Teuchos::RCP<Anasazi::SolverManager<Scalar,MV,OP> >
build_eigsolver(const Teuchos::RCP<const Teuchos::Comm<int> > &comm,
Teuchos::ParameterList& test_params,
Teuchos::RCP<Anasazi::Eigenproblem<Scalar,MV,OP> > problem)
{
typedef Anasazi::Eigenproblem<Scalar,MV,OP> AEigProb;
Teuchos::RCP<Anasazi::SolverManager<Scalar,MV,OP> > solver;
Teuchos::ParameterList aparams;
if (test_params.isSublist("Anasazi")) {
aparams = test_params.sublist("Anasazi");
}
std::string solver_type("not specified");
Ifpack2::getParameter(test_params, "eigen_solver_type", solver_type);
if (solver_type == "BlockKrylovSchur") {
// if (comm->getRank() == 0) std::cout << aparams << std::endl;
solver = Teuchos::rcp(new Anasazi::BlockKrylovSchurSolMgr<Scalar,MV,OP>(problem,aparams));
}
else if (solver_type == "not specified") {
throw std::runtime_error("Error in build_eigsolver: solver_type not specified.");
}
else {
std::ostringstream os;
os << "Error in build_eigsolver: solver_type ("<<solver_type<<") not recognized.";
os << "\nIfpack2's test-driver recognizes these solvers: PseudoBlockCG, PesudoBlockGmres, BlockGmres, TFQMR.";
std::string str = os.str();
throw std::runtime_error(str);
}
return solver;
}
// ****************************************************************
// ****************************************************************
Teuchos::RCP<NOX::StatusTest::Generic> Thyra::NOXNonlinearSolver::
buildStatusTests(Teuchos::ParameterList& p)
{
Teuchos::RCP<NOX::StatusTest::Generic> status_test;
NOX::Utils utils(p.sublist("Printing"));
if (p.isSublist("Status Tests")) {
status_test =
NOX::StatusTest::buildStatusTests(p.sublist("Status Tests"), utils);
}
else { // Default status test
Teuchos::RCP<NOX::StatusTest::NormF> absresid =
Teuchos::rcp(new NOX::StatusTest::NormF(1.0e-8));
Teuchos::RCP<NOX::StatusTest::NormWRMS> wrms =
Teuchos::rcp(new NOX::StatusTest::NormWRMS(1.0e-2, 1.0e-8));
Teuchos::RCP<NOX::StatusTest::Combo> converged =
Teuchos::rcp(new NOX::StatusTest::Combo(NOX::StatusTest::Combo::AND));
converged->addStatusTest(absresid);
converged->addStatusTest(wrms);
Teuchos::RCP<NOX::StatusTest::MaxIters> maxiters =
Teuchos::rcp(new NOX::StatusTest::MaxIters(20));
Teuchos::RCP<NOX::StatusTest::FiniteValue> fv =
Teuchos::rcp(new NOX::StatusTest::FiniteValue);
Teuchos::RCP<NOX::StatusTest::Combo> combo =
Teuchos::rcp(new NOX::StatusTest::Combo(NOX::StatusTest::Combo::OR));
combo->addStatusTest(fv);
combo->addStatusTest(converged);
combo->addStatusTest(maxiters);
status_test = combo;
}
return status_test;
}
//=============================================================================
int Amesos_Klu::SetParameters( Teuchos::ParameterList &ParameterList ) {
// ========================================= //
// retrive KLU's parameters from list. //
// default values defined in the constructor //
// ========================================= //
// retrive general parameters
SetStatusParameters( ParameterList );
SetControlParameters( ParameterList );
if (ParameterList.isParameter("TrustMe") )
TrustMe_ = ParameterList.get<bool>( "TrustMe" );
#if 0
unused for now
if (ParameterList.isSublist("Klu") ) {
Teuchos::ParameterList KluParams = ParameterList.sublist("Klu") ;
}
#endif
return 0;
}
void ParameterListInterpreter<Scalar, LocalOrdinal, GlobalOrdinal, Node, LocalMatOps>::SetParameterList(const Teuchos::ParameterList& paramList) {
Cycle_ = Hierarchy::GetDefaultCycle();
blockSize_ = 1;
if (paramList.isSublist("Hierarchy"))
SetFactoryParameterList(paramList);
else
SetEasyParameterList(paramList);
}
Teuchos::RCP<Tpetra::Operator<Scalar,LocalOrdinal,GlobalOrdinal,Node> >
build_precond (Teuchos::ParameterList& test_params,
const Teuchos::RCP<const Tpetra::CrsMatrix<Scalar,LocalOrdinal,GlobalOrdinal,Node> >& A)
{
using Teuchos::FancyOStream;
using Teuchos::getFancyOStream;
using Teuchos::OSTab;
using Teuchos::RCP;
using Teuchos::rcpFromRef;
using std::cout;
using std::endl;
typedef Tpetra::RowMatrix<Scalar,LocalOrdinal,GlobalOrdinal,Node> row_matrix_type;
Teuchos::Time timer("precond");
const int myRank = A->getRowMap ()->getComm ()->getRank ();
RCP<FancyOStream> out = getFancyOStream (rcpFromRef (cout));
typedef Ifpack2::Preconditioner<Scalar,LocalOrdinal,GlobalOrdinal,Node> Tprec;
Teuchos::RCP<Tprec> prec;
Ifpack2::Factory factory;
std::string prec_name("not specified");
Ifpack2::getParameter(test_params, "Ifpack2::Preconditioner", prec_name);
prec = factory.create<row_matrix_type> (prec_name, A);
Teuchos::ParameterList tif_params;
if (test_params.isSublist("Ifpack2")) {
tif_params = test_params.sublist("Ifpack2");
}
if (myRank == 0) {
*out << "Configuring, initializing, and computing Ifpack2 preconditioner" << endl;
}
{
OSTab tab (*out);
prec->setParameters (tif_params);
prec->initialize ();
{
Teuchos::TimeMonitor timeMon (timer);
prec->compute ();
}
if (myRank == 0) {
*out << "Finished computing Ifpack2 preconditioner" << endl;
OSTab tab2 (*out);
*out << "Time (s): " << timer.totalElapsedTime () << endl;
}
}
if (myRank == 0) {
*out << "Preconditioner attributes:" << endl;
OSTab tab (*out);
prec->describe (*out, Teuchos::VERB_LOW);
}
return prec;
}
void panzer::setupInitialConditionFieldManagers(WorksetContainer & wkstContainer,
const std::vector<Teuchos::RCP<panzer::PhysicsBlock> >& physicsBlocks,
const panzer::ClosureModelFactory_TemplateManager<panzer::Traits>& cm_factory,
const Teuchos::ParameterList& ic_block_closure_models,
const panzer::LinearObjFactory<panzer::Traits>& lo_factory,
const Teuchos::ParameterList& user_data,
const bool write_graphviz_file,
const std::string& graphviz_file_prefix,
std::map< std::string, Teuchos::RCP< PHX::FieldManager<panzer::Traits> > >& phx_ic_field_managers)
{
std::vector<Teuchos::RCP<panzer::PhysicsBlock> >::const_iterator blkItr;
for (blkItr=physicsBlocks.begin();blkItr!=physicsBlocks.end();++blkItr) {
Teuchos::RCP<panzer::PhysicsBlock> pb = *blkItr;
std::string blockId = pb->elementBlockID();
// build a field manager object
Teuchos::RCP<PHX::FieldManager<panzer::Traits> > fm
= Teuchos::rcp(new PHX::FieldManager<panzer::Traits>);
// Choose model sublist for this element block
std::string closure_model_name = "";
if (ic_block_closure_models.isSublist(blockId))
closure_model_name = blockId;
else if (ic_block_closure_models.isSublist("Default"))
closure_model_name = "Default";
else
TEUCHOS_TEST_FOR_EXCEPTION(true, std::logic_error, "Failed to find initial condition for element block \"" << blockId << "\". You must provide an initial condition for each element block or set a default!" << ic_block_closure_models);
// use the physics block to register evaluators
pb->buildAndRegisterInitialConditionEvaluators(*fm, cm_factory, closure_model_name, ic_block_closure_models, lo_factory, user_data);
// build the setup data using passed in information
Traits::SetupData setupData;
setupData.worksets_ = wkstContainer.getVolumeWorksets(blockId);
fm->postRegistrationSetup(setupData);
phx_ic_field_managers[blockId] = fm;
if (write_graphviz_file)
fm->writeGraphvizFile(graphviz_file_prefix+"IC_"+blockId);
}
}
Teuchos::RCP<Method<Epetra_MultiVector,Epetra_Operator> > EpetraMVMethodFactory::create( const Teuchos::ParameterList& params )
{
TEUCHOS_TEST_FOR_EXCEPTION(!params.isSublist( "Reduced Basis Method" ), std::invalid_argument, "Reduced Basis Method sublist does not exist!");
// Get the "Reduced Basis Method" sublist.
const Teuchos::ParameterList& rbmethod_params = params.sublist( "Reduced Basis Method" );
// Get the file format type
std::string method = Teuchos::getParameter<std::string>( const_cast<Teuchos::ParameterList&>(rbmethod_params),
"Method" );
Teuchos::RCP< Method<Epetra_MultiVector,Epetra_Operator> > RBMethod;
// POD computed using exact SVD through LAPACK
if ( method == "Lapack POD" ) {
RBMethod = Teuchos::rcp( new LapackPOD() );
}
// Inexact POD computed using inexact SVD through Anasazi
// IncSVDPOD uses Anasazi utility classes, while AnasaziPOD uses Anasazi for the solution
else if ( method == "IncSVD POD" ) {
std::string incsvdmethod = rbmethod_params.get<std::string>("IncSVD Method");
if ( incsvdmethod == "Single/UDV" ) {
RBMethod = Teuchos::rcp( new ISVD_SingleUDV() );
}
else if ( incsvdmethod == "MultiCD/UDV" ) {
RBMethod = Teuchos::rcp( new ISVD_MultiCDUDV() );
}
else if ( incsvdmethod == "MultiSDA/UDV" ) {
RBMethod = Teuchos::rcp( new ISVD_MultiSDAUDV() );
}
else if ( incsvdmethod == "MultiSDB/UDV" ) {
RBMethod = Teuchos::rcp( new ISVD_MultiSDBUDV() );
}
}
else if ( method == "StSVD/RTR") {
RBMethod = Teuchos::rcp( new StSVDRTR() );
}
else if ( method == "Anasazi POD" ) {
RBMethod = Teuchos::rcp( new AnasaziPOD() );
} else
{
std::string err_str = "Reduced basis method, 'Method = " + method + "', is not recognized!";
TEUCHOS_TEST_FOR_EXCEPTION(true, std::invalid_argument, err_str);
}
//
// Return the method created
//
return RBMethod;
}
//=============================================================================
// Default values are defined in the constructor.
