Merge pull request #21722 from mimadrid/fix/r-modules
Fix a lot of rPackages
This commit is contained in:
Peter Simons
GitHub
commit
c5f8c7fe36
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@ -240,30 +240,30 @@ let
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audio = [ pkgs.portaudio ];
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BayesSAE = [ pkgs.gsl_1 ];
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BayesVarSel = [ pkgs.gsl_1 ];
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BayesXsrc = [ pkgs.readline pkgs.ncurses ];
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BayesXsrc = [ pkgs.readline.dev pkgs.ncurses ];
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bigGP = [ pkgs.openmpi ];
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BiocCheck = [ pkgs.which ];
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Biostrings = [ pkgs.zlib ];
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bnpmr = [ pkgs.gsl_1 ];
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BNSP = [ pkgs.gsl_1 ];
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cairoDevice = [ pkgs.gtk2 ];
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Cairo = [ pkgs.libtiff pkgs.libjpeg pkgs.cairo ];
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cairoDevice = [ pkgs.gtk2.dev ];
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Cairo = [ pkgs.libtiff pkgs.libjpeg pkgs.cairo.dev pkgs.x11 pkgs.fontconfig.lib ];
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Cardinal = [ pkgs.which ];
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chebpol = [ pkgs.fftw ];
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ChemmineOB = [ pkgs.openbabel pkgs.pkgconfig ];
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cit = [ pkgs.gsl_1 ];
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curl = [ pkgs.curl.dev ];
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devEMF = [ pkgs.xorg.libXft ];
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devEMF = [ pkgs.xorg.libXft.dev pkgs.x11 ];
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diversitree = [ pkgs.gsl_1 pkgs.fftw ];
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EMCluster = [ pkgs.liblapack ];
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fftw = [ pkgs.fftw ];
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fftwtools = [ pkgs.fftw ];
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fftw = [ pkgs.fftw.dev ];
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fftwtools = [ pkgs.fftw.dev ];
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Formula = [ pkgs.gmp ];
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geoCount = [ pkgs.gsl_1 ];
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git2r = [ pkgs.zlib pkgs.openssl ];
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git2r = [ pkgs.zlib.dev pkgs.openssl.dev ];
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GLAD = [ pkgs.gsl_1 ];
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glpkAPI = [ pkgs.gmp pkgs.glpk ];
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gmp = [ pkgs.gmp ];
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gmp = [ pkgs.gmp.dev ];
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graphscan = [ pkgs.gsl_1 ];
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gsl = [ pkgs.gsl_1 ];
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h5 = [ pkgs.hdf5-cpp pkgs.which ];
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@ -272,13 +272,13 @@ let
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iBMQ = [ pkgs.gsl_1 ];
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igraph = [ pkgs.gmp ];
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JavaGD = [ pkgs.jdk ];
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jpeg = [ pkgs.libjpeg ];
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jpeg = [ pkgs.libjpeg.dev ];
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KFKSDS = [ pkgs.gsl_1 ];
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kza = [ pkgs.fftw ];
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kza = [ pkgs.fftw.dev ];
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libamtrack = [ pkgs.gsl_1 ];
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mixcat = [ pkgs.gsl_1 ];
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mvabund = [ pkgs.gsl_1 ];
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mwaved = [ pkgs.fftw ];
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mwaved = [ pkgs.fftw.dev ];
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ncdf4 = [ pkgs.netcdf ];
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nloptr = [ pkgs.nlopt ];
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openssl = [ pkgs.openssl.dev ];
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@ -287,99 +287,99 @@ let
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pbdMPI = [ pkgs.openmpi ];
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pbdNCDF4 = [ pkgs.netcdf ];
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pbdPROF = [ pkgs.openmpi ];
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PKI = [ pkgs.openssl ];
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PKI = [ pkgs.openssl.dev ];
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png = [ pkgs.libpng.dev ];
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PopGenome = [ pkgs.zlib ];
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PopGenome = [ pkgs.zlib.dev ];
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proj4 = [ pkgs.proj ];
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qtbase = [ pkgs.qt4 ];
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qtpaint = [ pkgs.qt4 ];
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R2GUESS = [ pkgs.gsl_1 ];
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R2SWF = [ pkgs.zlib pkgs.libpng pkgs.freetype ];
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R2SWF = [ pkgs.zlib pkgs.libpng pkgs.freetype.dev ];
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RAppArmor = [ pkgs.libapparmor ];
