From 622773a6594ccbe2263dc4d460948adade0b3bf2 Mon Sep 17 00:00:00 2001 From: Martin Beracochea Date: Thu, 30 May 2024 16:13:39 +0100 Subject: [PATCH] Forgot to used the renamed thingy --- .../ebi-metagenomics/reads_bwamem2_decontamination/main.nf | 6 +++--- 1 file changed, 3 insertions(+), 3 deletions(-) diff --git a/subworkflows/ebi-metagenomics/reads_bwamem2_decontamination/main.nf b/subworkflows/ebi-metagenomics/reads_bwamem2_decontamination/main.nf index 1d69358..e197946 100644 --- a/subworkflows/ebi-metagenomics/reads_bwamem2_decontamination/main.nf +++ b/subworkflows/ebi-metagenomics/reads_bwamem2_decontamination/main.nf @@ -13,10 +13,10 @@ workflow READS_BWAMEM2_DECONTAMINATION { ch_versions = Channel.empty() - BWAMEM2_MEM(ch_reads, ch_reference) - ch_versions = ch_versions.mix(BWAMEM2_MEM.out.versions.first()) + BWAMEM2_MEM_DECONT(ch_reads, ch_reference) + ch_versions = ch_versions.mix(BWAMEM2_MEM_DECONT.out.versions.first()) - SAMTOOLS_BAM2FQ( BWAMEM2_MEM.out.bam.map { meta, bam, _ -> [ meta, bam, meta.single_end == false ] } ) + SAMTOOLS_BAM2FQ( BWAMEM2_MEM_DECONT.out.bam.map { meta, bam, _ -> [ meta, bam, meta.single_end == false ] } ) ch_versions = ch_versions.mix(SAMTOOLS_BAM2FQ.out.versions.first()) emit: