From 40963af8dd2f6e596b958ba7315d1f1ff42446c1 Mon Sep 17 00:00:00 2001 From: Randy LeVeque Date: Sun, 10 Dec 2023 11:05:05 -0800 Subject: [PATCH] add bouss2d description and update bouss1d --- _sources/release_5_9_2.rst.txt | 13 + dev/.buildinfo | 2 +- dev/.doctrees/ClawPlotAxes.doctree | Bin 56222 -> 56222 bytes dev/.doctrees/ClawPlotData.doctree | Bin 44301 -> 44301 bytes dev/.doctrees/ClawPlotFigure.doctree | Bin 18963 -> 18963 bytes dev/.doctrees/ClawPlotItem.doctree | Bin 68310 -> 73099 bytes dev/.doctrees/about.doctree | Bin 46961 -> 46961 bytes dev/.doctrees/adjoint.doctree | Bin 33270 -> 33270 bytes dev/.doctrees/amr_algorithm.doctree | Bin 38918 -> 38918 bytes dev/.doctrees/amrclaw.doctree | Bin 10889 -> 10889 bytes dev/.doctrees/amrclaw1d.doctree | Bin 8036 -> 8036 bytes dev/.doctrees/amrclaw_doxygen.doctree | Bin 5673 -> 5673 bytes dev/.doctrees/amrclaw_flowcharts.doctree | Bin 6142 -> 6142 bytes .../application_documentation.doctree | Bin 8859 -> 8859 bytes 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| Bin 27603 -> 27603 bytes v5.9.x/.doctrees/tsunamidata.doctree | Bin 21974 -> 21974 bytes v5.9.x/.doctrees/user_routines.doctree | Bin 49929 -> 49929 bytes v5.9.x/.doctrees/visit_plotting.doctree | Bin 8187 -> 8187 bytes v5.9.x/.doctrees/vm.doctree | Bin 4938 -> 4938 bytes v5.9.x/.doctrees/wp_algorithms.doctree | Bin 27872 -> 27872 bytes v5.9.x/_sources/release_5_9_2.rst.txt | 13 + v5.9.x/dtopotools_module.html | 119 ++++++++ v5.9.x/fgmax_tools_module.html | 21 +- v5.9.x/genindex.html | 56 +++- v5.9.x/geoclaw_util_module.html | 2 +- v5.9.x/kmltools_module.html | 10 +- v5.9.x/objects.inv | Bin 12543 -> 12605 bytes v5.9.x/release_5_9_2.html | 11 + v5.9.x/searchindex.js | 2 +- v5.9.x/storm_module.html | 4 +- v5.9.x/topotools_module.html | 2 +- 725 files changed, 1699 insertions(+), 183 deletions(-) diff --git a/_sources/release_5_9_2.rst.txt b/_sources/release_5_9_2.rst.txt index 17fb1199e..dc70ee6b5 100644 --- a/_sources/release_5_9_2.rst.txt +++ b/_sources/release_5_9_2.rst.txt @@ -85,6 +85,19 @@ See `amrclaw diffs Changes to geoclaw ------------------ +The `setrun` parameter `rundata.fixed_grid_data` was removed from +`geoclaw/src/python/geoclaw/data.py` and is no longer available in `setrun`. +This old way of specifying fixed grid output has been deprecated for some +time in favor of `fgmax` and `fgout` grids, but some old `setrun.py` files +may still set :: + + fixedgrids = rundata.fixed_grid_data.fixedgrids + +and throw an error that can be fixed by deleting this line. +If items are appended to this list in your `setrun`, then these should be +converted to `fgmax` and/or `fgout` grids. + + The `setrun` parameter `runclaw.geo_data.sphere_source` was added to allow experimenting with the spherical source term that is currently missing from the default GeoClaw code, see :ref:`sphere_source`, which now includes a diff --git a/dev/.buildinfo b/dev/.buildinfo index 81751173c..889fc02cf 100644 --- a/dev/.buildinfo +++ b/dev/.buildinfo @@ -1,4 +1,4 @@ # Sphinx build 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If True, a colorbar is added to the plot.

+ +
+

Special attributes for plot_type = ‘2d_hillshade’

+
+
+hillshade_vertical_exaggeration : float
+

Vertical exaggeration for hillshade calulation. Default of 1.

+
+ +
+
+hillshade_azimuth_degree : float
+

Light source azimuth angle for hillshade calculation. Default +is 315 (light coming from the northwest). Valid values are +0-360 degrees clockwise from North. The default value is recommended +for proper interpretation by most people.

+
+ +
+
+hillshade_altitude_degree : float
+

Light source altitude angle from the horizon for hillshade +calculation. Default is 45. Valid values are 0-90.

+
+ +
+
+hillshade_latlon : bool
+

If True, correct the ratio between x and y units and z units +by 1/111200 to reflect that x and y units are degrees. +Default is False.

+
+
@@ -558,6 +593,7 @@

Table of Contents

  • Special attributes for plot_type = ‘2d_contour’
  • Special attributes for plot_type = ‘2d_pcolor’
  • Special attributes for plot_type = ‘2d_imshow’
    • +
  • Special attributes for plot_type = ‘2d_hillshade’
  • AMR Attributes
    • diff --git a/dev/_sources/ClawPlotItem.rst.txt b/dev/_sources/ClawPlotItem.rst.txt index 054f70138..a7b082073 100644 --- a/dev/_sources/ClawPlotItem.rst.txt +++ b/dev/_sources/ClawPlotItem.rst.txt @@ -34,11 +34,12 @@ The following attributes can be set by the user: symmetric, * '1d_fill_between' : 1d filled plot between two variable specified by the attributes *plot_var* and *fill_var2*. - + * '2d_imshow' : two dimentional raster plot * '2d_contour' : two dimensional contour plot, * '2d_pcolor' : two dimensional pcolor plot, * '2d_schlieren' : two dimensional Schlieren plot, * '2d_patch' : two dimensional plot of only the cell and/or patch edges, no data + * '2d_hillshade' : two dimensional hillshade plot. .. attribute:: outdir : str or None @@ -306,7 +307,30 @@ Special attributes for plot_type = '2d_imshow' If True, a colorbar is added to the plot. - +Special attributes for plot_type = '2d_hillshade' +------------------------------------------------- + +.. attribute:: hillshade_vertical_exaggeration : float + + Vertical exaggeration for hillshade calulation. Default of 1. + +.. attribute:: hillshade_azimuth_degree : float + + Light source azimuth angle for hillshade calculation. Default + is 315 (light coming from the northwest). Valid values are + 0-360 degrees clockwise from North. The default value is recommended + for proper interpretation by most people. + +.. attribute:: hillshade_altitude_degree : float + + Light source altitude angle from the horizon for hillshade + calculation. Default is 45. Valid values are 0-90. + +.. attribute:: hillshade_latlon : bool + + If True, correct the ratio between x and y units and z units + by 1/111200 to reflect that x and y units are degrees. + Default is False. .. _amr_attributes: diff --git a/dev/_sources/bouss1d.rst.txt b/dev/_sources/bouss1d.rst.txt index c9b707716..674bfd15c 100644 --- a/dev/_sources/bouss1d.rst.txt +++ b/dev/_sources/bouss1d.rst.txt @@ -20,36 +20,12 @@ equations contain higher order derivative terms and so they are no longer hyperbolic. The equations implemented include third-order derivatives with respect to `txx`. However, the implementations proceed by alternating steps with the shallow water equations and the solution of elliptic -equations that involve only second-order derivatives in `xx`. +equations that involve second-order derivatives in `xx` but no time derivatives. +In one space dimension, solving this equation requires solving a tridiagonal +linear system of equations in each time step. -.. _bouss1d_sgn: - -The SGN equations ------------------ - -The recommended set of equations to use are a modification of the -Serre-Green-Naghdi (SGN) equations with the addition of a parameter `alpha` -suggested by Bonneton et al. Both the 1d and 2d versions of these equations -and their GeoClaw implementation are discussed in [BergerLeVeque2023]_. -Setting `alpha = 1` gives the original SGN equations, but `alpha = 1.153` is -recommended since it gives a better approximation to the linear dispersion -relation of the Airy solution to the full 3d problem. - -.. _bouss1d_ms: - -The Madsen-Sorensen (MS) equations ----------------------------------- - -These equations also give a good approximation to the linear dispersion -relation of the Airy solution when the parameter `beta = 1/15` is used. -These equations were used in an earlier GeoClaw implementation known as -BoussClaw. These have been reimplemented in GeoClaw more recently, -including a 2d implementation that allows the use of AMR. However, -extensive tests with these equations have revealed some stability issues, -particularly in the case of AMR, which have also been reported by others. -The 1d MS implementation is included in GeoClaw but it is generally not -recommended except for those interested in comparing different formulations -and perhaps further investigating the stability issues. +See :ref:`bouss2d` and [BergerLeVeque2023]_ for more discussion +of the Boussinesq-type equations SGN and MS that are implemented in GeoClaw. .. _bouss1d_usage: @@ -100,21 +76,39 @@ setrun.py ^^^^^^^^^ -Some additional parameters must be added to `setrun.py`, typically set as -follows:: +To use the Boussinesq solvers, somewhere in the `setrun` function you +must include :: from clawpack.geoclaw.data import BoussData1D rundata.add_data(BoussData1D(),'bouss_data') - rundata.bouss_data.bouss = True - rundata.bouss_data.equations = 2 # for SGN (recommended, or 1 for MS) + +and then the following parameters can be adjusted (the values shown here +are the default values that will be used if you do not specify a value +directly):: + + rundata.bouss_data.equations = 2 # 0=SWE, 1=MS, 2=SGN rundata.bouss_data.deepBouss = 5. # depth (meters) to switch to SWE The `rundata.bouss_data` object has attributes: -- `bouss_equations` (int): Which equation set to use - (0 for SWE, 1 for MS, 2 for SGN). -- `bouss_min_depth` (float): water depth at which to switch from Boussinesq - to SWE. +- `bouss_equations`: The system of equations being solved. Setting this to 2 + gives the recommended SGN equations. + + The value `alpha = 1.153` recommended for SGN is + hardwired into `$CLAW/geoclaw/src/2d/bouss/bouss_module.f90`. To change + this value, you must modify this module. (See :ref:`makefiles_library` + for tips on modifying a library routine.) Similarly, if you set + `bouss_equations = 1` for the Madsen-Sorensen equations, the recommended + parameter value `B = 1/15` is set in `bouss_module.f90`. + + Setting `bouss_equations = 0` causes the code to revert to the shallow + water equations, useful for comparing dispersive and nondispersive results. + +- `bouss_min_depth`: The criterion used for switching from Boussinesq to SWE + in shallow water and onshore. If the original water depth `h` at time `t0` + is less than `bouss_min_depth` in a cell or any of its nearest neighbors, + then this cell is omitted from set of unknowns in the elliptic equation + solve and no dispersive correction terms are calculated for this cell. The latter parameter is needed because in very shallow water, and for modeling onshore inundation, the Boussinesq equations are not suitable. @@ -123,4 +117,4 @@ solving SWE near shore. Many different approaches have been used in the literature. So far we have only implemented the simplest common approach, which is to revert to SWE in any grid cell where the initial water depth (at the initial time) is less than `bouss_min_depth`. - +See :ref:`bouss2d_switch` for more discussion. diff --git a/dev/_sources/bouss2d.rst.txt b/dev/_sources/bouss2d.rst.txt index a7c049669..bce624ff9 100644 --- a/dev/_sources/bouss2d.rst.txt +++ b/dev/_sources/bouss2d.rst.txt @@ -4,7 +4,269 @@ Boussinesq solvers in Two Space Dimensions ********************************************* -To appear in a future release. +.. warning :: Not yet incorporated in clawpack master branch or releases. -See [BergerLeVeque2023]_. +As of Version 5.10.0 (?), GeoClaw supports two different sets of +dispersive Boussinesq-type equations that have been used in the literature +to better model wave propagation in situations where the wavelength is not +sufficiently long relative to the fluid depth for the shallow water +equation approximation to be accurate. The one-dimensional version of these +capabilities are described in :ref:`bouss1d`. +These Boussinesq equations are still depth-averaged equations, with the same +conserved quantities (fluid depth `h` and momenta `hu` and `hv` in 2D) as the +shallow water equations (SWE), but the +equations contain higher order derivative terms and so they are no longer +hyperbolic and require implicit methods for efficient solution with a +physically reasonable time step. This adds considerable complexity to the +code since adaptive mesh refinement (AMR) is still supported. + +The equations implemented include third-order derivatives +with respect to `txx`, `tyy`, and `txy`. +However, the implementations proceed by alternating +steps with the shallow water equations (SWE) and the solution of elliptic +equations that involve second order derivatives in `x` and `y` but no +time derivatives. + +In two space dimensions, solving this +elliptic equation requires solving a sparse +linear system of equations in each time step, at each refinement level when +AMR is being used. The structure of this system is complicated by the need +to include all grid cells from all patches at the same refinement level +in the linear system that is solved. Boundary conditions at the edge of +patches must be interpolated from coarser level solutions, in much the same +way that the boundaary conditions for `h`, `hu`, and `hv` are interpolated +when solving the SWE with AMR. Because the solution of the elliptic system +yields correction terms to the momenta (denoted here by `huc` and `hvc`), +when solving the Boussinesq equations the array `q` of state variables +is expanded to include these correction terms as well, and so the number of +equations and variables is 5 instead of 3. This change must be made in +`setrun.py`, along with other changes discussed below, in order to use +the Boussinesq solvers. + +Currently the only linear system solver supported for solving the large +sparse elliptic systems is `PETSc `_, +which can use MPI to solve these these systems. Using the Boussinesq solvers +requires these prerequesites, as discussed further in :ref:`bouss2d_prereqs`. + +See [BergerLeVeque2023]_ for more discussion of the equations solved and the +AMR strategy used. + +.. _bouss2d_eqns: + +Boussinesq-type dispersive equations +------------------------------------ + +The equations we solve are not the original depth-averaged dispersive +equations derived by Boussinesq, but for simplicity +in this documentation and the code, we refer to the +equations simply as "Boussinesq equations", following common practice. +Many variants of these equations have been derived and fine-tuned to +better match the dispersion relation of the linearized +`Airy wave theory `__ +and to incorporate variable bottom topography. + +Two variants are currently implement in GeoClaw, described below. + +.. _bouss2d_sgn: + +The SGN equations +----------------- + +The recommended set of equations to use are a modification of the +Serre-Green-Naghdi (SGN) equations with the addition of a parameter `alpha` +suggested by Bonneton et al. Both the 1D and 2D versions of these equations +and their GeoClaw implementation are discussed in [BergerLeVeque2023]_. +Setting `alpha = 1` gives the original SGN equations, but `alpha = 1.153` is +recommended since it gives a better approximation to the linear dispersion +relation of the Airy solution to the full 3d problem. + +.. _bouss2d_ms: + +The Madsen-Sorensen (MS) equations +---------------------------------- + +These equations also give a good approximation to the linear dispersion +relation of the Airy solution when the parameter `beta = 1/15` is used. +These equations were used in an earlier GeoClaw implementation known as +BoussClaw. *[Todo: add citations]* +These have been reimplemented in GeoClaw more recently, +including a 2d implementation that allows the use of AMR. However, +extensive tests with these equations have revealed some stability issues, +particularly in the case of AMR, which have also been reported by others. +The 1D MS implementation is included in GeoClaw but it is generally not +recommended except for those interested in comparing different formulations +and perhaps further investigating the stability issues. + +.. _bouss2d_usage: + +Using the 2d Boussinesq code +---------------------------- + +Provided the :ref:`bouss2d_prereqs` have been installed, switching from the +SWE to a Boussinesq solver in GeoClaw requires only minor changes to +`setrun.py` and the `Makefile`. + +See the files in `$CLAW/geoclaw/examples/bouss/radial_flat` for an example. + + +.. _bouss2d_setrun: + +setrun.py +^^^^^^^^^ + +As mentioned above, it is necessary to set:: + + clawdata.num_eqn = 5 + +instead of the usual value 3 used for SWE, since correction terms for the +momenta are also stored in the `q` arrays to facilitate interpolation to +ghost cells of finer level patches each time step. + +It is also necessary to set some parameters that are specific to the +Boussinesq solvers. Somewhere in the `setrun` function you must include :: + + from clawpack.geoclaw.data import BoussData + rundata.add_data(BoussData(),'bouss_data') + +and then the following parameters can be adjusted (the values shown here +are the default values that will be used if you do not specify a value +directly):: + + rundata.bouss_data.bouss_equations = 2 # 0=SWE, 1=MS, 2=SGN + rundata.bouss_data.bouss_min_level = 1 # coarsest level to apply bouss + rundata.bouss_data.bouss_max_level = 10 # finest level to apply bouss + rundata.bouss_data.bouss_min_depth = 10. # depth (meters) to switch to SWE + rundata.bouss_data.bouss_solver = 3 # 1=GMRES, 2=Pardiso, 3=PETSc + rundata.bouss_data.bouss_tstart = 0. # time to switch from SWE + +These parameters control: + +- `bouss_equations`: The system of equations being solved. Setting this to 2 + gives the recommended SGN equations. + + The value `alpha = 1.153` recommended for SGN is + hardwired into `$CLAW/geoclaw/src/2d/bouss/bouss_module.f90`. To change + this value, you must modify this module. (See :ref:`makefiles_library` + for tips on modifying a library routine.) Similarly, if you set + `bouss_equations = 1` for the Madsen-Sorensen equations, the recommended + parameter value `B = 1/15` is set in `bouss_module.f90`. + + Setting `bouss_equations = 0` causes the code to revert to the shallow + water equations, useful for comparing dispersive and nondispersive results. + +- `bouss_min_level`: The minimum AMR level on which Boussinesq correction + terms should be applied. In some cases it may be desirable to use the SWE + on the coarsest grids in the ocean while Boussinesq corrections are only + applied on fine levels near shore, for example. + +- `bouss_max_level`: The finest AMR level on which Boussinesq correction + terms should be applied. In some cases it may be desirable to use the SWE + only on coarser grids if the finest level grid only exists in very shallow + regions or onshore, where the the equations switch to SWE for inundation + modeling. Since much of the computational work is often on the finest level, + avoiding the Boussinesq terms altogether on these levels may be advantageous + in some situations. + +- `bouss_min_depth`: The criterion used for switching from Boussinesq to SWE + in shallow water and onshore. If the original water depth `h` at time `t0` + is less than `bouss_min_depth` in a cell or any of its nearest neighbors, + then this cell is omitted from set of unknowns in the elliptic equation + solve and no dispersive correction terms are calculated for this cell. + This is discussed further below in :ref:`bouss2d_switch`. + +- `bouss_solver`: What linear system solver to use. Currently only the value + 3 for `PETSc`_ is recognized. + +- `bouss_tstart`: The time `t` at which to start applying Boussinesq terms. + Normally you will want this to be less than or equal to `t0`, the starting + time of the calculation (which is usually but not always 0). However, + there are some cases in which the initial data results in extreme + motion in the first few time steps and it is necessary to get things going + with the SWE. For most applications this is not necessary and you need + only change this parameter if you have set `t0 < 0`. + +.. _bouss2d_makefile: + +Makefile +^^^^^^^^ + +You can copy the `Makefile` from +`$CLAW/geoclaw/examples/bouss/radial_flat/Makefile` and make any adjustments +needed. + +This `Makefile` reads in the standard Boussinesq solver file +`$CLAW/geoclaw/src/2d/bouss/Makefile.bouss`, which lists the Fortran modules +and source code files that are used by default from the library +`$CLAW/geoclaw/src/2d/bouss`, or from `$CLAW/amrclaw/src/2d` or +`$CLAW/geoclaw/src/2d/shallow` in the case of files that did not need to +be modified for the Boussinesq code. + +Two `Makefile` variables `PETSC_DIR` and `PETSC_ARCH` must be set (perhaps as +environment variables in the shell from which `make` is invoked). These are +described further below in :ref:`bouss2d_prereqs`. + +The `Makefile` should also include a line of the form:: + + PETSC_OPTIONS=-options_file $(CLAW)/geoclaw/examples/bouss/petscMPIoptions + +with a pointer to the file that sets various `PETSc` options. The file +`$CLAW/geoclaw/examples/bouss/petscMPIoptions` gives the options used in +the examples, which may be adequate for other problems too. +*[Todo: more description of options?]* + +In addition to a line of the form :: + + EXE = $(PWD)/xgeoclaw + +that specifies the name and location of the executable to be generated, the +`Makefile` should also contain a line of the form:: + + RUNEXE="${PETSC_DIR}/${PETSC_ARCH}/bin/mpiexec -n 6" + +This is the command that should be used in order to run the executable. +In other words, if you set `PETSC_DIR` and `PETSC_ARCH` as environment +variables, and the executable is named `xgeoclaw` as usual, then the command :: + + $PETSC_DIR/$PETSC_ARCH/bin/mpiexec -n 6 xgeoclaw + +given in the shell should run the executable (invoking MPI with 6 processes in +this example). If this does not work then one of the environment variables +may be set incorrectly to find the `mpiexec` command. + + +.. _bouss2d_prereqs: + +Prerequisites for the 2d Boussinesq code +---------------------------------------- + +Currently the only linear solver supported is `PETSc`, so this must be +installed, see ``__ for instructions +and also note the `PETSc prerequisites +`__. +Note that MPI, LAPACK, and the BLAS are required and will be installed as +part of installing PETSc. If you already have some of the prerequisites +installed, be sure to read `Configuring PETSc +`__ +before installing. + + +*[Todo: How to set `$PETSC_DIR` And `$PETSC_ARCH`]* + +See also the PETSc documentation page +`Environmental Variables $PETSC_DIR And $PETSC_ARCH `__ + +.. _bouss2d_switch: + +Wave breaking and switching to SWE +---------------------------------- + +The `bouss_min_depth` parameter is needed because in very shallow water, and for +modeling onshore inundation, the Boussinesq equations are not suitable. +So some criterion is needed to drop these correction terms and revert to +solving SWE near shore. Many different approaches have been used in the +literature. So far we have only implemented the simplest common approach, +which is to revert to SWE in any grid cell where the initial water depth (at +the initial time) is less than `bouss_min_depth`. + +*[Todo: Add more discussion.]* diff --git a/dev/_sources/release_5_9_2.rst.txt b/dev/_sources/release_5_9_2.rst.txt index 17fb1199e..dc70ee6b5 100644 --- a/dev/_sources/release_5_9_2.rst.txt +++ b/dev/_sources/release_5_9_2.rst.txt @@ -85,6 +85,19 @@ See `amrclaw diffs Changes to geoclaw ------------------ +The `setrun` parameter `rundata.fixed_grid_data` was removed from +`geoclaw/src/python/geoclaw/data.py` and is no longer available in `setrun`. +This old way of specifying fixed grid output has been deprecated for some +time in favor of `fgmax` and `fgout` grids, but some old `setrun.py` files +may still set :: + + fixedgrids = rundata.fixed_grid_data.fixedgrids + +and throw an error that can be fixed by deleting this line. +If items are appended to this list in your `setrun`, then these should be +converted to `fgmax` and/or `fgout` grids. + + The `setrun` parameter `runclaw.geo_data.sphere_source` was added to allow experimenting with the spherical source term that is currently missing from the default GeoClaw code, see :ref:`sphere_source`, which now includes a diff --git a/dev/bouss1d.html b/dev/bouss1d.html index a077f199b..1af4fa668 100644 --- a/dev/bouss1d.html +++ b/dev/bouss1d.html @@ -104,30 +104,11 @@

    Navigation

    hyperbolic. The equations implemented include third-order derivatives with respect to txx. However, the implementations proceed by alternating steps with the shallow water equations and the solution of elliptic -equations that involve only second-order derivatives in xx.

    -
    -

    The SGN equations

    -

    The recommended set of equations to use are a modification of the -Serre-Green-Naghdi (SGN) equations with the addition of a parameter alpha -suggested by Bonneton et al. Both the 1d and 2d versions of these equations -and their GeoClaw implementation are discussed in [BergerLeVeque2023]. -Setting alpha = 1 gives the original SGN equations, but alpha = 1.153 is -recommended since it gives a better approximation to the linear dispersion -relation of the Airy solution to the full 3d problem.

    -
    -
    -

    The Madsen-Sorensen (MS) equations

    -

    These equations also give a good approximation to the linear dispersion -relation of the Airy solution when the parameter beta = 1/15 is used. -These equations were used in an earlier GeoClaw implementation known as -BoussClaw. These have been reimplemented in GeoClaw more recently, -including a 2d implementation that allows the use of AMR. However, -extensive tests with these equations have revealed some stability issues, -particularly in the case of AMR, which have also been reported by others. -The 1d MS implementation is included in GeoClaw but it is generally not -recommended except for those interested in comparing different formulations -and perhaps further investigating the stability issues.

    -
    +equations that involve second-order derivatives in xx but no time derivatives. +In one space dimension, solving this equation requires solving a tridiagonal +linear system of equations in each time step.

    +

    See Boussinesq solvers in Two Space Dimensions and [BergerLeVeque2023] for more discussion +of the Boussinesq-type equations SGN and MS that are implemented in GeoClaw.

    Using the 1d Boussinesq code

    As in the 1d shallow water implementation, general mapped grids can be used, @@ -161,21 +142,37 @@

    Navigation

    setrun.py

    -

    Some additional parameters must be added to setrun.py, typically set as -follows:

    +

    To use the Boussinesq solvers, somewhere in the setrun function you +must include

    from clawpack.geoclaw.data import BoussData1D
 rundata.add_data(BoussData1D(),'bouss_data')
-rundata.bouss_data.bouss = True
-rundata.bouss_data.equations = 2  # for SGN (recommended, or 1 for MS)
+
    +
    +

    and then the following parameters can be adjusted (the values shown here +are the default values that will be used if you do not specify a value +directly):

    +
    rundata.bouss_data.equations = 2   # 0=SWE, 1=MS, 2=SGN
 rundata.bouss_data.deepBouss = 5.  # depth (meters) to switch to SWE

    The rundata.bouss_data object has attributes:

    -
      -

    • bouss_equations (int): Which equation set to use -(0 for SWE, 1 for MS, 2 for SGN).

      • -

    • bouss_min_depth (float): water depth at which to switch from Boussinesq -to SWE.

      • +
        +

      • bouss_equations: The system of equations being solved. Setting this to 2 +gives the recommended SGN equations.

        +

        The value alpha = 1.153 recommended for SGN is +hardwired into $CLAW/geoclaw/src/2d/bouss/bouss_module.f90. To change +this value, you must modify this module. (See Library routines in Makefiles +for tips on modifying a library routine.) Similarly, if you set +bouss_equations = 1 for the Madsen-Sorensen equations, the recommended +parameter value B = 1/15 is set in bouss_module.f90.

        +

        Setting bouss_equations = 0 causes the code to revert to the shallow +water equations, useful for comparing dispersive and nondispersive results.

        +
        • +

      • bouss_min_depth: The criterion used for switching from Boussinesq to SWE +in shallow water and onshore. If the original water depth h at time t0 +is less than bouss_min_depth in a cell or any of its nearest neighbors, +then this cell is omitted from set of unknowns in the elliptic equation +solve and no dispersive correction terms are calculated for this cell.

      The latter parameter is needed because in very shallow water, and for modeling onshore inundation, the Boussinesq equations are not suitable. @@ -183,7 +180,8 @@

      Navigation

      solving SWE near shore. Many different approaches have been used in the literature. So far we have only implemented the simplest common approach, which is to revert to SWE in any grid cell where the initial water depth (at -the initial time) is less than bouss_min_depth.

      +the initial time) is less than bouss_min_depth. +See Wave breaking and switching to SWE for more discussion.

    @@ -204,8 +202,6 @@

    Version dev

    Table of Contents

    • Boussinesq solvers in One Space Dimension
        -
      • The SGN equations
        • -
      • The Madsen-Sorensen (MS) equations
      • Using the 1d Boussinesq code
        • Makefile
        • setrun.py
          • diff --git a/dev/bouss2d.html b/dev/bouss2d.html index c68d9eec9..01a97756a 100644 --- a/dev/bouss2d.html +++ b/dev/bouss2d.html @@ -87,8 +87,225 @@

          Navigation

          Boussinesq solvers in Two Space Dimensions

          -

          To appear in a future release.

          -

          See [BergerLeVeque2023].

          +
          +

          Warning

          +

          Not yet incorporated in clawpack master branch or releases.

          +
          +

          As of Version 5.10.0 (?), GeoClaw supports two different sets of +dispersive Boussinesq-type equations that have been used in the literature +to better model wave propagation in situations where the wavelength is not +sufficiently long relative to the fluid depth for the shallow water +equation approximation to be accurate. The one-dimensional version of these +capabilities are described in Boussinesq solvers in One Space Dimension.

          +

          These Boussinesq equations are still depth-averaged equations, with the same +conserved quantities (fluid depth h and momenta hu and hv in 2D) as the +shallow water equations (SWE), but the +equations contain higher order derivative terms and so they are no longer +hyperbolic and require implicit methods for efficient solution with a +physically reasonable time step. This adds considerable complexity to the +code since adaptive mesh refinement (AMR) is still supported.

          +

          The equations implemented include third-order derivatives +with respect to txx, tyy, and txy. +However, the implementations proceed by alternating +steps with the shallow water equations (SWE) and the solution of elliptic +equations that involve second order derivatives in x and y but no +time derivatives.

          +

          In two space dimensions, solving this +elliptic equation requires solving a sparse +linear system of equations in each time step, at each refinement level when +AMR is being used. The structure of this system is complicated by the need +to include all grid cells from all patches at the same refinement level +in the linear system that is solved. Boundary conditions at the edge of +patches must be interpolated from coarser level solutions, in much the same +way that the boundaary conditions for h, hu, and hv are interpolated +when solving the SWE with AMR. Because the solution of the elliptic system +yields correction terms to the momenta (denoted here by huc and hvc), +when solving the Boussinesq equations the array q of state variables +is expanded to include these correction terms as well, and so the number of +equations and variables is 5 instead of 3. This change must be made in +setrun.py, along with other changes discussed below, in order to use +the Boussinesq solvers.

          +

          Currently the only linear system solver supported for solving the large +sparse elliptic systems is PETSc, +which can use MPI to solve these these systems. Using the Boussinesq solvers +requires these prerequesites, as discussed further in Prerequisites for the 2d Boussinesq code.

          +

          See [BergerLeVeque2023] for more discussion of the equations solved and the +AMR strategy used.

          +
          +

          Boussinesq-type dispersive equations

          +

          The equations we solve are not the original depth-averaged dispersive +equations derived by Boussinesq, but for simplicity +in this documentation and the code, we refer to the +equations simply as “Boussinesq equations”, following common practice. +Many variants of these equations have been derived and fine-tuned to +better match the dispersion relation of the linearized +Airy wave theory +and to incorporate variable bottom topography.

          +

          Two variants are currently implement in GeoClaw, described below.

          +
          +
          +

          The SGN equations

          +

          The recommended set of equations to use are a modification of the +Serre-Green-Naghdi (SGN) equations with the addition of a parameter alpha +suggested by Bonneton et al. Both the 1D and 2D versions of these equations +and their GeoClaw implementation are discussed in [BergerLeVeque2023]. +Setting alpha = 1 gives the original SGN equations, but alpha = 1.153 is +recommended since it gives a better approximation to the linear dispersion +relation of the Airy solution to the full 3d problem.

          +
          +
          +

          The Madsen-Sorensen (MS) equations

          +

          These equations also give a good approximation to the linear dispersion +relation of the Airy solution when the parameter beta = 1/15 is used. +These equations were used in an earlier GeoClaw implementation known as +BoussClaw. [Todo: add citations] +These have been reimplemented in GeoClaw more recently, +including a 2d implementation that allows the use of AMR. However, +extensive tests with these equations have revealed some stability issues, +particularly in the case of AMR, which have also been reported by others. +The 1D MS implementation is included in GeoClaw but it is generally not +recommended except for those interested in comparing different formulations +and perhaps further investigating the stability issues.

          +
          +
          +

          Using the 2d Boussinesq code

          +

          Provided the Prerequisites for the 2d Boussinesq code have been installed, switching from the +SWE to a Boussinesq solver in GeoClaw requires only minor changes to +setrun.py and the Makefile.

          +

          See the files in $CLAW/geoclaw/examples/bouss/radial_flat for an example.

          +
          +

          setrun.py

          +

          As mentioned above, it is necessary to set:

          +
          clawdata.num_eqn = 5
+
          +
          +

          instead of the usual value 3 used for SWE, since correction terms for the +momenta are also stored in the q arrays to facilitate interpolation to +ghost cells of finer level patches each time step.

          +

          It is also necessary to set some parameters that are specific to the +Boussinesq solvers. Somewhere in the setrun function you must include

          +
          from clawpack.geoclaw.data import BoussData
+rundata.add_data(BoussData(),'bouss_data')
+
          +
          +

          and then the following parameters can be adjusted (the values shown here +are the default values that will be used if you do not specify a value +directly):

          +
          rundata.bouss_data.bouss_equations = 2    # 0=SWE, 1=MS, 2=SGN
+rundata.bouss_data.bouss_min_level = 1    # coarsest level to apply bouss
+rundata.bouss_data.bouss_max_level = 10   # finest level to apply bouss
+rundata.bouss_data.bouss_min_depth = 10.  # depth (meters) to switch to SWE
+rundata.bouss_data.bouss_solver = 3       # 1=GMRES, 2=Pardiso, 3=PETSc
+rundata.bouss_data.bouss_tstart = 0.      # time to switch from SWE
+
          +
          +

          These parameters control:

          +
            +

          • bouss_equations: The system of equations being solved. Setting this to 2 +gives the recommended SGN equations.

            +

            The value alpha = 1.153 recommended for SGN is +hardwired into $CLAW/geoclaw/src/2d/bouss/bouss_module.f90. To change +this value, you must modify this module. (See Library routines in Makefiles +for tips on modifying a library routine.) Similarly, if you set +bouss_equations = 1 for the Madsen-Sorensen equations, the recommended +parameter value B = 1/15 is set in bouss_module.f90.

            +

            Setting bouss_equations = 0 causes the code to revert to the shallow +water equations, useful for comparing dispersive and nondispersive results.

            +
            • +

          • bouss_min_level: The minimum AMR level on which Boussinesq correction +terms should be applied. In some cases it may be desirable to use the SWE +on the coarsest grids in the ocean while Boussinesq corrections are only +applied on fine levels near shore, for example.

            • +

          • bouss_max_level: The finest AMR level on which Boussinesq correction +terms should be applied. In some cases it may be desirable to use the SWE +only on coarser grids if the finest level grid only exists in very shallow +regions or onshore, where the the equations switch to SWE for inundation +modeling. Since much of the computational work is often on the finest level, +avoiding the Boussinesq terms altogether on these levels may be advantageous +in some situations.

            • +

          • bouss_min_depth: The criterion used for switching from Boussinesq to SWE +in shallow water and onshore. If the original water depth h at time t0 +is less than bouss_min_depth in a cell or any of its nearest neighbors, +then this cell is omitted from set of unknowns in the elliptic equation +solve and no dispersive correction terms are calculated for this cell. +This is discussed further below in Wave breaking and switching to SWE.

            • +

          • bouss_solver: What linear system solver to use. Currently only the value +3 for PETSc is recognized.

            • +

          • bouss_tstart: The time t at which to start applying Boussinesq terms. +Normally you will want this to be less than or equal to t0, the starting +time of the calculation (which is usually but not always 0). However, +there are some cases in which the initial data results in extreme +motion in the first few time steps and it is necessary to get things going +with the SWE. For most applications this is not necessary and you need +only change this parameter if you have set t0 < 0.

            • +
          +
          +
          +

          Makefile

          +

          You can copy the Makefile from +$CLAW/geoclaw/examples/bouss/radial_flat/Makefile and make any adjustments +needed.

          +

          This Makefile reads in the standard Boussinesq solver file +$CLAW/geoclaw/src/2d/bouss/Makefile.bouss, which lists the Fortran modules +and source code files that are used by default from the library +$CLAW/geoclaw/src/2d/bouss, or from $CLAW/amrclaw/src/2d or +$CLAW/geoclaw/src/2d/shallow in the case of files that did not need to +be modified for the Boussinesq code.

          +

          Two Makefile variables PETSC_DIR and PETSC_ARCH must be set (perhaps as +environment variables in the shell from which make is invoked). These are +described further below in Prerequisites for the 2d Boussinesq code.

          +

          The Makefile should also include a line of the form:

          +
          PETSC_OPTIONS=-options_file $(CLAW)/geoclaw/examples/bouss/petscMPIoptions
+
          +
          +

          with a pointer to the file that sets various PETSc options. The file +$CLAW/geoclaw/examples/bouss/petscMPIoptions gives the options used in +the examples, which may be adequate for other problems too. +[Todo: more description of options?]

          +

          In addition to a line of the form

          +
          EXE = $(PWD)/xgeoclaw
+
          +
          +

          that specifies the name and location of the executable to be generated, the +Makefile should also contain a line of the form:

          +
          RUNEXE="${PETSC_DIR}/${PETSC_ARCH}/bin/mpiexec -n 6"
+
          +
          +

          This is the command that should be used in order to run the executable. +In other words, if you set PETSC_DIR and PETSC_ARCH as environment +variables, and the executable is named xgeoclaw as usual, then the command

          +
          $PETSC_DIR/$PETSC_ARCH/bin/mpiexec -n 6 xgeoclaw
+
          +
          +

          given in the shell should run the executable (invoking MPI with 6 processes in +this example). If this does not work then one of the environment variables +may be set incorrectly to find the mpiexec command.

          +
          +
          +
          +

          Prerequisites for the 2d Boussinesq code

          +

          Currently the only linear solver supported is PETSc, so this must be +installed, see https://petsc.org/release/install/ for instructions +and also note the PETSc prerequisites. +Note that MPI, LAPACK, and the BLAS are required and will be installed as +part of installing PETSc. If you already have some of the prerequisites +installed, be sure to read Configuring PETSc +before installing.

          +

          [Todo: How to set `$PETSC_DIR` And `$PETSC_ARCH`]

          +

          See also the PETSc documentation page +Environmental Variables $PETSC_DIR And $PETSC_ARCH

          +
          +
          +

          Wave breaking and switching to SWE

          +

          The bouss_min_depth parameter is needed because in very shallow water, and for +modeling onshore inundation, the Boussinesq equations are not suitable. +So some criterion is needed to drop these correction terms and revert to +solving SWE near shore. Many different approaches have been used in the +literature. So far we have only implemented the simplest common approach, +which is to revert to SWE in any grid cell where the initial water depth (at +the initial time) is less than bouss_min_depth.

          +

          [Todo: Add more discussion.]

          +
          @@ -102,7 +319,26 @@

          Navigation

          Version dev

          -

          Related Topics

          +

          +

          Related Topics

          • Documentation overview
            • GeoClaw Description and Detailed Contents
                diff --git a/dev/dtopotools_module.html b/dev/dtopotools_module.html index 863188af0..5d7c186bc 100644 --- a/dev/dtopotools_module.html +++ b/dev/dtopotools_module.html @@ -125,6 +125,9 @@

                Navigation

              • CSVFault

              • SiftFault

              • SegmentedPlaneFault

                • +

              • Fault1d

                • +

              • SubFault1d

                • +

              • DTopography1d

              Functions:
              @@ -219,6 +222,57 @@

              Navigation

              +
              +
              +class clawpack.geoclaw.dtopotools.DTopography1d(path=None, dtopo_type=None)
              +

              Basic object representing moving topography in 1d

              +
              +
              +dZ_at_t(t)
              +

              Interpolate dZ to specified time t and return deformation.

              +
              + +
              +
              +dZ_cellave_at_t(t, celledges)
              +

              Interpolate dZ to specified time t and return deformation.

              +
              + +
              +
              +read(path=None, dtopo_type=None, verbose=False)
              +

              Read in a dtopo file and use to set attributes of this object.

              +
              +
              Input:
              +
                +

              • path (path) - Path to existing dtopo file to read in.

                • +
              • +
                dtopo_type (int) - Type of topography file to read. Default is 3

                if not specified or apparent from file extension.

                +
                +
                +
                • +
              +
              +
              +
              + +
              +
              +write(path=None, dtopo_type=None)
              +

              Write out subfault resulting dtopo to file at path.

              +
              +
              Input:
              +
                +

              • path (path) - Path to the output file to written to.

                • +

              • dtopo_type (int) - Type of topography file to write out. Default +is 3.

                • +
              +
              +
              +
              + +
              +
              class clawpack.geoclaw.dtopotools.Fault(subfaults=None, input_units={}, coordinate_specification=None)
              @@ -415,6 +469,13 @@

              Navigation

              +
              +
              +class clawpack.geoclaw.dtopotools.Fault1d(subfaults=None, input_units={}, coordinate_specification=None)
              +

              Base Fault1d class

              +

              A class describing a 1d fault possibly composed of subfaults.

              +
              +
              clawpack.geoclaw.dtopotools.Mw(Mo, units='N-m')
              @@ -732,6 +793,47 @@

              Navigation

              +
              +
              +class clawpack.geoclaw.dtopotools.SubFault1d(strike=0, length=1000000.0)
              +
              +
              +coordinate_specification
              +

              location of x0: ‘top center’, ‘centroid’, or ‘bottom center’

              +
              + +
              +
              +latitude
              +

              latitude where placed on sphere to use 2d routines

              +
              + +
              +
              +length
              +

              length (m) in strike direction orthogonal to x

              +
              + +
              +
              +longitude
              +

              longitude at location specified by coordinate_specification

              +
              + +
              +
              +rake
              +

              rake=90 ==> top at right if strike=0, at left if strike=180

              +
              + +
              +
              +strike
              +

              rake=90, so top at right if strike=0, at left if strike=180

              +
              + +
              +
              class clawpack.geoclaw.dtopotools.SubdividedPlaneFault(base_subfault, nstrike=1, ndip=1, slip_function=None, Mo=None)
              @@ -892,6 +994,13 @@

              Table of Contents

            • DTopography.write()
            • +
          • DTopography1d +
          • Fault
            • +
          • Fault1d
          • Mw()
          • SiftFault
            • +
          • SubFault1d +
          • SubdividedPlaneFault diff --git a/dev/fgmax_tools_module.html b/dev/fgmax_tools_module.html index afd50e452..edff2f59f 100644 --- a/dev/fgmax_tools_module.html +++ b/dev/fgmax_tools_module.html @@ -127,8 +127,27 @@

            Navigation

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

            Read the GeoClaw results on the fgmax grid numbered fgno.

            +
            +
            indexing=’ij’ gives backward compatibility.

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

            +
            +
            +

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

            + +
            +

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

            +
            + +

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

            diff --git a/dev/genindex.html b/dev/genindex.html index 9b2ac9c4d..388a6cc1d 100644 --- a/dev/genindex.html +++ b/dev/genindex.html @@ -363,7 +363,11 @@

            C

          • convert_to_standard_units() (clawpack.geoclaw.dtopotools.SubFault method)
          • coordinate_specification (clawpack.geoclaw.dtopotools.SubFault attribute) + +
          • corners (clawpack.geoclaw.dtopotools.SubFault property)
          • create_dtopo_xy() (clawpack.geoclaw.dtopotools.Fault method) @@ -410,10 +414,10 @@

            D

          • dist_latlong2meters() (in module clawpack.geoclaw.util)
            • -
          - +
          • dms2decimal() (in module clawpack.geoclaw.util)
          • Domain (class in clawpack.petclaw.geometry) @@ -431,10 +435,18 @@

            D

          • dtopo2kml() (in module clawpack.geoclaw.kmltools)
          • DTopography (class in clawpack.geoclaw.dtopotools) +
            • +
          • DTopography1d (class in clawpack.geoclaw.dtopotools)
          • dynamic_slip() (clawpack.geoclaw.dtopotools.SubFault method)
          • dZ_at_t() (clawpack.geoclaw.dtopotools.DTopography method) + +
            • +
          • dZ_cellave_at_t() (clawpack.geoclaw.dtopotools.DTopography1d method)
          • dZ_max() (clawpack.geoclaw.dtopotools.DTopography method)
            • @@ -481,6 +493,8 @@

            F

          • F_path (clawpack.pyclaw.controller.Controller property)
          • Fault (class in clawpack.geoclaw.dtopotools) +
            • +
          • Fault1d (class in clawpack.geoclaw.dtopotools)
          • fetch_noaa_tide_data() (in module clawpack.geoclaw.util)
            • @@ -685,21 +699,33 @@

            L

            @@ -978,11 +1004,17 @@

            R

            - + - +
              diff --git a/dev/geoclaw_util_module.html b/dev/geoclaw_util_module.html index 632c0f822..a24332a86 100644 --- a/dev/geoclaw_util_module.html +++ b/dev/geoclaw_util_module.html @@ -115,7 +115,7 @@

              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:

              diff --git a/dev/kmltools_module.html b/dev/kmltools_module.html index b18d87ab6..ecedda9e0 100644 --- a/dev/kmltools_module.html +++ b/dev/kmltools_module.html @@ -362,7 +362,7 @@

              Navigation

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

              @@ -370,7 +370,7 @@

              Navigation

              dpi * y_inches = dcp * y_cells

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

              @@ -380,14 +380,14 @@

              Navigation

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

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

              The png_extent is needed in construcing a kml file to display the @@ -523,7 +523,7 @@

              Navigation

              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 6fa6947dcd4da83668612aaef3b7aef3b5a277da..e4d3f17f9f19f62a380ab58534b5821d10113e4b 100644 GIT binary patch delta 12193 zcmZvgLtvf_u!UpWwr!)a+1R$725;2ZY-6Lbzs9!J*tU)P-}SwlSw3@CGv}Ny(@gV3 zKR`ESO*Z*Z5P+U&AZeQw=*IZQY?)gS0TL=Y#7C&Jjya+63 z5I1g!YIj@o_wPw>li_E>(nrBPO$%R+_wOl@i29F>KR!^}hMYb>Q6*&2=s-I+T_1D_ z@AGa!?}&$W#jPz%A@2m7t~vZ$9FR(22Lj?znfXD-VdZe&<*E6JQrW>UETA((u~#(`ZK#n_`~asI z(@Kqwm_U;74_xb`h16k5g?qya(Ri}ir6^V7Vw1G3HayG*xxnzDJ`zX&6(qYS5Z6XwFMMW{?wN_5sGua3 z?2tvxZcnNqyFT~6>d{30miQg_^G^1$MnqGop7I{y1vORA`Sh&%?I;m+4e}sJlwV}9W5!b*Xby{xB>DG9| z8!mc1q&49#%Y5mgd`GN)d(gU(v_90-MmXpe5VfdyQXU@9)(HOaMjp_ZOMCVD)+K#~ z0@6O+GPUjluH@7LwD-7x_G$Ixz_Gm$pX|jalZ-gH``PdQn+7C$-{$8oc3h!@AzR($?e?@4-aWJs7*C(I$WWUxqVT%z2VFNkK(^jYUA+X#)X zJ>5UO32+KrkT0q}85(P!&U{_wYRdq8(2Ve{mxW zbV3yKY&`_WI_|hRc9YzGN-9H5ZO))*UC<%v<_Kuc2pw9z%aSyl-oOWB`7&^ATQ61B3W>fp+A^GjTEsos 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              Changes to geoclaw

              +

              The setrun parameter rundata.fixed_grid_data was removed from +geoclaw/src/python/geoclaw/data.py and is no longer available in setrun. +This old way of specifying fixed grid output has been deprecated for some +time in favor of fgmax and fgout grids, but some old setrun.py files +may still set

              +
              fixedgrids = rundata.fixed_grid_data.fixedgrids
+
              +
              +

              and throw an error that can be fixed by deleting this line. +If items are appended to this list in your setrun, then these should be +converted to fgmax and/or fgout grids.

