Update GitHub Actions workflow

guigolab · Jun 19, 2024 · 2b7945a · 2b7945a
1 parent 47ab4f2
commit 2b7945a
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Showing 2 changed files with 6 additions and 7 deletions.
diff --git a/.github/workflows/test.yml b/.github/workflows/test.yml
@@ -17,8 +17,8 @@ jobs:
   pipeline-test:
     name: Pipeline tests
     runs-on: ubuntu-latest
-    needs: workflow-test
-
+    needs: [module-test, workflow-test]
+    
     strategy:
       fail-fast: false
       matrix:
@@ -50,7 +50,6 @@ jobs:
   workflow-test:
     name: Workflow tests
     runs-on: ubuntu-latest
-    needs: module-test
 
     steps:
       - uses: actions/checkout@v4

diff --git a/nextflow.config b/nextflow.config
@@ -6,12 +6,12 @@ manifest.mainScript = 'grape-pipeline.nf'
 
 // small input dataset for testing
 params {
-        index = "$baseDir/test-index.txt"
-        genome = "$baseDir/data/genome.fa"
-        annotation = "$baseDir/data/annotation.gtf"
+    index = "$baseDir/test-index.txt"
+    genome = "$baseDir/data/genome.fa"
+    annotation = "$baseDir/data/annotation.gtf"
 }
 
-params.containerRepo = "public.ecr.aws/biocontainers"
+params.containerRepo = "quay.io/biocontainers"
 
 // Docker is disabled by default and uses the following options when activated
 docker {