57 #define SPEC_NAME_LEN 64 58 #define SPEC_NAME_FMT "%63s" 86 modelWriteParameterizedModel);
89 static void calc_phi(
double const * epsilon,
100 double const * shift,
124 double const *
Rzero,
125 double const *
shift,
134 ep = exp(-(*C) * (r - *Rzero));
144 *phi = (*epsilon) * (-ep2 + 2.0 * ep) + *shift;
153 double const *
Rzero,
154 double const *
shift,
164 ep = exp(-(*C) * (r - *Rzero));
175 *phi = (*epsilon) * (-ep2 + 2.0 * ep) + *shift;
176 *dphi = 2.0 * (*epsilon) * (*C) * (-ep + ep2);
183 #undef KIM_LOGGER_FUNCTION_NAME 184 #define KIM_LOGGER_FUNCTION_NAME KIM_ModelCompute_LogEntry 185 #undef KIM_LOGGER_OBJECT_NAME 186 #define KIM_LOGGER_OBJECT_NAME modelCompute 203 int const * neighListOfCurrentPart;
207 int comp_particleEnergy;
221 double * particleEnergy;
228 cutoff = buffer->influenceDistance;
229 cutsq = &(buffer->cutsq);
230 epsilon = &(buffer->epsilon);
232 Rzero = &(buffer->Rzero);
233 shift = &(buffer->shift);
236 modelComputeArguments,
240 modelComputeArguments,
242 &particleSpeciesCodes)
244 modelComputeArguments,
246 &particleContributing)
248 modelComputeArguments,
252 modelComputeArguments,
256 modelComputeArguments,
260 modelComputeArguments,
269 comp_energy = (energy != NULL);
270 comp_force = (force != NULL);
271 comp_particleEnergy = (particleEnergy != NULL);
276 for (i = 0; i < *nParts; ++i)
278 if (
SPECCODE != particleSpeciesCodes[i])
280 LOG_ERROR(
"Unexpected species code detected");
287 if (comp_particleEnergy)
289 for (i = 0; i < *nParts; ++i) { particleEnergy[i] = 0.0; }
291 if (comp_energy) { *energy = 0.0; }
295 for (i = 0; i < *nParts; ++i)
297 for (k = 0; k <
DIM; ++k) { force[i * DIM + k] = 0.0; }
304 for (i = 0; i < *nParts; ++i)
306 if (particleContributing[i])
312 &neighListOfCurrentPart);
322 for (jj = 0; jj < numOfPartNeigh; ++jj)
324 j = neighListOfCurrentPart[jj];
328 for (k = 0; k <
DIM; ++k)
330 Rij[k] = coords[j * DIM + k] - coords[i * DIM + k];
332 Rsqij += Rij[k] * Rij[k];
343 calc_phi_dphi(epsilon, C, Rzero, shift, cutoff, R, &phi, &dphi);
351 calc_phi(epsilon, C, Rzero, shift, cutoff, R, &phi);
355 if (comp_particleEnergy) { particleEnergy[i] += 0.5 * phi; }
356 if (comp_energy) { *energy += 0.5 * phi; }
361 for (k = 0; k <
DIM; ++k)
364 += dEidr * Rij[k] / R;
366 -= dEidr * Rij[k] / R;
381 #undef KIM_LOGGER_FUNCTION_NAME 382 #define KIM_LOGGER_FUNCTION_NAME KIM_ModelDriverCreate_LogEntry 383 #undef KIM_LOGGER_OBJECT_NAME 384 #define KIM_LOGGER_OBJECT_NAME modelDriverCreate 393 int numberOfParameterFiles;
394 char const * paramfile1name;
421 (void) requestedLengthUnit;
422 (void) requestedEnergyUnit;
423 (void) requestedChargeUnit;
424 (void) requestedTemperatureUnit;
425 (void) requestedTimeUnit;
489 &numberOfParameterFiles);
491 if (numberOfParameterFiles != 1)
494 LOG_ERROR(
"Incorrect number of parameter files.");
498 modelDriverCreate, 0, ¶mfile1name);
501 LOG_ERROR(
"Unable to get parameter file name.");
506 fid = fopen(paramfile1name,
"r");
510 LOG_ERROR(
"Unable to open parameter file for Morse parameters");
528 LOG_ERROR(
"Unable to read all parameters");
535 modelDriverCreate, speciesName,
