void TimeIntegrand_Add2TimesTimeDeriv( void* timeIntegrand, Variable* timeDerivVariable ) {
TimeIntegrand* self = (TimeIntegrand*)timeIntegrand;
Variable* variable = self->variable;
double* timeDerivPtr;
double* timeDeriv;
Index component_I;
Index componentCount = *variable->dataTypeCounts;
Index array_I;
Index arrayCount;
timeDeriv = Memory_Alloc_Array( double, componentCount, "Time Deriv" );
memset( timeDeriv, 0, componentCount * sizeof( double ) );
/* Update Variables */
Variable_Update( variable );
Variable_Update( timeDerivVariable );
arrayCount = variable->arraySize;
for ( array_I = 0 ; array_I < arrayCount ; array_I++ ) {
TimeIntegrand_CalculateTimeDeriv( self, array_I, timeDeriv );
timeDerivPtr = Variable_GetPtrDouble( timeDerivVariable, array_I );
for ( component_I = 0 ; component_I < componentCount ; component_I++ ) {
timeDerivPtr[ component_I ] += 2.0 * timeDeriv[ component_I ];
}
}
Memory_Free( timeDeriv );
}
/* Based on least squares proceedure described in
* Eric W. Weisstein. "Least Squares Fitting." From MathWorld--A Wolfram Web Resource.
* http://mathworld.wolfram.com/LeastSquaresFitting.html */
void LinearRegression_Calculate( void* linearRegression ) {
LinearRegression* self = (LinearRegression*)linearRegression;
Variable* xVariable = self->xVariable;
Variable* yVariable = self->yVariable;
Index array_I;
Index arraySize;
double xMean = 0.0;
double yMean = 0.0;
double xValue;
double yValue;
double SS_xx = 0.0;
double SS_yy = 0.0;
double SS_xy = 0.0;
double slope;
double errorVariance;
Variable_Update( xVariable );
Variable_Update( yVariable );
arraySize = self->xVariable->arraySize;
assert( arraySize == yVariable->arraySize );
for ( array_I = 0 ; array_I < arraySize ; array_I++ ) {
xValue = Variable_GetValueDouble( xVariable, array_I );
yValue = Variable_GetValueDouble( yVariable, array_I );
xMean += xValue;
yMean += yValue;
/* Sum intermediate values - Equations 17, 19, 21 */
SS_xx += xValue * xValue;
SS_yy += yValue * yValue;
SS_xy += xValue * yValue;
}
/* Divide by array size to obtain true mean */
xMean /= (double) arraySize;
yMean /= (double) arraySize;
self->xMean = xMean;
self->yMean = yMean;
/* Calculate intermediate values - Equations 17, 19, 21 */
SS_xx -= (double) arraySize * xMean * xMean;
SS_yy -= (double) arraySize * yMean * yMean;
SS_xy -= (double) arraySize * xMean * yMean;
/* Finalise calculation coefficients of linear equations y ~= slope * x + interceptor - Equation 27 - 28 */
self->slope = slope = SS_xy / SS_xx;
self->interceptor = yMean - slope * xMean;
/* Calculate the correlation coefficient r^2 - Equation 29 */
self->correlationCoefficient = SS_xy * SS_xy / ( SS_xx * SS_yy );
/* Calculate Standard errors - Equations 33-35 */
errorVariance = sqrt( ( SS_yy - slope * SS_xy ) / (double) (arraySize - 2 ) );
self->interceptorStandardError = errorVariance * sqrt( 1.0/(double)arraySize + xMean*xMean/SS_xx );
self->slopeStandardError = errorVariance / sqrt( SS_xx );
}
void Variable_SetValueFromDictionary( void* _variable, Index index, Dictionary* dictionary ) {
Variable* variable = (Variable*)_variable;
Variable_Update( variable );
/* Assign variable from dictionary according to data type */
switch (variable->dataTypes[0]) {
case Variable_DataType_Char:
Variable_SetValueChar( variable, index, Dictionary_GetUnsignedInt( dictionary, variable->name ));
break;
case Variable_DataType_Short:
Variable_SetValueShort( variable, index, Dictionary_GetUnsignedInt( dictionary, variable->name ));
break;
case Variable_DataType_Int:
Variable_SetValueInt( variable, index, Dictionary_GetInt( dictionary, (Dictionary_Entry_Key)variable->name ) );
break;
case Variable_DataType_Float:
Variable_SetValueFloat( variable, index, Dictionary_GetDouble( dictionary, variable->name ));
break;
case Variable_DataType_Double:
Variable_SetValueDouble( variable, index, Dictionary_GetDouble( dictionary, variable->name ));
break;
default: {
Journal_Printf(
Journal_MyStream( Error_Type, variable ),
"In func %s: Unable to set value of %s from dictionary.",
__func__,
variable->name );
}
}
}
void _SwarmVariable_Initialise( void* swarmVariable, void* data ) {
SwarmVariable* self = (SwarmVariable*)swarmVariable;
if ( self->variable ) {
Variable_Update( self->variable );
Stg_Component_Initialise( self->variable, data, False );
}
}
/* +++ Virtual Functions +++ */
void TimeIntegrand_FirstOrder( void* timeIntegrand, Variable* startValue, double dt ) {
TimeIntegrand* self = (TimeIntegrand*)timeIntegrand;
Variable* variable = self->variable;
double* arrayDataPtr;
double* startDataPtr;
double** timeDeriv;
Index component_I;
Index componentCount = *variable->dataTypeCounts;
Index array_I;
Index arrayCount;
Bool successFlag = False;
Stream* errorStream = Journal_Register( Error_Type, (Name)self->type );
Journal_DPrintf( self->debug, "In func %s for %s '%s'\n", __func__, self->type, self->name );
/* Update Variables */
Variable_Update( variable );
Variable_Update( startValue );
arrayCount = variable->arraySize;
timeDeriv = Memory_Alloc_2DArray( double, arrayCount, componentCount, (Name)"Time Deriv" );
for( array_I = 0; array_I < arrayCount; array_I++ ) {
successFlag = TimeIntegrand_CalculateTimeDeriv( self, array_I, timeDeriv[array_I] );
if(!successFlag) {
successFlag = TimeIntegrand_CalculateTimeDeriv( self, array_I, timeDeriv[array_I] );
}
Journal_Firewall( True == successFlag, errorStream,
"Error - in %s(), for TimeIntegrand \"%s\" of type %s: When trying to find time "
"deriv for item %u in step %u, *failed*.\n",
__func__, self->name, self->type, array_I, 1 );
}
for ( array_I = 0 ; array_I < arrayCount ; array_I++ ) {
arrayDataPtr = Variable_GetPtrDouble( variable, array_I );
startDataPtr = Variable_GetPtrDouble( startValue, array_I );
for ( component_I = 0 ; component_I < componentCount ; component_I++ ) {
arrayDataPtr[ component_I ] = startDataPtr[ component_I ] + dt * timeDeriv[array_I][ component_I ];
}
TimeIntegrand_Intermediate( self, array_I );
}
Memory_Free( timeDeriv );
}
void TimeIntegrand_FourthOrderFinalStep( void* timeIntegrand, Variable* startData, Variable* timeDerivVariable, double dt ) {
TimeIntegrand* self = (TimeIntegrand*)timeIntegrand;
Variable* variable = self->variable;
double* k4;
double* k1_2k2_2k3;
double* startPtr;
double* arrayPtr;
Index component_I;
Index componentCount = *variable->dataTypeCounts;
Index array_I;
Index arrayCount;
k4 = Memory_Alloc_Array( double, componentCount, "k4 Time Deriv" );
memset( k4, 0, componentCount * sizeof( double ) );
/* Update Variables */
Variable_Update( variable );
Variable_Update( startData );
Variable_Update( timeDerivVariable );
arrayCount = variable->arraySize;
for ( array_I = 0 ; array_I < arrayCount ; array_I++ ) {
TimeIntegrand_CalculateTimeDeriv( self, array_I, k4 );
k1_2k2_2k3 = Variable_GetPtrDouble( timeDerivVariable, array_I );
arrayPtr = Variable_GetPtrDouble( variable, array_I );
startPtr = Variable_GetPtrDouble( startData, array_I );
for ( component_I = 0 ; component_I < componentCount ; component_I++ ) {
