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1 process QUAL_PASSED_GENOMES {
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2 tag "Consolidate"
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3 label "process_micro"
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4
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5 module (params.enable_module ? "${params.swmodulepath}${params.fs}python${params.fs}3.8.1" : null)
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6 conda (params.enable_conda ? "conda-forge::python=3.10.4" : null)
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7 container "${ workflow.containerEngine == 'singularity' && !task.ext.singularity_pull_docker_container ?
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8 'https://depot.galaxyproject.org/singularity/python:3.10.4' :
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9 'quay.io/biocontainers/python:3.10.4' }"
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10
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11 input:
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12 path acc_passed_tool1
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13 path acc_passed_tool2
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14
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15 output:
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16 path 'accs_passed.txt', emit: accs
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17 path 'versions.yml' , emit: versions
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18
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19 when:
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20 task.ext.when == null || task.ext.when
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21
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22 script:
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23 def args = task.ext.args ?: ''
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24 def prefix = task.index ?: ''
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25 def output = 'accs_passed.txt'
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26
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27 """
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28 qual_confirm.py \\
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29 -f1 $acc_passed_tool1 \\
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30 -f2 $acc_passed_tool2
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31
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32 cat <<-END_VERSIONS >> versions.yml
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33 python: \$( python --version | sed 's/Python //g' )
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34 END_VERSIONS
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35 """
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36 } |