              The setrun parameter runclaw.geo_data.sphere_source was added to allow experimenting with the spherical source term that is currently missing from the default GeoClaw code, see Source terms for shallow water on the sphere, which now includes a diff --git a/dev/searchindex.js b/dev/searchindex.js index 819dc103b..c648085ed 100644 --- a/dev/searchindex.js +++ b/dev/searchindex.js @@ -1 +1 @@ -Search.setIndex({"docnames": ["ClawPlotAxes", "ClawPlotData", "ClawPlotFigure", "ClawPlotItem", "about", "adjoint", "amr_algorithm", "amrclaw", "amrclaw1d", "amrclaw_doxygen", "amrclaw_flowcharts", "application_documentation", "apps", "aws", "b4run", "b4step_defaults", "bc", "biblio", "bouss1d", "bouss2d", "changes_to_master", "claw43to46", "claw46to50", "claw4x", "clawpack5", "clawpack_components", "community", "contents", "contribute_apps", "current_data", "developers", "docker_image", "dtopotools_module", "f77_vs_f90", "fgmax", "fgmax_tools_module", "fgout", "fgout_tools_module", 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165], "afteritem": [3, 29], "afterpatch": [3, 29], "There": [3, 6, 13, 24, 36, 39, 43, 55, 58, 59, 66, 70, 75, 77, 84, 85, 98, 105, 113, 125, 126, 146, 147, 158, 159, 166, 168], "calcul": [3, 5, 6, 29, 32, 35, 37, 48, 51, 71, 75, 82, 94, 102, 104, 119, 124, 163], "cd": [3, 13, 30, 38, 39, 40, 56, 58, 59, 61, 62, 84, 93, 96, 99, 105, 116, 159], "On": [3, 5, 13, 55, 76, 85, 125, 135, 141, 145, 166], "ylower": [3, 24, 29, 42, 89, 126, 149, 161, 163], "patchno": [3, 29], "out": [3, 16, 26, 28, 31, 32, 34, 36, 37, 38, 39, 42, 47, 48, 49, 54, 56, 57, 58, 59, 62, 63, 64, 65, 66, 71, 75, 82, 85, 86, 88, 89, 91, 97, 98, 99, 100, 103, 108, 110, 111, 113, 116, 124, 126, 128, 129, 139, 141, 148, 149, 151, 157, 163, 164], "lower": [3, 24, 32, 34, 35, 41, 49, 57, 70, 77, 94, 99, 141, 143, 147, 149, 151, 161, 163, 165], "left": [3, 5, 10, 13, 16, 20, 27, 29, 34, 57, 77, 84, 94, 101, 102, 108, 125, 131, 134, 135, 136, 137, 138, 139, 142, 148, 161, 163, 165, 169], "mappedgrid": [3, 71], "map": [3, 16, 18, 31, 32, 42, 48, 63, 70, 71, 82, 86, 89, 94, 96, 101, 115, 122, 126, 131, 140, 163, 169], "mapc2p": [3, 27, 29, 49, 71, 89, 94, 131], "underli": [3, 55, 124], "requir": [3, 4, 16, 18, 22, 24, 27, 29, 32, 34, 36, 37, 38, 39, 43, 48, 49, 51, 52, 59, 62, 70, 71, 75, 78, 81, 84, 85, 88, 89, 94, 97, 100, 101, 104, 105, 106, 108, 109, 110, 115, 116, 118, 119, 122, 124, 127, 129, 131, 134, 136, 139, 140, 141, 146, 147, 148, 149, 150, 151, 157, 158, 161, 164, 167, 169], "depend": [3, 13, 16, 30, 31, 32, 34, 37, 38, 39, 43, 44, 50, 52, 55, 66, 68, 71, 75, 82, 87, 97, 102, 103, 104, 109, 111, 115, 126, 143, 148, 150, 163, 164, 166, 169], "summar": [3, 30, 33, 115, 117, 166], "plotstyl": [3, 47, 82, 146], "anyth": [3, 6, 30, 31, 62, 67, 116, 126], "valid": [3, 52, 75, 91, 98, 103, 106, 124, 150, 157, 158, 163], "fmt": 3, "group": [3, 13, 26, 30, 32, 52, 93, 97, 99, 107, 123, 139], "solid": [3, 16, 55, 75, 101, 146, 147, 149, 151], "dash": [3, 99], "o": [3, 5, 17, 41, 42, 43, 70, 72, 82, 85, 86, 89, 97, 98, 107, 126, 149, 163, 166], "circl": [3, 51, 82], "bo": 3, "blue": [3, 11, 42, 47, 63, 70, 82, 141, 163], "though": [3, 42, 78, 157, 161], "also": [3, 4, 5, 6, 7, 8, 9, 11, 12, 16, 17, 18, 20, 22, 24, 25, 26, 27, 30, 31, 32, 34, 35, 36, 37, 38, 39, 40, 41, 42, 44, 45, 46, 47, 49, 51, 52, 55, 56, 57, 58, 59, 60, 61, 62, 63, 64, 66, 67, 70, 71, 75, 76, 77, 78, 81, 82, 84, 88, 90, 91, 94, 96, 97, 98, 99, 101, 102, 103, 104, 105, 106, 107, 108, 109, 110, 111, 112, 113, 114, 115, 116, 118, 123, 124, 125, 126, 127, 128, 129, 130, 131, 132, 133, 134, 135, 136, 137, 138, 139, 140, 141, 142, 143, 145, 147, 148, 149, 150, 151, 152, 155, 156, 157, 158, 159, 160, 161, 163, 164, 165, 166, 168, 169], "overrul": 3, "r": [3, 4, 6, 17, 47, 51, 56, 58, 70, 71, 74, 82, 88, 92, 99, 101, 139, 141, 146, 163, 169], "ff0000": [3, 63], "No": [3, 43, 55, 59, 71, 94, 104, 132, 139, 147, 150, 164], "extra": [3, 55, 140], "give": [3, 6, 9, 10, 13, 16, 18, 26, 30, 32, 34, 35, 36, 38, 39, 47, 49, 56, 63, 64, 70, 72, 75, 76, 77, 82, 84, 99, 100, 104, 116, 119, 123, 124, 128, 131, 141, 147, 150, 161, 163, 165], "polygon": [3, 7, 41, 55, 63, 129, 163], "curv": [3, 47, 81, 141], "fill_between": 3, "plot_var2": 3, "zero": [3, 16, 32, 34, 42, 44, 47, 63, 71, 72, 88, 101, 102, 106, 108, 131, 141, 142], "fill_wher": 3, "plotitem": [3, 29, 47, 82, 146], "mean": [3, 13, 24, 30, 34, 42, 47, 52, 56, 62, 71, 72, 98, 99, 115, 139, 142, 147, 149, 151, 165], "map_2d_to_1d": 3, "In": [3, 5, 6, 8, 11, 12, 15, 16, 21, 22, 24, 29, 32, 34, 36, 41, 44, 47, 48, 49, 52, 55, 56, 57, 58, 59, 62, 63, 64, 66, 67, 70, 71, 72, 74, 75, 77, 78, 82, 83, 84, 88, 89, 94, 96, 97, 98, 99, 100, 101, 102, 104, 106, 109, 111, 112, 113, 115, 118, 119, 122, 123, 124, 126, 127, 131, 135, 138, 139, 141, 143, 144, 145, 147, 148, 150, 153, 155, 156, 161, 163, 164, 166, 169], "about": [3, 5, 7, 13, 14, 16, 18, 24, 27, 35, 36, 37, 38, 39, 43, 49, 51, 52, 57, 59, 63, 66, 68, 71, 77, 83, 85, 88, 96, 97, 99, 104, 111, 116, 123, 127, 129, 134, 135, 139, 146, 148, 149, 150, 161, 164, 166, 169], "j": [3, 4, 5, 15, 17, 22, 24, 29, 42, 56, 63, 70, 71, 77, 84, 96, 97, 115, 118, 119, 143, 144], "v": [3, 16, 27, 31, 32, 34, 36, 37, 51, 64, 67, 116, 123, 148, 161], "radiu": [3, 150, 157, 158, 163], "q0_vs_radiu": 3, "convert": [3, 24, 27, 32, 35, 37, 45, 51, 55, 62, 63, 66, 75, 78, 89, 96, 101, 109, 110, 126, 129, 135, 147, 148, 157, 161, 165], "numpi": [3, 13, 32, 34, 36, 37, 42, 51, 70, 85, 87, 88, 89, 91, 94, 101, 106, 107, 108, 110, 116, 136, 140, 141, 149, 163, 164], "sqrt": [3, 34, 37, 49, 68, 88, 101, 102, 108, 149], "q0": [3, 101], "work": [3, 5, 8, 13, 16, 21, 22, 24, 26, 27, 28, 30, 31, 34, 36, 38, 39, 43, 48, 52, 55, 56, 57, 58, 59, 60, 61, 62, 63, 70, 71, 74, 75, 76, 82, 85, 86, 87, 88, 90, 91, 92, 96, 97, 98, 99, 102, 104, 105, 110, 111, 113, 114, 115, 116, 120, 121, 122, 123, 124, 125, 126, 129, 131, 132, 137, 139, 145, 146, 147, 148, 152, 158, 161, 164, 168], "symbol": [3, 71, 111], "best": [3, 4, 16, 24, 28, 30, 36, 44, 49, 55, 57, 59, 60, 66, 72, 74, 76, 81, 82, 97, 101, 113, 114, 115, 116, 126, 137, 139, 150, 154, 157, 161, 166], "descript": [3, 4, 6, 9, 24, 25, 27, 32, 37, 63, 71, 75, 78, 81, 96, 97, 109, 113, 115, 136, 139, 140, 150, 157, 161, 169], "celledges_show": [3, 24], "draw": 3, "amr_celledges_show": 3, "level": [3, 6, 7, 16, 25, 29, 31, 34, 36, 41, 42, 47, 48, 50, 51, 52, 55, 58, 59, 61, 62, 71, 72, 76, 77, 89, 91, 94, 96, 97, 98, 104, 111, 112, 115, 116, 118, 119, 123, 124, 126, 129, 138, 141, 142, 145, 147, 148, 149, 151, 160, 161, 163, 165, 166], "patchedges_show": [3, 24], "mostli": [3, 81, 96, 129, 136], "contour_level": [3, 163], "three": [3, 13, 17, 24, 32, 34, 37, 52, 55, 67, 71, 75, 99, 103, 109, 116, 141, 147, 150, 161, 163, 166], "contour_nlevel": 3, "contour_min": 3, "minimum": [3, 34, 47, 55, 75, 108, 124, 150, 163], "contour_max": 3, "maximum": [3, 24, 32, 34, 35, 36, 48, 71, 72, 104, 108, 115, 118, 119, 126, 129, 147, 148, 149, 151, 157, 158], "contour_color": 3, "specif": [3, 5, 12, 24, 30, 32, 47, 48, 49, 51, 55, 56, 62, 65, 67, 68, 77, 86, 87, 89, 91, 96, 97, 98, 102, 103, 109, 113, 124, 125, 126, 129, 146, 147, 148, 149, 151, 158, 161], "b": [3, 5, 17, 30, 32, 34, 35, 36, 37, 42, 47, 49, 56, 58, 59, 68, 72, 82, 104, 115, 122, 129, 141, 142, 143, 150, 163, 165], "0000ff": [3, 63], "colormap": [3, 32, 42, 50, 55, 70, 71, 81, 83, 123, 129, 163], "amr_contour_color": 3, "As": [3, 18, 39, 42, 48, 49, 52, 58, 59, 63, 64, 88, 108, 110, 114, 118, 129, 139, 140, 143, 150, 153, 159, 166], "black": [3, 47], "subsequ": [3, 10, 71], "both": [3, 16, 18, 30, 32, 35, 36, 37, 38, 39, 41, 42, 47, 52, 57, 60, 62, 67, 70, 71, 75, 77, 89, 97, 98, 99, 104, 105, 115, 116, 122, 123, 126, 129, 134, 139, 140, 141, 143, 147, 148, 149, 151, 155, 161, 166], "fine": [3, 34, 35, 36, 42, 49, 58, 74, 78, 96, 101, 115, 124, 131, 141, 143, 147, 148, 150, 161, 166], "coars": [3, 34, 36, 55, 115, 124, 131, 147, 161, 166], "anoth": [3, 24, 36, 42, 47, 55, 62, 63, 77, 81, 85, 93, 104, 107, 116, 126, 157, 166], "refin": [3, 4, 5, 7, 8, 17, 24, 36, 48, 49, 52, 55, 56, 57, 70, 71, 77, 78, 88, 124, 126, 127, 129, 131, 141, 143, 146, 147, 148, 149, 160, 161, 166], "region": [3, 6, 7, 13, 16, 24, 34, 36, 41, 42, 48, 52, 53, 55, 63, 68, 72, 75, 78, 113, 126, 129, 131, 142, 143, 148, 149, 153, 161, 163], "lack": 3, "hidden": [3, 66, 82], "blank": [3, 63, 157], "coarser": [3, 16, 57, 124, 143, 147, 148, 166], "easili": [3, 13, 30, 34, 55, 58, 71, 82, 89, 94, 105, 109, 116, 129, 152], "contour_show": 3, "commonli": [3, 71, 82, 84], "amr_contour_show": 3, "determin": [3, 5, 6, 32, 34, 37, 42, 47, 48, 49, 52, 54, 55, 58, 63, 72, 75, 82, 92, 94, 97, 102, 106, 111, 115, 119, 123, 124, 138, 141, 142, 146, 147, 148, 150, 163, 166], "whether": [3, 6, 13, 16, 24, 51, 57, 60, 62, 64, 65, 66, 71, 86, 94, 97, 98, 102, 103, 104, 115, 116, 124, 139, 141, 147, 148, 150, 163], "view": [3, 4, 24, 36, 38, 39, 47, 48, 49, 55, 57, 58, 63, 77, 81, 83, 84, 88, 99, 105, 110, 122, 126, 152, 153, 154], "finest": [3, 34, 36, 42, 47, 72, 126, 160, 163], "contour_kwarg": [3, 163], "pcolor_cmap": [3, 55], "pcolor_cmin": 3, "pcolor_cmax": 3, "thei": [3, 5, 6, 13, 16, 18, 26, 29, 30, 32, 34, 36, 41, 42, 47, 49, 52, 55, 58, 59, 62, 63, 64, 67, 70, 71, 77, 81, 94, 96, 101, 104, 109, 115, 116, 124, 131, 143, 146, 150, 153, 157, 161, 163, 166], "chosen": [3, 31, 34, 41, 42, 55, 57, 70, 108, 115, 131, 142, 148], "vari": [3, 15, 17, 27, 32, 42, 48, 49, 57, 68, 72, 101, 103, 122, 129, 139, 140, 142, 144, 148, 150, 169], "yield": 3, "veri": [3, 5, 16, 18, 24, 49, 52, 55, 59, 60, 63, 75, 82, 86, 89, 97, 98, 99, 100, 101, 104, 116, 119, 123, 134, 141, 143, 147, 158, 161], "confus": [3, 57, 62, 111, 131, 139], "add_colorbar": [3, 32, 163], "ad": [3, 12, 16, 18, 22, 24, 26, 27, 29, 31, 34, 36, 37, 44, 47, 51, 57, 58, 59, 62, 63, 64, 68, 71, 72, 75, 82, 87, 89, 92, 94, 95, 98, 99, 111, 112, 113, 115, 118, 119, 120, 121, 122, 123, 124, 125, 126, 127, 128, 129, 130, 132, 134, 135, 136, 138, 143, 147, 148, 150, 153, 157, 160, 163, 167], "imshow_cmap": 3, "imshow_cmin": 3, "imshow_cmax": 3, "relat": [3, 7, 18, 24, 26, 58, 78, 102, 113, 125, 129, 131, 142], "pre": [3, 13, 35, 59, 90, 97], "pend": 3, "amr_": [3, 7], "whose": [3, 49, 82, 89, 101, 102, 143, 147, 148, 163], "origin": [3, 6, 13, 16, 18, 22, 30, 32, 36, 37, 47, 56, 58, 70, 76, 77, 89, 104, 109, 118, 124, 131, 138, 148, 149, 150, 151, 163], "hand": [3, 5, 20, 21, 22, 68, 88, 116, 134, 135, 136, 141], "higher": [3, 6, 18, 55, 94, 104, 105, 115, 129, 139, 141, 142, 143], "shorter": [3, 115, 163], "last": [3, 20, 29, 34, 36, 59, 61, 82, 88, 89, 101, 108, 123, 134, 135, 136, 147, 157], "repeatedli": [3, 99, 105, 148], "finer": [3, 7, 34, 55, 115, 118, 119, 141, 147, 148], "celledg": [3, 49], "colorbar_shrink": [3, 32], "colorbar_label": 3, "colorbar_tick": 3, "colorbar_tick_label": 3, "colorbar_extend": [3, 135], "colorbar_kwarg": [3, 126], "stand": [4, 131], "conserv": [4, 5, 6, 17, 18, 98, 104, 106, 127, 140, 166, 169], "law": [4, 17, 63, 150, 169], "packag": [4, 27, 30, 31, 38, 39, 55, 59, 60, 67, 77, 78, 81, 85, 86, 88, 94, 96, 98, 100, 101, 103, 105, 108, 110, 111, 128, 129, 164, 167], "wa": [4, 5, 6, 14, 21, 22, 27, 31, 32, 34, 35, 36, 37, 42, 49, 52, 54, 58, 59, 66, 68, 70, 71, 75, 82, 99, 103, 104, 106, 115, 116, 117, 118, 119, 120, 121, 122, 123, 124, 125, 126, 127, 128, 129, 130, 131, 132, 133, 134, 135, 136, 138, 141, 143, 160, 161, 163], "initi": [4, 5, 7, 12, 13, 18, 24, 27, 32, 36, 37, 47, 48, 49, 51, 52, 55, 59, 64, 67, 71, 72, 75, 77, 78, 84, 86, 87, 88, 89, 91, 92, 94, 95, 97, 98, 102, 103, 104, 106, 107, 109, 112, 115, 123, 126, 129, 131, 139, 142, 147, 148, 149, 151, 153, 157, 161, 163], "develop": [4, 6, 7, 12, 13, 20, 24, 25, 52, 56, 58, 61, 62, 65, 70, 71, 81, 85, 86, 89, 96, 101, 104, 105, 111, 113, 116, 126, 127, 129, 131, 134, 135, 136, 139, 142, 143, 149], "linear": [4, 5, 17, 18, 32, 36, 37, 47, 49, 55, 72, 75, 82, 88, 92, 104, 127, 139, 140, 141], "nonlinear": [4, 5, 17, 52, 92, 139, 147, 169], "hyperbol": [4, 5, 6, 17, 18, 45, 78, 89, 96, 101, 102, 108, 139, 147, 150, 166, 169], "system": [4, 16, 17, 18, 25, 39, 40, 48, 55, 56, 62, 63, 67, 76, 77, 86, 96, 98, 99, 101, 102, 105, 108, 111, 116, 139, 147, 149, 151, 159, 166, 169], "focu": [4, 48], "high": [4, 17, 34, 52, 55, 70, 72, 75, 78, 89, 96, 104, 139, 142, 143, 165, 166], "resolut": [4, 6, 17, 32, 34, 36, 42, 47, 64, 72, 75, 94, 104, 108, 109, 118, 122, 126, 127, 134, 139, 142, 161, 163, 165, 166], "godunov": [4, 94, 104, 147, 149, 151, 166], "method": [4, 5, 7, 17, 34, 36, 37, 41, 45, 47, 57, 70, 72, 82, 84, 88, 91, 92, 94, 99, 103, 104, 109, 115, 116, 122, 139, 146, 147, 148, 149, 151, 157, 160, 161, 163, 166], "framework": [4, 86, 89, 123, 124], "applic": [4, 6, 15, 16, 18, 21, 22, 24, 25, 26, 30, 31, 34, 36, 37, 38, 39, 40, 44, 45, 46, 47, 48, 50, 59, 61, 62, 67, 70, 76, 77, 84, 93, 94, 95, 96, 98, 104, 109, 112, 114, 115, 116, 118, 121, 122, 124, 125, 126, 128, 129, 139, 141, 143, 144, 147, 150, 155, 156, 161, 163, 164, 166, 167], "finit": [4, 17, 34, 36, 45, 49, 57, 63, 70, 71, 72, 75, 104, 129, 141, 150, 160, 161, 166], "volum": [4, 17, 31, 34, 36, 45, 49, 57, 63, 70, 71, 72, 96, 129, 141, 148, 150, 160, 161, 166], "riemann": [4, 5, 8, 22, 24, 25, 30, 31, 48, 59, 62, 67, 78, 86, 88, 94, 95, 104, 105, 106, 108, 111, 145, 147, 149, 151, 155, 156, 169], "solver": [4, 5, 6, 22, 24, 25, 27, 30, 48, 49, 60, 61, 62, 67, 85, 86, 87, 91, 94, 95, 98, 106, 120, 122, 124, 125, 126, 127, 128, 129, 131, 136, 147, 149, 151, 155, 156, 169], "resolv": [4, 34, 36, 55, 58, 62, 113, 126, 143], "jump": [4, 5, 71, 84, 94, 104, 124, 147, 169], "discontinu": [4, 104, 169], "interfac": [4, 21, 24, 71, 86, 89, 92, 96, 97, 102, 104, 109, 139, 166, 167, 169], "wave": [4, 5, 6, 16, 17, 18, 27, 34, 42, 49, 52, 55, 56, 75, 92, 94, 96, 101, 102, 104, 115, 122, 124, 125, 131, 140, 141, 142, 147, 148, 149, 150, 151, 153, 166], "propag": [4, 5, 6, 17, 18, 27, 32, 49, 52, 55, 56, 75, 94, 96, 104, 115, 124, 139], "neighbor": [4, 36, 42, 70, 72, 115, 124, 143, 148, 149, 163], "formul": [4, 5, 18, 52, 68, 139, 147], "allow": [4, 6, 13, 18, 24, 29, 30, 31, 34, 36, 37, 41, 42, 47, 48, 51, 54, 55, 57, 58, 62, 68, 70, 71, 75, 76, 78, 81, 82, 91, 96, 97, 98, 104, 106, 109, 110, 111, 115, 116, 118, 119, 122, 123, 124, 125, 126, 128, 129, 131, 134, 135, 136, 139, 141, 147, 149, 150, 151, 152, 153, 157, 161, 163, 165], "easi": [4, 6, 11, 31, 41, 62, 71, 89, 98, 99, 100, 141, 152, 166], "extens": [4, 17, 18, 24, 26, 30, 32, 52, 55, 58, 62, 67, 71, 89, 96, 97, 109, 124, 125, 131, 147, 159, 163, 169], "problem": [4, 5, 7, 16, 17, 18, 22, 26, 27, 29, 30, 31, 38, 39, 42, 45, 48, 49, 62, 66, 70, 71, 72, 75, 78, 82, 85, 87, 88, 93, 95, 96, 99, 102, 104, 107, 111, 116, 118, 119, 121, 122, 125, 129, 131, 135, 136, 139, 141, 143, 147, 148, 149, 150, 151, 152, 160, 164], "algorithm": [4, 7, 27, 34, 41, 42, 48, 56, 88, 94, 96, 97, 104, 108, 115, 126, 139, 141, 147, 149, 151, 163], "brief": [4, 59, 140, 150], "subroutin": [4, 6, 9, 16, 24, 34, 36, 67, 115, 122, 139, 147, 148, 160, 166, 169], "equat": [4, 5, 16, 17, 27, 38, 39, 48, 49, 52, 64, 68, 82, 87, 88, 89, 91, 96, 97, 98, 101, 104, 105, 106, 119, 122, 124, 126, 127, 139, 147, 149, 150, 151, 153, 161, 166, 169], "solv": [4, 5, 8, 16, 17, 18, 22, 28, 38, 39, 49, 52, 60, 62, 64, 87, 89, 91, 94, 96, 101, 102, 105, 127, 139, 140, 147, 161, 166, 169], "adapt": [4, 7, 17, 32, 42, 49, 56, 57, 70, 71, 78, 88, 115, 126, 129, 131, 139, 141, 146, 147, 148, 150, 166], "mesh": [4, 7, 17, 35, 49, 56, 70, 71, 78, 81, 88, 115, 129, 146, 147, 166], "amrclaw": [4, 5, 6, 12, 15, 16, 21, 22, 24, 25, 26, 30, 39, 41, 42, 44, 46, 47, 48, 50, 56, 59, 60, 61, 62, 64, 70, 71, 76, 77, 78, 85, 96, 97, 105, 111, 112, 115, 116, 138, 139, 141, 144, 145, 147, 150, 155, 156, 159, 160, 164], "detail": [4, 5, 10, 16, 24, 25, 27, 28, 30, 31, 32, 34, 36, 38, 39, 41, 44, 47, 50, 52, 55, 58, 61, 62, 64, 65, 66, 70, 71, 75, 78, 82, 86, 91, 92, 93, 94, 96, 97, 98, 99, 100, 101, 102, 104, 114, 115, 116, 119, 124, 126, 131, 134, 139, 141, 146, 147, 150, 152, 157, 161, 164, 165, 166, 169], "content": [4, 6, 25, 37, 55, 59, 77, 78, 89, 96, 150, 161, 166, 167], "routin": [4, 5, 6, 16, 22, 27, 29, 32, 34, 38, 39, 47, 48, 49, 50, 55, 56, 66, 71, 72, 76, 77, 78, 81, 84, 86, 89, 91, 94, 97, 100, 101, 104, 106, 107, 115, 118, 119, 122, 124, 126, 127, 129, 139, 143, 147, 149, 151, 157, 163, 164, 166, 167, 169], "special": [4, 7, 16, 48, 50, 55, 65, 78, 86, 115, 134, 141, 163], "depth": [4, 5, 16, 17, 18, 24, 32, 34, 35, 37, 42, 47, 48, 49, 52, 68, 72, 75, 81, 83, 140, 142, 143, 150, 161], "averag": [4, 6, 15, 17, 18, 34, 42, 48, 49, 52, 53, 57, 71, 72, 102, 106, 119, 131, 139, 143, 144, 161, 163, 166], "geophys": [4, 16, 17, 25, 48, 52, 78, 147], "flow": [4, 16, 17, 25, 34, 35, 48, 50, 52, 78, 96, 113, 129, 134, 139, 147, 150, 161, 166], "geoclaw": [4, 7, 12, 17, 18, 25, 26, 30, 31, 32, 34, 35, 36, 37, 39, 41, 44, 46, 47, 56, 57, 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86, 104, 110, 129], "under": [4, 7, 24, 34, 36, 40, 55, 56, 58, 61, 65, 67, 81, 86, 94, 96, 116, 124, 126, 137], "term": [4, 18, 27, 48, 49, 52, 65, 75, 89, 94, 95, 104, 115, 125, 126, 135, 136, 140, 147, 149, 150, 151, 155, 156], "berkelei": [4, 65, 86], "bsd": [4, 65, 86, 126], "peopl": [4, 12, 13, 86], "contribut": [4, 26, 27, 61, 86, 89, 96, 101, 104, 113, 116], "its": [4, 6, 13, 24, 31, 42, 52, 55, 65, 67, 70, 75, 77, 86, 91, 92, 93, 94, 96, 101, 103, 104, 106, 109, 115, 149, 163, 169], "incept": 4, "1994": [4, 65], "major": [4, 24, 59, 86, 89, 117, 118, 119, 120, 125, 127, 132, 135, 136], "design": [4, 29, 30, 55, 86, 88, 108, 141, 165], "made": [4, 20, 24, 30, 32, 37, 62, 103, 106, 118, 119, 124, 126, 129, 131, 134, 135, 136, 141, 143, 150, 158, 161, 163, 166], "individu": [4, 24, 25, 55, 63, 66, 67, 71, 94, 115, 116, 157], "randal": [4, 17, 96], "univers": [4, 17, 26, 58, 65, 86, 103], "washington": [4, 17, 26, 58, 65, 128, 141, 153, 163], "rjlevequ": [4, 30, 31], "marsha": [4, 6, 17], "berger": [4, 6, 17], "courant": [4, 6, 49, 115, 125, 147, 148, 149, 151], "institut": 4, "nyu": 4, "mjberger": 4, "jan": [4, 59], "olav": 4, "langseth": [4, 17], "norwegian": 4, "defenc": 4, "research": [4, 17, 48, 52, 86, 104, 114], "establish": 4, "david": [4, 17, 86, 96, 104], "georg": [4, 17, 32], "usg": [4, 32, 165], "cascad": 4, "volcano": 4, "observatori": 4, "dlgeorg": 4, "ketcheson": [4, 17, 79, 86, 96, 104], "kaust": [4, 26], "ketch": 4, "kyle": [4, 17, 86, 92, 96, 97, 102], "mandli": [4, 17, 86, 92, 96, 97, 102], "ut": 4, "austin": 4, "contributor": [4, 26, 65, 96], "aron": [4, 17, 86, 96], "ahmadia": [4, 17, 86, 96], "amal": [4, 17, 86, 96], "alghamdi": [4, 17, 86, 96], "ghamdi": 4, "ian": 4, "bollig": 4, "bolliger32": 4, "peter": 4, "blossei": 4, "donna": [4, 17], "calhoun": [4, 17, 55], "donnabois": 4, "ond\u0159ej": 4, "\u010dert\u00edk": 4, "certik": [4, 86], "brisa": 4, "davi": [4, 17], "brisadavi": [4, 127], "gradi": [4, 17, 86], "lemoin": [4, 17, 86], 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140, 143, 147, 148, 155, 156, 157, 166, 169], "citat": [4, 59], "similar": [4, 13, 16, 30, 34, 36, 39, 47, 49, 55, 64, 88, 89, 97, 101, 104, 108, 126, 131, 150, 157, 158, 159, 161], "team": [4, 26, 65], "2020": [4, 26, 27, 58, 65, 110, 113, 129, 130, 131, 137, 139], "7": [4, 6, 14, 31, 34, 36, 41, 42, 47, 51, 58, 64, 68, 70, 77, 82, 85, 94, 105, 111, 115, 131, 137, 141, 142, 143, 148, 149], "http": [4, 12, 13, 17, 26, 28, 30, 31, 32, 42, 51, 55, 56, 58, 59, 61, 62, 65, 70, 75, 85, 86, 89, 90, 97, 99, 101, 110, 111, 121, 123, 124, 125, 127, 128, 131, 132, 133, 134, 135, 136, 137, 140, 153, 157, 163], "www": [4, 13, 17, 32, 42, 48, 58, 65, 70, 86, 89, 94, 97, 99, 125, 127, 134, 135, 157, 163], "org": [4, 17, 48, 56, 58, 59, 65, 86, 89, 90, 94, 97, 99, 110, 111, 123, 125, 127, 131, 132, 133, 134, 135, 136, 163], "doi": [4, 17, 56, 59, 61, 129, 130, 131, 132, 133, 134, 135, 136, 137], "10": [4, 17, 18, 32, 34, 36, 42, 49, 55, 56, 57, 59, 82, 88, 91, 94, 115, 123, 124, 126, 129, 130, 131, 132, 133, 134, 135, 136, 137, 141, 147, 148, 149, 151, 153, 161], "5281": [4, 59, 129, 130, 131, 132, 133, 134, 135, 136, 137], "zenodo": [4, 61, 129, 130, 131, 132, 133, 134, 135, 136, 137], "4025432": [4, 130, 137], "here": [4, 13, 16, 31, 36, 41, 42, 52, 59, 62, 63, 70, 78, 82, 84, 88, 91, 96, 97, 99, 101, 102, 107, 108, 111, 113, 115, 122, 139, 140, 141, 158, 163, 169], "bibtex": [4, 59], "misc": [4, 128, 130, 153], "url": [4, 12, 17, 55, 59, 126, 127, 161, 163], "year": [4, 17, 24, 55, 63, 96, 117, 127, 157], "releas": [4, 18, 19, 20, 24, 27, 30, 31, 46, 49, 55, 60, 61, 62, 90, 96, 104, 105, 110], "refer": [4, 5, 22, 32, 34, 35, 36, 38, 39, 41, 48, 50, 55, 59, 66, 67, 71, 75, 88, 92, 94, 97, 98, 102, 104, 106, 111, 113, 126, 128, 138, 139, 141, 150, 157, 161, 163, 165, 166], "particular": [4, 6, 12, 22, 24, 30, 32, 34, 44, 47, 48, 50, 52, 55, 56, 59, 65, 66, 67, 71, 78, 82, 83, 85, 86, 88, 102, 103, 104, 106, 108, 113, 114, 115, 116, 119, 122, 123, 124, 125, 126, 128, 129, 131, 146, 157, 158, 169], "obtain": [4, 6, 12, 34, 46, 47, 49, 50, 52, 62, 63, 72, 97, 98, 99, 115, 131, 139, 143, 152, 161, 169], "your": [4, 6, 15, 16, 18, 21, 22, 26, 27, 28, 36, 38, 40, 44, 47, 57, 58, 59, 60, 61, 62, 76, 81, 82, 84, 86, 87, 88, 89, 90, 93, 95, 96, 97, 98, 107, 108, 110, 111, 112, 113, 115, 116, 118, 126, 139, 144, 145, 155, 156, 161, 164, 166], "multipl": [4, 5, 6, 13, 25, 30, 34, 35, 42, 47, 81, 88, 94, 97, 98, 109, 111, 116, 118, 124, 128, 138, 139, 148, 157, 158], "past": [4, 23, 27, 58, 64, 70, 103, 124, 127, 131, 137, 141, 142, 150], "17605": [4, 59, 137], "osf": [4, 137], "io": [4, 58, 59, 85, 98, 103, 137], "kmw6h": [4, 59, 137], "recent": [4, 13, 18, 24, 29, 32, 49, 54, 58, 61, 66, 68, 76, 82, 84, 85, 123, 127, 128, 129, 130, 131, 132, 133, 134, 135, 136, 137, 139, 153, 165], "articl": [4, 17, 96, 152], "l": [4, 7, 17, 34, 43, 61, 115, 139, 145, 149], "hadjimichael": [4, 17, 86], "2016": [4, 17, 26, 58], "build": [4, 17, 30, 31, 58, 59, 62, 71, 89, 99, 109, 125, 136, 141], "open": [4, 13, 17, 27, 30, 31, 32, 55, 63, 81, 86, 90, 94, 97, 109, 141, 145, 165, 167], "sourc": [4, 17, 18, 25, 27, 30, 32, 44, 48, 49, 55, 56, 58, 59, 61, 62, 63, 65, 67, 68, 81, 86, 89, 93, 94, 95, 104, 105, 107, 108, 109, 113, 114, 116, 124, 125, 126, 135, 136, 140, 142, 147, 149, 150, 151, 154, 155, 156, 157, 161], "ecosystem": [4, 17], "pde": [4, 5, 17, 60, 61, 62, 78, 85, 96, 108, 147, 166], "peerj": [4, 17], "scienc": [4, 17, 86], "7717": [4, 17], "c": [4, 16, 17, 30, 31, 32, 44, 55, 63, 65, 82, 86, 88, 89, 94, 102, 107, 108, 139], "68": [4, 17], "mandli2016clawpack": [4, 17], "yianni": [4, 17, 86], "journal": [4, 17, 56, 96, 152], "e68": [4, 17], "publish": [4, 17, 58, 96], "inc": [4, 17, 71], "least": [4, 5, 6, 13, 37, 47, 55, 63, 64, 70, 71, 107, 115, 116, 123, 124, 131, 147, 149, 153, 161, 163], "regard": [4, 41, 123, 157], "click": [4, 12, 13, 20, 30, 55, 58, 59, 116, 125, 134, 135, 136, 137], "link": [4, 11, 13, 15, 17, 20, 21, 22, 26, 27, 30, 44, 45, 48, 55, 56, 57, 58, 59, 61, 63, 110, 111, 112, 125, 134, 135, 136, 137, 139, 140, 142, 144, 151, 155, 156, 161, 165], "classic": [4, 6, 12, 15, 16, 21, 22, 24, 25, 26, 30, 44, 45, 46, 50, 59, 60, 61, 62, 67, 74, 76, 77, 78, 85, 86, 88, 91, 93, 94, 95, 96, 97, 101, 111, 112, 116, 138, 139, 144, 145, 148, 150, 156, 164, 166], "2d": [4, 7, 8, 15, 16, 18, 21, 24, 27, 29, 34, 36, 37, 41, 42, 48, 49, 51, 56, 63, 71, 76, 81, 86, 88, 94, 96, 100, 104, 110, 112, 115, 122, 124, 125, 126, 127, 128, 131, 135, 140, 141, 143, 144, 147, 148, 151, 153, 155, 156, 163, 167, 169], "leveque97": [4, 17], "3d": [4, 7, 15, 18, 24, 32, 71, 76, 81, 86, 96, 100, 104, 112, 115, 118, 120, 122, 123, 124, 127, 135, 139, 141, 144, 147, 148, 155, 156, 167, 169], "langsethleveque00": [4, 17], "amr": [4, 7, 8, 16, 18, 22, 25, 27, 29, 30, 34, 36, 37, 41, 47, 48, 49, 56, 63, 71, 72, 73, 77, 78, 81, 86, 94, 123, 125, 126, 127, 129, 131, 134, 143, 146, 147, 149, 151, 160, 166], "bergerleveque98": [4, 6, 7, 17], "f": [4, 5, 6, 16, 18, 22, 24, 27, 29, 30, 33, 66, 67, 89, 91, 97, 98, 101, 102, 104, 106, 107, 109, 118, 122, 125, 126, 127, 131, 140, 147, 148, 149, 151, 163, 164, 166], "balelevmitross02": [4, 17, 147, 169], "bergergeorgelevequemandli11": [4, 17], "levequegeorgeberg": [4, 17], "order": [4, 5, 6, 13, 16, 17, 18, 31, 32, 34, 36, 47, 52, 57, 62, 64, 67, 70, 71, 72, 75, 77, 78, 82, 84, 85, 86, 88, 91, 92, 94, 96, 97, 98, 100, 101, 104, 108, 109, 110, 111, 115, 122, 126, 131, 135, 139, 141, 143, 146, 147, 148, 149, 151, 157, 161, 163, 164, 166, 169], "sharpclaw": [4, 25, 27, 78, 86, 93, 95, 96, 101, 118, 139], "ketparlev13": [4, 17, 78, 96, 139], "ketchesonmandliet": [4, 17], "support": [4, 8, 13, 18, 24, 36, 37, 41, 44, 49, 52, 55, 60, 61, 73, 75, 77, 85, 86, 88, 89, 94, 97, 98, 100, 102, 104, 115, 122, 124, 125, 126, 127, 131, 132, 134, 135, 139, 141, 147, 148, 150, 157, 158, 161, 164, 167], "part": [4, 5, 24, 26, 32, 36, 48, 52, 62, 63, 64, 86, 89, 99, 105, 106, 108, 110, 114, 116, 128, 166], 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38, 39, 44, 58, 76, 78, 82, 84, 89, 95, 96, 115, 118, 122, 124, 126, 127, 129, 135, 143, 144, 147, 149, 150, 151, 152, 155, 156, 161, 164, 166], "coeffici": [5, 68, 101, 102, 104, 106, 107, 108, 139, 150], "matric": [5, 139, 169], "transpos": 5, "vice": 5, "versa": 5, "q_t": [5, 101, 102, 104, 108, 166, 169], "q_x": [5, 102, 108, 169], "_x": [5, 42, 70, 102, 104, 163, 166, 169], "eigenvalu": 5, "unchang": [5, 71], "upon": [5, 106], "transform": [5, 44], "eigenvector": [5, 139, 169], "right": [5, 34, 65, 68, 75, 86, 94, 99, 101, 102, 106, 108, 131, 138, 139, 141, 169], "rp1_acoustics_variable_adjoint": 5, "f90": [5, 9, 15, 22, 33, 34, 36, 42, 47, 49, 56, 66, 67, 76, 77, 85, 101, 112, 115, 118, 122, 124, 126, 127, 128, 129, 131, 132, 135, 139, 140, 143, 144, 153, 155, 156, 161, 164, 166], "boundari": [5, 7, 22, 27, 42, 55, 63, 67, 70, 75, 76, 89, 94, 102, 104, 108, 113, 119, 122, 126, 141, 147, 149, 151], "condit": [5, 7, 22, 27, 65, 67, 78, 86, 87, 88, 89, 91, 98, 104, 112, 118, 119, 122, 126, 142, 147, 149, 150, 151], "adjust": [5, 13, 22, 34, 35, 48, 63, 77, 94, 98, 135, 138, 142, 147, 166], "principl": [5, 163, 166], "vanish": 5, "dure": [5, 24, 34, 42, 47, 63, 75, 78, 118, 142, 143, 149, 150, 151, 153, 161], "integr": [5, 24, 57, 64, 86, 96, 98, 104, 118, 119, 123, 149, 151, 160, 161, 166], "qinit": [5, 22, 24, 42, 48, 66, 67, 89, 131, 142, 143, 166], "setrun": [5, 6, 7, 8, 14, 16, 21, 22, 27, 34, 35, 36, 37, 38, 39, 41, 42, 43, 45, 48, 49, 50, 52, 63, 64, 66, 68, 70, 77, 78, 82, 96, 112, 113, 115, 118, 122, 123, 124, 127, 129, 131, 134, 135, 136, 138, 139, 142, 143, 153, 157, 161, 164, 166], "clawdata": [5, 41, 49, 77, 118, 122, 138, 147, 148, 149, 150, 151], "tfinal": [5, 77, 88, 91, 108, 138, 147, 149, 151], "via": [5, 13, 24, 25, 26, 30, 31, 32, 36, 38, 39, 44, 45, 47, 50, 52, 55, 58, 59, 61, 62, 64, 66, 70, 71, 75, 76, 78, 82, 85, 88, 94, 97, 100, 103, 105, 107, 111, 115, 116, 126, 129, 139, 141, 145, 150, 152, 155, 156, 161, 163, 166], "num_output_tim": 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151, 163, 164], "clawrundata": [5, 47, 63, 127, 138, 147, 148, 149, 151], "adjointdata": [5, 127, 128], "ia": 5, "attribur": 5, "toler": [5, 34, 102, 109, 115, 116, 124, 148, 149, 150], "rundata": [5, 18, 24, 34, 36, 41, 42, 47, 49, 63, 64, 115, 118, 129, 138, 143, 147, 148, 149, 150, 151, 153], "use_adjoint": 5, "adjoint_outdir": 5, "abspath": [5, 41], "_output": [5, 13, 14, 34, 36, 38, 39, 47, 54, 64, 71, 82, 84, 93, 98, 100, 103, 123, 130, 164], "period": [5, 6, 16, 34, 66, 88, 101, 115, 147, 149, 151], "t1": [5, 41, 47, 63, 64, 115, 131, 148, 149, 150], "t0": [5, 77, 138, 147, 149, 150, 151, 161], "t2": [5, 41, 47, 63, 64, 115, 131, 148, 149, 150], "addit": [5, 7, 13, 16, 18, 25, 26, 30, 31, 34, 36, 39, 40, 41, 48, 49, 50, 63, 70, 75, 77, 78, 82, 83, 89, 92, 94, 96, 98, 104, 105, 106, 113, 115, 122, 124, 125, 126, 127, 130, 131, 133, 134, 135, 139, 141, 147, 151, 157, 160, 161, 166, 167], "aux": [5, 6, 15, 22, 24, 29, 47, 57, 89, 96, 97, 98, 101, 103, 104, 106, 107, 118, 119, 124, 126, 139, 140, 144, 147, 148, 149, 150, 151, 166], "inner": [5, 115, 127], "product": [5, 32, 65, 86, 109, 115, 127], "amrdata": [5, 24, 34, 115, 129, 131, 148, 149, 150], "aux_typ": [5, 148, 149], "append": [5, 22, 34, 36, 41, 42, 47, 55, 64, 82, 91, 103, 115, 123, 124, 138, 139, 149, 150], "num_aux": [5, 89, 97, 99, 101, 102, 106, 139, 147, 148, 149, 151, 166], "len": [5, 32, 37, 94, 149, 151, 163], "innerprod_index": 5, "base": [5, 6, 13, 22, 23, 24, 30, 31, 32, 34, 35, 36, 48, 49, 51, 55, 56, 57, 58, 63, 64, 67, 68, 70, 71, 75, 78, 89, 91, 92, 94, 96, 97, 102, 103, 104, 106, 108, 109, 115, 117, 122, 125, 127, 131, 134, 135, 142, 147, 148, 149, 150, 151, 157, 163, 166, 169], "richardson": [5, 7, 24, 148, 149], "error": [5, 16, 22, 38, 39, 43, 55, 62, 71, 76, 82, 91, 96, 97, 98, 109, 115, 116, 127, 131, 148, 149, 157, 164], "estimat": [5, 149], "flag_richardson": [5, 115, 123, 148, 149], "flag_richardson_tol": [5, 115, 148, 149], "1e": [5, 70, 151], "flag2refin": [5, 7, 24, 148, 149], "flag2refine_tol": [5, 115, 148, 149], "01": [5, 42, 77, 94, 163], "we": [5, 6, 18, 24, 26, 28, 34, 38, 39, 41, 42, 47, 52, 55, 57, 58, 59, 60, 62, 67, 70, 72, 75, 81, 84, 88, 89, 90, 91, 93, 94, 97, 98, 99, 100, 101, 104, 105, 106, 107, 108, 109, 110, 113, 116, 126, 129, 134, 136, 139, 140, 141, 163], "attempt": [5, 8, 11, 22, 35, 38, 39, 66, 97, 103, 109, 116, 118, 132, 157, 163, 164], "estim": [5, 68, 115, 148, 150], "step": [5, 6, 10, 16, 18, 21, 30, 34, 36, 38, 39, 40, 47, 55, 58, 59, 64, 71, 77, 78, 81, 84, 86, 87, 88, 89, 91, 98, 101, 104, 106, 108, 113, 115, 118, 123, 124, 134, 138, 139, 145, 147, 148, 149, 150, 151, 161, 169], "extrapol": [5, 7, 16, 24, 72, 101, 108, 126, 147, 148, 149, 151], "togeth": [5, 16, 30, 31, 32, 58, 60, 75, 115, 134], "experiment": [5, 86], "simpli": [5, 13, 36, 38, 39, 40, 42, 47, 49, 55, 57, 66, 67, 70, 72, 88, 90, 91, 93, 98, 99, 105, 116, 139, 141, 152, 157, 163, 166, 167], "magnitud": [5, 32, 115, 126, 150], "greater": [5, 34, 63, 68, 70, 105, 115, 138, 147, 148, 150], "model": [5, 12, 16, 17, 18, 26, 27, 32, 34, 44, 48, 49, 50, 56, 57, 68, 98, 115, 123, 128, 129, 130, 141, 142, 143, 150, 153, 157, 158, 161], "davisleveque2016": [5, 17], "chile2010_adjoint": 5, "shallow": [5, 15, 16, 17, 18, 27, 34, 36, 42, 48, 49, 52, 56, 70, 78, 89, 96, 112, 119, 120, 122, 124, 126, 127, 135, 136, 139, 143, 144, 150, 155, 156, 161, 166], "water": [5, 16, 17, 18, 27, 36, 42, 47, 48, 49, 50, 51, 52, 63, 70, 78, 81, 89, 96, 119, 120, 124, 126, 127, 136, 139, 141, 142, 143, 150, 161, 163, 165, 166], "while": [5, 13, 16, 32, 42, 55, 71, 75, 82, 84, 89, 94, 98, 99, 104, 109, 126, 139, 143, 150, 165], "suitabl": [5, 8, 16, 18, 22, 48, 52, 55, 73, 77, 103, 114, 139, 142, 157, 163], "To": [5, 6, 13, 14, 19, 20, 24, 27, 30, 31, 38, 39, 40, 41, 42, 43, 47, 50, 53, 55, 56, 59, 66, 69, 70, 71, 75, 76, 77, 82, 84, 85, 88, 90, 92, 93, 96, 97, 98, 99, 100, 101, 104, 105, 108, 111, 113, 114, 115, 116, 122, 124, 127, 128, 129, 130, 131, 132, 133, 134, 135, 136, 138, 142, 145, 147, 148, 152, 161, 167], "date": [5, 30, 43, 51, 55, 58, 59, 66, 82, 157, 164], "across": [5, 115, 124, 161, 163], "ocean": [5, 16, 17, 34, 49, 52, 55, 113, 115, 141, 150, 155, 156, 161], "wai": [5, 6, 13, 16, 28, 30, 36, 38, 39, 41, 42, 47, 49, 55, 57, 58, 61, 62, 63, 65, 66, 82, 84, 85, 86, 88, 91, 93, 94, 99, 101, 103, 105, 108, 110, 111, 113, 114, 118, 124, 125, 126, 129, 137, 139, 141, 146, 147, 154, 158, 161, 166, 168, 169], "target": [5, 62, 82, 89, 101, 129], "possibli": [5, 32, 36, 70, 88, 94, 111, 123, 143], "deep": [5, 49, 70], "amplitud": [5, 124], "compar": [5, 18, 24, 39, 47, 49, 52, 55, 59, 82, 98, 115, 116, 142, 148, 159, 165, 169], "essenti": [5, 57, 71, 104, 150, 161], "rest": [5, 24, 84, 113, 126, 142, 155, 156, 161, 163], "henc": [5, 36, 57, 58, 67, 72, 104, 110, 111, 115, 143], "take": [5, 6, 24, 29, 30, 32, 34, 37, 51, 58, 68, 70, 71, 75, 82, 88, 94, 101, 104, 108, 109, 110, 115, 116, 121, 127, 135, 143, 147, 148, 149, 150, 163, 166, 169], "rpn2_geoclaw_adjoint_qwav": 5, "rpt2_geoclaw_adjoint_qwav": 5, "non": [5, 16, 59, 70, 78, 89, 101, 108, 127, 129, 147, 149, 151, 157, 169], "vector": [5, 24, 88, 92, 98, 106, 126, 134, 139, 140], "split": [5, 6, 76, 94, 97, 104, 122, 123, 131, 147, 148, 149, 151, 160, 166, 169], "flux": [5, 17, 34, 36, 37, 94, 102, 104, 139, 147, 169], "comment": [5, 11, 26, 53, 59, 125, 134, 138], "rpn2": [5, 139], "basic": [6, 10, 12, 27, 32, 38, 40, 48, 61, 70, 71, 88, 94, 96, 97, 98, 102, 104, 116, 139, 140, 157, 169], "strategi": 6, "logic": [6, 16, 17, 34, 131, 150], "rectangular": [6, 7, 16, 17, 32, 34, 37, 41, 42, 48, 50, 63, 70, 94, 115, 126, 129, 134, 148, 150, 161], "too": [6, 51, 55, 58, 59, 123, 141, 149, 151, 153], "portion": [6, 36, 42, 55, 70, 89, 134, 160], "factor": [6, 55, 148, 150, 160, 163], "direct": [6, 8, 16, 24, 32, 34, 36, 38, 39, 47, 49, 51, 55, 59, 63, 65, 66, 71, 75, 76, 82, 86, 91, 101, 108, 115, 125, 139, 147, 148, 150, 163], "anisotrop": [6, 24], "perhap": [6, 12, 18, 34, 42, 47, 58, 82, 106, 109, 115, 141], "section": [6, 13, 16, 36, 38, 39, 42, 44, 49, 50, 52, 58, 59, 67, 71, 81, 84, 96, 116, 131, 138, 147, 150, 163], "cfl": [6, 94, 98, 104, 108, 118, 123, 147, 149, 150, 151], "spatial": [6, 17, 27, 32, 36, 37, 41, 42, 47, 48, 49, 64, 68, 72, 101, 115, 118, 122, 129, 131, 139, 142, 148, 149, 150, 151, 169], "reduc": [6, 16, 36, 42, 49, 55, 123, 125, 134, 169], "thu": [6, 51, 98, 101, 126, 157], "proce": [6, 18, 30, 150], "advanc": [6, 17, 36, 56, 70, 76, 108, 123, 135, 147, 148, 166], "taken": [6, 34, 70, 75, 98, 104, 115, 147, 166], "around": [6, 32, 34, 42, 63, 97, 113, 116, 129, 148, 149, 157, 163, 166], "librari": [6, 13, 15, 16, 18, 22, 24, 27, 29, 30, 34, 36, 38, 39, 44, 47, 49, 56, 63, 66, 76, 77, 78, 86, 92, 97, 99, 104, 109, 111, 112, 115, 124, 129, 143, 144, 148, 155, 156, 164, 166], "bcnamr": [6, 16, 126, 147, 149, 166], "check": [6, 14, 15, 16, 22, 34, 38, 39, 43, 44, 54, 55, 56, 58, 59, 60, 62, 66, 71, 82, 85, 88, 89, 91, 96, 99, 103, 104, 106, 108, 109, 111, 112, 115, 119, 128, 141, 143, 144, 148, 149, 155, 156, 157, 163, 164, 165, 166], "denot": [6, 24, 37, 47, 57, 139, 163], "procedur": [6, 16, 42, 48, 49, 59, 166], "updat": [6, 12, 13, 24, 25, 27, 34, 53, 56, 61, 62, 64, 84, 96, 104, 106, 107, 110, 113, 118, 122, 124, 125, 126, 127, 128, 129, 139, 148, 149, 151, 154, 157, 160, 166], "consist": [6, 27, 34, 36, 51, 55, 59, 63, 99, 110, 124, 134, 135, 139, 141, 150, 161, 166], "replac": [6, 13, 31, 36, 41, 47, 52, 56, 58, 59, 61, 64, 66, 81, 89, 93, 97, 99, 100, 101, 102, 106, 109, 116, 118, 124, 126, 128, 129, 134, 138, 139, 143, 163, 164], "ly": [6, 70], "within": [6, 16, 30, 36, 37, 58, 62, 70, 72, 78, 82, 100, 109, 111, 115, 139, 141, 146, 152, 163], "approxim": [6, 16, 18, 27, 35, 52, 55, 72, 75, 139], "lead": [6, 13, 24, 34, 36, 52, 55, 68, 71, 75, 111, 114, 131, 143, 148], "total": [6, 32, 36, 55, 75, 77, 98, 104, 147, 148, 149, 151, 160], "mass": [6, 98, 153], "restor": 6, "global": [6, 14, 94, 106, 109, 142, 161, 165, 166], "fix": [6, 21, 22, 24, 27, 35, 37, 41, 47, 48, 49, 58, 59, 63, 64, 66, 70, 72, 86, 97, 102, 118, 119, 120, 121, 122, 123, 124, 125, 127, 128, 129, 130, 131, 132, 133, 134, 135, 136, 140, 147, 149, 151, 163], "up": [6, 13, 18, 24, 30, 31, 32, 34, 36, 38, 39, 42, 43, 47, 48, 55, 58, 59, 63, 66, 70, 71, 75, 77, 82, 88, 89, 91, 93, 95, 96, 97, 99, 104, 105, 108, 111, 113, 115, 116, 122, 123, 126, 129, 131, 136, 141, 143, 146, 149, 151, 160, 161, 164, 165], "style": [6, 24, 30, 32, 36, 41, 53, 55, 70, 73, 82, 86, 91, 126, 150], "olig": [6, 17], "colella": [6, 17], "bergeroliger84": [6, 17], "bergercolella89": [6, 17], "fortran": [6, 9, 11, 13, 14, 22, 25, 29, 30, 32, 34, 35, 36, 37, 38, 47, 48, 50, 57, 60, 62, 66, 67, 68, 72, 76, 77, 78, 81, 84, 86, 88, 89, 91, 94, 96, 97, 99, 101, 102, 104, 105, 106, 109, 111, 122, 123, 124, 126, 127, 128, 134, 135, 139, 140, 145, 148, 149, 150, 151, 157, 159, 160, 161], "written": [6, 11, 27, 32, 34, 36, 37, 43, 47, 62, 63, 64, 65, 75, 77, 78, 82, 86, 95, 96, 97, 101, 124, 139, 147, 148, 149, 150, 151, 157, 163, 166], "ga": [6, 102], "dynam": [6, 22, 32, 36, 52, 75, 78, 148], "merg": [6, 13, 27, 30, 56, 58, 59, 62, 122], "earli": [6, 22, 143], "mjb": [6, 17], "rjl": [6, 17, 111, 128, 153], "fulli": [6, 52, 55, 56, 125, 129, 139, 150, 157, 158], "consid": [6, 42, 52, 62, 70, 89, 111, 145, 152, 163], "adjac": [6, 16, 34, 48, 115, 143, 147], "equival": [6, 47, 56, 57, 63, 64, 77, 128, 134, 161], "copi": [6, 14, 15, 16, 38, 39, 47, 55, 58, 59, 62, 71, 88, 91, 101, 106, 112, 113, 114, 115, 119, 123, 126, 130, 143, 144, 148, 152, 155, 156, 161, 166], "interior": [6, 16, 42, 77, 106], "howev": [6, 13, 16, 18, 24, 34, 38, 39, 42, 44, 49, 50, 52, 55, 62, 65, 67, 70, 72, 75, 76, 77, 86, 89, 96, 115, 116, 124, 126, 128, 142, 143, 146, 150, 160], "lie": [6, 34, 35, 37, 70, 72, 115, 129, 141], "outsid": [6, 16, 41, 63, 70, 129, 141, 143, 161, 163], "li": [6, 16, 34, 37, 72, 115, 141], "along": [6, 14, 16, 26, 29, 32, 34, 42, 47, 55, 58, 61, 75, 77, 111, 115, 122, 137, 138, 141, 143, 150, 165], "proper": [6, 15, 42, 47, 56, 57, 58, 59, 63, 68, 70, 71, 97, 109, 118, 124, 144, 148, 149, 155, 156, 157, 166], "unless": [6, 34, 43, 44, 63, 102, 110, 142, 147, 148, 163], "standard": [6, 16, 32, 34, 36, 49, 55, 57, 71, 77, 89, 92, 104, 111, 115, 116, 149, 150, 151, 152, 161, 166, 169], "beyond": [6, 32, 110, 126], "modifi": [6, 9, 14, 15, 16, 18, 22, 24, 29, 34, 38, 39, 42, 47, 48, 58, 59, 62, 64, 66, 71, 74, 82, 89, 92, 94, 96, 101, 111, 112, 113, 114, 115, 121, 123, 124, 125, 126, 131, 141, 143, 144, 147, 149, 150, 151, 155, 156, 161, 163, 166], "damag": [6, 65, 86], "bcn": [6, 16, 151, 166], "nd": [6, 16, 115, 126, 129, 166], "actual": [6, 29, 32, 36, 57, 62, 63, 71, 75, 82, 92, 97, 109, 113, 142, 150], "softwar": [6, 13, 26, 27, 31, 48, 52, 65, 86, 96, 97, 98, 152, 161], "With": [6, 24, 30, 47, 53, 55, 62, 70, 78, 115, 123, 139, 141, 147], "opposit": [6, 16, 97], "side": [6, 16, 20, 34, 55, 58, 68, 75, 97, 116, 134, 135, 136, 139, 169], "everi": [6, 12, 30, 34, 36, 47, 64, 66, 67, 77, 88, 91, 93, 97, 98, 106, 115, 116, 124, 125, 139, 143, 145, 147, 149, 151, 157, 161, 163, 166], "few": [6, 12, 13, 24, 28, 31, 39, 49, 52, 58, 70, 71, 89, 104, 108, 110, 115, 116, 129, 142, 159, 161, 166], "coarsest": [6, 36, 55, 77, 118, 138, 147], "revis": [6, 124], "shock": [6, 17, 52, 104, 115], "accord": [6, 57], "criteria": [6, 7, 24, 27, 34, 70, 106], "cluster": [6, 17, 115, 148, 149], "rigoutsi": 6, "bergerrigoutsis91": [6, 17], "nonoverlap": 6, "rectangl": [6, 7, 27, 32, 36, 70, 75, 115, 129, 163], "balanc": [6, 17, 78, 125, 140, 155, 156], "conflict": [6, 30, 62, 66, 71, 107, 111], "goal": 6, "possibl": [6, 13, 24, 28, 30, 32, 34, 36, 37, 47, 49, 51, 52, 55, 64, 65, 66, 75, 82, 86, 94, 97, 99, 100, 104, 109, 111, 115, 139, 141, 142, 147, 148, 161, 165, 166], "minim": [6, 62, 70, 97, 141, 148, 163], "overhead": [6, 76, 115, 160], "cutoff": [6, 149], "control": [6, 7, 25, 27, 34, 36, 44, 47, 58, 62, 64, 71, 77, 84, 87, 92, 94, 96, 97, 98, 99, 101, 115, 124, 129, 140, 150], "fraction": [6, 13, 32, 115, 147, 166, 169], "70": [6, 36, 55], "realli": [6, 72, 116, 166], "At": [6, 13, 29, 30, 36, 38, 39, 42, 70, 99, 104, 108, 110, 115, 129, 147], "present": [6, 26, 63, 72, 94, 102, 103, 104, 109, 152, 166, 169], "previous": [6, 24, 34, 70, 77, 84, 122, 129, 143], "bilinear": [6, 34, 42, 47, 57, 72, 118, 119, 161], "doxygen": [6, 7, 27, 125], "flowchart": [6, 7, 27], "capabl": [7, 12, 24, 34, 36, 47, 52, 56, 64, 70, 78, 89, 96, 118, 123, 124, 126, 127, 128, 129, 130, 134, 135, 163, 165], "block": [7, 32, 42, 63, 75, 77, 78, 88, 97, 106, 109, 116, 166], "structur": [7, 10, 24, 34, 36, 37, 41, 59, 62, 66, 78, 103, 104, 124, 141, 146, 163], "input": [7, 14, 16, 22, 25, 27, 29, 32, 35, 37, 43, 48, 55, 63, 67, 70, 71, 77, 88, 91, 92, 94, 96, 102, 103, 104, 109, 113, 123, 126, 127, 128, 139, 149, 150, 151, 157, 158, 161, 163, 166], "indic": [7, 16, 22, 24, 27, 31, 32, 34, 36, 41, 42, 44, 47, 48, 55, 57, 59, 62, 67, 71, 72, 80, 84, 94, 98, 99, 102, 104, 108, 111, 115, 116, 124, 129, 131, 139, 140, 147, 148, 149, 150, 151, 153, 161, 163, 166], "tool": [7, 8, 17, 24, 25, 30, 32, 34, 35, 36, 37, 38, 39, 42, 48, 49, 50, 51, 52, 55, 57, 60, 61, 62, 63, 71, 75, 80, 81, 82, 83, 85, 96, 111, 114, 119, 120, 124, 125, 129, 130, 150, 152, 161, 163, 165, 167], "matlab": [7, 24, 27, 38, 39, 80, 81, 82, 100, 110, 126, 129, 130], "deprec": [7, 32, 48, 58, 62, 122, 126, 134, 136, 161, 163], "debug": [7, 18, 44, 66, 77, 81, 98, 106, 111, 116, 134, 147, 149], "flag": [7, 12, 13, 18, 24, 27, 30, 31, 41, 43, 44, 48, 56, 62, 76, 89, 107, 109, 111, 122, 127, 131, 149, 150], "sampl": [7, 8, 14, 17, 18, 27, 31, 34, 44, 47, 48, 55, 64, 75, 111, 116, 134, 138, 141, 147, 148, 161, 163, 166], "ghost": [7, 16, 76, 77, 94, 97, 104, 106, 124, 131, 135, 147, 149, 151, 160, 166, 169], "flagregion": [7, 27, 70, 115, 129, 131, 141, 148, 150], "rule": [7, 13, 27, 63, 70, 89], "convex": [7, 34], "slu": 7, "bounding_box": [7, 35], "mask_outsid": [7, 70], "write": [7, 30, 32, 35, 36, 37, 41, 42, 47, 48, 54, 57, 58, 68, 75, 77, 78, 81, 88, 91, 94, 95, 97, 98, 99, 103, 124, 126, 149, 151, 157, 161, 163], "instanti": [7, 91, 99, 101, 104, 106, 135, 149, 151], "make_kml": 7, "simpl": [7, 31, 38, 39, 41, 48, 59, 72, 75, 89, 96, 101, 102, 104, 109, 114, 116, 163], "select": [7, 12, 13, 15, 16, 30, 34, 42, 70, 98, 104, 112, 115, 118, 125, 129, 137, 144, 147, 150, 155, 156, 165], "continent": [7, 70], "shelf": [7, 70], "guid": [7, 13, 17, 20, 25, 26, 27, 48, 50, 56, 61, 96, 110, 115, 125, 129, 134, 135, 136, 154], "adjoint": [7, 17, 27, 56, 115, 126, 127], "gaug": [7, 27, 34, 36, 48, 63, 72, 94, 95, 106, 113, 118, 122, 123, 124, 125, 126, 129, 134, 138, 142, 146, 149], "extend": [8, 16, 24, 42, 63, 70, 71, 94, 126, 141, 143, 150, 161, 163, 169], "directli": [8, 21, 25, 34, 48, 52, 61, 71, 75, 82, 84, 88, 89, 92, 96, 106, 109, 111, 126, 134, 163, 167], "obviou": [8, 55], "elimin": [8, 24, 70, 89, 111, 126, 150], "gallery_classic_amrclaw": [8, 38], "num_cel": [8, 24, 49, 94, 139, 147, 148, 149, 151], "refinement_ratios_i": [8, 148, 149], "sweep": [8, 139], "transvers": [8, 94, 124, 131, 139, 140, 147, 166, 169], "graph": 9, "understand": [9, 27, 38, 39, 52, 81, 96, 108, 115, 139], "filpatch": [9, 42, 124, 128, 131], "idea": [10, 26, 32, 70, 71, 78, 88, 108, 119, 163, 169], "overal": [10, 88], "who": [10, 12, 21, 24, 26, 34, 44, 52, 60], "gori": 10, "monster": 10, "column": [10, 32, 34, 47, 49, 52, 64, 98, 102, 122, 141, 163], "markup": 11, "languag": [11, 81, 109], "restructur": [11, 58], "text": [11, 58, 59, 63, 77, 91, 97, 104, 122], "sphinx": [11, 25, 27, 59, 125], "covert": 11, "convert_readm": 11, "brows": [11, 26, 45, 55, 71, 152, 166], "insert": [11, 16, 75, 97, 145], "script": [11, 21, 22, 30, 32, 34, 43, 47, 55, 58, 66, 71, 78, 81, 86, 89, 93, 95, 96, 98, 99, 104, 109, 111, 116, 126, 130, 139, 146, 150, 151, 163], "invok": [11, 14, 76, 143, 164], "minor": [11, 55, 58, 98, 118, 119, 120, 121, 122, 123, 124, 125, 126, 127, 129, 131, 133, 135, 136], "syntax": [11, 61, 145], "highlight": [11, 13], "header": [11, 32, 34, 36, 42, 47, 57, 70, 75, 77, 97, 103, 122, 124, 126, 157, 161, 163], "complex": [12, 36, 41, 94], "archiv": [12, 23, 39, 55, 59, 116, 152, 159, 163, 165], "github": [12, 15, 24, 25, 26, 27, 28, 31, 56, 58, 61, 62, 93, 101, 105, 112, 116, 121, 123, 124, 125, 134, 137, 139, 140, 144, 155, 156, 164], "app": [12, 13, 20, 25, 28, 30, 31, 34, 40, 45, 46, 75, 113, 114, 121, 125, 126, 127, 128, 129, 130, 131, 132, 133, 134, 135, 136, 140], "com": [12, 13, 25, 26, 28, 30, 31, 56, 58, 59, 61, 62, 97, 99, 101, 105, 121, 123, 124, 125, 134, 137, 140], "fvmbook": [12, 45], "galleri": [12, 27, 38, 39, 40, 45, 59, 80, 81, 93, 96, 110, 116, 121, 125, 152, 159, 166], "anim": [12, 16, 36, 45, 49, 55, 122, 129, 130, 134, 152], "instal": [12, 13, 20, 25, 27, 31, 38, 46, 55, 58, 59, 84, 86, 87, 90, 95, 97, 108, 110, 116, 117, 118, 119, 120, 121, 122, 123, 124, 125, 126, 127, 128, 129, 130, 131, 132, 133, 134, 135, 136, 137, 145, 168], "collect": [12, 27, 28, 30, 32, 34, 75, 81, 88, 104, 152], "either": [12, 16, 22, 32, 34, 36, 42, 48, 50, 55, 64, 66, 70, 71, 75, 77, 82, 84, 88, 94, 96, 97, 98, 104, 109, 111, 115, 116, 122, 123, 124, 126, 134, 139, 141, 143, 148, 150, 157, 161, 163, 166, 169], "clone": [12, 20, 25, 26, 45, 56, 58, 59, 62, 85, 99, 105, 114, 134, 135, 136, 164], "git": [12, 13, 25, 26, 27, 28, 56, 59, 62, 96, 105, 116, 128], "navig": [12, 31, 58, 152], "green": [12, 18, 63, 70, 75, 82, 116, 163], "button": [12, 13, 30, 55, 63, 125], "download": [12, 13, 30, 31, 32, 39, 40, 42, 48, 55, 59, 61, 62, 93, 99, 105, 126, 127, 137, 159, 163, 164, 165], "zip": [12, 55, 59], "illustr": [12, 27, 32, 34, 38, 46, 49, 55, 70, 71, 75, 77, 114, 121, 122, 126, 128, 139, 141, 152, 163], "variou": [12, 22, 24, 32, 36, 41, 46, 52, 58, 71, 72, 75, 82, 84, 94, 108, 110, 111, 115, 124, 139, 146, 150, 157], "visibl": [12, 13, 46, 55, 114, 152], "render": [12, 24, 46, 55, 63, 167], "advantag": [12, 36, 47, 64, 81, 97, 110, 116, 141], "independ": [12, 25, 32, 36, 37], "contact": [12, 93, 96, 105], "u": [12, 13, 16, 26, 31, 34, 36, 37, 51, 52, 59, 60, 62, 64, 86, 93, 96, 102, 105, 106, 107, 108, 113, 125, 139, 148, 151, 157, 165], "storm": [12, 17, 26, 27, 48, 122, 125, 126, 127, 128, 130, 131, 132], "surg": [12, 17, 26, 27, 48, 122, 125, 126, 127, 128, 131, 157], "empti": [12, 36, 47, 103, 106, 109, 111, 147, 150, 157, 163], "gitmodul": 12, "pull": [12, 26, 28, 31, 58, 59, 61, 93, 101, 116, 121, 124, 125, 131, 134, 139], "request": [12, 26, 28, 32, 36, 37, 47, 58, 61, 77, 88, 93, 94, 98, 101, 103, 116, 124, 126, 131, 139, 150, 157, 163], "init": [12, 27, 30, 42, 48, 56, 59, 61, 142, 150], "leav": [12, 13, 16, 47, 62, 148, 163], "off": [12, 13, 47, 52, 55, 63, 71, 84, 91, 98, 115, 134, 148, 153, 163], "won": [12, 13, 70, 89, 163], "hurt": [12, 67], "maintain": [12, 30, 110, 126, 148, 161, 166], "flavor": [12, 23, 97], "demonstr": [12, 27, 93, 99], "agre": [12, 30, 42, 57, 139, 160, 163, 166], "seen": [12, 24, 34, 38, 39, 40, 52, 76, 101, 147, 152], "cloud": 13, "elast": [13, 75], "sign": [13, 26, 82, 131, 157], "account": [13, 26, 30, 59, 90, 99, 138], "750": 13, "free": [13, 55, 66, 75, 86, 90, 101, 105, 107], "micro": 13, "suffici": [13, 16, 18, 22, 36, 47, 75, 76, 77, 113, 118, 134, 147, 150], "tier": 13, "inform": [13, 14, 24, 27, 34, 35, 37, 38, 39, 49, 50, 51, 52, 53, 54, 62, 67, 77, 82, 83, 84, 88, 89, 94, 96, 98, 99, 100, 102, 103, 109, 111, 123, 126, 127, 129, 135, 137, 138, 139, 142, 145, 147, 148, 150, 157, 160, 161, 164, 165, 166, 167], "uw": [13, 26], "escienc": 13, "aw": 13, "tutori": [13, 31, 59, 84, 87, 91, 96, 105, 111, 114], "gear": 13, "faq": [13, 27, 81], "price": 13, "charg": 13, "per": [13, 32, 37, 47, 49, 55, 63, 71, 76, 97, 148], "thereof": 13, "regardless": [13, 37, 42, 70, 115, 147], "cpu": [13, 56, 123, 126, 128, 160], "consol": [13, 98, 150], "tab": [13, 58, 137], "east": [13, 161], "cheaper": 13, "rate": 13, "menu": [13, 20, 27, 58, 63, 125, 134, 135, 136, 137, 142, 165], "imag": [13, 38, 39, 42, 59, 63, 70, 116, 126, 141], "platform": [13, 55, 91, 99, 110, 116], "finish": [13, 82, 88], "load": [13, 63, 98, 100, 103, 109, 116, 163, 167], "databas": [13, 32, 75, 109, 113, 126, 161], "uwamath": 13, "bar": [13, 58, 157], "screen": [13, 30, 55, 63, 91, 98, 99, 123, 149, 151], "shapshot": 13, "machin": [13, 27, 76, 78, 116, 124, 145], "disk": [13, 47, 88, 97, 98, 116, 124], "ubuntu": 13, "linux": [13, 74, 85, 107, 116, 145], "popup": 13, "look": [13, 14, 24, 27, 30, 32, 42, 55, 58, 59, 63, 71, 82, 84, 89, 94, 99, 103, 104, 108, 109, 111, 116, 119, 126, 135, 141, 147, 148, 150, 160, 163, 164], "sort": [13, 42, 126, 146, 164], "larger": [13, 22, 34, 49, 55, 63, 75, 76, 77, 82, 94, 118, 124, 131, 148, 150, 161], "cost": [13, 104], "continu": [13, 24, 30, 32, 53, 58, 86, 110, 139, 147, 169], "eventu": [13, 48, 129], "don": [13, 29, 30, 58, 59, 82, 98, 99, 105, 116, 149, 164], "pair": [13, 97, 116, 163], "secur": 13, "quick": [13, 27, 39, 48, 50, 60, 85, 116, 159], "close": [13, 42, 55, 58, 63, 70, 71, 97, 115, 129, 148, 157], "back": [13, 29, 31, 58, 59, 125], "statu": [13, 30, 54, 91, 108], "wait": 13, "until": [13, 34, 64, 70, 136, 143], "refresh": [13, 47], "bottom": [13, 15, 32, 38, 39, 48, 52, 68, 70, 75, 88, 101, 102, 124, 125, 144, 155, 156], "scroll": 13, "down": [13, 32, 98, 123, 157, 161, 163], "dn": 13, "screenshot": [13, 55], "rjlkei": 13, "pem": 13, "abl": [13, 58, 111], "ssh": [13, 30], "keypair": 13, "50": [13, 17, 34, 55, 72, 104, 119, 149], "19": [13, 17, 26, 132, 133, 137, 160], "75": [13, 17, 92, 108, 141], "229": 13, "amazonaw": 13, "gfortran": [13, 62, 76, 85, 87, 107, 145, 164], "ipython": [13, 78, 82, 84, 89, 90, 96, 98, 105, 108, 111, 122, 123], "scipi": [13, 37, 89, 110, 136, 157, 163], "netcdf": [13, 37, 44, 48, 123, 126, 128, 130, 157, 163, 165], "apach": 13, "server": [13, 31, 42, 55, 58, 59, 70, 126, 161, 165], "apt": [13, 85], "fetch": [13, 51], "bring": [13, 55, 58, 71, 150], "master": [13, 15, 18, 27, 31, 49, 58, 59, 62, 101, 112, 123, 124, 125, 126, 127, 128, 129, 130, 131, 132, 133, 134, 135, 136, 137, 140, 144, 155, 156], "make_lib": 13, "compil": [13, 18, 27, 38, 39, 43, 50, 62, 67, 76, 78, 84, 85, 89, 96, 97, 101, 105, 109, 118, 139, 140, 145], "bashrc": [13, 44, 107, 145], "Of": [13, 28, 75, 108, 113, 161], "cours": [13, 28, 34, 47, 50, 64, 75, 99, 100, 108, 110, 113, 150, 161], "tar": [13, 63, 128, 137], "instruct": [13, 20, 26, 27, 38, 39, 42, 55, 56, 58, 59, 88, 90, 96, 99, 105, 108, 111, 125, 132, 134, 135, 136, 137, 138, 164], "window": [13, 32, 71, 84, 145], "respons": [13, 52, 88, 103], "pretti": 13, "slow": [13, 55, 98, 107], "_plot": [13, 38, 39, 47, 71, 84, 146, 152], "local": [13, 17, 22, 27, 30, 55, 58, 63, 66, 67, 71, 92, 94, 101, 106, 124, 126, 135, 143, 161, 163, 166], "sftp": 13, "much": [13, 30, 34, 36, 44, 49, 55, 77, 78, 81, 85, 110, 115, 118, 122, 129, 134, 135, 141, 147, 150, 160, 163], "smaller": [13, 36, 55, 68, 78, 94, 98, 118, 134, 143, 147, 149, 150, 151, 163], "quicker": [13, 141], "browser": [13, 30, 31, 38, 39, 55, 58, 152], "explain": [13, 34, 52, 70, 131, 147, 152], "webserv": 13, "inbound": 13, "port": [13, 31, 95, 96, 101, 148], "22": [13, 26, 148, 163], "80": [13, 17, 55, 99, 141], "drop": [13, 18, 58, 85, 129, 131, 143, 147], "tcp": 13, "Then": [13, 16, 30, 31, 32, 36, 47, 58, 59, 60, 67, 70, 75, 76, 84, 88, 91, 99, 105, 106, 107, 111, 139, 141, 163, 164], "someth": [13, 29, 30, 58, 66, 74, 81, 98, 103, 104, 111, 161, 164, 166], "shot": 13, "ln": 13, "expos": [13, 78], "home": [13, 31, 32, 62, 145], "scp": 13, "TO": [13, 65, 86], "send": [13, 26, 101, 139], "remot": [13, 55, 59, 126, 163, 165], "rel": [13, 18, 22, 32, 43, 50, 52, 55, 75, 76, 82, 96, 109, 111, 116, 119, 120, 121, 122, 123, 124, 125, 126, 127, 128, 129, 130, 131, 132, 133, 134, 135, 136, 142, 148, 150, 152, 161, 165], "end": [13, 31, 32, 34, 36, 47, 51, 55, 59, 63, 91, 98, 102, 108, 110, 113, 115, 123, 124, 126, 138, 140, 141, 149, 151, 157, 160], "retriev": [13, 37, 51, 84, 89, 104, 163, 165], "sit": 13, "idl": 13, "action": [13, 14, 89], "restart": [13, 27, 47, 77, 84, 96, 123, 124, 125, 126, 128, 131, 135, 147, 149, 151], "later": [13, 36, 37, 42, 54, 55, 62, 84, 104, 138], "But": [13, 34, 42, 55, 72, 82, 107, 119, 126, 143, 145], "futur": [13, 19, 24, 27, 28, 38, 39, 42, 49, 52, 57, 63, 68, 88, 104, 110, 123, 124, 126, 129, 135, 148, 153, 157, 161], "job": [13, 133], "eb": 13, "runclaw": [14, 54, 119, 128, 130, 136, 139], "autom": [14, 58, 89, 116], "certain": [14, 34, 48, 61, 70, 98, 115, 123, 141, 147], "keep": [14, 27, 30, 34, 35, 37, 38, 39, 76, 88, 91, 96, 106, 109, 116, 119], "log": [14, 27, 30, 31, 94, 95, 96, 103, 104], "came": 14, "rundir": [14, 91], "environ": [14, 18, 27, 30, 38, 39, 40, 43, 54, 55, 58, 61, 62, 71, 74, 76, 78, 100, 107, 109, 111, 124, 163, 164], "noth": [15, 64, 106, 127, 144, 155, 156, 163, 166], "rememb": 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"alpha": [18, 55, 59, 104], "bonneton": 18, "et": 18, "al": 18, "153": 18, "airi": 18, "beta": [18, 51, 92, 104, 151], "15": [18, 34, 42, 57, 59, 63, 70, 75, 94, 141, 149, 160, 163], "known": [18, 34, 44, 71, 75, 76, 82, 105, 107, 116, 125, 147], "boussclaw": 18, "reimplement": 18, "test": [18, 24, 27, 32, 38, 41, 44, 54, 55, 59, 60, 61, 62, 68, 81, 86, 87, 89, 95, 96, 102, 109, 110, 115, 119, 123, 124, 125, 126, 129, 131, 135, 139, 151, 153, 157, 160, 161, 163], "reveal": [18, 47, 108], "stabil": [18, 104, 131, 147], "report": [18, 26, 32, 34, 54, 111, 116, 123, 126, 145, 147, 149], "except": [18, 24, 29, 32, 42, 49, 97, 102, 109, 129, 136, 147, 150, 157, 161], "investig": [18, 116], "plane": [18, 32, 49, 75, 123, 141, 165], "planar": [18, 49, 75, 139, 140], "axisymmetr": [18, 49], "sphere": [18, 27, 48, 49, 51, 89, 119, 135, 136, 140, 150], "topo": [18, 27, 34, 42, 48, 49, 52, 55, 57, 63, 70, 72, 83, 111, 118, 120, 126, 128, 131, 135, 142, 150, 161, 163], "dtopo": [18, 27, 32, 35, 48, 52, 57, 63, 75, 111, 118, 120, 121, 129, 131, 143, 150, 161, 163, 165], "ident": [18, 42, 67, 94, 97, 99, 116, 163], "bouss_": 18, "bouss": [18, 49], "tridiagon": 18, "lapack": [18, 118], "fflag": [18, 30, 43, 66, 76, 89, 109, 161], "llapack": [18, 107], "lbla": [18, 107], "explicit": [18, 109, 148], "librarir": 18, "lapack_tridiag": 18, "soubroutin": 18, "bla": 18, "bouss_wavetank_matsuyama": 18, "openmp": [18, 24, 27, 44, 78, 109, 115, 123, 129, 160], "boussdata1d": 18, "add_data": 18, "bouss_data": 18, "deepbouss": 18, "switch": [18, 31, 55, 62, 101, 111, 116, 125, 142, 165], "swe": 18, "bouss_equ": 18, "bouss_min_depth": 18, "onshor": [18, 34, 49, 63, 68, 70, 141, 143], "inund": [18, 34, 48, 49, 55, 68, 115, 129, 142, 165], "criterion": [18, 34, 115, 149], "correct": [18, 22, 30, 44, 58, 59, 67, 68, 71, 82, 88, 94, 99, 103, 109, 118, 119, 123, 143, 147, 149, 150, 151], "revert": [18, 55], "shore": [18, 36, 42, 48, 115, 129, 143], "simplest": [18, 62, 74, 108], "less": [18, 42, 52, 55, 64, 68, 76, 104, 115, 116, 131, 147], "novemb": [20, 123, 124, 136, 137], "accompani": [20, 23, 134, 135, 136], "featur": [20, 24, 27, 30, 34, 42, 55, 58, 71, 82, 89, 115, 116, 121, 123, 124, 126, 131, 134, 135, 136, 137, 157, 161], "dev": [20, 26, 30, 58, 59, 99, 126, 127, 132, 133, 134, 135, 136, 137], "diff": [20, 54, 59, 118, 119, 120, 121, 122, 123, 124, 125, 126, 127, 128, 129, 130, 131, 132, 133, 134, 135, 136], "tarfil": [20, 59, 62, 125, 126, 127, 128, 129, 130, 131, 132, 133, 134, 135, 136], "pip": [20, 27, 30, 55, 59, 60, 90, 96, 99, 105, 107, 111, 125, 126, 127, 128, 129, 130, 131, 132, 133, 134, 135, 136, 137, 145], "doc": [20, 25, 26, 30, 32, 55, 59, 92, 109, 110, 111, 125, 126, 127, 128, 129, 130, 131, 132, 133, 134, 135, 136, 154], "docker": [20, 27, 59, 60, 125, 126, 127, 128, 129, 130, 131, 132, 133, 134, 135, 136, 168], "migrat": 21, "intermedi": [21, 34, 37, 75, 138, 166], "easiest": [21, 30, 44, 78, 82, 84, 115, 166], "bulk": [21, 88, 102, 108, 139, 149, 166], "convers": [21, 27, 89, 97, 115, 141, 161, 165], "convert43to46": 21, "inspect": [21, 22, 55], "broken": [21, 22, 30, 75, 116], "renam": [22, 24, 38, 39, 66, 101, 104], "achiev": [22, 89, 155, 156], "convert46to50": 22, "_4": 22, "complet": [22, 24, 30, 51, 66, 84, 88, 89, 99, 109, 116, 136], "delet": [22, 30, 58, 62], "variant": [22, 60, 109, 116], "combin": [22, 58, 63, 123, 165], "properli": [22, 34, 38, 39, 42, 43, 52, 55, 57, 58, 62, 63, 70, 74, 77, 91, 116, 118, 121, 126, 129, 131, 145, 147, 150, 153, 161, 163, 164, 166], "permut": 22, "th": [22, 24, 47, 139, 166], "reorder": [22, 24], "pattern": [22, 50, 55, 142], "carefulli": [22, 24, 68], "setaux": [22, 24, 67, 89, 118, 119, 139, 147, 149, 151], "sequenc": [22, 24, 36, 37, 67, 70, 72, 99, 105, 108, 109, 116, 118, 125, 139, 166], "maxmx": [22, 89], "maxmi": [22, 89], "maxmz": 22, "declar": [22, 24, 106, 131, 166], "memori": [22, 24, 76, 77, 78, 88, 91, 98, 106, 131, 148, 149], "alloc": [22, 104, 122, 131, 148], "mx": [22, 24, 49, 57, 77, 89, 99, 102, 139, 149, 161, 166], "resp": [22, 32, 131], "mz": [22, 24], "driver": [22, 67], "led": [22, 127], "homepag": [23, 27], "reorgan": [24, 89, 117, 132], "changelog": [24, 117, 118, 119, 120, 121, 122, 123, 124, 125, 126, 127, 128, 129, 130, 131, 132, 133, 134, 137], "concern": [24, 48, 148], "evolv": [24, 88, 91, 104], "organ": [24, 25, 38, 39, 91], "affect": [24, 66, 124, 125, 131, 134, 136, 147, 161, 164], "assist": [24, 129], "older": [24, 44, 56, 58, 61, 62, 104, 130, 134, 137, 148], "compris": [24, 96, 163], "webpag": [24, 26, 38, 39, 45, 50, 55, 59, 66, 127, 142], "primari": [24, 30, 31, 48, 113, 116, 157], "auxiliari": [24, 89, 91, 97, 102, 103, 104, 106, 139, 147, 149, 151, 166], "cach": [24, 51, 59, 84, 86, 129, 148], "petsc": [24, 25, 78, 86, 88, 95, 98, 105, 106, 107, 109], "stride": [24, 163], "contingu": 24, "maux": [24, 139, 166], "ma": [24, 36, 42, 70, 141, 163], "relev": [24, 29, 42, 44, 48, 55, 58, 97, 115, 116, 157], "flexibl": [24, 32, 63, 89, 122, 125, 139, 141, 148], "clean": [24, 58, 59, 109, 122, 126, 136], "systemat": 24, "obscur": 24, "clarifi": 24, "regress": [24, 27, 30, 54, 96, 99, 124, 125, 159], "travi": [24, 131], "miss": [24, 27, 97, 128, 135, 136, 153, 157, 161, 163, 164], "conform": [24, 30, 35, 103, 126, 161], "construct": [24, 32, 34, 57, 72, 88, 94, 109, 135, 157, 158, 161], "visit": [24, 27, 81, 137], "gui": [24, 167], "monitor": [24, 27, 35, 36, 41, 48, 70, 72, 76, 119, 121, 124, 134], "arriv": [24, 34, 36, 42, 48, 124, 142, 143], "ndim": [24, 77, 84, 147, 148], "num_dim": [24, 41, 94, 97, 101, 147, 148, 149, 151], "zlower": 24, "yupper": [24, 149, 163], "zupper": 24, "upper": [24, 34, 35, 41, 49, 92, 94, 101, 141, 147, 149, 151, 161, 163], "mxnest": 24, "neg": [24, 42, 143, 150, 161, 163], "ins": 24, "forc": [24, 27, 43, 48, 66, 70, 109, 115, 129, 140, 143, 148, 158, 163, 164], "prohibit": 24, "again": [24, 43, 66, 70, 75, 82, 84, 88, 89, 98, 102, 107, 111, 126, 132, 161, 164], "caus": [24, 36, 52, 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"changes-to-amrclaw"], [134, "changes-to-amrclaw"], [135, "changes-to-amrclaw"], [136, "changes-to-amrclaw"]], "Changes to geoclaw": [[20, "changes-to-geoclaw"], [118, "changes-to-geoclaw"], [119, "changes-to-geoclaw"], [120, "changes-to-geoclaw"], [121, "changes-to-geoclaw"], [122, "changes-to-geoclaw"], [123, "changes-to-geoclaw"], [124, "changes-to-geoclaw"], [125, "changes-to-geoclaw"], [126, "changes-to-geoclaw"], [127, "changes-to-geoclaw"], [128, "changes-to-geoclaw"], [129, "changes-to-geoclaw"], [130, "changes-to-geoclaw"], [131, "changes-to-geoclaw"], [132, "changes-to-geoclaw"], [133, "changes-to-geoclaw"], [134, "changes-to-geoclaw"], [135, "changes-to-geoclaw"], [136, "changes-to-geoclaw"]], "Changes to PyClaw": [[20, "changes-to-pyclaw"], [117, "changes-to-pyclaw"], [118, "changes-to-pyclaw"], [119, "changes-to-pyclaw"], [120, "changes-to-pyclaw"], [121, "changes-to-pyclaw"], [122, "changes-to-pyclaw"], [123, "changes-to-pyclaw"], [124, "changes-to-pyclaw"], [125, "changes-to-pyclaw"], [126, "changes-to-pyclaw"], [127, "changes-to-pyclaw"], [128, "changes-to-pyclaw"], [129, "changes-to-pyclaw"], [130, "changes-to-pyclaw"], [131, "changes-to-pyclaw"], [132, "changes-to-pyclaw"], [133, "changes-to-pyclaw"], [134, "changes-to-pyclaw"], [135, "changes-to-pyclaw"], [136, "changes-to-pyclaw"]], "Other Clawpack Repositories": [[20, "other-clawpack-repositories"], [125, "other-clawpack-repositories"], [126, "other-clawpack-repositories"], [127, "other-clawpack-repositories"], [128, "other-clawpack-repositories"], [129, "other-clawpack-repositories"], [130, "other-clawpack-repositories"], [131, "other-clawpack-repositories"], [132, "other-clawpack-repositories"], [133, "other-clawpack-repositories"], [134, "other-clawpack-repositories"], [135, "other-clawpack-repositories"], [136, "other-clawpack-repositories"]], "Converting from Clawpack 4.3 to 4.6": [[21, "converting-from-clawpack-4-3-to-4-6"]], "Converting from Clawpack 4.6 to 5.0": [[22, "converting-from-clawpack-4-6-to-5-0"]], "Python conversion tool": [[22, "python-conversion-tool"]], "Clawpack 4.x links": [[23, "clawpack-4-x-links"]], "Changes in Clawpack 5.0": [[24, "changes-in-clawpack-5-0"]], "PyClaw in 5.0": [[24, "pyclaw-in-5-0"]], "Fortran package changes": [[24, "fortran-package-changes"]], "Changes to input parameters in setrun.py from 4.x to 5.0": [[24, "changes-to-input-parameters-in-setrun-py-from-4-x-to-5-0"]], "Changes to general parameters": [[24, "changes-to-general-parameters"]], "Changes to AMR parameters": [[24, "changes-to-amr-parameters"]], "Changes to GeoClaw parameters": [[24, "changes-to-geoclaw-parameters"]], "Changes to plotting routines": [[24, "changes-to-plotting-routines"]], "Clawpack components": [[25, "clawpack-components"]], "Other repositories": [[25, "other-repositories"]], "Clawpack Community": [[26, "clawpack-community"]], "User Workshops, Clinics, and Tutorials": [[26, "user-workshops-clinics-and-tutorials"]], "Available for streaming": [[26, "available-for-streaming"]], "Upcoming": [[26, "upcoming"], [26, "id1"]], "Recent": [[26, "recent"]], "Developer Workshops and Sprint Sessions": [[26, "developer-workshops-and-sprint-sessions"]], "Previous": [[26, "previous"]], "Other Clawpack events": [[26, "other-clawpack-events"]], "Contents": [[27, "id1"], [30, "contents"], [42, "contents"], [70, "contents"], [82, "contents"], [88, "contents"], [98, "contents"], [104, "contents"], [116, "contents"], [141, "contents"]], "Full Table of Contents": [[27, "full-table-of-contents"]], "Overview and Getting Started": [[27, "overview-and-getting-started"]], "Examples and Applications": [[27, "examples-and-applications"]], "Classic, AMRClaw, and GeoClaw": [[27, "classic-amrclaw-and-geoclaw"]], "Using the Fortran codes": [[27, "using-the-fortran-codes"]], "AMRClaw: adaptive mesh refinement": [[27, "amrclaw-adaptive-mesh-refinement"]], "GeoClaw: geophysical flows": [[27, "geoclaw-geophysical-flows"]], "PyClaw": [[27, "pyclaw"], [38, "pyclaw"], [96, "pyclaw"], [116, "pyclaw"], [159, "pyclaw"]], "Riemann": [[27, "riemann"]], "VisClaw: Plotting and Visualization Tools": [[27, "visclaw-plotting-and-visualization-tools"]], "Migrating applications from older versions of Clawpack": [[27, "migrating-applications-from-older-versions-of-clawpack"]], "Developers\u2019 resources": [[27, "developers-resources"]], "References": [[27, "references"], [56, "references"]], "Contributing examples and applications": [[28, "contributing-examples-and-applications"]], "current_data": [[29, "current-data"]], "Attributes of current_data:": [[29, "attributes-of-current-data"]], "Developers\u2019 Guide": [[30, "developers-guide"]], "Guidelines for contributing": [[30, "guidelines-for-contributing"]], "Reporting and fixing bugs": [[30, "reporting-and-fixing-bugs"]], "Developer communication": [[30, "developer-communication"]], "Installation instructions for developers": [[30, "installation-instructions-for-developers"]], "Cloning the most recent code from Github": [[30, "cloning-the-most-recent-code-from-github"]], "Checking out the master branch on each repository": [[30, "checking-out-the-master-branch-on-each-repository"]], "Updating to the latest master branch": [[30, "updating-to-the-latest-master-branch"]], "Never commit to master": [[30, "never-commit-to-master"]], "Adding your fork as a remote": [[30, "adding-your-fork-as-a-remote"]], "Modifying code": [[30, "modifying-code"]], "Issuing a pull request": [[30, "issuing-a-pull-request"]], "Testing a pull request": [[30, "testing-a-pull-request"]], "Top-level pull requests": [[30, "top-level-pull-requests"]], "Git workflow": [[30, "git-workflow"]], "Catching errors with Pyflakes and Pylint": [[30, "catching-errors-with-pyflakes-and-pylint"]], "Checking test coverage": [[30, "checking-test-coverage"]], "Trouble-Shooting Tips": [[30, "trouble-shooting-tips"]], "Docker for Clawpack": [[31, "docker-for-clawpack"]], "Using Version 5.9.0 or above": [[31, "using-version-5-9-0-or-above"]], "Getting started": [[31, "getting-started"]], "Stopping a container": [[31, "stopping-a-container"]], "Restarting a container": [[31, "restarting-a-container"]], "Running Jupyter notebooks": [[31, "running-jupyter-notebooks"]], "Moving files between the docker container and the host machine": [[31, "moving-files-between-the-docker-container-and-the-host-machine"]], "Some other useful docker commands": [[31, "some-other-useful-docker-commands"]], "Creating your own docker image": [[31, "creating-your-own-docker-image"]], "Dockerfiles for binder": [[31, "dockerfiles-for-binder"]], "dtopotools module for moving topography": [[32, "dtopotools-module-for-moving-topography"]], "Documentation auto-generated from the module docstrings": [[32, "module-clawpack.geoclaw.dtopotools"], [35, "module-clawpack.geoclaw.fgmax_tools"], [37, "module-clawpack.geoclaw.fgout_tools"], [51, "module-clawpack.geoclaw.util"], [63, "module-clawpack.geoclaw.kmltools"], [163, "module-clawpack.geoclaw.topotools"]], "Fortran 77 vs. Fortran 90 files": [[33, "fortran-77-vs-fortran-90-files"]], "Fixed grid monitoring": [[34, "fixed-grid-monitoring"]], "Input file specification": [[34, "input-file-specification"], [36, "input-file-specification"]], "Different point styles": [[34, "different-point-styles"]], "Other attributes": [[34, "other-attributes"]], "Values to monitor": [[34, "values-to-monitor"]], "Choice of interpolation procedure": [[34, "choice-of-interpolation-procedure"], [36, "choice-of-interpolation-procedure"]], "A simple example": [[34, "a-simple-example"], [36, "a-simple-example"]], "Processing and plotting fgmax output": [[34, "processing-and-plotting-fgmax-output"]], "Format of the output files": [[34, "format-of-the-output-files"]], "fgmax_tools module for working with fgmax grids": [[35, "fgmax-tools-module-for-working-with-fgmax-grids"]], "Fixed grid output": [[36, "fixed-grid-output"], [150, "fixed-grid-output"]], "Format of fgout output": [[36, "format-of-fgout-output"]], "Using setplot.py to produce plots": [[36, "using-setplot-py-to-produce-plots"]], "Reading and plotting fgout arrays directly": [[36, "reading-and-plotting-fgout-arrays-directly"]], "fgout grid registration": [[36, "fgout-grid-registration"]], "fgout_tools module for working with fgout grids": [[37, "fgout-tools-module-for-working-with-fgout-grids"]], "Running an example": [[38, "running-an-example"], [39, "running-an-example"], [40, "running-an-example"]], "Classic": [[38, "classic"], [39, "classic"], [159, "classic"]], "Testing your Fortran installation and running an example": [[39, "testing-your-fortran-installation-and-running-an-example"]], "More examples": [[39, "more-examples"]], "Testing a PyClaw installation and running an example": [[40, "testing-a-pyclaw-installation-and-running-an-example"]], "From the Jupyter notebook": [[40, "from-the-jupyter-notebook"]], "From the IPython interpreter": [[40, "from-the-ipython-interpreter"]], "From the command line": [[40, "from-the-command-line"], [93, "from-the-command-line"]], "Specifying flagregions for adaptive refinement": [[41, "specifying-flagregions-for-adaptive-refinement"]], "Using ruled rectangles as flagregions": [[41, "using-ruled-rectangles-as-flagregions"]], "Force Cells to be Dry Initially": [[42, "force-cells-to-be-dry-initially"]], "Examples": [[42, "examples"], [47, "examples"], [70, "examples"], [96, "examples"], [141, "examples"]], "Sample topography from a 1/3 arcsecond DEM": [[42, "sample-topography-from-a-1-3-arcsecond-dem"], [70, "sample-topography-from-a-1-3-arcsecond-dem"]], "Creating the force_dry_init array": [[42, "creating-the-force-dry-init-array"]], "Create file to read into GeoClaw": [[42, "create-file-to-read-into-geoclaw"]], "Usage in GeoClaw Fortran code": [[42, "usage-in-geoclaw-fortran-code"]], "Internal GeoClaw modifications": [[42, "internal-geoclaw-modifications"]], "Fortran version": [[43, "fortran-version"]], "Makefiles": [[43, "makefiles"]], "More tips": [[43, "more-tips"]], "Fortran Compilers": [[44, "fortran-compilers"]], "FC environment variable": [[44, "fc-environment-variable"]], "FFLAGS environment variable": [[44, "fflags-environment-variable"]], "LFLAGS environment variable": [[44, "lflags-environment-variable"]], "Pre-Processor and the PPFLAGS environment variable": [[44, "pre-processor-and-the-ppflags-environment-variable"]], "gfortran compiler": [[44, "gfortran-compiler"]], "Intel fortran compiler": [[44, "intel-fortran-compiler"]], "Examples from the book FVMHP": [[45, "examples-from-the-book-fvmhp"]], "Available examples": [[45, "available-examples"]], "Clawpack Gallery": [[46, "clawpack-gallery"]], "Gauges": [[47, "gauges"]], "Gauge parameters in setrun": [[47, "gauge-parameters-in-setrun"]], "Plotting tools": [[47, "plotting-tools"]], "Plotting gauge locations": [[47, "plotting-gauge-locations"]], "GeoClaw Description and Detailed Contents": [[48, "geoclaw-description-and-detailed-contents"]], "GeoClaw in One Space Dimension": [[49, "geoclaw-in-one-space-dimension"]], "Coordinate systems": [[49, "coordinate-systems"]], "Uniform and mapped grids": [[49, "uniform-and-mapped-grids"]], "Topograpy data": [[49, "topograpy-data"]], "Moving topograpy (dtopo) data": [[49, "moving-topograpy-dtopo-data"]], "Getting started with GeoClaw": [[50, "getting-started-with-geoclaw"]], "Running a GeoClaw code": [[50, "running-a-geoclaw-code"]], "Topography": [[50, "topography"]], "Plotting GeoClaw results": [[50, "plotting-geoclaw-results"]], "Setting up a new example": [[50, "setting-up-a-new-example"]], "geoclaw.util module of utility functions": [[51, "geoclaw-util-module-of-utility-functions"]], "Cautionary Hints on using GeoClaw": [[52, "cautionary-hints-on-using-geoclaw"]], "Tsunami hazard modeling": [[52, "tsunami-hazard-modeling"]], "GeoClaw plotting tools": [[53, "geoclaw-plotting-tools"]], "Plotting water depth or surface elevation": [[53, "plotting-water-depth-or-surface-elevation"]], "Tips on latitude-longitude coordinate axes": [[53, "tips-on-latitude-longitude-coordinate-axes"]], "Keeping track of repository versions with Git": [[54, "keeping-track-of-repository-versions-with-git"]], "Visualizing GeoClaw results in Google Earth": [[55, "visualizing-geoclaw-results-in-google-earth"]], "Basic requirements": [[55, "basic-requirements"]], "Optional GDAL library": [[55, "optional-gdal-library"]], "An example : The Chile 2010 tsunami event": [[55, "an-example-the-chile-2010-tsunami-event"]], "Plotting attributes needed for Google Earth": [[55, "plotting-attributes-needed-for-google-earth"]], "plotdata attributes": [[55, "plotdata-attributes"]], "plotfigure attributes": [[55, "plotfigure-attributes"]], "Creating the figures": [[55, "creating-the-figures"]], "plotaxes attributes": [[55, "plotaxes-attributes"]], "plotitem attributes": [[55, "plotitem-attributes"]], "Adding a colorbar overlay": [[55, "adding-a-colorbar-overlay"]], "Gauge plots": [[55, "gauge-plots"]], "Additional plotdata attributes": [[55, "additional-plotdata-attributes"]], "Plotting tips": [[55, "plotting-tips"]], "KML and KMZ files": [[55, "kml-and-kmz-files"]], "Tiling images for faster loading": [[55, "tiling-images-for-faster-loading"]], "Removing aliasing artifacts": [[55, "removing-aliasing-artifacts"]], "Creating multiple figures at different resolutions": [[55, "creating-multiple-figures-at-different-resolutions"]], "Mapping topography data to latitude/longitude coordinates": [[55, "mapping-topography-data-to-latitude-longitude-coordinates"]], "Publishing your results": [[55, "id1"]], "Using the GPU version of Clawpack": [[56, "using-the-gpu-version-of-clawpack"]], "Grid registration": [[57, "grid-registration"]], "NetCDF files": [[57, "netcdf-files"]], "Guide for updating this documentation": [[58, "guide-for-updating-this-documentation"]], "Git branches and tags": [[58, "git-branches-and-tags"]], "Configuration and style files": [[58, "configuration-and-style-files"]], "Updating the docs for a new release": [[58, "updating-the-docs-for-a-new-release"]], "To generate docs including previous versions": [[58, "to-generate-docs-including-previous-versions"]], "Updating for a new major version": [[58, "updating-for-a-new-major-version"]], "Updating the gallery": [[58, "updating-the-gallery"]], "Updating the webpages": [[58, "updating-the-webpages"]], "Extra files for webpages not built by Sphinx": [[58, "extra-files-for-webpages-not-built-by-sphinx"]], "Pages from other clawpack repositories": [[58, "pages-from-other-clawpack-repositories"]], "Guide for doing a Clawpack release": [[59, "guide-for-doing-a-clawpack-release"]], "Preparation": [[59, "preparation"]], "Version numbers": [[59, "version-numbers"]], "Release candidates": [[59, "release-candidates"]], "Create a tar file and a Github release": [[59, "create-a-tar-file-and-a-github-release"]], "Final release": [[59, "final-release"]], "Pypi": [[59, "pypi"]], "Zenodo": [[59, "zenodo"]], "Open Science Framework (OSF)": [[59, "open-science-framework-osf"]], "Updating the documentation": [[59, "updating-the-documentation"]], "Updating the apps repository": [[59, "updating-the-apps-repository"]], "Updating the Dockerfile": [[59, "updating-the-dockerfile"]], "Installing Clawpack": [[60, "installing-clawpack"]], "Next steps:": [[60, "next-steps"], [61, "next-steps"], [62, "next-steps"]], "Options for installing Clawpack Fortran codes": [[61, "options-for-installing-clawpack-fortran-codes"]], "tar file": [[61, "tar-file"]], "git clone": [[61, "git-clone"]], "pip install instructions": [[62, "pip-install-instructions"]], "Quick Installation of PyClaw with pip": [[62, "quick-installation-of-pyclaw-with-pip"]], "Quick Installation of all packages with pip": [[62, "quick-installation-of-all-packages-with-pip"]], "Using pip to install a different version": [[62, "using-pip-to-install-a-different-version"]], "Experimenting with code in the examples directories": [[62, "experimenting-with-code-in-the-examples-directories"]], "Troubleshooting pip install": [[62, "troubleshooting-pip-install"]], "kmltools module of utility functions": [[63, "kmltools-module-of-utility-functions"]], "Lagrangian gauges for particle tracking": [[64, "lagrangian-gauges-for-particle-tracking"]], "Specifying Lagrangian Gauges": [[64, "specifying-lagrangian-gauges"]], "Visclaw tools for plotting": [[64, "visclaw-tools-for-plotting"]], "An alternative using fgout grids": [[64, "an-alternative-using-fgout-grids"]], "Clawpack Makefiles": [[66, "clawpack-makefiles"]], "Applications directory Makefiles": [[66, "applications-directory-makefiles"]], "output": [[66, "output"]], "plots": [[66, "plots"]], "Variables": [[66, "variables"]], "Compiler flags": [[66, "compiler-flags"]], "Duplicate Base Source Name": [[66, "duplicate-base-source-name"]], "Library routines in Makefiles": [[67, "library-routines-in-makefiles"]], "Replacing files with the same name as library files": [[67, "replacing-files-with-the-same-name-as-library-files"]], "Using a modified library routine with a different name": [[67, "using-a-modified-library-routine-with-a-different-name"]], "Manning friction term": [[68, "manning-friction-term"]], "The mapc2p function": [[69, "the-mapc2p-function"]], "Marching Front algorithm": [[70, "marching-front-algorithm"]], "Function arguments": [[70, "function-arguments"]], "output array": [[70, "output-array"]], "creating a masked array": [[70, "creating-a-masked-array"]], "topofile mask for initializing dry points": [[70, "topofile-mask-for-initializing-dry-points"]], "fgmax points": [[70, "fgmax-points"]], "flag regions": [[70, "flag-regions"]], "The mask argument": [[70, "the-mask-argument"]], "The previous_pts_chosen argument": [[70, "the-previous-pts-chosen-argument"]], "Finding all points below a given elevation": [[70, "finding-all-points-below-a-given-elevation"]], "Create a buffer zone along shore": [[70, "create-a-buffer-zone-along-shore"]], "Choose points only near shore": [[70, "choose-points-only-near-shore"]], "Write out the masked array indicating fgmax points": [[70, "write-out-the-masked-array-indicating-fgmax-points"]], "Creating an AMR flag region": [[70, "creating-an-amr-flag-region"]], "Determining dry areas below MHW": [[70, "determining-dry-areas-below-mhw"]], "Plotting using Matlab": [[71, "plotting-using-matlab"]], "The Matlab search path": [[71, "the-matlab-search-path"]], "Creating output files": [[71, "creating-output-files"]], "The plotclaw command": [[71, "the-plotclaw-command"]], "The setplot file": [[71, "the-setplot-file"]], "The afterframe file": [[71, "the-afterframe-file"]], "Getting help": [[71, "getting-help"]], "Trouble shooting": [[71, "trouble-shooting"]], "Output files not found": [[71, "output-files-not-found"]], "MaxFrames not set": [[71, "maxframes-not-set"]], "Switching examples": [[71, "switching-examples"]], "Matlab Gallery": [[71, "matlab-gallery"]], "Nearshore interpolation": [[72, "nearshore-interpolation"]], "Using NetCDF output": [[73, "using-netcdf-output"]], "Creating a new application directory": [[74, "creating-a-new-application-directory"]], "Copying an existing example": [[74, "copying-an-existing-example"]], "Earthquake sources: Fault slip and the Okada model": [[75, "earthquake-sources-fault-slip-and-the-okada-model"]], "Fault slip on rectangular subfaults": [[75, "fault-slip-on-rectangular-subfaults"]], "Okada model": [[75, "okada-model"]], "Kinematic rupture": [[75, "kinematic-rupture"]], "Fault slip on triangular subfaults": [[75, "fault-slip-on-triangular-subfaults"]], "Using OpenMP": [[76, "using-openmp"]], "Using OpenMP with AMR": [[76, "using-openmp-with-amr"]], "Fixed grid output in GeoClaw": [[76, "fixed-grid-output-in-geoclaw"]], "Output data sytles and formats": [[77, "output-data-sytles-and-formats"]], "Output style": [[77, "output-style"]], "Output data formats": [[77, "output-data-formats"]], "ASCII output data format": [[77, "ascii-output-data-format"]], "fort.t0002": [[77, "fort-t0002"]], "fort.q0002": [[77, "fort-q0002"]], "Raw binary output data formats": [[77, "raw-binary-output-data-formats"]], "NetCDF output data format": [[77, "netcdf-output-data-format"]], "Output of aux arrays": [[77, "output-of-aux-arrays"]], "Which Clawpack solver should I use?": [[78, "which-clawpack-solver-should-i-use"]], "Installation and user interface": [[78, "installation-and-user-interface"]], "Algorithmic differences": [[78, "algorithmic-differences"]], "Parallel computing": [[78, "parallel-computing"]], "Clawpack Community Photos": [[79, "clawpack-community-photos"]], "2016 Developers\u2019 workshop at University of Washington": [[79, "id1"]], "2015 Developers\u2019 workshop at University of Utah": [[79, "id2"]], "2014 HPC3 workshop at KAUST": [[79, "id3"]], "2013 Claw-Dev workshop at UW": [[79, "id4"]], "2012 HPC3 workshop at KAUST": [[79, "id6"]], "2011 coding sprints at UW": [[79, "coding-sprints-at-uw"]], "2010 GeoClaw hacking UW": [[79, "geoclaw-hacking-uw"]], "Plotting examples": [[80, "plotting-examples"]], "Plotting with Visclaw": [[81, "plotting-with-visclaw"]], "Plotting as post-processing": [[81, "plotting-as-post-processing"]], "Plotting on the fly": [[81, "plotting-on-the-fly"]], "Plotting hints and FAQ": [[82, "plotting-hints-and-faq"]], "What\u2019s the difference between make .plots and make plots ?": [[82, "what-s-the-difference-between-make-plots-and-make-plots"]], "How to plot a something other than a component of q?": [[82, "how-to-plot-a-something-other-than-a-component-of-q"]], "How to add another curve to a plot, e.g. the true solution?": [[82, "how-to-add-another-curve-to-a-plot-e-g-the-true-solution"]], "How to change the title in a plot?": [[82, "how-to-change-the-title-in-a-plot"]], "How to specify outdir, the directory to find fort.* files for plotting?": [[82, "how-to-specify-outdir-the-directory-to-find-fort-files-for-plotting"]], "How to specify a different outdir for some plot item?": [[82, "how-to-specify-a-different-outdir-for-some-plot-item"]], "How to set plot parameters that are not provided as attributes of ClawPlotItem?": [[82, "how-to-set-plot-parameters-that-are-not-provided-as-attributes-of-clawplotitem"]], "How to change the size or background color of a figure?": [[82, "how-to-change-the-size-or-background-color-of-a-figure"]], "Specifying colormaps for pcolor or contourf plots": [[82, "specifying-colormaps-for-pcolor-or-contourf-plots"]], "How to debug setplot.py?": [[82, "how-to-debug-setplot-py"]], "Plotting routines for GeoClaw": [[83, "plotting-routines-for-geoclaw"]], "Plotting options in Python": [[84, "plotting-options-in-python"]], "Producing html plots from the command line": [[84, "producing-html-plots-from-the-command-line"]], "Producing a latex file with plots from the command line": [[84, "producing-a-latex-file-with-plots-from-the-command-line"]], "Setting plot parameters with a setplot function": [[84, "setting-plot-parameters-with-a-setplot-function"]], "Interactive plotting with Iplotclaw": [[84, "interactive-plotting-with-iplotclaw"]], "Access to current_data": [[84, "access-to-current-data"]], "printframes": [[84, "printframes"]], "Specifying what and how to plot": [[84, "specifying-what-and-how-to-plot"]], "Installation Prerequisites": [[85, "installation-prerequisites"]], "Operating system": [[85, "operating-system"]], "Fortran": [[85, "fortran"]], "Python": [[85, "python"]], "pip": [[85, "pip"]], "Git": [[85, "git"]], "About PyClaw": [[86, "about-pyclaw"]], "Contributors": [[86, "contributors"]], "PyClaw Basics": [[87, "pyclaw-basics"]], "Understanding Pyclaw Classes": [[88, "understanding-pyclaw-classes"]], "Flow of a Pyclaw Simulation": [[88, "flow-of-a-pyclaw-simulation"]], "Creation of a Pyclaw Solution": [[88, "creation-of-a-pyclaw-solution"]], "Creation of a Pyclaw Solver": [[88, "creation-of-a-pyclaw-solver"]], "Creating and Running a Simulation with Controller": [[88, "creating-and-running-a-simulation-with-controller"]], "Restarting a simulation": [[88, "restarting-a-simulation"]], "Outputting aux values": [[88, "outputting-aux-values"]], "Outputting derived quantities": [[88, "outputting-derived-quantities"], [98, "outputting-derived-quantities"]], "Porting a problem from Clawpack 4.6.x to PyClaw": [[89, "porting-a-problem-from-clawpack-4-6-x-to-pyclaw"]], "Running PyClaw in the cloud": [[90, "running-pyclaw-in-the-cloud"]], "Sage Math Cloud": [[90, "sage-math-cloud"]], "Pyclaw Controller Class": [[91, "pyclaw-controller-class"]], "pyclaw.controller.Controller": [[91, "pyclaw-controller-controller"]], "Pyclaw Limiters": [[92, "pyclaw-limiters"]], "clawpack.pyclaw.limiters.tvd": [[92, "module-clawpack.pyclaw.limiters.tvd"]], "CFL Independent Limiters": [[92, "cfl-independent-limiters"]], "CFL Dependent Limiters": [[92, "cfl-dependent-limiters"]], "Working with PyClaw\u2019s built-in examples": [[93, "working-with-pyclaw-s-built-in-examples"]], "Running and plotting examples": [[93, "running-and-plotting-examples"]], "Interactively in IPython": [[93, "interactively-in-ipython"]], "Built-in examples": [[93, "built-in-examples"]], "Adding new examples": [[93, "adding-new-examples"]], "PyClaw Geometry": [[94, "pyclaw-geometry"]], "Serial Geometry Objects": [[94, "serial-geometry-objects"]], "pyclaw.geometry.Domain": [[94, "pyclaw-geometry-domain"]], "pyclaw.geometry.Patch": [[94, "pyclaw-geometry-patch"]], "pyclaw.geometry.Grid": [[94, "pyclaw-geometry-grid"]], "pyclaw.geometry.Dimension": [[94, "pyclaw-geometry-dimension"]], "Parallel Geometry Objects": [[94, "parallel-geometry-objects"]], "petclaw.geometry.Domain": [[94, "petclaw-geometry-domain"]], "petclaw.geometry.Patch": [[94, "petclaw-geometry-patch"]], "Going Further": [[95, "going-further"]], "PyClaw installation": [[96, "pyclaw-installation"]], "Features": [[96, "features"]], "PyClaw Documentation": [[96, "pyclaw-documentation"]], "PyClaw Modules reference documentation": [[96, "pyclaw-modules-reference-documentation"]], "Riemann Solvers reference documentation": [[96, "riemann-solvers-reference-documentation"]], "Indices and tables": [[96, "indices-and-tables"]], "Citing PyClaw": [[96, "citing-pyclaw"]], "Pyclaw Input/Output Package": [[97, "pyclaw-input-output-package"]], "pyclaw.fileio.ascii": [[97, "module-clawpack.pyclaw.fileio.ascii"]], "pyclaw.fileio.binary": [[97, "module-clawpack.pyclaw.fileio.binary"]], "pyclaw.fileio.hdf5": [[97, "pyclaw-fileio-hdf5"]], "pyclaw.fileio.netcdf": [[97, "module-clawpack.pyclaw.fileio.netcdf"]], "PyClaw output": [[98, "pyclaw-output"]], "Output frames": [[98, "output-frames"]], "When output is saved/written": [[98, "when-output-is-saved-written"]], "Where and how output is written": [[98, "where-and-how-output-is-written"]], "What output is written": [[98, "what-output-is-written"]], "Outputting functionals": [[98, "outputting-functionals"]], "Using gauges": [[98, "using-gauges"]], "Logging": [[98, "logging"]], "Running in parallel": [[99, "running-in-parallel"]], "Installing PETSc": [[99, "installing-petsc"]], "Testing your installation": [[99, "testing-your-installation"], [159, "testing-your-installation"]], "Running and plotting an example": [[99, "running-and-plotting-an-example"]], "Tips for making your application run correctly in parallel": [[99, "tips-for-making-your-application-run-correctly-in-parallel"]], "Passing options to PETSc": [[99, "passing-options-to-petsc"]], "Plotting PyClaw results": [[100, "plotting-pyclaw-results"]], "Basics": [[100, "basics"]], "Plotting result from parallel runs": [[100, "plotting-result-from-parallel-runs"]], "Setting up your own problem": [[101, "setting-up-your-own-problem"]], "Writing the initialization script": [[101, "writing-the-initialization-script"]], "Setting initial conditions": [[101, "setting-initial-conditions"]], "Setting auxiliary variables": [[101, "setting-auxiliary-variables"]], "Setting boundary conditions": [[101, "setting-boundary-conditions"]], "Setting solver options": [[101, "setting-solver-options"]], "Using your own Riemann solver": [[101, "using-your-own-riemann-solver"]], "Adding source terms": [[101, "adding-source-terms"]], "Setting up the Makefile": [[101, "setting-up-the-makefile"]], "Riemann Solver Package": [[102, "riemann-solver-package"]], "Acoustics": [[102, "acoustics"]], "Advection": [[102, "advection"]], "Burgers Equation": [[102, "burgers-equation"]], "Euler Equations": [[102, "euler-equations"]], "Shallow Water Equations": [[102, "shallow-water-equations"]], "PyClaw Solutions": [[103, "pyclaw-solutions"]], "pyclaw.solution.Solution": [[103, "pyclaw-solution-solution"]], "Using PyClaw\u2019s solvers: Classic and SharpClaw": [[104, "using-pyclaw-s-solvers-classic-and-sharpclaw"]], "SharpClaw Solvers": [[104, "sharpclaw-solvers"]], "pyclaw.sharpclaw": [[104, "pyclaw-sharpclaw"]], "Pyclaw Classic Clawpack Solvers": [[104, "pyclaw-classic-clawpack-solvers"]], "pyclaw.classic.solver": [[104, "pyclaw-classic-solver"]], "Change to Custom BC Function Signatures": [[104, "change-to-custom-bc-function-signatures"]], "Installing PyClaw": [[105, "installing-pyclaw"]], "Dependencies: Python, gfortran, numpy, and matplotlib": [[105, "dependencies-python-gfortran-numpy-and-matplotlib"]], "Obtaining Python, numpy, and matplotlib": [[105, "obtaining-python-numpy-and-matplotlib"]], "Clawpack": [[105, "clawpack"]], "Testing your installation with nose": [[105, "testing-your-installation-with-nose"]], "Next steps": [[105, "next-steps"]], "PyClaw State": [[106, "pyclaw-state"]], "Serial pyclaw.state.State": [[106, "serial-pyclaw-state-state"]], "Parallel petclaw.state.State": [[106, "parallel-petclaw-state-state"]], "Troubleshooting": [[107, "troubleshooting"], [164, "troubleshooting"]], "Compilation errors": [[107, "compilation-errors"]], "Use Fortran-ordered arrays": [[107, "use-fortran-ordered-arrays"]], "Installation": [[107, "installation"]], "PyClaw tutorial: Solve the acoustics equations": [[108, "pyclaw-tutorial-solve-the-acoustics-equations"]], "The Solver": [[108, "the-solver"]], "The domain": [[108, "the-domain"]], "Initial condition": [[108, "initial-condition"]], "Problem-specific parameters": [[108, "problem-specific-parameters"]], "The controller": [[108, "the-controller"]], "Pyclaw Utility Module": [[109, "pyclaw-utility-module"]], "pyclaw.util": [[109, "module-clawpack.pyclaw.util"]], "Python Hints": [[110, "python-hints"]], "Dropping support for Python 2.7": [[110, "dropping-support-for-python-2-7"]], "References and tutorials": [[110, "references-and-tutorials"]], "Notebooks": [[110, "notebooks"]], "Python path": [[111, "python-path"]], "whichclaw.py": [[111, "whichclaw-py"]], "Which version was imported?": [[111, "which-version-was-imported"]], "sys.path": [[111, "sys-path"]], "easy-install.pth": [[111, "easy-install-pth"]], "PYTHONPATH": [[111, "pythonpath"], [145, "pythonpath"]], "qinit default routines": [[112, "qinit-default-routines"]], "qinit routine in GeoClaw": [[112, "qinit-routine-in-geoclaw"]], "Quick start guide for storm surge modeling": [[113, "quick-start-guide-for-storm-surge-modeling"]], "Quick start guide for tsunami modeling": [[114, "quick-start-guide-for-tsunami-modeling"]], "AMR refinement criteria": [[115, "amr-refinement-criteria"]], "Flagging criteria": [[115, "flagging-criteria"]], "flag2refine": [[115, "flag2refine"]], "Richardson extrapolation": [[115, "richardson-extrapolation"]], "Specifying AMR regions": [[115, "specifying-amr-regions"]], "Implementation": [[115, "implementation"]], "Flagging criteria in GeoClaw": [[115, "flagging-criteria-in-geoclaw"]], "Regression testing": [[116, "regression-testing"]], "Running the tests": [[116, "running-the-tests"], [116, "id2"]], "Fortran codes": [[116, "fortran-codes"]], "Travis continuous integration": [[116, "travis-continuous-integration"]], "Diff tools for checking test output": [[116, "diff-tools-for-checking-test-output"]], "chardiff tool for line-by-line comparison of output files": [[116, "chardiff-tool-for-line-by-line-comparison-of-output-files"]], "imagediff tool for pixel comparison of plots": [[116, "imagediff-tool-for-pixel-comparison-of-plots"]], "Running and writing tests in PyClaw": [[116, "running-and-writing-tests-in-pyclaw"]], "Running serial tests simultaneously": [[116, "running-serial-tests-simultaneously"]], "Running a specific test": [[116, "running-a-specific-test"]], "Doctests": [[116, "doctests"]], "Writing New Tests": [[116, "writing-new-tests"]], "v5.0.0 release notes": [[117, "v5-0-0-release-notes"]], "Changes to classic, riemann, amrclaw, geoclaw, visclaw": [[117, "changes-to-classic-riemann-amrclaw-geoclaw-visclaw"]], "v5.1.0 release notes": [[118, "v5-1-0-release-notes"]], "v5.2.0 release notes": [[119, "v5-2-0-release-notes"]], "v5.2.1 release notes": [[120, "v5-2-1-release-notes"]], "v5.2.2 release notes": [[121, "v5-2-2-release-notes"]], "v5.3.0 release notes": [[122, "v5-3-0-release-notes"]], "v5.3.1 release notes": [[123, "v5-3-1-release-notes"]], "v5.4.0 release notes": [[124, "v5-4-0-release-notes"]], "Global changes": [[124, "global-changes"]], "v5.4.1 release notes": [[125, "v5-4-1-release-notes"]], "Changes to documentation": [[125, "changes-to-documentation"], [126, "changes-to-documentation"]], "v5.5.0 release notes": [[126, "v5-5-0-release-notes"]], "v5.6.0 release notes": [[127, "v5-6-0-release-notes"]], "v5.6.1 release notes": [[128, "v5-6-1-release-notes"]], "v5.7.0 release notes": [[129, "v5-7-0-release-notes"]], "Python support": [[129, "python-support"]], "v5.7.1 release notes": [[130, "v5-7-1-release-notes"]], "v5.8.0 release notes": [[131, "v5-8-0-release-notes"]], "v5.8.1 release notes": [[132, "v5-8-1-release-notes"]], "v5.8.2 release notes": [[133, "v5-8-2-release-notes"]], "v5.9.0 release notes": [[134, "v5-9-0-release-notes"]], "v5.9.1 release notes": [[135, "v5-9-1-release-notes"]], "v5.9.2 release notes": [[136, "v5-9-2-release-notes"]], "Releases of Clawpack and release notes": [[137, "releases-of-clawpack-and-release-notes"]], "Other notes:": [[137, "other-notes"]], "Releases:": [[137, "id1"]], "Clawpack 4.x": [[137, "clawpack-4-x"]], "Checkpointing and restarting": [[138, "checkpointing-and-restarting"]], "Checkpointing a computation": [[138, "checkpointing-a-computation"]], "Restarting a computation": [[138, "restarting-a-computation"]], "Modifying the Makefile for a restart": [[138, "modifying-the-makefile-for-a-restart"]], "Output files after a restart": [[138, "output-files-after-a-restart"]], "Riemann solvers": [[139, "riemann-solvers"]], "One-dimensional Riemann solver": [[139, "one-dimensional-riemann-solver"]], "Pointwise Riemann solvers": [[139, "pointwise-riemann-solvers"]], "f-wave Riemann solvers": [[139, "f-wave-riemann-solvers"]], "2D Riemann solvers": [[139, "d-riemann-solvers"]], "Using a custom solver": [[139, "using-a-custom-solver"]], "Adding a solver to the Riemann repository": [[139, "adding-a-solver-to-the-riemann-repository"]], "Shallow water Riemann solvers in Clawpack": [[140, "shallow-water-riemann-solvers-in-clawpack"]], "One dimension": [[140, "one-dimension"]], "Two dimensions": [[140, "two-dimensions"]], "Layered shallow water equations": [[140, "layered-shallow-water-equations"]], "Potentially useful contributions (what\u2019s missing)": [[140, "potentially-useful-contributions-whats-missing"]], "Demonstrations": [[140, "demonstrations"]], "Roe": [[140, "roe"]], "HLL": [[140, "hll"]], "Ruled Rectangles": [[141, "ruled-rectangles"]], "Relation to convex polygons": [[141, "relation-to-convex-polygons"]], "Other attributes and methods": [[141, "other-attributes-and-methods"]], "ds": [[141, "ds"]], "slu": [[141, "slu"]], "bounding_box": [[141, "bounding-box"]], "mask_outside": [[141, "mask-outside"]], "read and write, and instantiating from a file": [[141, "read-and-write-and-instantiating-from-a-file"]], "make_kml": [[141, "make-kml"]], "A GeoClaw AMR flag region": [[141, "a-geoclaw-amr-flag-region"]], "A simple rectangle": [[141, "a-simple-rectangle"]], "Defining a Ruled Rectangle covering selected cells": [[141, "defining-a-ruled-rectangle-covering-selected-cells"]], "Example covering the continental shelf": [[141, "example-covering-the-continental-shelf"]], "Setting sea_level": [[142, "setting-sea-level"]], "Set Eta Init \u2013 spatially varying initial surface elevation": [[143, "set-eta-init-spatially-varying-initial-surface-elevation"]], "Default behavior, adjusting sea level by seismic deformation": [[143, "default-behavior-adjusting-sea-level-by-seismic-deformation"]], "Other use cases": [[143, "other-use-cases"]], "setaux default routines": [[144, "setaux-default-routines"]], "setaux routine in GeoClaw": [[144, "setaux-routine-in-geoclaw"]], "Set environment variables": [[145, "set-environment-variables"]], "CLAW": [[145, "claw"]], "FC": [[145, "fc"]], "Using setplot.py to specify the desired plots": [[146, "using-setplot-py-to-specify-the-desired-plots"]], "Plotting Data Objects": [[146, "plotting-data-objects"]], "Overview": [[146, "overview"]], "Specifying classic run-time parameters in setrun.py": [[147, "specifying-classic-run-time-parameters-in-setrun-py"]], "Input": [[147, "input"], [148, "input"]], "Output": [[147, "output"], [148, "output"]], "Run-time parameters": [[147, "run-time-parameters"], [148, "run-time-parameters"]], "Specifying AMRClaw run-time parameters in setrun.py": [[148, "specifying-amrclaw-run-time-parameters-in-setrun-py"]], "Special AMR parameters": [[148, "special-amr-parameters"]], "Debugging flags for additional printing": [[148, "debugging-flags-for-additional-printing"]], "Sample setrun.py module for AMRClaw": [[149, "sample-setrun-py-module-for-amrclaw"]], "Specifying GeoClaw parameters in setrun.py": [[150, "specifying-geoclaw-parameters-in-setrun-py"]], "Additional AMR parameters": [[150, "additional-amr-parameters"]], "General geo parameters": [[150, "general-geo-parameters"]], "Topography data file parameters": [[150, "topography-data-file-parameters"]], "qinit data file parameters": [[150, "qinit-data-file-parameters"]], "Force some cells to be initially dry": [[150, "force-some-cells-to-be-initially-dry"]], "Adjust sea level in some regions": [[150, "adjust-sea-level-in-some-regions"]], "AMR refinement region parameters": [[150, "amr-refinement-region-parameters"]], "Deprecated Fixedgrid output parameters": [[150, "deprecated-fixedgrid-output-parameters"]], "Fixed grid maximum monitoring / arrival times": [[150, "fixed-grid-maximum-monitoring-arrival-times"]], "Storm Specification Data": [[150, "storm-specification-data"]], "Sample setrun.py module for classic Clawpack": [[151, "sample-setrun-py-module-for-classic-clawpack"]], "Saving and sharing results": [[152, "saving-and-sharing-results"]], "Making webpages of plots": [[152, "making-webpages-of-plots"]], "Sharing your results": [[152, "sharing-your-results"]], "Jupyter notebooks": [[152, "jupyter-notebooks"]], "Source terms for shallow water on the sphere": [[153, "source-terms-for-shallow-water-on-the-sphere"]], "Compiling the Sphinx documentation locally": [[154, "compiling-the-sphinx-documentation-locally"]], "src1d default routines": [[155, "src1d-default-routines"]], "src1d routine in GeoClaw": [[155, "src1d-routine-in-geoclaw"]], "src default routines": [[156, "src-default-routines"]], "src routine in GeoClaw": [[156, "src-routine-in-geoclaw"]], "Storm Specification Class and Tools": [[157, "storm-specification-class-and-tools"]], "Sources for Storm Surge Data": [[158, "sources-for-storm-surge-data"]], "Timing Statistics": [[160, "timing-statistics"]], "Topography data": [[161, "topography-data"]], "Downloading topography files": [[161, "downloading-topography-files"]], "NetCDF format": [[161, "netcdf-format"]], "Topography displacement files": [[161, "topography-displacement-files"]], "qinit data file": [[161, "qinit-data-file"]], "Python tools for working with topo and dtopo": [[162, "python-tools-for-working-with-topo-and-dtopo"]], "topotools module for working with topography data": [[163, "topotools-module-for-working-with-topography-data"]], "Troubleshooting Installation": [[164, "troubleshooting-installation"]], "Troubleshooting Fortran:": [[164, "troubleshooting-fortran"]], "Setting the Fortran compiler to be used by f2py (pip)": [[164, "setting-the-fortran-compiler-to-be-used-by-f2py-pip"]], "Trouble compiling Fortran code at the command line": [[164, "trouble-compiling-fortran-code-at-the-command-line"]], "Trouble running \u201cmake .exe\u201d": [[164, "trouble-running-make-exe"]], "Trouble running \u201cmake .data\u201d": [[164, "trouble-running-make-data"]], "Trouble running \u201cmake .output\u201d": [[164, "trouble-running-make-output"]], "Trouble running \u201cmake .plots\u201d": [[164, "trouble-running-make-plots"]], "Some sources of tsunami data": [[165, "some-sources-of-tsunami-data"]], "Topography / bathymetry": [[165, "topography-bathymetry"]], "Earthquake source models": [[165, "earthquake-source-models"]], "DART buoy data": [[165, "dart-buoy-data"]], "Tide gauges": [[165, "tide-gauges"]], "User files required for the Fortran code": [[166, "user-files-required-for-the-fortran-code"]], "Specifying the initial conditions": [[166, "specifying-the-initial-conditions"]], "Specifying the Riemann solver": [[166, "specifying-the-riemann-solver"]], "Specifying boundary conditions": [[166, "specifying-boundary-conditions"]], "Specifying problem-specific data": [[166, "specifying-problem-specific-data"]], "Specifying spatially-varying data using setaux": [[166, "specifying-spatially-varying-data-using-setaux"]], "Using b4step for work to be done before each time step": [[166, 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attribute)": [[91, "clawpack.pyclaw.controller.Controller.output_style"]], "overwrite (clawpack.pyclaw.controller.controller attribute)": [[91, "clawpack.pyclaw.controller.Controller.overwrite"]], "plot() (clawpack.pyclaw.controller.controller method)": [[91, "clawpack.pyclaw.controller.Controller.plot"]], "plotdata (clawpack.pyclaw.controller.controller attribute)": [[91, "clawpack.pyclaw.controller.Controller.plotdata"]], "run() (clawpack.pyclaw.controller.controller method)": [[91, "clawpack.pyclaw.controller.Controller.run"]], "rundir (clawpack.pyclaw.controller.controller attribute)": [[91, "clawpack.pyclaw.controller.Controller.rundir"]], "runmake (clawpack.pyclaw.controller.controller attribute)": [[91, "clawpack.pyclaw.controller.Controller.runmake"]], "savecode (clawpack.pyclaw.controller.controller attribute)": [[91, "clawpack.pyclaw.controller.Controller.savecode"]], "solver (clawpack.pyclaw.controller.controller attribute)": [[91, 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"dimensional_split (clawpack.petclaw.geometry.domain attribute)": [[94, "clawpack.petclaw.geometry.Domain.dimensional_split"]], "dimensions (clawpack.pyclaw.geometry.grid property)": [[94, "clawpack.pyclaw.geometry.Grid.dimensions"]], "dimensions (clawpack.pyclaw.geometry.patch property)": [[94, "clawpack.pyclaw.geometry.Patch.dimensions"]], "fwave (clawpack.petclaw.geometry.domain attribute)": [[94, "clawpack.petclaw.geometry.Domain.fwave"]], "gauge_dir_name (clawpack.pyclaw.geometry.grid attribute)": [[94, "clawpack.pyclaw.geometry.Grid.gauge_dir_name"]], "gauge_file_names (clawpack.pyclaw.geometry.grid attribute)": [[94, "clawpack.pyclaw.geometry.Grid.gauge_file_names"]], "gauge_files (clawpack.pyclaw.geometry.grid attribute)": [[94, "clawpack.pyclaw.geometry.Grid.gauge_files"]], "gauges (clawpack.pyclaw.geometry.grid attribute)": [[94, "clawpack.pyclaw.geometry.Grid.gauges"]], "get_dim_attribute() (clawpack.pyclaw.geometry.grid method)": [[94, "clawpack.pyclaw.geometry.Grid.get_dim_attribute"]], "get_dim_attribute() (clawpack.pyclaw.geometry.patch method)": [[94, "clawpack.pyclaw.geometry.Patch.get_dim_attribute"]], "grid (clawpack.pyclaw.geometry.domain property)": [[94, "clawpack.pyclaw.geometry.Domain.grid"]], "kernel_language (clawpack.petclaw.geometry.domain attribute)": [[94, "clawpack.petclaw.geometry.Domain.kernel_language"]], "level (clawpack.pyclaw.geometry.patch attribute)": [[94, "clawpack.pyclaw.geometry.Patch.level"]], "lower_global (clawpack.pyclaw.geometry.patch property)": [[94, "clawpack.pyclaw.geometry.Patch.lower_global"]], "mthlim (clawpack.petclaw.geometry.domain attribute)": [[94, "clawpack.petclaw.geometry.Domain.mthlim"]], "name (clawpack.pyclaw.geometry.patch property)": [[94, "clawpack.pyclaw.geometry.Patch.name"]], "nodes (clawpack.pyclaw.geometry.dimension property)": [[94, "clawpack.pyclaw.geometry.Dimension.nodes"]], "nodes_with_ghost() (clawpack.pyclaw.geometry.dimension method)": [[94, 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"clawpack.pyclaw.fileio.binary": [[97, "module-clawpack.pyclaw.fileio.binary"]], "clawpack.pyclaw.fileio.netcdf": [[97, "module-clawpack.pyclaw.fileio.netcdf"]], "read() (in module clawpack.pyclaw.fileio.ascii)": [[97, "clawpack.pyclaw.fileio.ascii.read"]], "read() (in module clawpack.pyclaw.fileio.binary)": [[97, "clawpack.pyclaw.fileio.binary.read"]], "read() (in module clawpack.pyclaw.fileio.netcdf)": [[97, "clawpack.pyclaw.fileio.netcdf.read"]], "read_array() (in module clawpack.pyclaw.fileio.ascii)": [[97, "clawpack.pyclaw.fileio.ascii.read_array"]], "read_patch_header() (in module clawpack.pyclaw.fileio.ascii)": [[97, "clawpack.pyclaw.fileio.ascii.read_patch_header"]], "read_t() (in module clawpack.pyclaw.fileio.ascii)": [[97, "clawpack.pyclaw.fileio.ascii.read_t"]], "write() (in module clawpack.pyclaw.fileio.ascii)": [[97, "clawpack.pyclaw.fileio.ascii.write"]], "write() (in module clawpack.pyclaw.fileio.netcdf)": [[97, "clawpack.pyclaw.fileio.netcdf.write"]], "write_array() (in 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"euler_hll_1d() (in module clawpack.riemann.euler_1d_py)": [[102, "clawpack.riemann.euler_1D_py.euler_hll_1D"]], "euler_hllc_1d() (in module clawpack.riemann.euler_1d_py)": [[102, "clawpack.riemann.euler_1D_py.euler_hllc_1D"]], "euler_roe_1d() (in module clawpack.riemann.euler_1d_py)": [[102, "clawpack.riemann.euler_1D_py.euler_roe_1D"]], "shallow_exact_1d() (in module clawpack.riemann.shallow_1d_py)": [[102, "clawpack.riemann.shallow_1D_py.shallow_exact_1D"]], "shallow_fwave_1d() (in module clawpack.riemann.shallow_1d_py)": [[102, "clawpack.riemann.shallow_1D_py.shallow_fwave_1d"]], "shallow_hll_1d() (in module clawpack.riemann.shallow_1d_py)": [[102, "clawpack.riemann.shallow_1D_py.shallow_hll_1D"]], "shallow_roe_1d() (in module clawpack.riemann.shallow_1d_py)": [[102, "clawpack.riemann.shallow_1D_py.shallow_roe_1D"]], "solution (class in clawpack.pyclaw.solution)": [[103, "clawpack.pyclaw.solution.Solution"]], "is_valid() (clawpack.pyclaw.solution.solution method)": [[103, 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62, 64, 66, 67, 70, 72, 75, 77, 82, 86, 88, 91, 94, 98, 109, 116, 124, 141, 142, 143, 146, 147, 150, 157, 161, 166], "inch": [2, 55, 63, 82, 146], "red": [2, 3, 30, 47, 63, 82, 116, 146], "option": [2, 12, 13, 16, 19, 22, 24, 27, 30, 31, 32, 34, 36, 37, 38, 39, 43, 44, 51, 54, 57, 60, 62, 66, 71, 77, 81, 82, 88, 89, 91, 93, 94, 95, 97, 98, 100, 103, 104, 105, 108, 109, 111, 112, 115, 116, 119, 122, 123, 124, 127, 129, 132, 134, 136, 141, 145, 146, 147, 149, 150, 151, 152, 157, 163], "clf_each_fram": 2, "clf": 2, "axes1": [2, 84], "shown": [3, 13, 18, 19, 58, 63, 67, 68, 71, 78, 98, 119, 120, 121, 122, 123, 124, 125, 126, 127, 128, 129, 130, 131, 132, 133, 134, 135, 136, 141, 163, 166], "fragment": 3, "typic": [3, 22, 42, 66, 67, 71, 72, 75, 77, 78, 84, 89, 99, 101, 104, 106, 115, 148, 149, 160, 161, 164, 165, 166, 169], "assum": [3, 5, 22, 24, 32, 34, 36, 37, 39, 42, 49, 51, 52, 55, 57, 58, 59, 63, 71, 75, 81, 97, 98, 100, 101, 102, 108, 109, 115, 122, 135, 141, 142, 147, 150, 157, 158, 161, 163, 165, 169], "instanc": [3, 30, 37, 55, 75, 78, 84, 88, 89, 91, 94, 97, 98, 101, 141, 150], "type": [3, 4, 7, 13, 18, 22, 30, 32, 38, 39, 43, 47, 48, 55, 66, 71, 82, 83, 84, 88, 89, 90, 92, 94, 99, 100, 104, 105, 108, 109, 141, 148, 149, 150, 157, 158, 161, 163, 169], "dimension": [3, 7, 8, 17, 19, 24, 27, 32, 34, 36, 38, 39, 47, 49, 52, 56, 71, 94, 101, 122, 123, 125, 128, 149, 150, 151, 163, 166], "point": [3, 5, 6, 13, 15, 16, 17, 22, 30, 32, 35, 36, 38, 39, 41, 42, 44, 47, 48, 49, 50, 51, 52, 55, 57, 58, 59, 61, 62, 63, 64, 71, 72, 75, 88, 98, 99, 103, 109, 110, 111, 115, 125, 127, 129, 135, 138, 139, 141, 142, 143, 144, 145, 147, 148, 149, 150, 155, 156, 157, 161, 163, 164, 166], "slice": [3, 49, 71, 139], "scatter": [3, 24, 71], "radial": [3, 18, 34, 49, 51, 150, 166], "symmetr": [3, 49, 51, 166], "between": [3, 4, 5, 6, 13, 16, 25, 27, 30, 32, 33, 34, 36, 37, 41, 51, 55, 59, 63, 70, 71, 72, 75, 76, 78, 81, 91, 94, 98, 104, 106, 107, 109, 110, 111, 115, 123, 124, 139, 141, 142, 147, 148, 149, 150, 151, 152, 153, 160, 161, 163, 165, 166], "plot_var": [3, 29, 47, 55, 82, 83], "fill_var2": 3, "diment": 3, "raster": [3, 55, 57, 134, 161], "contour": [3, 32, 47, 55, 57, 71, 110, 146, 163], "pcolor": [3, 47, 81, 110, 134, 163], "2d_schlieren": 3, "schlieren": [3, 71], "2d_patch": [3, 24], "cell": [3, 4, 5, 7, 8, 15, 16, 18, 19, 22, 24, 27, 29, 34, 35, 36, 37, 47, 48, 49, 55, 57, 63, 70, 71, 72, 76, 77, 78, 88, 94, 97, 99, 102, 104, 106, 108, 115, 118, 119, 123, 124, 125, 126, 127, 128, 129, 131, 135, 139, 142, 143, 144, 147, 148, 149, 151, 153, 158, 160, 161, 166, 169], "patch": [3, 6, 7, 16, 19, 24, 29, 34, 42, 55, 71, 75, 76, 77, 81, 82, 97, 99, 103, 106, 115, 124, 126, 129, 131, 143, 146, 148, 160, 161, 166], "edg": [3, 6, 15, 16, 19, 29, 32, 34, 35, 36, 37, 41, 49, 63, 75, 94, 102, 139, 141, 144, 148, 149, 151, 166], "hillshad": 3, "come": [3, 30, 82, 84, 93, 99, 104, 122, 161, 166], "parent": [3, 29, 94, 106, 109], "integ": [3, 34, 35, 36, 47, 55, 63, 68, 70, 82, 89, 103, 115, 125, 128, 139, 147, 150, 157, 163], "compon": [3, 16, 22, 24, 27, 39, 47, 61, 62, 71, 77, 81, 101, 103, 105, 106, 115, 122, 131, 140, 147, 148, 149, 161, 166], "correspond": [3, 6, 12, 25, 27, 29, 32, 35, 36, 37, 47, 49, 51, 52, 57, 58, 59, 63, 71, 75, 82, 88, 92, 94, 97, 98, 101, 103, 106, 115, 116, 139, 141, 142, 147, 148, 149, 150, 151, 157, 161, 165, 166], "appli": [3, 4, 5, 6, 13, 16, 19, 27, 32, 52, 55, 57, 68, 70, 75, 82, 84, 92, 94, 97, 104, 115, 138, 147, 150, 166], "comput": [3, 4, 5, 6, 13, 16, 17, 18, 19, 29, 31, 32, 34, 35, 36, 37, 42, 47, 49, 51, 55, 57, 62, 63, 64, 66, 72, 75, 81, 82, 84, 89, 91, 94, 96, 97, 98, 99, 104, 108, 111, 113, 115, 118, 119, 123, 124, 128, 131, 134, 136, 139, 143, 147, 149, 150, 151, 158, 161, 166, 169], "signatur": [3, 89, 92, 94, 95, 97, 102, 157], "hold": [3, 37, 84, 108, 115], "current": [3, 5, 13, 14, 19, 22, 24, 26, 29, 30, 31, 32, 34, 37, 41, 42, 44, 47, 48, 49, 52, 57, 58, 59, 61, 62, 63, 64, 71, 73, 77, 82, 84, 94, 97, 98, 99, 104, 106, 109, 111, 115, 116, 123, 125, 126, 136, 138, 142, 146, 147, 148, 149, 150, 151, 153, 157, 158, 161, 163, 165], "afteritem": [3, 29], "afterpatch": [3, 29], "There": [3, 6, 13, 24, 36, 39, 43, 55, 58, 59, 66, 70, 75, 77, 84, 85, 98, 105, 113, 125, 126, 146, 147, 158, 159, 166, 168], "calcul": [3, 5, 6, 18, 19, 29, 32, 35, 37, 48, 51, 71, 75, 82, 94, 102, 104, 119, 124, 163], "cd": [3, 13, 30, 38, 39, 40, 56, 58, 59, 61, 62, 84, 93, 96, 99, 105, 116, 159], "On": [3, 5, 13, 55, 76, 85, 125, 135, 141, 145, 166], "ylower": [3, 24, 29, 42, 89, 126, 149, 161, 163], "patchno": [3, 29], "out": [3, 16, 26, 28, 31, 32, 34, 36, 37, 38, 39, 42, 47, 48, 49, 54, 56, 57, 58, 59, 62, 63, 64, 65, 66, 71, 75, 82, 85, 86, 88, 89, 91, 97, 98, 99, 100, 103, 108, 110, 111, 113, 116, 124, 126, 128, 129, 139, 141, 148, 149, 151, 157, 163, 164], "lower": [3, 24, 32, 34, 35, 41, 49, 57, 70, 77, 94, 99, 141, 143, 147, 149, 151, 161, 163, 165], "left": [3, 5, 10, 13, 16, 20, 27, 29, 32, 34, 57, 77, 84, 94, 101, 102, 108, 125, 131, 134, 135, 136, 137, 138, 139, 142, 148, 161, 163, 165, 169], "mappedgrid": [3, 71], "map": [3, 16, 18, 31, 32, 42, 48, 63, 70, 71, 82, 86, 89, 94, 96, 101, 115, 122, 126, 131, 140, 163, 169], "mapc2p": [3, 27, 29, 49, 71, 89, 94, 131], "underli": [3, 55, 124], "requir": [3, 4, 16, 18, 19, 22, 24, 27, 29, 32, 34, 36, 37, 38, 39, 43, 48, 49, 51, 52, 59, 62, 70, 71, 75, 78, 81, 84, 85, 88, 89, 94, 97, 100, 101, 104, 105, 106, 108, 109, 110, 115, 116, 118, 119, 122, 124, 127, 129, 131, 134, 136, 139, 140, 141, 146, 147, 148, 149, 150, 151, 157, 158, 161, 164, 167, 169], "depend": [3, 13, 16, 30, 31, 32, 34, 37, 38, 39, 43, 44, 50, 52, 55, 66, 68, 71, 75, 82, 87, 97, 102, 103, 104, 109, 111, 115, 126, 143, 148, 150, 163, 164, 166, 169], "summar": [3, 30, 33, 115, 117, 166], "plotstyl": [3, 47, 82, 146], "anyth": [3, 6, 30, 31, 62, 67, 116, 126], "valid": [3, 52, 75, 91, 98, 103, 106, 124, 150, 157, 158, 163], "fmt": 3, "group": [3, 13, 26, 30, 32, 52, 93, 97, 99, 107, 123, 139], "solid": [3, 16, 55, 75, 101, 146, 147, 149, 151], "dash": [3, 99], "o": [3, 5, 17, 41, 42, 43, 70, 72, 82, 85, 86, 89, 97, 98, 107, 126, 149, 163, 166], "circl": [3, 51, 82], "bo": 3, "blue": [3, 11, 42, 47, 63, 70, 82, 141, 163], "though": [3, 42, 78, 157, 161], "also": [3, 4, 5, 6, 7, 8, 9, 11, 12, 16, 17, 18, 19, 20, 22, 24, 25, 26, 27, 30, 31, 32, 34, 35, 36, 37, 38, 39, 40, 41, 42, 44, 45, 46, 47, 49, 51, 52, 55, 56, 57, 58, 59, 60, 61, 62, 63, 64, 66, 67, 70, 71, 75, 76, 77, 78, 81, 82, 84, 88, 90, 91, 94, 96, 97, 98, 99, 101, 102, 103, 104, 105, 106, 107, 108, 109, 110, 111, 112, 113, 114, 115, 116, 118, 123, 124, 125, 126, 127, 128, 129, 130, 131, 132, 133, 134, 135, 136, 137, 138, 139, 140, 141, 142, 143, 145, 147, 148, 149, 150, 151, 152, 155, 156, 157, 158, 159, 160, 161, 163, 164, 165, 166, 168, 169], "overrul": 3, "r": [3, 4, 6, 17, 47, 51, 56, 58, 70, 71, 74, 82, 88, 92, 99, 101, 139, 141, 146, 163, 169], "ff0000": [3, 63], "No": [3, 43, 55, 59, 71, 94, 104, 132, 139, 147, 150, 164], "extra": [3, 55, 140], "give": [3, 6, 9, 10, 13, 16, 18, 19, 26, 30, 32, 34, 35, 36, 38, 39, 47, 49, 56, 63, 64, 70, 72, 75, 76, 77, 82, 84, 99, 100, 104, 116, 119, 123, 124, 128, 131, 141, 147, 150, 161, 163, 165], "polygon": [3, 7, 41, 55, 63, 129, 163], "curv": [3, 47, 81, 141], "fill_between": 3, "plot_var2": 3, "zero": [3, 16, 32, 34, 42, 44, 47, 63, 71, 72, 88, 101, 102, 106, 108, 131, 141, 142], "fill_wher": 3, "plotitem": [3, 29, 47, 82, 146], "mean": [3, 13, 24, 30, 34, 42, 47, 52, 56, 62, 71, 72, 98, 99, 115, 139, 142, 147, 149, 151, 165], "map_2d_to_1d": 3, "In": [3, 5, 6, 8, 11, 12, 15, 16, 18, 19, 21, 22, 24, 29, 32, 34, 36, 41, 44, 47, 48, 49, 52, 55, 56, 57, 58, 59, 62, 63, 64, 66, 67, 70, 71, 72, 74, 75, 77, 78, 82, 83, 84, 88, 89, 94, 96, 97, 98, 99, 100, 101, 102, 104, 106, 109, 111, 112, 113, 115, 118, 119, 122, 123, 124, 126, 127, 131, 135, 138, 139, 141, 143, 144, 145, 147, 148, 150, 153, 155, 156, 161, 163, 164, 166, 169], "about": [3, 5, 7, 13, 14, 16, 18, 24, 27, 35, 36, 37, 38, 39, 43, 49, 51, 52, 57, 59, 63, 66, 68, 71, 77, 83, 85, 88, 96, 97, 99, 104, 111, 116, 123, 127, 129, 134, 135, 139, 146, 148, 149, 150, 161, 164, 166, 169], "j": [3, 4, 5, 15, 17, 22, 24, 29, 35, 42, 56, 63, 70, 71, 77, 84, 96, 97, 115, 118, 119, 143, 144], "v": [3, 16, 27, 31, 32, 34, 36, 37, 51, 64, 67, 116, 123, 148, 161], "radiu": [3, 150, 157, 158, 163], "q0_vs_radiu": 3, "convert": [3, 24, 27, 32, 35, 37, 45, 51, 55, 62, 63, 66, 75, 78, 89, 96, 101, 109, 110, 126, 129, 135, 136, 147, 148, 157, 161, 165], "numpi": [3, 13, 32, 34, 36, 37, 42, 51, 70, 85, 87, 88, 89, 91, 94, 101, 106, 107, 108, 110, 116, 136, 140, 141, 149, 163, 164], "sqrt": [3, 34, 37, 49, 68, 88, 101, 102, 108, 149], "q0": [3, 101], "work": [3, 5, 8, 13, 16, 19, 21, 22, 24, 26, 27, 28, 30, 31, 34, 36, 38, 39, 43, 48, 52, 55, 56, 57, 58, 59, 60, 61, 62, 63, 70, 71, 74, 75, 76, 82, 85, 86, 87, 88, 90, 91, 92, 96, 97, 98, 99, 102, 104, 105, 110, 111, 113, 114, 115, 116, 120, 121, 122, 123, 124, 125, 126, 129, 131, 132, 137, 139, 145, 146, 147, 148, 152, 158, 161, 164, 168], "symbol": [3, 71, 111], "best": [3, 4, 16, 24, 28, 30, 36, 44, 49, 55, 57, 59, 60, 66, 72, 74, 76, 81, 82, 97, 101, 113, 114, 115, 116, 126, 137, 139, 150, 154, 157, 161, 166], "descript": [3, 4, 6, 9, 19, 24, 25, 27, 32, 37, 63, 71, 75, 78, 81, 96, 97, 109, 113, 115, 136, 139, 140, 150, 157, 161, 169], "celledges_show": [3, 24], "draw": 3, "amr_celledges_show": 3, "level": [3, 6, 7, 16, 19, 25, 29, 31, 34, 36, 41, 42, 47, 48, 50, 51, 52, 55, 58, 59, 61, 62, 71, 72, 76, 77, 89, 91, 94, 96, 97, 98, 104, 111, 112, 115, 116, 118, 119, 123, 124, 126, 129, 138, 141, 142, 145, 147, 148, 149, 151, 160, 161, 163, 165, 166], "patchedges_show": [3, 24], "mostli": [3, 81, 96, 129, 136], "contour_level": [3, 163], "three": [3, 13, 17, 24, 32, 34, 37, 52, 55, 67, 71, 75, 99, 103, 109, 116, 141, 147, 150, 161, 163, 166], "contour_nlevel": 3, "contour_min": 3, "minimum": [3, 19, 34, 47, 55, 75, 108, 124, 150, 163], "contour_max": 3, "maximum": [3, 24, 32, 34, 35, 36, 48, 71, 72, 104, 108, 115, 118, 119, 126, 129, 147, 148, 149, 151, 157, 158], "contour_color": 3, "specif": [3, 5, 12, 19, 24, 30, 32, 47, 48, 49, 51, 55, 56, 62, 65, 67, 68, 77, 86, 87, 89, 91, 96, 97, 98, 102, 103, 109, 113, 124, 125, 126, 129, 146, 147, 148, 149, 151, 158, 161], "b": [3, 5, 17, 18, 19, 30, 32, 34, 35, 36, 37, 42, 47, 49, 56, 58, 59, 68, 72, 82, 104, 115, 122, 129, 141, 142, 143, 150, 163, 165], "0000ff": [3, 63], "colormap": [3, 32, 42, 50, 55, 70, 71, 81, 83, 123, 129, 163], "amr_contour_color": 3, "As": [3, 18, 19, 39, 42, 48, 49, 52, 58, 59, 63, 64, 88, 108, 110, 114, 118, 129, 139, 140, 143, 150, 153, 159, 166], "black": [3, 47], "subsequ": [3, 10, 71], "both": [3, 16, 18, 19, 30, 32, 35, 36, 37, 38, 39, 41, 42, 47, 52, 57, 60, 62, 67, 70, 71, 75, 77, 89, 97, 98, 99, 104, 105, 115, 116, 122, 123, 126, 129, 134, 139, 140, 141, 143, 147, 148, 149, 151, 155, 161, 166], "fine": [3, 19, 34, 35, 36, 42, 49, 58, 74, 78, 96, 101, 115, 124, 131, 141, 143, 147, 148, 150, 161, 166], "coars": [3, 34, 36, 55, 115, 124, 131, 147, 161, 166], "anoth": [3, 24, 36, 42, 47, 55, 62, 63, 77, 81, 85, 93, 104, 107, 116, 126, 157, 166], "refin": [3, 4, 5, 7, 8, 17, 19, 24, 36, 48, 49, 52, 55, 56, 57, 70, 71, 77, 78, 88, 124, 126, 127, 129, 131, 141, 143, 146, 147, 148, 149, 160, 161, 166], "region": [3, 6, 7, 13, 16, 19, 24, 34, 36, 41, 42, 48, 52, 53, 55, 63, 68, 72, 75, 78, 113, 126, 129, 131, 142, 143, 148, 149, 153, 161, 163], "lack": 3, "hidden": [3, 66, 82], "blank": [3, 35, 63, 157], "coarser": [3, 16, 19, 57, 124, 143, 147, 148, 166], "easili": [3, 13, 30, 34, 55, 58, 71, 82, 89, 94, 105, 109, 116, 129, 152], "contour_show": 3, "commonli": [3, 71, 82, 84], "amr_contour_show": 3, "determin": [3, 5, 6, 32, 34, 37, 42, 47, 48, 49, 52, 54, 55, 58, 63, 72, 75, 82, 92, 94, 97, 102, 106, 111, 115, 119, 123, 124, 138, 141, 142, 146, 147, 148, 150, 163, 166], "whether": [3, 6, 13, 16, 24, 51, 57, 60, 62, 64, 65, 66, 71, 86, 94, 97, 98, 102, 103, 104, 115, 116, 124, 139, 141, 147, 148, 150, 163], "view": [3, 4, 24, 36, 38, 39, 47, 48, 49, 55, 57, 58, 63, 77, 81, 83, 84, 88, 99, 105, 110, 122, 126, 152, 153, 154], "finest": [3, 19, 34, 36, 42, 47, 72, 126, 160, 163], "contour_kwarg": [3, 163], "pcolor_cmap": [3, 55], "pcolor_cmin": 3, "pcolor_cmax": 3, "thei": [3, 5, 6, 13, 16, 18, 19, 26, 29, 30, 32, 34, 36, 41, 42, 47, 49, 52, 55, 58, 59, 62, 63, 64, 67, 70, 71, 77, 81, 94, 96, 101, 104, 109, 115, 116, 124, 131, 143, 146, 150, 153, 157, 161, 163, 166], "chosen": [3, 31, 34, 41, 42, 55, 57, 70, 108, 115, 131, 142, 148], "vari": [3, 15, 17, 27, 32, 42, 48, 49, 57, 68, 72, 101, 103, 122, 129, 139, 140, 142, 144, 148, 150, 169], "yield": [3, 19], "veri": [3, 5, 16, 18, 19, 24, 49, 52, 55, 59, 60, 63, 75, 82, 86, 89, 97, 98, 99, 100, 101, 104, 116, 119, 123, 134, 141, 143, 147, 158, 161], "confus": [3, 57, 62, 111, 131, 139], "add_colorbar": [3, 32, 163], "ad": [3, 12, 16, 22, 24, 26, 27, 29, 31, 34, 36, 37, 44, 47, 51, 57, 58, 59, 62, 63, 64, 68, 71, 72, 75, 82, 87, 89, 92, 94, 95, 98, 99, 111, 112, 113, 115, 118, 119, 120, 121, 122, 123, 124, 125, 126, 127, 128, 129, 130, 132, 134, 135, 136, 138, 143, 147, 148, 150, 153, 157, 160, 163, 167], "imshow_cmap": 3, "imshow_cmin": 3, "imshow_cmax": 3, "hillshade_vertical_exagger": 3, "vertic": [3, 32, 41, 52, 55, 63, 70, 141, 142, 150, 163, 165], "exagger": 3, "calul": 3, "hillshade_azimuth_degre": 3, "light": [3, 55, 71, 115], "sourc": [3, 4, 17, 18, 19, 25, 27, 30, 32, 44, 48, 49, 55, 56, 58, 59, 61, 62, 63, 65, 67, 68, 81, 86, 89, 93, 94, 95, 104, 105, 107, 108, 109, 113, 114, 116, 124, 125, 126, 135, 136, 140, 142, 147, 149, 150, 151, 154, 155, 156, 157, 161], "azimuth": 3, "angl": [3, 16, 32, 51, 75], "315": 3, "northwest": 3, "360": [3, 51, 55, 75], "degre": [3, 32, 49, 51, 55, 63, 72, 75], "clockwis": [3, 34, 51, 75, 163], "north": [3, 34, 42, 49, 51, 70, 75], "recommend": [3, 4, 18, 19, 32, 34, 36, 38, 39, 58, 59, 60, 62, 76, 81, 90, 94, 96, 99, 100, 104, 105, 107, 108, 115, 126, 134, 136, 147, 149, 151, 167], "proper": [3, 6, 15, 42, 47, 56, 57, 58, 59, 63, 68, 70, 71, 97, 109, 118, 124, 144, 148, 149, 155, 156, 157, 166], "interpret": [3, 32, 57, 75, 126, 161], "peopl": [3, 4, 12, 13, 86], "hillshade_altitude_degre": 3, "altitud": 3, "horizon": 3, "45": [3, 104], "90": [3, 27, 32, 49, 55, 67, 75, 105, 107, 135], "hillshade_latlon": 3, "correct": [3, 18, 19, 22, 30, 44, 58, 59, 67, 68, 71, 82, 88, 94, 99, 103, 109, 118, 119, 123, 143, 147, 149, 150, 151], "unit": [3, 32, 50, 51, 56, 75, 94, 124, 135, 157], "z": [3, 42, 57, 63, 70, 71, 88, 94, 102, 108, 141, 147, 148, 161, 163], "111200": 3, "reflect": [3, 4, 5, 16, 30, 115, 126, 147, 149, 151], "relat": [3, 7, 19, 24, 26, 58, 78, 102, 113, 125, 129, 131, 142], "pre": [3, 13, 35, 59, 90, 97], "pend": 3, "amr_": [3, 7], "whose": [3, 49, 82, 89, 101, 102, 143, 147, 148, 163], "origin": [3, 6, 13, 16, 18, 19, 22, 30, 32, 36, 37, 47, 56, 58, 70, 76, 77, 89, 104, 109, 118, 124, 131, 138, 148, 149, 150, 151, 163], "hand": [3, 5, 20, 21, 22, 68, 88, 116, 134, 135, 136, 141], "higher": [3, 6, 18, 19, 55, 94, 104, 105, 115, 129, 139, 141, 142, 143], "shorter": [3, 115, 163], "last": [3, 20, 29, 34, 36, 59, 61, 82, 88, 89, 101, 108, 123, 134, 135, 136, 147, 157], "repeatedli": [3, 99, 105, 148], "finer": [3, 7, 19, 34, 55, 115, 118, 119, 141, 147, 148], "celledg": [3, 32, 49], "colorbar_shrink": [3, 32], "colorbar_label": 3, "colorbar_tick": 3, "colorbar_tick_label": 3, "colorbar_extend": [3, 135], "colorbar_kwarg": [3, 126], "stand": [4, 131], "conserv": [4, 5, 6, 17, 18, 19, 98, 104, 106, 127, 140, 166, 169], "law": [4, 17, 63, 150, 169], "packag": [4, 27, 30, 31, 38, 39, 55, 59, 60, 67, 77, 78, 81, 85, 86, 88, 94, 96, 98, 100, 101, 103, 105, 108, 110, 111, 128, 129, 164, 167], "wa": [4, 5, 6, 14, 21, 22, 27, 31, 32, 34, 35, 36, 37, 42, 49, 52, 54, 58, 59, 66, 68, 70, 71, 75, 82, 99, 103, 104, 106, 115, 116, 117, 118, 119, 120, 121, 122, 123, 124, 125, 126, 127, 128, 129, 130, 131, 132, 133, 134, 135, 136, 138, 141, 143, 160, 161, 163], "initi": [4, 5, 7, 12, 13, 18, 19, 24, 27, 32, 36, 37, 47, 48, 49, 51, 52, 55, 59, 64, 67, 71, 72, 75, 77, 78, 84, 86, 87, 88, 89, 91, 92, 94, 95, 97, 98, 102, 103, 104, 106, 107, 109, 112, 115, 123, 126, 129, 131, 139, 142, 147, 148, 149, 151, 153, 157, 161, 163], "develop": [4, 6, 7, 12, 13, 20, 24, 25, 52, 56, 58, 61, 62, 65, 70, 71, 81, 85, 86, 89, 96, 101, 104, 105, 111, 113, 116, 126, 127, 129, 131, 134, 135, 136, 139, 142, 143, 149], "linear": [4, 5, 17, 18, 19, 32, 36, 37, 47, 49, 55, 72, 75, 82, 88, 92, 104, 127, 139, 140, 141], "nonlinear": [4, 5, 17, 52, 92, 139, 147, 169], "hyperbol": [4, 5, 6, 17, 18, 19, 45, 78, 89, 96, 101, 102, 108, 139, 147, 150, 166, 169], "system": [4, 16, 17, 18, 19, 25, 39, 40, 48, 55, 56, 62, 63, 67, 76, 77, 86, 96, 98, 99, 101, 102, 105, 108, 111, 116, 139, 147, 149, 151, 159, 166, 169], "focu": [4, 48], "high": [4, 17, 34, 52, 55, 70, 72, 75, 78, 89, 96, 104, 139, 142, 143, 165, 166], "resolut": [4, 6, 17, 32, 34, 36, 42, 47, 64, 72, 75, 94, 104, 108, 109, 118, 122, 126, 127, 134, 139, 142, 161, 163, 165, 166], "godunov": [4, 94, 104, 147, 149, 151, 166], "method": [4, 5, 7, 17, 19, 34, 36, 37, 41, 45, 47, 57, 70, 72, 82, 84, 88, 91, 92, 94, 99, 103, 104, 109, 115, 116, 122, 139, 146, 147, 148, 149, 151, 157, 160, 161, 163, 166], "framework": [4, 86, 89, 123, 124], "applic": [4, 6, 15, 16, 18, 19, 21, 22, 24, 25, 26, 30, 31, 34, 36, 37, 38, 39, 40, 44, 45, 46, 47, 48, 50, 59, 61, 62, 67, 70, 76, 77, 84, 93, 94, 95, 96, 98, 104, 109, 112, 114, 115, 116, 118, 121, 122, 124, 125, 126, 128, 129, 139, 141, 143, 144, 147, 150, 155, 156, 161, 163, 164, 166, 167], "finit": [4, 17, 34, 36, 45, 49, 57, 63, 70, 71, 72, 75, 104, 129, 141, 150, 160, 161, 166], "volum": [4, 17, 31, 34, 36, 45, 49, 57, 63, 70, 71, 72, 96, 129, 141, 148, 150, 160, 161, 166], "riemann": [4, 5, 8, 22, 24, 25, 30, 31, 48, 59, 62, 67, 78, 86, 88, 94, 95, 104, 105, 106, 108, 111, 145, 147, 149, 151, 155, 156, 169], "solver": [4, 5, 6, 22, 24, 25, 27, 30, 48, 49, 60, 61, 62, 67, 85, 86, 87, 91, 94, 95, 98, 106, 120, 122, 124, 125, 126, 127, 128, 129, 131, 136, 147, 149, 151, 155, 156, 169], "resolv": [4, 34, 36, 55, 58, 62, 113, 126, 143], "jump": [4, 5, 71, 84, 94, 104, 124, 147, 169], "discontinu": [4, 104, 169], "interfac": [4, 21, 24, 71, 86, 89, 92, 96, 97, 102, 104, 109, 139, 166, 167, 169], "wave": [4, 5, 6, 16, 17, 18, 27, 34, 42, 48, 49, 52, 55, 56, 75, 92, 94, 96, 101, 102, 104, 115, 122, 124, 125, 131, 140, 141, 142, 147, 148, 149, 150, 151, 153, 166], "propag": [4, 5, 6, 17, 18, 19, 27, 32, 49, 52, 55, 56, 75, 94, 96, 104, 115, 124, 139], "neighbor": [4, 18, 19, 36, 42, 70, 72, 115, 124, 143, 148, 149, 163], "formul": [4, 5, 19, 52, 68, 139, 147], "allow": [4, 6, 13, 19, 24, 29, 30, 31, 34, 36, 37, 41, 42, 47, 48, 51, 54, 55, 57, 58, 62, 68, 70, 71, 75, 76, 78, 81, 82, 91, 96, 97, 98, 104, 106, 109, 110, 111, 115, 116, 118, 119, 122, 123, 124, 125, 126, 128, 129, 131, 134, 135, 136, 139, 141, 147, 149, 150, 151, 152, 153, 157, 161, 163, 165], "easi": [4, 6, 11, 31, 41, 62, 71, 89, 98, 99, 100, 141, 152, 166], "extens": [4, 17, 19, 24, 26, 30, 32, 52, 55, 58, 62, 67, 71, 89, 96, 97, 109, 124, 125, 131, 147, 159, 163, 169], "problem": [4, 5, 7, 16, 17, 18, 19, 22, 26, 27, 29, 30, 31, 38, 39, 42, 45, 48, 49, 62, 66, 70, 71, 72, 75, 78, 82, 85, 87, 88, 93, 95, 96, 99, 102, 104, 107, 111, 116, 118, 119, 121, 122, 125, 129, 131, 135, 136, 139, 141, 143, 147, 148, 149, 150, 151, 152, 160, 164], "algorithm": [4, 7, 27, 34, 41, 42, 48, 56, 88, 94, 96, 97, 104, 108, 115, 126, 139, 141, 147, 149, 151, 163], "brief": [4, 59, 140, 150], "subroutin": [4, 6, 9, 16, 24, 34, 36, 67, 115, 122, 139, 147, 148, 160, 166, 169], "equat": [4, 5, 16, 17, 18, 27, 38, 39, 48, 49, 52, 64, 68, 82, 87, 88, 89, 91, 96, 97, 98, 101, 104, 105, 106, 119, 122, 124, 126, 127, 139, 147, 149, 150, 151, 153, 161, 166, 169], "solv": [4, 5, 8, 16, 17, 18, 19, 22, 28, 38, 39, 49, 52, 60, 62, 64, 87, 89, 91, 94, 96, 101, 102, 105, 127, 139, 140, 147, 161, 166, 169], "adapt": [4, 7, 17, 19, 32, 42, 49, 56, 57, 70, 71, 78, 88, 115, 126, 129, 131, 139, 141, 146, 147, 148, 150, 166], "mesh": [4, 7, 17, 19, 35, 49, 56, 70, 71, 78, 81, 88, 115, 129, 146, 147, 166], "amrclaw": [4, 5, 6, 12, 15, 16, 19, 21, 22, 24, 25, 26, 30, 39, 41, 42, 44, 46, 47, 48, 50, 56, 59, 60, 61, 62, 64, 70, 71, 76, 77, 78, 85, 96, 97, 105, 111, 112, 115, 116, 138, 139, 141, 144, 145, 147, 150, 155, 156, 159, 160, 164], "detail": [4, 5, 10, 16, 24, 25, 27, 28, 30, 31, 32, 34, 36, 38, 39, 41, 44, 47, 50, 52, 55, 58, 61, 62, 64, 65, 66, 70, 71, 75, 78, 82, 86, 91, 92, 93, 94, 96, 97, 98, 99, 100, 101, 102, 104, 114, 115, 116, 119, 124, 126, 131, 134, 139, 141, 146, 147, 150, 152, 157, 161, 164, 165, 166, 169], "content": [4, 6, 25, 37, 55, 59, 77, 78, 89, 96, 150, 161, 166, 167], "routin": [4, 5, 6, 16, 18, 19, 22, 27, 29, 32, 34, 38, 39, 47, 48, 49, 50, 55, 56, 66, 71, 72, 76, 77, 78, 81, 84, 86, 89, 91, 94, 97, 100, 101, 104, 106, 107, 115, 118, 119, 122, 124, 126, 127, 129, 139, 143, 147, 149, 151, 157, 163, 164, 166, 167, 169], "special": [4, 7, 16, 48, 50, 55, 65, 78, 86, 115, 134, 141, 163], "depth": [4, 5, 16, 17, 18, 19, 24, 32, 34, 35, 37, 42, 47, 48, 49, 52, 68, 72, 75, 81, 83, 140, 142, 143, 150, 161], "averag": [4, 6, 15, 17, 18, 19, 34, 42, 48, 49, 52, 53, 57, 71, 72, 102, 106, 119, 131, 139, 143, 144, 161, 163, 166], "geophys": [4, 16, 17, 25, 48, 52, 78, 147], "flow": [4, 16, 17, 25, 34, 35, 48, 50, 52, 78, 96, 113, 129, 134, 139, 147, 150, 161, 166], "geoclaw": [4, 7, 12, 17, 18, 19, 25, 26, 30, 31, 32, 34, 35, 36, 37, 39, 41, 44, 46, 47, 56, 57, 59, 60, 61, 62, 63, 64, 68, 70, 72, 75, 77, 78, 81, 85, 96, 105, 111, 113, 114, 116, 138, 139, 140, 142, 143, 145, 147, 148, 153, 157, 158, 159, 160, 161, 162, 163, 164, 165, 166], "parallel": [4, 24, 25, 47, 76, 87, 93, 95, 96, 98, 101, 103, 105, 109, 115, 116, 124, 148], "ten": [4, 78], "thousand": [4, 78], "core": [4, 12, 78, 116, 126, 136], "wish": [4, 13, 14, 15, 24, 31, 38, 39, 52, 55, 62, 71, 80, 81, 96, 101, 104, 105, 107, 111, 113, 115, 124, 144, 152, 155, 156, 164], "discrib": 4, "book": [4, 12, 17, 27, 31, 85, 103, 139], "levequ": [4, 16, 17, 26, 32, 56, 78, 92, 94, 96, 104, 110, 139, 147, 166, 169], "fvmhp": [4, 12, 16, 17, 27, 78, 139, 147, 166, 169], "virtual": [4, 13, 27, 29, 106], "were": [4, 6, 14, 19, 22, 34, 47, 58, 64, 67, 71, 72, 89, 115, 118, 124, 127, 131, 134, 135, 136, 141, 143, 153, 161], "4": [4, 7, 8, 9, 13, 16, 17, 20, 25, 27, 30, 32, 34, 35, 36, 39, 41, 42, 44, 45, 47, 48, 52, 55, 57, 58, 59, 66, 67, 68, 70, 71, 72, 76, 77, 81, 82, 84, 95, 96, 97, 98, 99, 101, 102, 104, 105, 109, 111, 115, 116, 118, 123, 126, 131, 132, 134, 136, 138, 141, 147, 148, 149, 150, 151, 159, 160, 161, 163, 168], "3": [4, 6, 7, 15, 16, 19, 22, 24, 26, 27, 32, 34, 35, 36, 39, 41, 45, 47, 48, 55, 57, 59, 62, 63, 68, 71, 72, 75, 77, 82, 84, 85, 88, 91, 92, 94, 97, 98, 99, 102, 103, 104, 106, 110, 111, 115, 124, 126, 129, 135, 137, 139, 141, 144, 147, 148, 149, 150, 151, 159, 160, 161, 163, 166, 169], "pointer": [4, 16, 18, 19, 58, 75, 81, 84, 104, 109, 122], "code": [4, 5, 6, 7, 8, 12, 14, 16, 21, 22, 23, 24, 25, 26, 29, 31, 34, 35, 36, 37, 38, 39, 41, 43, 44, 45, 47, 48, 49, 52, 54, 56, 57, 58, 60, 65, 66, 67, 68, 74, 75, 76, 77, 78, 80, 82, 84, 85, 86, 88, 89, 94, 96, 97, 98, 99, 101, 104, 105, 108, 110, 111, 114, 117, 118, 119, 122, 123, 124, 125, 126, 127, 128, 129, 131, 136, 138, 139, 140, 141, 145, 147, 148, 149, 150, 151, 152, 157, 159, 160, 161], "bibliographi": [4, 27], "paper": [4, 5, 6, 16, 32, 48, 58, 92, 96], "distribut": [4, 12, 13, 31, 32, 58, 65, 75, 78, 86, 104, 110, 129], "under": [4, 7, 24, 34, 36, 40, 55, 56, 58, 61, 65, 67, 81, 86, 94, 96, 116, 124, 126, 137], "term": [4, 18, 19, 27, 48, 49, 52, 65, 75, 89, 94, 95, 104, 115, 125, 126, 135, 136, 140, 147, 149, 150, 151, 155, 156], "berkelei": [4, 65, 86], "bsd": [4, 65, 86, 126], "contribut": [4, 26, 27, 61, 86, 89, 96, 101, 104, 113, 116], "its": [4, 6, 13, 18, 19, 24, 31, 42, 52, 55, 65, 67, 70, 75, 77, 86, 91, 92, 93, 94, 96, 101, 103, 104, 106, 109, 115, 149, 163, 169], "incept": 4, "1994": [4, 65], "major": [4, 24, 59, 86, 89, 117, 118, 119, 120, 125, 127, 132, 135, 136], "design": [4, 29, 30, 55, 86, 88, 108, 141, 165], "made": [4, 19, 20, 24, 30, 32, 37, 62, 103, 106, 118, 119, 124, 126, 129, 131, 134, 135, 136, 141, 143, 150, 158, 161, 163, 166], "individu": [4, 24, 25, 55, 63, 66, 67, 71, 94, 115, 116, 157], "randal": [4, 17, 96], "univers": [4, 17, 26, 58, 65, 86, 103], "washington": [4, 17, 26, 58, 65, 128, 141, 153, 163], "rjlevequ": [4, 30, 31], "marsha": [4, 6, 17], "berger": [4, 6, 17], "courant": [4, 6, 49, 115, 125, 147, 148, 149, 151], "institut": 4, "nyu": 4, "mjberger": 4, "jan": [4, 59], "olav": 4, "langseth": [4, 17], "norwegian": 4, "defenc": 4, "research": [4, 17, 48, 52, 86, 104, 114], "establish": 4, "david": [4, 17, 86, 96, 104], "georg": [4, 17, 32], "usg": [4, 32, 165], "cascad": 4, "volcano": 4, "observatori": 4, "dlgeorg": 4, "ketcheson": [4, 17, 79, 86, 96, 104], "kaust": [4, 26], "ketch": 4, "kyle": [4, 17, 86, 92, 96, 97, 102], "mandli": [4, 17, 86, 92, 96, 97, 102], "ut": 4, "austin": 4, "contributor": [4, 26, 65, 96], "aron": [4, 17, 86, 96], "ahmadia": [4, 17, 86, 96], "amal": [4, 17, 86, 96], "alghamdi": [4, 17, 86, 96], "ghamdi": 4, "ian": 4, "bollig": 4, "bolliger32": 4, "peter": 4, "blossei": 4, "donna": [4, 17], "calhoun": [4, 17, 55], "donnabois": 4, "ond\u0159ej": 4, "\u010dert\u00edk": 4, "certik": [4, 86], "brisa": 4, "davi": [4, 17], "brisadavi": [4, 127], "gradi": [4, 17, 86], "lemoin": [4, 17, 86], "gradylemoin": 4, "sorin": 4, "mitran": [4, 17], "matteo": [4, 17, 86, 96], "parsani": [4, 17, 86, 96], "mparsani": 4, "xinsheng": [4, 56], "qin": [4, 56], "xinshengqin": [4, 56], "avi": 4, "schwarzschild": 4, "aks2203": 4, "andi": 4, "terrel": 4, "aterrel": 4, "chri": 4, "vogl": 4, "cjvogl": 4, "numer": [4, 17, 55, 110, 127], "student": 4, "toward": [4, 32], "bug": [4, 8, 12, 24, 26, 44, 55, 68, 76, 82, 86, 121, 122, 123, 124, 126, 131, 132, 133, 136], "suggest": [4, 18, 19, 26, 31, 51, 57, 58, 60, 62, 84, 85, 110, 137, 139, 150, 168], "improv": [4, 13, 24, 26, 34, 36, 55, 58, 97, 110, 118, 119, 121, 122, 123, 124, 125, 127, 128, 129, 130, 131, 132, 147], "explor": [4, 36, 63, 82, 84], "thank": [4, 96], "pleas": [4, 26, 30, 58, 60, 61, 62, 86, 88, 91, 93, 96, 97, 99, 101, 103, 104, 105, 107, 113, 126, 131, 137, 139, 157], "itself": [4, 75, 81, 110, 129, 139, 150, 163], "well": [4, 6, 19, 30, 35, 48, 49, 55, 56, 58, 62, 63, 70, 75, 76, 77, 78, 81, 84, 85, 103, 104, 113, 125, 126, 129, 134, 140, 143, 147, 148, 155, 156, 157, 166, 169], "citat": [4, 19, 59], "similar": [4, 13, 16, 30, 34, 36, 39, 47, 49, 55, 64, 88, 89, 97, 101, 104, 108, 126, 131, 150, 157, 158, 159, 161], "team": [4, 26, 65], "2020": [4, 26, 27, 58, 65, 110, 113, 129, 130, 131, 137, 139], "7": [4, 6, 14, 31, 34, 36, 41, 42, 47, 51, 58, 64, 68, 70, 77, 82, 85, 94, 105, 111, 115, 131, 137, 141, 142, 143, 148, 149], "http": [4, 12, 13, 17, 19, 26, 28, 30, 31, 32, 42, 51, 55, 56, 58, 59, 61, 62, 65, 70, 75, 85, 86, 89, 90, 97, 99, 101, 110, 111, 121, 123, 124, 125, 127, 128, 131, 132, 133, 134, 135, 136, 137, 140, 153, 157, 163], "www": [4, 13, 17, 32, 42, 48, 58, 65, 70, 86, 89, 94, 97, 99, 125, 127, 134, 135, 157, 163], "org": [4, 17, 19, 48, 56, 58, 59, 65, 86, 89, 90, 94, 97, 99, 110, 111, 123, 125, 127, 131, 132, 133, 134, 135, 136, 163], "doi": [4, 17, 56, 59, 61, 129, 130, 131, 132, 133, 134, 135, 136, 137], "10": [4, 17, 18, 19, 32, 34, 36, 42, 49, 55, 56, 57, 59, 82, 88, 91, 94, 115, 123, 124, 126, 129, 130, 131, 132, 133, 134, 135, 136, 137, 141, 147, 148, 149, 151, 153, 161], "5281": [4, 59, 129, 130, 131, 132, 133, 134, 135, 136, 137], "zenodo": [4, 61, 129, 130, 131, 132, 133, 134, 135, 136, 137], "4025432": [4, 130, 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151], "t1": [5, 41, 47, 63, 64, 115, 131, 148, 149, 150], "t0": [5, 18, 19, 77, 138, 147, 149, 150, 151, 161], "t2": [5, 41, 47, 63, 64, 115, 131, 148, 149, 150], "addit": [5, 7, 13, 16, 19, 25, 26, 30, 31, 34, 36, 39, 40, 41, 48, 49, 50, 63, 70, 75, 77, 78, 82, 83, 89, 92, 94, 96, 98, 104, 105, 106, 113, 115, 122, 124, 125, 126, 127, 130, 131, 133, 134, 135, 139, 141, 147, 151, 157, 160, 161, 166, 167], "aux": [5, 6, 15, 22, 24, 29, 47, 57, 89, 96, 97, 98, 101, 103, 104, 106, 107, 118, 119, 124, 126, 139, 140, 144, 147, 148, 149, 150, 151, 166], "inner": [5, 115, 127], "product": [5, 32, 65, 86, 109, 115, 127], "amrdata": [5, 24, 34, 115, 129, 131, 148, 149, 150], "aux_typ": [5, 148, 149], "append": [5, 22, 34, 36, 41, 42, 47, 55, 64, 82, 91, 103, 115, 123, 124, 136, 138, 139, 149, 150], "num_aux": [5, 89, 97, 99, 101, 102, 106, 139, 147, 148, 149, 151, 166], "len": [5, 32, 37, 94, 149, 151, 163], "innerprod_index": 5, "base": [5, 6, 13, 22, 23, 24, 30, 31, 32, 34, 35, 36, 48, 49, 51, 55, 56, 57, 58, 63, 64, 67, 68, 70, 71, 75, 78, 89, 91, 92, 94, 96, 97, 102, 103, 104, 106, 108, 109, 115, 117, 122, 125, 127, 131, 134, 135, 142, 147, 148, 149, 150, 151, 157, 163, 166, 169], "richardson": [5, 7, 24, 148, 149], "error": [5, 16, 22, 38, 39, 43, 55, 62, 71, 76, 82, 91, 96, 97, 98, 109, 115, 116, 127, 131, 136, 148, 149, 157, 164], "estimat": [5, 149], "flag_richardson": [5, 115, 123, 148, 149], "flag_richardson_tol": [5, 115, 148, 149], "1e": [5, 70, 151], "flag2refin": [5, 7, 24, 148, 149], "flag2refine_tol": [5, 115, 148, 149], "01": [5, 42, 77, 94, 163], "we": [5, 6, 18, 19, 24, 26, 28, 34, 38, 39, 41, 42, 47, 52, 55, 57, 58, 59, 60, 62, 67, 70, 72, 75, 81, 84, 88, 89, 90, 91, 93, 94, 97, 98, 99, 100, 101, 104, 105, 106, 107, 108, 109, 110, 113, 116, 126, 129, 134, 136, 139, 140, 141, 163], "attempt": [5, 8, 11, 22, 35, 38, 39, 66, 97, 103, 109, 116, 118, 132, 157, 163, 164], "estim": [5, 68, 115, 148, 150], "step": [5, 6, 10, 16, 18, 19, 21, 30, 34, 36, 38, 39, 40, 47, 55, 58, 59, 64, 71, 77, 78, 81, 84, 86, 87, 88, 89, 91, 98, 101, 104, 106, 108, 113, 115, 118, 123, 124, 134, 138, 139, 145, 147, 148, 149, 150, 151, 161, 169], "extrapol": [5, 7, 16, 24, 72, 101, 108, 126, 147, 148, 149, 151], "togeth": [5, 16, 30, 31, 32, 58, 60, 75, 115, 134], "experiment": [5, 86], "simpli": [5, 13, 19, 36, 38, 39, 40, 42, 47, 49, 55, 57, 66, 67, 70, 72, 88, 90, 91, 93, 98, 99, 105, 116, 139, 141, 152, 157, 163, 166, 167], "magnitud": [5, 32, 115, 126, 150], "greater": [5, 34, 63, 68, 70, 105, 115, 138, 147, 148, 150], "model": [5, 12, 16, 17, 18, 19, 26, 27, 32, 34, 44, 48, 49, 50, 56, 57, 68, 98, 115, 123, 128, 129, 130, 141, 142, 143, 150, 153, 157, 158, 161], "davisleveque2016": [5, 17], "chile2010_adjoint": 5, "shallow": [5, 15, 16, 17, 18, 19, 27, 34, 36, 42, 48, 49, 52, 56, 70, 78, 89, 96, 112, 119, 120, 122, 124, 126, 127, 135, 136, 139, 143, 144, 150, 155, 156, 161, 166], "water": [5, 16, 17, 18, 19, 27, 36, 42, 47, 48, 49, 50, 51, 52, 63, 70, 78, 81, 89, 96, 119, 120, 124, 126, 127, 136, 139, 141, 142, 143, 150, 161, 163, 165, 166], "while": [5, 13, 16, 19, 32, 42, 55, 71, 75, 82, 84, 89, 94, 98, 99, 104, 109, 126, 139, 143, 150, 165], "suitabl": [5, 8, 16, 18, 19, 22, 48, 52, 55, 73, 77, 103, 114, 139, 142, 157, 163], "To": [5, 6, 13, 14, 18, 19, 20, 24, 27, 30, 31, 38, 39, 40, 41, 42, 43, 47, 50, 53, 55, 56, 59, 66, 69, 70, 71, 75, 76, 77, 82, 84, 85, 88, 90, 92, 93, 96, 97, 98, 99, 100, 101, 104, 105, 108, 111, 113, 114, 115, 116, 122, 124, 127, 128, 129, 130, 131, 132, 133, 134, 135, 136, 138, 142, 145, 147, 148, 152, 161, 167], "date": [5, 30, 43, 51, 55, 58, 59, 66, 82, 157, 164], "across": [5, 115, 124, 161, 163], "ocean": [5, 16, 17, 19, 34, 49, 52, 55, 113, 115, 141, 150, 155, 156, 161], "wai": [5, 6, 13, 16, 19, 28, 30, 36, 38, 39, 41, 42, 47, 49, 55, 57, 58, 61, 62, 63, 65, 66, 82, 84, 85, 86, 88, 91, 93, 94, 99, 101, 103, 105, 108, 110, 111, 113, 114, 118, 124, 125, 126, 129, 136, 137, 139, 141, 146, 147, 154, 158, 161, 166, 168, 169], "target": [5, 62, 82, 89, 101, 129], "possibli": [5, 32, 36, 70, 88, 94, 111, 123, 143], "deep": [5, 49, 70], "amplitud": [5, 124], "compar": [5, 18, 19, 24, 39, 47, 49, 52, 55, 59, 82, 98, 115, 116, 142, 148, 159, 165, 169], "essenti": [5, 57, 71, 104, 150, 161], "rest": [5, 24, 84, 113, 126, 142, 155, 156, 161, 163], "henc": [5, 36, 57, 58, 67, 72, 104, 110, 111, 115, 143], "take": [5, 6, 24, 29, 30, 32, 34, 37, 51, 58, 68, 70, 71, 75, 82, 88, 94, 101, 104, 108, 109, 110, 115, 116, 121, 127, 135, 143, 147, 148, 149, 150, 163, 166, 169], "rpn2_geoclaw_adjoint_qwav": 5, "rpt2_geoclaw_adjoint_qwav": 5, "non": [5, 16, 59, 70, 78, 89, 101, 108, 127, 129, 147, 149, 151, 157, 169], "vector": [5, 24, 88, 92, 98, 106, 126, 134, 139, 140], "split": [5, 6, 76, 94, 97, 104, 122, 123, 131, 147, 148, 149, 151, 160, 166, 169], "flux": [5, 17, 34, 36, 37, 94, 102, 104, 139, 147, 169], "comment": [5, 11, 26, 53, 59, 125, 134, 138], "rpn2": [5, 139], "basic": [6, 10, 12, 27, 32, 38, 40, 48, 61, 70, 71, 88, 94, 96, 97, 98, 102, 104, 116, 139, 140, 157, 169], "strategi": [6, 19], "logic": [6, 16, 17, 34, 131, 150], "rectangular": [6, 7, 16, 17, 32, 34, 37, 41, 42, 48, 50, 63, 70, 94, 115, 126, 129, 134, 148, 150, 161], "too": [6, 19, 51, 55, 58, 59, 123, 141, 149, 151, 153], "portion": [6, 36, 42, 55, 70, 89, 134, 160], "factor": [6, 55, 148, 150, 160, 163], "direct": [6, 8, 16, 24, 32, 34, 36, 38, 39, 47, 49, 51, 55, 59, 63, 65, 66, 71, 75, 76, 82, 86, 91, 101, 108, 115, 125, 139, 147, 148, 150, 163], "anisotrop": [6, 24], "perhap": [6, 12, 19, 34, 42, 47, 58, 82, 106, 109, 115, 141], "section": [6, 13, 16, 36, 38, 39, 42, 44, 49, 50, 52, 58, 59, 67, 71, 81, 84, 96, 116, 131, 138, 147, 150, 163], "cfl": [6, 94, 98, 104, 108, 118, 123, 147, 149, 150, 151], "spatial": [6, 17, 27, 32, 36, 37, 41, 42, 47, 48, 49, 64, 68, 72, 101, 115, 118, 122, 129, 131, 139, 142, 148, 149, 150, 151, 169], "reduc": [6, 16, 36, 42, 49, 55, 123, 125, 134, 169], "thu": [6, 51, 98, 101, 126, 157], "proce": [6, 18, 19, 30, 150], "advanc": [6, 17, 36, 56, 70, 76, 108, 123, 135, 147, 148, 166], "taken": [6, 34, 70, 75, 98, 104, 115, 147, 166], "around": [6, 32, 34, 42, 63, 97, 113, 116, 129, 148, 149, 157, 163, 166], "librari": [6, 13, 15, 16, 18, 19, 22, 24, 27, 29, 30, 34, 36, 38, 39, 44, 47, 49, 56, 63, 66, 76, 77, 78, 86, 92, 97, 99, 104, 109, 111, 112, 115, 124, 129, 143, 144, 148, 155, 156, 164, 166], "bcnamr": [6, 16, 126, 147, 149, 166], "check": [6, 14, 15, 16, 22, 34, 38, 39, 43, 44, 54, 55, 56, 58, 59, 60, 62, 66, 71, 82, 85, 88, 89, 91, 96, 99, 103, 104, 106, 108, 109, 111, 112, 115, 119, 128, 141, 143, 144, 148, 149, 155, 156, 157, 163, 164, 165, 166], "denot": [6, 19, 24, 37, 47, 57, 139, 163], "procedur": [6, 16, 42, 48, 49, 59, 166], "updat": [6, 12, 13, 24, 25, 27, 34, 53, 56, 61, 62, 64, 84, 96, 104, 106, 107, 110, 113, 118, 122, 124, 125, 126, 127, 128, 129, 139, 148, 149, 151, 154, 157, 160, 166], "consist": [6, 27, 34, 36, 51, 55, 59, 63, 99, 110, 124, 134, 135, 139, 141, 150, 161, 166], "replac": [6, 13, 31, 36, 41, 47, 52, 56, 58, 59, 61, 64, 66, 81, 89, 93, 97, 99, 100, 101, 102, 106, 109, 116, 118, 124, 126, 128, 129, 134, 138, 139, 143, 163, 164], "ly": [6, 70], "within": [6, 16, 30, 36, 37, 58, 62, 70, 72, 78, 82, 100, 109, 111, 115, 139, 141, 146, 152, 163], "approxim": [6, 16, 18, 19, 27, 35, 52, 55, 72, 75, 139], "lead": [6, 13, 24, 34, 36, 52, 55, 68, 71, 75, 111, 114, 131, 143, 148], "total": [6, 32, 36, 55, 75, 77, 98, 104, 147, 148, 149, 151, 160], "mass": [6, 98, 153], "restor": 6, "global": [6, 14, 94, 106, 109, 142, 161, 165, 166], "fix": [6, 21, 22, 24, 27, 35, 37, 41, 47, 48, 49, 58, 59, 63, 64, 66, 70, 72, 86, 97, 102, 118, 119, 120, 121, 122, 123, 124, 125, 127, 128, 129, 130, 131, 132, 133, 134, 135, 136, 140, 147, 149, 151, 163], "up": [6, 13, 18, 24, 30, 31, 32, 34, 36, 38, 39, 42, 43, 47, 48, 55, 58, 59, 63, 66, 70, 71, 75, 77, 82, 88, 89, 91, 93, 95, 96, 97, 99, 104, 105, 108, 111, 113, 115, 116, 122, 123, 126, 129, 131, 136, 141, 143, 146, 149, 151, 160, 161, 164, 165], "style": [6, 24, 30, 32, 36, 41, 53, 55, 70, 73, 82, 86, 91, 126, 150], "olig": [6, 17], "colella": [6, 17], "bergeroliger84": [6, 17], "bergercolella89": [6, 17], "fortran": [6, 9, 11, 13, 14, 19, 22, 25, 29, 30, 32, 34, 35, 36, 37, 38, 47, 48, 50, 57, 60, 62, 66, 67, 68, 72, 76, 77, 78, 81, 84, 86, 88, 89, 91, 94, 96, 97, 99, 101, 102, 104, 105, 106, 109, 111, 122, 123, 124, 126, 127, 128, 134, 135, 139, 140, 145, 148, 149, 150, 151, 157, 159, 160, 161], "written": [6, 11, 27, 32, 34, 36, 37, 43, 47, 62, 63, 64, 65, 75, 77, 78, 82, 86, 95, 96, 97, 101, 124, 139, 147, 148, 149, 150, 151, 157, 163, 166], "ga": [6, 102], "dynam": [6, 22, 32, 36, 52, 75, 78, 148], "merg": [6, 13, 27, 30, 56, 58, 59, 62, 122], "earli": [6, 22, 143], "mjb": [6, 17], "rjl": [6, 17, 111, 128, 153], "fulli": [6, 52, 55, 56, 125, 129, 139, 150, 157, 158], "consid": [6, 42, 52, 62, 70, 89, 111, 145, 152, 163], "adjac": [6, 16, 34, 48, 115, 143, 147], "equival": [6, 47, 56, 57, 63, 64, 77, 128, 134, 161], "copi": [6, 14, 15, 16, 19, 38, 39, 47, 55, 58, 59, 62, 71, 88, 91, 101, 106, 112, 113, 114, 115, 119, 123, 126, 130, 143, 144, 148, 152, 155, 156, 161, 166], "interior": [6, 16, 42, 77, 106], "howev": [6, 13, 16, 18, 19, 24, 34, 38, 39, 42, 44, 49, 50, 52, 55, 62, 65, 67, 70, 72, 75, 76, 77, 86, 89, 96, 115, 116, 124, 126, 128, 142, 143, 146, 150, 160], "lie": [6, 34, 35, 37, 70, 72, 115, 129, 141], "outsid": [6, 16, 41, 63, 70, 129, 141, 143, 161, 163], "li": [6, 16, 34, 37, 72, 115, 141], "along": [6, 14, 16, 19, 26, 29, 32, 34, 42, 47, 55, 58, 61, 75, 77, 111, 115, 122, 137, 138, 141, 143, 150, 165], "unless": [6, 34, 43, 44, 63, 102, 110, 142, 147, 148, 163], "standard": [6, 16, 19, 32, 34, 36, 49, 55, 57, 71, 77, 89, 92, 104, 111, 115, 116, 149, 150, 151, 152, 161, 166, 169], "beyond": [6, 32, 110, 126], "modifi": [6, 9, 14, 15, 16, 18, 19, 22, 24, 29, 34, 38, 39, 42, 47, 48, 58, 59, 62, 64, 66, 71, 74, 82, 89, 92, 94, 96, 101, 111, 112, 113, 114, 115, 121, 123, 124, 125, 126, 131, 141, 143, 144, 147, 149, 150, 151, 155, 156, 161, 163, 166], "damag": [6, 65, 86], "bcn": [6, 16, 151, 166], "nd": [6, 16, 115, 126, 129, 166], "actual": [6, 29, 32, 36, 57, 62, 63, 71, 75, 82, 92, 97, 109, 113, 142, 150], "softwar": [6, 13, 26, 27, 31, 48, 52, 65, 86, 96, 97, 98, 152, 161], "With": [6, 24, 30, 47, 53, 55, 62, 70, 78, 115, 123, 139, 141, 147], "opposit": [6, 16, 97], "side": [6, 16, 20, 34, 55, 58, 68, 75, 97, 116, 134, 135, 136, 139, 169], "everi": [6, 12, 30, 34, 36, 47, 64, 66, 67, 77, 88, 91, 93, 97, 98, 106, 115, 116, 124, 125, 139, 143, 145, 147, 149, 151, 157, 161, 163, 166], "few": [6, 12, 13, 19, 24, 28, 31, 39, 49, 52, 58, 70, 71, 89, 104, 108, 110, 115, 116, 129, 142, 159, 161, 166], "coarsest": [6, 19, 36, 55, 77, 118, 138, 147], "revis": [6, 124], "shock": [6, 17, 52, 104, 115], "accord": [6, 57], "criteria": [6, 7, 24, 27, 34, 70, 106], "cluster": [6, 17, 115, 148, 149], "rigoutsi": 6, "bergerrigoutsis91": [6, 17], "nonoverlap": 6, "rectangl": [6, 7, 27, 32, 36, 70, 75, 115, 129, 163], "balanc": [6, 17, 78, 125, 140, 155, 156], "conflict": [6, 30, 62, 66, 71, 107, 111], "goal": 6, "possibl": [6, 13, 24, 28, 30, 32, 34, 36, 37, 47, 49, 51, 52, 55, 64, 65, 66, 75, 82, 86, 94, 97, 99, 100, 104, 109, 111, 115, 139, 141, 142, 147, 148, 161, 165, 166], "minim": [6, 62, 70, 97, 141, 148, 163], "overhead": [6, 76, 115, 160], "cutoff": [6, 149], "control": [6, 7, 19, 25, 27, 34, 36, 44, 47, 58, 62, 64, 71, 77, 84, 87, 92, 94, 96, 97, 98, 99, 101, 115, 124, 129, 140, 150], "fraction": [6, 13, 32, 115, 147, 166, 169], "70": [6, 36, 55], "realli": [6, 72, 116, 166], "At": [6, 13, 29, 30, 36, 38, 39, 42, 70, 99, 104, 108, 110, 115, 129, 147], "present": [6, 26, 63, 72, 94, 102, 103, 104, 109, 152, 166, 169], "previous": [6, 24, 34, 70, 77, 84, 122, 129, 143], "bilinear": [6, 34, 42, 47, 57, 72, 118, 119, 161], "doxygen": [6, 7, 27, 125], "flowchart": [6, 7, 27], "capabl": [7, 12, 19, 24, 34, 36, 47, 52, 56, 64, 70, 78, 89, 96, 118, 123, 124, 126, 127, 128, 129, 130, 134, 135, 163, 165], "block": [7, 32, 35, 42, 63, 75, 77, 78, 88, 97, 106, 109, 116, 166], "structur": [7, 10, 19, 24, 34, 36, 37, 41, 59, 62, 66, 78, 103, 104, 124, 141, 146, 163], "input": [7, 14, 16, 22, 25, 27, 29, 32, 35, 37, 43, 48, 55, 63, 67, 70, 71, 77, 88, 91, 92, 94, 96, 102, 103, 104, 109, 113, 123, 126, 127, 128, 139, 149, 150, 151, 157, 158, 161, 163, 166], "indic": [7, 16, 22, 24, 27, 31, 32, 34, 36, 41, 42, 44, 47, 48, 55, 57, 59, 62, 67, 71, 72, 80, 84, 94, 98, 99, 102, 104, 108, 111, 115, 116, 124, 129, 131, 139, 140, 147, 148, 149, 150, 151, 153, 161, 163, 166], "tool": [7, 8, 17, 24, 25, 30, 32, 34, 35, 36, 37, 38, 39, 42, 48, 49, 50, 51, 52, 55, 57, 60, 61, 62, 63, 71, 75, 80, 81, 82, 83, 85, 96, 111, 114, 119, 120, 124, 125, 129, 130, 150, 152, 161, 163, 165, 167], "matlab": [7, 24, 27, 38, 39, 80, 81, 82, 100, 110, 126, 129, 130], "deprec": [7, 32, 48, 58, 62, 122, 126, 134, 136, 161, 163], "debug": [7, 18, 44, 66, 77, 81, 98, 106, 111, 116, 134, 147, 149], "flag": [7, 12, 13, 18, 24, 27, 30, 31, 41, 43, 44, 48, 56, 62, 76, 89, 107, 109, 111, 122, 127, 131, 149, 150], "sampl": [7, 8, 14, 17, 18, 27, 31, 34, 44, 47, 48, 55, 64, 75, 111, 116, 134, 138, 141, 147, 148, 161, 163, 166], "ghost": [7, 16, 19, 76, 77, 94, 97, 104, 106, 124, 131, 135, 147, 149, 151, 160, 166, 169], "flagregion": [7, 27, 70, 115, 129, 131, 141, 148, 150], "rule": [7, 13, 27, 63, 70, 89], "convex": [7, 34], "slu": 7, "bounding_box": [7, 35], "mask_outsid": [7, 70], "write": [7, 30, 32, 35, 36, 37, 41, 42, 47, 48, 54, 57, 58, 68, 75, 77, 78, 81, 88, 91, 94, 95, 97, 98, 99, 103, 124, 126, 149, 151, 157, 161, 163], "instanti": [7, 91, 99, 101, 104, 106, 135, 149, 151], "make_kml": 7, "simpl": [7, 31, 38, 39, 41, 48, 59, 72, 75, 89, 96, 101, 102, 104, 109, 114, 116, 163], "select": [7, 12, 13, 15, 16, 30, 34, 42, 70, 98, 104, 112, 115, 118, 125, 129, 137, 144, 147, 150, 155, 156, 165], "continent": [7, 70], "shelf": [7, 70], "guid": [7, 13, 17, 20, 25, 26, 27, 48, 50, 56, 61, 96, 110, 115, 125, 129, 134, 135, 136, 154], "adjoint": [7, 17, 27, 56, 115, 126, 127], "gaug": [7, 27, 34, 36, 48, 63, 72, 94, 95, 106, 113, 118, 122, 123, 124, 125, 126, 129, 134, 138, 142, 146, 149], "extend": [8, 16, 24, 42, 63, 70, 71, 94, 126, 141, 143, 150, 161, 163, 169], "directli": [8, 18, 19, 21, 25, 34, 48, 52, 61, 71, 75, 82, 84, 88, 89, 92, 96, 106, 109, 111, 126, 134, 163, 167], "obviou": [8, 55], "elimin": [8, 24, 70, 89, 111, 126, 150], "gallery_classic_amrclaw": [8, 38], "num_cel": [8, 24, 49, 94, 139, 147, 148, 149, 151], "refinement_ratios_i": [8, 148, 149], "sweep": [8, 139], "transvers": [8, 94, 124, 131, 139, 140, 147, 166, 169], "graph": 9, "understand": [9, 27, 38, 39, 52, 81, 96, 108, 115, 139], "filpatch": [9, 42, 124, 128, 131], "idea": [10, 26, 32, 70, 71, 78, 88, 108, 119, 163, 169], "overal": [10, 88], "who": [10, 12, 21, 24, 26, 34, 44, 52, 60], "gori": 10, "monster": 10, "column": [10, 32, 34, 47, 49, 52, 64, 98, 102, 122, 141, 163], "markup": 11, "languag": [11, 81, 109], "restructur": [11, 58], "text": [11, 58, 59, 63, 77, 91, 97, 104, 122], "sphinx": [11, 25, 27, 59, 125], "covert": 11, "convert_readm": 11, "brows": [11, 26, 45, 55, 71, 152, 166], "insert": [11, 16, 75, 97, 145], "script": [11, 21, 22, 30, 32, 34, 43, 47, 55, 58, 66, 71, 78, 81, 86, 89, 93, 95, 96, 98, 99, 104, 109, 111, 116, 126, 130, 139, 146, 150, 151, 163], "invok": [11, 14, 19, 76, 143, 164], "minor": [11, 19, 55, 58, 98, 118, 119, 120, 121, 122, 123, 124, 125, 126, 127, 129, 131, 133, 135, 136], "syntax": [11, 61, 145], "highlight": [11, 13], "header": [11, 32, 34, 36, 42, 47, 57, 70, 75, 77, 97, 103, 122, 124, 126, 157, 161, 163], "complex": [12, 19, 36, 41, 94], "archiv": [12, 23, 39, 55, 59, 116, 152, 159, 163, 165], "github": [12, 15, 24, 25, 26, 27, 28, 31, 56, 58, 61, 62, 93, 101, 105, 112, 116, 121, 123, 124, 125, 134, 137, 139, 140, 144, 155, 156, 164], "app": [12, 13, 20, 25, 28, 30, 31, 34, 40, 45, 46, 75, 113, 114, 121, 125, 126, 127, 128, 129, 130, 131, 132, 133, 134, 135, 136, 140], "com": [12, 13, 25, 26, 28, 30, 31, 56, 58, 59, 61, 62, 97, 99, 101, 105, 121, 123, 124, 125, 134, 137, 140], "fvmbook": [12, 45], "galleri": [12, 27, 38, 39, 40, 45, 59, 80, 81, 93, 96, 110, 116, 121, 125, 152, 159, 166], "anim": [12, 16, 36, 45, 49, 55, 122, 129, 130, 134, 152], "instal": [12, 13, 19, 20, 25, 27, 31, 38, 46, 55, 58, 59, 84, 86, 87, 90, 95, 97, 108, 110, 116, 117, 118, 119, 120, 121, 122, 123, 124, 125, 126, 127, 128, 129, 130, 131, 132, 133, 134, 135, 136, 137, 145, 168], "collect": [12, 27, 28, 30, 32, 34, 75, 81, 88, 104, 152], "either": [12, 16, 22, 32, 34, 36, 42, 48, 50, 55, 64, 66, 70, 71, 75, 77, 82, 84, 88, 94, 96, 97, 98, 104, 109, 111, 115, 116, 122, 123, 124, 126, 134, 139, 141, 143, 148, 150, 157, 161, 163, 166, 169], "clone": [12, 20, 25, 26, 45, 56, 58, 59, 62, 85, 99, 105, 114, 134, 135, 136, 164], "git": [12, 13, 25, 26, 27, 28, 56, 59, 62, 96, 105, 116, 128], "navig": [12, 31, 58, 152], "green": [12, 19, 63, 70, 75, 82, 116, 163], "button": [12, 13, 30, 55, 63, 125], "download": [12, 13, 30, 31, 32, 39, 40, 42, 48, 55, 59, 61, 62, 93, 99, 105, 126, 127, 137, 159, 163, 164, 165], "zip": [12, 55, 59], "illustr": [12, 27, 32, 34, 38, 46, 49, 55, 70, 71, 75, 77, 114, 121, 122, 126, 128, 139, 141, 152, 163], "variou": [12, 19, 22, 24, 32, 36, 41, 46, 52, 58, 71, 72, 75, 82, 84, 94, 108, 110, 111, 115, 124, 139, 146, 150, 157], "visibl": [12, 13, 46, 55, 114, 152], "render": [12, 24, 46, 55, 63, 167], "advantag": [12, 19, 36, 47, 64, 81, 97, 110, 116, 141], "independ": [12, 25, 32, 36, 37], "contact": [12, 93, 96, 105], "u": [12, 13, 16, 26, 31, 34, 36, 37, 51, 52, 59, 60, 62, 64, 86, 93, 96, 102, 105, 106, 107, 108, 113, 125, 139, 148, 151, 157, 165], "storm": [12, 17, 26, 27, 48, 122, 125, 126, 127, 128, 130, 131, 132], "surg": [12, 17, 26, 27, 48, 122, 125, 126, 127, 128, 131, 157], "empti": [12, 36, 47, 103, 106, 109, 111, 147, 150, 157, 163], "gitmodul": 12, "pull": [12, 26, 28, 31, 58, 59, 61, 93, 101, 116, 121, 124, 125, 131, 134, 139], "request": [12, 26, 28, 32, 36, 37, 47, 58, 61, 77, 88, 93, 94, 98, 101, 103, 116, 124, 126, 131, 139, 150, 157, 163], "init": [12, 27, 30, 42, 48, 56, 59, 61, 142, 150], "leav": [12, 13, 16, 47, 62, 148, 163], "off": [12, 13, 47, 52, 55, 63, 71, 84, 91, 98, 115, 134, 148, 153, 163], "won": [12, 13, 70, 89, 163], "hurt": [12, 67], "maintain": [12, 30, 110, 126, 148, 161, 166], "flavor": [12, 23, 97], "demonstr": [12, 27, 93, 99], "agre": [12, 30, 42, 57, 139, 160, 163, 166], "seen": [12, 24, 34, 38, 39, 40, 52, 76, 101, 147, 152], "cloud": 13, "elast": [13, 75], "sign": [13, 26, 82, 131, 157], "account": [13, 26, 30, 59, 90, 99, 138], "750": 13, "free": [13, 55, 66, 75, 86, 90, 101, 105, 107], "micro": 13, "suffici": [13, 16, 18, 19, 22, 36, 47, 75, 76, 77, 113, 118, 134, 147, 150], "tier": 13, "inform": [13, 14, 24, 27, 34, 35, 37, 38, 39, 49, 50, 51, 52, 53, 54, 62, 67, 77, 82, 83, 84, 88, 89, 94, 96, 98, 99, 100, 102, 103, 109, 111, 123, 126, 127, 129, 135, 137, 138, 139, 142, 145, 147, 148, 150, 157, 160, 161, 164, 165, 166, 167], "uw": [13, 26], "escienc": 13, "aw": 13, "tutori": [13, 31, 59, 84, 87, 91, 96, 105, 111, 114], "gear": 13, "faq": [13, 27, 81], "price": 13, "charg": 13, "per": [13, 32, 37, 47, 49, 55, 63, 71, 76, 97, 148], "thereof": 13, "regardless": [13, 37, 42, 70, 115, 147], "cpu": [13, 56, 123, 126, 128, 160], "consol": [13, 98, 150], "tab": [13, 58, 137], "east": [13, 161], "cheaper": 13, "rate": 13, "menu": [13, 20, 27, 58, 63, 125, 134, 135, 136, 137, 142, 165], "imag": [13, 38, 39, 42, 59, 63, 70, 116, 126, 141], "platform": [13, 55, 91, 99, 110, 116], "finish": [13, 82, 88], "load": [13, 63, 98, 100, 103, 109, 116, 163, 167], "databas": [13, 32, 75, 109, 113, 126, 161], "uwamath": 13, "bar": [13, 58, 157], "screen": [13, 30, 55, 63, 91, 98, 99, 123, 149, 151], "shapshot": 13, "machin": [13, 27, 76, 78, 116, 124, 145], "disk": [13, 47, 88, 97, 98, 116, 124], "ubuntu": 13, "linux": [13, 74, 85, 107, 116, 145], "popup": 13, "look": [13, 14, 24, 27, 30, 32, 42, 55, 58, 59, 63, 71, 82, 84, 89, 94, 99, 103, 104, 108, 109, 111, 116, 119, 126, 135, 141, 147, 148, 150, 160, 163, 164], "sort": [13, 42, 126, 146, 164], "larger": [13, 22, 34, 49, 55, 63, 75, 76, 77, 82, 94, 118, 124, 131, 148, 150, 161], "cost": [13, 104], "continu": [13, 24, 30, 32, 53, 58, 86, 110, 139, 147, 169], "eventu": [13, 48, 129], "don": [13, 29, 30, 58, 59, 82, 98, 99, 105, 116, 149, 164], "pair": [13, 97, 116, 163], "secur": 13, "quick": [13, 27, 39, 48, 50, 60, 85, 116, 159], "close": [13, 42, 55, 58, 63, 70, 71, 97, 115, 129, 148, 157], "back": [13, 29, 31, 58, 59, 125], "statu": [13, 30, 54, 91, 108], "wait": 13, "until": [13, 34, 64, 70, 136, 143], "refresh": [13, 47], "bottom": [13, 15, 19, 32, 38, 39, 48, 52, 68, 70, 75, 88, 101, 102, 124, 125, 144, 155, 156], "scroll": 13, "down": [13, 32, 98, 123, 157, 161, 163], "dn": 13, "screenshot": [13, 55], "rjlkei": 13, "pem": 13, "abl": [13, 58, 111], "ssh": [13, 30], "keypair": 13, "50": [13, 17, 34, 55, 72, 104, 119, 149], "19": [13, 17, 26, 132, 133, 137, 160], "75": [13, 17, 92, 108, 141], "229": 13, "amazonaw": 13, "gfortran": [13, 62, 76, 85, 87, 107, 145, 164], "ipython": [13, 78, 82, 84, 89, 90, 96, 98, 105, 108, 111, 122, 123], "scipi": [13, 37, 89, 110, 136, 157, 163], "netcdf": [13, 37, 44, 48, 123, 126, 128, 130, 157, 163, 165], "apach": 13, "server": [13, 31, 42, 55, 58, 59, 70, 126, 161, 165], "apt": [13, 85], "fetch": [13, 51], "bring": [13, 55, 58, 71, 150], "master": [13, 15, 18, 19, 27, 31, 49, 58, 59, 62, 101, 112, 123, 124, 125, 126, 127, 128, 129, 130, 131, 132, 133, 134, 135, 136, 137, 140, 144, 155, 156], "make_lib": 13, "compil": [13, 18, 27, 38, 39, 43, 50, 62, 67, 76, 78, 84, 85, 89, 96, 97, 101, 105, 109, 118, 139, 140, 145], "bashrc": [13, 44, 107, 145], "Of": [13, 28, 75, 108, 113, 161], "cours": [13, 28, 34, 47, 50, 64, 75, 99, 100, 108, 110, 113, 150, 161], "tar": [13, 63, 128, 137], "instruct": [13, 19, 20, 26, 27, 38, 39, 42, 55, 56, 58, 59, 88, 90, 96, 99, 105, 108, 111, 125, 132, 134, 135, 136, 137, 138, 164], "window": [13, 32, 71, 84, 145], "respons": [13, 52, 88, 103], "pretti": 13, "slow": [13, 55, 98, 107], "_plot": [13, 38, 39, 47, 71, 84, 146, 152], "local": [13, 17, 22, 27, 30, 55, 58, 63, 66, 67, 71, 92, 94, 101, 106, 124, 126, 135, 143, 161, 163, 166], "sftp": 13, "much": [13, 19, 30, 34, 36, 44, 49, 55, 77, 78, 81, 85, 110, 115, 118, 122, 129, 134, 135, 141, 147, 150, 160, 163], "smaller": [13, 36, 55, 68, 78, 94, 98, 118, 134, 143, 147, 149, 150, 151, 163], "quicker": [13, 141], "browser": [13, 30, 31, 38, 39, 55, 58, 152], "explain": [13, 34, 52, 70, 131, 147, 152], "webserv": 13, "inbound": 13, "port": [13, 31, 95, 96, 101, 148], "22": [13, 26, 148, 163], "80": [13, 17, 55, 99, 141], "drop": [13, 18, 19, 58, 85, 129, 131, 143, 147], "tcp": 13, "Then": [13, 16, 30, 31, 32, 36, 47, 58, 59, 60, 67, 70, 75, 76, 84, 88, 91, 99, 105, 106, 107, 111, 139, 141, 163, 164], "someth": [13, 29, 30, 58, 66, 74, 81, 98, 103, 104, 111, 161, 164, 166], "shot": 13, "ln": 13, "expos": [13, 78], "home": [13, 31, 32, 62, 145], "scp": 13, "TO": [13, 65, 86], "send": [13, 26, 101, 139], "remot": [13, 55, 59, 126, 163, 165], "rel": [13, 18, 19, 22, 32, 43, 50, 52, 55, 75, 76, 82, 96, 109, 111, 116, 119, 120, 121, 122, 123, 124, 125, 126, 127, 128, 129, 130, 131, 132, 133, 134, 135, 136, 142, 148, 150, 152, 161, 165], "end": [13, 31, 32, 34, 35, 36, 47, 51, 55, 59, 63, 91, 98, 102, 108, 110, 113, 115, 123, 124, 126, 138, 140, 141, 149, 151, 157, 160], "retriev": [13, 37, 51, 84, 89, 104, 163, 165], "sit": 13, "idl": 13, "action": [13, 14, 89], "restart": [13, 27, 47, 77, 84, 96, 123, 124, 125, 126, 128, 131, 135, 147, 149, 151], "later": [13, 36, 37, 42, 54, 55, 62, 84, 104, 138], "But": [13, 34, 42, 55, 72, 82, 107, 119, 126, 143, 145], "futur": [13, 24, 27, 28, 38, 39, 42, 49, 52, 57, 63, 68, 88, 104, 110, 123, 124, 126, 129, 135, 148, 153, 157, 161], "job": [13, 133], "eb": 13, "runclaw": [14, 54, 119, 128, 130, 136, 139], "autom": [14, 58, 89, 116], "certain": [14, 34, 48, 61, 70, 98, 115, 123, 141, 147], "keep": [14, 27, 30, 34, 35, 37, 38, 39, 76, 88, 91, 96, 106, 109, 116, 119], "log": [14, 27, 30, 31, 94, 95, 96, 103, 104], "came": 14, "rundir": [14, 91], "environ": [14, 18, 19, 27, 30, 38, 39, 40, 43, 54, 55, 58, 61, 62, 71, 74, 76, 78, 100, 107, 109, 111, 124, 163, 164], "noth": [15, 64, 106, 127, 144, 155, 156, 163, 166], "rememb": [15, 29, 76, 82, 99, 144, 155, 156], "b4step1": [15, 67, 166], "b4step2": [15, 144, 166], "b4step3": 15, "branch": [15, 18, 19, 20, 27, 31, 44, 49, 54, 56, 59, 61, 62, 112, 116, 125, 126, 127, 128, 129, 130, 131, 132, 133, 134, 135, 136, 137, 144, 155, 156], "tag": [15, 55, 59, 61, 112, 144, 148, 149, 155, 156], "bathymetri": [15, 48, 52, 55, 63, 102, 113, 124, 126, 140, 142, 144, 150, 161, 163], "area": [15, 24, 48, 104, 113, 124, 143, 144], "dy": [15, 51, 57, 63, 64, 77, 89, 94, 98, 122, 126, 144, 161, 163], "capac": [15, 102, 144, 147, 148, 149, 151], "length": [15, 32, 37, 49, 52, 63, 75, 101, 106, 124, 131, 144, 147, 148, 149, 150, 166], "latter": [15, 18, 47, 70, 72, 101, 129, 141, 144, 147, 157, 166], "quantiti": [15, 18, 19, 34, 37, 63, 71, 72, 91, 95, 96, 102, 106, 140, 144, 150], "coordinate_system": [15, 18, 49, 64, 144, 150], "impos": [16, 89, 115, 155, 156, 169], "chapter": [16, 139, 147, 166], "choic": [16, 48, 81, 104, 147, 149, 150, 151, 166], "bc_lower": [16, 88, 101, 108, 147, 149, 151], "bc_upper": [16, 88, 101, 108, 147, 149, 151], "extrap": [16, 101, 108, 147, 149], "outflow": [16, 147, 149, 151], "move": [16, 34, 38, 39, 48, 58, 62, 64, 75, 101, 115, 118, 120, 125, 150, 153, 161, 162], "normal": [16, 19, 35, 36, 56, 58, 64, 82, 101, 111, 139, 140, 147, 148, 149, 150, 151], "fairli": [16, 52, 124], "good": [16, 19, 30, 52, 55, 65, 76, 86, 108, 113, 116, 124, 131, 139], "outgo": 16, "let": [16, 48, 62, 86, 113, 125, 131, 139], "without": [16, 24, 35, 43, 47, 52, 63, 65, 66, 67, 70, 71, 82, 84, 86, 92, 96, 97, 98, 109, 111, 116, 135, 141, 145, 149, 151, 157, 164, 166], "particularli": [16, 19, 29, 31, 34, 36, 54, 55, 60, 61, 62, 75, 77, 111, 119, 122, 126, 131, 135, 143, 161], "perfect": 16, "hit": [16, 36, 71, 77, 84, 98, 147], "obliqu": 16, "perfectli": 16, "wall": [16, 44, 101, 108, 123, 126, 128, 147, 149, 151, 160], "veloc": [16, 34, 36, 51, 64, 71, 84, 101, 102, 108, 124, 134, 142, 147, 148, 149, 150, 151, 166], "momentum": [16, 18, 34, 36, 37, 52, 64, 68, 98, 131, 140, 150, 153, 161], "third": [16, 18, 19, 34, 57, 92, 160, 163], "acoust": [16, 31, 38, 39, 52, 87, 88, 91, 93, 96, 104, 105, 122, 139, 149, 166], "p": [16, 17, 31, 84, 86, 88, 94, 97, 98, 102, 106, 139, 169], "hu": [16, 18, 19, 36, 37, 64, 68, 102, 140, 150], "hv": [16, 19, 36, 37, 64, 68, 140, 150], "equal": [16, 19, 32, 34, 35, 36, 37, 55, 72, 75, 77, 99, 101, 115, 138, 141, 147, 149, 151, 161, 163], "far": [16, 18, 19, 41, 45, 70, 81, 127, 129, 131, 134], "symmetri": [16, 49], "physic": [16, 19, 47, 49, 55, 89, 94, 96, 108, 115, 169], "slightli": [16, 42, 57, 124, 125, 131, 141], "complic": [16, 19, 82, 89, 141, 146], "alwai": [16, 19, 24, 28, 29, 30, 34, 36, 37, 44, 57, 58, 62, 71, 88, 97, 114, 115, 118, 119, 131, 135, 143, 147, 149, 151, 161, 166], "alon": [16, 55], "topographi": [16, 17, 19, 27, 34, 35, 36, 37, 47, 48, 49, 52, 57, 63, 68, 72, 75, 83, 113, 114, 118, 119, 120, 122, 123, 126, 129, 132, 135, 141, 142, 143, 155, 156, 162], "artifici": [16, 143], "ignor": [16, 49, 55, 63, 97, 122, 131, 142, 163], "incom": 16, "truncat": [16, 36, 77, 97, 147], "spuriou": [16, 34, 116], "extropl": 16, "dry": [16, 17, 27, 34, 48, 102, 129, 132, 140, 143], "land": [16, 42, 48, 50, 55, 58, 59, 63, 70, 72, 83, 129, 143, 150, 163], "tank": [16, 49, 52], "bc2amr": [16, 126], "calhounhelzellevequ": 16, "envis": 16, "fold": 16, "piec": [16, 52, 94], "glu": 16, "inflat": 16, 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"Launching an instance": [[13, "launching-an-instance"]], "Logging on to your instance": [[13, "logging-on-to-your-instance"]], "Using Clawpack": [[13, "using-clawpack"]], "Viewing plots of results": [[13, "viewing-plots-of-results"]], "Viewing webpages directly from your instance": [[13, "viewing-webpages-directly-from-your-instance"]], "Transferring files to/from your instance": [[13, "transferring-files-to-from-your-instance"]], "Stopping your instance": [[13, "stopping-your-instance"]], "Creating your own AMI": [[13, "creating-your-own-ami"]], "b4run function": [[14, "b4run-function"]], "b4step default routines": [[15, "b4step-default-routines"]], "b4step routine in GeoClaw": [[15, "b4step-routine-in-geoclaw"]], "Boundary conditions": [[16, "boundary-conditions"], [169, "boundary-conditions"]], "Boundary conditions for adaptive refinement": [[16, "boundary-conditions-for-adaptive-refinement"]], "Boundary conditions for GeoClaw": [[16, "boundary-conditions-for-geoclaw"]], "Boundary conditions for clamshell grids on the sphere": [[16, "boundary-conditions-for-clamshell-grids-on-the-sphere"]], "User-defined boundary conditions": [[16, "user-defined-boundary-conditions"]], "Bibliography": [[17, "bibliography"]], "Papers describing the Clawpack software and algorithms": [[17, "papers-describing-the-clawpack-software-and-algorithms"]], "Papers describing applications": [[17, "papers-describing-applications"]], "Other references": [[17, "other-references"]], "Boussinesq solvers in One Space Dimension": [[18, "boussinesq-solvers-in-one-space-dimension"]], "Using the 1d Boussinesq code": [[18, "using-the-1d-boussinesq-code"]], "Makefile": [[18, "makefile"], [19, "makefile"]], "setrun.py": [[18, "setrun-py"], [19, "setrun-py"]], "Boussinesq solvers in Two Space Dimensions": [[19, "boussinesq-solvers-in-two-space-dimensions"]], "Boussinesq-type dispersive equations": [[19, "boussinesq-type-dispersive-equations"]], "The SGN equations": [[19, "the-sgn-equations"]], "The Madsen-Sorensen (MS) equations": [[19, "the-madsen-sorensen-ms-equations"]], "Using the 2d Boussinesq code": [[19, "using-the-2d-boussinesq-code"]], "Prerequisites for the 2d Boussinesq code": [[19, "prerequisites-for-the-2d-boussinesq-code"]], "Wave breaking and switching to SWE": [[19, "wave-breaking-and-switching-to-swe"]], "Changes to master since v5.9.2": [[20, "changes-to-master-since-v5-9-2"]], "Changes that are not backward compatible": [[20, "changes-that-are-not-backward-compatible"], [126, "changes-that-are-not-backward-compatible"], [127, "changes-that-are-not-backward-compatible"], [128, "changes-that-are-not-backward-compatible"], [129, "changes-that-are-not-backward-compatible"], [130, "changes-that-are-not-backward-compatible"], [131, "changes-that-are-not-backward-compatible"], [132, "changes-that-are-not-backward-compatible"], [133, "changes-that-are-not-backward-compatible"], [134, "changes-that-are-not-backward-compatible"]], "General changes": [[20, "general-changes"], [126, "general-changes"], [127, "general-changes"], [128, "general-changes"], [129, "general-changes"], [130, "general-changes"], [131, "general-changes"], [132, "general-changes"], [133, "general-changes"], [134, "general-changes"], [136, "general-changes"]], "Changes to classic": [[20, "changes-to-classic"], [118, "changes-to-classic"], [119, "changes-to-classic"], [120, "changes-to-classic"], [121, "changes-to-classic"], [122, "changes-to-classic"], [123, "changes-to-classic"], [124, "changes-to-classic"], [125, "changes-to-classic"], [126, "changes-to-classic"], [127, "changes-to-classic"], [128, "changes-to-classic"], [129, "changes-to-classic"], [130, "changes-to-classic"], [131, "changes-to-classic"], [132, "changes-to-classic"], [133, "changes-to-classic"], [134, "changes-to-classic"], [135, "changes-to-classic"], [136, "changes-to-classic"]], "Changes to clawutil": [[20, "changes-to-clawutil"], [118, "changes-to-clawutil"], [119, "changes-to-clawutil"], [120, "changes-to-clawutil"], [121, "changes-to-clawutil"], [122, "changes-to-clawutil"], [123, "changes-to-clawutil"], [124, "changes-to-clawutil"], [125, "changes-to-clawutil"], [126, "changes-to-clawutil"], [127, "changes-to-clawutil"], [128, "changes-to-clawutil"], [129, "changes-to-clawutil"], [130, "changes-to-clawutil"], [131, "changes-to-clawutil"], [132, "changes-to-clawutil"], [133, "changes-to-clawutil"], [134, "changes-to-clawutil"], [135, "changes-to-clawutil"], [136, "changes-to-clawutil"]], "Changes to visclaw": [[20, "changes-to-visclaw"], [118, "changes-to-visclaw"], [119, "changes-to-visclaw"], [120, "changes-to-visclaw"], [121, "changes-to-visclaw"], [122, "changes-to-visclaw"], [123, "changes-to-visclaw"], [124, "changes-to-visclaw"], [125, "changes-to-visclaw"], [126, "changes-to-visclaw"], [127, "changes-to-visclaw"], [128, "changes-to-visclaw"], [129, "changes-to-visclaw"], [130, "changes-to-visclaw"], [131, "changes-to-visclaw"], [132, "changes-to-visclaw"], [133, "changes-to-visclaw"], [134, "changes-to-visclaw"], [135, "changes-to-visclaw"], [136, "changes-to-visclaw"]], "Changes to riemann": [[20, "changes-to-riemann"], [118, "changes-to-riemann"], [119, "changes-to-riemann"], [120, "changes-to-riemann"], [121, "changes-to-riemann"], [122, "changes-to-riemann"], [123, "changes-to-riemann"], [124, "changes-to-riemann"], [125, "changes-to-riemann"], [126, "changes-to-riemann"], [127, "changes-to-riemann"], [128, "changes-to-riemann"], [129, "changes-to-riemann"], [130, "changes-to-riemann"], [131, "changes-to-riemann"], [132, "changes-to-riemann"], [133, "changes-to-riemann"], [134, "changes-to-riemann"], [135, "changes-to-riemann"], [136, "changes-to-riemann"]], "Changes to amrclaw": [[20, "changes-to-amrclaw"], [118, "changes-to-amrclaw"], [119, "changes-to-amrclaw"], [120, "changes-to-amrclaw"], [121, "changes-to-amrclaw"], [122, "changes-to-amrclaw"], [123, "changes-to-amrclaw"], [124, "changes-to-amrclaw"], [125, "changes-to-amrclaw"], [126, "changes-to-amrclaw"], [127, "changes-to-amrclaw"], [128, "changes-to-amrclaw"], [129, "changes-to-amrclaw"], [130, "changes-to-amrclaw"], [131, "changes-to-amrclaw"], [132, "changes-to-amrclaw"], [133, "changes-to-amrclaw"], [134, "changes-to-amrclaw"], [135, "changes-to-amrclaw"], [136, "changes-to-amrclaw"]], "Changes to geoclaw": [[20, "changes-to-geoclaw"], [118, "changes-to-geoclaw"], [119, "changes-to-geoclaw"], [120, "changes-to-geoclaw"], [121, "changes-to-geoclaw"], [122, "changes-to-geoclaw"], [123, "changes-to-geoclaw"], [124, "changes-to-geoclaw"], [125, "changes-to-geoclaw"], [126, "changes-to-geoclaw"], [127, "changes-to-geoclaw"], [128, "changes-to-geoclaw"], [129, "changes-to-geoclaw"], [130, "changes-to-geoclaw"], [131, "changes-to-geoclaw"], [132, "changes-to-geoclaw"], [133, "changes-to-geoclaw"], [134, "changes-to-geoclaw"], [135, "changes-to-geoclaw"], [136, "changes-to-geoclaw"]], "Changes to PyClaw": [[20, "changes-to-pyclaw"], [117, "changes-to-pyclaw"], [118, "changes-to-pyclaw"], [119, "changes-to-pyclaw"], [120, "changes-to-pyclaw"], [121, "changes-to-pyclaw"], [122, "changes-to-pyclaw"], [123, "changes-to-pyclaw"], [124, "changes-to-pyclaw"], [125, "changes-to-pyclaw"], [126, "changes-to-pyclaw"], [127, "changes-to-pyclaw"], [128, "changes-to-pyclaw"], [129, "changes-to-pyclaw"], [130, "changes-to-pyclaw"], [131, "changes-to-pyclaw"], [132, "changes-to-pyclaw"], [133, "changes-to-pyclaw"], [134, "changes-to-pyclaw"], [135, "changes-to-pyclaw"], [136, "changes-to-pyclaw"]], "Other Clawpack Repositories": [[20, "other-clawpack-repositories"], [125, "other-clawpack-repositories"], [126, "other-clawpack-repositories"], [127, "other-clawpack-repositories"], [128, "other-clawpack-repositories"], [129, "other-clawpack-repositories"], [130, "other-clawpack-repositories"], [131, "other-clawpack-repositories"], [132, "other-clawpack-repositories"], [133, "other-clawpack-repositories"], [134, "other-clawpack-repositories"], [135, "other-clawpack-repositories"], [136, "other-clawpack-repositories"]], "Converting from Clawpack 4.3 to 4.6": [[21, "converting-from-clawpack-4-3-to-4-6"]], "Converting from Clawpack 4.6 to 5.0": [[22, "converting-from-clawpack-4-6-to-5-0"]], "Python conversion tool": [[22, "python-conversion-tool"]], "Clawpack 4.x links": [[23, "clawpack-4-x-links"]], "Changes in Clawpack 5.0": [[24, "changes-in-clawpack-5-0"]], "PyClaw in 5.0": [[24, "pyclaw-in-5-0"]], "Fortran package changes": [[24, "fortran-package-changes"]], "Changes to input parameters in setrun.py from 4.x to 5.0": [[24, "changes-to-input-parameters-in-setrun-py-from-4-x-to-5-0"]], "Changes to general parameters": [[24, "changes-to-general-parameters"]], "Changes to AMR parameters": [[24, "changes-to-amr-parameters"]], "Changes to GeoClaw parameters": [[24, "changes-to-geoclaw-parameters"]], "Changes to plotting routines": [[24, "changes-to-plotting-routines"]], "Clawpack components": [[25, "clawpack-components"]], "Other repositories": [[25, "other-repositories"]], "Clawpack Community": [[26, "clawpack-community"]], "User Workshops, Clinics, and Tutorials": [[26, "user-workshops-clinics-and-tutorials"]], "Available for streaming": [[26, "available-for-streaming"]], "Upcoming": [[26, "upcoming"], [26, "id1"]], "Recent": [[26, "recent"]], "Developer Workshops and Sprint Sessions": [[26, "developer-workshops-and-sprint-sessions"]], "Previous": [[26, "previous"]], "Other Clawpack events": [[26, "other-clawpack-events"]], "Contents": [[27, "id1"], [30, "contents"], [42, "contents"], [70, "contents"], [82, "contents"], [88, "contents"], [98, "contents"], [104, "contents"], [116, "contents"], [141, "contents"]], "Full Table of Contents": [[27, "full-table-of-contents"]], "Overview and Getting Started": [[27, "overview-and-getting-started"]], "Examples and Applications": [[27, "examples-and-applications"]], "Classic, AMRClaw, and GeoClaw": [[27, "classic-amrclaw-and-geoclaw"]], "Using the Fortran codes": [[27, "using-the-fortran-codes"]], "AMRClaw: adaptive mesh refinement": [[27, "amrclaw-adaptive-mesh-refinement"]], "GeoClaw: geophysical flows": [[27, "geoclaw-geophysical-flows"]], "PyClaw": [[27, "pyclaw"], [38, "pyclaw"], [96, "pyclaw"], [116, "pyclaw"], [159, "pyclaw"]], "Riemann": [[27, "riemann"]], "VisClaw: Plotting and Visualization Tools": [[27, "visclaw-plotting-and-visualization-tools"]], "Migrating applications from older versions of Clawpack": [[27, "migrating-applications-from-older-versions-of-clawpack"]], "Developers\u2019 resources": [[27, "developers-resources"]], "References": [[27, "references"], [56, "references"]], "Contributing examples and applications": [[28, "contributing-examples-and-applications"]], "current_data": [[29, "current-data"]], "Attributes of current_data:": [[29, "attributes-of-current-data"]], "Developers\u2019 Guide": [[30, "developers-guide"]], "Guidelines for contributing": [[30, "guidelines-for-contributing"]], "Reporting and fixing bugs": [[30, "reporting-and-fixing-bugs"]], "Developer communication": [[30, "developer-communication"]], "Installation instructions for developers": [[30, "installation-instructions-for-developers"]], "Cloning the most recent code from Github": [[30, "cloning-the-most-recent-code-from-github"]], "Checking out the master branch on each repository": [[30, "checking-out-the-master-branch-on-each-repository"]], "Updating to the latest master branch": [[30, "updating-to-the-latest-master-branch"]], "Never commit to master": [[30, "never-commit-to-master"]], "Adding your fork as a remote": [[30, "adding-your-fork-as-a-remote"]], "Modifying code": [[30, "modifying-code"]], "Issuing a pull request": [[30, "issuing-a-pull-request"]], "Testing a pull request": [[30, "testing-a-pull-request"]], "Top-level pull requests": [[30, "top-level-pull-requests"]], "Git workflow": [[30, "git-workflow"]], "Catching errors with Pyflakes and Pylint": [[30, "catching-errors-with-pyflakes-and-pylint"]], "Checking test coverage": [[30, "checking-test-coverage"]], "Trouble-Shooting Tips": [[30, "trouble-shooting-tips"]], "Docker for Clawpack": [[31, "docker-for-clawpack"]], "Using Version 5.9.0 or above": [[31, "using-version-5-9-0-or-above"]], "Getting started": [[31, "getting-started"]], "Stopping a container": [[31, "stopping-a-container"]], "Restarting a container": [[31, "restarting-a-container"]], "Running Jupyter notebooks": [[31, "running-jupyter-notebooks"]], "Moving files between the docker container and the host machine": [[31, "moving-files-between-the-docker-container-and-the-host-machine"]], "Some other useful docker commands": [[31, "some-other-useful-docker-commands"]], "Creating your own docker image": [[31, "creating-your-own-docker-image"]], "Dockerfiles for binder": [[31, "dockerfiles-for-binder"]], "dtopotools module for moving topography": [[32, "dtopotools-module-for-moving-topography"]], "Documentation 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output files": [[34, "format-of-the-output-files"]], "fgmax_tools module for working with fgmax grids": [[35, "fgmax-tools-module-for-working-with-fgmax-grids"]], "Fixed grid output": [[36, "fixed-grid-output"], [150, "fixed-grid-output"]], "Format of fgout output": [[36, "format-of-fgout-output"]], "Using setplot.py to produce plots": [[36, "using-setplot-py-to-produce-plots"]], "Reading and plotting fgout arrays directly": [[36, "reading-and-plotting-fgout-arrays-directly"]], "fgout grid registration": [[36, "fgout-grid-registration"]], "fgout_tools module for working with fgout grids": [[37, "fgout-tools-module-for-working-with-fgout-grids"]], "Running an example": [[38, "running-an-example"], [39, "running-an-example"], [40, "running-an-example"]], "Classic": [[38, "classic"], [39, "classic"], [159, "classic"]], "Testing your Fortran installation and running an example": [[39, "testing-your-fortran-installation-and-running-an-example"]], "More examples": [[39, "more-examples"]], "Testing a PyClaw installation and running an example": [[40, "testing-a-pyclaw-installation-and-running-an-example"]], "From the Jupyter notebook": [[40, "from-the-jupyter-notebook"]], "From the IPython interpreter": [[40, "from-the-ipython-interpreter"]], "From the command line": [[40, "from-the-command-line"], [93, "from-the-command-line"]], "Specifying flagregions for adaptive refinement": [[41, "specifying-flagregions-for-adaptive-refinement"]], "Using ruled rectangles as flagregions": [[41, "using-ruled-rectangles-as-flagregions"]], "Force Cells to be Dry Initially": [[42, "force-cells-to-be-dry-initially"]], "Examples": [[42, "examples"], [47, "examples"], [70, "examples"], [96, "examples"], [141, "examples"]], "Sample topography from a 1/3 arcsecond DEM": [[42, "sample-topography-from-a-1-3-arcsecond-dem"], [70, "sample-topography-from-a-1-3-arcsecond-dem"]], "Creating the force_dry_init array": [[42, "creating-the-force-dry-init-array"]], "Create file to read into GeoClaw": [[42, "create-file-to-read-into-geoclaw"]], "Usage in GeoClaw Fortran code": [[42, "usage-in-geoclaw-fortran-code"]], "Internal GeoClaw modifications": [[42, "internal-geoclaw-modifications"]], "Fortran version": [[43, "fortran-version"]], "Makefiles": [[43, "makefiles"]], "More tips": [[43, "more-tips"]], "Fortran Compilers": [[44, "fortran-compilers"]], "FC environment variable": [[44, "fc-environment-variable"]], "FFLAGS environment variable": [[44, "fflags-environment-variable"]], "LFLAGS environment variable": [[44, "lflags-environment-variable"]], "Pre-Processor and the PPFLAGS environment variable": [[44, "pre-processor-and-the-ppflags-environment-variable"]], "gfortran compiler": [[44, "gfortran-compiler"]], "Intel fortran compiler": [[44, "intel-fortran-compiler"]], "Examples from the book FVMHP": [[45, "examples-from-the-book-fvmhp"]], "Available examples": [[45, "available-examples"]], "Clawpack Gallery": [[46, "clawpack-gallery"]], "Gauges": [[47, "gauges"]], "Gauge parameters in setrun": [[47, "gauge-parameters-in-setrun"]], "Plotting tools": [[47, "plotting-tools"]], "Plotting gauge locations": [[47, "plotting-gauge-locations"]], "GeoClaw Description and Detailed Contents": [[48, "geoclaw-description-and-detailed-contents"]], "GeoClaw in One Space Dimension": [[49, "geoclaw-in-one-space-dimension"]], "Coordinate systems": [[49, "coordinate-systems"]], "Uniform and mapped grids": [[49, "uniform-and-mapped-grids"]], "Topograpy data": [[49, "topograpy-data"]], "Moving topograpy (dtopo) data": [[49, "moving-topograpy-dtopo-data"]], "Getting started with GeoClaw": [[50, "getting-started-with-geoclaw"]], "Running a GeoClaw code": [[50, "running-a-geoclaw-code"]], "Topography": [[50, "topography"]], "Plotting GeoClaw results": [[50, "plotting-geoclaw-results"]], "Setting up a new example": [[50, "setting-up-a-new-example"]], "geoclaw.util module of utility functions": [[51, "geoclaw-util-module-of-utility-functions"]], "Cautionary Hints on using GeoClaw": [[52, "cautionary-hints-on-using-geoclaw"]], "Tsunami hazard modeling": [[52, "tsunami-hazard-modeling"]], "GeoClaw plotting tools": [[53, "geoclaw-plotting-tools"]], "Plotting water depth or surface elevation": [[53, "plotting-water-depth-or-surface-elevation"]], "Tips on latitude-longitude coordinate axes": [[53, "tips-on-latitude-longitude-coordinate-axes"]], "Keeping track of repository versions with Git": [[54, "keeping-track-of-repository-versions-with-git"]], "Visualizing GeoClaw results in Google Earth": [[55, "visualizing-geoclaw-results-in-google-earth"]], "Basic requirements": [[55, "basic-requirements"]], "Optional GDAL library": [[55, "optional-gdal-library"]], "An example : The Chile 2010 tsunami event": [[55, "an-example-the-chile-2010-tsunami-event"]], "Plotting attributes needed for Google Earth": [[55, "plotting-attributes-needed-for-google-earth"]], "plotdata attributes": [[55, "plotdata-attributes"]], "plotfigure attributes": [[55, "plotfigure-attributes"]], "Creating the figures": [[55, "creating-the-figures"]], "plotaxes attributes": [[55, "plotaxes-attributes"]], "plotitem attributes": [[55, "plotitem-attributes"]], "Adding a colorbar overlay": [[55, "adding-a-colorbar-overlay"]], "Gauge plots": [[55, "gauge-plots"]], "Additional plotdata attributes": [[55, "additional-plotdata-attributes"]], "Plotting tips": [[55, "plotting-tips"]], "KML and KMZ files": [[55, "kml-and-kmz-files"]], "Tiling images for faster loading": [[55, "tiling-images-for-faster-loading"]], "Removing aliasing artifacts": [[55, "removing-aliasing-artifacts"]], "Creating multiple figures at different resolutions": [[55, "creating-multiple-figures-at-different-resolutions"]], "Mapping topography data to latitude/longitude coordinates": [[55, "mapping-topography-data-to-latitude-longitude-coordinates"]], "Publishing your results": [[55, "id1"]], "Using the GPU version of Clawpack": [[56, "using-the-gpu-version-of-clawpack"]], "Grid registration": [[57, "grid-registration"]], "NetCDF files": [[57, "netcdf-files"]], "Guide for updating this documentation": [[58, "guide-for-updating-this-documentation"]], "Git branches and tags": [[58, "git-branches-and-tags"]], "Configuration and style files": [[58, "configuration-and-style-files"]], "Updating the docs for a new release": [[58, "updating-the-docs-for-a-new-release"]], "To generate docs including previous versions": [[58, "to-generate-docs-including-previous-versions"]], "Updating for a new major version": [[58, "updating-for-a-new-major-version"]], "Updating the gallery": [[58, "updating-the-gallery"]], "Updating the webpages": [[58, "updating-the-webpages"]], "Extra files for webpages not built by Sphinx": [[58, "extra-files-for-webpages-not-built-by-sphinx"]], "Pages from other clawpack repositories": [[58, "pages-from-other-clawpack-repositories"]], "Guide for doing a Clawpack release": [[59, "guide-for-doing-a-clawpack-release"]], "Preparation": [[59, "preparation"]], "Version numbers": [[59, "version-numbers"]], "Release candidates": [[59, "release-candidates"]], "Create a tar file and a Github release": [[59, "create-a-tar-file-and-a-github-release"]], "Final release": [[59, "final-release"]], "Pypi": [[59, "pypi"]], "Zenodo": [[59, "zenodo"]], "Open Science Framework (OSF)": [[59, "open-science-framework-osf"]], "Updating the documentation": [[59, "updating-the-documentation"]], "Updating the apps repository": [[59, "updating-the-apps-repository"]], "Updating the Dockerfile": [[59, "updating-the-dockerfile"]], "Installing Clawpack": [[60, "installing-clawpack"]], "Next steps:": [[60, "next-steps"], [61, "next-steps"], [62, "next-steps"]], "Options for installing Clawpack Fortran codes": [[61, "options-for-installing-clawpack-fortran-codes"]], "tar file": [[61, "tar-file"]], "git clone": [[61, "git-clone"]], "pip install instructions": [[62, "pip-install-instructions"]], "Quick Installation of PyClaw with pip": [[62, "quick-installation-of-pyclaw-with-pip"]], "Quick Installation of all packages with pip": [[62, "quick-installation-of-all-packages-with-pip"]], "Using pip to install a different version": [[62, "using-pip-to-install-a-different-version"]], "Experimenting with code in the examples directories": [[62, "experimenting-with-code-in-the-examples-directories"]], "Troubleshooting pip install": [[62, "troubleshooting-pip-install"]], "kmltools module of utility functions": [[63, "kmltools-module-of-utility-functions"]], "Lagrangian gauges for particle tracking": [[64, "lagrangian-gauges-for-particle-tracking"]], "Specifying Lagrangian Gauges": [[64, "specifying-lagrangian-gauges"]], "Visclaw tools for plotting": [[64, "visclaw-tools-for-plotting"]], "An alternative using fgout grids": [[64, "an-alternative-using-fgout-grids"]], "Clawpack Makefiles": [[66, "clawpack-makefiles"]], "Applications directory Makefiles": [[66, "applications-directory-makefiles"]], "output": [[66, "output"]], "plots": [[66, "plots"]], "Variables": [[66, "variables"]], "Compiler flags": [[66, "compiler-flags"]], "Duplicate Base Source Name": [[66, "duplicate-base-source-name"]], "Library routines in Makefiles": [[67, "library-routines-in-makefiles"]], "Replacing files with the same name as library files": [[67, "replacing-files-with-the-same-name-as-library-files"]], "Using a modified library routine with a different name": [[67, "using-a-modified-library-routine-with-a-different-name"]], "Manning friction term": [[68, "manning-friction-term"]], "The mapc2p function": [[69, "the-mapc2p-function"]], "Marching Front algorithm": [[70, "marching-front-algorithm"]], "Function arguments": [[70, "function-arguments"]], "output array": [[70, "output-array"]], "creating a masked array": [[70, "creating-a-masked-array"]], "topofile mask for initializing dry points": [[70, "topofile-mask-for-initializing-dry-points"]], "fgmax points": [[70, "fgmax-points"]], "flag regions": [[70, "flag-regions"]], "The mask argument": [[70, "the-mask-argument"]], "The previous_pts_chosen argument": [[70, "the-previous-pts-chosen-argument"]], "Finding all points below a given elevation": [[70, "finding-all-points-below-a-given-elevation"]], "Create a buffer zone along shore": [[70, "create-a-buffer-zone-along-shore"]], "Choose points only near shore": [[70, "choose-points-only-near-shore"]], "Write out the masked array indicating fgmax points": [[70, "write-out-the-masked-array-indicating-fgmax-points"]], "Creating an AMR flag region": [[70, "creating-an-amr-flag-region"]], "Determining dry areas below MHW": [[70, "determining-dry-areas-below-mhw"]], "Plotting using Matlab": [[71, "plotting-using-matlab"]], "The Matlab search path": [[71, "the-matlab-search-path"]], "Creating output files": [[71, "creating-output-files"]], "The plotclaw command": [[71, "the-plotclaw-command"]], "The setplot file": [[71, "the-setplot-file"]], "The afterframe file": [[71, "the-afterframe-file"]], "Getting help": [[71, "getting-help"]], "Trouble shooting": [[71, "trouble-shooting"]], "Output files not found": [[71, "output-files-not-found"]], "MaxFrames not set": [[71, "maxframes-not-set"]], "Switching examples": [[71, "switching-examples"]], "Matlab Gallery": [[71, "matlab-gallery"]], "Nearshore interpolation": [[72, "nearshore-interpolation"]], "Using NetCDF output": [[73, "using-netcdf-output"]], "Creating a new application directory": [[74, "creating-a-new-application-directory"]], "Copying an existing example": [[74, "copying-an-existing-example"]], "Earthquake sources: Fault slip and the Okada model": [[75, "earthquake-sources-fault-slip-and-the-okada-model"]], "Fault slip on rectangular subfaults": [[75, "fault-slip-on-rectangular-subfaults"]], "Okada model": [[75, "okada-model"]], "Kinematic rupture": [[75, "kinematic-rupture"]], "Fault slip on triangular subfaults": [[75, "fault-slip-on-triangular-subfaults"]], "Using OpenMP": [[76, "using-openmp"]], "Using OpenMP with AMR": [[76, "using-openmp-with-amr"]], "Fixed grid output in GeoClaw": [[76, "fixed-grid-output-in-geoclaw"]], "Output data sytles and formats": [[77, "output-data-sytles-and-formats"]], "Output style": [[77, "output-style"]], "Output data formats": [[77, "output-data-formats"]], "ASCII output data format": [[77, "ascii-output-data-format"]], "fort.t0002": [[77, "fort-t0002"]], "fort.q0002": [[77, "fort-q0002"]], "Raw binary output data formats": [[77, "raw-binary-output-data-formats"]], "NetCDF output data format": [[77, "netcdf-output-data-format"]], "Output of aux arrays": [[77, "output-of-aux-arrays"]], "Which Clawpack solver should I use?": [[78, "which-clawpack-solver-should-i-use"]], "Installation and user interface": [[78, "installation-and-user-interface"]], "Algorithmic differences": [[78, "algorithmic-differences"]], "Parallel computing": [[78, "parallel-computing"]], "Clawpack Community Photos": [[79, "clawpack-community-photos"]], "2016 Developers\u2019 workshop at University of Washington": [[79, "id1"]], "2015 Developers\u2019 workshop at University of Utah": [[79, "id2"]], "2014 HPC3 workshop at KAUST": [[79, "id3"]], "2013 Claw-Dev workshop at UW": [[79, "id4"]], "2012 HPC3 workshop at KAUST": [[79, "id6"]], "2011 coding sprints at UW": [[79, "coding-sprints-at-uw"]], "2010 GeoClaw hacking UW": [[79, "geoclaw-hacking-uw"]], "Plotting examples": [[80, "plotting-examples"]], "Plotting with Visclaw": [[81, "plotting-with-visclaw"]], "Plotting as post-processing": [[81, "plotting-as-post-processing"]], "Plotting on the fly": [[81, "plotting-on-the-fly"]], "Plotting hints and FAQ": [[82, "plotting-hints-and-faq"]], "What\u2019s the difference between make .plots and make plots ?": [[82, "what-s-the-difference-between-make-plots-and-make-plots"]], "How to plot a something other than a component of q?": [[82, "how-to-plot-a-something-other-than-a-component-of-q"]], "How to add another curve to a plot, e.g. the true solution?": [[82, "how-to-add-another-curve-to-a-plot-e-g-the-true-solution"]], "How to change the title in a plot?": [[82, "how-to-change-the-title-in-a-plot"]], "How to specify outdir, the directory to find fort.* files for plotting?": [[82, "how-to-specify-outdir-the-directory-to-find-fort-files-for-plotting"]], "How to specify a different outdir for some plot item?": [[82, "how-to-specify-a-different-outdir-for-some-plot-item"]], "How to set plot parameters that are not provided as attributes of ClawPlotItem?": [[82, "how-to-set-plot-parameters-that-are-not-provided-as-attributes-of-clawplotitem"]], "How to change the size or background color of a figure?": [[82, "how-to-change-the-size-or-background-color-of-a-figure"]], "Specifying colormaps for pcolor or contourf plots": [[82, "specifying-colormaps-for-pcolor-or-contourf-plots"]], "How to debug setplot.py?": [[82, "how-to-debug-setplot-py"]], "Plotting routines for GeoClaw": [[83, "plotting-routines-for-geoclaw"]], "Plotting options in Python": [[84, "plotting-options-in-python"]], "Producing html plots from the command line": [[84, "producing-html-plots-from-the-command-line"]], "Producing a latex file with plots from the command line": [[84, "producing-a-latex-file-with-plots-from-the-command-line"]], "Setting plot parameters with a setplot function": [[84, "setting-plot-parameters-with-a-setplot-function"]], "Interactive plotting with Iplotclaw": [[84, "interactive-plotting-with-iplotclaw"]], "Access to current_data": [[84, "access-to-current-data"]], "printframes": [[84, "printframes"]], "Specifying what and how to plot": [[84, "specifying-what-and-how-to-plot"]], "Installation Prerequisites": [[85, "installation-prerequisites"]], "Operating system": [[85, "operating-system"]], "Fortran": [[85, "fortran"]], "Python": [[85, "python"]], "pip": [[85, "pip"]], "Git": [[85, "git"]], "About PyClaw": [[86, "about-pyclaw"]], "Contributors": [[86, "contributors"]], "PyClaw Basics": [[87, "pyclaw-basics"]], "Understanding Pyclaw Classes": [[88, "understanding-pyclaw-classes"]], "Flow of a Pyclaw Simulation": [[88, "flow-of-a-pyclaw-simulation"]], "Creation of a Pyclaw Solution": [[88, "creation-of-a-pyclaw-solution"]], "Creation of a Pyclaw Solver": [[88, "creation-of-a-pyclaw-solver"]], "Creating and Running a Simulation with Controller": [[88, "creating-and-running-a-simulation-with-controller"]], "Restarting a simulation": [[88, "restarting-a-simulation"]], "Outputting aux values": [[88, "outputting-aux-values"]], "Outputting derived quantities": [[88, "outputting-derived-quantities"], [98, "outputting-derived-quantities"]], "Porting a problem from Clawpack 4.6.x to PyClaw": [[89, "porting-a-problem-from-clawpack-4-6-x-to-pyclaw"]], "Running PyClaw in the cloud": [[90, "running-pyclaw-in-the-cloud"]], "Sage Math Cloud": [[90, "sage-math-cloud"]], "Pyclaw Controller Class": [[91, "pyclaw-controller-class"]], "pyclaw.controller.Controller": [[91, "pyclaw-controller-controller"]], "Pyclaw Limiters": [[92, "pyclaw-limiters"]], "clawpack.pyclaw.limiters.tvd": [[92, "module-clawpack.pyclaw.limiters.tvd"]], "CFL Independent Limiters": [[92, "cfl-independent-limiters"]], "CFL Dependent Limiters": [[92, "cfl-dependent-limiters"]], "Working with PyClaw\u2019s built-in examples": [[93, "working-with-pyclaw-s-built-in-examples"]], "Running and plotting examples": [[93, "running-and-plotting-examples"]], "Interactively in IPython": [[93, "interactively-in-ipython"]], "Built-in examples": [[93, "built-in-examples"]], "Adding new examples": [[93, "adding-new-examples"]], "PyClaw Geometry": [[94, "pyclaw-geometry"]], "Serial Geometry Objects": [[94, "serial-geometry-objects"]], "pyclaw.geometry.Domain": [[94, "pyclaw-geometry-domain"]], "pyclaw.geometry.Patch": [[94, "pyclaw-geometry-patch"]], "pyclaw.geometry.Grid": [[94, "pyclaw-geometry-grid"]], "pyclaw.geometry.Dimension": [[94, "pyclaw-geometry-dimension"]], "Parallel Geometry Objects": [[94, "parallel-geometry-objects"]], "petclaw.geometry.Domain": [[94, "petclaw-geometry-domain"]], "petclaw.geometry.Patch": [[94, "petclaw-geometry-patch"]], "Going Further": [[95, "going-further"]], "PyClaw installation": [[96, "pyclaw-installation"]], "Features": [[96, "features"]], "PyClaw Documentation": [[96, "pyclaw-documentation"]], "PyClaw Modules reference documentation": [[96, "pyclaw-modules-reference-documentation"]], "Riemann Solvers reference documentation": [[96, "riemann-solvers-reference-documentation"]], "Indices and tables": [[96, "indices-and-tables"]], "Citing PyClaw": [[96, "citing-pyclaw"]], "Pyclaw Input/Output Package": [[97, "pyclaw-input-output-package"]], "pyclaw.fileio.ascii": [[97, "module-clawpack.pyclaw.fileio.ascii"]], "pyclaw.fileio.binary": [[97, "module-clawpack.pyclaw.fileio.binary"]], "pyclaw.fileio.hdf5": [[97, "pyclaw-fileio-hdf5"]], "pyclaw.fileio.netcdf": [[97, "module-clawpack.pyclaw.fileio.netcdf"]], "PyClaw output": [[98, "pyclaw-output"]], "Output frames": [[98, "output-frames"]], "When output is saved/written": [[98, "when-output-is-saved-written"]], "Where and how output is written": [[98, "where-and-how-output-is-written"]], "What output is written": [[98, "what-output-is-written"]], "Outputting functionals": [[98, "outputting-functionals"]], "Using gauges": [[98, "using-gauges"]], "Logging": [[98, "logging"]], "Running in parallel": [[99, "running-in-parallel"]], "Installing PETSc": [[99, "installing-petsc"]], "Testing your installation": [[99, "testing-your-installation"], [159, "testing-your-installation"]], "Running and plotting an example": [[99, "running-and-plotting-an-example"]], "Tips for making your application run correctly in parallel": [[99, "tips-for-making-your-application-run-correctly-in-parallel"]], "Passing options to PETSc": [[99, "passing-options-to-petsc"]], "Plotting PyClaw results": [[100, "plotting-pyclaw-results"]], "Basics": [[100, "basics"]], "Plotting result from parallel runs": [[100, "plotting-result-from-parallel-runs"]], "Setting up your own problem": [[101, "setting-up-your-own-problem"]], "Writing the initialization script": [[101, "writing-the-initialization-script"]], "Setting initial conditions": [[101, "setting-initial-conditions"]], "Setting auxiliary variables": [[101, "setting-auxiliary-variables"]], "Setting boundary conditions": [[101, "setting-boundary-conditions"]], "Setting solver options": [[101, "setting-solver-options"]], "Using your own Riemann solver": [[101, "using-your-own-riemann-solver"]], "Adding source terms": [[101, "adding-source-terms"]], "Setting up the Makefile": [[101, "setting-up-the-makefile"]], "Riemann Solver Package": [[102, "riemann-solver-package"]], "Acoustics": [[102, "acoustics"]], "Advection": [[102, "advection"]], "Burgers Equation": [[102, "burgers-equation"]], "Euler Equations": [[102, "euler-equations"]], "Shallow Water Equations": [[102, "shallow-water-equations"]], "PyClaw Solutions": [[103, "pyclaw-solutions"]], "pyclaw.solution.Solution": [[103, "pyclaw-solution-solution"]], "Using PyClaw\u2019s solvers: Classic and SharpClaw": [[104, "using-pyclaw-s-solvers-classic-and-sharpclaw"]], "SharpClaw Solvers": [[104, "sharpclaw-solvers"]], "pyclaw.sharpclaw": [[104, "pyclaw-sharpclaw"]], "Pyclaw Classic Clawpack Solvers": [[104, "pyclaw-classic-clawpack-solvers"]], "pyclaw.classic.solver": [[104, "pyclaw-classic-solver"]], "Change to Custom BC Function Signatures": [[104, "change-to-custom-bc-function-signatures"]], "Installing PyClaw": [[105, "installing-pyclaw"]], "Dependencies: Python, gfortran, numpy, and matplotlib": [[105, "dependencies-python-gfortran-numpy-and-matplotlib"]], "Obtaining Python, numpy, and matplotlib": [[105, "obtaining-python-numpy-and-matplotlib"]], "Clawpack": [[105, "clawpack"]], "Testing your installation with nose": [[105, "testing-your-installation-with-nose"]], "Next steps": [[105, "next-steps"]], "PyClaw State": [[106, "pyclaw-state"]], "Serial pyclaw.state.State": [[106, "serial-pyclaw-state-state"]], "Parallel petclaw.state.State": [[106, "parallel-petclaw-state-state"]], "Troubleshooting": [[107, "troubleshooting"], [164, "troubleshooting"]], "Compilation errors": [[107, "compilation-errors"]], "Use Fortran-ordered arrays": [[107, "use-fortran-ordered-arrays"]], "Installation": [[107, "installation"]], "PyClaw tutorial: Solve the acoustics equations": [[108, "pyclaw-tutorial-solve-the-acoustics-equations"]], "The Solver": [[108, "the-solver"]], "The domain": [[108, "the-domain"]], "Initial condition": [[108, "initial-condition"]], "Problem-specific parameters": [[108, "problem-specific-parameters"]], "The controller": [[108, "the-controller"]], "Pyclaw Utility Module": [[109, "pyclaw-utility-module"]], "pyclaw.util": [[109, "module-clawpack.pyclaw.util"]], "Python Hints": [[110, "python-hints"]], "Dropping support for Python 2.7": [[110, "dropping-support-for-python-2-7"]], "References and tutorials": [[110, "references-and-tutorials"]], "Notebooks": [[110, "notebooks"]], "Python path": [[111, "python-path"]], "whichclaw.py": [[111, "whichclaw-py"]], "Which version was imported?": [[111, "which-version-was-imported"]], "sys.path": [[111, "sys-path"]], "easy-install.pth": [[111, "easy-install-pth"]], "PYTHONPATH": [[111, "pythonpath"], [145, "pythonpath"]], "qinit default routines": [[112, "qinit-default-routines"]], "qinit routine in GeoClaw": [[112, "qinit-routine-in-geoclaw"]], "Quick start guide for storm surge modeling": [[113, "quick-start-guide-for-storm-surge-modeling"]], "Quick start guide for tsunami modeling": [[114, "quick-start-guide-for-tsunami-modeling"]], "AMR refinement criteria": [[115, "amr-refinement-criteria"]], "Flagging criteria": [[115, "flagging-criteria"]], "flag2refine": [[115, "flag2refine"]], "Richardson extrapolation": [[115, "richardson-extrapolation"]], "Specifying AMR regions": [[115, "specifying-amr-regions"]], "Implementation": [[115, "implementation"]], "Flagging criteria in GeoClaw": [[115, "flagging-criteria-in-geoclaw"]], "Regression testing": [[116, "regression-testing"]], "Running the tests": [[116, "running-the-tests"], [116, "id2"]], "Fortran codes": [[116, "fortran-codes"]], "Travis continuous integration": [[116, "travis-continuous-integration"]], "Diff tools for checking test output": [[116, "diff-tools-for-checking-test-output"]], "chardiff tool for line-by-line comparison of output files": [[116, "chardiff-tool-for-line-by-line-comparison-of-output-files"]], "imagediff tool for pixel comparison of plots": [[116, "imagediff-tool-for-pixel-comparison-of-plots"]], "Running and writing tests in PyClaw": [[116, "running-and-writing-tests-in-pyclaw"]], "Running serial tests simultaneously": [[116, "running-serial-tests-simultaneously"]], "Running a specific test": [[116, "running-a-specific-test"]], "Doctests": [[116, "doctests"]], "Writing New Tests": [[116, "writing-new-tests"]], "v5.0.0 release notes": [[117, "v5-0-0-release-notes"]], "Changes to classic, riemann, amrclaw, geoclaw, visclaw": [[117, "changes-to-classic-riemann-amrclaw-geoclaw-visclaw"]], "v5.1.0 release notes": [[118, "v5-1-0-release-notes"]], "v5.2.0 release notes": [[119, "v5-2-0-release-notes"]], "v5.2.1 release notes": [[120, "v5-2-1-release-notes"]], "v5.2.2 release notes": [[121, "v5-2-2-release-notes"]], "v5.3.0 release notes": [[122, "v5-3-0-release-notes"]], "v5.3.1 release notes": [[123, "v5-3-1-release-notes"]], "v5.4.0 release notes": [[124, "v5-4-0-release-notes"]], "Global changes": [[124, "global-changes"]], "v5.4.1 release notes": [[125, "v5-4-1-release-notes"]], "Changes to documentation": [[125, "changes-to-documentation"], [126, "changes-to-documentation"]], "v5.5.0 release notes": [[126, "v5-5-0-release-notes"]], "v5.6.0 release notes": [[127, "v5-6-0-release-notes"]], "v5.6.1 release notes": [[128, "v5-6-1-release-notes"]], "v5.7.0 release notes": [[129, "v5-7-0-release-notes"]], "Python support": [[129, "python-support"]], "v5.7.1 release notes": [[130, "v5-7-1-release-notes"]], "v5.8.0 release notes": [[131, "v5-8-0-release-notes"]], "v5.8.1 release notes": [[132, "v5-8-1-release-notes"]], "v5.8.2 release notes": [[133, "v5-8-2-release-notes"]], "v5.9.0 release notes": [[134, "v5-9-0-release-notes"]], "v5.9.1 release notes": [[135, "v5-9-1-release-notes"]], "v5.9.2 release notes": [[136, "v5-9-2-release-notes"]], "Releases of Clawpack and release notes": [[137, "releases-of-clawpack-and-release-notes"]], "Other notes:": [[137, "other-notes"]], "Releases:": [[137, "id1"]], "Clawpack 4.x": [[137, "clawpack-4-x"]], "Checkpointing and restarting": [[138, "checkpointing-and-restarting"]], "Checkpointing a computation": [[138, "checkpointing-a-computation"]], "Restarting a computation": [[138, "restarting-a-computation"]], "Modifying the Makefile for a restart": [[138, "modifying-the-makefile-for-a-restart"]], "Output files after a restart": [[138, "output-files-after-a-restart"]], "Riemann solvers": [[139, "riemann-solvers"]], "One-dimensional Riemann solver": [[139, "one-dimensional-riemann-solver"]], "Pointwise Riemann solvers": [[139, "pointwise-riemann-solvers"]], "f-wave Riemann solvers": [[139, "f-wave-riemann-solvers"]], "2D Riemann solvers": [[139, "d-riemann-solvers"]], "Using a custom solver": [[139, "using-a-custom-solver"]], "Adding a solver to the Riemann repository": [[139, "adding-a-solver-to-the-riemann-repository"]], "Shallow water Riemann solvers in Clawpack": [[140, "shallow-water-riemann-solvers-in-clawpack"]], "One dimension": [[140, "one-dimension"]], "Two dimensions": [[140, "two-dimensions"]], "Layered shallow water equations": [[140, "layered-shallow-water-equations"]], "Potentially useful contributions (what\u2019s missing)": [[140, "potentially-useful-contributions-whats-missing"]], "Demonstrations": [[140, "demonstrations"]], "Roe": [[140, "roe"]], "HLL": [[140, "hll"]], "Ruled Rectangles": [[141, "ruled-rectangles"]], "Relation to convex polygons": [[141, "relation-to-convex-polygons"]], "Other attributes and methods": [[141, "other-attributes-and-methods"]], "ds": [[141, "ds"]], "slu": [[141, "slu"]], "bounding_box": [[141, "bounding-box"]], "mask_outside": [[141, "mask-outside"]], "read and write, and instantiating from a file": [[141, "read-and-write-and-instantiating-from-a-file"]], "make_kml": [[141, "make-kml"]], "A GeoClaw AMR flag region": [[141, "a-geoclaw-amr-flag-region"]], "A simple rectangle": [[141, "a-simple-rectangle"]], "Defining a Ruled Rectangle covering selected cells": [[141, "defining-a-ruled-rectangle-covering-selected-cells"]], "Example covering the continental shelf": [[141, "example-covering-the-continental-shelf"]], "Setting sea_level": [[142, "setting-sea-level"]], "Set Eta Init \u2013 spatially varying initial surface elevation": [[143, "set-eta-init-spatially-varying-initial-surface-elevation"]], "Default behavior, adjusting sea level by seismic deformation": [[143, "default-behavior-adjusting-sea-level-by-seismic-deformation"]], "Other use cases": [[143, "other-use-cases"]], "setaux default routines": [[144, "setaux-default-routines"]], "setaux routine in GeoClaw": [[144, "setaux-routine-in-geoclaw"]], "Set environment variables": [[145, "set-environment-variables"]], "CLAW": [[145, "claw"]], "FC": [[145, "fc"]], "Using setplot.py to specify the desired plots": [[146, "using-setplot-py-to-specify-the-desired-plots"]], "Plotting Data Objects": [[146, "plotting-data-objects"]], "Overview": [[146, "overview"]], "Specifying classic run-time parameters in setrun.py": [[147, "specifying-classic-run-time-parameters-in-setrun-py"]], "Input": [[147, "input"], [148, "input"]], "Output": [[147, "output"], [148, "output"]], "Run-time parameters": [[147, "run-time-parameters"], [148, "run-time-parameters"]], "Specifying AMRClaw run-time parameters in setrun.py": [[148, "specifying-amrclaw-run-time-parameters-in-setrun-py"]], "Special AMR parameters": [[148, "special-amr-parameters"]], "Debugging flags for additional printing": [[148, "debugging-flags-for-additional-printing"]], "Sample setrun.py module for AMRClaw": [[149, "sample-setrun-py-module-for-amrclaw"]], "Specifying GeoClaw parameters in setrun.py": [[150, "specifying-geoclaw-parameters-in-setrun-py"]], "Additional AMR parameters": [[150, "additional-amr-parameters"]], "General geo parameters": [[150, "general-geo-parameters"]], "Topography data file parameters": [[150, "topography-data-file-parameters"]], "qinit data file parameters": [[150, "qinit-data-file-parameters"]], "Force some cells to be initially dry": [[150, "force-some-cells-to-be-initially-dry"]], "Adjust sea level in some regions": [[150, "adjust-sea-level-in-some-regions"]], "AMR refinement region parameters": [[150, "amr-refinement-region-parameters"]], "Deprecated Fixedgrid output parameters": [[150, "deprecated-fixedgrid-output-parameters"]], "Fixed grid maximum monitoring / arrival times": [[150, "fixed-grid-maximum-monitoring-arrival-times"]], "Storm Specification Data": [[150, "storm-specification-data"]], "Sample setrun.py module for classic Clawpack": [[151, "sample-setrun-py-module-for-classic-clawpack"]], "Saving and sharing results": [[152, "saving-and-sharing-results"]], "Making webpages of plots": [[152, "making-webpages-of-plots"]], "Sharing your results": [[152, "sharing-your-results"]], "Jupyter notebooks": [[152, "jupyter-notebooks"]], "Source terms for shallow water on the sphere": [[153, "source-terms-for-shallow-water-on-the-sphere"]], "Compiling the Sphinx documentation locally": [[154, "compiling-the-sphinx-documentation-locally"]], "src1d default routines": [[155, "src1d-default-routines"]], "src1d routine in GeoClaw": [[155, "src1d-routine-in-geoclaw"]], "src default routines": [[156, "src-default-routines"]], "src routine in GeoClaw": [[156, "src-routine-in-geoclaw"]], "Storm Specification Class and Tools": [[157, "storm-specification-class-and-tools"]], "Sources for Storm Surge Data": [[158, "sources-for-storm-surge-data"]], "Timing Statistics": [[160, "timing-statistics"]], "Topography data": [[161, "topography-data"]], "Downloading topography files": [[161, "downloading-topography-files"]], "NetCDF format": [[161, "netcdf-format"]], "Topography displacement files": [[161, "topography-displacement-files"]], "qinit data file": [[161, "qinit-data-file"]], "Python tools for working with topo and dtopo": [[162, "python-tools-for-working-with-topo-and-dtopo"]], "topotools module for working with topography data": [[163, "topotools-module-for-working-with-topography-data"]], "Troubleshooting Installation": [[164, "troubleshooting-installation"]], "Troubleshooting Fortran:": [[164, "troubleshooting-fortran"]], "Setting the Fortran compiler to be used by f2py (pip)": [[164, "setting-the-fortran-compiler-to-be-used-by-f2py-pip"]], "Trouble compiling Fortran code at the command line": [[164, "trouble-compiling-fortran-code-at-the-command-line"]], "Trouble running \u201cmake .exe\u201d": [[164, "trouble-running-make-exe"]], "Trouble running \u201cmake .data\u201d": [[164, "trouble-running-make-data"]], "Trouble running \u201cmake .output\u201d": [[164, "trouble-running-make-output"]], "Trouble running \u201cmake .plots\u201d": [[164, "trouble-running-make-plots"]], "Some sources of tsunami data": [[165, "some-sources-of-tsunami-data"]], "Topography / bathymetry": [[165, "topography-bathymetry"]], "Earthquake source models": [[165, "earthquake-source-models"]], "DART buoy data": [[165, "dart-buoy-data"]], "Tide gauges": [[165, "tide-gauges"]], "User files required for the Fortran code": [[166, "user-files-required-for-the-fortran-code"]], "Specifying the initial conditions": [[166, "specifying-the-initial-conditions"]], "Specifying the Riemann solver": [[166, "specifying-the-riemann-solver"]], "Specifying boundary conditions": [[166, "specifying-boundary-conditions"]], "Specifying problem-specific data": [[166, "specifying-problem-specific-data"]], "Specifying spatially-varying data using setaux": [[166, "specifying-spatially-varying-data-using-setaux"]], "Using b4step for work to be done before each time step": [[166, "using-b4step-for-work-to-be-done-before-each-time-step"]], "Using src for source terms": [[166, "using-src-for-source-terms"]], "Using src1d for source terms with AMRClaw": [[166, "using-src1d-for-source-terms-with-amrclaw"]], "Plotting with VisIt": [[167, "plotting-with-visit"]], "Clawpack Virtual Machine": [[168, "clawpack-virtual-machine"]], "Wave-propagation algorithms": [[169, "wave-propagation-algorithms"]], "One space dimension": [[169, "one-space-dimension"]], "Godunov\u2019s method": [[169, "godunov-s-method"]], "High-resolution methods": [[169, "high-resolution-methods"]], "f-wave formulation": [[169, "f-wave-formulation"]], "Capacity functions": [[169, "capacity-functions"]], "Source terms": [[169, "source-terms"]]}, 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property)": [[37, "clawpack.geoclaw.fgout_tools.FGoutFrame.hv"]], "make_fgout_fcn_xy() (in module clawpack.geoclaw.fgout_tools)": [[37, "clawpack.geoclaw.fgout_tools.make_fgout_fcn_xy"]], "make_fgout_fcn_xyt() (in module clawpack.geoclaw.fgout_tools)": [[37, "clawpack.geoclaw.fgout_tools.make_fgout_fcn_xyt"]], "print_netcdf_info() (in module clawpack.geoclaw.fgout_tools)": [[37, "clawpack.geoclaw.fgout_tools.print_netcdf_info"]], "read_fgout_grids_data() (clawpack.geoclaw.fgout_tools.fgoutgrid method)": [[37, "clawpack.geoclaw.fgout_tools.FGoutGrid.read_fgout_grids_data"]], "read_frame() (clawpack.geoclaw.fgout_tools.fgoutgrid method)": [[37, "clawpack.geoclaw.fgout_tools.FGoutGrid.read_frame"]], "read_netcdf() (in module clawpack.geoclaw.fgout_tools)": [[37, "clawpack.geoclaw.fgout_tools.read_netcdf"]], "read_netcdf_arrays() (in module clawpack.geoclaw.fgout_tools)": [[37, "clawpack.geoclaw.fgout_tools.read_netcdf_arrays"]], "s (clawpack.geoclaw.fgout_tools.fgoutframe property)": 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"png2kml() (in module clawpack.geoclaw.kmltools)": [[63, "clawpack.geoclaw.kmltools.png2kml"]], "poly2kml() (in module clawpack.geoclaw.kmltools)": [[63, "clawpack.geoclaw.kmltools.poly2kml"]], "quad2kml() (in module clawpack.geoclaw.kmltools)": [[63, "clawpack.geoclaw.kmltools.quad2kml"]], "regions2kml() (in module clawpack.geoclaw.kmltools)": [[63, "clawpack.geoclaw.kmltools.regions2kml"]], "topo2kml() (in module clawpack.geoclaw.kmltools)": [[63, "clawpack.geoclaw.kmltools.topo2kml"]], "topo2kmz() (in module clawpack.geoclaw.kmltools)": [[63, "clawpack.geoclaw.kmltools.topo2kmz"]], "controller (class in clawpack.pyclaw.controller)": [[91, "clawpack.pyclaw.controller.Controller"]], "f_file_name (clawpack.pyclaw.controller.controller attribute)": [[91, "clawpack.pyclaw.controller.Controller.F_file_name"]], "f_path (clawpack.pyclaw.controller.controller property)": [[91, "clawpack.pyclaw.controller.Controller.F_path"]], "check_validity() (clawpack.pyclaw.controller.controller method)": 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"viewable_attributes (clawpack.pyclaw.controller.controller attribute)": [[91, "clawpack.pyclaw.controller.Controller.viewable_attributes"]], "write_aux_always (clawpack.pyclaw.controller.controller attribute)": [[91, "clawpack.pyclaw.controller.Controller.write_aux_always"]], "write_aux_init (clawpack.pyclaw.controller.controller attribute)": [[91, "clawpack.pyclaw.controller.Controller.write_aux_init"]], "xclawcmd (clawpack.pyclaw.controller.controller attribute)": [[91, "clawpack.pyclaw.controller.Controller.xclawcmd"]], "xclawerr (clawpack.pyclaw.controller.controller attribute)": [[91, "clawpack.pyclaw.controller.Controller.xclawerr"]], "xclawout (clawpack.pyclaw.controller.controller attribute)": [[91, "clawpack.pyclaw.controller.Controller.xclawout"]], "xdir (clawpack.pyclaw.controller.controller attribute)": [[91, "clawpack.pyclaw.controller.Controller.xdir"]], "arora_roe() (in module clawpack.pyclaw.limiters.tvd)": [[92, "clawpack.pyclaw.limiters.tvd.arora_roe"]], 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(clawpack.pyclaw.geometry.patch property)": [[94, "clawpack.pyclaw.geometry.Patch.dimensions"]], "fwave (clawpack.petclaw.geometry.domain attribute)": [[94, "clawpack.petclaw.geometry.Domain.fwave"]], "gauge_dir_name (clawpack.pyclaw.geometry.grid attribute)": [[94, "clawpack.pyclaw.geometry.Grid.gauge_dir_name"]], "gauge_file_names (clawpack.pyclaw.geometry.grid attribute)": [[94, "clawpack.pyclaw.geometry.Grid.gauge_file_names"]], "gauge_files (clawpack.pyclaw.geometry.grid attribute)": [[94, "clawpack.pyclaw.geometry.Grid.gauge_files"]], "gauges (clawpack.pyclaw.geometry.grid attribute)": [[94, "clawpack.pyclaw.geometry.Grid.gauges"]], "get_dim_attribute() (clawpack.pyclaw.geometry.grid method)": [[94, "clawpack.pyclaw.geometry.Grid.get_dim_attribute"]], "get_dim_attribute() (clawpack.pyclaw.geometry.patch method)": [[94, "clawpack.pyclaw.geometry.Patch.get_dim_attribute"]], "grid (clawpack.pyclaw.geometry.domain property)": [[94, "clawpack.pyclaw.geometry.Domain.grid"]], "kernel_language (clawpack.petclaw.geometry.domain attribute)": [[94, "clawpack.petclaw.geometry.Domain.kernel_language"]], "level (clawpack.pyclaw.geometry.patch attribute)": [[94, "clawpack.pyclaw.geometry.Patch.level"]], "lower_global (clawpack.pyclaw.geometry.patch property)": [[94, "clawpack.pyclaw.geometry.Patch.lower_global"]], "mthlim (clawpack.petclaw.geometry.domain attribute)": [[94, "clawpack.petclaw.geometry.Domain.mthlim"]], "name (clawpack.pyclaw.geometry.patch property)": [[94, "clawpack.pyclaw.geometry.Patch.name"]], "nodes (clawpack.pyclaw.geometry.dimension property)": [[94, "clawpack.pyclaw.geometry.Dimension.nodes"]], "nodes_with_ghost() (clawpack.pyclaw.geometry.dimension method)": [[94, "clawpack.pyclaw.geometry.Dimension.nodes_with_ghost"]], "num_cells_global (clawpack.pyclaw.geometry.patch property)": [[94, "clawpack.pyclaw.geometry.Patch.num_cells_global"]], "num_dim (clawpack.pyclaw.geometry.domain property)": [[94, 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"write_tcvitals() (clawpack.geoclaw.surge.storm.storm method)": [[157, "clawpack.geoclaw.surge.storm.Storm.write_tcvitals"]], "topography (class in clawpack.geoclaw.topotools)": [[163, "clawpack.geoclaw.topotools.Topography"]], "x (clawpack.geoclaw.topotools.topography property)": [[163, "clawpack.geoclaw.topotools.Topography.X"], [163, "clawpack.geoclaw.topotools.Topography.x"]], "y (clawpack.geoclaw.topotools.topography property)": [[163, "clawpack.geoclaw.topotools.Topography.Y"], [163, "clawpack.geoclaw.topotools.Topography.y"]], "z (clawpack.geoclaw.topotools.topography property)": [[163, "clawpack.geoclaw.topotools.Topography.Z"], [163, "clawpack.geoclaw.topotools.Topography.z"]], "clawpack.geoclaw.topotools": [[163, "module-clawpack.geoclaw.topotools"]], "create_topo_func() (in module clawpack.geoclaw.topotools)": [[163, "clawpack.geoclaw.topotools.create_topo_func"]], "crop() (clawpack.geoclaw.topotools.topography method)": [[163, "clawpack.geoclaw.topotools.Topography.crop"]], "delta (clawpack.geoclaw.topotools.topography property)": [[163, "clawpack.geoclaw.topotools.Topography.delta"]], "determine_topo_type() (in module clawpack.geoclaw.topotools)": [[163, "clawpack.geoclaw.topotools.determine_topo_type"]], "extent (clawpack.geoclaw.topotools.topography property)": [[163, "clawpack.geoclaw.topotools.Topography.extent"]], "fetch_topo_url() (in module clawpack.geoclaw.topotools)": [[163, "clawpack.geoclaw.topotools.fetch_topo_url"]], "generate_2d_coordinates() (clawpack.geoclaw.topotools.topography method)": [[163, "clawpack.geoclaw.topotools.Topography.generate_2d_coordinates"]], "generate_2d_topo() (clawpack.geoclaw.topotools.topography method)": [[163, "clawpack.geoclaw.topotools.Topography.generate_2d_topo"]], "get_topo() (in module clawpack.geoclaw.topotools)": [[163, "clawpack.geoclaw.topotools.get_topo"]], "in_poly() (clawpack.geoclaw.topotools.topography method)": [[163, "clawpack.geoclaw.topotools.Topography.in_poly"]], "interp_unstructured() (clawpack.geoclaw.topotools.topography method)": [[163, "clawpack.geoclaw.topotools.Topography.interp_unstructured"]], "make_shoreline_xy() (clawpack.geoclaw.topotools.topography method)": [[163, "clawpack.geoclaw.topotools.Topography.make_shoreline_xy"]], "plot() (clawpack.geoclaw.topotools.topography method)": [[163, "clawpack.geoclaw.topotools.Topography.plot"]], "read() (clawpack.geoclaw.topotools.topography method)": [[163, "clawpack.geoclaw.topotools.Topography.read"]], "read_header() (clawpack.geoclaw.topotools.topography method)": [[163, "clawpack.geoclaw.topotools.Topography.read_header"]], "read_netcdf() (in module clawpack.geoclaw.topotools)": [[163, "clawpack.geoclaw.topotools.read_netcdf"]], "replace_no_data_values() (clawpack.geoclaw.topotools.topography method)": [[163, "clawpack.geoclaw.topotools.Topography.replace_no_data_values"]], "replace_values() (clawpack.geoclaw.topotools.topography method)": [[163, "clawpack.geoclaw.topotools.Topography.replace_values"]], "set_xyz() (clawpack.geoclaw.topotools.topography method)": [[163, "clawpack.geoclaw.topotools.Topography.set_xyZ"]], "smooth_data() (clawpack.geoclaw.topotools.topography method)": [[163, "clawpack.geoclaw.topotools.Topography.smooth_data"]], "swapheader() (in module clawpack.geoclaw.topotools)": [[163, "clawpack.geoclaw.topotools.swapheader"]], "topo1writer() (in module clawpack.geoclaw.topotools)": [[163, "clawpack.geoclaw.topotools.topo1writer"]], "topo2writer() (in module clawpack.geoclaw.topotools)": [[163, "clawpack.geoclaw.topotools.topo2writer"]], "topo3writer() (in module clawpack.geoclaw.topotools)": [[163, "clawpack.geoclaw.topotools.topo3writer"]], "write() (clawpack.geoclaw.topotools.topography method)": [[163, "clawpack.geoclaw.topotools.Topography.write"]]}}) \ No newline at end of file diff --git a/dev/storm_module.html b/dev/storm_module.html index c5467325c..b2f16912a 100644 --- a/dev/storm_module.html +++ b/dev/storm_module.html @@ -556,7 +556,7 @@

              Navigation

                @@ -587,7 +587,7 @@

                Navigation

                  diff --git a/dev/topotools_module.html b/dev/topotools_module.html index af4927768..fe10c0740 100644 --- a/dev/topotools_module.html +++ b/dev/topotools_module.html @@ -136,7 +136,7 @@

                  Navigation

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

                  Base topography class.

                  A class representing a single topography file.

                  diff --git a/dtopotools_module.html b/dtopotools_module.html index 58b504b55..1abe3233b 100644 --- a/dtopotools_module.html +++ b/dtopotools_module.html @@ -125,6 +125,9 @@

                  Navigation

                • CSVFault

                • SiftFault

                • SegmentedPlaneFault

                  • +

                • Fault1d

                  • +

                • SubFault1d

                  • +

                • DTopography1d

                Functions:
                @@ -219,6 +222,57 @@

                Navigation

                +
                +
                +class clawpack.geoclaw.dtopotools.DTopography1d(path=None, dtopo_type=None)
                +

                Basic object representing moving topography in 1d

                +
                +
                +dZ_at_t(t)
                +

                Interpolate dZ to specified time t and return deformation.

                +
                + +
                +
                +dZ_cellave_at_t(t, celledges)
                +

                Interpolate dZ to specified time t and return deformation.

                +
                + +
                +
                +read(path=None, dtopo_type=None, verbose=False)
                +

                Read in a dtopo file and use to set attributes of this object.

                +
                +
                Input:
                +
                  +

                • path (path) - Path to existing dtopo file to read in.

                  • +
                • +
                  dtopo_type (int) - Type of topography file to read. Default is 3

                  if not specified or apparent from file extension.

                  +
                  +
                  +
                  • +
                +
                +
                +
                + +
                +
                +write(path=None, dtopo_type=None)
                +

                Write out subfault resulting dtopo to file at path.

                +
                +
                Input:
                +
                  +

                • path (path) - Path to the output file to written to.

                  • +

                • dtopo_type (int) - Type of topography file to write out. Default +is 3.

                  • +
                +
                +
                +
                + +
                +
                class clawpack.geoclaw.dtopotools.Fault(subfaults=None, input_units={}, coordinate_specification=None)
                @@ -415,6 +469,13 @@

                Navigation

                +
                +
                +class clawpack.geoclaw.dtopotools.Fault1d(subfaults=None, input_units={}, coordinate_specification=None)
                +

                Base Fault1d class

                +

                A class describing a 1d fault possibly composed of subfaults.

