Merge pull request #159 from ggabernet/merge-template-updates

nf-core v2.3.2 template updates

.github/PULL_REQUEST_TEMPLATE.md

@@ -10,7 +10,6 @@ Remember that PRs should be made against the dev branch, unless you're preparing
 
 Learn more about contributing: [CONTRIBUTING.md](https://github.com/nf-core/airrflow/tree/master/.github/CONTRIBUTING.md)
 -->
-<!-- markdownlint-disable ul-indent -->
 
 ## PR checklist
 

.github/workflows/awsfulltest.yml

@@ -19,8 +19,6 @@ jobs:
           workspace_id: ${{ secrets.TOWER_WORKSPACE_ID }}
           access_token: ${{ secrets.TOWER_ACCESS_TOKEN }}
           compute_env: ${{ secrets.TOWER_COMPUTE_ENV }}
-          pipeline: ${{ github.repository }}
-          revision: ${{ github.sha }}
           workdir: s3://${{ secrets.AWS_S3_BUCKET }}/work/airrflow/work-${{ github.sha }}
           parameters: |
             {

.github/workflows/awstest.yml

@@ -17,8 +17,6 @@ jobs:
           workspace_id: ${{ secrets.TOWER_WORKSPACE_ID }}
           access_token: ${{ secrets.TOWER_ACCESS_TOKEN }}
           compute_env: ${{ secrets.TOWER_COMPUTE_ENV }}
-          pipeline: ${{ github.repository }}
-          revision: ${{ github.sha }}
           workdir: s3://${{ secrets.AWS_S3_BUCKET }}/work/airrflow/work-${{ github.sha }}
           parameters: |
             {

.gitpod.yml

@@ -4,7 +4,7 @@ vscode:
   extensions: # based on nf-core.nf-core-extensionpack
     - codezombiech.gitignore # Language support for .gitignore files
     # - cssho.vscode-svgviewer                 # SVG viewer
-    - davidanson.vscode-markdownlint # Markdown/CommonMark linting and style checking for Visual Studio Code
+    - esbenp.prettier-vscode # Markdown/CommonMark linting and style checking for Visual Studio Code
     - eamodio.gitlens # Quickly glimpse into whom, why, and when a line or code block was changed
     - EditorConfig.EditorConfig # override user/workspace settings with settings found in .editorconfig files
     - Gruntfuggly.todo-tree # Display TODO and FIXME in a tree view in the activity bar

CHANGELOG.md

@@ -14,7 +14,7 @@ and this project adheres to [Semantic Versioning](http://semver.org/spec/v2.0.0.
 - Fixed docs on `--umi_start` parameter, this parameter should only be used when UMIs are provided in the index reads.
 - [#143](https://github.com/nf-core/airrflow/pull/128) Template update to nf-core tools v2.2.
 - [#150](https://github.com/nf-core/airrflow/pull/150) Added option to search for reverse primers.
-- Template update to nf-core tools v2.3.1
+- [#159](https://github.com/nf-core/airrflow/pull/159) Template update to nf-core tools v2.3.1, v2.3.1
 
 ### `Fixed`