updated and changed theme

build/html/.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: 2eabee1626828891bd7aca8c6beed13a
+config: 5a8d1b3f06ca264daa4e76498191e8d0
 tags: 645f666f9bcd5a90fca523b33c5a78b7

build/html/_sources/usermanual/index.rst.txt

@@ -393,7 +393,7 @@ The Method list widget is comprised of a toolbar, a search field and the list of
 Method editor
 ~~~~~~~~~~~~~
 
-The *Method editor* widget is a visual tool for creating, deleting, editing or cloning a MEthod descriptor.
+The *Method editor* widget is a visual tool for creating, deleting, editing or cloning a Method descriptor.
 
 The following Figure shows an example visualization of the Method editor.
 
@@ -410,8 +410,21 @@ Once the Method is saved the user will automatically be added as the Author. If
 Method execution form
 ~~~~~~~~~~~~~~~~~~~~~
 
+The *Method execution form* widget is a visual tool for requesting the execution of a Method.
+
+The following Figure shows an example visualization of the Method execution form.
+
+.. figure:: /images/executionformwidget.png
+    :alt: Method execution form
+
+    Method execution form
+
+In the area labelled with [1], the principal metadata of the Method is shown. In the Inputs area [2] it is possible to edit the input values that are passed to the Execution. The input fields try to match as close as possible the constraints defined for the input in the Method descriptor. The execute button [4] triggers the sending of the execution request. A code generator widget [5] can be used in order to download code snippets that act as working examples for requesting the Execution programmatically through the CCP APIs (see :ref:`rest`). Currently Python 3, R, Jupyter Notebook are supported but the list will grow in the future.
+
 Execution monitor
 ~~~~~~~~~~~~~~~~~
 
+.. _rest:
+
 REST APIs: Interacting with Methods and Executions programmatically
 -------------------------------------------------------------------

build/html/_static/css/badge_only.css

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build/html/_static/js/badge_only.js

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build/html/_static/js/html5shiv-printshiv.min.js

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build/html/developermanual/index.html

@@ -1,112 +1,111 @@
-
 <!DOCTYPE html>
+<html class="writer-html5" lang="en" >
+<head>
+  <meta charset="utf-8" /><meta name="generator" content="Docutils 0.18.1: http://docutils.sourceforge.net/" />
 
-<html lang="en">
+  <meta name="viewport" content="width=device-width, initial-scale=1.0" />
-  <head>
+  <title>Developer manual &mdash; CCP 0.1.0 documentation</title>
-    <meta charset="utf-8" />
+      <link rel="stylesheet" href="../_static/pygments.css" type="text/css" />
-    <meta name="viewport" content="width=device-width, initial-scale=1.0" /><meta name="generator" content="Docutils 0.19: https://docutils.sourceforge.io/" />
+      <link rel="stylesheet" href="../_static/css/theme.css" type="text/css" />
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-    <title>Developer manual &#8212; CCP 0.1.0 documentation</title>
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     <link rel="canonical" href="/docs/developermanual/index.html" />
+  <!--[if lt IE 9]>
+    <script src="../_static/js/html5shiv.min.js"></script>
+  <![endif]-->
+  
+        <script data-url_root="../" id="documentation_options" src="../_static/documentation_options.js"></script>
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+        <script src="../_static/sphinx_highlight.js"></script>
+    <script src="../_static/js/theme.js"></script>
     <link rel="index" title="Index" href="../genindex.html" />
     <link rel="search" title="Search" href="../search.html" />
-    <link rel="prev" title="User manual" href="../usermanual/index.html" />
+    <link rel="prev" title="User manual" href="../usermanual/index.html" /> 
-   
+</head>
-  <link rel="stylesheet" href="../_static/custom.css" type="text/css" />
-  
-  
-  <meta name="viewport" content="width=device-width, initial-scale=0.9, maximum-scale=0.9" />
 
-  </head><body>
+<body class="wy-body-for-nav"> 
-  
+  <div class="wy-grid-for-nav">
+    <nav data-toggle="wy-nav-shift" class="wy-nav-side">
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-
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-</section>
-
-
-          </div>
           
-        </div>
+          <a href="../index.html" class="icon icon-home">
-      </div>
+            CCP
-      <div class="sphinxsidebar" role="navigation" aria-label="main navigation">
+          </a>
-        <div class="sphinxsidebarwrapper">
+<div role="search">
-<h1 class="logo"><a href="../index.html">CCP</a></h1>
+  <form id="rtd-search-form" class="wy-form" action="../search.html" method="get">
-
+    <input type="text" name="q" placeholder="Search docs" aria-label="Search docs" />
-
+    <input type="hidden" name="check_keywords" value="yes" />
-
+    <input type="hidden" name="area" value="default" />
-
+  </form>
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+</div>
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+        </div><div class="wy-menu wy-menu-vertical" data-spy="affix" role="navigation" aria-label="Navigation menu">
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+              <p class="caption" role="heading"><span class="caption-text">Contents:</span></p>
-
-<h3>Navigation</h3>
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-
-
-
-
-
-
-
-
         </div>
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-      <div class="clearer"></div>
+    </nav>
-    </div>
+
-    <div class="footer">
+    <section data-toggle="wy-nav-shift" class="wy-nav-content-wrap"><nav class="wy-nav-top" aria-label="Mobile navigation menu" >
-      &copy;2023, Marco Lettere.
