# This file created by conda-build 3.15.1
# meta.yaml template originally from:
# /Users/distiller/project/recipes/bioconductor-pbcmc, last modified Wed Oct 24 23:37:48 2018
# ------------------------------------------------

package:
    name: bioconductor-pbcmc
    version: 1.8.0
source:
    sha256: 8a8cab9b7217dcaca40bbf039aa808f74e3e66d992fcb69060fbfaf4bb287073
    url:
        - http://bioconductor.org/packages/3.7/bioc/src/contrib/pbcmc_1.8.0.tar.gz
        - https://bioarchive.galaxyproject.org/pbcmc_1.8.0.tar.gz
        - https://depot.galaxyproject.org/software/bioconductor-pbcmc/bioconductor-pbcmc_1.8.0_src_all.tar.gz
build:
    number: '0'
    rpaths:
        - lib/
        - lib/R/lib/
    string: r351_0
requirements:
    host:
        - bioconductor-aims 1.12.0 r351_0
        - bioconductor-annotationdbi 1.42.1 r351_0
        - bioconductor-biobase 2.40.0 r351h470a237_0
        - bioconductor-biocgenerics 0.26.0 r351_0
        - bioconductor-biocparallel 1.14.2 r351h26a2512_0
        - bioconductor-biomart 2.36.1 r351_0
        - bioconductor-genefu 2.12.0 r351_0
        - bioconductor-iranges 2.14.12 r351h470a237_0
        - bioconductor-limma 3.36.5 r351h470a237_0
        - bioconductor-s4vectors 0.18.3 r351h470a237_0
        - bioconductor-survcomp 1.30.0 r351hfc679d8_0
        - ca-certificates 2018.10.15 ha4d7672_0
        - cairo 1.14.12 h276e583_5
        - curl 7.61.0 h93b3f91_2
        - fontconfig 2.13.1 hce039c3_0
        - freetype 2.9.1 h6debe1e_4
        - gettext 0.19.8.1 h1f1d5ed_1
        - glib 2.56.2 h464dc38_0
        - graphite2 1.3.12 h7d4d677_1
        - gsl 2.2.1 h002c638_3
        - harfbuzz 1.9.0 h04dbb29_1
        - icu 58.2 hfc679d8_0
        - jpeg 9c h470a237_1
        - krb5 1.14.6 0
        - libffi 3.2.1 hfc679d8_5
        - libgfortran 3.0.0 1
        - libiconv 1.15 h470a237_3
        - libpng 1.6.35 ha92aebf_2
        - libssh2 1.8.0 h5b517e9_2
        - libtiff 4.0.9 he6b73bb_2
        - libxml2 2.9.8 h422b904_5
        - ncurses 6.1 hfc679d8_1
        - openssl 1.0.2p h470a237_1
        - pango 1.40.14 he752989_2
        - pcre 8.41 hfc679d8_3
        - pixman 0.34.0 h470a237_3
        - r-amap 0.8_16 r351he0ffe0d_0
        - r-assertthat 0.2.0 r351h6115d3f_1
        - r-base 3.5.1 h4fe35fd_1
        - r-bh 1.66.0_1 r351_1
        - r-bit 1.1_12 r351h470a237_2
        - r-bit64 0.9_7 r351hc070d10_0
        - r-bitops 1.0_6 r351hc070d10_2
        - r-blob 1.1.1 r351_1
        - r-bootstrap 2017.2 r351h364d78e_3
        - r-class 7.3_14 r351hc070d10_2
        - r-cli 1.0.0 r351h6115d3f_1
        - r-cluster 2.0.7_1 r351h364d78e_0
        - r-colorspace 1.3_2 r351hc070d10_2
        - r-cowplot 0.9.3 r351h6115d3f_1
        - r-crayon 1.3.4 r351h6115d3f_1
        - r-curl 3.2 r351hc070d10_2
        - r-dbi 1.0.0 r351h6115d3f_1
        - r-digest 0.6.18 r351hc070d10_0
        - r-e1071 1.7_0 r351h9d2a408_0
        - r-fansi 0.3.0 r351hc070d10_0
        - r-formatr 1.5 r351h6115d3f_1
        - r-futile.logger 1.4.3 r351h6115d3f_1
        - r-futile.options 1.0.1 r351h6115d3f_0
        - r-ggplot2 3.0.0 r351h6115d3f_1
        - r-glue 1.3.0 r351h470a237_2
        - r-gridextra 2.3 r351h6115d3f_1
        - r-gtable 0.2.0 r351h6115d3f_1
        - r-hms 0.4.2 r351h6115d3f_0
        - r-httr 1.3.1 r351h6115d3f_1
        - r-ic10 1.4.2 r351h6115d3f_0
        - r-ic10trainingdata 1.3.1 r351h6115d3f_0
        - r-ipred 0.9_7 r351hc070d10_1
        - r-jsonlite 1.5 r351hc070d10_2
