[gmx-users] gettin a amorhous system??

pushyami atluri shims88 at yahoo.co.in
Tue May 22 15:28:56 CEST 2007


hey,
  i am trying to simulate zirconia and i have mentioned my efforts before.
 when i am trying to simulate a simple 4nm particle at the end of the run i get a amorphous system.same thing when i am trying for a 10nm particle the run takes a pretttttyyyyyyy long  time to even start.the 4nm particle run finishes in 20 min and for the 10nm it doesnt even start in 40 minutes.so can u pleasee tell me what can be the problem..is it just the processor speed or t values of forces going bersek because i get a amorphous system at the end???
 here is my topology.
 thanx a lot in advance.
 ;topology file 
 [ defaults ] 
  ; nbfunc        comb-rule       gen-pairs       fudgeLJ fudgeQQ 
   2             1               no              1.0     1.0                           
 [ atomtypes ] 
 ;name        mass      charge   ptype            c6           c12 
    OX        15.99940     -1.30     A  2348.3193  0.0547148  51.712e-28
    ZR        91.22420      2.70     A  0.0000000  0.0000000  0.0000000 
 [ nonbond_params ] 
   ; i    j func           a             b    c6 
    OX   OX    2    2348.3193       0.0547148       51.712e-28 
    ZR    OX    2    9.512e+04       0.0376000       0.0000000
 ;   ZR   ZR    2    0.0000000       1.0000000       0.0000000 
 [ moleculetype ] 
  ZR 3 
  
 [ atoms ] 
      1         ZR      1     DP     ZR      1      -1.3    91.22420 
  
 [ moleculetype ] 
  OX 3 
  
 [ atoms ] 
      1         OX      1     DP     OX      2       2.7    15.99940 
  
 [ system ] 
 ZIRCONIA 
  
 [ molecules ] 
 ZR  7932 
 OX 15835   
  
 
 
       
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