commit c5f8c7fe36be6b1c587dcd1ce5886d90f9aa5d69 · pyrox.dev/nixpkgs

+58 -53

pkgs/development/r-modules/default.nix

···

       240
        
           audio = [ pkgs.portaudio ];

     

       241
        
           BayesSAE = [ pkgs.gsl_1 ];

     

       242
        
           BayesVarSel = [ pkgs.gsl_1 ];

     

       243
       -
           BayesXsrc = [ pkgs.readline pkgs.ncurses ];

     

       244
        
           bigGP = [ pkgs.openmpi ];

     

       245
        
           BiocCheck = [ pkgs.which ];

     

       246
        
           Biostrings = [ pkgs.zlib ];

     

       247
        
           bnpmr = [ pkgs.gsl_1 ];

     

       248
        
           BNSP = [ pkgs.gsl_1 ];

     

       249
       -
           cairoDevice = [ pkgs.gtk2 ];

     

       250
       -
           Cairo = [ pkgs.libtiff pkgs.libjpeg pkgs.cairo ];

     

       251
        
           Cardinal = [ pkgs.which ];

     

       252
        
           chebpol = [ pkgs.fftw ];

     

       253
        
           ChemmineOB = [ pkgs.openbabel pkgs.pkgconfig ];

     

       254
        
           cit = [ pkgs.gsl_1 ];

     

       255
        
           curl = [ pkgs.curl.dev ];

     

       256
       -
           devEMF = [ pkgs.xorg.libXft ];

     

       257
        
           diversitree = [ pkgs.gsl_1 pkgs.fftw ];

     

       258
        
           EMCluster = [ pkgs.liblapack ];

     

       259
       -
           fftw = [ pkgs.fftw ];

     

       260
       -
           fftwtools = [ pkgs.fftw ];

     

       261
        
           Formula = [ pkgs.gmp ];

     

       262
        
           geoCount = [ pkgs.gsl_1 ];

     

       263
       -
           git2r = [ pkgs.zlib pkgs.openssl ];

     

       264
        
           GLAD = [ pkgs.gsl_1 ];

     

       265
        
           glpkAPI = [ pkgs.gmp pkgs.glpk ];

     

       266
       -
           gmp = [ pkgs.gmp ];

     

       267
        
           graphscan = [ pkgs.gsl_1 ];

     

       268
        
           gsl = [ pkgs.gsl_1 ];

     

       269
        
           h5 = [ pkgs.hdf5-cpp pkgs.which ];

     
···

       272
        
           iBMQ = [ pkgs.gsl_1 ];

     

       273
        
           igraph = [ pkgs.gmp ];

     

       274
        
           JavaGD = [ pkgs.jdk ];

     

       275
       -
           jpeg = [ pkgs.libjpeg ];

     

       276
        
           KFKSDS = [ pkgs.gsl_1 ];

     

       277
       -
           kza = [ pkgs.fftw ];

     

       278
        
           libamtrack = [ pkgs.gsl_1 ];

     

       279
        
           mixcat = [ pkgs.gsl_1 ];

     

       280
        
           mvabund = [ pkgs.gsl_1 ];

     

       281
       -
           mwaved = [ pkgs.fftw ];

     

       282
        
           ncdf4 = [ pkgs.netcdf ];

     

       283
        
           nloptr = [ pkgs.nlopt ];

     

       284
        
           openssl = [ pkgs.openssl.dev ];

     
···

       287
        
           pbdMPI = [ pkgs.openmpi ];

     

       288
        
           pbdNCDF4 = [ pkgs.netcdf ];

     

       289
        
           pbdPROF = [ pkgs.openmpi ];

     

       290
       -
           PKI = [ pkgs.openssl ];

     

       291
        
           png = [ pkgs.libpng.dev ];

     

       292
       -
           PopGenome = [ pkgs.zlib ];

     

       293
        
           proj4 = [ pkgs.proj ];

     

       294
        
           qtbase = [ pkgs.qt4 ];

     

       295
        
           qtpaint = [ pkgs.qt4 ];

     

       296
        
           R2GUESS = [ pkgs.gsl_1 ];

     

