void
Albany::IossSTKMeshStruct::setFieldAndBulkData(
const Teuchos::RCP<const Epetra_Comm>& comm,
const Teuchos::RCP<Teuchos::ParameterList>& params,
const unsigned int neq_,
const AbstractFieldContainer::FieldContainerRequirements& req,
const Teuchos::RCP<Albany::StateInfoStruct>& sis,
const unsigned int worksetSize)
{
this->SetupFieldData(comm, neq_, req, sis, worksetSize);
*out << "IOSS-STK: number of node sets = " << nsPartVec.size() << std::endl;
*out << "IOSS-STK: number of side sets = " << ssPartVec.size() << std::endl;
metaData->commit();
// Restart index to read solution from exodus file.
int index = params->get("Restart Index",-1); // Default to no restart
double res_time = params->get<double>("Restart Time",-1.0); // Default to no restart
Ioss::Region *region = mesh_data->m_input_region;
/*
* The following code block reads a single mesh on PE 0, then distributes the mesh across
* the other processors. stk_rebalance is used, which requires Zoltan
*
* This code is only compiled if ALBANY_MPI and ALBANY_ZOLTAN are true
*/
#ifdef ALBANY_ZOLTAN // rebalance needs Zoltan
if(useSerialMesh){
bulkData->modification_begin();
if(comm->MyPID() == 0){ // read in the mesh on PE 0
stk::io::process_mesh_bulk_data(region, *bulkData);
// Read solution from exodus file.
if (index >= 0) { // User has specified a time step to restart at
*out << "Restart Index set, reading solution index : " << index << std::endl;
stk::io::input_mesh_fields(region, *bulkData, index);
m_restartDataTime = region->get_state_time(index);
m_hasRestartSolution = true;
}
else if (res_time >= 0) { // User has specified a time to restart at
*out << "Restart solution time set, reading solution time : " << res_time << std::endl;
stk::io::input_mesh_fields(region, *bulkData, res_time);
m_restartDataTime = res_time;
m_hasRestartSolution = true;
}
else {
*out << "Neither restart index or time are set. Not reading solution data from exodus file"<< std::endl;
}
}
bulkData->modification_end();
} // End UseSerialMesh - reading mesh on PE 0
else
#endif
/*
* The following code block reads a single mesh when Albany is compiled serially, or a
* Nemspread fileset if ALBANY_MPI is true.
*
*/
{ // running in Serial or Parallel read from Nemspread files
stk::io::populate_bulk_data(*bulkData, *mesh_data);
if (!usePamgen) {
// Read solution from exodus file.
if (index >= 0) { // User has specified a time step to restart at
*out << "Restart Index set, reading solution index : " << index << std::endl;
stk::io::process_input_request(*mesh_data, *bulkData, index);
m_restartDataTime = region->get_state_time(index);
m_hasRestartSolution = true;
}
else if (res_time >= 0) { // User has specified a time to restart at
*out << "Restart solution time set, reading solution time : " << res_time << std::endl;
stk::io::process_input_request(*mesh_data, *bulkData, res_time);
m_restartDataTime = res_time;
m_hasRestartSolution = true;
}
else {
*out << "Restart Index not set. Not reading solution from exodus ("
<< index << ")"<< std::endl;
}
}
bulkData->modification_end();
} // End Parallel Read - or running in serial
if(m_hasRestartSolution){
Teuchos::Array<std::string> default_field;
default_field.push_back("solution");
Teuchos::Array<std::string> restart_fields =
params->get<Teuchos::Array<std::string> >("Restart Fields", default_field);
// Get the fields to be used for restart
// See what state data was initialized from the stk::io request
// This should be propagated into stk::io
const Ioss::ElementBlockContainer& elem_blocks = region->get_element_blocks();
/*
// Uncomment to print what fields are in the exodus file
Ioss::NameList exo_fld_names;
elem_blocks[0]->field_describe(&exo_fld_names);
