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synced 2024-11-11 04:33:10 +00:00
26 lines
910 B
Text
26 lines
910 B
Text
process SRATOOLS_PREFETCH {
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tag "$id"
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label 'process_low'
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conda (params.enable_conda ? 'bioconda::sra-tools=2.11.0' : null)
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container "${ workflow.containerEngine == 'singularity' && !task.ext.singularity_pull_docker_container ?
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'https://depot.galaxyproject.org/singularity/sra-tools:2.11.0--pl5321ha49a11a_3' :
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'quay.io/biocontainers/sra-tools:2.11.0--pl5321ha49a11a_3' }"
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input:
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tuple val(meta), val(id)
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output:
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tuple val(meta), path(id), emit: sra
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path "versions.yml" , emit: versions
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when:
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task.ext.when == null || task.ext.when
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shell:
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args = task.ext.args ?: ''
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args2 = task.ext.args2 ?: '5 1 100' // <num retries> <base delay in seconds> <max delay in seconds>
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config = "/LIBS/GUID = \"${UUID.randomUUID().toString()}\"\\n/libs/cloud/report_instance_identity = \"true\"\\n"
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template 'retry_with_backoff.sh'
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}
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