//--------------------------------------------------------------------------
//-------- execute ---------------------------------------------------------
//--------------------------------------------------------------------------
void
AssembleOversetSolverConstraintAlgorithm::execute()
{
// first thing to do is to zero out the row (lhs and rhs)
prepare_constraints();
// extract the rank
const int theRank = NaluEnv::self().parallel_rank();
stk::mesh::BulkData & bulkData = realm_.bulk_data();
// space for LHS/RHS (nodesPerElem+1)*numDof*(nodesPerElem+1)*numDof; (nodesPerElem+1)*numDof
std::vector<double> lhs;
std::vector<double> rhs;
std::vector<int> scratchIds;
std::vector<double> scratchVals;
std::vector<stk::mesh::Entity> connected_nodes;
// master element data
std::vector <double > ws_general_shape_function;
// interpolate nodal values to point-in-elem
const int sizeOfDof = eqSystem_->linsys_->numDof();
// size interpolated value
std::vector<double> qNp1Orphan(sizeOfDof, 0.0);
// Parallel communication of ghosted entities has been already handled in
// EquationSystems::pre_iter_work
// iterate oversetInfoVec_
std::vector<OversetInfo *>::iterator ii;
for( ii=realm_.oversetManager_->oversetInfoVec_.begin();
ii!=realm_.oversetManager_->oversetInfoVec_.end(); ++ii ) {
// overset info object of interest
OversetInfo * infoObject = (*ii);
// extract element and node mesh object
stk::mesh::Entity owningElement = infoObject->owningElement_;
stk::mesh::Entity orphanNode = infoObject->orphanNode_;
// extract the owning rank for this node
const int nodeRank = bulkData.parallel_owner_rank(orphanNode);
// check to see if this node is locally owned by this rank; we only want to process locally owned nodes, not shared
if ( theRank != nodeRank )
continue;
// get master element type for this contactInfo
MasterElement *meSCS = infoObject->meSCS_;
const int nodesPerElement = meSCS->nodesPerElement_;
std::vector <double > elemNodalQ(nodesPerElement*sizeOfDof);
std::vector <double > shpfc(nodesPerElement);
// resize some things; matrix related
const int npePlusOne = nodesPerElement+1;
const int lhsSize = npePlusOne*sizeOfDof*npePlusOne*sizeOfDof;
const int rhsSize = npePlusOne*sizeOfDof;
lhs.resize(lhsSize);
rhs.resize(rhsSize);
scratchIds.resize(rhsSize);
scratchVals.resize(rhsSize);
connected_nodes.resize(npePlusOne);
// algorithm related; element
ws_general_shape_function.resize(nodesPerElement);
// pointer to lhs/rhs
double *p_lhs = &lhs[0];
double *p_rhs = &rhs[0];
// zeroing of lhs/rhs
for ( int k = 0; k < lhsSize; ++k ) {
p_lhs[k] = 0.0;
}
for ( int k = 0; k < rhsSize; ++k ) {
p_rhs[k] = 0.0;
}
// extract nodal value for scalarQ
const double *qNp1Nodal = (double *)stk::mesh::field_data(*fieldQ_, orphanNode);
stk::mesh::Entity const* elem_node_rels = bulkData.begin_nodes(owningElement);
const int num_nodes = bulkData.num_nodes(owningElement);
// now load the elemental values for future interpolation; fill in connected nodes; first connected node is orhpan
connected_nodes[0] = orphanNode;
for ( int ni = 0; ni < num_nodes; ++ni ) {
stk::mesh::Entity node = elem_node_rels[ni];
connected_nodes[ni+1] = node;
const double *qNp1 = (double *)stk::mesh::field_data(*fieldQ_, node );
for ( int i = 0; i < sizeOfDof; ++i ) {
elemNodalQ[i*nodesPerElement + ni] = qNp1[i];
}
}
// interpolate dof to elemental ips (assigns qNp1)
meSCS->interpolatePoint(
sizeOfDof,
&(infoObject->isoParCoords_[0]),
&elemNodalQ[0],
&qNp1Orphan[0]);
// lhs; extract general shape function
meSCS->general_shape_fcn(1, &(infoObject->isoParCoords_[0]), &ws_general_shape_function[0]);
// rhs; orphan node is defined to be the zeroth connected node
for ( int i = 0; i < sizeOfDof; ++i) {
const int rowOi = i * npePlusOne * sizeOfDof;
const double residual = qNp1Nodal[i] - qNp1Orphan[i];
p_rhs[i] = -residual;
// row is zero by design (first connected node is the orphan node); assign it fully
p_lhs[rowOi+i] += 1.0;
for ( int ic = 0; ic < nodesPerElement; ++ic ) {
const int indexR = i + sizeOfDof*(ic+1);
const int rOiR = rowOi+indexR;
p_lhs[rOiR] -= ws_general_shape_function[ic];
}
}
// apply to linear system
apply_coeff(connected_nodes, scratchIds, scratchVals, rhs, lhs, __FILE__);
}
}
//--------------------------------------------------------------------------
//-------- execute ---------------------------------------------------------
//--------------------------------------------------------------------------
void
AssembleScalarEdgeDiffContactSolverAlgorithm::execute()
{
stk::mesh::MetaData & meta_data = realm_.meta_data();
stk::mesh::BulkData & bulk_data = realm_.bulk_data();
const int nDim = meta_data.spatial_dimension();
// space for LHS/RHS (nodesPerElem+1)*(nodesPerElem+1); nodesPerElem+1
std::vector<double> lhs;
std::vector<double> rhs;
std::vector<int> scratchIds;
std::vector<double> scratchVals;
std::vector<stk::mesh::Entity> connected_nodes;
// deal with state
ScalarFieldType &scalarQNp1 = scalarQ_->field_of_state(stk::mesh::StateNP1);
// space for interpolated right state (halo)
double qNp1R;
double diffFluxCoeffR;
std::vector<double> dqdxR(nDim);
// interpolate nodal values to point-in-elem
const int sizeOfScalarField = 1;
const int sizeOfVectorField = nDim;
// parallel communicate ghosted entities
if ( NULL != realm_.contactManager_->contactGhosting_ )
stk::mesh::communicate_field_data(*(realm_.contactManager_->contactGhosting_), ghostFieldVec_);
// iterate contactInfoVec_
std::vector<ContactInfo *>::iterator ii;
for( ii=realm_.contactManager_->contactInfoVec_.begin();
ii!=realm_.contactManager_->contactInfoVec_.end(); ++ii ) {
// get master element type for this contactInfo
MasterElement *meSCS = (*ii)->meSCS_;
const int nodesPerElement = meSCS->nodesPerElement_;
std::vector <double > elemNodalQ(nodesPerElement);
std::vector <double > elemNodalDiffFluxCoeff(nodesPerElement);
std::vector <double > elemNodalCoords(nDim*nodesPerElement);
std::vector <double > elemNodalDqdx(nDim*nodesPerElement);
std::vector <double > shpfc(nodesPerElement);
// resize some things; matrix related
const int npePlusOne = nodesPerElement+1;
const int lhsSize = npePlusOne*npePlusOne;
const int rhsSize = npePlusOne;
lhs.resize(lhsSize);
rhs.resize(rhsSize);
scratchIds.resize(rhsSize);
scratchVals.resize(rhsSize);
connected_nodes.resize(npePlusOne);
// pointer to lhs/rhs
double *p_lhs = &lhs[0];
double *p_rhs = &rhs[0];
// iterate halo face nodes
std::map<uint64_t, HaloInfo *>::iterator iterHalo;
for (iterHalo = (*ii)->haloInfoMap_.begin();
iterHalo != (*ii)->haloInfoMap_.end();
++iterHalo) {
// halo info object of interest
HaloInfo * infoObject = (*iterHalo).second;
// zeroing of lhs/rhs
for ( int k = 0; k < lhsSize; ++k ) {
p_lhs[k] = 0.0;
}
for ( int k = 0; k < rhsSize; ++k ) {
p_rhs[k] = 0.0;
}
// pointer to edge area vector
