[gmx-developers] gmx master: compiling on mac and segfault

[Szilárd Páll]

On Sat, Jul 28, 2012 at 3:00 AM, Roland Schulz <roland at utk.edu> wrote:

> On Thu, Jul 26, 2012 at 10:56 PM, Szilárd Páll <szilard.pall at cbr.su.se>
> wrote:
>
> > Note the *important* adjective above ;)
> >
> > XML and GSL is irrelevant and I think we can be a bit smart and prune
> some
> > configs that we can be fairly confident that they're more or less
> > equivalent.
> >
> > Not sure what you mean by "3 parallelization"; if it's MPI, tMPI, and
> OpenMP
> > than it's two or four (depending on weather we want to test both
> MPI/tMPI +
> > OpenMP on/off).
> I meant no-mpi, libMPI, tMPI.
>
> > The number of (CPU) acceleration types can be slightly
> > reduced as I wouldn't consider anything but SSE/AVX that highly
> important.
> > Also, I'd consider only three OS-es and on some of them not all compilers
> > are available.
> >
> > So we're left with ~ 10x2x3x2x4 = 480 configs per OS (and less on Win).
> Sure but then you are already missing many possible configurations.
>

Right, but there are some that are relevant for many users and some that
are pretty much irrelevant for most (e.g. no tMPI & no MPI & no OpenMP).

I'm wondering whether it would make sense to pick randomly
> configurations from the all-vs-all configuration matrix. The most

important configurations would already be tested by the Gerrit
> auto-trigger and with the random selection all odd combinations have a
> change to get picked over time.
>

Randomly picking configurations could work, but unless the full coverage is
achieved in just a few weeks, it's not very effective, I think.

Additionally, the current gerrit auto-triggered configurations could use
some extending.


>
> > Assuming that each build takes ~3 min which is the case on 2-3 cores
> (note
> > that I mean build only!),
> No the build time is currently much higher on all VMs. The IO
> performance is a significant factor.
>

That's partly because of the tests. I/O is indeed an issue, we're planning
to move the virtual disks with jenkins worspaces to SSDs, somebody just
needs to find the time to do it.


> > Even if we multiply the above 24h/4cores/OS with 3-4, it's still a rather
> > manageable number especially that AFAIK hardware resources are not the
> > biggest issue.
> It should be easy to setup. I'm happy to help anyone who wants to add
> more Jenkins jobs.
>

I know a few more that should be added, I'll try to add more when the NxN
code is in.


>
> Roland
>
> >
> > Cheers,
> > Sz.
> >
> >>
> >> Roland
> >>
> >>
> >>
> >> >
> >> > --
> >> > Szilárd
> >> >
> >> >>
> >> >> Mac. So it is somewhat surprising that you have 2 independent
> >> >> problems.
> >> >>
> >> >> Roland
> >> >>
> >> >> >
> >> >> > Many thanks,
> >> >> > Jochen
> >> >> >
> >> >> >
> >> >> > --
> >> >> > ---------------------------------------------------
> >> >> > Dr. Jochen Hub
> >> >> > Computational Molecular Biophysics Group
> >> >> > Institute for Microbiology and Genetics
> >> >> > Georg-August-University of Göttingen
> >> >> > Justus-von-Liebig-Weg 11, 37077 Göttingen, Germany.
> >> >> > Phone: +49-551-39-14189
> >> >> > http://cmb.bio.uni-goettingen.de/
> >> >> > ---------------------------------------------------
> >> >> > --
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> >> >> >
> >> >> >
> >> >> >
> >> >> >
> >> >>
> >> >>
> >> >>
> >> >> --
> >> >> ORNL/UT Center for Molecular Biophysics cmb.ornl.gov
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> >>
> >>
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> >> 865-241-1537, ORNL PO BOX 2008 MS6309
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>
>
> --
> ORNL/UT Center for Molecular Biophysics cmb.ornl.gov
> 865-241-1537, ORNL PO BOX 2008 MS6309
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