,34,109],yllcenter:98,yllcorner:121,ylow:54,ylower:[3,20,23,65,98,112,121,123],ylowerg:65,ymax:0,ymin:0,yml:100,yong:13,you:[0,3,4,10,11,12,14,16,17,18,20,21,23,24,26,28,30,31,34,36,39,40,41,42,43,45,48,49,50,51,52,53,54,55,56,57,58,60,62,64,65,66,67,69,70,71,72,73,75,76,78,81,82,83,84,85,86,90,91,92,93,94,96,98,102,105,107,108,109,112,113,114,115,116,117,118,121,124,125,126,128],your:[5,11,12,17,18,22,28,31,34,39,41,49,50,53,57,58,60,62,63,64,65,66,69,70,71,73,75,76,80,81,83,88,93,94,96,97,98,99,102,108,117,118,121,124,126],yourdomain:[69,72],yourself:[31,34,51,68,72],ypoint:113,yum:69,yupper:[20,98,112,123],yuri:69,z_format:123,zaytsev:69,zero:[3,12,25,31,43,48,64,86,92,94,107],zip:[9,98],zlim:43,zlower:20,zone:[37,43,111,112],zoom:98,zsh:84,zupper:20,zvar:123},titles:["ClawPlotAxes","ClawPlotData","ClawPlotFigure","ClawPlotItem","About this software","Adaptive mesh refinement (AMR) algorithms","AMRClaw","AMRClaw for 1d problems","Application documentation","Clawpack Applications repository","Amazon Web Services EC2 Clawpack AMI","b4step default routines","Boundary conditions","Bibliography","Examples from the book FVMHP","Recent changes \u2014 release notes","Changes to master since v5.2.1","Converting from Clawpack 4.3 to 4.6","Converting from Clawpack 4.6 to 5.0","Clawpack 4.x links","Changes in Clawpack 5.0","Clawpack components","Full Table of Contents","current_data","Developers\u2019 Guide","dtopotools module for moving topography","Fixed grid monitoring","Fixed grid output","Running an example","Flagging cells for adaptive refinement","Fortran version","Fortran Compilers","FVMHP book","Galleries of all Clawpack applications","Gauges","GeoClaw","geoclaw.util module of utility functions","Cautionary Hints on using GeoClaw","GeoClaw plotting tools","git resources","Keeping track of git versions","Guide for updating this documentation","Installation instructions","kmltools module of utility functions","License","Clawpack Makefiles","Manning friction term","The mapc2p function","Plotting using Matlab","Using NetCDF output","Creating a new application directory","IPython notebook examples","Earthquake sources: Fault slip and the Okada model","Using OpenMP","Output data formats","Which Clawpack solver should I use?","Plotting examples","Visclaw Plotting options","Plotting hints and FAQ","Plotting routines for GeoClaw","Plotting options in Python","Previous versions of Clawpack","About PyClaw","PyClaw Basics","Understanding Pyclaw Classes","Porting a problem from Clawpack 4.6.x to PyClaw","Running PyClaw in the cloud","Pyclaw Controller Class","Development workflow","Installing and configuring git","git resources","Maintainer workflow","Contributing to PyClaw code development","General information for developers","Pyclaw Limiters","Working with PyClaw\u2019s built-in examples","Information for developers","Future work","Building the PyClaw gallery locally","PyClaw Geometry","Going Further","Pyclaw","Pyclaw Input/Output Package","PyClaw output","Running in parallel","Plotting PyClaw results","Setting up your own problem","Riemann Solver Package","Conventions for coding and documenting PyClaw","PyClaw Solutions","Using PyClaw\u2019s solvers: Classic and SharpClaw","Installing PyClaw","PyClaw State","Troubleshooting","PyClaw tutorial: Solve the acoustics equations","Pyclaw Utility Module","Python Hints","qinit default routines","Quick start guide for tsunami modeling","AMR refinement criteria","Regression testing","Release 5.0.0","Release 5.1.0","Release 5.2.0","Release 5.2.1","Checkpointing and restarting","Riemann solvers","Setting sealevel","setaux default routines","Using setplot.py to specify the desired plots","Specifying classic run-time parameters in setrun.py","Specifying AMRClaw run-time parameters in setrun.py","Sample setrun.py module for AMRClaw","Specifying GeoClaw parameters in setrun.py","Sample setrun.py module for classic Clawpack","Saving and sharing results","Compiling the Sphinx documentation locally","src1d default routines","src default routines","Testing your installation","Condensed Table of Contents","Topography data","Python tools for working with topo and dtopo","topotools module for working with topography data","Troubleshooting","Some sources of tsunami data","User files required for the Fortran code","Plotting with VisIt","Clawpack Virtual Machine","Wave-propagation 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this software","Adaptive mesh refinement (AMR) algorithms","AMRClaw","AMRClaw for 1d problems","Application documentation","Clawpack Applications repository","Amazon Web Services EC2 Clawpack AMI","b4step default routines","Boundary conditions","Bibliography","Examples from the book FVMHP","Recent changes \u2014 release notes","Changes to master since v5.2.1","Converting from Clawpack 4.3 to 4.6","Converting from Clawpack 4.6 to 5.0","Clawpack 4.x links","Changes in Clawpack 5.0","Clawpack components","Full Table of Contents","current_data","Developers\u2019 Guide","dtopotools module for moving topography","Fixed grid monitoring","Fixed grid output","Running an example","Flagging cells for adaptive refinement","Fortran version","Fortran Compilers","FVMHP book","Galleries of all Clawpack applications","Gauges","GeoClaw","geoclaw.util module of utility functions","Cautionary Hints on using GeoClaw","GeoClaw plotting tools","git resources","Keeping track of git versions","Guide for updating this documentation","Installation instructions","kmltools module of utility functions","License","Clawpack Makefiles","Manning friction term","The mapc2p function","Plotting using Matlab","Using NetCDF output","Creating a new application directory","IPython notebook examples","Earthquake sources: Fault slip and the Okada model","Using OpenMP","Output data formats","Which Clawpack solver should I use?","Plotting examples","Visclaw Plotting options","Plotting hints and FAQ","Plotting routines for GeoClaw","Plotting options in Python","Previous versions of Clawpack","About PyClaw","PyClaw Basics","Understanding Pyclaw Classes","Porting a problem from Clawpack 4.6.x to PyClaw","Running PyClaw in the cloud","Pyclaw Controller Class","Development workflow","Installing and configuring git","git resources","Maintainer workflow","Contributing to PyClaw code development","General information for developers","Pyclaw Limiters","Working with PyClaw\u2019s built-in examples","Information for developers","Future work","Building the PyClaw gallery locally","PyClaw Geometry","Going Further","Pyclaw","Pyclaw Input/Output Package","PyClaw output","Running in parallel","Plotting PyClaw results","Setting up your own problem","Riemann Solver Package","Conventions for coding and documenting PyClaw","PyClaw Solutions","Using PyClaw\u2019s solvers: Classic and SharpClaw","Installing PyClaw","PyClaw State","Troubleshooting","PyClaw tutorial: Solve the acoustics equations","Pyclaw Utility Module","Python Hints","qinit default routines","Quick start guide for tsunami modeling","AMR refinement criteria","Regression testing","Release 5.0.0","Release 5.1.0","Release 5.2.0","Release 5.2.1","Checkpointing and restarting","Riemann solvers","Setting sealevel","setaux default routines","Using setplot.py to specify the desired plots","Specifying classic run-time parameters in setrun.py","Specifying AMRClaw run-time parameters in setrun.py","Sample setrun.py module for AMRClaw","Specifying GeoClaw parameters in setrun.py","Sample setrun.py module for classic Clawpack","Saving and sharing results","Compiling the Sphinx documentation locally","src1d default routines","src default routines","Testing your installation","Condensed Table of Contents","Topography data","Python tools for working with topo and dtopo","topotools module for working with topography data","Troubleshooting","Some sources of tsunami data","User files required for the Fortran code","Plotting with VisIt","Clawpack Virtual Machine","Wave-propagation 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        (an ocean at rest remains at rest).

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        see Using src1d for source terms with AMRClaw.

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        as needed. Remember to change to Makefile to point to the proper version.

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        $CLAW/classic/src/2d/b4step2.f90:

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        $CLAW/classic/src/3d/b4step3.f90:

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        with latitude when coordinate_system == 2).

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        Galleries of all Clawpack applications

        See also IPython notebook examples.

        -

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        +

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        toctree contains reference to nonexisting document ‘gallery/gallery_classic_amrclaw’

        -

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        +

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        toctree contains reference to nonexisting document ‘pyclaw/gallery/gallery_all’

        -

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        +

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        toctree contains reference to nonexisting document ‘gallery/gallery_geoclaw’

        -

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        +

        System Message: WARNING/2 (/var/folders/_s/dx0xgftn3_x04rdx0_w5nq7w0000gn/T/tmpp0jqt8z_/24e2c68df118c5a00b116198860c806cae4b064d/galleries.rst, line 10)

        toctree contains reference to nonexisting document ‘gallery/gallery_fvmbook’

        diff --git a/v5.3.x/genindex.html b/v5.3.x/genindex.html index 6fc959274..e3dff80a1 100644 --- a/v5.3.x/genindex.html +++ b/v5.3.x/genindex.html @@ -109,6 +109,8 @@

        A

        - +
        @@ -196,11 +202,21 @@

        C

      • clawpack.geoclaw.kmltools (module)
        • -
      - +
      • verbosity() (pyclaw.controller.Controller property) diff --git a/v5.3.x/geoclaw_util_module.html b/v5.3.x/geoclaw_util_module.html index ce33e9335..6f445b508 100644 --- a/v5.3.x/geoclaw_util_module.html +++ b/v5.3.x/geoclaw_util_module.html @@ -102,7 +102,7 @@

        Navigation

        Note: If using this to initialize a radially-symmetric 2d velocity on the sphere based on a radial velocity U(r), symmetric about (x0, y0), set:

        -

        System Message: ERROR/3 (/Users/rjl/git/clawpack/clawpack/geoclaw/util.py:docstring of clawpack.geoclaw.util.bearing, line 9)

        +

        System Message: ERROR/3 (/Users/rjl/clawpack_src/clawpack_master/clawpack/geoclaw/util.py:docstring of clawpack.geoclaw.util.bearing, line 9)

        Unexpected indentation.

        diff --git a/v5.3.x/kmltools_module.html b/v5.3.x/kmltools_module.html index b5520cefd..0f0a6725a 100644 --- a/v5.3.x/kmltools_module.html +++ b/v5.3.x/kmltools_module.html @@ -100,6 +100,7 @@

        Navigation

      • topo2kml - create a kml outline for each topo grid specified in setrun

      • dtopo2kml - create a kml outline for each dtopo grid specified in setrun

      • fgmax2kml - create a kml outline for each fgmax grid specified in setrun

        • +

      • fgout2kml - create a kml outline for each fgout grid specified in setrun

      • make_input_data_kmls - make kml files for many things specified in setrun

      • pcolorcells_for_kml - version of pcolormesh with appropriate dpi and size

      • png2kml - create kml file wrapping a png figure to be viewed on GE

        • @@ -179,6 +180,28 @@

        Navigation

        +
        +
        +clawpack.geoclaw.kmltools.fgout2kml(rundata=None, fname='fgout_grids.kml', verbose=True, combined=False)
        +

        Create a KML box for each fgout grid specified for a GeoClaw run.

        +
        +
        Inputs
        +
          +

        • rundata - an object of class ClawRunData or None

          +

          If rundata==None, try to create based on executing function setrun +from the setrun.py file in the current directory.

          +
          • +

        • fname (str) - resulting kml file.

          • +

        • verbose (bool) - If True, print out info about each region found

          • +

        • combined (bool) - If True, combine into single kml file with +name given by fname. NOT YET IMPLEMENTED. +If False, fname is ignored and individual files are created for +each fgout grid.

          • +
        +
        +
        +
        +
        clawpack.geoclaw.kmltools.gauges2kml(rundata=None, fname='gauges.kml', verbose=True)
        @@ -326,7 +349,7 @@

        Navigation

        Internally the value dpi (dots per inch) for the png file is determined so that it is at least 16 and so that:

        -

        System Message: ERROR/3 (/Users/rjl/git/clawpack/clawpack/geoclaw/kmltools.py:docstring of clawpack.geoclaw.kmltools.pcolorcells_for_kml, line 36)

        +

        System Message: ERROR/3 (/Users/rjl/clawpack_src/clawpack_master/clawpack/geoclaw/kmltools.py:docstring of clawpack.geoclaw.kmltools.pcolorcells_for_kml, line 36)

        Unexpected indentation.

        @@ -334,7 +357,7 @@

        Navigation

        dpi * y_inches = dcp * y_cells

        -

        System Message: WARNING/2 (/Users/rjl/git/clawpack/clawpack/geoclaw/kmltools.py:docstring of clawpack.geoclaw.kmltools.pcolorcells_for_kml, line 38)

        +

        System Message: WARNING/2 (/Users/rjl/clawpack_src/clawpack_master/clawpack/geoclaw/kmltools.py:docstring of clawpack.geoclaw.kmltools.pcolorcells_for_kml, line 38)

        Block quote ends without a blank line; unexpected unindent.

        where x_cells, y_cells are the number of cells in each direction.

        @@ -344,14 +367,14 @@

        Navigation

        annotate the figure befor saving it as a png file, which should then be done with:

        -

        System Message: ERROR/3 (/Users/rjl/git/clawpack/clawpack/geoclaw/kmltools.py:docstring of clawpack.geoclaw.kmltools.pcolorcells_for_kml, line 46)

        +

        System Message: ERROR/3 (/Users/rjl/clawpack_src/clawpack_master/clawpack/geoclaw/kmltools.py:docstring of clawpack.geoclaw.kmltools.pcolorcells_for_kml, line 46)

        Unexpected indentation.

        plt.savefig(png_filename, transparent=True, dpi=kml_dpi)

        -

        System Message: WARNING/2 (/Users/rjl/git/clawpack/clawpack/geoclaw/kmltools.py:docstring of clawpack.geoclaw.kmltools.pcolorcells_for_kml, line 47)

        +

        System Message: WARNING/2 (/Users/rjl/clawpack_src/clawpack_master/clawpack/geoclaw/kmltools.py:docstring of clawpack.geoclaw.kmltools.pcolorcells_for_kml, line 47)

        Block quote ends without a blank line; unexpected unindent.

        The png_extent is needed in construcing a kml file to display the @@ -487,7 +510,7 @@

        Navigation

        -

        System Message: WARNING/2 (/Users/rjl/git/clawpack/clawpack/geoclaw/kmltools.py:docstring of clawpack.geoclaw.kmltools.topo2kmz, line 18)

        +

        System Message: WARNING/2 (/Users/rjl/clawpack_src/clawpack_master/clawpack/geoclaw/kmltools.py:docstring of clawpack.geoclaw.kmltools.topo2kmz, line 18)

        Field list ends without a blank line; unexpected unindent.

        If force_dry is an array of the same shape as topo.Z then another png diff --git a/v5.3.x/objects.inv b/v5.3.x/objects.inv index 0f747c528..96e0e380f 100644 Binary files a/v5.3.x/objects.inv and b/v5.3.x/objects.inv differ diff --git a/v5.3.x/py-modindex.html b/v5.3.x/py-modindex.html index 228a87168..e38b10c37 100644 --- a/v5.3.x/py-modindex.html +++ b/v5.3.x/py-modindex.html @@ -114,6 +114,31 @@

        Python Module Index

            clawpack.geoclaw.util + + +     + clawpack.riemann.acoustics_1D_py + + + +     + clawpack.riemann.advection_1D_py + + + +     + clawpack.riemann.burgers_1D_py + + + +     + clawpack.riemann.euler_1D_py + + + +     + clawpack.riemann.shallow_1D_py +   p diff --git a/v5.3.x/pyclaw/examples.html b/v5.3.x/pyclaw/examples.html index 249c3ae98..0e2df160f 100644 --- a/v5.3.x/pyclaw/examples.html +++ b/v5.3.x/pyclaw/examples.html @@ -136,47 +136,47 @@

        From the command lineList of built-in examples

        You can see results from many of the examples in the Galleries of all Clawpack applications.

        -

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        +

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        toctree glob pattern ‘gallery/*adv*’ didn’t match any documents

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        +

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        +

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        +

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        +

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        +

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        toctree glob pattern ‘gallery/*shock*’ didn’t match any documents

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        +

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        +

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        +

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        +

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        toctree contains reference to nonexisting document ‘pyclaw/gallery/kpp’

        -

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        +

        System Message: WARNING/2 (/var/folders/_s/dx0xgftn3_x04rdx0_w5nq7w0000gn/T/tmpp0jqt8z_/24e2c68df118c5a00b116198860c806cae4b064d/pyclaw/examples.rst, line 63)

        toctree contains reference to nonexisting document ‘pyclaw/gallery/stegoton’

        diff --git a/v5.3.x/pyclaw/geometry.html b/v5.3.x/pyclaw/geometry.html index b576d2373..be61bc7fb 100644 --- a/v5.3.x/pyclaw/geometry.html +++ b/v5.3.x/pyclaw/geometry.html @@ -619,10 +619,120 @@

        Parallel Geometry Objects

        -

        petclaw.geometry.Domain

        +

        petclaw.geometry.Domain

        +
        +
        +class petclaw.geometry.Domain(geom)
        +

        Bases: clawpack.pyclaw.geometry.Domain

        +

        Parallel Domain Class

        +

        Parent Class Documentation:

        +

        2D Classic (Clawpack) solver.

        +

        Solve using the wave propagation algorithms of Randy LeVeque’s +Clawpack code (www.clawpack.org).

        +

        In addition to the attributes of ClawSolver1D, ClawSolver2D +also has the following options:

        +
        +
        +dimensional_split
        +

        If True, use dimensional splitting (Godunov splitting). +Dimensional splitting with Strang splitting is not supported +at present but could easily be enabled if necessary. +If False, use unsplit Clawpack algorithms, possibly including +transverse Riemann solves.

        +
        + +
        +
        +transverse_waves
        +

        If dimensional_split is True, this option has no effect. If +dimensional_split is False, then transverse_waves should be one of +the following values:

        +

        ClawSolver2D.no_trans: Transverse Riemann solver +not used. The stable CFL for this algorithm is 0.5. Not recommended.

        +

        ClawSolver2D.trans_inc: Transverse increment waves are computed +and propagated.

        +

        ClawSolver2D.trans_cor: Transverse increment waves and transverse +correction waves are computed and propagated.

        +
        + +

        Note that only the fortran routines are supported for now in 2D.

        +

        Parent Class Documentation:

        +

        Generic classic Clawpack solver

        +

        All Clawpack solvers inherit from this base class.

        +
        +
        +mthlim
        +

        Limiter(s) to be used. Specified either as one value or a list. +If one value, the specified limiter is used for all wave families. +If a list, the specified values indicate which limiter to apply to +each wave family. Take a look at pyclaw.limiters.tvd for an enumeration. +Default = limiters.tvd.minmod

        +
        + +
        +
        +order
        +

        Order of the solver, either 1 for first order (i.e., Godunov’s method) +or 2 for second order (Lax-Wendroff-LeVeque). +Default = 2

        +
        + +
        +
        +source_split
        +

        Which source splitting method to use: 1 for first +order Godunov splitting and 2 for second order Strang splitting. +Default = 1

        +
        + +
        +
        +fwave
        +

        Whether to split the flux jump (rather than the jump in Q) into waves; +requires that the Riemann solver performs the splitting. +Default = False

        +
        + +
        +
        +step_source
        +

        Handle for function that evaluates the source term. +The required signature for this function is:

        +

        def step_source(solver,state,dt)

        +
        + +
        +
        +kernel_language
        +

        Specifies whether to use wrapped Fortran routines (‘Fortran’) +or pure Python (‘Python’). Default = 'Fortran'.

        +
        + +
        +
        +verbosity
        +

        The level of detail of logged messages from the Fortran solver. +Default = 0.

        +
        + +
        +
        -

        petclaw.geometry.Patch

        +

        petclaw.geometry.Patch

        +
        +
        +class petclaw.geometry.Patch(dimensions)
        +

        Bases: clawpack.pyclaw.geometry.Patch

        +

        Parallel Patch class.

        +

        Parent Class Documentation:

        +
        +
        Global Patch information
        +

        Each patch has a value for level and patch_index.

        +
        +
        +
        +

        diff --git a/v5.3.x/pyclaw/index.html b/v5.3.x/pyclaw/index.html index 38cde2207..203f269e3 100644 --- a/v5.3.x/pyclaw/index.html +++ b/v5.3.x/pyclaw/index.html @@ -114,7 +114,7 @@

        Navigation

        PyClaw Documentation

        -

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        +

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        diff --git a/v5.3.x/pyclaw/rp.html b/v5.3.x/pyclaw/rp.html index e345b59a9..ea56fa9dc 100644 --- a/v5.3.x/pyclaw/rp.html +++ b/v5.3.x/pyclaw/rp.html @@ -163,18 +163,328 @@

        Navigation

        Acoustics

        +

        Riemann solvers for constant coefficient acoustics.

        +
        +\[q_t + A q_x = 0\]
        +

        where

        +
        +\[\begin{split}q(x,t) = \left [ \begin{array}{c} p(x,t) \\ u(x,t) \end{array} \right ]\end{split}\]
        +

        and the coefficient matrix is

        +
        +\[\begin{split}A = \left [\begin{matrix} +0 & K\\ +1/\rho & 0 +\end{matrix} \right ]\end{split}\]
        +

        The parameters \(\rho =\) density and \(K =\) bulk modulus are used +to calculate the impedence \(= Z\) and speed of sound = c.

        +
        +
        Authors
        +

        Kyle T. Mandli (2009-02-03): Initial version

        +
        +
        +
        +
        +clawpack.riemann.acoustics_1D_py.acoustics_1D(q_l, q_r, aux_l, aux_r, problem_data)
        +

        Basic 1d acoustics riemann solver, with interleaved arrays

        +
        +
        problem_data is expected to contain -
          +

        • zz - (float) Impedence

          • +

        • cc - (float) Speed of sound

          • +
        +
        +
        +

        See Riemann Solver Package for more details.

        +
        +
        Version
        +

        1.0 (2009-02-03)

        +
        +
        +
        +

        Advection

        +

        Simple advection Riemann solvers

        +

        Basic advection Riemann solvers of the form (1d)

        +
        +\[q_t + A q_x = 0.\]
        +
        +
        Authors
        +

        Kyle T. Mandli (2008-2-20): Initial version

        +
        +
        +
        +
        +clawpack.riemann.advection_1D_py.advection_1D(q_l, q_r, aux_l, aux_r, problem_data)
        +

        Basic 1d advection riemann solver

        +
        +
        problem_data should contain -
          +

        • u - (float) Determines advection speed

          • +
        +
        +
        +

        See Riemann Solver Package for more details.

        +
        +
        Version
        +

        1.0 (2008-2-20)

        +
        +
        +
        +

        Burgers Equation

        +

        Riemann solvers for Burgers equation

        +
        +\[u_t + \left ( \frac{1}{2} u^2 \right)_x = 0\]
        +
        +
        Authors
        +

        Kyle T. Mandli (2009-2-4): Initial version

        +
        +
        +
        +
        +clawpack.riemann.burgers_1D_py.burgers_1D(q_l, q_r, aux_l, aux_r, problem_data)
        +

        Riemann solver for Burgers equation in 1d

        +
        +
        problem_data should contain -
          +

        • efix - (bool) Whether a entropy fix should be used, if not present, +false is assumed

          • +
        +
        +
        +

        See Riemann Solver Package for more details.

        +
        +
        Version
        +

        1.0 (2009-2-4)

        +
        +
        +
        +

        Euler Equations

        +

        Riemann solvers for the Euler equations

        +

        This module contains Riemann solvers for the Euler equations which have the +form (in 1d):

        +
        +\[q_t + f(q)_x = 0\]
        +

        where

        +
        +\[\begin{split}q(x,t) = \left [ \begin{array}{c} \rho \\ \rho u \\ E \end{array} \right ],\end{split}\]
        +

        the flux function is

        +
        +\[\begin{split}f(q) = \left [ \begin{array}{c} \rho u \\ \rho u^2 + p \\ u(E+p) \end{array}\right ].\end{split}\]
        +

        and \(\rho\) is the density, \(u\) the velocity, \(E\) is the +energy and \(p\) is the pressure.

        +

        Unless otherwise noted, the ideal gas equation of state is used:

        +
        +\[E = (\gamma - 1) \left (E - \frac{1}{2}\rho u^2 \right)\]
        +
        +
        +clawpack.riemann.euler_1D_py.euler_exact_1D(q_l, q_r, aux_l, aux_r, problem_data)
        +

        Exact euler Riemann solver

        +
        +

        Warning

        +

        This solver has not been implemented.

        +
        +
        + +
        +
        +clawpack.riemann.euler_1D_py.euler_hll_1D(q_l, q_r, aux_l, aux_r, problem_data)
        +

        HLL euler solver

        +
        W_1 = Q_hat - Q_l    s_1 = min(u_l-c_l,u_l+c_l,lambda_roe_1,lambda_roe_2)
+W_2 = Q_r - Q_hat    s_2 = max(u_r-c_r,u_r+c_r,lambda_roe_1,lambda_roe_2)
+
+Q_hat = ( f(q_r) - f(q_l) - s_2 * q_r + s_1 * q_l ) / (s_1 - s_2)
+
        +
        +
        +
        problem_data should contain:
          +

        • gamma - (float) Ratio of the heat capacities

          • +

        • gamma1 - (float) \(1 - \gamma\)

          • +
        +
        +
        +
        +
        Version
        +

        1.0 (2014-03-04)

        +
        +
        +
        + +
        +
        +clawpack.riemann.euler_1D_py.euler_hllc_1D(q_l, q_r, aux_l, aux_r, problem_data)
        +

        HLLC Euler solver

        +
        W_1 = q_hat_l - q_l      s_1 = min(u_l-c_l,u_l+c_l,lambda_roe_1,lambda_roe_2)
+W_2 = q_hat_r - q_hat_l  s_2 = s_m
+W_3 = q_r - q_hat_r      s_3 = max(u_r-c_r,u_r+c_r,lambda_roe_1,lambda_roe_2)
+s_m = (p_r - p_l + rho_l*u_l*(s_l - u_l) - rho_r*u_r*(s_r - u_r))\
+  / (rho_l*(s_l-u_l) - rho_r*(s_r - u_r))
+
        +
        +

        left middle state:

        +
        q_hat_l[0,:] = rho_l*(s_l - u_l)/(s_l - s_m)
+q_hat_l[1,:] = rho_l*(s_l - u_l)/(s_l - s_m)*s_m
+q_hat_l[2,:] = rho_l*(s_l - u_l)/(s_l - s_m)\
+        *(E_l/rho_l + (s_m - u_l)*(s_m + p_l/(rho_l*(s_l - u_l))))
+
        +
        +

        right middle state:

        +
        q_hat_r[0,:] = rho_r*(s_r - u_r)/(s_r - s_m)
+q_hat_r[1,:] = rho_r*(s_r - u_r)/(s_r - s_m)*s_m
+q_hat_r[2,:] = rho_r*(s_r - u_r)/(s_r - s_m)\
+        *(E_r/rho_r + (s_m - u_r)*(s_m + p_r/(rho_r*(s_r - u_r))))
+
        +
        +

        problem_data should contain:

        +
        +
          +

        • gamma: (float) Ratio of specific heat capacities

          • +

        • gamma1: (float) \(\gamma - 1\)

          • +
        +
        +

        :Version 1.0 (2015-11-18)

        +
        + +
        +
        +clawpack.riemann.euler_1D_py.euler_roe_1D(q_l, q_r, aux_l, aux_r, problem_data)
        +

        Roe Euler solver in 1d

        +
        +
        aug_global should contain -
          +

        • gamma - (float) Ratio of the heat capacities

          • +

        • gamma1 - (float) \(1 - \gamma\)

          • +

        • efix - (bool) Whether to use an entropy fix or not

          • +
        +
        +
        +

        See Riemann Solver Package for more details.

        +
        +
        Version
        +

        1.0 (2009-6-26)

        +
        +
        +
        +

        Shallow Water Equations

        +

        Riemann solvers for the shallow water equations.

        +
        +
        The available solvers are:
          +

        • Roe - Use Roe averages to caluclate the solution to the Riemann problem

          • +

        • HLL - Use a HLL solver

          • +
        • +
          Exact - Use a newton iteration to calculate the exact solution to the

          Riemann problem

          +
          +
          +
          • +
        +
        +
        +
        +\[q_t + f(q)_x = 0\]
        +

        where

        +
        +\[\begin{split}q(x,t) = \left [ \begin{array}{c} h \\ h u \end{array} \right ],\end{split}\]
        +

        the flux function is

        +
        +\[\begin{split}f(q) = \left [ \begin{array}{c} h u \\ hu^2 + 1/2 g h^2 \end{array}\right ].\end{split}\]
        +

        and \(h\) is the water column height, \(u\) the velocity and \(g\) +is the gravitational acceleration.

        +
        +
        +clawpack.riemann.shallow_1D_py.shallow_exact_1D(q_l, q_r, aux_l, aux_r, problem_data)
        +

        Exact shallow water Riemann solver

        +
        +

        Warning

        +

        This solver has not been implemented.

        +
        +
        + +
        +
        +clawpack.riemann.shallow_1D_py.shallow_fwave_1d(q_l, q_r, aux_l, aux_r, problem_data)
        +

        Shallow water Riemann solver using fwaves

        +

        Also includes support for bathymetry but be wary if you think you might have +dry states as this has not been tested.

        +
        +
        problem_data should contain:
          +

        • grav - (float) Gravitational constant

          • +

        • dry_tolerance - (float) Set velocities to zero if h is below this +tolerance.

          • +

        • sea_level - (float) Datum from which the dry-state is calculated.

          • +
        +
        +
        +
        +
        Version
        +

        1.0 (2014-09-05)

        +
        +
        Version
        +

        2.0 (2017-03-07)

        +
        +
        +
        + +
        +
        +clawpack.riemann.shallow_1D_py.shallow_hll_1D(q_l, q_r, aux_l, aux_r, problem_data)
        +

        HLL shallow water solver

        +
        W_1 = Q_hat - Q_l    s_1 = min(u_l-c_l,u_l+c_l,lambda_roe_1,lambda_roe_2)
+W_2 = Q_r - Q_hat    s_2 = max(u_r-c_r,u_r+c_r,lambda_roe_1,lambda_roe_2)
+
+Q_hat = ( f(q_r) - f(q_l) - s_2 * q_r + s_1 * q_l ) / (s_1 - s_2)
+
        +
        +
        +
        problem_data should contain:
          +

        • g - (float) Gravitational constant

          • +
        +
        +
        +
        +
        Version
        +

        1.0 (2009-02-05)

        +
        +
        +
        + +
        +
        +clawpack.riemann.shallow_1D_py.shallow_roe_1D(q_l, q_r, aux_l, aux_r, problem_data)
        +

        Roe shallow water solver in 1d:

        +
        ubar = (sqrt(u_l) + sqrt(u_r)) / (sqrt(h_l) + sqrt(h_r))
+cbar = sqrt( 0.5 * g * (h_l + h_r))
+
+W_1 = |      1      |  s_1 = ubar - cbar
+      | ubar - cbar |
+
+W_2 = |      1      |  s_1 = ubar + cbar
+      | ubar + cbar |
+
+a1 = 0.5 * ( - delta_hu + (ubar + cbar) * delta_h ) / cbar
+a2 = 0.5 * (   delta_hu - (ubar - cbar) * delta_h ) / cbar
+
        +
        +
        +
        problem_data should contain:
          +

        • g - (float) Gravitational constant

          • +

        • efix - (bool) Boolean as to whether a entropy fix should be used, if +not present, false is assumed

          • +
        +
        +
        +
        +
        Version
        +

        1.0 (2009-02-05)

        +
        +
        +
        +
        diff --git a/v5.3.x/pyclaw/solution.html b/v5.3.x/pyclaw/solution.html index a13a31571..6c83a936c 100644 --- a/v5.3.x/pyclaw/solution.html +++ b/v5.3.x/pyclaw/solution.html @@ -116,10 +116,10 @@

        Navigation

        petclaw.state.State

        pyclaw.geometry.Domain

        -

        petclaw.geometry.Domain

        +

        petclaw.geometry.Domain

        pyclaw.geometry.Patch

        -

        petclaw.geometry.Patch

        +

        petclaw.geometry.Patch

        pyclaw.geometry.Grid

        @@ -215,7 +215,7 @@

        Navigation

        -read(frame, path='./_output', file_format='ascii', file_prefix=None, read_aux=True, options={}, **kargs)
        +read(frame, path='./_output', file_format=None, file_prefix='fort', read_aux=True, options={}, **kargs)

        Reads in a Solution object from a file

        Reads in and initializes this Solution with the data specified. This function will raise an IOError if it was unsuccessful.

        @@ -234,7 +234,8 @@

        Navigation

      • path - (string) Base path to the files to be read. default = './_output'

      • file_format - (string) Format of the file, should match on of the -modules inside of the io package. default = 'ascii'

        • +modules inside of the io package. default = None +but now attempts to read from header file (as of v5.9.0).

      • file_prefix - (string) Name prefix in front of all the files, defaults to whatever the format defaults to, e.g. fort for ascii

      • options - (dict) Dictionary of optional arguments dependent on diff --git a/v5.3.x/pyclaw/state.html b/v5.3.x/pyclaw/state.html index a57327dd5..ffa5442fa 100644 --- a/v5.3.x/pyclaw/state.html +++ b/v5.3.x/pyclaw/state.html @@ -92,7 +92,7 @@

        Navigation

        object also handles some of the parallel communication required of the state on the given patch such that only the parts of the fields local to the process. If you are interested in the geometry of the local state you can find it through the -Patch object’s reference to its own +Patch object’s reference to its own Grid.

        Serial pyclaw.state.State

        diff --git a/v5.3.x/python.html b/v5.3.x/python.html index e810ef2e6..6eeb78977 100644 --- a/v5.3.x/python.html +++ b/v5.3.x/python.html @@ -163,7 +163,7 @@

        References and tutorialsMatplotlib gallery

      • `LeVeque’s class notes

        -

        System Message: WARNING/2 (/var/folders/_s/dx0xgftn3_x04rdx0_w5nq7w0000gn/T/tmp8prh_j6r/24e2c68df118c5a00b116198860c806cae4b064d/python.rst, line 96); backlink

        +

        System Message: WARNING/2 (/var/folders/_s/dx0xgftn3_x04rdx0_w5nq7w0000gn/T/tmpp0jqt8z_/24e2c68df118c5a00b116198860c806cae4b064d/python.rst, line 96); backlink

        Inline interpreted text or phrase reference start-string without end-string.

        • diff --git a/v5.3.x/qinit_defaults.html b/v5.3.x/qinit_defaults.html index f67f7854a..fc08207ce 100644 --- a/v5.3.x/qinit_defaults.html +++ b/v5.3.x/qinit_defaults.html @@ -82,17 +82,17 @@

        Navigation

        the initial conditions as desired.

        $CLAW/classic/src/1d/qinit.f90:

        -

        System Message: WARNING/2 (/var/folders/_s/dx0xgftn3_x04rdx0_w5nq7w0000gn/T/tmp8prh_j6r/24e2c68df118c5a00b116198860c806cae4b064d/qinit_defaults.rst, line 18)

        +

        System Message: WARNING/2 (/var/folders/_s/dx0xgftn3_x04rdx0_w5nq7w0000gn/T/tmpp0jqt8z_/24e2c68df118c5a00b116198860c806cae4b064d/qinit_defaults.rst, line 18)

        Include file ‘/var/folders/_s/dx0xgftn3_x04rdx0_w5nq7w0000gn/T/classic/src/1d/qinit.f90’ not found or reading it failed

        $CLAW/classic/src/2d/qinit.f90:

        -

        System Message: WARNING/2 (/var/folders/_s/dx0xgftn3_x04rdx0_w5nq7w0000gn/T/tmp8prh_j6r/24e2c68df118c5a00b116198860c806cae4b064d/qinit_defaults.rst, line 24)

        +

        System Message: WARNING/2 (/var/folders/_s/dx0xgftn3_x04rdx0_w5nq7w0000gn/T/tmpp0jqt8z_/24e2c68df118c5a00b116198860c806cae4b064d/qinit_defaults.rst, line 24)

        Include file ‘/var/folders/_s/dx0xgftn3_x04rdx0_w5nq7w0000gn/T/classic/src/2d/qinit.f90’ not found or reading it failed

        $CLAW/classic/src/3d/qinit.f90:

        -

        System Message: WARNING/2 (/var/folders/_s/dx0xgftn3_x04rdx0_w5nq7w0000gn/T/tmp8prh_j6r/24e2c68df118c5a00b116198860c806cae4b064d/qinit_defaults.rst, line 30)

        +

        System Message: WARNING/2 (/var/folders/_s/dx0xgftn3_x04rdx0_w5nq7w0000gn/T/tmpp0jqt8z_/24e2c68df118c5a00b116198860c806cae4b064d/qinit_defaults.rst, line 30)

        Include file ‘/var/folders/_s/dx0xgftn3_x04rdx0_w5nq7w0000gn/T/classic/src/3d/qinit.f90’ not found or reading it failed

        @@ -103,7 +103,7 @@

        Navigation

        qinit data file parameters.

        $CLAW/geoclaw/src/2d/shallow/qinit.f90:

        -

        System Message: WARNING/2 (/var/folders/_s/dx0xgftn3_x04rdx0_w5nq7w0000gn/T/tmp8prh_j6r/24e2c68df118c5a00b116198860c806cae4b064d/qinit_defaults.rst, line 47)

        +

        System Message: WARNING/2 (/var/folders/_s/dx0xgftn3_x04rdx0_w5nq7w0000gn/T/tmpp0jqt8z_/24e2c68df118c5a00b116198860c806cae4b064d/qinit_defaults.rst, line 47)

        Include file ‘/var/folders/_s/dx0xgftn3_x04rdx0_w5nq7w0000gn/T/geoclaw/src/2d/shallow/qinit.f90’ not found or reading it failed

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,73,80,82,86,92,93,109,111],wiki:85,wikipedia:82,wind:120,window:[10,26,43,49,62,90],wisdom:44,wise:[25,84],wish:[4,10,11,19,25,29,35,38,41,43,49,58,59,75,80,84,85,87,92,102,105,112,114,115,121],within:[5,12,25,30,56,60,79,82,89,93,103,106,112,120],without:[12,19,22,25,31,35,38,44,45,46,49,60,62,64,70,76,77,89,90,94,109,111,121,123],wkt:41,won:[10,67,82,120],word:[77,82,92],work:[3,7,10,12,16,17,19,21,22,23,25,27,29,30,31,36,38,41,42,43,44,49,51,52,53,54,60,64,65,66,68,69,70,75,76,77,78,81,84,85,90,92,93,94,98,99,100,101,103,106,107,108,110,112,118,121,125],workflow:112,workspac:[49,86],world:[38,47,75,78],worst:104,worth:86,worthwhil:80,would:[2,3,10,12,24,25,27,32,41,46,55,60,64,66,69,73,77,82,89,92,94,104,106,107,118,123],wpalg:13,wrap:[44,64,67,84,89],wrapper:120,write:[25,26,40,47,55,56,59,66,69,73,74,77,78,83,92,109,111,120],write_:76,write_aux:[76,83],write_aux_alwai:[66,69],write_aux_init:[66,69],write_input_data:27,write_p:83,written:[5,8,26,31,44,45,55,56,60,64,76,77,80,90,107,108,109,110,111,120,123],wrong:[49,77,93],www:[4,10,13,26,36,42,45,50,64,67,68,75,78,92,120],x_cell:44,x_edg:44,x_i:[103,123,126],x_inch:44,x_mask:120,xarr:73,xarrai:120,xarray_d:120,xclaw:[29,69],xclawcmd:69,xclawerr:69,xclawout:69,xcode:43,xdir:69,xiaom:26,xleft:[108,109],xlf:85,xlimit:[0,35,41],xllcenter:92,xllcorner:118,xlow:55,xlower:[0,3,12,19,24,67,92,109,111,118,120,123],xlowerg:67,xmax:0,xmin:0,xpoint:110,xrang:80,xtick:39,xupper:[0,19,92,109,111,120],xxdiff:94,xxxx:49,xylim:26,xzvf:43,y_cell:44,y_edg:44,y_inch:44,year:[4,13,19,41,44,75,95],yellow:[44,60],yellow_red_blu:60,yes:49,yet:[1,10,17,38,44,59,84,107,109,125],yianni:64,yield:3,yleft:[108,109],ylimit:[0,35,41,106],yllcenter:92,yllcorner:118,ylow:55,ylower:[3,19,24,67,92,109,118,120],ylowerg:67,ymax:0,ymin:0,yml:94,yong:13,you:[0,3,4,10,11,12,15,16,17,19,20,21,23,24,25,27,29,31,32,33,35,37,40,41,42,43,44,46,49,50,51,52,53,54,55,56,58,59,60,62,64,66,67,68,69,71,72,75,76,77,78,79,80,84,85,86,87,88,90,92,94,96,101,102,104,105,106,109,110,111,112,113,114,115,118,121,122,123,125],your:[5,11,12,16,17,21,22,23,29,32,35,42,50,51,54,59,60,62,64,65,66,67,68,71,74,75,77,82,87,88,90,91,92,93,94,96,105,114,115,118,121,123],yourself:[32,35,52],ypoint:110,yupper:[19,92,109,120],z_format:120,zero:[3,12,26,32,44,49,66,80,86,88,104],zip:[9,41,92],zipinfo:41,zlim:44,zlower:19,zone:[38,41,44,108,109],zoom:[41,92],zsh:78,zupper:19,zvar:120},titles:["ClawPlotAxes","ClawPlotData","ClawPlotFigure","ClawPlotItem","About this software","Adaptive mesh refinement (AMR) algorithms","AMRClaw","AMRClaw for 1d problems","Application documentation","Clawpack Applications repository","Amazon Web Services EC2 Clawpack AMI","b4step default routines","Boundary conditions","Bibliography","Recent changes \u2014 release notes","Changes to master since v5.3.1","Converting from Clawpack 4.3 to 4.6","Converting from Clawpack 4.6 to 5.0","Clawpack 4.x links","Changes in Clawpack 5.0","Clawpack components","Clawpack Community","Full Table of Contents","Contributing examples and applications","current_data","Developers\u2019 Guide","dtopotools module for moving topography","Fixed grid monitoring","Fixed grid output","Running an example","Flagging cells for adaptive refinement","Fortran version","Fortran Compilers","Examples from the book FVMHP","Galleries of all Clawpack applications","Gauges","GeoClaw","geoclaw.util module of utility functions","Cautionary Hints on using GeoClaw","GeoClaw plotting tools","Keeping track of git versions","Visualizing GeoClaw results in Google Earth","Guide for updating this documentation","Installation instructions","kmltools module of utility functions","License","Clawpack Makefiles","Manning friction term","The mapc2p function","Plotting using Matlab","Using NetCDF output","Creating a new application directory","IPython notebook examples","Earthquake sources: Fault slip and the Okada model","Using OpenMP","Output data formats","Which Clawpack solver should I use?","Clawpack Community Photos","Plotting examples","Visclaw Plotting options","Plotting hints and FAQ","Plotting routines for GeoClaw","Plotting options in Python","Previous versions of Clawpack","About PyClaw","PyClaw Basics","Understanding Pyclaw Classes","Porting a problem from Clawpack 4.6.x to PyClaw","Running PyClaw in the cloud","Pyclaw Controller Class","Pyclaw Limiters","Working with PyClaw\u2019s built-in examples","Building the PyClaw gallery locally","PyClaw Geometry","Going Further","Pyclaw","Pyclaw Input/Output Package","PyClaw output","Running in parallel","Plotting PyClaw results","Setting up your own problem","Riemann Solver Package","Conventions for coding and documenting PyClaw","PyClaw Solutions","Using PyClaw\u2019s solvers: Classic and SharpClaw","Installing PyClaw","PyClaw State","Troubleshooting","PyClaw tutorial: Solve the acoustics equations","Pyclaw Utility Module","Python Hints","qinit default routines","Quick start guide for tsunami modeling","AMR refinement criteria","Regression testing","Release 5.0.0","Release 5.1.0","Release 5.2.0","Release 5.2.1","Release 5.2.2","Release 5.3.0","Release 5.3.1","Checkpointing and restarting","Riemann solvers","Setting sealevel","setaux default routines","Using setplot.py to specify the desired plots","Specifying classic run-time parameters in setrun.py","Specifying AMRClaw run-time parameters in setrun.py","Sample setrun.py module for AMRClaw","Specifying GeoClaw parameters in setrun.py","Sample setrun.py module for classic Clawpack","Saving and sharing results","Compiling the Sphinx documentation locally","src1d default routines","src default routines","Testing your installation","Timing Statistics","Topography data","Python tools for working with topo and dtopo","topotools module for working with topography data","Troubleshooting","Some sources of tsunami data","User files required for the Fortran code","Plotting with VisIt","Clawpack Virtual Machine","Wave-propagation 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,43,44,53,54,55,56,59,62,82,83,84,102,107,108,114,115,118,123,126],wendroff:[73,84,107,109,111,126],weno:[56,75,84],weno_ord:84,were:[4,5,17,43,49,50,67,93,96],west:[92,118],western:[92,120],wet:36,what:[5,10,19,22,25,26,35,38,40,41,42,43,44,46,49,50,55,66,69,82,83,86,88,90,92,93,94,101,104,106,107,109,110,111,112,118,120,122,123],whatev:[50,66,83],when:[11,12,17,25,26,27,31,32,35,39,40,41,42,43,47,49,53,54,55,56,59,60,62,66,77,78,79,84,87,94,96,97,99,101,103,104,105,106,107,108,109,110,111,112,118,120,121,122,123,124,126],whenc:77,whenev:[25,101,123],where:[1,3,5,10,12,19,24,26,27,29,30,31,35,36,38,41,43,44,46,47,49,50,52,55,56,62,69,73,76,78,81,92,93,96,97,100,101,102,104,106,107,109,110,111,117,118,120,123,126],wherea:[35,41,59,78],whereev:92,wherev:[82,121],whether:[3,5,10,12,19,30,37,45,49,64,73,76,77,81,82,83,84,93,94,107,108,110,120],which:[0,1,3,4,5,6,8,10,12,17,19,22,25,26,27,29,30,35,36,38,41,42,43,44,46,47,49,53,54,55,60,62,66,67,69,70,71,73,76,77,78,79,80,81,82,83,84,85,87,88,89,90,92,93,94,96,97,100,102,104,107,108,109,110,118,120,122,123,126],white:44,whith:67,who:[16,19,21,27,32,38,43],whole:[25,41,77,78,82],whose:[3,60,67,80,81,82,107,108,120],why:82,wide:90,wider:60,width:[26,41,44,53,55,73,80,82,86,92,93,109,111],wiki:85,wikipedia:82,wind:120,window:[10,26,43,49,62,90],wisdom:44,wise:[25,84],wish:[4,10,11,19,25,29,35,38,41,43,49,58,59,75,80,84,85,87,92,102,105,112,114,115,121],within:[5,12,25,30,56,60,79,82,89,93,103,106,112,120],without:[12,19,22,25,31,35,38,44,45,46,49,60,62,64,70,76,77,89,90,94,109,111,121,123],wkt:41,won:[10,67,82,120],word:[77,82,92],work:[3,7,10,12,16,17,19,21,22,23,25,27,29,30,31,36,38,41,42,43,44,49,51,52,53,54,60,64,65,66,68,69,70,75,76,77,78,81,84,85,90,92,93,94,98,99,100,101,103,106,107,108,110,112,118,121,125],workflow:112,workspac:[49,86],world:[38,47,75,78],worst:104,worth:86,worthwhil:80,would:[2,3,10,12,24,25,27,32,41,46,55,60,64,66,69,73,77,82,89,92,94,104,106,107,118,123],wpalg:13,wrap:[44,64,67,73,84,89],wrapper:120,write:[25,26,40,47,55,56,59,66,69,73,74,77,78,83,92,109,111,120],write_:76,write_aux:[76,83],write_aux_alwai:[66,69],write_aux_init:[66,69],write_input_data:27,write_p:83,written:[5,8,26,31,44,45,55,56,60,64,76,77,80,90,107,108,109,110,111,120,123],wrong:[49,77,93],www:[4,10,13,26,36,42,45,50,64,67,68,73,75,78,92,120],x_cell:44,x_edg:44,x_i:[103,123,126],x_inch:44,x_mask:120,xarr:73,xarrai:120,xarray_d:120,xclaw:[29,69],xclawcmd:69,xclawerr:69,xclawout:69,xcode:43,xdir:69,xiaom:26,xleft:[108,109],xlf:85,xlimit:[0,35,41],xllcenter:92,xllcorner:118,xlow:55,xlower:[0,3,12,19,24,67,92,109,111,118,120,123],xlowerg:67,xmax:0,xmin:0,xpoint:110,xrang:80,xtick:39,xupper:[0,19,92,109,111,120],xxdiff:94,xxxx:49,xylim:26,xzvf:43,y_cell:44,y_edg:44,y_inch:44,year:[4,13,19,41,44,75,95],yellow:[44,60],yellow_red_blu:60,yes:49,yet:[1,10,17,38,44,59,84,107,109,125],yianni:64,yield:3,yleft:[108,109],ylimit:[0,35,41,106],yllcenter:92,yllcorner:118,ylow:55,ylower:[3,19,24,67,92,109,118,120],ylowerg:67,ymax:0,ymin:0,yml:94,yong:13,you:[0,3,4,10,11,12,15,16,17,19,20,21,23,24,25,27,29,31,32,33,35,37,40,41,42,43,44,46,49,50,51,52,53,54,55,56,58,59,60,62,64,66,67,68,69,71,72,75,76,77,78,79,80,81,84,85,86,87,88,90,92,94,96,101,102,104,105,106,109,110,111,112,113,114,115,118,121,122,123,125],your:[5,11,12,16,17,21,22,23,29,32,35,42,50,51,54,59,60,62,64,65,66,67,68,71,74,75,77,82,87,88,90,91,92,93,94,96,105,114,115,118,121,123],yourself:[32,35,52],ypoint:110,yupper:[19,92,109,120],z_format:120,zero:[3,12,26,32,44,49,66,80,81,86,88,104],zip:[9,41,92],zipinfo:41,zlim:44,zlower:19,zone:[38,41,44,108,109],zoom:[41,92],zsh:78,zupper:19,zvar:120},titles:["ClawPlotAxes","ClawPlotData","ClawPlotFigure","ClawPlotItem","About this software","Adaptive mesh refinement (AMR) algorithms","AMRClaw","AMRClaw for 1d problems","Application documentation","Clawpack Applications repository","Amazon Web Services EC2 Clawpack AMI","b4step default routines","Boundary conditions","Bibliography","Recent changes \u2014 release notes","Changes to master since v5.3.1","Converting from Clawpack 4.3 to 4.6","Converting from Clawpack 4.6 to 5.0","Clawpack 4.x links","Changes in Clawpack 5.0","Clawpack components","Clawpack Community","Full Table of Contents","Contributing examples and applications","current_data","Developers\u2019 Guide","dtopotools module for moving topography","Fixed grid monitoring","Fixed grid output","Running an example","Flagging cells for adaptive refinement","Fortran version","Fortran Compilers","Examples from the book FVMHP","Galleries of all Clawpack applications","Gauges","GeoClaw","geoclaw.util module of utility functions","Cautionary Hints on using GeoClaw","GeoClaw plotting tools","Keeping track of git versions","Visualizing GeoClaw results in Google Earth","Guide for updating this documentation","Installation instructions","kmltools module of utility functions","License","Clawpack Makefiles","Manning friction term","The mapc2p function","Plotting using Matlab","Using NetCDF output","Creating a new application directory","IPython notebook examples","Earthquake sources: Fault slip and the Okada model","Using OpenMP","Output data formats","Which Clawpack solver should I use?","Clawpack Community Photos","Plotting examples","Visclaw Plotting options","Plotting hints and FAQ","Plotting routines for GeoClaw","Plotting options in Python","Previous versions of Clawpack","About PyClaw","PyClaw Basics","Understanding Pyclaw Classes","Porting a problem from Clawpack 4.6.x to PyClaw","Running PyClaw in the cloud","Pyclaw Controller Class","Pyclaw Limiters","Working with PyClaw\u2019s built-in examples","Building the PyClaw gallery locally","PyClaw Geometry","Going 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        with latitude when coordinate_system == 2).

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        (an ocean at rest remains at rest).

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        see Using src1d for source terms with AMRClaw.

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        (an ocean at rest remains at rest).

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        Matlab tools from Clawpack 4.3 can still be used, see Plotting using Matlab.

        -

        System Message: WARNING/2 (/var/folders/_s/dx0xgftn3_x04rdx0_w5nq7w0000gn/T/tmp8prh_j6r/56744eeda50bfc1d8fec79d45060637228943b2f/amrclaw.rst, line 36)

        +

        System Message: WARNING/2 (/var/folders/_s/dx0xgftn3_x04rdx0_w5nq7w0000gn/T/tmpp0jqt8z_/56744eeda50bfc1d8fec79d45060637228943b2f/amrclaw.rst, line 36)

        toctree contains reference to nonexisting document ‘amrclaw/amrclaw_advection_2d_square’

        diff --git a/v5.4.x/b4step_defaults.html b/v5.4.x/b4step_defaults.html index 429d5fcba..1827148bb 100644 --- a/v5.4.x/b4step_defaults.html +++ b/v5.4.x/b4step_defaults.html @@ -82,17 +82,17 @@

        Navigation

        as needed. Remember to change to Makefile to point to the proper version.

        $CLAW/classic/src/1d/b4step1.f90:

        -

        System Message: WARNING/2 (/var/folders/_s/dx0xgftn3_x04rdx0_w5nq7w0000gn/T/tmp8prh_j6r/56744eeda50bfc1d8fec79d45060637228943b2f/b4step_defaults.rst, line 19)

        +

        System Message: WARNING/2 (/var/folders/_s/dx0xgftn3_x04rdx0_w5nq7w0000gn/T/tmpp0jqt8z_/56744eeda50bfc1d8fec79d45060637228943b2f/b4step_defaults.rst, line 19)

        Include file ‘/var/folders/_s/dx0xgftn3_x04rdx0_w5nq7w0000gn/T/classic/src/1d/b4step1.f90’ not found or reading it failed

        $CLAW/classic/src/2d/b4step2.f90:

        -

        System Message: WARNING/2 (/var/folders/_s/dx0xgftn3_x04rdx0_w5nq7w0000gn/T/tmp8prh_j6r/56744eeda50bfc1d8fec79d45060637228943b2f/b4step_defaults.rst, line 25)

        +

        System Message: WARNING/2 (/var/folders/_s/dx0xgftn3_x04rdx0_w5nq7w0000gn/T/tmpp0jqt8z_/56744eeda50bfc1d8fec79d45060637228943b2f/b4step_defaults.rst, line 25)

        Include file ‘/var/folders/_s/dx0xgftn3_x04rdx0_w5nq7w0000gn/T/classic/src/2d/b4step2.f90’ not found or reading it failed

        $CLAW/classic/src/3d/b4step3.f90:

        -

        System Message: WARNING/2 (/var/folders/_s/dx0xgftn3_x04rdx0_w5nq7w0000gn/T/tmp8prh_j6r/56744eeda50bfc1d8fec79d45060637228943b2f/b4step_defaults.rst, line 31)

        +

        System Message: WARNING/2 (/var/folders/_s/dx0xgftn3_x04rdx0_w5nq7w0000gn/T/tmpp0jqt8z_/56744eeda50bfc1d8fec79d45060637228943b2f/b4step_defaults.rst, line 31)

        Include file ‘/var/folders/_s/dx0xgftn3_x04rdx0_w5nq7w0000gn/T/classic/src/3d/b4step3.f90’ not found or reading it failed

        @@ -104,7 +104,7 @@

        Navigation

        with latitude when coordinate_system == 2).

        $CLAW/geoclaw/src/2d/shallow/b4step2.f90:

        -

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        +

        System Message: WARNING/2 (/var/folders/_s/dx0xgftn3_x04rdx0_w5nq7w0000gn/T/tmpp0jqt8z_/56744eeda50bfc1d8fec79d45060637228943b2f/b4step_defaults.rst, line 49)

        Include file ‘/var/folders/_s/dx0xgftn3_x04rdx0_w5nq7w0000gn/T/geoclaw/src/2d/shallow/b4step2.f90’ not found or reading it failed

        diff --git a/v5.4.x/contents.html b/v5.4.x/contents.html index 77131cd2d..46f730b9f 100644 --- a/v5.4.x/contents.html +++ b/v5.4.x/contents.html @@ -261,7 +261,7 @@

        PyClawRiemann

        All Clawpack packages make use of the same collection of Riemann solvers.

        -

        System Message: WARNING/2 (/var/folders/_s/dx0xgftn3_x04rdx0_w5nq7w0000gn/T/tmp8prh_j6r/56744eeda50bfc1d8fec79d45060637228943b2f/contents.rst, line 113)

        +

        System Message: WARNING/2 (/var/folders/_s/dx0xgftn3_x04rdx0_w5nq7w0000gn/T/tmpp0jqt8z_/56744eeda50bfc1d8fec79d45060637228943b2f/contents.rst, line 113)

        toctree contains reference to nonexisting document ‘riemann/Shallow_water_Riemann_solvers’

        diff --git a/v5.4.x/genindex.html b/v5.4.x/genindex.html index 56cc2382a..7b63b390d 100644 --- a/v5.4.x/genindex.html +++ b/v5.4.x/genindex.html @@ -109,6 +109,8 @@

        A

        - +
        @@ -196,11 +202,21 @@

        C

      • clawpack.geoclaw.kmltools (module)
        • -
      - +
      • verbosity() (pyclaw.controller.Controller property) diff --git a/v5.4.x/geoclaw.html b/v5.4.x/geoclaw.html index 1db3c1f70..d2974c257 100644 --- a/v5.4.x/geoclaw.html +++ b/v5.4.x/geoclaw.html @@ -110,15 +110,15 @@

        Navigation

        Some sample calculations can be viewed in the gallery_geoclaw. More will eventually appear in the Clawpack Applications repository.

