Your message dated Mon, 20 Jun 2022 07:33:47 +0000
with message-id <e1o3but-000blo...@fasolo.debian.org>
and subject line Bug#1013010: fixed in openmm 7.7.0+dfsg-6
has caused the Debian Bug report #1013010,
regarding openmm: ftbfs with GCC-12
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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immediately.)
--
1013010: https://bugs.debian.org/cgi-bin/bugreport.cgi?bug=1013010
Debian Bug Tracking System
Contact ow...@bugs.debian.org with problems
--- Begin Message ---
Package: src:openmm
Version: 7.7.0+dfsg-5
Severity: normal
Tags: sid bookworm
User: debian-...@lists.debian.org
Usertags: ftbfs-gcc-12
[This bug is targeted to the upcoming bookworm 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-12/g++-12, but succeeds to build with gcc-11/g++-11. The
severity of this report will be raised before the bookworm release.
The full build log can be found at:
http://qa-logs.debian.net/2022/06/09/gcc12/openmm_7.7.0+dfsg-5_unstable_gcc12.log
The last lines of the build log are at the end of this report.
To build with GCC 11, either set CC=gcc-11 CXX=g++-11 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-11/porting_to.html
GCC 11 defaults to the GNU++17 standard. If your package installs
header files in /usr/include, please don't work around C++17 issues
by choosing a lower C++ standard for the package build, but fix these
issues to build with the C++17 standard.
[...]
110: Test command: /<<PKGBUILDDIR>>/obj-x86_64-linux-gnu/TestSplineFitter
110: Test timeout computed to be: 1500
110: Done
103/115 Test #110: TestSplineFitter .............................. Passed
0.01 sec
test 111
Start 111: TestSystem
111: Test command: /<<PKGBUILDDIR>>/obj-x86_64-linux-gnu/TestSystem
111: Test timeout computed to be: 1500
111: Done
104/115 Test #111: TestSystem .................................... Passed
0.00 sec
test 112
Start 112: TestVectorExpression
112: Test command: /<<PKGBUILDDIR>>/obj-x86_64-linux-gnu/TestVectorExpression
112: Test timeout computed to be: 1500
112: Done
105/115 Test #112: TestVectorExpression .......................... Passed
0.00 sec
test 113
Start 113: TestVectorize
113: Test command: /<<PKGBUILDDIR>>/obj-x86_64-linux-gnu/TestVectorize
113: Test timeout computed to be: 1500
113: Done
106/115 Test #113: TestVectorize ................................. Passed
0.00 sec
test 114
Start 114: TestVectorizeAvx
114: Test command: /<<PKGBUILDDIR>>/obj-x86_64-linux-gnu/TestVectorizeAvx
114: Test timeout computed to be: 1500
114: Done
107/115 Test #114: TestVectorizeAvx .............................. Passed
0.00 sec
test 115
Start 115: TestVectorizeAvx2
115: Test command: /<<PKGBUILDDIR>>/obj-x86_64-linux-gnu/TestVectorizeAvx2
115: Test timeout computed to be: 1500
115: Done
108/115 Test #115: TestVectorizeAvx2 ............................. Passed
0.00 sec
41: Done
109/115 Test #41: TestReferenceVariableLangevinIntegrator ....... Passed
33.21 sec
16: Done
110/115 Test #16: TestReferenceCustomManyParticleForce .......... Passed
39.66 sec
72: Done
111/115 Test #72: TestReferenceDrudeNoseHoover .................. Passed
8.76 sec
71: Done
112/115 Test #71: TestReferenceDrudeLangevinIntegrator .......... Passed
18.51 sec
73: Done
113/115 Test #73: TestReferenceDrudeSCFIntegrator ............... Passed
17.15 sec
69: Done
114/115 Test #69: TestReferenceRpmd ............................. Passed
32.94 sec
17: Done
115/115 Test #17: TestReferenceCustomNonbondedForce ............. Passed
56.50 sec
98% tests passed, 2 tests failed out of 115
Total Test time (real) = 56.63 sec
The following tests FAILED:
99 - TestSerializeNoseHooverIntegrator (SEGFAULT)
103 - TestSerializeState (SEGFAULT)
Errors while running CTest
make[2]: *** [Makefile:74: test] Error 8
make[2]: Leaving directory '/<<PKGBUILDDIR>>/obj-x86_64-linux-gnu'
dh_auto_test: error: cd obj-x86_64-linux-gnu && make -j8 test ARGS\+=--verbose
ARGS\+=-j8 returned exit code 2
make[1]: *** [debian/rules:40: override_dh_auto_test] Error 25
make[1]: Leaving directory '/<<PKGBUILDDIR>>'
make: *** [debian/rules:29: binary] Error 2
dpkg-buildpackage: error: debian/rules binary subprocess returned exit status 2
--- End Message ---
--- Begin Message ---
Source: openmm
Source-Version: 7.7.0+dfsg-6
Done: Andrius Merkys <mer...@debian.org>
We believe that the bug you reported is fixed in the latest version of
openmm, 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 1013...@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 openmm 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, 20 Jun 2022 03:18:38 -0400
Source: openmm
Architecture: source
Version: 7.7.0+dfsg-6
Distribution: unstable
Urgency: medium
Maintainer: Debichem Team <debichem-de...@lists.alioth.debian.org>
Changed-By: Andrius Merkys <mer...@debian.org>
Closes: 1013010
Changes:
openmm (7.7.0+dfsg-6) unstable; urgency=medium
.
* Backport upstream patch for GCC-12 FTBFS (Closes: #1013010).
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