Re: Re: Installing NAMD 2.6 on SMP machine... charm++ install errors

From: Claudio Redaelli (redaelli_at_cscs.ch)
Date: Fri Jul 06 2007 - 04:14:39 CDT

I got it running on:

* IBM P575 (LoP):
   - 768 CPUs: IBM Power5 1.5 GHz - ppc64
   - OS: Linux SLES9
   - NET: INFINIBAND 4x
   - F90: IBM Xlf 10.1.0-3
   - C/C++: IBM Xlc (vac) 8.0.0-3
   - GCC: 3.3.3
   - MPI: IBM POE 4.3

using the enclosed arch files (modify them as your convenience)

Arun Krishnan wrote:
> I tried again using simply mpi-linux, and this time, it progressed further
> but I ran up against the following error:
>
> Warning: creating ../../../../lib_so/libmoduleCkMulticast.so
> ar: creating ../../../../lib/libmoduleCkMulticast.a
> /bin/cp CkMulticast.decl.h ../../../../include
> /bin/cp CkMulticast.def.h ../../../../include
> /bin/cp ckmulticast.h ../../../../include
> gmake[2]: Leaving directory `/home/arun/NAMD_2.6_Source/charm-5.9
> /mpi-linux/tmp/libs/ck-libs/multicast'
> ../bin/charmc -c -I. ComlibManager.C
> MsgPacker.h:86: error: extra qualification 'MsgPacker::' on member
> 'MsgPacker'
> mpiCC: No such file or directory
> Fatal Error by charmc in directory /home/arun/NAMD_2.6_Source/charm-5.9
> /mpi-linux/tmp
> Command mpiCC -I../bin/../include -D__CHARMC__=1 -I. -c ComlibManager.C-o
> ComlibManager.o returned error code 1
> charmc exiting...
> gmake[1]: *** [ComlibManager.o] Error 1
> gmake[1]: Leaving directory `/home/arun/NAMD_2.6_Source/charm-5.9
> /mpi-linux/tmp'
> gmake: *** [charm++] Error 2
> -------------------------------------------------
>
> Looks like it can't find mpiCC for some reason. Do I need to specify it
> somewhere?
>
> Thanks,
>
> Arun
>
> On 7/6/07, Arun Krishnan <krishnan_at_ttck.keio.ac.jp> wrote:
>>
>> Hi,
>>
>> I am trying to install NAMD 2.6 on an 8-way, p650 (ppc64) IBM machine
>> running Linux. I
>> While trying to install charm++, I ran into compile errors and was
>> wondering if someone could help me out here.
>>
>> I used
>>
>> ./build charm++ mpi-linux-axp -O
>>
>> but got the following errors:
>>
>> gmake[3]: Entering directory `/home/arun/NAMD_2.6_Source/charm- 5.9
>> /mpi-linux-axp/tmp/QuickThreads'
>> rm -f qtmd.h
>> ln -s md/axp.h qtmd.h
>> cc -std1 -D__AXP__ -D__OSF1__ -I. -c -o qt.o qt.c
>> cc1: error: unrecognized command line option "-std1"
>> gmake[3]: *** [qt] Error 1
>> gmake[3]: Leaving directory `/home/arun/NAMD_2.6_Source/charm-5.9
>> /mpi-linux-axp/tmp/QuickThreads'
>> gmake[2]: *** [QuickThreads/libqt.a] Error 2
>> gmake[2]: Leaving directory `/home/arun/NAMD_2.6_Source/charm- 5.9
>> /mpi-linux-axp/tmp'
>> gmake[1]: *** [converse] Error 2
>> gmake[1]: Leaving directory `/home/arun/NAMD_2.6_Source/charm-5.9
>> /mpi-linux-axp/tmp'
>> gmake: *** [charm++] Error 2
>> -------------------------------------------------
>> Charm++ NOT BUILT. Either cd into mpi-linux-axp/tmp and try
>> to resolve the problems yourself, visit
>>
>>
>> I have OpenMPI installed on this machine but I suppose since it is an smp
>> machine, this would not be required? I also tried
>> net-linux-axp. I get the same errors.
>>
>> Can someone please let me know as to what I am doing wrong?
>>
>> Thanks,
>>
>> Arun
>>
>>
>> --
>> ***********************************************
>> Arun Krishnan, Ph.D,
>> Assistant Professor,
>> Institute for Advanced Biosciences,
>> Keio University,
>> Center Building,
>> Tsuruoka, Yamagata 997-0035
>> Japan
>> Phone: +81 (0)235-29-0824
>> Email: krishnan_at_ttck.keio.ac.jp
>> URL: http://www.iab.keio.ac.jp/~krishnan
>> <http://www.iab.keio.ac.jp/%7Ekrishnan>
>> **********************************************
>
>
>
>

-- 
Claudio Redaelli
HPC Application Analyst
CSCS - Swiss National SuperComputing Centre
Via Cantonale, CH-6928 Manno, Switzerland
Tel: +41(91)610 8241
Fax: +41(91)610 8282
mailto:redaelli_at_cscs.ch
http://www.cscs.ch/~redaelli/

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