+          <i data-toggle="wy-nav-top" class="fa fa-bars"></i>
-      
+          <a href="../index.html">CCP</a>
-      |
+      </nav>
-      Powered by <a href="http://sphinx-doc.org/">Sphinx 5.3.0</a>
+
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-      
+        <div class="rst-content">
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+          <div role="navigation" aria-label="Page navigation">
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+  <ul class="wy-breadcrumbs">
-          rel="nofollow">Page source</a>
+      <li><a href="../index.html" class="icon icon-home" aria-label="Home"></a></li>
+      <li class="breadcrumb-item active">Developer manual</li>
+      <li class="wy-breadcrumbs-aside">
+            <a href="../_sources/developermanual/index.rst.txt" rel="nofollow"> View page source</a>
+      </li>
+  </ul>
+  <hr/>
+</div>
+          <div role="main" class="document" itemscope="itemscope" itemtype="http://schema.org/Article">
+           <div itemprop="articleBody">
+             
+  <section id="developer-manual">
+<h1>Developer manual<a class="headerlink" href="#developer-manual" title="Permalink to this heading"></a></h1>
+</section>
+
+
+           </div>
+          </div>
+          <footer><div class="rst-footer-buttons" role="navigation" aria-label="Footer">
+        <a href="../usermanual/index.html" class="btn btn-neutral float-left" title="User manual" accesskey="p" rel="prev"><span class="fa fa-arrow-circle-left" aria-hidden="true"></span> Previous</a>
     </div>
 
-    
+  <hr/>
 
-    
+  <div role="contentinfo">
-  </body>
+    <p>&#169; Copyright 2023, Marco Lettere.</p>
+  </div>
+
+  Built with <a href="https://www.sphinx-doc.org/">Sphinx</a> using a
+    <a href="https://github.com/readthedocs/sphinx_rtd_theme">theme</a>
+    provided by <a href="https://readthedocs.org">Read the Docs</a>.
+   
+
+</footer>
+        </div>
+      </div>
+    </section>
+  </div>
+  <script>
+      jQuery(function () {
+          SphinxRtdTheme.Navigation.enable(true);
+      });
+  </script> 
+
+</body>
 </html>

build/html/genindex.html

@@ -1,38 +1,76 @@
-
 <!DOCTYPE html>
-
+<html class="writer-html5" lang="en" >
-<html lang="en">
+<head>
-  <head>
+  <meta charset="utf-8" />
-    <meta charset="utf-8" />
+  <meta name="viewport" content="width=device-width, initial-scale=1.0" />
-    <meta name="viewport" content="width=device-width, initial-scale=1.0" />
+  <title>Index &mdash; CCP 0.1.0 documentation</title>
-    <title>Index &#8212; CCP 0.1.0 documentation</title>
+      <link rel="stylesheet" href="_static/pygments.css" type="text/css" />
-    <link rel="stylesheet" type="text/css" href="_static/pygments.css" />
+      <link rel="stylesheet" href="_static/css/theme.css" type="text/css" />
-    <link rel="stylesheet" type="text/css" href="_static/alabaster.css" />
-    <script data-url_root="./" id="documentation_options" src="_static/documentation_options.js"></script>
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-    <script src="_static/sphinx_highlight.js"></script>
     <link rel="canonical" href="/docs/genindex.html" />
+  <!--[if lt IE 9]>
+    <script src="_static/js/html5shiv.min.js"></script>
+  <![endif]-->
+  
+        <script data-url_root="./" id="documentation_options" src="_static/documentation_options.js"></script>
+        <script src="_static/jquery.js"></script>
+        <script src="_static/underscore.js"></script>
+        <script src="_static/_sphinx_javascript_frameworks_compat.js"></script>
+        <script src="_static/doctools.js"></script>
+        <script src="_static/sphinx_highlight.js"></script>
+    <script src="_static/js/theme.js"></script>
     <link rel="index" title="Index" href="#" />
-    <link rel="search" title="Search" href="search.html" />
+    <link rel="search" title="Search" href="search.html" /> 
-   
+</head>
-  <link rel="stylesheet" href="_static/custom.css" type="text/css" />
-  
-  
-  <meta name="viewport" content="width=device-width, initial-scale=0.9, maximum-scale=0.9" />
 
-  </head><body>
+<body class="wy-body-for-nav"> 
-  
+  <div class="wy-grid-for-nav">
+    <nav data-toggle="wy-nav-shift" class="wy-nav-side">
+      <div class="wy-side-scroll">
+        <div class="wy-side-nav-search" >
 
-    <div class="document">
-      <div class="documentwrapper">
-        <div class="bodywrapper">
           
+          
+          <a href="index.html" class="icon icon-home">
+            CCP
+          </a>
+<div role="search">
+  <form id="rtd-search-form" class="wy-form" action="search.html" method="get">
+    <input type="text" name="q" placeholder="Search docs" aria-label="Search docs" />
+    <input type="hidden" name="check_keywords" value="yes" />
+    <input type="hidden" name="area" value="default" />
+  </form>
+</div>
+        </div><div class="wy-menu wy-menu-vertical" data-spy="affix" role="navigation" aria-label="Navigation menu">
+              <p class="caption" role="heading"><span class="caption-text">Contents:</span></p>
+<ul>
+<li class="toctree-l1"><a class="reference internal" href="introduction.html">Introduction</a></li>
+<li class="toctree-l1"><a class="reference internal" href="usermanual/index.html">User manual</a></li>
+<li class="toctree-l1"><a class="reference internal" href="developermanual/index.html">Developer manual</a></li>
+</ul>
 
-          <div class="body" role="main">
+        </div>
-            
+      </div>
+    </nav>
+
+    <section data-toggle="wy-nav-shift" class="wy-nav-content-wrap"><nav class="wy-nav-top" aria-label="Mobile navigation menu" >
+          <i data-toggle="wy-nav-top" class="fa fa-bars"></i>
+          <a href="index.html">CCP</a>
+      </nav>
+
+      <div class="wy-nav-content">
+        <div class="rst-content">
+          <div role="navigation" aria-label="Page navigation">
+  <ul class="wy-breadcrumbs">
+      <li><a href="index.html" class="icon icon-home" aria-label="Home"></a></li>
+      <li class="breadcrumb-item active">Index</li>
+      <li class="wy-breadcrumbs-aside">
+      </li>
+  </ul>
+  <hr/>
+</div>
+          <div role="main" class="document" itemscope="itemscope" itemtype="http://schema.org/Article">
+           <div itemprop="articleBody">
+             
 
 <h1 id="index">Index</h1>
 
@@ -41,69 +79,31 @@
 </div>
 
 
+           </div>
           </div>
-          
+          <footer>
+
+  <hr/>
+
+  <div role="contentinfo">
+    <p>&#169; Copyright 2023, Marco Lettere.</p>
+  </div>
+
+  Built with <a href="https://www.sphinx-doc.org/">Sphinx</a> using a
+    <a href="https://github.com/readthedocs/sphinx_rtd_theme">theme</a>
+    provided by <a href="https://readthedocs.org">Read the Docs</a>.
