Merge pull request #45 from biosafetylvl5/fix-depends

Update dependencies and build new docs

docs/.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: a7850f5afc0219d7d5902826f4f7f68c
+# This file records the configuration used when building these files. When it is not found, a full rebuild will be done.
+config: 94a9c5daefbd8a19dbfea7560a334eda
 tags: 645f666f9bcd5a90fca523b33c5a78b7

docs/_modules/brassy/actions/build_release_notes.html

@@ -6,10 +6,10 @@
     <meta name="viewport" content="width=device-width, initial-scale=1.0" />
     <title>brassy.actions.build_release_notes &#8212; brassy 0.0.3 documentation</title>
     <link rel="stylesheet" type="text/css" href="../../../_static/pygments.css?v=d1102ebc" />
-    <link rel="stylesheet" type="text/css" href="../../../_static/basic.css?v=c058f7c8" />
+    <link rel="stylesheet" type="text/css" href="../../../_static/basic.css?v=686e5160" />
     <link rel="stylesheet" type="text/css" href="../../../_static/alabaster.css?v=27fed22d" />
     <script src="../../../_static/documentation_options.js?v=47de8214"></script>
-    <script src="../../../_static/doctools.js?v=9a2dae69"></script>
+    <script src="../../../_static/doctools.js?v=9bcbadda"></script>
     <script src="../../../_static/sphinx_highlight.js?v=dc90522c"></script>
     <link rel="index" title="Index" href="../../../genindex.html" />
     <link rel="search" title="Search" href="../../../search.html" />
@@ -341,7 +341,7 @@ <h3>Related Topics</h3>
       &#169;.
 
       |
-      Powered by <a href="https://www.sphinx-doc.org/">Sphinx 8.0.2</a>
+      Powered by <a href="https://www.sphinx-doc.org/">Sphinx 8.1.3</a>
       &amp; <a href="https://alabaster.readthedocs.io">Alabaster 1.0.0</a>
 
     </div>

docs/_modules/brassy/actions/init.html

@@ -6,10 +6,10 @@
     <meta name="viewport" content="width=device-width, initial-scale=1.0" />
     <title>brassy.actions.init &#8212; brassy 0.0.3 documentation</title>
     <link rel="stylesheet" type="text/css" href="../../../_static/pygments.css?v=d1102ebc" />
-    <link rel="stylesheet" type="text/css" href="../../../_static/basic.css?v=c058f7c8" />
+    <link rel="stylesheet" type="text/css" href="../../../_static/basic.css?v=686e5160" />
     <link rel="stylesheet" type="text/css" href="../../../_static/alabaster.css?v=27fed22d" />
     <script src="../../../_static/documentation_options.js?v=47de8214"></script>
-    <script src="../../../_static/doctools.js?v=9a2dae69"></script>
+    <script src="../../../_static/doctools.js?v=9bcbadda"></script>
     <script src="../../../_static/sphinx_highlight.js?v=dc90522c"></script>
     <link rel="index" title="Index" href="../../../genindex.html" />
     <link rel="search" title="Search" href="../../../search.html" />
@@ -127,7 +127,7 @@ <h3>Related Topics</h3>
       &#169;.
 
       |
-      Powered by <a href="https://www.sphinx-doc.org/">Sphinx 8.0.2</a>
+      Powered by <a href="https://www.sphinx-doc.org/">Sphinx 8.1.3</a>
       &amp; <a href="https://alabaster.readthedocs.io">Alabaster 1.0.0</a>
 
     </div>

docs/_modules/brassy/actions/prune_yaml.html

@@ -6,10 +6,10 @@
     <meta name="viewport" content="width=device-width, initial-scale=1.0" />
     <title>brassy.actions.prune_yaml &#8212; brassy 0.0.3 documentation</title>
     <link rel="stylesheet" type="text/css" href="../../../_static/pygments.css?v=d1102ebc" />
-    <link rel="stylesheet" type="text/css" href="../../../_static/basic.css?v=c058f7c8" />
+    <link rel="stylesheet" type="text/css" href="../../../_static/basic.css?v=686e5160" />
     <link rel="stylesheet" type="text/css" href="../../../_static/alabaster.css?v=27fed22d" />
     <script src="../../../_static/documentation_options.js?v=47de8214"></script>
-    <script src="../../../_static/doctools.js?v=9a2dae69"></script>
+    <script src="../../../_static/doctools.js?v=9bcbadda"></script>
     <script src="../../../_static/sphinx_highlight.js?v=dc90522c"></script>
     <link rel="index" title="Index" href="../../../genindex.html" />
     <link rel="search" title="Search" href="../../../search.html" />
@@ -226,7 +226,7 @@ <h3>Related Topics</h3>
       &#169;.
 
