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fix_vector.cpp
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Tue, Feb 18, 23:12

fix_vector.cpp
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/* ----------------------------------------------------------------------
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.
------------------------------------------------------------------------- */
#include <string.h>
#include "fix_vector.h"
#include "update.h"
#include "force.h"
#include "modify.h"
#include "compute.h"
#include "group.h"
#include "input.h"
#include "variable.h"
#include "memory.h"
#include "error.h"
using namespace LAMMPS_NS;
using namespace FixConst;
enum{COMPUTE,FIX,VARIABLE};
enum{ONE,RUNNING,WINDOW};
enum{SCALAR,VECTOR};
#define INVOKED_SCALAR 1
#define INVOKED_VECTOR 2
#define INVOKED_ARRAY 4
/* ---------------------------------------------------------------------- */
FixVector::FixVector(LAMMPS *lmp, int narg, char **arg) :
Fix(lmp, narg, arg),
nvalues(0), which(NULL), argindex(NULL), value2index(NULL), ids(NULL), vector(NULL), array(NULL)
{
if (narg < 5) error->all(FLERR,"Illegal fix vector command");
nevery = force->inumeric(FLERR,arg[3]);
if (nevery <= 0) error->all(FLERR,"Illegal fix vector command");
nvalues = narg-4;
which = new int[nvalues];
argindex = new int[nvalues];
value2index = new int[nvalues];
ids = new char*[nvalues];
nvalues = 0;
for (int iarg = 4; iarg < narg; iarg++) {
if (arg[iarg][0] == 'c') which[nvalues] = COMPUTE;
else if (arg[iarg][0] == 'f') which[nvalues] = FIX;
else if (arg[iarg][0] == 'v') which[nvalues] = VARIABLE;
else error->all(FLERR,"Illegal fix vector command");
int n = strlen(arg[iarg]);
char *suffix = new char[n];
strcpy(suffix,&arg[iarg][2]);
char *ptr = strchr(suffix,'[');
if (ptr) {
if (suffix[strlen(suffix)-1] != ']')
error->all(FLERR,"Illegal fix vector command");
argindex[nvalues] = atoi(ptr+1);
*ptr = '\0';
} else argindex[nvalues] = 0;
n = strlen(suffix) + 1;
ids[nvalues] = new char[n];
strcpy(ids[nvalues],suffix);
delete [] suffix;
nvalues++;
}
// setup and error check
// for fix inputs, check that fix frequency is acceptable
for (int i = 0; i < nvalues; i++) {
if (which[i] == COMPUTE) {
int icompute = modify->find_compute(ids[i]);
if (icompute < 0)
error->all(FLERR,"Compute ID for fix vector does not exist");
if (argindex[i] == 0 && modify->compute[icompute]->scalar_flag == 0)
error->all(FLERR,"Fix vector compute does not calculate a scalar");
if (argindex[i] && modify->compute[icompute]->vector_flag == 0)
error->all(FLERR,"Fix vector compute does not calculate a vector");
if (argindex[i] && argindex[i] > modify->compute[icompute]->size_vector)
error->all(FLERR,
"Fix vector compute vector is accessed out-of-range");
} else if (which[i] == FIX) {
int ifix = modify->find_fix(ids[i]);
if (ifix < 0)
error->all(FLERR,"Fix ID for fix vector does not exist");
if (argindex[i] == 0 && modify->fix[ifix]->scalar_flag == 0)
error->all(FLERR,"Fix vector fix does not calculate a scalar");
if (argindex[i] && modify->fix[ifix]->vector_flag == 0)
error->all(FLERR,"Fix vector fix does not calculate a vector");
if (argindex[i] && argindex[i] > modify->fix[ifix]->size_vector)
error->all(FLERR,"Fix vector fix vector is accessed out-of-range");
if (nevery % modify->fix[ifix]->global_freq)
error->all(FLERR,
"Fix for fix vector not computed at compatible time");
} else if (which[i] == VARIABLE) {
int ivariable = input->variable->find(ids[i]);
if (ivariable < 0)
error->all(FLERR,"Variable name for fix vector does not exist");
if (argindex[i] == 0 && input->variable->equalstyle(ivariable) == 0)
error->all(FLERR,"Fix vector variable is not equal-style variable");
if (argindex[i] && input->variable->vectorstyle(ivariable) == 0)
error->all(FLERR,"Fix vector variable is not vector-style variable");
}
}
// this fix produces either a global vector or array
// intensive/extensive flags set by compute,fix,variable that produces value
int value,finalvalue;
for (int i = 0; i < nvalues; i++) {
if (which[i] == COMPUTE) {
Compute *compute = modify->compute[modify->find_compute(ids[i])];
if (argindex[0] == 0) value = compute->extscalar;
else if (compute->extvector >= 0) value = compute->extvector;
else value = compute->extlist[argindex[0]-1];
} else if (which[i] == FIX) {
Fix *fix = modify->fix[modify->find_fix(ids[i])];
if (argindex[i] == 0) value = fix->extvector;
else value = fix->extarray;
} else if (which[i] == VARIABLE) value = 0;
if (i == 0) finalvalue = value;
else if (value != finalvalue)
error->all(FLERR,"Fix vector cannot set output array "
"intensive/extensive from these inputs");
}
if (nvalues == 1) {
vector_flag = 1;
extvector = finalvalue;
} else {
array_flag = 1;
size_array_cols = nvalues;
extarray = finalvalue;
}
global_freq = nevery;
time_depend = 1;
