Deploy preview for PR 96 🛫

pr-preview/pr-96/guide/index.html

@@ -551,7 +551,7 @@ <h2 data-anchor-id="viashnextflow-vdsl3">Viash+Nextflow VDSL3</h2>
 
 
     <li>
-      <a href="../guide/nextflow_vdsl3/create-and-use-a-module.html">Create and use a module</a>: Creating a VDSL3 module is as simple as adding <code>{ type: nextflow }</code> to the <code>platforms</code> section in the Viash config. Luckily, our previous example already contained such an entry:
+      <a href="../guide/nextflow_vdsl3/create-and-use-a-module.html">Create and use a module</a>: Creating a VDSL3 module is as simple as adding <code>{ type: nextflow }</code> to the <code>runners</code> section in the Viash config. Luckily, our previous example already contained such an entry:
     </li>
 
 

pr-preview/pr-96/guide/nextflow_vdsl3/create-a-pipeline.html

@@ -428,19 +428,16 @@ <h2 class="anchored" data-anchor-id="build-the-vdsl3-modules-and-workflow">Build
 <div class="cell">
 <div class="sourceCode cell-code" id="cb2"><pre class="sourceCode bash code-with-copy"><code class="sourceCode bash"><span id="cb2-1"><a href="#cb2-1" aria-hidden="true" tabindex="-1"></a><span class="ex">viash</span> ns build <span class="at">--setup</span> cachedbuild <span class="at">--parallel</span></span></code><button title="Copy to Clipboard" class="code-copy-button"><i class="bi"></i></button></pre></div>
 <div class="cell-output cell-output-stdout">
-<pre><code>temporaryFolder: /tmp/viash_hub_repo7650655995524195824 uri: https://viash-hub.com/data-intuitive/vsh-pipeline-operators.git
-Cloning into '.'...
-checkout out: List(git, checkout, tags/v0.2.0, --, .) 0 
-Exporting remove_comments (template) =docker=&gt; /home/runner/work/website/website/guide/_viash_project_template/target/docker/template/remove_comments
-Exporting combine_columns (template) =docker=&gt; /home/runner/work/website/website/guide/_viash_project_template/target/docker/template/combine_columns
-Exporting remove_comments (template) =nextflow=&gt; /home/runner/work/website/website/guide/_viash_project_template/target/nextflow/template/remove_comments
-Exporting workflow (template) =nextflow=&gt; /home/runner/work/website/website/guide/_viash_project_template/target/nextflow/template/workflow
-[notice] Building container 'ghcr.io/viash-io/viash_project_template/template/remove_comments:0.2.3' with Dockerfile
-[notice] Building container 'ghcr.io/viash-io/viash_project_template/template/combine_columns:0.2.3' with Dockerfile
-Exporting take_column (template) =docker=&gt; /home/runner/work/website/website/guide/_viash_project_template/target/docker/template/take_column
-Exporting take_column (template) =nextflow=&gt; /home/runner/work/website/website/guide/_viash_project_template/target/nextflow/template/take_column
-[notice] Building container 'ghcr.io/viash-io/viash_project_template/template/take_column:0.2.3' with Dockerfile
-Exporting combine_columns (template) =nextflow=&gt; /home/runner/work/website/website/guide/_viash_project_template/target/nextflow/template/combine_columns
+<pre><code>Exporting remove_comments (template) =executable=&gt; target/executable/template/remove_comments
+Exporting workflow (template) =nextflow=&gt; target/nextflow/template/workflow
+Exporting combine_columns (template) =executable=&gt; target/executable/template/combine_columns
+Exporting remove_comments (template) =nextflow=&gt; target/nextflow/template/remove_comments
+[notice] Building container 'ghcr.io/viash-io/project_template/template/remove_comments:0.3.0' with Dockerfile
+[notice] Building container 'ghcr.io/viash-io/project_template/template/combine_columns:0.3.0' with Dockerfile
+Exporting take_column (template) =executable=&gt; target/executable/template/take_column
+Exporting combine_columns (template) =nextflow=&gt; target/nextflow/template/combine_columns
+[notice] Building container 'ghcr.io/viash-io/project_template/template/take_column:0.3.0' with Dockerfile
+Exporting take_column (template) =nextflow=&gt; target/nextflow/template/take_column
 All 7 configs built successfully</code></pre>
 </div>
 </div>
@@ -457,17 +454,7 @@ <h2 class="anchored" data-anchor-id="build-the-vdsl3-modules-and-workflow">Build
 <div class="sourceCode cell-code" id="cb4"><pre class="sourceCode bash code-with-copy"><code class="sourceCode bash"><span id="cb4-1"><a href="#cb4-1" aria-hidden="true" tabindex="-1"></a><span class="ex">tree</span> target</span></code><button title="Copy to Clipboard" class="code-copy-button"><i class="bi"></i></button></pre></div>
 <div class="cell-output cell-output-stdout">
 <pre><code>target
-├── dependencies
-│&nbsp;&nbsp; └── vsh
-│&nbsp;&nbsp;     └── data-intuitive
-│&nbsp;&nbsp;         └── vsh-pipeline-operators
-│&nbsp;&nbsp;             └── v0.2.0
-│&nbsp;&nbsp;                 └── nextflow
-│&nbsp;&nbsp;                     └── join
-│&nbsp;&nbsp;                         └── vsh_toList
-│&nbsp;&nbsp;                             ├── main.nf
-│&nbsp;&nbsp;                             └── nextflow.config
-├── docker
+├── executable
 │&nbsp;&nbsp; └── template
 │&nbsp;&nbsp;     ├── combine_columns
 │&nbsp;&nbsp;     │&nbsp;&nbsp; └── combine_columns
@@ -490,7 +477,7 @@ <h2 class="anchored" data-anchor-id="build-the-vdsl3-modules-and-workflow">Build
             ├── main.nf
             └── nextflow.config
 