+   
+
+</footer>
         </div>
       </div>
-      <div class="sphinxsidebar" role="navigation" aria-label="main navigation">
+    </section>
-        <div class="sphinxsidebarwrapper">
+  </div>
-<h1 class="logo"><a href="index.html">CCP</a></h1>
+  <script>
+      jQuery(function () {
+          SphinxRtdTheme.Navigation.enable(true);
+      });
+  </script> 
 
-
+</body>
-
-
-
-
-
-
-<h3>Navigation</h3>
-<p class="caption" role="heading"><span class="caption-text">Contents:</span></p>
-<ul>
-<li class="toctree-l1"><a class="reference internal" href="introduction.html">Introduction</a></li>
-<li class="toctree-l1"><a class="reference internal" href="usermanual/index.html">User manual</a></li>
-<li class="toctree-l1"><a class="reference internal" href="developermanual/index.html">Developer manual</a></li>
-</ul>
-
-<div class="relations">
-<h3>Related Topics</h3>
-<ul>
-  <li><a href="index.html">Documentation overview</a><ul>
-  </ul></li>
-</ul>
-</div>
-<div id="searchbox" style="display: none" role="search">
-  <h3 id="searchlabel">Quick search</h3>
-    <div class="searchformwrapper">
-    <form class="search" action="search.html" method="get">
-      <input type="text" name="q" aria-labelledby="searchlabel" autocomplete="off" autocorrect="off" autocapitalize="off" spellcheck="false"/>
-      <input type="submit" value="Go" />
-    </form>
-    </div>
-</div>
-<script>document.getElementById('searchbox').style.display = "block"</script>
-
-
-
-
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-
-
-        </div>
-      </div>
-      <div class="clearer"></div>
-    </div>
-    <div class="footer">
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-      
-      |
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-      
-    </div>
-
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-
-    
-  </body>
 </html>

build/html/index.html

@@ -1,42 +1,81 @@
-
 <!DOCTYPE html>
+<html class="writer-html5" lang="en" >
+<head>
+  <meta charset="utf-8" /><meta name="generator" content="Docutils 0.18.1: http://docutils.sourceforge.net/" />
 
-<html lang="en">
+  <meta name="viewport" content="width=device-width, initial-scale=1.0" />
-  <head>
+  <title>Welcome to CCP’s documentation! &mdash; CCP 0.1.0 documentation</title>
-    <meta charset="utf-8" />
+      <link rel="stylesheet" href="_static/pygments.css" type="text/css" />
-    <meta name="viewport" content="width=device-width, initial-scale=1.0" /><meta name="generator" content="Docutils 0.19: https://docutils.sourceforge.io/" />
+      <link rel="stylesheet" href="_static/css/theme.css" type="text/css" />
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-    <title>Welcome to CCP’s documentation! &#8212; CCP 0.1.0 documentation</title>
-    <link rel="stylesheet" type="text/css" href="_static/pygments.css" />
-    <link rel="stylesheet" type="text/css" href="_static/alabaster.css" />
-    <script data-url_root="./" id="documentation_options" src="_static/documentation_options.js"></script>
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-    <script src="_static/underscore.js"></script>
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-    <script src="_static/sphinx_highlight.js"></script>
     <link rel="canonical" href="/docs/index.html" />
+  <!--[if lt IE 9]>
+    <script src="_static/js/html5shiv.min.js"></script>
+  <![endif]-->
+  
+        <script data-url_root="./" id="documentation_options" src="_static/documentation_options.js"></script>
+        <script src="_static/jquery.js"></script>
+        <script src="_static/underscore.js"></script>
+        <script src="_static/_sphinx_javascript_frameworks_compat.js"></script>
+        <script src="_static/doctools.js"></script>
+        <script src="_static/sphinx_highlight.js"></script>
+    <script src="_static/js/theme.js"></script>
     <link rel="index" title="Index" href="genindex.html" />
     <link rel="search" title="Search" href="search.html" />
-    <link rel="next" title="Introduction" href="introduction.html" />
+    <link rel="next" title="Introduction" href="introduction.html" /> 
-   
+</head>
-  <link rel="stylesheet" href="_static/custom.css" type="text/css" />
-  
-  
-  <meta name="viewport" content="width=device-width, initial-scale=0.9, maximum-scale=0.9" />
 
-  </head><body>
+<body class="wy-body-for-nav"> 
-  
+  <div class="wy-grid-for-nav">
+    <nav data-toggle="wy-nav-shift" class="wy-nav-side">
+      <div class="wy-side-scroll">
+        <div class="wy-side-nav-search" >
 
-    <div class="document">
-      <div class="documentwrapper">
-        <div class="bodywrapper">
           
+          
+          <a href="#" class="icon icon-home">
+            CCP
+          </a>
+<div role="search">
+  <form id="rtd-search-form" class="wy-form" action="search.html" method="get">