        -

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        +

        System Message: WARNING/2 (/var/folders/_s/dx0xgftn3_x04rdx0_w5nq7w0000gn/T/tmpp0jqt8z_/56744eeda50bfc1d8fec79d45060637228943b2f/geoclaw.rst, line 36)

        toctree contains reference to nonexisting document ‘geoclaw/topotools_examples’

        -

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        +

        System Message: WARNING/2 (/var/folders/_s/dx0xgftn3_x04rdx0_w5nq7w0000gn/T/tmpp0jqt8z_/56744eeda50bfc1d8fec79d45060637228943b2f/geoclaw.rst, line 36)

        toctree contains reference to nonexisting document ‘geoclaw/dtopotools_examples’

        -

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        +

        System Message: WARNING/2 (/var/folders/_s/dx0xgftn3_x04rdx0_w5nq7w0000gn/T/tmpp0jqt8z_/56744eeda50bfc1d8fec79d45060637228943b2f/geoclaw.rst, line 36)

        toctree contains reference to nonexisting document ‘geoclaw/Okada’

        diff --git a/v5.4.x/geoclaw_util_module.html b/v5.4.x/geoclaw_util_module.html index 100f74556..97d6e3fa2 100644 --- a/v5.4.x/geoclaw_util_module.html +++ b/v5.4.x/geoclaw_util_module.html @@ -112,7 +112,7 @@

        Navigation

        Note: If using this to initialize a radially-symmetric 2d velocity on the sphere based on a radial velocity U(r), symmetric about (x0, y0), set:

        -

        System Message: ERROR/3 (/Users/rjl/git/clawpack/clawpack/geoclaw/util.py:docstring of clawpack.geoclaw.util.bearing, line 9)

        +

        System Message: ERROR/3 (/Users/rjl/clawpack_src/clawpack_master/clawpack/geoclaw/util.py:docstring of clawpack.geoclaw.util.bearing, line 9)

        Unexpected indentation.

        diff --git a/v5.4.x/kmltools_module.html b/v5.4.x/kmltools_module.html index f14f0d7c3..450e5c564 100644 --- a/v5.4.x/kmltools_module.html +++ b/v5.4.x/kmltools_module.html @@ -110,6 +110,7 @@

        Navigation

      • topo2kml - create a kml outline for each topo grid specified in setrun

      • dtopo2kml - create a kml outline for each dtopo grid specified in setrun

      • fgmax2kml - create a kml outline for each fgmax grid specified in setrun

        • +

      • fgout2kml - create a kml outline for each fgout grid specified in setrun

      • make_input_data_kmls - make kml files for many things specified in setrun

      • pcolorcells_for_kml - version of pcolormesh with appropriate dpi and size

      • png2kml - create kml file wrapping a png figure to be viewed on GE

        • @@ -189,6 +190,28 @@

        Navigation

        +
        +
        +clawpack.geoclaw.kmltools.fgout2kml(rundata=None, fname='fgout_grids.kml', verbose=True, combined=False)
        +

        Create a KML box for each fgout grid specified for a GeoClaw run.

        +
        +
        Inputs
        +
          +

        • rundata - an object of class ClawRunData or None

          +

          If rundata==None, try to create based on executing function setrun +from the setrun.py file in the current directory.

          +
          • +

        • fname (str) - resulting kml file.

          • +

        • verbose (bool) - If True, print out info about each region found

          • +

        • combined (bool) - If True, combine into single kml file with +name given by fname. NOT YET IMPLEMENTED. +If False, fname is ignored and individual files are created for +each fgout grid.

          • +
        +
        +
        +
        +
        clawpack.geoclaw.kmltools.gauges2kml(rundata=None, fname='gauges.kml', verbose=True)
        @@ -336,7 +359,7 @@

        Navigation

        Internally the value dpi (dots per inch) for the png file is determined so that it is at least 16 and so that:

        -

        System Message: ERROR/3 (/Users/rjl/git/clawpack/clawpack/geoclaw/kmltools.py:docstring of clawpack.geoclaw.kmltools.pcolorcells_for_kml, line 36)

        +

        System Message: ERROR/3 (/Users/rjl/clawpack_src/clawpack_master/clawpack/geoclaw/kmltools.py:docstring of clawpack.geoclaw.kmltools.pcolorcells_for_kml, line 36)

        Unexpected indentation.

        @@ -344,7 +367,7 @@

        Navigation

        dpi * y_inches = dcp * y_cells

        -

        System Message: WARNING/2 (/Users/rjl/git/clawpack/clawpack/geoclaw/kmltools.py:docstring of clawpack.geoclaw.kmltools.pcolorcells_for_kml, line 38)

        +

        System Message: WARNING/2 (/Users/rjl/clawpack_src/clawpack_master/clawpack/geoclaw/kmltools.py:docstring of clawpack.geoclaw.kmltools.pcolorcells_for_kml, line 38)

        Block quote ends without a blank line; unexpected unindent.

        where x_cells, y_cells are the number of cells in each direction.

        @@ -354,14 +377,14 @@

        Navigation

        annotate the figure befor saving it as a png file, which should then be done with:

        -

        System Message: ERROR/3 (/Users/rjl/git/clawpack/clawpack/geoclaw/kmltools.py:docstring of clawpack.geoclaw.kmltools.pcolorcells_for_kml, line 46)

        +

        System Message: ERROR/3 (/Users/rjl/clawpack_src/clawpack_master/clawpack/geoclaw/kmltools.py:docstring of clawpack.geoclaw.kmltools.pcolorcells_for_kml, line 46)

        Unexpected indentation.

        plt.savefig(png_filename, transparent=True, dpi=kml_dpi)

        -

        System Message: WARNING/2 (/Users/rjl/git/clawpack/clawpack/geoclaw/kmltools.py:docstring of clawpack.geoclaw.kmltools.pcolorcells_for_kml, line 47)

        +

        System Message: WARNING/2 (/Users/rjl/clawpack_src/clawpack_master/clawpack/geoclaw/kmltools.py:docstring of clawpack.geoclaw.kmltools.pcolorcells_for_kml, line 47)

        Block quote ends without a blank line; unexpected unindent.

        The png_extent is needed in construcing a kml file to display the @@ -497,7 +520,7 @@

        Navigation

        -

        System Message: WARNING/2 (/Users/rjl/git/clawpack/clawpack/geoclaw/kmltools.py:docstring of clawpack.geoclaw.kmltools.topo2kmz, line 18)

        +

        System Message: WARNING/2 (/Users/rjl/clawpack_src/clawpack_master/clawpack/geoclaw/kmltools.py:docstring of clawpack.geoclaw.kmltools.topo2kmz, line 18)

        Field list ends without a blank line; unexpected unindent.

        If force_dry is an array of the same shape as topo.Z then another png diff --git a/v5.4.x/objects.inv b/v5.4.x/objects.inv index 5797d0ce0..121f85a40 100644 Binary files a/v5.4.x/objects.inv and b/v5.4.x/objects.inv differ diff --git a/v5.4.x/py-modindex.html b/v5.4.x/py-modindex.html index 214a25e42..fdb9312d9 100644 --- a/v5.4.x/py-modindex.html +++ b/v5.4.x/py-modindex.html @@ -114,6 +114,31 @@

        Python Module Index

            clawpack.geoclaw.util + + +     + clawpack.riemann.acoustics_1D_py + + + +     + clawpack.riemann.advection_1D_py + + + +     + clawpack.riemann.burgers_1D_py + + + +     + clawpack.riemann.euler_1D_py + + + +     + clawpack.riemann.shallow_1D_py +   p diff --git a/v5.4.x/pyclaw/examples.html b/v5.4.x/pyclaw/examples.html index 6831aff57..6a11b7e12 100644 --- a/v5.4.x/pyclaw/examples.html +++ b/v5.4.x/pyclaw/examples.html @@ -136,47 +136,47 @@

        From the command lineList of built-in examples

        You can see results from many of the examples in the galleries.

        -

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        +

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        toctree glob pattern ‘gallery/*adv*’ didn’t match any documents

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        +

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        toctree glob pattern ‘gallery/*acoust*’ didn’t match any documents

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        +

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        +

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        +

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        +

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        +

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        +

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        +

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        +

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        toctree contains reference to nonexisting document ‘pyclaw/gallery/kpp’

        -

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        +

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        toctree contains reference to nonexisting document ‘pyclaw/gallery/stegoton’

        diff --git a/v5.4.x/pyclaw/geometry.html b/v5.4.x/pyclaw/geometry.html index 505bee756..b0f6c61b6 100644 --- a/v5.4.x/pyclaw/geometry.html +++ b/v5.4.x/pyclaw/geometry.html @@ -619,10 +619,120 @@

        Parallel Geometry Objects

        -

        petclaw.geometry.Domain

        +

        petclaw.geometry.Domain

        +
        +
        +class petclaw.geometry.Domain(geom)
        +

        Bases: clawpack.pyclaw.geometry.Domain

        +

        Parallel Domain Class

        +

        Parent Class Documentation:

        +

        2D Classic (Clawpack) solver.

        +

        Solve using the wave propagation algorithms of Randy LeVeque’s +Clawpack code (www.clawpack.org).

        +

        In addition to the attributes of ClawSolver1D, ClawSolver2D +also has the following options:

        +
        +
        +dimensional_split
        +

        If True, use dimensional splitting (Godunov splitting). +Dimensional splitting with Strang splitting is not supported +at present but could easily be enabled if necessary. +If False, use unsplit Clawpack algorithms, possibly including +transverse Riemann solves.

        +
        + +
        +
        +transverse_waves
        +

        If dimensional_split is True, this option has no effect. If +dimensional_split is False, then transverse_waves should be one of +the following values:

        +

        ClawSolver2D.no_trans: Transverse Riemann solver +not used. The stable CFL for this algorithm is 0.5. Not recommended.

        +

        ClawSolver2D.trans_inc: Transverse increment waves are computed +and propagated.

        +

        ClawSolver2D.trans_cor: Transverse increment waves and transverse +correction waves are computed and propagated.

        +
        + +

        Note that only the fortran routines are supported for now in 2D.

        +

        Parent Class Documentation:

        +

        Generic classic Clawpack solver

        +

        All Clawpack solvers inherit from this base class.

        +
        +
        +mthlim
        +

        Limiter(s) to be used. Specified either as one value or a list. +If one value, the specified limiter is used for all wave families. +If a list, the specified values indicate which limiter to apply to +each wave family. Take a look at pyclaw.limiters.tvd for an enumeration. +Default = limiters.tvd.minmod

        +
        + +
        +
        +order
        +

        Order of the solver, either 1 for first order (i.e., Godunov’s method) +or 2 for second order (Lax-Wendroff-LeVeque). +Default = 2

        +
        + +
        +
        +source_split
        +

        Which source splitting method to use: 1 for first +order Godunov splitting and 2 for second order Strang splitting. +Default = 1

        +
        + +
        +
        +fwave
        +

        Whether to split the flux jump (rather than the jump in Q) into waves; +requires that the Riemann solver performs the splitting. +Default = False

        +
        + +
        +
        +step_source
        +

        Handle for function that evaluates the source term. +The required signature for this function is:

        +

        def step_source(solver,state,dt)

        +
        + +
        +
        +kernel_language
        +

        Specifies whether to use wrapped Fortran routines (‘Fortran’) +or pure Python (‘Python’). Default = 'Fortran'.

        +
        + +
        +
        +verbosity
        +

        The level of detail of logged messages from the Fortran solver. +Default = 0.

        +
        + +
        +
        -

        petclaw.geometry.Patch

        +

        petclaw.geometry.Patch

        +
        +
        +class petclaw.geometry.Patch(dimensions)
        +

        Bases: clawpack.pyclaw.geometry.Patch

        +

        Parallel Patch class.

        +

        Parent Class Documentation:

        +
        +
        Global Patch information
        +

        Each patch has a value for level and patch_index.

        +
        +
        +
        +

        diff --git a/v5.4.x/pyclaw/index.html b/v5.4.x/pyclaw/index.html index 511e45c69..d0a424e32 100644 --- a/v5.4.x/pyclaw/index.html +++ b/v5.4.x/pyclaw/index.html @@ -114,11 +114,11 @@

        Navigation

        PyClaw Documentation

        -

        System Message: WARNING/2 (/var/folders/_s/dx0xgftn3_x04rdx0_w5nq7w0000gn/T/tmp8prh_j6r/56744eeda50bfc1d8fec79d45060637228943b2f/pyclaw/index.rst, line 39)

        +

        System Message: WARNING/2 (/var/folders/_s/dx0xgftn3_x04rdx0_w5nq7w0000gn/T/tmpp0jqt8z_/56744eeda50bfc1d8fec79d45060637228943b2f/pyclaw/index.rst, line 39)

        toctree contains reference to nonexisting document ‘pyclaw/gallery/gallery_all’

        -

        System Message: WARNING/2 (/var/folders/_s/dx0xgftn3_x04rdx0_w5nq7w0000gn/T/tmp8prh_j6r/56744eeda50bfc1d8fec79d45060637228943b2f/pyclaw/index.rst, line 39)

        +

        System Message: WARNING/2 (/var/folders/_s/dx0xgftn3_x04rdx0_w5nq7w0000gn/T/tmpp0jqt8z_/56744eeda50bfc1d8fec79d45060637228943b2f/pyclaw/index.rst, line 39)

        toctree contains reference to nonexisting document ‘pyclaw/gallery/how-to-build’

        diff --git a/v5.4.x/pyclaw/rp.html b/v5.4.x/pyclaw/rp.html index 63ff2cad6..0e7321daa 100644 --- a/v5.4.x/pyclaw/rp.html +++ b/v5.4.x/pyclaw/rp.html @@ -163,18 +163,328 @@

        Navigation

        Acoustics

        +

        Riemann solvers for constant coefficient acoustics.

        +
        +\[q_t + A q_x = 0\]
        +

        where

        +
        +\[\begin{split}q(x,t) = \left [ \begin{array}{c} p(x,t) \\ u(x,t) \end{array} \right ]\end{split}\]
        +

        and the coefficient matrix is

        +
        +\[\begin{split}A = \left [\begin{matrix} +0 & K\\ +1/\rho & 0 +\end{matrix} \right ]\end{split}\]
        +

        The parameters \(\rho =\) density and \(K =\) bulk modulus are used +to calculate the impedence \(= Z\) and speed of sound = c.

        +
        +
        Authors
        +

        Kyle T. Mandli (2009-02-03): Initial version

        +
        +
        +
        +
        +clawpack.riemann.acoustics_1D_py.acoustics_1D(q_l, q_r, aux_l, aux_r, problem_data)
        +

        Basic 1d acoustics riemann solver, with interleaved arrays

        +
        +
        problem_data is expected to contain -
          +

        • zz - (float) Impedence

          • +

        • cc - (float) Speed of sound

          • +
        +
        +
        +

        See Riemann Solver Package for more details.

        +
        +
        Version
        +

        1.0 (2009-02-03)

        +
        +
        +
        +

        Advection

        +

        Simple advection Riemann solvers

        +

        Basic advection Riemann solvers of the form (1d)

        +
        +\[q_t + A q_x = 0.\]
        +
        +
        Authors
        +

        Kyle T. Mandli (2008-2-20): Initial version

        +
        +
        +
        +
        +clawpack.riemann.advection_1D_py.advection_1D(q_l, q_r, aux_l, aux_r, problem_data)
        +

        Basic 1d advection riemann solver

        +
        +
        problem_data should contain -
          +

        • u - (float) Determines advection speed

          • +
        +
        +
        +

        See Riemann Solver Package for more details.

        +
        +
        Version
        +

        1.0 (2008-2-20)

        +
        +
        +
        +

        Burgers Equation

        +

        Riemann solvers for Burgers equation

        +
        +\[u_t + \left ( \frac{1}{2} u^2 \right)_x = 0\]
        +
        +
        Authors
        +

        Kyle T. Mandli (2009-2-4): Initial version

        +
        +
        +
        +
        +clawpack.riemann.burgers_1D_py.burgers_1D(q_l, q_r, aux_l, aux_r, problem_data)
        +

        Riemann solver for Burgers equation in 1d

        +
        +
        problem_data should contain -
          +

        • efix - (bool) Whether a entropy fix should be used, if not present, +false is assumed

          • +
        +
        +
        +

        See Riemann Solver Package for more details.

        +
        +
        Version
        +

        1.0 (2009-2-4)

        +
        +
        +
        +

        Euler Equations

        +

        Riemann solvers for the Euler equations

        +

        This module contains Riemann solvers for the Euler equations which have the +form (in 1d):

        +
        +\[q_t + f(q)_x = 0\]
        +

        where

        +
        +\[\begin{split}q(x,t) = \left [ \begin{array}{c} \rho \\ \rho u \\ E \end{array} \right ],\end{split}\]
        +

        the flux function is

        +
        +\[\begin{split}f(q) = \left [ \begin{array}{c} \rho u \\ \rho u^2 + p \\ u(E+p) \end{array}\right ].\end{split}\]
        +

        and \(\rho\) is the density, \(u\) the velocity, \(E\) is the +energy and \(p\) is the pressure.

        +

        Unless otherwise noted, the ideal gas equation of state is used:

        +
        +\[E = (\gamma - 1) \left (E - \frac{1}{2}\rho u^2 \right)\]
        +
        +
        +clawpack.riemann.euler_1D_py.euler_exact_1D(q_l, q_r, aux_l, aux_r, problem_data)
        +

        Exact euler Riemann solver

        +
        +

        Warning

        +

        This solver has not been implemented.

        +
        +
        + +
        +
        +clawpack.riemann.euler_1D_py.euler_hll_1D(q_l, q_r, aux_l, aux_r, problem_data)
        +

        HLL euler solver

        +
        W_1 = Q_hat - Q_l    s_1 = min(u_l-c_l,u_l+c_l,lambda_roe_1,lambda_roe_2)
+W_2 = Q_r - Q_hat    s_2 = max(u_r-c_r,u_r+c_r,lambda_roe_1,lambda_roe_2)
+
+Q_hat = ( f(q_r) - f(q_l) - s_2 * q_r + s_1 * q_l ) / (s_1 - s_2)
+
        +
        +
        +
        problem_data should contain:
          +

        • gamma - (float) Ratio of the heat capacities

          • +

        • gamma1 - (float) \(1 - \gamma\)

          • +
        +
        +
        +
        +
        Version
        +

        1.0 (2014-03-04)

        +
        +
        +
        + +
        +
        +clawpack.riemann.euler_1D_py.euler_hllc_1D(q_l, q_r, aux_l, aux_r, problem_data)
        +

        HLLC Euler solver

        +
        W_1 = q_hat_l - q_l      s_1 = min(u_l-c_l,u_l+c_l,lambda_roe_1,lambda_roe_2)
+W_2 = q_hat_r - q_hat_l  s_2 = s_m
+W_3 = q_r - q_hat_r      s_3 = max(u_r-c_r,u_r+c_r,lambda_roe_1,lambda_roe_2)
+s_m = (p_r - p_l + rho_l*u_l*(s_l - u_l) - rho_r*u_r*(s_r - u_r))\
+  / (rho_l*(s_l-u_l) - rho_r*(s_r - u_r))
+
        +
        +

        left middle state:

        +
        q_hat_l[0,:] = rho_l*(s_l - u_l)/(s_l - s_m)
+q_hat_l[1,:] = rho_l*(s_l - u_l)/(s_l - s_m)*s_m
+q_hat_l[2,:] = rho_l*(s_l - u_l)/(s_l - s_m)\
+        *(E_l/rho_l + (s_m - u_l)*(s_m + p_l/(rho_l*(s_l - u_l))))
+
        +
        +

        right middle state:

        +
        q_hat_r[0,:] = rho_r*(s_r - u_r)/(s_r - s_m)
+q_hat_r[1,:] = rho_r*(s_r - u_r)/(s_r - s_m)*s_m
+q_hat_r[2,:] = rho_r*(s_r - u_r)/(s_r - s_m)\
+        *(E_r/rho_r + (s_m - u_r)*(s_m + p_r/(rho_r*(s_r - u_r))))
+
        +
        +

        problem_data should contain:

        +
        +
          +

        • gamma: (float) Ratio of specific heat capacities

          • +

        • gamma1: (float) \(\gamma - 1\)

          • +
        +
        +

        :Version 1.0 (2015-11-18)

        +
        + +
        +
        +clawpack.riemann.euler_1D_py.euler_roe_1D(q_l, q_r, aux_l, aux_r, problem_data)
        +

        Roe Euler solver in 1d

        +
        +
        aug_global should contain -
          +

        • gamma - (float) Ratio of the heat capacities

          • +

        • gamma1 - (float) \(1 - \gamma\)

          • +

        • efix - (bool) Whether to use an entropy fix or not

          • +
        +
        +
        +

        See Riemann Solver Package for more details.

        +
        +
        Version
        +

        1.0 (2009-6-26)

        +
        +
        +
        +

        Shallow Water Equations

        +

        Riemann solvers for the shallow water equations.

        +
        +
        The available solvers are:
          +

        • Roe - Use Roe averages to caluclate the solution to the Riemann problem

          • +

        • HLL - Use a HLL solver

          • +
        • +
          Exact - Use a newton iteration to calculate the exact solution to the

          Riemann problem

          +
          +
          +
          • +
        +
        +
        +
        +\[q_t + f(q)_x = 0\]
        +

        where

        +
        +\[\begin{split}q(x,t) = \left [ \begin{array}{c} h \\ h u \end{array} \right ],\end{split}\]
        +

        the flux function is

        +
        +\[\begin{split}f(q) = \left [ \begin{array}{c} h u \\ hu^2 + 1/2 g h^2 \end{array}\right ].\end{split}\]
        +

        and \(h\) is the water column height, \(u\) the velocity and \(g\) +is the gravitational acceleration.

        +
        +
        +clawpack.riemann.shallow_1D_py.shallow_exact_1D(q_l, q_r, aux_l, aux_r, problem_data)
        +

        Exact shallow water Riemann solver

        +
        +

        Warning

        +

        This solver has not been implemented.

        +
        +
        + +
        +
        +clawpack.riemann.shallow_1D_py.shallow_fwave_1d(q_l, q_r, aux_l, aux_r, problem_data)
        +

        Shallow water Riemann solver using fwaves

        +

        Also includes support for bathymetry but be wary if you think you might have +dry states as this has not been tested.

        +
        +
        problem_data should contain:
          +

        • grav - (float) Gravitational constant

          • +

        • dry_tolerance - (float) Set velocities to zero if h is below this +tolerance.

          • +

        • sea_level - (float) Datum from which the dry-state is calculated.

          • +
        +
        +
        +
        +
        Version
        +

        1.0 (2014-09-05)

        +
        +
        Version
        +

        2.0 (2017-03-07)

        +
        +
        +
        + +
        +
        +clawpack.riemann.shallow_1D_py.shallow_hll_1D(q_l, q_r, aux_l, aux_r, problem_data)
        +

        HLL shallow water solver

        +
        W_1 = Q_hat - Q_l    s_1 = min(u_l-c_l,u_l+c_l,lambda_roe_1,lambda_roe_2)
+W_2 = Q_r - Q_hat    s_2 = max(u_r-c_r,u_r+c_r,lambda_roe_1,lambda_roe_2)
+
+Q_hat = ( f(q_r) - f(q_l) - s_2 * q_r + s_1 * q_l ) / (s_1 - s_2)
+
        +
        +
        +
        problem_data should contain:
          +

        • g - (float) Gravitational constant

          • +
        +
        +
        +
        +
        Version
        +

        1.0 (2009-02-05)

        +
        +
        +
        + +
        +
        +clawpack.riemann.shallow_1D_py.shallow_roe_1D(q_l, q_r, aux_l, aux_r, problem_data)
        +

        Roe shallow water solver in 1d:

        +
        ubar = (sqrt(u_l) + sqrt(u_r)) / (sqrt(h_l) + sqrt(h_r))
+cbar = sqrt( 0.5 * g * (h_l + h_r))
+
+W_1 = |      1      |  s_1 = ubar - cbar
+      | ubar - cbar |
+
+W_2 = |      1      |  s_1 = ubar + cbar
+      | ubar + cbar |
+
+a1 = 0.5 * ( - delta_hu + (ubar + cbar) * delta_h ) / cbar
+a2 = 0.5 * (   delta_hu - (ubar - cbar) * delta_h ) / cbar
+
        +
        +
        +
        problem_data should contain:
          +

        • g - (float) Gravitational constant

          • +

        • efix - (bool) Boolean as to whether a entropy fix should be used, if +not present, false is assumed

          • +
        +
        +
        +
        +
        Version
        +

        1.0 (2009-02-05)

        +
        +
        +
        +
        diff --git a/v5.4.x/pyclaw/solution.html b/v5.4.x/pyclaw/solution.html index 030d9d3ab..2587a614b 100644 --- a/v5.4.x/pyclaw/solution.html +++ b/v5.4.x/pyclaw/solution.html @@ -116,10 +116,10 @@

        Navigation

        petclaw.state.State

        pyclaw.geometry.Domain

        -

        petclaw.geometry.Domain

        +

        petclaw.geometry.Domain

        pyclaw.geometry.Patch

        -

        petclaw.geometry.Patch

        +

        petclaw.geometry.Patch

        pyclaw.geometry.Grid

        @@ -215,7 +215,7 @@

        Navigation

        -read(frame, path='./_output', file_format='ascii', file_prefix=None, read_aux=True, options={}, **kargs)
        +read(frame, path='./_output', file_format=None, file_prefix='fort', read_aux=True, options={}, **kargs)

        Reads in a Solution object from a file

        Reads in and initializes this Solution with the data specified. This function will raise an IOError if it was unsuccessful.

        @@ -234,7 +234,8 @@

        Navigation

      • path - (string) Base path to the files to be read. default = './_output'

      • file_format - (string) Format of the file, should match on of the -modules inside of the io package. default = 'ascii'

        • +modules inside of the io package. default = None +but now attempts to read from header file (as of v5.9.0).

      • file_prefix - (string) Name prefix in front of all the files, defaults to whatever the format defaults to, e.g. fort for ascii

      • options - (dict) Dictionary of optional arguments dependent on diff --git a/v5.4.x/pyclaw/state.html b/v5.4.x/pyclaw/state.html index 903b91eeb..6016bd278 100644 --- a/v5.4.x/pyclaw/state.html +++ b/v5.4.x/pyclaw/state.html @@ -92,7 +92,7 @@

        Navigation

        object also handles some of the parallel communication required of the state on the given patch such that only the parts of the fields local to the process. If you are interested in the geometry of the local state you can find it through the -Patch object’s reference to its own +Patch object’s reference to its own Grid.

        Serial pyclaw.state.State

        diff --git a/v5.4.x/python_path.html b/v5.4.x/python_path.html index 34fcf53ec..d53970770 100644 --- a/v5.4.x/python_path.html +++ b/v5.4.x/python_path.html @@ -74,7 +74,7 @@

        Navigation

        -

        System Message: WARNING/2 (/var/folders/_s/dx0xgftn3_x04rdx0_w5nq7w0000gn/T/tmp8prh_j6r/56744eeda50bfc1d8fec79d45060637228943b2f/python_path.rst, line 2)

        +

        System Message: WARNING/2 (/var/folders/_s/dx0xgftn3_x04rdx0_w5nq7w0000gn/T/tmpp0jqt8z_/56744eeda50bfc1d8fec79d45060637228943b2f/python_path.rst, line 2)

        Field list ends without a blank line; unexpected unindent.

        diff --git a/v5.4.x/qinit_defaults.html b/v5.4.x/qinit_defaults.html index aac0469a7..a0d127bfd 100644 --- a/v5.4.x/qinit_defaults.html +++ b/v5.4.x/qinit_defaults.html @@ -74,7 +74,7 @@

        Navigation

        -

        System Message: WARNING/2 (/var/folders/_s/dx0xgftn3_x04rdx0_w5nq7w0000gn/T/tmp8prh_j6r/56744eeda50bfc1d8fec79d45060637228943b2f/qinit_defaults.rst, line 2)

        +

        System Message: WARNING/2 (/var/folders/_s/dx0xgftn3_x04rdx0_w5nq7w0000gn/T/tmpp0jqt8z_/56744eeda50bfc1d8fec79d45060637228943b2f/qinit_defaults.rst, line 2)

        Field list ends without a blank line; unexpected unindent.

        @@ -86,17 +86,17 @@

        Navigation

        the initial conditions as desired.

        $CLAW/classic/src/1d/qinit.f90:

        -

        System Message: WARNING/2 (/var/folders/_s/dx0xgftn3_x04rdx0_w5nq7w0000gn/T/tmp8prh_j6r/56744eeda50bfc1d8fec79d45060637228943b2f/qinit_defaults.rst, line 18)

        +

        System Message: WARNING/2 (/var/folders/_s/dx0xgftn3_x04rdx0_w5nq7w0000gn/T/tmpp0jqt8z_/56744eeda50bfc1d8fec79d45060637228943b2f/qinit_defaults.rst, line 18)

        Include file ‘/var/folders/_s/dx0xgftn3_x04rdx0_w5nq7w0000gn/T/classic/src/1d/qinit.f90’ not found or reading it failed

        $CLAW/classic/src/2d/qinit.f90:

        -

        System Message: WARNING/2 (/var/folders/_s/dx0xgftn3_x04rdx0_w5nq7w0000gn/T/tmp8prh_j6r/56744eeda50bfc1d8fec79d45060637228943b2f/qinit_defaults.rst, line 24)

        +

        System Message: WARNING/2 (/var/folders/_s/dx0xgftn3_x04rdx0_w5nq7w0000gn/T/tmpp0jqt8z_/56744eeda50bfc1d8fec79d45060637228943b2f/qinit_defaults.rst, line 24)

        Include file ‘/var/folders/_s/dx0xgftn3_x04rdx0_w5nq7w0000gn/T/classic/src/2d/qinit.f90’ not found or reading it failed

        $CLAW/classic/src/3d/qinit.f90:

        -

        System Message: WARNING/2 (/var/folders/_s/dx0xgftn3_x04rdx0_w5nq7w0000gn/T/tmp8prh_j6r/56744eeda50bfc1d8fec79d45060637228943b2f/qinit_defaults.rst, line 30)

        +

        System Message: WARNING/2 (/var/folders/_s/dx0xgftn3_x04rdx0_w5nq7w0000gn/T/tmpp0jqt8z_/56744eeda50bfc1d8fec79d45060637228943b2f/qinit_defaults.rst, line 30)

        Include file ‘/var/folders/_s/dx0xgftn3_x04rdx0_w5nq7w0000gn/T/classic/src/3d/qinit.f90’ not found or reading it failed

        @@ -107,7 +107,7 @@

        Navigation

        qinit data file parameters.

        $CLAW/geoclaw/src/2d/shallow/qinit.f90:

        -

        System Message: WARNING/2 (/var/folders/_s/dx0xgftn3_x04rdx0_w5nq7w0000gn/T/tmp8prh_j6r/56744eeda50bfc1d8fec79d45060637228943b2f/qinit_defaults.rst, line 47)

        +

        System Message: WARNING/2 (/var/folders/_s/dx0xgftn3_x04rdx0_w5nq7w0000gn/T/tmpp0jqt8z_/56744eeda50bfc1d8fec79d45060637228943b2f/qinit_defaults.rst, line 47)

        Include file ‘/var/folders/_s/dx0xgftn3_x04rdx0_w5nq7w0000gn/T/geoclaw/src/2d/shallow/qinit.f90’ not found or reading it failed

        diff --git a/v5.4.x/release_5_0_0.html b/v5.4.x/release_5_0_0.html index caf2608ab..1ee9872b2 100644 --- a/v5.4.x/release_5_0_0.html +++ b/v5.4.x/release_5_0_0.html @@ -74,7 +74,7 @@

        Navigation

        -

        System Message: WARNING/2 (/var/folders/_s/dx0xgftn3_x04rdx0_w5nq7w0000gn/T/tmp8prh_j6r/56744eeda50bfc1d8fec79d45060637228943b2f/release_5_0_0.rst, line 2)

        +

        System Message: WARNING/2 (/var/folders/_s/dx0xgftn3_x04rdx0_w5nq7w0000gn/T/tmpp0jqt8z_/56744eeda50bfc1d8fec79d45060637228943b2f/release_5_0_0.rst, line 2)

        Field list ends without a blank line; unexpected unindent.

        diff --git a/v5.4.x/release_5_1_0.html b/v5.4.x/release_5_1_0.html index f786470dc..eec2b2ddf 100644 --- a/v5.4.x/release_5_1_0.html +++ b/v5.4.x/release_5_1_0.html @@ -74,7 +74,7 @@

        Navigation

        -

        System Message: WARNING/2 (/var/folders/_s/dx0xgftn3_x04rdx0_w5nq7w0000gn/T/tmp8prh_j6r/56744eeda50bfc1d8fec79d45060637228943b2f/release_5_1_0.rst, line 2)

        +

        System Message: WARNING/2 (/var/folders/_s/dx0xgftn3_x04rdx0_w5nq7w0000gn/T/tmpp0jqt8z_/56744eeda50bfc1d8fec79d45060637228943b2f/release_5_1_0.rst, line 2)

        Field list ends without a blank line; unexpected unindent.

        diff --git a/v5.4.x/release_5_2_0.html b/v5.4.x/release_5_2_0.html index 1f90db9f4..2ede60668 100644 --- a/v5.4.x/release_5_2_0.html +++ b/v5.4.x/release_5_2_0.html @@ -74,7 +74,7 @@

        Navigation

        -

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,4,5,12,14,24,29,44,47,56,61,68,70,79,91,101,112,118,121,134],applic:[4,5,13,14,18,19,21,22,23,27,28,31,33,34,35,37,38,41,42,49,51,55,59,62,70,80,81,82,85,91,96,99,100,101,102,104,107,108,110,111,113,115,118,121,125,126,129,131,134,135],appreci:73,approach:[6,12,27,40,48,50,51,60,67,76,86,88,96,101,108,110,111,113,117,121,134,137],appropri:[4,5,12,14,23,27,41,44,45,47,49,52,56,58,59,60,62,75,78,79,80,84,86,87,88,89,90,102,113,114,118,134,137],approv:44,approxim:[5,14,44,47,61],april:23,apt:[12,97],arbitrari:[31,52,91,104,121],arc:114,arcgi:131,architectur:86,archiv:[11,20,34,47,49,102,123,127,131,133],area:[13,21,91,110,115],arg:[81,90],argument:[0,1,2,3,26,29,43,46,47,68,75,76,80,81,84,88,90,91,93,96,102,113,117,118,119,131,134],argv:[120,122],aris:[53,73],arithmet:56,aron:[4,15,73,83],arora:79,arora_ro:79,around:[5,29,31,52,102,119,120,131,134],arrai:[0,3,5,13,19,21,26,29,31,40,43,45,52,68,75,76,78,79,81,83,84,85,88,89,90,91,93,95,96,97,104,105,106,110,113,115,118,119,120,121,122,131,134],arrang:131,arriv:[21,31,32,41,110,114],arrival_tol:31,articl:[4,15,83,123],artifici:14,asc:131,ascii:[40,58,75,78,85,90,110,112,118,120,122,129,135],ascii_output_format:59,ask:23,ask_us:131,aspect:[44,45,58,131],assembl:50,assert:[120,122],assess:[44,114],assign:[29,31,75,78,90],assist:[21,31],associ:[0,1,2,5,21,47,51,62,81,84,85,102],assum:[3,19,21,29,34,43,44,47,48,49,50,52,58,61,67,85,87,88,95,96,101,108,114,118,121,129,131,133,137],assumpt:47,astronom:114,aterrel:4,atmospher:4,attach:[49,93],attempt:[7,10,19,33,34,54,96,102,104,131,132],attirbut:21,attr:[81,90],attribut:[6,21,29,40,67,69,70,75,78,81,86,88,90,91,101,104,109,112,117,118,119,121,131],attributeerror:68,aug:15,august:23,austin:4,author:[15,24,41,44,79,83,100],auto:[0,40,76],autom:[76,102],automat:[0,2,3,7,10,14,29,33,34,37,47,49,54,67,68,70,75,80,84,86,92,93,94,96,102,104,118,119,121,129],autumn:23,aux1:31,aux1d:134,aux:[5,13,19,21,26,31,40,76,83,85,88,90,91,93,94,104,105,110,113,115,118,119,120,122,134],aux_bc_low:88,aux_bc_upp:88,aux_l:[89,113],aux_out_field:40,aux_r:[89,113],aux_time_dep:91,aux_typ:[119,120],auxbc:[88,91,93],auxiliari:[21,76,78,84,89,91,93,113,118,120,122,134],auxillari:90,auxl:113,auxr:113,auxtyp:120,avail:[0,4,9,14,21,22,23,39,40,42,44,47,50,51,54,58,67,69,70,75,78,83,84,85,87,89,91,94,95,96,97,98,111,113,114,118,120,121,123,129],averag:[4,5,13,15,41,44,45,58,93,105,113,115,129,131,134],avoid:[31,47,52,54,58,81,85,104,105,109,110,112,118,121,137],awai:[27,114],awar:[44,86],awr11:15,axes1:[2,70],axes:[0,1,2,26,29,40,47,58,67,68,70,117,131],axescmd:[0,70],axesnam:[1,70],axessubplot:29,axi:[0,29,45,47,58,68,81],azv:48,b0002:63,b4step1:[13,55,134],b4step2:[13,134],b4step3:13,b4stepn:134,back:[12,26,31,48,49,50,111],backend:47,background:[2,67,117],backward:[27,29,43,52,97,105,106,131],bad:102,bai:[114,133],balanc:[5,15,64,111,125,126],bale:15,balelevmitross02:[4,15,118,137],ball:131,band1:131,band:[47,131],bar:[12,48],barrier:96,base:[5,12,19,20,21,27,29,41,43,47,48,52,55,56,58,64,76,78,79,81,83,89,90,91,93,95,96,101,103,108,111,114,118,119,120,121,122,131,134,137],base_subfault:29,baselin:47,bash:[37,47,51,58,62,86,98,116],bash_profil:[94,116],bashrc:[12,37,94,116],basi:[40,58],basic:[5,9,11,24,29,33,35,41,58,75,81,83,85,91,102,137],bathymetri:[13,31,41,44,47,52,110,114,115,121,129,131],bc1:[55,96],bc1_inflow:55,bc2amr:14,bc_arrai:91,bc_lower:[14,75,88,95,118,120,122],bc_upper:[14,75,88,95,118,120,122],bcn:[5,14,122,134],bcnamr:[5,14,118,120,134],beam:79,bear:[29,43],bearing_unit:43,becaus:[21,26,31,47,85,86,104,113,114,118],becom:[44,94,137],been:[0,1,4,7,8,12,14,17,19,20,21,23,26,27,31,32,33,34,38,41,44,47,48,49,54,56,58,64,68,70,73,76,78,85,90,93,94,95,96,98,101,103,104,105,107,110,111,112,113,118,119,121,129,131,134],befor:[1,3,4,5,27,29,31,33,34,36,37,40,48,49,50,51,52,54,55,58,62,70,75,78,86,91,93,98,101,102,104,105,113,114,116,118,119,121,129,131,132],before_step:91,beforefram:[1,26],begin:[43,52,81,85,95],begin_d:43,behav:40,behavior:[48,101,102,109],behaviour:75,being:[1,3,4,7,12,40,44,70,78,89,90,91,96,98,101,109,111,113,118,129,132,134],believ:[44,110],belki:65,belong:[68,81,86,90,93],below:[3,5,12,13,14,17,21,23,29,31,47,48,49,50,51,52,56,58,61,70,73,75,77,85,95,97,98,99,101,102,105,106,107,108,109,110,111,113,115,117,118,119,120,121,122,125,126,129,131,134],benchmark:44,beowulf:50,berger:[4,5,15],bergercalhounhelzellevequ:14,bergercolella89:[5,15],bergergeorgelevequemandli11:[4,15],bergerleveque98:[4,5,6,15],bergeroliger84:[5,15],bergerrigoutsis91:[5,15],berkelei:[4,53,73],best:[3,14,21,25,27,37,47,49,54,60,62,67,68,88,100,101,102,113,121,124,129,134],beta:[43,79,91,122],beta_limit:79,better:[0,5,21,31,40,58,62,63,67,91,109,110,111,121,129],between:[3,4,5,12,14,22,27,29,30,43,47,49,52,58,61,62,64,67,78,81,85,91,93,94,96,101,109,110,113,114,118,119,120,121,122,123,128,129,131,133,134],bewar:131,beyond:[5,29],bgr:52,bibliographi:4,bibtex:4,big_earthquak:29,biggest:83,bilinear:[5,31,40,104,105,129],bin:86,binari:[37,49,50,53,5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133],convert_fort_double_to_float:96,convert_readm:10,convert_to_standard_unit:29,converttopotyp:129,convex:31,coodin:29,coord:[43,47],coordin:[22,29,31,43,63,67,75,81,85,86,95,101,121,131],coordinate_specif:29,coordinate_system:[13,115,121],coorind:131,copi:[5,13,14,33,34,40,47,48,49,51,58,75,78,88,93,99,100,101,105,109,115,123,125,126,129,134],copyq1:55,copyright:[53,73],core:[4,64,102],corioli:[44,121,125,126],coriolis_forc:[44,121],corner:[3,29,31,63,81,118,120,122,129,131],correct:[19,27,37,49,55,56,58,68,75,86,90,96,104,105,109,118,120,122],correctli:[27,31,76,82,108,121],correspond:[3,5,22,26,29,40,43,44,48,52,58,68,75,79,81,85,88,90,93,101,102,113,114,118,119,120,122,129,133,134],cos:[43,45,75,88],cosin:75,cost:[12,91],could:[12,26,31,33,34,40,51,62,68,70,75,81,85,93,94,97,98,108,119,120,121,122,129,131,134],council:4,count:75,count_from_zero:75,counter:[96,131],counterclockwis:61,coupl:[110,137],courant:[4,5,101,111,118,119,120,122],cours:[12,25,31,40,42,61,86,87,95,121,129],cover:[5,26,27,29,31,47,52,101,105,110,120,121,129],coverag:[83,102],covert:10,cparam:[75,93],cpu:[12,109,128],crash:[109,118],creat:[0,1,2,3,5,6,18,23,24,27,29,33,34,36,38,40,41,42,46,48,50,51,52,54,63,67,68,70,76,77,80,81,83,84,87,90,93,94,95,96,102,104,108,109,110,117,118,119,120,123,124,131,133,134,135],create_dtopo_xi:29,create_dtopographi:29,create_topo_func:131,creation:[68,83,104],criteria:[5,6,21,24,93],criterion:[31,101,120],critic:[47,85,113],crop:131,cross:27,crucial:[47,129],csdm:23,cse:23,csh:86,csv:29,csvfault:29,ctrl:[28,68],cube:58,current:[3,12,19,21,26,27,28,29,31,37,40,41,44,48,49,50,52,58,59,63,68,70,81,85,86,91,93,96,98,101,102,109,111,112,114,117,118,120,121,122,129,131,133],current_data:[0,3,24,40,67,68],curv:[3,40,67],custom:[0,12,14,19,21,24,55,58,64,67,76,82,88],custom_bc:88,customari:85,cut:119,cutoff:[5,120],cvs:47,cxx:86,cyber:15,cygwin:78,cython:86,dai:[5,12,47],dalcin:73,dam:[47,80],damag:[5,53,73],damian:50,damiansra:88,darker:47,darryl:15,dart:41,dash:[3,86],daspect:58,dat:29,data:[0,1,3,24,26,29,31,33,34,36,38,40,41,42,43,48,52,53,54,58,67,68,69,70,73,75,78,81,85,87,89,90,91,93,96,99,100,101,104,106,107,109,110,113,114,120,122,128,130,135],data_break:131,data_typ:96,databas:[12,29,96,129],datadir:109,dataset:[131,133],date:[27,36,43,47,48,49,50,54,68,132],date_tim:43,datetim:43,datum:[43,44,114,121,133],dave:29,davi:4,david:[4,15,73,83,91],dawson:15,daylight:52,dcp:52,deal:[29,44,67,85,86,93,131],dealt:31,debian:97,debug:[6,37,50,54,63,67,85,93,98,102,116,118,120],debugg:68,decid:[75,91],decim:[43,52],decis:47,declar:[19,21,93,134],decompos:[63,113,137],decomposit:118,decor:96,decoupl:48,decreas:40,deduc:129,deep:121,deep_depth:121,deeper:121,deepli:95,def:[0,1,3,40,47,68,75,85,88,91,120,122],default_tfluct:91,defenc:4,defin:[0,1,3,5,21,26,29,31,37,47,52,54,58,61,68,70,75,78,81,87,88,90,91,93,95,96,101,104,113,120,122,131,132,134,137],definit:[29,58,75,101,107],deform:[15,29,61,133],deg2dm:52,degre:[29,43,47,52,61],delet:[19,27],delimit:29,delin:121,delta:[79,81,88,91,113,131,134,137],delta_i:131,delta_limit:131,delta_x:131,dem:[52,131],demo:86,demonstr:[11,80,86],denot:[5,21,40,113,131],densiti:[78,85,93,95,119,120,134],depart:4,depdend:79,depend:[3,12,14,27,28,29,31,33,34,36,37,42,44,47,50,54,56,58,68,74,89,90,91,96,98,101,121,131,132,134,137],deprec:[6,29,32,108,121,131],depth:[4,14,15,21,29,31,40,41,44,56,61,67,69,114,121,129],deriv:[53,61,73,78,82,83,93,102],describ:[3,4,5,6,12,14,18,25,27,29,30,31,33,34,40,42,43,44,47,48,49,50,52,54,55,58,61,63,64,67,68,69,81,90,96,101,102,110,113,114,117,118,119,121,129,130,131,133,134,137],descript:[3,4,8,21,52,58,67,96,101,113,121,129,137],design:[4,26,27,47,73,75,95,114,133],desir:[0,1,2,3,5,6,14,21,24,25,29,31,38,40,49,51,52,66,67,68,70,75,76,78,85,90,91,99,110,116,118,120,122,129,131,132],desktop:86,destin:47,detail:[4,6,9,14,21,25,27,29,31,33,34,37,41,42,44,47,48,51,53,54,58,68,73,78,79,80,84,85,86,87,88,89,91,100,102,105,110,113,117,118,121,123,132,134,137],detect:[47,54,84,92,96,132],deterimin:131,determin:[3,5,29,31,40,44,46,47,48,52,68,79,81,93,101,105,109,110,112,114,117,118,119,121,131,134],determine_topo_typ:131,dev:[23,27,86],develop:[4,5,6,12,17,21,22,44,48,51,53,58,67,71,72,73,76,83,88,91,92,102,113,114,120,129],dict:[29,78,84,89,90,93,131],dictionari:[0,1,2,3,29,40,68,75,78,84,89,90,93,95,131],dicuss:29,didn:[80,107],died:104,diff:[17,46,49,104,105,106,107,108,109,110,111],differ:[1,3,5,6,11,14,21,27,29,30,31,33,34,40,42,44,46,51,52,54,56,58,61,62,67,70,75,76,78,80,81,89,91,96,97,98,101,102,108,109,110,111,113,114,116,118,119,120,121,129,131,132,133,134,137],differenti:[15,29],difficult:40,difficulti:[92,94],diffus:88,digit:[52,68,110,111,131],dim:[88,89,91],dimens:[5,6,14,19,21,40,43,52,58,75,76,78,86,88,89,90,93,95,101,113,118,119,120,122,131,134],dimension:[3,6,7,15,21,24,29,31,33,34,40,44,58,81,88,108,109,111,120,121,122,131,134],dimensional_split:[108,118,120,122],dip:[29,61],dir:[28,86,135],direct:[5,7,14,21,29,31,33,34,40,43,47,5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62,63,64,67,70,71,90,91,111,118,119,125,126,129,134,137],wendroff:[91,118,120,122,137],weno:[64,83,91],weno_ord:91,went:[50,51],were:[4,5,19,40,50,55,58,59,76,101,104,110],west:129,western:131,wet:[31,41],what:[5,8,12,21,27,29,30,44,46,47,48,49,50,51,52,54,55,58,59,63,67,75,78,82,90,93,95,97,98,100,101,102,109,114,117,118,120,121,122,123,129,131,133,134],whatev:[59,75,90,113],when:[13,14,19,27,29,31,36,37,40,45,46,47,48,49,50,51,56,58,61,62,63,64,67,68,70,75,82,86,87,91,94,98,102,104,105,107,109,110,111,113,114,115,116,117,118,119,120,121,122,123,129,131,132,133,134,135,137],whenc:85,whenev:[27,109,134],where:[1,3,5,12,14,21,26,29,31,33,34,36,40,41,44,47,48,50,51,52,54,56,58,59,63,64,70,78,81,82,84,86,89,98,101,104,105,108,109,110,112,114,116,117,118,120,121,122,128,129,131,134,137],wherea:[40,47,67,86],wherev:132,whether:[3,5,12,14,21,43,53,54,58,73,84,85,90,91,101,102,110,113,118,119,121,131],which:[0,1,3,4,5,6,10,12,14,19,21,24,27,29,31,33,34,35,40,42,44,47,48,49,51,52,54,56,58,61,62,63,68,70,71,75,76,78,79,80,81,84,85,86,87,88,89,90,91,92,94,95,96,97,101,102,104,105,108,110,112,113,114,118,119,120,121,129,131,133,134,136,137],whichclaw:132,white:52,whith:76,who:[9,18,21,23,31,37,44,50,51],whole:[27,47,85,86],whose:[3,68,76,88,89,118,119,131],wide:[51,97,98],wider:68,width:[29,47,52,61,63,81,88,93,101,120,122],wiki:92,wind:131,window:[12,29,58,70,97,116],wisdom:52,wise:[27,91],wish:[4,12,13,21,28,33,34,44,47,51,58,66,67,83,88,91,92,94,110,115,123,125,126,132],within:[5,14,27,51,64,68,87,96,98,101,113,117,123,131],without:[14,21,36,40,44,48,52,53,54,55,58,68,70,71,73,79,84,85,96,98,99,102,103,104,105,106,107,108,109,116,120,122,132,134],wkt:47,won:[12,76,131],woodward:111,word:85,work:[3,7,12,14,18,19,21,23,24,25,27,31,33,34,36,41,44,47,48,50,51,52,58,60,61,62,68,71,72,73,74,75,77,78,79,83,84,85,86,89,91,92,97,98,100,101,102,106,107,108,109,110,111,113,117,118,119,121,123,129,132,136],workflow:123,workspac:[58,93],world:[44,56,83,86],worst:114,worth:93,worthwhil:88,would:[2,3,12,14,26,27,31,37,47,49,54,55,63,68,73,75,78,81,85,96,98,102,110,114,117,118,129,134],wouldn:55,wpalg:15,wrap:[52,73,76,91,96],wrapper:131,write:[27,29,40,46,56,63,64,67,75,78,81,82,85,86,90,110,120,122,129,131],write_:84,write_aux:[84,90],write_aux_alwai:[75,78,85],write_aux_init:[75,78],write_aux_int:85,write_input_data:31,write_p:90,written:[5,10,24,29,36,40,52,53,63,64,68,73,82,84,88,97,110,113,118,119,120,121,122,131,134],wrong:[50,51,55,58,85,98,101],www:[4,12,15,29,39,41,48,53,59,73,76,83,86,111,131],x_cell:52,x_edg:52,x_i:[113,134,137],x_inch:52,x_mask:131,xarr:81,xarrai:131,xarray_d:131,xclaw:[33,34,78],xclawcmd:78,xclawerr:78,xclawout:78,xcode:71,xdir:78,xiaom:29,xleft:[119,120],xlf:92,xlimit:[0,40,47],xllcorner:129,xlow:63,xlower:[0,3,14,21,26,76,120,122,129,131,134],xlowerg:76,xmax:0,xmin:0,xpoint:121,xrang:88,xtick:45,xupper:[0,21,120,122,131],xxdiff:102,xxxx:58,xylim:29,xzvf:50,y_cell:52,y_edg:52,y_inch:52,year:[4,15,21,47,52,83,103],yellow:[52,68],yellow_red_blu:68,yes:58,yet:[1,12,19,44,48,52,67,91,110,111,113,118,120,136],yianni:[4,15,73],yield:3,yleft:[119,120],ylimit:[0,40,47,117],yllcorner:129,ylow:63,ylower:[3,21,26,76,120,129,131],ylowerg:76,ymax:0,ymin:0,yml:102,yong:15,you:[0,3,4,12,13,14,17,18,19,21,22,23,24,25,26,27,28,31,33,34,35,36,37,38,40,43,46,47,48,49,50,51,52,54,55,58,59,60,61,62,63,64,66,67,68,70,71,73,75,76,77,78,80,83,84,85,86,87,88,91,92,93,94,95,97,98,100,102,104,109,110,111,112,113,114,115,116,117,120,121,122,123,124,125,126,127,129,132,133,134,136],your:[5,13,14,18,19,23,24,25,31,33,35,37,40,48,49,50,51,59,62,67,68,70,73,74,75,76,77,80,82,83,85,94,95,97,98,99,101,102,104,113,115,116,125,126,129,132,134],yourself:[37,40],ypoint:121,yupper:[21,120,131],z_format:131,zenodo:[4,16,72],zero:[3,14,29,37,52,58,75,88,93,95,114],zip:[11,47,49],zipinfo:47,zlim:52,zlower:21,zone:[44,47,52,119,120],zoom:47,zsh:86,zupper:21,zvar:131},titles:["ClawPlotAxes","ClawPlotData","ClawPlotFigure","ClawPlotItem","About this software","Adaptive mesh refinement (AMR) algorithms","AMRClaw","AMRClaw for 1d problems","Doxygen documentation of AMRClaw","AMRClaw Flowcharts","Application documentation","Clawpack Applications repository","Amazon Web Services EC2 Clawpack AMI","b4step default routines","Boundary conditions","Bibliography","Recent changes \u2014 release notes","Changes to master since v5.4.1","Converting from Clawpack 4.3 to 4.6","Converting from Clawpack 4.6 to 5.0","Clawpack 4.x links","Changes in Clawpack 5.0","Clawpack components","Clawpack Community","Full Table of Contents","Contributing examples and applications","current_data","Developers\u2019 Guide","Docker for Clawpack","dtopotools module for moving topography","Fortran 77 vs. Fortran 90 files","Fixed grid monitoring","Fixed grid output","Running an example","Testing your Fortran installation and running an example","Testing a PyClaw installation and running an example","Fortran version","Fortran Compilers","Examples from the book FVMHP","<no title>","Gauges","GeoClaw","Getting started with GeoClaw","geoclaw.util module of utility functions","Cautionary Hints on using GeoClaw","GeoClaw plotting tools","Keeping track of repository versions with Git","Visualizing GeoClaw results in Google Earth","Guide for updating this documentation","Guide for doing a Clawpack release","Installation options","Installation instructions (pip)","kmltools module of utility functions","License","Clawpack Makefiles","Library routines in Makefiles","Manning friction term","The mapc2p function","Plotting using Matlab","Using NetCDF output","Creating a new application directory","Earthquake sources: Fault slip and the Okada model","Using OpenMP","Output data formats","Which Clawpack solver should I use?","Clawpack Community Photos","Plotting examples","Plotting with Visclaw","Plotting hints and FAQ","Plotting routines for GeoClaw","Plotting options in Python","Installation Prerequisites","Previous versions of Clawpack","About 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21],conveni:[1,26,33,34,40,47,70,78,80,83,85,87,95,134,137],convens:129,convent:[3,21,29,42,89,129],converg:67,convers:[18,24,76,101,129,133],convert43to46:18,convert46to50:19,convert:[3,21,24,29,38,43,47,52,54,61,76,88,96,118,119,129,133],convert_fort_double_to_float:96,convert_readm:10,convert_to_standard_unit:29,converttopotyp:129,convex:31,coodin:29,coord:[43,47],coordin:[22,29,31,43,63,67,75,81,85,86,95,101,121,131],coordinate_specif:29,coordinate_system:[13,115,121],coorind:131,copi:[5,13,14,33,34,40,47,48,49,51,58,75,78,88,93,99,100,101,105,109,115,123,125,126,129,134],copyq1:55,copyright:[53,73],core:[4,64,102],corioli:[44,121,125,126],coriolis_forc:[44,121],corner:[3,29,31,63,81,118,120,122,129,131],correct:[19,27,37,49,55,56,58,68,75,81,86,90,96,104,105,109,118,120,122],correctli:[27,31,76,82,108,121],correspond:[3,5,22,26,29,40,43,44,48,52,58,68,75,79,81,85,88,90,93,101,102,113,114,118,119,120,122,129,133,134],cos:[43,45,75,88],cosin:75,cost:[12,91],could:[12,26,31,33,34,40,51,62,68,70,75,81,85,93,94,97,98,108,119,120,121,122,129,131,134],council:4,count:75,count_from_zero:75,counter:[96,131],counterclockwis:61,coupl:[110,137],courant:[4,5,101,111,118,119,120,122],cours:[12,25,31,40,42,61,86,87,95,121,129],cover:[5,26,27,29,31,47,52,101,105,110,120,121,129],coverag:[83,102],covert:10,cparam:[75,93],cpu:[12,109,128],crash:[109,118],creat:[0,1,2,3,5,6,18,23,24,27,29,33,34,36,38,40,41,42,46,48,50,51,52,54,63,67,68,70,76,77,80,81,83,84,87,90,93,94,95,96,102,104,108,109,110,117,118,119,120,123,124,131,133,134,135],create_dtopo_xi:29,create_dtopographi:29,create_topo_func:131,creation:[68,83,104],criteria:[5,6,21,24,93],criterion:[31,101,120],critic:[47,85,113],crop:131,cross:27,crucial:[47,129],csdm:23,cse:23,csh:86,csv:29,csvfault:29,ctrl:[28,68],cube:58,current:[3,12,19,21,26,27,28,29,31,37,40,41,44,48,49,50,52,58,59,63,68,70,81,85,86,91,93,96,98,101,102,109,111,112,114,117,118,120,121,122,129,131,133],current_data:[0,3,24,40,67,68],curv:[3,40,67],custom:[0,12,14,19,21,24,55,58,64,67,76,82,88],custom_bc:88,customari:85,cut:119,cutoff:[5,120],cvs:47,cxx:86,cyber:15,cygwin:78,cython:86,dai:[5,12,47],dalcin:73,dam:[47,80],damag:[5,53,73],damian:50,damiansra:88,darker:47,darryl:15,dart:41,dash:[3,86],daspect:58,dat:29,data:[0,1,3,24,26,29,31,33,34,36,38,40,41,42,43,48,52,53,54,58,67,68,69,70,73,75,78,81,85,87,89,90,91,93,96,99,100,101,104,106,107,109,110,113,114,120,122,128,130,135],data_break:131,data_typ:96,databas:[12,29,96,129],datadir:109,dataset:[131,133],date:[27,36,43,47,48,49,50,54,68,132],date_tim:43,datetim:43,datum:[43,44,89,114,121,133],dave:29,davi:4,david:[4,15,73,83,91],dawson:15,daylight:52,dcp:52,deal:[29,44,67,85,86,93,131],dealt:31,debian:97,debug:[6,37,50,54,63,67,85,93,98,102,116,118,120],debugg:68,decid:[75,91],decim:[43,52],decis:47,declar:[19,21,93,134],decompos:[63,113,137],decomposit:118,decor:96,decoupl:48,decreas:40,deduc:129,deep:121,deep_depth:121,deeper:121,deepli:95,def:[0,1,3,40,47,68,75,81,85,88,91,120,122],default_tfluct:91,defenc:4,defin:[0,1,3,5,21,26,29,31,37,47,52,54,58,61,68,70,75,78,81,87,88,90,91,93,95,96,101,104,113,120,122,131,132,134,137],definit:[29,58,75,101,107],deform:[15,29,61,133],deg2dm:52,degre:[29,43,47,52,61],delet:[19,27],delimit:29,delin:121,delta:[79,81,88,91,113,131,134,137],delta_h:89,delta_hu:89,delta_i:131,delta_limit:131,delta_x:131,dem:[52,131],demo:86,demonstr:[11,80,86],denot:[5,21,40,113,131],densiti:[78,85,89,93,95,119,120,134],depart:4,depdend:79,depend:[3,12,14,27,28,29,31,33,34,36,37,42,44,47,50,54,56,58,68,74,89,90,91,96,98,101,121,131,132,134,137],deprec:[6,29,32,108,121,131],depth:[4,14,15,21,29,31,40,41,44,56,61,67,69,114,121,129],deriv:[53,61,73,78,82,83,93,102],describ:[3,4,5,6,12,14,18,25,27,29,30,31,33,34,40,42,43,44,47,48,49,50,52,54,55,58,61,63,64,67,68,69,81,90,96,101,102,110,113,114,117,118,119,121,129,130,131,133,134,137],descript:[3,4,8,21,52,58,67,96,101,113,121,129,137],design:[4,26,27,47,73,75,95,114,133],desir:[0,1,2,3,5,6,14,21,24,25,29,31,38,40,49,51,52,66,67,68,70,75,76,78,85,90,91,99,110,116,118,120,122,129,131,132],desktop:86,destin:47,detail:[4,6,9,14,21,25,27,29,31,33,34,37,41,42,44,47,48,51,53,54,58,68,73,78,79,80,81,84,85,86,87,88,89,91,100,102,105,110,113,117,118,121,123,132,134,137],detect:[47,54,84,92,96,132],deterimin:131,determin:[3,5,29,31,40,44,46,47,48,52,68,79,81,89,93,101,105,109,110,112,114,117,118,119,121,131,134],determine_topo_typ:131,dev:[23,27,86],develop:[4,5,6,12,17,21,22,44,48,51,53,58,67,71,72,73,76,83,88,91,92,102,113,114,120,129],dict:[29,78,84,89,90,93,131],dictionari:[0,1,2,3,29,40,68,75,78,84,89,90,93,95,131],dicuss:29,didn:[80,107],died:104,diff:[17,46,49,104,105,106,107,108,109,110,111],differ:[1,3,5,6,11,14,21,27,29,30,31,33,34,40,42,44,46,51,52,54,56,58,61,62,67,70,75,76,78,80,81,89,91,96,97,98,101,102,108,109,110,111,113,114,116,118,119,120,121,129,131,132,133,134,137],differenti:[15,29],difficult:40,difficulti:[92,94],diffus:88,digit:[52,68,110,111,131],dim:[88,89,91],dimens: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,78],viewable_attribut:78,vim:27,violat:[91,131],virtual:[4,12,24,26,93,97],vis:78,visclaw:[1,6,12,21,22,23,27,40,42,45,47,50,51,54,58,64,68,69,70,71,83,87,92,98,116,117,123],visibl:[12,47,100,123],visit:[21,24,67],visual:[22,23,27,33,34,40,41,51,58,63,64,67,83,87,88,98,108,135],vogl:4,volcano:4,volum:[4,15,31,38,52,58,83,119,128,129,134],vrt:47,w_1:89,w_2:89,w_3:89,wai:[5,12,14,25,27,33,34,40,47,51,52,53,54,68,70,71,73,75,78,80,81,86,88,90,92,95,97,98,100,104,110,111,113,117,118,124,129,134,136,137],wait:12,wall:[14,37,88,95,109,118,120,122,128],wang:29,want:[0,3,9,12,18,19,23,27,28,31,33,34,35,36,37,40,43,46,47,48,49,50,51,52,54,55,56,62,68,70,75,76,77,78,85,86,98,100,102,109,113,116,117,120,121,124,129,131,132],wari:89,warm:79,warn:[27,84,85,91,118,132],warp:47,warranti:[53,73],washington:[4,23,48,53,131],water:[14,15,40,41,42,43,44,52,64,67,76,83,105,106,110,113,114,121,129,131,133,134],water_level:43,wave:[4,5,14,15,24,31,44,47,79,81,83,88,89,91,101,108,110,111,114,118,119,120,121,122,134],wave_toler:121,wavelength:44,web:[22,24,27,33,34,47,48,49,123,131],webpag:[21,33,34,38,42,47,49,54,114],webserv:12,websit:[14,47,48,123,131],week:28,weight:47,welcom:[23,51,73],well:[4,5,27,41,47,51,52,61,62,63,64,67,70,71,90,91,111,118,119,125,126,129,134,137],wendroff:[81,91,118,120,122,137],weno:[64,83,91],weno_ord:91,went:[50,51],were:[4,5,19,40,50,55,58,59,76,101,104,110],west:129,western:131,wet:[31,41],what:[5,8,12,21,27,29,30,44,46,47,48,49,50,51,52,54,55,58,59,63,67,75,78,82,90,93,95,97,98,100,101,102,109,114,117,118,120,121,122,123,129,131,133,134],whatev:[59,75,90,113],when:[13,14,19,27,29,31,36,37,40,45,46,47,48,49,50,51,56,58,61,62,63,64,67,68,70,75,82,86,87,91,94,98,102,104,105,107,109,110,111,113,114,115,116,117,118,119,120,121,122,123,129,131,132,133,134,135,137],whenc:85,whenev:[27,109,134],where:[1,3,5,12,14,21,26,29,31,33,34,36,40,41,44,47,48,50,51,52,54,56,58,59,63,64,70,78,81,82,84,86,89,98,101,104,105,108,109,110,112,114,116,117,118,120,121,122,128,129,131,134,137],wherea:[40,47,67,86],wherev:132,whether:[3,5,12,14,21,43,53,54,58,73,81,84,85,89,90,91,101,102,110,113,118,119,121,131],which:[0,1,3,4,5,6,10,12,14,19,21,24,27,29,31,33,34,35,40,42,44,47,48,49,51,52,54,56,58,61,62,63,68,70,71,75,76,78,79,80,81,84,85,86,87,88,89,90,91,92,94,95,96,97,101,102,104,105,108,110,112,113,114,118,119,120,121,129,131,133,134,136,137],whichclaw:132,white:52,whith:76,who:[9,18,21,23,31,37,44,50,51],whole:[27,47,85,86],whose:[3,68,76,88,89,118,119,131],wide:[51,97,98],wider:68,width:[29,47,52,61,63,81,88,93,101,120,122],wiki:92,wind:131,window:[12,29,58,70,97,116],wisdom:52,wise:[27,91],wish:[4,12,13,21,28,33,34,44,47,51,58,66,67,83,88,91,92,94,110,115,123,125,126,132],within:[5,14,27,51,64,68,87,96,98,101,113,117,123,131],without:[14,21,36,40,44,48,52,53,54,55,58,68,70,71,73,79,84,85,96,98,99,102,103,104,105,106,107,108,109,116,120,122,132,134],wkt:47,won:[12,76,131],woodward:111,word:85,work:[3,7,12,14,18,19,21,23,24,25,27,31,33,34,36,41,44,47,48,50,51,52,58,60,61,62,68,71,72,73,74,75,77,78,79,83,84,85,86,89,91,92,97,98,100,101,102,106,107,108,109,110,111,113,117,118,119,121,123,129,132,136],workflow:123,workspac:[58,93],world:[44,56,83,86],worst:114,worth:93,worthwhil:88,would:[2,3,12,14,26,27,31,37,47,49,54,55,63,68,73,75,78,81,85,96,98,102,110,114,117,118,129,134],wouldn:55,wpalg:15,wrap:[52,73,76,81,91,96],wrapper:131,write:[27,29,40,46,56,63,64,67,75,78,81,82,85,86,90,110,120,122,129,131],write_:84,write_aux:[84,90],write_aux_alwai:[75,78,85],write_aux_init:[75,78],write_aux_int:85,write_input_data:31,write_p:90,written:[5,10,24,29,36,40,52,53,63,64,68,73,82,84,88,97,110,113,118,119,120,121,122,131,134],wrong:[50,51,55,58,85,98,101],www:[4,12,15,29,39,41,48,53,59,73,76,81,83,86,111,131],x_cell:52,x_edg:52,x_i:[113,134,137],x_inch:52,x_mask:131,xarr:81,xarrai:131,xarray_d:131,xclaw:[33,34,78],xclawcmd:78,xclawerr:78,xclawout:78,xcode:71,xdir:78,xiaom:29,xleft:[119,120],xlf:92,xlimit:[0,40,47],xllcorner:129,xlow:63,xlower:[0,3,14,21,26,76,120,122,129,131,134],xlowerg:76,xmax:0,xmin:0,xpoint:121,xrang:88,xtick:45,xupper:[0,21,120,122,131],xxdiff:102,xxxx:58,xylim:29,xzvf:50,y_cell:52,y_edg:52,y_inch:52,year:[4,15,21,47,52,83,103],yellow:[52,68],yellow_red_blu:68,yes:58,yet:[1,12,19,44,48,52,67,91,110,111,113,118,120,136],yianni:[4,15,73],yield:3,yleft:[119,120],ylimit:[0,40,47,117],yllcorner:129,ylow:63,ylower:[3,21,26,76,120,129,131],ylowerg:76,ymax:0,ymin:0,yml:102,yong:15,you:[0,3,4,12,13,14,17,18,19,21,22,23,24,25,26,27,28,31,33,34,35,36,37,38,40,43,46,47,48,49,50,51,52,54,55,58,59,60,61,62,63,64,66,67,68,70,71,73,75,76,77,78,80,83,84,85,86,87,88,89,91,92,93,94,95,97,98,100,102,104,109,110,111,112,113,114,115,116,117,120,121,122,123,124,125,126,127,129,132,133,134,136],your:[5,13,14,18,19,23,24,25,31,33,35,37,40,48,49,50,51,59,62,67,68,70,73,74,75,76,77,80,82,83,85,94,95,97,98,99,101,102,104,113,115,116,125,126,129,132,134],yourself:[37,40],ypoint:121,yupper:[21,120,131],z_format:131,zenodo:[4,16,72],zero:[3,14,29,37,52,58,75,88,89,93,95,114],zip:[11,47,49],zipinfo:47,zlim:52,zlower:21,zone:[44,47,52,119,120],zoom:47,zsh:86,zupper:21,zvar:131},titles:["ClawPlotAxes","ClawPlotData","ClawPlotFigure","ClawPlotItem","About this software","Adaptive mesh refinement (AMR) algorithms","AMRClaw","AMRClaw for 1d problems","Doxygen documentation of AMRClaw","AMRClaw Flowcharts","Application documentation","Clawpack Applications repository","Amazon Web Services EC2 Clawpack AMI","b4step default routines","Boundary conditions","Bibliography","Recent changes \u2014 release notes","Changes to master since v5.4.1","Converting from Clawpack 4.3 to 4.6","Converting from Clawpack 4.6 to 5.0","Clawpack 4.x links","Changes in Clawpack 5.0","Clawpack components","Clawpack Community","Full Table of Contents","Contributing examples and applications","current_data","Developers\u2019 Guide","Docker for Clawpack","dtopotools module for moving topography","Fortran 77 vs. Fortran 90 files","Fixed grid monitoring","Fixed grid output","Running an example","Testing your Fortran installation and running an example","Testing a PyClaw installation and running an example","Fortran version","Fortran Compilers","Examples from the book FVMHP","<no title>","Gauges","GeoClaw","Getting started with GeoClaw","geoclaw.util module of utility functions","Cautionary Hints on using GeoClaw","GeoClaw plotting tools","Keeping track of repository versions with Git","Visualizing GeoClaw results in Google Earth","Guide for updating this documentation","Guide for doing a Clawpack release","Installation options","Installation instructions (pip)","kmltools module of utility functions","License","Clawpack Makefiles","Library routines in Makefiles","Manning friction term","The mapc2p function","Plotting using Matlab","Using NetCDF output","Creating a new application directory","Earthquake sources: Fault slip and the Okada model","Using OpenMP","Output data formats","Which Clawpack solver should I use?","Clawpack Community Photos","Plotting examples","Plotting with Visclaw","Plotting hints and FAQ","Plotting routines for GeoClaw","Plotting options in Python","Installation Prerequisites","Previous versions of Clawpack","About PyClaw","PyClaw Basics","Understanding Pyclaw Classes","Porting a problem from Clawpack 4.6.x to PyClaw","Running PyClaw in the cloud","Pyclaw Controller Class","Pyclaw Limiters","Working with PyClaw\u2019s built-in examples","PyClaw Geometry","Going Further","Pyclaw","Pyclaw Input/Output Package","PyClaw output","Running in parallel","Plotting PyClaw results","Setting up your own problem","Riemann Solver Package","PyClaw Solutions","Using PyClaw\u2019s solvers: Classic and SharpClaw","Installing PyClaw","PyClaw State","Troubleshooting","PyClaw tutorial: Solve the acoustics equations","Pyclaw Utility Module","Python Hints","Python path","qinit default routines","Quick start guide for tsunami modeling","AMR refinement criteria","Regression testing","Release 5.0.0","Release 5.1.0","Release 5.2.0","Release 5.2.1","Release 5.2.2","Release 5.3.0","Release 5.3.1","Release 5.4.0","Release 5.4.1","Checkpointing and restarting","Riemann solvers","Setting sealevel","setaux default routines","Set environment variables","Using setplot.py to specify the desired plots","Specifying classic run-time parameters in setrun.py","Specifying AMRClaw run-time parameters in setrun.py","Sample setrun.py module for AMRClaw","Specifying GeoClaw parameters in setrun.py","Sample setrun.py module for classic Clawpack","Saving and sharing results","Compiling the Sphinx documentation locally","src1d default routines","src default routines","Testing your installation","Timing Statistics","Topography data","Python tools for working with topo and dtopo","topotools module for working with topography data","Troubleshooting","Some sources of tsunami data","User files required for the Fortran code","Plotting with VisIt","Clawpack Virtual Machine","Wave-propagation 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        as needed. Remember to change to Makefile to point to the proper version.

