mirror of
https://github.com/NixOS/nixpkgs.git
synced 2024-12-12 00:33:10 +00:00
f9fdf2d402
with structuredAttrs lists will be bash arrays which cannot be exported which will be a issue with some patches and some wrappers like cc-wrapper this makes it clearer that NIX_CFLAGS_COMPILE must be a string as lists in env cause a eval failure
44 lines
1.0 KiB
Nix
44 lines
1.0 KiB
Nix
{lib, stdenv, fetchFromGitHub, cmake, zlib, python2}:
|
|
|
|
stdenv.mkDerivation rec {
|
|
pname = "strelka";
|
|
version = "2.9.10";
|
|
|
|
src = fetchFromGitHub {
|
|
owner = "Illumina";
|
|
repo = "strelka";
|
|
rev = "v${version}";
|
|
sha256 = "1nykbmim1124xh22nrhrsn8xgjb3s2y7akrdapn9sl1gdych4ppf";
|
|
};
|
|
|
|
nativeBuildInputs = [ cmake ];
|
|
buildInputs = [ zlib python2 ];
|
|
|
|
env.NIX_CFLAGS_COMPILE = toString [
|
|
"-Wno-error=maybe-uninitialized"
|
|
"-Wno-error=pessimizing-move"
|
|
];
|
|
|
|
preConfigure = ''
|
|
sed -i 's|/usr/bin/env python|${python2}/bin/python|' src/python/lib/makeRunScript.py
|
|
patchShebangs .
|
|
'';
|
|
|
|
postFixup = ''
|
|
pushd $out/lib/python/pyflow
|
|
sed -i 's|/bin/bash|${stdenv.shell}|' pyflowTaskWrapper.py
|
|
rm pyflowTaskWrapper.pyc
|
|
echo "import pyflowTaskWrapper" | python2
|
|
popd
|
|
'';
|
|
|
|
meta = with lib; {
|
|
description = "Germline and small variant caller";
|
|
license = licenses.gpl3;
|
|
homepage = "https://github.com/Illumina/strelka";
|
|
maintainers = with maintainers; [ jbedo ];
|
|
platforms = [ "x86_64-linux" ];
|
|
};
|
|
|
|
}
|