       |
-      Powered by <a href="https://www.sphinx-doc.org/">Sphinx 8.0.2</a>
+      Powered by <a href="https://www.sphinx-doc.org/">Sphinx 8.1.3</a>
       &amp; <a href="https://alabaster.readthedocs.io">Alabaster 1.0.0</a>
 
     </div>

docs/_modules/brassy/brassy.html

@@ -6,10 +6,10 @@
     <meta name="viewport" content="width=device-width, initial-scale=1.0" />
     <title>brassy.brassy &#8212; brassy 0.0.3 documentation</title>
     <link rel="stylesheet" type="text/css" href="../../_static/pygments.css?v=d1102ebc" />
-    <link rel="stylesheet" type="text/css" href="../../_static/basic.css?v=c058f7c8" />
+    <link rel="stylesheet" type="text/css" href="../../_static/basic.css?v=686e5160" />
     <link rel="stylesheet" type="text/css" href="../../_static/alabaster.css?v=27fed22d" />
     <script src="../../_static/documentation_options.js?v=47de8214"></script>
-    <script src="../../_static/doctools.js?v=9a2dae69"></script>
+    <script src="../../_static/doctools.js?v=9bcbadda"></script>
     <script src="../../_static/sphinx_highlight.js?v=dc90522c"></script>
     <link rel="index" title="Index" href="../../genindex.html" />
     <link rel="search" title="Search" href="../../search.html" />
@@ -119,7 +119,7 @@ <h3>Related Topics</h3>
       &#169;.
 
       |
-      Powered by <a href="https://www.sphinx-doc.org/">Sphinx 8.0.2</a>
+      Powered by <a href="https://www.sphinx-doc.org/">Sphinx 8.1.3</a>
       &amp; <a href="https://alabaster.readthedocs.io">Alabaster 1.0.0</a>
 
     </div>

docs/_modules/brassy/templates/release_yaml_template.html

@@ -6,10 +6,10 @@
     <meta name="viewport" content="width=device-width, initial-scale=1.0" />
     <title>brassy.templates.release_yaml_template &#8212; brassy 0.0.3 documentation</title>
     <link rel="stylesheet" type="text/css" href="../../../_static/pygments.css?v=d1102ebc" />
-    <link rel="stylesheet" type="text/css" href="../../../_static/basic.css?v=c058f7c8" />
+    <link rel="stylesheet" type="text/css" href="../../../_static/basic.css?v=686e5160" />
     <link rel="stylesheet" type="text/css" href="../../../_static/alabaster.css?v=27fed22d" />
     <script src="../../../_static/documentation_options.js?v=47de8214"></script>
-    <script src="../../../_static/doctools.js?v=9a2dae69"></script>
+    <script src="../../../_static/doctools.js?v=9bcbadda"></script>
     <script src="../../../_static/sphinx_highlight.js?v=dc90522c"></script>
     <link rel="index" title="Index" href="../../../genindex.html" />
     <link rel="search" title="Search" href="../../../search.html" />
@@ -31,7 +31,8 @@
           <div class="body" role="main">
 
   <h1>Source code for brassy.templates.release_yaml_template</h1><div class="highlight"><pre>
-<span></span><span class="kn">import</span> <span class="nn">pathlib</span>
+<span></span><span class="kn">from</span> <span class="nn">brassy.utils.settings_manager</span> <span class="kn">import</span> <span class="n">get_settings</span>
+<span class="kn">import</span> <span class="nn">pathlib</span>
 <span class="kn">from</span> <span class="nn">typing</span> <span class="kn">import</span> <span class="n">List</span><span class="p">,</span> <span class="n">Optional</span><span class="p">,</span> <span class="n">Dict</span><span class="p">,</span> <span class="n">Union</span>
 <span class="kn">from</span> <span class="nn">datetime</span> <span class="kn">import</span> <span class="n">date</span> <span class="k">as</span> <span class="n">Date</span>
 