+    <input type="text" name="q" placeholder="Search docs" aria-label="Search docs" />
+    <input type="hidden" name="check_keywords" value="yes" />
+    <input type="hidden" name="area" value="default" />
+  </form>
+</div>
+        </div><div class="wy-menu wy-menu-vertical" data-spy="affix" role="navigation" aria-label="Navigation menu">
+              <p class="caption" role="heading"><span class="caption-text">Contents:</span></p>
+<ul>
+<li class="toctree-l1"><a class="reference internal" href="introduction.html">Introduction</a></li>
+<li class="toctree-l1"><a class="reference internal" href="usermanual/index.html">User manual</a></li>
+<li class="toctree-l1"><a class="reference internal" href="developermanual/index.html">Developer manual</a></li>
+</ul>
 
-          <div class="body" role="main">
+        </div>
-            
+      </div>
+    </nav>
+
+    <section data-toggle="wy-nav-shift" class="wy-nav-content-wrap"><nav class="wy-nav-top" aria-label="Mobile navigation menu" >
+          <i data-toggle="wy-nav-top" class="fa fa-bars"></i>
+          <a href="#">CCP</a>
+      </nav>
+
+      <div class="wy-nav-content">
+        <div class="rst-content">
+          <div role="navigation" aria-label="Page navigation">
+  <ul class="wy-breadcrumbs">
+      <li><a href="#" class="icon icon-home" aria-label="Home"></a></li>
+      <li class="breadcrumb-item active">Welcome to CCP’s documentation!</li>
+      <li class="wy-breadcrumbs-aside">
+            <a href="_sources/index.rst.txt" rel="nofollow"> View page source</a>
+      </li>
+  </ul>
+  <hr/>
+</div>
+          <div role="main" class="document" itemscope="itemscope" itemtype="http://schema.org/Article">
+           <div itemprop="articleBody">
+             
   <section id="welcome-to-ccp-s-documentation">
-<h1>Welcome to CCP’s documentation!<a class="headerlink" href="#welcome-to-ccp-s-documentation" title="Permalink to this heading">¶</a></h1>
+<h1>Welcome to CCP’s documentation!<a class="headerlink" href="#welcome-to-ccp-s-documentation" title="Permalink to this heading"></a></h1>
 <div class="toctree-wrapper compound">
 <p class="caption" role="heading"><span class="caption-text">Contents:</span></p>
 <ul>
@@ -59,7 +98,7 @@
 </div>
 </section>
 <section id="indices-and-tables">
-<h1>Indices and tables<a class="headerlink" href="#indices-and-tables" title="Permalink to this heading">¶</a></h1>
+<h1>Indices and tables<a class="headerlink" href="#indices-and-tables" title="Permalink to this heading"></a></h1>
 <ul class="simple">
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 <li><p><a class="reference internal" href="py-modindex.html"><span class="std std-ref">Module Index</span></a></p></li>
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+           </div>
           </div>
-          
+          <footer><div class="rst-footer-buttons" role="navigation" aria-label="Footer">
+        <a href="introduction.html" class="btn btn-neutral float-right" title="Introduction" accesskey="n" rel="next">Next <span class="fa fa-arrow-circle-right" aria-hidden="true"></span></a>
+    </div>
+
+  <hr/>
+
+  <div role="contentinfo">
+    <p>&#169; Copyright 2023, Marco Lettere.</p>
+  </div>
+
+  Built with <a href="https://www.sphinx-doc.org/">Sphinx</a> using a
+    <a href="https://github.com/readthedocs/sphinx_rtd_theme">theme</a>
+    provided by <a href="https://readthedocs.org">Read the Docs</a>.
+   
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+</footer>
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build/html/introduction.html

@@ -1,56 +1,99 @@
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+<li class="toctree-l2"><a class="reference internal" href="#about">About</a></li>
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+             
   <section id="introduction">
-<h1>Introduction<a class="headerlink" href="#introduction" title="Permalink to this heading">¶</a></h1>
+<h1>Introduction<a class="headerlink" href="#introduction" title="Permalink to this heading"></a></h1>
 <section id="about">
-<h2>About<a class="headerlink" href="#about" title="Permalink to this heading">¶</a></h2>
+<h2>About<a class="headerlink" href="#about" title="Permalink to this heading"></a></h2>
 <p>CCP is the D4Science Cloud Computing Platform built upon the experience of the previous Dataminer initiative &lt;<a class="reference external" href="https://en.wikipedia.org/wiki/D4Science">https://en.wikipedia.org/wiki/D4Science</a>&gt; and uses a novel approach based on containerization, REST APIs and Json.</p>
 <p>Several fields of ICT have experienced a major evolution during the last decade and many new advances, such as the widespread adoption of microservice development patterns. This resulted in substantial improvements in terms of interoperability and composability of software artefacts.
