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201 lines
6.6 KiB
Plaintext
201 lines
6.6 KiB
Plaintext
name = 'R'
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version = '3.0.2'
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homepage = 'http://www.r-project.org/'
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description = """R is a free software environment for statistical computing and graphics."""
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toolchain = {'name': 'goolf', 'version': '1.4.10'}
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sources = [SOURCE_TAR_GZ]
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source_urls = ['http://cran.us.r-project.org/src/base/R-%(version_major)s']
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preconfigopts = 'BLAS_LIBS="$LIBBLAS" LAPACK_LIBS="$LIBLAPACK"'
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configopts = "--with-lapack --with-blas --with-pic --enable-threads --with-x=no --enable-R-shlib"
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# some recommended packages may fail in a parallel build (e.g. Matrix),
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# and we're installing them anyway below
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configopts += " --with-recommended-packages=no"
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dependencies = [
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('libreadline', '6.2'),
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('ncurses', '5.9'),
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('libpng', '1.6.6'), # for plotting in R
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# Java bindings are built if Java is found, might as well provide it
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('Java', '1.7.0_21', '', True),
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]
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sanity_check_paths = {
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'files': [
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'bin/%s' %
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x for x in [
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'R',
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'Rscript']] +
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[
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'lib64/R/include/%s' %
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x for x in [
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'Rconfig.h',
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'Rdefines.h',
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'Rembedded.h',
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'R.h',
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'Rinterface.h',
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'Rinternals.h',
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'Rmath.h',
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'Rversion.h',
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'S.h']] +
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[
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'lib64/R/modules/%s' %
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x for x in [
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'internet.%s' %
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SHLIB_EXT,
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'lapack.%s' %
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SHLIB_EXT,
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'vfonts.%s' %
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SHLIB_EXT]] +
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[
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'lib64/R/lib/libR.%s' %
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SHLIB_EXT],
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'dirs': []}
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name_tmpl = '%(name)s_%(version)s.tar.gz'
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ext_options = {
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'source_urls': [
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# package archive
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'http://cran.r-project.org/src/contrib/Archive/%(name)s',
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'http://cran.freestatistics.org/src/contrib', # alternative for packages
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],
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'source_tmpl': name_tmpl,
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}
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# Bioconductor packages have a different download url
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bioconductor_options = {
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'source_urls': [
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'http://www.bioconductor.org/packages/release/bioc/src/contrib/',
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'http://www.bioconductor.org/packages/2.13/bioc/src/contrib/',
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],
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'source_tmpl': name_tmpl,
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}
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# some packages seem to only be in rforge, not in cran
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rforge_options = {
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'source_urls': ['http://download.r-forge.r-project.org/src/contrib/'],
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'source_tmpl': name_tmpl,
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}
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# !! order of packages is important !!
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exts_list = [
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# default libraries, only here to sanity check their presence
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'base',
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'datasets',
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'graphics',
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'grDevices',
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'grid',
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'methods',
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'splines',
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'stats',
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'stats4',
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'tools',
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'utils',
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# non-standard libraries, should be specified with fixed versions!
