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 >
