Keep Docker and Test configs separate

adamd3 · Jun 19, 2024 · b3d5c1a · b3d5c1a
1 parent ca630e0
commit b3d5c1a
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Showing 2 changed files with 1 addition and 12 deletions.
diff --git a/.github/workflows/ci.yml b/.github/workflows/ci.yml
@@ -53,5 +53,5 @@ jobs:
           
       - name: Run pipeline with test data
         run: |
-          nextflow run ${GITHUB_WORKSPACE} -profile test --outdir ./results
+          nextflow run ${GITHUB_WORKSPACE} -profile test,docker --outdir ./results
 
diff --git a/configs/test.config b/configs/test.config
@@ -24,16 +24,5 @@ params {
     ref_genome  = 'https://raw.githubusercontent.com/adamd3/BactSeq/main/test_data/Mabs.fasta'
     ref_ann     = 'https://raw.githubusercontent.com/adamd3/BactSeq/main/test_data/Mabs.gff3'
     sample_file = 'https://raw.githubusercontent.com/adamd3/BactSeq/main/test_data/sample_sheet_1.tsv'
-
-    process.container      = 'adamd3/bactseq:latest'
-    docker {
-        enabled            = true
-        userEmulation      = true
-        runOptions         = '--pull=always'
-    }
-    singularity.enabled    = false
-    podman.enabled         = false
-    shifter.enabled        = false
-    charliecloud.enabled   = false
 
 }