@@ -75,7 +76,8 @@ <h1>Source code for brassy.templates.release_yaml_template</h1><div class="highl
 <div class="viewcode-block" id="RelatedInternalIssue">
 <a class="viewcode-back" href="../../../api.html#brassy.templates.release_yaml_template.RelatedInternalIssue">[docs]</a>
 <span class="k">class</span> <span class="nc">RelatedInternalIssue</span><span class="p">(</span><span class="n">BaseModel</span><span class="p">):</span>
-    <span class="n">string</span><span class="p">:</span> <span class="n">Optional</span><span class="p">[</span><span class="nb">str</span><span class="p">]</span> <span class="o">=</span> <span class="n">Field</span><span class="p">(</span><span class="n">pattern</span><span class="o">=</span><span class="sa">r</span><span class="s2">&quot;[A-Za-z]+#\d+ - .+&quot;</span><span class="p">,</span> <span class="n">default</span><span class="o">=</span><span class="kc">None</span><span class="p">)</span></div>
+    <span class="n">internal</span><span class="p">:</span> <span class="n">Optional</span><span class="p">[</span><span class="nb">str</span><span class="p">]</span> <span class="o">=</span> <span class="n">Field</span><span class="p">(</span>
+        <span class="n">pattern</span><span class="o">=</span><span class="sa">r</span><span class="s2">&quot;[A-Za-z]+#\d+ - .+&quot;</span><span class="p">,</span> <span class="n">default</span><span class="o">=</span><span class="kc">None</span><span class="p">)</span></div>
 
 
 
@@ -161,8 +163,6 @@ <h1>Source code for brassy.templates.release_yaml_template</h1><div class="highl
 
 
 
-<span class="kn">from</span> <span class="nn">brassy.utils.settings_manager</span> <span class="kn">import</span> <span class="n">get_settings</span>
-
 <span class="n">Settings</span> <span class="o">=</span> <span class="n">get_settings</span><span class="p">(</span><span class="s2">&quot;brassy&quot;</span><span class="p">)</span>
 
 <span class="c1"># List of categories stored in a variable</span>
@@ -225,7 +225,7 @@ <h3>Related Topics</h3>
       &#169;.
 
       |
-      Powered by <a href="https://www.sphinx-doc.org/">Sphinx 8.0.2</a>
+      Powered by <a href="https://www.sphinx-doc.org/">Sphinx 8.1.3</a>
       &amp; <a href="https://alabaster.readthedocs.io">Alabaster 1.0.0</a>
 
     </div>

docs/_modules/brassy/templates/settings_template.html

@@ -6,10 +6,10 @@
     <meta name="viewport" content="width=device-width, initial-scale=1.0" />
     <title>brassy.templates.settings_template &#8212; brassy 0.0.3 documentation</title>
     <link rel="stylesheet" type="text/css" href="../../../_static/pygments.css?v=d1102ebc" />
-    <link rel="stylesheet" type="text/css" href="../../../_static/basic.css?v=c058f7c8" />
+    <link rel="stylesheet" type="text/css" href="../../../_static/basic.css?v=686e5160" />
     <link rel="stylesheet" type="text/css" href="../../../_static/alabaster.css?v=27fed22d" />
     <script src="../../../_static/documentation_options.js?v=47de8214"></script>
-    <script src="../../../_static/doctools.js?v=9a2dae69"></script>
+    <script src="../../../_static/doctools.js?v=9bcbadda"></script>
     <script src="../../../_static/sphinx_highlight.js?v=dc90522c"></script>
     <link rel="index" title="Index" href="../../../genindex.html" />
     <link rel="search" title="Search" href="../../../search.html" />
@@ -196,7 +196,7 @@ <h3>Related Topics</h3>
       &#169;.
 
       |
-      Powered by <a href="https://www.sphinx-doc.org/">Sphinx 8.0.2</a>
+      Powered by <a href="https://www.sphinx-doc.org/">Sphinx 8.1.3</a>
       &amp; <a href="https://alabaster.readthedocs.io">Alabaster 1.0.0</a>
 
     </div>

docs/_modules/brassy/utils/CLI.html

@@ -6,10 +6,10 @@
     <meta name="viewport" content="width=device-width, initial-scale=1.0" />
     <title>brassy.utils.CLI &#8212; brassy 0.0.3 documentation</title>
     <link rel="stylesheet" type="text/css" href="../../../_static/pygments.css?v=d1102ebc" />
-    <link rel="stylesheet" type="text/css" href="../../../_static/basic.css?v=c058f7c8" />
+    <link rel="stylesheet" type="text/css" href="../../../_static/basic.css?v=686e5160" />
     <link rel="stylesheet" type="text/css" href="../../../_static/alabaster.css?v=27fed22d" />
     <script src="../../../_static/documentation_options.js?v=47de8214"></script>
-    <script src="../../../_static/doctools.js?v=9a2dae69"></script>
+    <script src="../../../_static/doctools.js?v=9bcbadda"></script>
     <script src="../../../_static/sphinx_highlight.js?v=dc90522c"></script>
     <link rel="index" title="Index" href="../../../genindex.html" />
     <link rel="search" title="Search" href="../../../search.html" />
@@ -425,7 +425,7 @@ <h3>Related Topics</h3>
       &#169;.
 
