{% set version = "1.12.0" %}
{% set name = "Cogito" %}
{% set bioc = "3.20" %}

about:
  description: Biological studies often consist of multiple conditions which are examined with different laboratory set ups like RNA-sequencing or ChIP-sequencing. To get an overview about the whole resulting data set, Cogito provides an automated, complete, reproducible and clear report about all samples and basic comparisons between all different samples. This report can be used as documentation about the data set or as starting point for further custom analysis.
  home: https://bioconductor.org/packages/{{ bioc }}/bioc/html/{{ name }}.html
  license: LGPL-3
  license_file: '{{ environ["PREFIX"] }}/lib/R/share/licenses/LGPL-3'
  summary: Compare genomic intervals tool - Automated, complete, reproducible and clear report about genomic and epigenomic data sets

build:
  noarch: generic
  number: 0
  rpaths:
    - lib/R/lib/
    - lib/
  run_exports: '{{ pin_subpackage("bioconductor-cogito", max_pin="x.x") }}'

package:
  name: bioconductor-{{ name|lower }}
  version: '{{ version }}'

# Suggests: BiocStyle, knitr, markdown, testthat (>= 3.0.0)
requirements:
  host:
    - bioconductor-annotationdbi >=1.68.0,<1.69.0
    - bioconductor-genomeinfodb >=1.42.0,<1.43.0
    - bioconductor-genomicfeatures >=1.58.0,<1.59.0
    - bioconductor-genomicranges >=1.58.0,<1.59.0
    - bioconductor-s4vectors >=0.44.0,<0.45.0
    - bioconductor-txdb.mmusculus.ucsc.mm9.knowngene >=3.2.0,<3.3.0
    - r-base
    - r-biocmanager
    - r-entropy
    - r-ggplot2
    - r-jsonlite
    - r-magrittr
    - r-rmarkdown
  run:
    - bioconductor-annotationdbi >=1.68.0,<1.69.0
    - bioconductor-genomeinfodb >=1.42.0,<1.43.0
    - bioconductor-genomicfeatures >=1.58.0,<1.59.0
    - bioconductor-genomicranges >=1.58.0,<1.59.0
    - bioconductor-s4vectors >=0.44.0,<0.45.0
    - bioconductor-txdb.mmusculus.ucsc.mm9.knowngene >=3.2.0,<3.3.0
    - r-base
    - r-biocmanager
    - r-entropy
    - r-ggplot2
    - r-jsonlite
    - r-magrittr
    - r-rmarkdown

source:
  md5: 8854881ef6815a33908f11ebd03c81ab
  url:
    - https://bioconductor.org/packages/{{ bioc }}/bioc/src/contrib/{{ name }}_{{ version }}.tar.gz
    - https://bioconductor.org/packages/{{ bioc }}/bioc/src/contrib/Archive/{{ name }}/{{ 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

test:
  commands:
    - $R -e "library('{{ name }}')"