                +
                +
                clawpack.geoclaw.dtopotools.Mw(Mo, units='N-m')
                @@ -732,6 +793,47 @@

                Navigation

                +
                +
                +class clawpack.geoclaw.dtopotools.SubFault1d(strike=0, length=1000000.0)
                +
                +
                +coordinate_specification
                +

                location of x0: ‘top center’, ‘centroid’, or ‘bottom center’

                +
                + +
                +
                +latitude
                +

                latitude where placed on sphere to use 2d routines

                +
                + +
                +
                +length
                +

                length (m) in strike direction orthogonal to x

                +
                + +
                +
                +longitude
                +

                longitude at location specified by coordinate_specification

                +
                + +
                +
                +rake
                +

                rake=90 ==> top at right if strike=0, at left if strike=180

                +
                + +
                +
                +strike
                +

                rake=90, so top at right if strike=0, at left if strike=180

                +
                + +
                +
                class clawpack.geoclaw.dtopotools.SubdividedPlaneFault(base_subfault, nstrike=1, ndip=1, slip_function=None, Mo=None)
                @@ -892,6 +994,13 @@

                Table of Contents

              • DTopography.write()
              +
            • DTopography1d +
            • Fault
              • +
            • Fault1d
            • Mw()
            • SiftFault
              • +
            • SubFault1d +
            • SubdividedPlaneFault diff --git a/fgmax_tools_module.html b/fgmax_tools_module.html index 57692bb96..86548867b 100644 --- a/fgmax_tools_module.html +++ b/fgmax_tools_module.html @@ -127,8 +127,27 @@

              Navigation

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

              Read the GeoClaw results on the fgmax grid numbered fgno.

              +
              +
              indexing=’ij’ gives backward compatibility.

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

              +
              +
              +

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

              + +
              +

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

              +
              + +

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

              diff --git a/genindex.html b/genindex.html index df1aeb4aa..643a43d83 100644 --- a/genindex.html +++ b/genindex.html @@ -363,7 +363,11 @@

              C

            • convert_to_standard_units() (clawpack.geoclaw.dtopotools.SubFault method)
            • coordinate_specification (clawpack.geoclaw.dtopotools.SubFault attribute) + +
            • corners (clawpack.geoclaw.dtopotools.SubFault property)
            • create_dtopo_xy() (clawpack.geoclaw.dtopotools.Fault method) @@ -410,10 +414,10 @@

              D

            • dist_latlong2meters() (in module clawpack.geoclaw.util)
              • -
            • dms2decimal() (in module clawpack.geoclaw.util)
            • Domain (class in clawpack.petclaw.geometry) @@ -431,10 +435,18 @@

              D

            • dtopo2kml() (in module clawpack.geoclaw.kmltools)
            • DTopography (class in clawpack.geoclaw.dtopotools) +
              • +
            • DTopography1d (class in clawpack.geoclaw.dtopotools)
            • dynamic_slip() (clawpack.geoclaw.dtopotools.SubFault method)
            • dZ_at_t() (clawpack.geoclaw.dtopotools.DTopography method) + +
              • +
            • dZ_cellave_at_t() (clawpack.geoclaw.dtopotools.DTopography1d method)
            • dZ_max() (clawpack.geoclaw.dtopotools.DTopography method)
              • @@ -481,6 +493,8 @@

              F

            • F_path (clawpack.pyclaw.controller.Controller property)
            • Fault (class in clawpack.geoclaw.dtopotools) +
              • +
            • Fault1d (class in clawpack.geoclaw.dtopotools)
            • fetch_noaa_tide_data() (in module clawpack.geoclaw.util)
              • @@ -685,21 +699,33 @@

              L

              @@ -978,11 +1004,17 @@

              R

              - + - +
              • dms2decimal() (in module clawpack.geoclaw.util)
              • Domain (class in clawpack.petclaw.geometry) @@ -415,10 +419,18 @@

                D

              • dtopo2kml() (in module clawpack.geoclaw.kmltools)
              • DTopography (class in clawpack.geoclaw.dtopotools) +
                • +
              • DTopography1d (class in clawpack.geoclaw.dtopotools)
              • dynamic_slip() (clawpack.geoclaw.dtopotools.SubFault method)
              • dZ_at_t() (clawpack.geoclaw.dtopotools.DTopography method) + +
                • +
              • dZ_cellave_at_t() (clawpack.geoclaw.dtopotools.DTopography1d method)
              • dZ_max() (clawpack.geoclaw.dtopotools.DTopography method)
                • @@ -459,6 +471,8 @@

                F

              • F_path (clawpack.pyclaw.controller.Controller property)
              • Fault (class in clawpack.geoclaw.dtopotools) +
                • +
              • Fault1d (class in clawpack.geoclaw.dtopotools)
              • fetch_noaa_tide_data() (in module clawpack.geoclaw.util)
                • @@ -649,21 +663,33 @@

                L

                @@ -932,11 +958,17 @@

                R

                - + - +
                • Solution (class in clawpack.pyclaw.solution)
                • solver (clawpack.pyclaw.controller.Controller attribute) @@ -1112,7 +1144,11 @@

                  S

                • Storm (class in clawpack.geoclaw.surge.storm)
                • strike (clawpack.geoclaw.dtopotools.SubFault attribute) + +
                • strike_direction() (in module clawpack.geoclaw.dtopotools)
                • subdivide() (clawpack.geoclaw.dtopotools.SubdividedPlaneFault method) @@ -1120,6 +1156,8 @@

                  S

                • SubdividedPlaneFault (class in clawpack.geoclaw.dtopotools)
                • SubFault (class in clawpack.geoclaw.dtopotools) +
                  • +
                • SubFault1d (class in clawpack.geoclaw.dtopotools)
                • superbee_limiter() (in module clawpack.pyclaw.limiters.tvd)
                  • @@ -1220,6 +1258,8 @@

                  W

                • write() (clawpack.geoclaw.dtopotools.DTopography method)
                    +
                  • (clawpack.geoclaw.dtopotools.DTopography1d method) +
                  • (clawpack.geoclaw.dtopotools.Fault method)
                  • (clawpack.geoclaw.surge.storm.Storm method) diff --git a/v5.7.x/geoclaw_util_module.html b/v5.7.x/geoclaw_util_module.html index 110263027..6b92c387a 100644 --- a/v5.7.x/geoclaw_util_module.html +++ b/v5.7.x/geoclaw_util_module.html @@ -115,7 +115,7 @@

                    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:

                    diff --git a/v5.7.x/kmltools_module.html b/v5.7.x/kmltools_module.html index 4894c6b3f..4a4577753 100644 --- a/v5.7.x/kmltools_module.html +++ b/v5.7.x/kmltools_module.html @@ -362,7 +362,7 @@

                    Navigation

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

                    @@ -370,7 +370,7 @@

                    Navigation

                    dpi * y_inches = dcp * y_cells

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

                    @@ -380,14 +380,14 @@

                    Navigation

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

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

                    The png_extent is needed in construcing a kml file to display the @@ -523,7 +523,7 @@

