{% set version = "2.27.5" %}
{% set sha256 = "131ca3e0626a3ef12e8399795e7a49f829bb4e85d71b489bf4f231d21a6c3199" %}

package:
  name: picard
  version: '{{ version }}'

source:
  url: https://github.com/broadinstitute/picard/releases/download/{{ version }}/picard.jar
  sha256: '{{ sha256 }}'

build:
  noarch: generic
  number: 0

requirements:
  run:
    - openjdk >=8
    - r-base

test:
  commands:
    - "bash -c 'picard 2>&1 | grep USAGE:'"

about:
  home: http://broadinstitute.github.io/picard/
  license: MIT
  license_family: MIT
  summary: Java tools for working with NGS data in the BAM format
  description: >- 
    Java tools for working with NGS data in the BAM format.
    This package depends on 'r-base' because Picard requires R to run
    some of its metrics commands. The 'picard-slim' package offers an 
    installation of Picard without the  'r-base' dependency. 
  dev_url: https://github.com/broadinstitute/picard

extra:
  identifiers:
    - usegalaxy-eu:picard_MarkDuplicates