 The vast landscape of new opportunities, in addition to the greatly increased requirements and expectations, have been the drivers for the design and development of a new Cloud Computing Platform that represents the result of a global rethink of the Data Miner.</p>
 </section>
 <section id="architecture">
-<h2>Architecture<a class="headerlink" href="#architecture" title="Permalink to this heading">¶</a></h2>
+<h2>Architecture<a class="headerlink" href="#architecture" title="Permalink to this heading"></a></h2>
 <p>A logical vision of the CCP architecutre is depicted in the following Figure.</p>
 <figure class="align-default" id="id1">
 <img alt="Logical vision of architecture" src="_images/logicalvisionarchitecture.png" />
 <figcaption>
-<p><span class="caption-text">The CCP logical vision of architecture</span><a class="headerlink" href="#id1" title="Permalink to this image">¶</a></p>
+<p><span class="caption-text">The CCP logical vision of architecture</span><a class="headerlink" href="#id1" title="Permalink to this image"></a></p>
 </figcaption>
 </figure>
 <p>In this vision, CCP is a layered set of components starting at the bottom with the <strong>Infrastructure</strong> layer, encompassing components such as hardware, Virtual Machines, container based clusters, storage facilities and networks.</p>
@@ -63,7 +106,7 @@ The vast landscape of new opportunities, in addition to the greatly increased re
 <figure class="align-default" id="id2">
 <img alt="Logical architecture" src="_images/logicalarchitecture.png" />
 <figcaption>
-<p><span class="caption-text">The CCP logical architecture</span><a class="headerlink" href="#id2" title="Permalink to this image">¶</a></p>
+<p><span class="caption-text">The CCP logical architecture</span><a class="headerlink" href="#id2" title="Permalink to this image"></a></p>
 </figcaption>
 </figure>
 <p>Starting from the top, <strong>Infrastructures</strong> (as computing resources that will host CCP method executions, i.e. anything from simple laptops up to clusters of server Hosts) can be connected as runtime execution environments by installing a Controller component. Within an infrastructure, Hosts are computational nodes like physical or virtual servers. They are delegated to execute methods.</p>
@@ -77,78 +120,34 @@ The vast landscape of new opportunities, in addition to the greatly increased re
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build/html/objects.inv

@@ -2,4 +2,4 @@
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build/html/search.html

@@ -1,128 +1,124 @@
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+<li class="toctree-l1 current"><a class="current reference internal" href="#">User manual</a><ul>
+<li class="toctree-l2"><a class="reference internal" href="#infrastructures">Infrastructures</a></li>
+<li class="toctree-l2"><a class="reference internal" href="#runtimes">Runtimes</a></li>
+<li class="toctree-l2"><a class="reference internal" href="#methods">Methods</a><ul>
+<li class="toctree-l3"><a class="reference internal" href="#anatomy-of-a-method">Anatomy of a Method</a></li>
+<li class="toctree-l3"><a class="reference internal" href="#lifecycle-of-a-method-execution">Lifecycle of a Method execution</a></li>
+<li class="toctree-l3"><a class="reference internal" href="#execution-context-of-a-method">Execution context of a Method</a></li>
+</ul>
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+<li class="toctree-l2"><a class="reference internal" href="#executions">Executions</a><ul>
+<li class="toctree-l3"><a class="reference internal" href="#anatomy-of-an-execution">Anatomy of an Execution</a></li>
+<li class="toctree-l3"><a class="reference internal" href="#method-and-execution-storage">Method and Execution storage</a></li>
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+<li class="toctree-l3"><a class="reference internal" href="#method-list">Method list</a></li>
+<li class="toctree-l3"><a class="reference internal" href="#method-editor">Method editor</a></li>
+<li class="toctree-l3"><a class="reference internal" href="#method-execution-form">Method execution form</a></li>
+<li class="toctree-l3"><a class="reference internal" href="#execution-monitor">Execution monitor</a></li>
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+<li class="toctree-l2"><a class="reference internal" href="#rest-apis-interacting-with-methods-and-executions-programmatically">REST APIs: Interacting with Methods and Executions programmatically</a></li>
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   <section id="user-manual">
-<h1>User manual<a class="headerlink" href="#user-manual" title="Permalink to this heading">¶</a></h1>
+<h1>User manual<a class="headerlink" href="#user-manual" title="Permalink to this heading"></a></h1>
 <p>This manual documents the features of CCP (Cloud Computing Platform) available to scientists that want to design, integrate and execute their methods.</p>
 <section id="infrastructures">
-<h2>Infrastructures<a class="headerlink" href="#infrastructures" title="Permalink to this heading">¶</a></h2>
+<h2>Infrastructures<a class="headerlink" href="#infrastructures" title="Permalink to this heading"></a></h2>
 <p>Infrastructures are technological platforms on top of whom Methods are executed. They are identified by a unique id, a name, a description and a type.
 The type defines also the encapsulation or containerisation technology used for the runtimes.
 Currently CCP supports single Docker containers, Docker Swarm based clusters and LXD clusters.
 It is responisibility of a Method developers to decide what infrastructure their Methods will be executed on and this restricts the type of Runtimes that can be selected.</p>
 </section>
 <section id="runtimes">
-<h2>Runtimes<a class="headerlink" href="#runtimes" title="Permalink to this heading">¶</a></h2>
+<h2>Runtimes<a class="headerlink" href="#runtimes" title="Permalink to this heading"></a></h2>
 <p>Runtimes are containers that encapsulate a Method. They can be seen as minimal virtual environments made of an operating system and all dependencies required by a particular Method.
