From 0c544b0f0fa8c58fbc3bec059a9b8606f974d52a Mon Sep 17 00:00:00 2001 From: Sergei Trofimovich Date: Sun, 25 Feb 2024 07:49:10 +0000 Subject: sortmerna: fix `gcc-13` build Without the change the build on `master` fails as https://hydra.nixos.org/build/249070958: In file included from /build/source/src/sortmerna/kseq_load.cpp:38: /build/source/include/kseq_load.hpp:61:12: error: 'uint64_t' has not been declared 61 | uint64_t number_total_read, | ^~~~~~~~ --- pkgs/applications/science/biology/sortmerna/default.nix | 4 ++++ 1 file changed, 4 insertions(+) (limited to 'pkgs/applications/science') diff --git a/pkgs/applications/science/biology/sortmerna/default.nix b/pkgs/applications/science/biology/sortmerna/default.nix index a529867aaa74..bfd6d20f1384 100644 --- a/pkgs/applications/science/biology/sortmerna/default.nix +++ b/pkgs/applications/science/biology/sortmerna/default.nix @@ -32,6 +32,10 @@ stdenv.mkDerivation rec { substituteInPlace src/sortmerna/CMakeLists.txt \ --replace "target_link_libraries(sortmerna" \ "target_link_libraries(sortmerna Threads::Threads" + + # Fix gcc-13 build by adding missing includes: + # https://github.com/sortmerna/sortmerna/issues/412 + sed -e '1i #include ' -i include/kseq_load.hpp ''; meta = with lib; { -- cgit 1.4.1