const double *p_areaVec = &infoObject->haloEdgeAreaVec_[0];
// extract element mesh object and global id for face node
stk::mesh::Entity elem = infoObject->owningElement_;
stk::mesh::Entity const* elem_node_rels = bulk_data.begin_nodes(elem);
const int num_nodes = bulk_data.num_nodes(elem);
// now load the elemental values for future interpolation; fill in connected nodes
connected_nodes[0] = infoObject->faceNode_;
for ( int ni = 0; ni < num_nodes; ++ni ) {
stk::mesh::Entity node = elem_node_rels[ni];
connected_nodes[ni+1] = node;
elemNodalQ[ni] = *stk::mesh::field_data(*scalarQ_, node);
elemNodalDiffFluxCoeff[ni] = *stk::mesh::field_data(*diffFluxCoeff_, node);
// load up vectors
const double * Gjq = stk::mesh::field_data(*dqdx_, node );
const double * coords = stk::mesh::field_data(*coordinates_, node );
for ( int j = 0; j < nDim; ++j ) {
const int offSet = j*nodesPerElement +ni;
elemNodalDqdx[offSet] = Gjq[j];
elemNodalCoords[offSet] = coords[j];
}
}
// extract nodal fields; right state is Halo and requires inperpolation
const double *coordL = stk::mesh::field_data(*coordinates_, infoObject->faceNode_);
const double *coordR = &infoObject->haloNodalCoords_[0];
const double qNp1L = *stk::mesh::field_data(scalarQNp1, infoObject->faceNode_);
meSCS->interpolatePoint(
sizeOfScalarField,
&(infoObject->isoParCoords_[0]),
&elemNodalQ[0],
&qNp1R);
// possible Hermite polynomial interpolation
if (NULL != hermite_) {
double qNp1H = 0;
hermite_->do_hermite(&elemNodalQ[0], &elemNodalCoords[0], &elemNodalDqdx[0], &coordR[0], qNp1H);
qNp1R = qNp1H;
}
const double diffFluxCoeffL = *stk::mesh::field_data(*diffFluxCoeff_, infoObject->faceNode_);
meSCS->interpolatePoint(
sizeOfScalarField,
&(infoObject->isoParCoords_[0]),
&elemNodalDiffFluxCoeff[0],
&diffFluxCoeffR);
// deal with nodal dqdx
const double *dqdxL = stk::mesh::field_data(*dqdx_, infoObject->faceNode_);
meSCS->interpolatePoint(
sizeOfVectorField,
&(infoObject->isoParCoords_[0]),
&elemNodalDqdx[0],
&(dqdxR[0]));
// ip props
const double viscIp = 0.5*(diffFluxCoeffL + diffFluxCoeffR);
// compute geometry
double axdx = 0.0;
double asq = 0.0;
for (int j = 0; j < nDim; ++j ) {
const double dxj = coordR[j] - coordL[j];
const double axj = p_areaVec[j];
axdx += axj*dxj;
asq += axj*axj;
}
const double inv_axdx = 1.0/axdx;
// NOC
double nonOrth = 0.0;
for ( int j = 0; j < nDim; ++j ) {
const double axj = p_areaVec[j];
const double dxj = coordR[j] - coordL[j];
// now non-orth (over-relaxed procedure of Jasek)
const double kxj = axj - asq*inv_axdx*dxj;
const double GjIp = 0.5*(dqdxL[j] + dqdxR[j]);
nonOrth += -viscIp*kxj*GjIp;
}
// iterate owning element nodes and form pair
meSCS->general_shape_fcn(1, &(infoObject->isoParCoords_[0]), &shpfc[0]);
const double lhsFac = -viscIp*asq*inv_axdx;
const double diffFlux = lhsFac*(qNp1R-qNp1L) + nonOrth;
// setup for LHS; row left is easy - simply zero
// left node (face)
p_rhs[0] = -diffFlux;
p_lhs[0] = -lhsFac;
for ( int ni = 0; ni < num_nodes; ++ni ) {
p_lhs[ni+1] = lhsFac*shpfc[ni];
}
// apply to linear system
apply_coeff(connected_nodes, scratchIds, scratchVals, rhs, lhs, __FILE__);
}
}
}
//--------------------------------------------------------------------------
//-------- execute ---------------------------------------------------------
//--------------------------------------------------------------------------
void
AssembleMomentumEdgeContactSolverAlgorithm::execute()
{
stk::mesh::MetaData & meta_data = realm_.meta_data();
stk::mesh::BulkData & bulk_data = realm_.bulk_data();
const int nDim = meta_data.spatial_dimension();
const double small = 1.0e-16;
// extract user advection options (allow to potentially change over time)
const std::string dofName = "velocity";
const double alpha = realm_.get_alpha_factor(dofName);
const double alphaUpw = realm_.get_alpha_upw_factor(dofName);
const double hoUpwind = realm_.get_upw_factor(dofName);
const bool useLimiter = realm_.primitive_uses_limiter(dofName);
// one minus flavor
const double om_alpha = 1.0-alpha;
const double om_alphaUpw = 1.0-alphaUpw;
// space for LHS/RHS; (nodesPerElem+1)*nDim*(nodesPerElem+1)*nDim; (nodesPerElem+1)*nDim
std::vector<double> lhs;
std::vector<double> rhs;
std::vector<stk::mesh::Entity> connected_nodes;
// space for dui/dxj. This variable is the modifed gradient with NOC
std::vector<double> duidxj(nDim*nDim);
// extrapolated value from the L/R direction
std::vector<double> uIpL(nDim);
std::vector<double> uIpR(nDim);
// limiter values from the L/R direction, 0:1
std::vector<double> limitL(nDim,1.0);
std::vector<double> limitR(nDim,1.0);
// extrapolated gradient from L/R direction
std::vector<double> duL(nDim);
std::vector<double> duR(nDim);
// pointers for fast access
double *p_duidxj = &duidxj[0];
double *p_uIpL = &uIpL[0];
double *p_uIpR = &uIpR[0];
double *p_limitL = &limitL[0];
double *p_limitR = &limitR[0];
double *p_duL = &duL[0];
double *p_duR = &duR[0];
// space for interpolated right state (halo)
double densityR;
double viscosityR;
std::vector<double> uNp1R(nDim);
std::vector<double> dudxR(nDim*nDim);
// interpolate nodal values to point-in-elem
const int sizeOfScalarField = 1;
const int sizeOfVectorField = nDim;
const int sizeOfTensorField = nDim*nDim;
// deal with state
VectorFieldType &velocityNp1 = velocity_->field_of_state(stk::mesh::StateNP1);
ScalarFieldType &densityNp1 = density_->field_of_state(stk::mesh::StateNP1);
// mesh motion
std::vector<double> vrtmL(nDim);
std::vector<double> vrtmR(nDim);
double * p_vrtmL = &vrtmL[0];
double * p_vrtmR = &vrtmR[0];
// parallel communicate ghosted entities
if ( NULL != realm_.contactManager_->contactGhosting_ )
stk::mesh::communicate_field_data(*(realm_.contactManager_->contactGhosting_), ghostFieldVec_);
// iterate contactInfoVec_
std::vector<ContactInfo *>::iterator ii;
for( ii=realm_.contactManager_->contactInfoVec_.begin();
ii!=realm_.contactManager_->contactInfoVec_.end(); ++ii ) {
// get master element type for this contactInfo
MasterElement *meSCS = (*ii)->meSCS_;
const int nodesPerElement = meSCS->nodesPerElement_;
std::vector<double> elemNodalP(nodesPerElement);
std::vector<double> elemNodalUnp1(nDim*nodesPerElement);
std::vector<double> elemNodalVisc(nodesPerElement);
std::vector<double> elemNodalRho(nodesPerElement);
std::vector<double> elemNodalDudx(nDim*nDim*nodesPerElement);
std::vector<double> shpfc(nodesPerElement);
// resize some things; matrix related
const int npePlusOne = nodesPerElement+1;
const int lhsSize = npePlusOne*nDim*npePlusOne*nDim;
const int rhsSize = npePlusOne*nDim;
lhs.resize(lhsSize);
rhs.resize(rhsSize);
connected_nodes.resize(npePlusOne);
// pointer to lhs/rhs
double *p_lhs = &lhs[0];
double *p_rhs = &rhs[0];
// scaling for lhs
const double inv_nodesPerElement = 1.0/double(nodesPerElement);
// iterate halo face nodes
std::map<uint64_t, HaloInfo *>::iterator iterHalo;