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        with latitude when coordinate_system == 2).

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        as needed. Remember to change to Makefile to point to the proper version.

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        (an ocean at rest remains at rest).

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        see Using src1d for source terms with AMRClaw.

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        (an ocean at rest remains at rest).

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        Navigation

        Matlab tools from Clawpack 4.3 can still be used, see Plotting using Matlab.

        -

        System Message: WARNING/2 (/var/folders/_s/dx0xgftn3_x04rdx0_w5nq7w0000gn/T/tmp8prh_j6r/fb4627276cba3e955dae8c68ce115eeba7df6b18/amrclaw.rst, line 36)

        +

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        toctree contains reference to nonexisting document ‘amrclaw/amrclaw_advection_2d_square’

        diff --git a/v5.5.x/b4step_defaults.html b/v5.5.x/b4step_defaults.html index 49d4c050f..2ef7e95ac 100644 --- a/v5.5.x/b4step_defaults.html +++ b/v5.5.x/b4step_defaults.html @@ -82,17 +82,17 @@

        Navigation

        as needed. Remember to change to Makefile to point to the proper version.

        $CLAW/classic/src/1d/b4step1.f90:

        -

        System Message: WARNING/2 (/var/folders/_s/dx0xgftn3_x04rdx0_w5nq7w0000gn/T/tmp8prh_j6r/fb4627276cba3e955dae8c68ce115eeba7df6b18/b4step_defaults.rst, line 19)

        +

        System Message: WARNING/2 (/var/folders/_s/dx0xgftn3_x04rdx0_w5nq7w0000gn/T/tmpp0jqt8z_/fb4627276cba3e955dae8c68ce115eeba7df6b18/b4step_defaults.rst, line 19)

        Include file ‘/var/folders/_s/dx0xgftn3_x04rdx0_w5nq7w0000gn/T/classic/src/1d/b4step1.f90’ not found or reading it failed

        $CLAW/classic/src/2d/b4step2.f90:

        -

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        +

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        Include file ‘/var/folders/_s/dx0xgftn3_x04rdx0_w5nq7w0000gn/T/classic/src/2d/b4step2.f90’ not found or reading it failed

        $CLAW/classic/src/3d/b4step3.f90:

        -

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        +

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        Include file ‘/var/folders/_s/dx0xgftn3_x04rdx0_w5nq7w0000gn/T/classic/src/3d/b4step3.f90’ not found or reading it failed

        @@ -104,7 +104,7 @@

        Navigation

        with latitude when coordinate_system == 2).

        $CLAW/geoclaw/src/2d/shallow/b4step2.f90:

        -

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        +

        System Message: WARNING/2 (/var/folders/_s/dx0xgftn3_x04rdx0_w5nq7w0000gn/T/tmpp0jqt8z_/fb4627276cba3e955dae8c68ce115eeba7df6b18/b4step_defaults.rst, line 49)

        Include file ‘/var/folders/_s/dx0xgftn3_x04rdx0_w5nq7w0000gn/T/geoclaw/src/2d/shallow/b4step2.f90’ not found or reading it failed

        diff --git a/v5.5.x/contents.html b/v5.5.x/contents.html index f9837afa2..0e9b36158 100644 --- a/v5.5.x/contents.html +++ b/v5.5.x/contents.html @@ -278,7 +278,7 @@

        PyClawRiemann

        All Clawpack packages make use of the same collection of Riemann solvers.

        -

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        +

        System Message: WARNING/2 (/var/folders/_s/dx0xgftn3_x04rdx0_w5nq7w0000gn/T/tmpp0jqt8z_/fb4627276cba3e955dae8c68ce115eeba7df6b18/contents.rst, line 123)

        toctree contains reference to nonexisting document ‘riemann/Shallow_water_Riemann_solvers’

        diff --git a/v5.5.x/genindex.html b/v5.5.x/genindex.html index 1723ad038..a164001fd 100644 --- a/v5.5.x/genindex.html +++ b/v5.5.x/genindex.html @@ -109,6 +109,8 @@

        A

        - +
        @@ -206,17 +212,27 @@

        C

      • clawpack.geoclaw.topotools (module)
        • -
      - +
      • clawpack.pyclaw.limiters.tvd (module)
      • clawpack.pyclaw.util (module) +
        • +
      • clawpack.riemann.acoustics_1D_py (module) +
        • +
      • clawpack.riemann.advection_1D_py (module) +
        • +
      • clawpack.riemann.burgers_1D_py (module) +
        • +
      • clawpack.riemann.euler_1D_py (module) +
        • +
      • clawpack.riemann.shallow_1D_py (module)
      • ClawPlotAxes (built-in class)
        • @@ -330,6 +346,16 @@

        D

        E

        + @@ -353,10 +379,12 @@

        F

      • fetch_noaa_tide_data() (in module clawpack.geoclaw.util)
      • fetch_topo_url() (in module clawpack.geoclaw.topotools) +
        • +
      • fgmax2kml() (in module clawpack.geoclaw.kmltools)
        • + - + + + + + + + + + + + + + + +
      • setup_gauge_files() (clawpack.pyclaw.geometry.Grid method) +
        • +
      • shallow_exact_1D() (in module clawpack.riemann.shallow_1D_py) +
        • +
      • shallow_fwave_1d() (in module clawpack.riemann.shallow_1D_py) +
        • +
      • shallow_hll_1D() (in module clawpack.riemann.shallow_1D_py) +
        • +
      • shallow_roe_1D() (in module clawpack.riemann.shallow_1D_py)
      • SharpClawSolver (class in clawpack.pyclaw.sharpclaw.solver)
        • @@ -906,12 +942,12 @@

        S

      • slip (clawpack.geoclaw.dtopotools.SubFault attribute)
        • +
        • solver (clawpack.pyclaw.controller.Controller attribute)
        • source_split (clawpack.petclaw.geometry.Domain attribute) diff --git a/v5.5.x/geoclaw.html b/v5.5.x/geoclaw.html index 3b3e33ffc..231c2a87c 100644 --- a/v5.5.x/geoclaw.html +++ b/v5.5.x/geoclaw.html @@ -110,15 +110,15 @@

          Navigation

          Some sample calculations can be viewed in the gallery_geoclaw. More will eventually appear in the Clawpack Applications repository.

          -

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          +

          System Message: WARNING/2 (/var/folders/_s/dx0xgftn3_x04rdx0_w5nq7w0000gn/T/tmpp0jqt8z_/fb4627276cba3e955dae8c68ce115eeba7df6b18/geoclaw.rst, line 36)

          toctree contains reference to nonexisting document ‘geoclaw/topotools_examples’

          -

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          +

          System Message: WARNING/2 (/var/folders/_s/dx0xgftn3_x04rdx0_w5nq7w0000gn/T/tmpp0jqt8z_/fb4627276cba3e955dae8c68ce115eeba7df6b18/geoclaw.rst, line 36)

          toctree contains reference to nonexisting document ‘geoclaw/dtopotools_examples’

          -

          System Message: WARNING/2 (/var/folders/_s/dx0xgftn3_x04rdx0_w5nq7w0000gn/T/tmp8prh_j6r/fb4627276cba3e955dae8c68ce115eeba7df6b18/geoclaw.rst, line 36)

          +

          System Message: WARNING/2 (/var/folders/_s/dx0xgftn3_x04rdx0_w5nq7w0000gn/T/tmpp0jqt8z_/fb4627276cba3e955dae8c68ce115eeba7df6b18/geoclaw.rst, line 36)

          toctree contains reference to nonexisting document ‘geoclaw/Okada’

          diff --git a/v5.5.x/geoclaw_util_module.html b/v5.5.x/geoclaw_util_module.html index 5bfcbea8f..5d390540f 100644 --- a/v5.5.x/geoclaw_util_module.html +++ b/v5.5.x/geoclaw_util_module.html @@ -112,7 +112,7 @@

          Navigation

          Note: If using this to initialize a radially-symmetric 2d velocity on the sphere based on a radial velocity U(r), symmetric about (x0, y0), set:

          -

          System Message: ERROR/3 (/Users/rjl/git/clawpack/clawpack/geoclaw/util.py:docstring of clawpack.geoclaw.util.bearing, line 9)

          +

          System Message: ERROR/3 (/Users/rjl/clawpack_src/clawpack_master/clawpack/geoclaw/util.py:docstring of clawpack.geoclaw.util.bearing, line 9)

          Unexpected indentation.

          diff --git a/v5.5.x/kmltools_module.html b/v5.5.x/kmltools_module.html index 011e004a3..bfa483b48 100644 --- a/v5.5.x/kmltools_module.html +++ b/v5.5.x/kmltools_module.html @@ -110,6 +110,7 @@

          Navigation

        • topo2kml - create a kml outline for each topo grid specified in setrun

        • dtopo2kml - create a kml outline for each dtopo grid specified in setrun

        • fgmax2kml - create a kml outline for each fgmax grid specified in setrun

          • +

        • fgout2kml - create a kml outline for each fgout grid specified in setrun

        • make_input_data_kmls - make kml files for many things specified in setrun

        • pcolorcells_for_kml - version of pcolormesh with appropriate dpi and size

        • png2kml - create kml file wrapping a png figure to be viewed on GE

          • @@ -189,6 +190,28 @@

          Navigation

          +
          +
          +clawpack.geoclaw.kmltools.fgout2kml(rundata=None, fname='fgout_grids.kml', verbose=True, combined=False)
          +

          Create a KML box for each fgout grid specified for a GeoClaw run.

          +
          +
          Inputs
          +
            +

          • rundata - an object of class ClawRunData or None

            +

            If rundata==None, try to create based on executing function setrun +from the setrun.py file in the current directory.

            +
            • +

          • fname (str) - resulting kml file.

            • +

          • verbose (bool) - If True, print out info about each region found

            • +

          • combined (bool) - If True, combine into single kml file with +name given by fname. NOT YET IMPLEMENTED. +If False, fname is ignored and individual files are created for +each fgout grid.

            • +
          +
          +
          +
          +
          clawpack.geoclaw.kmltools.gauges2kml(rundata=None, fname='gauges.kml', verbose=True)
          @@ -336,7 +359,7 @@

          Navigation

          Internally the value dpi (dots per inch) for the png file is determined so that it is at least 16 and so that:

          -

          System Message: ERROR/3 (/Users/rjl/git/clawpack/clawpack/geoclaw/kmltools.py:docstring of clawpack.geoclaw.kmltools.pcolorcells_for_kml, line 36)

          +

          System Message: ERROR/3 (/Users/rjl/clawpack_src/clawpack_master/clawpack/geoclaw/kmltools.py:docstring of clawpack.geoclaw.kmltools.pcolorcells_for_kml, line 36)

          Unexpected indentation.

          @@ -344,7 +367,7 @@

          Navigation

          dpi * y_inches = dcp * y_cells

          -

          System Message: WARNING/2 (/Users/rjl/git/clawpack/clawpack/geoclaw/kmltools.py:docstring of clawpack.geoclaw.kmltools.pcolorcells_for_kml, line 38)

          +

          System Message: WARNING/2 (/Users/rjl/clawpack_src/clawpack_master/clawpack/geoclaw/kmltools.py:docstring of clawpack.geoclaw.kmltools.pcolorcells_for_kml, line 38)

          Block quote ends without a blank line; unexpected unindent.

          where x_cells, y_cells are the number of cells in each direction.

          @@ -354,14 +377,14 @@

          Navigation

          annotate the figure befor saving it as a png file, which should then be done with:

          -

          System Message: ERROR/3 (/Users/rjl/git/clawpack/clawpack/geoclaw/kmltools.py:docstring of clawpack.geoclaw.kmltools.pcolorcells_for_kml, line 46)

          +

          System Message: ERROR/3 (/Users/rjl/clawpack_src/clawpack_master/clawpack/geoclaw/kmltools.py:docstring of clawpack.geoclaw.kmltools.pcolorcells_for_kml, line 46)

          Unexpected indentation.

          plt.savefig(png_filename, transparent=True, dpi=kml_dpi)

          -

          System Message: WARNING/2 (/Users/rjl/git/clawpack/clawpack/geoclaw/kmltools.py:docstring of clawpack.geoclaw.kmltools.pcolorcells_for_kml, line 47)

          +

          System Message: WARNING/2 (/Users/rjl/clawpack_src/clawpack_master/clawpack/geoclaw/kmltools.py:docstring of clawpack.geoclaw.kmltools.pcolorcells_for_kml, line 47)

          Block quote ends without a blank line; unexpected unindent.

          The png_extent is needed in construcing a kml file to display the @@ -497,7 +520,7 @@

          Navigation

          -

          System Message: WARNING/2 (/Users/rjl/git/clawpack/clawpack/geoclaw/kmltools.py:docstring of clawpack.geoclaw.kmltools.topo2kmz, line 18)

          +

          System Message: WARNING/2 (/Users/rjl/clawpack_src/clawpack_master/clawpack/geoclaw/kmltools.py:docstring of clawpack.geoclaw.kmltools.topo2kmz, line 18)

          Field list ends without a blank line; unexpected unindent.

          If force_dry is an array of the same shape as topo.Z then another png diff --git a/v5.5.x/objects.inv b/v5.5.x/objects.inv index b118b8f67..3dfac94cb 100644 Binary files a/v5.5.x/objects.inv and b/v5.5.x/objects.inv differ diff --git a/v5.5.x/py-modindex.html b/v5.5.x/py-modindex.html index d4a625db4..7f8a56e9d 100644 --- a/v5.5.x/py-modindex.html +++ b/v5.5.x/py-modindex.html @@ -138,6 +138,31 @@

          Python Module Index

        		    clawpack.pyclaw.util
            + clawpack.riemann.acoustics_1D_py +
            + clawpack.riemann.advection_1D_py +
            + clawpack.riemann.burgers_1D_py +
            + clawpack.riemann.euler_1D_py +
            + clawpack.riemann.shallow_1D_py +
        diff --git a/v5.5.x/pyclaw/index.html b/v5.5.x/pyclaw/index.html index 5f002a6b9..64fc3cd52 100644 --- a/v5.5.x/pyclaw/index.html +++ b/v5.5.x/pyclaw/index.html @@ -138,7 +138,7 @@

        Features

        PyClaw Documentation

        -

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        +

        System Message: WARNING/2 (/var/folders/_s/dx0xgftn3_x04rdx0_w5nq7w0000gn/T/tmpp0jqt8z_/fb4627276cba3e955dae8c68ce115eeba7df6b18/pyclaw/index.rst, line 68)

        toctree contains reference to nonexisting document ‘gallery/pyclaw/gallery/gallery_all’

        diff --git a/v5.5.x/pyclaw/rp.html b/v5.5.x/pyclaw/rp.html index 2bc64300a..b024bc37a 100644 --- a/v5.5.x/pyclaw/rp.html +++ b/v5.5.x/pyclaw/rp.html @@ -163,18 +163,328 @@

        Navigation

        Acoustics

        +

        Riemann solvers for constant coefficient acoustics.

        +
        +\[q_t + A q_x = 0\]
        +

        where

        +
        +\[\begin{split}q(x,t) = \left [ \begin{array}{c} p(x,t) \\ u(x,t) \end{array} \right ]\end{split}\]
        +

        and the coefficient matrix is

        +
        +\[\begin{split}A = \left [\begin{matrix} +0 & K\\ +1/\rho & 0 +\end{matrix} \right ]\end{split}\]
        +

        The parameters \(\rho =\) density and \(K =\) bulk modulus are used +to calculate the impedence \(= Z\) and speed of sound = c.

        +
        +
        Authors
        +

        Kyle T. Mandli (2009-02-03): Initial version

        +
        +
        +
        +
        +clawpack.riemann.acoustics_1D_py.acoustics_1D(q_l, q_r, aux_l, aux_r, problem_data)
        +

        Basic 1d acoustics riemann solver, with interleaved arrays

        +
        +
        problem_data is expected to contain -
          +

        • zz - (float) Impedence

          • +

        • cc - (float) Speed of sound

          • +
        +
        +
        +

        See Riemann Solver Package for more details.

        +
        +
        Version
        +

        1.0 (2009-02-03)

        +
        +
        +
        +

        Advection

        +

        Simple advection Riemann solvers

        +

        Basic advection Riemann solvers of the form (1d)

        +
        +\[q_t + A q_x = 0.\]
        +
        +
        Authors
        +

        Kyle T. Mandli (2008-2-20): Initial version

        +
        +
        +
        +
        +clawpack.riemann.advection_1D_py.advection_1D(q_l, q_r, aux_l, aux_r, problem_data)
        +

        Basic 1d advection riemann solver

        +
        +
        problem_data should contain -
          +

        • u - (float) Determines advection speed

          • +
        +
        +
        +

        See Riemann Solver Package for more details.

        +
        +
        Version
        +

        1.0 (2008-2-20)

        +
        +
        +
        +

        Burgers Equation

        +

        Riemann solvers for Burgers equation

        +
        +\[u_t + \left ( \frac{1}{2} u^2 \right)_x = 0\]
        +
        +
        Authors
        +

        Kyle T. Mandli (2009-2-4): Initial version

        +
        +
        +
        +
        +clawpack.riemann.burgers_1D_py.burgers_1D(q_l, q_r, aux_l, aux_r, problem_data)
        +

        Riemann solver for Burgers equation in 1d

        +
        +
        problem_data should contain -
          +

        • efix - (bool) Whether a entropy fix should be used, if not present, +false is assumed

          • +
        +
        +
        +

        See Riemann Solver Package for more details.

        +
        +
        Version
        +

        1.0 (2009-2-4)

        +
        +
        +
        +

        Euler Equations

        +

        Riemann solvers for the Euler equations

        +

        This module contains Riemann solvers for the Euler equations which have the +form (in 1d):

        +
        +\[q_t + f(q)_x = 0\]
        +

        where

        +
        +\[\begin{split}q(x,t) = \left [ \begin{array}{c} \rho \\ \rho u \\ E \end{array} \right ],\end{split}\]
        +

        the flux function is

        +
        +\[\begin{split}f(q) = \left [ \begin{array}{c} \rho u \\ \rho u^2 + p \\ u(E+p) \end{array}\right ].\end{split}\]
        +

        and \(\rho\) is the density, \(u\) the velocity, \(E\) is the +energy and \(p\) is the pressure.

        +

        Unless otherwise noted, the ideal gas equation of state is used:

        +
        +\[E = (\gamma - 1) \left (E - \frac{1}{2}\rho u^2 \right)\]
        +
        +
        +clawpack.riemann.euler_1D_py.euler_exact_1D(q_l, q_r, aux_l, aux_r, problem_data)
        +

        Exact euler Riemann solver

        +
        +

        Warning

        +

        This solver has not been implemented.

        +
        +
        + +
        +
        +clawpack.riemann.euler_1D_py.euler_hll_1D(q_l, q_r, aux_l, aux_r, problem_data)
        +

        HLL euler solver

        +
        W_1 = Q_hat - Q_l    s_1 = min(u_l-c_l,u_l+c_l,lambda_roe_1,lambda_roe_2)
+W_2 = Q_r - Q_hat    s_2 = max(u_r-c_r,u_r+c_r,lambda_roe_1,lambda_roe_2)
+
+Q_hat = ( f(q_r) - f(q_l) - s_2 * q_r + s_1 * q_l ) / (s_1 - s_2)
+
        +
        +
        +
        problem_data should contain:
          +

        • gamma - (float) Ratio of the heat capacities

          • +

        • gamma1 - (float) \(1 - \gamma\)

          • +
        +
        +
        +
        +
        Version
        +

        1.0 (2014-03-04)

        +
        +
        +
        + +
        +
        +clawpack.riemann.euler_1D_py.euler_hllc_1D(q_l, q_r, aux_l, aux_r, problem_data)
        +

        HLLC Euler solver

        +
        W_1 = q_hat_l - q_l      s_1 = min(u_l-c_l,u_l+c_l,lambda_roe_1,lambda_roe_2)
+W_2 = q_hat_r - q_hat_l  s_2 = s_m
+W_3 = q_r - q_hat_r      s_3 = max(u_r-c_r,u_r+c_r,lambda_roe_1,lambda_roe_2)
+s_m = (p_r - p_l + rho_l*u_l*(s_l - u_l) - rho_r*u_r*(s_r - u_r))\
+  / (rho_l*(s_l-u_l) - rho_r*(s_r - u_r))
+
        +
        +

        left middle state:

        +
        q_hat_l[0,:] = rho_l*(s_l - u_l)/(s_l - s_m)
+q_hat_l[1,:] = rho_l*(s_l - u_l)/(s_l - s_m)*s_m
+q_hat_l[2,:] = rho_l*(s_l - u_l)/(s_l - s_m)\
+        *(E_l/rho_l + (s_m - u_l)*(s_m + p_l/(rho_l*(s_l - u_l))))
+
        +
        +

        right middle state:

        +
        q_hat_r[0,:] = rho_r*(s_r - u_r)/(s_r - s_m)
+q_hat_r[1,:] = rho_r*(s_r - u_r)/(s_r - s_m)*s_m
+q_hat_r[2,:] = rho_r*(s_r - u_r)/(s_r - s_m)\
+        *(E_r/rho_r + (s_m - u_r)*(s_m + p_r/(rho_r*(s_r - u_r))))
+
        +
        +

        problem_data should contain:

        +
        +
          +

        • gamma: (float) Ratio of specific heat capacities

          • +

        • gamma1: (float) \(\gamma - 1\)

          • +
        +
        +

        :Version 1.0 (2015-11-18)

        +
        + +
        +
        +clawpack.riemann.euler_1D_py.euler_roe_1D(q_l, q_r, aux_l, aux_r, problem_data)
        +

        Roe Euler solver in 1d

        +
        +
        aug_global should contain -
          +

        • gamma - (float) Ratio of the heat capacities

          • +

        • gamma1 - (float) \(1 - \gamma\)

          • +

        • efix - (bool) Whether to use an entropy fix or not

          • +
        +
        +
        +

        See Riemann Solver Package for more details.

        +
        +
        Version
        +

        1.0 (2009-6-26)

        +
        +
        +
        +

        Shallow Water Equations

        +

        Riemann solvers for the shallow water equations.

        +
        +
        The available solvers are:
          +

        • Roe - Use Roe averages to caluclate the solution to the Riemann problem

          • +

        • HLL - Use a HLL solver

          • +
        • +
          Exact - Use a newton iteration to calculate the exact solution to the

          Riemann problem

          +
          +
          +
          • +
        +
        +
        +
        +\[q_t + f(q)_x = 0\]
        +

        where

        +
        +\[\begin{split}q(x,t) = \left [ \begin{array}{c} h \\ h u \end{array} \right ],\end{split}\]
        +

        the flux function is

        +
        +\[\begin{split}f(q) = \left [ \begin{array}{c} h u \\ hu^2 + 1/2 g h^2 \end{array}\right ].\end{split}\]
        +

        and \(h\) is the water column height, \(u\) the velocity and \(g\) +is the gravitational acceleration.

        +
        +
        +clawpack.riemann.shallow_1D_py.shallow_exact_1D(q_l, q_r, aux_l, aux_r, problem_data)
        +

        Exact shallow water Riemann solver

        +
        +

        Warning

        +

        This solver has not been implemented.

        +
        +
        + +
        +
        +clawpack.riemann.shallow_1D_py.shallow_fwave_1d(q_l, q_r, aux_l, aux_r, problem_data)
        +

        Shallow water Riemann solver using fwaves

        +

        Also includes support for bathymetry but be wary if you think you might have +dry states as this has not been tested.

        +
        +
        problem_data should contain:
          +

        • grav - (float) Gravitational constant

          • +

        • dry_tolerance - (float) Set velocities to zero if h is below this +tolerance.

          • +

        • sea_level - (float) Datum from which the dry-state is calculated.

          • +
        +
        +
        +
        +
        Version
        +

        1.0 (2014-09-05)

        +
        +
        Version
        +

        2.0 (2017-03-07)

        +
        +
        +
        + +
        +
        +clawpack.riemann.shallow_1D_py.shallow_hll_1D(q_l, q_r, aux_l, aux_r, problem_data)
        +

        HLL shallow water solver

        +
        W_1 = Q_hat - Q_l    s_1 = min(u_l-c_l,u_l+c_l,lambda_roe_1,lambda_roe_2)
+W_2 = Q_r - Q_hat    s_2 = max(u_r-c_r,u_r+c_r,lambda_roe_1,lambda_roe_2)
+
+Q_hat = ( f(q_r) - f(q_l) - s_2 * q_r + s_1 * q_l ) / (s_1 - s_2)
+
        +
        +
        +
        problem_data should contain:
          +

        • g - (float) Gravitational constant

          • +
        +
        +
        +
        +
        Version
        +

        1.0 (2009-02-05)

        +
        +
        +
        + +
        +
        +clawpack.riemann.shallow_1D_py.shallow_roe_1D(q_l, q_r, aux_l, aux_r, problem_data)
        +

        Roe shallow water solver in 1d:

        +
        ubar = (sqrt(u_l) + sqrt(u_r)) / (sqrt(h_l) + sqrt(h_r))
+cbar = sqrt( 0.5 * g * (h_l + h_r))
+
+W_1 = |      1      |  s_1 = ubar - cbar
+      | ubar - cbar |
+
+W_2 = |      1      |  s_1 = ubar + cbar
+      | ubar + cbar |
+
+a1 = 0.5 * ( - delta_hu + (ubar + cbar) * delta_h ) / cbar
+a2 = 0.5 * (   delta_hu - (ubar - cbar) * delta_h ) / cbar
+
        +
        +
        +
        problem_data should contain:
          +

        • g - (float) Gravitational constant

          • +

        • efix - (bool) Boolean as to whether a entropy fix should be used, if +not present, false is assumed

          • +
        +
        +
        +
        +
        Version
        +

        1.0 (2009-02-05)

        +
        +
        +
        +
        diff --git a/v5.5.x/qinit_defaults.html b/v5.5.x/qinit_defaults.html index e034e6ffd..740e7f060 100644 --- a/v5.5.x/qinit_defaults.html +++ b/v5.5.x/qinit_defaults.html @@ -74,7 +74,7 @@

        Navigation

        -

        System Message: WARNING/2 (/var/folders/_s/dx0xgftn3_x04rdx0_w5nq7w0000gn/T/tmp8prh_j6r/fb4627276cba3e955dae8c68ce115eeba7df6b18/qinit_defaults.rst, line 2)

        +

        System Message: WARNING/2 (/var/folders/_s/dx0xgftn3_x04rdx0_w5nq7w0000gn/T/tmpp0jqt8z_/fb4627276cba3e955dae8c68ce115eeba7df6b18/qinit_defaults.rst, line 2)

        Field list ends without a blank line; unexpected unindent.

        @@ -86,17 +86,17 @@

        Navigation

        the initial conditions as desired.

        $CLAW/classic/src/1d/qinit.f90:

        -

        System Message: WARNING/2 (/var/folders/_s/dx0xgftn3_x04rdx0_w5nq7w0000gn/T/tmp8prh_j6r/fb4627276cba3e955dae8c68ce115eeba7df6b18/qinit_defaults.rst, line 18)

        +

        System Message: WARNING/2 (/var/folders/_s/dx0xgftn3_x04rdx0_w5nq7w0000gn/T/tmpp0jqt8z_/fb4627276cba3e955dae8c68ce115eeba7df6b18/qinit_defaults.rst, line 18)

        Include file ‘/var/folders/_s/dx0xgftn3_x04rdx0_w5nq7w0000gn/T/classic/src/1d/qinit.f90’ not found or reading it failed

        $CLAW/classic/src/2d/qinit.f90:

        -

        System Message: WARNING/2 (/var/folders/_s/dx0xgftn3_x04rdx0_w5nq7w0000gn/T/tmp8prh_j6r/fb4627276cba3e955dae8c68ce115eeba7df6b18/qinit_defaults.rst, line 24)

        +

        System Message: WARNING/2 (/var/folders/_s/dx0xgftn3_x04rdx0_w5nq7w0000gn/T/tmpp0jqt8z_/fb4627276cba3e955dae8c68ce115eeba7df6b18/qinit_defaults.rst, line 24)

        Include file ‘/var/folders/_s/dx0xgftn3_x04rdx0_w5nq7w0000gn/T/classic/src/2d/qinit.f90’ not found or reading it failed

        $CLAW/classic/src/3d/qinit.f90:

        -

        System Message: WARNING/2 (/var/folders/_s/dx0xgftn3_x04rdx0_w5nq7w0000gn/T/tmp8prh_j6r/fb4627276cba3e955dae8c68ce115eeba7df6b18/qinit_defaults.rst, line 30)

        +

        System Message: WARNING/2 (/var/folders/_s/dx0xgftn3_x04rdx0_w5nq7w0000gn/T/tmpp0jqt8z_/fb4627276cba3e955dae8c68ce115eeba7df6b18/qinit_defaults.rst, line 30)

        Include file ‘/var/folders/_s/dx0xgftn3_x04rdx0_w5nq7w0000gn/T/classic/src/3d/qinit.f90’ not found or reading it failed

        @@ -107,7 +107,7 @@

        Navigation

        qinit data file parameters.

        $CLAW/geoclaw/src/2d/shallow/qinit.f90:

        -

        System Message: WARNING/2 (/var/folders/_s/dx0xgftn3_x04rdx0_w5nq7w0000gn/T/tmp8prh_j6r/fb4627276cba3e955dae8c68ce115eeba7df6b18/qinit_defaults.rst, line 47)

        +

        System Message: WARNING/2 (/var/folders/_s/dx0xgftn3_x04rdx0_w5nq7w0000gn/T/tmpp0jqt8z_/fb4627276cba3e955dae8c68ce115eeba7df6b18/qinit_defaults.rst, line 47)

        Include file ‘/var/folders/_s/dx0xgftn3_x04rdx0_w5nq7w0000gn/T/geoclaw/src/2d/shallow/qinit.f90’ not found or reading it failed

        diff --git a/v5.5.x/release_5_0_0.html b/v5.5.x/release_5_0_0.html index b8161854b..af6941808 100644 --- a/v5.5.x/release_5_0_0.html +++ b/v5.5.x/release_5_0_0.html @@ -74,7 +74,7 @@

        Navigation

        -

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        +

        System Message: WARNING/2 (/var/folders/_s/dx0xgftn3_x04rdx0_w5nq7w0000gn/T/tmpp0jqt8z_/fb4627276cba3e955dae8c68ce115eeba7df6b18/release_5_0_0.rst, line 2)

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        diff --git a/v5.5.x/release_5_1_0.html b/v5.5.x/release_5_1_0.html index 3c7ac6eaa..697d84b39 100644 --- a/v5.5.x/release_5_1_0.html +++ b/v5.5.x/release_5_1_0.html @@ -74,7 +74,7 @@

        Navigation

        -

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        +

        System Message: WARNING/2 (/var/folders/_s/dx0xgftn3_x04rdx0_w5nq7w0000gn/T/tmpp0jqt8z_/fb4627276cba3e955dae8c68ce115eeba7df6b18/release_5_1_0.rst, line 2)

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        Navigation

        -

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        +

        System Message: WARNING/2 (/var/folders/_s/dx0xgftn3_x04rdx0_w5nq7w0000gn/T/tmpp0jqt8z_/fb4627276cba3e955dae8c68ce115eeba7df6b18/release_5_2_0.rst, line 2)

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        diff --git a/v5.5.x/release_5_2_1.html b/v5.5.x/release_5_2_1.html index 96a9db135..e06edcc07 100644 --- a/v5.5.x/release_5_2_1.html +++ b/v5.5.x/release_5_2_1.html @@ -74,7 +74,7 @@

        Navigation

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        +

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        diff --git a/v5.5.x/release_5_2_2.html b/v5.5.x/release_5_2_2.html index 7b3fa9adf..2ca1ba7c4 100644 --- a/v5.5.x/release_5_2_2.html +++ b/v5.5.x/release_5_2_2.html @@ -74,7 +74,7 @@

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        -

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        +

        System Message: WARNING/2 (/var/folders/_s/dx0xgftn3_x04rdx0_w5nq7w0000gn/T/tmpp0jqt8z_/fb4627276cba3e955dae8c68ce115eeba7df6b18/release_5_2_2.rst, line 2)

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        diff --git a/v5.5.x/release_5_3_0.html b/v5.5.x/release_5_3_0.html index e59d25b51..d8ba8f85a 100644 --- a/v5.5.x/release_5_3_0.html +++ b/v5.5.x/release_5_3_0.html @@ -74,7 +74,7 @@

        Navigation

        -

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        +

        System Message: WARNING/2 (/var/folders/_s/dx0xgftn3_x04rdx0_w5nq7w0000gn/T/tmpp0jqt8z_/fb4627276cba3e955dae8c68ce115eeba7df6b18/release_5_3_0.rst, line 2)

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        diff --git a/v5.5.x/release_5_3_1.html b/v5.5.x/release_5_3_1.html index 8578472b8..4e08ed088 100644 --- a/v5.5.x/release_5_3_1.html +++ b/v5.5.x/release_5_3_1.html @@ -74,7 +74,7 @@

        Navigation

        -

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        +

        System Message: WARNING/2 (/var/folders/_s/dx0xgftn3_x04rdx0_w5nq7w0000gn/T/tmpp0jqt8z_/fb4627276cba3e955dae8c68ce115eeba7df6b18/release_5_3_1.rst, line 2)

