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1 process UPLOAD_MICROREACT {
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2 tag "microreact_post.py"
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3 label "process_pico"
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4
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5 module (params.enable_module ? "${params.swmodulepath}${params.fs}python${params.fs}3.8.1" : null)
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6 conda (params.enable_conda ? "conda-forge::python=3.10 conda-forge::requests" : null)
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7 container "${ workflow.containerEngine == 'singularity' && !task.ext.singularity_pull_docker_container ?
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8 'https://depot.galaxyproject.org/singularity/requests:2.26.0' :
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9 'quay.io/biocontainers/requests:2.26.0' }"
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10
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11 input:
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12 path tree
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13 path metadata
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14
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15 output:
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16 path "*.txt" , emit: url
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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 """
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25 microreact_post.py \\
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26 $args \\
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27 -atp "${params.microreact_api_key}" \\
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28 -name "${params.microreact_tree_name}" \\
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29 -dir "."
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30
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31 cat <<-END_VERSIONS > versions.yml
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32 "${task.process}":
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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
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37 } |
