Merge pull request #1135 from nf-core/update-action-tower-launch-to-v2

Update action tower launch to v2

Author: maxulysse

.github/workflows/cloud_tests_full.yml

@@ -23,8 +23,9 @@ jobs:
       matrix:
         aligner: ["star_salmon", "star_rsem"]
     steps:
-      - uses: seqeralabs/action-tower-launch@v1
+      - uses: seqeralabs/action-tower-launch@v2
         with:
+          revision: ${{ github.sha }}
           workspace_id: ${{ secrets.TOWER_WORKSPACE_ID }}
           access_token: ${{ secrets.TOWER_ACCESS_TOKEN }}
           compute_env: ${{ secrets.TOWER_CE_AWS_CPU }}
@@ -35,21 +36,23 @@ jobs:
             {
                 "hook_url": "${{ secrets.MEGATESTS_ALERTS_SLACK_HOOK_URL }}",
                 "aligner": "${{ matrix.aligner }}",
-                "outdir": "${{ secrets.TOWER_BUCKET_AWS }}/rnaseq/results-${{ github.sha }}/aligner_${{ matrix.aligner }}"
+                "outdir": "${{ secrets.TOWER_BUCKET_AWS }}/rnaseq/results-${{ github.sha }}/aligner_${{ matrix.aligner }}/"
             }
       - uses: actions/upload-artifact@v3
         with:
           name: Tower debug log file
           path: tower_action_*.log
+
   run-full-tests-on-gcp:
     if: ${{ github.event.inputs.platform == 'all' || github.event.inputs.platform == 'gcp' || !github.event.inputs }}
     runs-on: ubuntu-latest
     strategy:
       matrix:
         aligner: ["star_salmon", "star_rsem"]
     steps:
-      - uses: seqeralabs/action-tower-launch@v1
+      - uses: seqeralabs/action-tower-launch@v2
         with:
+          revision: ${{ github.sha }}
           workspace_id: ${{ secrets.TOWER_WORKSPACE_ID }}
           access_token: ${{ secrets.TOWER_ACCESS_TOKEN }}
           compute_env: ${{ secrets.TOWER_CE_GCP_CPU }}
@@ -60,21 +63,23 @@ jobs:
             {
                 "hook_url": "${{ secrets.MEGATESTS_ALERTS_SLACK_HOOK_URL }}",
                 "aligner": "${{ matrix.aligner }}",
-                "outdir": "${{ secrets.TOWER_BUCKET_GCP }}/rnaseq/results-${{ github.sha }}/aligner_${{ matrix.aligner }}"
+                "outdir": "${{ secrets.TOWER_BUCKET_GCP }}/rnaseq/results-${{ github.sha }}/aligner_${{ matrix.aligner }}/"
             }
       - uses: actions/upload-artifact@v3
         with:
           name: Tower debug log file
           path: tower_action_*.log
+
   run-full-tests-on-azure:
     if: ${{ github.event.inputs.platform == 'all' || github.event.inputs.platform == 'azure' || !github.event.inputs }}
     runs-on: ubuntu-latest
     strategy:
       matrix:
         aligner: ["star_salmon", "star_rsem"]
     steps:
-      - uses: seqeralabs/action-tower-launch@v1
+      - uses: seqeralabs/action-tower-launch@v2
         with:
+          revision: ${{ github.sha }}
           workspace_id: ${{ secrets.TOWER_WORKSPACE_ID }}
           access_token: ${{ secrets.TOWER_ACCESS_TOKEN }}
           compute_env: ${{ secrets.TOWER_CE_AZURE_CPU }}
@@ -85,7 +90,7 @@ jobs:
             {
                 "hook_url": "${{ secrets.MEGATESTS_ALERTS_SLACK_HOOK_URL }}",
                 "aligner": "${{ matrix.aligner }}",
-                "outdir": "${{ secrets.TOWER_BUCKET_AZURE }}/rnaseq/results-${{ github.sha }}/aligner_${{ matrix.aligner }}",
+                "outdir": "${{ secrets.TOWER_BUCKET_AZURE }}/rnaseq/results-${{ github.sha }}/aligner_${{ matrix.aligner }}/",
                 "igenomes_base": "${{ secrets.TOWER_IGENOMES_BASE_AZURE }}"
             }
       - uses: actions/upload-artifact@v3

.github/workflows/cloud_tests_small.yml

@@ -18,7 +18,7 @@ jobs:
     if: ${{ github.event.inputs.platform == 'all' || github.event.inputs.platform == 'aws' }}
     runs-on: ubuntu-latest
     steps:
-      - uses: seqeralabs/action-tower-launch@v1
+      - uses: seqeralabs/action-tower-launch@v2
         with:
           workspace_id: ${{ secrets.TOWER_WORKSPACE_ID }}
           access_token: ${{ secrets.TOWER_ACCESS_TOKEN }}
@@ -38,7 +38,7 @@ jobs:
     if: ${{ github.event.inputs.platform == 'all' || github.event.inputs.platform == 'gcp' }}
     runs-on: ubuntu-latest
     steps:
-      - uses: seqeralabs/action-tower-launch@v1
+      - uses: seqeralabs/action-tower-launch@v2
         with:
           workspace_id: ${{ secrets.TOWER_WORKSPACE_ID }}
           access_token: ${{ secrets.TOWER_ACCESS_TOKEN }}
@@ -58,7 +58,7 @@ jobs:
     if: ${{ github.event.inputs.platform == 'all' || github.event.inputs.platform == 'azure' }}
     runs-on: ubuntu-latest
     steps:
-      - uses: seqeralabs/action-tower-launch@v1
+      - uses: seqeralabs/action-tower-launch@v2
         with:
           workspace_id: ${{ secrets.TOWER_WORKSPACE_ID }}
           access_token: ${{ secrets.TOWER_ACCESS_TOKEN }}

CHANGELOG.md

@@ -9,6 +9,8 @@ and this project adheres to [Semantic Versioning](https://semver.org/spec/v2.0.0
 
 ### Enhancements & fixes
 
+- [PR #1135](https://github.com/nf-core/rnaseq/pull/1135) - Update [action-tower-launch](https://github.com/marketplace/actions/action-tower-launch) to v2 which supports more variable handling.
+
 ### Software dependencies
 
 ### Modules / Subworkflows