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updated package config #12

updated package config

updated package config #12

Workflow file for this run

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"