{% set version = "1.50.2" %}
{% set name = "GenomicFeatures" %}
{% set bioc = "3.16" %}

package:
  name: 'bioconductor-{{ name|lower }}'
  version: '{{ version }}'
source:
  url:
    - 'https://bioconductor.org/packages/{{ bioc }}/bioc/src/contrib/{{ name }}_{{ version }}.tar.gz'
    - 'https://bioarchive.galaxyproject.org/{{ name }}_{{ version }}.tar.gz'
    - 'https://depot.galaxyproject.org/software/bioconductor-{{ name|lower }}/bioconductor-{{ name|lower }}_{{ version }}_src_all.tar.gz'
  md5: 46bdd1b4fc5587cdad9a6a01122511e8
build:
  number: 0
  rpaths:
    - lib/R/lib/
    - lib/
  noarch: generic
# Suggests: RMariaDB, org.Mm.eg.db, org.Hs.eg.db, BSgenome, BSgenome.Hsapiens.UCSC.hg19 (>= 1.3.17), BSgenome.Celegans.UCSC.ce11, BSgenome.Dmelanogaster.UCSC.dm3 (>= 1.3.17), mirbase.db, FDb.UCSC.tRNAs, TxDb.Hsapiens.UCSC.hg19.knownGene, TxDb.Celegans.UCSC.ce11.ensGene, TxDb.Dmelanogaster.UCSC.dm3.ensGene (>= 2.7.1), TxDb.Mmusculus.UCSC.mm10.knownGene (>= 3.4.7), TxDb.Hsapiens.UCSC.hg19.lincRNAsTranscripts, TxDb.Hsapiens.UCSC.hg38.knownGene (>= 3.4.6), SNPlocs.Hsapiens.dbSNP144.GRCh38, Rsamtools, pasillaBamSubset (>= 0.0.5), GenomicAlignments (>= 1.15.7), ensembldb, AnnotationFilter, RUnit, BiocStyle, knitr, markdown
requirements:
  host:
    - 'bioconductor-annotationdbi >=1.60.0,<1.61.0'
    - 'bioconductor-biobase >=2.58.0,<2.59.0'
    - 'bioconductor-biocgenerics >=0.44.0,<0.45.0'
    - 'bioconductor-biocio >=1.8.0,<1.9.0'
    - 'bioconductor-biomart >=2.54.0,<2.55.0'
    - 'bioconductor-biostrings >=2.66.0,<2.67.0'
    - 'bioconductor-genomeinfodb >=1.34.0,<1.35.0'
    - 'bioconductor-genomicranges >=1.50.0,<1.51.0'
    - 'bioconductor-iranges >=2.32.0,<2.33.0'
    - 'bioconductor-rtracklayer >=1.58.0,<1.59.0'
    - 'bioconductor-s4vectors >=0.36.0,<0.37.0'
    - 'bioconductor-xvector >=0.38.0,<0.39.0'
    - r-base
    - r-dbi
    - r-rcurl
    - 'r-rsqlite >=2.0'
  run:
    - 'bioconductor-annotationdbi >=1.60.0,<1.61.0'
    - 'bioconductor-biobase >=2.58.0,<2.59.0'
    - 'bioconductor-biocgenerics >=0.44.0,<0.45.0'
    - 'bioconductor-biocio >=1.8.0,<1.9.0'
    - 'bioconductor-biomart >=2.54.0,<2.55.0'
    - 'bioconductor-biostrings >=2.66.0,<2.67.0'
    - 'bioconductor-genomeinfodb >=1.34.0,<1.35.0'
    - 'bioconductor-genomicranges >=1.50.0,<1.51.0'
    - 'bioconductor-iranges >=2.32.0,<2.33.0'
    - 'bioconductor-rtracklayer >=1.58.0,<1.59.0'
    - 'bioconductor-s4vectors >=0.36.0,<0.37.0'
    - 'bioconductor-xvector >=0.38.0,<0.39.0'
    - r-base
    - r-dbi
    - r-rcurl
    - 'r-rsqlite >=2.0'
test:
  commands:
    - '$R -e "library(''{{ name }}'')"'
about:
  home: 'https://bioconductor.org/packages/{{ bioc }}/bioc/html/{{ name }}.html'
  license: Artistic-2.0
  summary: 'Conveniently import and query gene models'
  description: 'A set of tools and methods for making and manipulating transcript centric annotations. With these tools the user can easily download the genomic locations of the transcripts, exons and cds of a given organism, from either the UCSC Genome Browser or a BioMart database (more sources will be supported in the future). This information is then stored in a local database that keeps track of the relationship between transcripts, exons, cds and genes. Flexible methods are provided for extracting the desired features in a convenient format.'
extra:
  identifiers:
    - biotools:genomicfeatures
  parent_recipe:
    name: bioconductor-genomicfeatures
    path: recipes/bioconductor-genomicfeatures
    version: 1.32.3