Add spatially variable genes task (#462) #449
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| name: main build | |
| on: | |
| push: | |
| branches: [ 'main' ] | |
| jobs: | |
| # phase 1 | |
| list: | |
| runs-on: ubuntu-latest | |
| outputs: | |
| component_matrix: ${{ steps.set_matrix.outputs.matrix }} | |
| cache_key: ${{ steps.cache.outputs.cache_key }} | |
| steps: | |
| - uses: actions/checkout@v4 | |
| - uses: viash-io/viash-actions/setup@v5 | |
| - name: Remove target folder from .gitignore | |
| run: | | |
| # allow publishing the target folder | |
| sed -i 's#^/target/$##g' .gitignore | |
| - uses: viash-io/viash-actions/ns-build@v5 | |
| with: | |
| config_mod: .functionality.version := 'main_build' | |
| parallel: true | |
| # - name: Build nextflow schemas | |
| # uses: viash-io/viash-actions/pro/build-nextflow-schemas@v4 | |
| # with: | |
| # workflows: src | |
| # components: src | |
| # viash_pro_token: ${{ secrets.GTHB_PAT }} | |
| # tools_version: 'main_build' | |
| # - name: Build parameter files | |
| # uses: viash-io/viash-actions/pro/build-nextflow-params@v4 | |
| # with: | |
| # workflows: src | |
| # components: src | |
| # viash_pro_token: ${{ secrets.GTHB_PAT }} | |
| # tools_version: 'main_build' | |
| - name: Deploy to target branch | |
| uses: peaceiris/actions-gh-pages@v4 | |
| with: | |
| github_token: ${{ secrets.GITHUB_TOKEN }} | |
| publish_dir: . | |
| publish_branch: main_build | |
| - id: ns_list | |
| uses: viash-io/viash-actions/ns-list@v5 | |
| with: | |
| platform: docker | |
| src: src | |
| format: json | |
| - id: set_matrix | |
| run: | | |
| echo "matrix=$(jq -c '[ .[] | | |
| { | |
| "name": (.functionality.namespace + "/" + .functionality.name), | |
| "dir": .info.config | capture("^(?<dir>.*\/)").dir | |
| } | |
| ]' ${{ steps.ns_list.outputs.output_file }} )" >> $GITHUB_OUTPUT | |
| # phase 2 | |
| build: | |
| needs: list | |
| runs-on: ubuntu-latest | |
| strategy: | |
| fail-fast: false | |
| matrix: | |
| component: ${{ fromJson(needs.list.outputs.component_matrix) }} | |
| steps: | |
| # Remove unnecessary files to free up space. Otherwise, we get 'no space left on device.' | |
| - uses: data-intuitive/reclaim-the-bytes@v2 | |
| - uses: actions/checkout@v4 | |
| - uses: viash-io/viash-actions/setup@v5 | |
| - name: Build container | |
| uses: viash-io/viash-actions/ns-build@v5 | |
| with: | |
| config_mod: .functionality.version := 'main_build' | |
| platform: docker | |
| src: ${{ matrix.component.dir }} | |
| setup: build | |
| - name: Login to container registry | |
| uses: docker/login-action@v3 | |
| with: | |
| registry: ghcr.io | |
| username: ${{ secrets.GTHB_USER }} | |
| password: ${{ secrets.GTHB_PAT }} | |
| - name: Push container | |
| uses: viash-io/viash-actions/ns-build@v5 | |
| with: | |
| config_mod: .functionality.version := 'main_build' | |
| platform: docker | |
| src: ${{ matrix.component.dir }} | |
| setup: push |