问Nextflow名称冲突

EN

# Example data
mkdir folder1 folder2
echo 1 > folder1/file.txt
echo 2 > folder2/file.txt

# We read from samplesheet
$ cat samplesheet.csv
sample,file
sample1,/home/atpoint/foo/folder1/file.txt
sample1,/home/atpoint/foo/folder2/file.txt

# Nextflow main.nf
#! /usr/bin/env nextflow

nextflow.enable.dsl=2

// Read samplesheet and group files by sample (first column)
samplesheet = Channel
    .fromPath(params.samplesheet)
    .splitCsv(header:true)
    .map {
            sample = it['sample']
            file   = it['file']
            tuple(sample, file)
}
        
ch_samplesheet = samplesheet.groupTuple(by:0)

// That creates a tuple like:
// [sample1, [/home/atpoint/foo/folder1/file.txt, /home/atpoint/foo/folder2/file.txt]]

// Dummy process that stages both files into the same work directory folder
process PRO {

    input:
    tuple val(samplename), path(files)

    output:
    path("out.txt")

    script:
    """
    echo $samplename with files $files > out.txt
    """

}

workflow { PRO(ch_samplesheet) }

# Run it
NXF_VER=21.10.6 nextflow run main.nf --samplesheet $(realpath samplesheet.csv)

N E X T F L O W  ~  version 21.10.6
Launching `main.nf` [adoring_jennings] - revision: 87f26fa90b
[-        ] process > PRO -
Error executing process > 'PRO (1)'

Caused by:
  Process `PRO` input file name collision -- There are multiple input files for each of the following file names: file.txt