updates to dev - fgout and some other setrun params

clawpack · Jul 3, 2022 · 6c7dd50 · 6c7dd50
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diff --git a/ClawPlotAxes.html b/ClawPlotAxes.html
@@ -291,7 +291,7 @@ <h4>Older Versions</h4>
       <div class="clearer"></div>
     </div>
   <div class="footer">
-    &copy; Copyright CC-BY 2020, The Clawpack Development Team.
+    &copy; Copyright CC-BY 2022, The Clawpack Development Team.
     Created using <a href="http://sphinx.pocoo.org/">Sphinx</a>.
   </div>
   <script>

diff --git a/ClawPlotData.html b/ClawPlotData.html
@@ -403,7 +403,7 @@ <h4>Older Versions</h4>
       <div class="clearer"></div>
     </div>
   <div class="footer">
-    &copy; Copyright CC-BY 2020, The Clawpack Development Team.
+    &copy; Copyright CC-BY 2022, The Clawpack Development Team.
     Created using <a href="http://sphinx.pocoo.org/">Sphinx</a>.
   </div>
   <script>

diff --git a/ClawPlotFigure.html b/ClawPlotFigure.html
@@ -238,7 +238,7 @@ <h4>Older Versions</h4>
       <div class="clearer"></div>
     </div>
   <div class="footer">
-    &copy; Copyright CC-BY 2020, The Clawpack Development Team.
+    &copy; Copyright CC-BY 2022, The Clawpack Development Team.
     Created using <a href="http://sphinx.pocoo.org/">Sphinx</a>.
   </div>
   <script>

diff --git a/ClawPlotItem.html b/ClawPlotItem.html
@@ -553,7 +553,7 @@ <h4>Older Versions</h4>
       <div class="clearer"></div>
     </div>
   <div class="footer">
-    &copy; Copyright CC-BY 2020, The Clawpack Development Team.
+    &copy; Copyright CC-BY 2022, The Clawpack Development Team.
     Created using <a href="http://sphinx.pocoo.org/">Sphinx</a>.
   </div>
   <script>

diff --git a/_sources/apps.rst.txt b/_sources/apps.rst.txt
@@ -19,7 +19,7 @@ These examples are not included in the basic Clawpack installation.
 Users interested in obtaining this collection of applications can either
 clone the repository using git::
 
-    git clone git://github.com/clawpack/apps
+    git clone https://github.com/clawpack/apps
 
 or navigate to `https://github.com/clawpack/apps <https://github.com/clawpack/apps>`_
 and click on the green "Code" button to see other options, such as downloading

diff --git a/_sources/developers.rst.txt b/_sources/developers.rst.txt
@@ -63,13 +63,21 @@ Cloning the most recent code from Github
 
 You can create a read-only development version of Clawpack via::
 
-    git clone git://github.com/clawpack/clawpack.git
+    git clone https://github.com/clawpack/clawpack.git
     cd clawpack
     git submodule init
     git submodule update
 
-This downloads the following clawpack modules as subrepositories checked out at
-specific commits (as opposed to the tip of a branch). 
+
+**Note:** The `https://github.com...` form of specifying a remote
+clones the repository in a form that does not allow pushing to it
+(unlike the `[email protected]:...` form).  This is good practice, so
+you do not accidently try to push to the main clawpack repository
+rather than to your own fork (see :ref:`dev_remote` below if you
+need your own fork, e.g. for issuing pull requests).
+
+The commands above download the following clawpack modules as subrepositories
+checked out at specific commits (as opposed to the tip of a branch).
 
 * `<https://github.com/clawpack/pyclaw>`_  (Python code, some of which is
   needed also for Fortran version)
@@ -169,7 +177,7 @@ repository:
 
    provided you have ssh keys set up, or else:
 
-        git remote add username htpps://github.com/username/amrclaw.git
+        git remote add username https://github.com/username/amrclaw.git
 
    if you don't mind having to type your password whenever you push or pull.
 
@@ -189,17 +197,17 @@ You might also want to clone some or all of the following repositories:
 These are not brought over by cloning the top `clawpack` super-repository.
 You can get one of these in read-only mode by doing, e.g.::
 
-    git clone git://github.com/clawpack/doc.git
+    git clone https://github.com/clawpack/doc.git
 
 Then go through the above steps to add your own fork as a remote 
 if you plan to modify code and issue pull requests.
 