int Amesos_Lapack::SetParameters( Teuchos::ParameterList &ParameterList )
{
// retrive general parameters
SetStatusParameters( ParameterList );
SetControlParameters( ParameterList );
bool Equilibrate = true;
if (ParameterList.isSublist("Lapack") ) {
const Teuchos::ParameterList& LAPACKParams = ParameterList.sublist("Lapack") ;
if ( LAPACKParams.isParameter("Equilibrate") )
Equilibrate = LAPACKParams.get<bool>("Equilibrate");
}
DenseSolver_.FactorWithEquilibration(Equilibrate);
return(0);
}
Teuchos::RCP<Belos::SolverManager<Scalar,MV,OP> >
build_solver(Teuchos::ParameterList& test_params,
Teuchos::RCP<Belos::LinearProblem<Scalar,MV,OP> > problem)
{
Teuchos::RCP<Belos::SolverManager<Scalar,MV,OP> > solver;
Teuchos::ParameterList bparams;
if (test_params.isSublist("Belos")) {
bparams = test_params.sublist("Belos");
}
Teuchos::RCP<Teuchos::ParameterList> rcpparams = Teuchos::rcp(&bparams,false);
std::string solver_type("not specified");
Ifpack2::getParameter(test_params, "solver_type", solver_type);
if (solver_type == "PseudoBlockCG") {
solver = Teuchos::rcp(new Belos::PseudoBlockCGSolMgr<Scalar,MV,OP>(problem,rcpparams));
}
else if (solver_type == "BlockCG") {
solver = Teuchos::rcp(new Belos::BlockCGSolMgr<Scalar,MV,OP>(problem,rcpparams));
}
// PseudoBlockGmres does not work right now with QD
#ifndef USING_QD
else if (solver_type == "PseudoBlockGmres") {
solver = Teuchos::rcp(new Belos::PseudoBlockGmresSolMgr<Scalar,MV,OP>(problem,rcpparams));
}
#endif
else if (solver_type == "BlockGmres") {
solver = Teuchos::rcp(new Belos::BlockGmresSolMgr<Scalar,MV,OP>(problem,rcpparams));
}
else if (solver_type == "TFQMR") {
solver = Teuchos::rcp(new Belos::TFQMRSolMgr<Scalar,MV,OP>(problem,rcpparams));
}
else if (solver_type == "not specified") {
throw std::runtime_error("Error in build_solver: solver_type not specified.");
}
else {
std::ostringstream os;
os << "Error in build_solver: solver_type ("<<solver_type<<") not recognized.";
os << "\nIfpack2's test-driver recognizes these solvers: PseudoBlockCG, BlockCG, PesudoBlockGmres, BlockGmres, TFQMR.";
std::string str = os.str();
throw std::runtime_error(str);
}
return solver;
}
Teuchos::RCP<Tpetra::Operator<Scalar,LocalOrdinal,GlobalOrdinal,Node> >
build_precond(Teuchos::ParameterList& test_params,
const Teuchos::RCP<const Tpetra::CrsMatrix<Scalar,LocalOrdinal,GlobalOrdinal,Node,LocalMatVec,LocalMatSolve> >& A)
{
Teuchos::Time timer("precond");
typedef Ifpack2::Preconditioner<Scalar,LocalOrdinal,GlobalOrdinal,Node> Tprec;
Teuchos::RCP<Tprec> prec;
Ifpack2::Factory factory;
std::string prec_name("not specified");
Ifpack2::getParameter(test_params, "Ifpack2::Preconditioner", prec_name);
prec = factory.create(prec_name, A);
Teuchos::ParameterList tif_params;
if (test_params.isSublist("Ifpack2")) {
tif_params = test_params.sublist("Ifpack2");
}
if (A->getRowMap()->getComm()->getRank() == 0) {
std::cout << "Configuring/Initializing/Computing Ifpack2 preconditioner..."
<< std::endl;
}
prec->setParameters(tif_params);
prec->initialize();
timer.start();
prec->compute();
timer.stop();
if (A->getRowMap()->getComm()->getRank() == 0) {
std::cout << "... Finished Computing Ifpack2 preconditioner (time: "<<timer.totalElapsedTime() << "s)"
<< std::endl;
}
// typedef typename Teuchos::ScalarTraits<Scalar>::magnitudeType magnitudeType;
// magnitudeType condest = prec->computeCondEst(Ifpack2::Cheap);
// if (A->getRowMap()->getComm()->getRank() == 0) {
// std::cout << "Condition estimate(cheap) for preconditioner on proc 0: "
// << condest << std::endl;
// }
return prec;
}
Teuchos::RCP<Belos::SolverManager<Scalar,MV,OP> >
build_solver(const Teuchos::RCP<const Teuchos::Comm<int> > &comm,
Teuchos::ParameterList& test_params,
Teuchos::RCP<Belos::LinearProblem<Scalar,MV,OP> > problem)
{
typedef Belos::LinearProblem<Scalar,MV,OP> BLinProb;
Teuchos::RCP<Belos::SolverManager<Scalar,MV,OP> > solver;
Teuchos::ParameterList bparams;
if (test_params.isSublist("Belos")) {
bparams = test_params.sublist("Belos");
}
Teuchos::RCP<Teuchos::ParameterList> rcpparams = Teuchos::rcpFromRef(bparams);
std::string solver_type("not specified");
Ifpack2::getParameter(test_params, "solver_type", solver_type);
if (solver_type == "BlockGmres") {
// if (comm->getRank() == 0) std::cout << *rcpparams << std::endl;
solver = Teuchos::rcp(new Belos::BlockGmresSolMgr<Scalar,MV,OP>(problem,rcpparams));
}
// else if (solver_type == "PseudoBlockGmres") {
// solver = Teuchos::rcp(new Belos::PseudoBlockGmresSolMgr<Scalar,MV,OP>(problem,rcpparams));
// }
// else if (solver_type == "PseudoBlockCG") {
// solver = Teuchos::rcp(new Belos::PseudoBlockCGSolMgr<Scalar,MV,OP>(problem,rcpparams));
// }
// else if (solver_type == "TFQMR") {
// solver = Teuchos::rcp(new Belos::TFQMRSolMgr<Scalar,MV,OP>(problem,rcpparams));
// }
else if (solver_type == "not specified") {
throw std::runtime_error("Error in build_solver: solver_type not specified.");
}
else {
std::ostringstream os;
os << "Error in build_solver: solver_type ("<<solver_type<<") not recognized.";
os << "\nIfpack2's test-driver recognizes these solvers: PseudoBlockCG, PesudoBlockGmres, BlockGmres, TFQMR.";
std::string str = os.str();
throw std::runtime_error(str);
}
return solver;
}
void xmlToModelPList(const Teuchos::XMLObject &xml, Teuchos::ParameterList & plist)
{
// This method composes a plist for the problem
Teuchos::XMLParameterListReader reader;
plist = reader.toParameterList(xml);
// Get list of valid Zoltan2 Parameters
// Zoltan 2 parameters appear in the input file
// Right now we have default values stored in
// the parameter list, we would like to apply
// the options specified by the user in their
// input file
Teuchos::ParameterList zoltan2Parameters;
Zoltan2::createAllParameters(zoltan2Parameters);
if (plist.isSublist("Zoltan2Parameters")) {
// Apply user specified zoltan2Parameters
ParameterList &sub = plist.sublist("Zoltan2Parameters");
zoltan2Parameters.setParameters(sub);
}
}
int Amesos_Scalapack::SetParameters( Teuchos::ParameterList &ParameterList ) {
if( debug_ == 1 ) std::cout << "Entering `SetParameters()'" << std::endl;
// retrive general parameters
SetStatusParameters( ParameterList );
SetControlParameters( ParameterList );
//
// We have to set these to their defaults here because user codes
// are not guaranteed to have a "Scalapack" parameter list.
//
TwoD_distribution_ = true;
grid_nb_ = 32;
// Some compilers reject the following cast:
// if( &ParameterList == 0 ) return 0;
// ========================================= //
// retrive ScaLAPACK's parameters from list. //
// ========================================= //
// retrive general parameters
// check to see if they exist before trying to retrieve them
if (ParameterList.isSublist("Scalapack") ) {
const Teuchos::ParameterList ScalapackParams = ParameterList.sublist("Scalapack") ;
// Fix Bug #3251
if ( ScalapackParams.isParameter("2D distribution") )
TwoD_distribution_ = ScalapackParams.get<bool>("2D distribution");
if ( ScalapackParams.isParameter("grid_nb") )
grid_nb_ = ScalapackParams.get<int>("grid_nb");
}
return 0;
}
Teuchos::RCP< std::vector< Teuchos::RCP<PHX::Evaluator<panzer::Traits> > > >
Example::ModelFactory<EvalT>::
buildClosureModels(const std::string& model_id,
const Teuchos::ParameterList& models,
const panzer::FieldLayoutLibrary& fl,
const Teuchos::RCP<panzer::IntegrationRule>& ir,
const Teuchos::ParameterList& default_params,
const Teuchos::ParameterList& user_data,
const Teuchos::RCP<panzer::GlobalData>& global_data,
PHX::FieldManager<panzer::Traits>& fm) const
{
using std::string;
using std::vector;
using Teuchos::RCP;
using Teuchos::rcp;
using Teuchos::ParameterList;
using PHX::Evaluator;
RCP< vector< RCP<Evaluator<panzer::Traits> > > > evaluators =
rcp(new vector< RCP<Evaluator<panzer::Traits> > > );
if (!models.isSublist(model_id)) {
models.print(std::cout);
std::stringstream msg;
msg << "Falied to find requested model, \"" << model_id
<< "\", for equation set:\n" << std::endl;
TEUCHOS_TEST_FOR_EXCEPTION(!models.isSublist(model_id), std::logic_error, msg.str());
}
std::vector<Teuchos::RCP<const panzer::PureBasis> > bases;
fl.uniqueBases(bases);
const ParameterList& my_models = models.sublist(model_id);
for (ParameterList::ConstIterator model_it = my_models.begin();
model_it != my_models.end(); ++model_it) {
bool found = false;
const std::string key = model_it->first;
ParameterList input;
const Teuchos::ParameterEntry& entry = model_it->second;
const ParameterList& plist = Teuchos::getValue<Teuchos::ParameterList>(entry);
if (plist.isType<double>("Value")) {
{ // at IP
input.set("Name", key);
input.set("Value", plist.get<double>("Value"));
input.set("Data Layout", ir->dl_scalar);
RCP< Evaluator<panzer::Traits> > e =
rcp(new panzer::Constant<EvalT,panzer::Traits>(input));
evaluators->push_back(e);
}
for (std::vector<Teuchos::RCP<const panzer::PureBasis> >::const_iterator basis_itr = bases.begin();
basis_itr != bases.end(); ++basis_itr) { // at BASIS
input.set("Name", key);
input.set("Value", plist.get<double>("Value"));
Teuchos::RCP<const panzer::BasisIRLayout> basis = basisIRLayout(*basis_itr,*ir);
input.set("Data Layout", basis->functional);
RCP< Evaluator<panzer::Traits> > e =
rcp(new panzer::Constant<EvalT,panzer::Traits>(input));
evaluators->push_back(e);
}
found = true;
}
if (plist.isType<std::string>("Type")) {
const std::string type = plist.get<std::string>("Type");
if (type == "SIMPLE SOURCE") {