        - r-kernsmooth 2.23_15 r351h364d78e_2
        - r-labeling 0.3 r351h6115d3f_1
        - r-lambda.r 1.2.3 r351h6115d3f_0
        - r-lattice 0.20_35 r351hc070d10_0
        - r-lava 1.6.3 r351h6115d3f_1
        - r-lazyeval 0.2.1 r351hc070d10_2
        - r-magrittr 1.5 r351h6115d3f_1
        - r-mass 7.3_50 r351hc070d10_2
        - r-matrix 1.2_14 r351hc070d10_2
        - r-mclust 5.4.1 r351h364d78e_2
        - r-memoise 1.1.0 r351h6115d3f_1
        - r-mgcv 1.8_24 r351hc070d10_2
        - r-mime 0.5 r351hc070d10_2
        - r-munsell 0.5.0 r351h6115d3f_1
        - r-nlme 3.1_137 r351h364d78e_0
        - r-nnet 7.3_12 r351hc070d10_2
        - r-numderiv 2016.8_1 r351h6115d3f_1
        - r-openssl 1.0.2 r351h9f97512_0
        - r-pamr 1.55 r351h364d78e_2
        - r-pillar 1.3.0 r351h6115d3f_0
        - r-pkgconfig 2.0.2 r351h6115d3f_1
        - r-plogr 0.2.0 r351h6115d3f_1
        - r-plyr 1.8.4 r351h9d2a408_2
        - r-prettyunits 1.0.2 r351h6115d3f_1
        - r-prodlim 2018.04.18 r351h9d2a408_2
        - r-progress 1.2.0 r351h6115d3f_2
        - r-r6 2.2.2 r351h6115d3f_1
        - r-rcolorbrewer 1.1_2 r351h6115d3f_1
        - r-rcpp 0.12.17 r351h9d2a408_2
        - r-rcurl 1.95_4.11 r351h86b9717_2
        - r-reshape2 1.4.3 r351h9d2a408_2
        - r-rlang 0.3.0.1 r351h470a237_0
        - r-rmeta 3.0 r351h6115d3f_1
        - r-rpart 4.1_13 r351hc070d10_2
        - r-rsqlite 2.1.1 r351h9d2a408_0
        - r-scales 1.0.0 r351h9d2a408_1
        - r-snow 0.4_3 r351h6115d3f_0
        - r-squarem 2017.10_1 r351h6115d3f_1
        - r-stringi 1.2.4 r351h9d2a408_1
        - r-stringr 1.3.1 r351h6115d3f_1
        - r-suppdists 1.1_9.4 r351h9d2a408_1
        - r-survival 2.42_6 r351hc070d10_1
        - r-survivalroc 1.0.3 r351hc070d10_3
        - r-tibble 1.4.2 r351hc070d10_2
        - r-utf8 1.1.4 r351hc070d10_0
        - r-viridislite 0.3.0 r351h6115d3f_1
        - r-withr 2.1.2 r351h6115d3f_0
        - r-xml 3.98_1.16 r351hc070d10_0
        - readline 7.0 haf1bffa_1
        - tk 8.6.8 ha92aebf_0
        - xz 5.2.4 h470a237_1
        - zlib 1.2.11 h470a237_3
    run:
        - bioconductor-biobase >=2.40.0,<2.42.0
        - bioconductor-biocgenerics >=0.26.0,<0.28.0
        - bioconductor-biocparallel >=1.14.2,<1.16.0
        - bioconductor-genefu >=2.12.0,<2.14.0
        - bioconductor-limma >=3.36.5,<3.38.0
        - r-base >=3.5.1,<3.5.2.0a0
        - r-cowplot
        - r-ggplot2
        - r-gridextra
        - r-reshape2
test:
    commands:
        - $R -e "library('pbcmc')"
about:
    home: http://bioconductor.org/packages/3.7/bioc/html/pbcmc.html
    license: GPL (>=2)
    summary: The pbcmc package characterizes uncertainty assessment on gene expression
        classifiers, a. k. a. molecular signatures, based on a permutation test. In
        order to achieve this goal, synthetic simulated subjects are obtained by permutations
        of gene labels. Then, each synthetic subject is tested against the corresponding
        subtype classifier to build the null distribution. Thus, classification confidence
        measurement can be provided for each subject, to assist physician therapy
        choice. At present, it is only available for PAM50 implementation in genefu
        package but it can easily be extend to other molecular signatures.
extra:
    copy_test_source_files: true
    final: true
    identifiers:
        - biotools:pbcmc
        - doi:10.1038/nmeth.3252
