Your message dated Sat, 12 Sep 2020 12:48:26 +0000
with message-id <e1kh4x8-000hpi...@fasolo.debian.org>
and subject line Bug#965352: fixed in openmpi 4.0.5-3
has caused the Debian Bug report #965352,
regarding libopenmpi3: breaks tests in client programs
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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--
965352: https://bugs.debian.org/cgi-bin/bugreport.cgi?bug=965352
Debian Bug Tracking System
Contact ow...@bugs.debian.org with problems
--- Begin Message ---
Package: libopenmpi3
Version: 4.0.4-2
Severity: serious
Justification: breaks dependent packages
A number of packages have lately started failing debci tests,
in particular mpi4py and dolfin. dolfin is also failing some build-time
tests.
I've run mpi4py tests on debci for both testing and unstable. They're
still passing in testing, where openmpi is 4.0.4-1, but failing in
unstable with openmpi 4.0.4-2. I'm not absolutely certain, but it
seems like one of the changes in openmpi 4.0.4-2 might be making
problems.
Debci indicates that mpi4py 3.0.3-5 isn't passing
test/test_rma.py::TestRMASelf::testGetAccumulate
Test log in
https://ci.debian.net/data/autopkgtest/unstable/amd64/m/mpi4py/6342921/log.gz
Apparently there's a segfault in an mpi test (single process test pass).
The problem can be reproduced at the command line in an mpi4py source
dir with python3-mpi4py installed (manual testing also shows
TestRMASelf::testStartComplete is failing, separate from
testGetAccumulate):
$ mpirun -n 2 python3 -m pytest test/test_rma.py -v
============================= test session starts ==============================
platform linux -- Python 3.8.4, pytest-4.6.11, py-1.8.1, pluggy-0.13.0 --
/usr/bin/python3
============================= test session starts ==============================
platform linux -- Python 3.8.4, pytest-4.6.11, py-1.8.1, pluggy-0.13.0 --
/usr/bin/python3
cachedir: .pytest_cache
hypothesis profile 'default' ->
database=DirectoryBasedExampleDatabase('/home/drew/projects/python/build/mpi4py/.hypothesis/examples')
rootdir: /home/drew/projects/python/build/mpi4py, inifile: setup.cfg
plugins: xdist-1.32.0, doctestplus-0.7.0, astropy-header-0.1.2,
filter-subpackage-0.1.1, cov-2.8.1, remotedata-0.3.2, mpi-0+unknown,
forked-1.2.0, arraydiff-0.3, openfiles-0.5.0, hypothesis-5.16.0
collecting ... cachedir: .pytest_cache
hypothesis profile 'default' ->
database=DirectoryBasedExampleDatabase('/home/drew/projects/python/build/mpi4py/.hypothesis/examples')
rootdir: /home/drew/projects/python/build/mpi4py, inifile: setup.cfg
plugins: xdist-1.32.0, doctestplus-0.7.0, astropy-header-0.1.2,
filter-subpackage-0.1.1, cov-2.8.1, remotedata-0.3.2, mpi-0+unknown,
forked-1.2.0, arraydiff-0.3, openfiles-0.5.0, hypothesis-5.16.0
collected 36 items
collected 36 items
test/test_rma.py::TestRMASelf::testAccumulate
test/test_rma.py::TestRMASelf::testAccumulate PASSED [ 2%]
test/test_rma.py::TestRMASelf::testAccumulateProcNullReplace PASSED
[ 2%]PASSED [ 5%]
test/test_rma.py::TestRMASelf::testAccumulateProcNullSum
test/test_rma.py::TestRMASelf::testAccumulateProcNullReplace PASSED [
8%]PASSED [ 5%]
test/test_rma.py::TestRMASelf::testCompareAndSwap
test/test_rma.py::TestRMASelf::testAccumulateProcNullSum PASSED [
8%]PASSED
[ 11%]test/test_rma.py::TestRMASelf::testCompareAndSwap
test/test_rma.py::TestRMASelf::testFence PASSED [ 13%]
test/test_rma.py::TestRMASelf::testFenceAll PASSED [ 16%]
test/test_rma.py::TestRMASelf::testFetchAndOp PASSED [ 19%]
test/test_rma.py::TestRMASelf::testFlush PASSED [ 22%]
test/test_rma.py::TestRMASelf::testGetAccumulate PASSED [ 25%]
test/test_rma.py::TestRMASelf::testGetAccumulateProcNull PASSED [ 27%]
test/test_rma.py::TestRMASelf::testGetProcNull PASSED [ 30%]
test/test_rma.py::TestRMASelf::testPostWait PASSED [ 33%]
test/test_rma.py::TestRMASelf::testPutGet PASSED [ 36%]
test/test_rma.py::TestRMASelf::testPutProcNull PASSED [ 38%]
test/test_rma.py::TestRMASelf::testStartComplete FAILED [ 41%]
test/test_rma.py::TestRMASelf::testStartCompletePostTest PASSED [ 44%]
test/test_rma.py::TestRMASelf::testStartCompletePostWait PASSED [ 47%]
test/test_rma.py::TestRMASelf::testSync PASSED [ 50%]
test/test_rma.py::TestRMAWorld::testAccumulate
--------------------------------------------------------------------------
Primary job terminated normally, but 1 process returned
a non-zero exit code. Per user-direction, the job has been aborted.