                    Navigation

                    If force_dry is an array of the same shape as topo.Z then another png diff --git a/v5.7.x/objects.inv b/v5.7.x/objects.inv index fc7f74a04df073925caa56e785a9f8322800d135..4ed2ba9ee5727c5c8b1387c8573d8d204c593422 100644 GIT binary patch delta 11474 zcmV;@EG^UdT)kb8dw*M#+c>i3yM6^Dsvl+|4%JrqHa)SsC)~En<2d8fbzJW5-Faa^ zBqVW6ku)!=Qa|;7*q1#KyML~K$s&;e2!J3(iO_j)nF2DuOx$mY#M_KK-e*Pg=84up zdHidfk-836!CNhSxoh^>&38e#kfHBLLtNAl-lx7xw{1mT^nV!B=lIyry^9{gJ8BmD zSd#eba!U*NUM5XZ7EMuPJSqDkX)_u;3%cM4!w>?$!xKo$w-3MEkv3~|eFhMxLMrr z|M*v^49mwVZGWg|&{g8Mj;)d_)iMN*X_k=#y^??{6dFVIR&2g{EbOj672b4OetPtW z1uc@Kd75vdipGscU{<^hjd*zUbi595*Khm5=KWONt~c)8=uL7Ww5k59y}y)qi0qEM62|YvV(^_NJwP^3<~_ zxR_*dn?Va_R1CE`UKu`Ws+8p0jMjby(Y&EJ(q*ZhDfm-AT1{F0$R5v6~NR>ow zo;IF!FN!KjbI7H-q;a}QW5U}96G9r6U+b1NWFK;>+%!kBUA0;VlFU>>UZ1?0T z>K{&M;ge4%G@j+%2loA;N{!BY2y{Bya$U4}0y}H#!rZU-fStnXvW$}7d;^#D3s_x} zs(&KK+BZ0~s0gFB>~|d{;uOrgkfLqMw($+kcd#IPFxsE?B>87sHv$%C5n3ZT3-;?i 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14, 19, 20, 22, 28, 30, 32, 35, 36, 38, 39, 51, 54, 55, 56, 57, 58, 59, 62, 66, 67, 77, 79, 83, 84, 89, 92, 93, 94, 96, 99, 100, 101, 103, 104, 106, 108, 110, 113, 117, 122, 128, 129, 130, 132, 136, 138, 139, 145, 147, 149, 151, 157], "sure": [1, 20, 28, 40, 54, 55, 67, 73, 83, 92, 94, 96, 98, 102, 104, 131, 151, 152, 153], "previou": [1, 18, 28, 29, 44, 53, 55, 57, 63, 66, 67, 79, 83, 99, 108, 113, 118, 119, 120, 121, 127, 132, 136, 138, 140, 149, 151], "chang": [1, 6, 8, 13, 15, 16, 19, 20, 25, 28, 29, 30, 32, 40, 41, 50, 51, 52, 53, 54, 55, 56, 58, 59, 62, 63, 64, 66, 67, 68, 71, 72, 73, 76, 79, 83, 84, 90, 92, 93, 101, 104, 105, 108, 109, 110, 111, 126, 128, 132, 133, 136, 137, 138, 139, 140, 143, 144, 149, 152, 154], "re": [1, 17, 28, 40, 44, 62, 67, 73, 77, 79, 83, 100, 110, 111, 123, 152], "session": [1, 35, 36, 37, 95, 100], "iplotclaw": [1, 13, 22, 35, 36, 44, 46, 76, 77, 95, 106], "being": [1, 3, 4, 8, 13, 32, 39, 44, 48, 53, 58, 66, 79, 86, 92, 97, 98, 99, 104, 106, 108, 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146, 147, 151, 154], "conveni": [1, 27, 32, 35, 36, 39, 44, 51, 79, 86, 88, 91, 93, 95, 103, 154, 157], "pyclaw": [1, 3, 4, 12, 17, 23, 24, 27, 28, 29, 44, 55, 56, 72, 73, 79, 80, 90, 94, 96, 102, 105, 106, 126, 128, 129, 134], "plotter": [1, 3, 27, 79], "frametool": [1, 27, 79, 124], "printfram": [1, 76], "still": [1, 5, 7, 8, 13, 16, 22, 24, 26, 32, 34, 39, 51, 52, 56, 63, 66, 67, 72, 76, 81, 99, 105, 110, 111, 117, 118, 119, 120, 121, 122, 124, 127, 128, 139, 145], "clawplotdata": [2, 3, 27, 44, 51, 77, 79, 86, 135], "next": [2, 3, 6, 13, 18, 35, 37, 44, 54, 55, 67, 72, 77, 79, 82, 83, 91, 92, 94, 99, 103, 108, 110, 111, 136, 137, 139], "unus": [2, 92], "1001": 2, "kwarg": [2, 30, 59, 77, 104, 111, 135, 145], "keyword": [2, 3, 77, 83, 88, 89, 92, 98, 104, 111, 121, 135, 145, 151], "figsiz": [2, 39, 66, 77, 130, 135], "12": [2, 32, 39, 51, 66, 77, 130, 135], "5": [2, 4, 5, 8, 9, 11, 13, 19, 25, 29, 30, 32, 33, 38, 39, 42, 44, 47, 51, 52, 53, 54, 55, 59, 62, 63, 64, 66, 68, 70, 77, 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51, 52, 54, 55, 56, 58, 59, 64, 67, 70, 79, 81, 83, 85, 93, 97, 103, 105, 106, 107, 110, 111, 114, 115, 116, 117, 118, 119, 120, 121, 122, 123, 124, 125, 126, 128, 130, 133, 135, 136, 137, 138, 139, 140, 143, 144, 145, 149, 151, 154], "fragment": 3, "typic": [3, 20, 39, 62, 63, 67, 70, 72, 73, 79, 84, 94, 96, 99, 101, 110, 137, 138, 148, 149, 152, 153, 154, 157], "assum": [3, 5, 20, 22, 30, 32, 36, 39, 47, 48, 51, 53, 54, 55, 59, 67, 70, 76, 92, 93, 95, 96, 97, 103, 104, 110, 117, 130, 131, 136, 139, 145, 146, 149, 151, 153, 157], "plotax": [3, 44, 77, 124, 135], "instanc": [3, 28, 51, 56, 70, 73, 79, 83, 84, 86, 89, 92, 93, 96, 130, 139], "type": [3, 4, 7, 13, 20, 28, 30, 35, 36, 40, 44, 51, 62, 67, 77, 78, 79, 83, 84, 85, 87, 89, 94, 95, 99, 100, 103, 104, 105, 130, 137, 138, 139, 145, 146, 149, 151, 157], "dimension": [3, 7, 8, 17, 22, 25, 30, 32, 35, 36, 44, 48, 52, 67, 89, 96, 117, 118, 120, 123, 138, 139, 140, 151, 154], "point": [3, 5, 6, 13, 15, 16, 17, 20, 28, 30, 33, 35, 36, 38, 39, 41, 44, 45, 46, 47, 48, 51, 53, 54, 55, 56, 57, 58, 59, 67, 68, 70, 83, 93, 94, 98, 104, 105, 106, 110, 120, 122, 124, 127, 128, 130, 131, 132, 133, 134, 136, 137, 138, 139, 143, 144, 145, 149, 151, 152, 154], "slice": [3, 67, 128], "scatter": [3, 22, 67], "radial": [3, 32, 47, 139, 154], "symmetr": [3, 47, 154], "between": [3, 4, 5, 6, 13, 16, 23, 25, 28, 30, 31, 32, 38, 47, 51, 55, 56, 59, 66, 67, 70, 71, 73, 76, 86, 89, 93, 99, 101, 102, 104, 105, 106, 110, 118, 119, 128, 130, 131, 136, 137, 138, 139, 140, 141, 148, 149, 151, 153, 154], "plot_var": [3, 27, 44, 51, 77, 78], "fill_var2": 3, "contour": [3, 30, 44, 51, 53, 67, 105, 135, 151], "pcolor": [3, 44, 76, 105, 151], "2d_schlieren": 3, "schlieren": [3, 67], "2d_patch": [3, 22], "cell": [3, 4, 5, 7, 8, 15, 16, 18, 20, 22, 25, 27, 32, 33, 44, 45, 51, 53, 59, 66, 67, 71, 72, 73, 83, 89, 92, 94, 97, 99, 101, 103, 110, 113, 114, 118, 119, 120, 121, 122, 123, 124, 128, 131, 132, 133, 136, 137, 138, 139, 140, 146, 148, 149, 154, 157], "patch": [3, 6, 7, 16, 18, 22, 27, 32, 39, 51, 67, 70, 71, 72, 76, 77, 92, 94, 98, 101, 110, 119, 121, 124, 132, 135, 137, 139, 148, 149, 154], "edg": [3, 6, 15, 16, 27, 30, 32, 33, 38, 59, 70, 89, 97, 128, 130, 133, 137, 138, 140, 154], "come": [3, 28, 77, 79, 88, 94, 99, 117, 149, 154], "parent": [3, 27, 89, 101, 104], "integ": [3, 32, 33, 44, 51, 59, 64, 66, 77, 84, 98, 110, 120, 123, 128, 136, 139, 145, 151], "compon": [3, 16, 18, 20, 22, 25, 36, 44, 56, 58, 67, 72, 76, 96, 98, 100, 101, 110, 117, 129, 136, 137, 138, 149, 154], "python": [3, 4, 7, 8, 11, 13, 14, 17, 19, 22, 23, 25, 27, 28, 29, 30, 33, 35, 36, 37, 40, 42, 44, 45, 46, 47, 50, 51, 53, 54, 55, 56, 57, 58, 59, 70, 72, 73, 76, 77, 78, 81, 82, 84, 88, 89, 91, 92, 94, 95, 96, 97, 99, 102, 103, 104, 111, 114, 115, 117, 119, 120, 121, 122, 123, 128, 129, 134, 139, 149, 151, 152, 155], "convent": [3, 22, 30, 46, 53, 70, 97, 149], "correspond": [3, 6, 12, 23, 25, 27, 30, 44, 47, 48, 53, 54, 55, 59, 67, 70, 77, 83, 87, 89, 92, 93, 96, 98, 101, 110, 111, 128, 130, 131, 136, 137, 138, 139, 140, 145, 149, 153, 154], "appli": [3, 4, 5, 6, 13, 16, 25, 30, 48, 51, 53, 64, 66, 70, 77, 79, 87, 89, 92, 99, 110, 127, 136, 139, 154], "comput": [3, 4, 5, 6, 13, 16, 17, 27, 29, 30, 32, 33, 39, 44, 47, 51, 53, 56, 58, 59, 60, 62, 68, 70, 76, 77, 79, 84, 86, 89, 91, 92, 93, 94, 99, 103, 105, 106, 108, 110, 113, 114, 118, 119, 123, 128, 132, 136, 138, 139, 140, 146, 149, 154, 157], "signatur": [3, 84, 87, 89, 90, 92, 97, 145], "hold": [3, 79, 103, 110], "current": [3, 5, 13, 14, 20, 22, 24, 27, 28, 29, 30, 32, 38, 39, 41, 44, 45, 48, 53, 54, 55, 56, 57, 58, 59, 60, 67, 68, 72, 77, 79, 89, 92, 93, 94, 99, 101, 104, 106, 110, 111, 118, 120, 121, 127, 131, 135, 136, 138, 139, 140, 145, 146, 149, 151, 153], "afteritem": [3, 27], "afterpatch": [3, 27], "There": [3, 6, 13, 22, 36, 40, 51, 54, 55, 62, 66, 70, 72, 79, 93, 100, 108, 120, 121, 135, 136, 146, 147, 154, 156], "than": [3, 5, 6, 13, 16, 18, 20, 22, 28, 29, 30, 32, 39, 44, 51, 54, 55, 56, 58, 59, 60, 62, 63, 64, 66, 69, 70, 72, 76, 79, 83, 84, 86, 89, 92, 93, 94, 96, 97, 99, 104, 105, 106, 110, 111, 113, 116, 117, 118, 119, 120, 121, 123, 124, 126, 127, 130, 131, 132, 135, 136, 137, 139, 145, 146, 148, 149, 151, 154, 157], "calcul": [3, 5, 6, 27, 30, 33, 45, 47, 67, 70, 77, 89, 97, 99, 114, 119, 151], "cd": [3, 13, 28, 35, 36, 37, 52, 54, 55, 57, 58, 79, 88, 91, 94, 100, 111, 147], "On": [3, 5, 13, 51, 71, 120, 130, 134, 154], "ylower": [3, 22, 27, 39, 84, 121, 138, 149, 151], "patchno": [3, 27], "out": [3, 16, 24, 26, 29, 30, 32, 35, 36, 39, 44, 45, 50, 52, 53, 54, 55, 56, 58, 59, 60, 61, 62, 67, 70, 77, 81, 83, 84, 86, 92, 93, 94, 95, 98, 103, 105, 106, 108, 111, 119, 121, 123, 124, 128, 130, 138, 140, 145, 151, 152], "lower": [3, 22, 30, 32, 33, 38, 53, 66, 72, 89, 94, 130, 132, 136, 138, 140, 149, 151, 153], "left": [3, 5, 10, 13, 16, 18, 25, 27, 32, 53, 72, 79, 89, 96, 97, 103, 120, 126, 127, 128, 131, 137, 149, 151, 153, 157], "corner": [3, 30, 32, 53, 70, 72, 89, 130, 136, 138, 140, 149, 151], "mappedgrid": [3, 67], "map": [3, 16, 29, 30, 39, 59, 66, 67, 77, 81, 84, 89, 91, 96, 110, 117, 121, 129, 151, 157], "mapc2p": [3, 25, 27, 67, 84, 89], "underli": [3, 51, 119], "other": [3, 4, 5, 6, 7, 9, 12, 13, 16, 20, 22, 27, 30, 35, 36, 38, 44, 45, 46, 48, 51, 52, 53, 55, 57, 58, 61, 62, 64, 66, 67, 68, 70, 71, 72, 76, 79, 80, 81, 83, 84, 86, 89, 91, 93, 95, 96, 97, 100, 103, 105, 106, 110, 111, 113, 114, 116, 117, 119, 128, 131, 134, 135, 136, 139, 141, 145, 149, 151, 153, 154, 155], "requir": [3, 4, 16, 20, 22, 25, 27, 30, 32, 35, 36, 40, 45, 47, 48, 55, 56, 58, 66, 67, 70, 73, 76, 79, 80, 83, 84, 89, 91, 92, 95, 96, 99, 100, 101, 103, 104, 110, 111, 113, 114, 117, 119, 122, 124, 128, 129, 130, 135, 136, 137, 138, 139, 140, 145, 146, 149, 152, 155, 157], "depend": [3, 13, 16, 28, 29, 30, 32, 35, 36, 40, 41, 46, 48, 51, 56, 57, 62, 64, 67, 70, 77, 82, 91, 92, 97, 98, 99, 104, 106, 110, 121, 132, 139, 151, 152, 154, 157], "summar": [3, 28, 31, 56, 110, 112, 154], "plotstyl": [3, 44, 77, 135], "anyth": [3, 6, 28, 29, 56, 58, 63, 111, 121], "valid": [3, 48, 70, 86, 93, 98, 101, 119, 139, 145, 146, 151], "fmt": 3, "group": [3, 13, 24, 28, 30, 48, 88, 92, 94, 102, 118, 128], "solid": [3, 16, 51, 70, 96, 135, 136, 138, 140], "dash": [3, 94], "o": [3, 5, 17, 38, 39, 40, 57, 66, 77, 80, 81, 84, 92, 93, 102, 105, 121, 138, 151, 154], "circl": [3, 47, 77], "bo": 3, "blue": [3, 11, 39, 44, 59, 66, 77, 130, 151], "though": [3, 39, 73, 145, 149], "color": [3, 30, 39, 51, 59, 66, 67, 76, 130, 135, 151], "also": [3, 4, 5, 6, 7, 8, 9, 11, 12, 16, 17, 18, 20, 22, 23, 24, 25, 28, 29, 30, 32, 33, 35, 36, 37, 38, 39, 41, 42, 44, 47, 48, 51, 52, 53, 54, 55, 56, 57, 58, 59, 62, 63, 66, 67, 68, 70, 71, 72, 73, 76, 77, 79, 83, 85, 86, 89, 91, 92, 93, 94, 96, 97, 98, 99, 100, 101, 102, 103, 104, 105, 106, 107, 108, 109, 110, 111, 113, 118, 119, 120, 121, 122, 123, 124, 125, 126, 127, 128, 129, 130, 131, 132, 134, 136, 138, 139, 140, 141, 143, 144, 145, 146, 147, 148, 149, 151, 152, 153, 154, 156, 157], "overrul": 3, "ani": [3, 4, 5, 6, 8, 13, 16, 18, 19, 20, 22, 27, 28, 29, 32, 35, 36, 37, 45, 48, 50, 51, 54, 55, 56, 58, 61, 62, 64, 66, 67, 69, 71, 72, 73, 77, 81, 87, 88, 89, 91, 92, 93, 94, 96, 98, 100, 104, 106, 109, 110, 111, 117, 121, 123, 127, 130, 131, 132, 135, 136, 137, 139, 145, 154, 157], "r": [3, 4, 6, 17, 44, 47, 52, 54, 66, 67, 69, 77, 83, 87, 94, 96, 128, 130, 135, 151, 157], "ff0000": [3, 59], "No": [3, 40, 51, 67, 89, 99, 128, 136, 139, 152], "extra": [3, 51, 129], "give": [3, 6, 9, 10, 13, 16, 24, 28, 30, 32, 33, 35, 36, 44, 52, 58, 59, 66, 70, 71, 72, 77, 79, 94, 95, 99, 111, 114, 118, 119, 123, 130, 136, 139, 149, 151, 153], "polygon": [3, 7, 38, 51, 59, 124, 151], "curv": [3, 44, 76, 130], "fill_between": 3, "describ": [3, 4, 5, 6, 7, 13, 14, 16, 19, 26, 28, 30, 31, 32, 35, 36, 38, 39, 44, 46, 47, 48, 51, 52, 54, 55, 59, 60, 62, 63, 66, 67, 70, 72, 73, 76, 77, 78, 89, 92, 98, 104, 108, 110, 111, 119, 122, 123, 128, 130, 131, 135, 136, 137, 139, 145, 146, 149, 151, 153, 154, 157], "abov": [3, 5, 13, 14, 16, 20, 28, 29, 32, 35, 36, 38, 39, 40, 41, 44, 48, 51, 53, 54, 55, 56, 58, 61, 63, 66, 70, 72, 77, 80, 81, 84, 93, 95, 100, 103, 104, 105, 110, 119, 121, 128, 130, 132, 134, 135, 136, 138, 139, 140, 145, 148, 149, 151, 154], "plot_var2": 3, "second": [3, 16, 30, 32, 36, 44, 47, 51, 55, 59, 67, 83, 89, 93, 99, 110, 113, 119, 127, 136, 139, 145, 147, 148, 151, 154, 157], "zero": [3, 16, 18, 30, 32, 39, 41, 59, 67, 83, 96, 97, 101, 103, 130, 131], "fill_wher": 3, "plotitem": [3, 27, 44, 77, 135], "mean": [3, 13, 22, 28, 32, 39, 44, 48, 52, 58, 67, 93, 94, 110, 128, 131, 136, 138, 140, 153], "map_2d_to_1d": 3, "In": [3, 5, 6, 8, 11, 12, 15, 16, 18, 19, 20, 22, 27, 30, 32, 38, 41, 44, 45, 48, 51, 52, 53, 54, 55, 56, 58, 59, 60, 62, 63, 66, 67, 68, 69, 70, 72, 77, 78, 79, 83, 84, 89, 92, 93, 94, 95, 96, 97, 99, 101, 104, 106, 107, 108, 110, 113, 114, 117, 118, 119, 121, 122, 127, 128, 130, 132, 133, 134, 136, 137, 139, 143, 144, 149, 151, 152, 154, 157], "about": [3, 5, 7, 13, 14, 16, 22, 25, 33, 35, 36, 40, 47, 48, 53, 55, 59, 62, 64, 67, 72, 78, 80, 83, 91, 94, 99, 106, 111, 118, 122, 124, 128, 135, 138, 139, 149, 152, 154, 157], "valu": [3, 5, 6, 7, 16, 20, 22, 27, 30, 33, 34, 35, 36, 38, 39, 41, 44, 45, 47, 49, 50, 51, 53, 59, 60, 62, 64, 66, 67, 70, 71, 72, 77, 84, 89, 91, 92, 93, 96, 97, 98, 99, 101, 103, 104, 110, 111, 113, 114, 116, 117, 119, 121, 123, 124, 127, 128, 130, 131, 132, 136, 137, 138, 139, 140, 145, 146, 149, 151, 152, 154, 157], "j": [3, 4, 5, 15, 17, 20, 22, 27, 39, 52, 59, 66, 67, 72, 79, 91, 92, 110, 113, 114, 132, 133], "v": [3, 16, 25, 29, 30, 32, 47, 60, 63, 111, 118, 137, 149], "radiu": [3, 139, 145, 146, 151], "q0_vs_radiu": 3, "convert": [3, 22, 25, 30, 33, 42, 47, 51, 56, 58, 59, 62, 70, 84, 96, 104, 105, 121, 124, 136, 137, 145, 149, 153], "numpi": [3, 13, 30, 32, 39, 47, 66, 80, 82, 83, 84, 86, 89, 96, 101, 102, 103, 105, 111, 129, 130, 138, 151, 152], "sqrt": [3, 32, 64, 83, 96, 97, 103, 138], "q0": [3, 96], "work": [3, 5, 8, 13, 16, 19, 20, 22, 24, 25, 26, 28, 29, 32, 35, 36, 40, 45, 48, 51, 52, 53, 54, 55, 56, 57, 58, 59, 66, 67, 69, 70, 71, 77, 80, 81, 82, 83, 85, 86, 87, 91, 92, 93, 94, 97, 99, 100, 105, 106, 108, 109, 110, 111, 115, 116, 117, 118, 119, 120, 121, 124, 126, 128, 135, 136, 137, 139, 141, 146, 149, 152, 156], "symbol": [3, 67, 106], "best": [3, 4, 16, 22, 26, 28, 41, 51, 53, 55, 62, 69, 71, 76, 77, 92, 96, 108, 109, 110, 111, 121, 126, 128, 139, 142, 145, 149, 154], "descript": [3, 4, 6, 9, 22, 23, 25, 30, 59, 67, 70, 73, 76, 92, 104, 108, 110, 128, 129, 139, 145, 149, 157], "celledges_show": [3, 22], "draw": 3, "amr_celledges_show": 3, "some": [3, 4, 5, 6, 7, 8, 10, 12, 16, 17, 18, 19, 20, 21, 22, 23, 24, 25, 27, 28, 30, 32, 35, 36, 39, 41, 42, 44, 45, 46, 48, 49, 51, 52, 53, 54, 55, 56, 58, 63, 66, 70, 71, 72, 76, 78, 79, 81, 84, 85, 87, 91, 92, 93, 95, 96, 98, 100, 101, 102, 103, 105, 106, 108, 109, 110, 111, 113, 114, 115, 116, 117, 118, 119, 120, 121, 122, 123, 124, 125, 126, 128, 130, 131, 132, 135, 136, 137, 138, 139, 140, 141, 145, 146, 148, 149, 151, 154], "level": [3, 6, 7, 16, 23, 27, 29, 32, 38, 39, 44, 45, 46, 47, 48, 51, 54, 55, 56, 58, 67, 71, 72, 84, 86, 89, 92, 93, 99, 106, 107, 110, 111, 113, 114, 118, 119, 121, 124, 127, 130, 131, 134, 136, 137, 138, 139, 140, 148, 149, 151, 153, 154], "patchedges_show": [3, 22], "mostli": [3, 76, 124], "contour_level": [3, 151], "three": [3, 13, 17, 22, 30, 32, 48, 51, 63, 67, 70, 94, 98, 104, 111, 130, 136, 139, 149, 151, 154], "contour_nlevel": 3, "contour_min": 3, "float": [3, 30, 32, 44, 47, 59, 86, 89, 97, 101, 104, 136, 137, 139, 140, 145, 151], "minimum": [3, 32, 44, 51, 70, 103, 119, 139, 151], "contour_max": 3, "maximum": [3, 22, 30, 32, 33, 34, 45, 67, 99, 103, 110, 113, 114, 121, 124, 136, 137, 138, 140, 145, 146], "contour_color": 3, "specif": [3, 5, 12, 22, 28, 30, 44, 45, 47, 51, 52, 58, 61, 63, 64, 81, 82, 84, 86, 91, 92, 93, 97, 98, 104, 108, 119, 120, 121, 124, 135, 136, 137, 138, 140, 146, 149], "b": [3, 5, 17, 28, 30, 32, 33, 39, 44, 52, 54, 55, 64, 77, 99, 110, 117, 124, 130, 131, 132, 139, 151, 153], "0000ff": [3, 59], "colormap": [3, 30, 39, 46, 51, 66, 67, 76, 78, 118, 124, 151], "amr_contour_color": 3, "As": [3, 36, 39, 45, 48, 54, 55, 59, 83, 103, 105, 109, 113, 124, 128, 129, 132, 147, 154], "instead": [3, 13, 32, 35, 36, 39, 41, 44, 52, 54, 55, 57, 58, 62, 63, 68, 100, 101, 104, 106, 118, 119, 122, 127, 128, 129, 130, 134, 149, 151], "black": [3, 44], "subsequ": [3, 10, 67], "both": [3, 16, 28, 30, 33, 35, 36, 38, 39, 44, 48, 53, 63, 66, 67, 70, 72, 84, 92, 93, 94, 99, 100, 110, 111, 117, 118, 121, 124, 128, 129, 130, 132, 136, 138, 140, 143, 149, 154], "fine": [3, 18, 32, 33, 39, 54, 69, 73, 96, 110, 119, 130, 132, 136, 139, 149, 154], "coars": [3, 18, 32, 51, 110, 119, 136, 149, 154], "anoth": [3, 22, 39, 44, 51, 55, 57, 58, 59, 72, 76, 80, 88, 99, 102, 111, 121, 145, 154], "refin": [3, 4, 5, 7, 8, 17, 22, 45, 48, 51, 52, 53, 66, 67, 72, 73, 83, 119, 121, 122, 124, 130, 132, 135, 136, 137, 138, 148, 149, 154], "region": [3, 6, 7, 13, 16, 22, 32, 38, 39, 45, 48, 49, 51, 59, 64, 70, 73, 108, 121, 124, 131, 132, 137, 138, 149, 151], "lack": 3, "hidden": [3, 62, 77], "blank": [3, 59, 145], "coarser": [3, 16, 53, 119, 132, 136, 137, 154], "easili": [3, 13, 28, 32, 51, 54, 67, 77, 84, 89, 100, 104, 105, 111, 124, 141], "contour_show": 3, "boolean": [3, 51, 66, 92, 97, 136, 137, 139], "most": [3, 20, 22, 27, 29, 32, 35, 36, 40, 41, 44, 48, 50, 51, 52, 53, 54, 57, 59, 62, 66, 67, 71, 73, 76, 77, 79, 81, 89, 93, 94, 99, 102, 103, 105, 110, 111, 118, 120, 126, 127, 128, 129, 130, 131, 135, 136, 137, 139, 142, 154], "commonli": [3, 67, 77, 79], "amr_contour_show": 3, "tupl": [3, 30, 47, 59, 70, 77, 89, 93, 151], "determin": [3, 5, 6, 30, 32, 39, 44, 45, 48, 50, 51, 54, 59, 70, 77, 87, 89, 92, 97, 101, 106, 110, 114, 118, 119, 127, 130, 131, 135, 136, 137, 139, 151, 154], "whether": [3, 6, 13, 16, 22, 47, 53, 60, 61, 62, 67, 81, 89, 92, 93, 97, 98, 99, 110, 111, 119, 128, 130, 136, 137, 139, 151], "view": [3, 4, 22, 35, 36, 44, 45, 51, 53, 54, 59, 72, 76, 78, 79, 83, 94, 100, 105, 117, 121, 141, 142], "finest": [3, 32, 39, 44, 121, 148, 151], "contour_kwarg": [3, 151], "pcolor_cmap": [3, 51], "pcolor_cmin": 3, "pcolor_cmax": 3, "rang": [3, 5, 13, 30, 44, 47, 51, 110, 113, 118, 129, 130], "thei": [3, 5, 6, 13, 16, 24, 27, 28, 30, 32, 38, 39, 44, 48, 51, 54, 55, 58, 59, 60, 63, 66, 67, 72, 76, 89, 96, 99, 104, 110, 111, 119, 132, 135, 139, 145, 149, 151, 154], "chosen": [3, 18, 29, 32, 38, 39, 51, 53, 66, 103, 110, 131, 137], "vari": [3, 15, 17, 25, 30, 39, 45, 53, 64, 96, 98, 117, 124, 128, 129, 131, 133, 157], "yield": 3, "veri": [3, 5, 16, 22, 48, 51, 55, 58, 59, 70, 77, 81, 84, 92, 93, 94, 95, 96, 99, 111, 114, 118, 130, 132, 136, 146, 149], "confus": [3, 53, 58, 106, 128], "pcolor_colorbar": 3, "colorbar": [3, 39, 59, 66, 121, 124, 130, 151], "ad": [3, 12, 16, 20, 22, 24, 25, 27, 29, 32, 34, 41, 44, 47, 53, 54, 55, 58, 59, 60, 64, 67, 70, 77, 82, 84, 87, 89, 90, 93, 94, 106, 107, 108, 110, 113, 114, 115, 116, 117, 118, 119, 120, 121, 122, 123, 124, 125, 127, 132, 136, 137, 139, 145, 148, 151, 155], "relat": [3, 7, 18, 22, 24, 54, 73, 97, 108, 120, 124, 131], "same": [3, 5, 6, 8, 13, 16, 22, 25, 28, 31, 32, 39, 41, 44, 46, 47, 48, 51, 53, 55, 58, 59, 60, 62, 64, 66, 68, 70, 73, 76, 77, 78, 79, 83, 87, 89, 91, 92, 93, 96, 97, 99, 104, 105, 113, 114, 118, 119, 124, 127, 128, 130, 136, 137, 138, 139, 143, 149, 151, 154], "pre": [3, 13, 33, 55, 85, 92, 105], "pend": 3, "amr_": [3, 7], "whose": [3, 77, 84, 96, 97, 132, 136, 137, 151], "origin": [3, 6, 13, 16, 20, 28, 30, 34, 44, 52, 54, 66, 71, 72, 84, 99, 104, 113, 119, 127, 137, 138, 140, 151], "hand": [3, 5, 18, 19, 20, 64, 83, 111, 130], "higher": [3, 6, 32, 51, 89, 99, 100, 110, 124, 128, 130, 131, 132], "shorter": [3, 110, 151], "last": [3, 18, 27, 32, 55, 77, 83, 84, 96, 103, 118, 136, 145], "repeatedli": [3, 94, 100], "common": [3, 23, 28, 35, 36, 40, 41, 62, 63, 73, 76, 83, 97, 99, 101, 102, 119, 121, 124, 152, 154], "finer": [3, 7, 32, 51, 110, 113, 114, 130, 136, 137], "celledg": 3, "stand": [4, 18], "conserv": [4, 5, 6, 17, 93, 99, 101, 122, 129, 154, 157], "law": [4, 17, 59, 139, 157], "packag": [4, 25, 28, 29, 35, 36, 51, 55, 56, 57, 63, 73, 76, 80, 81, 83, 89, 91, 93, 95, 96, 98, 100, 103, 105, 106, 123, 124, 152, 155], "wa": [4, 5, 6, 14, 19, 20, 25, 29, 30, 32, 33, 39, 48, 50, 54, 55, 62, 64, 66, 67, 70, 77, 94, 98, 99, 101, 110, 111, 112, 113, 114, 115, 116, 117, 118, 119, 120, 121, 122, 123, 124, 125, 127, 130, 132, 139, 148, 149, 151], "initi": [4, 5, 7, 12, 13, 18, 22, 25, 30, 44, 45, 47, 48, 51, 55, 60, 63, 67, 70, 73, 79, 81, 82, 83, 84, 86, 87, 89, 90, 92, 93, 97, 98, 99, 101, 102, 104, 107, 110, 118, 121, 124, 128, 131, 136, 138, 139, 140, 145, 149, 151], "develop": [4, 6, 7, 12, 13, 18, 22, 23, 48, 52, 54, 57, 58, 61, 66, 67, 76, 80, 81, 84, 91, 96, 99, 100, 106, 108, 111, 121, 122, 124, 128, 131, 132, 138], "linear": [4, 5, 17, 30, 32, 51, 70, 77, 83, 87, 99, 122, 128, 129, 130], "nonlinear": [4, 5, 17, 48, 87, 128, 136, 157], "hyperbol": [4, 5, 6, 17, 42, 73, 84, 91, 96, 97, 103, 128, 136, 139, 154, 157], "system": [4, 16, 17, 23, 36, 37, 51, 52, 56, 58, 59, 63, 71, 72, 81, 91, 93, 94, 96, 97, 100, 103, 106, 111, 128, 136, 138, 140, 147, 154, 157], "focu": [4, 45], "high": [4, 17, 32, 48, 51, 66, 70, 73, 84, 91, 99, 128, 131, 132, 139, 153, 154], "resolut": [4, 6, 17, 30, 32, 39, 44, 70, 89, 99, 103, 104, 113, 117, 121, 122, 128, 131, 139, 149, 151, 153, 154], "godunov": [4, 89, 99, 136, 138, 140, 154], "method": [4, 5, 7, 17, 32, 38, 42, 44, 53, 66, 77, 79, 83, 86, 87, 89, 94, 98, 99, 104, 110, 111, 117, 128, 135, 136, 137, 138, 140, 145, 148, 149, 151, 154], "framework": [4, 55, 81, 84, 118, 119], "applic": [4, 6, 15, 16, 19, 20, 22, 23, 24, 28, 29, 32, 35, 36, 37, 41, 42, 45, 46, 55, 56, 58, 63, 66, 68, 71, 79, 88, 89, 90, 91, 93, 99, 104, 107, 109, 110, 111, 113, 116, 117, 119, 120, 121, 123, 124, 128, 130, 132, 133, 136, 139, 143, 144, 149, 151, 152, 154, 155], "finit": [4, 17, 32, 42, 53, 59, 66, 67, 70, 99, 124, 130, 148, 149, 154], "volum": [4, 17, 29, 32, 42, 53, 59, 66, 67, 91, 124, 130, 137, 148, 149, 154], "riemann": [4, 5, 8, 20, 22, 23, 28, 29, 45, 55, 56, 58, 63, 73, 81, 83, 89, 90, 99, 100, 101, 103, 106, 134, 136, 138, 140, 143, 144, 157], "solver": [4, 5, 6, 20, 22, 23, 25, 28, 45, 56, 58, 63, 81, 82, 86, 89, 90, 93, 101, 115, 117, 119, 120, 121, 122, 123, 124, 136, 138, 140, 143, 144, 157], "resolv": [4, 32, 51, 54, 108, 121, 132], "jump": [4, 5, 67, 79, 89, 99, 119, 136, 157], "discontinu": [4, 99, 157], "interfac": [4, 19, 22, 67, 81, 84, 87, 91, 92, 97, 99, 104, 128, 154, 155, 157], "grid": [4, 7, 17, 18, 19, 20, 22, 23, 25, 27, 28, 33, 38, 39, 44, 45, 46, 48, 51, 52, 59, 66, 67, 72, 73, 76, 81, 83, 91, 93, 94, 96, 97, 98, 99, 101, 103, 110, 111, 113, 114, 116, 117, 119, 120, 121, 124, 128, 129, 130, 131, 132, 136, 137, 138, 140, 146, 148, 149, 151, 153, 154, 157], "wave": [4, 5, 6, 16, 17, 25, 32, 39, 48, 51, 52, 70, 87, 89, 91, 96, 97, 99, 110, 117, 119, 120, 129, 130, 131, 136, 137, 138, 139, 140, 154], "propag": [4, 5, 6, 17, 25, 30, 48, 51, 52, 70, 89, 91, 99, 110, 119, 128], "neighbor": [4, 32, 39, 66, 110, 119, 132, 137, 138, 151], "formul": [4, 5, 48, 64, 128, 136], "allow": [4, 6, 13, 22, 27, 28, 29, 32, 38, 39, 44, 45, 47, 50, 51, 53, 54, 56, 58, 64, 66, 67, 70, 71, 73, 76, 77, 86, 92, 93, 99, 101, 104, 105, 106, 110, 111, 113, 114, 117, 118, 119, 120, 121, 123, 124, 128, 130, 136, 138, 139, 140, 141, 145, 149, 151, 153], "easi": [4, 6, 11, 29, 38, 58, 67, 80, 84, 93, 94, 95, 130, 141, 154], "extens": [4, 17, 22, 24, 28, 30, 48, 51, 54, 58, 63, 67, 84, 91, 92, 104, 119, 120, 136, 147, 151, 157], "problem": [4, 5, 7, 16, 17, 18, 20, 24, 25, 27, 28, 29, 35, 36, 39, 42, 45, 58, 62, 66, 67, 70, 73, 77, 80, 82, 83, 88, 90, 91, 94, 97, 99, 102, 106, 111, 113, 114, 116, 117, 120, 124, 128, 130, 132, 136, 138, 139, 140, 141, 148, 152], "algorithm": [4, 7, 25, 32, 38, 39, 45, 52, 83, 89, 91, 92, 99, 103, 110, 121, 128, 130, 136, 138, 140, 151], "brief": [4, 55, 129, 139], "subroutin": [4, 6, 9, 16, 22, 32, 63, 110, 117, 128, 136, 137, 148, 154, 157], "equat": [4, 5, 16, 17, 25, 35, 36, 45, 48, 60, 64, 77, 82, 83, 84, 86, 91, 92, 93, 96, 99, 100, 101, 114, 117, 119, 121, 122, 128, 136, 138, 139, 140, 149, 154, 157], "solv": [4, 5, 8, 16, 17, 20, 26, 35, 36, 48, 58, 60, 82, 84, 86, 89, 91, 96, 97, 100, 122, 128, 129, 136, 149, 154, 157], "adapt": [4, 7, 17, 30, 39, 52, 53, 66, 67, 73, 83, 110, 121, 124, 128, 130, 135, 136, 154], "mesh": [4, 7, 17, 33, 52, 66, 67, 73, 76, 83, 110, 124, 135, 136, 154], "includ": [4, 6, 13, 18, 21, 22, 23, 27, 28, 29, 30, 32, 35, 36, 38, 40, 41, 44, 48, 51, 53, 55, 56, 58, 59, 61, 63, 64, 66, 67, 68, 70, 71, 73, 76, 77, 79, 81, 83, 84, 88, 89, 91, 92, 93, 94, 95, 96, 97, 98, 99, 100, 101, 103, 105, 106, 108, 110, 111, 113, 119, 120, 121, 122, 123, 124, 125, 128, 129, 130, 136, 138, 139, 141, 142, 145, 146, 148, 149, 151, 154], "amrclaw": [4, 5, 6, 12, 15, 16, 19, 20, 22, 23, 24, 28, 36, 38, 39, 41, 44, 45, 46, 52, 55, 56, 57, 58, 60, 66, 67, 68, 71, 72, 73, 100, 106, 107, 110, 111, 127, 128, 130, 133, 134, 136, 139, 143, 144, 147, 148, 152], "detail": [4, 5, 10, 16, 22, 23, 25, 26, 28, 29, 30, 32, 35, 36, 38, 41, 46, 48, 51, 54, 56, 57, 58, 61, 62, 66, 67, 70, 73, 77, 81, 86, 87, 88, 89, 92, 93, 94, 95, 96, 97, 99, 109, 110, 111, 114, 119, 121, 128, 130, 135, 136, 139, 141, 145, 149, 152, 153, 154, 157], "content": [4, 6, 23, 51, 55, 73, 84, 139, 149, 154, 155], "routin": [4, 5, 6, 16, 20, 25, 27, 30, 32, 35, 36, 44, 45, 46, 51, 52, 62, 67, 68, 71, 72, 73, 76, 79, 81, 84, 86, 89, 92, 95, 96, 99, 101, 102, 105, 110, 113, 114, 117, 119, 121, 122, 124, 128, 132, 136, 138, 140, 145, 151, 152, 154, 155, 157], "special": [4, 7, 16, 45, 46, 51, 61, 73, 81, 105, 110, 130, 151], "depth": [4, 5, 16, 17, 22, 30, 32, 33, 39, 44, 45, 48, 64, 70, 76, 78, 129, 131, 132, 139, 149], "averag": [4, 6, 15, 17, 32, 39, 45, 48, 49, 53, 67, 97, 101, 114, 128, 132, 133, 149, 151, 154], "geophys": [4, 16, 17, 23, 45, 48, 73, 136], "flow": [4, 16, 17, 23, 32, 33, 45, 46, 48, 91, 108, 124, 128, 136, 139, 149, 154], "geoclaw": [4, 7, 12, 17, 23, 24, 28, 30, 32, 33, 34, 36, 38, 41, 44, 52, 53, 55, 56, 57, 58, 59, 60, 64, 66, 68, 70, 73, 76, 100, 106, 108, 109, 111, 127, 128, 129, 131, 132, 134, 136, 137, 145, 146, 147, 148, 149, 150, 151, 152, 153, 154], "parallel": [4, 22, 23, 44, 56, 71, 82, 88, 90, 91, 93, 96, 98, 100, 104, 110, 111, 119], "scale": [4, 30, 49, 51, 67, 73, 91, 92, 113, 119, 121, 139], "ten": [4, 73], "thousand": [4, 73], "core": [4, 12, 73, 111, 121], "wish": [4, 13, 14, 15, 22, 29, 35, 36, 48, 51, 56, 58, 67, 75, 76, 91, 96, 99, 100, 102, 106, 108, 110, 119, 133, 141, 143, 144, 152], "discrib": 4, "book": [4, 12, 17, 25, 29, 80, 98, 105, 128], "levequ": [4, 16, 17, 24, 30, 52, 73, 87, 89, 91, 99, 105, 128, 136, 154, 157], "fvmhp": [4, 12, 16, 17, 25, 73, 128, 136, 154, 157], "virtual": [4, 13, 25, 27, 101, 105], "were": [4, 6, 14, 18, 20, 32, 44, 54, 60, 63, 67, 68, 84, 110, 113, 119, 122, 130, 132, 149], "4": [4, 7, 8, 9, 13, 16, 17, 23, 25, 28, 30, 32, 33, 34, 36, 38, 39, 41, 42, 44, 45, 48, 51, 53, 54, 55, 62, 63, 64, 66, 67, 71, 76, 77, 79, 80, 90, 91, 92, 93, 94, 96, 97, 99, 100, 104, 106, 110, 111, 113, 118, 121, 127, 130, 136, 137, 138, 139, 140, 147, 148, 149, 151, 156], "3": [4, 6, 7, 15, 16, 20, 22, 24, 25, 30, 32, 33, 36, 38, 42, 44, 45, 51, 53, 55, 57, 58, 59, 64, 67, 70, 77, 79, 80, 83, 86, 87, 89, 92, 93, 94, 97, 98, 99, 101, 105, 106, 110, 119, 121, 124, 126, 128, 130, 133, 136, 137, 138, 139, 140, 147, 148, 149, 151, 154, 157], "pointer": [4, 16, 54, 70, 76, 79, 99, 104, 117], "code": [4, 5, 6, 7, 8, 12, 14, 16, 19, 20, 21, 22, 23, 24, 27, 29, 32, 33, 35, 36, 38, 40, 41, 42, 44, 45, 48, 50, 52, 53, 54, 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89, 92, 94, 105, 106, 118, 120, 122, 151], "doi": [4, 17, 52, 55, 57, 124, 125, 126], "10": [4, 17, 30, 32, 39, 51, 52, 53, 55, 77, 83, 86, 89, 110, 118, 119, 121, 124, 125, 126, 130, 136, 137, 138, 140, 149], "5281": [4, 55, 124, 125, 126], "zenodo": [4, 57, 124, 125, 126], "4025432": [4, 125, 126], "here": [4, 13, 16, 29, 38, 39, 48, 55, 58, 59, 66, 73, 77, 79, 83, 86, 91, 92, 94, 96, 97, 102, 103, 106, 108, 110, 117, 128, 129, 130, 146, 151, 157], "bibtex": [4, 55], "misc": [4, 123, 125], "url": [4, 12, 17, 51, 55, 121, 122, 149, 151], "year": [4, 17, 22, 51, 59, 91, 112, 122, 145], "appropri": [4, 5, 6, 13, 16, 24, 28, 45, 48, 49, 51, 55, 56, 58, 59, 60, 64, 67, 68, 69, 71, 83, 86, 87, 88, 92, 94, 95, 96, 97, 98, 111, 123, 128, 131, 134, 136, 145, 154, 157], "releas": [4, 18, 22, 25, 28, 29, 43, 51, 56, 57, 58, 85, 91, 99, 100, 105], "refer": [4, 5, 20, 30, 32, 33, 35, 36, 38, 45, 46, 51, 62, 63, 67, 70, 83, 87, 89, 92, 93, 97, 99, 101, 106, 108, 121, 123, 127, 128, 130, 139, 145, 149, 151, 153, 154], "particular": [4, 6, 12, 20, 22, 28, 30, 32, 41, 44, 45, 46, 48, 51, 52, 55, 56, 61, 62, 63, 67, 77, 78, 80, 81, 83, 97, 98, 99, 101, 103, 108, 109, 110, 111, 114, 117, 118, 119, 120, 121, 123, 124, 135, 139, 145, 146, 157], "obtain": [4, 6, 12, 18, 32, 44, 46, 48, 58, 59, 92, 93, 94, 110, 128, 132, 139, 141, 149, 157], "your": [4, 6, 15, 16, 19, 20, 24, 25, 26, 35, 37, 41, 44, 53, 54, 55, 56, 57, 58, 68, 71, 76, 77, 79, 81, 82, 83, 84, 85, 88, 90, 91, 92, 93, 102, 103, 105, 106, 107, 108, 110, 111, 113, 121, 128, 133, 134, 143, 144, 149, 152, 154], "multipl": [4, 5, 6, 13, 23, 28, 32, 33, 39, 44, 56, 76, 83, 89, 92, 93, 104, 106, 111, 113, 119, 123, 127, 128, 145, 146], "past": [4, 21, 25, 54, 60, 66, 98, 119, 122, 126, 130, 131, 139], "17605": [4, 126], "osf": [4, 126], "io": [4, 54, 80, 93, 98, 126], "kmw6h": [4, 126], "recent": [4, 13, 22, 27, 30, 50, 54, 57, 62, 64, 71, 77, 79, 80, 118, 122, 123, 124, 125, 126, 128, 153], "articl": [4, 17, 91, 141], "m": [4, 17, 20, 22, 28, 30, 44, 47, 51, 52, 54, 55, 59, 66, 67, 70, 72, 84, 110, 116, 128, 130, 139, 151, 154, 157], "d": [4, 7, 17, 28, 30, 47, 51, 59, 88, 97, 106, 111, 128], "l": [4, 7, 17, 32, 40, 110, 128, 134, 138], "hadjimichael": [4, 17, 81], "2016": [4, 17, 24, 54], "build": [4, 17, 28, 29, 54, 55, 67, 84, 94, 104, 120, 130], "open": [4, 13, 17, 25, 28, 29, 30, 51, 59, 76, 81, 85, 89, 92, 104, 130, 134, 153, 155], "sourc": [4, 17, 23, 25, 28, 30, 41, 45, 51, 52, 54, 55, 56, 57, 58, 59, 61, 63, 64, 76, 81, 84, 88, 89, 90, 99, 100, 102, 103, 104, 108, 109, 111, 119, 120, 121, 129, 131, 136, 138, 139, 140, 142, 143, 144, 145, 149], "ecosystem": [4, 17], "pde": [4, 5, 17, 73, 91, 103, 136, 154], "peerj": [4, 17], "scienc": [4, 17, 81], "7717": [4, 17], "c": [4, 16, 17, 28, 29, 30, 41, 51, 57, 59, 61, 77, 81, 83, 84, 89, 91, 97, 102, 103, 128], "68": [4, 17], "mandli2016clawpack": [4, 17], "yianni": [4, 17, 81], "journal": [4, 17, 52, 91, 141], "e68": [4, 17], "publish": [4, 17, 54, 91], 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34, 38, 44, 45, 52, 59, 67, 72, 73, 76, 81, 89, 118, 120, 121, 122, 124, 132, 135, 136, 138, 140, 148, 154], "bergerleveque98": [4, 6, 7, 17], "f": [4, 5, 6, 16, 20, 22, 25, 27, 28, 31, 62, 63, 68, 72, 84, 86, 92, 93, 96, 97, 99, 101, 102, 104, 113, 117, 120, 121, 122, 129, 136, 137, 138, 140, 151, 152, 154], "balelevmitross02": [4, 17, 136, 157], "bergergeorgelevequemandli11": [4, 17], "levequegeorgeberg": [4, 17], "order": [4, 5, 6, 13, 16, 17, 29, 30, 32, 48, 53, 56, 58, 63, 66, 67, 70, 72, 73, 77, 79, 80, 81, 83, 86, 87, 89, 91, 92, 93, 95, 96, 99, 103, 104, 105, 106, 110, 117, 121, 128, 130, 132, 135, 136, 137, 138, 140, 145, 149, 151, 152, 154, 157], "sharpclaw": [4, 23, 25, 73, 81, 88, 90, 91, 96, 113, 128], "ketparlev13": [4, 17, 73, 91, 128], "ketchesonmandliet": [4, 17], "support": [4, 8, 13, 22, 38, 41, 48, 51, 58, 70, 81, 83, 84, 89, 92, 93, 95, 97, 99, 110, 117, 119, 120, 121, 122, 128, 130, 136, 145, 146, 149, 152, 155], "part": [4, 5, 22, 24, 30, 45, 48, 56, 58, 59, 60, 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32, 35, 36, 39, 44, 53, 58, 60, 66, 70, 71, 77, 79, 83, 89, 93, 101, 102, 105, 106, 117, 130, 132, 137, 138, 139, 140, 151, 154], "sharpli": 5, "peak": 5, "gaussian": [5, 83, 103, 140], "locat": [5, 6, 7, 13, 30, 32, 46, 47, 51, 53, 55, 58, 60, 67, 72, 89, 93, 95, 97, 98, 104, 106, 108, 110, 118, 120, 131, 132, 145, 146, 151], "final": [5, 30, 41, 54, 60, 67, 70, 83, 86, 93, 103, 108, 113, 127, 129, 136, 138, 140, 151], "necessari": [5, 6, 13, 35, 36, 46, 48, 51, 54, 55, 56, 57, 58, 59, 67, 70, 72, 73, 79, 83, 84, 89, 92, 117, 119, 121, 127, 128, 135, 136, 149, 152, 154], "place": [5, 16, 20, 24, 28, 35, 36, 51, 54, 56, 58, 62, 63, 69, 93, 94, 96, 100, 106, 113, 119, 154], "earlier": [5, 20, 22, 30, 32, 38, 53, 70, 83, 96, 113, 120, 149, 151], "help": [5, 7, 9, 23, 24, 25, 28, 29, 39, 40, 49, 54, 58, 62, 76, 79, 91, 94, 100, 104, 111, 118, 124, 128, 141, 152], "identifi": [5, 35, 36, 39, 51, 66, 84, 110, 124, 145], "hat": 5, "given": [5, 30, 39, 47, 51, 53, 59, 64, 67, 70, 87, 94, 98, 99, 101, 104, 110, 130, 131, 132, 139, 149, 151, 154], "t_r": 5, "reach": [5, 110], "claw": [5, 6, 8, 11, 12, 13, 14, 15, 16, 19, 20, 22, 24, 28, 30, 32, 33, 35, 36, 37, 38, 40, 41, 44, 45, 47, 49, 50, 52, 54, 55, 56, 57, 58, 59, 62, 63, 67, 69, 70, 71, 78, 83, 86, 88, 91, 92, 93, 94, 100, 102, 106, 107, 108, 109, 110, 111, 113, 114, 116, 117, 120, 121, 123, 128, 132, 133, 138, 139, 140, 142, 143, 144, 147, 148, 149, 151, 152, 154, 155], "acoustics_1d_adjoint": 5, "acoustics_2d_adjoint": 5, "main": [5, 11, 12, 19, 28, 39, 54, 55, 66, 67, 73, 84, 86, 92, 96, 103, 104, 111, 120], "subdirectori": [5, 12, 20, 22, 23, 35, 36, 54, 55, 58, 62, 69, 79, 88, 93, 106, 111, 135, 139, 141, 147, 151], "must": [5, 6, 13, 16, 20, 22, 28, 30, 32, 39, 46, 51, 54, 61, 62, 63, 66, 67, 70, 71, 72, 81, 84, 92, 93, 96, 98, 99, 101, 102, 103, 104, 106, 110, 113, 117, 128, 130, 131, 132, 136, 138, 139, 140, 145, 151, 152, 153, 154, 157], "makefil": [5, 6, 11, 14, 15, 16, 19, 20, 23, 25, 28, 35, 36, 41, 54, 56, 58, 68, 71, 73, 77, 79, 84, 90, 110, 113, 117, 119, 121, 122, 124, 132, 133, 136, 138, 139, 140, 141, 143, 144, 149, 152, 154], "coeffici": [5, 64, 96, 97, 99, 101, 102, 103, 128, 139], "matric": [5, 128, 157], "transpos": 5, "vice": 5, "versa": 5, "q_t": [5, 96, 97, 99, 103, 154, 157], "q_x": [5, 97, 103, 157], "_x": [5, 39, 66, 97, 99, 151, 154, 157], "eigenvalu": 5, "unchang": [5, 67], "upon": [5, 101], "transform": [5, 41], "eigenvector": [5, 128, 157], "now": [5, 6, 7, 13, 18, 20, 22, 24, 26, 28, 29, 30, 32, 33, 38, 39, 41, 50, 53, 54, 55, 60, 64, 66, 70, 72, 77, 80, 83, 84, 89, 91, 92, 93, 94, 95, 96, 98, 99, 100, 103, 108, 110, 111, 113, 114, 117, 118, 119, 120, 121, 123, 124, 131, 135, 139, 141, 149, 156], "right": [5, 32, 61, 64, 70, 81, 89, 94, 96, 97, 101, 103, 127, 128, 130, 157], "src": [5, 6, 11, 14, 15, 16, 18, 19, 20, 28, 30, 32, 33, 39, 40, 41, 47, 50, 52, 55, 56, 58, 59, 62, 63, 67, 70, 71, 78, 95, 96, 104, 106, 107, 110, 111, 114, 117, 118, 120, 121, 122, 123, 124, 128, 132, 133, 136, 138, 140, 143, 151, 152, 157], "rp1_acoustics_variable_adjoint": 5, "f90": [5, 9, 15, 18, 20, 31, 32, 39, 44, 52, 62, 63, 71, 80, 96, 107, 110, 113, 117, 119, 121, 122, 123, 124, 128, 129, 132, 133, 143, 144, 149, 152, 154], "boundari": [5, 7, 20, 25, 39, 51, 59, 63, 66, 70, 71, 84, 89, 97, 99, 103, 108, 114, 117, 121, 130, 136, 138, 140], "condit": [5, 7, 20, 25, 61, 63, 73, 81, 82, 83, 84, 86, 93, 99, 107, 113, 114, 117, 121, 131, 136, 138, 139, 140], "adjust": [5, 13, 20, 32, 33, 45, 59, 89, 93, 131, 136, 154], "principl": [5, 151, 154], "vanish": 5, "dure": [5, 22, 32, 39, 44, 59, 70, 73, 113, 131, 132, 138, 139, 140, 149], "integr": [5, 22, 53, 60, 81, 91, 93, 99, 113, 114, 118, 138, 140, 148, 149, 154], "qinit": [5, 20, 22, 39, 45, 62, 63, 84, 131, 132, 154], "setrun": [5, 6, 7, 8, 14, 16, 19, 20, 25, 32, 33, 35, 36, 38, 39, 40, 42, 45, 46, 48, 59, 60, 62, 64, 66, 72, 73, 77, 107, 108, 110, 113, 117, 118, 119, 122, 124, 127, 128, 131, 132, 145, 149, 152, 154], "clawdata": [5, 38, 113, 117, 127, 136, 137, 138, 139, 140], "tfinal": [5, 83, 86, 103, 127, 136, 138, 140], "via": [5, 13, 22, 23, 24, 28, 29, 30, 35, 36, 41, 42, 44, 46, 48, 51, 54, 55, 56, 57, 58, 60, 62, 66, 67, 70, 71, 73, 77, 80, 83, 89, 92, 95, 98, 100, 102, 106, 110, 111, 121, 124, 128, 130, 134, 141, 143, 144, 149, 151, 154], "num_output_tim": [5, 83, 86, 93, 127, 136, 138, 140], "larg": [5, 6, 12, 20, 35, 36, 39, 48, 51, 53, 54, 67, 71, 76, 91, 93, 94, 110, 111, 118, 127, 130, 132, 136, 151, 153], "frequent": [5, 20, 27, 102, 118], "enough": [5, 54, 66, 146, 148, 149], "them": [5, 13, 18, 22, 28, 29, 30, 32, 44, 51, 54, 56, 67, 68, 73, 81, 83, 88, 92, 93, 94, 96, 104, 108, 111, 114, 123, 130, 142, 145, 151, 154], "reason": [5, 48, 51, 59, 70, 71, 73, 94, 96, 110, 136], "output_format": [5, 86, 93, 136, 138, 140], "binari": [5, 41, 55, 57, 61, 68, 81, 92, 93, 95, 118, 127, 136, 138, 151, 155], "so": [5, 6, 8, 9, 13, 16, 18, 19, 22, 27, 28, 29, 30, 32, 33, 35, 36, 38, 39, 40, 41, 42, 44, 48, 49, 51, 52, 53, 54, 55, 56, 58, 59, 60, 62, 63, 66, 67, 70, 71, 72, 73, 76, 77, 80, 83, 84, 85, 92, 93, 96, 101, 103, 104, 108, 110, 111, 113, 114, 118, 119, 120, 121, 122, 123, 124, 128, 130, 131, 132, 135, 136, 137, 138, 145, 148, 149, 151, 153, 154, 155], "manner": [5, 39, 44, 51, 60, 66, 70, 76, 121, 132, 136, 143, 144, 149], "v5": [5, 14, 29, 32, 38, 52, 54, 55, 56, 57, 58, 63, 98, 105, 106, 110, 126, 131, 132], "attribut": [5, 7, 22, 30, 38, 44, 66, 70, 76, 78, 79, 83, 86, 89, 92, 94, 96, 98, 99, 110, 113, 118, 122, 127, 135, 136, 137, 139, 145, 151], "clawutil": [5, 11, 14, 19, 20, 23, 28, 40, 41, 50, 55, 57, 62, 106, 111, 134, 136, 137, 138, 140, 151, 152], "clawrundata": [5, 44, 59, 122, 127, 136, 137, 138, 140], "adjointdata": [5, 122, 123], "ia": 5, "attribur": 5, "toler": [5, 32, 97, 104, 110, 111, 119, 137, 138, 139], "rundata": [5, 22, 32, 38, 39, 44, 59, 60, 110, 113, 124, 127, 132, 136, 137, 138, 139, 140], "use_adjoint": 5, "adjoint_outdir": 5, "abspath": [5, 38], "_output": [5, 13, 14, 32, 35, 36, 44, 50, 60, 67, 77, 79, 88, 93, 95, 98, 118, 125, 152], "period": [5, 6, 16, 32, 62, 83, 96, 110, 136, 138, 140], "t1": [5, 38, 44, 59, 60, 110, 137, 138, 139], "t0": [5, 127, 136, 138, 139, 140, 149], "t2": [5, 38, 44, 59, 60, 110, 137, 138, 139], "addit": [5, 7, 13, 16, 23, 24, 25, 28, 29, 32, 36, 37, 38, 45, 46, 56, 58, 59, 66, 70, 72, 73, 77, 78, 84, 87, 89, 91, 93, 99, 100, 101, 108, 110, 117, 119, 120, 121, 122, 125, 128, 130, 136, 140, 145, 148, 149, 154, 155], "aux": [5, 6, 15, 20, 22, 27, 44, 53, 84, 91, 92, 93, 96, 98, 99, 101, 102, 113, 114, 119, 121, 128, 129, 133, 136, 137, 138, 139, 140, 154], "inner": [5, 110, 122], "product": [5, 30, 61, 81, 104, 110, 122], "amrdata": [5, 22, 32, 110, 124, 137, 138, 139], "aux_typ": [5, 137, 138], "append": [5, 20, 32, 38, 39, 44, 51, 60, 77, 86, 98, 110, 118, 119, 127, 128, 138], "num_aux": [5, 84, 92, 94, 96, 97, 101, 128, 136, 137, 138, 140, 154], "len": [5, 30, 89, 138, 140, 151], "innerprod_index": 5, "base": [5, 6, 13, 20, 21, 22, 28, 29, 30, 32, 33, 45, 47, 51, 52, 53, 54, 59, 60, 63, 64, 66, 67, 70, 73, 84, 86, 87, 89, 91, 92, 97, 98, 99, 101, 103, 104, 110, 112, 117, 120, 122, 131, 136, 137, 138, 139, 140, 145, 151, 154, 157], "richardson": [5, 7, 22, 137, 138], "error": [5, 16, 18, 20, 35, 36, 40, 51, 58, 67, 71, 77, 86, 91, 92, 93, 104, 110, 111, 122, 137, 138, 145, 152], "estimat": [5, 138], "flag_richardson": [5, 110, 118, 137, 138], "flag_richardson_tol": [5, 110, 137, 138], "1e": [5, 66, 140], "flag2refin": [5, 7, 22, 137, 138], "flag2refine_tol": [5, 110, 137, 138], "01": [5, 39, 72, 89, 151], "we": [5, 6, 22, 24, 26, 32, 35, 36, 38, 39, 44, 48, 51, 53, 54, 55, 56, 58, 63, 66, 70, 76, 79, 83, 84, 85, 86, 88, 89, 92, 93, 94, 95, 96, 99, 100, 101, 102, 103, 104, 105, 108, 111, 121, 124, 128, 129, 130, 134, 151], "attempt": [5, 8, 11, 20, 33, 35, 36, 62, 92, 98, 104, 111, 113, 145, 151, 152], "estim": [5, 64, 110, 137, 139], "step": [5, 6, 10, 16, 19, 28, 32, 35, 36, 37, 44, 51, 54, 55, 60, 67, 76, 79, 81, 82, 83, 84, 86, 93, 96, 99, 101, 103, 108, 110, 113, 118, 119, 127, 128, 134, 136, 137, 138, 139, 140, 149, 157], "extrapol": [5, 7, 16, 22, 96, 103, 121, 136, 137, 138, 140], "togeth": [5, 16, 28, 29, 30, 54, 70, 110], "experiment": [5, 81], "otherwis": [5, 30, 54, 56, 58, 61, 66, 81, 93, 97, 98, 99, 100, 101, 104, 110, 136, 151], "simpli": [5, 13, 35, 36, 37, 39, 44, 51, 53, 56, 57, 62, 63, 66, 83, 85, 86, 88, 93, 94, 100, 111, 128, 130, 141, 145, 151, 154, 155], "magnitud": [5, 30, 110, 121, 139], "greater": [5, 32, 59, 64, 66, 100, 105, 110, 127, 136, 137, 139], "model": [5, 12, 16, 17, 24, 25, 30, 32, 41, 45, 46, 52, 53, 64, 93, 110, 118, 123, 124, 125, 130, 131, 132, 139, 145, 146, 149], "davisleveque2016": [5, 17], "chile2010_adjoint": 5, "shallow": [5, 15, 16, 17, 25, 32, 39, 45, 48, 52, 66, 73, 84, 91, 107, 114, 115, 117, 119, 121, 122, 128, 132, 133, 139, 143, 144, 149, 154], "water": [5, 16, 17, 25, 39, 44, 45, 46, 47, 48, 59, 66, 73, 76, 84, 91, 114, 115, 119, 121, 122, 128, 130, 131, 132, 139, 149, 151, 153, 154], "while": [5, 13, 16, 30, 39, 51, 67, 70, 77, 79, 84, 89, 93, 94, 99, 104, 121, 128, 132, 139, 153], "suitabl": [5, 8, 16, 20, 45, 48, 51, 98, 109, 128, 131, 145, 151], "To": [5, 6, 13, 14, 18, 22, 25, 28, 29, 35, 36, 37, 38, 39, 40, 44, 46, 49, 51, 52, 55, 57, 62, 65, 66, 67, 70, 71, 72, 77, 79, 80, 83, 85, 87, 88, 91, 92, 93, 94, 95, 96, 99, 100, 103, 105, 106, 108, 109, 110, 111, 117, 119, 122, 123, 124, 125, 127, 131, 134, 136, 137, 141, 149, 155], "date": [5, 28, 40, 47, 51, 54, 55, 62, 77, 145, 152], "across": [5, 110, 119, 149, 151], "ocean": [5, 16, 17, 32, 48, 51, 108, 110, 130, 139, 143, 144, 149], "wai": [5, 6, 13, 16, 26, 28, 35, 36, 38, 39, 44, 51, 53, 54, 58, 59, 61, 62, 77, 79, 80, 81, 83, 86, 88, 89, 94, 96, 98, 100, 103, 105, 106, 108, 109, 113, 119, 120, 121, 124, 126, 128, 130, 135, 136, 142, 146, 149, 154, 156, 157], "target": [5, 56, 58, 77, 84, 96, 124], "possibli": [5, 30, 56, 58, 66, 83, 89, 106, 118, 132], "deep": [5, 66, 139], "amplitud": [5, 119], "compar": [5, 22, 36, 44, 48, 51, 55, 77, 93, 110, 111, 131, 137, 139, 147, 153, 157], "essenti": [5, 53, 67, 99, 139, 149], "rest": [5, 22, 79, 108, 121, 131, 143, 144, 149, 151], "henc": [5, 32, 53, 54, 63, 99, 105, 106, 110, 132], "take": [5, 6, 22, 27, 28, 30, 32, 47, 54, 64, 66, 67, 70, 77, 83, 89, 96, 99, 103, 104, 105, 110, 111, 116, 122, 132, 136, 137, 138, 139, 151, 154, 157], "rpn2_geoclaw_adjoint_qwav": 5, "rpt2_geoclaw_adjoint_qwav": 5, "non": [5, 16, 55, 66, 73, 84, 96, 103, 122, 124, 136, 138, 140, 145, 157], "vector": [5, 22, 83, 87, 93, 101, 121, 128, 129], "split": [5, 6, 71, 89, 92, 99, 117, 118, 136, 138, 140, 148, 154, 157], "flux": [5, 17, 32, 89, 97, 99, 128, 136, 157], "comment": [5, 11, 24, 49, 55, 120, 127], "rpn2": [5, 128], "basic": [6, 10, 12, 25, 30, 35, 37, 45, 57, 66, 67, 83, 89, 91, 92, 93, 97, 99, 111, 128, 129, 145, 157], "strategi": 6, "logic": [6, 16, 17, 32], "rectangular": [6, 7, 16, 17, 30, 32, 38, 39, 45, 46, 59, 66, 89, 110, 121, 124, 137, 139, 149], "cover": [6, 7, 27, 28, 30, 32, 38, 39, 51, 59, 66, 70, 110, 114, 119, 132, 138, 139, 149], "too": [6, 47, 51, 54, 55, 118, 130, 138, 140], "portion": [6, 39, 51, 66, 84, 148], "factor": [6, 51, 137, 139, 148, 151], "direct": [6, 8, 16, 22, 30, 32, 35, 36, 44, 47, 51, 55, 59, 61, 62, 67, 70, 71, 77, 81, 86, 96, 103, 110, 120, 128, 136, 137, 139, 151], "anisotrop": [6, 22], "further": [6, 16, 25, 32, 41, 48, 59, 62, 67, 91, 105, 110, 111], "perhap": [6, 12, 32, 39, 44, 54, 77, 101, 104, 110, 130], "ratio": [6, 15, 22, 49, 67, 70, 87, 97, 99, 133, 136, 137, 138], "And": [6, 20, 54, 56], "section": [6, 13, 16, 35, 36, 39, 41, 46, 48, 54, 55, 63, 67, 76, 79, 111, 127, 136, 139, 151], "cfl": [6, 89, 93, 99, 103, 113, 118, 136, 138, 139, 140], "spatial": [6, 17, 25, 30, 38, 39, 45, 64, 96, 110, 113, 117, 124, 128, 131, 138, 140, 157], "reduc": [6, 16, 39, 51, 118, 120, 157], "thu": [6, 47, 93, 96, 121, 145], "proce": [6, 28], "advanc": [6, 17, 52, 66, 71, 103, 118, 136, 154], "taken": [6, 32, 66, 70, 93, 99, 110, 136, 154], "around": [6, 30, 32, 39, 59, 92, 108, 111, 124, 137, 138, 145, 151, 154], "librari": [6, 13, 15, 16, 20, 22, 25, 27, 28, 32, 35, 36, 41, 44, 52, 59, 62, 68, 71, 72, 73, 81, 87, 92, 94, 99, 104, 106, 107, 110, 119, 124, 132, 133, 137, 143, 144, 152, 154], "bcnamr": [6, 16, 121, 136, 138, 154], "check": [6, 14, 15, 16, 20, 32, 35, 36, 40, 41, 50, 51, 52, 54, 55, 56, 58, 62, 67, 77, 83, 84, 86, 91, 94, 98, 99, 101, 103, 104, 106, 107, 110, 114, 123, 130, 132, 133, 137, 138, 143, 144, 145, 151, 152, 153, 154], "denot": [6, 22, 44, 53, 128, 151], "procedur": [6, 16, 39, 45, 55, 154], "updat": [6, 12, 13, 22, 23, 25, 32, 49, 52, 56, 57, 58, 60, 79, 91, 99, 101, 102, 105, 108, 113, 117, 119, 120, 121, 122, 123, 124, 128, 137, 138, 140, 142, 145, 148, 154], "consist": [6, 25, 32, 47, 51, 55, 59, 94, 105, 119, 128, 130, 139, 149, 154], "replac": [6, 13, 29, 38, 44, 48, 52, 54, 55, 60, 62, 76, 84, 88, 92, 94, 95, 96, 97, 101, 104, 111, 113, 119, 121, 123, 124, 127, 128, 132, 151, 152], "ly": [6, 66], "within": [6, 16, 28, 54, 56, 58, 66, 73, 77, 95, 104, 106, 110, 128, 130, 135, 141, 151], "approxim": [6, 16, 25, 33, 48, 51, 70, 128], "lead": [6, 13, 18, 22, 32, 48, 51, 64, 67, 70, 106, 109, 132, 137], "total": [6, 30, 51, 70, 93, 99, 136, 137, 138, 140, 148], "mass": [6, 93], "restor": 6, "global": [6, 14, 89, 101, 104, 131, 149, 153, 154], "fix": [6, 18, 19, 20, 22, 25, 33, 38, 45, 54, 55, 59, 60, 62, 66, 81, 92, 97, 113, 114, 115, 116, 117, 118, 119, 120, 122, 123, 124, 125, 129, 136, 138, 140, 151], "up": [6, 13, 22, 28, 29, 30, 32, 35, 36, 39, 40, 44, 45, 51, 54, 55, 59, 62, 66, 67, 70, 77, 83, 84, 86, 88, 90, 91, 92, 94, 99, 100, 103, 106, 108, 110, 111, 117, 118, 121, 124, 130, 132, 135, 138, 140, 148, 149, 152, 153], "style": [6, 22, 28, 30, 38, 49, 51, 66, 72, 77, 81, 86, 121], "often": [6, 11, 13, 16, 20, 27, 29, 32, 35, 36, 40, 41, 44, 45, 48, 49, 50, 59, 60, 64, 70, 72, 93, 105, 106, 110, 111, 127, 128, 130, 131, 132, 135, 136, 139, 145, 149, 153, 154, 157], "olig": [6, 17], "colella": [6, 17], "bergeroliger84": [6, 17], "bergercolella89": [6, 17], "fortran": [6, 9, 11, 13, 14, 20, 23, 27, 28, 30, 32, 33, 35, 44, 45, 46, 53, 56, 58, 62, 63, 64, 71, 72, 73, 76, 79, 81, 83, 84, 86, 89, 91, 92, 94, 96, 97, 99, 100, 101, 104, 117, 118, 119, 121, 122, 123, 128, 129, 134, 138, 139, 140, 145, 147, 148, 149], "written": [6, 11, 25, 30, 32, 40, 44, 58, 59, 60, 61, 70, 72, 73, 77, 81, 90, 92, 96, 105, 119, 128, 136, 137, 138, 139, 140, 145, 151, 154], "ga": [6, 97], "dynam": [6, 20, 30, 48, 70, 73], "merg": [6, 13, 25, 28, 52, 54, 55, 58, 117], "earli": [6, 20, 132], "dai": [6, 13, 51, 139], "mjb": [6, 17], "rjl": [6, 17, 106, 123], "fulli": [6, 48, 51, 52, 120, 124, 128, 139, 145, 146], "consid": [6, 39, 48, 57, 58, 66, 84, 106, 134, 141, 151], "adjac": [6, 16, 32, 45, 110, 132, 136], "equival": [6, 44, 52, 53, 59, 60, 123, 149], "copi": [6, 14, 15, 16, 35, 36, 44, 51, 54, 55, 58, 67, 83, 86, 96, 101, 107, 108, 109, 110, 114, 118, 121, 125, 132, 133, 141, 143, 144, 149, 154], "interior": [6, 16, 39, 72, 101], "howev": [6, 13, 16, 22, 32, 35, 36, 39, 41, 46, 48, 51, 58, 61, 63, 66, 70, 71, 72, 81, 84, 110, 111, 119, 121, 123, 131, 132, 135, 139, 148], "lie": [6, 32, 33, 66, 110, 124, 130], "outsid": [6, 16, 38, 59, 66, 124, 130, 132, 149, 151], "li": [6, 16, 32, 110, 130, 139], "along": [6, 14, 16, 24, 27, 30, 32, 39, 44, 51, 54, 68, 70, 106, 110, 117, 127, 130, 132, 139, 153], "proper": [6, 15, 39, 44, 52, 53, 55, 59, 64, 66, 67, 92, 104, 113, 119, 133, 137, 138, 143, 144, 145, 154], "unless": [6, 32, 40, 41, 59, 97, 105, 131, 136, 151], "standard": [6, 16, 30, 32, 51, 53, 67, 72, 84, 87, 99, 105, 106, 110, 111, 138, 139, 140, 141, 149, 154, 157], "beyond": [6, 30, 105, 121], "modifi": [6, 9, 14, 15, 16, 20, 22, 27, 32, 35, 36, 39, 44, 45, 54, 55, 56, 58, 60, 62, 67, 69, 77, 84, 87, 89, 91, 96, 106, 107, 108, 109, 110, 116, 118, 119, 120, 121, 130, 132, 133, 136, 138, 139, 140, 143, 144, 149, 151, 154], "damag": [6, 61, 81], "bcn": [6, 16, 140, 154], "nd": [6, 16, 110, 121, 124, 154], "actual": [6, 27, 30, 32, 53, 58, 59, 67, 70, 77, 87, 92, 104, 108, 131, 139], "softwar": [6, 13, 24, 25, 29, 45, 48, 61, 68, 81, 91, 92, 93, 141, 149], "intern": [6, 30, 44, 53, 59, 70, 119, 149, 151, 157], "With": [6, 22, 28, 44, 49, 51, 66, 73, 105, 110, 118, 128, 130, 136], "opposit": [6, 16, 92], "side": [6, 16, 18, 32, 51, 54, 64, 70, 92, 111, 128, 157], "everi": [6, 12, 28, 32, 44, 60, 62, 63, 83, 86, 88, 92, 93, 101, 110, 111, 119, 120, 128, 132, 134, 136, 138, 140, 145, 149, 151, 154], "few": [6, 12, 13, 22, 26, 29, 36, 48, 54, 66, 67, 84, 99, 103, 105, 110, 111, 124, 131, 147, 149, 154], "coarsest": [6, 51, 72, 113, 127, 136], "revis": [6, 119], "shock": [6, 17, 48, 99, 110], "accord": [6, 53], "criteria": [6, 7, 22, 25, 32, 66, 101], "cluster": [6, 17, 57, 110, 137, 138], "rigoutsi": 6, "bergerrigoutsis91": [6, 17], "nonoverlap": 6, "rectangl": [6, 7, 25, 30, 66, 70, 110, 124, 151], "balanc": [6, 17, 73, 120, 129, 143, 144], "conflict": [6, 28, 58, 62, 67, 102, 106], "goal": 6, "possibl": [6, 13, 22, 26, 28, 30, 32, 44, 47, 48, 51, 56, 61, 62, 70, 77, 81, 89, 92, 94, 95, 99, 104, 106, 110, 128, 130, 131, 136, 137, 149, 153, 154], "minim": [6, 58, 66, 92, 130, 137, 151], "overhead": [6, 71, 110, 148], "cutoff": [6, 138], "control": [6, 7, 23, 25, 32, 41, 44, 54, 56, 58, 60, 67, 79, 82, 87, 89, 91, 92, 93, 94, 96, 110, 119, 124, 129, 139], "fraction": [6, 13, 30, 110, 136, 154, 157], "70": [6, 51], "realli": [6, 111, 154], "At": [6, 13, 27, 28, 35, 36, 39, 66, 94, 99, 103, 105, 110, 124, 136], "present": [6, 24, 59, 89, 97, 98, 99, 104, 141, 154, 157], "previous": [6, 22, 32, 66, 79, 117, 124, 132], "bilinear": [6, 32, 39, 44, 53, 113, 114, 149], "doxygen": [6, 7, 25, 120], "flowchart": [6, 7, 25], "capabl": [7, 12, 22, 32, 34, 48, 52, 66, 73, 84, 113, 118, 119, 121, 122, 123, 124, 125, 151, 153], "block": [7, 30, 39, 59, 70, 72, 73, 83, 92, 101, 104, 111, 154], "structur": [7, 10, 22, 32, 38, 55, 58, 62, 73, 98, 99, 119, 130, 135, 151], "input": [7, 14, 16, 20, 23, 25, 27, 30, 33, 40, 45, 51, 59, 63, 66, 67, 83, 86, 87, 89, 91, 97, 98, 99, 104, 108, 118, 121, 122, 123, 128, 138, 139, 140, 145, 146, 149, 151, 154], "indic": [7, 16, 20, 22, 25, 29, 30, 32, 38, 39, 41, 44, 45, 51, 53, 55, 57, 58, 63, 67, 75, 79, 89, 93, 94, 97, 99, 103, 106, 110, 111, 119, 124, 128, 129, 136, 138, 139, 140, 149, 151, 154], "tool": [7, 8, 17, 22, 23, 28, 30, 32, 33, 35, 36, 39, 45, 46, 47, 48, 51, 53, 58, 59, 67, 70, 75, 76, 77, 78, 80, 91, 106, 109, 114, 115, 119, 120, 124, 125, 139, 141, 149, 151, 153, 155], "matlab": [7, 22, 25, 35, 36, 75, 76, 77, 95, 105, 121, 124, 125], "deprec": [7, 30, 34, 54, 117, 121, 139, 149, 151], "debug": [7, 41, 62, 72, 76, 93, 101, 106, 111, 136, 138], "flag": [7, 12, 13, 22, 25, 28, 29, 38, 40, 41, 45, 52, 56, 58, 68, 71, 84, 102, 104, 106, 117, 122, 138, 139], "sampl": [7, 8, 14, 17, 25, 29, 32, 41, 45, 51, 70, 106, 111, 127, 130, 136, 137, 149, 151, 154], "ghost": [7, 16, 18, 71, 72, 89, 92, 99, 101, 119, 136, 138, 140, 148, 154, 157], "flagregion": [7, 25, 66, 110, 124, 130], "rule": [7, 13, 25, 59, 66, 84], "convex": [7, 32], "slu": 7, "bounding_box": [7, 33], "mask_outsid": [7, 66], "write": [7, 28, 30, 33, 38, 39, 44, 45, 50, 53, 54, 64, 70, 72, 73, 76, 83, 86, 89, 90, 92, 93, 94, 98, 119, 121, 138, 140, 145, 149, 151], "instanti": [7, 86, 94, 96, 99, 101, 138, 140], "make_kml": 7, "simpl": [7, 29, 35, 36, 38, 45, 55, 70, 84, 91, 96, 97, 99, 104, 109, 111, 151], "select": [7, 12, 13, 15, 16, 28, 32, 39, 66, 93, 99, 107, 110, 113, 120, 124, 126, 133, 136, 139, 143, 144, 153], "continent": [7, 66], "shelf": [7, 66], "guid": [7, 13, 17, 18, 23, 24, 25, 45, 46, 52, 57, 91, 105, 110, 120, 124, 142], "adjoint": [7, 17, 25, 52, 110, 121, 122], "gaug": [7, 25, 32, 45, 59, 89, 90, 101, 108, 113, 117, 118, 119, 120, 121, 124, 127, 131, 138], "extend": [8, 16, 22, 39, 59, 66, 67, 89, 121, 130, 132, 139, 149, 151, 157], "directli": [8, 19, 23, 32, 48, 56, 67, 70, 77, 79, 83, 84, 87, 91, 101, 104, 106, 121, 151, 155], "obviou": [8, 51], "elimin": [8, 22, 66, 84, 106, 121, 139], "gallery_classic_amrclaw": [8, 35], "num_cel": [8, 22, 89, 128, 136, 137, 138, 140], "refinement_ratios_i": [8, 137, 138], "sweep": [8, 128], "transvers": [8, 89, 119, 128, 129, 136, 154, 157], "graph": 9, "understand": [9, 25, 35, 36, 48, 76, 91, 103, 110, 128], "filpatch": [9, 18, 39, 119, 123], "idea": [10, 24, 30, 66, 67, 73, 83, 103, 114, 151, 157], "overal": [10, 83], "who": [10, 12, 19, 22, 24, 32, 41, 48, 58], "gori": 10, "monster": 10, "column": [10, 30, 32, 44, 48, 60, 93, 97, 117, 130, 151], "markup": 11, "languag": [11, 76, 104, 105], "restructur": [11, 54], "text": [11, 54, 55, 59, 72, 86, 92, 99, 117], "sphinx": [11, 23, 25, 55, 120], "covert": 11, "convert_readm": 11, "brows": [11, 24, 42, 51, 67, 141, 154], "insert": [11, 16, 70, 92, 149], "script": [11, 19, 20, 28, 30, 32, 40, 44, 51, 54, 57, 62, 67, 73, 76, 81, 84, 88, 90, 91, 93, 94, 99, 104, 105, 106, 111, 121, 125, 128, 135, 139, 140, 151], "invok": [11, 14, 71, 132, 152], "minor": [11, 18, 51, 54, 93, 113, 114, 115, 116, 117, 118, 119, 120, 121, 122, 124], "syntax": 11, "highlight": [11, 13], "header": [11, 30, 32, 39, 44, 53, 66, 70, 72, 92, 98, 117, 119, 121, 145, 149, 151], "complex": [12, 38, 89], "archiv": [12, 21, 36, 51, 55, 111, 141, 147, 151, 153], "github": [12, 15, 22, 23, 24, 25, 26, 29, 52, 54, 56, 57, 58, 88, 96, 100, 107, 111, 116, 118, 119, 120, 126, 128, 129, 133, 143, 144, 152], "app": [12, 13, 18, 23, 26, 28, 29, 32, 37, 42, 70, 108, 109, 116, 120, 121, 122, 123, 124, 125, 129], "com": [12, 13, 23, 24, 26, 28, 29, 52, 54, 55, 56, 57, 58, 92, 94, 96, 100, 116, 118, 119, 120, 126, 129], "fvmbook": [12, 42], "galleri": [12, 35, 36, 37, 42, 43, 55, 75, 76, 88, 91, 105, 111, 116, 120, 141, 147, 154], "anim": [12, 16, 42, 51, 117, 124, 125, 141], "instal": [12, 13, 18, 23, 25, 29, 35, 51, 54, 55, 79, 81, 82, 85, 90, 92, 103, 111, 112, 113, 114, 115, 116, 117, 118, 119, 120, 121, 122, 123, 124, 125, 126, 134, 156], "collect": [12, 25, 26, 28, 30, 32, 70, 76, 83, 99, 141], "either": [12, 16, 20, 30, 32, 39, 45, 46, 51, 60, 62, 66, 67, 70, 77, 79, 83, 89, 92, 93, 99, 104, 106, 110, 111, 117, 118, 119, 121, 128, 130, 132, 139, 145, 149, 151, 154, 157], "clone": [12, 18, 23, 24, 42, 52, 54, 55, 56, 58, 80, 94, 100, 109, 152], "git": [12, 13, 23, 24, 25, 26, 52, 55, 56, 58, 91, 100, 111, 123], "navig": [12, 29, 54, 141], "green": [12, 59, 66, 70, 77, 111, 151], "button": [12, 13, 28, 51, 59, 120], "download": [12, 13, 28, 29, 30, 36, 37, 39, 45, 51, 55, 56, 57, 58, 68, 88, 94, 100, 121, 122, 126, 147, 151, 152, 153], "zip": [12, 51, 55], "illustr": [12, 25, 30, 32, 35, 51, 66, 67, 70, 109, 116, 117, 121, 123, 128, 130, 141, 151], "variou": [12, 20, 22, 30, 38, 48, 54, 67, 70, 77, 79, 89, 103, 105, 106, 110, 119, 128, 135, 139, 145], "aspect": [12, 24, 29, 48, 49, 67, 151], "visibl": [12, 13, 51, 109, 141], "render": [12, 22, 51, 59, 155], "advantag": [12, 76, 92, 105, 111, 130], "independ": [12, 23, 30], "contact": [12, 88, 91, 100], "u": [12, 13, 16, 24, 29, 32, 47, 48, 55, 58, 60, 81, 88, 91, 97, 100, 101, 102, 103, 108, 120, 128, 137, 140, 145, 153], "like": [12, 13, 24, 28, 29, 39, 41, 51, 54, 55, 59, 60, 67, 68, 79, 84, 86, 89, 92, 93, 94, 97, 98, 99, 101, 105, 106, 111, 118, 128, 130, 135, 148, 149, 152], "storm": [12, 17, 24, 25, 45, 117, 120, 121, 122, 123, 125], "surg": [12, 17, 24, 25, 45, 117, 120, 121, 122, 123, 145], "empti": [12, 44, 98, 101, 104, 106, 136, 145, 151], "gitmodul": 12, "pull": [12, 24, 26, 29, 54, 55, 57, 88, 96, 111, 116, 119, 120, 128], "request": [12, 24, 26, 30, 54, 57, 72, 83, 88, 89, 93, 96, 98, 111, 119, 121, 128, 139, 145, 151], "init": [12, 25, 28, 39, 45, 52, 57, 131], "leav": [12, 13, 16, 44, 56, 58, 137, 151], "off": [12, 13, 44, 48, 51, 59, 67, 79, 86, 93, 110, 137, 151], "won": [12, 13, 66, 84, 151], "hurt": [12, 63], "maintain": [12, 28, 105, 121, 137, 149, 154], "flavor": [12, 21, 57, 92], "demonstr": [12, 25, 88, 94], "agre": [12, 28, 39, 53, 128, 148, 151, 154], "seen": [12, 22, 32, 35, 36, 37, 48, 71, 96, 136, 141], "cloud": 13, "elast": [13, 70], "sign": [13, 18, 24, 77, 145], "account": [13, 24, 28, 55, 85, 94], "750": 13, "hour": [13, 51, 59], "free": [13, 51, 62, 70, 81, 85, 96, 100, 102, 105], "micro": 13, "suffici": [13, 16, 20, 70, 71, 108, 113, 139], "tier": 13, "inform": [13, 14, 22, 25, 32, 33, 35, 36, 46, 47, 48, 49, 50, 56, 58, 63, 72, 77, 78, 79, 80, 83, 84, 89, 93, 94, 95, 97, 98, 104, 106, 118, 121, 122, 124, 126, 127, 128, 131, 134, 136, 137, 139, 145, 148, 149, 152, 153, 154, 155], "uw": [13, 24], "escienc": 13, "aw": [13, 56], "tutori": [13, 29, 55, 79, 82, 86, 91, 100, 106, 109], "gear": 13, "faq": [13, 25, 76, 105], "price": 13, "charg": 13, "per": [13, 30, 44, 51, 59, 67, 71, 92, 137], "thereof": 13, "regardless": [13, 39, 66, 110, 136, 139], "cpu": [13, 52, 118, 121, 123, 148], "consol": [13, 93, 139], "tab": [13, 54, 126], "east": [13, 149], "cheaper": 13, "rate": 13, "menu": [13, 18, 25, 54, 59, 120, 126, 131, 153], "imag": [13, 35, 36, 39, 55, 57, 59, 66, 111, 121, 130], "platform": [13, 51, 86, 94, 105, 111], "finish": [13, 77, 83], "load": [13, 59, 93, 95, 98, 104, 105, 111, 151, 155], "databas": [13, 30, 70, 104, 108, 121, 149], "uwamath": 13, "bar": [13, 54, 145], "screen": [13, 28, 51, 59, 86, 93, 94, 118, 138, 140], "shapshot": 13, "machin": [13, 25, 57, 71, 73, 105, 111, 119, 134], "disk": [13, 44, 83, 92, 93, 111, 119], "ubuntu": [13, 57, 105], "linux": [13, 57, 69, 80, 102, 105, 111, 134], "popup": 13, "look": [13, 14, 22, 25, 28, 30, 39, 51, 54, 55, 59, 67, 68, 77, 79, 84, 89, 94, 98, 99, 103, 104, 105, 106, 111, 114, 121, 130, 136, 137, 139, 148, 151, 152], "sort": [13, 39, 56, 121, 135, 152], "larger": [13, 20, 32, 51, 59, 70, 71, 72, 77, 89, 113, 119, 139, 149], "cost": [13, 99], "continu": [13, 22, 28, 30, 49, 54, 81, 105, 128, 136, 157], "eventu": [13, 45, 124], "don": [13, 27, 28, 54, 55, 77, 93, 94, 100, 111, 138, 152], "pair": [13, 92, 111, 151], "secur": 13, "quick": [13, 25, 36, 45, 46, 80, 105, 111, 147], "close": [13, 39, 51, 54, 59, 66, 67, 92, 110, 124, 137, 145], "back": [13, 27, 29, 54, 55, 120], "statu": [13, 28, 50, 86, 103], "wait": 13, "until": [13, 32, 60, 66, 132], "refresh": [13, 44], "bottom": [13, 15, 30, 35, 36, 45, 48, 64, 66, 70, 83, 96, 97, 119, 120, 133, 143, 144], "scroll": 13, "down": [13, 30, 93, 118, 145, 149, 151], "dn": 13, "screenshot": [13, 51], "rjlkei": 13, "pem": 13, "abl": [13, 54, 106], "ssh": [13, 28], "keypair": 13, "50": [13, 17, 32, 51, 99, 114, 138], "19": [13, 17, 24, 148], "75": [13, 17, 87, 103, 130], "229": 13, "amazonaw": 13, "gfortran": [13, 56, 58, 71, 80, 82, 102, 134, 152], "ipython": [13, 73, 77, 79, 84, 85, 91, 93, 100, 103, 105, 106, 117, 118], "scipi": [13, 84, 105, 145, 151], "netcdf": [13, 41, 45, 118, 121, 123, 125, 136, 138, 140, 145, 151, 153], "apach": 13, "server": [13, 29, 39, 51, 54, 55, 66, 121, 149, 153], "apt": [13, 105], "fetch": [13, 47], "bring": [13, 51, 54, 67], "master": [13, 15, 25, 29, 54, 55, 58, 96, 107, 118, 119, 120, 121, 122, 123, 124, 125, 126, 129, 133, 143, 144], "make_lib": 13, "compil": [13, 25, 35, 36, 40, 46, 56, 58, 63, 71, 73, 79, 80, 84, 91, 92, 96, 100, 104, 113, 128, 129, 134], "bashrc": [13, 41, 102, 134], "Of": [13, 26, 70, 103, 108, 149], "cours": [13, 26, 32, 44, 46, 60, 70, 94, 95, 103, 105, 108, 139, 149], "tar": [13, 56, 59, 123, 126], "instruct": [13, 18, 24, 25, 35, 36, 39, 51, 52, 54, 55, 56, 57, 68, 83, 85, 91, 94, 100, 103, 106, 120, 126, 127, 134, 152], "probabl": [13, 28, 51, 64, 66, 105, 106], "window": [13, 30, 67, 79, 105, 134], "respons": [13, 48, 83, 98], "pretti": 13, "slow": [13, 51, 93, 102], "_plot": [13, 35, 36, 44, 67, 79, 135, 141], "local": [13, 17, 20, 25, 28, 51, 54, 59, 62, 63, 67, 87, 89, 96, 101, 119, 121, 132, 149, 151, 154], "sftp": 13, "much": [13, 28, 32, 41, 51, 54, 72, 73, 76, 105, 110, 113, 117, 124, 130, 136, 139, 148, 151], "smaller": [13, 51, 64, 73, 89, 93, 113, 132, 136, 138, 139, 140, 151], "quicker": [13, 130], "browser": [13, 28, 29, 35, 36, 51, 54, 141], "explain": [13, 32, 48, 66, 136, 141], "webserv": 13, "inbound": 13, "port": [13, 29, 90, 91, 96, 137], "22": [13, 24, 151], "80": [13, 17, 51, 94, 130], "drop": [13, 54, 124, 132, 136], "tcp": 13, "Then": [13, 16, 28, 29, 30, 44, 54, 55, 57, 63, 66, 70, 71, 79, 83, 86, 94, 100, 101, 102, 106, 128, 130, 151, 152], "someth": [13, 27, 28, 54, 62, 69, 76, 93, 98, 99, 106, 149, 152, 154], "shot": 13, "ln": 13, "expos": 13, "home": [13, 29, 30, 56, 58, 134], "scp": 13, "TO": [13, 61, 81], "send": [13, 24, 96, 128], "remot": [13, 51, 55, 121, 151, 153], "rel": [13, 20, 30, 40, 46, 48, 51, 70, 71, 77, 104, 106, 111, 114, 115, 116, 117, 118, 119, 120, 121, 122, 123, 124, 125, 131, 137, 139, 141, 149, 153], "end": [13, 29, 30, 32, 44, 47, 51, 55, 59, 86, 93, 97, 103, 105, 108, 110, 118, 119, 121, 127, 129, 130, 138, 140, 145, 148], "retriev": [13, 47, 79, 84, 99, 151, 153], "sit": 13, "idl": 13, "action": [13, 14, 84], "restart": [13, 25, 44, 79, 91, 118, 119, 120, 121, 123, 136, 138, 140], "later": [13, 39, 50, 51, 58, 79, 99, 127], "But": [13, 32, 39, 51, 77, 102, 114, 121, 132], "futur": [13, 22, 25, 26, 35, 36, 39, 48, 53, 59, 64, 83, 99, 105, 118, 119, 121, 124, 145, 149], "job": 13, "eb": 13, "runclaw": [14, 50, 114, 123, 125, 128], "autom": [14, 54, 84, 111], "certain": [14, 32, 45, 57, 66, 93, 110, 118, 130, 136], "keep": [14, 25, 28, 32, 33, 35, 36, 71, 83, 86, 91, 101, 104, 111, 114, 139], "log": [14, 25, 28, 29, 89, 90, 91, 98, 99], "came": 14, "rundir": [14, 86], "environ": [14, 25, 28, 35, 36, 40, 50, 51, 54, 56, 57, 58, 67, 69, 71, 73, 95, 102, 104, 106, 119, 151, 152], "By": [15, 30, 41, 47, 51, 53, 59, 70, 77, 79, 83, 89, 93, 95, 102, 121, 130, 133, 143, 144, 151, 157], "noth": [15, 60, 101, 122, 133, 143, 144, 151, 154], "rememb": [15, 27, 71, 77, 94, 133, 143, 144], "b4step1": [15, 63, 154], "b4step2": [15, 133, 154], "b4step3": 15, "branch": [15, 18, 25, 29, 41, 50, 52, 55, 57, 58, 107, 111, 120, 121, 122, 123, 124, 125, 126, 133, 143, 144], "tag": [15, 51, 55, 107, 133, 137, 138, 143, 144], "bathymetri": [15, 45, 48, 51, 59, 97, 108, 119, 121, 129, 131, 133, 139, 149, 151], "area": [15, 22, 45, 99, 108, 119, 132, 133], "dy": [15, 47, 53, 59, 60, 72, 84, 89, 93, 117, 121, 133, 149, 151], "capac": [15, 97, 133, 136, 137, 138, 140], "length": [15, 30, 48, 59, 70, 96, 101, 119, 133, 136, 137, 138, 139, 154], "latter": [15, 66, 96, 124, 130, 133, 136, 145, 154], "quantiti": [15, 32, 59, 67, 86, 90, 91, 97, 101, 129, 133, 139], "latitud": [15, 30, 32, 46, 47, 53, 70, 76, 117, 130, 133, 139, 145, 151], "coordinate_system": [15, 60, 133, 139], "impos": [16, 84, 110, 139, 143, 144, 157], "chapter": [16, 128, 136, 154], "choic": [16, 45, 76, 99, 136, 138, 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154], "src": [144, 154], "statist": 148, "download": 149, "displac": 149, "topo": 150, "dtopo": 150, "topotool": 151, "f2py": 152, "ex": 152, "bathymetri": 153, "dart": 153, "buoi": 153, "tide": 153, "done": 154, "befor": 154, "visit": 155, "virtual": 156, "propag": 157, "space": 157, "godunov": 157, "high": 157, "formul": 157, "capac": 157}, "envversion": {"sphinx.domains.c": 2, "sphinx.domains.changeset": 1, "sphinx.domains.citation": 1, "sphinx.domains.cpp": 8, "sphinx.domains.index": 1, "sphinx.domains.javascript": 2, "sphinx.domains.math": 2, "sphinx.domains.python": 3, "sphinx.domains.rst": 2, "sphinx.domains.std": 2, "sphinx": 57}, "alltitles": {"ClawPlotAxes": [[0, "clawplotaxes"]], "Attributes": [[0, "attributes"], [1, "attributes"], [2, "attributes"], [3, "attributes"]], "Methods": [[0, "methods"], [1, "methods"], [2, "methods"], [3, "methods"]], "ClawPlotData": [[1, "clawplotdata"]], "ClawPlotFigure": [[2, "clawplotfigure"]], "ClawPlotItem": [[3, "clawplotitem"]], "Special 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"Authors": [[4, "authors"]], "Citing this work": [[4, "citing-this-work"]], "Funding": [[4, "funding"], [81, "funding"]], "Guiding AMR with adjoint flagging": [[5, "guiding-amr-with-adjoint-flagging"]], "Using adjoint flagging in GeoClaw": [[5, "using-adjoint-flagging-in-geoclaw"]], "Adaptive mesh refinement (AMR) algorithms": [[6, "adaptive-mesh-refinement-amr-algorithms"]], "Ghost cells and boundary conditions for AMR": [[6, "ghost-cells-and-boundary-conditions-for-amr"]], "Choosing and initializing finer grids": [[6, "choosing-and-initializing-finer-grids"]], "Flagging cells for refinement": [[6, "flagging-cells-for-refinement"]], "For more details": [[6, "for-more-details"]], "AMRClaw Description and Detailed Contents": [[7, "amrclaw-description-and-detailed-contents"]], "AMRClaw for 1d problems": [[8, "amrclaw-for-1d-problems"]], "Old approach, deprecated:": [[8, "old-approach-deprecated"]], "Doxygen documentation of AMRClaw": [[9, "doxygen-documentation-of-amrclaw"]], "AMRClaw Flowcharts": [[10, "amrclaw-flowcharts"]], "Application documentation": [[11, "application-documentation"]], "Converting README.rst to README.html": [[11, "converting-readme-rst-to-readme-html"]], "Converting code to html with clawcode2html": [[11, "converting-code-to-html-with-clawcode2html"]], "Clawpack Applications repository": [[12, "clawpack-applications-repository"]], "Jupyter Notebooks": [[12, "jupyter-notebooks"]], "Submodules": [[12, "submodules"]], "Examples included with Clawpack": [[12, "examples-included-with-clawpack"]], "Amazon Web Services EC2 Clawpack AMI": [[13, "amazon-web-services-ec2-clawpack-ami"]], "Finding the Clawpack AMI": [[13, "finding-the-clawpack-ami"]], "Launching an instance": [[13, "launching-an-instance"]], "Logging on to your instance": [[13, "logging-on-to-your-instance"]], "Using Clawpack": [[13, "using-clawpack"]], "Viewing plots of results": [[13, "viewing-plots-of-results"]], "Viewing webpages directly from your instance": [[13, "viewing-webpages-directly-from-your-instance"]], "Transferring files to/from your instance": [[13, "transferring-files-to-from-your-instance"]], "Stopping your instance": [[13, "stopping-your-instance"]], "Creating your own AMI": [[13, "creating-your-own-ami"]], "b4run function": [[14, "b4run-function"]], "b4step default routines": [[15, "b4step-default-routines"]], "b4step routine in GeoClaw": [[15, "b4step-routine-in-geoclaw"]], "Boundary conditions": [[16, "boundary-conditions"], [157, "boundary-conditions"]], "Boundary conditions for adaptive refinement": [[16, "boundary-conditions-for-adaptive-refinement"]], "Boundary conditions for GeoClaw": [[16, "boundary-conditions-for-geoclaw"]], "Boundary conditions for clamshell grids on the sphere": [[16, "boundary-conditions-for-clamshell-grids-on-the-sphere"]], "User-defined boundary conditions": [[16, "user-defined-boundary-conditions"]], "Bibliography": [[17, "bibliography"]], "Papers describing the Clawpack software and algorithms": [[17, "papers-describing-the-clawpack-software-and-algorithms"]], "Papers describing applications": [[17, "papers-describing-applications"]], "Other references": [[17, "other-references"]], "Changes to master since v5.7.1": [[18, "changes-to-master-since-v5-7-1"]], "Changes that are not backward compatible": [[18, "changes-that-are-not-backward-compatible"], [121, "changes-that-are-not-backward-compatible"], [122, "changes-that-are-not-backward-compatible"], [123, "changes-that-are-not-backward-compatible"], [124, "changes-that-are-not-backward-compatible"], [125, "changes-that-are-not-backward-compatible"]], "General changes": [[18, "general-changes"], [121, "general-changes"], [122, "general-changes"], [123, "general-changes"], [124, "general-changes"], [125, "general-changes"]], "Changes to classic": [[18, "changes-to-classic"], [113, "changes-to-classic"], [114, "changes-to-classic"], [115, "changes-to-classic"], [116, "changes-to-classic"], [117, "changes-to-classic"], [118, 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"changes-to-visclaw"], [123, "changes-to-visclaw"], [124, "changes-to-visclaw"], [125, "changes-to-visclaw"]], "Changes to riemann": [[18, "changes-to-riemann"], [113, "changes-to-riemann"], [114, "changes-to-riemann"], [115, "changes-to-riemann"], [116, "changes-to-riemann"], [117, "changes-to-riemann"], [118, "changes-to-riemann"], [119, "changes-to-riemann"], [120, "changes-to-riemann"], [121, "changes-to-riemann"], [122, "changes-to-riemann"], [123, "changes-to-riemann"], [124, "changes-to-riemann"], [125, "changes-to-riemann"]], "Changes to amrclaw": [[18, "changes-to-amrclaw"], [113, "changes-to-amrclaw"], [114, "changes-to-amrclaw"], [115, "changes-to-amrclaw"], [116, "changes-to-amrclaw"], [117, "changes-to-amrclaw"], [118, "changes-to-amrclaw"], [119, "changes-to-amrclaw"], [120, "changes-to-amrclaw"], [121, "changes-to-amrclaw"], [122, "changes-to-amrclaw"], [123, "changes-to-amrclaw"], [124, "changes-to-amrclaw"], [125, "changes-to-amrclaw"]], "Changes to geoclaw": [[18, "changes-to-geoclaw"], [113, "changes-to-geoclaw"], [114, "changes-to-geoclaw"], [115, "changes-to-geoclaw"], [116, "changes-to-geoclaw"], [117, "changes-to-geoclaw"], [118, "changes-to-geoclaw"], [119, "changes-to-geoclaw"], [120, "changes-to-geoclaw"], [121, "changes-to-geoclaw"], [122, "changes-to-geoclaw"], [123, "changes-to-geoclaw"], [124, "changes-to-geoclaw"], [125, "changes-to-geoclaw"]], "Changes to PyClaw": [[18, "changes-to-pyclaw"], [112, "changes-to-pyclaw"], [113, "changes-to-pyclaw"], [114, "changes-to-pyclaw"], [115, "changes-to-pyclaw"], [116, "changes-to-pyclaw"], [117, "changes-to-pyclaw"], [118, "changes-to-pyclaw"], [119, "changes-to-pyclaw"], [120, "changes-to-pyclaw"], [121, "changes-to-pyclaw"], [122, "changes-to-pyclaw"], [123, "changes-to-pyclaw"], [124, "changes-to-pyclaw"], [125, "changes-to-pyclaw"]], "Other Clawpack Repositories": [[18, "other-clawpack-repositories"], [120, "other-clawpack-repositories"], [121, "other-clawpack-repositories"], [122, "other-clawpack-repositories"], [123, "other-clawpack-repositories"], [124, "other-clawpack-repositories"], [125, "other-clawpack-repositories"]], "Converting from Clawpack 4.3 to 4.6": [[19, "converting-from-clawpack-4-3-to-4-6"]], "Converting from Clawpack 4.6 to 5.0": [[20, "converting-from-clawpack-4-6-to-5-0"]], "Python conversion tool": [[20, "python-conversion-tool"]], "Clawpack 4.x links": [[21, "clawpack-4-x-links"]], "Changes in Clawpack 5.0": [[22, "changes-in-clawpack-5-0"]], "PyClaw in 5.0": [[22, "pyclaw-in-5-0"]], "Fortran package changes": [[22, "fortran-package-changes"]], "Changes to input parameters in setrun.py from 4.x to 5.0": [[22, "changes-to-input-parameters-in-setrun-py-from-4-x-to-5-0"]], "Changes to general parameters": [[22, "changes-to-general-parameters"]], "Changes to AMR parameters": [[22, "changes-to-amr-parameters"]], "Changes to GeoClaw parameters": [[22, "changes-to-geoclaw-parameters"]], "Changes to plotting routines": [[22, "changes-to-plotting-routines"]], "Clawpack components": [[23, "clawpack-components"]], "Other repositories": [[23, "other-repositories"]], "Clawpack Community": [[24, "clawpack-community"]], "User Workshops, Clinics, and Tutorials": [[24, "user-workshops-clinics-and-tutorials"]], "Available for streaming": [[24, "available-for-streaming"]], "Upcoming": [[24, "upcoming"], [24, "id1"]], "Recent": [[24, "recent"]], "Developer Workshops and Sprint Sessions": [[24, "developer-workshops-and-sprint-sessions"]], "Previous": [[24, "previous"]], "Other Clawpack events": [[24, "other-clawpack-events"]], "Contents": [[25, "id1"], [28, "contents"], [39, "contents"], [66, "contents"], [77, "contents"], [83, "contents"], [93, "contents"], [99, "contents"], [105, "contents"], [111, "contents"], [130, "contents"]], "Full Table of Contents": [[25, "full-table-of-contents"]], "Overview and Getting Started": [[25, "overview-and-getting-started"]], "Examples and Applications": [[25, "examples-and-applications"]], "Classic, AMRClaw, and GeoClaw": [[25, "classic-amrclaw-and-geoclaw"]], "Using the Fortran codes": [[25, "using-the-fortran-codes"]], "AMRClaw: adaptive mesh refinement": [[25, "amrclaw-adaptive-mesh-refinement"]], "GeoClaw: geophysical flows": [[25, "geoclaw-geophysical-flows"]], "PyClaw": [[25, "pyclaw"], [35, "pyclaw"], [111, "pyclaw"], [147, "pyclaw"]], "Riemann": [[25, "riemann"]], "VisClaw: Plotting and Visualization Tools": [[25, "visclaw-plotting-and-visualization-tools"]], "Migrating applications from older versions of Clawpack": [[25, "migrating-applications-from-older-versions-of-clawpack"]], "Developers\u2019 resources": [[25, "developers-resources"]], "References": [[25, "references"], [52, "references"]], "Contributing examples and applications": [[26, "contributing-examples-and-applications"]], "current_data": [[27, "current-data"]], "Attributes of current_data:": [[27, "attributes-of-current-data"]], "Developers\u2019 Guide": [[28, "developers-guide"]], "Guidelines for contributing": [[28, "guidelines-for-contributing"]], "Reporting and fixing bugs": [[28, "reporting-and-fixing-bugs"]], "Developer communication": [[28, "developer-communication"]], "Installation instructions for developers": [[28, "installation-instructions-for-developers"]], "Cloning the most recent code from Github": [[28, "cloning-the-most-recent-code-from-github"]], "Checking out the master branch on each repository": [[28, "checking-out-the-master-branch-on-each-repository"]], "Updating to the latest master branch": [[28, "updating-to-the-latest-master-branch"]], "Never commit to master": [[28, "never-commit-to-master"]], "Adding your fork as a remote": [[28, "adding-your-fork-as-a-remote"]], "Modifying code": [[28, "modifying-code"]], "Issuing a pull request": [[28, "issuing-a-pull-request"]], "Testing a pull request": [[28, "testing-a-pull-request"]], "Top-level pull requests": [[28, "top-level-pull-requests"]], "Git workflow": [[28, "git-workflow"]], "Catching errors with Pyflakes and Pylint": [[28, "catching-errors-with-pyflakes-and-pylint"]], "Checking test coverage": [[28, "checking-test-coverage"]], "Trouble-Shooting Tips": [[28, "trouble-shooting-tips"]], "Docker for Clawpack": [[29, "docker-for-clawpack"]], "A better image for GeoClaw users": [[29, "a-better-image-for-geoclaw-users"]], "Stopping a container": [[29, "stopping-a-container"]], "Restarting a container": [[29, "restarting-a-container"]], "Running Jupyter notebooks": [[29, "running-jupyter-notebooks"]], "Moving files between the docker container and the host machine": [[29, "moving-files-between-the-docker-container-and-the-host-machine"]], "Some other useful docker commands": [[29, "some-other-useful-docker-commands"]], "Creating your own docker image": [[29, "creating-your-own-docker-image"]], "Dockerfiles for binder": [[29, "dockerfiles-for-binder"]], "dtopotools module for moving topography": [[30, "dtopotools-module-for-moving-topography"]], "Documentation auto-generated from the module docstrings": [[30, "module-clawpack.geoclaw.dtopotools"], [33, "module-clawpack.geoclaw.fgmax_tools"], [47, "module-clawpack.geoclaw.util"], [59, "module-clawpack.geoclaw.kmltools"], [151, "module-clawpack.geoclaw.topotools"]], "Fortran 77 vs. Fortran 90 files": [[31, "fortran-77-vs-fortran-90-files"]], "Fixed grid monitoring": [[32, "fixed-grid-monitoring"]], "Input file specification": [[32, "input-file-specification"]], "Different point styles": [[32, "different-point-styles"]], "Other attributes": [[32, "other-attributes"]], "Values to monitor": [[32, "values-to-monitor"]], "Choice of interpolation procedure": [[32, "choice-of-interpolation-procedure"]], "A simple example": [[32, "a-simple-example"]], "Processing and plotting fgmax output": [[32, "processing-and-plotting-fgmax-output"]], "Format of the output files": [[32, "format-of-the-output-files"]], "fgmax_tools module for working with topography data": [[33, "fgmax-tools-module-for-working-with-topography-data"]], "Fixed grid output": [[34, "fixed-grid-output"]], "Running an example": [[35, "running-an-example"], [36, "running-an-example"], [37, "running-an-example"]], "Classic": [[35, "classic"], [36, "classic"], [147, "classic"]], "Testing your Fortran installation and running an example": [[36, "testing-your-fortran-installation-and-running-an-example"]], "More examples": [[36, "more-examples"]], "Testing a PyClaw installation and running an example": [[37, "testing-a-pyclaw-installation-and-running-an-example"]], "From the Jupyter notebook": [[37, "from-the-jupyter-notebook"]], "From the IPython interpreter": [[37, "from-the-ipython-interpreter"]], "From the command line": [[37, "from-the-command-line"], [88, "from-the-command-line"]], "Specifying flagregions for adaptive refinement": [[38, "specifying-flagregions-for-adaptive-refinement"]], "Using ruled rectangles as flagregions": [[38, "using-ruled-rectangles-as-flagregions"]], "Force Cells to be Dry Initially": [[39, "force-cells-to-be-dry-initially"]], "Examples": [[39, "examples"], [44, "examples"], [66, "examples"], [91, "examples"], [130, "examples"]], "Sample topography from a 1/3 arcsecond DEM": [[39, "sample-topography-from-a-1-3-arcsecond-dem"], [66, "sample-topography-from-a-1-3-arcsecond-dem"]], "Creating the force_dry_init array": [[39, "creating-the-force-dry-init-array"]], "Create file to read into GeoClaw": [[39, "create-file-to-read-into-geoclaw"]], "Usage in GeoClaw Fortran code": [[39, "usage-in-geoclaw-fortran-code"]], "Internal GeoClaw modifications": [[39, "internal-geoclaw-modifications"]], "Fortran version": [[40, "fortran-version"]], "Makefiles": [[40, "makefiles"]], "More tips": [[40, "more-tips"]], "Fortran Compilers": [[41, "fortran-compilers"]], "FC environment variable": [[41, "fc-environment-variable"]], "FFLAGS environment variable": [[41, "fflags-environment-variable"]], "LFLAGS environment variable": [[41, "lflags-environment-variable"]], "Pre-Processor and the PPFLAGS environment variable": [[41, "pre-processor-and-the-ppflags-environment-variable"]], "gfortran compiler": [[41, "gfortran-compiler"]], "Intel fortran compiler": [[41, "intel-fortran-compiler"]], "Examples from the book FVMHP": [[42, "examples-from-the-book-fvmhp"]], "Available examples": [[42, "available-examples"]], "Gauges": [[44, "gauges"]], "Gauge parameters in setrun": [[44, "gauge-parameters-in-setrun"]], "Plotting tools": [[44, "plotting-tools"]], "Plotting gauge locations": [[44, "plotting-gauge-locations"]], "GeoClaw Description and Detailed Contents": [[45, "geoclaw-description-and-detailed-contents"]], "Getting started with GeoClaw": [[46, "getting-started-with-geoclaw"]], "Running a GeoClaw code": [[46, "running-a-geoclaw-code"]], "Topography": [[46, "topography"]], "Plotting GeoClaw results": [[46, "plotting-geoclaw-results"]], "Setting up a new example": [[46, "setting-up-a-new-example"]], "geoclaw.util module of utility functions": [[47, "geoclaw-util-module-of-utility-functions"]], "Cautionary Hints on using GeoClaw": [[48, "cautionary-hints-on-using-geoclaw"]], "Tsunami hazard modeling": [[48, "tsunami-hazard-modeling"]], "GeoClaw plotting tools": [[49, "geoclaw-plotting-tools"]], "Plotting water depth or surface elevation": [[49, "plotting-water-depth-or-surface-elevation"]], "Tips on latitude-longitude coordinate axes": [[49, "tips-on-latitude-longitude-coordinate-axes"]], "Keeping track of repository versions with Git": [[50, "keeping-track-of-repository-versions-with-git"]], "Visualizing GeoClaw results in Google Earth": [[51, "visualizing-geoclaw-results-in-google-earth"]], "Basic requirements": [[51, "basic-requirements"]], "Optional GDAL library": [[51, "optional-gdal-library"]], "An example : The Chile 2010 tsunami event": [[51, "an-example-the-chile-2010-tsunami-event"]], "Plotting attributes needed for Google Earth": [[51, "plotting-attributes-needed-for-google-earth"]], "plotdata attributes": [[51, "plotdata-attributes"]], "plotfigure attributes": [[51, "plotfigure-attributes"]], "Creating the figures": [[51, "creating-the-figures"]], "plotaxes attributes": [[51, "plotaxes-attributes"]], "plotitem attributes": [[51, "plotitem-attributes"]], "Adding a colorbar overlay": [[51, "adding-a-colorbar-overlay"]], "Gauge plots": [[51, "gauge-plots"]], "Additional plotdata attributes": [[51, "additional-plotdata-attributes"]], "Plotting tips": [[51, "plotting-tips"]], "KML and KMZ files": [[51, "kml-and-kmz-files"]], "Tiling images for faster loading": [[51, "tiling-images-for-faster-loading"]], "Removing aliasing artifacts": [[51, "removing-aliasing-artifacts"]], "Creating multiple figures at different resolutions": [[51, "creating-multiple-figures-at-different-resolutions"]], "Mapping topography data to latitude/longitude coordinates": [[51, "mapping-topography-data-to-latitude-longitude-coordinates"]], "Publishing your results": [[51, "id1"]], "Using the GPU version of Clawpack": [[52, "using-the-gpu-version-of-clawpack"]], "Grid registration": [[53, "grid-registration"]], "NetCDF files": [[53, "netcdf-files"]], "Guide for updating this documentation": [[54, "guide-for-updating-this-documentation"]], "Git branches and tags": [[54, "git-branches-and-tags"]], "Configuration and style files": [[54, "configuration-and-style-files"]], "Updating the docs for a new release": [[54, "updating-the-docs-for-a-new-release"]], "To generate docs including previous versions": [[54, "to-generate-docs-including-previous-versions"]], "Updating the gallery": [[54, "updating-the-gallery"]], "Updating the webpages": [[54, "updating-the-webpages"]], "Extra files for webpages not built by Sphinx": [[54, "extra-files-for-webpages-not-built-by-sphinx"]], "Pages from other clawpack repositories": [[54, "pages-from-other-clawpack-repositories"]], "Guide for doing a Clawpack release": [[55, "guide-for-doing-a-clawpack-release"]], "Preparation": [[55, "preparation"]], "Version numbers": [[55, "version-numbers"]], "Release candidates": [[55, "release-candidates"]], "Create a tar file and a Github release": [[55, "create-a-tar-file-and-a-github-release"]], "Final release": [[55, "final-release"]], "Pypi": [[55, "pypi"]], "Zenodo": [[55, "zenodo"]], "Updating the documentation": [[55, "updating-the-documentation"]], "Updating the apps repository": [[55, "updating-the-apps-repository"]], "Updating the Dockerfile": [[55, "updating-the-dockerfile"]], "Installing Clawpack": [[56, "installing-clawpack"]], "pip install": [[56, "pip-install"]], "Other Installation Options": [[56, "other-installation-options"]], "Next steps:": [[56, "next-steps"], [57, "next-steps"], [58, "next-steps"]], "Additional options for installing Clawpack": [[57, "additional-options-for-installing-clawpack"]], "tar file": [[57, "tar-file"]], "git clone": [[57, "git-clone"]], "Using conda (does not require a Fortran compiler)": [[57, "using-conda-does-not-require-a-fortran-compiler"]], "Docker": [[57, "docker"]], "Launching an AWS instance with Clawpack installed": [[57, "launching-an-aws-instance-with-clawpack-installed"]], "Installing PyClaw for parallel processing with PETSc": [[57, "installing-pyclaw-for-parallel-processing-with-petsc"]], "pip install instructions": [[58, "pip-install-instructions"]], "Quick Installation of all packages": [[58, "quick-installation-of-all-packages"]], "Quick Installation of only PyClaw": [[58, "quick-installation-of-only-pyclaw"]], "Using pip to install a different version": [[58, "using-pip-to-install-a-different-version"]], "Experimenting with code in the examples directories": [[58, "experimenting-with-code-in-the-examples-directories"]], "Troubleshooting pip install": [[58, "troubleshooting-pip-install"]], "kmltools module of utility functions": [[59, "kmltools-module-of-utility-functions"]], "Lagrangian gauges for particle tracking": [[60, "lagrangian-gauges-for-particle-tracking"]], "Specifying Lagrangian Gauges": [[60, "specifying-lagrangian-gauges"]], "Visclaw tools for plotting": [[60, "visclaw-tools-for-plotting"]], "Clawpack Makefiles": [[62, "clawpack-makefiles"]], "Applications directory Makefiles": [[62, "applications-directory-makefiles"]], "output": [[62, "output"]], "plots": [[62, "plots"]], "Variables": [[62, "variables"]], "Compiler flags": [[62, "compiler-flags"]], "Duplicate Base Source Name": [[62, "duplicate-base-source-name"]], "Library routines in Makefiles": [[63, "library-routines-in-makefiles"]], "Replacing files with the same name as library files": [[63, "replacing-files-with-the-same-name-as-library-files"]], "Using a modified library routine with a different name": [[63, "using-a-modified-library-routine-with-a-different-name"]], "Manning friction term": [[64, "manning-friction-term"]], "The mapc2p function": [[65, "the-mapc2p-function"]], "Marching Front algorithm": [[66, "marching-front-algorithm"]], "Function arguments": [[66, "function-arguments"]], "output array": [[66, "output-array"]], "creating a masked array": [[66, "creating-a-masked-array"]], "topofile mask for initializing dry points": [[66, "topofile-mask-for-initializing-dry-points"]], "fgmax points": [[66, "fgmax-points"]], "flag regions": [[66, "flag-regions"]], "The mask argument": [[66, "the-mask-argument"]], "The previous_pts_chosen argument": [[66, "the-previous-pts-chosen-argument"]], "Finding all points below a given elevation": [[66, "finding-all-points-below-a-given-elevation"]], "Create a buffer zone along shore": [[66, "create-a-buffer-zone-along-shore"]], "Choose points only near shore": [[66, "choose-points-only-near-shore"]], "Write out the masked array indicating fgmax points": [[66, "write-out-the-masked-array-indicating-fgmax-points"]], "Creating an AMR flag region": [[66, "creating-an-amr-flag-region"]], "Determining dry areas below MHW": [[66, "determining-dry-areas-below-mhw"]], "Plotting using Matlab": [[67, "plotting-using-matlab"]], "The Matlab search path": [[67, "the-matlab-search-path"]], "Creating output files": [[67, "creating-output-files"]], "The plotclaw command": [[67, "the-plotclaw-command"]], "The setplot file": [[67, "the-setplot-file"]], "The afterframe file": [[67, "the-afterframe-file"]], "Getting help": [[67, "getting-help"]], "Trouble shooting": [[67, "trouble-shooting"]], "Output files not found": [[67, "output-files-not-found"]], "MaxFrames not set": [[67, "maxframes-not-set"]], "Switching examples": [[67, "switching-examples"]], "Matlab Gallery": [[67, "matlab-gallery"]], "Using NetCDF output": [[68, "using-netcdf-output"]], "To install netcdf": [[68, "to-install-netcdf"]], "To compile with netcdf": [[68, "to-compile-with-netcdf"]], "To plot the results": [[68, "to-plot-the-results"]], "Creating a new application directory": [[69, "creating-a-new-application-directory"]], "Copying an existing example": [[69, "copying-an-existing-example"]], "Earthquake sources: Fault slip and the Okada model": [[70, "earthquake-sources-fault-slip-and-the-okada-model"]], "Fault slip on rectangular subfaults": [[70, "fault-slip-on-rectangular-subfaults"]], "Okada model": [[70, "okada-model"]], "Kinematic rupture": [[70, "kinematic-rupture"]], "Fault slip on triangular subfaults": [[70, "fault-slip-on-triangular-subfaults"]], "Using OpenMP": [[71, "using-openmp"]], "Using OpenMP with AMR": [[71, "using-openmp-with-amr"]], "Fixed grid output in GeoClaw": [[71, "fixed-grid-output-in-geoclaw"]], "Output data formats": [[72, "output-data-formats"]], "ASCII output data format": [[72, "ascii-output-data-format"]], "fort.t0002": [[72, "fort-t0002"]], "fort.q0002": [[72, "fort-q0002"]], "Raw binary output data format": [[72, "raw-binary-output-data-format"]], "NetCDF output data format": [[72, "netcdf-output-data-format"]], "Output of aux arrays": [[72, "output-of-aux-arrays"]], "Which Clawpack solver should I use?": [[73, "which-clawpack-solver-should-i-use"]], "Installation and user interface": [[73, "installation-and-user-interface"]], "Algorithmic differences": [[73, "algorithmic-differences"]], "Parallel computing": [[73, "parallel-computing"]], "Clawpack Community Photos": [[74, "clawpack-community-photos"]], "2016 Developers\u2019 workshop at University of Washington": [[74, "id1"]], "2015 Developers\u2019 workshop at University of Utah": [[74, "id2"]], "2014 HPC3 workshop at KAUST": [[74, "id3"]], "2013 Claw-Dev workshop at UW": [[74, "id4"]], "2012 HPC3 workshop at KAUST": [[74, "id6"]], "2011 coding sprints at UW": [[74, "coding-sprints-at-uw"]], "2010 GeoClaw hacking UW": [[74, "geoclaw-hacking-uw"]], "Plotting examples": [[75, "plotting-examples"]], "Plotting with Visclaw": [[76, "plotting-with-visclaw"]], "Plotting as post-processing": [[76, "plotting-as-post-processing"]], "Plotting on the fly": [[76, "plotting-on-the-fly"]], "Plotting hints and FAQ": [[77, "plotting-hints-and-faq"]], "What\u2019s the difference between make .plots and make plots ?": [[77, "what-s-the-difference-between-make-plots-and-make-plots"]], "How to plot a something other than a component of q?": [[77, "how-to-plot-a-something-other-than-a-component-of-q"]], "How to add another curve to a plot, e.g. the true solution?": [[77, "how-to-add-another-curve-to-a-plot-e-g-the-true-solution"]], "How to change the title in a plot?": [[77, "how-to-change-the-title-in-a-plot"]], "How to specify outdir, the directory to find fort.* files for plotting?": [[77, "how-to-specify-outdir-the-directory-to-find-fort-files-for-plotting"]], "How to specify a different outdir for some plot item?": [[77, "how-to-specify-a-different-outdir-for-some-plot-item"]], "How to set plot parameters that are not provided as attributes of ClawPlotItem?": [[77, "how-to-set-plot-parameters-that-are-not-provided-as-attributes-of-clawplotitem"]], "How to change the size or background color of a figure?": [[77, "how-to-change-the-size-or-background-color-of-a-figure"]], "Specifying colormaps for pcolor or contourf plots": [[77, "specifying-colormaps-for-pcolor-or-contourf-plots"]], "How to debug setplot.py?": [[77, "how-to-debug-setplot-py"]], "Plotting routines for GeoClaw": [[78, "plotting-routines-for-geoclaw"]], "Plotting options in Python": [[79, "plotting-options-in-python"]], "Producing html plots from the command line": [[79, "producing-html-plots-from-the-command-line"]], "Producing a latex file with plots from the command line": [[79, "producing-a-latex-file-with-plots-from-the-command-line"]], "Setting plot parameters with a setplot function": [[79, "setting-plot-parameters-with-a-setplot-function"]], "Interactive plotting with Iplotclaw": [[79, "interactive-plotting-with-iplotclaw"]], "Access to current_data": [[79, "access-to-current-data"]], "printframes": [[79, "printframes"]], "Specifying what and how to plot": [[79, "specifying-what-and-how-to-plot"]], "Installation Prerequisites": [[80, "installation-prerequisites"]], "Operating system": [[80, "operating-system"]], "Fortran": [[80, "fortran"]], "Python": [[80, "python"]], "pip": [[80, "pip"]], "Git": [[80, "git"]], "About PyClaw": [[81, "about-pyclaw"]], "Contributors": [[81, "contributors"]], "PyClaw Basics": [[82, "pyclaw-basics"]], "Understanding Pyclaw Classes": [[83, "understanding-pyclaw-classes"]], "Flow of a Pyclaw Simulation": [[83, "flow-of-a-pyclaw-simulation"]], "Creation of a Pyclaw Solution": [[83, "creation-of-a-pyclaw-solution"]], "Creation of a Pyclaw Solver": [[83, "creation-of-a-pyclaw-solver"]], "Creating and Running a Simulation with Controller": [[83, "creating-and-running-a-simulation-with-controller"]], "Restarting a simulation": [[83, "restarting-a-simulation"]], "Outputting aux values": [[83, "outputting-aux-values"]], "Outputting derived quantities": [[83, "outputting-derived-quantities"], [93, "outputting-derived-quantities"]], "Porting a problem from Clawpack 4.6.x to PyClaw": [[84, "porting-a-problem-from-clawpack-4-6-x-to-pyclaw"]], "Running PyClaw in the cloud": [[85, "running-pyclaw-in-the-cloud"]], "Sage Math Cloud": [[85, "sage-math-cloud"]], "Pyclaw Controller Class": [[86, "pyclaw-controller-class"]], "pyclaw.controller.Controller": [[86, "pyclaw-controller-controller"]], "Pyclaw Limiters": [[87, "pyclaw-limiters"]], "clawpack.pyclaw.limiters.tvd": [[87, "module-clawpack.pyclaw.limiters.tvd"]], "CFL Independent Limiters": [[87, "cfl-independent-limiters"]], "CFL Dependent Limiters": [[87, "cfl-dependent-limiters"]], "Working with PyClaw\u2019s built-in examples": [[88, "working-with-pyclaw-s-built-in-examples"]], "Running and plotting examples": [[88, "running-and-plotting-examples"]], "Interactively in IPython": [[88, "interactively-in-ipython"]], "Built-in examples": [[88, "built-in-examples"]], "Adding new examples": [[88, "adding-new-examples"]], "PyClaw Geometry": [[89, "pyclaw-geometry"]], "Serial Geometry Objects": [[89, "serial-geometry-objects"]], "pyclaw.geometry.Domain": [[89, "pyclaw-geometry-domain"]], "pyclaw.geometry.Patch": [[89, "pyclaw-geometry-patch"]], "pyclaw.geometry.Grid": [[89, "pyclaw-geometry-grid"]], "pyclaw.geometry.Dimension": [[89, "pyclaw-geometry-dimension"]], "Parallel Geometry Objects": [[89, "parallel-geometry-objects"]], "petclaw.geometry.Domain": [[89, "petclaw-geometry-domain"]], "petclaw.geometry.Patch": [[89, "petclaw-geometry-patch"]], "Going Further": [[90, "going-further"]], "Pyclaw": [[91, "pyclaw"]], "PyClaw installation": [[91, "pyclaw-installation"]], "Features": [[91, "features"]], "PyClaw Documentation": [[91, "pyclaw-documentation"]], "PyClaw Modules reference documentation": [[91, "pyclaw-modules-reference-documentation"]], "Riemann Solvers reference documentation": [[91, "riemann-solvers-reference-documentation"]], "Indices and tables": [[91, "indices-and-tables"]], "Citing PyClaw": [[91, "citing-pyclaw"]], "Pyclaw Input/Output Package": [[92, "pyclaw-input-output-package"]], "pyclaw.fileio.ascii": [[92, "module-clawpack.pyclaw.fileio.ascii"]], "pyclaw.fileio.hdf5": [[92, "pyclaw-fileio-hdf5"]], "pyclaw.fileio.netcdf": [[92, "module-clawpack.pyclaw.fileio.netcdf"]], "PyClaw output": [[93, "pyclaw-output"]], "Output frames": [[93, "output-frames"]], "When output is saved/written": [[93, "when-output-is-saved-written"]], "Where and how output is written": [[93, "where-and-how-output-is-written"]], "What output is written": [[93, "what-output-is-written"]], "Outputting functionals": [[93, "outputting-functionals"]], "Using gauges": [[93, "using-gauges"]], "Logging": [[93, "logging"]], "Running in parallel": [[94, "running-in-parallel"]], "Installing PETSc": [[94, "installing-petsc"]], "Testing your installation": [[94, "testing-your-installation"], [147, "testing-your-installation"]], "Running and plotting an example": [[94, "running-and-plotting-an-example"]], "Tips for making your application run correctly in parallel": [[94, "tips-for-making-your-application-run-correctly-in-parallel"]], "Passing options to PETSc": [[94, "passing-options-to-petsc"]], "Plotting PyClaw results": [[95, "plotting-pyclaw-results"]], "Basics": [[95, "basics"]], "Plotting result from parallel runs": [[95, "plotting-result-from-parallel-runs"]], "Setting up your own problem": [[96, "setting-up-your-own-problem"]], "Writing the initialization script": [[96, "writing-the-initialization-script"]], "Setting initial conditions": [[96, "setting-initial-conditions"]], "Setting auxiliary variables": [[96, "setting-auxiliary-variables"]], "Setting boundary conditions": [[96, "setting-boundary-conditions"]], "Setting solver options": [[96, "setting-solver-options"]], "Using your own Riemann solver": [[96, "using-your-own-riemann-solver"]], "Adding source terms": [[96, "adding-source-terms"]], "Setting up the Makefile": [[96, "setting-up-the-makefile"]], "Riemann Solver Package": [[97, "riemann-solver-package"]], "Acoustics": [[97, "acoustics"]], "Advection": [[97, "advection"]], "Burgers Equation": [[97, "burgers-equation"]], "Euler Equations": [[97, "euler-equations"]], "Shallow Water Equations": [[97, "shallow-water-equations"]], "PyClaw Solutions": [[98, "pyclaw-solutions"]], "pyclaw.solution.Solution": [[98, "pyclaw-solution-solution"]], "Using PyClaw\u2019s solvers: Classic and SharpClaw": [[99, "using-pyclaw-s-solvers-classic-and-sharpclaw"]], "SharpClaw Solvers": [[99, "sharpclaw-solvers"]], "pyclaw.sharpclaw": [[99, "pyclaw-sharpclaw"]], "Pyclaw Classic Clawpack Solvers": [[99, "pyclaw-classic-clawpack-solvers"]], "pyclaw.classic.solver": [[99, "pyclaw-classic-solver"]], "Change to Custom BC Function Signatures": [[99, "change-to-custom-bc-function-signatures"]], "Installing PyClaw": [[100, "installing-pyclaw"]], "Dependencies: Python, gfortran, numpy, and matplotlib": [[100, "dependencies-python-gfortran-numpy-and-matplotlib"]], "Obtaining Python, numpy, and matplotlib": [[100, "obtaining-python-numpy-and-matplotlib"]], "Clawpack": [[100, "clawpack"]], "Testing your installation with nose": [[100, "testing-your-installation-with-nose"]], "Next steps": [[100, "next-steps"]], "PyClaw State": [[101, "pyclaw-state"]], "Serial pyclaw.state.State": [[101, "serial-pyclaw-state-state"]], "Parallel petclaw.state.State": [[101, "parallel-petclaw-state-state"]], "Troubleshooting": [[102, "troubleshooting"], [152, "troubleshooting"]], "Compilation errors": [[102, "compilation-errors"]], "Use Fortran-ordered arrays": [[102, "use-fortran-ordered-arrays"]], "Installation": [[102, "installation"]], "PyClaw tutorial: Solve the acoustics equations": [[103, "pyclaw-tutorial-solve-the-acoustics-equations"]], "The Solver": [[103, "the-solver"]], "The domain": [[103, "the-domain"]], "Initial condition": [[103, "initial-condition"]], "Problem-specific parameters": [[103, "problem-specific-parameters"]], "The controller": [[103, "the-controller"]], "Pyclaw Utility Module": [[104, "pyclaw-utility-module"]], "pyclaw.util": [[104, "module-clawpack.pyclaw.util"]], "Python Hints": [[105, "python-hints"]], "Dropping support for Python 2.7": [[105, "dropping-support-for-python-2-7"]], "What is Python?": [[105, "what-is-python"]], "Installation of required modules": [[105, "installation-of-required-modules"]], "References and tutorials": [[105, "references-and-tutorials"]], "Notebooks": [[105, "notebooks"]], "Python path": [[106, "python-path"]], "whichclaw.py": [[106, "whichclaw-py"]], "Which version was imported?": [[106, "which-version-was-imported"]], "sys.path": [[106, "sys-path"]], "easy-install.pth": [[106, "easy-install-pth"]], "PYTHONPATH": [[106, "pythonpath"], [134, "pythonpath"]], "qinit default routines": [[107, "qinit-default-routines"]], "qinit routine in GeoClaw": [[107, "qinit-routine-in-geoclaw"]], "Quick start guide for storm surge modeling": [[108, "quick-start-guide-for-storm-surge-modeling"]], "Quick start guide for tsunami modeling": [[109, "quick-start-guide-for-tsunami-modeling"]], "AMR refinement criteria": [[110, "amr-refinement-criteria"]], "Flagging criteria": [[110, "flagging-criteria"]], "flag2refine": [[110, "flag2refine"]], "Richardson extrapolation": [[110, "richardson-extrapolation"]], "Specifying AMR regions": [[110, "specifying-amr-regions"]], "Implementation": [[110, "implementation"]], "Flagging criteria in GeoClaw": [[110, "flagging-criteria-in-geoclaw"]], "Regression testing": [[111, "regression-testing"]], "Running the tests": [[111, "running-the-tests"], [111, "id2"]], "Fortran codes": [[111, "fortran-codes"]], "Travis continuous integration": [[111, "travis-continuous-integration"]], "Diff tools for checking test output": [[111, "diff-tools-for-checking-test-output"]], "chardiff tool for line-by-line comparison of output files": [[111, "chardiff-tool-for-line-by-line-comparison-of-output-files"]], "imagediff tool for pixel comparison of plots": [[111, "imagediff-tool-for-pixel-comparison-of-plots"]], "Running and writing tests in PyClaw": [[111, "running-and-writing-tests-in-pyclaw"]], "Running serial tests simultaneously": [[111, "running-serial-tests-simultaneously"]], "Running a specific test": [[111, "running-a-specific-test"]], "Doctests": [[111, "doctests"]], "Writing New Tests": [[111, "writing-new-tests"]], "v5.0.0 release notes": [[112, "v5-0-0-release-notes"]], "Changes to classic, riemann, amrclaw, geoclaw, visclaw": [[112, "changes-to-classic-riemann-amrclaw-geoclaw-visclaw"]], "v5.1.0 release notes": [[113, "v5-1-0-release-notes"]], "v5.2.0 release notes": [[114, "v5-2-0-release-notes"]], "v5.2.1 release notes": [[115, "v5-2-1-release-notes"]], "v5.2.2 release notes": [[116, "v5-2-2-release-notes"]], "v5.3.0 release notes": [[117, "v5-3-0-release-notes"]], "v5.3.1 release notes": [[118, "v5-3-1-release-notes"]], "v5.4.0 release notes": [[119, "v5-4-0-release-notes"]], "Global changes": [[119, "global-changes"]], "v5.4.1 release notes": [[120, "v5-4-1-release-notes"]], "Changes to documentation": [[120, "changes-to-documentation"], [121, "changes-to-documentation"]], "v5.5.0 release notes": [[121, "v5-5-0-release-notes"]], "v5.6.0 release notes": [[122, "v5-6-0-release-notes"]], "v5.6.1 release notes": [[123, "v5-6-1-release-notes"]], "v5.7.0 release notes": [[124, "v5-7-0-release-notes"]], "Python support": [[124, "python-support"]], "v5.7.1 release notes": [[125, "v5-7-1-release-notes"]], "Releases of Clawpack and release notes": [[126, "releases-of-clawpack-and-release-notes"]], "Other notes:": [[126, "other-notes"]], "Releases:": [[126, "id1"]], "Clawpack 4.x": [[126, "clawpack-4-x"]], "Checkpointing and restarting": [[127, "checkpointing-and-restarting"]], "Checkpointing a computation": [[127, "checkpointing-a-computation"]], "Restarting a computation": [[127, "restarting-a-computation"]], "Modifying the Makefile for a restart": [[127, "modifying-the-makefile-for-a-restart"]], "Output files after a restart": [[127, "output-files-after-a-restart"]], "Riemann solvers": [[128, "riemann-solvers"]], "One-dimensional Riemann solver": [[128, "one-dimensional-riemann-solver"]], "Pointwise Riemann solvers": [[128, "pointwise-riemann-solvers"]], "f-wave Riemann solvers": [[128, "f-wave-riemann-solvers"]], "2D Riemann solvers": [[128, "d-riemann-solvers"]], "Using a custom solver": [[128, "using-a-custom-solver"]], "Adding a solver to the Riemann repository": [[128, "adding-a-solver-to-the-riemann-repository"]], "Shallow water Riemann solvers in Clawpack": [[129, "shallow-water-riemann-solvers-in-clawpack"]], "One dimension": [[129, "one-dimension"]], "Two dimensions": [[129, "two-dimensions"]], "Layered shallow water equations": [[129, "layered-shallow-water-equations"]], "Potentially useful contributions (what\u2019s missing)": [[129, "potentially-useful-contributions-whats-missing"]], "Demonstrations": [[129, "demonstrations"]], "Roe": [[129, "roe"]], "HLL": [[129, "hll"]], "Ruled Rectangles": [[130, "ruled-rectangles"]], "Relation to convex polygons": [[130, "relation-to-convex-polygons"]], "Other attributes and methods": [[130, "other-attributes-and-methods"]], "ds": [[130, "ds"]], "slu": [[130, "slu"]], "bounding_box": [[130, "bounding-box"]], "mask_outside": [[130, "mask-outside"]], "read and write, and instantiating from a file": [[130, "read-and-write-and-instantiating-from-a-file"]], "make_kml": [[130, "make-kml"]], "A GeoClaw AMR flag region": [[130, "a-geoclaw-amr-flag-region"]], "A simple rectangle": [[130, "a-simple-rectangle"]], "Defining a Ruled Rectangle covering selected cells": [[130, "defining-a-ruled-rectangle-covering-selected-cells"]], "Example covering the continental shelf": [[130, "example-covering-the-continental-shelf"]], "Setting sealevel": [[131, "setting-sealevel"]], "Set Eta Init \u2013 spatially varying initial surface elevation": [[132, "set-eta-init-spatially-varying-initial-surface-elevation"]], "Default behavior, adjusting sea level by seismic deformation": [[132, "default-behavior-adjusting-sea-level-by-seismic-deformation"]], "Other use cases": [[132, "other-use-cases"]], "setaux default routines": [[133, "setaux-default-routines"]], "setaux routine in GeoClaw": [[133, "setaux-routine-in-geoclaw"]], "Set environment variables": [[134, "set-environment-variables"]], "CLAW": [[134, "claw"]], "FC": [[134, "fc"]], "Using setplot.py to specify the desired plots": [[135, "using-setplot-py-to-specify-the-desired-plots"]], "Plotting Data Objects": [[135, "plotting-data-objects"]], "Overview": [[135, "overview"]], "Specifying classic run-time parameters in setrun.py": [[136, "specifying-classic-run-time-parameters-in-setrun-py"]], "Input": [[136, "input"], [137, "input"]], "Output": [[136, "output"], [137, "output"]], "Run-time parameters": [[136, "run-time-parameters"], [137, "run-time-parameters"]], "Specifying AMRClaw run-time parameters in setrun.py": [[137, "specifying-amrclaw-run-time-parameters-in-setrun-py"]], "Special AMR parameters": [[137, "special-amr-parameters"]], "Debugging flags for additional printing": [[137, "debugging-flags-for-additional-printing"]], "Sample setrun.py module for AMRClaw": [[138, "sample-setrun-py-module-for-amrclaw"]], "Specifying GeoClaw parameters in setrun.py": [[139, "specifying-geoclaw-parameters-in-setrun-py"]], "Additional AMR parameters": [[139, "additional-amr-parameters"]], "General geo parameters": [[139, "general-geo-parameters"]], "Topography data file parameters": [[139, "topography-data-file-parameters"]], "qinit data file parameters": [[139, "qinit-data-file-parameters"]], "AMR refinement region parameters": [[139, "amr-refinement-region-parameters"]], "Fixed grid output parameters": [[139, "fixed-grid-output-parameters"]], "Fixed grid maximum monitoring / arrival times": [[139, "fixed-grid-maximum-monitoring-arrival-times"]], "Storm Specification Data": [[139, "storm-specification-data"]], "Sample setrun.py module for classic Clawpack": [[140, "sample-setrun-py-module-for-classic-clawpack"]], "Saving and sharing results": [[141, "saving-and-sharing-results"]], "Making webpages of plots": [[141, "making-webpages-of-plots"]], "Sharing your results": [[141, "sharing-your-results"]], "IPython notebooks": [[141, "ipython-notebooks"]], "Compiling the Sphinx documentation locally": [[142, "compiling-the-sphinx-documentation-locally"]], "src1d default routines": [[143, "src1d-default-routines"]], "src1d routine in GeoClaw": [[143, "src1d-routine-in-geoclaw"]], "src default routines": [[144, "src-default-routines"]], "src routine in GeoClaw": [[144, "src-routine-in-geoclaw"]], "Storm Specification Class and Tools": [[145, "storm-specification-class-and-tools"]], "Sources for Storm Surge Data": [[146, "sources-for-storm-surge-data"]], "Timing Statistics": [[148, "timing-statistics"]], "Topography data": [[149, "topography-data"]], "Downloading topography files": [[149, "downloading-topography-files"]], "NetCDF format": [[149, "netcdf-format"]], "Topography displacement files": [[149, "topography-displacement-files"]], "qinit data file": [[149, "qinit-data-file"]], "Python tools for working with topo and dtopo": [[150, "python-tools-for-working-with-topo-and-dtopo"]], "topotools module for working with topography data": [[151, "topotools-module-for-working-with-topography-data"]], "Troubleshooting Installation": [[152, "troubleshooting-installation"]], "Troubleshooting Fortran:": [[152, "troubleshooting-fortran"]], "Setting the Fortran compiler to be used by f2py (pip)": [[152, "setting-the-fortran-compiler-to-be-used-by-f2py-pip"]], "Trouble compiling Fortran code at the command line": [[152, "trouble-compiling-fortran-code-at-the-command-line"]], "Trouble running \u201cmake .exe\u201d": [[152, "trouble-running-make-exe"]], "Trouble running \u201cmake .data\u201d": [[152, "trouble-running-make-data"]], "Trouble running \u201cmake .output\u201d": [[152, "trouble-running-make-output"]], "Trouble running \u201cmake .plots\u201d": [[152, "trouble-running-make-plots"]], "Some sources of tsunami data": [[153, "some-sources-of-tsunami-data"]], "Topography / bathymetry": [[153, "topography-bathymetry"]], "Earthquake source models": [[153, "earthquake-source-models"]], "DART buoy data": [[153, "dart-buoy-data"]], "Tide gauges": [[153, "tide-gauges"]], "User files required for the Fortran code": [[154, "user-files-required-for-the-fortran-code"]], "Specifying the initial conditions": [[154, "specifying-the-initial-conditions"]], "Specifying the Riemann solver": [[154, "specifying-the-riemann-solver"]], "Specifying boundary conditions": [[154, "specifying-boundary-conditions"]], "Specifying problem-specific data": [[154, "specifying-problem-specific-data"]], "Specifying spatially-varying data using setaux": [[154, "specifying-spatially-varying-data-using-setaux"]], "Using b4step for work to be done before each time step": [[154, "using-b4step-for-work-to-be-done-before-each-time-step"]], "Using src for source terms": [[154, "using-src-for-source-terms"]], "Using src1d for source terms with AMRClaw": [[154, "using-src1d-for-source-terms-with-amrclaw"]], "Plotting with VisIt": [[155, "plotting-with-visit"]], "Clawpack Virtual Machine": [[156, "clawpack-virtual-machine"]], "Wave-propagation algorithms": [[157, "wave-propagation-algorithms"]], "One space dimension": [[157, "one-space-dimension"]], "Godunov\u2019s method": [[157, "godunov-s-method"]], "High-resolution methods": [[157, "high-resolution-methods"]], "f-wave formulation": [[157, "f-wave-formulation"]], "Capacity functions": [[157, "capacity-functions"]], "Source terms": [[157, "source-terms"]]}, "indexentries": {"clawplotaxes (built-in class)": [[0, "ClawPlotAxes"]], "gethandle()": [[0, "gethandle"], [2, "gethandle"], [3, "gethandle"]], "new_plotitem()": [[0, "new_plotitem"]], "clawplotdata (built-in class)": [[1, "ClawPlotData"]], "clearfigures()": [[1, "clearfigures"]], "clearframes()": [[1, "clearframes"]], "getaxes()": [[1, "getaxes"]], "getfigure()": [[1, "getfigure"]], "getframe()": [[1, "getframe"], [3, "getframe"]], "getitem()": [[1, "getitem"]], "iplotclaw()": [[1, "iplotclaw"]], "new_plotfigure()": [[1, "new_plotfigure"]], "plotframe()": [[1, "plotframe"]], "printframes()": [[1, "printframes"]], "showitems()": [[1, "showitems"]], "clawplotfigure (built-in class)": [[2, "ClawPlotFigure"]], "new_plotaxes()": [[2, "new_plotaxes"]], "clawplotitem (built-in class)": [[3, "ClawPlotItem"]], "csvfault (class in clawpack.geoclaw.dtopotools)": [[30, "clawpack.geoclaw.dtopotools.CSVFault"]], "dtopography (class in clawpack.geoclaw.dtopotools)": [[30, "clawpack.geoclaw.dtopotools.DTopography"]], "fault (class in clawpack.geoclaw.dtopotools)": [[30, "clawpack.geoclaw.dtopotools.Fault"]], "mo() (clawpack.geoclaw.dtopotools.fault method)": [[30, "clawpack.geoclaw.dtopotools.Fault.Mo"]], "mo() (clawpack.geoclaw.dtopotools.subfault method)": [[30, "clawpack.geoclaw.dtopotools.SubFault.Mo"]], "mw() (clawpack.geoclaw.dtopotools.fault method)": [[30, "clawpack.geoclaw.dtopotools.Fault.Mw"]], "mw() (in module clawpack.geoclaw.dtopotools)": [[30, "clawpack.geoclaw.dtopotools.Mw"]], "siftfault (class in clawpack.geoclaw.dtopotools)": [[30, "clawpack.geoclaw.dtopotools.SiftFault"]], "subfault (class in clawpack.geoclaw.dtopotools)": [[30, "clawpack.geoclaw.dtopotools.SubFault"]], "subdividedplanefault (class in clawpack.geoclaw.dtopotools)": [[30, "clawpack.geoclaw.dtopotools.SubdividedPlaneFault"]], "tensorproductfault (class in clawpack.geoclaw.dtopotools)": [[30, "clawpack.geoclaw.dtopotools.TensorProductFault"]], "ucsbfault (class in clawpack.geoclaw.dtopotools)": [[30, "clawpack.geoclaw.dtopotools.UCSBFault"]], "calculate_geometry() (clawpack.geoclaw.dtopotools.subfault method)": [[30, "clawpack.geoclaw.dtopotools.SubFault.calculate_geometry"]], "calculate_geometry_triangles() (clawpack.geoclaw.dtopotools.subfault method)": [[30, "clawpack.geoclaw.dtopotools.SubFault.calculate_geometry_triangles"]], "centers (clawpack.geoclaw.dtopotools.subfault property)": [[30, "clawpack.geoclaw.dtopotools.SubFault.centers"]], "clawpack.geoclaw.dtopotools": [[30, "module-clawpack.geoclaw.dtopotools"]], "containing_rect() (clawpack.geoclaw.dtopotools.fault method)": [[30, "clawpack.geoclaw.dtopotools.Fault.containing_rect"]], "convert_to_standard_units() (clawpack.geoclaw.dtopotools.subfault method)": [[30, "clawpack.geoclaw.dtopotools.SubFault.convert_to_standard_units"]], "coordinate_specification (clawpack.geoclaw.dtopotools.subfault attribute)": [[30, "clawpack.geoclaw.dtopotools.SubFault.coordinate_specification"]], "corners (clawpack.geoclaw.dtopotools.subfault property)": [[30, "clawpack.geoclaw.dtopotools.SubFault.corners"]], "create_dtopo_xy() (clawpack.geoclaw.dtopotools.fault method)": [[30, "clawpack.geoclaw.dtopotools.Fault.create_dtopo_xy"]], "create_dtopography() (clawpack.geoclaw.dtopotools.fault method)": [[30, "clawpack.geoclaw.dtopotools.Fault.create_dtopography"]], "dz_at_t() (clawpack.geoclaw.dtopotools.dtopography method)": [[30, "clawpack.geoclaw.dtopotools.DTopography.dZ_at_t"]], "dz_max() (clawpack.geoclaw.dtopotools.dtopography method)": [[30, "clawpack.geoclaw.dtopotools.DTopography.dZ_max"]], "depth (clawpack.geoclaw.dtopotools.subfault attribute)": [[30, "clawpack.geoclaw.dtopotools.SubFault.depth"]], "dip (clawpack.geoclaw.dtopotools.subfault attribute)": [[30, "clawpack.geoclaw.dtopotools.SubFault.dip"]], "dynamic_slip() (clawpack.geoclaw.dtopotools.subfault method)": [[30, "clawpack.geoclaw.dtopotools.SubFault.dynamic_slip"]], "gauss_pts (clawpack.geoclaw.dtopotools.subfault property)": [[30, "clawpack.geoclaw.dtopotools.SubFault.gauss_pts"]], "latitude (clawpack.geoclaw.dtopotools.subfault attribute)": [[30, "clawpack.geoclaw.dtopotools.SubFault.latitude"]], "length (clawpack.geoclaw.dtopotools.subfault attribute)": [[30, "clawpack.geoclaw.dtopotools.SubFault.length"]], "longitude (clawpack.geoclaw.dtopotools.subfault attribute)": [[30, "clawpack.geoclaw.dtopotools.SubFault.longitude"]], "module": [[30, "module-clawpack.geoclaw.dtopotools"], [33, "module-clawpack.geoclaw.fgmax_tools"], [47, "module-clawpack.geoclaw.util"], [59, "module-clawpack.geoclaw.kmltools"], [87, "module-clawpack.pyclaw.limiters.tvd"], [92, "module-clawpack.pyclaw.fileio.ascii"], [92, "module-clawpack.pyclaw.fileio.netcdf"], [97, "module-clawpack.riemann.acoustics_1D_py"], [97, "module-clawpack.riemann.advection_1D_py"], [97, "module-clawpack.riemann.burgers_1D_py"], [97, "module-clawpack.riemann.euler_1D_py"], [97, "module-clawpack.riemann.shallow_1D_py"], [104, "module-clawpack.pyclaw.util"], [145, "module-clawpack.geoclaw.surge.storm"], [151, "module-clawpack.geoclaw.topotools"]], "mu (clawpack.geoclaw.dtopotools.subfault attribute)": [[30, "clawpack.geoclaw.dtopotools.SubFault.mu"]], "okada() (clawpack.geoclaw.dtopotools.subfault method)": [[30, "clawpack.geoclaw.dtopotools.SubFault.okada"]], "plot_dz_colors() (clawpack.geoclaw.dtopotools.dtopography method)": [[30, "clawpack.geoclaw.dtopotools.DTopography.plot_dZ_colors"]], "plot_dz_colors() (in module clawpack.geoclaw.dtopotools)": [[30, "clawpack.geoclaw.dtopotools.plot_dZ_colors"]], "plot_dz_contours() (clawpack.geoclaw.dtopotools.dtopography method)": [[30, "clawpack.geoclaw.dtopotools.DTopography.plot_dZ_contours"]], "plot_dz_contours() (in module clawpack.geoclaw.dtopotools)": [[30, "clawpack.geoclaw.dtopotools.plot_dZ_contours"]], "plot_subfaults() (clawpack.geoclaw.dtopotools.fault method)": [[30, "clawpack.geoclaw.dtopotools.Fault.plot_subfaults"]], "plot_subfaults_depth() (clawpack.geoclaw.dtopotools.fault method)": [[30, "clawpack.geoclaw.dtopotools.Fault.plot_subfaults_depth"]], "rake (clawpack.geoclaw.dtopotools.subfault attribute)": [[30, "clawpack.geoclaw.dtopotools.SubFault.rake"]], "read() (clawpack.geoclaw.dtopotools.csvfault method)": [[30, "clawpack.geoclaw.dtopotools.CSVFault.read"]], "read() (clawpack.geoclaw.dtopotools.dtopography method)": [[30, "clawpack.geoclaw.dtopotools.DTopography.read"]], "read() (clawpack.geoclaw.dtopotools.fault method)": [[30, "clawpack.geoclaw.dtopotools.Fault.read"]], "read() (clawpack.geoclaw.dtopotools.ucsbfault method)": [[30, "clawpack.geoclaw.dtopotools.UCSBFault.read"]], "rise_fraction() (in module clawpack.geoclaw.dtopotools)": [[30, "clawpack.geoclaw.dtopotools.rise_fraction"]], "rise_shape (clawpack.geoclaw.dtopotools.subfault attribute)": [[30, "clawpack.geoclaw.dtopotools.SubFault.rise_shape"]], "rise_time (clawpack.geoclaw.dtopotools.subfault attribute)": [[30, "clawpack.geoclaw.dtopotools.SubFault.rise_time"]], "rise_time_starting (clawpack.geoclaw.dtopotools.subfault attribute)": [[30, "clawpack.geoclaw.dtopotools.SubFault.rise_time_starting"]], "rupture_time (clawpack.geoclaw.dtopotools.subfault attribute)": [[30, "clawpack.geoclaw.dtopotools.SubFault.rupture_time"]], "rupture_type (clawpack.geoclaw.dtopotools.subfault attribute)": [[30, "clawpack.geoclaw.dtopotools.SubFault.rupture_type"]], "set_corners() (clawpack.geoclaw.dtopotools.subfault method)": [[30, "clawpack.geoclaw.dtopotools.SubFault.set_corners"]], "set_dynamic_slip() (clawpack.geoclaw.dtopotools.fault method)": [[30, "clawpack.geoclaw.dtopotools.Fault.set_dynamic_slip"]], "set_subfaults() (clawpack.geoclaw.dtopotools.siftfault method)": [[30, "clawpack.geoclaw.dtopotools.SiftFault.set_subfaults"]], "slip (clawpack.geoclaw.dtopotools.subfault attribute)": [[30, "clawpack.geoclaw.dtopotools.SubFault.slip"]], "strike (clawpack.geoclaw.dtopotools.subfault attribute)": [[30, "clawpack.geoclaw.dtopotools.SubFault.strike"]], "strike_direction() (in module clawpack.geoclaw.dtopotools)": [[30, "clawpack.geoclaw.dtopotools.strike_direction"]], "subdivide() (clawpack.geoclaw.dtopotools.subdividedplanefault method)": [[30, "clawpack.geoclaw.dtopotools.SubdividedPlaneFault.subdivide"]], "width (clawpack.geoclaw.dtopotools.subfault attribute)": [[30, "clawpack.geoclaw.dtopotools.SubFault.width"]], "write() (clawpack.geoclaw.dtopotools.dtopography method)": [[30, "clawpack.geoclaw.dtopotools.DTopography.write"]], "write() (clawpack.geoclaw.dtopotools.fault method)": [[30, "clawpack.geoclaw.dtopotools.Fault.write"]], "fgmaxgrid (class in clawpack.geoclaw.fgmax_tools)": [[33, "clawpack.geoclaw.fgmax_tools.FGmaxGrid"]], "adjust_fgmax_1d() (in module clawpack.geoclaw.fgmax_tools)": [[33, "clawpack.geoclaw.fgmax_tools.adjust_fgmax_1d"]], "bounding_box() (clawpack.geoclaw.fgmax_tools.fgmaxgrid method)": [[33, "clawpack.geoclaw.fgmax_tools.FGmaxGrid.bounding_box"]], "clawpack.geoclaw.fgmax_tools": [[33, "module-clawpack.geoclaw.fgmax_tools"]], "interp_dz() (clawpack.geoclaw.fgmax_tools.fgmaxgrid method)": [[33, "clawpack.geoclaw.fgmax_tools.FGmaxGrid.interp_dz"]], "ps4_to_arrays() (clawpack.geoclaw.fgmax_tools.fgmaxgrid method)": [[33, "clawpack.geoclaw.fgmax_tools.FGmaxGrid.ps4_to_arrays"]], "read_fgmax_grids_data() (clawpack.geoclaw.fgmax_tools.fgmaxgrid method)": [[33, "clawpack.geoclaw.fgmax_tools.FGmaxGrid.read_fgmax_grids_data"]], "read_output() (clawpack.geoclaw.fgmax_tools.fgmaxgrid method)": [[33, "clawpack.geoclaw.fgmax_tools.FGmaxGrid.read_output"]], "write_to_fgmax_data() (clawpack.geoclaw.fgmax_tools.fgmaxgrid method)": [[33, "clawpack.geoclaw.fgmax_tools.FGmaxGrid.write_to_fgmax_data"]], "bearing() (in module clawpack.geoclaw.util)": [[47, "clawpack.geoclaw.util.bearing"]], "clawpack.geoclaw.util": [[47, "module-clawpack.geoclaw.util"]], "dist_latlong2meters() (in module clawpack.geoclaw.util)": [[47, "clawpack.geoclaw.util.dist_latlong2meters"]], "dist_meters2latlong() (in module clawpack.geoclaw.util)": [[47, "clawpack.geoclaw.util.dist_meters2latlong"]], "dms2decimal() (in module clawpack.geoclaw.util)": [[47, "clawpack.geoclaw.util.dms2decimal"]], "fetch_noaa_tide_data() (in module clawpack.geoclaw.util)": [[47, "clawpack.geoclaw.util.fetch_noaa_tide_data"]], "haversine() (in module clawpack.geoclaw.util)": [[47, "clawpack.geoclaw.util.haversine"]], "inv_haversine() (in module clawpack.geoclaw.util)": [[47, "clawpack.geoclaw.util.inv_haversine"]], "box2kml() (in module clawpack.geoclaw.kmltools)": [[59, "clawpack.geoclaw.kmltools.box2kml"]], "clawpack.geoclaw.kmltools": [[59, "module-clawpack.geoclaw.kmltools"]], "deg2dms() (in module clawpack.geoclaw.kmltools)": [[59, "clawpack.geoclaw.kmltools.deg2dms"]], "dtopo2kml() (in module clawpack.geoclaw.kmltools)": [[59, "clawpack.geoclaw.kmltools.dtopo2kml"]], "f2s() (in module clawpack.geoclaw.kmltools)": [[59, "clawpack.geoclaw.kmltools.f2s"]], "fgmax2kml() (in module clawpack.geoclaw.kmltools)": [[59, "clawpack.geoclaw.kmltools.fgmax2kml"]], "fgout2kml() (in module clawpack.geoclaw.kmltools)": [[59, "clawpack.geoclaw.kmltools.fgout2kml"]], "gauges2kml() (in module clawpack.geoclaw.kmltools)": [[59, "clawpack.geoclaw.kmltools.gauges2kml"]], "kml_build_colorbar() (in module clawpack.geoclaw.kmltools)": [[59, "clawpack.geoclaw.kmltools.kml_build_colorbar"]], "kml_cb() (in module clawpack.geoclaw.kmltools)": [[59, "clawpack.geoclaw.kmltools.kml_cb"]], "kml_png() (in module clawpack.geoclaw.kmltools)": [[59, "clawpack.geoclaw.kmltools.kml_png"]], "kml_timespan() (in module clawpack.geoclaw.kmltools)": [[59, "clawpack.geoclaw.kmltools.kml_timespan"]], "line2kml() (in module clawpack.geoclaw.kmltools)": [[59, "clawpack.geoclaw.kmltools.line2kml"]], "make_input_data_kmls() (in module clawpack.geoclaw.kmltools)": [[59, "clawpack.geoclaw.kmltools.make_input_data_kmls"]], "pcolorcells_for_kml() (in module clawpack.geoclaw.kmltools)": [[59, "clawpack.geoclaw.kmltools.pcolorcells_for_kml"]], "png2kml() (in module clawpack.geoclaw.kmltools)": [[59, "clawpack.geoclaw.kmltools.png2kml"]], "poly2kml() (in module clawpack.geoclaw.kmltools)": [[59, "clawpack.geoclaw.kmltools.poly2kml"]], "quad2kml() (in module clawpack.geoclaw.kmltools)": [[59, "clawpack.geoclaw.kmltools.quad2kml"]], "regions2kml() (in module clawpack.geoclaw.kmltools)": [[59, "clawpack.geoclaw.kmltools.regions2kml"]], "topo2kml() (in module clawpack.geoclaw.kmltools)": [[59, "clawpack.geoclaw.kmltools.topo2kml"]], "topo2kmz() (in module clawpack.geoclaw.kmltools)": [[59, "clawpack.geoclaw.kmltools.topo2kmz"]], "controller (class in clawpack.pyclaw.controller)": [[86, "clawpack.pyclaw.controller.Controller"]], "f_file_name (clawpack.pyclaw.controller.controller attribute)": [[86, "clawpack.pyclaw.controller.Controller.F_file_name"]], "f_path (clawpack.pyclaw.controller.controller property)": [[86, "clawpack.pyclaw.controller.Controller.F_path"]], "check_validity() (clawpack.pyclaw.controller.controller method)": [[86, "clawpack.pyclaw.controller.Controller.check_validity"]], "compute_f (clawpack.pyclaw.controller.controller attribute)": [[86, "clawpack.pyclaw.controller.Controller.compute_F"]], "compute_p (clawpack.pyclaw.controller.controller attribute)": [[86, "clawpack.pyclaw.controller.Controller.compute_p"]], "file_prefix_p (clawpack.pyclaw.controller.controller attribute)": [[86, "clawpack.pyclaw.controller.Controller.file_prefix_p"]], "frames (clawpack.pyclaw.controller.controller attribute)": [[86, "clawpack.pyclaw.controller.Controller.frames"]], "keep_copy (clawpack.pyclaw.controller.controller attribute)": [[86, "clawpack.pyclaw.controller.Controller.keep_copy"]], "nstepout (clawpack.pyclaw.controller.controller attribute)": [[86, "clawpack.pyclaw.controller.Controller.nstepout"]], "num_output_times (clawpack.pyclaw.controller.controller attribute)": [[86, "clawpack.pyclaw.controller.Controller.num_output_times"]], "out_times (clawpack.pyclaw.controller.controller attribute)": [[86, "clawpack.pyclaw.controller.Controller.out_times"]], "outdir (clawpack.pyclaw.controller.controller attribute)": [[86, "clawpack.pyclaw.controller.Controller.outdir"]], "outdir_p (clawpack.pyclaw.controller.controller property)": [[86, "clawpack.pyclaw.controller.Controller.outdir_p"]], "output_file_prefix (clawpack.pyclaw.controller.controller attribute)": [[86, "clawpack.pyclaw.controller.Controller.output_file_prefix"]], "output_format (clawpack.pyclaw.controller.controller attribute)": [[86, "clawpack.pyclaw.controller.Controller.output_format"]], "output_options (clawpack.pyclaw.controller.controller attribute)": [[86, "clawpack.pyclaw.controller.Controller.output_options"]], "output_style (clawpack.pyclaw.controller.controller attribute)": [[86, "clawpack.pyclaw.controller.Controller.output_style"]], "overwrite (clawpack.pyclaw.controller.controller attribute)": [[86, "clawpack.pyclaw.controller.Controller.overwrite"]], "plot() (clawpack.pyclaw.controller.controller method)": [[86, "clawpack.pyclaw.controller.Controller.plot"]], "plotdata (clawpack.pyclaw.controller.controller attribute)": [[86, "clawpack.pyclaw.controller.Controller.plotdata"]], "run() (clawpack.pyclaw.controller.controller method)": [[86, "clawpack.pyclaw.controller.Controller.run"]], "rundir 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(clawpack.pyclaw.controller.controller attribute)": [[86, "clawpack.pyclaw.controller.Controller.write_aux_init"]], "xclawcmd (clawpack.pyclaw.controller.controller attribute)": [[86, "clawpack.pyclaw.controller.Controller.xclawcmd"]], "xclawerr (clawpack.pyclaw.controller.controller attribute)": [[86, "clawpack.pyclaw.controller.Controller.xclawerr"]], "xclawout (clawpack.pyclaw.controller.controller attribute)": [[86, "clawpack.pyclaw.controller.Controller.xclawout"]], "xdir (clawpack.pyclaw.controller.controller attribute)": [[86, "clawpack.pyclaw.controller.Controller.xdir"]], "arora_roe() (in module clawpack.pyclaw.limiters.tvd)": [[87, "clawpack.pyclaw.limiters.tvd.arora_roe"]], "beta_limiter() (in module clawpack.pyclaw.limiters.tvd)": [[87, "clawpack.pyclaw.limiters.tvd.beta_limiter"]], "cada_torrilhon_limiter() (in module clawpack.pyclaw.limiters.tvd)": [[87, "clawpack.pyclaw.limiters.tvd.cada_torrilhon_limiter"]], "cada_torrilhon_limiter_nonlinear() (in module 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(clawpack.pyclaw.geometry.dimension property)": [[89, "clawpack.pyclaw.geometry.Dimension.centers"]], "centers_with_ghost() (clawpack.pyclaw.geometry.dimension method)": [[89, "clawpack.pyclaw.geometry.Dimension.centers_with_ghost"]], "delta (clawpack.pyclaw.geometry.dimension property)": [[89, "clawpack.pyclaw.geometry.Dimension.delta"]], "delta (clawpack.pyclaw.geometry.patch property)": [[89, "clawpack.pyclaw.geometry.Patch.delta"]], "dimensional_split (clawpack.petclaw.geometry.domain attribute)": [[89, "clawpack.petclaw.geometry.Domain.dimensional_split"]], "dimensions (clawpack.pyclaw.geometry.grid property)": [[89, "clawpack.pyclaw.geometry.Grid.dimensions"]], "dimensions (clawpack.pyclaw.geometry.patch property)": [[89, "clawpack.pyclaw.geometry.Patch.dimensions"]], "fwave (clawpack.petclaw.geometry.domain attribute)": [[89, "clawpack.petclaw.geometry.Domain.fwave"]], "gauge_dir_name (clawpack.pyclaw.geometry.grid attribute)": [[89, "clawpack.pyclaw.geometry.Grid.gauge_dir_name"]], "gauge_file_names (clawpack.pyclaw.geometry.grid attribute)": [[89, "clawpack.pyclaw.geometry.Grid.gauge_file_names"]], "gauge_files (clawpack.pyclaw.geometry.grid attribute)": [[89, "clawpack.pyclaw.geometry.Grid.gauge_files"]], "gauges (clawpack.pyclaw.geometry.grid attribute)": [[89, "clawpack.pyclaw.geometry.Grid.gauges"]], "get_dim_attribute() (clawpack.pyclaw.geometry.grid method)": [[89, "clawpack.pyclaw.geometry.Grid.get_dim_attribute"]], "get_dim_attribute() (clawpack.pyclaw.geometry.patch method)": [[89, "clawpack.pyclaw.geometry.Patch.get_dim_attribute"]], "grid (clawpack.pyclaw.geometry.domain property)": [[89, "clawpack.pyclaw.geometry.Domain.grid"]], "kernel_language (clawpack.petclaw.geometry.domain attribute)": [[89, "clawpack.petclaw.geometry.Domain.kernel_language"]], "level (clawpack.pyclaw.geometry.patch attribute)": [[89, "clawpack.pyclaw.geometry.Patch.level"]], "lower_global (clawpack.pyclaw.geometry.patch property)": [[89, "clawpack.pyclaw.geometry.Patch.lower_global"]], "mthlim (clawpack.petclaw.geometry.domain attribute)": [[89, "clawpack.petclaw.geometry.Domain.mthlim"]], "name (clawpack.pyclaw.geometry.patch property)": [[89, "clawpack.pyclaw.geometry.Patch.name"]], "nodes (clawpack.pyclaw.geometry.dimension property)": [[89, "clawpack.pyclaw.geometry.Dimension.nodes"]], "nodes_with_ghost() (clawpack.pyclaw.geometry.dimension method)": [[89, "clawpack.pyclaw.geometry.Dimension.nodes_with_ghost"]], "num_cells_global (clawpack.pyclaw.geometry.patch property)": [[89, "clawpack.pyclaw.geometry.Patch.num_cells_global"]], "num_dim (clawpack.pyclaw.geometry.domain property)": [[89, "clawpack.pyclaw.geometry.Domain.num_dim"]], "num_dim (clawpack.pyclaw.geometry.grid property)": [[89, "clawpack.pyclaw.geometry.Grid.num_dim"]], "num_dim (clawpack.pyclaw.geometry.patch property)": [[89, "clawpack.pyclaw.geometry.Patch.num_dim"]], "order (clawpack.petclaw.geometry.domain attribute)": [[89, "clawpack.petclaw.geometry.Domain.order"]], "p_center() (clawpack.pyclaw.geometry.grid method)": [[89, "clawpack.pyclaw.geometry.Grid.p_center"]], "p_centers (clawpack.pyclaw.geometry.grid property)": [[89, "clawpack.pyclaw.geometry.Grid.p_centers"]], "p_nodes (clawpack.pyclaw.geometry.grid property)": [[89, "clawpack.pyclaw.geometry.Grid.p_nodes"]], "patch (clawpack.pyclaw.geometry.domain property)": [[89, "clawpack.pyclaw.geometry.Domain.patch"]], "patch_index (clawpack.pyclaw.geometry.patch attribute)": [[89, "clawpack.pyclaw.geometry.Patch.patch_index"]], "plot() (clawpack.pyclaw.geometry.grid method)": [[89, "clawpack.pyclaw.geometry.Grid.plot"]], "setup_gauge_files() (clawpack.pyclaw.geometry.grid method)": [[89, "clawpack.pyclaw.geometry.Grid.setup_gauge_files"]], "source_split (clawpack.petclaw.geometry.domain attribute)": [[89, "clawpack.petclaw.geometry.Domain.source_split"]], "step_source (clawpack.petclaw.geometry.domain attribute)": [[89, "clawpack.petclaw.geometry.Domain.step_source"]], "transverse_waves (clawpack.petclaw.geometry.domain attribute)": [[89, "clawpack.petclaw.geometry.Domain.transverse_waves"]], "upper_global (clawpack.pyclaw.geometry.patch property)": [[89, "clawpack.pyclaw.geometry.Patch.upper_global"]], "verbosity (clawpack.petclaw.geometry.domain attribute)": [[89, "clawpack.petclaw.geometry.Domain.verbosity"]], "clawpack.pyclaw.fileio.ascii": [[92, "module-clawpack.pyclaw.fileio.ascii"]], "clawpack.pyclaw.fileio.netcdf": [[92, "module-clawpack.pyclaw.fileio.netcdf"]], "read() (in module clawpack.pyclaw.fileio.ascii)": [[92, "clawpack.pyclaw.fileio.ascii.read"]], "read() (in module clawpack.pyclaw.fileio.netcdf)": [[92, "clawpack.pyclaw.fileio.netcdf.read"]], "read_array() (in module clawpack.pyclaw.fileio.ascii)": [[92, "clawpack.pyclaw.fileio.ascii.read_array"]], "read_patch_header() (in module clawpack.pyclaw.fileio.ascii)": [[92, "clawpack.pyclaw.fileio.ascii.read_patch_header"]], "read_t() (in 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47, 48, 50, 54, 59, 62, 63, 75, 77, 78, 79, 83, 87, 94, 98, 102, 104, 106, 108, 111, 118, 121, 127, 131, 135, 145, 151, 152], "uniqu": [1, 72, 118, 145], "getitem": 1, "itemnam": [1, 79], "showitem": 1, "plotfram": 1, "number": [1, 2, 3, 4, 6, 8, 12, 16, 17, 19, 22, 27, 28, 30, 32, 33, 35, 36, 44, 51, 54, 59, 62, 67, 71, 72, 73, 79, 83, 84, 86, 87, 88, 89, 91, 92, 93, 94, 96, 98, 99, 101, 103, 104, 108, 110, 111, 113, 114, 116, 117, 118, 119, 120, 121, 123, 127, 128, 130, 136, 137, 138, 139, 140, 145, 146, 147, 151, 154], "conveni": [1, 27, 32, 35, 36, 39, 44, 51, 79, 86, 88, 91, 93, 95, 103, 154, 157], "pyclaw": [1, 3, 4, 12, 17, 23, 24, 27, 28, 29, 44, 55, 56, 72, 73, 79, 80, 90, 94, 96, 102, 105, 106, 126, 128, 129, 134], "plotter": [1, 3, 27, 79], "frametool": [1, 27, 79, 124], "printfram": [1, 76], "still": [1, 5, 7, 8, 13, 16, 22, 24, 26, 32, 34, 39, 51, 52, 56, 63, 66, 67, 72, 76, 81, 99, 105, 110, 111, 117, 118, 119, 120, 121, 122, 124, 127, 128, 139, 145], "clawplotdata": [2, 3, 27, 44, 51, 77, 79, 86, 135], "next": [2, 3, 6, 13, 18, 35, 37, 44, 54, 55, 67, 72, 77, 79, 82, 83, 91, 92, 94, 99, 103, 108, 110, 111, 136, 137, 139], "unus": [2, 92], "1001": 2, "kwarg": [2, 30, 59, 77, 104, 111, 135, 145], "keyword": [2, 3, 77, 83, 88, 89, 92, 98, 104, 111, 121, 135, 145, 151], "figsiz": [2, 39, 66, 77, 130, 135], "12": [2, 32, 39, 51, 66, 77, 130, 135], "5": [2, 4, 5, 8, 9, 11, 13, 19, 25, 29, 30, 32, 33, 38, 39, 42, 44, 47, 51, 52, 53, 54, 55, 59, 62, 63, 64, 66, 68, 70, 77, 80, 87, 89, 93, 94, 96, 97, 99, 105, 106, 110, 112, 113, 114, 115, 116, 117, 118, 119, 120, 122, 123, 124, 125, 126, 127, 128, 129, 130, 131, 132, 136, 137, 138, 139, 140, 145, 148, 149, 151, 156], "facecolor": [2, 77, 135], "would": [2, 3, 12, 13, 16, 24, 27, 28, 32, 38, 41, 51, 53, 55, 56, 58, 60, 62, 63, 66, 70, 72, 77, 81, 83, 86, 89, 93, 104, 111, 119, 130, 131, 132, 135, 136, 139, 145, 149, 154], "inch": [2, 51, 59, 77, 135], "red": [2, 3, 28, 44, 59, 77, 111, 135], "background": [2, 76, 121, 135], "option": [2, 12, 13, 16, 20, 22, 25, 28, 29, 30, 32, 35, 36, 40, 41, 47, 50, 53, 58, 62, 67, 68, 76, 77, 83, 84, 86, 88, 89, 90, 91, 92, 93, 95, 98, 99, 100, 103, 104, 107, 110, 111, 114, 117, 118, 119, 122, 124, 130, 135, 136, 138, 139, 140, 141, 145, 151], "clf_each_fram": 2, "clf": 2, "axes1": [2, 79], "shown": [3, 13, 54, 59, 63, 64, 67, 73, 93, 114, 115, 116, 117, 118, 119, 120, 121, 122, 123, 124, 125, 130, 151, 154], "below": [3, 6, 13, 15, 16, 18, 22, 24, 29, 30, 32, 39, 45, 51, 52, 54, 55, 56, 58, 59, 64, 67, 70, 79, 81, 83, 85, 93, 97, 103, 105, 106, 107, 110, 111, 114, 115, 116, 117, 118, 119, 120, 121, 122, 123, 124, 125, 126, 128, 130, 133, 135, 136, 137, 138, 139, 140, 143, 144, 145, 149, 151, 154], "fragment": 3, "typic": [3, 20, 39, 62, 63, 67, 70, 72, 73, 79, 84, 94, 96, 99, 101, 110, 137, 138, 148, 149, 152, 153, 154, 157], "assum": [3, 5, 20, 22, 30, 32, 36, 39, 47, 48, 51, 53, 54, 55, 59, 67, 70, 76, 92, 93, 95, 96, 97, 103, 104, 110, 117, 130, 131, 136, 139, 145, 146, 149, 151, 153, 157], "plotax": [3, 44, 77, 124, 135], "instanc": [3, 28, 51, 56, 70, 73, 79, 83, 84, 86, 89, 92, 93, 96, 130, 139], "type": [3, 4, 7, 13, 20, 28, 30, 35, 36, 40, 44, 51, 62, 67, 77, 78, 79, 83, 84, 85, 87, 89, 94, 95, 99, 100, 103, 104, 105, 130, 137, 138, 139, 145, 146, 149, 151, 157], "dimension": [3, 7, 8, 17, 22, 25, 30, 32, 35, 36, 44, 48, 52, 67, 89, 96, 117, 118, 120, 123, 138, 139, 140, 151, 154], "point": [3, 5, 6, 13, 15, 16, 17, 20, 28, 30, 33, 35, 36, 38, 39, 41, 44, 45, 46, 47, 48, 51, 53, 54, 55, 56, 57, 58, 59, 67, 68, 70, 83, 93, 94, 98, 104, 105, 106, 110, 120, 122, 124, 127, 128, 130, 131, 132, 133, 134, 136, 137, 138, 139, 143, 144, 145, 149, 151, 152, 154], "slice": [3, 67, 128], "scatter": [3, 22, 67], "radial": [3, 32, 47, 139, 154], "symmetr": [3, 47, 154], "between": [3, 4, 5, 6, 13, 16, 23, 25, 28, 30, 31, 32, 38, 47, 51, 55, 56, 59, 66, 67, 70, 71, 73, 76, 86, 89, 93, 99, 101, 102, 104, 105, 106, 110, 118, 119, 128, 130, 131, 136, 137, 138, 139, 140, 141, 148, 149, 151, 153, 154], "plot_var": [3, 27, 44, 51, 77, 78], "fill_var2": 3, "contour": [3, 30, 44, 51, 53, 67, 105, 135, 151], "pcolor": [3, 44, 76, 105, 151], "2d_schlieren": 3, "schlieren": [3, 67], "2d_patch": [3, 22], "cell": [3, 4, 5, 7, 8, 15, 16, 18, 20, 22, 25, 27, 32, 33, 44, 45, 51, 53, 59, 66, 67, 71, 72, 73, 83, 89, 92, 94, 97, 99, 101, 103, 110, 113, 114, 118, 119, 120, 121, 122, 123, 124, 128, 131, 132, 133, 136, 137, 138, 139, 140, 146, 148, 149, 154, 157], "patch": [3, 6, 7, 16, 18, 22, 27, 32, 39, 51, 67, 70, 71, 72, 76, 77, 92, 94, 98, 101, 110, 119, 121, 124, 132, 135, 137, 139, 148, 149, 154], "edg": [3, 6, 15, 16, 27, 30, 32, 33, 38, 59, 70, 89, 97, 128, 130, 133, 137, 138, 140, 154], "come": [3, 28, 77, 79, 88, 94, 99, 117, 149, 154], "parent": [3, 27, 89, 101, 104], "integ": [3, 32, 33, 44, 51, 59, 64, 66, 77, 84, 98, 110, 120, 123, 128, 136, 139, 145, 151], "compon": [3, 16, 18, 20, 22, 25, 36, 44, 56, 58, 67, 72, 76, 96, 98, 100, 101, 110, 117, 129, 136, 137, 138, 149, 154], "python": [3, 4, 7, 8, 11, 13, 14, 17, 19, 22, 23, 25, 27, 28, 29, 30, 33, 35, 36, 37, 40, 42, 44, 45, 46, 47, 50, 51, 53, 54, 55, 56, 57, 58, 59, 70, 72, 73, 76, 77, 78, 81, 82, 84, 88, 89, 91, 92, 94, 95, 96, 97, 99, 102, 103, 104, 111, 114, 115, 117, 119, 120, 121, 122, 123, 128, 129, 134, 139, 149, 151, 152, 155], "convent": [3, 22, 30, 46, 53, 70, 97, 149], "correspond": [3, 6, 12, 23, 25, 27, 30, 33, 44, 47, 48, 53, 54, 55, 59, 67, 70, 77, 83, 87, 89, 92, 93, 96, 98, 101, 110, 111, 128, 130, 131, 136, 137, 138, 139, 140, 145, 149, 153, 154], "appli": [3, 4, 5, 6, 13, 16, 25, 30, 48, 51, 53, 64, 66, 70, 77, 79, 87, 89, 92, 99, 110, 127, 136, 139, 154], "comput": [3, 4, 5, 6, 13, 16, 17, 27, 29, 30, 32, 33, 39, 44, 47, 51, 53, 56, 58, 59, 60, 62, 68, 70, 76, 77, 79, 84, 86, 89, 91, 92, 93, 94, 99, 103, 105, 106, 108, 110, 113, 114, 118, 119, 123, 128, 132, 136, 138, 139, 140, 146, 149, 154, 157], "signatur": [3, 84, 87, 89, 90, 92, 97, 145], "hold": [3, 79, 103, 110], "current": [3, 5, 13, 14, 20, 22, 24, 27, 28, 29, 30, 32, 38, 39, 41, 44, 45, 48, 53, 54, 55, 56, 57, 58, 59, 60, 67, 68, 72, 77, 79, 89, 92, 93, 94, 99, 101, 104, 106, 110, 111, 118, 120, 121, 127, 131, 135, 136, 138, 139, 140, 145, 146, 149, 151, 153], "afteritem": [3, 27], "afterpatch": [3, 27], "There": [3, 6, 13, 22, 36, 40, 51, 54, 55, 62, 66, 70, 72, 79, 93, 100, 108, 120, 121, 135, 136, 146, 147, 154, 156], "than": [3, 5, 6, 13, 16, 18, 20, 22, 28, 29, 30, 32, 39, 44, 51, 54, 55, 56, 58, 59, 60, 62, 63, 64, 66, 69, 70, 72, 76, 79, 83, 84, 86, 89, 92, 93, 94, 96, 97, 99, 104, 105, 106, 110, 111, 113, 116, 117, 118, 119, 120, 121, 123, 124, 126, 127, 130, 131, 132, 135, 136, 137, 139, 145, 146, 148, 149, 151, 154, 157], "calcul": [3, 5, 6, 27, 30, 33, 45, 47, 67, 70, 77, 89, 97, 99, 114, 119, 151], "cd": [3, 13, 28, 35, 36, 37, 52, 54, 55, 57, 58, 79, 88, 91, 94, 100, 111, 147], "On": [3, 5, 13, 51, 71, 120, 130, 134, 154], "ylower": [3, 22, 27, 39, 84, 121, 138, 149, 151], "patchno": [3, 27], "out": [3, 16, 24, 26, 29, 30, 32, 35, 36, 39, 44, 45, 50, 52, 53, 54, 55, 56, 58, 59, 60, 61, 62, 67, 70, 77, 81, 83, 84, 86, 92, 93, 94, 95, 98, 103, 105, 106, 108, 111, 119, 121, 123, 124, 128, 130, 138, 140, 145, 151, 152], "lower": [3, 22, 30, 32, 33, 38, 53, 66, 72, 89, 94, 130, 132, 136, 138, 140, 149, 151, 153], "left": [3, 5, 10, 13, 16, 18, 25, 27, 30, 32, 53, 72, 79, 89, 96, 97, 103, 120, 126, 127, 128, 131, 137, 149, 151, 153, 157], "corner": [3, 30, 32, 53, 70, 72, 89, 130, 136, 138, 140, 149, 151], "mappedgrid": [3, 67], "map": [3, 16, 29, 30, 39, 59, 66, 67, 77, 81, 84, 89, 91, 96, 110, 117, 121, 129, 151, 157], "mapc2p": [3, 25, 27, 67, 84, 89], "underli": [3, 51, 119], "other": [3, 4, 5, 6, 7, 9, 12, 13, 16, 20, 22, 27, 30, 33, 35, 36, 38, 44, 45, 46, 48, 51, 52, 53, 55, 57, 58, 61, 62, 64, 66, 67, 68, 70, 71, 72, 76, 79, 80, 81, 83, 84, 86, 89, 91, 93, 95, 96, 97, 100, 103, 105, 106, 110, 111, 113, 114, 116, 117, 119, 128, 131, 134, 135, 136, 139, 141, 145, 149, 151, 153, 154, 155], "requir": [3, 4, 16, 20, 22, 25, 27, 30, 32, 35, 36, 40, 45, 47, 48, 55, 56, 58, 66, 67, 70, 73, 76, 79, 80, 83, 84, 89, 91, 92, 95, 96, 99, 100, 101, 103, 104, 110, 111, 113, 114, 117, 119, 122, 124, 128, 129, 130, 135, 136, 137, 138, 139, 140, 145, 146, 149, 152, 155, 157], "depend": [3, 13, 16, 28, 29, 30, 32, 35, 36, 40, 41, 46, 48, 51, 56, 57, 62, 64, 67, 70, 77, 82, 91, 92, 97, 98, 99, 104, 106, 110, 121, 132, 139, 151, 152, 154, 157], "summar": [3, 28, 31, 56, 110, 112, 154], "plotstyl": [3, 44, 77, 135], "anyth": [3, 6, 28, 29, 56, 58, 63, 111, 121], "valid": [3, 48, 70, 86, 93, 98, 101, 119, 139, 145, 146, 151], "fmt": 3, "group": [3, 13, 24, 28, 30, 48, 88, 92, 94, 102, 118, 128], "solid": [3, 16, 51, 70, 96, 135, 136, 138, 140], "dash": [3, 94], "o": [3, 5, 17, 38, 39, 40, 57, 66, 77, 80, 81, 84, 92, 93, 102, 105, 121, 138, 151, 154], "circl": [3, 47, 77], "bo": 3, "blue": [3, 11, 39, 44, 59, 66, 77, 130, 151], "though": [3, 39, 73, 145, 149], "color": [3, 30, 39, 51, 59, 66, 67, 76, 130, 135, 151], "also": [3, 4, 5, 6, 7, 8, 9, 11, 12, 16, 17, 18, 20, 22, 23, 24, 25, 28, 29, 30, 32, 33, 35, 36, 37, 38, 39, 41, 42, 44, 47, 48, 51, 52, 53, 54, 55, 56, 57, 58, 59, 62, 63, 66, 67, 68, 70, 71, 72, 73, 76, 77, 79, 83, 85, 86, 89, 91, 92, 93, 94, 96, 97, 98, 99, 100, 101, 102, 103, 104, 105, 106, 107, 108, 109, 110, 111, 113, 118, 119, 120, 121, 122, 123, 124, 125, 126, 127, 128, 129, 130, 131, 132, 134, 136, 138, 139, 140, 141, 143, 144, 145, 146, 147, 148, 149, 151, 152, 153, 154, 156, 157], "overrul": 3, "ani": [3, 4, 5, 6, 8, 13, 16, 18, 19, 20, 22, 27, 28, 29, 32, 35, 36, 37, 45, 48, 50, 51, 54, 55, 56, 58, 61, 62, 64, 66, 67, 69, 71, 72, 73, 77, 81, 87, 88, 89, 91, 92, 93, 94, 96, 98, 100, 104, 106, 109, 110, 111, 117, 121, 123, 127, 130, 131, 132, 135, 136, 137, 139, 145, 154, 157], "r": [3, 4, 6, 17, 44, 47, 52, 54, 66, 67, 69, 77, 83, 87, 94, 96, 128, 130, 135, 151, 157], "ff0000": [3, 59], "No": [3, 40, 51, 67, 89, 99, 128, 136, 139, 152], "extra": [3, 51, 129], "give": [3, 6, 9, 10, 13, 16, 24, 28, 30, 32, 33, 35, 36, 44, 52, 58, 59, 66, 70, 71, 72, 77, 79, 94, 95, 99, 111, 114, 118, 119, 123, 130, 136, 139, 149, 151, 153], "polygon": [3, 7, 38, 51, 59, 124, 151], "curv": [3, 44, 76, 130], "fill_between": 3, "describ": [3, 4, 5, 6, 7, 13, 14, 16, 19, 26, 28, 30, 31, 32, 35, 36, 38, 39, 44, 46, 47, 48, 51, 52, 54, 55, 59, 60, 62, 63, 66, 67, 70, 72, 73, 76, 77, 78, 89, 92, 98, 104, 108, 110, 111, 119, 122, 123, 128, 130, 131, 135, 136, 137, 139, 145, 146, 149, 151, 153, 154, 157], "abov": [3, 5, 13, 14, 16, 20, 28, 29, 32, 35, 36, 38, 39, 40, 41, 44, 48, 51, 53, 54, 55, 56, 58, 61, 63, 66, 70, 72, 77, 80, 81, 84, 93, 95, 100, 103, 104, 105, 110, 119, 121, 128, 130, 132, 134, 135, 136, 138, 139, 140, 145, 148, 149, 151, 154], "plot_var2": 3, "second": [3, 16, 30, 32, 36, 44, 47, 51, 55, 59, 67, 83, 89, 93, 99, 110, 113, 119, 127, 136, 139, 145, 147, 148, 151, 154, 157], "zero": [3, 16, 18, 30, 32, 39, 41, 59, 67, 83, 96, 97, 101, 103, 130, 131], "fill_wher": 3, "plotitem": [3, 27, 44, 77, 135], "mean": [3, 13, 22, 28, 32, 39, 44, 48, 52, 58, 67, 93, 94, 110, 128, 131, 136, 138, 140, 153], "map_2d_to_1d": 3, "In": [3, 5, 6, 8, 11, 12, 15, 16, 18, 19, 20, 22, 27, 30, 32, 38, 41, 44, 45, 48, 51, 52, 53, 54, 55, 56, 58, 59, 60, 62, 63, 66, 67, 68, 69, 70, 72, 77, 78, 79, 83, 84, 89, 92, 93, 94, 95, 96, 97, 99, 101, 104, 106, 107, 108, 110, 113, 114, 117, 118, 119, 121, 122, 127, 128, 130, 132, 133, 134, 136, 137, 139, 143, 144, 149, 151, 152, 154, 157], "about": [3, 5, 7, 13, 14, 16, 22, 25, 33, 35, 36, 40, 47, 48, 53, 55, 59, 62, 64, 67, 72, 78, 80, 83, 91, 94, 99, 106, 111, 118, 122, 124, 128, 135, 138, 139, 149, 152, 154, 157], "valu": [3, 5, 6, 7, 16, 20, 22, 27, 30, 33, 34, 35, 36, 38, 39, 41, 44, 45, 47, 49, 50, 51, 53, 59, 60, 62, 64, 66, 67, 70, 71, 72, 77, 84, 89, 91, 92, 93, 96, 97, 98, 99, 101, 103, 104, 110, 111, 113, 114, 116, 117, 119, 121, 123, 124, 127, 128, 130, 131, 132, 136, 137, 138, 139, 140, 145, 146, 149, 151, 152, 154, 157], "j": [3, 4, 5, 15, 17, 20, 22, 27, 33, 39, 52, 59, 66, 67, 72, 79, 91, 92, 110, 113, 114, 132, 133], "v": [3, 16, 25, 29, 30, 32, 47, 60, 63, 111, 118, 137, 149], "radiu": [3, 139, 145, 146, 151], "q0_vs_radiu": 3, "convert": [3, 22, 25, 30, 33, 42, 47, 51, 56, 58, 59, 62, 70, 84, 96, 104, 105, 121, 124, 136, 137, 145, 149, 153], "numpi": [3, 13, 30, 32, 39, 47, 66, 80, 82, 83, 84, 86, 89, 96, 101, 102, 103, 105, 111, 129, 130, 138, 151, 152], "sqrt": [3, 32, 64, 83, 96, 97, 103, 138], "q0": [3, 96], "work": [3, 5, 8, 13, 16, 19, 20, 22, 24, 25, 26, 28, 29, 32, 35, 36, 40, 45, 48, 51, 52, 53, 54, 55, 56, 57, 58, 59, 66, 67, 69, 70, 71, 77, 80, 81, 82, 83, 85, 86, 87, 91, 92, 93, 94, 97, 99, 100, 105, 106, 108, 109, 110, 111, 115, 116, 117, 118, 119, 120, 121, 124, 126, 128, 135, 136, 137, 139, 141, 146, 149, 152, 156], "symbol": [3, 67, 106], "best": [3, 4, 16, 22, 26, 28, 41, 51, 53, 55, 62, 69, 71, 76, 77, 92, 96, 108, 109, 110, 111, 121, 126, 128, 139, 142, 145, 149, 154], "descript": [3, 4, 6, 9, 22, 23, 25, 30, 59, 67, 70, 73, 76, 92, 104, 108, 110, 128, 129, 139, 145, 149, 157], "celledges_show": [3, 22], "draw": 3, "amr_celledges_show": 3, "some": [3, 4, 5, 6, 7, 8, 10, 12, 16, 17, 18, 19, 20, 21, 22, 23, 24, 25, 27, 28, 30, 32, 35, 36, 39, 41, 42, 44, 45, 46, 48, 49, 51, 52, 53, 54, 55, 56, 58, 63, 66, 70, 71, 72, 76, 78, 79, 81, 84, 85, 87, 91, 92, 93, 95, 96, 98, 100, 101, 102, 103, 105, 106, 108, 109, 110, 111, 113, 114, 115, 116, 117, 118, 119, 120, 121, 122, 123, 124, 125, 126, 128, 130, 131, 132, 135, 136, 137, 138, 139, 140, 141, 145, 146, 148, 149, 151, 154], "level": [3, 6, 7, 16, 23, 27, 29, 32, 38, 39, 44, 45, 46, 47, 48, 51, 54, 55, 56, 58, 67, 71, 72, 84, 86, 89, 92, 93, 99, 106, 107, 110, 111, 113, 114, 118, 119, 121, 124, 127, 130, 131, 134, 136, 137, 138, 139, 140, 148, 149, 151, 153, 154], "patchedges_show": [3, 22], "mostli": [3, 76, 124], "contour_level": [3, 151], "three": [3, 13, 17, 22, 30, 32, 48, 51, 63, 67, 70, 94, 98, 104, 111, 130, 136, 139, 149, 151, 154], "contour_nlevel": 3, "contour_min": 3, "float": [3, 30, 32, 44, 47, 59, 86, 89, 97, 101, 104, 136, 137, 139, 140, 145, 151], "minimum": [3, 32, 44, 51, 70, 103, 119, 139, 151], "contour_max": 3, "maximum": [3, 22, 30, 32, 33, 34, 45, 67, 99, 103, 110, 113, 114, 121, 124, 136, 137, 138, 140, 145, 146], "contour_color": 3, "specif": [3, 5, 12, 22, 28, 30, 44, 45, 47, 51, 52, 58, 61, 63, 64, 81, 82, 84, 86, 91, 92, 93, 97, 98, 104, 108, 119, 120, 121, 124, 135, 136, 137, 138, 140, 146, 149], "b": [3, 5, 17, 28, 30, 32, 33, 39, 44, 52, 54, 55, 64, 77, 99, 110, 117, 124, 130, 131, 132, 139, 151, 153], "0000ff": [3, 59], "colormap": [3, 30, 39, 46, 51, 66, 67, 76, 78, 118, 124, 151], "amr_contour_color": 3, "As": [3, 36, 39, 45, 48, 54, 55, 59, 83, 103, 105, 109, 113, 124, 128, 129, 132, 147, 154], "instead": [3, 13, 32, 35, 36, 39, 41, 44, 52, 54, 55, 57, 58, 62, 63, 68, 100, 101, 104, 106, 118, 119, 122, 127, 128, 129, 130, 134, 149, 151], "black": [3, 44], "subsequ": [3, 10, 67], "both": [3, 16, 28, 30, 33, 35, 36, 38, 39, 44, 48, 53, 63, 66, 67, 70, 72, 84, 92, 93, 94, 99, 100, 110, 111, 117, 118, 121, 124, 128, 129, 130, 132, 136, 138, 140, 143, 149, 154], "fine": [3, 18, 32, 33, 39, 54, 69, 73, 96, 110, 119, 130, 132, 136, 139, 149, 154], "coars": [3, 18, 32, 51, 110, 119, 136, 149, 154], "anoth": [3, 22, 39, 44, 51, 55, 57, 58, 59, 72, 76, 80, 88, 99, 102, 111, 121, 145, 154], "refin": [3, 4, 5, 7, 8, 17, 22, 45, 48, 51, 52, 53, 66, 67, 72, 73, 83, 119, 121, 122, 124, 130, 132, 135, 136, 137, 138, 148, 149, 154], "region": [3, 6, 7, 13, 16, 22, 32, 38, 39, 45, 48, 49, 51, 59, 64, 70, 73, 108, 121, 124, 131, 132, 137, 138, 149, 151], "lack": 3, "hidden": [3, 62, 77], "blank": [3, 33, 59, 145], "coarser": [3, 16, 53, 119, 132, 136, 137, 154], "easili": [3, 13, 28, 32, 51, 54, 67, 77, 84, 89, 100, 104, 105, 111, 124, 141], "contour_show": 3, "boolean": [3, 51, 66, 92, 97, 136, 137, 139], "most": [3, 20, 22, 27, 29, 32, 35, 36, 40, 41, 44, 48, 50, 51, 52, 53, 54, 57, 59, 62, 66, 67, 71, 73, 76, 77, 79, 81, 89, 93, 94, 99, 102, 103, 105, 110, 111, 118, 120, 126, 127, 128, 129, 130, 131, 135, 136, 137, 139, 142, 154], "commonli": [3, 67, 77, 79], "amr_contour_show": 3, "tupl": [3, 30, 47, 59, 70, 77, 89, 93, 151], "determin": [3, 5, 6, 30, 32, 39, 44, 45, 48, 50, 51, 54, 59, 70, 77, 87, 89, 92, 97, 101, 106, 110, 114, 118, 119, 127, 130, 131, 135, 136, 137, 139, 151, 154], "whether": [3, 6, 13, 16, 22, 47, 53, 60, 61, 62, 67, 81, 89, 92, 93, 97, 98, 99, 110, 111, 119, 128, 130, 136, 137, 139, 151], "view": [3, 4, 22, 35, 36, 44, 45, 51, 53, 54, 59, 72, 76, 78, 79, 83, 94, 100, 105, 117, 121, 141, 142], "finest": [3, 32, 39, 44, 121, 148, 151], "contour_kwarg": [3, 151], "pcolor_cmap": [3, 51], "pcolor_cmin": 3, "pcolor_cmax": 3, "rang": [3, 5, 13, 30, 44, 47, 51, 110, 113, 118, 129, 130], "thei": [3, 5, 6, 13, 16, 24, 27, 28, 30, 32, 38, 39, 44, 48, 51, 54, 55, 58, 59, 60, 63, 66, 67, 72, 76, 89, 96, 99, 104, 110, 111, 119, 132, 135, 139, 145, 149, 151, 154], "chosen": [3, 18, 29, 32, 38, 39, 51, 53, 66, 103, 110, 131, 137], "vari": [3, 15, 17, 25, 30, 39, 45, 53, 64, 96, 98, 117, 124, 128, 129, 131, 133, 157], "yield": 3, "veri": [3, 5, 16, 22, 48, 51, 55, 58, 59, 70, 77, 81, 84, 92, 93, 94, 95, 96, 99, 111, 114, 118, 130, 132, 136, 146, 149], "confus": [3, 53, 58, 106, 128], "pcolor_colorbar": 3, "colorbar": [3, 39, 59, 66, 121, 124, 130, 151], "ad": [3, 12, 16, 20, 22, 24, 25, 27, 29, 32, 34, 41, 44, 47, 53, 54, 55, 58, 59, 60, 64, 67, 70, 77, 82, 84, 87, 89, 90, 93, 94, 106, 107, 108, 110, 113, 114, 115, 116, 117, 118, 119, 120, 121, 122, 123, 124, 125, 127, 132, 136, 137, 139, 145, 148, 151, 155], "relat": [3, 7, 18, 22, 24, 54, 73, 97, 108, 120, 124, 131], "same": [3, 5, 6, 8, 13, 16, 22, 25, 28, 31, 32, 33, 39, 41, 44, 46, 47, 48, 51, 53, 55, 58, 59, 60, 62, 64, 66, 68, 70, 73, 76, 77, 78, 79, 83, 87, 89, 91, 92, 93, 96, 97, 99, 104, 105, 113, 114, 118, 119, 124, 127, 128, 130, 136, 137, 138, 139, 143, 149, 151, 154], "pre": [3, 13, 33, 55, 85, 92, 105], "pend": 3, "amr_": [3, 7], "whose": [3, 77, 84, 96, 97, 132, 136, 137, 151], "origin": [3, 6, 13, 16, 20, 28, 30, 34, 44, 52, 54, 66, 71, 72, 84, 99, 104, 113, 119, 127, 137, 138, 140, 151], "hand": [3, 5, 18, 19, 20, 64, 83, 111, 130], "higher": [3, 6, 32, 51, 89, 99, 100, 110, 124, 128, 130, 131, 132], "shorter": [3, 110, 151], "last": [3, 18, 27, 32, 55, 77, 83, 84, 96, 103, 118, 136, 145], "repeatedli": [3, 94, 100], "common": [3, 23, 28, 35, 36, 40, 41, 62, 63, 73, 76, 83, 97, 99, 101, 102, 119, 121, 124, 152, 154], "finer": [3, 7, 32, 51, 110, 113, 114, 130, 136, 137], "celledg": [3, 30], "stand": [4, 18], "conserv": [4, 5, 6, 17, 93, 99, 101, 122, 129, 154, 157], "law": [4, 17, 59, 139, 157], "packag": [4, 25, 28, 29, 35, 36, 51, 55, 56, 57, 63, 73, 76, 80, 81, 83, 89, 91, 93, 95, 96, 98, 100, 103, 105, 106, 123, 124, 152, 155], "wa": [4, 5, 6, 14, 19, 20, 25, 29, 30, 32, 33, 39, 48, 50, 54, 55, 62, 64, 66, 67, 70, 77, 94, 98, 99, 101, 110, 111, 112, 113, 114, 115, 116, 117, 118, 119, 120, 121, 122, 123, 124, 125, 127, 130, 132, 139, 148, 149, 151], "initi": [4, 5, 7, 12, 13, 18, 22, 25, 30, 44, 45, 47, 48, 51, 55, 60, 63, 67, 70, 73, 79, 81, 82, 83, 84, 86, 87, 89, 90, 92, 93, 97, 98, 99, 101, 102, 104, 107, 110, 118, 121, 124, 128, 131, 136, 138, 139, 140, 145, 149, 151], "develop": [4, 6, 7, 12, 13, 18, 22, 23, 48, 52, 54, 57, 58, 61, 66, 67, 76, 80, 81, 84, 91, 96, 99, 100, 106, 108, 111, 121, 122, 124, 128, 131, 132, 138], "linear": [4, 5, 17, 30, 32, 51, 70, 77, 83, 87, 99, 122, 128, 129, 130], "nonlinear": [4, 5, 17, 48, 87, 128, 136, 157], "hyperbol": [4, 5, 6, 17, 42, 73, 84, 91, 96, 97, 103, 128, 136, 139, 154, 157], "system": [4, 16, 17, 23, 36, 37, 51, 52, 56, 58, 59, 63, 71, 72, 81, 91, 93, 94, 96, 97, 100, 103, 106, 111, 128, 136, 138, 140, 147, 154, 157], "focu": [4, 45], "high": [4, 17, 32, 48, 51, 66, 70, 73, 84, 91, 99, 128, 131, 132, 139, 153, 154], "resolut": [4, 6, 17, 30, 32, 39, 44, 70, 89, 99, 103, 104, 113, 117, 121, 122, 128, 131, 139, 149, 151, 153, 154], "godunov": [4, 89, 99, 136, 138, 140, 154], "method": [4, 5, 7, 17, 32, 38, 42, 44, 53, 66, 77, 79, 83, 86, 87, 89, 94, 98, 99, 104, 110, 111, 117, 128, 135, 136, 137, 138, 140, 145, 148, 149, 151, 154], "framework": [4, 55, 81, 84, 118, 119], "applic": [4, 6, 15, 16, 19, 20, 22, 23, 24, 28, 29, 32, 35, 36, 37, 41, 42, 45, 46, 55, 56, 58, 63, 66, 68, 71, 79, 88, 89, 90, 91, 93, 99, 104, 107, 109, 110, 111, 113, 116, 117, 119, 120, 121, 123, 124, 128, 130, 132, 133, 136, 139, 143, 144, 149, 151, 152, 154, 155], "finit": [4, 17, 32, 42, 53, 59, 66, 67, 70, 99, 124, 130, 148, 149, 154], "volum": [4, 17, 29, 32, 42, 53, 59, 66, 67, 91, 124, 130, 137, 148, 149, 154], "riemann": [4, 5, 8, 20, 22, 23, 28, 29, 45, 55, 56, 58, 63, 73, 81, 83, 89, 90, 99, 100, 101, 103, 106, 134, 136, 138, 140, 143, 144, 157], "solver": [4, 5, 6, 20, 22, 23, 25, 28, 45, 56, 58, 63, 81, 82, 86, 89, 90, 93, 101, 115, 117, 119, 120, 121, 122, 123, 124, 136, 138, 140, 143, 144, 157], "resolv": [4, 32, 51, 54, 108, 121, 132], "jump": [4, 5, 67, 79, 89, 99, 119, 136, 157], "discontinu": [4, 99, 157], "interfac": [4, 19, 22, 67, 81, 84, 87, 91, 92, 97, 99, 104, 128, 154, 155, 157], "grid": [4, 7, 17, 18, 19, 20, 22, 23, 25, 27, 28, 33, 38, 39, 44, 45, 46, 48, 51, 52, 59, 66, 67, 72, 73, 76, 81, 83, 91, 93, 94, 96, 97, 98, 99, 101, 103, 110, 111, 113, 114, 116, 117, 119, 120, 121, 124, 128, 129, 130, 131, 132, 136, 137, 138, 140, 146, 148, 149, 151, 153, 154, 157], "wave": [4, 5, 6, 16, 17, 25, 32, 39, 48, 51, 52, 70, 87, 89, 91, 96, 97, 99, 110, 117, 119, 120, 129, 130, 131, 136, 137, 138, 139, 140, 154], "propag": [4, 5, 6, 17, 25, 30, 48, 51, 52, 70, 89, 91, 99, 110, 119, 128], "neighbor": [4, 32, 39, 66, 110, 119, 132, 137, 138, 151], "formul": [4, 5, 48, 64, 128, 136], "allow": [4, 6, 13, 22, 27, 28, 29, 32, 38, 39, 44, 45, 47, 50, 51, 53, 54, 56, 58, 64, 66, 67, 70, 71, 73, 76, 77, 86, 92, 93, 99, 101, 104, 105, 106, 110, 111, 113, 114, 117, 118, 119, 120, 121, 123, 124, 128, 130, 136, 138, 139, 140, 141, 145, 149, 151, 153], "easi": [4, 6, 11, 29, 38, 58, 67, 80, 84, 93, 94, 95, 130, 141, 154], "extens": [4, 17, 22, 24, 28, 30, 48, 51, 54, 58, 63, 67, 84, 91, 92, 104, 119, 120, 136, 147, 151, 157], "problem": [4, 5, 7, 16, 17, 18, 20, 24, 25, 27, 28, 29, 35, 36, 39, 42, 45, 58, 62, 66, 67, 70, 73, 77, 80, 82, 83, 88, 90, 91, 94, 97, 99, 102, 106, 111, 113, 114, 116, 117, 120, 124, 128, 130, 132, 136, 138, 139, 140, 141, 148, 152], "algorithm": [4, 7, 25, 32, 38, 39, 45, 52, 83, 89, 91, 92, 99, 103, 110, 121, 128, 130, 136, 138, 140, 151], "brief": [4, 55, 129, 139], "subroutin": [4, 6, 9, 16, 22, 32, 63, 110, 117, 128, 136, 137, 148, 154, 157], "equat": [4, 5, 16, 17, 25, 35, 36, 45, 48, 60, 64, 77, 82, 83, 84, 86, 91, 92, 93, 96, 99, 100, 101, 114, 117, 119, 121, 122, 128, 136, 138, 139, 140, 149, 154, 157], "solv": [4, 5, 8, 16, 17, 20, 26, 35, 36, 48, 58, 60, 82, 84, 86, 89, 91, 96, 97, 100, 122, 128, 129, 136, 149, 154, 157], "adapt": [4, 7, 17, 30, 39, 52, 53, 66, 67, 73, 83, 110, 121, 124, 128, 130, 135, 136, 154], "mesh": [4, 7, 17, 33, 52, 66, 67, 73, 76, 83, 110, 124, 135, 136, 154], "includ": [4, 6, 13, 18, 21, 22, 23, 27, 28, 29, 30, 32, 35, 36, 38, 40, 41, 44, 48, 51, 53, 55, 56, 58, 59, 61, 63, 64, 66, 67, 68, 70, 71, 73, 76, 77, 79, 81, 83, 84, 88, 89, 91, 92, 93, 94, 95, 96, 97, 98, 99, 100, 101, 103, 105, 106, 108, 110, 111, 113, 119, 120, 121, 122, 123, 124, 125, 128, 129, 130, 136, 138, 139, 141, 142, 145, 146, 148, 149, 151, 154], "amrclaw": [4, 5, 6, 12, 15, 16, 19, 20, 22, 23, 24, 28, 36, 38, 39, 41, 44, 45, 46, 52, 55, 56, 57, 58, 60, 66, 67, 68, 71, 72, 73, 100, 106, 107, 110, 111, 127, 128, 130, 133, 134, 136, 139, 143, 144, 147, 148, 152], "detail": [4, 5, 10, 16, 22, 23, 25, 26, 28, 29, 30, 32, 35, 36, 38, 41, 46, 48, 51, 54, 56, 57, 58, 61, 62, 66, 67, 70, 73, 77, 81, 86, 87, 88, 89, 92, 93, 94, 95, 96, 97, 99, 109, 110, 111, 114, 119, 121, 128, 130, 135, 136, 139, 141, 145, 149, 152, 153, 154, 157], "content": [4, 6, 23, 51, 55, 73, 84, 139, 149, 154, 155], "routin": [4, 5, 6, 16, 20, 25, 27, 30, 32, 35, 36, 44, 45, 46, 51, 52, 62, 67, 68, 71, 72, 73, 76, 79, 81, 84, 86, 89, 92, 95, 96, 99, 101, 102, 105, 110, 113, 114, 117, 119, 121, 122, 124, 128, 132, 136, 138, 140, 145, 151, 152, 154, 155, 157], "special": [4, 7, 16, 45, 46, 51, 61, 73, 81, 105, 110, 130, 151], "depth": [4, 5, 16, 17, 22, 30, 32, 33, 39, 44, 45, 48, 64, 70, 76, 78, 129, 131, 132, 139, 149], "averag": [4, 6, 15, 17, 32, 39, 45, 48, 49, 53, 67, 97, 101, 114, 128, 132, 133, 149, 151, 154], "geophys": [4, 16, 17, 23, 45, 48, 73, 136], "flow": [4, 16, 17, 23, 32, 33, 45, 46, 48, 91, 108, 124, 128, 136, 139, 149, 154], "geoclaw": [4, 7, 12, 17, 23, 24, 28, 30, 32, 33, 34, 36, 38, 41, 44, 52, 53, 55, 56, 57, 58, 59, 60, 64, 66, 68, 70, 73, 76, 100, 106, 108, 109, 111, 127, 128, 129, 131, 132, 134, 136, 137, 145, 146, 147, 148, 149, 150, 151, 152, 153, 154], "parallel": [4, 22, 23, 44, 56, 71, 82, 88, 90, 91, 93, 96, 98, 100, 104, 110, 111, 119], "scale": [4, 30, 49, 51, 67, 73, 91, 92, 113, 119, 121, 139], "ten": [4, 73], "thousand": [4, 73], "core": [4, 12, 73, 111, 121], "wish": [4, 13, 14, 15, 22, 29, 35, 36, 48, 51, 56, 58, 67, 75, 76, 91, 96, 99, 100, 102, 106, 108, 110, 119, 133, 141, 143, 144, 152], "discrib": 4, "book": [4, 12, 17, 25, 29, 80, 98, 105, 128], "levequ": [4, 16, 17, 24, 30, 52, 73, 87, 89, 91, 99, 105, 128, 136, 154, 157], "fvmhp": [4, 12, 16, 17, 25, 73, 128, 136, 154, 157], "virtual": [4, 13, 25, 27, 101, 105], "were": [4, 6, 14, 18, 20, 32, 44, 54, 60, 63, 67, 68, 84, 110, 113, 119, 122, 130, 132, 149], "4": [4, 7, 8, 9, 13, 16, 17, 23, 25, 28, 30, 32, 33, 34, 36, 38, 39, 41, 42, 44, 45, 48, 51, 53, 54, 55, 62, 63, 64, 66, 67, 71, 76, 77, 79, 80, 90, 91, 92, 93, 94, 96, 97, 99, 100, 104, 106, 110, 111, 113, 118, 121, 127, 130, 136, 137, 138, 139, 140, 147, 148, 149, 151, 156], "3": [4, 6, 7, 15, 16, 20, 22, 24, 25, 30, 32, 33, 36, 38, 42, 44, 45, 51, 53, 55, 57, 58, 59, 64, 67, 70, 77, 79, 80, 83, 86, 87, 89, 92, 93, 94, 97, 98, 99, 101, 105, 106, 110, 119, 121, 124, 126, 128, 130, 133, 136, 137, 138, 139, 140, 147, 148, 149, 151, 154, 157], "pointer": [4, 16, 54, 70, 76, 79, 99, 104, 117], "code": [4, 5, 6, 7, 8, 12, 14, 16, 19, 20, 21, 22, 23, 24, 27, 29, 32, 33, 35, 36, 38, 40, 41, 42, 44, 45, 48, 50, 52, 53, 54, 56, 57, 61, 62, 63, 64, 68, 69, 70, 71, 72, 73, 75, 77, 79, 81, 83, 84, 89, 91, 92, 93, 94, 96, 99, 100, 103, 105, 106, 109, 112, 113, 114, 117, 118, 119, 120, 121, 122, 123, 124, 127, 128, 129, 130, 136, 138, 139, 140, 141, 145, 147, 148, 149], "bibliographi": [4, 25], "paper": [4, 5, 6, 16, 30, 45, 54, 87, 91], "distribut": [4, 12, 13, 29, 30, 54, 61, 70, 73, 80, 81, 99, 105, 124], "under": [4, 7, 22, 32, 37, 51, 52, 54, 56, 61, 63, 76, 81, 89, 111, 119, 121, 126], "term": [4, 25, 45, 48, 61, 70, 84, 89, 90, 99, 110, 120, 121, 129, 136, 138, 139, 140, 143, 144], "berkelei": [4, 61, 81], "bsd": [4, 61, 81, 121], "peopl": [4, 12, 13, 81, 105], "contribut": [4, 24, 25, 57, 81, 84, 91, 96, 99, 108, 111], "its": [4, 6, 13, 22, 29, 34, 39, 48, 51, 57, 61, 63, 66, 70, 72, 81, 86, 87, 88, 89, 91, 96, 98, 99, 101, 104, 110, 138, 151, 157], "incept": 4, "1994": [4, 61], "major": [4, 22, 54, 55, 81, 84, 112, 113, 114, 115, 120, 122], "design": [4, 27, 28, 51, 81, 83, 103, 130, 153], "made": [4, 18, 22, 28, 30, 58, 98, 101, 113, 114, 119, 121, 124, 130, 132, 139, 146, 149, 151, 154], "individu": [4, 22, 23, 51, 59, 62, 63, 67, 89, 110, 111, 145], "randal": [4, 17, 91], "univers": [4, 17, 24, 54, 61, 81, 98], "washington": [4, 17, 24, 54, 61, 123, 130, 151], "rjlevequ": [4, 28, 29], "marsha": [4, 6, 17], "berger": [4, 6, 17], "courant": [4, 6, 110, 120, 136, 137, 138, 140], "institut": 4, "nyu": 4, "mjberger": 4, "jan": [4, 55], "olav": 4, 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107, 113, 114, 117, 121, 131, 136, 138, 139, 140], "adjust": [5, 13, 20, 32, 33, 45, 59, 89, 93, 131, 136, 154], "principl": [5, 151, 154], "vanish": 5, "dure": [5, 22, 32, 39, 44, 59, 70, 73, 113, 131, 132, 138, 139, 140, 149], "integr": [5, 22, 53, 60, 81, 91, 93, 99, 113, 114, 118, 138, 140, 148, 149, 154], "qinit": [5, 20, 22, 39, 45, 62, 63, 84, 131, 132, 154], "setrun": [5, 6, 7, 8, 14, 16, 19, 20, 25, 32, 33, 35, 36, 38, 39, 40, 42, 45, 46, 48, 59, 60, 62, 64, 66, 72, 73, 77, 107, 108, 110, 113, 117, 118, 119, 122, 124, 127, 128, 131, 132, 145, 149, 152, 154], "clawdata": [5, 38, 113, 117, 127, 136, 137, 138, 139, 140], "tfinal": [5, 83, 86, 103, 127, 136, 138, 140], "via": [5, 13, 22, 23, 24, 28, 29, 30, 35, 36, 41, 42, 44, 46, 48, 51, 54, 55, 56, 57, 58, 60, 62, 66, 67, 70, 71, 73, 77, 80, 83, 89, 92, 95, 98, 100, 102, 106, 110, 111, 121, 124, 128, 130, 134, 141, 143, 144, 149, 151, 154], "num_output_tim": [5, 83, 86, 93, 127, 136, 138, 140], "larg": [5, 6, 12, 20, 35, 36, 39, 48, 51, 53, 54, 67, 71, 76, 91, 93, 94, 110, 111, 118, 127, 130, 132, 136, 151, 153], "frequent": [5, 20, 27, 102, 118], "enough": [5, 54, 66, 146, 148, 149], "them": [5, 13, 18, 22, 28, 29, 30, 32, 44, 51, 54, 56, 67, 68, 73, 81, 83, 88, 92, 93, 94, 96, 104, 108, 111, 114, 123, 130, 142, 145, 151, 154], "reason": [5, 48, 51, 59, 70, 71, 73, 94, 96, 110, 136], "output_format": [5, 86, 93, 136, 138, 140], "binari": [5, 41, 55, 57, 61, 68, 81, 92, 93, 95, 118, 127, 136, 138, 151, 155], "so": [5, 6, 8, 9, 13, 16, 18, 19, 22, 27, 28, 29, 30, 32, 33, 35, 36, 38, 39, 40, 41, 42, 44, 48, 49, 51, 52, 53, 54, 55, 56, 58, 59, 60, 62, 63, 66, 67, 70, 71, 72, 73, 76, 77, 80, 83, 84, 85, 92, 93, 96, 101, 103, 104, 108, 110, 111, 113, 114, 118, 119, 120, 121, 122, 123, 124, 128, 130, 131, 132, 135, 136, 137, 138, 145, 148, 149, 151, 153, 154, 155], "manner": [5, 39, 44, 51, 60, 66, 70, 76, 121, 132, 136, 143, 144, 149], "v5": [5, 14, 29, 32, 38, 52, 54, 55, 56, 57, 58, 63, 98, 105, 106, 110, 126, 131, 132], "attribut": [5, 7, 22, 30, 38, 44, 66, 70, 76, 78, 79, 83, 86, 89, 92, 94, 96, 98, 99, 110, 113, 118, 122, 127, 135, 136, 137, 139, 145, 151], "clawutil": [5, 11, 14, 19, 20, 23, 28, 40, 41, 50, 55, 57, 62, 106, 111, 134, 136, 137, 138, 140, 151, 152], "clawrundata": [5, 44, 59, 122, 127, 136, 137, 138, 140], "adjointdata": [5, 122, 123], "ia": 5, "attribur": 5, "toler": [5, 32, 97, 104, 110, 111, 119, 137, 138, 139], "rundata": [5, 22, 32, 38, 39, 44, 59, 60, 110, 113, 124, 127, 132, 136, 137, 138, 139, 140], "use_adjoint": 5, "adjoint_outdir": 5, "abspath": [5, 38], "_output": [5, 13, 14, 32, 35, 36, 44, 50, 60, 67, 77, 79, 88, 93, 95, 98, 118, 125, 152], "period": [5, 6, 16, 32, 62, 83, 96, 110, 136, 138, 140], "t1": [5, 38, 44, 59, 60, 110, 137, 138, 139], "t0": [5, 127, 136, 138, 139, 140, 149], "t2": [5, 38, 44, 59, 60, 110, 137, 138, 139], "addit": [5, 7, 13, 16, 23, 24, 25, 28, 29, 32, 36, 37, 38, 45, 46, 56, 58, 59, 66, 70, 72, 73, 77, 78, 84, 87, 89, 91, 93, 99, 100, 101, 108, 110, 117, 119, 120, 121, 122, 125, 128, 130, 136, 140, 145, 148, 149, 154, 155], "aux": [5, 6, 15, 20, 22, 27, 44, 53, 84, 91, 92, 93, 96, 98, 99, 101, 102, 113, 114, 119, 121, 128, 129, 133, 136, 137, 138, 139, 140, 154], "inner": [5, 110, 122], "product": [5, 30, 61, 81, 104, 110, 122], "amrdata": [5, 22, 32, 110, 124, 137, 138, 139], "aux_typ": [5, 137, 138], "append": [5, 20, 32, 38, 39, 44, 51, 60, 77, 86, 98, 110, 118, 119, 127, 128, 138], "num_aux": [5, 84, 92, 94, 96, 97, 101, 128, 136, 137, 138, 140, 154], "len": [5, 30, 89, 138, 140, 151], "innerprod_index": 5, "base": [5, 6, 13, 20, 21, 22, 28, 29, 30, 32, 33, 45, 47, 51, 52, 53, 54, 59, 60, 63, 64, 66, 67, 70, 73, 84, 86, 87, 89, 91, 92, 97, 98, 99, 101, 103, 104, 110, 112, 117, 120, 122, 131, 136, 137, 138, 139, 140, 145, 151, 154, 157], "richardson": [5, 7, 22, 137, 138], "error": [5, 16, 18, 20, 35, 36, 40, 51, 58, 67, 71, 77, 86, 91, 92, 93, 104, 110, 111, 122, 137, 138, 145, 152], "estimat": [5, 138], "flag_richardson": [5, 110, 118, 137, 138], "flag_richardson_tol": [5, 110, 137, 138], "1e": [5, 66, 140], "flag2refin": [5, 7, 22, 137, 138], "flag2refine_tol": [5, 110, 137, 138], "01": [5, 39, 72, 89, 151], "we": [5, 6, 22, 24, 26, 32, 35, 36, 38, 39, 44, 48, 51, 53, 54, 55, 56, 58, 63, 66, 70, 76, 79, 83, 84, 85, 86, 88, 89, 92, 93, 94, 95, 96, 99, 100, 101, 102, 103, 104, 105, 108, 111, 121, 124, 128, 129, 130, 134, 151], "attempt": [5, 8, 11, 20, 33, 35, 36, 62, 92, 98, 104, 111, 113, 145, 151, 152], "estim": [5, 64, 110, 137, 139], "step": [5, 6, 10, 16, 19, 28, 32, 35, 36, 37, 44, 51, 54, 55, 60, 67, 76, 79, 81, 82, 83, 84, 86, 93, 96, 99, 101, 103, 108, 110, 113, 118, 119, 127, 128, 134, 136, 137, 138, 139, 140, 149, 157], "extrapol": [5, 7, 16, 22, 96, 103, 121, 136, 137, 138, 140], "togeth": [5, 16, 28, 29, 30, 54, 70, 110], "experiment": [5, 81], "otherwis": [5, 30, 54, 56, 58, 61, 66, 81, 93, 97, 98, 99, 100, 101, 104, 110, 136, 151], "simpli": [5, 13, 35, 36, 37, 39, 44, 51, 53, 56, 57, 62, 63, 66, 83, 85, 86, 88, 93, 94, 100, 111, 128, 130, 141, 145, 151, 154, 155], "magnitud": [5, 30, 110, 121, 139], "greater": [5, 32, 59, 64, 66, 100, 105, 110, 127, 136, 137, 139], "model": [5, 12, 16, 17, 24, 25, 30, 32, 41, 45, 46, 52, 53, 64, 93, 110, 118, 123, 124, 125, 130, 131, 132, 139, 145, 146, 149], "davisleveque2016": [5, 17], "chile2010_adjoint": 5, "shallow": [5, 15, 16, 17, 25, 32, 39, 45, 48, 52, 66, 73, 84, 91, 107, 114, 115, 117, 119, 121, 122, 128, 132, 133, 139, 143, 144, 149, 154], "water": [5, 16, 17, 25, 39, 44, 45, 46, 47, 48, 59, 66, 73, 76, 84, 91, 114, 115, 119, 121, 122, 128, 130, 131, 132, 139, 149, 151, 153, 154], "while": [5, 13, 16, 30, 39, 51, 67, 70, 77, 79, 84, 89, 93, 94, 99, 104, 121, 128, 132, 139, 153], "suitabl": [5, 8, 16, 20, 45, 48, 51, 98, 109, 128, 131, 145, 151], "To": [5, 6, 13, 14, 18, 22, 25, 28, 29, 35, 36, 37, 38, 39, 40, 44, 46, 49, 51, 52, 55, 57, 62, 65, 66, 67, 70, 71, 72, 77, 79, 80, 83, 85, 87, 88, 91, 92, 93, 94, 95, 96, 99, 100, 103, 105, 106, 108, 109, 110, 111, 117, 119, 122, 123, 124, 125, 127, 131, 134, 136, 137, 141, 149, 155], "date": [5, 28, 40, 47, 51, 54, 55, 62, 77, 145, 152], "across": [5, 110, 119, 149, 151], "ocean": [5, 16, 17, 32, 48, 51, 108, 110, 130, 139, 143, 144, 149], "wai": [5, 6, 13, 16, 26, 28, 35, 36, 38, 39, 44, 51, 53, 54, 58, 59, 61, 62, 77, 79, 80, 81, 83, 86, 88, 89, 94, 96, 98, 100, 103, 105, 106, 108, 109, 113, 119, 120, 121, 124, 126, 128, 130, 135, 136, 142, 146, 149, 154, 156, 157], "target": [5, 56, 58, 77, 84, 96, 124], "possibli": [5, 30, 56, 58, 66, 83, 89, 106, 118, 132], "deep": [5, 66, 139], "amplitud": [5, 119], "compar": [5, 22, 36, 44, 48, 51, 55, 77, 93, 110, 111, 131, 137, 139, 147, 153, 157], "essenti": [5, 53, 67, 99, 139, 149], "rest": [5, 22, 79, 108, 121, 131, 143, 144, 149, 151], "henc": [5, 32, 53, 54, 63, 99, 105, 106, 110, 132], "take": [5, 6, 22, 27, 28, 30, 32, 47, 54, 64, 66, 67, 70, 77, 83, 89, 96, 99, 103, 104, 105, 110, 111, 116, 122, 132, 136, 137, 138, 139, 151, 154, 157], "rpn2_geoclaw_adjoint_qwav": 5, "rpt2_geoclaw_adjoint_qwav": 5, "non": [5, 16, 55, 66, 73, 84, 96, 103, 122, 124, 136, 138, 140, 145, 157], "vector": [5, 22, 83, 87, 93, 101, 121, 128, 129], "split": [5, 6, 71, 89, 92, 99, 117, 118, 136, 138, 140, 148, 154, 157], "flux": [5, 17, 32, 89, 97, 99, 128, 136, 157], "comment": [5, 11, 24, 49, 55, 120, 127], "rpn2": [5, 128], "basic": [6, 10, 12, 25, 30, 35, 37, 45, 57, 66, 67, 83, 89, 91, 92, 93, 97, 99, 111, 128, 129, 145, 157], "strategi": 6, "logic": [6, 16, 17, 32], "rectangular": [6, 7, 16, 17, 30, 32, 38, 39, 45, 46, 59, 66, 89, 110, 121, 124, 137, 139, 149], "cover": [6, 7, 27, 28, 30, 32, 38, 39, 51, 59, 66, 70, 110, 114, 119, 132, 138, 139, 149], "too": [6, 47, 51, 54, 55, 118, 130, 138, 140], "portion": [6, 39, 51, 66, 84, 148], "factor": [6, 51, 137, 139, 148, 151], "direct": [6, 8, 16, 22, 30, 32, 35, 36, 44, 47, 51, 55, 59, 61, 62, 67, 70, 71, 77, 81, 86, 96, 103, 110, 120, 128, 136, 137, 139, 151], "anisotrop": [6, 22], "further": [6, 16, 25, 32, 41, 48, 59, 62, 67, 91, 105, 110, 111], "perhap": [6, 12, 32, 39, 44, 54, 77, 101, 104, 110, 130], "ratio": [6, 15, 22, 49, 67, 70, 87, 97, 99, 133, 136, 137, 138], "And": [6, 20, 54, 56], "section": [6, 13, 16, 35, 36, 39, 41, 46, 48, 54, 55, 63, 67, 76, 79, 111, 127, 136, 139, 151], "cfl": [6, 89, 93, 99, 103, 113, 118, 136, 138, 139, 140], "spatial": [6, 17, 25, 30, 38, 39, 45, 64, 96, 110, 113, 117, 124, 128, 131, 138, 140, 157], "reduc": [6, 16, 39, 51, 118, 120, 157], "thu": [6, 47, 93, 96, 121, 145], "proce": [6, 28], "advanc": [6, 17, 52, 66, 71, 103, 118, 136, 154], "taken": [6, 32, 66, 70, 93, 99, 110, 136, 154], "around": [6, 30, 32, 39, 59, 92, 108, 111, 124, 137, 138, 145, 151, 154], "librari": [6, 13, 15, 16, 20, 22, 25, 27, 28, 32, 35, 36, 41, 44, 52, 59, 62, 68, 71, 72, 73, 81, 87, 92, 94, 99, 104, 106, 107, 110, 119, 124, 132, 133, 137, 143, 144, 152, 154], "bcnamr": [6, 16, 121, 136, 138, 154], "check": [6, 14, 15, 16, 20, 32, 35, 36, 40, 41, 50, 51, 52, 54, 55, 56, 58, 62, 67, 77, 83, 84, 86, 91, 94, 98, 99, 101, 103, 104, 106, 107, 110, 114, 123, 130, 132, 133, 137, 138, 143, 144, 145, 151, 152, 153, 154], "denot": [6, 22, 44, 53, 128, 151], "procedur": [6, 16, 39, 45, 55, 154], "updat": [6, 12, 13, 22, 23, 25, 32, 49, 52, 56, 57, 58, 60, 79, 91, 99, 101, 102, 105, 108, 113, 117, 119, 120, 121, 122, 123, 124, 128, 137, 138, 140, 142, 145, 148, 154], "consist": [6, 25, 32, 47, 51, 55, 59, 94, 105, 119, 128, 130, 139, 149, 154], "replac": [6, 13, 29, 38, 44, 48, 52, 54, 55, 60, 62, 76, 84, 88, 92, 94, 95, 96, 97, 101, 104, 111, 113, 119, 121, 123, 124, 127, 128, 132, 151, 152], "ly": [6, 66], "within": [6, 16, 28, 54, 56, 58, 66, 73, 77, 95, 104, 106, 110, 128, 130, 135, 141, 151], "approxim": [6, 16, 25, 33, 48, 51, 70, 128], "lead": [6, 13, 18, 22, 32, 48, 51, 64, 67, 70, 106, 109, 132, 137], "total": [6, 30, 51, 70, 93, 99, 136, 137, 138, 140, 148], "mass": [6, 93], "restor": 6, "global": [6, 14, 89, 101, 104, 131, 149, 153, 154], "fix": [6, 18, 19, 20, 22, 25, 33, 38, 45, 54, 55, 59, 60, 62, 66, 81, 92, 97, 113, 114, 115, 116, 117, 118, 119, 120, 122, 123, 124, 125, 129, 136, 138, 140, 151], "up": [6, 13, 22, 28, 29, 30, 32, 35, 36, 39, 40, 44, 45, 51, 54, 55, 59, 62, 66, 67, 70, 77, 83, 84, 86, 88, 90, 91, 92, 94, 99, 100, 103, 106, 108, 110, 111, 117, 118, 121, 124, 130, 132, 135, 138, 140, 148, 149, 152, 153], "style": [6, 22, 28, 30, 38, 49, 51, 66, 72, 77, 81, 86, 121], "often": [6, 11, 13, 16, 20, 27, 29, 32, 35, 36, 40, 41, 44, 45, 48, 49, 50, 59, 60, 64, 70, 72, 93, 105, 106, 110, 111, 127, 128, 130, 131, 132, 135, 136, 139, 145, 149, 153, 154, 157], "olig": [6, 17], "colella": [6, 17], "bergeroliger84": [6, 17], "bergercolella89": [6, 17], "fortran": [6, 9, 11, 13, 14, 20, 23, 27, 28, 30, 32, 33, 35, 44, 45, 46, 53, 56, 58, 62, 63, 64, 71, 72, 73, 76, 79, 81, 83, 84, 86, 89, 91, 92, 94, 96, 97, 99, 100, 101, 104, 117, 118, 119, 121, 122, 123, 128, 129, 134, 138, 139, 140, 145, 147, 148, 149], "written": [6, 11, 25, 30, 32, 40, 44, 58, 59, 60, 61, 70, 72, 73, 77, 81, 90, 92, 96, 105, 119, 128, 136, 137, 138, 139, 140, 145, 151, 154], "ga": [6, 97], "dynam": [6, 20, 30, 48, 70, 73], "merg": [6, 13, 25, 28, 52, 54, 55, 58, 117], "earli": [6, 20, 132], "dai": [6, 13, 51, 139], "mjb": [6, 17], "rjl": [6, 17, 106, 123], "fulli": [6, 48, 51, 52, 120, 124, 128, 139, 145, 146], "consid": [6, 39, 48, 57, 58, 66, 84, 106, 134, 141, 151], "adjac": [6, 16, 32, 45, 110, 132, 136], "equival": [6, 44, 52, 53, 59, 60, 123, 149], "copi": [6, 14, 15, 16, 35, 36, 44, 51, 54, 55, 58, 67, 83, 86, 96, 101, 107, 108, 109, 110, 114, 118, 121, 125, 132, 133, 141, 143, 144, 149, 154], "interior": [6, 16, 39, 72, 101], "howev": [6, 13, 16, 22, 32, 35, 36, 39, 41, 46, 48, 51, 58, 61, 63, 66, 70, 71, 72, 81, 84, 110, 111, 119, 121, 123, 131, 132, 135, 139, 148], "lie": [6, 32, 33, 66, 110, 124, 130], "outsid": [6, 16, 38, 59, 66, 124, 130, 132, 149, 151], "li": [6, 16, 32, 110, 130, 139], "along": [6, 14, 16, 24, 27, 30, 32, 39, 44, 51, 54, 68, 70, 106, 110, 117, 127, 130, 132, 139, 153], "proper": [6, 15, 39, 44, 52, 53, 55, 59, 64, 66, 67, 92, 104, 113, 119, 133, 137, 138, 143, 144, 145, 154], "unless": [6, 32, 40, 41, 59, 97, 105, 131, 136, 151], "standard": [6, 16, 30, 32, 51, 53, 67, 72, 84, 87, 99, 105, 106, 110, 111, 138, 139, 140, 141, 149, 154, 157], "beyond": [6, 30, 105, 121], "modifi": [6, 9, 14, 15, 16, 20, 22, 27, 32, 35, 36, 39, 44, 45, 54, 55, 56, 58, 60, 62, 67, 69, 77, 84, 87, 89, 91, 96, 106, 107, 108, 109, 110, 116, 118, 119, 120, 121, 130, 132, 133, 136, 138, 139, 140, 143, 144, 149, 151, 154], "damag": [6, 61, 81], "bcn": [6, 16, 140, 154], "nd": [6, 16, 110, 121, 124, 154], "actual": [6, 27, 30, 32, 53, 58, 59, 67, 70, 77, 87, 92, 104, 108, 131, 139], "softwar": [6, 13, 24, 25, 29, 45, 48, 61, 68, 81, 91, 92, 93, 141, 149], "intern": [6, 30, 44, 53, 59, 70, 119, 149, 151, 157], "With": [6, 22, 28, 44, 49, 51, 66, 73, 105, 110, 118, 128, 130, 136], "opposit": [6, 16, 92], "side": [6, 16, 18, 32, 51, 54, 64, 70, 92, 111, 128, 157], "everi": [6, 12, 28, 32, 44, 60, 62, 63, 83, 86, 88, 92, 93, 101, 110, 111, 119, 120, 128, 132, 134, 136, 138, 140, 145, 149, 151, 154], "few": [6, 12, 13, 22, 26, 29, 36, 48, 54, 66, 67, 84, 99, 103, 105, 110, 111, 124, 131, 147, 149, 154], "coarsest": [6, 51, 72, 113, 127, 136], "revis": [6, 119], "shock": [6, 17, 48, 99, 110], "accord": [6, 53], "criteria": [6, 7, 22, 25, 32, 66, 101], "cluster": [6, 17, 57, 110, 137, 138], "rigoutsi": 6, "bergerrigoutsis91": [6, 17], "nonoverlap": 6, "rectangl": [6, 7, 25, 30, 66, 70, 110, 124, 151], "balanc": [6, 17, 73, 120, 129, 143, 144], "conflict": [6, 28, 58, 62, 67, 102, 106], "goal": 6, "possibl": [6, 13, 22, 26, 28, 30, 32, 44, 47, 48, 51, 56, 61, 62, 70, 77, 81, 89, 92, 94, 95, 99, 104, 106, 110, 128, 130, 131, 136, 137, 149, 153, 154], "minim": [6, 58, 66, 92, 130, 137, 151], "overhead": [6, 71, 110, 148], "cutoff": [6, 138], "control": [6, 7, 23, 25, 32, 41, 44, 54, 56, 58, 60, 67, 79, 82, 87, 89, 91, 92, 93, 94, 96, 110, 119, 124, 129, 139], "fraction": [6, 13, 30, 110, 136, 154, 157], "70": [6, 51], "realli": [6, 111, 154], "At": [6, 13, 27, 28, 35, 36, 39, 66, 94, 99, 103, 105, 110, 124, 136], "present": [6, 24, 59, 89, 97, 98, 99, 104, 141, 154, 157], "previous": [6, 22, 32, 66, 79, 117, 124, 132], "bilinear": [6, 32, 39, 44, 53, 113, 114, 149], "doxygen": [6, 7, 25, 120], "flowchart": [6, 7, 25], "capabl": [7, 12, 22, 32, 34, 48, 52, 66, 73, 84, 113, 118, 119, 121, 122, 123, 124, 125, 151, 153], "block": [7, 30, 33, 39, 59, 70, 72, 73, 83, 92, 101, 104, 111, 154], "structur": [7, 10, 22, 32, 38, 55, 58, 62, 73, 98, 99, 119, 130, 135, 151], "input": [7, 14, 16, 20, 23, 25, 27, 30, 33, 40, 45, 51, 59, 63, 66, 67, 83, 86, 87, 89, 91, 97, 98, 99, 104, 108, 118, 121, 122, 123, 128, 138, 139, 140, 145, 146, 149, 151, 154], "indic": [7, 16, 20, 22, 25, 29, 30, 32, 38, 39, 41, 44, 45, 51, 53, 55, 57, 58, 63, 67, 75, 79, 89, 93, 94, 97, 99, 103, 106, 110, 111, 119, 124, 128, 129, 136, 138, 139, 140, 149, 151, 154], "tool": [7, 8, 17, 22, 23, 28, 30, 32, 33, 35, 36, 39, 45, 46, 47, 48, 51, 53, 58, 59, 67, 70, 75, 76, 77, 78, 80, 91, 106, 109, 114, 115, 119, 120, 124, 125, 139, 141, 149, 151, 153, 155], "matlab": [7, 22, 25, 35, 36, 75, 76, 77, 95, 105, 121, 124, 125], "deprec": [7, 30, 34, 54, 117, 121, 139, 149, 151], "debug": [7, 41, 62, 72, 76, 93, 101, 106, 111, 136, 138], "flag": [7, 12, 13, 22, 25, 28, 29, 38, 40, 41, 45, 52, 56, 58, 68, 71, 84, 102, 104, 106, 117, 122, 138, 139], "sampl": [7, 8, 14, 17, 25, 29, 32, 41, 45, 51, 70, 106, 111, 127, 130, 136, 137, 149, 151, 154], "ghost": [7, 16, 18, 71, 72, 89, 92, 99, 101, 119, 136, 138, 140, 148, 154, 157], "flagregion": [7, 25, 66, 110, 124, 130], "rule": [7, 13, 25, 59, 66, 84], "convex": [7, 32], "slu": 7, "bounding_box": [7, 33], "mask_outsid": [7, 66], "write": [7, 28, 30, 33, 38, 39, 44, 45, 50, 53, 54, 64, 70, 72, 73, 76, 83, 86, 89, 90, 92, 93, 94, 98, 119, 121, 138, 140, 145, 149, 151], "instanti": [7, 86, 94, 96, 99, 101, 138, 140], "make_kml": 7, "simpl": [7, 29, 35, 36, 38, 45, 55, 70, 84, 91, 96, 97, 99, 104, 109, 111, 151], "select": [7, 12, 13, 15, 16, 28, 32, 39, 66, 93, 99, 107, 110, 113, 120, 124, 126, 133, 136, 139, 143, 144, 153], "continent": [7, 66], "shelf": [7, 66], "guid": [7, 13, 17, 18, 23, 24, 25, 45, 46, 52, 57, 91, 105, 110, 120, 124, 142], "adjoint": [7, 17, 25, 52, 110, 121, 122], "gaug": [7, 25, 32, 45, 59, 89, 90, 101, 108, 113, 117, 118, 119, 120, 121, 124, 127, 131, 138], "extend": [8, 16, 22, 39, 59, 66, 67, 89, 121, 130, 132, 139, 149, 151, 157], "directli": [8, 19, 23, 32, 48, 56, 67, 70, 77, 79, 83, 84, 87, 91, 101, 104, 106, 121, 151, 155], "obviou": [8, 51], "elimin": [8, 22, 66, 84, 106, 121, 139], "gallery_classic_amrclaw": [8, 35], "num_cel": [8, 22, 89, 128, 136, 137, 138, 140], "refinement_ratios_i": [8, 137, 138], "sweep": [8, 128], "transvers": [8, 89, 119, 128, 129, 136, 154, 157], "graph": 9, "understand": [9, 25, 35, 36, 48, 76, 91, 103, 110, 128], "filpatch": [9, 18, 39, 119, 123], "idea": [10, 24, 30, 66, 67, 73, 83, 103, 114, 151, 157], "overal": [10, 83], "who": [10, 12, 19, 22, 24, 32, 41, 48, 58], "gori": 10, "monster": 10, "column": [10, 30, 32, 44, 48, 60, 93, 97, 117, 130, 151], "markup": 11, "languag": [11, 76, 104, 105], "restructur": [11, 54], "text": [11, 54, 55, 59, 72, 86, 92, 99, 117], "sphinx": [11, 23, 25, 55, 120], "covert": 11, "convert_readm": 11, "brows": [11, 24, 42, 51, 67, 141, 154], "insert": [11, 16, 70, 92, 149], "script": [11, 19, 20, 28, 30, 32, 40, 44, 51, 54, 57, 62, 67, 73, 76, 81, 84, 88, 90, 91, 93, 94, 99, 104, 105, 106, 111, 121, 125, 128, 135, 139, 140, 151], "invok": [11, 14, 71, 132, 152], "minor": [11, 18, 51, 54, 93, 113, 114, 115, 116, 117, 118, 119, 120, 121, 122, 124], "syntax": 11, "highlight": [11, 13], "header": [11, 30, 32, 39, 44, 53, 66, 70, 72, 92, 98, 117, 119, 121, 145, 149, 151], "complex": [12, 38, 89], "archiv": [12, 21, 36, 51, 55, 111, 141, 147, 151, 153], "github": [12, 15, 22, 23, 24, 25, 26, 29, 52, 54, 56, 57, 58, 88, 96, 100, 107, 111, 116, 118, 119, 120, 126, 128, 129, 133, 143, 144, 152], "app": [12, 13, 18, 23, 26, 28, 29, 32, 37, 42, 70, 108, 109, 116, 120, 121, 122, 123, 124, 125, 129], "com": [12, 13, 23, 24, 26, 28, 29, 52, 54, 55, 56, 57, 58, 92, 94, 96, 100, 116, 118, 119, 120, 126, 129], "fvmbook": [12, 42], "galleri": [12, 35, 36, 37, 42, 43, 55, 75, 76, 88, 91, 105, 111, 116, 120, 141, 147, 154], "anim": [12, 16, 42, 51, 117, 124, 125, 141], "instal": [12, 13, 18, 23, 25, 29, 35, 51, 54, 55, 79, 81, 82, 85, 90, 92, 103, 111, 112, 113, 114, 115, 116, 117, 118, 119, 120, 121, 122, 123, 124, 125, 126, 134, 156], "collect": [12, 25, 26, 28, 30, 32, 70, 76, 83, 99, 141], "either": [12, 16, 20, 30, 32, 39, 45, 46, 51, 60, 62, 66, 67, 70, 77, 79, 83, 89, 92, 93, 99, 104, 106, 110, 111, 117, 118, 119, 121, 128, 130, 132, 139, 145, 149, 151, 154, 157], "clone": [12, 18, 23, 24, 42, 52, 54, 55, 56, 58, 80, 94, 100, 109, 152], "git": [12, 13, 23, 24, 25, 26, 52, 55, 56, 58, 91, 100, 111, 123], "navig": [12, 29, 54, 141], "green": [12, 59, 66, 70, 77, 111, 151], "button": [12, 13, 28, 51, 59, 120], "download": [12, 13, 28, 29, 30, 36, 37, 39, 45, 51, 55, 56, 57, 58, 68, 88, 94, 100, 121, 122, 126, 147, 151, 152, 153], "zip": [12, 51, 55], "illustr": [12, 25, 30, 32, 35, 51, 66, 67, 70, 109, 116, 117, 121, 123, 128, 130, 141, 151], "variou": [12, 20, 22, 30, 38, 48, 54, 67, 70, 77, 79, 89, 103, 105, 106, 110, 119, 128, 135, 139, 145], "aspect": [12, 24, 29, 48, 49, 67, 151], "visibl": [12, 13, 51, 109, 141], "render": [12, 22, 51, 59, 155], "advantag": [12, 76, 92, 105, 111, 130], "independ": [12, 23, 30], "contact": [12, 88, 91, 100], "u": [12, 13, 16, 24, 29, 32, 47, 48, 55, 58, 60, 81, 88, 91, 97, 100, 101, 102, 103, 108, 120, 128, 137, 140, 145, 153], "like": [12, 13, 24, 28, 29, 39, 41, 51, 54, 55, 59, 60, 67, 68, 79, 84, 86, 89, 92, 93, 94, 97, 98, 99, 101, 105, 106, 111, 118, 128, 130, 135, 148, 149, 152], "storm": [12, 17, 24, 25, 45, 117, 120, 121, 122, 123, 125], "surg": [12, 17, 24, 25, 45, 117, 120, 121, 122, 123, 145], "empti": [12, 44, 98, 101, 104, 106, 136, 145, 151], "gitmodul": 12, "pull": [12, 24, 26, 29, 54, 55, 57, 88, 96, 111, 116, 119, 120, 128], "request": [12, 24, 26, 30, 54, 57, 72, 83, 88, 89, 93, 96, 98, 111, 119, 121, 128, 139, 145, 151], "init": [12, 25, 28, 39, 45, 52, 57, 131], "leav": [12, 13, 16, 44, 56, 58, 137, 151], "off": [12, 13, 44, 48, 51, 59, 67, 79, 86, 93, 110, 137, 151], "won": [12, 13, 66, 84, 151], "hurt": [12, 63], "maintain": [12, 28, 105, 121, 137, 149, 154], "flavor": [12, 21, 57, 92], "demonstr": [12, 25, 88, 94], "agre": [12, 28, 39, 53, 128, 148, 151, 154], "seen": [12, 22, 32, 35, 36, 37, 48, 71, 96, 136, 141], "cloud": 13, "elast": [13, 70], "sign": [13, 18, 24, 77, 145], "account": [13, 24, 28, 55, 85, 94], "750": 13, "hour": [13, 51, 59], "free": [13, 51, 62, 70, 81, 85, 96, 100, 102, 105], "micro": 13, "suffici": [13, 16, 20, 70, 71, 108, 113, 139], "tier": 13, "inform": [13, 14, 22, 25, 32, 33, 35, 36, 46, 47, 48, 49, 50, 56, 58, 63, 72, 77, 78, 79, 80, 83, 84, 89, 93, 94, 95, 97, 98, 104, 106, 118, 121, 122, 124, 126, 127, 128, 131, 134, 136, 137, 139, 145, 148, 149, 152, 153, 154, 155], "uw": [13, 24], "escienc": 13, "aw": [13, 56], "tutori": [13, 29, 55, 79, 82, 86, 91, 100, 106, 109], "gear": 13, "faq": [13, 25, 76, 105], "price": 13, "charg": 13, "per": [13, 30, 44, 51, 59, 67, 71, 92, 137], "thereof": 13, "regardless": [13, 39, 66, 110, 136, 139], "cpu": [13, 52, 118, 121, 123, 148], "consol": [13, 93, 139], "tab": [13, 54, 126], "east": [13, 149], "cheaper": 13, "rate": 13, "menu": [13, 18, 25, 54, 59, 120, 126, 131, 153], "imag": [13, 35, 36, 39, 55, 57, 59, 66, 111, 121, 130], "platform": [13, 51, 86, 94, 105, 111], "finish": [13, 77, 83], "load": [13, 59, 93, 95, 98, 104, 105, 111, 151, 155], "databas": [13, 30, 70, 104, 108, 121, 149], "uwamath": 13, "bar": [13, 54, 145], "screen": [13, 28, 51, 59, 86, 93, 94, 118, 138, 140], "shapshot": 13, "machin": [13, 25, 57, 71, 73, 105, 111, 119, 134], "disk": [13, 44, 83, 92, 93, 111, 119], "ubuntu": [13, 57, 105], "linux": [13, 57, 69, 80, 102, 105, 111, 134], "popup": 13, "look": [13, 14, 22, 25, 28, 30, 39, 51, 54, 55, 59, 67, 68, 77, 79, 84, 89, 94, 98, 99, 103, 104, 105, 106, 111, 114, 121, 130, 136, 137, 139, 148, 151, 152], "sort": [13, 39, 56, 121, 135, 152], "larger": [13, 20, 32, 51, 59, 70, 71, 72, 77, 89, 113, 119, 139, 149], "cost": [13, 99], "continu": [13, 22, 28, 30, 49, 54, 81, 105, 128, 136, 157], "eventu": [13, 45, 124], "don": [13, 27, 28, 54, 55, 77, 93, 94, 100, 111, 138, 152], "pair": [13, 92, 111, 151], "secur": 13, "quick": [13, 25, 36, 45, 46, 80, 105, 111, 147], "close": [13, 39, 51, 54, 59, 66, 67, 92, 110, 124, 137, 145], "back": [13, 27, 29, 54, 55, 120], "statu": [13, 28, 50, 86, 103], "wait": 13, "until": [13, 32, 60, 66, 132], "refresh": [13, 44], "bottom": [13, 15, 30, 35, 36, 45, 48, 64, 66, 70, 83, 96, 97, 119, 120, 133, 143, 144], "scroll": 13, "down": [13, 30, 93, 118, 145, 149, 151], "dn": 13, "screenshot": [13, 51], "rjlkei": 13, "pem": 13, "abl": [13, 54, 106], "ssh": [13, 28], "keypair": 13, "50": [13, 17, 32, 51, 99, 114, 138], "19": [13, 17, 24, 148], "75": [13, 17, 87, 103, 130], "229": 13, "amazonaw": 13, "gfortran": [13, 56, 58, 71, 80, 82, 102, 134, 152], "ipython": [13, 73, 77, 79, 84, 85, 91, 93, 100, 103, 105, 106, 117, 118], "scipi": [13, 84, 105, 145, 151], "netcdf": [13, 41, 45, 118, 121, 123, 125, 136, 138, 140, 145, 151, 153], "apach": 13, "server": [13, 29, 39, 51, 54, 55, 66, 121, 149, 153], "apt": [13, 105], "fetch": [13, 47], "bring": [13, 51, 54, 67], "master": [13, 15, 25, 29, 54, 55, 58, 96, 107, 118, 119, 120, 121, 122, 123, 124, 125, 126, 129, 133, 143, 144], "make_lib": 13, "compil": [13, 25, 35, 36, 40, 46, 56, 58, 63, 71, 73, 79, 80, 84, 91, 92, 96, 100, 104, 113, 128, 129, 134], "bashrc": [13, 41, 102, 134], "Of": [13, 26, 70, 103, 108, 149], "cours": [13, 26, 32, 44, 46, 60, 70, 94, 95, 103, 105, 108, 139, 149], "tar": [13, 56, 59, 123, 126], "instruct": [13, 18, 24, 25, 35, 36, 39, 51, 52, 54, 55, 56, 57, 68, 83, 85, 91, 94, 100, 103, 106, 120, 126, 127, 134, 152], "probabl": [13, 28, 51, 64, 66, 105, 106], "window": [13, 30, 67, 79, 105, 134], "respons": [13, 48, 83, 98], "pretti": 13, "slow": [13, 51, 93, 102], "_plot": [13, 35, 36, 44, 67, 79, 135, 141], "local": [13, 17, 20, 25, 28, 51, 54, 59, 62, 63, 67, 87, 89, 96, 101, 119, 121, 132, 149, 151, 154], "sftp": 13, "much": [13, 28, 32, 41, 51, 54, 72, 73, 76, 105, 110, 113, 117, 124, 130, 136, 139, 148, 151], "smaller": [13, 51, 64, 73, 89, 93, 113, 132, 136, 138, 139, 140, 151], "quicker": [13, 130], "browser": [13, 28, 29, 35, 36, 51, 54, 141], "explain": [13, 32, 48, 66, 136, 141], "webserv": 13, "inbound": 13, "port": [13, 29, 90, 91, 96, 137], "22": [13, 24, 151], "80": [13, 17, 51, 94, 130], "drop": [13, 54, 124, 132, 136], "tcp": 13, "Then": [13, 16, 28, 29, 30, 44, 54, 55, 57, 63, 66, 70, 71, 79, 83, 86, 94, 100, 101, 102, 106, 128, 130, 151, 152], "someth": [13, 27, 28, 54, 62, 69, 76, 93, 98, 99, 106, 149, 152, 154], "shot": 13, "ln": 13, "expos": 13, "home": [13, 29, 30, 56, 58, 134], "scp": 13, "TO": [13, 61, 81], "send": [13, 24, 96, 128], "remot": [13, 51, 55, 121, 151, 153], "rel": [13, 20, 30, 40, 46, 48, 51, 70, 71, 77, 104, 106, 111, 114, 115, 116, 117, 118, 119, 120, 121, 122, 123, 124, 125, 131, 137, 139, 141, 149, 153], "end": [13, 29, 30, 32, 33, 44, 47, 51, 55, 59, 86, 93, 97, 103, 105, 108, 110, 118, 119, 121, 127, 129, 130, 138, 140, 145, 148], "retriev": [13, 47, 79, 84, 99, 151, 153], "sit": 13, "idl": 13, "action": [13, 14, 84], "restart": [13, 25, 44, 79, 91, 118, 119, 120, 121, 123, 136, 138, 140], "later": [13, 39, 50, 51, 58, 79, 99, 127], "But": [13, 32, 39, 51, 77, 102, 114, 121, 132], "futur": [13, 22, 25, 26, 35, 36, 39, 48, 53, 59, 64, 83, 99, 105, 118, 119, 121, 124, 145, 149], "job": 13, "eb": 13, "runclaw": [14, 50, 114, 123, 125, 128], "autom": [14, 54, 84, 111], "certain": [14, 32, 45, 57, 66, 93, 110, 118, 130, 136], "keep": [14, 25, 28, 32, 33, 35, 36, 71, 83, 86, 91, 101, 104, 111, 114, 139], "log": [14, 25, 28, 29, 89, 90, 91, 98, 99], "came": 14, "rundir": [14, 86], "environ": [14, 25, 28, 35, 36, 40, 50, 51, 54, 56, 57, 58, 67, 69, 71, 73, 95, 102, 104, 106, 119, 151, 152], "By": [15, 30, 41, 47, 51, 53, 59, 70, 77, 79, 83, 89, 93, 95, 102, 121, 130, 133, 143, 144, 151, 157], "noth": [15, 60, 101, 122, 133, 143, 144, 151, 154], "rememb": [15, 27, 71, 77, 94, 133, 143, 144], "b4step1": [15, 63, 154], "b4step2": [15, 133, 154], "b4step3": 15, "branch": [15, 18, 25, 29, 41, 50, 52, 55, 57, 58, 107, 111, 120, 121, 122, 123, 124, 125, 126, 133, 143, 144], "tag": [15, 51, 55, 107, 133, 137, 138, 143, 144], "bathymetri": [15, 45, 48, 51, 59, 97, 108, 119, 121, 129, 131, 133, 139, 149, 151], "area": [15, 22, 45, 99, 108, 119, 132, 133], "dy": [15, 47, 53, 59, 60, 72, 84, 89, 93, 117, 121, 133, 149, 151], "capac": [15, 97, 133, 136, 137, 138, 140], "length": [15, 30, 48, 59, 70, 96, 101, 119, 133, 136, 137, 138, 139, 154], "latter": [15, 66, 96, 124, 130, 133, 136, 145, 154], "quantiti": [15, 32, 59, 67, 86, 90, 91, 97, 101, 129, 133, 139], "latitud": [15, 30, 32, 46, 47, 53, 70, 76, 117, 130, 133, 139, 145, 151], "coordinate_system": [15, 60, 133, 139], "impos": [16, 84, 110, 139, 143, 144, 157], "chapter": [16, 128, 136, 154], "choic": [16, 45, 76, 99, 136, 138, 139, 140, 154], "bc_lower": [16, 83, 96, 103, 136, 138, 140], "bc_upper": [16, 83, 96, 103, 136, 138, 140], "extrap": [16, 96, 103, 136, 138], "outflow": [16, 136, 138, 140], "move": [16, 32, 35, 36, 45, 54, 56, 58, 60, 70, 96, 110, 113, 115, 120, 139, 149, 150], "normal": [16, 33, 52, 54, 60, 77, 96, 106, 128, 129, 136, 137, 138, 140], "fairli": [16, 48, 119], "good": [16, 28, 48, 51, 61, 71, 81, 103, 108, 111, 119, 128], "outgo": 16, "let": [16, 18, 45, 58, 81, 108, 120, 128], "pass": [16, 19, 20, 28, 30, 44, 51, 59, 71, 77, 83, 86, 88, 90, 96, 99, 101, 102, 104, 111, 128, 138, 145, 151, 154], "without": [16, 22, 33, 40, 44, 48, 57, 59, 61, 62, 63, 66, 67, 77, 79, 80, 81, 87, 92, 93, 104, 106, 111, 130, 138, 140, 145, 152, 154], "particularli": [16, 27, 29, 32, 50, 51, 57, 70, 72, 114, 117, 121, 132, 149], "perfect": 16, "hit": [16, 67, 79, 93, 136], "obliqu": 16, "angl": [16, 30, 47, 70], "perfectli": 16, "wall": [16, 41, 96, 103, 118, 121, 123, 136, 138, 140, 148], "veloc": [16, 32, 47, 60, 67, 79, 96, 97, 103, 119, 131, 136, 137, 138, 139, 140, 154], "momentum": [16, 18, 32, 48, 60, 64, 93, 129, 139, 149], "third": [16, 32, 53, 87, 148, 151], "acoust": [16, 29, 35, 36, 48, 82, 83, 86, 88, 91, 99, 100, 117, 128, 138, 154], "p": [16, 17, 29, 79, 81, 83, 89, 92, 93, 97, 101, 128, 157], "h": [16, 17, 32, 39, 44, 45, 48, 51, 52, 59, 64, 97, 110, 117, 124, 129, 131, 132, 139, 149], "hu": [16, 60, 64, 97, 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"using-clawpack"]], "Viewing plots of results": [[13, "viewing-plots-of-results"]], "Viewing webpages directly from your instance": [[13, "viewing-webpages-directly-from-your-instance"]], "Transferring files to/from your instance": [[13, "transferring-files-to-from-your-instance"]], "Stopping your instance": [[13, "stopping-your-instance"]], "Creating your own AMI": [[13, "creating-your-own-ami"]], "b4run function": [[14, "b4run-function"]], "b4step default routines": [[15, "b4step-default-routines"]], "b4step routine in GeoClaw": [[15, "b4step-routine-in-geoclaw"]], "Boundary conditions": [[16, "boundary-conditions"], [157, "boundary-conditions"]], "Boundary conditions for adaptive refinement": [[16, "boundary-conditions-for-adaptive-refinement"]], "Boundary conditions for GeoClaw": [[16, "boundary-conditions-for-geoclaw"]], "Boundary conditions for clamshell grids on the sphere": [[16, "boundary-conditions-for-clamshell-grids-on-the-sphere"]], "User-defined boundary conditions": [[16, "user-defined-boundary-conditions"]], "Bibliography": [[17, "bibliography"]], "Papers describing the Clawpack software and algorithms": [[17, "papers-describing-the-clawpack-software-and-algorithms"]], "Papers describing applications": [[17, "papers-describing-applications"]], "Other references": [[17, "other-references"]], "Changes to master since v5.7.1": [[18, "changes-to-master-since-v5-7-1"]], "Changes that are not backward compatible": [[18, "changes-that-are-not-backward-compatible"], [121, "changes-that-are-not-backward-compatible"], [122, "changes-that-are-not-backward-compatible"], [123, "changes-that-are-not-backward-compatible"], [124, "changes-that-are-not-backward-compatible"], [125, "changes-that-are-not-backward-compatible"]], "General changes": [[18, "general-changes"], [121, "general-changes"], [122, "general-changes"], [123, "general-changes"], [124, "general-changes"], [125, "general-changes"]], "Changes to classic": [[18, "changes-to-classic"], [113, "changes-to-classic"], [114, "changes-to-classic"], [115, "changes-to-classic"], [116, "changes-to-classic"], [117, "changes-to-classic"], [118, "changes-to-classic"], [119, "changes-to-classic"], [120, "changes-to-classic"], [121, "changes-to-classic"], [122, "changes-to-classic"], [123, "changes-to-classic"], [124, "changes-to-classic"], [125, "changes-to-classic"]], "Changes to clawutil": [[18, "changes-to-clawutil"], [113, "changes-to-clawutil"], [114, "changes-to-clawutil"], [115, "changes-to-clawutil"], [116, "changes-to-clawutil"], [117, "changes-to-clawutil"], [118, "changes-to-clawutil"], [119, "changes-to-clawutil"], [120, "changes-to-clawutil"], [121, "changes-to-clawutil"], [122, "changes-to-clawutil"], [123, "changes-to-clawutil"], [124, "changes-to-clawutil"], [125, "changes-to-clawutil"]], "Changes to visclaw": [[18, "changes-to-visclaw"], [113, "changes-to-visclaw"], [114, "changes-to-visclaw"], [115, "changes-to-visclaw"], [116, "changes-to-visclaw"], [117, "changes-to-visclaw"], [118, "changes-to-visclaw"], [119, "changes-to-visclaw"], [120, "changes-to-visclaw"], [121, "changes-to-visclaw"], [122, "changes-to-visclaw"], [123, "changes-to-visclaw"], [124, "changes-to-visclaw"], [125, "changes-to-visclaw"]], "Changes to riemann": [[18, "changes-to-riemann"], [113, "changes-to-riemann"], [114, "changes-to-riemann"], [115, "changes-to-riemann"], [116, "changes-to-riemann"], [117, "changes-to-riemann"], [118, "changes-to-riemann"], [119, "changes-to-riemann"], [120, "changes-to-riemann"], [121, "changes-to-riemann"], [122, "changes-to-riemann"], [123, "changes-to-riemann"], [124, "changes-to-riemann"], [125, "changes-to-riemann"]], "Changes to amrclaw": [[18, "changes-to-amrclaw"], [113, "changes-to-amrclaw"], [114, "changes-to-amrclaw"], [115, "changes-to-amrclaw"], [116, "changes-to-amrclaw"], [117, "changes-to-amrclaw"], [118, "changes-to-amrclaw"], [119, "changes-to-amrclaw"], [120, "changes-to-amrclaw"], [121, "changes-to-amrclaw"], [122, "changes-to-amrclaw"], [123, "changes-to-amrclaw"], [124, "changes-to-amrclaw"], [125, "changes-to-amrclaw"]], "Changes to geoclaw": [[18, "changes-to-geoclaw"], [113, "changes-to-geoclaw"], [114, "changes-to-geoclaw"], [115, "changes-to-geoclaw"], [116, "changes-to-geoclaw"], [117, "changes-to-geoclaw"], [118, "changes-to-geoclaw"], [119, "changes-to-geoclaw"], [120, "changes-to-geoclaw"], [121, "changes-to-geoclaw"], [122, "changes-to-geoclaw"], [123, "changes-to-geoclaw"], [124, "changes-to-geoclaw"], [125, "changes-to-geoclaw"]], "Changes to PyClaw": [[18, "changes-to-pyclaw"], [112, "changes-to-pyclaw"], [113, "changes-to-pyclaw"], [114, "changes-to-pyclaw"], [115, "changes-to-pyclaw"], [116, "changes-to-pyclaw"], [117, "changes-to-pyclaw"], [118, "changes-to-pyclaw"], [119, "changes-to-pyclaw"], [120, "changes-to-pyclaw"], [121, "changes-to-pyclaw"], [122, "changes-to-pyclaw"], [123, "changes-to-pyclaw"], [124, "changes-to-pyclaw"], [125, "changes-to-pyclaw"]], "Other Clawpack Repositories": [[18, "other-clawpack-repositories"], [120, "other-clawpack-repositories"], [121, "other-clawpack-repositories"], [122, "other-clawpack-repositories"], [123, "other-clawpack-repositories"], [124, "other-clawpack-repositories"], [125, "other-clawpack-repositories"]], "Converting from Clawpack 4.3 to 4.6": [[19, "converting-from-clawpack-4-3-to-4-6"]], "Converting from Clawpack 4.6 to 5.0": [[20, "converting-from-clawpack-4-6-to-5-0"]], "Python conversion tool": [[20, "python-conversion-tool"]], "Clawpack 4.x links": [[21, "clawpack-4-x-links"]], "Changes in Clawpack 5.0": [[22, "changes-in-clawpack-5-0"]], "PyClaw in 5.0": [[22, "pyclaw-in-5-0"]], "Fortran package changes": [[22, "fortran-package-changes"]], "Changes to input parameters in setrun.py from 4.x to 5.0": [[22, "changes-to-input-parameters-in-setrun-py-from-4-x-to-5-0"]], "Changes to general parameters": [[22, "changes-to-general-parameters"]], "Changes to AMR parameters": [[22, "changes-to-amr-parameters"]], "Changes to GeoClaw parameters": [[22, "changes-to-geoclaw-parameters"]], "Changes to plotting routines": [[22, "changes-to-plotting-routines"]], "Clawpack components": [[23, "clawpack-components"]], "Other repositories": [[23, "other-repositories"]], "Clawpack Community": [[24, "clawpack-community"]], "User Workshops, Clinics, and Tutorials": [[24, "user-workshops-clinics-and-tutorials"]], "Available for streaming": [[24, "available-for-streaming"]], "Upcoming": [[24, "upcoming"], [24, "id1"]], "Recent": [[24, "recent"]], "Developer Workshops and Sprint Sessions": [[24, "developer-workshops-and-sprint-sessions"]], "Previous": [[24, "previous"]], "Other Clawpack events": [[24, "other-clawpack-events"]], "Contents": [[25, "id1"], [28, "contents"], [39, "contents"], [66, "contents"], [77, "contents"], [83, "contents"], [93, "contents"], [99, "contents"], [105, "contents"], [111, "contents"], [130, "contents"]], "Full Table of Contents": [[25, "full-table-of-contents"]], "Overview and Getting Started": [[25, "overview-and-getting-started"]], "Examples and Applications": [[25, "examples-and-applications"]], "Classic, AMRClaw, and GeoClaw": [[25, "classic-amrclaw-and-geoclaw"]], "Using the Fortran codes": [[25, "using-the-fortran-codes"]], "AMRClaw: adaptive mesh refinement": [[25, "amrclaw-adaptive-mesh-refinement"]], "GeoClaw: geophysical flows": [[25, "geoclaw-geophysical-flows"]], "PyClaw": [[25, "pyclaw"], [35, "pyclaw"], [111, "pyclaw"], [147, "pyclaw"]], "Riemann": [[25, "riemann"]], "VisClaw: Plotting and Visualization Tools": [[25, "visclaw-plotting-and-visualization-tools"]], "Migrating applications from older versions of Clawpack": [[25, "migrating-applications-from-older-versions-of-clawpack"]], "Developers\u2019 resources": [[25, "developers-resources"]], "References": [[25, "references"], [52, "references"]], "Contributing examples and applications": [[26, "contributing-examples-and-applications"]], "current_data": [[27, "current-data"]], "Attributes of current_data:": [[27, "attributes-of-current-data"]], "Developers\u2019 Guide": [[28, "developers-guide"]], "Guidelines for contributing": [[28, "guidelines-for-contributing"]], "Reporting and fixing bugs": [[28, "reporting-and-fixing-bugs"]], "Developer communication": [[28, "developer-communication"]], "Installation instructions for developers": [[28, "installation-instructions-for-developers"]], "Cloning the most recent code from Github": [[28, "cloning-the-most-recent-code-from-github"]], "Checking out the master branch on each repository": [[28, "checking-out-the-master-branch-on-each-repository"]], "Updating to the latest master branch": [[28, "updating-to-the-latest-master-branch"]], "Never commit to master": [[28, "never-commit-to-master"]], "Adding your fork as a remote": [[28, "adding-your-fork-as-a-remote"]], "Modifying code": [[28, "modifying-code"]], "Issuing a pull request": [[28, "issuing-a-pull-request"]], "Testing a pull request": [[28, "testing-a-pull-request"]], "Top-level pull requests": [[28, "top-level-pull-requests"]], "Git workflow": [[28, "git-workflow"]], "Catching errors with Pyflakes and Pylint": [[28, "catching-errors-with-pyflakes-and-pylint"]], "Checking test coverage": [[28, "checking-test-coverage"]], "Trouble-Shooting Tips": [[28, "trouble-shooting-tips"]], "Docker for Clawpack": [[29, "docker-for-clawpack"]], "A better image for GeoClaw users": [[29, "a-better-image-for-geoclaw-users"]], "Stopping a container": [[29, "stopping-a-container"]], "Restarting a container": [[29, "restarting-a-container"]], "Running Jupyter notebooks": [[29, "running-jupyter-notebooks"]], "Moving files between the docker container and the host machine": [[29, "moving-files-between-the-docker-container-and-the-host-machine"]], "Some other useful docker commands": [[29, "some-other-useful-docker-commands"]], "Creating your own docker image": [[29, "creating-your-own-docker-image"]], "Dockerfiles for binder": [[29, "dockerfiles-for-binder"]], "dtopotools module for moving topography": [[30, "dtopotools-module-for-moving-topography"]], "Documentation auto-generated from the module docstrings": [[30, "module-clawpack.geoclaw.dtopotools"], [33, "module-clawpack.geoclaw.fgmax_tools"], [47, "module-clawpack.geoclaw.util"], [59, "module-clawpack.geoclaw.kmltools"], [151, "module-clawpack.geoclaw.topotools"]], "Fortran 77 vs. Fortran 90 files": [[31, "fortran-77-vs-fortran-90-files"]], "Fixed grid monitoring": [[32, "fixed-grid-monitoring"]], "Input file specification": [[32, "input-file-specification"]], "Different point styles": [[32, "different-point-styles"]], "Other attributes": [[32, "other-attributes"]], "Values to monitor": [[32, "values-to-monitor"]], "Choice of interpolation procedure": [[32, "choice-of-interpolation-procedure"]], "A simple example": [[32, "a-simple-example"]], "Processing and plotting fgmax output": [[32, "processing-and-plotting-fgmax-output"]], "Format of the output files": [[32, "format-of-the-output-files"]], "fgmax_tools module for working with topography data": [[33, "fgmax-tools-module-for-working-with-topography-data"]], "Fixed grid output": [[34, "fixed-grid-output"]], "Running an example": [[35, "running-an-example"], [36, "running-an-example"], [37, "running-an-example"]], "Classic": [[35, "classic"], [36, "classic"], [147, "classic"]], "Testing your Fortran installation and running an example": [[36, "testing-your-fortran-installation-and-running-an-example"]], "More examples": [[36, "more-examples"]], "Testing a PyClaw installation and running an example": [[37, "testing-a-pyclaw-installation-and-running-an-example"]], "From the Jupyter notebook": [[37, "from-the-jupyter-notebook"]], "From the IPython interpreter": [[37, "from-the-ipython-interpreter"]], "From the command line": [[37, "from-the-command-line"], [88, "from-the-command-line"]], "Specifying flagregions for adaptive refinement": [[38, "specifying-flagregions-for-adaptive-refinement"]], "Using ruled rectangles as flagregions": [[38, "using-ruled-rectangles-as-flagregions"]], "Force Cells to be Dry Initially": [[39, "force-cells-to-be-dry-initially"]], "Examples": [[39, "examples"], [44, "examples"], [66, "examples"], [91, "examples"], [130, "examples"]], "Sample topography from a 1/3 arcsecond DEM": [[39, "sample-topography-from-a-1-3-arcsecond-dem"], [66, "sample-topography-from-a-1-3-arcsecond-dem"]], "Creating the force_dry_init array": [[39, "creating-the-force-dry-init-array"]], "Create file to read into GeoClaw": [[39, "create-file-to-read-into-geoclaw"]], "Usage in GeoClaw Fortran code": [[39, "usage-in-geoclaw-fortran-code"]], "Internal GeoClaw modifications": [[39, "internal-geoclaw-modifications"]], "Fortran version": [[40, "fortran-version"]], "Makefiles": [[40, "makefiles"]], "More tips": [[40, "more-tips"]], "Fortran Compilers": [[41, "fortran-compilers"]], "FC environment variable": [[41, "fc-environment-variable"]], "FFLAGS environment variable": [[41, "fflags-environment-variable"]], "LFLAGS environment variable": [[41, "lflags-environment-variable"]], "Pre-Processor and the PPFLAGS environment variable": [[41, "pre-processor-and-the-ppflags-environment-variable"]], "gfortran compiler": [[41, "gfortran-compiler"]], "Intel fortran compiler": [[41, "intel-fortran-compiler"]], "Examples from the book FVMHP": [[42, "examples-from-the-book-fvmhp"]], "Available examples": [[42, "available-examples"]], "Gauges": [[44, "gauges"]], "Gauge parameters in setrun": [[44, "gauge-parameters-in-setrun"]], "Plotting tools": [[44, "plotting-tools"]], "Plotting gauge locations": [[44, "plotting-gauge-locations"]], "GeoClaw Description and Detailed Contents": [[45, "geoclaw-description-and-detailed-contents"]], "Getting started with GeoClaw": [[46, "getting-started-with-geoclaw"]], "Running a GeoClaw code": [[46, "running-a-geoclaw-code"]], "Topography": [[46, "topography"]], "Plotting GeoClaw results": [[46, "plotting-geoclaw-results"]], "Setting up a new example": [[46, "setting-up-a-new-example"]], "geoclaw.util module of utility functions": [[47, "geoclaw-util-module-of-utility-functions"]], "Cautionary Hints on using GeoClaw": [[48, "cautionary-hints-on-using-geoclaw"]], "Tsunami hazard modeling": [[48, "tsunami-hazard-modeling"]], "GeoClaw plotting tools": [[49, "geoclaw-plotting-tools"]], "Plotting water depth or surface elevation": [[49, "plotting-water-depth-or-surface-elevation"]], "Tips on latitude-longitude coordinate axes": [[49, "tips-on-latitude-longitude-coordinate-axes"]], "Keeping track of repository versions with Git": [[50, "keeping-track-of-repository-versions-with-git"]], "Visualizing GeoClaw results in Google Earth": [[51, "visualizing-geoclaw-results-in-google-earth"]], "Basic requirements": [[51, "basic-requirements"]], "Optional GDAL library": [[51, "optional-gdal-library"]], "An example : The Chile 2010 tsunami event": [[51, "an-example-the-chile-2010-tsunami-event"]], "Plotting attributes needed for Google Earth": [[51, "plotting-attributes-needed-for-google-earth"]], "plotdata attributes": [[51, "plotdata-attributes"]], "plotfigure attributes": [[51, "plotfigure-attributes"]], "Creating the figures": [[51, "creating-the-figures"]], "plotaxes attributes": [[51, "plotaxes-attributes"]], "plotitem attributes": [[51, "plotitem-attributes"]], "Adding a colorbar overlay": [[51, "adding-a-colorbar-overlay"]], "Gauge plots": [[51, "gauge-plots"]], "Additional plotdata attributes": [[51, "additional-plotdata-attributes"]], "Plotting tips": [[51, "plotting-tips"]], "KML and KMZ files": [[51, "kml-and-kmz-files"]], "Tiling images for faster loading": [[51, "tiling-images-for-faster-loading"]], "Removing aliasing artifacts": [[51, "removing-aliasing-artifacts"]], "Creating multiple figures at different resolutions": [[51, "creating-multiple-figures-at-different-resolutions"]], "Mapping topography data to latitude/longitude coordinates": [[51, "mapping-topography-data-to-latitude-longitude-coordinates"]], "Publishing your results": [[51, "id1"]], "Using the GPU version of Clawpack": [[52, "using-the-gpu-version-of-clawpack"]], "Grid registration": [[53, "grid-registration"]], "NetCDF files": [[53, "netcdf-files"]], "Guide for updating this documentation": [[54, "guide-for-updating-this-documentation"]], "Git branches and tags": [[54, "git-branches-and-tags"]], "Configuration and style files": [[54, "configuration-and-style-files"]], "Updating the docs for a new release": [[54, "updating-the-docs-for-a-new-release"]], "To generate docs including previous versions": [[54, "to-generate-docs-including-previous-versions"]], "Updating the gallery": [[54, "updating-the-gallery"]], "Updating the webpages": [[54, "updating-the-webpages"]], "Extra files for webpages not built by Sphinx": [[54, "extra-files-for-webpages-not-built-by-sphinx"]], "Pages from other clawpack repositories": [[54, "pages-from-other-clawpack-repositories"]], "Guide for doing a Clawpack release": [[55, "guide-for-doing-a-clawpack-release"]], "Preparation": [[55, "preparation"]], "Version numbers": [[55, "version-numbers"]], "Release candidates": [[55, "release-candidates"]], "Create a tar file and a Github release": [[55, "create-a-tar-file-and-a-github-release"]], "Final release": [[55, "final-release"]], "Pypi": [[55, "pypi"]], "Zenodo": [[55, "zenodo"]], "Updating the documentation": [[55, "updating-the-documentation"]], "Updating the apps repository": [[55, "updating-the-apps-repository"]], "Updating the Dockerfile": [[55, "updating-the-dockerfile"]], "Installing Clawpack": [[56, "installing-clawpack"]], "pip install": [[56, "pip-install"]], "Other Installation Options": [[56, "other-installation-options"]], "Next steps:": [[56, "next-steps"], [57, "next-steps"], [58, "next-steps"]], "Additional options for installing Clawpack": [[57, "additional-options-for-installing-clawpack"]], "tar file": [[57, "tar-file"]], "git clone": [[57, "git-clone"]], "Using conda (does not require a Fortran compiler)": [[57, "using-conda-does-not-require-a-fortran-compiler"]], "Docker": [[57, "docker"]], "Launching an AWS instance with Clawpack installed": [[57, "launching-an-aws-instance-with-clawpack-installed"]], "Installing PyClaw for parallel processing with PETSc": [[57, "installing-pyclaw-for-parallel-processing-with-petsc"]], "pip install instructions": [[58, "pip-install-instructions"]], "Quick Installation of all packages": [[58, "quick-installation-of-all-packages"]], "Quick Installation of only PyClaw": [[58, "quick-installation-of-only-pyclaw"]], "Using pip to install a different version": [[58, "using-pip-to-install-a-different-version"]], "Experimenting with code in the examples directories": [[58, "experimenting-with-code-in-the-examples-directories"]], "Troubleshooting pip install": [[58, "troubleshooting-pip-install"]], "kmltools module of utility functions": [[59, "kmltools-module-of-utility-functions"]], "Lagrangian gauges for particle tracking": [[60, "lagrangian-gauges-for-particle-tracking"]], "Specifying Lagrangian Gauges": [[60, "specifying-lagrangian-gauges"]], "Visclaw tools for plotting": [[60, "visclaw-tools-for-plotting"]], "Clawpack Makefiles": [[62, "clawpack-makefiles"]], "Applications directory Makefiles": [[62, "applications-directory-makefiles"]], "output": [[62, "output"]], "plots": [[62, "plots"]], "Variables": [[62, "variables"]], "Compiler flags": [[62, "compiler-flags"]], "Duplicate Base Source Name": [[62, "duplicate-base-source-name"]], "Library routines in Makefiles": [[63, "library-routines-in-makefiles"]], "Replacing files with the same name as library files": [[63, "replacing-files-with-the-same-name-as-library-files"]], "Using a modified library routine with a different name": [[63, "using-a-modified-library-routine-with-a-different-name"]], "Manning friction term": [[64, "manning-friction-term"]], "The mapc2p function": [[65, "the-mapc2p-function"]], "Marching Front algorithm": [[66, "marching-front-algorithm"]], "Function arguments": [[66, "function-arguments"]], "output array": [[66, "output-array"]], "creating a masked array": [[66, "creating-a-masked-array"]], "topofile mask for initializing dry points": [[66, "topofile-mask-for-initializing-dry-points"]], "fgmax points": [[66, "fgmax-points"]], "flag regions": [[66, "flag-regions"]], "The mask argument": [[66, "the-mask-argument"]], "The previous_pts_chosen argument": [[66, "the-previous-pts-chosen-argument"]], "Finding all points below a given elevation": [[66, "finding-all-points-below-a-given-elevation"]], "Create a buffer zone along shore": [[66, "create-a-buffer-zone-along-shore"]], "Choose points only near shore": [[66, "choose-points-only-near-shore"]], "Write out the masked array indicating fgmax points": [[66, "write-out-the-masked-array-indicating-fgmax-points"]], "Creating an AMR flag region": [[66, "creating-an-amr-flag-region"]], "Determining dry areas below MHW": [[66, "determining-dry-areas-below-mhw"]], "Plotting using Matlab": [[67, "plotting-using-matlab"]], "The Matlab search path": [[67, "the-matlab-search-path"]], "Creating output files": [[67, "creating-output-files"]], "The plotclaw command": [[67, "the-plotclaw-command"]], "The setplot file": [[67, "the-setplot-file"]], "The afterframe file": [[67, "the-afterframe-file"]], "Getting help": [[67, "getting-help"]], "Trouble shooting": [[67, "trouble-shooting"]], "Output files not found": [[67, "output-files-not-found"]], "MaxFrames not set": [[67, "maxframes-not-set"]], "Switching examples": [[67, "switching-examples"]], "Matlab Gallery": [[67, "matlab-gallery"]], "Using NetCDF output": [[68, "using-netcdf-output"]], "To install netcdf": [[68, "to-install-netcdf"]], "To compile with netcdf": [[68, "to-compile-with-netcdf"]], "To plot the results": [[68, "to-plot-the-results"]], "Creating a new application directory": [[69, "creating-a-new-application-directory"]], "Copying an existing example": [[69, "copying-an-existing-example"]], "Earthquake sources: Fault slip and the Okada model": [[70, "earthquake-sources-fault-slip-and-the-okada-model"]], "Fault slip on rectangular subfaults": [[70, "fault-slip-on-rectangular-subfaults"]], "Okada model": [[70, "okada-model"]], "Kinematic rupture": [[70, "kinematic-rupture"]], "Fault slip on triangular subfaults": [[70, "fault-slip-on-triangular-subfaults"]], "Using OpenMP": [[71, "using-openmp"]], "Using OpenMP with AMR": [[71, "using-openmp-with-amr"]], "Fixed grid output in GeoClaw": [[71, "fixed-grid-output-in-geoclaw"]], "Output data formats": [[72, "output-data-formats"]], "ASCII output data format": [[72, "ascii-output-data-format"]], "fort.t0002": [[72, "fort-t0002"]], "fort.q0002": [[72, "fort-q0002"]], "Raw binary output data format": [[72, "raw-binary-output-data-format"]], "NetCDF output data format": [[72, "netcdf-output-data-format"]], "Output of aux arrays": [[72, "output-of-aux-arrays"]], "Which Clawpack solver should I use?": [[73, "which-clawpack-solver-should-i-use"]], "Installation and user interface": [[73, "installation-and-user-interface"]], "Algorithmic differences": [[73, "algorithmic-differences"]], "Parallel computing": [[73, "parallel-computing"]], "Clawpack Community Photos": [[74, "clawpack-community-photos"]], "2016 Developers\u2019 workshop at University of Washington": [[74, "id1"]], "2015 Developers\u2019 workshop at University of Utah": [[74, "id2"]], "2014 HPC3 workshop at KAUST": [[74, "id3"]], "2013 Claw-Dev workshop at UW": [[74, "id4"]], "2012 HPC3 workshop at KAUST": [[74, "id6"]], "2011 coding sprints at UW": [[74, "coding-sprints-at-uw"]], "2010 GeoClaw hacking UW": [[74, "geoclaw-hacking-uw"]], "Plotting examples": [[75, "plotting-examples"]], "Plotting with Visclaw": [[76, "plotting-with-visclaw"]], "Plotting as post-processing": [[76, "plotting-as-post-processing"]], "Plotting on the fly": [[76, "plotting-on-the-fly"]], "Plotting hints and FAQ": [[77, "plotting-hints-and-faq"]], "What\u2019s the difference between make .plots and make plots ?": [[77, "what-s-the-difference-between-make-plots-and-make-plots"]], "How to plot a something other than a component of q?": [[77, "how-to-plot-a-something-other-than-a-component-of-q"]], "How to add another curve to a plot, e.g. the true solution?": [[77, "how-to-add-another-curve-to-a-plot-e-g-the-true-solution"]], "How to change the title in a plot?": [[77, "how-to-change-the-title-in-a-plot"]], "How to specify outdir, the directory to find fort.* files for plotting?": [[77, "how-to-specify-outdir-the-directory-to-find-fort-files-for-plotting"]], "How to specify a different outdir for some plot item?": [[77, "how-to-specify-a-different-outdir-for-some-plot-item"]], "How to set plot parameters that are not provided as attributes of ClawPlotItem?": [[77, "how-to-set-plot-parameters-that-are-not-provided-as-attributes-of-clawplotitem"]], "How to change the size or background color of a figure?": [[77, "how-to-change-the-size-or-background-color-of-a-figure"]], "Specifying colormaps for pcolor or contourf plots": [[77, "specifying-colormaps-for-pcolor-or-contourf-plots"]], "How to debug setplot.py?": [[77, "how-to-debug-setplot-py"]], "Plotting routines for GeoClaw": [[78, "plotting-routines-for-geoclaw"]], "Plotting options in Python": [[79, "plotting-options-in-python"]], "Producing html plots from the command line": [[79, "producing-html-plots-from-the-command-line"]], "Producing a latex file with plots from the command line": [[79, "producing-a-latex-file-with-plots-from-the-command-line"]], "Setting plot parameters with a setplot function": [[79, "setting-plot-parameters-with-a-setplot-function"]], "Interactive plotting with Iplotclaw": [[79, "interactive-plotting-with-iplotclaw"]], "Access to current_data": [[79, "access-to-current-data"]], "printframes": [[79, "printframes"]], "Specifying what and how to plot": [[79, "specifying-what-and-how-to-plot"]], "Installation Prerequisites": [[80, "installation-prerequisites"]], "Operating system": [[80, "operating-system"]], "Fortran": [[80, "fortran"]], "Python": [[80, "python"]], "pip": [[80, "pip"]], "Git": [[80, "git"]], "About PyClaw": [[81, "about-pyclaw"]], "Contributors": [[81, "contributors"]], "PyClaw Basics": [[82, "pyclaw-basics"]], "Understanding Pyclaw Classes": [[83, "understanding-pyclaw-classes"]], "Flow of a Pyclaw Simulation": [[83, "flow-of-a-pyclaw-simulation"]], "Creation of a Pyclaw Solution": [[83, "creation-of-a-pyclaw-solution"]], "Creation of a Pyclaw Solver": [[83, "creation-of-a-pyclaw-solver"]], "Creating and Running a Simulation with Controller": [[83, "creating-and-running-a-simulation-with-controller"]], "Restarting a simulation": [[83, "restarting-a-simulation"]], "Outputting aux values": [[83, "outputting-aux-values"]], "Outputting derived quantities": [[83, "outputting-derived-quantities"], [93, "outputting-derived-quantities"]], "Porting a problem from Clawpack 4.6.x to PyClaw": [[84, "porting-a-problem-from-clawpack-4-6-x-to-pyclaw"]], "Running PyClaw in the cloud": [[85, "running-pyclaw-in-the-cloud"]], "Sage Math Cloud": [[85, "sage-math-cloud"]], "Pyclaw Controller Class": [[86, "pyclaw-controller-class"]], "pyclaw.controller.Controller": [[86, "pyclaw-controller-controller"]], "Pyclaw Limiters": [[87, "pyclaw-limiters"]], "clawpack.pyclaw.limiters.tvd": [[87, "module-clawpack.pyclaw.limiters.tvd"]], "CFL Independent Limiters": [[87, "cfl-independent-limiters"]], "CFL Dependent Limiters": [[87, "cfl-dependent-limiters"]], "Working with PyClaw\u2019s built-in examples": [[88, "working-with-pyclaw-s-built-in-examples"]], "Running and plotting examples": [[88, "running-and-plotting-examples"]], "Interactively in IPython": [[88, "interactively-in-ipython"]], "Built-in examples": [[88, "built-in-examples"]], "Adding new examples": [[88, "adding-new-examples"]], "PyClaw Geometry": [[89, "pyclaw-geometry"]], "Serial Geometry Objects": [[89, "serial-geometry-objects"]], "pyclaw.geometry.Domain": [[89, "pyclaw-geometry-domain"]], "pyclaw.geometry.Patch": [[89, "pyclaw-geometry-patch"]], "pyclaw.geometry.Grid": [[89, "pyclaw-geometry-grid"]], "pyclaw.geometry.Dimension": [[89, "pyclaw-geometry-dimension"]], "Parallel Geometry Objects": [[89, "parallel-geometry-objects"]], "petclaw.geometry.Domain": [[89, "petclaw-geometry-domain"]], "petclaw.geometry.Patch": [[89, "petclaw-geometry-patch"]], "Going Further": [[90, "going-further"]], "Pyclaw": [[91, "pyclaw"]], "PyClaw installation": [[91, "pyclaw-installation"]], "Features": [[91, "features"]], "PyClaw Documentation": [[91, "pyclaw-documentation"]], "PyClaw Modules reference documentation": [[91, "pyclaw-modules-reference-documentation"]], "Riemann Solvers reference documentation": [[91, "riemann-solvers-reference-documentation"]], "Indices and tables": [[91, "indices-and-tables"]], "Citing PyClaw": [[91, "citing-pyclaw"]], "Pyclaw Input/Output Package": [[92, "pyclaw-input-output-package"]], "pyclaw.fileio.ascii": [[92, "module-clawpack.pyclaw.fileio.ascii"]], "pyclaw.fileio.hdf5": [[92, "pyclaw-fileio-hdf5"]], "pyclaw.fileio.netcdf": [[92, "module-clawpack.pyclaw.fileio.netcdf"]], "PyClaw output": [[93, "pyclaw-output"]], "Output frames": [[93, "output-frames"]], "When output is saved/written": [[93, "when-output-is-saved-written"]], "Where and how output is written": [[93, "where-and-how-output-is-written"]], "What output is written": [[93, "what-output-is-written"]], "Outputting functionals": [[93, "outputting-functionals"]], "Using gauges": [[93, "using-gauges"]], "Logging": [[93, "logging"]], "Running in parallel": [[94, "running-in-parallel"]], "Installing PETSc": [[94, "installing-petsc"]], "Testing your installation": [[94, "testing-your-installation"], [147, "testing-your-installation"]], "Running and plotting an example": [[94, "running-and-plotting-an-example"]], "Tips for making your application run correctly in parallel": [[94, "tips-for-making-your-application-run-correctly-in-parallel"]], "Passing options to PETSc": [[94, "passing-options-to-petsc"]], "Plotting PyClaw results": [[95, "plotting-pyclaw-results"]], "Basics": [[95, "basics"]], "Plotting result from parallel runs": [[95, "plotting-result-from-parallel-runs"]], "Setting up your own problem": [[96, "setting-up-your-own-problem"]], "Writing the initialization script": [[96, "writing-the-initialization-script"]], "Setting initial conditions": [[96, "setting-initial-conditions"]], "Setting auxiliary variables": [[96, "setting-auxiliary-variables"]], "Setting boundary conditions": [[96, "setting-boundary-conditions"]], "Setting solver options": [[96, "setting-solver-options"]], "Using your own Riemann solver": [[96, "using-your-own-riemann-solver"]], "Adding source terms": [[96, "adding-source-terms"]], "Setting up the Makefile": [[96, "setting-up-the-makefile"]], "Riemann Solver Package": [[97, "riemann-solver-package"]], "Acoustics": [[97, "acoustics"]], "Advection": [[97, "advection"]], "Burgers Equation": [[97, "burgers-equation"]], "Euler Equations": [[97, "euler-equations"]], "Shallow Water Equations": [[97, "shallow-water-equations"]], "PyClaw Solutions": [[98, "pyclaw-solutions"]], "pyclaw.solution.Solution": [[98, "pyclaw-solution-solution"]], "Using PyClaw\u2019s solvers: Classic and SharpClaw": [[99, "using-pyclaw-s-solvers-classic-and-sharpclaw"]], "SharpClaw Solvers": [[99, "sharpclaw-solvers"]], "pyclaw.sharpclaw": [[99, "pyclaw-sharpclaw"]], "Pyclaw Classic Clawpack Solvers": [[99, "pyclaw-classic-clawpack-solvers"]], "pyclaw.classic.solver": [[99, "pyclaw-classic-solver"]], "Change to Custom BC Function Signatures": [[99, "change-to-custom-bc-function-signatures"]], "Installing PyClaw": [[100, "installing-pyclaw"]], "Dependencies: Python, gfortran, numpy, and matplotlib": [[100, "dependencies-python-gfortran-numpy-and-matplotlib"]], "Obtaining Python, numpy, and matplotlib": [[100, "obtaining-python-numpy-and-matplotlib"]], "Clawpack": [[100, "clawpack"]], "Testing your installation with nose": [[100, "testing-your-installation-with-nose"]], "Next steps": [[100, "next-steps"]], "PyClaw State": [[101, "pyclaw-state"]], "Serial pyclaw.state.State": [[101, "serial-pyclaw-state-state"]], "Parallel petclaw.state.State": [[101, "parallel-petclaw-state-state"]], "Troubleshooting": [[102, "troubleshooting"], [152, "troubleshooting"]], "Compilation errors": [[102, "compilation-errors"]], "Use Fortran-ordered arrays": [[102, "use-fortran-ordered-arrays"]], "Installation": [[102, "installation"]], "PyClaw tutorial: Solve the acoustics equations": [[103, "pyclaw-tutorial-solve-the-acoustics-equations"]], "The Solver": [[103, "the-solver"]], "The domain": [[103, "the-domain"]], "Initial condition": [[103, "initial-condition"]], "Problem-specific parameters": [[103, "problem-specific-parameters"]], "The controller": [[103, "the-controller"]], "Pyclaw Utility Module": [[104, "pyclaw-utility-module"]], "pyclaw.util": [[104, "module-clawpack.pyclaw.util"]], "Python Hints": [[105, "python-hints"]], "Dropping support for Python 2.7": [[105, "dropping-support-for-python-2-7"]], "What is Python?": [[105, "what-is-python"]], "Installation of required modules": [[105, "installation-of-required-modules"]], "References and tutorials": [[105, "references-and-tutorials"]], "Notebooks": [[105, "notebooks"]], "Python path": [[106, "python-path"]], "whichclaw.py": [[106, "whichclaw-py"]], "Which version was imported?": [[106, "which-version-was-imported"]], "sys.path": [[106, "sys-path"]], "easy-install.pth": [[106, "easy-install-pth"]], "PYTHONPATH": [[106, "pythonpath"], [134, "pythonpath"]], "qinit default routines": [[107, "qinit-default-routines"]], "qinit routine in GeoClaw": [[107, "qinit-routine-in-geoclaw"]], "Quick start guide for storm surge modeling": [[108, "quick-start-guide-for-storm-surge-modeling"]], "Quick start guide for tsunami modeling": [[109, "quick-start-guide-for-tsunami-modeling"]], "AMR refinement criteria": [[110, "amr-refinement-criteria"]], "Flagging criteria": [[110, "flagging-criteria"]], "flag2refine": [[110, "flag2refine"]], "Richardson extrapolation": [[110, "richardson-extrapolation"]], "Specifying AMR regions": [[110, "specifying-amr-regions"]], "Implementation": [[110, "implementation"]], "Flagging criteria in GeoClaw": [[110, "flagging-criteria-in-geoclaw"]], "Regression testing": [[111, "regression-testing"]], "Running the tests": [[111, "running-the-tests"], [111, "id2"]], "Fortran codes": [[111, "fortran-codes"]], "Travis continuous integration": [[111, "travis-continuous-integration"]], "Diff tools for checking test output": [[111, "diff-tools-for-checking-test-output"]], "chardiff tool for line-by-line comparison of output files": [[111, "chardiff-tool-for-line-by-line-comparison-of-output-files"]], "imagediff tool for pixel comparison of plots": [[111, "imagediff-tool-for-pixel-comparison-of-plots"]], "Running and writing tests in PyClaw": [[111, "running-and-writing-tests-in-pyclaw"]], "Running serial tests simultaneously": [[111, "running-serial-tests-simultaneously"]], "Running a specific test": [[111, "running-a-specific-test"]], "Doctests": [[111, "doctests"]], "Writing New Tests": [[111, "writing-new-tests"]], "v5.0.0 release notes": [[112, "v5-0-0-release-notes"]], "Changes to classic, riemann, amrclaw, geoclaw, visclaw": [[112, "changes-to-classic-riemann-amrclaw-geoclaw-visclaw"]], "v5.1.0 release notes": [[113, "v5-1-0-release-notes"]], "v5.2.0 release notes": [[114, "v5-2-0-release-notes"]], "v5.2.1 release notes": [[115, "v5-2-1-release-notes"]], "v5.2.2 release notes": [[116, "v5-2-2-release-notes"]], "v5.3.0 release notes": [[117, "v5-3-0-release-notes"]], "v5.3.1 release notes": [[118, "v5-3-1-release-notes"]], "v5.4.0 release notes": [[119, "v5-4-0-release-notes"]], "Global changes": [[119, "global-changes"]], "v5.4.1 release notes": [[120, "v5-4-1-release-notes"]], "Changes to documentation": [[120, "changes-to-documentation"], [121, "changes-to-documentation"]], "v5.5.0 release notes": [[121, "v5-5-0-release-notes"]], "v5.6.0 release notes": [[122, "v5-6-0-release-notes"]], "v5.6.1 release notes": [[123, "v5-6-1-release-notes"]], "v5.7.0 release notes": [[124, "v5-7-0-release-notes"]], "Python support": [[124, "python-support"]], "v5.7.1 release notes": [[125, "v5-7-1-release-notes"]], "Releases of Clawpack and release notes": [[126, "releases-of-clawpack-and-release-notes"]], "Other notes:": [[126, "other-notes"]], "Releases:": [[126, "id1"]], "Clawpack 4.x": [[126, "clawpack-4-x"]], "Checkpointing and restarting": [[127, "checkpointing-and-restarting"]], "Checkpointing a computation": [[127, "checkpointing-a-computation"]], "Restarting a computation": [[127, "restarting-a-computation"]], "Modifying the Makefile for a restart": [[127, "modifying-the-makefile-for-a-restart"]], "Output files after a restart": [[127, "output-files-after-a-restart"]], "Riemann solvers": [[128, "riemann-solvers"]], "One-dimensional Riemann solver": [[128, "one-dimensional-riemann-solver"]], "Pointwise Riemann solvers": [[128, "pointwise-riemann-solvers"]], "f-wave Riemann solvers": [[128, "f-wave-riemann-solvers"]], "2D Riemann solvers": [[128, "d-riemann-solvers"]], "Using a custom solver": [[128, "using-a-custom-solver"]], "Adding a solver to the Riemann repository": [[128, "adding-a-solver-to-the-riemann-repository"]], "Shallow water Riemann solvers in Clawpack": [[129, "shallow-water-riemann-solvers-in-clawpack"]], "One dimension": [[129, "one-dimension"]], "Two dimensions": [[129, "two-dimensions"]], "Layered shallow water equations": [[129, "layered-shallow-water-equations"]], "Potentially useful contributions (what\u2019s missing)": [[129, "potentially-useful-contributions-whats-missing"]], "Demonstrations": [[129, "demonstrations"]], "Roe": [[129, "roe"]], "HLL": [[129, "hll"]], "Ruled Rectangles": [[130, "ruled-rectangles"]], "Relation to convex polygons": [[130, "relation-to-convex-polygons"]], "Other attributes and methods": [[130, "other-attributes-and-methods"]], "ds": [[130, "ds"]], "slu": [[130, "slu"]], "bounding_box": [[130, "bounding-box"]], "mask_outside": [[130, "mask-outside"]], "read and write, and instantiating from a file": [[130, "read-and-write-and-instantiating-from-a-file"]], "make_kml": [[130, "make-kml"]], "A GeoClaw AMR flag region": [[130, "a-geoclaw-amr-flag-region"]], "A simple rectangle": [[130, "a-simple-rectangle"]], "Defining a Ruled Rectangle covering selected cells": [[130, "defining-a-ruled-rectangle-covering-selected-cells"]], "Example covering the continental shelf": [[130, "example-covering-the-continental-shelf"]], "Setting sealevel": [[131, "setting-sealevel"]], "Set Eta Init \u2013 spatially varying initial surface elevation": [[132, "set-eta-init-spatially-varying-initial-surface-elevation"]], "Default behavior, adjusting sea level by seismic deformation": [[132, "default-behavior-adjusting-sea-level-by-seismic-deformation"]], "Other use cases": [[132, "other-use-cases"]], "setaux default routines": [[133, "setaux-default-routines"]], "setaux routine in GeoClaw": [[133, "setaux-routine-in-geoclaw"]], "Set environment variables": [[134, "set-environment-variables"]], "CLAW": [[134, "claw"]], "FC": [[134, "fc"]], "Using setplot.py to specify the desired plots": [[135, "using-setplot-py-to-specify-the-desired-plots"]], "Plotting Data Objects": [[135, "plotting-data-objects"]], "Overview": [[135, "overview"]], "Specifying classic run-time parameters in setrun.py": [[136, "specifying-classic-run-time-parameters-in-setrun-py"]], "Input": [[136, "input"], [137, "input"]], "Output": [[136, "output"], [137, "output"]], "Run-time parameters": [[136, "run-time-parameters"], [137, "run-time-parameters"]], "Specifying AMRClaw run-time parameters in setrun.py": [[137, "specifying-amrclaw-run-time-parameters-in-setrun-py"]], "Special AMR parameters": [[137, "special-amr-parameters"]], "Debugging flags for additional printing": [[137, "debugging-flags-for-additional-printing"]], "Sample setrun.py module for AMRClaw": [[138, "sample-setrun-py-module-for-amrclaw"]], "Specifying GeoClaw parameters in setrun.py": [[139, "specifying-geoclaw-parameters-in-setrun-py"]], "Additional AMR parameters": [[139, "additional-amr-parameters"]], "General geo parameters": [[139, "general-geo-parameters"]], "Topography data file parameters": [[139, "topography-data-file-parameters"]], "qinit data file parameters": [[139, "qinit-data-file-parameters"]], "AMR refinement region parameters": [[139, "amr-refinement-region-parameters"]], "Fixed grid output parameters": [[139, "fixed-grid-output-parameters"]], "Fixed grid maximum monitoring / arrival times": [[139, "fixed-grid-maximum-monitoring-arrival-times"]], "Storm Specification Data": [[139, "storm-specification-data"]], "Sample setrun.py module for classic Clawpack": [[140, "sample-setrun-py-module-for-classic-clawpack"]], "Saving and sharing results": [[141, "saving-and-sharing-results"]], "Making webpages of plots": [[141, "making-webpages-of-plots"]], "Sharing your results": [[141, "sharing-your-results"]], "IPython notebooks": [[141, "ipython-notebooks"]], "Compiling the Sphinx documentation locally": [[142, "compiling-the-sphinx-documentation-locally"]], "src1d default routines": [[143, "src1d-default-routines"]], "src1d routine in GeoClaw": [[143, "src1d-routine-in-geoclaw"]], "src default routines": [[144, "src-default-routines"]], "src routine in GeoClaw": [[144, "src-routine-in-geoclaw"]], "Storm Specification Class and Tools": [[145, "storm-specification-class-and-tools"]], "Sources for Storm Surge Data": [[146, "sources-for-storm-surge-data"]], "Timing Statistics": [[148, "timing-statistics"]], "Topography data": [[149, "topography-data"]], "Downloading topography files": [[149, "downloading-topography-files"]], "NetCDF format": [[149, "netcdf-format"]], "Topography displacement files": [[149, "topography-displacement-files"]], "qinit data file": [[149, "qinit-data-file"]], "Python tools for working with topo and dtopo": [[150, "python-tools-for-working-with-topo-and-dtopo"]], "topotools module for working with topography data": [[151, "topotools-module-for-working-with-topography-data"]], "Troubleshooting Installation": [[152, "troubleshooting-installation"]], "Troubleshooting Fortran:": [[152, "troubleshooting-fortran"]], "Setting the Fortran compiler to be used by f2py (pip)": [[152, "setting-the-fortran-compiler-to-be-used-by-f2py-pip"]], "Trouble compiling Fortran code at the command line": [[152, "trouble-compiling-fortran-code-at-the-command-line"]], "Trouble running \u201cmake .exe\u201d": [[152, "trouble-running-make-exe"]], "Trouble running \u201cmake .data\u201d": [[152, "trouble-running-make-data"]], "Trouble running \u201cmake .output\u201d": [[152, "trouble-running-make-output"]], "Trouble running \u201cmake .plots\u201d": [[152, "trouble-running-make-plots"]], "Some sources of tsunami data": [[153, "some-sources-of-tsunami-data"]], "Topography / bathymetry": [[153, "topography-bathymetry"]], "Earthquake source models": [[153, "earthquake-source-models"]], "DART buoy data": [[153, "dart-buoy-data"]], "Tide gauges": [[153, "tide-gauges"]], "User files required for the Fortran code": [[154, "user-files-required-for-the-fortran-code"]], "Specifying the initial conditions": [[154, "specifying-the-initial-conditions"]], "Specifying the Riemann solver": [[154, "specifying-the-riemann-solver"]], "Specifying boundary conditions": [[154, "specifying-boundary-conditions"]], "Specifying problem-specific data": [[154, "specifying-problem-specific-data"]], "Specifying spatially-varying data using setaux": [[154, 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clawpack.geoclaw.dtopotools)": [[30, "clawpack.geoclaw.dtopotools.Fault"]], "fault1d (class in clawpack.geoclaw.dtopotools)": [[30, "clawpack.geoclaw.dtopotools.Fault1d"]], "mo() (clawpack.geoclaw.dtopotools.fault method)": [[30, "clawpack.geoclaw.dtopotools.Fault.Mo"]], "mo() (clawpack.geoclaw.dtopotools.subfault method)": [[30, "clawpack.geoclaw.dtopotools.SubFault.Mo"]], "mw() (clawpack.geoclaw.dtopotools.fault method)": [[30, "clawpack.geoclaw.dtopotools.Fault.Mw"]], "mw() (in module clawpack.geoclaw.dtopotools)": [[30, "clawpack.geoclaw.dtopotools.Mw"]], "siftfault (class in clawpack.geoclaw.dtopotools)": [[30, "clawpack.geoclaw.dtopotools.SiftFault"]], "subfault (class in clawpack.geoclaw.dtopotools)": [[30, "clawpack.geoclaw.dtopotools.SubFault"]], "subfault1d (class in clawpack.geoclaw.dtopotools)": [[30, "clawpack.geoclaw.dtopotools.SubFault1d"]], "subdividedplanefault (class in clawpack.geoclaw.dtopotools)": [[30, "clawpack.geoclaw.dtopotools.SubdividedPlaneFault"]], "tensorproductfault (class in clawpack.geoclaw.dtopotools)": [[30, "clawpack.geoclaw.dtopotools.TensorProductFault"]], "ucsbfault (class in clawpack.geoclaw.dtopotools)": [[30, "clawpack.geoclaw.dtopotools.UCSBFault"]], "calculate_geometry() (clawpack.geoclaw.dtopotools.subfault method)": [[30, "clawpack.geoclaw.dtopotools.SubFault.calculate_geometry"]], "calculate_geometry_triangles() (clawpack.geoclaw.dtopotools.subfault method)": [[30, "clawpack.geoclaw.dtopotools.SubFault.calculate_geometry_triangles"]], "centers (clawpack.geoclaw.dtopotools.subfault property)": [[30, "clawpack.geoclaw.dtopotools.SubFault.centers"]], "clawpack.geoclaw.dtopotools": [[30, "module-clawpack.geoclaw.dtopotools"]], "containing_rect() (clawpack.geoclaw.dtopotools.fault method)": [[30, "clawpack.geoclaw.dtopotools.Fault.containing_rect"]], "convert_to_standard_units() (clawpack.geoclaw.dtopotools.subfault method)": [[30, "clawpack.geoclaw.dtopotools.SubFault.convert_to_standard_units"]], "coordinate_specification (clawpack.geoclaw.dtopotools.subfault attribute)": [[30, "clawpack.geoclaw.dtopotools.SubFault.coordinate_specification"]], "coordinate_specification (clawpack.geoclaw.dtopotools.subfault1d attribute)": [[30, "clawpack.geoclaw.dtopotools.SubFault1d.coordinate_specification"]], "corners (clawpack.geoclaw.dtopotools.subfault property)": [[30, "clawpack.geoclaw.dtopotools.SubFault.corners"]], "create_dtopo_xy() (clawpack.geoclaw.dtopotools.fault method)": [[30, "clawpack.geoclaw.dtopotools.Fault.create_dtopo_xy"]], "create_dtopography() (clawpack.geoclaw.dtopotools.fault method)": [[30, "clawpack.geoclaw.dtopotools.Fault.create_dtopography"]], "dz_at_t() (clawpack.geoclaw.dtopotools.dtopography method)": [[30, "clawpack.geoclaw.dtopotools.DTopography.dZ_at_t"]], "dz_at_t() (clawpack.geoclaw.dtopotools.dtopography1d method)": [[30, "clawpack.geoclaw.dtopotools.DTopography1d.dZ_at_t"]], "dz_cellave_at_t() (clawpack.geoclaw.dtopotools.dtopography1d method)": [[30, 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"length (clawpack.geoclaw.dtopotools.subfault1d attribute)": [[30, "clawpack.geoclaw.dtopotools.SubFault1d.length"]], "longitude (clawpack.geoclaw.dtopotools.subfault attribute)": [[30, "clawpack.geoclaw.dtopotools.SubFault.longitude"]], "longitude (clawpack.geoclaw.dtopotools.subfault1d attribute)": [[30, "clawpack.geoclaw.dtopotools.SubFault1d.longitude"]], "module": [[30, "module-clawpack.geoclaw.dtopotools"], [33, "module-clawpack.geoclaw.fgmax_tools"], [47, "module-clawpack.geoclaw.util"], [59, "module-clawpack.geoclaw.kmltools"], [87, "module-clawpack.pyclaw.limiters.tvd"], [92, "module-clawpack.pyclaw.fileio.ascii"], [92, "module-clawpack.pyclaw.fileio.netcdf"], [97, "module-clawpack.riemann.acoustics_1D_py"], [97, "module-clawpack.riemann.advection_1D_py"], [97, "module-clawpack.riemann.burgers_1D_py"], [97, "module-clawpack.riemann.euler_1D_py"], [97, "module-clawpack.riemann.shallow_1D_py"], [104, "module-clawpack.pyclaw.util"], [145, "module-clawpack.geoclaw.surge.storm"], [151, "module-clawpack.geoclaw.topotools"]], "mu (clawpack.geoclaw.dtopotools.subfault attribute)": [[30, "clawpack.geoclaw.dtopotools.SubFault.mu"]], "okada() (clawpack.geoclaw.dtopotools.subfault method)": [[30, "clawpack.geoclaw.dtopotools.SubFault.okada"]], "plot_dz_colors() (clawpack.geoclaw.dtopotools.dtopography method)": [[30, "clawpack.geoclaw.dtopotools.DTopography.plot_dZ_colors"]], "plot_dz_colors() (in module clawpack.geoclaw.dtopotools)": [[30, "clawpack.geoclaw.dtopotools.plot_dZ_colors"]], "plot_dz_contours() (clawpack.geoclaw.dtopotools.dtopography method)": [[30, "clawpack.geoclaw.dtopotools.DTopography.plot_dZ_contours"]], "plot_dz_contours() (in module clawpack.geoclaw.dtopotools)": [[30, "clawpack.geoclaw.dtopotools.plot_dZ_contours"]], "plot_subfaults() (clawpack.geoclaw.dtopotools.fault method)": [[30, "clawpack.geoclaw.dtopotools.Fault.plot_subfaults"]], "plot_subfaults_depth() (clawpack.geoclaw.dtopotools.fault method)": [[30, "clawpack.geoclaw.dtopotools.Fault.plot_subfaults_depth"]], "rake (clawpack.geoclaw.dtopotools.subfault attribute)": [[30, "clawpack.geoclaw.dtopotools.SubFault.rake"]], "rake (clawpack.geoclaw.dtopotools.subfault1d attribute)": [[30, "clawpack.geoclaw.dtopotools.SubFault1d.rake"]], "read() (clawpack.geoclaw.dtopotools.csvfault method)": [[30, "clawpack.geoclaw.dtopotools.CSVFault.read"]], "read() (clawpack.geoclaw.dtopotools.dtopography method)": [[30, "clawpack.geoclaw.dtopotools.DTopography.read"]], "read() (clawpack.geoclaw.dtopotools.dtopography1d method)": [[30, "clawpack.geoclaw.dtopotools.DTopography1d.read"]], "read() (clawpack.geoclaw.dtopotools.fault method)": [[30, "clawpack.geoclaw.dtopotools.Fault.read"]], "read() (clawpack.geoclaw.dtopotools.ucsbfault method)": [[30, "clawpack.geoclaw.dtopotools.UCSBFault.read"]], "rise_fraction() (in module clawpack.geoclaw.dtopotools)": [[30, "clawpack.geoclaw.dtopotools.rise_fraction"]], "rise_shape (clawpack.geoclaw.dtopotools.subfault attribute)": [[30, "clawpack.geoclaw.dtopotools.SubFault.rise_shape"]], "rise_time (clawpack.geoclaw.dtopotools.subfault attribute)": [[30, "clawpack.geoclaw.dtopotools.SubFault.rise_time"]], "rise_time_starting (clawpack.geoclaw.dtopotools.subfault attribute)": [[30, "clawpack.geoclaw.dtopotools.SubFault.rise_time_starting"]], "rupture_time (clawpack.geoclaw.dtopotools.subfault attribute)": [[30, "clawpack.geoclaw.dtopotools.SubFault.rupture_time"]], "rupture_type (clawpack.geoclaw.dtopotools.subfault attribute)": [[30, "clawpack.geoclaw.dtopotools.SubFault.rupture_type"]], "set_corners() (clawpack.geoclaw.dtopotools.subfault method)": [[30, "clawpack.geoclaw.dtopotools.SubFault.set_corners"]], "set_dynamic_slip() (clawpack.geoclaw.dtopotools.fault method)": [[30, "clawpack.geoclaw.dtopotools.Fault.set_dynamic_slip"]], "set_subfaults() (clawpack.geoclaw.dtopotools.siftfault method)": [[30, "clawpack.geoclaw.dtopotools.SiftFault.set_subfaults"]], "slip (clawpack.geoclaw.dtopotools.subfault attribute)": [[30, "clawpack.geoclaw.dtopotools.SubFault.slip"]], "strike (clawpack.geoclaw.dtopotools.subfault attribute)": [[30, "clawpack.geoclaw.dtopotools.SubFault.strike"]], "strike (clawpack.geoclaw.dtopotools.subfault1d attribute)": [[30, "clawpack.geoclaw.dtopotools.SubFault1d.strike"]], "strike_direction() (in module clawpack.geoclaw.dtopotools)": [[30, "clawpack.geoclaw.dtopotools.strike_direction"]], "subdivide() (clawpack.geoclaw.dtopotools.subdividedplanefault method)": [[30, "clawpack.geoclaw.dtopotools.SubdividedPlaneFault.subdivide"]], "width (clawpack.geoclaw.dtopotools.subfault attribute)": [[30, "clawpack.geoclaw.dtopotools.SubFault.width"]], "write() (clawpack.geoclaw.dtopotools.dtopography method)": [[30, "clawpack.geoclaw.dtopotools.DTopography.write"]], "write() (clawpack.geoclaw.dtopotools.dtopography1d method)": [[30, "clawpack.geoclaw.dtopotools.DTopography1d.write"]], "write() (clawpack.geoclaw.dtopotools.fault method)": [[30, "clawpack.geoclaw.dtopotools.Fault.write"]], "fgmaxgrid (class in clawpack.geoclaw.fgmax_tools)": [[33, "clawpack.geoclaw.fgmax_tools.FGmaxGrid"]], "adjust_fgmax_1d() (in module clawpack.geoclaw.fgmax_tools)": [[33, "clawpack.geoclaw.fgmax_tools.adjust_fgmax_1d"]], "bounding_box() (clawpack.geoclaw.fgmax_tools.fgmaxgrid method)": [[33, "clawpack.geoclaw.fgmax_tools.FGmaxGrid.bounding_box"]], "clawpack.geoclaw.fgmax_tools": [[33, "module-clawpack.geoclaw.fgmax_tools"]], "interp_dz() (clawpack.geoclaw.fgmax_tools.fgmaxgrid method)": [[33, "clawpack.geoclaw.fgmax_tools.FGmaxGrid.interp_dz"]], "ps4_to_arrays() (clawpack.geoclaw.fgmax_tools.fgmaxgrid method)": [[33, "clawpack.geoclaw.fgmax_tools.FGmaxGrid.ps4_to_arrays"]], "read_fgmax_grids_data() (clawpack.geoclaw.fgmax_tools.fgmaxgrid method)": [[33, "clawpack.geoclaw.fgmax_tools.FGmaxGrid.read_fgmax_grids_data"]], "read_output() (clawpack.geoclaw.fgmax_tools.fgmaxgrid method)": [[33, "clawpack.geoclaw.fgmax_tools.FGmaxGrid.read_output"]], "write_to_fgmax_data() (clawpack.geoclaw.fgmax_tools.fgmaxgrid method)": [[33, "clawpack.geoclaw.fgmax_tools.FGmaxGrid.write_to_fgmax_data"]], "bearing() (in module clawpack.geoclaw.util)": [[47, "clawpack.geoclaw.util.bearing"]], "clawpack.geoclaw.util": [[47, "module-clawpack.geoclaw.util"]], "dist_latlong2meters() (in module clawpack.geoclaw.util)": [[47, "clawpack.geoclaw.util.dist_latlong2meters"]], "dist_meters2latlong() (in module clawpack.geoclaw.util)": [[47, "clawpack.geoclaw.util.dist_meters2latlong"]], "dms2decimal() (in module clawpack.geoclaw.util)": [[47, "clawpack.geoclaw.util.dms2decimal"]], "fetch_noaa_tide_data() (in module clawpack.geoclaw.util)": [[47, "clawpack.geoclaw.util.fetch_noaa_tide_data"]], "haversine() (in module clawpack.geoclaw.util)": [[47, "clawpack.geoclaw.util.haversine"]], "inv_haversine() (in module clawpack.geoclaw.util)": [[47, "clawpack.geoclaw.util.inv_haversine"]], "box2kml() (in module 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"clawpack.petclaw.state.State.mp"]], "mp (clawpack.pyclaw.state.state property)": [[101, "clawpack.pyclaw.state.State.mp"]], "num_aux (clawpack.petclaw.state.state property)": [[101, "clawpack.petclaw.state.State.num_aux"]], "num_aux (clawpack.pyclaw.state.state property)": [[101, "clawpack.pyclaw.state.State.num_aux"]], "num_eqn (clawpack.petclaw.state.state property)": [[101, "clawpack.petclaw.state.State.num_eqn"]], "num_eqn (clawpack.pyclaw.state.state property)": [[101, "clawpack.pyclaw.state.State.num_eqn"]], "p (clawpack.petclaw.state.state property)": [[101, "clawpack.petclaw.state.State.p"]], "p (clawpack.pyclaw.state.state attribute)": [[101, "clawpack.pyclaw.state.State.p"]], "problem_data (clawpack.petclaw.state.state attribute)": [[101, "clawpack.petclaw.state.State.problem_data"]], "problem_data (clawpack.pyclaw.state.state attribute)": [[101, "clawpack.pyclaw.state.State.problem_data"]], "q (clawpack.petclaw.state.state property)": [[101, "clawpack.petclaw.state.State.q"]], "set_aux_from_auxbc() (clawpack.pyclaw.state.state method)": [[101, "clawpack.pyclaw.state.State.set_aux_from_auxbc"]], "set_cparam() (clawpack.pyclaw.state.state method)": [[101, "clawpack.pyclaw.state.State.set_cparam"]], "set_num_ghost() (clawpack.petclaw.state.state method)": [[101, "clawpack.petclaw.state.State.set_num_ghost"]], "set_num_ghost() (clawpack.pyclaw.state.state method)": [[101, "clawpack.pyclaw.state.State.set_num_ghost"]], "set_q_from_qbc() (clawpack.pyclaw.state.state method)": [[101, "clawpack.pyclaw.state.State.set_q_from_qbc"]], "t (clawpack.petclaw.state.state attribute)": [[101, "clawpack.petclaw.state.State.t"]], "t (clawpack.pyclaw.state.state attribute)": [[101, "clawpack.pyclaw.state.State.t"]], "framecounter (class in clawpack.pyclaw.util)": [[104, "clawpack.pyclaw.util.FrameCounter"]], "verifyerror": [[104, "clawpack.pyclaw.util.VerifyError"]], "add_parent_doc() (in module clawpack.pyclaw.util)": [[104, "clawpack.pyclaw.util.add_parent_doc"]], "check_diff() (in module clawpack.pyclaw.util)": [[104, "clawpack.pyclaw.util.check_diff"]], "clawpack.pyclaw.util": [[104, "module-clawpack.pyclaw.util"]], "compile_library() (in module clawpack.pyclaw.util)": [[104, "clawpack.pyclaw.util.compile_library"]], "construct_function_handle() (in module clawpack.pyclaw.util)": [[104, "clawpack.pyclaw.util.construct_function_handle"]], "convert_fort_double_to_float() (in module clawpack.pyclaw.util)": [[104, "clawpack.pyclaw.util.convert_fort_double_to_float"]], "gen_variants() (in module clawpack.pyclaw.util)": [[104, "clawpack.pyclaw.util.gen_variants"]], "get_counter() (clawpack.pyclaw.util.framecounter method)": [[104, "clawpack.pyclaw.util.FrameCounter.get_counter"]], "increment() (clawpack.pyclaw.util.framecounter method)": [[104, "clawpack.pyclaw.util.FrameCounter.increment"]], "read_data_line() (in module clawpack.pyclaw.util)": [[104, "clawpack.pyclaw.util.read_data_line"]], "reset_counter() (clawpack.pyclaw.util.framecounter method)": [[104, "clawpack.pyclaw.util.FrameCounter.reset_counter"]], "run_app_from_main() (in module clawpack.pyclaw.util)": [[104, "clawpack.pyclaw.util.run_app_from_main"]], "run_serialized() (in module clawpack.pyclaw.util)": [[104, "clawpack.pyclaw.util.run_serialized"]], "set_counter() (clawpack.pyclaw.util.framecounter method)": [[104, "clawpack.pyclaw.util.FrameCounter.set_counter"]], "test_app() (in module clawpack.pyclaw.util)": [[104, "clawpack.pyclaw.util.test_app"]], "nodataerror": [[145, "clawpack.geoclaw.surge.storm.NoDataError"]], "storm (class in clawpack.geoclaw.surge.storm)": [[145, "clawpack.geoclaw.surge.storm.Storm"]], "available_formats() (in module clawpack.geoclaw.surge.storm)": [[145, "clawpack.geoclaw.surge.storm.available_formats"]], "available_models() (in module clawpack.geoclaw.surge.storm)": [[145, "clawpack.geoclaw.surge.storm.available_models"]], "category() (clawpack.geoclaw.surge.storm.storm method)": [[145, "clawpack.geoclaw.surge.storm.Storm.category"]], "clawpack.geoclaw.surge.storm": [[145, "module-clawpack.geoclaw.surge.storm"]], "fill_rad_w_other_source() (in module clawpack.geoclaw.surge.storm)": [[145, "clawpack.geoclaw.surge.storm.fill_rad_w_other_source"]], "make_multi_structure() (in module clawpack.geoclaw.surge.storm)": [[145, "clawpack.geoclaw.surge.storm.make_multi_structure"]], "read() (clawpack.geoclaw.surge.storm.storm method)": [[145, "clawpack.geoclaw.surge.storm.Storm.read"]], "read_atcf() (clawpack.geoclaw.surge.storm.storm method)": [[145, "clawpack.geoclaw.surge.storm.Storm.read_atcf"]], "read_geoclaw() (clawpack.geoclaw.surge.storm.storm method)": [[145, "clawpack.geoclaw.surge.storm.Storm.read_geoclaw"]], "read_hurdat() (clawpack.geoclaw.surge.storm.storm method)": [[145, "clawpack.geoclaw.surge.storm.Storm.read_hurdat"]], "read_ibtracs() (clawpack.geoclaw.surge.storm.storm method)": [[145, "clawpack.geoclaw.surge.storm.Storm.read_ibtracs"]], "read_imd() (clawpack.geoclaw.surge.storm.storm method)": [[145, "clawpack.geoclaw.surge.storm.Storm.read_imd"]], "read_jma() (clawpack.geoclaw.surge.storm.storm method)": [[145, "clawpack.geoclaw.surge.storm.Storm.read_jma"]], "read_tcvitals() (clawpack.geoclaw.surge.storm.storm method)": [[145, "clawpack.geoclaw.surge.storm.Storm.read_tcvitals"]], "write() (clawpack.geoclaw.surge.storm.storm method)": [[145, "clawpack.geoclaw.surge.storm.Storm.write"]], "write_atcf() (clawpack.geoclaw.surge.storm.storm method)": [[145, "clawpack.geoclaw.surge.storm.Storm.write_atcf"]], "write_geoclaw() (clawpack.geoclaw.surge.storm.storm method)": [[145, "clawpack.geoclaw.surge.storm.Storm.write_geoclaw"]], "write_hurdat() (clawpack.geoclaw.surge.storm.storm method)": [[145, "clawpack.geoclaw.surge.storm.Storm.write_hurdat"]], "write_imd() (clawpack.geoclaw.surge.storm.storm method)": [[145, "clawpack.geoclaw.surge.storm.Storm.write_imd"]], "write_jma() (clawpack.geoclaw.surge.storm.storm method)": [[145, "clawpack.geoclaw.surge.storm.Storm.write_jma"]], "write_tcvitals() (clawpack.geoclaw.surge.storm.storm method)": [[145, "clawpack.geoclaw.surge.storm.Storm.write_tcvitals"]], "topography (class in clawpack.geoclaw.topotools)": [[151, "clawpack.geoclaw.topotools.Topography"]], "x (clawpack.geoclaw.topotools.topography property)": [[151, "clawpack.geoclaw.topotools.Topography.X"], [151, "clawpack.geoclaw.topotools.Topography.x"]], "y (clawpack.geoclaw.topotools.topography property)": [[151, "clawpack.geoclaw.topotools.Topography.Y"], [151, "clawpack.geoclaw.topotools.Topography.y"]], "z (clawpack.geoclaw.topotools.topography property)": [[151, "clawpack.geoclaw.topotools.Topography.Z"], [151, "clawpack.geoclaw.topotools.Topography.z"]], "clawpack.geoclaw.topotools": [[151, "module-clawpack.geoclaw.topotools"]], "create_topo_func() (in module clawpack.geoclaw.topotools)": [[151, "clawpack.geoclaw.topotools.create_topo_func"]], "crop() (clawpack.geoclaw.topotools.topography method)": [[151, "clawpack.geoclaw.topotools.Topography.crop"]], "delta (clawpack.geoclaw.topotools.topography property)": [[151, "clawpack.geoclaw.topotools.Topography.delta"]], "determine_topo_type() (in module clawpack.geoclaw.topotools)": [[151, "clawpack.geoclaw.topotools.determine_topo_type"]], "extent (clawpack.geoclaw.topotools.topography property)": [[151, "clawpack.geoclaw.topotools.Topography.extent"]], "fetch_topo_url() (in module clawpack.geoclaw.topotools)": [[151, "clawpack.geoclaw.topotools.fetch_topo_url"]], "generate_2d_coordinates() (clawpack.geoclaw.topotools.topography method)": [[151, "clawpack.geoclaw.topotools.Topography.generate_2d_coordinates"]], "generate_2d_topo() (clawpack.geoclaw.topotools.topography method)": [[151, "clawpack.geoclaw.topotools.Topography.generate_2d_topo"]], "get_topo() (in module clawpack.geoclaw.topotools)": [[151, "clawpack.geoclaw.topotools.get_topo"]], "in_poly() (clawpack.geoclaw.topotools.topography method)": [[151, "clawpack.geoclaw.topotools.Topography.in_poly"]], "interp_unstructured() (clawpack.geoclaw.topotools.topography method)": [[151, "clawpack.geoclaw.topotools.Topography.interp_unstructured"]], "make_shoreline_xy() (clawpack.geoclaw.topotools.topography method)": [[151, "clawpack.geoclaw.topotools.Topography.make_shoreline_xy"]], "plot() (clawpack.geoclaw.topotools.topography method)": [[151, "clawpack.geoclaw.topotools.Topography.plot"]], "read() (clawpack.geoclaw.topotools.topography method)": [[151, "clawpack.geoclaw.topotools.Topography.read"]], "read_header() (clawpack.geoclaw.topotools.topography method)": [[151, "clawpack.geoclaw.topotools.Topography.read_header"]], "read_netcdf() (in module clawpack.geoclaw.topotools)": [[151, "clawpack.geoclaw.topotools.read_netcdf"]], "replace_no_data_values() (clawpack.geoclaw.topotools.topography method)": [[151, "clawpack.geoclaw.topotools.Topography.replace_no_data_values"]], "replace_values() (clawpack.geoclaw.topotools.topography method)": [[151, "clawpack.geoclaw.topotools.Topography.replace_values"]], "set_xyz() (clawpack.geoclaw.topotools.topography method)": [[151, "clawpack.geoclaw.topotools.Topography.set_xyZ"]], "smooth_data() (clawpack.geoclaw.topotools.topography method)": [[151, "clawpack.geoclaw.topotools.Topography.smooth_data"]], "swapheader() (in module clawpack.geoclaw.topotools)": [[151, "clawpack.geoclaw.topotools.swapheader"]], "topo1writer() (in module clawpack.geoclaw.topotools)": [[151, "clawpack.geoclaw.topotools.topo1writer"]], "topo2writer() (in module clawpack.geoclaw.topotools)": [[151, "clawpack.geoclaw.topotools.topo2writer"]], "topo3writer() (in module clawpack.geoclaw.topotools)": [[151, "clawpack.geoclaw.topotools.topo3writer"]], "write() (clawpack.geoclaw.topotools.topography method)": [[151, "clawpack.geoclaw.topotools.Topography.write"]]}}) \ No newline at end of file diff --git a/v5.7.x/storm_module.html b/v5.7.x/storm_module.html index b3036850c..7f2404f1b 100644 --- a/v5.7.x/storm_module.html +++ b/v5.7.x/storm_module.html @@ -556,7 +556,7 @@

                    Navigation

                    • +
                  • DTopography1d +
                  • Fault
                    • +
                  • Fault1d
                  • Mw()
                  • SiftFault
                    • +
                  • SubFault1d +
                  • SubdividedPlaneFault diff --git a/v5.8.x/fgmax_tools_module.html b/v5.8.x/fgmax_tools_module.html index 6cec338b8..e2f9b5da2 100644 --- a/v5.8.x/fgmax_tools_module.html +++ b/v5.8.x/fgmax_tools_module.html @@ -127,8 +127,27 @@

                    Navigation

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

                    Read the GeoClaw results on the fgmax grid numbered fgno.

