r-modules: fix git2r, TAQMNGR, and WhopGenome

This commit is contained in:
Peter Simons 2015-03-06 11:21:21 +01:00
parent de8e1bcb03
commit eaf728c3d3

View file

@ -198,131 +198,132 @@ let
# tweaks for the individual packages and "in self" follow
packagesWithRDepends = {
# sort -t '=' -k 2
FactoMineR = [ self.car ];
};
packagesWithNativeBuildInputs = {
# sort -t '=' -k 2
graphscan = [ pkgs.gsl ];
RAppArmor = [ pkgs.apparmor ];
BNSP = [ pkgs.gsl ];
SOD = [ pkgs.cudatoolkit ]; # requres CL/cl.h
curl = [ pkgs.curl pkgs.openldap ];
Rssa = [ pkgs.fftw ];
fftw = [ pkgs.fftw ];
fftwtools = [ pkgs.fftw ];
kza = [ pkgs.fftw ];
mwaved = [ pkgs.fftw ];
spate = [ pkgs.fftw ];
chebpol = [ pkgs.fftw ];
seewave = [ pkgs.fftw pkgs.libsndfile ];
rgeos = [ pkgs.geos ];
Rglpk = [ pkgs.glpk ];
RCA = [ pkgs.gmp ];
gmp = [ pkgs.gmp ];
rcdd = [ pkgs.gmp ];
Rlibeemd = [ pkgs.gsl ];
igraph = [ pkgs.gmp ];
glpkAPI = [ pkgs.gmp pkgs.glpk ];
sdcTable = [ pkgs.gmp pkgs.glpk ];
Rmpfr = [ pkgs.gmp pkgs.mpfr ];
Formula = [ pkgs.gmp ];
abn = [ pkgs.gsl ];
adimpro = [ pkgs.imagemagick ];
audio = [ pkgs.portaudio ];
BayesSAE = [ pkgs.gsl ];
BayesVarSel = [ pkgs.gsl ];
HiCseg = [ pkgs.gsl ];
KFKSDS = [ pkgs.gsl ];
R2GUESS = [ pkgs.gsl ];
RcppZiggurat = [ pkgs.gsl ];
SemiCompRisks = [ pkgs.gsl ];
VBLPCM = [ pkgs.gsl ];
abn = [ pkgs.gsl ];
BayesXsrc = [ pkgs.readline pkgs.ncurses ];
bigGP = [ pkgs.openmpi ];
bnpmr = [ pkgs.gsl ];
BNSP = [ pkgs.gsl ];
cairoDevice = [ pkgs.gtk2 ];
Cairo = [ pkgs.libtiff pkgs.libjpeg pkgs.cairo ];
CARramps = [ pkgs.linuxPackages.nvidia_x11 pkgs.liblapack ];
chebpol = [ pkgs.fftw ];
cit = [ pkgs.gsl ];
curl = [ pkgs.curl pkgs.openldap ];
devEMF = [ pkgs.xlibs.libXft ];
diversitree = [ pkgs.gsl pkgs.fftw ];
EMCluster = [ pkgs.liblapack ];
fftw = [ pkgs.fftw ];
fftwtools = [ pkgs.fftw ];
Formula = [ pkgs.gmp ];
geoCount = [ pkgs.gsl ];
git2r = [ pkgs.zlib ];
glpkAPI = [ pkgs.gmp pkgs.glpk ];
gmp = [ pkgs.gmp ];
graphscan = [ pkgs.gsl ];
gsl = [ pkgs.gsl ];
HiCseg = [ pkgs.gsl ];
igraph = [ pkgs.gmp ];
JavaGD = [ pkgs.jdk ];
jpeg = [ pkgs.libjpeg ];
KFKSDS = [ pkgs.gsl ];
kza = [ pkgs.fftw ];
libamtrack = [ pkgs.gsl ];
mixcat = [ pkgs.gsl ];
outbreaker = [ pkgs.gsl ];
ridge = [ pkgs.gsl ];
simplexreg = [ pkgs.gsl ];
stsm = [ pkgs.gsl ];
survSNP = [ pkgs.gsl ];
topicmodels = [ pkgs.gsl ];
RcppGSL = [ pkgs.gsl ];
bnpmr = [ pkgs.gsl ];
V8 = [ pkgs.v8 ];
geoCount = [ pkgs.gsl ];
devEMF = [ pkgs.xlibs.libXft ];
gsl = [ pkgs.gsl ];
mvabund = [ pkgs.gsl ];
diversitree = [ pkgs.gsl pkgs.fftw ];
TKF = [ pkgs.gsl ];