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_output_from_previous_run:40,_output_new:105,_output_old:105,_plot:[12,33,34,40,60,72,121,127],_plotindex:[1,40],_plots_new:105,_plots_old:105,_ptwise:117,_pyclaw_io:80,_storm_modul:132,_subpackag:100,_surge_modul:102,a351:[15,85],a377:[15,85],aabbggrr:54,abdullah:[4,75],abil:[37,111,113,131,137],abl:[12,100],abort:56,about:[3,6,12,14,21,24,33,34,36,43,44,48,54,56,58,60,65,71,73,77,85,88,93,100,105,112,117,121,124,125,135,138,140,143],aboutu:29,abov:[3,12,14,19,27,28,31,33,34,36,37,40,44,47,48,49,50,51,53,55,57,63,65,70,73,75,78,87,89,94,97,98,99,104,113,115,117,120,121,122,124,125,126,131,134,135,137,140],abs:[29,90,98,137],absolut:[87,105,115,123,124],absolute_import:113,abstol:98,academ:[96,99],accept:[40,77,87,93,122],accept_reject_step:93,access:[0,15,26,51,53,82,83,85,93,95,98],accid:27,accident:[27,70],accompani:[17,20],accomplish:56,accord:[5,48],accordingli:[47,135],account:[12,23,27,50,79,88],accumul:[40,113,116],accur:[44,63,85,93,122,140,143],accuraci:[40,58,66,124,126],achiev:[19,78,129,130],acou:70,acoust:[14,33,34,44,76,77,80,82,85,93,94,111,117,124,140],acoustics1dheterogeneoustest:[34,133],acoustics3dheterogeneoustest:[34,133],acoustics_1d:[77,97],acoustics_1d_example1:[33,34,62],acoustics_1d_heterogen:[34,133,140],acoustics_1d_homogen:[82,105],acoustics_2d:93,acoustics_2d_radi:[124,140],acoustics_3d_heterogen:[34,133],acoustics_3d_vari:105,acquaint:97,acquir:70,across:[113,135,137],acsza1:29,acszb1:29,act:[81,137],acta:15,actanum2011:15,action:[12,78],activ:[31,32,93,102,125],actual:[5,26,29,48,53,54,60,63,70,81,86,98,102,118,125],adapt:[4,6,15,29,48,60,66,77,115,117,121,122,140],add:[0,10,12,14,15,26,27,29,31,40,43,47,49,50,53,57,60,61,63,69,77,82,83,87,88,90,98,108,111,113,114,115,126,131,135,137,141],add_colorbar:[29,137],add_colormap:112,add_dimens:83,add_gaug:[83,87],add_label:40,add_param:[124,126],add_parent_doc:98,add_titl:70,add_true_solut:70,added:[3,14,19,21,27,31,32,43,48,50,53,54,58,60,70,83,87,100,102,104,107,108,110,111,112,113,114,115,116,122,123,125,131,134,137,141],addgaug:40,adding:[21,26,27,31,37,40,54,63,88,101,112,114],addit:[6,12,14,22,24,27,28,31,34,35,41,42,51,53,54,63,65,66,70,71,78,81,83,85,87,93,94,95,102,104,111,113,114,115,117,122,126,131,134,135,140,141],addition:[88,131],address:[47,49,113],adequ:44,adjac:[5,14,31,41,104,122],adjoint:115,adjust:[12,19,31,49,54,83,87,118,122,140],adopt:[29,93],adv:15,advanc:[5,15,64,97,112,122,140],advantag:[69,86,105],advect:[15,70,85,88,117,126,140],advection2dannulustest:[34,133],advection_1d_example1:57,advection_2d_annulu:[34,133],advection_2d_inflow:111,advection_2d_swirl:140,advection_3d_swirl:[111,134],advis:[32,55,75],affect:[21,56,113,114,122,135,138],afosr:4,after:[0,1,3,5,12,18,22,26,27,28,31,33,34,40,44,49,50,52,54,56,57,60,61,65,70,78,79,80,82,87,93,95,100,105,107,111,112,122,123,124,126,131,140],afterax:[0,26,40,47,70],afterfram:[1,26,69],aftergrid:60,afteritem:[3,26],afterpatch:[3,26],again:[21,36,56,63,70,72,77,78,87,91,96,100,115,135,138],against:[98,105,112,133],agenc:[4,53,131,132],agency_pref:131,agre:[11,27,48,117,134,137,140],agreement:44,ahmadia:[4,15,75,85],aht:118,aid:78,aim:27,aks2203:4,albada:81,alg:124,alghamdi:[4,15,75,85],algorithm:[4,6,24,31,77,83,85,86,93,97,104,115,117,122,124,126,137],align:[31,47,54,125],all:[0,1,4,5,10,12,14,19,21,22,24,26,27,28,29,31,33,34,36,37,40,41,44,46,47,48,49,50,51,52,54,55,56,57,60,62,63,64,65,66,69,70,72,73,75,77,80,81,83,86,87,88,90,91,92,93,95,98,99,100,103,104,105,107,108,111,112,113,115,116,117,121,122,124,125,126,127,132,133,134,135,137,138,140],alloc:[19,93,111],allocat:111,allot:54,allow:[4,5,12,21,26,27,28,31,40,41,43,46,47,48,49,51,53,58,60,63,64,66,69,70,80,86,87,93,95,98,99,100,105,107,108,111,112,113,114,115,117,122,124,125,126,127,131,135,137,139],almost:99,alon:[14,47],along:[5,14,26,29,31,40,47,61,63,100,104,111,116,125,131,139],alpha:[47,50,93],alphabet:75,alreadi:[0,1,5,12,17,27,37,50,51,52,53,54,72,73,88,92,94,97,99,108,137],also:[3,4,5,6,7,8,10,14,15,16,17,19,21,22,23,24,27,28,29,31,33,34,35,37,38,40,43,44,47,48,49,50,51,52,53,54,56,57,60,61,63,64,65,66,69,70,72,74,77,79,80,83,85,86,87,88,90,92,93,94,95,96,97,98,99,100,101,102,103,104,105,107,112,113,114,115,116,117,118,120,122,124,125,126,127,129,130,131,132,133,134,135,137,138,139,140,142,143],alter:47,altern:[29,31,33,34,40,43,47,52,56,60,69,85,88,99,100,111,112,113],although:[29,47,57,60,89,90,92,137],alwai:[14,21,25,26,27,31,37,48,53,60,77,86,103,104,107,108,124,125,126,135,140],amal:[4,15,75,85],amazon:24,amazonaw:12,amdq:[91,117],ami:24,amount:[40,44,49],amplitud:113,amr:[4,6,7,14,19,22,24,26,27,31,32,40,41,54,60,65,66,69,75,83,112,114,115,121,122,124,126,134,140],amr_2d:115,amr_:[3,6],amr_celledges_show:3,amr_contour_color:3,amr_contour_show:3,amr_data_show:112,amr_level:65,amr_level_max:124,amr_levels_max:[31,104,123,124],amr_modul:[64,111],amrclaw:[4,5,11,13,14,18,19,21,22,23,27,34,37,40,41,42,50,51,52,53,60,61,64,65,66,94,100,101,104,105,116,117,119,120,122,125,129,130,133,134,138],a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9,90,92,94,95,104,111,122,123,124,135,140],compos:[29,77],comprehens:105,compress:[29,86,137],compris:[21,85,137],comput:[3,4,5,12,14,15,26,28,29,31,40,43,47,48,51,53,54,56,61,63,69,70,72,78,80,83,85,86,87,88,93,97,99,100,102,104,107,108,112,113,117,122,124,125,126,132,135,140,143],computation:[78,93],compute_f:[80,87],compute_gauge_valu:87,compute_p:[77,80],concentr:102,concern:[21,41],conclus:[4,47],conda:[47,51,73,85],condit:[6,19,24,55,57,66,75,76,77,78,80,87,93,101,107,108,111,115,118,122,124,125,126],conduct:115,conf:[49,50],confer:23,config:88,config_fc:138,configur:[70,77,88,137],confirm:44,conflict:[5,27,53,56,60,96,100],conform:[21,27,92,115,135],confus:[3,48,53,100,117],conjunct:[86,104],conlict:56,connect:[31,49,54],consequenti:[55,75],conserv:[4,5,15,87,93,95,140,143],consid:[5,44,52,53,78,100,120,127,137],consider:[44,77],consist:[5,31,43,47,50,54,88,113,117,125,135,140],consol:[12,87,125],consolid:111,constant:[29,31,44,54,58,88,117,125,137,140],constant_storm_modul:111,constrain:104,constraint:[40,123,143],construc:54,construct:[21,29,48,77,83,98,131,132,135],construct_function_handl:98,constructor:95,consult:96,contact:[82,85,94],contain:[1,3,6,11,12,19,22,24,25,29,31,33,34,35,36,38,40,41,43,45,46,47,48,49,50,52,54,56,57,60,61,65,66,70,72,73,77,78,80,81,83,85,86,88,90,91,92,93,95,97,98,100,105,107,108,115,117,121,122,125,127,131,135,137,138,140],containing_rect:29,containt:116,contamin:122,contan:47,content:[47,78,140,141],context:[26,47,140],contigu:[65,86,95],contingu:21,continu:[12,21,27,29,45,75,117,122,143],contour:[3,29,40,47,48,60,99,121,137],contour_color:3,contour_kwarg:[3,137],contour_level:[3,137],contour_max:3,contour_min:3,contour_nlevel:3,contour_show:3,contourf:[47,69],contract:[55,75],contrast:48,contribut:[4,23,24,52,75,78,85,90,93,102,105],contributor:[4,23,55,85],control:[5,6,22,24,37,40,51,53,60,72,76,81,83,85,86,87,88,90,104,113,125],conveni:[1,26,33,34,40,47,72,80,82,85,87,89,97,140,143],convens:135,convent:[3,21,29,42,48,63,91,135],converg:69,convers:[18,24,78,86,104,135,139],convert43to46:18,convert46to50:19,convert:[3,21,24,29,38,43,47,51,53,54,56,63,78,90,98,115,122,123,131,135,139],convert_fort_double_to_float:98,convert_readm:10,convert_to_standard_unit:29,convex:31,coodin:29,coord:[43,47],coordin:[22,29,31,43,65,69,77,83,87,88,97,104,125,137],coordinate_specif:[29,63],coordinate_system:[13,119,125],coorind:137,copi:[5,13,14,33,34,40,47,49,50,53,60,77,80,90,95,101,102,103,104,108,112,115,119,127,129,130,135,140],copyq1:57,copyright:[55,75],core:[4,66,105,115],corioli:[44,125,129,130],coriolis_forc:[44,125],corner:[3,29,31,48,63,65,83,122,124,126,135,137],correct:[19,27,37,50,57,58,60,70,77,83,88,92,98,107,108,112,122,124,125,126],correctli:[27,31,78,84,111,125],correspond:[3,5,22,24,26,29,40,43,44,48,49,54,60,63,70,77,81,83,86,87,90,92,95,104,105,117,118,122,123,124,125,126,131,135,139,140],cos:[43,45,77,90],cosin:77,cost:[12,93],could:[12,26,31,33,34,40,48,53,63,64,70,72,77,83,87,95,96,99,100,111,123,124,125,126,137,140],council:4,count:77,count_from_zero:77,counter:[98,137],counterclockwis:63,coupl:[113,143],courant:[4,5,104,114,122,123,124,126],cours:[12,25,31,40,42,63,88,89,97,102,125,135],cover:[5,26,27,29,31,47,54,63,104,108,113,124,125,135],coverag:[85,105],covert:10,cparam:[77,95],cpu:[12,112,115,134],crash:[112,122],creat:[0,1,2,3,5,6,18,23,24,27,29,33,34,36,38,40,41,42,46,49,52,53,54,56,63,65,69,70,72,78,79,82,83,85,86,89,92,95,96,97,98,105,107,111,112,113,115,121,122,123,124,127,128,131,137,139,140,141],create_dtopo_xi:[29,63],create_dtopographi:[29,63],create_topo_func:137,creation:[70,85,107],criteria:[5,6,21,24,95],criterion:[31,104,124],critic:[47,87,117],crop:[48,137],cross:27,crucial:[47,135],csdm:23,cse:23,csh:88,csv:[29,63,115],csvfault:[29,63],ctrl:[28,70],cube:60,cumul:115,current:[3,12,19,21,23,26,27,28,29,31,37,40,41,44,48,49,50,51,53,54,60,61,65,70,72,83,86,87,88,93,95,98,100,104,105,112,114,115,116,118,121,122,124,125,126,131,132,135,137,139],current_data:[0,3,24,40,69,70],curv:[3,40,69],custom:[0,12,14,19,21,24,57,60,66,69,78,84,90],custom_bc:90,customari:87,cut:123,cutoff:[5,124],cvf:50,cvs:47,cxx:88,cyber:15,cygwin:80,cython:88,dai:[5,12,47,125],dalcin:75,dam:47,damag:[5,55,75],damian:52,damiansra:90,darker:47,darryl:15,dart:41,dash:[3,88],daspect:60,dat:[29,131],data:[0,1,3,24,26,29,31,33,34,36,38,40,41,42,43,48,49,54,55,56,60,69,70,71,72,75,77,80,83,86,87,89,91,92,93,95,98,101,102,103,104,107,109,110,112,113,115,117,118,124,126,131,134,136,141],data_break:137,data_storm:131,data_typ:98,databas:[12,29,63,98,102,115,135],datadir:112,dataset:[135,137,139],date:[27,36,43,47,49,50,56,70,131,138],date_tim:43,datetiem:131,datetim:[43,131],datum:[43,44,118,125,139],dave:29,davi:4,david:[4,15,75,85,93],dawson:15,daylight:54,dcp:54,deal:[29,44,69,87,88,95,131,137],dealt:31,debian:99,debug:[6,37,56,65,69,87,95,100,105,122,124],debugg:70,decid:[77,93],decim:[43,54],decimc:131,decis:47,declar:[19,21,95,140],decompos:[65,117,143],decomposit:122,decor:98,decoupl:49,decreas:[40,135],deduc:135,deep:125,deep_depth:125,deeper:[125,135],deepli:97,def:[0,1,3,40,47,70,77,83,87,90,93,124,126,131],default_tfluct:93,defenc:4,defin:[0,1,3,5,21,26,29,31,37,47,54,56,60,63,70,72,77,80,83,89,90,92,93,95,97,98,104,107,115,117,124,126,131,135,137,138,140,143],definit:[29,60,77,104,110],deform:[15,29,63,139],deg2dm:54,degre:[29,43,47,54,63],delet:[19,27,51,53],delimit:29,delin:125,delta:[81,83,90,93,117,137,140,143],delta_i:137,delta_limit:137,delta_x:137,dem:[48,54,115,135,137,139],demo:88,demonstr:[11,82,88],denot:[5,21,40,48,117,137],dens:132,densiti:[80,87,95,97,123,124,140],depart:[4,131],depdend:81,depend:[3,12,14,27,28,29,31,33,34,36,37,42,44,47,51,52,56,58,60,63,70,76,85,86,91,92,93,98,100,104,115,125,137,138,140,143],deprec:[6,29,32,111,115,125,135,137],depth:[4,14,15,21,29,31,40,41,44,58,63,69,71,118,125,135],deriv:[55,63,75,80,84,85,95,105],describ:[3,4,5,6,12,14,18,25,27,29,30,31,33,34,40,42,43,44,47,49,50,54,56,57,60,63,65,66,69,70,71,83,86,92,98,102,104,105,113,117,118,121,122,123,125,131,132,135,137,139,140,143],descript:[3,4,8,21,29,54,60,63,69,86,98,102,104,117,125,131,135,143],design:[4,26,27,47,75,77,97,118,139],desir:[0,1,2,3,5,6,14,21,24,25,29,31,38,40,50,51,53,54,63,68,69,70,72,77,78,80,87,92,93,101,113,115,120,122,124,126,131,135,137,138],desktop:88,destin:47,detail:[4,6,9,14,21,25,27,29,31,33,34,37,41,42,44,47,49,51,52,53,55,56,60,63,70,75,80,81,82,83,86,87,88,89,90,91,93,103,105,108,113,115,117,121,122,125,127,131,135,138,139,140,143],detect:[47,56,86,94,98,138],deterimin:[125,137],determin:[3,5,29,31,40,44,46,47,49,54,63,70,81,83,86,95,100,104,108,112,113,116,118,121,122,123,125,137,140],determine_topo_typ:137,dev:[17,23,27,49,88,115],develop:[4,5,6,12,17,21,22,44,49,52,53,55,60,69,73,74,75,78,85,90,93,94,100,105,115,117,118,124],dict:[29,80,86,91,92,95,131,137],dictionari:[0,1,2,3,29,40,70,77,80,86,91,92,95,97,100,131,135,137],dicuss:29,did:[115,135],didn:110,died:107,diff:[17,46,50,107,108,109,110,111,112,113,114,115],differ:[1,3,5,6,11,14,21,27,29,30,31,33,34,40,42,44,46,48,51,54,56,58,60,63,64,69,72,77,78,80,82,83,86,91,93,98,99,100,104,105,111,112,113,114,115,117,118,122,123,124,125,135,137,138,139,140,143],differenti:[15,29],difficult:40,difficulti:[94,96,100],diffus:90,digit:[48,54,70,113,114,115,137],dim:[90,91,93],dimens:[5,6,14,19,21,40,43,48,54,60,77,78,80,86,88,90,91,92,95,97,104,115,117,122,123,124,126,137,140],dimension:[3,6,7,15,21,24,29,31,33,34,40,44,60,83,90,111,112,114,124,125,126,137,140],dimensional_split:[83,111,122,124,126],dip:[29,63],dir:[28,50,88,141],direct:[5,7,14,21,29,31,33,34,40,43,47,50,54,55,56,60,63,64,70,75,80,90,97,114,117,122,123,125,137],directli:[7,18,22,44,51,60,63,70,72,77,78,81,85,95,98,100,115,137,141],directori:[1,3,5,10,11,12,13,14,18,19,21,22,24,27,28,30,31,33,34,35,36,38,40,41,43,46,47,49,50,51,52,54,57,60,61,64,68,69,72,80,82,83,85,86,87,90,97,100,101,102,104,105,107,112,113,114,115,116,117,119,120,121,122,123,127,129,130,133,134,135,138,140,141],directorti:102,disabl:[45,94,125],disable_petsc:98,discard:93,disclaim:[55,75],discontinu:[4,93,143],discov:58,discoveri:105,discret:93,discrib:4,discuss:[23,27,29,44,48,51,63,86,97,99,100,104,113,115,117,125,143],disk:[12,40,77,86,87,105,113],dispers:44,displac:[29,41,44,63,125,139],displai:[1,12,33,34,36,40,47,54,70,87,105,125],display_format:40,display_landfall_tim:125,dist:50,dist_latlong2met:43,dist_meters2latlong:43,distanc:[29,43,47,63,125,135,137],distant:102,distinct:[40,113],distribut:[4,12,28,29,49,55,63,66,73,75,93,99],disturb:47,distutil:78,dive:99,divid:[104,122],divis:[4,47],dlgeorg:4,dms2decim:43,dnetcdf:[37,135],doc:[17,22,23,27,29,47,49,50,81,98,100,114,115,128],docker:[17,24,50,51,114,115,142],dockerhub:[28,50],dockeril:28,docstr:[78,82,105],doctest:83,document:[0,1,2,3,5,6,16,17,20,21,22,23,24,27,31,41,44,48,53,55,63,69,70,71,72,75,81,83,86,87,88,89,93,95,98,100,108,121,124,141,142],doe:[4,10,14,19,26,27,31,36,44,47,48,51,60,66,70,73,83,85,92,95,98,105,108,113,116,117,131,137,138,140],doesn:[27,53,57,95],doi:[4,15,16,50,52,74],doing:[5,10,18,24,27,31,40,44,46,49,53,57,70,72,83,105,112,113,114,115],domain:[5,14,15,44,47,49,54,63,65,76,77,78,80,88,90,92,95,102,104,123,124,126,135],don:[12,26,27,49,50,70,87,88,94,105,124,138],done:[1,5,6,7,10,12,14,18,19,27,33,34,40,42,47,48,49,53,54,56,60,63,69,70,72,77,81,82,98,104,108,112,113,116,117,121,123,125,134,137,138,139],donna:[4,15],donnabois:4,donor:[122,124,126],dot:[36,40,47,52,53,54,56,138],doubl:[60,78,83,98,117,123],down:[12,29,87,112,131,135,137],download:[11,12,27,28,29,34,35,41,47,50,51,52,53,61,82,88,94,115,133,137,138,139],downward:63,doxygen:[5,6,24,114],dpc:54,dpi:[47,54],dpng:60,dprint:[123,124],dq_src:[90,93],dqdt:93,draft:50,drag:125,drag_law:125,draw:3,drawback:100,drawcontourlin:60,drawn:[29,47,121],driver:[19,57],drop:[12,122],dry:[14,15,31,41],ds824:131,dst:54,dt_check:31,dt_initi:[107,122,124,125,126],dt_max:[122,124,126],dt_max_dtopo:[107,125],dt_variabl:[122,124,126],d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this software","Adaptive mesh refinement (AMR) algorithms","AMRClaw","AMRClaw for 1d problems","Doxygen documentation of AMRClaw","AMRClaw Flowcharts","Application documentation","Clawpack Applications repository","Amazon Web Services EC2 Clawpack AMI","b4step default routines","Boundary conditions","Bibliography","Recent changes \u2014 release notes","Changes to master since v5.5.0","Converting from Clawpack 4.3 to 4.6","Converting from Clawpack 4.6 to 5.0","Clawpack 4.x links","Changes in Clawpack 5.0","Clawpack components","Clawpack Community","Full Table of Contents","Contributing examples and applications","current_data","Developers\u2019 Guide","Docker for Clawpack","dtopotools module for moving topography","Fortran 77 vs. Fortran 90 files","Fixed grid monitoring","Fixed grid output","Running an example","Testing your Fortran installation and running an example","Testing a PyClaw installation and running an example","Fortran version","Fortran Compilers","Examples from the book FVMHP","<no title>","Gauges","GeoClaw","Getting started with GeoClaw","geoclaw.util module of utility functions","Cautionary Hints on using GeoClaw","GeoClaw plotting tools","Keeping track of repository versions with Git","Visualizing GeoClaw results in Google Earth","Grid registration","Guide for updating this documentation","Guide for doing a Clawpack release","Installing Clawpack","Additional options for installing Clawpack","pip install instructions","kmltools module of utility functions","License","Clawpack Makefiles","Library routines in Makefiles","Manning friction term","The mapc2p function","Plotting using Matlab","Using NetCDF output","Creating a new application directory","Earthquake sources: Fault slip and the Okada model","Using OpenMP","Output data formats","Which Clawpack solver should I use?","Clawpack Community Photos","Plotting examples","Plotting with Visclaw","Plotting hints and FAQ","Plotting routines for GeoClaw","Plotting options in Python","Installation 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112,138],_output_from_previous_run:40,_output_new:105,_output_old:105,_plot:[12,33,34,40,60,72,121,127],_plotindex:[1,40],_plots_new:105,_plots_old:105,_ptwise:117,_pyclaw_io:80,_storm_modul:132,_subpackag:100,_surge_modul:102,a351:[15,85],a377:[15,85],aabbggrr:54,abdullah:[4,75],abil:[37,111,113,131,137],abl:[12,100],abort:56,about:[3,6,12,14,21,24,33,34,36,43,44,48,54,56,58,60,65,71,73,77,85,88,93,100,105,112,117,121,124,125,135,138,140,143],aboutu:29,abov:[3,12,14,19,27,28,31,33,34,36,37,40,44,47,48,49,50,51,53,55,57,63,65,70,73,75,78,87,89,94,97,98,99,104,113,115,117,120,121,122,124,125,126,131,134,135,137,140],abs:[29,90,98,137],absolut:[87,105,115,123,124],absolute_import:113,abstol:98,academ:[96,99],acceler:91,accept:[40,77,87,93,122],accept_reject_step:93,access:[0,15,26,51,53,82,83,85,93,95,98],accid:27,accident:[27,70],accompani:[17,20],accomplish:56,accord:[5,48],accordingli:[47,135],account:[12,23,27,50,79,88],accumul:[40,113,116],accur:[44,63,85,93,122,140,143],accuraci:[40,58,66,124,126],achiev:[19,78,129,130],acou:70,acoust:[14,33,34,44,76,77,80,82,85,93,94,111,117,124,140],acoustics1dheterogeneoustest:[34,133],acoustics3dheterogeneoustest:[34,133],acoustics_1d:[77,91,97],acoustics_1d_example1:[33,34,62],acoustics_1d_heterogen:[34,133,140],acoustics_1d_homogen:[82,105],acoustics_1d_pi:91,acoustics_2d:93,acoustics_2d_radi:[124,140],acoustics_3d_heterogen:[34,133],acoustics_3d_vari:105,acquaint:97,acquir:70,across:[113,135,137],acsza1:29,acszb1:29,act:[81,137],acta:15,actanum2011:15,action:[12,78],activ:[31,32,93,102,125],actual:[5,26,29,48,53,54,60,63,70,81,86,98,102,118,125],adapt:[4,6,15,29,48,60,66,77,115,117,121,122,140],add:[0,10,12,14,15,26,27,29,31,40,43,47,49,50,53,57,60,61,63,69,77,82,83,87,88,90,98,108,111,113,114,115,126,131,135,137,141],add_colorbar:[29,137],add_colormap:112,add_dimens:83,add_gaug:[83,87],add_label:40,add_param:[124,126],add_parent_doc:98,add_titl:70,add_true_solut:70,added:[3,14,19,21,27,31,32,43,48,50,53,54,58,60,70,83,87,100,102,104,107,108,110,111,112,113,114,115,116,122,123,125,131,134,137,141],addgaug:40,adding:[21,26,27,31,37,40,54,63,88,101,112,114],addit:[6,12,14,22,24,27,28,31,34,35,41,42,51,53,54,63,65,66,70,71,78,81,83,85,87,93,94,95,102,104,111,113,114,115,117,122,126,131,134,135,140,141],addition:[88,131],address:[47,49,113],adequ:44,adjac:[5,14,31,41,104,122],adjoint:115,adjust:[12,19,31,49,54,83,87,118,122,140],adopt:[29,93],adv:15,advanc:[5,15,64,97,112,122,140],advantag:[69,86,105],advect:[15,70,85,88,117,126,140],advection2dannulustest:[34,133],advection_1d:91,advection_1d_example1:57,advection_1d_pi:91,advection_2d_annulu:[34,133],advection_2d_inflow:111,advection_2d_swirl:140,advection_3d_swirl:[111,134],advis:[32,55,75],affect:[21,56,113,114,122,135,138],afosr:4,after:[0,1,3,5,12,18,22,26,27,28,31,33,34,40,44,49,50,52,54,56,57,60,61,65,70,78,79,80,82,87,93,95,100,105,107,111,112,122,123,124,126,131,140],afterax:[0,26,40,47,70],afterfram:[1,26,69],aftergrid:60,afteritem:[3,26],afterpatch:[3,26],again:[21,36,56,63,70,72,77,78,87,91,96,100,115,135,138],against:[98,105,112,133],agenc:[4,53,131,132],agency_pref:131,agre:[11,27,48,117,134,137,140],agreement:44,ahmadia:[4,15,75,85],aht:118,aid:78,aim:27,aks2203:4,albada:81,alg:124,alghamdi:[4,15,75,85],algorithm:[4,6,24,31,77,83,85,86,93,97,104,115,117,122,124,126,137],align:[31,47,54,125],all:[0,1,4,5,10,12,14,19,21,22,24,26,27,28,29,31,33,34,36,37,40,41,44,46,47,48,49,50,51,52,54,55,56,57,60,62,63,64,65,66,69,70,72,73,75,77,80,81,83,86,87,88,90,91,92,93,95,98,99,100,103,104,105,107,108,111,112,113,115,116,117,121,122,124,125,126,127,132,133,134,135,137,138,140],alloc:[19,93,111],allocat:111,allot:54,allow:[4,5,12,21,26,27,28,31,40,41,43,46,47,48,49,51,53,58,60,63,64,66,69,70,80,86,87,93,95,98,99,100,105,107,108,111,112,113,114,115,117,122,124,125,126,127,131,135,137,139],almost:99,alon:[14,47],along:[5,14,26,29,31,40,47,61,63,100,104,111,116,125,131,139],alpha:[47,50,93],alphabet:75,alreadi:[0,1,5,12,17,27,37,50,51,52,53,54,72,73,88,92,94,97,99,108,137],also:[3,4,5,6,7,8,10,14,15,16,17,19,21,22,23,24,27,28,29,31,33,34,35,37,38,40,43,44,47,48,49,50,51,52,53,54,56,57,60,61,63,64,65,66,69,70,72,74,77,79,80,83,85,86,87,88,90,91,92,93,94,95,96,97,98,99,100,101,102,103,104,105,107,112,113,114,115,116,117,118,120,122,124,125,126,127,129,130,131,132,133,134,135,137,138,139,140,142,143],alter:47,altern:[29,31,33,34,40,43,47,52,56,60,69,85,88,99,100,111,112,113],although:[29,47,57,60,89,90,92,137],alwai:[14,21,25,26,27,31,37,48,53,60,77,86,103,104,107,108,124,125,126,135,140],amal:[4,15,75,85],amazon:24,amazonaw:12,amdq:[91,117],ami:24,amount:[40,44,49],amplitud:113,amr:[4,6,7,14,19,22,24,26,27,31,32,40,41,54,60,65,66,69,75,83,112,114,115,121,122,124,126,134,140],amr_2d:115,amr_:[3,6],amr_celledges_show:3,amr_contour_color:3,amr_contour_show:3,amr_data_show:112,amr_level:65,amr_level_max:124,amr_levels_max:[31,104,123,124],amr_modul:[64,111],amrclaw:[4,5,11,13,14,18,19,21,22,23,27,34,37,40,41,42,50,51,52,53,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90,94,98,107,117,120],compile_librari:98,complet:[19,21,27,43,56,72,77,78,88,98,99,105],complevel:86,complex:[11,83],compliant:37,complic:[14,70,78,121],compon:[3,14,19,21,24,31,34,40,51,53,60,65,69,90,92,94,95,104,111,122,123,124,135,140],compos:[29,77],comprehens:105,compress:[29,86,137],compris:[21,85,137],comput:[3,4,5,12,14,15,26,28,29,31,40,43,47,48,51,53,54,56,61,63,69,70,72,78,80,83,85,86,87,88,93,97,99,100,102,104,107,108,112,113,117,122,124,125,126,132,135,140,143],computation:[78,93],compute_f:[80,87],compute_gauge_valu:87,compute_p:[77,80],concentr:102,concern:[21,41],conclus:[4,47],conda:[47,51,73,85],condit:[6,19,24,55,57,66,75,76,77,78,80,87,93,101,107,108,111,115,118,122,124,125,126],conduct:115,conf:[49,50],confer:23,config:88,config_fc:138,configur:[70,77,88,137],confirm:44,conflict:[5,27,53,56,60,96,100],conform:[21,27,92,115,135],confus:[3,48,53,100,117],conjunct:[86,104],conlict:56,connect:[31,49,54],consequenti:[55,75],conserv:[4,5,15,87,93,95,140,143],consid:[5,44,52,53,78,100,120,127,137],consider:[44,77],consist:[5,31,43,47,50,54,88,113,117,125,135,140],consol:[12,87,125],consolid:111,constant:[29,31,44,54,58,88,91,117,125,137,140],constant_storm_modul:111,constrain:104,constraint:[40,123,143],construc:54,construct:[21,29,48,77,83,98,131,132,135],construct_function_handl:98,constructor:95,consult:96,contact:[82,85,94],contain:[1,3,6,11,12,19,22,24,25,29,31,33,34,35,36,38,40,41,43,45,46,47,48,49,50,52,54,56,57,60,61,65,66,70,72,73,77,78,80,81,83,85,86,88,90,91,92,93,95,97,98,100,105,107,108,115,117,121,122,125,127,131,135,137,138,140],containing_rect:29,containt:116,contamin:122,contan:47,content:[47,78,140,141],context:[26,47,140],contigu:[65,86,95],contingu:21,continu:[12,21,27,29,45,75,117,122,143],contour:[3,29,40,47,48,60,99,121,137],contour_color:3,contour_kwarg:[3,137],contour_level:[3,137],contour_max:3,contour_min:3,contour_nlevel:3,contour_show:3,contourf:[47,69],contract:[55,75],contrast:48,contribut:[4,23,24,52,75,78,85,90,93,102,105],contributor:[4,23,55,85],control:[5,6,22,24,37,40,51,53,60,72,76,81,83,85,86,87,88,90,104,113,125],conveni:[1,26,33,34,40,47,72,80,82,85,87,89,97,140,143],convens:135,convent:[3,21,29,42,48,63,91,135],converg:69,convers:[18,24,78,86,104,135,139],convert43to46:18,convert46to50:19,convert:[3,21,24,29,38,43,47,51,53,54,56,63,78,90,98,115,122,123,131,135,139],convert_fort_double_to_float:98,convert_readm:10,convert_to_standard_unit:29,convex:31,coodin:29,coord:[43,47],coordin:[22,29,31,43,65,69,77,83,87,88,97,104,125,137],coordinate_specif:[29,63],coordinate_system:[13,119,125],coorind:137,copi:[5,13,14,33,34,40,47,49,50,53,60,77,80,90,95,101,102,103,104,108,112,115,119,127,129,130,135,140],copyq1:57,copyright:[55,75],core:[4,66,105,115],corioli:[44,125,129,130],coriolis_forc:[44,125],corner:[3,29,31,48,63,65,83,122,124,126,135,137],correct:[19,27,37,50,57,58,60,70,77,83,88,92,98,107,108,112,122,124,125,126],correctli:[27,31,78,84,111,125],correspond:[3,5,22,24,26,29,40,43,44,48,49,54,60,63,70,77,81,83,86,87,90,92,95,104,105,117,118,122,123,124,125,126,131,135,139,140],cos:[43,45,77,90],cosin:77,cost:[12,93],could:[12,26,31,33,34,40,48,53,63,64,70,72,77,83,87,95,96,99,100,111,123,124,125,126,137,140],council:4,count:77,count_from_zero:77,counter:[98,137],counterclockwis:63,coupl:[113,143],courant:[4,5,104,114,122,123,124,126],cours:[12,25,31,40,42,63,88,89,97,102,125,135],cover:[5,26,27,29,31,47,54,63,104,108,113,124,125,135],coverag:[85,105],covert:10,cparam:[77,95],cpu:[12,112,115,134],crash:[112,122],creat:[0,1,2,3,5,6,18,23,24,27,29,33,34,36,38,40,41,42,46,49,52,53,54,56,63,65,69,70,72,78,79,82,83,85,86,89,92,95,96,97,98,105,107,111,112,113,115,121,122,123,124,127,128,131,137,139,140,141],create_dtopo_xi:[29,63],create_dtopographi:[29,63],create_topo_func:137,creation:[70,85,107],criteria:[5,6,21,24,95],criterion:[31,104,124],critic:[47,87,117],crop:[48,137],cross:27,crucial:[47,135],csdm:23,cse:23,csh:88,csv:[29,63,115],csvfault:[29,63],ctrl:[28,70],cube:60,cumul:115,current:[3,12,19,21,23,26,27,28,29,31,37,40,41,44,48,49,50,51,53,54,60,61,65,70,72,83,86,87,88,93,95,98,100,104,105,112,114,115,116,118,121,122,124,125,126,131,132,135,137,139],current_data:[0,3,24,40,69,70],curv:[3,40,69],custom:[0,12,14,19,21,24,57,60,66,69,78,84,90],custom_bc:90,customari:87,cut:123,cutoff:[5,124],cvf:50,cvs:47,cxx:88,cyber:15,cygwin:80,cython:88,dai:[5,12,47,125],dalcin:75,dam:47,damag:[5,55,75],damian:52,damiansra:90,darker:47,darryl:15,dart:41,dash:[3,88],daspect:60,dat:[29,131],data:[0,1,3,24,26,29,31,33,34,36,38,40,41,42,43,48,49,54,55,56,60,69,70,71,72,75,77,80,83,86,87,89,91,92,93,95,98,101,102,103,104,107,109,110,112,113,115,117,118,124,126,131,134,136,141],data_break:137,data_storm:131,data_typ:98,databas:[12,29,63,98,102,115,135],datadir:112,dataset:[135,137,139],date:[27,36,43,47,49,50,56,70,131,138],date_tim:43,datetiem:131,datetim:[43,131],datum:[43,44,91,118,125,139],dave:29,davi:4,david:[4,15,75,85,93],dawson:15,daylight:54,dcp:54,deal:[29,44,69,87,88,95,131,137],dealt:31,debian:99,debug:[6,37,56,65,69,87,95,100,105,122,124],debugg:70,decid:[77,93],decim:[43,54],decimc:131,decis:47,declar:[19,21,95,140],decompos:[65,117,143],decomposit:122,decor:98,decoupl:49,decreas:[40,135],deduc:135,deep:125,deep_depth:125,deeper:[125,135],deepli:97,def:[0,1,3,40,47,70,77,83,87,90,93,124,126,131],default_tfluct:93,defenc:4,defin:[0,1,3,5,21,26,29,31,37,47,54,56,60,63,70,72,77,80,83,89,90,92,93,95,97,98,104,107,115,117,124,126,131,135,137,138,140,143],definit:[29,60,77,104,110],deform:[15,29,63,139],deg2dm:54,degre:[29,43,47,54,63],delet:[19,27,51,53],delimit:29,delin:125,delta:[81,83,90,93,117,137,140,143],delta_h:91,delta_hu:91,delta_i:137,delta_limit:137,delta_x:137,dem:[48,54,115,135,137,139],demo:88,demonstr:[11,82,88],denot:[5,21,40,48,117,137],dens:132,densiti:[80,87,91,95,97,123,124,140],depart:[4,131],depdend:81,depend:[3,12,14,27,28,29,31,33,34,36,37,42,44,47,51,52,56,58,60,63,70,76,85,86,91,92,93,98,100,104,115,125,137,138,140,143],deprec:[6,29,32,111,115,125,135,137],depth:[4,14,15,21,29,31,40,41,44,58,63,69,71,118,125,135],deriv:[55,63,75,80,84,85,95,105],describ:[3,4,5,6,12,14,18,25,27,29,30,31,33,34,40,42,43,44,47,49,50,54,56,57,60,63,65,66,69,70,71,83,86,92,98,102,104,105,113,117,118,121,122,123,125,131,132,135,137,139,140,143],descript:[3,4,8,21,29,54,60,63,69,86,98,102,104,117,125,131,135,143],design:[4,26,27,47,75,77,97,118,139],desir:[0,1,2,3,5,6,14,21,24,25,29,31,38,40,50,51,53,54,63,68,69,70,72,77,78,80,87,92,93,101,113,115,120,122,124,126,131,135,137,138],desktop:88,destin:47,detail:[4,6,9,14,21,25,27,29,31,33,34,37,41,42,44,47,49,51,52,53,55,56,60,63,70,75,80,81,82,83,86,87,88,89,90,91,93,103,105,108,113,115,117,121,122,125,127,131,135,138,139,140,143],detect:[47,56,86,94,98,138],deterimin:[125,137],determin:[3,5,29,31,40,44,46,47,49,54,63,70,81,83,86,91,95,100,104,108,112,113,116,118,121,122,123,125,137,140],determine_topo_typ:137,dev:[17,23,27,49,88,115],develop:[4,5,6,12,17,21,22,44,49,52,53,55,60,69,73,74,75,78,85,90,93,94,100,105,115,117,118,124],dict:[29,80,86,91,92,95,131,137],dictionari:[0,1,2,3,29,40,70,77,80,86,91,92,95,97,100,131,135,137],dicuss:29,did:[115,135],didn:110,died:107,diff:[17,46,50,107,108,109,110,111,112,113,114,115],differ:[1,3,5,6,11,14,21,27,29,30,31,33,34,40,42,44,46,48,51,54,56,58,60,63,64,69,72,77,78,80,82,83,86,91,93,98,99,100,104,105,111,112,113,114,115,117,118,122,123,124,125,135,137,138,139,140,143],differenti:[15,29],difficult:40,difficulti:[94,96,100],diffus:90,digit:[48,54,70,113,114,115,137],dim:[90,91,93],dimens:[5,6,14,19,21,40,43,48,54,60,77,78,80,86,88,90,91,92,95,97,104,115,117,122,123,124,126,137,140],dimension:[3,6,7,15,21,24,29,31,33,34,40,44,60,83,90,111,112,114,124,125,126,137,140],dimensional_split:[83,111,122,124,126],dip:[29,63],dir:[28,50,88,141],direct:[5,7,14,21,29,31,33,34,40,43,47,50,54,55,56,60,63,64,70,75,80,90,97,114,117,122,123,125,137],directli:[7,18,22,44,51,60,63,70,72,77,78,81,85,95,98,100,115,137,141],directori:[1,3,5,10,11,12,13,14,18,19,21,22,24,27,28,30,31,33,34,35,36,38,40,41,43,46,47,49,50,51,52,54,57,60,61,64,68,69,72,80,82,83,85,86,87,90,97,100,101,102,104,105,107,112,113,114,115,116,117,119,120,121,122,123,127,129,130,133,134,135,138,140,141],directorti:102,disabl:[45,94,125],disable_petsc:98,discard:93,disclaim:[55,75],discontinu:[4,93,143],discov:58,discoveri:105,discret:93,discrib:4,discuss:[23,27,29,44,48,51,63,86,97,99,100,104,113,115,117,125,143],disk:[12,40,77,86,87,105,113],dispers:44,displac:[29,41,44,63,125,139],displai:[1,12,33,34,36,40,47,54,70,87,105,125],display_format:40,display_landfall_tim:125,dist:50,dist_latlong2met:43,dist_meters2latlong:43,distanc:[29,43,47,63,125,135,137],distant:102,distinct:[40,113],distribut:[4,12,28,29,49,55,63,66,73,75,93,99],disturb:47,distutil:78,dive:99,divid:[104,122],divis:[4,47],dlgeorg:4,dms2decim:43,dnetcdf:[37,135],doc:[17,22,23,27,29,47,49,50,81,98,100,114,115,128],docker:[17,24,50,51,114,115,142],dockerhub:[28,50],dockeril:28,docstr:[78,82,105],doctest:83,document:[0,1,2,3,5,6,16,17,20,21,22,23,24,27,31,41,44,48,53,55,63,69,70,71,72,75,81,83,86,87,88,89,93,95,98,100,108,121,124,141,142],doe:[4,10,14,19,26,27,31,36,44,47,48,51,60,66,70,73,83,85,92,95,98,105,108,113,116,117,131,137,138,140],doesn:[27,53,57,95],doi:[4,15,16,50,52,74],doing:[5,10,18,24,27,31,40,44,46,49,53,57,70,72,83,105,112,113,114,115],domain:[5,14,15,44,47,49,54,63,65,76,77,78,80,88,90,92,95,102,104,123,124,126,135],don:[12,26,27,49,50,70,87,88,94,105,124,138],done:[1,5,6,7,10,12,14,18,19,27,33,34,40,42,47,48,49,53,54,56,60,63,69,70,72,77,81,82,98,104,108,112,113,116,117,121,123,125,134,137,138,139],donna:[4,15],donnabois:4,donor:[122,124,126],dot:[36,40,47,52,53,54,56,138],doubl:[60,78,83,98,117,123],down:[12,29,87,112,131,135,137],download:[11,12,27,28,29,34,35,41,47,50,51,52,53,61,82,88,94,115,133,137,138,139],downward:63,doxygen:[5,6,24,114],dpc:54,dpi:[47,54],dpng:60,dprint:[123,124],dq_src:[90,93],dqdt:93,draft:50,drag:125,drag_law:125,d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14,15,40,41,42,43,44,54,66,69,78,85,108,109,113,115,117,118,125,135,137,139,140],water_level:43,wave:[4,5,14,15,24,31,44,47,63,81,83,85,90,91,93,104,111,113,114,118,122,123,124,125,126,140],wave_toler:125,wavelength:44,web:[22,24,27,33,34,47,49,50,115,127,137],webpag:[21,33,34,38,42,47,50,56,118],webserv:12,websit:[14,47,49,127,137],weight:47,welcom:[23,75],well:[4,5,27,41,47,53,54,63,64,65,66,69,72,73,92,93,102,114,115,122,123,129,130,131,140,143],wellington:131,wendroff:[83,93,122,124,126,143],weno:[66,85,93],weno_ord:93,went:53,were:[4,5,19,40,57,60,61,78,104,107,113,135],west:135,western:137,wet:[31,41],what:[5,8,12,21,24,27,29,30,44,46,47,49,50,51,53,54,56,57,60,61,65,69,77,80,84,92,95,97,99,100,103,104,105,112,118,121,122,124,125,126,127,131,135,137,139,140],whatev:[61,77,92,117],when:[13,14,19,27,29,31,36,37,40,45,46,47,48,49,50,51,53,58,60,63,64,65,66,69,70,72,77,84,86,88,89,93,96,100,105,107,108,110,112,113,114,117,118,119,121,122,123,124,125,126,127,131,135,137,138,139,140,141,143],whenc:87,whenev:[27,112,140],where:[1,3,5,12,14,21,26,29,31,33,34,36,40,41,44,47,48,49,51,53,54,56,58,60,61,65,66,72,80,83,84,85,86,88,91,100,104,107,108,111,112,113,116,118,121,122,124,125,126,131,134,135,137,140,143],wherea:[40,47,69,88],wherev:138,whether:[3,5,12,14,21,43,48,55,56,60,75,83,86,87,91,92,93,104,105,113,117,122,123,125,137],which:[0,1,3,4,5,6,10,12,14,19,21,24,27,29,31,33,34,35,40,42,44,47,48,49,50,51,53,54,56,58,60,63,64,65,70,72,73,77,78,80,81,82,83,85,86,87,88,89,90,91,92,93,94,96,97,98,99,102,104,105,107,108,111,113,115,116,117,118,122,123,124,125,131,132,135,137,139,140,142,143],whichclaw:138,white:54,whith:78,who:[9,18,21,23,31,37,44,53],whole:[27,47,87,88],whose:[3,70,78,90,91,122,123,137],wide:[53,99,100],wider:70,width:[29,47,54,63,65,83,90,95,104,124,126],wiki:94,wikipedia:48,wind:[115,125,131,132,137],wind_forc:125,wind_index:125,wind_refin:125,wind_spe:131,window:[12,29,60,72,99,120],wisdom:54,wise:[27,93],wish:[4,12,13,21,28,33,34,44,47,51,53,60,68,69,85,90,93,94,96,100,102,113,119,127,129,130,138],within:[5,14,27,51,53,66,70,89,98,100,104,117,121,127,137],without:[14,21,36,40,44,49,52,54,55,56,57,60,70,72,73,75,81,86,87,98,100,101,105,106,107,108,109,110,111,112,124,126,131,138,140],wkt:47,wmo:131,wmo_:131,wmo_ag:131,won:[12,78,137],woodward:114,word:[87,115,131],work:[3,7,12,14,16,18,19,21,23,24,25,27,31,33,34,36,41,44,47,48,49,50,51,52,53,54,60,62,63,64,70,73,74,75,76,77,79,80,81,85,86,87,88,91,93,94,99,100,102,103,104,105,109,110,111,112,113,114,115,117,121,122,123,125,127,132,135,138,142],workflow:[102,127,131],workspac:[60,95],world:[44,58,85,88,131],worst:118,worth:95,worthwhil:90,would:[2,3,12,14,26,27,31,37,47,48,50,51,53,56,57,63,65,70,75,77,80,83,87,98,105,113,118,121,122,125,131,135,140],wouldn:57,wpalg:15,wrap:[54,75,78,83,93,98,131],wrapper:137,write:[27,29,40,46,48,58,63,65,66,69,77,80,83,84,86,87,88,92,113,115,124,126,131,135,137],write_:86,write_arrai:86,write_atcf:131,write_aux:[86,92],write_aux_alwai:[77,80,87],write_aux_init:[77,80],write_aux_int:87,write_geoclaw:131,write_hurdat:131,write_imd:131,write_input_data:31,write_jma:131,write_p:[86,92],write_tcvit:131,written:[5,10,24,29,36,40,53,54,55,63,65,66,70,75,84,86,90,99,113,117,122,123,124,125,126,131,137,140],wrong:[53,57,60,87,100,104],www:[4,12,15,29,39,41,49,55,61,75,78,83,86,88,114,131,137],x_cell:54,x_edg:54,x_i:[117,140,143],x_inch:54,x_mask:137,xarr:83,xarrai:137,xarray_d:137,xclaw:[33,34,80],xclawcmd:80,xclawerr:80,xclawout:80,xcode:73,xdir:80,xiaom:29,xinsheng:4,xinshengqin:4,xleft:[123,124],xlf:94,xlimit:[0,40,47],xllcenter:[48,115,135],xllcorner:[48,135],xllower:115,xlow:65,xlower:[0,3,14,21,26,78,115,124,126,135,137,140],xlowerg:78,xmax:0,xmin:0,xpoint:125,xrang:90,xtick:45,xupper:[0,21,124,126,137],xxdiff:105,xxx:135,xxxx:60,xylim:29,xzf:52,y_cell:54,y_edg:54,y_inch:54,year:[4,15,21,47,54,85,106,131],yellow:[54,70,131],yellow_red_blu:70,yes:60,yet:[1,12,19,24,44,49,52,54,69,93,113,114,115,117,122,124,142],yianni:[4,15,75],yield:3,yleft:[123,124],ylimit:[0,40,47,121],yllcenter:[48,115,135],yllcorner:[48,135],yllower:115,ylow:65,ylower:[3,21,26,78,115,124,135,137],ylowerg:78,ymax:0,ymin:0,yml:105,yong:15,you:[0,3,4,12,13,14,16,17,18,19,21,22,23,24,25,26,27,28,31,33,34,35,36,37,38,40,43,46,47,48,49,50,51,52,53,54,56,57,60,61,62,63,64,65,66,68,69,70,72,73,75,77,78,79,80,82,85,86,87,88,89,90,91,93,94,95,96,97,99,100,102,103,105,107,112,113,114,115,116,117,118,119,120,121,124,125,126,127,128,129,130,131,133,135,138,139,140,142],your:[5,13,14,18,19,23,24,25,31,33,35,37,40,48,49,50,51,52,53,61,64,69,70,72,75,76,77,78,79,82,84,85,87,96,97,99,100,101,102,104,105,107,115,117,119,120,129,130,135,138,140],yourself:[37,40,52],ypoint:125,yupper:[21,124,137],z_format:137,zenodo:[4,16,74],zero:[3,14,29,37,54,60,77,90,91,95,97,118],zip:[11,47,50],zipinfo:47,zlib:86,zlim:54,zlower:21,zone:[44,47,54,123,124],zoom:47,zsh:88,zupper:21,zvar:137},titles:["ClawPlotAxes","ClawPlotData","ClawPlotFigure","ClawPlotItem","About this software","Adaptive mesh refinement (AMR) algorithms","AMRClaw","AMRClaw for 1d problems","Doxygen documentation of AMRClaw","AMRClaw Flowcharts","Application documentation","Clawpack Applications repository","Amazon Web Services EC2 Clawpack AMI","b4step default routines","Boundary conditions","Bibliography","Recent changes \u2014 release notes","Changes to master since v5.5.0","Converting from Clawpack 4.3 to 4.6","Converting from Clawpack 4.6 to 5.0","Clawpack 4.x links","Changes in Clawpack 5.0","Clawpack components","Clawpack Community","Full Table of Contents","Contributing examples and applications","current_data","Developers\u2019 Guide","Docker for Clawpack","dtopotools module for moving topography","Fortran 77 vs. Fortran 90 files","Fixed grid monitoring","Fixed grid output","Running an example","Testing your Fortran installation and running an example","Testing a PyClaw installation and running an example","Fortran version","Fortran Compilers","Examples from the book FVMHP","<no title>","Gauges","GeoClaw","Getting started with GeoClaw","geoclaw.util module of utility functions","Cautionary Hints on using GeoClaw","GeoClaw plotting tools","Keeping track of repository versions with Git","Visualizing GeoClaw results in Google Earth","Grid registration","Guide for updating this documentation","Guide for doing a Clawpack release","Installing Clawpack","Additional options for installing Clawpack","pip install instructions","kmltools module of utility functions","License","Clawpack Makefiles","Library routines in Makefiles","Manning friction term","The mapc2p function","Plotting using Matlab","Using NetCDF output","Creating a new application directory","Earthquake sources: Fault slip and the Okada model","Using OpenMP","Output data formats","Which Clawpack solver should I use?","Clawpack Community Photos","Plotting examples","Plotting with Visclaw","Plotting hints and FAQ","Plotting routines for GeoClaw","Plotting options in Python","Installation Prerequisites","Previous versions of Clawpack","About PyClaw","PyClaw Basics","Understanding Pyclaw Classes","Porting a problem from Clawpack 4.6.x to PyClaw","Running PyClaw in the cloud","Pyclaw Controller Class","Pyclaw Limiters","Working with PyClaw\u2019s built-in examples","PyClaw Geometry","Going Further","Pyclaw","Pyclaw Input/Output Package","PyClaw output","Running in parallel","Plotting PyClaw results","Setting up your own problem","Riemann Solver Package","PyClaw Solutions","Using PyClaw\u2019s solvers: Classic and SharpClaw","Installing PyClaw","PyClaw State","Troubleshooting","PyClaw tutorial: Solve the acoustics equations","Pyclaw Utility Module","Python Hints","Python path","qinit default routines","Quick start guide for storm surge modeling","Quick start guide for tsunami modeling","AMR refinement criteria","Regression testing","Release 5.0.0","Release 5.1.0","Release 5.2.0","Release 5.2.1","Release 5.2.2","Release 5.3.0","Release 5.3.1","Release 5.4.0","Release 5.4.1","Release 5.5.0","Checkpointing and restarting","Riemann solvers","Setting sealevel","setaux default routines","Set environment variables","Using setplot.py to specify the desired plots","Specifying classic run-time parameters in setrun.py","Specifying AMRClaw run-time parameters in setrun.py","Sample setrun.py module for AMRClaw","Specifying GeoClaw parameters in setrun.py","Sample setrun.py module for classic Clawpack","Saving and sharing results","Compiling the Sphinx documentation locally","src1d default routines","src default routines","Storm Specification Class and Tools","Sources for Storm Surge Data","Testing your installation","Timing Statistics","Topography data","Python tools for working with topo and dtopo","topotools module for working with topography data","Troubleshooting","Some sources of tsunami data","User files required for the Fortran code","Plotting with VisIt","Clawpack Virtual Machine","Wave-propagation 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        (an ocean at rest remains at rest).

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        see Using src1d for source terms with AMRClaw.

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        (an ocean at rest remains at rest).

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differ diff --git a/v5.6.x/.doctrees/wp_algorithms.doctree b/v5.6.x/.doctrees/wp_algorithms.doctree index 1b3457235..9327863e1 100644 Binary files a/v5.6.x/.doctrees/wp_algorithms.doctree and b/v5.6.x/.doctrees/wp_algorithms.doctree differ diff --git a/v5.6.x/amrclaw.html b/v5.6.x/amrclaw.html index 66afc320f..6ecef2205 100644 --- a/v5.6.x/amrclaw.html +++ b/v5.6.x/amrclaw.html @@ -107,7 +107,7 @@

            Navigation

            Matlab tools from Clawpack 4.3 can still be used, see Plotting using Matlab.

            -

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            +

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            toctree contains reference to nonexisting document ‘amrclaw/amrclaw_advection_2d_square’

            diff --git a/v5.6.x/b4step_defaults.html b/v5.6.x/b4step_defaults.html index d02b414ff..9ccd0d35d 100644 --- a/v5.6.x/b4step_defaults.html +++ b/v5.6.x/b4step_defaults.html @@ -82,17 +82,17 @@

            Navigation

            as needed. Remember to change to Makefile to point to the proper version.

            $CLAW/classic/src/1d/b4step1.f90:

            -

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            +

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            $CLAW/classic/src/2d/b4step2.f90:

            -

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            +

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            $CLAW/classic/src/3d/b4step3.f90:

            -

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            +

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            Include file ‘/var/folders/_s/dx0xgftn3_x04rdx0_w5nq7w0000gn/T/classic/src/3d/b4step3.f90’ not found or reading it failed

            @@ -104,7 +104,7 @@

            Navigation

            with latitude when coordinate_system == 2).

            $CLAW/geoclaw/src/2d/shallow/b4step2.f90:

            -

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            +

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            Include file ‘/var/folders/_s/dx0xgftn3_x04rdx0_w5nq7w0000gn/T/geoclaw/src/2d/shallow/b4step2.f90’ not found or reading it failed

            diff --git a/v5.6.x/contents.html b/v5.6.x/contents.html index 3d7bea982..063393759 100644 --- a/v5.6.x/contents.html +++ b/v5.6.x/contents.html @@ -279,7 +279,7 @@

            PyClawRiemann

            All Clawpack packages make use of the same collection of Riemann solvers.

            -

            System Message: WARNING/2 (/var/folders/_s/dx0xgftn3_x04rdx0_w5nq7w0000gn/T/tmp8prh_j6r/f252c5a15de9002dc8d27779e60acdf65e22a383/contents.rst, line 123)

            +

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            toctree contains reference to nonexisting document ‘riemann/Shallow_water_Riemann_solvers’

            diff --git a/v5.6.x/genindex.html b/v5.6.x/genindex.html index d430003e2..c0b53842e 100644 --- a/v5.6.x/genindex.html +++ b/v5.6.x/genindex.html @@ -109,6 +109,8 @@

            A

            - +
            @@ -206,17 +212,27 @@

            C

          • clawpack.geoclaw.topotools (module)
            • -
          - +
          • clawpack.pyclaw.limiters.tvd (module)
          • clawpack.pyclaw.util (module) +
            • +
          • clawpack.riemann.acoustics_1D_py (module) +
            • +
          • clawpack.riemann.advection_1D_py (module) +
            • +
          • clawpack.riemann.burgers_1D_py (module) +
            • +
          • clawpack.riemann.euler_1D_py (module) +
            • +
          • clawpack.riemann.shallow_1D_py (module)
          • ClawPlotAxes (built-in class)
            • @@ -330,6 +346,16 @@

            D

            E

            + @@ -353,10 +379,12 @@

            F

          • fetch_noaa_tide_data() (in module clawpack.geoclaw.util)
          • fetch_topo_url() (in module clawpack.geoclaw.topotools) +
            • +
          • fgmax2kml() (in module clawpack.geoclaw.kmltools)
            • + - + + + + + + + + + + + + + + +
          • setup_gauge_files() (clawpack.pyclaw.geometry.Grid method) +
            • +
          • shallow_exact_1D() (in module clawpack.riemann.shallow_1D_py) +
            • +
          • shallow_fwave_1d() (in module clawpack.riemann.shallow_1D_py) +
            • +
          • shallow_hll_1D() (in module clawpack.riemann.shallow_1D_py) +
            • +
          • shallow_roe_1D() (in module clawpack.riemann.shallow_1D_py)
          • SharpClawSolver (class in clawpack.pyclaw.sharpclaw.solver)
            • @@ -906,12 +942,12 @@

            S

          • slip (clawpack.geoclaw.dtopotools.SubFault attribute)
            • +
            • solver (clawpack.pyclaw.controller.Controller attribute)
            • source_split (clawpack.petclaw.geometry.Domain attribute) diff --git a/v5.6.x/geoclaw.html b/v5.6.x/geoclaw.html index 214e70ad0..f36a116dd 100644 --- a/v5.6.x/geoclaw.html +++ b/v5.6.x/geoclaw.html @@ -110,15 +110,15 @@

              Navigation

              Some sample calculations can be viewed in the gallery_geoclaw. More will eventually appear in the Clawpack Applications repository.

              -

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              +

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              toctree contains reference to nonexisting document ‘geoclaw/topotools_examples’

              -

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              +

              System Message: WARNING/2 (/var/folders/_s/dx0xgftn3_x04rdx0_w5nq7w0000gn/T/tmpp0jqt8z_/f252c5a15de9002dc8d27779e60acdf65e22a383/geoclaw.rst, line 36)

              toctree contains reference to nonexisting document ‘geoclaw/dtopotools_examples’

              -

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              +

              System Message: WARNING/2 (/var/folders/_s/dx0xgftn3_x04rdx0_w5nq7w0000gn/T/tmpp0jqt8z_/f252c5a15de9002dc8d27779e60acdf65e22a383/geoclaw.rst, line 36)

              toctree contains reference to nonexisting document ‘geoclaw/Okada’

              diff --git a/v5.6.x/geoclaw_util_module.html b/v5.6.x/geoclaw_util_module.html index 0fc5f460b..8c5b0c229 100644 --- a/v5.6.x/geoclaw_util_module.html +++ b/v5.6.x/geoclaw_util_module.html @@ -112,7 +112,7 @@

              Navigation

              Note: If using this to initialize a radially-symmetric 2d velocity on the sphere based on a radial velocity U(r), symmetric about (x0, y0), set:

              -

              System Message: ERROR/3 (/Users/rjl/git/clawpack/clawpack/geoclaw/util.py:docstring of clawpack.geoclaw.util.bearing, line 9)

              +

              System Message: ERROR/3 (/Users/rjl/clawpack_src/clawpack_master/clawpack/geoclaw/util.py:docstring of clawpack.geoclaw.util.bearing, line 9)

              Unexpected indentation.

              diff --git a/v5.6.x/howto_release.html b/v5.6.x/howto_release.html index 4accd9e5a..0354e3081 100644 --- a/v5.6.x/howto_release.html +++ b/v5.6.x/howto_release.html @@ -256,7 +256,7 @@

              Updating the documentation -

              System Message: WARNING/2 (/var/folders/_s/dx0xgftn3_x04rdx0_w5nq7w0000gn/T/tmp8prh_j6r/f252c5a15de9002dc8d27779e60acdf65e22a383/howto_release.rst, line 202)

              +

              System Message: WARNING/2 (/var/folders/_s/dx0xgftn3_x04rdx0_w5nq7w0000gn/T/tmpp0jqt8z_/f252c5a15de9002dc8d27779e60acdf65e22a383/howto_release.rst, line 202)

              Bullet list ends without a blank line; unexpected unindent.

              diff --git a/v5.6.x/kmltools_module.html b/v5.6.x/kmltools_module.html index 840256473..578eb92d4 100644 --- a/v5.6.x/kmltools_module.html +++ b/v5.6.x/kmltools_module.html @@ -110,6 +110,7 @@

              Navigation

            • topo2kml - create a kml outline for each topo grid specified in setrun

            • dtopo2kml - create a kml outline for each dtopo grid specified in setrun

            • fgmax2kml - create a kml outline for each fgmax grid specified in setrun

              • +

            • fgout2kml - create a kml outline for each fgout grid specified in setrun

            • make_input_data_kmls - make kml files for many things specified in setrun

            • pcolorcells_for_kml - version of pcolormesh with appropriate dpi and size

            • png2kml - create kml file wrapping a png figure to be viewed on GE

              • @@ -189,6 +190,28 @@

              Navigation

              +
              +
              +clawpack.geoclaw.kmltools.fgout2kml(rundata=None, fname='fgout_grids.kml', verbose=True, combined=False)
              +

              Create a KML box for each fgout grid specified for a GeoClaw run.

              +
              +
              Inputs
              +
                +

              • rundata - an object of class ClawRunData or None

                +

                If rundata==None, try to create based on executing function setrun +from the setrun.py file in the current directory.

                +
                • +

              • fname (str) - resulting kml file.

                • +

              • verbose (bool) - If True, print out info about each region found

                • +

              • combined (bool) - If True, combine into single kml file with +name given by fname. NOT YET IMPLEMENTED. +If False, fname is ignored and individual files are created for +each fgout grid.

                • +
              +
              +
              +
              +
              clawpack.geoclaw.kmltools.gauges2kml(rundata=None, fname='gauges.kml', verbose=True)
              @@ -336,7 +359,7 @@

              Navigation

              Internally the value dpi (dots per inch) for the png file is determined so that it is at least 16 and so that:

              -

              System Message: ERROR/3 (/Users/rjl/git/clawpack/clawpack/geoclaw/kmltools.py:docstring of clawpack.geoclaw.kmltools.pcolorcells_for_kml, line 36)

              +

              System Message: ERROR/3 (/Users/rjl/clawpack_src/clawpack_master/clawpack/geoclaw/kmltools.py:docstring of clawpack.geoclaw.kmltools.pcolorcells_for_kml, line 36)

              Unexpected indentation.

              @@ -344,7 +367,7 @@

              Navigation

              dpi * y_inches = dcp * y_cells

              -

              System Message: WARNING/2 (/Users/rjl/git/clawpack/clawpack/geoclaw/kmltools.py:docstring of clawpack.geoclaw.kmltools.pcolorcells_for_kml, line 38)

              +

              System Message: WARNING/2 (/Users/rjl/clawpack_src/clawpack_master/clawpack/geoclaw/kmltools.py:docstring of clawpack.geoclaw.kmltools.pcolorcells_for_kml, line 38)

              Block quote ends without a blank line; unexpected unindent.

              where x_cells, y_cells are the number of cells in each direction.

              @@ -354,14 +377,14 @@

              Navigation

              annotate the figure befor saving it as a png file, which should then be done with:

              -

              System Message: ERROR/3 (/Users/rjl/git/clawpack/clawpack/geoclaw/kmltools.py:docstring of clawpack.geoclaw.kmltools.pcolorcells_for_kml, line 46)

              +

              System Message: ERROR/3 (/Users/rjl/clawpack_src/clawpack_master/clawpack/geoclaw/kmltools.py:docstring of clawpack.geoclaw.kmltools.pcolorcells_for_kml, line 46)

              Unexpected indentation.

              plt.savefig(png_filename, transparent=True, dpi=kml_dpi)

              -

              System Message: WARNING/2 (/Users/rjl/git/clawpack/clawpack/geoclaw/kmltools.py:docstring of clawpack.geoclaw.kmltools.pcolorcells_for_kml, line 47)

              +

              System Message: WARNING/2 (/Users/rjl/clawpack_src/clawpack_master/clawpack/geoclaw/kmltools.py:docstring of clawpack.geoclaw.kmltools.pcolorcells_for_kml, line 47)

              Block quote ends without a blank line; unexpected unindent.

              The png_extent is needed in construcing a kml file to display the @@ -497,7 +520,7 @@

              Navigation

              -

              System Message: WARNING/2 (/Users/rjl/git/clawpack/clawpack/geoclaw/kmltools.py:docstring of clawpack.geoclaw.kmltools.topo2kmz, line 18)

              +

              System Message: WARNING/2 (/Users/rjl/clawpack_src/clawpack_master/clawpack/geoclaw/kmltools.py:docstring of clawpack.geoclaw.kmltools.topo2kmz, line 18)

              Field list ends without a blank line; unexpected unindent.

              If force_dry is an array of the same shape as topo.Z then another png diff --git a/v5.6.x/objects.inv b/v5.6.x/objects.inv index 9d686370f..61b0f3498 100644 Binary files a/v5.6.x/objects.inv and b/v5.6.x/objects.inv differ diff --git a/v5.6.x/py-modindex.html b/v5.6.x/py-modindex.html index 871777779..e7914d83c 100644 --- a/v5.6.x/py-modindex.html +++ b/v5.6.x/py-modindex.html @@ -138,6 +138,31 @@

              Python Module Index

            		    clawpack.pyclaw.util
                + clawpack.riemann.acoustics_1D_py +
                + clawpack.riemann.advection_1D_py +
                + clawpack.riemann.burgers_1D_py +
                + clawpack.riemann.euler_1D_py +
                + clawpack.riemann.shallow_1D_py +
            diff --git a/v5.6.x/pyclaw/index.html b/v5.6.x/pyclaw/index.html index 1437d0f0e..f9a186ab5 100644 --- a/v5.6.x/pyclaw/index.html +++ b/v5.6.x/pyclaw/index.html @@ -138,7 +138,7 @@

            Features

            PyClaw Documentation

            -

            System Message: WARNING/2 (/var/folders/_s/dx0xgftn3_x04rdx0_w5nq7w0000gn/T/tmp8prh_j6r/f252c5a15de9002dc8d27779e60acdf65e22a383/pyclaw/index.rst, line 68)

            +

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            toctree contains reference to nonexisting document ‘gallery/pyclaw/gallery/gallery_all’

            diff --git a/v5.6.x/pyclaw/rp.html b/v5.6.x/pyclaw/rp.html index 526bb6d85..5a031ac7c 100644 --- a/v5.6.x/pyclaw/rp.html +++ b/v5.6.x/pyclaw/rp.html @@ -163,18 +163,328 @@

            Navigation

            Acoustics

            +

            Riemann solvers for constant coefficient acoustics.

