mirror of
https://github.com/MillironX/nf-core_modules.git
synced 2024-12-22 02:58:17 +00:00
Small update on the output channels
This commit is contained in:
Nicolas Vannieuwkerke
parent
c18391aa49
commit
b7134855e4
2 changed files with 54 additions and 52 deletions
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@ -15,14 +15,14 @@ process RTGTOOLS_VCFEVAL {
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path(sdf)
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output:
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tuple val(meta), path("**{done,progress,.log}") , emit: logs
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tuple val(meta), path("**results/{done,progress,*.log}") , emit: logs
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tuple val(meta), path("**tp.vcf.gz"), path("**tp.vcf.gz.tbi") , emit: tp
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tuple val(meta), path("**fn.vcf.gz"), path("**fn.vcf.gz.tbi") , emit: fn
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tuple val(meta), path("**fp.vcf.gz"), path("**fp.vcf.gz.tbi") , emit: fp
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tuple val(meta), path("**baseline.vcf.gz"), path("**baseline.vcf.gz.tbi") , emit: baseline
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tuple val(meta), path("**.tsv.gz") , emit: roc
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tuple val(meta), path("**summary.txt") , emit: summary
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tuple val(meta), path("**phasing.txt") , emit: phasing
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tuple val(meta), path("**results/summary.txt") , emit: summary
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tuple val(meta), path("**results/phasing.txt") , emit: phasing
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path "versions.yml" , emit: versions
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when:
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@ -46,7 +46,7 @@ process RTGTOOLS_VCFEVAL {
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$bed_regions \\
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$eval_regions \\
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--calls=$query_vcf \\
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--output=$prefix \\
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--output=${prefix}_results \\
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--template=$sdf \\
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--threads=$task.cpus \\
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@ -4,36 +4,37 @@
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- rtgtools
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- rtgtools/vcfeval
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files:
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- path: output/rtgtools/done
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- path: output/rtgtools/fn.vcf.gz
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md5sum: 4577a8c3226b9f8ed9e260c3bd4b1259
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- path: output/rtgtools/fn.vcf.gz.tbi
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- path: output/rtgtools/test_results/done
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- path: output/rtgtools/test_results/fn.vcf.gz
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md5sum: be9c9106055bfad4c5985bc0d33efd56
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- path: output/rtgtools/test_results/fn.vcf.gz.tbi
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md5sum: 092a7a3162e7cff25d273525751eb284
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- path: output/rtgtools/fp.vcf.gz
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md5sum: 1417bb8ac7a0e202df660291a74de0db
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- path: output/rtgtools/fp.vcf.gz.tbi
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- path: output/rtgtools/test_results/fp.vcf.gz
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md5sum: e0f0ff841dc63e9fb61fd3a5db137ced
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- path: output/rtgtools/test_results/fp.vcf.gz.tbi
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md5sum: 092a7a3162e7cff25d273525751eb284
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- path: output/rtgtools/non_snp_roc.tsv.gz
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md5sum: 8fd51a1e5084d15d43880cb1e31a0180
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- path: output/rtgtools/phasing.txt
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- path: output/rtgtools/test_results/non_snp_roc.tsv.gz
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md5sum: ad5bad32c48f05aef232e2c0e708877a
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- path: output/rtgtools/test_results/phasing.txt
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md5sum: 133677dbd8be657439ea2b03fdfb8795
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- path: output/rtgtools/progress
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- path: output/rtgtools/snp_roc.tsv.gz
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md5sum: ff2ece544adfcefaa06da054876a9ae3
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- path: output/rtgtools/summary.txt
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- path: output/rtgtools/test_results/progress
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- path: output/rtgtools/test_results/snp_roc.tsv.gz
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md5sum: 6785b83d66486e7e6c75c5a5b1574c09
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- path: output/rtgtools/test_results/summary.txt
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md5sum: f4c8df93c8bdab603036bbc27b4a28c3
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- path: output/rtgtools/tp-baseline.vcf.gz
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md5sum: 4577a8c3226b9f8ed9e260c3bd4b1259
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- path: output/rtgtools/tp-baseline.vcf.gz.tbi
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- path: output/rtgtools/test_results/tp-baseline.vcf.gz
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md5sum: be9c9106055bfad4c5985bc0d33efd56
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- path: output/rtgtools/test_results/tp-baseline.vcf.gz.tbi
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md5sum: 092a7a3162e7cff25d273525751eb284
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- path: output/rtgtools/tp.vcf.gz
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md5sum: 1417bb8ac7a0e202df660291a74de0db
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- path: output/rtgtools/tp.vcf.gz.tbi
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- path: output/rtgtools/test_results/tp.vcf.gz
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md5sum: e0f0ff841dc63e9fb61fd3a5db137ced