for (iterHalo = (*ii)->haloInfoMap_.begin();
iterHalo != (*ii)->haloInfoMap_.end();
++iterHalo) {
// halo info object of interest
HaloInfo * infoObject = (*iterHalo).second;
// zeroing of lhs/rhs
for ( int k = 0; k < lhsSize; ++k ) {
p_lhs[k] = 0.0;
}
for ( int k = 0; k < rhsSize; ++k ) {
p_rhs[k] = 0.0;
}
// pointer to edge area vector and mdot
const double *p_areaVec = &infoObject->haloEdgeAreaVec_[0];
const double tmdot = *stk::mesh::field_data(*haloMdot_, infoObject->faceNode_);
// extract element mesh object and global id for face node
stk::mesh::Entity elem = infoObject->owningElement_;
stk::mesh::Entity const* elem_node_rels = bulk_data.begin_nodes(elem);
const int num_nodes = bulk_data.num_nodes(elem);
// now load the elemental values for future interpolation; fill in connected nodes
connected_nodes[0] = infoObject->faceNode_;
for ( int ni = 0; ni < num_nodes; ++ni ) {
stk::mesh::Entity node = elem_node_rels[ni];
connected_nodes[ni+1] = node;
elemNodalRho[ni] = *stk::mesh::field_data(densityNp1, node);
elemNodalVisc[ni] = *stk::mesh::field_data(*viscosity_, node);
// load up vectors/tensor
const double *uNp1 = stk::mesh::field_data(velocityNp1, node );
const double *dudx = stk::mesh::field_data(*dudx_, node );
for ( int i = 0; i < nDim; ++i ) {
const int offSet = i*nodesPerElement + ni;
elemNodalUnp1[offSet] = uNp1[i];
const int rowI = i*nDim;
const int offSetT = i*nodesPerElement*nDim;
for ( int j = 0; j < nDim; ++j ) {
elemNodalDudx[offSetT+j*nodesPerElement+ni] = dudx[rowI+j];
}
}
}
// extract nodal fields; right state is Halo and requires inperpolation
const double *coordL = stk::mesh::field_data(*coordinates_, infoObject->faceNode_);
const double *coordR = &infoObject->haloNodalCoords_[0];
const double *dudxL = stk::mesh::field_data(*dudx_, infoObject->faceNode_);
meSCS->interpolatePoint(
sizeOfTensorField,
&(infoObject->isoParCoords_[0]),
&elemNodalDudx[0],
&(dudxR[0]));
const double *uNp1L = stk::mesh::field_data(velocityNp1, infoObject->faceNode_);
meSCS->interpolatePoint(
sizeOfVectorField,
&(infoObject->isoParCoords_[0]),
&elemNodalUnp1[0],
&(uNp1R[0]));
const double densityL = *stk::mesh::field_data(densityNp1, infoObject->faceNode_);
meSCS->interpolatePoint(
sizeOfScalarField,
&(infoObject->isoParCoords_[0]),
&elemNodalRho[0],
&densityR);
const double viscosityL = *stk::mesh::field_data(*viscosity_, infoObject->faceNode_);
meSCS->interpolatePoint(
sizeOfScalarField,
&(infoObject->isoParCoords_[0]),
&elemNodalVisc[0],
&viscosityR);
// copy to velocity relative to mesh; squeeze in extrapolated values
for ( int i = 0; i < nDim; ++i ) {
p_vrtmL[i] = uNp1L[i];
p_vrtmR[i] = uNp1R[i];
// extrapolated du
p_duL[i] = 0.0;
p_duR[i] = 0.0;
const int offSet = nDim*i;
for ( int j = 0; j < nDim; ++j ) {
const double dxj = 0.5*(coordR[j] - coordL[j]);
p_duL[i] += dxj*dudxL[offSet+j];
p_duR[i] += dxj*dudxR[offSet+j];
}
}
// deal with mesh motion
if ( meshMotion_ ) {
const double * meshVelocityL = stk::mesh::field_data(*meshVelocity_, infoObject->faceNode_);
const double * meshVelocityR = &(infoObject->haloMeshVelocity_[0]);
for (int j = 0; j < nDim; ++j ) {
p_vrtmL[j] -= meshVelocityL[j];
p_vrtmR[j] -= meshVelocityR[j];
}
}
// compute geometry
double axdx = 0.0;
double asq = 0.0;
double udotx = 0.0;
for (int j = 0; j < nDim; ++j ) {
const double axj = p_areaVec[j];
const double dxj = coordR[j] - coordL[j];
axdx += axj*dxj;
asq += axj*axj;
udotx += 0.5*dxj*(p_vrtmL[j] + p_vrtmR[j]);
}
const double inv_axdx = 1.0/axdx;
// ip props
const double viscIp = 0.5*(viscosityL + viscosityR);
const double diffIp = 0.5*(viscosityL/densityL + viscosityR/densityR);
// Peclet factor
const double pecfac = pecletFunction_->execute(std::abs(udotx)/(diffIp+small));
const double om_pecfac = 1.0-pecfac;
// determine limiter if applicable
if ( useLimiter ) {
for ( int i = 0; i < nDim; ++i ) {
const double dq = uNp1R[i] - uNp1L[i];
const double dqMl = 2.0*2.0*p_duL[i] - dq;
const double dqMr = 2.0*2.0*p_duR[i] - dq;
p_limitL[i] = van_leer(dqMl, dq, small);
p_limitR[i] = van_leer(dqMr, dq, small);
}
}
// final upwind extrapolation; with limiter
for ( int i = 0; i < nDim; ++i ) {
p_uIpL[i] = uNp1L[i] + p_duL[i]*hoUpwind*p_limitL[i];
p_uIpR[i] = uNp1R[i] - p_duR[i]*hoUpwind*p_limitR[i];
}
/*
form duidxj with over-relaxed procedure of Jasak:
dui/dxj = GjUi +[(uiR - uiL) - GlUi*dxl]*Aj/AxDx
where Gp is the interpolated pth nodal gradient for ui
*/
for ( int i = 0; i < nDim; ++i ) {
// difference between R and L nodes for component i
const double uidiff = uNp1R[i] - uNp1L[i];
// offset into all forms of dudx
const int offSetI = nDim*i;
// start sum for NOC contribution
double GlUidxl = 0.0;
for ( int l = 0; l< nDim; ++l ) {
const int offSetIL = offSetI+l;
const double dxl = coordR[l] - coordL[l];
const double GlUi = 0.5*(dudxL[offSetIL] + dudxR[offSetIL]);
GlUidxl += GlUi*dxl;
}
// form full tensor dui/dxj with NOC
for ( int j = 0; j < nDim; ++j ) {
const int offSetIJ = offSetI+j;
const double axj = p_areaVec[j];
const double GjUi = 0.5*(dudxL[offSetIJ] + dudxR[offSetIJ]);
p_duidxj[offSetIJ] = GjUi + (uidiff - GlUidxl)*axj*inv_axdx;
}
}
// divU
double divU = 0.0;
for ( int j = 0; j < nDim; ++j)
divU += p_duidxj[j*nDim+j];
// lhs diffusion; only -mu*dui/dxj*Aj contribution for now
const double dlhsfac = -viscIp*asq*inv_axdx;
for ( int i = 0; i < nDim; ++i ) {
// 2nd order central
const double uiIp = 0.5*(uNp1R[i] + uNp1L[i]);
// upwind
const double uiUpwind = (tmdot > 0) ? alphaUpw*p_uIpL[i] + om_alphaUpw*uiIp
: alphaUpw*p_uIpR[i] + om_alphaUpw*uiIp;
// generalized central (2nd and 4th order)
const double uiHatL = alpha*p_uIpL[i] + om_alpha*uiIp;
const double uiHatR = alpha*p_uIpR[i] + om_alpha*uiIp;
const double uiCds = 0.5*(uiHatL + uiHatR);
// total advection; pressure contribution in time term expression
const double aflux = tmdot*(pecfac*uiUpwind + om_pecfac*uiCds);
// diffusive flux; viscous tensor doted with area vector
double dflux = 2.0/3.0*viscIp*divU*p_areaVec[i]*includeDivU_;
const int offSetI = nDim*i;
for ( int j = 0; j < nDim; ++j ) {
const int offSetTrans = nDim*j+i;
const double axj = p_areaVec[j];
dflux += -viscIp*(p_duidxj[offSetI+j] + p_duidxj[offSetTrans])*axj;
}
// residal for total flux
meSCS->general_shape_fcn(1, &(infoObject->isoParCoords_[0]), &shpfc[0]);
const double tflux = aflux + dflux;
const int indexL = i;
// setup for LHS; row left is easy
const int rowL = indexL * npePlusOne * nDim;
const int rLiL = rowL+indexL;
// total flux left
p_rhs[indexL] -= tflux;
// for ease of reading, scale left node by nodesPerElement
for ( int ni = 0; ni < num_nodes; ++ni ) {
const int indexR = i + nDim*(ni+1);
const int rLiR = rowL+indexR;
//==============================
// advection first
//==============================
// upwind advection (includes 4th); left node
