/* -*- c++ -*- ---------------------------------------------------------- LAMMPS - Large-scale Atomic/Molecular Massively Parallel Simulator http://lammps.sandia.gov, Sandia National Laboratories Steve Plimpton, sjplimp@sandia.gov Copyright (2003) Sandia Corporation. Under the terms of Contract DE-AC04-94AL85000 with Sandia Corporation, the U.S. Government retains certain rights in this software. This software is distributed under the GNU General Public License. See the README file in the top-level LAMMPS directory. ------------------------------------------------------------------------- */ #ifdef DIHEDRAL_CLASS DihedralStyle(table/cut,DihedralTableCut) #else #ifndef LMP_DIHEDRAL_TABLE_CUT_H #define LMP_DIHEDRAL_TABLE_CUT_H #include <stdio.h> #include "dihedral.h" namespace LAMMPS_NS { class DihedralTableCut : public Dihedral { public: DihedralTableCut(class LAMMPS *); virtual ~DihedralTableCut(); virtual void compute(int, int); void settings(int, char **); void coeff(int, char **); void write_restart(FILE *); void read_restart(FILE *); void write_data(FILE *); double single(int type, int i1, int i2, int i3, int i4); protected: double *k1,*k2,*k3; double *phi1,*phi2,*phi3; double *aat_k,*aat_theta0_1,*aat_theta0_2; int *setflag_d; int *setflag_aat; void allocate(); int tabstyle,tablength; // double *phi0; <- equilibrium angles not supported char *checkU_fname; char *checkF_fname; struct Table { int ninput; //double phi0; <-equilibrium angles not supported int f_unspecified; // boolean (but MPI does not like type "bool") int use_degrees; // boolean (but MPI does not like type "bool") double *phifile,*efile,*ffile; double *e2file,*f2file; double delta,invdelta,deltasq6; double *phi,*e,*de,*f,*df,*e2,*f2; }; int ntables; Table *tables; int *tabindex; void null_table(Table *); void free_table(Table *); void read_table(Table *, char *, char *); void bcast_table(Table *); void spline_table(Table *); void compute_table(Table *); void param_extract(Table *, char *); // -------------------------------------------- // ------------ inline functions -------------- // -------------------------------------------- // ----------------------------------------------------------- // uf_lookup() // quickly calculate the potential u and force f at angle x, // using the internal tables tb->e and tb->f (evenly spaced) // ----------------------------------------------------------- enum{LINEAR,SPLINE}; inline void uf_lookup(int type, double x, double &u, double &f) { Table *tb = &tables[tabindex[type]]; double x_over_delta = x*tb->invdelta; int i = static_cast<int> (x_over_delta); double a; double b = x_over_delta - i; // Apply periodic boundary conditions to indices i and i+1 if (i >= tablength) i -= tablength; int ip1 = i+1; if (ip1 >= tablength) ip1 -= tablength; switch(tabstyle) { case LINEAR: u = tb->e[i] + b * tb->de[i]; f = -(tb->f[i] + b * tb->df[i]); //<--works even if tb->f_unspecified==true break; case SPLINE: a = 1.0 - b; u = a * tb->e[i] + b * tb->e[ip1] + ((a*a*a-a)*tb->e2[i] + (b*b*b-b)*tb->e2[ip1]) * tb->deltasq6; if (tb->f_unspecified) //Formula below taken from equation3.3.5 of "numerical recipes in c" //"f"=-derivative of e with respect to x (or "phi" in this case) f = -((tb->e[i]-tb->e[ip1])*tb->invdelta + ((3.0*a*a-1.0)*tb->e2[i]+(1.0-3.0*b*b)*tb->e2[ip1])*tb->delta/6.0); else f = -(a * tb->f[i] + b * tb->f[ip1] + ((a*a*a-a)*tb->f2[i] + (b*b*b-b)*tb->f2[ip1]) * tb->deltasq6); break; } // switch(tabstyle) } // uf_lookup() // ---------------------------------------------------------- // u_lookup() // quickly calculate the potential u at angle x using tb->e //----------------------------------------------------------- inline void u_lookup(int type, double x, double &u) { Table *tb = &tables[tabindex[type]]; int N = tablength; // i = static_cast<int> ((x - tb->lo) * tb->invdelta); <-general version double x_over_delta = x*tb->invdelta; int i = static_cast<int> (x_over_delta); double b = x_over_delta - i; // Apply periodic boundary conditions to indices i and i+1 if (i >= N) i -= N; int ip1 = i+1; if (ip1 >= N) ip1 -= N; if (tabstyle == LINEAR) { u = tb->e[i] + b * tb->de[i]; } else if (tabstyle == SPLINE) { double a = 1.0 - b; u = a * tb->e[i] + b * tb->e[ip1] + ((a*a*a-a)*tb->e2[i] + (b*b*b-b)*tb->e2[ip1]) * tb->deltasq6; } } // u_lookup() }; } #endif #endif /* ERROR/WARNING messages: W: Dihedral problem: %d %ld %d %d %d %d Conformation of the 4 listed dihedral atoms is extreme; you may want to check your simulation geometry. E: Incorrect args for dihedral coefficients Self-explanatory. Check the input script or data file. */