for(std::size_t i = 0; i < exo_fld_names.size(); i++){
*out << "Found field \"" << exo_fld_names[i] << "\" in exodus file" << std::endl;
}
*/
for (std::size_t i=0; i<sis->size(); i++) {
Albany::StateStruct& st = *((*sis)[i]);
if(elem_blocks[0]->field_exists(st.name))
for(std::size_t j = 0; j < restart_fields.size(); j++)
if(boost::iequals(st.name, restart_fields[j])){
*out << "Restarting from field \"" << st.name << "\" found in exodus file." << std::endl;
st.restartDataAvailable = true;
break;
}
}
}
// coordinates_field = metaData->get_field<VectorFieldType>(std::string("coordinates"));
//#ifdef ALBANY_FELIX
// surfaceHeight_field = metaData->get_field<ScalarFieldType>(std::string("surface height"));
//#endif
// Refine the mesh before starting the simulation if indicated
uniformRefineMesh(comm);
// Rebalance the mesh before starting the simulation if indicated
rebalanceInitialMesh(comm);
// Build additional mesh connectivity needed for mesh fracture (if indicated)
computeAddlConnectivity();
}
void
Albany::IossSTKMeshStruct::setFieldAndBulkData (
const Teuchos::RCP<const Teuchos_Comm>& commT,
const Teuchos::RCP<Teuchos::ParameterList>& params,
const unsigned int neq_,
const AbstractFieldContainer::FieldContainerRequirements& req,
const Teuchos::RCP<Albany::StateInfoStruct>& sis,
const unsigned int worksetSize)
{
this->SetupFieldData(commT, neq_, req, sis, worksetSize);
mesh_data->set_bulk_data(*bulkData);
*out << "IOSS-STK: number of node sets = " << nsPartVec.size() << std::endl;
*out << "IOSS-STK: number of side sets = " << ssPartVec.size() << std::endl;
mesh_data->add_all_mesh_fields_as_input_fields();
std::vector<stk::io::MeshField> missing;
metaData->commit();
// Restart index to read solution from exodus file.
int index = params->get("Restart Index",-1); // Default to no restart
double res_time = params->get<double>("Restart Time",-1.0); // Default to no restart
Ioss::Region& region = *(mesh_data->get_input_io_region());
/*
* The following code block reads a single mesh on PE 0, then distributes the mesh across
* the other processors. stk_rebalance is used, which requires Zoltan
*
* This code is only compiled if ALBANY_MPI and ALBANY_ZOLTAN are true
*/
#ifdef ALBANY_ZOLTAN // rebalance needs Zoltan
if(useSerialMesh){
// trick to avoid hanging
bulkData->modification_begin();
if(commT->getRank() == 0){ // read in the mesh on PE 0
//stk::io::process_mesh_bulk_data(region, *bulkData);
mesh_data->populate_bulk_data();
//bulkData = &mesh_data->bulk_data();
// Read solution from exodus file.
if (index >= 0) { // User has specified a time step to restart at
*out << "Restart Index set, reading solution index : " << index << std::endl;
mesh_data->read_defined_input_fields(index, &missing);
m_restartDataTime = region.get_state_time(index);
m_hasRestartSolution = true;
}
else if (res_time >= 0) { // User has specified a time to restart at
*out << "Restart solution time set, reading solution time : " << res_time << std::endl;
mesh_data->read_defined_input_fields(res_time, &missing);
m_restartDataTime = res_time;
m_hasRestartSolution = true;
}
else {
*out << "Neither restart index or time are set. Not reading solution data from exodus file"<< std::endl;
}
}
else {
// trick to avoid hanging
bulkData->modification_begin(); bulkData->modification_begin();
}
bulkData->modification_end();
} // End UseSerialMesh - reading mesh on PE 0
else
#endif
/*
* The following code block reads a single mesh when Albany is compiled serially, or a
* Nemspread fileset if ALBANY_MPI is true.
*
*/
{ // running in Serial or Parallel read from Nemspread files
mesh_data->populate_bulk_data();
if (!usePamgen)
{
// Read solution from exodus file.