double alhsfac = 0.5*(tmdot+std::abs(tmdot))*pecfac*alphaUpw
+ 0.5*alpha*om_pecfac*tmdot;
p_lhs[rLiL] += alhsfac*inv_nodesPerElement;
// upwind advection (incldues 4th); right node
alhsfac = 0.5*(tmdot-std::abs(tmdot))*pecfac*alphaUpw
+ 0.5*alpha*om_pecfac*tmdot;
p_lhs[rLiR] += alhsfac*shpfc[ni];
// central; left; collect terms on alpha and alphaUpw
alhsfac = 0.5*tmdot*(pecfac*om_alphaUpw + om_pecfac*om_alpha);
p_lhs[rLiL] += alhsfac*inv_nodesPerElement;
p_lhs[rLiR] += alhsfac*shpfc[ni];
// central; right n/a
//==============================
// diffusion second
//==============================
const double axi = p_areaVec[i];
//diffusion; row IL
p_lhs[rLiL] -= dlhsfac*inv_nodesPerElement;
p_lhs[rLiR] += dlhsfac*shpfc[ni];
// diffusion; row IR; n/a
// more diffusion; see theory manual
for ( int j = 0; j < nDim; ++j ) {
const double lhsfacNS = -viscIp*axi*p_areaVec[j]*inv_axdx;
const int colL = j;
const int colR = j + nDim*(ni+1);
// first left; IL,IL; IL,IR
p_lhs[rowL + colL] -= lhsfacNS*inv_nodesPerElement;
p_lhs[rowL + colR] += lhsfacNS*shpfc[ni];
// now right, IR,IL; IR,IR; n/a
}
}
}
// apply to linear system
apply_coeff(connected_nodes, rhs, lhs, __FILE__);
}
}
}
//--------------------------------------------------------------------------
//-------- execute ---------------------------------------------------------
//--------------------------------------------------------------------------
void
AssembleContinuityNonConformalSolverAlgorithm::execute()
{
stk::mesh::BulkData & bulk_data = realm_.bulk_data();
stk::mesh::MetaData & meta_data = realm_.meta_data();
const int nDim = meta_data.spatial_dimension();
// continuity equation scales by projection time scale
const double dt = realm_.get_time_step();
const double gamma1 = realm_.get_gamma1();
const double projTimeScale = dt/gamma1;
// deal with interpolation procedure
const double interpTogether = realm_.get_mdot_interp();
const double om_interpTogether = 1.0-interpTogether;
// space for LHS/RHS; nodesPerElem*nodesPerElem and nodesPerElem
std::vector<double> lhs;
std::vector<double> rhs;
std::vector<int> scratchIds;
std::vector<double> scratchVals;
std::vector<stk::mesh::Entity> connected_nodes;
// ip values; both boundary and opposing surface
std::vector<double> currentIsoParCoords(nDim);
std::vector<double> opposingIsoParCoords(nDim);
std::vector<double> cNx(nDim);
std::vector<double> oNx(nDim);
std::vector<double> currentVelocityBip(nDim);
std::vector<double> opposingVelocityBip(nDim);
std::vector<double> currentRhoVelocityBip(nDim);
std::vector<double> opposingRhoVelocityBip(nDim);
std::vector<double> currentMeshVelocityBip(nDim);
std::vector<double> currentRhoMeshVelocityBip(nDim);
// pressure stabilization
std::vector<double> currentGjpBip(nDim);
std::vector<double> opposingGjpBip(nDim);
std::vector<double> currentDpdxBip(nDim);
std::vector<double> opposingDpdxBip(nDim);
// mapping for -1:1 -> -0.5:0.5 volume element
std::vector<double> currentElementIsoParCoords(nDim);
std::vector<double> opposingElementIsoParCoords(nDim);
// interpolate nodal values to point-in-elem
const int sizeOfScalarField = 1;
const int sizeOfVectorField = nDim;
// pointers to fixed values
double *p_cNx = &cNx[0];
double *p_oNx = &oNx[0];
// nodal fields to gather; face
std::vector<double> ws_c_pressure;
std::vector<double> ws_o_pressure;
std::vector<double> ws_c_Gjp;
std::vector<double> ws_o_Gjp;
std::vector<double> ws_c_velocity;
std::vector<double> ws_o_velocity;
std::vector<double> ws_c_meshVelocity; // only require current
std::vector<double> ws_c_density;
std::vector<double> ws_o_density;
std::vector<double> ws_o_coordinates; // only require opposing
// element
std::vector<double> ws_c_elem_pressure;
std::vector<double> ws_o_elem_pressure;
std::vector<double> ws_c_elem_coordinates;
std::vector<double> ws_o_elem_coordinates;
// master element data
std::vector<double> ws_c_dndx;
std::vector<double> ws_o_dndx;
std::vector<double> ws_c_det_j;
std::vector<double> ws_o_det_j;
std::vector <double > ws_c_general_shape_function;
std::vector <double > ws_o_general_shape_function;
// deal with state
ScalarFieldType &pressureNp1 = pressure_->field_of_state(stk::mesh::StateNP1);
// parallel communicate ghosted entities
if ( NULL != realm_.nonConformalManager_->nonConformalGhosting_ )
stk::mesh::communicate_field_data(*(realm_.nonConformalManager_->nonConformalGhosting_), ghostFieldVec_);
// iterate nonConformalManager's dgInfoVec
std::vector<NonConformalInfo *>::iterator ii;
for( ii=realm_.nonConformalManager_->nonConformalInfoVec_.begin();
ii!=realm_.nonConformalManager_->nonConformalInfoVec_.end(); ++ii ) {
// extract vector of DgInfo
std::vector<std::vector<DgInfo *> > &dgInfoVec = (*ii)->dgInfoVec_;
std::vector<std::vector<DgInfo*> >::iterator idg;
for( idg=dgInfoVec.begin(); idg!=dgInfoVec.end(); ++idg ) {
std::vector<DgInfo *> &faceDgInfoVec = (*idg);
// now loop over all the DgInfo objects on this particular exposed face
for ( size_t k = 0; k < faceDgInfoVec.size(); ++k ) {
DgInfo *dgInfo = faceDgInfoVec[k];
// extract current/opposing face/element
stk::mesh::Entity currentFace = dgInfo->currentFace_;
stk::mesh::Entity opposingFace = dgInfo->opposingFace_;
stk::mesh::Entity currentElement = dgInfo->currentElement_;
stk::mesh::Entity opposingElement = dgInfo->opposingElement_;
const int currentFaceOrdinal = dgInfo->currentFaceOrdinal_;
const int opposingFaceOrdinal = dgInfo->opposingFaceOrdinal_;
// master element; face and volume
MasterElement * meFCCurrent = dgInfo->meFCCurrent_;
MasterElement * meFCOpposing = dgInfo->meFCOpposing_;
MasterElement * meSCSCurrent = dgInfo->meSCSCurrent_;
MasterElement * meSCSOpposing = dgInfo->meSCSOpposing_;
// local ip, ordinals, etc
const int currentGaussPointId = dgInfo->currentGaussPointId_;
currentIsoParCoords = dgInfo->currentIsoParCoords_;
opposingIsoParCoords = dgInfo->opposingIsoParCoords_;
// mapping from ip to nodes for this ordinal
const int *ipNodeMap = meSCSCurrent->ipNodeMap(currentFaceOrdinal);
// extract some master element info
const int currentNodesPerFace = meFCCurrent->nodesPerElement_;
const int opposingNodesPerFace = meFCOpposing->nodesPerElement_;
const int currentNodesPerElement = meSCSCurrent->nodesPerElement_;
const int opposingNodesPerElement = meSCSOpposing->nodesPerElement_;
// resize some things; matrix related
const int totalNodes = currentNodesPerElement + opposingNodesPerElement;
const int lhsSize = totalNodes*totalNodes;
const int rhsSize = totalNodes;
lhs.resize(lhsSize);
rhs.resize(rhsSize);
scratchIds.resize(rhsSize);
scratchVals.resize(rhsSize);
connected_nodes.resize(totalNodes);
// algorithm related; face
ws_c_pressure.resize(currentNodesPerFace);
ws_o_pressure.resize(opposingNodesPerFace);
ws_c_Gjp.resize(currentNodesPerFace*nDim);
ws_o_Gjp.resize(opposingNodesPerFace*nDim);
