25 lines
516 B
Text
25 lines
516 B
Text
process FASTERQ_DUMP {
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tag "${prefix} (${sra})"
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label 'process_single'
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container 'quay.io/biocontainers/sra-tools:3.0.8--h9f5acd7_0'
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input:
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tuple val(prefix), val(sra)
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output:
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tuple val(prefix), path("*.fastq.gz")
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publishDir "${params.outdir}/${task.process}", mode: 'copy'
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script:
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"""
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fasterq-dump \\
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--verbose \\
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--concatenate-reads \\
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--stdout \\
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${sra} \\
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| gzip \\
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> "${prefix}.fastq.gz"
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"""
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}
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