fix: update CI to new execution method

OpenOmics · Nov 9, 2023 · d02b3c2 · d02b3c2
1 parent 389371d
commit d02b3c2
Showing 1 changed file with 2 additions and 2 deletions.
diff --git a/.github/workflows/dryrun.yaml b/.github/workflows/dryrun.yaml
@@ -12,8 +12,8 @@ jobs:
     - uses: docker://snakemake/snakemake:stable
     - name: Dry Run with test data
       run: |
-        docker run -h cn0000 -v $PWD:/opt2 snakemake/snakemake:stable /bin/bash -c \
-        "pip install /opt2; dmux run -s /opt2/.tests/illumnia_demux -o /opt2/.tests/illumnia_demux/dry_run_out --local --dry-run /opt2/.tests/illumnia_demux"
+        docker run -h cn0000 -v $PWD:/opt2 -w /opt2 snakemake/snakemake:stable /bin/bash -c \
+        "./dmux run -s /opt2/.tests/illumnia_demux -o /opt2/.tests/illumnia_demux/dry_run_out --local --dry-run /opt2/.tests/illumnia_demux"
     - name: View the pipeline config file
       run: |
         echo "Generated config file for pipeline...." && cat $PWD/.tests/illumnia_demux/dry_run_out/EXP_PROJ_demux/.config/config_job_0.json