VBmix = [ pkgs.gsl pkgs.fftw pkgs.qt4 ];
RGtk2 = [ pkgs.gtk2 ];
cairoDevice = [ pkgs.gtk2 ];
adimpro = [ pkgs.imagemagick ];
rjags = [ pkgs.jags ];
runjags = [ pkgs.jags ];
JavaGD = [ pkgs.jdk ];
RODBC = [ pkgs.libiodbc ];
RODBCext = [ pkgs.libiodbc ];
jpeg = [ pkgs.libjpeg ];
EMCluster = [ pkgs.liblapack ];
png = [ pkgs.libpng ];
pbdMPI = [ pkgs.openmpi ];
bigGP = [ pkgs.openmpi ];
rtiff = [ pkgs.libtiff ];
tiff = [ pkgs.libtiff ];
Cairo = [ pkgs.libtiff pkgs.libjpeg pkgs.cairo ];
XML = [ pkgs.libtool pkgs.libxml2 pkgs.xmlsec pkgs.libxslt ];
rpud = [ pkgs.linuxPackages.nvidia_x11 ];
CARramps = [ pkgs.linuxPackages.nvidia_x11 pkgs.liblapack ];
rgl = [ pkgs.mesa pkgs.x11 ];
ncdf = [ pkgs.netcdf ];
mwaved = [ pkgs.fftw ];
ncdf4 = [ pkgs.netcdf ];
pbdNCDF4 = [ pkgs.netcdf ];
RNetCDF = [ pkgs.netcdf pkgs.udunits ];
ncdf = [ pkgs.netcdf ];
nloptr = [ pkgs.nlopt ];
npRmpi = [ pkgs.openmpi ];
pbdPROF = [ pkgs.openmpi ];
sprint = [ pkgs.openmpi ];
Rmpi = [ pkgs.openmpi ];
openssl = [ pkgs.openssl ];
outbreaker = [ pkgs.gsl ];
pbdMPI = [ pkgs.openmpi ];
pbdNCDF4 = [ pkgs.netcdf ];
pbdPROF = [ pkgs.openmpi ];
PKI = [ pkgs.openssl ];
png = [ pkgs.libpng ];
PopGenome = [ pkgs.zlib ];
proj4 = [ pkgs.proj ];
qtbase = [ pkgs.qt4 ];
qtpaint = [ pkgs.qt4 ];
R2GUESS = [ pkgs.gsl ];
R2SWF = [ pkgs.zlib pkgs.libpng pkgs.freetype ];
RAppArmor = [ pkgs.apparmor ];
rbamtools = [ pkgs.zlib ];
RCA = [ pkgs.gmp ];
rcdd = [ pkgs.gmp ];
RcppCNPy = [ pkgs.zlib ];
RcppGSL = [ pkgs.gsl ];
RcppOctave = [ pkgs.zlib pkgs.bzip2 pkgs.icu pkgs.lzma pkgs.pcre pkgs.octave ];
RcppZiggurat = [ pkgs.gsl ];
rgdal = [ pkgs.proj pkgs.gdal ];
rgeos = [ pkgs.geos ];
rgl = [ pkgs.mesa pkgs.x11 ];
Rglpk = [ pkgs.glpk ];
RGtk2 = [ pkgs.gtk2 ];
Rhpc = [ pkgs.zlib pkgs.bzip2 pkgs.icu pkgs.lzma pkgs.openmpi pkgs.pcre ];
ridge = [ pkgs.gsl ];
RJaCGH = [ pkgs.zlib ];
rjags = [ pkgs.jags ];
rJava = [ pkgs.zlib pkgs.bzip2 pkgs.icu pkgs.lzma pkgs.pcre pkgs.jdk pkgs.libzip ];
Rlibeemd = [ pkgs.gsl ];
rmatio = [ pkgs.zlib ];
Rmpfr = [ pkgs.gmp pkgs.mpfr ];
Rmpi = [ pkgs.openmpi ];
RMySQL = [ pkgs.zlib pkgs.mysql ];
RNetCDF = [ pkgs.netcdf pkgs.udunits ];
RODBCext = [ pkgs.libiodbc ];
RODBC = [ pkgs.libiodbc ];
rpg = [ pkgs.postgresql ];
rphast = [ pkgs.pcre pkgs.zlib pkgs.bzip2 pkgs.gzip pkgs.readline ];
Rpoppler = [ pkgs.poppler ];
RPostgreSQL = [ pkgs.postgresql ];
RProtoBuf = [ pkgs.protobuf ];
rpud = [ pkgs.linuxPackages.nvidia_x11 ];
rPython = [ pkgs.python ];
RSclient = [ pkgs.openssl ];
Rserve = [ pkgs.openssl ];
Rpoppler = [ pkgs.poppler ];