       297
       -
           R2SWF = [ pkgs.zlib pkgs.libpng pkgs.freetype ];

     

       298
        
           RAppArmor = [ pkgs.libapparmor ];

     

       299
        
           rapportools = [ pkgs.which ];

     

       300
        
           rapport = [ pkgs.which ];

     

       301
       -
           rbamtools = [ pkgs.zlib ];

     

       302
       -
           rcdd = [ pkgs.gmp ];

     

       303
       -
           RcppCNPy = [ pkgs.zlib ];

     

       304
        
           RcppGSL = [ pkgs.gsl_1 ];

     

       305
       -
           RcppOctave = [ pkgs.zlib pkgs.bzip2 pkgs.icu pkgs.lzma pkgs.pcre pkgs.octave ];

     

       306
        
           RcppZiggurat = [ pkgs.gsl_1 ];

     

       307
        
           rgdal = [ pkgs.proj pkgs.gdal ];

     

       308
        
           rgeos = [ pkgs.geos ];

     

       309
       -
           rggobi = [ pkgs.ggobi pkgs.gtk2 pkgs.libxml2 ];

     

       310
        
           rgl = [ pkgs.mesa pkgs.xlibsWrapper ];

     

       311
        
           Rglpk = [ pkgs.glpk ];

     

       312
       -
           RGtk2 = [ pkgs.gtk2 ];

     

       313
        
           rhdf5 = [ pkgs.zlib ];

     

       314
       -
           Rhpc = [ pkgs.zlib pkgs.bzip2 pkgs.icu pkgs.lzma pkgs.openmpi pkgs.pcre ];

     

       315
       -
           Rhtslib = [ pkgs.zlib ];

     

       316
       -
           RJaCGH = [ pkgs.zlib ];

     

       317
        
           rjags = [ pkgs.jags ];

     

       318
       -
           rJava = [ pkgs.zlib pkgs.bzip2 pkgs.icu pkgs.lzma pkgs.pcre pkgs.jdk pkgs.libzip ];

     

       319
        
           Rlibeemd = [ pkgs.gsl_1 ];

     

       320
       -
           rmatio = [ pkgs.zlib ];

     

       321
       -
           Rmpfr = [ pkgs.gmp pkgs.mpfr ];

     

       322
        
           Rmpi = [ pkgs.openmpi ];

     

       323
        
           RMySQL = [ pkgs.zlib pkgs.mysql.lib ];

     

       324
        
           RNetCDF = [ pkgs.netcdf pkgs.udunits ];

     

       325
        
           RODBCext = [ pkgs.libiodbc ];

     

       326
        
           RODBC = [ pkgs.libiodbc ];

     

       327
        
           rpg = [ pkgs.postgresql ];

     

       328
       -
           rphast = [ pkgs.pcre pkgs.zlib pkgs.bzip2 pkgs.gzip pkgs.readline ];

     

       329
        
           Rpoppler = [ pkgs.poppler ];

     

       330
        
           RPostgreSQL = [ pkgs.postgresql ];

     

       331
        
           RProtoBuf = [ pkgs.protobuf ];

     

       332
        
           rPython = [ pkgs.python ];

     

       333
       -
           RSclient = [ pkgs.openssl ];

     

       334
        
           Rserve = [ pkgs.openssl ];

     

       335
       -
           Rssa = [ pkgs.fftw ];

     

       336
       -
           rtfbs = [ pkgs.zlib pkgs.pcre pkgs.bzip2 pkgs.gzip pkgs.readline ];

     

       337
       -
           rtiff = [ pkgs.libtiff ];

     

       338
        
           runjags = [ pkgs.jags ];

     

       339
       -
           RVowpalWabbit = [ pkgs.zlib pkgs.boost ];

     

       340
        
           rzmq = [ pkgs.zeromq3 ];

     

       341
        
           SAVE = [ pkgs.zlib pkgs.bzip2 pkgs.icu pkgs.lzma pkgs.pcre ];

     

       342
        
           sdcTable = [ pkgs.gmp pkgs.glpk ];

     

       343
        
           seewave = [ pkgs.fftw.dev pkgs.libsndfile.dev ];

     

       344
       -
           seqinr = [ pkgs.zlib ];

