first attempts at writing the serializers for the new types PhylogeneticModel and GroupBasedPhylogeneticModel #2735
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| name: Run CI without experimental | |
| on: | |
| push: | |
| branches: | |
| - master | |
| - 'release-*' | |
| pull_request: | |
| workflow_dispatch: | |
| # needed to allow julia-actions/cache to delete old caches that it has created | |
| permissions: | |
| actions: write | |
| contents: read | |
| concurrency: | |
| # group by workflow and ref; the last slightly strange component ensures that for pull | |
| # requests, we limit to 1 concurrent job, but for the master branch we don't | |
| group: ${{ github.workflow }}-${{ github.ref }}-${{ github.ref != 'refs/heads/master' || github.run_number }} | |
| # Cancel intermediate builds, but only if it is a pull request build. | |
| cancel-in-progress: ${{ startsWith(github.ref, 'refs/pull/') }} | |
| # For local testing, run `ln -s NoExperimental_whitelist_.jl experimental/NoExperimental_whitelist.jl` to initialize | |
| # and `rm experimental/NoExperimental_whitelist.jl` for cleanup | |
| jobs: | |
| test: | |
| runs-on: ubuntu-latest | |
| timeout-minutes: 150 | |
| strategy: | |
| fail-fast: false | |
| matrix: | |
| group: [ 'short', 'long' ] | |
| steps: | |
| - uses: actions/checkout@v4 | |
| - name: "Set up Julia" | |
| uses: julia-actions/setup-julia@v2 | |
| with: | |
| version: '1.10' | |
| - uses: julia-actions/cache@v2 | |
| with: | |
| cache-name: julia-cache;workflow=${{ github.workflow }};julia=1.10;arch=${{ runner.arch }} | |
| include-matrix: false | |
| - name: "Symlink NoExperimental_whitelist.jl" | |
| run: ln -s NoExperimental_whitelist_.jl experimental/NoExperimental_whitelist.jl | |
| - name: "Set test subgroup" | |
| if: ${{ matrix.group }} != '' | |
| run: echo "OSCAR_TEST_SUBSET=${{matrix.group}}" >> $GITHUB_ENV | |
| - name: "Build package" | |
| uses: julia-actions/julia-buildpkg@v1 | |
| - name: "Run tests" | |
| uses: julia-actions/julia-runtest@latest | |
| doctest: | |
| runs-on: ubuntu-latest | |
| timeout-minutes: 150 | |
| steps: | |
| - uses: actions/checkout@v4 | |
| - name: "Set up Julia" | |
| uses: julia-actions/setup-julia@v2 | |
| with: | |
| version: '1.10' | |
| - uses: julia-actions/cache@v2 | |
| with: | |
| cache-name: julia-cache;workflow=${{ github.workflow }};julia=1.10;arch=${{ runner.arch }} | |
| include-matrix: false | |
| - name: "Symlink NoExperimental_whitelist.jl" | |
| run: ln -s NoExperimental_whitelist_.jl experimental/NoExperimental_whitelist.jl | |
| - name: "Build package" | |
| uses: julia-actions/julia-buildpkg@v1 | |
| - name: "Setup package" | |
| run: | | |
| julia --project=docs --color=yes -e ' | |
| using Pkg | |
| Pkg.develop(PackageSpec(path=pwd())) | |
| Pkg.instantiate()' | |
| - name: "Run doctests" | |
| run: | | |
| julia \ | |
| --project=docs --color=yes -e' | |
| using Documenter | |
| include("docs/documenter_helpers.jl") | |
| using Oscar | |
| DocMeta.setdocmeta!(Oscar, :DocTestSetup, Oscar.doctestsetup(); recursive = true) | |
| doctest(Oscar)' | |
| docs: | |
| runs-on: ubuntu-latest | |
| steps: | |
| - uses: actions/checkout@v4 | |
| - uses: julia-actions/setup-julia@latest | |
| with: | |
| version: '1.10' | |
| - name: "Symlink NoExperimental_whitelist.jl" | |
| run: ln -s NoExperimental_whitelist_.jl experimental/NoExperimental_whitelist.jl | |
| - name: Build package | |
| uses: julia-actions/julia-buildpkg@v1 | |
| - name: Install dependencies | |
| run: julia --project=. --color=yes -e 'using Oscar; Oscar.doc_init(; path="docs/")' | |
| - name: Build | |
| run: julia --project=docs/ --color=yes docs/make.jl |