From d62b755aedc073bfc3c767df81d74deb6297b4af Mon Sep 17 00:00:00 2001 From: Randy LeVeque Date: Tue, 7 Nov 2023 07:49:13 -0500 Subject: [PATCH] update pip install instructions --- _sources/developers.rst.txt | 4 ++-- _sources/installing_pip.rst.txt | 11 +++++------ _sources/release_5_9_2.rst.txt | 2 +- dev/.buildinfo | 2 +- dev/.doctrees/ClawPlotAxes.doctree | Bin 56222 -> 56222 bytes dev/.doctrees/ClawPlotData.doctree | Bin 44301 -> 44301 bytes dev/.doctrees/ClawPlotFigure.doctree | Bin 18963 -> 18963 bytes dev/.doctrees/ClawPlotItem.doctree | Bin 68310 -> 68310 bytes dev/.doctrees/about.doctree | Bin 46961 -> 46961 bytes dev/.doctrees/adjoint.doctree | Bin 33270 -> 33270 bytes dev/.doctrees/amr_algorithm.doctree | Bin 38918 -> 38918 bytes dev/.doctrees/amrclaw.doctree | Bin 10889 -> 10889 bytes dev/.doctrees/amrclaw1d.doctree | Bin 8036 -> 8036 bytes dev/.doctrees/amrclaw_doxygen.doctree | Bin 5673 -> 5673 bytes dev/.doctrees/amrclaw_flowcharts.doctree | Bin 6142 -> 6142 bytes 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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/developers.rst.txt | 4 ++-- v5.9.x/_sources/installing_pip.rst.txt | 11 +++++------ v5.9.x/_sources/release_5_9_2.rst.txt | 2 +- v5.9.x/developers.html | 4 ++-- v5.9.x/installing_pip.html | 11 +++++------ v5.9.x/release_5_9_2.html | 2 +- v5.9.x/searchindex.js | 2 +- 688 files changed, 55 insertions(+), 61 deletions(-) diff --git a/_sources/developers.rst.txt b/_sources/developers.rst.txt index ee4296195..363bc8f24 100644 --- a/_sources/developers.rst.txt +++ b/_sources/developers.rst.txt @@ -99,7 +99,7 @@ things in a different repository.) Now install this version of Clawpack using:: - pip install -e --no-build-isolation ./ + pip install --no-build-isolation -e ./ The `-e` flag means that this is an editabl version of the Clawpack code (rather than installing the original version in the `site-packages` @@ -290,7 +290,7 @@ anything: if you have modified any Fortran code, you need to recompile:: cd clawpack/ - pip install --user -e --no-build-isolation ./ + pip install --user --no-build-isolation -e ./ Then run the tests:: diff --git a/_sources/installing_pip.rst.txt b/_sources/installing_pip.rst.txt index 167ec273b..c15ac6829 100644 --- a/_sources/installing_pip.rst.txt +++ b/_sources/installing_pip.rst.txt @@ -55,9 +55,8 @@ following command **(you might want to first read the notes below to see if you want to change anything in this command)**:: - pip install --src=$HOME/clawpack_src --user -e --no-build-isolation \ - git+https://github.com/clawpack/clawpack.git@v5.9.2#egg=clawpack-v5.9.2 \ - --use-deprecated=legacy-resolver + pip install --src=$HOME/clawpack_src --user --no-build-isolation -e \ + git+https://github.com/clawpack/clawpack.git@v5.9.2#egg=clawpack **Notes:** @@ -140,8 +139,8 @@ Instead, you can always install another branch by doing a new `pip install` into a different subdirectory of `clawpack_src`, e.g. :: export CLAW_VERSION=v5.3.1 # used several places in next commands - pip install --src=$HOME/clawpack_src --user -e --no-build-isolation \ - git+https://github.com/clawpack/clawpack.git@$CLAW_VERSION#egg=clawpack-$CLAW_VERSION + pip install --src=$HOME/clawpack_src --user --no-build-isolation -e \ + git+https://github.com/clawpack/clawpack.git@$CLAW_VERSION#egg=clawpack export CLAW=$HOME/clawpack_src/clawpack-$CLAW_VERSION If this version doesn't already exist on your computer then it will clone @@ -153,7 +152,7 @@ properly via:: export CLAW=/full/path/to/desired/version/of/clawpack cd $CLAW - pip install --user -e --no-build-isolation ./ # note trailing dot indicating "this directory" + pip install --user --no-build-isolation -e ./ See :ref:`python_path` if you are having problems with the wrong version being imported. diff --git a/_sources/release_5_9_2.rst.txt b/_sources/release_5_9_2.rst.txt index 7be9f5beb..17fb1199e 100644 --- a/_sources/release_5_9_2.rst.txt +++ b/_sources/release_5_9_2.rst.txt @@ -33,7 +33,7 @@ General changes --------------- The build process for the Python modules has been completely redone using -`meson ` in place of `distutils`, which is being +`meson `__ in place of `distutils`, which is being deprecated. We chose `meson` since this is now being used by many of the core scientific python projects that we use, e.g. `numpy` and `scipy`. This should not affect most users, except for some changes to the recommended installation diff --git a/dev/.buildinfo b/dev/.buildinfo index 255d3ddb0..81751173c 100644 --- a/dev/.buildinfo +++ b/dev/.buildinfo @@ -1,4 +1,4 @@ # Sphinx build info version 1 # This file hashes the configuration used when building these files. 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We chose `meson` since this is now being used by many of the core scientific python projects that we use, e.g. `numpy` and `scipy`. This should not affect most users, except for some changes to the recommended installation diff --git a/dev/developers.html b/dev/developers.html index d35c0489e..da906837a 100644 --- a/dev/developers.html +++ b/dev/developers.html @@ -199,7 +199,7 @@

Cloning the most rece repositories and checking out a different commit in one repository may break things in a different repository.)

Now install this version of Clawpack using:

-
pip install -e --no-build-isolation ./
+
pip install --no-build-isolation -e ./
 

 

 
The -e flag means that this is an editabl version of the Clawpack code
@@ -369,7 +369,7 @@ 
Modifying code
 
cd clawpack/
-pip install --user -e --no-build-isolation ./
+pip install --user --no-build-isolation -e ./
 

 

 
Then run the tests:

diff --git a/dev/installing_pip.html b/dev/installing_pip.html
index cf28bd33f..e931211a0 100644
--- a/dev/installing_pip.html
+++ b/dev/installing_pip.html
@@ -121,9 +121,8 @@ 
Navigation

 following command
 (you might want to first read the notes below to see if you
 want to change anything in this command):

-
pip install --src=$HOME/clawpack_src --user -e --no-build-isolation \
-    git+https://github.com/clawpack/clawpack.git@v5.9.2#egg=clawpack-v5.9.2 \
-    --use-deprecated=legacy-resolver
+
pip install --src=$HOME/clawpack_src --user --no-build-isolation -e \
+    git+https://github.com/clawpack/clawpack.git@v5.9.2#egg=clawpack
 

 

 
Notes:

@@ -191,8 +190,8 @@ 
Next steps:
export CLAW_VERSION=v5.3.1  # used several places in next commands
-pip install --src=$HOME/clawpack_src --user -e --no-build-isolation \
-    git+https://github.com/clawpack/clawpack.git@$CLAW_VERSION#egg=clawpack-$CLAW_VERSION
+pip install --src=$HOME/clawpack_src --user --no-build-isolation -e \
+    git+https://github.com/clawpack/clawpack.git@$CLAW_VERSION#egg=clawpack
 export CLAW=$HOME/clawpack_src/clawpack-$CLAW_VERSION
 

 

@@ -203,7 +202,7 @@ 
Next steps:
export CLAW=/full/path/to/desired/version/of/clawpack
 cd $CLAW
-pip install --user -e --no-build-isolation ./   # note trailing dot indicating "this directory"
+pip install --user --no-build-isolation -e ./
 

 

 
See Python path if you are having problems with the wrong version
diff --git a/dev/release_5_9_2.html b/dev/release_5_9_2.html
index 88dbb3eac..495cde801 100644
--- a/dev/release_5_9_2.html
+++ b/dev/release_5_9_2.html
@@ -94,7 +94,7 @@ 
Navigation

 

 
General changes¶

 
The build process for the Python modules has been completely redone using
-meson <https://mesonbuild.com/> in place of distutils, which is being
+meson in place of distutils, which is being
 deprecated.  We chose meson since this is now being used by many of the core
 scientific python projects that we use, e.g. numpy and scipy.  This should
 not affect most users, except for some changes to the recommended installation
diff --git a/dev/searchindex.js b/dev/searchindex.js
index a81ec130d..819dc103b 100644
--- a/dev/searchindex.js
+++ b/dev/searchindex.js
@@ -1 +1 @@
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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, 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, 18, 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, 22, 30, 32, 38, 39, 43, 47, 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, 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, "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, 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, 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, 29, 32, 34, 35, 36, 37, 41, 49, 63, 75, 94, 102, 139, 141, 144, 148, 149, 151, 166], "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, 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, 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, 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, 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, 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": 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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], "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, 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, 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, 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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, 136, 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": [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, 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, 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, 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, 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, "websit": [16, 55, 58, 152, 163], "bergercalhounhelzellevequ": 16, "hint": [16, 27, 48, 81, 84, 111, 150, 164], "suppos": [16, 67, 70, 71, 82, 111, 115], "bit": [16, 24, 32, 59, 97, 99, 107, 140], "examin": [16, 38, 39, 47, 70, 111, 134], "own": [16, 22, 26, 30, 36, 62, 88, 89, 95, 96, 105, 106, 113, 115, 126, 139, 152], "todo": [16, 139, 157, 163, 169], "poster": 17, "resourc": [17, 26, 30, 50, 110], "bale": 17, "rossmanith": 17, "siam": [17, 26, 27, 96, 139], "sci": 17, "24": [17, 55, 72, 141], "2002": 17, "955": [17, 141], "978": 17, "author": [17, 27, 48, 52, 92, 96, 97, 102, 114], "1989": 17, "hydrodynam": 17, "phy": 17, "82": 17, "64": [17, 94, 97, 99, 107], "84": [17, 55], "34": [17, 55, 63, 96], "2011": [17, 26, 86], "pp": 17, "1195": 17, "1206": 17, "adv": 17, "awr11": 17, "1998": 17, "anal": 17, "35": [17, 34, 57, 75, 96], "2298": 17, "2316": 17, "bergerleveque2023": [17, 18, 19], "2023": [17, 20, 135, 136, 137], "implicit": [17, 86, 104], "dispers": [17, 18, 49, 52], "submit": 17, "1984": 17, "partial": [17, 78, 113], "differenti": [17, 32], "53": 17, "484": 17, "512": 17, "rigoutso": 17, "1991": 17, "ieee": 17, "tran": 17, "sy": [17, 42, 70, 91, 149, 151], "man": [17, 27, 48, 52, 150, 155, 156], "cyber": 17, "21": [17, 71, 92, 94, 122, 123, 137], "1278": 17, "1286": 17, "2018": [17, 26, 58, 126, 127, 137], "phd": 17, "thesi": [17, 104], "pure": [17, 56, 84, 94, 96, 97, 99, 104, 116, 140], "appl": 17, "geophi": 17, "173": 17, "4055": 17, "4074": 17, "info": [17, 31, 32, 35, 36, 37, 47, 59, 63, 71, 91, 94, 97, 98, 104, 124, 134, 148, 149, 157], "analysi": 17, "evalu": [17, 29, 32, 36, 37, 68, 72, 88, 94, 104, 163, 166], "preprint": 17, "2000": [17, 57, 161, 163], "165": [17, 160], "126": [17, 163], "166": 17, "leveque96": 17, "1996": 17, "advect": [17, 82, 96, 99, 139, 140, 151, 166], "incompress": 17, "leveque1996": 17, "33": [17, 94, 141], "627": 17, "665": 17, "1997": [17, 96], "multi": [17, 55, 88, 118, 120, 123, 126, 166], "131": [17, 96], "327": [17, 96], "353": [17, 96], "wpalg": 17, "cambridg": 17, "press": [17, 99, 105], "uk": [17, 32], "gallery_fvmbook": 17, "acta": 17, "numerica": 17, "211": 17, "289": 17, "dg": 17, "actanum2011": 17, "techniqu": [17, 28], "2013": [17, 26, 96], "a351": [17, 96], "a377": [17, 96], "manuel": [17, 86, 96], "quezada": [17, 86, 96], "luna": [17, 86, 96], "matthew": [17, 86, 96], "kneplei": [17, 86, 96], "emmett": [17, 86, 96], "2012": [17, 24, 26, 52, 96], "scalabl": [17, 96], "c210": [17, 96], "c231": [17, 96], "sisc": [17, 96], "month": [17, 55, 96], "nov": [17, 96], "mandlietal2016": 17, "calhellev08": 17, "helzel": 17, "circular": 17, "spheric": [17, 49, 55, 136], "review": [17, 92], "2008": [17, 86, 92, 102], "723": 17, "752": 17, "leveque09": 17, "reproduc": [17, 57, 65, 86], "engin": [17, 55], "cise": 17, "11": [17, 34, 82, 102, 130, 131, 137], "2009": [17, 92, 97, 102], "27": [17, 55, 63, 72, 141, 153], "levyon03": 17, "darryl": 17, "yong": 17, "solitari": 17, "layer": [17, 27, 47, 63, 94, 118, 120, 123, 124, 126], "media": 17, "math": [17, 55, 108], "63": [17, 141], "2003": 17, "1539": 17, "1560": 17, "mandli13a": 17, "72": [17, 55, 75], "91": 17, "2013it": 17, "aug": [17, 127], "mandli13b": 17, "dawson": 17, "36": [17, 51, 77, 94], "2014": [17, 26, 102, 117, 118, 119, 120, 121, 122, 137], "clint": 17, "okada85": [17, 32, 75], "okada": [17, 27, 32, 48, 49, 114, 161, 165], "deform": [17, 32, 35, 37, 48, 75, 165], "due": [17, 26, 32, 42, 51, 75, 116, 125, 126, 131, 143, 153, 164], "shear": [17, 32], "tensil": 17, "fault": [17, 27, 32, 48, 49, 114, 126, 133, 161, 165], "bull": [17, 32], "seism": [17, 32], "soc": [17, 32], "am": [17, 32], "1985": [17, 32], "1135": 17, "1154": 17, "Not": [18, 32, 49, 55, 94, 124, 131], "incorpor": [18, 24, 49, 52, 58, 86, 104, 118, 125, 140, 163], "repositori": [18, 24, 26, 27, 28, 31, 34, 39, 40, 45, 46, 48, 49, 56, 61, 62, 66, 67, 96, 104, 111, 113, 114, 116, 121, 124, 137, 154], "literatur": [18, 52, 139], "situat": [18, 49, 55, 70, 71, 131], "wavelength": [18, 49, 52], "long": [18, 30, 32, 49, 51, 52, 55, 74, 96, 123, 131, 148, 163], "fluid": [18, 34, 36, 49, 52, 64, 72, 142], "deriv": [18, 65, 75, 86, 91, 95, 96, 106, 116], "longer": [18, 22, 30, 47, 58, 59, 63, 85, 110, 124, 126, 129, 131, 135, 136, 138, 139, 150, 161, 165], "respect": [18, 32, 34, 49, 55, 63, 96, 97, 102, 163], "txx": 18, "altern": [18, 32, 36, 38, 39, 47, 48, 51, 55, 60, 66, 71, 81, 96, 99, 111, 115, 122, 123, 124], "ellipt": 18, "involv": [18, 26, 101, 104, 113, 153, 158], "xx": 18, "modif": [18, 30, 43, 65, 71, 82, 86, 92, 150], "serr": 18, "naghdi": 18, "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, 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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, 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"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, "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 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"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)": [[32, "clawpack.geoclaw.dtopotools.CSVFault"]], "dtopography (class in clawpack.geoclaw.dtopotools)": [[32, "clawpack.geoclaw.dtopotools.DTopography"]], "fault (class in clawpack.geoclaw.dtopotools)": [[32, "clawpack.geoclaw.dtopotools.Fault"]], "mo() (clawpack.geoclaw.dtopotools.fault method)": [[32, "clawpack.geoclaw.dtopotools.Fault.Mo"]], "mo() (clawpack.geoclaw.dtopotools.subfault method)": [[32, "clawpack.geoclaw.dtopotools.SubFault.Mo"]], "mw() (clawpack.geoclaw.dtopotools.fault method)": [[32, "clawpack.geoclaw.dtopotools.Fault.Mw"]], "mw() (in module clawpack.geoclaw.dtopotools)": [[32, "clawpack.geoclaw.dtopotools.Mw"]], "siftfault (class in clawpack.geoclaw.dtopotools)": [[32, "clawpack.geoclaw.dtopotools.SiftFault"]], "subfault (class in clawpack.geoclaw.dtopotools)": [[32, "clawpack.geoclaw.dtopotools.SubFault"]], "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, "module-clawpack.geoclaw.dtopotools"]], "containing_rect() (clawpack.geoclaw.dtopotools.fault method)": [[32, "clawpack.geoclaw.dtopotools.Fault.containing_rect"]], "convert_to_standard_units() (clawpack.geoclaw.dtopotools.subfault method)": [[32, "clawpack.geoclaw.dtopotools.SubFault.convert_to_standard_units"]], "coordinate_specification (clawpack.geoclaw.dtopotools.subfault attribute)": [[32, "clawpack.geoclaw.dtopotools.SubFault.coordinate_specification"]], "corners (clawpack.geoclaw.dtopotools.subfault property)": [[32, "clawpack.geoclaw.dtopotools.SubFault.corners"]], "create_dtopo_xy() (clawpack.geoclaw.dtopotools.fault method)": [[32, "clawpack.geoclaw.dtopotools.Fault.create_dtopo_xy"]], "create_dtopography() (clawpack.geoclaw.dtopotools.fault method)": [[32, "clawpack.geoclaw.dtopotools.Fault.create_dtopography"]], "dz_at_t() (clawpack.geoclaw.dtopotools.dtopography method)": [[32, "clawpack.geoclaw.dtopotools.DTopography.dZ_at_t"]], "dz_max() 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"clawpack.geoclaw.dtopotools.DTopography.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.dtopotools.SubFault.width"]], "write() (clawpack.geoclaw.dtopotools.dtopography method)": [[32, "clawpack.geoclaw.dtopotools.DTopography.write"]], "write() (clawpack.geoclaw.dtopotools.fault method)": [[32, "clawpack.geoclaw.dtopotools.Fault.write"]], "fgmaxgrid (class in clawpack.geoclaw.fgmax_tools)": [[35, "clawpack.geoclaw.fgmax_tools.FGmaxGrid"]], "adjust_fgmax_1d() (in module clawpack.geoclaw.fgmax_tools)": [[35, "clawpack.geoclaw.fgmax_tools.adjust_fgmax_1d"]], "bounding_box() (clawpack.geoclaw.fgmax_tools.fgmaxgrid method)": [[35, "clawpack.geoclaw.fgmax_tools.FGmaxGrid.bounding_box"]], "clawpack.geoclaw.fgmax_tools": [[35, "module-clawpack.geoclaw.fgmax_tools"]], "interp_dz() (clawpack.geoclaw.fgmax_tools.fgmaxgrid method)": [[35, "clawpack.geoclaw.fgmax_tools.FGmaxGrid.interp_dz"]], "ps4_to_arrays() (clawpack.geoclaw.fgmax_tools.fgmaxgrid method)": [[35, "clawpack.geoclaw.fgmax_tools.FGmaxGrid.ps4_to_arrays"]], "read_fgmax_grids_data() 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"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)": 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"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 clawpack.pyclaw.limiters.tvd)": [[92, "clawpack.pyclaw.limiters.tvd.van_leer_klein_sharpening_limiter"]], "dimension (class in clawpack.pyclaw.geometry)": [[94, "clawpack.pyclaw.geometry.Dimension"]], "domain (class in clawpack.petclaw.geometry)": [[94, "clawpack.petclaw.geometry.Domain"]], "domain (class 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"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, 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"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() 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"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, 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"current_data", "Developers\u2019 Guide", "Docker for Clawpack", "dtopotools module for moving topography", "Fortran 77 vs. Fortran 90 files", "Fixed grid monitoring", "fgmax_tools module for working with fgmax grids", "Fixed grid output", "fgout_tools module for working with fgout grids", "Running an example", "Testing your Fortran installation and running an example", "Testing a PyClaw installation and running an example", "Specifying flagregions for adaptive refinement", "Force Cells to be Dry Initially", "Fortran version", "Fortran Compilers", "Examples from the book FVMHP", "Clawpack Gallery", "Gauges", "GeoClaw Description and Detailed Contents", "GeoClaw in One Space Dimension", "Getting started with GeoClaw", "geoclaw.util module of utility functions", "Cautionary Hints on using GeoClaw", "GeoClaw plotting tools", "Keeping track of repository versions with Git", "Visualizing GeoClaw results in Google Earth", "Using the GPU version of Clawpack", "Grid registration", "Guide for updating this documentation", "Guide for doing a Clawpack release", "Installing Clawpack", "Options for installing Clawpack Fortran codes", "pip install instructions", "kmltools module of utility functions", "Lagrangian gauges for particle tracking", "License", "Clawpack Makefiles", "Library routines in Makefiles", "Manning friction term", "The mapc2p function", "Marching Front algorithm", "Plotting using Matlab", "Nearshore interpolation", "Using NetCDF output", "Creating a new application directory", "Earthquake sources: Fault slip and the Okada model", "Using OpenMP", "Output data sytles and formats", "Which Clawpack solver should I use?", "Clawpack Community Photos", "Plotting examples", "Plotting with Visclaw", "Plotting hints and FAQ", "Plotting routines for GeoClaw", "Plotting options in Python", "Installation Prerequisites", "About PyClaw", "PyClaw Basics", "Understanding Pyclaw Classes", "Porting a problem from Clawpack 4.6.x to PyClaw", "Running PyClaw in the cloud", "Pyclaw 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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, 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, 18, 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, 22, 30, 32, 38, 39, 43, 47, 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, 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, "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, 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, 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, 29, 32, 34, 35, 36, 37, 41, 49, 63, 75, 94, 102, 139, 141, 144, 148, 149, 151, 166], "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, 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, 27, 32, 52, 55, 57, 68, 70, 75, 82, 84, 92, 94, 97, 104, 115, 138, 147, 150, 166], "comput": 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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, 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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, 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], "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, 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, 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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, 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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": [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, 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, 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, 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, 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, "websit": [16, 55, 58, 152, 163], "bergercalhounhelzellevequ": 16, "hint": [16, 27, 48, 81, 84, 111, 150, 164], "suppos": [16, 67, 70, 71, 82, 111, 115], "bit": [16, 24, 32, 59, 97, 99, 107, 140], "examin": [16, 38, 39, 47, 70, 111, 134], "own": [16, 22, 26, 30, 36, 62, 88, 89, 95, 96, 105, 106, 113, 115, 126, 139, 152], "todo": [16, 139, 157, 163, 169], "poster": 17, "resourc": [17, 26, 30, 50, 110], "bale": 17, "rossmanith": 17, "siam": [17, 26, 27, 96, 139], "sci": 17, "24": [17, 55, 72, 141], "2002": 17, "955": [17, 141], "978": 17, "author": [17, 27, 48, 52, 92, 96, 97, 102, 114], "1989": 17, "hydrodynam": 17, "phy": 17, "82": 17, "64": [17, 94, 97, 99, 107], "84": [17, 55], "34": [17, 55, 63, 96], "2011": [17, 26, 86], "pp": 17, "1195": 17, "1206": 17, "adv": 17, "awr11": 17, "1998": 17, "anal": 17, "35": [17, 34, 57, 75, 96], "2298": 17, "2316": 17, "bergerleveque2023": [17, 18, 19], "2023": [17, 20, 135, 136, 137], "implicit": [17, 86, 104], "dispers": [17, 18, 49, 52], "submit": 17, "1984": 17, "partial": [17, 78, 113], "differenti": [17, 32], "53": 17, "484": 17, "512": 17, "rigoutso": 17, "1991": 17, "ieee": 17, "tran": 17, "sy": [17, 42, 70, 91, 149, 151], "man": [17, 27, 48, 52, 150, 155, 156], "cyber": 17, "21": [17, 71, 92, 94, 122, 123, 137], "1278": 17, "1286": 17, "2018": [17, 26, 58, 126, 127, 137], "phd": 17, "thesi": [17, 104], "pure": [17, 56, 84, 94, 96, 97, 99, 104, 116, 140], "appl": 17, "geophi": 17, "173": 17, "4055": 17, "4074": 17, "info": [17, 31, 32, 35, 36, 37, 47, 59, 63, 71, 91, 94, 97, 98, 104, 124, 134, 148, 149, 157], "analysi": 17, "evalu": [17, 29, 32, 36, 37, 68, 72, 88, 94, 104, 163, 166], "preprint": 17, "2000": [17, 57, 161, 163], "165": [17, 160], "126": [17, 163], "166": 17, "leveque96": 17, "1996": 17, "advect": [17, 82, 96, 99, 139, 140, 151, 166], "incompress": 17, "leveque1996": 17, "33": [17, 94, 141], "627": 17, "665": 17, "1997": [17, 96], "multi": [17, 55, 88, 118, 120, 123, 126, 166], "131": [17, 96], "327": [17, 96], "353": [17, 96], "wpalg": 17, "cambridg": 17, "press": [17, 99, 105], "uk": [17, 32], "gallery_fvmbook": 17, "acta": 17, "numerica": 17, "211": 17, "289": 17, "dg": 17, "actanum2011": 17, "techniqu": [17, 28], "2013": [17, 26, 96], "a351": [17, 96], "a377": [17, 96], "manuel": [17, 86, 96], "quezada": [17, 86, 96], "luna": [17, 86, 96], "matthew": [17, 86, 96], "kneplei": [17, 86, 96], "emmett": [17, 86, 96], "2012": [17, 24, 26, 52, 96], "scalabl": [17, 96], "c210": [17, 96], "c231": [17, 96], "sisc": [17, 96], "month": [17, 55, 96], "nov": [17, 96], "mandlietal2016": 17, "calhellev08": 17, "helzel": 17, "circular": 17, "spheric": [17, 49, 55, 136], "review": [17, 92], "2008": [17, 86, 92, 102], "723": 17, "752": 17, "leveque09": 17, "reproduc": [17, 57, 65, 86], "engin": [17, 55], "cise": 17, "11": [17, 34, 82, 102, 130, 131, 137], "2009": [17, 92, 97, 102], "27": [17, 55, 63, 72, 141, 153], "levyon03": 17, "darryl": 17, "yong": 17, "solitari": 17, "layer": [17, 27, 47, 63, 94, 118, 120, 123, 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"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, "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"]], "csvfault (class in clawpack.geoclaw.dtopotools)": [[32, "clawpack.geoclaw.dtopotools.CSVFault"]], "dtopography (class in clawpack.geoclaw.dtopotools)": [[32, "clawpack.geoclaw.dtopotools.DTopography"]], "fault (class in clawpack.geoclaw.dtopotools)": [[32, "clawpack.geoclaw.dtopotools.Fault"]], "mo() (clawpack.geoclaw.dtopotools.fault method)": [[32, "clawpack.geoclaw.dtopotools.Fault.Mo"]], "mo() (clawpack.geoclaw.dtopotools.subfault method)": [[32, "clawpack.geoclaw.dtopotools.SubFault.Mo"]], "mw() (clawpack.geoclaw.dtopotools.fault method)": [[32, "clawpack.geoclaw.dtopotools.Fault.Mw"]], "mw() (in module clawpack.geoclaw.dtopotools)": [[32, "clawpack.geoclaw.dtopotools.Mw"]], "siftfault (class in clawpack.geoclaw.dtopotools)": [[32, "clawpack.geoclaw.dtopotools.SiftFault"]], "subfault (class in clawpack.geoclaw.dtopotools)": [[32, "clawpack.geoclaw.dtopotools.SubFault"]], "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, "module-clawpack.geoclaw.dtopotools"]], "containing_rect() (clawpack.geoclaw.dtopotools.fault method)": [[32, "clawpack.geoclaw.dtopotools.Fault.containing_rect"]], "convert_to_standard_units() (clawpack.geoclaw.dtopotools.subfault method)": [[32, "clawpack.geoclaw.dtopotools.SubFault.convert_to_standard_units"]], "coordinate_specification (clawpack.geoclaw.dtopotools.subfault attribute)": [[32, "clawpack.geoclaw.dtopotools.SubFault.coordinate_specification"]], "corners (clawpack.geoclaw.dtopotools.subfault property)": [[32, "clawpack.geoclaw.dtopotools.SubFault.corners"]], "create_dtopo_xy() (clawpack.geoclaw.dtopotools.fault method)": [[32, "clawpack.geoclaw.dtopotools.Fault.create_dtopo_xy"]], "create_dtopography() (clawpack.geoclaw.dtopotools.fault method)": [[32, "clawpack.geoclaw.dtopotools.Fault.create_dtopography"]], "dz_at_t() (clawpack.geoclaw.dtopotools.dtopography method)": [[32, "clawpack.geoclaw.dtopotools.DTopography.dZ_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 (clawpack.geoclaw.dtopotools.subfault attribute)": [[32, "clawpack.geoclaw.dtopotools.SubFault.latitude"]], "length (clawpack.geoclaw.dtopotools.subfault attribute)": [[32, "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, 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"clawpack.geoclaw.dtopotools.DTopography.plot_dZ_contours"]], "plot_dz_contours() (in module clawpack.geoclaw.dtopotools)": [[32, "clawpack.geoclaw.dtopotools.plot_dZ_contours"]], "plot_subfaults() (clawpack.geoclaw.dtopotools.fault method)": [[32, "clawpack.geoclaw.dtopotools.Fault.plot_subfaults"]], "plot_subfaults_depth() (clawpack.geoclaw.dtopotools.fault method)": [[32, "clawpack.geoclaw.dtopotools.Fault.plot_subfaults_depth"]], "rake (clawpack.geoclaw.dtopotools.subfault attribute)": [[32, "clawpack.geoclaw.dtopotools.SubFault.rake"]], "read() (clawpack.geoclaw.dtopotools.csvfault method)": [[32, "clawpack.geoclaw.dtopotools.CSVFault.read"]], "read() (clawpack.geoclaw.dtopotools.dtopography method)": [[32, "clawpack.geoclaw.dtopotools.DTopography.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, "clawpack.geoclaw.dtopotools.SubFault.rupture_type"]], "set_corners() (clawpack.geoclaw.dtopotools.subfault method)": [[32, "clawpack.geoclaw.dtopotools.SubFault.set_corners"]], "set_dynamic_slip() (clawpack.geoclaw.dtopotools.fault method)": [[32, "clawpack.geoclaw.dtopotools.Fault.set_dynamic_slip"]], 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"clawpack.geoclaw.fgout_tools.FGoutGrid.extent_centers"]], "extent_edges (clawpack.geoclaw.fgout_tools.fgoutgrid property)": [[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, 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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 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(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, 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--- a/developers.html
+++ b/developers.html
@@ -199,7 +199,7 @@ 
Cloning the most rece
 repositories and checking out a different commit in one repository may break
 things in a different repository.)

