Added pfr/modules key #41
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name: nf-core CI | |
# This workflow runs the pipeline with the minimal test dataset to check that it completes without any syntax errors | |
on: | |
push: | |
branches: | |
- dev | |
pull_request: | |
release: | |
types: [published] | |
env: | |
NXF_ANSI_LOG: false | |
concurrency: | |
group: "${{ github.workflow }}-${{ github.event.pull_request.number || github.ref }}" | |
cancel-in-progress: true | |
jobs: | |
test: | |
name: Run pipeline with test data | |
# Only run on push if this is the nf-core dev branch (merged PRs) | |
if: "${{ github.event_name != 'push' || (github.event_name == 'push' && github.repository == 'plant-food-research-open/assemblyqc') }}" | |
runs-on: ubuntu-latest | |
strategy: | |
matrix: | |
NXF_VER: | |
- "23.04.0" | |
RUN_CONFIG: | |
- "-profile test,docker" | |
- "-profile docker -c ./tests/stub/stub.config -stub" | |
- "-profile docker -params-file ./tests/invalid/params.json" | |
steps: | |
- name: Check out pipeline code | |
uses: actions/checkout@b4ffde65f46336ab88eb53be808477a3936bae11 # v4 | |
- name: Install Nextflow | |
uses: nf-core/setup-nextflow@v2 | |
with: | |
version: ${{ matrix.NXF_VER }} | |
- name: Disk space cleanup | |
uses: jlumbroso/free-disk-space@54081f138730dfa15788a46383842cd2f914a1be # v1.3.1 | |
- name: Disk space cleanup | |
uses: jlumbroso/free-disk-space@54081f138730dfa15788a46383842cd2f914a1be # v1.3.1 | |
- name: Run pipeline with test data | |
run: | | |
nextflow run ${GITHUB_WORKSPACE} --outdir ./results ${{ matrix.RUN_CONFIG }} |