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fix: add drmaa

fix: add drmaa #180

name: Snakemake dry run
# Controls when the action will run.
on:
# Triggers the workflow on push or pull request events but only for the master and develop branch
push:
branches:
- develop
- master
pull_request:
branches:
- develop
- master
# Allows you to run this workflow manually from the Actions tab
workflow_dispatch:
jobs:
snakemake-dry-run:
name: Run snakemake dry run
runs-on: ubuntu-latest
steps:
- uses: actions/checkout@v2
- name: Set up Python 3.8
uses: actions/setup-python@v2
with:
python-version: 3.8
- name: Setup Mambaforge
uses: conda-incubator/setup-miniconda@v2
with:
miniforge-variant: Mambaforge
miniforge-version: latest
activate-environment: my-env
use-mamba: true
- name: Add conda to system path
run: |
echo $CONDA/bin >> $GITHUB_PATH
- name: Install requirements.txt
run: |
pip install -r requirements.txt
- name: Install requirements.test.txt
run: |
pip install -r requirements.test.txt
- name: snakemake dry run
working-directory: .tests/integration
run: |
mamba install -c conda-forge -c bioconda snakemake singularity
snakemake -n -s ../../workflow/Snakefile --configfile config/config.yaml