Deployed c3eac9d to 2.1 with MkDocs 1.6.1 and mike 2.1.3

2.1/404.html

@@ -12,7 +12,7 @@
 
 
       <link rel="icon" href="/nf-schema/latest/2.1/assets/images/favicon.png">
-      <meta name="generator" content="mkdocs-1.6.1, mkdocs-material-9.5.34">
+      <meta name="generator" content="mkdocs-1.6.1, mkdocs-material-9.5.35">
 
 
 
@@ -956,7 +956,7 @@ <h1>404 - Not found</h1>
     </div>
 
 
-    <script id="__config" type="application/json">{"base": "/nf-schema/latest/2.1", "features": ["content.action.edit", "content.code.annotate", "content.code.copy", "navigation.instant", "navigation.top", "navigation.tracking", "navigation.sections", "navigation.footer", "search.share", "toc.follow"], "search": "/nf-schema/latest/2.1/assets/javascripts/workers/search.07f07601.min.js", "translations": {"clipboard.copied": "Copied to clipboard", "clipboard.copy": "Copy to clipboard", "search.result.more.one": "1 more on this page", "search.result.more.other": "# more on this page", "search.result.none": "No matching documents", "search.result.one": "1 matching document", "search.result.other": "# matching documents", "search.result.placeholder": "Type to start searching", "search.result.term.missing": "Missing", "select.version": "Select version"}, "version": {"provider": "mike"}}</script>
+    <script id="__config" type="application/json">{"base": "/nf-schema/latest/2.1", "features": ["content.action.edit", "content.code.annotate", "content.code.copy", "navigation.instant", "navigation.top", "navigation.tracking", "navigation.sections", "navigation.footer", "search.share", "toc.follow"], "search": "/nf-schema/latest/2.1/assets/javascripts/workers/search.6ce7567c.min.js", "translations": {"clipboard.copied": "Copied to clipboard", "clipboard.copy": "Copy to clipboard", "search.result.more.one": "1 more on this page", "search.result.more.other": "# more on this page", "search.result.none": "No matching documents", "search.result.one": "1 matching document", "search.result.other": "# matching documents", "search.result.placeholder": "Type to start searching", "search.result.term.missing": "Missing", "select.version": "Select version"}, "version": {"provider": "mike"}}</script>
 
 
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2.1/background/index.html

@@ -20,7 +20,7 @@
 
 
       <link rel="icon" href="../assets/images/favicon.png">
-      <meta name="generator" content="mkdocs-1.6.1, mkdocs-material-9.5.34">
+      <meta name="generator" content="mkdocs-1.6.1, mkdocs-material-9.5.35">
 
 
 
@@ -1087,7 +1087,7 @@ <h1 id="background">Background</h1>
     </div>
 
 
-    <script id="__config" type="application/json">{"base": "..", "features": ["content.action.edit", "content.code.annotate", "content.code.copy", "navigation.instant", "navigation.top", "navigation.tracking", "navigation.sections", "navigation.footer", "search.share", "toc.follow"], "search": "../assets/javascripts/workers/search.07f07601.min.js", "translations": {"clipboard.copied": "Copied to clipboard", "clipboard.copy": "Copy to clipboard", "search.result.more.one": "1 more on this page", "search.result.more.other": "# more on this page", "search.result.none": "No matching documents", "search.result.one": "1 matching document", "search.result.other": "# matching documents", "search.result.placeholder": "Type to start searching", "search.result.term.missing": "Missing", "select.version": "Select version"}, "version": {"provider": "mike"}}</script>
+    <script id="__config" type="application/json">{"base": "..", "features": ["content.action.edit", "content.code.annotate", "content.code.copy", "navigation.instant", "navigation.top", "navigation.tracking", "navigation.sections", "navigation.footer", "search.share", "toc.follow"], "search": "../assets/javascripts/workers/search.6ce7567c.min.js", "translations": {"clipboard.copied": "Copied to clipboard", "clipboard.copy": "Copy to clipboard", "search.result.more.one": "1 more on this page", "search.result.more.other": "# more on this page", "search.result.none": "No matching documents", "search.result.one": "1 matching document", "search.result.other": "# matching documents", "search.result.placeholder": "Type to start searching", "search.result.term.missing": "Missing", "select.version": "Select version"}, "version": {"provider": "mike"}}</script>
 