 
Now install this version of Clawpack using:

-
pip install -e --no-build-isolation ./
+
pip install --no-build-isolation -e ./
 

 

 
The -e flag means that this is an editabl version of the Clawpack code
@@ -369,7 +369,7 @@ 
Modifying code
 
cd clawpack/
-pip install --user -e --no-build-isolation ./
+pip install --user --no-build-isolation -e ./
 

 

 
Then run the tests:

diff --git a/installing_pip.html b/installing_pip.html
index d51b522a5..373973b6f 100644
--- a/installing_pip.html
+++ b/installing_pip.html
@@ -121,9 +121,8 @@ 
Navigation

 following command
 (you might want to first read the notes below to see if you
 want to change anything in this command):

-
pip install --src=$HOME/clawpack_src --user -e --no-build-isolation \
-    git+https://github.com/clawpack/clawpack.git@v5.9.2#egg=clawpack-v5.9.2 \
-    --use-deprecated=legacy-resolver
+
pip install --src=$HOME/clawpack_src --user --no-build-isolation -e \
+    git+https://github.com/clawpack/clawpack.git@v5.9.2#egg=clawpack
 

 

 
Notes:

@@ -191,8 +190,8 @@ 
Next steps:
export CLAW_VERSION=v5.3.1  # used several places in next commands
-pip install --src=$HOME/clawpack_src --user -e --no-build-isolation \
-    git+https://github.com/clawpack/clawpack.git@$CLAW_VERSION#egg=clawpack-$CLAW_VERSION
+pip install --src=$HOME/clawpack_src --user --no-build-isolation -e \
+    git+https://github.com/clawpack/clawpack.git@$CLAW_VERSION#egg=clawpack
 export CLAW=$HOME/clawpack_src/clawpack-$CLAW_VERSION
 

 

@@ -203,7 +202,7 @@ 
Next steps:
export CLAW=/full/path/to/desired/version/of/clawpack
 cd $CLAW
-pip install --user -e --no-build-isolation ./   # note trailing dot indicating "this directory"
+pip install --user --no-build-isolation -e ./
 

 

 
See Python path if you are having problems with the wrong version
diff --git a/release_5_9_2.html b/release_5_9_2.html
index 1b197f35d..d478fb7aa 100644
--- a/release_5_9_2.html
+++ b/release_5_9_2.html
@@ -94,7 +94,7 @@ 
Navigation

 

 
General changes¶

 
The build process for the Python modules has been completely redone using
-meson <https://mesonbuild.com/> in place of distutils, which is being
+meson in place of distutils, which is being
 deprecated.  We chose meson since this is now being used by many of the core
 scientific python projects that we use, e.g. numpy and scipy.  This should
 not affect most users, except for some changes to the recommended installation
diff --git a/searchindex.js b/searchindex.js
index a81ec130d..819dc103b 100644
--- a/searchindex.js
+++ b/searchindex.js
@@ -1 +1 @@
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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, 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, 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121, 122, 123, 124, 126, 131, 132, 133, 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, 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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, 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"acoustics_1d_adjoint": 5, "acoustics_2d_adjoint": 5, "main": [5, 11, 12, 21, 30, 42, 46, 58, 59, 70, 71, 78, 89, 91, 97, 101, 108, 109, 116, 125, 134], "subdirectori": [5, 12, 22, 24, 25, 38, 39, 58, 59, 62, 66, 74, 84, 93, 98, 111, 116, 134, 146, 150, 152, 159, 163], "must": [5, 6, 13, 16, 18, 22, 24, 30, 32, 34, 36, 42, 46, 49, 50, 55, 58, 61, 65, 66, 67, 70, 71, 75, 76, 77, 86, 89, 96, 97, 98, 101, 103, 104, 106, 107, 108, 109, 111, 115, 118, 122, 139, 141, 142, 143, 147, 148, 149, 150, 151, 157, 163, 164, 165, 166, 169], "makefil": [5, 6, 11, 14, 15, 16, 21, 22, 25, 27, 30, 36, 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": [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, 136, 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": [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, 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, 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, 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, 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"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, 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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, 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"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 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"clawpack.geoclaw.dtopotools.DTopography.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.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)": 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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, 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, 29, 32, 34, 35, 36, 37, 41, 49, 63, 75, 94, 102, 139, 141, 144, 148, 149, 151, 166], "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, 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, 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, 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, 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, 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, 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], "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, 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, 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], "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": [4, 17, 86, 96, 141], "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, 94, 102, 160], "0649": 4, "council": 4, "nfr": 4, "through": [4, 13, 30, 36, 38, 39, 47, 49, 52, 55, 70, 71, 78, 81, 89, 101, 106, 108, 109, 111, 114, 115], "program": [4, 50, 52, 67, 78], "101039": 4, "420": 4, "scientif": [4, 17, 85, 96, 99, 110, 136], "divis": [4, 55], "nation": [4, 52, 157], "center": [4, 5, 29, 32, 34, 35, 36, 37, 42, 47, 55, 57, 63, 72, 75, 88, 94, 101, 102, 108, 115, 126, 141, 143, 148, 149, 150, 157, 158, 161, 166], "atmospher": 4, "ncar": 4, "boe": 4, "professorship": 4, "founder": 4, "depart": [4, 157], "mathemat": 4, "comot": 4, "fellowship": 4, "king": [4, 86], "abdullah": [4, 86], "technologi": [4, 86], "contract": [4, 65, 86], "state": [4, 13, 17, 27, 30, 58, 75, 82, 88, 89, 91, 94, 96, 97, 98, 99, 101, 102, 103, 104, 107, 108, 116, 131, 132, 139, 140, 141, 147, 161, 169], "emerg": 4, "manag": [4, 12, 13, 55, 98, 157], "tsunami": [4, 5, 16, 17, 26, 27, 34, 36, 42, 48, 50, 56, 68, 75, 98, 115, 118, 121, 127, 128, 134, 141, 142, 143, 150, 158, 161], "hazard": [4, 34, 48, 68, 142], "mitig": [4, 52], "nasa": 4, "asteroid": 4, "threat": 4, "assess": [4, 52, 142], "project": [4, 5, 26, 27, 32, 52, 55, 58, 59, 75, 86, 90, 124, 125, 136, 148, 163], "planetari": 4, "defens": 4, "offic": 4, "opinion": 4, "conclus": [4, 55], "recommend": [4, 18, 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], "express": [4, 32, 65, 86, 105, 141], "materi": [4, 65, 75, 86, 113, 129], "those": [4, 6, 10, 12, 18, 24, 26, 52, 55, 56, 59, 70, 78, 88, 89, 91, 98, 101, 106, 115, 116, 118, 129, 131, 137, 138, 152, 159, 163, 166], "necessarili": [4, 42, 77, 97, 116], "reflect": [4, 5, 16, 30, 115, 126, 147, 149, 151], "agenc": [4, 60, 157, 158], "approach": [5, 7, 13, 18, 30, 31, 41, 47, 49, 58, 61, 74, 81, 89, 96, 99, 101, 109, 115, 122, 124, 125, 127, 139, 140, 146, 166, 169], "introduc": [5, 16, 21, 34, 35, 36, 37, 42, 49, 82, 129, 131, 138, 141, 143, 148, 169], "6": [5, 24, 27, 30, 32, 34, 36, 41, 42, 44, 47, 51, 52, 55, 58, 63, 68, 70, 71, 72, 76, 82, 95, 96, 97, 101, 102, 104, 105, 110, 111, 115, 129, 137, 139, 141, 147, 148, 161, 168], "what": [5, 6, 9, 13, 14, 18, 24, 27, 30, 32, 33, 34, 41, 49, 52, 54, 55, 58, 59, 61, 62, 63, 66, 67, 70, 71, 72, 77, 81, 88, 91, 95, 103, 106, 108, 111, 114, 115, 116, 123, 141, 142, 146, 147, 149, 150, 151, 152, 161, 163, 165, 166], "forward": [5, 64, 104, 115, 127, 166], "becaus": [5, 18, 24, 29, 34, 36, 42, 55, 59, 70, 72, 97, 98, 99, 118, 139, 142, 147], "impact": [5, 75, 153], "autonom": 5, "shift": [5, 32, 52, 57], "perform": [5, 6, 17, 24, 29, 52, 55, 57, 76, 78, 81, 82, 91, 94, 97, 101, 104, 109, 116, 128, 131, 138, 139, 145, 150, 159], "snapshot": [5, 30, 98, 127], "save": [5, 13, 27, 28, 36, 37, 42, 54, 63, 77, 91, 95, 104, 123, 124, 126, 131, 138, 158, 163], "space": [5, 6, 7, 16, 17, 27, 32, 34, 35, 36, 37, 47, 48, 55, 57, 75, 77, 94, 98, 101, 115, 122, 134, 138, 141, 147, 148, 149, 150, 151, 161, 163, 166], "interpol": [5, 6, 16, 27, 32, 35, 37, 42, 47, 48, 57, 63, 64, 71, 75, 82, 124, 131, 134, 141, 142, 143, 157, 158, 163], "regrid": [5, 10, 115, 118, 119, 124, 127, 128, 148, 149, 160], "davisleveque2018": [5, 17], "davis2018": [5, 17], "discuss": [5, 18, 26, 30, 32, 52, 57, 70, 75, 97, 108, 110, 111, 115, 124, 126, 139, 150, 169], "when": [5, 14, 15, 16, 18, 22, 30, 31, 32, 34, 36, 37, 42, 43, 44, 47, 49, 53, 54, 55, 57, 58, 59, 61, 62, 64, 68, 70, 71, 75, 76, 77, 78, 81, 82, 84, 88, 95, 96, 97, 99, 100, 104, 107, 111, 115, 116, 118, 119, 121, 123, 124, 125, 129, 131, 133, 134, 135, 139, 141, 142, 143, 144, 146, 147, 148, 149, 150, 151, 152, 157, 161, 163, 164, 165, 166, 167, 169], "accur": [5, 18, 49, 52, 72, 75, 96, 104, 131, 147, 166, 169], "entir": [5, 6, 36, 41, 52, 55, 63, 70, 72, 75, 76, 78, 88, 98, 103, 113, 115, 119, 141, 163], "domain": [5, 6, 16, 17, 35, 36, 41, 42, 49, 52, 55, 58, 63, 75, 77, 87, 88, 89, 91, 99, 101, 103, 106, 113, 115, 134, 148, 149, 150, 151, 161], "dimens": [5, 6, 7, 16, 22, 24, 27, 47, 48, 51, 57, 63, 71, 72, 88, 89, 91, 97, 99, 101, 102, 103, 106, 108, 115, 126, 129, 139, 147, 148, 149, 151, 163, 166], "int_a": 5, "phi": 5, "dx": [5, 15, 32, 34, 35, 36, 51, 57, 64, 75, 77, 89, 94, 98, 122, 126, 144, 161, 163, 166], "leq": [5, 141], "backward": [5, 30, 32, 51, 63, 75, 77, 97, 119, 120, 135, 153, 163], "small": [5, 16, 36, 42, 47, 68, 70, 115, 116, 118, 123, 138, 147, 149, 150, 161, 163, 165], "sai": [5, 13, 16, 30, 63, 107, 115], "x_1": [5, 141], "x_2": [5, 141], "might": [5, 10, 13, 14, 16, 24, 30, 31, 37, 38, 39, 40, 41, 42, 51, 55, 57, 58, 62, 67, 70, 71, 72, 76, 82, 85, 88, 98, 102, 111, 113, 114, 115, 118, 147, 148, 161, 163, 165, 166], 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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": [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, 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, 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, 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, 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, "websit": [16, 55, 58, 152, 163], "bergercalhounhelzellevequ": 16, "hint": [16, 27, 48, 81, 84, 111, 150, 164], "suppos": [16, 67, 70, 71, 82, 111, 115], "bit": [16, 24, 32, 59, 97, 99, 107, 140], "examin": [16, 38, 39, 47, 70, 111, 134], "own": [16, 22, 26, 30, 36, 62, 88, 89, 95, 96, 105, 106, 113, 115, 126, 139, 152], "todo": [16, 139, 157, 163, 169], "poster": 17, "resourc": [17, 26, 30, 50, 110], "bale": 17, "rossmanith": 17, "siam": [17, 26, 27, 96, 139], "sci": 17, "24": [17, 55, 72, 141], "2002": 17, "955": [17, 141], "978": 17, "author": [17, 27, 48, 52, 92, 96, 97, 102, 114], "1989": 17, "hydrodynam": 17, "phy": 17, "82": 17, "64": [17, 94, 97, 99, 107], "84": [17, 55], "34": [17, 55, 63, 96], "2011": [17, 26, 86], "pp": 17, "1195": 17, "1206": 17, "adv": 17, "awr11": 17, "1998": 17, "anal": 17, "35": [17, 34, 57, 75, 96], "2298": 17, "2316": 17, "bergerleveque2023": [17, 18, 19], "2023": [17, 20, 135, 136, 137], "implicit": [17, 86, 104], "dispers": [17, 18, 49, 52], "submit": 17, "1984": 17, "partial": [17, 78, 113], "differenti": [17, 32], "53": 17, "484": 17, "512": 17, "rigoutso": 17, "1991": 17, "ieee": 17, "tran": 17, "sy": [17, 42, 70, 91, 149, 151], "man": [17, 27, 48, 52, 150, 155, 156], "cyber": 17, "21": [17, 71, 92, 94, 122, 123, 137], "1278": 17, "1286": 17, "2018": [17, 26, 58, 126, 127, 137], "phd": 17, "thesi": [17, 104], "pure": [17, 56, 84, 94, 96, 97, 99, 104, 116, 140], "appl": 17, "geophi": 17, "173": 17, "4055": 17, "4074": 17, "info": [17, 31, 32, 35, 36, 37, 47, 59, 63, 71, 91, 94, 97, 98, 104, 124, 134, 148, 149, 157], "analysi": 17, "evalu": [17, 29, 32, 36, 37, 68, 72, 88, 94, 104, 163, 166], "preprint": 17, "2000": [17, 57, 161, 163], "165": [17, 160], "126": [17, 163], "166": 17, "leveque96": 17, "1996": 17, "advect": [17, 82, 96, 99, 139, 140, 151, 166], "incompress": 17, "leveque1996": 17, "33": [17, 94, 141], "627": 17, "665": 17, "1997": [17, 96], "multi": [17, 55, 88, 118, 120, 123, 126, 166], "131": [17, 96], "327": [17, 96], "353": [17, 96], "wpalg": 17, "cambridg": 17, "press": [17, 99, 105], "uk": [17, 32], "gallery_fvmbook": 17, "acta": 17, "numerica": 17, "211": 17, "289": 17, "dg": 17, "actanum2011": 17, "techniqu": [17, 28], "2013": [17, 26, 96], "a351": [17, 96], "a377": [17, 96], "manuel": [17, 86, 96], "quezada": [17, 86, 96], "luna": [17, 86, 96], "matthew": [17, 86, 96], "kneplei": [17, 86, 96], "emmett": [17, 86, 96], "2012": [17, 24, 26, 52, 96], "scalabl": [17, 96], "c210": [17, 96], "c231": [17, 96], "sisc": [17, 96], "month": [17, 55, 96], "nov": [17, 96], "mandlietal2016": 17, "calhellev08": 17, "helzel": 17, "circular": 17, "spheric": [17, 49, 55, 136], "review": [17, 92], "2008": [17, 86, 92, 102], "723": 17, "752": 17, "leveque09": 17, "reproduc": [17, 57, 65, 86], "engin": [17, 55], "cise": 17, "11": [17, 34, 82, 102, 130, 131, 137], "2009": [17, 92, 97, 102], "27": [17, 55, 63, 72, 141, 153], "levyon03": 17, "darryl": 17, "yong": 17, "solitari": 17, "layer": [17, 27, 47, 63, 94, 118, 120, 123, 124, 126], "media": 17, "math": [17, 55, 108], "63": [17, 141], "2003": 17, "1539": 17, "1560": 17, "mandli13a": 17, "72": [17, 55, 75], "91": 17, "2013it": 17, "aug": [17, 127], "mandli13b": 17, "dawson": 17, "36": [17, 51, 77, 94], "2014": [17, 26, 102, 117, 118, 119, 120, 121, 122, 137], "clint": 17, "okada85": [17, 32, 75], "okada": [17, 27, 32, 48, 49, 114, 161, 165], "deform": [17, 32, 35, 37, 48, 75, 165], "due": [17, 26, 32, 42, 51, 75, 116, 125, 126, 131, 143, 153, 164], "shear": [17, 32], "tensil": 17, "fault": [17, 27, 32, 48, 49, 114, 126, 133, 161, 165], "bull": [17, 32], "seism": [17, 32], "soc": [17, 32], "am": [17, 32], "1985": [17, 32], "1135": 17, "1154": 17, "Not": [18, 32, 49, 55, 94, 124, 131], "incorpor": [18, 24, 49, 52, 58, 86, 104, 118, 125, 140, 163], "repositori": [18, 24, 26, 27, 28, 31, 34, 39, 40, 45, 46, 48, 49, 56, 61, 62, 66, 67, 96, 104, 111, 113, 114, 116, 121, 124, 137, 154], "literatur": [18, 52, 139], "situat": [18, 49, 55, 70, 71, 131], "wavelength": [18, 49, 52], "long": [18, 30, 32, 49, 51, 52, 55, 74, 96, 123, 131, 148, 163], "fluid": [18, 34, 36, 49, 52, 64, 72, 142], "deriv": [18, 65, 75, 86, 91, 95, 96, 106, 116], "longer": [18, 22, 30, 47, 58, 59, 63, 85, 110, 124, 126, 129, 131, 135, 136, 138, 139, 150, 161, 165], "respect": [18, 32, 34, 49, 55, 63, 96, 97, 102, 163], "txx": 18, "altern": [18, 32, 36, 38, 39, 47, 48, 51, 55, 60, 66, 71, 81, 96, 99, 111, 115, 122, 123, 124], "ellipt": 18, "involv": [18, 26, 101, 104, 113, 153, 158], "xx": 18, "modif": [18, 30, 43, 65, 71, 82, 86, 92, 150], "serr": 18, "naghdi": 18, "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, 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"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, "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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"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, "clawpack.geoclaw.dtopotools.SubFault.rupture_type"]], "set_corners() (clawpack.geoclaw.dtopotools.subfault method)": [[32, "clawpack.geoclaw.dtopotools.SubFault.set_corners"]], "set_dynamic_slip() (clawpack.geoclaw.dtopotools.fault method)": [[32, "clawpack.geoclaw.dtopotools.Fault.set_dynamic_slip"]], "set_subfaults() (clawpack.geoclaw.dtopotools.siftfault method)": [[32, "clawpack.geoclaw.dtopotools.SiftFault.set_subfaults"]], "slip (clawpack.geoclaw.dtopotools.subfault attribute)": [[32, "clawpack.geoclaw.dtopotools.SubFault.slip"]], "strike (clawpack.geoclaw.dtopotools.subfault attribute)": [[32, "clawpack.geoclaw.dtopotools.SubFault.strike"]], "strike_direction() (in module clawpack.geoclaw.dtopotools)": [[32, "clawpack.geoclaw.dtopotools.strike_direction"]], "subdivide() (clawpack.geoclaw.dtopotools.subdividedplanefault method)": [[32, "clawpack.geoclaw.dtopotools.SubdividedPlaneFault.subdivide"]], "width (clawpack.geoclaw.dtopotools.subfault attribute)": [[32, "clawpack.geoclaw.dtopotools.SubFault.width"]], "write() (clawpack.geoclaw.dtopotools.dtopography method)": [[32, "clawpack.geoclaw.dtopotools.DTopography.write"]], "write() (clawpack.geoclaw.dtopotools.fault method)": [[32, "clawpack.geoclaw.dtopotools.Fault.write"]], "fgmaxgrid (class in clawpack.geoclaw.fgmax_tools)": 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"clawpack.geoclaw.fgmax_tools.FGmaxGrid.write_to_fgmax_data"]], "b (clawpack.geoclaw.fgout_tools.fgoutframe property)": [[37, "clawpack.geoclaw.fgout_tools.FGoutFrame.B"]], "fgoutframe (class in clawpack.geoclaw.fgout_tools)": [[37, "clawpack.geoclaw.fgout_tools.FGoutFrame"]], "fgoutgrid (class in clawpack.geoclaw.fgout_tools)": [[37, "clawpack.geoclaw.fgout_tools.FGoutGrid"]], "x (clawpack.geoclaw.fgout_tools.fgoutgrid property)": [[37, "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 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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 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(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, 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"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 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(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() 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GIT binary patch
delta 21
ccmaD}|Ga)f5F>|4NugnBL3-xqD8^np0BThTumAu6

