On Wed, 26 Mar 2014 10:47:56 +1100 Jonathan Mynard <[email protected]> wrote:
> I am a novice user and have this exact problem on a cluster. How do > I apply the patch? Patching the installation directly: $ cd `python -c"import instant; print instant.__path__[0]"` $ patch -p2 < ofed-fork.patch Note that if you install from source, triggering the installation again may overwrite the patch. So you may similarly patch your source files. Jan > > Thanks. > > Jonathan. > > On 26/03/2014, at 1:24 AM, <[email protected]> wrote: > > > After some digging, it seems that segfaults observed on > > OFED/InfiniBand clusters (see [1], [2], [3]) are caused by > > implementation of > > > > subprocess.Popen > > > > Check your local subprocess.py:_execute_child. Parent does not seem > > to keep hands of memory between fork() and exec() (as required [4], > > [5]), especially as it is fiddling with garbage collector. > > > > I tried switching to os.system (posix implementation in [6]) > > instead of subprocess.Popen and it seems promising. Check out [7] > > or enclosed patch. > > > > Jan > > > > [1] https://answers.launchpad.net/dolfin/+question/219270 > > [2] https://answers.launchpad.net/dolfin/+question/225946 > > [3] http://fenicsproject.org/pipermail/fenics/2013-June/000398.html > > [4] https://www.open-mpi.org/faq/?category=openfabrics#ofa-fork > > [5] > > http://www.openfabrics.org/downloads/OFED/release_notes/OFED_3.12_rc1_release_notes#3.03 > > [6] > > http://svn.python.org/projects/python/trunk/Modules/posixmodule.c > > [7] https://bitbucket.org/blechta/instant/branch/blechta/ofed-fork > > > > > ______________________________________________________________________ > This email has been scanned by the Symantec Email Security.cloud > service. For more information please visit > http://www.symanteccloud.com > ______________________________________________________________________ _______________________________________________ fenics mailing list [email protected] http://fenicsproject.org/mailman/listinfo/fenics
