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Support CSI files too #173

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Merged
muffato merged 1 commit into from
Jun 25, 2025
Merged

Support CSI files too #173

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2 changes: 1 addition & 1 deletion subworkflows/local/convert_stats.nf
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Original file line number Diff line number Diff line change
Expand Up @@ -81,7 +81,7 @@ workflow CONVERT_STATS {

// Set the BAM and BAI channels for emission
ch_bam = SAMTOOLS_REINDEX.out.bam
ch_bai = SAMTOOLS_REINDEX.out.bai
ch_bai = SAMTOOLS_REINDEX.out.bai.mix(SAMTOOLS_REINDEX.out.csi)

// If using BAM for stats, use the reindexed BAM
if ( !("cram" in outfmt_options) ) {
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