delta 21
ccmaD}|Ga)f5F>|WUVN%SikZRYD8^np0A>~l761SM

diff --git a/v5.7.x/.doctrees/claw4x.doctree b/v5.7.x/.doctrees/claw4x.doctree
index d4a62ea62b3fbe7fe256562ca67b39091f91ccf2..e44dd72d6d5dedda8fc4f224cf28a05a5a3f75b8 100644
GIT binary patch
delta 21
ccmZ1{zfOLG7bAyBNugnBL3-xqAjTLz08#q~4FCWD

delta 21
ccmZ1{zfOLG7bAydUVN%SikZRYAjTLz08P9Ga{vGU

diff --git a/v5.7.x/.doctrees/clawpack5.doctree b/v5.7.x/.doctrees/clawpack5.doctree
index f16acd42f60e821a6e63235fed222dff76558219..d49298a5953443447791cc60830ef8861c5a052a 100644
GIT binary patch
delta 23
fcmcb)hWX|i<_!Ui93~}&hNT7RnVTaR8Lt8Wb1(?|

delta 23
fcmcb)hWX|i<_!Ui9F}?UsRk)#2Ad-o8Lt8WZt)0V

diff --git a/v5.7.x/.doctrees/clawpack_components.doctree b/v5.7.x/.doctrees/clawpack_components.doctree
index 55b212df8433398c31d8ca2bb4285693d03133d9..492a32950dc76b1d03bbd2259bd5c3f45a9a80dc 100644
GIT binary patch
delta 21
ccmdm8zq@`z3L}R}NugnBL3-xq97caT0AyhZJ^%m!

delta 21
ccmdm8zq@`z3L}SQUVN%SikZRY97caT0AL~qqyPW_

diff --git a/v5.7.x/.doctrees/community.doctree b/v5.7.x/.doctrees/community.doctree
index d897848976517b91f3157693154bfc01d03b0db2..b3d7d6f67beb24475c9b872917ab2873d8c8612a 100644
GIT binary patch
delta 23
fcmcb$gXz`|rVRm%93~}&hNT7RnVTaRnPvk3bm$1$

delta 23
fcmcb$gXz`|rVRm%9F}?UsRk)#2Ad-onPvk3aH$AD

diff --git a/v5.7.x/.doctrees/contents.doctree b/v5.7.x/.doctrees/contents.doctree
index 68439a2528483e0bbb8c4ea1a0207b950bfb2934..50c1f6ccf9f59e3a3a32e8398909c7d30d982736 100644
GIT binary patch
delta 23
ecmbO@mvQ1;#tnXq93~}&hNT7RnVZ8Ht$hJxCkOWc

delta 23
ecmbO@mvQ1;#tnXq9F}?UsRk)#2Ajhet$hJs=m%W@

diff --git a/v5.7.x/.doctrees/contribute_apps.doctree b/v5.7.x/.doctrees/contribute_apps.doctree
index c008c104bab90149136c5bcb6627f3e7281741ef..f9d5fe41163987af5fde7d13ad738dcc3f1d9440 100644
GIT binary patch
delta 21
ccmbQHJxzN<3?qk0NugnBL3-xq6h

delta 21
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diff --git a/v5.8.x/.doctrees/changes_to_master.doctree b/v5.8.x/.doctrees/changes_to_master.doctree
index 0b3e18d69454508bd46c7d41ab51c40a5fc028f3..67b2390c2777b45542c13e82ece785156a6114ce 100644
GIT binary patch
delta 23
ecmcaJnd#1CrVR;<93~}&hNT7RnVT~hOF95?VhIxf

delta 23
ecmcaJnd#1CrVR;<9F}?UsRk)#2AeY&OF95;BM5l_

diff --git a/v5.8.x/.doctrees/claw43to46.doctree b/v5.8.x/.doctrees/claw43to46.doctree
index f3af1c3d528c5b50e820a9ebe0ca4a48cff881e4..425ee6d8f2a7fbad4bd1cb595721ecd1407f9f86 100644
GIT binary patch
delta 21
ccmX?QddhS|5F>|4NugnBL3-xqD8>Rw09tYfpa1{>

delta 21
ccmX?QddhS|5F>|WUVN%SikZRYD8>Rw09G>x1^@s6

diff --git a/v5.8.x/.doctrees/claw46to50.doctree b/v5.8.x/.doctrees/claw46to50.doctree
index 3bc78d86fe963a2d46c4af57e4b028fdb3407a3f..80b1888d9bad5f2aa6662eb317929cc9c25565b3 100644
GIT binary patch
delta 21
ccmaD}|Ga)f5F>|4NugnBL3-xqD8^np0BThTumAu6

delta 21
ccmaD}|Ga)f5F>|WUVN%SikZRYD8^np0A>~l761SM

diff --git a/v5.8.x/.doctrees/claw4x.doctree b/v5.8.x/.doctrees/claw4x.doctree
index 5791855448399e066201f7f4cb38473d3bf40407..4645a8284fed7f1762a79fb41f17a726db97859c 100644
GIT binary patch
delta 21
ccmZ1{zfOLG7bAyBNugnBL3-xqAjTLz08#q~4FCWD

delta 21
ccmZ1{zfOLG7bAydUVN%SikZRYAjTLz08P9Ga{vGU

diff --git a/v5.8.x/.doctrees/clawpack5.doctree b/v5.8.x/.doctrees/clawpack5.doctree
index ba26595105f6e5f6708c6f91d860f8397485fc8f..4a505acd29407d7b855af67dbeea8c9344850413 100644
GIT binary patch
delta 23
fcmcb)hWX|i<_!Ui93~}&hNT7RnVTaR8Lt8Wb1(?|

delta 23
fcmcb)hWX|i<_!Ui9F}?UsRk)#2Ad-o8Lt8WZt)0V

diff --git a/v5.8.x/.doctrees/clawpack_components.doctree b/v5.8.x/.doctrees/clawpack_components.doctree
index 8c77837b6b8a23da24be36abfe5670e44e74495b..551b34f43a8f9c77df6597f62c2ad48052031005 100644
GIT binary patch
delta 21
ccmdm8zq@`z3L}R}NugnBL3-xq97caT0AyhZJ^%m!

delta 21
ccmdm8zq@`z3L}SQUVN%SikZRY97caT0AL~qqyPW_

diff --git a/v5.8.x/.doctrees/community.doctree b/v5.8.x/.doctrees/community.doctree
index f69ba5c9215060f53d4afd2227da880a39720c0d..3973a781d00e15ef623686524532fac658799233 100644
GIT binary patch
delta 23
fcmcb$gXz`|rVRm%93~}&hNT7RnVTaRnPvk3bm$1$

delta 23
fcmcb$gXz`|rVRm%9F}?UsRk)#2Ad-onPvk3aH$AD

diff --git a/v5.8.x/.doctrees/contents.doctree b/v5.8.x/.doctrees/contents.doctree
index d78a20c9d81e36fdef97f1a5a80af8c795e23208..b1a3b444f0851901fd339146901b4f5da590700d 100644
GIT binary patch
delta 23
ecmcb$fbrG>#tnXq93~}&hNT7RnVZ8HS^NQTc?enn

delta 23
ecmcb$fbrG>#tnXq9F}?UsRk)#2AjheS^NQPItRc2

diff --git a/v5.8.x/.doctrees/contribute_apps.doctree b/v5.8.x/.doctrees/contribute_apps.doctree
index a9e317ed1f1542f15119e9f34217d1258000a8ec..0abc896cdd81accf727884093ff83bf906ce6917 100644
GIT binary patch
delta 21
ccmbQHJxzN<3?qk0NugnBL3-xq6h

delta 21
ccmbQHJxzN<3?qkSUVN%SikZRY6hcWkV1nhe=7HVQE2nW^)wd_9#ZiO(Fn^*acWkV1nhh<)TszHjGL30%2_9#ZiO(Fn;F$kal

diff --git a/v5.8.x/.doctrees/docker_image.doctree b/v5.8.x/.doctrees/docker_image.doctree
index d3a7ac16d121b128e13789cb31399e08eb2db2b5..c4ff8e21f0296f4b187650a0f7db06d03fa06136 100644
GIT binary patch
delta 23
fcmccmfbr@B#tmVN93~}&hNT7RnVaJnzvlq}e1{40

delta 23
fcmccmfbr@B#tmVN9F}?UsRk)#2Aks;zvlq}ct{CY

diff --git a/v5.8.x/.doctrees/dtopotools_module.doctree b/v5.8.x/.doctrees/dtopotools_module.doctree
index fbfc22828c962759a415c86b77ea555c637c1892..41b26142d55725f9ad51f828ee838e1fd7966e3e 100644
GIT binary patch
delta 35
ocmZ29k9W~L-VF(i93~}&hNT7RnavrD?HP<9%(Oj&k$IOd0OAb`tN;K2

delta 35
ocmZ29k9W~L-VF(i9F}?UsRk)#2F)3a?HP<9%(Oj&k$IOd0M?cZ5&!@I

diff --git a/v5.8.x/.doctrees/environment.pickle b/v5.8.x/.doctrees/environment.pickle
index a0d324e279d3ae55ca4477b4d1c7371dffa1e95e..15a8511037c74baea79dd0dee7bd378eec41eed8 100644
GIT binary patch
delta 59275
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 tags: 645f666f9bcd5a90fca523b33c5a78b7
diff --git a/v5.9.x/.doctrees/ClawPlotAxes.doctree b/v5.9.x/.doctrees/ClawPlotAxes.doctree
index c6b1f4084bcc8a7df30e6a9c85603db1bb21beba..20c8b9410901c6cd510d732129022ecfad675b43 100644
GIT binary patch
delta 64
zcmbQYoq67N<_%$th9)J2hNT7RnffM)Ny$lumT3lQX=X;|DQU)LNv4M8sRjlqX=Wyd
UDdvf0#;KOZCMKKP8O3h_0Jx?UWB>pF

delta 64
zcmbQYoq67N<_%$thL(BpsRk)#2KokO#uljthL%Pa2BzkzMkZ!yDVE7;iRLDzspbZz
U#s+DrCP@})<`$dV8O3h_0Cy!59{>OV

diff --git a/v5.9.x/.doctrees/ClawPlotData.doctree b/v5.9.x/.doctrees/ClawPlotData.doctree
index 8c9155df2eb095219208ff83fa61212b0371ec86..d2bf9d86c011532d2e4da1cb6e6f5ebad4a2d2f8 100644
GIT binary patch
delta 64
zcmeCZ#ngL?X+s#Jp-D-hVQE2nroKsHQgV`^Wtu@+nwgP#N}91*lBuD2s)0dDnwg1V
Tig}`$ajK=UiOJ@6#jHxy9yo#mu}#tl)7h9)J2hNT7RnffM)Ny$lumT3lQX=X;|DQU)LNv4M8sRjlqX=Wyd
TDdvf0#;KOZCMKJ^89O`xqR12L

delta 64
zcmbO{g>mu}#tl)7hL(BpsRk)#2KokO#uljthL%Pa2BzkzMkZ!yDVE7;iRLDzspbZz
T#s+DrCP@})<`$c~89O`xVMh|C

diff --git a/v5.9.x/.doctrees/ClawPlotItem.doctree b/v5.9.x/.doctrees/ClawPlotItem.doctree
index 88c578ec2ac1d5680cd41d163303623e245f7c9f..f2a4fcb753d5e005865af6ff00c3111995b69fcd 100644
GIT binary patch
delta 68
zcmcaMmF3!0mJMNyh9)J2hNT7RnffM)Ny$lumT3lQX=X;|DQU)LNv4M8sRjlqX=Wyd
XDdvf0#;KOZCMM18jN9888T~l{7ncxf&$T1Y2

delta 64
zcmey?%=E39X@d`=p=DltszHjGfxdy6u|=wZp{0?9fvI__k%?Jaie++IqPdA_s=0xw
Tu|Zm@Ns>jHxy9yM#>xf&hOiS^

diff --git a/v5.9.x/.doctrees/amr_algorithm.doctree b/v5.9.x/.doctrees/amr_algorithm.doctree
index c08d31331502c6b53bd1da4720629cde4dddfc90..59553f78657997d475a4202d98feefa376348153 100644
GIT binary patch
delta 64
zcmZqMz|^*ZX+s2~p-D-hVQE2nroKsHQgV`^Wtu@+nwgP#N}91*lBuD2s)0dDnwg1V
Tig}`$ajK=UiOJ?p#@cBBsu~nZ

delta 64
zcmZqMz|^*ZX+s2~p=DltszHjGfxdy6u|=wZp{0?9fvI__k%?Jaie++IqPdA_s=0xw
Tu|Zm@Ns>jHxy9yA#@cBBXqgiQ

diff --git a/v5.9.x/.doctrees/amrclaw.doctree b/v5.9.x/.doctrees/amrclaw.doctree
index 1f862bfe724e35ea0b66acc8635cb3f4a6daec3b..23edd22bccc9092ff4b376079d5b08a5718b9324 100644
GIT binary patch
delta 62
zcmeAS?F`-E!)RzyQfOFOke;b;l9-g7WN4XYkd|g4M$xt5Vf699N05}*J8

delta 62
zcmeAS?F`-E!)R!k7oTd7VrHOkU}kKQYG7z-WMN=xo@!)bmX>0foR(;AVw!4hU}|iT
RmTHn@k!EhOxt5Vf696`z5nBKN

diff --git a/v5.9.x/.doctrees/amrclaw1d.doctree b/v5.9.x/.doctrees/amrclaw1d.doctree
index c359e280105919b5642272b96e65fb64c4e57c38..b38917a90f840d8083cd2253381b68165a60da0f 100644
GIT binary patch
delta 62
zcmaE2_rz{P5Tl_>;6Da@y

delta 62
zcmZ3fvr=b645OiCUVN%SikX4Fftj&Is)3=Uk%fV&d8(0#Sz3x^a$2IfiD|02fvK@U
RTB=EsMVh(A=3d4*A^

diff --git a/v5.9.x/.doctrees/amrclaw_flowcharts.doctree b/v5.9.x/.doctrees/amrclaw_flowcharts.doctree
index 62bf379a6fc44f0ddb9d78cf8876117303b9808b..c4e13ec5dc8f436591dc7a1de77c71b9657c6714 100644
GIT binary patch
delta 62
zcmeyT|4)BI5~HC>NugnBL3*aXNn%oRlA&dqL0X!bk$Fm*v00L-p?Ru-K}wpLiD8O)
RqM323rLl?0=E;oNVgRH16Se>V

