default.nix

{ stdenv
, fetchurl
, llvmPackages
, overrideCC
, gcc }:

let

openmp = llvmPackages.openmp;

in (overrideCC stdenv gcc).mkDerivation rec {
  pname = "PhysiCell";
  version = "1.7.1";

  buildInputs = [ openmp ];
  nativeBuildInputs = [ openmp ];

  src = fetchGit {
    url = "file:///Users/dom/GBM-tumour-growth-with-stroma";
    rev = "f0541645b0cce984814efdb5bf6c6b60ced57821";
  };
  PHYSICELL_CPP="${gcc}/bin/g++";

  project = "GBM_stroma_growth";

  buildPhase = ''
    make $project-sample
    make
  '';

  installPhase = ''
    mkdir -p "$out"/bin
    cp $project $out/bin/$project
  '';

  meta = with stdenv.lib; {
    description = "PhysiCell: an Open Source Physics-Based Cell Simulator for 3-D Multicellular Systems.";
    homepage    = http://physicell.org;
    platforms   = platforms.all;
    maintainers = with maintainers; [ idontgetoutmuch ];
    license     = licenses.bsd3;
  };
}

shell.nix

let

nixpkgs = builtins.fetchTarball {
    url = "https://github.com/NixOS/nixpkgs/archive/20.03.tar.gz";
    sha256 = "0182ys095dfx02vl2a20j1hz92dx3mfgz2a6fhn31bqlp1wa8hlq";
};

in

with import nixpkgs { overlays = [ ]; };

let

openmp = llvmPackages.openmp;

myInputs = [
  cabal-install
  ghc
  openmp
  which
];

in

(overrideCC stdenv gcc).mkDerivation {
  name = "nix-shell";
  phases = ["nobuildPhase"];
  buildInputs = myInputs;
  nativeBuildInputs = myInputs;
  propagatedBuildInputs = myInputs;
  propagatedNativeBuildInputs = myInputs;

  PHYSICELL_CPP="${gcc}/bin/g++";

  nobuildPhase = ''
    echo
    echo "This derivation is not meant to be built, aborting";
    echo
    exit 1
  '';
}