RCP<Evaluator<panzer::Traits> > e = rcp(new Example::SimpleSource<EvalT,panzer::Traits>(key, *ir));
evaluators->push_back(e);
found = true;
} else if (type == "EXACT") {
RCP<Evaluator<panzer::Traits> > e = rcp(new Example::Solution<EvalT,panzer::Traits>(key, *ir));
evaluators->push_back(e);
found = true;
} else if (type == "EXACT nonlinear Robin") {
RCP<Evaluator<panzer::Traits> > e = rcp(new Example::Solution<EvalT,panzer::Traits>(key, *ir, false));
evaluators->push_back(e);
found = true;
} else if (type == "ERROR_CALC") {
{
std::vector<std::string> values(2);
values[0] = plist.get<std::string>("Field A");
values[1] = plist.get<std::string>("Field B");
std::vector<double> scalars(2);
scalars[0] = 1.0;
scalars[1] = -1.0;
Teuchos::ParameterList p;
p.set("Sum Name", key + "_DIFF");
p.set<RCP<std::vector<std::string> > >("Values Names", Teuchos::rcpFromRef(values));
p.set<RCP<const std::vector<double> > >("Scalars", Teuchos::rcpFromRef(scalars));
p.set("Data Layout", ir->dl_scalar);
RCP<Evaluator<panzer::Traits> > e = rcp(new panzer::Sum<EvalT,panzer::Traits>(p));
evaluators->push_back(e);
}
{
std::vector<std::string> values(2);
values[0] = key + "_DIFF";
values[1] = key + "_DIFF";
Teuchos::ParameterList p;
p.set("Product Name",key);
p.set<RCP<std::vector<std::string> > >("Values Names",Teuchos::rcpFromRef(values));
p.set("Data Layout",ir->dl_scalar);
RCP<Evaluator<panzer::Traits> > e = rcp(new panzer::Product<EvalT,panzer::Traits>(p));
evaluators->push_back(e);
}
found = true;
}
}
if ( ! found) {
std::stringstream msg;
msg << "ClosureModelFactory failed to build evaluator for key \"" << key
<< "\"\nin model \"" << model_id
<< "\". Please correct the type or add support to the \nfactory." <<std::endl;
TEUCHOS_TEST_FOR_EXCEPTION(!found, std::logic_error, msg.str());
}
}
return evaluators;
}
bool SolverTrilinosML::Solve(INMOST::Sparse::Vector &RHS, INMOST::Sparse::Vector &SOL) {
std::string name = Epetra_problem->first;
Epetra_LinearProblem *Epetra_linear_problem = &Epetra_problem->second;
Epetra_Vector VectorRHS(View, matrix->Map(), &*RHS.Begin());
Epetra_Vector VectorSOL(View, matrix->Map(), &*SOL.Begin());
Epetra_linear_problem->SetRHS(&VectorRHS);
Epetra_linear_problem->SetLHS(&VectorSOL);
bool have_params = parameters_file != "";
const Teuchos::RCP<Teuchos::ParameterList> top_level_params = Teuchos::createParameterList();
Teuchos::ParameterList local_list;
if (have_params) {
Teuchos::updateParametersFromXmlFileAndBroadcast(parameters_file, top_level_params.ptr(),
Teuchos::MpiComm<int>(Teuchos::opaqueWrapper(
RHS.GetCommunicator())));
if (!top_level_params->isSublist(name))
have_params = false;
else {
local_list = top_level_params->sublist(name);
}
}
AztecOO AztecSolver(*Epetra_linear_problem);
if (have_params && local_list.isSublist("AztecOO")) {
Teuchos::ParameterList AztecOOParams = local_list.sublist("AztecOO");
if (AztecOOParams.isParameter("Max Iterations")) {
maximum_iterations = AztecOOParams.get<int>("Max Iterations");
}
if (AztecOOParams.isParameter("Tolerance")) {
rtol = AztecOOParams.get<double>("Tolerance");
}
if (AztecOOParams.isSublist("AztecOO Settings")) {
AztecSolver.SetParameters(AztecOOParams.sublist("AztecOO Settings"));
}
} else {
AztecSolver.SetAztecOption(AZ_diagnostics, AZ_none);
AztecSolver.SetAztecOption(AZ_output, AZ_none);
AztecSolver.SetAztecOption(AZ_solver, AZ_bicgstab);
AztecSolver.SetAztecOption(AZ_overlap, schwartz_overlap);
}
Teuchos::ParameterList List;
if (have_params && local_list.isSublist("ML") && local_list.sublist("ML").isSublist("ML Settings")) {
List = local_list.sublist("ML").sublist("ML Settings");
} else {
ML_Epetra::SetDefaults("SA", List);
List.set("max levels", 6);
List.set("increasing or decreasing", "decreasing");
}
ML_Epetra::MultiLevelPreconditioner *Prec = new ML_Epetra::MultiLevelPreconditioner(*matrix, List, true);
AztecSolver.SetPrecOperator(Prec);
AztecSolver.Iterate(maximum_iterations, rtol);
const double *stats = AztecSolver.GetAztecStatus();
bool success = true;
std::string reason = "";
TrilinosCheckStatus(static_cast<int>(stats[AZ_why]), success, reason);
lastIterations = static_cast<INMOST_DATA_ENUM_TYPE>(AztecSolver.NumIters());
lastResidual = AztecSolver.TrueResidual();
returnReason = reason;
delete Prec;
return success;
}
void NOX::Utils::reset(Teuchos::ParameterList& p)
{
using namespace Teuchos;
// "Output Information" may be stored as a sublist, an int, or as
// a NOX::Utils::MsgType
if (p.isSublist("Output Information")) {
ParameterList& printList = p.sublist("Output Information");
typedef std::map<std::string, NOX::Utils::MsgType> OptionMap;
OptionMap output_options;
output_options["Error"] = NOX::Utils::Error;
output_options["Warning"] = NOX::Utils::Warning;
output_options["Outer Iteration"] = NOX::Utils::OuterIteration;
output_options["Inner Iteration"] = NOX::Utils::InnerIteration;
output_options["Parameters"] = NOX::Utils::Parameters;
output_options["Details"] = NOX::Utils::Details;
output_options["Outer Iteration StatusTest"] = NOX::Utils::OuterIterationStatusTest;
output_options["Linear Solver Details"] = NOX::Utils::LinearSolverDetails;
output_options["Test Details"] = NOX::Utils::TestDetails;
output_options["Stepper Iteration"] = NOX::Utils::StepperIteration;
output_options["Stepper Details"] = NOX::Utils::StepperDetails;
output_options["Stepper Parameters"] = NOX::Utils::StepperParameters;
output_options["Debug"] = NOX::Utils::Debug;
bool add_test = false;
OptionMap::const_iterator start = output_options.begin();
OptionMap::const_iterator stop = output_options.end();
for (OptionMap::const_iterator i = start; i != stop; ++i) {
add_test = printList.get(i->first, false);
if (add_test)
printTest += i->second;
}
}
else if (isParameterType<NOX::Utils::MsgType>(p, "Output Information"))
printTest = get<NOX::Utils::MsgType>(p, "Output Information");
else
printTest = p.get("Output Information", 0xf);
#ifdef HAVE_MPI
if (p.isParameter("MyPID"))
myPID = p.get("MyPID", 0);
else {
// We have to check to ensure MPI has been initialized before calling
// MPI_Comm_rank. Relates to bug 2566. - KL, 17 Sept 2006.
int mpiIsRunning = 0;
MPI_Initialized(&mpiIsRunning);
if (mpiIsRunning)
{
MPI_Comm_rank(MPI_COMM_WORLD, &myPID);
}
else
{
myPID=0;
}
// Set the default in the parameter list
p.get("MyPID", myPID);
}
#else
myPID = p.get("MyPID", 0);
#endif
printProc = p.get("Output Processor", 0);
precision = p.get("Output Precision", 3);
// Output streams
blackholeStream = Teuchos::rcp(new Teuchos::oblackholestream);
if (p.INVALID_TEMPLATE_QUALIFIER
isType< Teuchos::RCP<std::ostream> >("Output Stream"))
printStream =
(p).INVALID_TEMPLATE_QUALIFIER
get< Teuchos::RCP<std::ostream> >("Output Stream");
else
printStream = Teuchos::rcp(&(std::cout), false);
myStream = (myPID == printProc) ? printStream : blackholeStream;
if (p.INVALID_TEMPLATE_QUALIFIER
isType< Teuchos::RCP<std::ostream> >("Error Stream"))
errorStream =
(p).INVALID_TEMPLATE_QUALIFIER
get< Teuchos::RCP<std::ostream> >("Error Stream");
else
errorStream = Teuchos::rcp(&(std::cerr), false);
}
//=============================================================================
int Amesos_Mumps::SetParameters( Teuchos::ParameterList & ParameterList)
{
// ========================================= //
// retrive MUMPS' parameters from list. //
// default values defined in the constructor //
// ========================================= //
// retrive general parameters
SetStatusParameters(ParameterList);
SetControlParameters(ParameterList);
if (ParameterList.isParameter("NoDestroy"))
NoDestroy_ = ParameterList.get<bool>("NoDestroy");
// can be use using mumps sublist, via "ICNTL(2)"
// if (debug_)
// MDS.ICNTL(2) = 6; // Turn on Mumps verbose output
// retrive MUMPS' specific parameters
if (ParameterList.isSublist("mumps"))
{
Teuchos::ParameterList MumpsParams = ParameterList.sublist("mumps") ;
// ICNTL
for (int i = 1 ; i <= 40 ; ++i)
{
char what[80];
sprintf(what, "ICNTL(%d)", i);
if (MumpsParams.isParameter(what))
SetICNTL(i, MumpsParams.get<int>(what));
}
// CNTL
for (int i = 1 ; i <= 5 ; ++i)
{
char what[80];
sprintf(what, "CNTL(%d)", i);
if (MumpsParams.isParameter(what))
SetCNTL(i, MumpsParams.get<double>(what));
}
// ordering
if (MumpsParams.isParameter("PermIn"))
{
int* PermIn = 0;
PermIn = MumpsParams.get<int*>("PermIn");
if (PermIn) SetOrdering(PermIn);
}
// Col scaling
if (MumpsParams.isParameter("ColScaling"))
{
double * ColSca = 0;
ColSca = MumpsParams.get<double *>("ColScaling");
if (ColSca) SetColScaling(ColSca);
}
// Row scaling
if (MumpsParams.isParameter("RowScaling"))
{
double * RowSca = 0;
RowSca = MumpsParams.get<double *>("RowScaling");
if (RowSca) SetRowScaling(RowSca);
}
// that's all folks
}
return(0);
}
Teuchos::RCP< std::vector<std::string> > RBGen::genFileList( const Teuchos::ParameterList& params )
{
Teuchos::RCP< std::vector< std::string > > filenames = Teuchos::rcp( new std::vector< std::string >() );
// See if the "File I/O" sublist exists
TEUCHOS_TEST_FOR_EXCEPTION(!params.isSublist( "File IO" ), std::invalid_argument, "File I/O sublist does not exist!");
// Get the "File I/O" sublist.
Teuchos::ParameterList& fileio_params = const_cast<Teuchos::ParameterList&>(params.sublist( "File IO" ) );
// See if the "Data Filename Format" sublist exists
TEUCHOS_TEST_FOR_EXCEPTION(!fileio_params.isSublist( "Data Filename Format" ), std::invalid_argument, "Data Filename Format sublist does not exist!");
// Get the "Data Filename Format" sublist.