delta 62
zcmeyT|4)BI5~HDIUVN%SikX4Fftj&Is)3=Uk%fV&d8(0#Sz3x^a$2IfiD|02fvK@U
RTB=EsMVh(A=E;oNVgO=!5^(?k

diff --git a/v5.9.x/.doctrees/application_documentation.doctree b/v5.9.x/.doctrees/application_documentation.doctree
index 1d64590611182beb271af603d55caa9e655a8b1c..531a9aaabadc2f92a09f68a9d789a52cad63e5ec 100644
GIT binary patch
delta 62
zcmbR3I@@(a0i&TwNugnBL3*aXNn%oRlA&dqL0X!bk$Fm*v00L-p?Ru-K}wpLiD8O)
RqM323rLl?0=7o&E6aa&o6VU(w

delta 62
zcmbR3I@@(a0i&U1UVN%SikX4Fftj&Is)3=Uk%fV&d8(0#Sz3x^a$2IfiD|02fvK@U
RTB=EsMVh(A=7o&E6aYdQ5{v)<

diff --git a/v5.9.x/.doctrees/apps.doctree b/v5.9.x/.doctrees/apps.doctree
index d5480395c7313245898357330b2cbcd71b275dea..793871c5018a4992bad606ef7bb2a7558191b710 100644
GIT binary patch
delta 62
zcmdl~v#Dl-8>68~NugnBL3*aXNn%oRlA&dqL0X!bk$Fm*v00L-p?Ru-K}wpLiD8O)
RqM323rLl?0=5of}HUORU6ZQZA

delta 62
zcmdl~v#Dl-8>69RUVN%SikX4Fftj&Is)3=Uk%fV&d8(0#Sz3x^a$2IfiD|02fvK@U
RTB=EsMVh(A=5of}HUM0660raP

diff --git a/v5.9.x/.doctrees/aws.doctree b/v5.9.x/.doctrees/aws.doctree
index 02ca83f9fa7f78106e7d59473153722003b222f0..85ccf862ab8dd4f4551825bc3f511d1b75b41de5 100644
GIT binary patch
delta 64
zcmex)gX!lDrVTEPh9)J2hNT7RnffM)Ny$lumT3lQX=X;|DQU)LNv4M8sRjlqX=Wyd
UDdvf0#;KOZCMKIp8Cg~X0Polo^Z)<=

delta 64
zcmex)gX!lDrVTEPhL(BpsRk)#2KokO#uljthL%Pa2BzkzMkZ!yDVE7;iRLDzspbZz
U#s+DrCP@})<`$bv8Cg~X0IpXPuK)l5

diff --git a/v5.9.x/.doctrees/b4run.doctree b/v5.9.x/.doctrees/b4run.doctree
index 44e962ca7464bea0d2fd57803259b369e9791340..67bdbb6e2b7b65f1fb92b81f9ceb1dc7c497b473 100644
GIT binary patch
delta 62
zcmccQcFApn2cw}$NugnBL3*aXNn%oRlA&dqL0X!bk$Fm*v00L-p?Ru-K}wpLiD8O)
RqM323rLl?0=1Rt!iU5><6VU(w

delta 62
zcmccQcFApn2cw~7UVN%SikX4Fftj&Is)3=Uk%fV&d8(0#Sz3x^a$2IfiD|02fvK@U
RTB=EsMVh(A=1Rt!iU3mn5{v)<

diff --git a/v5.9.x/.doctrees/b4step_defaults.doctree b/v5.9.x/.doctrees/b4step_defaults.doctree
index 0b8e4911ec542ac63f4619541df6ee12daa14a8c..fe1d181822ca5c8cb90635448a49d7532e1c2dbe 100644
GIT binary patch
delta 62
zcmZ4BvA|6I1{I

delta 62
zcmZ4BvA|N}nP!ldW@cobl4fj{WNK)hYG9C(W@ciT
TVxDMboN8%oVzRlKvG)i7mpK$F

delta 64
zcmeC^VeaT*-r&V(XqgwEYLH@Ppl@JiY>{eUXlZ0&U}~OfWMY<<{}l4Ox)Zn3$VvG)i7Rk#x6

diff --git a/v5.9.x/.doctrees/bouss1d.doctree b/v5.9.x/.doctrees/bouss1d.doctree
index 5aa1ebfde21edcd68bdf234e29fafb7ddbd76a0a..447ae89dd0c4d554c92078858f4ec243dcf60bdb 100644
GIT binary patch
delta 64
zcmcb&gYn)D#tlA=Q6e$1z

delta 62
zcmaD}|Ga)f5Tl`GUVN%SikX4Fftj&Is)3=Uk%fV&d8(0#Sz3x^a$2IfiD|02fvK@U
RTB=EsMVh(A=4QqeI{%pYhy$#tnXqh9)J2hNT7RnffM)Ny$lumT3lQX=X;|DQU)LNv4M8sRjlqX=Wyd
TDdvf0#;KOZCMKKf8U6hL!I%^*

delta 64
zcmX>%pYhy$#tnXqhL(BpsRk)#2KokO#uljthL%Pa2BzkzMkZ!yDVE7;iRLDzspbZz
T#s+DrCP@})<`$dl8U6hLfENPGCwrdNg$ehZedhrHTqZJ%

delta 137
zcmeyhhUM29mJLCShL(BpsRk)#2KokO#uljthL%Pa2BzkzMkZ!yDVE7;iRLDzspbZz
z#s+DrCP@})<`$cq8D%0EQzti`5|h-^pOV2IJ0-)QN39^UKp``)xFj(rM?n`XyZLG4
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diff --git a/v5.9.x/.doctrees/docker_image.doctree b/v5.9.x/.doctrees/docker_image.doctree
index 51bd421ab419c0536801275be6033b46bf029aa4..b12134371f4eb2b2ce5894113e22fe7a59eb1708 100644
GIT binary patch
delta 64
zcmbRKka7A$#tmVNh9)J2hNT7RnffM)Ny$lumT3lQX=X;|DQU)LNv4M8sRjlqX=Wyd
TDdvf0#;KOZCMKKP83pnI$Nm&F

delta 64
zcmbRKka7A$#tmVNhL(BpsRk)#2KokO#uljthL%Pa2BzkzMkZ!yDVE7;iRLDzspbZz
T#s+DrCP@})<`$dV83pnIhJ6z6

diff --git a/v5.9.x/.doctrees/dtopotools_module.doctree b/v5.9.x/.doctrees/dtopotools_module.doctree
index 344102d00d8b83d5ebb3a63139e952e058e4899c..ac74fc3a63fc25b6ce29ecff7305a787f4e9a2ff 100644
GIT binary patch
delta 76
zcmZ29k9W~L-VF(ih9)J2hNT7RnffM)Ny$lumT3lQX=X;|DQU)LNv4M8sRjlqX=Wyd
dDdvf0#;KOZCML}j8QUi^f-uweiHyt>eF40@7oY$D

delta 76
zcmZ29k9W~L-VF(ihL(BpsRk)#2KokO#uljthL%Pa2BzkzMkZ!yDVE7;iRLDzspbZz
d#s+DrCP@})<`&Hp8QUi^f-uweiHyt>eF1C#7Fz%S

diff --git a/v5.9.x/.doctrees/environment.pickle b/v5.9.x/.doctrees/environment.pickle
index 7ecf0e78878b3cf08c4defac788bdd2899a47b66..63bc7884deb388a8a2c76bc806502a71ea5ba996 100644
GIT binary patch
delta 63525
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zHrOR#w+;3P_}m721$Cg3Edh6Ia96+s1{}-5d?>(u7k~5rN6ZTN
zi~R_LD7FX_;Dx9vL<)}Wqv|qBcV)pEU#P}K0C-ZaJravSl1(V+Y
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zD>gBh-rJ&2@VQdxjr|_$P;Bp~fa&Yn$8sXvB9juCd`TpYI_-G+)uQ}Q0
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z3pdbnHJo(1(CSXwRcKWQrTs;Q5gy}Yx0yvbSheJG7f4M<5@pPWd90JoWftdPD~`|A
zjjiRNbdW8h9c+amO|4R%Ht|om53k*ZfBtz7KWF%7IIDH|XA=M9^G_lFbm5<`+2l9=
z31_uF|3vand;an8&k;^N#XnV8ZNWcH`R6NU7x||etApeCk^id6KYLmIj(;9wbp-!hVRbbBmB&A6{L`9$hVV}>{yD)WBk@;)
iS)KKtSU32uzWkHSKlhm(=n!gz)N

diff --git a/v5.9.x/.doctrees/f77_vs_f90.doctree b/v5.9.x/.doctrees/f77_vs_f90.doctree
index 06bc4437d7cab95d5dba42a81536626cd81a62dc..bf8332fa063822231a42a8c2988c8f9af6e2181c 100644
GIT binary patch
delta 62
zcmcbvcwKQr5Tl_4T1knwIVnv0%J$*$co8aA||j$~O;#WS}U
TcE%xGT~G_cxoe2NH+}H~fQ}Qu

diff --git a/v5.9.x/.doctrees/fgout.doctree b/v5.9.x/.doctrees/fgout.doctree
index 6b2d2f24fdb453626da917a8fff3d65fb4d52e5d..3b3ac4db6a25dfc299c4d9eea7ea74106b937959 100644
GIT binary patch
delta 64
zcmaDihxy$c<_#WjHxy9y2#*QEWW2q9b

diff --git a/v5.9.x/.doctrees/first_run_fortran.doctree b/v5.9.x/.doctrees/first_run_fortran.doctree
index 5fba64b03c20aa0339ee5e7889d32e3ceca8e1f1..3fc3e162966da2ffd84e167246d1286871d785e2 100644
GIT binary patch
delta 64
zcmcbAobmo~#tjLKh9)J2hNT7RnffM)Ny$lumT3lQX=X;|DQU)LNv4M8sRjlqX=Wyd
UDdvf0#;KOZCMKIFGWsO}0O5HQ)c^nh

delta 64
zcmcbAobmo~#tjLKhL(BpsRk)#2KokO#uljthL%Pa2BzkzMkZ!yDVE7;iRLDzspbZz
U#s+DrCP@})<`$bLGWsO}0H631kN^Mx

diff --git a/v5.9.x/.doctrees/first_run_pyclaw.doctree b/v5.9.x/.doctrees/first_run_pyclaw.doctree
index 4b63ebeed0aa62d5b143fec615b9115c7bbf4212..a6c9848855a9d325533b1fc1a9c36234430591b8 100644
GIT binary patch
delta 62
zcmbOeIVW;M9HXI0NugnBL3*aXNn%oRlA&dqL0X!bk$Fm*v00L-p?Ru-K}wpLiD8O)
RqM323rLl?0=6*(AZ2*T`67>K8

delta 62
zcmbOeIVW;M9HXISUVN%SikX4Fftj&Is)3=Uk%fV&d8(0#Sz3x^a$2IfiD|02fvK@U
RTB=EsMVh(A=6*(AZ2(2u5wHLN

diff --git a/v5.9.x/.doctrees/flagregions.doctree b/v5.9.x/.doctrees/flagregions.doctree
index be30a7611803117014eea2849479bbe259feda86..c8a0b3e2bf14f7ea66711c9d98bd1ac74dd31918 100644
GIT binary patch
delta 64
zcmcc8%6O%faYG2Bp-D-hVQE2nroKsHQgV`^Wtu@+nwgP#N}91*lBuD2s)0dDnwg1V
Tig}`$ajK=UiOJ?xMt?^DxoH#w

delta 64
zcmcc8%6O%faYG2Bp=DltszHjGfxdy6u|=wZp{0?9fvI__k%?Jaie++IqPdA_s=0xw
Tu|Zm@Ns>jHxy9yIMt?^Dcjywn

diff --git a/v5.9.x/.doctrees/force_dry.doctree b/v5.9.x/.doctrees/force_dry.doctree
index 5753d3499552cde5fbaf9c4a87d549eb4c14b442..870215c051786792a6024c17e5dbcc5cae9dc014 100644
GIT binary patch
delta 64
zcmaFZ%lxpHc|!oBp-D-hVQE2nroKsHQgV`^Wtu@+nwgP#N}91*lBuD2s)0dDnwg1V
Tig}`$ajK=UiOJ?h#)P8)#6A?h

delta 64
zcmaFZ%lxpHc|!oBp=DltszHjGfxdy6u|=wZp{0?9fvI__k%?Jaie++IqPdA_s=0xw
Tu|Zm@Ns>jHxy9y2#)P8)g1r-Y

diff --git a/v5.9.x/.doctrees/fortran.doctree b/v5.9.x/.doctrees/fortran.doctree
index e1712faffc944c85b6e3bb04eeaa4a643d5d03bc..b11800a143f5f4ca95b1214b1910f0bcebf7f626 100644
GIT binary patch
delta 62
zcmbP~Iw^I752K+;NugnBL3*aXNn%oRlA&dqL0X!bk$Fm*v00L-p?Ru-K}wpLiD8O)
RqM323rLl?0=2}KkLjZ&W65{{>

delta 62
zcmbP~Iw^I752K-FUVN%SikX4Fftj&Is)3=Uk%fV&d8(0#Sz3x^a$2IfiD|02fvK@U
RTB=EsMVh(A=2}KkLjXd85uN}5

diff --git a/v5.9.x/.doctrees/fortran_compilers.doctree b/v5.9.x/.doctrees/fortran_compilers.doctree
index 29177eed38fa1e9a4a8e68088332337e46e27d3b..c3baa7a60f9c7bec2b5f85ac1e2a4ce0ef9fff2c 100644
GIT binary patch
delta 64
zcmeyko$=###tjLKh9)J2hNT7RnffM)Ny$lumT3lQX=X;|DQU)LNv4M8sRjlqX=Wyd
UDdvf0#;KOZCMKIFGA2X;0OGF{;{X5v

delta 64
zcmeyko$=###tjLKhL(BpsRk)#2KokO#uljthL%Pa2BzkzMkZ!yDVE7;iRLDzspbZz
U#s+DrCP@})<`$bLGA2X;0HH1uo&W#<

diff --git a/v5.9.x/.doctrees/fvmbook.doctree b/v5.9.x/.doctrees/fvmbook.doctree
index 81fb006df69fb87a553b47ff383bcef6a7f60917..6726068280a9d7e0e37d102e54680b65ae9004c9 100644
GIT binary patch
delta 62
zcmaE0|G<8O52K+;NugnBL3*aXNn%oRlA&dqL0X!bk$Fm*v00L-p?Ru-K}wpLiD8O)
RqM323rLl?0=32&NIRKaF6K((i

delta 62
zcmaE0|G<8O52K-FUVN%SikX4Fftj&Is)3=Uk%fV&d8(0#Sz3x^a$2IfiD|02fvK@U
RTB=EsMVh(A=32&NIRI8?5-9)x

diff --git a/v5.9.x/.doctrees/galleries.doctree b/v5.9.x/.doctrees/galleries.doctree
index 67afb2c32144ec40cfee8130caa1c10b37231c45..7d8277ad5695daade1c8c426801843dc2f33595e 100644
GIT binary patch
delta 62
zcmdmLw$*Gy0HdKvNugnBL3*aXNn%oRlA&dqL0X!bk$Fm*v00L-p?Ru-K}wpLiD8O)
RqM323rLl?0=0?UXk^q3i6IuWO

delta 62
zcmdmLw$*Gy0HdL0UVN%SikX4Fftj&Is)3=Uk%fV&d8(0#Sz3x^a$2IfiD|02fvK@U
RTB=EsMVh(A=0?UXk^nzK5)}Xd

diff --git a/v5.9.x/.doctrees/gauges.doctree b/v5.9.x/.doctrees/gauges.doctree
index 42981d32c768b47d7f921826598df26b617b6391..9dcb9a41cf85b6d3f534dddf0cf4ac8b7907f4de 100644
GIT binary patch
delta 64
zcmdn+k7)xCc`+KAloT447NlqDn}Y_4Y9x)%W9R~3B#

delta 64
zcmdn+k7)xCc`+JV=EbKPq?j4#8<-heq#77n8d(^anx`6>n5CsyCZ{Euo0z7W8<-j!
Sq@|i9S)`d;Y_4Y9x)%VS))Y7Z

diff --git a/v5.9.x/.doctrees/geoclaw.doctree b/v5.9.x/.doctrees/geoclaw.doctree
index d5ba56f55eaaeac10fa8a448a4ffb9c32576da2d..6c7d7bda6faa4bcd436425a6b3eeacf3d0bb39fc 100644
GIT binary patch
delta 62
zcmcZ~azA8)52K+;NugnBL3*aXNn%oRlA&dqL0X!bk$Fm*v00L-p?Ru-K}wpLiD8O)
RqM323rLl?0=32%_8UUhB6dwQp

delta 62
zcmcZ~azA8)52K-FUVN%SikX4Fftj&Is)3=Uk%fV&d8(0#Sz3x^a$2IfiD|02fvK@U
RTB=EsMVh(A=32%_8USF;650R&

diff --git a/v5.9.x/.doctrees/geoclaw1d.doctree b/v5.9.x/.doctrees/geoclaw1d.doctree
index 009144574f870d708fe1cbe6f3c13519e7fde8e0..960eee5c0678ccc48141af8534501343022bdde1 100644
GIT binary patch
delta 64
zcmex1m+9MFrVRm%h9)J2hNT7RnffM)Ny$lumT3lQX=X;|DQU)LNv4M8sRjlqX=Wyd
TDdvf0#;KOZCMKI38B2Qs)u4M$xtH;$IRJ`z6Y&55

delta 62
zcmZoGZY$mp!)R!k7oTd7VrHOkU}kKQYG7z-WMN=xo@!)bmX>0foR(;AVw!4hU}|iT
RmTHn@k!EhOxtH;$IRHrb6086K

diff --git a/v5.9.x/.doctrees/geoclaw_util_module.doctree b/v5.9.x/.doctrees/geoclaw_util_module.doctree
index 4e7b277d1bf8476a9418490ccea0c310cdd4e8a7..143f71374e2690c832d8d7ebec2fbfda1d3e1540 100644
GIT binary patch
delta 64
zcmdmdfNApqrVS~Kh9)J2hNT7RnffM)Ny$lumT3lQX=X;|DQU)LNv4M8sRjlqX=Wyd
UDdvf0#;KOZCMKJwGR~U^0LtkV1poj5

delta 64
zcmV~$%MpMe3=WM
T%54|bri4~tS_d1kzhSK(iD(nR

diff --git a/v5.9.x/.doctrees/geohints.doctree b/v5.9.x/.doctrees/geohints.doctree
index db115bf0b70309e65e15c41278f0da02131a5cc4..c7c72a33419f1058ed7598a4919a699f2bcf1798 100644
GIT binary patch
delta 64
zcmaF4n(^go#tnXqh9)J2hNT7RnffM)Ny$lumT3lQX=X;|DQU)LNv4M8sRjlqX=Wyd
TDdvf0#;KOZCMKKf8M8tF)W;N?

