Running petsc on infiniband

Saswata Hier-Majumder saswata at
Sat Nov 1 11:55:35 CDT 2008

I am new to petsc and not sure how to interpret the result I get when 
running petsc example codes (bratu problem and hello world) in an SGI 
Altix 1300 cluster. Any help will be greatly appreciated!

 I compile the petsc code using a makefile that came with the petsc 
distribution, submit  the job to the queue using pbspro, and run using 
mpirun. The solution returned by running the bratu problem 
($PETSC_DIR/src/snes/examples/tutorials/ex5f90.F)   looks correct, but I 
am not sure if petsc is using all processors supplied to it by mpirun. 
MPI_COMM_SIZE always returns a size of 1 and MPI_COMM_RANK always 
returns rank 0, when I call these routines from inside my code, despite 
using a command like

mpirun -n 16 -machinefile $PBS_NODEFILE myexecutable.exe

in my submit shell script.

I get similar results when I run hello world with Petsc. It prints 16 
lines displaying rank=0 and size=1, when run with 16 processors. Run 
just with mpi, helloworld prints the size and ranks as expected, i.e. 16 
different lines with size 16 and ranks from 0 to 15.

Am I correct in assuming that petsc is somehow not able use the version 
of mpirun implemented in vltmpi? I  reran the petsc using the install 
shell script given below, but it did not help
./config/ --with-mpi-dir=/opt/vltmpi/OPENIB/mpi.icc.rsh/bin
make all test

Sash Hier-Majumder


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