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{lib, stdenv, fetchpatch, fetchFromGitHub, cmake, boost, gmp, htslib, zlib, xz, pkg-config}:
stdenv.mkDerivation rec {
pname = "octopus";
version = "0.7.3";
src = fetchFromGitHub {
owner = "luntergroup";
repo = "octopus";
rev = "v${version}";
sha256 = "sha256-sPOBZ0YrEdjMNVye/xwqwA5IpsLy2jWN3sm/ce1fLg4=";
};
patches = [
# Backport TZ patchs (https://github.com/luntergroup/octopus/issues/149)
(fetchpatch {
url = "https://github.com/luntergroup/octopus/commit/3dbd8cc33616129ad356e99a4dae82e4f6702250.patch";
sha256 = "sha256-UCufVU9x+L1zCEhkr/48KFYRvh8w26w8Jr+O+wULKK8=";
})
(fetchpatch {
url = "https://github.com/luntergroup/octopus/commit/af5a66a2792bd098fb53eb79fb4822625f09305e.patch";
sha256 = "sha256-r8jv6EZHfTWVLYUBau3F+ilOd9IeH8rmatorEY5LXP4=";
})
];
nativeBuildInputs = [ cmake pkg-config ];
buildInputs = [ boost gmp htslib zlib xz ];
postInstall = ''
mkdir $out/bin
mv $out/octopus $out/bin
'';
meta = with lib; {
description = "Bayesian haplotype-based mutation calling";
license = licenses.mit;
homepage = "https://github.com/luntergroup/octopus";
maintainers = with maintainers; [ jbedo ];
platforms = platforms.x86_64;
};
}
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