/************************************************************************************************************* The MIT License Copyright (C) 2006-2019 David Dubbeldam, Sofia Calero, Thijs Vlugt, Donald E. Ellis, and Randall Q. Snurr. D.Dubbeldam@uva.nl http://www.uva.nl/profiel/d/u/d.dubbeldam/d.dubbeldam.html scaldia@upo.es http://www.upo.es/raspa/ t.j.h.vlugt@tudelft.nl http://homepage.tudelft.nl/v9k6y don-ellis@northwestern.edu http://dvworld.northwestern.edu/ snurr@northwestern.edu http://zeolites.cqe.northwestern.edu/ Permission is hereby granted, free of charge, to any person obtaining a copy of this software and associated documentation files (the "Software"), to deal in the Software without restriction, including without limitation the rights to use, copy, modify, merge, publish, distribute, sublicense, and/or sell copies of the Software, and to permit persons to whom the Software is furnished to do so, subject to the following conditions: The above copyright notice and this permission notice shall be included in all copies or substantial portions of the Software. THE SOFTWARE IS PROVIDED "AS IS", WITHOUT WARRANTY OF ANY KIND, EXPRESS OR IMPLIED, INCLUDING BUT NOT LIMITED TO THE WARRANTIES OF MERCHANTABILITY, FITNESS FOR A PARTICULAR PURPOSE AND NONINFRINGEMENT. IN NO EVENT SHALL THE AUTHORS OR COPYRIGHT HOLDERS BE LIABLE FOR ANY CLAIM, DAMAGES OR OTHER LIABILITY, WHETHER IN AN ACTION OF CONTRACT, TORT OR OTHERWISE, ARISING FROM, OUT OF OR IN CONNECTION WITH THE SOFTWARE OR THE USE OR OTHER DEALINGS IN THE SOFTWARE. **************************************************************************************************************/ #ifdef HAVE_CONFIG_H #include #endif #include #include #include #include #include #include "constants.h" #include "molecule.h" #include "framework.h" #include "framework_energy.h" #include "framework_force.h" #include "simulation.h" #include "ewald.h" #include "potentials.h" #include "utils.h" #include "output.h" #include "cbmc.h" #include "mc_moves.h" #include "grids.h" #include "spacegroup.h" #include "spectra.h" #include "rigid.h" #include "minimization.h" #include "internal_hessian.h" #include "numerical.h" void CalculateDerivativesAtPositionVDW(VECTOR pos,int typeA,REAL *value,VECTOR *first_derivative, REAL_MATRIX3x3 *second_derivative,REAL *third_derivative) { int i,f; int typeB; VECTOR dr; REAL rr,F,DF,DDF,DDDF; *value=0; first_derivative->x=0.0; first_derivative->y=0.0; first_derivative->z=0.0; second_derivative->ax=second_derivative->bx=second_derivative->cx=0.0; second_derivative->ay=second_derivative->by=second_derivative->cy=0.0; second_derivative->az=second_derivative->bz=second_derivative->cz=0.0; *third_derivative=0.0; for(f=0;fx+=dr.x*DF; first_derivative->y+=dr.y*DF; first_derivative->z+=dr.z*DF; // add contribution to the second derivatives (Hessian matrix) second_derivative->ax+=DDF*dr.x*dr.x+DF; second_derivative->bx+=DDF*dr.y*dr.x; second_derivative->cx+=DDF*dr.z*dr.x; second_derivative->ay+=DDF*dr.x*dr.y; second_derivative->by+=DDF*dr.y*dr.y+DF; second_derivative->cy+=DDF*dr.z*dr.y; second_derivative->az+=DDF*dr.x*dr.z; second_derivative->bz+=DDF*dr.y*dr.z; second_derivative->cz+=DDF*dr.z*dr.z+DF; *third_derivative+=DDDF*dr.x*dr.y*dr.z; } } } } REAL CalculateDerivativesAtPositionReal(VECTOR pos,int typeA,REAL *value,VECTOR *first_derivative, REAL_MATRIX3x3 *second_derivative,REAL *third_derivative) { int i,f; int typeB; VECTOR dr; REAL ChargeA,ChargeB; REAL r,rr,F,DF,DDF,DDDF; REAL smallest_r; *value=0; first_derivative->x=0.0; first_derivative->y=0.0; first_derivative->z=0.0; second_derivative->ax=second_derivative->bx=second_derivative->cx=0.0; second_derivative->ay=second_derivative->by=second_derivative->cy=0.0; second_derivative->az=second_derivative->bz=second_derivative->cz=0.0; *third_derivative=0.0; ChargeA=1.0; smallest_r=DBL_MAX; for(f=0;fx+=dr.x*DF; first_derivative->y+=dr.y*DF; first_derivative->z+=dr.z*DF; // add contribution to the second derivatives (Hessian matrix) second_derivative->ax+=DDF*dr.x*dr.x+DF; second_derivative->bx+=DDF*dr.y*dr.x; second_derivative->cx+=DDF*dr.z*dr.x; second_derivative->ay+=DDF*dr.x*dr.y; second_derivative->by+=DDF*dr.y*dr.y+DF; second_derivative->cy+=DDF*dr.z*dr.y; second_derivative->az+=DDF*dr.x*dr.z; second_derivative->bz+=DDF*dr.y*dr.z; second_derivative->cz+=DDF*dr.z*dr.z+DF; *third_derivative+=DDDF*dr.x*dr.y*dr.z; } } } return smallest_r; } // Hessian: Center of mass - Center of mass // ======================================== static inline void HessianAtomicPositionPosition(REAL_MATRIX HessianMatrix,INT_VECTOR3 index_i,INT_VECTOR3 index_j,REAL f1,REAL f2,VECTOR dr,REAL ReplicaFactor) { REAL_MATRIX3x3 Hessian; Hessian.ax=f2*dr.x*dr.x+f1; Hessian.bx=f2*dr.y*dr.x; Hessian.cx=f2*dr.z*dr.x; Hessian.ay=f2*dr.x*dr.y; Hessian.by=f2*dr.y*dr.y+f1; Hessian.cy=f2*dr.z*dr.y; Hessian.az=f2*dr.x*dr.z; Hessian.bz=f2*dr.y*dr.z; Hessian.cz=f2*dr.z*dr.z+f1; if(Framework[CurrentSystem].FrameworkModel==FLEXIBLE) { if((index_i.x>=0)&&(index_i.x>=0)) HessianMatrix.element[index_i.x][index_i.x]+=ReplicaFactor*Hessian.ax; if((index_i.x>=0)&&(index_i.y>=0)) HessianMatrix.element[index_i.x][index_i.y]+=ReplicaFactor*Hessian.ay; if((index_i.x>=0)&&(index_i.z>=0)) HessianMatrix.element[index_i.x][index_i.z]+=ReplicaFactor*Hessian.az; if((index_i.y>=0)&&(index_i.y>=0)) HessianMatrix.element[index_i.y][index_i.y]+=ReplicaFactor*Hessian.by; if((index_i.y>=0)&&(index_i.z>=0)) HessianMatrix.element[index_i.y][index_i.z]+=ReplicaFactor*Hessian.bz; if((index_i.z>=0)&&(index_i.z>=0)) HessianMatrix.element[index_i.z][index_i.z]+=ReplicaFactor*Hessian.cz; } if((index_j.x>=0)&&(index_j.x>=0)) HessianMatrix.element[index_j.x][index_j.x]+=ReplicaFactor*Hessian.ax; if((index_j.x>=0)&&(index_j.y>=0)) HessianMatrix.element[index_j.x][index_j.y]+=ReplicaFactor*Hessian.ay; if((index_j.x>=0)&&(index_j.z>=0)) HessianMatrix.element[index_j.x][index_j.z]+=ReplicaFactor*Hessian.az; if((index_j.y>=0)&&(index_j.y>=0)) HessianMatrix.element[index_j.y][index_j.y]+=ReplicaFactor*Hessian.by; if((index_j.y>=0)&&(index_j.z>=0)) HessianMatrix.element[index_j.y][index_j.z]+=ReplicaFactor*Hessian.bz; if((index_j.z>=0)&&(index_j.z>=0)) HessianMatrix.element[index_j.z][index_j.z]+=ReplicaFactor*Hessian.cz; if(Framework[CurrentSystem].FrameworkModel==FLEXIBLE) { if((index_i.x>=0)&&(index_j.x>=0)) HessianMatrix.element[index_i.x][index_j.x]-=Hessian.ax; if((index_i.x>=0)&&(index_j.y>=0)) HessianMatrix.element[index_i.x][index_j.y]-=Hessian.ay; if((index_i.x>=0)&&(index_j.z>=0)) HessianMatrix.element[index_i.x][index_j.z]-=Hessian.az; if((index_i.y>=0)&&(index_j.x>=0)) HessianMatrix.element[index_i.y][index_j.x]-=Hessian.ay; if((index_i.y>=0)&&(index_j.y>=0)) HessianMatrix.element[index_i.y][index_j.y]-=Hessian.by; if((index_i.y>=0)&&(index_j.z>=0)) HessianMatrix.element[index_i.y][index_j.z]-=Hessian.bz; if((index_i.z>=0)&&(index_j.x>=0)) HessianMatrix.element[index_i.z][index_j.x]-=Hessian.az; if((index_i.z>=0)&&(index_j.y>=0)) HessianMatrix.element[index_i.z][index_j.y]-=Hessian.bz; if((index_i.z>=0)&&(index_j.z>=0)) HessianMatrix.element[index_i.z][index_j.z]-=Hessian.cz; } } // Hessian: Center of mass - Orientation // ===================================== static inline void HessianCenterOfMassOrientationJ(REAL_MATRIX HessianMatrix,INT_VECTOR3 index_i,INT_VECTOR3 index_j,INT_VECTOR3 index_j2,int index2,REAL f1,REAL f2,VECTOR dr) { REAL_MATRIX3x3 Hessian; VECTOR vecj1,vecj2,vecj3; vecj1=DVecX[index2]; vecj2=DVecY[index2]; vecj3=DVecZ[index2]; Hessian.ax=f2*(dr.x*vecj1.x+dr.y*vecj1.y+dr.z*vecj1.z)*dr.x+f1*vecj1.x; Hessian.ay=f2*(dr.x*vecj2.x+dr.y*vecj2.y+dr.z*vecj2.z)*dr.x+f1*vecj2.x; Hessian.az=f2*(dr.x*vecj3.x+dr.y*vecj3.y+dr.z*vecj3.z)*dr.x+f1*vecj3.x; Hessian.bx=f2*(dr.x*vecj1.x+dr.y*vecj1.y+dr.z*vecj1.z)*dr.y+f1*vecj1.y; Hessian.by=f2*(dr.x*vecj2.x+dr.y*vecj2.y+dr.z*vecj2.z)*dr.y+f1*vecj2.y; Hessian.bz=f2*(dr.x*vecj3.x+dr.y*vecj3.y+dr.z*vecj3.z)*dr.y+f1*vecj3.y; Hessian.cx=f2*(dr.x*vecj1.x+dr.y*vecj1.y+dr.z*vecj1.z)*dr.z+f1*vecj1.z; Hessian.cy=f2*(dr.x*vecj2.x+dr.y*vecj2.y+dr.z*vecj2.z)*dr.z+f1*vecj2.z; Hessian.cz=f2*(dr.x*vecj3.x+dr.y*vecj3.y+dr.z*vecj3.z)*dr.z+f1*vecj3.z; if((index_j.x>=0)&&(index_j2.x>=0)) HessianMatrix.element[index_j.x][index_j2.x]+=Hessian.ax; if((index_j.x>=0)&&(index_j2.y>=0)) HessianMatrix.element[index_j.x][index_j2.y]+=Hessian.ay; if((index_j.x>=0)&&(index_j2.z>=0)) HessianMatrix.element[index_j.x][index_j2.z]+=Hessian.az; if((index_j.y>=0)&&(index_j2.x>=0)) HessianMatrix.element[index_j.y][index_j2.x]+=Hessian.bx; if((index_j.y>=0)&&(index_j2.y>=0)) HessianMatrix.element[index_j.y][index_j2.y]+=Hessian.by; if((index_j.y>=0)&&(index_j2.z>=0)) HessianMatrix.element[index_j.y][index_j2.z]+=Hessian.bz; if((index_j.z>=0)&&(index_j2.x>=0)) HessianMatrix.element[index_j.z][index_j2.x]+=Hessian.cx; if((index_j.z>=0)&&(index_j2.y>=0)) HessianMatrix.element[index_j.z][index_j2.y]+=Hessian.cy; if((index_j.z>=0)&&(index_j2.z>=0)) HessianMatrix.element[index_j.z][index_j2.z]+=Hessian.cz; Hessian.ax=f2*(dr.x*vecj1.x+dr.y*vecj1.y+dr.z*vecj1.z)*dr.x+f1*vecj1.x; Hessian.ay=f2*(dr.x*vecj2.x+dr.y*vecj2.y+dr.z*vecj2.z)*dr.x+f1*vecj2.x; Hessian.az=f2*(dr.x*vecj3.x+dr.y*vecj3.y+dr.z*vecj3.z)*dr.x+f1*vecj3.x; Hessian.bx=f2*(dr.x*vecj1.x+dr.y*vecj1.y+dr.z*vecj1.z)*dr.y+f1*vecj1.y; Hessian.by=f2*(dr.x*vecj2.x+dr.y*vecj2.y+dr.z*vecj2.z)*dr.y+f1*vecj2.y; Hessian.bz=f2*(dr.x*vecj3.x+dr.y*vecj3.y+dr.z*vecj3.z)*dr.y+f1*vecj3.y; Hessian.cx=f2*(dr.x*vecj1.x+dr.y*vecj1.y+dr.z*vecj1.z)*dr.z+f1*vecj1.z; Hessian.cy=f2*(dr.x*vecj2.x+dr.y*vecj2.y+dr.z*vecj2.z)*dr.z+f1*vecj2.z; Hessian.cz=f2*(dr.x*vecj3.x+dr.y*vecj3.y+dr.z*vecj3.z)*dr.z+f1*vecj3.z; if(Framework[CurrentSystem].FrameworkModel==FLEXIBLE) { if((index_i.x>=0)&&(index_j2.x>=0)) HessianMatrix.element[index_i.x][index_j2.x]-=Hessian.ax; if((index_i.x>=0)&&(index_j2.y>=0)) HessianMatrix.element[index_i.x][index_j2.y]-=Hessian.ay; if((index_i.x>=0)&&(index_j2.z>=0)) HessianMatrix.element[index_i.x][index_j2.z]-=Hessian.az; if((index_i.y>=0)&&(index_j2.x>=0)) HessianMatrix.element[index_i.y][index_j2.x]-=Hessian.bx; if((index_i.y>=0)&&(index_j2.y>=0)) HessianMatrix.element[index_i.y][index_j2.y]-=Hessian.by; if((index_i.y>=0)&&(index_j2.z>=0)) HessianMatrix.element[index_i.y][index_j2.z]-=Hessian.bz; if((index_i.z>=0)&&(index_j2.x>=0)) HessianMatrix.element[index_i.z][index_j2.x]-=Hessian.cx; if((index_i.z>=0)&&(index_j2.y>=0)) HessianMatrix.element[index_i.z][index_j2.y]-=Hessian.cy; if((index_i.z>=0)&&(index_j2.z>=0)) HessianMatrix.element[index_i.z][index_j2.z]-=Hessian.cz; } } // Hessian: Orientation - Orientation // ================================== static inline void HessianOrientationOrientationJ(REAL_MATRIX HessianMatrix,INT_VECTOR3 index_j2,int index2,REAL f1,REAL f2,VECTOR dr) { REAL_MATRIX3x3 Hessian; VECTOR vecj1,vecj2,vecj3; VECTOR DDvecJAX,DDvecJBY,DDvecJCZ,DDvecJAY,DDvecJAZ,DDvecJBZ; vecj1=DVecX[index2]; vecj2=DVecY[index2]; vecj3=DVecZ[index2]; DDvecJAX=DDVecAX[index2]; DDvecJBY=DDVecBY[index2]; DDvecJCZ=DDVecCZ[index2]; DDvecJAY=DDVecAY[index2]; DDvecJAZ=DDVecAZ[index2]; DDvecJBZ=DDVecBZ[index2]; Hessian.ax=-f1*(dr.x*DDvecJAX.x+dr.y*DDvecJAX.y+dr.z*DDvecJAX.z) +f2*(dr.x*vecj1.x+dr.y*vecj1.y+dr.z*vecj1.z)*(dr.x*vecj1.x+dr.y*vecj1.y+dr.z*vecj1.z) +f1*(vecj1.x*vecj1.x+vecj1.y*vecj1.y+vecj1.z*vecj1.z); Hessian.by=-f1*(dr.x*DDvecJBY.x+dr.y*DDvecJBY.y+dr.z*DDvecJBY.z)+ f2*(dr.x*vecj2.x+dr.y*vecj2.y+dr.z*vecj2.z)*(dr.x*vecj2.x+dr.y*vecj2.y+dr.z*vecj2.z)+ f1*(vecj2.x*vecj2.x+vecj2.y*vecj2.y+vecj2.z*vecj2.z); Hessian.cz=-f1*(dr.x*DDvecJCZ.x+dr.y*DDvecJCZ.y+dr.z*DDvecJCZ.z)+ f2*(dr.x*vecj3.x+dr.y*vecj3.y+dr.z*vecj3.z)*(dr.x*vecj3.x+dr.y*vecj3.y+dr.z*vecj3.z)+ f1*(vecj3.x*vecj3.x+vecj3.y*vecj3.y+vecj3.z*vecj3.z); Hessian.ay=-f1*(dr.x*DDvecJAY.x+dr.y*DDvecJAY.y+dr.z*DDvecJAY.z)+ f2*(dr.x*vecj1.x+dr.y*vecj1.y+dr.z*vecj1.z)*(dr.x*vecj2.x+dr.y*vecj2.y+dr.z*vecj2.z)+ f1*(vecj1.x*vecj2.x+vecj1.y*vecj2.y+vecj1.z*vecj2.z); Hessian.az=-f1*(dr.x*DDvecJAZ.x+dr.y*DDvecJAZ.y+dr.z*DDvecJAZ.z)+ f2*(dr.x*vecj1.x+dr.y*vecj1.y+dr.z*vecj1.z)*(dr.x*vecj3.x+dr.y*vecj3.y+dr.z*vecj3.z)+ f1*(vecj1.x*vecj3.x+vecj1.y*vecj3.y+vecj1.z*vecj3.z); Hessian.bz=-f1*(dr.x*DDvecJBZ.x+dr.y*DDvecJBZ.y+dr.z*DDvecJBZ.z)+ f2*(dr.x*vecj2.x+dr.y*vecj2.y+dr.z*vecj2.z)*(dr.x*vecj3.x+dr.y*vecj3.y+dr.z*vecj3.z)+ f1*(vecj2.x*vecj3.x+vecj2.y*vecj3.y+vecj2.z*vecj3.z); if((index_j2.x>=0)&&(index_j2.x>=0)) HessianMatrix.element[index_j2.x][index_j2.x]+=Hessian.ax; if((index_j2.y>=0)&&(index_j2.y>=0)) HessianMatrix.element[index_j2.y][index_j2.y]+=Hessian.by; if((index_j2.z>=0)&&(index_j2.z>=0)) HessianMatrix.element[index_j2.z][index_j2.z]+=Hessian.cz; if((index_j2.x>=0)&&(index_j2.y>=0)) HessianMatrix.element[index_j2.x][index_j2.y]+=Hessian.ay; if((index_j2.x>=0)&&(index_j2.z>=0)) HessianMatrix.element[index_j2.x][index_j2.z]+=Hessian.az; if((index_j2.y>=0)&&(index_j2.z>=0)) HessianMatrix.element[index_j2.y][index_j2.z]+=Hessian.bz; } // Hessian: Center of mass - Strain (part I) // ========================================= static inline void HessianAtomicPositionStrain(REAL_MATRIX HessianMatrix,INT_VECTOR3 index_i,INT_VECTOR3 index_j,REAL f1,REAL f2,VECTOR dr) { int n; n=NumberOfCoordinatesMinimizationVariables; switch(Ensemble[CurrentSystem]) { case NPT: if(Framework[CurrentSystem].FrameworkModel==FLEXIBLE) { if(index_i.x>=0) HessianMatrix.element[index_i.x][n]+=f2*dr.x*dr.x*dr.x+2.0*f1*dr.x+f2*dr.y*dr.y*dr.x+f2*dr.z*dr.z*dr.x; // xx x + yy x + zz x if(index_i.y>=0) HessianMatrix.element[index_i.y][n]+=f2*dr.x*dr.x*dr.y+f2*dr.y*dr.y*dr.y+2.0*f1*dr.y+f2*dr.z*dr.z*dr.y; // xx y + yy y + zz y if(index_i.z>=0) HessianMatrix.element[index_i.z][n]+=f2*dr.x*dr.x*dr.z+f2*dr.y*dr.y*dr.z+f2*dr.z*dr.z*dr.z+2.0*f1*dr.z; // xx z + yy z + zz z } if(index_j.x>=0) HessianMatrix.element[index_j.x][n]-=f2*dr.x*dr.x*dr.x+2.0*f1*dr.x+f2*dr.y*dr.y*dr.x+f2*dr.z*dr.z*dr.x; if(index_j.y>=0) HessianMatrix.element[index_j.y][n]-=f2*dr.x*dr.x*dr.y+f2*dr.y*dr.y*dr.y+2.0*f1*dr.y+f2*dr.z*dr.z*dr.y; if(index_j.z>=0) HessianMatrix.element[index_j.z][n]-=f2*dr.x*dr.x*dr.z+f2*dr.y*dr.y*dr.z+f2*dr.z*dr.z*dr.z+2.0*f1*dr.z; break; case NPTPR: case NPHPR: switch(NPTPRCellType[CurrentSystem]) { case ISOTROPIC: case ANISOTROPIC: if(Framework[CurrentSystem].FrameworkModel==FLEXIBLE) { if(index_i.x>=0) HessianMatrix.element[index_i.x][n]+=f2*dr.x*dr.x*dr.x+2.0*f1*dr.x; if(index_i.x>=0) HessianMatrix.element[index_i.x][n+1]+=f2*dr.y*dr.y*dr.x; if(index_i.x>=0) HessianMatrix.element[index_i.x][n+2]+=f2*dr.z*dr.z*dr.x; if(index_i.y>=0) HessianMatrix.element[index_i.y][n]+=f2*dr.x*dr.x*dr.y; if(index_i.y>=0) HessianMatrix.element[index_i.y][n+1]+=f2*dr.y*dr.y*dr.y+2.0*f1*dr.y; if(index_i.y>=0) HessianMatrix.element[index_i.y][n+2]+=f2*dr.z*dr.z*dr.y; if(index_i.z>=0) HessianMatrix.element[index_i.z][n]+=f2*dr.x*dr.x*dr.z; if(index_i.z>=0) HessianMatrix.element[index_i.z][n+1]+=f2*dr.y*dr.y*dr.z; if(index_i.z>=0) HessianMatrix.element[index_i.z][n+2]+=f2*dr.z*dr.z*dr.z+2.0*f1*dr.z; } if(index_j.x>=0) HessianMatrix.element[index_j.x][n]-=f2*dr.x*dr.x*dr.x+2.0*f1*dr.x; if(index_j.x>=0) HessianMatrix.element[index_j.x][n+1]-=f2*dr.y*dr.y*dr.x; if(index_j.x>=0) HessianMatrix.element[index_j.x][n+2]-=f2*dr.z*dr.z*dr.x; if(index_j.y>=0) HessianMatrix.element[index_j.y][n]-=f2*dr.x*dr.x*dr.y; if(index_j.y>=0) HessianMatrix.element[index_j.y][n+1]-=f2*dr.y*dr.y*dr.y+2.0*f1*dr.y; if(index_j.y>=0) HessianMatrix.element[index_j.y][n+2]-=f2*dr.z*dr.z*dr.y; if(index_j.z>=0) HessianMatrix.element[index_j.z][n]-=f2*dr.x*dr.x*dr.z; if(index_j.z>=0) HessianMatrix.element[index_j.z][n+1]-=f2*dr.y*dr.y*dr.z; if(index_j.z>=0) HessianMatrix.element[index_j.z][n+2]-=f2*dr.z*dr.z*dr.z+2.0*f1*dr.z; break; case REGULAR: case REGULAR_UPPER_TRIANGLE: if(Framework[CurrentSystem].FrameworkModel==FLEXIBLE) { if(index_i.x>=0) HessianMatrix.element[index_i.x][n]+=f2*dr.x*dr.x*dr.x+2.0*f1*dr.x; if(index_i.x>=0) HessianMatrix.element[index_i.x][n+1]+=f2*dr.x*dr.y*dr.x+f1*dr.y; if(index_i.x>=0) HessianMatrix.element[index_i.x][n+2]+=f2*dr.x*dr.z*dr.x+f1*dr.z; if(index_i.x>=0) HessianMatrix.element[index_i.x][n+3]+=f2*dr.y*dr.y*dr.x; if(index_i.x>=0) HessianMatrix.element[index_i.x][n+4]+=f2*dr.y*dr.z*dr.x; if(index_i.x>=0) HessianMatrix.element[index_i.x][n+5]+=f2*dr.z*dr.z*dr.x; if(index_i.y>=0) HessianMatrix.element[index_i.y][n]+=f2*dr.x*dr.x*dr.y; if(index_i.y>=0) HessianMatrix.element[index_i.y][n+1]+=f2*dr.x*dr.y*dr.y+f1*dr.x; if(index_i.y>=0) HessianMatrix.element[index_i.y][n+2]+=f2*dr.x*dr.z*dr.y; if(index_i.y>=0) HessianMatrix.element[index_i.y][n+3]+=f2*dr.y*dr.y*dr.y+2.0*f1*dr.y; if(index_i.y>=0) HessianMatrix.element[index_i.y][n+4]+=f2*dr.y*dr.z*dr.y+f1*dr.z; if(index_i.y>=0) HessianMatrix.element[index_i.y][n+5]+=f2*dr.z*dr.z*dr.y; if(index_i.z>=0) HessianMatrix.element[index_i.z][n]+=f2*dr.x*dr.x*dr.z; if(index_i.z>=0) HessianMatrix.element[index_i.z][n+1]+=f2*dr.x*dr.y*dr.z; if(index_i.z>=0) HessianMatrix.element[index_i.z][n+2]+=f2*dr.x*dr.z*dr.z+f1*dr.x; if(index_i.z>=0) HessianMatrix.element[index_i.z][n+3]+=f2*dr.y*dr.y*dr.z; if(index_i.z>=0) HessianMatrix.element[index_i.z][n+4]+=f2*dr.y*dr.z*dr.z+f1*dr.y; if(index_i.z>=0) HessianMatrix.element[index_i.z][n+5]+=f2*dr.z*dr.z*dr.z+2.0*f1*dr.z; } if(index_j.x>=0) HessianMatrix.element[index_j.x][n]-=f2*dr.x*dr.x*dr.x+2.0*f1*dr.x; if(index_j.x>=0) HessianMatrix.element[index_j.x][n+1]-=f2*dr.x*dr.y*dr.x+f1*dr.y; if(index_j.x>=0) HessianMatrix.element[index_j.x][n+2]-=f2*dr.x*dr.z*dr.x+f1*dr.z; if(index_j.x>=0) HessianMatrix.element[index_j.x][n+3]-=f2*dr.y*dr.y*dr.x; if(index_j.x>=0) HessianMatrix.element[index_j.x][n+4]-=f2*dr.y*dr.z*dr.x; if(index_j.x>=0) HessianMatrix.element[index_j.x][n+5]-=f2*dr.z*dr.z*dr.x; if(index_j.y>=0) HessianMatrix.element[index_j.y][n]-=f2*dr.x*dr.x*dr.y; if(index_j.y>=0) HessianMatrix.element[index_j.y][n+1]-=f2*dr.x*dr.y*dr.y+f1*dr.x; if(index_j.y>=0) HessianMatrix.element[index_j.y][n+2]-=f2*dr.x*dr.z*dr.y; if(index_j.y>=0) HessianMatrix.element[index_j.y][n+3]-=f2*dr.y*dr.y*dr.y+2.0*f1*dr.y; if(index_j.y>=0) HessianMatrix.element[index_j.y][n+4]-=f2*dr.y*dr.z*dr.y+f1*dr.z; if(index_j.y>=0) HessianMatrix.element[index_j.y][n+5]-=f2*dr.z*dr.z*dr.y; if(index_j.z>=0) HessianMatrix.element[index_j.z][n]-=f2*dr.x*dr.x*dr.z; if(index_j.z>=0) HessianMatrix.element[index_j.z][n+1]-=f2*dr.x*dr.y*dr.z; if(index_j.z>=0) HessianMatrix.element[index_j.z][n+2]-=f2*dr.x*dr.z*dr.z+f1*dr.x; if(index_j.z>=0) HessianMatrix.element[index_j.z][n+3]-=f2*dr.y*dr.y*dr.z; if(index_j.z>=0) HessianMatrix.element[index_j.z][n+4]-=f2*dr.y*dr.z*dr.z+f1*dr.y; if(index_j.z>=0) HessianMatrix.element[index_j.z][n+5]-=f2*dr.z*dr.z*dr.z+2.0*f1*dr.z; break; case MONOCLINIC: case MONOCLINIC_UPPER_TRIANGLE: switch(MonoclinicAngleType[CurrentSystem]) { case MONOCLINIC_ALPHA_ANGLE: if(Framework[CurrentSystem].FrameworkModel==FLEXIBLE) { if(index_i.x>=0) HessianMatrix.element[index_i.x][n]+=f2*dr.x*dr.x*dr.x+2.0*f1*dr.x; if(index_i.x>=0) HessianMatrix.element[index_i.x][n+1]+=f2*dr.y*dr.y*dr.x; if(index_i.x>=0) HessianMatrix.element[index_i.x][n+2]+=f2*dr.y*dr.z*dr.x; if(index_i.x>=0) HessianMatrix.element[index_i.x][n+3]+=f2*dr.z*dr.z*dr.x; if(index_i.y>=0) HessianMatrix.element[index_i.y][n]+=f2*dr.x*dr.x*dr.y; if(index_i.y>=0) HessianMatrix.element[index_i.y][n+1]+=f2*dr.y*dr.y*dr.y+2.0*f1*dr.y; if(index_i.y>=0) HessianMatrix.element[index_i.y][n+2]+=f2*dr.y*dr.z*dr.y+f1*dr.z; if(index_i.y>=0) HessianMatrix.element[index_i.y][n+3]+=f2*dr.z*dr.z*dr.y; if(index_i.z>=0) HessianMatrix.element[index_i.z][n]+=f2*dr.x*dr.x*dr.z; if(index_i.z>=0) HessianMatrix.element[index_i.z][n+1]+=f2*dr.y*dr.y*dr.z; if(index_i.z>=0) HessianMatrix.element[index_i.z][n+2]+=f2*dr.y*dr.z*dr.z+f1*dr.y; if(index_i.z>=0) HessianMatrix.element[index_i.z][n+3]+=f2*dr.z*dr.z*dr.z+2.0*f1*dr.z; } if(index_j.x>=0) HessianMatrix.element[index_j.x][n]-=f2*dr.x*dr.x*dr.x+2.0*f1*dr.x; if(index_j.x>=0) HessianMatrix.element[index_j.x][n+1]-=f2*dr.y*dr.y*dr.x; if(index_j.x>=0) HessianMatrix.element[index_j.x][n+2]-=f2*dr.y*dr.z*dr.x; if(index_j.x>=0) HessianMatrix.element[index_j.x][n+3]-=f2*dr.z*dr.z*dr.x; if(index_j.y>=0) HessianMatrix.element[index_j.y][n]-=f2*dr.x*dr.x*dr.y; if(index_j.y>=0) HessianMatrix.element[index_j.y][n+1]-=f2*dr.y*dr.y*dr.y+2.0*f1*dr.y; if(index_j.y>=0) HessianMatrix.element[index_j.y][n+2]-=f2*dr.y*dr.z*dr.y+f1*dr.z; if(index_j.y>=0) HessianMatrix.element[index_j.y][n+3]-=f2*dr.z*dr.z*dr.y; if(index_j.z>=0) HessianMatrix.element[index_j.z][n]-=f2*dr.x*dr.x*dr.z; if(index_j.z>=0) HessianMatrix.element[index_j.z][n+1]-=f2*dr.y*dr.y*dr.z; if(index_j.z>=0) HessianMatrix.element[index_j.z][n+2]-=f2*dr.y*dr.z*dr.z+f1*dr.y; if(index_j.z>=0) HessianMatrix.element[index_j.z][n+3]-=f2*dr.z*dr.z*dr.z+2.0*f1*dr.z; break; case MONOCLINIC_BETA_ANGLE: if(Framework[CurrentSystem].FrameworkModel==FLEXIBLE) { if(index_i.x>=0) HessianMatrix.element[index_i.x][n]+=f2*dr.x*dr.x*dr.x+2.0*f1*dr.x; if(index_i.x>=0) HessianMatrix.element[index_i.x][n+1]+=f2*dr.x*dr.z*dr.x+f1*dr.z; if(index_i.x>=0) HessianMatrix.element[index_i.x][n+2]+=f2*dr.y*dr.y*dr.x; if(index_i.x>=0) HessianMatrix.element[index_i.x][n+3]+=f2*dr.z*dr.z*dr.x; if(index_i.y>=0) HessianMatrix.element[index_i.y][n]+=f2*dr.x*dr.x*dr.y; if(index_i.y>=0) HessianMatrix.element[index_i.y][n+1]+=f2*dr.x*dr.z*dr.y; if(index_i.y>=0) HessianMatrix.element[index_i.y][n+2]+=f2*dr.y*dr.y*dr.y+2.0*f1*dr.y; if(index_i.y>=0) HessianMatrix.element[index_i.y][n+3]+=f2*dr.z*dr.z*dr.y; if(index_i.z>=0) HessianMatrix.element[index_i.z][n]+=f2*dr.x*dr.x*dr.z; if(index_i.z>=0) HessianMatrix.element[index_i.z][n+1]+=f2*dr.x*dr.z*dr.z+f1*dr.x; if(index_i.z>=0) HessianMatrix.element[index_i.z][n+2]+=f2*dr.y*dr.y*dr.z; if(index_i.z>=0) HessianMatrix.element[index_i.z][n+3]+=f2*dr.z*dr.z*dr.z+2.0*f1*dr.z; } if(index_j.x>=0) HessianMatrix.element[index_j.x][n]-=f2*dr.x*dr.x*dr.x+2.0*f1*dr.x; if(index_j.x>=0) HessianMatrix.element[index_j.x][n+1]-=f2*dr.x*dr.z*dr.x+f1*dr.z; if(index_j.x>=0) HessianMatrix.element[index_j.x][n+2]-=f2*dr.y*dr.y*dr.x; if(index_j.x>=0) HessianMatrix.element[index_j.x][n+3]-=f2*dr.z*dr.z*dr.x; if(index_j.y>=0) HessianMatrix.element[index_j.y][n]-=f2*dr.x*dr.x*dr.y; if(index_j.y>=0) HessianMatrix.element[index_j.y][n+1]-=f2*dr.x*dr.z*dr.y; if(index_j.y>=0) HessianMatrix.element[index_j.y][n+2]-=f2*dr.y*dr.y*dr.y+2.0*f1*dr.y; if(index_j.y>=0) HessianMatrix.element[index_j.y][n+3]-=f2*dr.z*dr.z*dr.y; if(index_j.z>=0) HessianMatrix.element[index_j.z][n]-=f2*dr.x*dr.x*dr.z; if(index_j.z>=0) HessianMatrix.element[index_j.z][n+1]-=f2*dr.x*dr.z*dr.z+f1*dr.x; if(index_j.z>=0) HessianMatrix.element[index_j.z][n+2]-=f2*dr.y*dr.y*dr.z; if(index_j.z>=0) HessianMatrix.element[index_j.z][n+3]-=f2*dr.z*dr.z*dr.z+2.0*f1*dr.z; break; case MONOCLINIC_GAMMA_ANGLE: if(Framework[CurrentSystem].FrameworkModel==FLEXIBLE) { if(index_i.x>=0) HessianMatrix.element[index_i.x][n]+=f2*dr.x*dr.x*dr.x+2.0*f1*dr.x; if(index_i.x>=0) HessianMatrix.element[index_i.x][n+1]+=f2*dr.x*dr.y*dr.x+f1*dr.y; if(index_i.x>=0) HessianMatrix.element[index_i.x][n+2]+=f2*dr.y*dr.y*dr.x; if(index_i.x>=0) HessianMatrix.element[index_i.x][n+3]+=f2*dr.z*dr.z*dr.x; if(index_i.y>=0) HessianMatrix.element[index_i.y][n]+=f2*dr.x*dr.x*dr.y; if(index_i.y>=0) HessianMatrix.element[index_i.y][n+1]+=f2*dr.x*dr.y*dr.y+f1*dr.x; if(index_i.y>=0) HessianMatrix.element[index_i.y][n+2]+=f2*dr.y*dr.y*dr.y+2.0*f1*dr.y; if(index_i.y>=0) HessianMatrix.element[index_i.y][n+3]+=f2*dr.z*dr.z*dr.y; if(index_i.z>=0) HessianMatrix.element[index_i.z][n]+=f2*dr.x*dr.x*dr.z; if(index_i.z>=0) HessianMatrix.element[index_i.z][n+1]+=f2*dr.x*dr.y*dr.z; if(index_i.z>=0) HessianMatrix.element[index_i.z][n+2]+=f2*dr.y*dr.y*dr.z; if(index_i.z>=0) HessianMatrix.element[index_i.z][n+3]+=f2*dr.z*dr.z*dr.z+2.0*f1*dr.z; } if(index_j.x>=0) HessianMatrix.element[index_j.x][n]-=f2*dr.x*dr.x*dr.x+2.0*f1*dr.x; if(index_j.x>=0) HessianMatrix.element[index_j.x][n+1]-=f2*dr.x*dr.y*dr.x+f1*dr.y; if(index_j.x>=0) HessianMatrix.element[index_j.x][n+2]-=f2*dr.y*dr.y*dr.x; if(index_j.x>=0) HessianMatrix.element[index_j.x][n+3]-=f2*dr.z*dr.z*dr.x; if(index_j.y>=0) HessianMatrix.element[index_j.y][n]-=f2*dr.x*dr.x*dr.y; if(index_j.y>=0) HessianMatrix.element[index_j.y][n+1]-=f2*dr.x*dr.y*dr.y+f1*dr.x; if(index_j.y>=0) HessianMatrix.element[index_j.y][n+2]-=f2*dr.y*dr.y*dr.y+2.0*f1*dr.y; if(index_j.y>=0) HessianMatrix.element[index_j.y][n+3]-=f2*dr.z*dr.z*dr.y; if(index_j.z>=0) HessianMatrix.element[index_j.z][n]-=f2*dr.x*dr.x*dr.z; if(index_j.z>=0) HessianMatrix.element[index_j.z][n+1]-=f2*dr.x*dr.y*dr.z; if(index_j.z>=0) HessianMatrix.element[index_j.z][n+2]-=f2*dr.y*dr.y*dr.z; if(index_j.z>=0) HessianMatrix.element[index_j.z][n+3]-=f2*dr.z*dr.z*dr.z+2.0*f1*dr.z; break; } break; default: fprintf(stderr, "Unknown NPTPRCellType\n"); exit(0); break; } break; case NVT: case NVE: break; } } // Hessian: Center of mass - Strain (part II) // ========================================== static inline void HessianCenterOfMassStrainJ(REAL_MATRIX HessianMatrix,INT_VECTOR3 index_i,INT_VECTOR3 index_j,REAL f1,REAL f2,VECTOR dr,VECTOR posB,VECTOR comB) { int n; n=NumberOfCoordinatesMinimizationVariables; switch(Ensemble[CurrentSystem]) { case NPT: if(Framework[CurrentSystem].FrameworkModel==FLEXIBLE) { if(index_i.x>=0) HessianMatrix.element[index_i.x][n]+=(posB.x-comB.x)*(f2*dr.x*dr.x+f1)+(posB.y-comB.y)*(f2*dr.x*dr.y)+(posB.z-comB.z)*(f2*dr.x*dr.z); if(index_i.y>=0) HessianMatrix.element[index_i.y][n]+=(posB.x-comB.x)*(f2*dr.y*dr.x)+(posB.y-comB.y)*(f2*dr.y*dr.y+f1)+(posB.z-comB.z)*(f2*dr.y*dr.z); if(index_i.z>=0) HessianMatrix.element[index_i.z][n]+=(posB.x-comB.x)*(f2*dr.z*dr.x)+(posB.y-comB.y)*(f2*dr.z*dr.y)+(posB.z-comB.z)*(f2*dr.z*dr.z+f1); } if(index_j.x>=0) HessianMatrix.element[index_j.x][n]-=(posB.x-comB.x)*(f2*dr.x*dr.x+f1)+(posB.y-comB.y)*(f2*dr.x*dr.y)+(posB.z-comB.z)*(f2*dr.x*dr.z); if(index_j.y>=0) HessianMatrix.element[index_j.y][n]-=(posB.x-comB.x)*(f2*dr.y*dr.x)+(posB.y-comB.y)*(f2*dr.y*dr.y+f1)+(posB.z-comB.z)*(f2*dr.y*dr.z); if(index_j.z>=0) HessianMatrix.element[index_j.z][n]-=(posB.x-comB.x)*(f2*dr.z*dr.x)+(posB.y-comB.y)*(f2*dr.z*dr.y)+(posB.z-comB.z)*(f2*dr.z*dr.z+f1); break; case NPTPR: case NPHPR: switch(NPTPRCellType[CurrentSystem]) { case ISOTROPIC: case ANISOTROPIC: if(Framework[CurrentSystem].FrameworkModel==FLEXIBLE) { if(index_i.x>=0) HessianMatrix.element[index_i.x][n]+=(posB.x-comB.x)*(f2*dr.x*dr.x+f1); if(index_i.x>=0) HessianMatrix.element[index_i.x][n+1]+=(posB.y-comB.y)*(f2*dr.x*dr.y); if(index_i.x>=0) HessianMatrix.element[index_i.x][n+2]+=(posB.z-comB.z)*(f2*dr.x*dr.z); if(index_i.y>=0) HessianMatrix.element[index_i.y][n]+=(posB.x-comB.x)*(f2*dr.y*dr.x); if(index_i.y>=0) HessianMatrix.element[index_i.y][n+1]+=(posB.y-comB.y)*(f2*dr.y*dr.y+f1); if(index_i.y>=0) HessianMatrix.element[index_i.y][n+2]+=(posB.z-comB.z)*(f2*dr.y*dr.z); if(index_i.z>=0) HessianMatrix.element[index_i.z][n]+=(posB.x-comB.x)*(f2*dr.z*dr.x); if(index_i.z>=0) HessianMatrix.element[index_i.z][n+1]+=(posB.y-comB.y)*(f2*dr.z*dr.y); if(index_i.z>=0) HessianMatrix.element[index_i.z][n+2]+=(posB.z-comB.z)*(f2*dr.z*dr.z+f1); } if(index_j.x>=0) HessianMatrix.element[index_j.x][n]-=(posB.x-comB.x)*(f2*dr.x*dr.x+f1); if(index_j.x>=0) HessianMatrix.element[index_j.x][n+1]-=(posB.y-comB.y)*(f2*dr.x*dr.y); if(index_j.x>=0) HessianMatrix.element[index_j.x][n+2]-=(posB.z-comB.z)*(f2*dr.x*dr.z); if(index_j.y>=0) HessianMatrix.element[index_j.y][n]-=(posB.x-comB.x)*(f2*dr.y*dr.x); if(index_j.y>=0) HessianMatrix.element[index_j.y][n+1]-=(posB.y-comB.y)*(f2*dr.y*dr.y+f1); if(index_j.y>=0) HessianMatrix.element[index_j.y][n+2]-=(posB.z-comB.z)*(f2*dr.y*dr.z); if(index_j.z>=0) HessianMatrix.element[index_j.z][n]-=(posB.x-comB.x)*(f2*dr.z*dr.x); if(index_j.z>=0) HessianMatrix.element[index_j.z][n+1]-=(posB.y-comB.y)*(f2*dr.z*dr.y); if(index_j.z>=0) HessianMatrix.element[index_j.z][n+2]-=(posB.z-comB.z)*(f2*dr.z*dr.z+f1); break; case REGULAR: if(Framework[CurrentSystem].FrameworkModel==FLEXIBLE) { if(index_i.x>=0) HessianMatrix.element[index_i.x][n]+=(posB.x-comB.x)*(f2*dr.x*dr.x+f1); if(index_i.x>=0) HessianMatrix.element[index_i.x][n+1]+=0.5*((posB.y-comB.y)*(f2*dr.x*dr.x+f1)+(posB.x-comB.x)*(f2*dr.x*dr.y)); if(index_i.x>=0) HessianMatrix.element[index_i.x][n+2]+=0.5*((posB.z-comB.z)*(f2*dr.x*dr.x+f1)+(posB.x-comB.x)*(f2*dr.x*dr.z)); if(index_i.x>=0) HessianMatrix.element[index_i.x][n+3]+=(posB.y-comB.y)*(f2*dr.x*dr.y); if(index_i.x>=0) HessianMatrix.element[index_i.x][n+4]+=0.5*((posB.z-comB.z)*(f2*dr.x*dr.y)+(posB.y-comB.y)*(f2*dr.x*dr.z)); if(index_i.x>=0) HessianMatrix.element[index_i.x][n+5]+=(posB.z-comB.z)*(f2*dr.x*dr.z); if(index_i.y>=0) HessianMatrix.element[index_i.y][n]+=(posB.x-comB.x)*(f2*dr.y*dr.x); if(index_i.y>=0) HessianMatrix.element[index_i.y][n+1]+=0.5*((posB.y-comB.y)*(f2*dr.y*dr.x)+(posB.x-comB.x)*(f2*dr.y*dr.y+f1)); if(index_i.y>=0) HessianMatrix.element[index_i.y][n+2]+=0.5*((posB.z-comB.z)*(f2*dr.y*dr.x)+(posB.x-comB.x)*(f2*dr.y*dr.z)); if(index_i.y>=0) HessianMatrix.element[index_i.y][n+3]+=(posB.y-comB.y)*(f2*dr.y*dr.y+f1); if(index_i.y>=0) HessianMatrix.element[index_i.y][n+4]+=0.5*((posB.z-comB.z)*(f2*dr.y*dr.y+f1)+(posB.y-comB.y)*(f2*dr.y*dr.z)); if(index_i.y>=0) HessianMatrix.element[index_i.y][n+5]+=(posB.z-comB.z)*(f2*dr.y*dr.z); if(index_i.z>=0) HessianMatrix.element[index_i.z][n]+=(posB.x-comB.x)*(f2*dr.z*dr.x); if(index_i.z>=0) HessianMatrix.element[index_i.z][n+1]+=0.5*((posB.y-comB.y)*(f2*dr.z*dr.x)+(posB.x-comB.x)*(f2*dr.z*dr.y)); if(index_i.z>=0) HessianMatrix.element[index_i.z][n+2]+=0.5*((posB.z-comB.z)*(f2*dr.z*dr.x)+(posB.x-comB.x)*(f2*dr.z*dr.z+f1)); if(index_i.z>=0) HessianMatrix.element[index_i.z][n+3]+=(posB.y-comB.y)*(f2*dr.z*dr.y); if(index_i.z>=0) HessianMatrix.element[index_i.z][n+4]+=0.5*((posB.z-comB.z)*(f2*dr.z*dr.y)+(posB.y-comB.y)*(f2*dr.z*dr.z+f1)); if(index_i.z>=0) HessianMatrix.element[index_i.z][n+5]+=(posB.z-comB.z)*(f2*dr.z*dr.z+f1); } if(index_j.x>=0) HessianMatrix.element[index_j.x][n]-=(posB.x-comB.x)*(f2*dr.x*dr.x+f1); if(index_j.x>=0) HessianMatrix.element[index_j.x][n+1]-=0.5*((posB.y-comB.y)*(f2*dr.x*dr.x+f1)+(posB.x-comB.x)*(f2*dr.x*dr.y)); if(index_j.x>=0) HessianMatrix.element[index_j.x][n+2]-=0.5*((posB.z-comB.z)*(f2*dr.x*dr.x+f1)+(posB.x-comB.x)*(f2*dr.x*dr.z)); if(index_j.x>=0) HessianMatrix.element[index_j.x][n+3]-=(posB.y-comB.y)*(f2*dr.x*dr.y); if(index_j.x>=0) HessianMatrix.element[index_j.x][n+4]-=0.5*((posB.z-comB.z)*(f2*dr.x*dr.y)+(posB.y-comB.y)*(f2*dr.x*dr.z)); if(index_j.x>=0) HessianMatrix.element[index_j.x][n+5]-=(posB.z-comB.z)*(f2*dr.x*dr.z); if(index_j.y>=0) HessianMatrix.element[index_j.y][n]-=(posB.x-comB.x)*(f2*dr.y*dr.x); if(index_j.y>=0) HessianMatrix.element[index_j.y][n+1]-=0.5*((posB.y-comB.y)*(f2*dr.y*dr.x)+(posB.x-comB.x)*(f2*dr.y*dr.y+f1)); if(index_j.y>=0) HessianMatrix.element[index_j.y][n+2]-=0.5*((posB.z-comB.z)*(f2*dr.y*dr.x)+(posB.x-comB.x)*(f2*dr.y*dr.z)); if(index_j.y>=0) HessianMatrix.element[index_j.y][n+3]-=(posB.y-comB.y)*(f2*dr.y*dr.y+f1); if(index_j.y>=0) HessianMatrix.element[index_j.y][n+4]-=0.5*((posB.z-comB.z)*(f2*dr.y*dr.y+f1)+(posB.y-comB.y)*(f2*dr.y*dr.z)); if(index_j.y>=0) HessianMatrix.element[index_j.y][n+5]-=(posB.z-comB.z)*(f2*dr.y*dr.z); if(index_j.z>=0) HessianMatrix.element[index_j.z][n]-=(posB.x-comB.x)*(f2*dr.z*dr.x); if(index_j.z>=0) HessianMatrix.element[index_j.z][n+1]-=0.5*((posB.y-comB.y)*(f2*dr.z*dr.x)+(posB.x-comB.x)*(f2*dr.z*dr.y)); if(index_j.z>=0) HessianMatrix.element[index_j.z][n+2]-=0.5*((posB.z-comB.z)*(f2*dr.z*dr.x)+(posB.x-comB.x)*(f2*dr.z*dr.z+f1)); if(index_j.z>=0) HessianMatrix.element[index_j.z][n+3]-=(posB.y-comB.y)*(f2*dr.z*dr.y); if(index_j.z>=0) HessianMatrix.element[index_j.z][n+4]-=0.5*((posB.z-comB.z)*(f2*dr.z*dr.y)+(posB.y-comB.y)*(f2*dr.z*dr.z+f1)); if(index_j.z>=0) HessianMatrix.element[index_j.z][n+5]-=(posB.z-comB.z)*(f2*dr.z*dr.z+f1); break; case REGULAR_UPPER_TRIANGLE: if(Framework[CurrentSystem].FrameworkModel==FLEXIBLE) { if(index_i.x>=0) HessianMatrix.element[index_i.x][n ]+=(posB.x-comB.x)*(f2*dr.x*dr.x+f1); if(index_i.x>=0) HessianMatrix.element[index_i.x][n+1]+=(posB.y-comB.y)*(f2*dr.x*dr.x+f1); if(index_i.x>=0) HessianMatrix.element[index_i.x][n+2]+=(posB.z-comB.z)*(f2*dr.x*dr.x+f1); if(index_i.x>=0) HessianMatrix.element[index_i.x][n+3]+=(posB.y-comB.y)*(f2*dr.x*dr.y); if(index_i.x>=0) HessianMatrix.element[index_i.x][n+4]+=(posB.z-comB.z)*(f2*dr.x*dr.y); if(index_i.x>=0) HessianMatrix.element[index_i.x][n+5]+=(posB.z-comB.z)*(f2*dr.x*dr.z); if(index_i.y>=0) HessianMatrix.element[index_i.y][n ]+=(posB.x-comB.x)*(f2*dr.y*dr.x); if(index_i.y>=0) HessianMatrix.element[index_i.y][n+1]+=(posB.y-comB.y)*(f2*dr.y*dr.x); if(index_i.y>=0) HessianMatrix.element[index_i.y][n+2]+=(posB.z-comB.z)*(f2*dr.y*dr.x); if(index_i.y>=0) HessianMatrix.element[index_i.y][n+3]+=(posB.y-comB.y)*(f2*dr.y*dr.y+f1); if(index_i.y>=0) HessianMatrix.element[index_i.y][n+4]+=(posB.z-comB.z)*(f2*dr.y*dr.y+f1); if(index_i.y>=0) HessianMatrix.element[index_i.y][n+5]+=(posB.z-comB.z)*(f2*dr.y*dr.z); if(index_i.z>=0) HessianMatrix.element[index_i.z][n ]+=(posB.x-comB.x)*(f2*dr.z*dr.x); if(index_i.z>=0) HessianMatrix.element[index_i.z][n+1]+=(posB.y-comB.y)*(f2*dr.z*dr.x); if(index_i.z>=0) HessianMatrix.element[index_i.z][n+2]+=(posB.z-comB.z)*(f2*dr.z*dr.x); if(index_i.z>=0) HessianMatrix.element[index_i.z][n+3]+=(posB.y-comB.y)*(f2*dr.z*dr.y); if(index_i.z>=0) HessianMatrix.element[index_i.z][n+4]+=(posB.z-comB.z)*(f2*dr.z*dr.y); if(index_i.z>=0) HessianMatrix.element[index_i.z][n+5]+=(posB.z-comB.z)*(f2*dr.z*dr.z+f1); } if(index_j.x>=0) HessianMatrix.element[index_j.x][n ]-=(posB.x-comB.x)*(f2*dr.x*dr.x+f1); if(index_j.x>=0) HessianMatrix.element[index_j.x][n+1]-=(posB.y-comB.y)*(f2*dr.x*dr.x+f1); if(index_j.x>=0) HessianMatrix.element[index_j.x][n+2]-=(posB.z-comB.z)*(f2*dr.x*dr.x+f1); if(index_j.x>=0) HessianMatrix.element[index_j.x][n+3]-=(posB.y-comB.y)*(f2*dr.x*dr.y); if(index_j.x>=0) HessianMatrix.element[index_j.x][n+4]-=(posB.z-comB.z)*(f2*dr.x*dr.y); if(index_j.x>=0) HessianMatrix.element[index_j.x][n+5]-=(posB.z-comB.z)*(f2*dr.x*dr.z); if(index_j.y>=0) HessianMatrix.element[index_j.y][n ]-=(posB.x-comB.x)*(f2*dr.y*dr.x); if(index_j.y>=0) HessianMatrix.element[index_j.y][n+1]-=(posB.y-comB.y)*(f2*dr.y*dr.x); if(index_j.y>=0) HessianMatrix.element[index_j.y][n+2]-=(posB.z-comB.z)*(f2*dr.y*dr.x); if(index_j.y>=0) HessianMatrix.element[index_j.y][n+3]-=(posB.y-comB.y)*(f2*dr.y*dr.y+f1); if(index_j.y>=0) HessianMatrix.element[index_j.y][n+4]-=(posB.z-comB.z)*(f2*dr.y*dr.y+f1); if(index_j.y>=0) HessianMatrix.element[index_j.y][n+5]-=(posB.z-comB.z)*(f2*dr.y*dr.z); if(index_j.z>=0) HessianMatrix.element[index_j.z][n ]-=(posB.x-comB.x)*(f2*dr.z*dr.x); if(index_j.z>=0) HessianMatrix.element[index_j.z][n+1]-=(posB.y-comB.y)*(f2*dr.z*dr.x); if(index_j.z>=0) HessianMatrix.element[index_j.z][n+2]-=(posB.z-comB.z)*(f2*dr.z*dr.x); if(index_j.z>=0) HessianMatrix.element[index_j.z][n+3]-=(posB.y-comB.y)*(f2*dr.z*dr.y); if(index_j.z>=0) HessianMatrix.element[index_j.z][n+4]-=(posB.z-comB.z)*(f2*dr.z*dr.y); if(index_j.z>=0) HessianMatrix.element[index_j.z][n+5]-=(posB.z-comB.z)*(f2*dr.z*dr.z+f1); break; case MONOCLINIC: switch(MonoclinicAngleType[CurrentSystem]) { case MONOCLINIC_ALPHA_ANGLE: if(Framework[CurrentSystem].FrameworkModel==FLEXIBLE) { if(index_i.x>=0) HessianMatrix.element[index_i.x][n]+=(posB.x-comB.x)*(f2*dr.x*dr.x+f1); if(index_i.x>=0) HessianMatrix.element[index_i.x][n+1]+=(posB.y-comB.y)*(f2*dr.x*dr.y); if(index_i.x>=0) HessianMatrix.element[index_i.x][n+2]+=0.5*((posB.z-comB.z)*(f2*dr.x*dr.y)+(posB.y-comB.y)*(f2*dr.x*dr.z)); if(index_i.x>=0) HessianMatrix.element[index_i.x][n+3]+=(posB.z-comB.z)*(f2*dr.x*dr.z); if(index_i.y>=0) HessianMatrix.element[index_i.y][n]+=(posB.x-comB.x)*(f2*dr.y*dr.x); if(index_i.y>=0) HessianMatrix.element[index_i.y][n+1]+=(posB.y-comB.y)*(f2*dr.y*dr.y+f1); if(index_i.y>=0) HessianMatrix.element[index_i.y][n+2]+=0.5*((posB.z-comB.z)*(f2*dr.y*dr.y+f1)+(posB.y-comB.y)*(f2*dr.y*dr.z)); if(index_i.y>=0) HessianMatrix.element[index_i.y][n+3]+=(posB.z-comB.z)*(f2*dr.y*dr.z); if(index_i.z>=0) HessianMatrix.element[index_i.z][n]+=(posB.x-comB.x)*(f2*dr.z*dr.x); if(index_i.z>=0) HessianMatrix.element[index_i.z][n+1]+=(posB.y-comB.y)*(f2*dr.z*dr.y); if(index_i.z>=0) HessianMatrix.element[index_i.z][n+2]+=0.5*((posB.z-comB.z)*(f2*dr.z*dr.y)+(posB.y-comB.y)*(f2*dr.z*dr.z+f1)); if(index_i.z>=0) HessianMatrix.element[index_i.z][n+3]+=(posB.z-comB.z)*(f2*dr.z*dr.z+f1); } if(index_j.x>=0) HessianMatrix.element[index_j.x][n]-=(posB.x-comB.x)*(f2*dr.x*dr.x+f1); if(index_j.x>=0) HessianMatrix.element[index_j.x][n+1]-=(posB.y-comB.y)*(f2*dr.x*dr.y); if(index_j.x>=0) HessianMatrix.element[index_j.x][n+2]-=0.5*((posB.z-comB.z)*(f2*dr.x*dr.y)+(posB.y-comB.y)*(f2*dr.x*dr.z)); if(index_j.x>=0) HessianMatrix.element[index_j.x][n+3]-=(posB.z-comB.z)*(f2*dr.x*dr.z); if(index_j.y>=0) HessianMatrix.element[index_j.y][n]-=(posB.x-comB.x)*(f2*dr.y*dr.x); if(index_j.y>=0) HessianMatrix.element[index_j.y][n+1]-=(posB.y-comB.y)*(f2*dr.y*dr.y+f1); if(index_j.y>=0) HessianMatrix.element[index_j.y][n+2]-=0.5*((posB.z-comB.z)*(f2*dr.y*dr.y+f1)+(posB.y-comB.y)*(f2*dr.y*dr.z)); if(index_j.y>=0) HessianMatrix.element[index_j.y][n+3]-=(posB.z-comB.z)*(f2*dr.y*dr.z); if(index_j.z>=0) HessianMatrix.element[index_j.z][n]-=(posB.x-comB.x)*(f2*dr.z*dr.x); if(index_j.z>=0) HessianMatrix.element[index_j.z][n+1]-=(posB.y-comB.y)*(f2*dr.z*dr.y); if(index_j.z>=0) HessianMatrix.element[index_j.z][n+2]-=0.5*((posB.z-comB.z)*(f2*dr.z*dr.y)+(posB.y-comB.y)*(f2*dr.z*dr.z+f1)); if(index_j.z>=0) HessianMatrix.element[index_j.z][n+3]-=(posB.z-comB.z)*(f2*dr.z*dr.z+f1); break; case MONOCLINIC_BETA_ANGLE: if(Framework[CurrentSystem].FrameworkModel==FLEXIBLE) { if(index_i.x>=0) HessianMatrix.element[index_i.x][n]+=(posB.x-comB.x)*(f2*dr.x*dr.x+f1); if(index_i.x>=0) HessianMatrix.element[index_i.x][n+1]+=0.5*((posB.z-comB.z)*(f2*dr.x*dr.x+f1)+(posB.x-comB.x)*(f2*dr.x*dr.z)); if(index_i.x>=0) HessianMatrix.element[index_i.x][n+2]+=(posB.y-comB.y)*(f2*dr.x*dr.y); if(index_i.x>=0) HessianMatrix.element[index_i.x][n+3]+=(posB.z-comB.z)*(f2*dr.x*dr.z); if(index_i.y>=0) HessianMatrix.element[index_i.y][n]+=(posB.x-comB.x)*(f2*dr.y*dr.x); if(index_i.y>=0) HessianMatrix.element[index_i.y][n+1]+=0.5*((posB.z-comB.z)*(f2*dr.y*dr.x)+(posB.x-comB.x)*(f2*dr.y*dr.z)); if(index_i.y>=0) HessianMatrix.element[index_i.y][n+2]+=(posB.y-comB.y)*(f2*dr.y*dr.y+f1); if(index_i.y>=0) HessianMatrix.element[index_i.y][n+3]+=(posB.z-comB.z)*(f2*dr.y*dr.z); if(index_i.z>=0) HessianMatrix.element[index_i.z][n]+=(posB.x-comB.x)*(f2*dr.z*dr.x); if(index_i.z>=0) HessianMatrix.element[index_i.z][n+1]+=0.5*((posB.z-comB.z)*(f2*dr.z*dr.x)+(posB.x-comB.x)*(f2*dr.z*dr.z+f1)); if(index_i.z>=0) HessianMatrix.element[index_i.z][n+2]+=(posB.y-comB.y)*(f2*dr.z*dr.y); if(index_i.z>=0) HessianMatrix.element[index_i.z][n+3]+=(posB.z-comB.z)*(f2*dr.z*dr.z+f1); } if(index_j.x>=0) HessianMatrix.element[index_j.x][n]-=(posB.x-comB.x)*(f2*dr.x*dr.x+f1); if(index_j.x>=0) HessianMatrix.element[index_j.x][n+1]-=0.5*((posB.z-comB.z)*(f2*dr.x*dr.x+f1)+(posB.x-comB.x)*(f2*dr.x*dr.z)); if(index_j.x>=0) HessianMatrix.element[index_j.x][n+2]-=(posB.y-comB.y)*(f2*dr.x*dr.y); if(index_j.x>=0) HessianMatrix.element[index_j.x][n+3]-=(posB.z-comB.z)*(f2*dr.x*dr.z); if(index_j.y>=0) HessianMatrix.element[index_j.y][n]-=(posB.x-comB.x)*(f2*dr.y*dr.x); if(index_j.y>=0) HessianMatrix.element[index_j.y][n+1]-=0.5*((posB.z-comB.z)*(f2*dr.y*dr.x)+(posB.x-comB.x)*(f2*dr.y*dr.z)); if(index_j.y>=0) HessianMatrix.element[index_j.y][n+2]-=(posB.y-comB.y)*(f2*dr.y*dr.y+f1); if(index_j.y>=0) HessianMatrix.element[index_j.y][n+3]-=(posB.z-comB.z)*(f2*dr.y*dr.z); if(index_j.z>=0) HessianMatrix.element[index_j.z][n]-=(posB.x-comB.x)*(f2*dr.z*dr.x); if(index_j.z>=0) HessianMatrix.element[index_j.z][n+1]-=0.5*((posB.z-comB.z)*(f2*dr.z*dr.x)+(posB.x-comB.x)*(f2*dr.z*dr.z+f1)); if(index_j.z>=0) HessianMatrix.element[index_j.z][n+2]-=(posB.y-comB.y)*(f2*dr.z*dr.y); if(index_j.z>=0) HessianMatrix.element[index_j.z][n+3]-=(posB.z-comB.z)*(f2*dr.z*dr.z+f1); break; case MONOCLINIC_GAMMA_ANGLE: if(Framework[CurrentSystem].FrameworkModel==FLEXIBLE) { if(index_i.x>=0) HessianMatrix.element[index_i.x][n]+=(posB.x-comB.x)*(f2*dr.x*dr.x+f1); if(index_i.x>=0) HessianMatrix.element[index_i.x][n+1]+=0.5*((posB.y-comB.y)*(f2*dr.x*dr.x+f1)+(posB.x-comB.x)*(f2*dr.x*dr.y)); if(index_i.x>=0) HessianMatrix.element[index_i.x][n+2]+=(posB.y-comB.y)*(f2*dr.x*dr.y); if(index_i.x>=0) HessianMatrix.element[index_i.x][n+3]+=(posB.z-comB.z)*(f2*dr.x*dr.z); if(index_i.y>=0) HessianMatrix.element[index_i.y][n]+=(posB.x-comB.x)*(f2*dr.y*dr.x); if(index_i.y>=0) HessianMatrix.element[index_i.y][n+1]+=0.5*((posB.y-comB.y)*(f2*dr.y*dr.x)+(posB.x-comB.x)*(f2*dr.y*dr.y+f1)); if(index_i.y>=0) HessianMatrix.element[index_i.y][n+2]+=(posB.y-comB.y)*(f2*dr.y*dr.y+f1); if(index_i.y>=0) HessianMatrix.element[index_i.y][n+3]+=(posB.z-comB.z)*(f2*dr.y*dr.z); if(index_i.z>=0) HessianMatrix.element[index_i.z][n]+=(posB.x-comB.x)*(f2*dr.z*dr.x); if(index_i.z>=0) HessianMatrix.element[index_i.z][n+1]+=0.5*((posB.y-comB.y)*(f2*dr.z*dr.x)+(posB.x-comB.x)*(f2*dr.z*dr.y)); if(index_i.z>=0) HessianMatrix.element[index_i.z][n+2]+=(posB.y-comB.y)*(f2*dr.z*dr.y); if(index_i.z>=0) HessianMatrix.element[index_i.z][n+3]+=(posB.z-comB.z)*(f2*dr.z*dr.z+f1); } if(index_j.x>=0) HessianMatrix.element[index_j.x][n]-=(posB.x-comB.x)*(f2*dr.x*dr.x+f1); if(index_j.x>=0) HessianMatrix.element[index_j.x][n+1]-=0.5*((posB.y-comB.y)*(f2*dr.x*dr.x+f1)+(posB.x-comB.x)*(f2*dr.x*dr.y)); if(index_j.x>=0) HessianMatrix.element[index_j.x][n+2]-=(posB.y-comB.y)*(f2*dr.x*dr.y); if(index_j.x>=0) HessianMatrix.element[index_j.x][n+3]-=(posB.z-comB.z)*(f2*dr.x*dr.z); if(index_j.y>=0) HessianMatrix.element[index_j.y][n]-=(posB.x-comB.x)*(f2*dr.y*dr.x); if(index_j.y>=0) HessianMatrix.element[index_j.y][n+1]-=0.5*((posB.y-comB.y)*(f2*dr.y*dr.x)+(posB.x-comB.x)*(f2*dr.y*dr.y+f1)); if(index_j.y>=0) HessianMatrix.element[index_j.y][n+2]-=(posB.y-comB.y)*(f2*dr.y*dr.y+f1); if(index_j.y>=0) HessianMatrix.element[index_j.y][n+3]-=(posB.z-comB.z)*(f2*dr.y*dr.z); if(index_j.z>=0) HessianMatrix.element[index_j.z][n]-=(posB.x-comB.x)*(f2*dr.z*dr.x); if(index_j.z>=0) HessianMatrix.element[index_j.z][n+1]-=0.5*((posB.y-comB.y)*(f2*dr.z*dr.x)+(posB.x-comB.x)*(f2*dr.z*dr.y)); if(index_j.z>=0) HessianMatrix.element[index_j.z][n+2]-=(posB.y-comB.y)*(f2*dr.z*dr.y); if(index_j.z>=0) HessianMatrix.element[index_j.z][n+3]-=(posB.z-comB.z)*(f2*dr.z*dr.z+f1); break; } break; case MONOCLINIC_UPPER_TRIANGLE: switch(MonoclinicAngleType[CurrentSystem]) { case MONOCLINIC_ALPHA_ANGLE: if(Framework[CurrentSystem].FrameworkModel==FLEXIBLE) { if(index_i.x>=0) HessianMatrix.element[index_i.x][n ]+=(posB.x-comB.x)*(f2*dr.x*dr.x+f1); if(index_i.x>=0) HessianMatrix.element[index_i.x][n+1]+=(posB.y-comB.y)*(f2*dr.x*dr.y); if(index_i.x>=0) HessianMatrix.element[index_i.x][n+2]+=(posB.z-comB.z)*(f2*dr.x*dr.y); if(index_i.x>=0) HessianMatrix.element[index_i.x][n+3]+=(posB.z-comB.z)*(f2*dr.x*dr.z); if(index_i.y>=0) HessianMatrix.element[index_i.y][n ]+=(posB.x-comB.x)*(f2*dr.y*dr.x); if(index_i.y>=0) HessianMatrix.element[index_i.y][n+1]+=(posB.y-comB.y)*(f2*dr.y*dr.y+f1); if(index_i.y>=0) HessianMatrix.element[index_i.y][n+2]+=(posB.z-comB.z)*(f2*dr.y*dr.y+f1); if(index_i.y>=0) HessianMatrix.element[index_i.y][n+3]+=(posB.z-comB.z)*(f2*dr.y*dr.z); if(index_i.z>=0) HessianMatrix.element[index_i.z][n ]+=(posB.x-comB.x)*(f2*dr.z*dr.x); if(index_i.z>=0) HessianMatrix.element[index_i.z][n+1]+=(posB.y-comB.y)*(f2*dr.z*dr.y); if(index_i.z>=0) HessianMatrix.element[index_i.z][n+2]+=(posB.z-comB.z)*(f2*dr.z*dr.y); if(index_i.z>=0) HessianMatrix.element[index_i.z][n+3]+=(posB.z-comB.z)*(f2*dr.z*dr.z+f1); } if(index_j.x>=0) HessianMatrix.element[index_j.x][n ]-=(posB.x-comB.x)*(f2*dr.x*dr.x+f1); if(index_j.x>=0) HessianMatrix.element[index_j.x][n+1]-=(posB.y-comB.y)*(f2*dr.x*dr.y); if(index_j.x>=0) HessianMatrix.element[index_j.x][n+2]-=(posB.z-comB.z)*(f2*dr.x*dr.y); if(index_j.x>=0) HessianMatrix.element[index_j.x][n+3]-=(posB.z-comB.z)*(f2*dr.x*dr.z); if(index_j.y>=0) HessianMatrix.element[index_j.y][n ]-=(posB.x-comB.x)*(f2*dr.y*dr.x); if(index_j.y>=0) HessianMatrix.element[index_j.y][n+1]-=(posB.y-comB.y)*(f2*dr.y*dr.y+f1); if(index_j.y>=0) HessianMatrix.element[index_j.y][n+2]-=(posB.z-comB.z)*(f2*dr.y*dr.y+f1); if(index_j.y>=0) HessianMatrix.element[index_j.y][n+3]-=(posB.z-comB.z)*(f2*dr.y*dr.z); if(index_j.z>=0) HessianMatrix.element[index_j.z][n ]-=(posB.x-comB.x)*(f2*dr.z*dr.x); if(index_j.z>=0) HessianMatrix.element[index_j.z][n+1]-=(posB.y-comB.y)*(f2*dr.z*dr.y); if(index_j.z>=0) HessianMatrix.element[index_j.z][n+2]-=(posB.z-comB.z)*(f2*dr.z*dr.y); if(index_j.z>=0) HessianMatrix.element[index_j.z][n+3]-=(posB.z-comB.z)*(f2*dr.z*dr.z+f1); break; case MONOCLINIC_BETA_ANGLE: if(Framework[CurrentSystem].FrameworkModel==FLEXIBLE) { if(index_i.x>=0) HessianMatrix.element[index_i.x][n ]+=(posB.x-comB.x)*(f2*dr.x*dr.x+f1); if(index_i.x>=0) HessianMatrix.element[index_i.x][n+1]+=(posB.z-comB.z)*(f2*dr.x*dr.x+f1); if(index_i.x>=0) HessianMatrix.element[index_i.x][n+2]+=(posB.y-comB.y)*(f2*dr.x*dr.y); if(index_i.x>=0) HessianMatrix.element[index_i.x][n+3]+=(posB.z-comB.z)*(f2*dr.x*dr.z); if(index_i.y>=0) HessianMatrix.element[index_i.y][n ]+=(posB.x-comB.x)*(f2*dr.y*dr.x); if(index_i.y>=0) HessianMatrix.element[index_i.y][n+1]+=(posB.z-comB.z)*(f2*dr.y*dr.x); if(index_i.y>=0) HessianMatrix.element[index_i.y][n+2]+=(posB.y-comB.y)*(f2*dr.y*dr.y+f1); if(index_i.y>=0) HessianMatrix.element[index_i.y][n+3]+=(posB.z-comB.z)*(f2*dr.y*dr.z); if(index_i.z>=0) HessianMatrix.element[index_i.z][n ]+=(posB.x-comB.x)*(f2*dr.z*dr.x); if(index_i.z>=0) HessianMatrix.element[index_i.z][n+1]+=(posB.z-comB.z)*(f2*dr.z*dr.x); if(index_i.z>=0) HessianMatrix.element[index_i.z][n+2]+=(posB.y-comB.y)*(f2*dr.z*dr.y); if(index_i.z>=0) HessianMatrix.element[index_i.z][n+3]+=(posB.z-comB.z)*(f2*dr.z*dr.z+f1); } if(index_j.x>=0) HessianMatrix.element[index_j.x][n ]-=(posB.x-comB.x)*(f2*dr.x*dr.x+f1); if(index_j.x>=0) HessianMatrix.element[index_j.x][n+1]-=(posB.z-comB.z)*(f2*dr.x*dr.x+f1); if(index_j.x>=0) HessianMatrix.element[index_j.x][n+2]-=(posB.y-comB.y)*(f2*dr.x*dr.y); if(index_j.x>=0) HessianMatrix.element[index_j.x][n+3]-=(posB.z-comB.z)*(f2*dr.x*dr.z); if(index_j.y>=0) HessianMatrix.element[index_j.y][n ]-=(posB.x-comB.x)*(f2*dr.y*dr.x); if(index_j.y>=0) HessianMatrix.element[index_j.y][n+1]-=(posB.z-comB.z)*(f2*dr.y*dr.x); if(index_j.y>=0) HessianMatrix.element[index_j.y][n+2]-=(posB.y-comB.y)*(f2*dr.y*dr.y+f1); if(index_j.y>=0) HessianMatrix.element[index_j.y][n+3]-=(posB.z-comB.z)*(f2*dr.y*dr.z); if(index_j.z>=0) HessianMatrix.element[index_j.z][n ]-=(posB.x-comB.x)*(f2*dr.z*dr.x); if(index_j.z>=0) HessianMatrix.element[index_j.z][n+1]-=(posB.z-comB.z)*(f2*dr.z*dr.x); if(index_j.z>=0) HessianMatrix.element[index_j.z][n+2]-=(posB.y-comB.y)*(f2*dr.z*dr.y); if(index_j.z>=0) HessianMatrix.element[index_j.z][n+3]-=(posB.z-comB.z)*(f2*dr.z*dr.z+f1); break; case MONOCLINIC_GAMMA_ANGLE: if(Framework[CurrentSystem].FrameworkModel==FLEXIBLE) { if(index_i.x>=0) HessianMatrix.element[index_i.x][n ]+=(posB.x-comB.x)*(f2*dr.x*dr.x+f1); if(index_i.x>=0) HessianMatrix.element[index_i.x][n+1]+=(posB.y-comB.y)*(f2*dr.x*dr.x+f1); if(index_i.x>=0) HessianMatrix.element[index_i.x][n+2]+=(posB.y-comB.y)*(f2*dr.x*dr.y); if(index_i.x>=0) HessianMatrix.element[index_i.x][n+3]+=(posB.z-comB.z)*(f2*dr.x*dr.z); if(index_i.y>=0) HessianMatrix.element[index_i.y][n ]+=(posB.x-comB.x)*(f2*dr.y*dr.x); if(index_i.y>=0) HessianMatrix.element[index_i.y][n+1]+=(posB.y-comB.y)*(f2*dr.y*dr.x); if(index_i.y>=0) HessianMatrix.element[index_i.y][n+2]+=(posB.y-comB.y)*(f2*dr.y*dr.y+f1); if(index_i.y>=0) HessianMatrix.element[index_i.y][n+3]+=(posB.z-comB.z)*(f2*dr.y*dr.z); if(index_i.z>=0) HessianMatrix.element[index_i.z][n ]+=(posB.x-comB.x)*(f2*dr.z*dr.x); if(index_i.z>=0) HessianMatrix.element[index_i.z][n+1]+=(posB.y-comB.y)*(f2*dr.z*dr.x); if(index_i.z>=0) HessianMatrix.element[index_i.z][n+2]+=(posB.y-comB.y)*(f2*dr.z*dr.y); if(index_i.z>=0) HessianMatrix.element[index_i.z][n+3]+=(posB.z-comB.z)*(f2*dr.z*dr.z+f1); } if(index_j.x>=0) HessianMatrix.element[index_j.x][n ]-=(posB.x-comB.x)*(f2*dr.x*dr.x+f1); if(index_j.x>=0) HessianMatrix.element[index_j.x][n+1]-=(posB.y-comB.y)*(f2*dr.x*dr.x+f1); if(index_j.x>=0) HessianMatrix.element[index_j.x][n+2]-=(posB.y-comB.y)*(f2*dr.x*dr.y); if(index_j.x>=0) HessianMatrix.element[index_j.x][n+3]-=(posB.z-comB.z)*(f2*dr.x*dr.z); if(index_j.y>=0) HessianMatrix.element[index_j.y][n ]-=(posB.x-comB.x)*(f2*dr.y*dr.x); if(index_j.y>=0) HessianMatrix.element[index_j.y][n+1]-=(posB.y-comB.y)*(f2*dr.y*dr.x); if(index_j.y>=0) HessianMatrix.element[index_j.y][n+2]-=(posB.y-comB.y)*(f2*dr.y*dr.y+f1); if(index_j.y>=0) HessianMatrix.element[index_j.y][n+3]-=(posB.z-comB.z)*(f2*dr.y*dr.z); if(index_j.z>=0) HessianMatrix.element[index_j.z][n ]-=(posB.x-comB.x)*(f2*dr.z*dr.x); if(index_j.z>=0) HessianMatrix.element[index_j.z][n+1]-=(posB.y-comB.y)*(f2*dr.z*dr.x); if(index_j.z>=0) HessianMatrix.element[index_j.z][n+2]-=(posB.y-comB.y)*(f2*dr.z*dr.y); if(index_j.z>=0) HessianMatrix.element[index_j.z][n+3]-=(posB.z-comB.z)*(f2*dr.z*dr.z+f1); break; } break; default: fprintf(stderr, "Unknown NPTPRCellType\n"); exit(0); break; } break; case NVT: case NVE: break; } } // Hessian: Orientation - Strain (part I) // ====================================== static inline void HessianOrientationStrainJ(REAL_MATRIX HessianMatrix,INT_VECTOR3 index_j2,int index2,REAL f1,REAL f2,VECTOR dr) { int n; REAL_MATRIX3x3 Hessian; VECTOR vecj1,vecj2,vecj3; n=NumberOfCoordinatesMinimizationVariables; vecj1=DVecX[index2]; vecj2=DVecY[index2]; vecj3=DVecZ[index2]; Hessian.ax=f2*(dr.x*vecj1.x+dr.y*vecj1.y+dr.z*vecj1.z)*dr.x+f1*vecj1.x; Hessian.ay=f2*(dr.x*vecj2.x+dr.y*vecj2.y+dr.z*vecj2.z)*dr.x+f1*vecj2.x; Hessian.az=f2*(dr.x*vecj3.x+dr.y*vecj3.y+dr.z*vecj3.z)*dr.x+f1*vecj3.x; Hessian.bx=f2*(dr.x*vecj1.x+dr.y*vecj1.y+dr.z*vecj1.z)*dr.y+f1*vecj1.y; Hessian.by=f2*(dr.x*vecj2.x+dr.y*vecj2.y+dr.z*vecj2.z)*dr.y+f1*vecj2.y; Hessian.bz=f2*(dr.x*vecj3.x+dr.y*vecj3.y+dr.z*vecj3.z)*dr.y+f1*vecj3.y; Hessian.cx=f2*(dr.x*vecj1.x+dr.y*vecj1.y+dr.z*vecj1.z)*dr.z+f1*vecj1.z; Hessian.cy=f2*(dr.x*vecj2.x+dr.y*vecj2.y+dr.z*vecj2.z)*dr.z+f1*vecj2.z; Hessian.cz=f2*(dr.x*vecj3.x+dr.y*vecj3.y+dr.z*vecj3.z)*dr.z+f1*vecj3.z; switch(Ensemble[CurrentSystem]) { case NPT: if(index_j2.x>=0) HessianMatrix.element[index_j2.x][n]-=Hessian.ax*dr.x+Hessian.bx*dr.y+Hessian.cx*dr.z; if(index_j2.y>=0) HessianMatrix.element[index_j2.y][n]-=Hessian.ay*dr.x+Hessian.by*dr.y+Hessian.cy*dr.z; if(index_j2.z>=0) HessianMatrix.element[index_j2.z][n]-=Hessian.az*dr.x+Hessian.bz*dr.y+Hessian.cz*dr.z; break; case NPTPR: case NPHPR: switch(NPTPRCellType[CurrentSystem]) { case ISOTROPIC: case ANISOTROPIC: if(index_j2.x>=0) HessianMatrix.element[index_j2.x][n]-=Hessian.ax*dr.x; if(index_j2.x>=0) HessianMatrix.element[index_j2.x][n+1]-=Hessian.bx*dr.y; if(index_j2.x>=0) HessianMatrix.element[index_j2.x][n+2]-=Hessian.cx*dr.z; if(index_j2.y>=0) HessianMatrix.element[index_j2.y][n]-=Hessian.ay*dr.x; if(index_j2.y>=0) HessianMatrix.element[index_j2.y][n+1]-=Hessian.by*dr.y; if(index_j2.y>=0) HessianMatrix.element[index_j2.y][n+2]-=Hessian.cy*dr.z; if(index_j2.z>=0) HessianMatrix.element[index_j2.z][n]-=Hessian.az*dr.x; if(index_j2.z>=0) HessianMatrix.element[index_j2.z][n+1]-=Hessian.bz*dr.y; if(index_j2.z>=0) HessianMatrix.element[index_j2.z][n+2]-=Hessian.cz*dr.z; break; case REGULAR: if(index_j2.x>=0) HessianMatrix.element[index_j2.x][n]-=Hessian.ax*dr.x; if(index_j2.x>=0) HessianMatrix.element[index_j2.x][n+1]-=0.5*(Hessian.ax*dr.y+Hessian.bx*dr.x); if(index_j2.x>=0) HessianMatrix.element[index_j2.x][n+2]-=0.5*(Hessian.ax*dr.z+Hessian.cx*dr.x); if(index_j2.x>=0) HessianMatrix.element[index_j2.x][n+3]-=Hessian.bx*dr.y; if(index_j2.x>=0) HessianMatrix.element[index_j2.x][n+4]-=0.5*(Hessian.bx*dr.z+Hessian.cx*dr.y); if(index_j2.x>=0) HessianMatrix.element[index_j2.x][n+5]-=Hessian.cx*dr.z; if(index_j2.y>=0) HessianMatrix.element[index_j2.y][n]-=Hessian.ay*dr.x; if(index_j2.y>=0) HessianMatrix.element[index_j2.y][n+1]-=0.5*(Hessian.ay*dr.y+Hessian.by*dr.x); if(index_j2.y>=0) HessianMatrix.element[index_j2.y][n+2]-=0.5*(Hessian.ay*dr.z+Hessian.cy*dr.x); if(index_j2.y>=0) HessianMatrix.element[index_j2.y][n+3]-=Hessian.by*dr.y; if(index_j2.y>=0) HessianMatrix.element[index_j2.y][n+4]-=0.5*(Hessian.by*dr.z+Hessian.cy*dr.y); if(index_j2.y>=0) HessianMatrix.element[index_j2.y][n+5]-=Hessian.cy*dr.z; if(index_j2.z>=0) HessianMatrix.element[index_j2.z][n]-=Hessian.az*dr.x; if(index_j2.z>=0) HessianMatrix.element[index_j2.z][n+1]-=0.5*(Hessian.az*dr.y+Hessian.bz*dr.x); if(index_j2.z>=0) HessianMatrix.element[index_j2.z][n+2]-=0.5*(Hessian.az*dr.z+Hessian.cz*dr.x); if(index_j2.z>=0) HessianMatrix.element[index_j2.z][n+3]-=Hessian.bz*dr.y; if(index_j2.z>=0) HessianMatrix.element[index_j2.z][n+4]-=0.5*(Hessian.bz*dr.z+Hessian.cz*dr.y); if(index_j2.z>=0) HessianMatrix.element[index_j2.z][n+5]-=Hessian.cz*dr.z; break; case REGULAR_UPPER_TRIANGLE: if(index_j2.x>=0) HessianMatrix.element[index_j2.x][n ]-=Hessian.ax*dr.x; if(index_j2.x>=0) HessianMatrix.element[index_j2.x][n+1]-=Hessian.ax*dr.y; if(index_j2.x>=0) HessianMatrix.element[index_j2.x][n+2]-=Hessian.ax*dr.z; if(index_j2.x>=0) HessianMatrix.element[index_j2.x][n+3]-=Hessian.bx*dr.y; if(index_j2.x>=0) HessianMatrix.element[index_j2.x][n+4]-=Hessian.bx*dr.z; if(index_j2.x>=0) HessianMatrix.element[index_j2.x][n+5]-=Hessian.cx*dr.z; if(index_j2.y>=0) HessianMatrix.element[index_j2.y][n ]-=Hessian.ay*dr.x; if(index_j2.y>=0) HessianMatrix.element[index_j2.y][n+1]-=Hessian.ay*dr.y; if(index_j2.y>=0) HessianMatrix.element[index_j2.y][n+2]-=Hessian.ay*dr.z; if(index_j2.y>=0) HessianMatrix.element[index_j2.y][n+3]-=Hessian.by*dr.y; if(index_j2.y>=0) HessianMatrix.element[index_j2.y][n+4]-=Hessian.by*dr.z; if(index_j2.y>=0) HessianMatrix.element[index_j2.y][n+5]-=Hessian.cy*dr.z; if(index_j2.z>=0) HessianMatrix.element[index_j2.z][n ]-=Hessian.az*dr.x; if(index_j2.z>=0) HessianMatrix.element[index_j2.z][n+1]-=Hessian.az*dr.y; if(index_j2.z>=0) HessianMatrix.element[index_j2.z][n+2]-=Hessian.az*dr.z; if(index_j2.z>=0) HessianMatrix.element[index_j2.z][n+3]-=Hessian.bz*dr.y; if(index_j2.z>=0) HessianMatrix.element[index_j2.z][n+4]-=Hessian.bz*dr.z; if(index_j2.z>=0) HessianMatrix.element[index_j2.z][n+5]-=Hessian.cz*dr.z; break; case MONOCLINIC: switch(MonoclinicAngleType[CurrentSystem]) { case MONOCLINIC_ALPHA_ANGLE: if(index_j2.x>=0) HessianMatrix.element[index_j2.x][n]-=Hessian.ax*dr.x; if(index_j2.x>=0) HessianMatrix.element[index_j2.x][n+1]-=Hessian.bx*dr.y; if(index_j2.x>=0) HessianMatrix.element[index_j2.x][n+2]-=0.5*(Hessian.bx*dr.z+Hessian.cx*dr.y); if(index_j2.x>=0) HessianMatrix.element[index_j2.x][n+3]-=Hessian.cx*dr.z; if(index_j2.y>=0) HessianMatrix.element[index_j2.y][n]-=Hessian.ay*dr.x; if(index_j2.y>=0) HessianMatrix.element[index_j2.y][n+1]-=Hessian.by*dr.y; if(index_j2.y>=0) HessianMatrix.element[index_j2.y][n+2]-=0.5*(Hessian.by*dr.z+Hessian.cy*dr.y); if(index_j2.y>=0) HessianMatrix.element[index_j2.y][n+3]-=Hessian.cy*dr.z; if(index_j2.z>=0) HessianMatrix.element[index_j2.z][n]-=Hessian.az*dr.x; if(index_j2.z>=0) HessianMatrix.element[index_j2.z][n+1]-=Hessian.bz*dr.y; if(index_j2.z>=0) HessianMatrix.element[index_j2.z][n+2]-=0.5*(Hessian.bz*dr.z+Hessian.cz*dr.y); if(index_j2.z>=0) HessianMatrix.element[index_j2.z][n+3]-=Hessian.cz*dr.z; break; case MONOCLINIC_BETA_ANGLE: if(index_j2.x>=0) HessianMatrix.element[index_j2.x][n]-=Hessian.ax*dr.x; if(index_j2.x>=0) HessianMatrix.element[index_j2.x][n+1]-=0.5*(Hessian.ax*dr.z+Hessian.cx*dr.x); if(index_j2.x>=0) HessianMatrix.element[index_j2.x][n+2]-=Hessian.bx*dr.y; if(index_j2.x>=0) HessianMatrix.element[index_j2.x][n+3]-=Hessian.cx*dr.z; if(index_j2.y>=0) HessianMatrix.element[index_j2.y][n]-=Hessian.ay*dr.x; if(index_j2.y>=0) HessianMatrix.element[index_j2.y][n+1]-=0.5*(Hessian.ay*dr.z+Hessian.cy*dr.x); if(index_j2.y>=0) HessianMatrix.element[index_j2.y][n+2]-=Hessian.by*dr.y; if(index_j2.y>=0) HessianMatrix.element[index_j2.y][n+3]-=Hessian.cy*dr.z; if(index_j2.z>=0) HessianMatrix.element[index_j2.z][n]-=Hessian.az*dr.x; if(index_j2.z>=0) HessianMatrix.element[index_j2.z][n+1]-=0.5*(Hessian.az*dr.z+Hessian.cz*dr.x); if(index_j2.z>=0) HessianMatrix.element[index_j2.z][n+2]-=Hessian.bz*dr.y; if(index_j2.z>=0) HessianMatrix.element[index_j2.z][n+3]-=Hessian.cz*dr.z; break; case MONOCLINIC_GAMMA_ANGLE: if(index_j2.x>=0) HessianMatrix.element[index_j2.x][n]-=Hessian.ax*dr.x; if(index_j2.x>=0) HessianMatrix.element[index_j2.x][n+1]-=0.5*(Hessian.ax*dr.y+Hessian.bx*dr.x); if(index_j2.x>=0) HessianMatrix.element[index_j2.x][n+2]-=Hessian.bx*dr.y; if(index_j2.x>=0) HessianMatrix.element[index_j2.x][n+3]-=Hessian.cx*dr.z; if(index_j2.y>=0) HessianMatrix.element[index_j2.y][n]-=Hessian.ay*dr.x; if(index_j2.y>=0) HessianMatrix.element[index_j2.y][n+1]-=0.5*(Hessian.ay*dr.y+Hessian.by*dr.x); if(index_j2.y>=0) HessianMatrix.element[index_j2.y][n+2]-=Hessian.by*dr.y; if(index_j2.y>=0) HessianMatrix.element[index_j2.y][n+3]-=Hessian.cy*dr.z; if(index_j2.z>=0) HessianMatrix.element[index_j2.z][n]-=Hessian.az*dr.x; if(index_j2.z>=0) HessianMatrix.element[index_j2.z][n+1]-=0.5*(Hessian.az*dr.y+Hessian.bz*dr.x); if(index_j2.z>=0) HessianMatrix.element[index_j2.z][n+2]-=Hessian.bz*dr.y; if(index_j2.z>=0) HessianMatrix.element[index_j2.z][n+3]-=Hessian.cz*dr.z; break; } break; case MONOCLINIC_UPPER_TRIANGLE: switch(MonoclinicAngleType[CurrentSystem]) { case MONOCLINIC_ALPHA_ANGLE: if(index_j2.x>=0) HessianMatrix.element[index_j2.x][n ]-=Hessian.ax*dr.x; if(index_j2.x>=0) HessianMatrix.element[index_j2.x][n+1]-=Hessian.bx*dr.y; if(index_j2.x>=0) HessianMatrix.element[index_j2.x][n+2]-=Hessian.bx*dr.z; if(index_j2.x>=0) HessianMatrix.element[index_j2.x][n+3]-=Hessian.cx*dr.z; if(index_j2.y>=0) HessianMatrix.element[index_j2.y][n ]-=Hessian.ay*dr.x; if(index_j2.y>=0) HessianMatrix.element[index_j2.y][n+1]-=Hessian.by*dr.y; if(index_j2.y>=0) HessianMatrix.element[index_j2.y][n+2]-=Hessian.by*dr.z; if(index_j2.y>=0) HessianMatrix.element[index_j2.y][n+3]-=Hessian.cy*dr.z; if(index_j2.z>=0) HessianMatrix.element[index_j2.z][n ]-=Hessian.az*dr.x; if(index_j2.z>=0) HessianMatrix.element[index_j2.z][n+1]-=Hessian.bz*dr.y; if(index_j2.z>=0) HessianMatrix.element[index_j2.z][n+2]-=Hessian.bz*dr.z; if(index_j2.z>=0) HessianMatrix.element[index_j2.z][n+3]-=Hessian.cz*dr.z; break; case MONOCLINIC_BETA_ANGLE: if(index_j2.x>=0) HessianMatrix.element[index_j2.x][n ]-=Hessian.ax*dr.x; if(index_j2.x>=0) HessianMatrix.element[index_j2.x][n+1]-=Hessian.ax*dr.z; if(index_j2.x>=0) HessianMatrix.element[index_j2.x][n+2]-=Hessian.bx*dr.y; if(index_j2.x>=0) HessianMatrix.element[index_j2.x][n+3]-=Hessian.cx*dr.z; if(index_j2.y>=0) HessianMatrix.element[index_j2.y][n ]-=Hessian.ay*dr.x; if(index_j2.y>=0) HessianMatrix.element[index_j2.y][n+1]-=Hessian.ay*dr.z; if(index_j2.y>=0) HessianMatrix.element[index_j2.y][n+2]-=Hessian.by*dr.y; if(index_j2.y>=0) HessianMatrix.element[index_j2.y][n+3]-=Hessian.cy*dr.z; if(index_j2.z>=0) HessianMatrix.element[index_j2.z][n ]-=Hessian.az*dr.x; if(index_j2.z>=0) HessianMatrix.element[index_j2.z][n+1]-=Hessian.az*dr.z; if(index_j2.z>=0) HessianMatrix.element[index_j2.z][n+2]-=Hessian.bz*dr.y; if(index_j2.z>=0) HessianMatrix.element[index_j2.z][n+3]-=Hessian.cz*dr.z; break; case MONOCLINIC_GAMMA_ANGLE: if(index_j2.x>=0) HessianMatrix.element[index_j2.x][n ]-=Hessian.ax*dr.x; if(index_j2.x>=0) HessianMatrix.element[index_j2.x][n+1]-=Hessian.ax*dr.y; if(index_j2.x>=0) HessianMatrix.element[index_j2.x][n+2]-=Hessian.bx*dr.y; if(index_j2.x>=0) HessianMatrix.element[index_j2.x][n+3]-=Hessian.cx*dr.z; if(index_j2.y>=0) HessianMatrix.element[index_j2.y][n ]-=Hessian.ay*dr.x; if(index_j2.y>=0) HessianMatrix.element[index_j2.y][n+1]-=Hessian.ay*dr.y; if(index_j2.y>=0) HessianMatrix.element[index_j2.y][n+2]-=Hessian.by*dr.y; if(index_j2.y>=0) HessianMatrix.element[index_j2.y][n+3]-=Hessian.cy*dr.z; if(index_j2.z>=0) HessianMatrix.element[index_j2.z][n ]-=Hessian.az*dr.x; if(index_j2.z>=0) HessianMatrix.element[index_j2.z][n+1]-=Hessian.az*dr.y; if(index_j2.z>=0) HessianMatrix.element[index_j2.z][n+2]-=Hessian.bz*dr.y; if(index_j2.z>=0) HessianMatrix.element[index_j2.z][n+3]-=Hessian.cz*dr.z; break; } break; default: fprintf(stderr, "Unknown NPTPRCellType\n"); exit(0); break; } break; case NVT: case NVE: break; } } // Hessian: Orientation - Strain (part II) // ======================================= static inline void HessianOrientationStrainJ_FR(REAL_MATRIX HessianMatrix,INT_VECTOR3 index_j2,int index2,REAL f1,REAL f2, VECTOR posB,VECTOR comB,VECTOR dr) { int n; REAL_MATRIX3x3 Hessian; VECTOR vecj1,vecj2,vecj3; n=NumberOfCoordinatesMinimizationVariables; vecj1=DVecX[index2]; vecj2=DVecY[index2]; vecj3=DVecZ[index2]; Hessian.ax=f2*(dr.x*vecj1.x+dr.y*vecj1.y+dr.z*vecj1.z)*dr.x+f1*vecj1.x; Hessian.ay=f2*(dr.x*vecj2.x+dr.y*vecj2.y+dr.z*vecj2.z)*dr.x+f1*vecj2.x; Hessian.az=f2*(dr.x*vecj3.x+dr.y*vecj3.y+dr.z*vecj3.z)*dr.x+f1*vecj3.x; Hessian.bx=f2*(dr.x*vecj1.x+dr.y*vecj1.y+dr.z*vecj1.z)*dr.y+f1*vecj1.y; Hessian.by=f2*(dr.x*vecj2.x+dr.y*vecj2.y+dr.z*vecj2.z)*dr.y+f1*vecj2.y; Hessian.bz=f2*(dr.x*vecj3.x+dr.y*vecj3.y+dr.z*vecj3.z)*dr.y+f1*vecj3.y; Hessian.cx=f2*(dr.x*vecj1.x+dr.y*vecj1.y+dr.z*vecj1.z)*dr.z+f1*vecj1.z; Hessian.cy=f2*(dr.x*vecj2.x+dr.y*vecj2.y+dr.z*vecj2.z)*dr.z+f1*vecj2.z; Hessian.cz=f2*(dr.x*vecj3.x+dr.y*vecj3.y+dr.z*vecj3.z)*dr.z+f1*vecj3.z; switch(Ensemble[CurrentSystem]) { case NPT: if(index_j2.x>=0) HessianMatrix.element[index_j2.x][n]-=(posB.x-comB.x)*Hessian.ax+(posB.y-comB.y)*Hessian.bx+(posB.z-comB.z)*Hessian.cx; if(index_j2.y>=0) HessianMatrix.element[index_j2.y][n]-=(posB.x-comB.x)*Hessian.ay+(posB.y-comB.y)*Hessian.by+(posB.z-comB.z)*Hessian.cy; if(index_j2.z>=0) HessianMatrix.element[index_j2.z][n]-=(posB.x-comB.x)*Hessian.az+(posB.y-comB.y)*Hessian.bz+(posB.z-comB.z)*Hessian.cz; break; case NPTPR: case NPHPR: switch(NPTPRCellType[CurrentSystem]) { case ISOTROPIC: case ANISOTROPIC: if(index_j2.x>=0) HessianMatrix.element[index_j2.x][n]-=(posB.x-comB.x)*Hessian.ax; if(index_j2.x>=0) HessianMatrix.element[index_j2.x][n+1]-=(posB.y-comB.y)*Hessian.bx; if(index_j2.x>=0) HessianMatrix.element[index_j2.x][n+2]-=(posB.z-comB.z)*Hessian.cx; if(index_j2.y>=0) HessianMatrix.element[index_j2.y][n]-=(posB.x-comB.x)*Hessian.ay; if(index_j2.y>=0) HessianMatrix.element[index_j2.y][n+1]-=(posB.y-comB.y)*Hessian.by; if(index_j2.y>=0) HessianMatrix.element[index_j2.y][n+2]-=(posB.z-comB.z)*Hessian.cy; if(index_j2.z>=0) HessianMatrix.element[index_j2.z][n]-=(posB.x-comB.x)*Hessian.az; if(index_j2.z>=0) HessianMatrix.element[index_j2.z][n+1]-=(posB.y-comB.y)*Hessian.bz; if(index_j2.z>=0) HessianMatrix.element[index_j2.z][n+2]-=(posB.z-comB.z)*Hessian.cz; break; case REGULAR: if(index_j2.x>=0) HessianMatrix.element[index_j2.x][n]-=(posB.x-comB.x)*Hessian.ax; if(index_j2.x>=0) HessianMatrix.element[index_j2.x][n+1]-=0.5*((posB.y-comB.y)*Hessian.ax+(posB.x-comB.x)*Hessian.bx); if(index_j2.x>=0) HessianMatrix.element[index_j2.x][n+2]-=0.5*((posB.z-comB.z)*Hessian.ax+(posB.x-comB.x)*Hessian.cx); if(index_j2.x>=0) HessianMatrix.element[index_j2.x][n+3]-=(posB.y-comB.y)*Hessian.bx; if(index_j2.x>=0) HessianMatrix.element[index_j2.x][n+4]-=0.5*((posB.z-comB.z)*Hessian.bx+(posB.y-comB.y)*Hessian.cx); if(index_j2.x>=0) HessianMatrix.element[index_j2.x][n+5]-=(posB.z-comB.z)*Hessian.cx; if(index_j2.y>=0) HessianMatrix.element[index_j2.y][n]-=(posB.x-comB.x)*Hessian.ay; if(index_j2.y>=0) HessianMatrix.element[index_j2.y][n+1]-=0.5*((posB.y-comB.y)*Hessian.ay+(posB.x-comB.x)*Hessian.by); if(index_j2.y>=0) HessianMatrix.element[index_j2.y][n+2]-=0.5*((posB.z-comB.z)*Hessian.ay+(posB.x-comB.x)*Hessian.cy); if(index_j2.y>=0) HessianMatrix.element[index_j2.y][n+3]-=(posB.y-comB.y)*Hessian.by; if(index_j2.y>=0) HessianMatrix.element[index_j2.y][n+4]-=0.5*((posB.z-comB.z)*Hessian.by+(posB.y-comB.y)*Hessian.cy); if(index_j2.y>=0) HessianMatrix.element[index_j2.y][n+5]-=(posB.z-comB.z)*Hessian.cy; if(index_j2.z>=0) HessianMatrix.element[index_j2.z][n]-=(posB.x-comB.x)*Hessian.az; if(index_j2.z>=0) HessianMatrix.element[index_j2.z][n+1]-=0.5*((posB.y-comB.y)*Hessian.az+(posB.x-comB.x)*Hessian.bz); if(index_j2.z>=0) HessianMatrix.element[index_j2.z][n+2]-=0.5*((posB.z-comB.z)*Hessian.az+(posB.x-comB.x)*Hessian.cz); if(index_j2.z>=0) HessianMatrix.element[index_j2.z][n+3]-=(posB.y-comB.y)*Hessian.bz; if(index_j2.z>=0) HessianMatrix.element[index_j2.z][n+4]-=0.5*((posB.z-comB.z)*Hessian.bz+(posB.y-comB.y)*Hessian.cz); if(index_j2.z>=0) HessianMatrix.element[index_j2.z][n+5]-=(posB.z-comB.z)*Hessian.cz; break; case REGULAR_UPPER_TRIANGLE: if(index_j2.x>=0) HessianMatrix.element[index_j2.x][n ]-=(posB.x-comB.x)*Hessian.ax; if(index_j2.x>=0) HessianMatrix.element[index_j2.x][n+1]-=(posB.y-comB.y)*Hessian.ax; if(index_j2.x>=0) HessianMatrix.element[index_j2.x][n+2]-=(posB.z-comB.z)*Hessian.ax; if(index_j2.x>=0) HessianMatrix.element[index_j2.x][n+3]-=(posB.y-comB.y)*Hessian.bx; if(index_j2.x>=0) HessianMatrix.element[index_j2.x][n+4]-=(posB.z-comB.z)*Hessian.bx; if(index_j2.x>=0) HessianMatrix.element[index_j2.x][n+5]-=(posB.z-comB.z)*Hessian.cx; if(index_j2.y>=0) HessianMatrix.element[index_j2.y][n ]-=(posB.x-comB.x)*Hessian.ay; if(index_j2.y>=0) HessianMatrix.element[index_j2.y][n+1]-=(posB.y-comB.y)*Hessian.ay; if(index_j2.y>=0) HessianMatrix.element[index_j2.y][n+2]-=(posB.z-comB.z)*Hessian.ay; if(index_j2.y>=0) HessianMatrix.element[index_j2.y][n+3]-=(posB.y-comB.y)*Hessian.by; if(index_j2.y>=0) HessianMatrix.element[index_j2.y][n+4]-=(posB.z-comB.z)*Hessian.by; if(index_j2.y>=0) HessianMatrix.element[index_j2.y][n+5]-=(posB.z-comB.z)*Hessian.cy; if(index_j2.z>=0) HessianMatrix.element[index_j2.z][n ]-=(posB.x-comB.x)*Hessian.az; if(index_j2.z>=0) HessianMatrix.element[index_j2.z][n+1]-=(posB.y-comB.y)*Hessian.az; if(index_j2.z>=0) HessianMatrix.element[index_j2.z][n+2]-=(posB.z-comB.z)*Hessian.az; if(index_j2.z>=0) HessianMatrix.element[index_j2.z][n+3]-=(posB.y-comB.y)*Hessian.bz; if(index_j2.z>=0) HessianMatrix.element[index_j2.z][n+4]-=(posB.z-comB.z)*Hessian.bz; if(index_j2.z>=0) HessianMatrix.element[index_j2.z][n+5]-=(posB.z-comB.z)*Hessian.cz; break; case MONOCLINIC: switch(MonoclinicAngleType[CurrentSystem]) { case MONOCLINIC_ALPHA_ANGLE: if(index_j2.x>=0) HessianMatrix.element[index_j2.x][n]-=(posB.x-comB.x)*Hessian.ax; if(index_j2.x>=0) HessianMatrix.element[index_j2.x][n+1]-=(posB.y-comB.y)*Hessian.bx; if(index_j2.x>=0) HessianMatrix.element[index_j2.x][n+2]-=0.5*((posB.z-comB.z)*Hessian.bx+(posB.y-comB.y)*Hessian.cx); if(index_j2.x>=0) HessianMatrix.element[index_j2.x][n+3]-=(posB.z-comB.z)*Hessian.cx; if(index_j2.y>=0) HessianMatrix.element[index_j2.y][n]-=(posB.x-comB.x)*Hessian.ay; if(index_j2.y>=0) HessianMatrix.element[index_j2.y][n+1]-=(posB.y-comB.y)*Hessian.by; if(index_j2.y>=0) HessianMatrix.element[index_j2.y][n+2]-=0.5*((posB.z-comB.z)*Hessian.by+(posB.y-comB.y)*Hessian.cy); if(index_j2.y>=0) HessianMatrix.element[index_j2.y][n+3]-=(posB.z-comB.z)*Hessian.cy; if(index_j2.z>=0) HessianMatrix.element[index_j2.z][n]-=(posB.x-comB.x)*Hessian.az; if(index_j2.z>=0) HessianMatrix.element[index_j2.z][n+1]-=(posB.y-comB.y)*Hessian.bz; if(index_j2.z>=0) HessianMatrix.element[index_j2.z][n+2]-=0.5*((posB.z-comB.z)*Hessian.bz+(posB.y-comB.y)*Hessian.cz); if(index_j2.z>=0) HessianMatrix.element[index_j2.z][n+3]-=(posB.z-comB.z)*Hessian.cz; break; case MONOCLINIC_BETA_ANGLE: if(index_j2.x>=0) HessianMatrix.element[index_j2.x][n]-=(posB.x-comB.x)*Hessian.ax; if(index_j2.x>=0) HessianMatrix.element[index_j2.x][n+1]-=0.5*((posB.z-comB.z)*Hessian.ax+(posB.x-comB.x)*Hessian.cx); if(index_j2.x>=0) HessianMatrix.element[index_j2.x][n+2]-=(posB.y-comB.y)*Hessian.bx; if(index_j2.x>=0) HessianMatrix.element[index_j2.x][n+3]-=(posB.z-comB.z)*Hessian.cx; if(index_j2.y>=0) HessianMatrix.element[index_j2.y][n]-=(posB.x-comB.x)*Hessian.ay; if(index_j2.y>=0) HessianMatrix.element[index_j2.y][n+1]-=0.5*((posB.z-comB.z)*Hessian.ay+(posB.x-comB.x)*Hessian.cy); if(index_j2.y>=0) HessianMatrix.element[index_j2.y][n+2]-=(posB.y-comB.y)*Hessian.by; if(index_j2.y>=0) HessianMatrix.element[index_j2.y][n+3]-=(posB.z-comB.z)*Hessian.cy; if(index_j2.z>=0) HessianMatrix.element[index_j2.z][n]-=(posB.x-comB.x)*Hessian.az; if(index_j2.z>=0) HessianMatrix.element[index_j2.z][n+1]-=0.5*((posB.z-comB.z)*Hessian.az+(posB.x-comB.x)*Hessian.cz); if(index_j2.z>=0) HessianMatrix.element[index_j2.z][n+2]-=(posB.y-comB.y)*Hessian.bz; if(index_j2.z>=0) HessianMatrix.element[index_j2.z][n+3]-=(posB.z-comB.z)*Hessian.cz; break; case MONOCLINIC_GAMMA_ANGLE: if(index_j2.x>=0) HessianMatrix.element[index_j2.x][n]-=(posB.x-comB.x)*Hessian.ax; if(index_j2.x>=0) HessianMatrix.element[index_j2.x][n+1]-=0.5*((posB.y-comB.y)*Hessian.ax+(posB.x-comB.x)*Hessian.bx); if(index_j2.x>=0) HessianMatrix.element[index_j2.x][n+2]-=(posB.y-comB.y)*Hessian.bx; if(index_j2.x>=0) HessianMatrix.element[index_j2.x][n+3]-=(posB.z-comB.z)*Hessian.cx; if(index_j2.y>=0) HessianMatrix.element[index_j2.y][n]-=(posB.x-comB.x)*Hessian.ay; if(index_j2.y>=0) HessianMatrix.element[index_j2.y][n+1]-=0.5*((posB.y-comB.y)*Hessian.ay+(posB.x-comB.x)*Hessian.by); if(index_j2.y>=0) HessianMatrix.element[index_j2.y][n+2]-=(posB.y-comB.y)*Hessian.by; if(index_j2.y>=0) HessianMatrix.element[index_j2.y][n+3]-=(posB.z-comB.z)*Hessian.cy; if(index_j2.z>=0) HessianMatrix.element[index_j2.z][n]-=(posB.x-comB.x)*Hessian.az; if(index_j2.z>=0) HessianMatrix.element[index_j2.z][n+1]-=0.5*((posB.y-comB.y)*Hessian.az+(posB.x-comB.x)*Hessian.bz); if(index_j2.z>=0) HessianMatrix.element[index_j2.z][n+2]-=(posB.y-comB.y)*Hessian.bz; if(index_j2.z>=0) HessianMatrix.element[index_j2.z][n+3]-=(posB.z-comB.z)*Hessian.cz; break; } break; case MONOCLINIC_UPPER_TRIANGLE: switch(MonoclinicAngleType[CurrentSystem]) { case MONOCLINIC_ALPHA_ANGLE: if(index_j2.x>=0) HessianMatrix.element[index_j2.x][n ]-=(posB.x-comB.x)*Hessian.ax; if(index_j2.x>=0) HessianMatrix.element[index_j2.x][n+1]-=(posB.y-comB.y)*Hessian.bx; if(index_j2.x>=0) HessianMatrix.element[index_j2.x][n+2]-=(posB.z-comB.z)*Hessian.bx; if(index_j2.x>=0) HessianMatrix.element[index_j2.x][n+3]-=(posB.z-comB.z)*Hessian.cx; if(index_j2.y>=0) HessianMatrix.element[index_j2.y][n ]-=(posB.x-comB.x)*Hessian.ay; if(index_j2.y>=0) HessianMatrix.element[index_j2.y][n+1]-=(posB.y-comB.y)*Hessian.by; if(index_j2.y>=0) HessianMatrix.element[index_j2.y][n+2]-=(posB.z-comB.z)*Hessian.by; if(index_j2.y>=0) HessianMatrix.element[index_j2.y][n+3]-=(posB.z-comB.z)*Hessian.cy; if(index_j2.z>=0) HessianMatrix.element[index_j2.z][n ]-=(posB.x-comB.x)*Hessian.az; if(index_j2.z>=0) HessianMatrix.element[index_j2.z][n+1]-=(posB.y-comB.y)*Hessian.bz; if(index_j2.z>=0) HessianMatrix.element[index_j2.z][n+2]-=(posB.z-comB.z)*Hessian.bz; if(index_j2.z>=0) HessianMatrix.element[index_j2.z][n+3]-=(posB.z-comB.z)*Hessian.cz; break; case MONOCLINIC_BETA_ANGLE: if(index_j2.x>=0) HessianMatrix.element[index_j2.x][n ]-=(posB.x-comB.x)*Hessian.ax; if(index_j2.x>=0) HessianMatrix.element[index_j2.x][n+1]-=(posB.z-comB.z)*Hessian.ax; if(index_j2.x>=0) HessianMatrix.element[index_j2.x][n+2]-=(posB.y-comB.y)*Hessian.bx; if(index_j2.x>=0) HessianMatrix.element[index_j2.x][n+3]-=(posB.z-comB.z)*Hessian.cx; if(index_j2.y>=0) HessianMatrix.element[index_j2.y][n ]-=(posB.x-comB.x)*Hessian.ay; if(index_j2.y>=0) HessianMatrix.element[index_j2.y][n+1]-=(posB.z-comB.z)*Hessian.ay; if(index_j2.y>=0) HessianMatrix.element[index_j2.y][n+2]-=(posB.y-comB.y)*Hessian.by; if(index_j2.y>=0) HessianMatrix.element[index_j2.y][n+3]-=(posB.z-comB.z)*Hessian.cy; if(index_j2.z>=0) HessianMatrix.element[index_j2.z][n ]-=(posB.x-comB.x)*Hessian.az; if(index_j2.z>=0) HessianMatrix.element[index_j2.z][n+1]-=(posB.z-comB.z)*Hessian.az; if(index_j2.z>=0) HessianMatrix.element[index_j2.z][n+2]-=(posB.y-comB.y)*Hessian.bz; if(index_j2.z>=0) HessianMatrix.element[index_j2.z][n+3]-=(posB.z-comB.z)*Hessian.cz; break; case MONOCLINIC_GAMMA_ANGLE: if(index_j2.x>=0) HessianMatrix.element[index_j2.x][n ]-=(posB.x-comB.x)*Hessian.ax; if(index_j2.x>=0) HessianMatrix.element[index_j2.x][n+1]-=(posB.y-comB.y)*Hessian.ax; if(index_j2.x>=0) HessianMatrix.element[index_j2.x][n+2]-=(posB.y-comB.y)*Hessian.bx; if(index_j2.x>=0) HessianMatrix.element[index_j2.x][n+3]-=(posB.z-comB.z)*Hessian.cx; if(index_j2.y>=0) HessianMatrix.element[index_j2.y][n ]-=(posB.x-comB.x)*Hessian.ay; if(index_j2.y>=0) HessianMatrix.element[index_j2.y][n+1]-=(posB.y-comB.y)*Hessian.ay; if(index_j2.y>=0) HessianMatrix.element[index_j2.y][n+2]-=(posB.y-comB.y)*Hessian.by; if(index_j2.y>=0) HessianMatrix.element[index_j2.y][n+3]-=(posB.z-comB.z)*Hessian.cy; if(index_j2.z>=0) HessianMatrix.element[index_j2.z][n ]-=(posB.x-comB.x)*Hessian.az; if(index_j2.z>=0) HessianMatrix.element[index_j2.z][n+1]-=(posB.y-comB.y)*Hessian.az; if(index_j2.z>=0) HessianMatrix.element[index_j2.z][n+2]-=(posB.y-comB.y)*Hessian.bz; if(index_j2.z>=0) HessianMatrix.element[index_j2.z][n+3]-=(posB.z-comB.z)*Hessian.cz; break; } break; default: fprintf(stderr, "Unknown NPTPRCellType\n"); exit(0); break; } break; case NVT: case NVE: break; } } // Hessian: Strain - Strain // ======================== static inline void HessianAtomicStrainStrain(REAL_MATRIX HessianMatrix,REAL f1,REAL f2,VECTOR dr) { int n; n=NumberOfCoordinatesMinimizationVariables; switch(Ensemble[CurrentSystem]) { case NPT: HessianMatrix.element[n][n]+=f2*dr.x*dr.x*dr.x*dr.x+2.0*f1*dr.x*dr.x+2.0*f2*dr.x*dr.x*dr.y*dr.y+2.0*f2*dr.x*dr.x*dr.z*dr.z+ f2*dr.y*dr.y*dr.y*dr.y+2.0*f1*dr.y*dr.y+2.0*f2*dr.y*dr.y*dr.z*dr.z+f2*dr.z*dr.z*dr.z*dr.z+2.0*f1*dr.z*dr.z; break; case NPTPR: case NPHPR: switch(NPTPRCellType[CurrentSystem]) { case ISOTROPIC: case ANISOTROPIC: HessianMatrix.element[n ][n ]+=f2*dr.x*dr.x*dr.x*dr.x+2.0*f1*dr.x*dr.x; // xxxx HessianMatrix.element[n ][n+1]+=f2*dr.x*dr.x*dr.y*dr.y; // xxyy HessianMatrix.element[n ][n+2]+=f2*dr.x*dr.x*dr.z*dr.z; // xxzz HessianMatrix.element[n+1][n+1]+=f2*dr.y*dr.y*dr.y*dr.y+2.0*f1*dr.y*dr.y; // yyyy HessianMatrix.element[n+1][n+2]+=f2*dr.y*dr.y*dr.z*dr.z; // yyzz HessianMatrix.element[n+2][n+2]+=f2*dr.z*dr.z*dr.z*dr.z+2.0*f1*dr.z*dr.z; // zzzz break; case REGULAR: HessianMatrix.element[n ][n ]+=f2*dr.x*dr.x*dr.x*dr.x+2.0*f1*dr.x*dr.x; // xxxx HessianMatrix.element[n ][n+1]+=f2*dr.x*dr.x*dr.x*dr.y+f1*dr.x*dr.y; // xxxy HessianMatrix.element[n ][n+2]+=f2*dr.x*dr.x*dr.x*dr.z+f1*dr.x*dr.z; // xxxz HessianMatrix.element[n ][n+3]+=f2*dr.x*dr.x*dr.y*dr.y; // xxyy HessianMatrix.element[n ][n+4]+=f2*dr.x*dr.x*dr.y*dr.z; // xxyz HessianMatrix.element[n ][n+5]+=f2*dr.x*dr.x*dr.z*dr.z; // xxzz HessianMatrix.element[n+1][n+1]+=f2*dr.x*dr.y*dr.x*dr.y+0.5*f1*(dr.x*dr.x+dr.y*dr.y); // xyxy HessianMatrix.element[n+1][n+2]+=f2*dr.x*dr.y*dr.x*dr.z+0.5*f1*dr.y*dr.z; // xyxz HessianMatrix.element[n+1][n+3]+=f2*dr.x*dr.y*dr.y*dr.y+f1*dr.x*dr.y; // xyyy HessianMatrix.element[n+1][n+4]+=f2*dr.x*dr.y*dr.y*dr.z+0.5*f1*(dr.x*dr.z); // xyyz HessianMatrix.element[n+1][n+5]+=f2*dr.x*dr.y*dr.z*dr.z; // xyzz HessianMatrix.element[n+2][n+2]+=f2*dr.x*dr.z*dr.x*dr.z+0.5*f1*(dr.x*dr.x+dr.z*dr.z); // xzxz HessianMatrix.element[n+2][n+3]+=f2*dr.x*dr.z*dr.y*dr.y; // xzyy HessianMatrix.element[n+2][n+4]+=f2*dr.x*dr.z*dr.y*dr.z+0.5*f1*dr.x*dr.y; // xzyz HessianMatrix.element[n+2][n+5]+=f2*dr.x*dr.z*dr.z*dr.z+f1*dr.x*dr.z; // xzzz HessianMatrix.element[n+3][n+3]+=f2*dr.y*dr.y*dr.y*dr.y+2.0*f1*dr.y*dr.y; // yyyy HessianMatrix.element[n+3][n+4]+=f2*dr.y*dr.y*dr.y*dr.z+f1*dr.y*dr.z; // yyyz HessianMatrix.element[n+3][n+5]+=f2*dr.y*dr.y*dr.z*dr.z; // yyzz HessianMatrix.element[n+4][n+4]+=f2*dr.y*dr.z*dr.y*dr.z+0.5*f1*(dr.y*dr.y+dr.z*dr.z); // yzyz HessianMatrix.element[n+4][n+5]+=f2*dr.y*dr.z*dr.z*dr.z+f1*dr.y*dr.z; // yzzz HessianMatrix.element[n+5][n+5]+=f2*dr.z*dr.z*dr.z*dr.z+2.0*f1*dr.z*dr.z; // zzzz break; case REGULAR_UPPER_TRIANGLE: HessianMatrix.element[n ][n ]+=f2*dr.x*dr.x*dr.x*dr.x+2.0*f1*dr.x*dr.x; // xxxx HessianMatrix.element[n ][n+1]+=f2*dr.x*dr.x*dr.x*dr.y+f1*dr.x*dr.y; // xxxy HessianMatrix.element[n ][n+2]+=f2*dr.x*dr.x*dr.x*dr.z+f1*dr.x*dr.z; // xxxz HessianMatrix.element[n ][n+3]+=f2*dr.x*dr.x*dr.y*dr.y; // xxyy HessianMatrix.element[n ][n+4]+=f2*dr.x*dr.x*dr.y*dr.z; // xxyz HessianMatrix.element[n ][n+5]+=f2*dr.x*dr.x*dr.z*dr.z; // xxzz HessianMatrix.element[n+1][n+1]+=f2*dr.x*dr.y*dr.x*dr.y+f1*dr.y*dr.y; // xyxy HessianMatrix.element[n+1][n+2]+=f2*dr.x*dr.y*dr.x*dr.z+f1*dr.y*dr.z; // xyxz HessianMatrix.element[n+1][n+3]+=f2*dr.x*dr.y*dr.y*dr.y; // xyyy HessianMatrix.element[n+1][n+4]+=f2*dr.x*dr.y*dr.y*dr.z; // xyyz HessianMatrix.element[n+1][n+5]+=f2*dr.x*dr.y*dr.z*dr.z; // xyzz HessianMatrix.element[n+2][n+2]+=f2*dr.x*dr.z*dr.x*dr.z+f1*dr.z*dr.z; // xzxz HessianMatrix.element[n+2][n+3]+=f2*dr.x*dr.z*dr.y*dr.y; // xzyy HessianMatrix.element[n+2][n+4]+=f2*dr.x*dr.z*dr.y*dr.z; // xzyz HessianMatrix.element[n+2][n+5]+=f2*dr.x*dr.z*dr.z*dr.z; // xzzz HessianMatrix.element[n+3][n+3]+=f2*dr.y*dr.y*dr.y*dr.y+2.0*f1*dr.y*dr.y; // yyyy HessianMatrix.element[n+3][n+4]+=f2*dr.y*dr.y*dr.y*dr.z+f1*dr.y*dr.z; // yyyz HessianMatrix.element[n+3][n+5]+=f2*dr.y*dr.y*dr.z*dr.z; // yyzz HessianMatrix.element[n+4][n+4]+=f2*dr.y*dr.z*dr.y*dr.z+f1*dr.z*dr.z; // yzyz HessianMatrix.element[n+4][n+5]+=f2*dr.y*dr.z*dr.z*dr.z; // yzzz HessianMatrix.element[n+5][n+5]+=f2*dr.z*dr.z*dr.z*dr.z+2.0*f1*dr.z*dr.z; // zzzz break; case MONOCLINIC: switch(MonoclinicAngleType[CurrentSystem]) { case MONOCLINIC_ALPHA_ANGLE: HessianMatrix.element[n ][n ]+=f2*dr.x*dr.x*dr.x*dr.x+2.0*f1*dr.x*dr.x; // xxxx HessianMatrix.element[n ][n+1]+=f2*dr.x*dr.x*dr.y*dr.y; // xxyy HessianMatrix.element[n ][n+2]+=f2*dr.x*dr.x*dr.y*dr.z; // xxyz HessianMatrix.element[n ][n+3]+=f2*dr.x*dr.x*dr.z*dr.z; // xxzz HessianMatrix.element[n+1][n+1]+=f2*dr.y*dr.y*dr.y*dr.y+2.0*f1*dr.y*dr.y; // yyyy HessianMatrix.element[n+1][n+2]+=f2*dr.y*dr.y*dr.y*dr.z+f1*dr.y*dr.z; // yyyz HessianMatrix.element[n+1][n+3]+=f2*dr.y*dr.y*dr.z*dr.z; // yyzz HessianMatrix.element[n+2][n+2]+=f2*dr.y*dr.z*dr.y*dr.z+0.5*f1*(dr.y*dr.y+dr.z*dr.z); // yzyz HessianMatrix.element[n+2][n+3]+=f2*dr.y*dr.z*dr.z*dr.z+f1*dr.y*dr.z; // yzzz HessianMatrix.element[n+3][n+3]+=f2*dr.z*dr.z*dr.z*dr.z+2.0*f1*dr.z*dr.z; // zzzz break; case MONOCLINIC_BETA_ANGLE: HessianMatrix.element[n ][n ]+=f2*dr.x*dr.x*dr.x*dr.x+2.0*f1*dr.x*dr.x; // xxxx HessianMatrix.element[n ][n+1]+=f2*dr.x*dr.x*dr.x*dr.z+f1*dr.x*dr.z; // xxxz HessianMatrix.element[n ][n+2]+=f2*dr.x*dr.x*dr.y*dr.y; // xxyy HessianMatrix.element[n ][n+3]+=f2*dr.x*dr.x*dr.z*dr.z; // xxzz HessianMatrix.element[n+1][n+1]+=f2*dr.x*dr.z*dr.x*dr.z+0.5*f1*(dr.x*dr.x+dr.z*dr.z); // xzxz HessianMatrix.element[n+1][n+2]+=f2*dr.x*dr.z*dr.y*dr.y; // xzyy HessianMatrix.element[n+1][n+3]+=f2*dr.x*dr.z*dr.z*dr.z+f1*dr.x*dr.z; // xzzz HessianMatrix.element[n+2][n+2]+=f2*dr.y*dr.y*dr.y*dr.y+2.0*f1*dr.y*dr.y; // yyyy HessianMatrix.element[n+2][n+3]+=f2*dr.y*dr.y*dr.z*dr.z; // yyzz HessianMatrix.element[n+3][n+3]+=f2*dr.z*dr.z*dr.z*dr.z+2.0*f1*dr.z*dr.z; // zzzz break; case MONOCLINIC_GAMMA_ANGLE: HessianMatrix.element[n ][n ]+=f2*dr.x*dr.x*dr.x*dr.x+2.0*f1*dr.x*dr.x; // xxxx HessianMatrix.element[n ][n+1]+=f2*dr.x*dr.x*dr.x*dr.y+f1*dr.x*dr.y; // xxxy HessianMatrix.element[n ][n+2]+=f2*dr.x*dr.x*dr.y*dr.y; // xxyy HessianMatrix.element[n ][n+3]+=f2*dr.x*dr.x*dr.z*dr.z; // xxzz HessianMatrix.element[n+1][n+1]+=f2*dr.x*dr.y*dr.x*dr.y+0.5*f1*(dr.x*dr.x+dr.y*dr.y); // xyxy HessianMatrix.element[n+1][n+2]+=f2*dr.x*dr.y*dr.y*dr.y+f1*dr.x*dr.y; // xyyy HessianMatrix.element[n+1][n+3]+=f2*dr.x*dr.y*dr.z*dr.z; // xyzz HessianMatrix.element[n+2][n+2]+=f2*dr.y*dr.y*dr.y*dr.y+2.0*f1*dr.y*dr.y; // yyyy HessianMatrix.element[n+2][n+3]+=f2*dr.y*dr.y*dr.z*dr.z; // yyzz HessianMatrix.element[n+3][n+3]+=f2*dr.z*dr.z*dr.z*dr.z+2.0*f1*dr.z*dr.z; // zzzz break; } break; case MONOCLINIC_UPPER_TRIANGLE: switch(MonoclinicAngleType[CurrentSystem]) { case MONOCLINIC_ALPHA_ANGLE: HessianMatrix.element[n ][n ]+=f2*dr.x*dr.x*dr.x*dr.x+2.0*f1*dr.x*dr.x; // xxxx HessianMatrix.element[n ][n+1]+=f2*dr.x*dr.x*dr.y*dr.y; // xxyy HessianMatrix.element[n ][n+2]+=f2*dr.x*dr.x*dr.y*dr.z; // xxyz HessianMatrix.element[n ][n+3]+=f2*dr.x*dr.x*dr.z*dr.z; // xxzz HessianMatrix.element[n+1][n+1]+=f2*dr.y*dr.y*dr.y*dr.y+2.0*f1*dr.y*dr.y; // yyyy HessianMatrix.element[n+1][n+2]+=f2*dr.y*dr.y*dr.y*dr.z+f1*dr.y*dr.z; // yyyz HessianMatrix.element[n+1][n+3]+=f2*dr.y*dr.y*dr.z*dr.z; // yyzz HessianMatrix.element[n+2][n+2]+=f2*dr.y*dr.z*dr.y*dr.z+f1*dr.z*dr.z; // yzyz HessianMatrix.element[n+2][n+3]+=f2*dr.y*dr.z*dr.z*dr.z; // yzzz HessianMatrix.element[n+3][n+3]+=f2*dr.z*dr.z*dr.z*dr.z+2.0*f1*dr.z*dr.z; // zzzz break; case MONOCLINIC_BETA_ANGLE: HessianMatrix.element[n ][n ]+=f2*dr.x*dr.x*dr.x*dr.x+2.0*f1*dr.x*dr.x; // xxxx HessianMatrix.element[n ][n+1]+=f2*dr.x*dr.x*dr.x*dr.z+f1*dr.x*dr.z; // xxxz HessianMatrix.element[n ][n+2]+=f2*dr.x*dr.x*dr.y*dr.y; // xxyy HessianMatrix.element[n ][n+3]+=f2*dr.x*dr.x*dr.z*dr.z; // xxzz HessianMatrix.element[n+1][n+1]+=f2*dr.x*dr.z*dr.x*dr.z+f1*dr.z*dr.z; // xzxz HessianMatrix.element[n+1][n+2]+=f2*dr.x*dr.z*dr.y*dr.y; // xzyy HessianMatrix.element[n+1][n+3]+=f2*dr.x*dr.z*dr.z*dr.z; // xzzz HessianMatrix.element[n+2][n+2]+=f2*dr.y*dr.y*dr.y*dr.y+2.0*f1*dr.y*dr.y; // yyyy HessianMatrix.element[n+2][n+3]+=f2*dr.y*dr.y*dr.z*dr.z; // yyzz HessianMatrix.element[n+3][n+3]+=f2*dr.z*dr.z*dr.z*dr.z+2.0*f1*dr.z*dr.z; // zzzz break; case MONOCLINIC_GAMMA_ANGLE: HessianMatrix.element[n ][n ]+=f2*dr.x*dr.x*dr.x*dr.x+2.0*f1*dr.x*dr.x; // xxxx HessianMatrix.element[n ][n+1]+=f2*dr.x*dr.x*dr.x*dr.y+f1*dr.x*dr.y; // xxxy HessianMatrix.element[n ][n+2]+=f2*dr.x*dr.x*dr.y*dr.y; // xxyy HessianMatrix.element[n ][n+3]+=f2*dr.x*dr.x*dr.z*dr.z; // xxzz HessianMatrix.element[n+1][n+1]+=f2*dr.x*dr.y*dr.x*dr.y+f1*dr.y*dr.y; // xyxy HessianMatrix.element[n+1][n+2]+=f2*dr.x*dr.y*dr.y*dr.y; // xyyy HessianMatrix.element[n+1][n+3]+=f2*dr.x*dr.y*dr.z*dr.z; // xyzz HessianMatrix.element[n+2][n+2]+=f2*dr.y*dr.y*dr.y*dr.y+2.0*f1*dr.y*dr.y; // yyyy HessianMatrix.element[n+2][n+3]+=f2*dr.y*dr.y*dr.z*dr.z; // yyzz HessianMatrix.element[n+3][n+3]+=f2*dr.z*dr.z*dr.z*dr.z+2.0*f1*dr.z*dr.z; // zzzz break; } break; default: fprintf(stderr, "Unknown NPTPRCellType\n"); exit(0); break; } break; case NVT: case NVE: break; } } // Hessian: Strain - Strain (part II) // ================================== static inline void HessianCorrectionStrainStrain(REAL_MATRIX HessianMatrix,REAL f1,REAL f2,VECTOR dr,VECTOR posB,VECTOR comB) { int n; VECTOR dB,drJ; n=NumberOfCoordinatesMinimizationVariables; dB.x=posB.x-comB.x; dB.y=posB.y-comB.y; dB.z=posB.z-comB.z; drJ.x=dr.x+dB.x; drJ.y=dr.y+dB.y; drJ.z=dr.z+dB.z; switch(Ensemble[CurrentSystem]) { case NPT: // atomic correction HessianMatrix.element[n][n]+=f2*dr.x*dB.x*dr.x*dr.x+2.0*f1*dB.x*dr.x; // xxxy HessianMatrix.element[n][n]+=2.0*f2*dr.x*dB.x*dr.y*dr.y; // xxyy HessianMatrix.element[n][n]+=2.0*f2*dr.x*dB.x*dr.z*dr.z; // xxzz HessianMatrix.element[n][n]+=f2*dr.y*dB.y*dr.y*dr.y+2.0*f1*dB.y*dr.y; // yyyy HessianMatrix.element[n][n]+=2.0*f2*dr.y*dB.y*dr.z*dr.z; // yyzz HessianMatrix.element[n][n]+=f2*dr.z*dB.z*dr.z*dr.z+2.0*f1*dB.z*dr.z; // zzzz // rigid correction HessianMatrix.element[n][n]+=f2*dr.x*drJ.x*dr.x*dB.x+f1*drJ.x*dB.x; // xxxy HessianMatrix.element[n][n]+=2.0*f2*dr.x*drJ.x*dr.y*dB.y; // xxyy HessianMatrix.element[n][n]+=2.0*f2*dr.x*drJ.x*dr.z*dB.z; // xxzz HessianMatrix.element[n][n]+=f2*dr.y*drJ.y*dr.y*dB.y+f1*drJ.y*dB.y; // yyyy HessianMatrix.element[n][n]+=2.0*f2*dr.y*drJ.y*dr.z*dB.z; // yyzz HessianMatrix.element[n][n]+=f2*dr.z*drJ.z*dr.z*dB.z+f1*drJ.z*dB.z; // zzzz break; case NPTPR: case NPHPR: switch(NPTPRCellType[CurrentSystem]) { case ISOTROPIC: case ANISOTROPIC: // atomic correction HessianMatrix.element[n ][n ]+=f2*dr.x*dB.x*dr.x*dr.x+2.0*f1*dB.x*dr.x; // xxxy HessianMatrix.element[n ][n+1]+=f2*dr.x*dB.x*dr.y*dr.y; // xxyy HessianMatrix.element[n ][n+2]+=f2*dr.x*dB.x*dr.z*dr.z; // xxzz HessianMatrix.element[n+1][n+1]+=f2*dr.y*dB.y*dr.y*dr.y+2.0*f1*dB.y*dr.y; // yyyy HessianMatrix.element[n+1][n+2]+=f2*dr.y*dB.y*dr.z*dr.z; // yyzz HessianMatrix.element[n+2][n+2]+=f2*dr.z*dB.z*dr.z*dr.z+2.0*f1*dB.z*dr.z; // zzzz // rigid correction HessianMatrix.element[n ][n ]+=f2*dr.x*drJ.x*dr.x*dB.x+f1*drJ.x*dB.x; // xxxy HessianMatrix.element[n ][n+1]+=f2*dr.x*drJ.x*dr.y*dB.y; // xxyy HessianMatrix.element[n ][n+2]+=f2*dr.x*drJ.x*dr.z*dB.z; // xxzz HessianMatrix.element[n+1][n+1]+=f2*dr.y*drJ.y*dr.y*dB.y+f1*drJ.y*dB.y; // yyyy HessianMatrix.element[n+1][n+2]+=f2*dr.y*drJ.y*dr.z*dB.z; // yyzz HessianMatrix.element[n+2][n+2]+=f2*dr.z*drJ.z*dr.z*dB.z+f1*drJ.z*dB.z; // zzzz break; case REGULAR: HessianMatrix.element[n ][n ]+=f2*dr.x*dr.x*dB.x*dr.x+2.0*f1*dB.x*dr.x; // xxxx HessianMatrix.element[n ][n+1]+=f2*dr.x*dr.x*dB.x*dr.y+f1*dB.x*dr.y; // xxxy HessianMatrix.element[n ][n+2]+=f2*dr.x*dr.x*dB.x*dr.z+f1*dB.x*dr.z; // xxxz HessianMatrix.element[n ][n+3]+=f2*dr.x*dr.y*dB.x*dr.y; // xxyy HessianMatrix.element[n ][n+4]+=f2*dr.x*dr.y*dB.x*dr.z; // xxyz HessianMatrix.element[n ][n+5]+=f2*dr.x*dr.z*dB.x*dr.z; // xxzz HessianMatrix.element[n+1][n+1]+=0.5*(f2*(dr.x*dB.y*dr.x*dr.y+dr.y*dB.x*dr.x*dr.y)+f1*(dB.x*dr.x+dB.y*dr.y)); // xyxy HessianMatrix.element[n+1][n+2]+=0.5*(f2*(dr.x*dB.y*dr.x*dr.z+dr.y*dB.x*dr.x*dr.z)+f1*(dB.y*dr.z)); // xyxz HessianMatrix.element[n+1][n+3]+=0.5*f2*(dr.x*dB.y*dr.y*dr.y+dr.y*dB.x*dr.y*dr.y)+f1*(dB.x*dr.y); // xyyy HessianMatrix.element[n+1][n+4]+=0.5*f2*(dr.x*dB.y*dr.y*dr.z+dr.y*dB.x*dr.y*dr.z)+0.5*f1*(dB.x*dr.z); // xyyz HessianMatrix.element[n+1][n+5]+=0.5*f2*(dr.x*dB.y*dr.z*dr.z+dr.y*dB.x*dr.z*dr.z); // xyzz HessianMatrix.element[n+2][n+2]+=0.5*(f2*(dr.x*dB.z*dr.x*dr.z+dr.z*dB.x*dr.x*dr.z)+f1*(dB.x*dr.x+dB.z*dr.z)); // xzxz HessianMatrix.element[n+2][n+3]+=0.5*f2*(dr.x*dB.z*dr.y*dr.y+dB.x*dr.z*dr.y*dr.y); // xzyy HessianMatrix.element[n+2][n+4]+=0.5*(f2*(dr.x*dB.z*dr.y*dr.z+dB.x*dr.z*dr.y*dr.z)+f1*dB.x*dr.y); // xzyz HessianMatrix.element[n+2][n+5]+=0.5*f2*(dr.x*dB.z*dr.z*dr.z+dB.x*dr.z*dr.z*dr.z)+f1*dB.x*dr.z; // xzzz HessianMatrix.element[n+3][n+3]+=f2*dr.y*dr.y*dB.y*dr.y+2.0*f1*dB.y*dr.y; // yyyy HessianMatrix.element[n+3][n+4]+=f2*dr.y*dB.y*dr.y*dr.z+f1*dB.y*dr.z; // yyyz HessianMatrix.element[n+3][n+5]+=f2*dr.y*dB.y*dr.z*dr.z; // yyzz HessianMatrix.element[n+4][n+4]+=0.5*(f2*(dr.y*dB.z*dr.y*dr.z+dB.y*dr.z*dr.y*dr.z)+f1*(dB.y*dr.y+dB.z*dr.z)); // yzyz HessianMatrix.element[n+4][n+5]+=0.5*f2*(dr.y*dB.z*dr.z*dr.z+dB.y*dr.z*dr.z*dr.z)+f1*dB.y*dr.z; // yzzz HessianMatrix.element[n+5][n+5]+=f2*dr.z*dB.z*dr.z*dr.z+2.0*f1*dB.z*dr.z; HessianMatrix.element[n][n]+=f2*dr.x*dB.x*drJ.x*dr.x+f1*dB.x*drJ.x; HessianMatrix.element[n][n+1]+=0.5*f2*(dr.x*dB.y+dr.y*dB.x)*drJ.x*dr.x+0.5*f1*dB.y*(drJ.x); HessianMatrix.element[n][n+2]+=0.5*f2*(dr.x*dB.z+dr.z*dB.x)*drJ.x*dr.x+0.5*f1*dB.z*(drJ.x); HessianMatrix.element[n][n+3]+=0.5*(dr.y*dB.y+dr.y*dB.y)*f2*drJ.x*dr.x; HessianMatrix.element[n][n+4]+=0.5*(dr.y*dB.z+dr.z*dB.y)*f2*drJ.x*dr.x; HessianMatrix.element[n][n+5]+=0.5*(dr.z*dB.z+dr.z*dB.z)*f2*drJ.x*dr.x; HessianMatrix.element[n+1][n+1]+=0.25*f2*(dr.x*dB.y+dr.y*dB.x)*(drJ.x*dr.y+drJ.y*dr.x)+ 0.25*f1*(dB.y*drJ.y+dB.x*drJ.x); HessianMatrix.element[n+1][n+2]+=0.25*f2*(dr.x*dB.z+dr.z*dB.x)*(drJ.x*dr.y+drJ.y*dr.x)+0.25*f1*dB.z*drJ.y; HessianMatrix.element[n+1][n+3]+=0.25*f2*(dr.y*dB.y+dr.y*dB.y)*(drJ.x*dr.y+drJ.y*dr.x) +0.25*f1*(dB.y*drJ.x+dB.y*drJ.x); HessianMatrix.element[n+1][n+4]+=0.25*f2*(dr.y*dB.z+dr.z*dB.y)*(drJ.x*dr.y+drJ.y*dr.x)+0.25*f1*dB.z*drJ.x; HessianMatrix.element[n+1][n+5]+=0.25*f2*(dr.z*dB.z+dr.z*dB.z)*(drJ.x*dr.y+drJ.y*dr.x); HessianMatrix.element[n+2][n+2]+=0.25*f2*(dr.x*dB.z+dr.z*dB.x)*(drJ.x*dr.z+drJ.z*dr.x)+ 0.25*f1*(dB.z*drJ.z+dB.x*drJ.x); HessianMatrix.element[n+2][n+3]+=0.25*f2*(dr.y*dB.y+dr.y*dB.y)*(drJ.x*dr.z+drJ.z*dr.x); HessianMatrix.element[n+2][n+4]+=0.25*f2*(dr.y*dB.z+dr.z*dB.y)*(drJ.x*dr.z+drJ.z*dr.x)+0.25*f1*dB.y*drJ.x; HessianMatrix.element[n+2][n+5]+=0.25*f2*(dr.z*dB.z+dr.z*dB.z)*(drJ.x*dr.z+drJ.z*dr.x)+ 0.25*f1*(dB.z*drJ.x+dB.z*drJ.x); HessianMatrix.element[n+3][n+3]+=0.5*f2*(dr.y*dB.y+dr.y*dB.y)*(drJ.y*dr.y)+0.5*f1*(dB.y*drJ.y+dB.y*drJ.y); HessianMatrix.element[n+3][n+4]+=0.5*f2*(dr.y*dB.z+dr.z*dB.y)*(drJ.y*dr.y)+0.5*f1*dB.z*drJ.y; HessianMatrix.element[n+3][n+5]+=0.5*f2*(dr.z*dB.z+dr.z*dB.z)*(drJ.y*dr.y); HessianMatrix.element[n+4][n+4]+=0.25*f2*(dr.y*dB.z+dr.z*dB.y)*(drJ.y*dr.z+drJ.z*dr.y)+ 0.25*f1*(dB.z*drJ.z+dB.y*drJ.y); HessianMatrix.element[n+4][n+5]+=0.25*f2*(dr.z*dB.z+dr.z*dB.z)*(drJ.y*dr.z+drJ.z*dr.y)+ 0.25*f1*(dB.z*drJ.y+dB.z*drJ.y); HessianMatrix.element[n+5][n+5]+=f2*dr.z*dB.z*drJ.z*dr.z+f1*dB.z*drJ.z; break; case REGULAR_UPPER_TRIANGLE: // atomic correction HessianMatrix.element[n ][n ]+=f2*dr.x*dB.x*dr.x*dr.x+2.0*f1*dB.x*dr.x; // xxxx HessianMatrix.element[n ][n+1]+=f2*dr.x*dB.x*dr.x*dr.y+f1*dB.x*dr.y; // xxxy HessianMatrix.element[n ][n+2]+=f2*dr.x*dB.x*dr.x*dr.z+f1*dB.x*dr.z; // xxxz HessianMatrix.element[n ][n+3]+=f2*dr.x*dB.x*dr.y*dr.y; // xxyy HessianMatrix.element[n ][n+4]+=f2*dr.x*dB.x*dr.y*dr.z; // xxyz HessianMatrix.element[n ][n+5]+=f2*dr.x*dB.x*dr.z*dr.z; // xxzz HessianMatrix.element[n+1][n+1]+=f2*dr.x*dB.y*dr.x*dr.y+f1*dB.y*dr.y; // xyxy HessianMatrix.element[n+1][n+2]+=f2*dr.x*dB.y*dr.x*dr.z+f1*dB.y*dr.z; // xyxz HessianMatrix.element[n+1][n+3]+=f2*dr.x*dB.y*dr.y*dr.y; // xyyy HessianMatrix.element[n+1][n+4]+=f2*dr.x*dB.y*dr.y*dr.z; // xyyz HessianMatrix.element[n+1][n+5]+=f2*dr.x*dB.y*dr.z*dr.z; // xyzz HessianMatrix.element[n+2][n+2]+=f2*dr.x*dB.z*dr.x*dr.z+f1*dB.z*dr.z; // xzxz HessianMatrix.element[n+2][n+3]+=f2*dr.x*dB.z*dr.y*dr.y; // xzyy HessianMatrix.element[n+2][n+4]+=f2*dr.x*dB.z*dr.y*dr.z; // xzyz HessianMatrix.element[n+2][n+5]+=f2*dr.x*dB.z*dr.z*dr.z; // xzzz HessianMatrix.element[n+3][n+3]+=f2*dr.y*dB.y*dr.y*dr.y+2.0*f1*dB.y*dr.y; // yyyy HessianMatrix.element[n+3][n+4]+=f2*dr.y*dB.y*dr.y*dr.z+f1*dB.y*dr.z; // yyyz HessianMatrix.element[n+3][n+5]+=f2*dr.y*dB.y*dr.z*dr.z; // yyzz HessianMatrix.element[n+4][n+4]+=f2*dr.y*dB.z*dr.y*dr.z+f1*dB.z*dr.z; // yzyz HessianMatrix.element[n+4][n+5]+=f2*dr.y*dB.z*dr.z*dr.z; // yzzz HessianMatrix.element[n+5][n+5]+=f2*dr.z*dB.z*dr.z*dr.z+2.0*f1*dB.z*dr.z; // zzzz // rigid correction HessianMatrix.element[n ][n ]+=f2*dr.x*drJ.x*dr.x*dB.x+f1*drJ.x*dB.x; // xxxx HessianMatrix.element[n ][n+1]+=f2*dr.x*drJ.x*dr.x*dB.y+f1*drJ.x*dB.y; // xxxy HessianMatrix.element[n ][n+2]+=f2*dr.x*drJ.x*dr.x*dB.z+f1*drJ.x*dB.z; // xxxz HessianMatrix.element[n ][n+3]+=f2*dr.x*drJ.x*dr.y*dB.y; // xxyy HessianMatrix.element[n ][n+4]+=f2*dr.x*drJ.x*dr.y*dB.z; // xxyz HessianMatrix.element[n ][n+5]+=f2*dr.x*drJ.x*dr.z*dB.z; // xxzz HessianMatrix.element[n+1][n+1]+=f2*dr.x*drJ.y*dr.x*dB.y+f1*drJ.y*dB.y; // xyxy HessianMatrix.element[n+1][n+2]+=f2*dr.x*drJ.y*dr.x*dB.z+f1*drJ.y*dB.z; // xyxz HessianMatrix.element[n+1][n+3]+=f2*dr.x*drJ.y*dr.y*dB.y; // xyyy HessianMatrix.element[n+1][n+4]+=f2*dr.x*drJ.y*dr.y*dB.z; // xyyz HessianMatrix.element[n+1][n+5]+=f2*dr.x*drJ.y*dr.z*dB.z; // xyzz HessianMatrix.element[n+2][n+2]+=f2*dr.x*drJ.z*dr.x*dB.z+f1*drJ.z*dB.z; // xzxz HessianMatrix.element[n+2][n+3]+=f2*dr.x*drJ.z*dr.y*dB.y; // xzyy HessianMatrix.element[n+2][n+4]+=f2*dr.x*drJ.z*dr.y*dB.z; // xzyz HessianMatrix.element[n+2][n+5]+=f2*dr.x*drJ.z*dr.z*dB.z; // xzzz HessianMatrix.element[n+3][n+3]+=f2*dr.y*drJ.y*dr.y*dB.y+f1*drJ.y*dB.y; // yyyy HessianMatrix.element[n+3][n+4]+=f2*dr.y*drJ.y*dr.y*dB.z+f1*drJ.y*dB.z; // yyyz HessianMatrix.element[n+3][n+5]+=f2*dr.y*drJ.y*dr.z*dB.z; // yyzz HessianMatrix.element[n+4][n+4]+=f2*dr.y*drJ.z*dr.y*dB.z+f1*drJ.z*dB.z; // yzyz HessianMatrix.element[n+4][n+5]+=f2*dr.y*drJ.z*dr.z*dB.z; // yzzz HessianMatrix.element[n+5][n+5]+=f2*dr.z*drJ.z*dr.z*dB.z+f1*drJ.z*dB.z; // zzzz break; case MONOCLINIC: switch(MonoclinicAngleType[CurrentSystem]) { case MONOCLINIC_ALPHA_ANGLE: HessianMatrix.element[n ][n ]+=f2*dr.x*dr.x*dB.x*dr.x+2.0*f1*dB.x*dr.x; // xxxx HessianMatrix.element[n ][n+1]+=f2*dr.x*dr.y*dB.x*dr.y; // xxyy HessianMatrix.element[n ][n+2]+=f2*dr.x*dr.y*dB.x*dr.z; // xxyz HessianMatrix.element[n ][n+3]+=f2*dr.x*dr.z*dB.x*dr.z; // xxzz HessianMatrix.element[n+1][n+1]+=f2*dr.y*dr.y*dB.y*dr.y+2.0*f1*dB.y*dr.y; // yyyy HessianMatrix.element[n+1][n+2]+=f2*dr.y*dB.y*dr.y*dr.z+f1*dB.y*dr.z; // yyyz HessianMatrix.element[n+1][n+3]+=f2*dr.y*dB.y*dr.z*dr.z; // yyzz HessianMatrix.element[n+2][n+2]+=0.5*(f2*(dr.y*dB.z*dr.y*dr.z+dB.y*dr.z*dr.y*dr.z)+f1*(dB.y*dr.y+dB.z*dr.z)); // yzyz HessianMatrix.element[n+2][n+3]+=0.5*f2*(dr.y*dB.z*dr.z*dr.z+dB.y*dr.z*dr.z*dr.z)+f1*dB.y*dr.z; // yzzz HessianMatrix.element[n+3][n+3]+=f2*dr.z*dB.z*dr.z*dr.z+2.0*f1*dB.z*dr.z; HessianMatrix.element[n][n]+=f2*dr.x*dB.x*drJ.x*dr.x+f1*dB.x*drJ.x; HessianMatrix.element[n][n+1]+=0.5*(dr.y*dB.y+dr.y*dB.y)*f2*drJ.x*dr.x; HessianMatrix.element[n][n+2]+=0.5*(dr.y*dB.z+dr.z*dB.y)*f2*drJ.x*dr.x; HessianMatrix.element[n][n+3]+=0.5*(dr.z*dB.z+dr.z*dB.z)*f2*drJ.x*dr.x; HessianMatrix.element[n+1][n+1]+=0.5*f2*(dr.y*dB.y+dr.y*dB.y)*(drJ.y*dr.y)+0.5*f1*(dB.y*drJ.y+dB.y*drJ.y); HessianMatrix.element[n+1][n+2]+=0.5*f2*(dr.y*dB.z+dr.z*dB.y)*(drJ.y*dr.y)+0.5*f1*dB.z*drJ.y; HessianMatrix.element[n+1][n+3]+=0.5*f2*(dr.z*dB.z+dr.z*dB.z)*(drJ.y*dr.y); HessianMatrix.element[n+2][n+2]+=0.25*f2*(dr.y*dB.z+dr.z*dB.y)*(drJ.y*dr.z+drJ.z*dr.y)+ 0.25*f1*(dB.z*drJ.z+dB.y*drJ.y); HessianMatrix.element[n+2][n+3]+=0.25*f2*(dr.z*dB.z+dr.z*dB.z)*(drJ.y*dr.z+drJ.z*dr.y)+ 0.25*f1*(dB.z*drJ.y+dB.z*drJ.y); HessianMatrix.element[n+3][n+3]+=f2*dr.z*dB.z*drJ.z*dr.z+f1*dB.z*drJ.z; break; case MONOCLINIC_BETA_ANGLE: HessianMatrix.element[n ][n ]+=f2*dr.x*dr.x*dB.x*dr.x+2.0*f1*dB.x*dr.x; // xxxx HessianMatrix.element[n ][n+1]+=f2*dr.x*dr.x*dB.x*dr.z+f1*dB.x*dr.z; // xxxz HessianMatrix.element[n ][n+2]+=f2*dr.x*dr.y*dB.x*dr.y; // xxyy HessianMatrix.element[n ][n+3]+=f2*dr.x*dr.z*dB.x*dr.z; // xxzz HessianMatrix.element[n+1][n+1]+=0.5*(f2*(dr.x*dB.z*dr.x*dr.z+dr.z*dB.x*dr.x*dr.z)+f1*(dB.x*dr.x+dB.z*dr.z)); // xzxz HessianMatrix.element[n+1][n+2]+=0.5*f2*(dr.x*dB.z*dr.y*dr.y+dB.x*dr.z*dr.y*dr.y); // xzyy HessianMatrix.element[n+1][n+3]+=0.5*f2*(dr.x*dB.z*dr.z*dr.z+dB.x*dr.z*dr.z*dr.z)+f1*dB.x*dr.z; // xzzz HessianMatrix.element[n+2][n+2]+=f2*dr.y*dr.y*dB.y*dr.y+2.0*f1*dB.y*dr.y; // yyyy HessianMatrix.element[n+2][n+3]+=f2*dr.y*dB.y*dr.z*dr.z; // yyzz HessianMatrix.element[n+3][n+3]+=f2*dr.z*dB.z*dr.z*dr.z+2.0*f1*dB.z*dr.z; HessianMatrix.element[n][n]+=f2*dr.x*dB.x*drJ.x*dr.x+f1*dB.x*drJ.x; HessianMatrix.element[n][n+1]+=0.5*f2*(dr.x*dB.z+dr.z*dB.x)*drJ.x*dr.x+0.5*f1*dB.z*(drJ.x); HessianMatrix.element[n][n+2]+=0.5*(dr.y*dB.y+dr.y*dB.y)*f2*drJ.x*dr.x; HessianMatrix.element[n][n+3]+=0.5*(dr.z*dB.z+dr.z*dB.z)*f2*drJ.x*dr.x; HessianMatrix.element[n+1][n+1]+=0.25*f2*(dr.x*dB.z+dr.z*dB.x)*(drJ.x*dr.z+drJ.z*dr.x)+ 0.25*f1*(dB.z*drJ.z+dB.x*drJ.x); HessianMatrix.element[n+1][n+2]+=0.25*f2*(dr.y*dB.y+dr.y*dB.y)*(drJ.x*dr.z+drJ.z*dr.x); HessianMatrix.element[n+1][n+3]+=0.25*f2*(dr.z*dB.z+dr.z*dB.z)*(drJ.x*dr.z+drJ.z*dr.x)+ 0.25*f1*(dB.z*drJ.x+dB.z*drJ.x); HessianMatrix.element[n+2][n+2]+=0.5*f2*(dr.y*dB.y+dr.y*dB.y)*(drJ.y*dr.y)+0.5*f1*(dB.y*drJ.y+dB.y*drJ.y); HessianMatrix.element[n+2][n+3]+=0.5*f2*(dr.z*dB.z+dr.z*dB.z)*(drJ.y*dr.y); HessianMatrix.element[n+3][n+3]+=f2*dr.z*dB.z*drJ.z*dr.z+f1*dB.z*drJ.z; break; case MONOCLINIC_GAMMA_ANGLE: HessianMatrix.element[n ][n ]+=f2*dr.x*dr.x*dB.x*dr.x+2.0*f1*dB.x*dr.x; // xxxx HessianMatrix.element[n ][n+1]+=f2*dr.x*dr.x*dB.x*dr.y+f1*dB.x*dr.y; // xxxy HessianMatrix.element[n ][n+2]+=f2*dr.x*dr.y*dB.x*dr.y; // xxyy HessianMatrix.element[n ][n+3]+=f2*dr.x*dr.z*dB.x*dr.z; // xxzz HessianMatrix.element[n+1][n+1]+=0.5*(f2*(dr.x*dB.y*dr.x*dr.y+dr.y*dB.x*dr.x*dr.y)+f1*(dB.x*dr.x+dB.y*dr.y)); // xyxy HessianMatrix.element[n+1][n+2]+=0.5*f2*(dr.x*dB.y*dr.y*dr.y+dr.y*dB.x*dr.y*dr.y)+f1*(dB.x*dr.y); // xyyy HessianMatrix.element[n+1][n+3]+=0.5*f2*(dr.x*dB.y*dr.z*dr.z+dr.y*dB.x*dr.z*dr.z); // xyzz HessianMatrix.element[n+2][n+2]+=f2*dr.y*dr.y*dB.y*dr.y+2.0*f1*dB.y*dr.y; // yyyy HessianMatrix.element[n+2][n+3]+=f2*dr.y*dB.y*dr.z*dr.z; // yyzz HessianMatrix.element[n+3][n+3]+=f2*dr.z*dB.z*dr.z*dr.z+2.0*f1*dB.z*dr.z; HessianMatrix.element[n][n]+=f2*dr.x*dB.x*drJ.x*dr.x+f1*dB.x*drJ.x; HessianMatrix.element[n][n+1]+=0.5*f2*(dr.x*dB.y+dr.y*dB.x)*drJ.x*dr.x+0.5*f1*dB.y*(drJ.x); HessianMatrix.element[n][n+2]+=0.5*(dr.y*dB.y+dr.y*dB.y)*f2*drJ.x*dr.x; HessianMatrix.element[n][n+3]+=0.5*(dr.z*dB.z+dr.z*dB.z)*f2*drJ.x*dr.x; HessianMatrix.element[n+1][n+1]+=0.25*f2*(dr.x*dB.y+dr.y*dB.x)*(drJ.x*dr.y+drJ.y*dr.x)+ 0.25*f1*(dB.y*drJ.y+dB.x*drJ.x); HessianMatrix.element[n+1][n+2]+=0.25*f2*(dr.y*dB.y+dr.y*dB.y)*(drJ.x*dr.y+drJ.y*dr.x) +0.25*f1*(dB.y*drJ.x+dB.y*drJ.x); HessianMatrix.element[n+1][n+3]+=0.25*f2*(dr.z*dB.z+dr.z*dB.z)*(drJ.x*dr.y+drJ.y*dr.x); HessianMatrix.element[n+2][n+2]+=0.5*f2*(dr.y*dB.y+dr.y*dB.y)*(drJ.y*dr.y)+0.5*f1*(dB.y*drJ.y+dB.y*drJ.y); HessianMatrix.element[n+2][n+3]+=0.5*f2*(dr.z*dB.z+dr.z*dB.z)*(drJ.y*dr.y); HessianMatrix.element[n+3][n+3]+=f2*dr.z*dB.z*drJ.z*dr.z+f1*dB.z*drJ.z; break; } break; case MONOCLINIC_UPPER_TRIANGLE: switch(MonoclinicAngleType[CurrentSystem]) { case MONOCLINIC_ALPHA_ANGLE: // atomic correction HessianMatrix.element[n ][n ]+=f2*dr.x*dB.x*dr.x*dr.x+2.0*f1*dB.x*dr.x; // xxxy HessianMatrix.element[n ][n+1]+=f2*dr.x*dB.x*dr.y*dr.y; // xxyy HessianMatrix.element[n ][n+2]+=f2*dr.x*dB.x*dr.y*dr.z; // xxyz HessianMatrix.element[n ][n+3]+=f2*dr.x*dB.x*dr.z*dr.z; // xxzz HessianMatrix.element[n+1][n+1]+=f2*dr.y*dB.y*dr.y*dr.y+2.0*f1*dB.y*dr.y; // yyyy HessianMatrix.element[n+1][n+2]+=f2*dr.y*dB.y*dr.y*dr.z+f1*dB.y*dr.z; // yyyz HessianMatrix.element[n+1][n+3]+=f2*dr.y*dB.y*dr.z*dr.z; // yyzz HessianMatrix.element[n+2][n+2]+=f2*dr.y*dB.z*dr.y*dr.z+f1*dB.z*dr.z; // yzyz HessianMatrix.element[n+2][n+3]+=f2*dr.y*dB.z*dr.z*dr.z; // yzzz HessianMatrix.element[n+3][n+3]+=f2*dr.z*dB.z*dr.z*dr.z+2.0*f1*dB.z*dr.z; // zzzz // rigid correction HessianMatrix.element[n ][n ]+=f2*dr.x*drJ.x*dr.x*dB.x+f1*drJ.x*dB.x; // xxxy HessianMatrix.element[n ][n+1]+=f2*dr.x*drJ.x*dr.y*dB.y; // xxyy HessianMatrix.element[n ][n+2]+=f2*dr.x*drJ.x*dr.y*dB.z; // xxyz HessianMatrix.element[n ][n+3]+=f2*dr.x*drJ.x*dr.z*dB.z; // xxzz HessianMatrix.element[n+1][n+1]+=f2*dr.y*drJ.y*dr.y*dB.y+f1*drJ.y*dB.y; // yyyy HessianMatrix.element[n+1][n+2]+=f2*dr.y*drJ.y*dr.y*dB.z+f1*drJ.y*dB.z; // yyyz HessianMatrix.element[n+1][n+3]+=f2*dr.y*drJ.y*dr.z*dB.z; // yyzz HessianMatrix.element[n+2][n+2]+=f2*dr.y*drJ.z*dr.y*dB.z+f1*drJ.z*dB.z; // yzyz HessianMatrix.element[n+2][n+3]+=f2*dr.y*drJ.z*dr.z*dB.z; // yzzz HessianMatrix.element[n+3][n+3]+=f2*dr.z*drJ.z*dr.z*dB.z+f1*drJ.z*dB.z; // zzzz break; case MONOCLINIC_BETA_ANGLE: // atomic correction HessianMatrix.element[n ][n ]+=f2*dr.x*dB.x*dr.x*dr.x+2.0*f1*dB.x*dr.x; // xxxy HessianMatrix.element[n ][n+1]+=f2*dr.x*dB.x*dr.x*dr.z+f1*dB.x*dr.z; // xxxz HessianMatrix.element[n ][n+2]+=f2*dr.x*dB.x*dr.y*dr.y; // xxyy HessianMatrix.element[n ][n+3]+=f2*dr.x*dB.x*dr.z*dr.z; // xxzz HessianMatrix.element[n+1][n+1]+=f2*dr.x*dB.z*dr.x*dr.z+f1*dB.z*dr.z; // xzxz HessianMatrix.element[n+1][n+2]+=f2*dr.x*dB.z*dr.y*dr.y; // xzyy HessianMatrix.element[n+1][n+3]+=f2*dr.x*dB.z*dr.z*dr.z; // xzzz HessianMatrix.element[n+2][n+2]+=f2*dr.y*dB.y*dr.y*dr.y+2.0*f1*dB.y*dr.y; // yyyy HessianMatrix.element[n+2][n+3]+=f2*dr.y*dB.y*dr.z*dr.z; // yyzz HessianMatrix.element[n+3][n+3]+=f2*dr.z*dB.z*dr.z*dr.z+2.0*f1*dB.z*dr.z; // zzzz // rigid correction HessianMatrix.element[n ][n ]+=f2*dr.x*drJ.x*dr.x*dB.x+f1*drJ.x*dB.x; // xxxy HessianMatrix.element[n ][n+1]+=f2*dr.x*drJ.x*dr.x*dB.z+f1*drJ.x*dB.z; // xxxz HessianMatrix.element[n ][n+2]+=f2*dr.x*drJ.x*dr.y*dB.y; // xxyy HessianMatrix.element[n ][n+3]+=f2*dr.x*drJ.x*dr.z*dB.z; // xxzz HessianMatrix.element[n+1][n+1]+=f2*dr.x*drJ.z*dr.x*dB.z+f1*drJ.z*dB.z; // xzxz HessianMatrix.element[n+1][n+2]+=f2*dr.x*drJ.z*dr.y*dB.y; // xzyy HessianMatrix.element[n+1][n+3]+=f2*dr.x*drJ.z*dr.z*dB.z; // xzzz HessianMatrix.element[n+2][n+2]+=f2*dr.y*drJ.y*dr.y*dB.y+f1*drJ.y*dB.y; // yyyy HessianMatrix.element[n+2][n+3]+=f2*dr.y*drJ.y*dr.z*dB.z; // yyzz HessianMatrix.element[n+3][n+3]+=f2*dr.z*drJ.z*dr.z*dB.z+f1*drJ.z*dB.z; // zzzz break; case MONOCLINIC_GAMMA_ANGLE: // atomic correction HessianMatrix.element[n ][n ]+=f2*dr.x*dB.x*dr.x*dr.x+2.0*f1*dB.x*dr.x; // xxxy HessianMatrix.element[n ][n+1]+=f2*dr.x*dB.x*dr.x*dr.y+f1*dB.x*dr.y; // xxxy HessianMatrix.element[n ][n+2]+=f2*dr.x*dB.x*dr.y*dr.y; // xxyy HessianMatrix.element[n ][n+3]+=f2*dr.x*dB.x*dr.z*dr.z; // xxzz HessianMatrix.element[n+1][n+1]+=f2*dr.x*dB.y*dr.x*dr.y+f1*dB.y*dr.y; // xyxy HessianMatrix.element[n+1][n+2]+=f2*dr.x*dB.y*dr.y*dr.y; // xyyy HessianMatrix.element[n+1][n+3]+=f2*dr.x*dB.y*dr.z*dr.z; // xyzz HessianMatrix.element[n+2][n+2]+=f2*dr.y*dB.y*dr.y*dr.y+2.0*f1*dB.y*dr.y; // yyyy HessianMatrix.element[n+2][n+3]+=f2*dr.y*dB.y*dr.z*dr.z; // yyzz HessianMatrix.element[n+3][n+3]+=f2*dr.z*dB.z*dr.z*dr.z+2.0*f1*dB.z*dr.z; // zzzz // rigid correction HessianMatrix.element[n ][n ]+=f2*dr.x*drJ.x*dr.x*dB.x+f1*drJ.x*dB.x; // xxxy HessianMatrix.element[n ][n+1]+=f2*dr.x*drJ.x*dr.x*dB.y+f1*drJ.x*dB.y; // xxxy HessianMatrix.element[n ][n+2]+=f2*dr.x*drJ.x*dr.y*dB.y; // xxyy HessianMatrix.element[n ][n+3]+=f2*dr.x*drJ.x*dr.z*dB.z; // xxzz HessianMatrix.element[n+1][n+1]+=f2*dr.x*drJ.y*dr.x*dB.y+f1*drJ.y*dB.y; // xyxy HessianMatrix.element[n+1][n+2]+=f2*dr.x*drJ.y*dr.y*dB.y; // xyyy HessianMatrix.element[n+1][n+3]+=f2*dr.x*drJ.y*dr.z*dB.z; // xyzz HessianMatrix.element[n+2][n+2]+=f2*dr.y*drJ.y*dr.y*dB.y+f1*drJ.y*dB.y; // yyyy HessianMatrix.element[n+2][n+3]+=f2*dr.y*drJ.y*dr.z*dB.z; // yyzz HessianMatrix.element[n+3][n+3]+=f2*dr.z*drJ.z*dr.z*dB.z+f1*drJ.z*dB.z; // zzzz break; } break; default: fprintf(stderr, "Unknown NPTPRCellType\n"); exit(0); break; } break; case NVT: case NVE: break; } } static inline void GradientStrain(REAL *Gradient,REAL f1,VECTOR dr) { int n; n=NumberOfCoordinatesMinimizationVariables; switch(Ensemble[CurrentSystem]) { case NPT: Gradient[n]+=f1*(dr.x*dr.x+dr.y*dr.y+dr.z*dr.z); // xx + yy + zz break; case NPTPR: case NPHPR: switch(NPTPRCellType[CurrentSystem]) { case ISOTROPIC: case ANISOTROPIC: Gradient[n ]+=f1*dr.x*dr.x; // xx Gradient[n+1]+=f1*dr.y*dr.y; // yy Gradient[n+2]+=f1*dr.z*dr.z; // zz break; case REGULAR: case REGULAR_UPPER_TRIANGLE: Gradient[n ]+=f1*dr.x*dr.x; // xx Gradient[n+1]+=f1*dr.x*dr.y; // xy Gradient[n+2]+=f1*dr.x*dr.z; // xz Gradient[n+3]+=f1*dr.y*dr.y; // yy Gradient[n+4]+=f1*dr.y*dr.z; // yz Gradient[n+5]+=f1*dr.z*dr.z; // zz break; case MONOCLINIC: case MONOCLINIC_UPPER_TRIANGLE: switch(MonoclinicAngleType[CurrentSystem]) { case MONOCLINIC_ALPHA_ANGLE: Gradient[n ]+=f1*dr.x*dr.x; // xx Gradient[n+1]+=f1*dr.y*dr.y; // yy Gradient[n+2]+=f1*dr.y*dr.z; // yz Gradient[n+3]+=f1*dr.z*dr.z; // zz break; case MONOCLINIC_BETA_ANGLE: Gradient[n ]+=f1*dr.x*dr.x; // xx Gradient[n+1]+=f1*dr.x*dr.z; // xz Gradient[n+2]+=f1*dr.y*dr.y; // yy Gradient[n+3]+=f1*dr.z*dr.z; // zz break; case MONOCLINIC_GAMMA_ANGLE: Gradient[n ]+=f1*dr.x*dr.x; // xx Gradient[n+1]+=f1*dr.x*dr.y; // xy Gradient[n+2]+=f1*dr.y*dr.y; // yy Gradient[n+3]+=f1*dr.z*dr.z; // zz break; } break; default: fprintf(stderr, "Unknown NPTPRCellType\n"); exit(0); break; } break; case NVT: case NVE: break; } } static inline void GradientStrainJ(REAL *Gradient,REAL f1,VECTOR dr,VECTOR posB,VECTOR comB) { int n; n=NumberOfCoordinatesMinimizationVariables; switch(Ensemble[CurrentSystem]) { case NPT: Gradient[n ]+=f1*(dr.x*(posB.x-comB.x)+dr.y*(posB.y-comB.y)+dr.z*(posB.z-comB.z)); // xx + yy + zz break; case NPTPR: case NPHPR: switch(NPTPRCellType[CurrentSystem]) { case ISOTROPIC: case ANISOTROPIC: Gradient[n ]+=f1*dr.x*(posB.x-comB.x); // xx Gradient[n+1]+=f1*dr.y*(posB.y-comB.y); // yy Gradient[n+2]+=f1*dr.z*(posB.z-comB.z); // zz break; case REGULAR: Gradient[n ]+=f1*dr.x*(posB.x-comB.x); // xx Gradient[n+1]+=f1*0.5*(dr.x*(posB.y-comB.y)+dr.y*(posB.x-comB.x)); // xy Gradient[n+2]+=f1*0.5*(dr.x*(posB.z-comB.z)+dr.z*(posB.x-comB.x)); // xz Gradient[n+3]+=f1*(posB.y-comB.y)*dr.y; // yy Gradient[n+4]+=f1*0.5*(dr.y*(posB.z-comB.z)+dr.z*(posB.y-comB.y)); // yz Gradient[n+5]+=f1*dr.z*(posB.z-comB.z); // zz break; case REGULAR_UPPER_TRIANGLE: Gradient[n ]+=f1*dr.x*(posB.x-comB.x); // xx Gradient[n+1]+=f1*dr.x*(posB.y-comB.y); // xy Gradient[n+2]+=f1*dr.x*(posB.z-comB.z); // xz Gradient[n+3]+=f1*dr.y*(posB.y-comB.y); // yy Gradient[n+4]+=f1*dr.y*(posB.z-comB.z); // yz Gradient[n+5]+=f1*dr.z*(posB.z-comB.z); // zz break; case MONOCLINIC: switch(MonoclinicAngleType[CurrentSystem]) { case MONOCLINIC_ALPHA_ANGLE: Gradient[n ]+=f1*dr.x*(posB.x-comB.x); // xx Gradient[n+1]+=f1*(posB.y-comB.y)*dr.y; // yy Gradient[n+2]+=f1*0.5*(dr.y*(posB.z-comB.z)+dr.z*(posB.y-comB.y)); // yz Gradient[n+3]+=f1*dr.z*(posB.z-comB.z); // zz break; case MONOCLINIC_BETA_ANGLE: Gradient[n ]+=f1*dr.x*(posB.x-comB.x); // xx Gradient[n+1]+=f1*0.5*(dr.x*(posB.z-comB.z)+dr.z*(posB.x-comB.x)); // xz Gradient[n+2]+=f1*(posB.y-comB.y)*dr.y; // yy Gradient[n+3]+=f1*dr.z*(posB.z-comB.z); // zz break; case MONOCLINIC_GAMMA_ANGLE: Gradient[n ]+=f1*dr.x*(posB.x-comB.x); // xx Gradient[n+1]+=f1*0.5*(dr.x*(posB.y-comB.y)+dr.y*(posB.x-comB.x)); // xy Gradient[n+2]+=f1*(posB.y-comB.y)*dr.y; // yy Gradient[n+3]+=f1*dr.z*(posB.z-comB.z); // zz break; } break; case MONOCLINIC_UPPER_TRIANGLE: switch(MonoclinicAngleType[CurrentSystem]) { case MONOCLINIC_ALPHA_ANGLE: Gradient[n ]+=f1*dr.x*(posB.x-comB.x); // xx Gradient[n+1]+=f1*dr.y*(posB.y-comB.y); // yy Gradient[n+2]+=f1*dr.y*(posB.z-comB.z); // yz Gradient[n+3]+=f1*dr.z*(posB.z-comB.z); // zz break; case MONOCLINIC_BETA_ANGLE: Gradient[n ]+=f1*dr.x*(posB.x-comB.x); // xx Gradient[n+1]+=f1*dr.x*(posB.z-comB.z); // xz Gradient[n+2]+=f1*dr.y*(posB.y-comB.y); // yy Gradient[n+3]+=f1*dr.z*(posB.z-comB.z); // zz break; case MONOCLINIC_GAMMA_ANGLE: Gradient[n ]+=f1*dr.x*(posB.x-comB.x); // xx Gradient[n+1]+=f1*dr.x*(posB.y-comB.y); // xy Gradient[n+2]+=f1*dr.y*(posB.y-comB.y); // yy Gradient[n+3]+=f1*dr.z*(posB.z-comB.z); // zz break; } break; default: fprintf(stderr, "Unknown NPTPRCellType\n"); exit(0); break; } break; case NVT: case NVE: break; } } /********************************************************************************************************* * Name | ComputeFrameworkAdsorbateVDWHessian * * ----------------------------------------------------------------------------------------------------- * * Function | Computes the contributions of the framework-adsorbate Van der Waals interactions to the * * | total energy, gradient, and Hessian-matrix. * * | interactions. * * Parameters | Energy: pointer to the total energy * * | Gradient: array of the gradients * * | HessianMatrix: the Hessian matrix * * | StrainDerivative: pointer to a 3x3x matrix of the strain derivative * * | ComputeGradient: Boolean whether or not to compute the gradient * * | ComputeHessian: Boolean whether or not to compute the Hessian matrix * * Note | * * Used in | void EvaluateDerivatives(...) * *********************************************************************************************************/ void ComputeFrameworkAdsorbateVDWHessian(REAL *Energy,REAL* Gradient,REAL_MATRIX HessianMatrix, REAL_MATRIX3x3 *StrainDerivative,int ComputeGradient,int ComputeHessian) { int J,i,j,jg,ja,fr; int typeA,typeB; int TypeMolB; REAL rr; REAL energy,f1,f2; VECTOR posA,posB,dr; INT_VECTOR3 index_i,index_j,index_j2; int index2; REAL ChargeA,ChargeB; VECTOR pos,comB; REAL r,temp1,temp2,temp3; int ncell,k1,k2,k3; REAL scalingB; f1=f2=0.0; index2=0; // first loop over adsorbate molecules for(fr=0;frax+=f1*dr.x*dr.x; StrainDerivative->bx+=f1*dr.x*dr.y; StrainDerivative->cx+=f1*dr.x*dr.z; StrainDerivative->ay+=f1*dr.y*dr.x; StrainDerivative->by+=f1*dr.y*dr.y; StrainDerivative->cy+=f1*dr.y*dr.z; StrainDerivative->az+=f1*dr.z*dr.x; StrainDerivative->bz+=f1*dr.z*dr.y; StrainDerivative->cz+=f1*dr.z*dr.z; if(Components[TypeMolB].Groups[jg].Rigid) { comB=Adsorbates[CurrentSystem][J].Groups[jg].CenterOfMassPosition; comB.x+=ReplicaShift[ncell].x; comB.y+=ReplicaShift[ncell].y; comB.z+=ReplicaShift[ncell].z; pos=Components[TypeMolB].Positions[j]; temp1=0.5*((posB.y-comB.y)*f1*dr.x+(posB.x-comB.x)*f1*dr.y); temp2=0.5*((posB.z-comB.z)*f1*dr.x+(posB.x-comB.x)*f1*dr.z); temp3=0.5*((posB.z-comB.z)*f1*dr.y+(posB.y-comB.y)*f1*dr.z); StrainDerivative->ax+=(posB.x-comB.x)*f1*dr.x; StrainDerivative->ay+=temp1; StrainDerivative->az+=temp2; StrainDerivative->bx+=temp1; StrainDerivative->by+=(posB.y-comB.y)*f1*dr.y; StrainDerivative->bz+=temp3; StrainDerivative->cx+=temp2; StrainDerivative->cy+=temp3; StrainDerivative->cz+=(posB.z-comB.z)*f1*dr.z; } // add contribution to the first derivatives if(ComputeGradient) { if(Framework[CurrentSystem].FrameworkModel==FLEXIBLE) { if(index_i.x>=0) Gradient[index_i.x]+=f1*dr.x; if(index_i.y>=0) Gradient[index_i.y]+=f1*dr.y; if(index_i.z>=0) Gradient[index_i.z]+=f1*dr.z; } if(index_j.x>=0) Gradient[index_j.x]-=f1*dr.x; if(index_j.y>=0) Gradient[index_j.y]-=f1*dr.y; if(index_j.z>=0) Gradient[index_j.z]-=f1*dr.z; GradientStrain(Gradient,f1,dr); if(Components[TypeMolB].Groups[jg].Rigid) { GradientStrainJ(Gradient,f1,dr,posB,comB); // add contribution to the first derivatives if(index_j2.x>=0) Gradient[index_j2.x]-=f1*(dr.x*DVecX[index2].x+dr.y*DVecX[index2].y+dr.z*DVecX[index2].z); if(index_j2.y>=0) Gradient[index_j2.y]-=f1*(dr.x*DVecY[index2].x+dr.y*DVecY[index2].y+dr.z*DVecY[index2].z); if(index_j2.z>=0) Gradient[index_j2.z]-=f1*(dr.x*DVecZ[index2].x+dr.y*DVecZ[index2].y+dr.z*DVecZ[index2].z); } } if(ComputeHessian) { HessianAtomicPositionPosition(HessianMatrix,index_i,index_j,f1,f2,dr,1.0); HessianAtomicPositionStrain(HessianMatrix,index_i,index_j,f1,f2,dr); HessianAtomicStrainStrain(HessianMatrix,f1,f2,dr); if(Components[TypeMolB].Groups[jg].Rigid) { HessianCenterOfMassOrientationJ(HessianMatrix,index_i,index_j,index_j2,index2,f1,f2,dr); HessianOrientationOrientationJ(HessianMatrix,index_j2,index2,f1,f2,dr); HessianCenterOfMassStrainJ(HessianMatrix,index_i,index_j,f1,f2,dr,posB,comB); HessianOrientationStrainJ(HessianMatrix,index_j2,index2,f1,f2,dr); HessianOrientationStrainJ_FR(HessianMatrix,index_j2,index2,f1,f2,posB,comB,dr); HessianCorrectionStrainStrain(HessianMatrix,f1,f2,dr,posB,comB); } } } } } } ncell++; } } } } void ComputeFrameworkAdsorbateChargeChargeHessian(REAL *Energy,REAL* Gradient,REAL_MATRIX HessianMatrix, REAL_MATRIX3x3 *StrainDerivative,int ComputeGradient,int ComputeHessian) { int J,i,j,jg,ja,fr; int typeA,typeB; int TypeMolB; REAL rr,U; REAL f1,f2; VECTOR posA,posB,dr; INT_VECTOR3 index_i,index_j,index_j2; int index2; REAL ChargeA,ChargeB; VECTOR comB; REAL r,temp1,temp2,temp3; int ncell,k1,k2,k3; REAL scalingB; f1=f2=0.0; index2=0; // first loop over adsorbate molecules for(fr=0;frax+=f1*dr.x*dr.x; StrainDerivative->bx+=f1*dr.x*dr.y; StrainDerivative->cx+=f1*dr.x*dr.z; StrainDerivative->ay+=f1*dr.y*dr.x; StrainDerivative->by+=f1*dr.y*dr.y; StrainDerivative->cy+=f1*dr.y*dr.z; StrainDerivative->az+=f1*dr.z*dr.x; StrainDerivative->bz+=f1*dr.z*dr.y; StrainDerivative->cz+=f1*dr.z*dr.z; if(Components[TypeMolB].Groups[jg].Rigid) { comB=Adsorbates[CurrentSystem][J].Groups[jg].CenterOfMassPosition; comB.x+=ReplicaShift[ncell].x; comB.y+=ReplicaShift[ncell].y; comB.z+=ReplicaShift[ncell].z; temp1=0.5*((posB.y-comB.y)*f1*dr.x+(posB.x-comB.x)*f1*dr.y); temp2=0.5*((posB.z-comB.z)*f1*dr.x+(posB.x-comB.x)*f1*dr.z); temp3=0.5*((posB.z-comB.z)*f1*dr.y+(posB.y-comB.y)*f1*dr.z); StrainDerivative->ax+=(posB.x-comB.x)*f1*dr.x; StrainDerivative->ay+=temp1; StrainDerivative->az+=temp2; StrainDerivative->bx+=temp1; StrainDerivative->by+=(posB.y-comB.y)*f1*dr.y; StrainDerivative->bz+=temp3; StrainDerivative->cx+=temp2; StrainDerivative->cy+=temp3; StrainDerivative->cz+=(posB.z-comB.z)*f1*dr.z; } // add contribution to the first derivatives if(ComputeGradient) { if(Framework[CurrentSystem].FrameworkModel==FLEXIBLE) { if(index_i.x>=0) Gradient[index_i.x]+=f1*dr.x; if(index_i.y>=0) Gradient[index_i.y]+=f1*dr.y; if(index_i.z>=0) Gradient[index_i.z]+=f1*dr.z; } if(index_j.x>=0) Gradient[index_j.x]-=f1*dr.x; if(index_j.y>=0) Gradient[index_j.y]-=f1*dr.y; if(index_j.z>=0) Gradient[index_j.z]-=f1*dr.z; GradientStrain(Gradient,f1,dr); if(Components[TypeMolB].Groups[jg].Rigid) { GradientStrainJ(Gradient,f1,dr,posB,comB); // add contribution to the first derivatives if(index_j2.x>=0) Gradient[index_j2.x]-=f1*(dr.x*DVecX[index2].x+dr.y*DVecX[index2].y+dr.z*DVecX[index2].z); if(index_j2.y>=0) Gradient[index_j2.y]-=f1*(dr.x*DVecY[index2].x+dr.y*DVecY[index2].y+dr.z*DVecY[index2].z); if(index_j2.z>=0) Gradient[index_j2.z]-=f1*(dr.x*DVecZ[index2].x+dr.y*DVecZ[index2].y+dr.z*DVecZ[index2].z); } } if(ComputeHessian) { HessianAtomicPositionPosition(HessianMatrix,index_i,index_j,f1,f2,dr,1.0); HessianAtomicPositionStrain(HessianMatrix,index_i,index_j,f1,f2,dr); HessianAtomicStrainStrain(HessianMatrix,f1,f2,dr); if(Components[TypeMolB].Groups[jg].Rigid) { HessianCenterOfMassOrientationJ(HessianMatrix,index_i,index_j,index_j2,index2,f1,f2,dr); HessianOrientationOrientationJ(HessianMatrix,index_j2,index2,f1,f2,dr); HessianCenterOfMassStrainJ(HessianMatrix,index_i,index_j,f1,f2,dr,posB,comB); HessianOrientationStrainJ(HessianMatrix,index_j2,index2,f1,f2,dr); HessianOrientationStrainJ_FR(HessianMatrix,index_j2,index2,f1,f2,posB,comB,dr); HessianCorrectionStrainStrain(HessianMatrix,f1,f2,dr,posB,comB); } } } } } } ncell++; } } } } /********************************************************************************************************* * Name | ComputeFrameworkCationVDWHessian * * ----------------------------------------------------------------------------------------------------- * * Function | Computes the contributions of the framework-cation Van der Waals interactions to the * * | total energy, gradient, and Hessian-matrix. * * | interactions. * * Parameters | Energy: pointer to the total energy * * | Gradient: array of the gradients * * | HessianMatrix: the Hessian matrix * * | StrainDerivative: pointer to a 3x3x matrix of the strain derivative * * | ComputeGradient: Boolean whether or not to compute the gradient * * | ComputeHessian: Boolean whether or not to compute the Hessian matrix * * Note | * * Used in | void EvaluateDerivatives(...) * *********************************************************************************************************/ void ComputeFrameworkCationVDWHessian(REAL *Energy,REAL* Gradient,REAL_MATRIX HessianMatrix, REAL_MATRIX3x3 *StrainDerivative,int ComputeGradient,int ComputeHessian) { int J,i,j,jg,ja,fr; int typeA,typeB; int TypeMolB; REAL rr; REAL energy,f1,f2; VECTOR posA,posB,dr; INT_VECTOR3 index_i,index_j,index_j2; int index2; REAL ChargeA,ChargeB; VECTOR pos,comB; REAL r,temp1,temp2,temp3; int ncell,k1,k2,k3; REAL scalingB; f1=f2=0.0; index2=0; // first loop over framework atoms for(fr=0;frax+=f1*dr.x*dr.x; StrainDerivative->bx+=f1*dr.x*dr.y; StrainDerivative->cx+=f1*dr.x*dr.z; StrainDerivative->ay+=f1*dr.y*dr.x; StrainDerivative->by+=f1*dr.y*dr.y; StrainDerivative->cy+=f1*dr.y*dr.z; StrainDerivative->az+=f1*dr.z*dr.x; StrainDerivative->bz+=f1*dr.z*dr.y; StrainDerivative->cz+=f1*dr.z*dr.z; if(Components[TypeMolB].Groups[jg].Rigid) { comB=Cations[CurrentSystem][J].Groups[jg].CenterOfMassPosition; comB.x+=ReplicaShift[ncell].x; comB.y+=ReplicaShift[ncell].y; comB.z+=ReplicaShift[ncell].z; pos=Components[TypeMolB].Positions[j]; temp1=0.5*((posB.y-comB.y)*f1*dr.x+(posB.x-comB.x)*f1*dr.y); temp2=0.5*((posB.z-comB.z)*f1*dr.x+(posB.x-comB.x)*f1*dr.z); temp3=0.5*((posB.z-comB.z)*f1*dr.y+(posB.y-comB.y)*f1*dr.z); StrainDerivative->ax+=(posB.x-comB.x)*f1*dr.x; StrainDerivative->ay+=temp1; StrainDerivative->az+=temp2; StrainDerivative->bx+=temp1; StrainDerivative->by+=(posB.y-comB.y)*f1*dr.y; StrainDerivative->bz+=temp3; StrainDerivative->cx+=temp2; StrainDerivative->cy+=temp3; StrainDerivative->cz+=(posB.z-comB.z)*f1*dr.z; } // add contribution to the first derivatives if(ComputeGradient) { if(Framework[CurrentSystem].FrameworkModel==FLEXIBLE) { if(index_i.x>=0) Gradient[index_i.x]+=f1*dr.x; if(index_i.y>=0) Gradient[index_i.y]+=f1*dr.y; if(index_i.z>=0) Gradient[index_i.z]+=f1*dr.z; } if(index_j.x>=0) Gradient[index_j.x]-=f1*dr.x; if(index_j.y>=0) Gradient[index_j.y]-=f1*dr.y; if(index_j.z>=0) Gradient[index_j.z]-=f1*dr.z; GradientStrain(Gradient,f1,dr); if(Components[TypeMolB].Groups[jg].Rigid) { GradientStrainJ(Gradient,f1,dr,posB,comB); // add contribution to the first derivatives if(index_j2.x>=0) Gradient[index_j2.x]-=f1*(dr.x*DVecX[index2].x+dr.y*DVecX[index2].y+dr.z*DVecX[index2].z); if(index_j2.y>=0) Gradient[index_j2.y]-=f1*(dr.x*DVecY[index2].x+dr.y*DVecY[index2].y+dr.z*DVecY[index2].z); if(index_j2.z>=0) Gradient[index_j2.z]-=f1*(dr.x*DVecZ[index2].x+dr.y*DVecZ[index2].y+dr.z*DVecZ[index2].z); } } if(ComputeHessian) { HessianAtomicPositionPosition(HessianMatrix,index_i,index_j,f1,f2,dr,1.0); HessianAtomicPositionStrain(HessianMatrix,index_i,index_j,f1,f2,dr); HessianAtomicStrainStrain(HessianMatrix,f1,f2,dr); if(Components[TypeMolB].Groups[jg].Rigid) { HessianCenterOfMassOrientationJ(HessianMatrix,index_i,index_j,index_j2,index2,f1,f2,dr); HessianOrientationOrientationJ(HessianMatrix,index_j2,index2,f1,f2,dr); HessianCenterOfMassStrainJ(HessianMatrix,index_i,index_j,f1,f2,dr,posB,comB); HessianOrientationStrainJ(HessianMatrix,index_j2,index2,f1,f2,dr); HessianOrientationStrainJ_FR(HessianMatrix,index_j2,index2,f1,f2,posB,comB,dr); HessianCorrectionStrainStrain(HessianMatrix,f1,f2,dr,posB,comB); } } } } } } ncell++; } } } } void ComputeFrameworkCationChargeChargeHessian(REAL *Energy,REAL* Gradient,REAL_MATRIX HessianMatrix, REAL_MATRIX3x3 *StrainDerivative,int ComputeGradient,int ComputeHessian) { int J,i,j,jg,ja,fr; int typeA,typeB; int TypeMolB; REAL rr,U; REAL f1,f2; VECTOR posA,posB,dr; INT_VECTOR3 index_i,index_j,index_j2; int index2; REAL ChargeA,ChargeB; VECTOR comB; REAL r,temp1,temp2,temp3; int ncell,k1,k2,k3; REAL scalingB; f1=f2=0.0; index2=0; for(fr=0;frax+=f1*dr.x*dr.x; StrainDerivative->bx+=f1*dr.x*dr.y; StrainDerivative->cx+=f1*dr.x*dr.z; StrainDerivative->ay+=f1*dr.y*dr.x; StrainDerivative->by+=f1*dr.y*dr.y; StrainDerivative->cy+=f1*dr.y*dr.z; StrainDerivative->az+=f1*dr.z*dr.x; StrainDerivative->bz+=f1*dr.z*dr.y; StrainDerivative->cz+=f1*dr.z*dr.z; if(Components[TypeMolB].Groups[jg].Rigid) { comB=Cations[CurrentSystem][J].Groups[jg].CenterOfMassPosition; comB.x+=ReplicaShift[ncell].x; comB.y+=ReplicaShift[ncell].y; comB.z+=ReplicaShift[ncell].z; temp1=0.5*((posB.y-comB.y)*f1*dr.x+(posB.x-comB.x)*f1*dr.y); temp2=0.5*((posB.z-comB.z)*f1*dr.x+(posB.x-comB.x)*f1*dr.z); temp3=0.5*((posB.z-comB.z)*f1*dr.y+(posB.y-comB.y)*f1*dr.z); StrainDerivative->ax+=(posB.x-comB.x)*f1*dr.x; StrainDerivative->ay+=temp1; StrainDerivative->az+=temp2; StrainDerivative->bx+=temp1; StrainDerivative->by+=(posB.y-comB.y)*f1*dr.y; StrainDerivative->bz+=temp3; StrainDerivative->cx+=temp2; StrainDerivative->cy+=temp3; StrainDerivative->cz+=(posB.z-comB.z)*f1*dr.z; } // add contribution to the first derivatives if(ComputeGradient) { if(Framework[CurrentSystem].FrameworkModel==FLEXIBLE) { if(index_i.x>=0) Gradient[index_i.x]+=f1*dr.x; if(index_i.y>=0) Gradient[index_i.y]+=f1*dr.y; if(index_i.z>=0) Gradient[index_i.z]+=f1*dr.z; } if(index_j.x>=0) Gradient[index_j.x]-=f1*dr.x; if(index_j.y>=0) Gradient[index_j.y]-=f1*dr.y; if(index_j.z>=0) Gradient[index_j.z]-=f1*dr.z; GradientStrain(Gradient,f1,dr); if(Components[TypeMolB].Groups[jg].Rigid) { GradientStrainJ(Gradient,f1,dr,posB,comB); // add contribution to the first derivatives if(index_j2.x>=0) Gradient[index_j2.x]-=f1*(dr.x*DVecX[index2].x+dr.y*DVecX[index2].y+dr.z*DVecX[index2].z); if(index_j2.y>=0) Gradient[index_j2.y]-=f1*(dr.x*DVecY[index2].x+dr.y*DVecY[index2].y+dr.z*DVecY[index2].z); if(index_j2.z>=0) Gradient[index_j2.z]-=f1*(dr.x*DVecZ[index2].x+dr.y*DVecZ[index2].y+dr.z*DVecZ[index2].z); } } if(ComputeHessian) { HessianAtomicPositionPosition(HessianMatrix,index_i,index_j,f1,f2,dr,1.0); HessianAtomicPositionStrain(HessianMatrix,index_i,index_j,f1,f2,dr); HessianAtomicStrainStrain(HessianMatrix,f1,f2,dr); if(Components[TypeMolB].Groups[jg].Rigid) { HessianCenterOfMassOrientationJ(HessianMatrix,index_i,index_j,index_j2,index2,f1,f2,dr); HessianOrientationOrientationJ(HessianMatrix,index_j2,index2,f1,f2,dr); HessianCenterOfMassStrainJ(HessianMatrix,index_i,index_j,f1,f2,dr,posB,comB); HessianOrientationStrainJ(HessianMatrix,index_j2,index2,f1,f2,dr); HessianOrientationStrainJ_FR(HessianMatrix,index_j2,index2,f1,f2,posB,comB,dr); HessianCorrectionStrainStrain(HessianMatrix,f1,f2,dr,posB,comB); } } } } } } ncell++; } } } } void ComputeFrameworkIntraVDWHessian(REAL *Energy,REAL* Gradient,REAL_MATRIX HessianMatrix, REAL_MATRIX3x3 *StrainDerivative,int ComputeGradient,int ComputeHessian) { int i,j,typeA,typeB,f1,f2,start; REAL energy,DF,DDF; REAL rr; VECTOR posA,posB,dr; INT_VECTOR3 index_i,index_j; int A,B; int ncell,k1,k2,k3,indj; REAL ReplicaFactor; REAL *parms; if(!InternalFrameworkLennardJonesInteractions) return; for(f1=0;f1=0) Gradient[index_i.x]+=DF*dr.x; if(index_i.y>=0) Gradient[index_i.y]+=DF*dr.y; if(index_i.z>=0) Gradient[index_i.z]+=DF*dr.z; if(ncell==0) { if(index_j.x>=0) Gradient[index_j.x]-=DF*dr.x; if(index_j.y>=0) Gradient[index_j.y]-=DF*dr.y; if(index_j.z>=0) Gradient[index_j.z]-=DF*dr.z; } GradientStrain(Gradient,ReplicaFactor*DF,dr); } // add contribution to the strain derivative tensor StrainDerivative->ax+=ReplicaFactor*DF*dr.x*dr.x; StrainDerivative->bx+=ReplicaFactor*DF*dr.y*dr.x; StrainDerivative->cx+=ReplicaFactor*DF*dr.z*dr.x; StrainDerivative->ay+=ReplicaFactor*DF*dr.x*dr.y; StrainDerivative->by+=ReplicaFactor*DF*dr.y*dr.y; StrainDerivative->cy+=ReplicaFactor*DF*dr.z*dr.y; StrainDerivative->az+=ReplicaFactor*DF*dr.x*dr.z; StrainDerivative->bz+=ReplicaFactor*DF*dr.y*dr.z; StrainDerivative->cz+=ReplicaFactor*DF*dr.z*dr.z; if(ComputeHessian) { // add contribution to the second derivatives (Hessian matrix) HessianAtomicPositionPosition(HessianMatrix,index_i,index_j,DF,DDF,dr,ReplicaFactor); HessianAtomicPositionStrain(HessianMatrix,index_i,index_j,ReplicaFactor*DF,ReplicaFactor*DDF,dr); HessianAtomicStrainStrain(HessianMatrix,ReplicaFactor*DF,ReplicaFactor*DDF,dr); } } } } ncell++; } } } } // contributions from interactions 1-4 torsions // TODO: fix to handle anisotropic sites for(f1=0;f11e-8) { A=MIN2(Framework[CurrentSystem].Torsions[f1][i].A,Framework[CurrentSystem].Torsions[f1][i].D); B=MAX2(Framework[CurrentSystem].Torsions[f1][i].A,Framework[CurrentSystem].Torsions[f1][i].D); if(!BITVAL(Framework[CurrentSystem].ExclusionMatrix[f1][A][B],7)) { typeA=Framework[CurrentSystem].Atoms[f1][A].Type; posA=Framework[CurrentSystem].Atoms[f1][A].Position; index_i=Framework[CurrentSystem].Atoms[f1][A].HessianIndex; typeB=Framework[CurrentSystem].Atoms[f1][B].Type; posB=Framework[CurrentSystem].Atoms[f1][B].Position; index_j=Framework[CurrentSystem].Atoms[f1][B].HessianIndex; dr.x=posA.x-posB.x; dr.y=posA.y-posB.y; dr.z=posA.z-posB.z; dr=ApplyBoundaryCondition(dr); rr=SQR(dr.x)+SQR(dr.y)+SQR(dr.z); PotentialSecondDerivative(typeA,typeB,rr,&energy,&DF,&DDF,1.0); energy*=parms[6]; DF*=parms[6]; DDF*=parms[6]; // add contribution to the energy *Energy+=energy; if(ComputeGradient) { // add contribution to the first derivatives if(index_i.x>=0) Gradient[index_i.x]+=DF*dr.x; if(index_i.y>=0) Gradient[index_i.y]+=DF*dr.y; if(index_i.z>=0) Gradient[index_i.z]+=DF*dr.z; if(index_j.x>=0) Gradient[index_j.x]-=DF*dr.x; if(index_j.y>=0) Gradient[index_j.y]-=DF*dr.y; if(index_j.z>=0) Gradient[index_j.z]-=DF*dr.z; GradientStrain(Gradient,DF,dr); } // add contribution to the strain derivative tensor StrainDerivative->ax+=DF*dr.x*dr.x; StrainDerivative->bx+=DF*dr.y*dr.x; StrainDerivative->cx+=DF*dr.z*dr.x; StrainDerivative->ay+=DF*dr.x*dr.y; StrainDerivative->by+=DF*dr.y*dr.y; StrainDerivative->cy+=DF*dr.z*dr.y; StrainDerivative->az+=DF*dr.x*dr.z; StrainDerivative->bz+=DF*dr.y*dr.z; StrainDerivative->cz+=DF*dr.z*dr.z; if(ComputeHessian) { // add contribution to the second derivatives (Hessian matrix) HessianAtomicPositionPosition(HessianMatrix,index_i,index_j,DF,DDF,dr,1.0); HessianAtomicPositionStrain(HessianMatrix,index_i,index_j,DF,DDF,dr); HessianAtomicStrainStrain(HessianMatrix,DF,DDF,dr); } } } } } } } void ComputeFrameworkIntraChargeChargeHessian(REAL *Energy,REAL* Gradient,REAL_MATRIX HessianMatrix, REAL_MATRIX3x3 *StrainDerivative,int ComputeGradient,int ComputeHessian) { int i,j,typeA,typeB,f1,f2,start; REAL ChargeA,ChargeB,DF,DDF; REAL rr,r,U; VECTOR posA,posB,dr; INT_VECTOR3 index_i,index_j; int A,B; int ncell,k1,k2,k3,indj; REAL ReplicaFactor; REAL *parms; if(ChargeMethod==NONE) return; for(f1=0;f1=0) Gradient[index_i.x]+=DF*dr.x; if(index_i.y>=0) Gradient[index_i.y]+=DF*dr.y; if(index_i.z>=0) Gradient[index_i.z]+=DF*dr.z; if(ncell==0) { if(index_j.x>=0) Gradient[index_j.x]-=DF*dr.x; if(index_j.y>=0) Gradient[index_j.y]-=DF*dr.y; if(index_j.z>=0) Gradient[index_j.z]-=DF*dr.z; } GradientStrain(Gradient,ReplicaFactor*DF,dr); } // add contribution to the strain derivative tensor StrainDerivative->ax+=ReplicaFactor*DF*dr.x*dr.x; StrainDerivative->bx+=ReplicaFactor*DF*dr.y*dr.x; StrainDerivative->cx+=ReplicaFactor*DF*dr.z*dr.x; StrainDerivative->ay+=ReplicaFactor*DF*dr.x*dr.y; StrainDerivative->by+=ReplicaFactor*DF*dr.y*dr.y; StrainDerivative->cy+=ReplicaFactor*DF*dr.z*dr.y; StrainDerivative->az+=ReplicaFactor*DF*dr.x*dr.z; StrainDerivative->bz+=ReplicaFactor*DF*dr.y*dr.z; StrainDerivative->cz+=ReplicaFactor*DF*dr.z*dr.z; if(ComputeHessian) { // add contribution to the second derivatives (Hessian matrix) HessianAtomicPositionPosition(HessianMatrix,index_i,index_j,DF,DDF,dr,ReplicaFactor); HessianAtomicPositionStrain(HessianMatrix,index_i,index_j,ReplicaFactor*DF,ReplicaFactor*DDF,dr); HessianAtomicStrainStrain(HessianMatrix,ReplicaFactor*DF,ReplicaFactor*DDF,dr); } } } } ncell++; } } } } // contributions from interactions 1-4 torsions // TODO: fix to handle anisotropic sites for(f1=0;f11e-8) { A=MIN2(Framework[CurrentSystem].Torsions[f1][i].A,Framework[CurrentSystem].Torsions[f1][i].D); B=MAX2(Framework[CurrentSystem].Torsions[f1][i].A,Framework[CurrentSystem].Torsions[f1][i].D); if(!BITVAL(Framework[CurrentSystem].ExclusionMatrix[f1][A][B],7)) { typeA=Framework[CurrentSystem].Atoms[f1][A].Type; posA=Framework[CurrentSystem].Atoms[f1][A].Position; ChargeA=Framework[CurrentSystem].Atoms[f1][A].Charge; index_i=Framework[CurrentSystem].Atoms[f1][A].HessianIndex; typeB=Framework[CurrentSystem].Atoms[f1][B].Type; posB=Framework[CurrentSystem].Atoms[f1][B].Position; ChargeB=Framework[CurrentSystem].Atoms[f1][B].Charge; index_j=Framework[CurrentSystem].Atoms[f1][B].HessianIndex; dr.x=posA.x-posB.x; dr.y=posA.y-posB.y; dr.z=posA.z-posB.z; dr=ApplyBoundaryCondition(dr); rr=SQR(dr.x)+SQR(dr.y)+SQR(dr.z); r=sqrt(rr); // add contribution to the energy *Energy+=parms[7]*COULOMBIC_CONVERSION_FACTOR*ChargeA*ChargeB*(1.0/r); DF=-parms[7]*COULOMBIC_CONVERSION_FACTOR*ChargeA*ChargeB/(rr*r); DDF=parms[7]*3.0*COULOMBIC_CONVERSION_FACTOR*ChargeA*ChargeB/(SQR(rr)*r); //if((index_i<0)&&(index_j)<0) continue; if(ComputeGradient) { // add contribution to the first derivatives if(index_i.x>=0) Gradient[index_i.x]+=DF*dr.x; if(index_i.y>=0) Gradient[index_i.y]+=DF*dr.y; if(index_i.z>=0) Gradient[index_i.z]+=DF*dr.z; if(index_j.x>=0) Gradient[index_j.x]-=DF*dr.x; if(index_j.y>=0) Gradient[index_j.y]-=DF*dr.y; if(index_j.z>=0) Gradient[index_j.z]-=DF*dr.z; GradientStrain(Gradient,DF,dr); } // add contribution to the strain derivative tensor StrainDerivative->ax+=DF*dr.x*dr.x; StrainDerivative->bx+=DF*dr.y*dr.x; StrainDerivative->cx+=DF*dr.z*dr.x; StrainDerivative->ay+=DF*dr.x*dr.y; StrainDerivative->by+=DF*dr.y*dr.y; StrainDerivative->cy+=DF*dr.z*dr.y; StrainDerivative->az+=DF*dr.x*dr.z; StrainDerivative->bz+=DF*dr.y*dr.z; StrainDerivative->cz+=DF*dr.z*dr.z; if(ComputeHessian) { // add contribution to the second derivatives (Hessian matrix) HessianAtomicPositionPosition(HessianMatrix,index_i,index_j,DF,DDF,dr,1.0); HessianAtomicPositionStrain(HessianMatrix,index_i,index_j,DF,DDF,dr); HessianAtomicStrainStrain(HessianMatrix,DF,DDF,dr); } } } } } } } void ComputeFrameworkBondHessian(REAL *Energy,REAL* Gradient,REAL_MATRIX HessianMatrix,REAL_MATRIX3x3 *StrainDerivative,int ComputeGradient,int ComputeHessian) { int i; // loop variable int f1; // loop over all frameworks REAL r; // distance REAL rr; // distance squared REAL temp,temp2; // temporary REAL exp_term; // temporary REAL U; // energy of a specific interaction REAL DF; // first derivative REAL DDF; // second derivative VECTOR dr; // atoms separation vector int A,B; // atom-indices INT_VECTOR3 index_i,index_j; // indices of the Hessian REAL *parms; // pointer to potential parameter for(f1=0;f1p_2 // =============================================== // p_0/k_B [K/A^2] // p_1 [A] // p_2 [A] temp=r-parms[1]; U=0.5*parms[0]*SQR(MIN2(fabs(temp),parms[2])) +parms[0]*parms[2]*MAX2(fabs(temp)-parms[2],(REAL)0.0); DF=-parms[0]*(SIGN(MIN2(fabs(temp),parms[2]),temp))/r; DDF=fabs(temp)=0) Gradient[index_i.x]+=DF*dr.x; if(index_i.y>=0) Gradient[index_i.y]+=DF*dr.y; if(index_i.z>=0) Gradient[index_i.z]+=DF*dr.z; if(index_j.x>=0) Gradient[index_j.x]-=DF*dr.x; if(index_j.y>=0) Gradient[index_j.y]-=DF*dr.y; if(index_j.z>=0) Gradient[index_j.z]-=DF*dr.z; GradientStrain(Gradient,DF,dr); } // add contribution to the strain derivative tensor StrainDerivative->ax+=dr.x*DF*dr.x; StrainDerivative->bx+=dr.y*DF*dr.x; StrainDerivative->cx+=dr.z*DF*dr.x; StrainDerivative->ay+=dr.x*DF*dr.y; StrainDerivative->by+=dr.y*DF*dr.y; StrainDerivative->cy+=dr.z*DF*dr.y; StrainDerivative->az+=dr.x*DF*dr.z; StrainDerivative->bz+=dr.y*DF*dr.z; StrainDerivative->cz+=dr.z*DF*dr.z; if(ComputeHessian) { // add contribution to the second derivatives (Hessian matrix) HessianAtomicPositionPosition(HessianMatrix,index_i,index_j,DF,DDF,dr,1.0); HessianAtomicPositionStrain(HessianMatrix,index_i,index_j,DF,DDF,dr); HessianAtomicStrainStrain(HessianMatrix,DF,DDF,dr); } } } } void ComputeFrameworkUreyBradleyHessian(REAL *Energy,REAL* Gradient,REAL_MATRIX HessianMatrix,REAL_MATRIX3x3 *StrainDerivative,int ComputeGradient,int ComputeHessian) { int i; // loop variable int f1; // loop over all frameworks REAL r; // distance REAL rr; // distance squared REAL temp,temp2; // temporary REAL exp_term; // temporary REAL U; // energy of a specific interaction REAL DF; // first derivative REAL DDF; // second derivative VECTOR dr; // atoms separation vector int A,C; // atom-indices INT_VECTOR3 index_i,index_j; // indices of the Hessian REAL *parms; // pointer to potential parameter for(f1=0;f1p_2 // =============================================== // p_0/k_B [K/A^2] // p_1 [A] // p_2 [A] temp=r-parms[1]; U=0.5*parms[0]*SQR(MIN2(fabs(temp),parms[2])) +parms[0]*parms[2]*MAX2(fabs(temp)-parms[2],(REAL)0.0); DF=-parms[0]*(SIGN(MIN2(fabs(temp),parms[2]),temp))/r; DDF=fabs(temp)=0) Gradient[index_i.x]+=DF*dr.x; if(index_i.y>=0) Gradient[index_i.y]+=DF*dr.y; if(index_i.z>=0) Gradient[index_i.z]+=DF*dr.z; if(index_j.x>=0) Gradient[index_j.x]-=DF*dr.x; if(index_j.y>=0) Gradient[index_j.y]-=DF*dr.y; if(index_j.z>=0) Gradient[index_j.z]-=DF*dr.z; GradientStrain(Gradient,DF,dr); } // add contribution to the strain derivative tensor StrainDerivative->ax+=dr.x*DF*dr.x; StrainDerivative->bx+=dr.y*DF*dr.x; StrainDerivative->cx+=dr.z*DF*dr.x; StrainDerivative->ay+=dr.x*DF*dr.y; StrainDerivative->by+=dr.y*DF*dr.y; StrainDerivative->cy+=dr.z*DF*dr.y; StrainDerivative->az+=dr.x*DF*dr.z; StrainDerivative->bz+=dr.y*DF*dr.z; StrainDerivative->cz+=dr.z*DF*dr.z; if(ComputeHessian) { // add contribution to the second derivatives (Hessian matrix) HessianAtomicPositionPosition(HessianMatrix,index_i,index_j,DF,DDF,dr,1.0); HessianAtomicPositionStrain(HessianMatrix,index_i,index_j,DF,DDF,dr); HessianAtomicStrainStrain(HessianMatrix,DF,DDF,dr); } } } } static inline void GradientStrainBend(REAL *Gradient,REAL_MATRIX3x3 S) { int n; n=NumberOfCoordinatesMinimizationVariables; switch(Ensemble[CurrentSystem]) { case NPT: Gradient[n]+=S.ax+S.by+S.cz; break; case NPTPR: case NPHPR: switch(NPTPRCellType[CurrentSystem]) { case ISOTROPIC: case ANISOTROPIC: Gradient[n]+=S.ax; Gradient[n+1]+=S.by; Gradient[n+2]+=S.cz; break; case REGULAR: case REGULAR_UPPER_TRIANGLE: Gradient[n]+=S.ax; Gradient[n+1]+=S.bx; Gradient[n+2]+=S.cx; Gradient[n+3]+=S.by; Gradient[n+4]+=S.cy; Gradient[n+5]+=S.cz; break; case MONOCLINIC: case MONOCLINIC_UPPER_TRIANGLE: switch(MonoclinicAngleType[CurrentSystem]) { case MONOCLINIC_ALPHA_ANGLE: Gradient[n]+=S.ax; Gradient[n+1]+=S.by; Gradient[n+2]+=S.cy; Gradient[n+3]+=S.cz; break; case MONOCLINIC_BETA_ANGLE: Gradient[n]+=S.ax; Gradient[n+1]+=S.cx; Gradient[n+2]+=S.by; Gradient[n+3]+=S.cz; break; case MONOCLINIC_GAMMA_ANGLE: Gradient[n]+=S.ax; Gradient[n+1]+=S.bx; Gradient[n+2]+=S.by; Gradient[n+3]+=S.cz; break; } break; default: fprintf(stderr, "Unknown NPTPRCellType\n"); exit(0); break; } break; case NVT: case NVE: break; } } void ComputeFrameworkBendHessian(REAL *Energy,REAL* Gradient,REAL_MATRIX HessianMatrix,REAL_MATRIX3x3 *StrainDerivative,int ComputeGradient,int ComputeHessian) { int i,f1,A,B,C; REAL *parms,U; REAL CosTheta,Theta,SinTheta,temp,temp2; REAL rab,rbc,rac; POINT posA,posB,posC; VECTOR Rab,Rbc,Rac; INT_VECTOR3 index_i,index_j,index_k; int index1,index2,index3; REAL DTDX,DF,DDF; REAL_MATRIX3x3 D2I,D2K,D2IK; VECTOR dtA,dtB,dtC; REAL_MATRIX3x3 S; VECTOR vec_u,vec_v; REAL u,v; for(f1=0;f1ax+=S.ax; StrainDerivative->bx+=S.bx; StrainDerivative->cx+=S.cx; StrainDerivative->ay+=S.ay; StrainDerivative->by+=S.by; StrainDerivative->cy+=S.cy; StrainDerivative->az+=S.az; StrainDerivative->bz+=S.bz; StrainDerivative->cz+=S.cz; // add contribution to the first derivatives if(ComputeGradient) { if(index_i.x>=0) Gradient[index_i.x]+=DF*dtA.x; if(index_i.y>=0) Gradient[index_i.y]+=DF*dtA.y; if(index_i.z>=0) Gradient[index_i.z]+=DF*dtA.z; if(index_j.x>=0) Gradient[index_j.x]+=DF*dtB.x; if(index_j.y>=0) Gradient[index_j.y]+=DF*dtB.y; if(index_j.z>=0) Gradient[index_j.z]+=DF*dtB.z; if(index_k.x>=0) Gradient[index_k.x]+=DF*dtC.x; if(index_k.y>=0) Gradient[index_k.y]+=DF*dtC.y; if(index_k.z>=0) Gradient[index_k.z]+=DF*dtC.z; GradientStrainBend(Gradient,S); } if(ComputeHessian) { // Calculate some diagonal Hessian terms for A D2I.ax=-DF*(2.0*dtA.x*Rab.x+CosTheta*(1.0-Rab.x*Rab.x)/rab)/rab; D2I.by=-DF*(2.0*dtA.y*Rab.y+CosTheta*(1.0-Rab.y*Rab.y)/rab)/rab; D2I.cz=-DF*(2.0*dtA.z*Rab.z+CosTheta*(1.0-Rab.z*Rab.z)/rab)/rab; D2I.ay=DF*(CosTheta*Rab.x*Rab.y/rab-dtA.x*Rab.y-dtA.y*Rab.x)/rab; D2I.az=DF*(CosTheta*Rab.x*Rab.z/rab-dtA.x*Rab.z-dtA.z*Rab.x)/rab; D2I.bz=DF*(CosTheta*Rab.y*Rab.z/rab-dtA.y*Rab.z-dtA.z*Rab.y)/rab; // Calculate some diagonal Hessian terms for C D2K.ax=-DF*(2.0*dtC.x*Rbc.x+CosTheta*(1.0-Rbc.x*Rbc.x)/rbc)/rbc; D2K.by=-DF*(2.0*dtC.y*Rbc.y+CosTheta*(1.0-Rbc.y*Rbc.y)/rbc)/rbc; D2K.cz=-DF*(2.0*dtC.z*Rbc.z+CosTheta*(1.0-Rbc.z*Rbc.z)/rbc)/rbc; D2K.ay=DF*(CosTheta*Rbc.x*Rbc.y/rbc-dtC.x*Rbc.y-dtC.y*Rbc.x)/rbc; D2K.az=DF*(CosTheta*Rbc.x*Rbc.z/rbc-dtC.x*Rbc.z-dtC.z*Rbc.x)/rbc; D2K.bz=DF*(CosTheta*Rbc.y*Rbc.z/rbc-dtC.y*Rbc.z-dtC.z*Rbc.y)/rbc; // Calculate the AC off-diagonal terms. D2IK.ax=DF*(CosTheta*Rab.x*Rbc.x-Rab.x*Rab.x-Rbc.x*Rbc.x+1.0)/(rab*rbc); D2IK.ay=DF*(CosTheta*Rab.x*Rbc.y-Rab.x*Rab.y-Rbc.x*Rbc.y)/(rab*rbc); D2IK.az=DF*(CosTheta*Rab.x*Rbc.z-Rab.x*Rab.z-Rbc.x*Rbc.z)/(rab*rbc); D2IK.bx=DF*(CosTheta*Rab.y*Rbc.x-Rab.y*Rab.x-Rbc.y*Rbc.x)/(rab*rbc); D2IK.by=DF*(CosTheta*Rab.y*Rbc.y-Rab.y*Rab.y-Rbc.y*Rbc.y+1.0)/(rab*rbc); D2IK.bz=DF*(CosTheta*Rab.y*Rbc.z-Rab.y*Rab.z-Rbc.y*Rbc.z)/(rab*rbc); D2IK.cx=DF*(CosTheta*Rab.z*Rbc.x-Rab.z*Rab.x-Rbc.z*Rbc.x)/(rab*rbc); D2IK.cy=DF*(CosTheta*Rab.z*Rbc.y-Rab.z*Rab.y-Rbc.z*Rbc.y)/(rab*rbc); D2IK.cz=DF*(CosTheta*Rab.z*Rbc.z-Rab.z*Rab.z-Rbc.z*Rbc.z+1.0)/(rab*rbc); // Calculate AA-block of the Hessian if((index_i.x>=0)&&(index_i.x>=0)) HessianMatrix.element[index_i.x][index_i.x]+=DDF*dtA.x*dtA.x+D2I.ax; if((index_i.x>=0)&&(index_i.y>=0)) HessianMatrix.element[index_i.x][index_i.y]+=DDF*dtA.x*dtA.y+D2I.ay; if((index_i.y>=0)&&(index_i.y>=0)) HessianMatrix.element[index_i.y][index_i.y]+=DDF*dtA.y*dtA.y+D2I.by; if((index_i.x>=0)&&(index_i.z>=0)) HessianMatrix.element[index_i.x][index_i.z]+=DDF*dtA.x*dtA.z+D2I.az; if((index_i.y>=0)&&(index_i.z>=0)) HessianMatrix.element[index_i.y][index_i.z]+=DDF*dtA.y*dtA.z+D2I.bz; if((index_i.z>=0)&&(index_i.z>=0)) HessianMatrix.element[index_i.z][index_i.z]+=DDF*dtA.z*dtA.z+D2I.cz; // Calculate BB-block of the Hessian if((index_j.x>=0)&&(index_j.x>=0)) HessianMatrix.element[index_j.x][index_j.x]+=DDF*dtB.x*dtB.x+(D2I.ax+D2K.ax+2.0*D2IK.ax); if((index_j.x>=0)&&(index_j.y>=0)) HessianMatrix.element[index_j.x][index_j.y]+=DDF*dtB.x*dtB.y+(D2I.ay+D2K.ay+D2IK.ay+D2IK.bx); if((index_j.y>=0)&&(index_j.y>=0)) HessianMatrix.element[index_j.y][index_j.y]+=DDF*dtB.y*dtB.y+(D2I.by+D2K.by+2.0*D2IK.by); if((index_j.x>=0)&&(index_j.z>=0)) HessianMatrix.element[index_j.x][index_j.z]+=DDF*dtB.x*dtB.z+(D2I.az+D2K.az+D2IK.az+D2IK.cx); if((index_j.y>=0)&&(index_j.z>=0)) HessianMatrix.element[index_j.y][index_j.z]+=DDF*dtB.y*dtB.z+(D2I.bz+D2K.bz+D2IK.bz+D2IK.cy); if((index_j.z>=0)&&(index_j.z>=0)) HessianMatrix.element[index_j.z][index_j.z]+=DDF*dtB.z*dtB.z+(D2I.cz+D2K.cz+2.0*D2IK.cz); // Calculate the CC-block of the Hessian if((index_k.x>=0)&&(index_k.x>=0)) HessianMatrix.element[index_k.x][index_k.x]+=DDF*dtC.x*dtC.x+D2K.ax; if((index_k.x>=0)&&(index_k.y>=0)) HessianMatrix.element[index_k.x][index_k.y]+=DDF*dtC.x*dtC.y+D2K.ay; if((index_k.y>=0)&&(index_k.y>=0)) HessianMatrix.element[index_k.y][index_k.y]+=DDF*dtC.y*dtC.y+D2K.by; if((index_k.x>=0)&&(index_k.z>=0)) HessianMatrix.element[index_k.x][index_k.z]+=DDF*dtC.x*dtC.z+D2K.az; if((index_k.y>=0)&&(index_k.z>=0)) HessianMatrix.element[index_k.y][index_k.z]+=DDF*dtC.y*dtC.z+D2K.bz; if((index_k.z>=0)&&(index_k.z>=0)) HessianMatrix.element[index_k.z][index_k.z]+=DDF*dtC.z*dtC.z+D2K.cz; // Calculate the AB-block of the Hessian if(index1=0)&&(index_j.x>=0)) HessianMatrix.element[index_i.x][index_j.x]+=DDF*dtA.x*dtB.x-D2I.ax-D2IK.ax; if((index_i.x>=0)&&(index_j.y>=0)) HessianMatrix.element[index_i.x][index_j.y]+=DDF*dtA.x*dtB.y-D2I.ay-D2IK.ay; if((index_i.x>=0)&&(index_j.z>=0)) HessianMatrix.element[index_i.x][index_j.z]+=DDF*dtA.x*dtB.z-D2I.az-D2IK.az; if((index_i.y>=0)&&(index_j.x>=0)) HessianMatrix.element[index_i.y][index_j.x]+=DDF*dtA.y*dtB.x-D2I.ay-D2IK.bx; if((index_i.y>=0)&&(index_j.y>=0)) HessianMatrix.element[index_i.y][index_j.y]+=DDF*dtA.y*dtB.y-D2I.by-D2IK.by; if((index_i.y>=0)&&(index_j.z>=0)) HessianMatrix.element[index_i.y][index_j.z]+=DDF*dtA.y*dtB.z-D2I.bz-D2IK.bz; if((index_i.z>=0)&&(index_j.x>=0)) HessianMatrix.element[index_i.z][index_j.x]+=DDF*dtA.z*dtB.x-D2I.az-D2IK.cx; if((index_i.z>=0)&&(index_j.y>=0)) HessianMatrix.element[index_i.z][index_j.y]+=DDF*dtA.z*dtB.y-D2I.bz-D2IK.cy; if((index_i.z>=0)&&(index_j.z>=0)) HessianMatrix.element[index_i.z][index_j.z]+=DDF*dtA.z*dtB.z-D2I.cz-D2IK.cz; } else { if((index_j.x>=0)&&(index_i.x>=0)) HessianMatrix.element[index_j.x][index_i.x]+=DDF*dtA.x*dtB.x-D2I.ax-D2IK.ax; if((index_j.x>=0)&&(index_i.y>=0)) HessianMatrix.element[index_j.x][index_i.y]+=DDF*dtA.y*dtB.x-D2I.ay-D2IK.bx; if((index_j.x>=0)&&(index_i.z>=0)) HessianMatrix.element[index_j.x][index_i.z]+=DDF*dtA.z*dtB.x-D2I.az-D2IK.cx; if((index_j.y>=0)&&(index_i.x>=0)) HessianMatrix.element[index_j.y][index_i.x]+=DDF*dtA.x*dtB.y-D2I.ay-D2IK.ay; if((index_j.y>=0)&&(index_i.y>=0)) HessianMatrix.element[index_j.y][index_i.y]+=DDF*dtA.y*dtB.y-D2I.by-D2IK.by; if((index_j.y>=0)&&(index_i.z>=0)) HessianMatrix.element[index_j.y][index_i.z]+=DDF*dtA.z*dtB.y-D2I.bz-D2IK.cy; if((index_j.z>=0)&&(index_i.x>=0)) HessianMatrix.element[index_j.z][index_i.x]+=DDF*dtA.x*dtB.z-D2I.az-D2IK.az; if((index_j.z>=0)&&(index_i.y>=0)) HessianMatrix.element[index_j.z][index_i.y]+=DDF*dtA.y*dtB.z-D2I.bz-D2IK.bz; if((index_j.z>=0)&&(index_i.z>=0)) HessianMatrix.element[index_j.z][index_i.z]+=DDF*dtA.z*dtB.z-D2I.cz-D2IK.cz; } // Calculate the AC-block of the Hessian if(index1=0)&&(index_k.x>=0)) HessianMatrix.element[index_i.x][index_k.x]+=DDF*dtA.x*dtC.x+D2IK.ax; if((index_i.x>=0)&&(index_k.y>=0)) HessianMatrix.element[index_i.x][index_k.y]+=DDF*dtA.x*dtC.y+D2IK.ay; if((index_i.x>=0)&&(index_k.z>=0)) HessianMatrix.element[index_i.x][index_k.z]+=DDF*dtA.x*dtC.z+D2IK.az; if((index_i.y>=0)&&(index_k.x>=0)) HessianMatrix.element[index_i.y][index_k.x]+=DDF*dtA.y*dtC.x+D2IK.bx; if((index_i.y>=0)&&(index_k.y>=0)) HessianMatrix.element[index_i.y][index_k.y]+=DDF*dtA.y*dtC.y+D2IK.by; if((index_i.y>=0)&&(index_k.z>=0)) HessianMatrix.element[index_i.y][index_k.z]+=DDF*dtA.y*dtC.z+D2IK.bz; if((index_i.z>=0)&&(index_k.x>=0)) HessianMatrix.element[index_i.z][index_k.x]+=DDF*dtA.z*dtC.x+D2IK.cx; if((index_i.z>=0)&&(index_k.y>=0)) HessianMatrix.element[index_i.z][index_k.y]+=DDF*dtA.z*dtC.y+D2IK.cy; if((index_i.z>=0)&&(index_k.z>=0)) HessianMatrix.element[index_i.z][index_k.z]+=DDF*dtA.z*dtC.z+D2IK.cz; } else { if((index_k.x>=0)&&(index_i.x>=0)) HessianMatrix.element[index_k.x][index_i.x]+=DDF*dtA.x*dtC.x+D2IK.ax; if((index_k.x>=0)&&(index_i.y>=0)) HessianMatrix.element[index_k.x][index_i.y]+=DDF*dtA.y*dtC.x+D2IK.bx; if((index_k.x>=0)&&(index_i.z>=0)) HessianMatrix.element[index_k.x][index_i.z]+=DDF*dtA.z*dtC.x+D2IK.cx; if((index_k.y>=0)&&(index_i.x>=0)) HessianMatrix.element[index_k.y][index_i.x]+=DDF*dtA.x*dtC.y+D2IK.ay; if((index_k.y>=0)&&(index_i.y>=0)) HessianMatrix.element[index_k.y][index_i.y]+=DDF*dtA.y*dtC.y+D2IK.by; if((index_k.y>=0)&&(index_i.z>=0)) HessianMatrix.element[index_k.y][index_i.z]+=DDF*dtA.z*dtC.y+D2IK.cy; if((index_k.z>=0)&&(index_i.x>=0)) HessianMatrix.element[index_k.z][index_i.x]+=DDF*dtA.x*dtC.z+D2IK.az; if((index_k.z>=0)&&(index_i.y>=0)) HessianMatrix.element[index_k.z][index_i.y]+=DDF*dtA.y*dtC.z+D2IK.bz; if((index_k.z>=0)&&(index_i.z>=0)) HessianMatrix.element[index_k.z][index_i.z]+=DDF*dtA.z*dtC.z+D2IK.cz; } // Calculate the BC-block of the Hessian if(index3=0)&&(index_j.x>=0)) HessianMatrix.element[index_k.x][index_j.x]+=DDF*dtC.x*dtB.x-D2K.ax-D2IK.ax; if((index_k.x>=0)&&(index_j.y>=0)) HessianMatrix.element[index_k.x][index_j.y]+=DDF*dtC.x*dtB.y-D2K.ay-D2IK.bx; if((index_k.x>=0)&&(index_j.z>=0)) HessianMatrix.element[index_k.x][index_j.z]+=DDF*dtC.x*dtB.z-D2K.az-D2IK.cx; if((index_k.y>=0)&&(index_j.x>=0)) HessianMatrix.element[index_k.y][index_j.x]+=DDF*dtC.y*dtB.x-D2K.ay-D2IK.ay; if((index_k.y>=0)&&(index_j.y>=0)) HessianMatrix.element[index_k.y][index_j.y]+=DDF*dtC.y*dtB.y-D2K.by-D2IK.by; if((index_k.y>=0)&&(index_j.z>=0)) HessianMatrix.element[index_k.y][index_j.z]+=DDF*dtC.y*dtB.z-D2K.bz-D2IK.cy; if((index_k.z>=0)&&(index_j.x>=0)) HessianMatrix.element[index_k.z][index_j.x]+=DDF*dtC.z*dtB.x-D2K.az-D2IK.az; if((index_k.z>=0)&&(index_j.y>=0)) HessianMatrix.element[index_k.z][index_j.y]+=DDF*dtC.z*dtB.y-D2K.bz-D2IK.bz; if((index_k.z>=0)&&(index_j.z>=0)) HessianMatrix.element[index_k.z][index_j.z]+=DDF*dtC.z*dtB.z-D2K.cz-D2IK.cz; } else { if((index_j.x>=0)&&(index_k.x>=0)) HessianMatrix.element[index_j.x][index_k.x]+=DDF*dtC.x*dtB.x-D2K.ax-D2IK.ax; if((index_j.x>=0)&&(index_k.y>=0)) HessianMatrix.element[index_j.x][index_k.y]+=DDF*dtC.y*dtB.x-D2K.ay-D2IK.ay; if((index_j.x>=0)&&(index_k.z>=0)) HessianMatrix.element[index_j.x][index_k.z]+=DDF*dtC.z*dtB.x-D2K.az-D2IK.az; if((index_j.y>=0)&&(index_k.x>=0)) HessianMatrix.element[index_j.y][index_k.x]+=DDF*dtC.x*dtB.y-D2K.ay-D2IK.bx; if((index_j.y>=0)&&(index_k.y>=0)) HessianMatrix.element[index_j.y][index_k.y]+=DDF*dtC.y*dtB.y-D2K.by-D2IK.by; if((index_j.y>=0)&&(index_k.z>=0)) HessianMatrix.element[index_j.y][index_k.z]+=DDF*dtC.z*dtB.y-D2K.bz-D2IK.bz; if((index_j.z>=0)&&(index_k.x>=0)) HessianMatrix.element[index_j.z][index_k.x]+=DDF*dtC.x*dtB.z-D2K.az-D2IK.cx; if((index_j.z>=0)&&(index_k.y>=0)) HessianMatrix.element[index_j.z][index_k.y]+=DDF*dtC.y*dtB.z-D2K.bz-D2IK.cy; if((index_j.z>=0)&&(index_k.z>=0)) HessianMatrix.element[index_j.z][index_k.z]+=DDF*dtC.z*dtB.z-D2K.cz-D2IK.cz; } HessianBendStrainPosition(index_i,index_j,index_k,HessianMatrix,vec_u,vec_v,u,v, rab,rbc,Rab,Rbc,dtA,dtC,DF,DDF,S,CosTheta); HessianBendStrainStrain(HessianMatrix,vec_u,vec_v,u,v,DF,DDF,S,CosTheta); } } } } static inline void GradientStrainTorsion(REAL *Gradient,REAL_MATRIX3x3 S) { int n; n=NumberOfCoordinatesMinimizationVariables; switch(Ensemble[CurrentSystem]) { case NPT: Gradient[n]+=S.ax+S.by+S.cz; break; case NPTPR: case NPHPR: switch(NPTPRCellType[CurrentSystem]) { case ISOTROPIC: case ANISOTROPIC: Gradient[n]+=S.ax; Gradient[n+1]+=S.by; Gradient[n+2]+=S.cz; break; case REGULAR: case REGULAR_UPPER_TRIANGLE: Gradient[n]+=S.ax; Gradient[n+1]+=S.bx; Gradient[n+2]+=S.cx; Gradient[n+3]+=S.by; Gradient[n+4]+=S.cy; Gradient[n+5]+=S.cz; break; case MONOCLINIC: case MONOCLINIC_UPPER_TRIANGLE: switch(MonoclinicAngleType[CurrentSystem]) { case MONOCLINIC_ALPHA_ANGLE: Gradient[n]+=S.ax; Gradient[n+1]+=S.by; Gradient[n+2]+=S.cy; Gradient[n+3]+=S.cz; break; case MONOCLINIC_BETA_ANGLE: Gradient[n]+=S.ax; Gradient[n+1]+=S.cx; Gradient[n+2]+=S.by; Gradient[n+3]+=S.cz; break; case MONOCLINIC_GAMMA_ANGLE: Gradient[n]+=S.ax; Gradient[n+1]+=S.bx; Gradient[n+2]+=S.by; Gradient[n+3]+=S.cz; break; } break; default: fprintf(stderr, "Unknown NPTPRCellType\n"); exit(0); break; } break; case NVT: case NVE: break; } } void ComputeFrameworkTorsionHessian(REAL *Energy,REAL* Gradient,REAL_MATRIX HessianMatrix,REAL_MATRIX3x3 *StrainDerivative,int ComputeGradient,int ComputeHessian) { int i,A,B,C,D,f1; POINT posA,posB,posC,posD; REAL d,e,rbc; VECTOR Dab,Dcb,Ddc,dr,ds; REAL dot_ab,dot_cd,r,s,sign; REAL U,CosPhi,Phi,CosPhi2,SinPhi; REAL ShiftedCosPhi,ShiftedCosPhi2,ShiftedSinPhi; VECTOR dtA,dtB,dtC,dtD,Pb,Pc; REAL *parms; INT_VECTOR3 index_i,index_j,index_k,index_l; int index1,index2,index3,index4; REAL_MATRIX3x3 D2I,D2L,D2IL,D2IJ,D2IK,D2JL; REAL_MATRIX3x3 D2KL,D2J,D2K,D2JK,S; VECTOR DIL,DDJ,DDK,DEJ,DEK; REAL DF,DDF; VECTOR vec_u,vec_v,vec_w; REAL u,w,v; VECTOR fa,fb,fc,fd; for(f1=0;f1ax+=S.ax; StrainDerivative->bx+=S.bx; StrainDerivative->cx+=S.cx; StrainDerivative->ay+=S.ay; StrainDerivative->by+=S.by; StrainDerivative->cy+=S.cy; StrainDerivative->az+=S.az; StrainDerivative->bz+=S.bz; StrainDerivative->cz+=S.cz; if(ComputeGradient) { if(index_i.x>=0) Gradient[index_i.x]+=fa.x; if(index_i.y>=0) Gradient[index_i.y]+=fa.y; if(index_i.z>=0) Gradient[index_i.z]+=fa.z; if(index_j.x>=0) Gradient[index_j.x]+=fb.x; if(index_j.y>=0) Gradient[index_j.y]+=fb.y; if(index_j.z>=0) Gradient[index_j.z]+=fb.z; if(index_k.x>=0) Gradient[index_k.x]+=fc.x; if(index_k.y>=0) Gradient[index_k.y]+=fc.y; if(index_k.z>=0) Gradient[index_k.z]+=fc.z; if(index_l.x>=0) Gradient[index_l.x]+=fd.x; if(index_l.y>=0) Gradient[index_l.y]+=fd.y; if(index_l.z>=0) Gradient[index_l.z]+=fd.z; GradientStrainTorsion(Gradient,S); } if(ComputeHessian) { // Calculate the derivatives of DOTIJ and DOTLK. DIL.x=DF*Dcb.x/rbc; DIL.y=DF*Dcb.y/rbc; DIL.z=DF*Dcb.z/rbc; DDJ.x=DF*((2.0*d-1.0)*Dcb.x-Dab.x/rbc)/rbc; DDJ.y=DF*((2.0*d-1.0)*Dcb.y-Dab.y/rbc)/rbc; DDJ.z=DF*((2.0*d-1.0)*Dcb.z-Dab.z/rbc)/rbc; DDK.x=-DF*(2.0*d*Dcb.x-Dab.x/rbc)/rbc; DDK.y=-DF*(2.0*d*Dcb.y-Dab.y/rbc)/rbc; DDK.z=-DF*(2.0*d*Dcb.z-Dab.z/rbc)/rbc; DEJ.x=DF*(2.0*e*Dcb.x-Ddc.x/rbc)/rbc; DEJ.y=DF*(2.0*e*Dcb.y-Ddc.y/rbc)/rbc; DEJ.z=DF*(2.0*e*Dcb.z-Ddc.z/rbc)/rbc; DEK.x=-DF*((2.0*e+1.0)*Dcb.x-Ddc.x/rbc)/rbc; DEK.y=-DF*((2.0*e+1.0)*Dcb.y-Ddc.y/rbc)/rbc; DEK.z=-DF*((2.0*e+1.0)*Dcb.z-Ddc.z/rbc)/rbc; // Calculate some diagonal Hessian terms for I. D2I.ax=DF*(CosPhi*(dr.x*dr.x+Dcb.x*Dcb.x-1.0)/r-2.0*dr.x*dtA.x)/r; D2I.by=DF*(CosPhi*(dr.y*dr.y+Dcb.y*Dcb.y-1.0)/r-2.0*dr.y*dtA.y)/r; D2I.cz=DF*(CosPhi*(dr.z*dr.z+Dcb.z*Dcb.z-1.0)/r-2.0*dr.z*dtA.z)/r; D2I.ay=DF*(CosPhi*(dr.x*dr.y+Dcb.x*Dcb.y)/r-dr.x*dtA.y-dr.y*dtA.x)/r; D2I.az=DF*(CosPhi*(dr.x*dr.z+Dcb.x*Dcb.z)/r-dr.x*dtA.z-dr.z*dtA.x)/r; D2I.bz=DF*(CosPhi*(dr.y*dr.z+Dcb.y*Dcb.z)/r-dr.y*dtA.z-dr.z*dtA.y)/r; D2I.bx=D2I.cx=D2I.cy=0.0; // Calculate some diagonal Hessian terms for L. D2L.ax=DF*(CosPhi*(ds.x*ds.x+Dcb.x*Dcb.x-1.0)/s-2.0*ds.x*dtD.x)/s; D2L.by=DF*(CosPhi*(ds.y*ds.y+Dcb.y*Dcb.y-1.0)/s-2.0*ds.y*dtD.y)/s; D2L.cz=DF*(CosPhi*(ds.z*ds.z+Dcb.z*Dcb.z-1.0)/s-2.0*ds.z*dtD.z)/s; D2L.ay=DF*(CosPhi*(ds.x*ds.y+Dcb.x*Dcb.y)/s-ds.x*dtD.y-ds.y*dtD.x)/s; D2L.az=DF*(CosPhi*(ds.x*ds.z+Dcb.x*Dcb.z)/s-ds.x*dtD.z-ds.z*dtD.x)/s; D2L.bz=DF*(CosPhi*(ds.y*ds.z+Dcb.y*Dcb.z)/s-ds.y*dtD.z-ds.z*dtD.y)/s; D2L.bx=D2L.cx=D2L.cy=0.0; // Calculate the IL off-diagonal terms. D2IL.ax=DF*(CosPhi*dr.x*ds.x-dr.x*dr.x-ds.x*ds.x-Dcb.x*Dcb.x+1.0)/(r*s); D2IL.ay=DF*(CosPhi*dr.x*ds.y-dr.x*dr.y-ds.x*ds.y-Dcb.x*Dcb.y)/(r*s); D2IL.az=DF*(CosPhi*dr.x*ds.z-dr.x*dr.z-ds.x*ds.z-Dcb.x*Dcb.z)/(r*s); D2IL.bx=DF*(CosPhi*dr.y*ds.x-dr.y*dr.x-ds.y*ds.x-Dcb.y*Dcb.x)/(r*s); D2IL.by=DF*(CosPhi*dr.y*ds.y-dr.y*dr.y-ds.y*ds.y-Dcb.y*Dcb.y+1.0)/(r*s); D2IL.bz=DF*(CosPhi*dr.y*ds.z-dr.y*dr.z-ds.y*ds.z-Dcb.y*Dcb.z)/(r*s); D2IL.cx=DF*(CosPhi*dr.z*ds.x-dr.z*dr.x-ds.z*ds.x-Dcb.z*Dcb.x)/(r*s); D2IL.cy=DF*(CosPhi*dr.z*ds.y-dr.z*dr.y-ds.z*ds.y-Dcb.z*Dcb.y)/(r*s); D2IL.cz=DF*(CosPhi*dr.z*ds.z-dr.z*dr.z-ds.z*ds.z-Dcb.z*Dcb.z+1.0)/(r*s); // Calculate the IJ off-diagonal terms. D2IJ.ax=D2I.ax*(d-1.0)+D2IL.ax*e+DIL.x*dtA.x; D2IJ.ay=D2I.ay*(d-1.0)+D2IL.ay*e+DIL.x*dtA.y; D2IJ.az=D2I.az*(d-1.0)+D2IL.az*e+DIL.x*dtA.z; D2IJ.bx=D2I.ay*(d-1.0)+D2IL.bx*e+DIL.y*dtA.x; D2IJ.by=D2I.by*(d-1.0)+D2IL.by*e+DIL.y*dtA.y; D2IJ.bz=D2I.bz*(d-1.0)+D2IL.bz*e+DIL.y*dtA.z; D2IJ.cx=D2I.az*(d-1.0)+D2IL.cx*e+DIL.z*dtA.x; D2IJ.cy=D2I.bz*(d-1.0)+D2IL.cy*e+DIL.z*dtA.y; D2IJ.cz=D2I.cz*(d-1.0)+D2IL.cz*e+DIL.z*dtA.z; // Calculate the IK off-diagonal terms. D2IK.ax=-D2I.ax*d-D2IL.ax*(e+1.0)-DIL.x*dtA.x; D2IK.ay=-D2I.ay*d-D2IL.ay*(e+1.0)-DIL.x*dtA.y; D2IK.az=-D2I.az*d-D2IL.az*(e+1.0)-DIL.x*dtA.z; D2IK.bx=-D2I.ay*d-D2IL.bx*(e+1.0)-DIL.y*dtA.x; D2IK.by=-D2I.by*d-D2IL.by*(e+1.0)-DIL.y*dtA.y; D2IK.bz=-D2I.bz*d-D2IL.bz*(e+1.0)-DIL.y*dtA.z; D2IK.cx=-D2I.az*d-D2IL.cx*(e+1.0)-DIL.z*dtA.x; D2IK.cy=-D2I.bz*d-D2IL.cy*(e+1.0)-DIL.z*dtA.y; D2IK.cz=-D2I.cz*d-D2IL.cz*(e+1.0)-DIL.z*dtA.z; // Calculate the JL off-diagonal terms. D2JL.ax=D2IL.ax*(d-1.0)+D2L.ax*e+DIL.x*dtD.x; D2JL.ay=D2IL.ay*(d-1.0)+D2L.ay*e+DIL.y*dtD.x; D2JL.az=D2IL.az*(d-1.0)+D2L.az*e+DIL.z*dtD.x; D2JL.bx=D2IL.bx*(d-1.0)+D2L.ay*e+DIL.x*dtD.y; D2JL.by=D2IL.by*(d-1.0)+D2L.by*e+DIL.y*dtD.y; D2JL.bz=D2IL.bz*(d-1.0)+D2L.bz*e+DIL.z*dtD.y; D2JL.cx=D2IL.cx*(d-1.0)+D2L.az*e+DIL.x*dtD.z; D2JL.cy=D2IL.cy*(d-1.0)+D2L.bz*e+DIL.y*dtD.z; D2JL.cz=D2IL.cz*(d-1.0)+D2L.cz*e+DIL.z*dtD.z; // Calculate the KL off-diagonal terms. D2KL.ax=-D2IL.ax*d-D2L.ax*(e+1.0)-DIL.x*dtD.x; D2KL.ay=-D2IL.ay*d-D2L.ay*(e+1.0)-DIL.y*dtD.x; D2KL.az=-D2IL.az*d-D2L.az*(e+1.0)-DIL.z*dtD.x; D2KL.bx=-D2IL.bx*d-D2L.ay*(e+1.0)-DIL.x*dtD.y; D2KL.by=-D2IL.by*d-D2L.by*(e+1.0)-DIL.y*dtD.y; D2KL.bz=-D2IL.bz*d-D2L.bz*(e+1.0)-DIL.z*dtD.y; D2KL.cx=-D2IL.cx*d-D2L.az*(e+1.0)-DIL.x*dtD.z; D2KL.cy=-D2IL.cy*d-D2L.bz*(e+1.0)-DIL.y*dtD.z; D2KL.cz=-D2IL.cz*d-D2L.cz*(e+1.0)-DIL.z*dtD.z; // Calculate the JJ diagonal terms. D2J.ax=D2IJ.ax*(d-1.0)+D2JL.ax*e+DDJ.x*dtA.x+DEJ.x*dtD.x; D2J.by=D2IJ.by*(d-1.0)+D2JL.by*e+DDJ.y*dtA.y+DEJ.y*dtD.y; D2J.cz=D2IJ.cz*(d-1.0)+D2JL.cz*e+DDJ.z*dtA.z+DEJ.z*dtD.z; D2J.ay=D2IJ.ay*(d-1.0)+D2JL.bx*e+DDJ.y*dtA.x+DEJ.y*dtD.x; D2J.az=D2IJ.az*(d-1.0)+D2JL.cx*e+DDJ.z*dtA.x+DEJ.z*dtD.x; D2J.bz=D2IJ.bz*(d-1.0)+D2JL.cy*e+DDJ.z*dtA.y+DEJ.z*dtD.y; D2J.bx=D2J.cx=D2J.cy=0.0; // Calculate the KK diagonal terms. D2K.ax=-D2KL.ax*(e+1.0)-D2IK.ax*d-DDK.x*dtA.x-DEK.x*dtD.x; D2K.by=-D2KL.by*(e+1.0)-D2IK.by*d-DDK.y*dtA.y-DEK.y*dtD.y; D2K.cz=-D2KL.cz*(e+1.0)-D2IK.cz*d-DDK.z*dtA.z-DEK.z*dtD.z; D2K.ay=-D2KL.ay*(e+1.0)-D2IK.bx*d-DDK.x*dtA.y-DEK.x*dtD.y; D2K.az=-D2KL.az*(e+1.0)-D2IK.cx*d-DDK.x*dtA.z-DEK.x*dtD.z; D2K.bz=-D2KL.bz*(e+1.0)-D2IK.cy*d-DDK.y*dtA.z-DEK.y*dtD.z; D2K.bx=D2K.cx=D2K.cy=0.0; // Calculate the JK off-diagonal terms. D2JK.ax=-D2IJ.ax*d-D2JL.ax*(e+1.0)-DDJ.x*dtA.x-DEJ.x*dtD.x; D2JK.ay=-D2IJ.bx*d-D2JL.ay*(e+1.0)-DDJ.x*dtA.y-DEJ.x*dtD.y; D2JK.az=-D2IJ.cx*d-D2JL.az*(e+1.0)-DDJ.x*dtA.z-DEJ.x*dtD.z; D2JK.bx=-D2IJ.ay*d-D2JL.bx*(e+1.0)-DDJ.y*dtA.x-DEJ.y*dtD.x; D2JK.by=-D2IJ.by*d-D2JL.by*(e+1.0)-DDJ.y*dtA.y-DEJ.y*dtD.y; D2JK.bz=-D2IJ.cy*d-D2JL.bz*(e+1.0)-DDJ.y*dtA.z-DEJ.y*dtD.z; D2JK.cx=-D2IJ.az*d-D2JL.cx*(e+1.0)-DDJ.z*dtA.x-DEJ.z*dtD.x; D2JK.cy=-D2IJ.bz*d-D2JL.cy*(e+1.0)-DDJ.z*dtA.y-DEJ.z*dtD.y; D2JK.cz=-D2IJ.cz*d-D2JL.cz*(e+1.0)-DDJ.z*dtA.z-DEJ.z*dtD.z; // Calculate the diagonal blocks of the hessian. if((index_i.x>=0)&&(index_i.x>=0)) HessianMatrix.element[index_i.x][index_i.x]+=DDF*dtA.x*dtA.x+D2I.ax; if((index_i.x>=0)&&(index_i.y>=0)) HessianMatrix.element[index_i.x][index_i.y]+=DDF*dtA.x*dtA.y+D2I.ay; if((index_i.y>=0)&&(index_i.y>=0)) HessianMatrix.element[index_i.y][index_i.y]+=DDF*dtA.y*dtA.y+D2I.by; if((index_i.x>=0)&&(index_i.z>=0)) HessianMatrix.element[index_i.x][index_i.z]+=DDF*dtA.x*dtA.z+D2I.az; if((index_i.y>=0)&&(index_i.z>=0)) HessianMatrix.element[index_i.y][index_i.z]+=DDF*dtA.y*dtA.z+D2I.bz; if((index_i.z>=0)&&(index_i.z>=0)) HessianMatrix.element[index_i.z][index_i.z]+=DDF*dtA.z*dtA.z+D2I.cz; if((index_j.x>=0)&&(index_j.x>=0)) HessianMatrix.element[index_j.x][index_j.x]+=DDF*dtB.x*dtB.x+D2J.ax; if((index_j.x>=0)&&(index_j.y>=0)) HessianMatrix.element[index_j.x][index_j.y]+=DDF*dtB.x*dtB.y+D2J.ay; if((index_j.y>=0)&&(index_j.y>=0)) HessianMatrix.element[index_j.y][index_j.y]+=DDF*dtB.y*dtB.y+D2J.by; if((index_j.x>=0)&&(index_j.z>=0)) HessianMatrix.element[index_j.x][index_j.z]+=DDF*dtB.x*dtB.z+D2J.az; if((index_j.y>=0)&&(index_j.z>=0)) HessianMatrix.element[index_j.y][index_j.z]+=DDF*dtB.y*dtB.z+D2J.bz; if((index_j.z>=0)&&(index_j.z>=0)) HessianMatrix.element[index_j.z][index_j.z]+=DDF*dtB.z*dtB.z+D2J.cz; if((index_k.x>=0)&&(index_k.x>=0)) HessianMatrix.element[index_k.x][index_k.x]+=DDF*dtC.x*dtC.x+D2K.ax; if((index_k.x>=0)&&(index_k.y>=0)) HessianMatrix.element[index_k.x][index_k.y]+=DDF*dtC.x*dtC.y+D2K.ay; if((index_k.y>=0)&&(index_k.y>=0)) HessianMatrix.element[index_k.y][index_k.y]+=DDF*dtC.y*dtC.y+D2K.by; if((index_k.x>=0)&&(index_k.z>=0)) HessianMatrix.element[index_k.x][index_k.z]+=DDF*dtC.x*dtC.z+D2K.az; if((index_k.y>=0)&&(index_k.z>=0)) HessianMatrix.element[index_k.y][index_k.z]+=DDF*dtC.y*dtC.z+D2K.bz; if((index_k.z>=0)&&(index_k.z>=0)) HessianMatrix.element[index_k.z][index_k.z]+=DDF*dtC.z*dtC.z+D2K.cz; if((index_l.x>=0)&&(index_l.x>=0)) HessianMatrix.element[index_l.x][index_l.x]+=DDF*dtD.x*dtD.x+D2L.ax; if((index_l.x>=0)&&(index_l.y>=0)) HessianMatrix.element[index_l.x][index_l.y]+=DDF*dtD.x*dtD.y+D2L.ay; if((index_l.y>=0)&&(index_l.y>=0)) HessianMatrix.element[index_l.y][index_l.y]+=DDF*dtD.y*dtD.y+D2L.by; if((index_l.x>=0)&&(index_l.z>=0)) HessianMatrix.element[index_l.x][index_l.z]+=DDF*dtD.x*dtD.z+D2L.az; if((index_l.y>=0)&&(index_l.z>=0)) HessianMatrix.element[index_l.y][index_l.z]+=DDF*dtD.y*dtD.z+D2L.bz; if((index_l.z>=0)&&(index_l.z>=0)) HessianMatrix.element[index_l.z][index_l.z]+=DDF*dtD.z*dtD.z+D2L.cz; if(index1=0)&&(index_j.x>=0)) HessianMatrix.element[index_i.x][index_j.x]+=DDF*dtA.x*dtB.x+D2IJ.ax; if((index_i.x>=0)&&(index_j.y>=0)) HessianMatrix.element[index_i.x][index_j.y]+=DDF*dtA.x*dtB.y+D2IJ.ay; if((index_i.x>=0)&&(index_j.z>=0)) HessianMatrix.element[index_i.x][index_j.z]+=DDF*dtA.x*dtB.z+D2IJ.az; if((index_i.y>=0)&&(index_j.x>=0)) HessianMatrix.element[index_i.y][index_j.x]+=DDF*dtA.y*dtB.x+D2IJ.bx; if((index_i.y>=0)&&(index_j.y>=0)) HessianMatrix.element[index_i.y][index_j.y]+=DDF*dtA.y*dtB.y+D2IJ.by; if((index_i.y>=0)&&(index_j.z>=0)) HessianMatrix.element[index_i.y][index_j.z]+=DDF*dtA.y*dtB.z+D2IJ.bz; if((index_i.z>=0)&&(index_j.x>=0)) HessianMatrix.element[index_i.z][index_j.x]+=DDF*dtA.z*dtB.x+D2IJ.cx; if((index_i.z>=0)&&(index_j.y>=0)) HessianMatrix.element[index_i.z][index_j.y]+=DDF*dtA.z*dtB.y+D2IJ.cy; if((index_i.z>=0)&&(index_j.z>=0)) HessianMatrix.element[index_i.z][index_j.z]+=DDF*dtA.z*dtB.z+D2IJ.cz; } else { if((index_j.x>=0)&&(index_i.x>=0)) HessianMatrix.element[index_j.x][index_i.x]+=DDF*dtA.x*dtB.x+D2IJ.ax; if((index_j.x>=0)&&(index_i.y>=0)) HessianMatrix.element[index_j.x][index_i.y]+=DDF*dtA.y*dtB.x+D2IJ.bx; if((index_j.x>=0)&&(index_i.z>=0)) HessianMatrix.element[index_j.x][index_i.z]+=DDF*dtA.z*dtB.x+D2IJ.cx; if((index_j.y>=0)&&(index_i.x>=0)) HessianMatrix.element[index_j.y][index_i.x]+=DDF*dtA.x*dtB.y+D2IJ.ay; if((index_j.y>=0)&&(index_i.y>=0)) HessianMatrix.element[index_j.y][index_i.y]+=DDF*dtA.y*dtB.y+D2IJ.by; if((index_j.y>=0)&&(index_i.z>=0)) HessianMatrix.element[index_j.y][index_i.z]+=DDF*dtA.z*dtB.y+D2IJ.cy; if((index_j.z>=0)&&(index_i.x>=0)) HessianMatrix.element[index_j.z][index_i.x]+=DDF*dtA.x*dtB.z+D2IJ.az; if((index_j.z>=0)&&(index_i.y>=0)) HessianMatrix.element[index_j.z][index_i.y]+=DDF*dtA.y*dtB.z+D2IJ.bz; if((index_j.z>=0)&&(index_i.z>=0)) HessianMatrix.element[index_j.z][index_i.z]+=DDF*dtA.z*dtB.z+D2IJ.cz; } if(index1=0)&&(index_k.x>=0)) HessianMatrix.element[index_i.x][index_k.x]+=DDF*dtA.x*dtC.x+D2IK.ax; if((index_i.x>=0)&&(index_k.y>=0)) HessianMatrix.element[index_i.x][index_k.y]+=DDF*dtA.x*dtC.y+D2IK.ay; if((index_i.x>=0)&&(index_k.z>=0)) HessianMatrix.element[index_i.x][index_k.z]+=DDF*dtA.x*dtC.z+D2IK.az; if((index_i.y>=0)&&(index_k.x>=0)) HessianMatrix.element[index_i.y][index_k.x]+=DDF*dtA.y*dtC.x+D2IK.bx; if((index_i.y>=0)&&(index_k.y>=0)) HessianMatrix.element[index_i.y][index_k.y]+=DDF*dtA.y*dtC.y+D2IK.by; if((index_i.y>=0)&&(index_k.z>=0)) HessianMatrix.element[index_i.y][index_k.z]+=DDF*dtA.y*dtC.z+D2IK.bz; if((index_i.z>=0)&&(index_k.x>=0)) HessianMatrix.element[index_i.z][index_k.x]+=DDF*dtA.z*dtC.x+D2IK.cx; if((index_i.z>=0)&&(index_k.y>=0)) HessianMatrix.element[index_i.z][index_k.y]+=DDF*dtA.z*dtC.y+D2IK.cy; if((index_i.z>=0)&&(index_k.z>=0)) HessianMatrix.element[index_i.z][index_k.z]+=DDF*dtA.z*dtC.z+D2IK.cz; } else { if((index_k.x>=0)&&(index_i.x>=0)) HessianMatrix.element[index_k.x][index_i.x]+=DDF*dtA.x*dtC.x+D2IK.ax; if((index_k.x>=0)&&(index_i.y>=0)) HessianMatrix.element[index_k.x][index_i.y]+=DDF*dtA.y*dtC.x+D2IK.bx; if((index_k.x>=0)&&(index_i.z>=0)) HessianMatrix.element[index_k.x][index_i.z]+=DDF*dtA.z*dtC.x+D2IK.cx; if((index_k.y>=0)&&(index_i.x>=0)) HessianMatrix.element[index_k.y][index_i.x]+=DDF*dtA.x*dtC.y+D2IK.ay; if((index_k.y>=0)&&(index_i.y>=0)) HessianMatrix.element[index_k.y][index_i.y]+=DDF*dtA.y*dtC.y+D2IK.by; if((index_k.y>=0)&&(index_i.z>=0)) HessianMatrix.element[index_k.y][index_i.z]+=DDF*dtA.z*dtC.y+D2IK.cy; if((index_k.z>=0)&&(index_i.x>=0)) HessianMatrix.element[index_k.z][index_i.x]+=DDF*dtA.x*dtC.z+D2IK.az; if((index_k.z>=0)&&(index_i.y>=0)) HessianMatrix.element[index_k.z][index_i.y]+=DDF*dtA.y*dtC.z+D2IK.bz; if((index_k.z>=0)&&(index_i.z>=0)) HessianMatrix.element[index_k.z][index_i.z]+=DDF*dtA.z*dtC.z+D2IK.cz; } if(index1=0)&&(index_l.x>=0)) HessianMatrix.element[index_i.x][index_l.x]+=DDF*dtA.x*dtD.x+D2IL.ax; if((index_i.x>=0)&&(index_l.y>=0)) HessianMatrix.element[index_i.x][index_l.y]+=DDF*dtA.x*dtD.y+D2IL.ay; if((index_i.x>=0)&&(index_l.z>=0)) HessianMatrix.element[index_i.x][index_l.z]+=DDF*dtA.x*dtD.z+D2IL.az; if((index_i.y>=0)&&(index_l.x>=0)) HessianMatrix.element[index_i.y][index_l.x]+=DDF*dtA.y*dtD.x+D2IL.bx; if((index_i.y>=0)&&(index_l.y>=0)) HessianMatrix.element[index_i.y][index_l.y]+=DDF*dtA.y*dtD.y+D2IL.by; if((index_i.y>=0)&&(index_l.z>=0)) HessianMatrix.element[index_i.y][index_l.z]+=DDF*dtA.y*dtD.z+D2IL.bz; if((index_i.z>=0)&&(index_l.x>=0)) HessianMatrix.element[index_i.z][index_l.x]+=DDF*dtA.z*dtD.x+D2IL.cx; if((index_i.z>=0)&&(index_l.y>=0)) HessianMatrix.element[index_i.z][index_l.y]+=DDF*dtA.z*dtD.y+D2IL.cy; if((index_i.z>=0)&&(index_l.z>=0)) HessianMatrix.element[index_i.z][index_l.z]+=DDF*dtA.z*dtD.z+D2IL.cz; } else { if((index_l.x>=0)&&(index_i.x>=0)) HessianMatrix.element[index_l.x][index_i.x]+=DDF*dtA.x*dtD.x+D2IL.ax; if((index_l.x>=0)&&(index_i.y>=0)) HessianMatrix.element[index_l.x][index_i.y]+=DDF*dtA.y*dtD.x+D2IL.bx; if((index_l.x>=0)&&(index_i.z>=0)) HessianMatrix.element[index_l.x][index_i.z]+=DDF*dtA.z*dtD.x+D2IL.cx; if((index_l.y>=0)&&(index_i.x>=0)) HessianMatrix.element[index_l.y][index_i.x]+=DDF*dtA.x*dtD.y+D2IL.ay; if((index_l.y>=0)&&(index_i.y>=0)) HessianMatrix.element[index_l.y][index_i.y]+=DDF*dtA.y*dtD.y+D2IL.by; if((index_l.y>=0)&&(index_i.z>=0)) HessianMatrix.element[index_l.y][index_i.z]+=DDF*dtA.z*dtD.y+D2IL.cy; if((index_l.z>=0)&&(index_i.x>=0)) HessianMatrix.element[index_l.z][index_i.x]+=DDF*dtA.x*dtD.z+D2IL.az; if((index_l.z>=0)&&(index_i.y>=0)) HessianMatrix.element[index_l.z][index_i.y]+=DDF*dtA.y*dtD.z+D2IL.bz; if((index_l.z>=0)&&(index_i.z>=0)) HessianMatrix.element[index_l.z][index_i.z]+=DDF*dtA.z*dtD.z+D2IL.cz; } if(index2=0)&&(index_k.x>=0)) HessianMatrix.element[index_j.x][index_k.x]+=DDF*dtB.x*dtC.x+D2JK.ax; if((index_j.x>=0)&&(index_k.y>=0)) HessianMatrix.element[index_j.x][index_k.y]+=DDF*dtB.x*dtC.y+D2JK.ay; if((index_j.x>=0)&&(index_k.z>=0)) HessianMatrix.element[index_j.x][index_k.z]+=DDF*dtB.x*dtC.z+D2JK.az; if((index_j.y>=0)&&(index_k.x>=0)) HessianMatrix.element[index_j.y][index_k.x]+=DDF*dtB.y*dtC.x+D2JK.bx; if((index_j.y>=0)&&(index_k.y>=0)) HessianMatrix.element[index_j.y][index_k.y]+=DDF*dtB.y*dtC.y+D2JK.by; if((index_j.y>=0)&&(index_k.z>=0)) HessianMatrix.element[index_j.y][index_k.z]+=DDF*dtB.y*dtC.z+D2JK.bz; if((index_j.z>=0)&&(index_k.x>=0)) HessianMatrix.element[index_j.z][index_k.x]+=DDF*dtB.z*dtC.x+D2JK.cx; if((index_j.z>=0)&&(index_k.y>=0)) HessianMatrix.element[index_j.z][index_k.y]+=DDF*dtB.z*dtC.y+D2JK.cy; if((index_j.z>=0)&&(index_k.z>=0)) HessianMatrix.element[index_j.z][index_k.z]+=DDF*dtB.z*dtC.z+D2JK.cz; } else { if((index_k.x>=0)&&(index_j.x>=0)) HessianMatrix.element[index_k.x][index_j.x]+=DDF*dtB.x*dtC.x+D2JK.ax; if((index_k.x>=0)&&(index_j.y>=0)) HessianMatrix.element[index_k.x][index_j.y]+=DDF*dtB.y*dtC.x+D2JK.bx; if((index_k.x>=0)&&(index_j.z>=0)) HessianMatrix.element[index_k.x][index_j.z]+=DDF*dtB.z*dtC.x+D2JK.cx; if((index_k.y>=0)&&(index_j.x>=0)) HessianMatrix.element[index_k.y][index_j.x]+=DDF*dtB.x*dtC.y+D2JK.ay; if((index_k.y>=0)&&(index_j.y>=0)) HessianMatrix.element[index_k.y][index_j.y]+=DDF*dtB.y*dtC.y+D2JK.by; if((index_k.y>=0)&&(index_j.z>=0)) HessianMatrix.element[index_k.y][index_j.z]+=DDF*dtB.z*dtC.y+D2JK.cy; if((index_k.z>=0)&&(index_j.x>=0)) HessianMatrix.element[index_k.z][index_j.x]+=DDF*dtB.x*dtC.z+D2JK.az; if((index_k.z>=0)&&(index_j.y>=0)) HessianMatrix.element[index_k.z][index_j.y]+=DDF*dtB.y*dtC.z+D2JK.bz; if((index_k.z>=0)&&(index_j.z>=0)) HessianMatrix.element[index_k.z][index_j.z]+=DDF*dtB.z*dtC.z+D2JK.cz; } if(index2=0)&&(index_l.x>=0)) HessianMatrix.element[index_j.x][index_l.x]+=DDF*dtB.x*dtD.x+D2JL.ax; if((index_j.x>=0)&&(index_l.y>=0)) HessianMatrix.element[index_j.x][index_l.y]+=DDF*dtB.x*dtD.y+D2JL.ay; if((index_j.x>=0)&&(index_l.z>=0)) HessianMatrix.element[index_j.x][index_l.z]+=DDF*dtB.x*dtD.z+D2JL.az; if((index_j.y>=0)&&(index_l.x>=0)) HessianMatrix.element[index_j.y][index_l.x]+=DDF*dtB.y*dtD.x+D2JL.bx; if((index_j.y>=0)&&(index_l.y>=0)) HessianMatrix.element[index_j.y][index_l.y]+=DDF*dtB.y*dtD.y+D2JL.by; if((index_j.y>=0)&&(index_l.z>=0)) HessianMatrix.element[index_j.y][index_l.z]+=DDF*dtB.y*dtD.z+D2JL.bz; if((index_j.z>=0)&&(index_l.x>=0)) HessianMatrix.element[index_j.z][index_l.x]+=DDF*dtB.z*dtD.x+D2JL.cx; if((index_j.z>=0)&&(index_l.y>=0)) HessianMatrix.element[index_j.z][index_l.y]+=DDF*dtB.z*dtD.y+D2JL.cy; if((index_j.z>=0)&&(index_l.z>=0)) HessianMatrix.element[index_j.z][index_l.z]+=DDF*dtB.z*dtD.z+D2JL.cz; } else { if((index_l.x>=0)&&(index_j.x>=0)) HessianMatrix.element[index_l.x][index_j.x]+=DDF*dtB.x*dtD.x+D2JL.ax; if((index_l.x>=0)&&(index_j.y>=0)) HessianMatrix.element[index_l.x][index_j.y]+=DDF*dtB.y*dtD.x+D2JL.bx; if((index_l.x>=0)&&(index_j.z>=0)) HessianMatrix.element[index_l.x][index_j.z]+=DDF*dtB.z*dtD.x+D2JL.cx; if((index_l.y>=0)&&(index_j.x>=0)) HessianMatrix.element[index_l.y][index_j.x]+=DDF*dtB.x*dtD.y+D2JL.ay; if((index_l.y>=0)&&(index_j.y>=0)) HessianMatrix.element[index_l.y][index_j.y]+=DDF*dtB.y*dtD.y+D2JL.by; if((index_l.y>=0)&&(index_j.z>=0)) HessianMatrix.element[index_l.y][index_j.z]+=DDF*dtB.z*dtD.y+D2JL.cy; if((index_l.z>=0)&&(index_j.x>=0)) HessianMatrix.element[index_l.z][index_j.x]+=DDF*dtB.x*dtD.z+D2JL.az; if((index_l.z>=0)&&(index_j.y>=0)) HessianMatrix.element[index_l.z][index_j.y]+=DDF*dtB.y*dtD.z+D2JL.bz; if((index_l.z>=0)&&(index_j.z>=0)) HessianMatrix.element[index_l.z][index_j.z]+=DDF*dtB.z*dtD.z+D2JL.cz; } if(index3=0)&&(index_l.x>=0)) HessianMatrix.element[index_k.x][index_l.x]+=DDF*dtC.x*dtD.x+D2KL.ax; if((index_k.x>=0)&&(index_l.y>=0)) HessianMatrix.element[index_k.x][index_l.y]+=DDF*dtC.x*dtD.y+D2KL.ay; if((index_k.x>=0)&&(index_l.z>=0)) HessianMatrix.element[index_k.x][index_l.z]+=DDF*dtC.x*dtD.z+D2KL.az; if((index_k.y>=0)&&(index_l.x>=0)) HessianMatrix.element[index_k.y][index_l.x]+=DDF*dtC.y*dtD.x+D2KL.bx; if((index_k.y>=0)&&(index_l.y>=0)) HessianMatrix.element[index_k.y][index_l.y]+=DDF*dtC.y*dtD.y+D2KL.by; if((index_k.y>=0)&&(index_l.z>=0)) HessianMatrix.element[index_k.y][index_l.z]+=DDF*dtC.y*dtD.z+D2KL.bz; if((index_k.z>=0)&&(index_l.x>=0)) HessianMatrix.element[index_k.z][index_l.x]+=DDF*dtC.z*dtD.x+D2KL.cx; if((index_k.z>=0)&&(index_l.y>=0)) HessianMatrix.element[index_k.z][index_l.y]+=DDF*dtC.z*dtD.y+D2KL.cy; if((index_k.z>=0)&&(index_l.z>=0)) HessianMatrix.element[index_k.z][index_l.z]+=DDF*dtC.z*dtD.z+D2KL.cz; } else { if((index_l.x>=0)&&(index_k.x>=0)) HessianMatrix.element[index_l.x][index_k.x]+=DDF*dtC.x*dtD.x+D2KL.ax; if((index_l.x>=0)&&(index_k.y>=0)) HessianMatrix.element[index_l.x][index_k.y]+=DDF*dtC.y*dtD.x+D2KL.bx; if((index_l.x>=0)&&(index_k.z>=0)) HessianMatrix.element[index_l.x][index_k.z]+=DDF*dtC.z*dtD.x+D2KL.cx; if((index_l.y>=0)&&(index_k.x>=0)) HessianMatrix.element[index_l.y][index_k.x]+=DDF*dtC.x*dtD.y+D2KL.ay; if((index_l.y>=0)&&(index_k.y>=0)) HessianMatrix.element[index_l.y][index_k.y]+=DDF*dtC.y*dtD.y+D2KL.by; if((index_l.y>=0)&&(index_k.z>=0)) HessianMatrix.element[index_l.y][index_k.z]+=DDF*dtC.z*dtD.y+D2KL.cy; if((index_l.z>=0)&&(index_k.x>=0)) HessianMatrix.element[index_l.z][index_k.x]+=DDF*dtC.x*dtD.z+D2KL.az; if((index_l.z>=0)&&(index_k.y>=0)) HessianMatrix.element[index_l.z][index_k.y]+=DDF*dtC.y*dtD.z+D2KL.bz; if((index_l.z>=0)&&(index_k.z>=0)) HessianMatrix.element[index_l.z][index_k.z]+=DDF*dtC.z*dtD.z+D2KL.cz; } HessianTorsionStrainPosition(HessianMatrix,index_i,index_j,index_k,index_l, vec_u,vec_v,vec_w,u,v,w,fa,fc,fd,Dab,Dcb,Ddc,rbc,D2I,D2K,D2L, D2IJ,D2IK,D2IL,D2JK,D2JL,D2KL,dtA,dtB,dtC,dtD,DDF,S,CosPhi); HessianTorsionStrainStrain(HessianMatrix,vec_u,vec_v,vec_w,u,v,w,DF,DDF,S,CosPhi); } } } } void ComputeFrameworkImproperTorsionHessian(REAL *Energy,REAL* Gradient,REAL_MATRIX HessianMatrix,REAL_MATRIX3x3 *StrainDerivative,int ComputeGradient,int ComputeHessian) { int i,A,B,C,D,f1; POINT posA,posB,posC,posD; REAL d,e,rbc; VECTOR Dab,Dcb,Ddc,dr,ds; REAL dot_ab,dot_cd,r,s,sign; REAL U,CosPhi,Phi,CosPhi2,SinPhi; VECTOR dtA,dtB,dtC,dtD,Pb,Pc; REAL *parms; INT_VECTOR3 index_i,index_j,index_k,index_l; int index1,index2,index3,index4; REAL_MATRIX3x3 D2I,D2L,D2IL,D2IJ,D2IK,D2JL; REAL_MATRIX3x3 D2KL,D2J,D2K,D2JK,S; VECTOR DIL,DDJ,DDK,DEJ,DEK; REAL DF,DDF; REAL u,w,v; VECTOR vec_u,vec_v,vec_w; VECTOR fa,fb,fc,fd; for(f1=0;f1ax+=S.ax; StrainDerivative->bx+=S.bx; StrainDerivative->cx+=S.cx; StrainDerivative->ay+=S.ay; StrainDerivative->by+=S.by; StrainDerivative->cy+=S.cy; StrainDerivative->az+=S.az; StrainDerivative->bz+=S.bz; StrainDerivative->cz+=S.cz; if(ComputeGradient) { if(index_i.x>=0) Gradient[index_i.x]+=fa.x; if(index_i.y>=0) Gradient[index_i.y]+=fa.y; if(index_i.z>=0) Gradient[index_i.z]+=fa.z; if(index_j.x>=0) Gradient[index_j.x]+=fb.x; if(index_j.y>=0) Gradient[index_j.y]+=fb.y; if(index_j.z>=0) Gradient[index_j.z]+=fb.z; if(index_k.x>=0) Gradient[index_k.x]+=fc.x; if(index_k.y>=0) Gradient[index_k.y]+=fc.y; if(index_k.z>=0) Gradient[index_k.z]+=fc.z; if(index_l.x>=0) Gradient[index_l.x]+=fd.x; if(index_l.y>=0) Gradient[index_l.y]+=fd.y; if(index_l.z>=0) Gradient[index_l.z]+=fd.z; GradientStrainTorsion(Gradient,S); } if(ComputeHessian) { // Calculate the derivatives of DOTIJ and DOTLK. DIL.x=DF*Dcb.x/rbc; DIL.y=DF*Dcb.y/rbc; DIL.z=DF*Dcb.z/rbc; DDJ.x=DF*((2.0*d-1.0)*Dcb.x-Dab.x/rbc)/rbc; DDJ.y=DF*((2.0*d-1.0)*Dcb.y-Dab.y/rbc)/rbc; DDJ.z=DF*((2.0*d-1.0)*Dcb.z-Dab.z/rbc)/rbc; DDK.x=-DF*(2.0*d*Dcb.x-Dab.x/rbc)/rbc; DDK.y=-DF*(2.0*d*Dcb.y-Dab.y/rbc)/rbc; DDK.z=-DF*(2.0*d*Dcb.z-Dab.z/rbc)/rbc; DEJ.x=DF*(2.0*e*Dcb.x-Ddc.x/rbc)/rbc; DEJ.y=DF*(2.0*e*Dcb.y-Ddc.y/rbc)/rbc; DEJ.z=DF*(2.0*e*Dcb.z-Ddc.z/rbc)/rbc; DEK.x=-DF*((2.0*e+1.0)*Dcb.x-Ddc.x/rbc)/rbc; DEK.y=-DF*((2.0*e+1.0)*Dcb.y-Ddc.y/rbc)/rbc; DEK.z=-DF*((2.0*e+1.0)*Dcb.z-Ddc.z/rbc)/rbc; // Calculate some diagonal Hessian terms for I. D2I.ax=DF*(CosPhi*(dr.x*dr.x+Dcb.x*Dcb.x-1.0)/r-2.0*dr.x*dtA.x)/r; D2I.by=DF*(CosPhi*(dr.y*dr.y+Dcb.y*Dcb.y-1.0)/r-2.0*dr.y*dtA.y)/r; D2I.cz=DF*(CosPhi*(dr.z*dr.z+Dcb.z*Dcb.z-1.0)/r-2.0*dr.z*dtA.z)/r; D2I.ay=DF*(CosPhi*(dr.x*dr.y+Dcb.x*Dcb.y)/r-dr.x*dtA.y-dr.y*dtA.x)/r; D2I.az=DF*(CosPhi*(dr.x*dr.z+Dcb.x*Dcb.z)/r-dr.x*dtA.z-dr.z*dtA.x)/r; D2I.bz=DF*(CosPhi*(dr.y*dr.z+Dcb.y*Dcb.z)/r-dr.y*dtA.z-dr.z*dtA.y)/r; D2I.bx=D2I.cx=D2I.cy=0.0; // Calculate some diagonal Hessian terms for L. D2L.ax=DF*(CosPhi*(ds.x*ds.x+Dcb.x*Dcb.x-1.0)/s-2.0*ds.x*dtD.x)/s; D2L.by=DF*(CosPhi*(ds.y*ds.y+Dcb.y*Dcb.y-1.0)/s-2.0*ds.y*dtD.y)/s; D2L.cz=DF*(CosPhi*(ds.z*ds.z+Dcb.z*Dcb.z-1.0)/s-2.0*ds.z*dtD.z)/s; D2L.ay=DF*(CosPhi*(ds.x*ds.y+Dcb.x*Dcb.y)/s-ds.x*dtD.y-ds.y*dtD.x)/s; D2L.az=DF*(CosPhi*(ds.x*ds.z+Dcb.x*Dcb.z)/s-ds.x*dtD.z-ds.z*dtD.x)/s; D2L.bz=DF*(CosPhi*(ds.y*ds.z+Dcb.y*Dcb.z)/s-ds.y*dtD.z-ds.z*dtD.y)/s; D2L.bx=D2L.cx=D2L.cy=0.0; // Calculate the IL off-diagonal terms. D2IL.ax=DF*(CosPhi*dr.x*ds.x-dr.x*dr.x-ds.x*ds.x-Dcb.x*Dcb.x+1.0)/(r*s); D2IL.ay=DF*(CosPhi*dr.x*ds.y-dr.x*dr.y-ds.x*ds.y-Dcb.x*Dcb.y)/(r*s); D2IL.az=DF*(CosPhi*dr.x*ds.z-dr.x*dr.z-ds.x*ds.z-Dcb.x*Dcb.z)/(r*s); D2IL.bx=DF*(CosPhi*dr.y*ds.x-dr.y*dr.x-ds.y*ds.x-Dcb.y*Dcb.x)/(r*s); D2IL.by=DF*(CosPhi*dr.y*ds.y-dr.y*dr.y-ds.y*ds.y-Dcb.y*Dcb.y+1.0)/(r*s); D2IL.bz=DF*(CosPhi*dr.y*ds.z-dr.y*dr.z-ds.y*ds.z-Dcb.y*Dcb.z)/(r*s); D2IL.cx=DF*(CosPhi*dr.z*ds.x-dr.z*dr.x-ds.z*ds.x-Dcb.z*Dcb.x)/(r*s); D2IL.cy=DF*(CosPhi*dr.z*ds.y-dr.z*dr.y-ds.z*ds.y-Dcb.z*Dcb.y)/(r*s); D2IL.cz=DF*(CosPhi*dr.z*ds.z-dr.z*dr.z-ds.z*ds.z-Dcb.z*Dcb.z+1.0)/(r*s); // Calculate the IJ off-diagonal terms. D2IJ.ax=D2I.ax*(d-1.0)+D2IL.ax*e+DIL.x*dtA.x; D2IJ.ay=D2I.ay*(d-1.0)+D2IL.ay*e+DIL.x*dtA.y; D2IJ.az=D2I.az*(d-1.0)+D2IL.az*e+DIL.x*dtA.z; D2IJ.bx=D2I.ay*(d-1.0)+D2IL.bx*e+DIL.y*dtA.x; D2IJ.by=D2I.by*(d-1.0)+D2IL.by*e+DIL.y*dtA.y; D2IJ.bz=D2I.bz*(d-1.0)+D2IL.bz*e+DIL.y*dtA.z; D2IJ.cx=D2I.az*(d-1.0)+D2IL.cx*e+DIL.z*dtA.x; D2IJ.cy=D2I.bz*(d-1.0)+D2IL.cy*e+DIL.z*dtA.y; D2IJ.cz=D2I.cz*(d-1.0)+D2IL.cz*e+DIL.z*dtA.z; // Calculate the IK off-diagonal terms. D2IK.ax=-D2I.ax*d-D2IL.ax*(e+1.0)-DIL.x*dtA.x; D2IK.ay=-D2I.ay*d-D2IL.ay*(e+1.0)-DIL.x*dtA.y; D2IK.az=-D2I.az*d-D2IL.az*(e+1.0)-DIL.x*dtA.z; D2IK.bx=-D2I.ay*d-D2IL.bx*(e+1.0)-DIL.y*dtA.x; D2IK.by=-D2I.by*d-D2IL.by*(e+1.0)-DIL.y*dtA.y; D2IK.bz=-D2I.bz*d-D2IL.bz*(e+1.0)-DIL.y*dtA.z; D2IK.cx=-D2I.az*d-D2IL.cx*(e+1.0)-DIL.z*dtA.x; D2IK.cy=-D2I.bz*d-D2IL.cy*(e+1.0)-DIL.z*dtA.y; D2IK.cz=-D2I.cz*d-D2IL.cz*(e+1.0)-DIL.z*dtA.z; // Calculate the JL off-diagonal terms. D2JL.ax=D2IL.ax*(d-1.0)+D2L.ax*e+DIL.x*dtD.x; D2JL.ay=D2IL.ay*(d-1.0)+D2L.ay*e+DIL.y*dtD.x; D2JL.az=D2IL.az*(d-1.0)+D2L.az*e+DIL.z*dtD.x; D2JL.bx=D2IL.bx*(d-1.0)+D2L.ay*e+DIL.x*dtD.y; D2JL.by=D2IL.by*(d-1.0)+D2L.by*e+DIL.y*dtD.y; D2JL.bz=D2IL.bz*(d-1.0)+D2L.bz*e+DIL.z*dtD.y; D2JL.cx=D2IL.cx*(d-1.0)+D2L.az*e+DIL.x*dtD.z; D2JL.cy=D2IL.cy*(d-1.0)+D2L.bz*e+DIL.y*dtD.z; D2JL.cz=D2IL.cz*(d-1.0)+D2L.cz*e+DIL.z*dtD.z; // Calculate the KL off-diagonal terms. D2KL.ax=-D2IL.ax*d-D2L.ax*(e+1.0)-DIL.x*dtD.x; D2KL.ay=-D2IL.ay*d-D2L.ay*(e+1.0)-DIL.y*dtD.x; D2KL.az=-D2IL.az*d-D2L.az*(e+1.0)-DIL.z*dtD.x; D2KL.bx=-D2IL.bx*d-D2L.ay*(e+1.0)-DIL.x*dtD.y; D2KL.by=-D2IL.by*d-D2L.by*(e+1.0)-DIL.y*dtD.y; D2KL.bz=-D2IL.bz*d-D2L.bz*(e+1.0)-DIL.z*dtD.y; D2KL.cx=-D2IL.cx*d-D2L.az*(e+1.0)-DIL.x*dtD.z; D2KL.cy=-D2IL.cy*d-D2L.bz*(e+1.0)-DIL.y*dtD.z; D2KL.cz=-D2IL.cz*d-D2L.cz*(e+1.0)-DIL.z*dtD.z; // Calculate the JJ diagonal terms. D2J.ax=D2IJ.ax*(d-1.0)+D2JL.ax*e+DDJ.x*dtA.x+DEJ.x*dtD.x; D2J.by=D2IJ.by*(d-1.0)+D2JL.by*e+DDJ.y*dtA.y+DEJ.y*dtD.y; D2J.cz=D2IJ.cz*(d-1.0)+D2JL.cz*e+DDJ.z*dtA.z+DEJ.z*dtD.z; D2J.ay=D2IJ.ay*(d-1.0)+D2JL.bx*e+DDJ.y*dtA.x+DEJ.y*dtD.x; D2J.az=D2IJ.az*(d-1.0)+D2JL.cx*e+DDJ.z*dtA.x+DEJ.z*dtD.x; D2J.bz=D2IJ.bz*(d-1.0)+D2JL.cy*e+DDJ.z*dtA.y+DEJ.z*dtD.y; D2J.bx=D2J.cx=D2J.cy=0.0; // Calculate the KK diagonal terms. D2K.ax=-D2KL.ax*(e+1.0)-D2IK.ax*d-DDK.x*dtA.x-DEK.x*dtD.x; D2K.by=-D2KL.by*(e+1.0)-D2IK.by*d-DDK.y*dtA.y-DEK.y*dtD.y; D2K.cz=-D2KL.cz*(e+1.0)-D2IK.cz*d-DDK.z*dtA.z-DEK.z*dtD.z; D2K.ay=-D2KL.ay*(e+1.0)-D2IK.bx*d-DDK.x*dtA.y-DEK.x*dtD.y; D2K.az=-D2KL.az*(e+1.0)-D2IK.cx*d-DDK.x*dtA.z-DEK.x*dtD.z; D2K.bz=-D2KL.bz*(e+1.0)-D2IK.cy*d-DDK.y*dtA.z-DEK.y*dtD.z; D2K.bx=D2K.cx=D2K.cy=0.0; // Calculate the JK off-diagonal terms. D2JK.ax=-D2IJ.ax*d-D2JL.ax*(e+1.0)-DDJ.x*dtA.x-DEJ.x*dtD.x; D2JK.ay=-D2IJ.bx*d-D2JL.ay*(e+1.0)-DDJ.x*dtA.y-DEJ.x*dtD.y; D2JK.az=-D2IJ.cx*d-D2JL.az*(e+1.0)-DDJ.x*dtA.z-DEJ.x*dtD.z; D2JK.bx=-D2IJ.ay*d-D2JL.bx*(e+1.0)-DDJ.y*dtA.x-DEJ.y*dtD.x; D2JK.by=-D2IJ.by*d-D2JL.by*(e+1.0)-DDJ.y*dtA.y-DEJ.y*dtD.y; D2JK.bz=-D2IJ.cy*d-D2JL.bz*(e+1.0)-DDJ.y*dtA.z-DEJ.y*dtD.z; D2JK.cx=-D2IJ.az*d-D2JL.cx*(e+1.0)-DDJ.z*dtA.x-DEJ.z*dtD.x; D2JK.cy=-D2IJ.bz*d-D2JL.cy*(e+1.0)-DDJ.z*dtA.y-DEJ.z*dtD.y; D2JK.cz=-D2IJ.cz*d-D2JL.cz*(e+1.0)-DDJ.z*dtA.z-DEJ.z*dtD.z; // Calculate the diagonal blocks of the hessian. if((index_i.x>=0)&&(index_i.x>=0)) HessianMatrix.element[index_i.x][index_i.x]+=DDF*dtA.x*dtA.x+D2I.ax; if((index_i.x>=0)&&(index_i.y>=0)) HessianMatrix.element[index_i.x][index_i.y]+=DDF*dtA.x*dtA.y+D2I.ay; if((index_i.y>=0)&&(index_i.y>=0)) HessianMatrix.element[index_i.y][index_i.y]+=DDF*dtA.y*dtA.y+D2I.by; if((index_i.x>=0)&&(index_i.z>=0)) HessianMatrix.element[index_i.x][index_i.z]+=DDF*dtA.x*dtA.z+D2I.az; if((index_i.y>=0)&&(index_i.z>=0)) HessianMatrix.element[index_i.y][index_i.z]+=DDF*dtA.y*dtA.z+D2I.bz; if((index_i.z>=0)&&(index_i.z>=0)) HessianMatrix.element[index_i.z][index_i.z]+=DDF*dtA.z*dtA.z+D2I.cz; if((index_j.x>=0)&&(index_j.x>=0)) HessianMatrix.element[index_j.x][index_j.x]+=DDF*dtB.x*dtB.x+D2J.ax; if((index_j.x>=0)&&(index_j.y>=0)) HessianMatrix.element[index_j.x][index_j.y]+=DDF*dtB.x*dtB.y+D2J.ay; if((index_j.y>=0)&&(index_j.y>=0)) HessianMatrix.element[index_j.y][index_j.y]+=DDF*dtB.y*dtB.y+D2J.by; if((index_j.x>=0)&&(index_j.z>=0)) HessianMatrix.element[index_j.x][index_j.z]+=DDF*dtB.x*dtB.z+D2J.az; if((index_j.y>=0)&&(index_j.z>=0)) HessianMatrix.element[index_j.y][index_j.z]+=DDF*dtB.y*dtB.z+D2J.bz; if((index_j.z>=0)&&(index_j.z>=0)) HessianMatrix.element[index_j.z][index_j.z]+=DDF*dtB.z*dtB.z+D2J.cz; if((index_k.x>=0)&&(index_k.x>=0)) HessianMatrix.element[index_k.x][index_k.x]+=DDF*dtC.x*dtC.x+D2K.ax; if((index_k.x>=0)&&(index_k.y>=0)) HessianMatrix.element[index_k.x][index_k.y]+=DDF*dtC.x*dtC.y+D2K.ay; if((index_k.y>=0)&&(index_k.y>=0)) HessianMatrix.element[index_k.y][index_k.y]+=DDF*dtC.y*dtC.y+D2K.by; if((index_k.x>=0)&&(index_k.z>=0)) HessianMatrix.element[index_k.x][index_k.z]+=DDF*dtC.x*dtC.z+D2K.az; if((index_k.y>=0)&&(index_k.z>=0)) HessianMatrix.element[index_k.y][index_k.z]+=DDF*dtC.y*dtC.z+D2K.bz; if((index_k.z>=0)&&(index_k.z>=0)) HessianMatrix.element[index_k.z][index_k.z]+=DDF*dtC.z*dtC.z+D2K.cz; if((index_l.x>=0)&&(index_l.x>=0)) HessianMatrix.element[index_l.x][index_l.x]+=DDF*dtD.x*dtD.x+D2L.ax; if((index_l.x>=0)&&(index_l.y>=0)) HessianMatrix.element[index_l.x][index_l.y]+=DDF*dtD.x*dtD.y+D2L.ay; if((index_l.y>=0)&&(index_l.y>=0)) HessianMatrix.element[index_l.y][index_l.y]+=DDF*dtD.y*dtD.y+D2L.by; if((index_l.x>=0)&&(index_l.z>=0)) HessianMatrix.element[index_l.x][index_l.z]+=DDF*dtD.x*dtD.z+D2L.az; if((index_l.y>=0)&&(index_l.z>=0)) HessianMatrix.element[index_l.y][index_l.z]+=DDF*dtD.y*dtD.z+D2L.bz; if((index_l.z>=0)&&(index_l.z>=0)) HessianMatrix.element[index_l.z][index_l.z]+=DDF*dtD.z*dtD.z+D2L.cz; if(index1=0)&&(index_j.x>=0)) HessianMatrix.element[index_i.x][index_j.x]+=DDF*dtA.x*dtB.x+D2IJ.ax; if((index_i.x>=0)&&(index_j.y>=0)) HessianMatrix.element[index_i.x][index_j.y]+=DDF*dtA.x*dtB.y+D2IJ.ay; if((index_i.x>=0)&&(index_j.z>=0)) HessianMatrix.element[index_i.x][index_j.z]+=DDF*dtA.x*dtB.z+D2IJ.az; if((index_i.y>=0)&&(index_j.x>=0)) HessianMatrix.element[index_i.y][index_j.x]+=DDF*dtA.y*dtB.x+D2IJ.bx; if((index_i.y>=0)&&(index_j.y>=0)) HessianMatrix.element[index_i.y][index_j.y]+=DDF*dtA.y*dtB.y+D2IJ.by; if((index_i.y>=0)&&(index_j.z>=0)) HessianMatrix.element[index_i.y][index_j.z]+=DDF*dtA.y*dtB.z+D2IJ.bz; if((index_i.z>=0)&&(index_j.x>=0)) HessianMatrix.element[index_i.z][index_j.x]+=DDF*dtA.z*dtB.x+D2IJ.cx; if((index_i.z>=0)&&(index_j.y>=0)) HessianMatrix.element[index_i.z][index_j.y]+=DDF*dtA.z*dtB.y+D2IJ.cy; if((index_i.z>=0)&&(index_j.z>=0)) HessianMatrix.element[index_i.z][index_j.z]+=DDF*dtA.z*dtB.z+D2IJ.cz; } else { if((index_j.x>=0)&&(index_i.x>=0)) HessianMatrix.element[index_j.x][index_i.x]+=DDF*dtA.x*dtB.x+D2IJ.ax; if((index_j.x>=0)&&(index_i.y>=0)) HessianMatrix.element[index_j.x][index_i.y]+=DDF*dtA.y*dtB.x+D2IJ.bx; if((index_j.x>=0)&&(index_i.z>=0)) HessianMatrix.element[index_j.x][index_i.z]+=DDF*dtA.z*dtB.x+D2IJ.cx; if((index_j.y>=0)&&(index_i.x>=0)) HessianMatrix.element[index_j.y][index_i.x]+=DDF*dtA.x*dtB.y+D2IJ.ay; if((index_j.y>=0)&&(index_i.y>=0)) HessianMatrix.element[index_j.y][index_i.y]+=DDF*dtA.y*dtB.y+D2IJ.by; if((index_j.y>=0)&&(index_i.z>=0)) HessianMatrix.element[index_j.y][index_i.z]+=DDF*dtA.z*dtB.y+D2IJ.cy; if((index_j.z>=0)&&(index_i.x>=0)) HessianMatrix.element[index_j.z][index_i.x]+=DDF*dtA.x*dtB.z+D2IJ.az; if((index_j.z>=0)&&(index_i.y>=0)) HessianMatrix.element[index_j.z][index_i.y]+=DDF*dtA.y*dtB.z+D2IJ.bz; if((index_j.z>=0)&&(index_i.z>=0)) HessianMatrix.element[index_j.z][index_i.z]+=DDF*dtA.z*dtB.z+D2IJ.cz; } if(index1=0)&&(index_k.x>=0)) HessianMatrix.element[index_i.x][index_k.x]+=DDF*dtA.x*dtC.x+D2IK.ax; if((index_i.x>=0)&&(index_k.y>=0)) HessianMatrix.element[index_i.x][index_k.y]+=DDF*dtA.x*dtC.y+D2IK.ay; if((index_i.x>=0)&&(index_k.z>=0)) HessianMatrix.element[index_i.x][index_k.z]+=DDF*dtA.x*dtC.z+D2IK.az; if((index_i.y>=0)&&(index_k.x>=0)) HessianMatrix.element[index_i.y][index_k.x]+=DDF*dtA.y*dtC.x+D2IK.bx; if((index_i.y>=0)&&(index_k.y>=0)) HessianMatrix.element[index_i.y][index_k.y]+=DDF*dtA.y*dtC.y+D2IK.by; if((index_i.y>=0)&&(index_k.z>=0)) HessianMatrix.element[index_i.y][index_k.z]+=DDF*dtA.y*dtC.z+D2IK.bz; if((index_i.z>=0)&&(index_k.x>=0)) HessianMatrix.element[index_i.z][index_k.x]+=DDF*dtA.z*dtC.x+D2IK.cx; if((index_i.z>=0)&&(index_k.y>=0)) HessianMatrix.element[index_i.z][index_k.y]+=DDF*dtA.z*dtC.y+D2IK.cy; if((index_i.z>=0)&&(index_k.z>=0)) HessianMatrix.element[index_i.z][index_k.z]+=DDF*dtA.z*dtC.z+D2IK.cz; } else { if((index_k.x>=0)&&(index_i.x>=0)) HessianMatrix.element[index_k.x][index_i.x]+=DDF*dtA.x*dtC.x+D2IK.ax; if((index_k.x>=0)&&(index_i.y>=0)) HessianMatrix.element[index_k.x][index_i.y]+=DDF*dtA.y*dtC.x+D2IK.bx; if((index_k.x>=0)&&(index_i.z>=0)) HessianMatrix.element[index_k.x][index_i.z]+=DDF*dtA.z*dtC.x+D2IK.cx; if((index_k.y>=0)&&(index_i.x>=0)) HessianMatrix.element[index_k.y][index_i.x]+=DDF*dtA.x*dtC.y+D2IK.ay; if((index_k.y>=0)&&(index_i.y>=0)) HessianMatrix.element[index_k.y][index_i.y]+=DDF*dtA.y*dtC.y+D2IK.by; if((index_k.y>=0)&&(index_i.z>=0)) HessianMatrix.element[index_k.y][index_i.z]+=DDF*dtA.z*dtC.y+D2IK.cy; if((index_k.z>=0)&&(index_i.x>=0)) HessianMatrix.element[index_k.z][index_i.x]+=DDF*dtA.x*dtC.z+D2IK.az; if((index_k.z>=0)&&(index_i.y>=0)) HessianMatrix.element[index_k.z][index_i.y]+=DDF*dtA.y*dtC.z+D2IK.bz; if((index_k.z>=0)&&(index_i.z>=0)) HessianMatrix.element[index_k.z][index_i.z]+=DDF*dtA.z*dtC.z+D2IK.cz; } if(index1=0)&&(index_l.x>=0)) HessianMatrix.element[index_i.x][index_l.x]+=DDF*dtA.x*dtD.x+D2IL.ax; if((index_i.x>=0)&&(index_l.y>=0)) HessianMatrix.element[index_i.x][index_l.y]+=DDF*dtA.x*dtD.y+D2IL.ay; if((index_i.x>=0)&&(index_l.z>=0)) HessianMatrix.element[index_i.x][index_l.z]+=DDF*dtA.x*dtD.z+D2IL.az; if((index_i.y>=0)&&(index_l.x>=0)) HessianMatrix.element[index_i.y][index_l.x]+=DDF*dtA.y*dtD.x+D2IL.bx; if((index_i.y>=0)&&(index_l.y>=0)) HessianMatrix.element[index_i.y][index_l.y]+=DDF*dtA.y*dtD.y+D2IL.by; if((index_i.y>=0)&&(index_l.z>=0)) HessianMatrix.element[index_i.y][index_l.z]+=DDF*dtA.y*dtD.z+D2IL.bz; if((index_i.z>=0)&&(index_l.x>=0)) HessianMatrix.element[index_i.z][index_l.x]+=DDF*dtA.z*dtD.x+D2IL.cx; if((index_i.z>=0)&&(index_l.y>=0)) HessianMatrix.element[index_i.z][index_l.y]+=DDF*dtA.z*dtD.y+D2IL.cy; if((index_i.z>=0)&&(index_l.z>=0)) HessianMatrix.element[index_i.z][index_l.z]+=DDF*dtA.z*dtD.z+D2IL.cz; } else { if((index_l.x>=0)&&(index_i.x>=0)) HessianMatrix.element[index_l.x][index_i.x]+=DDF*dtA.x*dtD.x+D2IL.ax; if((index_l.x>=0)&&(index_i.y>=0)) HessianMatrix.element[index_l.x][index_i.y]+=DDF*dtA.y*dtD.x+D2IL.bx; if((index_l.x>=0)&&(index_i.z>=0)) HessianMatrix.element[index_l.x][index_i.z]+=DDF*dtA.z*dtD.x+D2IL.cx; if((index_l.y>=0)&&(index_i.x>=0)) HessianMatrix.element[index_l.y][index_i.x]+=DDF*dtA.x*dtD.y+D2IL.ay; if((index_l.y>=0)&&(index_i.y>=0)) HessianMatrix.element[index_l.y][index_i.y]+=DDF*dtA.y*dtD.y+D2IL.by; if((index_l.y>=0)&&(index_i.z>=0)) HessianMatrix.element[index_l.y][index_i.z]+=DDF*dtA.z*dtD.y+D2IL.cy; if((index_l.z>=0)&&(index_i.x>=0)) HessianMatrix.element[index_l.z][index_i.x]+=DDF*dtA.x*dtD.z+D2IL.az; if((index_l.z>=0)&&(index_i.y>=0)) HessianMatrix.element[index_l.z][index_i.y]+=DDF*dtA.y*dtD.z+D2IL.bz; if((index_l.z>=0)&&(index_i.z>=0)) HessianMatrix.element[index_l.z][index_i.z]+=DDF*dtA.z*dtD.z+D2IL.cz; } if(index2=0)&&(index_k.x>=0)) HessianMatrix.element[index_j.x][index_k.x]+=DDF*dtB.x*dtC.x+D2JK.ax; if((index_j.x>=0)&&(index_k.y>=0)) HessianMatrix.element[index_j.x][index_k.y]+=DDF*dtB.x*dtC.y+D2JK.ay; if((index_j.x>=0)&&(index_k.z>=0)) HessianMatrix.element[index_j.x][index_k.z]+=DDF*dtB.x*dtC.z+D2JK.az; if((index_j.y>=0)&&(index_k.x>=0)) HessianMatrix.element[index_j.y][index_k.x]+=DDF*dtB.y*dtC.x+D2JK.bx; if((index_j.y>=0)&&(index_k.y>=0)) HessianMatrix.element[index_j.y][index_k.y]+=DDF*dtB.y*dtC.y+D2JK.by; if((index_j.y>=0)&&(index_k.z>=0)) HessianMatrix.element[index_j.y][index_k.z]+=DDF*dtB.y*dtC.z+D2JK.bz; if((index_j.z>=0)&&(index_k.x>=0)) HessianMatrix.element[index_j.z][index_k.x]+=DDF*dtB.z*dtC.x+D2JK.cx; if((index_j.z>=0)&&(index_k.y>=0)) HessianMatrix.element[index_j.z][index_k.y]+=DDF*dtB.z*dtC.y+D2JK.cy; if((index_j.z>=0)&&(index_k.z>=0)) HessianMatrix.element[index_j.z][index_k.z]+=DDF*dtB.z*dtC.z+D2JK.cz; } else { if((index_k.x>=0)&&(index_j.x>=0)) HessianMatrix.element[index_k.x][index_j.x]+=DDF*dtB.x*dtC.x+D2JK.ax; if((index_k.x>=0)&&(index_j.y>=0)) HessianMatrix.element[index_k.x][index_j.y]+=DDF*dtB.y*dtC.x+D2JK.bx; if((index_k.x>=0)&&(index_j.z>=0)) HessianMatrix.element[index_k.x][index_j.z]+=DDF*dtB.z*dtC.x+D2JK.cx; if((index_k.y>=0)&&(index_j.x>=0)) HessianMatrix.element[index_k.y][index_j.x]+=DDF*dtB.x*dtC.y+D2JK.ay; if((index_k.y>=0)&&(index_j.y>=0)) HessianMatrix.element[index_k.y][index_j.y]+=DDF*dtB.y*dtC.y+D2JK.by; if((index_k.y>=0)&&(index_j.z>=0)) HessianMatrix.element[index_k.y][index_j.z]+=DDF*dtB.z*dtC.y+D2JK.cy; if((index_k.z>=0)&&(index_j.x>=0)) HessianMatrix.element[index_k.z][index_j.x]+=DDF*dtB.x*dtC.z+D2JK.az; if((index_k.z>=0)&&(index_j.y>=0)) HessianMatrix.element[index_k.z][index_j.y]+=DDF*dtB.y*dtC.z+D2JK.bz; if((index_k.z>=0)&&(index_j.z>=0)) HessianMatrix.element[index_k.z][index_j.z]+=DDF*dtB.z*dtC.z+D2JK.cz; } if(index2=0)&&(index_l.x>=0)) HessianMatrix.element[index_j.x][index_l.x]+=DDF*dtB.x*dtD.x+D2JL.ax; if((index_j.x>=0)&&(index_l.y>=0)) HessianMatrix.element[index_j.x][index_l.y]+=DDF*dtB.x*dtD.y+D2JL.ay; if((index_j.x>=0)&&(index_l.z>=0)) HessianMatrix.element[index_j.x][index_l.z]+=DDF*dtB.x*dtD.z+D2JL.az; if((index_j.y>=0)&&(index_l.x>=0)) HessianMatrix.element[index_j.y][index_l.x]+=DDF*dtB.y*dtD.x+D2JL.bx; if((index_j.y>=0)&&(index_l.y>=0)) HessianMatrix.element[index_j.y][index_l.y]+=DDF*dtB.y*dtD.y+D2JL.by; if((index_j.y>=0)&&(index_l.z>=0)) HessianMatrix.element[index_j.y][index_l.z]+=DDF*dtB.y*dtD.z+D2JL.bz; if((index_j.z>=0)&&(index_l.x>=0)) HessianMatrix.element[index_j.z][index_l.x]+=DDF*dtB.z*dtD.x+D2JL.cx; if((index_j.z>=0)&&(index_l.y>=0)) HessianMatrix.element[index_j.z][index_l.y]+=DDF*dtB.z*dtD.y+D2JL.cy; if((index_j.z>=0)&&(index_l.z>=0)) HessianMatrix.element[index_j.z][index_l.z]+=DDF*dtB.z*dtD.z+D2JL.cz; } else { if((index_l.x>=0)&&(index_j.x>=0)) HessianMatrix.element[index_l.x][index_j.x]+=DDF*dtB.x*dtD.x+D2JL.ax; if((index_l.x>=0)&&(index_j.y>=0)) HessianMatrix.element[index_l.x][index_j.y]+=DDF*dtB.y*dtD.x+D2JL.bx; if((index_l.x>=0)&&(index_j.z>=0)) HessianMatrix.element[index_l.x][index_j.z]+=DDF*dtB.z*dtD.x+D2JL.cx; if((index_l.y>=0)&&(index_j.x>=0)) HessianMatrix.element[index_l.y][index_j.x]+=DDF*dtB.x*dtD.y+D2JL.ay; if((index_l.y>=0)&&(index_j.y>=0)) HessianMatrix.element[index_l.y][index_j.y]+=DDF*dtB.y*dtD.y+D2JL.by; if((index_l.y>=0)&&(index_j.z>=0)) HessianMatrix.element[index_l.y][index_j.z]+=DDF*dtB.z*dtD.y+D2JL.cy; if((index_l.z>=0)&&(index_j.x>=0)) HessianMatrix.element[index_l.z][index_j.x]+=DDF*dtB.x*dtD.z+D2JL.az; if((index_l.z>=0)&&(index_j.y>=0)) HessianMatrix.element[index_l.z][index_j.y]+=DDF*dtB.y*dtD.z+D2JL.bz; if((index_l.z>=0)&&(index_j.z>=0)) HessianMatrix.element[index_l.z][index_j.z]+=DDF*dtB.z*dtD.z+D2JL.cz; } if(index3=0)&&(index_l.x>=0)) HessianMatrix.element[index_k.x][index_l.x]+=DDF*dtC.x*dtD.x+D2KL.ax; if((index_k.x>=0)&&(index_l.y>=0)) HessianMatrix.element[index_k.x][index_l.y]+=DDF*dtC.x*dtD.y+D2KL.ay; if((index_k.x>=0)&&(index_l.z>=0)) HessianMatrix.element[index_k.x][index_l.z]+=DDF*dtC.x*dtD.z+D2KL.az; if((index_k.y>=0)&&(index_l.x>=0)) HessianMatrix.element[index_k.y][index_l.x]+=DDF*dtC.y*dtD.x+D2KL.bx; if((index_k.y>=0)&&(index_l.y>=0)) HessianMatrix.element[index_k.y][index_l.y]+=DDF*dtC.y*dtD.y+D2KL.by; if((index_k.y>=0)&&(index_l.z>=0)) HessianMatrix.element[index_k.y][index_l.z]+=DDF*dtC.y*dtD.z+D2KL.bz; if((index_k.z>=0)&&(index_l.x>=0)) HessianMatrix.element[index_k.z][index_l.x]+=DDF*dtC.z*dtD.x+D2KL.cx; if((index_k.z>=0)&&(index_l.y>=0)) HessianMatrix.element[index_k.z][index_l.y]+=DDF*dtC.z*dtD.y+D2KL.cy; if((index_k.z>=0)&&(index_l.z>=0)) HessianMatrix.element[index_k.z][index_l.z]+=DDF*dtC.z*dtD.z+D2KL.cz; } else { if((index_l.x>=0)&&(index_k.x>=0)) HessianMatrix.element[index_l.x][index_k.x]+=DDF*dtC.x*dtD.x+D2KL.ax; if((index_l.x>=0)&&(index_k.y>=0)) HessianMatrix.element[index_l.x][index_k.y]+=DDF*dtC.y*dtD.x+D2KL.bx; if((index_l.x>=0)&&(index_k.z>=0)) HessianMatrix.element[index_l.x][index_k.z]+=DDF*dtC.z*dtD.x+D2KL.cx; if((index_l.y>=0)&&(index_k.x>=0)) HessianMatrix.element[index_l.y][index_k.x]+=DDF*dtC.x*dtD.y+D2KL.ay; if((index_l.y>=0)&&(index_k.y>=0)) HessianMatrix.element[index_l.y][index_k.y]+=DDF*dtC.y*dtD.y+D2KL.by; if((index_l.y>=0)&&(index_k.z>=0)) HessianMatrix.element[index_l.y][index_k.z]+=DDF*dtC.z*dtD.y+D2KL.cy; if((index_l.z>=0)&&(index_k.x>=0)) HessianMatrix.element[index_l.z][index_k.x]+=DDF*dtC.x*dtD.z+D2KL.az; if((index_l.z>=0)&&(index_k.y>=0)) HessianMatrix.element[index_l.z][index_k.y]+=DDF*dtC.y*dtD.z+D2KL.bz; if((index_l.z>=0)&&(index_k.z>=0)) HessianMatrix.element[index_l.z][index_k.z]+=DDF*dtC.z*dtD.z+D2KL.cz; } HessianTorsionStrainPosition(HessianMatrix,index_i,index_j,index_k,index_l, vec_u,vec_v,vec_w,u,v,w,fa,fc,fd,Dab,Dcb,Ddc,rbc,D2I,D2K,D2L, D2IJ,D2IK,D2IL,D2JK,D2JL,D2KL,dtA,dtB,dtC,dtD,DDF,S,CosPhi); HessianTorsionStrainStrain(HessianMatrix,vec_u,vec_v,vec_w,u,v,w,DF,DDF,S,CosPhi); } } } } // Numerical routines // TODO: convert them to analytical expressions void CalculateFrameworkInversionBendForces(int f1,int i,VECTOR posA,VECTOR posB,VECTOR posC,VECTOR posD,REAL *Energy,VECTOR *fa,VECTOR *fb,VECTOR *fc,VECTOR *fd,REAL_MATRIX3x3 *strain_derivative) { REAL *parms; REAL c,e; REAL rrab,rab2,rrbc,rbc2,rbd2,rad2,rac2,dot; REAL CosChi,Chi,energy; REAL temp,temp2; VECTOR Rab,Rbc,Rbd,Rad,Rac; REAL term,dedcos; VECTOR dccdia,dccdic,dccdid; VECTOR deedia,deedic,deedid; parms=Framework[CurrentSystem].InversionBendArguments[f1][i]; Rab.x=posA.x-posB.x; Rab.y=posA.y-posB.y; Rab.z=posA.z-posB.z; Rab=ApplyBoundaryCondition(Rab); rab2=Rab.x*Rab.x+Rab.y*Rab.y+Rab.z*Rab.z; rrab=sqrt(rab2); Rbc.x=posC.x-posB.x; Rbc.y=posC.y-posB.y; Rbc.z=posC.z-posB.z; Rbc=ApplyBoundaryCondition(Rbc); rbc2=Rbc.x*Rbc.x+Rbc.y*Rbc.y+Rbc.z*Rbc.z; rrbc=sqrt(rbc2); Rbd.x=posD.x-posB.x; Rbd.y=posD.y-posB.y; Rbd.z=posD.z-posB.z; Rbd=ApplyBoundaryCondition(Rbd); rbd2=Rbd.x*Rbd.x+Rbd.y*Rbd.y+Rbd.z*Rbd.z; Rac.x=posC.x-posA.x; Rac.y=posC.y-posA.y; Rac.z=posC.z-posA.z; Rac=ApplyBoundaryCondition(Rac); rac2=Rac.x*Rac.x+Rac.y*Rac.y+Rac.z*Rac.z; Rad.x=posD.x-posA.x; Rad.y=posD.y-posA.y; Rad.z=posD.z-posA.z; Rad=ApplyBoundaryCondition(Rad); rad2=Rad.x*Rad.x+Rad.y*Rad.y+Rad.z*Rad.z; switch(Framework[CurrentSystem].InversionBendType[f1][i]) { case HARMONIC_INVERSION: case HARMONIC_COSINE_INVERSION: case PLANAR_INVERSION: // w is a vector perpendicular to the B-C-D plane // c=w.w=(Rbc x Rbd).(Rbc x Rbd)= r_bc^2 r_bd^2 - (r_cb . r_bd)^2 dot=Rbc.x*Rbd.x+Rbc.y*Rbd.y+Rbc.z*Rbd.z; c=rbc2*rbd2-SQR(dot); //c=(Rbc.x*Rbc.x+Rbc.y*Rbc.y+Rbc.z*Rbc.z)*(Rbd.x*Rbd.x+Rbd.y*Rbd.y+Rbd.z*Rbd.z)-SQR(Rbc.x*Rbd.x+Rbc.y*Rbd.y+Rbc.z*Rbd.z); break; case MM3_INVERSION: case HARMONIC_INVERSION2: case HARMONIC_COSINE_INVERSION2: case PLANAR_INVERSION2: // w is a vector perpendicular to the A-C-D plane // c=w.w=(Rcd x Rad).(Rcd x Rad)=r_cd^2 r_ad^2 - (r_da . r_cd)^2 dot=Rac.x*Rad.x+Rac.y*Rad.y+Rac.z*Rad.z; c=rac2*rad2-SQR(dot); //c=(Rcd.x*Rcd.x+Rcd.y*Rcd.y+Rcd.z*Rcd.z)*(Rad.x*Rad.x+Rad.y*Rad.y+Rad.z*Rad.z)-SQR(Rad.x*Rcd.x+Rad.y*Rcd.y+Rad.z*Rcd.z); break; default: fprintf(stderr, "Undefined Inversion-Bend potential in routine 'CalculateFrameworkInversionBendEnergy' ('framework_energy.c')\n"); exit(0); break; } e=Rab.x*(Rbc.y*Rbd.z-Rbc.z*Rbd.y)+Rab.y*(Rbc.z*Rbd.x-Rbc.x*Rbd.z)+Rab.z*(Rbc.x*Rbd.y-Rbc.y*Rbd.x); CosChi=sqrt((Rab.x*Rab.x+Rab.y*Rab.y+Rab.z*Rab.z)-SQR(e)/c)/rrab; // Ensure CosChi is between -1 and 1. CosChi=SIGN(MIN2(fabs(CosChi),(REAL)1.0),CosChi); parms=Framework[CurrentSystem].InversionBendArguments[f1][i]; switch(Framework[CurrentSystem].InversionBendType[f1][i]) { case HARMONIC_INVERSION: case HARMONIC_INVERSION2: // (1/2)*p_0*(chi-p_1)^2 // =============================================== // p_0/k_B [K] // p_1 [degrees] Chi=acos(CosChi); energy=0.5*parms[0]*SQR(Chi-parms[1]); dedcos=-SIGN(1.0,e)*(parms[0]*(Chi-parms[1])/sqrt(c*(rab2-e*e/c))); break; case HARMONIC_COSINE_INVERSION: case HARMONIC_COSINE_INVERSION2: // (1/2)*p_0*(cos(phi)-cos(p_1))^2 // =============================================== // p_0/k_B [K] // p_1 [degrees] Chi=acos(CosChi); energy=0.5*parms[0]*SQR(CosChi-parms[1]); dedcos=SIGN(1.0,e)*parms[0]*(CosChi-parms[1])*sin(Chi)/sqrt(c*(rab2-e*e/c)); break; case PLANAR_INVERSION: case PLANAR_INVERSION2: // (1/2)*p_0*(1-cos(phi)) // =============================================== // p_0/k_B [K] Chi=acos(CosChi); energy=parms[0]*(1.0-CosChi); dedcos=-SIGN(1.0,e)*parms[0]*sin(Chi)/sqrt(c*(rab2-e*e/c)); break; case MM3_INVERSION: // p_0*(chi-p_1)^2(1-0.014*(chi-p_1)+5.6e-5*(chi-p_1)^2-7e-7*(chi-p_1)^3+2.2e-8(chi-p_1)^4) // ================================================================================================= // p_0/k_B [mdyne A/rad^2] // p_1 [degrees] Chi=acos(CosChi); temp=RAD2DEG*(Chi-parms[1]); temp2=SQR(temp); energy=parms[0]*temp2*(1.0-0.014*temp+5.6e-5*temp2-7.0e-7*temp*temp2+2.2e-8*SQR(temp2)); dedcos=-SIGN(1.0,e)*parms[0]*temp*RAD2DEG*(2.0-3.0*0.014*temp+4.0*5.6e-5*temp2-5.0*7.0e-7*temp*temp2+6.0*2.2e-8*SQR(temp2))/sqrt(c*(rab2-e*e/c)); break; default: fprintf(stderr, "Undefined Inversion-Bend potential in routine 'CalculateFrameworkInversionBendEnergy' ('framework_energy.c')\n"); exit(0); break; } // energy *Energy=energy; switch(Framework[CurrentSystem].InversionBendType[f1][i]) { case HARMONIC_COSINE_INVERSION: case PLANAR_INVERSION: case HARMONIC_INVERSION: term=e/c; dccdia.x=0.0; dccdia.y=0.0; dccdia.z=0.0; dccdic.x=(Rbc.x*rbd2-Rbd.x*dot)*term; dccdic.y=(Rbc.y*rbd2-Rbd.y*dot)*term; dccdic.z=(Rbc.z*rbd2-Rbd.z*dot)*term; dccdid.x=(Rbd.x*rbc2-Rbc.x*dot)*term; dccdid.y=(Rbd.y*rbc2-Rbc.y*dot)*term; dccdid.z=(Rbd.z*rbc2-Rbc.z*dot)*term; break; case HARMONIC_INVERSION2: case HARMONIC_COSINE_INVERSION2: case PLANAR_INVERSION2: case MM3_INVERSION: term=e/c; dccdic.x=(Rac.x*rad2-Rad.x*dot)*term; dccdic.y=(Rac.y*rad2-Rad.y*dot)*term; dccdic.z=(Rac.z*rad2-Rad.z*dot)*term; dccdid.x=(Rad.x*rac2-Rac.x*dot)*term; dccdid.y=(Rad.y*rac2-Rac.y*dot)*term; dccdid.z=(Rad.z*rac2-Rac.z*dot)*term; dccdia.x=-(dccdic.x+dccdid.x); dccdia.y=-(dccdic.y+dccdid.y); dccdia.z=-(dccdic.z+dccdid.z); break; default: fprintf(stderr, "Undefined Inversion-Bend potential in routine 'CalculateFrameworkInversionBendEnergy' ('framework_energy.c')\n"); exit(0); break; } term=e/rab2; deedia.x=Rbd.y*Rbc.z-Rbd.z*Rbc.y+Rab.x*term; deedia.y=Rbd.z*Rbc.x-Rbd.x*Rbc.z+Rab.y*term; deedia.z=Rbd.x*Rbc.y-Rbd.y*Rbc.x+Rab.z*term; deedic.x=Rab.y*Rbd.z-Rab.z*Rbd.y; deedic.y=Rab.z*Rbd.x-Rab.x*Rbd.z; deedic.z=Rab.x*Rbd.y-Rab.y*Rbd.x; deedid.x=Rbc.y*Rab.z-Rbc.z*Rab.y; deedid.y=Rbc.z*Rab.x-Rbc.x*Rab.z; deedid.z=Rbc.x*Rab.y-Rbc.y*Rab.x; fa->x=-dedcos*(dccdia.x+deedia.x); fa->y=-dedcos*(dccdia.y+deedia.y); fa->z=-dedcos*(dccdia.z+deedia.z); fc->x=-dedcos*(dccdic.x+deedic.x); fc->y=-dedcos*(dccdic.y+deedic.y); fc->z=-dedcos*(dccdic.z+deedic.z); fd->x=-dedcos*(dccdid.x+deedid.x); fd->y=-dedcos*(dccdid.y+deedid.y); fd->z=-dedcos*(dccdid.z+deedid.z); fb->x=-(fa->x+fc->x+fd->x); fb->y=-(fa->y+fc->y+fd->y); fb->z=-(fa->z+fc->z+fd->z); strain_derivative->ax=Rab.x*fa->x+Rbc.x*fc->x+Rbd.x*fd->x; strain_derivative->ay=Rab.x*fa->y+Rbc.x*fc->y+Rbd.x*fd->y; strain_derivative->az=Rab.x*fa->z+Rbc.x*fc->z+Rbd.x*fd->z; strain_derivative->bx=Rab.y*fa->x+Rbc.y*fc->x+Rbd.y*fd->x; strain_derivative->by=Rab.y*fa->y+Rbc.y*fc->y+Rbd.y*fd->y; strain_derivative->bz=Rab.y*fa->z+Rbc.y*fc->z+Rbd.y*fd->z; strain_derivative->cx=Rab.z*fa->x+Rbc.z*fc->x+Rbd.z*fd->x; strain_derivative->cy=Rab.z*fa->y+Rbc.z*fc->y+Rbd.z*fd->y; strain_derivative->cz=Rab.z*fa->z+Rbc.z*fc->z+Rbd.z*fd->z; } void ComputeFrameworkInversionBendHessian(REAL *Energy,REAL* Gradient,REAL_MATRIX HessianMatrix,REAL_MATRIX3x3 *StrainDerivativeTensor,int ComputeGradient,int ComputeHessian) { int i,f1; int A,B,C,D; const REAL Delta=1e-7; VECTOR posA0,posB0,posC0,posD0; VECTOR posA,posB,posC,posD; VECTOR fa0,fb0,fc0,fd0,fa[4],fb[4],fc[4],fd[4]; INT_VECTOR3 index_i,index_j,index_k,index_l; REAL U; REAL_MATRIX3x3 strain_derivative; for(f1=0;f1ax+=strain_derivative.ax; StrainDerivativeTensor->ay+=strain_derivative.ay; StrainDerivativeTensor->az+=strain_derivative.az; StrainDerivativeTensor->bx+=strain_derivative.bx; StrainDerivativeTensor->by+=strain_derivative.by; StrainDerivativeTensor->bz+=strain_derivative.bz; StrainDerivativeTensor->cx+=strain_derivative.cx; StrainDerivativeTensor->cy+=strain_derivative.cy; StrainDerivativeTensor->cz+=strain_derivative.cz; // add contribution to the first derivatives if(ComputeGradient) { if(index_i.x>=0) Gradient[index_i.x]-=fa0.x; if(index_i.y>=0) Gradient[index_i.y]-=fa0.y; if(index_i.z>=0) Gradient[index_i.z]-=fa0.z; if(index_j.x>=0) Gradient[index_j.x]-=fb0.x; if(index_j.y>=0) Gradient[index_j.y]-=fb0.y; if(index_j.z>=0) Gradient[index_j.z]-=fb0.z; if(index_k.x>=0) Gradient[index_k.x]-=fc0.x; if(index_k.y>=0) Gradient[index_k.y]-=fc0.y; if(index_k.z>=0) Gradient[index_k.z]-=fc0.z; if(index_l.x>=0) Gradient[index_l.x]-=fd0.x; if(index_l.y>=0) Gradient[index_l.y]-=fd0.y; if(index_l.z>=0) Gradient[index_l.z]-=fd0.z; } if(ComputeHessian) { // Atom A