if (index >= 0)
{ // User has specified a time step to restart at
*out << "Restart Index set, reading solution index : " << index << std::endl;
mesh_data->read_defined_input_fields(index, &missing);
m_restartDataTime = region.get_state_time(index);
m_hasRestartSolution = true;
}
else if (res_time >= 0)
{ // User has specified a time to restart at
*out << "Restart solution time set, reading solution time : " << res_time << std::endl;
mesh_data->read_defined_input_fields(res_time, &missing);
m_restartDataTime = res_time;
m_hasRestartSolution = true;
}
else
{
*out << "Neither restart index or time are set. We still read defined fields in case they are needed (e.g., parameters)."<< std::endl;
// *out << "Restart Index not set. Not reading solution from exodus (" << index << ")"<< std::endl;
}
}
bulkData->modification_end();
} // End Parallel Read - or running in serial
if(m_hasRestartSolution){
Teuchos::Array<std::string> default_field;
default_field.push_back("solution");
Teuchos::Array<std::string> restart_fields =
params->get<Teuchos::Array<std::string> >("Restart Fields", default_field);
// Get the fields to be used for restart
// See what state data was initialized from the stk::io request
// This should be propagated into stk::io
const Ioss::ElementBlockContainer& elem_blocks = region.get_element_blocks();
/*
// Uncomment to print what fields are in the exodus file
Ioss::NameList exo_fld_names;
elem_blocks[0]->field_describe(&exo_fld_names);
for(std::size_t i = 0; i < exo_fld_names.size(); i++){
*out << "Found field \"" << exo_fld_names[i] << "\" in exodus file" << std::endl; } */
for (std::size_t i=0; i<sis->size(); i++) { Albany::StateStruct& st = *((*sis)[i]);
if(elem_blocks[0]->field_exists(st.name))
for(std::size_t j = 0; j < restart_fields.size(); j++)
if(boost::iequals(st.name, restart_fields[j])){
*out << "Restarting from field \"" << st.name << "\" found in exodus file." << std::endl;
st.restartDataAvailable = true;
break;
}
}
}
#ifdef ALBANY_FELIX
// Load required fields
stk::mesh::Selector select_owned_in_part = stk::mesh::Selector(metaData->universal_part()) & stk::mesh::Selector(metaData->locally_owned_part());
stk::mesh::Selector select_overlap_in_part = stk::mesh::Selector(metaData->universal_part()) & (stk::mesh::Selector(metaData->locally_owned_part()) | stk::mesh::Selector(metaData->globally_shared_part()));
std::vector<stk::mesh::Entity> nodes;
stk::mesh::get_selected_entities(select_overlap_in_part, bulkData->buckets(stk::topology::NODE_RANK), nodes);
std::vector<stk::mesh::Entity> elems;
stk::mesh::get_selected_entities(select_owned_in_part, bulkData->buckets(stk::topology::ELEM_RANK), elems);
GO numOwnedNodes(0);
GO numOwnedElems(0);
numOwnedNodes = stk::mesh::count_selected_entities(select_owned_in_part, bulkData->buckets(stk::topology::NODE_RANK));
numOwnedElems = stk::mesh::count_selected_entities(select_owned_in_part, bulkData->buckets(stk::topology::ELEM_RANK));
GO numGlobalVertices = 0;
GO numGlobalElements = 0;
Teuchos::reduceAll<int, GO>(*commT, Teuchos::REDUCE_SUM, 1, &numOwnedNodes, &numGlobalVertices);
Teuchos::reduceAll<int, GO>(*commT, Teuchos::REDUCE_SUM, 1, &numOwnedElems, &numGlobalElements);
if (commT->getRank() == 0)
{
*out << "Checking if requirements are already stored in the mesh. If not, we import them from ascii files.\n";
}
Teuchos::Array<GO> nodeIndices(nodes.size()), elemIndices(elems.size());
for (int i = 0; i < nodes.size(); ++i)
nodeIndices[i] = bulkData->identifier(nodes[i]) - 1;
for (int i = 0; i < elems.size(); ++i)
elemIndices[i] = bulkData->identifier(elems[i]) - 1;
// Creating the serial and parallel node maps
const Tpetra::global_size_t INVALID = Teuchos::OrdinalTraits<Tpetra::global_size_t>::invalid ();
Teuchos::RCP<const Tpetra_Map> nodes_map = Tpetra::createNonContigMapWithNode<LO, GO> (nodeIndices, commT, KokkosClassic::Details::getNode<KokkosNode>());
Teuchos::RCP<const Tpetra_Map> elems_map = Tpetra::createNonContigMapWithNode<LO, GO> (elemIndices, commT, KokkosClassic::Details::getNode<KokkosNode>());
int numMyNodes = (commT->getRank() == 0) ? numGlobalVertices : 0;
int numMyElements = (commT->getRank() == 0) ? numGlobalElements : 0;
Teuchos::RCP<const Tpetra_Map> serial_nodes_map = Teuchos::rcp(new const Tpetra_Map(INVALID, numMyNodes, 0, commT));
Teuchos::RCP<const Tpetra_Map> serial_elems_map = Teuchos::rcp(new const Tpetra_Map(INVALID, numMyElements, 0, commT));
// Creating the Tpetra_Import object (to transfer from serial to parallel vectors)
Tpetra_Import importOperatorNode (serial_nodes_map, nodes_map);
Tpetra_Import importOperatorElem (serial_elems_map, elems_map);
Teuchos::ParameterList* req_fields_info;
if (params->isSublist("Required Fields Info"))
{
req_fields_info = ¶ms->sublist("Required Fields Info");
for (AbstractFieldContainer::FieldContainerRequirements::const_iterator it=req.begin(); it!=req.end(); ++it)
{
// Get the file name
std::string temp_str = *it + " File Name";
std::string fname = req_fields_info->get<std::string>(temp_str,"");
// Ge the file type (if not specified, assume Scalar)
temp_str = *it + " Field Type";
std::string ftype = req_fields_info->get<std::string>(temp_str,"");
if (ftype=="")
{
*out << "Warning! No field type specified for field " << *it << ". We skip it and hope is already present in the mesh...\n";
continue;
}
stk::mesh::Entity node, elem;
stk::mesh::EntityId nodeId, elemId;
int lid;
double* values;
typedef AbstractSTKFieldContainer::QPScalarFieldType QPScalarFieldType;
typedef AbstractSTKFieldContainer::QPVectorFieldType QPVectorFieldType;
typedef AbstractSTKFieldContainer::ScalarFieldType ScalarFieldType;
typedef AbstractSTKFieldContainer::VectorFieldType VectorFieldType;
// Depending on the field type, we need to use different pointers
if (ftype == "Node Scalar")
{
// Creating the serial and (possibly) parallel Tpetra service vectors
Tpetra_Vector serial_req_vec(serial_nodes_map);
Tpetra_Vector req_vec(nodes_map);
temp_str = *it + " Value";
if (req_fields_info->isParameter(temp_str))
{
*out << "Discarding other info about Node Scalar field " << *it << " and filling it with constant value " << req_fields_info->get<double>(temp_str) << "\n";
// For debug, we allow to fill the field with a given uniform value
fillTpetraVec (serial_req_vec,req_fields_info->get<double>(temp_str));
}
else if (fname!="")
{
*out << "Reading Node Scalar field " << *it << " from file " << fname << "\n";
// Read the input file and stuff it in the Tpetra vector
readScalarFileSerial (fname,serial_req_vec,commT);
temp_str = *it + " Scale Factor";
if (req_fields_info->isParameter(temp_str))
{
double scale_factor = req_fields_info->get<double>(temp_str);
serial_req_vec.scale (scale_factor);
}
}
else
{
bool found = false;
for (int i(0); i<missing.size(); ++i)
{
if (missing[i].field()->name()==*it)
{
*out << "No file name nor constant value specified for Node Scalar field " << *it << "; initializing it to 0.\n";
fillTpetraVec (serial_req_vec,0.);
found = true;
break;
}
}
if (!found)
{
*out << "Using mesh-stored values for Node Scalar field " << *it << " since no constant value nor filename has been specified\n";
continue;
}
}
// Fill the (possibly) parallel vector
req_vec.doImport(serial_req_vec,importOperatorNode,Tpetra::INSERT);
// Extracting the mesh field and the tpetra vector view
ScalarFieldType* field = metaData->get_field<ScalarFieldType>(stk::topology::NODE_RANK, *it);
TEUCHOS_TEST_FOR_EXCEPTION (field==0, std::logic_error, "Error! Field " << *it << " not present (perhaps is 'Elem Scalar'?).\n");
Teuchos::ArrayRCP<const ST> req_vec_view = req_vec.get1dView();
//Now we have to stuff the vector in the mesh data
for (int i(0); i<nodes.size(); ++i)
{
nodeId = bulkData->identifier(nodes[i]) - 1;