ws_c_velocity.resize(currentNodesPerFace*nDim);
ws_o_velocity.resize(opposingNodesPerFace*nDim);
ws_c_meshVelocity.resize(currentNodesPerFace*nDim);
ws_c_density.resize(currentNodesPerFace);
ws_o_density.resize(opposingNodesPerFace);
ws_o_coordinates.resize(opposingNodesPerFace*nDim);
ws_c_general_shape_function.resize(currentNodesPerFace);
ws_o_general_shape_function.resize(opposingNodesPerFace);
// algorithm related; element; dndx will be at a single gauss point
ws_c_elem_pressure.resize(currentNodesPerElement);
ws_o_elem_pressure.resize(opposingNodesPerElement);
ws_c_elem_coordinates.resize(currentNodesPerElement*nDim);
ws_o_elem_coordinates.resize(opposingNodesPerElement*nDim);
ws_c_dndx.resize(nDim*currentNodesPerElement);
ws_o_dndx.resize(nDim*opposingNodesPerElement);
ws_c_det_j.resize(1);
ws_o_det_j.resize(1);
// pointers
double *p_lhs = &lhs[0];
double *p_rhs = &rhs[0];
// face
double *p_c_pressure = &ws_c_pressure[0];
double *p_o_pressure = &ws_o_pressure[0];
double *p_c_Gjp = &ws_c_Gjp[0];
double *p_o_Gjp = &ws_o_Gjp[0];
double *p_c_velocity = &ws_c_velocity[0];
double *p_o_velocity= &ws_o_velocity[0];
double *p_c_meshVelocity = &ws_c_meshVelocity[0];
double *p_c_density = &ws_c_density[0];
double *p_o_density = &ws_o_density[0];
double *p_o_coordinates = &ws_o_coordinates[0];
// element
double *p_c_elem_pressure = &ws_c_elem_pressure[0];
double *p_o_elem_pressure = &ws_o_elem_pressure[0];
double *p_c_elem_coordinates = &ws_c_elem_coordinates[0];
double *p_o_elem_coordinates = &ws_o_elem_coordinates[0];
// me pointers
double *p_c_general_shape_function = &ws_c_general_shape_function[0];
double *p_o_general_shape_function = &ws_o_general_shape_function[0];
double *p_c_dndx = &ws_c_dndx[0];
double *p_o_dndx = &ws_o_dndx[0];
// populate current face_node_ordinals
const int *c_face_node_ordinals = meSCSCurrent->side_node_ordinals(currentFaceOrdinal);
// gather current face data
stk::mesh::Entity const* current_face_node_rels = bulk_data.begin_nodes(currentFace);
const int current_num_face_nodes = bulk_data.num_nodes(currentFace);
for ( int ni = 0; ni < current_num_face_nodes; ++ni ) {
stk::mesh::Entity node = current_face_node_rels[ni];
// gather; scalar
p_c_pressure[ni] = *stk::mesh::field_data(pressureNp1, node);
p_c_density[ni] = *stk::mesh::field_data(*density_, node);
// gather; vector
const double *velocity = stk::mesh::field_data(*velocity_, node );
const double *meshVelocity = stk::mesh::field_data(*meshVelocity_, node );
const double *Gjp = stk::mesh::field_data(*Gjp_, node );
for ( int i = 0; i < nDim; ++i ) {
const int offSet = i*current_num_face_nodes + ni;
p_c_velocity[offSet] = velocity[i];
p_c_meshVelocity[offSet] = meshVelocity[i];
p_c_Gjp[offSet] = Gjp[i];
}
}
// populate opposing face_node_ordinals
const int *o_face_node_ordinals = meSCSOpposing->side_node_ordinals(opposingFaceOrdinal);
// gather opposing face data
stk::mesh::Entity const* opposing_face_node_rels = bulk_data.begin_nodes(opposingFace);
const int opposing_num_face_nodes = bulk_data.num_nodes(opposingFace);
for ( int ni = 0; ni < opposing_num_face_nodes; ++ni ) {
stk::mesh::Entity node = opposing_face_node_rels[ni];
// gather; scalar
p_o_pressure[ni] = *stk::mesh::field_data(pressureNp1, node);
p_o_density[ni] = *stk::mesh::field_data(*density_, node);
// gather; vector
const double *velocity = stk::mesh::field_data(*velocity_, node );
const double *Gjp = stk::mesh::field_data(*Gjp_, node );
const double *coords = stk::mesh::field_data(*coordinates_, node);
for ( int i = 0; i < nDim; ++i ) {
const int offSet = i*opposing_num_face_nodes + ni;
p_o_velocity[offSet] = velocity[i];
p_o_Gjp[offSet] = Gjp[i];
p_o_coordinates[ni*nDim+i] = coords[i];
}
}
// gather current element data
stk::mesh::Entity const* current_elem_node_rels = bulk_data.begin_nodes(currentElement);
const int current_num_elem_nodes = bulk_data.num_nodes(currentElement);
for ( int ni = 0; ni < current_num_elem_nodes; ++ni ) {
stk::mesh::Entity node = current_elem_node_rels[ni];
// set connected nodes
connected_nodes[ni] = node;
// gather; scalar
p_c_elem_pressure[ni] = *stk::mesh::field_data(pressureNp1, node);
// gather; vector
const double *coords = stk::mesh::field_data(*coordinates_, node);
const int niNdim = ni*nDim;
for ( int i = 0; i < nDim; ++i ) {
p_c_elem_coordinates[niNdim+i] = coords[i];
}
}
// gather opposing element data; sneak in second connected nodes
stk::mesh::Entity const* opposing_elem_node_rels = bulk_data.begin_nodes(opposingElement);
const int opposing_num_elem_nodes = bulk_data.num_nodes(opposingElement);
for ( int ni = 0; ni < opposing_num_elem_nodes; ++ni ) {
stk::mesh::Entity node = opposing_elem_node_rels[ni];
// set connected nodes
connected_nodes[ni+current_num_elem_nodes] = node;
// gather; scalar
p_o_elem_pressure[ni] = *stk::mesh::field_data(pressureNp1, node);
// gather; vector
const double *coords = stk::mesh::field_data(*coordinates_, node);
const int niNdim = ni*nDim;
for ( int i = 0; i < nDim; ++i ) {
p_o_elem_coordinates[niNdim+i] = coords[i];
}
}
// compute opposing normal through master element call, not using oppoing exposed area
meFCOpposing->general_normal(&opposingIsoParCoords[0], &p_o_coordinates[0], &p_oNx[0]);
// pointer to face data
const double * c_areaVec = stk::mesh::field_data(*exposedAreaVec_, currentFace);
double c_amag = 0.0;
for ( int j = 0; j < nDim; ++j ) {
const double c_axj = c_areaVec[currentGaussPointId*nDim+j];
c_amag += c_axj*c_axj;
}
c_amag = std::sqrt(c_amag);
// now compute normal
for ( int i = 0; i < nDim; ++i ) {
p_cNx[i] = c_areaVec[currentGaussPointId*nDim+i]/c_amag;
}
// override opposing normal
if ( useCurrentNormal_ ) {
for ( int i = 0; i < nDim; ++i )
p_oNx[i] = -p_cNx[i];
}
// project from side to element; method deals with the -1:1 isInElement range to the proper underlying CVFEM range
meSCSCurrent->sidePcoords_to_elemPcoords(currentFaceOrdinal, 1, ¤tIsoParCoords[0], ¤tElementIsoParCoords[0]);
meSCSOpposing->sidePcoords_to_elemPcoords(opposingFaceOrdinal, 1, &opposingIsoParCoords[0], &opposingElementIsoParCoords[0]);
// compute dndx
double scs_error = 0.0;
meSCSCurrent->general_face_grad_op(currentFaceOrdinal, ¤tElementIsoParCoords[0],
&p_c_elem_coordinates[0], &p_c_dndx[0], &ws_c_det_j[0], &scs_error);
meSCSOpposing->general_face_grad_op(opposingFaceOrdinal, &opposingElementIsoParCoords[0],
&p_o_elem_coordinates[0], &p_o_dndx[0], &ws_o_det_j[0], &scs_error);
// current inverse length scale; can loop over face nodes to avoid "nodesOnFace" array
double currentInverseLength = 0.0;
for ( int ic = 0; ic < current_num_face_nodes; ++ic ) {
const int faceNodeNumber = c_face_node_ordinals[ic];
const int offSetDnDx = faceNodeNumber*nDim; // single intg. point
for ( int j = 0; j < nDim; ++j ) {
const double nxj = p_cNx[j];
const double dndxj = p_c_dndx[offSetDnDx+j];
