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https://github.com/MillironX/nf-core_modules.git
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d0240fee1e
* update manta to enable jointcalling * fix lint errors * fix error * update comment * remove comment * suggestions from code review * add stub
36 lines
1.7 KiB
YAML
36 lines
1.7 KiB
YAML
- name: manta germline
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command: nextflow run ./tests/modules/manta/germline -entry test_manta_germline -c ./tests/config/nextflow.config -c ./tests/modules/manta/germline/nextflow.config
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tags:
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- manta
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- manta/germline
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files:
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- path: output/manta/test.candidate_small_indels.vcf.gz
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- path: output/manta/test.candidate_small_indels.vcf.gz.tbi
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- path: output/manta/test.candidate_sv.vcf.gz
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- path: output/manta/test.candidate_sv.vcf.gz.tbi
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- path: output/manta/test.diploid_sv.vcf.gz
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- path: output/manta/test.diploid_sv.vcf.gz.tbi
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- name: manta germline target bed
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command: nextflow run ./tests/modules/manta/germline -entry test_manta_germline_target_bed -c ./tests/config/nextflow.config -c ./tests/modules/manta/germline/nextflow.config
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tags:
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- manta
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- manta/germline
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files:
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- path: output/manta/test.candidate_small_indels.vcf.gz
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- path: output/manta/test.candidate_small_indels.vcf.gz.tbi
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- path: output/manta/test.candidate_sv.vcf.gz
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- path: output/manta/test.candidate_sv.vcf.gz.tbi
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- path: output/manta/test.diploid_sv.vcf.gz
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- path: output/manta/test.diploid_sv.vcf.gz.tbi
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- name: manta germline target bed jointcalling
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command: nextflow run ./tests/modules/manta/germline -entry test_manta_germline_target_bed_jointcalling -c ./tests/config/nextflow.config -c ./tests/modules/manta/germline/nextflow.config
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tags:
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- manta
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- manta/germline
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files:
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- path: output/manta/test.candidate_small_indels.vcf.gz
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- path: output/manta/test.candidate_small_indels.vcf.gz.tbi
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- path: output/manta/test.candidate_sv.vcf.gz
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- path: output/manta/test.candidate_sv.vcf.gz.tbi
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- path: output/manta/test.diploid_sv.vcf.gz
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- path: output/manta/test.diploid_sv.vcf.gz.tbi
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