rebuild documentation

_sources/api/plugin/index.txt

@@ -4,31 +4,26 @@ moa.plugin
 .. toctree::
    :maxdepth: 2
 
-   adhoc
-   checkversion
-   configure
-   doc
-   extraCommands
-   fileset
-   help
-   info
-   lock
-   logger
-   logo
-   mail
-   metavar
-   moaGit
-   moautil
-   newjob
-   parameterCheck
-   project
-   prompt
-   report
-   sgeActor
-   status
-   template
-   test
-   twit
-   umask
-   varInject
+   job__metavar
+   system__adhoc
+   system__configure
+   system__doc
+   system__extraCommands
+   system__fileset
+   system__help
+   system__info
+   system__lock
+   system__logger
+   system__moaGit
+   system__moautil
+   system__newjob
+   system__parameterCheck
+   system__project
+   system__remoteLogger
+   system__smw
+   system__status
+   system__template
+   system__test
+   system__umask
+   system__varInject
 

_sources/api/plugin/job__metavar.txt

@@ -0,0 +1,2 @@
+.. automodule:: moa.plugin.job.metavar
+   :members:

_sources/api/plugin/system__adhoc.txt

@@ -0,0 +1,2 @@
+.. automodule:: moa.plugin.system.adhoc
+   :members:

_sources/api/plugin/system__configure.txt

@@ -0,0 +1,2 @@
+.. automodule:: moa.plugin.system.configure
+   :members:

_sources/api/plugin/system__doc.txt

@@ -0,0 +1,2 @@
+.. automodule:: moa.plugin.system.doc
+   :members:

_sources/api/plugin/system__extraCommands.txt

@@ -0,0 +1,2 @@
+.. automodule:: moa.plugin.system.extraCommands
+   :members:

_sources/api/plugin/system__fileset.txt

@@ -0,0 +1,2 @@
+.. automodule:: moa.plugin.system.fileset
+   :members:

_sources/api/plugin/system__help.txt

@@ -0,0 +1,2 @@
+.. automodule:: moa.plugin.system.help
+   :members:

_sources/api/plugin/system__info.txt

@@ -0,0 +1,2 @@
+.. automodule:: moa.plugin.system.info
+   :members:

_sources/api/plugin/system__lock.txt

@@ -0,0 +1,2 @@
+.. automodule:: moa.plugin.system.lock
+   :members:

_sources/api/plugin/system__logger.txt

@@ -0,0 +1,2 @@
+.. automodule:: moa.plugin.system.logger
+   :members:

_sources/api/plugin/system__moaGit.txt

@@ -0,0 +1,2 @@
+.. automodule:: moa.plugin.system.moaGit
+   :members:

_sources/api/plugin/system__moautil.txt

@@ -0,0 +1,2 @@
+.. automodule:: moa.plugin.system.moautil
+   :members:

_sources/api/plugin/system__newjob.txt

@@ -0,0 +1,2 @@
+.. automodule:: moa.plugin.system.newjob
+   :members:

_sources/api/plugin/system__parameterCheck.txt

@@ -0,0 +1,2 @@
+.. automodule:: moa.plugin.system.parameterCheck
+   :members:

_sources/api/plugin/system__project.txt

@@ -0,0 +1,2 @@
+.. automodule:: moa.plugin.system.project
+   :members:

_sources/api/plugin/system__remoteLogger.txt

@@ -0,0 +1,2 @@
+.. automodule:: {}
+   :members:

_sources/api/plugin/system__smw.txt

@@ -0,0 +1,2 @@
+.. automodule:: moa.plugin.system.smw
+   :members:

_sources/api/plugin/system__status.txt

@@ -0,0 +1,2 @@
+.. automodule:: moa.plugin.system.status
+   :members:

_sources/api/plugin/system__template.txt

@@ -0,0 +1,2 @@
+.. automodule:: moa.plugin.system.template
+   :members:

_sources/api/plugin/system__test.txt

@@ -0,0 +1,2 @@
+.. automodule:: moa.plugin.system.test
+   :members:

_sources/api/plugin/system__umask.txt

@@ -0,0 +1,2 @@
+.. automodule:: moa.plugin.system.umask
+   :members:

_sources/api/plugin/system__varInject.txt

@@ -0,0 +1,2 @@
+.. automodule:: moa.plugin.system.varInject
+   :members:

_sources/install.txt

@@ -76,11 +76,13 @@ and many more
 Installing git (from github)
 ----------------------------
 
-Moa is hosted on and can be installed from `github <http://github.com/mfiers/Moa>`_::
+Moa is hosted on, and can be installed from, `github <http://github.com/mfiers/Moa>`_::
 
     cd ~
     git clone git://github.com/mfiers/Moa.git moa
 
+Note - their is also a copy of moa in the python package index - this
+one is almost certainly outdated, and is currently not supported.
 
 Configuration
 -------------
@@ -108,9 +110,9 @@ are a few options that you can pursue:
 Installing the web interface
 ----------------------------
 
-Note - this is experimental - you will probably need to fiddle a
-little with the configuration to get it working. Start with installing
-apache2. 
+Note - this is highly experimental - you will probably need to fiddle
+with the configuration files to get it working. Start with installing
+apache2.
 
 Then - assuming that:
 * Your Moa work directory is under /home/moa/work

add_all_to_repo.sh

@@ -0,0 +1,7 @@
+git add _sources/api/plugin/*.txt
+git add _sources/api/*.txt
+git add _sources/*.txt
+git add _sources/templates/*.txt
+git add _static/*
+git add api/plugin/*html
+git add templates/*.html

api/Yaco.html

@@ -27,7 +27,7 @@
     <link rel="top" title="Moa 0.11.0 documentation" href="../index.html" />
     <link rel="up" title="Moa API" href="index.html" />
     <link rel="next" title="fist" href="fist.html" />
-    <link rel="prev" title="&lt;no title&gt;" href="plugin/varInject.html" /> 
+    <link rel="prev" title="varInject - Inject variables into this job" href="plugin/system__varInject.html" /> 
   </head>
   <body>
     <div class="related">
@@ -43,7 +43,7 @@ <h3>Navigation</h3>
           <a href="fist.html" title="fist"
              accesskey="N">next</a> |</li>
         <li class="right" >
-          <a href="plugin/varInject.html" title="&lt;no title&gt;"
+          <a href="plugin/system__varInject.html" title="varInject - Inject variables into this job"
              accesskey="P">previous</a> |</li>
         <li><a href="../index.html">Moa 0.11.0 documentation</a> &raquo;</li>
           <li><a href="index.html" accesskey="U">Moa API</a> &raquo;</li> 
@@ -274,7 +274,7 @@ <h3>Navigation</h3>
           <a href="fist.html" title="fist"
              >next</a> |</li>
         <li class="right" >
-          <a href="plugin/varInject.html" title="&lt;no title&gt;"
+          <a href="plugin/system__varInject.html" title="varInject - Inject variables into this job"
              >previous</a> |</li>
         <li><a href="../index.html">Moa 0.11.0 documentation</a> &raquo;</li>
           <li><a href="index.html" >Moa API</a> &raquo;</li> 