                    +
                    +
                    indexing=’ij’ gives backward compatibility.

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

                    +
                    +
                    +

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

                    + +
                    +

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

                    +
                    + +

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

                    diff --git a/v5.8.x/genindex.html b/v5.8.x/genindex.html index e8fd6fe9e..6d57d9391 100644 --- a/v5.8.x/genindex.html +++ b/v5.8.x/genindex.html @@ -347,7 +347,11 @@

                    C

                  • convert_to_standard_units() (clawpack.geoclaw.dtopotools.SubFault method)
                  • coordinate_specification (clawpack.geoclaw.dtopotools.SubFault attribute) + +
                  • corners (clawpack.geoclaw.dtopotools.SubFault property)
                  • create_dtopo_xy() (clawpack.geoclaw.dtopotools.Fault method) @@ -394,10 +398,10 @@

                    D

                  • dist_latlong2meters() (in module clawpack.geoclaw.util)
                    • -
                • dms2decimal() (in module clawpack.geoclaw.util)
                • Domain (class in clawpack.petclaw.geometry) @@ -415,10 +419,18 @@

                  D

                • dtopo2kml() (in module clawpack.geoclaw.kmltools)
                • DTopography (class in clawpack.geoclaw.dtopotools) +
                  • +
                • DTopography1d (class in clawpack.geoclaw.dtopotools)
                • dynamic_slip() (clawpack.geoclaw.dtopotools.SubFault method)
                • dZ_at_t() (clawpack.geoclaw.dtopotools.DTopography method) + +
                  • +
                • dZ_cellave_at_t() (clawpack.geoclaw.dtopotools.DTopography1d method)
                • dZ_max() (clawpack.geoclaw.dtopotools.DTopography method)
                  • @@ -459,6 +471,8 @@

                  F

                • F_path (clawpack.pyclaw.controller.Controller property)
                • Fault (class in clawpack.geoclaw.dtopotools) +
                  • +
                • Fault1d (class in clawpack.geoclaw.dtopotools)
                • fetch_noaa_tide_data() (in module clawpack.geoclaw.util)
                  • @@ -649,21 +663,33 @@

                  L

                  @@ -932,11 +958,17 @@

                  R

                  - + - +
                  • Solution (class in clawpack.pyclaw.solution)
                  • solver (clawpack.pyclaw.controller.Controller attribute) @@ -1112,7 +1144,11 @@

                    S

                  • Storm (class in clawpack.geoclaw.surge.storm)
                  • strike (clawpack.geoclaw.dtopotools.SubFault attribute) + +
                  • strike_direction() (in module clawpack.geoclaw.dtopotools)
                  • subdivide() (clawpack.geoclaw.dtopotools.SubdividedPlaneFault method) @@ -1120,6 +1156,8 @@

                    S

                  • SubdividedPlaneFault (class in clawpack.geoclaw.dtopotools)
                  • SubFault (class in clawpack.geoclaw.dtopotools) +
                    • +
                  • SubFault1d (class in clawpack.geoclaw.dtopotools)
                  • superbee_limiter() (in module clawpack.pyclaw.limiters.tvd)
                    • @@ -1220,6 +1258,8 @@

                    W

                  • write() (clawpack.geoclaw.dtopotools.DTopography method)
                      +
                    • (clawpack.geoclaw.dtopotools.DTopography1d method) +
                    • (clawpack.geoclaw.dtopotools.Fault method)
                    • (clawpack.geoclaw.surge.storm.Storm method) diff --git a/v5.8.x/geoclaw_util_module.html b/v5.8.x/geoclaw_util_module.html index e1654a5bd..8ef7bdfca 100644 --- a/v5.8.x/geoclaw_util_module.html +++ b/v5.8.x/geoclaw_util_module.html @@ -115,7 +115,7 @@

                      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:

                      diff --git a/v5.8.x/kmltools_module.html b/v5.8.x/kmltools_module.html index b7fca1afc..696303cff 100644 --- a/v5.8.x/kmltools_module.html +++ b/v5.8.x/kmltools_module.html @@ -362,7 +362,7 @@

                      Navigation

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

                      @@ -370,7 +370,7 @@

                      Navigation

                      dpi * y_inches = dcp * y_cells

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

                      @@ -380,14 +380,14 @@

                      Navigation

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

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

                      The png_extent is needed in construcing a kml file to display the @@ -523,7 +523,7 @@

