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MasstransportAnalysis.cpp
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MasstransportAnalysis.cpp
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#include "./MasstransportAnalysis.h"
#include "../toolkits/toolkits.h"
#include "../classes/classes.h"
#include "../shared/shared.h"
#include "../modules/modules.h"
#include "../classes/Inputs/TransientInput.h"
#define FINITEELEMENT P1Enum
/*Model processing*/
void MasstransportAnalysis::CreateConstraints(Constraints* constraints,IoModel* iomodel){/*{{{*/
/*Fetch parameters: */
int stabilization;
iomodel->FindConstant(&stabilization,"md.masstransport.stabilization");
/*Do not add constraints in DG, they are weakly imposed*/
if(stabilization!=3){
IoModelToConstraintsx(constraints,iomodel,"md.masstransport.spcthickness",MasstransportAnalysisEnum,FINITEELEMENT);
}
/*FCT, constraints are imposed using penalties*/
if(stabilization==4){
constraints->ActivatePenaltyMethod(MasstransportAnalysisEnum);
}
}/*}}}*/
void MasstransportAnalysis::CreateLoads(Loads* loads, IoModel* iomodel){/*{{{*/
/*Intermediaries*/
int penpair_ids[2];
int count=0;
int stabilization;
int numvertex_pairing;
/*Fetch parameters: */
iomodel->FindConstant(&stabilization,"md.masstransport.stabilization");
/*Loads only in DG*/
if(stabilization==3){
/*Get faces and elements*/
CreateFaces(iomodel);
iomodel->FetchData(1,"md.geometry.thickness");
/*First load data:*/
for(int i=0;i<iomodel->numberoffaces;i++){
/*Get left and right elements*/
int element=iomodel->faces[4*i+2]-1; //faces are [node1 node2 elem1 elem2]
/*Now, if this element is not in the partition, pass: */
if(!iomodel->my_elements[element]) continue;
loads->AddObject(new Numericalflux(i+1,i,i,iomodel));
}
/*Free data: */
iomodel->DeleteData(1,"md.geometry.thickness");
}
/*Create Penpair for vertex_pairing: */
IssmDouble *vertex_pairing=NULL;
IssmDouble *nodeonbase=NULL;
iomodel->FetchData(&vertex_pairing,&numvertex_pairing,NULL,"md.masstransport.vertex_pairing");
if(iomodel->domaintype!=Domain2DhorizontalEnum && iomodel->domaintype!=Domain3DsurfaceEnum) iomodel->FetchData(&nodeonbase,NULL,NULL,"md.mesh.vertexonbase");
for(int i=0;i<numvertex_pairing;i++){
if(iomodel->my_vertices[reCast<int>(vertex_pairing[2*i+0])-1]){
/*In debugging mode, check that the second node is in the same cpu*/
_assert_(iomodel->my_vertices[reCast<int>(vertex_pairing[2*i+1])-1]);
/*Skip if one of the two is not on the bed*/
if(iomodel->domaintype!=Domain2DhorizontalEnum){
if(!(reCast<bool>(nodeonbase[reCast<int>(vertex_pairing[2*i+0])-1])) || !(reCast<bool>(nodeonbase[reCast<int>(vertex_pairing[2*i+1])-1]))) continue;
}
/*Get node ids*/
penpair_ids[0]=reCast<int>(vertex_pairing[2*i+0]);
penpair_ids[1]=reCast<int>(vertex_pairing[2*i+1]);
/*Create Load*/
loads->AddObject(new Penpair(count+1,&penpair_ids[0]));
count++;
}
}
/*Free resources: */
iomodel->DeleteData(vertex_pairing,"md.masstransport.vertex_pairing");
iomodel->DeleteData(nodeonbase,"md.mesh.vertexonbase");
}/*}}}*/
void MasstransportAnalysis::CreateNodes(Nodes* nodes,IoModel* iomodel,bool isamr){/*{{{*/
/*Fetch parameters: */
int stabilization;
iomodel->FindConstant(&stabilization,"md.masstransport.stabilization");
/*Check in 3d*/
if(stabilization==3 && iomodel->domaintype==Domain3DEnum) _error_("DG 3d not implemented yet");
/*Create Nodes either DG or CG depending on stabilization*/
if(iomodel->domaintype!=Domain2DhorizontalEnum && iomodel->domaintype!=Domain3DsurfaceEnum) iomodel->FetchData(2,"md.mesh.vertexonbase","md.mesh.vertexonsurface");
if(stabilization!=3){
::CreateNodes(nodes,iomodel,MasstransportAnalysisEnum,FINITEELEMENT,isamr);
}
else{
::CreateNodes(nodes,iomodel,MasstransportAnalysisEnum,P1DGEnum,isamr);
}
iomodel->DeleteData(2,"md.mesh.vertexonbase","md.mesh.vertexonsurface");
}/*}}}*/
int MasstransportAnalysis::DofsPerNode(int** doflist,int domaintype,int approximation){/*{{{*/
return 1;
}/*}}}*/
void MasstransportAnalysis::UpdateElements(Elements* elements,Inputs* inputs,IoModel* iomodel,int analysis_counter,int analysis_type){/*{{{*/
int stabilization,finiteelement;
bool dakota_analysis;
bool isgroundingline;
bool ismovingfront;
bool issmb;
int isoceancoupling;
int grdmodel;
/*Fetch data needed: */
iomodel->FindConstant(&stabilization,"md.masstransport.stabilization");
iomodel->FindConstant(&dakota_analysis,"md.qmu.isdakota");
iomodel->FindConstant(&isgroundingline,"md.transient.isgroundingline");
iomodel->FindConstant(&ismovingfront,"md.transient.ismovingfront");
iomodel->FindConstant(&isoceancoupling,"md.transient.isoceancoupling");
