{% set version="1.17" %}

package:
  name: bcftools
  version: {{ version }}

build:
  number: 1

source:
  url: https://github.com/samtools/bcftools/releases/download/{{ version }}/bcftools-{{ version }}.tar.bz2
  sha256: 01f75d8e701d85b2c759172412009cc04f29b61616ace2fa75116123de4596cc

requirements:
  build:
    - make
    - {{ compiler('c') }}
  host:
    - htslib
    - zlib
    - gsl
  run:
    - gsl
    - htslib
    # Currently removed due to size and dependency issues
    #- matplotlib # for plot-vcfstats
    #- tectonic # for plot-vcfstats
    - zlib
    - perl

test:
  commands:
    - bcftools -h
    - bcftools --version
    - bcftools plugin -lv
    - bcftools -h | grep polysomy
    - vcfutils.pl 2>&1 | grep vcfutils
    #- plot-vcfstats -h 2>&1 | grep -q "Plots output of "

about:
  home: https://github.com/samtools/bcftools
  license: GPL
  license_file: LICENSE
  summary: BCFtools is a set of utilities that manipulate variant calls in the Variant
    Call Format (VCF) and its binary counterpart BCF. All commands work transparently
    with both VCFs and BCFs, both uncompressed and BGZF-compressed.  Most commands
    accept VCF, bgzipped VCF and BCF with filetype detected automatically even when
    streaming from a pipe. Indexed VCF and BCF will work in all situations. Un-indexed
    VCF and BCF and streams will work in most, but not all situations.

extra:
  identifiers:
    - biotools:bcftools
    - usegalaxy-eu:bcftools_merge
    - doi:10.1093/bioinformatics/btp352