     

       345
       -
           seqminer = [ pkgs.zlib pkgs.bzip2 ];

     

       346
       -
           showtext = [ pkgs.zlib pkgs.libpng pkgs.icu pkgs.freetype ];

     

       347
        
           simplexreg = [ pkgs.gsl_1 ];

     

       348
        
           SOD = [ pkgs.cudatoolkit ]; # requres CL/cl.h

     

       349
       -
           spate = [ pkgs.fftw ];

     

       350
        
           sprint = [ pkgs.openmpi ];

     

       351
        
           ssanv = [ pkgs.proj ];

     

       352
        
           stsm = [ pkgs.gsl_1 ];

     

       353
        
           stringi = [ pkgs.icu.dev ];

     

       354
        
           survSNP = [ pkgs.gsl_1 ];

     

       355
       -
           sysfonts = [ pkgs.zlib pkgs.libpng pkgs.freetype ];

     

       356
       -
           TAQMNGR = [ pkgs.zlib ];

     

       357
       -
           tiff = [ pkgs.libtiff ];

     

       358
        
           TKF = [ pkgs.gsl_1 ];

     

       359
       -
           tkrplot = [ pkgs.xorg.libX11 ];

     

       360
        
           topicmodels = [ pkgs.gsl_1 ];

     

       361
        
           udunits2 = [ pkgs.udunits pkgs.expat ];

     

       362
        
           V8 = [ pkgs.v8 ];

     

       363
        
           VBLPCM = [ pkgs.gsl_1 ];

     

       364
        
           VBmix = [ pkgs.gsl_1 pkgs.fftw pkgs.qt4 ];

     

       365
       -
           WhopGenome = [ pkgs.zlib ];

     

       366
       -
           XBRL = [ pkgs.zlib pkgs.libxml2 ];

     

       367
       -
           xml2 = [ pkgs.libxml2 ];

     

       368
        
           XML = [ pkgs.libtool pkgs.libxml2.dev pkgs.xmlsec pkgs.libxslt ];

     

       369
       -
           affyPLM = [ pkgs.zlib ];

     

       370
       -
           bamsignals = [ pkgs.zlib ];

     

       371
       -
           BitSeq = [ pkgs.zlib ];

     

       372
        
           DiffBind = [ pkgs.zlib ];

     

       373
        
           ShortRead = [ pkgs.zlib.dev ];

     

       374
       -
           oligo = [ pkgs.zlib ];

     

       375
       -
           gmapR = [ pkgs.zlib ];

     

       376
       -
           Rsubread = [ pkgs.zlib ];

     

       377
        
           XVector = [ pkgs.zlib.dev ];

     

       378
        
           Rsamtools = [ pkgs.zlib.dev ];

     

       379
       -
           rtracklayer = [ pkgs.zlib ];

     

       380
       -
           affyio = [ pkgs.zlib ];

     

       381
       -
           VariantAnnotation = [ pkgs.zlib ];

     

       382
       -
           snpStats = [ pkgs.zlib ];

     

       383
        
         };

     

       384
        
       

     

       385
        
         packagesWithBuildInputs = {

     
···

       1791
        
               '';

     

       1792
        
           });

     

       1793
        
       

     

       0
        
       
     

       0
        
       
     

       0
        
       
     

       0
        
       
     

       1794
        
           curl = old.curl.overrideDerivation (attrs: {

     

       1795
        
             preConfigure = "patchShebangs configure";

     

       1796
        
           });

     
···

       1859
        
       

     

       1860
        
           devEMF = old.devEMF.overrideDerivation (attrs: {

     

       1861
        
             NIX_CFLAGS_LINK = "-L${pkgs.xorg.libXft.out}/lib -lXft";

     

       0
        
       
     

       1862
        
           });

     

       1863
        
       

     

       1864
        
           slfm = old.slfm.overrideDerivation (attrs: {

···

       240
        
           audio = [ pkgs.portaudio ];

     

       241
        
           BayesSAE = [ pkgs.gsl_1 ];

     

       242
        
           BayesVarSel = [ pkgs.gsl_1 ];

     

