Sanitize broken single line FASTQ files
meta{:bash}
:map
Groovy Map containing sample information. e.g. [ id:‘sample1’]
reads{:bash}
:file
One line for each sequence and quality value
*.{fq,fastq}{,.gz}
${prefix}${extension}{:bash}
Parsed fastq file without malformed entries/lines
*.${extension}
log{:bash}
${prefix}.log{:bash}
Log file produced by the seqkit/sana software
*.log
versions_seqkit{:bash}
${task.process}{:bash}
:string
The name of the process
seqkit{:bash}
The name of the tool
seqkit version | sed 's/^.*v//'{:bash}
:eval
The expression to obtain the version of the tool
versions{:bash}
A cross-platform and ultrafast toolkit for FASTA/Q file manipulation.