-**Note:** The `git://github.com...` form of specifying a remote
-clones the repository in a form
-that does not allow pushing to it (unlike the `[email protected]:...` or
-`https://github.com...` forms).  This is good practic so you do not
-accidently try to push to the main clawpack repository rather than to your
-own fork.
+**Note:** The `https://github.com...` form of specifying a remote
+clones the repository in a form that does not allow pushing to it
+(unlike the `[email protected]:...` form).  This is good practice, so
+you do not accidently try to push to the main clawpack repository
+rather than to your own fork.
+
 
 Modifying code
 ==============

diff --git a/_sources/installing_fortcodes.rst.txt b/_sources/installing_fortcodes.rst.txt
@@ -58,7 +58,7 @@ want the latest development version or a branch that is not in a release yet,
 and/or if you plan to contribute to the code yourself via a pull request.
 See :ref:`developers` for more details, but the basic commands are::
 
-    git clone git://github.com/clawpack/clawpack.git
+    git clone https://github.com/clawpack/clawpack.git
     cd clawpack
     git checkout v5.8.2     # or an older version; `git tag -l` to list options
     git submodule init      # for repositories pyclaw, clawutil, visclaw, etc.

diff --git a/about.html b/about.html
@@ -336,7 +336,7 @@ <h4>Older Versions</h4>
       <div class="clearer"></div>
     </div>
   <div class="footer">
-    &copy; Copyright CC-BY 2020, The Clawpack Development Team.
+    &copy; Copyright CC-BY 2022, The Clawpack Development Team.
     Created using <a href="http://sphinx.pocoo.org/">Sphinx</a>.
   </div>
   <script>

diff --git a/adjoint.html b/adjoint.html
@@ -329,7 +329,7 @@ <h4>Older Versions</h4>
       <div class="clearer"></div>
     </div>
   <div class="footer">
-    &copy; Copyright CC-BY 2020, The Clawpack Development Team.
+    &copy; Copyright CC-BY 2022, The Clawpack Development Team.
     Created using <a href="http://sphinx.pocoo.org/">Sphinx</a>.
   </div>
   <script>

diff --git a/amr_algorithm.html b/amr_algorithm.html
@@ -315,7 +315,7 @@ <h4>Older Versions</h4>
       <div class="clearer"></div>
     </div>
   <div class="footer">
-    &copy; Copyright CC-BY 2020, The Clawpack Development Team.
+    &copy; Copyright CC-BY 2022, The Clawpack Development Team.
     Created using <a href="http://sphinx.pocoo.org/">Sphinx</a>.
   </div>
   <script>

diff --git a/amrclaw.html b/amrclaw.html
@@ -249,7 +249,7 @@ <h4>Older Versions</h4>
       <div class="clearer"></div>
     </div>
   <div class="footer">
-    &copy; Copyright CC-BY 2020, The Clawpack Development Team.
+    &copy; Copyright CC-BY 2022, The Clawpack Development Team.
     Created using <a href="http://sphinx.pocoo.org/">Sphinx</a>.
   </div>
   <script>

diff --git a/amrclaw1d.html b/amrclaw1d.html
@@ -184,7 +184,7 @@ <h4>Older Versions</h4>
       <div class="clearer"></div>
     </div>
   <div class="footer">
-    &copy; Copyright CC-BY 2020, The Clawpack Development Team.
+    &copy; Copyright CC-BY 2022, The Clawpack Development Team.
     Created using <a href="http://sphinx.pocoo.org/">Sphinx</a>.
   </div>
   <script>

diff --git a/amrclaw_doxygen.html b/amrclaw_doxygen.html
@@ -164,7 +164,7 @@ <h4>Older Versions</h4>
       <div class="clearer"></div>
     </div>
   <div class="footer">
-    &copy; Copyright CC-BY 2020, The Clawpack Development Team.
+    &copy; Copyright CC-BY 2022, The Clawpack Development Team.
     Created using <a href="http://sphinx.pocoo.org/">Sphinx</a>.
   </div>
   <script>

diff --git a/amrclaw_flowcharts.html b/amrclaw_flowcharts.html
@@ -169,7 +169,7 @@ <h4>Older Versions</h4>
       <div class="clearer"></div>
     </div>
   <div class="footer">
-    &copy; Copyright CC-BY 2020, The Clawpack Development Team.
+    &copy; Copyright CC-BY 2022, The Clawpack Development Team.
     Created using <a href="http://sphinx.pocoo.org/">Sphinx</a>.
   </div>
   <script>

