Update root IDs using CAVE tables and joining up supervoxel IDs #83
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| # Workflow derived from https://github.com/r-lib/actions/tree/v2/examples | |
| # Need help debugging build failures? Start at https://github.com/r-lib/actions#where-to-find-help | |
| on: | |
| push: | |
| branches: [main, master] | |
| pull_request: | |
| branches: [main, master] | |
| release: | |
| types: [published] | |
| workflow_dispatch: | |
| name: pkgdown | |
| permissions: read-all | |
| jobs: | |
| pkgdown: | |
| runs-on: ubuntu-latest | |
| # Only restrict concurrency for non-PR jobs | |
| concurrency: | |
| group: pkgdown-${{ github.event_name != 'pull_request' || github.run_id }} | |
| env: | |
| GITHUB_PAT: ${{ secrets.GITHUB_TOKEN }} | |
| CHUNKEDGRAPH_SECRET: ${{ secrets.CHUNKEDGRAPH_SECRET }} | |
| CODECOV_TOKEN: ${{ secrets.CODECOV_TOKEN }} | |
| FLYTABLE_TOKEN: ${{ secrets.FLYTABLE_TOKEN }} | |
| RETICULATE_MINICONDA_PYTHON_VERSION: 3.8 | |
| RGL_USE_NULL: TRUE | |
| permissions: | |
| contents: write | |
| steps: | |
| - uses: actions/checkout@v4 | |
| - uses: r-lib/actions/setup-pandoc@v2 | |
| - uses: r-lib/actions/setup-r@v2 | |
| with: | |
| use-public-rspm: true | |
| - uses: r-lib/actions/setup-r-dependencies@v2 | |
| with: | |
| extra-packages: any::pkgdown, local::., catmaid=natverse/rcatmaid | |
| needs: website | |
| - name: Install fafbseg + python | |
| run: | | |
| pak::local_install() | |
| library(fafbseg) | |
| simple_python() | |
| dr_fafbseg() | |
| shell: Rscript {0} | |
| - name: writetoken | |
| run: fafbseg::flywire_set_token(token=Sys.getenv("CHUNKEDGRAPH_SECRET")) | |
| shell: Rscript {0} | |
| - name: Build site | |
| run: pkgdown::build_site_github_pages(new_process = FALSE, install = FALSE) | |
| shell: Rscript {0} | |
| - name: Deploy to GitHub pages 🚀 | |
| if: github.event_name != 'pull_request' | |
| uses: JamesIves/[email protected] | |
| with: | |
| clean: false | |
| branch: gh-pages | |
| folder: docs |