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Fix search pattern (#103) #98

Fix search pattern (#103)

Fix search pattern (#103) #98

Workflow file for this run

on:
push:
branches:
- "master"
pull_request:
branches:
- "*"
name: vignette
jobs:
vignette:
defaults:
run:
shell: bash -l {0}
strategy:
matrix:
config:
- { os: macos-latest }
runs-on: ${{ matrix.config.os }}
env:
GITHUB_PAT: ${{ secrets.GITHUB_TOKEN }}
steps:
- uses: actions/checkout@v3
- uses: r-lib/actions/setup-r@v2
id: install-r
- uses: r-lib/actions/setup-pandoc@v2
- id: bioc
name: Check bioc version
run: |
echo "##[set-output name=mainbiocversion;]$(Rscript -e 'cat(unlist(tools:::.BioC_version_associated_with_R_version()))' | awk '{print $1}')"
echo "##[set-output name=subbiocversion;]$(Rscript -e 'cat(unlist(tools:::.BioC_version_associated_with_R_version()))' | awk '{print $2}')"
echo "##[set-output name=biocversion;]$(Rscript -e 'cat(as.character(tools:::.BioC_version_associated_with_R_version()))' | awk '{print $1}')"
shell: bash -l {0}
- name: Install pak and query dependencies
run: |
install.packages("pak", repos = "https://r-lib.github.io/p/pak/dev/")
saveRDS(pak::pkg_deps("local::.", dependencies = TRUE), ".github/r-depends.rds")
shell: Rscript {0}
- name: Cache R packages
uses: actions/cache@v2
with:
path: |
${{ env.R_LIBS_USER }}
!${{ env.R_LIBS_USER }}/pak
key: ${{ env.cache-version }}-${{ matrix.config.os }}-biocversion-RELEASE_${{ steps.bioc.outputs.mainbiocversion}}_${{ steps.bioc.outputs.subbiocversion}}-r-${{ matrix.config.r-version}}-${{ hashFiles('.github/depends.Rds') }}
restore-keys: ${{ env.cache-version }}-${{ matrix.config.os }}-biocversion-RELEASE_${{ steps.bioc.outputs.mainbiocversion}}_${{ steps.bioc.outputs.subbiocversion}}-r-${{ matrix.config.r-version}}-
- name: Install dependencies
run: |
pak::local_install_dev_deps(upgrade = TRUE, dependencies = c("all", "Config/Needs/website"))
pak::pkg_install("pkgdown")
shell: Rscript {0}
- name: Install package
run: R CMD INSTALL .
- name: Build and deploy pkgdown site
run: |
git config --local user.name "$GITHUB_ACTOR"
git config --local user.email "[email protected]"
Rscript -e 'pkgdown::deploy_to_branch(new_process = FALSE)'
shell: bash -l {0}