diff --git a/application_documentation.html b/application_documentation.html
@@ -189,7 +189,7 @@ <h4>Older Versions</h4>
       <div class="clearer"></div>
     </div>
   <div class="footer">
-    &copy; Copyright CC-BY 2020, The Clawpack Development Team.
+    &copy; Copyright CC-BY 2022, The Clawpack Development Team.
     Created using <a href="http://sphinx.pocoo.org/">Sphinx</a>.
   </div>
   <script>

diff --git a/apps.html b/apps.html
@@ -92,7 +92,7 @@ <h3>Navigation</h3>
 <p>These examples are not included in the basic Clawpack installation.
 Users interested in obtaining this collection of applications can either
 clone the repository using git:</p>
-<div class="highlight-default notranslate"><div class="highlight"><pre><span></span><span class="n">git</span> <span class="n">clone</span> <span class="n">git</span><span class="p">:</span><span class="o">//</span><span class="n">github</span><span class="o">.</span><span class="n">com</span><span class="o">/</span><span class="n">clawpack</span><span class="o">/</span><span class="n">apps</span>
+<div class="highlight-default notranslate"><div class="highlight"><pre><span></span><span class="n">git</span> <span class="n">clone</span> <span class="n">https</span><span class="p">:</span><span class="o">//</span><span class="n">github</span><span class="o">.</span><span class="n">com</span><span class="o">/</span><span class="n">clawpack</span><span class="o">/</span><span class="n">apps</span>
 </pre></div>
 </div>
 <p>or navigate to <a class="reference external" href="https://github.com/clawpack/apps">https://github.com/clawpack/apps</a>
@@ -229,7 +229,7 @@ <h4>Older Versions</h4>
       <div class="clearer"></div>
     </div>
   <div class="footer">
-    &copy; Copyright CC-BY 2020, The Clawpack Development Team.
+    &copy; Copyright CC-BY 2022, The Clawpack Development Team.
     Created using <a href="http://sphinx.pocoo.org/">Sphinx</a>.
   </div>
   <script>

diff --git a/aws.html b/aws.html
@@ -393,7 +393,7 @@ <h4>Older Versions</h4>
       <div class="clearer"></div>
     </div>
   <div class="footer">
-    &copy; Copyright CC-BY 2020, The Clawpack Development Team.
+    &copy; Copyright CC-BY 2022, The Clawpack Development Team.
     Created using <a href="http://sphinx.pocoo.org/">Sphinx</a>.
   </div>
   <script>

diff --git a/b4run.html b/b4run.html
@@ -180,7 +180,7 @@ <h4>Older Versions</h4>
       <div class="clearer"></div>
     </div>
   <div class="footer">
-    &copy; Copyright CC-BY 2020, The Clawpack Development Team.
+    &copy; Copyright CC-BY 2022, The Clawpack Development Team.
     Created using <a href="http://sphinx.pocoo.org/">Sphinx</a>.
   </div>
   <script>

diff --git a/b4step_defaults.html b/b4step_defaults.html
@@ -173,7 +173,7 @@ <h4>Older Versions</h4>
       <div class="clearer"></div>
     </div>
   <div class="footer">
-    &copy; Copyright CC-BY 2020, The Clawpack Development Team.
+    &copy; Copyright CC-BY 2022, The Clawpack Development Team.
     Created using <a href="http://sphinx.pocoo.org/">Sphinx</a>.
   </div>
   <script>

diff --git a/bc.html b/bc.html
@@ -295,7 +295,7 @@ <h4>Older Versions</h4>
       <div class="clearer"></div>
     </div>
   <div class="footer">
-    &copy; Copyright CC-BY 2020, The Clawpack Development Team.
+    &copy; Copyright CC-BY 2022, The Clawpack Development Team.
     Created using <a href="http://sphinx.pocoo.org/">Sphinx</a>.
   </div>
   <script>

diff --git a/biblio.html b/biblio.html
@@ -435,7 +435,7 @@ <h4>Older Versions</h4>
       <div class="clearer"></div>
     </div>
   <div class="footer">
-    &copy; Copyright CC-BY 2020, The Clawpack Development Team.
+    &copy; Copyright CC-BY 2022, The Clawpack Development Team.
     Created using <a href="http://sphinx.pocoo.org/">Sphinx</a>.
   </div>
   <script>

diff --git a/changes_to_master.html b/changes_to_master.html
@@ -215,7 +215,7 @@ <h4>Older Versions</h4>
       <div class="clearer"></div>
     </div>
   <div class="footer">
-    &copy; Copyright CC-BY 2020, The Clawpack Development Team.
+    &copy; Copyright CC-BY 2022, The Clawpack Development Team.
     Created using <a href="http://sphinx.pocoo.org/">Sphinx</a>.
   </div>
   <script>

