update singularity cache on CI

bactopia · Mar 23, 2024 · 92e97b9 · 92e97b9
1 parent 93ee225
commit 92e97b9
Showing 1 changed file with 3 additions and 2 deletions.
diff --git a/.github/workflows/all-bactopia-tool-tests.yml b/.github/workflows/all-bactopia-tool-tests.yml
@@ -26,7 +26,8 @@ jobs:
           echo "BACTOPIA_TESTS=/data/storage/bactopia-ci/bactopia-tests/data" >> $GITHUB_ENV
           echo "BACTOPIA_WORKSPACE=${GITHUB_WORKSPACE}/${{ github.run_id }}/bactopia" >> $GITHUB_ENV
           echo "BACTOPIA_TMP=/data/storage/bactopia-tmp/${{ github.run_id }}" >> $GITHUB_ENV
-          echo "SINGULARITY_CACHEDIR=/data/storage/bactopia-ci/singularity-cache" >> $GITHUB_ENV
+          echo "NXF_SINGULARITY_CACHEDIR=/data/storage/bactopia-ci/envs/singularity" >> $GITHUB_ENV
+          echo "SINGULARITY_CACHEDIR=/data/storage/bactopia-ci/envs/singularity" >> $GITHUB_ENV
           mkdir "/data/storage/bactopia-tmp/${{ github.run_id }}"
           chmod -R 777 "/data/storage/bactopia-tmp/${{ github.run_id }}"
 
@@ -36,7 +37,7 @@ jobs:
           conda activate bactopia-ci
           cd ${{ env.BACTOPIA_WORKSPACE }}
           ls subworkflows/local/ | grep -v -E "teton" | xargs -I {} -P 20 \
-              bash -c 'BACTOPIA_ARGS="-profile singularity --singularity_cache ${{ env.BACTOPIA_SINGULARITY }} --is_ci --test_data_dir ${{ env.BACTOPIA_TESTS }}" TMPDIR=${{ env.BACTOPIA_TMP }} \
+              bash -c 'BACTOPIA_ARGS="-profile singularity --is_ci --test_data_dir ${{ env.BACTOPIA_TESTS }}" TMPDIR=${{ env.BACTOPIA_TMP }} \
                        pytest --wt 5 --symlink --kwdof -o "testpaths=tests subworkflows/local/" --git-aware --tag {}'
 
       - name: Docker Profile