iomodel->FindConstant(&issmb,"md.transient.issmb");
/*Finite element type*/
finiteelement = FINITEELEMENT;
if(stabilization==3){
finiteelement = P1DGEnum;
//finiteelement = P0DGEnum;
}
/*Update elements: */
int counter=0;
for(int i=0;i<iomodel->numberofelements;i++){
if(iomodel->my_elements[i]){
Element* element=(Element*)elements->GetObjectByOffset(counter);
element->Update(inputs,i,iomodel,analysis_counter,analysis_type,finiteelement);
counter++;
}
}
iomodel->FetchDataToInput(inputs,elements,"md.geometry.thickness",ThicknessEnum);
iomodel->FetchDataToInput(inputs,elements,"md.geometry.surface",SurfaceEnum);
iomodel->FetchDataToInput(inputs,elements,"md.geometry.base",BaseEnum);
iomodel->FetchDataToInput(inputs,elements,"md.initialization.sealevel",SealevelEnum,0);
iomodel->FetchDataToInput(inputs,elements,"md.mask.ice_levelset",MaskIceLevelsetEnum);
iomodel->FetchDataToInput(inputs,elements,"md.mask.ocean_levelset",MaskOceanLevelsetEnum);
iomodel->FetchDataToInput(inputs,elements,"md.basalforcings.groundedice_melting_rate",BasalforcingsGroundediceMeltingRateEnum);
iomodel->FetchDataToInput(inputs,elements,"md.initialization.vx",VxEnum);
iomodel->FetchDataToInput(inputs,elements,"md.initialization.vy",VyEnum);
if(isgroundingline) iomodel->FetchDataToInput(inputs,elements,"md.geometry.bed",BedEnum);
/*Initialize ThicknessResidual input*/
InputUpdateFromConstantx(inputs,elements,0.,ThicknessResidualEnum);
/*Get what we need for ocean-induced basal melting*/
bool isstochastic;
int basalforcing_model;
int melt_parameterization;
iomodel->FindConstant(&basalforcing_model,"md.basalforcings.model");
iomodel->FindConstant(&isstochastic,"md.stochasticforcing.isstochasticforcing");
iomodel->FindConstant(&melt_parameterization,"md.frontalforcings.parameterization");
switch(basalforcing_model){
case FloatingMeltRateEnum:
iomodel->FetchDataToInput(inputs,elements,"md.basalforcings.floatingice_melting_rate",BasalforcingsFloatingiceMeltingRateEnum);
iomodel->FetchDataToInput(inputs,elements,"md.basalforcings.perturbation_melting_rate",BasalforcingsPerturbationMeltingRateEnum,0.);
if(isstochastic){
iomodel->FetchDataToInput(inputs,elements,"md.stochasticforcing.default_id",StochasticForcingDefaultIdEnum);
iomodel->FetchDataToInput(inputs,elements,"md.basalforcings.floatingice_melting_rate",BaselineBasalforcingsFloatingiceMeltingRateEnum);
}
break;
case LinearFloatingMeltRateEnum:
iomodel->FetchDataToInput(inputs,elements,"md.basalforcings.perturbation_melting_rate",BasalforcingsPerturbationMeltingRateEnum,0.);
break;
case MismipFloatingMeltRateEnum:
iomodel->FetchDataToInput(inputs,elements,"md.basalforcings.meltrate_factor",BasalforcingsMeltrateFactorEnum);
break;
case MantlePlumeGeothermalFluxEnum:
break;
case SpatialLinearFloatingMeltRateEnum:
iomodel->FetchDataToInput(inputs,elements,"md.basalforcings.deepwater_melting_rate",BasalforcingsSpatialDeepwaterMeltingRateEnum);
iomodel->FetchDataToInput(inputs,elements,"md.basalforcings.deepwater_elevation",BasalforcingsSpatialDeepwaterElevationEnum);
iomodel->FetchDataToInput(inputs,elements,"md.basalforcings.upperwater_melting_rate",BasalforcingsSpatialUpperwaterMeltingRateEnum);
iomodel->FetchDataToInput(inputs,elements,"md.basalforcings.upperwater_elevation",BasalforcingsSpatialUpperwaterElevationEnum);
iomodel->FetchDataToInput(inputs,elements,"md.basalforcings.perturbation_melting_rate",BasalforcingsPerturbationMeltingRateEnum,0.);
if(isstochastic){
iomodel->FetchDataToInput(inputs,elements,"md.stochasticforcing.default_id",StochasticForcingDefaultIdEnum);
iomodel->FetchDataToInput(inputs,elements,"md.basalforcings.deepwater_melting_rate",BaselineBasalforcingsSpatialDeepwaterMeltingRateEnum);
}
break;
case BasalforcingsPicoEnum:
iomodel->FetchDataToInput(inputs,elements,"md.basalforcings.basin_id",BasalforcingsPicoBasinIdEnum);
iomodel->FetchDataToInput(inputs,elements,"md.basalforcings.overturning_coeff",BasalforcingsPicoOverturningCoeffEnum);
break;
case BasalforcingsIsmip6Enum:{
iomodel->FetchDataToInput(inputs,elements,"md.basalforcings.basin_id",BasalforcingsIsmip6BasinIdEnum);
iomodel->FetchDataToInput(inputs,elements,"md.basalforcings.melt_anomaly",BasalforcingsIsmip6MeltAnomalyEnum,0.);
/*Deal with tf...*/
IssmDouble* array2d = NULL; int M,N,K; IssmDouble* temp = NULL;
iomodel->FetchData(&temp,&M,&K,"md.basalforcings.tf_depths"); xDelete<IssmDouble>(temp);
_assert_(M==1); _assert_(K>=1);
for(int kk=0;kk<K;kk++){
/*Fetch TF for this depth*/
iomodel->FetchData(&array2d, &M, &N, kk, "md.basalforcings.tf");
if(!array2d) _error_("md.basalforcings.tf not found in binary file");
