Dear Maq developers, Debian distributes Maq and Maqview, and after a mass-rebuild against GCC 4.7, we noticed the following error:
stdhash.hh:415:81: error: 'direct_insert_aux' was not declared in this scope, and no declarations were found by argument-dependent lookup at the point of instantiation [-fpermissive] You can see below for more context, and more in particular the instructions under “Name lookup changes” in GCC's 4.7 porting page. http://gcc.gnu.org/gcc-4.7/porting_to.html Do you think you can release an updated version of Maq and Maqview ? I am sending a copy of this message in our public bug tracker (667...@bugs.debian.org). Please feel free to do the same in your answer. The archive is available at the following URL. http://bugs.debian.org/667270 Have a nice day, -- Charles Plessy, Debian Med packaging team, Tsurumi, Kanagawa, Japan. Le Tue, Apr 03, 2012 at 11:10:41PM +0000, Matthias Klose a écrit : > Package: maq > Version: 0.7.1-4 > Severity: important > Tags: sid wheezy > User: debian-...@lists.debian.org > Usertags: ftbfs-gcc-4.7 > > The package fails to build in a test rebuild on at least amd64 with > gcc-4.7/g++-4.7, but succeeds to build with gcc-4.6/g++-4.6. The > severity of this report may be raised before the wheezy release. > > stdhash.hh:415:81: error: 'direct_insert_aux' was not declared in this scope, > and no declarations were found by argument-dependent lookup at the point of > instantiation [-fpermissive] > > The full build log can be found at: > http://people.debian.org/~lucas/logs/2012/03/29-clang-gcc47/unstable-gcc47/maq_0.7.1-4_unstable-gcc47.log > The last lines of the build log are at the end of this report. > > Some hints on fixing these issues can be found at > http://gcc.gnu.org/gcc-4.7/porting_to.html > > To build with GCC 4.7, either set CC=gcc-4.7 CXX=g++-4.7 explicitly, > or install the gcc, g++, gfortran, ... packages from experimental. > > [...] > g++ -DHAVE_CONFIG_H -I. -D_FORTIFY_SOURCE=2 -Wall -D_FILE_OFFSET_BITS=64 > -D_FASTMAP -DMAQ_LONGREADS -D_LARGEFILE64_SOURCE -c -o match.o match.cc > match.cc: In function 'int alt_cal_mm(bit64_t)': > match.cc:58:21: warning: suggest parentheses around '+' in operand of '&' > [-Wparentheses] > match.cc:61:22: warning: suggest parentheses around '+' in operand of '&' > [-Wparentheses] > match.cc: In function 'int alt_cal_err(bit64_t, bit64_t)': > match.cc:67:21: warning: suggest parentheses around '+' in operand of '&' > [-Wparentheses] > match.cc:70:22: warning: suggest parentheses around '+' in operand of '&' > [-Wparentheses] > match.cc: In function 'void match_search(const match_aux_t*, match_data_t*, > const nst_bfa1_t*, int, ref_canlist_t*)': > match.cc:292:10: warning: variable 'n_reads' set but not used > [-Wunused-but-set-variable] > g++ -DHAVE_CONFIG_H -I. -D_FORTIFY_SOURCE=2 -Wall -D_FILE_OFFSET_BITS=64 > -D_FASTMAP -DMAQ_LONGREADS -D_LARGEFILE64_SOURCE -c -o sort_mapping.o > sort_mapping.cc > sort_mapping.cc: In function 'int ma_make_pair(const match_aux_t*, const > match_info_t*, const match_info_t*, pair_info_t*)': > sort_mapping.cc:59:62: warning: suggest parentheses around arithmetic in > operand of '^' [-Wparentheses] > g++ -DHAVE_CONFIG_H -I. -D_FORTIFY_SOURCE=2 -Wall -D_FILE_OFFSET_BITS=64 > -D_FASTMAP -DMAQ_LONGREADS -D_LARGEFILE64_SOURCE -c -o assemble.o assemble.cc > assemble.cc: In function 'base_call_aux_t* > assemble_cns_collect(assemble_pos_t*, const assemble_aux_t*)': > assemble.cc:106:64: warning: suggest parentheses around arithmetic in operand > of '|' [-Wparentheses] > g++ -DHAVE_CONFIG_H -I. -D_FORTIFY_SOURCE=2 -Wall -D_FILE_OFFSET_BITS=64 > -D_FASTMAP -DMAQ_LONGREADS -D_LARGEFILE64_SOURCE -c -o pileup.o pileup.cc > g++ -DHAVE_CONFIG_H -I. -D_FORTIFY_SOURCE=2 -Wall -D_FILE_OFFSET_BITS=64 > -D_FASTMAP -DMAQ_LONGREADS -D_LARGEFILE64_SOURCE -c -o mapcheck.o mapcheck.cc > mapcheck.cc: In function 'int ma_mapcheck(int, char**)': > mapcheck.cc:60:17: warning: variable 'fpout' set but not used > [-Wunused-but-set-variable] > In file included from mapcheck.cc:11:0: > stdhash.hh: In instantiation of 'bool hash_set_misc<keytype_t>::insert(const > keytype_t&) [with keytype_t = long long unsigned int]': > mapcheck.cc:24:45: required from here > stdhash.hh:415:81: error: 'direct_insert_aux' was not declared in this scope, > and no declarations were found by argument-dependent lookup at the point of > instantiation [-fpermissive] > stdhash.hh:415:81: note: declarations in dependent base > '__lh3_hash_base_class<long long unsigned int>' are not found by unqualified > lookup > stdhash.hh:415:81: note: use 'this->direct_insert_aux' instead > make[2]: *** [mapcheck.o] Error 1 > make[2]: Leaving directory `/??PKGBUILDDIR??' > make[1]: *** [all] Error 2 > make: *** [debian/stamp-makefile-build] Error 2 > dpkg-buildpackage: error: debian/rules build-arch gave error exit status 2 > > > > _______________________________________________ > Debian-med-packaging mailing list > debian-med-packag...