Teuchos::ParameterList& fileformat_params = fileio_params.sublist( "Data Filename Format" );
// Get the string prepended to the numeric characters.
std::string prepend = "";
if ( fileformat_params.isParameter( "Prepend" ) ) {
prepend = Teuchos::getParameter<std::string>( fileformat_params, "Prepend" );
}
// Get the string postpended to the numeric characters.
std::string postpend = "";
if ( fileformat_params.isParameter( "Postpend" ) ) {
postpend = Teuchos::getParameter<std::string>( fileformat_params, "Postpend" );
}
// Get the string prepended to the numeric characters.
std::string extension = "";
if ( fileformat_params.isParameter( "Extension" ) ) {
extension = Teuchos::getParameter<std::string>( fileformat_params, "Extension" );
}
// Get the base for the numeric count
int base_num = 0;
if ( fileformat_params.isParameter( "File Number Base" ) ) {
base_num = Teuchos::getParameter<int>( fileformat_params, "File Number Base" );
}
std::string format_type = Teuchos::getParameter<std::string>( fileformat_params, "Type" );
if ( format_type == "Single file" ) {
// Get the file to process
filenames->push_back( Teuchos::getParameter<std::string>( fileformat_params, "Data File" ) );
} else
if ( format_type == "Fixed length numeric" ) {
// Get the number of files to process
int num_files = Teuchos::getParameter<int>( fileformat_params, "Number of Files" );
int max_num = base_num + num_files;
int num_places = (int)::ceil( ::log10( (double)(max_num) ) );
for (int i=base_num; i<max_num; i++) {
// Generate the current filename
std::string curr_filename = prepend;
// Get the number of places needed for the current file number
int curr_places = (int)::ceil( ::log10( (double)(i+1) ) );
// Add zeros to pad the file number
for (int j=curr_places; j<num_places; j++) {
curr_filename += "0";
}
// Now add on the current file number, postpend string and extension
filenames->push_back( curr_filename + Teuchos::Utils::toString( i ) + postpend + extension );
}
} else
if ( format_type == "Variable length numeric" ) {
// Get the number of files to process
int num_files = Teuchos::getParameter<int>( fileformat_params, "Number of Files" );
int max_num = base_num + num_files;
for (int i=base_num; i<max_num; i++) {
filenames->push_back( prepend + Teuchos::Utils::toString( i ) + postpend + extension );
}
}
else {
std::string err_str = "File format type, 'Type = " + format_type + "', is not recognized!";
TEUCHOS_TEST_FOR_EXCEPTION(true, std::invalid_argument, err_str);
}
return filenames;
}
Teuchos::RCP< std::vector< Teuchos::RCP<PHX::Evaluator<panzer::Traits> > > >
user_app::MyModelFactory<EvalT>::
buildClosureModels(const std::string& model_id,
const Teuchos::ParameterList& models,
const panzer::FieldLayoutLibrary& fl,
const Teuchos::RCP<panzer::IntegrationRule>& ir,
const Teuchos::ParameterList& default_params,
const Teuchos::ParameterList& user_data,
const Teuchos::RCP<panzer::GlobalData>& global_data,
PHX::FieldManager<panzer::Traits>& fm) const
{
using std::string;
using std::vector;
using Teuchos::RCP;
using Teuchos::rcp;
using Teuchos::ParameterList;
using PHX::Evaluator;
RCP< vector< RCP<Evaluator<panzer::Traits> > > > evaluators =
rcp(new vector< RCP<Evaluator<panzer::Traits> > > );
if (!models.isSublist(model_id)) {
models.print(std::cout);
std::stringstream msg;
msg << "Falied to find requested model, \"" << model_id
<< "\", for equation set:\n" << std::endl;
TEUCHOS_TEST_FOR_EXCEPTION(!models.isSublist(model_id), std::logic_error, msg.str());
}
std::vector<Teuchos::RCP<const panzer::PureBasis> > bases;
fl.uniqueBases(bases);
const ParameterList& my_models = models.sublist(model_id);
for (ParameterList::ConstIterator model_it = my_models.begin();
model_it != my_models.end(); ++model_it) {
bool found = false;
const std::string key = model_it->first;
ParameterList input;
const Teuchos::ParameterEntry& entry = model_it->second;
const ParameterList& plist = Teuchos::getValue<Teuchos::ParameterList>(entry);
if (plist.isType<std::string>("Type")) {
if (plist.get<std::string>("Type") == "Parameter") {
TEUCHOS_ASSERT(!plist.isParameter("Value"));
// Defaults for backward compatibility
std::string parameter_name = key;
std::string field_name = key;
if (plist.isType<std::string>("Parameter Name"))
parameter_name = plist.get<std::string>("Parameter Name");
if (plist.isType<std::string>("Field Name"))
field_name = plist.get<std::string>("Field Name");
{ // at IP
RCP< Evaluator<panzer::Traits> > e =
rcp(new panzer::Parameter<EvalT,panzer::Traits>(parameter_name,field_name,ir->dl_scalar,*global_data->pl));
evaluators->push_back(e);
}
for (std::vector<Teuchos::RCP<const panzer::PureBasis> >::const_iterator basis_itr = bases.begin();
basis_itr != bases.end(); ++basis_itr) { // at BASIS
Teuchos::RCP<const panzer::BasisIRLayout> basis = basisIRLayout(*basis_itr,*ir);
RCP< Evaluator<panzer::Traits> > e =
rcp(new panzer::Parameter<EvalT,panzer::Traits>(parameter_name,field_name,basis->functional,*global_data->pl));
evaluators->push_back(e);
}
found = true;
continue;
}
else if (plist.get<std::string>("Type") == "Distributed Parameter") {
// sanity check
TEUCHOS_ASSERT(distr_param_lof!=Teuchos::null);
// build a nodal basis
Teuchos::RCP<const panzer::PureBasis> nodal_basis
= Teuchos::rcp(new panzer::PureBasis("HGrad",1,bases[0]->numCells(),
bases[0]->getCellTopology()));
{
Teuchos::RCP<std::vector<std::string> > dof_names = Teuchos::rcp(new std::vector<std::string>);
dof_names->push_back(key);
ParameterList p("Gather");
p.set("Basis", nodal_basis);
p.set("DOF Names", dof_names);
p.set("Indexer Names", dof_names);
p.set("Sensitivities Name", key);
p.set("Disable Sensitivities", false);
p.set("Gather Seed Index", 0);
p.set("Global Data Key", key);
RCP< PHX::Evaluator<panzer::Traits> > e = distr_param_lof->buildGatherDomain<EvalT>(p);
evaluators->push_back(e);
}
{
ParameterList p;
p.set("Name", key);
p.set("Basis", basisIRLayout(nodal_basis,*ir));
p.set("IR", ir);
RCP< PHX::Evaluator<panzer::Traits> > e = rcp(new panzer::DOF<EvalT,panzer::Traits>(p));
evaluators->push_back(e);
}
found = true;
}
else if (plist.get<std::string>("Type") == "Product") {
RCP<std::vector<std::string> > valuesNames = rcp(new std::vector<std::string>);
// Tokenize a string, put tokens in a vector
panzer::StringTokenizer(*valuesNames,plist.get<std::string>("Term Names"));
double scaling = 1.0;
if(plist.isType<double>("Scaling"))
scaling = plist.get<double>("Scaling");
{
Teuchos::ParameterList input;
input.set("Scaling", scaling);
input.set("Product Name", key);
input.set("Values Names", valuesNames);
input.set("Data Layout", ir->dl_scalar);
RCP< panzer::Product<EvalT,panzer::Traits> > e =
rcp(new panzer::Product<EvalT,panzer::Traits>(input));
evaluators->push_back(e);
}
found = true;
}
}
else if (plist.isType<double>("Value")) {
{ // at IP
input.set("Name", key);
input.set("Value", plist.get<double>("Value"));
input.set("Data Layout", ir->dl_scalar);
RCP< Evaluator<panzer::Traits> > e =
rcp(new panzer::Constant<EvalT,panzer::Traits>(input));
evaluators->push_back(e);
}
// at BASIS
for (std::vector<Teuchos::RCP<const panzer::PureBasis> >::const_iterator basis_itr = bases.begin();
basis_itr != bases.end(); ++basis_itr) {
input.set("Name", key);
input.set("Value", plist.get<double>("Value"));
Teuchos::RCP<const panzer::BasisIRLayout> basis = basisIRLayout(*basis_itr,*ir);
input.set("Data Layout", basis->functional);
RCP< Evaluator<panzer::Traits> > e =
rcp(new panzer::Constant<EvalT,panzer::Traits>(input));
evaluators->push_back(e);
}
found = true;
}
if (plist.isType<std::string>("Value")) {
const std::string value = plist.get<std::string>("Value");
if (key == "Global Statistics") {
if (typeid(EvalT) == typeid(panzer::Traits::Residual)) {
input.set("Comm", user_data.get<Teuchos::RCP<const Teuchos::Comm<int> > >("Comm"));
input.set("Names", value);
input.set("IR", ir);
input.set("Global Data", global_data);
RCP< panzer::GlobalStatistics<EvalT,panzer::Traits> > e =
rcp(new panzer::GlobalStatistics<EvalT,panzer::Traits>(input));
evaluators->push_back(e);
// Require certain fields be evaluated
fm.template requireField<EvalT>(e->getRequiredFieldTag());
}
found = true;
}
else if(value=="Field Spy") {
const std::string & source = plist.get<std::string>("Source Field");
RCP<panzer::FieldSpy<EvalT,panzer::Traits> > e =
rcp(new panzer::FieldSpy<EvalT,panzer::Traits>(source,ir->dl_scalar));
evaluators->push_back(e);
fm.template requireField<EvalT>(e->getRequiredFieldTag());
found = true;
}
else if(value=="Field Spy Basis") {
const std::string & source = plist.get<std::string>("Source Field");
RCP<panzer::FieldSpy<EvalT,panzer::Traits> > e =
rcp(new panzer::FieldSpy<EvalT,panzer::Traits>(source,bases[0]->functional));
evaluators->push_back(e);
fm.template requireField<EvalT>(e->getRequiredFieldTag());
found = true;
}
}
if (key == "Volume Integral") {
{
ParameterList input;
input.set("Name", "Unit Value");
input.set("Value", 1.0);
input.set("Data Layout", ir->dl_scalar);
RCP< Evaluator<panzer::Traits> > e =
rcp(new panzer::Constant<EvalT,panzer::Traits>(input));
evaluators->push_back(e);
}
{
ParameterList input;
input.set("Integral Name", "Volume_Integral");
input.set("Integrand Name", "Unit Value");
input.set("IR", ir);
RCP< Evaluator<panzer::Traits> > e =
rcp(new panzer::Integrator_Scalar<EvalT,panzer::Traits>(input));
evaluators->push_back(e);
}
found = true;
}
if (key == "Coordinates") {
std::string dim_str[3] = {"X","Y","Z"};
panzer::CellData cell_data(ir->workset_size,ir->topology);
panzer::PureBasis basis("HGrad",1,cell_data);
for(int i=0; i<basis.dimension(); i++) {
ParameterList input;
