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re add missing switch meta of merged reads to true
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1 changed files with 11 additions and 2 deletions
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@ -38,11 +38,17 @@ workflow SHORTREAD_ADAPTERREMOVAL {
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ADAPTERREMOVAL_PAIRED.out.singles_truncated,
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ADAPTERREMOVAL_PAIRED.out.paired_truncated
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)
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.map { meta, reads ->
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def meta_new = meta.clone()
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meta_new.single_end = true
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[meta_new, reads]
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}
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.groupTuple()
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// Paired-end reads cause a nested tuple during grouping.
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// We want to present a flat list of files to `CAT_FASTQ`.
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.map { meta, fastq -> [meta, fastq.flatten()] }
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CAT_FASTQ(ch_concat_fastq)
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ch_adapterremoval_reads_prepped = CAT_FASTQ.out.reads
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@ -56,10 +62,13 @@ workflow SHORTREAD_ADAPTERREMOVAL {
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ADAPTERREMOVAL_PAIRED.out.collapsed_truncated
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)
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.map { meta, reads ->
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meta.single_end = true
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[meta, reads]
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def meta_new = meta.clone()
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meta_new.single_end = true
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[meta_new, reads]
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}
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.groupTuple()
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.map { meta, fastq -> [meta, fastq.flatten()] }
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CAT_FASTQ(ch_concat_fastq)
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