Your message dated Mon, 01 Jul 2024 06:40:52 +0000
with message-id <e1soaia-002mkr...@fasolo.debian.org>
and subject line Bug#1073327: fixed in openbabel 3.1.1+dfsg-10
has caused the Debian Bug report #1073327,
regarding openbabel: FTBFS: xml.cpp:245:39: error: invalid conversion from
‘const xmlError*’ {aka ‘const _xmlError*’} to ‘xmlError*’ {aka ‘_xmlError*’}
[-fpermissive]
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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--
1073327: https://bugs.debian.org/cgi-bin/bugreport.cgi?bug=1073327
Debian Bug Tracking System
Contact ow...@bugs.debian.org with problems
--- Begin Message ---
Source: openbabel
Version: 3.1.1+dfsg-9
Severity: serious
Justification: FTBFS
Tags: trixie sid ftbfs
User: lu...@debian.org
Usertags: ftbfs-20240615 ftbfs-trixie
Hi,
During a rebuild of all packages in sid, your package failed to build
on amd64.
Relevant part (hopefully):
> cd /<<PKGBUILDDIR>>/builddir/src/formats && /usr/bin/c++ -DBUILD_LINK_AS_DLL
> -DHAVE_EIGEN -DHAVE_EIGEN3 -DHAVE_LIBZ -DHAVE_RADPIJSON -DHAVE_SHARED_POINTER
> -DHAVE_WXWIDGETS -DUSING_DYNAMIC_LIBS -DWXUSINGDLL -D_FILE_OFFSET_BITS=64
> -D__WXGTK__ -Dcmlreactformat_EXPORTS -I/<<PKGBUILDDIR>>/builddir/include
> -I/<<PKGBUILDDIR>>/data -I/<<PKGBUILDDIR>>/include -I/usr/include/eigen3
> -I/usr/include/cairo -I/usr/include/libxml2 -isystem
> /usr/lib/x86_64-linux-gnu/wx/include/gtk3-unicode-3.2 -isystem
> /usr/include/wx-3.2 -g -O2 -ffile-prefix-map=/<<PKGBUILDDIR>>=.
> -fstack-protector-strong -fstack-clash-protection -Wformat
> -Werror=format-security -fcf-protection -std=gnu++98 -Wdate-time
> -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -pthread -fopenmp
> -std=gnu++11 -fPIC -MD -MT
> src/formats/CMakeFiles/cmlreactformat.dir/xml/cmlreactformat.cpp.o -MF
> CMakeFiles/cmlreactformat.dir/xml/cmlreactformat.cpp.o.d -o
> CMakeFiles/cmlreactformat.dir/xml/cmlreactformat.cpp.o -c
> /<<PKGBUILDDIR>>/src/formats/xml/cmlreactformat.cpp
> In file included from /<<PKGBUILDDIR>>/include/openbabel/format.h:22,
> from /<<PKGBUILDDIR>>/include/openbabel/obconversion.h:37,
> from /<<PKGBUILDDIR>>/include/openbabel/xml.h:21,
> from /<<PKGBUILDDIR>>/src/formats/xml/xml.cpp:15:
> /<<PKGBUILDDIR>>/include/openbabel/plugin.h:41:42: warning: ‘template<class
> _Arg1, class _Arg2, class _Result> struct std::binary_function’ is deprecated
> [-Wdeprecated-declarations]
> 41 | struct OBERROR CharPtrLess : public std::binary_function<const
> char*,const char*, bool>
> | ^~~~~~~~~~~~~~~
> In file included from /usr/include/c++/13/string:49,
> from /usr/include/c++/13/bits/locale_classes.h:40,
> from /usr/include/c++/13/bits/ios_base.h:41,
> from /usr/include/c++/13/ios:44,
> from /usr/include/c++/13/ostream:40,
> from /usr/include/c++/13/iostream:41,
> from /<<PKGBUILDDIR>>/include/openbabel/obconversion.h:24:
> /usr/include/c++/13/bits/stl_function.h:131:12: note: declared here
> 131 | struct binary_function
> | ^~~~~~~~~~~~~~~
> /<<PKGBUILDDIR>>/src/formats/xml/xml.cpp: In member function ‘bool
> OpenBabel::XMLConversion::ReadXML(OpenBabel::XMLBaseFormat*,
> OpenBabel::OBBase*)’:
> /<<PKGBUILDDIR>>/src/formats/xml/xml.cpp:245:39: error: invalid conversion
> from ‘const xmlError*’ {aka ‘const _xmlError*’} to ‘xmlError*’ {aka
> ‘_xmlError*’} [-fpermissive]
> 245 | xmlError* perr = xmlGetLastError();
> | ~~~~~~~~~~~~~~~^~
> | |
> | const xmlError* {aka const
> _xmlError*}
> [ 75%] Linking CXX shared module ../../lib/x86_64-linux-gnu/chemdrawcdx.so
> cd /<<PKGBUILDDIR>>/builddir/src/formats && /usr/bin/cmake -E
> cmake_link_script CMakeFiles/chemdrawcdx.dir/link.txt --verbose=1
> /usr/bin/c++ -fPIC -g -O2 -ffile-prefix-map=/<<PKGBUILDDIR>>=.