input.set("Field Name", "COORD"+dim_str[i]);
input.set("Data Layout", basis.functional);
input.set("Dimension", i);
RCP< Evaluator<panzer::Traits> > e =
rcp(new panzer::CoordinatesEvaluator<EvalT,panzer::Traits>(input));
evaluators->push_back(e);
}
found = true;
}
if (!found) {
std::stringstream msg;
msg << "ClosureModelFactory failed to build evaluator for key \"" << key
<< "\"\nin model \"" << model_id
<< "\". Please correct the type or add support to the \nfactory." <<std::endl;
TEUCHOS_TEST_FOR_EXCEPTION(!found, std::logic_error, msg.str());
}
}
return evaluators;
}
void AdaptiveSaMLParameterListInterpreter<Scalar, LocalOrdinal, GlobalOrdinal, Node>::SetParameterList(const Teuchos::ParameterList & paramList_in) {
Teuchos::ParameterList paramList = paramList_in;
RCP<Teuchos::FancyOStream> out = Teuchos::fancyOStream(Teuchos::rcpFromRef(std::cout)); // TODO: use internal out (GetOStream())
//
// Read top-level of the parameter list
//
// hard-coded default values == ML defaults according to the manual
MUELU_READ_PARAM(paramList, "ML output", int, 0, verbosityLevel);
MUELU_READ_PARAM(paramList, "max levels", int, 10, maxLevels);
MUELU_READ_PARAM(paramList, "PDE equations", int, 1, nDofsPerNode);
MUELU_READ_PARAM(paramList, "coarse: max size", int, 128, maxCoarseSize);
MUELU_READ_PARAM(paramList, "aggregation: type", std::string, "Uncoupled", agg_type);
//MUELU_READ_PARAM(paramList, "aggregation: threshold", double, 0.0, agg_threshold);
MUELU_READ_PARAM(paramList, "aggregation: damping factor", double, (double)4/(double)3, agg_damping);
//MUELU_READ_PARAM(paramList, "aggregation: smoothing sweeps", int, 1, agg_smoothingsweeps);
MUELU_READ_PARAM(paramList, "aggregation: nodes per aggregate", int, 1, minPerAgg);
MUELU_READ_PARAM(paramList, "null space: type", std::string, "default vectors", nullspaceType);
MUELU_READ_PARAM(paramList, "null space: dimension", int, -1, nullspaceDim); // TODO: ML default not in documentation
MUELU_READ_PARAM(paramList, "null space: vectors", double*, NULL, nullspaceVec); // TODO: ML default not in documentation
MUELU_READ_PARAM(paramList, "energy minimization: enable", bool, false, bEnergyMinimization);
//
// Move smoothers/aggregation/coarse parameters to sublists
//
// ML allows to have level-specific smoothers/aggregation/coarse parameters at the top level of the list or/and defined in sublists:
// See also: ML Guide section 6.4.1, MueLu::CreateSublists, ML_CreateSublists
ParameterList paramListWithSubList;
MueLu::CreateSublists(paramList, paramListWithSubList);
paramList = paramListWithSubList; // swap
// std::cout << std::endl << "Parameter list after CreateSublists" << std::endl;
// std::cout << paramListWithSubList << std::endl;
int maxNbrAlreadySelected = 0;
// Matrix option
this->blksize_ = nDofsPerNode;
// Translate verbosity parameter
Teuchos::EVerbosityLevel eVerbLevel = Teuchos::VERB_NONE;
if (verbosityLevel == 0) eVerbLevel = Teuchos::VERB_NONE;
if (verbosityLevel > 0) eVerbLevel = Teuchos::VERB_LOW;
if (verbosityLevel > 4) eVerbLevel = Teuchos::VERB_MEDIUM;
if (verbosityLevel > 7) eVerbLevel = Teuchos::VERB_HIGH;
if (verbosityLevel > 9) eVerbLevel = Teuchos::VERB_EXTREME;
TEUCHOS_TEST_FOR_EXCEPTION(agg_type != "Uncoupled" && agg_type != "Coupled", Exceptions::RuntimeError, "MueLu::MLParameterListInterpreter::Setup(): parameter \"aggregation: type\": only 'Uncoupled' or 'Coupled' aggregation is supported.");
// Create MueLu factories
// RCP<NullspaceFactory> nspFact = rcp(new NullspaceFactory());
RCP<CoalesceDropFactory> dropFact = rcp(new CoalesceDropFactory());
//dropFact->SetVerbLevel(toMueLuVerbLevel(eVerbLevel));
RCP<FactoryBase> CoupledAggFact = Teuchos::null;
if(agg_type == "Uncoupled") {
// Uncoupled aggregation
RCP<UncoupledAggregationFactory> CoupledAggFact2 = rcp(new UncoupledAggregationFactory());
CoupledAggFact2->SetMinNodesPerAggregate(minPerAgg); //TODO should increase if run anything other than 1D
CoupledAggFact2->SetMaxNeighAlreadySelected(maxNbrAlreadySelected);
CoupledAggFact2->SetOrdering("natural");
CoupledAggFact = CoupledAggFact2;
} else {
// Coupled Aggregation (default)
RCP<CoupledAggregationFactory> CoupledAggFact2 = rcp(new CoupledAggregationFactory());
CoupledAggFact2->SetMinNodesPerAggregate(minPerAgg); //TODO should increase if run anything other than 1D
CoupledAggFact2->SetMaxNeighAlreadySelected(maxNbrAlreadySelected);
CoupledAggFact2->SetOrdering("natural");
CoupledAggFact2->SetPhase3AggCreation(0.5);
CoupledAggFact = CoupledAggFact2;
}
if (verbosityLevel > 3) { // TODO fix me: Setup is a static function: we cannot use GetOStream without an object...
*out << "========================= Aggregate option summary  =========================" << std::endl;
*out << "min Nodes per aggregate : Â Â Â Â Â Â Â " << minPerAgg << std::endl;
*out << "min # of root nbrs already aggregated : " << maxNbrAlreadySelected << std::endl;
*out << "aggregate ordering : Â Â Â Â Â Â Â Â Â Â natural" << std::endl;
*out << "=============================================================================" << std::endl;
}
RCP<Factory> PFact;
RCP<Factory> RFact;
RCP<Factory> PtentFact = rcp( new TentativePFactory() );
if (agg_damping == 0.0 && bEnergyMinimization == false) {
// tentative prolongation operator (PA-AMG)
PFact = PtentFact;
RFact = rcp( new TransPFactory() );
} else if (agg_damping != 0.0 && bEnergyMinimization == false) {
// smoothed aggregation (SA-AMG)
RCP<SaPFactory> SaPFact = rcp( new SaPFactory() );
SaPFact->SetParameter("sa: damping factor", ParameterEntry(agg_damping));
PFact = SaPFact;
RFact = rcp( new TransPFactory() );
} else if (bEnergyMinimization == true) {
// Petrov Galerkin PG-AMG smoothed aggregation (energy minimization in ML)
PFact = rcp( new PgPFactory() );
RFact = rcp( new GenericRFactory() );
}
RCP<RAPFactory> AcFact = rcp( new RAPFactory() );
for (size_t i = 0; i<TransferFacts_.size(); i++) {
AcFact->AddTransferFactory(TransferFacts_[i]); // THIS WILL BE REPLACED with a call to the MLParamterListInterpreter
}
//
// Nullspace factory
//
// Set fine level nullspace
// extract pre-computed nullspace from ML parameter list
// store it in nullspace_ and nullspaceDim_
if (nullspaceType != "default vectors") {
TEUCHOS_TEST_FOR_EXCEPTION(nullspaceType != "pre-computed", Exceptions::RuntimeError, "MueLu::MLParameterListInterpreter: no valid nullspace (no pre-computed null space). error.");
TEUCHOS_TEST_FOR_EXCEPTION(nullspaceDim == -1, Exceptions::RuntimeError, "MueLu::MLParameterListInterpreter: no valid nullspace (nullspace dim == -1). error.");
TEUCHOS_TEST_FOR_EXCEPTION(nullspaceVec == NULL, Exceptions::RuntimeError, "MueLu::MLParameterListInterpreter: no valid nullspace (nullspace == NULL). You have to provide a valid fine-level nullspace in \'null space: vectors\'");
nullspaceDim_ = nullspaceDim;
nullspace_ = nullspaceVec;
}
Teuchos::RCP<NullspaceFactory> nspFact = Teuchos::rcp(new NullspaceFactory());
nspFact->SetFactory("Nullspace", PtentFact);
//
// Hierarchy + FactoryManager
//
// Hierarchy options
this->SetVerbLevel(toMueLuVerbLevel(eVerbLevel));
this->numDesiredLevel_ = maxLevels;
this->maxCoarseSize_ = maxCoarseSize;
// init smoother
RCP<SmootherFactory> initSmootherFact = Teuchos::null;
if(paramList.isSublist("init smoother")) {
ParameterList& initList = paramList.sublist("init smoother"); // TODO move this before for loop
initSmootherFact = MLParameterListInterpreter::GetSmootherFactory(initList); // TODO: missing AFact input arg.
} else {
std::string ifpackType = "RELAXATION";
Teuchos::ParameterList smootherParamList;
smootherParamList.set("relaxation: type", "symmetric Gauss-Seidel");
smootherParamList.set("smoother: sweeps", 1);
smootherParamList.set("smoother: damping factor", 1.0);
RCP<SmootherPrototype> smooProto = rcp( new TrilinosSmoother(ifpackType, smootherParamList, 0) );
initSmootherFact = rcp( new SmootherFactory() );
initSmootherFact->SetSmootherPrototypes(smooProto, smooProto);
}
//
// Coarse Smoother
//
ParameterList& coarseList = paramList.sublist("coarse: list");
// coarseList.get("smoother: type", "Amesos-KLU"); // set default
//RCP<SmootherFactory> coarseFact = this->GetSmootherFactory(coarseList);
RCP<SmootherFactory> coarseFact = MLParameterListInterpreter::GetSmootherFactory(coarseList);
// Smoothers Top Level Parameters
RCP<ParameterList> topLevelSmootherParam = ExtractSetOfParameters(paramList, "smoother");
// std::cout << std::endl << "Top level smoother parameters:" << std::endl;
// std::cout << *topLevelSmootherParam << std::endl;
//
// Prepare factory managers
// TODO: smootherFact can be reuse accross level if same parameters/no specific parameterList
for (int levelID=0; levelID < maxLevels; levelID++) {
//
// Level FactoryManager
//
RCP<FactoryManager> manager = rcp(new FactoryManager());
RCP<FactoryManager> initmanager = rcp(new FactoryManager());
//
// Smoothers
//
{
// Merge level-specific parameters with global parameters. level-specific parameters takes precedence.
// TODO: unit-test this part alone
ParameterList levelSmootherParam = GetMLSubList(paramList, "smoother", levelID); // copy
MergeParameterList(*topLevelSmootherParam, levelSmootherParam, false); /* false = do no overwrite levelSmootherParam parameters by topLevelSmootherParam parameters */
// std::cout << std::endl << "Merged List for level " << levelID << std::endl;
// std::cout << levelSmootherParam << std::endl;
//RCP<SmootherFactory> smootherFact = this->GetSmootherFactory(levelSmootherParam); // TODO: missing AFact input arg.
RCP<SmootherFactory> smootherFact = MLParameterListInterpreter::GetSmootherFactory(levelSmootherParam); // TODO: missing AFact input arg.
