diff --git a/src/nf_modules/UrQt/urqt.nf b/src/nf_modules/UrQt/urqt.nf index 85247d9863e369ee17c157aa43fced608e3cad68..165af95db819fa4b9c4e2f081a831336931f2143 100644 --- a/src/nf_modules/UrQt/urqt.nf +++ b/src/nf_modules/UrQt/urqt.nf @@ -19,12 +19,12 @@ Channel .set { fastq_files } process trimming { - tag "$pair_id" + tag "${reads}" cpus 4 publishDir "results/fastq/trimming/", mode: 'copy' input: - set pair_id, file(reads) from fastq_files + file reads from fastq_files output: file "*_trim_R{1,2}.fastq.gz" into fastq_files_trim @@ -33,8 +33,8 @@ process trimming { """ UrQt --t 20 --m ${task.cpus} --gz \ --in ${reads[0]} --inpair ${reads[1]} \ ---out ${pair_id}_trim_R1.fastq.gz --outpair ${pair_id}_trim_R2.fastq.gz \ -> ${pair_id}_trimming_report.txt +--out ${reads[0].baseName}_trim_R1.fastq.gz --outpair ${reads[1].baseName}_trim_R2.fastq.gz \ +> ${reads[0].baseName}_trimming_report.txt """ }