api/index.html

@@ -78,7 +78,25 @@ <h1>Moa API<a class="headerlink" href="#moa-api" title="Permalink to this headli
 </ul>
 </li>
 <li class="toctree-l1"><a class="reference internal" href="plugin/index.html">moa.plugin</a><ul>
-<li class="toctree-l2"><a class="reference internal" href="plugin/adhoc.html"><strong>adhoc</strong> - create jobs from adhoc bash code</a></li>
+<li class="toctree-l2"><a class="reference internal" href="plugin/job__metavar.html"><strong>metavar</strong> - Create a number of meta variables</a></li>
+<li class="toctree-l2"><a class="reference internal" href="plugin/system__adhoc.html"><strong>adhoc</strong> - create jobs from adhoc bash code</a></li>
+<li class="toctree-l2"><a class="reference internal" href="plugin/system__configure.html"><strong>configure</strong> - Configure jobs</a></li>
+<li class="toctree-l2"><a class="reference internal" href="plugin/system__doc.html"><strong>doc</strong> - Manage job documentation</a></li>
+<li class="toctree-l2"><a class="reference internal" href="plugin/system__extraCommands.html"><strong>extraCommands</strong> - Pre &amp; Post commands</a></li>
+<li class="toctree-l2"><a class="reference internal" href="plugin/system__fileset.html"><strong>fileset</strong> - define sets of in&amp;output files</a></li>
+<li class="toctree-l2"><a class="reference internal" href="plugin/system__help.html"><strong>help</strong> - generate help</a></li>
+<li class="toctree-l2"><a class="reference internal" href="plugin/system__info.html"><strong>info</strong> - Job information</a></li>
+<li class="toctree-l2"><a class="reference internal" href="plugin/system__lock.html"><strong>lock</strong> - Lock/Unlock moa jobs</a></li>
+<li class="toctree-l2"><a class="reference internal" href="plugin/system__logger.html"><strong>logger</strong> - Log Moa activity</a></li>
+<li class="toctree-l2"><a class="reference internal" href="plugin/system__moautil.html"><strong>moautil</strong> - Some extra utilities - copy/move jobs</a></li>
+<li class="toctree-l2"><a class="reference internal" href="plugin/system__newjob.html"><strong>newjob</strong> - Instantiate new jobs</a></li>
+<li class="toctree-l2"><a class="reference internal" href="plugin/system__parameterCheck.html"><strong>parameterCheck</strong> - check parameters</a></li>
+<li class="toctree-l2"><a class="reference internal" href="plugin/system__project.html"><strong>project</strong> - Simple plugin to ease maintaining project data</a></li>
+<li class="toctree-l2"><a class="reference internal" href="plugin/system__status.html"><strong>status</strong> - Job Status</a></li>
+<li class="toctree-l2"><a class="reference internal" href="plugin/system__template.html"><strong>template</strong> - information on templates</a></li>
+<li class="toctree-l2"><a class="reference internal" href="plugin/system__test.html"><strong>test</strong> - Run unittests</a></li>
+<li class="toctree-l2"><a class="reference internal" href="plugin/system__umask.html"><strong>umaks</strong> - Sets umaks for the moa process</a></li>
+<li class="toctree-l2"><a class="reference internal" href="plugin/system__varInject.html"><strong>varInject</strong> - Inject variables into this job</a></li>
 </ul>
 </li>
 <li class="toctree-l1"><a class="reference internal" href="Yaco.html">Yaco</a><ul>

