name: ucsc_bedclip
description: See http://hgdownload.cse.ucsc.edu/admin/exe/
keywords:
  - sort
tools:
  - ucsc:
      description: Remove lines from bed file that refer to off-chromosome locations.
      homepage: None
      documentation: None
      tool_dev_url: None
      doi: ""
      licence: ['varies; see http://genome.ucsc.edu/license']

input:
  - meta:
      type: map
      description: |
        Groovy Map containing sample information
        e.g. [ id:'test', single_end:false ]
  - bedgraph:
      type: file
      description: bedGraph file
      pattern: "*.{bedgraph}"

output:
  - meta:
      type: map
      description: |
        Groovy Map containing sample information
        e.g. [ id:'test', single_end:false ]
  - version:
      type: file
      description: File containing software version
      pattern: "*.{version.txt}"
  - bedgraph:
      type: file
      description: bedGraph file
      pattern: "*.{bedgraph}"

authors:
  - "@drpatelh"