> -fstack-protector-strong -fstack-clash-protection -Wformat
> -Werror=format-security -fcf-protection -std=gnu++98 -Wdate-time
> -D_FORTIFY_SOURCE=2 -Wdate-time -D_FORTIFY_SOURCE=2 -pthread -fopenmp
> -Wl,--enable-new-dtags -Wl,--enable-new-dtags -Wl,--fatal-warnings
> -Wl,--no-undefined -lc -Wl,-z,relro -shared -o
> ../../lib/x86_64-linux-gnu/chemdrawcdx.so
> CMakeFiles/chemdrawcdx.dir/chemdrawcdx.cpp.o -lmaeparser -lcoordgen -lm -ldl
> -lz -lcairo -linchi -lm ../../lib/x86_64-linux-gnu/libopenbabel.so.7.0.0
> make[4]: *** [src/formats/CMakeFiles/cdxmlformat.dir/build.make:93:
> src/formats/CMakeFiles/cdxmlformat.dir/xml/xml.cpp.o] Error 1
The full build log is available from:
http://qa-logs.debian.net/2024/06/15/openbabel_3.1.1+dfsg-9_unstable.log
All bugs filed during this archive rebuild are listed at:
https://bugs.debian.org/cgi-bin/pkgreport.cgi?tag=ftbfs-20240615;users=lu...@debian.org
or:
https://udd.debian.org/bugs/?release=na&merged=ign&fnewerval=7&flastmodval=7&fusertag=only&fusertagtag=ftbfs-20240615&fusertaguser=lu...@debian.org&allbugs=1&cseverity=1&ctags=1&caffected=1#results
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!
If you reassign this bug to another package, please mark it as 'affects'-ing
this package. See https://www.debian.org/Bugs/server-control#affects
If you fail to reproduce this, please provide a build log and diff it with mine
so that we can identify if something relevant changed in the meantime.
--- End Message ---
--- Begin Message ---
Source: openbabel
Source-Version: 3.1.1+dfsg-10
Done: Andrius Merkys <mer...@debian.org>
We believe that the bug you reported is fixed in the latest version of
openbabel, 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 1073...@bugs.debian.org,
and the maintainer will reopen the bug report if appropriate.
Debian distribution maintenance software
pp.
Andrius Merkys <mer...@debian.org> (supplier of updated openbabel 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: SHA512
Format: 1.8
Date: Mon, 01 Jul 2024 02:14:46 -0400
Source: openbabel
Architecture: source
Version: 3.1.1+dfsg-10
Distribution: unstable
Urgency: medium
Maintainer: Debichem Team <debichem-de...@lists.alioth.debian.org>
Changed-By: Andrius Merkys <mer...@debian.org>
Closes: 1073327
Changes:
openbabel (3.1.1+dfsg-10) unstable; urgency=medium
.
[ Drew Parsons ]
* update Homepage to https://openbabel.org
.
[ Andrius Merkys ]
* Restore compatibility with libxml (Closes: #1073327)
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