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Update modules/bowtie2/align/main.nf

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Co-authored-by: Harshil Patel <drpatelh@users.noreply.github.com>
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Matthias De Smet 2022-05-11 13:58:58 +02:00 committed by GitHub
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modules/bowtie2/align/main.nf
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@ -36,7 +36,7 @@ process BOWTIE2_ALIGN {
reads_args = "-1 ${reads[0]} -2 ${reads[1]}" reads_args = "-1 ${reads[0]} -2 ${reads[1]}"
} }
def samtools = "samtools view -@ $task.cpus --fast --with-header ${args2} > ${prefix}.bam" def samtools_command = "samtools view -@ $task.cpus --fast --with-header ${args2} > ${prefix}.bam"
""" """