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