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nf-core_modules/tests/software/gatk4/fastqtosam/test.yml

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add gatk4/fastqtosam #198 (#311) * Inital nf-core create * remove TODO comments, input and output files defined * add get version in script * added flow control for single/paired end data * added script main commands * removed completed TODO messages * removed completed TODO messages * added software info * added input reads description * added output description * added description and keywords * added single end test * added paired end test * fixed sample name flag * fixed reverse read variable * added test yaml * update for pytest_software * order in pytest_software was different * replaced functions.nf with copy from another module * simplify read command line Co-authored-by: Harshil Patel <drpatelh@users.noreply.github.com> Co-authored-by: Nicholas TODA <nicholas.toda@mnhn.fr> Co-authored-by: Harshil Patel <drpatelh@users.noreply.github.com>
2021-03-22 18:26:02 +00:00
- name: gatk4 fastqtosam test_gatk4_fastqtosam_single_end
command: nextflow run tests/software/gatk4/fastqtosam -entry test_gatk4_fastqtosam_single_end -c tests/config/nextflow.config
tags:
- gatk4_fastqtosam_single_end
- gatk4_fastqtosam
- gatk4
files:
- path: output/gatk4/test.bam
md5sum: 4967100b2e4912c0e4ce0976d946bafb
- name: gatk4 fastqtosam test_gatk4_fastqtosam_paired_end
command: nextflow run tests/software/gatk4/fastqtosam -entry test_gatk4_fastqtosam_paired_end -c tests/config/nextflow.config
tags:
- gatk4_fastqtosam_paired_end
- gatk4_fastqtosam
- gatk4
files:
- path: output/gatk4/test.bam
md5sum: 4967100b2e4912c0e4ce0976d946bafb
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