for(Object* & object : elements->objects){
Element* element = xDynamicCast<Element*>(object);
if(iomodel->domaintype!=Domain2DhorizontalEnum && !element->IsOnBase()) continue;
element->DatasetInputAdd(BasalforcingsIsmip6TfEnum,array2d,inputs,iomodel,M,N,1,BasalforcingsIsmip6TfEnum,kk);
}
xDelete<IssmDouble>(array2d);
}
}
break;
case BeckmannGoosseFloatingMeltRateEnum:
bool isthermalforcing;
iomodel->FindConstant(&isthermalforcing,"md.basalforcings.isthermalforcing");
iomodel->FetchDataToInput(inputs,elements,"md.basalforcings.meltrate_factor",BasalforcingsMeltrateFactorEnum);
if(isthermalforcing==0){
iomodel->FetchDataToInput(inputs,elements,"md.basalforcings.ocean_salinity",BasalforcingsOceanSalinityEnum);
iomodel->FetchDataToInput(inputs,elements,"md.basalforcings.ocean_temp",BasalforcingsOceanTempEnum);
}
else if(melt_parameterization!=FrontalForcingsRignotarmaEnum){
iomodel->FetchDataToInput(inputs,elements,"md.basalforcings.ocean_thermalforcing",ThermalForcingEnum);
}
break;
case LinearFloatingMeltRatearmaEnum:
iomodel->FetchDataToInput(inputs,elements,"md.basalforcings.basin_id",BasalforcingsLinearBasinIdEnum);
if(isstochastic) iomodel->FetchDataToInput(inputs,elements,"md.stochasticforcing.default_id",StochasticForcingDefaultIdEnum);
break;
default:
_error_("Basal forcing model "<<EnumToStringx(basalforcing_model)<<" not supported yet");
}
if(!issmb){
iomodel->FetchDataToInput(inputs,elements,"md.smb.mass_balance",SmbMassBalanceEnum);
}
if(stabilization==3){
iomodel->FetchDataToInput(inputs,elements,"md.masstransport.spcthickness",MasstransportSpcthicknessEnum); //for DG, we need the spc in the element
}
if(stabilization==4){
iomodel->FetchDataToInput(inputs,elements,"md.masstransport.spcthickness",MasstransportSpcthicknessEnum); //for FCT, we need the spc in the element (penlaties)
}
if(iomodel->domaintype!=Domain2DhorizontalEnum && iomodel->domaintype!=Domain3DsurfaceEnum){
iomodel->FetchDataToInput(inputs,elements,"md.mesh.vertexonbase",MeshVertexonbaseEnum);
iomodel->FetchDataToInput(inputs,elements,"md.mesh.vertexonsurface",MeshVertexonsurfaceEnum);
}
/*Initialize sea level cumulated sea level loads :*/
iomodel->ConstantToInput(inputs,elements,0,AccumulatedDeltaIceThicknessEnum,P1Enum);
iomodel->ConstantToInput(inputs,elements,0,OldAccumulatedDeltaIceThicknessEnum,P1Enum);
/*for Ivins deformation model, initialize history of ice thickness changes:*/
iomodel->FindConstant(&grdmodel,"md.solidearth.settings.grdmodel");
if(grdmodel==IvinsEnum) inputs->SetTransientInput(TransientAccumulatedDeltaIceThicknessEnum,NULL,0);
}/*}}}*/
void MasstransportAnalysis::UpdateParameters(Parameters* parameters,IoModel* iomodel,int solution_enum,int analysis_enum){/*{{{*/
int numoutputs;
char** requestedoutputs = NULL;
parameters->AddObject(iomodel->CopyConstantObject("md.flowequation.isFS",FlowequationIsFSEnum));
parameters->AddObject(iomodel->CopyConstantObject("md.masstransport.isfreesurface",MasstransportIsfreesurfaceEnum));
parameters->AddObject(iomodel->CopyConstantObject("md.masstransport.hydrostatic_adjustment",MasstransportHydrostaticAdjustmentEnum));
parameters->AddObject(iomodel->CopyConstantObject("md.masstransport.stabilization",MasstransportStabilizationEnum));
parameters->AddObject(iomodel->CopyConstantObject("md.masstransport.min_thickness",MasstransportMinThicknessEnum));
parameters->AddObject(iomodel->CopyConstantObject("md.masstransport.penalty_factor",MasstransportPenaltyFactorEnum));
parameters->AddObject(iomodel->CopyConstantObject("md.groundingline.intrusion_distance",GroundinglineIntrusionDistanceEnum));
iomodel->FindConstant(&requestedoutputs,&numoutputs,"md.masstransport.requested_outputs");
parameters->AddObject(new IntParam(MasstransportNumRequestedOutputsEnum,numoutputs));
if(numoutputs)parameters->AddObject(new StringArrayParam(MasstransportRequestedOutputsEnum,requestedoutputs,numoutputs));
iomodel->DeleteData(&requestedoutputs,numoutputs,"md.masstransport.requested_outputs");
}/*}}}*/
/*Finite Element Analysis*/
void MasstransportAnalysis::Core(FemModel* femmodel){/*{{{*/
_error_("not implemented");
}/*}}}*/
void MasstransportAnalysis::PreCore(FemModel* femmodel){/*{{{*/
_error_("not implemented");
}/*}}}*/
ElementVector* MasstransportAnalysis::CreateDVector(Element* element){/*{{{*/
/*Default, return NULL*/
return NULL;
}/*}}}*/
ElementMatrix* MasstransportAnalysis::CreateJacobianMatrix(Element* element){/*{{{*/
_error_("Not implemented");
}/*}}}*/
ElementMatrix* MasstransportAnalysis::CreateKMatrix(Element* element){/*{{{*/
/* Check if ice in element */
if(!element->IsIceInElement()) return NULL;