                      Navigation

                      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 08aa60322904d67ecce789ab56162726883dba34..cad1ee24175410fb1eb294acefffbaa2de71faa7 100644 GIT binary patch delta 11448 zcmV;pEJxF;T<=_vmVZ4S*SOr>yXS>Lk&wh=illi_mHMgw!@lf9?EJa@C4)o)AOM0F ziO@W_OaYl+ChoUH;wB9r@6)_~_e3hMIQ|@^VO4o6??wq( zHtVOVX1#%5)unKQm=yKS9lEQAglH9^UG*^w_em5~X;QdDcH1aw6I)!xH$x7gD*i=h@zS$`sDOQv6M9)59-PRkVR06rG?J5GzwOg*6A^)v+lOGFmH6qJ{xCGM;td1EWP2U& zD+fT(Ww_C4bL~JMRyvOK+0uIJ25K8NTT;2fq94J!NzxdHuyt6v!Hm{!a0*=4%?E;2 zTvdeGe6%#lh?~sc)5&O%WVAP9{Y^k49Dh{Wf|Vp3@KwPkF9Rp4(sFQ<<|0pzZjin= zVeAH}BwNbss71N!!Z^|&XCqZjxg~U(mX~{N$Y3Fp#|s5z`ENNGvAi$Kob?mrDIx_| zs|z}c_8>G9GqZCsmUQh*wz+Yja5h?JbubGl2OFI*C~O4ejnE6>|qupWh1Er z#7&Z>K}p-mW02Q7QU+Dt(CNv1U^ac)H))*&Rb4hw&Fv^pN3~l=)3j|aI_&E@1?)^yT>u6<`iGQ` zaf>vJNRZ{Y&OL-_5uY4)Y)8jpc;slMX-;?3!ac0Nq#DF^Q6Wn9c{ohMMJJ7}QBjWM4lIbr&9Jl4-9p zA1cWX!92KvCK2F-z3uWg--k)2u6T+gQ2ZzV#=f6=_nN<`w5dZysr~ 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[3, 79, 103, 110], "current": [3, 5, 13, 14, 20, 22, 24, 27, 28, 29, 30, 32, 38, 39, 41, 44, 45, 48, 53, 54, 55, 57, 58, 59, 60, 67, 68, 72, 77, 79, 89, 92, 93, 94, 99, 101, 104, 106, 110, 111, 118, 120, 121, 130, 134, 138, 139, 140, 141, 142, 143, 148, 149, 152, 154, 156], "afteritem": [3, 27], "afterpatch": [3, 27], "There": [3, 6, 13, 22, 36, 40, 51, 54, 55, 62, 66, 70, 72, 79, 80, 93, 100, 108, 120, 121, 138, 139, 149, 150, 157, 159], "than": [3, 5, 6, 13, 16, 18, 20, 22, 28, 29, 30, 32, 39, 44, 51, 54, 55, 58, 59, 60, 62, 63, 64, 66, 69, 70, 72, 76, 79, 83, 84, 86, 89, 92, 93, 94, 96, 97, 99, 104, 106, 110, 111, 113, 116, 117, 118, 119, 120, 121, 123, 124, 126, 129, 130, 133, 134, 135, 138, 139, 140, 142, 148, 149, 151, 152, 154, 157, 160], "calcul": [3, 5, 6, 27, 30, 33, 45, 47, 67, 70, 77, 89, 97, 99, 114, 119, 154], "cd": [3, 13, 28, 35, 36, 37, 52, 54, 55, 57, 58, 79, 88, 91, 94, 100, 111, 150], "On": [3, 5, 13, 51, 71, 80, 120, 133, 137, 157], "ylower": [3, 22, 27, 39, 84, 121, 141, 152, 154], "patchno": [3, 27], "out": [3, 16, 24, 26, 29, 30, 32, 35, 36, 39, 44, 45, 50, 52, 53, 54, 55, 58, 59, 60, 61, 62, 67, 70, 77, 80, 81, 83, 84, 86, 92, 93, 94, 95, 98, 103, 105, 106, 108, 111, 119, 121, 123, 124, 131, 133, 140, 141, 143, 148, 154, 155], "lower": [3, 22, 30, 32, 33, 38, 53, 66, 72, 89, 94, 133, 135, 139, 141, 143, 152, 154, 156], "left": [3, 5, 10, 13, 16, 18, 25, 27, 32, 53, 72, 79, 89, 96, 97, 103, 120, 126, 129, 130, 131, 134, 140, 152, 154, 156, 160], "corner": [3, 30, 32, 53, 70, 72, 89, 133, 139, 141, 143, 152, 154], "mappedgrid": [3, 67], "map": [3, 16, 29, 30, 39, 59, 66, 67, 77, 81, 84, 89, 91, 96, 110, 117, 121, 126, 132, 154, 160], "mapc2p": [3, 25, 27, 67, 84, 89, 126], "underli": [3, 51, 119], "other": [3, 4, 5, 6, 7, 9, 12, 13, 16, 20, 22, 27, 30, 35, 36, 38, 44, 45, 46, 48, 51, 52, 53, 55, 56, 57, 58, 61, 62, 64, 66, 67, 68, 70, 71, 72, 76, 79, 81, 83, 84, 86, 89, 91, 93, 95, 96, 97, 100, 103, 105, 106, 110, 111, 113, 114, 116, 117, 119, 131, 134, 137, 138, 139, 142, 144, 148, 152, 154, 156, 157, 158], "requir": [3, 4, 16, 18, 20, 22, 25, 27, 30, 32, 35, 36, 40, 45, 47, 48, 55, 58, 66, 67, 70, 73, 76, 79, 80, 83, 84, 89, 92, 95, 96, 99, 100, 101, 103, 104, 105, 110, 111, 113, 114, 117, 119, 122, 124, 126, 131, 132, 133, 138, 139, 140, 141, 142, 143, 148, 149, 152, 155, 158, 160], "depend": [3, 13, 16, 28, 29, 30, 32, 35, 36, 40, 41, 46, 48, 51, 62, 64, 67, 70, 77, 82, 92, 97, 98, 99, 104, 106, 110, 121, 135, 140, 142, 154, 155, 157, 160], "summar": [3, 28, 31, 110, 112, 157], "plotstyl": [3, 44, 77, 138], "anyth": [3, 6, 28, 29, 58, 63, 111, 121], "valid": [3, 48, 70, 86, 93, 98, 101, 119, 142, 148, 149, 154], "fmt": 3, "group": [3, 13, 24, 28, 30, 48, 88, 92, 94, 102, 118, 131], "solid": [3, 16, 51, 70, 96, 138, 139, 141, 143], "dash": [3, 94], "o": [3, 5, 17, 38, 39, 40, 66, 77, 80, 81, 84, 92, 93, 102, 121, 141, 154, 157], "circl": [3, 47, 77], "bo": 3, "blue": [3, 11, 39, 44, 59, 66, 77, 133, 154], "though": [3, 39, 73, 148, 152], "color": [3, 30, 39, 51, 59, 66, 67, 76, 133, 138, 154], "also": [3, 4, 5, 6, 7, 8, 9, 11, 12, 16, 17, 18, 20, 22, 23, 24, 25, 28, 29, 30, 32, 33, 35, 36, 37, 38, 39, 41, 42, 43, 44, 47, 48, 51, 52, 53, 54, 55, 56, 57, 58, 59, 62, 63, 66, 67, 68, 70, 71, 72, 73, 76, 77, 79, 83, 85, 86, 89, 91, 92, 93, 94, 96, 97, 98, 99, 100, 101, 102, 103, 104, 105, 106, 107, 108, 109, 110, 111, 113, 118, 119, 120, 121, 122, 123, 124, 125, 126, 127, 128, 129, 130, 131, 132, 133, 134, 135, 137, 139, 140, 141, 142, 143, 144, 146, 147, 148, 149, 150, 151, 152, 154, 155, 156, 157, 159, 160], "overrul": 3, "ani": [3, 4, 5, 6, 8, 13, 16, 18, 19, 20, 22, 27, 28, 29, 32, 35, 36, 37, 45, 48, 50, 51, 54, 55, 57, 58, 61, 62, 64, 66, 67, 69, 71, 72, 73, 77, 81, 87, 88, 89, 91, 92, 93, 94, 96, 98, 100, 104, 106, 109, 110, 111, 117, 121, 123, 130, 133, 134, 135, 138, 139, 140, 142, 148, 157, 160], "r": [3, 4, 6, 17, 44, 47, 52, 54, 66, 67, 69, 77, 83, 87, 94, 96, 131, 133, 138, 154, 160], "ff0000": [3, 59], "No": [3, 40, 51, 55, 67, 89, 99, 127, 131, 139, 142, 155], "extra": [3, 51, 132], "give": [3, 6, 9, 10, 13, 16, 24, 28, 30, 32, 33, 35, 36, 44, 52, 59, 66, 70, 71, 72, 77, 79, 94, 95, 99, 111, 114, 118, 119, 123, 126, 133, 139, 142, 152, 154, 156], "polygon": [3, 7, 38, 51, 59, 124, 154], "curv": [3, 44, 76, 133], "fill_between": 3, "describ": [3, 4, 5, 6, 7, 13, 14, 16, 18, 19, 26, 28, 30, 31, 32, 35, 36, 38, 39, 44, 46, 47, 48, 51, 52, 54, 55, 57, 59, 60, 62, 63, 66, 67, 70, 72, 73, 76, 77, 78, 89, 91, 92, 98, 104, 108, 110, 111, 119, 122, 123, 131, 133, 134, 138, 139, 140, 142, 148, 149, 152, 154, 156, 157, 160], "abov": [3, 5, 13, 14, 16, 18, 20, 28, 32, 35, 36, 38, 39, 40, 41, 44, 48, 51, 53, 54, 55, 58, 61, 63, 66, 70, 72, 77, 80, 81, 84, 93, 95, 100, 103, 104, 110, 119, 121, 126, 131, 133, 135, 137, 138, 139, 141, 143, 148, 151, 152, 154, 157], "plot_var2": 3, "second": [3, 16, 30, 32, 36, 44, 47, 51, 55, 59, 67, 83, 89, 93, 99, 110, 113, 119, 130, 139, 142, 148, 150, 151, 154, 157, 160], "zero": [3, 16, 30, 32, 39, 41, 59, 67, 83, 96, 97, 101, 103, 126, 133, 134], "fill_wher": 3, "plotitem": [3, 27, 44, 77, 138], "mean": [3, 13, 22, 28, 32, 39, 44, 48, 52, 58, 67, 93, 94, 110, 131, 134, 139, 141, 143, 156], "map_2d_to_1d": 3, "In": [3, 5, 6, 8, 11, 12, 15, 16, 19, 20, 22, 27, 30, 32, 38, 41, 44, 45, 48, 51, 52, 53, 54, 55, 58, 59, 60, 62, 63, 66, 67, 68, 69, 70, 72, 73, 77, 78, 79, 83, 84, 89, 91, 92, 93, 94, 95, 96, 97, 99, 101, 104, 106, 107, 108, 110, 113, 114, 117, 118, 119, 121, 122, 126, 130, 131, 133, 135, 136, 137, 139, 140, 142, 146, 147, 152, 154, 155, 157, 160], "about": [3, 5, 7, 13, 14, 16, 18, 22, 25, 33, 35, 36, 40, 47, 48, 53, 55, 59, 62, 64, 67, 72, 78, 80, 83, 91, 94, 99, 106, 111, 118, 122, 124, 131, 138, 140, 141, 142, 152, 155, 157, 160], "valu": [3, 5, 6, 7, 16, 18, 20, 22, 27, 30, 33, 34, 35, 36, 38, 39, 41, 44, 45, 47, 49, 50, 51, 53, 59, 60, 62, 64, 66, 67, 70, 71, 72, 77, 84, 89, 91, 92, 93, 96, 97, 98, 99, 101, 103, 104, 110, 111, 113, 114, 116, 117, 119, 121, 123, 124, 126, 130, 131, 133, 134, 135, 139, 140, 141, 142, 143, 148, 149, 152, 154, 155, 157, 160], "j": [3, 4, 5, 15, 17, 20, 22, 27, 39, 52, 59, 66, 67, 72, 79, 91, 92, 110, 113, 114, 135, 136], "v": [3, 16, 25, 29, 30, 32, 47, 60, 63, 111, 118, 140, 152], "radiu": [3, 142, 148, 149, 154], "q0_vs_radiu": 3, "convert": [3, 22, 25, 30, 33, 42, 47, 51, 58, 59, 62, 70, 73, 84, 91, 96, 104, 105, 121, 124, 139, 140, 148, 152, 156], "numpi": [3, 13, 30, 32, 39, 47, 66, 80, 82, 83, 84, 86, 89, 96, 101, 102, 103, 105, 111, 132, 133, 141, 154, 155], "sqrt": [3, 32, 64, 83, 96, 97, 103, 141], "q0": [3, 96], "work": [3, 5, 8, 13, 16, 19, 20, 22, 24, 25, 26, 28, 29, 32, 35, 36, 40, 45, 48, 51, 52, 53, 54, 55, 56, 57, 58, 59, 66, 67, 69, 70, 71, 77, 80, 81, 82, 83, 85, 86, 87, 91, 92, 93, 94, 97, 99, 100, 105, 106, 108, 109, 110, 111, 115, 116, 117, 118, 119, 120, 121, 124, 126, 127, 129, 131, 137, 138, 139, 140, 142, 144, 149, 152, 155, 159], "symbol": [3, 67, 106], "best": [3, 4, 16, 22, 26, 28, 41, 51, 53, 55, 56, 62, 69, 71, 76, 77, 92, 96, 108, 109, 110, 111, 121, 129, 131, 142, 145, 148, 152, 157], "descript": [3, 4, 6, 9, 22, 23, 25, 30, 59, 67, 70, 73, 76, 91, 92, 104, 108, 110, 131, 132, 142, 148, 152, 160], "celledges_show": [3, 22], "draw": 3, "amr_celledges_show": 3, "some": [3, 4, 5, 6, 7, 8, 10, 12, 16, 17, 18, 19, 20, 21, 22, 23, 24, 25, 27, 28, 30, 32, 35, 36, 39, 41, 42, 44, 45, 46, 48, 49, 51, 52, 53, 54, 55, 58, 63, 66, 70, 71, 72, 76, 78, 79, 81, 84, 85, 87, 91, 92, 93, 95, 96, 98, 100, 101, 102, 103, 105, 106, 108, 109, 110, 111, 113, 114, 115, 116, 117, 118, 119, 120, 121, 122, 123, 124, 125, 126, 127, 128, 129, 131, 133, 134, 135, 138, 139, 140, 141, 142, 143, 144, 148, 149, 151, 152, 154, 157], "level": [3, 6, 7, 16, 23, 27, 29, 32, 38, 39, 44, 45, 46, 47, 48, 51, 54, 55, 57, 58, 67, 71, 72, 84, 86, 89, 91, 92, 93, 99, 106, 107, 110, 111, 113, 114, 118, 119, 121, 124, 130, 133, 134, 137, 139, 140, 141, 142, 143, 151, 152, 154, 156, 157], "patchedges_show": [3, 22], "mostli": [3, 76, 91, 124], "contour_level": [3, 154], "three": [3, 13, 17, 22, 30, 32, 48, 51, 63, 67, 70, 94, 98, 104, 111, 133, 139, 142, 152, 154, 157], "contour_nlevel": 3, "contour_min": 3, "float": [3, 30, 32, 44, 47, 59, 86, 89, 97, 101, 104, 139, 140, 142, 143, 148, 154], "minimum": [3, 32, 44, 51, 70, 103, 119, 142, 154], "contour_max": 3, "maximum": [3, 22, 30, 32, 33, 34, 45, 67, 99, 103, 110, 113, 114, 121, 124, 139, 140, 141, 143, 148, 149], "contour_color": 3, "specif": [3, 5, 12, 22, 28, 30, 44, 45, 47, 51, 52, 58, 61, 63, 64, 81, 82, 84, 86, 91, 92, 93, 97, 98, 104, 108, 119, 120, 121, 124, 138, 139, 140, 141, 143, 149, 152], "b": [3, 5, 17, 28, 30, 32, 33, 39, 44, 52, 54, 55, 64, 77, 99, 110, 117, 124, 133, 134, 135, 142, 154, 156], "0000ff": [3, 59], "colormap": [3, 30, 39, 46, 51, 66, 67, 76, 78, 118, 124, 154], "amr_contour_color": 3, "As": [3, 36, 39, 45, 48, 54, 55, 59, 83, 103, 105, 109, 113, 124, 131, 132, 135, 142, 150, 157], "instead": [3, 13, 18, 32, 35, 36, 39, 41, 44, 52, 54, 55, 58, 62, 63, 68, 100, 101, 104, 106, 118, 119, 122, 126, 130, 131, 132, 133, 152, 154], "black": [3, 44], "subsequ": [3, 10, 67], "both": [3, 16, 18, 28, 30, 33, 35, 36, 38, 39, 44, 48, 53, 56, 58, 63, 66, 67, 70, 72, 84, 92, 93, 94, 99, 100, 110, 111, 117, 118, 121, 124, 131, 132, 133, 135, 139, 140, 141, 143, 146, 152, 157], "fine": [3, 32, 33, 39, 54, 69, 73, 91, 96, 110, 119, 126, 133, 135, 139, 140, 142, 152, 157], "coars": [3, 32, 51, 110, 119, 126, 139, 152, 157], "anoth": [3, 22, 39, 44, 51, 55, 58, 59, 72, 76, 80, 88, 99, 102, 111, 121, 148, 157], "refin": [3, 4, 5, 7, 8, 17, 22, 45, 48, 51, 52, 53, 66, 67, 72, 73, 83, 119, 121, 122, 124, 126, 133, 135, 138, 139, 140, 141, 151, 152, 157], "region": [3, 6, 7, 13, 16, 22, 32, 38, 39, 45, 48, 49, 51, 59, 64, 70, 73, 108, 121, 124, 126, 134, 135, 140, 141, 152, 154], "lack": 3, "hidden": [3, 62, 77], "blank": [3, 59, 148], "coarser": [3, 16, 53, 119, 135, 139, 140, 157], "easili": [3, 13, 28, 32, 51, 54, 67, 77, 84, 89, 100, 104, 111, 124, 144], "contour_show": 3, "boolean": [3, 51, 66, 92, 97, 139, 140, 142], "most": [3, 18, 20, 22, 27, 29, 32, 35, 36, 40, 41, 44, 48, 50, 51, 52, 53, 54, 57, 59, 62, 66, 67, 71, 73, 76, 77, 79, 81, 89, 93, 94, 99, 102, 103, 105, 110, 111, 118, 120, 126, 129, 130, 131, 132, 133, 134, 138, 139, 140, 142, 145, 157], "commonli": [3, 67, 77, 79], "amr_contour_show": 3, "tupl": [3, 30, 47, 59, 70, 77, 89, 93, 154], "determin": [3, 5, 6, 30, 32, 39, 44, 45, 48, 50, 51, 54, 59, 70, 77, 87, 89, 92, 97, 101, 106, 110, 114, 118, 119, 130, 133, 134, 138, 139, 140, 142, 154, 157], "whether": [3, 6, 13, 16, 22, 47, 53, 56, 58, 60, 61, 62, 67, 81, 89, 92, 93, 97, 98, 99, 110, 111, 119, 131, 133, 139, 140, 142, 154], "view": [3, 4, 22, 35, 36, 44, 45, 51, 53, 54, 59, 72, 76, 78, 79, 83, 94, 100, 105, 117, 121, 144, 145], "finest": [3, 32, 39, 44, 121, 151, 154], "contour_kwarg": [3, 154], "pcolor_cmap": [3, 51], "pcolor_cmin": 3, "pcolor_cmax": 3, "rang": [3, 5, 13, 30, 44, 47, 51, 110, 113, 118, 132, 133], "thei": [3, 5, 6, 13, 16, 24, 27, 28, 30, 32, 38, 39, 44, 48, 51, 54, 55, 58, 59, 60, 63, 66, 67, 72, 76, 89, 91, 96, 99, 104, 110, 111, 119, 126, 135, 138, 142, 148, 152, 154, 157], "chosen": [3, 29, 32, 38, 39, 51, 53, 66, 103, 110, 126, 134, 140], "vari": [3, 15, 17, 25, 30, 39, 45, 53, 64, 96, 98, 117, 124, 131, 132, 134, 136, 140, 160], "yield": 3, "veri": [3, 5, 16, 18, 22, 48, 51, 55, 56, 59, 70, 77, 81, 84, 92, 93, 94, 95, 96, 99, 111, 114, 118, 133, 135, 139, 149, 152], "confus": [3, 53, 58, 106, 126, 131], "pcolor_colorbar": 3, "colorbar": [3, 39, 59, 66, 121, 124, 133, 154], "ad": [3, 12, 16, 18, 20, 22, 24, 25, 27, 29, 32, 34, 41, 44, 47, 53, 54, 55, 58, 59, 60, 64, 67, 70, 77, 82, 84, 87, 89, 90, 93, 94, 106, 107, 108, 110, 113, 114, 115, 116, 117, 118, 119, 120, 121, 122, 123, 124, 125, 127, 130, 135, 139, 140, 142, 148, 151, 154, 158], "relat": [3, 7, 22, 24, 54, 73, 97, 108, 120, 124, 126, 134], "same": [3, 5, 6, 8, 13, 16, 22, 25, 28, 31, 32, 39, 41, 44, 46, 47, 48, 51, 53, 55, 58, 59, 60, 62, 64, 66, 68, 70, 73, 76, 77, 78, 79, 83, 87, 89, 91, 92, 93, 96, 97, 99, 104, 105, 113, 114, 118, 119, 124, 126, 130, 131, 133, 139, 140, 141, 142, 146, 152, 154, 157], "pre": [3, 13, 33, 55, 85, 92], "pend": 3, "amr_": [3, 7], "whose": [3, 77, 84, 96, 97, 135, 139, 140, 154], "origin": [3, 6, 13, 16, 20, 28, 30, 34, 44, 52, 54, 66, 71, 72, 84, 99, 104, 113, 119, 126, 130, 140, 141, 143, 154], "hand": [3, 5, 18, 19, 20, 64, 83, 111, 133], "higher": [3, 6, 32, 51, 89, 99, 100, 110, 124, 131, 133, 134, 135], "shorter": [3, 110, 154], "last": [3, 18, 27, 32, 55, 57, 77, 83, 84, 96, 103, 118, 139, 148], "repeatedli": [3, 94, 100, 140], "common": [3, 23, 28, 35, 36, 40, 41, 62, 63, 73, 76, 83, 97, 99, 101, 102, 119, 121, 124, 155, 157], "finer": [3, 7, 32, 51, 110, 113, 114, 133, 139, 140], "celledg": 3, "stand": [4, 126], "conserv": [4, 5, 6, 17, 93, 99, 101, 122, 132, 157, 160], "law": [4, 17, 59, 142, 160], "packag": [4, 25, 28, 29, 35, 36, 51, 55, 56, 63, 73, 76, 80, 81, 83, 89, 91, 93, 95, 96, 98, 100, 103, 105, 106, 123, 124, 155, 158], "wa": [4, 5, 6, 14, 18, 19, 20, 25, 29, 30, 32, 33, 39, 48, 50, 54, 55, 62, 64, 66, 67, 70, 77, 94, 98, 99, 101, 110, 111, 112, 113, 114, 115, 116, 117, 118, 119, 120, 121, 122, 123, 124, 125, 126, 127, 128, 130, 133, 135, 142, 151, 152, 154], "initi": [4, 5, 7, 12, 13, 22, 25, 30, 44, 45, 47, 48, 51, 55, 60, 63, 67, 70, 73, 79, 81, 82, 83, 84, 86, 87, 89, 90, 92, 93, 97, 98, 99, 101, 102, 104, 107, 110, 118, 121, 124, 126, 131, 134, 139, 140, 141, 142, 143, 148, 152, 154], "develop": [4, 6, 7, 12, 13, 18, 22, 23, 48, 52, 54, 57, 58, 61, 66, 67, 76, 80, 81, 84, 91, 96, 99, 100, 106, 108, 111, 121, 122, 124, 126, 131, 134, 135, 141], "linear": [4, 5, 17, 30, 32, 51, 70, 77, 83, 87, 99, 122, 131, 132, 133], "nonlinear": [4, 5, 17, 48, 87, 131, 139, 160], "hyperbol": [4, 5, 6, 17, 42, 73, 84, 91, 96, 97, 103, 131, 139, 142, 157, 160], "system": [4, 16, 17, 23, 36, 37, 51, 52, 58, 59, 63, 71, 72, 81, 91, 93, 94, 96, 97, 100, 103, 106, 111, 131, 139, 141, 143, 150, 157, 160], "focu": [4, 45], "high": [4, 17, 32, 48, 51, 66, 70, 73, 84, 91, 99, 131, 134, 135, 156, 157], "resolut": [4, 6, 17, 18, 30, 32, 39, 44, 70, 89, 99, 103, 104, 113, 117, 121, 122, 131, 134, 142, 152, 154, 156, 157], "godunov": [4, 89, 99, 139, 141, 143, 157], "method": [4, 5, 7, 17, 32, 38, 42, 44, 53, 66, 77, 79, 83, 86, 87, 89, 94, 98, 99, 104, 110, 111, 117, 131, 138, 139, 140, 141, 143, 148, 151, 152, 154, 157], "framework": [4, 81, 84, 118, 119], "applic": [4, 6, 15, 16, 19, 20, 22, 23, 24, 28, 29, 32, 35, 36, 37, 41, 42, 43, 45, 46, 55, 57, 58, 63, 66, 68, 71, 79, 88, 89, 90, 91, 93, 99, 104, 107, 109, 110, 111, 113, 116, 117, 119, 120, 121, 123, 124, 131, 133, 135, 136, 139, 142, 146, 147, 152, 154, 155, 157, 158], "finit": [4, 17, 32, 42, 53, 59, 66, 67, 70, 99, 124, 133, 151, 152, 157], "volum": [4, 17, 29, 32, 42, 53, 59, 66, 67, 91, 124, 133, 140, 151, 152, 157], "riemann": [4, 5, 8, 20, 22, 23, 28, 29, 45, 55, 58, 63, 73, 81, 83, 89, 90, 99, 100, 101, 103, 106, 137, 139, 141, 143, 146, 147, 160], "solver": [4, 5, 6, 20, 22, 23, 25, 28, 45, 56, 57, 58, 63, 80, 81, 82, 86, 89, 90, 93, 101, 115, 117, 119, 120, 121, 122, 123, 124, 126, 139, 141, 143, 146, 147, 160], "resolv": [4, 32, 51, 54, 58, 108, 121, 135], "jump": [4, 5, 67, 79, 89, 99, 119, 139, 160], "discontinu": [4, 99, 160], "interfac": [4, 19, 22, 67, 81, 84, 87, 91, 92, 97, 99, 104, 131, 157, 158, 160], "grid": [4, 7, 17, 18, 19, 20, 22, 23, 25, 27, 28, 33, 38, 39, 44, 45, 46, 48, 51, 52, 59, 66, 67, 72, 73, 76, 81, 83, 91, 93, 94, 96, 97, 98, 99, 101, 103, 110, 111, 113, 114, 116, 117, 119, 120, 121, 124, 126, 128, 131, 132, 133, 134, 135, 139, 140, 141, 143, 149, 151, 152, 154, 156, 157, 160], "wave": [4, 5, 6, 16, 17, 25, 32, 39, 48, 51, 52, 70, 87, 89, 91, 96, 97, 99, 110, 117, 119, 120, 126, 132, 133, 134, 139, 140, 141, 142, 143, 157], "propag": [4, 5, 6, 17, 25, 30, 48, 51, 52, 70, 89, 91, 99, 110, 119, 131], "neighbor": [4, 32, 39, 66, 110, 119, 135, 140, 141, 154], "formul": [4, 5, 48, 64, 131, 139], "allow": [4, 6, 13, 18, 22, 27, 28, 29, 32, 38, 39, 44, 45, 47, 50, 51, 53, 54, 58, 64, 66, 67, 70, 71, 73, 76, 77, 86, 91, 92, 93, 99, 101, 104, 105, 106, 110, 111, 113, 114, 117, 118, 119, 120, 121, 123, 124, 126, 131, 133, 139, 141, 142, 143, 144, 148, 152, 154, 156], "easi": [4, 6, 11, 29, 38, 58, 67, 84, 93, 94, 95, 133, 144, 157], "extens": [4, 17, 22, 24, 28, 30, 48, 51, 54, 58, 63, 67, 84, 91, 92, 104, 119, 120, 126, 139, 150, 154, 160], "problem": [4, 5, 7, 16, 17, 20, 24, 25, 27, 28, 29, 35, 36, 39, 42, 45, 58, 62, 66, 67, 70, 73, 77, 80, 82, 83, 88, 90, 91, 94, 97, 99, 102, 106, 111, 113, 114, 116, 117, 120, 124, 126, 131, 133, 135, 139, 140, 141, 142, 143, 144, 151, 155], "algorithm": [4, 7, 25, 32, 38, 39, 45, 52, 83, 89, 91, 92, 99, 103, 110, 121, 131, 133, 139, 141, 143, 154], 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19, 20, 22, 23, 24, 28, 36, 38, 39, 41, 43, 44, 45, 46, 52, 55, 56, 57, 58, 60, 66, 67, 68, 71, 72, 73, 80, 91, 100, 106, 107, 110, 111, 130, 131, 133, 136, 137, 139, 142, 146, 147, 150, 151, 155], "detail": [4, 5, 10, 16, 18, 22, 23, 25, 26, 28, 29, 30, 32, 35, 36, 38, 41, 46, 48, 51, 54, 57, 58, 61, 62, 66, 67, 70, 73, 77, 81, 86, 87, 88, 89, 91, 92, 93, 94, 95, 96, 97, 99, 109, 110, 111, 114, 119, 121, 126, 131, 133, 138, 139, 142, 144, 148, 152, 155, 156, 157, 160], "content": [4, 6, 23, 51, 55, 73, 84, 91, 142, 152, 157, 158], "routin": [4, 5, 6, 16, 20, 25, 27, 30, 32, 35, 36, 44, 45, 46, 51, 52, 62, 67, 68, 71, 72, 73, 76, 79, 81, 84, 86, 89, 92, 95, 96, 99, 101, 102, 110, 113, 114, 117, 119, 121, 122, 124, 131, 135, 139, 141, 143, 148, 154, 155, 157, 158, 160], "special": [4, 7, 16, 18, 45, 46, 51, 61, 73, 81, 110, 133, 154], "depth": [4, 5, 16, 17, 22, 30, 32, 33, 39, 44, 45, 48, 64, 70, 76, 78, 132, 134, 135, 142, 152], "averag": [4, 6, 15, 17, 32, 39, 45, 48, 49, 53, 67, 97, 101, 114, 126, 131, 135, 136, 152, 154, 157], "geophys": [4, 16, 17, 23, 45, 48, 73, 139], "flow": [4, 16, 17, 18, 23, 32, 33, 45, 46, 48, 73, 91, 108, 124, 131, 139, 142, 152, 157], "geoclaw": [4, 7, 12, 17, 23, 24, 28, 30, 32, 33, 34, 36, 38, 41, 43, 44, 52, 53, 55, 56, 57, 58, 59, 60, 64, 66, 68, 70, 73, 76, 80, 91, 100, 106, 108, 109, 111, 130, 131, 132, 134, 135, 137, 139, 140, 148, 149, 150, 151, 152, 153, 154, 155, 156, 157], "parallel": [4, 22, 23, 44, 71, 82, 88, 90, 91, 93, 96, 98, 100, 104, 110, 111, 119, 140], "scale": [4, 30, 49, 51, 67, 73, 91, 92, 113, 119, 121, 126, 142], "ten": [4, 73], "thousand": [4, 73], "core": [4, 12, 73, 111, 121], "wish": [4, 13, 14, 15, 22, 29, 35, 36, 48, 51, 58, 67, 75, 76, 91, 96, 99, 100, 102, 106, 108, 110, 119, 136, 144, 146, 147, 155], "discrib": 4, "book": [4, 12, 17, 25, 29, 80, 98, 131], "levequ": [4, 16, 17, 24, 30, 52, 73, 87, 89, 91, 99, 105, 131, 139, 157, 160], "fvmhp": [4, 12, 16, 17, 25, 73, 131, 139, 157, 160], "virtual": [4, 13, 25, 27, 101], "were": [4, 6, 14, 18, 20, 32, 44, 54, 60, 63, 67, 68, 84, 110, 113, 119, 122, 126, 133, 135, 152], "4": [4, 7, 8, 9, 13, 16, 17, 18, 23, 25, 28, 30, 32, 33, 34, 36, 38, 39, 41, 42, 44, 45, 48, 51, 53, 54, 55, 62, 63, 64, 66, 67, 71, 76, 77, 79, 90, 91, 92, 93, 94, 96, 97, 99, 100, 104, 106, 110, 111, 113, 118, 121, 126, 127, 130, 133, 139, 140, 141, 142, 143, 150, 151, 152, 154, 159], "3": [4, 6, 7, 15, 16, 20, 22, 24, 25, 30, 32, 33, 36, 38, 42, 44, 45, 51, 53, 55, 58, 59, 64, 67, 70, 77, 79, 80, 83, 86, 87, 89, 92, 93, 94, 97, 98, 99, 101, 105, 106, 110, 119, 121, 124, 129, 131, 133, 136, 139, 140, 141, 142, 143, 150, 151, 152, 154, 157, 160], "pointer": [4, 16, 54, 70, 76, 79, 99, 104, 117], "code": [4, 5, 6, 7, 8, 12, 14, 16, 19, 20, 21, 22, 23, 24, 27, 29, 32, 33, 35, 36, 38, 40, 41, 42, 44, 45, 48, 50, 52, 53, 54, 56, 61, 62, 63, 64, 68, 69, 70, 71, 72, 73, 75, 77, 79, 80, 81, 83, 84, 89, 91, 92, 93, 94, 96, 99, 100, 103, 105, 106, 109, 112, 113, 114, 117, 118, 119, 120, 121, 122, 123, 124, 126, 130, 131, 132, 133, 137, 139, 140, 141, 142, 143, 144, 148, 150, 151, 152], "bibliographi": [4, 25], "paper": [4, 5, 6, 16, 30, 45, 54, 87, 91], "distribut": [4, 12, 13, 29, 30, 54, 61, 70, 73, 81, 99, 105, 124], "under": [4, 7, 22, 32, 37, 51, 52, 54, 57, 61, 63, 76, 81, 89, 91, 111, 119, 121, 129], "term": [4, 25, 45, 48, 61, 70, 84, 89, 90, 99, 110, 120, 121, 132, 139, 141, 142, 143, 146, 147], "berkelei": [4, 61, 81], "bsd": [4, 61, 81, 121], "peopl": [4, 12, 13, 81], "contribut": [4, 24, 25, 57, 81, 84, 91, 96, 99, 108, 111], "its": [4, 6, 13, 22, 29, 34, 39, 48, 51, 61, 63, 66, 70, 72, 81, 86, 87, 88, 89, 91, 96, 98, 99, 101, 104, 110, 141, 154, 160], "incept": 4, "1994": [4, 61], "major": [4, 22, 54, 55, 81, 84, 112, 113, 114, 115, 120, 122, 127], "design": [4, 27, 28, 51, 81, 83, 103, 133, 156], "made": [4, 18, 22, 28, 30, 58, 98, 101, 113, 114, 119, 121, 124, 126, 133, 135, 142, 149, 152, 154, 157], "individu": [4, 22, 23, 51, 59, 62, 63, 67, 89, 110, 111, 148], "randal": [4, 17, 91], "univers": [4, 17, 24, 54, 61, 81, 98], "washington": [4, 17, 24, 54, 61, 123, 133, 154], "rjlevequ": [4, 28, 29], "marsha": [4, 6, 17], "berger": [4, 6, 17], "courant": [4, 6, 110, 120, 139, 140, 141, 143], "institut": 4, "nyu": 4, "mjberger": 4, "jan": [4, 55], "olav": 4, "langseth": [4, 17], "norwegian": 4, "defenc": 4, "research": [4, 17, 45, 48, 81, 99, 109], "establish": 4, "david": [4, 17, 81, 91, 99], "georg": [4, 17, 30], "usg": [4, 30, 156], "cascad": 4, "volcano": 4, "observatori": 4, "dlgeorg": 4, "ketcheson": [4, 17, 74, 81, 91, 99], "kaust": [4, 24], "ketch": 4, "kyle": [4, 17, 81, 87, 91, 92, 97], "mandli": [4, 17, 81, 87, 91, 92, 97], "ut": 4, "austin": 4, "contributor": [4, 24, 61, 91], "aron": [4, 17, 81, 91], "ahmadia": [4, 17, 81, 91], "amal": [4, 17, 81, 91], "alghamdi": [4, 17, 81, 91], "ghamdi": 4, "ian": 4, "bollig": 4, "bolliger32": 4, "peter": 4, "blossei": 4, "donna": [4, 17], "calhoun": [4, 17, 51], "donnabois": 4, "ond\u0159ej": 4, "\u010dert\u00edk": 4, "certik": [4, 81], "brisa": 4, "davi": [4, 17], "brisadavi": [4, 122], "gradi": [4, 17, 81], "lemoin": [4, 17, 81], "gradylemoin": 4, "sorin": 4, "mitran": [4, 17], "matteo": [4, 17, 81, 91], "parsani": [4, 17, 81, 91], "mparsani": 4, "xinsheng": [4, 52], "qin": [4, 52], "xinshengqin": [4, 52], "avi": 4, "schwarzschild": 4, "aks2203": 4, "andi": 4, "terrel": 4, "aterrel": 4, "chri": 4, "vogl": 4, "cjvogl": 4, "numer": [4, 17, 51, 105, 122], "student": 4, "toward": [4, 30], "bug": [4, 8, 12, 22, 24, 41, 51, 64, 71, 77, 81, 116, 117, 118, 119, 121, 126, 127, 128], "suggest": [4, 24, 29, 47, 53, 54, 56, 58, 79, 80, 105, 129, 131, 142, 159], "improv": [4, 13, 22, 24, 32, 34, 51, 54, 92, 105, 113, 114, 116, 117, 118, 119, 120, 122, 123, 124, 125, 126, 127, 139], "explor": [4, 59, 77, 79], "thank": [4, 91], "public": [4, 13, 21, 129], "pleas": [4, 24, 28, 54, 56, 57, 58, 81, 83, 86, 88, 91, 92, 94, 96, 98, 99, 100, 102, 108, 121, 126, 129, 131, 148], "itself": [4, 70, 76, 105, 124, 131, 142, 154], "well": [4, 6, 18, 28, 33, 45, 51, 52, 54, 58, 59, 66, 70, 71, 72, 73, 76, 79, 80, 98, 99, 108, 120, 121, 124, 132, 135, 139, 140, 146, 147, 148, 157, 160], "citat": [4, 55], "similar": [4, 13, 16, 28, 32, 36, 44, 51, 83, 84, 92, 96, 99, 103, 121, 126, 142, 148, 149, 150, 152], "team": [4, 24, 61], "2020": [4, 24, 25, 54, 61, 105, 108, 124, 125, 126, 129, 131], "7": [4, 6, 14, 29, 32, 38, 39, 44, 47, 54, 64, 66, 77, 80, 89, 100, 106, 110, 126, 129, 133, 134, 135, 140, 141], "http": [4, 12, 13, 17, 18, 24, 26, 28, 29, 30, 39, 47, 51, 52, 54, 55, 57, 58, 60, 61, 66, 68, 70, 80, 81, 84, 85, 92, 94, 96, 105, 106, 116, 118, 119, 120, 122, 123, 126, 127, 128, 129, 132, 148, 154], "www": [4, 13, 17, 30, 39, 45, 54, 60, 61, 66, 68, 81, 84, 89, 92, 94, 120, 122, 148, 154], "org": [4, 17, 45, 52, 54, 55, 60, 61, 81, 84, 85, 89, 92, 94, 105, 106, 118, 120, 122, 126, 127, 128, 154], "doi": [4, 17, 52, 55, 57, 124, 125, 126, 127, 128, 129], "10": [4, 17, 30, 32, 39, 51, 52, 53, 55, 77, 83, 86, 89, 110, 118, 119, 121, 124, 125, 126, 127, 128, 129, 133, 139, 140, 141, 143, 152], "5281": [4, 55, 124, 125, 126, 127, 128, 129], "zenodo": [4, 57, 124, 125, 126, 127, 128, 129], "4025432": [4, 125, 129], "here": [4, 13, 16, 29, 38, 39, 48, 55, 58, 59, 66, 73, 77, 79, 83, 86, 91, 92, 94, 96, 97, 102, 103, 106, 108, 110, 117, 131, 132, 133, 149, 154, 160], "bibtex": [4, 55], "misc": [4, 123, 125], "url": [4, 12, 17, 51, 55, 121, 122, 152, 154], "year": [4, 17, 22, 51, 59, 91, 112, 122, 148], "appropri": [4, 5, 6, 13, 16, 24, 28, 45, 48, 49, 51, 55, 57, 59, 60, 64, 67, 68, 69, 71, 83, 86, 87, 88, 92, 94, 95, 96, 97, 98, 111, 123, 131, 134, 139, 148, 157, 160], "releas": [4, 18, 22, 25, 28, 29, 43, 51, 56, 57, 58, 85, 91, 99, 100, 105], "refer": [4, 5, 20, 30, 32, 33, 35, 36, 38, 45, 46, 51, 62, 63, 67, 70, 83, 87, 89, 92, 93, 97, 99, 101, 106, 108, 121, 123, 130, 131, 133, 142, 148, 152, 154, 156, 157], "particular": [4, 6, 12, 20, 22, 28, 30, 32, 41, 44, 45, 46, 48, 51, 52, 55, 61, 62, 63, 67, 73, 77, 78, 80, 81, 83, 97, 98, 99, 101, 103, 108, 109, 110, 111, 114, 117, 118, 119, 120, 121, 123, 124, 126, 138, 148, 149, 160], "obtain": [4, 6, 12, 32, 43, 44, 46, 48, 58, 59, 92, 93, 94, 110, 126, 131, 135, 142, 144, 152, 160], "your": [4, 6, 15, 16, 19, 20, 24, 25, 26, 35, 37, 41, 44, 53, 54, 55, 56, 57, 58, 68, 71, 76, 77, 79, 81, 82, 83, 84, 85, 88, 90, 91, 92, 93, 102, 103, 105, 106, 107, 108, 110, 111, 113, 121, 131, 136, 137, 146, 147, 152, 155, 157], "multipl": [4, 5, 6, 13, 23, 28, 32, 33, 39, 44, 76, 83, 89, 92, 93, 104, 106, 111, 113, 119, 123, 130, 131, 140, 148, 149], "past": [4, 21, 25, 54, 60, 66, 98, 119, 122, 126, 129, 133, 134, 142], "17605": [4, 55, 129], "osf": [4, 129], "io": [4, 54, 55, 80, 93, 98, 129], "kmw6h": [4, 55, 129], "recent": [4, 13, 22, 27, 30, 50, 54, 57, 62, 64, 71, 77, 79, 80, 118, 122, 123, 124, 125, 126, 127, 128, 129, 131, 156], "articl": [4, 17, 91, 144], "m": [4, 17, 20, 22, 28, 30, 44, 47, 51, 52, 54, 55, 59, 66, 67, 70, 72, 84, 110, 116, 131, 133, 142, 154, 157, 160], "d": [4, 7, 17, 28, 30, 47, 51, 59, 88, 97, 106, 111, 131], "l": [4, 7, 17, 32, 40, 57, 110, 131, 137, 141], "hadjimichael": [4, 17, 81], "2016": [4, 17, 24, 54], "build": [4, 17, 28, 29, 54, 55, 67, 84, 94, 104, 120, 133], "open": [4, 13, 17, 25, 28, 29, 30, 51, 59, 76, 81, 85, 89, 92, 104, 133, 137, 156, 158], "sourc": [4, 17, 23, 25, 28, 30, 41, 45, 51, 52, 54, 55, 57, 58, 59, 61, 63, 64, 76, 81, 84, 88, 89, 90, 99, 100, 102, 103, 104, 108, 109, 111, 119, 120, 121, 132, 134, 139, 141, 142, 143, 145, 146, 147, 148, 152], "ecosystem": [4, 17], "pde": [4, 5, 17, 56, 57, 58, 73, 80, 91, 103, 139, 157], "peerj": [4, 17], "scienc": [4, 17, 81], "7717": [4, 17], "c": [4, 16, 17, 28, 29, 30, 41, 51, 59, 61, 77, 81, 83, 84, 89, 97, 102, 103, 131], "68": [4, 17], "mandli2016clawpack": [4, 17], "yianni": [4, 17, 81], "journal": [4, 17, 52, 91, 144], "e68": [4, 17], "publish": [4, 17, 54, 91], "inc": [4, 17, 67], "least": [4, 5, 6, 13, 51, 59, 66, 67, 102, 110, 111, 118, 119, 126, 139, 141, 152, 154], "regard": [4, 38, 118, 148], "click": [4, 12, 13, 18, 28, 51, 54, 111, 120, 129], "link": [4, 11, 13, 15, 17, 18, 19, 20, 24, 25, 28, 41, 42, 45, 51, 52, 53, 54, 55, 57, 59, 68, 105, 106, 107, 120, 129, 131, 132, 134, 136, 143, 146, 147, 152, 156], "classic": [4, 6, 12, 15, 16, 19, 20, 22, 23, 24, 28, 41, 42, 43, 46, 55, 56, 57, 58, 63, 69, 71, 72, 73, 80, 81, 83, 86, 88, 89, 90, 91, 92, 96, 106, 107, 111, 130, 131, 136, 137, 140, 142, 147, 155, 157], "2d": [4, 7, 8, 15, 16, 19, 22, 25, 27, 32, 38, 39, 45, 47, 52, 59, 67, 71, 76, 81, 83, 89, 91, 95, 99, 105, 107, 110, 117, 119, 120, 121, 122, 123, 126, 132, 133, 135, 136, 139, 140, 143, 146, 147, 154, 158, 160], "leveque97": [4, 17], "3d": [4, 7, 15, 22, 30, 67, 71, 76, 81, 91, 95, 99, 107, 110, 113, 115, 117, 118, 119, 122, 131, 133, 136, 139, 140, 146, 147, 158, 160], "langsethleveque00": [4, 17], "amr": [4, 7, 8, 16, 18, 20, 23, 25, 27, 28, 32, 34, 38, 44, 45, 52, 59, 67, 72, 73, 76, 81, 89, 118, 120, 121, 122, 124, 126, 135, 138, 139, 141, 143, 151, 157], "bergerleveque98": [4, 6, 7, 17], "f": [4, 5, 6, 16, 20, 22, 25, 27, 28, 31, 62, 63, 68, 72, 84, 86, 92, 93, 96, 97, 99, 101, 102, 104, 113, 117, 120, 121, 122, 126, 132, 139, 140, 141, 143, 154, 155, 157], "balelevmitross02": [4, 17, 139, 160], "bergergeorgelevequemandli11": [4, 17], "levequegeorgeberg": [4, 17], "order": [4, 5, 6, 13, 16, 17, 29, 30, 32, 48, 53, 58, 63, 66, 67, 70, 72, 73, 77, 79, 80, 81, 83, 86, 87, 89, 91, 92, 93, 95, 96, 99, 103, 104, 105, 106, 110, 117, 121, 126, 131, 133, 135, 138, 139, 140, 141, 143, 148, 152, 154, 155, 157, 160], "sharpclaw": [4, 23, 25, 73, 81, 88, 90, 91, 96, 113, 131], "ketparlev13": [4, 17, 73, 91, 131], "ketchesonmandliet": [4, 17], "support": [4, 8, 13, 18, 22, 38, 41, 48, 51, 56, 57, 70, 80, 81, 83, 84, 89, 92, 93, 95, 97, 99, 110, 117, 119, 120, 121, 122, 126, 127, 131, 133, 139, 140, 142, 148, 149, 152, 155, 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124, 125, 133, 134, 135, 142, 148, 149, 152], "davisleveque2016": [5, 17], "chile2010_adjoint": 5, "shallow": [5, 15, 16, 17, 25, 32, 39, 45, 48, 52, 66, 73, 84, 91, 107, 114, 115, 117, 119, 121, 122, 131, 135, 136, 142, 146, 147, 152, 157], "water": [5, 16, 17, 25, 39, 44, 45, 46, 47, 48, 59, 66, 73, 76, 84, 91, 114, 115, 119, 121, 122, 131, 133, 134, 135, 142, 152, 154, 156, 157], "while": [5, 13, 16, 30, 39, 51, 67, 70, 77, 79, 84, 89, 93, 94, 99, 104, 121, 131, 135, 142, 156], "suitabl": [5, 8, 16, 20, 45, 48, 51, 98, 109, 131, 134, 148, 154], "To": [5, 6, 13, 14, 18, 22, 25, 28, 29, 35, 36, 37, 38, 39, 40, 44, 46, 49, 51, 52, 55, 62, 65, 66, 67, 70, 71, 72, 77, 79, 80, 83, 85, 87, 88, 91, 92, 93, 94, 95, 96, 99, 100, 103, 106, 108, 109, 110, 111, 117, 119, 122, 123, 124, 125, 126, 127, 128, 130, 134, 137, 139, 140, 144, 152, 158], "date": [5, 28, 40, 47, 51, 54, 55, 62, 77, 148, 155], "across": [5, 110, 119, 152, 154], "ocean": [5, 16, 17, 32, 48, 51, 108, 110, 133, 146, 147, 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139, 140, 141, 143, 151, 157, 160], "flux": [5, 17, 32, 89, 97, 99, 131, 139, 160], "comment": [5, 11, 18, 24, 49, 55, 120, 130], "rpn2": [5, 131], "basic": [6, 10, 12, 25, 30, 35, 37, 45, 57, 66, 67, 83, 89, 91, 92, 93, 97, 99, 111, 131, 132, 148, 160], "strategi": 6, "logic": [6, 16, 17, 32, 126], "rectangular": [6, 7, 16, 17, 18, 30, 32, 38, 39, 45, 46, 59, 66, 89, 110, 121, 124, 140, 142, 152], "cover": [6, 7, 27, 28, 30, 32, 38, 39, 51, 59, 66, 70, 110, 114, 119, 135, 141, 152], "too": [6, 47, 51, 54, 55, 118, 133, 141, 143], "portion": [6, 18, 39, 51, 66, 84, 151], "factor": [6, 51, 140, 142, 151, 154], "direct": [6, 8, 16, 22, 30, 32, 35, 36, 44, 47, 51, 55, 59, 61, 62, 67, 70, 71, 77, 81, 86, 96, 103, 110, 120, 131, 139, 140, 142, 154], "anisotrop": [6, 22], "further": [6, 16, 18, 25, 32, 41, 48, 59, 62, 67, 91, 105, 110, 111, 140], "perhap": [6, 12, 32, 39, 44, 54, 77, 101, 104, 110, 133], "ratio": [6, 15, 22, 49, 67, 70, 87, 97, 99, 136, 139, 140, 141], "And": [6, 20, 54, 57], "section": [6, 13, 16, 35, 36, 39, 41, 46, 48, 54, 55, 63, 67, 76, 79, 91, 111, 126, 130, 139, 142, 154], "cfl": [6, 89, 93, 99, 103, 113, 118, 139, 141, 142, 143], "spatial": [6, 17, 25, 30, 38, 39, 45, 64, 96, 110, 113, 117, 124, 126, 131, 134, 140, 141, 143, 160], "reduc": [6, 16, 18, 39, 51, 118, 120, 160], "thu": [6, 47, 93, 96, 121, 148], "proce": [6, 28], "advanc": [6, 17, 52, 66, 71, 103, 118, 139, 140, 157], "taken": [6, 32, 66, 70, 93, 99, 110, 139, 157], "around": [6, 30, 32, 39, 59, 92, 108, 111, 124, 140, 141, 148, 154, 157], "librari": [6, 13, 15, 16, 20, 22, 25, 27, 28, 32, 35, 36, 41, 44, 52, 59, 62, 68, 71, 72, 73, 81, 87, 92, 94, 99, 104, 106, 107, 110, 119, 124, 135, 136, 140, 146, 147, 155, 157], "bcnamr": [6, 16, 121, 139, 141, 157], "check": [6, 14, 15, 16, 20, 32, 35, 36, 40, 41, 50, 51, 52, 54, 55, 56, 58, 62, 67, 77, 80, 83, 84, 86, 91, 94, 98, 99, 101, 103, 104, 106, 107, 110, 114, 123, 133, 135, 136, 140, 141, 146, 147, 148, 154, 155, 156, 157], "denot": [6, 22, 44, 53, 131, 154], "procedur": [6, 16, 39, 45, 55, 157], "updat": [6, 12, 13, 22, 23, 25, 32, 49, 52, 57, 58, 60, 79, 91, 99, 101, 102, 105, 108, 113, 117, 119, 120, 121, 122, 123, 124, 131, 140, 141, 143, 145, 148, 151, 157], "consist": [6, 18, 25, 32, 47, 51, 55, 59, 94, 105, 119, 131, 133, 142, 152, 157], "replac": [6, 13, 18, 29, 38, 44, 48, 52, 54, 55, 57, 60, 62, 76, 84, 88, 92, 94, 95, 96, 97, 101, 104, 111, 113, 119, 121, 123, 124, 130, 131, 135, 154, 155], "ly": [6, 66], "within": [6, 16, 28, 29, 54, 58, 66, 73, 77, 95, 104, 106, 110, 131, 133, 138, 144, 154], "approxim": [6, 16, 25, 33, 48, 51, 70, 131], "lead": [6, 13, 22, 32, 48, 51, 64, 67, 70, 106, 109, 126, 135, 140], "total": [6, 30, 51, 70, 93, 99, 139, 140, 141, 143, 151], "mass": [6, 93], "restor": 6, "global": [6, 14, 89, 101, 104, 134, 152, 156, 157], "fix": [6, 18, 19, 20, 22, 25, 33, 38, 45, 54, 55, 59, 60, 62, 66, 81, 92, 97, 113, 114, 115, 116, 117, 118, 119, 120, 122, 123, 124, 125, 126, 127, 128, 132, 139, 141, 143, 154], "up": [6, 13, 22, 28, 29, 30, 32, 35, 36, 39, 40, 44, 45, 51, 54, 55, 59, 62, 66, 67, 70, 77, 83, 84, 86, 88, 90, 91, 92, 94, 99, 100, 103, 106, 108, 110, 111, 117, 118, 121, 124, 126, 133, 135, 138, 141, 143, 151, 152, 155, 156], "style": [6, 22, 28, 30, 38, 49, 51, 66, 72, 77, 81, 86, 121, 142], "often": [6, 11, 13, 16, 20, 27, 29, 32, 35, 36, 40, 41, 44, 45, 48, 49, 50, 59, 60, 64, 70, 72, 93, 105, 106, 110, 111, 126, 130, 131, 133, 134, 135, 138, 139, 142, 148, 152, 156, 157, 160], "olig": [6, 17], "colella": [6, 17], "bergeroliger84": [6, 17], "bergercolella89": [6, 17], "fortran": [6, 9, 11, 13, 14, 18, 20, 23, 27, 28, 30, 32, 33, 35, 44, 45, 46, 53, 56, 58, 62, 63, 64, 71, 72, 73, 76, 79, 81, 83, 84, 86, 89, 91, 92, 94, 96, 97, 99, 100, 101, 104, 106, 117, 118, 119, 121, 122, 123, 131, 132, 137, 140, 141, 142, 143, 148, 150, 151, 152], "written": [6, 11, 25, 30, 32, 40, 44, 58, 59, 60, 61, 70, 72, 73, 77, 81, 90, 91, 92, 96, 119, 131, 139, 140, 141, 142, 143, 148, 154, 157], "ga": [6, 97], "dynam": [6, 20, 30, 48, 70, 73, 140], "merg": [6, 13, 25, 28, 52, 54, 55, 58, 117], "earli": [6, 20, 135], "dai": [6, 13, 51, 142], "mjb": [6, 17], "rjl": [6, 17, 106, 123], "fulli": [6, 48, 51, 52, 120, 124, 131, 142, 148, 149], "consid": [6, 39, 48, 58, 66, 84, 106, 137, 144, 154], "adjac": [6, 16, 32, 45, 110, 135, 139], "equival": [6, 18, 44, 52, 53, 59, 60, 123, 152], "copi": [6, 14, 15, 16, 35, 36, 44, 51, 54, 55, 58, 67, 83, 86, 96, 101, 107, 108, 109, 110, 114, 118, 121, 125, 135, 136, 140, 144, 146, 147, 152, 157], "interior": [6, 16, 39, 72, 101], "howev": [6, 13, 16, 22, 29, 32, 35, 36, 39, 41, 46, 48, 51, 58, 61, 63, 66, 70, 71, 72, 81, 84, 91, 110, 111, 119, 121, 123, 134, 135, 138, 142, 151], "lie": [6, 32, 33, 66, 110, 124, 133], "outsid": [6, 16, 38, 59, 66, 124, 133, 135, 152, 154], "li": [6, 16, 32, 110, 133, 142], "along": [6, 14, 16, 24, 27, 30, 32, 39, 44, 51, 54, 57, 68, 70, 106, 110, 117, 130, 133, 135, 142, 156], "proper": [6, 15, 39, 44, 52, 53, 55, 59, 64, 66, 67, 92, 104, 113, 119, 136, 140, 141, 146, 147, 148, 157], "unless": [6, 32, 40, 41, 59, 97, 105, 134, 139, 140, 154], "standard": [6, 16, 30, 32, 51, 53, 67, 72, 84, 87, 99, 106, 110, 111, 141, 142, 143, 144, 152, 157, 160], "beyond": [6, 30, 105, 121], "modifi": [6, 9, 14, 15, 16, 20, 22, 27, 32, 35, 36, 39, 44, 45, 54, 55, 58, 60, 62, 67, 69, 77, 84, 87, 89, 91, 96, 106, 107, 108, 109, 110, 116, 118, 119, 120, 121, 126, 133, 135, 136, 139, 141, 142, 143, 146, 147, 152, 154, 157], "damag": [6, 61, 81], "bcn": [6, 16, 143, 157], "nd": [6, 16, 110, 121, 124, 157], "actual": [6, 27, 30, 32, 53, 58, 59, 67, 70, 77, 87, 92, 104, 108, 134, 142], "softwar": [6, 13, 24, 25, 29, 45, 48, 61, 68, 81, 91, 92, 93, 144, 152], "intern": [6, 30, 44, 53, 59, 70, 119, 140, 152, 154, 160], "With": [6, 22, 28, 44, 49, 51, 58, 66, 73, 110, 118, 131, 133, 139], "opposit": [6, 16, 92], "side": [6, 16, 18, 32, 51, 54, 64, 70, 92, 111, 131, 160], "everi": [6, 12, 28, 32, 44, 60, 62, 63, 83, 86, 88, 92, 93, 101, 110, 111, 119, 120, 131, 135, 137, 139, 141, 143, 148, 152, 154, 157], "few": [6, 12, 13, 22, 26, 29, 36, 48, 54, 66, 67, 84, 99, 103, 105, 110, 111, 124, 134, 150, 152, 157], "coarsest": [6, 51, 72, 113, 130, 139], "revis": [6, 119], "shock": [6, 17, 48, 99, 110], "accord": [6, 53], "criteria": [6, 7, 22, 25, 32, 66, 101], "cluster": [6, 17, 110, 140, 141], "rigoutsi": 6, "bergerrigoutsis91": [6, 17], "nonoverlap": 6, "rectangl": [6, 7, 25, 30, 66, 70, 110, 124, 154], "balanc": [6, 17, 73, 120, 132, 146, 147], "conflict": [6, 28, 58, 62, 67, 102, 106], "goal": 6, "possibl": [6, 13, 22, 26, 28, 30, 32, 44, 47, 48, 51, 61, 62, 70, 77, 81, 89, 92, 94, 95, 99, 104, 106, 110, 131, 133, 134, 139, 140, 152, 156, 157], "minim": [6, 58, 66, 92, 133, 140, 154], "overhead": [6, 71, 110, 151], "cutoff": [6, 141], "control": [6, 7, 23, 25, 32, 41, 44, 54, 58, 60, 67, 79, 82, 87, 89, 91, 92, 93, 94, 96, 110, 119, 124, 132, 142], "fraction": [6, 13, 30, 110, 139, 157, 160], "70": [6, 51], "realli": [6, 111, 157], "At": [6, 13, 27, 28, 35, 36, 39, 66, 94, 99, 103, 105, 110, 124, 139], "present": [6, 24, 59, 89, 97, 98, 99, 104, 144, 157, 160], "previous": [6, 22, 32, 66, 79, 117, 124, 135], "bilinear": [6, 32, 39, 44, 53, 113, 114, 152], "doxygen": [6, 7, 25, 120], "flowchart": [6, 7, 25], "capabl": [7, 12, 18, 22, 32, 34, 48, 52, 66, 73, 84, 91, 113, 118, 119, 121, 122, 123, 124, 125, 154, 156], "block": [7, 30, 39, 59, 70, 72, 73, 83, 92, 101, 104, 111, 157], "structur": [7, 10, 22, 32, 38, 55, 58, 62, 73, 98, 99, 119, 133, 138, 154], "input": [7, 14, 16, 20, 23, 25, 27, 30, 33, 40, 45, 51, 59, 63, 66, 67, 83, 86, 87, 89, 91, 97, 98, 99, 104, 108, 118, 121, 122, 123, 131, 141, 142, 143, 148, 149, 152, 154, 157], "indic": [7, 16, 20, 22, 25, 29, 30, 32, 38, 39, 41, 44, 45, 51, 53, 55, 58, 63, 67, 75, 79, 89, 93, 94, 97, 99, 103, 106, 110, 111, 119, 124, 126, 131, 132, 139, 140, 141, 142, 143, 152, 154, 157], "tool": [7, 8, 17, 22, 23, 28, 30, 32, 33, 35, 36, 39, 45, 46, 47, 48, 51, 53, 56, 57, 58, 59, 67, 70, 75, 76, 77, 78, 80, 91, 106, 109, 114, 115, 119, 120, 124, 125, 142, 144, 152, 154, 156, 158], "matlab": [7, 22, 25, 35, 36, 75, 76, 77, 95, 105, 121, 124, 125], "deprec": [7, 18, 30, 34, 54, 58, 117, 121, 142, 152, 154], "debug": [7, 18, 41, 62, 72, 76, 93, 101, 106, 111, 139, 141], "flag": [7, 12, 13, 22, 25, 28, 29, 38, 40, 41, 45, 52, 58, 68, 71, 84, 102, 104, 106, 117, 122, 126, 141, 142], "sampl": [7, 8, 14, 17, 18, 25, 29, 32, 41, 45, 51, 70, 106, 111, 130, 133, 139, 140, 152, 154, 157], "ghost": [7, 16, 71, 72, 89, 92, 99, 101, 119, 126, 139, 141, 143, 151, 157, 160], "flagregion": [7, 25, 66, 110, 124, 126, 133, 140, 142], "rule": [7, 13, 25, 59, 66, 84], "convex": [7, 32], "slu": 7, "bounding_box": [7, 33], "mask_outsid": [7, 66], "write": [7, 28, 30, 33, 38, 39, 44, 45, 50, 53, 54, 64, 70, 72, 73, 76, 83, 86, 89, 90, 92, 93, 94, 98, 119, 121, 141, 143, 148, 152, 154], "instanti": [7, 86, 94, 96, 99, 101, 141, 143], "make_kml": 7, "simpl": [7, 29, 35, 36, 38, 45, 55, 70, 84, 91, 96, 97, 99, 104, 109, 111, 154], "select": [7, 12, 13, 15, 16, 28, 32, 39, 66, 93, 99, 107, 110, 113, 120, 124, 129, 136, 139, 142, 146, 147, 156], "continent": [7, 66], "shelf": [7, 66], "guid": [7, 13, 17, 18, 23, 24, 25, 45, 46, 52, 57, 91, 105, 110, 120, 124, 145], "adjoint": [7, 17, 25, 52, 110, 121, 122], "gaug": [7, 18, 25, 32, 45, 59, 89, 90, 101, 108, 113, 117, 118, 119, 120, 121, 124, 130, 134, 141], "extend": [8, 16, 22, 39, 59, 66, 67, 89, 121, 133, 135, 142, 152, 154, 160], "directli": [8, 18, 19, 23, 32, 48, 57, 67, 70, 77, 79, 83, 84, 87, 91, 101, 104, 106, 121, 154, 158], "obviou": [8, 51], "elimin": [8, 22, 66, 84, 106, 121, 142], "gallery_classic_amrclaw": [8, 35], "num_cel": [8, 22, 89, 131, 139, 140, 141, 143], "refinement_ratios_i": [8, 140, 141], "sweep": [8, 131], "transvers": [8, 89, 119, 126, 131, 132, 139, 157, 160], "graph": 9, "understand": [9, 25, 35, 36, 48, 76, 91, 103, 110, 131], "filpatch": [9, 39, 119, 123, 126], "idea": [10, 24, 30, 66, 67, 73, 83, 103, 114, 154, 160], "overal": [10, 83], "who": [10, 12, 19, 22, 24, 32, 41, 48, 56], "gori": 10, "monster": 10, "column": [10, 30, 32, 44, 48, 60, 93, 97, 117, 133, 154], "markup": 11, "languag": [11, 76, 104], "restructur": [11, 54], "text": [11, 54, 55, 59, 72, 86, 92, 99, 117], "sphinx": [11, 23, 25, 55, 120], "covert": 11, "convert_readm": 11, "brows": [11, 24, 42, 51, 67, 144, 157], "insert": [11, 16, 70, 92, 137], "script": [11, 19, 20, 28, 30, 32, 40, 44, 51, 54, 62, 67, 73, 76, 81, 84, 88, 90, 91, 93, 94, 99, 104, 106, 111, 121, 125, 131, 138, 142, 143, 154], "invok": [11, 14, 71, 135, 155], "minor": [11, 51, 54, 93, 113, 114, 115, 116, 117, 118, 119, 120, 121, 122, 124, 126, 128], "syntax": [11, 57, 137], "highlight": [11, 13], "header": [11, 30, 32, 39, 44, 53, 66, 70, 72, 92, 98, 117, 119, 121, 148, 152, 154], "complex": [12, 38, 89], "archiv": [12, 21, 36, 51, 55, 111, 144, 150, 154, 156], "github": [12, 15, 18, 22, 23, 24, 25, 26, 29, 52, 54, 57, 58, 88, 96, 100, 107, 111, 116, 118, 119, 120, 129, 131, 132, 136, 146, 147, 155], "app": [12, 13, 18, 23, 26, 28, 29, 32, 37, 42, 43, 70, 108, 109, 116, 120, 121, 122, 123, 124, 125, 126, 127, 128, 132], "com": [12, 13, 18, 23, 24, 26, 28, 29, 52, 54, 55, 57, 58, 92, 94, 96, 100, 116, 118, 119, 120, 129, 132], "fvmbook": [12, 42], "galleri": [12, 25, 35, 36, 37, 42, 55, 75, 76, 88, 91, 105, 111, 116, 120, 144, 150, 157], "anim": [12, 16, 18, 42, 51, 117, 124, 125, 144], "instal": [12, 13, 18, 23, 25, 29, 35, 43, 51, 54, 55, 79, 81, 82, 85, 90, 92, 103, 105, 111, 112, 113, 114, 115, 116, 117, 118, 119, 120, 121, 122, 123, 124, 125, 126, 127, 128, 129, 137, 159], "collect": [12, 25, 26, 28, 30, 32, 70, 76, 83, 99, 144], "either": [12, 16, 18, 20, 30, 32, 39, 45, 46, 51, 60, 62, 66, 67, 70, 77, 79, 83, 89, 91, 92, 93, 99, 104, 106, 110, 111, 117, 118, 119, 121, 131, 133, 135, 140, 142, 148, 152, 154, 157, 160], "clone": [12, 18, 23, 24, 42, 52, 54, 55, 58, 80, 94, 100, 109, 155], "git": [12, 13, 23, 24, 25, 26, 29, 52, 55, 58, 91, 100, 111, 123], "navig": [12, 29, 54, 144], "green": [12, 59, 66, 70, 77, 111, 154], "button": [12, 13, 28, 51, 59, 120], "download": [12, 13, 28, 29, 30, 36, 37, 39, 45, 51, 55, 57, 58, 68, 88, 94, 100, 121, 122, 129, 150, 154, 155, 156], "zip": [12, 51, 55], "illustr": [12, 25, 30, 32, 35, 43, 51, 66, 67, 70, 109, 116, 117, 121, 123, 131, 133, 144, 154], "variou": [12, 20, 22, 30, 38, 43, 48, 54, 67, 70, 77, 79, 89, 103, 105, 106, 110, 119, 131, 138, 142, 148], "aspect": [12, 24, 29, 43, 48, 49, 67, 154], "visibl": [12, 13, 43, 51, 109, 144], "render": [12, 22, 43, 51, 59, 158], "advantag": [12, 76, 92, 105, 111, 133], "independ": [12, 23, 30], "contact": [12, 88, 91, 100], "u": [12, 13, 16, 24, 29, 32, 47, 48, 55, 56, 58, 60, 81, 88, 91, 97, 100, 101, 102, 103, 108, 120, 131, 140, 143, 148, 156], "like": [12, 13, 24, 28, 29, 39, 41, 51, 54, 55, 59, 60, 67, 68, 79, 84, 86, 89, 92, 93, 94, 97, 98, 99, 101, 105, 106, 111, 118, 131, 133, 138, 151, 152, 155], "storm": [12, 17, 24, 25, 45, 117, 120, 121, 122, 123, 125, 126, 127], "surg": [12, 17, 24, 25, 45, 117, 120, 121, 122, 123, 126, 148], "empti": [12, 44, 98, 101, 104, 106, 139, 148, 154], "gitmodul": 12, "pull": [12, 18, 24, 26, 29, 54, 55, 57, 88, 96, 111, 116, 119, 120, 126, 131], "request": [12, 24, 26, 30, 54, 57, 72, 83, 88, 89, 93, 96, 98, 111, 119, 121, 126, 131, 142, 148, 154], "init": [12, 25, 28, 39, 45, 52, 57, 134], "leav": [12, 13, 16, 44, 58, 140, 154], "off": [12, 13, 18, 44, 48, 51, 59, 67, 79, 86, 93, 110, 140, 154], "won": [12, 13, 66, 84, 154], "hurt": [12, 63], "maintain": [12, 28, 105, 121, 140, 152, 157], "flavor": [12, 21, 92], "demonstr": [12, 25, 88, 94], "agre": [12, 28, 39, 53, 131, 151, 154, 157], "seen": [12, 22, 32, 35, 36, 37, 48, 71, 96, 139, 144], "cloud": 13, "elast": [13, 70], "sign": [13, 24, 77, 126, 148], "account": [13, 24, 28, 55, 85, 94], "750": 13, "hour": [13, 51, 59], "free": [13, 51, 62, 70, 81, 85, 96, 100, 102], "micro": 13, "suffici": [13, 16, 18, 20, 70, 71, 108, 113, 142], "tier": 13, "inform": [13, 14, 22, 25, 32, 33, 35, 36, 46, 47, 48, 49, 50, 58, 63, 72, 77, 78, 79, 83, 84, 89, 91, 93, 94, 95, 97, 98, 104, 106, 118, 121, 122, 124, 129, 130, 131, 134, 137, 139, 140, 142, 148, 151, 152, 155, 156, 157, 158], "uw": [13, 24], "escienc": 13, "aw": 13, "tutori": [13, 29, 55, 79, 82, 86, 91, 100, 106, 109], "gear": 13, "faq": [13, 25, 76], "price": 13, "charg": 13, "per": [13, 30, 44, 51, 59, 67, 71, 92, 140], "thereof": 13, "regardless": [13, 39, 66, 110, 139, 142], "cpu": [13, 52, 118, 121, 123, 151], "consol": [13, 93, 142], "tab": [13, 54, 129], "east": [13, 152], "cheaper": 13, "rate": 13, "menu": [13, 18, 25, 54, 59, 120, 129, 134, 156], "imag": [13, 35, 36, 39, 55, 59, 66, 111, 121, 133], "platform": [13, 51, 86, 94, 105, 111], "finish": [13, 77, 83], "load": [13, 59, 93, 95, 98, 104, 111, 154, 158], "databas": [13, 30, 70, 104, 108, 121, 152], "uwamath": 13, "bar": [13, 54, 148], "screen": [13, 28, 51, 59, 86, 93, 94, 118, 141, 143], "shapshot": 13, "machin": [13, 25, 71, 73, 111, 119, 137], "disk": [13, 44, 83, 92, 93, 111, 119], "ubuntu": 13, "linux": [13, 69, 80, 102, 111, 137], "popup": 13, "look": [13, 14, 22, 25, 28, 30, 39, 51, 54, 55, 59, 67, 68, 77, 79, 84, 89, 94, 98, 99, 103, 104, 106, 111, 114, 121, 133, 139, 140, 142, 151, 154, 155], "sort": [13, 39, 121, 138, 155], "larger": [13, 20, 32, 51, 59, 70, 71, 72, 77, 89, 113, 119, 126, 140, 142, 152], "cost": [13, 99], "continu": [13, 22, 28, 30, 49, 54, 81, 105, 131, 139, 160], "eventu": [13, 45, 124], "don": [13, 27, 28, 54, 55, 77, 93, 94, 100, 111, 141, 155], "pair": [13, 92, 111, 154], "secur": 13, "quick": [13, 25, 36, 45, 46, 56, 80, 111, 150], "close": [13, 39, 51, 54, 59, 66, 67, 92, 110, 124, 140, 148], "back": [13, 27, 29, 54, 55, 120], "statu": [13, 28, 50, 86, 103], "wait": 13, "until": [13, 32, 60, 66, 135], "refresh": [13, 44], "bottom": [13, 15, 30, 35, 36, 45, 48, 64, 66, 70, 83, 96, 97, 119, 120, 136, 146, 147], "scroll": 13, "down": [13, 30, 93, 118, 148, 152, 154], "dn": 13, "screenshot": [13, 51], "rjlkei": 13, "pem": 13, "abl": [13, 54, 106], "ssh": [13, 28], "keypair": 13, "50": [13, 17, 32, 51, 99, 114, 141], "19": [13, 17, 24, 127, 128, 129, 151], "75": [13, 17, 87, 103, 133], "229": 13, "amazonaw": 13, "gfortran": [13, 58, 71, 80, 82, 102, 137, 155], "ipython": [13, 73, 77, 79, 84, 85, 91, 93, 100, 103, 106, 117, 118], "scipi": [13, 84, 105, 148, 154], "netcdf": [13, 41, 45, 118, 121, 123, 125, 139, 141, 143, 148, 154, 156], "apach": 13, "server": [13, 29, 39, 51, 54, 55, 66, 121, 152, 156], "apt": [13, 80], "fetch": [13, 47], "bring": [13, 51, 54, 67], "master": [13, 15, 25, 29, 54, 55, 58, 96, 107, 118, 119, 120, 121, 122, 123, 124, 125, 126, 127, 128, 129, 132, 136, 146, 147], "make_lib": 13, "compil": [13, 25, 35, 36, 40, 46, 58, 63, 71, 73, 79, 80, 84, 91, 92, 96, 100, 104, 113, 131, 132, 137], "bashrc": [13, 41, 102, 137], "Of": [13, 26, 70, 103, 108, 152], "cours": [13, 26, 32, 44, 46, 60, 70, 94, 95, 103, 105, 108, 142, 152], "tar": [13, 59, 123, 129], "instruct": [13, 18, 24, 25, 29, 35, 36, 39, 51, 52, 54, 55, 68, 83, 85, 91, 94, 100, 103, 106, 120, 127, 129, 130, 155], "probabl": [13, 28, 51, 64, 66, 105, 106], "window": [13, 30, 67, 79, 137], "respons": [13, 48, 83, 98], "pretti": 13, "slow": [13, 51, 93, 102], "_plot": [13, 35, 36, 44, 67, 79, 138, 144], "local": [13, 17, 20, 25, 28, 51, 54, 59, 62, 63, 67, 87, 89, 96, 101, 119, 121, 135, 152, 154, 157], "sftp": 13, "much": [13, 18, 28, 32, 41, 51, 54, 72, 73, 76, 80, 105, 110, 113, 117, 124, 133, 139, 142, 151, 154], "smaller": [13, 18, 51, 64, 73, 89, 93, 113, 135, 139, 141, 142, 143, 154], "quicker": [13, 133], "browser": [13, 28, 29, 35, 36, 51, 54, 144], "explain": [13, 32, 48, 66, 126, 139, 144], "webserv": 13, "inbound": 13, "port": [13, 29, 90, 91, 96, 140], "22": [13, 24, 140, 154], "80": [13, 17, 51, 94, 133], "drop": [13, 54, 80, 124, 126, 135, 139], "tcp": 13, "Then": [13, 16, 28, 29, 30, 44, 54, 55, 56, 63, 66, 70, 71, 79, 83, 86, 94, 100, 101, 102, 106, 131, 133, 154, 155], "someth": [13, 27, 28, 54, 62, 69, 76, 93, 98, 99, 106, 152, 155, 157], "shot": 13, "ln": 13, "expos": [13, 73], "home": [13, 29, 30, 58, 137], "scp": 13, "TO": [13, 61, 81], "send": [13, 24, 96, 131], "remot": [13, 51, 55, 121, 154, 156], "rel": [13, 20, 30, 40, 46, 48, 51, 70, 71, 77, 91, 104, 106, 111, 114, 115, 116, 117, 118, 119, 120, 121, 122, 123, 124, 125, 126, 127, 128, 134, 140, 142, 144, 152, 156], "end": [13, 29, 30, 32, 44, 47, 51, 55, 59, 86, 93, 97, 103, 105, 108, 110, 118, 119, 121, 130, 132, 133, 141, 143, 148, 151], "retriev": [13, 47, 79, 84, 99, 154, 156], "sit": 13, "idl": 13, "action": [13, 14, 84], "restart": [13, 25, 44, 79, 91, 118, 119, 120, 121, 123, 126, 139, 141, 143], "later": [13, 39, 50, 51, 58, 79, 99, 130], "But": [13, 32, 39, 51, 77, 102, 114, 121, 135, 137], "futur": [13, 22, 25, 26, 35, 36, 39, 48, 53, 59, 64, 83, 99, 105, 118, 119, 121, 124, 140, 148, 152], "job": [13, 128], "eb": 13, "runclaw": [14, 50, 114, 123, 125, 131], "autom": [14, 54, 84, 111], "certain": [14, 32, 45, 57, 66, 93, 110, 118, 133, 139], "keep": [14, 25, 28, 32, 33, 35, 36, 71, 83, 86, 91, 101, 104, 111, 114, 142], "log": [14, 25, 28, 29, 89, 90, 91, 98, 99], "came": 14, "rundir": [14, 86], "environ": [14, 25, 28, 35, 36, 37, 40, 50, 51, 54, 57, 58, 67, 69, 71, 73, 95, 102, 104, 106, 119, 154, 155], "By": [15, 30, 41, 47, 51, 53, 59, 70, 77, 79, 83, 89, 93, 95, 102, 121, 133, 136, 146, 147, 154, 160], "noth": [15, 60, 101, 122, 136, 146, 147, 154, 157], "rememb": [15, 27, 71, 77, 94, 136, 146, 147], "b4step1": [15, 63, 157], "b4step2": [15, 136, 157], "b4step3": 15, "branch": [15, 18, 25, 29, 41, 50, 52, 55, 57, 58, 107, 111, 120, 121, 122, 123, 124, 125, 126, 127, 128, 129, 136, 146, 147], "tag": [15, 51, 55, 57, 107, 136, 140, 141, 146, 147], "bathymetri": [15, 45, 48, 51, 59, 97, 108, 119, 121, 132, 134, 136, 142, 152, 154], "area": [15, 22, 45, 99, 108, 119, 135, 136], "dy": [15, 47, 53, 59, 60, 72, 84, 89, 93, 117, 121, 136, 152, 154], "capac": [15, 97, 136, 139, 140, 141, 143], "length": [15, 30, 48, 59, 70, 96, 101, 119, 126, 136, 139, 140, 141, 142, 157], "latter": [15, 66, 96, 124, 133, 136, 139, 148, 157], "quantiti": [15, 32, 59, 67, 86, 90, 91, 97, 101, 132, 136, 142], "latitud": [15, 30, 32, 46, 47, 53, 70, 76, 117, 133, 136, 142, 148, 154], "coordinate_system": [15, 60, 136, 142], "impos": [16, 84, 110, 146, 147, 160], "chapter": [16, 131, 139, 157], "choic": [16, 45, 76, 99, 139, 141, 142, 143, 157], "bc_lower": [16, 83, 96, 103, 139, 141, 143], "bc_upper": [16, 83, 96, 103, 139, 141, 143], "extrap": [16, 96, 103, 139, 141], "outflow": [16, 139, 141, 143], "move": [16, 32, 35, 36, 45, 54, 58, 60, 70, 96, 110, 113, 115, 120, 142, 152, 153], "normal": [16, 33, 52, 54, 60, 77, 96, 106, 131, 132, 139, 140, 141, 143], "fairli": [16, 48, 119], "good": [16, 28, 48, 51, 61, 71, 81, 103, 108, 111, 119, 126, 131], "outgo": 16, "let": [16, 45, 58, 81, 108, 120, 126, 131], "pass": [16, 18, 19, 20, 28, 30, 44, 51, 59, 71, 77, 83, 86, 88, 90, 96, 99, 101, 102, 104, 111, 131, 141, 148, 154, 157], "without": [16, 22, 40, 44, 48, 59, 61, 62, 63, 66, 67, 77, 79, 81, 87, 91, 92, 93, 104, 106, 111, 133, 137, 141, 143, 148, 155, 157], "particularli": [16, 27, 29, 32, 50, 51, 56, 57, 58, 70, 72, 106, 114, 117, 121, 126, 135, 152], "perfect": 16, "hit": [16, 67, 79, 93, 139], "obliqu": 16, "angl": [16, 30, 47, 70], "perfectli": 16, "wall": [16, 41, 96, 103, 118, 121, 123, 139, 141, 143, 151], "veloc": [16, 18, 32, 47, 60, 67, 79, 96, 97, 103, 119, 134, 139, 140, 141, 142, 143, 157], "momentum": [16, 32, 48, 60, 64, 93, 126, 132, 142, 152], "third": [16, 32, 53, 87, 151, 154], "acoust": [16, 29, 35, 36, 48, 82, 83, 86, 88, 91, 99, 100, 117, 131, 141, 157], "p": [16, 17, 29, 79, 81, 83, 89, 92, 93, 97, 101, 131, 160], "h": [16, 17, 32, 39, 44, 45, 48, 51, 52, 59, 64, 97, 110, 117, 124, 132, 134, 135, 142, 152], "hu": [16, 60, 64, 97, 132, 142], "hv": [16, 60, 64, 132, 142], "equal": [16, 30, 32, 33, 51, 70, 94, 96, 110, 130, 133, 139, 141, 143, 152, 154], "far": [16, 18, 38, 42, 66, 76, 122, 124, 126], "symmetri": 16, "physic": [16, 44, 51, 84, 89, 91, 103, 110, 160], "slightli": [16, 39, 53, 119, 120, 126, 133], "complic": [16, 77, 84, 133, 138], "alwai": [16, 22, 26, 27, 28, 32, 41, 53, 54, 58, 67, 83, 92, 109, 110, 113, 114, 126, 135, 141, 142, 143, 152, 157], "alon": [16, 51], "topographi": [16, 17, 25, 32, 44, 45, 48, 53, 59, 64, 70, 78, 108, 109, 113, 114, 115, 117, 118, 121, 124, 127, 133, 134, 135, 146, 147, 153], "artifici": [16, 135], "ignor": [16, 51, 59, 92, 117, 126, 134, 154], "incom": 16, "truncat": [16, 92], "spuriou": [16, 32, 111], "extropl": 16, "dry": [16, 17, 25, 32, 45, 97, 124, 127, 132, 135], "land": [16, 39, 45, 46, 51, 54, 55, 59, 66, 78, 124, 135, 142, 154], "tank": [16, 48], "bc2amr": [16, 121], "calhounhelzellevequ": 16, "envis": 16, "fold": 16, "piec": [16, 48, 89], "glu": 16, "inflat": 16, "websit": [16, 51, 54, 144, 154], "bergercalhounhelzellevequ": 16, "hint": [16, 25, 45, 76, 79, 106, 142, 155], "suppos": [16, 63, 66, 67, 77, 106, 110], "mark": [16, 51, 66, 110, 111], "bit": [16, 22, 30, 55, 92, 94, 102, 132], "examin": [16, 18, 35, 36, 44, 66, 106], "own": [16, 20, 24, 28, 58, 83, 84, 90, 91, 100, 101, 108, 110, 121, 131, 144], "todo": [16, 131, 148, 154, 160], "poster": 17, "resourc": [17, 24, 28, 46, 105], "bale": 17, "rossmanith": 17, "siam": [17, 24, 25, 91, 131], "sci": 17, "24": [17, 32, 51, 133], "2002": 17, "955": [17, 133], "978": 17, "author": [17, 25, 45, 48, 87, 91, 92, 97, 109], "1989": 17, "hydrodynam": 17, "phy": 17, "82": 17, "64": [17, 89, 94, 102], "84": [17, 51], "34": [17, 51, 59, 91], "2011": [17, 24, 81], "pp": 17, "1195": 17, "1206": 17, "adv": 17, "awr11": 17, "1998": 17, "anal": 17, "35": [17, 32, 53, 70, 91], "2298": 17, "2316": 17, "1984": 17, "partial": [17, 73, 108], "differenti": [17, 30], "53": 17, "484": 17, "512": 17, "rigoutso": 17, "1991": 17, "ieee": 17, "tran": 17, "sy": [17, 39, 66, 86, 141, 143], "man": [17, 25, 45, 48, 142, 146, 147], "cyber": 17, "21": [17, 67, 87, 89, 117, 118, 129], "1278": 17, "1286": 17, "2018": [17, 24, 54, 121, 122, 129], "phd": 17, "thesi": [17, 99], "pure": [17, 52, 79, 89, 91, 92, 94, 99, 111, 132], "appl": 17, "geophi": 17, "173": 17, "4055": 17, "4074": 17, "info": [17, 29, 30, 33, 44, 55, 59, 67, 86, 89, 93, 99, 119, 140, 141, 148], "analysi": 17, "evalu": [17, 27, 30, 64, 83, 89, 99, 154, 157], "preprint": 17, "2000": [17, 53, 152, 154], "165": [17, 151], "126": [17, 154], "166": 17, "leveque96": 17, "1996": 17, "advect": [17, 77, 91, 94, 131, 132, 143, 157], "incompress": 17, "leveque1996": 17, "33": [17, 89, 133], "627": 17, "665": 17, "1997": [17, 91], "multi": [17, 51, 83, 113, 115, 118, 121, 157], "131": [17, 91], "327": [17, 91], "353": [17, 91], "wpalg": 17, "cambridg": 17, "press": [17, 94, 100], "uk": [17, 30], "gallery_fvmbook": 17, "acta": 17, "numerica": 17, "211": 17, "289": 17, "dg": 17, "actanum2011": 17, "techniqu": [17, 26], "2013": [17, 24, 91], "a351": [17, 91], "a377": [17, 91], "manuel": [17, 81, 91], "quezada": [17, 81, 91], "luna": [17, 81, 91], "matthew": [17, 81, 91], "kneplei": [17, 81, 91], "emmett": [17, 81, 91], "2012": [17, 22, 24, 48, 91], "scalabl": [17, 91], "c210": [17, 91], "c231": [17, 91], "sisc": [17, 91], "month": [17, 51, 91], "nov": [17, 91], "mandlietal2016": 17, "calhellev08": 17, "helzel": 17, "circular": 17, "spheric": [17, 51], "review": [17, 87], "2008": [17, 81, 87, 97], "723": 17, "752": 17, "leveque09": 17, "reproduc": [17, 53, 61, 81], "engin": [17, 51], "cise": 17, "11": [17, 32, 77, 97, 125, 126, 129], "2009": [17, 87, 92, 97], "27": [17, 32, 51, 59, 133], "levyon03": 17, "darryl": 17, "yong": 17, "solitari": 17, "layer": [17, 25, 44, 59, 89, 113, 115, 118, 119, 121], "media": 17, "math": [17, 51, 103], "63": [17, 133], "2003": 17, "1539": 17, "1560": 17, "mandli13a": 17, "72": [17, 51, 70], "91": 17, "2013it": 17, "aug": [17, 122], "mandli13b": 17, "dawson": 17, "36": [17, 47, 72, 89], "2014": [17, 24, 97, 112, 113, 114, 115, 116, 117, 129], "w": [17, 47, 131, 160], "clint": 17, "okada85": [17, 30, 70], "okada": [17, 25, 30, 45, 109, 152, 156], "surfac": [17, 22, 25, 30, 32, 39, 44, 45, 46, 48, 51, 70, 76, 78, 84, 91, 103, 107, 110, 117, 133, 134, 142, 152], "deform": [17, 30, 33, 45, 70, 156], "due": [17, 24, 30, 39, 47, 70, 111, 120, 121, 126, 135, 155], "shear": [17, 30], "tensil": 17, "fault": [17, 25, 30, 45, 109, 121, 128, 152, 156], "bull": [17, 30], "seism": [17, 30], "soc": [17, 30], "am": [17, 30], "1985": [17, 30], "1135": 17, "1154": 17, "decemb": [18, 128, 129], "14": [18, 32, 51, 70, 77, 128, 129, 133], "2021": [18, 126, 127, 128, 129], "accompani": [18, 21], "featur": [18, 22, 25, 28, 32, 39, 51, 54, 67, 77, 84, 110, 111, 116, 118, 119, 121, 126, 129, 142, 148, 152], "dev": [18, 24, 28, 54, 55, 94, 121, 122, 127, 128, 129], "binary32": [18, 92], "ascii": [18, 44, 53, 67, 83, 86, 93, 98, 119, 130, 139, 141, 143, 152, 158], "binary64": [18, 92], "dump": [18, 72, 139], "raw": [18, 139], "float64": 18, "kind": [18, 86, 88, 93, 123, 131], "trucat": 18, "float32": 18, "signific": [18, 64, 129, 134, 154], "post": [18, 24, 25, 26, 28, 51, 94, 127, 128, 144], "process": [18, 25, 35, 36, 45, 51, 52, 70, 83, 88, 89, 94, 100, 101, 104, 111, 119, 155], "fgout": [18, 59], "diff": [18, 50, 55, 113, 114, 115, 116, 117, 118, 119, 120, 121, 122, 123, 124, 125, 126, 127, 128], "raster": [18, 51, 53, 152], "greatli": [18, 26, 81, 134], "size": [18, 20, 30, 39, 44, 51, 59, 71, 72, 76, 89, 92, 94, 99, 119, 124, 140, 141, 143, 152, 154], "savefig": [18, 59], "filenam": [18, 31, 51, 117, 154], "svg": 18, "label": [18, 30, 49, 51, 53, 59, 117, 133, 152, 154], "graphic": [18, 23, 28, 52, 67, 76], "field": [18, 44, 59, 96, 98, 101, 119, 121, 148, 149], "pcolor_kwarg": 18, "turn": [18, 44, 46, 48, 59, 74, 77, 93, 111, 118, 124], "286": 18, "jsanim": [18, 113, 117], "to_jshtml": 18, "affect": [18, 22, 62, 119, 120, 126, 139, 152, 155], "particl": [18, 25, 45, 124], "track": [18, 24, 25, 28, 32, 33, 45, 51, 54, 56, 58, 71, 83, 91, 104, 111, 113, 122, 124, 127, 132, 142, 148], "monitor": [18, 22, 25, 33, 34, 38, 45, 66, 71, 114, 116, 119], "fixedgrid": [18, 142], "chile2010_fgmax": [18, 32], "file_prefix": [18, 92, 98], "file_format": [18, 44, 92, 98, 148], "older": [18, 22, 41, 52, 54, 57, 58, 99, 125, 140, 142], "changelog": [18, 22, 112, 113, 114, 115, 116, 117, 118, 119, 120, 121, 122, 123, 124, 125, 126, 127, 128, 129], "tarfil": [18, 55, 58, 120, 121, 122, 123, 124, 125, 126, 127, 128], "pip": [18, 25, 28, 29, 51, 55, 56, 85, 91, 94, 100, 102, 106, 120, 121, 122, 123, 124, 125, 126, 127, 128, 129, 137], "doc": [18, 23, 24, 28, 30, 51, 55, 87, 104, 105, 106, 120, 121, 122, 123, 124, 125, 126, 127, 128, 145], "docker": [18, 25, 55, 56, 120, 121, 122, 123, 124, 125, 126, 127, 128, 159], "migrat": 19, "intermedi": [19, 32, 70, 157], "easiest": [19, 28, 41, 73, 77, 79, 110, 157], "bulk": [19, 83, 97, 103, 131, 141, 157], "convers": [19, 25, 84, 92, 110, 133, 152, 156], "convert43to46": 19, "inspect": [19, 20, 51], "broken": [19, 20, 28, 68, 70, 111], "renam": [20, 22, 35, 36, 62, 96, 99], "achiev": [20, 84, 146, 147], "convert46to50": 20, "_4": 20, "complet": [20, 22, 28, 47, 62, 79, 83, 84, 94, 104, 111], "delet": [20, 28, 58], "variant": [20, 56, 104, 111], "combin": [20, 54, 59, 118, 156], "properli": [20, 32, 35, 36, 39, 40, 48, 51, 53, 54, 58, 59, 66, 69, 86, 111, 113, 116, 121, 124, 126, 137, 139, 142, 152, 154, 155, 157], "correct": [20, 28, 41, 54, 55, 63, 64, 67, 77, 83, 89, 94, 98, 104, 113, 114, 118, 135, 139, 141, 142, 143], "permut": 20, "th": [20, 22, 44, 131, 157], "reorder": [20, 22], "pattern": [20, 46, 51, 134], "carefulli": [20, 22, 64], "setaux": [20, 22, 63, 84, 113, 114, 131, 139, 141, 143], "sequenc": [20, 22, 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160, "space": 160, "godunov": 160, "high": 160, "formul": 160, "capac": 160}, "envversion": {"sphinx.domains.c": 2, "sphinx.domains.changeset": 1, "sphinx.domains.citation": 1, "sphinx.domains.cpp": 8, "sphinx.domains.index": 1, "sphinx.domains.javascript": 2, "sphinx.domains.math": 2, "sphinx.domains.python": 3, "sphinx.domains.rst": 2, "sphinx.domains.std": 2, "sphinx": 57}, "alltitles": {"ClawPlotAxes": [[0, "clawplotaxes"]], "Attributes": [[0, "attributes"], [1, "attributes"], [2, "attributes"], [3, "attributes"]], "Methods": [[0, "methods"], [1, "methods"], [2, "methods"], [3, "methods"]], "ClawPlotData": [[1, "clawplotdata"]], "ClawPlotFigure": [[2, "clawplotfigure"]], "ClawPlotItem": [[3, "clawplotitem"]], "Special attributes for all 1d plots, plot_type = \u20181d\u2026\u2019": [[3, "special-attributes-for-all-1d-plots-plot-type-1d"]], "Special attributes for plot_type = \u20181d_plot\u2019": [[3, "special-attributes-for-plot-type-1d-plot"]], "Special attributes for plot_type = \u20181d_fill_between\u2019": [[3, "special-attributes-for-plot-type-1d-fill-between"]], "Special attributes for plot_type = \u20181d_from_2d_data\u2019": [[3, "special-attributes-for-plot-type-1d-from-2d-data"]], "Special attributes for all 2d plots, plot_type = \u20182d\u2026\u2019": [[3, "special-attributes-for-all-2d-plots-plot-type-2d"]], "Special attributes for plot_type = \u20182d_contour\u2019": [[3, "special-attributes-for-plot-type-2d-contour"]], "Special attributes for plot_type = \u20182d_pcolor\u2019": [[3, "special-attributes-for-plot-type-2d-pcolor"]], "AMR Attributes": [[3, "amr-attributes"]], "About this software": [[4, "about-this-software"]], "License": [[4, "license"], [61, "license"], [81, "license"]], "Authors": [[4, "authors"]], "Citing this work": [[4, "citing-this-work"]], "Funding": [[4, "funding"], [81, "funding"]], "Guiding AMR with adjoint flagging": [[5, "guiding-amr-with-adjoint-flagging"]], "Using adjoint flagging in GeoClaw": [[5, "using-adjoint-flagging-in-geoclaw"]], "Adaptive mesh refinement (AMR) algorithms": [[6, "adaptive-mesh-refinement-amr-algorithms"]], "Ghost cells and boundary conditions for AMR": [[6, "ghost-cells-and-boundary-conditions-for-amr"]], "Choosing and initializing finer grids": [[6, "choosing-and-initializing-finer-grids"]], "Flagging cells for refinement": [[6, "flagging-cells-for-refinement"]], "For more details": [[6, "for-more-details"]], "AMRClaw Description and Detailed Contents": [[7, "amrclaw-description-and-detailed-contents"]], "AMRClaw for 1d problems": [[8, "amrclaw-for-1d-problems"]], "Old approach, deprecated:": [[8, "old-approach-deprecated"]], "Doxygen documentation of AMRClaw": [[9, "doxygen-documentation-of-amrclaw"]], "AMRClaw Flowcharts": [[10, "amrclaw-flowcharts"]], "Application documentation": [[11, "application-documentation"]], "Converting README.rst to README.html": [[11, "converting-readme-rst-to-readme-html"]], "Converting code to html with clawcode2html": [[11, "converting-code-to-html-with-clawcode2html"]], "Clawpack Applications repository": [[12, "clawpack-applications-repository"]], "Jupyter Notebooks": [[12, "jupyter-notebooks"]], "Submodules": [[12, "submodules"]], "Examples included with Clawpack": [[12, "examples-included-with-clawpack"]], "Amazon Web Services EC2 Clawpack AMI": [[13, "amazon-web-services-ec2-clawpack-ami"]], "Finding the Clawpack AMI": [[13, "finding-the-clawpack-ami"]], "Launching an instance": [[13, "launching-an-instance"]], "Logging on to your instance": [[13, "logging-on-to-your-instance"]], "Using Clawpack": [[13, "using-clawpack"]], "Viewing plots of results": [[13, "viewing-plots-of-results"]], "Viewing webpages directly from your instance": [[13, "viewing-webpages-directly-from-your-instance"]], "Transferring files to/from your instance": [[13, "transferring-files-to-from-your-instance"]], "Stopping your instance": [[13, "stopping-your-instance"]], "Creating your own AMI": [[13, "creating-your-own-ami"]], "b4run function": [[14, "b4run-function"]], "b4step default routines": [[15, "b4step-default-routines"]], "b4step routine in GeoClaw": [[15, "b4step-routine-in-geoclaw"]], "Boundary conditions": [[16, "boundary-conditions"], [160, "boundary-conditions"]], "Boundary conditions for adaptive refinement": [[16, "boundary-conditions-for-adaptive-refinement"]], "Boundary conditions for GeoClaw": [[16, "boundary-conditions-for-geoclaw"]], "Boundary conditions for clamshell grids on the sphere": [[16, "boundary-conditions-for-clamshell-grids-on-the-sphere"]], "User-defined boundary conditions": [[16, "user-defined-boundary-conditions"]], "Bibliography": [[17, "bibliography"]], "Papers describing the Clawpack software and algorithms": [[17, "papers-describing-the-clawpack-software-and-algorithms"]], "Papers describing applications": [[17, "papers-describing-applications"]], "Other references": [[17, "other-references"]], "Changes to master since v5.8.2": [[18, "changes-to-master-since-v5-8-2"]], "Changes that are not backward compatible": [[18, "changes-that-are-not-backward-compatible"], [121, "changes-that-are-not-backward-compatible"], [122, "changes-that-are-not-backward-compatible"], [123, "changes-that-are-not-backward-compatible"], [124, "changes-that-are-not-backward-compatible"], [125, "changes-that-are-not-backward-compatible"], [126, "changes-that-are-not-backward-compatible"], [127, "changes-that-are-not-backward-compatible"], [128, "changes-that-are-not-backward-compatible"]], "General changes": [[18, "general-changes"], [121, "general-changes"], [122, "general-changes"], [123, "general-changes"], [124, "general-changes"], [125, "general-changes"], [126, "general-changes"], [127, "general-changes"], [128, "general-changes"]], "Changes to classic": [[18, "changes-to-classic"], [113, "changes-to-classic"], [114, "changes-to-classic"], [115, "changes-to-classic"], [116, "changes-to-classic"], [117, "changes-to-classic"], [118, "changes-to-classic"], [119, "changes-to-classic"], [120, "changes-to-classic"], [121, "changes-to-classic"], [122, "changes-to-classic"], [123, "changes-to-classic"], [124, "changes-to-classic"], [125, "changes-to-classic"], [126, "changes-to-classic"], [127, "changes-to-classic"], [128, "changes-to-classic"]], "Changes to clawutil": [[18, "changes-to-clawutil"], [113, "changes-to-clawutil"], [114, "changes-to-clawutil"], [115, "changes-to-clawutil"], [116, "changes-to-clawutil"], [117, "changes-to-clawutil"], [118, "changes-to-clawutil"], [119, "changes-to-clawutil"], [120, "changes-to-clawutil"], [121, "changes-to-clawutil"], [122, "changes-to-clawutil"], [123, "changes-to-clawutil"], [124, "changes-to-clawutil"], [125, "changes-to-clawutil"], [126, "changes-to-clawutil"], [127, "changes-to-clawutil"], [128, "changes-to-clawutil"]], "Changes to visclaw": [[18, "changes-to-visclaw"], [113, "changes-to-visclaw"], [114, "changes-to-visclaw"], [115, "changes-to-visclaw"], [116, "changes-to-visclaw"], [117, "changes-to-visclaw"], [118, "changes-to-visclaw"], [119, "changes-to-visclaw"], [120, "changes-to-visclaw"], [121, "changes-to-visclaw"], [122, "changes-to-visclaw"], [123, "changes-to-visclaw"], [124, "changes-to-visclaw"], [125, "changes-to-visclaw"], [126, "changes-to-visclaw"], [127, "changes-to-visclaw"], [128, "changes-to-visclaw"]], "Changes to riemann": [[18, "changes-to-riemann"], [113, "changes-to-riemann"], [114, "changes-to-riemann"], [115, "changes-to-riemann"], [116, "changes-to-riemann"], [117, "changes-to-riemann"], [118, "changes-to-riemann"], [119, "changes-to-riemann"], [120, "changes-to-riemann"], [121, "changes-to-riemann"], [122, "changes-to-riemann"], [123, "changes-to-riemann"], [124, "changes-to-riemann"], [125, "changes-to-riemann"], [126, "changes-to-riemann"], [127, "changes-to-riemann"], [128, "changes-to-riemann"]], "Changes to amrclaw": [[18, "changes-to-amrclaw"], [113, "changes-to-amrclaw"], [114, "changes-to-amrclaw"], [115, "changes-to-amrclaw"], [116, "changes-to-amrclaw"], [117, "changes-to-amrclaw"], [118, "changes-to-amrclaw"], [119, "changes-to-amrclaw"], [120, "changes-to-amrclaw"], [121, "changes-to-amrclaw"], [122, "changes-to-amrclaw"], [123, "changes-to-amrclaw"], [124, "changes-to-amrclaw"], [125, "changes-to-amrclaw"], [126, "changes-to-amrclaw"], [127, "changes-to-amrclaw"], [128, "changes-to-amrclaw"]], "Changes to geoclaw": [[18, "changes-to-geoclaw"], [113, "changes-to-geoclaw"], [114, "changes-to-geoclaw"], [115, "changes-to-geoclaw"], [116, "changes-to-geoclaw"], [117, "changes-to-geoclaw"], [118, "changes-to-geoclaw"], [119, "changes-to-geoclaw"], [120, "changes-to-geoclaw"], [121, "changes-to-geoclaw"], [122, "changes-to-geoclaw"], [123, "changes-to-geoclaw"], [124, "changes-to-geoclaw"], [125, "changes-to-geoclaw"], [126, "changes-to-geoclaw"], [127, "changes-to-geoclaw"], [128, "changes-to-geoclaw"]], "Changes to PyClaw": [[18, "changes-to-pyclaw"], [112, "changes-to-pyclaw"], [113, "changes-to-pyclaw"], [114, "changes-to-pyclaw"], [115, "changes-to-pyclaw"], [116, "changes-to-pyclaw"], [117, "changes-to-pyclaw"], [118, "changes-to-pyclaw"], [119, "changes-to-pyclaw"], [120, "changes-to-pyclaw"], [121, "changes-to-pyclaw"], [122, "changes-to-pyclaw"], [123, "changes-to-pyclaw"], [124, "changes-to-pyclaw"], [125, "changes-to-pyclaw"], [126, "changes-to-pyclaw"], [127, "changes-to-pyclaw"], [128, "changes-to-pyclaw"]], "Other Clawpack Repositories": [[18, "other-clawpack-repositories"], [120, "other-clawpack-repositories"], [121, "other-clawpack-repositories"], [122, "other-clawpack-repositories"], [123, "other-clawpack-repositories"], [124, "other-clawpack-repositories"], [125, "other-clawpack-repositories"], [126, "other-clawpack-repositories"], [127, "other-clawpack-repositories"], [128, "other-clawpack-repositories"]], "Converting from Clawpack 4.3 to 4.6": [[19, "converting-from-clawpack-4-3-to-4-6"]], "Converting from Clawpack 4.6 to 5.0": [[20, "converting-from-clawpack-4-6-to-5-0"]], "Python conversion tool": [[20, "python-conversion-tool"]], "Clawpack 4.x links": [[21, "clawpack-4-x-links"]], "Changes in Clawpack 5.0": [[22, "changes-in-clawpack-5-0"]], "PyClaw in 5.0": [[22, "pyclaw-in-5-0"]], "Fortran package changes": [[22, "fortran-package-changes"]], "Changes to input parameters in setrun.py from 4.x to 5.0": [[22, "changes-to-input-parameters-in-setrun-py-from-4-x-to-5-0"]], "Changes to general parameters": [[22, "changes-to-general-parameters"]], "Changes to AMR parameters": [[22, "changes-to-amr-parameters"]], "Changes to GeoClaw parameters": [[22, "changes-to-geoclaw-parameters"]], "Changes to plotting routines": [[22, "changes-to-plotting-routines"]], "Clawpack components": [[23, "clawpack-components"]], "Other repositories": [[23, "other-repositories"]], "Clawpack Community": [[24, "clawpack-community"]], "User Workshops, Clinics, and Tutorials": [[24, "user-workshops-clinics-and-tutorials"]], "Available for streaming": [[24, "available-for-streaming"]], "Upcoming": [[24, "upcoming"], [24, "id1"]], "Recent": [[24, "recent"]], "Developer Workshops and Sprint Sessions": [[24, "developer-workshops-and-sprint-sessions"]], "Previous": [[24, "previous"]], "Other Clawpack events": [[24, "other-clawpack-events"]], "Contents": [[25, "id1"], [28, "contents"], [39, "contents"], [66, "contents"], [77, "contents"], [83, "contents"], [93, "contents"], [99, "contents"], [111, "contents"], [133, "contents"]], "Full Table of Contents": [[25, "full-table-of-contents"]], "Overview and Getting Started": [[25, "overview-and-getting-started"]], "Examples and Applications": [[25, "examples-and-applications"]], "Classic, AMRClaw, and GeoClaw": [[25, "classic-amrclaw-and-geoclaw"]], "Using the Fortran codes": [[25, "using-the-fortran-codes"]], "AMRClaw: adaptive mesh refinement": [[25, "amrclaw-adaptive-mesh-refinement"]], "GeoClaw: geophysical flows": [[25, "geoclaw-geophysical-flows"]], "PyClaw": [[25, "pyclaw"], [35, "pyclaw"], [91, "pyclaw"], [111, "pyclaw"], [150, "pyclaw"]], "Riemann": [[25, "riemann"]], "VisClaw: Plotting and Visualization Tools": [[25, "visclaw-plotting-and-visualization-tools"]], "Migrating applications from older versions of Clawpack": [[25, "migrating-applications-from-older-versions-of-clawpack"]], "Developers\u2019 resources": [[25, "developers-resources"]], "References": [[25, "references"], [52, "references"]], "Contributing examples and applications": [[26, "contributing-examples-and-applications"]], "current_data": [[27, "current-data"]], "Attributes of current_data:": [[27, "attributes-of-current-data"]], "Developers\u2019 Guide": [[28, "developers-guide"]], "Guidelines for contributing": [[28, "guidelines-for-contributing"]], "Reporting and fixing bugs": [[28, "reporting-and-fixing-bugs"]], "Developer communication": [[28, "developer-communication"]], "Installation instructions for developers": [[28, "installation-instructions-for-developers"]], "Cloning the most recent code from Github": [[28, "cloning-the-most-recent-code-from-github"]], "Checking out the master branch on each repository": [[28, "checking-out-the-master-branch-on-each-repository"]], "Updating to the latest master branch": [[28, "updating-to-the-latest-master-branch"]], "Never commit to master": [[28, "never-commit-to-master"]], "Adding your fork as a remote": [[28, "adding-your-fork-as-a-remote"]], "Modifying code": [[28, "modifying-code"]], "Issuing a pull request": [[28, "issuing-a-pull-request"]], "Testing a pull request": [[28, "testing-a-pull-request"]], "Top-level pull requests": [[28, "top-level-pull-requests"]], "Git workflow": [[28, "git-workflow"]], "Catching errors with Pyflakes and Pylint": [[28, "catching-errors-with-pyflakes-and-pylint"]], "Checking test coverage": [[28, "checking-test-coverage"]], "Trouble-Shooting Tips": [[28, "trouble-shooting-tips"]], "Docker for Clawpack": [[29, "docker-for-clawpack"]], "Using Version 5.8.0 or above": [[29, "using-version-5-8-0-or-above"]], "Getting started": [[29, "getting-started"]], "A better image for GeoClaw users": [[29, "a-better-image-for-geoclaw-users"]], "Stopping a container": [[29, "stopping-a-container"]], "Restarting a container": [[29, "restarting-a-container"]], "Running Jupyter notebooks": [[29, "running-jupyter-notebooks"]], "Moving files between the docker container and the host machine": [[29, "moving-files-between-the-docker-container-and-the-host-machine"]], "Some other useful docker commands": [[29, "some-other-useful-docker-commands"]], "Creating your own docker image": [[29, "creating-your-own-docker-image"]], "Dockerfiles for binder": [[29, "dockerfiles-for-binder"]], "dtopotools module for moving topography": [[30, "dtopotools-module-for-moving-topography"]], "Documentation auto-generated from the module docstrings": [[30, "module-clawpack.geoclaw.dtopotools"], [33, "module-clawpack.geoclaw.fgmax_tools"], [47, "module-clawpack.geoclaw.util"], [59, "module-clawpack.geoclaw.kmltools"], [154, "module-clawpack.geoclaw.topotools"]], "Fortran 77 vs. Fortran 90 files": [[31, "fortran-77-vs-fortran-90-files"]], "Fixed grid monitoring": [[32, "fixed-grid-monitoring"]], "Input file specification": [[32, "input-file-specification"]], "Different point styles": [[32, "different-point-styles"]], "Other attributes": [[32, "other-attributes"]], "Values to monitor": [[32, "values-to-monitor"]], "Choice of interpolation procedure": [[32, "choice-of-interpolation-procedure"]], "A simple example": [[32, "a-simple-example"]], "Processing and plotting fgmax output": [[32, "processing-and-plotting-fgmax-output"]], "Format of the output files": [[32, "format-of-the-output-files"]], "fgmax_tools module for working with topography data": [[33, "fgmax-tools-module-for-working-with-topography-data"]], "Fixed grid output": [[34, "fixed-grid-output"]], "Running an example": [[35, "running-an-example"], [36, "running-an-example"], [37, "running-an-example"]], "Classic": [[35, "classic"], [36, "classic"], [150, "classic"]], "Testing your Fortran installation and running an example": [[36, "testing-your-fortran-installation-and-running-an-example"]], "More examples": [[36, "more-examples"]], "Testing a PyClaw installation and running an example": [[37, "testing-a-pyclaw-installation-and-running-an-example"]], "From the Jupyter notebook": [[37, "from-the-jupyter-notebook"]], "From the IPython interpreter": [[37, "from-the-ipython-interpreter"]], "From the command line": [[37, "from-the-command-line"], [88, "from-the-command-line"]], "Specifying flagregions for adaptive refinement": [[38, "specifying-flagregions-for-adaptive-refinement"]], "Using ruled rectangles as flagregions": [[38, "using-ruled-rectangles-as-flagregions"]], "Force Cells to be Dry Initially": [[39, "force-cells-to-be-dry-initially"]], "Examples": [[39, "examples"], [44, "examples"], [66, "examples"], [91, "examples"], [133, "examples"]], "Sample topography from a 1/3 arcsecond DEM": [[39, "sample-topography-from-a-1-3-arcsecond-dem"], [66, "sample-topography-from-a-1-3-arcsecond-dem"]], "Creating the force_dry_init array": [[39, "creating-the-force-dry-init-array"]], "Create file to read into GeoClaw": [[39, "create-file-to-read-into-geoclaw"]], "Usage in GeoClaw Fortran code": [[39, "usage-in-geoclaw-fortran-code"]], "Internal GeoClaw modifications": [[39, "internal-geoclaw-modifications"]], "Fortran version": [[40, "fortran-version"]], "Makefiles": [[40, "makefiles"]], "More tips": [[40, "more-tips"]], "Fortran Compilers": [[41, "fortran-compilers"]], "FC environment variable": [[41, "fc-environment-variable"]], "FFLAGS environment variable": [[41, "fflags-environment-variable"]], "LFLAGS environment variable": [[41, "lflags-environment-variable"]], "Pre-Processor and the PPFLAGS environment variable": [[41, "pre-processor-and-the-ppflags-environment-variable"]], "gfortran compiler": [[41, "gfortran-compiler"]], "Intel fortran compiler": [[41, "intel-fortran-compiler"]], "Examples from the book FVMHP": [[42, "examples-from-the-book-fvmhp"]], "Available examples": [[42, "available-examples"]], "Clawpack Gallery": [[43, "clawpack-gallery"]], "Gauges": [[44, "gauges"]], "Gauge parameters in setrun": [[44, "gauge-parameters-in-setrun"]], "Plotting tools": [[44, "plotting-tools"]], "Plotting gauge locations": [[44, "plotting-gauge-locations"]], "GeoClaw Description and Detailed Contents": [[45, "geoclaw-description-and-detailed-contents"]], "Getting started with GeoClaw": [[46, "getting-started-with-geoclaw"]], "Running a GeoClaw code": [[46, "running-a-geoclaw-code"]], "Topography": [[46, "topography"]], "Plotting GeoClaw results": [[46, "plotting-geoclaw-results"]], "Setting up a new example": [[46, "setting-up-a-new-example"]], "geoclaw.util module of utility functions": [[47, "geoclaw-util-module-of-utility-functions"]], "Cautionary Hints on using GeoClaw": [[48, "cautionary-hints-on-using-geoclaw"]], "Tsunami hazard modeling": [[48, "tsunami-hazard-modeling"]], "GeoClaw plotting tools": [[49, "geoclaw-plotting-tools"]], "Plotting water depth or surface elevation": [[49, "plotting-water-depth-or-surface-elevation"]], "Tips on latitude-longitude coordinate axes": [[49, "tips-on-latitude-longitude-coordinate-axes"]], "Keeping track of repository versions with Git": [[50, "keeping-track-of-repository-versions-with-git"]], "Visualizing GeoClaw results in Google Earth": [[51, "visualizing-geoclaw-results-in-google-earth"]], "Basic requirements": [[51, "basic-requirements"]], "Optional GDAL library": [[51, "optional-gdal-library"]], "An example : The Chile 2010 tsunami event": [[51, "an-example-the-chile-2010-tsunami-event"]], "Plotting attributes needed for Google Earth": [[51, "plotting-attributes-needed-for-google-earth"]], "plotdata attributes": [[51, "plotdata-attributes"]], "plotfigure attributes": [[51, "plotfigure-attributes"]], "Creating the figures": [[51, "creating-the-figures"]], "plotaxes attributes": [[51, "plotaxes-attributes"]], "plotitem attributes": [[51, "plotitem-attributes"]], "Adding a colorbar overlay": [[51, "adding-a-colorbar-overlay"]], "Gauge plots": [[51, "gauge-plots"]], "Additional plotdata attributes": [[51, "additional-plotdata-attributes"]], "Plotting tips": [[51, "plotting-tips"]], "KML and KMZ files": [[51, "kml-and-kmz-files"]], "Tiling images for faster loading": [[51, "tiling-images-for-faster-loading"]], "Removing aliasing artifacts": [[51, "removing-aliasing-artifacts"]], "Creating multiple figures at different resolutions": [[51, "creating-multiple-figures-at-different-resolutions"]], "Mapping topography data to latitude/longitude coordinates": [[51, "mapping-topography-data-to-latitude-longitude-coordinates"]], "Publishing your results": [[51, "id1"]], "Using the GPU version of Clawpack": [[52, "using-the-gpu-version-of-clawpack"]], "Grid registration": [[53, "grid-registration"]], "NetCDF files": [[53, "netcdf-files"]], "Guide for updating this documentation": [[54, "guide-for-updating-this-documentation"]], "Git branches and tags": [[54, "git-branches-and-tags"]], "Configuration and style files": [[54, "configuration-and-style-files"]], "Updating the docs for a new release": [[54, "updating-the-docs-for-a-new-release"]], "To generate docs including previous versions": [[54, "to-generate-docs-including-previous-versions"]], "Updating the gallery": [[54, "updating-the-gallery"]], "Updating the webpages": [[54, "updating-the-webpages"]], "Extra files for webpages not built by Sphinx": [[54, "extra-files-for-webpages-not-built-by-sphinx"]], "Pages from other clawpack repositories": [[54, "pages-from-other-clawpack-repositories"]], "Guide for doing a Clawpack release": [[55, "guide-for-doing-a-clawpack-release"]], "Preparation": [[55, "preparation"]], "Version numbers": [[55, "version-numbers"]], "Release candidates": [[55, "release-candidates"]], "Create a tar file and a Github release": [[55, "create-a-tar-file-and-a-github-release"]], "Final release": [[55, "final-release"]], "Pypi": [[55, "pypi"]], "Zenodo": [[55, "zenodo"]], "Open Science Framework (OSF)": [[55, "open-science-framework-osf"]], "Updating the documentation": [[55, "updating-the-documentation"]], "Updating the apps repository": [[55, "updating-the-apps-repository"]], "Updating the Dockerfile": [[55, "updating-the-dockerfile"]], "Installing Clawpack": [[56, "installing-clawpack"]], "Next steps:": [[56, "next-steps"], [57, "next-steps"], [58, "next-steps"]], "Options for installing Clawpack Fortran codes": [[57, "options-for-installing-clawpack-fortran-codes"]], "tar file": [[57, "tar-file"]], "git clone": [[57, "git-clone"]], "pip install instructions": [[58, "pip-install-instructions"]], "Quick Installation of PyClaw with pip": [[58, "quick-installation-of-pyclaw-with-pip"]], "Quick Installation of all packages with pip": [[58, "quick-installation-of-all-packages-with-pip"]], "Using pip to install a different version": [[58, "using-pip-to-install-a-different-version"]], "Experimenting with code in the examples directories": [[58, "experimenting-with-code-in-the-examples-directories"]], "Troubleshooting pip install": [[58, "troubleshooting-pip-install"]], "kmltools module of utility functions": [[59, "kmltools-module-of-utility-functions"]], "Lagrangian gauges for particle tracking": [[60, "lagrangian-gauges-for-particle-tracking"]], "Specifying Lagrangian Gauges": [[60, "specifying-lagrangian-gauges"]], "Visclaw tools for plotting": [[60, "visclaw-tools-for-plotting"]], "Clawpack Makefiles": [[62, "clawpack-makefiles"]], "Applications directory Makefiles": [[62, "applications-directory-makefiles"]], "output": [[62, "output"]], "plots": [[62, "plots"]], "Variables": [[62, "variables"]], "Compiler flags": [[62, "compiler-flags"]], "Duplicate Base Source Name": [[62, "duplicate-base-source-name"]], "Library routines in Makefiles": [[63, "library-routines-in-makefiles"]], "Replacing files with the same name as library files": [[63, "replacing-files-with-the-same-name-as-library-files"]], "Using a modified library routine with a different name": [[63, "using-a-modified-library-routine-with-a-different-name"]], "Manning friction term": [[64, "manning-friction-term"]], "The mapc2p function": [[65, "the-mapc2p-function"]], "Marching Front algorithm": [[66, "marching-front-algorithm"]], "Function arguments": [[66, "function-arguments"]], "output array": [[66, "output-array"]], "creating a masked array": [[66, "creating-a-masked-array"]], "topofile mask for initializing dry points": [[66, "topofile-mask-for-initializing-dry-points"]], "fgmax points": [[66, "fgmax-points"]], "flag regions": [[66, "flag-regions"]], "The mask argument": [[66, "the-mask-argument"]], "The previous_pts_chosen argument": [[66, "the-previous-pts-chosen-argument"]], "Finding all points below a given elevation": [[66, "finding-all-points-below-a-given-elevation"]], "Create a buffer zone along shore": [[66, "create-a-buffer-zone-along-shore"]], "Choose points only near shore": [[66, "choose-points-only-near-shore"]], "Write out the masked array indicating fgmax points": [[66, "write-out-the-masked-array-indicating-fgmax-points"]], "Creating an AMR flag region": [[66, "creating-an-amr-flag-region"]], "Determining dry areas below MHW": [[66, "determining-dry-areas-below-mhw"]], "Plotting using Matlab": [[67, "plotting-using-matlab"]], "The Matlab search path": [[67, "the-matlab-search-path"]], "Creating output files": [[67, "creating-output-files"]], "The plotclaw command": [[67, "the-plotclaw-command"]], "The setplot file": [[67, "the-setplot-file"]], "The afterframe file": [[67, "the-afterframe-file"]], "Getting help": [[67, "getting-help"]], "Trouble shooting": [[67, "trouble-shooting"]], "Output files not found": [[67, "output-files-not-found"]], "MaxFrames not set": [[67, "maxframes-not-set"]], "Switching examples": [[67, "switching-examples"]], "Matlab Gallery": [[67, "matlab-gallery"]], "Using NetCDF output": [[68, "using-netcdf-output"]], "To install netcdf": [[68, "to-install-netcdf"]], "To compile with netcdf": [[68, "to-compile-with-netcdf"]], "To plot the results": [[68, "to-plot-the-results"]], "Creating a new application directory": [[69, "creating-a-new-application-directory"]], "Copying an existing example": [[69, "copying-an-existing-example"]], "Earthquake sources: Fault slip and the Okada model": [[70, "earthquake-sources-fault-slip-and-the-okada-model"]], "Fault slip on rectangular subfaults": [[70, "fault-slip-on-rectangular-subfaults"]], "Okada model": [[70, "okada-model"]], "Kinematic rupture": [[70, "kinematic-rupture"]], "Fault slip on triangular subfaults": [[70, "fault-slip-on-triangular-subfaults"]], "Using OpenMP": [[71, "using-openmp"]], "Using OpenMP with AMR": [[71, "using-openmp-with-amr"]], "Fixed grid output in GeoClaw": [[71, "fixed-grid-output-in-geoclaw"]], "Output data formats": [[72, "output-data-formats"]], "ASCII output data format": [[72, "ascii-output-data-format"]], "fort.t0002": [[72, "fort-t0002"]], "fort.q0002": [[72, "fort-q0002"]], "Raw binary output data format": [[72, "raw-binary-output-data-format"]], "NetCDF output data format": [[72, "netcdf-output-data-format"]], "Output of aux arrays": [[72, "output-of-aux-arrays"]], "Which Clawpack solver should I use?": [[73, "which-clawpack-solver-should-i-use"]], "Installation and user interface": [[73, "installation-and-user-interface"]], "Algorithmic differences": [[73, "algorithmic-differences"]], "Parallel computing": [[73, "parallel-computing"]], "Clawpack Community Photos": [[74, "clawpack-community-photos"]], "2016 Developers\u2019 workshop at University of Washington": [[74, "id1"]], "2015 Developers\u2019 workshop at University of Utah": [[74, "id2"]], "2014 HPC3 workshop at KAUST": [[74, "id3"]], "2013 Claw-Dev workshop at UW": [[74, "id4"]], "2012 HPC3 workshop at KAUST": [[74, "id6"]], "2011 coding sprints at UW": [[74, "coding-sprints-at-uw"]], "2010 GeoClaw hacking UW": [[74, "geoclaw-hacking-uw"]], "Plotting examples": [[75, "plotting-examples"]], "Plotting with Visclaw": [[76, "plotting-with-visclaw"]], "Plotting as post-processing": [[76, "plotting-as-post-processing"]], "Plotting on the fly": [[76, "plotting-on-the-fly"]], "Plotting hints and FAQ": [[77, "plotting-hints-and-faq"]], "What\u2019s the difference between make .plots and make plots ?": [[77, "what-s-the-difference-between-make-plots-and-make-plots"]], "How to plot a something other than a component of q?": [[77, "how-to-plot-a-something-other-than-a-component-of-q"]], "How to add another curve to a plot, e.g. the true solution?": [[77, "how-to-add-another-curve-to-a-plot-e-g-the-true-solution"]], "How to change the title in a plot?": [[77, "how-to-change-the-title-in-a-plot"]], "How to specify outdir, the directory to find fort.* files for plotting?": [[77, "how-to-specify-outdir-the-directory-to-find-fort-files-for-plotting"]], "How to specify a different outdir for some plot item?": [[77, "how-to-specify-a-different-outdir-for-some-plot-item"]], "How to set plot parameters that are not provided as attributes of ClawPlotItem?": [[77, "how-to-set-plot-parameters-that-are-not-provided-as-attributes-of-clawplotitem"]], "How to change the size or background color of a figure?": [[77, "how-to-change-the-size-or-background-color-of-a-figure"]], "Specifying colormaps for pcolor or contourf plots": [[77, "specifying-colormaps-for-pcolor-or-contourf-plots"]], "How to debug setplot.py?": [[77, "how-to-debug-setplot-py"]], "Plotting routines for GeoClaw": [[78, "plotting-routines-for-geoclaw"]], "Plotting options in Python": [[79, "plotting-options-in-python"]], "Producing html plots from the command line": [[79, "producing-html-plots-from-the-command-line"]], "Producing a latex file with plots from the command line": [[79, "producing-a-latex-file-with-plots-from-the-command-line"]], "Setting plot parameters with a setplot function": [[79, "setting-plot-parameters-with-a-setplot-function"]], "Interactive plotting with Iplotclaw": [[79, "interactive-plotting-with-iplotclaw"]], "Access to current_data": [[79, "access-to-current-data"]], "printframes": [[79, "printframes"]], "Specifying what and how to plot": [[79, "specifying-what-and-how-to-plot"]], "Installation Prerequisites": [[80, "installation-prerequisites"]], "Operating system": [[80, "operating-system"]], "Fortran": [[80, "fortran"]], "Python": [[80, "python"]], "pip": [[80, "pip"]], "Git": [[80, "git"]], "About PyClaw": [[81, "about-pyclaw"]], "Contributors": [[81, "contributors"]], "PyClaw Basics": [[82, "pyclaw-basics"]], "Understanding Pyclaw Classes": [[83, "understanding-pyclaw-classes"]], "Flow of a Pyclaw Simulation": [[83, "flow-of-a-pyclaw-simulation"]], "Creation of a Pyclaw Solution": [[83, "creation-of-a-pyclaw-solution"]], "Creation of a Pyclaw Solver": [[83, "creation-of-a-pyclaw-solver"]], "Creating and Running a Simulation with Controller": [[83, "creating-and-running-a-simulation-with-controller"]], "Restarting a simulation": [[83, "restarting-a-simulation"]], "Outputting aux values": [[83, "outputting-aux-values"]], "Outputting derived quantities": [[83, "outputting-derived-quantities"], [93, "outputting-derived-quantities"]], "Porting a problem from Clawpack 4.6.x to PyClaw": [[84, "porting-a-problem-from-clawpack-4-6-x-to-pyclaw"]], "Running PyClaw in the cloud": [[85, "running-pyclaw-in-the-cloud"]], "Sage Math Cloud": [[85, "sage-math-cloud"]], "Pyclaw Controller Class": [[86, "pyclaw-controller-class"]], "pyclaw.controller.Controller": [[86, "pyclaw-controller-controller"]], "Pyclaw Limiters": [[87, "pyclaw-limiters"]], "clawpack.pyclaw.limiters.tvd": [[87, "module-clawpack.pyclaw.limiters.tvd"]], "CFL Independent Limiters": [[87, "cfl-independent-limiters"]], "CFL Dependent Limiters": [[87, "cfl-dependent-limiters"]], "Working with PyClaw\u2019s built-in examples": [[88, "working-with-pyclaw-s-built-in-examples"]], "Running and plotting examples": [[88, "running-and-plotting-examples"]], "Interactively in IPython": [[88, "interactively-in-ipython"]], "Built-in examples": [[88, "built-in-examples"]], "Adding new examples": [[88, "adding-new-examples"]], "PyClaw Geometry": [[89, "pyclaw-geometry"]], "Serial Geometry Objects": [[89, "serial-geometry-objects"]], "pyclaw.geometry.Domain": [[89, "pyclaw-geometry-domain"]], "pyclaw.geometry.Patch": [[89, "pyclaw-geometry-patch"]], "pyclaw.geometry.Grid": [[89, "pyclaw-geometry-grid"]], "pyclaw.geometry.Dimension": [[89, "pyclaw-geometry-dimension"]], "Parallel Geometry Objects": [[89, "parallel-geometry-objects"]], "petclaw.geometry.Domain": [[89, "petclaw-geometry-domain"]], "petclaw.geometry.Patch": [[89, "petclaw-geometry-patch"]], "Going Further": [[90, "going-further"]], "PyClaw installation": [[91, "pyclaw-installation"]], "Features": [[91, "features"]], "PyClaw Documentation": [[91, "pyclaw-documentation"]], "PyClaw Modules reference documentation": [[91, "pyclaw-modules-reference-documentation"]], "Riemann Solvers reference documentation": [[91, "riemann-solvers-reference-documentation"]], "Indices and tables": [[91, "indices-and-tables"]], "Citing PyClaw": [[91, "citing-pyclaw"]], "Pyclaw Input/Output Package": [[92, "pyclaw-input-output-package"]], "pyclaw.fileio.ascii": [[92, "module-clawpack.pyclaw.fileio.ascii"]], "pyclaw.fileio.hdf5": [[92, "pyclaw-fileio-hdf5"]], "pyclaw.fileio.netcdf": [[92, "module-clawpack.pyclaw.fileio.netcdf"]], "PyClaw output": [[93, "pyclaw-output"]], "Output frames": [[93, "output-frames"]], "When output is saved/written": [[93, "when-output-is-saved-written"]], "Where and how output is written": [[93, "where-and-how-output-is-written"]], "What output is written": [[93, "what-output-is-written"]], "Outputting functionals": [[93, "outputting-functionals"]], "Using gauges": [[93, "using-gauges"]], "Logging": [[93, "logging"]], "Running in parallel": [[94, "running-in-parallel"]], "Installing PETSc": [[94, "installing-petsc"]], "Testing your installation": [[94, "testing-your-installation"], [150, "testing-your-installation"]], "Running and plotting an example": [[94, "running-and-plotting-an-example"]], "Tips for making your application run correctly in parallel": [[94, "tips-for-making-your-application-run-correctly-in-parallel"]], "Passing options to PETSc": [[94, "passing-options-to-petsc"]], "Plotting PyClaw results": [[95, "plotting-pyclaw-results"]], "Basics": [[95, "basics"]], "Plotting result from parallel runs": [[95, "plotting-result-from-parallel-runs"]], "Setting up your own problem": [[96, "setting-up-your-own-problem"]], "Writing the initialization script": [[96, "writing-the-initialization-script"]], "Setting initial conditions": [[96, "setting-initial-conditions"]], "Setting auxiliary variables": [[96, "setting-auxiliary-variables"]], "Setting boundary conditions": [[96, "setting-boundary-conditions"]], "Setting solver options": [[96, "setting-solver-options"]], "Using your own Riemann solver": [[96, "using-your-own-riemann-solver"]], "Adding source terms": [[96, "adding-source-terms"]], "Setting up the Makefile": [[96, "setting-up-the-makefile"]], "Riemann Solver Package": [[97, "riemann-solver-package"]], "Acoustics": [[97, "acoustics"]], "Advection": [[97, "advection"]], "Burgers Equation": [[97, "burgers-equation"]], "Euler Equations": [[97, "euler-equations"]], "Shallow Water Equations": [[97, "shallow-water-equations"]], "PyClaw Solutions": [[98, "pyclaw-solutions"]], "pyclaw.solution.Solution": [[98, "pyclaw-solution-solution"]], "Using PyClaw\u2019s solvers: Classic and SharpClaw": [[99, "using-pyclaw-s-solvers-classic-and-sharpclaw"]], "SharpClaw Solvers": [[99, "sharpclaw-solvers"]], "pyclaw.sharpclaw": [[99, "pyclaw-sharpclaw"]], "Pyclaw Classic Clawpack Solvers": [[99, "pyclaw-classic-clawpack-solvers"]], "pyclaw.classic.solver": [[99, "pyclaw-classic-solver"]], "Change to Custom BC Function Signatures": [[99, "change-to-custom-bc-function-signatures"]], "Installing PyClaw": [[100, "installing-pyclaw"]], "Dependencies: Python, gfortran, numpy, and matplotlib": [[100, "dependencies-python-gfortran-numpy-and-matplotlib"]], "Obtaining Python, numpy, and matplotlib": [[100, "obtaining-python-numpy-and-matplotlib"]], "Clawpack": [[100, "clawpack"]], "Testing your installation with nose": [[100, "testing-your-installation-with-nose"]], "Next steps": [[100, "next-steps"]], "PyClaw State": [[101, "pyclaw-state"]], "Serial pyclaw.state.State": [[101, "serial-pyclaw-state-state"]], "Parallel petclaw.state.State": [[101, "parallel-petclaw-state-state"]], "Troubleshooting": [[102, "troubleshooting"], [155, "troubleshooting"]], "Compilation errors": [[102, "compilation-errors"]], "Use Fortran-ordered arrays": [[102, "use-fortran-ordered-arrays"]], "Installation": [[102, "installation"]], "PyClaw tutorial: Solve the acoustics equations": [[103, "pyclaw-tutorial-solve-the-acoustics-equations"]], "The Solver": [[103, "the-solver"]], "The domain": [[103, "the-domain"]], "Initial condition": [[103, "initial-condition"]], "Problem-specific parameters": [[103, "problem-specific-parameters"]], "The controller": [[103, "the-controller"]], "Pyclaw Utility Module": [[104, "pyclaw-utility-module"]], "pyclaw.util": [[104, "module-clawpack.pyclaw.util"]], "Python Hints": [[105, "python-hints"]], "Dropping support for Python 2.7": [[105, "dropping-support-for-python-2-7"]], "References and tutorials": [[105, "references-and-tutorials"]], "Notebooks": [[105, "notebooks"]], "Python path": [[106, "python-path"]], "whichclaw.py": [[106, "whichclaw-py"]], "Which version was imported?": [[106, "which-version-was-imported"]], "sys.path": [[106, "sys-path"]], "easy-install.pth": [[106, "easy-install-pth"]], "PYTHONPATH": [[106, "pythonpath"], [137, "pythonpath"]], "qinit default routines": [[107, "qinit-default-routines"]], "qinit routine in GeoClaw": [[107, "qinit-routine-in-geoclaw"]], "Quick start guide for storm surge modeling": [[108, "quick-start-guide-for-storm-surge-modeling"]], "Quick start guide for tsunami modeling": [[109, "quick-start-guide-for-tsunami-modeling"]], "AMR refinement criteria": [[110, "amr-refinement-criteria"]], "Flagging criteria": [[110, "flagging-criteria"]], "flag2refine": [[110, "flag2refine"]], "Richardson extrapolation": [[110, "richardson-extrapolation"]], "Specifying AMR regions": [[110, "specifying-amr-regions"]], "Implementation": [[110, "implementation"]], "Flagging criteria in GeoClaw": [[110, "flagging-criteria-in-geoclaw"]], "Regression testing": [[111, "regression-testing"]], "Running the tests": [[111, "running-the-tests"], [111, "id2"]], "Fortran codes": [[111, "fortran-codes"]], "Travis continuous integration": [[111, "travis-continuous-integration"]], "Diff tools for checking test output": [[111, "diff-tools-for-checking-test-output"]], "chardiff tool for line-by-line comparison of output files": [[111, "chardiff-tool-for-line-by-line-comparison-of-output-files"]], "imagediff tool for pixel comparison of plots": [[111, "imagediff-tool-for-pixel-comparison-of-plots"]], "Running and writing tests in PyClaw": [[111, "running-and-writing-tests-in-pyclaw"]], "Running serial tests simultaneously": [[111, "running-serial-tests-simultaneously"]], "Running a specific test": [[111, "running-a-specific-test"]], "Doctests": [[111, "doctests"]], "Writing New Tests": [[111, "writing-new-tests"]], "v5.0.0 release notes": [[112, "v5-0-0-release-notes"]], "Changes to classic, riemann, amrclaw, geoclaw, visclaw": [[112, "changes-to-classic-riemann-amrclaw-geoclaw-visclaw"]], "v5.1.0 release notes": [[113, "v5-1-0-release-notes"]], "v5.2.0 release notes": [[114, "v5-2-0-release-notes"]], "v5.2.1 release notes": [[115, "v5-2-1-release-notes"]], "v5.2.2 release notes": [[116, "v5-2-2-release-notes"]], "v5.3.0 release notes": [[117, "v5-3-0-release-notes"]], "v5.3.1 release notes": [[118, "v5-3-1-release-notes"]], "v5.4.0 release notes": [[119, "v5-4-0-release-notes"]], "Global changes": [[119, "global-changes"]], "v5.4.1 release notes": [[120, "v5-4-1-release-notes"]], "Changes to documentation": [[120, "changes-to-documentation"], [121, "changes-to-documentation"]], "v5.5.0 release notes": [[121, "v5-5-0-release-notes"]], "v5.6.0 release notes": [[122, "v5-6-0-release-notes"]], "v5.6.1 release notes": [[123, "v5-6-1-release-notes"]], "v5.7.0 release notes": [[124, "v5-7-0-release-notes"]], "Python support": [[124, "python-support"]], "v5.7.1 release notes": [[125, "v5-7-1-release-notes"]], "v5.8.0 release notes": [[126, "v5-8-0-release-notes"]], "v5.8.1 release notes": [[127, "v5-8-1-release-notes"]], "v5.8.2 release notes": [[128, "v5-8-2-release-notes"]], "Releases of Clawpack and release notes": [[129, "releases-of-clawpack-and-release-notes"]], "Other notes:": [[129, "other-notes"]], "Releases:": [[129, "id1"]], "Clawpack 4.x": [[129, "clawpack-4-x"]], "Checkpointing and restarting": [[130, "checkpointing-and-restarting"]], "Checkpointing a computation": [[130, "checkpointing-a-computation"]], "Restarting a computation": [[130, "restarting-a-computation"]], "Modifying the Makefile for a restart": [[130, "modifying-the-makefile-for-a-restart"]], "Output files after a restart": [[130, "output-files-after-a-restart"]], "Riemann solvers": [[131, "riemann-solvers"]], "One-dimensional Riemann solver": [[131, "one-dimensional-riemann-solver"]], "Pointwise Riemann solvers": [[131, "pointwise-riemann-solvers"]], "f-wave Riemann solvers": [[131, "f-wave-riemann-solvers"]], "2D Riemann solvers": [[131, "d-riemann-solvers"]], "Using a custom solver": [[131, "using-a-custom-solver"]], "Adding a solver to the Riemann repository": [[131, "adding-a-solver-to-the-riemann-repository"]], "Shallow water Riemann solvers in Clawpack": [[132, "shallow-water-riemann-solvers-in-clawpack"]], "One dimension": [[132, "one-dimension"]], "Two dimensions": [[132, "two-dimensions"]], "Layered shallow water equations": [[132, "layered-shallow-water-equations"]], "Potentially useful contributions (what\u2019s missing)": [[132, "potentially-useful-contributions-whats-missing"]], "Demonstrations": [[132, "demonstrations"]], "Roe": [[132, "roe"]], "HLL": [[132, "hll"]], "Ruled Rectangles": [[133, "ruled-rectangles"]], "Relation to convex polygons": [[133, "relation-to-convex-polygons"]], "Other attributes and methods": [[133, "other-attributes-and-methods"]], "ds": [[133, "ds"]], "slu": [[133, "slu"]], "bounding_box": [[133, "bounding-box"]], "mask_outside": [[133, "mask-outside"]], "read and write, and instantiating from a file": [[133, "read-and-write-and-instantiating-from-a-file"]], "make_kml": [[133, "make-kml"]], "A GeoClaw AMR flag region": [[133, "a-geoclaw-amr-flag-region"]], "A simple rectangle": [[133, "a-simple-rectangle"]], "Defining a Ruled Rectangle covering selected cells": [[133, "defining-a-ruled-rectangle-covering-selected-cells"]], "Example covering the continental shelf": [[133, "example-covering-the-continental-shelf"]], "Setting sea_level": [[134, "setting-sea-level"]], "Set Eta Init \u2013 spatially varying initial surface elevation": [[135, "set-eta-init-spatially-varying-initial-surface-elevation"]], "Default behavior, adjusting sea level by seismic deformation": [[135, "default-behavior-adjusting-sea-level-by-seismic-deformation"]], "Other use cases": [[135, "other-use-cases"]], "setaux default routines": [[136, "setaux-default-routines"]], "setaux routine in GeoClaw": [[136, "setaux-routine-in-geoclaw"]], "Set environment variables": [[137, "set-environment-variables"]], "CLAW": [[137, "claw"]], "FC": [[137, "fc"]], "Using setplot.py to specify the desired plots": [[138, "using-setplot-py-to-specify-the-desired-plots"]], "Plotting Data Objects": [[138, "plotting-data-objects"]], "Overview": [[138, "overview"]], "Specifying classic run-time parameters in setrun.py": [[139, "specifying-classic-run-time-parameters-in-setrun-py"]], "Input": [[139, "input"], [140, "input"]], "Output": [[139, "output"], [140, "output"]], "Run-time parameters": [[139, "run-time-parameters"], [140, "run-time-parameters"]], "Specifying AMRClaw run-time parameters in setrun.py": [[140, "specifying-amrclaw-run-time-parameters-in-setrun-py"]], "Special AMR parameters": [[140, "special-amr-parameters"]], "Debugging flags for additional printing": [[140, "debugging-flags-for-additional-printing"]], "Sample setrun.py module for AMRClaw": [[141, "sample-setrun-py-module-for-amrclaw"]], "Specifying GeoClaw parameters in setrun.py": [[142, "specifying-geoclaw-parameters-in-setrun-py"]], "Additional AMR parameters": [[142, "additional-amr-parameters"]], "General geo parameters": [[142, "general-geo-parameters"]], "Topography data file parameters": [[142, "topography-data-file-parameters"]], "qinit data file parameters": [[142, "qinit-data-file-parameters"]], "AMR refinement region parameters": [[142, "amr-refinement-region-parameters"]], "Fixed grid output parameters": [[142, "fixed-grid-output-parameters"]], "Fixed grid maximum monitoring / arrival times": [[142, "fixed-grid-maximum-monitoring-arrival-times"]], "Storm Specification Data": [[142, "storm-specification-data"]], "Sample setrun.py module for classic Clawpack": [[143, "sample-setrun-py-module-for-classic-clawpack"]], "Saving and sharing results": [[144, "saving-and-sharing-results"]], "Making webpages of plots": [[144, "making-webpages-of-plots"]], "Sharing your results": [[144, "sharing-your-results"]], "Jupyter notebooks": [[144, "jupyter-notebooks"]], "Compiling the Sphinx documentation locally": [[145, "compiling-the-sphinx-documentation-locally"]], "src1d default routines": [[146, "src1d-default-routines"]], "src1d routine in GeoClaw": [[146, "src1d-routine-in-geoclaw"]], "src default routines": [[147, "src-default-routines"]], "src routine in GeoClaw": [[147, "src-routine-in-geoclaw"]], "Storm Specification Class and Tools": [[148, "storm-specification-class-and-tools"]], "Sources for Storm Surge Data": [[149, "sources-for-storm-surge-data"]], "Timing Statistics": [[151, "timing-statistics"]], "Topography data": [[152, "topography-data"]], "Downloading topography files": [[152, "downloading-topography-files"]], "NetCDF format": [[152, "netcdf-format"]], "Topography displacement files": [[152, "topography-displacement-files"]], "qinit data file": [[152, "qinit-data-file"]], "Python tools for working with topo and dtopo": [[153, "python-tools-for-working-with-topo-and-dtopo"]], "topotools module for working with topography data": [[154, "topotools-module-for-working-with-topography-data"]], "Troubleshooting Installation": [[155, "troubleshooting-installation"]], "Troubleshooting Fortran:": [[155, "troubleshooting-fortran"]], "Setting the Fortran compiler to be used by f2py (pip)": [[155, "setting-the-fortran-compiler-to-be-used-by-f2py-pip"]], "Trouble compiling Fortran code at the command line": [[155, "trouble-compiling-fortran-code-at-the-command-line"]], "Trouble running \u201cmake .exe\u201d": [[155, "trouble-running-make-exe"]], "Trouble running \u201cmake .data\u201d": [[155, "trouble-running-make-data"]], "Trouble running \u201cmake .output\u201d": [[155, "trouble-running-make-output"]], "Trouble running \u201cmake .plots\u201d": [[155, "trouble-running-make-plots"]], "Some sources of tsunami data": [[156, "some-sources-of-tsunami-data"]], "Topography / bathymetry": [[156, "topography-bathymetry"]], "Earthquake source models": [[156, "earthquake-source-models"]], "DART buoy data": [[156, "dart-buoy-data"]], "Tide gauges": [[156, "tide-gauges"]], "User files required for the Fortran code": [[157, "user-files-required-for-the-fortran-code"]], "Specifying the initial conditions": [[157, "specifying-the-initial-conditions"]], "Specifying the Riemann solver": [[157, "specifying-the-riemann-solver"]], "Specifying boundary conditions": [[157, "specifying-boundary-conditions"]], "Specifying problem-specific data": [[157, "specifying-problem-specific-data"]], "Specifying spatially-varying data using setaux": [[157, "specifying-spatially-varying-data-using-setaux"]], "Using b4step for work to be done before each time step": [[157, "using-b4step-for-work-to-be-done-before-each-time-step"]], "Using src for source terms": [[157, "using-src-for-source-terms"]], "Using src1d for source terms with AMRClaw": [[157, "using-src1d-for-source-terms-with-amrclaw"]], "Plotting with VisIt": [[158, "plotting-with-visit"]], "Clawpack Virtual Machine": [[159, "clawpack-virtual-machine"]], "Wave-propagation algorithms": [[160, "wave-propagation-algorithms"]], "One space dimension": [[160, "one-space-dimension"]], "Godunov\u2019s method": [[160, "godunov-s-method"]], "High-resolution methods": [[160, "high-resolution-methods"]], "f-wave formulation": [[160, "f-wave-formulation"]], "Capacity functions": [[160, "capacity-functions"]], "Source terms": [[160, "source-terms"]]}, "indexentries": {"clawplotaxes (built-in class)": [[0, "ClawPlotAxes"]], "gethandle()": [[0, "gethandle"], [2, "gethandle"], [3, "gethandle"]], "new_plotitem()": [[0, "new_plotitem"]], "clawplotdata (built-in class)": [[1, "ClawPlotData"]], "clearfigures()": [[1, "clearfigures"]], "clearframes()": [[1, "clearframes"]], "getaxes()": [[1, "getaxes"]], "getfigure()": [[1, "getfigure"]], "getframe()": [[1, "getframe"], [3, "getframe"]], "getitem()": [[1, "getitem"]], "iplotclaw()": [[1, "iplotclaw"]], "new_plotfigure()": [[1, "new_plotfigure"]], "plotframe()": [[1, "plotframe"]], "printframes()": [[1, "printframes"]], "showitems()": [[1, "showitems"]], "clawplotfigure (built-in class)": [[2, "ClawPlotFigure"]], "new_plotaxes()": [[2, "new_plotaxes"]], "clawplotitem (built-in class)": [[3, "ClawPlotItem"]], "csvfault (class in clawpack.geoclaw.dtopotools)": [[30, "clawpack.geoclaw.dtopotools.CSVFault"]], "dtopography (class in clawpack.geoclaw.dtopotools)": [[30, "clawpack.geoclaw.dtopotools.DTopography"]], "fault (class in clawpack.geoclaw.dtopotools)": [[30, "clawpack.geoclaw.dtopotools.Fault"]], "mo() (clawpack.geoclaw.dtopotools.fault method)": [[30, "clawpack.geoclaw.dtopotools.Fault.Mo"]], "mo() (clawpack.geoclaw.dtopotools.subfault method)": [[30, "clawpack.geoclaw.dtopotools.SubFault.Mo"]], "mw() (clawpack.geoclaw.dtopotools.fault method)": [[30, "clawpack.geoclaw.dtopotools.Fault.Mw"]], "mw() (in module clawpack.geoclaw.dtopotools)": [[30, "clawpack.geoclaw.dtopotools.Mw"]], "siftfault (class in clawpack.geoclaw.dtopotools)": [[30, "clawpack.geoclaw.dtopotools.SiftFault"]], "subfault (class in clawpack.geoclaw.dtopotools)": [[30, "clawpack.geoclaw.dtopotools.SubFault"]], "subdividedplanefault (class in clawpack.geoclaw.dtopotools)": [[30, "clawpack.geoclaw.dtopotools.SubdividedPlaneFault"]], "tensorproductfault (class in clawpack.geoclaw.dtopotools)": [[30, "clawpack.geoclaw.dtopotools.TensorProductFault"]], "ucsbfault (class in clawpack.geoclaw.dtopotools)": [[30, "clawpack.geoclaw.dtopotools.UCSBFault"]], "calculate_geometry() (clawpack.geoclaw.dtopotools.subfault method)": [[30, "clawpack.geoclaw.dtopotools.SubFault.calculate_geometry"]], "calculate_geometry_triangles() (clawpack.geoclaw.dtopotools.subfault method)": [[30, "clawpack.geoclaw.dtopotools.SubFault.calculate_geometry_triangles"]], "centers (clawpack.geoclaw.dtopotools.subfault property)": [[30, "clawpack.geoclaw.dtopotools.SubFault.centers"]], "clawpack.geoclaw.dtopotools": [[30, "module-clawpack.geoclaw.dtopotools"]], "containing_rect() (clawpack.geoclaw.dtopotools.fault method)": [[30, "clawpack.geoclaw.dtopotools.Fault.containing_rect"]], "convert_to_standard_units() (clawpack.geoclaw.dtopotools.subfault method)": [[30, "clawpack.geoclaw.dtopotools.SubFault.convert_to_standard_units"]], "coordinate_specification (clawpack.geoclaw.dtopotools.subfault attribute)": [[30, "clawpack.geoclaw.dtopotools.SubFault.coordinate_specification"]], "corners (clawpack.geoclaw.dtopotools.subfault property)": [[30, "clawpack.geoclaw.dtopotools.SubFault.corners"]], "create_dtopo_xy() (clawpack.geoclaw.dtopotools.fault method)": [[30, "clawpack.geoclaw.dtopotools.Fault.create_dtopo_xy"]], "create_dtopography() (clawpack.geoclaw.dtopotools.fault method)": [[30, "clawpack.geoclaw.dtopotools.Fault.create_dtopography"]], "dz_at_t() (clawpack.geoclaw.dtopotools.dtopography method)": [[30, "clawpack.geoclaw.dtopotools.DTopography.dZ_at_t"]], "dz_max() (clawpack.geoclaw.dtopotools.dtopography method)": [[30, "clawpack.geoclaw.dtopotools.DTopography.dZ_max"]], "depth (clawpack.geoclaw.dtopotools.subfault attribute)": [[30, "clawpack.geoclaw.dtopotools.SubFault.depth"]], "dip (clawpack.geoclaw.dtopotools.subfault attribute)": [[30, "clawpack.geoclaw.dtopotools.SubFault.dip"]], "dynamic_slip() (clawpack.geoclaw.dtopotools.subfault method)": [[30, "clawpack.geoclaw.dtopotools.SubFault.dynamic_slip"]], "gauss_pts (clawpack.geoclaw.dtopotools.subfault property)": [[30, "clawpack.geoclaw.dtopotools.SubFault.gauss_pts"]], "latitude (clawpack.geoclaw.dtopotools.subfault attribute)": [[30, "clawpack.geoclaw.dtopotools.SubFault.latitude"]], "length (clawpack.geoclaw.dtopotools.subfault attribute)": [[30, "clawpack.geoclaw.dtopotools.SubFault.length"]], "longitude (clawpack.geoclaw.dtopotools.subfault attribute)": [[30, "clawpack.geoclaw.dtopotools.SubFault.longitude"]], "module": [[30, "module-clawpack.geoclaw.dtopotools"], [33, "module-clawpack.geoclaw.fgmax_tools"], [47, "module-clawpack.geoclaw.util"], [59, "module-clawpack.geoclaw.kmltools"], [87, "module-clawpack.pyclaw.limiters.tvd"], [92, "module-clawpack.pyclaw.fileio.ascii"], [92, "module-clawpack.pyclaw.fileio.netcdf"], [97, "module-clawpack.riemann.acoustics_1D_py"], [97, "module-clawpack.riemann.advection_1D_py"], [97, "module-clawpack.riemann.burgers_1D_py"], [97, "module-clawpack.riemann.euler_1D_py"], [97, "module-clawpack.riemann.shallow_1D_py"], [104, "module-clawpack.pyclaw.util"], [148, "module-clawpack.geoclaw.surge.storm"], [154, "module-clawpack.geoclaw.topotools"]], "mu (clawpack.geoclaw.dtopotools.subfault attribute)": [[30, "clawpack.geoclaw.dtopotools.SubFault.mu"]], "okada() (clawpack.geoclaw.dtopotools.subfault method)": [[30, "clawpack.geoclaw.dtopotools.SubFault.okada"]], "plot_dz_colors() (clawpack.geoclaw.dtopotools.dtopography method)": [[30, "clawpack.geoclaw.dtopotools.DTopography.plot_dZ_colors"]], "plot_dz_colors() (in module clawpack.geoclaw.dtopotools)": [[30, "clawpack.geoclaw.dtopotools.plot_dZ_colors"]], "plot_dz_contours() (clawpack.geoclaw.dtopotools.dtopography method)": [[30, "clawpack.geoclaw.dtopotools.DTopography.plot_dZ_contours"]], "plot_dz_contours() (in module clawpack.geoclaw.dtopotools)": [[30, "clawpack.geoclaw.dtopotools.plot_dZ_contours"]], "plot_subfaults() (clawpack.geoclaw.dtopotools.fault method)": [[30, "clawpack.geoclaw.dtopotools.Fault.plot_subfaults"]], "plot_subfaults_depth() (clawpack.geoclaw.dtopotools.fault method)": [[30, "clawpack.geoclaw.dtopotools.Fault.plot_subfaults_depth"]], "rake (clawpack.geoclaw.dtopotools.subfault attribute)": [[30, "clawpack.geoclaw.dtopotools.SubFault.rake"]], "read() (clawpack.geoclaw.dtopotools.csvfault method)": [[30, "clawpack.geoclaw.dtopotools.CSVFault.read"]], "read() (clawpack.geoclaw.dtopotools.dtopography method)": [[30, "clawpack.geoclaw.dtopotools.DTopography.read"]], "read() (clawpack.geoclaw.dtopotools.fault method)": [[30, "clawpack.geoclaw.dtopotools.Fault.read"]], "read() (clawpack.geoclaw.dtopotools.ucsbfault method)": [[30, "clawpack.geoclaw.dtopotools.UCSBFault.read"]], "rise_fraction() (in module clawpack.geoclaw.dtopotools)": [[30, "clawpack.geoclaw.dtopotools.rise_fraction"]], "rise_shape (clawpack.geoclaw.dtopotools.subfault attribute)": [[30, "clawpack.geoclaw.dtopotools.SubFault.rise_shape"]], "rise_time (clawpack.geoclaw.dtopotools.subfault attribute)": [[30, "clawpack.geoclaw.dtopotools.SubFault.rise_time"]], "rise_time_starting (clawpack.geoclaw.dtopotools.subfault attribute)": [[30, "clawpack.geoclaw.dtopotools.SubFault.rise_time_starting"]], "rupture_time (clawpack.geoclaw.dtopotools.subfault attribute)": [[30, "clawpack.geoclaw.dtopotools.SubFault.rupture_time"]], "rupture_type (clawpack.geoclaw.dtopotools.subfault attribute)": [[30, "clawpack.geoclaw.dtopotools.SubFault.rupture_type"]], "set_corners() (clawpack.geoclaw.dtopotools.subfault method)": [[30, "clawpack.geoclaw.dtopotools.SubFault.set_corners"]], "set_dynamic_slip() (clawpack.geoclaw.dtopotools.fault method)": [[30, "clawpack.geoclaw.dtopotools.Fault.set_dynamic_slip"]], "set_subfaults() (clawpack.geoclaw.dtopotools.siftfault method)": [[30, "clawpack.geoclaw.dtopotools.SiftFault.set_subfaults"]], "slip (clawpack.geoclaw.dtopotools.subfault attribute)": [[30, "clawpack.geoclaw.dtopotools.SubFault.slip"]], "strike (clawpack.geoclaw.dtopotools.subfault attribute)": [[30, "clawpack.geoclaw.dtopotools.SubFault.strike"]], "strike_direction() (in module clawpack.geoclaw.dtopotools)": [[30, "clawpack.geoclaw.dtopotools.strike_direction"]], "subdivide() (clawpack.geoclaw.dtopotools.subdividedplanefault method)": [[30, "clawpack.geoclaw.dtopotools.SubdividedPlaneFault.subdivide"]], "width (clawpack.geoclaw.dtopotools.subfault attribute)": [[30, "clawpack.geoclaw.dtopotools.SubFault.width"]], "write() (clawpack.geoclaw.dtopotools.dtopography method)": [[30, "clawpack.geoclaw.dtopotools.DTopography.write"]], "write() (clawpack.geoclaw.dtopotools.fault method)": [[30, "clawpack.geoclaw.dtopotools.Fault.write"]], "fgmaxgrid (class in clawpack.geoclaw.fgmax_tools)": [[33, "clawpack.geoclaw.fgmax_tools.FGmaxGrid"]], "adjust_fgmax_1d() (in module clawpack.geoclaw.fgmax_tools)": [[33, "clawpack.geoclaw.fgmax_tools.adjust_fgmax_1d"]], "bounding_box() (clawpack.geoclaw.fgmax_tools.fgmaxgrid method)": [[33, "clawpack.geoclaw.fgmax_tools.FGmaxGrid.bounding_box"]], "clawpack.geoclaw.fgmax_tools": [[33, "module-clawpack.geoclaw.fgmax_tools"]], "interp_dz() (clawpack.geoclaw.fgmax_tools.fgmaxgrid method)": [[33, "clawpack.geoclaw.fgmax_tools.FGmaxGrid.interp_dz"]], "ps4_to_arrays() (clawpack.geoclaw.fgmax_tools.fgmaxgrid method)": [[33, "clawpack.geoclaw.fgmax_tools.FGmaxGrid.ps4_to_arrays"]], "read_fgmax_grids_data() (clawpack.geoclaw.fgmax_tools.fgmaxgrid method)": [[33, "clawpack.geoclaw.fgmax_tools.FGmaxGrid.read_fgmax_grids_data"]], "read_output() (clawpack.geoclaw.fgmax_tools.fgmaxgrid method)": [[33, "clawpack.geoclaw.fgmax_tools.FGmaxGrid.read_output"]], "write_to_fgmax_data() (clawpack.geoclaw.fgmax_tools.fgmaxgrid method)": [[33, "clawpack.geoclaw.fgmax_tools.FGmaxGrid.write_to_fgmax_data"]], "bearing() (in module clawpack.geoclaw.util)": [[47, "clawpack.geoclaw.util.bearing"]], "clawpack.geoclaw.util": [[47, "module-clawpack.geoclaw.util"]], "dist_latlong2meters() (in module clawpack.geoclaw.util)": [[47, "clawpack.geoclaw.util.dist_latlong2meters"]], "dist_meters2latlong() (in module clawpack.geoclaw.util)": [[47, "clawpack.geoclaw.util.dist_meters2latlong"]], "dms2decimal() (in module clawpack.geoclaw.util)": [[47, "clawpack.geoclaw.util.dms2decimal"]], "fetch_noaa_tide_data() (in module clawpack.geoclaw.util)": [[47, "clawpack.geoclaw.util.fetch_noaa_tide_data"]], "haversine() (in module clawpack.geoclaw.util)": [[47, "clawpack.geoclaw.util.haversine"]], "inv_haversine() (in module clawpack.geoclaw.util)": [[47, "clawpack.geoclaw.util.inv_haversine"]], "box2kml() (in module clawpack.geoclaw.kmltools)": [[59, "clawpack.geoclaw.kmltools.box2kml"]], "clawpack.geoclaw.kmltools": [[59, "module-clawpack.geoclaw.kmltools"]], "deg2dms() (in module clawpack.geoclaw.kmltools)": [[59, "clawpack.geoclaw.kmltools.deg2dms"]], "dtopo2kml() (in module clawpack.geoclaw.kmltools)": [[59, "clawpack.geoclaw.kmltools.dtopo2kml"]], "f2s() (in module clawpack.geoclaw.kmltools)": [[59, "clawpack.geoclaw.kmltools.f2s"]], "fgmax2kml() (in module clawpack.geoclaw.kmltools)": [[59, "clawpack.geoclaw.kmltools.fgmax2kml"]], "fgout2kml() (in module clawpack.geoclaw.kmltools)": [[59, "clawpack.geoclaw.kmltools.fgout2kml"]], "gauges2kml() (in module clawpack.geoclaw.kmltools)": [[59, "clawpack.geoclaw.kmltools.gauges2kml"]], "kml_build_colorbar() (in module clawpack.geoclaw.kmltools)": [[59, "clawpack.geoclaw.kmltools.kml_build_colorbar"]], "kml_cb() (in module clawpack.geoclaw.kmltools)": [[59, "clawpack.geoclaw.kmltools.kml_cb"]], "kml_png() (in module clawpack.geoclaw.kmltools)": [[59, "clawpack.geoclaw.kmltools.kml_png"]], "kml_timespan() (in module clawpack.geoclaw.kmltools)": [[59, "clawpack.geoclaw.kmltools.kml_timespan"]], "line2kml() (in module clawpack.geoclaw.kmltools)": [[59, "clawpack.geoclaw.kmltools.line2kml"]], "make_input_data_kmls() (in module clawpack.geoclaw.kmltools)": [[59, "clawpack.geoclaw.kmltools.make_input_data_kmls"]], "pcolorcells_for_kml() (in module clawpack.geoclaw.kmltools)": [[59, "clawpack.geoclaw.kmltools.pcolorcells_for_kml"]], "png2kml() (in module clawpack.geoclaw.kmltools)": [[59, "clawpack.geoclaw.kmltools.png2kml"]], "poly2kml() (in module clawpack.geoclaw.kmltools)": [[59, "clawpack.geoclaw.kmltools.poly2kml"]], "quad2kml() (in module clawpack.geoclaw.kmltools)": [[59, "clawpack.geoclaw.kmltools.quad2kml"]], "regions2kml() (in module clawpack.geoclaw.kmltools)": [[59, "clawpack.geoclaw.kmltools.regions2kml"]], "topo2kml() (in module clawpack.geoclaw.kmltools)": [[59, "clawpack.geoclaw.kmltools.topo2kml"]], "topo2kmz() (in module clawpack.geoclaw.kmltools)": [[59, "clawpack.geoclaw.kmltools.topo2kmz"]], "controller (class in clawpack.pyclaw.controller)": [[86, "clawpack.pyclaw.controller.Controller"]], "f_file_name (clawpack.pyclaw.controller.controller attribute)": [[86, "clawpack.pyclaw.controller.Controller.F_file_name"]], "f_path (clawpack.pyclaw.controller.controller property)": [[86, "clawpack.pyclaw.controller.Controller.F_path"]], "check_validity() (clawpack.pyclaw.controller.controller method)": [[86, "clawpack.pyclaw.controller.Controller.check_validity"]], "compute_f (clawpack.pyclaw.controller.controller attribute)": [[86, "clawpack.pyclaw.controller.Controller.compute_F"]], "compute_p (clawpack.pyclaw.controller.controller attribute)": [[86, "clawpack.pyclaw.controller.Controller.compute_p"]], "file_prefix_p (clawpack.pyclaw.controller.controller attribute)": [[86, "clawpack.pyclaw.controller.Controller.file_prefix_p"]], "frames (clawpack.pyclaw.controller.controller attribute)": [[86, "clawpack.pyclaw.controller.Controller.frames"]], "keep_copy (clawpack.pyclaw.controller.controller attribute)": [[86, "clawpack.pyclaw.controller.Controller.keep_copy"]], "nstepout (clawpack.pyclaw.controller.controller attribute)": [[86, "clawpack.pyclaw.controller.Controller.nstepout"]], "num_output_times (clawpack.pyclaw.controller.controller attribute)": [[86, "clawpack.pyclaw.controller.Controller.num_output_times"]], "out_times (clawpack.pyclaw.controller.controller attribute)": [[86, "clawpack.pyclaw.controller.Controller.out_times"]], "outdir (clawpack.pyclaw.controller.controller attribute)": [[86, "clawpack.pyclaw.controller.Controller.outdir"]], "outdir_p (clawpack.pyclaw.controller.controller property)": [[86, "clawpack.pyclaw.controller.Controller.outdir_p"]], "output_file_prefix (clawpack.pyclaw.controller.controller attribute)": [[86, "clawpack.pyclaw.controller.Controller.output_file_prefix"]], "output_format (clawpack.pyclaw.controller.controller attribute)": [[86, "clawpack.pyclaw.controller.Controller.output_format"]], "output_options (clawpack.pyclaw.controller.controller attribute)": [[86, "clawpack.pyclaw.controller.Controller.output_options"]], "output_style (clawpack.pyclaw.controller.controller attribute)": [[86, "clawpack.pyclaw.controller.Controller.output_style"]], "overwrite (clawpack.pyclaw.controller.controller attribute)": [[86, "clawpack.pyclaw.controller.Controller.overwrite"]], "plot() (clawpack.pyclaw.controller.controller method)": [[86, "clawpack.pyclaw.controller.Controller.plot"]], "plotdata (clawpack.pyclaw.controller.controller attribute)": [[86, "clawpack.pyclaw.controller.Controller.plotdata"]], "run() (clawpack.pyclaw.controller.controller method)": [[86, "clawpack.pyclaw.controller.Controller.run"]], "rundir (clawpack.pyclaw.controller.controller attribute)": [[86, "clawpack.pyclaw.controller.Controller.rundir"]], "runmake (clawpack.pyclaw.controller.controller attribute)": [[86, "clawpack.pyclaw.controller.Controller.runmake"]], "savecode (clawpack.pyclaw.controller.controller attribute)": [[86, "clawpack.pyclaw.controller.Controller.savecode"]], "solver (clawpack.pyclaw.controller.controller attribute)": [[86, "clawpack.pyclaw.controller.Controller.solver"]], "tfinal (clawpack.pyclaw.controller.controller attribute)": [[86, "clawpack.pyclaw.controller.Controller.tfinal"]], "verbosity (clawpack.pyclaw.controller.controller property)": [[86, "clawpack.pyclaw.controller.Controller.verbosity"]], "viewable_attributes (clawpack.pyclaw.controller.controller attribute)": [[86, "clawpack.pyclaw.controller.Controller.viewable_attributes"]], "write_aux_always (clawpack.pyclaw.controller.controller attribute)": [[86, "clawpack.pyclaw.controller.Controller.write_aux_always"]], "write_aux_init (clawpack.pyclaw.controller.controller attribute)": [[86, "clawpack.pyclaw.controller.Controller.write_aux_init"]], "xclawcmd (clawpack.pyclaw.controller.controller attribute)": [[86, "clawpack.pyclaw.controller.Controller.xclawcmd"]], "xclawerr (clawpack.pyclaw.controller.controller attribute)": [[86, "clawpack.pyclaw.controller.Controller.xclawerr"]], "xclawout (clawpack.pyclaw.controller.controller attribute)": [[86, "clawpack.pyclaw.controller.Controller.xclawout"]], "xdir (clawpack.pyclaw.controller.controller attribute)": [[86, "clawpack.pyclaw.controller.Controller.xdir"]], "arora_roe() (in module clawpack.pyclaw.limiters.tvd)": [[87, "clawpack.pyclaw.limiters.tvd.arora_roe"]], "beta_limiter() (in module clawpack.pyclaw.limiters.tvd)": [[87, "clawpack.pyclaw.limiters.tvd.beta_limiter"]], "cada_torrilhon_limiter() (in module clawpack.pyclaw.limiters.tvd)": [[87, "clawpack.pyclaw.limiters.tvd.cada_torrilhon_limiter"]], "cada_torrilhon_limiter_nonlinear() (in module clawpack.pyclaw.limiters.tvd)": [[87, "clawpack.pyclaw.limiters.tvd.cada_torrilhon_limiter_nonlinear"]], "cfl_superbee() (in module clawpack.pyclaw.limiters.tvd)": [[87, "clawpack.pyclaw.limiters.tvd.cfl_superbee"]], "cfl_superbee_theta() (in module clawpack.pyclaw.limiters.tvd)": [[87, "clawpack.pyclaw.limiters.tvd.cfl_superbee_theta"]], "clawpack.pyclaw.limiters.tvd": [[87, "module-clawpack.pyclaw.limiters.tvd"]], "hyperbee_limiter() (in module clawpack.pyclaw.limiters.tvd)": [[87, "clawpack.pyclaw.limiters.tvd.hyperbee_limiter"]], "limit() (in module clawpack.pyclaw.limiters.tvd)": [[87, "clawpack.pyclaw.limiters.tvd.limit"]], "mc_limiter() (in module clawpack.pyclaw.limiters.tvd)": [[87, "clawpack.pyclaw.limiters.tvd.mc_limiter"]], "minmod_limiter() (in module clawpack.pyclaw.limiters.tvd)": [[87, "clawpack.pyclaw.limiters.tvd.minmod_limiter"]], "superbee_limiter() (in module clawpack.pyclaw.limiters.tvd)": [[87, "clawpack.pyclaw.limiters.tvd.superbee_limiter"]], "superpower_limiter() (in module clawpack.pyclaw.limiters.tvd)": [[87, "clawpack.pyclaw.limiters.tvd.superpower_limiter"]], "theta_limiter() (in module clawpack.pyclaw.limiters.tvd)": [[87, "clawpack.pyclaw.limiters.tvd.theta_limiter"]], "upper_bound_limiter() (in module clawpack.pyclaw.limiters.tvd)": [[87, "clawpack.pyclaw.limiters.tvd.upper_bound_limiter"]], "van_leer_klein_sharpening_limiter() (in module clawpack.pyclaw.limiters.tvd)": [[87, "clawpack.pyclaw.limiters.tvd.van_leer_klein_sharpening_limiter"]], "dimension (class in clawpack.pyclaw.geometry)": [[89, "clawpack.pyclaw.geometry.Dimension"]], "domain (class in clawpack.petclaw.geometry)": [[89, "clawpack.petclaw.geometry.Domain"]], "domain (class in clawpack.pyclaw.geometry)": [[89, "clawpack.pyclaw.geometry.Domain"]], "grid (class in clawpack.pyclaw.geometry)": [[89, "clawpack.pyclaw.geometry.Grid"]], "patch (class in clawpack.petclaw.geometry)": [[89, "clawpack.petclaw.geometry.Patch"]], "patch (class in clawpack.pyclaw.geometry)": [[89, "clawpack.pyclaw.geometry.Patch"]], "add_dimension() (clawpack.pyclaw.geometry.grid method)": [[89, "clawpack.pyclaw.geometry.Grid.add_dimension"]], "add_dimension() (clawpack.pyclaw.geometry.patch method)": [[89, "clawpack.pyclaw.geometry.Patch.add_dimension"]], "add_gauges() (clawpack.pyclaw.geometry.grid method)": [[89, "clawpack.pyclaw.geometry.Grid.add_gauges"]], "c_center() (clawpack.pyclaw.geometry.grid method)": [[89, "clawpack.pyclaw.geometry.Grid.c_center"]], "c_centers (clawpack.pyclaw.geometry.grid property)": [[89, "clawpack.pyclaw.geometry.Grid.c_centers"]], "c_centers_with_ghost() (clawpack.pyclaw.geometry.grid method)": [[89, "clawpack.pyclaw.geometry.Grid.c_centers_with_ghost"]], "c_nodes (clawpack.pyclaw.geometry.grid property)": [[89, "clawpack.pyclaw.geometry.Grid.c_nodes"]], "c_nodes_with_ghost() (clawpack.pyclaw.geometry.grid method)": [[89, "clawpack.pyclaw.geometry.Grid.c_nodes_with_ghost"]], "centers (clawpack.pyclaw.geometry.dimension property)": [[89, "clawpack.pyclaw.geometry.Dimension.centers"]], "centers_with_ghost() (clawpack.pyclaw.geometry.dimension method)": [[89, "clawpack.pyclaw.geometry.Dimension.centers_with_ghost"]], "delta (clawpack.pyclaw.geometry.dimension property)": [[89, "clawpack.pyclaw.geometry.Dimension.delta"]], "delta (clawpack.pyclaw.geometry.patch property)": [[89, "clawpack.pyclaw.geometry.Patch.delta"]], "dimensional_split (clawpack.petclaw.geometry.domain attribute)": [[89, "clawpack.petclaw.geometry.Domain.dimensional_split"]], "dimensions (clawpack.pyclaw.geometry.grid property)": [[89, "clawpack.pyclaw.geometry.Grid.dimensions"]], "dimensions (clawpack.pyclaw.geometry.patch property)": [[89, "clawpack.pyclaw.geometry.Patch.dimensions"]], "fwave (clawpack.petclaw.geometry.domain attribute)": [[89, "clawpack.petclaw.geometry.Domain.fwave"]], "gauge_dir_name (clawpack.pyclaw.geometry.grid attribute)": [[89, "clawpack.pyclaw.geometry.Grid.gauge_dir_name"]], "gauge_file_names (clawpack.pyclaw.geometry.grid attribute)": [[89, "clawpack.pyclaw.geometry.Grid.gauge_file_names"]], "gauge_files (clawpack.pyclaw.geometry.grid attribute)": [[89, "clawpack.pyclaw.geometry.Grid.gauge_files"]], "gauges (clawpack.pyclaw.geometry.grid attribute)": [[89, "clawpack.pyclaw.geometry.Grid.gauges"]], "get_dim_attribute() (clawpack.pyclaw.geometry.grid method)": [[89, "clawpack.pyclaw.geometry.Grid.get_dim_attribute"]], "get_dim_attribute() (clawpack.pyclaw.geometry.patch method)": [[89, "clawpack.pyclaw.geometry.Patch.get_dim_attribute"]], "grid (clawpack.pyclaw.geometry.domain property)": [[89, "clawpack.pyclaw.geometry.Domain.grid"]], "kernel_language (clawpack.petclaw.geometry.domain attribute)": [[89, "clawpack.petclaw.geometry.Domain.kernel_language"]], "level (clawpack.pyclaw.geometry.patch attribute)": [[89, "clawpack.pyclaw.geometry.Patch.level"]], "lower_global (clawpack.pyclaw.geometry.patch property)": [[89, "clawpack.pyclaw.geometry.Patch.lower_global"]], "mthlim (clawpack.petclaw.geometry.domain attribute)": [[89, "clawpack.petclaw.geometry.Domain.mthlim"]], "name (clawpack.pyclaw.geometry.patch property)": [[89, "clawpack.pyclaw.geometry.Patch.name"]], "nodes (clawpack.pyclaw.geometry.dimension property)": [[89, "clawpack.pyclaw.geometry.Dimension.nodes"]], "nodes_with_ghost() (clawpack.pyclaw.geometry.dimension method)": [[89, "clawpack.pyclaw.geometry.Dimension.nodes_with_ghost"]], "num_cells_global (clawpack.pyclaw.geometry.patch property)": [[89, "clawpack.pyclaw.geometry.Patch.num_cells_global"]], "num_dim (clawpack.pyclaw.geometry.domain property)": [[89, "clawpack.pyclaw.geometry.Domain.num_dim"]], "num_dim (clawpack.pyclaw.geometry.grid property)": [[89, "clawpack.pyclaw.geometry.Grid.num_dim"]], "num_dim (clawpack.pyclaw.geometry.patch property)": [[89, "clawpack.pyclaw.geometry.Patch.num_dim"]], "order (clawpack.petclaw.geometry.domain attribute)": [[89, "clawpack.petclaw.geometry.Domain.order"]], "p_center() (clawpack.pyclaw.geometry.grid method)": [[89, "clawpack.pyclaw.geometry.Grid.p_center"]], "p_centers (clawpack.pyclaw.geometry.grid property)": [[89, "clawpack.pyclaw.geometry.Grid.p_centers"]], "p_nodes (clawpack.pyclaw.geometry.grid property)": [[89, "clawpack.pyclaw.geometry.Grid.p_nodes"]], "patch (clawpack.pyclaw.geometry.domain property)": [[89, "clawpack.pyclaw.geometry.Domain.patch"]], "patch_index (clawpack.pyclaw.geometry.patch attribute)": [[89, "clawpack.pyclaw.geometry.Patch.patch_index"]], "plot() (clawpack.pyclaw.geometry.grid method)": [[89, "clawpack.pyclaw.geometry.Grid.plot"]], "setup_gauge_files() (clawpack.pyclaw.geometry.grid method)": [[89, "clawpack.pyclaw.geometry.Grid.setup_gauge_files"]], "source_split (clawpack.petclaw.geometry.domain attribute)": [[89, "clawpack.petclaw.geometry.Domain.source_split"]], "step_source (clawpack.petclaw.geometry.domain attribute)": [[89, "clawpack.petclaw.geometry.Domain.step_source"]], "transverse_waves (clawpack.petclaw.geometry.domain attribute)": [[89, "clawpack.petclaw.geometry.Domain.transverse_waves"]], "upper_global (clawpack.pyclaw.geometry.patch property)": [[89, "clawpack.pyclaw.geometry.Patch.upper_global"]], "verbosity (clawpack.petclaw.geometry.domain attribute)": [[89, "clawpack.petclaw.geometry.Domain.verbosity"]], "clawpack.pyclaw.fileio.ascii": [[92, "module-clawpack.pyclaw.fileio.ascii"]], 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83, 87, 89, 92, 93, 96, 98, 101, 110, 111, 131, 133, 134, 139, 140, 141, 142, 143, 148, 152, 156, 157], "appli": [3, 4, 5, 6, 13, 16, 25, 30, 48, 51, 53, 64, 66, 70, 77, 79, 87, 89, 92, 99, 110, 130, 139, 142, 157], "comput": [3, 4, 5, 6, 13, 16, 17, 18, 27, 29, 30, 32, 33, 39, 44, 47, 51, 53, 58, 59, 60, 62, 68, 70, 76, 77, 79, 84, 86, 89, 91, 92, 93, 94, 99, 103, 106, 108, 110, 113, 114, 118, 119, 123, 126, 131, 135, 139, 141, 142, 143, 149, 152, 157, 160], "signatur": [3, 84, 87, 89, 90, 92, 97, 148], "hold": [3, 79, 103, 110], "current": [3, 5, 13, 14, 20, 22, 24, 27, 28, 29, 30, 32, 38, 39, 41, 44, 45, 48, 53, 54, 55, 57, 58, 59, 60, 67, 68, 72, 77, 79, 89, 92, 93, 94, 99, 101, 104, 106, 110, 111, 118, 120, 121, 130, 134, 138, 139, 140, 141, 142, 143, 148, 149, 152, 154, 156], "afteritem": [3, 27], "afterpatch": [3, 27], "There": [3, 6, 13, 22, 36, 40, 51, 54, 55, 62, 66, 70, 72, 79, 80, 93, 100, 108, 120, 121, 138, 139, 149, 150, 157, 159], "than": [3, 5, 6, 13, 16, 18, 20, 22, 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154, 156, 160], "corner": [3, 30, 32, 53, 70, 72, 89, 133, 139, 141, 143, 152, 154], "mappedgrid": [3, 67], "map": [3, 16, 29, 30, 39, 59, 66, 67, 77, 81, 84, 89, 91, 96, 110, 117, 121, 126, 132, 154, 160], "mapc2p": [3, 25, 27, 67, 84, 89, 126], "underli": [3, 51, 119], "other": [3, 4, 5, 6, 7, 9, 12, 13, 16, 20, 22, 27, 30, 33, 35, 36, 38, 44, 45, 46, 48, 51, 52, 53, 55, 56, 57, 58, 61, 62, 64, 66, 67, 68, 70, 71, 72, 76, 79, 81, 83, 84, 86, 89, 91, 93, 95, 96, 97, 100, 103, 105, 106, 110, 111, 113, 114, 116, 117, 119, 131, 134, 137, 138, 139, 142, 144, 148, 152, 154, 156, 157, 158], "requir": [3, 4, 16, 18, 20, 22, 25, 27, 30, 32, 35, 36, 40, 45, 47, 48, 55, 58, 66, 67, 70, 73, 76, 79, 80, 83, 84, 89, 92, 95, 96, 99, 100, 101, 103, 104, 105, 110, 111, 113, 114, 117, 119, 122, 124, 126, 131, 132, 133, 138, 139, 140, 141, 142, 143, 148, 149, 152, 155, 158, 160], "depend": [3, 13, 16, 28, 29, 30, 32, 35, 36, 40, 41, 46, 48, 51, 62, 64, 67, 70, 77, 82, 92, 97, 98, 99, 104, 106, 110, 121, 135, 140, 142, 154, 155, 157, 160], "summar": [3, 28, 31, 110, 112, 157], "plotstyl": [3, 44, 77, 138], "anyth": [3, 6, 28, 29, 58, 63, 111, 121], "valid": [3, 48, 70, 86, 93, 98, 101, 119, 142, 148, 149, 154], "fmt": 3, "group": [3, 13, 24, 28, 30, 48, 88, 92, 94, 102, 118, 131], "solid": [3, 16, 51, 70, 96, 138, 139, 141, 143], "dash": [3, 94], "o": [3, 5, 17, 38, 39, 40, 66, 77, 80, 81, 84, 92, 93, 102, 121, 141, 154, 157], "circl": [3, 47, 77], "bo": 3, "blue": [3, 11, 39, 44, 59, 66, 77, 133, 154], "though": [3, 39, 73, 148, 152], "color": [3, 30, 39, 51, 59, 66, 67, 76, 133, 138, 154], "also": [3, 4, 5, 6, 7, 8, 9, 11, 12, 16, 17, 18, 20, 22, 23, 24, 25, 28, 29, 30, 32, 33, 35, 36, 37, 38, 39, 41, 42, 43, 44, 47, 48, 51, 52, 53, 54, 55, 56, 57, 58, 59, 62, 63, 66, 67, 68, 70, 71, 72, 73, 76, 77, 79, 83, 85, 86, 89, 91, 92, 93, 94, 96, 97, 98, 99, 100, 101, 102, 103, 104, 105, 106, 107, 108, 109, 110, 111, 113, 118, 119, 120, 121, 122, 123, 124, 125, 126, 127, 128, 129, 130, 131, 132, 133, 134, 135, 137, 139, 140, 141, 142, 143, 144, 146, 147, 148, 149, 150, 151, 152, 154, 155, 156, 157, 159, 160], "overrul": 3, "ani": [3, 4, 5, 6, 8, 13, 16, 18, 19, 20, 22, 27, 28, 29, 32, 35, 36, 37, 45, 48, 50, 51, 54, 55, 57, 58, 61, 62, 64, 66, 67, 69, 71, 72, 73, 77, 81, 87, 88, 89, 91, 92, 93, 94, 96, 98, 100, 104, 106, 109, 110, 111, 117, 121, 123, 130, 133, 134, 135, 138, 139, 140, 142, 148, 157, 160], "r": [3, 4, 6, 17, 44, 47, 52, 54, 66, 67, 69, 77, 83, 87, 94, 96, 131, 133, 138, 154, 160], "ff0000": [3, 59], "No": [3, 40, 51, 55, 67, 89, 99, 127, 131, 139, 142, 155], "extra": [3, 51, 132], "give": [3, 6, 9, 10, 13, 16, 24, 28, 30, 32, 33, 35, 36, 44, 52, 59, 66, 70, 71, 72, 77, 79, 94, 95, 99, 111, 114, 118, 119, 123, 126, 133, 139, 142, 152, 154, 156], "polygon": [3, 7, 38, 51, 59, 124, 154], "curv": [3, 44, 76, 133], "fill_between": 3, "describ": [3, 4, 5, 6, 7, 13, 14, 16, 18, 19, 26, 28, 30, 31, 32, 35, 36, 38, 39, 44, 46, 47, 48, 51, 52, 54, 55, 57, 59, 60, 62, 63, 66, 67, 70, 72, 73, 76, 77, 78, 89, 91, 92, 98, 104, 108, 110, 111, 119, 122, 123, 131, 133, 134, 138, 139, 140, 142, 148, 149, 152, 154, 156, 157, 160], "abov": [3, 5, 13, 14, 16, 18, 20, 28, 32, 35, 36, 38, 39, 40, 41, 44, 48, 51, 53, 54, 55, 58, 61, 63, 66, 70, 72, 77, 80, 81, 84, 93, 95, 100, 103, 104, 110, 119, 121, 126, 131, 133, 135, 137, 138, 139, 141, 143, 148, 151, 152, 154, 157], "plot_var2": 3, "second": [3, 16, 30, 32, 36, 44, 47, 51, 55, 59, 67, 83, 89, 93, 99, 110, 113, 119, 130, 139, 142, 148, 150, 151, 154, 157, 160], "zero": [3, 16, 30, 32, 39, 41, 59, 67, 83, 96, 97, 101, 103, 126, 133, 134], "fill_wher": 3, "plotitem": [3, 27, 44, 77, 138], "mean": [3, 13, 22, 28, 32, 39, 44, 48, 52, 58, 67, 93, 94, 110, 131, 134, 139, 141, 143, 156], "map_2d_to_1d": 3, "In": [3, 5, 6, 8, 11, 12, 15, 16, 19, 20, 22, 27, 30, 32, 38, 41, 44, 45, 48, 51, 52, 53, 54, 55, 58, 59, 60, 62, 63, 66, 67, 68, 69, 70, 72, 73, 77, 78, 79, 83, 84, 89, 91, 92, 93, 94, 95, 96, 97, 99, 101, 104, 106, 107, 108, 110, 113, 114, 117, 118, 119, 121, 122, 126, 130, 131, 133, 135, 136, 137, 139, 140, 142, 146, 147, 152, 154, 155, 157, 160], "about": [3, 5, 7, 13, 14, 16, 18, 22, 25, 33, 35, 36, 40, 47, 48, 53, 55, 59, 62, 64, 67, 72, 78, 80, 83, 91, 94, 99, 106, 111, 118, 122, 124, 131, 138, 140, 141, 142, 152, 155, 157, 160], "valu": [3, 5, 6, 7, 16, 18, 20, 22, 27, 30, 33, 34, 35, 36, 38, 39, 41, 44, 45, 47, 49, 50, 51, 53, 59, 60, 62, 64, 66, 67, 70, 71, 72, 77, 84, 89, 91, 92, 93, 96, 97, 98, 99, 101, 103, 104, 110, 111, 113, 114, 116, 117, 119, 121, 123, 124, 126, 130, 131, 133, 134, 135, 139, 140, 141, 142, 143, 148, 149, 152, 154, 155, 157, 160], "j": [3, 4, 5, 15, 17, 20, 22, 27, 33, 39, 52, 59, 66, 67, 72, 79, 91, 92, 110, 113, 114, 135, 136], "v": [3, 16, 25, 29, 30, 32, 47, 60, 63, 111, 118, 140, 152], "radiu": [3, 142, 148, 149, 154], "q0_vs_radiu": 3, "convert": [3, 22, 25, 30, 33, 42, 47, 51, 58, 59, 62, 70, 73, 84, 91, 96, 104, 105, 121, 124, 139, 140, 148, 152, 156], "numpi": [3, 13, 30, 32, 39, 47, 66, 80, 82, 83, 84, 86, 89, 96, 101, 102, 103, 105, 111, 132, 133, 141, 154, 155], "sqrt": [3, 32, 64, 83, 96, 97, 103, 141], "q0": [3, 96], "work": [3, 5, 8, 13, 16, 19, 20, 22, 24, 25, 26, 28, 29, 32, 35, 36, 40, 45, 48, 51, 52, 53, 54, 55, 56, 57, 58, 59, 66, 67, 69, 70, 71, 77, 80, 81, 82, 83, 85, 86, 87, 91, 92, 93, 94, 97, 99, 100, 105, 106, 108, 109, 110, 111, 115, 116, 117, 118, 119, 120, 121, 124, 126, 127, 129, 131, 137, 138, 139, 140, 142, 144, 149, 152, 155, 159], "symbol": [3, 67, 106], "best": [3, 4, 16, 22, 26, 28, 41, 51, 53, 55, 56, 62, 69, 71, 76, 77, 92, 96, 108, 109, 110, 111, 121, 129, 131, 142, 145, 148, 152, 157], "descript": [3, 4, 6, 9, 22, 23, 25, 30, 59, 67, 70, 73, 76, 91, 92, 104, 108, 110, 131, 132, 142, 148, 152, 160], "celledges_show": [3, 22], "draw": 3, "amr_celledges_show": 3, "some": [3, 4, 5, 6, 7, 8, 10, 12, 16, 17, 18, 19, 20, 21, 22, 23, 24, 25, 27, 28, 30, 32, 35, 36, 39, 41, 42, 44, 45, 46, 48, 49, 51, 52, 53, 54, 55, 58, 63, 66, 70, 71, 72, 76, 78, 79, 81, 84, 85, 87, 91, 92, 93, 95, 96, 98, 100, 101, 102, 103, 105, 106, 108, 109, 110, 111, 113, 114, 115, 116, 117, 118, 119, 120, 121, 122, 123, 124, 125, 126, 127, 128, 129, 131, 133, 134, 135, 138, 139, 140, 141, 142, 143, 144, 148, 149, 151, 152, 154, 157], "level": [3, 6, 7, 16, 23, 27, 29, 32, 38, 39, 44, 45, 46, 47, 48, 51, 54, 55, 57, 58, 67, 71, 72, 84, 86, 89, 91, 92, 93, 99, 106, 107, 110, 111, 113, 114, 118, 119, 121, 124, 130, 133, 134, 137, 139, 140, 141, 142, 143, 151, 152, 154, 156, 157], "patchedges_show": [3, 22], "mostli": [3, 76, 91, 124], "contour_level": [3, 154], "three": [3, 13, 17, 22, 30, 32, 48, 51, 63, 67, 70, 94, 98, 104, 111, 133, 139, 142, 152, 154, 157], "contour_nlevel": 3, "contour_min": 3, "float": [3, 30, 32, 44, 47, 59, 86, 89, 97, 101, 104, 139, 140, 142, 143, 148, 154], "minimum": [3, 32, 44, 51, 70, 103, 119, 142, 154], "contour_max": 3, "maximum": [3, 22, 30, 32, 33, 34, 45, 67, 99, 103, 110, 113, 114, 121, 124, 139, 140, 141, 143, 148, 149], "contour_color": 3, "specif": [3, 5, 12, 22, 28, 30, 44, 45, 47, 51, 52, 58, 61, 63, 64, 81, 82, 84, 86, 91, 92, 93, 97, 98, 104, 108, 119, 120, 121, 124, 138, 139, 140, 141, 143, 149, 152], "b": [3, 5, 17, 28, 30, 32, 33, 39, 44, 52, 54, 55, 64, 77, 99, 110, 117, 124, 133, 134, 135, 142, 154, 156], "0000ff": [3, 59], "colormap": [3, 30, 39, 46, 51, 66, 67, 76, 78, 118, 124, 154], "amr_contour_color": 3, "As": [3, 36, 39, 45, 48, 54, 55, 59, 83, 103, 105, 109, 113, 124, 131, 132, 135, 142, 150, 157], "instead": [3, 13, 18, 32, 35, 36, 39, 41, 44, 52, 54, 55, 58, 62, 63, 68, 100, 101, 104, 106, 118, 119, 122, 126, 130, 131, 132, 133, 152, 154], "black": [3, 44], "subsequ": [3, 10, 67], "both": [3, 16, 18, 28, 30, 33, 35, 36, 38, 39, 44, 48, 53, 56, 58, 63, 66, 67, 70, 72, 84, 92, 93, 94, 99, 100, 110, 111, 117, 118, 121, 124, 131, 132, 133, 135, 139, 140, 141, 143, 146, 152, 157], "fine": [3, 32, 33, 39, 54, 69, 73, 91, 96, 110, 119, 126, 133, 135, 139, 140, 142, 152, 157], "coars": [3, 32, 51, 110, 119, 126, 139, 152, 157], "anoth": [3, 22, 39, 44, 51, 55, 58, 59, 72, 76, 80, 88, 99, 102, 111, 121, 148, 157], "refin": [3, 4, 5, 7, 8, 17, 22, 45, 48, 51, 52, 53, 66, 67, 72, 73, 83, 119, 121, 122, 124, 126, 133, 135, 138, 139, 140, 141, 151, 152, 157], "region": [3, 6, 7, 13, 16, 22, 32, 38, 39, 45, 48, 49, 51, 59, 64, 70, 73, 108, 121, 124, 126, 134, 135, 140, 141, 152, 154], "lack": 3, "hidden": [3, 62, 77], "blank": [3, 33, 59, 148], "coarser": [3, 16, 53, 119, 135, 139, 140, 157], "easili": [3, 13, 28, 32, 51, 54, 67, 77, 84, 89, 100, 104, 111, 124, 144], "contour_show": 3, "boolean": [3, 51, 66, 92, 97, 139, 140, 142], "most": [3, 18, 20, 22, 27, 29, 32, 35, 36, 40, 41, 44, 48, 50, 51, 52, 53, 54, 57, 59, 62, 66, 67, 71, 73, 76, 77, 79, 81, 89, 93, 94, 99, 102, 103, 105, 110, 111, 118, 120, 126, 129, 130, 131, 132, 133, 134, 138, 139, 140, 142, 145, 157], "commonli": [3, 67, 77, 79], "amr_contour_show": 3, "tupl": [3, 30, 47, 59, 70, 77, 89, 93, 154], "determin": [3, 5, 6, 30, 32, 39, 44, 45, 48, 50, 51, 54, 59, 70, 77, 87, 89, 92, 97, 101, 106, 110, 114, 118, 119, 130, 133, 134, 138, 139, 140, 142, 154, 157], "whether": [3, 6, 13, 16, 22, 47, 53, 56, 58, 60, 61, 62, 67, 81, 89, 92, 93, 97, 98, 99, 110, 111, 119, 131, 133, 139, 140, 142, 154], "view": [3, 4, 22, 35, 36, 44, 45, 51, 53, 54, 59, 72, 76, 78, 79, 83, 94, 100, 105, 117, 121, 144, 145], "finest": [3, 32, 39, 44, 121, 151, 154], "contour_kwarg": [3, 154], "pcolor_cmap": [3, 51], "pcolor_cmin": 3, "pcolor_cmax": 3, "rang": [3, 5, 13, 30, 44, 47, 51, 110, 113, 118, 132, 133], "thei": [3, 5, 6, 13, 16, 24, 27, 28, 30, 32, 38, 39, 44, 48, 51, 54, 55, 58, 59, 60, 63, 66, 67, 72, 76, 89, 91, 96, 99, 104, 110, 111, 119, 126, 135, 138, 142, 148, 152, 154, 157], "chosen": [3, 29, 32, 38, 39, 51, 53, 66, 103, 110, 126, 134, 140], "vari": [3, 15, 17, 25, 30, 39, 45, 53, 64, 96, 98, 117, 124, 131, 132, 134, 136, 140, 160], "yield": 3, "veri": [3, 5, 16, 18, 22, 48, 51, 55, 56, 59, 70, 77, 81, 84, 92, 93, 94, 95, 96, 99, 111, 114, 118, 133, 135, 139, 149, 152], "confus": [3, 53, 58, 106, 126, 131], "pcolor_colorbar": 3, "colorbar": [3, 39, 59, 66, 121, 124, 133, 154], "ad": [3, 12, 16, 18, 20, 22, 24, 25, 27, 29, 32, 34, 41, 44, 47, 53, 54, 55, 58, 59, 60, 64, 67, 70, 77, 82, 84, 87, 89, 90, 93, 94, 106, 107, 108, 110, 113, 114, 115, 116, 117, 118, 119, 120, 121, 122, 123, 124, 125, 127, 130, 135, 139, 140, 142, 148, 151, 154, 158], "relat": [3, 7, 22, 24, 54, 73, 97, 108, 120, 124, 126, 134], "same": [3, 5, 6, 8, 13, 16, 22, 25, 28, 31, 32, 33, 39, 41, 44, 46, 47, 48, 51, 53, 55, 58, 59, 60, 62, 64, 66, 68, 70, 73, 76, 77, 78, 79, 83, 87, 89, 91, 92, 93, 96, 97, 99, 104, 105, 113, 114, 118, 119, 124, 126, 130, 131, 133, 139, 140, 141, 142, 146, 152, 154, 157], "pre": [3, 13, 33, 55, 85, 92], "pend": 3, "amr_": [3, 7], "whose": [3, 77, 84, 96, 97, 135, 139, 140, 154], "origin": [3, 6, 13, 16, 20, 28, 30, 34, 44, 52, 54, 66, 71, 72, 84, 99, 104, 113, 119, 126, 130, 140, 141, 143, 154], "hand": [3, 5, 18, 19, 20, 64, 83, 111, 133], "higher": [3, 6, 32, 51, 89, 99, 100, 110, 124, 131, 133, 134, 135], "shorter": [3, 110, 154], "last": [3, 18, 27, 32, 55, 57, 77, 83, 84, 96, 103, 118, 139, 148], "repeatedli": [3, 94, 100, 140], "common": [3, 23, 28, 35, 36, 40, 41, 62, 63, 73, 76, 83, 97, 99, 101, 102, 119, 121, 124, 155, 157], "finer": [3, 7, 32, 51, 110, 113, 114, 133, 139, 140], "celledg": [3, 30], "stand": [4, 126], "conserv": [4, 5, 6, 17, 93, 99, 101, 122, 132, 157, 160], "law": [4, 17, 59, 142, 160], "packag": [4, 25, 28, 29, 35, 36, 51, 55, 56, 63, 73, 76, 80, 81, 83, 89, 91, 93, 95, 96, 98, 100, 103, 105, 106, 123, 124, 155, 158], "wa": [4, 5, 6, 14, 18, 19, 20, 25, 29, 30, 32, 33, 39, 48, 50, 54, 55, 62, 64, 66, 67, 70, 77, 94, 98, 99, 101, 110, 111, 112, 113, 114, 115, 116, 117, 118, 119, 120, 121, 122, 123, 124, 125, 126, 127, 128, 130, 133, 135, 142, 151, 152, 154], "initi": [4, 5, 7, 12, 13, 22, 25, 30, 44, 45, 47, 48, 51, 55, 60, 63, 67, 70, 73, 79, 81, 82, 83, 84, 86, 87, 89, 90, 92, 93, 97, 98, 99, 101, 102, 104, 107, 110, 118, 121, 124, 126, 131, 134, 139, 140, 141, 142, 143, 148, 152, 154], "develop": [4, 6, 7, 12, 13, 18, 22, 23, 48, 52, 54, 57, 58, 61, 66, 67, 76, 80, 81, 84, 91, 96, 99, 100, 106, 108, 111, 121, 122, 124, 126, 131, 134, 135, 141], "linear": [4, 5, 17, 30, 32, 51, 70, 77, 83, 87, 99, 122, 131, 132, 133], "nonlinear": [4, 5, 17, 48, 87, 131, 139, 160], "hyperbol": [4, 5, 6, 17, 42, 73, 84, 91, 96, 97, 103, 131, 139, 142, 157, 160], "system": [4, 16, 17, 23, 36, 37, 51, 52, 58, 59, 63, 71, 72, 81, 91, 93, 94, 96, 97, 100, 103, 106, 111, 131, 139, 141, 143, 150, 157, 160], "focu": [4, 45], "high": [4, 17, 32, 48, 51, 66, 70, 73, 84, 91, 99, 131, 134, 135, 156, 157], "resolut": [4, 6, 17, 18, 30, 32, 39, 44, 70, 89, 99, 103, 104, 113, 117, 121, 122, 131, 134, 142, 152, 154, 156, 157], "godunov": [4, 89, 99, 139, 141, 143, 157], "method": [4, 5, 7, 17, 32, 38, 42, 44, 53, 66, 77, 79, 83, 86, 87, 89, 94, 98, 99, 104, 110, 111, 117, 131, 138, 139, 140, 141, 143, 148, 151, 152, 154, 157], "framework": [4, 81, 84, 118, 119], "applic": [4, 6, 15, 16, 19, 20, 22, 23, 24, 28, 29, 32, 35, 36, 37, 41, 42, 43, 45, 46, 55, 57, 58, 63, 66, 68, 71, 79, 88, 89, 90, 91, 93, 99, 104, 107, 109, 110, 111, 113, 116, 117, 119, 120, 121, 123, 124, 131, 133, 135, 136, 139, 142, 146, 147, 152, 154, 155, 157, 158], "finit": [4, 17, 32, 42, 53, 59, 66, 67, 70, 99, 124, 133, 151, 152, 157], "volum": [4, 17, 29, 32, 42, 53, 59, 66, 67, 91, 124, 133, 140, 151, 152, 157], "riemann": [4, 5, 8, 20, 22, 23, 28, 29, 45, 55, 58, 63, 73, 81, 83, 89, 90, 99, 100, 101, 103, 106, 137, 139, 141, 143, 146, 147, 160], "solver": [4, 5, 6, 20, 22, 23, 25, 28, 45, 56, 57, 58, 63, 80, 81, 82, 86, 89, 90, 93, 101, 115, 117, 119, 120, 121, 122, 123, 124, 126, 139, 141, 143, 146, 147, 160], "resolv": [4, 32, 51, 54, 58, 108, 121, 135], "jump": [4, 5, 67, 79, 89, 99, 119, 139, 160], "discontinu": [4, 99, 160], "interfac": [4, 19, 22, 67, 81, 84, 87, 91, 92, 97, 99, 104, 131, 157, 158, 160], "grid": [4, 7, 17, 18, 19, 20, 22, 23, 25, 27, 28, 33, 38, 39, 44, 45, 46, 48, 51, 52, 59, 66, 67, 72, 73, 76, 81, 83, 91, 93, 94, 96, 97, 98, 99, 101, 103, 110, 111, 113, 114, 116, 117, 119, 120, 121, 124, 126, 128, 131, 132, 133, 134, 135, 139, 140, 141, 143, 149, 151, 152, 154, 156, 157, 160], "wave": [4, 5, 6, 16, 17, 25, 32, 39, 48, 51, 52, 70, 87, 89, 91, 96, 97, 99, 110, 117, 119, 120, 126, 132, 133, 134, 139, 140, 141, 142, 143, 157], "propag": [4, 5, 6, 17, 25, 30, 48, 51, 52, 70, 89, 91, 99, 110, 119, 131], "neighbor": [4, 32, 39, 66, 110, 119, 135, 140, 141, 154], "formul": [4, 5, 48, 64, 131, 139], "allow": [4, 6, 13, 18, 22, 27, 28, 29, 32, 38, 39, 44, 45, 47, 50, 51, 53, 54, 58, 64, 66, 67, 70, 71, 73, 76, 77, 86, 91, 92, 93, 99, 101, 104, 105, 106, 110, 111, 113, 114, 117, 118, 119, 120, 121, 123, 124, 126, 131, 133, 139, 141, 142, 143, 144, 148, 152, 154, 156], "easi": [4, 6, 11, 29, 38, 58, 67, 84, 93, 94, 95, 133, 144, 157], "extens": [4, 17, 22, 24, 28, 30, 48, 51, 54, 58, 63, 67, 84, 91, 92, 104, 119, 120, 126, 139, 150, 154, 160], "problem": [4, 5, 7, 16, 17, 20, 24, 25, 27, 28, 29, 35, 36, 39, 42, 45, 58, 62, 66, 67, 70, 73, 77, 80, 82, 83, 88, 90, 91, 94, 97, 99, 102, 106, 111, 113, 114, 116, 117, 120, 124, 126, 131, 133, 135, 139, 140, 141, 142, 143, 144, 151, 155], "algorithm": [4, 7, 25, 32, 38, 39, 45, 52, 83, 89, 91, 92, 99, 103, 110, 121, 131, 133, 139, 141, 143, 154], "brief": [4, 55, 132, 142], "subroutin": [4, 6, 9, 16, 22, 32, 63, 110, 117, 131, 139, 140, 151, 157, 160], "equat": [4, 5, 16, 17, 25, 35, 36, 45, 48, 60, 64, 77, 82, 83, 84, 86, 91, 92, 93, 96, 99, 100, 101, 114, 117, 119, 121, 122, 131, 139, 141, 142, 143, 152, 157, 160], "solv": [4, 5, 8, 16, 17, 20, 26, 35, 36, 48, 56, 58, 60, 82, 84, 86, 89, 91, 96, 97, 100, 122, 131, 132, 139, 152, 157, 160], "adapt": [4, 7, 17, 30, 39, 52, 53, 66, 67, 73, 83, 110, 121, 124, 126, 131, 133, 138, 139, 140, 142, 157], "mesh": [4, 7, 17, 33, 52, 66, 67, 73, 76, 83, 110, 124, 138, 139, 157], "includ": [4, 6, 13, 18, 21, 22, 23, 27, 28, 29, 30, 32, 35, 36, 38, 40, 41, 43, 44, 48, 51, 53, 55, 57, 58, 59, 61, 63, 64, 66, 67, 68, 70, 71, 73, 76, 77, 79, 81, 83, 84, 88, 89, 91, 92, 93, 94, 95, 96, 97, 98, 99, 100, 101, 103, 106, 108, 110, 111, 113, 119, 120, 121, 122, 123, 124, 125, 126, 127, 128, 131, 132, 133, 137, 139, 141, 142, 144, 145, 148, 149, 151, 152, 154, 157], "amrclaw": [4, 5, 6, 12, 15, 16, 19, 20, 22, 23, 24, 28, 36, 38, 39, 41, 43, 44, 45, 46, 52, 55, 56, 57, 58, 60, 66, 67, 68, 71, 72, 73, 80, 91, 100, 106, 107, 110, 111, 130, 131, 133, 136, 137, 139, 142, 146, 147, 150, 151, 155], "detail": [4, 5, 10, 16, 18, 22, 23, 25, 26, 28, 29, 30, 32, 35, 36, 38, 41, 46, 48, 51, 54, 57, 58, 61, 62, 66, 67, 70, 73, 77, 81, 86, 87, 88, 89, 91, 92, 93, 94, 95, 96, 97, 99, 109, 110, 111, 114, 119, 121, 126, 131, 133, 138, 139, 142, 144, 148, 152, 155, 156, 157, 160], "content": [4, 6, 23, 51, 55, 73, 84, 91, 142, 152, 157, 158], "routin": [4, 5, 6, 16, 20, 25, 27, 30, 32, 35, 36, 44, 45, 46, 51, 52, 62, 67, 68, 71, 72, 73, 76, 79, 81, 84, 86, 89, 92, 95, 96, 99, 101, 102, 110, 113, 114, 117, 119, 121, 122, 124, 131, 135, 139, 141, 143, 148, 154, 155, 157, 158, 160], "special": [4, 7, 16, 18, 45, 46, 51, 61, 73, 81, 110, 133, 154], "depth": [4, 5, 16, 17, 22, 30, 32, 33, 39, 44, 45, 48, 64, 70, 76, 78, 132, 134, 135, 142, 152], "averag": [4, 6, 15, 17, 32, 39, 45, 48, 49, 53, 67, 97, 101, 114, 126, 131, 135, 136, 152, 154, 157], "geophys": [4, 16, 17, 23, 45, 48, 73, 139], "flow": [4, 16, 17, 18, 23, 32, 33, 45, 46, 48, 73, 91, 108, 124, 131, 139, 142, 152, 157], "geoclaw": [4, 7, 12, 17, 23, 24, 28, 30, 32, 33, 34, 36, 38, 41, 43, 44, 52, 53, 55, 56, 57, 58, 59, 60, 64, 66, 68, 70, 73, 76, 80, 91, 100, 106, 108, 109, 111, 130, 131, 132, 134, 135, 137, 139, 140, 148, 149, 150, 151, 152, 153, 154, 155, 156, 157], "parallel": [4, 22, 23, 44, 71, 82, 88, 90, 91, 93, 96, 98, 100, 104, 110, 111, 119, 140], "scale": [4, 30, 49, 51, 67, 73, 91, 92, 113, 119, 121, 126, 142], "ten": [4, 73], "thousand": [4, 73], "core": [4, 12, 73, 111, 121], "wish": [4, 13, 14, 15, 22, 29, 35, 36, 48, 51, 58, 67, 75, 76, 91, 96, 99, 100, 102, 106, 108, 110, 119, 136, 144, 146, 147, 155], "discrib": 4, "book": [4, 12, 17, 25, 29, 80, 98, 131], "levequ": [4, 16, 17, 24, 30, 52, 73, 87, 89, 91, 99, 105, 131, 139, 157, 160], "fvmhp": [4, 12, 16, 17, 25, 73, 131, 139, 157, 160], "virtual": [4, 13, 25, 27, 101], "were": [4, 6, 14, 18, 20, 32, 44, 54, 60, 63, 67, 68, 84, 110, 113, 119, 122, 126, 133, 135, 152], "4": [4, 7, 8, 9, 13, 16, 17, 18, 23, 25, 28, 30, 32, 33, 34, 36, 38, 39, 41, 42, 44, 45, 48, 51, 53, 54, 55, 62, 63, 64, 66, 67, 71, 76, 77, 79, 90, 91, 92, 93, 94, 96, 97, 99, 100, 104, 106, 110, 111, 113, 118, 121, 126, 127, 130, 133, 139, 140, 141, 142, 143, 150, 151, 152, 154, 159], "3": [4, 6, 7, 15, 16, 20, 22, 24, 25, 30, 32, 33, 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81], "bsd": [4, 61, 81, 121], "peopl": [4, 12, 13, 81], "contribut": [4, 24, 25, 57, 81, 84, 91, 96, 99, 108, 111], "its": [4, 6, 13, 22, 29, 34, 39, 48, 51, 61, 63, 66, 70, 72, 81, 86, 87, 88, 89, 91, 96, 98, 99, 101, 104, 110, 141, 154, 160], "incept": 4, "1994": [4, 61], "major": [4, 22, 54, 55, 81, 84, 112, 113, 114, 115, 120, 122, 127], "design": [4, 27, 28, 51, 81, 83, 103, 133, 156], "made": [4, 18, 22, 28, 30, 58, 98, 101, 113, 114, 119, 121, 124, 126, 133, 135, 142, 149, 152, 154, 157], "individu": [4, 22, 23, 51, 59, 62, 63, 67, 89, 110, 111, 148], "randal": [4, 17, 91], "univers": [4, 17, 24, 54, 61, 81, 98], "washington": [4, 17, 24, 54, 61, 123, 133, 154], "rjlevequ": [4, 28, 29], "marsha": [4, 6, 17], "berger": [4, 6, 17], "courant": [4, 6, 110, 120, 139, 140, 141, 143], "institut": 4, "nyu": 4, "mjberger": 4, "jan": [4, 55], "olav": 4, "langseth": [4, 17], "norwegian": 4, "defenc": 4, "research": [4, 17, 45, 48, 81, 99, 109], "establish": 4, "david": [4, 17, 81, 91, 99], "georg": [4, 17, 30], "usg": [4, 30, 156], "cascad": 4, "volcano": 4, "observatori": 4, "dlgeorg": 4, "ketcheson": [4, 17, 74, 81, 91, 99], "kaust": [4, 24], "ketch": 4, "kyle": [4, 17, 81, 87, 91, 92, 97], "mandli": [4, 17, 81, 87, 91, 92, 97], "ut": 4, "austin": 4, "contributor": [4, 24, 61, 91], "aron": [4, 17, 81, 91], "ahmadia": [4, 17, 81, 91], "amal": [4, 17, 81, 91], "alghamdi": [4, 17, 81, 91], "ghamdi": 4, "ian": 4, "bollig": 4, "bolliger32": 4, "peter": 4, "blossei": 4, "donna": [4, 17], "calhoun": [4, 17, 51], "donnabois": 4, "ond\u0159ej": 4, "\u010dert\u00edk": 4, "certik": [4, 81], "brisa": 4, "davi": [4, 17], "brisadavi": [4, 122], "gradi": [4, 17, 81], "lemoin": [4, 17, 81], "gradylemoin": 4, "sorin": 4, "mitran": [4, 17], "matteo": [4, 17, 81, 91], "parsani": [4, 17, 81, 91], "mparsani": 4, "xinsheng": [4, 52], "qin": [4, 52], "xinshengqin": [4, 52], "avi": 4, "schwarzschild": 4, "aks2203": 4, "andi": 4, "terrel": 4, "aterrel": 4, "chri": 4, "vogl": 4, "cjvogl": 4, 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54, 64, 66, 77, 80, 89, 100, 106, 110, 126, 129, 133, 134, 135, 140, 141], "http": [4, 12, 13, 17, 18, 24, 26, 28, 29, 30, 39, 47, 51, 52, 54, 55, 57, 58, 60, 61, 66, 68, 70, 80, 81, 84, 85, 92, 94, 96, 105, 106, 116, 118, 119, 120, 122, 123, 126, 127, 128, 129, 132, 148, 154], "www": [4, 13, 17, 30, 39, 45, 54, 60, 61, 66, 68, 81, 84, 89, 92, 94, 120, 122, 148, 154], "org": [4, 17, 45, 52, 54, 55, 60, 61, 81, 84, 85, 89, 92, 94, 105, 106, 118, 120, 122, 126, 127, 128, 154], "doi": [4, 17, 52, 55, 57, 124, 125, 126, 127, 128, 129], "10": [4, 17, 30, 32, 39, 51, 52, 53, 55, 77, 83, 86, 89, 110, 118, 119, 121, 124, 125, 126, 127, 128, 129, 133, 139, 140, 141, 143, 152], "5281": [4, 55, 124, 125, 126, 127, 128, 129], "zenodo": [4, 57, 124, 125, 126, 127, 128, 129], "4025432": [4, 125, 129], "here": [4, 13, 16, 29, 38, 39, 48, 55, 58, 59, 66, 73, 77, 79, 83, 86, 91, 92, 94, 96, 97, 102, 103, 106, 108, 110, 117, 131, 132, 133, 149, 154, 160], "bibtex": [4, 55], "misc": [4, 123, 125], "url": [4, 12, 17, 51, 55, 121, 122, 152, 154], "year": [4, 17, 22, 51, 59, 91, 112, 122, 148], "appropri": [4, 5, 6, 13, 16, 24, 28, 45, 48, 49, 51, 55, 57, 59, 60, 64, 67, 68, 69, 71, 83, 86, 87, 88, 92, 94, 95, 96, 97, 98, 111, 123, 131, 134, 139, 148, 157, 160], "releas": [4, 18, 22, 25, 28, 29, 43, 51, 56, 57, 58, 85, 91, 99, 100, 105], "refer": [4, 5, 20, 30, 32, 33, 35, 36, 38, 45, 46, 51, 62, 63, 67, 70, 83, 87, 89, 92, 93, 97, 99, 101, 106, 108, 121, 123, 130, 131, 133, 142, 148, 152, 154, 156, 157], "particular": [4, 6, 12, 20, 22, 28, 30, 32, 41, 44, 45, 46, 48, 51, 52, 55, 61, 62, 63, 67, 73, 77, 78, 80, 81, 83, 97, 98, 99, 101, 103, 108, 109, 110, 111, 114, 117, 118, 119, 120, 121, 123, 124, 126, 138, 148, 149, 160], "obtain": [4, 6, 12, 32, 43, 44, 46, 48, 58, 59, 92, 93, 94, 110, 126, 131, 135, 142, 144, 152, 160], "your": [4, 6, 15, 16, 19, 20, 24, 25, 26, 35, 37, 41, 44, 53, 54, 55, 56, 57, 58, 68, 71, 76, 77, 79, 81, 82, 83, 84, 85, 88, 90, 91, 92, 93, 102, 103, 105, 106, 107, 108, 110, 111, 113, 121, 131, 136, 137, 146, 147, 152, 155, 157], "multipl": [4, 5, 6, 13, 23, 28, 32, 33, 39, 44, 76, 83, 89, 92, 93, 104, 106, 111, 113, 119, 123, 130, 131, 140, 148, 149], "past": [4, 21, 25, 54, 60, 66, 98, 119, 122, 126, 129, 133, 134, 142], "17605": [4, 55, 129], "osf": [4, 129], "io": [4, 54, 55, 80, 93, 98, 129], "kmw6h": [4, 55, 129], "recent": [4, 13, 22, 27, 30, 50, 54, 57, 62, 64, 71, 77, 79, 80, 118, 122, 123, 124, 125, 126, 127, 128, 129, 131, 156], "articl": [4, 17, 91, 144], "m": [4, 17, 20, 22, 28, 30, 44, 47, 51, 52, 54, 55, 59, 66, 67, 70, 72, 84, 110, 116, 131, 133, 142, 154, 157, 160], "d": [4, 7, 17, 28, 30, 47, 51, 59, 88, 97, 106, 111, 131], "l": [4, 7, 17, 32, 40, 57, 110, 131, 137, 141], "hadjimichael": [4, 17, 81], "2016": [4, 17, 24, 54], "build": [4, 17, 28, 29, 54, 55, 67, 84, 94, 104, 120, 133], "open": [4, 13, 17, 25, 28, 29, 30, 51, 59, 76, 81, 85, 89, 92, 104, 133, 137, 156, 158], "sourc": [4, 17, 23, 25, 28, 30, 41, 45, 51, 52, 54, 55, 57, 58, 59, 61, 63, 64, 76, 81, 84, 88, 89, 90, 99, 100, 102, 103, 104, 108, 109, 111, 119, 120, 121, 132, 134, 139, 141, 142, 143, 145, 146, 147, 148, 152], "ecosystem": [4, 17], "pde": [4, 5, 17, 56, 57, 58, 73, 80, 91, 103, 139, 157], "peerj": [4, 17], "scienc": [4, 17, 81], "7717": [4, 17], "c": [4, 16, 17, 28, 29, 30, 41, 51, 59, 61, 77, 81, 83, 84, 89, 97, 102, 103, 131], "68": [4, 17], "mandli2016clawpack": [4, 17], "yianni": [4, 17, 81], "journal": [4, 17, 52, 91, 144], "e68": [4, 17], "publish": [4, 17, 54, 91], "inc": [4, 17, 67], "least": [4, 5, 6, 13, 51, 59, 66, 67, 102, 110, 111, 118, 119, 126, 139, 141, 152, 154], "regard": [4, 38, 118, 148], "click": [4, 12, 13, 18, 28, 51, 54, 111, 120, 129], "link": [4, 11, 13, 15, 17, 18, 19, 20, 24, 25, 28, 41, 42, 45, 51, 52, 53, 54, 55, 57, 59, 68, 105, 106, 107, 120, 129, 131, 132, 134, 136, 143, 146, 147, 152, 156], "classic": [4, 6, 12, 15, 16, 19, 20, 22, 23, 24, 28, 41, 42, 43, 46, 55, 56, 57, 58, 63, 69, 71, 72, 73, 80, 81, 83, 86, 88, 89, 90, 91, 92, 96, 106, 107, 111, 130, 131, 136, 137, 140, 142, 147, 155, 157], "2d": [4, 7, 8, 15, 16, 19, 22, 25, 27, 30, 32, 38, 39, 45, 47, 52, 59, 67, 71, 76, 81, 83, 89, 91, 95, 99, 105, 107, 110, 117, 119, 120, 121, 122, 123, 126, 132, 133, 135, 136, 139, 140, 143, 146, 147, 154, 158, 160], "leveque97": [4, 17], "3d": [4, 7, 15, 22, 30, 67, 71, 76, 81, 91, 95, 99, 107, 110, 113, 115, 117, 118, 119, 122, 131, 133, 136, 139, 140, 146, 147, 158, 160], "langsethleveque00": [4, 17], "amr": [4, 7, 8, 16, 18, 20, 23, 25, 27, 28, 32, 34, 38, 44, 45, 52, 59, 67, 72, 73, 76, 81, 89, 118, 120, 121, 122, 124, 126, 135, 138, 139, 141, 143, 151, 157], "bergerleveque98": [4, 6, 7, 17], "f": [4, 5, 6, 16, 20, 22, 25, 27, 28, 31, 62, 63, 68, 72, 84, 86, 92, 93, 96, 97, 99, 101, 102, 104, 113, 117, 120, 121, 122, 126, 132, 139, 140, 141, 143, 154, 155, 157], "balelevmitross02": [4, 17, 139, 160], "bergergeorgelevequemandli11": [4, 17], "levequegeorgeberg": [4, 17], "order": 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77, 80, 89, 98, 101, 104, 110, 111, 114, 119, 123, 126, 130, 131, 132, 135, 148, 154, 155, 157], "de": [4, 17, 81, 91, 133], "fg06": 4, "93er25181": 4, "fg03": 4, "96er25292": 4, "fg02": 4, "88er25053": 4, "92er25139": 4, "00er2592": 4, "fc02": 4, "01er25474": 4, "afosr": 4, "f49620": 4, "94": 4, "0132": 4, "nih": 4, "5r01ar53652": 4, "onr": 4, "n00014": 4, "09": [4, 89, 97, 151], "0649": 4, "council": 4, "nfr": 4, "through": [4, 13, 28, 35, 36, 44, 48, 51, 66, 67, 73, 76, 84, 96, 101, 103, 104, 106, 109, 110], "program": [4, 46, 48, 63, 73], "101039": 4, "420": 4, "scientif": [4, 17, 80, 91, 94, 105], "divis": [4, 51], "nation": [4, 48, 148], "center": [4, 5, 27, 30, 32, 33, 39, 44, 51, 53, 59, 70, 83, 89, 96, 97, 103, 110, 121, 133, 135, 140, 141, 142, 148, 149, 152, 157], "atmospher": 4, "ncar": 4, "boe": 4, "professorship": 4, "founder": 4, "depart": [4, 148], "mathemat": 4, "comot": 4, "fellowship": 4, "king": [4, 81], "abdullah": [4, 81], "technologi": [4, 81], "contract": [4, 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135, 139, 148], "autonom": 5, "case": [5, 6, 8, 13, 16, 18, 19, 22, 30, 32, 38, 41, 44, 45, 48, 51, 58, 59, 63, 66, 67, 70, 77, 83, 89, 92, 94, 96, 98, 104, 106, 110, 111, 114, 117, 118, 119, 120, 121, 126, 130, 133, 134, 140, 142, 148, 152, 154, 155, 157, 160], "shift": [5, 30, 48, 53], "perform": [5, 6, 17, 22, 27, 48, 51, 53, 71, 73, 76, 77, 86, 89, 92, 96, 99, 104, 111, 123, 126, 130, 131, 137, 142, 150], "snapshot": [5, 28, 93, 122], "save": [5, 13, 25, 26, 33, 39, 50, 59, 72, 86, 90, 99, 118, 119, 121, 126, 130, 149, 154], "space": [5, 6, 7, 16, 17, 18, 30, 32, 33, 44, 51, 53, 70, 89, 93, 96, 110, 117, 130, 133, 139, 140, 141, 142, 143, 152, 154, 157], "interpol": [5, 6, 16, 18, 30, 33, 34, 39, 44, 45, 53, 59, 67, 70, 77, 119, 126, 133, 134, 135, 142, 148, 149, 154], "regrid": [5, 10, 110, 113, 114, 119, 122, 123, 140, 141, 151], "davisleveque2018": [5, 17], "davis2018": [5, 17], "discuss": [5, 24, 28, 30, 48, 53, 66, 70, 92, 103, 105, 106, 110, 119, 121, 131, 142, 160], "when": 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60, 70, 72, 84, 89, 93, 117, 121, 136, 152, 154, 157], "leq": [5, 133], "full": [5, 6, 14, 18, 55, 57, 58, 59, 77, 86, 93, 99, 103, 137, 152, 157], "backward": [5, 28, 30, 33, 47, 59, 70, 92, 114, 115, 154], "small": [5, 16, 39, 44, 64, 66, 110, 111, 113, 118, 130, 139, 141, 142, 152, 154, 156], "sai": [5, 13, 16, 28, 59, 102, 110], "x_1": [5, 133], "x_2": [5, 133], "might": [5, 10, 13, 14, 16, 22, 28, 29, 35, 36, 37, 38, 39, 47, 51, 53, 54, 58, 63, 66, 67, 71, 77, 80, 83, 93, 97, 106, 108, 109, 110, 113, 139, 140, 152, 154, 156, 157], "box": [5, 30, 33, 51, 59, 133, 154], "interv": [5, 44, 47, 83, 103, 110, 126, 133, 139, 142], "elsewher": [5, 24, 39, 91, 133], "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], "sharpli": 5, "peak": 5, "gaussian": [5, 83, 103, 143], "locat": [5, 6, 7, 13, 30, 32, 46, 47, 51, 53, 55, 58, 60, 67, 72, 89, 93, 95, 97, 98, 104, 106, 108, 110, 118, 120, 134, 135, 148, 149, 154], "final": [5, 30, 41, 54, 60, 67, 70, 83, 86, 93, 103, 108, 113, 130, 132, 139, 141, 143, 154], "necessari": [5, 6, 13, 35, 36, 46, 48, 51, 54, 55, 58, 59, 67, 70, 72, 73, 79, 83, 84, 89, 92, 117, 119, 121, 130, 131, 138, 139, 140, 152, 155, 157], "place": [5, 16, 20, 24, 28, 30, 35, 36, 51, 54, 58, 62, 63, 69, 91, 93, 94, 96, 100, 106, 113, 119, 157], "earlier": [5, 20, 22, 30, 32, 38, 53, 70, 83, 96, 113, 120, 152, 154], "help": [5, 7, 9, 23, 24, 25, 28, 29, 39, 40, 49, 54, 56, 62, 76, 79, 91, 94, 100, 104, 111, 118, 124, 131, 144, 155], "identifi": [5, 35, 36, 39, 51, 66, 84, 110, 124, 148], "hat": 5, "given": [5, 30, 39, 47, 51, 53, 59, 64, 67, 70, 87, 94, 98, 99, 101, 104, 110, 126, 133, 134, 135, 142, 152, 154, 157], "t_r": 5, "reach": [5, 110], "claw": [5, 6, 8, 11, 12, 13, 14, 15, 16, 18, 19, 20, 22, 24, 28, 30, 32, 33, 35, 36, 37, 38, 40, 41, 43, 44, 45, 47, 49, 50, 52, 54, 55, 57, 58, 59, 62, 63, 67, 69, 70, 71, 78, 83, 86, 88, 91, 92, 93, 94, 100, 102, 106, 107, 108, 109, 110, 111, 113, 114, 116, 117, 120, 121, 123, 131, 135, 136, 141, 142, 143, 145, 146, 147, 150, 151, 152, 154, 155, 157, 158], "acoustics_1d_adjoint": 5, "acoustics_2d_adjoint": 5, "main": [5, 11, 12, 19, 28, 39, 43, 54, 55, 66, 67, 73, 84, 86, 92, 96, 103, 104, 111, 120], "subdirectori": [5, 12, 18, 20, 22, 23, 35, 36, 54, 55, 58, 62, 69, 79, 88, 93, 106, 111, 138, 142, 144, 150, 154], "must": [5, 6, 13, 16, 20, 22, 28, 30, 32, 39, 43, 46, 51, 54, 57, 61, 62, 63, 66, 67, 70, 71, 72, 81, 84, 91, 92, 93, 96, 98, 99, 101, 102, 103, 104, 106, 110, 113, 117, 131, 133, 134, 135, 139, 140, 141, 142, 143, 148, 154, 155, 156, 157, 160], "makefil": [5, 6, 11, 14, 15, 16, 19, 20, 23, 25, 28, 35, 36, 41, 54, 68, 71, 73, 77, 79, 84, 90, 91, 110, 113, 117, 119, 121, 122, 124, 135, 136, 139, 141, 142, 143, 144, 146, 147, 152, 155, 157], "coeffici": [5, 64, 96, 97, 99, 101, 102, 103, 131, 142], "matric": [5, 131, 160], "transpos": 5, "vice": 5, "versa": 5, "q_t": [5, 96, 97, 99, 103, 157, 160], "q_x": [5, 97, 103, 160], "_x": [5, 39, 66, 97, 99, 154, 157, 160], "eigenvalu": 5, "unchang": [5, 67], "upon": [5, 101], "transform": [5, 41], "eigenvector": [5, 131, 160], "now": [5, 6, 7, 13, 18, 20, 22, 24, 26, 28, 29, 30, 32, 33, 38, 39, 41, 50, 53, 54, 55, 60, 64, 66, 70, 72, 77, 83, 84, 89, 91, 92, 93, 94, 95, 96, 98, 99, 100, 103, 108, 110, 111, 113, 114, 117, 118, 119, 120, 121, 123, 124, 126, 127, 134, 138, 140, 142, 144, 152, 159], "right": [5, 30, 32, 61, 64, 70, 81, 89, 94, 96, 97, 101, 103, 126, 130, 131, 133, 160], "src": [5, 6, 11, 14, 15, 16, 19, 20, 28, 29, 30, 32, 33, 39, 40, 41, 47, 50, 52, 55, 58, 59, 62, 63, 67, 70, 71, 78, 95, 96, 104, 106, 107, 110, 111, 114, 117, 118, 120, 121, 122, 123, 124, 126, 131, 135, 136, 139, 141, 143, 146, 154, 155, 160], "rp1_acoustics_variable_adjoint": 5, "f90": [5, 9, 15, 20, 31, 32, 39, 44, 52, 62, 63, 71, 80, 96, 107, 110, 113, 117, 119, 121, 122, 123, 124, 126, 127, 131, 132, 135, 136, 146, 147, 152, 155, 157], 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77, 80, 83, 89, 92, 95, 98, 100, 102, 106, 110, 111, 121, 124, 131, 133, 137, 144, 146, 147, 152, 154, 157], "num_output_tim": [5, 83, 86, 93, 130, 139, 141, 143], "larg": [5, 6, 12, 18, 20, 35, 36, 39, 48, 51, 53, 54, 67, 71, 76, 91, 93, 94, 110, 111, 118, 126, 130, 133, 135, 139, 140, 154, 156], "frequent": [5, 18, 20, 27, 102, 118], "enough": [5, 54, 66, 140, 149, 151, 152], "them": [5, 13, 18, 22, 28, 29, 30, 32, 44, 51, 54, 67, 68, 73, 81, 83, 88, 92, 93, 94, 96, 104, 108, 111, 114, 123, 133, 145, 148, 154, 157], "reason": [5, 48, 51, 59, 70, 71, 73, 94, 96, 110, 139], "output_format": [5, 18, 86, 93, 139, 141, 143], "binari": [5, 18, 41, 55, 61, 68, 81, 92, 93, 95, 118, 130, 139, 141, 154, 158], "so": [5, 6, 8, 9, 13, 16, 18, 19, 22, 27, 28, 29, 30, 32, 33, 35, 36, 38, 39, 40, 41, 42, 44, 48, 49, 51, 52, 53, 54, 55, 56, 59, 60, 62, 63, 66, 67, 70, 71, 72, 73, 76, 77, 80, 83, 84, 85, 92, 93, 96, 101, 103, 104, 108, 110, 111, 113, 114, 118, 119, 120, 121, 122, 123, 124, 126, 131, 133, 134, 135, 138, 139, 140, 141, 148, 151, 152, 154, 156, 157, 158], "manner": [5, 39, 44, 51, 60, 66, 70, 76, 121, 135, 139, 146, 147, 152], "v5": [5, 14, 29, 32, 38, 52, 54, 55, 57, 58, 63, 98, 105, 106, 110, 129, 134, 135, 140, 142], "attribut": [5, 7, 22, 30, 38, 44, 66, 70, 76, 78, 79, 83, 86, 89, 92, 94, 96, 98, 99, 110, 113, 118, 122, 130, 138, 139, 140, 142, 148, 154], "clawutil": [5, 11, 14, 19, 20, 23, 28, 40, 41, 50, 55, 56, 57, 62, 106, 111, 137, 139, 140, 141, 143, 154, 155], "clawrundata": [5, 44, 59, 122, 130, 139, 140, 141, 143], "adjointdata": [5, 122, 123], "ia": 5, "attribur": 5, "toler": [5, 32, 97, 104, 110, 111, 119, 140, 141, 142], "rundata": [5, 22, 32, 38, 39, 44, 59, 60, 110, 113, 124, 130, 135, 139, 140, 141, 142, 143], "use_adjoint": 5, "adjoint_outdir": 5, "abspath": [5, 38], "_output": [5, 13, 14, 32, 35, 36, 44, 50, 60, 67, 77, 79, 88, 93, 95, 98, 118, 125, 155], "period": [5, 6, 16, 32, 62, 83, 96, 110, 139, 141, 143], "t1": [5, 38, 44, 59, 60, 110, 126, 140, 141, 142], "t0": [5, 130, 139, 141, 142, 143, 152], "t2": [5, 38, 44, 59, 60, 110, 126, 140, 141, 142], "addit": [5, 7, 13, 16, 18, 23, 24, 28, 29, 32, 36, 37, 38, 45, 46, 59, 66, 70, 72, 73, 77, 78, 84, 87, 89, 91, 93, 99, 100, 101, 108, 110, 117, 119, 120, 121, 122, 125, 126, 128, 131, 133, 139, 143, 148, 151, 152, 157, 158], "aux": [5, 6, 15, 20, 22, 27, 44, 53, 84, 91, 92, 93, 96, 98, 99, 101, 102, 113, 114, 119, 121, 131, 132, 136, 139, 140, 141, 142, 143, 157], "inner": [5, 110, 122], "product": [5, 30, 61, 81, 104, 110, 122], "amrdata": [5, 22, 32, 110, 124, 126, 140, 141, 142], "aux_typ": [5, 140, 141], "append": [5, 20, 32, 38, 39, 44, 51, 60, 77, 86, 98, 110, 118, 119, 130, 131, 141], "num_aux": [5, 84, 92, 94, 96, 97, 101, 131, 139, 140, 141, 143, 157], "len": [5, 30, 89, 141, 143, 154], "innerprod_index": 5, "base": [5, 6, 13, 18, 20, 21, 22, 28, 29, 30, 32, 33, 45, 47, 51, 52, 53, 54, 59, 60, 63, 64, 66, 67, 70, 73, 84, 86, 87, 89, 91, 92, 97, 98, 99, 101, 103, 104, 110, 112, 117, 120, 122, 126, 134, 139, 140, 141, 142, 143, 148, 154, 157, 160], "richardson": [5, 7, 22, 140, 141], "error": [5, 16, 20, 35, 36, 40, 51, 58, 67, 71, 77, 86, 91, 92, 93, 104, 110, 111, 122, 126, 140, 141, 148, 155], "estimat": [5, 141], "flag_richardson": [5, 110, 118, 140, 141], "flag_richardson_tol": [5, 110, 140, 141], "1e": [5, 66, 143], "flag2refin": [5, 7, 22, 140, 141], "flag2refine_tol": [5, 110, 140, 141], "01": [5, 39, 72, 89, 154], "we": [5, 6, 18, 22, 24, 26, 29, 32, 35, 36, 38, 39, 44, 48, 51, 53, 54, 55, 56, 58, 63, 66, 70, 76, 79, 83, 84, 85, 86, 88, 89, 92, 93, 94, 95, 96, 99, 100, 101, 102, 103, 104, 105, 108, 111, 121, 124, 131, 132, 133, 154], "attempt": [5, 8, 11, 20, 33, 35, 36, 62, 92, 98, 104, 111, 113, 127, 148, 154, 155], "estim": [5, 64, 110, 140, 142], "step": [5, 6, 10, 16, 18, 19, 28, 32, 35, 36, 37, 44, 51, 54, 55, 60, 67, 73, 76, 79, 81, 82, 83, 84, 86, 93, 96, 99, 101, 103, 108, 110, 113, 118, 119, 130, 131, 137, 139, 140, 141, 142, 143, 152, 160], "extrapol": [5, 7, 16, 22, 96, 103, 121, 139, 140, 141, 143], "togeth": [5, 16, 18, 28, 29, 30, 54, 56, 70, 110], "experiment": [5, 81], "otherwis": [5, 30, 54, 58, 61, 66, 81, 93, 97, 98, 99, 100, 101, 104, 110, 139, 154], "simpli": [5, 13, 35, 36, 37, 39, 44, 51, 53, 62, 63, 66, 83, 85, 86, 88, 93, 94, 100, 111, 131, 133, 144, 148, 154, 157, 158], "magnitud": [5, 30, 110, 121, 142], "greater": [5, 32, 59, 64, 66, 100, 110, 130, 139, 140, 142], "model": [5, 12, 16, 17, 24, 25, 30, 32, 41, 45, 46, 52, 53, 64, 93, 110, 118, 123, 124, 125, 133, 134, 135, 142, 148, 149, 152], "davisleveque2016": [5, 17], "chile2010_adjoint": 5, "shallow": [5, 15, 16, 17, 25, 32, 39, 45, 48, 52, 66, 73, 84, 91, 107, 114, 115, 117, 119, 121, 122, 131, 135, 136, 142, 146, 147, 152, 157], "water": [5, 16, 17, 25, 39, 44, 45, 46, 47, 48, 59, 66, 73, 76, 84, 91, 114, 115, 119, 121, 122, 131, 133, 134, 135, 142, 152, 154, 156, 157], "while": [5, 13, 16, 30, 39, 51, 67, 70, 77, 79, 84, 89, 93, 94, 99, 104, 121, 131, 135, 142, 156], "suitabl": [5, 8, 16, 20, 45, 48, 51, 98, 109, 131, 134, 148, 154], "To": [5, 6, 13, 14, 18, 22, 25, 28, 29, 35, 36, 37, 38, 39, 40, 44, 46, 49, 51, 52, 55, 62, 65, 66, 67, 70, 71, 72, 77, 79, 80, 83, 85, 87, 88, 91, 92, 93, 94, 95, 96, 99, 100, 103, 106, 108, 109, 110, 111, 117, 119, 122, 123, 124, 125, 126, 127, 128, 130, 134, 137, 139, 140, 144, 152, 158], "date": [5, 28, 40, 47, 51, 54, 55, 62, 77, 148, 155], "across": [5, 110, 119, 152, 154], "ocean": [5, 16, 17, 32, 48, 51, 108, 110, 133, 146, 147, 152], "wai": [5, 6, 13, 16, 26, 28, 35, 36, 38, 39, 44, 51, 53, 54, 57, 58, 59, 61, 62, 77, 79, 80, 81, 83, 86, 88, 89, 94, 96, 98, 100, 103, 105, 106, 108, 109, 113, 119, 120, 121, 124, 129, 131, 133, 138, 139, 145, 149, 152, 157, 159, 160], "target": [5, 58, 77, 84, 96, 124], "possibli": [5, 30, 66, 83, 89, 106, 118, 135], "deep": [5, 66], "amplitud": [5, 119], "compar": [5, 22, 36, 44, 48, 51, 55, 77, 93, 110, 111, 134, 140, 142, 150, 156, 160], "essenti": [5, 53, 67, 99, 142, 152], "rest": [5, 22, 79, 108, 121, 134, 146, 147, 152, 154], "henc": [5, 32, 53, 54, 63, 99, 105, 106, 110, 135], "take": [5, 6, 22, 27, 28, 30, 32, 47, 54, 64, 66, 67, 70, 77, 83, 89, 96, 99, 103, 104, 105, 110, 111, 116, 122, 135, 139, 140, 141, 142, 154, 157, 160], "rpn2_geoclaw_adjoint_qwav": 5, "rpt2_geoclaw_adjoint_qwav": 5, "non": [5, 16, 55, 66, 73, 84, 96, 103, 122, 124, 139, 141, 143, 148, 160], "vector": [5, 18, 22, 83, 87, 93, 101, 121, 131, 132], "split": [5, 6, 71, 89, 92, 99, 117, 118, 126, 139, 140, 141, 143, 151, 157, 160], "flux": [5, 17, 32, 89, 97, 99, 131, 139, 160], "comment": [5, 11, 18, 24, 49, 55, 120, 130], "rpn2": [5, 131], "basic": [6, 10, 12, 25, 30, 35, 37, 45, 57, 66, 67, 83, 89, 91, 92, 93, 97, 99, 111, 131, 132, 148, 160], "strategi": 6, "logic": [6, 16, 17, 32, 126], "rectangular": [6, 7, 16, 17, 18, 30, 32, 38, 39, 45, 46, 59, 66, 89, 110, 121, 124, 140, 142, 152], "cover": [6, 7, 27, 28, 30, 32, 38, 39, 51, 59, 66, 70, 110, 114, 119, 135, 141, 152], "too": [6, 47, 51, 54, 55, 118, 133, 141, 143], "portion": [6, 18, 39, 51, 66, 84, 151], "factor": [6, 51, 140, 142, 151, 154], "direct": [6, 8, 16, 22, 30, 32, 35, 36, 44, 47, 51, 55, 59, 61, 62, 67, 70, 71, 77, 81, 86, 96, 103, 110, 120, 131, 139, 140, 142, 154], "anisotrop": [6, 22], "further": [6, 16, 18, 25, 32, 41, 48, 59, 62, 67, 91, 105, 110, 111, 140], "perhap": [6, 12, 32, 39, 44, 54, 77, 101, 104, 110, 133], "ratio": [6, 15, 22, 49, 67, 70, 87, 97, 99, 136, 139, 140, 141], "And": [6, 20, 54, 57], "section": [6, 13, 16, 35, 36, 39, 41, 46, 48, 54, 55, 63, 67, 76, 79, 91, 111, 126, 130, 139, 142, 154], "cfl": [6, 89, 93, 99, 103, 113, 118, 139, 141, 142, 143], "spatial": [6, 17, 25, 30, 38, 39, 45, 64, 96, 110, 113, 117, 124, 126, 131, 134, 140, 141, 143, 160], "reduc": [6, 16, 18, 39, 51, 118, 120, 160], "thu": [6, 47, 93, 96, 121, 148], "proce": [6, 28], "advanc": [6, 17, 52, 66, 71, 103, 118, 139, 140, 157], "taken": [6, 32, 66, 70, 93, 99, 110, 139, 157], "around": [6, 30, 32, 39, 59, 92, 108, 111, 124, 140, 141, 148, 154, 157], "librari": [6, 13, 15, 16, 20, 22, 25, 27, 28, 32, 35, 36, 41, 44, 52, 59, 62, 68, 71, 72, 73, 81, 87, 92, 94, 99, 104, 106, 107, 110, 119, 124, 135, 136, 140, 146, 147, 155, 157], "bcnamr": [6, 16, 121, 139, 141, 157], "check": [6, 14, 15, 16, 20, 32, 35, 36, 40, 41, 50, 51, 52, 54, 55, 56, 58, 62, 67, 77, 80, 83, 84, 86, 91, 94, 98, 99, 101, 103, 104, 106, 107, 110, 114, 123, 133, 135, 136, 140, 141, 146, 147, 148, 154, 155, 156, 157], "denot": [6, 22, 44, 53, 131, 154], "procedur": [6, 16, 39, 45, 55, 157], "updat": [6, 12, 13, 22, 23, 25, 32, 49, 52, 57, 58, 60, 79, 91, 99, 101, 102, 105, 108, 113, 117, 119, 120, 121, 122, 123, 124, 131, 140, 141, 143, 145, 148, 151, 157], "consist": [6, 18, 25, 32, 47, 51, 55, 59, 94, 105, 119, 131, 133, 142, 152, 157], "replac": [6, 13, 18, 29, 38, 44, 48, 52, 54, 55, 57, 60, 62, 76, 84, 88, 92, 94, 95, 96, 97, 101, 104, 111, 113, 119, 121, 123, 124, 130, 131, 135, 154, 155], "ly": [6, 66], "within": [6, 16, 28, 29, 54, 58, 66, 73, 77, 95, 104, 106, 110, 131, 133, 138, 144, 154], "approxim": [6, 16, 25, 33, 48, 51, 70, 131], "lead": [6, 13, 22, 32, 48, 51, 64, 67, 70, 106, 109, 126, 135, 140], "total": [6, 30, 51, 70, 93, 99, 139, 140, 141, 143, 151], "mass": [6, 93], "restor": 6, "global": [6, 14, 89, 101, 104, 134, 152, 156, 157], "fix": [6, 18, 19, 20, 22, 25, 33, 38, 45, 54, 55, 59, 60, 62, 66, 81, 92, 97, 113, 114, 115, 116, 117, 118, 119, 120, 122, 123, 124, 125, 126, 127, 128, 132, 139, 141, 143, 154], "up": [6, 13, 22, 28, 29, 30, 32, 35, 36, 39, 40, 44, 45, 51, 54, 55, 59, 62, 66, 67, 70, 77, 83, 84, 86, 88, 90, 91, 92, 94, 99, 100, 103, 106, 108, 110, 111, 117, 118, 121, 124, 126, 133, 135, 138, 141, 143, 151, 152, 155, 156], "style": [6, 22, 28, 30, 38, 49, 51, 66, 72, 77, 81, 86, 121, 142], "often": [6, 11, 13, 16, 20, 27, 29, 32, 35, 36, 40, 41, 44, 45, 48, 49, 50, 59, 60, 64, 70, 72, 93, 105, 106, 110, 111, 126, 130, 131, 133, 134, 135, 138, 139, 142, 148, 152, 156, 157, 160], "olig": [6, 17], "colella": [6, 17], "bergeroliger84": [6, 17], "bergercolella89": [6, 17], "fortran": [6, 9, 11, 13, 14, 18, 20, 23, 27, 28, 30, 32, 33, 35, 44, 45, 46, 53, 56, 58, 62, 63, 64, 71, 72, 73, 76, 79, 81, 83, 84, 86, 89, 91, 92, 94, 96, 97, 99, 100, 101, 104, 106, 117, 118, 119, 121, 122, 123, 131, 132, 137, 140, 141, 142, 143, 148, 150, 151, 152], "written": [6, 11, 25, 30, 32, 40, 44, 58, 59, 60, 61, 70, 72, 73, 77, 81, 90, 91, 92, 96, 119, 131, 139, 140, 141, 142, 143, 148, 154, 157], "ga": [6, 97], "dynam": [6, 20, 30, 48, 70, 73, 140], "merg": [6, 13, 25, 28, 52, 54, 55, 58, 117], "earli": [6, 20, 135], "dai": [6, 13, 51, 142], "mjb": [6, 17], "rjl": [6, 17, 106, 123], "fulli": [6, 48, 51, 52, 120, 124, 131, 142, 148, 149], "consid": [6, 39, 48, 58, 66, 84, 106, 137, 144, 154], "adjac": [6, 16, 32, 45, 110, 135, 139], "equival": [6, 18, 44, 52, 53, 59, 60, 123, 152], "copi": [6, 14, 15, 16, 35, 36, 44, 51, 54, 55, 58, 67, 83, 86, 96, 101, 107, 108, 109, 110, 114, 118, 121, 125, 135, 136, 140, 144, 146, 147, 152, 157], "interior": [6, 16, 39, 72, 101], "howev": [6, 13, 16, 22, 29, 32, 35, 36, 39, 41, 46, 48, 51, 58, 61, 63, 66, 70, 71, 72, 81, 84, 91, 110, 111, 119, 121, 123, 134, 135, 138, 142, 151], "lie": [6, 32, 33, 66, 110, 124, 133], "outsid": [6, 16, 38, 59, 66, 124, 133, 135, 152, 154], "li": [6, 16, 32, 110, 133, 142], "along": [6, 14, 16, 24, 27, 30, 32, 39, 44, 51, 54, 57, 68, 70, 106, 110, 117, 130, 133, 135, 142, 156], "proper": [6, 15, 39, 44, 52, 53, 55, 59, 64, 66, 67, 92, 104, 113, 119, 136, 140, 141, 146, 147, 148, 157], "unless": [6, 32, 40, 41, 59, 97, 105, 134, 139, 140, 154], "standard": [6, 16, 30, 32, 51, 53, 67, 72, 84, 87, 99, 106, 110, 111, 141, 142, 143, 144, 152, 157, 160], "beyond": [6, 30, 105, 121], "modifi": [6, 9, 14, 15, 16, 20, 22, 27, 32, 35, 36, 39, 44, 45, 54, 55, 58, 60, 62, 67, 69, 77, 84, 87, 89, 91, 96, 106, 107, 108, 109, 110, 116, 118, 119, 120, 121, 126, 133, 135, 136, 139, 141, 142, 143, 146, 147, 152, 154, 157], "damag": [6, 61, 81], "bcn": [6, 16, 143, 157], "nd": [6, 16, 110, 121, 124, 157], "actual": [6, 27, 30, 32, 53, 58, 59, 67, 70, 77, 87, 92, 104, 108, 134, 142], "softwar": [6, 13, 24, 25, 29, 45, 48, 61, 68, 81, 91, 92, 93, 144, 152], "intern": [6, 30, 44, 53, 59, 70, 119, 140, 152, 154, 160], "With": [6, 22, 28, 44, 49, 51, 58, 66, 73, 110, 118, 131, 133, 139], "opposit": [6, 16, 92], "side": [6, 16, 18, 32, 51, 54, 64, 70, 92, 111, 131, 160], "everi": [6, 12, 28, 32, 44, 60, 62, 63, 83, 86, 88, 92, 93, 101, 110, 111, 119, 120, 131, 135, 137, 139, 141, 143, 148, 152, 154, 157], "few": [6, 12, 13, 22, 26, 29, 36, 48, 54, 66, 67, 84, 99, 103, 105, 110, 111, 124, 134, 150, 152, 157], "coarsest": [6, 51, 72, 113, 130, 139], "revis": [6, 119], "shock": [6, 17, 48, 99, 110], "accord": [6, 53], "criteria": [6, 7, 22, 25, 32, 66, 101], "cluster": [6, 17, 110, 140, 141], "rigoutsi": 6, "bergerrigoutsis91": [6, 17], "nonoverlap": 6, "rectangl": [6, 7, 25, 30, 66, 70, 110, 124, 154], "balanc": [6, 17, 73, 120, 132, 146, 147], "conflict": [6, 28, 58, 62, 67, 102, 106], "goal": 6, "possibl": [6, 13, 22, 26, 28, 30, 32, 44, 47, 48, 51, 61, 62, 70, 77, 81, 89, 92, 94, 95, 99, 104, 106, 110, 131, 133, 134, 139, 140, 152, 156, 157], "minim": [6, 58, 66, 92, 133, 140, 154], "overhead": [6, 71, 110, 151], "cutoff": [6, 141], "control": [6, 7, 23, 25, 32, 41, 44, 54, 58, 60, 67, 79, 82, 87, 89, 91, 92, 93, 94, 96, 110, 119, 124, 132, 142], "fraction": [6, 13, 30, 110, 139, 157, 160], "70": [6, 51], "realli": [6, 111, 157], "At": [6, 13, 27, 28, 35, 36, 39, 66, 94, 99, 103, 105, 110, 124, 139], "present": [6, 24, 59, 89, 97, 98, 99, 104, 144, 157, 160], "previous": [6, 22, 32, 66, 79, 117, 124, 135], "bilinear": [6, 32, 39, 44, 53, 113, 114, 152], "doxygen": [6, 7, 25, 120], "flowchart": [6, 7, 25], "capabl": [7, 12, 18, 22, 32, 34, 48, 52, 66, 73, 84, 91, 113, 118, 119, 121, 122, 123, 124, 125, 154, 156], "block": [7, 30, 33, 39, 59, 70, 72, 73, 83, 92, 101, 104, 111, 157], "structur": [7, 10, 22, 32, 38, 55, 58, 62, 73, 98, 99, 119, 133, 138, 154], "input": [7, 14, 16, 20, 23, 25, 27, 30, 33, 40, 45, 51, 59, 63, 66, 67, 83, 86, 87, 89, 91, 97, 98, 99, 104, 108, 118, 121, 122, 123, 131, 141, 142, 143, 148, 149, 152, 154, 157], "indic": [7, 16, 20, 22, 25, 29, 30, 32, 38, 39, 41, 44, 45, 51, 53, 55, 58, 63, 67, 75, 79, 89, 93, 94, 97, 99, 103, 106, 110, 111, 119, 124, 126, 131, 132, 139, 140, 141, 142, 143, 152, 154, 157], "tool": [7, 8, 17, 22, 23, 28, 30, 32, 33, 35, 36, 39, 45, 46, 47, 48, 51, 53, 56, 57, 58, 59, 67, 70, 75, 76, 77, 78, 80, 91, 106, 109, 114, 115, 119, 120, 124, 125, 142, 144, 152, 154, 156, 158], "matlab": [7, 22, 25, 35, 36, 75, 76, 77, 95, 105, 121, 124, 125], "deprec": [7, 18, 30, 34, 54, 58, 117, 121, 142, 152, 154], "debug": [7, 18, 41, 62, 72, 76, 93, 101, 106, 111, 139, 141], "flag": [7, 12, 13, 22, 25, 28, 29, 38, 40, 41, 45, 52, 58, 68, 71, 84, 102, 104, 106, 117, 122, 126, 141, 142], "sampl": [7, 8, 14, 17, 18, 25, 29, 32, 41, 45, 51, 70, 106, 111, 130, 133, 139, 140, 152, 154, 157], "ghost": [7, 16, 71, 72, 89, 92, 99, 101, 119, 126, 139, 141, 143, 151, 157, 160], "flagregion": [7, 25, 66, 110, 124, 126, 133, 140, 142], "rule": [7, 13, 25, 59, 66, 84], "convex": [7, 32], "slu": 7, "bounding_box": [7, 33], "mask_outsid": [7, 66], "write": [7, 28, 30, 33, 38, 39, 44, 45, 50, 53, 54, 64, 70, 72, 73, 76, 83, 86, 89, 90, 92, 93, 94, 98, 119, 121, 141, 143, 148, 152, 154], "instanti": [7, 86, 94, 96, 99, 101, 141, 143], "make_kml": 7, "simpl": [7, 29, 35, 36, 38, 45, 55, 70, 84, 91, 96, 97, 99, 104, 109, 111, 154], "select": [7, 12, 13, 15, 16, 28, 32, 39, 66, 93, 99, 107, 110, 113, 120, 124, 129, 136, 139, 142, 146, 147, 156], "continent": [7, 66], "shelf": [7, 66], "guid": [7, 13, 17, 18, 23, 24, 25, 45, 46, 52, 57, 91, 105, 110, 120, 124, 145], "adjoint": [7, 17, 25, 52, 110, 121, 122], "gaug": [7, 18, 25, 32, 45, 59, 89, 90, 101, 108, 113, 117, 118, 119, 120, 121, 124, 130, 134, 141], "extend": [8, 16, 22, 39, 59, 66, 67, 89, 121, 133, 135, 142, 152, 154, 160], "directli": [8, 18, 19, 23, 32, 48, 57, 67, 70, 77, 79, 83, 84, 87, 91, 101, 104, 106, 121, 154, 158], "obviou": [8, 51], "elimin": [8, 22, 66, 84, 106, 121, 142], "gallery_classic_amrclaw": [8, 35], "num_cel": [8, 22, 89, 131, 139, 140, 141, 143], "refinement_ratios_i": [8, 140, 141], "sweep": [8, 131], "transvers": [8, 89, 119, 126, 131, 132, 139, 157, 160], "graph": 9, "understand": [9, 25, 35, 36, 48, 76, 91, 103, 110, 131], "filpatch": [9, 39, 119, 123, 126], "idea": [10, 24, 30, 66, 67, 73, 83, 103, 114, 154, 160], "overal": [10, 83], "who": [10, 12, 19, 22, 24, 32, 41, 48, 56], "gori": 10, "monster": 10, "column": [10, 30, 32, 44, 48, 60, 93, 97, 117, 133, 154], "markup": 11, "languag": [11, 76, 104], "restructur": [11, 54], "text": [11, 54, 55, 59, 72, 86, 92, 99, 117], "sphinx": [11, 23, 25, 55, 120], "covert": 11, "convert_readm": 11, "brows": [11, 24, 42, 51, 67, 144, 157], "insert": [11, 16, 70, 92, 137], "script": [11, 19, 20, 28, 30, 32, 40, 44, 51, 54, 62, 67, 73, 76, 81, 84, 88, 90, 91, 93, 94, 99, 104, 106, 111, 121, 125, 131, 138, 142, 143, 154], "invok": [11, 14, 71, 135, 155], "minor": [11, 51, 54, 93, 113, 114, 115, 116, 117, 118, 119, 120, 121, 122, 124, 126, 128], "syntax": [11, 57, 137], "highlight": [11, 13], "header": [11, 30, 32, 39, 44, 53, 66, 70, 72, 92, 98, 117, 119, 121, 148, 152, 154], "complex": [12, 38, 89], "archiv": [12, 21, 36, 51, 55, 111, 144, 150, 154, 156], "github": [12, 15, 18, 22, 23, 24, 25, 26, 29, 52, 54, 57, 58, 88, 96, 100, 107, 111, 116, 118, 119, 120, 129, 131, 132, 136, 146, 147, 155], "app": [12, 13, 18, 23, 26, 28, 29, 32, 37, 42, 43, 70, 108, 109, 116, 120, 121, 122, 123, 124, 125, 126, 127, 128, 132], "com": [12, 13, 18, 23, 24, 26, 28, 29, 52, 54, 55, 57, 58, 92, 94, 96, 100, 116, 118, 119, 120, 129, 132], "fvmbook": [12, 42], "galleri": [12, 25, 35, 36, 37, 42, 55, 75, 76, 88, 91, 105, 111, 116, 120, 144, 150, 157], "anim": [12, 16, 18, 42, 51, 117, 124, 125, 144], "instal": [12, 13, 18, 23, 25, 29, 35, 43, 51, 54, 55, 79, 81, 82, 85, 90, 92, 103, 105, 111, 112, 113, 114, 115, 116, 117, 118, 119, 120, 121, 122, 123, 124, 125, 126, 127, 128, 129, 137, 159], "collect": [12, 25, 26, 28, 30, 32, 70, 76, 83, 99, 144], "either": [12, 16, 18, 20, 30, 32, 39, 45, 46, 51, 60, 62, 66, 67, 70, 77, 79, 83, 89, 91, 92, 93, 99, 104, 106, 110, 111, 117, 118, 119, 121, 131, 133, 135, 140, 142, 148, 152, 154, 157, 160], "clone": [12, 18, 23, 24, 42, 52, 54, 55, 58, 80, 94, 100, 109, 155], "git": [12, 13, 23, 24, 25, 26, 29, 52, 55, 58, 91, 100, 111, 123], "navig": [12, 29, 54, 144], "green": [12, 59, 66, 70, 77, 111, 154], "button": [12, 13, 28, 51, 59, 120], "download": [12, 13, 28, 29, 30, 36, 37, 39, 45, 51, 55, 57, 58, 68, 88, 94, 100, 121, 122, 129, 150, 154, 155, 156], "zip": [12, 51, 55], "illustr": [12, 25, 30, 32, 35, 43, 51, 66, 67, 70, 109, 116, 117, 121, 123, 131, 133, 144, 154], "variou": [12, 20, 22, 30, 38, 43, 48, 54, 67, 70, 77, 79, 89, 103, 105, 106, 110, 119, 131, 138, 142, 148], "aspect": [12, 24, 29, 43, 48, 49, 67, 154], "visibl": [12, 13, 43, 51, 109, 144], "render": [12, 22, 43, 51, 59, 158], "advantag": [12, 76, 92, 105, 111, 133], "independ": [12, 23, 30], "contact": [12, 88, 91, 100], "u": [12, 13, 16, 24, 29, 32, 47, 48, 55, 56, 58, 60, 81, 88, 91, 97, 100, 101, 102, 103, 108, 120, 131, 140, 143, 148, 156], "like": [12, 13, 24, 28, 29, 39, 41, 51, 54, 55, 59, 60, 67, 68, 79, 84, 86, 89, 92, 93, 94, 97, 98, 99, 101, 105, 106, 111, 118, 131, 133, 138, 151, 152, 155], "storm": [12, 17, 24, 25, 45, 117, 120, 121, 122, 123, 125, 126, 127], "surg": [12, 17, 24, 25, 45, 117, 120, 121, 122, 123, 126, 148], "empti": [12, 44, 98, 101, 104, 106, 139, 148, 154], "gitmodul": 12, "pull": [12, 18, 24, 26, 29, 54, 55, 57, 88, 96, 111, 116, 119, 120, 126, 131], "request": [12, 24, 26, 30, 54, 57, 72, 83, 88, 89, 93, 96, 98, 111, 119, 121, 126, 131, 142, 148, 154], "init": [12, 25, 28, 39, 45, 52, 57, 134], "leav": [12, 13, 16, 44, 58, 140, 154], "off": [12, 13, 18, 44, 48, 51, 59, 67, 79, 86, 93, 110, 140, 154], "won": [12, 13, 66, 84, 154], "hurt": [12, 63], "maintain": [12, 28, 105, 121, 140, 152, 157], "flavor": [12, 21, 92], "demonstr": [12, 25, 88, 94], "agre": [12, 28, 39, 53, 131, 151, 154, 157], "seen": [12, 22, 32, 35, 36, 37, 48, 71, 96, 139, 144], "cloud": 13, "elast": [13, 70], "sign": [13, 24, 77, 126, 148], "account": [13, 24, 28, 55, 85, 94], "750": 13, "hour": [13, 51, 59], "free": [13, 51, 62, 70, 81, 85, 96, 100, 102], "micro": 13, "suffici": [13, 16, 18, 20, 70, 71, 108, 113, 142], "tier": 13, "inform": [13, 14, 22, 25, 32, 33, 35, 36, 46, 47, 48, 49, 50, 58, 63, 72, 77, 78, 79, 83, 84, 89, 91, 93, 94, 95, 97, 98, 104, 106, 118, 121, 122, 124, 129, 130, 131, 134, 137, 139, 140, 142, 148, 151, 152, 155, 156, 157, 158], "uw": [13, 24], "escienc": 13, "aw": 13, "tutori": [13, 29, 55, 79, 82, 86, 91, 100, 106, 109], "gear": 13, "faq": [13, 25, 76], "price": 13, "charg": 13, "per": [13, 30, 44, 51, 59, 67, 71, 92, 140], "thereof": 13, "regardless": [13, 39, 66, 110, 139, 142], "cpu": [13, 52, 118, 121, 123, 151], "consol": [13, 93, 142], "tab": [13, 54, 129], "east": [13, 152], "cheaper": 13, "rate": 13, "menu": [13, 18, 25, 54, 59, 120, 129, 134, 156], "imag": [13, 35, 36, 39, 55, 59, 66, 111, 121, 133], "platform": [13, 51, 86, 94, 105, 111], "finish": [13, 77, 83], "load": [13, 59, 93, 95, 98, 104, 111, 154, 158], "databas": [13, 30, 70, 104, 108, 121, 152], "uwamath": 13, "bar": [13, 54, 148], "screen": [13, 28, 51, 59, 86, 93, 94, 118, 141, 143], "shapshot": 13, "machin": [13, 25, 71, 73, 111, 119, 137], "disk": [13, 44, 83, 92, 93, 111, 119], "ubuntu": 13, "linux": [13, 69, 80, 102, 111, 137], "popup": 13, "look": [13, 14, 22, 25, 28, 30, 39, 51, 54, 55, 59, 67, 68, 77, 79, 84, 89, 94, 98, 99, 103, 104, 106, 111, 114, 121, 133, 139, 140, 142, 151, 154, 155], "sort": [13, 39, 121, 138, 155], "larger": [13, 20, 32, 51, 59, 70, 71, 72, 77, 89, 113, 119, 126, 140, 142, 152], "cost": [13, 99], "continu": [13, 22, 28, 30, 49, 54, 81, 105, 131, 139, 160], "eventu": [13, 45, 124], "don": [13, 27, 28, 54, 55, 77, 93, 94, 100, 111, 141, 155], "pair": [13, 92, 111, 154], "secur": 13, "quick": [13, 25, 36, 45, 46, 56, 80, 111, 150], "close": [13, 39, 51, 54, 59, 66, 67, 92, 110, 124, 140, 148], "back": [13, 27, 29, 54, 55, 120], "statu": [13, 28, 50, 86, 103], "wait": 13, "until": [13, 32, 60, 66, 135], "refresh": [13, 44], "bottom": [13, 15, 30, 35, 36, 45, 48, 64, 66, 70, 83, 96, 97, 119, 120, 136, 146, 147], "scroll": 13, "down": [13, 30, 93, 118, 148, 152, 154], "dn": 13, "screenshot": [13, 51], "rjlkei": 13, "pem": 13, "abl": [13, 54, 106], "ssh": [13, 28], "keypair": 13, "50": [13, 17, 32, 51, 99, 114, 141], "19": [13, 17, 24, 127, 128, 129, 151], "75": [13, 17, 87, 103, 133], "229": 13, "amazonaw": 13, "gfortran": [13, 58, 71, 80, 82, 102, 137, 155], "ipython": [13, 73, 77, 79, 84, 85, 91, 93, 100, 103, 106, 117, 118], "scipi": [13, 84, 105, 148, 154], "netcdf": [13, 41, 45, 118, 121, 123, 125, 139, 141, 143, 148, 154, 156], "apach": 13, "server": [13, 29, 39, 51, 54, 55, 66, 121, 152, 156], "apt": [13, 80], "fetch": [13, 47], "bring": [13, 51, 54, 67], "master": [13, 15, 25, 29, 54, 55, 58, 96, 107, 118, 119, 120, 121, 122, 123, 124, 125, 126, 127, 128, 129, 132, 136, 146, 147], "make_lib": 13, "compil": [13, 25, 35, 36, 40, 46, 58, 63, 71, 73, 79, 80, 84, 91, 92, 96, 100, 104, 113, 131, 132, 137], "bashrc": [13, 41, 102, 137], "Of": [13, 26, 70, 103, 108, 152], "cours": [13, 26, 32, 44, 46, 60, 70, 94, 95, 103, 105, 108, 142, 152], "tar": [13, 59, 123, 129], "instruct": [13, 18, 24, 25, 29, 35, 36, 39, 51, 52, 54, 55, 68, 83, 85, 91, 94, 100, 103, 106, 120, 127, 129, 130, 155], "probabl": [13, 28, 51, 64, 66, 105, 106], "window": [13, 30, 67, 79, 137], "respons": [13, 48, 83, 98], "pretti": 13, "slow": [13, 51, 93, 102], "_plot": [13, 35, 36, 44, 67, 79, 138, 144], "local": [13, 17, 20, 25, 28, 51, 54, 59, 62, 63, 67, 87, 89, 96, 101, 119, 121, 135, 152, 154, 157], "sftp": 13, "much": [13, 18, 28, 32, 41, 51, 54, 72, 73, 76, 80, 105, 110, 113, 117, 124, 133, 139, 142, 151, 154], "smaller": [13, 18, 51, 64, 73, 89, 93, 113, 135, 139, 141, 142, 143, 154], "quicker": [13, 133], "browser": [13, 28, 29, 35, 36, 51, 54, 144], "explain": [13, 32, 48, 66, 126, 139, 144], "webserv": 13, "inbound": 13, "port": [13, 29, 90, 91, 96, 140], "22": [13, 24, 140, 154], "80": [13, 17, 51, 94, 133], "drop": [13, 54, 80, 124, 126, 135, 139], "tcp": 13, "Then": [13, 16, 28, 29, 30, 44, 54, 55, 56, 63, 66, 70, 71, 79, 83, 86, 94, 100, 101, 102, 106, 131, 133, 154, 155], "someth": [13, 27, 28, 54, 62, 69, 76, 93, 98, 99, 106, 152, 155, 157], "shot": 13, "ln": 13, "expos": [13, 73], "home": [13, 29, 30, 58, 137], "scp": 13, "TO": [13, 61, 81], "send": [13, 24, 96, 131], "remot": [13, 51, 55, 121, 154, 156], "rel": [13, 20, 30, 40, 46, 48, 51, 70, 71, 77, 91, 104, 106, 111, 114, 115, 116, 117, 118, 119, 120, 121, 122, 123, 124, 125, 126, 127, 128, 134, 140, 142, 144, 152, 156], "end": [13, 29, 30, 32, 33, 44, 47, 51, 55, 59, 86, 93, 97, 103, 105, 108, 110, 118, 119, 121, 130, 132, 133, 141, 143, 148, 151], "retriev": [13, 47, 79, 84, 99, 154, 156], "sit": 13, "idl": 13, "action": [13, 14, 84], "restart": [13, 25, 44, 79, 91, 118, 119, 120, 121, 123, 126, 139, 141, 143], "later": [13, 39, 50, 51, 58, 79, 99, 130], "But": [13, 32, 39, 51, 77, 102, 114, 121, 135, 137], "futur": [13, 22, 25, 26, 35, 36, 39, 48, 53, 59, 64, 83, 99, 105, 118, 119, 121, 124, 140, 148, 152], "job": [13, 128], "eb": 13, "runclaw": [14, 50, 114, 123, 125, 131], "autom": [14, 54, 84, 111], "certain": [14, 32, 45, 57, 66, 93, 110, 118, 133, 139], "keep": [14, 25, 28, 32, 33, 35, 36, 71, 83, 86, 91, 101, 104, 111, 114, 142], "log": [14, 25, 28, 29, 89, 90, 91, 98, 99], "came": 14, "rundir": [14, 86], "environ": [14, 25, 28, 35, 36, 37, 40, 50, 51, 54, 57, 58, 67, 69, 71, 73, 95, 102, 104, 106, 119, 154, 155], "By": [15, 30, 41, 47, 51, 53, 59, 70, 77, 79, 83, 89, 93, 95, 102, 121, 133, 136, 146, 147, 154, 160], "noth": [15, 60, 101, 122, 136, 146, 147, 154, 157], "rememb": [15, 27, 71, 77, 94, 136, 146, 147], "b4step1": [15, 63, 157], "b4step2": [15, 136, 157], "b4step3": 15, "branch": [15, 18, 25, 29, 41, 50, 52, 55, 57, 58, 107, 111, 120, 121, 122, 123, 124, 125, 126, 127, 128, 129, 136, 146, 147], "tag": [15, 51, 55, 57, 107, 136, 140, 141, 146, 147], "bathymetri": [15, 45, 48, 51, 59, 97, 108, 119, 121, 132, 134, 136, 142, 152, 154], "area": [15, 22, 45, 99, 108, 119, 135, 136], "dy": [15, 47, 53, 59, 60, 72, 84, 89, 93, 117, 121, 136, 152, 154], "capac": [15, 97, 136, 139, 140, 141, 143], "length": [15, 30, 48, 59, 70, 96, 101, 119, 126, 136, 139, 140, 141, 142, 157], "latter": [15, 66, 96, 124, 133, 136, 139, 148, 157], "quantiti": [15, 32, 59, 67, 86, 90, 91, 97, 101, 132, 136, 142], "latitud": [15, 30, 32, 46, 47, 53, 70, 76, 117, 133, 136, 142, 148, 154], "coordinate_system": [15, 60, 136, 142], "impos": [16, 84, 110, 146, 147, 160], "chapter": [16, 131, 139, 157], "choic": [16, 45, 76, 99, 139, 141, 142, 143, 157], "bc_lower": [16, 83, 96, 103, 139, 141, 143], "bc_upper": [16, 83, 96, 103, 139, 141, 143], "extrap": [16, 96, 103, 139, 141], "outflow": [16, 139, 141, 143], "move": [16, 32, 35, 36, 45, 54, 58, 60, 70, 96, 110, 113, 115, 120, 142, 152, 153], "normal": [16, 33, 52, 54, 60, 77, 96, 106, 131, 132, 139, 140, 141, 143], "fairli": [16, 48, 119], "good": [16, 28, 48, 51, 61, 71, 81, 103, 108, 111, 119, 126, 131], "outgo": 16, "let": [16, 45, 58, 81, 108, 120, 126, 131], "pass": [16, 18, 19, 20, 28, 30, 44, 51, 59, 71, 77, 83, 86, 88, 90, 96, 99, 101, 102, 104, 111, 131, 141, 148, 154, 157], "without": [16, 22, 33, 40, 44, 48, 59, 61, 62, 63, 66, 67, 77, 79, 81, 87, 91, 92, 93, 104, 106, 111, 133, 137, 141, 143, 148, 155, 157], "particularli": [16, 27, 29, 32, 50, 51, 56, 57, 58, 70, 72, 106, 114, 117, 121, 126, 135, 152], "perfect": 16, "hit": [16, 67, 79, 93, 139], "obliqu": 16, "angl": [16, 30, 47, 70], "perfectli": 16, "wall": [16, 41, 96, 103, 118, 121, 123, 139, 141, 143, 151], "veloc": [16, 18, 32, 47, 60, 67, 79, 96, 97, 103, 119, 134, 139, 140, 141, 142, 143, 157], "momentum": [16, 32, 48, 60, 64, 93, 126, 132, 142, 152], "third": [16, 32, 53, 87, 151, 154], "acoust": [16, 29, 35, 36, 48, 82, 83, 86, 88, 91, 99, 100, 117, 131, 141, 157], "p": [16, 17, 29, 79, 81, 83, 89, 92, 93, 97, 101, 131, 160], "h": [16, 17, 32, 39, 44, 45, 48, 51, 52, 59, 64, 97, 110, 117, 124, 132, 134, 135, 142, 152], "hu": [16, 60, 64, 97, 132, 142], "hv": [16, 60, 64, 132, 142], "equal": [16, 30, 32, 33, 51, 70, 94, 96, 110, 130, 133, 139, 141, 143, 152, 154], "far": [16, 18, 38, 42, 66, 76, 122, 124, 126], "symmetri": 16, "physic": [16, 44, 51, 84, 89, 91, 103, 110, 160], "slightli": [16, 39, 53, 119, 120, 126, 133], "complic": [16, 77, 84, 133, 138], "alwai": [16, 22, 26, 27, 28, 32, 41, 53, 54, 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101, 104, 111, 119, 155], "fgout": [18, 59], "diff": [18, 50, 55, 113, 114, 115, 116, 117, 118, 119, 120, 121, 122, 123, 124, 125, 126, 127, 128], "raster": [18, 51, 53, 152], "greatli": [18, 26, 81, 134], "size": [18, 20, 30, 39, 44, 51, 59, 71, 72, 76, 89, 92, 94, 99, 119, 124, 140, 141, 143, 152, 154], "savefig": [18, 59], "filenam": [18, 31, 51, 117, 154], "svg": 18, "label": [18, 30, 49, 51, 53, 59, 117, 133, 152, 154], "graphic": [18, 23, 28, 52, 67, 76], "field": [18, 44, 59, 96, 98, 101, 119, 121, 148, 149], "pcolor_kwarg": 18, "turn": [18, 44, 46, 48, 59, 74, 77, 93, 111, 118, 124], "286": 18, "jsanim": [18, 113, 117], "to_jshtml": 18, "affect": [18, 22, 62, 119, 120, 126, 139, 152, 155], "particl": [18, 25, 45, 124], "track": [18, 24, 25, 28, 32, 33, 45, 51, 54, 56, 58, 71, 83, 91, 104, 111, 113, 122, 124, 127, 132, 142, 148], "monitor": [18, 22, 25, 33, 34, 38, 45, 66, 71, 114, 116, 119], "fixedgrid": [18, 142], "chile2010_fgmax": [18, 32], "file_prefix": [18, 92, 98], "file_format": [18, 44, 92, 98, 148], "older": [18, 22, 41, 52, 54, 57, 58, 99, 125, 140, 142], "changelog": [18, 22, 112, 113, 114, 115, 116, 117, 118, 119, 120, 121, 122, 123, 124, 125, 126, 127, 128, 129], "tarfil": [18, 55, 58, 120, 121, 122, 123, 124, 125, 126, 127, 128], "pip": [18, 25, 28, 29, 51, 55, 56, 85, 91, 94, 100, 102, 106, 120, 121, 122, 123, 124, 125, 126, 127, 128, 129, 137], "doc": [18, 23, 24, 28, 30, 51, 55, 87, 104, 105, 106, 120, 121, 122, 123, 124, 125, 126, 127, 128, 145], "docker": [18, 25, 55, 56, 120, 121, 122, 123, 124, 125, 126, 127, 128, 159], "migrat": 19, "intermedi": [19, 32, 70, 157], "easiest": [19, 28, 41, 73, 77, 79, 110, 157], "bulk": [19, 83, 97, 103, 131, 141, 157], "convers": [19, 25, 84, 92, 110, 133, 152, 156], "convert43to46": 19, "inspect": [19, 20, 51], "broken": [19, 20, 28, 68, 70, 111], "renam": [20, 22, 35, 36, 62, 96, 99], "achiev": [20, 84, 146, 147], "convert46to50": 20, "_4": 20, "complet": [20, 22, 28, 47, 62, 79, 83, 84, 94, 104, 111], "delet": [20, 28, 58], "variant": [20, 56, 104, 111], "combin": [20, 54, 59, 118, 156], "properli": [20, 32, 35, 36, 39, 40, 48, 51, 53, 54, 58, 59, 66, 69, 86, 111, 113, 116, 121, 124, 126, 137, 139, 142, 152, 154, 155, 157], "correct": [20, 28, 41, 54, 55, 63, 64, 67, 77, 83, 89, 94, 98, 104, 113, 114, 118, 135, 139, 141, 142, 143], "permut": 20, "th": [20, 22, 44, 131, 157], "reorder": [20, 22], "pattern": [20, 46, 51, 134], "carefulli": [20, 22, 64], "setaux": [20, 22, 63, 84, 113, 114, 131, 139, 141, 143], "sequenc": [20, 22, 63, 66, 94, 100, 103, 104, 111, 113, 120, 131, 157], "maxmx": [20, 84], "maxmi": [20, 84], "maxmz": 20, "longer": [20, 28, 44, 54, 55, 59, 80, 105, 119, 121, 124, 126, 130, 131, 142, 152, 156], "declar": [20, 22, 101, 126, 157], "memori": [20, 22, 71, 72, 73, 83, 86, 93, 101, 126, 140, 141], "alloc": [20, 99, 117, 126, 140], "mx": [20, 22, 53, 72, 84, 94, 97, 131, 141, 152, 157], "resp": [20, 30, 126], "mz": [20, 22], "driver": [20, 63], "led": [20, 122], "homepag": [21, 25], "reorgan": [22, 84, 112, 127], "incorpor": [22, 48, 54, 81, 99, 113, 120, 132, 154], "concern": [22, 45, 140], "evolv": [22, 83, 86, 99], "organ": [22, 23, 35, 36, 86], "assist": [22, 124], "compris": [22, 91, 154], "repositori": [22, 24, 25, 26, 29, 32, 36, 37, 42, 43, 45, 52, 57, 58, 62, 63, 91, 99, 106, 108, 109, 111, 116, 119, 145], "webpag": [22, 24, 35, 36, 42, 46, 51, 55, 62, 122, 134], "issu": [22, 24, 26, 54, 55, 58, 67, 83, 88, 89, 91, 99, 100, 102, 111, 113, 118, 119, 120, 121, 131, 142, 155], "primari": [22, 28, 29, 45, 108, 111, 148], "auxiliari": [22, 84, 86, 92, 97, 98, 99, 101, 131, 139, 141, 143, 157], "cach": [22, 47, 55, 79, 81, 124, 140], "petsc": [22, 23, 73, 81, 83, 90, 93, 100, 101, 102, 104], "stride": [22, 154], "contingu": 22, "maux": [22, 131, 157], "ma": [22, 39, 66, 133, 154], "relev": [22, 27, 39, 41, 45, 51, 54, 92, 110, 111, 148], "flexibl": [22, 30, 59, 84, 117, 120, 131, 133, 140], "clean": [22, 54, 55, 104, 117, 121], 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"dtopo": 153, "topotool": 154, "f2py": 155, "ex": 155, "bathymetri": 156, "dart": 156, "buoi": 156, "tide": 156, "done": 157, "befor": 157, "visit": 158, "virtual": 159, "propag": 160, "space": 160, "godunov": 160, "high": 160, "formul": 160, "capac": 160}, "envversion": {"sphinx.domains.c": 2, "sphinx.domains.changeset": 1, "sphinx.domains.citation": 1, "sphinx.domains.cpp": 8, "sphinx.domains.index": 1, "sphinx.domains.javascript": 2, "sphinx.domains.math": 2, "sphinx.domains.python": 3, "sphinx.domains.rst": 2, "sphinx.domains.std": 2, "sphinx": 57}, "alltitles": {"ClawPlotAxes": [[0, "clawplotaxes"]], "Attributes": [[0, "attributes"], [1, "attributes"], [2, "attributes"], [3, "attributes"]], "Methods": [[0, "methods"], [1, "methods"], [2, "methods"], [3, "methods"]], "ClawPlotData": [[1, "clawplotdata"]], "ClawPlotFigure": [[2, "clawplotfigure"]], "ClawPlotItem": [[3, "clawplotitem"]], "Special attributes for all 1d plots, plot_type = \u20181d\u2026\u2019": [[3, "special-attributes-for-all-1d-plots-plot-type-1d"]], "Special attributes for plot_type = \u20181d_plot\u2019": [[3, "special-attributes-for-plot-type-1d-plot"]], "Special attributes for plot_type = \u20181d_fill_between\u2019": [[3, "special-attributes-for-plot-type-1d-fill-between"]], "Special attributes for plot_type = \u20181d_from_2d_data\u2019": [[3, "special-attributes-for-plot-type-1d-from-2d-data"]], "Special attributes for all 2d plots, plot_type = \u20182d\u2026\u2019": [[3, "special-attributes-for-all-2d-plots-plot-type-2d"]], "Special attributes for plot_type = \u20182d_contour\u2019": [[3, "special-attributes-for-plot-type-2d-contour"]], "Special attributes for plot_type = \u20182d_pcolor\u2019": [[3, "special-attributes-for-plot-type-2d-pcolor"]], "AMR Attributes": [[3, "amr-attributes"]], "About this software": [[4, "about-this-software"]], "License": [[4, "license"], [61, "license"], [81, "license"]], "Authors": [[4, "authors"]], "Citing this work": [[4, "citing-this-work"]], "Funding": [[4, "funding"], [81, "funding"]], "Guiding AMR with adjoint flagging": [[5, "guiding-amr-with-adjoint-flagging"]], "Using adjoint flagging in GeoClaw": [[5, "using-adjoint-flagging-in-geoclaw"]], "Adaptive mesh refinement (AMR) algorithms": [[6, "adaptive-mesh-refinement-amr-algorithms"]], "Ghost cells and boundary conditions for AMR": [[6, "ghost-cells-and-boundary-conditions-for-amr"]], "Choosing and initializing finer grids": [[6, "choosing-and-initializing-finer-grids"]], "Flagging cells for refinement": [[6, "flagging-cells-for-refinement"]], "For more details": [[6, "for-more-details"]], "AMRClaw Description and Detailed Contents": [[7, "amrclaw-description-and-detailed-contents"]], "AMRClaw for 1d problems": [[8, "amrclaw-for-1d-problems"]], "Old approach, deprecated:": [[8, "old-approach-deprecated"]], "Doxygen documentation of AMRClaw": [[9, "doxygen-documentation-of-amrclaw"]], "AMRClaw Flowcharts": [[10, "amrclaw-flowcharts"]], "Application documentation": [[11, "application-documentation"]], "Converting README.rst to README.html": [[11, "converting-readme-rst-to-readme-html"]], "Converting code to html with clawcode2html": [[11, "converting-code-to-html-with-clawcode2html"]], "Clawpack Applications repository": [[12, "clawpack-applications-repository"]], "Jupyter Notebooks": [[12, "jupyter-notebooks"]], "Submodules": [[12, "submodules"]], "Examples included with Clawpack": [[12, "examples-included-with-clawpack"]], "Amazon Web Services EC2 Clawpack AMI": [[13, "amazon-web-services-ec2-clawpack-ami"]], "Finding the Clawpack AMI": [[13, "finding-the-clawpack-ami"]], "Launching an instance": [[13, "launching-an-instance"]], "Logging on to your instance": [[13, "logging-on-to-your-instance"]], "Using Clawpack": [[13, "using-clawpack"]], "Viewing plots of results": [[13, "viewing-plots-of-results"]], "Viewing webpages directly from your instance": [[13, "viewing-webpages-directly-from-your-instance"]], "Transferring files to/from your instance": [[13, "transferring-files-to-from-your-instance"]], "Stopping your instance": [[13, "stopping-your-instance"]], "Creating your own AMI": [[13, "creating-your-own-ami"]], "b4run function": [[14, "b4run-function"]], "b4step default routines": [[15, "b4step-default-routines"]], "b4step routine in GeoClaw": [[15, "b4step-routine-in-geoclaw"]], "Boundary conditions": [[16, "boundary-conditions"], [160, "boundary-conditions"]], "Boundary conditions for adaptive refinement": [[16, "boundary-conditions-for-adaptive-refinement"]], "Boundary conditions for GeoClaw": [[16, "boundary-conditions-for-geoclaw"]], "Boundary conditions for clamshell grids on the sphere": [[16, "boundary-conditions-for-clamshell-grids-on-the-sphere"]], "User-defined boundary conditions": [[16, "user-defined-boundary-conditions"]], "Bibliography": [[17, "bibliography"]], "Papers describing the Clawpack software and algorithms": [[17, "papers-describing-the-clawpack-software-and-algorithms"]], "Papers describing applications": [[17, "papers-describing-applications"]], "Other references": [[17, "other-references"]], "Changes to master since v5.8.2": [[18, "changes-to-master-since-v5-8-2"]], "Changes that are not backward compatible": [[18, "changes-that-are-not-backward-compatible"], [121, "changes-that-are-not-backward-compatible"], [122, "changes-that-are-not-backward-compatible"], [123, "changes-that-are-not-backward-compatible"], [124, "changes-that-are-not-backward-compatible"], [125, "changes-that-are-not-backward-compatible"], [126, "changes-that-are-not-backward-compatible"], [127, "changes-that-are-not-backward-compatible"], [128, "changes-that-are-not-backward-compatible"]], "General changes": [[18, "general-changes"], [121, "general-changes"], [122, "general-changes"], [123, "general-changes"], [124, "general-changes"], [125, "general-changes"], [126, "general-changes"], [127, "general-changes"], [128, "general-changes"]], "Changes to classic": [[18, "changes-to-classic"], [113, "changes-to-classic"], [114, "changes-to-classic"], [115, "changes-to-classic"], [116, "changes-to-classic"], [117, "changes-to-classic"], [118, "changes-to-classic"], [119, "changes-to-classic"], [120, "changes-to-classic"], [121, "changes-to-classic"], [122, "changes-to-classic"], [123, "changes-to-classic"], [124, "changes-to-classic"], [125, "changes-to-classic"], [126, "changes-to-classic"], [127, "changes-to-classic"], [128, "changes-to-classic"]], "Changes to clawutil": [[18, "changes-to-clawutil"], [113, "changes-to-clawutil"], [114, "changes-to-clawutil"], [115, "changes-to-clawutil"], [116, "changes-to-clawutil"], [117, "changes-to-clawutil"], [118, "changes-to-clawutil"], [119, "changes-to-clawutil"], [120, "changes-to-clawutil"], [121, "changes-to-clawutil"], [122, "changes-to-clawutil"], [123, "changes-to-clawutil"], [124, "changes-to-clawutil"], [125, "changes-to-clawutil"], [126, "changes-to-clawutil"], [127, "changes-to-clawutil"], [128, "changes-to-clawutil"]], "Changes to visclaw": [[18, "changes-to-visclaw"], [113, "changes-to-visclaw"], [114, "changes-to-visclaw"], [115, "changes-to-visclaw"], [116, "changes-to-visclaw"], [117, "changes-to-visclaw"], [118, "changes-to-visclaw"], [119, "changes-to-visclaw"], [120, "changes-to-visclaw"], [121, "changes-to-visclaw"], [122, "changes-to-visclaw"], [123, "changes-to-visclaw"], [124, "changes-to-visclaw"], [125, "changes-to-visclaw"], [126, "changes-to-visclaw"], [127, "changes-to-visclaw"], [128, "changes-to-visclaw"]], "Changes to riemann": [[18, "changes-to-riemann"], [113, "changes-to-riemann"], [114, "changes-to-riemann"], [115, "changes-to-riemann"], [116, "changes-to-riemann"], [117, "changes-to-riemann"], [118, "changes-to-riemann"], [119, "changes-to-riemann"], [120, "changes-to-riemann"], [121, "changes-to-riemann"], [122, "changes-to-riemann"], [123, "changes-to-riemann"], [124, "changes-to-riemann"], [125, "changes-to-riemann"], [126, "changes-to-riemann"], [127, "changes-to-riemann"], [128, "changes-to-riemann"]], "Changes to amrclaw": [[18, "changes-to-amrclaw"], [113, "changes-to-amrclaw"], [114, "changes-to-amrclaw"], [115, "changes-to-amrclaw"], [116, "changes-to-amrclaw"], [117, "changes-to-amrclaw"], [118, "changes-to-amrclaw"], [119, "changes-to-amrclaw"], [120, "changes-to-amrclaw"], [121, "changes-to-amrclaw"], [122, "changes-to-amrclaw"], [123, "changes-to-amrclaw"], [124, "changes-to-amrclaw"], [125, "changes-to-amrclaw"], [126, "changes-to-amrclaw"], [127, "changes-to-amrclaw"], [128, "changes-to-amrclaw"]], "Changes to geoclaw": [[18, "changes-to-geoclaw"], [113, "changes-to-geoclaw"], [114, "changes-to-geoclaw"], [115, "changes-to-geoclaw"], [116, "changes-to-geoclaw"], [117, "changes-to-geoclaw"], [118, "changes-to-geoclaw"], [119, "changes-to-geoclaw"], [120, "changes-to-geoclaw"], [121, "changes-to-geoclaw"], [122, "changes-to-geoclaw"], [123, "changes-to-geoclaw"], [124, "changes-to-geoclaw"], [125, "changes-to-geoclaw"], [126, "changes-to-geoclaw"], [127, "changes-to-geoclaw"], [128, "changes-to-geoclaw"]], "Changes to PyClaw": [[18, "changes-to-pyclaw"], [112, "changes-to-pyclaw"], [113, "changes-to-pyclaw"], [114, "changes-to-pyclaw"], [115, "changes-to-pyclaw"], [116, "changes-to-pyclaw"], [117, "changes-to-pyclaw"], [118, "changes-to-pyclaw"], [119, "changes-to-pyclaw"], [120, "changes-to-pyclaw"], [121, "changes-to-pyclaw"], [122, "changes-to-pyclaw"], [123, "changes-to-pyclaw"], [124, "changes-to-pyclaw"], [125, "changes-to-pyclaw"], [126, "changes-to-pyclaw"], [127, "changes-to-pyclaw"], [128, "changes-to-pyclaw"]], "Other Clawpack Repositories": [[18, "other-clawpack-repositories"], [120, "other-clawpack-repositories"], [121, "other-clawpack-repositories"], [122, "other-clawpack-repositories"], [123, "other-clawpack-repositories"], [124, "other-clawpack-repositories"], [125, "other-clawpack-repositories"], [126, "other-clawpack-repositories"], [127, "other-clawpack-repositories"], [128, "other-clawpack-repositories"]], "Converting from Clawpack 4.3 to 4.6": [[19, "converting-from-clawpack-4-3-to-4-6"]], "Converting from Clawpack 4.6 to 5.0": [[20, "converting-from-clawpack-4-6-to-5-0"]], "Python conversion tool": [[20, "python-conversion-tool"]], "Clawpack 4.x links": [[21, "clawpack-4-x-links"]], "Changes in Clawpack 5.0": [[22, "changes-in-clawpack-5-0"]], "PyClaw in 5.0": [[22, "pyclaw-in-5-0"]], "Fortran package changes": [[22, "fortran-package-changes"]], "Changes to input parameters in setrun.py from 4.x to 5.0": [[22, "changes-to-input-parameters-in-setrun-py-from-4-x-to-5-0"]], "Changes to general parameters": [[22, "changes-to-general-parameters"]], "Changes to AMR parameters": [[22, "changes-to-amr-parameters"]], "Changes to GeoClaw parameters": [[22, "changes-to-geoclaw-parameters"]], "Changes to plotting routines": [[22, "changes-to-plotting-routines"]], "Clawpack components": [[23, "clawpack-components"]], "Other repositories": [[23, "other-repositories"]], "Clawpack Community": [[24, "clawpack-community"]], "User Workshops, Clinics, and Tutorials": [[24, "user-workshops-clinics-and-tutorials"]], "Available for streaming": [[24, "available-for-streaming"]], "Upcoming": [[24, "upcoming"], [24, "id1"]], "Recent": [[24, "recent"]], "Developer Workshops and Sprint Sessions": [[24, "developer-workshops-and-sprint-sessions"]], "Previous": [[24, "previous"]], "Other Clawpack events": [[24, "other-clawpack-events"]], "Contents": [[25, "id1"], [28, "contents"], [39, "contents"], [66, "contents"], [77, "contents"], [83, "contents"], [93, "contents"], [99, "contents"], [111, "contents"], [133, "contents"]], "Full Table of Contents": [[25, "full-table-of-contents"]], "Overview and Getting Started": [[25, "overview-and-getting-started"]], "Examples and Applications": [[25, "examples-and-applications"]], "Classic, AMRClaw, and GeoClaw": [[25, "classic-amrclaw-and-geoclaw"]], "Using the Fortran codes": [[25, "using-the-fortran-codes"]], "AMRClaw: adaptive mesh refinement": [[25, "amrclaw-adaptive-mesh-refinement"]], "GeoClaw: geophysical flows": [[25, "geoclaw-geophysical-flows"]], "PyClaw": [[25, "pyclaw"], [35, "pyclaw"], [91, "pyclaw"], [111, "pyclaw"], [150, "pyclaw"]], "Riemann": [[25, "riemann"]], "VisClaw: Plotting and Visualization Tools": [[25, "visclaw-plotting-and-visualization-tools"]], "Migrating applications from older versions of Clawpack": [[25, "migrating-applications-from-older-versions-of-clawpack"]], "Developers\u2019 resources": [[25, "developers-resources"]], "References": [[25, "references"], [52, "references"]], "Contributing examples and applications": [[26, "contributing-examples-and-applications"]], "current_data": [[27, "current-data"]], "Attributes of current_data:": [[27, "attributes-of-current-data"]], "Developers\u2019 Guide": [[28, "developers-guide"]], "Guidelines for contributing": [[28, "guidelines-for-contributing"]], "Reporting and fixing bugs": [[28, "reporting-and-fixing-bugs"]], "Developer communication": [[28, "developer-communication"]], "Installation instructions for developers": [[28, "installation-instructions-for-developers"]], "Cloning the most recent code from Github": [[28, "cloning-the-most-recent-code-from-github"]], "Checking out the master branch on each repository": [[28, "checking-out-the-master-branch-on-each-repository"]], "Updating to the latest master branch": [[28, "updating-to-the-latest-master-branch"]], "Never commit to master": [[28, "never-commit-to-master"]], "Adding your fork as a remote": [[28, "adding-your-fork-as-a-remote"]], "Modifying code": [[28, "modifying-code"]], "Issuing a pull request": [[28, "issuing-a-pull-request"]], "Testing a pull request": [[28, "testing-a-pull-request"]], "Top-level pull requests": [[28, "top-level-pull-requests"]], "Git workflow": [[28, "git-workflow"]], "Catching errors with Pyflakes and Pylint": [[28, "catching-errors-with-pyflakes-and-pylint"]], "Checking test coverage": [[28, "checking-test-coverage"]], "Trouble-Shooting Tips": [[28, "trouble-shooting-tips"]], "Docker for Clawpack": [[29, "docker-for-clawpack"]], "Using Version 5.8.0 or above": [[29, "using-version-5-8-0-or-above"]], "Getting started": [[29, "getting-started"]], "A better image for GeoClaw users": [[29, "a-better-image-for-geoclaw-users"]], "Stopping a container": [[29, "stopping-a-container"]], "Restarting a container": [[29, "restarting-a-container"]], "Running Jupyter notebooks": [[29, "running-jupyter-notebooks"]], "Moving files between the docker container and the host machine": [[29, "moving-files-between-the-docker-container-and-the-host-machine"]], "Some other useful docker commands": [[29, "some-other-useful-docker-commands"]], "Creating your own docker image": [[29, "creating-your-own-docker-image"]], "Dockerfiles for binder": [[29, "dockerfiles-for-binder"]], "dtopotools module for moving topography": [[30, "dtopotools-module-for-moving-topography"]], "Documentation auto-generated from the module docstrings": [[30, "module-clawpack.geoclaw.dtopotools"], [33, "module-clawpack.geoclaw.fgmax_tools"], [47, "module-clawpack.geoclaw.util"], [59, "module-clawpack.geoclaw.kmltools"], [154, "module-clawpack.geoclaw.topotools"]], "Fortran 77 vs. Fortran 90 files": [[31, "fortran-77-vs-fortran-90-files"]], "Fixed grid monitoring": [[32, "fixed-grid-monitoring"]], "Input file specification": [[32, "input-file-specification"]], "Different point styles": [[32, "different-point-styles"]], "Other attributes": [[32, "other-attributes"]], "Values to monitor": [[32, "values-to-monitor"]], "Choice of interpolation procedure": [[32, "choice-of-interpolation-procedure"]], "A simple example": [[32, "a-simple-example"]], "Processing and plotting fgmax output": [[32, "processing-and-plotting-fgmax-output"]], "Format of the output files": [[32, "format-of-the-output-files"]], "fgmax_tools module for working with topography data": [[33, "fgmax-tools-module-for-working-with-topography-data"]], "Fixed grid output": [[34, "fixed-grid-output"]], "Running an example": [[35, "running-an-example"], [36, "running-an-example"], [37, "running-an-example"]], "Classic": [[35, "classic"], [36, "classic"], [150, "classic"]], "Testing your Fortran installation and running an example": [[36, "testing-your-fortran-installation-and-running-an-example"]], "More examples": [[36, "more-examples"]], "Testing a PyClaw installation and running an example": [[37, "testing-a-pyclaw-installation-and-running-an-example"]], "From the Jupyter notebook": [[37, "from-the-jupyter-notebook"]], "From the IPython interpreter": [[37, "from-the-ipython-interpreter"]], "From the command line": [[37, "from-the-command-line"], [88, "from-the-command-line"]], "Specifying flagregions for adaptive refinement": [[38, "specifying-flagregions-for-adaptive-refinement"]], "Using ruled rectangles as flagregions": [[38, "using-ruled-rectangles-as-flagregions"]], "Force Cells to be Dry Initially": [[39, "force-cells-to-be-dry-initially"]], "Examples": [[39, "examples"], [44, "examples"], [66, "examples"], [91, "examples"], [133, "examples"]], "Sample topography from a 1/3 arcsecond DEM": [[39, "sample-topography-from-a-1-3-arcsecond-dem"], [66, "sample-topography-from-a-1-3-arcsecond-dem"]], "Creating the force_dry_init array": [[39, "creating-the-force-dry-init-array"]], "Create file to read into GeoClaw": [[39, "create-file-to-read-into-geoclaw"]], "Usage in GeoClaw Fortran code": [[39, "usage-in-geoclaw-fortran-code"]], "Internal GeoClaw modifications": [[39, "internal-geoclaw-modifications"]], "Fortran version": [[40, "fortran-version"]], "Makefiles": [[40, "makefiles"]], "More tips": [[40, "more-tips"]], "Fortran Compilers": [[41, "fortran-compilers"]], "FC environment variable": [[41, "fc-environment-variable"]], "FFLAGS environment variable": [[41, "fflags-environment-variable"]], "LFLAGS environment variable": [[41, "lflags-environment-variable"]], "Pre-Processor and the PPFLAGS environment variable": [[41, "pre-processor-and-the-ppflags-environment-variable"]], "gfortran compiler": [[41, "gfortran-compiler"]], "Intel fortran compiler": [[41, "intel-fortran-compiler"]], "Examples from the book FVMHP": [[42, "examples-from-the-book-fvmhp"]], "Available examples": [[42, "available-examples"]], "Clawpack Gallery": [[43, "clawpack-gallery"]], "Gauges": [[44, "gauges"]], "Gauge parameters in setrun": [[44, "gauge-parameters-in-setrun"]], "Plotting tools": [[44, "plotting-tools"]], "Plotting gauge locations": [[44, "plotting-gauge-locations"]], "GeoClaw Description and Detailed Contents": [[45, "geoclaw-description-and-detailed-contents"]], "Getting started with GeoClaw": [[46, "getting-started-with-geoclaw"]], "Running a GeoClaw code": [[46, "running-a-geoclaw-code"]], "Topography": [[46, "topography"]], "Plotting GeoClaw results": [[46, "plotting-geoclaw-results"]], "Setting up a new example": [[46, "setting-up-a-new-example"]], "geoclaw.util module of utility functions": [[47, "geoclaw-util-module-of-utility-functions"]], "Cautionary Hints on using GeoClaw": [[48, "cautionary-hints-on-using-geoclaw"]], "Tsunami hazard modeling": [[48, "tsunami-hazard-modeling"]], "GeoClaw plotting tools": [[49, "geoclaw-plotting-tools"]], "Plotting water depth or surface elevation": [[49, "plotting-water-depth-or-surface-elevation"]], "Tips on latitude-longitude coordinate axes": [[49, "tips-on-latitude-longitude-coordinate-axes"]], "Keeping track of repository versions with Git": [[50, "keeping-track-of-repository-versions-with-git"]], "Visualizing GeoClaw results in Google Earth": [[51, "visualizing-geoclaw-results-in-google-earth"]], "Basic requirements": [[51, "basic-requirements"]], "Optional GDAL library": [[51, "optional-gdal-library"]], "An example : The Chile 2010 tsunami event": [[51, "an-example-the-chile-2010-tsunami-event"]], "Plotting attributes needed for Google Earth": [[51, "plotting-attributes-needed-for-google-earth"]], "plotdata attributes": [[51, "plotdata-attributes"]], "plotfigure attributes": [[51, "plotfigure-attributes"]], "Creating the figures": [[51, "creating-the-figures"]], "plotaxes attributes": [[51, "plotaxes-attributes"]], "plotitem attributes": [[51, "plotitem-attributes"]], "Adding a colorbar overlay": [[51, "adding-a-colorbar-overlay"]], "Gauge plots": [[51, "gauge-plots"]], "Additional plotdata attributes": [[51, "additional-plotdata-attributes"]], "Plotting tips": [[51, "plotting-tips"]], "KML and KMZ files": [[51, "kml-and-kmz-files"]], "Tiling images for faster loading": [[51, "tiling-images-for-faster-loading"]], "Removing aliasing artifacts": [[51, "removing-aliasing-artifacts"]], "Creating multiple figures at different resolutions": [[51, "creating-multiple-figures-at-different-resolutions"]], "Mapping topography data to latitude/longitude coordinates": [[51, "mapping-topography-data-to-latitude-longitude-coordinates"]], "Publishing your results": [[51, "id1"]], "Using the GPU version of Clawpack": [[52, "using-the-gpu-version-of-clawpack"]], "Grid registration": [[53, "grid-registration"]], "NetCDF files": [[53, "netcdf-files"]], "Guide for updating this documentation": [[54, "guide-for-updating-this-documentation"]], "Git branches and tags": [[54, "git-branches-and-tags"]], "Configuration and style files": [[54, "configuration-and-style-files"]], "Updating the docs for a new release": [[54, "updating-the-docs-for-a-new-release"]], "To generate docs including previous versions": [[54, "to-generate-docs-including-previous-versions"]], "Updating the gallery": [[54, "updating-the-gallery"]], "Updating the webpages": [[54, "updating-the-webpages"]], "Extra files for webpages not built by Sphinx": [[54, "extra-files-for-webpages-not-built-by-sphinx"]], "Pages from other clawpack repositories": [[54, "pages-from-other-clawpack-repositories"]], "Guide for doing a Clawpack release": [[55, "guide-for-doing-a-clawpack-release"]], "Preparation": [[55, "preparation"]], "Version numbers": [[55, "version-numbers"]], "Release candidates": [[55, "release-candidates"]], "Create a tar file and a Github release": [[55, "create-a-tar-file-and-a-github-release"]], "Final release": [[55, "final-release"]], "Pypi": [[55, "pypi"]], "Zenodo": [[55, "zenodo"]], "Open Science Framework (OSF)": [[55, "open-science-framework-osf"]], "Updating the documentation": [[55, "updating-the-documentation"]], "Updating the apps repository": [[55, "updating-the-apps-repository"]], "Updating the Dockerfile": [[55, "updating-the-dockerfile"]], "Installing Clawpack": [[56, "installing-clawpack"]], "Next steps:": [[56, "next-steps"], [57, "next-steps"], [58, "next-steps"]], "Options for installing Clawpack Fortran codes": [[57, "options-for-installing-clawpack-fortran-codes"]], "tar file": [[57, "tar-file"]], "git clone": [[57, "git-clone"]], "pip install instructions": [[58, "pip-install-instructions"]], "Quick Installation of PyClaw with pip": [[58, "quick-installation-of-pyclaw-with-pip"]], "Quick Installation of all packages with pip": [[58, "quick-installation-of-all-packages-with-pip"]], "Using pip to install a different version": [[58, "using-pip-to-install-a-different-version"]], "Experimenting with code in the examples directories": [[58, "experimenting-with-code-in-the-examples-directories"]], "Troubleshooting pip install": [[58, "troubleshooting-pip-install"]], "kmltools module of utility functions": [[59, "kmltools-module-of-utility-functions"]], "Lagrangian gauges for particle tracking": [[60, "lagrangian-gauges-for-particle-tracking"]], "Specifying Lagrangian Gauges": [[60, "specifying-lagrangian-gauges"]], "Visclaw tools for plotting": [[60, "visclaw-tools-for-plotting"]], "Clawpack Makefiles": [[62, "clawpack-makefiles"]], "Applications directory Makefiles": [[62, "applications-directory-makefiles"]], "output": [[62, "output"]], "plots": [[62, "plots"]], "Variables": [[62, "variables"]], "Compiler flags": [[62, "compiler-flags"]], "Duplicate Base Source Name": [[62, "duplicate-base-source-name"]], "Library routines in Makefiles": [[63, "library-routines-in-makefiles"]], "Replacing files with the same name as library files": [[63, "replacing-files-with-the-same-name-as-library-files"]], "Using a modified library routine with a different name": [[63, "using-a-modified-library-routine-with-a-different-name"]], "Manning friction term": [[64, "manning-friction-term"]], "The mapc2p function": [[65, "the-mapc2p-function"]], "Marching Front algorithm": [[66, "marching-front-algorithm"]], "Function arguments": [[66, "function-arguments"]], "output array": [[66, "output-array"]], "creating a masked array": [[66, "creating-a-masked-array"]], "topofile mask for initializing dry points": [[66, "topofile-mask-for-initializing-dry-points"]], "fgmax points": [[66, "fgmax-points"]], "flag regions": [[66, "flag-regions"]], "The mask argument": [[66, "the-mask-argument"]], "The previous_pts_chosen argument": [[66, "the-previous-pts-chosen-argument"]], "Finding all points below a given elevation": [[66, "finding-all-points-below-a-given-elevation"]], "Create a buffer zone along shore": [[66, "create-a-buffer-zone-along-shore"]], "Choose points only near shore": [[66, "choose-points-only-near-shore"]], "Write out the masked array indicating fgmax points": [[66, "write-out-the-masked-array-indicating-fgmax-points"]], "Creating an AMR flag region": [[66, "creating-an-amr-flag-region"]], "Determining dry areas below MHW": [[66, "determining-dry-areas-below-mhw"]], "Plotting using Matlab": [[67, "plotting-using-matlab"]], "The Matlab search path": [[67, "the-matlab-search-path"]], "Creating output files": [[67, "creating-output-files"]], "The plotclaw command": [[67, "the-plotclaw-command"]], "The setplot file": [[67, "the-setplot-file"]], "The afterframe file": [[67, "the-afterframe-file"]], "Getting help": [[67, "getting-help"]], "Trouble shooting": [[67, "trouble-shooting"]], "Output files not found": [[67, "output-files-not-found"]], "MaxFrames not set": [[67, "maxframes-not-set"]], "Switching examples": [[67, "switching-examples"]], "Matlab Gallery": [[67, "matlab-gallery"]], "Using NetCDF output": [[68, "using-netcdf-output"]], "To install netcdf": [[68, "to-install-netcdf"]], "To compile with netcdf": [[68, "to-compile-with-netcdf"]], "To plot the results": [[68, "to-plot-the-results"]], "Creating a new application directory": [[69, "creating-a-new-application-directory"]], "Copying an existing example": [[69, "copying-an-existing-example"]], "Earthquake sources: Fault slip and the Okada model": [[70, "earthquake-sources-fault-slip-and-the-okada-model"]], "Fault slip on rectangular subfaults": [[70, "fault-slip-on-rectangular-subfaults"]], "Okada model": [[70, "okada-model"]], "Kinematic rupture": [[70, "kinematic-rupture"]], "Fault slip on triangular subfaults": [[70, "fault-slip-on-triangular-subfaults"]], "Using OpenMP": [[71, "using-openmp"]], "Using OpenMP with AMR": [[71, "using-openmp-with-amr"]], "Fixed grid output in GeoClaw": [[71, "fixed-grid-output-in-geoclaw"]], "Output data formats": [[72, "output-data-formats"]], "ASCII output data format": [[72, "ascii-output-data-format"]], "fort.t0002": [[72, "fort-t0002"]], "fort.q0002": [[72, "fort-q0002"]], "Raw binary output data format": [[72, "raw-binary-output-data-format"]], "NetCDF output data format": [[72, "netcdf-output-data-format"]], "Output of aux arrays": [[72, "output-of-aux-arrays"]], "Which Clawpack solver should I use?": [[73, "which-clawpack-solver-should-i-use"]], "Installation and user interface": [[73, "installation-and-user-interface"]], "Algorithmic differences": [[73, "algorithmic-differences"]], "Parallel computing": [[73, "parallel-computing"]], "Clawpack Community Photos": [[74, "clawpack-community-photos"]], "2016 Developers\u2019 workshop at University of Washington": [[74, "id1"]], "2015 Developers\u2019 workshop at University of Utah": [[74, "id2"]], "2014 HPC3 workshop at KAUST": [[74, "id3"]], "2013 Claw-Dev workshop at UW": [[74, "id4"]], "2012 HPC3 workshop at KAUST": [[74, "id6"]], "2011 coding sprints at UW": [[74, "coding-sprints-at-uw"]], "2010 GeoClaw hacking UW": [[74, "geoclaw-hacking-uw"]], "Plotting examples": [[75, "plotting-examples"]], "Plotting with Visclaw": [[76, "plotting-with-visclaw"]], "Plotting as post-processing": [[76, "plotting-as-post-processing"]], "Plotting on the fly": [[76, "plotting-on-the-fly"]], "Plotting hints and FAQ": [[77, "plotting-hints-and-faq"]], "What\u2019s the difference between make .plots and make plots ?": [[77, "what-s-the-difference-between-make-plots-and-make-plots"]], "How to plot a something other than a component of q?": [[77, "how-to-plot-a-something-other-than-a-component-of-q"]], "How to add another curve to a plot, e.g. the true solution?": [[77, "how-to-add-another-curve-to-a-plot-e-g-the-true-solution"]], "How to change the title in a plot?": [[77, "how-to-change-the-title-in-a-plot"]], "How to specify outdir, the directory to find fort.* files for plotting?": [[77, "how-to-specify-outdir-the-directory-to-find-fort-files-for-plotting"]], "How to specify a different outdir for some plot item?": [[77, "how-to-specify-a-different-outdir-for-some-plot-item"]], "How to set plot parameters that are not provided as attributes of ClawPlotItem?": [[77, "how-to-set-plot-parameters-that-are-not-provided-as-attributes-of-clawplotitem"]], "How to change the size or background color of a figure?": [[77, "how-to-change-the-size-or-background-color-of-a-figure"]], "Specifying colormaps for pcolor or contourf plots": [[77, "specifying-colormaps-for-pcolor-or-contourf-plots"]], "How to debug setplot.py?": [[77, "how-to-debug-setplot-py"]], "Plotting routines for GeoClaw": [[78, "plotting-routines-for-geoclaw"]], "Plotting options in Python": [[79, "plotting-options-in-python"]], "Producing html plots from the command line": [[79, "producing-html-plots-from-the-command-line"]], "Producing a latex file with plots from the command line": [[79, "producing-a-latex-file-with-plots-from-the-command-line"]], "Setting plot parameters with a setplot function": [[79, "setting-plot-parameters-with-a-setplot-function"]], "Interactive plotting with Iplotclaw": [[79, "interactive-plotting-with-iplotclaw"]], "Access to current_data": [[79, "access-to-current-data"]], "printframes": [[79, "printframes"]], "Specifying what and how to plot": [[79, "specifying-what-and-how-to-plot"]], "Installation Prerequisites": [[80, "installation-prerequisites"]], "Operating system": [[80, "operating-system"]], "Fortran": [[80, "fortran"]], "Python": [[80, "python"]], "pip": [[80, "pip"]], "Git": [[80, "git"]], "About PyClaw": [[81, "about-pyclaw"]], "Contributors": [[81, "contributors"]], "PyClaw Basics": [[82, "pyclaw-basics"]], "Understanding Pyclaw Classes": [[83, "understanding-pyclaw-classes"]], "Flow of a Pyclaw Simulation": [[83, "flow-of-a-pyclaw-simulation"]], "Creation of a Pyclaw Solution": [[83, "creation-of-a-pyclaw-solution"]], "Creation of a Pyclaw Solver": [[83, "creation-of-a-pyclaw-solver"]], "Creating and Running a Simulation with Controller": [[83, "creating-and-running-a-simulation-with-controller"]], "Restarting a simulation": [[83, "restarting-a-simulation"]], "Outputting aux values": [[83, "outputting-aux-values"]], "Outputting derived quantities": [[83, "outputting-derived-quantities"], [93, "outputting-derived-quantities"]], "Porting a problem from Clawpack 4.6.x to PyClaw": [[84, "porting-a-problem-from-clawpack-4-6-x-to-pyclaw"]], "Running PyClaw in the cloud": [[85, "running-pyclaw-in-the-cloud"]], "Sage Math Cloud": [[85, "sage-math-cloud"]], "Pyclaw Controller Class": [[86, "pyclaw-controller-class"]], "pyclaw.controller.Controller": [[86, "pyclaw-controller-controller"]], "Pyclaw Limiters": [[87, "pyclaw-limiters"]], "clawpack.pyclaw.limiters.tvd": [[87, "module-clawpack.pyclaw.limiters.tvd"]], "CFL Independent Limiters": [[87, "cfl-independent-limiters"]], "CFL Dependent Limiters": [[87, "cfl-dependent-limiters"]], "Working with PyClaw\u2019s built-in examples": [[88, "working-with-pyclaw-s-built-in-examples"]], "Running and plotting examples": [[88, "running-and-plotting-examples"]], "Interactively in IPython": [[88, "interactively-in-ipython"]], "Built-in examples": [[88, "built-in-examples"]], "Adding new examples": [[88, "adding-new-examples"]], "PyClaw Geometry": [[89, "pyclaw-geometry"]], "Serial Geometry Objects": [[89, "serial-geometry-objects"]], "pyclaw.geometry.Domain": [[89, "pyclaw-geometry-domain"]], "pyclaw.geometry.Patch": [[89, "pyclaw-geometry-patch"]], "pyclaw.geometry.Grid": [[89, "pyclaw-geometry-grid"]], "pyclaw.geometry.Dimension": [[89, "pyclaw-geometry-dimension"]], "Parallel Geometry Objects": [[89, "parallel-geometry-objects"]], "petclaw.geometry.Domain": [[89, "petclaw-geometry-domain"]], "petclaw.geometry.Patch": [[89, "petclaw-geometry-patch"]], "Going Further": [[90, "going-further"]], "PyClaw installation": [[91, "pyclaw-installation"]], "Features": [[91, "features"]], "PyClaw Documentation": [[91, "pyclaw-documentation"]], "PyClaw Modules reference documentation": [[91, "pyclaw-modules-reference-documentation"]], "Riemann Solvers reference documentation": [[91, "riemann-solvers-reference-documentation"]], "Indices and tables": [[91, "indices-and-tables"]], "Citing PyClaw": [[91, "citing-pyclaw"]], "Pyclaw Input/Output Package": [[92, "pyclaw-input-output-package"]], "pyclaw.fileio.ascii": [[92, "module-clawpack.pyclaw.fileio.ascii"]], "pyclaw.fileio.hdf5": [[92, "pyclaw-fileio-hdf5"]], "pyclaw.fileio.netcdf": [[92, "module-clawpack.pyclaw.fileio.netcdf"]], "PyClaw output": [[93, "pyclaw-output"]], "Output frames": [[93, "output-frames"]], "When output is saved/written": [[93, "when-output-is-saved-written"]], "Where and how output is written": [[93, "where-and-how-output-is-written"]], "What output is written": [[93, "what-output-is-written"]], "Outputting functionals": [[93, "outputting-functionals"]], "Using gauges": [[93, "using-gauges"]], "Logging": [[93, "logging"]], "Running in parallel": [[94, "running-in-parallel"]], "Installing PETSc": [[94, "installing-petsc"]], "Testing your installation": [[94, "testing-your-installation"], [150, "testing-your-installation"]], "Running and plotting an example": [[94, "running-and-plotting-an-example"]], "Tips for making your application run correctly in parallel": [[94, "tips-for-making-your-application-run-correctly-in-parallel"]], "Passing options to PETSc": [[94, "passing-options-to-petsc"]], "Plotting PyClaw results": [[95, "plotting-pyclaw-results"]], "Basics": [[95, "basics"]], "Plotting result from parallel runs": [[95, "plotting-result-from-parallel-runs"]], "Setting up your own problem": [[96, "setting-up-your-own-problem"]], "Writing the initialization script": [[96, "writing-the-initialization-script"]], "Setting initial conditions": [[96, "setting-initial-conditions"]], "Setting auxiliary variables": [[96, "setting-auxiliary-variables"]], "Setting boundary conditions": [[96, "setting-boundary-conditions"]], "Setting solver options": [[96, "setting-solver-options"]], "Using your own Riemann solver": [[96, "using-your-own-riemann-solver"]], "Adding source terms": [[96, "adding-source-terms"]], "Setting up the Makefile": [[96, "setting-up-the-makefile"]], "Riemann Solver Package": [[97, "riemann-solver-package"]], "Acoustics": [[97, "acoustics"]], "Advection": [[97, "advection"]], "Burgers Equation": [[97, "burgers-equation"]], "Euler Equations": [[97, "euler-equations"]], "Shallow Water Equations": [[97, "shallow-water-equations"]], "PyClaw Solutions": [[98, "pyclaw-solutions"]], "pyclaw.solution.Solution": [[98, "pyclaw-solution-solution"]], "Using PyClaw\u2019s solvers: Classic and SharpClaw": [[99, "using-pyclaw-s-solvers-classic-and-sharpclaw"]], "SharpClaw Solvers": [[99, "sharpclaw-solvers"]], "pyclaw.sharpclaw": [[99, "pyclaw-sharpclaw"]], "Pyclaw Classic Clawpack Solvers": [[99, "pyclaw-classic-clawpack-solvers"]], "pyclaw.classic.solver": [[99, "pyclaw-classic-solver"]], "Change to Custom BC Function Signatures": [[99, "change-to-custom-bc-function-signatures"]], "Installing PyClaw": [[100, "installing-pyclaw"]], "Dependencies: Python, gfortran, numpy, and matplotlib": [[100, "dependencies-python-gfortran-numpy-and-matplotlib"]], "Obtaining Python, numpy, and matplotlib": [[100, "obtaining-python-numpy-and-matplotlib"]], "Clawpack": [[100, "clawpack"]], "Testing your installation with nose": [[100, "testing-your-installation-with-nose"]], "Next steps": [[100, "next-steps"]], "PyClaw State": [[101, "pyclaw-state"]], "Serial pyclaw.state.State": [[101, "serial-pyclaw-state-state"]], "Parallel petclaw.state.State": [[101, "parallel-petclaw-state-state"]], "Troubleshooting": [[102, "troubleshooting"], [155, "troubleshooting"]], "Compilation errors": [[102, "compilation-errors"]], "Use Fortran-ordered arrays": [[102, "use-fortran-ordered-arrays"]], "Installation": [[102, "installation"]], "PyClaw tutorial: Solve the acoustics equations": [[103, "pyclaw-tutorial-solve-the-acoustics-equations"]], "The Solver": [[103, "the-solver"]], "The domain": [[103, "the-domain"]], "Initial condition": [[103, "initial-condition"]], "Problem-specific parameters": [[103, "problem-specific-parameters"]], "The controller": [[103, "the-controller"]], "Pyclaw Utility Module": [[104, "pyclaw-utility-module"]], "pyclaw.util": [[104, "module-clawpack.pyclaw.util"]], "Python Hints": [[105, "python-hints"]], "Dropping support for Python 2.7": [[105, "dropping-support-for-python-2-7"]], "References and tutorials": [[105, "references-and-tutorials"]], "Notebooks": [[105, "notebooks"]], "Python path": [[106, "python-path"]], "whichclaw.py": [[106, "whichclaw-py"]], "Which version was imported?": [[106, "which-version-was-imported"]], "sys.path": [[106, "sys-path"]], "easy-install.pth": [[106, "easy-install-pth"]], "PYTHONPATH": [[106, "pythonpath"], [137, "pythonpath"]], "qinit default routines": [[107, "qinit-default-routines"]], "qinit routine in GeoClaw": [[107, "qinit-routine-in-geoclaw"]], "Quick start guide for storm surge modeling": [[108, "quick-start-guide-for-storm-surge-modeling"]], "Quick start guide for tsunami modeling": [[109, "quick-start-guide-for-tsunami-modeling"]], "AMR refinement criteria": [[110, "amr-refinement-criteria"]], "Flagging criteria": [[110, "flagging-criteria"]], "flag2refine": [[110, "flag2refine"]], "Richardson extrapolation": [[110, "richardson-extrapolation"]], "Specifying AMR regions": [[110, "specifying-amr-regions"]], "Implementation": [[110, "implementation"]], "Flagging criteria in GeoClaw": [[110, "flagging-criteria-in-geoclaw"]], "Regression testing": [[111, "regression-testing"]], "Running the tests": [[111, "running-the-tests"], [111, "id2"]], "Fortran codes": [[111, "fortran-codes"]], "Travis continuous integration": [[111, "travis-continuous-integration"]], "Diff tools for checking test output": [[111, "diff-tools-for-checking-test-output"]], "chardiff tool for line-by-line comparison of output files": [[111, "chardiff-tool-for-line-by-line-comparison-of-output-files"]], "imagediff tool for pixel comparison of plots": [[111, "imagediff-tool-for-pixel-comparison-of-plots"]], "Running and writing tests in PyClaw": [[111, "running-and-writing-tests-in-pyclaw"]], "Running serial tests simultaneously": [[111, "running-serial-tests-simultaneously"]], "Running a specific test": [[111, "running-a-specific-test"]], "Doctests": [[111, "doctests"]], "Writing New Tests": [[111, "writing-new-tests"]], "v5.0.0 release notes": [[112, "v5-0-0-release-notes"]], "Changes to classic, riemann, amrclaw, geoclaw, visclaw": [[112, "changes-to-classic-riemann-amrclaw-geoclaw-visclaw"]], "v5.1.0 release notes": [[113, "v5-1-0-release-notes"]], "v5.2.0 release notes": [[114, "v5-2-0-release-notes"]], "v5.2.1 release notes": [[115, "v5-2-1-release-notes"]], "v5.2.2 release notes": [[116, "v5-2-2-release-notes"]], "v5.3.0 release notes": [[117, "v5-3-0-release-notes"]], "v5.3.1 release notes": [[118, "v5-3-1-release-notes"]], "v5.4.0 release notes": [[119, "v5-4-0-release-notes"]], "Global changes": [[119, "global-changes"]], "v5.4.1 release notes": [[120, "v5-4-1-release-notes"]], "Changes to documentation": [[120, "changes-to-documentation"], [121, "changes-to-documentation"]], "v5.5.0 release notes": [[121, "v5-5-0-release-notes"]], "v5.6.0 release notes": [[122, "v5-6-0-release-notes"]], "v5.6.1 release notes": [[123, "v5-6-1-release-notes"]], "v5.7.0 release notes": [[124, "v5-7-0-release-notes"]], "Python support": [[124, "python-support"]], "v5.7.1 release notes": [[125, "v5-7-1-release-notes"]], "v5.8.0 release notes": [[126, "v5-8-0-release-notes"]], "v5.8.1 release notes": [[127, "v5-8-1-release-notes"]], "v5.8.2 release notes": [[128, "v5-8-2-release-notes"]], "Releases of Clawpack and release notes": [[129, "releases-of-clawpack-and-release-notes"]], "Other notes:": [[129, "other-notes"]], "Releases:": [[129, "id1"]], "Clawpack 4.x": [[129, "clawpack-4-x"]], "Checkpointing and restarting": [[130, "checkpointing-and-restarting"]], "Checkpointing a computation": [[130, "checkpointing-a-computation"]], "Restarting a computation": [[130, "restarting-a-computation"]], "Modifying the Makefile for a restart": [[130, "modifying-the-makefile-for-a-restart"]], "Output files after a restart": [[130, "output-files-after-a-restart"]], "Riemann solvers": [[131, "riemann-solvers"]], "One-dimensional Riemann solver": [[131, "one-dimensional-riemann-solver"]], "Pointwise Riemann solvers": [[131, "pointwise-riemann-solvers"]], "f-wave Riemann solvers": [[131, "f-wave-riemann-solvers"]], "2D Riemann solvers": [[131, "d-riemann-solvers"]], "Using a custom solver": [[131, "using-a-custom-solver"]], "Adding a solver to the Riemann repository": [[131, "adding-a-solver-to-the-riemann-repository"]], "Shallow water Riemann solvers in Clawpack": [[132, "shallow-water-riemann-solvers-in-clawpack"]], "One dimension": [[132, "one-dimension"]], "Two dimensions": [[132, "two-dimensions"]], "Layered shallow water equations": [[132, "layered-shallow-water-equations"]], "Potentially useful contributions (what\u2019s missing)": [[132, "potentially-useful-contributions-whats-missing"]], "Demonstrations": [[132, "demonstrations"]], "Roe": [[132, "roe"]], "HLL": [[132, "hll"]], "Ruled Rectangles": [[133, "ruled-rectangles"]], "Relation to convex polygons": [[133, "relation-to-convex-polygons"]], "Other attributes and methods": [[133, "other-attributes-and-methods"]], "ds": [[133, "ds"]], "slu": [[133, "slu"]], "bounding_box": [[133, "bounding-box"]], "mask_outside": [[133, "mask-outside"]], "read and write, and instantiating from a file": [[133, "read-and-write-and-instantiating-from-a-file"]], "make_kml": [[133, "make-kml"]], "A GeoClaw AMR flag region": [[133, "a-geoclaw-amr-flag-region"]], "A simple rectangle": [[133, "a-simple-rectangle"]], "Defining a Ruled Rectangle covering selected cells": [[133, "defining-a-ruled-rectangle-covering-selected-cells"]], "Example covering the continental shelf": [[133, "example-covering-the-continental-shelf"]], "Setting sea_level": [[134, "setting-sea-level"]], "Set Eta Init \u2013 spatially varying initial surface elevation": [[135, "set-eta-init-spatially-varying-initial-surface-elevation"]], "Default behavior, adjusting sea level by seismic deformation": [[135, "default-behavior-adjusting-sea-level-by-seismic-deformation"]], "Other use cases": [[135, "other-use-cases"]], "setaux default routines": [[136, "setaux-default-routines"]], "setaux routine in GeoClaw": [[136, "setaux-routine-in-geoclaw"]], "Set environment variables": [[137, "set-environment-variables"]], "CLAW": [[137, "claw"]], "FC": [[137, "fc"]], "Using setplot.py to specify the desired plots": [[138, "using-setplot-py-to-specify-the-desired-plots"]], "Plotting Data Objects": [[138, "plotting-data-objects"]], "Overview": [[138, "overview"]], "Specifying classic run-time parameters in setrun.py": [[139, "specifying-classic-run-time-parameters-in-setrun-py"]], "Input": [[139, "input"], [140, "input"]], "Output": [[139, "output"], [140, "output"]], "Run-time parameters": [[139, "run-time-parameters"], [140, "run-time-parameters"]], "Specifying AMRClaw run-time parameters in setrun.py": [[140, "specifying-amrclaw-run-time-parameters-in-setrun-py"]], "Special AMR parameters": [[140, "special-amr-parameters"]], "Debugging flags for additional printing": [[140, "debugging-flags-for-additional-printing"]], "Sample setrun.py module for AMRClaw": [[141, "sample-setrun-py-module-for-amrclaw"]], "Specifying GeoClaw parameters in setrun.py": [[142, "specifying-geoclaw-parameters-in-setrun-py"]], "Additional AMR parameters": [[142, "additional-amr-parameters"]], "General geo parameters": [[142, "general-geo-parameters"]], "Topography data file parameters": [[142, "topography-data-file-parameters"]], "qinit data file parameters": [[142, "qinit-data-file-parameters"]], "AMR refinement region parameters": [[142, "amr-refinement-region-parameters"]], "Fixed grid output parameters": [[142, "fixed-grid-output-parameters"]], "Fixed grid maximum monitoring / arrival times": [[142, "fixed-grid-maximum-monitoring-arrival-times"]], "Storm Specification Data": [[142, "storm-specification-data"]], "Sample setrun.py module for classic Clawpack": [[143, "sample-setrun-py-module-for-classic-clawpack"]], "Saving and sharing results": [[144, "saving-and-sharing-results"]], "Making webpages of plots": [[144, "making-webpages-of-plots"]], "Sharing your results": [[144, "sharing-your-results"]], "Jupyter notebooks": [[144, "jupyter-notebooks"]], "Compiling the Sphinx documentation locally": [[145, "compiling-the-sphinx-documentation-locally"]], "src1d default routines": [[146, "src1d-default-routines"]], "src1d routine in GeoClaw": [[146, "src1d-routine-in-geoclaw"]], "src default routines": [[147, "src-default-routines"]], "src routine in GeoClaw": [[147, "src-routine-in-geoclaw"]], "Storm Specification Class and Tools": [[148, "storm-specification-class-and-tools"]], "Sources for Storm Surge Data": [[149, "sources-for-storm-surge-data"]], "Timing Statistics": [[151, "timing-statistics"]], "Topography data": [[152, "topography-data"]], "Downloading topography files": [[152, "downloading-topography-files"]], "NetCDF format": [[152, "netcdf-format"]], "Topography displacement files": [[152, "topography-displacement-files"]], "qinit data file": [[152, "qinit-data-file"]], "Python tools for working with topo and dtopo": [[153, "python-tools-for-working-with-topo-and-dtopo"]], "topotools module for working with topography data": [[154, "topotools-module-for-working-with-topography-data"]], "Troubleshooting Installation": [[155, "troubleshooting-installation"]], "Troubleshooting Fortran:": [[155, "troubleshooting-fortran"]], "Setting the Fortran compiler to be used by f2py (pip)": [[155, "setting-the-fortran-compiler-to-be-used-by-f2py-pip"]], "Trouble compiling Fortran code at the command line": [[155, "trouble-compiling-fortran-code-at-the-command-line"]], "Trouble running \u201cmake .exe\u201d": [[155, "trouble-running-make-exe"]], "Trouble running \u201cmake .data\u201d": [[155, "trouble-running-make-data"]], "Trouble running \u201cmake .output\u201d": [[155, "trouble-running-make-output"]], "Trouble running \u201cmake .plots\u201d": [[155, "trouble-running-make-plots"]], "Some sources of tsunami data": [[156, "some-sources-of-tsunami-data"]], "Topography / bathymetry": [[156, "topography-bathymetry"]], "Earthquake source models": [[156, "earthquake-source-models"]], "DART buoy data": [[156, "dart-buoy-data"]], "Tide gauges": [[156, "tide-gauges"]], "User files required for the Fortran code": [[157, "user-files-required-for-the-fortran-code"]], "Specifying the initial conditions": [[157, "specifying-the-initial-conditions"]], "Specifying the Riemann solver": [[157, "specifying-the-riemann-solver"]], "Specifying boundary conditions": [[157, "specifying-boundary-conditions"]], "Specifying problem-specific data": [[157, "specifying-problem-specific-data"]], "Specifying spatially-varying data using setaux": [[157, "specifying-spatially-varying-data-using-setaux"]], "Using b4step for work to be done before each time step": [[157, "using-b4step-for-work-to-be-done-before-each-time-step"]], "Using src for source terms": [[157, "using-src-for-source-terms"]], "Using src1d for source terms with AMRClaw": [[157, "using-src1d-for-source-terms-with-amrclaw"]], "Plotting with VisIt": [[158, "plotting-with-visit"]], "Clawpack Virtual Machine": [[159, "clawpack-virtual-machine"]], "Wave-propagation algorithms": [[160, "wave-propagation-algorithms"]], "One space dimension": [[160, "one-space-dimension"]], "Godunov\u2019s method": [[160, "godunov-s-method"]], "High-resolution methods": [[160, "high-resolution-methods"]], "f-wave formulation": [[160, "f-wave-formulation"]], "Capacity functions": [[160, "capacity-functions"]], "Source terms": [[160, "source-terms"]]}, "indexentries": {"clawplotaxes (built-in class)": [[0, "ClawPlotAxes"]], "gethandle()": [[0, "gethandle"], [2, "gethandle"], [3, "gethandle"]], "new_plotitem()": [[0, "new_plotitem"]], "clawplotdata (built-in class)": [[1, "ClawPlotData"]], "clearfigures()": [[1, "clearfigures"]], "clearframes()": [[1, "clearframes"]], "getaxes()": [[1, "getaxes"]], "getfigure()": [[1, "getfigure"]], "getframe()": [[1, "getframe"], [3, "getframe"]], "getitem()": [[1, "getitem"]], "iplotclaw()": [[1, "iplotclaw"]], "new_plotfigure()": [[1, "new_plotfigure"]], "plotframe()": [[1, "plotframe"]], "printframes()": [[1, "printframes"]], "showitems()": [[1, "showitems"]], "clawplotfigure (built-in class)": [[2, "ClawPlotFigure"]], "new_plotaxes()": [[2, "new_plotaxes"]], "clawplotitem (built-in class)": [[3, "ClawPlotItem"]], "csvfault (class in clawpack.geoclaw.dtopotools)": [[30, "clawpack.geoclaw.dtopotools.CSVFault"]], "dtopography (class in clawpack.geoclaw.dtopotools)": [[30, "clawpack.geoclaw.dtopotools.DTopography"]], "dtopography1d (class in clawpack.geoclaw.dtopotools)": [[30, "clawpack.geoclaw.dtopotools.DTopography1d"]], "fault (class in clawpack.geoclaw.dtopotools)": [[30, "clawpack.geoclaw.dtopotools.Fault"]], "fault1d (class in clawpack.geoclaw.dtopotools)": [[30, "clawpack.geoclaw.dtopotools.Fault1d"]], "mo() (clawpack.geoclaw.dtopotools.fault method)": [[30, "clawpack.geoclaw.dtopotools.Fault.Mo"]], "mo() (clawpack.geoclaw.dtopotools.subfault method)": [[30, "clawpack.geoclaw.dtopotools.SubFault.Mo"]], "mw() (clawpack.geoclaw.dtopotools.fault method)": [[30, "clawpack.geoclaw.dtopotools.Fault.Mw"]], "mw() (in module clawpack.geoclaw.dtopotools)": [[30, "clawpack.geoclaw.dtopotools.Mw"]], "siftfault (class in clawpack.geoclaw.dtopotools)": [[30, "clawpack.geoclaw.dtopotools.SiftFault"]], "subfault (class in clawpack.geoclaw.dtopotools)": [[30, "clawpack.geoclaw.dtopotools.SubFault"]], "subfault1d (class in clawpack.geoclaw.dtopotools)": [[30, "clawpack.geoclaw.dtopotools.SubFault1d"]], "subdividedplanefault (class in clawpack.geoclaw.dtopotools)": [[30, "clawpack.geoclaw.dtopotools.SubdividedPlaneFault"]], "tensorproductfault (class in clawpack.geoclaw.dtopotools)": [[30, "clawpack.geoclaw.dtopotools.TensorProductFault"]], "ucsbfault (class in clawpack.geoclaw.dtopotools)": [[30, "clawpack.geoclaw.dtopotools.UCSBFault"]], "calculate_geometry() (clawpack.geoclaw.dtopotools.subfault method)": [[30, "clawpack.geoclaw.dtopotools.SubFault.calculate_geometry"]], "calculate_geometry_triangles() (clawpack.geoclaw.dtopotools.subfault method)": [[30, "clawpack.geoclaw.dtopotools.SubFault.calculate_geometry_triangles"]], "centers (clawpack.geoclaw.dtopotools.subfault property)": [[30, "clawpack.geoclaw.dtopotools.SubFault.centers"]], "clawpack.geoclaw.dtopotools": [[30, "module-clawpack.geoclaw.dtopotools"]], "containing_rect() (clawpack.geoclaw.dtopotools.fault method)": [[30, "clawpack.geoclaw.dtopotools.Fault.containing_rect"]], "convert_to_standard_units() (clawpack.geoclaw.dtopotools.subfault method)": [[30, "clawpack.geoclaw.dtopotools.SubFault.convert_to_standard_units"]], "coordinate_specification (clawpack.geoclaw.dtopotools.subfault attribute)": [[30, "clawpack.geoclaw.dtopotools.SubFault.coordinate_specification"]], "coordinate_specification (clawpack.geoclaw.dtopotools.subfault1d attribute)": [[30, "clawpack.geoclaw.dtopotools.SubFault1d.coordinate_specification"]], "corners (clawpack.geoclaw.dtopotools.subfault property)": [[30, "clawpack.geoclaw.dtopotools.SubFault.corners"]], "create_dtopo_xy() (clawpack.geoclaw.dtopotools.fault method)": [[30, "clawpack.geoclaw.dtopotools.Fault.create_dtopo_xy"]], "create_dtopography() (clawpack.geoclaw.dtopotools.fault method)": [[30, "clawpack.geoclaw.dtopotools.Fault.create_dtopography"]], "dz_at_t() (clawpack.geoclaw.dtopotools.dtopography method)": [[30, "clawpack.geoclaw.dtopotools.DTopography.dZ_at_t"]], "dz_at_t() (clawpack.geoclaw.dtopotools.dtopography1d method)": [[30, "clawpack.geoclaw.dtopotools.DTopography1d.dZ_at_t"]], "dz_cellave_at_t() (clawpack.geoclaw.dtopotools.dtopography1d method)": [[30, "clawpack.geoclaw.dtopotools.DTopography1d.dZ_cellave_at_t"]], "dz_max() (clawpack.geoclaw.dtopotools.dtopography method)": [[30, "clawpack.geoclaw.dtopotools.DTopography.dZ_max"]], "depth (clawpack.geoclaw.dtopotools.subfault attribute)": [[30, "clawpack.geoclaw.dtopotools.SubFault.depth"]], "dip (clawpack.geoclaw.dtopotools.subfault attribute)": [[30, "clawpack.geoclaw.dtopotools.SubFault.dip"]], "dynamic_slip() (clawpack.geoclaw.dtopotools.subfault method)": [[30, "clawpack.geoclaw.dtopotools.SubFault.dynamic_slip"]], "gauss_pts (clawpack.geoclaw.dtopotools.subfault property)": [[30, "clawpack.geoclaw.dtopotools.SubFault.gauss_pts"]], "latitude (clawpack.geoclaw.dtopotools.subfault attribute)": [[30, "clawpack.geoclaw.dtopotools.SubFault.latitude"]], "latitude (clawpack.geoclaw.dtopotools.subfault1d attribute)": [[30, "clawpack.geoclaw.dtopotools.SubFault1d.latitude"]], "length (clawpack.geoclaw.dtopotools.subfault attribute)": [[30, "clawpack.geoclaw.dtopotools.SubFault.length"]], "length (clawpack.geoclaw.dtopotools.subfault1d attribute)": [[30, "clawpack.geoclaw.dtopotools.SubFault1d.length"]], "longitude (clawpack.geoclaw.dtopotools.subfault attribute)": [[30, "clawpack.geoclaw.dtopotools.SubFault.longitude"]], "longitude (clawpack.geoclaw.dtopotools.subfault1d attribute)": [[30, "clawpack.geoclaw.dtopotools.SubFault1d.longitude"]], "module": [[30, "module-clawpack.geoclaw.dtopotools"], 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module clawpack.geoclaw.dtopotools)": [[30, "clawpack.geoclaw.dtopotools.plot_dZ_colors"]], "plot_dz_contours() (clawpack.geoclaw.dtopotools.dtopography method)": [[30, "clawpack.geoclaw.dtopotools.DTopography.plot_dZ_contours"]], "plot_dz_contours() (in module clawpack.geoclaw.dtopotools)": [[30, "clawpack.geoclaw.dtopotools.plot_dZ_contours"]], "plot_subfaults() (clawpack.geoclaw.dtopotools.fault method)": [[30, "clawpack.geoclaw.dtopotools.Fault.plot_subfaults"]], "plot_subfaults_depth() (clawpack.geoclaw.dtopotools.fault method)": [[30, "clawpack.geoclaw.dtopotools.Fault.plot_subfaults_depth"]], "rake (clawpack.geoclaw.dtopotools.subfault attribute)": [[30, "clawpack.geoclaw.dtopotools.SubFault.rake"]], "rake (clawpack.geoclaw.dtopotools.subfault1d attribute)": [[30, "clawpack.geoclaw.dtopotools.SubFault1d.rake"]], "read() (clawpack.geoclaw.dtopotools.csvfault method)": [[30, "clawpack.geoclaw.dtopotools.CSVFault.read"]], "read() (clawpack.geoclaw.dtopotools.dtopography method)": [[30, "clawpack.geoclaw.dtopotools.DTopography.read"]], "read() (clawpack.geoclaw.dtopotools.dtopography1d method)": [[30, "clawpack.geoclaw.dtopotools.DTopography1d.read"]], "read() (clawpack.geoclaw.dtopotools.fault method)": [[30, "clawpack.geoclaw.dtopotools.Fault.read"]], "read() (clawpack.geoclaw.dtopotools.ucsbfault method)": [[30, "clawpack.geoclaw.dtopotools.UCSBFault.read"]], "rise_fraction() (in module clawpack.geoclaw.dtopotools)": [[30, "clawpack.geoclaw.dtopotools.rise_fraction"]], "rise_shape (clawpack.geoclaw.dtopotools.subfault attribute)": [[30, "clawpack.geoclaw.dtopotools.SubFault.rise_shape"]], "rise_time (clawpack.geoclaw.dtopotools.subfault attribute)": [[30, "clawpack.geoclaw.dtopotools.SubFault.rise_time"]], "rise_time_starting (clawpack.geoclaw.dtopotools.subfault attribute)": [[30, "clawpack.geoclaw.dtopotools.SubFault.rise_time_starting"]], "rupture_time (clawpack.geoclaw.dtopotools.subfault attribute)": [[30, "clawpack.geoclaw.dtopotools.SubFault.rupture_time"]], "rupture_type (clawpack.geoclaw.dtopotools.subfault attribute)": [[30, "clawpack.geoclaw.dtopotools.SubFault.rupture_type"]], "set_corners() (clawpack.geoclaw.dtopotools.subfault method)": [[30, "clawpack.geoclaw.dtopotools.SubFault.set_corners"]], "set_dynamic_slip() (clawpack.geoclaw.dtopotools.fault method)": [[30, "clawpack.geoclaw.dtopotools.Fault.set_dynamic_slip"]], "set_subfaults() (clawpack.geoclaw.dtopotools.siftfault method)": [[30, "clawpack.geoclaw.dtopotools.SiftFault.set_subfaults"]], "slip (clawpack.geoclaw.dtopotools.subfault attribute)": [[30, "clawpack.geoclaw.dtopotools.SubFault.slip"]], "strike (clawpack.geoclaw.dtopotools.subfault attribute)": [[30, "clawpack.geoclaw.dtopotools.SubFault.strike"]], "strike (clawpack.geoclaw.dtopotools.subfault1d attribute)": [[30, "clawpack.geoclaw.dtopotools.SubFault1d.strike"]], "strike_direction() (in module clawpack.geoclaw.dtopotools)": [[30, "clawpack.geoclaw.dtopotools.strike_direction"]], "subdivide() (clawpack.geoclaw.dtopotools.subdividedplanefault method)": [[30, "clawpack.geoclaw.dtopotools.SubdividedPlaneFault.subdivide"]], "width (clawpack.geoclaw.dtopotools.subfault attribute)": [[30, "clawpack.geoclaw.dtopotools.SubFault.width"]], "write() (clawpack.geoclaw.dtopotools.dtopography method)": [[30, "clawpack.geoclaw.dtopotools.DTopography.write"]], "write() (clawpack.geoclaw.dtopotools.dtopography1d method)": [[30, "clawpack.geoclaw.dtopotools.DTopography1d.write"]], "write() (clawpack.geoclaw.dtopotools.fault method)": [[30, "clawpack.geoclaw.dtopotools.Fault.write"]], "fgmaxgrid (class in clawpack.geoclaw.fgmax_tools)": [[33, "clawpack.geoclaw.fgmax_tools.FGmaxGrid"]], "adjust_fgmax_1d() (in module clawpack.geoclaw.fgmax_tools)": [[33, "clawpack.geoclaw.fgmax_tools.adjust_fgmax_1d"]], "bounding_box() (clawpack.geoclaw.fgmax_tools.fgmaxgrid method)": [[33, "clawpack.geoclaw.fgmax_tools.FGmaxGrid.bounding_box"]], "clawpack.geoclaw.fgmax_tools": [[33, "module-clawpack.geoclaw.fgmax_tools"]], "interp_dz() (clawpack.geoclaw.fgmax_tools.fgmaxgrid method)": [[33, "clawpack.geoclaw.fgmax_tools.FGmaxGrid.interp_dz"]], "ps4_to_arrays() (clawpack.geoclaw.fgmax_tools.fgmaxgrid method)": [[33, "clawpack.geoclaw.fgmax_tools.FGmaxGrid.ps4_to_arrays"]], "read_fgmax_grids_data() (clawpack.geoclaw.fgmax_tools.fgmaxgrid method)": [[33, "clawpack.geoclaw.fgmax_tools.FGmaxGrid.read_fgmax_grids_data"]], "read_output() (clawpack.geoclaw.fgmax_tools.fgmaxgrid method)": [[33, "clawpack.geoclaw.fgmax_tools.FGmaxGrid.read_output"]], "write_to_fgmax_data() (clawpack.geoclaw.fgmax_tools.fgmaxgrid method)": [[33, "clawpack.geoclaw.fgmax_tools.FGmaxGrid.write_to_fgmax_data"]], "bearing() (in module clawpack.geoclaw.util)": [[47, "clawpack.geoclaw.util.bearing"]], "clawpack.geoclaw.util": [[47, "module-clawpack.geoclaw.util"]], "dist_latlong2meters() (in module clawpack.geoclaw.util)": [[47, "clawpack.geoclaw.util.dist_latlong2meters"]], "dist_meters2latlong() (in module clawpack.geoclaw.util)": [[47, "clawpack.geoclaw.util.dist_meters2latlong"]], "dms2decimal() (in module clawpack.geoclaw.util)": [[47, "clawpack.geoclaw.util.dms2decimal"]], "fetch_noaa_tide_data() (in module clawpack.geoclaw.util)": [[47, "clawpack.geoclaw.util.fetch_noaa_tide_data"]], "haversine() (in module clawpack.geoclaw.util)": [[47, "clawpack.geoclaw.util.haversine"]], "inv_haversine() (in module clawpack.geoclaw.util)": [[47, "clawpack.geoclaw.util.inv_haversine"]], "box2kml() (in module clawpack.geoclaw.kmltools)": [[59, "clawpack.geoclaw.kmltools.box2kml"]], "clawpack.geoclaw.kmltools": [[59, "module-clawpack.geoclaw.kmltools"]], "deg2dms() (in module clawpack.geoclaw.kmltools)": [[59, "clawpack.geoclaw.kmltools.deg2dms"]], "dtopo2kml() (in module clawpack.geoclaw.kmltools)": [[59, "clawpack.geoclaw.kmltools.dtopo2kml"]], "f2s() (in module clawpack.geoclaw.kmltools)": [[59, "clawpack.geoclaw.kmltools.f2s"]], "fgmax2kml() (in module clawpack.geoclaw.kmltools)": [[59, "clawpack.geoclaw.kmltools.fgmax2kml"]], "fgout2kml() (in module clawpack.geoclaw.kmltools)": [[59, "clawpack.geoclaw.kmltools.fgout2kml"]], "gauges2kml() (in module clawpack.geoclaw.kmltools)": [[59, "clawpack.geoclaw.kmltools.gauges2kml"]], "kml_build_colorbar() (in module clawpack.geoclaw.kmltools)": [[59, "clawpack.geoclaw.kmltools.kml_build_colorbar"]], "kml_cb() (in module clawpack.geoclaw.kmltools)": [[59, "clawpack.geoclaw.kmltools.kml_cb"]], "kml_png() (in module clawpack.geoclaw.kmltools)": [[59, "clawpack.geoclaw.kmltools.kml_png"]], "kml_timespan() (in module clawpack.geoclaw.kmltools)": [[59, "clawpack.geoclaw.kmltools.kml_timespan"]], "line2kml() (in module clawpack.geoclaw.kmltools)": [[59, "clawpack.geoclaw.kmltools.line2kml"]], "make_input_data_kmls() (in module clawpack.geoclaw.kmltools)": [[59, "clawpack.geoclaw.kmltools.make_input_data_kmls"]], "pcolorcells_for_kml() (in module clawpack.geoclaw.kmltools)": [[59, "clawpack.geoclaw.kmltools.pcolorcells_for_kml"]], "png2kml() (in module clawpack.geoclaw.kmltools)": [[59, "clawpack.geoclaw.kmltools.png2kml"]], "poly2kml() (in module clawpack.geoclaw.kmltools)": [[59, "clawpack.geoclaw.kmltools.poly2kml"]], "quad2kml() (in module clawpack.geoclaw.kmltools)": [[59, "clawpack.geoclaw.kmltools.quad2kml"]], "regions2kml() (in module clawpack.geoclaw.kmltools)": [[59, "clawpack.geoclaw.kmltools.regions2kml"]], "topo2kml() (in module clawpack.geoclaw.kmltools)": [[59, "clawpack.geoclaw.kmltools.topo2kml"]], "topo2kmz() (in module clawpack.geoclaw.kmltools)": [[59, "clawpack.geoclaw.kmltools.topo2kmz"]], "controller (class in clawpack.pyclaw.controller)": [[86, "clawpack.pyclaw.controller.Controller"]], "f_file_name (clawpack.pyclaw.controller.controller attribute)": [[86, "clawpack.pyclaw.controller.Controller.F_file_name"]], "f_path (clawpack.pyclaw.controller.controller property)": [[86, "clawpack.pyclaw.controller.Controller.F_path"]], "check_validity() (clawpack.pyclaw.controller.controller method)": [[86, "clawpack.pyclaw.controller.Controller.check_validity"]], "compute_f (clawpack.pyclaw.controller.controller attribute)": [[86, "clawpack.pyclaw.controller.Controller.compute_F"]], "compute_p (clawpack.pyclaw.controller.controller attribute)": [[86, "clawpack.pyclaw.controller.Controller.compute_p"]], "file_prefix_p (clawpack.pyclaw.controller.controller attribute)": [[86, "clawpack.pyclaw.controller.Controller.file_prefix_p"]], "frames (clawpack.pyclaw.controller.controller attribute)": [[86, "clawpack.pyclaw.controller.Controller.frames"]], "keep_copy (clawpack.pyclaw.controller.controller attribute)": [[86, "clawpack.pyclaw.controller.Controller.keep_copy"]], "nstepout (clawpack.pyclaw.controller.controller attribute)": [[86, "clawpack.pyclaw.controller.Controller.nstepout"]], "num_output_times (clawpack.pyclaw.controller.controller attribute)": [[86, "clawpack.pyclaw.controller.Controller.num_output_times"]], "out_times (clawpack.pyclaw.controller.controller attribute)": [[86, "clawpack.pyclaw.controller.Controller.out_times"]], "outdir (clawpack.pyclaw.controller.controller attribute)": [[86, "clawpack.pyclaw.controller.Controller.outdir"]], "outdir_p (clawpack.pyclaw.controller.controller property)": [[86, "clawpack.pyclaw.controller.Controller.outdir_p"]], "output_file_prefix (clawpack.pyclaw.controller.controller attribute)": [[86, "clawpack.pyclaw.controller.Controller.output_file_prefix"]], "output_format (clawpack.pyclaw.controller.controller attribute)": [[86, "clawpack.pyclaw.controller.Controller.output_format"]], "output_options (clawpack.pyclaw.controller.controller attribute)": [[86, "clawpack.pyclaw.controller.Controller.output_options"]], "output_style (clawpack.pyclaw.controller.controller attribute)": [[86, "clawpack.pyclaw.controller.Controller.output_style"]], "overwrite (clawpack.pyclaw.controller.controller attribute)": [[86, "clawpack.pyclaw.controller.Controller.overwrite"]], "plot() (clawpack.pyclaw.controller.controller method)": [[86, "clawpack.pyclaw.controller.Controller.plot"]], "plotdata (clawpack.pyclaw.controller.controller attribute)": [[86, "clawpack.pyclaw.controller.Controller.plotdata"]], "run() (clawpack.pyclaw.controller.controller method)": [[86, "clawpack.pyclaw.controller.Controller.run"]], "rundir (clawpack.pyclaw.controller.controller attribute)": [[86, "clawpack.pyclaw.controller.Controller.rundir"]], "runmake (clawpack.pyclaw.controller.controller attribute)": [[86, "clawpack.pyclaw.controller.Controller.runmake"]], "savecode (clawpack.pyclaw.controller.controller attribute)": [[86, "clawpack.pyclaw.controller.Controller.savecode"]], "solver (clawpack.pyclaw.controller.controller attribute)": [[86, "clawpack.pyclaw.controller.Controller.solver"]], "tfinal (clawpack.pyclaw.controller.controller attribute)": [[86, "clawpack.pyclaw.controller.Controller.tfinal"]], "verbosity (clawpack.pyclaw.controller.controller property)": [[86, "clawpack.pyclaw.controller.Controller.verbosity"]], "viewable_attributes (clawpack.pyclaw.controller.controller attribute)": [[86, "clawpack.pyclaw.controller.Controller.viewable_attributes"]], "write_aux_always (clawpack.pyclaw.controller.controller attribute)": [[86, "clawpack.pyclaw.controller.Controller.write_aux_always"]], "write_aux_init (clawpack.pyclaw.controller.controller attribute)": [[86, "clawpack.pyclaw.controller.Controller.write_aux_init"]], "xclawcmd (clawpack.pyclaw.controller.controller attribute)": [[86, "clawpack.pyclaw.controller.Controller.xclawcmd"]], "xclawerr (clawpack.pyclaw.controller.controller attribute)": [[86, "clawpack.pyclaw.controller.Controller.xclawerr"]], "xclawout (clawpack.pyclaw.controller.controller attribute)": [[86, "clawpack.pyclaw.controller.Controller.xclawout"]], "xdir (clawpack.pyclaw.controller.controller attribute)": [[86, "clawpack.pyclaw.controller.Controller.xdir"]], "arora_roe() (in module clawpack.pyclaw.limiters.tvd)": [[87, "clawpack.pyclaw.limiters.tvd.arora_roe"]], "beta_limiter() (in module clawpack.pyclaw.limiters.tvd)": [[87, "clawpack.pyclaw.limiters.tvd.beta_limiter"]], "cada_torrilhon_limiter() (in module clawpack.pyclaw.limiters.tvd)": [[87, "clawpack.pyclaw.limiters.tvd.cada_torrilhon_limiter"]], "cada_torrilhon_limiter_nonlinear() (in module clawpack.pyclaw.limiters.tvd)": [[87, "clawpack.pyclaw.limiters.tvd.cada_torrilhon_limiter_nonlinear"]], "cfl_superbee() (in module clawpack.pyclaw.limiters.tvd)": [[87, "clawpack.pyclaw.limiters.tvd.cfl_superbee"]], "cfl_superbee_theta() (in module clawpack.pyclaw.limiters.tvd)": [[87, "clawpack.pyclaw.limiters.tvd.cfl_superbee_theta"]], "clawpack.pyclaw.limiters.tvd": [[87, "module-clawpack.pyclaw.limiters.tvd"]], "hyperbee_limiter() (in module clawpack.pyclaw.limiters.tvd)": [[87, "clawpack.pyclaw.limiters.tvd.hyperbee_limiter"]], "limit() (in module clawpack.pyclaw.limiters.tvd)": [[87, "clawpack.pyclaw.limiters.tvd.limit"]], "mc_limiter() (in module clawpack.pyclaw.limiters.tvd)": [[87, "clawpack.pyclaw.limiters.tvd.mc_limiter"]], "minmod_limiter() (in module clawpack.pyclaw.limiters.tvd)": [[87, "clawpack.pyclaw.limiters.tvd.minmod_limiter"]], "superbee_limiter() (in module clawpack.pyclaw.limiters.tvd)": [[87, "clawpack.pyclaw.limiters.tvd.superbee_limiter"]], "superpower_limiter() (in module clawpack.pyclaw.limiters.tvd)": [[87, "clawpack.pyclaw.limiters.tvd.superpower_limiter"]], "theta_limiter() (in module clawpack.pyclaw.limiters.tvd)": [[87, "clawpack.pyclaw.limiters.tvd.theta_limiter"]], "upper_bound_limiter() (in module clawpack.pyclaw.limiters.tvd)": [[87, "clawpack.pyclaw.limiters.tvd.upper_bound_limiter"]], "van_leer_klein_sharpening_limiter() (in module clawpack.pyclaw.limiters.tvd)": [[87, "clawpack.pyclaw.limiters.tvd.van_leer_klein_sharpening_limiter"]], "dimension (class in clawpack.pyclaw.geometry)": 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"clawpack.pyclaw.geometry.Grid.c_centers"]], "c_centers_with_ghost() (clawpack.pyclaw.geometry.grid method)": [[89, "clawpack.pyclaw.geometry.Grid.c_centers_with_ghost"]], "c_nodes (clawpack.pyclaw.geometry.grid property)": [[89, "clawpack.pyclaw.geometry.Grid.c_nodes"]], "c_nodes_with_ghost() (clawpack.pyclaw.geometry.grid method)": [[89, "clawpack.pyclaw.geometry.Grid.c_nodes_with_ghost"]], "centers (clawpack.pyclaw.geometry.dimension property)": [[89, "clawpack.pyclaw.geometry.Dimension.centers"]], "centers_with_ghost() (clawpack.pyclaw.geometry.dimension method)": [[89, "clawpack.pyclaw.geometry.Dimension.centers_with_ghost"]], "delta (clawpack.pyclaw.geometry.dimension property)": [[89, "clawpack.pyclaw.geometry.Dimension.delta"]], "delta (clawpack.pyclaw.geometry.patch property)": [[89, "clawpack.pyclaw.geometry.Patch.delta"]], "dimensional_split (clawpack.petclaw.geometry.domain attribute)": [[89, "clawpack.petclaw.geometry.Domain.dimensional_split"]], "dimensions (clawpack.pyclaw.geometry.grid property)": [[89, "clawpack.pyclaw.geometry.Grid.dimensions"]], "dimensions (clawpack.pyclaw.geometry.patch property)": [[89, "clawpack.pyclaw.geometry.Patch.dimensions"]], "fwave (clawpack.petclaw.geometry.domain attribute)": [[89, "clawpack.petclaw.geometry.Domain.fwave"]], "gauge_dir_name (clawpack.pyclaw.geometry.grid attribute)": [[89, "clawpack.pyclaw.geometry.Grid.gauge_dir_name"]], "gauge_file_names (clawpack.pyclaw.geometry.grid attribute)": [[89, "clawpack.pyclaw.geometry.Grid.gauge_file_names"]], "gauge_files (clawpack.pyclaw.geometry.grid attribute)": [[89, "clawpack.pyclaw.geometry.Grid.gauge_files"]], "gauges (clawpack.pyclaw.geometry.grid attribute)": [[89, "clawpack.pyclaw.geometry.Grid.gauges"]], "get_dim_attribute() (clawpack.pyclaw.geometry.grid method)": [[89, "clawpack.pyclaw.geometry.Grid.get_dim_attribute"]], "get_dim_attribute() (clawpack.pyclaw.geometry.patch method)": [[89, "clawpack.pyclaw.geometry.Patch.get_dim_attribute"]], "grid (clawpack.pyclaw.geometry.domain property)": [[89, "clawpack.pyclaw.geometry.Domain.grid"]], "kernel_language (clawpack.petclaw.geometry.domain attribute)": [[89, "clawpack.petclaw.geometry.Domain.kernel_language"]], "level (clawpack.pyclaw.geometry.patch attribute)": [[89, "clawpack.pyclaw.geometry.Patch.level"]], "lower_global (clawpack.pyclaw.geometry.patch property)": [[89, "clawpack.pyclaw.geometry.Patch.lower_global"]], "mthlim (clawpack.petclaw.geometry.domain attribute)": [[89, "clawpack.petclaw.geometry.Domain.mthlim"]], "name (clawpack.pyclaw.geometry.patch property)": [[89, "clawpack.pyclaw.geometry.Patch.name"]], "nodes (clawpack.pyclaw.geometry.dimension property)": [[89, "clawpack.pyclaw.geometry.Dimension.nodes"]], "nodes_with_ghost() (clawpack.pyclaw.geometry.dimension method)": [[89, "clawpack.pyclaw.geometry.Dimension.nodes_with_ghost"]], "num_cells_global (clawpack.pyclaw.geometry.patch property)": [[89, "clawpack.pyclaw.geometry.Patch.num_cells_global"]], 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"write() (clawpack.geoclaw.surge.storm.storm method)": [[148, "clawpack.geoclaw.surge.storm.Storm.write"]], "write_atcf() (clawpack.geoclaw.surge.storm.storm method)": [[148, "clawpack.geoclaw.surge.storm.Storm.write_atcf"]], "write_geoclaw() (clawpack.geoclaw.surge.storm.storm method)": [[148, "clawpack.geoclaw.surge.storm.Storm.write_geoclaw"]], "write_hurdat() (clawpack.geoclaw.surge.storm.storm method)": [[148, "clawpack.geoclaw.surge.storm.Storm.write_hurdat"]], "write_imd() (clawpack.geoclaw.surge.storm.storm method)": [[148, "clawpack.geoclaw.surge.storm.Storm.write_imd"]], "write_jma() (clawpack.geoclaw.surge.storm.storm method)": [[148, "clawpack.geoclaw.surge.storm.Storm.write_jma"]], "write_tcvitals() (clawpack.geoclaw.surge.storm.storm method)": [[148, "clawpack.geoclaw.surge.storm.Storm.write_tcvitals"]], "topography (class in clawpack.geoclaw.topotools)": [[154, "clawpack.geoclaw.topotools.Topography"]], "x (clawpack.geoclaw.topotools.topography property)": [[154, "clawpack.geoclaw.topotools.Topography.X"], [154, "clawpack.geoclaw.topotools.Topography.x"]], "y (clawpack.geoclaw.topotools.topography property)": [[154, "clawpack.geoclaw.topotools.Topography.Y"], [154, "clawpack.geoclaw.topotools.Topography.y"]], "z (clawpack.geoclaw.topotools.topography property)": [[154, "clawpack.geoclaw.topotools.Topography.Z"], [154, "clawpack.geoclaw.topotools.Topography.z"]], "clawpack.geoclaw.topotools": [[154, "module-clawpack.geoclaw.topotools"]], "create_topo_func() (in module clawpack.geoclaw.topotools)": [[154, "clawpack.geoclaw.topotools.create_topo_func"]], "crop() (clawpack.geoclaw.topotools.topography method)": [[154, "clawpack.geoclaw.topotools.Topography.crop"]], "delta (clawpack.geoclaw.topotools.topography property)": [[154, "clawpack.geoclaw.topotools.Topography.delta"]], "determine_topo_type() (in module clawpack.geoclaw.topotools)": [[154, "clawpack.geoclaw.topotools.determine_topo_type"]], "extent (clawpack.geoclaw.topotools.topography property)": [[154, "clawpack.geoclaw.topotools.Topography.extent"]], "fetch_topo_url() (in module clawpack.geoclaw.topotools)": [[154, "clawpack.geoclaw.topotools.fetch_topo_url"]], "generate_2d_coordinates() (clawpack.geoclaw.topotools.topography method)": [[154, "clawpack.geoclaw.topotools.Topography.generate_2d_coordinates"]], "generate_2d_topo() (clawpack.geoclaw.topotools.topography method)": [[154, "clawpack.geoclaw.topotools.Topography.generate_2d_topo"]], "get_topo() (in module clawpack.geoclaw.topotools)": [[154, "clawpack.geoclaw.topotools.get_topo"]], "in_poly() (clawpack.geoclaw.topotools.topography method)": [[154, "clawpack.geoclaw.topotools.Topography.in_poly"]], "interp_unstructured() (clawpack.geoclaw.topotools.topography method)": [[154, "clawpack.geoclaw.topotools.Topography.interp_unstructured"]], "make_shoreline_xy() (clawpack.geoclaw.topotools.topography method)": [[154, "clawpack.geoclaw.topotools.Topography.make_shoreline_xy"]], "plot() (clawpack.geoclaw.topotools.topography method)": [[154, "clawpack.geoclaw.topotools.Topography.plot"]], "read() (clawpack.geoclaw.topotools.topography method)": [[154, "clawpack.geoclaw.topotools.Topography.read"]], "read_header() (clawpack.geoclaw.topotools.topography method)": [[154, "clawpack.geoclaw.topotools.Topography.read_header"]], "read_netcdf() (in module clawpack.geoclaw.topotools)": [[154, "clawpack.geoclaw.topotools.read_netcdf"]], "replace_no_data_values() (clawpack.geoclaw.topotools.topography method)": [[154, "clawpack.geoclaw.topotools.Topography.replace_no_data_values"]], "replace_values() (clawpack.geoclaw.topotools.topography method)": [[154, "clawpack.geoclaw.topotools.Topography.replace_values"]], "set_xyz() (clawpack.geoclaw.topotools.topography method)": [[154, "clawpack.geoclaw.topotools.Topography.set_xyZ"]], "smooth_data() (clawpack.geoclaw.topotools.topography method)": [[154, "clawpack.geoclaw.topotools.Topography.smooth_data"]], "swapheader() (in module clawpack.geoclaw.topotools)": [[154, "clawpack.geoclaw.topotools.swapheader"]], "topo1writer() (in module clawpack.geoclaw.topotools)": [[154, "clawpack.geoclaw.topotools.topo1writer"]], "topo2writer() (in module clawpack.geoclaw.topotools)": [[154, "clawpack.geoclaw.topotools.topo2writer"]], "topo3writer() (in module clawpack.geoclaw.topotools)": [[154, "clawpack.geoclaw.topotools.topo3writer"]], "write() (clawpack.geoclaw.topotools.topography method)": [[154, "clawpack.geoclaw.topotools.Topography.write"]]}}) \ No newline at end of file diff --git a/v5.8.x/storm_module.html b/v5.8.x/storm_module.html index ff92dc393..9af6a5f5f 100644 --- a/v5.8.x/storm_module.html +++ b/v5.8.x/storm_module.html @@ -556,7 +556,7 @@

