diff --git a/subworkflows/local/repeat_characterization/main.nf b/subworkflows/local/repeat_characterization/main.nf index 13a79b6..4e60737 100644 --- a/subworkflows/local/repeat_characterization/main.nf +++ b/subworkflows/local/repeat_characterization/main.nf @@ -43,7 +43,6 @@ workflow REPEAT_CHARACTERIZATION{ //Index the VCF file BCFTOOLS_INDEX(BCFTOOLS_SORT.out.vcf) - bam_bai_ch = SAMTOOLS_SORT.out.bam.join(SAMTOOLS_INDEX.out.bai).view() bam_bai_vcf_tbi_ch = SAMTOOLS_SORT.out.bam.join(SAMTOOLS_INDEX.out.bai).join(BCFTOOLS_SORT.out.vcf).join(BCFTOOLS_INDEX.out.csi) bam_bai_vcf_tbi_repeat_ch = bam_bai_vcf_tbi_ch.join(repeat_id)