if(!element->IsOnBase()) return NULL;
Element* basalelement = element->SpawnBasalElement();
ElementMatrix* Ke = NULL;
switch(element->FiniteElement()){
case P1Enum: case P2Enum:
Ke = CreateKMatrixCG(basalelement);
break;
case P0DGEnum:
case P1DGEnum:
Ke = CreateKMatrixDG(basalelement);
break;
default:
_error_("Element type " << EnumToStringx(element->FiniteElement()) << " not supported yet");
}
int domaintype;
element->FindParam(&domaintype,DomainTypeEnum);
if(basalelement->IsSpawnedElement()){basalelement->DeleteMaterials(); delete basalelement;};
return Ke;
}/*}}}*/
ElementMatrix* MasstransportAnalysis::CreateKMatrixCG(Element* element){/*{{{*/
/* Check if ice in element */
if(!element->IsIceInElement()) return NULL;
/*Intermediaries */
int stabilization;
int domaintype,dim;
IssmDouble Jdet,D_scalar,dt,h;
IssmDouble vel,vx,vy,dvxdx,dvydy;
IssmDouble xi,tau;
IssmDouble dvx[2],dvy[2];
IssmDouble D[4];
IssmDouble* xyz_list = NULL;
/*Get problem dimension*/
element->FindParam(&domaintype,DomainTypeEnum);
switch(domaintype){
case Domain2DverticalEnum: dim = 1; break;
case Domain2DhorizontalEnum: dim = 2; break;
case Domain3DEnum: dim = 2; break;
default: _error_("mesh "<<EnumToStringx(domaintype)<<" not supported yet");
}
/*Fetch number of nodes and dof for this finite element*/
int numnodes = element->GetNumberOfNodes();
/*Initialize Element vector and other vectors*/
ElementMatrix* Ke = element->NewElementMatrix();
IssmDouble* basis = xNew<IssmDouble>(numnodes);
IssmDouble* dbasis = xNew<IssmDouble>(dim*numnodes);
/*Retrieve all inputs and parameters*/
element->GetVerticesCoordinates(&xyz_list);
element->FindParam(&dt,TimesteppingTimeStepEnum);
element->FindParam(&domaintype,DomainTypeEnum);
element->FindParam(&stabilization,MasstransportStabilizationEnum);
Input* vxaverage_input=element->GetInput(VxAverageEnum); _assert_(vxaverage_input);
Input* vyaverage_input=NULL;
if(dim==2){
vyaverage_input=element->GetInput(VyAverageEnum); _assert_(vyaverage_input);
}
h = element->CharacteristicLength();
/* Start looping on the number of gaussian points: */
Gauss* gauss=element->NewGauss(2);
while(gauss->next()){
element->JacobianDeterminant(&Jdet,xyz_list,gauss);
element->NodalFunctions(basis,gauss);
element->NodalFunctionsDerivatives(dbasis,xyz_list,gauss);
/*Transient term*/
D_scalar=gauss->weight*Jdet;
for(int i=0;i<numnodes;i++) for(int j=0;j<numnodes;j++) Ke->values[i*numnodes+j] += D_scalar*basis[i]*basis[j];
/*Advection terms*/
vxaverage_input->GetInputValue(&vx,gauss);
vxaverage_input->GetInputDerivativeValue(&dvx[0],xyz_list,gauss);
D_scalar=dt*gauss->weight*Jdet;
if(dim==2){
vyaverage_input->GetInputValue(&vy,gauss);
vyaverage_input->GetInputDerivativeValue(&dvy[0],xyz_list,gauss);
dvxdx=dvx[0];
dvydy=dvy[1];
for(int i=0;i<numnodes;i++){
for(int j=0;j<numnodes;j++){
/*\phi_i \phi_j \nabla\cdot v*/
Ke->values[i*numnodes+j] += D_scalar*basis[i]*basis[j]*(dvxdx+dvydy);
/*\phi_i v\cdot\nabla\phi_j*/
Ke->values[i*numnodes+j] += D_scalar*basis[i]*(vx*dbasis[0*numnodes+j] + vy*dbasis[1*numnodes+j]);
}
}
}
else{
dvxdx=dvx[0];
for(int i=0;i<numnodes;i++){
for(int j=0;j<numnodes;j++){
Ke->values[i*numnodes+j] += D_scalar*dvxdx*basis[i]*basis[j];
Ke->values[i*numnodes+j] += D_scalar*vx*dbasis[0*numnodes+j]*basis[i];
}
}
}
for(int i=0;i<4;i++) D[i]=0.;
switch(stabilization){
case 0:
/*Nothing to be done*/
break;
case 1:
/*SSA*/
vxaverage_input->GetInputAverage(&vx);
if(dim==2) vyaverage_input->GetInputAverage(&vy);
D[0*dim+0]=h/2.0*fabs(vx);
if(dim==2) D[1*dim+1]=h/2.0*fabs(vy);
break;
case 2:
/*Streamline upwinding*/
vxaverage_input->GetInputAverage(&vx);
if(dim==1){
vel=fabs(vx)+1.e-8;
}
else{
vyaverage_input->GetInputAverage(&vy);
vel=sqrt(vx*vx+vy*vy)+1.e-8;
}
tau=h/(2*vel);
break;
case 5:
/*SUPG*/
if(dim!=2) _error_("Stabilization "<<stabilization<<" not supported yet for dim != 2");
vxaverage_input->GetInputAverage(&vx);
vyaverage_input->GetInputAverage(&vy);
vel=sqrt(vx*vx+vy*vy)+1.e-8;
//xi=0.3130;
xi=1;
tau=xi*h/(2*vel);
//tau=dt/6; // as implemented in Ua
break;
default:
_error_("Stabilization "<<stabilization<<" not supported yet");
}
if(stabilization==1){
/*SSA*/
if(dim==1) D[0]=D_scalar*D[0];
else{
D[0*dim+0]=D_scalar*D[0*dim+0];
D[1*dim+0]=D_scalar*D[1*dim+0];
D[0*dim+1]=D_scalar*D[0*dim+1];
D[1*dim+1]=D_scalar*D[1*dim+1];
}
if(dim==2){
for(int i=0;i<numnodes;i++){
for(int j=0;j<numnodes;j++){
Ke->values[i*numnodes+j] += (
dbasis[0*numnodes+i] *(D[0*dim+0]*dbasis[0*numnodes+j] + D[0*dim+1]*dbasis[1*numnodes+j]) +
dbasis[1*numnodes+i] *(D[1*dim+0]*dbasis[0*numnodes+j] + D[1*dim+1]*dbasis[1*numnodes+j])
);
}
}
}
else{