currentInverseLength += dndxj*nxj;
}
}
// opposing inverse length scale; can loop over face nodes to avoid "nodesOnFace" array
double opposingInverseLength = 0.0;
for ( int ic = 0; ic < opposing_num_face_nodes; ++ic ) {
const int faceNodeNumber = o_face_node_ordinals[ic];
const int offSetDnDx = faceNodeNumber*nDim; // single intg. point
for ( int j = 0; j < nDim; ++j ) {
const double nxj = p_oNx[j];
const double dndxj = p_o_dndx[offSetDnDx+j];
opposingInverseLength += dndxj*nxj;
}
}
// projected nodal gradient; zero out
for ( int j = 0; j < nDim; ++j ) {
currentDpdxBip[j] = 0.0;
opposingDpdxBip[j] = 0.0;
}
// current pressure gradient
for ( int ic = 0; ic < currentNodesPerElement; ++ic ) {
const int offSetDnDx = ic*nDim; // single intg. point
const double pNp1 = p_c_elem_pressure[ic];
for ( int j = 0; j < nDim; ++j ) {
const double dndxj = p_c_dndx[offSetDnDx+j];
currentDpdxBip[j] += dndxj*pNp1;
}
}
// opposing pressure gradient
for ( int ic = 0; ic < opposingNodesPerElement; ++ic ) {
const int offSetDnDx = ic*nDim; // single intg. point
const double pNp1 = p_o_elem_pressure[ic];
for ( int j = 0; j < nDim; ++j ) {
const double dndxj = p_o_dndx[offSetDnDx+j];
opposingDpdxBip[j] += dndxj*pNp1;
}
}
// interpolate to boundary ips
double currentPressureBip = 0.0;
meFCCurrent->interpolatePoint(
sizeOfScalarField,
&(dgInfo->currentIsoParCoords_[0]),
&ws_c_pressure[0],
¤tPressureBip);
double opposingPressureBip = 0.0;
meFCOpposing->interpolatePoint(
sizeOfScalarField,
&(dgInfo->opposingIsoParCoords_[0]),
&ws_o_pressure[0],
&opposingPressureBip);
// velocity
meFCCurrent->interpolatePoint(
sizeOfVectorField,
&(dgInfo->currentIsoParCoords_[0]),
&ws_c_velocity[0],
¤tVelocityBip[0]);
meFCOpposing->interpolatePoint(
sizeOfVectorField,
&(dgInfo->opposingIsoParCoords_[0]),
&ws_o_velocity[0],
&opposingVelocityBip[0]);
// mesh velocity; only required at current
meFCCurrent->interpolatePoint(
sizeOfVectorField,
&(dgInfo->currentIsoParCoords_[0]),
&ws_c_meshVelocity[0],
¤tMeshVelocityBip[0]);
// projected nodal gradient
meFCCurrent->interpolatePoint(
sizeOfVectorField,
&(dgInfo->currentIsoParCoords_[0]),
&ws_c_Gjp[0],
¤tGjpBip[0]);
meFCOpposing->interpolatePoint(
sizeOfVectorField,
&(dgInfo->opposingIsoParCoords_[0]),
&ws_o_Gjp[0],
&opposingGjpBip[0]);
// density
double currentDensityBip = 0.0;
meFCCurrent->interpolatePoint(
sizeOfScalarField,
&(dgInfo->currentIsoParCoords_[0]),
&ws_c_density[0],
¤tDensityBip);
double opposingDensityBip = 0.0;
meFCOpposing->interpolatePoint(
sizeOfScalarField,
&(dgInfo->opposingIsoParCoords_[0]),
&ws_o_density[0],
&opposingDensityBip);
// product of density and velocity; current (take over previous nodal value for velocity)
for ( int ni = 0; ni < current_num_face_nodes; ++ni ) {
const double density = p_c_density[ni];
for ( int i = 0; i < nDim; ++i ) {
const int offSet = i*current_num_face_nodes + ni;
p_c_velocity[offSet] *= density;
p_c_meshVelocity[offSet] *= density;
}
}
// opposite
for ( int ni = 0; ni < opposing_num_face_nodes; ++ni ) {
const double density = p_o_density[ni];
for ( int i = 0; i < nDim; ++i ) {
const int offSet = i*opposing_num_face_nodes + ni;
p_o_velocity[offSet] *= density;
}
}
// interpolate velocity with density scaling
meFCCurrent->interpolatePoint(
sizeOfVectorField,
&(dgInfo->currentIsoParCoords_[0]),
&ws_c_velocity[0],
¤tRhoVelocityBip[0]);
meFCOpposing->interpolatePoint(
sizeOfVectorField,
&(dgInfo->opposingIsoParCoords_[0]),
&ws_o_velocity[0],
&opposingRhoVelocityBip[0]);
// interpolate mesh velocity with density scaling; only current
meFCCurrent->interpolatePoint(
sizeOfVectorField,
&(dgInfo->currentIsoParCoords_[0]),
&ws_c_meshVelocity[0],
¤tRhoMeshVelocityBip[0]);
// zero lhs/rhs
for ( int p = 0; p < lhsSize; ++p )
p_lhs[p] = 0.0;
for ( int p = 0; p < rhsSize; ++p )
p_rhs[p] = 0.0;
const double penaltyIp = projTimeScale*0.5*(currentInverseLength + opposingInverseLength);
double ncFlux = 0.0;
double ncPstabFlux = 0.0;
for ( int j = 0; j < nDim; ++j ) {
const double cRhoVelocity = interpTogether*currentRhoVelocityBip[j] + om_interpTogether*currentDensityBip*currentVelocityBip[j];
const double oRhoVelocity = interpTogether*opposingRhoVelocityBip[j] + om_interpTogether*opposingDensityBip*opposingVelocityBip[j];
const double cRhoMeshVelocity = interpTogether*currentRhoMeshVelocityBip[j] + om_interpTogether*currentDensityBip*currentMeshVelocityBip[j];
ncFlux += 0.5*(cRhoVelocity*p_cNx[j] - oRhoVelocity*p_oNx[j]) - meshMotionFac_*cRhoMeshVelocity*p_cNx[j];
const double cPstab = currentDpdxBip[j] - currentGjpBip[j];
const double oPstab = opposingDpdxBip[j] - opposingGjpBip[j];
ncPstabFlux += 0.5*(cPstab*p_cNx[j] - oPstab*p_oNx[j]);
}
const double mdot = (ncFlux - includePstab_*projTimeScale*ncPstabFlux + penaltyIp*(currentPressureBip - opposingPressureBip))*c_amag;
// form residual
const int nn = ipNodeMap[currentGaussPointId];
p_rhs[nn] -= mdot/projTimeScale;
// set-up row for matrix
const int rowR = nn*totalNodes;
double lhsFac = penaltyIp*c_amag/projTimeScale;
// sensitivities; current face (penalty); use general shape function for this single ip
meFCCurrent->general_shape_fcn(1, ¤tIsoParCoords[0], &ws_c_general_shape_function[0]);
for ( int ic = 0; ic < currentNodesPerFace; ++ic ) {
const int icnn = c_face_node_ordinals[ic];
const double r = p_c_general_shape_function[ic];
p_lhs[rowR+icnn] += r*lhsFac;
}
// sensitivities; current element (diffusion)
for ( int ic = 0; ic < currentNodesPerElement; ++ic ) {
const int offSetDnDx = ic*nDim; // single intg. point
double lhscd = 0.0;
for ( int j = 0; j < nDim; ++j ) {
const double nxj = p_cNx[j];
const double dndxj = p_c_dndx[offSetDnDx+j];
lhscd -= dndxj*nxj;
}
p_lhs[rowR+ic] += 0.5*lhscd*c_amag*includePstab_;
}
// sensitivities; opposing face (penalty); use general shape function for this single ip
meFCOpposing->general_shape_fcn(1, &opposingIsoParCoords[0], &ws_o_general_shape_function[0]);
for ( int ic = 0; ic < opposingNodesPerFace; ++ic ) {
const int icnn = o_face_node_ordinals[ic];
const double r = p_o_general_shape_function[ic];
p_lhs[rowR+icnn+currentNodesPerElement] -= r*lhsFac;
}
// sensitivities; opposing element (diffusion)
for ( int ic = 0; ic < opposingNodesPerElement; ++ic ) {
const int offSetDnDx = ic*nDim; // single intg. point
double lhscd = 0.0;
for ( int j = 0; j < nDim; ++j ) {
const double nxj = p_oNx[j];
const double dndxj = p_o_dndx[offSetDnDx+j];
lhscd -= dndxj*nxj;
}
p_lhs[rowR+ic+currentNodesPerElement] -= 0.5*lhscd*c_amag*includePstab_;
}
apply_coeff(connected_nodes, scratchIds, scratchVals, rhs, lhs, __FILE__);
}
}
}
}
//--------------------------------------------------------------------------
//-------- execute ---------------------------------------------------------
//--------------------------------------------------------------------------