                      Navigation

                      • +
                    • DTopography1d +
                    • Fault
                      • +
                    • Fault1d
                    • Mw()
                    • SiftFault
                      • +
                    • SubFault1d +
                    • SubdividedPlaneFault diff --git a/v5.9.x/fgmax_tools_module.html b/v5.9.x/fgmax_tools_module.html index 93d1983ac..f546b5cec 100644 --- a/v5.9.x/fgmax_tools_module.html +++ b/v5.9.x/fgmax_tools_module.html @@ -127,8 +127,27 @@

                      Navigation

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

                      Read the GeoClaw results on the fgmax grid numbered fgno.

                      +
                      +
                      indexing=’ij’ gives backward compatibility.

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

                      +
                      +
                      +

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

                      + +
                      +

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

                      +
                      + +

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

                      diff --git a/v5.9.x/genindex.html b/v5.9.x/genindex.html index c30800c81..50f6d265e 100644 --- a/v5.9.x/genindex.html +++ b/v5.9.x/genindex.html @@ -363,7 +363,11 @@

                      C

                    • convert_to_standard_units() (clawpack.geoclaw.dtopotools.SubFault method)
                    • coordinate_specification (clawpack.geoclaw.dtopotools.SubFault attribute) + +
                    • corners (clawpack.geoclaw.dtopotools.SubFault property)
                    • create_dtopo_xy() (clawpack.geoclaw.dtopotools.Fault method) @@ -410,10 +414,10 @@

                      D

                    • dist_latlong2meters() (in module clawpack.geoclaw.util)
                      • -
                  • dms2decimal() (in module clawpack.geoclaw.util)
                  • Domain (class in clawpack.petclaw.geometry) @@ -431,10 +435,18 @@

                    D

                  • dtopo2kml() (in module clawpack.geoclaw.kmltools)
                  • DTopography (class in clawpack.geoclaw.dtopotools) +
                    • +
                  • DTopography1d (class in clawpack.geoclaw.dtopotools)
                  • dynamic_slip() (clawpack.geoclaw.dtopotools.SubFault method)
                  • dZ_at_t() (clawpack.geoclaw.dtopotools.DTopography method) + +
                    • +
                  • dZ_cellave_at_t() (clawpack.geoclaw.dtopotools.DTopography1d method)
                  • dZ_max() (clawpack.geoclaw.dtopotools.DTopography method)
                    • @@ -481,6 +493,8 @@

                    F

                  • F_path (clawpack.pyclaw.controller.Controller property)
                  • Fault (class in clawpack.geoclaw.dtopotools) +
                    • +
                  • Fault1d (class in clawpack.geoclaw.dtopotools)
                  • fetch_noaa_tide_data() (in module clawpack.geoclaw.util)
                    • @@ -685,21 +699,33 @@

                    L

                    @@ -978,11 +1004,17 @@

                    R

                    - +
                    • smooth_data() (clawpack.geoclaw.topotools.Topography method)
                    • Solution (class in clawpack.pyclaw.solution) @@ -1174,7 +1206,11 @@

                      S

                    • Storm (class in clawpack.geoclaw.surge.storm)
                    • strike (clawpack.geoclaw.dtopotools.SubFault attribute) + +
                    • strike_direction() (in module clawpack.geoclaw.dtopotools)
                    • subdivide() (clawpack.geoclaw.dtopotools.SubdividedPlaneFault method) @@ -1182,6 +1218,8 @@

                      S

                    • SubdividedPlaneFault (class in clawpack.geoclaw.dtopotools)
                    • SubFault (class in clawpack.geoclaw.dtopotools) +
                      • +
                    • SubFault1d (class in clawpack.geoclaw.dtopotools)
                    • superbee_limiter() (in module clawpack.pyclaw.limiters.tvd)
                      • @@ -1286,6 +1324,8 @@

                      W

                    • write() (clawpack.geoclaw.dtopotools.DTopography method)
                        +
                      • (clawpack.geoclaw.dtopotools.DTopography1d method) +
                      • (clawpack.geoclaw.dtopotools.Fault method)
                      • (clawpack.geoclaw.surge.storm.Storm method) diff --git a/v5.9.x/geoclaw_util_module.html b/v5.9.x/geoclaw_util_module.html index 8c660e632..fb078d8e9 100644 --- a/v5.9.x/geoclaw_util_module.html +++ b/v5.9.x/geoclaw_util_module.html @@ -115,7 +115,7 @@

                        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:

                        diff --git a/v5.9.x/kmltools_module.html b/v5.9.x/kmltools_module.html index 4fb74d43d..92129c65c 100644 --- a/v5.9.x/kmltools_module.html +++ b/v5.9.x/kmltools_module.html @@ -362,7 +362,7 @@

                        Navigation

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

                        @@ -370,7 +370,7 @@

                        Navigation

                        dpi * y_inches = dcp * y_cells

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

                        @@ -380,14 +380,14 @@

                        Navigation

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

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

                        The png_extent is needed in construcing a kml file to display the @@ -523,7 +523,7 @@

                        Navigation

                        If force_dry is an array of the same shape as topo.Z then another png diff --git a/v5.9.x/objects.inv b/v5.9.x/objects.inv index 063dc53d9ee5013e1dd48b373b336c3a0fc62840..c36d545dadd1ca2aac98f1ba6344be5a944a7810 100644 GIT binary patch delta 10308 zcmZvhMN}LNw4`x&g1bwA;O>ou1h+I2+}$nExCM82cWB(*t#OwCp>cNt?|+M#&CKR5 ztG-p8d#XN+yG`PKLBOO9g~Y!iAjGLg%8qGLwuBBv`<9l{#AMR7rVd_3ttI8&K1phY zLIgOR*eNryCD3Xb1$awBr`K$7a9?hhnj{;Ur61*SR_tPOa9@d1;@8CF!#$mK(8<#y zeOwmf4@AeNtHU0#1A!gHJ?W61n2l9g%ss!84ZD@4A=x-CkY6k|yHFdHMqh1VHJnws zhr_ctf%o;VEWi9(s0eP{EZ3z?^P)hSPaAdw9)Nzj}% z(ZjIx2)^f^w1lU-{&^hb;=)|&ac^N;jP9%=+!>AkU5qZI5?2jcJT=+TPU!liA z)(krY-(OE$sp(ldH%xxr*TG@Y4dThE0gk{{x71SuX`N;RKZbL}2M8#2a8dfyzgtTblHt9SBK=%9gAF|CUbyCF(lYum zfagkaE9s$#uY+{LU!=Tvu4Y{A_^NB}ED277F2Kpfc{gp;l$Q5mtLAiYes`Y?6(Gs? zWtoli+o|6rdfQ(iBB`zJ?jXne8^khO`Fj^l{+|w~g19+Thw(p7i+F?2OD0uYI{|OR z_t;ELS8HYXq_Z~Vfor@glIOLsJ|M(7+v0c9 z$j7XQcPCet^&614j?;7AJI%Q1H?$7WgPTL#%OKNntUhcGwh<1WV1PFst&eWrSp7+O z#y(%u@`zkSPgsQf2cpj%VtWygOhC}_1arsIgc2&8YiZZC!UU2O@*i@WFOz>CyIg?_jve6!)Uyy?+ zo=c;CPeN|0sr|Y0?mK~M*VkNyxRk8+!-{y(&6!qu%LznU)<`Exl!A(=j6&@F+T_`SUCuM&izr`}hm$O?rG()e>@! zOecP3r1@++@g%*&cx_WOU`For{O)JSr(yfXdz8^4G1`mH%m)cdSg?}b=+}Mx>s_#n zzsL|JWc@(gc7IdD<<-JDP0G94KjNtQou+seEh1w31bx7}it`untO7JL^yr*Anw8xr z35wA3eQ?61H>Yby9>^_L5{}{`|Muapf~)#Gg~eaQ+FbTD3<&t z5AVKlthblml8&R6>2Z{A=WdsHeH@cq8s=W(p_w-&e1o-)xyV7#kBZcb&Xw{krsgB| zsWvueoDwIk%P5$HfupS31>*K=?(i^*9G;=AZEDm#RRgRa%$1B{EDbfkT=s_{icgtI z)iB5p?y{@F^8O)Ql5f&_DIzFsQ$Ov{TuGRA!|5u=9q9vaCwc5cOAp=RpdbkehNbpW zfh6ff!Pz3rwNyUiuaOGh<&R6d`<(1`8PBDUO{n(;6zdp+C6+uXe!XNd!eN-yGQ-=2 zbsvg%<{yNk49$pzBWF@YcFQjJgx7r=C32Dhot8(p z#M=nO7GpXIPCeEqymw0@p&*Ye&++>kguNm)GGuIZBO`bs_)cMm$|^l0&eoh%4#37&3@{kLiNX4j z8Kr%I;mi5@-RdEI_H5qa;SipgE8HXH4@&Qd5MU0}bi8xx1-PMhOHm<(b8k}y$oU~V z(u{iNZ#}OMOyO_Kn3utR&^_J8eVC5_@709@2h0X!c-+hgwA6GqWk2H=Lrjc2%9~A= zp){c!HW@C8WRAPE$q7qAa6BOFEV9rLR@>#LXjBbccqS-bk_{jJy$VifhlSgFHlxdic(aL7}f zs_OeDOd}@o9LbTdx(P=V>a=DpN{4J$i7m680n#Lm!?A#E=@m-1(OV-^;0WA9-tQ+> zdFP(bwwd}x4#c=!%nRup;ES)4WKi({(CZdrE%%2s&skkyu>*NIYm!f!057xVB9o$; 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                        Changes to amrclaw

                        Changes to geoclaw

                        +

                        The setrun parameter rundata.fixed_grid_data was removed from +geoclaw/src/python/geoclaw/data.py and is no longer available in setrun. +This old way of specifying fixed grid output has been deprecated for some +time in favor of fgmax and fgout grids, but some old setrun.py files +may still set

                        +
                        fixedgrids = rundata.fixed_grid_data.fixedgrids
+
                        +
                        +

                        and throw an error that can be fixed by deleting this line. +If items are appended to this list in your setrun, then these should be +converted to fgmax and/or fgout grids.

