Merge pull request #986 from drpatelh/hosted

Remove self-hosted runner definitions in Actions CI

Author: drpatelh

.github/workflows/ci.yml

@@ -20,7 +20,7 @@ jobs:
     name: Run pipeline with test data
     # Only run on push if this is the nf-core dev branch (merged PRs)
     if: "${{ github.event_name != 'push' || (github.event_name == 'push' && github.repository == 'nf-core/rnaseq') }}"
-    runs-on: self-hosted
+    runs-on: ubuntu-latest
     strategy:
       matrix:
         NXF_VER:
@@ -66,7 +66,7 @@ jobs:
   star_salmon:
     name: Test STAR Salmon with workflow parameters
     if: ${{ github.event_name != 'push' || (github.event_name == 'push' && github.repository == 'nf-core/rnaseq') }}
-    runs-on: self-hosted
+    runs-on: ubuntu-latest
     strategy:
       matrix:
         parameters:
@@ -123,7 +123,7 @@ jobs:
   star_rsem:
     name: Test STAR RSEM with workflow parameters
     if: ${{ github.event_name != 'push' || (github.event_name == 'push' && github.repository == 'nf-core/rnaseq') }}
-    runs-on: self-hosted
+    runs-on: ubuntu-latest
     strategy:
       matrix:
         parameters:
@@ -169,7 +169,7 @@ jobs:
   hisat2:
     name: Test HISAT2 with workflow parameters
     if: ${{ github.event_name != 'push' || (github.event_name == 'push' && github.repository == 'nf-core/rnaseq') }}
-    runs-on: self-hosted
+    runs-on: ubuntu-latest
     strategy:
       matrix:
         parameters:
@@ -215,7 +215,7 @@ jobs:
   salmon:
     name: Test Salmon with workflow parameters
     if: ${{ github.event_name != 'push' || (github.event_name == 'push' && github.repository == 'nf-core/rnaseq') }}
-    runs-on: self-hosted
+    runs-on: ubuntu-latest
     strategy:
       matrix:
         parameters:

.github/workflows/cloud_tests_full.yml

@@ -16,7 +16,7 @@ on:
 jobs:
   run-full-tests-on-aws:
     if: ${{ github.event.inputs.platform == 'all' || github.event.inputs.platform == 'aws' }}
-    runs-on: self-hosted
+    runs-on: ubuntu-latest
     strategy:
       matrix:
         aligner: ["star_salmon", "star_rsem"]
@@ -41,7 +41,7 @@ jobs:
           path: tower_action_*.log
   run-full-tests-on-gcp:
     if: ${{ github.event.inputs.platform == 'all' || github.event.inputs.platform == 'gcp' }}
-    runs-on: self-hosted
+    runs-on: ubuntu-latest
     strategy:
       matrix:
         aligner: ["star_salmon", "star_rsem"]
@@ -66,7 +66,7 @@ jobs:
           path: tower_action_*.log
   run-full-tests-on-azure:
     if: ${{ github.event.inputs.platform == 'all' || github.event.inputs.platform == 'azure' }}
-    runs-on: self-hosted
+    runs-on: ubuntu-latest
     strategy:
       matrix:
         aligner: ["star_salmon", "star_rsem"]

.github/workflows/cloud_tests_small.yml

@@ -16,7 +16,7 @@ on:
 jobs:
   run-small-tests-on-aws:
     if: ${{ github.event.inputs.platform == 'all' || github.event.inputs.platform == 'aws' }}
-    runs-on: self-hosted
+    runs-on: ubuntu-latest
     steps:
       - uses: seqeralabs/action-tower-launch@v1
         with:
@@ -37,7 +37,7 @@ jobs:
           path: tower_action_*.log
   run-small-tests-on-gcp:
     if: ${{ github.event.inputs.platform == 'all' || github.event.inputs.platform == 'gcp' }}
-    runs-on: self-hosted
+    runs-on: ubuntu-latest
     steps:
       - uses: seqeralabs/action-tower-launch@v1
         with:
@@ -58,7 +58,7 @@ jobs:
           path: tower_action_*.log
   run-small-tests-on-azure:
     if: ${{ github.event.inputs.platform == 'all' || github.event.inputs.platform == 'azure' }}
-    runs-on: self-hosted
+    runs-on: ubuntu-latest
     steps:
       - uses: seqeralabs/action-tower-launch@v1
         with:

CHANGELOG.md

@@ -20,6 +20,7 @@ Thank you to everyone else that has contributed by reporting bugs, enhancements
 
 ### Enhancements & fixes
 
+- Add infrastructure and CI for multi-cloud full-sized tests run via Nextflow Tower (see [#981](https://github.com/nf-core/rnaseq/pull/981))
 - Added fastp support.
   - Users can now select between `--trimmer trimgalore` (default) and `--trimmer fastp`.
   - Trim Galore! specific pipeline parameters have been deprecated: `--clip_r1`, `--clip_r2`, `--three_prime_clip_r1`, `--three_prime_clip_r2` and `--trim_nextseq`