for(int i=0;i<numnodes;i++){
for(int j=0;j<numnodes;j++){
Ke->values[i*numnodes+j] += dbasis[0*numnodes+i]*D[0]*dbasis[0*numnodes+j];
}
}
}
}
if(stabilization==2){
/*Streamline upwind*/
_assert_(dim==2);
for(int i=0;i<numnodes;i++){
for(int j=0;j<numnodes;j++){
Ke->values[i*numnodes+j]+=dt*gauss->weight*Jdet*tau*(vx*dbasis[0*numnodes+i]+vy*dbasis[1*numnodes+i])*(vx*dbasis[0*numnodes+j]+vy*dbasis[1*numnodes+j]);
}
}
}
if(stabilization==5){/*{{{*/
/*Mass matrix - part 2*/
for(int i=0;i<numnodes;i++){
for(int j=0;j<numnodes;j++){
Ke->values[i*numnodes+j]+=gauss->weight*Jdet*tau*basis[j]*(vx*dbasis[0*numnodes+i]+vy*dbasis[1*numnodes+i]);
}
}
/*Mass matrix - part 3*/
for(int i=0;i<numnodes;i++){
for(int j=0;j<numnodes;j++){
Ke->values[i*numnodes+j]+=gauss->weight*Jdet*tau*basis[j]*(basis[i]*dvxdx+basis[i]*dvydy);
}
}
/*Advection matrix - part 2, A*/
for(int i=0;i<numnodes;i++){
for(int j=0;j<numnodes;j++){
Ke->values[i*numnodes+j]+=dt*gauss->weight*Jdet*tau*(vx*dbasis[0*numnodes+j]+vy*dbasis[1*numnodes+j])*(vx*dbasis[0*numnodes+i]+vy*dbasis[1*numnodes+i]);
}
}
/*Advection matrix - part 3, A*/
for(int i=0;i<numnodes;i++){
for(int j=0;j<numnodes;j++){
Ke->values[i*numnodes+j]+=dt*gauss->weight*Jdet*tau*(vx*dbasis[0*numnodes+j]+vy*dbasis[1*numnodes+j])*(basis[i]*dvxdx+basis[i]*dvydy);
}
}
/*Advection matrix - part 2, B*/
for(int i=0;i<numnodes;i++){
for(int j=0;j<numnodes;j++){
Ke->values[i*numnodes+j]+=dt*gauss->weight*Jdet*tau*(basis[j]*dvxdx+basis[j]*dvydy)*(vx*dbasis[0*numnodes+i]+vy*dbasis[1*numnodes+i]);
}
}
/*Advection matrix - part 3, B*/
for(int i=0;i<numnodes;i++){
for(int j=0;j<numnodes;j++){
Ke->values[i*numnodes+j]+=dt*gauss->weight*Jdet*tau*(basis[j]*dvxdx+basis[j]*dvydy)*(basis[i]*dvxdx+basis[i]*dvydy);
}
}
}/*}}}*/
}
/*Clean up and return*/
xDelete<IssmDouble>(xyz_list);
xDelete<IssmDouble>(basis);
xDelete<IssmDouble>(dbasis);
delete gauss;
return Ke;
}/*}}}*/
ElementMatrix* MasstransportAnalysis::CreateKMatrixDG(Element* element){/*{{{*/
/* Check if ice in element */
if(!element->IsIceInElement()) return NULL;
/*Intermediaries */
int domaintype;
IssmDouble Jdet,D_scalar,dt,vx,vy;
IssmDouble* xyz_list = NULL;
/*Fetch number of nodes and dof for this finite element*/
int numnodes = element->GetNumberOfNodes();
/*Initialize Element vector and other vectors*/
ElementMatrix* Ke = element->NewElementMatrix();
IssmDouble* basis = xNew<IssmDouble>(numnodes);
IssmDouble* dbasis = xNew<IssmDouble>(3*numnodes);
/*Retrieve all inputs and parameters*/
element->GetVerticesCoordinates(&xyz_list);
element->FindParam(&dt,TimesteppingTimeStepEnum);
element->FindParam(&domaintype,DomainTypeEnum);
Input* vxaverage_input=element->GetInput(VxAverageEnum); _assert_(vxaverage_input);
Input* vyaverage_input=element->GetInput(VyAverageEnum); _assert_(vyaverage_input);
/* Start looping on the number of gaussian points: */
Gauss* gauss=element->NewGauss(2);
while(gauss->next()){
element->JacobianDeterminant(&Jdet,xyz_list,gauss);
element->NodalFunctions(basis,gauss);
element->NodalFunctionsDerivatives(dbasis,xyz_list,gauss);
vxaverage_input->GetInputValue(&vx,gauss);
vyaverage_input->GetInputValue(&vy,gauss);
D_scalar=gauss->weight*Jdet;
for(int i=0;i<numnodes;i++){
for(int j=0;j<numnodes;j++){
Ke->values[i*numnodes+j] += D_scalar*basis[i]*basis[j];
}
}
/*WARNING: basis and dbasis are inverted compared to CG*/
D_scalar = - dt*gauss->weight*Jdet;
for(int i=0;i<numnodes;i++){
for(int j=0;j<numnodes;j++){
Ke->values[i*numnodes+j] += D_scalar*(vx*dbasis[0*numnodes+i]*basis[j] + vy*dbasis[1*numnodes+i]*basis[j]);
}
}
}
/*Clean up and return*/
xDelete<IssmDouble>(xyz_list);
xDelete<IssmDouble>(basis);
xDelete<IssmDouble>(dbasis);
delete gauss;
return Ke;
}/*}}}*/
ElementVector* MasstransportAnalysis::CreatePVector(Element* element){/*{{{*/
/* Check if ice in element */
if(!element->IsIceInElement()) return NULL;
if(!element->IsOnBase()) return NULL;
Element* basalelement = element->SpawnBasalElement();
ElementVector* pe = NULL;
switch(element->FiniteElement()){
case P1Enum: case P2Enum:
pe = CreatePVectorCG(basalelement);
break;
case P0DGEnum:
case P1DGEnum:
pe = CreatePVectorDG(basalelement);
break;
default:
_error_("Element type " << EnumToStringx(element->FiniteElement()) << " not supported yet");
}
if(basalelement->IsSpawnedElement()){basalelement->DeleteMaterials(); delete basalelement;};
return pe;
}/*}}}*/
ElementVector* MasstransportAnalysis::CreatePVectorCG(Element* element){/*{{{*/
/* Check if ice in element */
if(!element->IsIceInElement()) return NULL;
/*Intermediaries */
int stabilization,dim,domaintype;
int melt_style,point1;
bool mainlyfloating;