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rapportools = [ pkgs.which ];
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rapport = [ pkgs.which ];
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rbamtools = [ pkgs.zlib ];
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rcdd = [ pkgs.gmp ];
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RcppCNPy = [ pkgs.zlib ];
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rbamtools = [ pkgs.zlib.dev ];
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rcdd = [ pkgs.gmp.dev ];
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RcppCNPy = [ pkgs.zlib.dev ];
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RcppGSL = [ pkgs.gsl_1 ];
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RcppOctave = [ pkgs.zlib pkgs.bzip2 pkgs.icu pkgs.lzma pkgs.pcre pkgs.octave ];
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RcppOctave = [ pkgs.zlib pkgs.bzip2.dev pkgs.icu pkgs.lzma.dev pkgs.pcre.dev pkgs.octave ];
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RcppZiggurat = [ pkgs.gsl_1 ];
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rgdal = [ pkgs.proj pkgs.gdal ];
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rgeos = [ pkgs.geos ];
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rggobi = [ pkgs.ggobi pkgs.gtk2 pkgs.libxml2 ];
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rggobi = [ pkgs.ggobi pkgs.gtk2.dev pkgs.libxml2.dev ];
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rgl = [ pkgs.mesa pkgs.xlibsWrapper ];
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Rglpk = [ pkgs.glpk ];
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RGtk2 = [ pkgs.gtk2 ];
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RGtk2 = [ pkgs.gtk2.dev ];
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rhdf5 = [ pkgs.zlib ];
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Rhpc = [ pkgs.zlib pkgs.bzip2 pkgs.icu pkgs.lzma pkgs.openmpi pkgs.pcre ];
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Rhtslib = [ pkgs.zlib ];
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RJaCGH = [ pkgs.zlib ];
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Rhpc = [ pkgs.zlib pkgs.bzip2.dev pkgs.icu pkgs.lzma.dev pkgs.openmpi pkgs.pcre.dev ];
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Rhtslib = [ pkgs.zlib.dev ];
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RJaCGH = [ pkgs.zlib.dev ];
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rjags = [ pkgs.jags ];
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rJava = [ pkgs.zlib pkgs.bzip2 pkgs.icu pkgs.lzma pkgs.pcre pkgs.jdk pkgs.libzip ];
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rJava = [ pkgs.zlib pkgs.bzip2.dev pkgs.icu pkgs.lzma.dev pkgs.pcre.dev pkgs.jdk pkgs.libzip ];
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Rlibeemd = [ pkgs.gsl_1 ];
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rmatio = [ pkgs.zlib ];
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Rmpfr = [ pkgs.gmp pkgs.mpfr ];
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rmatio = [ pkgs.zlib.dev ];
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Rmpfr = [ pkgs.gmp pkgs.mpfr.dev ];
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Rmpi = [ pkgs.openmpi ];
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RMySQL = [ pkgs.zlib pkgs.mysql.lib ];
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RNetCDF = [ pkgs.netcdf pkgs.udunits ];
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RODBCext = [ pkgs.libiodbc ];
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RODBC = [ pkgs.libiodbc ];
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rpg = [ pkgs.postgresql ];
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rphast = [ pkgs.pcre pkgs.zlib pkgs.bzip2 pkgs.gzip pkgs.readline ];
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rphast = [ pkgs.pcre.dev pkgs.zlib pkgs.bzip2 pkgs.gzip pkgs.readline ];
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Rpoppler = [ pkgs.poppler ];
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RPostgreSQL = [ pkgs.postgresql ];
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RProtoBuf = [ pkgs.protobuf ];
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rPython = [ pkgs.python ];
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RSclient = [ pkgs.openssl ];
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RSclient = [ pkgs.openssl.dev ];
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Rserve = [ pkgs.openssl ];
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Rssa = [ pkgs.fftw ];
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rtfbs = [ pkgs.zlib pkgs.pcre pkgs.bzip2 pkgs.gzip pkgs.readline ];
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rtiff = [ pkgs.libtiff ];
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Rssa = [ pkgs.fftw.dev ];
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rtfbs = [ pkgs.zlib pkgs.pcre.dev pkgs.bzip2 pkgs.gzip pkgs.readline ];
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rtiff = [ pkgs.libtiff.dev ];
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runjags = [ pkgs.jags ];
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RVowpalWabbit = [ pkgs.zlib pkgs.boost ];
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RVowpalWabbit = [ pkgs.zlib.dev pkgs.boost ];
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rzmq = [ pkgs.zeromq3 ];
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SAVE = [ pkgs.zlib pkgs.bzip2 pkgs.icu pkgs.lzma pkgs.pcre ];
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sdcTable = [ pkgs.gmp pkgs.glpk ];
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seewave = [ pkgs.fftw.dev pkgs.libsndfile.dev ];
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seqinr = [ pkgs.zlib ];
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seqminer = [ pkgs.zlib pkgs.bzip2 ];
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showtext = [ pkgs.zlib pkgs.libpng pkgs.icu pkgs.freetype ];
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seqinr = [ pkgs.zlib.dev ];
