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strelka: fix build on gcc-12

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Without the change build fails as:

    src/c++/lib/calibration/IndelErrorModel.hh💯33: error: 'numeric_limits' is not a member of 'std'
      100 |     double logErrorRate = -std::numeric_limits<double>::infinity();
          |                                 ^~~~~~~~~~~~~~
This commit is contained in:
Sergei Trofimovich 2021-12-29 17:05:24 +00:00 committed by Weijia Wang
parent 64891e361b
commit a92211886b
2 changed files with 12 additions and 2 deletions
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12
pkgs/applications/science/biology/strelka/default.nix
View file

@ -1,4 +1,4 @@
{lib, stdenv, fetchFromGitHub, cmake, zlib, python2}:
{lib, stdenv, fetchFromGitHub, fetchpatch, cmake, zlib, python2}:
stdenv.mkDerivation rec {
pname = "strelka";
@ -11,6 +11,16 @@ stdenv.mkDerivation rec {
sha256 = "1nykbmim1124xh22nrhrsn8xgjb3s2y7akrdapn9sl1gdych4ppf";
};
patches = [
# Pull pending fix for gcc-12:
# https://github.com/Illumina/strelka/pull/204
(fetchpatch {
name = "limits.patch";
url = "https://github.com/Illumina/strelka/commit/98272cd345c6e4c672e6a5b7721204fcac0502d6.patch";
hash = "sha256-psBiuN32nvwZ+QX51JQjIdRhEE3k7PfwbkD10ckqvZk=";
})
];
nativeBuildInputs = [ cmake ];
buildInputs = [ zlib python2 ];

2
pkgs/top-level/all-packages.nix
View file

@ -39131,7 +39131,7 @@ with pkgs;
star = callPackage ../applications/science/biology/star { };
strelka = callPackage ../applications/science/biology/strelka { stdenv = gcc10StdenvCompat; };
strelka = callPackage ../applications/science/biology/strelka { };
inherit (callPackages ../applications/science/biology/sumatools {})
sumalibs