-19 directories, 13 files</code></pre>
+11 directories, 11 files</code></pre>
 </div>
 </div>
 </section>
@@ -657,23 +644,29 @@ <h2 class="anchored" data-anchor-id="run-the-pipeline">Run the pipeline</h2>
 <pre><code>
  N E X T F L O W   ~  version 24.04.4
 
-Launching `main.nf` [lethal_kimura] DSL2 - revision: dc137fbfcf
+Launching `main.nf` [drunk_tuckerman] DSL2 - revision: dc137fbfcf
 
 [-        ] rem…Wf:remove_comments_process -
 Input: [file1, [input:/home/runner/work/website/website/guide/_viash_project_template/resources_test/file1.tsv]]
 Input: [file2, [input:/home/runner/work/website/website/guide/_viash_project_template/resources_test/file2.tsv]]
 
+[-        ] rem…Wf:remove_comments_process | 0 of 2
+Input: [file1, [input:/home/runner/work/website/website/guide/_viash_project_template/resources_test/file1.tsv]]
+Input: [file2, [input:/home/runner/work/website/website/guide/_viash_project_template/resources_test/file2.tsv]]
+
 executor &gt;  local (2)
-[ef/23b567] rem…e_comments_process (file2) | 0 of 2
+[55/e4301e] rem…e_comments_process (file1) | 2 of 2 ✔
 Input: [file1, [input:/home/runner/work/website/website/guide/_viash_project_template/resources_test/file1.tsv]]
 Input: [file2, [input:/home/runner/work/website/website/guide/_viash_project_template/resources_test/file2.tsv]]
+Output: [file2, [output:/home/runner/work/website/website/guide/_viash_project_template/work/1e/2ba88872abc4f401d59215b4527f20/file2.remove_comments.output.tsv]]
+Output: [file1, [output:/home/runner/work/website/website/guide/_viash_project_template/work/55/e4301eb9f898f08543e0424d8b2d95/file1.remove_comments.output.tsv]]
 
 executor &gt;  local (2)
-[7a/33445f] rem…e_comments_process (file1) | 2 of 2 ✔
+[55/e4301e] rem…e_comments_process (file1) | 2 of 2 ✔
 Input: [file1, [input:/home/runner/work/website/website/guide/_viash_project_template/resources_test/file1.tsv]]
 Input: [file2, [input:/home/runner/work/website/website/guide/_viash_project_template/resources_test/file2.tsv]]
-Output: [file1, [output:/home/runner/work/website/website/guide/_viash_project_template/work/7a/33445f8d827e1819d60d1d7157f42d/file1.remove_comments.output.tsv]]
-Output: [file2, [output:/home/runner/work/website/website/guide/_viash_project_template/work/ef/23b567da92545dd264944b203544ec/file2.remove_comments.output.tsv]]</code></pre>
+Output: [file2, [output:/home/runner/work/website/website/guide/_viash_project_template/work/1e/2ba88872abc4f401d59215b4527f20/file2.remove_comments.output.tsv]]
+Output: [file1, [output:/home/runner/work/website/website/guide/_viash_project_template/work/55/e4301eb9f898f08543e0424d8b2d95/file1.remove_comments.output.tsv]]</code></pre>
 </div>
 </div>
 <details>
@@ -703,8 +696,8 @@ <h2 class="anchored" data-anchor-id="run-the-pipeline">Run the pipeline</h2>
 <div class="sourceCode cell-code" id="cb15"><pre class="sourceCode bash code-with-copy"><code class="sourceCode bash"><span id="cb15-1"><a href="#cb15-1" aria-hidden="true" tabindex="-1"></a><span class="ex">tree</span> output</span></code><button title="Copy to Clipboard" class="code-copy-button"><i class="bi"></i></button></pre></div>
 <div class="cell-output cell-output-stdout">
 <pre><code>output
-├── file1.remove_comments.output.tsv -&gt; /home/runner/work/website/website/guide/_viash_project_template/work/7a/33445f8d827e1819d60d1d7157f42d/file1.remove_comments.output.tsv
-└── file2.remove_comments.output.tsv -&gt; /home/runner/work/website/website/guide/_viash_project_template/work/ef/23b567da92545dd264944b203544ec/file2.remove_comments.output.tsv
+├── file1.remove_comments.output.tsv -&gt; /home/runner/work/website/website/guide/_viash_project_template/work/55/e4301eb9f898f08543e0424d8b2d95/file1.remove_comments.output.tsv
+└── file2.remove_comments.output.tsv -&gt; /home/runner/work/website/website/guide/_viash_project_template/work/1e/2ba88872abc4f401d59215b4527f20/file2.remove_comments.output.tsv
 
 0 directories, 2 files</code></pre>
 </div>