 
       <script src="../assets/javascripts/bundle.56dfad97.min.js"></script>

2.1/configuration/configuration/index.html

@@ -20,7 +20,7 @@
 
 
       <link rel="icon" href="../../assets/images/favicon.png">
-      <meta name="generator" content="mkdocs-1.6.1, mkdocs-material-9.5.34">
+      <meta name="generator" content="mkdocs-1.6.1, mkdocs-material-9.5.35">
 
 
 
@@ -1606,7 +1606,7 @@ <h3 id="aftertext_1">afterText</h3>
     </div>
 
 
-    <script id="__config" type="application/json">{"base": "../..", "features": ["content.action.edit", "content.code.annotate", "content.code.copy", "navigation.instant", "navigation.top", "navigation.tracking", "navigation.sections", "navigation.footer", "search.share", "toc.follow"], "search": "../../assets/javascripts/workers/search.07f07601.min.js", "translations": {"clipboard.copied": "Copied to clipboard", "clipboard.copy": "Copy to clipboard", "search.result.more.one": "1 more on this page", "search.result.more.other": "# more on this page", "search.result.none": "No matching documents", "search.result.one": "1 matching document", "search.result.other": "# matching documents", "search.result.placeholder": "Type to start searching", "search.result.term.missing": "Missing", "select.version": "Select version"}, "version": {"provider": "mike"}}</script>
+    <script id="__config" type="application/json">{"base": "../..", "features": ["content.action.edit", "content.code.annotate", "content.code.copy", "navigation.instant", "navigation.top", "navigation.tracking", "navigation.sections", "navigation.footer", "search.share", "toc.follow"], "search": "../../assets/javascripts/workers/search.6ce7567c.min.js", "translations": {"clipboard.copied": "Copied to clipboard", "clipboard.copy": "Copy to clipboard", "search.result.more.one": "1 more on this page", "search.result.more.other": "# more on this page", "search.result.none": "No matching documents", "search.result.one": "1 matching document", "search.result.other": "# matching documents", "search.result.placeholder": "Type to start searching", "search.result.term.missing": "Missing", "select.version": "Select version"}, "version": {"provider": "mike"}}</script>
 
 
       <script src="../../assets/javascripts/bundle.56dfad97.min.js"></script>

2.1/contributing/setup/index.html

@@ -18,7 +18,7 @@
 
 
       <link rel="icon" href="../../assets/images/favicon.png">
-      <meta name="generator" content="mkdocs-1.6.1, mkdocs-material-9.5.34">
+      <meta name="generator" content="mkdocs-1.6.1, mkdocs-material-9.5.35">
 
 
 
@@ -1222,7 +1222,7 @@ <h2 id="change-and-preview-the-docs">Change and preview the docs</h2>
     </div>
 
 
-    <script id="__config" type="application/json">{"base": "../..", "features": ["content.action.edit", "content.code.annotate", "content.code.copy", "navigation.instant", "navigation.top", "navigation.tracking", "navigation.sections", "navigation.footer", "search.share", "toc.follow"], "search": "../../assets/javascripts/workers/search.07f07601.min.js", "translations": {"clipboard.copied": "Copied to clipboard", "clipboard.copy": "Copy to clipboard", "search.result.more.one": "1 more on this page", "search.result.more.other": "# more on this page", "search.result.none": "No matching documents", "search.result.one": "1 matching document", "search.result.other": "# matching documents", "search.result.placeholder": "Type to start searching", "search.result.term.missing": "Missing", "select.version": "Select version"}, "version": {"provider": "mike"}}</script>
+    <script id="__config" type="application/json">{"base": "../..", "features": ["content.action.edit", "content.code.annotate", "content.code.copy", "navigation.instant", "navigation.top", "navigation.tracking", "navigation.sections", "navigation.footer", "search.share", "toc.follow"], "search": "../../assets/javascripts/workers/search.6ce7567c.min.js", "translations": {"clipboard.copied": "Copied to clipboard", "clipboard.copy": "Copy to clipboard", "search.result.more.one": "1 more on this page", "search.result.more.other": "# more on this page", "search.result.none": "No matching documents", "search.result.one": "1 matching document", "search.result.other": "# matching documents", "search.result.placeholder": "Type to start searching", "search.result.term.missing": "Missing", "select.version": "Select version"}, "version": {"provider": "mike"}}</script>
 
