updated package config #12
Workflow file for this run
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name: Test | |
on: | |
push: | |
branches: [ main ] | |
pull_request: | |
jobs: | |
# phase 1 | |
list: | |
name: List components to test | |
runs-on: ubuntu-latest | |
outputs: | |
matrix: ${{ steps.ns_list_filter_nextflow.outputs.output_matrix }} | |
cache_key: ${{ steps.cache.outputs.cache_key }} | |
dest_paths: ${{ steps.cache.outputs.dest_paths }} | |
steps: | |
- uses: actions/checkout@v4 | |
with: | |
fetch-depth: 0 | |
submodules: 'recursive' | |
- uses: viash-io/viash-actions/setup@v6 | |
- uses: viash-io/viash-actions/project/sync-and-cache@v6 | |
id: cache | |
- id: ns_list | |
uses: viash-io/viash-actions/ns-list@v6 | |
with: | |
format: json | |
runner: executable | |
- id: ns_list_filter_changed | |
uses: viash-io/viash-actions/project/detect-changed-components@v6 | |
with: | |
input_file: "${{ steps.ns_list.outputs.output_file }}" | |
- name: Filter out Nextflow scripts (testing currently not supported) | |
id: ns_list_filter_nextflow | |
run: | | |
OUTPUT_MATRIX=$(echo '${{ steps.ns_list_filter_changed.outputs.output_matrix }}' | jq -c 'map(select(.main_script_type != "nextflow_script"))') | |
echo "output_matrix=$OUTPUT_MATRIX" >> $GITHUB_OUTPUT | |
# phase 2 | |
test: | |
name: Test | |
needs: list | |
if: ${{ needs.list.outputs.matrix != '[]' && needs.list.outputs.matrix != '' }} | |
runs-on: ubuntu-latest | |
strategy: | |
fail-fast: false | |
matrix: | |
component: ${{ fromJson(needs.list.outputs.matrix) }} | |
steps: | |
# Remove unnecessary files to free up space. Otherwise, we get 'no space left on device.' | |
- name: Clear space | |
uses: data-intuitive/reclaim-the-bytes@v2 | |
- name: Check out repository | |
uses: actions/checkout@v4 | |
with: | |
submodules: 'recursive' | |
fetch-depth: 0 | |
- name: Install Viash | |
uses: viash-io/viash-actions/setup@v6 | |
# use cache | |
- name: Cache resources data | |
if: ${{ needs.list.outputs.cache_key != '' }} | |
uses: actions/cache/restore@v4 | |
timeout-minutes: 10 | |
with: | |
path: ${{ needs.list.outputs.dest_paths }} | |
key: ${{ needs.list.outputs.cache_key }} | |
- name: Run test | |
timeout-minutes: 30 | |
env: | |
VIASH_TEMP: "${{ runner.temp }}/viash_test_temp" | |
run: | | |
viash test \ | |
"${{ matrix.component.config }}" \ | |
--cpus 2 \ | |
--memory "16gb" |