            +
            +\[q_t + A q_x = 0\]
            +

            where

            +
            +\[\begin{split}q(x,t) = \left [ \begin{array}{c} p(x,t) \\ u(x,t) \end{array} \right ]\end{split}\]
            +

            and the coefficient matrix is

            +
            +\[\begin{split}A = \left [\begin{matrix} +0 & K\\ +1/\rho & 0 +\end{matrix} \right ]\end{split}\]
            +

            The parameters \(\rho =\) density and \(K =\) bulk modulus are used +to calculate the impedence \(= Z\) and speed of sound = c.

            +
            +
            Authors
            +

            Kyle T. Mandli (2009-02-03): Initial version

            +
            +
            +
            +
            +clawpack.riemann.acoustics_1D_py.acoustics_1D(q_l, q_r, aux_l, aux_r, problem_data)
            +

            Basic 1d acoustics riemann solver, with interleaved arrays

            +
            +
            problem_data is expected to contain -
              +

            • zz - (float) Impedence

              • +

            • cc - (float) Speed of sound

              • +
            +
            +
            +

            See Riemann Solver Package for more details.

            +
            +
            Version
            +

            1.0 (2009-02-03)

            +
            +
            +
            +

            Advection

            +

            Simple advection Riemann solvers

            +

            Basic advection Riemann solvers of the form (1d)

            +
            +\[q_t + A q_x = 0.\]
            +
            +
            Authors
            +

            Kyle T. Mandli (2008-2-20): Initial version

            +
            +
            +
            +
            +clawpack.riemann.advection_1D_py.advection_1D(q_l, q_r, aux_l, aux_r, problem_data)
            +

            Basic 1d advection riemann solver

            +
            +
            problem_data should contain -
              +

            • u - (float) Determines advection speed

              • +
            +
            +
            +

            See Riemann Solver Package for more details.

            +
            +
            Version
            +

            1.0 (2008-2-20)

            +
            +
            +
            +

            Burgers Equation

            +

            Riemann solvers for Burgers equation

            +
            +\[u_t + \left ( \frac{1}{2} u^2 \right)_x = 0\]
            +
            +
            Authors
            +

            Kyle T. Mandli (2009-2-4): Initial version

            +
            +
            +
            +
            +clawpack.riemann.burgers_1D_py.burgers_1D(q_l, q_r, aux_l, aux_r, problem_data)
            +

            Riemann solver for Burgers equation in 1d

            +
            +
            problem_data should contain -
              +

            • efix - (bool) Whether a entropy fix should be used, if not present, +false is assumed

              • +
            +
            +
            +

            See Riemann Solver Package for more details.

            +
            +
            Version
            +

            1.0 (2009-2-4)

            +
            +
            +
            +

            Euler Equations

            +

            Riemann solvers for the Euler equations

            +

            This module contains Riemann solvers for the Euler equations which have the +form (in 1d):

            +
            +\[q_t + f(q)_x = 0\]
            +

            where

            +
            +\[\begin{split}q(x,t) = \left [ \begin{array}{c} \rho \\ \rho u \\ E \end{array} \right ],\end{split}\]
            +

            the flux function is

            +
            +\[\begin{split}f(q) = \left [ \begin{array}{c} \rho u \\ \rho u^2 + p \\ u(E+p) \end{array}\right ].\end{split}\]
            +

            and \(\rho\) is the density, \(u\) the velocity, \(E\) is the +energy and \(p\) is the pressure.

            +

            Unless otherwise noted, the ideal gas equation of state is used:

            +
            +\[E = (\gamma - 1) \left (E - \frac{1}{2}\rho u^2 \right)\]
            +
            +
            +clawpack.riemann.euler_1D_py.euler_exact_1D(q_l, q_r, aux_l, aux_r, problem_data)
            +

            Exact euler Riemann solver

            +
            +

            Warning

            +

            This solver has not been implemented.

            +
            +
            + +
            +
            +clawpack.riemann.euler_1D_py.euler_hll_1D(q_l, q_r, aux_l, aux_r, problem_data)
            +

            HLL euler solver

            +
            W_1 = Q_hat - Q_l    s_1 = min(u_l-c_l,u_l+c_l,lambda_roe_1,lambda_roe_2)
+W_2 = Q_r - Q_hat    s_2 = max(u_r-c_r,u_r+c_r,lambda_roe_1,lambda_roe_2)
+
+Q_hat = ( f(q_r) - f(q_l) - s_2 * q_r + s_1 * q_l ) / (s_1 - s_2)
+
            +
            +
            +
            problem_data should contain:
              +

            • gamma - (float) Ratio of the heat capacities

              • +

            • gamma1 - (float) \(1 - \gamma\)

              • +
            +
            +
            +
            +
            Version
            +

            1.0 (2014-03-04)

            +
            +
            +
            + +
            +
            +clawpack.riemann.euler_1D_py.euler_hllc_1D(q_l, q_r, aux_l, aux_r, problem_data)
            +

            HLLC Euler solver

            +
            W_1 = q_hat_l - q_l      s_1 = min(u_l-c_l,u_l+c_l,lambda_roe_1,lambda_roe_2)
+W_2 = q_hat_r - q_hat_l  s_2 = s_m
+W_3 = q_r - q_hat_r      s_3 = max(u_r-c_r,u_r+c_r,lambda_roe_1,lambda_roe_2)
+s_m = (p_r - p_l + rho_l*u_l*(s_l - u_l) - rho_r*u_r*(s_r - u_r))\
+  / (rho_l*(s_l-u_l) - rho_r*(s_r - u_r))
+
            +
            +

            left middle state:

            +
            q_hat_l[0,:] = rho_l*(s_l - u_l)/(s_l - s_m)
+q_hat_l[1,:] = rho_l*(s_l - u_l)/(s_l - s_m)*s_m
+q_hat_l[2,:] = rho_l*(s_l - u_l)/(s_l - s_m)\
+        *(E_l/rho_l + (s_m - u_l)*(s_m + p_l/(rho_l*(s_l - u_l))))
+
            +
            +

            right middle state:

            +
            q_hat_r[0,:] = rho_r*(s_r - u_r)/(s_r - s_m)
+q_hat_r[1,:] = rho_r*(s_r - u_r)/(s_r - s_m)*s_m
+q_hat_r[2,:] = rho_r*(s_r - u_r)/(s_r - s_m)\
+        *(E_r/rho_r + (s_m - u_r)*(s_m + p_r/(rho_r*(s_r - u_r))))
+
            +
            +

            problem_data should contain:

            +
            +
              +

            • gamma: (float) Ratio of specific heat capacities

              • +

            • gamma1: (float) \(\gamma - 1\)

              • +
            +
            +

            :Version 1.0 (2015-11-18)

            +
            + +
            +
            +clawpack.riemann.euler_1D_py.euler_roe_1D(q_l, q_r, aux_l, aux_r, problem_data)
            +

            Roe Euler solver in 1d

            +
            +
            aug_global should contain -
              +

            • gamma - (float) Ratio of the heat capacities

              • +

            • gamma1 - (float) \(1 - \gamma\)

              • +

            • efix - (bool) Whether to use an entropy fix or not

              • +
            +
            +
            +

            See Riemann Solver Package for more details.

            +
            +
            Version
            +

            1.0 (2009-6-26)

            +
            +
            +
            +

            Shallow Water Equations

            +

            Riemann solvers for the shallow water equations.

            +
            +
            The available solvers are:
              +

            • Roe - Use Roe averages to caluclate the solution to the Riemann problem

              • +

            • HLL - Use a HLL solver

              • +
            • +
              Exact - Use a newton iteration to calculate the exact solution to the

              Riemann problem

              +
              +
              +
              • +
            +
            +
            +
            +\[q_t + f(q)_x = 0\]
            +

            where

            +
            +\[\begin{split}q(x,t) = \left [ \begin{array}{c} h \\ h u \end{array} \right ],\end{split}\]
            +

            the flux function is

            +
            +\[\begin{split}f(q) = \left [ \begin{array}{c} h u \\ hu^2 + 1/2 g h^2 \end{array}\right ].\end{split}\]
            +

            and \(h\) is the water column height, \(u\) the velocity and \(g\) +is the gravitational acceleration.

            +
            +
            +clawpack.riemann.shallow_1D_py.shallow_exact_1D(q_l, q_r, aux_l, aux_r, problem_data)
            +

            Exact shallow water Riemann solver

            +
            +

            Warning

            +

            This solver has not been implemented.

            +
            +
            + +
            +
            +clawpack.riemann.shallow_1D_py.shallow_fwave_1d(q_l, q_r, aux_l, aux_r, problem_data)
            +

            Shallow water Riemann solver using fwaves

            +

            Also includes support for bathymetry but be wary if you think you might have +dry states as this has not been tested.

            +
            +
            problem_data should contain:
              +

            • grav - (float) Gravitational constant

              • +

            • dry_tolerance - (float) Set velocities to zero if h is below this +tolerance.

              • +

            • sea_level - (float) Datum from which the dry-state is calculated.

              • +
            +
            +
            +
            +
            Version
            +

            1.0 (2014-09-05)

            +
            +
            Version
            +

            2.0 (2017-03-07)

            +
            +
            +
            + +
            +
            +clawpack.riemann.shallow_1D_py.shallow_hll_1D(q_l, q_r, aux_l, aux_r, problem_data)
            +

            HLL shallow water solver

            +
            W_1 = Q_hat - Q_l    s_1 = min(u_l-c_l,u_l+c_l,lambda_roe_1,lambda_roe_2)
+W_2 = Q_r - Q_hat    s_2 = max(u_r-c_r,u_r+c_r,lambda_roe_1,lambda_roe_2)
+
+Q_hat = ( f(q_r) - f(q_l) - s_2 * q_r + s_1 * q_l ) / (s_1 - s_2)
+
            +
            +
            +
            problem_data should contain:
              +

            • g - (float) Gravitational constant

              • +
            +
            +
            +
            +
            Version
            +

            1.0 (2009-02-05)

            +
            +
            +
            + +
            +
            +clawpack.riemann.shallow_1D_py.shallow_roe_1D(q_l, q_r, aux_l, aux_r, problem_data)
            +

            Roe shallow water solver in 1d:

            +
            ubar = (sqrt(u_l) + sqrt(u_r)) / (sqrt(h_l) + sqrt(h_r))
+cbar = sqrt( 0.5 * g * (h_l + h_r))
+
+W_1 = |      1      |  s_1 = ubar - cbar
+      | ubar - cbar |
+
+W_2 = |      1      |  s_1 = ubar + cbar
+      | ubar + cbar |
+
+a1 = 0.5 * ( - delta_hu + (ubar + cbar) * delta_h ) / cbar
+a2 = 0.5 * (   delta_hu - (ubar - cbar) * delta_h ) / cbar
+
            +
            +
            +
            problem_data should contain:
              +

            • g - (float) Gravitational constant

              • +

            • efix - (bool) Boolean as to whether a entropy fix should be used, if +not present, false is assumed

              • +
            +
            +
            +
            +
            Version
            +

            1.0 (2009-02-05)

            +
            +
            +
            +

        diff --git a/v5.6.x/qinit_defaults.html b/v5.6.x/qinit_defaults.html index d2278b0d4..f932215cb 100644 --- a/v5.6.x/qinit_defaults.html +++ b/v5.6.x/qinit_defaults.html @@ -74,7 +74,7 @@

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        +

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        @@ -86,17 +86,17 @@

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        the initial conditions as desired.

        $CLAW/classic/src/1d/qinit.f90:

        -

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        +

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        $CLAW/classic/src/2d/qinit.f90:

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        +

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        $CLAW/classic/src/3d/qinit.f90:

        -

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        +

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        Navigation

        qinit data file parameters.

        $CLAW/geoclaw/src/2d/shallow/qinit.f90:

        -

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        +

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        +

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        +

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        +

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        +

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        +

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st:29,column_map:29,com:[12,13,22,23,25,27,28,48,50,51,52,53,54,86,88,90,94,110,112,113,114,118],combin:[19,50,55,112,142],combinatori:105,come:[3,27,50,71,73,82,88,93,111,138,143],comfort:[54,90],comm_world:98,command:[0,1,2,3,11,13,27,36,46,47,48,51,52,53,54,57,63,70,71,74,77,78,80,85,88,89,93,97,98,99,100,105,120,123,124,125,126,138,140],commenc:119,comment:[5,11,23,45,51,114,119],commit:[24,29,46,50,51,105],common:[3,22,27,33,34,36,37,57,58,67,70,77,91,93,95,96,113,115,141,143],common_sourc:58,commonli:[3,61,71,73],commun:[24,47,75,95,98,100,104,115],comot:4,compact:138,compar:[5,21,34,40,44,47,51,71,87,104,105,121,126,128,136,142,146],compare_gaug:111,comparison:48,compat:[27,29,43,47,55,64,70,86,88,96,99,108,109,113,114,140],compens:140,compil:[13,24,33,34,36,42,52,54,58,65,67,73,74,78,85,86,90,94,98,107,120,123],compile_librari:98,complet:[19,21,27,43,57,73,77,78,88,98,99,105],complevel:86,complex:[12,83],compliant:37,complic:[15,71,78,124],compon:[3,15,19,21,24,31,34,40,52,54,61,66,70,90,92,94,95,104,111,125,126,127,138,143],compos:[29,77],comprehens:105,compress:[29,86,140],compris:[21,85,140],comput:[3,4,5,6,13,15,16,26,28,29,31,40,43,47,49,52,54,55,57,62,64,70,71,73,78,80,83,85,86,87,88,93,97,99,100,102,104,107,108,112,113,117,120,125,127,128,129,135,138,143,146],computation:[78,93],compute_f:[80,87],compute_gauge_valu:87,compute_p:[77,80],concentr:102,concern:[21,41],conclus:[4,47],conda:[47,52,74,85],condit:[5,7,19,24,56,58,67,75,76,77,78,80,87,93,101,107,108,111,115,121,125,127,128,129],conduct:115,conf:[50,51],confer:23,config:88,config_fc:141,configur:[71,77,88,140],confirm:44,conflict:[6,27,54,57,61,96,100],conform:[21,27,92,115,138],confus:[3,49,54,100,120],conjunct:[86,104],conlict:57,connect:[31,50,55],consequenti:[56,75],conserv:[4,5,6,16,87,93,95,116,143,146],consid:[6,44,53,54,78,100,123,130,140],consider:[44,77],consist:[6,31,43,47,51,55,88,113,120,128,138,143],consol:[13,87,128],consolid:111,constant:[29,31,44,55,59,88,120,128,140,143],constant_storm_modul:111,constrain:104,constraint:[40,126,146],construc:55,construct:[21,29,49,77,83,98,134,135,138],construct_function_handl:98,constructor:95,consult:96,contact:[82,85,94],contain:[1,3,5,7,12,13,19,22,24,25,29,31,33,34,35,36,38,40,41,43,45,46,47,48,49,50,51,53,55,57,58,61,62,66,67,71,73,74,77,78,80,81,83,85,86,88,90,91,92,93,95,97,98,100,104,105,107,108,115,116,118,120,124,125,128,130,134,138,140,141,143],containing_rect:29,contains:28,containt:119,contamin:125,contan:47,content:[47,51,78,143,144],context:[26,47,143],contigu:[66,86,95],contingu:21,continu:[13,21,27,29,45,75,120,125,146],contour:[3,29,40,47,49,61,99,124,140],contour_color:3,contour_kwarg:[3,140],contour_level:[3,140],contour_max:3,contour_min:3,contour_nlevel:3,contour_show:3,contourf:[47,70],contract:[56,75],contrast:49,contribut:[4,23,24,53,75,78,85,90,93,102,105],contributor:[4,23,56,85],control:[6,7,22,24,37,40,50,52,54,61,73,76,81,83,85,86,87,88,90,104,113,128],conveni:[1,26,33,34,40,47,73,80,82,85,87,89,97,143,146],convens:138,convent:[3,21,29,42,49,64,91,138],converg:70,convers:[18,24,78,86,104,138,142],convert43to46:18,convert46to50:19,convert:[3,21,24,29,38,43,47,52,54,55,57,64,78,90,98,115,125,126,134,138,142],convert_fort_double_to_float:98,convert_readm:11,convert_to_standard_unit:29,convex:31,coodin:29,coord:[43,47],coordin:[22,29,31,43,66,70,77,83,87,88,97,104,128,140],coordinate_specif:[29,64],coordinate_system:[14,122,128],coorind:140,copi:[6,14,15,33,34,40,47,50,51,54,61,77,80,90,95,101,102,103,104,108,112,115,122,130,132,133,138,143],copyq1:58,copyright:[56,75],core:[4,67,105,115],corioli:[44,128,132,133],coriolis_forc:[44,128],corner:[3,29,31,49,64,66,83,125,127,129,138,140],correct:[19,27,37,51,58,59,61,71,77,83,88,92,98,107,108,112,125,127,128,129],correctli:[27,31,78,84,111,128],correspond:[3,6,22,24,26,29,40,43,44,49,50,55,61,64,71,77,81,83,86,87,90,92,95,104,105,120,121,125,126,127,128,129,134,138,142,143],cos:[43,45,77,90],cosin:77,cost:[13,93],could:[5,13,26,31,33,34,40,49,54,64,65,71,73,77,83,87,95,96,99,100,111,126,127,128,129,140,143],council:4,count:77,count_from_zero:77,counter:[98,140],counterclockwis:64,coupl:[113,146],courant:[4,6,104,114,125,126,127,129],cours:[13,25,31,40,42,64,88,89,97,102,128,138],cover:[6,26,27,29,31,47,55,64,104,108,113,127,128,138],coverag:[85,105],covert:11,cparam:[77,95],cpp:48,cpu:[13,48,112,115,117,137],crash:[112,125],creat:[0,1,2,3,5,6,7,18,23,24,27,29,33,34,36,38,40,41,42,46,48,50,53,54,55,57,64,66,70,71,73,78,79,82,83,85,86,89,92,95,96,97,98,104,105,107,111,112,113,115,116,117,124,125,126,127,130,131,134,140,142,143,144],create_dtopo_xi:[29,64],create_dtopographi:[29,64],create_topo_func:140,creation:[71,85,107],criteria:[6,7,21,24,95],criterion:[31,104,127],critic:[47,87,120],crop:[49,140],cross:27,crucial:[47,138],csdm:23,cse:23,csh:88,csv:[29,64,115],csvfault:[29,64],ctrl:[28,71],cube:61,cumul:115,current:[3,5,13,19,21,23,26,27,28,29,31,37,40,41,44,49,50,51,52,53,54,55,61,62,66,71,73,83,86,87,88,93,95,98,100,104,105,112,114,115,119,121,124,125,127,128,129,134,135,138,140,142],current_data:[0,3,24,40,70,71],curv:[3,40,70],custom:[0,13,15,19,21,24,58,61,67,70,78,84,90],custom_bc:90,customari:87,cut:126,cutoff:[6,127],cvf:51,cvs:47,cxx:88,cyber:16,cygwin:80,cython:88,dai:[6,13,47,128],dalcin:75,dam:47,damag:[6,56,75],damian:53,damiansra:90,darker:47,darryl:16,dart:41,dash:[3,88],daspect:61,dat:[29,134],data:[0,1,3,5,24,26,29,31,33,34,36,38,40,41,42,43,49,50,55,56,57,61,70,71,72,73,75,77,80,83,86,87,89,91,92,93,95,98,101,102,103,104,107,109,110,112,113,115,116,117,120,121,127,129,134,137,139,144],data_break:140,data_storm:134,data_typ:98,databas:[13,29,64,98,102,115,138],datadir:112,dataset:[138,140,142],date:[5,27,36,43,47,50,51,57,71,134,141],date_tim:43,datetiem:134,datetim:[43,134],datum:[43,44,121,128,142],dave:29,davi:[4,16],david:[4,16,75,85,93],davis2018:[5,16],davisleveque2016:[5,16],davisleveque2018:[5,16],dawson:16,daylight:55,dcp:55,deal:[29,44,70,87,88,95,134,140],dealt:31,debian:99,debug:[7,37,57,66,70,87,95,100,105,125,127],debugg:71,decid:[77,93],decim:[43,55],decimc:134,decis:47,declar:[19,21,95,143],decompos:[66,120,146],decomposit:125,decor:98,decoupl:50,decreas:[40,138],deduc:138,deep:[5,128],deep_depth:128,deeper:[128,138],deepli:97,def:[0,1,3,40,47,71,77,83,87,90,93,127,129,134],default_tfluct:93,defenc:4,defin:[0,1,3,5,6,21,26,29,31,37,47,55,57,61,64,71,73,77,80,83,89,90,92,93,95,97,98,104,107,115,120,127,129,134,138,140,141,143,146],definit:[29,61,77,104,110],deform:[16,29,64,142],deg2dm:55,degre:[29,43,47,55,64],delet:[19,27,52,54],delimit:29,delin:128,delta:[81,83,90,93,120,140,143,146],delta_i:140,delta_limit:140,delta_x:140,dem:[49,55,115,138,140,142],demo:88,demonstr:[12,82,88],denot:[6,21,40,49,120,140],dens:135,densiti:[80,87,95,97,126,127,143],depart:[4,134],depdend:81,depend:[3,13,15,27,28,29,31,33,34,36,37,42,44,47,52,53,57,59,61,64,71,76,85,86,91,92,93,98,100,104,115,128,140,141,143,146],deprec:[7,29,32,111,115,128,138,140],depth:[4,5,15,16,21,29,31,40,41,44,59,64,70,72,121,128,138],deriv:[56,64,75,80,84,85,95,105],describ:[3,4,5,6,7,13,15,18,25,27,29,30,31,33,34,40,42,43,44,47,48,50,51,55,57,58,61,64,66,67,70,71,72,83,86,92,98,102,104,105,113,116,117,120,121,124,125,126,128,134,135,138,140,142,143,146],descript:[3,4,9,21,29,55,61,64,70,86,98,102,104,120,128,134,138,146],design:[4,26,27,47,75,77,97,121,142],desir:[0,1,2,3,6,7,15,21,24,25,29,31,38,40,51,52,54,55,64,69,70,71,73,77,78,80,87,92,93,101,113,115,123,125,127,129,134,138,140,141],desktop:88,destin:47,detail:[4,5,7,10,15,21,25,27,28,29,31,33,34,37,41,42,44,47,50,52,53,54,56,57,61,64,71,75,80,81,82,83,86,87,88,89,90,91,93,103,104,105,108,113,115,120,124,125,128,130,134,138,141,142,143,146],detect:[47,57,86,94,98,141],deterimin:[128,140],determin:[3,5,6,29,31,40,44,46,47,50,55,64,71,81,83,86,95,100,104,108,112,113,119,121,124,125,126,128,140,143],determine_topo_typ:140,dev:[17,23,27,50,88,115,116,118],develop:[4,6,7,13,17,21,22,28,44,48,50,53,54,56,61,70,74,75,78,85,90,93,94,100,105,115,116,120,121,127],dict:[29,80,86,91,92,95,134,140],dictionari:[0,1,2,3,29,40,71,77,80,86,91,92,95,97,100,134,138,140],dicuss:29,did:[115,138],didn:110,died:107,diff:[17,46,51,107,108,109,110,111,112,113,114,115,116,117],differ:[1,3,6,7,12,15,21,27,29,30,31,33,34,40,42,44,46,49,50,52,55,57,59,61,64,65,70,73,77,78,80,82,83,86,91,93,98,99,100,104,105,111,112,113,114,115,120,121,125,126,127,128,138,140,141,142,143,146],differenti:[16,29],difficult:40,difficulti:[94,96,100],diffus:90,digit:[49,55,71,113,114,115,140],dim:[90,91,93],dimens:[5,6,7,15,19,21,40,43,49,55,61,77,78,80,86,88,90,91,92,95,97,104,115,120,125,126,127,129,140,143],dimension:[3,7,8,16,21,24,29,31,33,34,40,44,48,61,83,90,111,112,114,117,127,128,129,140,143],dimensional_split:[83,111,125,127,129],dip:[29,64],dir:[51,88,144],direct:[6,8,15,21,29,31,33,34,40,43,47,51,55,56,57,61,64,65,71,75,80,90,97,104,114,120,125,126,128,140],directli:[8,18,22,44,52,61,64,71,73,77,78,81,85,95,98,100,115,140,144],directori:[1,3,5,6,11,12,13,14,15,18,19,21,22,24,27,28,30,31,33,34,35,36,38,40,41,43,46,47,50,51,52,53,55,58,61,62,65,69,70,73,80,82,83,85,86,87,90,97,100,101,102,104,105,107,112,113,114,115,117,119,120,122,123,124,125,126,130,132,133,136,137,138,141,143,144],directorti:102,disabl:[45,94,128],disable_petsc:98,discard:93,disclaim:[56,75],discontinu:[4,93,146],discov:59,discoveri:105,discret:93,discrib:4,discuss:[5,23,27,29,44,49,52,64,86,97,99,100,104,113,115,120,128,146],disk:[13,40,77,86,87,105,113],dispers:44,displac:[29,41,44,64,128,142],displai:[1,13,33,34,36,40,47,55,71,87,105,128],display_format:40,display_landfall_tim:128,dist:51,dist_latlong2met:43,dist_meters2latlong:43,distanc:[29,43,47,64,128,138,140],distant:[102,104],distinct:[40,113],distribut:[4,13,28,29,50,56,64,67,74,75,93,99],disturb:47,distutil:78,dive:99,divid:[104,125],divis:[4,47],dlgeorg:4,dms2decim:43,dnetcdf:[37,138],doc:[17,22,23,27,29,47,50,51,81,98,100,114,115,116,117,131],docker:[17,24,51,52,114,115,116,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132,133,141],within:[6,15,27,52,54,67,71,89,98,100,104,120,124,130,140],without:[15,21,36,40,44,50,51,53,55,56,57,58,61,71,73,74,75,81,86,87,98,100,101,105,106,107,108,109,110,127,129,134,141,143],wkt:47,wmo:134,wmo_:134,wmo_ag:134,won:[13,78,140],woodward:114,word:[87,115,134],work:[3,5,8,13,15,18,19,21,23,24,25,27,31,33,34,36,41,44,47,48,49,50,51,52,53,54,55,61,63,64,65,71,74,75,76,77,79,80,81,85,86,87,88,91,93,94,99,100,102,103,104,105,109,110,111,112,113,114,115,118,120,124,125,126,128,130,135,138,141,145],workflow:[102,130,134],workspac:[61,95],world:[44,59,85,88,134],worst:121,worth:95,worthwhil:90,would:[2,3,13,15,26,27,31,37,47,49,51,52,54,57,58,64,66,71,75,77,80,83,87,98,105,113,121,124,125,128,134,138,143],wouldn:58,wpalg:16,wrap:[55,75,78,83,93,98,134],wrapper:140,write:[27,29,40,46,49,59,64,66,67,70,77,80,83,84,86,87,88,92,113,115,127,129,134,138,140],write_:86,write_arrai:86,write_atcf:134,write_aux:[86,92],write_aux_alwai:[77,80,87],write_aux_init:[77,80],write_aux_int:87,write_geoclaw:134,write_hurdat:134,write_imd:134,write_input_data:31,write_jma:134,write_p:[86,92],write_tcvit:134,written:[6,11,24,29,36,40,54,55,56,64,66,67,71,75,84,86,90,99,113,120,125,126,127,128,129,134,140,143],wrong:[54,58,61,87,100],www:[4,13,16,29,39,41,50,56,62,75,78,83,86,88,114,116,134,140],x_1:5,x_2:5,x_cell:55,x_edg:55,x_i:[120,143,146],x_inch:55,x_mask:140,xarr:83,xarrai:140,xarray_d:140,xclaw:[33,34,80],xclawcmd:80,xclawerr:80,xclawout:80,xcode:74,xdir:80,xiaom:29,xinsheng:[4,48],xinshengqin:[4,48],xleft:[126,127],xlf:94,xlimit:[0,40,47],xllcenter:[49,115,138],xllcorner:[49,138],xllower:115,xlow:66,xlower:[0,3,15,21,26,78,115,127,129,138,140,143],xlowerg:78,xmax:0,xmin:0,xpoint:128,xrang:90,xtick:45,xupper:[0,21,127,129,140],xxdiff:105,xxx:138,xxxx:61,xylim:29,xzf:53,y_cell:55,y_edg:55,y_inch:55,year:[4,16,21,47,55,85,106,116,134],yellow:[55,71,134],yellow_red_blu:71,yes:61,yet:[1,13,19,24,44,48,50,53,55,70,93,113,114,115,116,117,118,120,125,127,145],yianni:[4,16,75],yield:3,yleft:[126,127],ylimit:[0,40,47,124],yllcenter:[49,115,138],yllcorner:[49,138],yllower:115,ylow:66,ylower:[3,21,26,78,115,127,138,140],ylowerg:78,ymax:0,ymin:0,yml:105,yong:16,you:[0,3,4,5,13,14,15,17,18,19,21,22,23,24,25,26,27,28,31,33,34,35,36,37,38,40,43,46,47,48,49,50,51,52,53,54,55,57,58,61,62,63,64,65,66,67,69,70,71,73,74,75,77,78,79,80,82,85,86,87,88,89,90,93,94,95,96,97,99,100,102,103,105,107,112,113,114,115,118,119,120,121,122,123,124,127,128,129,130,131,132,133,134,136,138,141,142,143,145],your:[6,14,15,18,19,23,24,25,31,33,35,37,40,49,50,51,52,53,54,62,65,70,71,73,75,76,77,78,79,82,84,85,87,96,97,99,100,101,102,104,105,107,115,120,122,123,132,133,138,141,143],yourself:[37,40,53],ypoint:128,yupper:[21,127,140],z_format:140,zenodo:[4,53,118],zero:[3,15,29,37,55,61,77,90,95,97,121],zip:[12,47,51],zipinfo:47,zlib:86,zlim:55,zlower:21,zone:[44,47,55,126,127],zoom:47,zsh:88,zupper:21,zvar:140},titles:["ClawPlotAxes","ClawPlotData","ClawPlotFigure","ClawPlotItem","About this software","Guiding AMR with adjoint flagging","Adaptive mesh refinement (AMR) algorithms","AMRClaw","AMRClaw for 1d problems","Doxygen documentation of AMRClaw","AMRClaw Flowcharts","Application documentation","Clawpack Applications repository","Amazon Web Services EC2 Clawpack AMI","b4step default routines","Boundary conditions","Bibliography","Changes to master since v5.6.1","Converting from Clawpack 4.3 to 4.6","Converting from Clawpack 4.6 to 5.0","Clawpack 4.x links","Changes in Clawpack 5.0","Clawpack components","Clawpack Community","Full Table of Contents","Contributing examples and applications","current_data","Developers\u2019 Guide","Docker for Clawpack","dtopotools module for moving topography","Fortran 77 vs. Fortran 90 files","Fixed grid monitoring","Fixed grid output","Running an example","Testing your Fortran installation and running an example","Testing a PyClaw installation and running an example","Fortran version","Fortran Compilers","Examples from the book FVMHP","<no title>","Gauges","GeoClaw","Getting started with GeoClaw","geoclaw.util module of utility functions","Cautionary Hints on using GeoClaw","GeoClaw plotting tools","Keeping track of repository versions with Git","Visualizing GeoClaw results in Google Earth","Using the GPU version of Clawpack","Grid registration","Guide for updating this documentation","Guide for doing a Clawpack release","Installing Clawpack","Additional options for installing Clawpack","pip install instructions","kmltools module of utility functions","License","Clawpack Makefiles","Library routines in Makefiles","Manning friction term","The mapc2p function","Plotting using Matlab","Using NetCDF output","Creating a new application directory","Earthquake sources: Fault slip and the Okada model","Using OpenMP","Output data formats","Which Clawpack solver should I use?","Clawpack Community Photos","Plotting examples","Plotting with Visclaw","Plotting hints and FAQ","Plotting routines for GeoClaw","Plotting options in Python","Installation Prerequisites","About PyClaw","PyClaw Basics","Understanding Pyclaw Classes","Porting a problem from Clawpack 4.6.x to PyClaw","Running PyClaw in the cloud","Pyclaw Controller Class","Pyclaw Limiters","Working with PyClaw\u2019s built-in examples","PyClaw Geometry","Going Further","Pyclaw","Pyclaw Input/Output Package","PyClaw output","Running in parallel","Plotting PyClaw results","Setting up your own problem","Riemann Solver Package","PyClaw Solutions","Using PyClaw\u2019s solvers: Classic and SharpClaw","Installing PyClaw","PyClaw State","Troubleshooting","PyClaw tutorial: Solve the acoustics equations","Pyclaw Utility Module","Python Hints","Python path","qinit default routines","Quick start guide for storm surge modeling","Quick start guide for tsunami modeling","AMR refinement criteria","Regression testing","v5.0.0 release notes","v5.1.0 release notes","v5.2.0 release notes","v5.2.1 release notes","v5.2.2 release notes","v5.3.0 release notes","v5.3.1 release notes","v5.4.0 release notes","v5.4.1 release notes","v5.5.0 release notes","v5.6.0 release notes","v5.6.1 release notes","Releases of Clawpack and release notes","Checkpointing and restarting","Riemann solvers","Setting sealevel","setaux default routines","Set environment variables","Using setplot.py to specify the desired plots","Specifying classic run-time parameters in setrun.py","Specifying AMRClaw run-time parameters in setrun.py","Sample setrun.py module for AMRClaw","Specifying GeoClaw parameters in setrun.py","Sample setrun.py module for classic Clawpack","Saving and sharing results","Compiling the Sphinx documentation locally","src1d default routines","src default routines","Storm Specification Class and Tools","Sources for Storm Surge Data","Testing your installation","Timing Statistics","Topography data","Python tools for working with topo and dtopo","topotools module for working with topography data","Troubleshooting","Some sources of tsunami data","User files required for the Fortran code","Plotting with VisIt","Clawpack Virtual Machine","Wave-propagation 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do:23,colorbar:[3,55,115,140],colorbar_kwarg:115,colorbar_labels:29,colorbar_shrink:29,colorbar_ticks:29,colormap:[3,29,42,47,61,70,72,112,140],column:[10,29,31,40,44,87,91,111,140],column_list:29,column_map:29,com:[12,13,22,23,25,27,28,48,50,51,52,53,54,86,88,90,94,110,112,113,114,118],combin:[19,50,55,112,142],combinatori:105,come:[3,27,50,71,73,82,88,93,111,138,143],comfort:[54,90],comm_world:98,command:[0,1,2,3,11,13,27,36,46,47,48,51,52,53,54,57,63,70,71,74,77,78,80,85,88,89,93,97,98,99,100,105,120,123,124,125,126,138,140],commenc:119,comment:[5,11,23,45,51,114,119],commit:[24,29,46,50,51,105],common:[3,22,27,33,34,36,37,57,58,67,70,77,91,93,95,96,113,115,141,143],common_sourc:58,commonli:[3,61,71,73],commun:[24,47,75,95,98,100,104,115],comot:4,compact:138,compar:[5,21,34,40,44,47,51,71,87,104,105,121,126,128,136,142,146],compare_gaug:111,comparison:48,compat:[27,29,43,47,55,64,70,86,88,96,99,108,109,113,114,140],compens:140,compil:[13,24,33,34,36,42,52,54,58,65,67,73,74,78,85,86,90,94,98,107,120,123],compile_librari:98,complet:[19,21,27,43,57,73,77,78,88,98,99,105],complevel:86,complex:[12,83],compliant:37,complic:[15,71,78,124],compon:[3,15,19,21,24,31,34,40,52,54,61,66,70,90,92,94,95,104,111,125,126,127,138,143],compos:[29,77],comprehens:105,compress:[29,86,140],compris:[21,85,140],comput:[3,4,5,6,13,15,16,26,28,29,31,40,43,47,49,52,54,55,57,62,64,70,71,73,78,80,83,85,86,87,88,93,97,99,100,102,104,107,108,112,113,117,120,125,127,128,129,135,138,143,146],computation:[78,93],compute_f:[80,87],compute_gauge_valu:87,compute_p:[77,80],concentr:102,concern:[21,41],conclus:[4,47],conda:[47,52,74,85],condit:[5,7,19,24,56,58,67,75,76,77,78,80,87,93,101,107,108,111,115,121,125,127,128,129],conduct:115,conf:[50,51],confer:23,config:88,config_fc:141,configur:[71,77,88,140],confirm:44,conflict:[6,27,54,57,61,96,100],conform:[21,27,92,115,138],confus:[3,49,54,100,120],conjunct:[86,104],conlict:57,connect:[31,50,55],consequenti:[56,75],conserv:[4,5,6,16,87,93,95,116,143,146],consid:[6,44,53,54,78,100,123,130,140],consider:[44,77],consist:[6,31,43,47,51,55,88,113,120,128,138,143],consol:[13,87,128],consolid:111,constant:[29,31,44,55,59,88,91,120,128,140,143],constant_storm_modul:111,constrain:104,constraint:[40,126,146],construc:55,construct:[21,29,49,77,83,98,134,135,138],construct_function_handl:98,constructor:95,consult:96,contact:[82,85,94],contain:[1,3,5,7,12,13,19,22,24,25,29,31,33,34,35,36,38,40,41,43,45,46,47,48,49,50,51,53,55,57,58,61,62,66,67,71,73,74,77,78,80,81,83,85,86,88,90,91,92,93,95,97,98,100,104,105,107,108,115,116,118,120,124,125,128,130,134,138,140,141,143],containing_rect:29,contains:28,containt:119,contamin:125,contan:47,content:[47,51,78,143,144],context:[26,47,143],contigu:[66,86,95],contingu:21,continu:[13,21,27,29,45,75,120,125,146],contour:[3,29,40,47,49,61,99,124,140],contour_color:3,contour_kwarg:[3,140],contour_level:[3,140],contour_max:3,contour_min:3,contour_nlevel:3,contour_show:3,contourf:[47,70],contract:[56,75],contrast:49,contribut:[4,23,24,53,75,78,85,90,93,102,105],contributor:[4,23,56,85],control:[6,7,22,24,37,40,50,52,54,61,73,76,81,83,85,86,87,88,90,104,113,128],conveni:[1,26,33,34,40,47,73,80,82,85,87,89,97,143,146],convens:138,convent:[3,21,29,42,49,64,91,138],converg:70,convers:[18,24,78,86,104,138,142],convert43to46:18,convert46to50:19,convert:[3,21,24,29,38,43,47,52,54,55,57,64,78,90,98,115,125,126,134,138,142],convert_fort_double_to_float:98,convert_readm:11,convert_to_standard_unit:29,convex:31,coodin:29,coord:[43,47],coordin:[22,29,31,43,66,70,77,83,87,88,97,104,128,140],coordinate_specif:[29,64],coordinate_system:[14,122,128],coorind:140,copi:[6,14,15,33,34,40,47,50,51,54,61,77,80,90,95,101,102,103,104,108,112,115,122,130,132,133,138,143],copyq1:58,copyright:[56,75],core:[4,67,105,115],corioli:[44,128,132,133],coriolis_forc:[44,128],corner:[3,29,31,49,64,66,83,125,127,129,138,140],correct:[19,27,37,51,58,59,61,71,77,83,88,92,98,107,108,112,125,127,128,129],correctli:[27,31,78,84,111,128],correspond:[3,6,22,24,26,29,40,43,44,49,50,55,61,64,71,77,81,83,86,87,90,92,95,104,105,120,121,125,126,127,128,129,134,138,142,143],cos:[43,45,77,90],cosin:77,cost:[13,93],could:[5,13,26,31,33,34,40,49,54,64,65,71,73,77,83,87,95,96,99,100,111,126,127,128,129,140,143],council:4,count:77,count_from_zero:77,counter:[98,140],counterclockwis:64,coupl:[113,146],courant:[4,6,104,114,125,126,127,129],cours:[13,25,31,40,42,64,88,89,97,102,128,138],cover:[6,26,27,29,31,47,55,64,104,108,113,127,128,138],coverag:[85,105],covert:11,cparam:[77,95],cpp:48,cpu:[13,48,112,115,117,137],crash:[112,125],creat:[0,1,2,3,5,6,7,18,23,24,27,29,33,34,36,38,40,41,42,46,48,50,53,54,55,57,64,66,70,71,73,78,79,82,83,85,86,89,92,95,96,97,98,104,105,107,111,112,113,115,116,117,124,125,126,127,130,131,134,140,142,143,144],create_dtopo_xi:[29,64],create_dtopographi:[29,64],create_topo_func:140,creation:[71,85,107],criteria:[6,7,21,24,95],criterion:[31,104,127],critic:[47,87,120],crop:[49,140],cross:27,crucial:[47,138],csdm:23,cse:23,csh:88,csv:[29,64,115],csvfault:[29,64],ctrl:[28,71],cube:61,cumul:115,current:[3,5,13,19,21,23,26,27,28,29,31,37,40,41,44,49,50,51,52,53,54,55,61,62,66,71,73,83,86,87,88,93,95,98,100,104,105,112,114,115,119,121,124,125,127,128,129,134,135,138,140,142],current_data:[0,3,24,40,70,71],curv:[3,40,70],custom:[0,13,15,19,21,24,58,61,67,70,78,84,90],custom_bc:90,customari:87,cut:126,cutoff:[6,127],cvf:51,cvs:47,cxx:88,cyber:16,cygwin:80,cython:88,dai:[6,13,47,128],dalcin:75,dam:47,damag:[6,56,75],damian:53,damiansra:90,darker:47,darryl:16,dart:41,dash:[3,88],daspect:61,dat:[29,134],data:[0,1,3,5,24,26,29,31,33,34,36,38,40,41,42,43,49,50,55,56,57,61,70,71,72,73,75,77,80,83,86,87,89,91,92,93,95,98,101,102,103,104,107,109,110,112,113,115,116,117,120,121,127,129,134,137,139,144],data_break:140,data_storm:134,data_typ:98,databas:[13,29,64,98,102,115,138],datadir:112,dataset:[138,140,142],date:[5,27,36,43,47,50,51,57,71,134,141],date_tim:43,datetiem:134,datetim:[43,134],datum:[43,44,91,121,128,142],dave:29,davi:[4,16],david:[4,16,75,85,93],davis2018:[5,16],davisleveque2016:[5,16],davisleveque2018:[5,16],dawson:16,daylight:55,dcp:55,deal:[29,44,70,87,88,95,134,140],dealt:31,debian:99,debug:[7,37,57,66,70,87,95,100,105,125,127],debugg:71,decid:[77,93],decim:[43,55],decimc:134,decis:47,declar:[19,21,95,143],decompos:[66,120,146],decomposit:125,decor:98,decoupl:50,decreas:[40,138],deduc:138,deep:[5,128],deep_depth:128,deeper:[128,138],deepli:97,def:[0,1,3,40,47,71,77,83,87,90,93,127,129,134],default_tfluct:93,defenc:4,defin:[0,1,3,5,6,21,26,29,31,37,47,55,57,61,64,71,73,77,80,83,89,90,92,93,95,97,98,104,107,115,120,127,129,134,138,140,141,143,146],definit:[29,61,77,104,110],deform:[16,29,64,142],deg2dm:55,degre:[29,43,47,55,64],delet:[19,27,52,54],delimit:29,delin:128,delta:[81,83,90,93,120,140,143,146],delta_h:91,delta_hu:91,delta_i:140,delta_limit:140,delta_x:140,dem:[49,55,115,138,140,142],demo:88,demonstr:[12,82,88],denot:[6,21,40,49,120,140],dens:135,densiti:[80,87,91,95,97,126,127,143],depart:[4,134],depdend:81,depend:[3,13,15,27,28,29,31,33,34,36,37,42,44,47,52,53,57,59,61,64,71,76,85,86,91,92,93,98,100,104,115,128,140,141,143,146],deprec:[7,29,32,111,115,128,138,140],depth:[4,5,15,16,21,29,31,40,41,44,59,64,70,72,121,128,138],deriv:[56,64,75,80,84,85,95,105],describ:[3,4,5,6,7,13,15,18,25,27,29,30,31,33,34,40,42,43,44,47,48,50,51,55,57,58,61,64,66,67,70,71,72,83,86,92,98,102,104,105,113,116,117,120,121,124,125,126,128,134,135,138,140,142,143,146],descript:[3,4,9,21,29,55,61,64,70,86,98,102,104,120,128,134,138,146],design:[4,26,27,47,75,77,97,121,142],desir:[0,1,2,3,6,7,15,21,24,25,29,31,38,40,51,52,54,55,64,69,70,71,73,77,78,80,87,92,93,101,113,115,123,125,127,129,134,138,140,141],desktop:88,destin:47,detail:[4,5,7,10,15,21,25,27,28,29,31,33,34,37,41,42,44,47,50,52,53,54,56,57,61,64,71,75,80,81,82,83,86,87,88,89,90,91,93,103,104,105,108,113,115,120,124,125,128,130,134,138,141,142,143,146],detect:[47,57,86,94,98,141],deterimin:[128,140],determin:[3,5,6,29,31,40,44,46,47,50,55,64,71,81,83,86,91,95,100,104,108,112,113,119,121,124,125,126,128,140,143],determine_topo_typ:140,dev:[17,23,27,50,88,115,116,118],develop:[4,6,7,13,17,21,22,28,44,48,50,53,54,56,61,70,74,75,78,85,90,93,94,100,105,115,116,120,121,127],dict:[29,80,86,91,92,95,134,140],dictionari:[0,1,2,3,29,40,71,77,80,86,91,92,95,97,100,134,138,140],dicuss:29,did:[115,138],didn:110,died:107,diff:[17,46,51,107,108,109,110,111,112,113,114,115,116,117],differ:[1,3,6,7,12,15,21,27,29,30,31,33,34,40,42,44,46,49,50,52,55,57,59,61,64,65,70,73,77,78,80,82,83,86,91,93,98,99,100,104,105,111,112,113,114,115,120,121,125,126,127,128,138,140,141,142,143,146],differenti:[16,29],difficult:40,difficulti:[94,96,100],diffus:90,digit:[49,55,71,113,114,115,140],dim:[90,91,93],dimens:[5,6,7,15,19,21,40,43,49,55,61,77,78,80,86,88,90,91,92,95,97,104,115,120,125,126,127,129,140,143],dimension:[3,7,8,16,21,24,29,31,33,34,40,44,48,61,83,90,111,112,114,117,127,128,129,140,143],dimensional_split:[83,111,125,127,129],dip:[29,64],dir:[51,88,144],direct:[6,8,15,21,29,31,33,34,40,43,47,51,55,56,57,61,64,65,71,75,80,90,97,104,114,120,125,126,128,140],directli:[8,18,22,44,52,61,64,71,73,77,78,81,85,95,98,100,115,140,144],directori:[1,3,5,6,11,12,13,14,15,18,19,21,22,24,27,28,30,31,33,34,35,36,38,40,41,43,46,47,50,51,52,53,55,58,61,62,65,69,70,73,80,82,83,85,86,87,90,97,100,101,102,104,105,107,112,113,114,115,117,119,120,122,123,124,125,126,130,132,133,136,137,138,141,143,144],directorti:102,disabl:[45,94,128],disable_petsc:98,discard:93,disclaim:[56,75],discontinu:[4,93,146],discov:59,discoveri:105,discret:93,discrib:4,discuss:[5,23,27,29,44,49,52,64,86,97,99,100,104,113,115,120,128,146],disk:[13,40,77,86,87,105,113],dispers:44,displac:[29,41,44,64,128,142],displai:[1,13,33,34,36,40,47,55,71,87,105,128],display_format:40,display_landfall_tim:128,dist:51,dist_latlong2met:43,dist_meters2latlong:43,distanc:[29,43,47,64,128,138,140],distant:[102,104],distinct:[40,113],distribut:[4,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7,73,80,83,84,85,86,88,91,100,104,107,108,111,112,113,119,121,124,125,127,128,129,134,137,138,140,143,146],wherea:[40,47,70,88],wherev:[28,141],whether:[3,6,13,15,21,43,49,56,57,61,75,83,86,87,91,92,93,104,105,113,120,125,126,128,140],which:[0,1,3,4,5,6,7,11,13,15,19,21,24,27,28,29,31,33,34,35,40,42,44,47,49,50,51,52,53,54,55,57,59,61,64,65,66,71,73,74,77,78,80,81,82,83,85,86,87,88,89,90,91,92,93,94,96,97,98,99,102,104,105,107,108,111,113,115,116,119,120,121,125,126,127,128,134,135,138,140,142,143,145,146],whichclaw:141,white:55,whith:78,who:[10,18,21,23,31,37,44,54],whole:[27,47,87,88],whose:[3,71,78,90,91,125,126,140],wide:[54,99,100],wider:71,width:[29,47,55,64,66,83,90,95,104,127,129],wiki:94,wikipedia:49,wind:[115,128,134,135,140],wind_forc:128,wind_index:128,wind_refin:128,wind_spe:134,window:[13,29,61,73,99,123],wisdom:55,wise:[27,93],wish:[4,13,14,21,28,33,34,44,47,52,54,61,69,70,85,90,93,94,96,100,102,104,113,122,130,132,133,141],within:[6,15,27,52,54,67,71,89,98,100,104,120,124,130,140],without:[15,21,36,40,44,50,51,53,55,56,57,58,61,71,73,74,75,81,86,87,98,100,101,105,106,107,108,109,110,127,129,134,141,143],wkt:47,wmo:134,wmo_:134,wmo_ag:134,won:[13,78,140],woodward:114,word:[87,115,134],work:[3,5,8,13,15,18,19,21,23,24,25,27,31,33,34,36,41,44,47,48,49,50,51,52,53,54,55,61,63,64,65,71,74,75,76,77,79,80,81,85,86,87,88,91,93,94,99,100,102,103,104,105,109,110,111,112,113,114,115,118,120,124,125,126,128,130,135,138,141,145],workflow:[102,130,134],workspac:[61,95],world:[44,59,85,88,134],worst:121,worth:95,worthwhil:90,would:[2,3,13,15,26,27,31,37,47,49,51,52,54,57,58,64,66,71,75,77,80,83,87,98,105,113,121,124,125,128,134,138,143],wouldn:58,wpalg:16,wrap:[55,75,78,83,93,98,134],wrapper:140,write:[27,29,40,46,49,59,64,66,67,70,77,80,83,84,86,87,88,92,113,115,127,129,134,138,140],write_:86,write_arrai:86,write_atcf:134,write_aux:[86,92],write_aux_alwai:[77,80,87],write_aux_init:[77,80],write_aux_int:87,write_geoclaw:134,write_hurdat:134,write_imd:134,write_input_data:31,write_jma:134,write_p:[86,92],write_tcvit:134,written:[6,11,24,29,36,40,54,55,56,64,66,67,71,75,84,86,90,99,113,120,125,126,127,128,129,134,140,143],wrong:[54,58,61,87,100],www:[4,13,16,29,39,41,50,56,62,75,78,83,86,88,114,116,134,140],x_1:5,x_2:5,x_cell:55,x_edg:55,x_i:[120,143,146],x_inch:55,x_mask:140,xarr:83,xarrai:140,xarray_d:140,xclaw:[33,34,80],xclawcmd:80,xclawerr:80,xclawout:80,xcode:74,xdir:80,xiaom:29,xinsheng:[4,48],xinshengqin:[4,48],xleft:[126,127],xlf:94,xlimit:[0,40,47],xllcenter:[49,115,138],xllcorner:[49,138],xllower:115,xlow:66,xlower:[0,3,15,21,26,78,115,127,129,138,140,143],xlowerg:78,xmax:0,xmin:0,xpoint:128,xrang:90,xtick:45,xupper:[0,21,127,129,140],xxdiff:105,xxx:138,xxxx:61,xylim:29,xzf:53,y_cell:55,y_edg:55,y_inch:55,year:[4,16,21,47,55,85,106,116,134],yellow:[55,71,134],yellow_red_blu:71,yes:61,yet:[1,13,19,24,44,48,50,53,55,70,93,113,114,115,116,117,118,120,125,127,145],yianni:[4,16,75],yield:3,yleft:[126,127],ylimit:[0,40,47,124],yllcenter:[49,115,138],yllcorner:[49,138],yllower:115,ylow:66,ylower:[3,21,26,78,115,127,138,140],ylowerg:78,ymax:0,ymin:0,yml:105,yong:16,you:[0,3,4,5,13,14,15,17,18,19,21,22,23,24,25,26,27,28,31,33,34,35,36,37,38,40,43,46,47,48,49,50,51,52,53,54,55,57,58,61,62,63,64,65,66,67,69,70,71,73,74,75,77,78,79,80,82,85,86,87,88,89,90,91,93,94,95,96,97,99,100,102,103,105,107,112,113,114,115,118,119,120,121,122,123,124,127,128,129,130,131,132,133,134,136,138,141,142,143,145],your:[6,14,15,18,19,23,24,25,31,33,35,37,40,49,50,51,52,53,54,62,65,70,71,73,75,76,77,78,79,82,84,85,87,96,97,99,100,101,102,104,105,107,115,120,122,123,132,133,138,141,143],yourself:[37,40,53],ypoint:128,yupper:[21,127,140],z_format:140,zenodo:[4,53,118],zero:[3,15,29,37,55,61,77,90,91,95,97,121],zip:[12,47,51],zipinfo:47,zlib:86,zlim:55,zlower:21,zone:[44,47,55,126,127],zoom:47,zsh:88,zupper:21,zvar:140},titles:["ClawPlotAxes","ClawPlotData","ClawPlotFigure","ClawPlotItem","About this software","Guiding AMR with adjoint flagging","Adaptive mesh refinement (AMR) algorithms","AMRClaw","AMRClaw for 1d problems","Doxygen documentation of AMRClaw","AMRClaw Flowcharts","Application documentation","Clawpack Applications repository","Amazon Web Services EC2 Clawpack AMI","b4step default routines","Boundary conditions","Bibliography","Changes to master since v5.6.1","Converting from Clawpack 4.3 to 4.6","Converting from Clawpack 4.6 to 5.0","Clawpack 4.x links","Changes in Clawpack 5.0","Clawpack components","Clawpack Community","Full Table of Contents","Contributing examples and applications","current_data","Developers\u2019 Guide","Docker for Clawpack","dtopotools module for moving topography","Fortran 77 vs. Fortran 90 files","Fixed grid monitoring","Fixed grid output","Running an example","Testing your Fortran installation and running an example","Testing a PyClaw installation and running an example","Fortran version","Fortran Compilers","Examples from the book FVMHP","<no title>","Gauges","GeoClaw","Getting started with GeoClaw","geoclaw.util module of utility functions","Cautionary Hints on using GeoClaw","GeoClaw plotting tools","Keeping track of repository versions with Git","Visualizing GeoClaw results in Google Earth","Using the GPU version of Clawpack","Grid registration","Guide for updating this documentation","Guide for doing a Clawpack release","Installing Clawpack","Additional options for installing Clawpack","pip install instructions","kmltools module of utility functions","License","Clawpack Makefiles","Library routines in Makefiles","Manning friction term","The mapc2p function","Plotting using Matlab","Using NetCDF output","Creating a new application directory","Earthquake sources: Fault slip and the Okada model","Using OpenMP","Output data formats","Which Clawpack solver should I use?","Clawpack Community Photos","Plotting examples","Plotting with Visclaw","Plotting hints and FAQ","Plotting routines for GeoClaw","Plotting 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        (an ocean at rest remains at rest).

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        see Using src1d for source terms with AMRClaw.

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a/v5.7.x/genindex.html b/v5.7.x/genindex.html index 2e457b5bb..b07d96d01 100644 --- a/v5.7.x/genindex.html +++ b/v5.7.x/genindex.html @@ -109,6 +109,8 @@

            A

            @@ -212,17 +218,27 @@

            C

          • clawpack.geoclaw.topotools (module)
            • -
          - +

        Acoustics

        +

        Riemann solvers for constant coefficient acoustics.

        +
        +\[q_t + A q_x = 0\]
        +

        where

        +
        +\[\begin{split}q(x,t) = \left [ \begin{array}{c} p(x,t) \\ u(x,t) \end{array} \right ]\end{split}\]
        +

        and the coefficient matrix is

        +
        +\[\begin{split}A = \left [\begin{matrix} +0 & K\\ +1/\rho & 0 +\end{matrix} \right ]\end{split}\]
        +

        The parameters \(\rho =\) density and \(K =\) bulk modulus are used +to calculate the impedence \(= Z\) and speed of sound = c.

        +
        +
        Authors
        +

        Kyle T. Mandli (2009-02-03): Initial version

        +
        +
        +
        +
        +clawpack.riemann.acoustics_1D_py.acoustics_1D(q_l, q_r, aux_l, aux_r, problem_data)
        +

        Basic 1d acoustics riemann solver, with interleaved arrays

        +
        +
        problem_data is expected to contain -
          +

        • zz - (float) Impedence

          • +

        • cc - (float) Speed of sound

          • +
        +
        +
        +

        See Riemann Solver Package for more details.

        +
        +
        Version
        +

        1.0 (2009-02-03)

        +
        +
        +
        +

        Advection

        +

        Simple advection Riemann solvers

        +

        Basic advection Riemann solvers of the form (1d)

        +
        +\[q_t + A q_x = 0.\]
        +
        +
        Authors
        +

        Kyle T. Mandli (2008-2-20): Initial version

        +
        +
        +
        +
        +clawpack.riemann.advection_1D_py.advection_1D(q_l, q_r, aux_l, aux_r, problem_data)
        +

        Basic 1d advection riemann solver

        +
        +
        problem_data should contain -
          +

        • u - (float) Determines advection speed

          • +
        +
        +
        +

        See Riemann Solver Package for more details.

