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/src/sortmerna/options.cpp: In member function 'void Runopts::opt_align(const std::string&)': /build/source/src/sortmerna/options.cpp:1193:44: warning: unused parameter 'val' []8;;https://gcc.gnu.org/onlinedocs/gcc/Warning-Options.html#index-Wunused-parameter-Wunused-parameter]8;;] 1193 | void Runopts::opt_align(const std::string& val) | ~~~~~~~~~~~~~~~~~~~^~~ /build/source/src/sortmerna/options.cpp: In member function 'void Runopts::opt_filter(const std::string&)': /build/source/src/sortmerna/options.cpp:1198:45: warning: unused parameter 'val' []8;;https://gcc.gnu.org/onlinedocs/gcc/Warning-Options.html#index-Wunused-parameter-Wunused-parameter]8;;] 1198 | void Runopts::opt_filter(const std::string& val) | ~~~~~~~~~~~~~~~~~~~^~~ /build/source/src/sortmerna/options.cpp: In member function 'void Runopts::process(int, char**, bool)': /build/source/src/sortmerna/options.cpp:1368:50: warning: unused parameter 'dryrun' []8;;https://gcc.gnu.org/onlinedocs/gcc/Warning-Options.html#index-Wunused-parameter-Wunused-parameter]8;;] 1368 | void Runopts::process(int argc, char**argv, bool dryrun) | ~~~~~^~~~~~ In file included from /nix/store/0ccvlygpc7p5zyfsyz8mmg9ycqkvrcp2-glibc-2.37-8-dev/include/string.h:535, from /build/source/include/ssw.h:24, from /build/source/include/indexdb.hpp:40, from /build/source/src/sortmerna/index.cpp:51: In function 'void* memcpy(void*, const void*, size_t)', inlined from 'void Index::load(uint32_t, uint32_t, std::vector, std::__cxx11::basic_string > >&, Refstats&)' at /build/source/src/sortmerna/index.cpp:254:15: /nix/store/0ccvlygpc7p5zyfsyz8mmg9ycqkvrcp2-glibc-2.37-8-dev/include/bits/string_fortified.h:29:33: warning: 'newnode' may be used uninitialized []8;;https://gcc.gnu.org/onlinedocs/gcc/Warning-Options.html#index-Wmaybe-uninitialized-Wmaybe-uninitialized]8;;] 29 | return __builtin___memcpy_chk (__dest, __src, __len, | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~ 30 |  __glibc_objsize0 (__dest)); | ~~~~~~~~~~~~~~~~~~~~~~~~~~ : In member function 'void Index::load(uint32_t, uint32_t, std::vector, std::__cxx11::basic_string > >&, Refstats&)': : note: by argument 2 of type 'const void*' to 'void* __builtin___memcpy_chk(void*, const void*, long unsigned int, long unsigned int)' declared here /build/source/src/sortmerna/index.cpp:253:77: note: 'newnode' declared here 253 | NodeElement newnode[4]; | ^~~~~~~ make[1]: *** [CMakeFiles/Makefile2:216: src/sortmerna/CMakeFiles/smr_objs.dir/all] Error 2 make: *** [Makefile:156: all] Error 2