Erik,
the OS X warning (which should not be OS X specific) is fixed in
https://github.com/open-mpi/ompi-release/pull/430
it will land into the v2.x series once reviewed
in the mean time, feel free to manually apply the patch on the tarball
Cheers,
Gilles
On 7/29/2015 10:35 AM, Erik Schnetter wrote:
Thank you for all the pointers. I was able to
build openmpi-v2.x-dev-96-g918650a without problems on Edison, and
also on other systems.
I'm circumventing the OS X warning by ignoring it via "grep -v"; the
other suggestion (--mca oob ^usock) did not work for me. I've
tried openmpi-v2.x-dev-100-g26c3f03, but it still leads to the same
warning.
-erik
On Mon, Jul 27, 2015 at 10:17 AM, Gilles Gouaillardet
<gilles.gouaillar...@gmail.com <mailto:gilles.gouaillar...@gmail.com>>
wrote:
Eric,
these warnings are not important and you can simply ignore them.
fwiw, this is a race condition evidenced by recent "asynchrousity".
i will push a fix tomorrow.
in the mean time, you can
mpirun --mca oob ^tcp ...
(if you run on one node only)
or
mpirun --mca oob ^usock
(if you have an OS X cluster ...)
Cheers,
Gilles
On Sunday, July 26, 2015, Erik Schnetter <schnet...@gmail.com
<mailto:schnet...@gmail.com>> wrote:
Mark
No, it doesn't need to be 1.8.7.
I just tried v2.x-dev-96-g918650a. This leads to run-time
warnings on OS X; I see messages such as
[warn] select: Bad file descriptor
Are these important? If not, how can I suppress them?
-erik
On Sat, Jul 25, 2015 at 7:49 AM, Mark Santcroos
<mark.santcr...@rutgers.edu> wrote:
Hi Erik,
Do you really want 1.8.7, otherwise you might want to give
latest master a try. Other including myself had more luck
with that on Cray's, including Edison.
Mark
> On 25 Jul 2015, at 1:35 , Erik Schnetter
<schnet...@gmail.com> wrote:
>
> I want to build OpenMPI 1.8.7 on a Cray XC30 (Edison at
NERSC). I've tried various configuration options, but I am
always encountering either OpenMPI build errors,
application build errors, or run-time errors.
>
> I'm currently looking at
<http://www.open-mpi.org/community/lists/users/2015/06/27230.php>,
which seems to describe my case. I'm now configuring
OpenMPI without any options, except setting compilers to
clang/gfortran and pointing it to a self-built hwloc. For
completeness, here are my configure options as recorded by
config.status:
>
>
'/project/projectdirs/m152/schnette/edison/software/src/openmpi-1.8.7/src/openmpi-1.8.7/configure'
'--prefix=/project/projectdirs/m152/schnette/edison/software/openmpi-1.8.7'
'--with-hwloc=/project/projectdirs/m152/schnette/edison/software/hwloc-1.11.0'
'--disable-vt'
'CC=/project/projectdirs/m152/schnette/edison/software/llvm-3.6.2/bin/wrap-clang'
'CXX=/project/projectdirs/m152/schnette/edison/software/llvm-3.6.2/bin/wrap-clang++'
'FC=/project/projectdirs/m152/schnette/edison/software/gcc-5.2.0/bin/wrap-gfortran'
'CFLAGS=-I/opt/ofed/include
-I/project/projectdirs/m152/schnette/edison/software/hwloc-1.11.0/include'
'CXXFLAGS=-I/opt/ofed/include
-I/project/projectdirs/m152/schnette/edison/software/hwloc-1.11.0/include'
'LDFLAGS=-L/opt/ofed/lib64
-L/project/projectdirs/m152/schnette/edison/software/hwloc-1.11.0/lib
-Wl,-rpath,/project/projectdirs/m152/schnette/edison/software/hwloc-1.11.0/lib'
'LIBS=-lhwloc -lpthread -lpthread'
'--with-wrapper-ldflags=-L/project/projectdirs/
m152/schnette/edison/software/hwloc-1.11.0/lib
-Wl,-rpath,/project/projectdirs/m152/schnette/edison/software/hwloc-1.11.0/lib'
'--with-wrapper-libs=-lhwloc -lpthread'
>
> This builds and installs fine, and works when running on
a single node. However, multi-node runs are stalling: The
queue starts the job, but mpirun produces no output. The
"-v" option to mpirun doesn't help.
>
> When I use aprun instead of mpirun to start my
application, then all processes think they are rank 0.
>
> Do you have any pointers for how to debug this?
>
> -erik
>
> --
> Erik Schnetter <schnet...@gmail.com>
http://www.perimeterinstitute.ca/personal/eschnetter/
> _______________________________________________
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> Link to this post:
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--
Erik Schnetter <schnet...@gmail.com>
http://www.perimeterinstitute.ca/personal/eschnetter/
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--
Erik Schnetter <schnet...@gmail.com <mailto:schnet...@gmail.com>>
http://www.perimeterinstitute.ca/personal/eschnetter/
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