From deaab56289eed7435fd5406ef01faff403c97044 Mon Sep 17 00:00:00 2001 From: Sergei Trofimovich Date: Sat, 14 May 2022 13:18:54 +0100 Subject: [PATCH] freebayes: add -fcommon workaround Workaround build failure on -fno-common toolchains like upstream gcc-10. Otherwise build fails as: ld: foomatic_rip-options.o:/build/foomatic-filters-4.0.17/options.c:49: multiple definition of `cupsfilter'; foomatic_rip-foomaticrip.o:/build/foomatic-filters-4.0.17/foomaticrip.c:158: first defined here --- pkgs/applications/science/biology/freebayes/default.nix | 6 ++++++ 1 file changed, 6 insertions(+) diff --git a/pkgs/applications/science/biology/freebayes/default.nix b/pkgs/applications/science/biology/freebayes/default.nix index 8646b8ca54a..5c2f09a4fae 100644 --- a/pkgs/applications/science/biology/freebayes/default.nix +++ b/pkgs/applications/science/biology/freebayes/default.nix @@ -15,6 +15,12 @@ stdenv.mkDerivation rec { buildInputs = [ zlib bzip2 xz ]; + # Workaround build failure on -fno-common toolchains like upstream + # gcc-10. Otherwise build fails as: + # ld: foomatic_rip-options.o:/build/foomatic-filters-4.0.17/options.c:49: multiple definition of `cupsfilter'; + # foomatic_rip-foomaticrip.o:/build/foomatic-filters-4.0.17/foomaticrip.c:158: first defined here + NIX_CFLAGS_COMPILE = "-fcommon"; + installPhase = '' install -vD bin/freebayes bin/bamleftalign scripts/* -t $out/bin '';