       243
       +
           BayesXsrc = [ pkgs.readline.dev pkgs.ncurses ];

     

       244
        
           bigGP = [ pkgs.openmpi ];

     

       245
        
           BiocCheck = [ pkgs.which ];

     

       246
        
           Biostrings = [ pkgs.zlib ];

     

       247
        
           bnpmr = [ pkgs.gsl_1 ];

     

       248
        
           BNSP = [ pkgs.gsl_1 ];

     

       249
       +
           cairoDevice = [ pkgs.gtk2.dev ];

     

       250
       +
           Cairo = [ pkgs.libtiff pkgs.libjpeg pkgs.cairo.dev pkgs.x11 pkgs.fontconfig.lib ];

     

       251
        
           Cardinal = [ pkgs.which ];

     

       252
        
           chebpol = [ pkgs.fftw ];

     

       253
        
           ChemmineOB = [ pkgs.openbabel pkgs.pkgconfig ];

     

       254
        
           cit = [ pkgs.gsl_1 ];

     

       255
        
           curl = [ pkgs.curl.dev ];

     

       256
       +
           devEMF = [ pkgs.xorg.libXft.dev pkgs.x11 ];

     

       257
        
           diversitree = [ pkgs.gsl_1 pkgs.fftw ];

     

       258
        
           EMCluster = [ pkgs.liblapack ];

     

       259
       +
           fftw = [ pkgs.fftw.dev ];

     

       260
       +
           fftwtools = [ pkgs.fftw.dev ];

     

       261
        
           Formula = [ pkgs.gmp ];

     

       262
        
           geoCount = [ pkgs.gsl_1 ];

     

       263
       +
           git2r = [ pkgs.zlib.dev pkgs.openssl.dev ];

     

       264
        
           GLAD = [ pkgs.gsl_1 ];

     

       265
        
           glpkAPI = [ pkgs.gmp pkgs.glpk ];

     

       266
       +
           gmp = [ pkgs.gmp.dev ];

     

       267
        
           graphscan = [ pkgs.gsl_1 ];

     

       268
        
           gsl = [ pkgs.gsl_1 ];

     

       269
        
           h5 = [ pkgs.hdf5-cpp pkgs.which ];

     
···

       272
        
           iBMQ = [ pkgs.gsl_1 ];

     

       273
        
           igraph = [ pkgs.gmp ];

     

       274
        
           JavaGD = [ pkgs.jdk ];

     

       275
       +
           jpeg = [ pkgs.libjpeg.dev ];

     

       276
        
           KFKSDS = [ pkgs.gsl_1 ];

     

       277
       +
           kza = [ pkgs.fftw.dev ];

     

       278
        
           libamtrack = [ pkgs.gsl_1 ];

     

       279
        
           mixcat = [ pkgs.gsl_1 ];

     

       280
        
           mvabund = [ pkgs.gsl_1 ];

     

       281
       +
           mwaved = [ pkgs.fftw.dev ];

     

       282
        
           ncdf4 = [ pkgs.netcdf ];

     

       283
        
           nloptr = [ pkgs.nlopt ];

     

       284
        
           openssl = [ pkgs.openssl.dev ];

     
···

       287
        
           pbdMPI = [ pkgs.openmpi ];

     

       288
        
           pbdNCDF4 = [ pkgs.netcdf ];

     

       289
        
           pbdPROF = [ pkgs.openmpi ];

     

       290
       +
           PKI = [ pkgs.openssl.dev ];

     

       291
        
           png = [ pkgs.libpng.dev ];

     

       292
       +
           PopGenome = [ pkgs.zlib.dev ];

     

       293
        
           proj4 = [ pkgs.proj ];

     

       294
        
           qtbase = [ pkgs.qt4 ];

     

       295
        
           qtpaint = [ pkgs.qt4 ];

     

       296
        
           R2GUESS = [ pkgs.gsl_1 ];

     

       297
       +
           R2SWF = [ pkgs.zlib pkgs.libpng pkgs.freetype.dev ];

     

       298
        
           RAppArmor = [ pkgs.libapparmor ];

     

       299
        
           rapportools = [ pkgs.which ];

     

       300
        
           rapport = [ pkgs.which ];