void
AssembleScalarNonConformalSolverAlgorithm::execute()
{
stk::mesh::BulkData & bulk_data = realm_.bulk_data();
stk::mesh::MetaData & meta_data = realm_.meta_data();
const int nDim = meta_data.spatial_dimension();
// current flux sensitivity is based on Robin
const double robinCurrentFluxFac = robinStyle_ ? 0.0 : 1.0;
// space for LHS/RHS; nodesPerElem*nodesPerElem and nodesPerElem
std::vector<double> lhs;
std::vector<double> rhs;
std::vector<stk::mesh::Entity> connected_nodes;
// ip values; both boundary and opposing surface
std::vector<double> currentIsoParCoords(nDim);
std::vector<double> opposingIsoParCoords(nDim);
std::vector<double> cNx(nDim);
std::vector<double> oNx(nDim);
// mapping for -1:1 -> -0.5:0.5 volume element
std::vector<double> currentElementIsoParCoords(nDim);
std::vector<double> opposingElementIsoParCoords(nDim);
// interpolate nodal values to point-in-elem
const int sizeOfScalarField = 1;
// pointers to fixed values
double *p_cNx = &cNx[0];
double *p_oNx = &oNx[0];
// nodal fields to gather
std::vector<double> ws_c_face_scalarQ;
std::vector<double> ws_o_face_scalarQ;
std::vector<double> ws_c_elem_scalarQ;
std::vector<double> ws_o_elem_scalarQ;
std::vector<double> ws_c_elem_coordinates;
std::vector<double> ws_o_elem_coordinates;
std::vector<double> ws_c_diffFluxCoeff;
std::vector<double> ws_o_diffFluxCoeff;
// master element data
std::vector<double> ws_c_dndx;
std::vector<double> ws_o_dndx;
std::vector<double> ws_c_det_j;
std::vector<double> ws_o_det_j;
std::vector <double > ws_c_general_shape_function;
std::vector <double > ws_o_general_shape_function;
std::vector<int> ws_c_face_node_ordinals;
std::vector<int> ws_o_face_node_ordinals;
// deal with state
ScalarFieldType &scalarQNp1 = scalarQ_->field_of_state(stk::mesh::StateNP1);
// parallel communicate ghosted entities
if ( NULL != realm_.nonConformalManager_->nonConformalGhosting_ )
stk::mesh::communicate_field_data(*(realm_.nonConformalManager_->nonConformalGhosting_), ghostFieldVec_);
// iterate nonConformalManager's dgInfoVec
std::vector<NonConformalInfo *>::iterator ii;
for( ii=realm_.nonConformalManager_->nonConformalInfoVec_.begin();
ii!=realm_.nonConformalManager_->nonConformalInfoVec_.end(); ++ii ) {
// extract vector of DgInfo
std::vector<std::vector<DgInfo *> > &dgInfoVec = (*ii)->dgInfoVec_;
std::vector<std::vector<DgInfo*> >::iterator idg;
for( idg=dgInfoVec.begin(); idg!=dgInfoVec.end(); ++idg ) {
std::vector<DgInfo *> &faceDgInfoVec = (*idg);
// now loop over all the DgInfo objects on this particular exposed face
for ( size_t k = 0; k < faceDgInfoVec.size(); ++k ) {
DgInfo *dgInfo = faceDgInfoVec[k];
// extract current/opposing face/element
stk::mesh::Entity currentFace = dgInfo->currentFace_;
stk::mesh::Entity opposingFace = dgInfo->opposingFace_;
stk::mesh::Entity currentElement = dgInfo->currentElement_;
stk::mesh::Entity opposingElement = dgInfo->opposingElement_;
stk::topology currentElementTopo = dgInfo->currentElementTopo_;
stk::topology opposingElementTopo = dgInfo->opposingElementTopo_;
const int currentFaceOrdinal = dgInfo->currentFaceOrdinal_;
const int opposingFaceOrdinal = dgInfo->opposingFaceOrdinal_;
// master element; face and volume
MasterElement * meFCCurrent = dgInfo->meFCCurrent_;
MasterElement * meFCOpposing = dgInfo->meFCOpposing_;
MasterElement * meSCSCurrent = dgInfo->meSCSCurrent_;
MasterElement * meSCSOpposing = dgInfo->meSCSOpposing_;
// local ip, ordinals, etc
const int currentGaussPointId = dgInfo->currentGaussPointId_;
currentIsoParCoords = dgInfo->currentIsoParCoords_;
opposingIsoParCoords = dgInfo->opposingIsoParCoords_;
// extract some master element info
const int currentNodesPerFace = meFCCurrent->nodesPerElement_;
const int opposingNodesPerFace = meFCOpposing->nodesPerElement_;
const int currentNodesPerElement = meSCSCurrent->nodesPerElement_;
const int opposingNodesPerElement = meSCSOpposing->nodesPerElement_;
// resize some things; matrix related
const int totalNodes = currentNodesPerElement + opposingNodesPerElement;
const int lhsSize = totalNodes*totalNodes;
const int rhsSize = totalNodes;
lhs.resize(lhsSize);
rhs.resize(rhsSize);
connected_nodes.resize(totalNodes);
// algorithm related; element; dndx will be at a single gauss point...
ws_c_elem_scalarQ.resize(currentNodesPerElement);
ws_o_elem_scalarQ.resize(opposingNodesPerElement);
ws_c_elem_coordinates.resize(currentNodesPerElement*nDim);
ws_o_elem_coordinates.resize(opposingNodesPerElement*nDim);
ws_c_dndx.resize(nDim*currentNodesPerElement);
ws_o_dndx.resize(nDim*opposingNodesPerElement);
ws_c_det_j.resize(1);
ws_o_det_j.resize(1);
// algorithm related; face
ws_c_face_scalarQ.resize(currentNodesPerFace);
ws_o_face_scalarQ.resize(opposingNodesPerFace);
ws_c_diffFluxCoeff.resize(currentNodesPerFace);
ws_o_diffFluxCoeff.resize(opposingNodesPerFace);
ws_c_general_shape_function.resize(currentNodesPerFace);
ws_o_general_shape_function.resize(opposingNodesPerFace);
// face node identification
ws_c_face_node_ordinals.resize(currentNodesPerFace);
ws_o_face_node_ordinals.resize(opposingNodesPerFace);
// pointers
double *p_lhs = &lhs[0];
double *p_rhs = &rhs[0];
double *p_c_face_scalarQ = &ws_c_face_scalarQ[0];
double *p_o_face_scalarQ = &ws_o_face_scalarQ[0];
double *p_c_elem_scalarQ = &ws_c_elem_scalarQ[0];
double *p_o_elem_scalarQ = &ws_o_elem_scalarQ[0];
double *p_c_elem_coordinates = &ws_c_elem_coordinates[0];
double *p_o_elem_coordinates = &ws_o_elem_coordinates[0];
double *p_c_diffFluxCoeff = &ws_c_diffFluxCoeff[0];
double *p_o_diffFluxCoeff = &ws_o_diffFluxCoeff[0];
// me pointers
double *p_c_general_shape_function = &ws_c_general_shape_function[0];
double *p_o_general_shape_function = &ws_o_general_shape_function[0];
double *p_c_dndx = &ws_c_dndx[0];
double *p_o_dndx = &ws_o_dndx[0];
// populate current face_node_ordinals
currentElementTopo.side_node_ordinals(currentFaceOrdinal, ws_c_face_node_ordinals.begin());
// gather current face data
stk::mesh::Entity const* current_face_node_rels = bulk_data.begin_nodes(currentFace);
const int current_num_face_nodes = bulk_data.num_nodes(currentFace);
for ( int ni = 0; ni < current_num_face_nodes; ++ni ) {
stk::mesh::Entity node = current_face_node_rels[ni];
// gather...
p_c_face_scalarQ[ni] = *stk::mesh::field_data(scalarQNp1, node);
p_c_diffFluxCoeff[ni] = *stk::mesh::field_data(*diffFluxCoeff_, node);
}
// populate opposing face_node_ordinals
opposingElementTopo.side_node_ordinals(opposingFaceOrdinal, ws_o_face_node_ordinals.begin());
// gather opposing face data
stk::mesh::Entity const* opposing_face_node_rels = bulk_data.begin_nodes(opposingFace);
const int opposing_num_face_nodes = bulk_data.num_nodes(opposingFace);
for ( int ni = 0; ni < opposing_num_face_nodes; ++ni ) {
stk::mesh::Entity node = opposing_face_node_rels[ni];
// gather...