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('irace', '1.04', ext_options),
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('rJava', '0.9-4', ext_options),
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('lattice', '0.20-24', ext_options),
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('RColorBrewer', '1.0-5', ext_options),
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('latticeExtra', '0.6-26', ext_options),
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('Matrix', '1.1-0', ext_options),
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('png', '0.1-6', ext_options),
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('Rcpp', '0.10.6', ext_options),
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('quadprog', '1.5-5', ext_options),
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('BB', '2013.4-1', ext_options),
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('rlecuyer', '0.3-3', ext_options),
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('snow', '0.3-13', ext_options),
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('MASS', '7.3-29', ext_options),
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('class', '7.3-9', ext_options),
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('e1071', '1.6-1', ext_options),
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('nnet', '7.3-7', ext_options),
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('car', '2.0-19', ext_options),
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('colorspace', '1.2-4', ext_options),
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('robustbase', '0.9-10', ext_options),
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('sp', '1.0-14', ext_options),
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('vcd', '1.3-1', ext_options),
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('snowfall', '1.84-4', ext_options),
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('rpart', '4.1-3', ext_options),
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('mice', '2.18', ext_options),
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('nlme', '3.1-111', ext_options),
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('mgcv', '1.7-27', ext_options),
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('logistf', '1.21', ext_options),
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('akima', '0.5-11', ext_options),
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('bitops', '1.0-6', ext_options),
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('boot', '1.3-9', ext_options),
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('cluster', '1.14.4', ext_options),
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('coda', '0.16-1', ext_options),
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('codetools', '0.2-8', ext_options),
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('DBI', '0.2-7', ext_options),
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('foreign', '0.8-57', ext_options),
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('survival', '2.37-4', ext_options),
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('gam', '1.09', ext_options),
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('gamlss.data', '4.2-6', ext_options),
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('gamlss.dist', '4.2-0', ext_options),
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('hwriter', '1.3', ext_options),
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('KernSmooth', '2.23-10', ext_options),
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('zoo', '1.7-10', ext_options),
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('lmtest', '0.9-32', ext_options),
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('mnormt', '1.4-5', ext_options),
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('mvtnorm', '0.9-9996', ext_options),
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('numDeriv', '2012.9-1', ext_options),
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('pscl', '1.04.4', ext_options),
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('RSQLite', '0.11.4', ext_options),
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('sandwich', '2.3-0', ext_options),
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('sfsmisc', '1.0-24', ext_options),
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('spatial', '7.3-7', ext_options),
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('VGAM', '0.9-3', ext_options),
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('waveslim', '1.7.1', ext_options),
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('xtable', '1.7-1', ext_options),
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('profileModel', '0.5-9', ext_options),
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('brglm', '0.5-9', ext_options),
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('deSolve', '1.10-8', ext_options),
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('odesolve', '0.9-9', ext_options),
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('tseriesChaos', '0.1-13', ext_options),
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('tseries', '0.10-32', ext_options),
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('neuRosim', '0.2-10', ext_options),
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('fastICA', '1.2-0', ext_options),
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('R.methodsS3', '1.5.2', ext_options),
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('R.oo', '1.15.8', ext_options),
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('R.matlab', '2.0.5', ext_options),
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('Rniftilib', '0.0-32', ext_options),
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('BiocGenerics', '0.8.0', bioconductor_options),
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('Biobase', '2.22.0', bioconductor_options),
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('IRanges', '1.20.5', bioconductor_options),
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('AnnotationDbi', '1.24.0', bioconductor_options),
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('XVector', '0.2.0', bioconductor_options),
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('Biostrings', '2.30.0', bioconductor_options),
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('GenomicRanges', '1.14.3', bioconductor_options),
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('BSgenome', '1.30.0', bioconductor_options),
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('zlibbioc', '1.8.0', bioconductor_options),
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('Rsamtools', '1.14.1', bioconductor_options),
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('ShortRead', '1.20.0', bioconductor_options),
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('graph', '1.40.0', bioconductor_options),
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('igraph0', '0.5.7', ext_options),
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('gbm', '2.1', ext_options),
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('plyr', '1.8', ext_options),
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('dichromat', '2.0-0', ext_options),
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('Formula', '1.1-1', ext_options),
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('Hmisc', '3.13-0', ext_options),
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('stringr', '0.6.2', ext_options),
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('munsell', '0.4.2', ext_options),
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('labeling', '0.2', ext_options),
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('scales', '0.2.3', ext_options),
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('fastcluster', '1.1.11', ext_options),
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('reshape2', '1.2.2', ext_options),
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('digest', '0.6.3', ext_options),
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('gtable', '0.1.2', ext_options),
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('proto', '0.3-10', ext_options),
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('ggplot2', '0.9.3.1', ext_options),
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('leaps', '2.9', ext_options),
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('survival', '2.37-4', ext_options),
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('speff2trial', '1.0.4', ext_options),
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('nleqslv', '2.1', ext_options),
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('glmnet', '1.9-5', ext_options),
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('pim', '1.1.5.4', rforge_options),
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]
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moduleclass = 'lang'
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