Test adding docker.runOptions to pipeline nextflow.config

nf-core · Jan 5, 2024 · 0b738ed · 0b738ed
1 parent e94ed03
commit 0b738ed
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Showing 3 changed files with 2 additions and 3 deletions.
diff --git a/nextflow.config b/nextflow.config
@@ -114,7 +114,7 @@ profiles {
         shifter.enabled        = false
         charliecloud.enabled   = false
         apptainer.enabled      = false
-        runOptions             = '-u $(id -u):$(id -g)'
+        runOptions             = '-u $(id -u):$(id -g) -v $HOME:$HOME'
     }
     arm {
         docker.runOptions = '-u $(id -u):$(id -g) --platform=linux/amd64'

diff --git a/nf-test.config b/nf-test.config
@@ -9,7 +9,7 @@ config {
     libDir "lib/"
 
     // location of an optional nextflow.config file specific for executing tests
-    configFile "tests/nextflow.config"
+    configFile "nextflow.config"
 
     // run all test with the defined docker profile from the main nextflow.config
     profile ""

diff --git a/tests/nextflow.config b/tests/nextflow.config