Implement Python-based CLI #1
Workflow file for this run
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name: build | |
on: | |
push: | |
branches: | |
- main | |
- develop | |
pull_request: | |
branches: | |
- main | |
- develop | |
jobs: | |
build: | |
runs-on: ubuntu-latest | |
strategy: | |
matrix: | |
python-version: ["3.9"] | |
steps: | |
- uses: actions/checkout@v3 | |
- name: Set up Python ${{ matrix.python-version }} | |
uses: actions/setup-python@v4 | |
with: | |
python-version: ${{ matrix.python-version }} | |
cache: "pip" | |
- name: Install nextflow | |
uses: nf-core/setup-nextflow@v1 | |
- name: Install dependencies | |
run: | | |
python -m pip install --upgrade pip setuptools | |
pip install .[dev,test] | |
python -c 'from logan.src.util import chmod_bins_exec; chmod_bins_exec()' | |
- name: Test stub run | |
run: | | |
mkdir tmp && cd tmp | |
which logan | |
logan init | |
logan run -profile ci_stub,docker -stub |