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Merge pull request #248 from JoseEspinosa/fix_bcftools

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Add missing requirements to bcftools modules
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Harshil Patel 2021-02-24 12:51:39 +00:00 committed by GitHub
commit ca4b4eb78e
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7 changed files with 7 additions and 2 deletions
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1
software/bcftools/consensus/main.nf
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@ -6,6 +6,7 @@ def options = initOptions(params.options)
process BCFTOOLS_CONSENSUS {
tag "$meta.id"
label 'process_medium'
publishDir "${params.outdir}",
mode: params.publish_dir_mode,
saveAs: { filename -> saveFiles(filename:filename, options:params.options, publish_dir:getSoftwareName(task.process), publish_id:meta.id) }

1
software/bcftools/filter/main.nf
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@ -6,6 +6,7 @@ def options = initOptions(params.options)
process BCFTOOLS_FILTER {
tag "$meta.id"
label 'process_medium'
publishDir "${params.outdir}",
mode: params.publish_dir_mode,
saveAs: { filename -> saveFiles(filename:filename, options:params.options, publish_dir:getSoftwareName(task.process), publish_id:meta.id) }

1
software/bcftools/isec/main.nf
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@ -6,6 +6,7 @@ def options = initOptions(params.options)
process BCFTOOLS_ISEC {
tag "$meta.id"
label 'process_medium'
publishDir "${params.outdir}",
mode: params.publish_dir_mode,
saveAs: { filename -> saveFiles(filename:filename, options:params.options, publish_dir:getSoftwareName(task.process), publish_id:meta.id) }

1
software/bcftools/merge/main.nf
View file

@ -6,6 +6,7 @@ def options = initOptions(params.options)
process BCFTOOLS_MERGE {
tag "$meta.id"
label 'process_medium'
publishDir "${params.outdir}",
mode: params.publish_dir_mode,
saveAs: { filename -> saveFiles(filename:filename, options:params.options, publish_dir:getSoftwareName(task.process), publish_id:meta.id) }

2
software/bcftools/merge/meta.yml
View file

@ -5,7 +5,7 @@ keywords:
- merge
- VCF
tools:
- isec:
- merge:
description: |
Merge VCF files.
homepage: http://samtools.github.io/bcftools/bcftools.html

2
software/bcftools/mpileup/meta.yml
View file

@ -5,7 +5,7 @@ keywords:
- mpileup
- VCF
tools:
- consensus:
- mpileup:
description: |
Generates genotype likelihoods at each genomic position with coverage.
homepage: http://samtools.github.io/bcftools/bcftools.html

1
software/bcftools/stats/main.nf
View file

@ -6,6 +6,7 @@ def options = initOptions(params.options)
process BCFTOOLS_STATS {
tag "$meta.id"
label 'process_medium'
publishDir "${params.outdir}",
mode: params.publish_dir_mode,
saveAs: { filename -> saveFiles(filename:filename, options:params.options, publish_dir:getSoftwareName(task.process), publish_id:meta.id) }