Package: racon Version: 1.4.21-1 Severity: serious X-Debbugs-Cc: ni...@thykier.net
Hi, A new version of libedlib (with a new ABI) has been uploaded to unstable and that causes racon to fail to build from source. Relevant parts of the amd64 log: ``` > /usr/bin/cmake -E cmake_link_script CMakeFiles/racon_test.dir/link.txt > --verbose=1 > /usr/bin/c++ -g -O2 -ffile-prefix-map=/<<PKGBUILDDIR>>=. > -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time > -D_FORTIFY_SOURCE=2 -Wall -Wextra -pedantic -Wl,-z,relro -Wl,-z,now -rdynamic > CMakeFiles/racon_test.dir/test/racon_test.cpp.o > CMakeFiles/racon_test.dir/src/logger.cpp.o > CMakeFiles/racon_test.dir/src/polisher.cpp.o > CMakeFiles/racon_test.dir/src/overlap.cpp.o > CMakeFiles/racon_test.dir/src/sequence.cpp.o > CMakeFiles/racon_test.dir/src/window.cpp.o -o bin/racon_test -lspoa -ledlib > -lz /usr/lib/x86_64-linux-gnu/libgtest_main.a > /usr/lib/x86_64-linux-gnu/libgtest.a -pthread > /usr/bin/ld: CMakeFiles/racon_test.dir/test/racon_test.cpp.o: in function > `calculateEditDistance(std::__cxx11::basic_string<char, > std::char_traits<char>, std::allocator<char> > const&, > std::__cxx11::basic_string<char, std::char_traits<char>, std::allocator<char> > > const&)': > ./obj-x86_64-linux-gnu/./test/racon_test.cpp:18: undefined reference to > `edlibDefaultAlignConfig' > /usr/bin/ld: ./obj-x86_64-linux-gnu/./test/racon_test.cpp:18: undefined > reference to `edlibAlign' > /usr/bin/ld: ./obj-x86_64-linux-gnu/./test/racon_test.cpp:22: undefined > reference to `edlibFreeAlignResult' > /usr/bin/ld: CMakeFiles/racon_test.dir/src/overlap.cpp.o: in function > `racon::Overlap::align_overlaps(char const*, unsigned int, char const*, > unsigned int)': > ./obj-x86_64-linux-gnu/./src/overlap.cpp:208: undefined reference to > `edlibNewAlignConfig' > /usr/bin/ld: ./obj-x86_64-linux-gnu/./src/overlap.cpp:208: undefined > reference to `edlibAlign' > /usr/bin/ld: ./obj-x86_64-linux-gnu/./src/overlap.cpp:213: undefined > reference to `edlibAlignmentToCigar' > /usr/bin/ld: ./obj-x86_64-linux-gnu/./src/overlap.cpp:223: undefined > reference to `edlibFreeAlignResult' > collect2: error: ld returned 1 exit status > make[3]: *** [CMakeFiles/racon_test.dir/build.make:182: bin/racon_test] Error > 1 > make[3]: Leaving directory '/<<PKGBUILDDIR>>/obj-x86_64-linux-gnu' > make[2]: *** [CMakeFiles/Makefile2:88: CMakeFiles/racon_test.dir/all] Error 2 > make[2]: *** Waiting for unfinished jobs.... > [100%] Linking CXX executable bin/racon > /usr/bin/cmake -E cmake_link_script CMakeFiles/racon.dir/link.txt --verbose=1 > /usr/bin/c++ -g -O2 -ffile-prefix-map=/<<PKGBUILDDIR>>=. > -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time > -D_FORTIFY_SOURCE=2 -Wall -Wextra -pedantic -Wl,-z,relro -Wl,-z,now -rdynamic > -pthread CMakeFiles/racon.dir/src/main.cpp.o > CMakeFiles/racon.dir/src/logger.cpp.o CMakeFiles/racon.dir/src/polisher.cpp.o > CMakeFiles/racon.dir/src/overlap.cpp.o > CMakeFiles/racon.dir/src/sequence.cpp.o CMakeFiles/racon.dir/src/window.cpp.o > -o bin/racon -lspoa -ledlib -lz > /usr/bin/ld: CMakeFiles/racon.dir/src/overlap.cpp.o: in function > `racon::Overlap::align_overlaps(char const*, unsigned int, char const*, > unsigned int)': > ./obj-x86_64-linux-gnu/./src/overlap.cpp:208: undefined reference to > `edlibNewAlignConfig' > /usr/bin/ld: ./obj-x86_64-linux-gnu/./src/overlap.cpp:208: undefined > reference to `edlibAlign' > /usr/bin/ld: ./obj-x86_64-linux-gnu/./src/overlap.cpp:213: undefined > reference to `edlibAlignmentToCigar' > /usr/bin/ld: ./obj-x86_64-linux-gnu/./src/overlap.cpp:223: undefined > reference to `edlibFreeAlignResult' > collect2: error: ld returned 1 exit status ``` Thanks, ~Niels