 
       <script src="../../assets/javascripts/bundle.56dfad97.min.js"></script>

2.1/index.html

@@ -18,7 +18,7 @@
 
 
       <link rel="icon" href="assets/images/favicon.png">
-      <meta name="generator" content="mkdocs-1.6.1, mkdocs-material-9.5.34">
+      <meta name="generator" content="mkdocs-1.6.1, mkdocs-material-9.5.35">
 
 
 
@@ -1251,7 +1251,7 @@ <h2 id="credits">Credits</h2>
     </div>
 
 
-    <script id="__config" type="application/json">{"base": ".", "features": ["content.action.edit", "content.code.annotate", "content.code.copy", "navigation.instant", "navigation.top", "navigation.tracking", "navigation.sections", "navigation.footer", "search.share", "toc.follow"], "search": "assets/javascripts/workers/search.07f07601.min.js", "translations": {"clipboard.copied": "Copied to clipboard", "clipboard.copy": "Copy to clipboard", "search.result.more.one": "1 more on this page", "search.result.more.other": "# more on this page", "search.result.none": "No matching documents", "search.result.one": "1 matching document", "search.result.other": "# matching documents", "search.result.placeholder": "Type to start searching", "search.result.term.missing": "Missing", "select.version": "Select version"}, "version": {"provider": "mike"}}</script>
+    <script id="__config" type="application/json">{"base": ".", "features": ["content.action.edit", "content.code.annotate", "content.code.copy", "navigation.instant", "navigation.top", "navigation.tracking", "navigation.sections", "navigation.footer", "search.share", "toc.follow"], "search": "assets/javascripts/workers/search.6ce7567c.min.js", "translations": {"clipboard.copied": "Copied to clipboard", "clipboard.copy": "Copy to clipboard", "search.result.more.one": "1 more on this page", "search.result.more.other": "# more on this page", "search.result.none": "No matching documents", "search.result.one": "1 matching document", "search.result.other": "# matching documents", "search.result.placeholder": "Type to start searching", "search.result.term.missing": "Missing", "select.version": "Select version"}, "version": {"provider": "mike"}}</script>
 
 
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2.1/migration_guide/index.html

@@ -20,7 +20,7 @@
 
 
       <link rel="icon" href="../assets/images/favicon.png">
-      <meta name="generator" content="mkdocs-1.6.1, mkdocs-material-9.5.34">
+      <meta name="generator" content="mkdocs-1.6.1, mkdocs-material-9.5.35">
 
 
 