audio = [ pkgs.portaudio ];
rpg = [ pkgs.postgresql ];
RPostgreSQL = [ pkgs.postgresql ];
ssanv = [ pkgs.proj ];
proj4 = [ pkgs.proj ];
rgdal = [ pkgs.proj pkgs.gdal ];
RProtoBuf = [ pkgs.protobuf ];
rPython = [ pkgs.python ];
qtpaint = [ pkgs.qt4 ];
qtbase = [ pkgs.qt4 ];
BayesXsrc = [ pkgs.readline pkgs.ncurses ];
udunits2 = [ pkgs.udunits pkgs.expat ];
tkrplot = [ pkgs.xlibs.libX11 ];
rzmq = [ pkgs.zeromq3 ];
PopGenome = [ pkgs.zlib ];
RJaCGH = [ pkgs.zlib ];
RcppCNPy = [ pkgs.zlib ];
rbamtools = [ pkgs.zlib ];
rmatio = [ pkgs.zlib ];
RVowpalWabbit = [ pkgs.zlib pkgs.boost ];
seqminer = [ pkgs.zlib pkgs.bzip2 ];
seqinr = [ pkgs.zlib ];
rphast = [ pkgs.pcre pkgs.zlib pkgs.bzip2 pkgs.gzip pkgs.readline ];
Rssa = [ pkgs.fftw ];
rtfbs = [ pkgs.zlib pkgs.pcre pkgs.bzip2 pkgs.gzip pkgs.readline ];
Rhpc = [ pkgs.zlib pkgs.bzip2 pkgs.icu pkgs.lzma pkgs.openmpi pkgs.pcre ];
rtiff = [ pkgs.libtiff ];
runjags = [ pkgs.jags ];
RVowpalWabbit = [ pkgs.zlib pkgs.boost ];
rzmq = [ pkgs.zeromq3 ];
SAVE = [ pkgs.zlib pkgs.bzip2 pkgs.icu pkgs.lzma pkgs.pcre ];
RcppOctave = [ pkgs.zlib pkgs.bzip2 pkgs.icu pkgs.lzma pkgs.pcre pkgs.octave ];
rJava = [ pkgs.zlib pkgs.bzip2 pkgs.icu pkgs.lzma pkgs.pcre pkgs.jdk pkgs.libzip ];
R2SWF = [ pkgs.zlib pkgs.libpng pkgs.freetype ];
sysfonts = [ pkgs.zlib pkgs.libpng pkgs.freetype ];
sdcTable = [ pkgs.gmp pkgs.glpk ];
seewave = [ pkgs.fftw pkgs.libsndfile ];
SemiCompRisks = [ pkgs.gsl ];
seqinr = [ pkgs.zlib ];
seqminer = [ pkgs.zlib pkgs.bzip2 ];
showtext = [ pkgs.zlib pkgs.libpng pkgs.icu pkgs.freetype ];
simplexreg = [ pkgs.gsl ];
SOD = [ pkgs.cudatoolkit ]; # requres CL/cl.h
spate = [ pkgs.fftw ];
sprint = [ pkgs.openmpi ];
ssanv = [ pkgs.proj ];
stsm = [ pkgs.gsl ];
survSNP = [ pkgs.gsl ];
sysfonts = [ pkgs.zlib pkgs.libpng pkgs.freetype ];
TAQMNGR = [ pkgs.zlib ];
tiff = [ pkgs.libtiff ];
TKF = [ pkgs.gsl ];
tkrplot = [ pkgs.xlibs.libX11 ];
topicmodels = [ pkgs.gsl ];
udunits2 = [ pkgs.udunits pkgs.expat ];
V8 = [ pkgs.v8 ];
VBLPCM = [ pkgs.gsl ];
VBmix = [ pkgs.gsl pkgs.fftw pkgs.qt4 ];
WhopGenome = [ pkgs.zlib ];
XBRL = [ pkgs.zlib pkgs.libxml2 ];
RMySQL = [ pkgs.zlib pkgs.mysql ];
XML = [ pkgs.libtool pkgs.libxml2 pkgs.xmlsec pkgs.libxslt ];
};
packagesWithBuildInputs = {
@ -847,6 +848,7 @@ let
"RAM" # requires Heatplus
"RAPIDR" # requires Biostrings, Rsamtools, and GenomicRanges
"RbioRXN" # requires fmcsR, and KEGGREST
"RcppAPT" # configure script depends on /bin/sh
"Rcell" # requires EBImage
"RcmdrPlugin_seeg" # requires seeg
"Rcplex" # requires cplexAPI