diff options
Diffstat (limited to 'pkgs/development/r-modules/default.nix')
| -rw-r--r-- | pkgs/development/r-modules/default.nix | 321 |
1 files changed, 174 insertions, 147 deletions
diff --git a/pkgs/development/r-modules/default.nix b/pkgs/development/r-modules/default.nix index 95e062808bc31..cb5cc5220dfe8 100644 --- a/pkgs/development/r-modules/default.nix +++ b/pkgs/development/r-modules/default.nix @@ -310,12 +310,17 @@ let rmsb = [ self.rstantools ]; gastempt = [ self.rstantools ]; interactiveDisplay = [ self.BiocManager ]; + disbayes = [ self.rstantools ]; + tipsae = [ self.rstantools ]; + TriDimRegression = [ self.rstantools ]; + bbmix = [ self.rstantools ]; }; packagesWithNativeBuildInputs = { adbcpostgresql = [ pkgs.postgresql ]; adimpro = [ pkgs.imagemagick ]; animation = [ pkgs.which ]; + Apollonius = with pkgs; [ pkg-config gmp.dev mpfr.dev ]; arrow = with pkgs; [ pkg-config cmake ] ++ lib.optionals stdenv.isDarwin [ intltool ]; audio = [ pkgs.portaudio ]; BayesSAE = [ pkgs.gsl ]; @@ -323,6 +328,7 @@ let BayesXsrc = with pkgs; [ readline.dev ncurses gsl ]; bioacoustics = [ pkgs.fftw.dev pkgs.cmake ]; bigGP = [ pkgs.mpi ]; + bigrquerystorage = with pkgs; [ grpc protobuf which ]; bio3d = [ pkgs.zlib ]; BiocCheck = [ pkgs.which ]; Biostrings = [ pkgs.zlib ]; @@ -344,9 +350,14 @@ let diversitree = with pkgs; [ gsl fftw ]; exactextractr = [ pkgs.geos ]; EMCluster = [ pkgs.lapack ]; + fangs = [ pkgs.cargo ]; + fcl = [ pkgs.cargo ]; fftw = [ pkgs.fftw.dev ]; fftwtools = with pkgs; [ fftw.dev pkg-config ]; + fingerPro = [ pkgs.gsl ]; Formula = [ pkgs.gmp ]; + frailtyMMpen = [ pkgs.gsl ]; + gamstransfer = [ pkgs.zlib ]; gdalraster = [ pkgs.pkg-config ]; gdtools = with pkgs; [ cairo.dev fontconfig.lib freetype.dev ]; GeneralizedWendland = [ pkgs.gsl ]; @@ -362,13 +373,20 @@ let gert = [ pkgs.libgit2 ]; haven = with pkgs; [ zlib.dev ]; hellorust = [ pkgs.cargo ]; + hgwrr = [ pkgs.gsl ]; h5vc = with pkgs; [ zlib.dev bzip2.dev xz.dev ]; yyjsonr = with pkgs; [ zlib.dev ]; + RNifti = with pkgs; [ zlib.dev ]; + RNiftyReg = with pkgs; [ zlib.dev ]; highs = [ pkgs.which pkgs.cmake ]; + crc32c = [ pkgs.which pkgs.cmake ]; rbedrock = [ pkgs.zlib.dev pkgs.which pkgs.cmake ]; HiCseg = [ pkgs.gsl ]; imager = [ pkgs.xorg.libX11.dev ]; + imbibe = [ pkgs.zlib.dev ]; + image_CannyEdges = with pkgs; [ fftw.dev libpng.dev ]; iBMQ = [ pkgs.gsl ]; + jack = [ pkgs.pkg-config ]; JavaGD = [ pkgs.jdk ]; jpeg = [ pkgs.libjpeg.dev ]; jqr = [ pkgs.jq.dev ]; @@ -377,7 +395,10 @@ let kza = [ pkgs.fftw.dev ]; leidenAlg = [ pkgs.gmp.dev ]; Libra = [ pkgs.gsl ]; + libstable4u = [ pkgs.gsl ]; + heck = [ pkgs.cargo ]; LOMAR = [ pkgs.gmp.dev ]; + littler = [ pkgs.libdeflate ]; lpsymphony = with pkgs; [ pkg-config gfortran gettext ]; lwgeom = with pkgs; [ proj geos gdal ]; rsbml = [ pkgs.pkg-config ]; @@ -390,6 +411,7 @@ let mzR = with pkgs; [ zlib netcdf ]; nanonext = with pkgs; [ mbedtls nng ]; ncdf4 = [ pkgs.netcdf ]; + neojags = [ pkgs.jags ]; nloptr = with pkgs; [ nlopt pkg-config ]; n1qn1 = [ pkgs.gfortran ]; odbc = [ pkgs.unixODBC ]; @@ -401,6 +423,7 @@ let pbdZMQ = [ pkgs.pkg-config ] ++ lib.optionals stdenv.isDarwin [ pkgs.which ]; pcaL1 = [ pkgs.pkg-config pkgs.clp ]; pdftools = [ pkgs.poppler.dev ]; + PEPBVS = [ pkgs.gsl ]; phytools = [ pkgs.which ]; PKI = [ pkgs.openssl.dev ]; png = [ pkgs.libpng.dev ]; @@ -425,7 +448,7 @@ let Rhpc = with pkgs; [ zlib bzip2.dev icu xz.dev mpi pcre.dev ]; Rhtslib = with pkgs; [ zlib.dev automake autoconf bzip2.dev xz.dev curl.dev ]; rjags = [ pkgs.jags ]; - rJava = with pkgs; [ zlib bzip2.dev icu xz.dev pcre.dev jdk libzip ]; + rJava = with pkgs; [ zlib bzip2.dev icu xz.dev pcre.dev jdk libzip libdeflate ]; Rlibeemd = [ pkgs.gsl ]; rmatio = [ pkgs.zlib.dev pkgs.pkg-config ]; Rmpfr = with pkgs; [ gmp mpfr.dev ]; @@ -454,6 +477,7 @@ let sdcTable = with pkgs; [ gmp glpk ]; seewave = with pkgs; [ fftw.dev libsndfile.dev ]; seqinr = [ pkgs.zlib.dev ]; + smcryptoR = with pkgs; [ cargo rustc which ]; webp = [ pkgs.pkg-config ]; seqminer = with pkgs; [ zlib.dev bzip2 ]; sf = with pkgs; [ gdal proj geos libtiff curl ]; @@ -461,6 +485,10 @@ let string2path = [ pkgs.cargo ]; terra = with pkgs; [ gdal proj geos ]; tok = [ pkgs.cargo ]; + rshift = [ pkgs.cargo ]; + arcgisutils = with pkgs; [ cargo rustc ]; + arcgisgeocode = with pkgs; [ cargo rustc ]; + arcgisplaces = with pkgs; [ pkg-config openssl.dev cargo rustc ]; apcf = with pkgs; [ geos ]; SemiCompRisks = [ pkgs.gsl ]; showtext = with pkgs; [ zlib libpng icu freetype.dev ]; @@ -497,7 +525,7 @@ let Rsubread = [ pkgs.zlib.dev ]; XVector = [ pkgs.zlib.dev ]; Rsamtools = with pkgs; [ zlib.dev curl.dev bzip2 xz ]; - rtracklayer = [ pkgs.zlib.dev ]; + rtracklayer = with pkgs; [ zlib.dev curl.dev ]; affyio = [ pkgs.zlib.dev ]; snpStats = [ pkgs.zlib.dev ]; vcfppR = [ pkgs.curl.dev pkgs.bzip2 pkgs.zlib.dev pkgs.xz]; @@ -533,6 +561,7 @@ let redux = [ pkgs.pkg-config ]; rswipl = with pkgs; [ cmake pkg-config ]; rrd = [ pkgs.pkg-config ]; + surveyvoi = [ pkgs.pkg-config ]; Rbwa = [ pkgs.zlib.dev ]; trackViewer = [ pkgs.zlib.dev ]; themetagenomics = [ pkgs.zlib.dev ]; @@ -544,16 +573,19 @@ let ragg = [ pkgs.pkg-config ]; qqconf = [ pkgs.pkg-config ]; qspray = [ pkgs.pkg-config ]; + ratioOfQsprays = [ pkgs.pkg-config ]; + symbolicQspray = [ pkgs.pkg-config ]; + sphereTessellation = [ pkgs.pkg-config ]; vapour = [ pkgs.pkg-config ]; }; packagesWithBuildInputs = { # sort -t '=' -k 2 - asciicast = with pkgs; [ xz.dev bzip2.dev zlib.dev icu.dev ]; + asciicast = with pkgs; [ xz.dev bzip2.dev zlib.dev icu.dev libdeflate ]; island = [ pkgs.gsl.dev ]; svKomodo = [ pkgs.which ]; ulid = [ pkgs.zlib.dev ]; - unrtf = with pkgs; [ xz.dev bzip2.dev zlib.dev icu.dev ]; + unrtf = with pkgs; [ xz.dev bzip2.dev zlib.dev icu.dev libdeflate ]; nat = [ pkgs.which ]; nat_templatebrains = [ pkgs.which ]; pbdZMQ = [ pkgs.zeromq ] ++ lib.optionals stdenv.isDarwin [ pkgs.darwin.binutils ]; @@ -572,7 +604,7 @@ let RMark = [ pkgs.which ]; RPushbullet = [ pkgs.which ]; stpphawkes = [ pkgs.gsl ]; - registr = with pkgs; [ icu.dev zlib.dev bzip2.dev xz.dev ]; + registr = with pkgs; [ icu.dev zlib.dev bzip2.dev xz.dev libdeflate ]; RCurl = [ pkgs.curl.dev ]; R2SWF = [ pkgs.pkg-config ]; rDEA = [ pkgs.glpk ]; @@ -628,6 +660,7 @@ let Rsymphony = with pkgs; [ symphony doxygen graphviz subversion cgl clp]; tcltk2 = with pkgs; [ tcl tk ]; rswipl = with pkgs; [ ncurses.dev libxcrypt zlib.dev ]; + GrafGen = [ pkgs.zlib ]; tikzDevice = with pkgs; [ which texliveMedium ]; gridGraphics = [ pkgs.which ]; adimpro = with pkgs; [ which xorg.xdpyinfo ]; @@ -670,6 +703,7 @@ let zlib = [ pkgs.zlib.dev ]; divest = [ pkgs.zlib.dev ]; hipread = [ pkgs.zlib.dev ]; + jack = with pkgs; [ gmp.dev mpfr.dev ]; jackalope = with pkgs; [ zlib.dev xz.dev bzip2.dev ]; largeList = [ pkgs.zlib.dev ]; mappoly = [ pkgs.zlib.dev ]; @@ -725,10 +759,13 @@ let RITCH = [ pkgs.zlib.dev ]; RcppMeCab = [ pkgs.mecab ]; PING = [ pkgs.gsl ]; + PROJ = [ pkgs.proj.dev ]; RcppAlgos = [ pkgs.gmp.dev ]; RcppBigIntAlgos = [ pkgs.gmp.dev ]; spaMM = [ pkgs.gsl ]; shrinkTVP = [ pkgs.gsl ]; + sbrl = with pkgs; [ gsl gmp.dev ]; + surveyvoi = with pkgs; [ gmp.dev mpfr.dev ]; unigd = with pkgs; [ cairo.dev libpng.dev ]; HilbertVisGUI = [ pkgs.gtkmm2.dev ]; textshaping = with pkgs; [ harfbuzz.dev freetype.dev fribidi libpng ]; @@ -739,216 +776,103 @@ let qqconf = [ pkgs.fftw.dev ]; spFW = [ pkgs.fftw.dev ]; qspray = with pkgs; [ gmp.dev mpfr.dev ]; + ratioOfQsprays = with pkgs; [ gmp.dev mpfr.dev ]; + symbolicQspray = with pkgs; [ gmp.dev mpfr.dev ]; + sphereTessellation = with pkgs; [ gmp.dev mpfr.dev ]; vapour = with pkgs; [ proj.dev gdal ]; MedianaDesigner = [ pkgs.zlib.dev ]; ChemmineOB = [ pkgs.eigen ]; }; packagesRequiringX = [ - "accrual" - "ade4TkGUI" - "analogue" "analogueExtra" "AnalyzeFMRI" "AnnotLists" - "AnthropMMD" - "aplpack" "asbio" - "BAT" "BCA" - "betapart" - "BiodiversityR" - "bio_infer" - "bipartite" "biplotbootGUI" - "blender" "cairoDevice" - "canceR" - "CCTpack" "cncaGUI" - "cocorresp" "CommunityCorrelogram" - "confidence" - "constrainedKriging" - "ConvergenceConcepts" - "cpa" - "DALY" "dave" - "Deducer" "DeducerPlugInExample" "DeducerPlugInScaling" "DeducerSpatial" "DeducerSurvival" "DeducerText" "Demerelate" - "detrendeR" + "diveR" "dpa" "dynamicGraph" - "dynBiplotGUI" "EasyqpcR" - "EcoVirtual" "exactLoglinTest" - "fat2Lpoly" - "fbati" - "FD" - "feature" - "FeedbackTS" - "FFD" - "fgui" "fisheyeR" "forams" "forensim" - "FreeSortR" - "fscaret" - "gcmr" - "geomorph" - "geoR" - "georob" "GGEBiplotGUI" - "gnm" - "GrapheR" - "GroupSeq" "gsubfn" - "GUniFrac" "gWidgets2RGtk2" "gWidgets2tcltk" - "HH" "HiveR" "ic50" "iDynoR" - "in2extRemes" "iplots" - "isopam" - "IsotopeR" - "JGR" - "KappaGUI" "likeLTD" - "logmult" "loon" "loon_ggplot" - "LS2Wstat" - "MareyMap" - "memgene" - "metacom" + "loon_shiny" + "loon_tourr" "Meth27QC" - "migui" - "miniGUI" "mixsep" - "MplusAutomation" - "mpmcorrelogram" - "mritc" - "multgee" "multibiplotGUI" "OligoSpecificitySystem" - "onemap" - "OpenRepGrid" + "optbdmaeAT" + "optrcdmaeAT" "paleoMAS" - "pbatR" - "PBSadmb" - "PBSmodelling" - "PCPS" - "pez" - "phylotools" - "picante" - "plotSEMM" - "plsRbeta" - "plsRglm" - "PopGenReport" - "poppr" - "powerpkg" - "PredictABEL" - "prefmod" - "PrevMap" - "r4ss" "RandomFields" - "rareNMtests" - "rAverage" "rfviz" "RclusTool" - "Rcmdr" "RcmdrPlugin_coin" - "RcmdrPlugin_depthTools" - "RcmdrPlugin_DoE" - "RcmdrPlugin_EACSPIR" - "RcmdrPlugin_EBM" - "RcmdrPlugin_EcoVirtual" - "RcmdrPlugin_EZR" - "RcmdrPlugin_FactoMineR" "RcmdrPlugin_FuzzyClust" - "RcmdrPlugin_HH" "RcmdrPlugin_IPSUR" - "RcmdrPlugin_KMggplot2" "RcmdrPlugin_lfstat" - "RcmdrPlugin_MA" - "RcmdrPlugin_MPAStats" - "RcmdrPlugin_orloca" "RcmdrPlugin_PcaRobust" "RcmdrPlugin_plotByGroup" "RcmdrPlugin_pointG" - "RcmdrPlugin_ROC" "RcmdrPlugin_sampling" "RcmdrPlugin_SCDA" "RcmdrPlugin_SLC" - "RcmdrPlugin_sos" "RcmdrPlugin_steepness" - "RcmdrPlugin_survival" - "RcmdrPlugin_TeachingDemos" - "RcmdrPlugin_temis" - "RcmdrPlugin_UCA" - "recluster" - "relimp" - "RHRV" "rich" - "RNCEP" - "RSDA" "RSurvey" "simba" - "Simile" "SimpleTable" "SOLOMON" - "soundecology" - "spatsurv" - "sqldf" - "SSDforR" - "statcheck" - "StatDA" - "STEPCAM" - "stosim" + "soptdmaeA" "strvalidator" "stylo" - "svDialogstcltk" - "svIDE" - "svSocket" - "svWidgets" - "SYNCSA" "SyNet" "switchboard" - "tcltk2" - "TestScorer" - "TIMP" - "tkrplot" - "tmap" - "tspmeta" + "tkImgR" "TTAinterfaceTrendAnalysis" "twiddler" "uHMM" - "vcdExtra" "VecStatGraphs3D" - "vegan" - "vegan3d" - "vegclust" - "x12GUI" ]; packagesRequiringHome = [ "aroma_affymetrix" "aroma_cn" "aroma_core" + "avotrex" + "beer" "ceramic" "connections" + "covidmx" "csodata" "DiceView" "facmodTS" + "gasanalyzer" "margaret" "MSnID" "OmnipathR" @@ -1048,6 +972,7 @@ let "benchmarkfdrData2019" "bodymapRat" "clustifyrdatahub" + "CTexploreR" "depmap" "emtdata" "metaboliteIDmapping" @@ -1069,6 +994,11 @@ let # this is a straightforward approach. Example where patching was necessary # -> arrow 14.0.0.2 on CRAN; was lagging behind libarrow release: # https://github.com/apache/arrow/issues/39698 ) + + vegan3d = old.vegan3d.overrideAttrs (attrs: { + RGL_USE_NULL = "true"; + }); + arrow = old.arrow.overrideAttrs (attrs: { src = pkgs.arrow-cpp.src; name = "r-arrow-${pkgs.arrow-cpp.version}"; @@ -1157,10 +1087,18 @@ let preConfigure = "patchShebangs configure"; }); + Colossus = old.Colossus.overrideAttrs (_: { + postPatch = "patchShebangs configure"; + }); + gmailr = old.gmailr.overrideAttrs (attrs: { postPatch = "patchShebangs configure"; }); + heck = old.heck.overrideAttrs (attrs: { + postPatch = "patchShebangs configure"; + }); + surtvep = old.surtvep.overrideAttrs (attrs: { postPatch = "patchShebangs configure"; }); @@ -1178,6 +1116,10 @@ let patchPhase = "patchShebangs configure"; }); + RcppGetconf = old.RcppGetconf.overrideAttrs (attrs: { + postPatch = "patchShebangs configure"; + }); + SpliceWiz = old.SpliceWiz.overrideAttrs (attrs: { postPatch = "patchShebangs configure"; }); @@ -1203,6 +1145,26 @@ let patchPhase = "patchShebangs configure"; }); + cisPath = old.cisPath.overrideAttrs (attrs: { + hardeningDisable = [ "format" ]; + }); + + HilbertVis = old.HilbertVis.overrideAttrs (attrs: { + hardeningDisable = [ "format" ]; + }); + + HilbertVisGUI = old.HilbertVisGUI.overrideAttrs (attrs: { + hardeningDisable = [ "format" ]; + }); + + MANOR = old.MANOR.overrideAttrs (attrs: { + hardeningDisable = [ "format" ]; + }); + + rGADEM = old.rGADEM.overrideAttrs (attrs: { + hardeningDisable = [ "format" ]; + }); + rsgeo = old.rsgeo.overrideAttrs (attrs: { nativeBuildInputs = [ pkgs.cargo ] ++ attrs.nativeBuildInputs; postPatch = "patchShebangs configure"; @@ -1303,19 +1265,12 @@ let propagatedBuildInputs = attrs.propagatedBuildInputs ++ [ pkgs.quarto ]; postPatch = '' substituteInPlace "R/quarto.R" \ - --replace "path_env <- Sys.getenv(\"QUARTO_PATH\", unset = NA)" "path_env <- Sys.getenv(\"QUARTO_PATH\", unset = '${lib.getBin pkgs.quarto}/bin/quarto')" + --replace-fail "Sys.getenv(\"QUARTO_PATH\", unset = NA_character_)" "Sys.getenv(\"QUARTO_PATH\", unset = '${lib.getBin pkgs.quarto}/bin/quarto')" ''; }); - # backported patch from 1.9 - Rhisat2= old.Rhisat2.overrideAttrs (attrs: { - patches = [ (pkgs.fetchpatch { - url = "https://github.com/fmicompbio/Rhisat2/commit/a0f27b018831b39f080f99e6db8a4b876fd56fc3.patch"; - sha256 = "sha256-FbYkP/WFmbfQmxArkHgushgVgY0XSypbK8Z5ivQK8k4="; - }) ]; - env = (attrs.env or { }) // { - NIX_CFLAGS_COMPILE = attrs.env.NIX_CFLAGS_COMPILE + " -w"; - }; + Rhisat2 = old.Rhisat2.overrideAttrs (attrs: { + enableParallelBuilding = false; }); s2 = old.s2.overrideAttrs (attrs: { @@ -1335,6 +1290,14 @@ let ]; }); + covidsymptom = old.covidsymptom.overrideAttrs (attrs: { + preConfigure = "rm R/covidsymptomdata.R"; + }); + + cubature = old.cubature.overrideAttrs (attrs: { + enableParallelBuilding = false; + }); + RVowpalWabbit = old.RVowpalWabbit.overrideAttrs (attrs: { configureFlags = [ "--with-boost=${pkgs.boost.dev}" "--with-boost-libdir=${pkgs.boost.out}/lib" @@ -1372,10 +1335,6 @@ let PKG_LIBS = "-L${pkgs.blas}/lib -lblas -L${pkgs.lapack}/lib -llapack"; }); - spMC = old.spMC.overrideAttrs (attrs: { - patches = [ ./patches/spMC.patch ]; - }); - FLAMES = old.FLAMES.overrideAttrs (attrs: { patches = [ ./patches/FLAMES.patch ]; }); @@ -1457,7 +1416,7 @@ let }); rgoslin = old.rgoslin.overrideAttrs (attrs: { - patches = [ ./patches/rgoslin.patch ]; + enableParallelBuilding = false; }); rpanel = old.rpanel.overrideAttrs (attrs: { @@ -1467,6 +1426,16 @@ let TCLLIBPATH = "${pkgs.bwidget}/lib/bwidget${pkgs.bwidget.version}"; }); + networkscaleup = old.networkscaleup.overrideAttrs (attrs: { + env = (attrs.env or { }) // { + # needed to avoid "log limit exceeded" on Hydra + NIX_CFLAGS_COMPILE = attrs.env.NIX_CFLAGS_COMPILE + " -Wno-ignored-attributes"; + }; + + # consumes a lot of resources in parallel + enableParallelBuilding = false; + }); + RPostgres = old.RPostgres.overrideAttrs (attrs: { preConfigure = '' export INCLUDE_DIR=${pkgs.postgresql}/include @@ -1497,6 +1466,16 @@ let ''; }); + FlexReg = old.FlexReg.overrideAttrs (attrs: { + env = (attrs.env or { }) // { + # needed to avoid "log limit exceeded" on Hydra + NIX_CFLAGS_COMPILE = attrs.env.NIX_CFLAGS_COMPILE + " -Wno-ignored-attributes"; + }; + + # consumes a lot of resources in parallel + enableParallelBuilding = false; + }); + geojsonio = old.geojsonio.overrideAttrs (attrs: { buildInputs = [ cacert ] ++ attrs.buildInputs; }); @@ -1538,6 +1517,18 @@ let ''; }); + nearfar = let + angrist = fetchurl { + url = "https://raw.githubusercontent.com/joerigdon/nearfar/master/angrist.csv"; + hash = "sha256-lb+HMHnRGonc26merFGB0B7Vk1Lk+sIJlay+JtQC8m4="; + }; + in old.nearfar.overrideAttrs (attrs: { + postPatch = '' + substituteInPlace "R/nearfar.R" --replace-fail \ + 'url("https://raw.githubusercontent.com/joerigdon/nearfar/master/angrist.csv")' '"${angrist}"' + ''; + }); + rstan = old.rstan.overrideAttrs (attrs: { env = (attrs.env or { }) // { NIX_CFLAGS_COMPILE = attrs.env.NIX_CFLAGS_COMPILE + " -DBOOST_PHOENIX_NO_VARIADIC_EXPRESSION"; @@ -1647,6 +1638,15 @@ let hardeningDisable = [ "format" ]; }); + Rbwa = old.Rbwa.overrideAttrs (attrs: { + # Parallel build cleans up *.o before they can be packed in a library + postPatch = '' + substituteInPlace src/Makefile --replace-fail \ + "all:\$(PROG) ../inst/bwa clean" \ + "all:\$(PROG) ../inst/bwa" \ + ''; + }); + ROracle = old.ROracle.overrideAttrs (attrs: { configureFlags = [ "--with-oci-lib=${pkgs.oracle-instantclient.lib}/lib" @@ -1710,14 +1710,37 @@ let postPatch = "patchShebangs configure"; }); + SharedObject = old.SharedObject.overrideAttrs (attrs: { + # backport PR resolving build issues: https://github.com/Jiefei-Wang/SharedObject/pull/17 + patches = let inherit (pkgs) fetchpatch; in [ + (fetchpatch { + url = "https://github.com/Jiefei-Wang/SharedObject/pull/17/commits/50c4b2964649d7f5a14d843bd7089ab62650fcd3.patch"; + sha256 = "sha256-zn535IeOYRvyQ2yxgoGEq2wccrl9xdu9nREmy7sV+PQ="; + }) + (fetchpatch { + url = "https://github.com/Jiefei-Wang/SharedObject/pull/17/commits/bf096a39858e9210cbe246d4b136905d4cfbfaf4.patch"; + sha256 = "sha256-Z+BZOkFnLgIBiVuPsAHp7bMXzADcvuHV4hILdmLvd+k="; + }) + ]; + }); + httr2 = old.httr2.overrideAttrs (attrs: { preConfigure = "patchShebangs configure"; }); + dbarts = old.dbarts.override { platforms = lib.platforms.x86_64 ++ lib.platforms.x86; }; + geomorph = old.geomorph.overrideAttrs (attrs: { RGL_USE_NULL = "true"; }); + gpuMagic = old.gpuMagic.overrideAttrs (_: { + hardeningDisable = ["format"]; + }); + + Rdisop = old.Rdisop.overrideAttrs (_: { + hardeningDisable = ["format"]; + }); opencv = let opencvGtk = pkgs.opencv.override (old : { enableGtk2 = true; }); @@ -1763,6 +1786,10 @@ let ''; }); + oligo = old.oligo.overrideAttrs (_: { + hardeningDisable = ["format"]; + }); + tesseract = old.tesseract.overrideAttrs (_: { preConfigure = '' substituteInPlace configure \ |