manager->SetFactory("Smoother", smootherFact);
smootherFact->DisableMultipleCallCheck();
initmanager->SetFactory("Smoother", initSmootherFact);
initmanager->SetFactory("CoarseSolver", initSmootherFact);
initSmootherFact->DisableMultipleCallCheck();
}
//
// Misc
//
Teuchos::rcp_dynamic_cast<PFactory>(PFact)->DisableMultipleCallCheck();
Teuchos::rcp_dynamic_cast<PFactory>(PtentFact)->DisableMultipleCallCheck();
Teuchos::rcp_dynamic_cast<TwoLevelFactoryBase>(RFact)->DisableMultipleCallCheck();
Teuchos::rcp_dynamic_cast<SingleLevelFactoryBase>(coarseFact)->DisableMultipleCallCheck();
Teuchos::rcp_dynamic_cast<SingleLevelFactoryBase>(dropFact)->DisableMultipleCallCheck();
Teuchos::rcp_dynamic_cast<SingleLevelFactoryBase>(CoupledAggFact)->DisableMultipleCallCheck();
Teuchos::rcp_dynamic_cast<TwoLevelFactoryBase>(AcFact)->DisableMultipleCallCheck();
Teuchos::rcp_dynamic_cast<SingleLevelFactoryBase>(nspFact)->DisableMultipleCallCheck();
manager->SetFactory("CoarseSolver", coarseFact); // TODO: should not be done in the loop
manager->SetFactory("Graph", dropFact);
manager->SetFactory("Aggregates", CoupledAggFact);
manager->SetFactory("DofsPerNode", dropFact);
manager->SetFactory("A", AcFact);
manager->SetFactory("P", PFact);
manager->SetFactory("Ptent", PtentFact);
manager->SetFactory("R", RFact);
manager->SetFactory("Nullspace", nspFact);
//initmanager->SetFactory("CoarseSolver", coarseFact);
initmanager->SetFactory("Graph", dropFact);
initmanager->SetFactory("Aggregates", CoupledAggFact);
initmanager->SetFactory("DofsPerNode", dropFact);
initmanager->SetFactory("A", AcFact);
initmanager->SetFactory("P", PtentFact); // use nonsmoothed transfers
initmanager->SetFactory("Ptent", PtentFact);
initmanager->SetFactory("R", RFact);
initmanager->SetFactory("Nullspace", nspFact);
this->AddFactoryManager(levelID, 1, manager);
this->AddInitFactoryManager(levelID, 1, initmanager);
} // for (level loop)
}
Teuchos::RCP< std::vector< Teuchos::RCP<PHX::Evaluator<panzer::Traits> > > >
user_app::MyModelFactory<EvalT>::
buildClosureModels(const std::string& model_id,
const Teuchos::ParameterList& models,
const panzer::FieldLayoutLibrary& fl,
const Teuchos::RCP<panzer::IntegrationRule>& ir,
const Teuchos::ParameterList& default_params,
const Teuchos::ParameterList& user_data,
const Teuchos::RCP<panzer::GlobalData>& global_data,
PHX::FieldManager<panzer::Traits>& fm) const
{
using std::string;
using std::vector;
using Teuchos::RCP;
using Teuchos::rcp;
using Teuchos::ParameterList;
using PHX::Evaluator;
RCP< vector< RCP<Evaluator<panzer::Traits> > > > evaluators =
rcp(new vector< RCP<Evaluator<panzer::Traits> > > );
if (!models.isSublist(model_id)) {
models.print(std::cout);
std::stringstream msg;
msg << "Falied to find requested model, \"" << model_id
<< "\", for equation set:\n" << std::endl;
TEUCHOS_TEST_FOR_EXCEPTION(!models.isSublist(model_id), std::logic_error, msg.str());
}
std::vector<Teuchos::RCP<const panzer::PureBasis> > bases;
fl.uniqueBases(bases);
const ParameterList& my_models = models.sublist(model_id);
for (ParameterList::ConstIterator model_it = my_models.begin();
model_it != my_models.end(); ++model_it) {
bool found = false;
const std::string key = model_it->first;
ParameterList input;
const Teuchos::ParameterEntry& entry = model_it->second;
const ParameterList& plist = Teuchos::getValue<Teuchos::ParameterList>(entry);
#ifdef HAVE_STOKHOS
if (plist.isType<double>("Value") && plist.isType<double>("UQ")
&& plist.isParameter("Expansion")
&& (typeid(EvalT)==typeid(panzer::Traits::SGResidual) ||
typeid(EvalT)==typeid(panzer::Traits::SGJacobian)) ) {
{ // at IP
input.set("Name", key);
input.set("Value", plist.get<double>("Value"));
input.set("UQ", plist.get<double>("UQ"));
input.set("Expansion", plist.get<Teuchos::RCP<Stokhos::OrthogPolyExpansion<int,double> > >("Expansion"));
input.set("Data Layout", ir->dl_scalar);
RCP< Evaluator<panzer::Traits> > e =
rcp(new user_app::ConstantModel<EvalT,panzer::Traits>(input));
evaluators->push_back(e);
}
for (std::vector<Teuchos::RCP<const panzer::PureBasis> >::const_iterator basis_itr = bases.begin();
basis_itr != bases.end(); ++basis_itr) { // at BASIS
input.set("Name", key);
input.set("Value", plist.get<double>("Value"));
input.set("UQ", plist.get<double>("UQ"));
input.set("Expansion", plist.get<Teuchos::RCP<Stokhos::OrthogPolyExpansion<int,double> > >("Expansion"));
Teuchos::RCP<const panzer::BasisIRLayout> basis = basisIRLayout(*basis_itr,*ir);
input.set("Data Layout", basis->functional);
RCP< Evaluator<panzer::Traits> > e =
rcp(new user_app::ConstantModel<EvalT,panzer::Traits>(input));
evaluators->push_back(e);
}
found = true;
}
else
#endif
if (plist.isType<std::string>("Type")) {
if (plist.get<std::string>("Type") == "Parameter") {
{ // at IP
RCP< Evaluator<panzer::Traits> > e =
rcp(new panzer::Parameter<EvalT,panzer::Traits>(key,ir->dl_scalar,plist.get<double>("Value"),*global_data->pl));
evaluators->push_back(e);
}
for (std::vector<Teuchos::RCP<const panzer::PureBasis> >::const_iterator basis_itr = bases.begin();
basis_itr != bases.end(); ++basis_itr) { // at BASIS
Teuchos::RCP<const panzer::BasisIRLayout> basis = basisIRLayout(*basis_itr,*ir);
RCP< Evaluator<panzer::Traits> > e =
rcp(new panzer::Parameter<EvalT,panzer::Traits>(key,basis->functional,plist.get<double>("Value"),*global_data->pl));
evaluators->push_back(e);
}
found = true;
}
}
else if (plist.isType<double>("Value")) {
{ // at IP
input.set("Name", key);
input.set("Value", plist.get<double>("Value"));
input.set("Data Layout", ir->dl_scalar);
RCP< Evaluator<panzer::Traits> > e =
rcp(new user_app::ConstantModel<EvalT,panzer::Traits>(input));
evaluators->push_back(e);
}
// at BASIS
for (std::vector<Teuchos::RCP<const panzer::PureBasis> >::const_iterator basis_itr = bases.begin();
basis_itr != bases.end(); ++basis_itr) {
input.set("Name", key);
input.set("Value", plist.get<double>("Value"));
Teuchos::RCP<const panzer::BasisIRLayout> basis = basisIRLayout(*basis_itr,*ir);
input.set("Data Layout", basis->functional);
RCP< Evaluator<panzer::Traits> > e =
rcp(new user_app::ConstantModel<EvalT,panzer::Traits>(input));
evaluators->push_back(e);
}
found = true;
}
if (plist.isType<std::string>("Value")) {
const std::string value = plist.get<std::string>("Value");
if (key == "Global Statistics") {
if (typeid(EvalT) == typeid(panzer::Traits::Residual)) {
input.set("Comm", user_data.get<Teuchos::RCP<const Teuchos::Comm<int> > >("Comm"));
input.set("Names", value);
input.set("IR", ir);
input.set("Global Data", global_data);
RCP< panzer::GlobalStatistics<EvalT,panzer::Traits> > e =
rcp(new panzer::GlobalStatistics<EvalT,panzer::Traits>(input));
evaluators->push_back(e);
// Require certain fields be evaluated
fm.template requireField<EvalT>(e->getRequiredFieldTag());
}
found = true;
}
}
if (key == "Volume Integral") {
{
ParameterList input;
input.set("Name", "Unit Value");
input.set("Value", 1.0);
input.set("Data Layout", ir->dl_scalar);
RCP< Evaluator<panzer::Traits> > e =
rcp(new user_app::ConstantModel<EvalT,panzer::Traits>(input));
evaluators->push_back(e);
}
{
ParameterList input;
input.set("Integral Name", "Volume_Integral");
input.set("Integrand Name", "Unit Value");
input.set("IR", ir);
RCP< Evaluator<panzer::Traits> > e =
rcp(new panzer::Integrator_Scalar<EvalT,panzer::Traits>(input));
evaluators->push_back(e);
}
found = true;
}
if (key == "Coordinates") {
std::string dim_str[3] = {"X","Y","Z"};
panzer::CellData cell_data(ir->workset_size,ir->topology);
panzer::PureBasis basis("HGrad",1,cell_data);
for(int i=0;i<basis.dimension();i++) {
ParameterList input;
input.set("Field Name", "COORD"+dim_str[i]);
input.set("Data Layout", basis.functional);
input.set("Dimension", i);
RCP< Evaluator<panzer::Traits> > e =
rcp(new panzer::CoordinatesEvaluator<EvalT,panzer::Traits>(input));
evaluators->push_back(e);
}
found = true;
}
if (!found) {
std::stringstream msg;
msg << "ClosureModelFactory failed to build evaluator for key \"" << key
<< "\"\nin model \"" << model_id
<< "\". Please correct the type or add support to the \nfactory." <<std::endl;
TEUCHOS_TEST_FOR_EXCEPTION(!found, std::logic_error, msg.str());
}
}
return evaluators;
}
Teuchos::RCP< std::vector< Teuchos::RCP<PHX::Evaluator<panzer::Traits> > > >
user_app::MyModelFactory<EvalT>::
buildClosureModels(const std::string& model_id,
const Teuchos::ParameterList& models,
const panzer::FieldLayoutLibrary& fl,
const Teuchos::RCP<panzer::IntegrationRule>& ir,
const Teuchos::ParameterList& default_params,
const Teuchos::ParameterList& user_data,
const Teuchos::RCP<panzer::GlobalData>& global_data,
PHX::FieldManager<panzer::Traits>& fm) const
{
using std::string;
using std::vector;
using Teuchos::RCP;
using Teuchos::rcp;
using Teuchos::ParameterList;
using PHX::Evaluator;
RCP< vector< RCP<Evaluator<panzer::Traits> > > > evaluators =
rcp(new vector< RCP<Evaluator<panzer::Traits> > > );
if (!models.isSublist(model_id)) {
std::stringstream msg;
msg << "Falied to find requested model, \"" << model_id
<< "\", for equation set:\n" << std::endl;
TEUCHOS_TEST_FOR_EXCEPTION(!models.isSublist(model_id), std::logic_error, msg.str());
}
std::vector<Teuchos::RCP<const panzer::PureBasis> > bases;
fl.uniqueBases(bases);
const ParameterList& my_models = models.sublist(model_id);
for (ParameterList::ConstIterator model_it = my_models.begin();
model_it != my_models.end(); ++model_it) {
bool found = false;
const std::string key = model_it->first;
ParameterList input;
const Teuchos::ParameterEntry& entry = model_it->second;
const ParameterList& plist = Teuchos::getValue<Teuchos::ParameterList>(entry);
if (plist.isType<double>("Value")) {
{ // at IP
input.set("Name", key);
input.set("Value", plist.get<double>("Value"));
input.set("Data Layout", ir->dl_scalar);
