From ad50c4ee4d40b7ba202bceee7e5bd4604e57ce5a Mon Sep 17 00:00:00 2001 From: Edmund Miller Date: Sat, 27 Apr 2024 10:55:08 -0500 Subject: [PATCH] fix: Make sure the gtf is unzipped --- workflows/nascent.nf | 2 +- 1 file changed, 1 insertion(+), 1 deletion(-) diff --git a/workflows/nascent.nf b/workflows/nascent.nf index aac204fb..c53b0165 100644 --- a/workflows/nascent.nf +++ b/workflows/nascent.nf @@ -200,7 +200,7 @@ workflow NASCENT { ch_versions = ch_versions.mix(FASTQ_ALIGN_HISAT2.out.versions) } else if (!params.skip_alignment && params.aligner == 'star') { if(!ch_star_index) { - ch_star_index = STAR_GENOMEGENERATE ( ch_fasta, [ [:], ch_gtf ] ).index + ch_star_index = STAR_GENOMEGENERATE ( ch_fasta, [ [:], PREPARE_GENOME.out.gtf ] ).index } else if (ch_star_index.endsWith('.tar.gz')) { ch_star_index = UNTAR_STAR_INDEX ( [ [:], ch_star_index ] ).untar ch_versions = ch_versions.mix(UNTAR_STAR_INDEX.out.versions)