name: seqkit_split2 description: Split single or paired-end fastq.gz files keywords: - split - fastq tools: - seqkit: description: | Cross-platform and ultrafast toolkit for FASTA/Q file manipulation, written by Wei Shen. homepage: https://github.com/shenwei356/seqkit documentation: https://bioinf.shenwei.me/seqkit/ doi: 10.1371/journal.pone.0163962 params: - outdir: type: string description: | The pipeline's output directory. By default, the module will output files into `$params.outdir/` - publish_dir_mode: type: string description: | Value for the Nextflow `publishDir` mode parameter. Available: symlink, rellink, link, copy, copyNoFollow, move. - enable_conda: type: boolean description: | Run the module with Conda using the software specified via the `conda` directive - singularity_pull_docker_container: type: boolean description: | Instead of directly downloading Singularity images for use with Singularity, force the workflow to pull and convert Docker containers instead. input: - meta: type: map description: | Groovy Map containing sample information e.g. [ id:'test', single_end:false ] - reads: type: file description: FastQ files pattern: "*.{fq.gz/fastq.gz}" output: - meta: type: map description: | Groovy Map containing sample information e.g. [ id:'test', single_end:false ] - reads: type: file description: Split fastq files pattern: "*.{fq.gz/fastq.gz}" - version: type: file description: File containing software version pattern: "*.{version.txt}" authors: - "@FriederikeHanssen"