OA now correctly takes into account whether you want the gene list be… #155
Workflow file for this run
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| name: Welcome_To_Shiny_Testing | |
| on: | |
| pull_request: | |
| branches: | |
| - main | |
| - first_test | |
| - develop | |
| jobs: | |
| run-tests: | |
| runs-on: ${{ matrix.config.os }} | |
| strategy: | |
| fail-fast: false | |
| matrix: | |
| config: | |
| - {os: ubuntu-20.04, r: '4.2.0', rspm: "https://packagemanager.rstudio.com/cran/__linux__/bionic/latest"} | |
| env: | |
| RENV_PATHS_ROOT: ~/.local/share/renv | |
| steps: | |
| - name: Checkout respective branch | |
| uses: actions/checkout@v2 | |
| - name: SetUp R | |
| uses: r-lib/actions/setup-r@v2 | |
| id: install-r | |
| with: | |
| r-version: ${{ matrix.config.r }} | |
| http-user-agent: ${{ matrix.config.http-user-agent }} | |
| use-public-rspm: true | |
| - name: Set RENV_PATHS_ROOT | |
| shell: bash | |
| run: | | |
| echo "RENV_PATHS_ROOT=${{ runner.temp }}/renv" >> $GITHUB_ENV | |
| # - name: SetUp R | |
| # - uses: r-lib/actions/setup-r-dependencies@v2 | |
| # with: | |
| # packages: XML | |
| - name: Install system dependencies | |
| if: runner.os == 'Linux' | |
| run: | | |
| sudo apt-get update -y | |
| sudo apt-get install -y libglpk-dev | |
| - name: Cache packages | |
| uses: actions/cache@v2 | |
| with: | |
| path: ${{ env.RENV_PATHS_ROOT }} | |
| key: ${{ runner.os }}-renv-${{ hashFiles('**/program/renv.lock') }} | |
| restore-keys: | | |
| ${{ runner.os }}-renv- | |
| - name: Install and activate renv | |
| shell: Rscript {0} | |
| run: | | |
| install.packages("renv") | |
| renv::restore(lockfile="program/renv.lock") | |
| - name: Test - Significance Panel | |
| shell: Rscript {0} | |
| run: | | |
| shiny::runTests("program/shinyApp", assert = TRUE, filter='testthat_sig') | |
| - name: Upload test results | |
| if: failure() | |
| uses: actions/upload-artifact@master | |
| with: | |
| name: ${{ runner.os }}-r${{ matrix.config.r }}-tests | |
| path: tests | |
| run-tests2: | |
| runs-on: ${{ matrix.config.os }} | |
| strategy: | |
| fail-fast: false | |
| matrix: | |
| config: | |
| - {os: ubuntu-20.04, r: '4.2.0', rspm: "https://packagemanager.rstudio.com/cran/__linux__/bionic/latest"} | |
| env: | |
| RENV_PATHS_ROOT: ~/.local/share/renv | |
| steps: | |
| - name: Checkout respective branch | |
| uses: actions/checkout@v2 | |
| - name: SetUp R | |
| uses: r-lib/actions/setup-r@v2 | |
| id: install-r | |
| with: | |
| r-version: ${{ matrix.config.r }} | |
| http-user-agent: ${{ matrix.config.http-user-agent }} | |
| use-public-rspm: true | |
| - name: Set RENV_PATHS_ROOT | |
| shell: bash | |
| run: | | |
| echo "RENV_PATHS_ROOT=${{ runner.temp }}/renv" >> $GITHUB_ENV | |
| # - name: SetUp R | |
| # - uses: r-lib/actions/setup-r-dependencies@v2 | |
| # with: | |
| # packages: XML | |
| - name: Install system dependencies | |
| if: runner.os == 'Linux' | |
| run: | | |
| sudo apt-get update -y | |
| sudo apt-get install -y libglpk-dev | |
| - name: Cache packages | |
| uses: actions/cache@v2 | |
| with: | |
| path: ${{ env.RENV_PATHS_ROOT }} | |
| key: ${{ runner.os }}-renv-${{ hashFiles('**/program/renv.lock') }} | |
| restore-keys: | | |
| ${{ runner.os }}-renv- | |
| - name: Install and activate renv | |
| shell: Rscript {0} | |
| run: | | |
| install.packages("renv") | |
| renv::restore(lockfile="program/renv.lock") | |
| - name: Test - Significance Panel | |
| shell: Rscript {0} | |
| run: | | |
| shiny::runTests("program/shinyApp", assert = TRUE, filter='testthat_sig') | |
| - name: Test - Enrichment Analysis Panel | |
| shell: Rscript {0} | |
| run: | | |
| shiny::runTests("program/shinyApp", assert = TRUE, filter='testthat_enrich') | |
| - name: Upload test results | |
| if: failure() | |
| uses: actions/upload-artifact@master | |
| with: | |
| name: ${{ runner.os }}-r${{ matrix.config.r }}-tests | |
| path: tests |