Sanity checks pass. Both Hello and Ring.java run correctly with the expected program's output.
Does MPI.init(args) expect anything from those command-line args? Nate On Tue, Aug 4, 2015 at 12:26 PM, Howard Pritchard <hpprit...@gmail.com> wrote: > Hello Nate, > > As a sanity check of your installation, could you try to compile the > examples/*.java codes using the mpijavac you've installed and see that > those run correctly? > I'd be just interested in the Hello.java and Ring.java? > > Howard > > > > > > > > 2015-08-04 14:34 GMT-06:00 Nate Chambers <ncham...@usna.edu>: > >> Sure, I reran the configure with CC=gcc and then make install. I think >> that's the proper way to do it. Attached is my config log. The behavior >> when running our code appears to be the same. The output is the same error >> I pasted in my email above. It occurs when calling MPI.init(). >> >> I'm not great at debugging this sort of stuff, but happy to try things >> out if you need me to. >> >> Nate >> >> >> On Tue, Aug 4, 2015 at 5:09 AM, Howard Pritchard <hpprit...@gmail.com> >> wrote: >> >>> Hello Nate, >>> >>> As a first step to addressing this, could you please try using gcc >>> rather than the Intel compilers to build Open MPI? >>> >>> We've been doing a lot of work recently on the java bindings, etc. but >>> have never tried using any compilers other >>> than gcc when working with the java bindings. >>> >>> Thanks, >>> >>> Howard >>> >>> >>> 2015-08-03 17:36 GMT-06:00 Nate Chambers <ncham...@usna.edu>: >>> >>>> We've been struggling with this error for a while, so hoping someone >>>> more knowledgeable can help! >>>> >>>> Our java MPI code exits with a segfault during its normal operation, *but >>>> the segfault occurs before our code ever uses MPI functionality like >>>> sending/receiving. *We've removed all message calls and any use of >>>> MPI.COMM_WORLD from the code. The segfault occurs if we call MPI.init(args) >>>> in our code, and does not if we comment that line out. Further vexing us, >>>> the crash doesn't happen at the point of the MPI.init call, but later on in >>>> the program. I don't have an easy-to-run example here because our non-MPI >>>> code is so large and complicated. We have run simpler test programs with >>>> MPI and the segfault does not occur. >>>> >>>> We have isolated the line where the segfault occurs. However, if we >>>> comment that out, the program will run longer, but then randomly (but >>>> deterministically) segfault later on in the code. Does anyone have tips on >>>> how to debug this? We have tried several flags with mpirun, but no good >>>> clues. >>>> >>>> We have also tried several MPI versions, including stable 1.8.7 and the >>>> most recent 1.8.8rc1 >>>> >>>> >>>> ATTACHED >>>> - config.log from installation >>>> - output from `ompi_info -all` >>>> >>>> >>>> OUTPUT FROM RUNNING >>>> >>>> > mpirun -np 2 java -mx4g FeaturizeDay datadir/ days.txt >>>> ... >>>> some normal output from our code >>>> ... >>>> >>>> -------------------------------------------------------------------------- >>>> mpirun noticed that process rank 0 with PID 29646 on node r9n69 exited >>>> on signal 11 (Segmentation fault). >>>> >>>> -------------------------------------------------------------------------- >>>> >>>> >>>> >>>> >>>> _______________________________________________ >>>> users mailing list >>>> us...@open-mpi.org >>>> Subscription: http://www.open-mpi.org/mailman/listinfo.cgi/users >>>> Link to this post: >>>> http://www.open-mpi.org/community/lists/users/2015/08/27386.php >>>> >>> >>> >>> _______________________________________________ >>> users mailing list >>> us...@open-mpi.org >>> Subscription: http://www.open-mpi.org/mailman/listinfo.cgi/users >>> Link to this post: >>> http://www.open-mpi.org/community/lists/users/2015/08/27389.php >>> >> >> >> _______________________________________________ >> users mailing list >> us...@open-mpi.org >> Subscription: http://www.open-mpi.org/mailman/listinfo.cgi/users >> Link to this post: >> http://www.open-mpi.org/community/lists/users/2015/08/27391.php >> > > > _______________________________________________ > users mailing list > us...@open-mpi.org > Subscription: http://www.open-mpi.org/mailman/listinfo.cgi/users > Link to this post: > http://www.open-mpi.org/community/lists/users/2015/08/27392.php >
