| 86 |
|
int useGB; |
| 87 |
|
int useEAM; |
| 88 |
|
|
| 89 |
+ |
bool useInitXSstate; |
| 90 |
+ |
double orthoTolerance; |
| 91 |
|
|
| 92 |
|
double dt, run_time; // the time step and total time |
| 93 |
|
double sampleTime, statusTime; // the position and energy dump frequencies |
| 139 |
|
void getBoxM( double theBox[3][3] ); |
| 140 |
|
void scaleBox( double scale ); |
| 141 |
|
|
| 140 |
– |
void setRcut( double theRcut ); |
| 142 |
|
void setDefaultRcut( double theRcut ); |
| 142 |
– |
void setEcr( double theEcr ); |
| 143 |
|
void setDefaultEcr( double theEcr ); |
| 144 |
– |
void setEcr( double theEcr, double theEst ); |
| 144 |
|
void setDefaultEcr( double theEcr, double theEst ); |
| 145 |
+ |
void checkCutOffs( void ); |
| 146 |
|
|
| 147 |
|
double getRcut( void ) { return rCut; } |
| 148 |
|
double getRlist( void ) { return rList; } |
| 183 |
|
|
| 184 |
|
SimState* myConfiguration; |
| 185 |
|
|
| 186 |
< |
double origRcut, origEcr; |
| 187 |
< |
int boxIsInit, haveOrigRcut, haveOrigEcr; |
| 186 |
> |
int boxIsInit, haveRcut, haveEcr; |
| 187 |
|
|
| 189 |
– |
double oldEcr; |
| 190 |
– |
double oldRcut; |
| 191 |
– |
|
| 188 |
|
double rList, rCut; // variables for the neighborlist |
| 189 |
|
double ecr; // the electrostatic cutoff radius |
| 190 |
|
double est; // the electrostatic skin thickness |
| 193 |
|
double distXY; |
| 194 |
|
double distYZ; |
| 195 |
|
double distZX; |
| 196 |
+ |
|
| 197 |
+ |
|
| 198 |
|
|
| 199 |
|
void calcHmatInv( void ); |
| 200 |
|
void calcBoxL(); |
| 201 |
|
double calcMaxCutOff(); |
| 204 |
– |
void checkCutOffs( void ); |
| 202 |
|
|
| 203 |
+ |
|
| 204 |
|
// private function to initialize the fortran side of the simulation |
| 205 |
|
setFortranSim_TD setFsimulation; |
| 206 |
|
|