       |
-      Powered by <a href="https://www.sphinx-doc.org/">Sphinx 8.0.2</a>
+      Powered by <a href="https://www.sphinx-doc.org/">Sphinx 8.1.3</a>
       &amp; <a href="https://alabaster.readthedocs.io">Alabaster 1.0.0</a>
 
     </div>

docs/_modules/brassy/utils/file_handler.html

@@ -6,10 +6,10 @@
     <meta name="viewport" content="width=device-width, initial-scale=1.0" />
     <title>brassy.utils.file_handler &#8212; brassy 0.0.3 documentation</title>
     <link rel="stylesheet" type="text/css" href="../../../_static/pygments.css?v=d1102ebc" />
-    <link rel="stylesheet" type="text/css" href="../../../_static/basic.css?v=c058f7c8" />
+    <link rel="stylesheet" type="text/css" href="../../../_static/basic.css?v=686e5160" />
     <link rel="stylesheet" type="text/css" href="../../../_static/alabaster.css?v=27fed22d" />
     <script src="../../../_static/documentation_options.js?v=47de8214"></script>
-    <script src="../../../_static/doctools.js?v=9a2dae69"></script>
+    <script src="../../../_static/doctools.js?v=9bcbadda"></script>
     <script src="../../../_static/sphinx_highlight.js?v=dc90522c"></script>
     <link rel="index" title="Index" href="../../../genindex.html" />
     <link rel="search" title="Search" href="../../../search.html" />
@@ -279,7 +279,7 @@ <h3>Related Topics</h3>
       &#169;.
 
       |
-      Powered by <a href="https://www.sphinx-doc.org/">Sphinx 8.0.2</a>
+      Powered by <a href="https://www.sphinx-doc.org/">Sphinx 8.1.3</a>
       &amp; <a href="https://alabaster.readthedocs.io">Alabaster 1.0.0</a>
 
     </div>

docs/_modules/brassy/utils/git_handler.html

@@ -6,10 +6,10 @@
     <meta name="viewport" content="width=device-width, initial-scale=1.0" />
     <title>brassy.utils.git_handler &#8212; brassy 0.0.3 documentation</title>
     <link rel="stylesheet" type="text/css" href="../../../_static/pygments.css?v=d1102ebc" />
-    <link rel="stylesheet" type="text/css" href="../../../_static/basic.css?v=c058f7c8" />
+    <link rel="stylesheet" type="text/css" href="../../../_static/basic.css?v=686e5160" />
     <link rel="stylesheet" type="text/css" href="../../../_static/alabaster.css?v=27fed22d" />
     <script src="../../../_static/documentation_options.js?v=47de8214"></script>
-    <script src="../../../_static/doctools.js?v=9a2dae69"></script>
+    <script src="../../../_static/doctools.js?v=9bcbadda"></script>
     <script src="../../../_static/sphinx_highlight.js?v=dc90522c"></script>
     <link rel="index" title="Index" href="../../../genindex.html" />
     <link rel="search" title="Search" href="../../../search.html" />
@@ -38,14 +38,26 @@ <h1>Source code for brassy.utils.git_handler</h1><div class="highlight"><pre>
 <a class="viewcode-back" href="../../../api.html#brassy.utils.git_handler.get_git_status">[docs]</a>
 <span class="k">def</span> <span class="nf">get_git_status</span><span class="p">(</span><span class="n">repo_path</span><span class="o">=</span><span class="s2">&quot;.&quot;</span><span class="p">):</span>
 <span class="w">    </span><span class="sd">&quot;&quot;&quot;</span>
-<span class="sd">    Retrieves the status of files in the given Git repository.</span>
+<span class="sd">    Retrieve the status of files in the specified Git repository.</span>
 
-<span class="sd">    Parameters:</span>
-<span class="sd">    repo_path (str): The path to the Git repository. Defaults to the current directory.</span>
+<span class="sd">    Parameters</span>
+<span class="sd">    ----------</span>
+<span class="sd">    repo_path : str, optional</span>
+<span class="sd">        The path to the Git repository. Defaults to the current directory.</span>
 
