MD-Bench/src/thermo.c

/*
 * =======================================================================================
 *
 *      Author:   Jan Eitzinger (je), jan.eitzinger@fau.de
 *      Copyright (c) 2020 RRZE, University Erlangen-Nuremberg
 *
 *      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.
 *
 * =======================================================================================
 */
#include <stdlib.h>
#include <stdio.h>
#include <math.h>

#include <thermo.h>

static int *steparr;
static double *tmparr;
static double *engarr;
static double *prsarr;
static double mvv2e;
static int dof_boltz;
static double t_scale;
static double p_scale;
static double e_scale;
static double t_act;
static double p_act;
static double e_act;
static int mstat;

/* exported subroutines */
void setupThermo(Parameter *param, int natoms)
{
    int maxstat = param->ntimes / param->nstat + 2;

    steparr = (int*) malloc(maxstat * sizeof(int));
    tmparr = (double*) malloc(maxstat * sizeof(double));
    engarr = (double*) malloc(maxstat * sizeof(double));
    prsarr = (double*) malloc(maxstat * sizeof(double));

    mvv2e = 1.0;
    dof_boltz = (natoms * 3 - 3);
    t_scale = mvv2e / dof_boltz;
    p_scale = 1.0 / 3 / param->xprd / param->yprd / param->zprd;
    e_scale = 0.5;

    printf("step\ttemp\t\tpressure\n");
}

void computeThermo(int iflag, Parameter *param, Atom *atom)
{
    double t = 0.0, p;
    double* vx = atom->vx;
    double* vy = atom->vy;
    double* vz = atom->vz;

    for(int i = 0; i < atom->Nlocal; i++) {
        t += (vx[i] * vx[i] + vy[i] * vy[i] + vz[i] * vz[i]) * param->mass;
    }

    t = t * t_scale;
    p = (t * dof_boltz) * p_scale;

    int istep = iflag;

    if(iflag == -1){
        istep = param->ntimes;
    }
    if(iflag == 0){
        mstat = 0;
    }

    steparr[mstat] = istep;
    tmparr[mstat] = t;
    prsarr[mstat] = p;
    mstat++;
    fprintf(stdout, "%i\t%e\t%e\n", istep, t, p);
}

void adjustThermo(Parameter *param, Atom *atom)
{
    /* zero center-of-mass motion */
    double vxtot = 0.0; double vytot = 0.0; double vztot = 0.0;
    double* vx = atom->vx; double* vy = atom->vy; double* vz = atom->vz;

    for(int i = 0; i < atom->Nlocal; i++) {
        vxtot += vx[i];
        vytot += vy[i];
        vztot += vz[i];
    }

    vxtot = vxtot / atom->Natoms;
    vytot = vytot / atom->Natoms;
    vztot = vztot / atom->Natoms;

    for(int i = 0; i < atom->Nlocal; i++) {
        vx[i] -= vxtot;
        vy[i] -= vytot;
        vz[i] -= vztot;
    }

    t_act = 0;
    double t = 0.0;

    for(int i = 0; i < atom->Nlocal; i++) {
        t += (vx[i] * vx[i] + vy[i] * vy[i] + vz[i] * vz[i]) * param->mass;
    }

    t *= t_scale;
    double factor = sqrt(param->temp / t);

    for(int i = 0; i < atom->Nlocal; i++) {
        vx[i] *= factor;
        vy[i] *= factor;
        vz[i] *= factor;
    }
}