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biosustain · Oct 24, 2024 · 93761d9 · 93761d9
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diff --git a/.doctrees/course_contents/Tutorial.doctree b/.doctrees/course_contents/Tutorial.doctree
diff --git a/.doctrees/course_information/Instructions.doctree b/.doctrees/course_information/Instructions.doctree
diff --git a/.doctrees/environment.pickle b/.doctrees/environment.pickle
diff --git a/.doctrees/index.doctree b/.doctrees/index.doctree
diff --git a/_sources/course_contents/Tutorial.md b/_sources/course_contents/Tutorial.md
@@ -0,0 +1,14 @@
+# Nextflow fundamentals tutorial
+For DTU-Biosustain and DTU-Bioenginnering
+
+Print the current version, system and runtime:
+```bash
+:caption: Verify java installation:
+
+nextflow info
+```
+
+Run hello.nf as it is, passing a parameter from the command line and after changing the code in the second process (rev $y) using –resume
+nextflow run hello.nf
+nextflow run hello.nf --greeting ‘Hello Albert’
+nextflow run hello.nf --greeting ‘Hello Albert’ -resume
diff --git a/_sources/course_information/Instructions.md b/_sources/course_information/Instructions.md
@@ -9,25 +9,25 @@ To learn more about Github codespaces go [here](https://github.com/features/code
 
 Now, Nextflow should be ready to run in your GitHub Codespace environment! Let's check that you have a fully functional environment.
 
-```bash
+```{code-block} bash
 :caption: Verify java installation:
 
 java -version
 ```
 
-```bash
+```{code-block} bash
 :caption: Verify Nextflow installation:
 
 nextflow -v
 ```
 
-```bash
+```{code-block} bash
 :caption: Nextflow information:
 
 nextflow info
 ```
 
-```bash
+```{code-block} bash
 :caption: Verify Docker installation:
 
 docker --version

diff --git a/_sources/index.md b/_sources/index.md
@@ -33,6 +33,7 @@ course_information/Timing
 :caption: Course contents
 
 course_contents/Contents
+course_contents/Tutorial
 ```
 
 ```{toctree}

diff --git a/about.html b/about.html
@@ -172,6 +172,7 @@
 <p aria-level="2" class="caption" role="heading"><span class="caption-text">Course contents</span></p>
 <ul class="nav bd-sidenav">
 <li class="toctree-l1"><a class="reference internal" href="course_contents/Contents.html">Contents</a></li>
+<li class="toctree-l1"><a class="reference internal" href="course_contents/Tutorial.html">Nextflow fundamentals tutorial</a></li>
 </ul>
 <ul class="nav bd-sidenav">
 <li class="toctree-l1"><a class="reference internal" href="resources.html">Resources</a></li>

diff --git a/course_contents/Contents.html b/course_contents/Contents.html
@@ -49,7 +49,7 @@
     <link rel="author" title="About these documents" href="../about.html" />
     <link rel="index" title="Index" href="../genindex.html" />
     <link rel="search" title="Search" href="../search.html" />
-    <link rel="next" title="Resources" href="../resources.html" />
+    <link rel="next" title="Nextflow fundamentals tutorial" href="Tutorial.html" />
     <link rel="prev" title="Timing" href="../course_information/Timing.html" />
   <meta name="viewport" content="width=device-width, initial-scale=1"/>
   <meta name="docsearch:language" content="en"/>
@@ -172,6 +172,7 @@
 <p aria-level="2" class="caption" role="heading"><span class="caption-text">Course contents</span></p>
 <ul class="current nav bd-sidenav">
 <li class="toctree-l1 current active"><a class="current reference internal" href="#">Contents</a></li>
+<li class="toctree-l1"><a class="reference internal" href="Tutorial.html">Nextflow fundamentals tutorial</a></li>
 </ul>
 <ul class="nav bd-sidenav">
 <li class="toctree-l1"><a class="reference internal" href="../resources.html">Resources</a></li>
@@ -359,11 +360,11 @@ <h1>Contents<a class="headerlink" href="#contents" title="Link to this heading">
       </div>
     </a>
     <a class="right-next"
-       href="../resources.html"
+       href="Tutorial.html"
        title="next page">
       <div class="prev-next-info">
         <p class="prev-next-subtitle">next</p>
-        <p class="prev-next-title">Resources</p>
+        <p class="prev-next-title">Nextflow fundamentals tutorial</p>
       </div>
       <i class="fa-solid fa-angle-right"></i>
     </a>