Your message dated Fri, 04 Jan 2008 16:32:04 +0000
with message-id <[EMAIL PROTECTED]>
and subject line Bug#455625: fixed in probcons 1.12-4
has caused the attached Bug report 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 I am
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somewhere. Please contact me immediately.)
Debian bug tracking system administrator
(administrator, Debian Bugs database)
--- Begin Message ---
Package: probcons
Version: 1.12-3
Usertags: ftbfs-gcc-4.3
Your package fails to build with GCC 4.3. Version 4.3 has not been
released yet but I'm building with a snapshot in order to find errors
and give people an advance warning. In GCC 4.3, the C++ header
dependencies have been cleaned up. The advantage of this is that
programs will compile faster. The downside is that you actually
need to directly #include everything you use (but you really should
do this anyway, otherwise your program won't work with any compiler
other than GCC). There's some more information about this at
http://www.cyrius.com/journal/2007/05/10#gcc-4.3-include
You can reproduce this problem with gcc-snapshot from unstable. Note
that Red Hat, Novell and Ubuntu have done some work getting packages
to build with GCC 4.3 so there might be patches floating around
somewhere. I suggest you talk to your upstream.
> Automatic build of probcons_1.12-3 on em64t by sbuild/amd64 0.53
...
> g++ -O3 -W -Wall -pedantic -DNDEBUG -DNumInsertStates=2 -DVERSION="1.12"
> -funroll-loops -lm -o probcons Main.cc
> In file included from Main.cc:11:
> ProbabilisticModel.h: In member function 'void
> ProbabilisticModel::ComputeNewParameters(Sequence*, Sequence*, const VF&,
> const VF&, VF&, VF&, VF&, VVF&, VF&, bool) const':
> ProbabilisticModel.h:492: warning: suggest parentheses around && within ||
> Main.cc: In function 'SafeVector<std::basic_string<char,
> std::char_traits<char>, std::allocator<char> > > ParseParams(int, char**)':
> Main.cc:659: error: 'strcmp' was not declared in this scope
> make[1]: *** [probcons] Error 1
> make[1]: Leaving directory `/build/tbm/probcons-1.12'
> make: *** [build-stamp] Error 2
--
Martin Michlmayr
http://www.cyrius.com/
--- End Message ---
--- Begin Message ---
Source: probcons
Source-Version: 1.12-4
We believe that the bug you reported is fixed in the latest version of
probcons, which is due to be installed in the Debian FTP archive:
probcons-extra_1.12-4_i386.deb
to pool/main/p/probcons/probcons-extra_1.12-4_i386.deb
probcons_1.12-4.diff.gz
to pool/main/p/probcons/probcons_1.12-4.diff.gz
probcons_1.12-4.dsc
to pool/main/p/probcons/probcons_1.12-4.dsc
probcons_1.12-4_i386.deb
to pool/main/p/probcons/probcons_1.12-4_i386.deb
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.
Charles Plessy <[EMAIL PROTECTED]> (supplier of updated probcons 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: SHA1
Format: 1.7
Date: Fri, 04 Jan 2008 16:53:23 +0100
Source: probcons
Binary: probcons-extra probcons
Architecture: source i386
Version: 1.12-4
Distribution: unstable
Urgency: low
Maintainer: Debian-Med Packaging Team <[EMAIL PROTECTED]>
Changed-By: Charles Plessy <[EMAIL PROTECTED]>
Description:
probcons - PROBabilistic CONSistency-based multiple sequence alignment
probcons-extra - Extra programs from the probcons package
Closes: 455625 458926
Changes:
probcons (1.12-4) unstable; urgency=low
.
[ Charles Plessy ]
* debian/control:
- Moved the Homepage: field out from the package's description.
- Allowed upload by Debian Maintainers.
- Checked the compliance with Policy 3.7.3
* debian/patches:
- swiched to quilt
- added a fix to build with GCC 4.3 (Closes: #455625)
* debian/rules:
- modify Main-RNA.cc so that it uses Defaults-RNA.h (Closes: #458926)
* debian/copyright:
- converted to machine-readable format.
.
[ David Paleino ]
* debian/probcons.1, debian/probcons-RNA.1, debian/pc-compare.1,
debian/pc-makegnuplot.1, debian/pc-project.1 added - these
have been statically built.
* debian/control:
- B-D updated
- added myself to Uploaders
* debian/rules:
- manpages statically built
- minor changes
Files:
e503c1cf92f0ba2b1258988ca0e50fcf 931 science optional probcons_1.12-4.dsc
05c79a076e97e5280d6876d75944b0ce 9320 science optional probcons_1.12-4.diff.gz
226af4346628c391ea5ddba8f29695f0 158872 science optional
probcons_1.12-4_i386.deb
aefd4043190a2136d73d4e6196f95b32 49076 science extra
probcons-extra_1.12-4_i386.deb
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--- End Message ---