        +
        +
        Version
        +

        1.0 (2008-2-20)

        +
        +
        +
        +

        Burgers Equation

        +

        Riemann solvers for Burgers equation

        +
        +\[u_t + \left ( \frac{1}{2} u^2 \right)_x = 0\]
        +
        +
        Authors
        +

        Kyle T. Mandli (2009-2-4): Initial version

        +
        +
        +
        +
        +clawpack.riemann.burgers_1D_py.burgers_1D(q_l, q_r, aux_l, aux_r, problem_data)
        +

        Riemann solver for Burgers equation in 1d

        +
        +
        problem_data should contain -
          +

        • efix - (bool) Whether a entropy fix should be used, if not present, +false is assumed

          • +
        +
        +
        +

        See Riemann Solver Package for more details.

        +
        +
        Version
        +

        1.0 (2009-2-4)

        +
        +
        +
        +

        Euler Equations

        +

        Riemann solvers for the Euler equations

        +

        This module contains Riemann solvers for the Euler equations which have the +form (in 1d):

        +
        +\[q_t + f(q)_x = 0\]
        +

        where

        +
        +\[\begin{split}q(x,t) = \left [ \begin{array}{c} \rho \\ \rho u \\ E \end{array} \right ],\end{split}\]
        +

        the flux function is

        +
        +\[\begin{split}f(q) = \left [ \begin{array}{c} \rho u \\ \rho u^2 + p \\ u(E+p) \end{array}\right ].\end{split}\]
        +

        and \(\rho\) is the density, \(u\) the velocity, \(E\) is the +energy and \(p\) is the pressure.

        +

        Unless otherwise noted, the ideal gas equation of state is used:

        +
        +\[E = (\gamma - 1) \left (E - \frac{1}{2}\rho u^2 \right)\]
        +
        +
        +clawpack.riemann.euler_1D_py.euler_exact_1D(q_l, q_r, aux_l, aux_r, problem_data)
        +

        Exact euler Riemann solver

        +
        +

        Warning

        +

        This solver has not been implemented.

        +
        +
        + +
        +
        +clawpack.riemann.euler_1D_py.euler_hll_1D(q_l, q_r, aux_l, aux_r, problem_data)
        +

        HLL euler solver

        +
        W_1 = Q_hat - Q_l    s_1 = min(u_l-c_l,u_l+c_l,lambda_roe_1,lambda_roe_2)
+W_2 = Q_r - Q_hat    s_2 = max(u_r-c_r,u_r+c_r,lambda_roe_1,lambda_roe_2)
+
+Q_hat = ( f(q_r) - f(q_l) - s_2 * q_r + s_1 * q_l ) / (s_1 - s_2)
+
        +
        +
        +
        problem_data should contain:
          +

        • gamma - (float) Ratio of the heat capacities

          • +

        • gamma1 - (float) \(1 - \gamma\)

          • +
        +
        +
        +
        +
        Version
        +

        1.0 (2014-03-04)

        +
        +
        +
        + +
        +
        +clawpack.riemann.euler_1D_py.euler_hllc_1D(q_l, q_r, aux_l, aux_r, problem_data)
        +

        HLLC Euler solver

        +
        W_1 = q_hat_l - q_l      s_1 = min(u_l-c_l,u_l+c_l,lambda_roe_1,lambda_roe_2)
+W_2 = q_hat_r - q_hat_l  s_2 = s_m
+W_3 = q_r - q_hat_r      s_3 = max(u_r-c_r,u_r+c_r,lambda_roe_1,lambda_roe_2)
+s_m = (p_r - p_l + rho_l*u_l*(s_l - u_l) - rho_r*u_r*(s_r - u_r))\
+  / (rho_l*(s_l-u_l) - rho_r*(s_r - u_r))
+
        +
        +

        left middle state:

        +
        q_hat_l[0,:] = rho_l*(s_l - u_l)/(s_l - s_m)
+q_hat_l[1,:] = rho_l*(s_l - u_l)/(s_l - s_m)*s_m
+q_hat_l[2,:] = rho_l*(s_l - u_l)/(s_l - s_m)\
+        *(E_l/rho_l + (s_m - u_l)*(s_m + p_l/(rho_l*(s_l - u_l))))
+
        +
        +

        right middle state:

        +
        q_hat_r[0,:] = rho_r*(s_r - u_r)/(s_r - s_m)
+q_hat_r[1,:] = rho_r*(s_r - u_r)/(s_r - s_m)*s_m
+q_hat_r[2,:] = rho_r*(s_r - u_r)/(s_r - s_m)\
+        *(E_r/rho_r + (s_m - u_r)*(s_m + p_r/(rho_r*(s_r - u_r))))
+
        +
        +

        problem_data should contain:

        +
        +
          +

        • gamma: (float) Ratio of specific heat capacities

          • +

        • gamma1: (float) \(\gamma - 1\)

          • +
        +
        +

        :Version 1.0 (2015-11-18)

        +
        + +
        +
        +clawpack.riemann.euler_1D_py.euler_roe_1D(q_l, q_r, aux_l, aux_r, problem_data)
        +

        Roe Euler solver in 1d

        +
        +
        aug_global should contain -
          +

        • gamma - (float) Ratio of the heat capacities

          • +

        • gamma1 - (float) \(1 - \gamma\)

          • +

        • efix - (bool) Whether to use an entropy fix or not

          • +
        +
        +
        +

        See Riemann Solver Package for more details.

        +
        +
        Version
        +

        1.0 (2009-6-26)

        +
        +
        +
        +

        Shallow Water Equations

        +

        Riemann solvers for the shallow water equations.

        +
        +
        The available solvers are:
          +

        • Roe - Use Roe averages to caluclate the solution to the Riemann problem

          • +

        • HLL - Use a HLL solver

          • +
        • +
          Exact - Use a newton iteration to calculate the exact solution to the

          Riemann problem

          +
          +
          +
          • +
        +
        +
        +
        +\[q_t + f(q)_x = 0\]
        +

        where

        +
        +\[\begin{split}q(x,t) = \left [ \begin{array}{c} h \\ h u \end{array} \right ],\end{split}\]
        +

        the flux function is

        +
        +\[\begin{split}f(q) = \left [ \begin{array}{c} h u \\ hu^2 + 1/2 g h^2 \end{array}\right ].\end{split}\]
        +

        and \(h\) is the water column height, \(u\) the velocity and \(g\) +is the gravitational acceleration.

        +
        +
        +clawpack.riemann.shallow_1D_py.shallow_exact_1D(q_l, q_r, aux_l, aux_r, problem_data)
        +

        Exact shallow water Riemann solver

        +
        +

        Warning

        +

        This solver has not been implemented.

        +
        +
        + +
        +
        +clawpack.riemann.shallow_1D_py.shallow_fwave_1d(q_l, q_r, aux_l, aux_r, problem_data)
        +

        Shallow water Riemann solver using fwaves

        +

        Also includes support for bathymetry but be wary if you think you might have +dry states as this has not been tested.

        +
        +
        problem_data should contain:
          +

        • grav - (float) Gravitational constant

          • +

        • dry_tolerance - (float) Set velocities to zero if h is below this +tolerance.

          • +

        • sea_level - (float) Datum from which the dry-state is calculated.

          • +
        +
        +
        +
        +
        Version
        +

        1.0 (2014-09-05)

        +
        +
        Version
        +

        2.0 (2017-03-07)

        +
        +
        +
        + +
        +
        +clawpack.riemann.shallow_1D_py.shallow_hll_1D(q_l, q_r, aux_l, aux_r, problem_data)
        +

        HLL shallow water solver

        +
        W_1 = Q_hat - Q_l    s_1 = min(u_l-c_l,u_l+c_l,lambda_roe_1,lambda_roe_2)
+W_2 = Q_r - Q_hat    s_2 = max(u_r-c_r,u_r+c_r,lambda_roe_1,lambda_roe_2)
+
+Q_hat = ( f(q_r) - f(q_l) - s_2 * q_r + s_1 * q_l ) / (s_1 - s_2)
+
        +
        +
        +
        problem_data should contain:
          +

        • g - (float) Gravitational constant

          • +
        +
        +
        +
        +
        Version
        +

        1.0 (2009-02-05)

        +
        +
        +
        + +
        +
        +clawpack.riemann.shallow_1D_py.shallow_roe_1D(q_l, q_r, aux_l, aux_r, problem_data)
        +

        Roe shallow water solver in 1d:

        +
        ubar = (sqrt(u_l) + sqrt(u_r)) / (sqrt(h_l) + sqrt(h_r))
+cbar = sqrt( 0.5 * g * (h_l + h_r))
+
+W_1 = |      1      |  s_1 = ubar - cbar
+      | ubar - cbar |
+
+W_2 = |      1      |  s_1 = ubar + cbar
+      | ubar + cbar |
+
+a1 = 0.5 * ( - delta_hu + (ubar + cbar) * delta_h ) / cbar
+a2 = 0.5 * (   delta_hu - (ubar - cbar) * delta_h ) / cbar
+
        +
        +
        +
        problem_data should contain:
          +

        • g - (float) Gravitational constant

          • +

        • efix - (bool) Boolean as to whether a entropy fix should be used, if +not present, false is assumed

          • +
        +
        +
        +
        +
        Version
        +

        1.0 (2009-02-05)

        +
        +
        +
        +
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20,121,122,127,137,141,145,146,149,153,157],USE:[61,81],Use:[30,51,91,99,121,129,136,138,140,149,151],Used:129,Useful:[1,3,129,136],Uses:[30,129,151],Using:[0,1,2,3,7,17,22,41,42,51,53,56,75,76,77,79,80,89,90,91,123,136,143,144,148,151,152,157],WCS:153,Will:98,With:[6,22,28,44,49,51,66,73,105,110,118,128,130,136],__________________o:151,__file__:106,__future__:119,__init__:[55,96,106],__main__:[138,140],__name__:[138,140],_build1:54,_build:54,_compute_c_cent:89,_compute_c_nod:89,_compute_p_cent:89,_compute_p_nod:89,_fillvalu:92,_googleearth:51,_outdir:93,_output2:[77,79],_output:[5,13,14,32,35,36,44,50,60,67,77,79,88,93,95,98,118,125,152],_output_from_previous_run:44,_output_new:111,_output_old:111,_plot:[13,35,36,44,67,79,135,141],_plotindex:[1,44],_plots_new:111,_plots_old:111,_ptwise:128,_pyclaw_io:86,_static:54,_storm_modul:146,_subpackag:106,_surge_modul:108,_templat:[54,55],_theme:54,a351:[17,91],a377:[17,91],aabbggrr:59,abdullah:[4,81],abil:[41,117,119,123,145,151],abl:[13,54,106],abort:62,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],aboutu:30,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],abs:[30,52,96,104,110,130,151],absolut:[93,110,111,121,137,138],absolute_import:119,abspath:[5,38],abstol:104,academ:[102,105],acceler:52,accept:[44,83,93,99,136],accept_reject_step:99,access:[0,17,27,29,56,58,88,89,91,99,101,104],accid:28,accident:[28,77],accompani:[18,21],accomplish:[29,39,62],accord:[6,53],accordingli:[51,149],account:[13,24,28,55,85,94],accumul:[44,119,127],accur:[5,18,48,70,91,99,136,154,157],accuraci:[44,64,73,138,140],achiev:[20,84,143,144],acou:77,acoust:[16,29,35,36,48,82,83,86,88,91,99,100,117,128,138,154],acoustics1dheterogeneoustest:[36,147],acoustics3dheterogeneoustest:[36,147],acoustics_1d:[83,103],acoustics_1d_adjoint:5,acoustics_1d_example1:[35,36,69],acoustics_1d_heterogen:[36,147,154],acoustics_1d_homogen:[88,111],acoustics_2d:99,acoustics_2d_adjoint:5,acoustics_2d_radi:[138,154],acoustics_3d_heterogen:[36,147],acoustics_3d_vari:111,acquaint:103,acquir:77,across:[5,110,119,149,151],acsza1:30,acszb1:30,act:[87,151],acta:17,actanum2011:17,action:[13,14,84],activ:[24,32,34,38,54,99,108,139],actual:[6,27,30,32,53,58,59,67,70,77,87,92,104,108,131,139],adapt:[4,7,17,30,39,52,53,66,67,73,83,110,121,124,128,130,135,136,154],add:[0,11,12,13,16,17,27,28,30,44,47,51,54,55,58,63,66,67,68,70,76,83,88,89,93,94,96,104,114,117,119,120,121,124,129,140,145,149,151,155],add_colorbar:[30,151],add_colormap:[39,66,118,124],add_dimens:89,add_gaug:[89,93],add_label:44,add_param:[138,140],add_parent_doc:104,add_titl:77,add_true_solut:77,added:[3,12,16,20,22,24,28,34,47,53,55,58,59,60,64,67,77,89,93,106,108,110,113,114,116,117,118,119,120,121,122,123,124,125,127,132,136,137,139,145,148,151,155],addgaug:44,adding:[22,27,28,29,32,41,44,54,59,70,94,107,118,120],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],addition:[94,145],address:[51,54,119],adequ:48,adjac:[6,16,32,45,110,132,136],adjoint:[7,17,25,52,110,121,122],adjoint_flag:110,adjoint_modul:122,adjoint_outdir:5,adjointdata:[5,122,123],adjointsup_modul:122,adjust:[5,13,20,32,33,45,59,89,93,131,136,154],adjust_fgmax_1d:33,admiralti:130,adopt:[30,99],adv:17,advanc:[6,17,52,66,71,103,118,136,154],advantag:[12,76,92,105,111,130],advect:[17,77,91,94,128,129,140,154],advection2dannulustest:[36,147],advection_1d_example1:63,advection_2d_annulu:[36,147],advection_2d_flagregion:38,advection_2d_inflow:117,advection_2d_swirl:154,advection_3d_swirl:[117,148],advis:[34,61,81],affect:[18,22,62,119,120,136,149,152],afosr:4,after:[0,1,3,5,6,12,13,19,23,27,28,29,32,33,35,36,39,44,48,54,55,57,59,60,62,63,66,67,68,72,77,84,85,86,88,93,99,101,106,110,111,113,117,118,129,132,136,137,138,140,145,154],afterax:[0,27,44,51,77],afterfram:[1,27,76],aftergrid:67,afteritem:[3,27],afterpatch:[3,27],again:[22,40,62,66,70,77,79,83,84,93,97,102,106,121,149,152],against:[104,111,118,147],agenc:[4,58,145,146],agency_pref:145,agre:[12,28,39,53,128,148,151,154],agreement:48,ahmadia:[4,17,81,91],aht:131,aid:84,aim:28,aks2203:4,albada:87,alg:138,alghamdi:[4,17,81,91],algorithm:[4,7,25,32,38,39,45,52,83,89,91,92,99,103,110,121,128,130,136,138,140,151],align:[32,39,51,59,66,124,139],all:[0,1,4,6,11,12,13,16,18,20,22,23,25,27,28,29,30,32,33,35,36,39,40,41,44,45,48,50,51,53,54,55,56,57,59,60,61,62,63,67,69,70,71,72,73,76,77,79,80,81,83,86,87,89,92,93,94,96,97,98,99,101,104,105,106,109,110,111,113,114,117,118,119,121,124,126,127,128,129,130,132,135,136,138,139,140,141,146,147,148,149,151,152,154],alloc:[20,99,117],allocat:117,allot:59,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],almost:105,alon:[16,51],along:[6,14,16,24,27,30,32,39,44,51,54,68,70,106,110,117,127,130,132,139,145,153],alpha:[51,55,99],alphabet:81,alreadi:[0,1,6,12,13,18,28,29,41,55,56,57,58,59,60,66,79,80,94,98,100,103,105,114,122,151],also:[3,4,5,6,7,8,9,11,12,16,17,18,20,22,23,24,25,28,29,30,32,33,35,36,37,38,39,41,42,44,47,48,51,52,53,54,55,56,57,58,59,62,63,66,67,68,70,71,72,73,76,77,79,83,85,86,89,91,92,93,94,96,98,99,100,101,102,103,104,105,106,107,108,109,110,111,113,118,119,120,121,122,123,124,125,126,127,128,129,130,131,132,134,136,138,139,140,141,143,144,145,146,147,148,149,151,152,153,154,156,157],alter:51,altern:[30,35,36,44,47,51,57,60,62,67,76,91,94,105,106,110,117,118,119],although:[30,51,63,67,95,96,98,110,122,151],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],amal:[4,17,81,91],amazon:25,amazonaw:13,amdq:[97,128],ami:25,among:124,amount:[44,48,54],amplitud:[5,119],amr:[4,7,8,16,20,23,25,27,28,32,34,38,44,45,52,59,67,72,73,76,81,89,118,120,121,122,124,132,135,136,138,140,148,154],amr_1d:122,amr_2d:[121,122],amr_:[3,7],amr_celledges_show:3,amr_contour_color:3,amr_contour_show:3,amr_data_show:118,amr_level:72,amr_level_max:138,amr_levels_max:[32,110,137,138],amr_modul:[71,110,117,123,124],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],amrdata:[5,22,32,110,124,137,138,139],amrflag:110,amrlib:117,amrnez:110,an11:54,anaconda:[51,80,91,100,105],anal:17,analog:[136,137],analysi:17,andi:4,angl:[16,30,47,70],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],anim:[12,16,42,51,117,124,125,141],animation_tool:[124,125],anisotrop:[6,22],anl:94,annot:[27,59],annual:24,anoth:[3,22,39,44,51,55,57,58,59,72,76,80,88,99,102,111,121,145,154],answer:24,anyth:[3,6,28,29,56,58,63,111,121],anywher:110,aoml:145,apach:13,apdq:[97,128],api:[47,121],app:[12,13,18,23,26,28,29,32,37,42,70,108,109,116,120,121,122,123,124,125,129],appar:[30,32,71],appeal:51,appear:[0,1,3,5,8,13,18,23,32,44,45,51,54,57,59,62,65,77,93,98,101,119,139,141,149],append:[5,20,32,38,39,44,51,60,77,86,98,110,118,119,127,128,138],appl:17,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],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],appreci:81,approach:[5,7,13,28,29,38,44,54,56,69,76,84,94,96,104,110,117,119,120,122,128,129,135,139,154,157],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],approv:48,approxim:[6,16,25,33,48,51,70,128],april:[24,124,125,126],apt:[13,105],arbitrari:[32,59,99,113,130,139],arbitrarili:66,arc:131,arcgi:151,architectur:94,archiv:[12,21,36,51,55,111,141,147,151,153],arcminut:[70,149],arcsecond:[45,149],area:[15,22,45,99,108,119,132,133],arg:[89,98],argument:[0,1,2,3,27,30,45,47,50,51,53,77,83,84,88,89,92,96,98,99,101,104,111,121,128,130,135,136,137,145,151,154],argv:[138,140],aris:[61,81],arithmet:64,aron:[4,17,81,91],arora:87,arora_ro:87,around:[6,30,32,39,59,92,108,111,124,137,138,145,151,154],arrai:[0,3,6,15,20,22,27,30,32,33,38,44,45,47,49,53,59,77,83,84,86,87,89,91,92,93,96,97,98,99,101,103,104,105,113,114,115,119,121,124,128,129,130,133,136,137,138,139,140,145,149,151,154],arrang:151,arriv:[22,32,34,39,45,119,131,132],arrival_tol:32,articl:[4,17,91,141],artifici:[16,132],arxiv:52,asc:151,ascii:[44,53,67,83,86,93,98,119,127,136,138,140,149,155],ascii_output_format:68,ask:24,ask_us:151,aspect:[12,24,29,48,49,67,151],assembl:57,assert:[138,140],assess:[4,48,131],assign:[30,32,83,86,92,98],assist:[22,124],associ:[0,1,2,6,22,51,58,71,89,92,93,111],assum:[3,5,20,22,30,32,36,39,47,48,51,53,54,55,59,67,70,76,92,93,95,96,103,104,110,117,130,131,136,139,145,146,149,151,153,157],assumpt:[51,54],asteroid:4,astronom:131,atcf:[108,121,145,146],aterrel:4,atmospher:4,attach:[55,92,101],attempt:[5,8,11,20,33,35,36,62,92,98,104,111,113,145,151,152],attirbut:22,attr:[89,98],attribur:5,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],attributeerror:77,aug:[17,122],augment:[66,129],august:[24,121,126],austin:4,author:[17,25,45,48,87,91,92,109],auto:[0,44,84],autom:[14,54,84,111],automat:[0,2,3,8,11,16,30,35,36,41,51,55,62,76,77,79,83,88,92,94,100,101,102,104,111,113,124,136,137,139,149],autonom:5,aux1:32,aux1d:154,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],aux_bc_low:96,aux_bc_upp:96,aux_l:[97,128],aux_out_field:44,aux_r:[97,1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,48,50,51,58,59,60,61,63,66,67,69,70,71,75,76,77,78,79,80,81,82,83,85,86,88,89,90,91,92,93,94,95,96,98,101,102,103,104,105,106,109,111,112,113,114,115,116,117,118,119,127,128,130,134,136,137,138,141,142,145,147,149,151,152,154,155,157],clawpack_gpu:52,clawpack_src:[56,58,106],clawplotax:[1,2,3,27,77,121,135],clawplotdata:[2,3,27,44,51,77,79,86,135],clawplotfigur:[0,1,51,77,135],clawplotitem:[0,1,7,22,27,76,78,118,121,135],clawrundata:[5,44,59,122,127,136,137,138,140],clawsolut:1,clawsolv:[99,128],clawsolver1d:[83,86,89,99,103,128],clawsolver2d:[89,99],clawutil:[5,11,14,19,20,23,28,40,41,50,55,57,62,106,111,134,136,137,138,140,151,152],clean:[22,54,55,104,117,121],cleaner:[28,119],cleanup:120,clear:[1,2,6,67,79],clearer:123,clearfigur:1,clearfram:[1,79],cleargaug:44,clearli:[44,48,51,130],clf:2,clf_each_fram:2,click:[4,12,13,18,28,51,54,111,120,126],clifford:24,clint:17,clobber:[92,118],clockwis:[32,47,70,151],clone:[12,18,23,24,42,52,54,55,56,58,80,94,100,109,152],close:[13,39,51,54,59,66,67,92,110,124,137,145],close_fig:59,closer:[70,138],closest:145,cloud:13,cluster:[6,17,57,110,137,138],clustering_cutoff:[110,137,138],cma:145,cmap:[39,51,59,66,77,130,151],cmap_dri:[39,66],cmap_land:66,cmap_sea:66,cmap_sea_dri:66,cmap_slip:30,cmap_topo:66,cmax:[51,59],cmax_dz:30,cmax_slip:30,cmdline:106,cmin:[51,59],cmin_slip:30,cmmi:4,cname:54,coars:[3,18,32,51,110,119,136,149,154],coarsen:[53,110,121,122,137,149,151],coarsen_method:53,coarser:[3,16,53,119,132,136,137,154],coarsest:[6,51,72,113,127,136],coast:[39,66,110,132,151],coastal:[48,124,131,132,139,149],coastlin:[32,51,66,124,130,139,153],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],code_of_conduct:121,coeffici:[5,64,96,99,101,102,103,128,139],colella:[6,17],collabor:[51,141],collect:[12,25,26,28,30,32,70,76,83,99,141],collela:120,color:[3,30,39,51,59,66,67,76,130,135,145,151],colorado:24,colorbar:[3,39,59,66,121,124,130,151],colorbar_kwarg:121,colorbar_labels:30,colorbar_shrink:30,colorbar_ticks:30,colormap:[3,30,39,46,51,66,67,76,78,118,124,151],column:[10,30,32,44,48,60,93,117,130,151],column_list:30,column_map:30,com:[12,13,23,24,26,28,29,52,54,55,56,57,58,92,94,96,100,116,118,119,120,126,129],combin:[20,54,59,118,153],combinatori:111,come:[3,28,77,79,88,94,99,117,149,154],comfort:[58,96],comm_world:104,command:[0,1,2,3,11,13,14,28,40,50,51,52,55,56,57,58,62,69,76,77,80,83,84,86,91,94,95,99,103,104,105,106,111,128,134,135,136,137,149,151],commenc:127,comment:[5,11,24,49,55,120,127],commit:[25,30,50,54,55,111],common:[3,23,28,35,36,40,41,62,63,73,76,83,97,99,101,102,119,121,124,152,154],common_sourc:63,commonli:[3,67,77,79],commun:[25,51,81,101,104,106,110,121],comot:4,compact:[66,149],compactli:130,compar:[5,22,36,44,48,51,55,77,93,110,111,131,137,139,147,153,157],compare_gaug:117,comparison:52,compat:[28,30,47,51,59,70,76,92,94,102,105,114,115,119,120,151],compens:151,compil:[13,25,35,36,40,46,56,58,63,71,73,79,80,84,91,92,96,100,104,113,128,129,134],compile_librari:104,complet:[20,22,28,47,62,79,83,84,94,104,105,111],complevel:92,complex:[12,38,89],compliant:41,complic:[16,77,84,130,135],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],compos:[30,83],comprehens:111,compress:[30,92,151],compris:[22,91,151],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],computation:[84,99],compute_f:[86,93],compute_gauge_valu:93,compute_p:[83,86],concentr:108,concept:[25,128],concern:[22,45],conclus:[4,51],conda:[51,56,80,91],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],conduct:121,conf:[54,55],confer:24,config:94,config_fc:152,configur:[77,83,94,151],confirm:48,conflict:[6,28,58,62,67,102,106],conform:[22,28,33,98,121,149],confus:[3,53,58,106,128],conjunct:[24,39,66,92,110],conlict:62,connect:[32,54,59,66,124,130],consequenti:[61,81],conserv:[4,5,6,17,93,99,101,122,129,154,157],consid:[6,39,48,57,58,66,84,106,134,141,151],consider:[48,83],consist:[6,25,32,47,51,55,59,94,105,119,128,130,139,149,154],consol:[13,93,139],consolid:117,constant:[30,32,48,59,64,94,128,129,130,132,139,151,154],constant_storm_modul:117,constrain:110,constraint:[39,44,130,137,157],construc:59,construct:[22,30,32,53,83,89,104,145,146,149],construct_function_handl:104,constructor:101,consult:102,contact:[12,88,91,100],contain:[1,3,5,12,13,20,23,25,26,30,32,33,35,36,37,40,42,44,45,47,49,50,51,52,53,54,55,57,59,60,62,63,66,67,68,72,73,77,79,80,83,84,86,87,89,92,94,96,97,98,99,101,103,104,106,110,111,113,114,121,122,126,128,130,135,136,139,141,145,149,151,152,154],containing_rect:30,contains:29,containt:127,contamin:136,contan:51,content:[4,6,23,51,55,73,84,139,149,154,155],context:[27,51,154],contigu:[72,92,101,130],continent:[7,66],contingu:22,continu:[13,22,28,30,49,54,81,105,128,136,157],contour:[3,30,44,51,53,67,105,135,151],contour_color:3,contour_kwarg:[3,151],contour_level:[3,151],contour_max:3,contour_min:3,contour_nlevel:3,contour_show:3,contourf:[51,76],contract:[4,61,81],contrast:[53,130],contribut:[4,24,25,57,81,84,91,96,99,108,111],contributor:[4,24,61,91],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],conveni:[1,27,32,35,36,39,44,51,79,86,88,91,93,95,103,154,157],convens:149,convent:[3,22,30,46,53,70,97,149],converg:[66,76],convers:[19,25,84,92,110,130,149,153],convert43to46:19,convert46to50:20,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],convert_fort_double_to_float:104,convert_readm:11,convert_to_standard_unit:30,convex:[7,32],coodin:30,coord:[47,51],coordin:[4,23,30,32,47,72,76,83,89,93,94,103,110,130,139,151],coordinate_specif:[30,70],coordinate_system:[15,60,133,139],coorind:151,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],copyq1:63,copyright:[61,81],core:[4,12,73,111,121],corioli:[48,139,143,144],coriolis_forc:[48,139],corner:[3,30,32,53,70,72,89,130,136,138,140,149,151],correct:[20,28,41,54,55,63,64,67,77,83,89,94,98,104,113,114,118,132,136,138,139,140],correctli:[28,32,84,90,117,139],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],correspondingli:32,cos:[39,47,49,66,83,96],cosin:83,cost:[13,99],costli:129,could:[5,12,13,18,27,32,35,36,39,44,53,58,60,66,70,71,77,79,83,89,93,101,102,105,106,117,130,132,137,138,139,140,151,154],council:4,count:83,count_from_zero:83,counter:[104,151],counterclockwis:70,coupl:[119,157],courant:[4,6,110,120,136,137,138,140],cours:[13,26,32,44,46,60,70,94,95,103,105,108,139,149],cover:[6,7,27,28,30,32,38,39,51,59,66,70,110,114,119,132,138,139,149],coverag:[91,111],covert:11,covid:24,cparam:[83,101],cpp:52,cpu:[13,52,118,121,123,148],crash:[118,136],creat:[0,1,2,3,5,6,7,19,24,25,28,30,32,33,35,36,38,40,42,44,45,46,50,52,54,57,58,59,62,70,72,76,77,79,84,85,88,89,91,92,95,98,101,102,103,104,110,111,113,117,118,119,121,122,123,130,135,136,137,138,141,142,145,151,153,154,155],create_dtopo_xi:[30,70],create_dtopographi:[30,70],create_topo_func:151,creation:[39,77,91,113],criteria:[6,7,22,25,32,66,101],criterion:[32,110,138],critic:[51,93,128],crop:[53,151],cross:28,crucial:[51,149],csdm:24,cse:24,csh:94,csv:[30,70,121],csvfault:[30,70],ctrl:[29,77],cube:67,cultu:66,cumul:121,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],current_data:[0,3,25,44,76,77],curv:[3,44,76,130],custom:[0,13,16,20,22,25,63,67,73,76,84,90,96,132],custom_bc:96,customari:93,cut:137,cutoff:[6,138],cvf:55,cvs:51,cxx:94,cyber:17,cygwin:86,cython:94,dai:[6,13,51,139],dalcin:81,dam:[51,132],dam_break:129,damag:[6,61,81],damian:57,damiansra:96,dark:130,darker:51,darryl:17,dart:45,dash:[3,94],daspect:67,dat:[30,145],data:[0,1,3,5,25,27,30,32,35,36,38,39,40,42,44,45,46,47,53,54,59,60,61,62,66,67,76,77,78,79,81,83,86,89,92,93,95,97,98,99,101,104,107,108,109,110,113,115,116,118,119,121,122,123,124,128,130,131,138,140,145,148,150,155],data_break:[39,66,151],data_fil:33,data_limit:[39,66],data_storm:145,data_typ:104,databas:[13,30,70,104,108,121,149],datadir:118,dataset:[149,151,153],date:[5,28,40,47,51,54,55,62,77,145,152],date_tim:47,datetiem:145,datetim:[47,145],datum:[47,48,131,139,153],dave:30,davi:[4,17],david:[4,17,81,91,99],davis2018:[5,17],davisleveque2016:[5,17],davisleveque2018:[5,17],dawson:17,daylight:59,dcp:59,deal:[30,48,76,93,94,101,145,151],dealt:[32,39],debian:105,debug:[7,41,62,72,76,93,101,106,111,136,138],debugg:77,decid:[83,99],decim:[47,59],decimc:145,decis:51,declar:[20,22,101,154],decompos:[72,128,157],decomposit:136,decor:104,decoupl:54,decreas:[44,132,149],deduc:149,deep:[5,66,139],deep_depth:139,deeper:[130,139,149],deepli:103,def:[0,1,3,44,51,66,77,83,89,93,96,99,138,140,145],default_tfluct:99,defenc:4,defens:4,defin:[0,1,3,5,6,7,22,27,30,32,38,39,41,51,59,60,62,66,67,70,77,79,83,86,89,95,96,98,99,101,103,104,110,113,121,128,138,140,145,149,151,152,154,157],definit:[30,67,83,110,116],deform:[17,30,33,45,70,153],deg2dm:59,degener:130,degre:[30,47,51,59,70],delet:[20,28,56,58],delimit:30,delin:139,delta:[87,89,96,99,128,151,154,157],delta_i:151,delta_limit:151,delta_x:151,dem:[32,45,53,59,121,149,151,153],demo:94,demonstr:[12,25,88,94],denot:[6,22,44,53,128,151],dens:146,densiti:[86,93,101,103,137,138,154],depart:[4,145],depdend:87,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],deprec:[7,30,34,54,117,121,139,149,151],depress:32,depth:[4,5,16,17,22,30,32,33,39,44,45,48,64,70,76,78,129,131,132,139,149],deriv:[61,70,81,86,90,91,101,111],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],descript:[3,4,6,9,22,23,25,30,59,67,70,73,76,92,104,108,110,128,129,139,145,149,157],design:[4,27,28,51,81,83,103,130,153],desir:[0,1,2,3,6,7,16,22,25,26,30,32,33,39,42,44,55,56,58,59,60,66,70,75,76,77,79,83,84,86,93,98,99,107,119,121,124,132,134,136,138,140,145,149,151,152],desktop:94,destin:51,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],detect:[51,62,92,100,104,152],deterimin:[139,151],determin:[3,5,6,30,32,39,44,45,48,50,51,54,59,70,77,87,89,92,101,106,110,114,118,119,127,130,131,135,136,137,139,151,154],determine_topo_typ:151,dev:[18,24,28,54,55,94,121,122,126],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],dict:[30,86,92,97,98,101,145,151],dictionari:[0,1,2,3,30,44,60,77,83,86,92,97,98,101,103,106,145,149,151],dicuss:30,did:[121,130,149],didn:116,died:113,diff:[18,50,55,113,114,115,116,117,118,119,120,121,122,123,124,125],differ:[1,3,6,7,12,15,16,18,22,28,30,31,35,36,39,44,46,48,50,53,56,59,62,64,66,67,70,71,76,79,83,84,86,88,89,92,97,99,104,105,106,107,110,111,117,118,119,120,121,124,128,131,132,133,136,137,138,139,143,144,149,151,152,153,154,157],differenti:[17,30],difficult:44,difficulti:[100,102,106],diffus:96,digit:[32,39,53,59,60,77,119,120,121,151],dike:[39,66,124],dim:[96,97,99],dimens:[5,6,7,16,20,22,25,44,47,53,59,67,83,84,86,92,94,96,97,98,101,103,110,121,124,128,136,137,138,140,151,154],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],dimensional_split:[89,117,136,138,140],dip:[30,70],dir:[55,94,155],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],directli:[8,19,23,32,48,56,67,70,77,79,83,84,87,91,101,104,106,121,151,155],directori:[1,3,5,6,11,12,13,14,15,16,19,20,22,23,25,28,29,31,32,35,36,37,40,42,44,45,47,50,51,54,55,56,57,59,63,67,68,71,75,76,79,86,88,89,91,92,93,96,103,106,107,108,110,111,113,118,119,120,121,123,127,128,132,133,134,135,136,137,141,143,144,147,148,149,152,154,155],directorti:108,disabl:[49,100,139],disable_petsc:104,discard:[32,99],disclaim:[61,81],discontinu:[4,99,157],discov:64,discoveri:111,discret:99,discrib:4,discuss:[5,24,28,30,48,53,56,66,70,92,103,105,106,110,119,121,128,139,157],disk:[13,44,83,92,93,111,119],dispers:48,displac:[30,45,48,70,132,139,153],displai:[1,13,35,36,40,44,51,59,77,93,111,139],display_format:[44,60],display_landfall_tim:139,dist:55,dist_latlong2met:47,dist_meters2latlong:47,distanc:[30,47,51,70,139,149,151],distant:[108,110],distinct:[44,119],distinguish:39,distribut:[4,12,13,29,30,54,61,70,73,80,81,99,105,124],disturb:51,distutil:84,dive:105,divid:[110,136],divis:[4,51],dlgeorg:4,dms2decim:47,dnetcdf:[41,149],doc:[18,23,24,28,30,51,55,87,104,105,106,120,121,122,123,124,125,142],docker:[18,25,55,56,120,121,122,123,124,125,156],docker_disk:29,docker_imag:55,dockerfile_v5:29,dockerhub:[29,55],dockeril:29,docstr:[84,88,111],doctest:89,documen:54,document:[0,1,2,3,6,7,18,21,22,23,24,25,28,29,32,45,48,53,58,61,70,76,77,78,79,81,87,89,92,93,94,95,99,101,104,106,114,126,135,138,155,156],dodsc:[39,66],doe:[4,5,11,16,20,27,28,39,40,48,51,53,54,56,67,73,77,80,89,91,98,101,104,110,111,114,119,123,127,128,129,132,145,151,152,154],doesn:[28,32,58,63,101],doflag:110,doi:[4,17,52,55,57,124,125,126],doing:[6,11,19,25,28,33,39,44,48,50,52,54,58,63,77,79,89,91,110,111,118,119,120,121],domain:[5,6,16,17,33,38,39,48,51,54,59,70,72,82,83,84,86,94,96,98,101,108,110,137,138,140,149],don:[13,27,28,54,55,77,93,94,100,111,138,152],done:[1,6,7,8,11,13,16,19,20,28,35,36,39,44,46,51,53,54,58,59,62,66,67,70,76,77,79,83,87,88,104,110,114,118,119,123,127,128,130,135,137,139,148,151,152,153],donna:[4,17],donnabois:4,donor:[136,138,140],dontflag:110,dot:[40,44,51,57,58,59,62,152],doubl:[67,84,89,104,128,137],down:[13,30,93,118,145,149,151],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],downward:70,doxygen:[6,7,25,120],dpc:59,dpi:[51,59],dpng:67,dprint:[137,138],dq_src:[96,99],dqdt:99,draft:55,drag:139,drag_law:139,draw:3,drawback:106,drawcontourlin:67,drawn:[30,51,135],driver:[20,63],drop:[13,54,124,132,136],dry:[16,17,25,32,45,124,129,132],dry_point:39,dry_points_sum:39,ds824:145,dst:59,dt_check:32,dt_initi:[113,136,138,139,140],dt_max:[136,138,140],dt_max_dtopo:[113,139],dt_variabl:[136,138,140],dtdtopo:116,dtdx1d:115,dtdx:87,dtdy1d:115,dtfe:99,dtopo2kml:59,dtopo:[25,30,33,45,48,53,59,70,106,113,115,116,124,132,139,149,151,153],dtopo_data:[113,139],dtopo_file_nam:59,dtopo_modul:113,dtopo_path:3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m:30,xinsheng:[4,52],xinshengqin:[4,52],xleft:[137,138],xlf:100,xlimit:[0,44,51,124],xllcenter:[53,121,149],xllcorner:[53,149],xllower:121,xlow:72,xlower:[0,3,16,22,27,39,84,121,138,140,149,151,154],xlowerg:84,xmax:0,xmin:0,xpoint:139,xrang:96,xtick:[39,49],xupper:[0,22,138,140,151],xxdiff:111,xxx:149,xxxx:67,xy_fil:32,xy_fnam:33,xylim:30,xzf:57,y_c:130,y_cell:59,y_center:130,y_edg:[59,130],y_inch:59,year:[4,17,22,51,59,91,112,122,145],yellow:[59,77,145],yellow_red_blu:77,yes:67,yet:[1,13,20,25,48,52,54,57,59,76,99,119,120,121,122,123,124,125,126,128,136,138,156],yianni:[4,17,81],yield:3,yleft:[137,138],ylimit:[0,44,51,124,135],yllcenter:[53,121,149],yllcorner:[53,149],yllower:121,ylow:72,ylower:[3,22,27,39,84,121,138,149,151],ylowerg:84,ymax:0,ymin:0,yml:111,yong:17,you:[0,3,4,5,12,13,14,15,16,18,19,20,22,23,24,25,26,27,28,29,32,35,36,37,38,40,41,42,44,47,50,51,52,53,54,55,56,57,58,59,62,63,66,67,68,69,70,71,72,73,75,76,77,79,80,81,83,84,85,86,88,91,92,93,94,95,96,99,100,101,102,103,105,106,107,108,109,111,113,118,119,120,121,124,126,127,128,129,130,131,132,133,134,135,138,139,140,141,142,143,144,145,147,149,152,153,154,156],your:[4,6,15,16,19,20,24,25,26,35,37,41,44,53,54,55,56,57,58,68,71,76,77,79,81,82,83,84,85,88,90,91,93,102,103,105,106,107,108,110,111,113,121,128,133,134,143,144,149,152,154],yourself:[41,44,57],youtub:[24,108,124],ypoint:139,yupper:[22,138,151],z_allow_wet:39,z_dry:39,z_format:[39,66,151],zdry:[39,66],zenodo:[4,57,124,125,126],zero:[3,16,18,30,32,39,41,59,67,83,96,101,103,130,131],zip:[12,51,55],zipinfo:51,zlib:92,zlim:59,zlower:22,zmask:66,zmax:[39,66],zmin:[39,66],znearshor:66,zone:[48,51,59,137,138],zoom:[24,51],zsh:94,zshallow:66,ztopo:66,zupper:22,zvar:151},titles:["ClawPlotAxes","ClawPlotData","ClawPlotFigure","ClawPlotItem","About this software","Guiding AMR with adjoint flagging","Adaptive mesh refinement (AMR) algorithms","AMRClaw Description and Detailed Contents","AMRClaw for 1d problems","Doxygen documentation of AMRClaw","AMRClaw Flowcharts","Application documentation","Clawpack Applications repository","Amazon Web Services EC2 Clawpack AMI","b4run function","b4step default routines","Boundary conditions","Bibliography","Changes to master since v5.7.1","Converting from Clawpack 4.3 to 4.6","Converting from Clawpack 4.6 to 5.0","Clawpack 4.x links","Changes in Clawpack 5.0","Clawpack components","Clawpack Community","Full Table of Contents","Contributing examples and applications","current_data","Developers\u2019 Guide","Docker for Clawpack","dtopotools module for moving topography","Fortran 77 vs. Fortran 90 files","Fixed grid monitoring","fgmax_tools module for working with topography data","Fixed grid output","Running an example","Testing your Fortran installation and running an example","Testing a PyClaw installation and running an example","Specifying flagregions for adaptive refinement","Force Cells to be Dry Initially","Fortran version","Fortran Compilers","Examples from the book FVMHP","<no title>","Gauges","GeoClaw Description and Detailed Contents","Getting started with GeoClaw","geoclaw.util module of utility functions","Cautionary Hints on using GeoClaw","GeoClaw plotting tools","Keeping track of repository versions with Git","Visualizing GeoClaw results in Google Earth","Using the GPU version of Clawpack","Grid registration","Guide for updating this documentation","Guide for doing a Clawpack release","Installing Clawpack","Additional options for installing Clawpack","pip install instructions","kmltools module of utility functions","Lagrangian gauges for particle tracking","License","Clawpack Makefiles","Library routines in Makefiles","Manning friction term","The mapc2p function","Marching Front algorithm","Plotting using Matlab","Using NetCDF output","Creating a new application directory","Earthquake sources: Fault slip and the Okada model","Using OpenMP","Output data formats","Which Clawpack solver should I use?","Clawpack Community Photos","Plotting examples","Plotting with Visclaw","Plotting hints and FAQ","Plotting routines for GeoClaw","Plotting options in Python","Installation Prerequisites","About PyClaw","PyClaw Basics","Understanding Pyclaw Classes","Porting a problem from Clawpack 4.6.x to PyClaw","Running PyClaw in the cloud","Pyclaw Controller Class","Pyclaw Limiters","Working with PyClaw\u2019s built-in examples","PyClaw Geometry","Going Further","Pyclaw","Pyclaw Input/Output Package","PyClaw output","Running in parallel","Plotting PyClaw results","Setting up your own problem","Riemann Solver Package","PyClaw Solutions","Using PyClaw\u2019s solvers: Classic and SharpClaw","Installing PyClaw","PyClaw State","Troubleshooting","PyClaw tutorial: Solve the acoustics equations","Pyclaw Utility Module","Python Hints","Python path","qinit default routines","Quick start guide for storm surge modeling","Quick start guide for tsunami modeling","AMR refinement criteria","Regression testing","v5.0.0 release notes","v5.1.0 release notes","v5.2.0 release notes","v5.2.1 release notes","v5.2.2 release notes","v5.3.0 release notes","v5.3.1 release notes","v5.4.0 release notes","v5.4.1 release notes","v5.5.0 release notes","v5.6.0 release notes","v5.6.1 release notes","v5.7.0 release notes","v5.7.1 release notes","Releases of Clawpack and release notes","Checkpointing and restarting","Riemann solvers","Shallow water Riemann solvers in Clawpack","Ruled Rectangles","Setting sealevel","Set Eta Init \u2013 spatially varying initial surface elevation","setaux default routines","Set environment variables","Using setplot.py to specify the desired plots","Specifying classic run-time parameters in setrun.py","Specifying AMRClaw run-time parameters in setrun.py","Sample setrun.py module for AMRClaw","Specifying GeoClaw parameters in setrun.py","Sample setrun.py module for classic Clawpack","Saving and sharing results","Compiling the Sphinx documentation locally","src1d default routines","src default routines","Storm Specification Class and Tools","Sources for Storm Surge Data","Testing your installation","Timing Statistics","Topography data","Python tools for working with topo and dtopo","topotools module for working with topography data","Troubleshooting","Some sources of tsunami data","User files required for the Fortran code","Plotting with VisIt","Clawpack Virtual Machine","Wave-propagation 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,119,120,121,122,127,137,141,145,146,149,153,157],USE:[61,81],Use:[30,51,91,97,99,121,129,136,138,140,149,151],Used:129,Useful:[1,3,129,136],Uses:[30,129,151],Using:[0,1,2,3,7,17,22,41,42,51,53,56,75,76,77,79,80,89,90,91,123,136,143,144,148,151,152,157],WCS:153,Will:98,With:[6,22,28,44,49,51,66,73,105,110,118,128,130,136],__________________o:151,__file__:106,__future__:119,__init__:[55,96,106],__main__:[138,140],__name__:[138,140],_build1:54,_build:54,_compute_c_cent:89,_compute_c_nod:89,_compute_p_cent:89,_compute_p_nod:89,_fillvalu:92,_googleearth:51,_outdir:93,_output2:[77,79],_output:[5,13,14,32,35,36,44,50,60,67,77,79,88,93,95,98,118,125,152],_output_from_previous_run:44,_output_new:111,_output_old:111,_plot:[13,35,36,44,67,79,135,141],_plotindex:[1,44],_plots_new:111,_plots_old:111,_ptwise:128,_pyclaw_io:86,_static:54,_storm_modul:146,_subpackag:106,_surge_modul:108,_templat:[54,55],_theme:54,a351:[17,91],a377:[17,91],aabbggrr:59,abdullah:[4,81],abil:[41,117,119,123,145,151],abl:[13,54,106],abort:62,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],aboutu:30,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],abs:[30,52,96,104,110,130,151],absolut:[93,110,111,121,137,138],absolute_import:119,abspath:[5,38],abstol:104,academ:[102,105],acceler:[52,97],accept:[44,83,93,99,136],accept_reject_step:99,access:[0,17,27,29,56,58,88,89,91,99,101,104],accid:28,accident:[28,77],accompani:[18,21],accomplish:[29,39,62],accord:[6,53],accordingli:[51,149],account:[13,24,28,55,85,94],accumul:[44,119,127],accur:[5,18,48,70,91,99,136,154,157],accuraci:[44,64,73,138,140],achiev:[20,84,143,144],acou:77,acoust:[16,29,35,36,48,82,83,86,88,91,99,100,117,128,138,154],acoustics1dheterogeneoustest:[36,147],acoustics3dheterogeneoustest:[36,147],acoustics_1d:[83,97,103],acoustics_1d_adjoint:5,acoustics_1d_example1:[35,36,69],acoustics_1d_heterogen:[36,147,154],acoustics_1d_homogen:[88,111],acoustics_1d_pi:97,acoustics_2d:99,acoustics_2d_adjoint:5,acoustics_2d_radi:[138,154],acoustics_3d_heterogen:[36,147],acoustics_3d_vari:111,acquaint:103,acquir:77,across:[5,110,119,149,151],acsza1:30,acszb1:30,act:[87,151],acta:17,actanum2011:17,action:[13,14,84],activ:[24,32,34,38,54,99,108,139],actual:[6,27,30,32,53,58,59,67,70,77,87,92,104,108,131,139],adapt:[4,7,17,30,39,52,53,66,67,73,83,110,121,124,128,130,135,136,154],add:[0,11,12,13,16,17,27,28,30,44,47,51,54,55,58,63,66,67,68,70,76,83,88,89,93,94,96,104,114,117,119,120,121,124,129,140,145,149,151,155],add_colorbar:[30,151],add_colormap:[39,66,118,124],add_dimens:89,add_gaug:[89,93],add_label:44,add_param:[138,140],add_parent_doc:104,add_titl:77,add_true_solut:77,added:[3,12,16,20,22,24,28,34,47,53,55,58,59,60,64,67,77,89,93,106,108,110,113,114,116,117,118,119,120,121,122,123,124,125,127,132,136,137,139,145,148,151,155],addgaug:44,adding:[22,27,28,29,32,41,44,54,59,70,94,107,118,120],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],addition:[94,145],address:[51,54,119],adequ:48,adjac:[6,16,32,45,110,132,136],adjoint:[7,17,25,52,110,121,122],adjoint_flag:110,adjoint_modul:122,adjoint_outdir:5,adjointdata:[5,122,123],adjointsup_modul:122,adjust:[5,13,20,32,33,45,59,89,93,131,136,154],adjust_fgmax_1d:33,admiralti:130,adopt:[30,99],adv:17,advanc:[6,17,52,66,71,103,118,136,154],advantag:[12,76,92,105,111,130],advect:[17,77,91,94,128,129,140,154],advection2dannulustest:[36,147],advection_1d:97,advection_1d_example1:63,advection_1d_pi:97,advection_2d_annulu:[36,147],advection_2d_flagregion:38,advection_2d_inflow:117,advection_2d_swirl:154,advection_3d_swirl:[117,148],advis:[34,61,81],affect:[18,22,62,119,120,136,149,152],afosr:4,after:[0,1,3,5,6,12,13,19,23,27,28,29,32,33,35,36,39,44,48,54,55,57,59,60,62,63,66,67,68,72,77,84,85,86,88,93,99,101,106,110,111,113,117,118,129,132,136,137,138,140,145,154],afterax:[0,27,44,51,77],afterfram:[1,27,76],aftergrid:67,afteritem:[3,27],afterpatch:[3,27],again:[22,40,62,66,70,77,79,83,84,93,97,102,106,121,149,152],against:[104,111,118,147],agenc:[4,58,145,146],agency_pref:145,agre:[12,28,39,53,128,148,151,154],agreement:48,ahmadia:[4,17,81,91],aht:131,aid:84,aim:28,aks2203:4,albada:87,alg:138,alghamdi:[4,17,81,91],algorithm:[4,7,25,32,38,39,45,52,83,89,91,92,99,103,110,121,128,130,136,138,140,151],align:[32,39,51,59,66,124,139],all:[0,1,4,6,11,12,13,16,18,20,22,23,25,27,28,29,30,32,33,35,36,39,40,41,44,45,48,50,51,53,54,55,56,57,59,60,61,62,63,67,69,70,71,72,73,76,77,79,80,81,83,86,87,89,92,93,94,96,97,98,99,101,104,105,106,109,110,111,113,114,117,118,119,121,124,126,127,128,129,130,132,135,136,138,139,140,141,146,147,148,149,151,152,154],alloc:[20,99,117],allocat:117,allot:59,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],almost:105,alon:[16,51],along:[6,14,16,24,27,30,32,39,44,51,54,68,70,106,110,117,127,130,132,139,145,153],alpha:[51,55,99],alphabet:81,alreadi:[0,1,6,12,13,18,28,29,41,55,56,57,58,59,60,66,79,80,94,98,100,103,105,114,122,151],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],alter:51,altern:[30,35,36,44,47,51,57,60,62,67,76,91,94,105,106,110,117,118,119],although:[30,51,63,67,95,96,98,110,122,151],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],amal:[4,17,81,91],amazon:25,amazonaw:13,amdq:[97,128],ami:25,among:124,amount:[44,48,54],amplitud:[5,119],amr:[4,7,8,16,20,23,25,27,28,32,34,38,44,45,52,59,67,72,73,76,81,89,118,120,121,122,124,132,135,136,138,140,148,154],amr_1d:122,amr_2d:[121,122],amr_:[3,7],amr_celledges_show:3,amr_contour_color:3,amr_contour_show:3,amr_data_show:118,amr_level:72,amr_level_max:138,amr_levels_max:[32,110,137,138],amr_modul:[71,110,117,123,124],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],amrdata:[5,22,32,110,124,137,138,139],amrflag:110,amrlib:117,amrnez:110,an11:54,anaconda:[51,80,91,100,105],anal:17,analog:[136,137],analysi:17,andi:4,angl:[16,30,47,70],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],anim:[12,16,42,51,117,124,125,141],animation_tool:[124,125],anisotrop:[6,22],anl:94,annot:[27,59],annual:24,anoth:[3,22,39,44,51,55,57,58,59,72,76,80,88,99,102,111,121,145,154],answer:24,anyth:[3,6,28,29,56,58,63,111,121],anywher:110,aoml:145,apach:13,apdq:[97,128],api:[47,121],app:[12,13,18,23,26,28,29,32,37,42,70,108,109,116,120,121,122,123,124,125,129],appar:[30,32,71],appeal:51,appear:[0,1,3,5,8,13,18,23,32,44,45,51,54,57,59,62,65,77,93,98,101,119,139,141,149],append:[5,20,32,38,39,44,51,60,77,86,98,110,118,119,127,128,138],appl:17,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],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],appreci:81,approach:[5,7,13,28,29,38,44,54,56,69,76,84,94,96,104,110,117,119,120,122,128,129,135,139,154,157],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],approv:48,approxim:[6,16,25,33,48,51,70,128],april:[24,124,125,126],apt:[13,105],arbitrari:[32,59,99,113,130,139],arbitrarili:66,arc:131,arcgi:151,architectur:94,archiv:[12,21,36,51,55,111,141,147,151,153],arcminut:[70,149],arcsecond:[45,149],area:[15,22,45,99,108,119,132,133],arg:[89,98],argument:[0,1,2,3,27,30,45,47,50,51,53,77,83,84,88,89,92,96,98,99,101,104,111,121,128,130,135,136,137,145,151,154],argv:[138,140],aris:[61,81],arithmet:64,aron:[4,17,81,91],arora:87,arora_ro:87,around:[6,30,32,39,59,92,108,111,124,137,138,145,151,154],arrai:[0,3,6,15,20,22,27,30,32,33,38,44,45,47,49,53,59,77,83,84,86,87,89,91,92,93,96,97,98,99,101,103,104,105,113,114,115,119,121,124,128,129,130,133,136,137,138,139,140,145,149,151,154],arrang:151,arriv:[22,32,34,39,45,119,131,132],arrival_tol:32,articl:[4,17,91,141],artifici:[16,132],arxiv:52,asc:151,ascii:[44,53,67,83,86,93,98,119,127,136,138,140,149,155],ascii_output_format:68,ask:24,ask_us:151,aspect:[12,24,29,48,49,67,151],assembl:57,assert:[138,140],assess:[4,48,131],assign:[30,32,83,86,92,98],assist:[22,124],associ:[0,1,2,6,22,51,58,71,89,92,93,111],assum:[3,5,20,22,30,32,36,39,47,48,51,53,54,55,59,67,70,76,92,93,95,96,97,103,104,110,117,130,131,136,139,145,146,149,151,153,157],assumpt:[51,54],asteroid:4,astronom:131,atcf:[108,121,145,146],aterrel:4,atmospher:4,attach:[55,92,101],attempt:[5,8,11,20,33,35,36,62,92,98,104,111,113,145,151,152],attirbut:22,attr:[89,98],attribur:5,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],attributeerror:77,aug:[17,122],aug_glob:97,augment:[66,129],august:[24,121,126],austin:4,author:[17,25,45,48,87,91,92,97,109],auto:[0,44,84],autom:[14,54,84,111],automat:[0,2,3,8,11,16,30,35,36,41,51,55,62,76,77,79,83,88,92,94,100,101,102,104,111,113,124,136,137,139,149],autonom:5,aux1:32,aux1d:154,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,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,87,89,92,94,96,97,98,99,101,103,104,106,110,111,113,114,121,122,126,128,130,135,136,139,141,145,149,151,152,154],containing_rect:30,contains:29,containt:127,contamin:136,contan:51,content:[4,6,23,51,55,73,84,139,149,154,155],context:[27,51,154],contigu:[72,92,101,130],continent:[7,66],contingu:22,continu:[13,22,28,30,49,54,81,105,128,136,157],contour:[3,30,44,51,53,67,105,135,151],contour_color:3,contour_kwarg:[3,151],contour_level:[3,151],contour_max:3,contour_min:3,contour_nlevel:3,contour_show:3,contourf:[51,76],contract:[4,61,81],contrast:[53,130],contribut:[4,24,25,57,81,84,91,96,99,108,111],contributor:[4,24,61,91],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],conveni:[1,27,32,35,36,39,44,51,79,86,88,91,93,95,103,154,157],convens:149,convent:[3,22,30,46,53,70,97,149],converg:[66,76],convers:[19,25,84,92,110,130,149,153],convert43to46:19,convert46to50:20,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],convert_fort_double_to_float:104,convert_readm:11,convert_to_standard_unit:30,convex:[7,32],coodin:30,coord:[47,51],coordin:[4,23,30,32,47,72,76,83,89,93,94,103,110,130,139,151],coordinate_specif:[30,70],coordinate_system:[15,60,133,139],coorind:151,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],copyq1:63,copyright:[61,81],core:[4,12,73,111,121],corioli:[48,139,143,144],coriolis_forc:[48,139],corner:[3,30,32,53,70,72,89,130,136,138,140,149,151],correct:[20,28,41,54,55,63,64,67,77,83,89,94,98,104,113,114,118,132,136,138,139,140],correctli:[28,32,84,90,117,139],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],correspondingli:32,cos:[39,47,49,66,83,96],cosin:83,cost:[13,99],costli:129,could:[5,12,13,18,27,32,35,36,39,44,53,58,60,66,70,71,77,79,83,89,93,101,102,105,106,117,130,132,137,138,139,140,151,154],council:4,count:83,count_from_zero:83,counter:[104,151],counterclockwis:70,coupl:[119,157],courant:[4,6,110,120,136,137,138,140],cours:[13,26,32,44,46,60,70,94,95,103,105,108,139,149],cover:[6,7,27,28,30,32,38,39,51,59,66,70,110,114,119,132,138,139,149],coverag:[91,111],covert:11,covid:24,cparam:[83,101],cpp:52,cpu:[13,52,118,121,123,148],crash:[118,136],creat:[0,1,2,3,5,6,7,19,24,25,28,30,32,33,35,36,38,40,42,44,45,46,50,52,54,57,58,59,62,70,72,76,77,79,84,85,88,89,91,92,95,98,101,102,103,104,110,111,113,117,118,119,121,122,123,130,135,136,137,138,141,142,145,151,153,154,155],create_dtopo_xi:[30,70],create_dtopographi:[30,70],create_topo_func:151,creation:[39,77,91,113],criteria:[6,7,22,25,32,66,101],criterion:[32,110,138],critic:[51,93,128],crop:[53,151],cross:28,crucial:[51,149],csdm:24,cse:24,csh:94,csv:[30,70,121],csvfault:[30,70],ctrl:[29,77],cube:67,cultu:66,cumul:121,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],current_data:[0,3,25,44,76,77],curv:[3,44,76,130],custom:[0,13,16,20,22,25,63,67,73,76,84,90,96,132],custom_bc:96,customari:93,cut:137,cutoff:[6,138],cvf:55,cvs:51,cxx:94,cyber:17,cygwin:86,cython:94,dai:[6,13,51,139],dalcin:81,dam:[51,132],dam_break:129,damag:[6,61,81],damian:57,damiansra:96,dark:130,darker:51,darryl:17,dart:45,dash:[3,94],daspect:67,dat:[30,145],data:[0,1,3,5,25,27,30,32,35,36,38,39,40,42,44,45,46,47,53,54,59,60,61,62,66,67,76,77,78,79,81,83,86,89,92,93,95,97,98,99,101,104,107,108,109,110,113,115,116,118,119,121,122,123,124,128,130,131,138,140,145,148,150,155],data_break:[39,66,151],data_fil:33,data_limit:[39,66],data_storm:145,data_typ:104,databas:[13,30,70,104,108,121,149],datadir:118,dataset:[149,151,153],date:[5,28,40,47,51,54,55,62,77,145,152],date_tim:47,datetiem:145,datetim:[47,145],datum:[47,48,97,131,139,153],dave:30,davi:[4,17],david:[4,17,81,91,99],davis2018:[5,17],davisleveque2016:[5,17],davisleveque2018:[5,17],dawson:17,daylight:59,dcp:59,deal:[30,48,76,93,94,101,145,151],dealt:[32,39],debian:105,debug:[7,41,62,72,76,93,101,106,111,136,138],debugg:77,decid:[83,99],decim:[47,59],decimc:145,decis:51,declar:[20,22,101,154],decompos:[72,128,157],decomposit:136,decor:104,decoupl:54,decreas:[44,132,149],deduc:149,deep:[5,66,139],deep_depth:139,deeper:[130,139,149],deepli:103,def:[0,1,3,44,51,66,77,83,89,93,96,99,138,140,145],default_tfluct:99,defenc:4,defens:4,defin:[0,1,3,5,6,7,22,27,30,32,38,39,41,51,59,60,62,66,67,70,77,79,83,86,89,95,96,98,99,101,103,104,110,113,121,128,138,140,145,149,151,152,154,157],definit:[30,67,83,110,116],deform:[17,30,33,45,70,153],deg2dm:59,degener:130,degre:[30,47,51,59,70],delet:[20,28,56,58],delimit:30,delin:139,delta:[87,89,96,99,128,151,154,157],delta_h:97,delta_hu:97,delta_i:151,delta_limit:151,delta_x:151,dem:[32,45,53,59,121,149,151,153],demo:94,demonstr:[12,25,88,94],denot:[6,22,44,53,128,151],dens:146,densiti:[86,93,97,101,103,137,138,154],depart:[4,145],depdend:87,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],deprec:[7,30,34,54,117,121,139,149,151],depress:32,depth:[4,5,16,17,22,30,32,33,39,44,45,48,64,70,76,78,129,131,132,139,149],deriv:[61,70,81,86,90,91,101,111],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],descript:[3,4,6,9,22,23,25,30,59,67,70,73,76,92,104,108,110,128,129,139,145,149,157],design:[4,27,28,51,81,83,103,130,153],desir:[0,1,2,3,6,7,16,22,25,26,30,32,33,39,42,44,55,56,58,59,60,66,70,75,76,77,79,83,84,86,93,98,99,107,119,121,124,132,134,136,138,140,145,149,151,152],desktop:94,destin:51,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],detect:[51,62,92,100,104,152],deterimin:[139,151],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],determine_topo_typ:151,dev:[18,24,28,54,55,94,121,122,126],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],dict:[30,86,92,97,98,101,145,151],dictionari:[0,1,2,3,30,44,60,77,83,86,92,97,98,101,103,106,145,149,151],dicuss:30,did:[121,130,149],didn:116,died:113,diff:[18,50,55,113,114,115,116,117,118,119,120,121,122,123,124,125],differ:[1,3,6,7,12,15,16,18,22,28,30,31,35,36,39,44,46,48,50,53,56,59,62,64,66,67,70,71,76,79,83,84,86,88,89,92,97,99,104,105,106,107,110,111,117,118,119,120,121,124,128,131,132,133,136,137,138,139,143,144,149,151,152,153,154,157],differenti:[17,30],difficult:44,difficulti:[100,102,106],diffus:96,digit:[32,39,53,59,60,77,119,120,121,151],dike:[39,66,124],dim:[96,97,99],dimens:[5,6,7,16,20,22,25,44,47,53,59,67,83,84,86,92,94,96,97,98,101,103,110,121,124,128,136,137,138,140,151,154],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],dimensional_split:[89,117,136,138,140],dip:[30,70],dir:[55,94,155],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],directli:[8,19,23,32,48,56,67,70,77,79,83,84,87,91,101,104,106,121,151,155],directori:[1,3,5,6,11,12,13,14,15,16,19,20,22,23,25,28,29,31,32,35,36,37,40,42,44,45,47,50,51,54,55,56,57,59,63,67,68,71,75,76,79,86,88,89,91,92,93,96,103,106,107,108,110,111,113,118,119,120,121,123,127,128,132,133,134,135,136,137,141,143,144,147,148,149,152,154,155],directorti:108,disabl:[49,100,139],disable_petsc:104,discard:[32,99],disclaim:[61,81],discontinu:[4,99,157],discov:64,discoveri:111,discret:99,discrib:4,discuss:[5,24,28,30,48,53,56,66,70,92,103,105,106,110,119,121,128,139,157],disk:[13,44,83,92,93,111,119],dispers:48,displac:[30,45,48,70,132,139,153],displai:[1,13,35,36,40,44,51,59,77,93,111,139],display_format:[44,60],display_landfall_tim:139,dist:55,dist_latlong2met:47,dist_meters2latlong:47,distanc:[30,47,51,70,139,149,151],distant:[108,110],distinct:[44,119],distinguish:39,distribut:[4,12,13,29,30,54,61,70,73,80,81,99,105,124],disturb:51,distutil:84,dive:105,divid:[110,136],divis:[4,51],dlgeorg:4,dms2decim:47,dnetcdf:[41,149],doc:[18,23,24,28,30,51,55,87,104,105,106,120,121,122,123,124,125,142],docker:[18,25,55,56,120,121,122,123,124,125,156],docker_disk:29,docker_imag:55,dockerfile_v5:29,dockerhub:[29,55],dockeril:29,docstr:[84,88,111],doctest:89,documen:54,document:[0,1,2,3,6,7,18,21,22,23,24,25,28,29,32,45,48,53,58,61,70,76,77,78,79,81,87,89,92,93,94,95,99,101,104,106,114,126,135,138,155,156],dodsc:[39,66],doe:[4,5,11,16,20,27,28,39,40,48,51,53,54,56,67,73,77,80,89,91,98,101,104,110,111,114,119,123,127,128,129,132,145,151,152,154],doesn:[28,32,58,63,101],doflag:110,doi:[4,17,52,55,57,124,125,126],doing:[6,11,19,25,28,33,39,44,48,50,52,54,58,63,77,79,89,91,110,111,118,119,120,121],domain:[5,6,16,17,33,38,39,48,51,54,59,70,72,82,83,84,86,94,96,98,101,108,110,137,138,140,149],don:[13,27,28,54,55,77,93,94,100,111,138,152],done:[1,6,7,8,11,13,16,19,20,28,35,36,39,44,46,51,53,54,58,59,62,66,67,70,76,77,79,83,87,88,104,110,114,118,119,123,127,128,130,135,137,139,148,151,152,153],donna:[4,17],donnabois:4,donor:[136,138,140],dontflag:110,dot:[40,44,51,57,58,59,62,152],doubl:[67,84,89,104,128,137],down:[13,30,93,118,145,149,151],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],downward:70,doxygen:[6,7,25,120],dpc:59,dpi:[51,59],dpng:67,dprint:[137,138],dq_src:[96,99],dqdt:99,draft:55,drag:139,drag_law:139,draw:3,drawback:106,drawcontourlin:67,drawn:[30,51,135],driver:[20,63],drop:[13,54,124,132,136],dry:[16,17,25,32,45,97,124,129,132],dry_point:39,dry_points_sum:39,dry_toler:97,ds824:145,dst:59,dt_check:32,dt_initi:[113,136,138,139,140],dt_max:[136,138,140],dt_max_dtopo:[113,139],dt_variabl:[136,138,140],dtdtopo:116,dtdx1d:115,dtdx:87,dtdy1d:115,dtfe:99,dtopo2kml:59,dtopo:[25,30,33,45,48,53,59,70,106,113,115,116,124,132,139,149,151,153],dtopo_data:[113,139],dtopo_file_nam:59,dtopo_modul:113,dtopo_path:33,dtopo_typ:[30,33,59,70],dtopofil:[59,70,139],dtopographi:[30,70],dtopotool:[45,70,115,116,118,121,122,149,150],dtopotools_exampl:[30,70,109],dtopotyp:[139,149],due:[17,24,30,39,47,70,111,120,121,132,152],dummi:[84,99,154],dump:[72,136],dumpgaug:117,duplic:[77,116,127],durat:[30,131],dure:[5,22,32,39,44,59,70,73,113,131,132,138,139,140,149],dxc:84,dyc:84,dylib:51,dynam:[6,20,30,48,70,73],dynamic_slip:[30,122],dz_at_t:30,dz_interv:30,dz_max:30,e10:32,e15:44,e26:44,e68:[4,17],e_format_bst:145,e_l:97,e_r:97,each:[1,2,3,5,6,7,12,16,18,22,30,32,34,44,47,51,53,54,55,59,60,63,66,67,70,71,72,75,76,77,79,83,84,87,89,92,93,94,96,97,98,99,101,103,110,111,113,114,118,119,121,122,124,127,128,129,130,132,135,136,137,138,139,140,145,148,149,151,153,157],each_fram:44,each_gaug:44,ear:4,earli:[6,20,132],earlier:[5,20,22,30,32,38,53,70,83,96,113,120,149,151],earth:[25,39,45,52,59,66,70,117,119,130,139],earth_radiu:139,earthquak:[25,30,45,48,109,132,139,146,149],eas:59,easi:[4,6,11,29,38,58,67,80,84,93,94,95,130,141,154],easier:[58,76,119,121,130,154],easiest:[19,28,41,73,77,79,105,110,154],easili:[3,13,28,32,51,54,67,77,84,89,100,104,105,111,124,141,145],east:[13,149],easy_instal:94,ec2:25,echo:106,ecosystem:[4,17],edebug:[137,138],edg:[3,6,15,16,27,30,32,33,38,59,70,89,97,128,130,133,137,138,140,154],edgecolor:130,edit:[51,54,55,56,58,79],editabl:28,editor:72,edu:[30,51,68,92,123],effect:[44,51,64,67,89,93,105,110,111,131,139,151],effici:[48,52,81,91,92,93,101,110,130],effort:92,efix:[97,129],egg:[56,58],eigenvalu:5,eigenvector:[5,128,157],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],elast:[13,70],element:[0,3,22,59,97,99,101,136,137,138,139],elementwis:93,elev:[22,25,32,39,45,46,48,51,53,59,76,107,110,124,130,131,139,149,151,153],elif:[138,140],elimin:[8,22,66,84,106,121,139],ell:128,els:[27,28,56,58,66,101,121,130,132,140],elsewher:[5,24,39,130],emerg:4,emmanuel:139,emmett:[17,81,91],empir:[48,64],empti:[12,44,98,101,104,106,136,145,151],empyclaw:96,enabl:[89,93,100,104,119],encapsul:48,encount:[40,51,77,100,102],encourag:67,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],end_dat:47,enddo:154,endian:92,endors:[61,81],energi:[93,97],enforc:[130,139],eng:145,engin:[17,51],enhanc:[64,81,121],enlarg:119,enough:[5,54,66,146,148,149],ensembl:145,ensur:[35,36,67,108],enter:[67,92,94,100],enthought:[100,102,105],entir:[5,6,38,48,51,59,66,70,71,73,83,93,98,108,110,114,130,151],entireti:86,entri:[51,60,83,93,104,145],entropi:[97,129],enumer:[89,99],environ:[14,25,28,35,36,40,50,51,54,56,57,58,67,69,71,73,95,102,104,106,119,151,152],envis:16,epd:102,eprint:[137,138],epsg:51,epsilon:87,eqn:157,eqnarrai:103,equal:[16,30,32,33,51,70,94,96,110,127,130,136,138,140,149,151],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],equiv:157,equival:[6,44,52,53,59,60,123,149],err:138,errest:110,erron:[30,70],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],escap:[110,138],escienc:13,especi:[28,51,84,96],esri:[53,149],essenti:[5,53,67,99,139,149],est:138,establis:121,establish:4,estim:[5,64,110,137,139],estimat:[5,138],eta:[25,30,32,39,44,45,110,117,124,131],eta_init:132,eta_tild:32,etc:[0,2,16,19,20,24,27,28,32,33,48,51,54,57,59,63,72,76,84,128,135,136,139,145,154],etopo1:[121,130,131,149,151,153],etopo_sample_2min:151,etopotool:[121,149],euler:[60,91,99,115,117,120,122,128,154],euler_1d_pi:97,euler_2d:[35,37,91,96],euler_exact_1d:97,euler_hll_1d:97,euler_hllc_1d:97,euler_roe_1d:97,evalu:[17,27,30,64,83,89,99,151,154],even:[39,48,51,58,61,70,81,104,110,124,137,138,149,152,154],evenli:[51,93],event:[33,45,48,59,61,70,81,131,132,136],event_tim:59,eventu:[13,45,124],ever:[135,139],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],everyth:[32,55,56,57,58,71,94,103,104,111,121],everywher:[38,39,47,64,101,132],evolv:[22,83,86,99],evolve_to_tim:[83,99],exact:97,exactli:[28,33,50,52,101,130,136],exam:77,examin:[16,35,36,44,66,106],exampl:[0,1,2,3,4,5,6,7,8,9,13,14,16,20,22,24,27,28,29,30,38,40,41,45,47,53,54,55,56,57,59,60,62,63,64,68,70,71,72,76,77,79,81,82,83,84,86,89,90,92,93,96,97,98,99,100,103,104,106,108,109,110,111,113,115,116,117,118,119,120,121,122,123,124,125,127,128,129,131,132,134,135,136,137,138,139,140,141,145,147,148,149,151,152,153,154],exce:[32,51,110,137],exceed:[110,121],except:[22,27,30,39,92,97,104,124,136,139,145,149],excerpt:94,exclud:63,exclude_modul:63,exclude_sourc:63,exe:[35,36,86],exec:[0,1,3,77],execut:[0,1,3,14,16,19,27,32,35,36,44,59,67,77,79,86,88,94,106,111,128,134,152],exemplari:[61,81],exercis:[29,45,109,111],exist:[1,21,30,31,34,35,36,51,58,62,66,67,77,89,93,96,98,101,104,105,114,120,121,132,145,151,153],exit:[29,77,94,100],exp:[83,93,103],expand:[26,39,51,59],expect:[32,97,103,104,105,111,121,122,124,138,139,140,145],expens:[99,110,114,119],experi:[24,48,99],experiment:[5,81],expert:48,explain:[13,32,48,66,136,141],explan:28,explicit:[104,137],explicitli:[32,63,67,136,152,157],explor:[4,59,77,79],expon:64,expos:13,express:[4,30,61,81,100,130],extend:[8,16,22,39,59,66,67,89,121,130,132,139,149,151,157],extens:[4,17,22,24,28,30,48,51,54,58,63,67,84,91,92,104,119,120,136,147,151,157],extent:[38,39,48,58,59,64,66,67,83,89,101,113,130,139,149,151],extra:[3,51,129],extra_fil:54,extract:[51,55,92,145,151,153],extran:117,extrap:[16,96,103,136,138],extrapol:[5,7,16,22,96,103,121,136,137,138,140],extrem:[51,102],extropl:16,eye:[145,146],eye_loc:145,f2py:[56,58,84,96,104,128],f2py_flag:104,f2s:59,f49620:4,f77:[41,152],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],f95:104,f_file_nam:[86,93],f_path:86,facecolor:[2,77,135],facilit:[44,60,111,117,119,124,141,145],fact:[51,92,101,105,110,132],factor:[6,51,137,139,148,151],faculti:30,fade:77,fail:[28,92,94,104,111,117,145],failur:[111,122,132],fairli:[16,48,119],fall:[131,139],fals:[0,1,2,3,5,30,39,48,49,50,51,59,66,86,89,92,97,98,99,101,104,118,119,124,127,129,136,137,138,139,140,145,151],famili:[89,99,138,140],familiar:80,faq:[13,25,76,105],far:[16,18,38,42,66,76,122,124],farther:66,fashion:127,faster:[123,124,151],fastest:[92,100],fault:[17,25,30,45,109,121,149,153],fault_plan:30,favor:[117,121,151],favorit:76,fbound:41,fc02:4,fcompil:152,fdefault:104,featur:[18,22,25,28,32,39,51,54,67,77,84,110,111,116,118,119,121,126,139,145,149],februari:[24,120],feet:[131,153],fellowship:4,fetch:[13,47],fetch_noaa_tide_data:47,fetch_topo_url:151,few:[6,12,13,22,26,29,36,48,54,66,67,84,99,103,105,110,111,124,131,147,149,154],fewer:[66,110,151],ff0000:[3,59],ff9999:135,ffff00:77,fflag:[28,40,62,68,71,84,104,149],ffpe:41,fg02:4,fg03:4,fg06:4,fg1:32,fg_maxnum_fgrid:32,fg_num_val:32,fgmax0001:32,fgmax0002:32,fgmax2kml:[59,124],fgmax:[33,38,45,59,71,114,116,119,120,124,125,139],fgmax_data:[32,139],fgmax_fil:139,fgmax_grid:[32,33,59,124],fgmax_interp:[18,32],fgmax_interpol:32,fgmax_interpolate0:32,fgmax_modul:32,fgmax_pts_topostyl:66,fgmax_tool:[32,116,124],fgmax_valu:32,fgmaxgrid:[32,33],fgno:[32,33],fgout2kml:59,fgout:59,fgout_grid:59,fid:33,field:[44,59,96,98,101,119,121,145,146],fig:[59,130],fig_kwarg:[30,151],fignam:[1,79],figno:[1,2,44,51,77,79,135],figsiz:[2,39,66,77,130,135],figur:[0,1,2,4,13,30,35,36,39,42,44,53,59,66,67,76,79,98,106,128,130,135,151],file1info:139,file2info:139,file:[1,5,6,7,8,9,11,12,14,15,18,19,20,22,23,25,27,28,30,33,35,36,38,40,41,42,44,45,46,48,50,52,56,58,59,60,62,66,68,70,72,73,76,78,81,84,86,88,89,92,93,94,95,96,98,101,102,104,106,107,108,110,113,114,116,117,118,119,120,121,122,123,124,125,126,129,131,132,133,134,135,136,137,138,140,142,143,144,145,146,148,151,152,153,155],file_format:[44,92,98,145],file_prefix:[92,98],file_prefix_p:86,fileio:72,filenam:[31,51,117,151],fill:[0,3,4,6,16,24,51,66,89,92,101,108,119,132,136,145,148,151,154],fill_between:3,fill_mwr:145,fill_rad_w_other_sourc:145,fill_topo:151,fill_valu:[92,151],fill_var2:3,fill_wher:3,filpatch:[9,18,39,119,123],filter:[92,151],filter_region:151,filval:39,find:[1,3,4,6,12,24,27,28,29,30,47,51,56,58,62,68,70,73,76,81,88,96,101,102,104,105,106,108,121,145,152],fine:[3,18,32,33,39,54,69,73,96,110,119,130,132,136,139,149,154],finer:[3,7,32,51,110,113,114,130,136,137],finest:[3,32,39,44,121,148,151],finish:[13,77,83],finit:[4,17,32,42,53,59,66,67,70,99,124,130,148,149,154],finlin:104,first:[1,3,5,13,14,19,20,22,28,30,32,35,36,38,39,51,54,55,56,57,58,59,62,66,67,77,79,83,84,89,92,93,94,96,99,100,101,103,104,106,108,110,113,117,122,128,129,130,132,136,138,139,145,147,149,151,157],first_test:35,fist:66,fit:[61,81],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],fix_links_top_level:54,fixedgrid:139,flag2refin:[5,7,22,137,138],flag2refine_tol:[5,110,137,138],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],flag_richardson:[5,110,118,137,138],flag_richardson_tol:[5,110,137,138],flagregion:[7,25,66,110,124,130],flagregiondata:[38,124],flask_loc:54,flat:70,flavor:[12,21,57,92],fletcher32:92,flexibl:[22,30,59,84,117,120,128,130],flood:[51,66,132],floor:[30,45,70],flow:[4,16,17,23,32,33,45,46,48,91,108,124,128,136,139,149,154],flowchart:[6,7,25],fluctuat:[97,99,157],fluid:[32,48,60,131],flush:118,flux2:84,flux2_dimsplit:117,flux3_dimsplit:117,flux:[5,17,32,89,97,99,128,136,157],fly:25,fmt:3,fname:[39,59,130,138,139,140],fname_fgmax_mask:66,fname_force_dry_init:39,focu:[4,45],fold:16,folder:51,follow:[0,2,3,4,5,6,13,16,18,19,23,24,28,30,32,35,36,37,39,44,46,51,53,54,55,56,57,58,61,66,67,68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30,136,137,149,151,154],san:57,sanromd:57,santiago:51,satisfi:[32,39,66,99,110,130,157],save:[5,13,25,26,39,50,59,72,86,90,99,118,119,121,127,146,151],savecod:86,savefig:59,scalabl:[17,91],scalar:[27,30,39,93,101,128,132,136,157],scale:[4,30,49,51,67,73,91,92,113,119,121,139],scan:41,scatter:[3,22,67],scenario:[48,131],schedul:24,scheme:[87,97],schlieren:[3,67],schwarzschild:4,sci:17,scienc:[4,17,81],scientif:[4,17,91,94,105],scipi:[13,84,105,145,151],scp:13,scratch:[47,66,103],screen:[13,28,51,59,86,93,94,118,138,140],screenshot:[13,51],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],scriptstyl:130,scroll:13,sdist:55,sea:[30,44,45,46,48,51,70,107,117,124,131,139,149,151,153],sea_cmap:39,sea_cmap_dri:39,sea_level:[32,39,48,59,97,124,132,139,149,151],seab:64,seafloor:[30,48,70,132,153],sealevel:[25,45,139],search:[1,13,14,58,76,91,104,106,119,121,130],sec:30,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],section:[6,13,16,35,36,39,41,46,48,54,55,63,67,76,79,111,127,136,139,151],secur:13,see:[0,1,2,3,4,5,6,7,8,9,12,13,16,17,18,19,20,21,22,23,24,25,28,29,30,32,34,35,36,37,38,39,40,41,42,43,44,45,46,47,48,49,51,52,53,54,55,56,57,58,61,62,63,64,66,67,68,69,70,71,72,75,76,77,78,79,80,81,84,86,88,89,91,92,93,94,95,96,97,98,99,100,101,103,104,105,106,107,108,109,110,111,112,113,114,115,116,117,118,119,120,121,122,123,124,125,126,127,128,129,130,131,134,135,136,137,138,139,141,142,143,144,145,147,148,149,151,152,153,154,155,156,157],seem:[101,106,124,135],seen:[12,22,32,35,36,37,48,71,96,136,141],segement:151,segment:130,segmentedplanefault:[30,70],seism:[17,30],seismic:[30,45,70],select:[7,12,13,15,16,28,32,39,66,93,99,107,110,113,120,124,126,133,136,139,143,144,153],select_by_flood:[39,66],self:[30,33,99,151],semi:99,send:[13,24,96,128],sens:[27,51,60,121,157],sensit:[48,64],sent:[93,101],separ:[1,28,32,51,54,57,59,63,91,99,130,151],seper:104,sept:55,septemb:[18,125,126],sequenc:[20,22,63,66,94,100,103,104,111,113,120,128,154],sequenti:32,seri:145,serial:[94,98,104,148],serv:29,server:[13,29,39,51,54,55,66,121,149,153],servic:[25,61,81],session:[1,35,36,37,95,100],set:[0,1,2,3,5,6,8,13,14,15,16,22,25,27,28,30,32,33,35,36,38,39,40,41,42,44,45,47,48,49,50,51,54,55,56,57,58,59,60,62,63,66,69,70,71,72,73,75,76,83,84,86,88,89,90,91,92,93,94,97,98,99,100,101,102,103,104,106,107,110,111,113,114,117,118,119,121,123,124,127,128,129,130,133,135,136,137,138,139,140,141,145,146,149,151,153,154,157],set_all_st:98,set_aspect:[39,49,66],set_aux_from_auxbc:101,set_corn:30,set_count:104,set_cparam:[83,101],set_dynamic_slip:30,set_eta_init:[124,132],set_num_ghost:101,set_printopt:89,set_q_from_qbc:101,set_subfault:30,set_xyz:[39,151],setaux:[20,22,63,84,113,114,128,136,138,140],setaux_default:54,setenv:94,setgaug:[44,118],setlevel:93,setplot1:67,setplot2:67,setplot3:67,setplot:[0,1,2,3,7,19,20,22,25,42,44,68,75,76,95,96,104,119,152,155],setplot_fil:51,setplot_kml:51,setprob:[39,63,138,140,154],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],setrun_setgeo:139,setup:[37,55,83,84,88,91,94,96,99,100,101,109,134,152],setup_gauge_fil:89,sever:[0,1,2,5,10,12,16,18,20,22,23,24,29,30,35,36,40,44,46,48,51,55,56,58,60,67,70,76,100,110,111,112,113,114,117,118,119,120,122,123,124,130,135,139,147,149,151,154],sftp:13,shaheen:93,shall:[61,81],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],shallow_1d:129,shallow_1d_pi:[97,129],shallow_2d:129,shallow_bathymetry_fwave_1d:129,shallow_bathymetry_fwave_2d:129,shallow_exact_1d:97,shallow_fwave_1d:[97,129],shallow_hll_1d:[97,129],shallow_roe_1d:[97,129],shallow_roe_tracer_1d:129,shallow_roe_with_efix_1d:129,shallow_roe_with_efix_2d:129,shallow_spher:[84,111,129],shallow_sphere_2d:129,shallow_trac:129,shallowest:70,shape:[30,39,47,59,66,84,89,94,101,130,151],shapshot:13,share:[25,26,51,56,58,71,73,89,92,94],sharp:59,sharpclaw:[4,23,25,73,81,88,90,91,96,113,128],sharpclawnd:99,sharpclawsolv:99,sharpclawsolver1d:99,sharpclawsolver2d:99,sharpen:87,sharper:[51,59],sharpli:5,shear:[17,30],shelf:[7,66],shell:[28,56,57,58,71,77,79,94,100,103,105,106,119,134],shg:67,shift:[5,30,48,53],ship:32,shoal:130,shock:[6,17,48,99,110],shock_bubble_interact:[35,37,88,91,100],shockbubbl:96,shoot:[76,91],shore:[39,45,110,124,132,139],shorelin:[39,51,151],shoreline_xi:151,shorter:[3,110,151],shortli:[28,111],shot:13,should:[0,1,2,3,4,5,6,12,13,14,16,18,19,20,22,23,25,27,28,29,30,32,33,35,36,37,38,39,40,41,44,48,51,53,54,55,56,58,59,62,64,66,67,68,69,70,71,76,77,79,84,89,92,93,94,96,97,98,99,100,101,102,103,104,106,107,110,111,113,114,117,119,120,121,124,127,128,129,131,132,134,135,136,137,138,139,140,141,145,147,149,151,152,154,156,157],shouldn:88,show:[0,2,3,9,10,12,14,28,30,35,36,39,44,51,54,55,59,62,66,67,79,89,103,106,111,117,13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81,84,89,99,104,145],wrapper:151,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],write_:92,write_arrai:92,write_atcf:145,write_aux:[92,98],write_aux_alwai:[83,86,93],write_aux_init:[83,86],write_aux_int:93,write_geoclaw:145,write_hurdat:145,write_imd:145,write_jma:145,write_p:[92,98],write_tcvit:145,write_to_fgmax_data:33,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],wrong:[58,63,67,93,106],www:[4,13,17,30,39,43,45,54,60,61,66,68,81,84,89,92,94,120,122,145,151],x1_desir:33,x1_domain:33,x1_new:33,x2_desir:33,x2_new:33,x_1:[5,130],x_2:[5,130],x_c:130,x_cell:59,x_center:130,x_edg:[59,130],x_i:[128,154,157],x_inch:59,x_mask:151,xarr:89,xarrai:151,xarray_d:151,xclaw:[35,36,86],xclawcmd:86,xclawerr:86,xclawout:86,xcode:80,xdir:86,xiaom:30,xinsheng:[4,52],xinshengqin:[4,52],xleft:[137,138],xlf:100,xlimit:[0,44,51,124],xllcenter:[53,121,149],xllcorner:[53,149],xllower:121,xlow:72,xlower:[0,3,16,22,27,39,84,121,138,140,149,151,154],xlowerg:84,xmax:0,xmin:0,xpoint:139,xrang:96,xtick:[39,49],xupper:[0,22,138,140,151],xxdiff:111,xxx:149,xxxx:67,xy_fil:32,xy_fnam:33,xylim:30,xzf:57,y_c:130,y_cell:59,y_center:130,y_edg:[59,130],y_inch:59,year:[4,17,22,51,59,91,112,122,145],yellow:[59,77,145],yellow_red_blu:77,yes:67,yet:[1,13,20,25,48,52,54,57,59,76,99,119,120,121,122,123,124,125,126,128,136,138,156],yianni:[4,17,81],yield:3,yleft:[137,138],ylimit:[0,44,51,124,135],yllcenter:[53,121,149],yllcorner:[53,149],yllower:121,ylow:72,ylower:[3,22,27,39,84,121,138,149,151],ylowerg:84,ymax:0,ymin:0,yml:111,yong:17,you:[0,3,4,5,12,13,14,15,16,18,19,20,22,23,24,25,26,27,28,29,32,35,36,37,38,40,41,42,44,47,50,51,52,53,54,55,56,57,58,59,62,63,66,67,68,69,70,71,72,73,75,76,77,79,80,81,83,84,85,86,88,91,92,93,94,95,96,97,99,100,101,102,103,105,106,107,108,109,111,113,118,119,120,121,124,126,127,128,129,130,131,132,133,134,135,138,139,140,141,142,143,144,145,147,149,152,153,154,156],your:[4,6,15,16,19,20,24,25,26,35,37,41,44,53,54,55,56,57,58,68,71,76,77,79,81,82,83,84,85,88,90,91,93,102,103,105,106,107,108,110,111,113,121,128,133,134,143,144,149,152,154],yourself:[41,44,57],youtub:[24,108,124],ypoint:139,yupper:[22,138,151],z_allow_wet:39,z_dry:39,z_format:[39,66,151],zdry:[39,66],zenodo:[4,57,124,125,126],zero:[3,16,18,30,32,39,41,59,67,83,96,97,101,103,130,131],zip:[12,51,55],zipinfo:51,zlib:92,zlim:59,zlower:22,zmask:66,zmax:[39,66],zmin:[39,66],znearshor:66,zone:[48,51,59,137,138],zoom:[24,51],zsh:94,zshallow:66,ztopo:66,zupper:22,zvar:151},titles:["ClawPlotAxes","ClawPlotData","ClawPlotFigure","ClawPlotItem","About this software","Guiding AMR with adjoint flagging","Adaptive mesh refinement (AMR) algorithms","AMRClaw Description and Detailed Contents","AMRClaw for 1d problems","Doxygen documentation of AMRClaw","AMRClaw Flowcharts","Application documentation","Clawpack Applications repository","Amazon Web Services EC2 Clawpack AMI","b4run function","b4step default routines","Boundary conditions","Bibliography","Changes to master since v5.7.1","Converting from Clawpack 4.3 to 4.6","Converting from Clawpack 4.6 to 5.0","Clawpack 4.x links","Changes in Clawpack 5.0","Clawpack components","Clawpack Community","Full Table of Contents","Contributing examples and applications","current_data","Developers\u2019 Guide","Docker for Clawpack","dtopotools module for moving topography","Fortran 77 vs. Fortran 90 files","Fixed grid monitoring","fgmax_tools module for working with topography data","Fixed grid output","Running an example","Testing your Fortran installation and running an example","Testing a PyClaw installation and running an example","Specifying flagregions for adaptive refinement","Force Cells to be Dry Initially","Fortran version","Fortran Compilers","Examples from the book FVMHP","<no title>","Gauges","GeoClaw Description and Detailed Contents","Getting started with GeoClaw","geoclaw.util module of utility functions","Cautionary Hints on using GeoClaw","GeoClaw plotting tools","Keeping track of repository versions with Git","Visualizing GeoClaw results in Google Earth","Using the GPU version of Clawpack","Grid registration","Guide for updating this documentation","Guide for doing a Clawpack release","Installing Clawpack","Additional options for installing Clawpack","pip install instructions","kmltools module of utility functions","Lagrangian gauges for particle tracking","License","Clawpack Makefiles","Library routines in Makefiles","Manning friction term","The mapc2p function","Marching Front algorithm","Plotting using Matlab","Using NetCDF output","Creating a new application directory","Earthquake sources: Fault slip and the Okada model","Using OpenMP","Output data formats","Which Clawpack solver should I use?","Clawpack Community Photos","Plotting examples","Plotting with Visclaw","Plotting hints and FAQ","Plotting routines for GeoClaw","Plotting options in Python","Installation Prerequisites","About PyClaw","PyClaw Basics","Understanding Pyclaw Classes","Porting a problem from Clawpack 4.6.x to PyClaw","Running PyClaw in the cloud","Pyclaw Controller Class","Pyclaw Limiters","Working with PyClaw\u2019s built-in examples","PyClaw Geometry","Going Further","Pyclaw","Pyclaw Input/Output Package","PyClaw output","Running in parallel","Plotting PyClaw results","Setting up your own problem","Riemann Solver Package","PyClaw Solutions","Using PyClaw\u2019s solvers: Classic and SharpClaw","Installing PyClaw","PyClaw State","Troubleshooting","PyClaw tutorial: Solve the acoustics equations","Pyclaw Utility Module","Python Hints","Python path","qinit default routines","Quick start guide for storm surge modeling","Quick start guide for tsunami modeling","AMR refinement criteria","Regression testing","v5.0.0 release notes","v5.1.0 release notes","v5.2.0 release notes","v5.2.1 release notes","v5.2.2 release notes","v5.3.0 release notes","v5.3.1 release notes","v5.4.0 release notes","v5.4.1 release notes","v5.5.0 release notes","v5.6.0 release notes","v5.6.1 release notes","v5.7.0 release notes","v5.7.1 release notes","Releases of Clawpack and release notes","Checkpointing and restarting","Riemann solvers","Shallow water Riemann solvers in Clawpack","Ruled Rectangles","Setting sealevel","Set Eta Init \u2013 spatially varying initial surface elevation","setaux default routines","Set environment variables","Using setplot.py to specify the desired plots","Specifying classic run-time parameters in setrun.py","Specifying AMRClaw run-time parameters in setrun.py","Sample setrun.py module for AMRClaw","Specifying GeoClaw parameters in setrun.py","Sample setrun.py module for classic Clawpack","Saving and sharing results","Compiling the Sphinx documentation locally","src1d default routines","src default routines","Storm Specification Class and Tools","Sources for Storm Surge Data","Testing your installation","Timing Statistics","Topography data","Python tools for working with topo and dtopo","topotools module for working with topography data","Troubleshooting","Some sources of tsunami data","User files required for the Fortran code","Plotting with VisIt","Clawpack Virtual Machine","Wave-propagation 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index 0694e1295..eeee81dcb 100644 Binary files a/v5.8.x/.doctrees/visit_plotting.doctree and b/v5.8.x/.doctrees/visit_plotting.doctree differ diff --git a/v5.8.x/.doctrees/vm.doctree b/v5.8.x/.doctrees/vm.doctree index 0f2a394b7..aadcc06eb 100644 Binary files a/v5.8.x/.doctrees/vm.doctree and b/v5.8.x/.doctrees/vm.doctree differ diff --git a/v5.8.x/.doctrees/wp_algorithms.doctree b/v5.8.x/.doctrees/wp_algorithms.doctree index 8524ddb90..320569cce 100644 Binary files a/v5.8.x/.doctrees/wp_algorithms.doctree and b/v5.8.x/.doctrees/wp_algorithms.doctree differ diff --git a/v5.8.x/_sources/changes_to_master.rst.txt b/v5.8.x/_sources/changes_to_master.rst.txt index bf12cc293..2d016a31d 100644 --- a/v5.8.x/_sources/changes_to_master.rst.txt +++ b/v5.8.x/_sources/changes_to_master.rst.txt @@ -25,10 +25,31 @@ Changes that are not backward compatible General changes --------------- +- `'binary32`' added as an `output_format` option in both amrclaw and + geoclaw. (So far classic only supports `'ascii'` output.) The old + `'binary'` option now defaults to `'binary64'`, which dumps the raw + binary of the full float64 (kind=8) Fortran variables. The new + `'binary32'` option trucates to float32 (kind=4) before dumping, and + results in binary output files that are only half as large. Since + float32 values have about 8 significant figures, this is generally + sufficient for most plotting and post-processing needs. These files + are also much smaller than the files created with the `'ascii'` + option, which is generally recommended only for debugging if you need to + examine the output files directly. + +- Adding support for `'binary32'` required changes in the pyclaw, clawutil + and visclaw repositories as well. + +- A new `fgout` capability was added to geoclaw (see below and :ref:`fgout`), + which also required additional changes to other repositories. + + Changes to classic ------------------ +- Comments in some sample `setrun.py` files were changed to make it clear + that only `output_format = 'ascii'` is supported so far in classic. See `classic diffs `_ @@ -36,6 +57,7 @@ See `classic diffs Changes to clawutil ------------------- +- Support for `'binary32'` and `fgout` grids added. See `clawutil diffs `_ @@ -43,6 +65,16 @@ See `clawutil diffs Changes to visclaw ------------------ +- Support for `'binary32'` and `fgout` grids added. + +- `pcolor` plots are now rasterized by default, which greatly reduces the + file size in some cases. When e.g. `savefig('filename.svg')` is used + the labels are still vector graphics but the flow field is rasterized. + Passing the option `pcolor_kwargs = {"rasterized":False}` in setplot + turns this off. See ``. + +- The `JSAnimation` subdirectory was removed, since we now use + `anim.to_jshtml` instead. See `visclaw diffs `_ @@ -50,6 +82,7 @@ See `visclaw diffs Changes to riemann ------------------ +- None. See `riemann diffs `_ @@ -57,6 +90,8 @@ See `riemann diffs Changes to amrclaw ------------------ +- Support for `output_format='binary32'` added for both output frames and + gauges. See `amrclaw diffs `_ @@ -64,19 +99,48 @@ See `amrclaw diffs Changes to geoclaw ------------------ +- Support for `output_format='binary32'` added for both output frames and + gauges. + +- New `fgout` grid capabilities added, as described at :ref:`fgout`. + This allows specifying one or more fixed resolution rectangular grids on + which the AMR solution will be interpolated (in both space and time) + at each time in a specified set of times. This does not affect the + time steps used in the computation and allows frequent output on a + fixed portion of the domain for making animations or doing + post-processing, such as particle tracking based on the velocity field. -See `geoclaw diffs `_ +- The new `fgout` capability (together with :ref:`fgmax`) + replaces the very old `fixedgrid` capability, + which has now been further deprecated. + +- `$CLAW/geoclaw/examples/tsunami/chile2010_fgmax` has been replaced by + `$CLAW/geoclaw/examples/tsunami/chile2010_fgmax-fgout`. This example + now also shows how to plot results on fgout grids either by + using a special `setplot` function or by reading them directly. + It also shows how to make an animation from the fgout results. + +See `geoclaw diffs `_ Changes to PyClaw ------------------ +- Support for reading fgout frames added, by passing the parameter + `file_prefix` more consistently (which can be e.g. `fgout` rather than + `fort`, as used for output frames). -For changes in PyClaw, see the `PyClaw changelog -`_. +- Support for reading binary output files with format `'binary32'` or + `'binary64'`. Added for both output frames and gauges. The old `'binary'` + format is equivalent to `'binary64'`. -See `pyclaw diffs -`_ +- Support reading `file_format` from the `fort.t` files, now one of `ascii`, + `binary32`, or `binary64`. See General Changes above for more details. + +See `pyclaw diffs `_ + +For older changes in PyClaw, see also the `PyClaw changelog +`_. =========================== Other Clawpack Repositories diff --git a/v5.8.x/changes_to_master.html b/v5.8.x/changes_to_master.html index f4fd00cbc..e546ce744 100644 --- a/v5.8.x/changes_to_master.html +++ b/v5.8.x/changes_to_master.html @@ -88,35 +88,105 @@

