remove singularity defaults

ktmeaton · Oct 9, 2020 · 3c4992e · 3c4992e
1 parent 2bea671
commit 3c4992e
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Showing 2 changed files with 2 additions and 2 deletions.
diff --git a/.github/workflows/pipeline.yaml b/.github/workflows/pipeline.yaml
@@ -38,7 +38,7 @@ jobs:
     runs-on: ubuntu-latest
     strategy:
       matrix:
-        container_mode: ["--use-conda","--use-singularity"]
+        container_mode: ["--use-conda","--use-singularity --singularity-prefix /home/runner/work/plague-phylogeography/plague-phylogeography/.snakemake/singularity/"]
       # Don't cancel a matrix job if another job fails
       fail-fast: false
     timeout-minutes: 60

diff --git a/profiles/gh-actions/config.yaml b/profiles/gh-actions/config.yaml
@@ -5,7 +5,7 @@ restart-times: 2
 max-jobs-per-second: 1
 latency-wait: 5
 use-singularity: False
-singularity-prefix: /home/runner/work/plague-phylogeography/plague-phylogeography/.snakemake/singularity/
+#singularity-prefix: /home/runner/work/plague-phylogeography/plague-phylogeography/.snakemake/singularity/
 use-conda: False
 conda-frontend: mamba
 rerun-incomplete:  True