From b9b704934188764408340a7fd0e51cc5841aa3c1 Mon Sep 17 00:00:00 2001 From: CChahrour Date: Fri, 12 Jan 2024 14:57:46 +0000 Subject: [PATCH] tidy up star folder --- seqnado/workflow/rules/align_rna.smk | 5 ++++- 1 file changed, 4 insertions(+), 1 deletion(-) diff --git a/seqnado/workflow/rules/align_rna.smk b/seqnado/workflow/rules/align_rna.smk index f599f0c1..7571e726 100644 --- a/seqnado/workflow/rules/align_rna.smk +++ b/seqnado/workflow/rules/align_rna.smk @@ -11,7 +11,10 @@ rule align_paired: prefix="seqnado_output/aligned/star/{sample}_" output: bam=temp("seqnado_output/aligned/star/{sample}_Aligned.sortedByCoord.out.bam"), - bam2=temp("seqnado_output/aligned/star/{sample}_Aligned.toTranscriptome.out.bam"), + star_out=temp( + "seqnado_output/aligned/star/{sample}_{ext}", + ext = ["_Aligned.toTranscriptome.out.bam", "Log.out", "Log.progress.out", "ReadsPerGene.out.tab", "SJ.out.tab"] + ), threads: config["star"]["threads"] resources: mem_mb=32000,