package:
  name: bowtie2
  version: 2.2.5

source:
  url: http://downloads.sourceforge.net/project/bowtie-bio/bowtie2/2.2.5/bowtie2-2.2.5-source.zip
  sha256: e22766dd9421c10e82a3e207ee1f0eb924c025b909ad5fffa36633cd7978d3b0

build:
  number: 6
  skip: True  # [osx]

requirements:
  build:
    - {{ compiler('cxx') }}
  host:
    - python
  run:
    - python
    - perl

test:
  commands:
    - bowtie2 --version
    - bowtie2-build --help
    - bowtie2-inspect-l --help
    - bowtie2-align-s --help

about:
  home: 'http://bowtie-bio.sourceforge.net/bowtie2/index.shtml'
  license: GPLv3
  summary: 'Bowtie 2 is an ultrafast and memory-efficient tool for aligning sequencing
    reads to long reference sequences. It is particularly good at aligning reads of
    about 50 up to 100s or 1,000s of characters, and particularly good at aligning
    to relatively long (e.g. mammalian) genomes. Bowtie 2 indexes the genome with
    an FM Index to keep its memory footprint small: for the human genome, its memory
    footprint is typically around 3.2 GB. Bowtie 2 supports gapped, local, and paired-end
    alignment modes.   http://bowtie-bio.sourceforge.net/bowtie2/index.shtml '

extra:
  identifiers:
    - biotools:bowtie2
    - doi:10.1038/nmeth.1923
