diff --git a/src/main.nf b/src/main.nf index f8524d88429ce48dc0f15804c21b69497117c99f..251ad366074f3a97a1048b9a92c2889ad768e334 100644 --- a/src/main.nf +++ b/src/main.nf @@ -8,7 +8,8 @@ params.kmer_size = 31 include { SPLIT } from "./modules/split" include { FASTKMERS } from "./modules/fastkmers" include { MERGEKMER } from "./modules/mergekmer" -include { COLLATEKMER } from "./modules/mergekmer" +include { COLLATEKMER as COLLATEKMER1 } from "./modules/mergekmer" +include { COLLATEKMER as COLLATEKMER2} from "./modules/mergekmer" Channel.fromPath( file(params.csv) ) @@ -25,5 +26,6 @@ workflow { SPLIT(fastq.r1.mix(fastq.r2)) FASTKMERS(SPLIT.out.fastq.transpose()) MERGEKMER(FASTKMERS.out.csv.groupTuple()) - COLLATEKMER(MERGEKMER.out.csv.map{it -> it[1]}.collect()) + COLLATEKMER1(MERGEKMER.out.csv.map{it -> it[1]}.collate(5)) + COLLATEKMER2(COLLATEKMER1.out.csv.map{it -> it[1]}.collect()) } diff --git a/src/modules/mergekmer.nf b/src/modules/mergekmer.nf index cc5b7d4c6b71a538b1ff6c6ec8bb8ec5a259222f..35fd56dfebaf954b17e4dc8156fb2ca5cff23098 100644 --- a/src/modules/mergekmer.nf +++ b/src/modules/mergekmer.nf @@ -36,8 +36,8 @@ process COLLATEKMER { path(csv) output: - tuple val(meta), path("*.csv"), emit: csv - path "versions.yml" , emit: versions + tuple path("*.csv"), emit: csv + path "versions.yml", emit: versions script: def args = task.ext.args ?: ''