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hh-suite: fix build on GCC 13

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The build of `hh-suite` stopped working with GCC 13 because
GCC stopped transitively including a couple of headers like
`cstdint` in various scenarios.

There already is an upstream PR proposed that fixes this issue [1]
but hasn't been merged yet. This change pulls in this correction
using `fetchpatch`, fixing the build for now.

[1]: https://github.com/soedinglab/hh-suite/pull/357
This commit is contained in:
Manuel Frischknecht 2024-02-08 21:54:47 +00:00
parent a5d28c9bff
commit 14a19fa225
1 changed files with 10 additions and 0 deletions
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10
pkgs/applications/science/biology/hh-suite/default.nix
View file

@ -1,6 +1,7 @@
{ lib { lib
, stdenv , stdenv
, fetchFromGitHub , fetchFromGitHub
, fetchpatch
, cmake , cmake
, xxd , xxd
, enableMpi ? false , enableMpi ? false
@ -18,6 +19,15 @@ stdenv.mkDerivation rec {
hash = "sha256-kjNqJddioCZoh/cZL3YNplweIGopWIGzCYQOnKDqZmw="; hash = "sha256-kjNqJddioCZoh/cZL3YNplweIGopWIGzCYQOnKDqZmw=";
}; };
patches = [
# Should be removable as soon as this upstream PR is merged: https://github.com/soedinglab/hh-suite/pull/357
(fetchpatch {
name = "fix-gcc13-build-issues.patch";
url = "https://github.com/soedinglab/hh-suite/commit/cec47cba5dcd580e668b1ee507c9282fbdc8e7d7.patch";
hash = "sha256-Msdmj9l8voPYXK0SSwUA6mEbFLBhTjjE/Kjp0VL4Kf4=";
})
];
nativeBuildInputs = [ cmake xxd ]; nativeBuildInputs = [ cmake xxd ];
cmakeFlags = lib.optional stdenv.hostPlatform.isx86 "-DHAVE_SSE2=1" cmakeFlags = lib.optional stdenv.hostPlatform.isx86 "-DHAVE_SSE2=1"
++ lib.optional stdenv.hostPlatform.isAarch "-DHAVE_ARM8=1" ++ lib.optional stdenv.hostPlatform.isAarch "-DHAVE_ARM8=1"