--------------------------------------------------------------------------
--------------------------------------------------------------------------
mpirun noticed that process rank 1 with PID 0 on node monte exited on signal 11
(Segmentation fault).
--------------------------------------------------------------------------
The tests pass with mpirun -n 1.
-- System Information:
Debian Release: bullseye/sid
APT prefers unstable
APT policy: (500, 'unstable'), (1, 'experimental')
Architecture: amd64 (x86_64)
Foreign Architectures: i386
Kernel: Linux 5.7.0-1-amd64 (SMP w/8 CPU threads)
Locale: LANG=en_AU.UTF-8, LC_CTYPE=en_AU.UTF-8 (charmap=UTF-8),
LANGUAGE=en_AU:en
Shell: /bin/sh linked to /usr/bin/dash
Init: systemd (via /run/systemd/system)
LSM: AppArmor: enabled
Versions of packages libopenmpi3 depends on:
ii libc6 2.31-1
ii libevent-core-2.1-7 2.1.12-stable-1
ii libevent-pthreads-2.1-7 2.1.12-stable-1
ii libfabric1 1.6.2-3+b1
ii libgcc-s1 10.1.0-6
ii libhwloc-plugins 2.2.0+dfsg-3
ii libhwloc15 2.2.0+dfsg-3
ii libibverbs1 29.0-1
ii libnl-3-200 3.4.0-1+b1
ii libpmix2 3.1.5-1
ii libpsm-infinipath1 3.3+20.604758e7-6+b1
ii libpsm2-2 11.2.86-1
ii libstdc++6 10.1.0-6
ii libucx0 1.8.1-1
ii zlib1g 1:1.2.11.dfsg-2
libopenmpi3 recommends no packages.
libopenmpi3 suggests no packages.
-- no debconf information
--- End Message ---
--- Begin Message ---
Source: openmpi
Source-Version: 4.0.5-3
Done: Alastair McKinstry <mckins...@debian.org>
We believe that the bug you reported is fixed in the latest version of
openmpi, 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 965...@bugs.debian.org,
and the maintainer will reopen the bug report if appropriate.
Debian distribution maintenance software
pp.
Alastair McKinstry <mckins...@debian.org> (supplier of updated openmpi 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: SHA256
Format: 1.8
Date: Sat, 12 Sep 2020 12:33:38 +0100
Source: openmpi
Architecture: source
Version: 4.0.5-3
Distribution: unstable
Urgency: medium
Maintainer: Alastair McKinstry <mckins...@debian.org>
Changed-By: Alastair McKinstry <mckins...@debian.org>
Closes: 965352 970036
Changes:
openmpi (4.0.5-3) unstable; urgency=medium
.
* Revert autogenerated vars in preinst/postinst. Closes: #970036
* Update pmix path for libpmix-dev >= 3.2.0rc1-2
* Ack. bug closed due to mpi4py test disabled: Closes: #965352.
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