 The technology and the list of available Runtimes is strictly related to type of the Infrastructure. In an Infrastructure of type Docker or Docker Swarm cluster the available Runtimes are listed in a registry of Docker containers for example.</p>
 </section>
 <section id="methods">
-<h2>Methods<a class="headerlink" href="#methods" title="Permalink to this heading">¶</a></h2>
+<h2>Methods<a class="headerlink" href="#methods" title="Permalink to this heading"></a></h2>
 <p>Logically, Methods are computational functions or procedures. They can be implementations of algorithms or numerical recipes. data gatherings or transformations, AI modules, generation of visuals and charts. Whatever can be executed and produces a valuable scientific result that needs to be reproduceable and repeatable can be written as a Method.</p>
 <p>CCP tries to be as lax as possible with respect to the technical constraints for Methods. It aims at supporting every language and every reasonable combination of operating systems and dependencies by providing stacks of Runtimes that provide many ready solutions but are simultaneously open to customisations.</p>
 <section id="anatomy-of-a-method">
-<h3>Anatomy of a Method<a class="headerlink" href="#anatomy-of-a-method" title="Permalink to this heading">¶</a></h3>
+<h3>Anatomy of a Method<a class="headerlink" href="#anatomy-of-a-method" title="Permalink to this heading"></a></h3>
 <p>At its heart a Method is a JSON structure that aggregates a section of metadata, the definition of input parameters, the description of expected outputs, instructions for customising the deploy and execute steps of its lifecycle and link to a compatible Infrastructure.</p>
 <p>The syntax of the JSON data structure is constrained by the grammar proposed by the OGC Processes API specification (&lt;<a class="reference external" href="https://ogcapi.ogc.org/processes/">https://ogcapi.ogc.org/processes/</a>&gt;).</p>
 <p>The following code snippet illustrates an example.</p>
@@ -256,12 +318,12 @@ The technology and the list of available Runtimes is strictly related to type of
 <p>The links section encodes the link to the Infrastructure that is declared to be compatible with the Method.</p>
 </section>
 <section id="lifecycle-of-a-method-execution">
-<h3>Lifecycle of a Method execution<a class="headerlink" href="#lifecycle-of-a-method-execution" title="Permalink to this heading">¶</a></h3>
+<h3>Lifecycle of a Method execution<a class="headerlink" href="#lifecycle-of-a-method-execution" title="Permalink to this heading"></a></h3>
 <p>The following Figure depicts what happens when the execution of a Method is requested by a user either by interfacing with a GUI widget of the CCP or by invoking the REST API.</p>
 <figure class="align-default" id="id1">
 <img alt="Lifecycle of Method execution" src="../_images/statemachine.png" />
 <figcaption>
-<p><span class="caption-text">Lifecycle of Method execution</span><a class="headerlink" href="#id1" title="Permalink to this image">¶</a></p>
+<p><span class="caption-text">Lifecycle of Method execution</span><a class="headerlink" href="#id1" title="Permalink to this image"></a></p>
 </figcaption>
 </figure>
 <p>The message carrying the execution request is sent to CCP and the execution starts. The first task puts the execution in <em>Launch</em> state. During this phase the Runtime for the execution is prepared. On a container based Infrastructure this usually resolves to using the <em>ccpimage</em> input parameter in order to fetch the container image from a reposiory and instantiatiate the container.</p>
@@ -274,7 +336,7 @@ The technology and the list of available Runtimes is strictly related to type of
 <p>Finally, the <em>Destroy</em> phase is the time where the Infrastructure controller literally destroys the Runtime of the execution and all resources created during the previous phases.</p>
 </section>
 <section id="execution-context-of-a-method">
-<h3>Execution context of a Method<a class="headerlink" href="#execution-context-of-a-method" title="Permalink to this heading">¶</a></h3>
+<h3>Execution context of a Method<a class="headerlink" href="#execution-context-of-a-method" title="Permalink to this heading"></a></h3>
 <p>During the execution of <em>deploy-script</em>, <em>execute-script</em> and <em>undeploy-script</em> as well as during method execution it is possible to access information that is contextual to CCP, Method or Execution request.</p>
 <p>Some information are accessible as template variables that can be used in the scripts with the <em>{{ var }}</em> syntax. Other useful information is passed directly to the Method execution as environmental varibales that can be accessed with the proper APIS that every programming language supports.</p>
 <p>All <strong>input parameters</strong> are passed in the form of template variables to the scripts. This allows the script to adapt the input values to the requirements of the Method (using them directly passing as commandline arguments, setting as environmental variables, or writing to files).</p>
@@ -292,7 +354,7 @@ The technology and the list of available Runtimes is strictly related to type of
 </ul>
 <p>The following variables are related to the authentication and authorization context of the Method execution. They can be used to access D4Science services in a secure and convenient way also for very long lasting executions.</p>
 <div class="literal-block-wrapper docutils container" id="id2">
-<div class="code-block-caption"><span class="caption-text">How to use <em>ccptaskid</em> to separate output of different replicas to different files in <em>execute-script</em>.</span><a class="headerlink" href="#id2" title="Permalink to this code">¶</a></div>
+<div class="code-block-caption"><span class="caption-text">How to use <em>ccptaskid</em> to separate output of different replicas to different files in <em>execute-script</em>.</span><a class="headerlink" href="#id2" title="Permalink to this code"></a></div>
 <div class="highlight-bash notranslate"><div class="highlight"><pre><span></span> mkdir -p /ccp_data/output <span class="o">&amp;&amp;</span> <span class="nb">echo</span> <span class="nv">$RANDOM</span> &gt;&gt; /ccp_data/output/<span class="sb">`</span>printenv ccptaskid<span class="sb">`</span>.txt
 </pre></div>
 </div>
@@ -305,7 +367,7 @@ The technology and the list of available Runtimes is strictly related to type of
 </ul>
 <p>As an example the following Python code shows how to use the variables to request a token renewal.</p>
