{ lib, stdenv , fetchurl , pkg-config , automake , autoconf , libtool , ncurses , readline , which , python ? null , useMpi ? false , mpi , iv }: stdenv.mkDerivation rec { pname = "neuron"; version = "7.5"; nativeBuildInputs = [ which pkg-config automake autoconf libtool ]; buildInputs = [ ncurses readline python iv ] ++ lib.optional useMpi mpi; src = fetchurl { url = "https://www.neuron.yale.edu/ftp/neuron/versions/v${version}/nrn-${version}.tar.gz"; sha256 = "0f26v3qvzblcdjg7isq0m9j2q8q7x3vhmkfllv8lsr3gyj44lljf"; }; patches = (lib.optional (stdenv.isDarwin) [ ./neuron-carbon-disable.patch ]); # With LLVM 3.8 and above, clang (really libc++) gets upset if you attempt to redefine these... postPatch = lib.optionalString stdenv.cc.isClang '' substituteInPlace src/gnu/neuron_gnu_builtin.h \ --replace 'double abs(double arg);' "" \ --replace 'float abs(float arg);' "" \ --replace 'short abs(short arg);' "" \ --replace 'long abs(long arg);' "" '' + lib.optionalString stdenv.isDarwin '' # we are darwin, but we don't have all the quirks the source wants to compensate for substituteInPlace src/nrnpython/setup.py.in --replace 'readline="edit"' 'readline="readline"' for f in src/nrnpython/*.[ch] ; do substituteInPlace $f --replace "" "" done ''; enableParallelBuilding = true; ## neuron install by default everything under prefix/${host_arch}/* ## override this to support nix standard file hierarchy ## without issues: install everything under prefix/ preConfigure = '' ./build.sh export prefix="''${prefix} --exec-prefix=''${out}" ''; configureFlags = with lib; [ "--with-readline=${readline}" "--with-iv=${iv}" ] ++ optionals (python != null) [ "--with-nrnpython=${python.interpreter}" ] ++ (if useMpi then ["--with-mpi" "--with-paranrn"] else ["--without-mpi"]); postInstall = lib.optionals (python != null) [ '' ## standardise python neuron install dir if any if [[ -d $out/lib/python ]]; then mkdir -p ''${out}/${python.sitePackages} mv ''${out}/lib/python/* ''${out}/${python.sitePackages}/ fi '']; propagatedBuildInputs = [ readline ncurses which libtool ]; meta = with lib; { description = "Simulation environment for empirically-based simulations of neurons and networks of neurons"; longDescription = "NEURON is a simulation environment for developing and exercising models of neurons and networks of neurons. It is particularly well-suited to problems where cable properties of cells play an important role, possibly including extracellular potential close to the membrane), and where cell membrane properties are complex, involving many ion-specific channels, ion accumulation, and second messengers"; license = licenses.bsd3; homepage = "http://www.neuron.yale.edu/neuron"; maintainers = [ maintainers.adev ]; # source claims it's only tested for x86 and powerpc platforms = platforms.x86_64 ++ platforms.i686; }; }