Your message dated Tue, 01 Jul 2014 22:49:07 +0000 with message-id <e1x26rl-0002a1...@franck.debian.org> and subject line Bug#753190: fixed in ncbi-blast+ 2.2.29-3 has caused the Debian Bug report #753190, regarding ncbi-blast+: FTBFS: shared_ptr_base.h:479:39: error: must #include <typeinfo> before using typeid to be marked as done.
This means that you claim that the problem has been dealt with. If this is not the case it is now your responsibility to reopen the Bug report if necessary, and/or fix the problem forthwith. (NB: If you are a system administrator and have no idea what this message is talking about, this may indicate a serious mail system misconfiguration somewhere. Please contact ow...@bugs.debian.org immediately.) -- 753190: http://bugs.debian.org/cgi-bin/bugreport.cgi?bug=753190 Debian Bug Tracking System Contact ow...@bugs.debian.org with problems
--- Begin Message ---Source: ncbi-blast+ Version: 2.2.29-1 Severity: serious Tags: jessie sid User: debian...@lists.debian.org Usertags: qa-ftbfs-20140628 qa-ftbfs Justification: FTBFS on amd64 Hi, During a rebuild of all packages in sid, your package failed to build on amd64. Relevant part (hopefully): > /usr/bin/g++ -std=gnu++11 -c -Wall -Wno-format-y2k -pthread -fopenmp -O2 > -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security > -fPIC -DNDEBUG -D_LARGEFILE_SOURCE -D_LARGEFILE64_SOURCE > -D_FILE_OFFSET_BITS=64 -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE > -I/build/ncbi-blast+-zNoIe0/ncbi-blast+-2.2.29/c++/BUILD/inc > -I/build/ncbi-blast+-zNoIe0/ncbi-blast+-2.2.29/c++/include > /build/ncbi-blast+-zNoIe0/ncbi-blast+-2.2.29/c++/src/corelib/ncbi_os_unix.cpp > -o ncbi_os_unix.o > In file included from /usr/include/c++/4.9/bits/shared_ptr.h:52:0, > from > /build/ncbi-blast+-zNoIe0/ncbi-blast+-2.2.29/c++/include/corelib/ncbistl.hpp:219, > from > /build/ncbi-blast+-zNoIe0/ncbi-blast+-2.2.29/c++/include/corelib/ncbistre.hpp:40, > from > /build/ncbi-blast+-zNoIe0/ncbi-blast+-2.2.29/c++/include/corelib/ncbi_stack.hpp:35, > from > /build/ncbi-blast+-zNoIe0/ncbi-blast+-2.2.29/c++/include/corelib/ncbidiag.hpp:42, > from > /build/ncbi-blast+-zNoIe0/ncbi-blast+-2.2.29/c++/include/corelib/error_codes.hpp:38, > from > /build/ncbi-blast+-zNoIe0/ncbi-blast+-2.2.29/c++/src/corelib/ncbi_os_unix.cpp:33: > /usr/include/c++/4.9/bits/shared_ptr_base.h: In member function 'virtual > void* std::_Sp_counted_deleter<_Ptr, _Deleter, _Alloc, > _Lp>::_M_get_deleter(const std::type_info&)': > /usr/include/c++/4.9/bits/shared_ptr_base.h:479:39: error: must #include > <typeinfo> before using typeid > return __ti == typeid(_Deleter) ? &_M_impl._M_del() : nullptr; > ^ > /usr/include/c++/4.9/bits/shared_ptr_base.h: In member function 'virtual > void* std::_Sp_counted_ptr_inplace<_Tp, _Alloc, _Lp>::_M_get_deleter(const > std::type_info&)': > /usr/include/c++/4.9/bits/shared_ptr_base.h:543:40: error: must #include > <typeinfo> before using typeid > if (__ti == typeid(_Sp_make_shared_tag)) > ^ > /usr/include/c++/4.9/bits/shared_ptr_base.h: In constructor > 'std::__shared_ptr<_Tp, _Lp>::__shared_ptr(std::_Sp_make_shared_tag, const > _Alloc&, _Args&& ...)': > /usr/include/c++/4.9/bits/shared_ptr_base.h:1094:50: error: must #include > <typeinfo> before using typeid > void* __p = _M_refcount._M_get_deleter(typeid(__tag)); > ^ > In file included from > /build/ncbi-blast+-zNoIe0/ncbi-blast+-2.2.29/c++/include/corelib/ncbistl.hpp:219:0, > from > /build/ncbi-blast+-zNoIe0/ncbi-blast+-2.2.29/c++/include/corelib/ncbistre.hpp:40, > from > /build/ncbi-blast+-zNoIe0/ncbi-blast+-2.2.29/c++/include/corelib/ncbi_stack.hpp:35, > from > /build/ncbi-blast+-zNoIe0/ncbi-blast+-2.2.29/c++/include/corelib/ncbidiag.hpp:42, > from > /build/ncbi-blast+-zNoIe0/ncbi-blast+-2.2.29/c++/include/corelib/error_codes.hpp:38, > from > /build/ncbi-blast+-zNoIe0/ncbi-blast+-2.2.29/c++/src/corelib/ncbi_os_unix.cpp:33: > /usr/include/c++/4.9/bits/shared_ptr.h: In function '_Del* > std::get_deleter(const std::__shared_ptr<_Tp2, _Lp>&)': > /usr/include/c++/4.9/bits/shared_ptr.h:79:63: error: must #include <typeinfo> > before using typeid > return static_cast<_Del*>(__p._M_get_deleter(typeid(_Del))); > ^ > /build/ncbi-blast+-zNoIe0/ncbi-blast+-2.2.29/c++/BUILD/build/Makefile.rules:50: > recipe for target 'ncbi_os_unix.o' failed > make[3]: *** [ncbi_os_unix.o] Error 1 The full build log is available from: http://aws-logs.debian.net/ftbfs-logs/2014/06/28/ncbi-blast+_2.2.29-1_unstable.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.