diff --git a/claw43to46.html b/claw43to46.html
@@ -173,7 +173,7 @@ <h4>Older Versions</h4>
       <div class="clearer"></div>
     </div>
   <div class="footer">
-    &copy; Copyright CC-BY 2020, The Clawpack Development Team.
+    &copy; Copyright CC-BY 2022, The Clawpack Development Team.
     Created using <a href="http://sphinx.pocoo.org/">Sphinx</a>.
   </div>
   <script>

diff --git a/claw46to50.html b/claw46to50.html
@@ -214,7 +214,7 @@ <h4>Older Versions</h4>
       <div class="clearer"></div>
     </div>
   <div class="footer">
-    &copy; Copyright CC-BY 2020, The Clawpack Development Team.
+    &copy; Copyright CC-BY 2022, The Clawpack Development Team.
     Created using <a href="http://sphinx.pocoo.org/">Sphinx</a>.
   </div>
   <script>

diff --git a/claw4x.html b/claw4x.html
@@ -147,7 +147,7 @@ <h4>Older Versions</h4>
       <div class="clearer"></div>
     </div>
   <div class="footer">
-    &copy; Copyright CC-BY 2020, The Clawpack Development Team.
+    &copy; Copyright CC-BY 2022, The Clawpack Development Team.
     Created using <a href="http://sphinx.pocoo.org/">Sphinx</a>.
   </div>
   <script>

diff --git a/clawpack5.html b/clawpack5.html
@@ -363,7 +363,7 @@ <h4>Older Versions</h4>
       <div class="clearer"></div>
     </div>
   <div class="footer">
-    &copy; Copyright CC-BY 2020, The Clawpack Development Team.
+    &copy; Copyright CC-BY 2022, The Clawpack Development Team.
     Created using <a href="http://sphinx.pocoo.org/">Sphinx</a>.
   </div>
   <script>

diff --git a/clawpack_components.html b/clawpack_components.html
@@ -196,7 +196,7 @@ <h4>Older Versions</h4>
       <div class="clearer"></div>
     </div>
   <div class="footer">
-    &copy; Copyright CC-BY 2020, The Clawpack Development Team.
+    &copy; Copyright CC-BY 2022, The Clawpack Development Team.
     Created using <a href="http://sphinx.pocoo.org/">Sphinx</a>.
   </div>
   <script>

diff --git a/community.html b/community.html
@@ -296,7 +296,7 @@ <h4>Older Versions</h4>
       <div class="clearer"></div>
     </div>
   <div class="footer">
-    &copy; Copyright CC-BY 2020, The Clawpack Development Team.
+    &copy; Copyright CC-BY 2022, The Clawpack Development Team.
     Created using <a href="http://sphinx.pocoo.org/">Sphinx</a>.
   </div>
   <script>

diff --git a/contents.html b/contents.html
@@ -463,7 +463,7 @@ <h4>Older Versions</h4>
       <div class="clearer"></div>
     </div>
   <div class="footer">
-    &copy; Copyright CC-BY 2020, The Clawpack Development Team.
+    &copy; Copyright CC-BY 2022, The Clawpack Development Team.
     Created using <a href="http://sphinx.pocoo.org/">Sphinx</a>.
   </div>
   <script>

diff --git a/contribute_apps.html b/contribute_apps.html
@@ -162,7 +162,7 @@ <h4>Older Versions</h4>
       <div class="clearer"></div>
     </div>
   <div class="footer">
-    &copy; Copyright CC-BY 2020, The Clawpack Development Team.
+    &copy; Copyright CC-BY 2022, The Clawpack Development Team.
     Created using <a href="http://sphinx.pocoo.org/">Sphinx</a>.
   </div>
   <script>

diff --git a/current_data.html b/current_data.html
@@ -286,7 +286,7 @@ <h4>Older Versions</h4>
       <div class="clearer"></div>
     </div>
   <div class="footer">
-    &copy; Copyright CC-BY 2020, The Clawpack Development Team.
+    &copy; Copyright CC-BY 2022, The Clawpack Development Team.
     Created using <a href="http://sphinx.pocoo.org/">Sphinx</a>.
   </div>
   <script>