            Changes that are not backward compatible

            General changes

            +
              +

            • ‘binary32’ added as an output_format option in both amrclaw and +geoclaw. (So far classic only supports ‘ascii’ output.) The old +‘binary’ option now defaults to ‘binary64’, which dumps the raw +binary of the full float64 (kind=8) Fortran variables. The new +‘binary32’ option trucates to float32 (kind=4) before dumping, and +results in binary output files that are only half as large. Since +float32 values have about 8 significant figures, this is generally +sufficient for most plotting and post-processing needs. These files +are also much smaller than the files created with the ‘ascii’ +option, which is generally recommended only for debugging if you need to +examine the output files directly.

              • +

            • Adding support for ‘binary32’ required changes in the pyclaw, clawutil +and visclaw repositories as well.

              • +

            • A new fgout capability was added to geoclaw (see below and Fixed grid output), +which also required additional changes to other repositories.

              • +

        Changes to classic

        +
          +

        • Comments in some sample setrun.py files were changed to make it clear +that only output_format = ‘ascii’ is supported so far in classic.

          • +

        See classic diffs

        Changes to clawutil

        +
          +

        • Support for ‘binary32’ and fgout grids added.

          • +

        See clawutil diffs

        Changes to visclaw

        +
          +

        • Support for ‘binary32’ and fgout grids added.

          • +

        • pcolor plots are now rasterized by default, which greatly reduces the +file size in some cases. When e.g. savefig(‘filename.svg’) is used +the labels are still vector graphics but the flow field is rasterized. +Passing the option pcolor_kwargs = {“rasterized”:False} in setplot +turns this off. See <https://github.com/clawpack/visclaw/pull/286>.

          • +

        • The JSAnimation subdirectory was removed, since we now use +anim.to_jshtml instead.

          • +

        See visclaw diffs

        Changes to riemann

        +
          +

        • None.

          • +

        See riemann diffs

        Changes to amrclaw

        +
          +

        • Support for output_format=’binary32’ added for both output frames and +gauges.

          • +

        See amrclaw diffs

        Changes to geoclaw

        -

        See geoclaw diffs

        +
          +

        • Support for output_format=’binary32’ added for both output frames and +gauges.

          • +

        • New fgout grid capabilities added, as described at Fixed grid output. +This allows specifying one or more fixed resolution rectangular grids on +which the AMR solution will be interpolated (in both space and time) +at each time in a specified set of times. This does not affect the +time steps used in the computation and allows frequent output on a +fixed portion of the domain for making animations or doing +post-processing, such as particle tracking based on the velocity field.

          • +

        • The new fgout capability (together with Fixed grid monitoring) +replaces the very old fixedgrid capability, +which has now been further deprecated.

          • +

        • $CLAW/geoclaw/examples/tsunami/chile2010_fgmax has been replaced by +$CLAW/geoclaw/examples/tsunami/chile2010_fgmax-fgout. This example +now also shows how to plot results on fgout grids either by +using a special setplot function or by reading them directly. +It also shows how to make an animation from the fgout results.

          • +
        +

        See geoclaw diffs

        Changes to PyClaw

        -

        For changes in PyClaw, see the PyClaw changelog.

        +
          +

        • Support for reading fgout frames added, by passing the parameter +file_prefix more consistently (which can be e.g. fgout rather than +fort, as used for output frames).

          • +

        • Support for reading binary output files with format ‘binary32’ or +‘binary64’. Added for both output frames and gauges. The old ‘binary’ +format is equivalent to ‘binary64’.

          • +

        • Support reading file_format from the fort.t files, now one of ascii, +binary32, or binary64. See General Changes above for more details.

          • +

        See pyclaw diffs

        +

        For older changes in PyClaw, see also the PyClaw changelog.

      - +
      • clawpack.pyclaw.fileio.netcdf (module)
      • clawpack.pyclaw.limiters.tvd (module)
      • clawpack.pyclaw.util (module) +
        • +
      • clawpack.riemann.acoustics_1D_py (module) +
        • +
      • clawpack.riemann.advection_1D_py (module) +
        • +
      • clawpack.riemann.burgers_1D_py (module) +
        • +
      • clawpack.riemann.euler_1D_py (module) +
        • +
      • clawpack.riemann.shallow_1D_py (module)
      • ClawPlotAxes (built-in class)
        • @@ -336,6 +352,16 @@

        D

        E

        + @@ -365,6 +391,8 @@

        F

        + - + + + + + + + + + + + + + + +
      • setup_gauge_files() (clawpack.pyclaw.geometry.Grid method) +
        • +
      • shallow_exact_1D() (in module clawpack.riemann.shallow_1D_py) +
        • +
      • shallow_fwave_1d() (in module clawpack.riemann.shallow_1D_py) +
        • +
      • shallow_hll_1D() (in module clawpack.riemann.shallow_1D_py) +
        • +
      • shallow_roe_1D() (in module clawpack.riemann.shallow_1D_py)
      • SharpClawSolver (class in clawpack.pyclaw.sharpclaw.solver)
        • @@ -922,12 +958,12 @@

        S

      • slip (clawpack.geoclaw.dtopotools.SubFault attribute)
        • +
        • solver (clawpack.pyclaw.controller.Controller attribute)
        • source_split (clawpack.petclaw.geometry.Domain attribute) diff --git a/v5.8.x/geoclaw_util_module.html b/v5.8.x/geoclaw_util_module.html index 5ce9796ae..70167839b 100644 --- a/v5.8.x/geoclaw_util_module.html +++ b/v5.8.x/geoclaw_util_module.html @@ -112,7 +112,7 @@

          Navigation

          Note: If using this to initialize a radially-symmetric 2d velocity on the sphere based on a radial velocity U(r), symmetric about (x0, y0), set:

          -

          System Message: ERROR/3 (/Users/rjl/git/clawpack/clawpack/geoclaw/util.py:docstring of clawpack.geoclaw.util.bearing, line 9)

          +

          System Message: ERROR/3 (/Users/rjl/clawpack_src/clawpack_master/clawpack/geoclaw/util.py:docstring of clawpack.geoclaw.util.bearing, line 9)

          Unexpected indentation.

          diff --git a/v5.8.x/kmltools_module.html b/v5.8.x/kmltools_module.html index 3ba91cf79..c7f4d7c07 100644 --- a/v5.8.x/kmltools_module.html +++ b/v5.8.x/kmltools_module.html @@ -110,6 +110,7 @@

          Navigation

        • topo2kml - create a kml outline for each topo grid specified in setrun

        • dtopo2kml - create a kml outline for each dtopo grid specified in setrun

        • fgmax2kml - create a kml outline for each fgmax grid specified in setrun

          • +

        • fgout2kml - create a kml outline for each fgout grid specified in setrun

        • make_input_data_kmls - make kml files for many things specified in setrun

        • pcolorcells_for_kml - version of pcolormesh with appropriate dpi and size

        • png2kml - create kml file wrapping a png figure to be viewed on GE

          • @@ -189,6 +190,28 @@

          Navigation

          +
          +
          +clawpack.geoclaw.kmltools.fgout2kml(rundata=None, fname='fgout_grids.kml', verbose=True, combined=False)
          +

          Create a KML box for each fgout grid specified for a GeoClaw run.

          +
          +
          Inputs
          +
            +

          • rundata - an object of class ClawRunData or None

            +

            If rundata==None, try to create based on executing function setrun +from the setrun.py file in the current directory.

            +
            • +

          • fname (str) - resulting kml file.

            • +

          • verbose (bool) - If True, print out info about each region found

            • +

          • combined (bool) - If True, combine into single kml file with +name given by fname. NOT YET IMPLEMENTED. +If False, fname is ignored and individual files are created for +each fgout grid.

            • +
          +
          +
          +
          +
          clawpack.geoclaw.kmltools.gauges2kml(rundata=None, fname='gauges.kml', verbose=True)
          @@ -336,7 +359,7 @@

          Navigation

          Internally the value dpi (dots per inch) for the png file is determined so that it is at least 16 and so that:

          -

          System Message: ERROR/3 (/Users/rjl/git/clawpack/clawpack/geoclaw/kmltools.py:docstring of clawpack.geoclaw.kmltools.pcolorcells_for_kml, line 36)

          +

          System Message: ERROR/3 (/Users/rjl/clawpack_src/clawpack_master/clawpack/geoclaw/kmltools.py:docstring of clawpack.geoclaw.kmltools.pcolorcells_for_kml, line 36)

          Unexpected indentation.

          @@ -344,7 +367,7 @@

          Navigation

          dpi * y_inches = dcp * y_cells

          -

          System Message: WARNING/2 (/Users/rjl/git/clawpack/clawpack/geoclaw/kmltools.py:docstring of clawpack.geoclaw.kmltools.pcolorcells_for_kml, line 38)

          +

          System Message: WARNING/2 (/Users/rjl/clawpack_src/clawpack_master/clawpack/geoclaw/kmltools.py:docstring of clawpack.geoclaw.kmltools.pcolorcells_for_kml, line 38)

          Block quote ends without a blank line; unexpected unindent.

          where x_cells, y_cells are the number of cells in each direction.

          @@ -354,14 +377,14 @@

          Navigation

          annotate the figure befor saving it as a png file, which should then be done with:

          -

          System Message: ERROR/3 (/Users/rjl/git/clawpack/clawpack/geoclaw/kmltools.py:docstring of clawpack.geoclaw.kmltools.pcolorcells_for_kml, line 46)

          +

          System Message: ERROR/3 (/Users/rjl/clawpack_src/clawpack_master/clawpack/geoclaw/kmltools.py:docstring of clawpack.geoclaw.kmltools.pcolorcells_for_kml, line 46)

          Unexpected indentation.

          plt.savefig(png_filename, transparent=True, dpi=kml_dpi)

          -

          System Message: WARNING/2 (/Users/rjl/git/clawpack/clawpack/geoclaw/kmltools.py:docstring of clawpack.geoclaw.kmltools.pcolorcells_for_kml, line 47)

          +

          System Message: WARNING/2 (/Users/rjl/clawpack_src/clawpack_master/clawpack/geoclaw/kmltools.py:docstring of clawpack.geoclaw.kmltools.pcolorcells_for_kml, line 47)

          Block quote ends without a blank line; unexpected unindent.

          The png_extent is needed in construcing a kml file to display the @@ -497,7 +520,7 @@

          Navigation

          -

          System Message: WARNING/2 (/Users/rjl/git/clawpack/clawpack/geoclaw/kmltools.py:docstring of clawpack.geoclaw.kmltools.topo2kmz, line 18)

          +

          System Message: WARNING/2 (/Users/rjl/clawpack_src/clawpack_master/clawpack/geoclaw/kmltools.py:docstring of clawpack.geoclaw.kmltools.topo2kmz, line 18)

          Field list ends without a blank line; unexpected unindent.

          If force_dry is an array of the same shape as topo.Z then another png diff --git a/v5.8.x/objects.inv b/v5.8.x/objects.inv index 4f491d1bc..8e9c58d73 100644 Binary files a/v5.8.x/objects.inv and b/v5.8.x/objects.inv differ diff --git a/v5.8.x/py-modindex.html b/v5.8.x/py-modindex.html index 2d81e01ea..cf98087e0 100644 --- a/v5.8.x/py-modindex.html +++ b/v5.8.x/py-modindex.html @@ -143,6 +143,31 @@

          Python Module Index

        		    clawpack.pyclaw.util
            + clawpack.riemann.acoustics_1D_py +
            + clawpack.riemann.advection_1D_py +
            + clawpack.riemann.burgers_1D_py +
            + clawpack.riemann.euler_1D_py +
            + clawpack.riemann.shallow_1D_py +
        diff --git a/v5.8.x/pyclaw/rp.html b/v5.8.x/pyclaw/rp.html index 63f5092b1..5e04f9a0e 100644 --- a/v5.8.x/pyclaw/rp.html +++ b/v5.8.x/pyclaw/rp.html @@ -163,18 +163,328 @@

        Navigation

        Acoustics

        +

        Riemann solvers for constant coefficient acoustics.

        +
        +\[q_t + A q_x = 0\]
        +

        where

        +
        +\[\begin{split}q(x,t) = \left [ \begin{array}{c} p(x,t) \\ u(x,t) \end{array} \right ]\end{split}\]
        +

        and the coefficient matrix is

        +
        +\[\begin{split}A = \left [\begin{matrix} +0 & K\\ +1/\rho & 0 +\end{matrix} \right ]\end{split}\]
        +

        The parameters \(\rho =\) density and \(K =\) bulk modulus are used +to calculate the impedence \(= Z\) and speed of sound = c.

        +
        +
        Authors
        +

        Kyle T. Mandli (2009-02-03): Initial version

        +
        +
        +
        +
        +clawpack.riemann.acoustics_1D_py.acoustics_1D(q_l, q_r, aux_l, aux_r, problem_data)
        +

        Basic 1d acoustics riemann solver, with interleaved arrays

        +
        +
        problem_data is expected to contain -
          +

        • zz - (float) Impedence

          • +

        • cc - (float) Speed of sound

          • +
        +
        +
        +

        See Riemann Solver Package for more details.

        +
        +
        Version
        +

        1.0 (2009-02-03)

        +
        +
        +
        +

        Advection

        +

        Simple advection Riemann solvers

        +

        Basic advection Riemann solvers of the form (1d)

        +
        +\[q_t + A q_x = 0.\]
        +
        +
        Authors
        +

        Kyle T. Mandli (2008-2-20): Initial version

        +
        +
        +
        +
        +clawpack.riemann.advection_1D_py.advection_1D(q_l, q_r, aux_l, aux_r, problem_data)
        +

        Basic 1d advection riemann solver

        +
        +
        problem_data should contain -
          +

        • u - (float) Determines advection speed

          • +
        +
        +
        +

        See Riemann Solver Package for more details.

        +
        +
        Version
        +

        1.0 (2008-2-20)

        +
        +
        +
        +

        Burgers Equation

        +

        Riemann solvers for Burgers equation

        +
        +\[u_t + \left ( \frac{1}{2} u^2 \right)_x = 0\]
        +
        +
        Authors
        +

        Kyle T. Mandli (2009-2-4): Initial version

        +
        +
        +
        +
        +clawpack.riemann.burgers_1D_py.burgers_1D(q_l, q_r, aux_l, aux_r, problem_data)
        +

        Riemann solver for Burgers equation in 1d

        +
        +
        problem_data should contain -
          +

        • efix - (bool) Whether a entropy fix should be used, if not present, +false is assumed

          • +
        +
        +
        +

        See Riemann Solver Package for more details.

        +
        +
        Version
        +

        1.0 (2009-2-4)

        +
        +
        +
        +

        Euler Equations

        +

        Riemann solvers for the Euler equations

        +

        This module contains Riemann solvers for the Euler equations which have the +form (in 1d):

        +
        +\[q_t + f(q)_x = 0\]
        +

        where

        +
        +\[\begin{split}q(x,t) = \left [ \begin{array}{c} \rho \\ \rho u \\ E \end{array} \right ],\end{split}\]
        +

        the flux function is

        +
        +\[\begin{split}f(q) = \left [ \begin{array}{c} \rho u \\ \rho u^2 + p \\ u(E+p) \end{array}\right ].\end{split}\]
        +

        and \(\rho\) is the density, \(u\) the velocity, \(E\) is the +energy and \(p\) is the pressure.

        +

        Unless otherwise noted, the ideal gas equation of state is used:

        +
        +\[E = (\gamma - 1) \left (E - \frac{1}{2}\rho u^2 \right)\]
        +
        +
        +clawpack.riemann.euler_1D_py.euler_exact_1D(q_l, q_r, aux_l, aux_r, problem_data)
        +

        Exact euler Riemann solver

        +
        +

        Warning

        +

        This solver has not been implemented.