IssmDouble fraction1,fraction2;
IssmDouble Jdet,dt,intrusiondist;
IssmDouble ms,mb,gmb,fmb,thickness,fmb_pert,gldistance;
IssmDouble vx,vy,vel,dvxdx,dvydy,xi,h,tau;
IssmDouble dvx[2],dvy[2];
IssmDouble gllevelset,phi=1.;
IssmDouble* xyz_list = NULL;
Gauss* gauss = NULL;
/*Get problem dimension*/
element->FindParam(&domaintype,DomainTypeEnum);
switch(domaintype){
case Domain2DverticalEnum: dim = 1; break;
case Domain2DhorizontalEnum: dim = 2; break;
case Domain3DEnum: dim = 2; break;
default: _error_("mesh "<<EnumToStringx(domaintype)<<" not supported yet");
}
/*Fetch number of nodes and dof for this finite element*/
int numnodes = element->GetNumberOfNodes();
/*Initialize Element vector and other vectors*/
ElementVector* pe = element->NewElementVector();
IssmDouble* basis = xNew<IssmDouble>(numnodes);
IssmDouble* dbasis= xNew<IssmDouble>(dim*numnodes);
/*Retrieve all inputs and parameters*/
element->GetVerticesCoordinates(&xyz_list);
element->FindParam(&melt_style,GroundinglineMeltInterpolationEnum);
element->FindParam(&dt,TimesteppingTimeStepEnum);
element->FindParam(&stabilization,MasstransportStabilizationEnum);
element->FindParam(&intrusiondist,GroundinglineIntrusionDistanceEnum);
Input* gmb_input = element->GetInput(BasalforcingsGroundediceMeltingRateEnum); _assert_(gmb_input);
Input* fmb_input = element->GetInput(BasalforcingsFloatingiceMeltingRateEnum); _assert_(fmb_input);
//Input* fmb_pert_input = element->GetInput(BasalforcingsPerturbationMeltingRateEnum); _assert_(fmb_pert_input);
Input* gllevelset_input = element->GetInput(MaskOceanLevelsetEnum); _assert_(gllevelset_input);
Input* ms_input = element->GetInput(SmbMassBalanceEnum); _assert_(ms_input);
Input* thickness_input = element->GetInput(ThicknessEnum); _assert_(thickness_input);
Input* vxaverage_input = element->GetInput(VxAverageEnum); _assert_(vxaverage_input);
Input* vyaverage_input = element->GetInput(VyAverageEnum); _assert_(vyaverage_input);
//Input* gldistance_input = element->GetInput(DistanceToGroundinglineEnum); _assert_(gldistance_input);
h=element->CharacteristicLength();
/*Recover portion of element that is grounded*/
phi=element->GetGroundedPortion(xyz_list);
if(melt_style==SubelementMelt2Enum){
element->GetGroundedPart(&point1,&fraction1,&fraction2,&mainlyfloating,MaskOceanLevelsetEnum,0);
gauss = element->NewGauss(point1,fraction1,fraction2,3);
}
else if(melt_style==IntrusionMeltEnum){
element->GetGroundedPart(&point1,&fraction1,&fraction2,&mainlyfloating,DistanceToGroundinglineEnum,intrusiondist);
gauss = element->NewGauss(point1,fraction1,fraction2,3);
}
else{
gauss = element->NewGauss(3);
}
/* Start looping on the number of gaussian points: */
while(gauss->next()){
element->JacobianDeterminant(&Jdet,xyz_list,gauss);
element->NodalFunctions(basis,gauss);
ms_input->GetInputValue(&ms,gauss);
gmb_input->GetInputValue(&gmb,gauss);
fmb_input->GetInputValue(&fmb,gauss);
//fmb_pert_input->GetInputValue(&fmb_pert,gauss);
gllevelset_input->GetInputValue(&gllevelset,gauss);
thickness_input->GetInputValue(&thickness,gauss);
if(melt_style==SubelementMelt1Enum){
if (phi>0.999999999) mb=gmb;
else mb=(1-phi)*fmb+phi*gmb; // phi is the fraction of grounded ice so (1-phi) is floating
}
else if(melt_style==SubelementMelt2Enum){
if(gllevelset>0.) mb=gmb;
else mb=fmb;
}
else if(melt_style==NoMeltOnPartiallyFloatingEnum){
if (phi<0.00000001){
mb=fmb;//+fmb_pert;
}
else mb=gmb;
}
else if(melt_style==FullMeltOnPartiallyFloatingEnum){
if (phi<0.99999999) mb=fmb;
else mb=gmb;
}
else if(melt_style==IntrusionMeltEnum){
Input* gldistance_input = element->GetInput(DistanceToGroundinglineEnum); _assert_(gldistance_input);
gldistance_input->GetInputValue(&gldistance,gauss);
if(intrusiondist==0){
if(gllevelset>0.) mb=gmb;
else mb=fmb;
}
else if(gldistance>intrusiondist) {
mb=gmb;
}
else if(gldistance<=intrusiondist && gldistance>0) {
mb=fmb*(1-gldistance/intrusiondist);
}
else{
mb=fmb;
}
}
else{
_error_("melt interpolation "<<EnumToStringx(melt_style)<<" not implemented yet");
}
for(int i=0;i<numnodes;i++) pe->values[i]+=Jdet*gauss->weight*(thickness+dt*(ms-mb))*basis[i];
if(stabilization==5){ //SUPG
element->NodalFunctionsDerivatives(dbasis,xyz_list,gauss);
vxaverage_input->GetInputAverage(&vx);
vyaverage_input->GetInputAverage(&vy);
vxaverage_input->GetInputDerivativeValue(&dvx[0],xyz_list,gauss);
vyaverage_input->GetInputDerivativeValue(&dvy[0],xyz_list,gauss);
vel=sqrt(vx*vx+vy*vy)+1.e-8;
dvxdx=dvx[0];
dvydy=dvy[1];
//xi=0.3130;
xi=1;
tau=xi*h/(2*vel);
//tau=dt/6; // as implemented in Ua
/*Force vector - part 2*/
for(int i=0;i<numnodes;i++){
