mount home directory on singualrity ci

bactopia · Mar 24, 2024 · 0e167b5 · 0e167b5
1 parent b9c6137
commit 0e167b5
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Showing 2 changed files with 1 addition and 2 deletions.
diff --git a/.github/workflows/all-bactopia-tool-tests.yml b/.github/workflows/all-bactopia-tool-tests.yml
@@ -27,11 +27,11 @@ jobs:
           echo "BACTOPIA_WORKSPACE=${GITHUB_WORKSPACE}/${{ github.run_id }}/bactopia" >> $GITHUB_ENV
           echo "BACTOPIA_TMP=/data/storage/bactopia-tmp/${{ github.run_id }}" >> $GITHUB_ENV
           echo "NXF_SINGULARITY_CACHEDIR=/data/storage/bactopia-ci/envs/singularity" >> $GITHUB_ENV
+          echo "NXF_SINGULARITY_HOME_MOUNT=true" >> $GITHUB_ENV
           echo "SINGULARITY_CACHEDIR=/data/storage/bactopia-ci/envs/singularity" >> $GITHUB_ENV
           echo "SINGULARITY_TMPDIR=/data/storage/bactopia-tmp/${{ github.run_id }}/tmp" >> $GITHUB_ENV
           echo "TMP=/data/storage/bactopia-tmp/${{ github.run_id }}/tmp" >> $GITHUB_ENV
           echo "TMPDIR=/data/storage/bactopia-tmp/${{ github.run_id }}/tmp" >> $GITHUB_ENV
-          echo "NUMBA_CACHE_DIR=/data/storage/bactopia-tmp/${{ github.run_id }}/tmp" >> $GITHUB_ENV
           mkdir -p "/data/storage/bactopia-tmp/${{ github.run_id }}/tmp"
           chmod -R 777 "/data/storage/bactopia-tmp/${{ github.run_id }}"
 

diff --git a/subworkflows/local/tbprofiler/test.yml b/subworkflows/local/tbprofiler/test.yml
@@ -35,4 +35,3 @@
       contains: ['locus_tag', 'tbprofiler_version', 'median_depth']
     - path: bactopia/test/tools/tbprofiler/test.results.txt
       contains: ['gid', 'Analysis']
-    - path: bactopia/test/tools/tbprofiler/vcf/test.targets.csq.vcf.gz