FastQC: add id_file var for single-end like for paired-end

src/nf_modules/FastQC/fastqc.nf

@@ -18,15 +18,16 @@ log.info "fastq files : ${params.fastq}"
 Channel
   .fromPath( params.fastq )
   .ifEmpty { error "Cannot find any fastq files matching: ${params.fastq}" }
+  .map { it -> [(it.baseName =~ /([^\.]*)/)[0][1], it]}
   .set { fastq_files }
 
 process fastqc_fastq {
-  tag "$reads.baseName"
+  tag "$file_id"
   publishDir "results/fastq/fastqc/", mode: 'copy'
   cpus = 1
 
   input:
-    file reads from fastq_files
+  set file_id, file(reads) from fastq_files
 
   output:
     file "*.{zip,html}" into fastqc_report

src/nf_modules/FastQC/tests/fastqc_single.nf

@@ -5,15 +5,16 @@ log.info "fastq files : ${params.fastq}"
 Channel
   .fromPath( params.fastq )
   .ifEmpty { error "Cannot find any fastq files matching: ${params.fastq}" }
+  .map { it -> [(it.baseName =~ /([^\.]*)/)[0][1], it]}
   .set { fastq_files }
 
 process fastqc_fastq {
-  tag "$reads.baseName"
+  tag "$file_id"
   publishDir "results/fastq/fastqc/", mode: 'copy'
   cpus = 1
 
   input:
-    file reads from fastq_files
+  set file_id, file(reads) from fastq_files
 
   output:
     file "*.{zip,html}" into fastqc_report