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Merge pull request #172458 from tjni/bowtie-m1

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bowtie: fix build on darwin
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Artturi 2022-05-11 13:21:16 +03:00 committed by GitHub
commit 902d6f55c0
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1 changed files with 21 additions and 1 deletions
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22
pkgs/applications/science/biology/bowtie/default.nix
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@ -1,4 +1,4 @@
{ lib, stdenv, fetchFromGitHub, zlib }:
{ lib, stdenv, fetchFromGitHub, fetchpatch, zlib }:
stdenv.mkDerivation rec {
pname = "bowtie";
@ -11,6 +11,26 @@ stdenv.mkDerivation rec {
sha256 = "sha256-mWItmrTMPst/NnzSpxxTHcBztDqHPCza9yOsZPwp7G4=";
};
patches = [
# Without this patch, compiling with clang on an M1 Mac fails because
# 'cpuid.h' is included. It only works on x86 and throws an error.
(fetchpatch {
name = "fix_compilation_on_arm64";
url = "https://github.com/BenLangmead/bowtie/commit/091d72f4cb69ca0713704d38bd7f9b37e6c4ff2d.patch";
sha256 = "sha256-XBvgICUBnE5HKpJ36IHTDiKjJgLFKETsIaJC46uN+2I=";
})
# Without this patch, compilation adds the current source directory to the
# include search path, and #include <version> in standard library code can
# end up picking the unrelated VERSION source code file on case-insensitive
# file systems.
(fetchpatch {
name = "fix_include_search_path";
url = "https://github.com/BenLangmead/bowtie/commit/c208b9db936eab0bc3ffdf0182b4f59a9017a1c4.patch";
sha256 = "sha256-772EE+oWFWXssSMabPryb0AfIS1tC10mPTRCBm7RrUs=";
})
];
buildInputs = [ zlib ];
installFlags = [ "prefix=$(out)" ];