mount tmpdir in test

PGScatalog · Nov 29, 2023 · 63abf09 · 63abf09
1 parent 8661b35
commit 63abf09
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Showing 2 changed files with 3 additions and 1 deletion.
diff --git a/.github/workflows/ancestry.yml b/.github/workflows/ancestry.yml
@@ -17,7 +17,8 @@ on:
 env:
   NXF_SINGULARITY_CACHEDIR: ${{ github.workspace }}/singularity
   SINGULARITY_VERSION: 3.8.3
-
+  TMPDIR: ${{ runner.temp }}
+
 jobs:
   docker:
     if: ${{ inputs.docker }}

diff --git a/tests/config/nextflow.config b/tests/config/nextflow.config
@@ -30,6 +30,7 @@ def mount_home = "-v $HOME:$HOME -v /private/var/folders/"
 if ("$PROFILE" == "singularity") {
     singularity.enabled = true
     singularity.autoMounts = true
+    singularity.runOptions = "--bind $TMPDIR:$TMPDIR"
 } else if ("$PROFILE" == "conda") {
     conda.enabled = true
 } else if ("$PROFILE" == "mamba") {