{% set version="1.34.2" %}
{% set name="ShortRead" %}
{% set bioc="3.5" %}

package:
  name: 'bioconductor-{{ name|lower}}'
  version: '{{ version }}'
source:
  fn: '{{ name }}_{{ version }}.tar.gz'
  url:
    - 'http://bioconductor.org/packages/{{ bioc }}/bioc/src/contrib/{{ name }}_{{ version }}.tar.gz'
    - 'https://depot.galaxyproject.org/software/{{ name }}/{{ name }}_{{ version }}_src_all.tar.gz'
  sha256: fbf4066f9e4207a9c5f6c123105a1d3f238577892f8a6fb3af9abb4c07932a3d
build:
  number: 0
  rpaths:
    - lib/R/lib/
    - lib/
requirements:
  build:
    - bioconductor-biobase
    - 'bioconductor-biocgenerics >=0.11.3'
    - bioconductor-biocparallel
    - 'bioconductor-biostrings >=2.37.1'
    - 'bioconductor-genomeinfodb >=1.1.19'
    - 'bioconductor-genomicalignments >=1.5.4'
    - 'bioconductor-genomicranges >=1.21.6'
    - 'bioconductor-iranges >=2.3.7'
    - 'bioconductor-rsamtools >=1.21.4'
    - 'bioconductor-s4vectors >=0.13.8'
    - bioconductor-zlibbioc
    - r-base
    - r-hwriter
    - r-lattice
    - r-latticeextra
    - zlib {{CONDA_ZLIB}}*
  run:
    - bioconductor-biobase
    - 'bioconductor-biocgenerics >=0.11.3'
    - bioconductor-biocparallel
    - 'bioconductor-biostrings >=2.37.1'
    - 'bioconductor-genomeinfodb >=1.1.19'
    - 'bioconductor-genomicalignments >=1.5.4'
    - 'bioconductor-genomicranges >=1.21.6'
    - 'bioconductor-iranges >=2.3.7'
    - 'bioconductor-rsamtools >=1.21.4'
    - 'bioconductor-s4vectors >=0.13.8'
    - bioconductor-zlibbioc
    - r-base
    - r-hwriter
    - r-lattice
    - r-latticeextra
    - zlib {{CONDA_ZLIB}}*
test:
  commands:
    - '$R -e "library(''{{ name }}'')"'
about:
  home: 'http://bioconductor.org/packages/{{ bioc }}/bioc/html/{{ name }}.html'
  license: Artistic-2.0
  summary: 'This package implements sampling, iteration, and input of FASTQ files. The package includes functions for filtering and trimming reads, and for generating a quality assessment report. Data are represented as DNAStringSet-derived objects, and easily manipulated for a diversity of purposes.  The package also contains legacy support for early single-end, ungapped alignment formats.'