delta 64
zcmaF4n(^go#tnXqhL(BpsRk)#2KokO#uljthL%Pa2BzkzMkZ!yDVE7;iRLDzspbZz
T#s+DrCP@})<`$dl8M8tFlSUI(

diff --git a/v5.9.x/.doctrees/geoplot.doctree b/v5.9.x/.doctrees/geoplot.doctree
index e82683f0ed5f5e52d4e18c7955901c2fe65fcdff..e4b41fa2ed9fd5bdf882a42ae9fff6a45d0ab308 100644
GIT binary patch
delta 62
zcmexh{=s~M52K+;NugnBL3*aXNn%oRlA&dqL0X!bk$Fm*v00L-p?Ru-K}wpLiD8O)
RqM323rLl?0=32&LDFB<~6N&%;

delta 62
zcmexh{=s~M52K-FUVN%SikX4Fftj&Is)3=Uk%fV&d8(0#Sz3x^a$2IfiD|02fvK@U
RTB=EsMVh(A=32&LDF9ky5=8(2

diff --git a/v5.9.x/.doctrees/git_versions.doctree b/v5.9.x/.doctrees/git_versions.doctree
index 02460105a32666ebed06be4d680c583a144aed1a..7161808d862fb9e7efad4a0698383fa6282ad0e8 100644
GIT binary patch
delta 62
zcmdmJz0rC@7^9&{NugnBL3*aXNn%oRlA&dqL0X!bk$Fm*v00L-p?Ru-K}wpLiD8O)
RqM323rLl?0=5|Ic832Kh65#*<

delta 62
zcmdmJz0rC@7^9(OUVN%SikX4Fftj&Is)3=Uk%fV&d8(0#Sz3x^a$2IfiD|02fvK@U
RTB=EsMVh(A=5|Ic82~^J5u5-3

diff --git a/v5.9.x/.doctrees/googleearth_plotting.doctree b/v5.9.x/.doctrees/googleearth_plotting.doctree
index 19f61821b54cd6a64311f00e22a86a8dc957d418..6411a8ae5dfa304b1e10dfc910de27d0bcaa5647 100644
GIT binary patch
delta 68
zcmcb0j_uYtwhd{Fh9)J2hNT7RnffM)Ny$lumT3lQX=X;|DQU)LNv4M8sRjlqX=Wyd
YDdvf0#;KOZCMM0(8MjYoWIVhS06qK`#{d8T

delta 68
zcmcb0j_uYtwhd{FhL(BpsRk)#2KokO#uljthL%Pa2BzkzMkZ!yDVE7;iRLDzspbZz
Y#s+DrCP@})<`&J<8MjYoWIVhS0QXoGf&c&j

diff --git a/v5.9.x/.doctrees/gpu.doctree b/v5.9.x/.doctrees/gpu.doctree
index 25ae70c7cdda9101185508f2cc35accd5343b3ca..3f170b630f9c947603ec3ba729aacba7204ea637 100644
GIT binary patch
delta 62
zcmdm-x;b@&3!|Y)NugnBL3*aXNn%oRlA&dqL0X!bk$Fm*v00L-p?Ru-K}wpLiD8O)
RqM323rLl?0=2AvGLjaN|6FvX{

delta 62
zcmV~$!4ZHU3z>%

diff --git a/v5.9.x/.doctrees/installing.doctree b/v5.9.x/.doctrees/installing.doctree
index bb78ea18f51995db08204d28a199dda6c6cd09f9..3a014495e4d4ef77ada87bb64b39fc0c630a5bea 100644
GIT binary patch
delta 62
zcmZ2lw6thL5Tl_jHxy9z`jO(2Nc!d)(

diff --git a/v5.9.x/.doctrees/installing_pip.doctree b/v5.9.x/.doctrees/installing_pip.doctree
index dba9b0b6414bdf1391bd0a0110d93b92dfc45d5e..34a1332c4cc6dddf2c7853651e1a3e34a693737d 100644
GIT binary patch
delta 910
zcmZvaZ%9*76u>=iZ*Q|ukOrECo6ZWQ<oG}3r|_v!Gz7~B=W}c
zli@s6J0Zm<2@3pNYygiK$+zAIXd!E7tLTP>rB~?svNQs|yUud}9YiSeg0!1vO3`{=
ziDNc4tdWZVL{Qt$qE;ir)v5%s^3w7`koHjDxYdsW{kDE$Wg|#?X}Dpl9|g|;d^2?8
zzUpS^L#(a=AKsRwV1X?Yb8Q#FPafHpS-4F6_8x|I@|R-|?7%#s?O#7nW2(z2|J%;;
zZDQRpfPQ-tA+AJ#u=x4j-476Fayt`N+SuU(@6b7ZKeMFI~A^ySE59&-a7+&oR6l+yvqAgh6UEG%Lm=-?J9&5Mmv
zTn#8mc4$SyJ*DiyKV}_NGu$#|pJK(SxE3~u$F&V50fUxgOu^mshuN6QzzV61sOW~h
aBSZ8_aW|IYXg|J8Xi+*jP2Wr=kNp7-b4FqS

delta 1015
zcmbVKT}V@L6!+Y1chg7{E6qT!n^~H=tL{S)@heG9%dZ@=nW^{AZQ7P@t};`RjA+Bs
zqXtnHh&^O}{z+u@kPlHpLT~m~NE8@F_!>liuNgf`|A+JWJ0JgZ&e&UKbCr?zDMr7{
z%WEMm%h@3Ef`QlahKx*+Ps>Wra?7gmCmBAI}Ak*p&4nHr~HGIIgNUA(y<=B*_%{
zHqP-J=aY+x@o0ezibz+|3P2H_NVZXBIyp%RrT9L>4W*<^*UCU8E*X4^N-3&BS3-u2
z0U6Ygvh163wvJlkJ~xKP4n8Z&vaapM4U5aqqaO6XU&Ib
z)Qb56+e;B26!_8`iPe@u=)|6y7<^`V4E@AX|3(hiQQI0ta+;bL@ZlrjFht=C!TonR
zXI|3LvX107`_k>>=GA>AFTy2C>6>>XmW$JKE~y>ll2
zuq-^bzfM3eoS!wf(dfOH7|onT0cP;IcMc|`q2IdXhj|it`2nzm;teVct4$)GuH?zsMXEbg
z^u`h~#}`A|uYFTO02>CpY=C+m?|5Q~=Ee;_Ec*-p3-b4979>mh_Bpl;Oj%A=+Qs-Pe1e7x@Vu6DOzX2i7KY
Fe*+Z{XQBWA

diff --git a/v5.9.x/.doctrees/kmltools_module.doctree b/v5.9.x/.doctrees/kmltools_module.doctree
index 3157b5a4f47a0d9c6e7c620678d1b1ecd10395b2..b21e10062b957fe95e2fd519bb63975025594829 100644
GIT binary patch
delta 72
zcmX@Kl;hA+jtw!4h9)J2hNT7RnffM)Ny$lumT3lQX=X;|DQU)LNv4M8sRjlqX=Wyd
bDdvf0#;KOZCMM0jjP1RQjN5w|nM?%%aX1zr

delta 72
zcmX@Kl;hA+jtw!4hL(BpsRk)#2KokO#uljthL%Pa2BzkzMkZ!yDVE7;iRLDzspbZz
b#s+DrCP@})<`&JpjP1RQjN5w|nM?%%C65%_

diff --git a/v5.9.x/.doctrees/lagrangian_gauges.doctree b/v5.9.x/.doctrees/lagrangian_gauges.doctree
index f9203ecf2c4bf73b586848328107f88fabec6850..0a963259bea9dda6247ec45944b188b0a936056b 100644
GIT binary patch
delta 64
zcmbQ*$T+o;aYF*5p-D-hVQE2nroKsHQgV`^Wtu@+nwgP#N}91*lBuD2s)0dDnwg1V
Tig}`$ajK=UiOJ@Pj4bv5n*I|=

delta 64
zcmbQ*$T+o;aYF*5p=DltszHjGfxdy6u|=wZp{0?9fvI__k%?Jaie++IqPdA_s=0xw
Tu|Zm@Ns>jHxy9y*j4bv5S$z@%

diff --git a/v5.9.x/.doctrees/license.doctree b/v5.9.x/.doctrees/license.doctree
index fd5b739b66831b121b7c0e44eeec8eb925c173a2..baf3c2ea84dad60198fd8fd58ea9595d5af8f8dd 100644
GIT binary patch
delta 62
zcmdn)y4`hy52K+;NugnBL3*aXNn%oRlA&dqL0X!bk$Fm*v00L-p?Ru-K}wpLiD8O)
RqM323rLl?0=2}K8MF58169NDL

delta 62
zcmdn)y4`hy52K-FUVN%SikX4Fftj&Is)3=Uk%fV&d8(0#Sz3x^a$2IfiD|02fvK@U
RTB=EsMVh(A=2}K8MF2%!5xoEa

diff --git a/v5.9.x/.doctrees/makefiles.doctree b/v5.9.x/.doctrees/makefiles.doctree
index 27da87f85af8fc9499176f8032b3a98c7eacc12d..25c9395eb52ba475867be9cdff5fbbc40a1d0026 100644
GIT binary patch
delta 64
zcmZ3xnQ`rA#ti|Ch9)J2hNT7RnffM)Ny$lumT3lQX=X;|DQU)LNv4M8sRjlqX=Wyd
TDdvf0#;KOZCMKI38FeB6yHykY

delta 64
zcmZ3xnQ`rA#ti|ChL(BpsRk)#2KokO#uljthL%Pa2BzkzMkZ!yDVE7;iRLDzspbZz
T#s+DrCP@})<`$b98FeB6dDIfP

diff --git a/v5.9.x/.doctrees/makefiles_library.doctree b/v5.9.x/.doctrees/makefiles_library.doctree
index 71cb8b06955f731765cbfa81b13de6bae5614199..b57cc564bf0072e004e9228067c86e9da561e20f 100644
GIT binary patch
delta 64
zcmex3hwOV

delta 64
zcmex3hwmJLyih9)J2hNT7RnffM)Ny$lumT3lQX=X;|DQU)LNv4M8sRjlqX=Wyd
XDdvf0#;KOZCMM0@jN7{z8Iy$pFQpZW

delta 68
zcmaF2lI7h>mJLyihL(BpsRk)#2KokO#uljthL%Pa2BzkzMkZ!yDVE7;iRLDzspbZz
X#s+DrCP@})<`&J}jN7{z8Iy$p=>Zf*

diff --git a/v5.9.x/.doctrees/matlab_plotting.doctree b/v5.9.x/.doctrees/matlab_plotting.doctree
index 93671f1c193ab5d76dd14c4bbc21f7ff607bc8db..8741d8a4cda3855b6915b9defae8b077f264cd7e 100644
GIT binary patch
delta 64
zcmdmXfoaH

delta 62
zcmZ3PzcPPA9HXISUVN%SikX4Fftj&Is)3=Uk%fV&d8(0#Sz3x^a$2IfiD|02fvK@U
RTB=EsMVh(A=6*&gGXPeB5)J?W

diff --git a/v5.9.x/.doctrees/netcdf.doctree b/v5.9.x/.doctrees/netcdf.doctree
index 562fd4ac86dffac7d01deb82684e8740b9b53963..82b082a73ea6143bb1fc65ce2da050e99de3b651 100644
GIT binary patch
delta 62
zcmbOxJ56?j7o(v`NugnBL3*aXNn%oRlA&dqL0X!bk$Fm*v00L-p?Ru-K}wpLiD8O)
RqM323rLl?0=4wW1UI1g65;*_>

delta 62
zcmbOxJ56?j7o(wNUVN%SikX4Fftj&Is)3=Uk%fV&d8(0#Sz3x^a$2IfiD|02fvK@U
RTB=EsMVh(A=4wW1UH~E(5cB{5

diff --git a/v5.9.x/.doctrees/newapp.doctree b/v5.9.x/.doctrees/newapp.doctree
index 62e5fce735965f1dd094ab76624ce55600398888..8c9b2e9b50d2304caeac3adab0c557b6547954b2 100644
GIT binary patch
delta 62
zcmbQQJzsl+7o(v`NugnBL3*aXNn%oRlA&dqL0X!bk$Fm*v00L-p?Ru-K}wpLiD8O)
RqM323rLl?0=4wV25ddzC5_bRq

delta 62
zcmbQQJzsl+7o(wNUVN%SikX4Fftj&Is)3=Uk%fV&d8(0#Sz3x^a$2IfiD|02fvK@U
RTB=EsMVh(A=4wV25dbX<5i$S(

diff --git a/v5.9.x/.doctrees/okada.doctree b/v5.9.x/.doctrees/okada.doctree
index fe695f68c7885f1d37fd5d309ae47cdfb432e74a..ca981d219edfdbb51a0cda193ebb80d3acac92ef 100644
GIT binary patch
delta 64
zcmezPljHxy9y*j5D19X+IL!

diff --git a/v5.9.x/.doctrees/photos.doctree b/v5.9.x/.doctrees/photos.doctree
index 946f63ec49b5c04b7370c8b32a4abb590af2068e..b11b2fe6e5c91d74d446977e41fb9fdf0a3bb448 100644
GIT binary patch
delta 62
zcmZ1zvLjHxy9yoM&|1PYE%-`

diff --git a/v5.9.x/.doctrees/plotting_geoclaw.doctree b/v5.9.x/.doctrees/plotting_geoclaw.doctree
index f882498d5ed3d40ff60a9a8bcd87b01508c0c099..c6212143c512a78ed959e7e3bbbce1a378605140 100644
GIT binary patch
delta 62
zcmbPiIN5MR9HXI0NugnBL3*aXNn%oRlA&dqL0X!bk$Fm*v00L-p?Ru-K}wpLiD8O)
RqM323rLl?0=6*&NaR6{D5_SLp

delta 62
zcmbPiIN5MR9HXISUVN%SikX4Fftj&Is)3=Uk%fV&d8(0#Sz3x^a$2IfiD|02fvK@U
RTB=EsMVh(A=6*&NaR4r=5itM&

diff --git a/v5.9.x/.doctrees/plotting_python.doctree b/v5.9.x/.doctrees/plotting_python.doctree
index 4df649f9e3600e06e4ca97b334275f0780bb92cd..1ea17bc4216d5fc5fc6e593fca0b6926200ba472 100644
GIT binary patch
delta 64
zcmbRBgK^dm#tkuyh9)J2hNT7RnffM)Ny$lumT3lQX=X;|DQU)LNv4M8sRjlqX=Wyd
TDdvf0#;KOZCMKJE8GEY$*7X$p

delta 64
zcmbRBgK^dm#tkuyhL(BpsRk)#2KokO#uljthL%Pa2BzkzMkZ!yDVE7;iRLDzspbZz
T#s+DrCP@})<`$cK8GEY$m2?xg

diff --git a/v5.9.x/.doctrees/prereqs.doctree b/v5.9.x/.doctrees/prereqs.doctree
index cf74a0de061cba52a0c7ef602a2c4e233feb6a00..c40438dbbbe7a887179f528495918d19cc3d97dd 100644
GIT binary patch
delta 64
zcmbQ)%s8`|af1(|p-D-hVQE2nroKsHQgV`^Wtu@+nwgP#N}91*lBuD2s)0dDnwg1V
Tig}`$ajK=UiOJ?#Mi~bHnN<@-

delta 64
zcmbQ)%s8`|af1(|p=DltszHjGfxdy6u|=wZp{0?9fvI__k%?Jaie++IqPdA_s=0xw
Tu|Zm@Ns>jHxy9yMMi~bHSJV;!

diff --git a/v5.9.x/.doctrees/pyclaw/about.doctree b/v5.9.x/.doctrees/pyclaw/about.doctree
index 9cfa7025e0f48c1c2de5ab2cd499786c73cf44d5..939bff1f347bb1b09baab17c546895bfcd30e3fd 100644
GIT binary patch
delta 64
zcmaFS!}y|yaf1h=p-D-hVQE2nroKsHQgV`^Wtu@+nwgP#N}91*lBuD2s)0dDnwg1V
Tig}`$ajK=UiOJ?l#`i7&#PJlw

delta 64
zcmaFS!}y|yaf1h=p=DltszHjGfxdy6u|=wZp{0?9fvI__k%?Jaie++IqPdA_s=0xw
Tu|Zm@Ns>jHxy9y6#`i7&gK!gn

diff --git a/v5.9.x/.doctrees/pyclaw/basics.doctree b/v5.9.x/.doctrees/pyclaw/basics.doctree
index cbf2fdc65f492766ef4e49c2f8725460a039bf68..fe85db97ed0a3a88f7221bb23e740a5a29a57e53 100644
GIT binary patch
delta 62
zcmew;`B8F%7o(v`NugnBL3*aXNn%oRlA&dqL0X!bk$Fm*v00L-p?Ru-K}wpLiD8O)
RqM323rLl?0=4!?=ZUBwT6F>j}

delta 62
zcmew;`B8F%7o(wNUVN%SikX4Fftj&Is)3=Uk%fV&d8(0#Sz3x^a$2IfiD|02fvK@U
RTB=EsMVh(A=4!?=ZU9V55&HlD

diff --git a/v5.9.x/.doctrees/pyclaw/classes.doctree b/v5.9.x/.doctrees/pyclaw/classes.doctree
index b2264d88e8921e9c3a03b3f03ab2506621bb6b43..c957a2c0e17156b8289f4e7cb01467937a04472f 100644
GIT binary patch
delta 64
zcmbQ(#yqi&c|#PVp-D-hVQE2nroKsHQgV`^Wtu@+nwgP#N}91*lBuD2s)0dDnwg1V
Tig}`$ajK=UiOJ?}#jHxy9yg#6$2cw}$NugnBL3*aXNn%oRlA&dqL0X!bk$Fm*v00L-p?Ru-K}wpLiD8O)
RqM323rLl?0=1Rs^VE~&c6O8}>

delta 62
zcmeyT`A>6$2cw~7UVN%SikX4Fftj&Is)3=Uk%fV&d8(0#Sz3x^a$2IfiD|02fvK@U
RTB=EsMVh(A=1Rs^VE|dE5=a05

diff --git a/v5.9.x/.doctrees/pyclaw/controller.doctree b/v5.9.x/.doctrees/pyclaw/controller.doctree
index 93b659241297b87f6b9c1a31720281a82f910815..fda55981abae154d92a9d9aac619676267254dc5 100644
GIT binary patch
delta 64
zcmZ4cf_d!=<_!sqh9)J2hNT7RnffM)Ny$lumT3lQX=X;|DQU)LNv4M8sRjlqX=Wyd
UDdvf0#;KOZCMKIFGS2w~0NV%^l>h($

delta 64
zcmZ4cf_d!=<_!sqhL(BpsRk)#2KokO#uljthL%Pa2BzkzMkZ!yDVE7;iRLDzspbZz
U#s+DrCP@})<`$bLGS2w~0GWprPyhe`

diff --git a/v5.9.x/.doctrees/pyclaw/evolve/limiters.doctree b/v5.9.x/.doctrees/pyclaw/evolve/limiters.doctree
index b7379517fe2e54de2b582731db0dc84c7738c0cf..5269c6a99975609cee774c28570267c161cdc562 100644
GIT binary patch
delta 64
zcmdn>iFwy2<_$57h9)J2hNT7RnffM)Ny$lumT3lQX=X;|DQU)LNv4M8sRjlqX=Wyd
UDdvf0#;KOZCMKJE8P|RX0Oev8(EtDd

delta 64
zcmdn>iFwy2<_$57hL(BpsRk)#2KokO#uljthL%Pa2BzkzMkZ!yDVE7;iRLDzspbZz
U#s+DrCP@})<`$cK8P|RX0Hfg)i~s-t

diff --git a/v5.9.x/.doctrees/pyclaw/examples.doctree b/v5.9.x/.doctrees/pyclaw/examples.doctree
index 13088c00a9560c15990b3db1e0d5e59b91f2f7c5..7ef388c2fa4368c72a9de9f3e6ff7090f1cd2a9d 100644
GIT binary patch
delta 62
zcmX?_bu?>(AETj3NugnBL3*aXNn%oRlA&dqL0X!bk$Fm*v00L-p?Ru-K}wpLiD8O)
RqM323rLl?0=6c3s#sHv)6bb+U

delta 62
zcmX?_bu?>(AETjVUVN%SikX4Fftj&Is)3=Uk%fV&d8(0#Sz3x^a$2IfiD|02fvK@U
RTB=EsMVh(A=6c3s#sFUi62$-j

diff --git a/v5.9.x/.doctrees/pyclaw/geometry.doctree b/v5.9.x/.doctrees/pyclaw/geometry.doctree
index e706fc429f48f9b1162ede8937ef9dc774f937c3..b972c7c4143408571bfc1c2f08e08ef121265e82 100644
GIT binary patch
delta 72
zcmZqP%h9}-V?zw1p-D-hVQE2nroKsHQgV`^Wtu@+nwgP#N}91*lBuD2s)0dDnwg1V
big}`$ajK=UiAi%WV|yjHxkYm?V|yjHxy9yc#`Zh_dD0Uh

diff --git a/v5.9.x/.doctrees/pyclaw/io.doctree b/v5.9.x/.doctrees/pyclaw/io.doctree
index 65cff08a7aa0e07811c920b2c7afd2fcbc831679..ddcb5c428a5bff9716f67871f45ecbe11993dd6a 100644
GIT binary patch
delta 68
zcmeC3#MV2BZ9@Q~p-D-hVQE2nroKsHQgV`^Wtu@+nwgP#N}91*lBuD2s)0dDnwg1V
Xig}`$ajK=UiAi%KjHxkYm$N}nP!ldW@cobl4fj{WNK)hYG9C(W@ciT
TVxDMboN8%oVzRlOk*fs&mT(ho

delta 64
zcmeC|X6o!_+Th1%XqgwEYLH@Ppl@JiY>{eUXlZ0&U}~OfWMY<<{}l4Ox)Zn3$Zk*fs&RPPcf

diff --git a/v5.9.x/.doctrees/pyclaw/plotting.doctree b/v5.9.x/.doctrees/pyclaw/plotting.doctree
index 3c4b1bdb94a0d21986383f76e8e15cbf7181f1cd..b1f3022574ec62f741f502bb2d23146adeb57f2c 100644
GIT binary patch
delta 62
zcmbOkGBadD45Oh*NugnBL3*aXNn%oRlA&dqL0X!bk$Fm*v00L-p?Ru-K}wpLiD8O)
RqM323rLl?0=3d4g4FH4|6I}oR

delta 62
zcmbOkGBadD45OiCUVN%SikX4Fftj&Is)3=Uk%fV&d8(0#Sz3x^a$2IfiD|02fvK@U
RTB=EsMVh(A=3d4g4FE!w5*Ppg

diff --git a/v5.9.x/.doctrees/pyclaw/problem.doctree b/v5.9.x/.doctrees/pyclaw/problem.doctree
index 3c46aa08b5de9e8f4ca277365180ab0fa7fc5c3d..25954b92ce3863cb152ce340e2d56ae2567dfc9f 100644
GIT binary patch
delta 64
zcmaFc!}PX?X+s2~p-D-hVQE2nroKsHQgV`^Wtu@+nwgP#N}91*lBuD2s)0dDnwg1V
Tig}`$ajK=UiOJ?p#wRTR%heSn

delta 64
zcmaFc!}PX?X+s2~p=DltszHjGfxdy6u|=wZp{0?9fvI__k%?Jaie++IqPdA_s=0xw
Tu|Zm@Ns>jHxy9yA#wRTRic}Ne

diff --git a/v5.9.x/.doctrees/pyclaw/rp.doctree b/v5.9.x/.doctrees/pyclaw/rp.doctree
index 0a077b0d3865352c5e8a2a75c8bd7302068a3ea0..9aeb58edbe7bf79ba36a66b32773d2dab59902eb 100644
GIT binary patch
delta 68
zcmZ3yoptec)(ruSh9)J2hNT7RnffM)Ny$lumT3lQX=X;|DQU)LNv4M8sRjlqX=Wyd
XDdvf0#;KOZCML~|jN2O-8I_^{4LTJ2

delta 68
zcmZ3yoptec)(ruShL(BpsRk)#2KokO#uljthL%Pa2BzkzMkZ!yDVE7;iRLDzspbZz
X#s+DrCP@})<`&J3jN2O-8I_^{#+DPd

diff --git a/v5.9.x/.doctrees/pyclaw/solution.doctree b/v5.9.x/.doctrees/pyclaw/solution.doctree
index 38a31831a9f89e074ca6982add2276dfff1488b2..7d01b9ac892602d8c03f0e2bb96946b43578e76d 100644
GIT binary patch
delta 67
zcmX@q%yOuiWkU?3p-D-hVQE2nroKsHQgV`^Wtu@+nwgP#N}91*lBuD2s)0dDnwg1V
Wig}`$ajK=UiAi%WjHxkYm?z>%

delta 68
zcmZ49%eK6iZ9^lYp=DltszHjGfxdy6u|=wZp{0?9fvI__k%?Jaie++IqPdA_s=0xw
Yu|Zm@Ns>jHxkd9P#_gLJ8Napw0K=yg`~Uy|

diff --git a/v5.9.x/.doctrees/pyclaw/started.doctree b/v5.9.x/.doctrees/pyclaw/started.doctree
index 04a4f8d30c41b8d643c9bf604ae4ce755488c1b6..03185595531dec0c36ac1b5939121fac5e990692 100644
GIT binary patch
delta 64
zcmZ2EfpO&o#tkWqh9)J2hNT7RnffM)Ny$lumT3lQX=X;|DQU)LNv4M8sRjlqX=Wyd
UDdvf0#;KOZCMKJwGEQ*=0Im`gEdT%j

delta 64
zcmZ2EfpO&o#tkWqhL(BpsRk)#2KokO#uljthL%Pa2BzkzMkZ!yDVE7;iRLDzspbZz
U#s+DrCP@})<`$c$GEQ*=0Bn&G=l}o!

