Your message dated Mon, 30 Jun 2014 09:54:10 +0000
with message-id <[email protected]>
and subject line Bug#753190: fixed in ncbi-blast+ 2.2.29-2
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
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misconfiguration somewhere. Please contact [email protected]
immediately.)
--
753190: http://bugs.debian.org/cgi-bin/bugreport.cgi?bug=753190
Debian Bug Tracking System
Contact [email protected] with problems
--- Begin Message ---
Source: ncbi-blast+
Version: 2.2.29-1
Severity: serious
Tags: jessie sid
User: [email protected]
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.
--- End Message ---
--- Begin Message ---
Source: ncbi-blast+
Source-Version: 2.2.29-2
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 [email protected],
and the maintainer will reopen the bug report if appropriate.
Debian distribution maintenance software
pp.
Olivier Sallou <[email protected]> (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 [email protected])
-----BEGIN PGP SIGNED MESSAGE-----
Hash: SHA256
Format: 1.8
Date: Sat, 07 Jun 2014 11:28:22 +0200
Source: ncbi-blast+
Binary: ncbi-blast+ ncbi-blast+-legacy
Architecture: source amd64 all
Version: 2.2.29-2
Distribution: unstable
Urgency: medium
Maintainer: Debian Med Packaging Team
<[email protected]>
Changed-By: Olivier Sallou <[email protected]>
Description:
ncbi-blast+ - next generation suite of BLAST sequence search tools
ncbi-blast+-legacy - NCBI Blast legacy call script
Closes: 753190
Changes:
ncbi-blast+ (2.2.29-2) unstable; urgency=medium
.
* d/patches/include_typeinfo (Closes: #753190).
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