From 0752d3a44e15f6f71da983a05196d77995d65796 Mon Sep 17 00:00:00 2001 From: yduanBioinfo Date: Mon, 20 May 2024 21:10:05 +0800 Subject: [PATCH] Avoid hisat2 index error when BaseName.ss exist. --- main.nf | 2 +- 1 file changed, 1 insertion(+), 1 deletion(-) diff --git a/main.nf b/main.nf index 5bf82fb..ec308bb 100644 --- a/main.nf +++ b/main.nf @@ -779,7 +779,7 @@ process Hisat2Align { aligner == "hisat2" script: - index_base = index[0].toString() - ~/(\.exon)?(\.\d)?(\.fa)?(\.gtf)?(\.ht2)?$/ + index_base = index[0].toString() - ~/(\.exon)?(\.\d)?(\.fa)?(\.gtf)?(\.ss)?(\.ht2)?$/ if (reads_single_end) { """ hisat2 --summary-file ${sample_name}_hisat2_summary.txt\