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--- Begin Message ---Source: ncbi-blast+ Source-Version: 2.2.29-3 We believe that the bug you reported is fixed in the latest version of ncbi-blast+, which is due to be installed in the Debian FTP archive. A summary of the changes between this version and the previous one is attached. Thank you for reporting the bug, which will now be closed. If you have further comments please address them to 753...@bugs.debian.org, and the maintainer will reopen the bug report if appropriate. Debian distribution maintenance software pp. Aaron M. Ucko <u...@debian.org> (supplier of updated ncbi-blast+ package) (This message was generated automatically at their request; if you believe that there is a problem with it please contact the archive administrators by mailing ftpmas...@ftp-master.debian.org) -----BEGIN PGP SIGNED MESSAGE----- Hash: SHA256 Format: 1.8 Date: Tue, 01 Jul 2014 18:27:46 -0400 Source: ncbi-blast+ Binary: ncbi-blast+ ncbi-blast+-legacy Architecture: source amd64 all Version: 2.2.29-3 Distribution: unstable Urgency: medium Maintainer: Debian Med Packaging Team <debian-med-packag...@lists.alioth.debian.org> Changed-By: Aaron M. Ucko <u...@debian.org> Description: ncbi-blast+ - next generation suite of BLAST sequence search tools ncbi-blast+-legacy - NCBI Blast legacy call script Closes: 753190 Changes: ncbi-blast+ (2.2.29-3) unstable; urgency=medium . * debian/patches/include_typeinfo: Patch include/corelib/ncbistl.hpp to ensure sufficient coverage; fix typos in patch headers. (Closes: #753190.) * Standards-Version: 3.9.4. (Already compliant.) Checksums-Sha1: 8460677d56732bea66d99f31fe34f34780c64cbc 2271 ncbi-blast+_2.2.29-3.dsc a7491e1546f6b03cfcf3128346adcc529530a0f2 21484 ncbi-blast+_2.2.29-3.debian.tar.xz 177caecfc2ad1f2d6f05a9fad641d6818704d203 7964834 ncbi-blast+_2.2.29-3_amd64.deb e821aacbb88c41f547b596dbbd0e0229abcc3475 7612 ncbi-blast+-legacy_2.2.29-3_all.deb Checksums-Sha256: ebddee8962b0466f32f7570ab625012b06b02752d05f3b9eb208964e1e5a4f56 2271 ncbi-blast+_2.2.29-3.dsc e611d1c04ccef5eeca5bb5b6ed415502aa7523baab304e330b9576c7bcb7e467 21484 ncbi-blast+_2.2.29-3.debian.tar.xz 8da1d9c8a1c937492b3a7763146e44745dd3cce0da9f1b5e88b80053987395d7 7964834 ncbi-blast+_2.2.29-3_amd64.deb 41455764eeac167efa1a1d5848127c8714caa5836c29ad66474ece712c4f077a 7612 ncbi-blast+-legacy_2.2.29-3_all.deb Files: f2560d37166e6be7399194c0010c795a 7964834 science optional ncbi-blast+_2.2.29-3_amd64.deb abeb4b4c7548b259a80d17bea26674bc 7612 science optional ncbi-blast+-legacy_2.2.29-3_all.deb d9839e8e8b50aef564feec8cbb1db157 2271 science optional ncbi-blast+_2.2.29-3.dsc 94fa8ef0690309151b4593c4681621d8 21484 science optional ncbi-blast+_2.2.29-3.debian.tar.xz -----BEGIN PGP SIGNATURE----- Version: GnuPG v1 iQIcBAEBCAAGBQJTszfTAAoJEB5wkbHxSmSi+XYQAIdLVJI0owFKx8//EmbLyD29 urNh7Me18aWo0qvr3ytLtOvcPwRdW8SGMsHkRPbx3jBNK7m2K5+5NP3TBDUCm1cD jILLs3TMjYjC7hCxrxLz/rXeQSx1WqhrYscXmb7PukfFa0iEd0BHrpYlv58NtNXf 9D2TjWTinVlaryeQryXTmiZNpRsU6Ew2CEjxRB8j0gAfvPIHuzrdHtmMZHzdKU6q 62bP2husdU7/3y73vVuOr+7cmxXrNz6dGGRD0mPT8SRrDsqA2pcwKE/d8hyDJa1q VuIiNN9QpqDoODxyej9bai8OAVZBNKpZIAvSwQvaHboMp8r2UOVbe8XoqwvBsM7U 4PziewlC5vCkQszmBTGesHI33ftqJ+UBLQcReix1x7ZqDdEdKQ4c9nDjgbJxaE/8 CXI3a/MmPxKIjtJhSoEtsrP6k1OrJv+RbQNjJdV4udIH1abqCHp7dF0bvnWes6oS GogKSuUQD8aCr5NRXttWdqfpzpaTgM+iNjUP1eLEXZznBh/hkNuVvsuuxXCKw397 bNbgve/iZFqAEzs+IITv+hxMHrvjqsjlgDs0FtartWudbcyHTxB09mfM371p3Z/C j9wFzrS9QI/P4y/sGSCh2cprbqvIOh6JtU4jeKIIW4hnIlFlF1a+DOMnvJevohSC Im/iIrvlarcx3DMgAHqD =xv+E -----END PGP SIGNATURE-----
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