-<span class="sd">    Returns:</span>
-<span class="sd">    dict: A dictionary with keys &#39;added&#39;, &#39;modified&#39;, &#39;deleted&#39;, and &#39;renamed&#39;,</span>
-<span class="sd">          each containing a list of file paths that match the respective status.</span>
+<span class="sd">    Returns</span>
+<span class="sd">    -------</span>
+<span class="sd">    dict</span>
+<span class="sd">        A dictionary with the following keys:</span>
+
+<span class="sd">        - &#39;added&#39;: list of str</span>
+<span class="sd">            List of file paths for files that have been added.</span>
+<span class="sd">        - &#39;modified&#39;: list of str</span>
+<span class="sd">            List of file paths for files that have been modified.</span>
+<span class="sd">        - &#39;deleted&#39;: list of str</span>
+<span class="sd">            List of file paths for files that have been deleted.</span>
+<span class="sd">        - &#39;renamed&#39;: list of str</span>
+<span class="sd">            List of file paths for files that have been renamed.</span>
 <span class="sd">    &quot;&quot;&quot;</span>
 
     <span class="c1"># Open the repository</span>
@@ -55,7 +67,8 @@ <h1>Source code for brassy.utils.git_handler</h1><div class="highlight"><pre>
     <span class="k">try</span><span class="p">:</span>
         <span class="n">current_branch</span> <span class="o">=</span> <span class="n">repo</span><span class="o">.</span><span class="n">head</span>
     <span class="k">except</span> <span class="n">pygit2</span><span class="o">.</span><span class="n">GitError</span><span class="p">:</span>
-        <span class="k">raise</span> <span class="n">pygit2</span><span class="o">.</span><span class="n">GitError</span><span class="p">(</span><span class="sa">f</span><span class="s2">&quot;</span><span class="si">{</span><span class="n">repo_path</span><span class="si">}</span><span class="s2"> is not a git repo or does not have a head&quot;</span><span class="p">)</span>
+        <span class="k">raise</span> <span class="n">pygit2</span><span class="o">.</span><span class="n">GitError</span><span class="p">(</span>
+            <span class="sa">f</span><span class="s2">&quot;</span><span class="si">{</span><span class="n">repo_path</span><span class="si">}</span><span class="s2"> is not a git repo or does not have a head&quot;</span><span class="p">)</span>
 
     <span class="c1"># Get the main branch reference</span>
     <span class="n">main_branch</span> <span class="o">=</span> <span class="n">repo</span><span class="o">.</span><span class="n">branches</span><span class="p">[</span><span class="s2">&quot;main&quot;</span><span class="p">]</span>
@@ -178,7 +191,7 @@ <h3>Related Topics</h3>
       &#169;.
 
       |
-      Powered by <a href="https://www.sphinx-doc.org/">Sphinx 8.0.2</a>
+      Powered by <a href="https://www.sphinx-doc.org/">Sphinx 8.1.3</a>
       &amp; <a href="https://alabaster.readthedocs.io">Alabaster 1.0.0</a>
 
     </div>

docs/_modules/brassy/utils/messages.html

@@ -6,10 +6,10 @@
     <meta name="viewport" content="width=device-width, initial-scale=1.0" />
     <title>brassy.utils.messages &#8212; brassy 0.0.3 documentation</title>
     <link rel="stylesheet" type="text/css" href="../../../_static/pygments.css?v=d1102ebc" />
-    <link rel="stylesheet" type="text/css" href="../../../_static/basic.css?v=c058f7c8" />
+    <link rel="stylesheet" type="text/css" href="../../../_static/basic.css?v=686e5160" />
     <link rel="stylesheet" type="text/css" href="../../../_static/alabaster.css?v=27fed22d" />
     <script src="../../../_static/documentation_options.js?v=47de8214"></script>
-    <script src="../../../_static/doctools.js?v=9a2dae69"></script>
+    <script src="../../../_static/doctools.js?v=9bcbadda"></script>
     <script src="../../../_static/sphinx_highlight.js?v=dc90522c"></script>
     <link rel="index" title="Index" href="../../../genindex.html" />
     <link rel="search" title="Search" href="../../../search.html" />
@@ -207,7 +207,7 @@ <h3>Related Topics</h3>
       &#169;.
 
       |
-      Powered by <a href="https://www.sphinx-doc.org/">Sphinx 8.0.2</a>
+      Powered by <a href="https://www.sphinx-doc.org/">Sphinx 8.1.3</a>
       &amp; <a href="https://alabaster.readthedocs.io">Alabaster 1.0.0</a>
 
     </div>