// ncount = current size of vector or array
vector = NULL;
array = NULL;
ncount = ncountmax = 0;
if (nvalues == 1) size_vector = 0;
else size_array_rows = 0;
// nextstep = next step on which end_of_step does something
// add nextstep to all computes that store invocation times
// since don't know a priori which are invoked by this fix
// once in end_of_step() can set timestep for ones actually invoked
nextstep = (update->ntimestep/nevery)*nevery;
if (nextstep < update->ntimestep) nextstep += nevery;
modify->addstep_compute_all(nextstep);
// initialstep = first step the vector/array will store values for
initialstep = nextstep;
}
/* ---------------------------------------------------------------------- */
FixVector::~FixVector()
{
delete [] which;
delete [] argindex;
delete [] value2index;
for (int i = 0; i < nvalues; i++) delete [] ids[i];
delete [] ids;
memory->destroy(vector);
memory->destroy(array);
}
/* ---------------------------------------------------------------------- */
int FixVector::setmask()
{
int mask = 0;
mask |= END_OF_STEP;
return mask;
}
/* ---------------------------------------------------------------------- */
void FixVector::init()
{
// set current indices for all computes,fixes,variables
for (int i = 0; i < nvalues; i++) {
if (which[i] == COMPUTE) {
int icompute = modify->find_compute(ids[i]);
if (icompute < 0)
error->all(FLERR,"Compute ID for fix vector does not exist");
value2index[i] = icompute;
} else if (which[i] == FIX) {
int ifix = modify->find_fix(ids[i]);
if (ifix < 0)
error->all(FLERR,"Fix ID for fix vector does not exist");
value2index[i] = ifix;
} else if (which[i] == VARIABLE) {
int ivariable = input->variable->find(ids[i]);
if (ivariable < 0)
error->all(FLERR,"Variable name for fix vector does not exist");
value2index[i] = ivariable;
}
}
// reallocate vector or array for accumulated size at end of run
// use endstep to allow for subsequent runs with "pre no"
// nsize = # of entries from initialstep to finalstep
bigint finalstep = update->endstep/nevery * nevery;
if (finalstep > update->endstep) finalstep -= nevery;
ncountmax = (finalstep-initialstep)/nevery + 1;
if (nvalues == 1) memory->grow(vector,ncountmax,"vector:vector");
else memory->grow(array,ncountmax,nvalues,"vector:array");
}
/* ----------------------------------------------------------------------
only does something if nvalid = current timestep
------------------------------------------------------------------------- */
void FixVector::setup(int vflag)
{
end_of_step();
}
/* ---------------------------------------------------------------------- */
void FixVector::end_of_step()
{
// skip if not step which requires doing something
if (update->ntimestep != nextstep) return;
if (ncount == ncountmax)
error->all(FLERR,"Overflow of allocated fix vector storage");
// accumulate results of computes,fixes,variables to local copy
// compute/fix/variable may invoke computes so wrap with clear/add
double *result;
if (nvalues == 1) result = &vector[ncount];
else result = array[ncount];
modify->clearstep_compute();
for (int i = 0; i < nvalues; i++) {
int m = value2index[i];
// invoke compute if not previously invoked
if (which[i] == COMPUTE) {
Compute *compute = modify->compute[m];
if (argindex[i] == 0) {
if (!(compute->invoked_flag & INVOKED_SCALAR)) {
compute->compute_scalar();
compute->invoked_flag |= INVOKED_SCALAR;
}
result[i] = compute->scalar;
} else {
if (!(compute->invoked_flag & INVOKED_VECTOR)) {
compute->compute_vector();
compute->invoked_flag |= INVOKED_VECTOR;
}
result[i] = compute->vector[argindex[i]-1];
}
// access fix fields, guaranteed to be ready
} else if (which[i] == FIX) {
if (argindex[i] == 0)
result[i] = modify->fix[m]->compute_scalar();
else
result[i] = modify->fix[m]->compute_vector(argindex[i]-1);
// evaluate equal-style or vector-style variable
} else if (which[i] == VARIABLE) {
if (argindex[i] == 0)
result[i] = input->variable->compute_equal(m);
else {
double *varvec;
int nvec = input->variable->compute_vector(m,&varvec);
int index = argindex[i];
if (nvec < index) result[i] = 0.0;
else result[i] = varvec[index-1];
}
}
}
// trigger computes on next needed step
nextstep += nevery;
modify->addstep_compute(nextstep);
// update size of vector or array
ncount++;
if (nvalues == 1) size_vector++;
else size_array_rows++;
}
/* ----------------------------------------------------------------------
return Ith vector value
------------------------------------------------------------------------- */
double FixVector::compute_vector(int i)
{
return vector[i];
}
/* ----------------------------------------------------------------------
return I,J array value
------------------------------------------------------------------------- */
double FixVector::compute_array(int i, int j)
{
return array[i][j];
}

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