SPECCODE);
538 LOG_ERROR(
"Unable to set species code for Ar.");
558 sprintf(buffer->
speciesName,
"%s", speciesNameString);
586 "pair cutoff distance")
593 modelDriverCreate, 1, &(buffer->C),
"C",
"Morse C")
595 modelDriverCreate, 1, &(buffer->Rzero),
"Rzero",
"Morse Rzero");
598 LOG_ERROR(
"Unable to set parameter pointer(s).");
604 modelDriverCreate, &(buffer->influenceDistance));
609 &(buffer->modelWillNotRequestNeighborsOfNoncontributingParticles));
615 #undef KIM_LOGGER_FUNCTION_NAME 616 #define KIM_LOGGER_FUNCTION_NAME KIM_ModelRefresh_LogEntry 617 #undef KIM_LOGGER_OBJECT_NAME 618 #define KIM_LOGGER_OBJECT_NAME modelRefresh 638 buffer->shift = -buffer->shift;
643 &(buffer->influenceDistance));
648 &(buffer->modelWillNotRequestNeighborsOfNoncontributingParticles));
672 #undef KIM_LOGGER_FUNCTION_NAME 673 #define KIM_LOGGER_FUNCTION_NAME KIM_ModelComputeArgumentsCreate_LogEntry 674 #undef KIM_LOGGER_OBJECT_NAME 675 #define KIM_LOGGER_OBJECT_NAME modelComputeArgumentsCreate 686 modelComputeArgumentsCreate,
690 modelComputeArgumentsCreate,
694 modelComputeArgumentsCreate,
699 LOG_ERROR(
"Unable to set argument supportStatus.");
714 (void) modelComputeArgumentsDestroy;
722 #undef KIM_LOGGER_FUNCTION_NAME 723 #define KIM_LOGGER_FUNCTION_NAME KIM_ModelWriteParameterizedModel_LogEntry 724 #undef KIM_LOGGER_OBJECT_NAME 725 #define KIM_LOGGER_OBJECT_NAME modelWriteParameterizedModel 730 char stringBuffer[2048];
733 char const * modelName;
737 modelWriteParameterizedModel, (
void **) &buffer);
743 sprintf(stringBuffer,
"%s.params", modelName);
745 modelWriteParameterizedModel, stringBuffer);
746 sprintf(stringBuffer,
"%s/%s.params", path, modelName);
747 fp = fopen(stringBuffer,
"w");
750 LOG_ERROR(
"Unable to open parameter file for writing.");
754 fprintf(fp,
"%s\n", buffer->speciesName);
755 fprintf(fp,
"%20.10f\n", buffer->cutoff);
756 fprintf(fp,
"%20.10f\n", buffer->epsilon);
757 fprintf(fp,
"%20.10f\n", buffer->C);
758 fprintf(fp,
"%20.10f\n", buffer->Rzero);
static int write_parameterized_model(KIM_ModelWriteParameterizedModel const *const modelWriteParameterizedModel)
int KIM_ModelComputeArgumentsCreateFunction(KIM_ModelCompute const *const modelCompute, KIM_ModelComputeArgumentsCreate *const modelComputeArgumentsCreate)
Prototype for MODEL_ROUTINE_NAME::ComputeArgumentsCreate routine.
KIM_SupportStatus const KIM_SUPPORT_STATUS_optional
The standard optional status.
KIM_ComputeArgumentName const KIM_COMPUTE_ARGUMENT_NAME_coordinates
The standard coordinates argument.
int KIM_ModelDriverCreate_SetUnits(KIM_ModelDriverCreate *const modelDriverCreate, KIM_LengthUnit const lengthUnit, KIM_EnergyUnit const energyUnit, KIM_ChargeUnit const chargeUnit, KIM_TemperatureUnit const temperatureUnit, KIM_TimeUnit const timeUnit)
Set the Model's base unit values.
int KIM_ModelDriverCreate_SetRoutinePointer(KIM_ModelDriverCreate *const modelDriverCreate, KIM_ModelRoutineName const modelRoutineName, KIM_LanguageName const languageName, int const required, KIM_Function *const fptr)
Set the function pointer for the ModelRoutineName of interest.