 <div class="literal-block-wrapper docutils container" id="id3">
-<div class="code-block-caption"><span class="caption-text">How to request a login token and an UMA token for accessing D4Science service from inside Method code</span><a class="headerlink" href="#id3" title="Permalink to this code">¶</a></div>
+<div class="code-block-caption"><span class="caption-text">How to request a login token and an UMA token for accessing D4Science service from inside Method code</span><a class="headerlink" href="#id3" title="Permalink to this code"></a></div>
 <div class="highlight-python notranslate"><div class="highlight"><pre><span></span> <span class="c1">#Get auth info from env variables</span>
  <span class="n">refreshtoken</span> <span class="o">=</span> <span class="n">os</span><span class="o">.</span><span class="n">environ</span><span class="p">[</span><span class="s2">&quot;ccprefreshtoken&quot;</span><span class="p">]</span>
  <span class="n">context</span> <span class="o">=</span> <span class="n">os</span><span class="o">.</span><span class="n">environ</span><span class="p">[</span><span class="s2">&quot;ccpcontext&quot;</span><span class="p">]</span>
@@ -340,11 +402,11 @@ The technology and the list of available Runtimes is strictly related to type of
 </section>
 </section>
 <section id="executions">
-<h2>Executions<a class="headerlink" href="#executions" title="Permalink to this heading">¶</a></h2>
+<h2>Executions<a class="headerlink" href="#executions" title="Permalink to this heading"></a></h2>
 <p>An <strong>Execution</strong> represents the instatiation of a Method through a Request. The Request carries values for the inputs declared by the Method and a list of expected outputs. A dedicated data structure is created in the Execution repository as soon as an Execution request is accepted. The data structure acts as a folder that collects the request, all the outputs and all metadata generated in order to execute a Method.</p>
 <p>An Execution can be exported, imported and re-executed through the CCP GUI widgets or through REST API calls.</p>
 <section id="anatomy-of-an-execution">
-<h3>Anatomy of an Execution<a class="headerlink" href="#anatomy-of-an-execution" title="Permalink to this heading">¶</a></h3>
+<h3>Anatomy of an Execution<a class="headerlink" href="#anatomy-of-an-execution" title="Permalink to this heading"></a></h3>
 <p>The datastructure of an Execution is meant to be as atomic and as explicative as possible.
 The following is a representation of the data structure representing an Execution.</p>
 <ul class="simple">
@@ -369,7 +431,7 @@ The following is a representation of the data structure representing an Executio
 </ul>
 </section>
 <section id="method-and-execution-storage">
-<h3>Method and Execution storage<a class="headerlink" href="#method-and-execution-storage" title="Permalink to this heading">¶</a></h3>
+<h3>Method and Execution storage<a class="headerlink" href="#method-and-execution-storage" title="Permalink to this heading"></a></h3>
 <p>In ordder to be able to execute a Method or to operate on an Execution they need to be kept inside the <strong>Workbench</strong>. The Workbench can be seen as a sort of short lived storage area that resides closely to the CCP core components.</p>
 <p>A Method that is on the Workbench can be cloned, edited, executed, deleted, exported or archived to a offline storage area. The offline storage area is a dedicated folder CCP/methods on a user’s D4Science workspace. When exported to file or archive to the worksapce a MEthod is a JSON file named like the Method’s title and version.</p>
 <p>An Execution that is on the workbench can be browsed, downloaded, re-executed, deleted or archived to an offline storage area which resides in a dedicated folder CCP/executions on a user’s workspace. When downloaded to a file or archived to the workspace, an Execution is a zip archive containing a compressed binary with the structure described in the previous section.</p>
@@ -377,122 +439,83 @@ The following is a representation of the data structure representing an Executio
 </section>
 </section>
 <section id="ui-widgets">
-<h2>UI Widgets<a class="headerlink" href="#ui-widgets" title="Permalink to this heading">¶</a></h2>
+<h2>UI Widgets<a class="headerlink" href="#ui-widgets" title="Permalink to this heading"></a></h2>
 <p>A set of graphical user interaction (GUI) widgets are provided in order to allow a user to interact from browser based applications with Methods and Executions stored in the Workbench.</p>
 <section id="method-list">
-<h3>Method list<a class="headerlink" href="#method-list" title="Permalink to this heading">¶</a></h3>
+<h3>Method list<a class="headerlink" href="#method-list" title="Permalink to this heading"></a></h3>
 <p>The <em>Method list</em> widget is a visual representantion of the list of Methods that a user is able to access in a given context either because he/she is the owner or because they are shared in the context.</p>
 <p>The following Figure shows an example visualization of the Method list.</p>
 <figure class="align-default" id="id4">
 <img alt="Method list widget" src="../_images/methodlistwidget.png" />
 <figcaption>
-<p><span class="caption-text">Method list widget</span><a class="headerlink" href="#id4" title="Permalink to this image">¶</a></p>
+<p><span class="caption-text">Method list widget</span><a class="headerlink" href="#id4" title="Permalink to this image"></a></p>
 </figcaption>
 </figure>
 <p>The Method list widget is comprised of a toolbar, a search field and the list of Methods. The Methods are organized by categories as shown in [1]. For every Method the title, version, author and description are reported in the first two lines [2]. As additional information tags and compatible Infrastructure are shown [3]. There is the possibility to download a Method or a whole class and to see how many of the shown Methods are executable [4]. Methods can be not executable if their compatible Infrastrucure is not known or available. A per MEthod tollbar [5] allows to download, edit or execute a Method for. From the global toolbar it is possible to refresh the list or upload a Method from a file [6] and also to reimport an archived Method from the workspace by copying and pasting the shareable link into the proper field and clicking on the button [7].</p>
 </section>
 <section id="method-editor">
-<h3>Method editor<a class="headerlink" href="#method-editor" title="Permalink to this heading">¶</a></h3>