diff --git a/v5.9.x/.doctrees/pyclaw/state.doctree b/v5.9.x/.doctrees/pyclaw/state.doctree
index f27b187a45959a2f176900735d6648b54c1b348a..53f462ff8bd987b6a011d55f7fcbb43b999b4410 100644
GIT binary patch
delta 68
zcmbRCoMqZ`mJMNyh9)J2hNT7RnffM)Ny$lumT3lQX=X;|DQU)LNv4M8sRjlqX=Wyd
XDdvf0#;KOZCMM18jN9888TpL>ANCa%

delta 68
zcmbRCoMqZ`mJMNyhL(BpsRk)#2KokO#uljthL%Pa2BzkzMkZ!yDVE7;iRLDzspbZz
X#s+DrCP@})<`&KEjN9888TpL>*-{hH

diff --git a/v5.9.x/.doctrees/pyclaw/troubleshooting.doctree b/v5.9.x/.doctrees/pyclaw/troubleshooting.doctree
index 50fa45b03d748f908a46e48f46e4bedbe9f6780c..e9daae3cad543b1aa8f00181b46a85f3f04882dc 100644
GIT binary patch
delta 62
zcmbOqGCyQP45Oh*NugnBL3*aXNn%oRlA&dqL0X!bk$Fm*v00L-p?Ru-K}wpLiD8O)
RqM323rLl?0=3d508UTj=6K?ljp#tkuyh9)J2hNT7RnffM)Ny$lumT3lQX=X;|DQU)LNv4M8sRjlqX=Wyd
TDdvf0#;KOZCMKJE8CyL7qQ4XB

delta 64
zcmbOljp#tkuyhL(BpsRk)#2KokO#uljthL%Pa2BzkzMkZ!yDVE7;iRLDzspbZz
T#s+DrCP@})<`$cK8CyL7VLlS2

diff --git a/v5.9.x/.doctrees/pyclaw/util.doctree b/v5.9.x/.doctrees/pyclaw/util.doctree
index e03b51fac53b13e9af327b6392344c6126865afd..ef744e2a8db9748eba14ebabcfb30ab13687ed97 100644
GIT binary patch
delta 64
zcmbQgk9qz+<_%LB4NXc44ND8sGxbdplaiAREz=Cr(#(v^Q__shl1vTFQwtg4D=1mj4e_P3@wc;3{1^ajZDnaQY@3x63tCaQ_T%b
UjSbRLO_D6q%q=z_V~o5D0E&qd@&Et;

diff --git a/v5.9.x/.doctrees/python.doctree b/v5.9.x/.doctrees/python.doctree
index e65307c405428bc74059029b70d3521978439dd4..bc7ee9c88ccaa20619df78fe645425bb7caddbda 100644
GIT binary patch
delta 62
zcmdl~vZ-W)7o(v`NugnBL3*aXNn%oRlA&dqL0X!bk$Fm*v00L-p?Ru-K}wpLiD8O)
RqM323rLl?0=4!_6766+Z6XpN_

delta 62
zcmdl~vZ-W)7o(wNUVN%SikX4Fftj&Is)3=Uk%fV&d8(0#Sz3x^a$2IfiD|02fvK@U
RTB=EsMVh(A=4!_6764hB5}^P9

diff --git a/v5.9.x/.doctrees/python_path.doctree b/v5.9.x/.doctrees/python_path.doctree
index 76903b49fc7639ee07193353f69ffb23c403a817..dade0adfb59c8cebca87c9ec2d27b9a19f159740 100644
GIT binary patch
delta 64
zcmaFxpYg$e#tk8ih9)J2hNT7RnffM)Ny$lumT3lQX=X;|DQU)LNv4M8sRjlqX=Wyd
TDdvf0#;KOZCMKI(8Kdg}`ZyI>

delta 64
zcmaFxpYg$e#tk8ihL(BpsRk)#2KokO#uljthL%Pa2BzkzMkZ!yDVE7;iRLDzspbZz
T#s+DrCP@})<`$b<8Kdg}xVID&

diff --git a/v5.9.x/.doctrees/qinit_defaults.doctree b/v5.9.x/.doctrees/qinit_defaults.doctree
index 3d1a05270f818e130474a7dc12f4dd9adf3d880e..50e79967431834721c56927baf9168d372f490f6 100644
GIT binary patch
delta 62
zcmexp|IvO!6r-U@NugnBL3*aXNn%oRlA&dqL0X!bk$Fm*v00L-p?Ru-K}wpLiD8O)
RqM323rLl?0=5EF`IRK+x6R!XO

delta 62
zcmexp|IvO!6r-VKUVN%SikX4Fftj&Is)3=Uk%fV&d8(0#Sz3x^a$2IfiD|02fvK@U
RTB=EsMVh(A=5EF`IRIhZ5^4Yd

diff --git a/v5.9.x/.doctrees/quick_surge.doctree b/v5.9.x/.doctrees/quick_surge.doctree
index de705182558d98f214514dc51ca85c34725c3a30..c706723effaa4a470b23ac775b7de850191adfae 100644
GIT binary patch
delta 62
zcmeA#>@VC9!f0qxQfOFOke;b;l9-g7WN4XYkd|g4M$xs{R28~}<96951J

delta 62
zcmeA#>@VC9!f0rj7oTd7VrHOkU}kKQYG7z-WMN=xo@!)bmX>0foR(;AVw!4hU}|iT
RmTHn@k!EhOxs{R28~{j+5xW2Y

diff --git a/v5.9.x/.doctrees/quick_tsunami.doctree b/v5.9.x/.doctrees/quick_tsunami.doctree
index d1575cf09ec0e9d067f51bd1ea1361c823e16ccc..cd9c8be3e7decf0383eb04e2627b0c75dfff940a 100644
GIT binary patch
delta 62
zcmaFo{?2_v1f!uzNugnBL3*aXNn%oRlA&dqL0X!bk$Fm*v00L-p?Ru-K}wpLiD8O)
RqM323rLl?0=1#^`B><&36Sx2X

delta 62
zcmaFo{?2_v1f!v4UVN%SikX4Fftj&Is)3=Uk%fV&d8(0#Sz3x^a$2IfiD|02fvK@U
RTB=EsMVh(A=1#^`B>-c$5_13m

diff --git a/v5.9.x/.doctrees/refinement.doctree b/v5.9.x/.doctrees/refinement.doctree
index 8b6b3c6021b0bf74c76e4889d9e96d3f5827fb7b..1179c3fe4415016a694f46220cdd9a61912bb3e1 100644
GIT binary patch
delta 64
zcmeBdX6|fe-VnrSXi`#WSXz*tsc({)l$>N}nP!ldW@cobl4fj{WNK)hYG9C(W@ciT
TVxDMboN8%oVzRlJk?jBglsOZh

delta 64
zcmeBdX6|fe-VnrSXqgwEYLH@Ppl@JiY>{eUXlZ0&U}~OfWMY<<{}l4Ox)Zn3$Uk?jBgQn(UY

diff --git a/v5.9.x/.doctrees/regression.doctree b/v5.9.x/.doctrees/regression.doctree
index ca1951632cb16af24988aa17a1180c494187525f..0b33046ce8a299a388d5df96a5158b881c4a0f46 100644
GIT binary patch
delta 64
zcmeymo9XLrrVT-ih9)J2hNT7RnffM)Ny$lumT3lQX=X;|DQU)LNv4M8sRjlqX=Wyd
UDdvf0#;KOZCMKJk8H?rs0OS}IEdT%j

delta 64
zcmeymo9XLrrVT-ihL(BpsRk)#2KokO#uljthL%Pa2BzkzMkZ!yDVE7;iRLDzspbZz
U#s+DrCP@})<`$cq8H?rs0HT)@=l}o!

diff --git a/v5.9.x/.doctrees/release_5_0_0.doctree b/v5.9.x/.doctrees/release_5_0_0.doctree
index 43c339e61ac4448ede202cca94a15b6369db81b4..41d9d7e01105b7178d9f17bf0b697c4224bc68b4 100644
GIT binary patch
delta 62
zcmbPWFu`C$1f!uzNugnBL3*aXNn%oRlA&dqL0X!bk$Fm*v00L-p?Ru-K}wpLiD8O)
RqM323rLl?0=1#_TF#v7c6662?

delta 62
zcmbPWFu`C$1f!v4UVN%SikX4Fftj&Is)3=Uk%fV&d8(0#Sz3x^a$2IfiD|02fvK@U
RTB=EsMVh(A=1#_TF#s%E5uX46

diff --git a/v5.9.x/.doctrees/release_5_1_0.doctree b/v5.9.x/.doctrees/release_5_1_0.doctree
index 5664f9ae2c3b8ac14c18a418e543d23b7753442d..82da4490e3732c4f40fdce0c1e6d6f6b4064851a 100644
GIT binary patch
delta 64
zcmeCb&e(sQaYF>7p-D-hVQE2nroKsHQgV`^Wtu@+nwgP#N}91*lBuD2s)0dDnwg1V
Tig}`$ajK=UiOJ?pMz$;fzo`@j

delta 64
zcmeCb&e(sQaYF>7p=DltszHjGfxdy6u|=wZp{0?9fvI__k%?Jaie++IqPdA_s=0xw
Tu|Zm@Ns>jHxy9yAMz$;fekc;a

diff --git a/v5.9.x/.doctrees/release_5_2_0.doctree b/v5.9.x/.doctrees/release_5_2_0.doctree
index 72c282d3e600bff204312e0265f3930c4e97880f..28f37cd49abf1cee0b7e5fd4baff28820e22e9f4 100644
GIT binary patch
delta 64
zcmbQTopH)`#tjjSh9)J2hNT7RnffM)Ny$lumT3lQX=X;|DQU)LNv4M8sRjlqX=Wyd
TDdvf0#;KOZCMKIZ8M&hXva}P#

delta 64
zcmbQTopH)`#tjjShL(BpsRk)#2KokO#uljthL%Pa2BzkzMkZ!yDVE7;iRLDzspbZz
T#s+DrCP@})<`$bf8M&hXaWfKs

diff --git a/v5.9.x/.doctrees/release_5_2_1.doctree b/v5.9.x/.doctrees/release_5_2_1.doctree
index 599e1053575831be9685284bff6befce1907cb65..4bc5f6159ef125e28d5caa8a99196a832a26ae18 100644
GIT binary patch
delta 62
zcmdl{yQ6kP1f!uzNugnBL3*aXNn%oRlA&dqL0X!bk$Fm*v00L-p?Ru-K}wpLiD8O)
RqM323rLl?0=1xX^TL7ec6P*A6

delta 62
zcmdl{yQ6kP1f!v4UVN%SikX4Fftj&Is)3=Uk%fV&d8(0#Sz3x^a$2IfiD|02fvK@U
RTB=EsMVh(A=1xX^TL5DE5?BBL

diff --git a/v5.9.x/.doctrees/release_5_2_2.doctree b/v5.9.x/.doctrees/release_5_2_2.doctree
index c1dabcb2241cecf226c0cd574e23805257fe621e..ad02fc5329e7b7c82ffd72434be68eed9bd4f5e6 100644
GIT binary patch
delta 64
zcmZ3}%($kRaYF>7p-D-hVQE2nroKsHQgV`^Wtu@+nwgP#N}91*lBuD2s)0dDnwg1V
Tig}`$ajK=UiOJ?pMr8*8rG^uV

delta 64
zcmZ3}%($kRaYF>7p=DltszHjGfxdy6u|=wZp{0?9fvI__k%?Jaie++IqPdA_s=0xw
Tu|Zm@Ns>jHxy9yAMr8*8WCapM

diff --git a/v5.9.x/.doctrees/release_5_3_0.doctree b/v5.9.x/.doctrees/release_5_3_0.doctree
index 20f283551896fac7a39dc063d88734bf10b3052b..f2add16261db10f3cfee7e776649d86ec20cf20e 100644
GIT binary patch
delta 64
zcmX@Hh3Ui=rVSB{h9)J2hNT7RnffM)Ny$lumT3lQX=X;|DQU)LNv4M8sRjlqX=Wyd
UDdvf0#;KOZCMKIZ8TZcs0L;b}8UO$Q

delta 64
zcmX@Hh3Ui=rVSB{hL(BpsRk)#2KokO#uljthL%Pa2BzkzMkZ!yDVE7;iRLDzspbZz
U#s+DrCP@})<`$bf8TZcs0En+a

delta 64
zcmcclfbr%7#tjjShL(BpsRk)#2KokO#uljthL%Pa2BzkzMkZ!yDVE7;iRLDzspbZz
U#s+DrCP@})<`$bf8874k0H`$-Gynhq

diff --git a/v5.9.x/.doctrees/release_5_5_0.doctree b/v5.9.x/.doctrees/release_5_5_0.doctree
index 96bab745134c2bad1868979f0325881fba460c2d..4141fe915fd650ad524a89501450bc511015a27d 100644
GIT binary patch
delta 64
zcmezViTV2{<_!^yh9)J2hNT7RnffM)Ny$lumT3lQX=X;|DQU)LNv4M8sRjlqX=Wyd
UDdvf0#;KOZCMKIZ8Q*;e00PJsga7~l

delta 64
zcmezViTV2{<_!^yhL(BpsRk)#2KokO#uljthL%Pa2BzkzMkZ!yDVE7;iRLDzspbZz
U#s+DrCP@})<`$bf8Q*;e0KqsFKL7v#

diff --git a/v5.9.x/.doctrees/release_5_6_0.doctree b/v5.9.x/.doctrees/release_5_6_0.doctree
index 711cdd058c5080b5f6b60786850c1173768335d2..eb44ff1afd895a7377891c72325e6df2403d3e5a 100644
GIT binary patch
delta 64
zcmex0lj+w?rVSB{h9)J2hNT7RnffM)Ny$lumT3lQX=X;|DQU)LNv4M8sRjlqX=Wyd
TDdvf0#;KOZCMKIZ84J4s*NznJ

delta 64
zcmex0lj+w?rVSB{hL(BpsRk)#2KokO#uljthL%Pa2BzkzMkZ!yDVE7;iRLDzspbZz
T#s+DrCP@})<`$bf84J4smJJiA

diff --git a/v5.9.x/.doctrees/release_5_6_1.doctree b/v5.9.x/.doctrees/release_5_6_1.doctree
index 4b0992ddc7ecc9f8f1d07a5bf82de2923da5e2c2..ce8271d2a5ad25db2e144c95b867cefe4629bdff 100644
GIT binary patch
delta 64
zcmX@HkMYDl#tjjSh9)J2hNT7RnffM)Ny$lumT3lQX=X;|DQU)LNv4M8sRjlqX=Wyd
UDdvf0#;KOZCMKIZ8TZEm0MOtR@c;k-

delta 64
zcmX@HkMYDl#tjjShL(BpsRk)#2KokO#uljthL%Pa2BzkzMkZ!yDVE7;iRLDzspbZz
U#s+DrCP@})<`$bf8TZEm0FPf2tN;K2

diff --git a/v5.9.x/.doctrees/release_5_7_0.doctree b/v5.9.x/.doctrees/release_5_7_0.doctree
index 416b9963d6d7808d5aa5206fb6070de746276662..1151beed8de993de9a6f55cb61864f97c23af6e6 100644
GIT binary patch
delta 64
zcmdlmlX(LWMKBtgloT447NlqDn}Z0=-KKMer0krYt?

delta 64
zcmdlmlX(LWMKBs#=EbKPq?j4#8<-heq#77n8d(^anx`6>n5CsyCZ{Euo0z7W8<-j!
Sq@|i9S)`d;Z0=-KKMeqK5EBdl

diff --git a/v5.9.x/.doctrees/release_5_7_1.doctree b/v5.9.x/.doctrees/release_5_7_1.doctree
index 314cd183193dec9df5860b5ab3c96d8350d03c11..d51e66b3b0aaeac138df0ed8c4ed63c63606087e 100644
GIT binary patch
delta 64
zcmZo)$=JS7p-D-hVQE2nroKsHQgV`^Wtu@+nwgP#N}91*lBuD2s)0dDnwg1V
Tig}`$ajK=UiOJ?p#(zNor+*ZA

delta 64
zcmZo)$=JS7p=DltszHjGfxdy6u|=wZp{0?9fvI__k%?Jaie++IqPdA_s=0xw
Tu|Zm@Ns>jHxy9yA#(zNoW&RU1

diff --git a/v5.9.x/.doctrees/release_5_8_0.doctree b/v5.9.x/.doctrees/release_5_8_0.doctree
index c424f765b2f12c8cd1f097a610ac4f9a80d2e480..dc2414601e5867f8e7ce1752751a6d3ceb8bbbc6 100644
GIT binary patch
delta 64
zcmZp^!qj|)X+s2~p-D-hVQE2nroKsHQgV`^Wtu@+nwgP#N}91*lBuD2s)0dDnwg1V
Tig}`$ajK=UiOJ?p#;O$nx%(8G

delta 64
zcmZp^!qj|)X+s2~p=DltszHjGfxdy6u|=wZp{0?9fvI__k%?Jaie++IqPdA_s=0xw
Tu|Zm@Ns>jHxy9yA#;O$nczP37

diff --git a/v5.9.x/.doctrees/release_5_8_1.doctree b/v5.9.x/.doctrees/release_5_8_1.doctree
index f55194d979009e421cb9397570144620af7a4887..3578f7c83aa39b6746ee153657136578113a7c5a 100644
GIT binary patch
delta 64
zcmeB~%-A!TaYF>7p-D-hVQE2nroKsHQgV`^Wtu@+nwgP#N}91*lBuD2s)0dDnwg1V
Tig}`$ajK=UiOJ?pMrIEHon8}C

delta 64
zcmeB~%-A!TaYF>7p=DltszHjGfxdy6u|=wZp{0?9fvI__k%?Jaie++IqPdA_s=0xw
Tu|Zm@Ns>jHxy9yAMrIEHTip^3

diff --git a/v5.9.x/.doctrees/release_5_8_2.doctree b/v5.9.x/.doctrees/release_5_8_2.doctree
index a45024b85f5457ac493ad1db5c268bb641de9325..a853bc0d53fd1877c782152b7c0336152f99e866 100644
GIT binary patch
delta 64
zcmZqZU~K4M+z`QNXi`#WSXz*tsc({)l$>N}nP!ldW@cobl4fj{WNK)hYG9C(W@ciT
TVxDMboN8%oVzRlDvD^s&lN%F~

delta 64
zcmZqZU~K4M+z`QNXqgwEYLH@Ppl@JiY>{eUXlZ0&U}~OfWMY<<{}l4Ox)Zn3$OvD^s&QJNA>

diff --git a/v5.9.x/.doctrees/release_5_9_0.doctree b/v5.9.x/.doctrees/release_5_9_0.doctree
index cab3075bce407343028b1da9069ba5961017a69d..f4802f3bc00ee6f4068c323a2dd0c816c0ea563f 100644
GIT binary patch
delta 64
zcmeyjhUwoLrVSB{h9)J2hNT7RnffM)Ny$lumT3lQX=X;|DQU)LNv4M8sRjlqX=Wyd
UDdvf0#;KOZCMKIZ8NW^e0OPb3r~m)}

delta 64
zcmeyjhUwoLrVSB{hL(BpsRk)#2KokO#uljthL%Pa2BzkzMkZ!yDVE7;iRLDzspbZz
U#s+DrCP@})<`$bf8NW^e0HQM#V*mgE

diff --git a/v5.9.x/.doctrees/release_5_9_1.doctree b/v5.9.x/.doctrees/release_5_9_1.doctree
index 4136994c8e1dab2e1ba003d40f17866fcada6d18..83dc6f3b8fe9e2ef04ebba6aaf2ce112b9d63bf0 100644
GIT binary patch
delta 64
zcmdnCnQ7Z*rVSB{h9)J2hNT7RnffM)Ny$lumT3lQX=X;|DQU)LNv4M8sRjlqX=Wyd
UDdvf0#;KOZCMKIZ8Fgm>0K#1qVgLXD

delta 64
zcmdnCnQ7Z*rVSB{hL(BpsRk)#2KokO#uljthL%Pa2BzkzMkZ!yDVE7;iRLDzspbZz
U#s+DrCP@})<`$bf8Fgm>0D#;R9RL6T

