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7e8ad56688
* 1882 FASTP now supports interleaved FASTQ files Changes: - single_end FASTP pipes the FASTQ file - Using args, it can be configured for interleaved in `--interleaved_in` - Out is automatically interleaved if input is paired end. - Removed md5sum checks for FASTQ files as compression seemed to cause differences - Instead, we check inside the FASTQ files for content. Relates to #1882 Co-authored-by: Matthias De Smet <11850640+matthdsm@users.noreply.github.com>
8 lines
212 B
Text
8 lines
212 B
Text
process {
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publishDir = { "${params.outdir}/${task.process.tokenize(':')[-1].tokenize('_')[0].toLowerCase()}" }
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withName: '.*test_fastp_interleaved:FASTP' {
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ext.args = "--interleaved_in"
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}
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}
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