dockerhub image #1217
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| name: dockerhub image | |
| on: | |
| schedule: | |
| - cron: '15 21 * * *' # 9:15pm everyday | |
| workflow_dispatch: | |
| repository_dispatch: | |
| types: [docker-test, install-test] | |
| jobs: | |
| test_dockerhub: | |
| runs-on: ubuntu-latest | |
| steps: | |
| - uses: actions/checkout@v3 | |
| - name: Test docker | |
| run: docker run hello-world | |
| - name: Software and DB version | |
| run: docker run ncbi/amr amrfinder --database_version | |
| - name: image ls for debugging | |
| run: docker image ls | |
| - name: Protein | |
| run: docker run --rm -v ${PWD}:/data ncbi/amr amrfinder --plus -n test_dna.fa -O Escherichia --mutation_all test_dna_mut_all.got --print_node > test_dna.got | |
| - name: Check results | |
| run: diff test_dna.expected test_dna.got | |
| - name: Combined | |
| run: docker run --rm -v ${PWD}:/data ncbi/amr amrfinder --plus -n test_dna.fa -p test_prot.fa -g test_prot.gff -O Escherichia --print_node > test_both.got | |
| - name: Check combined results | |
| run: diff test_both.expected test_both.got |