diff --git a/pkgs/development/libraries/science/math/mongoose/default.nix b/pkgs/development/libraries/science/math/mongoose/default.nix new file mode 100644 index 0000000000000..36c53b2994f55 --- /dev/null +++ b/pkgs/development/libraries/science/math/mongoose/default.nix @@ -0,0 +1,30 @@ +{ stdenv +, fetchFromGitHub +, cmake +}: + +stdenv.mkDerivation rec { + pname = "mongoose"; + version = "2.0.4"; + + outputs = [ "bin" "out" "dev" ]; + + src = fetchFromGitHub { + owner = "ScottKolo"; + repo = "Mongoose"; + rev = "v${version}"; + sha256 = "0ymwd4n8p8s0ndh1vcbmjcsm0x2cc2b7v3baww5y6as12873bcrh"; + }; + + nativeBuildInputs = [ + cmake + ]; + + meta = with stdenv.lib; { + description = "Graph Coarsening and Partitioning Library"; + homepage = "https://github.com/ScottKolo/Mongoose"; + license = licenses.gpl3; + maintainers = with maintainers; []; + platforms = with platforms; unix; + }; +} diff --git a/pkgs/development/libraries/science/math/suitesparse-graphblas/default.nix b/pkgs/development/libraries/science/math/suitesparse-graphblas/default.nix new file mode 100644 index 0000000000000..599c1be664614 --- /dev/null +++ b/pkgs/development/libraries/science/math/suitesparse-graphblas/default.nix @@ -0,0 +1,32 @@ +{ stdenv +, fetchFromGitHub +, cmake +, gnum4 +}: + +stdenv.mkDerivation rec { + pname = "suitesparse-graphblas"; + version = "3.2.1"; + + outputs = [ "out" "dev" ]; + + src = fetchFromGitHub { + owner = "DrTimothyAldenDavis"; + repo = "GraphBLAS"; + rev = "v${version}"; + sha256 = "AAwwzrpKFHy40Ldm6hTO6L0FWPYwi3kJj3zrshFwYas="; + }; + + nativeBuildInputs = [ + cmake + gnum4 + ]; + + meta = with stdenv.lib; { + description = "Graph algorithms in the language of linear algebra"; + homepage = "http://faculty.cse.tamu.edu/davis/GraphBLAS.html"; + license = licenses.asl20; + maintainers = with maintainers; []; + platforms = with platforms; unix; + }; +} diff --git a/pkgs/development/libraries/science/math/suitesparse/default.nix b/pkgs/development/libraries/science/math/suitesparse/default.nix index f72574cff5830..f4adafd0f3876 100644 --- a/pkgs/development/libraries/science/math/suitesparse/default.nix +++ b/pkgs/development/libraries/science/math/suitesparse/default.nix @@ -1,96 +1,65 @@ -{ stdenv, fetchurl, gfortran, openblas, cmake, fixDarwinDylibNames +{ stdenv +, fetchFromGitHub +, gfortran +, openblas +, metis +, fixDarwinDylibNames , gnum4 -, enableCuda ? false, cudatoolkit +, enableCuda ? false +, cudatoolkit }: -let - version = "5.4.0"; - name = "suitesparse-${version}"; - - SHLIB_EXT = stdenv.hostPlatform.extensions.sharedLibrary; -in stdenv.mkDerivation rec { - inherit name; - - src = fetchurl { - url = "http://faculty.cse.tamu.edu/davis/SuiteSparse/SuiteSparse-${version}.tar.gz"; - sha256 = "1lfvjj787yqyhk25w7brlrkrl7dnnn5dq4ijxws3wrbcd4vd2k9p"; - }; + pname = "suitesparse"; + version = "5.7.1"; - dontUseCmakeConfigure = true; + outputs = [ "out" "dev" "doc" ]; - preConfigure = '' - mkdir -p $out/lib - mkdir -p $out/include - mkdir -p $out/share/doc/${name} - - sed -i "SuiteSparse_config/SuiteSparse_config.mk" \ - -e 's/METIS .*$/METIS =/' \ - -e 's/METIS_PATH .