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Update subworkflows/nf-core/bam_qc_picard/main.nf

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Co-authored-by: Maxime U. Garcia <maxime.garcia@scilifelab.se>
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Matthias De Smet 2022-04-29 14:20:15 +02:00 committed by GitHub
parent 3997d28a77
commit 73600b0339
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1 changed files with 2 additions and 6 deletions
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subworkflows/nf-core/bam_qc_picard/main.nf
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@ -22,12 +22,8 @@ workflow BAM_QC_PICARD {
ch_versions = ch_versions.mix(PICARD_COLLECTMULTIPLEMETRICS.out.versions.first()) ch_versions = ch_versions.mix(PICARD_COLLECTMULTIPLEMETRICS.out.versions.first())
if (ch_bait_interval || ch_target_interval) { if (ch_bait_interval || ch_target_interval) {
if (ch_bait_interval.isEmpty()) { if (!ch_bait_interval) log.error("Bait interval channel is empty")
log.error("Bait interval channel is empty") if (!ch_target_interval) log.error("Target interval channel is empty")
}
if (ch_target_interval.isEmpty()) {
log.error("Target interval channel is empty")
}
PICARD_COLLECTHSMETRICS( ch_bam, ch_fasta, ch_fasta_fai, ch_bait_interval, ch_target_interval ) PICARD_COLLECTHSMETRICS( ch_bam, ch_fasta, ch_fasta_fai, ch_bait_interval, ch_target_interval )
ch_coverage_metrics.mix(PICARD_COLLECTHSMETRICS.out.metrics.first()) ch_coverage_metrics.mix(PICARD_COLLECTHSMETRICS.out.metrics.first())
ch_versions = ch_versions.mix(PICARD_COLLECTHSMETRICS.out.versions.first()) ch_versions = ch_versions.mix(PICARD_COLLECTHSMETRICS.out.versions.first())