@@ -1266,18 +1266,17 @@ <h3 id="updating-the-name-and-version-of-the-plugin">Updating the name and versi
 </div>
 </div>
 <p>Additionally, all includes from <code>nf-validation</code> should be updated to <code>nf-schema</code>. This can easily be done with the following command:</p>
-<div class="highlight"><pre><span></span><code><a id="__codelineno-2-1" name="__codelineno-2-1" href="#__codelineno-2-1"></a>find<span class="w"> </span>.<span class="w"> </span>-type<span class="w"> </span>f<span class="w"> </span>-name<span class="w"> </span><span class="s2">&quot;*.nf&quot;</span><span class="w"> </span>-exec<span class="w"> </span>sed<span class="w"> </span>-i<span class="w"> </span>-e<span class="w"> </span><span class="s2">&quot;s/from &#39;plugin\/nf-validation&#39;/from &#39;plugin\/nf-schema&#39;/g&quot;</span><span class="w"> </span>-
-<a id="__codelineno-2-2" name="__codelineno-2-2" href="#__codelineno-2-2"></a>e<span class="w"> </span><span class="s1">&#39;s/from &quot;plugin\/nf-validation&quot;/from &quot;plugin\/nf-schema&quot;/g&#39;</span><span class="w"> </span><span class="o">{}</span><span class="w"> </span>+
+<div class="highlight"><pre><span></span><code><a id="__codelineno-2-1" name="__codelineno-2-1" href="#__codelineno-2-1"></a>find<span class="w"> </span>.<span class="w"> </span>-type<span class="w"> </span>f<span class="w"> </span>-name<span class="w"> </span><span class="s2">&quot;*.nf&quot;</span><span class="w"> </span>-exec<span class="w"> </span>sed<span class="w"> </span>-i<span class="w"> </span>-e<span class="w"> </span><span class="s2">&quot;s/from &#39;plugin\/nf-validation&#39;/from &#39;plugin\/nf-schema&#39;/g&quot;</span><span class="w"> </span>-e<span class="w"> </span><span class="s1">&#39;s/from &quot;plugin\/nf-validation&quot;/from &quot;plugin\/nf-schema&quot;/g&#39;</span><span class="w"> </span><span class="o">{}</span><span class="w"> </span>+
 </code></pre></div>
 <h3 id="updating-the-json-schema-files">Updating the JSON schema files</h3>
 <p>If you aren't using any special features in your schemas, you can simply update your <code>nextflow_schema.json</code> file using the following command:</p>
-<div class="highlight"><pre><span></span><code><a id="__codelineno-3-1" name="__codelineno-3-1" href="#__codelineno-3-1"></a>sed<span class="w"> </span>-i<span class="w"> </span>-e<span class="w"> </span><span class="s1">&#39;s/http:\/\/json-schema.org\/draft-07\/schema/https:\/\/json-schema.org\/draft\/2020-12\/schema/g&#39;</span><span class="w"> </span>-e<span class="w"> </span><span class="s1">&#39;s/definitions/$defs/g&#39;</span><span class="w"> </span>nextflow_schema.json
+<div class="highlight"><pre><span></span><code><a id="__codelineno-3-1" name="__codelineno-3-1" href="#__codelineno-3-1"></a>sed<span class="w"> </span>-i<span class="w"> </span>-e<span class="w"> </span><span class="s1">&#39;s/https?:\/\/json-schema.org\/draft-07\/schema/https:\/\/json-schema.org\/draft\/2020-12\/schema/g&#39;</span><span class="w"> </span>-e<span class="w"> </span><span class="s1">&#39;s/definitions/$defs/g&#39;</span><span class="w"> </span>nextflow_schema.json
 </code></pre></div>
 <p>This will replace the old schema draft specification (<code>draft-07</code>) by the new one (<code>2020-12</code>), and the old keyword <code>definitions</code> by the new notation <code>$defs</code>.</p>
 <div class="admonition note">
 <p class="admonition-title">Note</p>
 <p>Repeat this command for every JSON schema used in your pipeline. e.g. for the default samplesheet schema in nf-core pipelines:
-<code>bash sed -i -e 's/http:\/\/json-schema.org\/draft-07\/schema/https:\/\/json-schema.org\/draft\/2020-12\/schema/g' -e 's/definitions/$defs/g' assets/schema_input.json</code></p>
+<code>bash sed -i -e 's/https?:\/\/json-schema.org\/draft-07\/schema/https:\/\/json-schema.org\/draft\/2020-12\/schema/g' -e 's/definitions/$defs/g' assets/schema_input.json</code></p>
 </div>
 <div class="admonition warning">
 <p class="admonition-title">Warning</p>
@@ -1595,7 +1594,7 @@ <h3 id="updating-the-help-message">Updating the help message</h3>
     </div>
 
