end before snippy multi

ktmeaton · Jul 20, 2020 · d42360a · d42360a
1 parent 5b191fb
commit d42360a
Showing 1 changed file with 3 additions and 0 deletions.
diff --git a/.github/workflows/pipeline_assembly.yaml b/.github/workflows/pipeline_assembly.yaml
@@ -61,6 +61,7 @@ jobs:
           conda activate ${PHYLO_CONDA_ENV}
           conda deactivate
 
+      # 4a. Run Assembly Pipeline
       - name: assembly pipeline
         shell: bash -l {0}
         run: |
@@ -71,7 +72,9 @@ jobs:
             --skip_sra_download \
             --skip_eager \
             --skip_outgroup_download \
+            --skip_snippy_multi \
             --outdir test
+          cat test/snippy_pairwise/output10X/*/*.log
 
       - name: artifact sqlite-import
         uses: actions/upload-artifact@v2