RCP< Evaluator<panzer::Traits> > e =
rcp(new panzer::Constant<EvalT,panzer::Traits>(input));
evaluators->push_back(e);
}
for (std::vector<Teuchos::RCP<const panzer::PureBasis> >::const_iterator basis_itr = bases.begin();
basis_itr != bases.end(); ++basis_itr) { // at BASIS
input.set("Name", key);
input.set("Value", plist.get<double>("Value"));
Teuchos::RCP<const panzer::BasisIRLayout> basis = basisIRLayout(*basis_itr,*ir);
input.set("Data Layout", basis->functional);
RCP< Evaluator<panzer::Traits> > e =
rcp(new panzer::Constant<EvalT,panzer::Traits>(input));
evaluators->push_back(e);
}
found = true;
}
if (plist.isType<std::string>("Value")) {
const std::string value = plist.get<std::string>("Value");
if (key == "Global Statistics") {
if (typeid(EvalT) == typeid(panzer::Traits::Residual)) {
input.set("Comm", user_data.get<Teuchos::RCP<const Teuchos::Comm<int> > >("Comm"));
input.set("Names", value);
input.set("IR", ir);
input.set("Global Data", global_data);
RCP< panzer::GlobalStatistics<EvalT,panzer::Traits> > e =
rcp(new panzer::GlobalStatistics<EvalT,panzer::Traits>(input));
evaluators->push_back(e);
// Require certain fields be evaluated
fm.template requireField<EvalT>(e->getRequiredFieldTag());
}
found = true;
}
}
if (!found) {
std::stringstream msg;
msg << "ClosureModelFactory failed to build evaluator for key \"" << key
<< "\"\nin model \"" << model_id
<< "\". Please correct the type or add support to the \nfactory." <<std::endl;
TEUCHOS_TEST_FOR_EXCEPTION(!found, std::logic_error, msg.str());
}
}
return evaluators;
}
void Operator<Node>::paramsToUpper(Teuchos::ParameterList &plist, int &changed, bool rmUnderscore)
{
changed = 0;
// get a list of all parameter names in the list
std::vector<std::string> paramNames ;
Teuchos::ParameterList::ConstIterator pIter;
pIter = plist.begin();
while (1){
//////////////////////////////////////////////////////////////////////
// Compiler considered this while statement an error
// for ( pIter = plist.begin() ; pIter != plist.end() ; pIter++ ){
// }
//////////////////////////////////////////////////////////////////////
if (pIter == plist.end()) break;
const std::string & nm = plist.name(pIter);
paramNames.push_back(nm);
pIter++;
}
// Change parameter names and values to upper case
for (unsigned int i=0; i < paramNames.size(); i++){
std::string origName(paramNames[i]);
int paramNameChanged = 0;
stringToUpper(paramNames[i], paramNameChanged, rmUnderscore);
if (plist.isSublist(origName)){
Teuchos::ParameterList &sublist = plist.sublist(origName);
int sublistChanged=0;
paramsToUpper(sublist, sublistChanged, false);
if (paramNameChanged){
// this didn't work, so I need to remove the old sublist
// and create a new one
//
//sublist.setName(paramNames[i]);
Teuchos::ParameterList newlist(sublist);
plist.remove(origName);
plist.set(paramNames[i], newlist);
}
}
else if (plist.isParameter(origName)){
std::string paramVal(plist.get<std::string>(origName));
int paramValChanged=0;
stringToUpper(paramVal, paramValChanged);
if (paramNameChanged || paramValChanged){
if (paramNameChanged){
plist.remove(origName);
}
plist.set(paramNames[i], paramVal);
changed++;
}
}
} // next parameter or sublist
}
void ParameterListInterpreter<Scalar, LocalOrdinal, GlobalOrdinal, Node, LocalMatOps>::UpdateFactoryManager(Teuchos::ParameterList& paramList,
const Teuchos::ParameterList& defaultList, FactoryManager& manager) const {
// NOTE: Factory::SetParameterList must be called prior to Factory::SetFactory, as
// SetParameterList sets default values for non mentioned parameters, including factories
// === Smoothing ===
bool isCustomSmoother =
paramList.isParameter("smoother: pre or post") ||
paramList.isParameter("smoother: type") || paramList.isParameter("smoother: pre type") || paramList.isParameter("smoother: post type") ||
paramList.isSublist ("smoother: params") || paramList.isSublist ("smoother: pre params") || paramList.isSublist ("smoother: post params") ||
paramList.isParameter("smoother: sweeps") || paramList.isParameter("smoother: pre sweeps") || paramList.isParameter("smoother: post sweeps") ||
paramList.isParameter("smoother: overlap") || paramList.isParameter("smoother: pre overlap") || paramList.isParameter("smoother: post overlap");;
MUELU_READ_2LIST_PARAM(paramList, defaultList, "smoother: pre or post", std::string, "both", PreOrPost);
if (PreOrPost == "none") {
manager.SetFactory("Smoother", Teuchos::null);
} else if (isCustomSmoother) {
// FIXME: get default values from the factory
// NOTE: none of the smoothers at the moment use parameter validation framework, so we
// cannot get the default values from it.
#define TEST_MUTUALLY_EXCLUSIVE(arg1,arg2) \
TEUCHOS_TEST_FOR_EXCEPTION(paramList.isParameter(#arg1) && paramList.isParameter(#arg2), \
Exceptions::InvalidArgument, "You cannot specify both \""#arg1"\" and \""#arg2"\"");
#define TEST_MUTUALLY_EXCLUSIVE_S(arg1,arg2) \
TEUCHOS_TEST_FOR_EXCEPTION(paramList.isSublist(#arg1) && paramList.isSublist(#arg2), \
Exceptions::InvalidArgument, "You cannot specify both \""#arg1"\" and \""#arg2"\"");
TEST_MUTUALLY_EXCLUSIVE ("smoother: type", "smoother: pre type");
TEST_MUTUALLY_EXCLUSIVE ("smoother: type", "smoother: post type");
TEST_MUTUALLY_EXCLUSIVE ("smoother: sweeps", "smoother: pre sweeps");
TEST_MUTUALLY_EXCLUSIVE ("smoother: sweeps", "smoother: post sweeps");
TEST_MUTUALLY_EXCLUSIVE ("smoother: overlap", "smoother: pre overlap");
TEST_MUTUALLY_EXCLUSIVE ("smoother: overlap", "smoother: post overlap");
TEST_MUTUALLY_EXCLUSIVE_S("smoother: params", "smoother: pre params");
TEST_MUTUALLY_EXCLUSIVE_S("smoother: params", "smoother: post params");
TEUCHOS_TEST_FOR_EXCEPTION(PreOrPost == "both" && (paramList.isParameter("smoother: pre type") != paramList.isParameter("smoother: post type")),
Exceptions::InvalidArgument, "You must specify both \"smoother: pre type\" and \"smoother: post type\"");
// Default values
int overlap = 0;
ParameterList defaultSmootherParams;
defaultSmootherParams.set("relaxation: type", "Symmetric Gauss-Seidel");
defaultSmootherParams.set("relaxation: sweeps", Teuchos::OrdinalTraits<LO>::one());
defaultSmootherParams.set("relaxation: damping factor", Teuchos::ScalarTraits<Scalar>::one());
RCP<SmootherPrototype> preSmoother = Teuchos::null, postSmoother = Teuchos::null;
std::string preSmootherType, postSmootherType;
ParameterList preSmootherParams, postSmootherParams;
if (paramList.isParameter("smoother: overlap"))
overlap = paramList.get<int>("smoother: overlap");
if (PreOrPost == "pre" || PreOrPost == "both") {
if (paramList.isParameter("smoother: pre type")) {
preSmootherType = paramList.get<std::string>("smoother: pre type");
} else {
MUELU_READ_2LIST_PARAM(paramList, defaultList, "smoother: type", std::string, "RELAXATION", preSmootherTypeTmp);
preSmootherType = preSmootherTypeTmp;
}
if (paramList.isParameter("smoother: pre overlap"))
overlap = paramList.get<int>("smoother: pre overlap");
if (paramList.isSublist("smoother: pre params"))
preSmootherParams = paramList.sublist("smoother: pre params");
else if (paramList.isSublist("smoother: params"))
preSmootherParams = paramList.sublist("smoother: params");
else if (defaultList.isSublist("smoother: params"))
preSmootherParams = defaultList.sublist("smoother: params");
else if (preSmootherType == "RELAXATION")
preSmootherParams = defaultSmootherParams;
preSmoother = rcp(new TrilinosSmoother(preSmootherType, preSmootherParams, overlap));
}
if (PreOrPost == "post" || PreOrPost == "both") {
if (paramList.isParameter("smoother: post type"))
postSmootherType = paramList.get<std::string>("smoother: post type");
else {
MUELU_READ_2LIST_PARAM(paramList, defaultList, "smoother: type", std::string, "RELAXATION", postSmootherTypeTmp);
postSmootherType = postSmootherTypeTmp;
}
if (paramList.isSublist("smoother: post params"))
postSmootherParams = paramList.sublist("smoother: post params");
else if (paramList.isSublist("smoother: params"))
postSmootherParams = paramList.sublist("smoother: params");
else if (defaultList.isSublist("smoother: params"))
postSmootherParams = defaultList.sublist("smoother: params");
else if (postSmootherType == "RELAXATION")
postSmootherParams = defaultSmootherParams;
if (paramList.isParameter("smoother: post overlap"))
overlap = paramList.get<int>("smoother: post overlap");
if (postSmootherType == preSmootherType && areSame(preSmootherParams, postSmootherParams))
postSmoother = preSmoother;
else
postSmoother = rcp(new TrilinosSmoother(postSmootherType, postSmootherParams, overlap));
}
manager.SetFactory("Smoother", rcp(new SmootherFactory(preSmoother, postSmoother)));
}
// === Coarse solver ===
bool isCustomCoarseSolver =
paramList.isParameter("coarse: type") ||
paramList.isParameter("coarse: params");
if (paramList.isParameter("coarse: type") && paramList.get<std::string>("coarse: type") == "none") {
manager.SetFactory("CoarseSolver", Teuchos::null);
} else if (isCustomCoarseSolver) {
// FIXME: get default values from the factory
// NOTE: none of the smoothers at the moment use parameter validation framework, so we
// cannot get the default values from it.
MUELU_READ_2LIST_PARAM(paramList, defaultList, "coarse: type", std::string, "", coarseType);
ParameterList coarseParams;
if (paramList.isSublist("coarse: params"))
coarseParams = paramList.sublist("coarse: params");
else if (defaultList.isSublist("coarse: params"))
coarseParams = defaultList.sublist("coarse: params");
RCP<SmootherPrototype> coarseSmoother;
// TODO: this is not a proper place to check. If we consider direct solver to be a special
// case of smoother, we would like to unify Amesos and Ifpack2 smoothers in src/Smoothers, and
// have a single factory responsible for those. Then, this check would belong there.
