Source: nanopolish Version: 0.4.0-1 Severity: serious Tags: stretch sid User: [email protected] Usertags: qa-ftbfs-20160713 qa-ftbfs Justification: FTBFS with GCC 6 on amd64
Hi, During a rebuild of all packages in sid using the gcc-defaults package available in experimental to make GCC default to version 6, your package failed to build on amd64. For more information about GCC 6 and Stretch, see: - https://wiki.debian.org/GCC6 - https://lists.debian.org/debian-devel-announce/2016/06/msg00007.html Relevant part (hopefully): > g++ -o src/common/nanopolish_variant.o -c -g -O2 -fstack-protector-strong > -Wformat -Werror=format-security -g -O3 -std=c++11 -fopenmp -Wdate-time > -D_FORTIFY_SOURCE=2 -I/usr/include/hdf5/serial -I./fast5 -I./src > -I./src/hmm -I./src/thirdparty -I./src/common -I./src/alignment -fPIC > src/common/nanopolish_variant.cpp > src/common/nanopolish_variant.cpp: In function 'std::vector<Variant> > extract_variants(const string&, const string&)': > src/common/nanopolish_variant.cpp:27:79: error: no matching function for call > to 'max(int, __gnu_cxx::__enable_if<true, double>::__type)' > par.band_width = std::max(20, abs(reference.size() - haplotype.size()) * > 2); > > ^ > In file included from /usr/include/c++/6/algorithm:61:0, > from src/common/nanopolish_variant.cpp:8: > /usr/include/c++/6/bits/stl_algobase.h:219:5: note: candidate: template<class > _Tp> const _Tp& std::max(const _Tp&, const _Tp&) > max(const _Tp& __a, const _Tp& __b) > ^~~ > /usr/include/c++/6/bits/stl_algobase.h:219:5: note: template argument > deduction/substitution failed: > src/common/nanopolish_variant.cpp:27:79: note: deduced conflicting types > for parameter 'const _Tp' ('int' and '__gnu_cxx::__enable_if<true, > double>::__type {aka double}') > par.band_width = std::max(20, abs(reference.size() - haplotype.size()) * > 2); > > ^ > In file included from /usr/include/c++/6/algorithm:61:0, > from src/common/nanopolish_variant.cpp:8: > /usr/include/c++/6/bits/stl_algobase.h:265:5: note: candidate: template<class > _Tp, class _Compare> const _Tp& std::max(const _Tp&, const _Tp&, _Compare) > max(const _Tp& __a, const _Tp& __b, _Compare __comp) > ^~~ > /usr/include/c++/6/bits/stl_algobase.h:265:5: note: template argument > deduction/substitution failed: > src/common/nanopolish_variant.cpp:27:79: note: deduced conflicting types > for parameter 'const _Tp' ('int' and '__gnu_cxx::__enable_if<true, > double>::__type {aka double}') > par.band_width = std::max(20, abs(reference.size() - haplotype.size()) * > 2); > > ^ > In file included from /usr/include/c++/6/algorithm:62:0, > from src/common/nanopolish_variant.cpp:8: > /usr/include/c++/6/bits/stl_algo.h:3459:5: note: candidate: template<class > _Tp> _Tp std::max(std::initializer_list<_Tp>) > max(initializer_list<_Tp> __l) > ^~~ > /usr/include/c++/6/bits/stl_algo.h:3459:5: note: template argument > deduction/substitution failed: > src/common/nanopolish_variant.cpp:27:79: note: mismatched types > 'std::initializer_list<_Tp>' and 'int' > par.band_width = std::max(20, abs(reference.size() - haplotype.size()) * > 2); > > ^ > In file included from /usr/include/c++/6/algorithm:62:0, > from src/common/nanopolish_variant.cpp:8: > /usr/include/c++/6/bits/stl_algo.h:3465:5: note: candidate: template<class > _Tp, class _Compare> _Tp std::max(std::initializer_list<_Tp>, _Compare) > max(initializer_list<_Tp> __l, _Compare __comp) > ^~~ > /usr/include/c++/6/bits/stl_algo.h:3465:5: note: template argument > deduction/substitution failed: > src/common/nanopolish_variant.cpp:27:79: note: mismatched types > 'std::initializer_list<_Tp>' and 'int' > par.band_width = std::max(20, abs(reference.size() - haplotype.size()) * > 2); > > ^ > make[1]: *** [src/common/nanopolish_variant.o] Error 1 The full build log is available from: http://people.debian.org/~lucas/logs/2016/07/13/nanopolish_0.4.0-1_unstable_gcc6.log A list of current common problems and possible solutions is available at http://wiki.debian.org/qa.debian.org/FTBFS . You're welcome to contribute! About the archive rebuild: The rebuild was done on EC2 VM instances from Amazon Web Services, using a clean, minimal and up-to-date chroot. Every failed build was retried once to eliminate random failures.
