[Debian-med-packaging] Bug#822474: mira: FTBFS: error: 'accumulate' is not a member of 'std'

[Martin Michlmayr]

Package: mira
Version: 4.9.5-5
Severity: serious

This package fails to build in unstable:

> sbuild (Debian sbuild) 0.68.0 (15 Jan 2016) on dl580gen9-02.hlinux
...
> g++ -DPACKAGE_NAME=\"mira\" -DPACKAGE_TARNAME=\"mira\" -DPACKAGE_VERSION=\"4.9.5_2\" -DPACKAGE_STRING=\"mira\ 4.9.5_2\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"mira\" -DVERSION=\"4.9.5_2\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DENABLE64=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DYYTEXT_POINTER=1 -DSTDC_HEADERS=1 -DHAVE__BOOL=1 -DHAVE_STDBOOL_H=1 -Drestrict=__restrict -DHAVE_STDLIB_H=1 -DHAVE_MALLOC=1 -DHAVE_STDLIB_H=1 -DHAVE_REALLOC=1 -DLSTAT_FOLLOWS_SLASHED_SYMLINK=1 -DHAVE_STRFTIME=1 -DHAVE_MEMSET=1 -DHAVE_FSEEKO=1 -DHAVE_ISBLANK=1 -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_REGEX=/\*\*/ -DHAVE_BOOST_SYSTEM=/\*\*/ -DHAVE_BOOST_FILESYSTEM=/\*\*/ -DHAVE_BOOST_IOSTREAMS=/\*\*/ -DHAVE_LIBRT=1 -DHAVE_GZOFFSET=1 -DBOUNDTRACKFLAG=1 -DBUGTRACKFLAG=1 -I.  -I../../src  -Wdate-time -D_FORTIFY_SOURCE=2  -D
> PUBLICQUIET -DAJ_Linux64 -g -O2 -fstack-protector-strong -Wformat -Werror=format-security  -I/usr/include -O3 -funroll-loops -pthread -I/usr/include -I/usr/include -Werror=uninitialized -Werror=return-type -Werror=parentheses -Werror=unused-value -std=c++14 -c -o parameters.o parameters.C
> read.C: In member function 'void Read::dumpAsReadname(std::ostream&)':
> read.C:1262:33: warning: format '%x' expects argument of type 'unsigned int', but argument 3 has type 'Read*' [-Wformat=]
>        sprintf(buffer, "%x", this) ;
>                                  ^
> read.C: In member function 'void Read::dumpAsFASTA(std::ostream&, bool, bool, bool)':
> read.C:1293:33: warning: format '%x' expects argument of type 'unsigned int', but argument 3 has type 'Read*' [-Wformat=]
>        sprintf(buffer, "%x", this) ;
>                                  ^
> read.C: In member function 'void Read::dumpAsFASTQ(std::ostream&, bool, bool, bool)':
> read.C:1377:33: warning: format '%x' expects argument of type 'unsigned int', but argument 3 has type 'Read*' [-Wformat=]
>        sprintf(buffer, "%x", this) ;
>                                  ^
> read.C: In member function 'void Read::dumpAsFASTAQual(std::ostream&, bool, bool, bool)':
> read.C:1478:33: warning: format '%x' expects argument of type 'unsigned int', but argument 3 has type 'Read*' [-Wformat=]
>        sprintf(buffer, "%x", this) ;
>                                  ^
> read.C: In member function 'void Read::dumpAsCAF(std::ostream&)':
> read.C:1550:33: warning: format '%x' expects argument of type 'unsigned int', but argument 3 has type 'Read*' [-Wformat=]
>        sprintf(buffer, "%x", this) ;
>                                  ^
> read.C: In member function 'void Read::dumpAsMAF(std::ostream&)':
> read.C:1968:33: warning: format '%x' expects argument of type 'unsigned int', but argument 3 has type 'Read*' [-Wformat=]
>        sprintf(buffer, "%x", this) ;
>                                  ^
> contig_consensus.C: In member function 'void Contig::makeIntelligentConsensus(std::__cxx11::string&, std::vector<unsigned char>&, std::vector<int>*, int32, int32, int32, int32, base_quality_t, char, bool, bool, bool)':
> contig_consensus.C:2144:22: error: 'accumulate' is not a member of 'std'
>        auto sumcounts=std::accumulate(countsofpossiblebases.begin(),countsofpossiblebases.end(),0);
>                       ^
> g++ -DPACKAGE_NAME=\"mira\" -DPACKAGE_TARNAME=\"mira\" -DPACKAGE_VERSION=\"4.9.5_2\" -DPACKAGE_STRING=\"mira\ 4.9.5_2\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DPACKAGE=\"mira\" -DVERSION=\"4.9.5_2\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DENABLE64=1 -DHAVE_DLFCN_H=1 -DLT_OBJDIR=\".libs/\" -DYYTEXT_POINTER=1 -DSTDC_HEADERS=1 -DHAVE__BOOL=1 -DHAVE_STDBOOL_H=1 -Drestrict=__restrict -DHAVE_STDLIB_H=1 -DHAVE_MALLOC=1 -DHAVE_STDLIB_H=1 -DHAVE_REALLOC=1 -DLSTAT_FOLLOWS_SLASHED_SYMLINK=1 -DHAVE_STRFTIME=1 -DHAVE_MEMSET=1 -DHAVE_FSEEKO=1 -DHAVE_ISBLANK=1 -DHAVE_BOOST=/\*\*/ -DHAVE_BOOST_THREAD=/\*\*/ -DHAVE_BOOST_REGEX=/\*\*/ -DHAVE_BOOST_SYSTEM=/\*\*/ -DHAVE_BOOST_FILESYSTEM=/\*\*/ -DHAVE_BOOST_IOSTREAMS=/\*\*/ -DHAVE_LIBRT=1 -DHAVE_GZOFFSET=1 -DBOUNDTRACKFLAG=1 -DBUGTRACKFLAG=1 -I.  -I../../src  -Wdate-time -D_FORTIFY_SOURCE=2  -D
> PUBLICQUIET -DAJ_Linux64 -g -O2 -fstack-protector-strong -Wformat -Werror=format-security  -I/usr/include -O3 -funroll-loops -pthread -I/usr/include -I/usr/include -Werror=uninitialized -Werror=return-type -Werror=parentheses -Werror=unused-value -std=c++14 -c -o pcrcontainer.o pcrcontainer.C
> Makefile:632: recipe for target 'contig_consensus.o' failed
> make[7]: *** [contig_consensus.o] Error 1

-- 
Martin Michlmayr
Linux for HPE Helion, Hewlett Packard Enterprise