Re: [mpich-discuss] MPICH3 and Nagfor: Corrupts writing/IO?
Ken, I just tried your configure (with enable-cxx) and it seemed to work! Thanks! I suppose I should try and figure out what flag caused the corruption but it's working. Don't really want to poke the bear right now. Matt On 01/12/2017 04:46 PM, Kenneth Raffenetti wrote:
Can you check your compiler flags and make sure they are all necessary? I was able to reproduce the error locally with your settings, but a more default configuration works fine. I.e.
./configure --prefix=$PWD/i --disable-wrapper-rpath CC=gcc CXX=g++ FC=nagfor F77=nagfor FCFLAGS=-mismatch FFLAGS=-mismatch --enable-fortran=all
Ken
On 01/12/2017 10:54 AM, Thompson, Matt (GSFC-610.1)[SCIENCE SYSTEMS AND APPLICATIONS INC] wrote:
All,
I've been having some "fun" recently trying to get an MPI stack built with nagfor 6.1. I've tried Open MPI and MVAPICH2 and failed to even build the MPI stack, SGI MPT doesn't like nagfor, and Intel MPI I'm guessing wouldn't either.
So, I figured I'd go for MPICH3. And, lo and behold, building with nagfor 6.1 and gcc 5.3 (for CC and CXX) with:
./configure --prefix=$SWDEV/MPI/mpich/3.2/nagfor_6.1-gcc_5.3-nomismatchall \ --disable-wrapper-rpath CC=gcc CXX=g++ FC=nagfor F77=nagfor \ CFLAGS='-fpic -m64' CXXFLAGS='-fpic -m64' \ FCFLAGS='-PIC -abi=64' FFLAGS='-PIC -abi=64 -mismatch' \ --enable-fortran=all --enable-cxx
I got something to build. Huzzah!
I then tried the cpi test, it worked! It even detected I was on slurm according to mpirun -verbose.
I then tried a simple Fortran 90 Hello world program and...crash:
(1211)(master) $ cat helloWorld.F90 program hello_world
use mpi
implicit none
integer :: comm integer :: myid, npes, ierror integer :: name_length
character(len=MPI_MAX_PROCESSOR_NAME) :: processor_name
call mpi_init(ierror)
comm = MPI_COMM_WORLD
call MPI_Comm_Rank(comm,myid,ierror) call MPI_Comm_Size(comm,npes,ierror) call MPI_Get_Processor_Name(processor_name,name_length,ierror)
write (*,'(A,1X,I4,1X,A,1X,I4,1X,A,1X,A)') "Process", myid, "of", npes, "is on", trim(processor_name)
call MPI_Finalize(ierror)
end program hello_world (1212)(master) $ mpifort -o helloWorld.exe helloWorld.F90 NAG Fortran Compiler Release 6.1(Tozai) Build 6113 [NAG Fortran Compiler normal termination] (1213)(master) $ mpirun -np 4 ./helloWorld.exe srun.slurm: cluster configuration lacks support for cpu binding Runtime Error: Buffer overflow on output Program terminated by I/O error on unit 6 (Output_Unit,Unformatted,Direct) Runtime Error: Buffer overflow on output Program terminated by I/O error on unit 6 (Output_Unit,Unformatted,Direct) Runtime Error: Buffer overflow on output Program terminated by I/O error on unit Runtime Error: Buffer overflow on output Program terminated by I/O error on unit 6 (Output_Unit,Unformatted,Direct) 6 (Output_Unit,Unformatted,Direct)
===================================================================================
= BAD TERMINATION OF ONE OF YOUR APPLICATION PROCESSES = PID 7642 RUNNING AT borgl189 = EXIT CODE: 134 = CLEANING UP REMAINING PROCESSES = YOU CAN IGNORE THE BELOW CLEANUP MESSAGES ===================================================================================
YOUR APPLICATION TERMINATED WITH THE EXIT STRING: Aborted (signal 6) This typically refers to a problem with your application. Please see the FAQ page for debugging suggestions
Weird. So, I decided to try something different, this program:
program main implicit none real :: a a = 1240.0 write (*,*) "Hello world", a end program main
Looks boring and is standard-compliant and nagfor likes it:
(1226) $ nagfor test.F90 && ./a.out NAG Fortran Compiler Release 6.1(Tozai) Build 6113 [NAG Fortran Compiler normal termination] Hello world 1.2400000E+03
Looks correct. Now let's try mpifort:
(1232) $ mpifort test.F90 && ./a.out NAG Fortran Compiler Release 6.1(Tozai) Build 6113 [NAG Fortran Compiler normal termination] Hello world Segmentation fault (core dumped)
You can't really see it here, but that "Hello world" is surrounded by LF characters. Like a literal LineFeed...and then it core dumps.
Now let's try running with mpirun as well:
(1233) $ mpifort test.F90 && mpirun -np 1 ./a.out NAG Fortran Compiler Release 6.1(Tozai) Build 6113 [NAG Fortran Compiler normal termination] srun.slurm: cluster configuration lacks support for cpu binding
===================================================================================
= BAD TERMINATION OF ONE OF YOUR APPLICATION PROCESSES = PID 8520 RUNNING AT borgl189 = EXIT CODE: 139 = CLEANING UP REMAINING PROCESSES = YOU CAN IGNORE THE BELOW CLEANUP MESSAGES ===================================================================================
YOUR APPLICATION TERMINATED WITH THE EXIT STRING: Segmentation fault (signal 11) This typically refers to a problem with your application. Please see the FAQ page for debugging suggestions
All righty then.
Does anyone have advice for this? I'll fully accept I configured MPICH3 wrong as it's the first time in a while I've built MPICH (think MPICH2). But, still, I don't have any exciting flags.
Matt
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-- Matt Thompson, SSAI, Sr Scientific Programmer/Analyst NASA GSFC, Global Modeling and Assimilation Office Code 610.1, 8800 Greenbelt Rd, Greenbelt, MD 20771 Phone: 301-614-6712 Fax: 301-614-6246 http://science.gsfc.nasa.gov/sed/bio/matthew.thompson _______________________________________________ discuss mailing list [email protected] To manage subscription options or unsubscribe: https://lists.mpich.org/mailman/listinfo/discuss
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Thompson, Matt (GSFC-610.1)[SCIENCE SYSTEMS AND APPLICATIONS INC]