Your message dated Fri, 14 Jul 2023 10:12:13 +0000
with message-id <e1qkfmx-00f09o...@fasolo.debian.org>
and subject line Bug#1037671: fixed in gemmi 0.6.2+ds-3
has caused the Debian Bug report #1037671,
regarding gemmi: ftbfs with GCC-13
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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--
1037671: https://bugs.debian.org/cgi-bin/bugreport.cgi?bug=1037671
Debian Bug Tracking System
Contact ow...@bugs.debian.org with problems
--- Begin Message ---
Package: src:gemmi
Version: 0.5.7+ds-2
Severity: normal
Tags: sid trixie
User: debian-...@lists.debian.org
Usertags: ftbfs-gcc-13
[This bug is targeted to the upcoming trixie release]
Please keep this issue open in the bug tracker for the package it
was filed for. If a fix in another package is required, please
file a bug for the other package (or clone), and add a block in this
package. Please keep the issue open until the package can be built in
a follow-up test rebuild.
The package fails to build in a test rebuild on at least amd64 with
gcc-13/g++-13, but succeeds to build with gcc-12/g++-12. The
severity of this report will be raised before the trixie release.
The full build log can be found at:
http://qa-logs.debian.net/2023/05/22/logs/gemmi_0.5.7+ds-2_unstable_gccexp.log
The last lines of the build log are at the end of this report.
To build with GCC 13, either set CC=gcc-13 CXX=g++-13 explicitly,
or install the gcc, g++, gfortran, ... packages from experimental.
apt-get -t=experimental install g++
Common build failures are new warnings resulting in build failures with
-Werror turned on, or new/dropped symbols in Debian symbols files.
For other C/C++ related build failures see the porting guide at
http://gcc.gnu.org/gcc-13/porting_to.html
[...]
| ^
| ;
/<<PKGBUILDDIR>>/include/gemmi/cifdoc.hpp: At global scope:
/<<PKGBUILDDIR>>/include/gemmi/cifdoc.hpp:45:8: error: ‘uint8_t’ does not name
a type
45 | inline uint8_t char_table(char c) {
| ^~~~~~~
/<<PKGBUILDDIR>>/include/gemmi/cifdoc.hpp:22:1: note: ‘uint8_t’ is defined in
header ‘<cstdint>’; did you forget to ‘#include <cstdint>’?
21 | #include <unordered_set>
+++ |+#include <cstdint>
22 | #include <vector>
/<<PKGBUILDDIR>>/include/gemmi/cifdoc.hpp: In lambda function:
/<<PKGBUILDDIR>>/include/gemmi/cifdoc.hpp:1093:59: error: ‘char_table’ was not
declared in this scope
1093 | if (std::all_of(v.begin(), v.end(), [](char c) { return char_table(c)
== 1; })
| ^~~~~~~~~~
In file included from /<<PKGBUILDDIR>>/include/gemmi/cifdoc.hpp:9,
from /<<PKGBUILDDIR>>/python/cif.cpp:3:
/<<PKGBUILDDIR>>/include/gemmi/atox.hpp: In function ‘bool
gemmi::is_space(char)’:
/<<PKGBUILDDIR>>/include/gemmi/atox.hpp:23:21: error: ‘uint8_t’ in namespace
‘std’ does not name a type; did you mean ‘wint_t’?
23 | static const std::uint8_t table[256] = { // 1 for 9-13 and 32
| ^~~~~~~
| wint_t
/<<PKGBUILDDIR>>/include/gemmi/atox.hpp:33:10: error: ‘table’ was not declared
in this scope; did you mean ‘mutable’?
33 | return table[(std::uint8_t)c] != 0;
| ^~~~~
| mutable
/<<PKGBUILDDIR>>/include/gemmi/atox.hpp:33:22: error: ‘uint8_t’ is not a member
of ‘std’; did you mean ‘wint_t’?
