2019-11-25 23:52:39 +00:00
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name: Configs tests
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2019-11-25 23:25:49 +00:00
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jobs:
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2019-11-25 23:34:55 +00:00
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profile_test:
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runs-on: ubuntu-latest
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2019-11-25 23:25:49 +00:00
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name: Run individual profiles
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strategy:
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matrix:
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2019-11-25 23:59:09 +00:00
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profile: ['awsbatch', 'bigpurple', 'binac', 'cbe', 'ccga_dx', 'ccga', 'cfc', 'crick', 'czbiohub_aws_highpriority', 'czbiohub_aws', 'denbi_qbic', 'genouest', 'gis', 'hebbe', 'kraken', 'munin', 'pasteur', 'phoenix', 'prince', 'shh', 'uct_hex', 'uppmax_devel', 'uppmax', 'uzh']
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2019-11-25 23:25:49 +00:00
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steps:
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2019-11-25 23:51:08 +00:00
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- uses: actions/checkout@v1
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- name: Install Nextflow
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run: |
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2019-11-25 23:25:49 +00:00
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wget -qO- get.nextflow.io | bash
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sudo mv nextflow /usr/local/bin/
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2019-11-26 13:06:30 +00:00
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- name: Check whether profiles are all tested
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2019-11-26 12:57:32 +00:00
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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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2019-11-25 23:51:08 +00:00
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- name: "Check profile"
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run: nextflow run ${GITHUB_WORKSPACE}/configtest.nf --custom_config_base=${GITHUB_WORKSPACE} -profile ${{ matrix.profile }}
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