arrayPtr[ component_I ] = startPtr[ component_I ] + dt/6.0 * ( k4[ component_I ] + k1_2k2_2k3[ component_I ] );
}
TimeIntegrand_Intermediate( self, array_I );
}
Memory_Free( k4 );
}
/* +++ Public Functions +++ */
void TimeIntegrand_StoreTimeDeriv( void* timeIntegrand, Variable* timeDeriv ) {
TimeIntegrand* self = (TimeIntegrand*)timeIntegrand;
double* arrayDataPtr;
Index array_I;
Index arrayCount;
/* Update Variable */
Variable_Update( timeDeriv );
arrayCount = timeDeriv->arraySize;
for ( array_I = 0 ; array_I < arrayCount ; array_I++ ) {
arrayDataPtr = Variable_GetPtrDouble( timeDeriv, array_I );
TimeIntegrand_CalculateTimeDeriv( self, array_I, arrayDataPtr );
}
}
Variable* Variable_NewFromOld( Variable* oldVariable, Name name, Bool copyValues ) {
Variable* self;
Index array_I;
SizeT dataOffsets[] = { 0 };
void* myPtr;
void* oldPtr;
Variable_Update( oldVariable );
self = Variable_New(
name,
self->context,
1,
dataOffsets,
oldVariable->dataTypes,
oldVariable->dataTypeCounts,
NULL,
0,
oldVariable->arraySizePtr,
oldVariable->arraySizeFunc,
NULL,
NULL );
self->allocateSelf = True;
self->arrayPtrPtr = &self->arrayPtr;
if ( oldVariable->isBuilt )
Stg_Component_Build( self, NULL, True );
if ( oldVariable->isInitialised )
Stg_Component_Initialise( self, NULL, True );
assert(self->offsetCount == 1);
if ( copyValues ) {
for ( array_I = 0 ; array_I < self->arraySize ; array_I++ ) {
myPtr = Variable_GetStructPtr( self, array_I );
oldPtr = Variable_GetStructPtr( oldVariable, array_I );
memcpy( myPtr, oldPtr, self->dataSizes[0] );
}
}
return self;
}
void _GALEDruckerPrager_UpdateDrawParameters( void* rheology ) {
GALEDruckerPrager* self = (GALEDruckerPrager*) rheology;
Particle_Index lParticle_I;
Particle_Index particleLocalCount;
StrainWeakening* strainWeakening = self->strainWeakening;
MaterialPoint* materialPoint;
double length;
double brightness;
double opacity;
double strainWeakeningRatio;
double localMaxStrainIncrement;
double localMeanStrainIncrement;
Particle_Index localFailed;
double globalMaxStrainIncrement;
double globalMeanStrainIncrement;
Particle_Index globalFailed;
double averagedGlobalMaxStrainIncrement = 0.0;
double oneOverGlobalMaxStrainIncrement;
double postFailureWeakeningIncrement;
int ierr; /* mpi error code */
/* Note : this function defines some drawing parameters (brightness, opacity, diameter) as
* functions of the strain weakening - this needs to be improved since most of the parameters
* that define this dependency are hard coded here. We need to have a more flexible way
* to construct the viz parameters as functions of material parameters */
/* We should only update the drawing parameters if the strain weakening is defined */
if (strainWeakening==NULL)
return;
localMaxStrainIncrement = 0.0;
localMeanStrainIncrement = 0.0;
localFailed = 0;
/* Update all variables */
Variable_Update( self->hasYieldedVariable->variable );
Variable_Update( self->brightness->variable );
Variable_Update( self->opacity->variable );
Variable_Update( self->diameter->variable );
Variable_Update( strainWeakening->postFailureWeakeningIncrement->variable );
particleLocalCount = self->hasYieldedVariable->variable->arraySize;
for ( lParticle_I = 0 ; lParticle_I < particleLocalCount ; lParticle_I++ ) {
if ( Variable_GetValueChar( self->hasYieldedVariable->variable, lParticle_I )) {
localFailed++;
postFailureWeakeningIncrement =
Variable_GetValueDouble( strainWeakening->postFailureWeakeningIncrement->variable, lParticle_I );
localMeanStrainIncrement += postFailureWeakeningIncrement;