KIM_ComputeArgumentName const KIM_COMPUTE_ARGUMENT_NAME_partialParticleEnergy
The standard partialParticleEnergy argument.
void() KIM_Function(void)
Generic function type.
void KIM_ModelDestroy_GetModelBufferPointer(KIM_ModelDestroy const *const modelDestroy, void **const ptr)
Get the Model's buffer pointer within the Model object.
recursive subroutine, public destroy(model_destroy_handle, ierr)
static int compute_arguments_destroy(KIM_ModelCompute const *const modelCompute, KIM_ModelComputeArgumentsDestroy *const modelComputeArgumentsDestroy)
KIM_LanguageName const KIM_LANGUAGE_NAME_c
The standard c language.
void KIM_ModelDriverCreate_GetNumberOfParameterFiles(KIM_ModelDriverCreate const *const modelDriverCreate, int *const numberOfParameterFiles)
Get the number of parameter files provided by the parameterized model.
int KIM_ModelDriverCreateFunction(KIM_ModelDriverCreate *const modelDriverCreate, KIM_LengthUnit const requestedLengthUnit, KIM_EnergyUnit const requestedEnergyUnit, KIM_ChargeUnit const requestedChargeUnit, KIM_TemperatureUnit const requestedTemperatureUnit, KIM_TimeUnit const requestedTimeUnit)
Prototype for MODEL_ROUTINE_NAME::Create routine.
KIM_ComputeArgumentName const KIM_COMPUTE_ARGUMENT_NAME_partialForces
The standard partialForces argument.
#define LOG_ERROR(message)
Convenience macro for ERROR Log entries with compile-time optimization.
char speciesName[SPEC_NAME_LEN]
int KIM_ModelComputeArguments_GetArgumentPointerDouble(KIM_ModelComputeArguments const *const modelComputeArguments, KIM_ComputeArgumentName const computeArgumentName, double **const ptr)
Get the data pointer for a ComputeArgumentName.
KIM_SpeciesName KIM_SpeciesName_FromString(char const *const str)
Create a SpeciesName object corresponding to the provided string. If the string does not match one of...
An Extensible Enumeration for the EnergyUnit's supported by the KIM API.
KIM_ModelRoutineName const KIM_MODEL_ROUTINE_NAME_ComputeArgumentsCreate
The standard ComputeArgumentsCreate routine.
KIM_ModelRoutineName const KIM_MODEL_ROUTINE_NAME_WriteParameterizedModel
The standard WriteParameterizedModel routine.
void KIM_ModelRefresh_GetModelBufferPointer(KIM_ModelRefresh const *const modelRefresh, void **const ptr)
Get the Model's buffer pointer within the Model object.
void KIM_ModelWriteParameterizedModel_SetParameterFileName(KIM_ModelWriteParameterizedModel const *const modelWriteParameterizedModel, char const *const fileName)
Set the file name for the next parameter file.
KIM_ComputeArgumentName const KIM_COMPUTE_ARGUMENT_NAME_particleSpeciesCodes
The standard particleSpeciesCodes argument.
KIM_ModelRoutineName const KIM_MODEL_ROUTINE_NAME_Compute
The standard Compute routine.
static void calc_phi_dphi(double const *epsilon, double const *C, double const *Rzero, double const *shift, double const cutoff, double const r, double *phi, double *dphi)
void KIM_ModelWriteParameterizedModel_GetModelBufferPointer(KIM_ModelWriteParameterizedModel const *const modelWriteParameterizedModel, void **const ptr)
Get the Model's buffer pointer within the Model object.
An Extensible Enumeration for the LengthUnit's supported by the KIM API.
recursive subroutine, public refresh(model_refresh_handle, ierr)
struct KIM_ModelCompute KIM_ModelCompute
Forward declaration.
An Extensible Enumeration for the ChargeUnit's supported by the KIM API.
