From abf06c30ba6b283d34e69ec3f1b86295878a7be2 Mon Sep 17 00:00:00 2001 From: "katarzyna.otylia.sikora@gmail.com" Date: Tue, 7 Jan 2025 13:19:59 +0100 Subject: [PATCH] fix --- snakePipes/shared/rules/whatshap.snakefile | 4 ++-- 1 file changed, 2 insertions(+), 2 deletions(-) diff --git a/snakePipes/shared/rules/whatshap.snakefile b/snakePipes/shared/rules/whatshap.snakefile index 48bdf379e..614f0ff54 100644 --- a/snakePipes/shared/rules/whatshap.snakefile +++ b/snakePipes/shared/rules/whatshap.snakefile @@ -2,8 +2,8 @@ rule whatshap_haplotag: input: ref = genome_fasta, pvcf = pvcf, - bam = filtered_bam/{sample}.filtered.bam, - bai = filtered_bam/{sample}.filtered.bam.bai + bam = "filtered_bam/{sample}.filtered.bam", + bai = "filtered_bam/{sample}.filtered.bam.bai" output: hbam = "allelic_bams/{sample}.filtered.allele_flagged.bam", hlist = "allelic_bams/{sample}.filtered_haplotype_list.tsv"