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Updated modules with the changed container format

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Sruthi Suresh 2020-11-12 19:07:44 -06:00 committed by sruthipsuresh
parent 6677c98b11
commit 89e5473b44
2 changed files with 5 additions and 12 deletions
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4
software/bedtools/complement/main.nf
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@ -11,11 +11,7 @@ process BEDTOOLS_COMPLEMENT {
saveAs: { filename -> saveFiles(filename:filename, options:params.options, publish_dir:getSoftwareName(task.process), publish_id:meta.id) } saveAs: { filename -> saveFiles(filename:filename, options:params.options, publish_dir:getSoftwareName(task.process), publish_id:meta.id) }
conda (params.enable_conda ? "bioconda::bedtools =2.29.2" : null) conda (params.enable_conda ? "bioconda::bedtools =2.29.2" : null)
if (workflow.containerEngine == 'singularity' && !params.pull_docker_container) {
container "https://depot.galaxyproject.org/singularity/bedtools:2.29.2--hc088bd4_0 "
} else {
container "quay.io/biocontainers/bedtools:2.29.2--hc088bd4_0" container "quay.io/biocontainers/bedtools:2.29.2--hc088bd4_0"
}
input: input:
tuple val(meta), path(beds) tuple val(meta), path(beds)

5
software/bedtools/slop/main.nf
View file

@ -11,11 +11,8 @@ process BEDTOOLS_SLOP {
saveAs: { filename -> saveFiles(filename:filename, options:params.options, publish_dir:getSoftwareName(task.process), publish_id:meta.id) } saveAs: { filename -> saveFiles(filename:filename, options:params.options, publish_dir:getSoftwareName(task.process), publish_id:meta.id) }
conda (params.enable_conda ? "bioconda::bedtools =2.29.2" : null) conda (params.enable_conda ? "bioconda::bedtools =2.29.2" : null)
if (workflow.containerEngine == 'singularity' && !params.pull_docker_container) {
container "https://depot.galaxyproject.org/singularity/bedtools:2.29.2--hc088bd4_0 "
} else {
container "quay.io/biocontainers/bedtools:2.29.2--hc088bd4_0" container "quay.io/biocontainers/bedtools:2.29.2--hc088bd4_0"
}
input: input:
tuple val(meta), path(beds) tuple val(meta), path(beds)