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gap_length.nf
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gap_length.nf
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process GAP_LENGTH {
tag "$meta.id"
label 'process_tiny'
conda "conda-forge::coreutils=9.1"
container "${ workflow.containerEngine == 'singularity' && !task.ext.singularity_pull_docker_container ?
'https://depot.galaxyproject.org/singularity/ubuntu:20.04' :
'docker.io/ubuntu:20.04' }"
input:
tuple val( meta ), path( file )
output:
tuple val( meta ), file( "*bedgraph" ) , emit: bedgraph
path "versions.yml" , emit: versions
shell:
def prefix = task.ext.prefix ?: "${meta.id}"
def VERSION = "9.1" // WARN: Version information not provided by tool on CLI. Please update this string when bumping container versions.
$/
cat "${file}" \
| awk '{print $0"\t"sqrt(($3-$2)*($3-$2))}' > ${prefix}_gap.bedgraph
cat <<-END_VERSIONS > versions.yml
"${task.process}":
coreutils: $VERSION
END_VERSIONS
/$
stub:
def prefix = task.ext.prefix ?: "${meta.id}"
def VERSION = "9.1"
"""
touch ${prefix}_gap.bedgraph
cat <<-END_VERSIONS > versions.yml
"${task.process}":
coreutils: $VERSION
END_VERSIONS
"""
}