        +
        +
        + +
        +
        +clawpack.riemann.euler_1D_py.euler_hll_1D(q_l, q_r, aux_l, aux_r, problem_data)
        +

        HLL euler solver

        +
        W_1 = Q_hat - Q_l    s_1 = min(u_l-c_l,u_l+c_l,lambda_roe_1,lambda_roe_2)
+W_2 = Q_r - Q_hat    s_2 = max(u_r-c_r,u_r+c_r,lambda_roe_1,lambda_roe_2)
+
+Q_hat = ( f(q_r) - f(q_l) - s_2 * q_r + s_1 * q_l ) / (s_1 - s_2)
+
        +
        +
        +
        problem_data should contain:
          +

        • gamma - (float) Ratio of the heat capacities

          • +

        • gamma1 - (float) \(1 - \gamma\)

          • +
        +
        +
        +
        +
        Version
        +

        1.0 (2014-03-04)

        +
        +
        +
        + +
        +
        +clawpack.riemann.euler_1D_py.euler_hllc_1D(q_l, q_r, aux_l, aux_r, problem_data)
        +

        HLLC Euler solver

        +
        W_1 = q_hat_l - q_l      s_1 = min(u_l-c_l,u_l+c_l,lambda_roe_1,lambda_roe_2)
+W_2 = q_hat_r - q_hat_l  s_2 = s_m
+W_3 = q_r - q_hat_r      s_3 = max(u_r-c_r,u_r+c_r,lambda_roe_1,lambda_roe_2)
+s_m = (p_r - p_l + rho_l*u_l*(s_l - u_l) - rho_r*u_r*(s_r - u_r))\
+  / (rho_l*(s_l-u_l) - rho_r*(s_r - u_r))
+
        +
        +

        left middle state:

        +
        q_hat_l[0,:] = rho_l*(s_l - u_l)/(s_l - s_m)
+q_hat_l[1,:] = rho_l*(s_l - u_l)/(s_l - s_m)*s_m
+q_hat_l[2,:] = rho_l*(s_l - u_l)/(s_l - s_m)\
+        *(E_l/rho_l + (s_m - u_l)*(s_m + p_l/(rho_l*(s_l - u_l))))
+
        +
        +

        right middle state:

        +
        q_hat_r[0,:] = rho_r*(s_r - u_r)/(s_r - s_m)
+q_hat_r[1,:] = rho_r*(s_r - u_r)/(s_r - s_m)*s_m
+q_hat_r[2,:] = rho_r*(s_r - u_r)/(s_r - s_m)\
+        *(E_r/rho_r + (s_m - u_r)*(s_m + p_r/(rho_r*(s_r - u_r))))
+
        +
        +

        problem_data should contain:

        +
        +
          +

        • gamma: (float) Ratio of specific heat capacities

          • +

        • gamma1: (float) \(\gamma - 1\)

          • +
        +
        +

        :Version 1.0 (2015-11-18)

        +
        + +
        +
        +clawpack.riemann.euler_1D_py.euler_roe_1D(q_l, q_r, aux_l, aux_r, problem_data)
        +

        Roe Euler solver in 1d

        +
        +
        aug_global should contain -
          +

        • gamma - (float) Ratio of the heat capacities

          • +

        • gamma1 - (float) \(1 - \gamma\)

          • +

        • efix - (bool) Whether to use an entropy fix or not

          • +
        +
        +
        +

        See Riemann Solver Package for more details.

        +
        +
        Version
        +

        1.0 (2009-6-26)

        +
        +
        +
        +

        Shallow Water Equations

        +

        Riemann solvers for the shallow water equations.

        +
        +
        The available solvers are:
          +

        • Roe - Use Roe averages to caluclate the solution to the Riemann problem

          • +

        • HLL - Use a HLL solver

          • +
        • +
          Exact - Use a newton iteration to calculate the exact solution to the

          Riemann problem

          +
          +
          +
          • +
        +
        +
        +
        +\[q_t + f(q)_x = 0\]
        +

        where

        +
        +\[\begin{split}q(x,t) = \left [ \begin{array}{c} h \\ h u \end{array} \right ],\end{split}\]
        +

        the flux function is

        +
        +\[\begin{split}f(q) = \left [ \begin{array}{c} h u \\ hu^2 + 1/2 g h^2 \end{array}\right ].\end{split}\]
        +

        and \(h\) is the water column height, \(u\) the velocity and \(g\) +is the gravitational acceleration.

        +
        +
        +clawpack.riemann.shallow_1D_py.shallow_exact_1D(q_l, q_r, aux_l, aux_r, problem_data)
        +

        Exact shallow water Riemann solver

        +
        +

        Warning

        +

        This solver has not been implemented.

        +
        +
        + +
        +
        +clawpack.riemann.shallow_1D_py.shallow_fwave_1d(q_l, q_r, aux_l, aux_r, problem_data)
        +

        Shallow water Riemann solver using fwaves

        +

        Also includes support for bathymetry but be wary if you think you might have +dry states as this has not been tested.

        +
        +
        problem_data should contain:
          +

        • grav - (float) Gravitational constant

          • +

        • dry_tolerance - (float) Set velocities to zero if h is below this +tolerance.

          • +

        • sea_level - (float) Datum from which the dry-state is calculated.

          • +
        +
        +
        +
        +
        Version
        +

        1.0 (2014-09-05)

        +
        +
        Version
        +

        2.0 (2017-03-07)

        +
        +
        +
        + +
        +
        +clawpack.riemann.shallow_1D_py.shallow_hll_1D(q_l, q_r, aux_l, aux_r, problem_data)
        +

        HLL shallow water solver

        +
        W_1 = Q_hat - Q_l    s_1 = min(u_l-c_l,u_l+c_l,lambda_roe_1,lambda_roe_2)
+W_2 = Q_r - Q_hat    s_2 = max(u_r-c_r,u_r+c_r,lambda_roe_1,lambda_roe_2)
+
+Q_hat = ( f(q_r) - f(q_l) - s_2 * q_r + s_1 * q_l ) / (s_1 - s_2)
+
        +
        +
        +
        problem_data should contain:
          +

        • g - (float) Gravitational constant

          • +
        +
        +
        +
        +
        Version
        +

        1.0 (2009-02-05)

        +
        +
        +
        + +
        +
        +clawpack.riemann.shallow_1D_py.shallow_roe_1D(q_l, q_r, aux_l, aux_r, problem_data)
        +

        Roe shallow water solver in 1d:

        +
        ubar = (sqrt(u_l) + sqrt(u_r)) / (sqrt(h_l) + sqrt(h_r))
+cbar = sqrt( 0.5 * g * (h_l + h_r))
+
+W_1 = |      1      |  s_1 = ubar - cbar
+      | ubar - cbar |
+
+W_2 = |      1      |  s_1 = ubar + cbar
+      | ubar + cbar |
+
+a1 = 0.5 * ( - delta_hu + (ubar + cbar) * delta_h ) / cbar
+a2 = 0.5 * (   delta_hu - (ubar - cbar) * delta_h ) / cbar
+
        +
        +
        +
        problem_data should contain:
          +

        • g - (float) Gravitational constant

          • +

        • efix - (bool) Boolean as to whether a entropy fix should be used, if +not present, false is assumed

          • +
        +
        +
        +
        +
        Version
        +

        1.0 (2009-02-05)

        +
        +
        +
        +
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93,95,101,103,107,109,110,111,113,119,120,121,122,126,130,140,144,148,149,152,156,160],USE:[61,81],Use:[30,51,91,99,121,132,139,141,143,152,154],Used:132,Useful:[1,3,132,139],Uses:[30,132,154],Using:[0,1,2,3,7,17,22,41,42,51,53,75,76,77,79,89,90,91,123,139,146,147,151,154,155,160],WCS:156,Will:98,With:[6,22,28,44,49,51,58,66,73,110,118,131,133,139],__________________o:154,__file__:106,__future__:119,__init__:[55,96,106],__main__:[141,143],__name__:[141,143],_build1:54,_build:54,_compute_c_cent:89,_compute_c_nod:89,_compute_p_cent:89,_compute_p_nod:89,_fillvalu:92,_googleearth:51,_outdir:93,_output2:[77,79],_output:[5,13,14,32,35,36,44,50,60,67,77,79,88,93,95,98,118,125,155],_output_from_previous_run:44,_output_new:111,_output_old:111,_plot:[13,35,36,44,67,79,138,144],_plotindex:[1,44],_plots_new:111,_plots_old:111,_ptwise:131,_pyclaw_io:86,_static:54,_storm_modul:149,_subpackag:106,_surge_modul:108,_templat:[54,55],_theme:54,a351:[17,91],a377:[17,91],aabbggrr:59,abdullah:[4,81],abil:[41,117,119,123,148,154],abl:[13,54,106],abort:62,about:[3,5,7,13,14,16,22,25,33,35,36,40,47,48,53,55,59,62,64,67,72,78,80,83,91,94,99,106,111,118,122,124,131,138,140,141,142,152,155,157,160],aboutu:30,abov:[3,5,13,14,16,20,28,32,35,36,38,39,40,41,44,48,51,53,54,55,58,61,63,66,70,72,77,80,81,84,93,95,100,103,104,110,119,121,126,131,133,135,137,138,139,141,143,148,151,152,154,157],abs:[30,52,96,104,110,133,154],absolut:[93,110,111,121,140,141],absolute_import:119,abspath:[5,38],abstol:104,academ:102,acceler:52,accept:[44,83,93,99,139],accept_reject_step:99,access:[0,17,27,29,55,58,88,89,91,99,101,104],accid:28,accident:[28,77],accompani:[18,21],accomplish:[29,39,62],accord:[6,53],accordingli:[51,152],account:[13,24,28,55,85,94],accumul:[44,119,130],accur:[5,48,70,91,99,126,139,157,160],accuraci:[44,64,73,141,143],achiev:[20,84,146,147],acou:77,acoust:[16,29,35,36,48,82,83,86,88,91,99,100,117,131,141,157],acoustics1dheterogeneoustest:[36,150],acoustics3dheterogeneoustest:[36,150],acoustics_1d:[83,103],acoustics_1d_adjoint:5,acoustics_1d_example1:[35,36,69],acoustics_1d_heterogen:[36,150,157],acoustics_1d_homogen:[88,111],acoustics_2d:99,acoustics_2d_adjoint:5,acoustics_2d_radi:[141,157],acoustics_3d_heterogen:[36,150],acoustics_3d_vari:111,acquaint:103,acquir:77,across:[5,110,119,152,154],acsza1:30,acszb1:30,act:[87,154],acta:17,actanum2011:17,action:[13,14,84],activ:[24,32,34,38,54,99,108,142],actual:[6,27,30,32,53,58,59,67,70,77,87,92,104,108,134,142],adapt:[4,7,17,30,39,52,53,66,67,73,83,110,121,124,126,131,133,138,139,140,142,157],add:[0,11,12,13,16,17,27,28,30,44,47,51,54,55,57,58,63,66,67,68,70,76,83,88,89,93,94,96,104,114,117,119,120,121,124,132,143,148,152,154,158],add_colorbar:[30,154],add_colormap:[39,66,118,124],add_dimens:89,add_gaug:[89,93],add_label:44,add_param:[141,143],add_parent_doc:104,add_titl:77,add_true_solut:77,added:[3,12,16,20,22,24,28,34,47,53,55,58,59,60,64,67,77,89,93,106,108,110,113,114,116,117,118,119,120,121,122,123,124,125,130,135,139,140,142,148,151,154,158],addgaug:44,adding:[22,27,28,29,32,41,44,54,59,70,94,107,118,120],addit:[5,7,13,16,23,24,28,29,32,36,37,38,45,46,59,66,70,72,73,77,78,84,87,89,91,93,99,100,101,108,110,117,119,120,121,122,125,126,128,131,133,139,143,148,151,152,157,158],addition:[94,148],address:[51,54,119],adequ:48,adjac:[6,16,32,45,110,135,139],adjoint:[7,17,25,52,110,121,122],adjoint_flag:110,adjoint_modul:122,adjoint_outdir:5,adjointdata:[5,122,123],adjointsup_modul:122,adjust:[5,13,20,32,33,45,59,89,93,134,139,157],adjust_fgmax_1d:33,admiralti:133,adopt:[30,99],adv:17,advanc:[6,17,52,66,71,103,118,139,140,157],advantag:[12,76,92,105,111,133],advect:[17,77,91,94,131,132,143,157],advection2dannulustest:[36,150],advection_1d_example1:63,advection_2d_annulu:[36,150],advection_2d_flagregion:38,advection_2d_inflow:117,advection_2d_swirl:157,advection_3d_swirl:[117,151],advertis:126,advis:[34,61,81],affect:[22,62,119,120,126,139,152,155],afosr:4,after:[0,1,3,5,6,12,13,19,23,27,28,29,32,33,35,36,39,44,48,54,55,57,59,60,62,63,66,67,68,72,77,84,85,86,88,93,99,101,106,110,111,113,117,118,132,135,139,140,141,143,148,157],afterax:[0,27,44,51,77],afterfram:[1,27,76],aftergrid:67,afteritem:[3,27],afterpatch:[3,27],again:[22,40,62,66,70,77,79,83,84,93,97,102,106,121,127,152,155],against:[104,111,118,150],agenc:[4,56,148,149],agency_pref:148,agre:[12,28,39,53,131,151,154,157],agreement:48,ahmadia:[4,17,81,91],aht:134,aid:84,aim:28,aks2203:4,albada:87,alg:141,alghamdi:[4,17,81,91],algorithm:[4,7,25,32,38,39,45,52,83,89,91,92,99,103,110,121,131,133,139,141,143,154],align:[32,39,51,59,66,124,126,142],all:[0,1,4,6,11,12,13,16,20,22,23,25,27,28,29,30,32,33,35,36,39,40,41,44,45,48,50,51,53,54,55,56,57,59,60,61,62,63,67,69,70,71,72,73,76,77,79,80,81,83,86,87,89,91,92,93,94,96,97,98,99,101,104,105,106,109,110,111,113,114,117,118,119,121,124,126,129,130,131,132,133,135,138,139,140,141,142,143,144,149,150,151,152,154,155,157],alloc:[20,99,117,126,140],allocat:117,allot:59,allow:[4,6,13,22,27,28,29,32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67,68,72,73,77,79,80,83,84,86,87,89,91,92,94,96,97,98,99,101,103,104,105,106,110,111,113,114,121,122,129,131,133,138,139,142,144,148,152,154,155,157],containing_rect:30,contains:29,containt:130,contamin:139,contan:51,content:[4,6,23,51,55,73,84,91,142,152,157,158],context:[27,51,157],contigu:[72,92,101,133],continent:[7,66],contingu:22,continu:[13,22,28,30,49,54,81,105,131,139,160],contour:[3,30,44,51,53,67,105,138,154],contour_color:3,contour_kwarg:[3,154],contour_level:[3,154],contour_max:3,contour_min:3,contour_nlevel:3,contour_show:3,contourf:[51,76],contract:[4,61,81],contrast:[53,133],contribut:[4,24,25,57,81,84,91,96,99,108,111],contributor:[4,24,61,91],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],conveni:[1,27,32,35,36,39,44,51,79,86,88,91,93,95,103,157,160],convens:152,convent:[3,22,30,46,53,70,97,152],converg:[66,76],convers:[19,25,84,92,110,133,152,156],convert43to46:19,convert46to50:20,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],convert_fort_double_to_float:104,convert_readm:11,convert_to_standard_unit:30,convex:[7,32],coodin:30,coord:[47,51],coordin:[4,23,30,32,47,72,76,83,89,93,94,103,110,133,142,154],coordinate_specif:[30,70],coordinate_system:[15,60,136,142],coorind:154,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],copyq1:63,copyright:[61,81],core:[4,12,73,111,121],corioli:[48,142,146,147],coriolis_forc:[48,142],corner:[3,30,32,53,70,72,89,133,139,141,143,152,154],correct:[20,28,41,54,55,63,64,67,77,83,89,94,98,104,113,114,118,135,139,141,142,143],correctli:[28,32,84,90,117,142],correspond:[3,6,12,23,25,27,30,44,47,48,53,54,55,59,67,70,77,83,87,89,92,93,96,98,101,110,111,131,133,134,139,140,141,142,143,148,152,156,157],correspondingli:32,cos:[39,47,49,66,83,96],cosin:83,cost:[13,99],costli:132,could:[5,12,13,27,32,35,36,39,44,53,60,66,70,71,77,79,83,89,93,101,102,106,117,126,133,135,140,141,142,143,154,157],council:4,count:83,count_from_zero:83,counter:[104,154],counterclockwis:70,coupl:[119,160],courant:[4,6,110,120,139,140,141,143],cours:[13,26,32,44,46,60,70,94,95,103,105,108,142,152],cover:[6,7,27,28,30,32,38,39,51,59,66,70,110,114,119,135,141,152],coverag:[91,111],covert:11,covid:24,cparam:[83,101],cpp:52,cpu:[13,52,118,121,123,151],crash:[118,139,140],creat:[0,1,2,3,5,6,7,19,24,25,28,30,32,33,35,36,38,40,42,44,45,46,50,52,54,58,59,62,70,72,76,77,79,84,85,88,89,91,92,95,98,101,102,103,104,110,111,113,117,118,119,121,122,123,126,133,138,139,140,141,144,145,148,154,156,157,158],create_dtopo_xi:[30,70],create_dtopographi:[30,70],create_topo_func:154,creation:[39,77,91,113],criteria:[6,7,22,25,32,66,101],criterion:[32,110,141],critic:[51,93,131],crop:[53,154],cross:28,crucial:[51,152],csdm:24,cse:24,csh:94,csv:[30,70,121],csvfault:[30,70],ctrl:[29,77],cube:67,cultu:66,cumul:121,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],current_data:[0,3,25,44,76,77],curv:[3,44,76,133],custom:[0,13,16,20,22,25,63,67,73,76,84,90,96,135],custom_bc:96,customari:93,cut:140,cutoff:[6,141],cvf:55,cvs:51,cxx:94,cyber:17,cygwin:86,cython:94,dai:[6,13,51,142],dalcin:81,dam:[51,135],dam_break:132,damag:[6,61,81],damiansra:96,dark:133,darker:51,darryl:17,dart:45,dash:[3,94],daspect:67,dat:[30,148],data:[0,1,3,5,25,27,30,32,35,36,38,39,40,42,44,45,46,47,53,54,59,60,61,62,66,67,76,77,78,79,81,83,86,89,92,93,95,97,98,99,101,104,107,108,109,110,113,115,116,118,119,121,122,123,124,126,131,133,134,140,141,143,148,151,153,158],data_break:[39,66,154],data_fil:33,data_limit:[39,66],data_storm:148,data_typ:104,databas:[13,30,70,104,108,121,152],datadir:118,dataset:[152,154,156],date:[5,28,40,47,51,54,55,62,77,148,155],date_tim:47,datetiem:148,datetim:[47,148],datum:[47,48,134,142,156],dave:30,davi:[4,17],david:[4,17,81,91,99],davis2018:[5,17],davisleveque2016:[5,17],davisleveque2018:[5,17],dawson:17,daylight:59,dcp:59,deal:[30,48,76,93,94,101,148,154],dealt:[32,39],debug:[7,41,62,72,76,93,101,106,111,139,141],debugg:77,decemb:[18,128,129],decid:[83,99],decim:[47,59],decimc:148,decis:51,declar:[20,22,101,126,157],decompos:[72,131,160],decomposit:139,decor:104,decoupl:54,decreas:[44,135,152],deduc:152,deep:[5,66],deeper:[133,142,152],deepli:103,def:[0,1,3,44,51,66,77,83,89,93,96,99,141,143,148],default_tfluct:99,defenc:4,defens:4,defin:[0,1,3,5,6,7,22,27,30,32,38,39,41,51,59,60,62,66,67,70,77,79,83,86,89,95,96,98,99,101,103,104,110,113,121,126,131,141,143,148,152,154,155,157,160],definit:[30,67,83,110,116],deform:[17,30,33,45,70,156],deg2dm:59,degener:133,degre:[30,47,51,59,70],delet:[20,28,58],delimit:30,delin:142,delta:[87,89,96,99,131,154,157,160],delta_i:154,delta_limit:154,delta_x:154,dem:[32,45,53,59,121,152,154,156],demo:94,demonstr:[12,25,88,94],denot:[6,22,44,53,131,154],dens:149,densiti:[86,93,101,103,140,141,157],depart:[4,148],depdend:87,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],deprec:[7,30,34,54,58,117,121,142,152,154],depress:32,depth:[4,5,16,17,22,30,32,33,39,44,45,48,64,70,76,78,132,134,135,142,152],deriv:[61,70,81,86,90,91,101,111],describ:[3,4,5,6,7,13,14,16,19,26,28,30,31,32,35,36,38,39,44,46,47,48,51,52,54,55,57,59,60,62,63,66,67,70,72,73,76,77,78,89,91,92,98,104,108,110,111,119,122,123,131,133,134,138,139,140,142,148,149,152,154,156,157,160],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],design:[4,27,28,51,81,83,103,133,156],desir:[0,1,2,3,6,7,16,22,25,26,30,32,33,39,42,44,55,58,59,60,66,70,75,76,77,79,83,84,86,93,98,99,107,119,121,124,135,137,139,140,141,143,148,152,154,155],desktop:94,destin:51,detail:[4,5,10,16,22,23,25,26,28,29,30,32,35,36,38,41,46,48,51,54,57,58,61,62,66,67,70,73,77,81,86,87,88,89,91,92,93,94,95,96,97,99,109,110,111,114,119,121,126,131,133,138,139,142,144,148,152,155,156,157,160],detect:[51,62,92,100,104,155],deterimin:[142,154],determin:[3,5,6,30,32,39,44,45,48,50,51,54,59,70,77,87,89,92,101,106,110,114,118,119,130,133,134,138,139,140,142,154,157],determine_topo_typ:154,dev:[18,24,28,54,55,94,121,122,127,128,129],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],dict:[30,86,92,97,98,101,148,154],dictionari:[0,1,2,3,30,44,60,77,83,86,92,97,98,101,103,106,148,152,154],dicuss:30,did:[121,126,133,152],didn:116,died:113,diff:[18,50,55,113,114,115,116,117,118,119,120,121,122,123,124,125,126,127,128],differ:[1,3,6,7,12,15,16,22,28,30,31,35,36,39,44,46,48,50,53,57,59,62,64,66,67,70,71,76,79,83,84,86,88,89,91,92,97,99,104,105,106,107,110,111,117,118,119,120,121,124,126,127,131,134,135,136,137,139,140,141,142,146,147,152,154,155,156,157,160],differenti:[17,30],difficult:44,difficulti:[100,102,106],diffus:96,digit:[32,39,53,59,60,77,119,120,121,154],dike:[39,66,124],dim:[96,97,99],dimens:[5,6,7,16,20,22,25,44,47,53,59,67,83,84,86,92,94,96,97,98,101,103,110,121,124,131,139,140,141,143,154,157],dimension:[3,7,8,17,22,25,30,32,35,36,44,48,52,67,89,96,117,118,120,123,141,142,143,154,157],dimensional_split:[89,117,139,141,143],dip:[30,70],dir:[55,94,158],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],directli:[8,19,23,32,48,57,67,70,77,79,83,84,87,91,101,104,106,121,154,158],directori:[1,3,5,6,11,12,13,14,15,16,19,20,22,23,25,28,29,31,32,35,36,37,40,42,43,44,45,47,50,51,54,55,57,59,63,67,68,71,75,76,79,86,88,89,91,92,93,96,103,106,107,108,110,111,113,118,119,120,121,123,130,131,135,136,137,138,139,140,144,146,147,150,151,152,155,157,158],directorti:108,disabl:[49,100,142],disable_petsc:104,discard:[32,99],disclaim:[61,81],discontinu:[4,99,160],discov:64,discoveri:111,discret:99,discrib:4,discuss:[5,24,28,30,48,53,66,70,92,103,105,106,110,119,121,131,142,160],disk:[13,44,83,92,93,111,119],dispers:48,displac:[30,45,48,70,135,142,156],displai:[1,13,35,36,40,44,51,59,77,93,111,142],display_format:[44,60],display_landfall_tim:142,dist:55,dist_latlong2met:47,dist_meters2latlong:47,distanc:[30,47,51,70,142,152,154],distant:[108,110],distinct:[44,119],distinguish:39,distribut:[4,12,13,29,30,54,61,70,73,81,99,105,124],disturb:51,distutil:84,divid:[110,139],divis:[4,51],dlgeorg:4,dms2decim:47,dnetcdf:[41,152],doc:[18,23,24,28,30,51,55,87,104,105,106,120,121,122,123,124,125,126,127,128,145],docker:[18,25,55,56,120,121,122,123,124,125,126,127,128,159],docker_disk:29,docker_imag:55,dockerfile_v5:29,dockerhub:[29,55],dockeril:29,docstr:[84,88,111],doctest:89,documen:54,document:[0,1,2,3,6,7,18,21,22,23,24,25,28,29,32,45,48,53,58,61,70,76,77,78,79,81,87,89,92,93,94,95,99,101,104,106,114,127,128,129,138,141,158,159],dodsc:[39,66],doe:[4,5,11,16,20,27,28,39,40,48,51,53,54,58,67,73,77,80,89,98,101,104,110,111,114,119,123,126,130,131,132,135,148,154,155,157],doesn:[28,32,58,63,101],doflag:110,doi:[4,17,52,55,57,124,125,126,127,128,129],doing:[6,11,19,25,28,33,39,44,48,50,52,54,58,63,77,79,89,91,110,111,118,119,120,121],domain:[5,6,16,17,33,38,39,48,51,54,59,70,72,82,83,84,86,94,96,98,101,108,110,140,141,143,152],don:[13,27,28,54,55,77,93,94,100,111,141,155],done:[1,6,7,8,11,13,16,19,20,28,35,36,39,44,46,51,53,54,56,59,62,66,67,70,76,77,79,83,87,88,91,104,110,114,118,119,123,130,131,133,138,140,142,151,154,155,156],donna:[4,17],donnabois:4,donor:[139,141,143],dontflag:110,dot:[40,44,51,58,59,62,155],doubl:[67,84,89,104,131,140],down:[13,30,93,118,148,152,154],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],downward:70,doxygen:[6,7,25,120],dpc:59,dpi:[51,59],dpng:67,dprint:[140,141],dq_src:[96,99],dqdt:99,draft:55,drag:142,drag_law:142,draw:3,drawback:106,drawcontourlin:67,drawn:[30,51,138],driver:[20,63],drop:[13,54,80,124,126,135,139],dry:[16,17,25,32,45,124,127,132,135],dry_point:39,dry_points_sum:39,ds824:148,dst:5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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],workflow:[108,144,148],workshop:[108,124],workspac:[24,67,101],world:[48,64,91,94,148],worst:134,worth:101,worthwhil:96,would:[2,3,12,13,16,24,27,28,32,38,41,51,53,55,58,60,62,63,66,70,72,77,81,83,86,89,93,104,111,119,133,134,135,138,139,142,148,152,157],wouldn:63,wpalg:17,wrap:[59,81,84,89,99,104,148],wrapper:154,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],write_:92,write_arrai:92,write_atcf:148,write_aux:[92,98],write_aux_alwai:[83,86,93],write_aux_init:[83,86],write_aux_int:93,write_geoclaw:148,write_hurdat:148,write_imd:148,write_jma:148,write_p:[92,98],write_tcvit:148,write_to_fgmax_data:33,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],wrong:[58,63,67,93,106],www:[4,13,17,30,39,45,54,60,61,66,68,81,84,89,92,94,120,122,148,154],x1_desir:33,x1_domain:33,x1_new:33,x2_desir:33,x2_new:33,x_1:[5,133],x_2:[5,133],x_c:133,x_cell:59,x_center:133,x_edg:[59,133],x_i:[131,157,160],x_inch:59,x_mask:154,xarr:89,xarrai:154,xarray_d:154,xclaw:[35,36,86],xclawcmd:86,xclawerr:86,xclawout:86,xcode:80,xdir:86,xiaom:30,xinsheng:[4,52],xinshengqin:[4,52],xleft:[140,141],xlf:100,xlimit:[0,44,51,124],xllcenter:[53,121,152],xllcorner:[53,152],xllower:121,xlow:72,xlower:[0,3,16,22,27,39,84,121,141,143,152,154,157],xlowerg:84,xmax:0,xmin:0,xpoint:142,xrang:96,xtick:[39,49],xupper:[0,22,141,143,154],xxdiff:111,xxx:152,xxxx:67,xy_fil:32,xy_fnam:33,xylim:30,xzf:57,y_c:133,y_cell:59,y_center:133,y_edg:[59,133],y_inch:59,year:[4,17,22,51,59,91,112,122,148],yellow:[59,77,148],yellow_red_blu:77,yes:67,yet:[1,13,18,20,25,48,52,54,57,59,76,99,119,120,121,122,123,124,125,126,127,128,129,131,139,141,159],yianni:[4,17,81],yield:3,yleft:[140,141],ylimit:[0,44,51,124,138],yllcenter:[53,121,152],yllcorner:[53,152],yllower:121,ylow:72,ylower:[3,22,27,39,84,121,141,152,154],ylowerg:84,ymax:0,ymin:0,yml:111,yong:17,you:[0,3,4,5,12,13,14,15,16,18,19,20,22,23,24,25,26,27,28,29,32,35,36,37,38,40,41,42,44,47,50,51,52,53,54,55,56,57,58,59,62,63,66,67,68,69,70,71,72,73,75,76,77,79,80,81,83,84,85,86,88,91,92,93,94,95,96,99,100,101,102,103,105,106,107,108,109,111,113,118,119,120,121,124,126,129,130,131,132,133,134,135,136,137,138,140,141,142,143,144,145,146,147,148,150,152,155,156,157,159],your:[4,6,15,16,19,20,24,25,26,35,37,41,44,53,54,55,56,57,58,68,71,76,77,79,81,82,83,84,85,88,90,91,93,102,103,105,106,107,108,110,111,113,121,131,136,137,146,147,152,155,157],yourself:[41,44,57],youtub:[24,108,124],ypoint:142,yupper:[22,141,154],z_allow_wet:39,z_dry:39,z_format:[39,66,154],zdry:[39,66],zenodo:[4,57,124,125,126,127,128,129],zero:[3,16,30,32,39,41,59,67,83,96,101,103,126,133,134],zip:[12,51,55],zipinfo:51,zlib:92,zlim:59,zlower:22,zmask:66,zmax:[39,66],zmin:[39,66],znearshor:66,zone:[48,51,59,140,141],zoom:[24,51],zsh:94,zshallow:66,ztopo:66,zupper:22,zvar:154},titles:["ClawPlotAxes","ClawPlotData","ClawPlotFigure","ClawPlotItem","About this software","Guiding AMR with adjoint flagging","Adaptive mesh refinement (AMR) algorithms","AMRClaw Description and Detailed Contents","AMRClaw for 1d problems","Doxygen documentation of AMRClaw","AMRClaw Flowcharts","Application documentation","Clawpack Applications repository","Amazon Web Services EC2 Clawpack AMI","b4run function","b4step default routines","Boundary conditions","Bibliography","Changes to master since v5.8.2","Converting from Clawpack 4.3 to 4.6","Converting from Clawpack 4.6 to 5.0","Clawpack 4.x links","Changes in Clawpack 5.0","Clawpack components","Clawpack Community","Full Table of Contents","Contributing examples and applications","current_data","Developers\u2019 Guide","Docker for Clawpack","dtopotools module for moving topography","Fortran 77 vs. Fortran 90 files","Fixed grid monitoring","fgmax_tools module for working with topography data","Fixed grid output","Running an example","Testing your Fortran installation and running an example","Testing a PyClaw installation and running an example","Specifying flagregions for adaptive refinement","Force Cells to be Dry Initially","Fortran version","Fortran Compilers","Examples from the book FVMHP","Clawpack Gallery","Gauges","GeoClaw Description and Detailed Contents","Getting started with GeoClaw","geoclaw.util module of utility functions","Cautionary Hints on using GeoClaw","GeoClaw plotting tools","Keeping track of repository versions with Git","Visualizing GeoClaw results in Google Earth","Using the GPU version of Clawpack","Grid registration","Guide for updating this documentation","Guide for doing a Clawpack release","Installing Clawpack","Options for installing Clawpack Fortran codes","pip install instructions","kmltools module of utility functions","Lagrangian gauges for particle tracking","License","Clawpack Makefiles","Library routines in Makefiles","Manning friction term","The mapc2p function","Marching Front algorithm","Plotting using Matlab","Using NetCDF output","Creating a new application directory","Earthquake sources: Fault slip and the Okada model","Using OpenMP","Output data formats","Which Clawpack solver should I use?","Clawpack Community Photos","Plotting examples","Plotting with Visclaw","Plotting hints and FAQ","Plotting routines for GeoClaw","Plotting options in Python","Installation Prerequisites","About PyClaw","PyClaw Basics","Understanding Pyclaw Classes","Porting a problem from Clawpack 4.6.x to PyClaw","Running PyClaw in the cloud","Pyclaw Controller Class","Pyclaw Limiters","Working with PyClaw\u2019s built-in examples","PyClaw Geometry","Going Further","PyClaw","Pyclaw Input/Output Package","PyClaw output","Running in parallel","Plotting PyClaw results","Setting up your own problem","Riemann Solver Package","PyClaw Solutions","Using PyClaw\u2019s solvers: Classic and SharpClaw","Installing PyClaw","PyClaw State","Troubleshooting","PyClaw tutorial: Solve the acoustics equations","Pyclaw Utility Module","Python Hints","Python 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73,77,79,83,88,91,92,93,95,101,103,107,109,110,111,113,119,120,121,122,126,130,140,144,148,149,152,156,160],USE:[61,81],Use:[30,51,91,97,99,121,132,139,141,143,152,154],Used:132,Useful:[1,3,132,139],Uses:[30,132,154],Using:[0,1,2,3,7,17,22,41,42,51,53,75,76,77,79,89,90,91,123,139,146,147,151,154,155,160],WCS:156,Will:98,With:[6,22,28,44,49,51,58,66,73,110,118,131,133,139],__________________o:154,__file__:106,__future__:119,__init__:[55,96,106],__main__:[141,143],__name__:[141,143],_build1:54,_build:54,_compute_c_cent:89,_compute_c_nod:89,_compute_p_cent:89,_compute_p_nod:89,_fillvalu:92,_googleearth:51,_outdir:93,_output2:[77,79],_output:[5,13,14,32,35,36,44,50,60,67,77,79,88,93,95,98,118,125,155],_output_from_previous_run:44,_output_new:111,_output_old:111,_plot:[13,35,36,44,67,79,138,144],_plotindex:[1,44],_plots_new:111,_plots_old:111,_ptwise:131,_pyclaw_io:86,_static:54,_storm_modul:149,_subpackag:106,_surge_modul:108,_templat:[54,55],_theme:54,a351:[17,91],a377:[17,91],aabbggrr:59,abdullah:[4,81],abil:[41,117,119,123,148,154],abl:[13,54,106],abort:62,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],aboutu:30,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],abs:[30,52,96,104,110,133,154],absolut:[93,110,111,121,140,141],absolute_import:119,abspath:[5,38],abstol:104,academ:102,acceler:[52,97],accept:[44,83,93,99,139],accept_reject_step:99,access:[0,17,27,29,55,58,88,89,91,99,101,104],accid:28,accident:[28,77],accompani:[18,21],accomplish:[29,39,62],accord:[6,53],accordingli:[51,152],account:[13,24,28,55,85,94],accumul:[44,119,130],accur:[5,48,70,91,99,126,139,157,160],accuraci:[44,64,73,141,143],achiev:[20,84,146,147],acou:77,acoust:[16,29,35,36,48,82,83,86,88,91,99,100,117,131,141,157],acoustics1dheterogeneoustest:[36,150],acoustics3dheterogeneoustest:[36,150],acoustics_1d:[83,97,103],acoustics_1d_adjoint:5,acoustics_1d_example1:[35,36,69],acoustics_1d_heterogen:[36,150,157],acoustics_1d_homogen:[88,111],acoustics_1d_pi:97,acoustics_2d:99,acoustics_2d_adjoint:5,acoustics_2d_radi:[141,157],acoustics_3d_heterogen:[36,150],acoustics_3d_vari:111,acquaint:103,acquir:77,across:[5,110,119,152,154],acsza1:30,acszb1:30,act:[87,154],acta:17,actanum2011:17,action:[13,14,84],activ:[24,32,34,38,54,99,108,142],actual:[6,27,30,32,53,58,59,67,70,77,87,92,104,108,134,142],adapt:[4,7,17,30,39,52,53,66,67,73,83,110,121,124,126,131,133,138,139,140,142,157],add:[0,11,12,13,16,17,27,28,30,44,47,51,54,55,57,58,63,66,67,68,70,76,83,88,89,93,94,96,104,114,117,119,120,121,124,132,143,148,152,154,158],add_colorbar:[30,154],add_colormap:[39,66,118,124],add_dimens:89,add_gaug:[89,93],add_label:44,add_param:[141,143],add_parent_doc:104,add_titl:77,add_true_solut:77,added:[3,12,16,18,20,22,24,28,34,47,53,55,58,59,60,64,67,77,89,93,106,108,110,113,114,116,117,118,119,120,121,122,123,124,125,130,135,139,140,142,148,151,154,158],addgaug:44,adding:[22,27,28,29,32,41,44,54,59,70,94,107,118,120],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],addition:[94,148],address:[51,54,119],adequ:48,adjac:[6,16,32,45,110,135,139],adjoint:[7,17,25,52,110,121,122],adjoint_flag:110,adjoint_modul:122,adjoint_outdir:5,adjointdata:[5,122,123],adjointsup_modul:122,adjust:[5,13,20,32,33,45,59,89,93,134,139,157],adjust_fgmax_1d:33,admiralti:133,adopt:[30,99],adv:17,advanc:[6,17,52,66,71,103,118,139,140,157],advantag:[12,76,92,105,111,133],advect:[17,77,91,94,131,132,143,157],advection2dannulustest:[36,150],advection_1d:97,advection_1d_example1:63,advection_1d_pi:97,advection_2d_annulu:[36,150],advection_2d_flagregion:38,advection_2d_inflow:117,advection_2d_swirl:157,advection_3d_swirl:[117,151],advertis:126,advis:[34,61,81],affect:[18,22,62,119,120,126,139,152,155],afosr:4,after:[0,1,3,5,6,12,13,19,23,27,28,29,32,33,35,36,39,44,48,54,55,57,59,60,62,63,66,67,68,72,77,84,85,86,88,93,99,101,106,110,111,113,117,118,132,135,139,140,141,143,148,157],afterax:[0,27,44,51,77],afterfram:[1,27,76],aftergrid:67,afteritem:[3,27],afterpatch:[3,27],again:[22,40,62,66,70,77,79,83,84,93,97,102,106,121,127,152,155],against:[104,111,118,150],agenc:[4,56,148,149],agency_pref:148,agre:[12,28,39,53,131,151,154,157],agreement:48,ahmadia:[4,17,81,91],aht:134,aid:84,aim:28,aks2203:4,albada:87,alg:141,alghamdi:[4,17,81,91],algorithm:[4,7,25,32,38,39,45,52,83,89,91,92,99,103,110,121,131,133,139,141,143,154],align:[32,39,51,59,66,124,126,142],all:[0,1,4,6,11,12,13,16,20,22,23,25,27,28,29,30,32,33,35,36,39,40,41,44,45,48,50,51,53,54,55,56,57,59,60,61,62,63,67,69,70,71,72,73,76,77,79,80,81,83,86,87,89,91,92,93,94,96,97,98,99,101,104,105,106,109,110,111,113,114,117,118,119,121,124,126,129,130,131,132,133,135,138,139,140,141,142,143,144,149,150,151,152,154,155,157],alloc:[20,99,117,126,140],allocat:117,allot:59,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],alon:[16,51],along:[6,14,16,24,27,30,32,39,44,51,54,57,68,70,106,110,117,130,133,135,142,148,156],alpha:[51,55,99],alphabet:81,alreadi:[0,1,6,12,13,18,28,29,41,55,56,58,59,60,66,79,80,94,98,100,103,105,114,122,137,154],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],alter:51,altern:[30,35,36,44,47,51,56,60,62,67,76,91,94,106,110,117,118,119],although:[30,51,63,67,95,96,98,110,122,128,154],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],amal:[4,17,81,91],amazon:25,amazonaw:13,amdq:[97,131],ami:25,among:124,amount:[44,48,54],amplitud:[5,119],amr:[4,7,8,16,18,20,23,25,27,28,32,34,38,44,45,52,59,67,72,73,76,81,89,118,120,121,122,124,126,135,138,139,141,143,151,157],amr_1d:122,amr_2d:[121,122],amr_:[3,7],amr_celledges_show:3,amr_contour_color:3,amr_contour_show:3,amr_data_show:118,amr_level:72,amr_level_max:141,amr_levels_max:[32,110,140,141],amr_modul:[71,110,117,123,124],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],amrdata:[5,22,32,110,124,126,140,141,142],amrflag:110,amrlib:117,amrnez:110,an11:54,anaconda:[51,100],anal:17,analog:[139,140],analysi:17,andi:4,angl:[16,30,47,70],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],anim:[12,16,18,42,51,117,124,125,144],animation_tool:[124,125],anisotrop:[6,22],anl:94,annot:[27,59],annual:24,anoth:[3,22,39,44,51,55,58,59,72,76,80,88,99,102,111,121,148,157],answer:24,anyth:[3,6,28,29,58,63,111,121],anywher:110,aoml:148,apach:13,apdq:[97,131],api:[47,121],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],appar:[30,32,71],appeal:51,appear:[0,1,3,5,8,13,18,23,32,44,45,51,54,59,62,65,77,93,98,101,119,126,142,144,152],append:[5,20,32,38,39,44,51,60,77,86,98,110,118,119,130,131,141],appl:17,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],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],appreci:81,approach:[5,7,13,28,29,38,44,54,57,69,76,84,91,94,96,104,110,117,119,120,122,131,132,138,142,157,160],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],approv:48,approxim:[6,16,25,33,48,51,70,131],april:[24,124,125,129],apt:[13,80],arbitrari:[32,59,99,113,133,142],arbitrarili:66,arc:134,arcgi:154,architectur:94,archiv:[12,21,36,51,55,111,144,150,154,156],arcminut:[70,152],arcsecond:[45,152],area:[15,22,45,99,108,119,135,136],arg:[89,98],argument:[0,1,2,3,27,30,45,47,50,51,53,77,83,84,88,89,92,96,98,99,101,104,111,121,131,133,138,139,140,148,154,157],argv:[141,143],aris:[61,81],arithmet:64,aron:[4,17,81,91],arora:87,arora_ro:87,around:[6,30,32,39,59,92,108,111,124,140,141,148,154,157],arrai:[0,3,6,15,20,22,27,30,32,33,38,44,45,47,49,53,59,77,83,84,86,87,89,91,92,93,96,97,98,99,101,103,104,105,113,114,115,119,121,124,126,131,132,133,136,139,140,141,142,143,148,152,154,157],arrang:154,arriv:[22,32,34,39,45,119,134,135],arrival_tol:32,articl:[4,17,91,144],artifici:[16,135],arxiv:52,asc:154,ascii:[18,44,53,67,83,86,93,98,119,130,139,141,143,152,158],ascii_output_format:68,ask:24,ask_us:154,aspect:[12,24,29,43,48,49,67,154],assert:[141,143],assess:[4,48,134],assign:[30,32,83,86,92,98],assist:[22,124],associ:[0,1,2,6,22,51,58,71,89,92,93,111],assum:[3,5,20,22,30,32,36,39,47,48,51,53,54,55,59,67,70,76,92,93,95,96,97,103,104,110,117,133,134,139,142,148,149,152,154,156,160],assumpt:[51,54],asteroid:4,astronom:134,atcf:[108,121,148,149],aterrel:4,atmospher:4,attach:[55,92,101],attempt:[5,8,11,20,33,35,36,62,92,98,104,111,113,127,148,154,155],attirbut:22,attr:[89,98],attribur:5,attribut:[5,7,22,30,38,44,66,70,76,78,79,83,86,89,92,94,96,98,99,110,113,118,122,130,138,139,140,142,148,154],attributeerror:77,aug:[17,122],aug_glob:97,augment:[66,132],august:[24,121,129],austin:4,author:[17,25,45,48,87,91,92,97,109],auto:[0,44,84],autom:[14,54,84,111],automat:[0,2,3,8,11,16,30,35,36,41,51,55,62,76,77,79,83,88,92,94,100,10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onstrain:110,constraint:[39,44,133,140,160],construc:59,construct:[22,30,32,53,83,89,104,148,149,152],construct_function_handl:104,constructor:101,consult:102,contact:[12,88,91,100],contain:[1,3,5,12,13,20,23,25,26,30,32,33,35,36,37,40,42,43,44,45,47,49,50,51,52,53,54,55,59,60,62,63,66,67,68,72,73,77,79,80,83,84,86,87,89,91,92,94,96,97,98,99,101,103,104,105,106,110,111,113,114,121,122,129,131,133,138,139,142,144,148,152,154,155,157],containing_rect:30,contains:29,containt:130,contamin:139,contan:51,content:[4,6,23,51,55,73,84,91,142,152,157,158],context:[27,51,157],contigu:[72,92,101,133],continent:[7,66],contingu:22,continu:[13,22,28,30,49,54,81,105,131,139,160],contour:[3,30,44,51,53,67,105,138,154],contour_color:3,contour_kwarg:[3,154],contour_level:[3,154],contour_max:3,contour_min:3,contour_nlevel:3,contour_show:3,contourf:[51,76],contract:[4,61,81],contrast:[53,133],contribut:[4,24,25,57,81,84,91,96,99,108,111],contributor:[4,24,61,91],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],conveni:[1,27,32,35,36,39,44,51,79,86,88,91,93,95,103,157,160],convens:152,convent:[3,22,30,46,53,70,97,152],converg:[66,76],convers:[19,25,84,92,110,133,152,156],convert43to46:19,convert46to50:20,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],convert_fort_double_to_float:104,convert_readm:11,convert_to_standard_unit:30,convex:[7,32],coodin:30,coord:[47,51],coordin:[4,23,30,32,47,72,76,83,89,93,94,103,110,133,142,154],coordinate_specif:[30,70],coordinate_system:[15,60,136,142],coorind:154,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],copyq1:63,copyright:[61,81],core:[4,12,73,111,121],corioli:[48,142,146,147],coriolis_forc:[48,142],corner:[3,30,32,53,70,72,89,133,139,141,143,152,154],correct:[20,28,41,54,55,63,64,67,77,83,89,94,98,104,113,114,118,135,139,141,142,143],correctli:[28,32,84,90,117,142],correspond:[3,6,12,23,25,27,30,44,47,48,53,54,55,59,67,70,77,83,87,89,92,93,96,98,101,110,111,131,133,134,139,140,141,142,143,148,152,156,157],correspondingli:32,cos:[39,47,49,66,83,96],cosin:83,cost:[13,99],costli:132,could:[5,12,13,27,32,35,36,39,44,53,60,66,70,71,77,79,83,89,93,101,102,106,117,126,133,135,140,141,142,143,154,157],council:4,count:83,count_from_zero:83,counter:[104,154],counterclockwis:70,coupl:[119,160],courant:[4,6,110,120,139,140,141,143],cours:[13,26,32,44,46,60,70,94,95,103,105,108,142,152],cover:[6,7,27,28,30,32,38,39,51,59,66,70,110,114,119,135,141,152],coverag:[91,111],covert:11,covid:24,cparam:[83,101],cpp:52,cpu:[13,52,118,121,123,151],crash:[118,139,140],creat:[0,1,2,3,5,6,7,18,19,24,25,28,30,32,33,35,36,38,40,42,44,45,46,50,52,54,58,59,62,70,72,76,77,79,84,85,88,89,91,92,95,98,101,102,103,104,110,111,113,117,118,119,121,122,123,126,133,138,139,140,141,144,145,148,154,156,157,158],create_dtopo_xi:[30,70],create_dtopographi:[30,70],create_topo_func:154,creation:[39,77,91,113],criteria:[6,7,22,25,32,66,101],criterion:[32,110,141],critic:[51,93,131],crop:[53,154],cross:28,crucial:[51,152],csdm:24,cse:24,csh:94,csv:[30,70,121],csvfault:[30,70],ctrl:[29,77],cube:67,cultu:66,cumul:121,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],current_data:[0,3,25,44,76,77],curv:[3,44,76,133],custom:[0,13,16,20,22,25,63,67,73,76,84,90,96,135],custom_bc:96,customari:93,cut:140,cutoff:[6,141],cvf:55,cvs:51,cxx:94,cyber:17,cygwin:86,cython:94,dai:[6,13,51,142],dalcin:81,dam:[51,135],dam_break:132,damag:[6,61,81],damiansra:96,dark:133,darker:51,darryl:17,dart:45,dash:[3,94],daspect:67,dat:[30,148],data:[0,1,3,5,25,27,30,32,35,36,38,39,40,42,44,45,46,47,53,54,59,60,61,62,66,67,76,77,78,79,81,83,86,89,92,93,95,97,98,99,101,104,107,108,109,110,113,115,116,118,119,121,122,123,124,126,131,133,134,140,141,143,148,151,153,158],data_break:[39,66,154],data_fil:33,data_limit:[39,66],data_storm:148,data_typ:104,databas:[13,30,70,104,108,121,152],datadir:118,dataset:[152,154,156],date:[5,28,40,47,51,54,55,62,77,148,155],date_tim:47,datetiem:148,datetim:[47,148],datum:[47,48,97,134,142,156],dave:30,davi:[4,17],david:[4,17,81,91,99],davis2018:[5,17],davisleveque2016:[5,17],davisleveque2018:[5,17],dawson:17,daylight:59,dcp:59,deal:[30,48,76,93,94,101,148,154],dealt:[32,39],debug:[7,18,41,62,72,76,93,101,106,111,139,141],debugg:77,decemb:[18,128,129],decid:[83,99],decim:[47,59],decimc:148,decis:51,declar:[20,22,101,126,157],decompos:[72,131,160],decomposit:139,decor:104,decoupl:54,decreas:[44,135,152],deduc:152,deep:[5,66],deeper:[133,142,152],deepli:103,def:[0,1,3,44,51,66,77,83,89,93,96,99,141,143,148],default_tfluct:99,defenc:4,defens:4,defin:[0,1,3,5,6,7,22,27,30,32,38,39,41,51,59,60,62,66,67,70,77,79,83,86,89,95,96,98,99,101,103,104,110,113,121,126,131,141,143,148,152,154,155,157,160],definit:[30,67,83,110,116],deform:[17,30,33,45,70,156],deg2dm:59,degener:133,degre:[30,47,51,59,70],delet:[20,28,58],delimit:30,delin:142,delta:[87,89,96,99,131,154,157,160],delta_h:97,delta_hu:97,delta_i:154,delta_limit:154,delta_x:154,dem:[32,45,53,59,121,152,154,156],demo:94,demonstr:[12,25,88,94],denot:[6,22,44,53,131,154],dens:149,densiti:[86,93,97,101,103,140,141,157],depart:[4,148],depdend:87,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],deprec:[7,18,30,34,54,58,117,121,142,152,154],depress:32,depth:[4,5,16,17,22,30,32,33,39,44,45,48,64,70,76,78,132,134,135,142,152],deriv:[61,70,81,86,90,91,101,111],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],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],design:[4,27,28,51,81,83,103,133,156],desir:[0,1,2,3,6,7,16,22,25,26,30,32,33,39,42,44,55,58,59,60,66,70,75,76,77,79,83,84,86,93,98,99,107,119,121,124,135,137,139,140,141,143,148,152,154,155],desktop:94,destin:51,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],detect:[51,62,92,100,104,155],deterimin:[142,154],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],determine_topo_typ:154,dev:[18,24,28,54,55,94,121,122,127,128,129],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],dict:[30,86,92,97,98,101,148,154],dictionari:[0,1,2,3,30,44,60,77,83,86,92,97,98,101,103,106,148,152,154],dicuss:30,did:[121,126,133,152],didn:116,died:113,diff:[18,50,55,113,114,115,116,117,118,119,120,121,122,123,124,125,126,127,128],differ:[1,3,6,7,12,15,16,22,28,30,31,35,36,39,44,46,48,50,53,57,59,62,64,66,67,70,71,76,79,83,84,86,88,89,91,92,97,99,104,105,106,107,110,111,117,118,119,120,121,124,126,127,131,134,135,136,137,139,140,141,142,146,147,152,154,155,156,157,160],differenti:[17,30],difficult:44,difficulti:[100,102,106],diffus:96,digit:[32,39,53,59,60,77,119,120,121,154],dike:[39,66,124],dim:[96,97,99],dimens:[5,6,7,16,20,22,25,44,47,53,59,67,83,84,86,92,94,96,97,98,101,103,110,121,124,131,139,140,141,143,154,157],dimension:[3,7,8,17,22,25,30,32,35,36,44,48,52,67,89,96,117,118,120,123,141,142,143,154,157],dimensional_split:[89,117,139,141,143],dip:[30,70],dir:[55,94,158],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],directli:[8,18,19,23,32,48,57,67,70,77,79,83,84,87,91,101,104,106,121,154,158],directori:[1,3,5,6,11,12,13,14,15,16,19,20,22,23,25,28,29,31,32,35,36,37,40,42,43,44,45,47,50,51,54,55,57,59,63,67,68,71,75,76,79,86,88,89,91,92,93,96,103,106,107,108,110,111,113,118,119,120,121,123,130,131,135,136,137,138,139,140,144,146,147,150,151,152,155,157,158],directorti:108,disabl:[49,100,142],disable_petsc:104,discard:[32,99],disclaim:[61,81],discontinu:[4,99,160],discov:64,discoveri:111,discret:99,discrib:4,discuss:[5,24,28,30,48,53,66,70,92,103,105,106,110,119,121,131,142,160],disk:[13,44,83,92,93,111,119],dispers:48,displac:[30,45,48,70,135,142,156],displai:[1,13,35,36,40,44,51,59,77,93,111,142],display_format:[44,60],display_landfall_tim:142,dist:55,dist_latlong2met:47,dist_meters2latlong:47,distanc:[30,47,51,70,142,152,154],distant:[108,110],distinct:[44,119],distinguish:39,distribut:[4,12,13,29,30,54,61,70,73,81,99,105,124],disturb:51,distutil:84,divid:[110,139],divis:[4,51],dlgeorg:4,dms2decim:47,dnetcdf:[41,152],doc:[18,23,24,28,30,51,55,87,104,105,106,120,121,122,123,124,125,126,127,128,145],docker:[18,25,55,56,120,121,122,123,124,125,126,127,128,159],docker_disk:29,docker_imag:55,dockerfile_v5:29,dockerhub:[29,55],dockeril:29,docstr:[84,88,111],doctest:89,documen:54,document:[0,1,2,3,6,7,18,21,22,23,24,25,28,29,32,45,48,53,58,61,70,76,77,78,79,81,87,89,92,93,94,95,99,101,104,106,114,127,128,129,138,141,158,159],dodsc:[39,66],doe:[4,5,11,16,18,20,27,28,39,40,48,51,53,54,58,67,73,77,80,89,98,101,104,110,111,114,119,123,126,130,131,132,135,148,154,155,157],doesn:[28,32,58,63,101],doflag:110,doi:[4,17,52,55,57,124,125,126,127,128,129],doing:[6,11,18,19,25,28,33,39,44,48,50,52,54,58,63,77,79,89,91,110,111,118,119,120,121],domain:[5,6,16,17,18,33,38,39,48,51,54,59,70,72,82,83,84,86,94,96,98,101,108,110,140,141,143,152],don:[13,27,28,54,55,77,93,94,100,111,141,155],done:[1,6,7,8,11,13,16,19,20,28,35,36,39,44,46,51,53,54,56,59,62,66,67,70,76,77,79,83,87,88,91,104,110,114,118,119,123,130,131,133,138,140,142,151,154,155,156],donna:[4,17],donnabois:4,donor:[139,141,143],dontflag:110,dot:[40,44,51,58,59,62,155],doubl:[67,84,89,104,131,140],down:[13,30,93,118,148,152,154],download:[12,13,28,29,30,36,37,39,45,51,55,57,58,68,88,94,100,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this software","Guiding AMR with adjoint flagging","Adaptive mesh refinement (AMR) algorithms","AMRClaw Description and Detailed Contents","AMRClaw for 1d problems","Doxygen documentation of AMRClaw","AMRClaw Flowcharts","Application documentation","Clawpack Applications repository","Amazon Web Services EC2 Clawpack AMI","b4run function","b4step default routines","Boundary conditions","Bibliography","Changes to master since v5.8.2","Converting from Clawpack 4.3 to 4.6","Converting from Clawpack 4.6 to 5.0","Clawpack 4.x links","Changes in Clawpack 5.0","Clawpack components","Clawpack Community","Full Table of Contents","Contributing examples and applications","current_data","Developers\u2019 Guide","Docker for Clawpack","dtopotools module for moving topography","Fortran 77 vs. Fortran 90 files","Fixed grid monitoring","fgmax_tools module for working with topography data","Fixed grid output","Running an example","Testing your Fortran installation and running an example","Testing a 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a new application directory","Earthquake sources: Fault slip and the Okada model","Using OpenMP","Output data formats","Which Clawpack solver should I use?","Clawpack Community Photos","Plotting examples","Plotting with Visclaw","Plotting hints and FAQ","Plotting routines for GeoClaw","Plotting options in Python","Installation Prerequisites","About PyClaw","PyClaw Basics","Understanding Pyclaw Classes","Porting a problem from Clawpack 4.6.x to PyClaw","Running PyClaw in the cloud","Pyclaw Controller Class","Pyclaw Limiters","Working with PyClaw\u2019s built-in examples","PyClaw Geometry","Going Further","PyClaw","Pyclaw Input/Output Package","PyClaw output","Running in parallel","Plotting PyClaw results","Setting up your own problem","Riemann Solver Package","PyClaw Solutions","Using PyClaw\u2019s solvers: Classic and SharpClaw","Installing PyClaw","PyClaw State","Troubleshooting","PyClaw tutorial: Solve the acoustics equations","Pyclaw Utility Module","Python Hints","Python path","qinit default routines","Quick start guide for storm surge modeling","Quick start guide for tsunami modeling","AMR refinement criteria","Regression testing","v5.0.0 release notes","v5.1.0 release notes","v5.2.0 release notes","v5.2.1 release notes","v5.2.2 release notes","v5.3.0 release notes","v5.3.1 release notes","v5.4.0 release notes","v5.4.1 release notes","v5.5.0 release notes","v5.6.0 release notes","v5.6.1 release notes","v5.7.0 release notes","v5.7.1 release notes","v5.8.0 release notes","v5.8.1 release notes","v5.8.2 release notes","Releases of Clawpack and release notes","Checkpointing and restarting","Riemann solvers","Shallow water Riemann solvers in Clawpack","Ruled Rectangles","Setting sea_level","Set Eta Init \u2013 spatially varying initial surface elevation","setaux default routines","Set environment variables","Using setplot.py to specify the desired plots","Specifying classic run-time parameters in setrun.py","Specifying AMRClaw run-time parameters in 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