CI: Use pathogen-repo-build workflow
#998
Workflow file for this run
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| name: CI | ||
| on: | ||
| push: | ||
| branches: | ||
| - master | ||
| pull_request: | ||
| workflow_dispatch: | ||
| jobs: | ||
| pathogen-ci: | ||
| strategy: | ||
| matrix: | ||
| runtime: [docker, conda] | ||
| permissions: | ||
| id-token: write | ||
| uses: nextstrain/.github/.github/workflows/pathogen-repo-build.yaml | ||
| secrets: inherit | ||
| with: | ||
| runtime: ${{ matrix.runtime }} | ||
| run: | | ||
| nextstrain build \ | ||
| phylogenetic \ | ||
| --configfile profiles/ci/builds.yaml | ||
| artifact-paths: | | ||
| phylogenetic/auspice/ | ||
| phylogenetic/results/ | ||
| phylogenetic/benchmarks/ | ||
| phylogenetic/logs/ | ||
| phylogenetic/.snakemake/log/ | ||