     

       301
       +
           rbamtools = [ pkgs.zlib.dev ];

     

       302
       +
           rcdd = [ pkgs.gmp.dev ];

     

       303
       +
           RcppCNPy = [ pkgs.zlib.dev ];

     

       304
        
           RcppGSL = [ pkgs.gsl_1 ];

     

       305
       +
           RcppOctave = [ pkgs.zlib pkgs.bzip2.dev pkgs.icu pkgs.lzma.dev pkgs.pcre.dev pkgs.octave ];

     

       306
        
           RcppZiggurat = [ pkgs.gsl_1 ];

     

       307
        
           rgdal = [ pkgs.proj pkgs.gdal ];

     

       308
        
           rgeos = [ pkgs.geos ];

     

       309
       +
           rggobi = [ pkgs.ggobi pkgs.gtk2.dev pkgs.libxml2.dev ];

     

       310
        
           rgl = [ pkgs.mesa pkgs.xlibsWrapper ];

     

       311
        
           Rglpk = [ pkgs.glpk ];

     

       312
       +
           RGtk2 = [ pkgs.gtk2.dev ];

     

       313
        
           rhdf5 = [ pkgs.zlib ];

     

       314
       +
           Rhpc = [ pkgs.zlib pkgs.bzip2.dev pkgs.icu pkgs.lzma.dev pkgs.openmpi pkgs.pcre.dev ];

     

       315
       +
           Rhtslib = [ pkgs.zlib.dev ];

     

       316
       +
           RJaCGH = [ pkgs.zlib.dev ];

     

       317
        
           rjags = [ pkgs.jags ];

     

       318
       +
           rJava = [ pkgs.zlib pkgs.bzip2.dev pkgs.icu pkgs.lzma.dev pkgs.pcre.dev pkgs.jdk pkgs.libzip ];

     

       319
        
           Rlibeemd = [ pkgs.gsl_1 ];

     

       320
       +
           rmatio = [ pkgs.zlib.dev ];

     

       321
       +
           Rmpfr = [ pkgs.gmp pkgs.mpfr.dev ];

     

       322
        
           Rmpi = [ pkgs.openmpi ];

     

       323
        
           RMySQL = [ pkgs.zlib pkgs.mysql.lib ];

     

       324
        
           RNetCDF = [ pkgs.netcdf pkgs.udunits ];

     

       325
        
           RODBCext = [ pkgs.libiodbc ];

     

       326
        
           RODBC = [ pkgs.libiodbc ];

     

       327
        
           rpg = [ pkgs.postgresql ];

     

       328
       +
           rphast = [ pkgs.pcre.dev pkgs.zlib pkgs.bzip2 pkgs.gzip pkgs.readline ];

     

       329
        
           Rpoppler = [ pkgs.poppler ];

     

       330
        
           RPostgreSQL = [ pkgs.postgresql ];

     

       331
        
           RProtoBuf = [ pkgs.protobuf ];

     

       332
        
           rPython = [ pkgs.python ];

     

       333
       +
           RSclient = [ pkgs.openssl.dev ];

     

       334
        
           Rserve = [ pkgs.openssl ];

     

       335
       +
           Rssa = [ pkgs.fftw.dev ];

     

       336
       +
           rtfbs = [ pkgs.zlib pkgs.pcre.dev pkgs.bzip2 pkgs.gzip pkgs.readline ];

     

       337
       +
           rtiff = [ pkgs.libtiff.dev ];

     

       338
        
           runjags = [ pkgs.jags ];

     

       339
       +
           RVowpalWabbit = [ pkgs.zlib.dev pkgs.boost ];

     

       340
        
           rzmq = [ pkgs.zeromq3 ];

     

       341
        
           SAVE = [ pkgs.zlib pkgs.bzip2 pkgs.icu pkgs.lzma pkgs.pcre ];

     

       342
        
           sdcTable = [ pkgs.gmp pkgs.glpk ];

     

       343
        
           seewave = [ pkgs.fftw.dev pkgs.libsndfile.dev ];

     

       344
       +
           seqinr = [ pkgs.zlib.dev ];

     

       345
       +
           seqminer = [ pkgs.zlib.dev pkgs.bzip2 ];