diff --git a/v5.9.x/.doctrees/release_5_9_2.doctree b/v5.9.x/.doctrees/release_5_9_2.doctree
index 7fd71b962002ce96cdee1775a5a99180f9b48fe1..39d9a6fa8e8f8a32c2223dde5e2dbe858aec0702 100644
GIT binary patch
delta 2234
zcmah~YiyHc6yE!`om;t$ZlAlBwku=n*3xz>yRj=yVcfP3OpJ!jm9})BPFVurhB`NN*j??O^&V%1-{JR{7MFSbC8eH4&N83F;q{lg
zoZhnb(h^@qiOUrYv)R9m@N%}6nZcnm>D$^Ofv46*0*(RACST9y
zVC2onYmuFif`C!3VqnTIfWd+!-Q?InVzh6dPq(i$dJuwmr%nR&-bGk*4qBFn)
zorSNZMMYe00e9*ewgyh5+PHtZkEOkheS6bveA{&2&uLEV%a&}sf4Xn0^f?=b#ZMdg
zG3v{Kx|#VZ`3Qrtnt5O=&QPCX2?;QgWQ%Ik#~HswldRBOl>}Lt{ruYF=6L3LeutV4
zb{oFTQrJUi&hBR_Fy>pZvSgT*Gg~FEWKff5g!gg`P+OkNA2MjQF2tsslgbkks7URA
z7EAYa`-1Cz-pC4u_B;fm-i}$D^%qzP=5sO!)Xn=tSC2~qrhqDtyES#Ck$xVRoJ8+uti)EFyp**4?ryq$wPI};>R59^pzmjvfcb2Te*#Q=;Lt4SMc
zhxFVd()KA?vI!$02iKeQg^AUe+<~d|sW8L*Av-994Z$t5!bYKUem^@inLHV6d2_g^
zd>J3*qT<#(1JqgO!cTdX(kJm0IEyG6kYb1^46tXxVRl_mj6+Ml!hfM6vf+MyklmZ)
z$%t_n;b?x$U7SPi9?dtxX=@6&EtQf=HRa&Q)Ltw65v7}sx>!z>rZiY%~Ct=3p@
zzyKEt74A?8PES#gmE&;z6yM$=!H4#)vmTO`#Z%xyqG+K^m;=js(RP?^_y>hITCi{<
z(}i&LzxH(0Zf84b?o2!%Q`;JX84kmL&8~8^vBCJ+V~+hiq=E@46LvZC*m3y4X=W#I
zo<4TsM^w`%{v(t?CmyyG8?>Y+1SVK
zvSQfl5?ej&T87=XT!*9|ad{@-Z0TD(MJ>*#yKEEBpnmZ<
zz}+&DoRu$SDbQGcKq^qjZ6~fIuYH(&f|92~S;Y@*Ib>Dt<7;CS?&$T(XBqcUi|+DF
z=7x1u_tE6%tBt%b#&@(@N)#8O9J*<0qQx3da
zn*lG?C9~7utLv98#;ZAvDfES!E>v;y|0H$R-(WYOc}W5Pewr9gEs^MWf3{>5Ub{KZ
zoRsdylU$FH^diZ(M3OXBH!NsaoYF~E=2GP=f;ht+?P?h0tUAh;{;KL*PJ?>65kK;C
z1h=p_`6hu4p98s&Ku?fGu%BR%;0=P^1m6%`BlwEo3xXUxY;q>SECMY-J3%W!3qcb>
z-y^~Y1a}B-6V#KA8iHa1J3+bzA&uZ5HHQc;6I>$rli)r=XdpS*zRB0Sz0=o2|1_EE
zQ$%@TQCe7(6&58a^8P*)8y2-FqK>erK@s}HLc1b#hlOTECb?lDRS`17LZTw%g@rUl
z$WnwPB^1!nk5wO7Ak4*&aMn!r3TOLnQz)!WBj1Fz4vK`euTmte9im8Bdyyhx?Knlk
zS~b}wtTj+1tZk%7IP0ZIID3;K;p_xOcC{7JLgoo;-4qFH2PqQPeo7HpEB_vqRvloP
bQQU+ca8{YrM)|l#JXZHsJJ<-!Z>szo6W3pc

delta 2204
zcmaJ?eN0nV6z9ISXb}WTp+lgr1rd8Gnr{(wxMRxZ1Im}(`3=auW6Pzx2VHqk(n6XJ*R-lSoY8FopZ|50%ww1jznc0_pj=cx#a!l+n&lG?+wL~Sq%fRfYVxPpvb5aC$mJe8<*PsO{
zx1U{@ejCsIn*D}v$-y!%@HSkZrw9`a?w91jp1cry%E!t;^v<4_*0!~!t7}V}seMZz
z&=rd&hy8(`@RnG#2KMLGfLN%-b=xe9;CP-1&R8V*Ic}S?l
zd@1fN=q(wECQR^QIsa-4wcNo@%OS(EnWe2fh1;fC&s)fc)z&egJ;Bft_bl4VbYVW>
zU;Fi?%_i)`N#)w9-3mj2B>vZ2pR`Gc(p=s2TvXA@57chhzi2ne_Bm=Kfgk1=V9;L7
z58+9Bk?=7t%EymikcYwKa0#EQ;6aWJ6o<&daLln=2&-V7$*FmXD{q08iaz0d!j2~u
zA>jfpPuMZ+Bs;!vu4L!ok@Jw@CJMl>_?g4!Q2^S|OvP4PP4KYtknj|%NbE73t$IgD
zQ^QW64aMpi1Zg~l1RzzbdA-W&hinB{
zJcDc}x0X-!54(iCFz
ztI#1|{H>(}0`tVPR@_zfuE45h5OSf6;>A0y39B$k`&amz?drjUic^
ziN2AwR*cBn?HG}@Ll}{@r!XRGFJna3GPI4X&ButWU5*hs+kz1}dkZ6S_Ay2lwT0sX
uG>@$HVMNwOF(PYEV}#bq_v0mN4l@2XIpZr4j%fHf6Ct_D#)hG)$@33T_+uLY

diff --git a/v5.9.x/.doctrees/releases.doctree b/v5.9.x/.doctrees/releases.doctree
index 883cc396152af60f301bfeec1b0821202cc8f3df..4d200bb19c3333b9b6e4e40607e270f5ccd29a02 100644
GIT binary patch
delta 64
zcmezVlkxjc#tnXqh9)J2hNT7RnffM)Ny$lumT3lQX=X;|DQU)LNv4M8sRjlqX=Wyd
TDdvf0#;KOZCMKKf87ry*0cjP8

delta 64
zcmezVlkxjc#tnXqhL(BpsRk)#2KokO#uljthL%Pa2BzkzMkZ!yDVE7;iRLDzspbZz
T#s+DrCP@})<`$dl87ry*zu6Q+

diff --git a/v5.9.x/.doctrees/restart.doctree b/v5.9.x/.doctrees/restart.doctree
index e472f9702ac9d194d812e4ab48f0860ecc2c3c8d..08bcf08eab4df03cb671c0b98a1063ac3bbf5d04 100644
GIT binary patch
delta 64
zcmcbjHxy9yM#?yxZboUdY

diff --git a/v5.9.x/.doctrees/riemann/Shallow_water_Riemann_solvers.doctree b/v5.9.x/.doctrees/riemann/Shallow_water_Riemann_solvers.doctree
index 3386ae93314f08161af549a96e771558fbeceee2..49ef94cf3f29c5286030b5478034db99a49fab80 100644
GIT binary patch
delta 73
zcmZo#!_>5fX+s60nMp~ZVQE2nroKsHQgV`^Wtu@+nwgP#N}91*lBuD2s)0dDnwg1V
dig}`$ajK=UiHUwnezN}LgI%hdFEi>-0RVJW7w`Z8

delta 73
zcmZo#!_>5fX+s60nPpylszHjGfxdy6u|=wZp{0?9fvI__k%?Jaie++IqPdA_s=0xw
du|Zm@Ns>jHxrKg8ezN}LgI%hdFEi>-0RSgw7OMaN

diff --git a/v5.9.x/.doctrees/ruled_rectangles.doctree b/v5.9.x/.doctrees/ruled_rectangles.doctree
index 01b1bdb46101cb1c9c7c65b14f137338e2657772..e91691d936ecd9e314d7e38fda9535499518f85e 100644
GIT binary patch
delta 68
zcmaDjo#o+lmJM-?h9)J2hNT7RnffM)Ny$lumT3lQX=X;|DQU)LNv4M8sRjlqX=Wyd
XDdvf0#;KOZCMM1OjNAJe8H2b0AgdKW

delta 68
zcmaDjo#o+lmJM-?hL(BpsRk)#2KokO#uljthL%Pa2BzkzMkZ!yDVE7;iRLDzspbZz
X#s+DrCP@})<`&KUjNAJe8H2b0+6NQ*

diff --git a/v5.9.x/.doctrees/sealevel.doctree b/v5.9.x/.doctrees/sealevel.doctree
index 11437bcf61c8a76c0f73e49fef171caab379ed75..33b652dca6757c5bdfabd14f9053d38176aac46e 100644
GIT binary patch
delta 62
zcmexS`lED%AETj3NugnBL3*aXNn%oRlA&dqL0X!bk$Fm*v00L-p?Ru-K}wpLiD8O)
RqM323rLl?0=6c3TO8~uT6h8m}

delta 62
zcmexS`lED%AETjVUVN%SikX4Fftj&Is)3=Uk%fV&d8(0#Sz3x^a$2IfiD|02fvK@U
RTB=EsMVh(A=6c3TO8|T568ZoD

diff --git a/v5.9.x/.doctrees/set_eta_init.doctree b/v5.9.x/.doctrees/set_eta_init.doctree
index e0d00576e3ffe5f4286bb5d70eda0848f4b8abc3..5d5ddc9828ab94a727867512cf5b86791fd5306e 100644
GIT binary patch
delta 64
zcmbO^iE-v6#tmVNh9)J2hNT7RnffM)Ny$lumT3lQX=X;|DQU)LNv4M8sRjlqX=Wyd
UDdvf0#;KOZCMKKP87H{|0Hfa%^Z)<=

delta 64
zcmbO^iE-v6#tmVNhL(BpsRk)#2KokO#uljthL%Pa2BzkzMkZ!yDVE7;iRLDzspbZz
U#s+DrCP@})<`$dV87H{|0AgMeuK)l5

diff --git a/v5.9.x/.doctrees/setaux_defaults.doctree b/v5.9.x/.doctrees/setaux_defaults.doctree
index 29836957897f4ca8d4e287d83ffa5590b9a4d900..e7b69715086b2373e7e4d140a322b5b660061850 100644
GIT binary patch
delta 62
zcmeD3=4M$xtFn42>^F26A}Ob

delta 62
zcmeD3=0foR(;AVw!4hU}|iT
RmTHn@k!EhOxtFn42>>;#5zPPq

diff --git a/v5.9.x/.doctrees/setenv.doctree b/v5.9.x/.doctrees/setenv.doctree
index 3679e5ad49e158b71860912d9c0d7d0f9eb47f46..87e60e6496ee43513ab42b993e6e802ea42f95d2 100644
GIT binary patch
delta 62
zcmdn*x8HAr7o(v`NugnBL3*aXNn%oRlA&dqL0X!bk$Fm*v00L-p?Ru-K}wpLiD8O)
RqM323rLl?0=4!?xssN9L6RrRN

delta 62
zcmdn*x8HAr7o(wNUVN%SikX4Fftj&Is)3=Uk%fV&d8(0#Sz3x^a$2IfiD|02fvK@U
RTB=EsMVh(A=4!?xssK&|5@`Sc

diff --git a/v5.9.x/.doctrees/setplot.doctree b/v5.9.x/.doctrees/setplot.doctree
index 8717552006e7b43d3837ec6d65dcac983da3e60d..19826a7a91d7e70adadb7c4021d8bd2d17ce91bd 100644
GIT binary patch
delta 64
zcmZ3rhH=#z#tlAp

delta 68
zcmezKm*vl2mJMEvhL(BpsRk)#2KokO#uljthL%Pa2BzkzMkZ!yDVE7;iRLDzspbZz
X#s+DrCP@})<`&J>jN7Xj85?Z@7Z?>H

diff --git a/v5.9.x/.doctrees/setrun_amrclaw.doctree b/v5.9.x/.doctrees/setrun_amrclaw.doctree
index dd839bc9dde2dba5020a645e07281576f6864426..d8d3c90c915ebdb0dbe9333f3cfe84a6dd8e903f 100644
GIT binary patch
delta 64
zcmX@}is{TNrVUYyh9)J2hNT7RnffM)Ny$lumT3lQX=X;|DQU)LNv4M8sRjlqX=Wyd
UDdvf0#;KOZCMKJ^84qp-0O>^)uK)l5

delta 64
zcmX@}is{TNrVUYyhL(BpsRk)#2KokO#uljthL%Pa2BzkzMkZ!yDVE7;iRLDzspbZz
U#s+DrCP@})<`$c~84qp-0H?$hY5)KL

diff --git a/v5.9.x/.doctrees/setrun_amrclaw_sample.doctree b/v5.9.x/.doctrees/setrun_amrclaw_sample.doctree
index e483b480b4f8e84a66d0b559d998d20cb9d7a99d..2b6faddeea00acfc33396a7fa5071dc39724adef 100644
GIT binary patch
delta 64
zcmZp?z}R?!aYF{9p-D-hVQE2nroKsHQgV`^Wtu@+nwgP#N}91*lBuD2s)0dDnwg1V
Tig}`$ajK=UiOJ@fj2USFx&{jHxy9z0j2USFc!d)b

diff --git a/v5.9.x/.doctrees/setrun_geoclaw.doctree b/v5.9.x/.doctrees/setrun_geoclaw.doctree
index 4c51be5cf4dc69304cc49a091768a33d7ab6d237..c5eade4e37e0411e2ade1c31fd338189073e03f9 100644
GIT binary patch
delta 68
zcmX?mkoD|A)(ugNh9)J2hNT7RnffM)Ny$lumT3lQX=X;|DQU)LNv4M8sRjlqX=Wyd
XDdvf0#;KOZCMM0@jN7{z8J*$*D^nGw

delta 68
zcmX?mkoD|A)(ugNhL(BpsRk)#2KokO#uljthL%Pa2BzkzMkZ!yDVE7;iRLDzspbZz
X#s+DrCP@})<`&J}jN7{z8J*$*SvaYF>7p-D-hVQE2nroKsHQgV`^Wtu@+nwgP#N}91*lBuD2s)0dDnwg1V
Tig}`$ajK=UiOJ?pMrStwyD$_8

delta 64
zcmX@p&v>SvaYF>7p=DltszHjGfxdy6u|=wZp{0?9fvI__k%?Jaie++IqPdA_s=0xw
Tu|Zm@Ns>jHxy9yAMrStwd9M<~

diff --git a/v5.9.x/.doctrees/sharing.doctree b/v5.9.x/.doctrees/sharing.doctree
index 25dd07bfba31b0199a5e96071e138792fde0e7a7..a2f654bdeae8f70ccfea18f1d3e4d151c2e69346 100644
GIT binary patch
delta 62
zcmeCM>#*D4!)RzyQfOFOke;b;l9-g7WN4XYkd|g4M$xt6h8765I}65{{>

delta 62
zcmeCM>#*D4!)R!k7oTd7VrHOkU}kKQYG7z-WMN=xo@!)bmX>0foR(;AVw!4hU}|iT
RmTHn@k!EhOxt6h8762?x5uN}5

diff --git a/v5.9.x/.doctrees/sphere_source.doctree b/v5.9.x/.doctrees/sphere_source.doctree
index b3c3c99cdb427f35d5561f403a28028f8150edf3..44d98370a7628a8e73340eb67d54056a056c237a 100644
GIT binary patch
delta 62
zcmdmQwBKk$1f!uzNugnBL3*aXNn%oRlA&dqL0X!bk$Fm*v00L-p?Ru-K}wpLiD8O)
RqM323rLl?0=1#_K;sAw_6LtUq

delta 62
zcmdmQwBKk$1f!v4UVN%SikX4Fftj&Is)3=Uk%fV&d8(0#Sz3x^a$2IfiD|02fvK@U
RTB=EsMVh(A=1#_K;s8Vt5-|V(

diff --git a/v5.9.x/.doctrees/sphinxdoc.doctree b/v5.9.x/.doctrees/sphinxdoc.doctree
index de5c9125fef7778d114b1753b944bc0bf665d96a..43a74ff8654c35ed753bc53da9d10c87227b2fd4 100644
GIT binary patch
delta 62
zcmZ3kzFd7n0HdKvNugnBL3*aXNn%oRlA&dqL0X!bk$Fm*v00L-p?Ru-K}wpLiD8O)
RqM323rLl?0=0-*}Apmjg5{m!;

delta 62
zcmZ3kzFd7n0HdL0UVN%SikX4Fftj&Is)3=Uk%fV&d8(0#Sz3x^a$2IfiD|02fvK@U
RTB=EsMVh(A=0-*}ApkII5k>$2

diff --git a/v5.9.x/.doctrees/src1d_defaults.doctree b/v5.9.x/.doctrees/src1d_defaults.doctree
index da503e68f3c647a726df03df865f30cf472c5e2f..8880160071581bf55dea19546d3f4c48abff504b 100644
GIT binary patch
delta 62
zcmca&f5m=76r-U@NugnBL3*aXNn%oRlA&dqL0X!bk$Fm*v00L-p?Ru-K}wpLiD8O)
RqM323rLl?0=59t$IRKSX6IcKM

delta 62
zcmca&f5m=76r-VKUVN%SikX4Fftj&Is)3=Uk%fV&d8(0#Sz3x^a$2IfiD|02fvK@U
RTB=EsMVh(A=59t$IRI195)%Lb

diff --git a/v5.9.x/.doctrees/src_defaults.doctree b/v5.9.x/.doctrees/src_defaults.doctree
index 4eeabef58cbdfabf44859313227f28a258bb83eb..c25887c3499bbd0ddc8f96f61c0fe70228c11fe5 100644
GIT binary patch
delta 62
zcmX@)amZss7^9&{NugnBL3*aXNn%oRlA&dqL0X!bk$Fm*v00L-p?Ru-K}wpLiD8O)
RqM323rLl?0=61&2N&t}R6SM#T

delta 62
zcmX@)amZss7^9(OUVN%SikX4Fftj&Is)3=Uk%fV&d8(0#Sz3x^a$2IfiD|02fvK@U
RTB=EsMVh(A=61&2N&ru35^n$i

diff --git a/v5.9.x/.doctrees/storm_module.doctree b/v5.9.x/.doctrees/storm_module.doctree
index 1566818a04677b0557bf97e9b81f580d608c84f2..9342887762de5f89f3b50b9b3e4da22deff22ae3 100644
GIT binary patch
delta 72
zcmX>Sd?a{70HdKvNugnBL3*aXNn%oRlA&dqL0X!bk$Fm*v00L-p?Ru-K}wpLiD8O)
RqM323rLl?0=0-+m4FHs`6HovE

delta 62
zcmX>Sd?a{70HdL0UVN%SikX4Fftj&Is)3=Uk%fV&d8(0#Sz3x^a$2IfiD|02fvK@U
RTB=EsMVh(A=0-+m4FFRu5(@wT

diff --git a/v5.9.x/.doctrees/testing.doctree b/v5.9.x/.doctrees/testing.doctree
index 0f6ce50db9cd4b3b628efb2c0cd1104ac2360cc5..e6348354b0d564462c1afe0b0fd80e774e8475e6 100644
GIT binary patch
delta 62
zcmezG^512H52K+;NugnBL3*aXNn%oRlA&dqL0X!bk$Fm*v00L-p?Ru-K}wpLiD8O)
RqM323rLl?0=2}K3MF6Nr6IcKM

delta 62
zcmezG^512H52K-FUVN%SikX4Fftj&Is)3=Uk%fV&d8(0#Sz3x^a$2IfiD|02fvK@U
RTB=EsMVh(A=2}K3MF3{T5)%Lb

diff --git a/v5.9.x/.doctrees/timing.doctree b/v5.9.x/.doctrees/timing.doctree
index 5e5b3121d17e30de1a02c000ba423b5f6a83b268..851b6cf4e418302f315475ecd066bf942834fc5b 100644
GIT binary patch
delta 62
zcmeD2?eX2<#b{_!QfOFOke;b;l9-g7WN4XYkd|g4M$xtdW>6##Wv5|aP`

delta 62
zcmeD2?eX2<#b{`m7oTd7VrHOkU}kKQYG7z-WMN=xo@!)bmX>0foR(;AVw!4hU}|iT
RmTHn@k!EhOxtdW>6#z5X5l#RA

diff --git a/v5.9.x/.doctrees/topo.doctree b/v5.9.x/.doctrees/topo.doctree
index 8e646a0c66afad1642f7f16fa26f1c281813f070..1df32cdfdb2ba2733aaab661c8421e5c2d3382b5 100644
GIT binary patch
delta 68
zcmX@w!E&^NWrG`|p-D-hVQE2nroKsHQgV`^Wtu@+nwgP#N}91*lBuD2s)0dDnwg1V
Xig}`$ajK=UiAi%g

delta 68
zcmX@w!E&^NWrG`|p=DltszHjGfxdy6u|=wZp{0?9fvI__k%?Jaie++IqPdA_s=0xw
Xu|Zm@Ns>jHxkYn1;It_^XFh9)J2hNT7RnffM)Ny$lumT3lQX=X;|DQU)LNv4M8sRjlqX=Wyd
cDdvf0#;KOZCMM1OjP3o5jNAJenL5@30DZIz>%

delta 72
zcmbRKh->;It_^XFhL(BpsRk)#2KokO#uljthL%Pa2BzkzMkZ!yDVE7;iRLDzspbZz
c#s+DrCP@})<`&KUjP3o5jNAJenL5@305S^|`~Uy|

diff --git a/v5.9.x/.doctrees/trouble.doctree b/v5.9.x/.doctrees/trouble.doctree
index 93d8962f49c272065abd2216da72e746a432f5e0..b695c631df695074accf2318e2192cb88e425862 100644
GIT binary patch
delta 64
zcmcb7o$>N@#tlAN@#tlAN}nP!ldW@cobl4fj{WNK)hYG9C(W@ciT
TVxDMboN8%oVzRlDvEd*9m<<#x

delta 64
zcmeBdWA1EY-VniPXqgwEYLH@Ppl@JiY>{eUXlZ0&U}~OfWMY<<{}l4Ox)Zn3$OvEd*9R*Vwo

diff --git a/v5.9.x/.doctrees/visit_plotting.doctree b/v5.9.x/.doctrees/visit_plotting.doctree
index 29e03348d2a829b8895d45ca07bb21ec705b899d..61d9a2dfcf5eefb3ae4c85ce8fc010cecf93f569 100644
GIT binary patch
delta 62
zcmexu|J!~;6r-U@NugnBL3*aXNn%oRlA&dqL0X!bk$Fm*v00L-p?Ru-K}wpLiD8O)
RqM323rLl?0=5EFUIRL0O6U_hs

delta 62
zcmexu|J!~;6r-VKUVN%SikX4Fftj&Is)3=Uk%fV&d8(0#Sz3x^a$2IfiD|02fvK@U
RTB=EsMVh(A=5EFUIRIw05{Li*

diff --git a/v5.9.x/.doctrees/vm.doctree b/v5.9.x/.doctrees/vm.doctree
index ab06dd83a6f6c15840dafe75effc2c480b59ccf4..cbdfe156eaec2b120d98a2825bc9855a5c133e76 100644
GIT binary patch
delta 62
zcmX@5c1mr76QiL?NugnBL3*aXNn%oRlA&dqL0X!bk$Fm*v00L-p?Ru-K}wpLiD8O)
RqM323rLl?0=3>U{f&hRm6Jr1X

delta 62
zcmX@5c1mr76QiMJUVN%SikX4Fftj&Is)3=Uk%fV&d8(0#Sz3x^a$2IfiD|02fvK@U
RTB=EsMVh(A=3>U{f&f0O5*`2m

diff --git a/v5.9.x/.doctrees/wp_algorithms.doctree b/v5.9.x/.doctrees/wp_algorithms.doctree
index 82b9448bb6a58b854acda6f43dd58dcc0672bbf1..c6f1106b8aca8e0641d0b1adfa911c2141ee1ff8 100644
GIT binary patch
delta 64
zcmaEGlkve##tjjSh9)J2hNT7RnffM)Ny$lumT3lQX=X;|DQU)LNv4M8sRjlqX=Wyd
TDdvf0#;KOZCMKIZ8N;&y=+6}W

delta 64
zcmaEGlkve##tjjShL(BpsRk)#2KokO#uljthL%Pa2BzkzMkZ!yDVE7;iRLDzspbZz
T#s+DrCP@})<`$bf8N;&yr%n^N

diff --git a/v5.9.x/_sources/developers.rst.txt b/v5.9.x/_sources/developers.rst.txt
index ee4296195..363bc8f24 100644
--- a/v5.9.x/_sources/developers.rst.txt
+++ b/v5.9.x/_sources/developers.rst.txt
@@ -99,7 +99,7 @@ things in a different repository.)
 