posA=posA0; posB=posB0; posC=posC0; posD=posD0; posA.x+=Delta; CalculateFrameworkInversionBendForces(f1,i,posA,posB,posC,posD,&U,&fa[0],&fb[0],&fc[0],&fd[0],&strain_derivative); posA=posA0; posB=posB0; posC=posC0; posD=posD0; posA.x+=0.5*Delta; CalculateFrameworkInversionBendForces(f1,i,posA,posB,posC,posD,&U,&fa[1],&fb[1],&fc[1],&fd[1],&strain_derivative); posA=posA0; posB=posB0; posC=posC0; posD=posD0; posA.x-=0.5*Delta; CalculateFrameworkInversionBendForces(f1,i,posA,posB,posC,posD,&U,&fa[2],&fb[2],&fc[2],&fd[2],&strain_derivative); posA=posA0; posB=posB0; posC=posC0; posD=posD0; posA.x-=Delta; CalculateFrameworkInversionBendForces(f1,i,posA,posB,posC,posD,&U,&fa[3],&fb[3],&fc[3],&fd[3],&strain_derivative); if(index_i.x>=0) { if(index_i.x>=0) HessianMatrix.element[index_i.x][index_i.x]-=(-fa[0].x+8.0*fa[1].x-8.0*fa[2].x+fa[3].x)/(6.0*Delta); if(index_i.y>=0) HessianMatrix.element[index_i.x][index_i.y]-=(-fa[0].y+8.0*fa[1].y-8.0*fa[2].y+fa[3].y)/(6.0*Delta); if(index_i.z>=0) HessianMatrix.element[index_i.x][index_i.z]-=(-fa[0].z+8.0*fa[1].z-8.0*fa[2].z+fa[3].z)/(6.0*Delta); if(index_j.x>=0) HessianMatrix.element[index_i.x][index_j.x]-=(-fb[0].x+8.0*fb[1].x-8.0*fb[2].x+fb[3].x)/(6.0*Delta); if(index_j.y>=0) HessianMatrix.element[index_i.x][index_j.y]-=(-fb[0].y+8.0*fb[1].y-8.0*fb[2].y+fb[3].y)/(6.0*Delta); if(index_j.z>=0) HessianMatrix.element[index_i.x][index_j.z]-=(-fb[0].z+8.0*fb[1].z-8.0*fb[2].z+fb[3].z)/(6.0*Delta); if(index_k.x>=0) HessianMatrix.element[index_i.x][index_k.x]-=(-fc[0].x+8.0*fc[1].x-8.0*fc[2].x+fc[3].x)/(6.0*Delta); if(index_k.y>=0) HessianMatrix.element[index_i.x][index_k.y]-=(-fc[0].y+8.0*fc[1].y-8.0*fc[2].y+fc[3].y)/(6.0*Delta); if(index_k.z>=0) HessianMatrix.element[index_i.x][index_k.z]-=(-fc[0].z+8.0*fc[1].z-8.0*fc[2].z+fc[3].z)/(6.0*Delta); if(index_l.x>=0) HessianMatrix.element[index_i.x][index_l.x]-=(-fd[0].x+8.0*fd[1].x-8.0*fd[2].x+fd[3].x)/(6.0*Delta); if(index_l.y>=0) HessianMatrix.element[index_i.x][index_l.y]-=(-fd[0].y+8.0*fd[1].y-8.0*fd[2].y+fd[3].y)/(6.0*Delta); if(index_l.z>=0) HessianMatrix.element[index_i.x][index_l.z]-=(-fd[0].z+8.0*fd[1].z-8.0*fd[2].z+fd[3].z)/(6.0*Delta); } posA=posA0; posB=posB0; posC=posC0; posD=posD0; posA.y+=Delta; CalculateFrameworkInversionBendForces(f1,i,posA,posB,posC,posD,&U,&fa[0],&fb[0],&fc[0],&fd[0],&strain_derivative); posA=posA0; posB=posB0; posC=posC0; posD=posD0; posA.y+=0.5*Delta; CalculateFrameworkInversionBendForces(f1,i,posA,posB,posC,posD,&U,&fa[1],&fb[1],&fc[1],&fd[1],&strain_derivative); posA=posA0; posB=posB0; posC=posC0; posD=posD0; posA.y-=0.5*Delta; CalculateFrameworkInversionBendForces(f1,i,posA,posB,posC,posD,&U,&fa[2],&fb[2],&fc[2],&fd[2],&strain_derivative); posA=posA0; posB=posB0; posC=posC0; posD=posD0; posA.y-=Delta; CalculateFrameworkInversionBendForces(f1,i,posA,posB,posC,posD,&U,&fa[3],&fb[3],&fc[3],&fd[3],&strain_derivative); if(index_i.y>=0) { if(index_i.x>=0) HessianMatrix.element[index_i.y][index_i.x]-=(-fa[0].x+8.0*fa[1].x-8.0*fa[2].x+fa[3].x)/(6.0*Delta); if(index_i.y>=0) HessianMatrix.element[index_i.y][index_i.y]-=(-fa[0].y+8.0*fa[1].y-8.0*fa[2].y+fa[3].y)/(6.0*Delta); if(index_i.z>=0) HessianMatrix.element[index_i.y][index_i.z]-=(-fa[0].z+8.0*fa[1].z-8.0*fa[2].z+fa[3].z)/(6.0*Delta); if(index_j.x>=0) HessianMatrix.element[index_i.y][index_j.x]-=(-fb[0].x+8.0*fb[1].x-8.0*fb[2].x+fb[3].x)/(6.0*Delta); if(index_j.y>=0) HessianMatrix.element[index_i.y][index_j.y]-=(-fb[0].y+8.0*fb[1].y-8.0*fb[2].y+fb[3].y)/(6.0*Delta); if(index_j.z>=0) HessianMatrix.element[index_i.y][index_j.z]-=(-fb[0].z+8.0*fb[1].z-8.0*fb[2].z+fb[3].z)/(6.0*Delta); if(index_k.x>=0) HessianMatrix.element[index_i.y][index_k.x]-=(-fc[0].x+8.0*fc[1].x-8.0*fc[2].x+fc[3].x)/(6.0*Delta); if(index_k.y>=0) HessianMatrix.element[index_i.y][index_k.y]-=(-fc[0].y+8.0*fc[1].y-8.0*fc[2].y+fc[3].y)/(6.0*Delta); if(index_k.z>=0) HessianMatrix.element[index_i.y][index_k.z]-=(-fc[0].z+8.0*fc[1].z-8.0*fc[2].z+fc[3].z)/(6.0*Delta); if(index_l.x>=0) HessianMatrix.element[index_i.y][index_l.x]-=(-fd[0].x+8.0*fd[1].x-8.0*fd[2].x+fd[3].x)/(6.0*Delta); if(index_l.y>=0) HessianMatrix.element[index_i.y][index_l.y]-=(-fd[0].y+8.0*fd[1].y-8.0*fd[2].y+fd[3].y)/(6.0*Delta); if(index_l.z>=0) HessianMatrix.element[index_i.y][index_l.z]-=(-fd[0].z+8.0*fd[1].z-8.0*fd[2].z+fd[3].z)/(6.0*Delta); } posA=posA0; posB=posB0; posC=posC0; posD=posD0; posA.z+=Delta; CalculateFrameworkInversionBendForces(f1,i,posA,posB,posC,posD,&U,&fa[0],&fb[0],&fc[0],&fd[0],&strain_derivative); posA=posA0; posB=posB0; posC=posC0; posD=posD0; posA.z+=0.5*Delta; CalculateFrameworkInversionBendForces(f1,i,posA,posB,posC,posD,&U,&fa[1],&fb[1],&fc[1],&fd[1],&strain_derivative); posA=posA0; posB=posB0; posC=posC0; posD=posD0; posA.z-=0.5*Delta; CalculateFrameworkInversionBendForces(f1,i,posA,posB,posC,posD,&U,&fa[2],&fb[2],&fc[2],&fd[2],&strain_derivative); posA=posA0; posB=posB0; posC=posC0; posD=posD0; posA.z-=Delta; CalculateFrameworkInversionBendForces(f1,i,posA,posB,posC,posD,&U,&fa[3],&fb[3],&fc[3],&fd[3],&strain_derivative); if(index_i.z>=0) { if(index_i.x>=0) HessianMatrix.element[index_i.z][index_i.x]-=(-fa[0].x+8.0*fa[1].x-8.0*fa[2].x+fa[3].x)/(6.0*Delta); if(index_i.y>=0) HessianMatrix.element[index_i.z][index_i.y]-=(-fa[0].y+8.0*fa[1].y-8.0*fa[2].y+fa[3].y)/(6.0*Delta); if(index_i.z>=0) HessianMatrix.element[index_i.z][index_i.z]-=(-fa[0].z+8.0*fa[1].z-8.0*fa[2].z+fa[3].z)/(6.0*Delta); if(index_j.x>=0) HessianMatrix.element[index_i.z][index_j.x]-=(-fb[0].x+8.0*fb[1].x-8.0*fb[2].x+fb[3].x)/(6.0*Delta); if(index_j.y>=0) HessianMatrix.element[index_i.z][index_j.y]-=(-fb[0].y+8.0*fb[1].y-8.0*fb[2].y+fb[3].y)/(6.0*Delta); if(index_j.z>=0) HessianMatrix.element[index_i.z][index_j.z]-=(-fb[0].z+8.0*fb[1].z-8.0*fb[2].z+fb[3].z)/(6.0*Delta); if(index_k.x>=0) HessianMatrix.element[index_i.z][index_k.x]-=(-fc[0].x+8.0*fc[1].x-8.0*fc[2].x+fc[3].x)/(6.0*Delta); if(index_k.y>=0) HessianMatrix.element[index_i.z][index_k.y]-=(-fc[0].y+8.0*fc[1].y-8.0*fc[2].y+fc[3].y)/(6.0*Delta); if(index_k.z>=0) HessianMatrix.element[index_i.z][index_k.z]-=(-fc[0].z+8.0*fc[1].z-8.0*fc[2].z+fc[3].z)/(6.0*Delta); if(index_l.x>=0) HessianMatrix.element[index_i.z][index_l.x]-=(-fd[0].x+8.0*fd[1].x-8.0*fd[2].x+fd[3].x)/(6.0*Delta); if(index_l.y>=0) HessianMatrix.element[index_i.z][index_l.y]-=(-fd[0].y+8.0*fd[1].y-8.0*fd[2].y+fd[3].y)/(6.0*Delta); if(index_l.z>=0) HessianMatrix.element[index_i.z][index_l.z]-=(-fd[0].z+8.0*fd[1].z-8.0*fd[2].z+fd[3].z)/(6.0*Delta); } // Atom B posA=posA0; posB=posB0; posC=posC0; posD=posD0; posB.x+=Delta; CalculateFrameworkInversionBendForces(f1,i,posA,posB,posC,posD,&U,&fa[0],&fb[0],&fc[0],&fd[0],&strain_derivative); posA=posA0; posB=posB0; posC=posC0; posD=posD0; posB.x+=0.5*Delta; CalculateFrameworkInversionBendForces(f1,i,posA,posB,posC,posD,&U,&fa[1],&fb[1],&fc[1],&fd[1],&strain_derivative); posA=posA0; posB=posB0; posC=posC0; posD=posD0; posB.x-=0.5*Delta; CalculateFrameworkInversionBendForces(f1,i,posA,posB,posC,posD,&U,&fa[2],&fb[2],&fc[2],&fd[2],&strain_derivative); posA=posA0; posB=posB0; posC=posC0; posD=posD0; posB.x-=Delta; CalculateFrameworkInversionBendForces(f1,i,posA,posB,posC,posD,&U,&fa[3],&fb[3],&fc[3],&fd[3],&strain_derivative); if(index_j.x>=0) { if(index_i.x>=0) HessianMatrix.element[index_j.x][index_i.x]-=(-fa[0].x+8.0*fa[1].x-8.0*fa[2].x+fa[3].x)/(6.0*Delta); if(index_i.y>=0) HessianMatrix.element[index_j.x][index_i.y]-=(-fa[0].y+8.0*fa[1].y-8.0*fa[2].y+fa[3].y)/(6.0*Delta); if(index_i.z>=0) HessianMatrix.element[index_j.x][index_i.z]-=(-fa[0].z+8.0*fa[1].z-8.0*fa[2].z+fa[3].z)/(6.0*Delta); if(index_j.x>=0) HessianMatrix.element[index_j.x][index_j.x]-=(-fb[0].x+8.0*fb[1].x-8.0*fb[2].x+fb[3].x)/(6.0*Delta); if(index_j.y>=0) HessianMatrix.element[index_j.x][index_j.y]-=(-fb[0].y+8.0*fb[1].y-8.0*fb[2].y+fb[3].y)/(6.0*Delta); if(index_j.z>=0) HessianMatrix.element[index_j.x][index_j.z]-=(-fb[0].z+8.0*fb[1].z-8.0*fb[2].z+fb[3].z)/(6.0*Delta); if(index_k.x>=0) HessianMatrix.element[index_j.x][index_k.x]-=(-fc[0].x+8.0*fc[1].x-8.0*fc[2].x+fc[3].x)/(6.0*Delta); if(index_k.y>=0) HessianMatrix.element[index_j.x][index_k.y]-=(-fc[0].y+8.0*fc[1].y-8.0*fc[2].y+fc[3].y)/(6.0*Delta); if(index_k.z>=0) HessianMatrix.element[index_j.x][index_k.z]-=(-fc[0].z+8.0*fc[1].z-8.0*fc[2].z+fc[3].z)/(6.0*Delta); if(index_l.x>=0) HessianMatrix.element[index_j.x][index_l.x]-=(-fd[0].x+8.0*fd[1].x-8.0*fd[2].x+fd[3].x)/(6.0*Delta); if(index_l.y>=0) HessianMatrix.element[index_j.x][index_l.y]-=(-fd[0].y+8.0*fd[1].y-8.0*fd[2].y+fd[3].y)/(6.0*Delta); if(index_l.z>=0) HessianMatrix.element[index_j.x][index_l.z]-=(-fd[0].z+8.0*fd[1].z-8.0*fd[2].z+fd[3].z)/(6.0*Delta); } posA=posA0; posB=posB0; posC=posC0; posD=posD0; posB.y+=Delta; CalculateFrameworkInversionBendForces(f1,i,posA,posB,posC,posD,&U,&fa[0],&fb[0],&fc[0],&fd[0],&strain_derivative); posA=posA0; posB=posB0; posC=posC0; posD=posD0; posB.y+=0.5*Delta; CalculateFrameworkInversionBendForces(f1,i,posA,posB,posC,posD,&U,&fa[1],&fb[1],&fc[1],&fd[1],&strain_derivative); posA=posA0; posB=posB0; posC=posC0; posD=posD0; posB.y-=0.5*Delta; CalculateFrameworkInversionBendForces(f1,i,posA,posB,posC,posD,&U,&fa[2],&fb[2],&fc[2],&fd[2],&strain_derivative); posA=posA0; posB=posB0; posC=posC0; posD=posD0; posB.y-=Delta; CalculateFrameworkInversionBendForces(f1,i,posA,posB,posC,posD,&U,&fa[3],&fb[3],&fc[3],&fd[3],&strain_derivative); if(index_j.y>=0) { if(index_i.x>=0) HessianMatrix.element[index_j.y][index_i.x]-=(-fa[0].x+8.0*fa[1].x-8.0*fa[2].x+fa[3].x)/(6.0*Delta); if(index_i.y>=0) HessianMatrix.element[index_j.y][index_i.y]-=(-fa[0].y+8.0*fa[1].y-8.0*fa[2].y+fa[3].y)/(6.0*Delta); if(index_i.z>=0) HessianMatrix.element[index_j.y][index_i.z]-=(-fa[0].z+8.0*fa[1].z-8.0*fa[2].z+fa[3].z)/(6.0*Delta); if(index_j.x>=0) HessianMatrix.element[index_j.y][index_j.x]-=(-fb[0].x+8.0*fb[1].x-8.0*fb[2].x+fb[3].x)/(6.0*Delta); if(index_j.y>=0) HessianMatrix.element[index_j.y][index_j.y]-=(-fb[0].y+8.0*fb[1].y-8.0*fb[2].y+fb[3].y)/(6.0*Delta); if(index_j.z>=0) HessianMatrix.element[index_j.y][index_j.z]-=(-fb[0].z+8.0*fb[1].z-8.0*fb[2].z+fb[3].z)/(6.0*Delta); if(index_k.x>=0) HessianMatrix.element[index_j.y][index_k.x]-=(-fc[0].x+8.0*fc[1].x-8.0*fc[2].x+fc[3].x)/(6.0*Delta); if(index_k.y>=0) HessianMatrix.element[index_j.y][index_k.y]-=(-fc[0].y+8.0*fc[1].y-8.0*fc[2].y+fc[3].y)/(6.0*Delta); if(index_k.z>=0) HessianMatrix.element[index_j.y][index_k.z]-=(-fc[0].z+8.0*fc[1].z-8.0*fc[2].z+fc[3].z)/(6.0*Delta); if(index_l.x>=0) HessianMatrix.element[index_j.y][index_l.x]-=(-fd[0].x+8.0*fd[1].x-8.0*fd[2].x+fd[3].x)/(6.0*Delta); if(index_l.y>=0) HessianMatrix.element[index_j.y][index_l.y]-=(-fd[0].y+8.0*fd[1].y-8.0*fd[2].y+fd[3].y)/(6.0*Delta); if(index_l.z>=0) HessianMatrix.element[index_j.y][index_l.z]-=(-fd[0].z+8.0*fd[1].z-8.0*fd[2].z+fd[3].z)/(6.0*Delta); } posA=posA0; posB=posB0; posC=posC0; posD=posD0; posB.z+=Delta; CalculateFrameworkInversionBendForces(f1,i,posA,posB,posC,posD,&U,&fa[0],&fb[0],&fc[0],&fd[0],&strain_derivative); posA=posA0; posB=posB0; posC=posC0; posD=posD0; posB.z+=0.5*Delta; CalculateFrameworkInversionBendForces(f1,i,posA,posB,posC,posD,&U,&fa[1],&fb[1],&fc[1],&fd[1],&strain_derivative); posA=posA0; posB=posB0; posC=posC0; posD=posD0; posB.z-=0.5*Delta; CalculateFrameworkInversionBendForces(f1,i,posA,posB,posC,posD,&U,&fa[2],&fb[2],&fc[2],&fd[2],&strain_derivative); posA=posA0; posB=posB0; posC=posC0; posD=posD0; posB.z-=Delta; CalculateFrameworkInversionBendForces(f1,i,posA,posB,posC,posD,&U,&fa[3],&fb[3],&fc[3],&fd[3],&strain_derivative); if(index_j.z>=0) { if(index_i.x>=0) HessianMatrix.element[index_j.z][index_i.x]-=(-fa[0].x+8.0*fa[1].x-8.0*fa[2].x+fa[3].x)/(6.0*Delta); if(index_i.y>=0) HessianMatrix.element[index_j.z][index_i.y]-=(-fa[0].y+8.0*fa[1].y-8.0*fa[2].y+fa[3].y)/(6.0*Delta); if(index_i.z>=0) HessianMatrix.element[index_j.z][index_i.z]-=(-fa[0].z+8.0*fa[1].z-8.0*fa[2].z+fa[3].z)/(6.0*Delta); if(index_j.x>=0) HessianMatrix.element[index_j.z][index_j.x]-=(-fb[0].x+8.0*fb[1].x-8.0*fb[2].x+fb[3].x)/(6.0*Delta); if(index_j.y>=0) HessianMatrix.element[index_j.z][index_j.y]-=(-fb[0].y+8.0*fb[1].y-8.0*fb[2].y+fb[3].y)/(6.0*Delta); if(index_j.z>=0) HessianMatrix.element[index_j.z][index_j.z]-=(-fb[0].z+8.0*fb[1].z-8.0*fb[2].z+fb[3].z)/(6.0*Delta); if(index_k.x>=0) HessianMatrix.element[index_j.z][index_k.x]-=(-fc[0].x+8.0*fc[1].x-8.0*fc[2].x+fc[3].x)/(6.0*Delta); if(index_k.y>=0) HessianMatrix.element[index_j.z][index_k.y]-=(-fc[0].y+8.0*fc[1].y-8.0*fc[2].y+fc[3].y)/(6.0*Delta); if(index_k.z>=0) HessianMatrix.element[index_j.z][index_k.z]-=(-fc[0].z+8.0*fc[1].z-8.0*fc[2].z+fc[3].z)/(6.0*Delta); if(index_l.x>=0) HessianMatrix.element[index_j.z][index_l.x]-=(-fd[0].x+8.0*fd[1].x-8.0*fd[2].x+fd[3].x)/(6.0*Delta); if(index_l.y>=0) HessianMatrix.element[index_j.z][index_l.y]-=(-fd[0].y+8.0*fd[1].y-8.0*fd[2].y+fd[3].y)/(6.0*Delta); if(index_l.z>=0) HessianMatrix.element[index_j.z][index_l.z]-=(-fd[0].z+8.0*fd[1].z-8.0*fd[2].z+fd[3].z)/(6.0*Delta); } // Atom C posA=posA0; posB=posB0; posC=posC0; posD=posD0; posC.x+=Delta; CalculateFrameworkInversionBendForces(f1,i,posA,posB,posC,posD,&U,&fa[0],&fb[0],&fc[0],&fd[0],&strain_derivative); posA=posA0; posB=posB0; posC=posC0; posD=posD0; posC.x+=0.5*Delta; CalculateFrameworkInversionBendForces(f1,i,posA,posB,posC,posD,&U,&fa[1],&fb[1],&fc[1],&fd[1],&strain_derivative); posA=posA0; posB=posB0; posC=posC0; posD=posD0; posC.x-=0.5*Delta; CalculateFrameworkInversionBendForces(f1,i,posA,posB,posC,posD,&U,&fa[2],&fb[2],&fc[2],&fd[2],&strain_derivative); posA=posA0; posB=posB0; posC=posC0; posD=posD0; posC.x-=Delta; CalculateFrameworkInversionBendForces(f1,i,posA,posB,posC,posD,&U,&fa[3],&fb[3],&fc[3],&fd[3],&strain_derivative); if(index_k.x>=0) { if(index_i.x>=0) HessianMatrix.element[index_k.x][index_i.x]-=(-fa[0].x+8.0*fa[1].x-8.0*fa[2].x+fa[3].x)/(6.0*Delta); if(index_i.y>=0) HessianMatrix.element[index_k.x][index_i.y]-=(-fa[0].y+8.0*fa[1].y-8.0*fa[2].y+fa[3].y)/(6.0*Delta); if(index_i.z>=0) HessianMatrix.element[index_k.x][index_i.z]-=(-fa[0].z+8.0*fa[1].z-8.0*fa[2].z+fa[3].z)/(6.0*Delta); if(index_j.x>=0) HessianMatrix.element[index_k.x][index_j.x]-=(-fb[0].x+8.0*fb[1].x-8.0*fb[2].x+fb[3].x)/(6.0*Delta); if(index_j.y>=0) HessianMatrix.element[index_k.x][index_j.y]-=(-fb[0].y+8.0*fb[1].y-8.0*fb[2].y+fb[3].y)/(6.0*Delta); if(index_j.z>=0) HessianMatrix.element[index_k.x][index_j.z]-=(-fb[0].z+8.0*fb[1].z-8.0*fb[2].z+fb[3].z)/(6.0*Delta); if(index_k.x>=0) HessianMatrix.element[index_k.x][index_k.x]-=(-fc[0].x+8.0*fc[1].x-8.0*fc[2].x+fc[3].x)/(6.0*Delta); if(index_k.y>=0) HessianMatrix.element[index_k.x][index_k.y]-=(-fc[0].y+8.0*fc[1].y-8.0*fc[2].y+fc[3].y)/(6.0*Delta); if(index_k.z>=0) HessianMatrix.element[index_k.x][index_k.z]-=(-fc[0].z+8.0*fc[1].z-8.0*fc[2].z+fc[3].z)/(6.0*Delta); if(index_l.x>=0) HessianMatrix.element[index_k.x][index_l.x]-=(-fd[0].x+8.0*fd[1].x-8.0*fd[2].x+fd[3].x)/(6.0*Delta); if(index_l.y>=0) HessianMatrix.element[index_k.x][index_l.y]-=(-fd[0].y+8.0*fd[1].y-8.0*fd[2].y+fd[3].y)/(6.0*Delta); if(index_l.z>=0) HessianMatrix.element[index_k.x][index_l.z]-=(-fd[0].z+8.0*fd[1].z-8.0*fd[2].z+fd[3].z)/(6.0*Delta); } posA=posA0; posB=posB0; posC=posC0; posD=posD0; posC.y+=Delta; CalculateFrameworkInversionBendForces(f1,i,posA,posB,posC,posD,&U,&fa[0],&fb[0],&fc[0],&fd[0],&strain_derivative); posA=posA0; posB=posB0; posC=posC0; posD=posD0; posC.y+=0.5*Delta; CalculateFrameworkInversionBendForces(f1,i,posA,posB,posC,posD,&U,&fa[1],&fb[1],&fc[1],&fd[1],&strain_derivative); posA=posA0; posB=posB0; posC=posC0; posD=posD0; posC.y-=0.5*Delta; CalculateFrameworkInversionBendForces(f1,i,posA,posB,posC,posD,&U,&fa[2],&fb[2],&fc[2],&fd[2],&strain_derivative); posA=posA0; posB=posB0; posC=posC0; posD=posD0; posC.y-=Delta; CalculateFrameworkInversionBendForces(f1,i,posA,posB,posC,posD,&U,&fa[3],&fb[3],&fc[3],&fd[3],&strain_derivative); if(index_k.y>=0) { if(index_i.x>=0) HessianMatrix.element[index_k.y][index_i.x]-=(-fa[0].x+8.0*fa[1].x-8.0*fa[2].x+fa[3].x)/(6.0*Delta); if(index_i.y>=0) HessianMatrix.element[index_k.y][index_i.y]-=(-fa[0].y+8.0*fa[1].y-8.0*fa[2].y+fa[3].y)/(6.0*Delta); if(index_i.z>=0) HessianMatrix.element[index_k.y][index_i.z]-=(-fa[0].z+8.0*fa[1].z-8.0*fa[2].z+fa[3].z)/(6.0*Delta); if(index_j.x>=0) HessianMatrix.element[index_k.y][index_j.x]-=(-fb[0].x+8.0*fb[1].x-8.0*fb[2].x+fb[3].x)/(6.0*Delta); if(index_j.y>=0) HessianMatrix.element[index_k.y][index_j.y]-=(-fb[0].y+8.0*fb[1].y-8.0*fb[2].y+fb[3].y)/(6.0*Delta); if(index_j.z>=0) HessianMatrix.element[index_k.y][index_j.z]-=(-fb[0].z+8.0*fb[1].z-8.0*fb[2].z+fb[3].z)/(6.0*Delta); if(index_k.x>=0) HessianMatrix.element[index_k.y][index_k.x]-=(-fc[0].x+8.0*fc[1].x-8.0*fc[2].x+fc[3].x)/(6.0*Delta); if(index_k.y>=0) HessianMatrix.element[index_k.y][index_k.y]-=(-fc[0].y+8.0*fc[1].y-8.0*fc[2].y+fc[3].y)/(6.0*Delta); if(index_k.z>=0) HessianMatrix.element[index_k.y][index_k.z]-=(-fc[0].z+8.0*fc[1].z-8.0*fc[2].z+fc[3].z)/(6.0*Delta); if(index_l.x>=0) HessianMatrix.element[index_k.y][index_l.x]-=(-fd[0].x+8.0*fd[1].x-8.0*fd[2].x+fd[3].x)/(6.0*Delta); if(index_l.y>=0) HessianMatrix.element[index_k.y][index_l.y]-=(-fd[0].y+8.0*fd[1].y-8.0*fd[2].y+fd[3].y)/(6.0*Delta); if(index_l.z>=0) HessianMatrix.element[index_k.y][index_l.z]-=(-fd[0].z+8.0*fd[1].z-8.0*fd[2].z+fd[3].z)/(6.0*Delta); } posA=posA0; posB=posB0; posC=posC0; posD=posD0; posC.z+=Delta; CalculateFrameworkInversionBendForces(f1,i,posA,posB,posC,posD,&U,&fa[0],&fb[0],&fc[0],&fd[0],&strain_derivative); posA=posA0; posB=posB0; posC=posC0; posD=posD0; posC.z+=0.5*Delta; CalculateFrameworkInversionBendForces(f1,i,posA,posB,posC,posD,&U,&fa[1],&fb[1],&fc[1],&fd[1],&strain_derivative); posA=posA0; posB=posB0; posC=posC0; posD=posD0; posC.z-=0.5*Delta; CalculateFrameworkInversionBendForces(f1,i,posA,posB,posC,posD,&U,&fa[2],&fb[2],&fc[2],&fd[2],&strain_derivative); posA=posA0; posB=posB0; posC=posC0; posD=posD0; posC.z-=Delta; CalculateFrameworkInversionBendForces(f1,i,posA,posB,posC,posD,&U,&fa[3],&fb[3],&fc[3],&fd[3],&strain_derivative); if(index_k.z>=0) { if(index_i.x>=0) HessianMatrix.element[index_k.z][index_i.x]-=(-fa[0].x+8.0*fa[1].x-8.0*fa[2].x+fa[3].x)/(6.0*Delta); if(index_i.y>=0) HessianMatrix.element[index_k.z][index_i.y]-=(-fa[0].y+8.0*fa[1].y-8.0*fa[2].y+fa[3].y)/(6.0*Delta); if(index_i.z>=0) HessianMatrix.element[index_k.z][index_i.z]-=(-fa[0].z+8.0*fa[1].z-8.0*fa[2].z+fa[3].z)/(6.0*Delta); if(index_j.x>=0) HessianMatrix.element[index_k.z][index_j.x]-=(-fb[0].x+8.0*fb[1].x-8.0*fb[2].x+fb[3].x)/(6.0*Delta); if(index_j.y>=0) HessianMatrix.element[index_k.z][index_j.y]-=(-fb[0].y+8.0*fb[1].y-8.0*fb[2].y+fb[3].y)/(6.0*Delta); if(index_j.z>=0) HessianMatrix.element[index_k.z][index_j.z]-=(-fb[0].z+8.0*fb[1].z-8.0*fb[2].z+fb[3].z)/(6.0*Delta); if(index_k.x>=0) HessianMatrix.element[index_k.z][index_k.x]-=(-fc[0].x+8.0*fc[1].x-8.0*fc[2].x+fc[3].x)/(6.0*Delta); if(index_k.y>=0) HessianMatrix.element[index_k.z][index_k.y]-=(-fc[0].y+8.0*fc[1].y-8.0*fc[2].y+fc[3].y)/(6.0*Delta); if(index_k.z>=0) HessianMatrix.element[index_k.z][index_k.z]-=(-fc[0].z+8.0*fc[1].z-8.0*fc[2].z+fc[3].z)/(6.0*Delta); if(index_l.x>=0) HessianMatrix.element[index_k.z][index_l.x]-=(-fd[0].x+8.0*fd[1].x-8.0*fd[2].x+fd[3].x)/(6.0*Delta); if(index_l.y>=0) HessianMatrix.element[index_k.z][index_l.y]-=(-fd[0].y+8.0*fd[1].y-8.0*fd[2].y+fd[3].y)/(6.0*Delta); if(index_l.z>=0) HessianMatrix.element[index_k.z][index_l.z]-=(-fd[0].z+8.0*fd[1].z-8.0*fd[2].z+fd[3].z)/(6.0*Delta); } // Atom D posA=posA0; posB=posB0; posC=posC0; posD=posD0; posD.x+=Delta; CalculateFrameworkInversionBendForces(f1,i,posA,posB,posC,posD,&U,&fa[0],&fb[0],&fc[0],&fd[0],&strain_derivative); posA=posA0; posB=posB0; posC=posC0; posD=posD0; posD.x+=0.5*Delta; CalculateFrameworkInversionBendForces(f1,i,posA,posB,posC,posD,&U,&fa[1],&fb[1],&fc[1],&fd[1],&strain_derivative); posA=posA0; posB=posB0; posC=posC0; posD=posD0; posD.x-=0.5*Delta; CalculateFrameworkInversionBendForces(f1,i,posA,posB,posC,posD,&U,&fa[2],&fb[2],&fc[2],&fd[2],&strain_derivative); posA=posA0; posB=posB0; posC=posC0; posD=posD0; posD.x-=Delta; CalculateFrameworkInversionBendForces(f1,i,posA,posB,posC,posD,&U,&fa[3],&fb[3],&fc[3],&fd[3],&strain_derivative); if(index_l.x>=0) { if(index_i.x>=0) HessianMatrix.element[index_l.x][index_i.x]-=(-fa[0].x+8.0*fa[1].x-8.0*fa[2].x+fa[3].x)/(6.0*Delta); if(index_i.y>=0) HessianMatrix.element[index_l.x][index_i.y]-=(-fa[0].y+8.0*fa[1].y-8.0*fa[2].y+fa[3].y)/(6.0*Delta); if(index_i.z>=0) HessianMatrix.element[index_l.x][index_i.z]-=(-fa[0].z+8.0*fa[1].z-8.0*fa[2].z+fa[3].z)/(6.0*Delta); if(index_j.x>=0) HessianMatrix.element[index_l.x][index_j.x]-=(-fb[0].x+8.0*fb[1].x-8.0*fb[2].x+fb[3].x)/(6.0*Delta); if(index_j.y>=0) HessianMatrix.element[index_l.x][index_j.y]-=(-fb[0].y+8.0*fb[1].y-8.0*fb[2].y+fb[3].y)/(6.0*Delta); if(index_j.z>=0) HessianMatrix.element[index_l.x][index_j.z]-=(-fb[0].z+8.0*fb[1].z-8.0*fb[2].z+fb[3].z)/(6.0*Delta); if(index_k.x>=0) HessianMatrix.element[index_l.x][index_k.x]-=(-fc[0].x+8.0*fc[1].x-8.0*fc[2].x+fc[3].x)/(6.0*Delta); if(index_k.y>=0) HessianMatrix.element[index_l.x][index_k.y]-=(-fc[0].y+8.0*fc[1].y-8.0*fc[2].y+fc[3].y)/(6.0*Delta); if(index_k.z>=0) HessianMatrix.element[index_l.x][index_k.z]-=(-fc[0].z+8.0*fc[1].z-8.0*fc[2].z+fc[3].z)/(6.0*Delta); if(index_l.x>=0) HessianMatrix.element[index_l.x][index_l.x]-=(-fd[0].x+8.0*fd[1].x-8.0*fd[2].x+fd[3].x)/(6.0*Delta); if(index_l.y>=0) HessianMatrix.element[index_l.x][index_l.y]-=(-fd[0].y+8.0*fd[1].y-8.0*fd[2].y+fd[3].y)/(6.0*Delta); if(index_l.z>=0) HessianMatrix.element[index_l.x][index_l.z]-=(-fd[0].z+8.0*fd[1].z-8.0*fd[2].z+fd[3].z)/(6.0*Delta); } posA=posA0; posB=posB0; posC=posC0; posD=posD0; posD.y+=Delta; CalculateFrameworkInversionBendForces(f1,i,posA,posB,posC,posD,&U,&fa[0],&fb[0],&fc[0],&fd[0],&strain_derivative); posA=posA0; posB=posB0; posC=posC0; posD=posD0; posD.y+=0.5*Delta; CalculateFrameworkInversionBendForces(f1,i,posA,posB,posC,posD,&U,&fa[1],&fb[1],&fc[1],&fd[1],&strain_derivative); posA=posA0; posB=posB0; posC=posC0; posD=posD0; posD.y-=0.5*Delta; CalculateFrameworkInversionBendForces(f1,i,posA,posB,posC,posD,&U,&fa[2],&fb[2],&fc[2],&fd[2],&strain_derivative); posA=posA0; posB=posB0; posC=posC0; posD=posD0; posD.y-=Delta; CalculateFrameworkInversionBendForces(f1,i,posA,posB,posC,posD,&U,&fa[3],&fb[3],&fc[3],&fd[3],&strain_derivative); if(index_l.y>=0) { if(index_i.x>=0) HessianMatrix.element[index_l.y][index_i.x]-=(-fa[0].x+8.0*fa[1].x-8.0*fa[2].x+fa[3].x)/(6.0*Delta); if(index_i.y>=0) HessianMatrix.element[index_l.y][index_i.y]-=(-fa[0].y+8.0*fa[1].y-8.0*fa[2].y+fa[3].y)/(6.0*Delta); if(index_i.z>=0) HessianMatrix.element[index_l.y][index_i.z]-=(-fa[0].z+8.0*fa[1].z-8.0*fa[2].z+fa[3].z)/(6.0*Delta); if(index_j.x>=0) HessianMatrix.element[index_l.y][index_j.x]-=(-fb[0].x+8.0*fb[1].x-8.0*fb[2].x+fb[3].x)/(6.0*Delta); if(index_j.y>=0) HessianMatrix.element[index_l.y][index_j.y]-=(-fb[0].y+8.0*fb[1].y-8.0*fb[2].y+fb[3].y)/(6.0*Delta); if(index_j.z>=0) HessianMatrix.element[index_l.y][index_j.z]-=(-fb[0].z+8.0*fb[1].z-8.0*fb[2].z+fb[3].z)/(6.0*Delta); if(index_k.x>=0) HessianMatrix.element[index_l.y][index_k.x]-=(-fc[0].x+8.0*fc[1].x-8.0*fc[2].x+fc[3].x)/(6.0*Delta); if(index_k.y>=0) HessianMatrix.element[index_l.y][index_k.y]-=(-fc[0].y+8.0*fc[1].y-8.0*fc[2].y+fc[3].y)/(6.0*Delta); if(index_k.z>=0) HessianMatrix.element[index_l.y][index_k.z]-=(-fc[0].z+8.0*fc[1].z-8.0*fc[2].z+fc[3].z)/(6.0*Delta); if(index_l.x>=0) HessianMatrix.element[index_l.y][index_l.x]-=(-fd[0].x+8.0*fd[1].x-8.0*fd[2].x+fd[3].x)/(6.0*Delta); if(index_l.y>=0) HessianMatrix.element[index_l.y][index_l.y]-=(-fd[0].y+8.0*fd[1].y-8.0*fd[2].y+fd[3].y)/(6.0*Delta); if(index_l.z>=0) HessianMatrix.element[index_l.y][index_l.z]-=(-fd[0].z+8.0*fd[1].z-8.0*fd[2].z+fd[3].z)/(6.0*Delta); } posA=posA0; posB=posB0; posC=posC0; posD=posD0; posD.z+=Delta; CalculateFrameworkInversionBendForces(f1,i,posA,posB,posC,posD,&U,&fa[0],&fb[0],&fc[0],&fd[0],&strain_derivative); posA=posA0; posB=posB0; posC=posC0; posD=posD0; posD.z+=0.5*Delta; CalculateFrameworkInversionBendForces(f1,i,posA,posB,posC,posD,&U,&fa[1],&fb[1],&fc[1],&fd[1],&strain_derivative); posA=posA0; posB=posB0; posC=posC0; posD=posD0; posD.z-=0.5*Delta; CalculateFrameworkInversionBendForces(f1,i,posA,posB,posC,posD,&U,&fa[2],&fb[2],&fc[2],&fd[2],&strain_derivative); posA=posA0; posB=posB0; posC=posC0; posD=posD0; posD.z-=Delta; CalculateFrameworkInversionBendForces(f1,i,posA,posB,posC,posD,&U,&fa[3],&fb[3],&fc[3],&fd[3],&strain_derivative); if(index_l.z>=0) { if(index_i.x>=0) HessianMatrix.element[index_l.z][index_i.x]-=(-fa[0].x+8.0*fa[1].x-8.0*fa[2].x+fa[3].x)/(6.0*Delta); if(index_i.y>=0) HessianMatrix.element[index_l.z][index_i.y]-=(-fa[0].y+8.0*fa[1].y-8.0*fa[2].y+fa[3].y)/(6.0*Delta); if(index_i.z>=0) HessianMatrix.element[index_l.z][index_i.z]-=(-fa[0].z+8.0*fa[1].z-8.0*fa[2].z+fa[3].z)/(6.0*Delta); if(index_j.x>=0) HessianMatrix.element[index_l.z][index_j.x]-=(-fb[0].x+8.0*fb[1].x-8.0*fb[2].x+fb[3].x)/(6.0*Delta); if(index_j.y>=0) HessianMatrix.element[index_l.z][index_j.y]-=(-fb[0].y+8.0*fb[1].y-8.0*fb[2].y+fb[3].y)/(6.0*Delta); if(index_j.z>=0) HessianMatrix.element[index_l.z][index_j.z]-=(-fb[0].z+8.0*fb[1].z-8.0*fb[2].z+fb[3].z)/(6.0*Delta); if(index_k.x>=0) HessianMatrix.element[index_l.z][index_k.x]-=(-fc[0].x+8.0*fc[1].x-8.0*fc[2].x+fc[3].x)/(6.0*Delta); if(index_k.y>=0) HessianMatrix.element[index_l.z][index_k.y]-=(-fc[0].y+8.0*fc[1].y-8.0*fc[2].y+fc[3].y)/(6.0*Delta); if(index_k.z>=0) HessianMatrix.element[index_l.z][index_k.z]-=(-fc[0].z+8.0*fc[1].z-8.0*fc[2].z+fc[3].z)/(6.0*Delta); if(index_l.x>=0) HessianMatrix.element[index_l.z][index_l.x]-=(-fd[0].x+8.0*fd[1].x-8.0*fd[2].x+fd[3].x)/(6.0*Delta); if(index_l.y>=0) HessianMatrix.element[index_l.z][index_l.y]-=(-fd[0].y+8.0*fd[1].y-8.0*fd[2].y+fd[3].y)/(6.0*Delta); if(index_l.z>=0) HessianMatrix.element[index_l.z][index_l.z]-=(-fd[0].z+8.0*fd[1].z-8.0*fd[2].z+fd[3].z)/(6.0*Delta); } } } } } void CalculateFrameworkBendTorsionForces(int f1,int i,VECTOR posA,VECTOR posB,VECTOR posC,VECTOR posD,REAL *Energy,VECTOR *fan,VECTOR *fbn,VECTOR *fcn,VECTOR *fdn,REAL_MATRIX3x3 *strain_derivativen) { REAL d,e, energy,rab,rbc,rcd; VECTOR Dab,Dbc,Dcd,dr,ds; REAL dot_ab,dot_cd,r,s; REAL CosPhi,CosPhi2,DCos; VECTOR dtA,dtB,dtC,dtD,Pb,Pc; REAL CosTheta1,CosTheta2,Theta1,Theta2,SinTheta1,SinTheta2; REAL DTheta1,DTheta2,sign,Phi,SinPhi; REAL *parms; VECTOR fa,fb,fc,fd; fan->x=fbn->x=fcn->x=fdn->x=0.0; fan->y=fbn->y=fcn->y=fdn->y=0.0; fan->z=fbn->z=fcn->z=fdn->z=0.0; strain_derivativen->ax=strain_derivativen->bx=strain_derivativen->cx=0.0; strain_derivativen->ay=strain_derivativen->by=strain_derivativen->cy=0.0; strain_derivativen->az=strain_derivativen->bz=strain_derivativen->cz=0.0; parms=(REAL*)&Framework[CurrentSystem].BendTorsionArguments[f1][i]; Dab.x=posA.x-posB.x; Dab.y=posA.y-posB.y; Dab.z=posA.z-posB.z; Dab=ApplyBoundaryCondition(Dab); rab=sqrt(SQR(Dab.x)+SQR(Dab.y)+SQR(Dab.z)); Dbc.x=posC.x-posB.x; Dbc.y=posC.y-posB.y; Dbc.z=posC.z-posB.z; Dbc=ApplyBoundaryCondition(Dbc); rbc=sqrt(SQR(Dbc.x)+SQR(Dbc.y)+SQR(Dbc.z)); Dbc.x/=rbc; Dbc.y/=rbc; Dbc.z/=rbc; Dcd.x=posD.x-posC.x; Dcd.y=posD.y-posC.y; Dcd.z=posD.z-posC.z; Dcd=ApplyBoundaryCondition(Dcd); rcd=sqrt(SQR(Dcd.x)+SQR(Dcd.y)+SQR(Dcd.z)); dot_ab=Dab.x*Dbc.x+Dab.y*Dbc.y+Dab.z*Dbc.z; CosTheta1=dot_ab/rab; CosTheta1=MAX2(MIN2(CosTheta1,(REAL)1.0),-1.0); Theta1=acos(CosTheta1); SinTheta1=MAX2((REAL)1.0e-8,sqrt(1.0-SQR(CosTheta1))); dot_cd=Dcd.x*Dbc.x+Dcd.y*Dbc.y+Dcd.z*Dbc.z; CosTheta2=-dot_cd/rcd; CosTheta2=MAX2(MIN2(CosTheta2,(REAL)1.0),-1.0); Theta2=acos(CosTheta2); SinTheta2=MAX2((REAL)1.0e-8,sqrt(1.0-SQR(CosTheta2))); dr.x=Dab.x-dot_ab*Dbc.x; dr.y=Dab.y-dot_ab*Dbc.y; dr.z=Dab.z-dot_ab*Dbc.z; r=MAX2((REAL)1.0e-8,sqrt(SQR(dr.x)+SQR(dr.y)+SQR(dr.z))); dr.x/=r; dr.y/=r; dr.z/=r; ds.x=Dcd.x-dot_cd*Dbc.x; ds.y=Dcd.y-dot_cd*Dbc.y; ds.z=Dcd.z-dot_cd*Dbc.z; s=MAX2((REAL)1.0e-8,sqrt(SQR(ds.x)+SQR(ds.y)+SQR(ds.z))); ds.x/=s; ds.y/=s; ds.z/=s; // compute Cos(Phi) // Phi is defined in protein convention Phi(trans)=Pi CosPhi=dr.x*ds.x+dr.y*ds.y+dr.z*ds.z; // Ensure CosPhi is between -1 and 1. CosPhi=SIGN(MIN2(fabs(CosPhi),(REAL)1.0),CosPhi); CosPhi2=SQR(CosPhi); switch(Framework[CurrentSystem].BendTorsionType[f1][i]) { case CVFF_BEND_TORSION_CROSS: case CFF_BEND_TORSION_CROSS: // p_0*(Theta1-p_1)*(Theta2-p_2)*cos(Phi) // ===================================================================================== // p_0/k_B [K/rad^3] // p_1 [degrees] // p_2 [degrees] energy=parms[0]*(Theta1-parms[1])*(Theta2-parms[2])*CosPhi; DCos=parms[0]*(Theta1-parms[1])*(Theta2-parms[2]); DTheta1=parms[0]*(Theta2-parms[2])*CosPhi/SinTheta1; DTheta2=parms[0]*(Theta1-parms[1])*CosPhi/SinTheta2; break; case SMOOTHED_DIHEDRAL: // S(Theta1)*[p_0(1+cos(p_1*Phi-p_2)]*S(Theta2) // ====================================================================================== // p_0/k_B [K/rad^2] // p_1 [-] // p_2 [degrees] Pb.x=Dab.z*Dbc.y-Dab.y*Dbc.z; Pb.y=Dab.x*Dbc.z-Dab.z*Dbc.x; Pb.z=Dab.y*Dbc.x-Dab.x*Dbc.y; Pc.x=Dbc.y*Dcd.z-Dbc.z*Dcd.y; Pc.y=Dbc.z*Dcd.x-Dbc.x*Dcd.z; Pc.z=Dbc.x*Dcd.y-Dbc.y*Dcd.x; sign=(Dbc.x*(Pc.z*Pb.y-Pc.y*Pb.z)+Dbc.y*(Pb.z*Pc.x-Pb.x*Pc.z) +Dbc.z*(Pc.y*Pb.x-Pc.x*Pb.y)); Phi=SIGN(acos(CosPhi),sign); SinPhi=sin(Phi); SinPhi=SIGN(MAX2((REAL)1.0e-8,fabs(SinPhi)),SinPhi); // remove singularity energy=parms[0]*(1.0+cos(parms[1]*Phi-parms[2]))*Smoothing(Theta1)*Smoothing(Theta2); DCos=(parms[0]*parms[1]*sin(parms[1]*Phi-parms[2]))*Smoothing(Theta1)*Smoothing(Theta2)/SinPhi; DTheta1=parms[0]*(1.0+cos(parms[1]*Phi-parms[2]))*SmoothingDerivative(Theta1)*Smoothing(Theta2)/SinTheta1; DTheta2=parms[0]*(1.0+cos(parms[1]*Phi-parms[2]))*Smoothing(Theta1)*SmoothingDerivative(Theta2)/SinTheta2; break; case SMOOTHED_THREE_COSINE_DIHEDRAL: // S(Theta1)*[(1/2)*(1+cos(Phi))+(1/2)*p_1*(1-cos(2*Phi))+(1/2)*(1+cos(3*Phi))]*S(Theta2) // ====================================================================================== // p_0/k_B [K] // p_1/k_B [K] // p_2/k_B [K] energy=(0.5*parms[0]*(1.0+CosPhi)+parms[1]*(1.0-CosPhi2)+0.5*parms[2]*(1.0-3.0*CosPhi+4.0*CosPhi*CosPhi2))* Smoothing(Theta1)*Smoothing(Theta2); DCos=0.5*parms[0]-2.0*parms[1]*CosPhi+1.5*parms[2]*(4.0*CosPhi2-1.0)*Smoothing(Theta1)*Smoothing(Theta2); DTheta1=(0.5*parms[0]*(1.0+CosPhi)+parms[1]*(1.0-CosPhi2)+0.5*parms[2]*(1.0-3.0*CosPhi+4.0*CosPhi*CosPhi2))* SmoothingDerivative(Theta1)*Smoothing(Theta2)/SinTheta1; DTheta2=(0.5*parms[0]*(1.0+CosPhi)+parms[1]*(1.0-CosPhi2)+0.5*parms[2]*(1.0-3.0*CosPhi+4.0*CosPhi*CosPhi2))* SmoothingDerivative(Theta2)*Smoothing(Theta1)/SinTheta2; break; case NICHOLAS_DIHEDRAL: // S(Theta1)*[(1/2)*(1+cos(Phi))+(1/2)*p_1*(1-cos(2*Phi))+(1/2)*(1+cos(3*Phi))]*S(Theta2) // ====================================================================================== // p_0/k_B [K] // p_1/k_B [K] // p_2/k_B [K] energy=(0.5*parms[0]*(1.0+CosPhi)+parms[1]*(1.0-CosPhi2)+0.5*parms[2]*(1.0-3.0*CosPhi+4.0*CosPhi*CosPhi2))* Smoothing(Theta1); DCos=0.5*parms[0]-2.0*parms[1]*CosPhi+1.5*parms[2]*(4.0*CosPhi2-1.0)*Smoothing(Theta1); DTheta1=(0.5*parms[0]*(1.0+CosPhi)+parms[1]*(1.0-CosPhi2)+0.5*parms[2]*(1.0-3.0*CosPhi+4.0*CosPhi*CosPhi2))* SmoothingDerivative(Theta1)/SinTheta1; DTheta2=0.0; break; case SMOOTHED_CFF_DIHEDRAL: // S(Theta1)*[(1-cos(Phi))+p_1*(1-cos(2*Phi))+(1-cos(3*Phi))]*S(Theta2) // ====================================================================================== // p_0/k_B [K] // p_1/k_B [K] // p_2/k_B [K] energy=(parms[0]*(1.0-CosPhi)+2.0*parms[1]*(1.0-CosPhi2)+parms[2]*(1.0+3.0*CosPhi-4.0*CosPhi*CosPhi2))*Smoothing(Theta1)*Smoothing(Theta2); DCos=(-parms[0]-4.0*parms[1]*CosPhi+3.0*parms[2]*(1.0-4.0*CosPhi2))*Smoothing(Theta1)*Smoothing(Theta2); DTheta1=(parms[0]*(1.0-CosPhi)+2.0*parms[1]*(1.0-CosPhi2)+parms[2]*(1.0+3.0*CosPhi-4.0*CosPhi*CosPhi2))* SmoothingDerivative(Theta1)*Smoothing(Theta2)/SinTheta1; DTheta2=(parms[0]*(1.0-CosPhi)+2.0*parms[1]*(1.0-CosPhi2)+parms[2]*(1.0+3.0*CosPhi-4.0*CosPhi*CosPhi2))* Smoothing(Theta1)*SmoothingDerivative(Theta2)/SinTheta2; break; case SMOOTHED_CFF_DIHEDRAL2: // S(Theta1)*[(1+cos(Phi))+p_1*(1+cos(2*Phi))+(1+cos(3*Phi))]*S(Theta2) // ====================================================================================== // p_0/k_B [K] // p_1/k_B [K] // p_2/k_B [K] energy=(parms[0]*(1.0+CosPhi)+parms[2]+CosPhi*(-3.0*parms[2]+2.0*CosPhi*(parms[1]+2.0*parms[2]*CosPhi)))*Smoothing(Theta1)*Smoothing(Theta2); DCos=(parms[0]-3.0*parms[2]+4.0*CosPhi*(parms[1]+3.0*parms[2]*CosPhi))*Smoothing(Theta1)*Smoothing(Theta2); DTheta1=(parms[0]*(1.0+CosPhi)+parms[2]+CosPhi*(-3.0*parms[2]+2.0*CosPhi*(parms[1]+2.0*parms[2]*CosPhi)))* SmoothingDerivative(Theta1)*Smoothing(Theta2)/SinTheta1; DTheta2=(parms[0]*(1.0+CosPhi)+parms[2]+CosPhi*(-3.0*parms[2]+2.0*CosPhi*(parms[1]+2.0*parms[2]*CosPhi)))* Smoothing(Theta1)*SmoothingDerivative(Theta2)/SinTheta2; break; case SMOOTHED_CFF_BEND_TORSION_CROSS: // S(Theta1)*[p_0*(Theta1-p_1)*(Theta2-p_2)*cos(Phi)]*S(Theta2) // ====================================================================================== // p_0/k_B [K/rad^3] // p_1 [degrees] // p_2 [degrees] energy=parms[0]*(Theta1-parms[1])*(Theta2-parms[2])*CosPhi*Smoothing(Theta1)*Smoothing(Theta2); DCos=parms[0]*(Theta1-parms[1])*(Theta2-parms[2])*Smoothing(Theta1)*Smoothing(Theta2); DTheta1=CosPhi*parms[0]*(Theta2-parms[2])*Smoothing(Theta2)*(Smoothing(Theta1)+(Theta1-parms[1])*SmoothingDerivative(Theta1))/SinTheta1; DTheta2=CosPhi*parms[0]*(Theta1-parms[1])*Smoothing(Theta1)*(Smoothing(Theta2)+(Theta2-parms[2])*SmoothingDerivative(Theta2))/SinTheta2; break; default: fprintf(stderr, "Undefined Bend-Torsion potential in routine 'CalculateFrameworkBendTorsionForce' ('framework_force.c')\n"); exit(0); break; } // energy *Energy=energy; // Calculate the first derivative vectors. d=dot_ab/rbc; e=dot_cd/rbc; dtA.x=(ds.x-CosPhi*dr.x)/r; dtA.y=(ds.y-CosPhi*dr.y)/r; dtA.z=(ds.z-CosPhi*dr.z)/r; dtD.x=(dr.x-CosPhi*ds.x)/s; dtD.y=(dr.y-CosPhi*ds.y)/s; dtD.z=(dr.z-CosPhi*ds.z)/s; dtB.x=dtA.x*(d-1.0)+e*dtD.x; dtB.y=dtA.y*(d-1.0)+e*dtD.y; dtB.z=dtA.z*(d-1.0)+e*dtD.z; dtC.x=-dtD.x*(e+1.0)-d*dtA.x; dtC.y=-dtD.y*(e+1.0)-d*dtA.y; dtC.z=-dtD.z*(e+1.0)-d*dtA.z; // forces torsion are oppositely directed to the gradient fa.x=-DCos*dtA.x; fa.y=-DCos*dtA.y; fa.z=-DCos*dtA.z; fb.x=-DCos*dtB.x; fb.y=-DCos*dtB.y; fb.z=-DCos*dtB.z; fc.x=-DCos*dtC.x; fc.y=-DCos*dtC.y; fc.z=-DCos*dtC.z; fd.x=-DCos*dtD.x; fd.y=-DCos*dtD.y; fd.z=-DCos*dtD.z; fan->x+=fa.x; fan->y+=fa.y; fan->z+=fa.z; fbn->x+=fb.x; fbn->y+=fb.y; fbn->z+=fb.z; fcn->x+=fc.x; fcn->y+=fc.y; fcn->z+=fc.z; fdn->x+=fd.x; fdn->y+=fd.y; fdn->z+=fd.z; // add contribution to the stress tensor // Note: rbc is here because the vector was normalized before strain_derivativen->ax-=Dab.x*fa.x+Dbc.x*rbc*(fc.x+fd.x)+Dcd.x*fd.x; strain_derivativen->bx-=Dab.y*fa.x+Dbc.y*rbc*(fc.x+fd.x)+Dcd.y*fd.x; strain_derivativen->cx-=Dab.z*fa.x+Dbc.z*rbc*(fc.x+fd.x)+Dcd.z*fd.x; strain_derivativen->ay-=Dab.x*fa.y+Dbc.x*rbc*(fc.y+fd.y)+Dcd.x*fd.y; strain_derivativen->by-=Dab.y*fa.y+Dbc.y*rbc*(fc.y+fd.y)+Dcd.y*fd.y; strain_derivativen->cy-=Dab.z*fa.y+Dbc.z*rbc*(fc.y+fd.y)+Dcd.z*fd.y; strain_derivativen->az-=Dab.x*fa.z+Dbc.x*rbc*(fc.z+fd.z)+Dcd.x*fd.z; strain_derivativen->bz-=Dab.y*fa.z+Dbc.y*rbc*(fc.z+fd.z)+Dcd.y*fd.z; strain_derivativen->cz-=Dab.z*fa.z+Dbc.z*rbc*(fc.z+fd.z)+Dcd.z*fd.z; Dab.x/=rab; Dab.y/=rab; Dab.z/=rab; Dcd.x/=rcd; Dcd.y/=rcd; Dcd.z/=rcd; // forces bends fa.x=DTheta1*(Dbc.x-Dab.x*CosTheta1)/rab; fa.y=DTheta1*(Dbc.y-Dab.y*CosTheta1)/rab; fa.z=DTheta1*(Dbc.z-Dab.z*CosTheta1)/rab; fb.x=DTheta2*(Dcd.x+Dbc.x*CosTheta2)/rbc; fb.y=DTheta2*(Dcd.y+Dbc.y*CosTheta2)/rbc; fb.z=DTheta2*(Dcd.z+Dbc.z*CosTheta2)/rbc; fc.x=DTheta1*(Dab.x-Dbc.x*CosTheta1)/rbc; fc.y=DTheta1*(Dab.y-Dbc.y*CosTheta1)/rbc; fc.z=DTheta1*(Dab.z-Dbc.z*CosTheta1)/rbc; fd.x=DTheta2*(-Dbc.x-Dcd.x*CosTheta2)/rcd; fd.y=DTheta2*(-Dbc.y-Dcd.y*CosTheta2)/rcd; fd.z=DTheta2*(-Dbc.z-Dcd.z*CosTheta2)/rcd; fan->x+=fa.x; fan->y+=fa.y; fan->z+=fa.z; fbn->x+=fb.x-fa.x-fc.x; fbn->y+=fb.y-fa.y-fc.y; fbn->z+=fb.z-fa.z-fc.z; fcn->x+=fc.x-fb.x-fd.x; fcn->y+=fc.y-fb.y-fd.y; fcn->z+=fc.z-fb.z-fd.z; fdn->x+=fd.x; fdn->y+=fd.y; fdn->z+=fd.z; strain_derivativen->ax-=rab*Dab.x*fa.x+rbc*Dbc.x*fc.x+rbc*Dbc.x*fb.x+rcd*Dcd.x*fd.x; strain_derivativen->bx-=rab*Dab.y*fa.x+rbc*Dbc.y*fc.x+rbc*Dbc.y*fb.x+rcd*Dcd.y*fd.x; strain_derivativen->cx-=rab*Dab.z*fa.x+rbc*Dbc.z*fc.x+rbc*Dbc.z*fb.x+rcd*Dcd.z*fd.x; strain_derivativen->ay-=rab*Dab.x*fa.y+rbc*Dbc.x*fc.y+rbc*Dbc.x*fb.y+rcd*Dcd.x*fd.y; strain_derivativen->by-=rab*Dab.y*fa.y+rbc*Dbc.y*fc.y+rbc*Dbc.y*fb.y+rcd*Dcd.y*fd.y; strain_derivativen->cy-=rab*Dab.z*fa.y+rbc*Dbc.z*fc.y+rbc*Dbc.z*fb.y+rcd*Dcd.z*fd.y; strain_derivativen->az-=rab*Dab.x*fa.z+rbc*Dbc.x*fc.z+rbc*Dbc.x*fb.z+rcd*Dcd.x*fd.z; strain_derivativen->bz-=rab*Dab.y*fa.z+rbc*Dbc.y*fc.z+rbc*Dbc.y*fb.z+rcd*Dcd.y*fd.z; strain_derivativen->cz-=rab*Dab.z*fa.z+rbc*Dbc.z*fc.z+rbc*Dbc.z*fb.z+rcd*Dcd.z*fd.z; } void ComputeFrameworkBendTorsionHessian(REAL *Energy,REAL* Gradient,REAL_MATRIX HessianMatrix,REAL_MATRIX3x3 *StrainDerivativeTensor,int ComputeGradient,int ComputeHessian) { int i,f1; int A,B,C,D; const REAL Delta=1e-7; VECTOR posA0,posB0,posC0,posD0; VECTOR posA,posB,posC,posD; VECTOR fa0,fb0,fc0,fd0,fa[4],fb[4],fc[4],fd[4]; INT_VECTOR3 index_i,index_j,index_k,index_l; REAL U; REAL_MATRIX3x3 strain_derivative; int n; for(f1=0;f1ax+=strain_derivative.ax; StrainDerivativeTensor->ay+=strain_derivative.ay; StrainDerivativeTensor->az+=strain_derivative.az; StrainDerivativeTensor->bx+=strain_derivative.bx; StrainDerivativeTensor->by+=strain_derivative.by; StrainDerivativeTensor->bz+=strain_derivative.bz; StrainDerivativeTensor->cx+=strain_derivative.cx; StrainDerivativeTensor->cy+=strain_derivative.cy; StrainDerivativeTensor->cz+=strain_derivative.cz; // add contribution to the first derivatives if(ComputeGradient) { if(index_i.x>=0) Gradient[index_i.x]-=fa0.x; if(index_i.y>=0) Gradient[index_i.y]-=fa0.y; if(index_i.z>=0) Gradient[index_i.z]-=fa0.z; if(index_j.x>=0) Gradient[index_j.x]-=fb0.x; if(index_j.y>=0) Gradient[index_j.y]-=fb0.y; if(index_j.z>=0) Gradient[index_j.z]-=fb0.z; if(index_k.x>=0) Gradient[index_k.x]-=fc0.x; if(index_k.y>=0) Gradient[index_k.y]-=fc0.y; if(index_k.z>=0) Gradient[index_k.z]-=fc0.z; if(index_l.x>=0) Gradient[index_l.x]-=fd0.x; if(index_l.y>=0) Gradient[index_l.y]-=fd0.y; if(index_l.z>=0) Gradient[index_l.z]-=fd0.z; n=NumberOfCoordinatesMinimizationVariables; switch(Ensemble[CurrentSystem]) { case NPT: Gradient[n]+=strain_derivative.ax; break; case NPTPR: case NPHPR: switch(NPTPRCellType[CurrentSystem]) { case ISOTROPIC: Gradient[n ]+=(strain_derivative.ax+strain_derivative.by+strain_derivative.cz)/3.0; // xx Gradient[n+1]+=(strain_derivative.ax+strain_derivative.by+strain_derivative.cz)/3.0; // xx Gradient[n+2]+=(strain_derivative.ax+strain_derivative.by+strain_derivative.cz)/3.0; // xx break; case ANISOTROPIC: Gradient[n ]+=strain_derivative.ax; // xx Gradient[n+1]+=strain_derivative.by; // yy Gradient[n+2]+=strain_derivative.cz; // zz break; case REGULAR: case REGULAR_UPPER_TRIANGLE: Gradient[n ]+=strain_derivative.ax; // xx Gradient[n+1]+=strain_derivative.ay; // xy Gradient[n+2]+=strain_derivative.az; // xz Gradient[n+3]+=strain_derivative.by; // yy Gradient[n+4]+=strain_derivative.bz; // yz Gradient[n+5]+=strain_derivative.cz; // zz break; case MONOCLINIC: case MONOCLINIC_UPPER_TRIANGLE: switch(MonoclinicAngleType[CurrentSystem]) { case MONOCLINIC_ALPHA_ANGLE: Gradient[n]+=strain_derivative.ax; Gradient[n+1]+=strain_derivative.by; Gradient[n+2]+=strain_derivative.bz; Gradient[n+3]+=strain_derivative.cz; break; case MONOCLINIC_BETA_ANGLE: Gradient[n]+=strain_derivative.ax; Gradient[n+1]+=strain_derivative.az; Gradient[n+2]+=strain_derivative.by; Gradient[n+3]+=strain_derivative.cz; break; case MONOCLINIC_GAMMA_ANGLE: default: Gradient[n]+=strain_derivative.ax; Gradient[n+1]+=strain_derivative.ay; Gradient[n+2]+=strain_derivative.by; Gradient[n+3]+=strain_derivative.cz; break; } break; default: fprintf(stderr, "Unknown NPTPRCellType\n"); exit(0); break; } break; case NVT: case NVE: break; } } if(ComputeHessian) { // Atom A posA=posA0; posB=posB0; posC=posC0; posD=posD0; posA.x+=Delta; CalculateFrameworkBendTorsionForces(f1,i,posA,posB,posC,posD,&U,&fa[0],&fb[0],&fc[0],&fd[0],&strain_derivative); posA=posA0; posB=posB0; posC=posC0; posD=posD0; posA.x+=0.5*Delta; CalculateFrameworkBendTorsionForces(f1,i,posA,posB,posC,posD,&U,&fa[1],&fb[1],&fc[1],&fd[1],&strain_derivative); posA=posA0; posB=posB0; posC=posC0; posD=posD0; posA.x-=0.5*Delta; CalculateFrameworkBendTorsionForces(f1,i,posA,posB,posC,posD,&U,&fa[2],&fb[2],&fc[2],&fd[2],&strain_derivative); posA=posA0; posB=posB0; posC=posC0; posD=posD0; posA.x-=Delta; CalculateFrameworkBendTorsionForces(f1,i,posA,posB,posC,posD,&U,&fa[3],&fb[3],&fc[3],&fd[3],&strain_derivative); if(index_i.x>=0) { if(index_i.x>=0) HessianMatrix.element[index_i.x][index_i.x]-=(-fa[0].x+8.0*fa[1].x-8.0*fa[2].x+fa[3].x)/(6.0*Delta); if(index_i.y>=0) HessianMatrix.element[index_i.x][index_i.y]-=(-fa[0].y+8.0*fa[1].y-8.0*fa[2].y+fa[3].y)/(6.0*Delta); if(index_i.z>=0) HessianMatrix.element[index_i.x][index_i.z]-=(-fa[0].z+8.0*fa[1].z-8.0*fa[2].z+fa[3].z)/(6.0*Delta); if(index_j.x>=0) HessianMatrix.element[index_i.x][index_j.x]-=(-fb[0].x+8.0*fb[1].x-8.0*fb[2].x+fb[3].x)/(6.0*Delta); if(index_j.y>=0) HessianMatrix.element[index_i.x][index_j.y]-=(-fb[0].y+8.0*fb[1].y-8.0*fb[2].y+fb[3].y)/(6.0*Delta); if(index_j.z>=0) HessianMatrix.element[index_i.x][index_j.z]-=(-fb[0].z+8.0*fb[1].z-8.0*fb[2].z+fb[3].z)/(6.0*Delta); if(index_k.x>=0) HessianMatrix.element[index_i.x][index_k.x]-=(-fc[0].x+8.0*fc[1].x-8.0*fc[2].x+fc[3].x)/(6.0*Delta); if(index_k.y>=0) HessianMatrix.element[index_i.x][index_k.y]-=(-fc[0].y+8.0*fc[1].y-8.0*fc[2].y+fc[3].y)/(6.0*Delta); if(index_k.z>=0) HessianMatrix.element[index_i.x][index_k.z]-=(-fc[0].z+8.0*fc[1].z-8.0*fc[2].z+fc[3].z)/(6.0*Delta); if(index_l.x>=0) HessianMatrix.element[index_i.x][index_l.x]-=(-fd[0].x+8.0*fd[1].x-8.0*fd[2].x+fd[3].x)/(6.0*Delta); if(index_l.y>=0) HessianMatrix.element[index_i.x][index_l.y]-=(-fd[0].y+8.0*fd[1].y-8.0*fd[2].y+fd[3].y)/(6.0*Delta); if(index_l.z>=0) HessianMatrix.element[index_i.x][index_l.z]-=(-fd[0].z+8.0*fd[1].z-8.0*fd[2].z+fd[3].z)/(6.0*Delta); } posA=posA0; posB=posB0; posC=posC0; posD=posD0; posA.y+=Delta; CalculateFrameworkBendTorsionForces(f1,i,posA,posB,posC,posD,&U,&fa[0],&fb[0],&fc[0],&fd[0],&strain_derivative); posA=posA0; posB=posB0; posC=posC0; posD=posD0; posA.y+=0.5*Delta; CalculateFrameworkBendTorsionForces(f1,i,posA,posB,posC,posD,&U,&fa[1],&fb[1],&fc[1],&fd[1],&strain_derivative); posA=posA0; posB=posB0; posC=posC0; posD=posD0; posA.y-=0.5*Delta; CalculateFrameworkBendTorsionForces(f1,i,posA,posB,posC,posD,&U,&fa[2],&fb[2],&fc[2],&fd[2],&strain_derivative); posA=posA0; posB=posB0; posC=posC0; posD=posD0; posA.y-=Delta; CalculateFrameworkBendTorsionForces(f1,i,posA,posB,posC,posD,&U,&fa[3],&fb[3],&fc[3],&fd[3],&strain_derivative); if(index_i.y>=0) { if(index_i.x>=0) HessianMatrix.element[index_i.y][index_i.x]-=(-fa[0].x+8.0*fa[1].x-8.0*fa[2].x+fa[3].x)/(6.0*Delta); if(index_i.y>=0) HessianMatrix.element[index_i.y][index_i.y]-=(-fa[0].y+8.0*fa[1].y-8.0*fa[2].y+fa[3].y)/(6.0*Delta); if(index_i.z>=0) HessianMatrix.element[index_i.y][index_i.z]-=(-fa[0].z+8.0*fa[1].z-8.0*fa[2].z+fa[3].z)/(6.0*Delta); if(index_j.x>=0) HessianMatrix.element[index_i.y][index_j.x]-=(-fb[0].x+8.0*fb[1].x-8.0*fb[2].x+fb[3].x)/(6.0*Delta); if(index_j.y>=0) HessianMatrix.element[index_i.y][index_j.y]-=(-fb[0].y+8.0*fb[1].y-8.0*fb[2].y+fb[3].y)/(6.0*Delta); if(index_j.z>=0) HessianMatrix.element[index_i.y][index_j.z]-=(-fb[0].z+8.0*fb[1].z-8.0*fb[2].z+fb[3].z)/(6.0*Delta); if(index_k.x>=0) HessianMatrix.element[index_i.y][index_k.x]-=(-fc[0].x+8.0*fc[1].x-8.0*fc[2].x+fc[3].x)/(6.0*Delta); if(index_k.y>=0) HessianMatrix.element[index_i.y][index_k.y]-=(-fc[0].y+8.0*fc[1].y-8.0*fc[2].y+fc[3].y)/(6.0*Delta); if(index_k.z>=0) HessianMatrix.element[index_i.y][index_k.z]-=(-fc[0].z+8.0*fc[1].z-8.0*fc[2].z+fc[3].z)/(6.0*Delta); if(index_l.x>=0) HessianMatrix.element[index_i.y][index_l.x]-=(-fd[0].x+8.0*fd[1].x-8.0*fd[2].x+fd[3].x)/(6.0*Delta); if(index_l.y>=0) HessianMatrix.element[index_i.y][index_l.y]-=(-fd[0].y+8.0*fd[1].y-8.0*fd[2].y+fd[3].y)/(6.0*Delta); if(index_l.z>=0) HessianMatrix.element[index_i.y][index_l.z]-=(-fd[0].z+8.0*fd[1].z-8.0*fd[2].z+fd[3].z)/(6.0*Delta); } posA=posA0; posB=posB0; posC=posC0; posD=posD0; posA.z+=Delta; CalculateFrameworkBendTorsionForces(f1,i,posA,posB,posC,posD,&U,&fa[0],&fb[0],&fc[0],&fd[0],&strain_derivative); posA=posA0; posB=posB0; posC=posC0; posD=posD0; posA.z+=0.5*Delta; CalculateFrameworkBendTorsionForces(f1,i,posA,posB,posC,posD,&U,&fa[1],&fb[1],&fc[1],&fd[1],&strain_derivative); posA=posA0; posB=posB0; posC=posC0; posD=posD0; posA.z-=0.5*Delta; CalculateFrameworkBendTorsionForces(f1,i,posA,posB,posC,posD,&U,&fa[2],&fb[2],&fc[2],&fd[2],&strain_derivative); posA=posA0; posB=posB0; posC=posC0; posD=posD0; posA.z-=Delta; CalculateFrameworkBendTorsionForces(f1,i,posA,posB,posC,posD,&U,&fa[3],&fb[3],&fc[3],&fd[3],&strain_derivative); if(index_i.z>=0) { if(index_i.x>=0) HessianMatrix.element[index_i.z][index_i.x]-=(-fa[0].x+8.0*fa[1].x-8.0*fa[2].x+fa[3].x)/(6.0*Delta); if(index_i.y>=0) HessianMatrix.element[index_i.z][index_i.y]-=(-fa[0].y+8.0*fa[1].y-8.0*fa[2].y+fa[3].y)/(6.0*Delta); if(index_i.z>=0) HessianMatrix.element[index_i.z][index_i.z]-=(-fa[0].z+8.0*fa[1].z-8.0*fa[2].z+fa[3].z)/(6.0*Delta); if(index_j.x>=0) HessianMatrix.element[index_i.z][index_j.x]-=(-fb[0].x+8.0*fb[1].x-8.0*fb[2].x+fb[3].x)/(6.0*Delta); if(index_j.y>=0) HessianMatrix.element[index_i.z][index_j.y]-=(-fb[0].y+8.0*fb[1].y-8.0*fb[2].y+fb[3].y)/(6.0*Delta); if(index_j.z>=0) HessianMatrix.element[index_i.z][index_j.z]-=(-fb[0].z+8.0*fb[1].z-8.0*fb[2].z+fb[3].z)/(6.0*Delta); if(index_k.x>=0) HessianMatrix.element[index_i.z][index_k.x]-=(-fc[0].x+8.0*fc[1].x-8.0*fc[2].x+fc[3].x)/(6.0*Delta); if(index_k.y>=0) HessianMatrix.element[index_i.z][index_k.y]-=(-fc[0].y+8.0*fc[1].y-8.0*fc[2].y+fc[3].y)/(6.0*Delta); if(index_k.z>=0) HessianMatrix.element[index_i.z][index_k.z]-=(-fc[0].z+8.0*fc[1].z-8.0*fc[2].z+fc[3].z)/(6.0*Delta); if(index_l.x>=0) HessianMatrix.element[index_i.z][index_l.x]-=(-fd[0].x+8.0*fd[1].x-8.0*fd[2].x+fd[3].x)/(6.0*Delta); if(index_l.y>=0) HessianMatrix.element[index_i.z][index_l.y]-=(-fd[0].y+8.0*fd[1].y-8.0*fd[2].y+fd[3].y)/(6.0*Delta); if(index_l.z>=0) HessianMatrix.element[index_i.z][index_l.z]-=(-fd[0].z+8.0*fd[1].z-8.0*fd[2].z+fd[3].z)/(6.0*Delta); } // Atom B posA=posA0; posB=posB0; posC=posC0; posD=posD0; posB.x+=Delta; CalculateFrameworkBendTorsionForces(f1,i,posA,posB,posC,posD,&U,&fa[0],&fb[0],&fc[0],&fd[0],&strain_derivative); posA=posA0; posB=posB0; posC=posC0; posD=posD0; posB.x+=0.5*Delta; CalculateFrameworkBendTorsionForces(f1,i,posA,posB,posC,posD,&U,&fa[1],&fb[1],&fc[1],&fd[1],&strain_derivative); posA=posA0; posB=posB0; posC=posC0; posD=posD0; posB.x-=0.5*Delta; CalculateFrameworkBendTorsionForces(f1,i,posA,posB,posC,posD,&U,&fa[2],&fb[2],&fc[2],&fd[2],&strain_derivative); posA=posA0; posB=posB0; posC=posC0; posD=posD0; posB.x-=Delta; CalculateFrameworkBendTorsionForces(f1,i,posA,posB,posC,posD,&U,&fa[3],&fb[3],&fc[3],&fd[3],&strain_derivative); if(index_j.x>=0) { if(index_i.x>=0) HessianMatrix.element[index_j.x][index_i.x]-=(-fa[0].x+8.0*fa[1].x-8.0*fa[2].x+fa[3].x)/(6.0*Delta); if(index_i.y>=0) HessianMatrix.element[index_j.x][index_i.y]-=(-fa[0].y+8.0*fa[1].y-8.0*fa[2].y+fa[3].y)/(6.0*Delta); if(index_i.z>=0) HessianMatrix.element[index_j.x][index_i.z]-=(-fa[0].z+8.0*fa[1].z-8.0*fa[2].z+fa[3].z)/(6.0*Delta); if(index_j.x>=0) HessianMatrix.element[index_j.x][index_j.x]-=(-fb[0].x+8.0*fb[1].x-8.0*fb[2].x+fb[3].x)/(6.0*Delta); if(index_j.y>=0) HessianMatrix.element[index_j.x][index_j.y]-=(-fb[0].y+8.0*fb[1].y-8.0*fb[2].y+fb[3].y)/(6.0*Delta); if(index_j.z>=0) HessianMatrix.element[index_j.x][index_j.z]-=(-fb[0].z+8.0*fb[1].z-8.0*fb[2].z+fb[3].z)/(6.0*Delta); if(index_k.x>=0) HessianMatrix.element[index_j.x][index_k.x]-=(-fc[0].x+8.0*fc[1].x-8.0*fc[2].x+fc[3].x)/(6.0*Delta); if(index_k.y>=0) HessianMatrix.element[index_j.x][index_k.y]-=(-fc[0].y+8.0*fc[1].y-8.0*fc[2].y+fc[3].y)/(6.0*Delta); if(index_k.z>=0) HessianMatrix.element[index_j.x][index_k.z]-=(-fc[0].z+8.0*fc[1].z-8.0*fc[2].z+fc[3].z)/(6.0*Delta); if(index_l.x>=0) HessianMatrix.element[index_j.x][index_l.x]-=(-fd[0].x+8.0*fd[1].x-8.0*fd[2].x+fd[3].x)/(6.0*Delta); if(index_l.y>=0) HessianMatrix.element[index_j.x][index_l.y]-=(-fd[0].y+8.0*fd[1].y-8.0*fd[2].y+fd[3].y)/(6.0*Delta); if(index_l.z>=0) HessianMatrix.element[index_j.x][index_l.z]-=(-fd[0].z+8.0*fd[1].z-8.0*fd[2].z+fd[3].z)/(6.0*Delta); } posA=posA0; posB=posB0; posC=posC0; posD=posD0; posB.y+=Delta; CalculateFrameworkBendTorsionForces(f1,i,posA,posB,posC,posD,&U,&fa[0],&fb[0],&fc[0],&fd[0],&strain_derivative); posA=posA0; posB=posB0; posC=posC0; posD=posD0; posB.y+=0.5*Delta; CalculateFrameworkBendTorsionForces(f1,i,posA,posB,posC,posD,&U,&fa[1],&fb[1],&fc[1],&fd[1],&strain_derivative); posA=posA0; posB=posB0; posC=posC0; posD=posD0; posB.y-=0.5*Delta; CalculateFrameworkBendTorsionForces(f1,i,posA,posB,posC,posD,&U,&fa[2],&fb[2],&fc[2],&fd[2],&strain_derivative); posA=posA0; posB=posB0; posC=posC0; posD=posD0; posB.y-=Delta; CalculateFrameworkBendTorsionForces(f1,i,posA,posB,posC,posD,&U,&fa[3],&fb[3],&fc[3],&fd[3],&strain_derivative); if(index_j.y>=0) { if(index_i.x>=0) HessianMatrix.element[index_j.y][index_i.x]-=(-fa[0].x+8.0*fa[1].x-8.0*fa[2].x+fa[3].x)/(6.0*Delta); if(index_i.y>=0) HessianMatrix.element[index_j.y][index_i.y]-=(-fa[0].y+8.0*fa[1].y-8.0*fa[2].y+fa[3].y)/(6.0*Delta); if(index_i.z>=0) HessianMatrix.element[index_j.y][index_i.z]-=(-fa[0].z+8.0*fa[1].z-8.0*fa[2].z+fa[3].z)/(6.0*Delta); if(index_j.x>=0) HessianMatrix.element[index_j.y][index_j.x]-=(-fb[0].x+8.0*fb[1].x-8.0*fb[2].x+fb[3].x)/(6.0*Delta); if(index_j.y>=0) HessianMatrix.element[index_j.y][index_j.y]-=(-fb[0].y+8.0*fb[1].y-8.0*fb[2].y+fb[3].y)/(6.0*Delta); if(index_j.z>=0) HessianMatrix.element[index_j.y][index_j.z]-=(-fb[0].z+8.0*fb[1].z-8.0*fb[2].z+fb[3].z)/(6.0*Delta); if(index_k.x>=0) HessianMatrix.element[index_j.y][index_k.x]-=(-fc[0].x+8.0*fc[1].x-8.0*fc[2].x+fc[3].x)/(6.0*Delta); if(index_k.y>=0) HessianMatrix.element[index_j.y][index_k.y]-=(-fc[0].y+8.0*fc[1].y-8.0*fc[2].y+fc[3].y)/(6.0*Delta); if(index_k.z>=0) HessianMatrix.element[index_j.y][index_k.z]-=(-fc[0].z+8.0*fc[1].z-8.0*fc[2].z+fc[3].z)/(6.0*Delta); if(index_l.x>=0) HessianMatrix.element[index_j.y][index_l.x]-=(-fd[0].x+8.0*fd[1].x-8.0*fd[2].x+fd[3].x)/(6.0*Delta); if(index_l.y>=0) HessianMatrix.element[index_j.y][index_l.y]-=(-fd[0].y+8.0*fd[1].y-8.0*fd[2].y+fd[3].y)/(6.0*Delta); if(index_l.z>=0) HessianMatrix.element[index_j.y][index_l.z]-=(-fd[0].z+8.0*fd[1].z-8.0*fd[2].z+fd[3].z)/(6.0*Delta); } posA=posA0; posB=posB0; posC=posC0; posD=posD0; posB.z+=Delta; CalculateFrameworkBendTorsionForces(f1,i,posA,posB,posC,posD,&U,&fa[0],&fb[0],&fc[0],&fd[0],&strain_derivative); posA=posA0; posB=posB0; posC=posC0; posD=posD0; posB.z+=0.5*Delta; CalculateFrameworkBendTorsionForces(f1,i,posA,posB,posC,posD,&U,&fa[1],&fb[1],&fc[1],&fd[1],&strain_derivative); posA=posA0; posB=posB0; posC=posC0; posD=posD0; posB.z-=0.5*Delta; CalculateFrameworkBendTorsionForces(f1,i,posA,posB,posC,posD,&U,&fa[2],&fb[2],&fc[2],&fd[2],&strain_derivative); posA=posA0; posB=posB0; posC=posC0; posD=posD0; posB.z-=Delta; CalculateFrameworkBendTorsionForces(f1,i,posA,posB,posC,posD,&U,&fa[3],&fb[3],&fc[3],&fd[3],&strain_derivative); if(index_j.z>=0) { if(index_i.x>=0) HessianMatrix.element[index_j.z][index_i.x]-=(-fa[0].x+8.0*fa[1].x-8.0*fa[2].x+fa[3].x)/(6.0*Delta); if(index_i.y>=0) HessianMatrix.element[index_j.z][index_i.y]-=(-fa[0].y+8.0*fa[1].y-8.0*fa[2].y+fa[3].y)/(6.0*Delta); if(index_i.z>=0) HessianMatrix.element[index_j.z][index_i.z]-=(-fa[0].z+8.0*fa[1].z-8.0*fa[2].z+fa[3].z)/(6.0*Delta); if(index_j.x>=0) HessianMatrix.element[index_j.z][index_j.x]-=(-fb[0].x+8.0*fb[1].x-8.0*fb[2].x+fb[3].x)/(6.0*Delta); if(index_j.y>=0) HessianMatrix.element[index_j.z][index_j.y]-=(-fb[0].y+8.0*fb[1].y-8.0*fb[2].y+fb[3].y)/(6.0*Delta); if(index_j.z>=0) HessianMatrix.element[index_j.z][index_j.z]-=(-fb[0].z+8.0*fb[1].z-8.0*fb[2].z+fb[3].z)/(6.0*Delta); if(index_k.x>=0) HessianMatrix.element[index_j.z][index_k.x]-=(-fc[0].x+8.0*fc[1].x-8.0*fc[2].x+fc[3].x)/(6.0*Delta); if(index_k.y>=0) HessianMatrix.element[index_j.z][index_k.y]-=(-fc[0].y+8.0*fc[1].y-8.0*fc[2].y+fc[3].y)/(6.0*Delta); if(index_k.z>=0) HessianMatrix.element[index_j.z][index_k.z]-=(-fc[0].z+8.0*fc[1].z-8.0*fc[2].z+fc[3].z)/(6.0*Delta); if(index_l.x>=0) HessianMatrix.element[index_j.z][index_l.x]-=(-fd[0].x+8.0*fd[1].x-8.0*fd[2].x+fd[3].x)/(6.0*Delta); if(index_l.y>=0) HessianMatrix.element[index_j.z][index_l.y]-=(-fd[0].y+8.0*fd[1].y-8.0*fd[2].y+fd[3].y)/(6.0*Delta); if(index_l.z>=0) HessianMatrix.element[index_j.z][index_l.z]-=(-fd[0].z+8.0*fd[1].z-8.0*fd[2].z+fd[3].z)/(6.0*Delta); } // Atom C posA=posA0; posB=posB0; posC=posC0; posD=posD0; posC.x+=Delta; CalculateFrameworkBendTorsionForces(f1,i,posA,posB,posC,posD,&U,&fa[0],&fb[0],&fc[0],&fd[0],&strain_derivative); posA=posA0; posB=posB0; posC=posC0; posD=posD0; posC.x+=0.5*Delta; CalculateFrameworkBendTorsionForces(f1,i,posA,posB,posC,posD,&U,&fa[1],&fb[1],&fc[1],&fd[1],&strain_derivative); posA=posA0; posB=posB0; posC=posC0; posD=posD0; posC.x-=0.5*Delta; CalculateFrameworkBendTorsionForces(f1,i,posA,posB,posC,posD,&U,&fa[2],&fb[2],&fc[2],&fd[2],&strain_derivative); posA=posA0; posB=posB0; posC=posC0; posD=posD0; posC.x-=Delta; CalculateFrameworkBendTorsionForces(f1,i,posA,posB,posC,posD,&U,&fa[3],&fb[3],&fc[3],&fd[3],&strain_derivative); if(index_k.x>=0) { if(index_i.x>=0) HessianMatrix.element[index_k.x][index_i.x]-=(-fa[0].x+8.0*fa[1].x-8.0*fa[2].x+fa[3].x)/(6.0*Delta); if(index_i.y>=0) HessianMatrix.element[index_k.x][index_i.y]-=(-fa[0].y+8.0*fa[1].y-8.0*fa[2].y+fa[3].y)/(6.0*Delta); if(index_i.z>=0) HessianMatrix.element[index_k.x][index_i.z]-=(-fa[0].z+8.0*fa[1].z-8.0*fa[2].z+fa[3].z)/(6.0*Delta); if(index_j.x>=0) HessianMatrix.element[index_k.x][index_j.x]-=(-fb[0].x+8.0*fb[1].x-8.0*fb[2].x+fb[3].x)/(6.0*Delta); if(index_j.y>=0) HessianMatrix.element[index_k.x][index_j.y]-=(-fb[0].y+8.0*fb[1].y-8.0*fb[2].y+fb[3].y)/(6.0*Delta); if(index_j.z>=0) HessianMatrix.element[index_k.x][index_j.z]-=(-fb[0].z+8.0*fb[1].z-8.0*fb[2].z+fb[3].z)/(6.0*Delta); if(index_k.x>=0) HessianMatrix.element[index_k.x][index_k.x]-=(-fc[0].x+8.0*fc[1].x-8.0*fc[2].x+fc[3].x)/(6.0*Delta); if(index_k.y>=0) HessianMatrix.element[index_k.x][index_k.y]-=(-fc[0].y+8.0*fc[1].y-8.0*fc[2].y+fc[3].y)/(6.0*Delta); if(index_k.z>=0) HessianMatrix.element[index_k.x][index_k.z]-=(-fc[0].z+8.0*fc[1].z-8.0*fc[2].z+fc[3].z)/(6.0*Delta); if(index_l.x>=0) HessianMatrix.element[index_k.x][index_l.x]-=(-fd[0].x+8.0*fd[1].x-8.0*fd[2].x+fd[3].x)/(6.0*Delta); if(index_l.y>=0) HessianMatrix.element[index_k.x][index_l.y]-=(-fd[0].y+8.0*fd[1].y-8.0*fd[2].y+fd[3].y)/(6.0*Delta); if(index_l.z>=0) HessianMatrix.element[index_k.x][index_l.z]-=(-fd[0].z+8.0*fd[1].z-8.0*fd[2].z+fd[3].z)/(6.0*Delta); } posA=posA0; posB=posB0; posC=posC0; posD=posD0; posC.y+=Delta; CalculateFrameworkBendTorsionForces(f1,i,posA,posB,posC,posD,&U,&fa[0],&fb[0],&fc[0],&fd[0],&strain_derivative); posA=posA0; posB=posB0; posC=posC0; posD=posD0; posC.y+=0.5*Delta; CalculateFrameworkBendTorsionForces(f1,i,posA,posB,posC,posD,&U,&fa[1],&fb[1],&fc[1],&fd[1],&strain_derivative); posA=posA0; posB=posB0; posC=posC0; posD=posD0; posC.y-=0.5*Delta; CalculateFrameworkBendTorsionForces(f1,i,posA,posB,posC,posD,&U,&fa[2],&fb[2],&fc[2],&fd[2],&strain_derivative); posA=posA0; posB=posB0; posC=posC0; posD=posD0; posC.y-=Delta; CalculateFrameworkBendTorsionForces(f1,i,posA,posB,posC,posD,&U,&fa[3],&fb[3],&fc[3],&fd[3],&strain_derivative); if(index_k.y>=0) { if(index_i.x>=0) HessianMatrix.element[index_k.y][index_i.x]-=(-fa[0].x+8.0*fa[1].x-8.0*fa[2].x+fa[3].x)/(6.0*Delta); if(index_i.y>=0) HessianMatrix.element[index_k.y][index_i.y]-=(-fa[0].y+8.0*fa[1].y-8.0*fa[2].y+fa[3].y)/(6.0*Delta); if(index_i.z>=0) HessianMatrix.element[index_k.y][index_i.z]-=(-fa[0].z+8.0*fa[1].z-8.0*fa[2].z+fa[3].z)/(6.0*Delta); if(index_j.x>=0) HessianMatrix.element[index_k.y][index_j.x]-=(-fb[0].x+8.0*fb[1].x-8.0*fb[2].x+fb[3].x)/(6.0*Delta); if(index_j.y>=0) HessianMatrix.element[index_k.y][index_j.y]-=(-fb[0].y+8.0*fb[1].y-8.0*fb[2].y+fb[3].y)/(6.0*Delta); if(index_j.z>=0) HessianMatrix.element[index_k.y][index_j.z]-=(-fb[0].z+8.0*fb[1].z-8.0*fb[2].z+fb[3].z)/(6.0*Delta); if(index_k.x>=0) HessianMatrix.element[index_k.y][index_k.x]-=(-fc[0].x+8.0*fc[1].x-8.0*fc[2].x+fc[3].x)/(6.0*Delta); if(index_k.y>=0) HessianMatrix.element[index_k.y][index_k.y]-=(-fc[0].y+8.0*fc[1].y-8.0*fc[2].y+fc[3].y)/(6.0*Delta); if(index_k.z>=0) HessianMatrix.element[index_k.y][index_k.z]-=(-fc[0].z+8.0*fc[1].z-8.0*fc[2].z+fc[3].z)/(6.0*Delta); if(index_l.x>=0) HessianMatrix.element[index_k.y][index_l.x]-=(-fd[0].x+8.0*fd[1].x-8.0*fd[2].x+fd[3].x)/(6.0*Delta); if(index_l.y>=0) HessianMatrix.element[index_k.y][index_l.y]-=(-fd[0].y+8.0*fd[1].y-8.0*fd[2].y+fd[3].y)/(6.0*Delta); if(index_l.z>=0) HessianMatrix.element[index_k.y][index_l.z]-=(-fd[0].z+8.0*fd[1].z-8.0*fd[2].z+fd[3].z)/(6.0*Delta); } posA=posA0; posB=posB0; posC=posC0; posD=posD0; posC.z+=Delta; CalculateFrameworkBendTorsionForces(f1,i,posA,posB,posC,posD,&U,&fa[0],&fb[0],&fc[0],&fd[0],&strain_derivative); posA=posA0; posB=posB0; posC=posC0; posD=posD0; posC.z+=0.5*Delta; CalculateFrameworkBendTorsionForces(f1,i,posA,posB,posC,posD,&U,&fa[1],&fb[1],&fc[1],&fd[1],&strain_derivative); posA=posA0; posB=posB0; posC=posC0; posD=posD0; posC.z-=0.5*Delta; CalculateFrameworkBendTorsionForces(f1,i,posA,posB,posC,posD,&U,&fa[2],&fb[2],&fc[2],&fd[2],&strain_derivative); posA=posA0; posB=posB0; posC=posC0; posD=posD0; posC.z-=Delta; CalculateFrameworkBendTorsionForces(f1,i,posA,posB,posC,posD,&U,&fa[3],&fb[3],&fc[3],&fd[3],&strain_derivative); if(index_k.z>=0) { if(index_i.x>=0) HessianMatrix.element[index_k.z][index_i.x]-=(-fa[0].x+8.0*fa[1].x-8.0*fa[2].x+fa[3].x)/(6.0*Delta); if(index_i.y>=0) HessianMatrix.element[index_k.z][index_i.y]-=(-fa[0].y+8.0*fa[1].y-8.0*fa[2].y+fa[3].y)/(6.0*Delta); if(index_i.z>=0) HessianMatrix.element[index_k.z][index_i.z]-=(-fa[0].z+8.0*fa[1].z-8.0*fa[2].z+fa[3].z)/(6.0*Delta); if(index_j.x>=0) HessianMatrix.element[index_k.z][index_j.x]-=(-fb[0].x+8.0*fb[1].x-8.0*fb[2].x+fb[3].x)/(6.0*Delta); if(index_j.y>=0) HessianMatrix.element[index_k.z][index_j.y]-=(-fb[0].y+8.0*fb[1].y-8.0*fb[2].y+fb[3].y)/(6.0*Delta); if(index_j.z>=0) HessianMatrix.element[index_k.z][index_j.z]-=(-fb[0].z+8.0*fb[1].z-8.0*fb[2].z+fb[3].z)/(6.0*Delta); if(index_k.x>=0) HessianMatrix.element[index_k.z][index_k.x]-=(-fc[0].x+8.0*fc[1].x-8.0*fc[2].x+fc[3].x)/(6.0*Delta); if(index_k.y>=0) HessianMatrix.element[index_k.z][index_k.y]-=(-fc[0].y+8.0*fc[1].y-8.0*fc[2].y+fc[3].y)/(6.0*Delta); if(index_k.z>=0) HessianMatrix.element[index_k.z][index_k.z]-=(-fc[0].z+8.0*fc[1].z-8.0*fc[2].z+fc[3].z)/(6.0*Delta); if(index_l.x>=0) HessianMatrix.element[index_k.z][index_l.x]-=(-fd[0].x+8.0*fd[1].x-8.0*fd[2].x+fd[3].x)/(6.0*Delta); if(index_l.y>=0) HessianMatrix.element[index_k.z][index_l.y]-=(-fd[0].y+8.0*fd[1].y-8.0*fd[2].y+fd[3].y)/(6.0*Delta); if(index_l.z>=0) HessianMatrix.element[index_k.z][index_l.z]-=(-fd[0].z+8.0*fd[1].z-8.0*fd[2].z+fd[3].z)/(6.0*Delta); } // Atom D posA=posA0; posB=posB0; posC=posC0; posD=posD0; posD.x+=Delta; CalculateFrameworkBendTorsionForces(f1,i,posA,posB,posC,posD,&U,&fa[0],&fb[0],&fc[0],&fd[0],&strain_derivative); posA=posA0; posB=posB0; posC=posC0; posD=posD0; posD.x+=0.5*Delta; CalculateFrameworkBendTorsionForces(f1,i,posA,posB,posC,posD,&U,&fa[1],&fb[1],&fc[1],&fd[1],&strain_derivative); posA=posA0; posB=posB0; posC=posC0; posD=posD0; posD.x-=0.5*Delta; CalculateFrameworkBendTorsionForces(f1,i,posA,posB,posC,posD,&U,&fa[2],&fb[2],&fc[2],&fd[2],&strain_derivative); posA=posA0; posB=posB0; posC=posC0; posD=posD0; posD.x-=Delta; CalculateFrameworkBendTorsionForces(f1,i,posA,posB,posC,posD,&U,&fa[3],&fb[3],&fc[3],&fd[3],&strain_derivative); if(index_l.x>=0) { if(index_i.x>=0) HessianMatrix.element[index_l.x][index_i.x]-=(-fa[0].x+8.0*fa[1].x-8.0*fa[2].x+fa[3].x)/(6.0*Delta); if(index_i.y>=0) HessianMatrix.element[index_l.x][index_i.y]-=(-fa[0].y+8.0*fa[1].y-8.0*fa[2].y+fa[3].y)/(6.0*Delta); if(index_i.z>=0) HessianMatrix.element[index_l.x][index_i.z]-=(-fa[0].z+8.0*fa[1].z-8.0*fa[2].z+fa[3].z)/(6.0*Delta); if(index_j.x>=0) HessianMatrix.element[index_l.x][index_j.x]-=(-fb[0].x+8.0*fb[1].x-8.0*fb[2].x+fb[3].x)/(6.0*Delta); if(index_j.y>=0) HessianMatrix.element[index_l.x][index_j.y]-=(-fb[0].y+8.0*fb[1].y-8.0*fb[2].y+fb[3].y)/(6.0*Delta); if(index_j.z>=0) HessianMatrix.element[index_l.x][index_j.z]-=(-fb[0].z+8.0*fb[1].z-8.0*fb[2].z+fb[3].z)/(6.0*Delta); if(index_k.x>=0) HessianMatrix.element[index_l.x][index_k.x]-=(-fc[0].x+8.0*fc[1].x-8.0*fc[2].x+fc[3].x)/(6.0*Delta); if(index_k.y>=0) HessianMatrix.element[index_l.x][index_k.y]-=(-fc[0].y+8.0*fc[1].y-8.0*fc[2].y+fc[3].y)/(6.0*Delta); if(index_k.z>=0) HessianMatrix.element[index_l.x][index_k.z]-=(-fc[0].z+8.0*fc[1].z-8.0*fc[2].z+fc[3].z)/(6.0*Delta); if(index_l.x>=0) HessianMatrix.element[index_l.x][index_l.x]-=(-fd[0].x+8.0*fd[1].x-8.0*fd[2].x+fd[3].x)/(6.0*Delta); if(index_l.y>=0) HessianMatrix.element[index_l.x][index_l.y]-=(-fd[0].y+8.0*fd[1].y-8.0*fd[2].y+fd[3].y)/(6.0*Delta); if(index_l.z>=0) HessianMatrix.element[index_l.x][index_l.z]-=(-fd[0].z+8.0*fd[1].z-8.0*fd[2].z+fd[3].z)/(6.0*Delta); } posA=posA0; posB=posB0; posC=posC0; posD=posD0; posD.y+=Delta; CalculateFrameworkBendTorsionForces(f1,i,posA,posB,posC,posD,&U,&fa[0],&fb[0],&fc[0],&fd[0],&strain_derivative); posA=posA0; posB=posB0; posC=posC0; posD=posD0; posD.y+=0.5*Delta; CalculateFrameworkBendTorsionForces(f1,i,posA,posB,posC,posD,&U,&fa[1],&fb[1],&fc[1],&fd[1],&strain_derivative); posA=posA0; posB=posB0; posC=posC0; posD=posD0; posD.y-=0.5*Delta; CalculateFrameworkBendTorsionForces(f1,i,posA,posB,posC,posD,&U,&fa[2],&fb[2],&fc[2],&fd[2],&strain_derivative); posA=posA0; posB=posB0; posC=posC0; posD=posD0; posD.y-=Delta; CalculateFrameworkBendTorsionForces(f1,i,posA,posB,posC,posD,&U,&fa[3],&fb[3],&fc[3],&fd[3],&strain_derivative); if(index_l.y>=0) { if(index_i.x>=0) HessianMatrix.element[index_l.y][index_i.x]-=(-fa[0].x+8.0*fa[1].x-8.0*fa[2].x+fa[3].x)/(6.0*Delta); if(index_i.y>=0) HessianMatrix.element[index_l.y][index_i.y]-=(-fa[0].y+8.0*fa[1].y-8.0*fa[2].y+fa[3].y)/(6.0*Delta); if(index_i.z>=0) HessianMatrix.element[index_l.y][index_i.z]-=(-fa[0].z+8.0*fa[1].z-8.0*fa[2].z+fa[3].z)/(6.0*Delta); if(index_j.x>=0) HessianMatrix.element[index_l.y][index_j.x]-=(-fb[0].x+8.0*fb[1].x-8.0*fb[2].x+fb[3].x)/(6.0*Delta); if(index_j.y>=0) HessianMatrix.element[index_l.y][index_j.y]-=(-fb[0].y+8.0*fb[1].y-8.0*fb[2].y+fb[3].y)/(6.0*Delta); if(index_j.z>=0) HessianMatrix.element[index_l.y][index_j.z]-=(-fb[0].z+8.0*fb[1].z-8.0*fb[2].z+fb[3].z)/(6.0*Delta); if(index_k.x>=0) HessianMatrix.element[index_l.y][index_k.x]-=(-fc[0].x+8.0*fc[1].x-8.0*fc[2].x+fc[3].x)/(6.0*Delta); if(index_k.y>=0) HessianMatrix.element[index_l.y][index_k.y]-=(-fc[0].y+8.0*fc[1].y-8.0*fc[2].y+fc[3].y)/(6.0*Delta); if(index_k.z>=0) HessianMatrix.element[index_l.y][index_k.z]-=(-fc[0].z+8.0*fc[1].z-8.0*fc[2].z+fc[3].z)/(6.0*Delta); if(index_l.x>=0) HessianMatrix.element[index_l.y][index_l.x]-=(-fd[0].x+8.0*fd[1].x-8.0*fd[2].x+fd[3].x)/(6.0*Delta); if(index_l.y>=0) HessianMatrix.element[index_l.y][index_l.y]-=(-fd[0].y+8.0*fd[1].y-8.0*fd[2].y+fd[3].y)/(6.0*Delta); if(index_l.z>=0) HessianMatrix.element[index_l.y][index_l.z]-=(-fd[0].z+8.0*fd[1].z-8.0*fd[2].z+fd[3].z)/(6.0*Delta); } posA=posA0; posB=posB0; posC=posC0; posD=posD0; posD.z+=Delta; CalculateFrameworkBendTorsionForces(f1,i,posA,posB,posC,posD,&U,&fa[0],&fb[0],&fc[0],&fd[0],&strain_derivative); posA=posA0; posB=posB0; posC=posC0; posD=posD0; posD.z+=0.5*Delta; CalculateFrameworkBendTorsionForces(f1,i,posA,posB,posC,posD,&U,&fa[1],&fb[1],&fc[1],&fd[1],&strain_derivative); posA=posA0; posB=posB0; posC=posC0; posD=posD0; posD.z-=0.5*Delta; CalculateFrameworkBendTorsionForces(f1,i,posA,posB,posC,posD,&U,&fa[2],&fb[2],&fc[2],&fd[2],&strain_derivative); posA=posA0; posB=posB0; posC=posC0; posD=posD0; posD.z-=Delta; CalculateFrameworkBendTorsionForces(f1,i,posA,posB,posC,posD,&U,&fa[3],&fb[3],&fc[3],&fd[3],&strain_derivative); if(index_l.z>=0) { if(index_i.x>=0) HessianMatrix.element[index_l.z][index_i.x]-=(-fa[0].x+8.0*fa[1].x-8.0*fa[2].x+fa[3].x)/(6.0*Delta); if(index_i.y>=0) HessianMatrix.element[index_l.z][index_i.y]-=(-fa[0].y+8.0*fa[1].y-8.0*fa[2].y+fa[3].y)/(6.0*Delta); if(index_i.z>=0) HessianMatrix.element[index_l.z][index_i.z]-=(-fa[0].z+8.0*fa[1].z-8.0*fa[2].z+fa[3].z)/(6.0*Delta); if(index_j.x>=0) HessianMatrix.element[index_l.z][index_j.x]-=(-fb[0].x+8.0*fb[1].x-8.0*fb[2].x+fb[3].x)/(6.0*Delta); if(index_j.y>=0) HessianMatrix.element[index_l.z][index_j.y]-=(-fb[0].y+8.0*fb[1].y-8.0*fb[2].y+fb[3].y)/(6.0*Delta); if(index_j.z>=0) HessianMatrix.element[index_l.z][index_j.z]-=(-fb[0].z+8.0*fb[1].z-8.0*fb[2].z+fb[3].z)/(6.0*Delta); if(index_k.x>=0) HessianMatrix.element[index_l.z][index_k.x]-=(-fc[0].x+8.0*fc[1].x-8.0*fc[2].x+fc[3].x)/(6.0*Delta); if(index_k.y>=0) HessianMatrix.element[index_l.z][index_k.y]-=(-fc[0].y+8.0*fc[1].y-8.0*fc[2].y+fc[3].y)/(6.0*Delta); if(index_k.z>=0) HessianMatrix.element[index_l.z][index_k.z]-=(-fc[0].z+8.0*fc[1].z-8.0*fc[2].z+fc[3].z)/(6.0*Delta); if(index_l.x>=0) HessianMatrix.element[index_l.z][index_l.x]-=(-fd[0].x+8.0*fd[1].x-8.0*fd[2].x+fd[3].x)/(6.0*Delta); if(index_l.y>=0) HessianMatrix.element[index_l.z][index_l.y]-=(-fd[0].y+8.0*fd[1].y-8.0*fd[2].y+fd[3].y)/(6.0*Delta); if(index_l.z>=0) HessianMatrix.element[index_l.z][index_l.z]-=(-fd[0].z+8.0*fd[1].z-8.0*fd[2].z+fd[3].z)/(6.0*Delta); } } } } }