Hi all, this is now fixed in git. Last GCC 6 bug for the weekend ;)
Cheers Sascha On Tue, 19 Jan 2016 18:54:42 -0800 Martin Michlmayr <t...@hpe.com> wrote: > Package: tophat > Version: 2.1.0+dfsg-1 > Severity: important > User: debian-...@lists.debian.org > Usertags: ftbfs-gcc-6 gcc-6-no-match > > This package fails to build with GCC 6. GCC 6 has not been released > yet, but it's expected that GCC 6 will become the default compiler for > stretch. > > Note that only the first error is reported; there might be more. You > can find a snapshot of GCC 6 in experimental. To build with GCC 6, > you can set CC=gcc-6 CXX=g++-6 explicitly. > > You may be able to find out more about this issue at > https://gcc.gnu.org/gcc-6/changes.html > > > sbuild (Debian sbuild) 0.67.0 (26 Dec 2015) on dl580gen9-02.hlinux > ... > > g++ -DHAVE_CONFIG_H -I. -I.. -Wdate-time -D_FORTIFY_SOURCE=2 -Wall > > -Wno-strict-aliasing -g -gdwarf-2 -Wuninitialized -O3 -g -O2 > > -fstack-protector-strong -Wformat -Werror=format-security -DNDEBUG > > -I./samtools-0.1.18 -pthread -I/usr/include -c -o tophat_reports.o > > tophat_reports.cpp > > In file included from tophat_reports.cpp:36:0: > > common.h: In member function 'void GBamWriter::write(bam1_t*, int64_t)': > > common.h:579:14: warning: variable 'pre_block_offs' set but not used > > [-Wunused-but-set-variable] > > int pre_block_offs=0; //but before this write() > > ^~~~~~~~~~~~~~ > > > > tophat_reports.cpp: In member function 'void > > ReportWorker::write_singleton_alignments(uint64_t, HitsForRead&, > > ReadStream&, GBamWriter&, FragmentType, GetReadProc*, QReadData)': > > tophat_reports.cpp:2292:8: warning: variable 'map_code' set but not used > > [-Wunused-but-set-variable] > > char map_code=0; > > ^~~~~~~~ > > > > tophat_reports.cpp: In function 'void driver(const string&, std::istream&, > > const std::vector<std::__cxx11::basic_string<char> >&, const string&, const > > std::vector<std::__cxx11::basic_string<char> >&, const string&, FILE*, > > FILE*, FILE*, FILE*)': > > tophat_reports.cpp:2707:128: error: no matching function for call to > > 'make_pair(Junction, JunctionStats&)' > > gtf_junctions.insert(make_pair<Junction, > > JunctionStats>(Junction(ref_id, left_coord, right_coord, antisense), > > junction_stat)); > > > > ^ > > > > In file included from /usr/include/c++/6/bits/stl_algobase.h:64:0, > > from /usr/include/c++/6/vector:60, > > from tophat_reports.cpp:20: > > /usr/include/c++/6/bits/stl_pair.h:406:5: note: candidate: template<class > > _T1, class _T2> constexpr std::pair<typename > > std::__decay_and_strip<_Tp>::__type, typename > > std::__decay_and_strip<_T2>::__type> std::make_pair(_T1&&, _T2&&) > > make_pair(_T1&& __x, _T2&& __y) > > ^~~~~~~~~ > > > > /usr/include/c++/6/bits/stl_pair.h:406:5: note: template argument > > deduction/substitution failed: > > tophat_reports.cpp:2707:128: note: cannot convert 'junction_stat' (type > > 'JunctionStats') to type 'JunctionStats&&' > > gtf_junctions.insert(make_pair<Junction, > > JunctionStats>(Junction(ref_id, left_coord, right_coord, antisense), > > junction_stat)); > > > > ^ > > > > Makefile:1453: recipe for target 'tophat_reports.o' failed > > make[3]: *** [tophat_reports.o] Error 1 > > -- > Martin Michlmayr > Linux for HPE Helion, Hewlett Packard Enterprise > >