KIM_TemperatureUnit const KIM_TEMPERATURE_UNIT_unused
Indicates that a TemperatureUnit is not used.
void KIM_ModelRefresh_SetInfluenceDistancePointer(KIM_ModelRefresh *const modelRefresh, double const *const influenceDistance)
Set the Model's influence distance data pointer.
struct KIM_ModelComputeArgumentsCreate KIM_ModelComputeArgumentsCreate
Forward declaration.
ChargeUnit const C
The standard Coulomb unit of charge.
void KIM_ModelDriverCreate_SetInfluenceDistancePointer(KIM_ModelDriverCreate *const modelDriverCreate, double const *const influenceDistance)
Set the Model's influence distance data pointer.
struct KIM_ModelDestroy KIM_ModelDestroy
Forward declaration.
KIM_TimeUnit const KIM_TIME_UNIT_unused
Indicates that a TimeUnit is not used.
static int refresh_routine(KIM_ModelRefresh *const modelRefresh)
int KIM_ModelComputeArgumentsDestroyFunction(KIM_ModelCompute const *const modelCompute, KIM_ModelComputeArgumentsDestroy *const modelComputeArgumentsDestroy)
Prototype for MODEL_ROUTINE_NAME::ComputeArgumentsDestroy routine.
KIM_ModelRoutineName const KIM_MODEL_ROUTINE_NAME_Destroy
The standard Destroy routine.
ComputeArgumentName const particleContributing
The standard particleContributing argument.
int KIM_ModelComputeArgumentsCreate_SetArgumentSupportStatus(KIM_ModelComputeArgumentsCreate *const modelComputeArgumentsCreate, KIM_ComputeArgumentName const computeArgumentName, KIM_SupportStatus const supportStatus)
Set the SupportStatus of a ComputeArgumentName.
void KIM_ModelCompute_GetModelBufferPointer(KIM_ModelCompute const *const modelCompute, void **const ptr)
Get the Model's buffer pointer within the Model object.
int KIM_ModelDriverCreate_GetParameterFileName(KIM_ModelDriverCreate const *const modelDriverCreate, int const index, char const **const parameterFileName)
Get a particular parameter file name.
int KIM_ModelWriteParameterizedModelFunction(KIM_ModelWriteParameterizedModel const *const modelWriteParameterizedModel)
Prototype for MODEL_ROUTINE_NAME::WriteParameterizedModel routine.
static int compute_routine(KIM_ModelCompute const *const modelCompute, KIM_ModelComputeArguments const *const modelComputeArguments)
int model_driver_create(KIM_ModelDriverCreate *const modelDriverCreate, KIM_LengthUnit const requestedLengthUnit, KIM_EnergyUnit const requestedEnergyUnit, KIM_ChargeUnit const requestedChargeUnit, KIM_TemperatureUnit const requestedTemperatureUnit, KIM_TimeUnit const requestedTimeUnit)
KIM_ComputeArgumentName const KIM_COMPUTE_ARGUMENT_NAME_numberOfParticles
The standard numberOfParticles argument.
An Extensible Enumeration for the TimeUnit's supported by the KIM API.
int KIM_ModelDriverCreate_SetSpeciesCode(KIM_ModelDriverCreate *const modelDriverCreate, KIM_SpeciesName const speciesName, int const code)
Set integer code for supported SpeciesName.
int KIM_ModelDriverCreate_SetParameterPointerDouble(KIM_ModelDriverCreate *const modelDriverCreate, int const extent, double *const ptr, char const *const name, char const *const description)
Set the next parameter data pointer to be provided by the model.
KIM_ModelRoutineName const KIM_MODEL_ROUTINE_NAME_ComputeArgumentsDestroy
The standard ComputeArgumentsDestroy routine.
static int compute_arguments_create(KIM_ModelCompute const *const modelCompute, KIM_ModelComputeArgumentsCreate *const modelComputeArgumentsCreate)
struct KIM_ModelComputeArgumentsDestroy KIM_ModelComputeArgumentsDestroy
Forward declaration.
static void calc_phi(double const *epsilon, double const *C, double const *Rzero, double const *shift, double const cutoff, double const r, double *phi)
struct KIM_ModelRefresh KIM_ModelRefresh
Forward declaration.
int KIM_ModelComputeArguments_GetNeighborList(KIM_ModelComputeArguments const *const modelComputeArguments, int const neighborListIndex, int const particleNumber, int *const numberOfNeighbors, int const **const neighborsOfParticle)
Get the neighbor list for a particle of interest corresponding to a particular neighbor list cutoff d...
