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Subject: [OMPI users] possible bug exercised by mpi4py
From: Bennet Fauber (bennet_at_[hidden])
Date: 2012-05-23 16:52:22


I've installed the latest mpi4py-1.3 on several systems, and there is a
repeated bug when running

         $ mpirun -np 5 python test/runtests.py

where it throws an error on mpigather with openmpi-1.4.4 and hangs with
openmpi-1.3.

It runs to completion and passes all tests when run with -np of 2, 3, 4,
6, 7, 8, 9, 10, 11, and 12.

There is a thread on this at

http://groups.google.com/group/mpi4py/browse_thread/thread/509ac46af6f79973

where others report being able to replicate, too.

The compiler used first was gcc-4.6.2, with openmpi-1.4.4.

These are all Red Hat machines, RHEL 5 or 6 and with multiple compilers
and versions of openmpi 1.3.0 and 1.4.4.

Lisandro who is the primary developer of mpi4py is able to replicate on
Fedora 16.

Someone else is able to reproduce with

[ quoting from the groups.google.com page... ]
===============================================================
It also happens with the current hg version of mpi4py and
$ rpm -qa openmpi gcc python
python-2.7.3-6.fc17.x86_64
gcc-4.7.0-5.fc17.x86_64
openmpi-1.5.4-5.fc17.1.x86_64
===============================================================

So, I believe this is a bug to be reported. Per the advice at

         http://www.open-mpi.org/community/help/bugs.php

         If you feel that you do have a definite bug to report but are
         unsure which list to post to, then post to the user's list.

Please let me know if there is additional information that you need to
replicate.

Some output is included below the signature in case it is useful.

                         -- bennet

--
East Hall Technical Services
Mathematics and Psychology Research Computing
University of Michigan
(734) 763-1182
On RHEL 5, openmpi 1.3, gcc 4.1.2, python 2.7
$ mpirun -np 5 --mca btl ^sm python test/runtests.py --verbose 
--no-threads --include cco_obj_inter
[0_at_[hidden]] Python 2.7 
(/home/bennet/epd7.2.2/bin/python)
[0_at_[hidden]] MPI 2.0 (Open MPI 1.3.0)
[0_at_[hidden]] mpi4py 1.3 
(build/lib.linux-x86_64-2.7/mpi4py)
[1_at_[hidden]] Python 2.7 
(/home/bennet/epd7.2.2/bin/python)
[1_at_[hidden]] MPI 2.0 (Open MPI 1.3.0)
[1_at_[hidden]] mpi4py 1.3 
(build/lib.linux-x86_64-2.7/mpi4py)
[2_at_[hidden]] Python 2.7 
(/home/bennet/epd7.2.2/bin/python)
[2_at_[hidden]] MPI 2.0 (Open MPI 1.3.0)
[2_at_[hidden]] mpi4py 1.3 
(build/lib.linux-x86_64-2.7/mpi4py)
[3_at_[hidden]] Python 2.7 
(/home/bennet/epd7.2.2/bin/python)
[3_at_[hidden]] MPI 2.0 (Open MPI 1.3.0)
[3_at_[hidden]] mpi4py 1.3 
(build/lib.linux-x86_64-2.7/mpi4py)
[4_at_[hidden]] Python 2.7 
(/home/bennet/epd7.2.2/bin/python)
[4_at_[hidden]] MPI 2.0 (Open MPI 1.3.0)
[4_at_[hidden]] mpi4py 1.3 
(build/lib.linux-x86_64-2.7/mpi4py)
testAllgather (test_cco_obj_inter.TestCCOObjInter) ... testAllgather 
(test_cco_obj_inter.TestCCOObjInter) ... testAllgather 
(test_cco_obj_inter.TestCCOObjInter) ... testAllgather 
(test_cco_obj_inter.TestCCOObjInter) ... testAllgather 
(test_cco_obj_inter.TestCCOObjInter) ...
[ hangs ]
RHEL5
===================================================
$ python
Python 2.6.6 (r266:84292, Sep 12 2011, 14:03:14)
[GCC 4.4.5 20110214 (Red Hat 4.4.5-6)] on linux2
$ gcc -v
Using built-in specs.
COLLECT_GCC=gcc
COLLECT_LTO_WRAPPER=/home/software/rhel6/gcc/4.7.0/libexec/gcc/x86_64-
unknown-linux-gnu/4.7.0/lto-wrapper
Target: x86_64-unknown-linux-gnu
Configured with: ../gcc-4.7.0/configure --prefix=/home/software/rhel6/
gcc/4.7.0 --with-mpfr=/home/software/rhel6/gcc/mpfr-3.1.0/ --with-mpc=/
home/software/rhel6/gcc/mpc-0.9/ --with-gmp=/home/software/rhel6/gcc/
gmp-5.0.5/ --disable-multilib
Thread model: posix
gcc version 4.7.0 (GCC)
$ mpirun -np 5 python test/runtests.py --verbose --no-threads --include cco_obj_inter
[4..._at_[hidden]] Python 2.6 (/usr/bin/python)
[4..._at_[hidden]] MPI 2.1 (Open MPI 1.6.0)
[4..._at_[hidden]] mpi4py 1.3 (build/lib.linux-x86_64-2.6/mpi4py)
[2..._at_[hidden]] Python 2.6 (/usr/bin/python)
[2..._at_[hidden]] MPI 2.1 (Open MPI 1.6.0)
[2..._at_[hidden]] mpi4py 1.3 (build/lib.linux-x86_64-2.6/mpi4py)
[1..._at_[hidden]] Python 2.6 (/usr/bin/python)
[1..._at_[hidden]] MPI 2.1 (Open MPI 1.6.0)
[1..._at_[hidden]] mpi4py 1.3 (build/lib.linux-x86_64-2.6/mpi4py)
[0..._at_[hidden]] Python 2.6 (/usr/bin/python)
[0..._at_[hidden]] MPI 2.1 (Open MPI 1.6.0)
[0..._at_[hidden]] mpi4py 1.3 (build/lib.linux-x86_64-2.6/mpi4py)
[3..._at_[hidden]] Python 2.6 (/usr/bin/python)
[3..._at_[hidden]] MPI 2.1 (Open MPI 1.6.0)
[3..._at_[hidden]] mpi4py 1.3 (build/lib.linux-x86_64-2.6/mpi4py)
testAllgather (test_cco_obj_inter.TestCCOObjInter) ... testAllgather
(test_cco_obj_inter.TestCCOObjInter) ... testAllgather
(test_cco_obj_inter.TestCCOObjInter) ... testAllgather
(test_cco_obj_inter.TestCCOObjInter) ... testAllgather
(test_cco_obj_inter.TestCCOObjInter) ... ERROR