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#include "AbstractClasses.hpp" |
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#include "SimInfo.hpp" |
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#include "ForceFields.hpp" |
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#include "Thermo.hpp" |
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#include "ReadWrite.hpp" |
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class Verlet : public Integrator { |
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class Integrator : public BaseIntegrator { |
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public: |
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Verlet( SimInfo &info, ForceFields* the_ff ); |
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~Verlet(); |
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Integrator( SimInfo &theInfo, ForceFields* the_ff ); |
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virtual ~Integrator(); |
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void integrate( void ); |
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private: |
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protected: |
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void move_a( double dt ); |
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void move_b( double dt ); |
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virtual void integrateStep( int calcPot, int calcStress ); |
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virtual void preMove( void ); |
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virtual void moveA( void ); |
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virtual void moveB( void ); |
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virtual void constrainA( void ); |
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virtual void constrainB( void ); |
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void checkConstraints( void ); |
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void rotate( int axes1, int axes2, double angle, double j[3], |
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double A[3][3] ); |
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ForceFields* myFF; |
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SimInfo *entry_plug; // all the info we'll ever need |
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int c_natoms; /* the number of atoms */ |
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Atom **c_atoms; /* array of atom pointers */ |
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SRI **c_sr_interactions; /* array of SRI pointers */ |
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int c_n_SRI; /* the number of short range interactions */ |
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SimInfo *info; // all the info we'll ever need |
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int nAtoms; /* the number of atoms */ |
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int oldAtoms; |
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Atom **atoms; /* array of atom pointers */ |
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Molecule* molecules; |
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int nMols; |
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int c_is_constrained; /*boolean to know whether the systems contains |
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constraints. */ |
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int c_n_constrained; /*counter for number of constraints */ |
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int *c_constrained_i; /* the i of a constraint pair */ |
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int *c_constrained_j; /* the j of a constraint pair */ |
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double *c_constrained_dsqr; /* the square of the constraint distance */ |
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double *c_mass; /* the array of masses */ |
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short is_first; /*boolean for the first time integrate is called */ |
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double c_box_x; |
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double c_box_y; |
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double c_box_z; |
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}; |
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int isConstrained; // boolean to know whether the systems contains |
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// constraints. |
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int nConstrained; // counter for number of constraints |
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int *constrainedA; // the i of a constraint pair |
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int *constrainedB; // the j of a constraint pair |
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double *constrainedDsqr; // the square of the constraint distance |
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int* moving; // tells whether we are moving atom i |
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int* moved; // tells whether we have moved atom i |
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double* prePos; // pre constrained positions |
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class Symplectic : public Integrator { |
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short isFirst; /*boolean for the first time integrate is called */ |
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Symplectic( SimInfo* the_entry_plug, ForceFields* the_ff ); |
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~Symplectic(); |
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double dt; |
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double dt2; |
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const double eConvert = 4.184e-4; // converts kcal/mol -> amu*A^2/fs^2 |
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const int maxIteration = 300; |
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const double tol = 1.0e-6; |
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void integrate( void ); |
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double* pos; |
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double* vel; |
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double* frc; |
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double* trq; |
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double* Amat; |
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private: |
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void rotate( int axes1, int axes2, double angle, double j[3], |
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double A[3][3] ); |
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Thermo *tStats; |
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StatWriter* statOut; |
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DumpWriter* dumpOut; |
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}; |
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SimInfo* entry_plug; |
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ForceFields* myFF; |
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int is_constrained; /*boolean to know whether the systems contains |
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constraints. */ |
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int n_constrained; /*counter for number of constraints */ |
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int *constrained_i; /* the i of a constraint pair */ |
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int *constrained_j; /* the j of a constraint pair */ |
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double *constrained_dsqr; /* the square of the constraint distance */ |
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double *mass; /* the array of masses */ |
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class NVT : public Integrator{ |
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short int isFirst; |
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NVT ( void ); |
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virtual ~NVT(); |
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SRI **srInteractions; /* array of SRI pointers */ |
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int nSRI; /* the number of short range interactions */ |
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protected: |
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virtual moveA( void ); |
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virtual moveB( void ); |
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}; |
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#endif |
