name: biobambam_bamsort description: Merge a list of sorted bam files keywords: - merge - bam tools: - biobambam: description: | biobambam is a set of tools for early stage alignment file processing. homepage: https://gitlab.com/german.tischler/biobambam2 documentation: https://gitlab.com/german.tischler/biobambam2/-/blob/master/README.md doi: 10.1186/1751-0473-9-13 licence: ["GPL v3"] input: - meta: type: map description: | Groovy Map containing sample information e.g. [ id:'test', single_end:false ] - bam: type: file description: List containing 1 or more bam files output: - meta: type: map description: | Groovy Map containing sample information e.g. [ id:'test', single_end:false ] - bam: type: file description: Merged BAM file pattern: "*.bam" - bam_index: type: file description: BAM index file pattern: "*.{bai}" - versions: type: file description: File containing software versions pattern: "versions.yml" authors: - "@matthdsm"