Fix memeversion assignment error #9
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| name: rworkflows | |
| 'on': | |
| push: | |
| branches: | |
| - master | |
| - main | |
| - devel | |
| - RELEASE_** | |
| pull_request: | |
| branches: | |
| - master | |
| - main | |
| - devel | |
| - RELEASE_** | |
| jobs: | |
| rworkflows: | |
| permissions: write-all | |
| runs-on: ${{ matrix.config.os }} | |
| name: ${{ matrix.config.os }} (${{ matrix.config.r }}) | |
| container: ${{ matrix.config.cont }} | |
| strategy: | |
| fail-fast: ${{ false }} | |
| matrix: | |
| config: | |
| - os: ubuntu-latest | |
| bioc: devel | |
| r: auto | |
| cont: ghcr.io/bioconductor/bioconductor_docker:devel | |
| rspm: https://packagemanager.rstudio.com/cran/__linux__/focal/release | |
| - os: macOS-latest | |
| bioc: release | |
| r: auto | |
| - os: windows-latest | |
| bioc: release | |
| r: auto | |
| steps: | |
| - name: Install MEME suite | |
| run: | | |
| memeversion=5.5.5 | |
| wget http://meme-suite.org/meme-software/$version/meme-$memeversion.tar.gz | |
| tar zxf meme-$memeversion.tar.gz | |
| cd meme-$memeversion | |
| ./configure --prefix=$HOME/meme --with-url=http://meme-suite.org/ --enable-build-libxml2 --enable-build-libxslt | |
| make | |
| make test | |
| make install | |
| - name: Set MEME_BIN environment variable | |
| run: echo "MEME_BIN=$HOME/meme/bin" >> $GITHUB_ENV | |
| - name: Check for ame in MEME suite bin | |
| run: | | |
| if [ ! -f "$HOME/meme/bin/ame" ]; then | |
| echo "ame executable not found in $HOME/meme/bin" | |
| exit 1 | |
| fi | |
| echo "MEME suite (version $memeversion) successfully installed." | |
| echo "MEME suite bin path: $MEME_BIN" | |
| - uses: neurogenomics/rworkflows@master | |
| with: | |
| run_bioccheck: ${{ true }} | |
| run_rcmdcheck: ${{ true }} | |
| as_cran: ${{ true }} | |
| run_vignettes: ${{ true }} | |
| has_testthat: ${{ true }} | |
| run_covr: ${{ true }} | |
| run_pkgdown: ${{ true }} | |
| has_runit: ${{ false }} | |
| has_latex: ${{ false }} | |
| GITHUB_TOKEN: ${{ secrets.GITHUB_TOKEN }} | |
| DOCKER_TOKEN: ${{ secrets.DOCKER_TOKEN }} | |
| docker_user: hdasht | |
| docker_org: neurogenomicslab | |
| run_docker: ${{ true }} |