sortmerna 4.2.0 -> 4.3.6 https://github.com/biocore/sortmerna/releases attrpath: sortmerna Checking auto update branch... No auto update branch exists [version] [version] updated version and sha256 [rustCrateVersion] [rustCrateVersion] No cargoSha256 or cargoHash found [golangModuleVersion] [golangModuleVersion] Not a buildGoModule package with vendorSha256 or vendorHash [updateScript] [updateScript] skipping because derivation has no updateScript [quotedUrls] [quotedUrls] nothing found to replace Diff after rewrites: diff --git a/pkgs/applications/science/biology/sortmerna/default.nix b/pkgs/applications/science/biology/sortmerna/default.nix index 6884e1955f7..974894554d7 100644 --- a/pkgs/applications/science/biology/sortmerna/default.nix +++ b/pkgs/applications/science/biology/sortmerna/default.nix @@ -2,13 +2,13 @@ stdenv.mkDerivation rec { pname = "sortmerna"; - version = "4.2.0"; + version = "4.3.6"; src = fetchFromGitHub { repo = pname; owner = "biocore"; rev = "v${version}"; - sha256 = "0r91viylzr069jm7kpcgb45kagvf8sqcj5zc1af4arl9sgfs1f3j"; + sha256 = "sha256-5sYnYmhCLdsfT6ih5CEBkYxfGkP8ZOSgTWU0kY2ZKTA="; }; nativeBuildInputs = [ cmake pkg-config ]; Received ExitFailure 1 when running Raw command: /nix/store/3nqhcyc7vid1npgcd0m7arg5sn325nhz-nix-2.12.0/bin/nix-build --option sandbox true --arg config "{ allowBroken = true; allowUnfree = true; allowAliases = false; }" --arg overlays "[ ]" -A sortmerna nix build failed. /build/source/include/kseq.h:221:9: note: in expansion of macro '__KSEQ_READ' 221 | __KSEQ_READ | ^~~~~~~~~~~ /build/source/include/kseq_load.hpp:43:1: note: in expansion of macro 'KSEQ_INIT' 43 | KSEQ_INIT(gzFile, gzread) | ^~~~~~~~~ /build/source/src/sortmerna/index.cpp: In member function 'void Index::load(uint32_t, uint32_t, std::vector, std::__cxx11::basic_string > >&, Refstats&)': /build/source/src/sortmerna/index.cpp:211:58: warning: dereferencing type-punned pointer will break strict-aliasing rules []8;;https://gcc.gnu.org/onlinedocs/gcc/Warning-Options.html#index-Wstrict-aliasing-Wstrict-aliasing]8;;] 211 | ((NodeElement *&)dst) += 4; | ^~~ /build/source/src/sortmerna/index.cpp:257:82: warning: dereferencing type-punned pointer will break strict-aliasing rules []8;;https://gcc.gnu.org/onlinedocs/gcc/Warning-Options.html#index-Wstrict-aliasing-Wstrict-aliasing]8;;] 257 | ((NodeElement *&)dst) += 4; | ^~~ /build/source/src/sortmerna/read.cpp: In member function 'void Read::unmarshallJson(KeyValueDatabase&)': /build/source/src/sortmerna/read.cpp:540:46: warning: unused parameter 'kvdb' []8;;https://gcc.gnu.org/onlinedocs/gcc/Warning-Options.html#index-Wunused-parameter-Wunused-parameter]8;;] 540 | void Read::unmarshallJson(KeyValueDatabase & kvdb) | ~~~~~~~~~~~~~~~~~~~^~~~ /build/source/src/sortmerna/cmd.cpp: In member function 'void CmdSession::cmdIndex(Runopts&, std::string&)': /build/source/src/sortmerna/cmd.cpp:250:68: warning: comparison of integer expressions of different signedness: 'uint32_t' {aka 'unsigned int'} and 'int' []8;;https://gcc.gnu.org/onlinedocs/gcc/Warning-Options.html#index-Wsign-compare-Wsign-compare]8;;] 250 | if (index.positions_tbl[it->id].arr[i].seq == std::stoi(refid)) | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~ /build/source/src/sortmerna/cmd.cpp: In member function 'void CmdSession::cmdTest(Runopts&, std::string&)': /build/source/src/sortmerna/cmd.cpp:317:36: warning: unused parameter 'opts' []8;;https://gcc.gnu.org/onlinedocs/gcc/Warning-Options.html#index-Wunused-parameter-Wunused-parameter]8;;] 317 | void CmdSession::cmdTest(Runopts & opts, std::string & cmd) | ~~~~~~~~~~^~~~ /build/source/src/sortmerna/cmd.cpp:317:56: warning: unused parameter 'cmd' []8;;https://gcc.gnu.org/onlinedocs/gcc/Warning-Options.html#index-Wunused-parameter-Wunused-parameter]8;;] 317 | void CmdSession::cmdTest(Runopts & opts, std::string & cmd) | ~~~~~~~~~~~~~~^~~ make[1]: *** [CMakeFiles/Makefile2:216: src/sortmerna/CMakeFiles/smr_objs.dir/all] Error 2 make: *** [Makefile:156: all] Error 2