Conda lock files #107
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name: Generate conda-lock | |
# When environment.yml is changed | |
on: | |
pull_request: | |
paths: | |
- "**/environment.yml" | |
jobs: | |
gen-matrix: | |
name: generate-matrix | |
runs-on: ubuntu-latest | |
steps: | |
- uses: actions/checkout@a5ac7e51b41094c92402da3b24376905380afc29 # v4 | |
- name: Calculate file differences | |
id: diff | |
uses: tj-actions/changed-files@v44 | |
with: | |
json: true | |
quotepath: false | |
files: | | |
modules/**/environment.yml | |
- name: Debug | |
run: echo ${{ steps.diff.outputs.all_changed_files }} | |
- id: set-matrix | |
run: echo "matrix={\"files\":${{ steps.diff.outputs.all_changed_files }} }" >> "$GITHUB_OUTPUT" | |
outputs: | |
matrix: ${{ steps.set-matrix.outputs.matrix }} | |
lock: | |
if: "${{ fromJson(needs.gen-matrix.outputs.matrix) }}" | |
needs: gen-matrix | |
name: Generate conda-lock file | |
permissions: | |
contents: write | |
runs-on: ubuntu-latest | |
strategy: | |
fail-fast: false | |
matrix: "${{ fromJson(needs.gen-matrix.outputs.matrix) }}" | |
steps: | |
- uses: actions/checkout@a5ac7e51b41094c92402da3b24376905380afc29 # v4 | |
with: | |
ref: ${{ github.event.pull_request.head.ref }} | |
- uses: mamba-org/setup-micromamba@v1 | |
with: | |
environment-name: conda-lock-env | |
create-args: >- | |
python=3.11 | |
conda-lock | |
mamba | |
- name: Get the lock file path | |
uses: actions/github-script@v7 | |
id: lockfile-name | |
with: | |
result-encoding: string | |
script: | | |
return '${{ matrix.files }}'.replace('/environment.yml', '/conda-lock.yml'); | |
- name: Run conda-lock | |
run: | | |
rm --force "${{steps.lockfile-name.outputs.result}}" | |
conda-lock lock $MAMBA --file "${{ matrix.files }}" --kind lock --platform linux-64 --lockfile "${{steps.lockfile-name.outputs.result}}" | |
env: | |
MAMBA: "--mamba" | |
shell: bash -l {0} | |
- name: Commit & push changes | |
id: commit-and-push | |
run: | | |
git config user.email "[email protected]" | |
git config user.name "nf-core-bot" | |
git config push.default upstream | |
git add . | |
git status | |
git commit -m "[automated] autogenerated conda-lock file" | |
git push | |
- name: If no conda-lock update | |
if: steps.commit-and-push.outcome == 'failure' | |
run: | | |
echo "No conda-lock update" | |
# TODO Build containers with Wave |