                        The setrun parameter runclaw.geo_data.sphere_source was added to allow experimenting with the spherical source term that is currently missing from the default GeoClaw code, see Source terms for shallow water on the sphere, which now includes a diff --git a/v5.9.x/searchindex.js b/v5.9.x/searchindex.js index 819dc103b..ca3f70830 100644 --- a/v5.9.x/searchindex.js +++ b/v5.9.x/searchindex.js @@ -1 +1 @@ -Search.setIndex({"docnames": ["ClawPlotAxes", "ClawPlotData", "ClawPlotFigure", "ClawPlotItem", "about", "adjoint", "amr_algorithm", "amrclaw", "amrclaw1d", "amrclaw_doxygen", "amrclaw_flowcharts", "application_documentation", "apps", "aws", "b4run", "b4step_defaults", "bc", "biblio", "bouss1d", "bouss2d", "changes_to_master", "claw43to46", "claw46to50", "claw4x", "clawpack5", "clawpack_components", "community", "contents", "contribute_apps", "current_data", "developers", "docker_image", "dtopotools_module", "f77_vs_f90", "fgmax", "fgmax_tools_module", "fgout", 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"best": [3, 4, 16, 24, 28, 30, 36, 44, 49, 55, 57, 59, 60, 66, 72, 74, 76, 81, 82, 97, 101, 113, 114, 115, 116, 126, 137, 139, 150, 154, 157, 161, 166], "descript": [3, 4, 6, 9, 24, 25, 27, 32, 37, 63, 71, 75, 78, 81, 96, 97, 109, 113, 115, 136, 139, 140, 150, 157, 161, 169], "celledges_show": [3, 24], "draw": 3, "amr_celledges_show": 3, "level": [3, 6, 7, 16, 25, 29, 31, 34, 36, 41, 42, 47, 48, 50, 51, 52, 55, 58, 59, 61, 62, 71, 72, 76, 77, 89, 91, 94, 96, 97, 98, 104, 111, 112, 115, 116, 118, 119, 123, 124, 126, 129, 138, 141, 142, 145, 147, 148, 149, 151, 160, 161, 163, 165, 166], "patchedges_show": [3, 24], "mostli": [3, 81, 96, 129, 136], "contour_level": [3, 163], "three": [3, 13, 17, 24, 32, 34, 37, 52, 55, 67, 71, 75, 99, 103, 109, 116, 141, 147, 150, 161, 163, 166], "contour_nlevel": 3, "contour_min": 3, "minimum": [3, 34, 47, 55, 75, 108, 124, 150, 163], "contour_max": 3, "maximum": [3, 24, 32, 34, 35, 36, 48, 71, 72, 104, 108, 115, 118, 119, 126, 129, 147, 148, 149, 151, 157, 158], "contour_color": 3, "specif": [3, 5, 12, 24, 30, 32, 47, 48, 49, 51, 55, 56, 62, 65, 67, 68, 77, 86, 87, 89, 91, 96, 97, 98, 102, 103, 109, 113, 124, 125, 126, 129, 146, 147, 148, 149, 151, 158, 161], "b": [3, 5, 17, 30, 32, 34, 35, 36, 37, 42, 47, 49, 56, 58, 59, 68, 72, 82, 104, 115, 122, 129, 141, 142, 143, 150, 163, 165], "0000ff": [3, 63], "colormap": [3, 32, 42, 50, 55, 70, 71, 81, 83, 123, 129, 163], "amr_contour_color": 3, "As": [3, 18, 39, 42, 48, 49, 52, 58, 59, 63, 64, 88, 108, 110, 114, 118, 129, 139, 140, 143, 150, 153, 159, 166], "black": [3, 47], "subsequ": [3, 10, 71], "both": [3, 16, 18, 30, 32, 35, 36, 37, 38, 39, 41, 42, 47, 52, 57, 60, 62, 67, 70, 71, 75, 77, 89, 97, 98, 99, 104, 105, 115, 116, 122, 123, 126, 129, 134, 139, 140, 141, 143, 147, 148, 149, 151, 155, 161, 166], "fine": [3, 34, 35, 36, 42, 49, 58, 74, 78, 96, 101, 115, 124, 131, 141, 143, 147, 148, 150, 161, 166], "coars": [3, 34, 36, 55, 115, 124, 131, 147, 161, 166], "anoth": [3, 24, 36, 42, 47, 55, 62, 63, 77, 81, 85, 93, 104, 107, 116, 126, 157, 166], "refin": [3, 4, 5, 7, 8, 17, 24, 36, 48, 49, 52, 55, 56, 57, 70, 71, 77, 78, 88, 124, 126, 127, 129, 131, 141, 143, 146, 147, 148, 149, 160, 161, 166], "region": [3, 6, 7, 13, 16, 24, 34, 36, 41, 42, 48, 52, 53, 55, 63, 68, 72, 75, 78, 113, 126, 129, 131, 142, 143, 148, 149, 153, 161, 163], "lack": 3, "hidden": [3, 66, 82], "blank": [3, 63, 157], "coarser": [3, 16, 57, 124, 143, 147, 148, 166], "easili": [3, 13, 30, 34, 55, 58, 71, 82, 89, 94, 105, 109, 116, 129, 152], "contour_show": 3, "commonli": [3, 71, 82, 84], "amr_contour_show": 3, "determin": [3, 5, 6, 32, 34, 37, 42, 47, 48, 49, 52, 54, 55, 58, 63, 72, 75, 82, 92, 94, 97, 102, 106, 111, 115, 119, 123, 124, 138, 141, 142, 146, 147, 148, 150, 163, 166], "whether": [3, 6, 13, 16, 24, 51, 57, 60, 62, 64, 65, 66, 71, 86, 94, 97, 98, 102, 103, 104, 115, 116, 124, 139, 141, 147, 148, 150, 163], "view": [3, 4, 24, 36, 38, 39, 47, 48, 49, 55, 57, 58, 63, 77, 81, 83, 84, 88, 99, 105, 110, 122, 126, 152, 153, 154], "finest": [3, 34, 36, 42, 47, 72, 126, 160, 163], "contour_kwarg": [3, 163], "pcolor_cmap": [3, 55], "pcolor_cmin": 3, "pcolor_cmax": 3, "thei": [3, 5, 6, 13, 16, 18, 26, 29, 30, 32, 34, 36, 41, 42, 47, 49, 52, 55, 58, 59, 62, 63, 64, 67, 70, 71, 77, 81, 94, 96, 101, 104, 109, 115, 116, 124, 131, 143, 146, 150, 153, 157, 161, 163, 166], "chosen": [3, 31, 34, 41, 42, 55, 57, 70, 108, 115, 131, 142, 148], "vari": [3, 15, 17, 27, 32, 42, 48, 49, 57, 68, 72, 101, 103, 122, 129, 139, 140, 142, 144, 148, 150, 169], "yield": 3, "veri": [3, 5, 16, 18, 24, 49, 52, 55, 59, 60, 63, 75, 82, 86, 89, 97, 98, 99, 100, 101, 104, 116, 119, 123, 134, 141, 143, 147, 158, 161], "confus": [3, 57, 62, 111, 131, 139], "add_colorbar": [3, 32, 163], "ad": [3, 12, 16, 18, 22, 24, 26, 27, 29, 31, 34, 36, 37, 44, 47, 51, 57, 58, 59, 62, 63, 64, 68, 71, 72, 75, 82, 87, 89, 92, 94, 95, 98, 99, 111, 112, 113, 115, 118, 119, 120, 121, 122, 123, 124, 125, 126, 127, 128, 129, 130, 132, 134, 135, 136, 138, 143, 147, 148, 150, 153, 157, 160, 163, 167], "imshow_cmap": 3, "imshow_cmin": 3, "imshow_cmax": 3, "relat": [3, 7, 18, 24, 26, 58, 78, 102, 113, 125, 129, 131, 142], "pre": [3, 13, 35, 59, 90, 97], "pend": 3, "amr_": [3, 7], "whose": [3, 49, 82, 89, 101, 102, 143, 147, 148, 163], "origin": [3, 6, 13, 16, 18, 22, 30, 32, 36, 37, 47, 56, 58, 70, 76, 77, 89, 104, 109, 118, 124, 131, 138, 148, 149, 150, 151, 163], "hand": [3, 5, 20, 21, 22, 68, 88, 116, 134, 135, 136, 141], "higher": [3, 6, 18, 55, 94, 104, 105, 115, 129, 139, 141, 142, 143], "shorter": [3, 115, 163], "last": [3, 20, 29, 34, 36, 59, 61, 82, 88, 89, 101, 108, 123, 134, 135, 136, 147, 157], "repeatedli": [3, 99, 105, 148], "finer": [3, 7, 34, 55, 115, 118, 119, 141, 147, 148], "celledg": [3, 49], "colorbar_shrink": [3, 32], "colorbar_label": 3, "colorbar_tick": 3, "colorbar_tick_label": 3, "colorbar_extend": [3, 135], "colorbar_kwarg": [3, 126], "stand": [4, 131], "conserv": [4, 5, 6, 17, 18, 98, 104, 106, 127, 140, 166, 169], "law": [4, 17, 63, 150, 169], "packag": [4, 27, 30, 31, 38, 39, 55, 59, 60, 67, 77, 78, 81, 85, 86, 88, 94, 96, 98, 100, 101, 103, 105, 108, 110, 111, 128, 129, 164, 167], "wa": [4, 5, 6, 14, 21, 22, 27, 31, 32, 34, 35, 36, 37, 42, 49, 52, 54, 58, 59, 66, 68, 70, 71, 75, 82, 99, 103, 104, 106, 115, 116, 117, 118, 119, 120, 121, 122, 123, 124, 125, 126, 127, 128, 129, 130, 131, 132, 133, 134, 135, 136, 138, 141, 143, 160, 161, 163], "initi": [4, 5, 7, 12, 13, 18, 24, 27, 32, 36, 37, 47, 48, 49, 51, 52, 55, 59, 64, 67, 71, 72, 75, 77, 78, 84, 86, 87, 88, 89, 91, 92, 94, 95, 97, 98, 102, 103, 104, 106, 107, 109, 112, 115, 123, 126, 129, 131, 139, 142, 147, 148, 149, 151, 153, 157, 161, 163], "develop": [4, 6, 7, 12, 13, 20, 24, 25, 52, 56, 58, 61, 62, 65, 70, 71, 81, 85, 86, 89, 96, 101, 104, 105, 111, 113, 116, 126, 127, 129, 131, 134, 135, 136, 139, 142, 143, 149], "linear": [4, 5, 17, 18, 32, 36, 37, 47, 49, 55, 72, 75, 82, 88, 92, 104, 127, 139, 140, 141], "nonlinear": [4, 5, 17, 52, 92, 139, 147, 169], "hyperbol": [4, 5, 6, 17, 18, 45, 78, 89, 96, 101, 102, 108, 139, 147, 150, 166, 169], "system": [4, 16, 17, 18, 25, 39, 40, 48, 55, 56, 62, 63, 67, 76, 77, 86, 96, 98, 99, 101, 102, 105, 108, 111, 116, 139, 147, 149, 151, 159, 166, 169], "focu": [4, 48], "high": [4, 17, 34, 52, 55, 70, 72, 75, 78, 89, 96, 104, 139, 142, 143, 165, 166], "resolut": [4, 6, 17, 32, 34, 36, 42, 47, 64, 72, 75, 94, 104, 108, 109, 118, 122, 126, 127, 134, 139, 142, 161, 163, 165, 166], "godunov": [4, 94, 104, 147, 149, 151, 166], "method": [4, 5, 7, 17, 34, 36, 37, 41, 45, 47, 57, 70, 72, 82, 84, 88, 91, 92, 94, 99, 103, 104, 109, 115, 116, 122, 139, 146, 147, 148, 149, 151, 157, 160, 161, 163, 166], "framework": [4, 86, 89, 123, 124], "applic": [4, 6, 15, 16, 18, 21, 22, 24, 25, 26, 30, 31, 34, 36, 37, 38, 39, 40, 44, 45, 46, 47, 48, 50, 59, 61, 62, 67, 70, 76, 77, 84, 93, 94, 95, 96, 98, 104, 109, 112, 114, 115, 116, 118, 121, 122, 124, 125, 126, 128, 129, 139, 141, 143, 144, 147, 150, 155, 156, 161, 163, 164, 166, 167], "finit": [4, 17, 34, 36, 45, 49, 57, 63, 70, 71, 72, 75, 104, 129, 141, 150, 160, 161, 166], "volum": [4, 17, 31, 34, 36, 45, 49, 57, 63, 70, 71, 72, 96, 129, 141, 148, 150, 160, 161, 166], "riemann": [4, 5, 8, 22, 24, 25, 30, 31, 48, 59, 62, 67, 78, 86, 88, 94, 95, 104, 105, 106, 108, 111, 145, 147, 149, 151, 155, 156, 169], "solver": [4, 5, 6, 22, 24, 25, 27, 30, 48, 49, 60, 61, 62, 67, 85, 86, 87, 91, 94, 95, 98, 106, 120, 122, 124, 125, 126, 127, 128, 129, 131, 136, 147, 149, 151, 155, 156, 169], "resolv": [4, 34, 36, 55, 58, 62, 113, 126, 143], "jump": [4, 5, 71, 84, 94, 104, 124, 147, 169], "discontinu": [4, 104, 169], "interfac": [4, 21, 24, 71, 86, 89, 92, 96, 97, 102, 104, 109, 139, 166, 167, 169], "wave": [4, 5, 6, 16, 17, 18, 27, 34, 42, 49, 52, 55, 56, 75, 92, 94, 96, 101, 102, 104, 115, 122, 124, 125, 131, 140, 141, 142, 147, 148, 149, 150, 151, 153, 166], "propag": [4, 5, 6, 17, 18, 27, 32, 49, 52, 55, 56, 75, 94, 96, 104, 115, 124, 139], "neighbor": [4, 36, 42, 70, 72, 115, 124, 143, 148, 149, 163], "formul": [4, 5, 18, 52, 68, 139, 147], "allow": [4, 6, 13, 18, 24, 29, 30, 31, 34, 36, 37, 41, 42, 47, 48, 51, 54, 55, 57, 58, 62, 68, 70, 71, 75, 76, 78, 81, 82, 91, 96, 97, 98, 104, 106, 109, 110, 111, 115, 116, 118, 119, 122, 123, 124, 125, 126, 128, 129, 131, 134, 135, 136, 139, 141, 147, 149, 150, 151, 152, 153, 157, 161, 163, 165], "easi": [4, 6, 11, 31, 41, 62, 71, 89, 98, 99, 100, 141, 152, 166], "extens": [4, 17, 18, 24, 26, 30, 32, 52, 55, 58, 62, 67, 71, 89, 96, 97, 109, 124, 125, 131, 147, 159, 163, 169], "problem": [4, 5, 7, 16, 17, 18, 22, 26, 27, 29, 30, 31, 38, 39, 42, 45, 48, 49, 62, 66, 70, 71, 72, 75, 78, 82, 85, 87, 88, 93, 95, 96, 99, 102, 104, 107, 111, 116, 118, 119, 121, 122, 125, 129, 131, 135, 136, 139, 141, 143, 147, 148, 149, 150, 151, 152, 160, 164], "algorithm": [4, 7, 27, 34, 41, 42, 48, 56, 88, 94, 96, 97, 104, 108, 115, 126, 139, 141, 147, 149, 151, 163], "brief": [4, 59, 140, 150], "subroutin": [4, 6, 9, 16, 24, 34, 36, 67, 115, 122, 139, 147, 148, 160, 166, 169], "equat": [4, 5, 16, 17, 27, 38, 39, 48, 49, 52, 64, 68, 82, 87, 88, 89, 91, 96, 97, 98, 101, 104, 105, 106, 119, 122, 124, 126, 127, 139, 147, 149, 150, 151, 153, 161, 166, 169], "solv": [4, 5, 8, 16, 17, 18, 22, 28, 38, 39, 49, 52, 60, 62, 64, 87, 89, 91, 94, 96, 101, 102, 105, 127, 139, 140, 147, 161, 166, 169], "adapt": [4, 7, 17, 32, 42, 49, 56, 57, 70, 71, 78, 88, 115, 126, 129, 131, 139, 141, 146, 147, 148, 150, 166], "mesh": [4, 7, 17, 35, 49, 56, 70, 71, 78, 81, 88, 115, 129, 146, 147, 166], "amrclaw": [4, 5, 6, 12, 15, 16, 21, 22, 24, 25, 26, 30, 39, 41, 42, 44, 46, 47, 48, 50, 56, 59, 60, 61, 62, 64, 70, 71, 76, 77, 78, 85, 96, 97, 105, 111, 112, 115, 116, 138, 139, 141, 144, 145, 147, 150, 155, 156, 159, 160, 164], "detail": [4, 5, 10, 16, 24, 25, 27, 28, 30, 31, 32, 34, 36, 38, 39, 41, 44, 47, 50, 52, 55, 58, 61, 62, 64, 65, 66, 70, 71, 75, 78, 82, 86, 91, 92, 93, 94, 96, 97, 98, 99, 100, 101, 102, 104, 114, 115, 116, 119, 124, 126, 131, 134, 139, 141, 146, 147, 150, 152, 157, 161, 164, 165, 166, 169], "content": [4, 6, 25, 37, 55, 59, 77, 78, 89, 96, 150, 161, 166, 167], "routin": [4, 5, 6, 16, 22, 27, 29, 32, 34, 38, 39, 47, 48, 49, 50, 55, 56, 66, 71, 72, 76, 77, 78, 81, 84, 86, 89, 91, 94, 97, 100, 101, 104, 106, 107, 115, 118, 119, 122, 124, 126, 127, 129, 139, 143, 147, 149, 151, 157, 163, 164, 166, 167, 169], "special": [4, 7, 16, 48, 50, 55, 65, 78, 86, 115, 134, 141, 163], "depth": [4, 5, 16, 17, 18, 24, 32, 34, 35, 37, 42, 47, 48, 49, 52, 68, 72, 75, 81, 83, 140, 142, 143, 150, 161], "averag": [4, 6, 15, 17, 18, 34, 42, 48, 49, 52, 53, 57, 71, 72, 102, 106, 119, 131, 139, 143, 144, 161, 163, 166], "geophys": [4, 16, 17, 25, 48, 52, 78, 147], "flow": [4, 16, 17, 25, 34, 35, 48, 50, 52, 78, 96, 113, 129, 134, 139, 147, 150, 161, 166], "geoclaw": [4, 7, 12, 17, 18, 25, 26, 30, 31, 32, 34, 35, 36, 37, 39, 41, 44, 46, 47, 56, 57, 59, 60, 61, 62, 63, 64, 68, 70, 72, 75, 77, 78, 81, 85, 96, 105, 111, 113, 114, 116, 138, 139, 140, 142, 143, 145, 147, 148, 153, 157, 158, 159, 160, 161, 162, 163, 164, 165, 166], "parallel": [4, 24, 25, 47, 76, 87, 93, 95, 96, 98, 101, 103, 105, 109, 115, 116, 124, 148], "ten": [4, 78], "thousand": [4, 78], "core": [4, 12, 78, 116, 126, 136], "wish": [4, 13, 14, 15, 24, 31, 38, 39, 52, 55, 62, 71, 80, 81, 96, 101, 104, 105, 107, 111, 113, 115, 124, 144, 152, 155, 156, 164], "discrib": 4, "book": [4, 12, 17, 27, 31, 85, 103, 139], "levequ": [4, 16, 17, 26, 32, 56, 78, 92, 94, 96, 104, 110, 139, 147, 166, 169], "fvmhp": [4, 12, 16, 17, 27, 78, 139, 147, 166, 169], "virtual": [4, 13, 27, 29, 106], "were": [4, 6, 14, 18, 22, 34, 47, 58, 64, 67, 71, 72, 89, 115, 118, 124, 127, 131, 134, 135, 136, 141, 143, 153, 161], "4": [4, 7, 8, 9, 13, 16, 17, 20, 25, 27, 30, 32, 34, 35, 36, 39, 41, 42, 44, 45, 47, 48, 52, 55, 57, 58, 59, 66, 67, 68, 70, 71, 72, 76, 77, 81, 82, 84, 95, 96, 97, 98, 99, 101, 102, 104, 105, 109, 111, 115, 116, 118, 123, 126, 131, 132, 134, 136, 138, 141, 147, 148, 149, 150, 151, 159, 160, 161, 163, 168], "3": [4, 6, 7, 15, 16, 22, 24, 26, 27, 32, 34, 35, 36, 39, 41, 45, 47, 48, 55, 57, 59, 62, 63, 68, 71, 72, 75, 77, 82, 84, 85, 88, 91, 92, 94, 97, 98, 99, 102, 103, 104, 106, 110, 111, 115, 124, 126, 129, 135, 137, 139, 141, 144, 147, 148, 149, 150, 151, 159, 160, 161, 163, 166, 169], "pointer": [4, 16, 18, 58, 75, 81, 84, 104, 109, 122], "code": [4, 5, 6, 7, 8, 12, 14, 16, 21, 22, 23, 24, 25, 26, 29, 31, 34, 35, 36, 37, 38, 39, 41, 43, 44, 45, 47, 48, 49, 52, 54, 56, 57, 58, 60, 65, 66, 67, 68, 74, 75, 76, 77, 78, 80, 82, 84, 85, 86, 88, 89, 94, 96, 97, 98, 99, 101, 104, 105, 108, 110, 111, 114, 117, 118, 119, 122, 123, 124, 125, 126, 127, 128, 129, 131, 136, 138, 139, 140, 141, 145, 147, 148, 149, 150, 151, 152, 157, 159, 160, 161], "bibliographi": [4, 27], "paper": [4, 5, 6, 16, 32, 48, 58, 92, 96], "distribut": [4, 12, 13, 31, 32, 58, 65, 75, 78, 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122, 126, 142, 147, 149, 150, 151], "adjust": [5, 13, 22, 34, 35, 48, 63, 77, 94, 98, 135, 138, 142, 147, 166], "principl": [5, 163, 166], "vanish": 5, "dure": [5, 24, 34, 42, 47, 63, 75, 78, 118, 142, 143, 149, 150, 151, 153, 161], "integr": [5, 24, 57, 64, 86, 96, 98, 104, 118, 119, 123, 149, 151, 160, 161, 166], "qinit": [5, 22, 24, 42, 48, 66, 67, 89, 131, 142, 143, 166], "setrun": [5, 6, 7, 8, 14, 16, 21, 22, 27, 34, 35, 36, 37, 38, 39, 41, 42, 43, 45, 48, 49, 50, 52, 63, 64, 66, 68, 70, 77, 78, 82, 96, 112, 113, 115, 118, 122, 123, 124, 127, 129, 131, 134, 135, 136, 138, 139, 142, 143, 153, 157, 161, 164, 166], "clawdata": [5, 41, 49, 77, 118, 122, 138, 147, 148, 149, 150, 151], "tfinal": [5, 77, 88, 91, 108, 138, 147, 149, 151], "via": [5, 13, 24, 25, 26, 30, 31, 32, 36, 38, 39, 44, 45, 47, 50, 52, 55, 58, 59, 61, 62, 64, 66, 70, 71, 75, 76, 78, 82, 85, 88, 94, 97, 100, 103, 105, 107, 111, 115, 116, 126, 129, 139, 141, 145, 150, 152, 155, 156, 161, 163, 166], "num_output_tim": [5, 77, 88, 91, 98, 138, 147, 149, 151], "larg": [5, 6, 12, 22, 36, 37, 38, 39, 42, 52, 55, 57, 58, 71, 76, 81, 96, 98, 99, 115, 116, 123, 131, 134, 138, 141, 143, 147, 148, 163, 165], "frequent": [5, 22, 29, 36, 47, 64, 107, 123, 134], "enough": [5, 47, 49, 58, 64, 70, 148, 158, 160, 161], "them": [5, 13, 20, 24, 30, 31, 32, 34, 47, 55, 58, 71, 78, 86, 88, 93, 97, 98, 99, 101, 109, 113, 116, 119, 128, 134, 135, 136, 141, 153, 154, 157, 163, 166], "reason": [5, 49, 52, 55, 63, 75, 76, 78, 99, 101, 115, 147], "output_format": [5, 36, 37, 77, 91, 98, 134, 147, 149, 151], "binari": [5, 36, 44, 47, 59, 65, 86, 98, 100, 123, 134, 135, 138, 147, 163, 167], "manner": [5, 36, 42, 47, 55, 64, 70, 75, 81, 126, 143, 147, 155, 156, 161], "attribut": [5, 7, 18, 24, 32, 36, 37, 41, 47, 70, 75, 81, 83, 84, 88, 91, 94, 97, 99, 101, 103, 104, 115, 118, 123, 127, 135, 138, 146, 147, 148, 150, 157, 163], "clawutil": [5, 11, 14, 21, 22, 25, 30, 43, 44, 54, 59, 60, 61, 66, 111, 116, 145, 147, 148, 149, 151, 163, 164], "clawrundata": [5, 47, 63, 127, 138, 147, 148, 149, 151], "adjointdata": [5, 127, 128], "ia": 5, "attribur": 5, "toler": [5, 34, 102, 109, 115, 116, 124, 148, 149, 150], "rundata": [5, 18, 24, 34, 36, 41, 42, 47, 49, 63, 64, 115, 118, 129, 138, 143, 147, 148, 149, 150, 151, 153], "use_adjoint": 5, "adjoint_outdir": 5, "abspath": [5, 41], "_output": [5, 13, 14, 34, 36, 38, 39, 47, 54, 64, 71, 82, 84, 93, 98, 100, 103, 123, 130, 164], "period": [5, 6, 16, 34, 66, 88, 101, 115, 147, 149, 151], "t1": [5, 41, 47, 63, 64, 115, 131, 148, 149, 150], "t0": [5, 77, 138, 147, 149, 150, 151, 161], "t2": [5, 41, 47, 63, 64, 115, 131, 148, 149, 150], "addit": [5, 7, 13, 16, 18, 25, 26, 30, 31, 34, 36, 39, 40, 41, 48, 49, 50, 63, 70, 75, 77, 78, 82, 83, 89, 92, 94, 96, 98, 104, 105, 106, 113, 115, 122, 124, 125, 126, 127, 130, 131, 133, 134, 135, 139, 141, 147, 151, 157, 160, 161, 166, 167], "aux": [5, 6, 15, 22, 24, 29, 47, 57, 89, 96, 97, 98, 101, 103, 104, 106, 107, 118, 119, 124, 126, 139, 140, 144, 147, 148, 149, 150, 151, 166], "inner": [5, 115, 127], "product": [5, 32, 65, 86, 109, 115, 127], "amrdata": [5, 24, 34, 115, 129, 131, 148, 149, 150], "aux_typ": [5, 148, 149], "append": [5, 22, 34, 36, 41, 42, 47, 55, 64, 82, 91, 103, 115, 123, 124, 138, 139, 149, 150], "num_aux": [5, 89, 97, 99, 101, 102, 106, 139, 147, 148, 149, 151, 166], "len": [5, 32, 37, 94, 149, 151, 163], "innerprod_index": 5, "base": [5, 6, 13, 22, 23, 24, 30, 31, 32, 34, 35, 36, 48, 49, 51, 55, 56, 57, 58, 63, 64, 67, 68, 70, 71, 75, 78, 89, 91, 92, 94, 96, 97, 102, 103, 104, 106, 108, 109, 115, 117, 122, 125, 127, 131, 134, 135, 142, 147, 148, 149, 150, 151, 157, 163, 166, 169], "richardson": [5, 7, 24, 148, 149], "error": [5, 16, 22, 38, 39, 43, 55, 62, 71, 76, 82, 91, 96, 97, 98, 109, 115, 116, 127, 131, 148, 149, 157, 164], "estimat": [5, 149], "flag_richardson": [5, 115, 123, 148, 149], "flag_richardson_tol": [5, 115, 148, 149], "1e": [5, 70, 151], "flag2refin": [5, 7, 24, 148, 149], "flag2refine_tol": [5, 115, 148, 149], "01": [5, 42, 77, 94, 163], "we": [5, 6, 18, 24, 26, 28, 34, 38, 39, 41, 42, 47, 52, 55, 57, 58, 59, 60, 62, 67, 70, 72, 75, 81, 84, 88, 89, 90, 91, 93, 94, 97, 98, 99, 100, 101, 104, 105, 106, 107, 108, 109, 110, 113, 116, 126, 129, 134, 136, 139, 140, 141, 163], "attempt": [5, 8, 11, 22, 35, 38, 39, 66, 97, 103, 109, 116, 118, 132, 157, 163, 164], "estim": [5, 68, 115, 148, 150], "step": [5, 6, 10, 16, 18, 21, 30, 34, 36, 38, 39, 40, 47, 55, 58, 59, 64, 71, 77, 78, 81, 84, 86, 87, 88, 89, 91, 98, 101, 104, 106, 108, 113, 115, 118, 123, 124, 134, 138, 139, 145, 147, 148, 149, 150, 151, 161, 169], "extrapol": [5, 7, 16, 24, 72, 101, 108, 126, 147, 148, 149, 151], "togeth": [5, 16, 30, 31, 32, 58, 60, 75, 115, 134], "experiment": [5, 86], "simpli": [5, 13, 36, 38, 39, 40, 42, 47, 49, 55, 57, 66, 67, 70, 72, 88, 90, 91, 93, 98, 99, 105, 116, 139, 141, 152, 157, 163, 166, 167], "magnitud": [5, 32, 115, 126, 150], "greater": [5, 34, 63, 68, 70, 105, 115, 138, 147, 148, 150], "model": [5, 12, 16, 17, 18, 26, 27, 32, 34, 44, 48, 49, 50, 56, 57, 68, 98, 115, 123, 128, 129, 130, 141, 142, 143, 150, 153, 157, 158, 161], "davisleveque2016": [5, 17], "chile2010_adjoint": 5, "shallow": [5, 15, 16, 17, 18, 27, 34, 36, 42, 48, 49, 52, 56, 70, 78, 89, 96, 112, 119, 120, 122, 124, 126, 127, 135, 136, 139, 143, 144, 150, 155, 156, 161, 166], "water": [5, 16, 17, 18, 27, 36, 42, 47, 48, 49, 50, 51, 52, 63, 70, 78, 81, 89, 96, 119, 120, 124, 126, 127, 136, 139, 141, 142, 143, 150, 161, 163, 165, 166], "while": [5, 13, 16, 32, 42, 55, 71, 75, 82, 84, 89, 94, 98, 99, 104, 109, 126, 139, 143, 150, 165], "suitabl": [5, 8, 16, 18, 22, 48, 52, 55, 73, 77, 103, 114, 139, 142, 157, 163], "To": [5, 6, 13, 14, 19, 20, 24, 27, 30, 31, 38, 39, 40, 41, 42, 43, 47, 50, 53, 55, 56, 59, 66, 69, 70, 71, 75, 76, 77, 82, 84, 85, 88, 90, 92, 93, 96, 97, 98, 99, 100, 101, 104, 105, 108, 111, 113, 114, 115, 116, 122, 124, 127, 128, 129, 130, 131, 132, 133, 134, 135, 136, 138, 142, 145, 147, 148, 152, 161, 167], "date": [5, 30, 43, 51, 55, 58, 59, 66, 82, 157, 164], "across": [5, 115, 124, 161, 163], "ocean": [5, 16, 17, 34, 49, 52, 55, 113, 115, 141, 150, 155, 156, 161], "wai": [5, 6, 13, 16, 28, 30, 36, 38, 39, 41, 42, 47, 49, 55, 57, 58, 61, 62, 63, 65, 66, 82, 84, 85, 86, 88, 91, 93, 94, 99, 101, 103, 105, 108, 110, 111, 113, 114, 118, 124, 125, 126, 129, 137, 139, 141, 146, 147, 154, 158, 161, 166, 168, 169], "target": [5, 62, 82, 89, 101, 129], "possibli": [5, 32, 36, 70, 88, 94, 111, 123, 143], "deep": [5, 49, 70], "amplitud": [5, 124], "compar": [5, 18, 24, 39, 47, 49, 52, 55, 59, 82, 98, 115, 116, 142, 148, 159, 165, 169], "essenti": [5, 57, 71, 104, 150, 161], "rest": [5, 24, 84, 113, 126, 142, 155, 156, 161, 163], "henc": [5, 36, 57, 58, 67, 72, 104, 110, 111, 115, 143], "take": [5, 6, 24, 29, 30, 32, 34, 37, 51, 58, 68, 70, 71, 75, 82, 88, 94, 101, 104, 108, 109, 110, 115, 116, 121, 127, 135, 143, 147, 148, 149, 150, 163, 166, 169], "rpn2_geoclaw_adjoint_qwav": 5, "rpt2_geoclaw_adjoint_qwav": 5, "non": [5, 16, 59, 70, 78, 89, 101, 108, 127, 129, 147, 149, 151, 157, 169], "vector": [5, 24, 88, 92, 98, 106, 126, 134, 139, 140], "split": [5, 6, 76, 94, 97, 104, 122, 123, 131, 147, 148, 149, 151, 160, 166, 169], "flux": [5, 17, 34, 36, 37, 94, 102, 104, 139, 147, 169], "comment": [5, 11, 26, 53, 59, 125, 134, 138], "rpn2": [5, 139], "basic": [6, 10, 12, 27, 32, 38, 40, 48, 61, 70, 71, 88, 94, 96, 97, 98, 102, 104, 116, 139, 140, 157, 169], "strategi": 6, "logic": [6, 16, 17, 34, 131, 150], "rectangular": [6, 7, 16, 17, 32, 34, 37, 41, 42, 48, 50, 63, 70, 94, 115, 126, 129, 134, 148, 150, 161], "too": [6, 51, 55, 58, 59, 123, 141, 149, 151, 153], "portion": [6, 36, 42, 55, 70, 89, 134, 160], "factor": [6, 55, 148, 150, 160, 163], "direct": [6, 8, 16, 24, 32, 34, 36, 38, 39, 47, 49, 51, 55, 59, 63, 65, 66, 71, 75, 76, 82, 86, 91, 101, 108, 115, 125, 139, 147, 148, 150, 163], "anisotrop": [6, 24], "perhap": [6, 12, 18, 34, 42, 47, 58, 82, 106, 109, 115, 141], "section": [6, 13, 16, 36, 38, 39, 42, 44, 49, 50, 52, 58, 59, 67, 71, 81, 84, 96, 116, 131, 138, 147, 150, 163], "cfl": [6, 94, 98, 104, 108, 118, 123, 147, 149, 150, 151], "spatial": [6, 17, 27, 32, 36, 37, 41, 42, 47, 48, 49, 64, 68, 72, 101, 115, 118, 122, 129, 131, 139, 142, 148, 149, 150, 151, 169], "reduc": [6, 16, 36, 42, 49, 55, 123, 125, 134, 169], "thu": [6, 51, 98, 101, 126, 157], "proce": [6, 18, 30, 150], "advanc": [6, 17, 36, 56, 70, 76, 108, 123, 135, 147, 148, 166], "taken": [6, 34, 70, 75, 98, 104, 115, 147, 166], "around": [6, 32, 34, 42, 63, 97, 113, 116, 129, 148, 149, 157, 163, 166], "librari": [6, 13, 15, 16, 18, 22, 24, 27, 29, 30, 34, 36, 38, 39, 44, 47, 49, 56, 63, 66, 76, 77, 78, 86, 92, 97, 99, 104, 109, 111, 112, 115, 124, 129, 143, 144, 148, 155, 156, 164, 166], "bcnamr": [6, 16, 126, 147, 149, 166], "check": [6, 14, 15, 16, 22, 34, 38, 39, 43, 44, 54, 55, 56, 58, 59, 60, 62, 66, 71, 82, 85, 88, 89, 91, 96, 99, 103, 104, 106, 108, 109, 111, 112, 115, 119, 128, 141, 143, 144, 148, 149, 155, 156, 157, 163, 164, 165, 166], "denot": [6, 24, 37, 47, 57, 139, 163], "procedur": [6, 16, 42, 48, 49, 59, 166], "updat": [6, 12, 13, 24, 25, 27, 34, 53, 56, 61, 62, 64, 84, 96, 104, 106, 107, 110, 113, 118, 122, 124, 125, 126, 127, 128, 129, 139, 148, 149, 151, 154, 157, 160, 166], "consist": [6, 27, 34, 36, 51, 55, 59, 63, 99, 110, 124, 134, 135, 139, 141, 150, 161, 166], "replac": [6, 13, 31, 36, 41, 47, 52, 56, 58, 59, 61, 64, 66, 81, 89, 93, 97, 99, 100, 101, 102, 106, 109, 116, 118, 124, 126, 128, 129, 134, 138, 139, 143, 163, 164], "ly": [6, 70], "within": [6, 16, 30, 36, 37, 58, 62, 70, 72, 78, 82, 100, 109, 111, 115, 139, 141, 146, 152, 163], "approxim": [6, 16, 18, 27, 35, 52, 55, 72, 75, 139], "lead": [6, 13, 24, 34, 36, 52, 55, 68, 71, 75, 111, 114, 131, 143, 148], "total": [6, 32, 36, 55, 75, 77, 98, 104, 147, 148, 149, 151, 160], "mass": [6, 98, 153], "restor": 6, "global": [6, 14, 94, 106, 109, 142, 161, 165, 166], "fix": [6, 21, 22, 24, 27, 35, 37, 41, 47, 48, 49, 58, 59, 63, 64, 66, 70, 72, 86, 97, 102, 118, 119, 120, 121, 122, 123, 124, 125, 127, 128, 129, 130, 131, 132, 133, 134, 135, 136, 140, 147, 149, 151, 163], "up": [6, 13, 18, 24, 30, 31, 32, 34, 36, 38, 39, 42, 43, 47, 48, 55, 58, 59, 63, 66, 70, 71, 75, 77, 82, 88, 89, 91, 93, 95, 96, 97, 99, 104, 105, 108, 111, 113, 115, 116, 122, 123, 126, 129, 131, 136, 141, 143, 146, 149, 151, 160, 161, 164, 165], "style": [6, 24, 30, 32, 36, 41, 53, 55, 70, 73, 82, 86, 91, 126, 150], "olig": [6, 17], "colella": [6, 17], "bergeroliger84": [6, 17], "bergercolella89": [6, 17], "fortran": [6, 9, 11, 13, 14, 22, 25, 29, 30, 32, 34, 35, 36, 37, 38, 47, 48, 50, 57, 60, 62, 66, 67, 68, 72, 76, 77, 78, 81, 84, 86, 88, 89, 91, 94, 96, 97, 99, 101, 102, 104, 105, 106, 109, 111, 122, 123, 124, 126, 127, 128, 134, 135, 139, 140, 145, 148, 149, 150, 151, 157, 159, 160, 161], "written": [6, 11, 27, 32, 34, 36, 37, 43, 47, 62, 63, 64, 65, 75, 77, 78, 82, 86, 95, 96, 97, 101, 124, 139, 147, 148, 149, 150, 151, 157, 163, 166], "ga": [6, 102], "dynam": [6, 22, 32, 36, 52, 75, 78, 148], "merg": [6, 13, 27, 30, 56, 58, 59, 62, 122], "earli": [6, 22, 143], "mjb": [6, 17], "rjl": [6, 17, 111, 128, 153], "fulli": [6, 52, 55, 56, 125, 129, 139, 150, 157, 158], "consid": [6, 42, 52, 62, 70, 89, 111, 145, 152, 163], "adjac": [6, 16, 34, 48, 115, 143, 147], "equival": [6, 47, 56, 57, 63, 64, 77, 128, 134, 161], "copi": [6, 14, 15, 16, 38, 39, 47, 55, 58, 59, 62, 71, 88, 91, 101, 106, 112, 113, 114, 115, 119, 123, 126, 130, 143, 144, 148, 152, 155, 156, 161, 166], "interior": [6, 16, 42, 77, 106], "howev": [6, 13, 16, 18, 24, 34, 38, 39, 42, 44, 49, 50, 52, 55, 62, 65, 67, 70, 72, 75, 76, 77, 86, 89, 96, 115, 116, 124, 126, 128, 142, 143, 146, 150, 160], "lie": [6, 34, 35, 37, 70, 72, 115, 129, 141], "outsid": [6, 16, 41, 63, 70, 129, 141, 143, 161, 163], "li": [6, 16, 34, 37, 72, 115, 141], "along": [6, 14, 16, 26, 29, 32, 34, 42, 47, 55, 58, 61, 75, 77, 111, 115, 122, 137, 138, 141, 143, 150, 165], "proper": [6, 15, 42, 47, 56, 57, 58, 59, 63, 68, 70, 71, 97, 109, 118, 124, 144, 148, 149, 155, 156, 157, 166], "unless": [6, 34, 43, 44, 63, 102, 110, 142, 147, 148, 163], "standard": [6, 16, 32, 34, 36, 49, 55, 57, 71, 77, 89, 92, 104, 111, 115, 116, 149, 150, 151, 152, 161, 166, 169], "beyond": [6, 32, 110, 126], "modifi": [6, 9, 14, 15, 16, 18, 22, 24, 29, 34, 38, 39, 42, 47, 48, 58, 59, 62, 64, 66, 71, 74, 82, 89, 92, 94, 96, 101, 111, 112, 113, 114, 115, 121, 123, 124, 125, 126, 131, 141, 143, 144, 147, 149, 150, 151, 155, 156, 161, 163, 166], "damag": [6, 65, 86], "bcn": [6, 16, 151, 166], "nd": [6, 16, 115, 126, 129, 166], "actual": [6, 29, 32, 36, 57, 62, 63, 71, 75, 82, 92, 97, 109, 113, 142, 150], "softwar": [6, 13, 26, 27, 31, 48, 52, 65, 86, 96, 97, 98, 152, 161], "With": [6, 24, 30, 47, 53, 55, 62, 70, 78, 115, 123, 139, 141, 147], "opposit": [6, 16, 97], "side": [6, 16, 20, 34, 55, 58, 68, 75, 97, 116, 134, 135, 136, 139, 169], "everi": [6, 12, 30, 34, 36, 47, 64, 66, 67, 77, 88, 91, 93, 97, 98, 106, 115, 116, 124, 125, 139, 143, 145, 147, 149, 151, 157, 161, 163, 166], "few": [6, 12, 13, 24, 28, 31, 39, 49, 52, 58, 70, 71, 89, 104, 108, 110, 115, 116, 129, 142, 159, 161, 166], "coarsest": [6, 36, 55, 77, 118, 138, 147], "revis": [6, 124], "shock": [6, 17, 52, 104, 115], "accord": [6, 57], "criteria": [6, 7, 24, 27, 34, 70, 106], "cluster": [6, 17, 115, 148, 149], "rigoutsi": 6, "bergerrigoutsis91": [6, 17], "nonoverlap": 6, "rectangl": [6, 7, 27, 32, 36, 70, 75, 115, 129, 163], "balanc": [6, 17, 78, 125, 140, 155, 156], "conflict": [6, 30, 62, 66, 71, 107, 111], "goal": 6, "possibl": [6, 13, 24, 28, 30, 32, 34, 36, 37, 47, 49, 51, 52, 55, 64, 65, 66, 75, 82, 86, 94, 97, 99, 100, 104, 109, 111, 115, 139, 141, 142, 147, 148, 161, 165, 166], "minim": [6, 62, 70, 97, 141, 148, 163], "overhead": [6, 76, 115, 160], "cutoff": [6, 149], "control": [6, 7, 25, 27, 34, 36, 44, 47, 58, 62, 64, 71, 77, 84, 87, 92, 94, 96, 97, 98, 99, 101, 115, 124, 129, 140, 150], "fraction": [6, 13, 32, 115, 147, 166, 169], "70": [6, 36, 55], "realli": [6, 72, 116, 166], "At": [6, 13, 29, 30, 36, 38, 39, 42, 70, 99, 104, 108, 110, 115, 129, 147], "present": [6, 26, 63, 72, 94, 102, 103, 104, 109, 152, 166, 169], "previous": [6, 24, 34, 70, 77, 84, 122, 129, 143], "bilinear": [6, 34, 42, 47, 57, 72, 118, 119, 161], "doxygen": [6, 7, 27, 125], "flowchart": [6, 7, 27], "capabl": [7, 12, 24, 34, 36, 47, 52, 56, 64, 70, 78, 89, 96, 118, 123, 124, 126, 127, 128, 129, 130, 134, 135, 163, 165], "block": [7, 32, 42, 63, 75, 77, 78, 88, 97, 106, 109, 116, 166], "structur": [7, 10, 24, 34, 36, 37, 41, 59, 62, 66, 78, 103, 104, 124, 141, 146, 163], "input": [7, 14, 16, 22, 25, 27, 29, 32, 35, 37, 43, 48, 55, 63, 67, 70, 71, 77, 88, 91, 92, 94, 96, 102, 103, 104, 109, 113, 123, 126, 127, 128, 139, 149, 150, 151, 157, 158, 161, 163, 166], "indic": [7, 16, 22, 24, 27, 31, 32, 34, 36, 41, 42, 44, 47, 48, 55, 57, 59, 62, 67, 71, 72, 80, 84, 94, 98, 99, 102, 104, 108, 111, 115, 116, 124, 129, 131, 139, 140, 147, 148, 149, 150, 151, 153, 161, 163, 166], "tool": [7, 8, 17, 24, 25, 30, 32, 34, 35, 36, 37, 38, 39, 42, 48, 49, 50, 51, 52, 55, 57, 60, 61, 62, 63, 71, 75, 80, 81, 82, 83, 85, 96, 111, 114, 119, 120, 124, 125, 129, 130, 150, 152, 161, 163, 165, 167], "matlab": [7, 24, 27, 38, 39, 80, 81, 82, 100, 110, 126, 129, 130], "deprec": [7, 32, 48, 58, 62, 122, 126, 134, 136, 161, 163], "debug": [7, 18, 44, 66, 77, 81, 98, 106, 111, 116, 134, 147, 149], "flag": [7, 12, 13, 18, 24, 27, 30, 31, 41, 43, 44, 48, 56, 62, 76, 89, 107, 109, 111, 122, 127, 131, 149, 150], "sampl": [7, 8, 14, 17, 18, 27, 31, 34, 44, 47, 48, 55, 64, 75, 111, 116, 134, 138, 141, 147, 148, 161, 163, 166], "ghost": [7, 16, 76, 77, 94, 97, 104, 106, 124, 131, 135, 147, 149, 151, 160, 166, 169], "flagregion": [7, 27, 70, 115, 129, 131, 141, 148, 150], "rule": [7, 13, 27, 63, 70, 89], "convex": [7, 34], "slu": 7, "bounding_box": [7, 35], "mask_outsid": [7, 70], "write": [7, 30, 32, 35, 36, 37, 41, 42, 47, 48, 54, 57, 58, 68, 75, 77, 78, 81, 88, 91, 94, 95, 97, 98, 99, 103, 124, 126, 149, 151, 157, 161, 163], "instanti": [7, 91, 99, 101, 104, 106, 135, 149, 151], "make_kml": 7, "simpl": [7, 31, 38, 39, 41, 48, 59, 72, 75, 89, 96, 101, 102, 104, 109, 114, 116, 163], "select": [7, 12, 13, 15, 16, 30, 34, 42, 70, 98, 104, 112, 115, 118, 125, 129, 137, 144, 147, 150, 155, 156, 165], "continent": [7, 70], "shelf": [7, 70], "guid": [7, 13, 17, 20, 25, 26, 27, 48, 50, 56, 61, 96, 110, 115, 125, 129, 134, 135, 136, 154], "adjoint": [7, 17, 27, 56, 115, 126, 127], "gaug": [7, 27, 34, 36, 48, 63, 72, 94, 95, 106, 113, 118, 122, 123, 124, 125, 126, 129, 134, 138, 142, 146, 149], "extend": [8, 16, 24, 42, 63, 70, 71, 94, 126, 141, 143, 150, 161, 163, 169], "directli": [8, 21, 25, 34, 48, 52, 61, 71, 75, 82, 84, 88, 89, 92, 96, 106, 109, 111, 126, 134, 163, 167], "obviou": [8, 55], "elimin": [8, 24, 70, 89, 111, 126, 150], "gallery_classic_amrclaw": [8, 38], "num_cel": [8, 24, 49, 94, 139, 147, 148, 149, 151], "refinement_ratios_i": [8, 148, 149], "sweep": [8, 139], "transvers": [8, 94, 124, 131, 139, 140, 147, 166, 169], "graph": 9, "understand": [9, 27, 38, 39, 52, 81, 96, 108, 115, 139], "filpatch": [9, 42, 124, 128, 131], "idea": [10, 26, 32, 70, 71, 78, 88, 108, 119, 163, 169], "overal": [10, 88], "who": [10, 12, 21, 24, 26, 34, 44, 52, 60], "gori": 10, "monster": 10, "column": [10, 32, 34, 47, 49, 52, 64, 98, 102, 122, 141, 163], "markup": 11, "languag": [11, 81, 109], "restructur": [11, 58], "text": [11, 58, 59, 63, 77, 91, 97, 104, 122], "sphinx": [11, 25, 27, 59, 125], "covert": 11, "convert_readm": 11, "brows": [11, 26, 45, 55, 71, 152, 166], "insert": [11, 16, 75, 97, 145], "script": [11, 21, 22, 30, 32, 34, 43, 47, 55, 58, 66, 71, 78, 81, 86, 89, 93, 95, 96, 98, 99, 104, 109, 111, 116, 126, 130, 139, 146, 150, 151, 163], "invok": [11, 14, 76, 143, 164], "minor": [11, 55, 58, 98, 118, 119, 120, 121, 122, 123, 124, 125, 126, 127, 129, 131, 133, 135, 136], "syntax": [11, 61, 145], "highlight": [11, 13], "header": [11, 32, 34, 36, 42, 47, 57, 70, 75, 77, 97, 103, 122, 124, 126, 157, 161, 163], "complex": [12, 36, 41, 94], "archiv": [12, 23, 39, 55, 59, 116, 152, 159, 163, 165], "github": [12, 15, 24, 25, 26, 27, 28, 31, 56, 58, 61, 62, 93, 101, 105, 112, 116, 121, 123, 124, 125, 134, 137, 139, 140, 144, 155, 156, 164], "app": [12, 13, 20, 25, 28, 30, 31, 34, 40, 45, 46, 75, 113, 114, 121, 125, 126, 127, 128, 129, 130, 131, 132, 133, 134, 135, 136, 140], "com": [12, 13, 25, 26, 28, 30, 31, 56, 58, 59, 61, 62, 97, 99, 101, 105, 121, 123, 124, 125, 134, 137, 140], "fvmbook": [12, 45], "galleri": [12, 27, 38, 39, 40, 45, 59, 80, 81, 93, 96, 110, 116, 121, 125, 152, 159, 166], "anim": [12, 16, 36, 45, 49, 55, 122, 129, 130, 134, 152], "instal": [12, 13, 20, 25, 27, 31, 38, 46, 55, 58, 59, 84, 86, 87, 90, 95, 97, 108, 110, 116, 117, 118, 119, 120, 121, 122, 123, 124, 125, 126, 127, 128, 129, 130, 131, 132, 133, 134, 135, 136, 137, 145, 168], "collect": [12, 27, 28, 30, 32, 34, 75, 81, 88, 104, 152], "either": [12, 16, 22, 32, 34, 36, 42, 48, 50, 55, 64, 66, 70, 71, 75, 77, 82, 84, 88, 94, 96, 97, 98, 104, 109, 111, 115, 116, 122, 123, 124, 126, 134, 139, 141, 143, 148, 150, 157, 161, 163, 166, 169], "clone": [12, 20, 25, 26, 45, 56, 58, 59, 62, 85, 99, 105, 114, 134, 135, 136, 164], "git": [12, 13, 25, 26, 27, 28, 56, 59, 62, 96, 105, 116, 128], "navig": [12, 31, 58, 152], "green": [12, 18, 63, 70, 75, 82, 116, 163], "button": [12, 13, 30, 55, 63, 125], "download": [12, 13, 30, 31, 32, 39, 40, 42, 48, 55, 59, 61, 62, 93, 99, 105, 126, 127, 137, 159, 163, 164, 165], "zip": [12, 55, 59], "illustr": [12, 27, 32, 34, 38, 46, 49, 55, 70, 71, 75, 77, 114, 121, 122, 126, 128, 139, 141, 152, 163], "variou": [12, 22, 24, 32, 36, 41, 46, 52, 58, 71, 72, 75, 82, 84, 94, 108, 110, 111, 115, 124, 139, 146, 150, 157], "visibl": [12, 13, 46, 55, 114, 152], "render": [12, 24, 46, 55, 63, 167], "advantag": [12, 36, 47, 64, 81, 97, 110, 116, 141], "independ": [12, 25, 32, 36, 37], "contact": [12, 93, 96, 105], "u": [12, 13, 16, 26, 31, 34, 36, 37, 51, 52, 59, 60, 62, 64, 86, 93, 96, 102, 105, 106, 107, 108, 113, 125, 139, 148, 151, 157, 165], "storm": [12, 17, 26, 27, 48, 122, 125, 126, 127, 128, 130, 131, 132], "surg": [12, 17, 26, 27, 48, 122, 125, 126, 127, 128, 131, 157], "empti": [12, 36, 47, 103, 106, 109, 111, 147, 150, 157, 163], "gitmodul": 12, "pull": [12, 26, 28, 31, 58, 59, 61, 93, 101, 116, 121, 124, 125, 131, 134, 139], "request": [12, 26, 28, 32, 36, 37, 47, 58, 61, 77, 88, 93, 94, 98, 101, 103, 116, 124, 126, 131, 139, 150, 157, 163], "init": [12, 27, 30, 42, 48, 56, 59, 61, 142, 150], "leav": [12, 13, 16, 47, 62, 148, 163], "off": [12, 13, 47, 52, 55, 63, 71, 84, 91, 98, 115, 134, 148, 153, 163], "won": [12, 13, 70, 89, 163], "hurt": [12, 67], "maintain": [12, 30, 110, 126, 148, 161, 166], "flavor": [12, 23, 97], "demonstr": [12, 27, 93, 99], "agre": [12, 30, 42, 57, 139, 160, 163, 166], "seen": [12, 24, 34, 38, 39, 40, 52, 76, 101, 147, 152], "cloud": 13, "elast": [13, 75], "sign": [13, 26, 82, 131, 157], "account": [13, 26, 30, 59, 90, 99, 138], "750": 13, "free": [13, 55, 66, 75, 86, 90, 101, 105, 107], "micro": 13, "suffici": [13, 16, 18, 22, 36, 47, 75, 76, 77, 113, 118, 134, 147, 150], "tier": 13, "inform": [13, 14, 24, 27, 34, 35, 37, 38, 39, 49, 50, 51, 52, 53, 54, 62, 67, 77, 82, 83, 84, 88, 89, 94, 96, 98, 99, 100, 102, 103, 109, 111, 123, 126, 127, 129, 135, 137, 138, 139, 142, 145, 147, 148, 150, 157, 160, 161, 164, 165, 166, 167], "uw": [13, 26], "escienc": 13, "aw": 13, "tutori": [13, 31, 59, 84, 87, 91, 96, 105, 111, 114], "gear": 13, "faq": [13, 27, 81], "price": 13, "charg": 13, "per": [13, 32, 37, 47, 49, 55, 63, 71, 76, 97, 148], "thereof": 13, "regardless": [13, 37, 42, 70, 115, 147], "cpu": [13, 56, 123, 126, 128, 160], "consol": [13, 98, 150], "tab": [13, 58, 137], "east": [13, 161], "cheaper": 13, "rate": 13, "menu": [13, 20, 27, 58, 63, 125, 134, 135, 136, 137, 142, 165], "imag": [13, 38, 39, 42, 59, 63, 70, 116, 126, 141], "platform": [13, 55, 91, 99, 110, 116], "finish": [13, 82, 88], "load": [13, 63, 98, 100, 103, 109, 116, 163, 167], "databas": [13, 32, 75, 109, 113, 126, 161], "uwamath": 13, "bar": [13, 58, 157], "screen": [13, 30, 55, 63, 91, 98, 99, 123, 149, 151], "shapshot": 13, "machin": [13, 27, 76, 78, 116, 124, 145], "disk": [13, 47, 88, 97, 98, 116, 124], "ubuntu": 13, "linux": [13, 74, 85, 107, 116, 145], "popup": 13, "look": [13, 14, 24, 27, 30, 32, 42, 55, 58, 59, 63, 71, 82, 84, 89, 94, 99, 103, 104, 108, 109, 111, 116, 119, 126, 135, 141, 147, 148, 150, 160, 163, 164], "sort": [13, 42, 126, 146, 164], "larger": [13, 22, 34, 49, 55, 63, 75, 76, 77, 82, 94, 118, 124, 131, 148, 150, 161], "cost": [13, 104], "continu": [13, 24, 30, 32, 53, 58, 86, 110, 139, 147, 169], "eventu": [13, 48, 129], "don": [13, 29, 30, 58, 59, 82, 98, 99, 105, 116, 149, 164], "pair": [13, 97, 116, 163], "secur": 13, "quick": [13, 27, 39, 48, 50, 60, 85, 116, 159], "close": [13, 42, 55, 58, 63, 70, 71, 97, 115, 129, 148, 157], "back": [13, 29, 31, 58, 59, 125], "statu": [13, 30, 54, 91, 108], "wait": 13, "until": [13, 34, 64, 70, 136, 143], "refresh": [13, 47], "bottom": [13, 15, 32, 38, 39, 48, 52, 68, 70, 75, 88, 101, 102, 124, 125, 144, 155, 156], "scroll": 13, "down": [13, 32, 98, 123, 157, 161, 163], "dn": 13, "screenshot": [13, 55], "rjlkei": 13, "pem": 13, "abl": [13, 58, 111], "ssh": [13, 30], "keypair": 13, "50": [13, 17, 34, 55, 72, 104, 119, 149], "19": [13, 17, 26, 132, 133, 137, 160], "75": [13, 17, 92, 108, 141], "229": 13, "amazonaw": 13, "gfortran": [13, 62, 76, 85, 87, 107, 145, 164], "ipython": [13, 78, 82, 84, 89, 90, 96, 98, 105, 108, 111, 122, 123], "scipi": [13, 37, 89, 110, 136, 157, 163], "netcdf": [13, 37, 44, 48, 123, 126, 128, 130, 157, 163, 165], "apach": 13, "server": [13, 31, 42, 55, 58, 59, 70, 126, 161, 165], "apt": [13, 85], "fetch": [13, 51], "bring": [13, 55, 58, 71, 150], "master": [13, 15, 18, 27, 31, 49, 58, 59, 62, 101, 112, 123, 124, 125, 126, 127, 128, 129, 130, 131, 132, 133, 134, 135, 136, 137, 140, 144, 155, 156], "make_lib": 13, "compil": [13, 18, 27, 38, 39, 43, 50, 62, 67, 76, 78, 84, 85, 89, 96, 97, 101, 105, 109, 118, 139, 140, 145], "bashrc": [13, 44, 107, 145], "Of": [13, 28, 75, 108, 113, 161], "cours": [13, 28, 34, 47, 50, 64, 75, 99, 100, 108, 110, 113, 150, 161], "tar": [13, 63, 128, 137], "instruct": [13, 20, 26, 27, 38, 39, 42, 55, 56, 58, 59, 88, 90, 96, 99, 105, 108, 111, 125, 132, 134, 135, 136, 137, 138, 164], "window": [13, 32, 71, 84, 145], "respons": [13, 52, 88, 103], "pretti": 13, "slow": [13, 55, 98, 107], "_plot": [13, 38, 39, 47, 71, 84, 146, 152], "local": [13, 17, 22, 27, 30, 55, 58, 63, 66, 67, 71, 92, 94, 101, 106, 124, 126, 135, 143, 161, 163, 166], "sftp": 13, "much": [13, 30, 34, 36, 44, 49, 55, 77, 78, 81, 85, 110, 115, 118, 122, 129, 134, 135, 141, 147, 150, 160, 163], "smaller": [13, 36, 55, 68, 78, 94, 98, 118, 134, 143, 147, 149, 150, 151, 163], "quicker": [13, 141], "browser": [13, 30, 31, 38, 39, 55, 58, 152], "explain": [13, 34, 52, 70, 131, 147, 152], "webserv": 13, "inbound": 13, "port": [13, 31, 95, 96, 101, 148], "22": [13, 26, 148, 163], "80": [13, 17, 55, 99, 141], "drop": [13, 18, 58, 85, 129, 131, 143, 147], "tcp": 13, "Then": [13, 16, 30, 31, 32, 36, 47, 58, 59, 60, 67, 70, 75, 76, 84, 88, 91, 99, 105, 106, 107, 111, 139, 141, 163, 164], "someth": [13, 29, 30, 58, 66, 74, 81, 98, 103, 104, 111, 161, 164, 166], "shot": 13, "ln": 13, "expos": [13, 78], "home": [13, 31, 32, 62, 145], "scp": 13, "TO": [13, 65, 86], "send": [13, 26, 101, 139], "remot": [13, 55, 59, 126, 163, 165], "rel": [13, 18, 22, 32, 43, 50, 52, 55, 75, 76, 82, 96, 109, 111, 116, 119, 120, 121, 122, 123, 124, 125, 126, 127, 128, 129, 130, 131, 132, 133, 134, 135, 136, 142, 148, 150, 152, 161, 165], "end": [13, 31, 32, 34, 36, 47, 51, 55, 59, 63, 91, 98, 102, 108, 110, 113, 115, 123, 124, 126, 138, 140, 141, 149, 151, 157, 160], "retriev": [13, 37, 51, 84, 89, 104, 163, 165], "sit": 13, "idl": 13, "action": [13, 14, 89], "restart": [13, 27, 47, 77, 84, 96, 123, 124, 125, 126, 128, 131, 135, 147, 149, 151], "later": [13, 36, 37, 42, 54, 55, 62, 84, 104, 138], "But": [13, 34, 42, 55, 72, 82, 107, 119, 126, 143, 145], "futur": [13, 19, 24, 27, 28, 38, 39, 42, 49, 52, 57, 63, 68, 88, 104, 110, 123, 124, 126, 129, 135, 148, 153, 157, 161], "job": [13, 133], "eb": 13, "runclaw": [14, 54, 119, 128, 130, 136, 139], "autom": [14, 58, 89, 116], "certain": [14, 34, 48, 61, 70, 98, 115, 123, 141, 147], "keep": [14, 27, 30, 34, 35, 37, 38, 39, 76, 88, 91, 96, 106, 109, 116, 119], "log": [14, 27, 30, 31, 94, 95, 96, 103, 104], "came": 14, "rundir": [14, 91], "environ": [14, 18, 27, 30, 38, 39, 40, 43, 54, 55, 58, 61, 62, 71, 74, 76, 78, 100, 107, 109, 111, 124, 163, 164], "noth": [15, 64, 106, 127, 144, 155, 156, 163, 166], "rememb": 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147, 149, 151], "bc_upper": [16, 88, 101, 108, 147, 149, 151], "extrap": [16, 101, 108, 147, 149], "outflow": [16, 147, 149, 151], "move": [16, 34, 38, 39, 48, 58, 62, 64, 75, 101, 115, 118, 120, 125, 150, 153, 161, 162], "normal": [16, 35, 36, 56, 58, 64, 82, 101, 111, 139, 140, 147, 148, 149, 150, 151], "fairli": [16, 52, 124], "good": [16, 18, 30, 52, 55, 65, 76, 86, 108, 113, 116, 124, 131, 139], "outgo": 16, "let": [16, 48, 62, 86, 113, 125, 131, 139], "without": [16, 24, 43, 47, 52, 63, 65, 66, 67, 70, 71, 82, 84, 86, 92, 96, 97, 98, 109, 111, 116, 135, 141, 145, 149, 151, 157, 164, 166], "particularli": [16, 18, 29, 31, 34, 36, 54, 55, 60, 61, 62, 75, 77, 111, 119, 122, 126, 131, 135, 143, 161], "perfect": 16, "hit": [16, 36, 71, 77, 84, 98, 147], "obliqu": 16, "angl": [16, 32, 51, 75], "perfectli": 16, "wall": [16, 44, 101, 108, 123, 126, 128, 147, 149, 151, 160], "veloc": [16, 34, 36, 51, 64, 71, 84, 101, 102, 108, 124, 134, 142, 147, 148, 149, 150, 151, 166], "momentum": [16, 18, 34, 36, 37, 52, 64, 68, 98, 131, 140, 150, 153, 161], "third": [16, 18, 34, 57, 92, 160, 163], "acoust": [16, 31, 38, 39, 52, 87, 88, 91, 93, 96, 104, 105, 122, 139, 149, 166], "p": [16, 17, 31, 84, 86, 88, 94, 97, 98, 102, 106, 139, 169], "hu": [16, 18, 36, 37, 64, 68, 102, 140, 150], "hv": [16, 36, 37, 64, 68, 140, 150], "equal": [16, 32, 34, 35, 36, 37, 55, 72, 75, 77, 99, 101, 115, 138, 141, 147, 149, 151, 161, 163], "far": [16, 18, 41, 45, 70, 81, 127, 129, 131, 134], "symmetri": [16, 49], "physic": [16, 47, 49, 55, 89, 94, 96, 108, 115, 169], "slightli": [16, 42, 57, 124, 125, 131, 141], "complic": [16, 82, 89, 141, 146], "alwai": [16, 24, 28, 29, 30, 34, 36, 37, 44, 57, 58, 62, 71, 88, 97, 114, 115, 118, 119, 131, 135, 143, 147, 149, 151, 161, 166], "alon": [16, 55], "topographi": [16, 17, 27, 34, 35, 36, 37, 47, 48, 49, 52, 57, 63, 68, 72, 75, 83, 113, 114, 118, 119, 120, 122, 123, 126, 129, 132, 135, 141, 142, 143, 155, 156, 162], "artifici": [16, 143], "ignor": [16, 49, 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150, 160, 166], "print": 148, "geo": 150, "fixedgrid": 150, "maximum": 150, "arriv": 150, "share": 152, "local": 154, "src1d": [155, 166], "src": [156, 166], "statist": 160, "download": 161, "displac": 161, "topo": 162, "topotool": 163, "f2py": 164, "ex": 164, "bathymetri": 165, "dart": 165, "buoi": 165, "tide": 165, "done": 166, "befor": 166, "visit": 167, "virtual": 168, "propag": 169, "godunov": 169, "high": 169, "formul": 169, "capac": 169}, "envversion": {"sphinx.domains.c": 2, "sphinx.domains.changeset": 1, "sphinx.domains.citation": 1, "sphinx.domains.cpp": 8, "sphinx.domains.index": 1, "sphinx.domains.javascript": 2, "sphinx.domains.math": 2, "sphinx.domains.python": 3, "sphinx.domains.rst": 2, "sphinx.domains.std": 2, "sphinx": 57}, "alltitles": {"ClawPlotAxes": [[0, "clawplotaxes"]], "Attributes": [[0, "attributes"], [1, "attributes"], [2, "attributes"], [3, "attributes"]], "Attributes for gauge plots": [[0, "attributes-for-gauge-plots"]], "Methods": [[0, "methods"], [1, "methods"], [2, "methods"], [3, "methods"]], "ClawPlotData": [[1, "clawplotdata"]], "ClawPlotFigure": [[2, "clawplotfigure"]], "ClawPlotItem": [[3, "clawplotitem"]], "Special attributes for all 1d plots, plot_type = \u20181d\u2026\u2019": [[3, "special-attributes-for-all-1d-plots-plot-type-1d"]], "Special attributes for plot_type = \u20181d_plot\u2019": [[3, "special-attributes-for-plot-type-1d-plot"]], "Special attributes for plot_type = \u20181d_fill_between\u2019": [[3, "special-attributes-for-plot-type-1d-fill-between"]], "Special attributes for plot_type = \u20181d_from_2d_data\u2019": [[3, "special-attributes-for-plot-type-1d-from-2d-data"]], "Special attributes for all 2d plots, plot_type = \u20182d\u2026\u2019": [[3, "special-attributes-for-all-2d-plots-plot-type-2d"]], "Special attributes for plot_type = \u20182d_contour\u2019": [[3, "special-attributes-for-plot-type-2d-contour"]], "Special attributes for plot_type = \u20182d_pcolor\u2019": [[3, "special-attributes-for-plot-type-2d-pcolor"]], "Special attributes for plot_type = \u20182d_imshow\u2019": [[3, "special-attributes-for-plot-type-2d-imshow"]], "AMR Attributes": [[3, "amr-attributes"]], "Colorbar attributes": [[3, "colorbar-attributes"]], "About this software": [[4, "about-this-software"]], "License": [[4, "license"], [65, "license"], [86, "license"]], "Authors": [[4, "authors"]], "Citing this work": [[4, "citing-this-work"]], "Funding": [[4, "funding"], [86, "funding"]], "Guiding AMR with adjoint flagging": [[5, "guiding-amr-with-adjoint-flagging"]], "Using adjoint flagging in GeoClaw": [[5, "using-adjoint-flagging-in-geoclaw"]], "Adaptive mesh refinement (AMR) algorithms": [[6, "adaptive-mesh-refinement-amr-algorithms"]], "Ghost cells and boundary conditions for AMR": [[6, "ghost-cells-and-boundary-conditions-for-amr"]], "Choosing and initializing finer grids": [[6, "choosing-and-initializing-finer-grids"]], "Flagging cells for refinement": [[6, "flagging-cells-for-refinement"]], "For more details": [[6, "for-more-details"]], "AMRClaw Description and Detailed Contents": [[7, "amrclaw-description-and-detailed-contents"]], "AMRClaw for 1d problems": [[8, "amrclaw-for-1d-problems"]], "Old approach, deprecated:": [[8, "old-approach-deprecated"]], "Doxygen documentation of AMRClaw": [[9, "doxygen-documentation-of-amrclaw"]], "AMRClaw Flowcharts": [[10, "amrclaw-flowcharts"]], "Application documentation": [[11, "application-documentation"]], "Converting README.rst to README.html": [[11, "converting-readme-rst-to-readme-html"]], "Converting code to html with clawcode2html": [[11, "converting-code-to-html-with-clawcode2html"]], "Clawpack Applications repository": [[12, "clawpack-applications-repository"]], "Jupyter Notebooks": [[12, "jupyter-notebooks"]], "Submodules": [[12, "submodules"]], "Examples included with Clawpack": [[12, "examples-included-with-clawpack"]], "Amazon Web Services EC2 Clawpack AMI": [[13, "amazon-web-services-ec2-clawpack-ami"]], "Finding the Clawpack AMI": [[13, "finding-the-clawpack-ami"]], "Launching an instance": [[13, "launching-an-instance"]], "Logging on to your instance": [[13, "logging-on-to-your-instance"]], "Using Clawpack": [[13, "using-clawpack"]], "Viewing plots of results": [[13, "viewing-plots-of-results"]], "Viewing webpages directly from your instance": [[13, "viewing-webpages-directly-from-your-instance"]], "Transferring files to/from your instance": [[13, "transferring-files-to-from-your-instance"]], "Stopping your instance": [[13, "stopping-your-instance"]], "Creating your own AMI": [[13, "creating-your-own-ami"]], "b4run function": [[14, "b4run-function"]], "b4step default routines": [[15, "b4step-default-routines"]], "b4step routine in GeoClaw": [[15, "b4step-routine-in-geoclaw"]], "Boundary conditions": [[16, "boundary-conditions"], [169, "boundary-conditions"]], "Boundary conditions for adaptive refinement": [[16, "boundary-conditions-for-adaptive-refinement"]], "Boundary conditions for GeoClaw": [[16, "boundary-conditions-for-geoclaw"]], "Boundary conditions for clamshell grids on the sphere": [[16, "boundary-conditions-for-clamshell-grids-on-the-sphere"]], "User-defined boundary conditions": [[16, "user-defined-boundary-conditions"]], "Bibliography": [[17, "bibliography"]], "Papers describing the Clawpack software and algorithms": [[17, "papers-describing-the-clawpack-software-and-algorithms"]], "Papers describing applications": [[17, "papers-describing-applications"]], "Other references": [[17, "other-references"]], "Boussinesq solvers in One Space Dimension": [[18, "boussinesq-solvers-in-one-space-dimension"]], "The SGN equations": [[18, "the-sgn-equations"]], "The Madsen-Sorensen (MS) equations": [[18, "the-madsen-sorensen-ms-equations"]], "Using the 1d Boussinesq code": [[18, "using-the-1d-boussinesq-code"]], "Makefile": [[18, "makefile"]], "setrun.py": [[18, "setrun-py"]], "Boussinesq solvers in Two Space Dimensions": [[19, "boussinesq-solvers-in-two-space-dimensions"]], "Changes to master since v5.9.2": [[20, "changes-to-master-since-v5-9-2"]], "Changes that are not backward compatible": [[20, "changes-that-are-not-backward-compatible"], [126, "changes-that-are-not-backward-compatible"], [127, "changes-that-are-not-backward-compatible"], [128, "changes-that-are-not-backward-compatible"], [129, "changes-that-are-not-backward-compatible"], [130, "changes-that-are-not-backward-compatible"], [131, "changes-that-are-not-backward-compatible"], [132, "changes-that-are-not-backward-compatible"], [133, "changes-that-are-not-backward-compatible"], [134, "changes-that-are-not-backward-compatible"]], "General changes": [[20, "general-changes"], [126, "general-changes"], [127, "general-changes"], [128, "general-changes"], [129, "general-changes"], [130, "general-changes"], [131, "general-changes"], [132, "general-changes"], [133, "general-changes"], [134, "general-changes"], [136, "general-changes"]], "Changes to classic": [[20, "changes-to-classic"], [118, "changes-to-classic"], [119, "changes-to-classic"], [120, "changes-to-classic"], [121, "changes-to-classic"], [122, "changes-to-classic"], [123, "changes-to-classic"], [124, "changes-to-classic"], [125, "changes-to-classic"], [126, "changes-to-classic"], [127, "changes-to-classic"], [128, "changes-to-classic"], [129, "changes-to-classic"], [130, "changes-to-classic"], [131, "changes-to-classic"], [132, "changes-to-classic"], [133, "changes-to-classic"], [134, "changes-to-classic"], [135, "changes-to-classic"], [136, "changes-to-classic"]], "Changes to clawutil": [[20, "changes-to-clawutil"], [118, "changes-to-clawutil"], [119, "changes-to-clawutil"], [120, "changes-to-clawutil"], [121, "changes-to-clawutil"], [122, "changes-to-clawutil"], [123, "changes-to-clawutil"], [124, "changes-to-clawutil"], [125, "changes-to-clawutil"], [126, "changes-to-clawutil"], [127, "changes-to-clawutil"], [128, "changes-to-clawutil"], [129, "changes-to-clawutil"], [130, "changes-to-clawutil"], [131, "changes-to-clawutil"], [132, "changes-to-clawutil"], [133, "changes-to-clawutil"], [134, "changes-to-clawutil"], [135, "changes-to-clawutil"], [136, "changes-to-clawutil"]], "Changes to visclaw": [[20, "changes-to-visclaw"], [118, "changes-to-visclaw"], [119, "changes-to-visclaw"], [120, "changes-to-visclaw"], [121, "changes-to-visclaw"], [122, "changes-to-visclaw"], [123, "changes-to-visclaw"], [124, "changes-to-visclaw"], [125, "changes-to-visclaw"], [126, "changes-to-visclaw"], [127, "changes-to-visclaw"], [128, "changes-to-visclaw"], [129, "changes-to-visclaw"], [130, "changes-to-visclaw"], [131, "changes-to-visclaw"], [132, "changes-to-visclaw"], [133, "changes-to-visclaw"], [134, "changes-to-visclaw"], [135, "changes-to-visclaw"], [136, "changes-to-visclaw"]], "Changes to riemann": [[20, "changes-to-riemann"], [118, "changes-to-riemann"], [119, "changes-to-riemann"], [120, "changes-to-riemann"], [121, "changes-to-riemann"], [122, "changes-to-riemann"], [123, "changes-to-riemann"], [124, "changes-to-riemann"], [125, "changes-to-riemann"], [126, "changes-to-riemann"], [127, "changes-to-riemann"], [128, "changes-to-riemann"], [129, "changes-to-riemann"], [130, "changes-to-riemann"], [131, "changes-to-riemann"], [132, "changes-to-riemann"], [133, "changes-to-riemann"], [134, "changes-to-riemann"], [135, "changes-to-riemann"], [136, "changes-to-riemann"]], "Changes to amrclaw": [[20, "changes-to-amrclaw"], [118, "changes-to-amrclaw"], [119, "changes-to-amrclaw"], [120, "changes-to-amrclaw"], [121, "changes-to-amrclaw"], [122, "changes-to-amrclaw"], [123, "changes-to-amrclaw"], [124, "changes-to-amrclaw"], [125, "changes-to-amrclaw"], [126, "changes-to-amrclaw"], [127, "changes-to-amrclaw"], [128, "changes-to-amrclaw"], [129, "changes-to-amrclaw"], [130, "changes-to-amrclaw"], [131, "changes-to-amrclaw"], [132, "changes-to-amrclaw"], [133, "changes-to-amrclaw"], [134, "changes-to-amrclaw"], [135, "changes-to-amrclaw"], [136, "changes-to-amrclaw"]], "Changes to geoclaw": [[20, "changes-to-geoclaw"], [118, "changes-to-geoclaw"], [119, "changes-to-geoclaw"], [120, "changes-to-geoclaw"], [121, "changes-to-geoclaw"], [122, "changes-to-geoclaw"], [123, "changes-to-geoclaw"], [124, "changes-to-geoclaw"], [125, "changes-to-geoclaw"], [126, "changes-to-geoclaw"], [127, "changes-to-geoclaw"], [128, "changes-to-geoclaw"], [129, "changes-to-geoclaw"], [130, "changes-to-geoclaw"], [131, "changes-to-geoclaw"], [132, "changes-to-geoclaw"], [133, "changes-to-geoclaw"], [134, "changes-to-geoclaw"], [135, "changes-to-geoclaw"], [136, "changes-to-geoclaw"]], "Changes to PyClaw": [[20, "changes-to-pyclaw"], [117, "changes-to-pyclaw"], [118, "changes-to-pyclaw"], [119, "changes-to-pyclaw"], [120, "changes-to-pyclaw"], [121, "changes-to-pyclaw"], [122, "changes-to-pyclaw"], [123, "changes-to-pyclaw"], [124, "changes-to-pyclaw"], [125, "changes-to-pyclaw"], [126, "changes-to-pyclaw"], [127, "changes-to-pyclaw"], [128, "changes-to-pyclaw"], [129, "changes-to-pyclaw"], [130, "changes-to-pyclaw"], [131, "changes-to-pyclaw"], [132, "changes-to-pyclaw"], [133, "changes-to-pyclaw"], [134, "changes-to-pyclaw"], [135, "changes-to-pyclaw"], [136, "changes-to-pyclaw"]], "Other Clawpack Repositories": [[20, "other-clawpack-repositories"], [125, "other-clawpack-repositories"], [126, "other-clawpack-repositories"], [127, "other-clawpack-repositories"], [128, "other-clawpack-repositories"], [129, "other-clawpack-repositories"], [130, "other-clawpack-repositories"], [131, "other-clawpack-repositories"], [132, "other-clawpack-repositories"], [133, "other-clawpack-repositories"], [134, "other-clawpack-repositories"], [135, "other-clawpack-repositories"], [136, "other-clawpack-repositories"]], "Converting from Clawpack 4.3 to 4.6": [[21, "converting-from-clawpack-4-3-to-4-6"]], "Converting from Clawpack 4.6 to 5.0": [[22, "converting-from-clawpack-4-6-to-5-0"]], "Python conversion tool": [[22, "python-conversion-tool"]], "Clawpack 4.x links": [[23, "clawpack-4-x-links"]], "Changes in Clawpack 5.0": [[24, "changes-in-clawpack-5-0"]], "PyClaw in 5.0": [[24, "pyclaw-in-5-0"]], "Fortran package changes": [[24, "fortran-package-changes"]], "Changes to input parameters in setrun.py from 4.x to 5.0": [[24, "changes-to-input-parameters-in-setrun-py-from-4-x-to-5-0"]], "Changes to general parameters": [[24, "changes-to-general-parameters"]], "Changes to AMR parameters": [[24, "changes-to-amr-parameters"]], "Changes to GeoClaw parameters": [[24, "changes-to-geoclaw-parameters"]], "Changes to plotting routines": [[24, "changes-to-plotting-routines"]], "Clawpack components": [[25, "clawpack-components"]], "Other repositories": [[25, "other-repositories"]], "Clawpack Community": [[26, "clawpack-community"]], "User Workshops, Clinics, and Tutorials": [[26, "user-workshops-clinics-and-tutorials"]], "Available for streaming": [[26, "available-for-streaming"]], "Upcoming": [[26, "upcoming"], [26, "id1"]], "Recent": [[26, "recent"]], "Developer Workshops and Sprint Sessions": [[26, "developer-workshops-and-sprint-sessions"]], "Previous": [[26, "previous"]], "Other Clawpack events": [[26, "other-clawpack-events"]], "Contents": [[27, "id1"], [30, "contents"], [42, "contents"], [70, "contents"], [82, "contents"], [88, "contents"], [98, "contents"], [104, "contents"], [116, "contents"], [141, "contents"]], "Full Table of Contents": [[27, "full-table-of-contents"]], "Overview and Getting Started": [[27, "overview-and-getting-started"]], "Examples and Applications": [[27, "examples-and-applications"]], "Classic, AMRClaw, and GeoClaw": [[27, "classic-amrclaw-and-geoclaw"]], "Using the Fortran codes": [[27, "using-the-fortran-codes"]], "AMRClaw: adaptive mesh refinement": [[27, "amrclaw-adaptive-mesh-refinement"]], "GeoClaw: geophysical flows": [[27, "geoclaw-geophysical-flows"]], "PyClaw": [[27, "pyclaw"], [38, "pyclaw"], [96, "pyclaw"], [116, "pyclaw"], [159, "pyclaw"]], "Riemann": [[27, "riemann"]], "VisClaw: Plotting and Visualization Tools": [[27, "visclaw-plotting-and-visualization-tools"]], "Migrating applications from older versions of Clawpack": [[27, "migrating-applications-from-older-versions-of-clawpack"]], "Developers\u2019 resources": [[27, "developers-resources"]], "References": [[27, "references"], [56, "references"]], "Contributing examples and applications": [[28, "contributing-examples-and-applications"]], "current_data": [[29, "current-data"]], "Attributes of current_data:": [[29, "attributes-of-current-data"]], "Developers\u2019 Guide": [[30, "developers-guide"]], "Guidelines for contributing": [[30, "guidelines-for-contributing"]], "Reporting and fixing bugs": [[30, "reporting-and-fixing-bugs"]], "Developer communication": [[30, "developer-communication"]], "Installation instructions for developers": [[30, "installation-instructions-for-developers"]], "Cloning the most recent code from Github": [[30, "cloning-the-most-recent-code-from-github"]], "Checking out the master branch on each repository": [[30, "checking-out-the-master-branch-on-each-repository"]], "Updating to the latest master branch": [[30, "updating-to-the-latest-master-branch"]], "Never commit to master": [[30, "never-commit-to-master"]], "Adding your fork as a remote": [[30, "adding-your-fork-as-a-remote"]], "Modifying code": [[30, "modifying-code"]], "Issuing a pull request": [[30, "issuing-a-pull-request"]], "Testing a pull request": [[30, "testing-a-pull-request"]], "Top-level pull requests": [[30, "top-level-pull-requests"]], "Git workflow": [[30, "git-workflow"]], "Catching errors with Pyflakes and Pylint": [[30, "catching-errors-with-pyflakes-and-pylint"]], "Checking test coverage": [[30, "checking-test-coverage"]], "Trouble-Shooting Tips": [[30, "trouble-shooting-tips"]], "Docker for Clawpack": [[31, "docker-for-clawpack"]], "Using Version 5.9.0 or above": [[31, "using-version-5-9-0-or-above"]], "Getting started": [[31, "getting-started"]], "Stopping a container": [[31, "stopping-a-container"]], "Restarting a container": [[31, "restarting-a-container"]], "Running Jupyter notebooks": [[31, "running-jupyter-notebooks"]], "Moving files between the docker container and the host machine": [[31, "moving-files-between-the-docker-container-and-the-host-machine"]], "Some other useful docker commands": [[31, "some-other-useful-docker-commands"]], "Creating your own docker image": [[31, "creating-your-own-docker-image"]], "Dockerfiles for binder": [[31, "dockerfiles-for-binder"]], "dtopotools module for moving topography": [[32, "dtopotools-module-for-moving-topography"]], "Documentation auto-generated from the module docstrings": [[32, "module-clawpack.geoclaw.dtopotools"], [35, "module-clawpack.geoclaw.fgmax_tools"], [37, "module-clawpack.geoclaw.fgout_tools"], [51, "module-clawpack.geoclaw.util"], [63, "module-clawpack.geoclaw.kmltools"], [163, "module-clawpack.geoclaw.topotools"]], "Fortran 77 vs. Fortran 90 files": [[33, "fortran-77-vs-fortran-90-files"]], "Fixed grid monitoring": [[34, "fixed-grid-monitoring"]], "Input file specification": [[34, "input-file-specification"], [36, "input-file-specification"]], "Different point styles": [[34, "different-point-styles"]], "Other attributes": [[34, "other-attributes"]], "Values to monitor": [[34, "values-to-monitor"]], "Choice of interpolation procedure": [[34, "choice-of-interpolation-procedure"], [36, "choice-of-interpolation-procedure"]], "A simple example": [[34, "a-simple-example"], [36, "a-simple-example"]], "Processing and plotting fgmax output": [[34, "processing-and-plotting-fgmax-output"]], "Format of the output files": [[34, "format-of-the-output-files"]], "fgmax_tools module for working with fgmax grids": [[35, "fgmax-tools-module-for-working-with-fgmax-grids"]], "Fixed grid output": [[36, "fixed-grid-output"], [150, "fixed-grid-output"]], "Format of fgout output": [[36, "format-of-fgout-output"]], "Using setplot.py to produce plots": [[36, "using-setplot-py-to-produce-plots"]], "Reading and plotting fgout arrays directly": [[36, "reading-and-plotting-fgout-arrays-directly"]], "fgout grid registration": [[36, "fgout-grid-registration"]], "fgout_tools module for working with fgout grids": [[37, "fgout-tools-module-for-working-with-fgout-grids"]], "Running an example": [[38, "running-an-example"], [39, "running-an-example"], [40, "running-an-example"]], "Classic": [[38, "classic"], [39, "classic"], [159, "classic"]], "Testing your Fortran installation and running an example": [[39, "testing-your-fortran-installation-and-running-an-example"]], "More examples": [[39, "more-examples"]], "Testing a PyClaw installation and running an example": [[40, "testing-a-pyclaw-installation-and-running-an-example"]], "From the Jupyter notebook": [[40, "from-the-jupyter-notebook"]], "From the IPython interpreter": [[40, "from-the-ipython-interpreter"]], "From the command line": [[40, "from-the-command-line"], [93, "from-the-command-line"]], "Specifying flagregions for adaptive refinement": [[41, "specifying-flagregions-for-adaptive-refinement"]], "Using ruled rectangles as flagregions": [[41, "using-ruled-rectangles-as-flagregions"]], "Force Cells to be Dry Initially": [[42, "force-cells-to-be-dry-initially"]], "Examples": [[42, "examples"], [47, "examples"], [70, "examples"], [96, "examples"], [141, "examples"]], "Sample topography from a 1/3 arcsecond DEM": [[42, "sample-topography-from-a-1-3-arcsecond-dem"], [70, "sample-topography-from-a-1-3-arcsecond-dem"]], "Creating the force_dry_init array": [[42, "creating-the-force-dry-init-array"]], "Create file to read into GeoClaw": [[42, "create-file-to-read-into-geoclaw"]], "Usage in GeoClaw Fortran code": [[42, "usage-in-geoclaw-fortran-code"]], "Internal GeoClaw modifications": [[42, "internal-geoclaw-modifications"]], "Fortran version": [[43, "fortran-version"]], "Makefiles": [[43, "makefiles"]], "More tips": [[43, "more-tips"]], "Fortran Compilers": [[44, "fortran-compilers"]], "FC environment variable": [[44, "fc-environment-variable"]], "FFLAGS environment variable": [[44, "fflags-environment-variable"]], "LFLAGS environment variable": [[44, "lflags-environment-variable"]], "Pre-Processor and the PPFLAGS environment variable": [[44, "pre-processor-and-the-ppflags-environment-variable"]], "gfortran compiler": [[44, "gfortran-compiler"]], "Intel fortran compiler": [[44, "intel-fortran-compiler"]], "Examples from the book FVMHP": [[45, "examples-from-the-book-fvmhp"]], "Available examples": [[45, "available-examples"]], "Clawpack Gallery": [[46, "clawpack-gallery"]], "Gauges": [[47, "gauges"]], "Gauge parameters in setrun": [[47, "gauge-parameters-in-setrun"]], "Plotting tools": [[47, "plotting-tools"]], "Plotting gauge locations": [[47, "plotting-gauge-locations"]], "GeoClaw Description and Detailed Contents": [[48, "geoclaw-description-and-detailed-contents"]], "GeoClaw in One Space Dimension": [[49, "geoclaw-in-one-space-dimension"]], "Coordinate systems": [[49, "coordinate-systems"]], "Uniform and mapped grids": [[49, "uniform-and-mapped-grids"]], "Topograpy data": [[49, "topograpy-data"]], "Moving topograpy (dtopo) data": [[49, "moving-topograpy-dtopo-data"]], "Getting started with GeoClaw": [[50, "getting-started-with-geoclaw"]], "Running a GeoClaw code": [[50, "running-a-geoclaw-code"]], "Topography": [[50, "topography"]], "Plotting GeoClaw results": [[50, "plotting-geoclaw-results"]], "Setting up a new example": [[50, "setting-up-a-new-example"]], "geoclaw.util module of utility functions": [[51, "geoclaw-util-module-of-utility-functions"]], "Cautionary Hints on using GeoClaw": [[52, "cautionary-hints-on-using-geoclaw"]], "Tsunami hazard modeling": [[52, "tsunami-hazard-modeling"]], "GeoClaw plotting tools": [[53, "geoclaw-plotting-tools"]], "Plotting water depth or surface elevation": [[53, "plotting-water-depth-or-surface-elevation"]], "Tips on latitude-longitude coordinate axes": [[53, "tips-on-latitude-longitude-coordinate-axes"]], "Keeping track of repository versions with Git": [[54, "keeping-track-of-repository-versions-with-git"]], "Visualizing GeoClaw results in Google Earth": [[55, "visualizing-geoclaw-results-in-google-earth"]], "Basic requirements": [[55, "basic-requirements"]], "Optional GDAL library": [[55, "optional-gdal-library"]], "An example : The Chile 2010 tsunami event": [[55, "an-example-the-chile-2010-tsunami-event"]], "Plotting attributes needed for Google Earth": [[55, "plotting-attributes-needed-for-google-earth"]], "plotdata attributes": [[55, "plotdata-attributes"]], "plotfigure attributes": [[55, "plotfigure-attributes"]], "Creating the figures": [[55, "creating-the-figures"]], "plotaxes attributes": [[55, "plotaxes-attributes"]], "plotitem attributes": [[55, "plotitem-attributes"]], "Adding a colorbar overlay": [[55, "adding-a-colorbar-overlay"]], "Gauge plots": [[55, "gauge-plots"]], "Additional plotdata attributes": [[55, "additional-plotdata-attributes"]], "Plotting tips": [[55, "plotting-tips"]], "KML and KMZ files": [[55, "kml-and-kmz-files"]], "Tiling images for faster loading": [[55, "tiling-images-for-faster-loading"]], "Removing aliasing artifacts": [[55, "removing-aliasing-artifacts"]], "Creating multiple figures at different resolutions": [[55, "creating-multiple-figures-at-different-resolutions"]], "Mapping topography data to latitude/longitude coordinates": [[55, "mapping-topography-data-to-latitude-longitude-coordinates"]], "Publishing your results": [[55, "id1"]], "Using the GPU version of Clawpack": [[56, "using-the-gpu-version-of-clawpack"]], "Grid registration": [[57, "grid-registration"]], "NetCDF files": [[57, "netcdf-files"]], "Guide for updating this documentation": [[58, "guide-for-updating-this-documentation"]], "Git branches and tags": [[58, "git-branches-and-tags"]], "Configuration and style files": [[58, "configuration-and-style-files"]], "Updating the docs for a new release": [[58, "updating-the-docs-for-a-new-release"]], "To generate docs including previous versions": [[58, "to-generate-docs-including-previous-versions"]], "Updating for a new major version": [[58, "updating-for-a-new-major-version"]], "Updating the gallery": [[58, "updating-the-gallery"]], "Updating the webpages": [[58, "updating-the-webpages"]], "Extra files for webpages not built by Sphinx": [[58, "extra-files-for-webpages-not-built-by-sphinx"]], "Pages from other clawpack repositories": [[58, "pages-from-other-clawpack-repositories"]], "Guide for doing a Clawpack release": [[59, "guide-for-doing-a-clawpack-release"]], "Preparation": [[59, "preparation"]], "Version numbers": [[59, "version-numbers"]], "Release candidates": [[59, "release-candidates"]], "Create a tar file and a Github release": [[59, "create-a-tar-file-and-a-github-release"]], "Final release": [[59, "final-release"]], "Pypi": [[59, "pypi"]], "Zenodo": [[59, "zenodo"]], "Open Science Framework (OSF)": [[59, "open-science-framework-osf"]], "Updating the documentation": [[59, "updating-the-documentation"]], "Updating the apps repository": [[59, "updating-the-apps-repository"]], "Updating the Dockerfile": [[59, "updating-the-dockerfile"]], "Installing Clawpack": [[60, "installing-clawpack"]], "Next steps:": [[60, "next-steps"], [61, "next-steps"], [62, "next-steps"]], "Options for installing Clawpack Fortran codes": [[61, "options-for-installing-clawpack-fortran-codes"]], "tar file": [[61, "tar-file"]], "git clone": [[61, "git-clone"]], "pip install instructions": [[62, "pip-install-instructions"]], "Quick Installation of PyClaw with pip": [[62, "quick-installation-of-pyclaw-with-pip"]], "Quick Installation of all packages with pip": [[62, "quick-installation-of-all-packages-with-pip"]], "Using pip to install a different version": [[62, "using-pip-to-install-a-different-version"]], "Experimenting with code in the examples directories": [[62, "experimenting-with-code-in-the-examples-directories"]], "Troubleshooting pip install": [[62, "troubleshooting-pip-install"]], "kmltools module of utility functions": [[63, "kmltools-module-of-utility-functions"]], "Lagrangian gauges for particle tracking": [[64, "lagrangian-gauges-for-particle-tracking"]], "Specifying Lagrangian Gauges": [[64, "specifying-lagrangian-gauges"]], "Visclaw tools for plotting": [[64, "visclaw-tools-for-plotting"]], "An alternative using fgout grids": [[64, "an-alternative-using-fgout-grids"]], "Clawpack Makefiles": [[66, "clawpack-makefiles"]], "Applications directory Makefiles": [[66, "applications-directory-makefiles"]], "output": [[66, "output"]], "plots": [[66, "plots"]], "Variables": [[66, "variables"]], "Compiler flags": [[66, "compiler-flags"]], "Duplicate Base Source Name": [[66, "duplicate-base-source-name"]], "Library routines in Makefiles": [[67, "library-routines-in-makefiles"]], "Replacing files with the same name as library files": [[67, "replacing-files-with-the-same-name-as-library-files"]], "Using a modified library routine with a different name": [[67, "using-a-modified-library-routine-with-a-different-name"]], "Manning friction term": [[68, "manning-friction-term"]], "The mapc2p function": [[69, "the-mapc2p-function"]], "Marching Front algorithm": [[70, "marching-front-algorithm"]], "Function arguments": [[70, "function-arguments"]], "output array": [[70, "output-array"]], "creating a masked array": [[70, "creating-a-masked-array"]], "topofile mask for initializing dry points": [[70, "topofile-mask-for-initializing-dry-points"]], "fgmax points": [[70, "fgmax-points"]], "flag regions": [[70, "flag-regions"]], "The mask argument": [[70, "the-mask-argument"]], "The previous_pts_chosen argument": [[70, "the-previous-pts-chosen-argument"]], "Finding all points below a given elevation": [[70, "finding-all-points-below-a-given-elevation"]], "Create a buffer zone along shore": [[70, "create-a-buffer-zone-along-shore"]], "Choose points only near shore": [[70, "choose-points-only-near-shore"]], "Write out the masked array indicating fgmax points": [[70, "write-out-the-masked-array-indicating-fgmax-points"]], "Creating an AMR flag region": [[70, "creating-an-amr-flag-region"]], "Determining dry areas below MHW": [[70, "determining-dry-areas-below-mhw"]], "Plotting using Matlab": [[71, "plotting-using-matlab"]], "The Matlab search path": [[71, "the-matlab-search-path"]], "Creating output files": [[71, "creating-output-files"]], "The plotclaw command": [[71, "the-plotclaw-command"]], "The setplot file": [[71, "the-setplot-file"]], "The afterframe file": [[71, "the-afterframe-file"]], "Getting help": [[71, "getting-help"]], "Trouble shooting": [[71, "trouble-shooting"]], "Output files not found": [[71, "output-files-not-found"]], "MaxFrames not set": [[71, "maxframes-not-set"]], "Switching examples": [[71, "switching-examples"]], "Matlab Gallery": [[71, "matlab-gallery"]], "Nearshore interpolation": [[72, "nearshore-interpolation"]], "Using NetCDF output": [[73, "using-netcdf-output"]], "Creating a new application directory": [[74, "creating-a-new-application-directory"]], "Copying an existing example": [[74, "copying-an-existing-example"]], "Earthquake sources: Fault slip and the Okada model": [[75, "earthquake-sources-fault-slip-and-the-okada-model"]], "Fault slip on rectangular subfaults": [[75, "fault-slip-on-rectangular-subfaults"]], "Okada model": [[75, "okada-model"]], "Kinematic rupture": [[75, "kinematic-rupture"]], "Fault slip on triangular subfaults": [[75, "fault-slip-on-triangular-subfaults"]], "Using OpenMP": [[76, "using-openmp"]], "Using OpenMP with AMR": [[76, "using-openmp-with-amr"]], "Fixed grid output in GeoClaw": [[76, "fixed-grid-output-in-geoclaw"]], "Output data sytles and formats": [[77, "output-data-sytles-and-formats"]], "Output style": [[77, "output-style"]], "Output data formats": [[77, "output-data-formats"]], "ASCII output data format": [[77, "ascii-output-data-format"]], "fort.t0002": [[77, "fort-t0002"]], "fort.q0002": [[77, "fort-q0002"]], "Raw binary output data formats": [[77, "raw-binary-output-data-formats"]], "NetCDF output data format": [[77, "netcdf-output-data-format"]], "Output of aux arrays": [[77, "output-of-aux-arrays"]], "Which Clawpack solver should I use?": [[78, "which-clawpack-solver-should-i-use"]], "Installation and user interface": [[78, "installation-and-user-interface"]], "Algorithmic differences": [[78, "algorithmic-differences"]], "Parallel computing": [[78, "parallel-computing"]], "Clawpack Community Photos": [[79, "clawpack-community-photos"]], "2016 Developers\u2019 workshop at University of Washington": [[79, "id1"]], "2015 Developers\u2019 workshop at University of Utah": [[79, "id2"]], "2014 HPC3 workshop at KAUST": [[79, "id3"]], "2013 Claw-Dev workshop at UW": [[79, "id4"]], "2012 HPC3 workshop at KAUST": [[79, "id6"]], "2011 coding sprints at UW": [[79, "coding-sprints-at-uw"]], "2010 GeoClaw hacking UW": [[79, "geoclaw-hacking-uw"]], "Plotting examples": [[80, "plotting-examples"]], "Plotting with Visclaw": [[81, "plotting-with-visclaw"]], "Plotting as post-processing": [[81, "plotting-as-post-processing"]], "Plotting on the fly": [[81, "plotting-on-the-fly"]], "Plotting hints and FAQ": [[82, "plotting-hints-and-faq"]], "What\u2019s the difference between make .plots and make plots ?": [[82, "what-s-the-difference-between-make-plots-and-make-plots"]], "How to plot a something other than a component of q?": [[82, "how-to-plot-a-something-other-than-a-component-of-q"]], "How to add another curve to a plot, e.g. the true solution?": [[82, "how-to-add-another-curve-to-a-plot-e-g-the-true-solution"]], "How to change the title in a plot?": [[82, "how-to-change-the-title-in-a-plot"]], "How to specify outdir, the directory to find fort.* files for plotting?": [[82, "how-to-specify-outdir-the-directory-to-find-fort-files-for-plotting"]], "How to specify a different outdir for some plot item?": [[82, "how-to-specify-a-different-outdir-for-some-plot-item"]], "How to set plot parameters that are not provided as attributes of ClawPlotItem?": [[82, "how-to-set-plot-parameters-that-are-not-provided-as-attributes-of-clawplotitem"]], "How to change the size or background color of a figure?": [[82, "how-to-change-the-size-or-background-color-of-a-figure"]], "Specifying colormaps for pcolor or contourf plots": [[82, "specifying-colormaps-for-pcolor-or-contourf-plots"]], "How to debug setplot.py?": [[82, "how-to-debug-setplot-py"]], "Plotting routines for GeoClaw": [[83, "plotting-routines-for-geoclaw"]], "Plotting options in Python": [[84, "plotting-options-in-python"]], "Producing html plots from the command line": [[84, "producing-html-plots-from-the-command-line"]], "Producing a latex file with plots from the command line": [[84, "producing-a-latex-file-with-plots-from-the-command-line"]], "Setting plot parameters with a setplot function": [[84, "setting-plot-parameters-with-a-setplot-function"]], "Interactive plotting with Iplotclaw": [[84, "interactive-plotting-with-iplotclaw"]], "Access to current_data": [[84, "access-to-current-data"]], "printframes": [[84, "printframes"]], "Specifying what and how to plot": [[84, "specifying-what-and-how-to-plot"]], "Installation Prerequisites": [[85, "installation-prerequisites"]], "Operating system": [[85, "operating-system"]], "Fortran": [[85, "fortran"]], "Python": [[85, "python"]], "pip": [[85, "pip"]], "Git": [[85, "git"]], "About PyClaw": [[86, "about-pyclaw"]], "Contributors": [[86, "contributors"]], "PyClaw Basics": [[87, "pyclaw-basics"]], "Understanding Pyclaw Classes": [[88, "understanding-pyclaw-classes"]], "Flow of a Pyclaw Simulation": [[88, "flow-of-a-pyclaw-simulation"]], "Creation of a Pyclaw Solution": [[88, "creation-of-a-pyclaw-solution"]], "Creation of a Pyclaw Solver": [[88, "creation-of-a-pyclaw-solver"]], "Creating and Running a Simulation with Controller": [[88, "creating-and-running-a-simulation-with-controller"]], "Restarting a simulation": [[88, "restarting-a-simulation"]], "Outputting aux values": [[88, "outputting-aux-values"]], "Outputting derived quantities": [[88, "outputting-derived-quantities"], [98, "outputting-derived-quantities"]], "Porting a problem from Clawpack 4.6.x to PyClaw": [[89, "porting-a-problem-from-clawpack-4-6-x-to-pyclaw"]], "Running PyClaw in the cloud": [[90, "running-pyclaw-in-the-cloud"]], "Sage Math Cloud": [[90, "sage-math-cloud"]], "Pyclaw Controller Class": [[91, "pyclaw-controller-class"]], "pyclaw.controller.Controller": [[91, "pyclaw-controller-controller"]], "Pyclaw Limiters": [[92, "pyclaw-limiters"]], "clawpack.pyclaw.limiters.tvd": [[92, "module-clawpack.pyclaw.limiters.tvd"]], "CFL Independent Limiters": [[92, "cfl-independent-limiters"]], "CFL Dependent Limiters": [[92, "cfl-dependent-limiters"]], "Working with PyClaw\u2019s built-in examples": [[93, "working-with-pyclaw-s-built-in-examples"]], "Running and plotting examples": [[93, "running-and-plotting-examples"]], "Interactively in IPython": [[93, "interactively-in-ipython"]], "Built-in examples": [[93, "built-in-examples"]], "Adding new examples": [[93, "adding-new-examples"]], "PyClaw Geometry": [[94, "pyclaw-geometry"]], "Serial Geometry Objects": [[94, "serial-geometry-objects"]], "pyclaw.geometry.Domain": [[94, "pyclaw-geometry-domain"]], "pyclaw.geometry.Patch": [[94, "pyclaw-geometry-patch"]], "pyclaw.geometry.Grid": [[94, "pyclaw-geometry-grid"]], "pyclaw.geometry.Dimension": [[94, "pyclaw-geometry-dimension"]], "Parallel Geometry Objects": [[94, "parallel-geometry-objects"]], "petclaw.geometry.Domain": [[94, "petclaw-geometry-domain"]], "petclaw.geometry.Patch": [[94, "petclaw-geometry-patch"]], "Going Further": [[95, "going-further"]], "PyClaw installation": [[96, "pyclaw-installation"]], "Features": [[96, "features"]], "PyClaw Documentation": [[96, "pyclaw-documentation"]], "PyClaw Modules reference documentation": [[96, "pyclaw-modules-reference-documentation"]], "Riemann Solvers reference documentation": [[96, "riemann-solvers-reference-documentation"]], "Indices and tables": [[96, "indices-and-tables"]], "Citing PyClaw": [[96, "citing-pyclaw"]], "Pyclaw Input/Output Package": [[97, "pyclaw-input-output-package"]], "pyclaw.fileio.ascii": [[97, "module-clawpack.pyclaw.fileio.ascii"]], "pyclaw.fileio.binary": [[97, "module-clawpack.pyclaw.fileio.binary"]], "pyclaw.fileio.hdf5": [[97, "pyclaw-fileio-hdf5"]], "pyclaw.fileio.netcdf": [[97, "module-clawpack.pyclaw.fileio.netcdf"]], "PyClaw output": [[98, "pyclaw-output"]], "Output frames": [[98, "output-frames"]], "When output is saved/written": [[98, "when-output-is-saved-written"]], "Where and how output is written": [[98, "where-and-how-output-is-written"]], "What output is written": [[98, "what-output-is-written"]], "Outputting functionals": [[98, "outputting-functionals"]], "Using gauges": [[98, "using-gauges"]], "Logging": [[98, "logging"]], "Running in parallel": [[99, "running-in-parallel"]], "Installing PETSc": [[99, "installing-petsc"]], "Testing your installation": [[99, "testing-your-installation"], [159, "testing-your-installation"]], "Running and plotting an example": [[99, "running-and-plotting-an-example"]], "Tips for making your application run correctly in parallel": [[99, "tips-for-making-your-application-run-correctly-in-parallel"]], "Passing options to PETSc": [[99, "passing-options-to-petsc"]], "Plotting PyClaw results": [[100, "plotting-pyclaw-results"]], "Basics": [[100, "basics"]], "Plotting result from parallel runs": [[100, "plotting-result-from-parallel-runs"]], "Setting up your own problem": [[101, "setting-up-your-own-problem"]], "Writing the initialization script": [[101, "writing-the-initialization-script"]], "Setting initial conditions": [[101, "setting-initial-conditions"]], "Setting auxiliary variables": [[101, "setting-auxiliary-variables"]], "Setting boundary conditions": [[101, "setting-boundary-conditions"]], "Setting solver options": [[101, "setting-solver-options"]], "Using your own Riemann solver": [[101, "using-your-own-riemann-solver"]], "Adding source terms": [[101, "adding-source-terms"]], "Setting up the Makefile": [[101, "setting-up-the-makefile"]], "Riemann Solver Package": [[102, "riemann-solver-package"]], "Acoustics": [[102, "acoustics"]], "Advection": [[102, "advection"]], "Burgers Equation": [[102, "burgers-equation"]], "Euler Equations": [[102, "euler-equations"]], "Shallow Water Equations": [[102, "shallow-water-equations"]], "PyClaw Solutions": [[103, "pyclaw-solutions"]], "pyclaw.solution.Solution": [[103, "pyclaw-solution-solution"]], "Using PyClaw\u2019s solvers: Classic and SharpClaw": [[104, "using-pyclaw-s-solvers-classic-and-sharpclaw"]], "SharpClaw Solvers": [[104, "sharpclaw-solvers"]], "pyclaw.sharpclaw": [[104, "pyclaw-sharpclaw"]], "Pyclaw Classic Clawpack Solvers": [[104, "pyclaw-classic-clawpack-solvers"]], "pyclaw.classic.solver": [[104, "pyclaw-classic-solver"]], "Change to Custom BC Function Signatures": [[104, "change-to-custom-bc-function-signatures"]], "Installing PyClaw": [[105, "installing-pyclaw"]], "Dependencies: Python, gfortran, numpy, and matplotlib": [[105, "dependencies-python-gfortran-numpy-and-matplotlib"]], "Obtaining Python, numpy, and matplotlib": [[105, "obtaining-python-numpy-and-matplotlib"]], "Clawpack": [[105, "clawpack"]], "Testing your installation with nose": [[105, "testing-your-installation-with-nose"]], "Next steps": [[105, "next-steps"]], "PyClaw State": [[106, "pyclaw-state"]], "Serial pyclaw.state.State": [[106, "serial-pyclaw-state-state"]], "Parallel petclaw.state.State": [[106, "parallel-petclaw-state-state"]], "Troubleshooting": [[107, "troubleshooting"], [164, "troubleshooting"]], "Compilation errors": [[107, "compilation-errors"]], "Use Fortran-ordered arrays": [[107, "use-fortran-ordered-arrays"]], "Installation": [[107, "installation"]], "PyClaw tutorial: Solve the acoustics equations": [[108, "pyclaw-tutorial-solve-the-acoustics-equations"]], "The Solver": [[108, "the-solver"]], "The domain": [[108, "the-domain"]], "Initial condition": [[108, "initial-condition"]], "Problem-specific parameters": [[108, "problem-specific-parameters"]], "The controller": [[108, "the-controller"]], "Pyclaw Utility Module": [[109, "pyclaw-utility-module"]], "pyclaw.util": [[109, "module-clawpack.pyclaw.util"]], "Python Hints": [[110, "python-hints"]], "Dropping support for Python 2.7": [[110, "dropping-support-for-python-2-7"]], "References and tutorials": [[110, "references-and-tutorials"]], "Notebooks": [[110, "notebooks"]], "Python path": [[111, "python-path"]], "whichclaw.py": [[111, "whichclaw-py"]], "Which version was imported?": [[111, "which-version-was-imported"]], "sys.path": [[111, "sys-path"]], "easy-install.pth": [[111, "easy-install-pth"]], "PYTHONPATH": [[111, "pythonpath"], [145, "pythonpath"]], "qinit default routines": [[112, "qinit-default-routines"]], "qinit routine in GeoClaw": [[112, "qinit-routine-in-geoclaw"]], "Quick start guide for storm surge modeling": [[113, "quick-start-guide-for-storm-surge-modeling"]], "Quick start guide for tsunami modeling": [[114, "quick-start-guide-for-tsunami-modeling"]], "AMR refinement criteria": [[115, "amr-refinement-criteria"]], "Flagging criteria": [[115, "flagging-criteria"]], "flag2refine": [[115, "flag2refine"]], "Richardson extrapolation": [[115, "richardson-extrapolation"]], "Specifying AMR regions": [[115, "specifying-amr-regions"]], "Implementation": [[115, "implementation"]], "Flagging criteria in GeoClaw": [[115, "flagging-criteria-in-geoclaw"]], "Regression testing": [[116, "regression-testing"]], "Running the tests": [[116, "running-the-tests"], [116, "id2"]], "Fortran codes": [[116, "fortran-codes"]], "Travis continuous integration": [[116, "travis-continuous-integration"]], "Diff tools for checking test output": [[116, "diff-tools-for-checking-test-output"]], "chardiff tool for line-by-line comparison of output files": [[116, "chardiff-tool-for-line-by-line-comparison-of-output-files"]], "imagediff tool for pixel comparison of plots": [[116, "imagediff-tool-for-pixel-comparison-of-plots"]], "Running and writing tests in PyClaw": [[116, "running-and-writing-tests-in-pyclaw"]], "Running serial tests simultaneously": [[116, "running-serial-tests-simultaneously"]], "Running a specific test": [[116, "running-a-specific-test"]], "Doctests": [[116, "doctests"]], "Writing New Tests": [[116, "writing-new-tests"]], "v5.0.0 release notes": [[117, "v5-0-0-release-notes"]], "Changes to classic, riemann, amrclaw, geoclaw, visclaw": [[117, "changes-to-classic-riemann-amrclaw-geoclaw-visclaw"]], "v5.1.0 release notes": [[118, "v5-1-0-release-notes"]], "v5.2.0 release notes": [[119, "v5-2-0-release-notes"]], "v5.2.1 release notes": [[120, "v5-2-1-release-notes"]], "v5.2.2 release notes": [[121, "v5-2-2-release-notes"]], "v5.3.0 release notes": [[122, "v5-3-0-release-notes"]], "v5.3.1 release notes": [[123, "v5-3-1-release-notes"]], "v5.4.0 release notes": [[124, "v5-4-0-release-notes"]], "Global changes": [[124, "global-changes"]], "v5.4.1 release notes": [[125, "v5-4-1-release-notes"]], "Changes to documentation": [[125, "changes-to-documentation"], [126, "changes-to-documentation"]], "v5.5.0 release notes": [[126, "v5-5-0-release-notes"]], "v5.6.0 release notes": [[127, "v5-6-0-release-notes"]], "v5.6.1 release notes": [[128, "v5-6-1-release-notes"]], "v5.7.0 release notes": [[129, "v5-7-0-release-notes"]], "Python support": [[129, "python-support"]], "v5.7.1 release notes": [[130, "v5-7-1-release-notes"]], "v5.8.0 release notes": [[131, "v5-8-0-release-notes"]], "v5.8.1 release notes": [[132, "v5-8-1-release-notes"]], "v5.8.2 release notes": [[133, "v5-8-2-release-notes"]], "v5.9.0 release notes": [[134, "v5-9-0-release-notes"]], "v5.9.1 release notes": [[135, "v5-9-1-release-notes"]], "v5.9.2 release notes": [[136, "v5-9-2-release-notes"]], "Releases of Clawpack and release notes": [[137, "releases-of-clawpack-and-release-notes"]], "Other notes:": [[137, "other-notes"]], "Releases:": [[137, "id1"]], "Clawpack 4.x": [[137, "clawpack-4-x"]], "Checkpointing and restarting": [[138, "checkpointing-and-restarting"]], "Checkpointing a computation": [[138, "checkpointing-a-computation"]], "Restarting a computation": [[138, "restarting-a-computation"]], "Modifying the Makefile for a restart": [[138, "modifying-the-makefile-for-a-restart"]], "Output files after a restart": [[138, "output-files-after-a-restart"]], "Riemann solvers": [[139, "riemann-solvers"]], "One-dimensional Riemann solver": [[139, "one-dimensional-riemann-solver"]], "Pointwise Riemann solvers": [[139, "pointwise-riemann-solvers"]], "f-wave Riemann solvers": [[139, "f-wave-riemann-solvers"]], "2D Riemann solvers": [[139, "d-riemann-solvers"]], "Using a custom solver": [[139, "using-a-custom-solver"]], "Adding a solver to the Riemann repository": [[139, "adding-a-solver-to-the-riemann-repository"]], "Shallow water Riemann solvers in Clawpack": [[140, "shallow-water-riemann-solvers-in-clawpack"]], "One dimension": [[140, "one-dimension"]], "Two dimensions": [[140, "two-dimensions"]], "Layered shallow water equations": [[140, "layered-shallow-water-equations"]], "Potentially useful contributions (what\u2019s missing)": [[140, "potentially-useful-contributions-whats-missing"]], "Demonstrations": [[140, "demonstrations"]], "Roe": [[140, "roe"]], "HLL": [[140, "hll"]], "Ruled Rectangles": [[141, "ruled-rectangles"]], "Relation to convex polygons": [[141, "relation-to-convex-polygons"]], "Other attributes and methods": [[141, "other-attributes-and-methods"]], "ds": [[141, "ds"]], "slu": [[141, "slu"]], "bounding_box": [[141, "bounding-box"]], "mask_outside": [[141, "mask-outside"]], "read and write, and instantiating from a file": [[141, "read-and-write-and-instantiating-from-a-file"]], "make_kml": [[141, "make-kml"]], "A GeoClaw AMR flag region": [[141, "a-geoclaw-amr-flag-region"]], "A simple rectangle": [[141, "a-simple-rectangle"]], "Defining a Ruled Rectangle covering selected cells": [[141, "defining-a-ruled-rectangle-covering-selected-cells"]], "Example covering the continental shelf": [[141, "example-covering-the-continental-shelf"]], "Setting sea_level": [[142, "setting-sea-level"]], "Set Eta Init \u2013 spatially varying initial surface elevation": [[143, "set-eta-init-spatially-varying-initial-surface-elevation"]], "Default behavior, adjusting sea level by seismic deformation": [[143, "default-behavior-adjusting-sea-level-by-seismic-deformation"]], "Other use cases": [[143, "other-use-cases"]], "setaux default routines": [[144, "setaux-default-routines"]], "setaux routine in GeoClaw": [[144, "setaux-routine-in-geoclaw"]], "Set environment variables": [[145, "set-environment-variables"]], "CLAW": [[145, "claw"]], "FC": [[145, "fc"]], "Using setplot.py to specify the desired plots": [[146, "using-setplot-py-to-specify-the-desired-plots"]], "Plotting Data Objects": [[146, "plotting-data-objects"]], "Overview": [[146, "overview"]], "Specifying classic run-time parameters in setrun.py": [[147, "specifying-classic-run-time-parameters-in-setrun-py"]], "Input": [[147, "input"], [148, "input"]], "Output": [[147, "output"], [148, "output"]], "Run-time parameters": [[147, "run-time-parameters"], [148, "run-time-parameters"]], "Specifying AMRClaw run-time parameters in setrun.py": [[148, "specifying-amrclaw-run-time-parameters-in-setrun-py"]], "Special AMR parameters": [[148, "special-amr-parameters"]], "Debugging flags for additional printing": [[148, "debugging-flags-for-additional-printing"]], "Sample setrun.py module for AMRClaw": [[149, "sample-setrun-py-module-for-amrclaw"]], "Specifying GeoClaw parameters in setrun.py": [[150, "specifying-geoclaw-parameters-in-setrun-py"]], "Additional AMR parameters": [[150, "additional-amr-parameters"]], "General geo parameters": [[150, "general-geo-parameters"]], "Topography data file parameters": [[150, "topography-data-file-parameters"]], "qinit data file parameters": [[150, "qinit-data-file-parameters"]], "Force some cells to be initially dry": [[150, "force-some-cells-to-be-initially-dry"]], "Adjust sea level in some regions": [[150, "adjust-sea-level-in-some-regions"]], "AMR refinement region parameters": [[150, "amr-refinement-region-parameters"]], "Deprecated Fixedgrid output parameters": [[150, "deprecated-fixedgrid-output-parameters"]], "Fixed grid maximum monitoring / arrival times": [[150, "fixed-grid-maximum-monitoring-arrival-times"]], "Storm Specification Data": [[150, "storm-specification-data"]], "Sample setrun.py module for classic Clawpack": [[151, "sample-setrun-py-module-for-classic-clawpack"]], "Saving and sharing results": [[152, "saving-and-sharing-results"]], "Making webpages of plots": [[152, "making-webpages-of-plots"]], "Sharing your results": [[152, "sharing-your-results"]], "Jupyter notebooks": [[152, "jupyter-notebooks"]], "Source terms for shallow water on the sphere": [[153, "source-terms-for-shallow-water-on-the-sphere"]], "Compiling the Sphinx documentation locally": [[154, "compiling-the-sphinx-documentation-locally"]], "src1d default routines": [[155, "src1d-default-routines"]], "src1d routine in GeoClaw": [[155, "src1d-routine-in-geoclaw"]], "src default routines": [[156, "src-default-routines"]], "src routine in GeoClaw": [[156, "src-routine-in-geoclaw"]], "Storm Specification Class and Tools": [[157, "storm-specification-class-and-tools"]], "Sources for Storm Surge Data": [[158, "sources-for-storm-surge-data"]], "Timing Statistics": [[160, "timing-statistics"]], "Topography data": [[161, "topography-data"]], "Downloading topography files": [[161, "downloading-topography-files"]], "NetCDF format": [[161, "netcdf-format"]], "Topography displacement files": [[161, "topography-displacement-files"]], "qinit data file": [[161, "qinit-data-file"]], "Python tools for working with topo and dtopo": [[162, "python-tools-for-working-with-topo-and-dtopo"]], "topotools module for working with topography data": [[163, "topotools-module-for-working-with-topography-data"]], "Troubleshooting Installation": [[164, "troubleshooting-installation"]], "Troubleshooting Fortran:": [[164, "troubleshooting-fortran"]], "Setting the Fortran compiler to be used by f2py (pip)": [[164, "setting-the-fortran-compiler-to-be-used-by-f2py-pip"]], "Trouble compiling Fortran code at the command line": [[164, "trouble-compiling-fortran-code-at-the-command-line"]], "Trouble running \u201cmake .exe\u201d": [[164, "trouble-running-make-exe"]], "Trouble running \u201cmake .data\u201d": [[164, "trouble-running-make-data"]], "Trouble running \u201cmake .output\u201d": [[164, "trouble-running-make-output"]], "Trouble running \u201cmake .plots\u201d": [[164, "trouble-running-make-plots"]], "Some sources of tsunami data": [[165, "some-sources-of-tsunami-data"]], "Topography / bathymetry": [[165, "topography-bathymetry"]], "Earthquake source models": [[165, "earthquake-source-models"]], "DART buoy data": [[165, "dart-buoy-data"]], "Tide gauges": [[165, "tide-gauges"]], "User files required for the Fortran code": [[166, "user-files-required-for-the-fortran-code"]], "Specifying the initial conditions": [[166, "specifying-the-initial-conditions"]], "Specifying the Riemann solver": [[166, "specifying-the-riemann-solver"]], "Specifying boundary conditions": [[166, "specifying-boundary-conditions"]], "Specifying problem-specific data": [[166, "specifying-problem-specific-data"]], "Specifying spatially-varying data using setaux": [[166, "specifying-spatially-varying-data-using-setaux"]], "Using b4step for work to be done before each time step": [[166, 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"clawpack.geoclaw.dtopotools.SubFault.length"]], "longitude (clawpack.geoclaw.dtopotools.subfault attribute)": [[32, "clawpack.geoclaw.dtopotools.SubFault.longitude"]], "module": [[32, "module-clawpack.geoclaw.dtopotools"], [35, "module-clawpack.geoclaw.fgmax_tools"], [37, "module-clawpack.geoclaw.fgout_tools"], [51, "module-clawpack.geoclaw.util"], [63, "module-clawpack.geoclaw.kmltools"], [92, "module-clawpack.pyclaw.limiters.tvd"], [97, "module-clawpack.pyclaw.fileio.ascii"], [97, "module-clawpack.pyclaw.fileio.binary"], [97, "module-clawpack.pyclaw.fileio.netcdf"], [102, "module-clawpack.riemann.acoustics_1D_py"], [102, "module-clawpack.riemann.advection_1D_py"], [102, "module-clawpack.riemann.burgers_1D_py"], [102, "module-clawpack.riemann.euler_1D_py"], [102, "module-clawpack.riemann.shallow_1D_py"], [109, "module-clawpack.pyclaw.util"], [157, "module-clawpack.geoclaw.surge.storm"], [163, "module-clawpack.geoclaw.topotools"]], "mu (clawpack.geoclaw.dtopotools.subfault 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"clawpack.geoclaw.fgout_tools.FGoutFrame.hss"]], "hu (clawpack.geoclaw.fgout_tools.fgoutframe property)": [[37, "clawpack.geoclaw.fgout_tools.FGoutFrame.hu"]], "hv (clawpack.geoclaw.fgout_tools.fgoutframe property)": [[37, "clawpack.geoclaw.fgout_tools.FGoutFrame.hv"]], "make_fgout_fcn_xy() (in module clawpack.geoclaw.fgout_tools)": [[37, "clawpack.geoclaw.fgout_tools.make_fgout_fcn_xy"]], "make_fgout_fcn_xyt() (in module clawpack.geoclaw.fgout_tools)": [[37, "clawpack.geoclaw.fgout_tools.make_fgout_fcn_xyt"]], "print_netcdf_info() (in module clawpack.geoclaw.fgout_tools)": [[37, "clawpack.geoclaw.fgout_tools.print_netcdf_info"]], "read_fgout_grids_data() (clawpack.geoclaw.fgout_tools.fgoutgrid method)": [[37, "clawpack.geoclaw.fgout_tools.FGoutGrid.read_fgout_grids_data"]], "read_frame() (clawpack.geoclaw.fgout_tools.fgoutgrid method)": [[37, "clawpack.geoclaw.fgout_tools.FGoutGrid.read_frame"]], "read_netcdf() (in module clawpack.geoclaw.fgout_tools)": [[37, "clawpack.geoclaw.fgout_tools.read_netcdf"]], "read_netcdf_arrays() (in module clawpack.geoclaw.fgout_tools)": [[37, "clawpack.geoclaw.fgout_tools.read_netcdf_arrays"]], "s (clawpack.geoclaw.fgout_tools.fgoutframe property)": [[37, "clawpack.geoclaw.fgout_tools.FGoutFrame.s"]], "set_plotdata() (clawpack.geoclaw.fgout_tools.fgoutgrid method)": [[37, "clawpack.geoclaw.fgout_tools.FGoutGrid.set_plotdata"]], "u (clawpack.geoclaw.fgout_tools.fgoutframe property)": [[37, "clawpack.geoclaw.fgout_tools.FGoutFrame.u"]], "v (clawpack.geoclaw.fgout_tools.fgoutframe property)": [[37, "clawpack.geoclaw.fgout_tools.FGoutFrame.v"]], "write_netcdf() (in module clawpack.geoclaw.fgout_tools)": [[37, "clawpack.geoclaw.fgout_tools.write_netcdf"]], "write_to_fgout_data() (clawpack.geoclaw.fgout_tools.fgoutgrid method)": [[37, "clawpack.geoclaw.fgout_tools.FGoutGrid.write_to_fgout_data"]], "bearing() (in module clawpack.geoclaw.util)": [[51, "clawpack.geoclaw.util.bearing"]], "clawpack.geoclaw.util": [[51, 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attribute)": [[91, "clawpack.pyclaw.controller.Controller.output_style"]], "overwrite (clawpack.pyclaw.controller.controller attribute)": [[91, "clawpack.pyclaw.controller.Controller.overwrite"]], "plot() (clawpack.pyclaw.controller.controller method)": [[91, "clawpack.pyclaw.controller.Controller.plot"]], "plotdata (clawpack.pyclaw.controller.controller attribute)": [[91, "clawpack.pyclaw.controller.Controller.plotdata"]], "run() (clawpack.pyclaw.controller.controller method)": [[91, "clawpack.pyclaw.controller.Controller.run"]], "rundir (clawpack.pyclaw.controller.controller attribute)": [[91, "clawpack.pyclaw.controller.Controller.rundir"]], "runmake (clawpack.pyclaw.controller.controller attribute)": [[91, "clawpack.pyclaw.controller.Controller.runmake"]], "savecode (clawpack.pyclaw.controller.controller attribute)": [[91, "clawpack.pyclaw.controller.Controller.savecode"]], "solver (clawpack.pyclaw.controller.controller attribute)": [[91, "clawpack.pyclaw.controller.Controller.solver"]], "tfinal (clawpack.pyclaw.controller.controller attribute)": [[91, "clawpack.pyclaw.controller.Controller.tfinal"]], "verbosity (clawpack.pyclaw.controller.controller property)": [[91, "clawpack.pyclaw.controller.Controller.verbosity"]], "viewable_attributes (clawpack.pyclaw.controller.controller attribute)": [[91, "clawpack.pyclaw.controller.Controller.viewable_attributes"]], "write_aux_always (clawpack.pyclaw.controller.controller attribute)": [[91, "clawpack.pyclaw.controller.Controller.write_aux_always"]], "write_aux_init (clawpack.pyclaw.controller.controller attribute)": [[91, "clawpack.pyclaw.controller.Controller.write_aux_init"]], "xclawcmd (clawpack.pyclaw.controller.controller attribute)": [[91, "clawpack.pyclaw.controller.Controller.xclawcmd"]], "xclawerr (clawpack.pyclaw.controller.controller attribute)": [[91, "clawpack.pyclaw.controller.Controller.xclawerr"]], "xclawout (clawpack.pyclaw.controller.controller attribute)": 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"hyperbee_limiter() (in module clawpack.pyclaw.limiters.tvd)": [[92, "clawpack.pyclaw.limiters.tvd.hyperbee_limiter"]], "limit() (in module clawpack.pyclaw.limiters.tvd)": [[92, "clawpack.pyclaw.limiters.tvd.limit"]], "mc_limiter() (in module clawpack.pyclaw.limiters.tvd)": [[92, "clawpack.pyclaw.limiters.tvd.mc_limiter"]], "minmod_limiter() (in module clawpack.pyclaw.limiters.tvd)": [[92, "clawpack.pyclaw.limiters.tvd.minmod_limiter"]], "superbee_limiter() (in module clawpack.pyclaw.limiters.tvd)": [[92, "clawpack.pyclaw.limiters.tvd.superbee_limiter"]], "superpower_limiter() (in module clawpack.pyclaw.limiters.tvd)": [[92, "clawpack.pyclaw.limiters.tvd.superpower_limiter"]], "theta_limiter() (in module clawpack.pyclaw.limiters.tvd)": [[92, "clawpack.pyclaw.limiters.tvd.theta_limiter"]], "upper_bound_limiter() (in module clawpack.pyclaw.limiters.tvd)": [[92, "clawpack.pyclaw.limiters.tvd.upper_bound_limiter"]], "van_leer_klein_sharpening_limiter() (in module 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"out": [3, 16, 26, 28, 31, 32, 34, 36, 37, 38, 39, 42, 47, 48, 49, 54, 56, 57, 58, 59, 62, 63, 64, 65, 66, 71, 75, 82, 85, 86, 88, 89, 91, 97, 98, 99, 100, 103, 108, 110, 111, 113, 116, 124, 126, 128, 129, 139, 141, 148, 149, 151, 157, 163, 164], "lower": [3, 24, 32, 34, 35, 41, 49, 57, 70, 77, 94, 99, 141, 143, 147, 149, 151, 161, 163, 165], "left": [3, 5, 10, 13, 16, 20, 27, 29, 32, 34, 57, 77, 84, 94, 101, 102, 108, 125, 131, 134, 135, 136, 137, 138, 139, 142, 148, 161, 163, 165, 169], "mappedgrid": [3, 71], "map": [3, 16, 18, 31, 32, 42, 48, 63, 70, 71, 82, 86, 89, 94, 96, 101, 115, 122, 126, 131, 140, 163, 169], "mapc2p": [3, 27, 29, 49, 71, 89, 94, 131], "underli": [3, 55, 124], "requir": [3, 4, 16, 18, 22, 24, 27, 29, 32, 34, 36, 37, 38, 39, 43, 48, 49, 51, 52, 59, 62, 70, 71, 75, 78, 81, 84, 85, 88, 89, 94, 97, 100, 101, 104, 105, 106, 108, 109, 110, 115, 116, 118, 119, 122, 124, 127, 129, 131, 134, 136, 139, 140, 141, 146, 147, 148, 149, 150, 151, 157, 158, 161, 164, 167, 169], "depend": [3, 13, 16, 30, 31, 32, 34, 37, 38, 39, 43, 44, 50, 52, 55, 66, 68, 71, 75, 82, 87, 97, 102, 103, 104, 109, 111, 115, 126, 143, 148, 150, 163, 164, 166, 169], "summar": [3, 30, 33, 115, 117, 166], "plotstyl": [3, 47, 82, 146], "anyth": [3, 6, 30, 31, 62, 67, 116, 126], "valid": [3, 52, 75, 91, 98, 103, 106, 124, 150, 157, 158, 163], "fmt": 3, "group": [3, 13, 26, 30, 32, 52, 93, 97, 99, 107, 123, 139], "solid": [3, 16, 55, 75, 101, 146, 147, 149, 151], "dash": [3, 99], "o": [3, 5, 17, 41, 42, 43, 70, 72, 82, 85, 86, 89, 97, 98, 107, 126, 149, 163, 166], "circl": [3, 51, 82], "bo": 3, "blue": [3, 11, 42, 47, 63, 70, 82, 141, 163], "though": [3, 42, 78, 157, 161], "also": [3, 4, 5, 6, 7, 8, 9, 11, 12, 16, 17, 18, 20, 22, 24, 25, 26, 27, 30, 31, 32, 34, 35, 36, 37, 38, 39, 40, 41, 42, 44, 45, 46, 47, 49, 51, 52, 55, 56, 57, 58, 59, 60, 61, 62, 63, 64, 66, 67, 70, 71, 75, 76, 77, 78, 81, 82, 84, 88, 90, 91, 94, 96, 97, 98, 99, 101, 102, 103, 104, 105, 106, 107, 108, 109, 110, 111, 112, 113, 114, 115, 116, 118, 123, 124, 125, 126, 127, 128, 129, 130, 131, 132, 133, 134, 135, 136, 137, 138, 139, 140, 141, 142, 143, 145, 147, 148, 149, 150, 151, 152, 155, 156, 157, 158, 159, 160, 161, 163, 164, 165, 166, 168, 169], "overrul": 3, "r": [3, 4, 6, 17, 47, 51, 56, 58, 70, 71, 74, 82, 88, 92, 99, 101, 139, 141, 146, 163, 169], "ff0000": [3, 63], "No": [3, 43, 55, 59, 71, 94, 104, 132, 139, 147, 150, 164], "extra": [3, 55, 140], "give": [3, 6, 9, 10, 13, 16, 18, 26, 30, 32, 34, 35, 36, 38, 39, 47, 49, 56, 63, 64, 70, 72, 75, 76, 77, 82, 84, 99, 100, 104, 116, 119, 123, 124, 128, 131, 141, 147, 150, 161, 163, 165], "polygon": [3, 7, 41, 55, 63, 129, 163], "curv": [3, 47, 81, 141], "fill_between": 3, "plot_var2": 3, "zero": [3, 16, 32, 34, 42, 44, 47, 63, 71, 72, 88, 101, 102, 106, 108, 131, 141, 142], "fill_wher": 3, "plotitem": [3, 29, 47, 82, 146], "mean": [3, 13, 24, 30, 34, 42, 47, 52, 56, 62, 71, 72, 98, 99, 115, 139, 142, 147, 149, 151, 165], "map_2d_to_1d": 3, "In": [3, 5, 6, 8, 11, 12, 15, 16, 21, 22, 24, 29, 32, 34, 36, 41, 44, 47, 48, 49, 52, 55, 56, 57, 58, 59, 62, 63, 64, 66, 67, 70, 71, 72, 74, 75, 77, 78, 82, 83, 84, 88, 89, 94, 96, 97, 98, 99, 100, 101, 102, 104, 106, 109, 111, 112, 113, 115, 118, 119, 122, 123, 124, 126, 127, 131, 135, 138, 139, 141, 143, 144, 145, 147, 148, 150, 153, 155, 156, 161, 163, 164, 166, 169], "about": [3, 5, 7, 13, 14, 16, 18, 24, 27, 35, 36, 37, 38, 39, 43, 49, 51, 52, 57, 59, 63, 66, 68, 71, 77, 83, 85, 88, 96, 97, 99, 104, 111, 116, 123, 127, 129, 134, 135, 139, 146, 148, 149, 150, 161, 164, 166, 169], "j": [3, 4, 5, 15, 17, 22, 24, 29, 35, 42, 56, 63, 70, 71, 77, 84, 96, 97, 115, 118, 119, 143, 144], "v": [3, 16, 27, 31, 32, 34, 36, 37, 51, 64, 67, 116, 123, 148, 161], "radiu": [3, 150, 157, 158, 163], "q0_vs_radiu": 3, "convert": [3, 24, 27, 32, 35, 37, 45, 51, 55, 62, 63, 66, 75, 78, 89, 96, 101, 109, 110, 126, 129, 135, 136, 147, 148, 157, 161, 165], "numpi": [3, 13, 32, 34, 36, 37, 42, 51, 70, 85, 87, 88, 89, 91, 94, 101, 106, 107, 108, 110, 116, 136, 140, 141, 149, 163, 164], "sqrt": [3, 34, 37, 49, 68, 88, 101, 102, 108, 149], "q0": [3, 101], "work": [3, 5, 8, 13, 16, 21, 22, 24, 26, 27, 28, 30, 31, 34, 36, 38, 39, 43, 48, 52, 55, 56, 57, 58, 59, 60, 61, 62, 63, 70, 71, 74, 75, 76, 82, 85, 86, 87, 88, 90, 91, 92, 96, 97, 98, 99, 102, 104, 105, 110, 111, 113, 114, 115, 116, 120, 121, 122, 123, 124, 125, 126, 129, 131, 132, 137, 139, 145, 146, 147, 148, 152, 158, 161, 164, 168], "symbol": [3, 71, 111], "best": [3, 4, 16, 24, 28, 30, 36, 44, 49, 55, 57, 59, 60, 66, 72, 74, 76, 81, 82, 97, 101, 113, 114, 115, 116, 126, 137, 139, 150, 154, 157, 161, 166], "descript": [3, 4, 6, 9, 24, 25, 27, 32, 37, 63, 71, 75, 78, 81, 96, 97, 109, 113, 115, 136, 139, 140, 150, 157, 161, 169], "celledges_show": [3, 24], "draw": 3, "amr_celledges_show": 3, "level": [3, 6, 7, 16, 25, 29, 31, 34, 36, 41, 42, 47, 48, 50, 51, 52, 55, 58, 59, 61, 62, 71, 72, 76, 77, 89, 91, 94, 96, 97, 98, 104, 111, 112, 115, 116, 118, 119, 123, 124, 126, 129, 138, 141, 142, 145, 147, 148, 149, 151, 160, 161, 163, 165, 166], "patchedges_show": [3, 24], "mostli": [3, 81, 96, 129, 136], "contour_level": [3, 163], "three": [3, 13, 17, 24, 32, 34, 37, 52, 55, 67, 71, 75, 99, 103, 109, 116, 141, 147, 150, 161, 163, 166], "contour_nlevel": 3, "contour_min": 3, "minimum": [3, 34, 47, 55, 75, 108, 124, 150, 163], "contour_max": 3, "maximum": [3, 24, 32, 34, 35, 36, 48, 71, 72, 104, 108, 115, 118, 119, 126, 129, 147, 148, 149, 151, 157, 158], "contour_color": 3, "specif": [3, 5, 12, 24, 30, 32, 47, 48, 49, 51, 55, 56, 62, 65, 67, 68, 77, 86, 87, 89, 91, 96, 97, 98, 102, 103, 109, 113, 124, 125, 126, 129, 146, 147, 148, 149, 151, 158, 161], "b": [3, 5, 17, 30, 32, 34, 35, 36, 37, 42, 47, 49, 56, 58, 59, 68, 72, 82, 104, 115, 122, 129, 141, 142, 143, 150, 163, 165], "0000ff": [3, 63], "colormap": [3, 32, 42, 50, 55, 70, 71, 81, 83, 123, 129, 163], "amr_contour_color": 3, "As": [3, 18, 39, 42, 48, 49, 52, 58, 59, 63, 64, 88, 108, 110, 114, 118, 129, 139, 140, 143, 150, 153, 159, 166], "black": [3, 47], "subsequ": [3, 10, 71], "both": [3, 16, 18, 30, 32, 35, 36, 37, 38, 39, 41, 42, 47, 52, 57, 60, 62, 67, 70, 71, 75, 77, 89, 97, 98, 99, 104, 105, 115, 116, 122, 123, 126, 129, 134, 139, 140, 141, 143, 147, 148, 149, 151, 155, 161, 166], "fine": [3, 34, 35, 36, 42, 49, 58, 74, 78, 96, 101, 115, 124, 131, 141, 143, 147, 148, 150, 161, 166], "coars": [3, 34, 36, 55, 115, 124, 131, 147, 161, 166], "anoth": [3, 24, 36, 42, 47, 55, 62, 63, 77, 81, 85, 93, 104, 107, 116, 126, 157, 166], "refin": [3, 4, 5, 7, 8, 17, 24, 36, 48, 49, 52, 55, 56, 57, 70, 71, 77, 78, 88, 124, 126, 127, 129, 131, 141, 143, 146, 147, 148, 149, 160, 161, 166], "region": [3, 6, 7, 13, 16, 24, 34, 36, 41, 42, 48, 52, 53, 55, 63, 68, 72, 75, 78, 113, 126, 129, 131, 142, 143, 148, 149, 153, 161, 163], "lack": 3, "hidden": [3, 66, 82], "blank": [3, 35, 63, 157], "coarser": [3, 16, 57, 124, 143, 147, 148, 166], "easili": [3, 13, 30, 34, 55, 58, 71, 82, 89, 94, 105, 109, 116, 129, 152], "contour_show": 3, "commonli": [3, 71, 82, 84], "amr_contour_show": 3, "determin": [3, 5, 6, 32, 34, 37, 42, 47, 48, 49, 52, 54, 55, 58, 63, 72, 75, 82, 92, 94, 97, 102, 106, 111, 115, 119, 123, 124, 138, 141, 142, 146, 147, 148, 150, 163, 166], "whether": [3, 6, 13, 16, 24, 51, 57, 60, 62, 64, 65, 66, 71, 86, 94, 97, 98, 102, 103, 104, 115, 116, 124, 139, 141, 147, 148, 150, 163], "view": [3, 4, 24, 36, 38, 39, 47, 48, 49, 55, 57, 58, 63, 77, 81, 83, 84, 88, 99, 105, 110, 122, 126, 152, 153, 154], "finest": [3, 34, 36, 42, 47, 72, 126, 160, 163], "contour_kwarg": [3, 163], "pcolor_cmap": [3, 55], "pcolor_cmin": 3, "pcolor_cmax": 3, "thei": [3, 5, 6, 13, 16, 18, 26, 29, 30, 32, 34, 36, 41, 42, 47, 49, 52, 55, 58, 59, 62, 63, 64, 67, 70, 71, 77, 81, 94, 96, 101, 104, 109, 115, 116, 124, 131, 143, 146, 150, 153, 157, 161, 163, 166], "chosen": [3, 31, 34, 41, 42, 55, 57, 70, 108, 115, 131, 142, 148], "vari": [3, 15, 17, 27, 32, 42, 48, 49, 57, 68, 72, 101, 103, 122, 129, 139, 140, 142, 144, 148, 150, 169], "yield": 3, "veri": [3, 5, 16, 18, 24, 49, 52, 55, 59, 60, 63, 75, 82, 86, 89, 97, 98, 99, 100, 101, 104, 116, 119, 123, 134, 141, 143, 147, 158, 161], "confus": [3, 57, 62, 111, 131, 139], "add_colorbar": [3, 32, 163], "ad": [3, 12, 16, 18, 22, 24, 26, 27, 29, 31, 34, 36, 37, 44, 47, 51, 57, 58, 59, 62, 63, 64, 68, 71, 72, 75, 82, 87, 89, 92, 94, 95, 98, 99, 111, 112, 113, 115, 118, 119, 120, 121, 122, 123, 124, 125, 126, 127, 128, 129, 130, 132, 134, 135, 136, 138, 143, 147, 148, 150, 153, 157, 160, 163, 167], "imshow_cmap": 3, "imshow_cmin": 3, "imshow_cmax": 3, "relat": [3, 7, 18, 24, 26, 58, 78, 102, 113, 125, 129, 131, 142], "pre": [3, 13, 35, 59, 90, 97], "pend": 3, "amr_": [3, 7], "whose": [3, 49, 82, 89, 101, 102, 143, 147, 148, 163], "origin": [3, 6, 13, 16, 18, 22, 30, 32, 36, 37, 47, 56, 58, 70, 76, 77, 89, 104, 109, 118, 124, 131, 138, 148, 149, 150, 151, 163], "hand": [3, 5, 20, 21, 22, 68, 88, 116, 134, 135, 136, 141], "higher": [3, 6, 18, 55, 94, 104, 105, 115, 129, 139, 141, 142, 143], "shorter": [3, 115, 163], "last": [3, 20, 29, 34, 36, 59, 61, 82, 88, 89, 101, 108, 123, 134, 135, 136, 147, 157], "repeatedli": [3, 99, 105, 148], "finer": [3, 7, 34, 55, 115, 118, 119, 141, 147, 148], "celledg": [3, 32, 49], "colorbar_shrink": [3, 32], "colorbar_label": 3, "colorbar_tick": 3, "colorbar_tick_label": 3, "colorbar_extend": [3, 135], "colorbar_kwarg": [3, 126], "stand": [4, 131], "conserv": [4, 5, 6, 17, 18, 98, 104, 106, 127, 140, 166, 169], "law": [4, 17, 63, 150, 169], "packag": [4, 27, 30, 31, 38, 39, 55, 59, 60, 67, 77, 78, 81, 85, 86, 88, 94, 96, 98, 100, 101, 103, 105, 108, 110, 111, 128, 129, 164, 167], "wa": [4, 5, 6, 14, 21, 22, 27, 31, 32, 34, 35, 36, 37, 42, 49, 52, 54, 58, 59, 66, 68, 70, 71, 75, 82, 99, 103, 104, 106, 115, 116, 117, 118, 119, 120, 121, 122, 123, 124, 125, 126, 127, 128, 129, 130, 131, 132, 133, 134, 135, 136, 138, 141, 143, 160, 161, 163], "initi": [4, 5, 7, 12, 13, 18, 24, 27, 32, 36, 37, 47, 48, 49, 51, 52, 55, 59, 64, 67, 71, 72, 75, 77, 78, 84, 86, 87, 88, 89, 91, 92, 94, 95, 97, 98, 102, 103, 104, 106, 107, 109, 112, 115, 123, 126, 129, 131, 139, 142, 147, 148, 149, 151, 153, 157, 161, 163], "develop": [4, 6, 7, 12, 13, 20, 24, 25, 52, 56, 58, 61, 62, 65, 70, 71, 81, 85, 86, 89, 96, 101, 104, 105, 111, 113, 116, 126, 127, 129, 131, 134, 135, 136, 139, 142, 143, 149], "linear": [4, 5, 17, 18, 32, 36, 37, 47, 49, 55, 72, 75, 82, 88, 92, 104, 127, 139, 140, 141], "nonlinear": [4, 5, 17, 52, 92, 139, 147, 169], "hyperbol": [4, 5, 6, 17, 18, 45, 78, 89, 96, 101, 102, 108, 139, 147, 150, 166, 169], "system": [4, 16, 17, 18, 25, 39, 40, 48, 55, 56, 62, 63, 67, 76, 77, 86, 96, 98, 99, 101, 102, 105, 108, 111, 116, 139, 147, 149, 151, 159, 166, 169], "focu": [4, 48], "high": [4, 17, 34, 52, 55, 70, 72, 75, 78, 89, 96, 104, 139, 142, 143, 165, 166], "resolut": [4, 6, 17, 32, 34, 36, 42, 47, 64, 72, 75, 94, 104, 108, 109, 118, 122, 126, 127, 134, 139, 142, 161, 163, 165, 166], "godunov": [4, 94, 104, 147, 149, 151, 166], "method": [4, 5, 7, 17, 34, 36, 37, 41, 45, 47, 57, 70, 72, 82, 84, 88, 91, 92, 94, 99, 103, 104, 109, 115, 116, 122, 139, 146, 147, 148, 149, 151, 157, 160, 161, 163, 166], "framework": [4, 86, 89, 123, 124], "applic": [4, 6, 15, 16, 18, 21, 22, 24, 25, 26, 30, 31, 34, 36, 37, 38, 39, 40, 44, 45, 46, 47, 48, 50, 59, 61, 62, 67, 70, 76, 77, 84, 93, 94, 95, 96, 98, 104, 109, 112, 114, 115, 116, 118, 121, 122, 124, 125, 126, 128, 129, 139, 141, 143, 144, 147, 150, 155, 156, 161, 163, 164, 166, 167], "finit": [4, 17, 34, 36, 45, 49, 57, 63, 70, 71, 72, 75, 104, 129, 141, 150, 160, 161, 166], "volum": [4, 17, 31, 34, 36, 45, 49, 57, 63, 70, 71, 72, 96, 129, 141, 148, 150, 160, 161, 166], "riemann": [4, 5, 8, 22, 24, 25, 30, 31, 48, 59, 62, 67, 78, 86, 88, 94, 95, 104, 105, 106, 108, 111, 145, 147, 149, 151, 155, 156, 169], "solver": [4, 5, 6, 22, 24, 25, 27, 30, 48, 49, 60, 61, 62, 67, 85, 86, 87, 91, 94, 95, 98, 106, 120, 122, 124, 125, 126, 127, 128, 129, 131, 136, 147, 149, 151, 155, 156, 169], "resolv": [4, 34, 36, 55, 58, 62, 113, 126, 143], "jump": [4, 5, 71, 84, 94, 104, 124, 147, 169], "discontinu": [4, 104, 169], "interfac": [4, 21, 24, 71, 86, 89, 92, 96, 97, 102, 104, 109, 139, 166, 167, 169], "wave": [4, 5, 6, 16, 17, 18, 27, 34, 42, 49, 52, 55, 56, 75, 92, 94, 96, 101, 102, 104, 115, 122, 124, 125, 131, 140, 141, 142, 147, 148, 149, 150, 151, 153, 166], "propag": [4, 5, 6, 17, 18, 27, 32, 49, 52, 55, 56, 75, 94, 96, 104, 115, 124, 139], "neighbor": [4, 36, 42, 70, 72, 115, 124, 143, 148, 149, 163], "formul": [4, 5, 18, 52, 68, 139, 147], "allow": [4, 6, 13, 18, 24, 29, 30, 31, 34, 36, 37, 41, 42, 47, 48, 51, 54, 55, 57, 58, 62, 68, 70, 71, 75, 76, 78, 81, 82, 91, 96, 97, 98, 104, 106, 109, 110, 111, 115, 116, 118, 119, 122, 123, 124, 125, 126, 128, 129, 131, 134, 135, 136, 139, 141, 147, 149, 150, 151, 152, 153, 157, 161, 163, 165], "easi": [4, 6, 11, 31, 41, 62, 71, 89, 98, 99, 100, 141, 152, 166], "extens": [4, 17, 18, 24, 26, 30, 32, 52, 55, 58, 62, 67, 71, 89, 96, 97, 109, 124, 125, 131, 147, 159, 163, 169], "problem": [4, 5, 7, 16, 17, 18, 22, 26, 27, 29, 30, 31, 38, 39, 42, 45, 48, 49, 62, 66, 70, 71, 72, 75, 78, 82, 85, 87, 88, 93, 95, 96, 99, 102, 104, 107, 111, 116, 118, 119, 121, 122, 125, 129, 131, 135, 136, 139, 141, 143, 147, 148, 149, 150, 151, 152, 160, 164], "algorithm": [4, 7, 27, 34, 41, 42, 48, 56, 88, 94, 96, 97, 104, 108, 115, 126, 139, 141, 147, 149, 151, 163], "brief": [4, 59, 140, 150], "subroutin": [4, 6, 9, 16, 24, 34, 36, 67, 115, 122, 139, 147, 148, 160, 166, 169], "equat": [4, 5, 16, 17, 27, 38, 39, 48, 49, 52, 64, 68, 82, 87, 88, 89, 91, 96, 97, 98, 101, 104, 105, 106, 119, 122, 124, 126, 127, 139, 147, 149, 150, 151, 153, 161, 166, 169], "solv": [4, 5, 8, 16, 17, 18, 22, 28, 38, 39, 49, 52, 60, 62, 64, 87, 89, 91, 94, 96, 101, 102, 105, 127, 139, 140, 147, 161, 166, 169], "adapt": [4, 7, 17, 32, 42, 49, 56, 57, 70, 71, 78, 88, 115, 126, 129, 131, 139, 141, 146, 147, 148, 150, 166], "mesh": [4, 7, 17, 35, 49, 56, 70, 71, 78, 81, 88, 115, 129, 146, 147, 166], "amrclaw": [4, 5, 6, 12, 15, 16, 21, 22, 24, 25, 26, 30, 39, 41, 42, 44, 46, 47, 48, 50, 56, 59, 60, 61, 62, 64, 70, 71, 76, 77, 78, 85, 96, 97, 105, 111, 112, 115, 116, 138, 139, 141, 144, 145, 147, 150, 155, 156, 159, 160, 164], "detail": [4, 5, 10, 16, 24, 25, 27, 28, 30, 31, 32, 34, 36, 38, 39, 41, 44, 47, 50, 52, 55, 58, 61, 62, 64, 65, 66, 70, 71, 75, 78, 82, 86, 91, 92, 93, 94, 96, 97, 98, 99, 100, 101, 102, 104, 114, 115, 116, 119, 124, 126, 131, 134, 139, 141, 146, 147, 150, 152, 157, 161, 164, 165, 166, 169], "content": [4, 6, 25, 37, 55, 59, 77, 78, 89, 96, 150, 161, 166, 167], "routin": [4, 5, 6, 16, 22, 27, 29, 32, 34, 38, 39, 47, 48, 49, 50, 55, 56, 66, 71, 72, 76, 77, 78, 81, 84, 86, 89, 91, 94, 97, 100, 101, 104, 106, 107, 115, 118, 119, 122, 124, 126, 127, 129, 139, 143, 147, 149, 151, 157, 163, 164, 166, 167, 169], "special": [4, 7, 16, 48, 50, 55, 65, 78, 86, 115, 134, 141, 163], "depth": [4, 5, 16, 17, 18, 24, 32, 34, 35, 37, 42, 47, 48, 49, 52, 68, 72, 75, 81, 83, 140, 142, 143, 150, 161], "averag": [4, 6, 15, 17, 18, 34, 42, 48, 49, 52, 53, 57, 71, 72, 102, 106, 119, 131, 139, 143, 144, 161, 163, 166], "geophys": [4, 16, 17, 25, 48, 52, 78, 147], "flow": [4, 16, 17, 25, 34, 35, 48, 50, 52, 78, 96, 113, 129, 134, 139, 147, 150, 161, 166], "geoclaw": [4, 7, 12, 17, 18, 25, 26, 30, 31, 32, 34, 35, 36, 37, 39, 41, 44, 46, 47, 56, 57, 59, 60, 61, 62, 63, 64, 68, 70, 72, 75, 77, 78, 81, 85, 96, 105, 111, 113, 114, 116, 138, 139, 140, 142, 143, 145, 147, 148, 153, 157, 158, 159, 160, 161, 162, 163, 164, 165, 166], "parallel": [4, 24, 25, 47, 76, 87, 93, 95, 96, 98, 101, 103, 105, 109, 115, 116, 124, 148], "ten": [4, 78], "thousand": [4, 78], "core": [4, 12, 78, 116, 126, 136], "wish": [4, 13, 14, 15, 24, 31, 38, 39, 52, 55, 62, 71, 80, 81, 96, 101, 104, 105, 107, 111, 113, 115, 124, 144, 152, 155, 156, 164], "discrib": 4, "book": [4, 12, 17, 27, 31, 85, 103, 139], "levequ": [4, 16, 17, 26, 32, 56, 78, 92, 94, 96, 104, 110, 139, 147, 166, 169], "fvmhp": [4, 12, 16, 17, 27, 78, 139, 147, 166, 169], "virtual": [4, 13, 27, 29, 106], "were": [4, 6, 14, 18, 22, 34, 47, 58, 64, 67, 71, 72, 89, 115, 118, 124, 127, 131, 134, 135, 136, 141, 143, 153, 161], "4": [4, 7, 8, 9, 13, 16, 17, 20, 25, 27, 30, 32, 34, 35, 36, 39, 41, 42, 44, 45, 47, 48, 52, 55, 57, 58, 59, 66, 67, 68, 70, 71, 72, 76, 77, 81, 82, 84, 95, 96, 97, 98, 99, 101, 102, 104, 105, 109, 111, 115, 116, 118, 123, 126, 131, 132, 134, 136, 138, 141, 147, 148, 149, 150, 151, 159, 160, 161, 163, 168], "3": [4, 6, 7, 15, 16, 22, 24, 26, 27, 32, 34, 35, 36, 39, 41, 45, 47, 48, 55, 57, 59, 62, 63, 68, 71, 72, 75, 77, 82, 84, 85, 88, 91, 92, 94, 97, 98, 99, 102, 103, 104, 106, 110, 111, 115, 124, 126, 129, 135, 137, 139, 141, 144, 147, 148, 149, 150, 151, 159, 160, 161, 163, 166, 169], "pointer": [4, 16, 18, 58, 75, 81, 84, 104, 109, 122], "code": [4, 5, 6, 7, 8, 12, 14, 16, 21, 22, 23, 24, 25, 26, 29, 31, 34, 35, 36, 37, 38, 39, 41, 43, 44, 45, 47, 48, 49, 52, 54, 56, 57, 58, 60, 65, 66, 67, 68, 74, 75, 76, 77, 78, 80, 82, 84, 85, 86, 88, 89, 94, 96, 97, 98, 99, 101, 104, 105, 108, 110, 111, 114, 117, 118, 119, 122, 123, 124, 125, 126, 127, 128, 129, 131, 136, 138, 139, 140, 141, 145, 147, 148, 149, 150, 151, 152, 157, 159, 160, 161], "bibliographi": [4, 27], "paper": [4, 5, 6, 16, 32, 48, 58, 92, 96], "distribut": [4, 12, 13, 31, 32, 58, 65, 75, 78, 86, 104, 110, 129], "under": [4, 7, 24, 34, 36, 40, 55, 56, 58, 61, 65, 67, 81, 86, 94, 96, 116, 124, 126, 137], "term": [4, 18, 27, 48, 49, 52, 65, 75, 89, 94, 95, 104, 115, 125, 126, 135, 136, 140, 147, 149, 150, 151, 155, 156], "berkelei": [4, 65, 86], "bsd": [4, 65, 86, 126], "peopl": [4, 12, 13, 86], "contribut": [4, 26, 27, 61, 86, 89, 96, 101, 104, 113, 116], "its": [4, 6, 13, 24, 31, 42, 52, 55, 65, 67, 70, 75, 77, 86, 91, 92, 93, 94, 96, 101, 103, 104, 106, 109, 115, 149, 163, 169], "incept": 4, "1994": [4, 65], "major": [4, 24, 59, 86, 89, 117, 118, 119, 120, 125, 127, 132, 135, 136], "design": [4, 29, 30, 55, 86, 88, 108, 141, 165], "made": [4, 20, 24, 30, 32, 37, 62, 103, 106, 118, 119, 124, 126, 129, 131, 134, 135, 136, 141, 143, 150, 158, 161, 163, 166], "individu": [4, 24, 25, 55, 63, 66, 67, 71, 94, 115, 116, 157], "randal": [4, 17, 96], "univers": [4, 17, 26, 58, 65, 86, 103], "washington": [4, 17, 26, 58, 65, 128, 141, 153, 163], "rjlevequ": [4, 30, 31], "marsha": [4, 6, 17], "berger": [4, 6, 17], "courant": [4, 6, 49, 115, 125, 147, 148, 149, 151], "institut": 4, "nyu": 4, "mjberger": 4, "jan": [4, 59], "olav": 4, "langseth": [4, 17], "norwegian": 4, "defenc": 4, "research": [4, 17, 48, 52, 86, 104, 114], "establish": 4, "david": [4, 17, 86, 96, 104], "georg": [4, 17, 32], "usg": [4, 32, 165], "cascad": 4, "volcano": 4, "observatori": 4, "dlgeorg": 4, "ketcheson": [4, 17, 79, 86, 96, 104], "kaust": [4, 26], 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136], "suggest": [4, 18, 26, 31, 51, 57, 58, 60, 62, 84, 85, 110, 137, 139, 150, 168], "improv": [4, 13, 24, 26, 34, 36, 55, 58, 97, 110, 118, 119, 121, 122, 123, 124, 125, 127, 128, 129, 130, 131, 132, 147], "explor": [4, 36, 63, 82, 84], "thank": [4, 96], "pleas": [4, 26, 30, 58, 60, 61, 62, 86, 88, 91, 93, 96, 97, 99, 101, 103, 104, 105, 107, 113, 126, 131, 137, 139, 157], "itself": [4, 75, 81, 110, 129, 139, 150, 163], "well": [4, 6, 30, 35, 48, 49, 55, 56, 58, 62, 63, 70, 75, 76, 77, 78, 81, 84, 85, 103, 104, 113, 125, 126, 129, 134, 140, 143, 147, 148, 155, 156, 157, 166, 169], "citat": [4, 59], "similar": [4, 13, 16, 30, 34, 36, 39, 47, 49, 55, 64, 88, 89, 97, 101, 104, 108, 126, 131, 150, 157, 158, 159, 161], "team": [4, 26, 65], "2020": [4, 26, 27, 58, 65, 110, 113, 129, 130, 131, 137, 139], "7": [4, 6, 14, 31, 34, 36, 41, 42, 47, 51, 58, 64, 68, 70, 77, 82, 85, 94, 105, 111, 115, 131, 137, 141, 142, 143, 148, 149], "http": [4, 12, 13, 17, 26, 28, 30, 31, 32, 42, 51, 55, 56, 58, 59, 61, 62, 65, 70, 75, 85, 86, 89, 90, 97, 99, 101, 110, 111, 121, 123, 124, 125, 127, 128, 131, 132, 133, 134, 135, 136, 137, 140, 153, 157, 163], "www": [4, 13, 17, 32, 42, 48, 58, 65, 70, 86, 89, 94, 97, 99, 125, 127, 134, 135, 157, 163], "org": [4, 17, 48, 56, 58, 59, 65, 86, 89, 90, 94, 97, 99, 110, 111, 123, 125, 127, 131, 132, 133, 134, 135, 136, 163], "doi": [4, 17, 56, 59, 61, 129, 130, 131, 132, 133, 134, 135, 136, 137], "10": [4, 17, 18, 32, 34, 36, 42, 49, 55, 56, 57, 59, 82, 88, 91, 94, 115, 123, 124, 126, 129, 130, 131, 132, 133, 134, 135, 136, 137, 141, 147, 148, 149, 151, 153, 161], "5281": [4, 59, 129, 130, 131, 132, 133, 134, 135, 136, 137], "zenodo": [4, 61, 129, 130, 131, 132, 133, 134, 135, 136, 137], "4025432": [4, 130, 137], "here": [4, 13, 16, 31, 36, 41, 42, 52, 59, 62, 63, 70, 78, 82, 84, 88, 91, 96, 97, 99, 101, 102, 107, 108, 111, 113, 115, 122, 139, 140, 141, 158, 163, 169], "bibtex": [4, 59], "misc": [4, 128, 130, 153], "url": [4, 12, 17, 55, 59, 126, 127, 161, 163], "year": [4, 17, 24, 55, 63, 96, 117, 127, 157], "releas": [4, 18, 19, 20, 24, 27, 30, 31, 46, 49, 55, 60, 61, 62, 90, 96, 104, 105, 110], "refer": [4, 5, 22, 32, 34, 35, 36, 38, 39, 41, 48, 50, 55, 59, 66, 67, 71, 75, 88, 92, 94, 97, 98, 102, 104, 106, 111, 113, 126, 128, 138, 139, 141, 150, 157, 161, 163, 165, 166], "particular": [4, 6, 12, 22, 24, 30, 32, 34, 44, 47, 48, 50, 52, 55, 56, 59, 65, 66, 67, 71, 78, 82, 83, 85, 86, 88, 102, 103, 104, 106, 108, 113, 114, 115, 116, 119, 122, 123, 124, 125, 126, 128, 129, 131, 146, 157, 158, 169], "obtain": [4, 6, 12, 34, 46, 47, 49, 50, 52, 62, 63, 72, 97, 98, 99, 115, 131, 139, 143, 152, 161, 169], "your": [4, 6, 15, 16, 18, 21, 22, 26, 27, 28, 36, 38, 40, 44, 47, 57, 58, 59, 60, 61, 62, 76, 81, 82, 84, 86, 87, 88, 89, 90, 93, 95, 96, 97, 98, 107, 108, 110, 111, 112, 113, 115, 116, 118, 126, 136, 139, 144, 145, 155, 156, 161, 164, 166], "multipl": [4, 5, 6, 13, 25, 30, 34, 35, 42, 47, 81, 88, 94, 97, 98, 109, 111, 116, 118, 124, 128, 138, 139, 148, 157, 158], "past": [4, 23, 27, 58, 64, 70, 103, 124, 127, 131, 137, 141, 142, 150], "17605": [4, 59, 137], "osf": [4, 137], "io": [4, 58, 59, 85, 98, 103, 137], "kmw6h": [4, 59, 137], "recent": [4, 13, 18, 24, 29, 32, 49, 54, 58, 61, 66, 68, 76, 82, 84, 85, 123, 127, 128, 129, 130, 131, 132, 133, 134, 135, 136, 137, 139, 153, 165], "articl": [4, 17, 96, 152], "l": [4, 7, 17, 34, 43, 61, 115, 139, 145, 149], "hadjimichael": [4, 17, 86], "2016": [4, 17, 26, 58], "build": [4, 17, 30, 31, 58, 59, 62, 71, 89, 99, 109, 125, 136, 141], "open": [4, 13, 17, 27, 30, 31, 32, 55, 63, 81, 86, 90, 94, 97, 109, 141, 145, 165, 167], "sourc": [4, 17, 18, 25, 27, 30, 32, 44, 48, 49, 55, 56, 58, 59, 61, 62, 63, 65, 67, 68, 81, 86, 89, 93, 94, 95, 104, 105, 107, 108, 109, 113, 114, 116, 124, 125, 126, 135, 136, 140, 142, 147, 149, 150, 151, 154, 155, 156, 157, 161], "ecosystem": [4, 17], "pde": [4, 5, 17, 60, 61, 62, 78, 85, 96, 108, 147, 166], "peerj": [4, 17], "scienc": [4, 17, 86], "7717": [4, 17], "c": [4, 16, 17, 30, 31, 32, 44, 55, 63, 65, 82, 86, 88, 89, 94, 102, 107, 108, 139], "68": [4, 17], "mandli2016clawpack": [4, 17], "yianni": [4, 17, 86], "journal": [4, 17, 56, 96, 152], "e68": [4, 17], "publish": [4, 17, 58, 96], "inc": [4, 17, 71], "least": [4, 5, 6, 13, 37, 47, 55, 63, 64, 70, 71, 107, 115, 116, 123, 124, 131, 147, 149, 153, 161, 163], "regard": [4, 41, 123, 157], "click": [4, 12, 13, 20, 30, 55, 58, 59, 116, 125, 134, 135, 136, 137], "link": [4, 11, 13, 15, 17, 20, 21, 22, 26, 27, 30, 44, 45, 48, 55, 56, 57, 58, 59, 61, 63, 110, 111, 112, 125, 134, 135, 136, 137, 139, 140, 142, 144, 151, 155, 156, 161, 165], "classic": [4, 6, 12, 15, 16, 21, 22, 24, 25, 26, 30, 44, 45, 46, 50, 59, 60, 61, 62, 67, 74, 76, 77, 78, 85, 86, 88, 91, 93, 94, 95, 96, 97, 101, 111, 112, 116, 138, 139, 144, 145, 148, 150, 156, 164, 166], "2d": [4, 7, 8, 15, 16, 18, 21, 24, 27, 29, 32, 34, 36, 37, 41, 42, 48, 49, 51, 56, 63, 71, 76, 81, 86, 88, 94, 96, 100, 104, 110, 112, 115, 122, 124, 125, 126, 127, 128, 131, 135, 140, 141, 143, 144, 147, 148, 151, 153, 155, 156, 163, 167, 169], "leveque97": [4, 17], "3d": [4, 7, 15, 18, 24, 32, 71, 76, 81, 86, 96, 100, 104, 112, 115, 118, 120, 122, 123, 124, 127, 135, 139, 141, 144, 147, 148, 155, 156, 167, 169], "langsethleveque00": [4, 17], "amr": [4, 7, 8, 16, 18, 22, 25, 27, 29, 30, 34, 36, 37, 41, 47, 48, 49, 56, 63, 71, 72, 73, 77, 78, 81, 86, 94, 123, 125, 126, 127, 129, 131, 134, 143, 146, 147, 149, 151, 160, 166], "bergerleveque98": [4, 6, 7, 17], "f": [4, 5, 6, 16, 18, 22, 24, 27, 29, 30, 33, 66, 67, 89, 91, 97, 98, 101, 102, 104, 106, 107, 109, 118, 122, 125, 126, 127, 131, 140, 147, 148, 149, 151, 163, 164, 166], "balelevmitross02": [4, 17, 147, 169], "bergergeorgelevequemandli11": [4, 17], "levequegeorgeberg": [4, 17], "order": [4, 5, 6, 13, 16, 17, 18, 31, 32, 34, 36, 47, 52, 57, 62, 64, 67, 70, 71, 72, 75, 77, 78, 82, 84, 85, 86, 88, 91, 92, 94, 96, 97, 98, 100, 101, 104, 108, 109, 110, 111, 115, 122, 126, 131, 135, 139, 141, 143, 146, 147, 148, 149, 151, 157, 161, 163, 164, 166, 169], "sharpclaw": [4, 25, 27, 78, 86, 93, 95, 96, 101, 118, 139], "ketparlev13": [4, 17, 78, 96, 139], "ketchesonmandliet": [4, 17], "support": [4, 8, 13, 18, 24, 36, 37, 41, 44, 49, 52, 55, 60, 61, 73, 75, 77, 85, 86, 88, 89, 94, 97, 98, 100, 102, 104, 115, 122, 124, 125, 126, 127, 131, 132, 134, 135, 139, 141, 147, 148, 150, 157, 158, 161, 164, 167], "part": [4, 5, 24, 26, 32, 36, 48, 52, 62, 63, 64, 86, 89, 99, 105, 106, 108, 110, 114, 116, 128, 166], "nsf": 4, "grant": [4, 86], "dm": 4, "8657319": 4, "9204329": 4, "9303404": 4, "9505021": 4, "96226645": 4, "9803442": 4, "0106511": 4, "cm": [4, 32, 75, 82, 141], "0245206": 4, "0609661": 4, "0914942": 4, "1216732": 4, "ear": 4, "1331412": 4, "cmmi": 4, "1536198": 4, "doe": [4, 5, 11, 16, 22, 29, 30, 36, 42, 43, 49, 52, 55, 57, 58, 62, 71, 78, 82, 85, 94, 103, 106, 109, 115, 116, 119, 124, 128, 131, 134, 138, 139, 140, 143, 157, 163, 164, 166], "de": 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37, 38, 39, 41, 42, 43, 45, 48, 49, 50, 52, 63, 64, 66, 68, 70, 77, 78, 82, 96, 112, 113, 115, 118, 122, 123, 124, 127, 129, 131, 134, 135, 136, 138, 139, 142, 143, 153, 157, 161, 164, 166], "clawdata": [5, 41, 49, 77, 118, 122, 138, 147, 148, 149, 150, 151], "tfinal": [5, 77, 88, 91, 108, 138, 147, 149, 151], "via": [5, 13, 24, 25, 26, 30, 31, 32, 36, 38, 39, 44, 45, 47, 50, 52, 55, 58, 59, 61, 62, 64, 66, 70, 71, 75, 76, 78, 82, 85, 88, 94, 97, 100, 103, 105, 107, 111, 115, 116, 126, 129, 139, 141, 145, 150, 152, 155, 156, 161, 163, 166], "num_output_tim": [5, 77, 88, 91, 98, 138, 147, 149, 151], "larg": [5, 6, 12, 22, 36, 37, 38, 39, 42, 52, 55, 57, 58, 71, 76, 81, 96, 98, 99, 115, 116, 123, 131, 134, 138, 141, 143, 147, 148, 163, 165], "frequent": [5, 22, 29, 36, 47, 64, 107, 123, 134], "enough": [5, 47, 49, 58, 64, 70, 148, 158, 160, 161], "them": [5, 13, 20, 24, 30, 31, 32, 34, 47, 55, 58, 71, 78, 86, 88, 93, 97, 98, 99, 101, 109, 113, 116, 119, 128, 134, 135, 136, 141, 153, 154, 157, 163, 166], "reason": [5, 49, 52, 55, 63, 75, 76, 78, 99, 101, 115, 147], "output_format": [5, 36, 37, 77, 91, 98, 134, 147, 149, 151], "binari": [5, 36, 44, 47, 59, 65, 86, 98, 100, 123, 134, 135, 138, 147, 163, 167], "manner": [5, 36, 42, 47, 55, 64, 70, 75, 81, 126, 143, 147, 155, 156, 161], "attribut": [5, 7, 18, 24, 32, 36, 37, 41, 47, 70, 75, 81, 83, 84, 88, 91, 94, 97, 99, 101, 103, 104, 115, 118, 123, 127, 135, 138, 146, 147, 148, 150, 157, 163], "clawutil": [5, 11, 14, 21, 22, 25, 30, 43, 44, 54, 59, 60, 61, 66, 111, 116, 145, 147, 148, 149, 151, 163, 164], "clawrundata": [5, 47, 63, 127, 138, 147, 148, 149, 151], "adjointdata": [5, 127, 128], "ia": 5, "attribur": 5, "toler": [5, 34, 102, 109, 115, 116, 124, 148, 149, 150], "rundata": [5, 18, 24, 34, 36, 41, 42, 47, 49, 63, 64, 115, 118, 129, 136, 138, 143, 147, 148, 149, 150, 151, 153], "use_adjoint": 5, "adjoint_outdir": 5, "abspath": [5, 41], "_output": [5, 13, 14, 34, 36, 38, 39, 47, 54, 64, 71, 82, 84, 93, 98, 100, 103, 123, 130, 164], "period": [5, 6, 16, 34, 66, 88, 101, 115, 147, 149, 151], "t1": [5, 41, 47, 63, 64, 115, 131, 148, 149, 150], "t0": [5, 77, 138, 147, 149, 150, 151, 161], "t2": [5, 41, 47, 63, 64, 115, 131, 148, 149, 150], "addit": [5, 7, 13, 16, 18, 25, 26, 30, 31, 34, 36, 39, 40, 41, 48, 49, 50, 63, 70, 75, 77, 78, 82, 83, 89, 92, 94, 96, 98, 104, 105, 106, 113, 115, 122, 124, 125, 126, 127, 130, 131, 133, 134, 135, 139, 141, 147, 151, 157, 160, 161, 166, 167], "aux": [5, 6, 15, 22, 24, 29, 47, 57, 89, 96, 97, 98, 101, 103, 104, 106, 107, 118, 119, 124, 126, 139, 140, 144, 147, 148, 149, 150, 151, 166], "inner": [5, 115, 127], "product": [5, 32, 65, 86, 109, 115, 127], "amrdata": [5, 24, 34, 115, 129, 131, 148, 149, 150], "aux_typ": [5, 148, 149], "append": [5, 22, 34, 36, 41, 42, 47, 55, 64, 82, 91, 103, 115, 123, 124, 136, 138, 139, 149, 150], "num_aux": [5, 89, 97, 99, 101, 102, 106, 139, 147, 148, 149, 151, 166], "len": [5, 32, 37, 94, 149, 151, 163], "innerprod_index": 5, 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150], "step": [5, 6, 10, 16, 18, 21, 30, 34, 36, 38, 39, 40, 47, 55, 58, 59, 64, 71, 77, 78, 81, 84, 86, 87, 88, 89, 91, 98, 101, 104, 106, 108, 113, 115, 118, 123, 124, 134, 138, 139, 145, 147, 148, 149, 150, 151, 161, 169], "extrapol": [5, 7, 16, 24, 72, 101, 108, 126, 147, 148, 149, 151], "togeth": [5, 16, 30, 31, 32, 58, 60, 75, 115, 134], "experiment": [5, 86], "simpli": [5, 13, 36, 38, 39, 40, 42, 47, 49, 55, 57, 66, 67, 70, 72, 88, 90, 91, 93, 98, 99, 105, 116, 139, 141, 152, 157, 163, 166, 167], "magnitud": [5, 32, 115, 126, 150], "greater": [5, 34, 63, 68, 70, 105, 115, 138, 147, 148, 150], "model": [5, 12, 16, 17, 18, 26, 27, 32, 34, 44, 48, 49, 50, 56, 57, 68, 98, 115, 123, 128, 129, 130, 141, 142, 143, 150, 153, 157, 158, 161], "davisleveque2016": [5, 17], "chile2010_adjoint": 5, "shallow": [5, 15, 16, 17, 18, 27, 34, 36, 42, 48, 49, 52, 56, 70, 78, 89, 96, 112, 119, 120, 122, 124, 126, 127, 135, 136, 139, 143, 144, 150, 155, 156, 161, 166], "water": [5, 16, 17, 18, 27, 36, 42, 47, 48, 49, 50, 51, 52, 63, 70, 78, 81, 89, 96, 119, 120, 124, 126, 127, 136, 139, 141, 142, 143, 150, 161, 163, 165, 166], "while": [5, 13, 16, 32, 42, 55, 71, 75, 82, 84, 89, 94, 98, 99, 104, 109, 126, 139, 143, 150, 165], "suitabl": [5, 8, 16, 18, 22, 48, 52, 55, 73, 77, 103, 114, 139, 142, 157, 163], "To": [5, 6, 13, 14, 19, 20, 24, 27, 30, 31, 38, 39, 40, 41, 42, 43, 47, 50, 53, 55, 56, 59, 66, 69, 70, 71, 75, 76, 77, 82, 84, 85, 88, 90, 92, 93, 96, 97, 98, 99, 100, 101, 104, 105, 108, 111, 113, 114, 115, 116, 122, 124, 127, 128, 129, 130, 131, 132, 133, 134, 135, 136, 138, 142, 145, 147, 148, 152, 161, 167], "date": [5, 30, 43, 51, 55, 58, 59, 66, 82, 157, 164], "across": [5, 115, 124, 161, 163], "ocean": [5, 16, 17, 34, 49, 52, 55, 113, 115, 141, 150, 155, 156, 161], "wai": [5, 6, 13, 16, 28, 30, 36, 38, 39, 41, 42, 47, 49, 55, 57, 58, 61, 62, 63, 65, 66, 82, 84, 85, 86, 88, 91, 93, 94, 99, 101, 103, 105, 108, 110, 111, 113, 114, 118, 124, 125, 126, 129, 136, 137, 139, 141, 146, 147, 154, 158, 161, 166, 168, 169], "target": [5, 62, 82, 89, 101, 129], "possibli": [5, 32, 36, 70, 88, 94, 111, 123, 143], "deep": [5, 49, 70], "amplitud": [5, 124], "compar": [5, 18, 24, 39, 47, 49, 52, 55, 59, 82, 98, 115, 116, 142, 148, 159, 165, 169], "essenti": [5, 57, 71, 104, 150, 161], "rest": [5, 24, 84, 113, 126, 142, 155, 156, 161, 163], "henc": [5, 36, 57, 58, 67, 72, 104, 110, 111, 115, 143], "take": [5, 6, 24, 29, 30, 32, 34, 37, 51, 58, 68, 70, 71, 75, 82, 88, 94, 101, 104, 108, 109, 110, 115, 116, 121, 127, 135, 143, 147, 148, 149, 150, 163, 166, 169], "rpn2_geoclaw_adjoint_qwav": 5, "rpt2_geoclaw_adjoint_qwav": 5, "non": [5, 16, 59, 70, 78, 89, 101, 108, 127, 129, 147, 149, 151, 157, 169], "vector": [5, 24, 88, 92, 98, 106, 126, 134, 139, 140], "split": [5, 6, 76, 94, 97, 104, 122, 123, 131, 147, 148, 149, 151, 160, 166, 169], "flux": [5, 17, 34, 36, 37, 94, 102, 104, 139, 147, 169], "comment": [5, 11, 26, 53, 59, 125, 134, 138], "rpn2": [5, 139], "basic": [6, 10, 12, 27, 32, 38, 40, 48, 61, 70, 71, 88, 94, 96, 97, 98, 102, 104, 116, 139, 140, 157, 169], "strategi": 6, "logic": [6, 16, 17, 34, 131, 150], "rectangular": [6, 7, 16, 17, 32, 34, 37, 41, 42, 48, 50, 63, 70, 94, 115, 126, 129, 134, 148, 150, 161], "too": [6, 51, 55, 58, 59, 123, 141, 149, 151, 153], "portion": [6, 36, 42, 55, 70, 89, 134, 160], "factor": [6, 55, 148, 150, 160, 163], "direct": [6, 8, 16, 24, 32, 34, 36, 38, 39, 47, 49, 51, 55, 59, 63, 65, 66, 71, 75, 76, 82, 86, 91, 101, 108, 115, 125, 139, 147, 148, 150, 163], "anisotrop": [6, 24], "perhap": [6, 12, 18, 34, 42, 47, 58, 82, 106, 109, 115, 141], "section": [6, 13, 16, 36, 38, 39, 42, 44, 49, 50, 52, 58, 59, 67, 71, 81, 84, 96, 116, 131, 138, 147, 150, 163], "cfl": [6, 94, 98, 104, 108, 118, 123, 147, 149, 150, 151], "spatial": [6, 17, 27, 32, 36, 37, 41, 42, 47, 48, 49, 64, 68, 72, 101, 115, 118, 122, 129, 131, 139, 142, 148, 149, 150, 151, 169], "reduc": [6, 16, 36, 42, 49, 55, 123, 125, 134, 169], "thu": [6, 51, 98, 101, 126, 157], "proce": [6, 18, 30, 150], "advanc": [6, 17, 36, 56, 70, 76, 108, 123, 135, 147, 148, 166], "taken": [6, 34, 70, 75, 98, 104, 115, 147, 166], "around": [6, 32, 34, 42, 63, 97, 113, 116, 129, 148, 149, 157, 163, 166], "librari": [6, 13, 15, 16, 18, 22, 24, 27, 29, 30, 34, 36, 38, 39, 44, 47, 49, 56, 63, 66, 76, 77, 78, 86, 92, 97, 99, 104, 109, 111, 112, 115, 124, 129, 143, 144, 148, 155, 156, 164, 166], "bcnamr": [6, 16, 126, 147, 149, 166], "check": [6, 14, 15, 16, 22, 34, 38, 39, 43, 44, 54, 55, 56, 58, 59, 60, 62, 66, 71, 82, 85, 88, 89, 91, 96, 99, 103, 104, 106, 108, 109, 111, 112, 115, 119, 128, 141, 143, 144, 148, 149, 155, 156, 157, 163, 164, 165, 166], "denot": [6, 24, 37, 47, 57, 139, 163], "procedur": [6, 16, 42, 48, 49, 59, 166], "updat": [6, 12, 13, 24, 25, 27, 34, 53, 56, 61, 62, 64, 84, 96, 104, 106, 107, 110, 113, 118, 122, 124, 125, 126, 127, 128, 129, 139, 148, 149, 151, 154, 157, 160, 166], "consist": [6, 27, 34, 36, 51, 55, 59, 63, 99, 110, 124, 134, 135, 139, 141, 150, 161, 166], "replac": [6, 13, 31, 36, 41, 47, 52, 56, 58, 59, 61, 64, 66, 81, 89, 93, 97, 99, 100, 101, 102, 106, 109, 116, 118, 124, 126, 128, 129, 134, 138, 139, 143, 163, 164], "ly": [6, 70], "within": [6, 16, 30, 36, 37, 58, 62, 70, 72, 78, 82, 100, 109, 111, 115, 139, 141, 146, 152, 163], "approxim": [6, 16, 18, 27, 35, 52, 55, 72, 75, 139], "lead": [6, 13, 24, 34, 36, 52, 55, 68, 71, 75, 111, 114, 131, 143, 148], "total": [6, 32, 36, 55, 75, 77, 98, 104, 147, 148, 149, 151, 160], "mass": [6, 98, 153], "restor": 6, "global": [6, 14, 94, 106, 109, 142, 161, 165, 166], "fix": [6, 21, 22, 24, 27, 35, 37, 41, 47, 48, 49, 58, 59, 63, 64, 66, 70, 72, 86, 97, 102, 118, 119, 120, 121, 122, 123, 124, 125, 127, 128, 129, 130, 131, 132, 133, 134, 135, 136, 140, 147, 149, 151, 163], "up": [6, 13, 18, 24, 30, 31, 32, 34, 36, 38, 39, 42, 43, 47, 48, 55, 58, 59, 63, 66, 70, 71, 75, 77, 82, 88, 89, 91, 93, 95, 96, 97, 99, 104, 105, 108, 111, 113, 115, 116, 122, 123, 126, 129, 131, 136, 141, 143, 146, 149, 151, 160, 161, 164, 165], "style": [6, 24, 30, 32, 36, 41, 53, 55, 70, 73, 82, 86, 91, 126, 150], "olig": [6, 17], "colella": [6, 17], "bergeroliger84": [6, 17], "bergercolella89": [6, 17], "fortran": [6, 9, 11, 13, 14, 22, 25, 29, 30, 32, 34, 35, 36, 37, 38, 47, 48, 50, 57, 60, 62, 66, 67, 68, 72, 76, 77, 78, 81, 84, 86, 88, 89, 91, 94, 96, 97, 99, 101, 102, 104, 105, 106, 109, 111, 122, 123, 124, 126, 127, 128, 134, 135, 139, 140, 145, 148, 149, 150, 151, 157, 159, 160, 161], "written": [6, 11, 27, 32, 34, 36, 37, 43, 47, 62, 63, 64, 65, 75, 77, 78, 82, 86, 95, 96, 97, 101, 124, 139, 147, 148, 149, 150, 151, 157, 163, 166], "ga": [6, 102], "dynam": [6, 22, 32, 36, 52, 75, 78, 148], "merg": [6, 13, 27, 30, 56, 58, 59, 62, 122], "earli": [6, 22, 143], "mjb": [6, 17], "rjl": [6, 17, 111, 128, 153], "fulli": [6, 52, 55, 56, 125, 129, 139, 150, 157, 158], "consid": [6, 42, 52, 62, 70, 89, 111, 145, 152, 163], "adjac": [6, 16, 34, 48, 115, 143, 147], "equival": [6, 47, 56, 57, 63, 64, 77, 128, 134, 161], "copi": [6, 14, 15, 16, 38, 39, 47, 55, 58, 59, 62, 71, 88, 91, 101, 106, 112, 113, 114, 115, 119, 123, 126, 130, 143, 144, 148, 152, 155, 156, 161, 166], "interior": [6, 16, 42, 77, 106], "howev": [6, 13, 16, 18, 24, 34, 38, 39, 42, 44, 49, 50, 52, 55, 62, 65, 67, 70, 72, 75, 76, 77, 86, 89, 96, 115, 116, 124, 126, 128, 142, 143, 146, 150, 160], "lie": [6, 34, 35, 37, 70, 72, 115, 129, 141], "outsid": [6, 16, 41, 63, 70, 129, 141, 143, 161, 163], "li": [6, 16, 34, 37, 72, 115, 141], "along": [6, 14, 16, 26, 29, 32, 34, 42, 47, 55, 58, 61, 75, 77, 111, 115, 122, 137, 138, 141, 143, 150, 165], "proper": [6, 15, 42, 47, 56, 57, 58, 59, 63, 68, 70, 71, 97, 109, 118, 124, 144, 148, 149, 155, 156, 157, 166], "unless": [6, 34, 43, 44, 63, 102, 110, 142, 147, 148, 163], "standard": [6, 16, 32, 34, 36, 49, 55, 57, 71, 77, 89, 92, 104, 111, 115, 116, 149, 150, 151, 152, 161, 166, 169], "beyond": [6, 32, 110, 126], "modifi": [6, 9, 14, 15, 16, 18, 22, 24, 29, 34, 38, 39, 42, 47, 48, 58, 59, 62, 64, 66, 71, 74, 82, 89, 92, 94, 96, 101, 111, 112, 113, 114, 115, 121, 123, 124, 125, 126, 131, 141, 143, 144, 147, 149, 150, 151, 155, 156, 161, 163, 166], "damag": [6, 65, 86], "bcn": [6, 16, 151, 166], "nd": [6, 16, 115, 126, 129, 166], "actual": [6, 29, 32, 36, 57, 62, 63, 71, 75, 82, 92, 97, 109, 113, 142, 150], "softwar": [6, 13, 26, 27, 31, 48, 52, 65, 86, 96, 97, 98, 152, 161], "With": [6, 24, 30, 47, 53, 55, 62, 70, 78, 115, 123, 139, 141, 147], "opposit": [6, 16, 97], "side": [6, 16, 20, 34, 55, 58, 68, 75, 97, 116, 134, 135, 136, 139, 169], "everi": [6, 12, 30, 34, 36, 47, 64, 66, 67, 77, 88, 91, 93, 97, 98, 106, 115, 116, 124, 125, 139, 143, 145, 147, 149, 151, 157, 161, 163, 166], "few": [6, 12, 13, 24, 28, 31, 39, 49, 52, 58, 70, 71, 89, 104, 108, 110, 115, 116, 129, 142, 159, 161, 166], "coarsest": [6, 36, 55, 77, 118, 138, 147], "revis": [6, 124], "shock": [6, 17, 52, 104, 115], "accord": [6, 57], "criteria": [6, 7, 24, 27, 34, 70, 106], "cluster": [6, 17, 115, 148, 149], "rigoutsi": 6, "bergerrigoutsis91": [6, 17], "nonoverlap": 6, "rectangl": [6, 7, 27, 32, 36, 70, 75, 115, 129, 163], "balanc": [6, 17, 78, 125, 140, 155, 156], "conflict": [6, 30, 62, 66, 71, 107, 111], "goal": 6, "possibl": [6, 13, 24, 28, 30, 32, 34, 36, 37, 47, 49, 51, 52, 55, 64, 65, 66, 75, 82, 86, 94, 97, 99, 100, 104, 109, 111, 115, 139, 141, 142, 147, 148, 161, 165, 166], "minim": [6, 62, 70, 97, 141, 148, 163], "overhead": [6, 76, 115, 160], "cutoff": [6, 149], "control": [6, 7, 25, 27, 34, 36, 44, 47, 58, 62, 64, 71, 77, 84, 87, 92, 94, 96, 97, 98, 99, 101, 115, 124, 129, 140, 150], "fraction": [6, 13, 32, 115, 147, 166, 169], "70": [6, 36, 55], "realli": [6, 72, 116, 166], "At": [6, 13, 29, 30, 36, 38, 39, 42, 70, 99, 104, 108, 110, 115, 129, 147], "present": [6, 26, 63, 72, 94, 102, 103, 104, 109, 152, 166, 169], "previous": [6, 24, 34, 70, 77, 84, 122, 129, 143], "bilinear": [6, 34, 42, 47, 57, 72, 118, 119, 161], "doxygen": [6, 7, 27, 125], "flowchart": [6, 7, 27], "capabl": [7, 12, 24, 34, 36, 47, 52, 56, 64, 70, 78, 89, 96, 118, 123, 124, 126, 127, 128, 129, 130, 134, 135, 163, 165], "block": [7, 32, 35, 42, 63, 75, 77, 78, 88, 97, 106, 109, 116, 166], "structur": [7, 10, 24, 34, 36, 37, 41, 59, 62, 66, 78, 103, 104, 124, 141, 146, 163], "input": [7, 14, 16, 22, 25, 27, 29, 32, 35, 37, 43, 48, 55, 63, 67, 70, 71, 77, 88, 91, 92, 94, 96, 102, 103, 104, 109, 113, 123, 126, 127, 128, 139, 149, 150, 151, 157, 158, 161, 163, 166], "indic": [7, 16, 22, 24, 27, 31, 32, 34, 36, 41, 42, 44, 47, 48, 55, 57, 59, 62, 67, 71, 72, 80, 84, 94, 98, 99, 102, 104, 108, 111, 115, 116, 124, 129, 131, 139, 140, 147, 148, 149, 150, 151, 153, 161, 163, 166], "tool": [7, 8, 17, 24, 25, 30, 32, 34, 35, 36, 37, 38, 39, 42, 48, 49, 50, 51, 52, 55, 57, 60, 61, 62, 63, 71, 75, 80, 81, 82, 83, 85, 96, 111, 114, 119, 120, 124, 125, 129, 130, 150, 152, 161, 163, 165, 167], "matlab": [7, 24, 27, 38, 39, 80, 81, 82, 100, 110, 126, 129, 130], "deprec": [7, 32, 48, 58, 62, 122, 126, 134, 136, 161, 163], "debug": [7, 18, 44, 66, 77, 81, 98, 106, 111, 116, 134, 147, 149], "flag": [7, 12, 13, 18, 24, 27, 30, 31, 41, 43, 44, 48, 56, 62, 76, 89, 107, 109, 111, 122, 127, 131, 149, 150], "sampl": [7, 8, 14, 17, 18, 27, 31, 34, 44, 47, 48, 55, 64, 75, 111, 116, 134, 138, 141, 147, 148, 161, 163, 166], "ghost": [7, 16, 76, 77, 94, 97, 104, 106, 124, 131, 135, 147, 149, 151, 160, 166, 169], "flagregion": [7, 27, 70, 115, 129, 131, 141, 148, 150], "rule": [7, 13, 27, 63, 70, 89], "convex": [7, 34], "slu": 7, "bounding_box": [7, 35], "mask_outsid": [7, 70], "write": [7, 30, 32, 35, 36, 37, 41, 42, 47, 48, 54, 57, 58, 68, 75, 77, 78, 81, 88, 91, 94, 95, 97, 98, 99, 103, 124, 126, 149, 151, 157, 161, 163], "instanti": [7, 91, 99, 101, 104, 106, 135, 149, 151], "make_kml": 7, "simpl": [7, 31, 38, 39, 41, 48, 59, 72, 75, 89, 96, 101, 102, 104, 109, 114, 116, 163], "select": [7, 12, 13, 15, 16, 30, 34, 42, 70, 98, 104, 112, 115, 118, 125, 129, 137, 144, 147, 150, 155, 156, 165], "continent": [7, 70], "shelf": [7, 70], "guid": [7, 13, 17, 20, 25, 26, 27, 48, 50, 56, 61, 96, 110, 115, 125, 129, 134, 135, 136, 154], "adjoint": [7, 17, 27, 56, 115, 126, 127], "gaug": [7, 27, 34, 36, 48, 63, 72, 94, 95, 106, 113, 118, 122, 123, 124, 125, 126, 129, 134, 138, 142, 146, 149], "extend": [8, 16, 24, 42, 63, 70, 71, 94, 126, 141, 143, 150, 161, 163, 169], "directli": [8, 21, 25, 34, 48, 52, 61, 71, 75, 82, 84, 88, 89, 92, 96, 106, 109, 111, 126, 134, 163, 167], "obviou": [8, 55], "elimin": [8, 24, 70, 89, 111, 126, 150], "gallery_classic_amrclaw": [8, 38], "num_cel": [8, 24, 49, 94, 139, 147, 148, 149, 151], "refinement_ratios_i": [8, 148, 149], "sweep": [8, 139], "transvers": [8, 94, 124, 131, 139, 140, 147, 166, 169], "graph": 9, "understand": [9, 27, 38, 39, 52, 81, 96, 108, 115, 139], "filpatch": [9, 42, 124, 128, 131], "idea": [10, 26, 32, 70, 71, 78, 88, 108, 119, 163, 169], "overal": [10, 88], "who": [10, 12, 21, 24, 26, 34, 44, 52, 60], "gori": 10, "monster": 10, "column": [10, 32, 34, 47, 49, 52, 64, 98, 102, 122, 141, 163], "markup": 11, "languag": [11, 81, 109], "restructur": [11, 58], "text": [11, 58, 59, 63, 77, 91, 97, 104, 122], "sphinx": [11, 25, 27, 59, 125], "covert": 11, "convert_readm": 11, "brows": [11, 26, 45, 55, 71, 152, 166], "insert": [11, 16, 75, 97, 145], "script": [11, 21, 22, 30, 32, 34, 43, 47, 55, 58, 66, 71, 78, 81, 86, 89, 93, 95, 96, 98, 99, 104, 109, 111, 116, 126, 130, 139, 146, 150, 151, 163], "invok": [11, 14, 76, 143, 164], "minor": [11, 55, 58, 98, 118, 119, 120, 121, 122, 123, 124, 125, 126, 127, 129, 131, 133, 135, 136], "syntax": [11, 61, 145], "highlight": [11, 13], "header": [11, 32, 34, 36, 42, 47, 57, 70, 75, 77, 97, 103, 122, 124, 126, 157, 161, 163], "complex": [12, 36, 41, 94], "archiv": [12, 23, 39, 55, 59, 116, 152, 159, 163, 165], "github": [12, 15, 24, 25, 26, 27, 28, 31, 56, 58, 61, 62, 93, 101, 105, 112, 116, 121, 123, 124, 125, 134, 137, 139, 140, 144, 155, 156, 164], "app": [12, 13, 20, 25, 28, 30, 31, 34, 40, 45, 46, 75, 113, 114, 121, 125, 126, 127, 128, 129, 130, 131, 132, 133, 134, 135, 136, 140], "com": [12, 13, 25, 26, 28, 30, 31, 56, 58, 59, 61, 62, 97, 99, 101, 105, 121, 123, 124, 125, 134, 137, 140], "fvmbook": [12, 45], "galleri": [12, 27, 38, 39, 40, 45, 59, 80, 81, 93, 96, 110, 116, 121, 125, 152, 159, 166], "anim": [12, 16, 36, 45, 49, 55, 122, 129, 130, 134, 152], "instal": [12, 13, 20, 25, 27, 31, 38, 46, 55, 58, 59, 84, 86, 87, 90, 95, 97, 108, 110, 116, 117, 118, 119, 120, 121, 122, 123, 124, 125, 126, 127, 128, 129, 130, 131, 132, 133, 134, 135, 136, 137, 145, 168], "collect": [12, 27, 28, 30, 32, 34, 75, 81, 88, 104, 152], "either": [12, 16, 22, 32, 34, 36, 42, 48, 50, 55, 64, 66, 70, 71, 75, 77, 82, 84, 88, 94, 96, 97, 98, 104, 109, 111, 115, 116, 122, 123, 124, 126, 134, 139, 141, 143, 148, 150, 157, 161, 163, 166, 169], "clone": [12, 20, 25, 26, 45, 56, 58, 59, 62, 85, 99, 105, 114, 134, 135, 136, 164], "git": [12, 13, 25, 26, 27, 28, 56, 59, 62, 96, 105, 116, 128], "navig": [12, 31, 58, 152], "green": [12, 18, 63, 70, 75, 82, 116, 163], "button": [12, 13, 30, 55, 63, 125], "download": [12, 13, 30, 31, 32, 39, 40, 42, 48, 55, 59, 61, 62, 93, 99, 105, 126, 127, 137, 159, 163, 164, 165], "zip": [12, 55, 59], "illustr": [12, 27, 32, 34, 38, 46, 49, 55, 70, 71, 75, 77, 114, 121, 122, 126, 128, 139, 141, 152, 163], "variou": [12, 22, 24, 32, 36, 41, 46, 52, 58, 71, 72, 75, 82, 84, 94, 108, 110, 111, 115, 124, 139, 146, 150, 157], "visibl": [12, 13, 46, 55, 114, 152], "render": [12, 24, 46, 55, 63, 167], "advantag": [12, 36, 47, 64, 81, 97, 110, 116, 141], "independ": [12, 25, 32, 36, 37], "contact": [12, 93, 96, 105], "u": [12, 13, 16, 26, 31, 34, 36, 37, 51, 52, 59, 60, 62, 64, 86, 93, 96, 102, 105, 106, 107, 108, 113, 125, 139, 148, 151, 157, 165], "storm": [12, 17, 26, 27, 48, 122, 125, 126, 127, 128, 130, 131, 132], "surg": [12, 17, 26, 27, 48, 122, 125, 126, 127, 128, 131, 157], "empti": [12, 36, 47, 103, 106, 109, 111, 147, 150, 157, 163], "gitmodul": 12, "pull": [12, 26, 28, 31, 58, 59, 61, 93, 101, 116, 121, 124, 125, 131, 134, 139], "request": [12, 26, 28, 32, 36, 37, 47, 58, 61, 77, 88, 93, 94, 98, 101, 103, 116, 124, 126, 131, 139, 150, 157, 163], "init": [12, 27, 30, 42, 48, 56, 59, 61, 142, 150], "leav": [12, 13, 16, 47, 62, 148, 163], "off": [12, 13, 47, 52, 55, 63, 71, 84, 91, 98, 115, 134, 148, 153, 163], "won": [12, 13, 70, 89, 163], "hurt": [12, 67], "maintain": [12, 30, 110, 126, 148, 161, 166], "flavor": [12, 23, 97], "demonstr": [12, 27, 93, 99], "agre": [12, 30, 42, 57, 139, 160, 163, 166], "seen": [12, 24, 34, 38, 39, 40, 52, 76, 101, 147, 152], "cloud": 13, "elast": [13, 75], "sign": [13, 26, 82, 131, 157], "account": [13, 26, 30, 59, 90, 99, 138], "750": 13, "free": [13, 55, 66, 75, 86, 90, 101, 105, 107], "micro": 13, "suffici": [13, 16, 18, 22, 36, 47, 75, 76, 77, 113, 118, 134, 147, 150], "tier": 13, "inform": [13, 14, 24, 27, 34, 35, 37, 38, 39, 49, 50, 51, 52, 53, 54, 62, 67, 77, 82, 83, 84, 88, 89, 94, 96, 98, 99, 100, 102, 103, 109, 111, 123, 126, 127, 129, 135, 137, 138, 139, 142, 145, 147, 148, 150, 157, 160, 161, 164, 165, 166, 167], "uw": [13, 26], "escienc": 13, "aw": 13, "tutori": [13, 31, 59, 84, 87, 91, 96, 105, 111, 114], "gear": 13, "faq": [13, 27, 81], "price": 13, "charg": 13, "per": [13, 32, 37, 47, 49, 55, 63, 71, 76, 97, 148], "thereof": 13, "regardless": [13, 37, 42, 70, 115, 147], "cpu": [13, 56, 123, 126, 128, 160], "consol": [13, 98, 150], "tab": [13, 58, 137], "east": [13, 161], "cheaper": 13, "rate": 13, "menu": [13, 20, 27, 58, 63, 125, 134, 135, 136, 137, 142, 165], "imag": [13, 38, 39, 42, 59, 63, 70, 116, 126, 141], "platform": [13, 55, 91, 99, 110, 116], "finish": [13, 82, 88], "load": [13, 63, 98, 100, 103, 109, 116, 163, 167], "databas": [13, 32, 75, 109, 113, 126, 161], "uwamath": 13, "bar": [13, 58, 157], "screen": [13, 30, 55, 63, 91, 98, 99, 123, 149, 151], "shapshot": 13, "machin": [13, 27, 76, 78, 116, 124, 145], "disk": [13, 47, 88, 97, 98, 116, 124], "ubuntu": 13, "linux": [13, 74, 85, 107, 116, 145], "popup": 13, "look": [13, 14, 24, 27, 30, 32, 42, 55, 58, 59, 63, 71, 82, 84, 89, 94, 99, 103, 104, 108, 109, 111, 116, 119, 126, 135, 141, 147, 148, 150, 160, 163, 164], "sort": [13, 42, 126, 146, 164], "larger": [13, 22, 34, 49, 55, 63, 75, 76, 77, 82, 94, 118, 124, 131, 148, 150, 161], "cost": [13, 104], "continu": [13, 24, 30, 32, 53, 58, 86, 110, 139, 147, 169], "eventu": [13, 48, 129], "don": [13, 29, 30, 58, 59, 82, 98, 99, 105, 116, 149, 164], "pair": [13, 97, 116, 163], "secur": 13, "quick": [13, 27, 39, 48, 50, 60, 85, 116, 159], "close": [13, 42, 55, 58, 63, 70, 71, 97, 115, 129, 148, 157], "back": [13, 29, 31, 58, 59, 125], "statu": [13, 30, 54, 91, 108], "wait": 13, "until": [13, 34, 64, 70, 136, 143], "refresh": [13, 47], "bottom": [13, 15, 32, 38, 39, 48, 52, 68, 70, 75, 88, 101, 102, 124, 125, 144, 155, 156], "scroll": 13, "down": [13, 32, 98, 123, 157, 161, 163], "dn": 13, "screenshot": [13, 55], "rjlkei": 13, "pem": 13, "abl": [13, 58, 111], "ssh": [13, 30], "keypair": 13, "50": [13, 17, 34, 55, 72, 104, 119, 149], "19": [13, 17, 26, 132, 133, 137, 160], "75": [13, 17, 92, 108, 141], "229": 13, "amazonaw": 13, "gfortran": [13, 62, 76, 85, 87, 107, 145, 164], "ipython": [13, 78, 82, 84, 89, 90, 96, 98, 105, 108, 111, 122, 123], "scipi": [13, 37, 89, 110, 136, 157, 163], "netcdf": [13, 37, 44, 48, 123, 126, 128, 130, 157, 163, 165], "apach": 13, "server": [13, 31, 42, 55, 58, 59, 70, 126, 161, 165], "apt": [13, 85], "fetch": [13, 51], "bring": [13, 55, 58, 71, 150], "master": [13, 15, 18, 27, 31, 49, 58, 59, 62, 101, 112, 123, 124, 125, 126, 127, 128, 129, 130, 131, 132, 133, 134, 135, 136, 137, 140, 144, 155, 156], "make_lib": 13, "compil": [13, 18, 27, 38, 39, 43, 50, 62, 67, 76, 78, 84, 85, 89, 96, 97, 101, 105, 109, 118, 139, 140, 145], "bashrc": [13, 44, 107, 145], "Of": [13, 28, 75, 108, 113, 161], "cours": [13, 28, 34, 47, 50, 64, 75, 99, 100, 108, 110, 113, 150, 161], "tar": [13, 63, 128, 137], "instruct": [13, 20, 26, 27, 38, 39, 42, 55, 56, 58, 59, 88, 90, 96, 99, 105, 108, 111, 125, 132, 134, 135, 136, 137, 138, 164], "window": [13, 32, 71, 84, 145], "respons": [13, 52, 88, 103], "pretti": 13, "slow": [13, 55, 98, 107], "_plot": [13, 38, 39, 47, 71, 84, 146, 152], "local": [13, 17, 22, 27, 30, 55, 58, 63, 66, 67, 71, 92, 94, 101, 106, 124, 126, 135, 143, 161, 163, 166], "sftp": 13, "much": [13, 30, 34, 36, 44, 49, 55, 77, 78, 81, 85, 110, 115, 118, 122, 129, 134, 135, 141, 147, 150, 160, 163], "smaller": [13, 36, 55, 68, 78, 94, 98, 118, 134, 143, 147, 149, 150, 151, 163], "quicker": [13, 141], "browser": [13, 30, 31, 38, 39, 55, 58, 152], "explain": [13, 34, 52, 70, 131, 147, 152], "webserv": 13, "inbound": 13, "port": [13, 31, 95, 96, 101, 148], "22": [13, 26, 148, 163], "80": [13, 17, 55, 99, 141], "drop": [13, 18, 58, 85, 129, 131, 143, 147], "tcp": 13, "Then": [13, 16, 30, 31, 32, 36, 47, 58, 59, 60, 67, 70, 75, 76, 84, 88, 91, 99, 105, 106, 107, 111, 139, 141, 163, 164], "someth": [13, 29, 30, 58, 66, 74, 81, 98, 103, 104, 111, 161, 164, 166], "shot": 13, "ln": 13, "expos": [13, 78], "home": [13, 31, 32, 62, 145], "scp": 13, "TO": [13, 65, 86], "send": [13, 26, 101, 139], "remot": [13, 55, 59, 126, 163, 165], "rel": [13, 18, 22, 32, 43, 50, 52, 55, 75, 76, 82, 96, 109, 111, 116, 119, 120, 121, 122, 123, 124, 125, 126, 127, 128, 129, 130, 131, 132, 133, 134, 135, 136, 142, 148, 150, 152, 161, 165], "end": [13, 31, 32, 34, 35, 36, 47, 51, 55, 59, 63, 91, 98, 102, 108, 110, 113, 115, 123, 124, 126, 138, 140, 141, 149, 151, 157, 160], "retriev": [13, 37, 51, 84, 89, 104, 163, 165], "sit": 13, "idl": 13, "action": [13, 14, 89], "restart": [13, 27, 47, 77, 84, 96, 123, 124, 125, 126, 128, 131, 135, 147, 149, 151], "later": [13, 36, 37, 42, 54, 55, 62, 84, 104, 138], "But": [13, 34, 42, 55, 72, 82, 107, 119, 126, 143, 145], "futur": [13, 19, 24, 27, 28, 38, 39, 42, 49, 52, 57, 63, 68, 88, 104, 110, 123, 124, 126, 129, 135, 148, 153, 157, 161], "job": [13, 133], "eb": 13, "runclaw": [14, 54, 119, 128, 130, 136, 139], "autom": [14, 58, 89, 116], "certain": [14, 34, 48, 61, 70, 98, 115, 123, 141, 147], "keep": [14, 27, 30, 34, 35, 37, 38, 39, 76, 88, 91, 96, 106, 109, 116, 119], "log": [14, 27, 30, 31, 94, 95, 96, 103, 104], "came": 14, "rundir": [14, 91], "environ": [14, 18, 27, 30, 38, 39, 40, 43, 54, 55, 58, 61, 62, 71, 74, 76, 78, 100, 107, 109, 111, 124, 163, 164], "noth": [15, 64, 106, 127, 144, 155, 156, 163, 166], "rememb": [15, 29, 76, 82, 99, 144, 155, 156], "b4step1": [15, 67, 166], "b4step2": [15, 144, 166], "b4step3": 15, "branch": [15, 18, 20, 27, 31, 44, 49, 54, 56, 59, 61, 62, 112, 116, 125, 126, 127, 128, 129, 130, 131, 132, 133, 134, 135, 136, 137, 144, 155, 156], "tag": [15, 55, 59, 61, 112, 144, 148, 149, 155, 156], "bathymetri": [15, 48, 52, 55, 63, 102, 113, 124, 126, 140, 142, 144, 150, 161, 163], "area": [15, 24, 48, 104, 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123, 124, 125, 126, 129, 131, 135, 139, 151, 153, 157, 160, 161, 163], "reveal": [18, 47, 108], "stabil": [18, 104, 131, 147], "report": [18, 26, 32, 34, 54, 111, 116, 123, 126, 145, 147, 149], "except": [18, 24, 29, 32, 42, 49, 97, 102, 109, 129, 136, 147, 150, 157, 161], "investig": [18, 116], "plane": [18, 32, 49, 75, 123, 141, 165], "planar": [18, 49, 75, 139, 140], "axisymmetr": [18, 49], "sphere": [18, 27, 32, 48, 49, 51, 89, 119, 135, 136, 140, 150], "topo": [18, 27, 34, 35, 42, 48, 49, 52, 55, 57, 63, 70, 72, 83, 111, 118, 120, 126, 128, 131, 135, 142, 150, 161, 163], "dtopo": [18, 27, 32, 35, 48, 52, 57, 63, 75, 111, 118, 120, 121, 129, 131, 143, 150, 161, 163, 165], "ident": [18, 42, 67, 94, 97, 99, 116, 163], "bouss_": 18, "bouss": [18, 49], "tridiagon": 18, "lapack": [18, 118], "fflag": [18, 30, 43, 66, 76, 89, 109, 161], "llapack": [18, 107], "lbla": [18, 107], "explicit": [18, 109, 148], "librarir": 18, "lapack_tridiag": 18, "soubroutin": 18, "bla": 18, 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125, 126, 127, 128, 129, 130, 131, 132, 133, 134, 135, 136], "tarfil": [20, 59, 62, 125, 126, 127, 128, 129, 130, 131, 132, 133, 134, 135, 136], "pip": [20, 27, 30, 55, 59, 60, 90, 96, 99, 105, 107, 111, 125, 126, 127, 128, 129, 130, 131, 132, 133, 134, 135, 136, 137, 145], "doc": [20, 25, 26, 30, 32, 55, 59, 92, 109, 110, 111, 125, 126, 127, 128, 129, 130, 131, 132, 133, 134, 135, 136, 154], "docker": [20, 27, 59, 60, 125, 126, 127, 128, 129, 130, 131, 132, 133, 134, 135, 136, 168], "migrat": 21, "intermedi": [21, 34, 37, 75, 138, 166], "easiest": [21, 30, 44, 78, 82, 84, 115, 166], "bulk": [21, 88, 102, 108, 139, 149, 166], "convers": [21, 27, 89, 97, 115, 141, 161, 165], "convert43to46": 21, "inspect": [21, 22, 55], "broken": [21, 22, 30, 75, 116], "renam": [22, 24, 38, 39, 66, 101, 104], "achiev": [22, 89, 155, 156], "convert46to50": 22, "_4": 22, "complet": [22, 24, 30, 51, 66, 84, 88, 89, 99, 109, 116, 136], "delet": [22, 30, 58, 62, 136], "variant": [22, 60, 109, 116], "combin": 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"changes-to-geoclaw"], [135, "changes-to-geoclaw"], [136, "changes-to-geoclaw"]], "Changes to PyClaw": [[20, "changes-to-pyclaw"], [117, "changes-to-pyclaw"], [118, "changes-to-pyclaw"], [119, "changes-to-pyclaw"], [120, "changes-to-pyclaw"], [121, "changes-to-pyclaw"], [122, "changes-to-pyclaw"], [123, "changes-to-pyclaw"], [124, "changes-to-pyclaw"], [125, "changes-to-pyclaw"], [126, "changes-to-pyclaw"], [127, "changes-to-pyclaw"], [128, "changes-to-pyclaw"], [129, "changes-to-pyclaw"], [130, "changes-to-pyclaw"], [131, "changes-to-pyclaw"], [132, "changes-to-pyclaw"], [133, "changes-to-pyclaw"], [134, "changes-to-pyclaw"], [135, "changes-to-pyclaw"], [136, "changes-to-pyclaw"]], "Other Clawpack Repositories": [[20, "other-clawpack-repositories"], [125, "other-clawpack-repositories"], [126, "other-clawpack-repositories"], [127, "other-clawpack-repositories"], [128, "other-clawpack-repositories"], [129, "other-clawpack-repositories"], [130, "other-clawpack-repositories"], [131, "other-clawpack-repositories"], [132, "other-clawpack-repositories"], [133, "other-clawpack-repositories"], [134, "other-clawpack-repositories"], [135, "other-clawpack-repositories"], [136, "other-clawpack-repositories"]], "Converting from Clawpack 4.3 to 4.6": [[21, "converting-from-clawpack-4-3-to-4-6"]], "Converting from Clawpack 4.6 to 5.0": [[22, "converting-from-clawpack-4-6-to-5-0"]], "Python conversion tool": [[22, "python-conversion-tool"]], "Clawpack 4.x links": [[23, "clawpack-4-x-links"]], "Changes in Clawpack 5.0": [[24, "changes-in-clawpack-5-0"]], "PyClaw in 5.0": [[24, "pyclaw-in-5-0"]], "Fortran package changes": [[24, "fortran-package-changes"]], "Changes to input parameters in setrun.py from 4.x to 5.0": [[24, "changes-to-input-parameters-in-setrun-py-from-4-x-to-5-0"]], "Changes to general parameters": [[24, "changes-to-general-parameters"]], "Changes to AMR parameters": [[24, "changes-to-amr-parameters"]], "Changes to GeoClaw parameters": [[24, "changes-to-geoclaw-parameters"]], "Changes to plotting routines": [[24, "changes-to-plotting-routines"]], "Clawpack components": [[25, "clawpack-components"]], "Other repositories": [[25, "other-repositories"]], "Clawpack Community": [[26, "clawpack-community"]], "User Workshops, Clinics, and Tutorials": [[26, "user-workshops-clinics-and-tutorials"]], "Available for streaming": [[26, "available-for-streaming"]], "Upcoming": [[26, "upcoming"], [26, "id1"]], "Recent": [[26, "recent"]], "Developer Workshops and Sprint Sessions": [[26, "developer-workshops-and-sprint-sessions"]], "Previous": [[26, "previous"]], "Other Clawpack events": [[26, "other-clawpack-events"]], "Contents": [[27, "id1"], [30, "contents"], [42, "contents"], [70, "contents"], [82, "contents"], [88, "contents"], [98, "contents"], [104, "contents"], [116, "contents"], [141, "contents"]], "Full Table of Contents": [[27, "full-table-of-contents"]], "Overview and Getting Started": [[27, "overview-and-getting-started"]], "Examples and Applications": [[27, "examples-and-applications"]], "Classic, AMRClaw, and GeoClaw": [[27, "classic-amrclaw-and-geoclaw"]], "Using the Fortran codes": [[27, "using-the-fortran-codes"]], "AMRClaw: adaptive mesh refinement": [[27, "amrclaw-adaptive-mesh-refinement"]], "GeoClaw: geophysical flows": [[27, "geoclaw-geophysical-flows"]], "PyClaw": [[27, "pyclaw"], [38, "pyclaw"], [96, "pyclaw"], [116, "pyclaw"], [159, "pyclaw"]], "Riemann": [[27, "riemann"]], "VisClaw: Plotting and Visualization Tools": [[27, "visclaw-plotting-and-visualization-tools"]], "Migrating applications from older versions of Clawpack": [[27, "migrating-applications-from-older-versions-of-clawpack"]], "Developers\u2019 resources": [[27, "developers-resources"]], "References": [[27, "references"], [56, "references"]], "Contributing examples and applications": [[28, "contributing-examples-and-applications"]], "current_data": [[29, "current-data"]], "Attributes of current_data:": [[29, "attributes-of-current-data"]], "Developers\u2019 Guide": [[30, "developers-guide"]], "Guidelines for contributing": [[30, "guidelines-for-contributing"]], "Reporting and fixing bugs": [[30, "reporting-and-fixing-bugs"]], "Developer communication": [[30, "developer-communication"]], "Installation instructions for developers": [[30, "installation-instructions-for-developers"]], "Cloning the most recent code from Github": [[30, "cloning-the-most-recent-code-from-github"]], "Checking out the master branch on each repository": [[30, "checking-out-the-master-branch-on-each-repository"]], "Updating to the latest master branch": [[30, "updating-to-the-latest-master-branch"]], "Never commit to master": [[30, "never-commit-to-master"]], "Adding your fork as a remote": [[30, "adding-your-fork-as-a-remote"]], "Modifying code": [[30, "modifying-code"]], "Issuing a pull request": [[30, "issuing-a-pull-request"]], "Testing a pull request": [[30, "testing-a-pull-request"]], "Top-level pull requests": [[30, "top-level-pull-requests"]], "Git workflow": [[30, "git-workflow"]], "Catching errors with Pyflakes and Pylint": [[30, "catching-errors-with-pyflakes-and-pylint"]], "Checking test coverage": [[30, "checking-test-coverage"]], "Trouble-Shooting Tips": [[30, "trouble-shooting-tips"]], "Docker for Clawpack": [[31, "docker-for-clawpack"]], "Using Version 5.9.0 or above": [[31, "using-version-5-9-0-or-above"]], "Getting started": [[31, "getting-started"]], "Stopping a container": [[31, "stopping-a-container"]], "Restarting a container": [[31, "restarting-a-container"]], "Running Jupyter notebooks": [[31, "running-jupyter-notebooks"]], "Moving files between the docker container and the host machine": [[31, "moving-files-between-the-docker-container-and-the-host-machine"]], "Some other useful docker commands": [[31, "some-other-useful-docker-commands"]], "Creating your own docker image": [[31, "creating-your-own-docker-image"]], "Dockerfiles for binder": [[31, "dockerfiles-for-binder"]], "dtopotools module for moving topography": [[32, "dtopotools-module-for-moving-topography"]], "Documentation auto-generated from the module docstrings": [[32, "module-clawpack.geoclaw.dtopotools"], [35, "module-clawpack.geoclaw.fgmax_tools"], [37, "module-clawpack.geoclaw.fgout_tools"], [51, "module-clawpack.geoclaw.util"], [63, "module-clawpack.geoclaw.kmltools"], [163, "module-clawpack.geoclaw.topotools"]], "Fortran 77 vs. Fortran 90 files": [[33, "fortran-77-vs-fortran-90-files"]], "Fixed grid monitoring": [[34, "fixed-grid-monitoring"]], "Input file specification": [[34, "input-file-specification"], [36, "input-file-specification"]], "Different point styles": [[34, "different-point-styles"]], "Other attributes": [[34, "other-attributes"]], "Values to monitor": [[34, "values-to-monitor"]], "Choice of interpolation procedure": [[34, "choice-of-interpolation-procedure"], [36, "choice-of-interpolation-procedure"]], "A simple example": [[34, "a-simple-example"], [36, "a-simple-example"]], "Processing and plotting fgmax output": [[34, "processing-and-plotting-fgmax-output"]], "Format of the output files": [[34, "format-of-the-output-files"]], "fgmax_tools module for working with fgmax grids": [[35, "fgmax-tools-module-for-working-with-fgmax-grids"]], "Fixed grid output": [[36, "fixed-grid-output"], [150, "fixed-grid-output"]], "Format of fgout output": [[36, "format-of-fgout-output"]], "Using setplot.py to produce plots": [[36, "using-setplot-py-to-produce-plots"]], "Reading and plotting fgout arrays directly": [[36, "reading-and-plotting-fgout-arrays-directly"]], "fgout grid registration": [[36, "fgout-grid-registration"]], "fgout_tools module for working with fgout grids": [[37, "fgout-tools-module-for-working-with-fgout-grids"]], "Running an example": [[38, "running-an-example"], [39, "running-an-example"], [40, "running-an-example"]], "Classic": [[38, "classic"], [39, "classic"], [159, "classic"]], "Testing your Fortran installation and running an example": [[39, "testing-your-fortran-installation-and-running-an-example"]], "More examples": [[39, "more-examples"]], "Testing a PyClaw installation and running an example": [[40, "testing-a-pyclaw-installation-and-running-an-example"]], "From the Jupyter notebook": [[40, "from-the-jupyter-notebook"]], "From the IPython interpreter": [[40, "from-the-ipython-interpreter"]], "From the command line": [[40, "from-the-command-line"], [93, "from-the-command-line"]], "Specifying flagregions for adaptive refinement": [[41, "specifying-flagregions-for-adaptive-refinement"]], "Using ruled rectangles as flagregions": [[41, "using-ruled-rectangles-as-flagregions"]], "Force Cells to be Dry Initially": [[42, "force-cells-to-be-dry-initially"]], "Examples": [[42, "examples"], [47, "examples"], [70, "examples"], [96, "examples"], [141, "examples"]], "Sample topography from a 1/3 arcsecond DEM": [[42, "sample-topography-from-a-1-3-arcsecond-dem"], [70, "sample-topography-from-a-1-3-arcsecond-dem"]], "Creating the force_dry_init array": [[42, "creating-the-force-dry-init-array"]], "Create file to read into GeoClaw": [[42, "create-file-to-read-into-geoclaw"]], "Usage in GeoClaw Fortran code": [[42, "usage-in-geoclaw-fortran-code"]], "Internal GeoClaw modifications": [[42, "internal-geoclaw-modifications"]], "Fortran version": [[43, "fortran-version"]], "Makefiles": [[43, "makefiles"]], "More tips": [[43, "more-tips"]], "Fortran Compilers": [[44, "fortran-compilers"]], "FC environment variable": [[44, "fc-environment-variable"]], "FFLAGS environment variable": [[44, "fflags-environment-variable"]], "LFLAGS environment variable": [[44, "lflags-environment-variable"]], "Pre-Processor and the PPFLAGS environment variable": [[44, "pre-processor-and-the-ppflags-environment-variable"]], "gfortran compiler": [[44, "gfortran-compiler"]], "Intel fortran compiler": [[44, "intel-fortran-compiler"]], "Examples from the book FVMHP": [[45, "examples-from-the-book-fvmhp"]], "Available examples": [[45, "available-examples"]], "Clawpack Gallery": [[46, "clawpack-gallery"]], "Gauges": [[47, "gauges"]], "Gauge parameters in setrun": [[47, "gauge-parameters-in-setrun"]], "Plotting tools": [[47, "plotting-tools"]], "Plotting gauge locations": [[47, "plotting-gauge-locations"]], "GeoClaw Description and Detailed Contents": [[48, "geoclaw-description-and-detailed-contents"]], "GeoClaw in One Space Dimension": [[49, "geoclaw-in-one-space-dimension"]], "Coordinate systems": [[49, "coordinate-systems"]], "Uniform and mapped grids": [[49, "uniform-and-mapped-grids"]], "Topograpy data": [[49, "topograpy-data"]], "Moving topograpy (dtopo) data": [[49, "moving-topograpy-dtopo-data"]], "Getting started with GeoClaw": [[50, "getting-started-with-geoclaw"]], "Running a GeoClaw code": [[50, "running-a-geoclaw-code"]], "Topography": [[50, "topography"]], "Plotting GeoClaw results": [[50, "plotting-geoclaw-results"]], "Setting up a new example": [[50, "setting-up-a-new-example"]], "geoclaw.util module of utility functions": [[51, "geoclaw-util-module-of-utility-functions"]], "Cautionary Hints on using GeoClaw": [[52, "cautionary-hints-on-using-geoclaw"]], "Tsunami hazard modeling": [[52, "tsunami-hazard-modeling"]], "GeoClaw plotting tools": [[53, "geoclaw-plotting-tools"]], "Plotting water depth or surface elevation": [[53, "plotting-water-depth-or-surface-elevation"]], "Tips on latitude-longitude coordinate axes": [[53, "tips-on-latitude-longitude-coordinate-axes"]], "Keeping track of repository versions with Git": [[54, "keeping-track-of-repository-versions-with-git"]], "Visualizing GeoClaw results in Google Earth": [[55, "visualizing-geoclaw-results-in-google-earth"]], "Basic requirements": [[55, "basic-requirements"]], "Optional GDAL library": [[55, "optional-gdal-library"]], "An example : The Chile 2010 tsunami event": [[55, "an-example-the-chile-2010-tsunami-event"]], "Plotting attributes needed for Google Earth": [[55, "plotting-attributes-needed-for-google-earth"]], "plotdata attributes": [[55, "plotdata-attributes"]], "plotfigure attributes": [[55, "plotfigure-attributes"]], "Creating the figures": [[55, "creating-the-figures"]], "plotaxes attributes": [[55, "plotaxes-attributes"]], "plotitem attributes": [[55, "plotitem-attributes"]], "Adding a colorbar overlay": [[55, "adding-a-colorbar-overlay"]], "Gauge plots": [[55, "gauge-plots"]], "Additional plotdata attributes": [[55, "additional-plotdata-attributes"]], "Plotting tips": [[55, "plotting-tips"]], "KML and KMZ files": [[55, "kml-and-kmz-files"]], "Tiling images for faster loading": [[55, "tiling-images-for-faster-loading"]], "Removing aliasing artifacts": [[55, "removing-aliasing-artifacts"]], "Creating multiple figures at different resolutions": [[55, "creating-multiple-figures-at-different-resolutions"]], "Mapping topography data to latitude/longitude coordinates": [[55, "mapping-topography-data-to-latitude-longitude-coordinates"]], "Publishing your results": [[55, "id1"]], "Using the GPU version of Clawpack": [[56, "using-the-gpu-version-of-clawpack"]], "Grid registration": [[57, "grid-registration"]], "NetCDF files": [[57, "netcdf-files"]], "Guide for updating this documentation": [[58, "guide-for-updating-this-documentation"]], "Git branches and tags": [[58, "git-branches-and-tags"]], "Configuration and style files": [[58, "configuration-and-style-files"]], "Updating the docs for a new release": [[58, "updating-the-docs-for-a-new-release"]], "To generate docs including previous versions": [[58, "to-generate-docs-including-previous-versions"]], "Updating for a new major version": [[58, "updating-for-a-new-major-version"]], "Updating the gallery": [[58, "updating-the-gallery"]], "Updating the webpages": [[58, "updating-the-webpages"]], "Extra files for webpages not built by Sphinx": [[58, "extra-files-for-webpages-not-built-by-sphinx"]], "Pages from other clawpack repositories": [[58, "pages-from-other-clawpack-repositories"]], "Guide for doing a Clawpack release": [[59, "guide-for-doing-a-clawpack-release"]], "Preparation": [[59, "preparation"]], "Version numbers": [[59, "version-numbers"]], "Release candidates": [[59, "release-candidates"]], "Create a tar file and a Github release": [[59, "create-a-tar-file-and-a-github-release"]], "Final release": [[59, "final-release"]], "Pypi": [[59, "pypi"]], "Zenodo": [[59, "zenodo"]], "Open Science Framework (OSF)": [[59, "open-science-framework-osf"]], "Updating the documentation": [[59, "updating-the-documentation"]], "Updating the apps repository": [[59, "updating-the-apps-repository"]], "Updating the Dockerfile": [[59, "updating-the-dockerfile"]], "Installing Clawpack": [[60, "installing-clawpack"]], "Next steps:": [[60, "next-steps"], [61, "next-steps"], [62, "next-steps"]], "Options for installing Clawpack Fortran codes": [[61, "options-for-installing-clawpack-fortran-codes"]], "tar file": [[61, "tar-file"]], "git clone": [[61, "git-clone"]], "pip install instructions": [[62, "pip-install-instructions"]], "Quick Installation of PyClaw with pip": [[62, "quick-installation-of-pyclaw-with-pip"]], "Quick Installation of all packages with pip": [[62, "quick-installation-of-all-packages-with-pip"]], "Using pip to install a different version": [[62, "using-pip-to-install-a-different-version"]], "Experimenting with code in the examples directories": [[62, "experimenting-with-code-in-the-examples-directories"]], "Troubleshooting pip install": [[62, "troubleshooting-pip-install"]], "kmltools module of utility functions": [[63, "kmltools-module-of-utility-functions"]], "Lagrangian gauges for particle tracking": [[64, "lagrangian-gauges-for-particle-tracking"]], "Specifying Lagrangian Gauges": [[64, "specifying-lagrangian-gauges"]], "Visclaw tools for plotting": [[64, "visclaw-tools-for-plotting"]], "An alternative using fgout grids": [[64, "an-alternative-using-fgout-grids"]], "Clawpack Makefiles": [[66, "clawpack-makefiles"]], "Applications directory Makefiles": [[66, "applications-directory-makefiles"]], "output": [[66, "output"]], "plots": [[66, "plots"]], "Variables": [[66, "variables"]], "Compiler flags": [[66, "compiler-flags"]], "Duplicate Base Source Name": [[66, "duplicate-base-source-name"]], "Library routines in Makefiles": [[67, "library-routines-in-makefiles"]], "Replacing files with the same name as library files": [[67, "replacing-files-with-the-same-name-as-library-files"]], "Using a modified library routine with a different name": [[67, "using-a-modified-library-routine-with-a-different-name"]], "Manning friction term": [[68, "manning-friction-term"]], "The mapc2p function": [[69, "the-mapc2p-function"]], "Marching Front algorithm": [[70, "marching-front-algorithm"]], "Function arguments": [[70, "function-arguments"]], "output array": [[70, "output-array"]], "creating a masked array": [[70, "creating-a-masked-array"]], "topofile mask for initializing dry points": [[70, "topofile-mask-for-initializing-dry-points"]], "fgmax points": [[70, "fgmax-points"]], "flag regions": [[70, "flag-regions"]], "The mask argument": [[70, "the-mask-argument"]], "The previous_pts_chosen argument": [[70, "the-previous-pts-chosen-argument"]], "Finding all points below a given elevation": [[70, "finding-all-points-below-a-given-elevation"]], "Create a buffer zone along shore": [[70, "create-a-buffer-zone-along-shore"]], "Choose points only near shore": [[70, "choose-points-only-near-shore"]], "Write out the masked array indicating fgmax points": [[70, "write-out-the-masked-array-indicating-fgmax-points"]], "Creating an AMR flag region": [[70, "creating-an-amr-flag-region"]], "Determining dry areas below MHW": [[70, "determining-dry-areas-below-mhw"]], "Plotting using Matlab": [[71, "plotting-using-matlab"]], "The Matlab search path": [[71, "the-matlab-search-path"]], "Creating output files": [[71, "creating-output-files"]], "The plotclaw command": [[71, "the-plotclaw-command"]], "The setplot file": [[71, "the-setplot-file"]], "The afterframe file": [[71, "the-afterframe-file"]], "Getting help": [[71, "getting-help"]], "Trouble shooting": [[71, "trouble-shooting"]], "Output files not found": [[71, "output-files-not-found"]], "MaxFrames not set": [[71, "maxframes-not-set"]], "Switching examples": [[71, "switching-examples"]], "Matlab Gallery": [[71, "matlab-gallery"]], "Nearshore interpolation": [[72, "nearshore-interpolation"]], "Using NetCDF output": [[73, "using-netcdf-output"]], "Creating a new application directory": [[74, "creating-a-new-application-directory"]], "Copying an existing example": [[74, "copying-an-existing-example"]], "Earthquake sources: Fault slip and the Okada model": [[75, "earthquake-sources-fault-slip-and-the-okada-model"]], "Fault slip on rectangular subfaults": [[75, "fault-slip-on-rectangular-subfaults"]], "Okada model": [[75, "okada-model"]], "Kinematic rupture": [[75, "kinematic-rupture"]], "Fault slip on triangular subfaults": [[75, "fault-slip-on-triangular-subfaults"]], "Using OpenMP": [[76, "using-openmp"]], "Using OpenMP with AMR": [[76, "using-openmp-with-amr"]], "Fixed grid output in GeoClaw": [[76, "fixed-grid-output-in-geoclaw"]], "Output data sytles and formats": [[77, "output-data-sytles-and-formats"]], "Output style": [[77, "output-style"]], "Output data formats": [[77, "output-data-formats"]], "ASCII output data format": [[77, "ascii-output-data-format"]], "fort.t0002": [[77, "fort-t0002"]], "fort.q0002": [[77, "fort-q0002"]], "Raw binary output data formats": [[77, "raw-binary-output-data-formats"]], "NetCDF output data format": [[77, "netcdf-output-data-format"]], "Output of aux arrays": [[77, "output-of-aux-arrays"]], "Which Clawpack solver should I use?": [[78, "which-clawpack-solver-should-i-use"]], "Installation and user interface": [[78, "installation-and-user-interface"]], "Algorithmic differences": [[78, "algorithmic-differences"]], "Parallel computing": [[78, "parallel-computing"]], "Clawpack Community Photos": [[79, "clawpack-community-photos"]], "2016 Developers\u2019 workshop at University of Washington": [[79, "id1"]], "2015 Developers\u2019 workshop at University of Utah": [[79, "id2"]], "2014 HPC3 workshop at KAUST": [[79, "id3"]], "2013 Claw-Dev workshop at UW": [[79, "id4"]], "2012 HPC3 workshop at KAUST": [[79, "id6"]], "2011 coding sprints at UW": [[79, "coding-sprints-at-uw"]], "2010 GeoClaw hacking UW": [[79, "geoclaw-hacking-uw"]], "Plotting examples": [[80, "plotting-examples"]], "Plotting with Visclaw": [[81, "plotting-with-visclaw"]], "Plotting as post-processing": [[81, "plotting-as-post-processing"]], "Plotting on the fly": [[81, "plotting-on-the-fly"]], "Plotting hints and FAQ": [[82, "plotting-hints-and-faq"]], "What\u2019s the difference between make .plots and make plots ?": [[82, "what-s-the-difference-between-make-plots-and-make-plots"]], "How to plot a something other than a component of q?": [[82, "how-to-plot-a-something-other-than-a-component-of-q"]], "How to add another curve to a plot, e.g. the true solution?": [[82, "how-to-add-another-curve-to-a-plot-e-g-the-true-solution"]], "How to change the title in a plot?": [[82, "how-to-change-the-title-in-a-plot"]], "How to specify outdir, the directory to find fort.* files for plotting?": [[82, "how-to-specify-outdir-the-directory-to-find-fort-files-for-plotting"]], "How to specify a different outdir for some plot item?": [[82, "how-to-specify-a-different-outdir-for-some-plot-item"]], "How to set plot parameters that are not provided as attributes of ClawPlotItem?": [[82, "how-to-set-plot-parameters-that-are-not-provided-as-attributes-of-clawplotitem"]], "How to change the size or background color of a figure?": [[82, "how-to-change-the-size-or-background-color-of-a-figure"]], "Specifying colormaps for pcolor or contourf plots": [[82, "specifying-colormaps-for-pcolor-or-contourf-plots"]], "How to debug setplot.py?": [[82, "how-to-debug-setplot-py"]], "Plotting routines for GeoClaw": [[83, "plotting-routines-for-geoclaw"]], "Plotting options in Python": [[84, "plotting-options-in-python"]], "Producing html plots from the command line": [[84, "producing-html-plots-from-the-command-line"]], "Producing a latex file with plots from the command line": [[84, "producing-a-latex-file-with-plots-from-the-command-line"]], "Setting plot parameters with a setplot function": [[84, "setting-plot-parameters-with-a-setplot-function"]], "Interactive plotting with Iplotclaw": [[84, "interactive-plotting-with-iplotclaw"]], "Access to current_data": [[84, "access-to-current-data"]], "printframes": [[84, "printframes"]], "Specifying what and how to plot": [[84, "specifying-what-and-how-to-plot"]], "Installation Prerequisites": [[85, "installation-prerequisites"]], "Operating system": [[85, "operating-system"]], "Fortran": [[85, "fortran"]], "Python": [[85, "python"]], "pip": [[85, "pip"]], "Git": [[85, "git"]], "About PyClaw": [[86, "about-pyclaw"]], "Contributors": [[86, "contributors"]], "PyClaw Basics": [[87, "pyclaw-basics"]], "Understanding Pyclaw Classes": [[88, "understanding-pyclaw-classes"]], "Flow of a Pyclaw Simulation": [[88, "flow-of-a-pyclaw-simulation"]], "Creation of a Pyclaw Solution": [[88, "creation-of-a-pyclaw-solution"]], "Creation of a Pyclaw Solver": [[88, "creation-of-a-pyclaw-solver"]], "Creating and Running a Simulation with Controller": [[88, "creating-and-running-a-simulation-with-controller"]], "Restarting a simulation": [[88, "restarting-a-simulation"]], "Outputting aux values": [[88, "outputting-aux-values"]], "Outputting derived quantities": [[88, "outputting-derived-quantities"], [98, "outputting-derived-quantities"]], "Porting a problem from Clawpack 4.6.x to PyClaw": [[89, "porting-a-problem-from-clawpack-4-6-x-to-pyclaw"]], "Running PyClaw in the cloud": [[90, "running-pyclaw-in-the-cloud"]], "Sage Math Cloud": [[90, "sage-math-cloud"]], "Pyclaw Controller Class": [[91, "pyclaw-controller-class"]], "pyclaw.controller.Controller": [[91, "pyclaw-controller-controller"]], "Pyclaw Limiters": [[92, "pyclaw-limiters"]], "clawpack.pyclaw.limiters.tvd": [[92, "module-clawpack.pyclaw.limiters.tvd"]], "CFL Independent Limiters": [[92, "cfl-independent-limiters"]], "CFL Dependent Limiters": [[92, "cfl-dependent-limiters"]], "Working with PyClaw\u2019s built-in examples": [[93, "working-with-pyclaw-s-built-in-examples"]], "Running and plotting examples": [[93, "running-and-plotting-examples"]], "Interactively in IPython": [[93, "interactively-in-ipython"]], "Built-in examples": [[93, "built-in-examples"]], "Adding new examples": [[93, "adding-new-examples"]], "PyClaw Geometry": [[94, "pyclaw-geometry"]], "Serial Geometry Objects": [[94, "serial-geometry-objects"]], "pyclaw.geometry.Domain": [[94, "pyclaw-geometry-domain"]], "pyclaw.geometry.Patch": [[94, "pyclaw-geometry-patch"]], "pyclaw.geometry.Grid": [[94, "pyclaw-geometry-grid"]], "pyclaw.geometry.Dimension": [[94, "pyclaw-geometry-dimension"]], "Parallel Geometry Objects": [[94, "parallel-geometry-objects"]], "petclaw.geometry.Domain": [[94, "petclaw-geometry-domain"]], "petclaw.geometry.Patch": [[94, "petclaw-geometry-patch"]], "Going Further": [[95, "going-further"]], "PyClaw installation": [[96, "pyclaw-installation"]], "Features": [[96, "features"]], "PyClaw Documentation": [[96, "pyclaw-documentation"]], "PyClaw Modules reference documentation": [[96, "pyclaw-modules-reference-documentation"]], "Riemann Solvers reference documentation": [[96, "riemann-solvers-reference-documentation"]], "Indices and tables": [[96, "indices-and-tables"]], "Citing PyClaw": [[96, "citing-pyclaw"]], "Pyclaw Input/Output Package": [[97, "pyclaw-input-output-package"]], "pyclaw.fileio.ascii": [[97, "module-clawpack.pyclaw.fileio.ascii"]], "pyclaw.fileio.binary": [[97, "module-clawpack.pyclaw.fileio.binary"]], "pyclaw.fileio.hdf5": [[97, "pyclaw-fileio-hdf5"]], "pyclaw.fileio.netcdf": [[97, "module-clawpack.pyclaw.fileio.netcdf"]], "PyClaw output": [[98, "pyclaw-output"]], "Output frames": [[98, "output-frames"]], "When output is saved/written": [[98, "when-output-is-saved-written"]], "Where and how output is written": [[98, "where-and-how-output-is-written"]], "What output is written": [[98, "what-output-is-written"]], "Outputting functionals": [[98, "outputting-functionals"]], "Using gauges": [[98, "using-gauges"]], "Logging": [[98, "logging"]], "Running in parallel": [[99, "running-in-parallel"]], "Installing PETSc": [[99, "installing-petsc"]], "Testing your installation": [[99, "testing-your-installation"], [159, "testing-your-installation"]], "Running and plotting an example": [[99, "running-and-plotting-an-example"]], "Tips for making your application run correctly in parallel": [[99, "tips-for-making-your-application-run-correctly-in-parallel"]], "Passing options to PETSc": [[99, "passing-options-to-petsc"]], "Plotting PyClaw results": [[100, "plotting-pyclaw-results"]], "Basics": [[100, "basics"]], "Plotting result from parallel runs": [[100, "plotting-result-from-parallel-runs"]], "Setting up your own problem": [[101, "setting-up-your-own-problem"]], "Writing the initialization script": [[101, "writing-the-initialization-script"]], "Setting initial conditions": [[101, "setting-initial-conditions"]], "Setting auxiliary variables": [[101, "setting-auxiliary-variables"]], "Setting boundary conditions": [[101, "setting-boundary-conditions"]], "Setting solver options": [[101, "setting-solver-options"]], "Using your own Riemann solver": [[101, "using-your-own-riemann-solver"]], "Adding source terms": [[101, "adding-source-terms"]], "Setting up the Makefile": [[101, "setting-up-the-makefile"]], "Riemann Solver Package": [[102, "riemann-solver-package"]], "Acoustics": [[102, "acoustics"]], "Advection": [[102, "advection"]], "Burgers Equation": [[102, "burgers-equation"]], "Euler Equations": [[102, "euler-equations"]], "Shallow Water Equations": [[102, "shallow-water-equations"]], "PyClaw Solutions": [[103, "pyclaw-solutions"]], "pyclaw.solution.Solution": [[103, "pyclaw-solution-solution"]], "Using PyClaw\u2019s solvers: Classic and SharpClaw": [[104, "using-pyclaw-s-solvers-classic-and-sharpclaw"]], "SharpClaw Solvers": [[104, "sharpclaw-solvers"]], "pyclaw.sharpclaw": [[104, "pyclaw-sharpclaw"]], "Pyclaw Classic Clawpack Solvers": [[104, "pyclaw-classic-clawpack-solvers"]], "pyclaw.classic.solver": [[104, "pyclaw-classic-solver"]], "Change to Custom BC Function Signatures": [[104, "change-to-custom-bc-function-signatures"]], "Installing PyClaw": [[105, "installing-pyclaw"]], "Dependencies: Python, gfortran, numpy, and matplotlib": [[105, "dependencies-python-gfortran-numpy-and-matplotlib"]], "Obtaining Python, numpy, and matplotlib": [[105, "obtaining-python-numpy-and-matplotlib"]], "Clawpack": [[105, "clawpack"]], "Testing your installation with nose": [[105, "testing-your-installation-with-nose"]], "Next steps": [[105, "next-steps"]], "PyClaw State": [[106, "pyclaw-state"]], "Serial pyclaw.state.State": [[106, "serial-pyclaw-state-state"]], "Parallel petclaw.state.State": [[106, "parallel-petclaw-state-state"]], "Troubleshooting": [[107, "troubleshooting"], [164, "troubleshooting"]], "Compilation errors": [[107, "compilation-errors"]], "Use Fortran-ordered arrays": [[107, "use-fortran-ordered-arrays"]], "Installation": [[107, "installation"]], "PyClaw tutorial: Solve the acoustics equations": [[108, "pyclaw-tutorial-solve-the-acoustics-equations"]], "The Solver": [[108, "the-solver"]], "The domain": [[108, "the-domain"]], "Initial condition": [[108, "initial-condition"]], "Problem-specific parameters": [[108, "problem-specific-parameters"]], "The controller": [[108, "the-controller"]], "Pyclaw Utility Module": [[109, "pyclaw-utility-module"]], "pyclaw.util": [[109, "module-clawpack.pyclaw.util"]], "Python Hints": [[110, "python-hints"]], "Dropping support for Python 2.7": [[110, "dropping-support-for-python-2-7"]], "References and tutorials": [[110, "references-and-tutorials"]], "Notebooks": [[110, "notebooks"]], "Python path": [[111, "python-path"]], "whichclaw.py": [[111, "whichclaw-py"]], "Which version was imported?": [[111, "which-version-was-imported"]], "sys.path": [[111, "sys-path"]], "easy-install.pth": [[111, "easy-install-pth"]], "PYTHONPATH": [[111, "pythonpath"], [145, "pythonpath"]], "qinit default routines": [[112, "qinit-default-routines"]], "qinit routine in GeoClaw": [[112, "qinit-routine-in-geoclaw"]], "Quick start guide for storm surge modeling": [[113, "quick-start-guide-for-storm-surge-modeling"]], "Quick start guide for tsunami modeling": [[114, "quick-start-guide-for-tsunami-modeling"]], "AMR refinement criteria": [[115, "amr-refinement-criteria"]], "Flagging criteria": [[115, "flagging-criteria"]], "flag2refine": [[115, "flag2refine"]], "Richardson extrapolation": [[115, "richardson-extrapolation"]], "Specifying AMR regions": [[115, "specifying-amr-regions"]], "Implementation": [[115, "implementation"]], "Flagging criteria in GeoClaw": [[115, "flagging-criteria-in-geoclaw"]], "Regression testing": [[116, "regression-testing"]], "Running the tests": [[116, "running-the-tests"], [116, "id2"]], "Fortran codes": [[116, "fortran-codes"]], "Travis continuous integration": [[116, "travis-continuous-integration"]], "Diff tools for checking test output": [[116, "diff-tools-for-checking-test-output"]], "chardiff tool for line-by-line comparison of output files": [[116, "chardiff-tool-for-line-by-line-comparison-of-output-files"]], "imagediff tool for pixel comparison of plots": [[116, "imagediff-tool-for-pixel-comparison-of-plots"]], "Running and writing tests in PyClaw": [[116, "running-and-writing-tests-in-pyclaw"]], "Running serial tests simultaneously": [[116, "running-serial-tests-simultaneously"]], "Running a specific test": [[116, "running-a-specific-test"]], "Doctests": [[116, "doctests"]], "Writing New Tests": [[116, "writing-new-tests"]], "v5.0.0 release notes": [[117, "v5-0-0-release-notes"]], "Changes to classic, riemann, amrclaw, geoclaw, visclaw": [[117, "changes-to-classic-riemann-amrclaw-geoclaw-visclaw"]], "v5.1.0 release notes": [[118, "v5-1-0-release-notes"]], "v5.2.0 release notes": [[119, "v5-2-0-release-notes"]], "v5.2.1 release notes": [[120, "v5-2-1-release-notes"]], "v5.2.2 release notes": [[121, "v5-2-2-release-notes"]], "v5.3.0 release notes": [[122, "v5-3-0-release-notes"]], "v5.3.1 release notes": [[123, "v5-3-1-release-notes"]], "v5.4.0 release notes": [[124, "v5-4-0-release-notes"]], "Global changes": [[124, "global-changes"]], "v5.4.1 release notes": [[125, "v5-4-1-release-notes"]], "Changes to documentation": [[125, "changes-to-documentation"], [126, "changes-to-documentation"]], "v5.5.0 release notes": [[126, "v5-5-0-release-notes"]], "v5.6.0 release notes": [[127, "v5-6-0-release-notes"]], "v5.6.1 release notes": [[128, "v5-6-1-release-notes"]], "v5.7.0 release notes": [[129, "v5-7-0-release-notes"]], "Python support": [[129, "python-support"]], "v5.7.1 release notes": [[130, "v5-7-1-release-notes"]], "v5.8.0 release notes": [[131, "v5-8-0-release-notes"]], "v5.8.1 release notes": [[132, "v5-8-1-release-notes"]], "v5.8.2 release notes": [[133, "v5-8-2-release-notes"]], "v5.9.0 release notes": [[134, "v5-9-0-release-notes"]], "v5.9.1 release notes": [[135, "v5-9-1-release-notes"]], "v5.9.2 release notes": [[136, "v5-9-2-release-notes"]], "Releases of Clawpack and release notes": [[137, "releases-of-clawpack-and-release-notes"]], "Other notes:": [[137, "other-notes"]], "Releases:": [[137, "id1"]], "Clawpack 4.x": [[137, "clawpack-4-x"]], "Checkpointing and restarting": [[138, "checkpointing-and-restarting"]], "Checkpointing a computation": [[138, "checkpointing-a-computation"]], "Restarting a computation": [[138, "restarting-a-computation"]], "Modifying the Makefile for a restart": [[138, "modifying-the-makefile-for-a-restart"]], "Output files after a restart": [[138, "output-files-after-a-restart"]], "Riemann solvers": [[139, "riemann-solvers"]], "One-dimensional Riemann solver": [[139, "one-dimensional-riemann-solver"]], "Pointwise Riemann solvers": [[139, "pointwise-riemann-solvers"]], "f-wave Riemann solvers": [[139, "f-wave-riemann-solvers"]], "2D Riemann solvers": [[139, "d-riemann-solvers"]], "Using a custom solver": [[139, "using-a-custom-solver"]], "Adding a solver to the Riemann repository": [[139, "adding-a-solver-to-the-riemann-repository"]], "Shallow water Riemann solvers in Clawpack": [[140, "shallow-water-riemann-solvers-in-clawpack"]], "One dimension": [[140, "one-dimension"]], "Two dimensions": [[140, "two-dimensions"]], "Layered shallow water equations": [[140, "layered-shallow-water-equations"]], "Potentially useful contributions (what\u2019s missing)": [[140, "potentially-useful-contributions-whats-missing"]], "Demonstrations": [[140, "demonstrations"]], "Roe": [[140, "roe"]], "HLL": [[140, "hll"]], "Ruled Rectangles": [[141, "ruled-rectangles"]], "Relation to convex polygons": [[141, "relation-to-convex-polygons"]], "Other attributes and methods": [[141, "other-attributes-and-methods"]], "ds": [[141, "ds"]], "slu": [[141, "slu"]], "bounding_box": [[141, "bounding-box"]], "mask_outside": [[141, "mask-outside"]], "read and write, and instantiating from a file": [[141, "read-and-write-and-instantiating-from-a-file"]], "make_kml": [[141, "make-kml"]], "A GeoClaw AMR flag region": [[141, "a-geoclaw-amr-flag-region"]], "A simple rectangle": [[141, "a-simple-rectangle"]], "Defining a Ruled Rectangle covering selected cells": [[141, "defining-a-ruled-rectangle-covering-selected-cells"]], "Example covering the continental shelf": [[141, "example-covering-the-continental-shelf"]], "Setting sea_level": [[142, "setting-sea-level"]], "Set Eta Init \u2013 spatially varying initial surface elevation": [[143, "set-eta-init-spatially-varying-initial-surface-elevation"]], "Default behavior, adjusting sea level by seismic deformation": [[143, "default-behavior-adjusting-sea-level-by-seismic-deformation"]], "Other use cases": [[143, "other-use-cases"]], "setaux default routines": [[144, "setaux-default-routines"]], "setaux routine in GeoClaw": [[144, "setaux-routine-in-geoclaw"]], "Set environment variables": [[145, "set-environment-variables"]], "CLAW": [[145, "claw"]], "FC": [[145, "fc"]], "Using setplot.py to specify the desired plots": [[146, "using-setplot-py-to-specify-the-desired-plots"]], "Plotting Data Objects": [[146, "plotting-data-objects"]], "Overview": [[146, "overview"]], "Specifying classic run-time parameters in setrun.py": [[147, "specifying-classic-run-time-parameters-in-setrun-py"]], "Input": [[147, "input"], [148, "input"]], "Output": [[147, "output"], [148, "output"]], "Run-time parameters": [[147, "run-time-parameters"], [148, "run-time-parameters"]], "Specifying AMRClaw run-time parameters in setrun.py": [[148, "specifying-amrclaw-run-time-parameters-in-setrun-py"]], "Special AMR parameters": [[148, "special-amr-parameters"]], "Debugging flags for additional printing": [[148, "debugging-flags-for-additional-printing"]], "Sample setrun.py module for AMRClaw": [[149, "sample-setrun-py-module-for-amrclaw"]], "Specifying GeoClaw parameters in setrun.py": [[150, "specifying-geoclaw-parameters-in-setrun-py"]], "Additional AMR parameters": [[150, "additional-amr-parameters"]], "General geo parameters": [[150, "general-geo-parameters"]], "Topography data file parameters": [[150, "topography-data-file-parameters"]], "qinit data file parameters": [[150, "qinit-data-file-parameters"]], "Force some cells to be initially dry": [[150, "force-some-cells-to-be-initially-dry"]], "Adjust sea level in some regions": [[150, "adjust-sea-level-in-some-regions"]], "AMR refinement region parameters": [[150, "amr-refinement-region-parameters"]], "Deprecated Fixedgrid output parameters": [[150, "deprecated-fixedgrid-output-parameters"]], "Fixed grid maximum monitoring / arrival times": [[150, "fixed-grid-maximum-monitoring-arrival-times"]], "Storm Specification Data": [[150, "storm-specification-data"]], "Sample setrun.py module for classic Clawpack": [[151, "sample-setrun-py-module-for-classic-clawpack"]], "Saving and sharing results": [[152, "saving-and-sharing-results"]], "Making webpages of plots": [[152, "making-webpages-of-plots"]], "Sharing your results": [[152, "sharing-your-results"]], "Jupyter notebooks": [[152, "jupyter-notebooks"]], "Source terms for shallow water on the sphere": [[153, "source-terms-for-shallow-water-on-the-sphere"]], "Compiling the Sphinx documentation locally": [[154, "compiling-the-sphinx-documentation-locally"]], "src1d default routines": [[155, "src1d-default-routines"]], "src1d routine in GeoClaw": [[155, "src1d-routine-in-geoclaw"]], "src default routines": [[156, "src-default-routines"]], "src routine in GeoClaw": [[156, "src-routine-in-geoclaw"]], "Storm Specification Class and Tools": [[157, "storm-specification-class-and-tools"]], "Sources for Storm Surge Data": [[158, "sources-for-storm-surge-data"]], "Timing Statistics": [[160, "timing-statistics"]], "Topography data": [[161, "topography-data"]], "Downloading topography files": [[161, "downloading-topography-files"]], "NetCDF format": [[161, "netcdf-format"]], "Topography displacement files": [[161, "topography-displacement-files"]], "qinit data file": [[161, "qinit-data-file"]], "Python tools for working with topo and dtopo": [[162, "python-tools-for-working-with-topo-and-dtopo"]], "topotools module for working with topography data": [[163, "topotools-module-for-working-with-topography-data"]], "Troubleshooting Installation": [[164, "troubleshooting-installation"]], "Troubleshooting Fortran:": [[164, "troubleshooting-fortran"]], "Setting the Fortran compiler to be used by f2py (pip)": [[164, "setting-the-fortran-compiler-to-be-used-by-f2py-pip"]], "Trouble compiling Fortran code at the command line": [[164, "trouble-compiling-fortran-code-at-the-command-line"]], "Trouble running \u201cmake .exe\u201d": [[164, "trouble-running-make-exe"]], "Trouble running \u201cmake .data\u201d": [[164, "trouble-running-make-data"]], "Trouble running \u201cmake .output\u201d": [[164, "trouble-running-make-output"]], "Trouble running \u201cmake .plots\u201d": [[164, "trouble-running-make-plots"]], "Some sources of tsunami data": [[165, "some-sources-of-tsunami-data"]], "Topography / bathymetry": [[165, "topography-bathymetry"]], "Earthquake source models": [[165, "earthquake-source-models"]], "DART buoy data": [[165, "dart-buoy-data"]], "Tide gauges": [[165, "tide-gauges"]], "User files required for the Fortran code": [[166, "user-files-required-for-the-fortran-code"]], "Specifying the initial conditions": [[166, "specifying-the-initial-conditions"]], "Specifying the Riemann solver": [[166, "specifying-the-riemann-solver"]], "Specifying boundary conditions": [[166, "specifying-boundary-conditions"]], "Specifying problem-specific data": [[166, "specifying-problem-specific-data"]], "Specifying spatially-varying data using setaux": [[166, "specifying-spatially-varying-data-using-setaux"]], "Using b4step for work to be done before each time step": [[166, "using-b4step-for-work-to-be-done-before-each-time-step"]], "Using src for source terms": [[166, "using-src-for-source-terms"]], "Using src1d for source terms with AMRClaw": [[166, "using-src1d-for-source-terms-with-amrclaw"]], "Plotting with VisIt": [[167, "plotting-with-visit"]], "Clawpack Virtual Machine": [[168, "clawpack-virtual-machine"]], "Wave-propagation algorithms": [[169, "wave-propagation-algorithms"]], "One space dimension": [[169, "one-space-dimension"]], "Godunov\u2019s method": [[169, "godunov-s-method"]], "High-resolution methods": [[169, "high-resolution-methods"]], "f-wave formulation": [[169, "f-wave-formulation"]], "Capacity functions": [[169, "capacity-functions"]], "Source terms": [[169, "source-terms"]]}, "indexentries": {"clawplotaxes (built-in class)": [[0, "ClawPlotAxes"]], "gethandle()": [[0, "gethandle"], [2, "gethandle"], [3, "gethandle"]], "new_plotitem()": [[0, "new_plotitem"]], "clawplotdata (built-in class)": [[1, "ClawPlotData"]], "clearfigures()": [[1, "clearfigures"]], "clearframes()": [[1, "clearframes"]], "getaxes()": [[1, "getaxes"]], "getfigure()": [[1, "getfigure"]], "getframe()": [[1, "getframe"], [3, "getframe"]], "getitem()": [[1, "getitem"]], "iplotclaw()": [[1, "iplotclaw"]], "new_plotfigure()": [[1, "new_plotfigure"]], "plotframe()": [[1, "plotframe"]], "printframes()": [[1, "printframes"]], "showitems()": [[1, "showitems"]], "clawplotfigure (built-in class)": [[2, "ClawPlotFigure"]], "new_plotaxes()": [[2, "new_plotaxes"]], "clawplotitem (built-in class)": [[3, "ClawPlotItem"]], 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"subfault (class in clawpack.geoclaw.dtopotools)": [[32, "clawpack.geoclaw.dtopotools.SubFault"]], "subfault1d (class in clawpack.geoclaw.dtopotools)": [[32, "clawpack.geoclaw.dtopotools.SubFault1d"]], "subdividedplanefault (class in clawpack.geoclaw.dtopotools)": [[32, "clawpack.geoclaw.dtopotools.SubdividedPlaneFault"]], "tensorproductfault (class in clawpack.geoclaw.dtopotools)": [[32, "clawpack.geoclaw.dtopotools.TensorProductFault"]], "ucsbfault (class in clawpack.geoclaw.dtopotools)": [[32, "clawpack.geoclaw.dtopotools.UCSBFault"]], "calculate_geometry() (clawpack.geoclaw.dtopotools.subfault method)": [[32, "clawpack.geoclaw.dtopotools.SubFault.calculate_geometry"]], "calculate_geometry_triangles() (clawpack.geoclaw.dtopotools.subfault method)": [[32, "clawpack.geoclaw.dtopotools.SubFault.calculate_geometry_triangles"]], "centers (clawpack.geoclaw.dtopotools.subfault property)": [[32, "clawpack.geoclaw.dtopotools.SubFault.centers"]], "clawpack.geoclaw.dtopotools": [[32, 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"dz_at_t() (clawpack.geoclaw.dtopotools.dtopography method)": [[32, "clawpack.geoclaw.dtopotools.DTopography.dZ_at_t"]], "dz_at_t() (clawpack.geoclaw.dtopotools.dtopography1d method)": [[32, "clawpack.geoclaw.dtopotools.DTopography1d.dZ_at_t"]], "dz_cellave_at_t() (clawpack.geoclaw.dtopotools.dtopography1d method)": [[32, "clawpack.geoclaw.dtopotools.DTopography1d.dZ_cellave_at_t"]], "dz_max() (clawpack.geoclaw.dtopotools.dtopography method)": [[32, "clawpack.geoclaw.dtopotools.DTopography.dZ_max"]], "depth (clawpack.geoclaw.dtopotools.subfault attribute)": [[32, "clawpack.geoclaw.dtopotools.SubFault.depth"]], "dip (clawpack.geoclaw.dtopotools.subfault attribute)": [[32, "clawpack.geoclaw.dtopotools.SubFault.dip"]], "dynamic_slip() (clawpack.geoclaw.dtopotools.subfault method)": [[32, "clawpack.geoclaw.dtopotools.SubFault.dynamic_slip"]], "gauss_pts (clawpack.geoclaw.dtopotools.subfault property)": [[32, "clawpack.geoclaw.dtopotools.SubFault.gauss_pts"]], "latitude 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method)": [[32, "clawpack.geoclaw.dtopotools.DTopography1d.read"]], "read() (clawpack.geoclaw.dtopotools.fault method)": [[32, "clawpack.geoclaw.dtopotools.Fault.read"]], "read() (clawpack.geoclaw.dtopotools.ucsbfault method)": [[32, "clawpack.geoclaw.dtopotools.UCSBFault.read"]], "rise_fraction() (in module clawpack.geoclaw.dtopotools)": [[32, "clawpack.geoclaw.dtopotools.rise_fraction"]], "rise_shape (clawpack.geoclaw.dtopotools.subfault attribute)": [[32, "clawpack.geoclaw.dtopotools.SubFault.rise_shape"]], "rise_time (clawpack.geoclaw.dtopotools.subfault attribute)": [[32, "clawpack.geoclaw.dtopotools.SubFault.rise_time"]], "rise_time_starting (clawpack.geoclaw.dtopotools.subfault attribute)": [[32, "clawpack.geoclaw.dtopotools.SubFault.rise_time_starting"]], "rupture_time (clawpack.geoclaw.dtopotools.subfault attribute)": [[32, "clawpack.geoclaw.dtopotools.SubFault.rupture_time"]], "rupture_type (clawpack.geoclaw.dtopotools.subfault attribute)": [[32, 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"clawpack.geoclaw.fgout_tools.FGoutGrid.X"], [37, "clawpack.geoclaw.fgout_tools.FGoutGrid.x"]], "y (clawpack.geoclaw.fgout_tools.fgoutgrid property)": [[37, "clawpack.geoclaw.fgout_tools.FGoutGrid.Y"], [37, "clawpack.geoclaw.fgout_tools.FGoutGrid.y"]], "clawpack.geoclaw.fgout_tools": [[37, "module-clawpack.geoclaw.fgout_tools"]], "eta (clawpack.geoclaw.fgout_tools.fgoutframe property)": [[37, "clawpack.geoclaw.fgout_tools.FGoutFrame.eta"]], "extent_centers (clawpack.geoclaw.fgout_tools.fgoutgrid property)": [[37, "clawpack.geoclaw.fgout_tools.FGoutGrid.extent_centers"]], "extent_edges (clawpack.geoclaw.fgout_tools.fgoutgrid property)": [[37, "clawpack.geoclaw.fgout_tools.FGoutGrid.extent_edges"]], "get_as_array() (in module clawpack.geoclaw.fgout_tools)": [[37, "clawpack.geoclaw.fgout_tools.get_as_array"]], "h (clawpack.geoclaw.fgout_tools.fgoutframe property)": [[37, "clawpack.geoclaw.fgout_tools.FGoutFrame.h"]], "hss (clawpack.geoclaw.fgout_tools.fgoutframe property)": [[37, "clawpack.geoclaw.fgout_tools.FGoutFrame.hss"]], "hu (clawpack.geoclaw.fgout_tools.fgoutframe property)": [[37, "clawpack.geoclaw.fgout_tools.FGoutFrame.hu"]], "hv (clawpack.geoclaw.fgout_tools.fgoutframe property)": [[37, "clawpack.geoclaw.fgout_tools.FGoutFrame.hv"]], "make_fgout_fcn_xy() (in module clawpack.geoclaw.fgout_tools)": [[37, "clawpack.geoclaw.fgout_tools.make_fgout_fcn_xy"]], "make_fgout_fcn_xyt() (in module clawpack.geoclaw.fgout_tools)": [[37, "clawpack.geoclaw.fgout_tools.make_fgout_fcn_xyt"]], "print_netcdf_info() (in module clawpack.geoclaw.fgout_tools)": [[37, "clawpack.geoclaw.fgout_tools.print_netcdf_info"]], "read_fgout_grids_data() (clawpack.geoclaw.fgout_tools.fgoutgrid method)": [[37, "clawpack.geoclaw.fgout_tools.FGoutGrid.read_fgout_grids_data"]], "read_frame() (clawpack.geoclaw.fgout_tools.fgoutgrid method)": [[37, "clawpack.geoclaw.fgout_tools.FGoutGrid.read_frame"]], "read_netcdf() (in module clawpack.geoclaw.fgout_tools)": [[37, "clawpack.geoclaw.fgout_tools.read_netcdf"]], "read_netcdf_arrays() (in module clawpack.geoclaw.fgout_tools)": [[37, "clawpack.geoclaw.fgout_tools.read_netcdf_arrays"]], "s (clawpack.geoclaw.fgout_tools.fgoutframe property)": [[37, "clawpack.geoclaw.fgout_tools.FGoutFrame.s"]], "set_plotdata() (clawpack.geoclaw.fgout_tools.fgoutgrid method)": [[37, "clawpack.geoclaw.fgout_tools.FGoutGrid.set_plotdata"]], "u (clawpack.geoclaw.fgout_tools.fgoutframe property)": [[37, "clawpack.geoclaw.fgout_tools.FGoutFrame.u"]], "v (clawpack.geoclaw.fgout_tools.fgoutframe property)": [[37, "clawpack.geoclaw.fgout_tools.FGoutFrame.v"]], "write_netcdf() (in module clawpack.geoclaw.fgout_tools)": [[37, "clawpack.geoclaw.fgout_tools.write_netcdf"]], "write_to_fgout_data() (clawpack.geoclaw.fgout_tools.fgoutgrid method)": [[37, "clawpack.geoclaw.fgout_tools.FGoutGrid.write_to_fgout_data"]], "bearing() (in module clawpack.geoclaw.util)": [[51, "clawpack.geoclaw.util.bearing"]], "clawpack.geoclaw.util": [[51, "module-clawpack.geoclaw.util"]], "dist_latlong2meters() (in module clawpack.geoclaw.util)": [[51, "clawpack.geoclaw.util.dist_latlong2meters"]], "dist_meters2latlong() (in module clawpack.geoclaw.util)": [[51, "clawpack.geoclaw.util.dist_meters2latlong"]], "dms2decimal() (in module clawpack.geoclaw.util)": [[51, "clawpack.geoclaw.util.dms2decimal"]], "fetch_noaa_tide_data() (in module clawpack.geoclaw.util)": [[51, "clawpack.geoclaw.util.fetch_noaa_tide_data"]], "haversine() (in module clawpack.geoclaw.util)": [[51, "clawpack.geoclaw.util.haversine"]], "inv_haversine() (in module clawpack.geoclaw.util)": [[51, "clawpack.geoclaw.util.inv_haversine"]], "box2kml() (in module clawpack.geoclaw.kmltools)": [[63, "clawpack.geoclaw.kmltools.box2kml"]], "clawpack.geoclaw.kmltools": [[63, "module-clawpack.geoclaw.kmltools"]], "deg2dms() (in module clawpack.geoclaw.kmltools)": [[63, "clawpack.geoclaw.kmltools.deg2dms"]], "dtopo2kml() (in module clawpack.geoclaw.kmltools)": [[63, "clawpack.geoclaw.kmltools.dtopo2kml"]], "f2s() (in module clawpack.geoclaw.kmltools)": [[63, "clawpack.geoclaw.kmltools.f2s"]], "fgmax2kml() (in module clawpack.geoclaw.kmltools)": [[63, "clawpack.geoclaw.kmltools.fgmax2kml"]], "fgout2kml() (in module clawpack.geoclaw.kmltools)": [[63, "clawpack.geoclaw.kmltools.fgout2kml"]], "gauges2kml() (in module clawpack.geoclaw.kmltools)": [[63, "clawpack.geoclaw.kmltools.gauges2kml"]], "kml_build_colorbar() (in module clawpack.geoclaw.kmltools)": [[63, "clawpack.geoclaw.kmltools.kml_build_colorbar"]], "kml_cb() (in module clawpack.geoclaw.kmltools)": [[63, "clawpack.geoclaw.kmltools.kml_cb"]], "kml_png() (in module clawpack.geoclaw.kmltools)": [[63, "clawpack.geoclaw.kmltools.kml_png"]], "kml_timespan() (in module clawpack.geoclaw.kmltools)": [[63, "clawpack.geoclaw.kmltools.kml_timespan"]], "line2kml() (in module clawpack.geoclaw.kmltools)": [[63, "clawpack.geoclaw.kmltools.line2kml"]], "make_input_data_kmls() (in module clawpack.geoclaw.kmltools)": [[63, "clawpack.geoclaw.kmltools.make_input_data_kmls"]], "pcolorcells_for_kml() (in module clawpack.geoclaw.kmltools)": [[63, "clawpack.geoclaw.kmltools.pcolorcells_for_kml"]], "png2kml() (in module clawpack.geoclaw.kmltools)": [[63, "clawpack.geoclaw.kmltools.png2kml"]], "poly2kml() (in module clawpack.geoclaw.kmltools)": [[63, "clawpack.geoclaw.kmltools.poly2kml"]], "quad2kml() (in module clawpack.geoclaw.kmltools)": [[63, "clawpack.geoclaw.kmltools.quad2kml"]], "regions2kml() (in module clawpack.geoclaw.kmltools)": [[63, "clawpack.geoclaw.kmltools.regions2kml"]], "topo2kml() (in module clawpack.geoclaw.kmltools)": [[63, "clawpack.geoclaw.kmltools.topo2kml"]], "topo2kmz() (in module clawpack.geoclaw.kmltools)": [[63, "clawpack.geoclaw.kmltools.topo2kmz"]], "controller (class in clawpack.pyclaw.controller)": [[91, "clawpack.pyclaw.controller.Controller"]], "f_file_name (clawpack.pyclaw.controller.controller attribute)": [[91, "clawpack.pyclaw.controller.Controller.F_file_name"]], "f_path (clawpack.pyclaw.controller.controller property)": [[91, "clawpack.pyclaw.controller.Controller.F_path"]], "check_validity() (clawpack.pyclaw.controller.controller method)": [[91, "clawpack.pyclaw.controller.Controller.check_validity"]], "compute_f (clawpack.pyclaw.controller.controller attribute)": [[91, "clawpack.pyclaw.controller.Controller.compute_F"]], "compute_p (clawpack.pyclaw.controller.controller attribute)": [[91, "clawpack.pyclaw.controller.Controller.compute_p"]], "file_prefix_p (clawpack.pyclaw.controller.controller attribute)": [[91, "clawpack.pyclaw.controller.Controller.file_prefix_p"]], "frames (clawpack.pyclaw.controller.controller attribute)": [[91, "clawpack.pyclaw.controller.Controller.frames"]], "keep_copy (clawpack.pyclaw.controller.controller attribute)": [[91, "clawpack.pyclaw.controller.Controller.keep_copy"]], "nstepout (clawpack.pyclaw.controller.controller attribute)": [[91, "clawpack.pyclaw.controller.Controller.nstepout"]], "num_output_times (clawpack.pyclaw.controller.controller attribute)": [[91, "clawpack.pyclaw.controller.Controller.num_output_times"]], "out_times (clawpack.pyclaw.controller.controller attribute)": [[91, "clawpack.pyclaw.controller.Controller.out_times"]], "outdir (clawpack.pyclaw.controller.controller attribute)": [[91, "clawpack.pyclaw.controller.Controller.outdir"]], "outdir_p (clawpack.pyclaw.controller.controller property)": [[91, "clawpack.pyclaw.controller.Controller.outdir_p"]], "output_file_prefix (clawpack.pyclaw.controller.controller attribute)": [[91, "clawpack.pyclaw.controller.Controller.output_file_prefix"]], "output_format (clawpack.pyclaw.controller.controller attribute)": [[91, "clawpack.pyclaw.controller.Controller.output_format"]], "output_options (clawpack.pyclaw.controller.controller attribute)": [[91, "clawpack.pyclaw.controller.Controller.output_options"]], "output_style (clawpack.pyclaw.controller.controller attribute)": [[91, "clawpack.pyclaw.controller.Controller.output_style"]], "overwrite (clawpack.pyclaw.controller.controller attribute)": [[91, "clawpack.pyclaw.controller.Controller.overwrite"]], "plot() (clawpack.pyclaw.controller.controller method)": [[91, "clawpack.pyclaw.controller.Controller.plot"]], "plotdata (clawpack.pyclaw.controller.controller attribute)": [[91, "clawpack.pyclaw.controller.Controller.plotdata"]], "run() (clawpack.pyclaw.controller.controller method)": [[91, "clawpack.pyclaw.controller.Controller.run"]], "rundir (clawpack.pyclaw.controller.controller attribute)": [[91, "clawpack.pyclaw.controller.Controller.rundir"]], "runmake (clawpack.pyclaw.controller.controller attribute)": [[91, "clawpack.pyclaw.controller.Controller.runmake"]], "savecode (clawpack.pyclaw.controller.controller attribute)": [[91, "clawpack.pyclaw.controller.Controller.savecode"]], "solver (clawpack.pyclaw.controller.controller attribute)": [[91, "clawpack.pyclaw.controller.Controller.solver"]], "tfinal (clawpack.pyclaw.controller.controller attribute)": [[91, "clawpack.pyclaw.controller.Controller.tfinal"]], "verbosity (clawpack.pyclaw.controller.controller property)": [[91, "clawpack.pyclaw.controller.Controller.verbosity"]], "viewable_attributes (clawpack.pyclaw.controller.controller attribute)": [[91, "clawpack.pyclaw.controller.Controller.viewable_attributes"]], "write_aux_always (clawpack.pyclaw.controller.controller attribute)": [[91, "clawpack.pyclaw.controller.Controller.write_aux_always"]], "write_aux_init (clawpack.pyclaw.controller.controller attribute)": [[91, "clawpack.pyclaw.controller.Controller.write_aux_init"]], "xclawcmd (clawpack.pyclaw.controller.controller attribute)": [[91, "clawpack.pyclaw.controller.Controller.xclawcmd"]], "xclawerr (clawpack.pyclaw.controller.controller attribute)": [[91, "clawpack.pyclaw.controller.Controller.xclawerr"]], "xclawout (clawpack.pyclaw.controller.controller attribute)": [[91, "clawpack.pyclaw.controller.Controller.xclawout"]], "xdir (clawpack.pyclaw.controller.controller attribute)": [[91, "clawpack.pyclaw.controller.Controller.xdir"]], "arora_roe() (in module clawpack.pyclaw.limiters.tvd)": [[92, "clawpack.pyclaw.limiters.tvd.arora_roe"]], "beta_limiter() (in module clawpack.pyclaw.limiters.tvd)": [[92, "clawpack.pyclaw.limiters.tvd.beta_limiter"]], "cada_torrilhon_limiter() (in module clawpack.pyclaw.limiters.tvd)": [[92, "clawpack.pyclaw.limiters.tvd.cada_torrilhon_limiter"]], "cada_torrilhon_limiter_nonlinear() (in module clawpack.pyclaw.limiters.tvd)": [[92, "clawpack.pyclaw.limiters.tvd.cada_torrilhon_limiter_nonlinear"]], "cfl_superbee() (in module clawpack.pyclaw.limiters.tvd)": [[92, "clawpack.pyclaw.limiters.tvd.cfl_superbee"]], "cfl_superbee_theta() (in module clawpack.pyclaw.limiters.tvd)": [[92, "clawpack.pyclaw.limiters.tvd.cfl_superbee_theta"]], "clawpack.pyclaw.limiters.tvd": [[92, "module-clawpack.pyclaw.limiters.tvd"]], "hyperbee_limiter() (in module clawpack.pyclaw.limiters.tvd)": [[92, "clawpack.pyclaw.limiters.tvd.hyperbee_limiter"]], "limit() (in module clawpack.pyclaw.limiters.tvd)": [[92, "clawpack.pyclaw.limiters.tvd.limit"]], "mc_limiter() (in module clawpack.pyclaw.limiters.tvd)": [[92, "clawpack.pyclaw.limiters.tvd.mc_limiter"]], "minmod_limiter() (in module clawpack.pyclaw.limiters.tvd)": [[92, "clawpack.pyclaw.limiters.tvd.minmod_limiter"]], "superbee_limiter() (in module clawpack.pyclaw.limiters.tvd)": [[92, "clawpack.pyclaw.limiters.tvd.superbee_limiter"]], "superpower_limiter() (in module clawpack.pyclaw.limiters.tvd)": [[92, "clawpack.pyclaw.limiters.tvd.superpower_limiter"]], "theta_limiter() (in module clawpack.pyclaw.limiters.tvd)": [[92, "clawpack.pyclaw.limiters.tvd.theta_limiter"]], "upper_bound_limiter() (in module clawpack.pyclaw.limiters.tvd)": [[92, "clawpack.pyclaw.limiters.tvd.upper_bound_limiter"]], "van_leer_klein_sharpening_limiter() (in module 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(clawpack.pyclaw.geometry.grid method)": [[94, "clawpack.pyclaw.geometry.Grid.c_center"]], "c_centers (clawpack.pyclaw.geometry.grid property)": [[94, "clawpack.pyclaw.geometry.Grid.c_centers"]], "c_centers_with_ghost() (clawpack.pyclaw.geometry.grid method)": [[94, "clawpack.pyclaw.geometry.Grid.c_centers_with_ghost"]], "c_nodes (clawpack.pyclaw.geometry.grid property)": [[94, "clawpack.pyclaw.geometry.Grid.c_nodes"]], "c_nodes_with_ghost() (clawpack.pyclaw.geometry.grid method)": [[94, "clawpack.pyclaw.geometry.Grid.c_nodes_with_ghost"]], "centers (clawpack.pyclaw.geometry.dimension property)": [[94, "clawpack.pyclaw.geometry.Dimension.centers"]], "centers_with_ghost() (clawpack.pyclaw.geometry.dimension method)": [[94, "clawpack.pyclaw.geometry.Dimension.centers_with_ghost"]], "delta (clawpack.pyclaw.geometry.dimension property)": [[94, "clawpack.pyclaw.geometry.Dimension.delta"]], "delta (clawpack.pyclaw.geometry.patch property)": [[94, "clawpack.pyclaw.geometry.Patch.delta"]], "dimensional_split (clawpack.petclaw.geometry.domain attribute)": [[94, "clawpack.petclaw.geometry.Domain.dimensional_split"]], "dimensions (clawpack.pyclaw.geometry.grid property)": [[94, "clawpack.pyclaw.geometry.Grid.dimensions"]], "dimensions (clawpack.pyclaw.geometry.patch property)": [[94, "clawpack.pyclaw.geometry.Patch.dimensions"]], "fwave (clawpack.petclaw.geometry.domain attribute)": [[94, "clawpack.petclaw.geometry.Domain.fwave"]], "gauge_dir_name (clawpack.pyclaw.geometry.grid attribute)": [[94, "clawpack.pyclaw.geometry.Grid.gauge_dir_name"]], "gauge_file_names (clawpack.pyclaw.geometry.grid attribute)": [[94, "clawpack.pyclaw.geometry.Grid.gauge_file_names"]], "gauge_files (clawpack.pyclaw.geometry.grid attribute)": [[94, "clawpack.pyclaw.geometry.Grid.gauge_files"]], "gauges (clawpack.pyclaw.geometry.grid attribute)": [[94, "clawpack.pyclaw.geometry.Grid.gauges"]], "get_dim_attribute() (clawpack.pyclaw.geometry.grid method)": [[94, "clawpack.pyclaw.geometry.Grid.get_dim_attribute"]], "get_dim_attribute() (clawpack.pyclaw.geometry.patch method)": [[94, "clawpack.pyclaw.geometry.Patch.get_dim_attribute"]], "grid (clawpack.pyclaw.geometry.domain property)": [[94, "clawpack.pyclaw.geometry.Domain.grid"]], "kernel_language (clawpack.petclaw.geometry.domain attribute)": [[94, "clawpack.petclaw.geometry.Domain.kernel_language"]], "level (clawpack.pyclaw.geometry.patch attribute)": [[94, "clawpack.pyclaw.geometry.Patch.level"]], "lower_global (clawpack.pyclaw.geometry.patch property)": [[94, "clawpack.pyclaw.geometry.Patch.lower_global"]], "mthlim (clawpack.petclaw.geometry.domain attribute)": [[94, "clawpack.petclaw.geometry.Domain.mthlim"]], "name (clawpack.pyclaw.geometry.patch property)": [[94, "clawpack.pyclaw.geometry.Patch.name"]], "nodes (clawpack.pyclaw.geometry.dimension property)": [[94, "clawpack.pyclaw.geometry.Dimension.nodes"]], "nodes_with_ghost() (clawpack.pyclaw.geometry.dimension method)": [[94, "clawpack.pyclaw.geometry.Dimension.nodes_with_ghost"]], "num_cells_global (clawpack.pyclaw.geometry.patch property)": [[94, "clawpack.pyclaw.geometry.Patch.num_cells_global"]], "num_dim (clawpack.pyclaw.geometry.domain property)": [[94, "clawpack.pyclaw.geometry.Domain.num_dim"]], "num_dim (clawpack.pyclaw.geometry.grid property)": [[94, "clawpack.pyclaw.geometry.Grid.num_dim"]], "num_dim (clawpack.pyclaw.geometry.patch property)": [[94, "clawpack.pyclaw.geometry.Patch.num_dim"]], "order (clawpack.petclaw.geometry.domain attribute)": [[94, "clawpack.petclaw.geometry.Domain.order"]], "p_center() (clawpack.pyclaw.geometry.grid method)": [[94, "clawpack.pyclaw.geometry.Grid.p_center"]], "p_centers (clawpack.pyclaw.geometry.grid property)": [[94, "clawpack.pyclaw.geometry.Grid.p_centers"]], "p_nodes (clawpack.pyclaw.geometry.grid property)": [[94, "clawpack.pyclaw.geometry.Grid.p_nodes"]], "patch (clawpack.pyclaw.geometry.domain property)": [[94, "clawpack.pyclaw.geometry.Domain.patch"]], "patch_index (clawpack.pyclaw.geometry.patch attribute)": [[94, "clawpack.pyclaw.geometry.Patch.patch_index"]], "plot() (clawpack.pyclaw.geometry.grid method)": [[94, "clawpack.pyclaw.geometry.Grid.plot"]], "setup_gauge_files() (clawpack.pyclaw.geometry.grid method)": [[94, "clawpack.pyclaw.geometry.Grid.setup_gauge_files"]], "source_split (clawpack.petclaw.geometry.domain attribute)": [[94, "clawpack.petclaw.geometry.Domain.source_split"]], "step_source (clawpack.petclaw.geometry.domain attribute)": [[94, "clawpack.petclaw.geometry.Domain.step_source"]], "transverse_waves (clawpack.petclaw.geometry.domain attribute)": [[94, "clawpack.petclaw.geometry.Domain.transverse_waves"]], "upper_global (clawpack.pyclaw.geometry.patch property)": [[94, "clawpack.pyclaw.geometry.Patch.upper_global"]], "verbosity (clawpack.petclaw.geometry.domain attribute)": [[94, "clawpack.petclaw.geometry.Domain.verbosity"]], "clawpack.pyclaw.fileio.ascii": [[97, "module-clawpack.pyclaw.fileio.ascii"]], "clawpack.pyclaw.fileio.binary": [[97, "module-clawpack.pyclaw.fileio.binary"]], "clawpack.pyclaw.fileio.netcdf": [[97, "module-clawpack.pyclaw.fileio.netcdf"]], "read() (in module clawpack.pyclaw.fileio.ascii)": [[97, "clawpack.pyclaw.fileio.ascii.read"]], "read() (in module clawpack.pyclaw.fileio.binary)": [[97, "clawpack.pyclaw.fileio.binary.read"]], "read() (in module clawpack.pyclaw.fileio.netcdf)": [[97, "clawpack.pyclaw.fileio.netcdf.read"]], "read_array() (in module clawpack.pyclaw.fileio.ascii)": [[97, "clawpack.pyclaw.fileio.ascii.read_array"]], "read_patch_header() (in module clawpack.pyclaw.fileio.ascii)": [[97, "clawpack.pyclaw.fileio.ascii.read_patch_header"]], "read_t() (in module clawpack.pyclaw.fileio.ascii)": [[97, "clawpack.pyclaw.fileio.ascii.read_t"]], "write() (in module clawpack.pyclaw.fileio.ascii)": [[97, "clawpack.pyclaw.fileio.ascii.write"]], "write() (in module clawpack.pyclaw.fileio.netcdf)": [[97, "clawpack.pyclaw.fileio.netcdf.write"]], "write_array() (in module clawpack.pyclaw.fileio.ascii)": [[97, "clawpack.pyclaw.fileio.ascii.write_array"]], "acoustics_1d() (in module clawpack.riemann.acoustics_1d_py)": [[102, "clawpack.riemann.acoustics_1D_py.acoustics_1D"]], "advection_1d() (in module clawpack.riemann.advection_1d_py)": [[102, "clawpack.riemann.advection_1D_py.advection_1D"]], "burgers_1d() (in module clawpack.riemann.burgers_1d_py)": [[102, "clawpack.riemann.burgers_1D_py.burgers_1D"]], "clawpack.riemann.acoustics_1d_py": [[102, "module-clawpack.riemann.acoustics_1D_py"]], "clawpack.riemann.advection_1d_py": [[102, "module-clawpack.riemann.advection_1D_py"]], "clawpack.riemann.burgers_1d_py": [[102, "module-clawpack.riemann.burgers_1D_py"]], "clawpack.riemann.euler_1d_py": [[102, "module-clawpack.riemann.euler_1D_py"]], "clawpack.riemann.shallow_1d_py": [[102, "module-clawpack.riemann.shallow_1D_py"]], "euler_exact_1d() (in module clawpack.riemann.euler_1d_py)": [[102, "clawpack.riemann.euler_1D_py.euler_exact_1D"]], "euler_hll_1d() (in module clawpack.riemann.euler_1d_py)": [[102, "clawpack.riemann.euler_1D_py.euler_hll_1D"]], "euler_hllc_1d() (in module clawpack.riemann.euler_1d_py)": [[102, "clawpack.riemann.euler_1D_py.euler_hllc_1D"]], "euler_roe_1d() (in module clawpack.riemann.euler_1d_py)": [[102, "clawpack.riemann.euler_1D_py.euler_roe_1D"]], "shallow_exact_1d() (in module clawpack.riemann.shallow_1d_py)": [[102, "clawpack.riemann.shallow_1D_py.shallow_exact_1D"]], "shallow_fwave_1d() (in module clawpack.riemann.shallow_1d_py)": [[102, "clawpack.riemann.shallow_1D_py.shallow_fwave_1d"]], "shallow_hll_1d() (in module clawpack.riemann.shallow_1d_py)": [[102, "clawpack.riemann.shallow_1D_py.shallow_hll_1D"]], "shallow_roe_1d() (in module clawpack.riemann.shallow_1d_py)": [[102, "clawpack.riemann.shallow_1D_py.shallow_roe_1D"]], "solution (class in clawpack.pyclaw.solution)": [[103, "clawpack.pyclaw.solution.Solution"]], "is_valid() (clawpack.pyclaw.solution.solution method)": [[103, "clawpack.pyclaw.solution.Solution.is_valid"]], "patch (clawpack.pyclaw.solution.solution property)": [[103, "clawpack.pyclaw.solution.Solution.patch"]], "plot() (clawpack.pyclaw.solution.solution method)": [[103, "clawpack.pyclaw.solution.Solution.plot"]], "read() (clawpack.pyclaw.solution.solution method)": [[103, "clawpack.pyclaw.solution.Solution.read"]], "set_all_states() (clawpack.pyclaw.solution.solution method)": [[103, "clawpack.pyclaw.solution.Solution.set_all_states"]], "start_frame (clawpack.pyclaw.solution.solution property)": [[103, "clawpack.pyclaw.solution.Solution.start_frame"]], "state (clawpack.pyclaw.solution.solution property)": [[103, "clawpack.pyclaw.solution.Solution.state"]], "write() (clawpack.pyclaw.solution.solution method)": [[103, "clawpack.pyclaw.solution.Solution.write"]], "clawsolver (class in clawpack.pyclaw.classic.solver)": [[104, "clawpack.pyclaw.classic.solver.ClawSolver"]], "sharpclawsolver (class in clawpack.pyclaw.sharpclaw.solver)": [[104, "clawpack.pyclaw.sharpclaw.solver.SharpClawSolver"]], "accept_reject_step() (clawpack.pyclaw.sharpclaw.solver.sharpclawsolver method)": [[104, "clawpack.pyclaw.sharpclaw.solver.SharpClawSolver.accept_reject_step"]], "aux_time_dep (clawpack.pyclaw.sharpclaw.solver.sharpclawsolver attribute)": [[104, "clawpack.pyclaw.sharpclaw.solver.SharpClawSolver.aux_time_dep"]], "call_before_step_each_stage (clawpack.pyclaw.sharpclaw.solver.sharpclawsolver attribute)": [[104, "clawpack.pyclaw.sharpclaw.solver.SharpClawSolver.call_before_step_each_stage"]], "cfl_desired (clawpack.pyclaw.sharpclaw.solver.sharpclawsolver attribute)": [[104, "clawpack.pyclaw.sharpclaw.solver.SharpClawSolver.cfl_desired"]], "cfl_max (clawpack.pyclaw.sharpclaw.solver.sharpclawsolver attribute)": [[104, "clawpack.pyclaw.sharpclaw.solver.SharpClawSolver.cfl_max"]], "char_decomp (clawpack.pyclaw.sharpclaw.solver.sharpclawsolver attribute)": [[104, "clawpack.pyclaw.sharpclaw.solver.SharpClawSolver.char_decomp"]], "check_3rd_ord_cond() (clawpack.pyclaw.sharpclaw.solver.sharpclawsolver method)": [[104, "clawpack.pyclaw.sharpclaw.solver.SharpClawSolver.check_3rd_ord_cond"]], "dq() (clawpack.pyclaw.sharpclaw.solver.sharpclawsolver method)": [[104, "clawpack.pyclaw.sharpclaw.solver.SharpClawSolver.dq"]], "dq_src (clawpack.pyclaw.sharpclaw.solver.sharpclawsolver attribute)": [[104, "clawpack.pyclaw.sharpclaw.solver.SharpClawSolver.dq_src"]], "dqdt() (clawpack.pyclaw.sharpclaw.solver.sharpclawsolver method)": [[104, "clawpack.pyclaw.sharpclaw.solver.SharpClawSolver.dqdt"]], "fwave (clawpack.pyclaw.classic.solver.clawsolver attribute)": [[104, "clawpack.pyclaw.classic.solver.ClawSolver.fwave"]], "fwave (clawpack.pyclaw.sharpclaw.solver.sharpclawsolver attribute)": [[104, "clawpack.pyclaw.sharpclaw.solver.SharpClawSolver.fwave"]], "get_dt_new() (clawpack.pyclaw.sharpclaw.solver.sharpclawsolver method)": [[104, "clawpack.pyclaw.sharpclaw.solver.SharpClawSolver.get_dt_new"]], "kernel_language 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                        Navigation

                          @@ -587,7 +587,7 @@

                          Navigation

                            diff --git a/v5.9.x/topotools_module.html b/v5.9.x/topotools_module.html index c5e9943ae..0149ecc5b 100644 --- a/v5.9.x/topotools_module.html +++ b/v5.9.x/topotools_module.html @@ -136,7 +136,7 @@

                            Navigation

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

                            Base topography class.

                            A class representing a single topography file.