Np2 #185
Workflow file for this run
This file contains bidirectional Unicode text that may be interpreted or compiled differently than what appears below. To review, open the file in an editor that reveals hidden Unicode characters.
Learn more about bidirectional Unicode characters
name: Planemo | |
on: [push, pull_request] | |
env: | |
GALAXY_BRANCH: release_24.1 | |
defaults: | |
run: | |
shell: bash -l {0} | |
jobs: | |
planemo_test: | |
name: Planemo test | |
runs-on: ubuntu-latest | |
strategy: | |
matrix: | |
chunk: [1, 2, 3] | |
steps: | |
- uses: actions/checkout@v4 | |
- uses: conda-incubator/setup-miniconda@v3 | |
with: | |
miniconda-version: "latest" | |
auto-activate-base: true | |
python-version: "3.12" | |
- name: get samtools | |
run: | | |
conda install -c conda-forge -c bioconda samtools | |
- name: pip install | |
run: | | |
pip install .[actions] | |
- name: planemo | |
run: | | |
./.planemo.sh ${{ matrix.chunk }} ${{ env.GALAXY_BRANCH }} | |
- uses: actions/upload-artifact@v4 | |
with: | |
name: 'Tool test output ${{ matrix.chunk }}' | |
path: upload | |
planemo_combine_outputs: | |
name: Combine chunked test results | |
needs: planemo_test | |
runs-on: ubuntu-latest | |
steps: | |
- uses: actions/download-artifact@v4 | |
with: | |
path: artifacts | |
- name: Combine outputs | |
uses: galaxyproject/planemo-ci-action@v1 | |
id: combine | |
with: | |
mode: combine | |
html-report: true | |
- uses: actions/upload-artifact@v4 | |
with: | |
name: 'All tool test results' | |
path: upload | |
- name: Check outputs | |
uses: galaxyproject/planemo-ci-action@v1 | |
id: check | |
with: | |
mode: check |