@lists.alioth.debian.org > http://lists.alioth.debian.org/cgi-bin/mailman/listinfo/debian-med-packaging Le Tue, Apr 03, 2012 at 11:10:42PM +0000, Matthias Klose a écrit : > Package: maqview > Version: 0.2.5-1 > Severity: important > Tags: sid wheezy > User: debian-...@lists.debian.org > Usertags: ftbfs-gcc-4.7 > > The package fails to build in a test rebuild on at least amd64 with > gcc-4.7/g++-4.7, but succeeds to build with gcc-4.6/g++-4.6. The > severity of this report may be raised before the wheezy release. > > stdhash.hh:496:81: error: 'direct_insert_aux' was not declared in this scope, > and no declarations were found by argument-dependent lookup at the point of > instantiation [-fpermissive] > > The full build log can be found at: > http://people.debian.org/~lucas/logs/2012/03/29-clang-gcc47/unstable-gcc47/maqview_0.2.5-1_unstable-gcc47.log > The last lines of the build log are at the end of this report. > > Some hints on fixing these issues can be found at > http://gcc.gnu.org/gcc-4.7/porting_to.html > > To build with GCC 4.7, either set CC=gcc-4.7 CXX=g++-4.7 explicitly, > or install the gcc, g++, gfortran, ... packages from experimental. > > [...] > gcc -DHAVE_CONFIG_H -I. -DHAVE_FREEGLUT -g -O2 -Wall -W -DMAQ_LONGREADS > -MT btree.o -MD -MP -MF .deps/btree.Tpo -c -o btree.o btree.c > mv -f .deps/btree.Tpo .deps/btree.Po > gcc -DHAVE_CONFIG_H -I. -DHAVE_FREEGLUT -g -O2 -Wall -W -DMAQ_LONGREADS > -MT maqmap_index.o -MD -MP -MF .deps/maqmap_index.Tpo -c -o maqmap_index.o > maqmap_index.c > maqmap_index.c: In function 'notify': > maqmap_index.c:43:69: warning: unused parameter 'pos' [-Wunused-parameter] > maqmap_index.c: In function 'read_map_index': > maqmap_index.c:387:12: warning: comparison between signed and unsigned > integer expressions [-Wsign-compare] > maqmap_index.c: In function 'read_map_next_to': > maqmap_index.c:403:22: warning: comparison between signed and unsigned > integer expressions [-Wsign-compare] > mv -f .deps/maqmap_index.Tpo .deps/maqmap_index.Po > gcc -DHAVE_CONFIG_H -I. -DHAVE_FREEGLUT -g -O2 -Wall -W -DMAQ_LONGREADS > -MT zrio.o -MD -MP -MF .deps/zrio.Tpo -c -o zrio.o zrio.c > zrio.c: In function 'get_max_dist': > zrio.c:437:33: warning: comparison between signed and unsigned integer > expressions [-Wsign-compare] > zrio.c: In function 'build_index': > zrio.c:466:24: warning: variable 'state' set but not used > [-Wunused-but-set-variable] > mv -f .deps/zrio.Tpo .deps/zrio.Po > g++ -DHAVE_CONFIG_H -I. -DHAVE_FREEGLUT -g -O2 -MT stdhashc.o -MD -MP -MF > .deps/stdhashc.Tpo -c -o stdhashc.o stdhashc.cc > In file included from stdhashc.cc:2:0: > stdhash.hh: In instantiation of 'bool hash_map_misc<keytype_t, > valtype_t>::insert(const keytype_t&, const valtype_t&) [with keytype_t = > unsigned int; valtype_t = int]': > stdhashc.cc:72:51: required from here > stdhash.hh:496:81: error: 'direct_insert_aux' was not declared in this scope, > and no declarations were found by argument-dependent lookup at the point of > instantiation [-fpermissive] > stdhash.hh:496:81: note: declarations in dependent base > '__lh3_hash_base_class<unsigned int>' are not found by unqualified lookup > stdhash.hh:496:81: note: use 'this->direct_insert_aux' instead > make[2]: *** [stdhashc.o] Error 1 > make[2]: Leaving directory `/??PKGBUILDDIR??' > make[1]: *** [all] Error 2 > dh_auto_build: make -j1 returned exit code 2 > make[1]: Leaving directory `/??PKGBUILDDIR??' > make: *** [build-arch] Error 2 > dpkg-buildpackage: error: debian/rules build-arch gave error exit status 2 > > > > _______________________________________________ > Debian-med-packaging mailing list > debian-med-packag...@lists.alioth.debian.org > http://lists.alioth.debian.org/cgi-bin/mailman/listinfo/debian-med-packaging -- Charles Plessy Debian Med packaging team, http://www.debian.org/devel/debian-med Tsurumi, Kanagawa, Japan -- To UNSUBSCRIBE, email to debian-bugs-dist-requ...@lists.debian.org with a subject of "unsubscribe". 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