Your message dated Thu, 19 Apr 2007 19:02:02 +0000
with message-id <[EMAIL PROTECTED]>
and subject line Bug#417482: fixed in probcons 1.12-2
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.
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Debian bug tracking system administrator
(administrator, Debian Bugs database)
--- Begin Message ---
Package: probcons
Version: 1.11-1
Usertags: ftbfs-gcc-4.3
Tags: patch
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). Some background of this can be found at
http://gcc.gnu.org/PR28080
You can reproduce this problem with gcc-snapshot (20070326-1 or higher)
from unstable.
> Automatic build of probcons_1.11-1 on em64t by sbuild/amd64 0.53
...
> g++ -O3 -W -Wall -pedantic -DNDEBUG -DNumInsertStates=2 -DVERSION="1.11"
> -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 'bool GetInteger(char*, int*)':
> Main.cc:547: error: 'LONG_MAX' was not declared in this scope
> Main.cc:547: error: 'LONG_MIN' was not declared in this scope
> Main.cc:548: error: 'INT_MIN' was not declared in this scope
> Main.cc:548: error: 'INT_MAX' was not declared in this scope
> make[1]: *** [probcons] Error 1
--- Main.cc~ 2007-04-02 21:12:48.000000000 +0000
+++ Main.cc 2007-04-02 21:12:58.000000000 +0000
@@ -18,6 +18,7 @@
#include <list>
#include <set>
#include <algorithm>
+#include <climits>
#include <cstdio>
#include <cstdlib>
#include <cerrno>
--- Main-RNA.cc~ 2007-04-02 21:13:49.000000000 +0000
+++ Main-RNA.cc 2007-04-02 21:13:56.000000000 +0000
@@ -18,6 +18,7 @@
#include <list>
#include <set>
#include <algorithm>
+#include <climits>
#include <cstdio>
#include <cstdlib>
#include <cerrno>
--- MakeGnuPlot.cc~ 2007-04-02 21:15:34.000000000 +0000
+++ MakeGnuPlot.cc 2007-04-02 21:15:39.000000000 +0000
@@ -2,6 +2,7 @@
// MakeGnuPlot.cc
/////////////////////////////////////////////////////////////////
+#include <cstdlib>
#include <iostream>
#include <fstream>
--
Martin Michlmayr
http://www.cyrius.com/
--- End Message ---
--- Begin Message ---
Source: probcons
Source-Version: 1.12-2
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_1.12-2_i386.deb
to pool/main/p/probcons/probcons-extra_1.12-2_i386.deb
probcons_1.12-2.diff.gz
to pool/main/p/probcons/probcons_1.12-2.diff.gz
probcons_1.12-2.dsc
to pool/main/p/probcons/probcons_1.12-2.dsc
probcons_1.12-2_i386.deb
to pool/main/p/probcons/probcons_1.12-2_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: Wed, 18 Apr 2007 22:34:51 +0900
Source: probcons
Binary: probcons-extra probcons
Architecture: source i386
Version: 1.12-2
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: 417482
Changes:
probcons (1.12-2) unstable; urgency=low
.
* Corrected an error in the build rules making probcons-RNA, which
prevented it to benefit from the fixes on probcons.
(Closes: #417482) (again!)
Files:
26efed09d27b85864a782e47b290f126 868 science optional probcons_1.12-2.dsc
c70272adae4452d0f6624ed9320d3820 7482 science optional probcons_1.12-2.diff.gz
2f1d349bb39456d6166db6faf7e1709e 161306 science optional
probcons_1.12-2_i386.deb
f5f1d56ce501226cbb02ff2dcb971ac6 48536 science extra
probcons-extra_1.12-2_i386.deb
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--- End Message ---
