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a3684d9594
* ci: Add modules lint step Moved it ahead of the nextflow install so ideally it'll fail before we bother doing any more setup * ci: _ => / * Update tests/config/pytest_software.yml Co-authored-by: Harshil Patel <drpatelh@users.noreply.github.com>
31 lines
1.1 KiB
YAML
31 lines
1.1 KiB
YAML
- name: kraken2 run single-end
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command: nextflow run ./tests/software/kraken2/run -entry test_kraken2_run_single_end -c tests/config/nextflow.config
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tags:
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- kraken2
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- kraken2/run
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- kraken2_run_single_end
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files:
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- path: output/kraken2/test.classified.fastq.gz
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should_exist: true
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- path: output/kraken2/test.unclassified.fastq.gz
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should_exist: true
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- path: output/kraken2/test.kraken2.report.txt
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md5sum: 4227755fe40478b8d7dc8634b489761e
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- name: kraken2 run paired-end
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command: nextflow run ./tests/software/kraken2/run -entry test_kraken2_run_paired_end -c tests/config/nextflow.config
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tags:
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- kraken2
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- kraken2/run
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- kraken2_run_paired_end
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files:
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- path: output/kraken2/test.classified_1.fastq.gz
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should_exist: true
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- path: output/kraken2/test.classified_2.fastq.gz
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should_exist: true
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- path: output/kraken2/test.unclassified_1.fastq.gz
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should_exist: true
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- path: output/kraken2/test.unclassified_2.fastq.gz
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should_exist: true
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- path: output/kraken2/test.kraken2.report.txt
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md5sum: 4227755fe40478b8d7dc8634b489761e
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