Charm++ parallel programming system

["Jain, Nikhil" <nikhil AT illinois.edu>]

Ah, my bad, I dint notice the hp* missing calls. It appears to me that a mix up between openMPI and HP-MPI is causing the trouble. Given that compilation was done with openMPI, it should not be requesting function calls found in HP-MPI. One possible reason can be inclusion of mpi.h from HP-MPI during Charm compilation. Possible things to try-

1. Check you PATH environment variable, and confirm that openMPI is included before HP-MPI.

2. Try passing --basedir=/shared/openmpi-1.6.4 to build command for Charm: this will include -I/shared/openmpi-1.6.4/include and -L/shared/openmpi-1.6.4/lib during compilation of Charm.

--Nikhil

--

Nikhil Jain, nikhil AT illinois.edu, http://charm.cs.uiuc.edu/people/nikhil

Doctoral Candidate @ CS, UIUC

 

From: Dimar Jaime González Soto <dimar.gonzalez.soto AT gmail.com>
Date: Monday, March 18, 2013 7:07 PM
To: Nikhil Jain <nikhil AT illinois.edu>
Cc: "charm AT cs.illinois.edu" <charm AT cs.illinois.edu>
Subject: Re: [charm] make pgm error
Resent-From: Nikhil Jain <nikhil AT illinois.edu>
Resent-Date: Mon, 18 Mar 2013 19:07:42 -0500

The LD_LIBRARY_PATH environment variable is properly configured in the .bashrc file:

LD_LIBRARY_PATH=/shared/openmpi-1.6.4/lib:/opt/platform_mpi/lib/linux_amd64:$LD_LIBRARY_PATH

2013/3/18 Jain, Nikhil <nikhil AT illinois.edu>

It appears that your MPI library is not in the linker path, and hence ld is not able to locate any of the functions required from MPI. Can you check the LD_LIBRARY_PATH environment variable.

--Nikhil

--

Nikhil Jain, nikhil AT illinois.edu, http://charm.cs.uiuc.edu/people/nikhil

Doctoral Candidate @ CS, UIUC

 

From: Dimar Jaime González Soto <dimar.gonzalez.soto AT gmail.com>

Date: Monday, March 18, 2013 3:56 PM
To: Nikhil Jain <nikhil AT illinois.edu>, "charm AT cs.illinois.edu" <charm AT cs.illinois.edu>
Subject: Re: [charm] make pgm error
Resent-From: Nikhil Jain <nikhil AT illinois.edu>
Resent-Date: Mon, 18 Mar 2013 15:56:23 -0500

Thanks for the response Jain, as a like before I builded charm successfully.  I use the follow commmand line to build charm:

MPICXX=/shared/openmpi-1.6.4/bin/mpicxx ./build charm++ mpi-linux-x86_64 --with-production

next I go to:

cd mpi-linux-x86_64/tests/charm++/megatest

and write:

make pgm

the output:

../../../bin/../lib/libconv-cplus-y.a(machine.o): In function `CmiReplicaRecv':

machine.c:(.text+0x5d): undefined reference to `hpmp_byte'

../../../bin/../lib/libconv-cplus-y.a(machine.o): In function `CmiReplicaSend':

machine.c:(.text+0x84): undefined reference to `hpmp_byte'

../../../bin/../lib/libconv-cplus-y.a(machine.o): In function `CmiBarrierZero':

machine.c:(.text+0xe3): undefined reference to `hpmp_byte'

machine.c:(.text+0x14f): undefined reference to `hpmp_byte'

../../../bin/../lib/libconv-cplus-y.a(machine.o): In function `CmiReplicaSendrecv':

machine.c:(.text+0x36e): undefined reference to `hpmp_byte'

../../../bin/../lib/libconv-cplus-y.a(machine.o):machine.c:(.text+0x78a): more undefined references to `hpmp_byte' follow

../../../bin/../lib/libconv-cplus-y.a(machine.o): In function `CmiTimerInit':

machine.c:(.text+0xc1c): undefined reference to `hpmp_min'

machine.c:(.text+0xc23): undefined reference to `hpmp_double'

../../../bin/../lib/libconv-cplus-y.a(machine.o): In function `ConverseInit':

machine.c:(.text+0x11f4): undefined reference to `hpmp_comm_world'

machine.c:(.text+0x1328): undefined reference to `hpmp_comm_world'

machine.c:(.text+0x1471): undefined reference to `hpmp_comm_world'

machine.c:(.text+0x1482): undefined reference to `hpmp_comm_self'

../../../bin/../lib/libconv-cplus-y.a(machine.o): In function `CmiNotifyIdleForMPI':

machine.c:(.text+0x192f): undefined reference to `hpmp_byte'

machine.c:(.text+0x1961): undefined reference to `hpmp_byte'

collect2: ld returned 1 exit status

Fatal Error by charmc in directory /home/hpcadmin/software/NAMD_2.9_Source/charm-6.4.0/mpi-linux-x86_64/tests/charm++/megatest

   Command /shared/openmpi-1.6.4/bin/mpicxx -m64 -fPIC -DCMK_GFORTRAN -rdynamic -o pgm -L../../../bin/../lib -I../../../bin/../include ../../../bin/../lib/libldb-rand.o megatest.o groupring.o nodering.o varsizetest.o varsizetest2.o varraystest.o groupcast.o groupmulti.o groupsectiontest.o multisectiontest.o nodecast.o synctest.o fib.o arrayring.o tempotest.o packtest.o queens.o migration.o marshall.o priomsg.o priotest.o rotest.o statistics.o templates.o inherit.o reduction.o bitvector.o immediatering.o callback.o inlineem.o completion_test.o moduleinit10933.o -lmodulecompletion ../../../bin/../lib/libmemory-default.o ../../../bin/../lib/libthreads-default.o -lck -lconv-cplus-y -lconv-core -lconv-util -lckqt -ldl -lmodulecompletion -lm returned error code 1

charmc exiting...

2013/3/18 Jain, Nikhil <nikhil AT illinois.edu>

Hi Dimar,

Unless I missed it completely, what you had pasted did not indicate why linking failed. Are you able to compile simple Charm++ program such as in $(CHARMDIR)/examples/charm++/hello. If yes, my suspects will be the location of fft/tcl installations. It will be helpful  if you can look at the error output again, and see if there is a print about why the linking failed. Also, can you paste the ./config command you had used for building NAMD.

--Nikhil

--

Nikhil Jain, nikhil AT illinois.edu, http://charm.cs.uiuc.edu/people/nikhil

Doctoral Candidate @ CS, UIUC

 

From: Dimar Jaime González Soto <dimar.gonzalez.soto AT gmail.com>
Date: Monday, March 18, 2013 9:01 AM
To: "charm AT cs.illinois.edu" <charm AT cs.illinois.edu>
Subject: [charm] make pgm error
Resent-From: Nikhil Jain <nikhil AT illinois.edu>
Resent-Date: Mon, 18 Mar 2013 09:23:23 -0500

Dimar González Soto

--
Atte.

Dimar González Soto

Ingeniero Civil en Informática

Universidad Austral de Chile

F:+056-63-293858
www.australomics.cl

--
Atte.

Dimar González Soto

Ingeniero Civil en Informática

Universidad Austral de Chile

F:+056-63-293858
www.australomics.cl