Changes for oneMKL 2025.0 #11
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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 | |
| jobs: | |
| pkgdown: | |
| runs-on: ubuntu-latest | |
| container: | |
| image: fedora:latest | |
| steps: | |
| - uses: actions/checkout@v1 | |
| - name: Configure Environment | |
| run: | | |
| sudo dnf install wget git 'dnf-command(copr)' -y | |
| dnf copr enable iucar/cran -y | |
| tee > /tmp/oneAPI.repo << EOF | |
| [oneAPI] | |
| name=Intel® oneAPI repository | |
| baseurl=https://yum.repos.intel.com/oneapi | |
| enabled=1 | |
| gpgcheck=0 | |
| repo_gpgcheck=0 | |
| gpgkey=https://yum.repos.intel.com/intel-gpg-keys/GPG-PUB-KEY-INTEL-SW-PRODUCTS.PUB | |
| EOF | |
| sudo mv /tmp/oneAPI.repo /etc/yum.repos.d | |
| # Install the latest oneMKL (version 2024.1) | |
| sudo dnf update -y | |
| sudo dnf install pandoc ghostscript intel-oneapi-mkl R R-flexiblas flexiblas-* R-CoprManager make automake gcc rsync -y | |
| sudo dnf install R-CRAN-devtools R-CRAN-checkmate R-CRAN-RcppEigen R-CRAN-fastmatch R-CRAN-tidyverse R-CRAN-pkgdown R-CRAN-data.table R-CRAN-igraph R-CRAN-knitr R-CRAN-magrittr R-CRAN-markdown R-CRAN-testthat R-CRAN-ggthemes R-CRAN-pROC R-CRAN-pbapply R-CRAN-patchwork R-CRAN-memuse R-CRAN-pryr -y | |
| # Install other packages | |
| Rscript -e "install.packages(c('matrixStats', 'RcppProgress', 'rpca', 'BiocManager'), repo = 'https://cloud.r-project.org/')" | |
| Rscript -e "BiocManager::install('sparseMatrixStats', ask = FALSE, update = TRUE)" | |
| # Clone `diffusr` package | |
| git clone https://github.com/randef1ned/diffusr.git | |
| R CMD INSTALL diffusr | |
| - name: Build site | |
| run: | | |
| devtools::document() | |
| devtools::load_all() | |
| pkgdown::build_site_github_pages(new_process = FALSE, install = TRUE) | |
| pkgdown::build_reference(topics = 'random_walk') | |
| 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 |