# This file created by conda-build 3.15.1
# meta.yaml template originally from:
# /Users/distiller/project/recipes/bioconductor-tcgabiolinks, last modified Thu Oct 25 07:42:12 2018
# ------------------------------------------------

package:
    name: bioconductor-tcgabiolinks
    version: 2.8.4
source:
    sha256: fbe2b4bf27934055452be731c42c1a21f77f2702eb1b341a89eb77757d8cb8fe
    url:
        - http://bioconductor.org/packages/3.7/bioc/src/contrib/TCGAbiolinks_2.8.4.tar.gz
        - https://bioarchive.galaxyproject.org/TCGAbiolinks_2.8.4.tar.gz
        - https://depot.galaxyproject.org/software/bioconductor-tcgabiolinks/bioconductor-tcgabiolinks_2.8.4_src_all.tar.gz
build:
    number: '0'
    rpaths:
        - lib/
        - lib/R/lib/
    string: r341_0
requirements:
    host:
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        - bioconductor-s4vectors 0.18.3 r341h470a237_0
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        - bioconductor-summarizedexperiment 1.10.1 r341_0
        - bioconductor-sva 3.28.0 r341h470a237_0
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        - r-digest 0.6.18 r341hc070d10_0
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        - r-downloader 0.4 r341h6115d3f_1
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        - r-evaluate 0.11 r341h6115d3f_0
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        - r-maxstat 0.7_25 r341hc070d10_2
        - r-memoise 1.1.0 r341h6115d3f_1
        - r-mgcv 1.8_24 r341hc070d10_2
        - r-mime 0.5 r341hc070d10_2
        - r-munsell 0.5.0 r341h6115d3f_1
        - r-mvtnorm 1.0_8 r341h364d78e_0
        - r-nlme 3.1_137 r341h364d78e_0
        - r-openssl 1.0.2 r341h9f97512_0
        - r-pillar 1.3.0 r341h6115d3f_0
        - r-pkgconfig 2.0.2 r341h6115d3f_1
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        - r-readr 1.1.1 r341h9d2a408_2
        - r-reshape2 1.4.3 r341h9d2a408_2
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        - r-rsqlite 2.1.1 r341h9d2a408_0
        - r-rvest 0.3.2 r341h6115d3f_1
        - r-scales 1.0.0 r341h9d2a408_1
        - r-selectr 0.4_1 r341h6115d3f_0
        - r-shape 1.4.4 r341_1
        - r-snow 0.4_3 r341h6115d3f_0
        - r-stringi 1.2.4 r341h9d2a408_1
        - r-stringr 1.3.1 r341h6115d3f_1
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        - r-survmisc 0.5.5 r341h6115d3f_1
        - r-tibble 1.4.2 r341hc070d10_2
        - r-tidyr 0.8.1 r341h9d2a408_2
        - r-tidyselect 0.2.4 r341h9d2a408_2
        - r-utf8 1.1.4 r341hc070d10_0
        - r-viridislite 0.3.0 r341h6115d3f_1
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        - r-xml 3.98_1.16 r341hc070d10_0
        - r-xml2 1.2.0 r341h9d2a408_2
        - r-xtable 1.8_3 r341_0
        - r-yaml 2.2.0 r341hc070d10_1
        - r-zoo 1.8_3 r341hc070d10_0
        - readline 7.0 haf1bffa_1
        - tk 8.6.8 ha92aebf_0
        - wget 1.19.5 hf30b1f0_0
        - xorg-kbproto 1.0.7 h470a237_2
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        - xorg-libxau 1.0.8 h470a237_6
        - xorg-libxdmcp 1.1.2 h470a237_7
        - xorg-libxrender 0.9.10 h470a237_2
        - xorg-renderproto 0.11.1 h470a237_2
        - xorg-xproto 7.0.31 h470a237_7
        - xz 5.2.4 h470a237_1
        - zlib 1.2.11 h470a237_3
    run:
        - bioconductor-biomart >=2.36.1,<2.38.0
        - bioconductor-complexheatmap >=1.18.1,<1.20.0
        - bioconductor-consensusclusterplus >=1.44.0,<1.46.0
        - bioconductor-edaseq >=2.14.1,<2.16.0
        - bioconductor-edger >=3.22.4,<3.24.0
        - bioconductor-genefilter >=1.62.0,<1.64.0
        - bioconductor-genomeinfodb >=1.16.0,<1.18.0
        - bioconductor-genomicfeatures >=1.32.2,<1.34.0
        - bioconductor-genomicranges >=1.32.7,<1.34.0
        - bioconductor-iranges >=2.14.12,<2.16.0
        - bioconductor-limma >=3.36.5,<3.38.0
        - bioconductor-s4vectors >=0.18.3,<0.20.0
        - bioconductor-summarizedexperiment >=1.10.1,<1.12.0
        - bioconductor-sva >=3.28.0,<3.30.0
        - r-base >=3.4.1,<3.4.2.0a0
        - r-circlize
        - r-data.table
        - r-doparallel
        - r-downloader >=0.4
        - r-dplyr
        - r-ggplot2
        - r-ggrepel >=0.6.3
        - r-ggthemes
        - r-gridextra
        - r-httr >=1.2.1
        - r-jsonlite >=1.0.0
        - r-knitr
        - r-matlab
        - r-plyr
        - r-r.utils
        - r-rcolorbrewer
        - r-readr
        - r-rvest >=0.3.0
        - r-scales
        - r-selectr
        - r-stringr >=1.0.0
        - r-survival
        - r-survminer
        - r-tibble
        - r-xml >=3.98.0
        - r-xml2
test:
    commands:
        - $R -e "library('TCGAbiolinks')"
about:
    home: http://bioconductor.org/packages/3.7/bioc/html/TCGAbiolinks.html
    license: GPL (>= 3)
    summary: 'The aim of TCGAbiolinks is : i) facilitate the GDC open-access data
        retrieval, ii) prepare the data using the appropriate pre-processing strategies,
        iii) provide the means to carry out different standard analyses and iv) to
        easily reproduce earlier research results. In more detail, the package provides
        multiple methods for analysis (e.g., differential expression analysis, identifying
        differentially methylated regions) and methods for visualization (e.g., survival
        plots, volcano plots, starburst plots) in order to easily develop complete
        analysis pipelines.'
extra:
    copy_test_source_files: true
    final: true
    identifiers:
        - biotools:tcgabiolinks
        - doi:10.1093/nar/gkv1507