p_o_face_scalarQ[ni] = *stk::mesh::field_data(scalarQNp1, node);
p_o_diffFluxCoeff[ni] = *stk::mesh::field_data(*diffFluxCoeff_, node);
}
// gather current element data; sneak in first of connected nodes
stk::mesh::Entity const* current_elem_node_rels = bulk_data.begin_nodes(currentElement);
const int current_num_elem_nodes = bulk_data.num_nodes(currentElement);
for ( int ni = 0; ni < current_num_elem_nodes; ++ni ) {
stk::mesh::Entity node = current_elem_node_rels[ni];
// set connected nodes
connected_nodes[ni] = node;
// gather; scalar
p_c_elem_scalarQ[ni] = *stk::mesh::field_data(scalarQNp1, node);
// gather; vector
const double *coords = stk::mesh::field_data(*coordinates_, node);
const int niNdim = ni*nDim;
for ( int i = 0; i < nDim; ++i ) {
p_c_elem_coordinates[niNdim+i] = coords[i];
}
}
// gather opposing element data; sneak in second connected nodes
stk::mesh::Entity const* opposing_elem_node_rels = bulk_data.begin_nodes(opposingElement);
const int opposing_num_elem_nodes = bulk_data.num_nodes(opposingElement);
for ( int ni = 0; ni < opposing_num_elem_nodes; ++ni ) {
stk::mesh::Entity node = opposing_elem_node_rels[ni];
// set connected nodes
connected_nodes[ni+current_num_elem_nodes] = node;
// gather; scalar
p_o_elem_scalarQ[ni] = *stk::mesh::field_data(scalarQNp1, node);
// gather; vector
const double *coords = stk::mesh::field_data(*coordinates_, node);
const int niNdim = ni*nDim;
for ( int i = 0; i < nDim; ++i ) {
p_o_elem_coordinates[niNdim+i] = coords[i];
}
}
// pointer to face data
const double * c_areaVec = stk::mesh::field_data(*exposedAreaVec_, currentFace);
const double * o_areaVec = stk::mesh::field_data(*exposedAreaVec_, opposingFace);
const double * ncMassFlowRate = stk::mesh::field_data(*ncMassFlowRate_, currentFace);
double c_amag = 0.0;
double o_amag = 0.0;
for ( int j = 0; j < nDim; ++j ) {
const double c_axj = c_areaVec[currentGaussPointId*nDim+j];
c_amag += c_axj*c_axj;
// FIXME: choose first area vector on opposing surface? probably need something better for HO
const double o_axj = o_areaVec[0*nDim+j];
o_amag += o_axj*o_axj;
}
c_amag = std::sqrt(c_amag);
o_amag = std::sqrt(o_amag);
// now compute normal
for ( int i = 0; i < nDim; ++i ) {
p_cNx[i] = c_areaVec[currentGaussPointId*nDim+i]/c_amag;
p_oNx[i] = o_areaVec[0*nDim+i]/o_amag;
}
// project from side to element; method deals with the -1:1 isInElement range to the proper -0.5:0.5 CVFEM range
meSCSCurrent->sidePcoords_to_elemPcoords(currentFaceOrdinal, 1, ¤tIsoParCoords[0], ¤tElementIsoParCoords[0]);
meSCSOpposing->sidePcoords_to_elemPcoords(opposingFaceOrdinal, 1, &opposingIsoParCoords[0], &opposingElementIsoParCoords[0]);
// compute dndx
double scs_error = 0.0;
meSCSCurrent->general_face_grad_op(currentFaceOrdinal, ¤tElementIsoParCoords[0],
&p_c_elem_coordinates[0], &p_c_dndx[0], &ws_c_det_j[0], &scs_error);
meSCSOpposing->general_face_grad_op(opposingFaceOrdinal, &opposingElementIsoParCoords[0],
&p_o_elem_coordinates[0], &p_o_dndx[0], &ws_o_det_j[0], &scs_error);
// current diffusive flux
double currentDiffFluxBip = 0.0;
for ( int ic = 0; ic < currentNodesPerElement; ++ic ) {
const int offSetDnDx = ic*nDim; // single intg. point
const double scalarQIC = p_c_elem_scalarQ[ic];
for ( int j = 0; j < nDim; ++j ) {
const double nxj = p_cNx[j];
const double dndxj = p_c_dndx[offSetDnDx+j];
currentDiffFluxBip += dndxj*nxj*scalarQIC;
}
}
// current inverse length scale; can loop over face nodes to avoid "nodesOnFace" array
double currentInverseLength = 0.0;
for ( int ic = 0; ic < current_num_face_nodes; ++ic ) {
const int faceNodeNumber = ws_c_face_node_ordinals[ic];
const int offSetDnDx = faceNodeNumber*nDim; // single intg. point
for ( int j = 0; j < nDim; ++j ) {
const double nxj = p_cNx[j];
const double dndxj = p_c_dndx[offSetDnDx+j];
currentInverseLength += dndxj*nxj;
}
}
// opposing flux
double opposingDiffFluxBip = 0.0;
for ( int ic = 0; ic < opposingNodesPerElement; ++ic ) {
const int offSetDnDx = ic*nDim; // single intg. point
const double scalarQIC = p_o_elem_scalarQ[ic];
for ( int j = 0; j < nDim; ++j ) {
const double nxj = p_oNx[j];
const double dndxj = p_o_dndx[offSetDnDx+j];
opposingDiffFluxBip += dndxj*nxj*scalarQIC;
}
}
// opposing inverse length scale; can loop over face nodes to avoid "nodesOnFace" array
double opposingInverseLength = 0.0;
for ( int ic = 0; ic < opposing_num_face_nodes; ++ic ) {
const int faceNodeNumber = ws_o_face_node_ordinals[ic];
const int offSetDnDx = faceNodeNumber*nDim; // single intg. point
for ( int j = 0; j < nDim; ++j ) {
const double nxj = p_oNx[j];
const double dndxj = p_o_dndx[offSetDnDx+j];
opposingInverseLength += dndxj*nxj;
}
}
// interpolate face data; current and opposing...
double currentScalarQBip = 0.0;
meFCCurrent->interpolatePoint(
sizeOfScalarField,
&(dgInfo->currentIsoParCoords_[0]),
&ws_c_face_scalarQ[0],
¤tScalarQBip);
double opposingScalarQBip = 0.0;
meFCOpposing->interpolatePoint(
sizeOfScalarField,
&(dgInfo->opposingIsoParCoords_[0]),
&ws_o_face_scalarQ[0],
&opposingScalarQBip);
double currentDiffFluxCoeffBip = 0.0;
meFCCurrent->interpolatePoint(
sizeOfScalarField,
&(dgInfo->currentIsoParCoords_[0]),
&ws_c_diffFluxCoeff[0],
¤tDiffFluxCoeffBip);
double opposingDiffFluxCoeffBip = 0.0;
meFCOpposing->interpolatePoint(
sizeOfScalarField,
&(dgInfo->opposingIsoParCoords_[0]),
&ws_o_diffFluxCoeff[0],
&opposingDiffFluxCoeffBip);
// properly scaled diffusive flux
currentDiffFluxBip *= -currentDiffFluxCoeffBip;
opposingDiffFluxBip *= -opposingDiffFluxCoeffBip;
// zero lhs/rhs
for ( int p = 0; p < lhsSize; ++p )
p_lhs[p] = 0.0;
for ( int p = 0; p < rhsSize; ++p )
p_rhs[p] = 0.0;
// save mdot
const double tmdot = ncMassFlowRate[currentGaussPointId];
// compute penalty
const double penaltyIp = 0.5*(currentDiffFluxCoeffBip*currentInverseLength + opposingDiffFluxCoeffBip*opposingInverseLength)
+ std::abs(tmdot)/2.0;
// non conformal diffusive flux
const double ncDiffFlux = robinStyle_ ? -opposingDiffFluxBip : 0.5*(currentDiffFluxBip - opposingDiffFluxBip);
// non conformal advection; find upwind (upwind prevails over Robin or DG approach)
const double upwindScalarQBip = tmdot > 0.0 ? currentScalarQBip : opposingScalarQBip;
const double ncAdv = upwindAdvection_ ? tmdot*upwindScalarQBip : robinStyle_ ? tmdot*opposingScalarQBip
: 0.5*tmdot*(currentScalarQBip + opposingScalarQBip);
// form residual
const int nn = ws_c_face_node_ordinals[currentGaussPointId];
p_rhs[nn] -= ((dsFactor_*ncDiffFlux + penaltyIp*(currentScalarQBip-opposingScalarQBip))*c_amag + dsFactor_*ncAdv);
// set-up row for matrix
const int rowR = nn*totalNodes;
double lhsFac = penaltyIp*c_amag;
// sensitivities; current face (penalty and advection); use general shape function for this single ip
meFCCurrent->general_shape_fcn(1, ¤tIsoParCoords[0], &ws_c_general_shape_function[0]);
for ( int ic = 0; ic < currentNodesPerFace; ++ic ) {
const int icnn = ws_c_face_node_ordinals[ic];
const double r = p_c_general_shape_function[ic];
p_lhs[rowR+icnn] += r*(lhsFac+0.5*tmdot);
}
// sensitivities; current element (diffusion)
for ( int ic = 0; ic < currentNodesPerElement; ++ic ) {
const int offSetDnDx = ic*nDim; // single intg. point
double lhscd = 0.0;
for ( int j = 0; j < nDim; ++j ) {
const double nxj = p_cNx[j];
const double dndxj = p_c_dndx[offSetDnDx+j];
lhscd -= dndxj*nxj;
}
p_lhs[rowR+ic] += 0.5*currentDiffFluxCoeffBip*lhscd*c_amag*robinCurrentFluxFac;
}
// sensitivities; opposing face (penalty); use general shape function for this single ip
meFCOpposing->general_shape_fcn(1, &opposingIsoParCoords[0], &ws_o_general_shape_function[0]);
for ( int ic = 0; ic < opposingNodesPerFace; ++ic ) {
const int icnn = ws_o_face_node_ordinals[ic];
const double r = p_o_general_shape_function[ic];
p_lhs[rowR+icnn+currentNodesPerElement] -= r*(lhsFac-0.5*tmdot);
}
// sensitivities; opposing element (diffusion)
for ( int ic = 0; ic < opposingNodesPerElement; ++ic ) {
const int offSetDnDx = ic*nDim; // single intg. point
double lhscd = 0.0;
for ( int j = 0; j < nDim; ++j ) {
const double nxj = p_oNx[j];
const double dndxj = p_o_dndx[offSetDnDx+j];
lhscd -= dndxj*nxj;
}
p_lhs[rowR+ic+currentNodesPerElement] -= 0.5*opposingDiffFluxCoeffBip*lhscd*c_amag;
}
apply_coeff(connected_nodes, rhs, lhs, __FILE__);
}
}
}
}