Merge pull request #120 from BodenmillerGroup/spatialCoords_adjustment #186
This file contains bidirectional Unicode text that may be interpreted or compiled differently than what appears below. To review, open the file in an editor that reveals hidden Unicode characters.
Learn more about bidirectional Unicode characters
| name: build-checks-release | |
| on: | |
| push: | |
| branches: [ devel ] | |
| pull_request: | |
| branches: | |
| - devel | |
| jobs: | |
| R-CMD-check: | |
| runs-on: ubuntu-latest | |
| container: rocker/r-ver:4.3 | |
| steps: | |
| - uses: actions/checkout@v2 | |
| - name: Query dependencies | |
| run: | | |
| install.packages('remotes') | |
| saveRDS(remotes::dev_package_deps(dependencies = TRUE), ".github/depends.Rds", version = 2) | |
| shell: Rscript {0} | |
| - name: Install system requirements | |
| run: | | |
| apt-get update | |
| apt-get install -y --no-install-recommends apt-utils | |
| apt-get install -y --no-install-recommends zlib1g-dev libfftw3-dev libxml2-dev libxt-dev curl libglpk-dev libcairo2-dev libmagick++-dev libcurl4-gnutls-dev libudunits2-dev libproj-dev pandoc pandoc-citeproc libgdal-dev libnode-dev | |
| apt-get clean | |
| rm -rf /var/lib/apt/ilists/* | |
| - name: Install dependencies | |
| run: | | |
| install.packages("BiocManager") | |
| remotes::install_deps(dependencies = TRUE, repos = BiocManager::repositories(), Ncpu = 2L) | |
| shell: Rscript {0} | |
| - name: Check | |
| run: | | |
| install.packages("rcmdcheck") | |
| rcmdcheck::rcmdcheck(args = "--no-manual", error_on = "error") | |
| shell: Rscript {0} | |
| - name: BiocCheck | |
| run: | | |
| BiocManager::install("BiocCheck") | |
| BiocCheck::BiocCheck(".") | |
| shell: Rscript {0} | |
| - name: Test coverage | |
| run: | | |
| remotes::install_cran(c("covr")) | |
| covr::codecov() | |
| shell: Rscript {0} | |
| - name: Session info | |
| run: | | |
| options(width = 100) | |
| pkgs <- installed.packages()[, "Package"] | |
| sessioninfo::session_info(pkgs, include_base = TRUE) | |
| shell: Rscript {0} |