running dot with env instead

AndrewRadev · Dec 5, 2024 · 4041e12 · 4041e12
1 parent 36309bd
commit 4041e12
Showing 1 changed file with 1 addition and 2 deletions.
diff --git a/.github/workflows/snakemake.yml b/.github/workflows/snakemake.yml
@@ -25,8 +25,7 @@ jobs:
 
       - name: Generate workflow image artifact
         run: |
-          micromamba activate protein-runway 
-          snakemake --dag 03_output/5vde_example.segmentation.tsv | dot -Tsvg > dag.svg
+          micromamba run -n protein-runway snakemake --dag 03_output/5vde_example.segmentation.tsv | micromamba run -n protein-runway dot -Tsvg > dag.svg
       - uses: actions/upload-artifact@v4
         with:
             name: dependency-graph