+<h3>Method editor<a class="headerlink" href="#method-editor" title="Permalink to this heading"></a></h3>
-<p>The <em>Method editor</em> widget is a visual tool for creating, deleting, editing or cloning a MEthod descriptor.</p>
+<p>The <em>Method editor</em> widget is a visual tool for creating, deleting, editing or cloning a Method descriptor.</p>
 <p>The following Figure shows an example visualization of the Method editor.</p>
 <figure class="align-default" id="id5">
 <img alt="Method editor widget" src="../_images/methodeditorwidget.png" />
 <figcaption>
-<p><span class="caption-text">Method editor widget</span><a class="headerlink" href="#id5" title="Permalink to this image">¶</a></p>
+<p><span class="caption-text">Method editor widget</span><a class="headerlink" href="#id5" title="Permalink to this image"></a></p>
 </figcaption>
 </figure>
 <p>From the global toolbar [1] it is possible to save the edited Method or delete it or clear all the form fields. The metadata area [2] contains the controls to define all the metadata of a Method including title, version, description, tags, categories. It is also possible to choose a compatible Infrastructure from the available ones. In the input definition area [3] the user can define all the input parameters with their type, format, encoding, cardinality and default values. In the output definition area [4] the user can define all the output files that can be expected from an Execution with their type, format, encoding and cardinality. Shortcuts are added to define with one click the standard output and error chnannels of a Method. In the scripting area [5] the deploy, execute and undeploy script can be defined.</p>
 <p>Once the Method is saved the user will automatically be added as the Author. If the user defines the method to be public, the Method is made available to all members of the context (VO or VRE) in which the operation occurred.</p>
 </section>
 <section id="method-execution-form">
-<h3>Method execution form<a class="headerlink" href="#method-execution-form" title="Permalink to this heading">¶</a></h3>
+<h3>Method execution form<a class="headerlink" href="#method-execution-form" title="Permalink to this heading"></a></h3>
+<p>The <em>Method execution form</em> widget is a visual tool for requesting the execution of a Method.</p>
+<p>The following Figure shows an example visualization of the Method execution form.</p>
+<figure class="align-default" id="id6">
+<img alt="Method execution form" src="../_images/executionformwidget.png" />
+<figcaption>
+<p><span class="caption-text">Method execution form</span><a class="headerlink" href="#id6" title="Permalink to this image"></a></p>
+</figcaption>
+</figure>
+<p>In the area labelled with [1], the principal metadata of the Method is shown. In the Inputs area [2] it is possible to edit the input values that are passed to the Execution. The input fields try to match as close as possible the constraints defined for the input in the Method descriptor. The execute button [4] triggers the sending of the execution request. A code generator widget [5] can be used in order to download code snippets that act as working examples for requesting the Execution programmatically through the CCP APIs (see <a class="reference internal" href="#rest"><span class="std std-ref">REST APIs: Interacting with Methods and Executions programmatically</span></a>). Currently Python 3, R, Jupyter Notebook are supported but the list will grow in the future.</p>
 </section>
 <section id="execution-monitor">
-<h3>Execution monitor<a class="headerlink" href="#execution-monitor" title="Permalink to this heading">¶</a></h3>
+<h3>Execution monitor<a class="headerlink" href="#execution-monitor" title="Permalink to this heading"></a></h3>
 </section>
 </section>
 <section id="rest-apis-interacting-with-methods-and-executions-programmatically">
-<h2>REST APIs: Interacting with Methods and Executions programmatically<a class="headerlink" href="#rest-apis-interacting-with-methods-and-executions-programmatically" title="Permalink to this heading">¶</a></h2>
+<span id="rest"></span><h2>REST APIs: Interacting with Methods and Executions programmatically<a class="headerlink" href="#rest-apis-interacting-with-methods-and-executions-programmatically" title="Permalink to this heading"></a></h2>
 </section>
 </section>
 
 
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source/conf.py

@@ -24,6 +24,6 @@ exclude_patterns = []
 # -- Options for HTML output -------------------------------------------------
 # https://www.sphinx-doc.org/en/master/usage/configuration.html#options-for-html-output
 
-html_theme = 'alabaster'
+html_theme = 'sphinx_rtd_theme'
 html_baseurl = '/docs/'
 html_static_path = ['_static']

source/usermanual/index.rst

@@ -393,7 +393,7 @@ The Method list widget is comprised of a toolbar, a search field and the list of
 Method editor
 ~~~~~~~~~~~~~
 
-The *Method editor* widget is a visual tool for creating, deleting, editing or cloning a MEthod descriptor.
+The *Method editor* widget is a visual tool for creating, deleting, editing or cloning a Method descriptor.
 
 The following Figure shows an example visualization of the Method editor.
 
@@ -410,8 +410,21 @@ Once the Method is saved the user will automatically be added as the Author. If
 Method execution form
 ~~~~~~~~~~~~~~~~~~~~~
 
+The *Method execution form* widget is a visual tool for requesting the execution of a Method.
+
+The following Figure shows an example visualization of the Method execution form.
+
+.. figure:: /images/executionformwidget.png
+    :alt: Method execution form
+
+    Method execution form
+
+In the area labelled with [1], the principal metadata of the Method is shown. In the Inputs area [2] it is possible to edit the input values that are passed to the Execution. The input fields try to match as close as possible the constraints defined for the input in the Method descriptor. The execute button [4] triggers the sending of the execution request. A code generator widget [5] can be used in order to download code snippets that act as working examples for requesting the Execution programmatically through the CCP APIs (see :ref:`rest`). Currently Python 3, R, Jupyter Notebook are supported but the list will grow in the future.
+
 Execution monitor
 ~~~~~~~~~~~~~~~~~
 
+.. _rest:
+
 REST APIs: Interacting with Methods and Executions programmatically
 -------------------------------------------------------------------