updated test workflow settings

hivlab · Dec 11, 2020 · f7f4c06 · f7f4c06
1 parent 52c77c4
commit f7f4c06
Showing 1 changed file with 2 additions and 3 deletions.
diff --git a/.github/workflows/main.yml b/.github/workflows/main.yml
@@ -18,18 +18,17 @@ jobs:
         with:
           auto-update-conda: true
           python-version: ${{ matrix.python-version }}
-          channels: conda-forge, bioconda
       - run: |
           conda --version
           which python
       - name: Setup Snakemake environment
         run: |
           export PATH="/usr/share/miniconda/bin:$PATH"
           conda install -c conda-forge -q mamba
-          mamba create -c conda-forge -c bioconda -n snakemake snakemake
+          mamba create -y -q -c conda-forge -c bioconda -n snakemake snakemake
       - name: Run workflow
         run: |
           export PATH="/usr/share/miniconda/bin:$PATH"
           eval "$(conda shell.bash hook)"
           conda activate snakemake
-          snakemake --use-conda --resources mem_mb=4000 -d test -j
+          snakemake --use-conda --resources mem_mb=4000 -d .tests/integration -j