test #19
Workflow file for this run
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| on: | |
| push: | |
| workflow_dispatch: | |
| name: OSX and Conda | |
| env: | |
| GITHUB_PAT: ${{ secrets.GITHUB_TOKEN }} | |
| R_REMOTES_NO_ERRORS_FROM_WARNINGS: true | |
| jobs: | |
| test-pkg: | |
| runs-on: macOS-14 | |
| name: testing conda | |
| steps: | |
| - uses: actions/checkout@v4 | |
| - uses: conda-incubator/setup-miniconda@v3 | |
| with: | |
| use-mamba: true | |
| miniconda-version: "latest" | |
| channels: conda-forge,defaults,bioconda | |
| channel-priority: true | |
| activate-environment: foo | |
| architecture: arm64 | |
| - name: System details | |
| shell: bash -el {0} | |
| run: | | |
| echo ${host_alias} | |
| echo ${build_alias} | |
| - name: Testing scripts | |
| shell: bash -el {0} | |
| run: | | |
| wget -O config.sub https://git.savannah.gnu.org/cgit/config.git/plain/config.sub | |
| wget -O config.guess https://git.savannah.gnu.org/cgit/config.git/plain/config.guess | |
| bash ./config.guess | |
| bash ./config.sub $(bash ./config.guess) | |
| working-directory: ${{ runner.temp }} | |
| - name: Bash | |
| shell: bash -el {0} | |
| run: | | |
| conda install -c r r-biocmanager | |
| - name: Testing scripts | |
| shell: bash -el {0} | |
| run: | | |
| bash ./config.guess | |
| bash ./config.sub $(bash ./config.guess) | |
| working-directory: ${{ runner.temp }} | |
| - name: Install Rhdf5lib from source | |
| shell: bash -el {0} | |
| run: | | |
| R -e 'BiocManager::install("Rhdf5lib", lib = tempdir())' | |
| - name: Install Rhdf5lib from source | |
| shell: bash -el {0} | |
| run: | | |
| unset host_alias | |
| unset build_alias | |
| R -e 'BiocManager::install("Rhdf5lib", lib = tempdir())' | |