if(localMaxStrainIncrement < postFailureWeakeningIncrement)
localMaxStrainIncrement = postFailureWeakeningIncrement;
}
}
ierr = MPI_Allreduce( &localMaxStrainIncrement, &globalMaxStrainIncrement, 1, MPI_DOUBLE, MPI_MAX, MPI_COMM_WORLD );
ierr = MPI_Allreduce( &localMeanStrainIncrement, &globalMeanStrainIncrement, 1, MPI_DOUBLE, MPI_SUM, MPI_COMM_WORLD );
ierr = MPI_Allreduce( &localFailed, &globalFailed, 1, MPI_INT, MPI_SUM, MPI_COMM_WORLD );
if(globalFailed == 0)
return;
globalMeanStrainIncrement /= (double) globalFailed;
averagedGlobalMaxStrainIncrement =
0.5 * averagedGlobalMaxStrainIncrement +
0.25 * globalMeanStrainIncrement +
0.25 * globalMaxStrainIncrement;
/* Let's simply assume that twice the mean is a good place to truncate these values */
oneOverGlobalMaxStrainIncrement = 1.0 / averagedGlobalMaxStrainIncrement;
for ( lParticle_I = 0 ; lParticle_I < particleLocalCount ; lParticle_I++ ) {
materialPoint = (MaterialPoint*)Swarm_ParticleAt( strainWeakening->swarm, lParticle_I );
if ( Variable_GetValueChar( self->hasYieldedVariable->variable, lParticle_I ) == False ||
StrainWeakening_GetPostFailureWeakening( strainWeakening, materialPoint ) < 0.0 )
{
Variable_SetValueFloat( self->brightness->variable, lParticle_I, 0.0 );
Variable_SetValueFloat( self->opacity->variable, lParticle_I, 0.0 );
Variable_SetValueFloat( self->diameter->variable, lParticle_I, 0.0 );
continue;
}
postFailureWeakeningIncrement =
Variable_GetValueDouble( strainWeakening->postFailureWeakeningIncrement->variable, lParticle_I );
strainWeakeningRatio = StrainWeakening_CalcRatio( strainWeakening, materialPoint );
length = 0.001 + 0.003 * strainWeakeningRatio;
brightness = strainWeakeningRatio * postFailureWeakeningIncrement * oneOverGlobalMaxStrainIncrement;
opacity = 0.5 * brightness;
if( brightness > 1.0 )
brightness = 1.0;
if( opacity > 0.5 )
opacity = 0.5;
if( opacity < 0.1 )
opacity = 0.0;
Variable_SetValueFloat( self->brightness->variable, lParticle_I, brightness );
Variable_SetValueFloat( self->opacity->variable, lParticle_I, opacity );
Variable_SetValueFloat( self->diameter->variable, lParticle_I, (float) length );
}
}
void TimeIntegrand_FourthOrder( void* timeIntegrand, Variable* startValue, double dt ) {
TimeIntegrand* self = (TimeIntegrand*)timeIntegrand;
Variable* variable = self->variable;
double* arrayDataPtr;
double* startDataPtr;
double* timeDeriv;
double* finalTimeDeriv;
double* startData;
Index component_I;
Index componentCount = *variable->dataTypeCounts;
Index array_I;
Index arrayCount;
double startTime = TimeIntegrator_GetTime( self->timeIntegrator );
Bool successFlag = False;
Stream* errorStream = Journal_Register( Error_Type, (Name)self->type );
timeDeriv = Memory_Alloc_Array( double, componentCount, "Time Deriv" );
startData = Memory_Alloc_Array( double, componentCount, "StartData" );
finalTimeDeriv = Memory_Alloc_Array( double, componentCount, "StartData" );
memset( timeDeriv, 0, componentCount * sizeof( double ) );
memset( startData, 0, componentCount * sizeof( double ) );
memset( finalTimeDeriv, 0, componentCount * sizeof( double ) );
/* Update Variables */
Variable_Update( variable );
Variable_Update( startValue );
arrayCount = variable->arraySize;
for ( array_I = 0 ; array_I < arrayCount ; array_I++ ) {
arrayDataPtr = Variable_GetPtrDouble( variable, array_I );
startDataPtr = Variable_GetPtrDouble( startValue, array_I );
TimeIntegrator_SetTime( self->timeIntegrator, startTime );
/* Store Original Value in case startValue == self->variable */
