name: Configs tests on: [pull_request, push] jobs: test_all_profiles: runs-on: ubuntu-latest name: Check if all profiles are tested steps: - uses: actions/checkout@v1 - name: Check whether profiles are all tested run: | python ${GITHUB_WORKSPACE}/bin/cchecker.py ${GITHUB_WORKSPACE}/nfcore_custom.config ${GITHUB_WORKSPACE}/.github/workflows/main.yml profile_test: runs-on: ubuntu-latest name: Run ${{ matrix.profile }} profile needs: test_all_profiles strategy: matrix: profile: - 'abims' - 'aws_tower' - 'awsbatch' - 'bi' - 'bigpurple' - 'binac' - 'biohpc_gen' - 'cambridge' - 'cbe' - 'ccga_dx' - 'ccga_med' - 'cfc' - 'cfc_dev' - 'computerome' - 'crick' - 'denbi_qbic' - 'ebc' - 'eddie' - 'eva' - 'genotoul' - 'genouest' - 'gis' - 'google' - 'hebbe' - 'icr_davros' - 'ifb_core' - 'imperial' - 'imperial_mb' - 'jax' - 'lugh' - 'mpcdf' - 'munin' - 'nu_genomics' - 'oist' - 'pasteur' - 'pasteurNorm' - 'pasteurLong' - 'phoenix' - 'prince' - 'sanger' - 'seg_globe' - 'uct_hpc' - 'uppmax' - 'utd_ganymede' - 'utd_sysbio' - 'uzh' steps: - uses: actions/checkout@v1 - name: Install Nextflow run: | wget -qO- get.nextflow.io | bash sudo mv nextflow /usr/local/bin/ - name: Check ${{ matrix.profile }} profile env: SCRATCH: '~' NXF_GLOBAL_CONFIG: awsbatch.config run: nextflow run ${GITHUB_WORKSPACE}/configtest.nf --custom_config_base=${GITHUB_WORKSPACE} -profile ${{ matrix.profile }}