*$/METIS_PATH =/' \ - -e '/CHOLMOD_CONFIG/ s/$/-DNPARTITION/' - '' - + stdenv.lib.optionalString stdenv.isDarwin '' - sed -i "SuiteSparse_config/SuiteSparse_config.mk" \ - -e 's/^[[:space:]]*\(LIB = -lm\) -lrt/\1/' - '' - + stdenv.lib.optionalString enableCuda '' - sed -i "SuiteSparse_config/SuiteSparse_config.mk" \ - -e 's|^[[:space:]]*\(CUDA_ROOT =\)|CUDA_ROOT = ${cudatoolkit}|' \ - -e 's|^[[:space:]]*\(GPU_BLAS_PATH =\)|GPU_BLAS_PATH = $(CUDA_ROOT)|' \ - -e 's|^[[:space:]]*\(GPU_CONFIG =\)|GPU_CONFIG = -I$(CUDA_ROOT)/include -DGPU_BLAS -DCHOLMOD_OMP_NUM_THREADS=$(NIX_BUILD_CORES) |' \ - -e 's|^[[:space:]]*\(CUDA_PATH =\)|CUDA_PATH = $(CUDA_ROOT)|' \ - -e 's|^[[:space:]]*\(CUDART_LIB =\)|CUDART_LIB = $(CUDA_ROOT)/lib64/libcudart.so|' \ - -e 's|^[[:space:]]*\(CUBLAS_LIB =\)|CUBLAS_LIB = $(CUDA_ROOT)/lib64/libcublas.so|' \ - -e 's|^[[:space:]]*\(CUDA_INC_PATH =\)|CUDA_INC_PATH = $(CUDA_ROOT)/include/|' \ - -e 's|^[[:space:]]*\(NV20 =\)|NV20 = -arch=sm_20 -Xcompiler -fPIC|' \ - -e 's|^[[:space:]]*\(NV30 =\)|NV30 = -arch=sm_30 -Xcompiler -fPIC|' \ - -e 's|^[[:space:]]*\(NV35 =\)|NV35 = -arch=sm_35 -Xcompiler -fPIC|' \ - -e 's|^[[:space:]]*\(NVCC =\) echo|NVCC = $(CUDA_ROOT)/bin/nvcc|' \ - -e 's|^[[:space:]]*\(NVCCFLAGS =\)|NVCCFLAGS = $(NV20) -O3 -gencode=arch=compute_20,code=sm_20 -gencode=arch=compute_30,code=sm_30 -gencode=arch=compute_35,code=sm_35 -gencode=arch=compute_60,code=sm_60|' - ''; - - NIX_CFLAGS_COMPILE = stdenv.lib.optionalString stdenv.isDarwin " -DNTIMER"; - - buildPhase = '' - runHook preBuild + src = fetchFromGitHub { + owner = "DrTimothyAldenDavis"; + repo = "SuiteSparse"; + rev = "v${version}"; + sha256 = "SA9SQKRDKUI1GilNMuCXljcvovLUwRKBUi/tiQ4dl5w="; + }; - # Build individual shared libraries - make library \ - JOBS=$NIX_BUILD_CORES \ - BLAS=-lopenblas \ - LAPACK="" \ - ${stdenv.lib.optionalString openblas.blas64 "CFLAGS=-DBLAS64"} + nativeBuildInputs = [ + gnum4 + ] ++ stdenv.lib.optional stdenv.isDarwin fixDarwinDylibNames; - # Build libsuitesparse.so which bundles all the individual libraries. - # Bundling is done by building the static libraries, extracting objects from - # them and combining the objects into one shared library. - mkdir -p static - make static JOBS=$NIX_BUILD_CORES AR_TARGET=$(pwd)/static/'$(LIBRARY).a' - ( - cd static - for i in lib*.a; do - ar -x $i - done - ) - ${if enableCuda then "${cudatoolkit}/bin/nvcc" else "${stdenv.cc.outPath}/bin/cc"} \ - static/*.o \ - ${if stdenv.isDarwin then "-dynamiclib" else "--shared"} \ - -o "lib/libsuitesparse${SHLIB_EXT}" \ - -lopenblas \ - ${stdenv.lib.optionalString enableCuda "-lcublas"} + buildInputs = [ + openblas + metis + gfortran.cc.lib + ] ++ stdenv.lib.optional enableCuda cudatoolkit; - runHook postBuild + preConfigure = '' + # Mongoose and GraphBLAS are packaged separately + sed -i "Makefile" -e '/GraphBLAS\|Mongoose/d' ''; - installPhase = '' - runHook preInstall - - mkdir -p $out - cp -r lib $out/ - cp -r include $out/ - cp -r share $out/ - '' - + stdenv.lib.optionalString stdenv.isDarwin '' + makeFlags = [ + "INSTALL=${placeholder "out"}" + "INSTALL_INCLUDE=${placeholder "dev"}/include" + "JOBS=$(NIX_BUILD_CORES)" + "BLAS=-lopenblas" + "MY_METIS_LIB=-lmetis" + "LAPACK=" + ] ++ stdenv.lib.optionals openblas.blas64 [ + "CFLAGS=-DBLAS64" + ] ++ stdenv.lib.optionals enableCuda [ + "CUDA_PATH=${cudatoolkit}" + "CUDART_LIB=${cudatoolkit.lib}/lib/libcudart.so" + "CUBLAS_LIB=${cudatoolkit}/lib/libcublas.so" + ]; + + buildFlags = [ + # Build individual shared libraries, not demos + "library" + ]; + + # Likely fixed after 5.7.1 + # https://github.com/DrTimothyAldenDavis/SuiteSparse/commit/f6daae26ee391e475e2295e77c839aa7c1a8b784 + postInstall = stdenv.lib.optionalString stdenv.isDarwin '' # The fixDarwinDylibNames in nixpkgs can't seem to fix all the libraries. # We manually fix them up here. fixDarwinDylibNames() { @@ -109,28 +78,10 @@ stdenv.mkDerivation rec { } fixDarwinDylibNames $(find "$out" -name "*.dylib") - '' - + stdenv.lib.optionalString (!stdenv.isDarwin) '' - # Fix rpaths - cd $out - find -name \*.so\* -type f -exec \ - patchelf --set-rpath "$out/lib:${stdenv.lib.makeLibraryPath buildInputs}" {} \; - '' - + - '' - runHook postInstall - ''; - - nativeBuildInputs = [ - cmake - gnum4 - ] ++ stdenv.lib.optional stdenv.isDarwin fixDarwinDylibNames; - - buildInputs = [ openblas gfortran.cc.lib ] - ++ stdenv.lib.optional enableCuda cudatoolkit; + ''; meta = with stdenv.lib; { - homepage = http://faculty.cse.tamu.edu/davis/suitesparse.html; + homepage = "http://faculty.cse.tamu.edu/davis/suitesparse.html"; description = "A suite of sparse matrix algorithms"; license = with licenses; [ bsd2 gpl2Plus lgpl21Plus ]; maintainers = with maintainers; [ ttuegel ]; diff --git a/pkgs/development/python-modules/cvxopt/default.nix b/pkgs/development/python-modules/cvxopt/default.nix index a842baca22891..fd44f49b53c92 100644 --- a/pkgs/development/python-modules/cvxopt/default.nix +++ b/pkgs/development/python-modules/cvxopt/default.nix @@ -31,8 +31,8 @@ buildPythonPackage rec { export CVXOPT_BLAS_LIB_DIR=${openblasCompat}/lib export CVXOPT_BLAS_LIB=openblas export CVXOPT_LAPACK_LIB=openblas - export CVXOPT_SUITESPARSE_LIB_DIR=${suitesparse}/lib - export CVXOPT_SUITESPARSE_INC_DIR=${suitesparse}/include + export CVXOPT_SUITESPARSE_LIB_DIR=${lib.getLib suitesparse}/lib + export CVXOPT_SUITESPARSE_INC_DIR=${lib.getDev suitesparse}/include '' + lib.optionalString withGsl '' export CVXOPT_BUILD_GSL=1 export CVXOPT_GSL_LIB_DIR=${gsl}/lib diff --git a/pkgs/top-level/all-packages.nix b/pkgs/top-level/all-packages.nix index 8d908b6625ef0..52ab6074b37c0 100644 --- a/pkgs/top-level/all-packages.nix +++ b/pkgs/top-level/all-packages.nix @@ -24404,6 +24404,8 @@ in suitesparse_5_3 = callPackage ../development/libraries/science/math/suitesparse {}; suitesparse = suitesparse_5_3; + suitesparse-graphblas = callPackage ../development/libraries/science/math/suitesparse-graphblas {}; + superlu = callPackage ../development/libraries/science/math/superlu {}; symmetrica = callPackage ../applications/science/math/symmetrica {}; @@ -25253,6 +25255,8 @@ in mongoc = callPackage ../development/libraries/mongoc { }; + mongoose = callPackage ../development/libraries/science/math/mongoose {}; + morph = callPackage ../tools/package-management/morph { }; mupen64plus = callPackage ../misc/emulators/mupen64plus { };