fix: Make sure the gtf is unzipped

nf-core · Apr 27, 2024 · ad50c4e · ad50c4e
1 parent ca68e9b
commit ad50c4e
Showing 1 changed file with 1 addition and 1 deletion.
diff --git 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)