33 | return table[(std::uint8_t)c] != 0;
| ^~~~~~~
| wint_t
/<<PKGBUILDDIR>>/include/gemmi/atox.hpp:33:30: error: expected ‘]’ before ‘c’
33 | return table[(std::uint8_t)c] != 0;
| ^
| ]
/<<PKGBUILDDIR>>/include/gemmi/atox.hpp:33:30: error: expected ‘;’ before ‘c’
33 | return table[(std::uint8_t)c] != 0;
| ^
| ;
/<<PKGBUILDDIR>>/include/gemmi/atox.hpp:33:31: error: expected ‘;’ before ‘]’
token
33 | return table[(std::uint8_t)c] != 0;
| ^
| ;
/<<PKGBUILDDIR>>/include/gemmi/cifdoc.hpp: At global scope:
/<<PKGBUILDDIR>>/include/gemmi/cifdoc.hpp:45:8: error: ‘uint8_t’ does not name
a type
45 | inline uint8_t char_table(char c) {
| ^~~~~~~
/<<PKGBUILDDIR>>/include/gemmi/cifdoc.hpp:22:1: note: ‘uint8_t’ is defined in
header ‘<cstdint>’; did you forget to ‘#include <cstdint>’?
21 | #include <unordered_set>
+++ |+#include <cstdint>
22 | #include <vector>
/<<PKGBUILDDIR>>/include/gemmi/cifdoc.hpp: In lambda function:
/<<PKGBUILDDIR>>/include/gemmi/cifdoc.hpp:1093:59: error: ‘char_table’ was not
declared in this scope
1093 | if (std::all_of(v.begin(), v.end(), [](char c) { return char_table(c)
== 1; })
| ^~~~~~~~~~
make[3]: *** [CMakeFiles/py.dir/build.make:93:
CMakeFiles/py.dir/python/gemmi.cpp.o] Error 1
make[3]: *** Waiting for unfinished jobs....
make[3]: *** [CMakeFiles/input.dir/build.make:79:
CMakeFiles/input.dir/src/input.cpp.o] Error 1
make[3]: Leaving directory '/<<PKGBUILDDIR>>/obj-x86_64-linux-gnu'
make[2]: *** [CMakeFiles/Makefile2:136: CMakeFiles/input.dir/all] Error 2
make[3]: *** [CMakeFiles/py.dir/build.make:149:
CMakeFiles/py.dir/python/cif.cpp.o] Error 1
make[3]: *** [CMakeFiles/py.dir/build.make:135:
CMakeFiles/py.dir/python/chemcomp.cpp.o] Error 1
make[3]: Leaving directory '/<<PKGBUILDDIR>>/obj-x86_64-linux-gnu'
[ 17%] Built target output
make[3]: Leaving directory '/<<PKGBUILDDIR>>/obj-x86_64-linux-gnu'
make[2]: *** [CMakeFiles/Makefile2:1346: CMakeFiles/py.dir/all] Error 2
make[2]: Leaving directory '/<<PKGBUILDDIR>>/obj-x86_64-linux-gnu'
make[1]: *** [Makefile:149: all] Error 2
make[1]: Leaving directory '/<<PKGBUILDDIR>>/obj-x86_64-linux-gnu'
dh_auto_build: error: cd obj-x86_64-linux-gnu && make -j8 "INSTALL=install
--strip-program=true" VERBOSE=1 returned exit code 2
make: *** [debian/rules:8: binary] Error 25
dpkg-buildpackage: error: debian/rules binary subprocess returned exit status 2
--- End Message ---
--- Begin Message ---
Source: gemmi
Source-Version: 0.6.2+ds-3
Done: Andrius Merkys <mer...@debian.org>
We believe that the bug you reported is fixed in the latest version of
gemmi, 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 1037...@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 gemmi 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: Fri, 14 Jul 2023 04:33:02 -0400
Source: gemmi
Architecture: source
Version: 0.6.2+ds-3
Distribution: unstable
Urgency: medium
Maintainer: Debichem Team <debichem-de...@lists.alioth.debian.org>
Changed-By: Andrius Merkys <mer...@debian.org>
Closes: 1037671
Changes:
gemmi (0.6.2+ds-3) unstable; urgency=medium
.
* Fix FTBFS with GCC 13 (Closes: #1037671)
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