pe->values[i]+=Jdet*gauss->weight*(thickness+dt*(ms-mb))*(tau*vx*dbasis[0*numnodes+i]+tau*vy*dbasis[1*numnodes+i]);
}
/*Force vector - part 3*/
for(int i=0;i<numnodes;i++){
pe->values[i]+=Jdet*gauss->weight*(thickness+dt*(ms-mb))*(tau*basis[i]*dvxdx+tau*basis[i]*dvydy);
}
}
}
/*Clean up and return*/
xDelete<IssmDouble>(xyz_list);
xDelete<IssmDouble>(basis);
xDelete<IssmDouble>(dbasis);
delete gauss;
return pe;
}/*}}}*/
ElementVector* MasstransportAnalysis::CreatePVectorDG(Element* element){/*{{{*/
/* Check if ice in element */
if(!element->IsIceInElement()) return NULL;
/*Intermediaries */
int melt_style, point1;
bool mainlyfloating;
IssmDouble fraction1,fraction2,gllevelset;
IssmDouble Jdet,dt,intrusiondist;
IssmDouble ms,mb,gmb,fmb,thickness,phi=1.,gldistance;
IssmDouble* xyz_list = NULL;
/*Fetch number of nodes and dof for this finite element*/
int numnodes = element->GetNumberOfNodes();
/*Initialize Element vector and other vectors*/
ElementVector* pe = element->NewElementVector();
IssmDouble* basis = xNew<IssmDouble>(numnodes);
/*Retrieve all inputs and parameters*/
element->GetVerticesCoordinates(&xyz_list);
element->FindParam(&dt,TimesteppingTimeStepEnum);
element->FindParam(&melt_style,GroundinglineMeltInterpolationEnum);
element->FindParam(&intrusiondist,GroundinglineIntrusionDistanceEnum);
Input* gmb_input = element->GetInput(BasalforcingsGroundediceMeltingRateEnum); _assert_(gmb_input);
Input* fmb_input = element->GetInput(BasalforcingsFloatingiceMeltingRateEnum); _assert_(fmb_input);
Input* ms_input = element->GetInput(SmbMassBalanceEnum); _assert_(ms_input);
Input* gllevelset_input = element->GetInput(MaskOceanLevelsetEnum); _assert_(gllevelset_input);
Input* thickness_input = element->GetInput(ThicknessEnum); _assert_(thickness_input);
/*Recover portion of element that is grounded*/
Gauss* gauss=NULL;
phi=element->GetGroundedPortion(xyz_list);
if(melt_style==SubelementMelt2Enum){
element->GetGroundedPart(&point1,&fraction1,&fraction2,&mainlyfloating,MaskOceanLevelsetEnum,0);
gauss = element->NewGauss(point1,fraction1,fraction2,3);
}
else if(melt_style==IntrusionMeltEnum){
element->GetGroundedPart(&point1,&fraction1,&fraction2,&mainlyfloating,DistanceToGroundinglineEnum,intrusiondist);
gauss = element->NewGauss(point1,fraction1,fraction2,3);
}
else{
gauss = element->NewGauss(3);
}
/* Start looping on the number of gaussian points: */
while(gauss->next()){
element->JacobianDeterminant(&Jdet,xyz_list,gauss);
element->NodalFunctions(basis,gauss);
ms_input->GetInputValue(&ms,gauss);
gmb_input->GetInputValue(&gmb,gauss);
fmb_input->GetInputValue(&fmb,gauss);
gllevelset_input->GetInputValue(&gllevelset,gauss);
thickness_input->GetInputValue(&thickness,gauss);
if(melt_style==SubelementMelt1Enum){
if (phi>0.999999999) mb=gmb;
else mb=(1-phi)*fmb+phi*gmb; // phi is the fraction of grounded ice so (1-phi) is floating
}
else if(melt_style==SubelementMelt2Enum){
if(gllevelset>0.) mb=gmb;
else mb=fmb;
}
else if(melt_style==NoMeltOnPartiallyFloatingEnum){
if (phi<0.00000001) mb=fmb;
else mb=gmb;
}
else if(melt_style==FullMeltOnPartiallyFloatingEnum){
if (phi<0.99999999) mb=fmb;
else mb=gmb;
}
else if(melt_style==IntrusionMeltEnum){
Input* gldistance_input = element->GetInput(DistanceToGroundinglineEnum); _assert_(gldistance_input);
gldistance_input->GetInputValue(&gldistance,gauss);
if (intrusiondist==0)
if(gllevelset>0.) mb=gmb;
else mb=fmb;
else if(gldistance>intrusiondist)
mb=gmb;
else if(gldistance<=intrusiondist && gldistance>0)
mb=fmb*(1-gldistance/intrusiondist);
else
mb=fmb;
}
else _error_("melt interpolation "<<EnumToStringx(melt_style)<<" not implemented yet");
for(int i=0;i<numnodes;i++) pe->values[i]+=Jdet*gauss->weight*(thickness+dt*(ms-mb))*basis[i];
}
/*Clean up and return*/
xDelete<IssmDouble>(xyz_list);
xDelete<IssmDouble>(basis);
delete gauss;
return pe;
}/*}}}*/
void MasstransportAnalysis::GetSolutionFromInputs(Vector<IssmDouble>* solution,Element* element){/*{{{*/
element->GetSolutionFromInputsOneDof(solution,ThicknessEnum);
}/*}}}*/
void MasstransportAnalysis::GradientJ(Vector<IssmDouble>* gradient,Element* element,int control_type,int control_interp,int control_index){/*{{{*/
_error_("Not implemented yet");
}/*}}}*/
void MasstransportAnalysis::InputUpdateFromSolution(IssmDouble* solution,Element* element){/*{{{*/
/*Only update if on base*/
if(!element->IsOnBase()) return;
/*deal with logic of accumulating thickness if we are coupled to a
* sea level core:*/
int frequency,count,isgrd;
element->FindParam(&isgrd,SolidearthSettingsGRDEnum);
if(isgrd){
element->FindParam(&frequency,SolidearthSettingsRunFrequencyEnum);
