| 26 | 
  | 
SimInfo::SimInfo(){ | 
| 27 | 
  | 
  excludes = NULL; | 
| 28 | 
  | 
  n_constraints = 0; | 
| 29 | 
+ | 
  nZconstraints = 0; | 
| 30 | 
  | 
  n_oriented = 0; | 
| 31 | 
  | 
  n_dipoles = 0; | 
| 32 | 
  | 
  ndf = 0; | 
| 33 | 
  | 
  ndfRaw = 0; | 
| 34 | 
+ | 
  nZconstraints = 0; | 
| 35 | 
  | 
  the_integrator = NULL; | 
| 36 | 
  | 
  setTemp = 0; | 
| 37 | 
  | 
  thermalTime = 0.0; | 
| 38 | 
  | 
  currentTime = 0.0; | 
| 39 | 
  | 
  rCut = 0.0; | 
| 40 | 
+ | 
  origRcut = -1.0; | 
| 41 | 
  | 
  ecr = 0.0; | 
| 42 | 
+ | 
  origEcr = -1.0; | 
| 43 | 
  | 
  est = 0.0; | 
| 44 | 
  | 
  oldEcr = 0.0; | 
| 45 | 
  | 
  oldRcut = 0.0; | 
| 366 | 
  | 
  ndf = ndf_local; | 
| 367 | 
  | 
#endif | 
| 368 | 
  | 
 | 
| 369 | 
< | 
  ndf = ndf - 3; | 
| 369 | 
> | 
  ndf = ndf - 3 - nZconstraints; | 
| 370 | 
  | 
 | 
| 371 | 
  | 
  return ndf; | 
| 372 | 
  | 
} | 
| 599 | 
  | 
  return result; | 
| 600 | 
  | 
} | 
| 601 | 
  | 
 | 
| 602 | 
+ | 
double SimInfo::matTrace3(double m[3][3]){ | 
| 603 | 
+ | 
  double trace; | 
| 604 | 
+ | 
  trace = m[0][0] + m[1][1] + m[2][2]; | 
| 605 | 
  | 
 | 
| 606 | 
+ | 
  return trace; | 
| 607 | 
+ | 
} |