Also, please be aware that we haven't done any testing of OMPI on Lion, so this
is truly new ground.
On Aug 9, 2011, at 3:00 PM, Doug Reeder wrote:
> Matt,
>
> Are you sure you are building against your macports version of openmpi and
> not the one that ships w/ lion. In the trace back are items 4-9, that end w/
> x86_64pg from the pgi compiler. You said you are using pgf90 and pgcc but in
> the configure input it looks like gcc is being used on lion.
>
> Doug Reeder
> On Aug 9, 2011, at 1:49 PM, Matthew Russell wrote:
>
>>
>> Hi,
>>
>> I'm trying to run CMAQ - an air quality model developed by the US EPA - on a
>> Mac (Lion) using OpenMPI (1.5.3) installed with MacPorts.
>>
>> I am able to run CMAQ in parallel, and am able to run small programs that
>> use OpenMPI.
>>
>> I set the OpenMPI environment variables to use pgf90/pgcc (10.9) as my
>> compiler. Using PGI because some of the code I need to build is fortran 77
>> ( *sigh* ), and for some other reasons.
>>
>> The error I get is:
>>
>> /opt/local/lib/openmpi/bin/mpirun -v -machinefile
>> /Users/matt/cmaq/darwin11/scripts/cctm/machines8 -np 2
>> /Users/matt/cmaq/darwin11/scripts/cctm/CCTM_e1a_Darwin11_x86_64pg
>> [pontus:72547] *** Process received signal ***
>> [pontus:72547] Signal: Segmentation fault: 11 (11)
>> [pontus:72547] Signal code: Address not mapped (1)
>> [pontus:72547] Failing at address: 0x0
>> [pontus:72547] [ 0] 2 libsystem_c.dylib
>> 0x00007fff91065cfa _sigtramp + 26
>> [pontus:72547] [ 1] 3 ???
>> 0x00007fff5fbe58ab 0x0 + 140734799698091
>> [pontus:72547] [ 2] 4 CCTM_e1a_Darwin11_x86_64pg
>> 0x000000010003c89b distr_env_ + 971
>> [pontus:72547] [ 3] 5 CCTM_e1a_Darwin11_x86_64pg
>> 0x000000010003cbe5 par_init_ + 565
>> [pontus:72547] [ 4] 6 CCTM_e1a_Darwin11_x86_64pg
>> 0x0000000100032e1b MAIN_ + 219
>> [pontus:72547] [ 5] 7 CCTM_e1a_Darwin11_x86_64pg
>> 0x00000001000016f6 main + 70
>> [pontus:72547] [ 6] 8 CCTM_e1a_Darwin11_x86_64pg
>> 0x000000010000163a _start + 248
>> [pontus:72547] [ 7] 9 CCTM_e1a_Darwin11_x86_64pg
>> 0x0000000100001541 start + 33
>> [pontus:72547] [ 8] 10 ???
>> 0x0000000000000001 0x0 + 1
>> [pontus:72547] *** End of error message ***
>> --------------------------------------------------------------------------
>> mpirun noticed that process rank 1 with PID 72547 on node
>> pontus.cee.carleton.ca exited on signal 11 (Segmentation fault: 11).
>> --------------------------------------------------------------------------
>>
>> I don't expect anyone to know the solution from this brief error message,
>> however I was wondering if anyone has insight on how I might debug this? I
>> am too new to both OpenMPI and CMAQ to be served that well from this
>> traceback.
>>
>> I'm told by others in my research group that CMAQ with OpenMPI on Linux
>> works fine, and that the error I'm getting is very similar to the error
>> others got when trying this on a Mac (Snow Leopard) with ifort.. before they
>> gave up...
>>
>> OpenMPI was configured with:
>> configure.args --sysconfdir=${prefix}/etc/${name} \
>> --includedir=${prefix}/include/${name} \
>> --bindir=${prefix}/lib/${name}/bin \
>> --mandir=${prefix}/share/man \
>> --with-memory-manager=none
>>
>> # enable build on Lion
>> if {$os.major} >= 11} {
>> configure.compiler gcc-4.2
>> }
>>
>> The --with-memory-manager is there because I saw it fix potentially similar
>> problems in other postings to this Mailing list. It didn't make a
>> difference though.
>>
>> Thanks!
>>
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