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- path: output/rtgtools/test_results/tp.vcf.gz.tbi
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md5sum: 092a7a3162e7cff25d273525751eb284
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- path: output/rtgtools/vcfeval.log
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- path: output/rtgtools/test_results/vcfeval.log
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- path: output/rtgtools/test_results/weighted_roc.tsv.gz
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md5sum: fa7c046ea0084172f1ef91f19de07b2b
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- path: output/rtgtools/versions.yml
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- path: output/rtgtools/weighted_roc.tsv.gz
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md5sum: 5209f1bdeb03704714ae92b183d08e0f
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md5sum: 270ed7a5a8e347b251eb4aa2198f98e8
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- name: rtgtools vcfeval test_rtgtools_vcfeval_no_optional_inputs
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command: nextflow run tests/modules/rtgtools/vcfeval -entry test_rtgtools_vcfeval_no_optional_inputs -c tests/config/nextflow.config
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@ -41,33 +42,34 @@
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- rtgtools
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- rtgtools/vcfeval
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files:
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- path: output/rtgtools/done
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- path: output/rtgtools/fn.vcf.gz
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md5sum: e51420e4be520ae309a2384830bf4c15
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- path: output/rtgtools/fn.vcf.gz.tbi
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- path: output/rtgtools/test_results/done
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- path: output/rtgtools/test_results/fn.vcf.gz
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md5sum: c11c889a4f42c8ea325748bd768ea34d
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- path: output/rtgtools/test_results/fn.vcf.gz.tbi
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md5sum: 092a7a3162e7cff25d273525751eb284
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- path: output/rtgtools/fp.vcf.gz
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md5sum: 7d818cf526983de6cbb5cf517c44a8f7
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- path: output/rtgtools/fp.vcf.gz.tbi
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- path: output/rtgtools/test_results/fp.vcf.gz
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md5sum: 138e85c1cd79f8fea9a33e81ce0c734c
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- path: output/rtgtools/test_results/fp.vcf.gz.tbi
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md5sum: 092a7a3162e7cff25d273525751eb284
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- path: output/rtgtools/non_snp_roc.tsv.gz
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md5sum: a535fb80081b43b19788347152b6b8b4
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- path: output/rtgtools/phasing.txt
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- path: output/rtgtools/test_results/non_snp_roc.tsv.gz
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md5sum: 34fb78a008dfc0bef02807b8a7012b07
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- path: output/rtgtools/test_results/phasing.txt
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md5sum: 133677dbd8be657439ea2b03fdfb8795
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- path: output/rtgtools/progress
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- path: output/rtgtools/snp_roc.tsv.gz
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md5sum: 6006656c4a534935c7873398287bc110
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- path: output/rtgtools/summary.txt
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- path: output/rtgtools/test_results/progress
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- path: output/rtgtools/test_results/snp_roc.tsv.gz
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md5sum: a4c5761c2653e2d04fc84c1cea13b1f0
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- path: output/rtgtools/test_results/summary.txt
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md5sum: f33feb32f84958fb931063044fba369b
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- path: output/rtgtools/tp-baseline.vcf.gz
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md5sum: ed68ea567a26d3b864ada79e9253bc97
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- path: output/rtgtools/tp-baseline.vcf.gz.tbi
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md5sum: 3518deff814eed340b0f5386294b5879
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- path: output/rtgtools/tp.vcf.gz
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md5sum: 92fd51021d101c99da066324655d24c9
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- path: output/rtgtools/tp.vcf.gz.tbi
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md5sum: 169063c1f570f0055059f3cb3518a8b4
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- path: output/rtgtools/vcfeval.log
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- path: output/rtgtools/test_results/tp-baseline.vcf.gz
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md5sum: d1c2d990899edf127ea5fcca8866fcb0
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- path: output/rtgtools/test_results/tp-baseline.vcf.gz.tbi
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md5sum: 3307008fea47adb75c46d395c5567bc0
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- path: output/rtgtools/test_results/tp.vcf.gz
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md5sum: e35b4dab82894eee9b77c81f9bc89cca
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- path: output/rtgtools/test_results/tp.vcf.gz.tbi
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md5sum: 45d8f8793140944f129e728299918c88
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- path: output/rtgtools/test_results/vcfeval.log
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- path: output/rtgtools/test_results/weighted_roc.tsv.gz
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md5sum: 5b8efc9e9381f604880412800f58e4e9
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- path: output/rtgtools/versions.yml
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- path: output/rtgtools/weighted_roc.tsv.gz
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md5sum: 0ba825084bd6b94accdf54fff23ea18c
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md5sum: 55568e4bbe5ab7e634a1f392abb89cc4
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