api/plugin/index.html

@@ -26,7 +26,7 @@
     <script type="text/javascript" src="../../_static/doctools.js"></script>
     <link rel="top" title="Moa 0.11.0 documentation" href="../../index.html" />
     <link rel="up" title="Moa API" href="../index.html" />
-    <link rel="next" title="adhoc - create jobs from adhoc bash code" href="adhoc.html" />
+    <link rel="next" title="metavar - Create a number of meta variables" href="job__metavar.html" />
     <link rel="prev" title="Ruff" href="../backend/ruff.html" /> 
   </head>
   <body>
@@ -40,7 +40,7 @@ <h3>Navigation</h3>
           <a href="../../py-modindex.html" title="Python Module Index"
              >modules</a> |</li>
         <li class="right" >
-          <a href="adhoc.html" title="adhoc - create jobs from adhoc bash code"
+          <a href="job__metavar.html" title="metavar - Create a number of meta variables"
              accesskey="N">next</a> |</li>
         <li class="right" >
           <a href="../backend/ruff.html" title="Ruff"
@@ -59,7 +59,25 @@ <h3>Navigation</h3>
 <h1>moa.plugin<a class="headerlink" href="#moa-plugin" title="Permalink to this headline">¶</a></h1>
 <div class="toctree-wrapper compound">
 <ul>
-<li class="toctree-l1"><a class="reference internal" href="adhoc.html"><strong>adhoc</strong> - create jobs from adhoc bash code</a></li>
+<li class="toctree-l1"><a class="reference internal" href="job__metavar.html"><strong>metavar</strong> - Create a number of meta variables</a></li>
+<li class="toctree-l1"><a class="reference internal" href="system__adhoc.html"><strong>adhoc</strong> - create jobs from adhoc bash code</a></li>
+<li class="toctree-l1"><a class="reference internal" href="system__configure.html"><strong>configure</strong> - Configure jobs</a></li>
+<li class="toctree-l1"><a class="reference internal" href="system__doc.html"><strong>doc</strong> - Manage job documentation</a></li>
+<li class="toctree-l1"><a class="reference internal" href="system__extraCommands.html"><strong>extraCommands</strong> - Pre &amp; Post commands</a></li>
+<li class="toctree-l1"><a class="reference internal" href="system__fileset.html"><strong>fileset</strong> - define sets of in&amp;output files</a></li>
+<li class="toctree-l1"><a class="reference internal" href="system__help.html"><strong>help</strong> - generate help</a></li>
+<li class="toctree-l1"><a class="reference internal" href="system__info.html"><strong>info</strong> - Job information</a></li>
+<li class="toctree-l1"><a class="reference internal" href="system__lock.html"><strong>lock</strong> - Lock/Unlock moa jobs</a></li>
+<li class="toctree-l1"><a class="reference internal" href="system__logger.html"><strong>logger</strong> - Log Moa activity</a></li>
+<li class="toctree-l1"><a class="reference internal" href="system__moautil.html"><strong>moautil</strong> - Some extra utilities - copy/move jobs</a></li>
+<li class="toctree-l1"><a class="reference internal" href="system__newjob.html"><strong>newjob</strong> - Instantiate new jobs</a></li>
+<li class="toctree-l1"><a class="reference internal" href="system__parameterCheck.html"><strong>parameterCheck</strong> - check parameters</a></li>
+<li class="toctree-l1"><a class="reference internal" href="system__project.html"><strong>project</strong> - Simple plugin to ease maintaining project data</a></li>
+<li class="toctree-l1"><a class="reference internal" href="system__status.html"><strong>status</strong> - Job Status</a></li>
+<li class="toctree-l1"><a class="reference internal" href="system__template.html"><strong>template</strong> - information on templates</a></li>
+<li class="toctree-l1"><a class="reference internal" href="system__test.html"><strong>test</strong> - Run unittests</a></li>
+<li class="toctree-l1"><a class="reference internal" href="system__umask.html"><strong>umaks</strong> - Sets umaks for the moa process</a></li>
+<li class="toctree-l1"><a class="reference internal" href="system__varInject.html"><strong>varInject</strong> - Inject variables into this job</a></li>
 </ul>
 </div>
 </div>
@@ -77,8 +95,8 @@ <h4>Previous topic</h4>
   <p class="topless"><a href="../backend/ruff.html"
                         title="previous chapter">Ruff</a></p>
   <h4>Next topic</h4>
-  <p class="topless"><a href="adhoc.html"
-                        title="next chapter"><strong>adhoc</strong> - create jobs from adhoc bash code</a></p>
+  <p class="topless"><a href="job__metavar.html"
+                        title="next chapter"><strong>metavar</strong> - Create a number of meta variables</a></p>
 <div id="searchbox" style="display: none">
   <h3>Quick search</h3>
     <form class="search" action="../../search.html" method="get">
@@ -106,7 +124,7 @@ <h3>Navigation</h3>
           <a href="../../py-modindex.html" title="Python Module Index"
              >modules</a> |</li>
         <li class="right" >
-          <a href="adhoc.html" title="adhoc - create jobs from adhoc bash code"
+          <a href="job__metavar.html" title="metavar - Create a number of meta variables"
              >next</a> |</li>
         <li class="right" >
           <a href="../backend/ruff.html" title="Ruff"