if (coarseType == "RELAXATION" || coarseType == "CHEBYSHEV" ||
coarseType == "ILUT" || coarseType == "ILU" || coarseType == "RILUK" || coarseType == "SCHWARZ")
coarseSmoother = rcp(new TrilinosSmoother(coarseType, coarseParams));
else
coarseSmoother = rcp(new DirectSolver(coarseType, coarseParams));
manager.SetFactory("CoarseSolver", rcp(new SmootherFactory(coarseSmoother)));
}
// === Aggregation ===
// Aggregation graph
RCP<CoalesceDropFactory> dropFactory = rcp(new CoalesceDropFactory());
ParameterList dropParams;
dropParams.set("lightweight wrap", true);
MUELU_TEST_AND_SET_PARAM(dropParams, "algorithm", paramList, defaultList, "aggregation: drop scheme", std::string);
// Rename classical to original
if (dropParams.isParameter("algorithm") && dropParams.get<std::string>("algorithm") == "classical")
dropParams.set("algorithm", "original");
MUELU_TEST_AND_SET_PARAM(dropParams, "aggregation threshold", paramList, defaultList, "aggregation: drop tol", double);
MUELU_TEST_AND_SET_PARAM(dropParams, "Dirichlet detection threshold", paramList, defaultList, "aggregation: Dirichlet threshold", double);
dropFactory->SetParameterList(dropParams);
manager.SetFactory("Graph", dropFactory);
// Aggregation sheme
MUELU_READ_2LIST_PARAM(paramList, defaultList, "aggregation: type", std::string, "uncoupled", aggType);
RCP<Factory> aggFactory;
if (aggType == "uncoupled") {
aggFactory = rcp(new UncoupledAggregationFactory());
ParameterList aggParams;
MUELU_TEST_AND_SET_PARAM(aggParams, "mode", paramList, defaultList, "aggregation: mode", std::string);
MUELU_TEST_AND_SET_PARAM(aggParams, "MinNodesPerAggregate", paramList, defaultList, "aggregation: min agg size", int);
MUELU_TEST_AND_SET_PARAM(aggParams, "MaxNodesPerAggregate", paramList, defaultList, "aggregation: max agg size", int);
MUELU_TEST_AND_SET_PARAM(aggParams, "aggregation: preserve Dirichlet points", paramList, defaultList, "aggregation: preserve Dirichlet points", bool);
aggFactory->SetParameterList(aggParams);
} else if (aggType == "coupled") {
QCAD::MeshRegion<EvalT, Traits>::
MeshRegion(std::string coordVecName, std::string weightsName,
Teuchos::ParameterList& p,
const Teuchos::RCP<QCAD::MaterialDatabase> matDB,
const Teuchos::RCP<Albany::Layouts>& dl_ )
{
materialDB = matDB;
coordVecFieldname = coordVecName;
weightsFieldname = weightsName;
// number of quad points per cell and dimension of space
std::vector<PHX::DataLayout::size_type> dims;
dl = dl_;
dl->qp_vector->dimensions(dims);
numQPs = dims[1];
numDims = dims[2];
// Restriction to element blocks
std::string ebNameStr = p.get<std::string>("Element Block Name","");
if(ebNameStr.length() == 0) ebNameStr = p.get<std::string>("Element Block Names","");
if(ebNameStr.length() > 0) Albany::splitStringOnDelim(ebNameStr,',',ebNames);
bQuantumEBsOnly = p.get<bool>("Quantum Element Blocks Only",false);
// Restriction to coordinate ranges
limitX = limitY = limitZ = false;
if( p.isParameter("x min") && p.isParameter("x max") ) {
limitX = true; TEUCHOS_TEST_FOR_EXCEPT(numDims <= 0);
xmin = p.get<double>("x min");
xmax = p.get<double>("x max");
}
if( p.isParameter("y min") && p.isParameter("y max") ) {
limitY = true; TEUCHOS_TEST_FOR_EXCEPT(numDims <= 1);
ymin = p.get<double>("y min");
ymax = p.get<double>("y max");
}
if( p.isParameter("z min") && p.isParameter("z max") ) {
limitZ = true; TEUCHOS_TEST_FOR_EXCEPT(numDims <= 2);
zmin = p.get<double>("z min");
zmax = p.get<double>("z max");
}
//Restriction to xy polygon
const int polyPtDim = 2; //expect (x,y) coordinates
int nPts = 0;
if( p.isSublist("XY Polygon") ) {
Teuchos::Array<double> ar;
Teuchos::ParameterList& polyList = p.sublist("XY Polygon");
nPts = polyList.get<int>("Number of Points",0);
xyPolygon.resize(nPts);
for(int i=0; i<nPts; i++) {
xyPolygon[i].resize(numDims);
ar = polyList.get<Teuchos::Array<double> >( Albany::strint("Point",i) );
TEUCHOS_TEST_FOR_EXCEPTION (ar.size() != (int)polyPtDim, Teuchos::Exceptions::InvalidParameter, std::endl
<< "XY-polygon point does not have " << polyPtDim << " elements" << std::endl);
for(std::size_t k=0; k<polyPtDim; k++) xyPolygon[i][k] = ar[k];
}
}
bRestrictToXYPolygon = (nPts >= 3); //need at least three points to restrict to a polygon
// Restriction to a level set of a field
levelSetFieldname = p.get<std::string>("Level Set Field Name","");
levelSetFieldMin = p.get<double>("Level Set Field Minimum", -1e100);
levelSetFieldMax = p.get<double>("Level Set Field Maximum", +1e100);
bRestrictToLevelSet = (levelSetFieldname.length() > 0);
}
/** \brief This function builds the internals of the state from a parameter list.
*
* This function builds the internals of the LU 2x2 state
* from a parameter list. Furthermore, it allows a
* developer to easily add a factory to the build system.
*
* \param[in] settings Parameter list to use as the internal settings
* \param[in] invLib Inverse library to use for building inverse factory objects
*
* \note The default implementation does nothing.
*/
void PCDStrategy::initializeFromParameterList(const Teuchos::ParameterList & pl,
const InverseLibrary & invLib)
{
Teko_DEBUG_SCOPE("PCDStrategy::initializeFromParameterList",10);
std::string invStr="Amesos", invFStr="", invSStr="";
massInverseType_ = Diagonal;
// "parse" the parameter list
if(pl.isParameter("Inverse Type"))
invStr = pl.get<std::string>("Inverse Type");
if(pl.isParameter("Inverse F Type"))
invFStr = pl.get<std::string>("Inverse F Type");
if(pl.isParameter("Inverse Laplace Type"))
invSStr = pl.get<std::string>("Inverse Laplace Type");
if(pl.isParameter("Inverse Mass Type")) {
std::string massInverseStr = pl.get<std::string>("Inverse Mass Type");
// build inverse types
massInverseType_ = getDiagonalType(massInverseStr);
}
if(pl.isParameter("Flip Schur Complement Ordering"))
schurCompOrdering_ = pl.get<bool>("Flip Schur Complement Ordering");
// set defaults as needed
if(invFStr=="") invFStr = invStr;
if(invSStr=="") invSStr = invStr;
// read pressure laplace parameters
if(pl.isSublist("Pressure Laplace Parameters"))
lapParams_ = Teuchos::rcp(new Teuchos::ParameterList(pl.sublist("Pressure Laplace Parameters")));
else
lapParams_ = Teuchos::rcp(new Teuchos::ParameterList);
// read pcd operator parameters
if(pl.isSublist("Pressure Convection Diffusion Parameters"))
pcdParams_ = Teuchos::rcp(new Teuchos::ParameterList(pl.sublist("Pressure Convection Diffusion Parameters")));
else
pcdParams_ = Teuchos::rcp(new Teuchos::ParameterList);
// The user should not have already added this parameters
TEUCHOS_TEST_FOR_EXCEPTION(lapParams_->isParameter("Name"),std::logic_error,
"Teko: Parameter \"Name\" is not allowed in the sublist \""+lapParams_->name()+"\"");
TEUCHOS_TEST_FOR_EXCEPTION(lapParams_->isParameter("Tag"),std::logic_error,
"Teko: Parameter \"Tag\" is not allowed in the sublist \""+lapParams_->name()+"\"");
TEUCHOS_TEST_FOR_EXCEPTION(pcdParams_->isParameter("Name"),std::logic_error,
"Teko: Parameter \"Name\" is not allowed in the sublist \""+pcdParams_->name()+"\"");
TEUCHOS_TEST_FOR_EXCEPTION(pcdParams_->isParameter("Tag"),std::logic_error,
"Teko: Parameter \"Tag\" is not allowed in the sublist \""+pcdParams_->name()+"\"");
Teko_DEBUG_MSG_BEGIN(5)
DEBUG_STREAM << "PCD Strategy Parameters: " << std::endl;
DEBUG_STREAM << " inv type = \"" << invStr << "\"" << std::endl;
DEBUG_STREAM << " inv F type = \"" << invFStr << "\"" << std::endl;
DEBUG_STREAM << " inv Laplace type = \"" << invSStr << "\"" << std::endl;
DEBUG_STREAM << " inv Mass type = \"" << Teko::getDiagonalName(massInverseType_) << "\"" << std::endl;
DEBUG_STREAM << "PCD Strategy Parameter list: " << std::endl;
pl.print(DEBUG_STREAM);
Teko_DEBUG_MSG_END()
// build velocity inverse factory
invFactoryF_ = invLib.getInverseFactory(invFStr);
if(invFStr==invSStr)
invFactoryS_ = invFactoryF_;
else
invFactoryS_ = invLib.getInverseFactory(invSStr);
lapParams_->set("Name",getPressureLaplaceString());
pcdParams_->set("Name",getPCDString());
// setup a request for required operators
getRequestHandler()->preRequest<Teko::LinearOp>(getPressureMassString());
// getRequestHandler()->preRequest<Teko::LinearOp>(getPCDString());
// getRequestHandler()->preRequest<Teko::LinearOp>(getPressureLaplaceString());
getRequestHandler()->preRequest<Teko::LinearOp>(Teko::RequestMesg(lapParams_));
getRequestHandler()->preRequest<Teko::LinearOp>(Teko::RequestMesg(pcdParams_));
}
Teuchos::RCP<MueLu::TpetraOperator<Scalar,LocalOrdinal,GlobalOrdinal,Node> >
CreateTpetraPreconditioner(const Teuchos::RCP<Tpetra::CrsMatrix <Scalar, LocalOrdinal, GlobalOrdinal, Node> >& inA,
Teuchos::ParameterList& paramList,
const Teuchos::RCP<Tpetra::MultiVector<Scalar, LocalOrdinal, GlobalOrdinal, Node> >& inCoords = Teuchos::null,
const Teuchos::RCP<Tpetra::MultiVector<Scalar, LocalOrdinal, GlobalOrdinal, Node> >& inNullspace = Teuchos::null)
{
typedef Scalar SC;
typedef LocalOrdinal LO;
typedef GlobalOrdinal GO;
typedef Node NO;
typedef Xpetra::MultiVector<SC,LO,GO,NO> MultiVector;
typedef Xpetra::Matrix<SC,LO,GO,NO> Matrix;
typedef Hierarchy<SC,LO,GO,NO> Hierarchy;
typedef HierarchyManager<SC,LO,GO,NO> HierarchyManager;
bool hasParamList = paramList.numParams();
RCP<HierarchyManager> mueLuFactory;
RCP<Hierarchy> H;
if (hasParamList) {
mueLuFactory = rcp(new ParameterListInterpreter<SC,LO,GO,NO>(paramList));
H = mueLuFactory->CreateHierarchy();
} else {
H = rcp(new Hierarchy());
}
// Wrap A
RCP<Matrix> A = TpetraCrs_To_XpetraMatrix<SC,LO,GO,NO>(inA);
H->GetLevel(0)->Set("A", A);
// Wrap coordinates if available
if (inCoords != Teuchos::null) {
RCP<MultiVector> coordinates = TpetraMultiVector_To_XpetraMultiVector<SC,LO,GO,NO>(inCoords);
H->GetLevel(0)->Set("Coordinates", coordinates);
}
// Wrap nullspace if available, otherwise use constants
RCP<MultiVector> nullspace;
if (inNullspace != Teuchos::null) {
nullspace = TpetraMultiVector_To_XpetraMultiVector<SC,LO,GO,NO>(inNullspace);
} else {
int nPDE = 1;
if (paramList.isSublist("Matrix")) {
const Teuchos::ParameterList& operatorList = paramList.sublist("Matrix");
if (operatorList.isParameter("PDE equations"))
nPDE = operatorList.get<int>("PDE equations");
}
nullspace = Xpetra::MultiVectorFactory<SC,LO,GO,NO>::Build(A->getDomainMap(), nPDE);
if (nPDE == 1) {
nullspace->putScalar(Teuchos::ScalarTraits<SC>::one());
} else {
for (int i = 0; i < nPDE; i++) {
Teuchos::ArrayRCP<SC> nsData = nullspace->getDataNonConst(i);
for (int j = 0; j < nsData.size(); j++) {
GO GID = A->getDomainMap()->getGlobalElement(j) - A->getDomainMap()->getIndexBase();
if ((GID-i) % nPDE == 0)
nsData[j] = Teuchos::ScalarTraits<SC>::one();
}
}
}
}
H->GetLevel(0)->Set("Nullspace", nullspace);
if (hasParamList)
mueLuFactory->SetupHierarchy(*H);
else
H->Setup();
return rcp(new TpetraOperator<SC,LO,GO,NO>(H));
}