element->FindParam(&count,SealevelchangeRunCountEnum);
}
/*Fetch dof list and allocate solution vector*/
int *doflist = NULL;
element->GetDofListLocal(&doflist,NoneApproximationEnum,GsetEnum);
int numnodes = element->GetNumberOfNodes();
IssmDouble* newthickness = xNew<IssmDouble>(numnodes);
IssmDouble* thicknessresidual = xNew<IssmDouble>(numnodes);
/*Use the dof list to index into the solution vector: */
IssmDouble minthickness = element->FindParam(MasstransportMinThicknessEnum);
for(int i=0;i<numnodes;i++){
newthickness[i]=solution[doflist[i]];
thicknessresidual[i]=0.;
/*Check solution*/
if(xIsNan<IssmDouble>(newthickness[i])) _error_("NaN found in solution vector");
if(xIsInf<IssmDouble>(newthickness[i])) _error_("Inf found in solution vector");
if(newthickness[i]<minthickness){
thicknessresidual[i]=minthickness-newthickness[i];
newthickness[i]=minthickness;
}
}
element->AddBasalInput(ThicknessEnum,newthickness,element->GetElementType());
element->AddBasalInput(ThicknessResidualEnum,thicknessresidual,element->GetElementType());
xDelete<int>(doflist);
xDelete<IssmDouble>(newthickness);
xDelete<IssmDouble>(thicknessresidual);
/*Update bed and surface accordingly*/
/*Get basal element*/
int domaintype; element->FindParam(&domaintype,DomainTypeEnum);
Element* basalelement=element;
if(domaintype!=Domain2DhorizontalEnum) basalelement = element->SpawnBasalElement();
/*Fetch number of nodes and dof for this finite element*/
int numvertices = basalelement->GetNumberOfVertices();
/*Now, we need to do some "processing"*/
newthickness = xNew<IssmDouble>(numvertices);
IssmDouble* oldthickness = xNew<IssmDouble>(numvertices);
IssmDouble* newbase = xNew<IssmDouble>(numvertices);
IssmDouble* bed = xNew<IssmDouble>(numvertices);
IssmDouble* newsurface = xNew<IssmDouble>(numvertices);
IssmDouble* oldbase = xNew<IssmDouble>(numvertices);
IssmDouble* oldsurface = xNew<IssmDouble>(numvertices);
IssmDouble* phi = xNew<IssmDouble>(numvertices);
IssmDouble* sealevel = xNew<IssmDouble>(numvertices);
/*Get previous base, thickness, surfac and current sealevel and bed:*/
basalelement->GetInputListOnVertices(&newthickness[0],ThicknessEnum);
basalelement->GetInputListOnVertices(&oldthickness[0],ThicknessOldEnum);
basalelement->GetInputListOnVertices(&oldbase[0],BaseOldEnum);
basalelement->GetInputListOnVertices(&oldsurface[0],SurfaceOldEnum);
basalelement->GetInputListOnVertices(&phi[0],MaskOceanLevelsetEnum);
basalelement->GetInputListOnVertices(&sealevel[0],SealevelEnum);
/*Do we do grounding line migration?*/
bool isgroundingline;
element->FindParam(&isgroundingline,TransientIsgroundinglineEnum);
if(isgroundingline) basalelement->GetInputListOnVertices(&bed[0],BedEnum);
/*Find MasstransportHydrostaticAdjustment to figure out how to update the geometry:*/
int hydroadjustment;
basalelement->FindParam(&hydroadjustment,MasstransportHydrostaticAdjustmentEnum);
IssmDouble rho_ice = basalelement->FindParam(MaterialsRhoIceEnum);
IssmDouble rho_water = basalelement->FindParam(MaterialsRhoSeawaterEnum);
for(int i=0;i<numvertices;i++) {
if (phi[i]>0.){ //this is grounded ice: just add thickness to base.
if(isgroundingline){
newsurface[i] = bed[i]+newthickness[i]; //surface = bed + newthickness
newbase[i] = bed[i]; //new base at new bed
}
else{
newsurface[i] = oldbase[i]+newthickness[i]; //surface = oldbase + newthickness
newbase[i] = oldbase[i]; //same base: do nothing
}
}
else{ //this is an ice shelf: hydrostatic equilibrium*/
if(hydroadjustment==AbsoluteEnum){
newsurface[i] = newthickness[i]*(1.-rho_ice/rho_water)+sealevel[i];
newbase[i] = newthickness[i]*(-rho_ice/rho_water)+sealevel[i];
}
else if(hydroadjustment==IncrementalEnum){
newsurface[i] = oldsurface[i]+(1.0-rho_ice/rho_water)*(newthickness[i]-oldthickness[i])+sealevel[i]; //surface = oldsurface + (1-di) * dH
newbase[i] = oldbase[i]-rho_ice/rho_water*(newthickness[i]-oldthickness[i])+sealevel[i]; //base = oldbed + di * dH
}
else _error_("Hydrostatic adjustment " << hydroadjustment << " (" << EnumToStringx(hydroadjustment) << ") not supported yet");
}
}
/*Add input to the element: */
element->AddBasalInput(SurfaceEnum,newsurface,P1Enum);
element->AddBasalInput(BaseEnum,newbase,P1Enum);
/*Free resources:*/
xDelete<IssmDouble>(newthickness);
xDelete<IssmDouble>(newbase);
xDelete<IssmDouble>(newsurface);
xDelete<IssmDouble>(oldthickness);
xDelete<IssmDouble>(oldbase);
xDelete<IssmDouble>(oldsurface);
xDelete<IssmDouble>(phi);
xDelete<IssmDouble>(sealevel);
xDelete<IssmDouble>(bed);
xDelete<int>(doflist);
if(basalelement->IsSpawnedElement()){basalelement->DeleteMaterials(); delete basalelement;};