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43a1c1c6d1
* Added vcf_index to vcf tuple; output to vcf.gz format. * Fix: extra new line in meta.yml. * addressed review feedback * fix: editorconfig error * fix: gatk memory flag * fix: editorconfig error * fix: Indentation fix: Indentation * Fix: lint editorconfig error Removed one extra space Co-authored-by: Robert A. Petit III <robbie.petit@gmail.com>
19 lines
1 KiB
YAML
19 lines
1 KiB
YAML
- name: gatk4 variantfiltration test_gatk4_variantfiltration_vcf_input
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command: nextflow run tests/modules/gatk4/variantfiltration -entry test_gatk4_variantfiltration_vcf_input -c tests/config/nextflow.config
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tags:
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- gatk4/variantfiltration
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- gatk4
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files:
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- path: output/gatk4/test.filtered.vcf.gz
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contains: ['BaseQRankSum=-1.318;DP=17;ExcessHet=3.0103;MLEAC=1,0,0;MLEAF=0.500,0.00,0.00;MQRankSum=0.000;RAW_MQandDP=61200,17;ReadPosRankSum=2.365']
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- path: output/gatk4/test.filtered.vcf.gz.tbi
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- name: gatk4 variantfiltration test_gatk4_variantfiltration_gz_input
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command: nextflow run tests/modules/gatk4/variantfiltration -entry test_gatk4_variantfiltration_gz_input -c tests/config/nextflow.config
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tags:
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- gatk4/variantfiltration
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- gatk4
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files:
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- path: output/gatk4/test.filtered.vcf.gz
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contains: ['BaseQRankSum=-1.318;DP=17;ExcessHet=3.0103;MLEAC=1,0,0;MLEAF=0.500,0.00,0.00;MQRankSum=0.000;RAW_MQandDP=61200,17;ReadPosRankSum=2.365']
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- path: output/gatk4/test.filtered.vcf.gz.tbi
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