diff --git 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. When it is not found, a full rebuild will be done.
-config: 6fb1186bc4733d50cb693ec567653bca
+config: 9d073fdfe96d8d5e5fed5f9dda834925
 tags: 645f666f9bcd5a90fca523b33c5a78b7
diff --git a/dev/.doctrees/ClawPlotAxes.doctree b/dev/.doctrees/ClawPlotAxes.doctree
diff --git a/dev/.doctrees/ClawPlotData.doctree b/dev/.doctrees/ClawPlotData.doctree
diff --git a/dev/.doctrees/ClawPlotFigure.doctree b/dev/.doctrees/ClawPlotFigure.doctree
diff --git a/dev/.doctrees/ClawPlotItem.doctree b/dev/.doctrees/ClawPlotItem.doctree
diff --git a/dev/.doctrees/about.doctree b/dev/.doctrees/about.doctree
diff --git a/dev/.doctrees/adjoint.doctree b/dev/.doctrees/adjoint.doctree
diff --git a/dev/.doctrees/amr_algorithm.doctree b/dev/.doctrees/amr_algorithm.doctree
diff --git a/dev/.doctrees/amrclaw.doctree b/dev/.doctrees/amrclaw.doctree
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diff --git a/dev/.doctrees/application_documentation.doctree b/dev/.doctrees/application_documentation.doctree
diff --git a/dev/.doctrees/apps.doctree b/dev/.doctrees/apps.doctree
diff --git a/dev/.doctrees/aws.doctree b/dev/.doctrees/aws.doctree
diff --git a/dev/.doctrees/b4run.doctree b/dev/.doctrees/b4run.doctree
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diff --git a/dev/.doctrees/environment.pickle b/dev/.doctrees/environment.pickle
diff --git a/dev/.doctrees/f77_vs_f90.doctree b/dev/.doctrees/f77_vs_f90.doctree
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diff --git a/dev/.doctrees/fgout.doctree b/dev/.doctrees/fgout.doctree
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diff --git a/dev/.doctrees/visit_plotting.doctree b/dev/.doctrees/visit_plotting.doctree
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diff --git a/dev/ClawPlotAxes.html b/dev/ClawPlotAxes.html
@@ -291,7 +291,7 @@ <h4>Older Versions</h4>
       <div class="clearer"></div>
     </div>
   <div class="footer">
-    &copy; Copyright CC-BY 2020, The Clawpack Development Team.
+    &copy; Copyright CC-BY 2022, The Clawpack Development Team.
     Created using <a href="http://sphinx.pocoo.org/">Sphinx</a>.
   </div>
   <script>

diff --git a/dev/ClawPlotData.html b/dev/ClawPlotData.html
@@ -403,7 +403,7 @@ <h4>Older Versions</h4>
       <div class="clearer"></div>
     </div>
   <div class="footer">
-    &copy; Copyright CC-BY 2020, The Clawpack Development Team.
+    &copy; Copyright CC-BY 2022, The Clawpack Development Team.
     Created using <a href="http://sphinx.pocoo.org/">Sphinx</a>.
   </div>
   <script>

diff --git a/dev/ClawPlotFigure.html b/dev/ClawPlotFigure.html
@@ -238,7 +238,7 @@ <h4>Older Versions</h4>
       <div class="clearer"></div>
     </div>
   <div class="footer">
-    &copy; Copyright CC-BY 2020, The Clawpack Development Team.
+    &copy; Copyright CC-BY 2022, The Clawpack Development Team.
     Created using <a href="http://sphinx.pocoo.org/">Sphinx</a>.
   </div>
   <script>

diff --git a/dev/ClawPlotItem.html b/dev/ClawPlotItem.html
@@ -553,7 +553,7 @@ <h4>Older Versions</h4>
       <div class="clearer"></div>
     </div>
   <div class="footer">
-    &copy; Copyright CC-BY 2020, The Clawpack Development Team.
+    &copy; Copyright CC-BY 2022, The Clawpack Development Team.
     Created using <a href="http://sphinx.pocoo.org/">Sphinx</a>.
   </div>
   <script>

diff --git a/dev/_sources/apps.rst.txt b/dev/_sources/apps.rst.txt
@@ -19,7 +19,7 @@ These examples are not included in the basic Clawpack installation.
 Users interested in obtaining this collection of applications can either
 clone the repository using git::
 
-    git clone git://github.com/clawpack/apps
+    git clone https://github.com/clawpack/apps
 
 or navigate to `https://github.com/clawpack/apps <https://github.com/clawpack/apps>`_
 and click on the green "Code" button to see other options, such as downloading