q=D8=B8=B4=A3=BA=20Re:=20=20nodelist=20being=20ignore?= d during paralleling

From: cong chen (namd_chcwaaa_at_yahoo.com.cn)
Date: Sun Apr 27 2008 - 21:50:34 CDT

Hi, Victor,
    Thank you for your reply.
    Unfortunately, I tried but failed. Following error messages are printed:
  ************************************************************************************
    Warning: Command line arguments for program should be given after the program name.
    Unrecognized argument ++nodelist ignored.
    ***********************************************************************************
   
    

Victor Ovchinnikov <ovchinnv_at_MIT.EDU> д
  Cong,
Did you also try

./charmrun +p2 ++nodelist $nodefile ./namd2 $configfile >$outfile

?

Victor

On Sun, 2008-04-27 at 11:24 +0800, cong chen wrote:
> Dear all,
> The code runs successfully on single processor. And it works well
> without "++nodelist" option on multi processors with the command
> "./charmrun ./namd2 +p2 >$outfile".
> There are totally 64 clusters named C0101, C0102,C0103 and so on. The
> code aotomatically runs on clusters C0101 and C0102 (I submit the job
> on this cluster). I want to run the job on clusters C0104 and C0105,
> what should I do?
> I submit the job on cluster C0104 and the code will run on clusters
> C0101 and C0104. I use the ++nodelist option in the command line
> following the notes of namd. However, NAMD ignored this option and
> recognized the node file as the configuration file. The command is:
> ./charmrun +p2 ./namd2 ++nodelist $nodefile $configfile >$outfile
> I have tried to change the order of these options but it improved
> nothing.
> By the way, the ++verbose option has also been ignored by NAMD. I
> wonder does the code have NOT been installed correctly?
> I have run the code on a linux clusters and I compiled NAMD with MPI
> and icc.
> If someone could give me some advice, I would be most appreciative.
> The error messages are listed below:
> ****************************************************************************************
> Running on 2 processors: ./namd2 +nodelist=nodelist-giw-1.09-220.txt
> ice-glycerol-1.09-cool-220.conf
> Info: NAMD 2.6 for Linux-i686-MPI
> Info:
> Info: Please visit http://www.ks.uiuc.edu/Research/namd/
> Info: and send feedback or bug reports to namd_at_ks.uiuc.edu
> Info:
> Info: Please cite Phillips et al., J. Comp. Chem. 26:1781-1802 (2005)
> Info: in all publications reporting results obtained with NAMD.
> Info:
> Info: Based on Charm++/Converse 50900 for mpi-linux-icc
> Info: Built һ 1 7 17:39:49 CST 2008 by chencong on console
> Info: 1 NAMD 2.6 Linux-i686-MPI 2 c0325 chencong
> Info: Running on 2 processors.
> Info: 1412 kB of memory in use.
> Info: Memory usage based on mallinfo
> Info: Found 2 config files.
> Info: Configuration file is +nodelist=nodelist-giw-1.09-220.txt
> FATAL ERROR: Simulation config file is not accessible.
> p0_6540: p4_error: : 1
> ********************************************************************************************
>
>
> Best Regards!
>
> yours,
> Cong Chen
>
> ********************************************************************************************
> Cong Chen, Ph. D. Student
> Department of Energy and Power Engineering,DaLian University of
> Technology
> Road LingGong 2#, Dalian 116024, P. R. China
> Phone:13500704965
> MSN:chencongboy2008_at_hotmial.com
> QQ:258021022
> ********************************************************************************************
>
>
> ______________________________________________________________________
> Ż䣬䣡

Best Regards!
 
yours,
Cong Chen
 
********************************************************************************************
Cong Chen, Ph. D. Student
Department of Energy and Power Engineering,DaLian University of Technology
Road LingGong 2#, Dalian 116024, P. R. China
Phone:13500704965
MSN:chencongboy2008_at_hotmial.com
QQ:258021022
********************************************************************************************

       
---------------------------------
 Ż䣬䣡

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