memcpy( startData, startDataPtr, sizeof( double ) * componentCount );
/* Do first Step - store K1 in finalTimeDeriv and update for next step */
successFlag = TimeIntegrand_CalculateTimeDeriv( self, array_I, finalTimeDeriv );
Journal_Firewall( True == successFlag, errorStream,
"Error - in %s(), for TimeIntegrand \"%s\" of type %s: When trying to find time "
"deriv for item %u in step %u, *failed*.\n",
__func__, self->name, self->type, array_I, 1 );
for ( component_I = 0 ; component_I < componentCount ; component_I++ )
arrayDataPtr[ component_I ] = startData[ component_I ] + 0.5 * dt * finalTimeDeriv[ component_I ];
TimeIntegrand_Intermediate( self, array_I );
TimeIntegrator_SetTime( self->timeIntegrator, startTime + 0.5 * dt );
/* Do Second Step - add 2xK2 value to finalTimeDeriv and update for next step */
successFlag = TimeIntegrand_CalculateTimeDeriv( self, array_I, timeDeriv );
if ( True == successFlag ) {
for ( component_I = 0 ; component_I < componentCount ; component_I++ ) {
arrayDataPtr[ component_I ] = startData[ component_I ] + 0.5 * dt * timeDeriv[ component_I ];
finalTimeDeriv[ component_I ] += 2.0 * timeDeriv[ component_I ];
}
TimeIntegrand_Intermediate( self, array_I );
}
else {
Journal_Firewall( True == self->allowFallbackToFirstOrder, errorStream,
"Error - in %s(), for TimeIntegrand \"%s\" of type %s: When trying to find time "
"deriv for item %u in step %u, *failed*, and self->allowFallbackToFirstOrder "
"not enabled.\n", __func__, self->name, self->type, array_I, 2 );
_TimeIntegrand_RewindToStartAndApplyFirstOrderUpdate( self,
arrayDataPtr, startData, startTime, dt,
timeDeriv, array_I );
}
/* Do Third Step - add 2xK3 value to finalTimeDeriv and update for next step */
successFlag = TimeIntegrand_CalculateTimeDeriv( self, array_I, timeDeriv );
if ( True == successFlag ) {
for ( component_I = 0 ; component_I < componentCount ; component_I++ ) {
arrayDataPtr[ component_I ] = startData[ component_I ] + dt * timeDeriv[ component_I ];
finalTimeDeriv[ component_I ] += 2.0 * timeDeriv[ component_I ];
}
TimeIntegrand_Intermediate( self, array_I );
}
else {
Journal_Firewall( True == self->allowFallbackToFirstOrder, errorStream,
"Error - in %s(), for TimeIntegrand \"%s\" of type %s: When trying to find time "
"deriv for item %u in step %u, *failed*, and self->allowFallbackToFirstOrder "
"not enabled.\n", __func__, self->name, self->type, array_I, 3 );
_TimeIntegrand_RewindToStartAndApplyFirstOrderUpdate( self,
arrayDataPtr, startData, startTime, dt,
timeDeriv, array_I );
}
TimeIntegrator_SetTime( self->timeIntegrator, startTime + dt );
/* Do Fourth Step - 'K1 + 2K2 + 2K3' and K4 finalTimeDeriv to find final value */
successFlag = TimeIntegrand_CalculateTimeDeriv( self, array_I, timeDeriv );
if ( True == successFlag ) {
for ( component_I = 0 ; component_I < componentCount ; component_I++ ) {
arrayDataPtr[ component_I ] = startData[ component_I ] +
dt/6.0 * (timeDeriv[ component_I ] + finalTimeDeriv[ component_I ] );
}
TimeIntegrand_Intermediate( self, array_I );
}
else {
Journal_Firewall( True == self->allowFallbackToFirstOrder, errorStream,
"Error - in %s(), for TimeIntegrand \"%s\" of type %s: When trying to find time "
"deriv for item %u in step %u, *failed*, and self->allowFallbackToFirstOrder "
"not enabled.\n", __func__, self->name, self->type, array_I, 4 );
_TimeIntegrand_RewindToStartAndApplyFirstOrderUpdate( self,
arrayDataPtr, startData, startTime, dt,
timeDeriv, array_I );
}
}
Memory_Free( timeDeriv );
Memory_Free( startData );
Memory_Free( finalTimeDeriv );
}