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seqminer = [ pkgs.zlib.dev pkgs.bzip2 ];
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showtext = [ pkgs.zlib pkgs.libpng pkgs.icu pkgs.freetype.dev ];
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simplexreg = [ pkgs.gsl_1 ];
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SOD = [ pkgs.cudatoolkit ]; # requres CL/cl.h
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spate = [ pkgs.fftw ];
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spate = [ pkgs.fftw.dev ];
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sprint = [ pkgs.openmpi ];
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ssanv = [ pkgs.proj ];
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stsm = [ pkgs.gsl_1 ];
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stringi = [ pkgs.icu.dev ];
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survSNP = [ pkgs.gsl_1 ];
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sysfonts = [ pkgs.zlib pkgs.libpng pkgs.freetype ];
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TAQMNGR = [ pkgs.zlib ];
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tiff = [ pkgs.libtiff ];
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sysfonts = [ pkgs.zlib pkgs.libpng pkgs.freetype.dev ];
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TAQMNGR = [ pkgs.zlib.dev ];
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tiff = [ pkgs.libtiff.dev ];
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TKF = [ pkgs.gsl_1 ];
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tkrplot = [ pkgs.xorg.libX11 ];
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tkrplot = [ pkgs.xorg.libX11 pkgs.tk.dev ];
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topicmodels = [ pkgs.gsl_1 ];
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udunits2 = [ pkgs.udunits pkgs.expat ];
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V8 = [ pkgs.v8 ];
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VBLPCM = [ pkgs.gsl_1 ];
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VBmix = [ pkgs.gsl_1 pkgs.fftw pkgs.qt4 ];
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WhopGenome = [ pkgs.zlib ];
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XBRL = [ pkgs.zlib pkgs.libxml2 ];
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xml2 = [ pkgs.libxml2 ];
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WhopGenome = [ pkgs.zlib.dev ];
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XBRL = [ pkgs.zlib pkgs.libxml2.dev ];
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xml2 = [ pkgs.libxml2.dev ];
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XML = [ pkgs.libtool pkgs.libxml2.dev pkgs.xmlsec pkgs.libxslt ];
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affyPLM = [ pkgs.zlib ];
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bamsignals = [ pkgs.zlib ];
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BitSeq = [ pkgs.zlib ];
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affyPLM = [ pkgs.zlib.dev ];
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bamsignals = [ pkgs.zlib.dev ];
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BitSeq = [ pkgs.zlib.dev ];
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DiffBind = [ pkgs.zlib ];
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ShortRead = [ pkgs.zlib.dev ];
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oligo = [ pkgs.zlib ];
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gmapR = [ pkgs.zlib ];
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Rsubread = [ pkgs.zlib ];
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oligo = [ pkgs.zlib.dev ];
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gmapR = [ pkgs.zlib.dev ];
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Rsubread = [ pkgs.zlib.dev ];
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XVector = [ pkgs.zlib.dev ];
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Rsamtools = [ pkgs.zlib.dev ];
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rtracklayer = [ pkgs.zlib ];
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affyio = [ pkgs.zlib ];
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VariantAnnotation = [ pkgs.zlib ];
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snpStats = [ pkgs.zlib ];
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rtracklayer = [ pkgs.zlib.dev ];
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affyio = [ pkgs.zlib.dev ];
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VariantAnnotation = [ pkgs.zlib.dev ];
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snpStats = [ pkgs.zlib.dev ];
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};
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packagesWithBuildInputs = {
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@ -1791,6 +1791,10 @@ let
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'';
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});
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Cairo = old.Cairo.overrideDerivation (attrs: {
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NIX_LDFLAGS = "-lfontconfig";
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});
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curl = old.curl.overrideDerivation (attrs: {
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preConfigure = "patchShebangs configure";
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});
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@ -1859,6 +1863,7 @@ let
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devEMF = old.devEMF.overrideDerivation (attrs: {
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NIX_CFLAGS_LINK = "-L${pkgs.xorg.libXft.out}/lib -lXft";
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NIX_LDFLAGS = "-lX11";
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});
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slfm = old.slfm.overrideDerivation (attrs: {
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