Mercurial > repos > galaxytrakr > hfp_bettercallsal_awsbatch

comparison 1.0.0/modules/nanoplot/main.nf @ 0:801b85b03a17 draft default tip

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planemo upload
author galaxytrakr
date Thu, 28 May 2026 20:31:42 +0000
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-1:000000000000 0:801b85b03a17
1 process NANOPLOT {
2 tag "$meta.id"
3 label 'process_micro'
4
5 module (params.enable_module ? "${params.swmodulepath}${params.fs}NanoPlot${params.fs}1.43.0" : null)
6 conda (params.enable_conda ? "conda-forge::plotly bioconda::nanoplot=1.43.0" : null)
7 container "${ workflow.containerEngine == 'singularity' && !task.ext.singularity_pull_docker_container ?
8 'https://depot.galaxyproject.org/singularity/nanoplot:1.42.0--pyhdfd78af_0' :
9 'quay.io/biocontainers/nanoplot:1.42.0--pyhdfd78af_0' }"
10
11 input:
12 tuple val(meta), path(ontfile)
13
14 output:
15 tuple val(meta), path("*.html"), emit: html
16 tuple val(meta), path("*.png") , emit: png, optional: true
17 tuple val(meta), path("*.txt") , emit: txt
18 tuple val(meta), path("*.log") , emit: log
19 path "versions.yml" , emit: versions
20
21 when:
22 task.ext.when == null || task.ext.when
23
24 script:
25 def args = task.ext.args ?: ''
26 def input_file = ("$ontfile".endsWith(".fastq.gz") || "$ontfile".endsWith(".fq.gz")) ? "--fastq ${ontfile}" :
27 ("$ontfile".endsWith(".txt")) ? "--summary ${ontfile}" : ''
28 """
29 NanoPlot \\
30 $args \\
31 -t $task.cpus \\
32 $input_file
33
34 cat <<-END_VERSIONS > versions.yml
35 "${task.process}":
36 nanoplot: \$(echo \$(NanoPlot --version 2>&1) | sed 's/^.*NanoPlot //; s/ .*\$//')
37 END_VERSIONS
38 """
39 }