Update README.md #28
Workflow file for this run
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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: "${{ github.event_name != 'push' || (github.event_name == 'push' && github.repository == 'sanger-tol/curationpretextt') }}" | |
runs-on: ubuntu-latest | |
strategy: | |
matrix: | |
NXF_VER: | |
- "22.10.1" | |
- "latest-everything" | |
steps: | |
- name: Check out pipeline code | |
uses: actions/checkout@v3 | |
- name: Install Nextflow | |
uses: nf-core/setup-nextflow@v1 | |
with: | |
version: "${{ matrix.NXF_VER }}" | |
- name: Download test data | |
# Download A fungal test data set that is full enough to show some real output. | |
run: | | |
curl https://dp24.cog.sanger.ac.uk/TreeValTinyData.tar.gz | tar xzf - | |
- name: Run MAPS_ONLY pipeline with test data | |
# Remember that you can parallelise this by using strategy.matrix | |
run: | | |
nextflow run ${GITHUB_WORKSPACE} -profile test,docker --outdir ./results -entry MAPS_ONLY | |
- name: Run ALL_FILES pipeline with test data | |
# Remember that you can parallelise this by using strategy.matrix | |
run: | | |
nextflow run ${GITHUB_WORKSPACE} -profile test,docker --outdir ./results -entry ALL_FILES |