 
-    <script id="__config" type="application/json">{"base": "..", "features": ["content.action.edit", "content.code.annotate", "content.code.copy", "navigation.instant", "navigation.top", "navigation.tracking", "navigation.sections", "navigation.footer", "search.share", "toc.follow"], "search": "../assets/javascripts/workers/search.07f07601.min.js", "translations": {"clipboard.copied": "Copied to clipboard", "clipboard.copy": "Copy to clipboard", "search.result.more.one": "1 more on this page", "search.result.more.other": "# more on this page", "search.result.none": "No matching documents", "search.result.one": "1 matching document", "search.result.other": "# matching documents", "search.result.placeholder": "Type to start searching", "search.result.term.missing": "Missing", "select.version": "Select version"}, "version": {"provider": "mike"}}</script>
+    <script id="__config" type="application/json">{"base": "..", "features": ["content.action.edit", "content.code.annotate", "content.code.copy", "navigation.instant", "navigation.top", "navigation.tracking", "navigation.sections", "navigation.footer", "search.share", "toc.follow"], "search": "../assets/javascripts/workers/search.6ce7567c.min.js", "translations": {"clipboard.copied": "Copied to clipboard", "clipboard.copy": "Copy to clipboard", "search.result.more.one": "1 more on this page", "search.result.more.other": "# more on this page", "search.result.none": "No matching documents", "search.result.one": "1 matching document", "search.result.other": "# matching documents", "search.result.placeholder": "Type to start searching", "search.result.term.missing": "Missing", "select.version": "Select version"}, "version": {"provider": "mike"}}</script>
 
 
       <script src="../assets/javascripts/bundle.56dfad97.min.js"></script>

2.1/nextflow_schema/create_schema/index.html

@@ -20,7 +20,7 @@
 
 
       <link rel="icon" href="../../assets/images/favicon.png">
-      <meta name="generator" content="mkdocs-1.6.1, mkdocs-material-9.5.34">
+      <meta name="generator" content="mkdocs-1.6.1, mkdocs-material-9.5.35">
 
 
 
@@ -1224,7 +1224,7 @@ <h2 id="build-a-sample-sheet-schema">Build a sample sheet schema</h2>
     </div>
 
 
-    <script id="__config" type="application/json">{"base": "../..", "features": ["content.action.edit", "content.code.annotate", "content.code.copy", "navigation.instant", "navigation.top", "navigation.tracking", "navigation.sections", "navigation.footer", "search.share", "toc.follow"], "search": "../../assets/javascripts/workers/search.07f07601.min.js", "translations": {"clipboard.copied": "Copied to clipboard", "clipboard.copy": "Copy to clipboard", "search.result.more.one": "1 more on this page", "search.result.more.other": "# more on this page", "search.result.none": "No matching documents", "search.result.one": "1 matching document", "search.result.other": "# matching documents", "search.result.placeholder": "Type to start searching", "search.result.term.missing": "Missing", "select.version": "Select version"}, "version": {"provider": "mike"}}</script>
+    <script id="__config" type="application/json">{"base": "../..", "features": ["content.action.edit", "content.code.annotate", "content.code.copy", "navigation.instant", "navigation.top", "navigation.tracking", "navigation.sections", "navigation.footer", "search.share", "toc.follow"], "search": "../../assets/javascripts/workers/search.6ce7567c.min.js", "translations": {"clipboard.copied": "Copied to clipboard", "clipboard.copy": "Copy to clipboard", "search.result.more.one": "1 more on this page", "search.result.more.other": "# more on this page", "search.result.none": "No matching documents", "search.result.one": "1 matching document", "search.result.other": "# matching documents", "search.result.placeholder": "Type to start searching", "search.result.term.missing": "Missing", "select.version": "Select version"}, "version": {"provider": "mike"}}</script>
 
 
       <script src="../../assets/javascripts/bundle.56dfad97.min.js"></script>