 Now install this version of Clawpack using::
 
-    pip install -e --no-build-isolation ./
+    pip install --no-build-isolation -e ./
 
 The `-e` flag means that this is an editabl version of the Clawpack code
 (rather than installing the original version in the `site-packages`
@@ -290,7 +290,7 @@ anything:
     if you have modified any Fortran code, you need to recompile::
 
         cd clawpack/
-        pip install --user -e --no-build-isolation ./
+        pip install --user --no-build-isolation -e ./
 
     Then run the tests::
 
diff --git a/v5.9.x/_sources/installing_pip.rst.txt b/v5.9.x/_sources/installing_pip.rst.txt
index 167ec273b..c15ac6829 100644
--- a/v5.9.x/_sources/installing_pip.rst.txt
+++ b/v5.9.x/_sources/installing_pip.rst.txt
@@ -55,9 +55,8 @@ following command
 **(you might want to first read the notes below to see if you
 want to change anything in this command)**::  
 
-    pip install --src=$HOME/clawpack_src --user -e --no-build-isolation \
-        git+https://github.com/clawpack/clawpack.git@v5.9.2#egg=clawpack-v5.9.2 \
-        --use-deprecated=legacy-resolver
+    pip install --src=$HOME/clawpack_src --user --no-build-isolation -e \
+        git+https://github.com/clawpack/clawpack.git@v5.9.2#egg=clawpack
         
         
 **Notes:** 
@@ -140,8 +139,8 @@ Instead, you can always install another branch by doing a new
 `pip install` into a different subdirectory of `clawpack_src`, e.g. ::
 
     export CLAW_VERSION=v5.3.1  # used several places in next commands
-    pip install --src=$HOME/clawpack_src --user -e --no-build-isolation \
-        git+https://github.com/clawpack/clawpack.git@$CLAW_VERSION#egg=clawpack-$CLAW_VERSION
+    pip install --src=$HOME/clawpack_src --user --no-build-isolation -e \
+        git+https://github.com/clawpack/clawpack.git@$CLAW_VERSION#egg=clawpack
     export CLAW=$HOME/clawpack_src/clawpack-$CLAW_VERSION
 
 If this version doesn't already exist on your computer then it will clone
@@ -153,7 +152,7 @@ properly via::
 
     export CLAW=/full/path/to/desired/version/of/clawpack
     cd $CLAW
-    pip install --user -e --no-build-isolation ./   # note trailing dot indicating "this directory"
+    pip install --user --no-build-isolation -e ./
 
 See :ref:`python_path` if you are having problems with the wrong version
 being imported.
diff --git a/v5.9.x/_sources/release_5_9_2.rst.txt b/v5.9.x/_sources/release_5_9_2.rst.txt
index 7be9f5beb..17fb1199e 100644
--- a/v5.9.x/_sources/release_5_9_2.rst.txt
+++ b/v5.9.x/_sources/release_5_9_2.rst.txt
@@ -33,7 +33,7 @@ General changes
 ---------------
 
 The build process for the Python modules has been completely redone using
-`meson ` in place of `distutils`, which is being
+`meson `__ in place of `distutils`, which is being
 deprecated.  We chose `meson` since this is now being used by many of the core
 scientific python projects that we use, e.g. `numpy` and `scipy`.  This should
 not affect most users, except for some changes to the recommended installation
diff --git a/v5.9.x/developers.html b/v5.9.x/developers.html
index 6e941306f..464c3d8dc 100644
--- a/v5.9.x/developers.html
+++ b/v5.9.x/developers.html
@@ -199,7 +199,7 @@ 
Cloning the most rece
 repositories and checking out a different commit in one repository may break
 things in a different repository.)

 
Now install this version of Clawpack using:

-
pip install -e --no-build-isolation ./
+
pip install --no-build-isolation -e ./
 

 

 
The -e flag means that this is an editabl version of the Clawpack code
@@ -369,7 +369,7 @@ 
Modifying code
 
cd clawpack/
-pip install --user -e --no-build-isolation ./
+pip install --user --no-build-isolation -e ./
 

 

 
Then run the tests:

diff --git a/v5.9.x/installing_pip.html b/v5.9.x/installing_pip.html
index 426d8e126..1d04a727e 100644
--- a/v5.9.x/installing_pip.html
+++ b/v5.9.x/installing_pip.html
@@ -121,9 +121,8 @@ 
Navigation

 following command
 (you might want to first read the notes below to see if you
 want to change anything in this command):

-
pip install --src=$HOME/clawpack_src --user -e --no-build-isolation \
-    git+https://github.com/clawpack/clawpack.git@v5.9.2#egg=clawpack-v5.9.2 \
-    --use-deprecated=legacy-resolver
+
pip install --src=$HOME/clawpack_src --user --no-build-isolation -e \
+    git+https://github.com/clawpack/clawpack.git@v5.9.2#egg=clawpack
 

 

 
Notes:

@@ -191,8 +190,8 @@ 
Next steps:
export CLAW_VERSION=v5.3.1  # used several places in next commands
-pip install --src=$HOME/clawpack_src --user -e --no-build-isolation \
-    git+https://github.com/clawpack/clawpack.git@$CLAW_VERSION#egg=clawpack-$CLAW_VERSION
+pip install --src=$HOME/clawpack_src --user --no-build-isolation -e \
+    git+https://github.com/clawpack/clawpack.git@$CLAW_VERSION#egg=clawpack
 export CLAW=$HOME/clawpack_src/clawpack-$CLAW_VERSION
 

 

@@ -203,7 +202,7 @@ 
Next steps:
export CLAW=/full/path/to/desired/version/of/clawpack
 cd $CLAW
-pip install --user -e --no-build-isolation ./   # note trailing dot indicating "this directory"
+pip install --user --no-build-isolation -e ./
 

 

 
See Python path if you are having problems with the wrong version
diff --git a/v5.9.x/release_5_9_2.html b/v5.9.x/release_5_9_2.html
index 8c44a60fc..02ccf3484 100644
--- a/v5.9.x/release_5_9_2.html
+++ b/v5.9.x/release_5_9_2.html
@@ -94,7 +94,7 @@ 
Navigation

 

 
General changes¶

 
The build process for the Python modules has been completely redone using
-meson <https://mesonbuild.com/> in place of distutils, which is being
+meson in place of distutils, which is being
 deprecated.  We chose meson since this is now being used by many of the core
 scientific python projects that we use, e.g. numpy and scipy.  This should
 not affect most users, except for some changes to the recommended installation
diff --git a/v5.9.x/searchindex.js b/v5.9.x/searchindex.js
index a81ec130d..819dc103b 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", "fgout_tools_module", "first_run", "first_run_fortran", "first_run_pyclaw", "flagregions", "force_dry", "fortran", "fortran_compilers", "fvmbook", "galleries", "gauges", "geoclaw", "geoclaw1d", "geoclaw_started", "geoclaw_util_module", "geohints", "geoplot", "git_versions", "googleearth_plotting", "gpu", "grid_registration", "howto_doc", "howto_release", "installing", "installing_fortcodes", "installing_pip", "kmltools_module", 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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, 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, 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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], 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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": 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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], 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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": [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, 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, 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, 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, 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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"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, 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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, 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[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, 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"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 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"module-clawpack.geoclaw.dtopotools"]], "containing_rect() (clawpack.geoclaw.dtopotools.fault method)": [[32, "clawpack.geoclaw.dtopotools.Fault.containing_rect"]], "convert_to_standard_units() (clawpack.geoclaw.dtopotools.subfault method)": [[32, "clawpack.geoclaw.dtopotools.SubFault.convert_to_standard_units"]], "coordinate_specification (clawpack.geoclaw.dtopotools.subfault attribute)": [[32, "clawpack.geoclaw.dtopotools.SubFault.coordinate_specification"]], "corners (clawpack.geoclaw.dtopotools.subfault property)": [[32, "clawpack.geoclaw.dtopotools.SubFault.corners"]], "create_dtopo_xy() (clawpack.geoclaw.dtopotools.fault method)": [[32, "clawpack.geoclaw.dtopotools.Fault.create_dtopo_xy"]], "create_dtopography() (clawpack.geoclaw.dtopotools.fault method)": [[32, "clawpack.geoclaw.dtopotools.Fault.create_dtopography"]], "dz_at_t() (clawpack.geoclaw.dtopotools.dtopography method)": [[32, "clawpack.geoclaw.dtopotools.DTopography.dZ_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 (clawpack.geoclaw.dtopotools.subfault attribute)": [[32, "clawpack.geoclaw.dtopotools.SubFault.latitude"]], "length (clawpack.geoclaw.dtopotools.subfault attribute)": [[32, "clawpack.geoclaw.dtopotools.SubFault.length"]], "longitude (clawpack.geoclaw.dtopotools.subfault attribute)": [[32, "clawpack.geoclaw.dtopotools.SubFault.longitude"]], "module": [[32, "module-clawpack.geoclaw.dtopotools"], [35, 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method)": [[32, "clawpack.geoclaw.dtopotools.DTopography.plot_dZ_colors"]], "plot_dz_colors() (in module clawpack.geoclaw.dtopotools)": [[32, "clawpack.geoclaw.dtopotools.plot_dZ_colors"]], "plot_dz_contours() (clawpack.geoclaw.dtopotools.dtopography method)": [[32, "clawpack.geoclaw.dtopotools.DTopography.plot_dZ_contours"]], "plot_dz_contours() (in module clawpack.geoclaw.dtopotools)": [[32, "clawpack.geoclaw.dtopotools.plot_dZ_contours"]], "plot_subfaults() (clawpack.geoclaw.dtopotools.fault method)": [[32, "clawpack.geoclaw.dtopotools.Fault.plot_subfaults"]], "plot_subfaults_depth() (clawpack.geoclaw.dtopotools.fault method)": [[32, "clawpack.geoclaw.dtopotools.Fault.plot_subfaults_depth"]], "rake (clawpack.geoclaw.dtopotools.subfault attribute)": [[32, "clawpack.geoclaw.dtopotools.SubFault.rake"]], "read() (clawpack.geoclaw.dtopotools.csvfault method)": [[32, "clawpack.geoclaw.dtopotools.CSVFault.read"]], "read() (clawpack.geoclaw.dtopotools.dtopography method)": [[32, "clawpack.geoclaw.dtopotools.DTopography.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, "clawpack.geoclaw.dtopotools.SubFault.rupture_type"]], "set_corners() (clawpack.geoclaw.dtopotools.subfault method)": [[32, "clawpack.geoclaw.dtopotools.SubFault.set_corners"]], "set_dynamic_slip() (clawpack.geoclaw.dtopotools.fault method)": [[32, "clawpack.geoclaw.dtopotools.Fault.set_dynamic_slip"]], "set_subfaults() (clawpack.geoclaw.dtopotools.siftfault method)": [[32, "clawpack.geoclaw.dtopotools.SiftFault.set_subfaults"]], "slip (clawpack.geoclaw.dtopotools.subfault attribute)": [[32, "clawpack.geoclaw.dtopotools.SubFault.slip"]], "strike (clawpack.geoclaw.dtopotools.subfault attribute)": [[32, "clawpack.geoclaw.dtopotools.SubFault.strike"]], "strike_direction() (in module clawpack.geoclaw.dtopotools)": [[32, "clawpack.geoclaw.dtopotools.strike_direction"]], "subdivide() (clawpack.geoclaw.dtopotools.subdividedplanefault method)": [[32, "clawpack.geoclaw.dtopotools.SubdividedPlaneFault.subdivide"]], "width (clawpack.geoclaw.dtopotools.subfault attribute)": [[32, "clawpack.geoclaw.dtopotools.SubFault.width"]], "write() (clawpack.geoclaw.dtopotools.dtopography method)": [[32, "clawpack.geoclaw.dtopotools.DTopography.write"]], "write() (clawpack.geoclaw.dtopotools.fault method)": [[32, "clawpack.geoclaw.dtopotools.Fault.write"]], "fgmaxgrid (class in clawpack.geoclaw.fgmax_tools)": [[35, "clawpack.geoclaw.fgmax_tools.FGmaxGrid"]], "adjust_fgmax_1d() (in module clawpack.geoclaw.fgmax_tools)": [[35, "clawpack.geoclaw.fgmax_tools.adjust_fgmax_1d"]], "bounding_box() (clawpack.geoclaw.fgmax_tools.fgmaxgrid method)": [[35, "clawpack.geoclaw.fgmax_tools.FGmaxGrid.bounding_box"]], "clawpack.geoclaw.fgmax_tools": [[35, "module-clawpack.geoclaw.fgmax_tools"]], "interp_dz() (clawpack.geoclaw.fgmax_tools.fgmaxgrid method)": [[35, "clawpack.geoclaw.fgmax_tools.FGmaxGrid.interp_dz"]], "ps4_to_arrays() (clawpack.geoclaw.fgmax_tools.fgmaxgrid method)": [[35, "clawpack.geoclaw.fgmax_tools.FGmaxGrid.ps4_to_arrays"]], "read_fgmax_grids_data() 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"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)": 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"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)": 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"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, 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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, 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, 29, 32, 34, 35, 36, 37, 41, 49, 63, 75, 94, 102, 139, 141, 144, 148, 149, 151, 166], "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, 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, 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, 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, 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, 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, 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], "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, 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, 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], "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": [4, 17, 86, 96, 141], "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, 94, 102, 160], "0649": 4, "council": 4, "nfr": 4, "through": [4, 13, 30, 36, 38, 39, 47, 49, 52, 55, 70, 71, 78, 81, 89, 101, 106, 108, 109, 111, 114, 115], "program": [4, 50, 52, 67, 78], "101039": 4, "420": 4, "scientif": [4, 17, 85, 96, 99, 110, 136], "divis": [4, 55], "nation": [4, 52, 157], "center": [4, 5, 29, 32, 34, 35, 36, 37, 42, 47, 55, 57, 63, 72, 75, 88, 94, 101, 102, 108, 115, 126, 141, 143, 148, 149, 150, 157, 158, 161, 166], "atmospher": 4, "ncar": 4, "boe": 4, "professorship": 4, "founder": 4, "depart": [4, 157], "mathemat": 4, "comot": 4, "fellowship": 4, "king": [4, 86], "abdullah": [4, 86], "technologi": [4, 86], "contract": [4, 65, 86], "state": [4, 13, 17, 27, 30, 58, 75, 82, 88, 89, 91, 94, 96, 97, 98, 99, 101, 102, 103, 104, 107, 108, 116, 131, 132, 139, 140, 141, 147, 161, 169], "emerg": 4, "manag": [4, 12, 13, 55, 98, 157], "tsunami": [4, 5, 16, 17, 26, 27, 34, 36, 42, 48, 50, 56, 68, 75, 98, 115, 118, 121, 127, 128, 134, 141, 142, 143, 150, 158, 161], "hazard": [4, 34, 48, 68, 142], "mitig": [4, 52], "nasa": 4, "asteroid": 4, "threat": 4, "assess": [4, 52, 142], "project": [4, 5, 26, 27, 32, 52, 55, 58, 59, 75, 86, 90, 124, 125, 136, 148, 163], "planetari": 4, "defens": 4, "offic": 4, "opinion": 4, "conclus": [4, 55], "recommend": [4, 18, 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], "express": [4, 32, 65, 86, 105, 141], "materi": [4, 65, 75, 86, 113, 129], "those": [4, 6, 10, 12, 18, 24, 26, 52, 55, 56, 59, 70, 78, 88, 89, 91, 98, 101, 106, 115, 116, 118, 129, 131, 137, 138, 152, 159, 163, 166], "necessarili": [4, 42, 77, 97, 116], "reflect": [4, 5, 16, 30, 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150, 159], "snapshot": [5, 30, 98, 127], "save": [5, 13, 27, 28, 36, 37, 42, 54, 63, 77, 91, 95, 104, 123, 124, 126, 131, 138, 158, 163], "space": [5, 6, 7, 16, 17, 27, 32, 34, 35, 36, 37, 47, 48, 55, 57, 75, 77, 94, 98, 101, 115, 122, 134, 138, 141, 147, 148, 149, 150, 151, 161, 163, 166], "interpol": [5, 6, 16, 27, 32, 35, 37, 42, 47, 48, 57, 63, 64, 71, 75, 82, 124, 131, 134, 141, 142, 143, 157, 158, 163], "regrid": [5, 10, 115, 118, 119, 124, 127, 128, 148, 149, 160], "davisleveque2018": [5, 17], "davis2018": [5, 17], "discuss": [5, 18, 26, 30, 32, 52, 57, 70, 75, 97, 108, 110, 111, 115, 124, 126, 139, 150, 169], "when": [5, 14, 15, 16, 18, 22, 30, 31, 32, 34, 36, 37, 42, 43, 44, 47, 49, 53, 54, 55, 57, 58, 59, 61, 62, 64, 68, 70, 71, 75, 76, 77, 78, 81, 82, 84, 88, 95, 96, 97, 99, 100, 104, 107, 111, 115, 116, 118, 119, 121, 123, 124, 125, 129, 131, 133, 134, 135, 139, 141, 142, 143, 144, 146, 147, 148, 149, 150, 151, 152, 157, 161, 163, 164, 165, 166, 167, 169], "accur": [5, 18, 49, 52, 72, 75, 96, 104, 131, 147, 166, 169], "entir": [5, 6, 36, 41, 52, 55, 63, 70, 72, 75, 76, 78, 88, 98, 103, 113, 115, 119, 141, 163], "domain": [5, 6, 16, 17, 35, 36, 41, 42, 49, 52, 55, 58, 63, 75, 77, 87, 88, 89, 91, 99, 101, 103, 106, 113, 115, 134, 148, 149, 150, 151, 161], "dimens": [5, 6, 7, 16, 22, 24, 27, 47, 48, 51, 57, 63, 71, 72, 88, 89, 91, 97, 99, 101, 102, 103, 106, 108, 115, 126, 129, 139, 147, 148, 149, 151, 163, 166], "int_a": 5, "phi": 5, "dx": [5, 15, 32, 34, 35, 36, 51, 57, 64, 75, 77, 89, 94, 98, 122, 126, 144, 161, 163, 166], "leq": [5, 141], "backward": [5, 30, 32, 51, 63, 75, 77, 97, 119, 120, 135, 153, 163], "small": [5, 16, 36, 42, 47, 68, 70, 115, 116, 118, 123, 138, 147, 149, 150, 161, 163, 165], "sai": [5, 13, 16, 30, 63, 107, 115], "x_1": [5, 141], "x_2": [5, 141], "might": [5, 10, 13, 14, 16, 24, 30, 31, 37, 38, 39, 40, 41, 42, 51, 55, 57, 58, 62, 67, 70, 71, 72, 76, 82, 85, 88, 98, 102, 111, 113, 114, 115, 118, 147, 148, 161, 163, 165, 166], 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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, 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"wavelength": [18, 49, 52], "long": [18, 30, 32, 49, 51, 52, 55, 74, 96, 123, 131, 148, 163], "fluid": [18, 34, 36, 49, 52, 64, 72, 142], "deriv": [18, 65, 75, 86, 91, 95, 96, 106, 116], "longer": [18, 22, 30, 47, 58, 59, 63, 85, 110, 124, 126, 129, 131, 135, 136, 138, 139, 150, 161, 165], "respect": [18, 32, 34, 49, 55, 63, 96, 97, 102, 163], "txx": 18, "altern": [18, 32, 36, 38, 39, 47, 48, 51, 55, 60, 66, 71, 81, 96, 99, 111, 115, 122, 123, 124], "ellipt": 18, "involv": [18, 26, 101, 104, 113, 153, 158], "xx": 18, "modif": [18, 30, 43, 65, 71, 82, 86, 92, 150], "serr": 18, "naghdi": 18, "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": 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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, 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[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, "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": 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"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 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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"]], 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(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 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(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 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(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, 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"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 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(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, 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