distributable:
  url: https://github.com/samtools/samtools/releases/download/{{version.raw}}/samtools-{{version.raw}}.tar.bz2
  strip-components: 1

versions:
  github: samtools/samtools

dependencies:
  htslib.org: '*'
  invisible-island.net/ncurses: '*'
  zlib.net: 1

build:
  dependencies:
    tea.xyz/gx/make: '*'
    tea.xyz/gx/cc: c99
  script:
    - ./configure $ARGS
    - make --jobs {{ hw.concurrency }} install
  env:
    ARGS:
      - --prefix="{{prefix}}"
      - --with-htslib={{deps.htslib.org.prefix}}

provides:
  - bin/ace2sam
  - bin/blast2sam.pl
  - bin/bowtie2sam.pl
  - bin/export2sam.pl
  - bin/fasta-sanitize.pl
  - bin/interpolate_sam.pl
  - bin/maq2sam-long
  - bin/maq2sam-short
  - bin/md5fa
  - bin/md5sum-lite
  - bin/novo2sam.pl
  - bin/plot-ampliconstats
  - bin/plot-bamstats
  - bin/psl2sam.pl
  - bin/sam2vcf.pl
  - bin/samtools
  - bin/samtools.pl
  - bin/seq_cache_populate.pl
  - bin/soap2sam.pl
  - bin/wgsim
  - bin/wgsim_eval.pl
  - bin/zoom2sam.pl

test: |
  samtools faidx test.fasta
  test "$(cat test.fasta.fai)" = "U00096.2:1-70	70	15	70	71"