You cannot select more than 25 topics
Topics must start with a letter or number, can include dashes ('-') and can be up to 35 characters long.
44 lines
1.3 KiB
YAML
44 lines
1.3 KiB
YAML
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: "${{ github.event_name != 'push' || (github.event_name == 'push' && github.repository == 'nf-core/taxprofiler') }}"
|
|
runs-on: ubuntu-latest
|
|
strategy:
|
|
matrix:
|
|
NXF_VER:
|
|
- "22.10.1"
|
|
- "latest-everything"
|
|
steps:
|
|
- name: Check out pipeline code
|
|
uses: actions/checkout@v3
|
|
|
|
- name: Install Nextflow
|
|
uses: nf-core/setup-nextflow@v1
|
|
with:
|
|
version: "${{ matrix.NXF_VER }}"
|
|
|
|
- name: Run pipeline with test data
|
|
# TODO nf-core: You can customise CI pipeline run tests as required
|
|
# For example: adding multiple test runs with different parameters
|
|
# Remember that you can parallelise this by using strategy.matrix
|
|
run: |
|
|
nextflow run ${GITHUB_WORKSPACE} -profile test,docker --outdir ./results
|