Hi,
Here's what I have:
$ uname -a
Linux TIE1 2.6.31-14-generic #48-Ubuntu SMP Fri Oct 16 14:05:01 UTC
2009 x86_64 GNU/Linux
$ gfortran --version
GNU Fortran (Ubuntu 4.4.1-4ubuntu9) 4.4.1
$ gcc --version
gcc (Ubuntu 4.4.1-4ubuntu9) 4.4.1
$ mpirun --version
mpirun (Open MPI) 1.3.2
The serial version works just fine. I only see this with the parallel
version. The machine is a dual core AMD Athlon(tm) II X2 B22
Processor 800MHz, and I was running the tests with 4 mpi processes.
Thanks,
Gustavo.
On Fri, May 7, 2010 at 10:46 PM, Daniel Roe wrote:
> I personally havent seen this before. What compiler(s) are you using, and
> what MPI implementation?
>
> -Dan
>
> On Fri, May 7, 2010 at 2:14 PM, Gustavo Seabra <gustavo.seabra.gmail.com>wrote:
>
>> Hi All,
>>
>> I have compiled and tested Amber11 (release version) serial with no
>> problems on Ubuntu 9.10. Now, when I try the parallel version, it
>> compiles fine but some tests just stall. The processes keep running
>> (from "top" I can stil see the sander.MPI processes using all the
>> processor they need), but the calculation never advances.
>>
>> Which test will be a problem is random: I had with PIMD, then when I
>> try again it happens with QM tests, then something else, etc.
>>
>> I have found the following message on the archives:
>> http://structbio.vanderbilt.edu/archives/amber-archive/2009/5928.php
>>
>> But with no replies.
>>
>> Does anyone else experience such problems?
>>
>> Thanks,
>>
>> --
>> Gustavo Seabra
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Received on Mon May 10 2010 - 12:00:08 PDT