KIM_EnergyUnit const KIM_ENERGY_UNIT_eV
The standard electronvolt unit of energy.
int modelWillNotRequestNeighborsOfNoncontributingParticles
void KIM_ModelRefresh_SetNeighborListPointers(KIM_ModelRefresh *const modelRefresh, int const numberOfNeighborLists, double const *const cutoffs, int const *const modelWillNotRequestNeighborsOfNoncontributingParticles)
Set the Model's neighbor list data pointers.
KIM_ChargeUnit const KIM_CHARGE_UNIT_unused
Indicates that a ChargeUnit is not used.
ComputeArgumentName const particleSpeciesCodes
The standard particleSpeciesCodes argument.
void KIM_ModelWriteParameterizedModel_GetModelName(KIM_ModelWriteParameterizedModel const *const modelWriteParameterizedModel, char const **const modelName)
Get the name of the new parameterized model.
int KIM_ModelComputeFunction(KIM_ModelCompute const *const modelCompute, KIM_ModelComputeArguments const *const modelComputeArguments)
Prototype for MODEL_ROUTINE_NAME::Compute routine.
int KIM_ModelRefreshFunction(KIM_ModelRefresh *const modelRefresh)
Prototype for MODEL_ROUTINE_NAME::Refresh routine.
struct KIM_ModelWriteParameterizedModel KIM_ModelWriteParameterizedModel
Forward declaration.
KIM_ComputeArgumentName const KIM_COMPUTE_ARGUMENT_NAME_partialEnergy
The standard partialEnergy argument.
int KIM_ModelDestroyFunction(KIM_ModelDestroy *const modelDestroy)
Prototype for MODEL_ROUTINE_NAME::Destroy routine.
An Extensible Enumeration for the TemperatureUnit's supported by the KIM API.
void KIM_ModelDriverCreate_SetModelBufferPointer(KIM_ModelDriverCreate *const modelDriverCreate, void *const ptr)
Set the Model's buffer pointer within the Model object.
KIM_ModelRoutineName const KIM_MODEL_ROUTINE_NAME_Refresh
The standard Refresh routine.
int KIM_ModelDriverCreate_SetModelNumbering(KIM_ModelDriverCreate *const modelDriverCreate, KIM_Numbering const numbering)
Set the Model's particle Numbering.
struct KIM_ModelDriverCreate KIM_ModelDriverCreate
Forward declaration.
struct KIM_ModelComputeArguments KIM_ModelComputeArguments
Forward declaration.
KIM_LengthUnit const KIM_LENGTH_UNIT_A
The standard angstrom unit of length.
void KIM_ModelWriteParameterizedModel_GetPath(KIM_ModelWriteParameterizedModel const *const modelWriteParameterizedModel, char const **const path)
Get the directory path where the parameterized model files should be written.
void KIM_ModelDriverCreate_SetNeighborListPointers(KIM_ModelDriverCreate *const modelDriverCreate, int const numberOfNeighborLists, double const *const cutoffs, int const *const modelWillNotRequestNeighborsOfNoncontributingParticles)
Set the Model's neighbor list data pointers.
static int destroy_routine(KIM_ModelDestroy *const modelDestroy)
An Extensible Enumeration for the SpeciesName's supported by the KIM API.
KIM_Numbering const KIM_NUMBERING_zeroBased
The standard zeroBased numbering.
int KIM_ModelComputeArguments_GetArgumentPointerInteger(KIM_ModelComputeArguments const *const modelComputeArguments, KIM_ComputeArgumentName const computeArgumentName, int **const ptr)
Get the data pointer for a ComputeArgumentName.
KIM_ComputeArgumentName const KIM_COMPUTE_ARGUMENT_NAME_particleContributing
The standard particleContributing argument.