     

       346
       +
           showtext = [ pkgs.zlib pkgs.libpng pkgs.icu pkgs.freetype.dev ];

     

       347
        
           simplexreg = [ pkgs.gsl_1 ];

     

       348
        
           SOD = [ pkgs.cudatoolkit ]; # requres CL/cl.h

     

       349
       +
           spate = [ pkgs.fftw.dev ];

     

       350
        
           sprint = [ pkgs.openmpi ];

     

       351
        
           ssanv = [ pkgs.proj ];

     

       352
        
           stsm = [ pkgs.gsl_1 ];

     

       353
        
           stringi = [ pkgs.icu.dev ];

     

       354
        
           survSNP = [ pkgs.gsl_1 ];

     

       355
       +
           sysfonts = [ pkgs.zlib pkgs.libpng pkgs.freetype.dev ];

     

       356
       +
           TAQMNGR = [ pkgs.zlib.dev ];

     

       357
       +
           tiff = [ pkgs.libtiff.dev ];

     

       358
        
           TKF = [ pkgs.gsl_1 ];

     

       359
       +
           tkrplot = [ pkgs.xorg.libX11 pkgs.tk.dev ];

     

       360
        
           topicmodels = [ pkgs.gsl_1 ];

     

       361
        
           udunits2 = [ pkgs.udunits pkgs.expat ];

     

       362
        
           V8 = [ pkgs.v8 ];

     

       363
        
           VBLPCM = [ pkgs.gsl_1 ];

     

       364
        
           VBmix = [ pkgs.gsl_1 pkgs.fftw pkgs.qt4 ];

     

       365
       +
           WhopGenome = [ pkgs.zlib.dev ];

     

       366
       +
           XBRL = [ pkgs.zlib pkgs.libxml2.dev ];

     

       367
       +
           xml2 = [ pkgs.libxml2.dev ];

     

       368
        
           XML = [ pkgs.libtool pkgs.libxml2.dev pkgs.xmlsec pkgs.libxslt ];

     

       369
       +
           affyPLM = [ pkgs.zlib.dev ];

     

       370
       +
           bamsignals = [ pkgs.zlib.dev ];

     

       371
       +
           BitSeq = [ pkgs.zlib.dev ];

     

       372
        
           DiffBind = [ pkgs.zlib ];

     

       373
        
           ShortRead = [ pkgs.zlib.dev ];

     

       374
       +
           oligo = [ pkgs.zlib.dev ];

     

       375
       +
           gmapR = [ pkgs.zlib.dev ];

     

       376
       +
           Rsubread = [ pkgs.zlib.dev ];

     

       377
        
           XVector = [ pkgs.zlib.dev ];

     

       378
        
           Rsamtools = [ pkgs.zlib.dev ];

     

       379
       +
           rtracklayer = [ pkgs.zlib.dev ];

     

       380
       +
           affyio = [ pkgs.zlib.dev ];

     

       381
       +
           VariantAnnotation = [ pkgs.zlib.dev ];

     

       382
       +
           snpStats = [ pkgs.zlib.dev ];

     

       383
        
         };

     

       384
        
       

     

       385
        
         packagesWithBuildInputs = {

     
···

       1791
        
               '';

     

       1792
        
           });

     

       1793
        
       

     

       1794
       +
           Cairo = old.Cairo.overrideDerivation (attrs: {

     

       1795
       +
             NIX_LDFLAGS = "-lfontconfig";

     

       1796
       +
           });

     

       1797
       +
       

     

       1798
        
           curl = old.curl.overrideDerivation (attrs: {

     

       1799
        
             preConfigure = "patchShebangs configure";

     

       1800
        
           });

     
···

       1863
        
       

     

       1864
        
           devEMF = old.devEMF.overrideDerivation (attrs: {

     

       1865
        
             NIX_CFLAGS_LINK = "-L${pkgs.xorg.libXft.out}/lib -lXft";

     

       1866
       +
             NIX_LDFLAGS = "-lX11";

     

       1867
        
           });

     

       1868
        
       

     

       1869
        
           slfm = old.slfm.overrideDerivation (attrs: {