lid = nodes_map->getLocalElement((GO)(nodeId));
values = stk::mesh::field_data(*field, nodes[i]);
values[0] = req_vec_view[lid];
}
}
else if (ftype == "Elem Scalar")
{
// Creating the serial and (possibly) parallel Tpetra service vectors
Tpetra_Vector serial_req_vec(serial_elems_map);
Tpetra_Vector req_vec(elems_map);
temp_str = *it + " Value";
if (req_fields_info->isParameter(temp_str))
{
*out << "Discarding other info about Elem Scalar field " << *it << " and filling it with constant value " << req_fields_info->get<double>(temp_str) << "\n";
// For debug, we allow to fill the field with a given uniform value
fillTpetraVec (serial_req_vec,req_fields_info->get<double>(temp_str));
}
else if (fname!="")
{
*out << "Reading Elem Scalar field " << *it << " from file " << fname << "\n";
// Read the input file and stuff it in the Tpetra vector
readScalarFileSerial (fname,serial_req_vec,commT);
temp_str = *it + " Scale Factor";
if (req_fields_info->isParameter(temp_str))
{
double scale_factor = req_fields_info->get<double>(temp_str);
serial_req_vec.scale (scale_factor);
}
}
else
{
bool found = false;
for (int i(0); i<missing.size(); ++i)
{
if (missing[i].field()->name()==*it)
{
*out << "No file name nor constant value specified for Elem Scalar field " << *it << "; initializing it to 0.\n";
fillTpetraVec (serial_req_vec,0.);
found = true;
break;
}
}
if (!found)
{
*out << "Using mesh-stored values for Elem Scalar field " << *it << " since no constant value nor filename has been specified\n";
continue;
}
}
// Fill the (possibly) parallel vector
req_vec.doImport(serial_req_vec,importOperatorElem,Tpetra::INSERT);
// Extracting the mesh field and the tpetra vector view
QPScalarFieldType* field = metaData->get_field<QPScalarFieldType>(stk::topology::ELEM_RANK, *it);
TEUCHOS_TEST_FOR_EXCEPTION (field==0, std::logic_error, "Error! Field " << *it << " not present (perhaps is 'Node Scalar'?).\n");
Teuchos::ArrayRCP<const ST> req_vec_view = req_vec.get1dView();
//Now we have to stuff the vector in the mesh data
for (int i(0); i<elems.size(); ++i)
{
elemId = bulkData->identifier(elems[i]) - 1;
lid = elems_map->getLocalElement((GO)(elemId));
values = stk::mesh::field_data(*field, elems[i]);
values[0] = req_vec_view[lid];
}
}
else if (ftype == "Node Vector")
{
// Loading the dimension of the Vector Field (by default equal to the mesh dimension)
temp_str = *it + " Field Dimension";
int fieldDim = req_fields_info->get<int>(temp_str,this->meshSpecs[0]->numDim);
// Creating the serial and (possibly) parallel Tpetra service multivectors
Tpetra_MultiVector serial_req_mvec(serial_nodes_map,fieldDim);
Tpetra_MultiVector req_mvec(nodes_map,fieldDim);
temp_str = *it + " Value";
if (req_fields_info->isParameter(temp_str))
{
*out << "Discarding other info about Node Vector field " << *it << " and filling it with constant value "
<< req_fields_info->get<Teuchos::Array<double> >(temp_str) << "\n";
// For debug, we allow to fill the field with a given uniform value
fillTpetraMVec (serial_req_mvec,req_fields_info->get<Teuchos::Array<double> >(temp_str));
}
else if (fname!="")
{
*out << "Reading Node Vector field " << *it << " from file " << fname << "\n";
// Read the input file and stuff it in the Tpetra multivector
readVectorFileSerial (fname,serial_req_mvec,commT);
temp_str = *it + " Scale Factor";
if (req_fields_info->isParameter(temp_str))
{
double scale_factor = req_fields_info->get<double>(temp_str);
serial_req_mvec.scale (scale_factor);
}
}
else
{
bool found = false;
for (int i(0); i<missing.size(); ++i)
{
if (missing[i].field()->name()==*it)
{
*out << "No file name nor constant value specified for Node Vector field " << *it << "; initializing it to 0.\n";
Teuchos::Array<double> vals(fieldDim,0.);
fillTpetraMVec (serial_req_mvec,vals);
found = true;
break;
}
}
if (!found)
{
*out << "Using mesh-stored values for Node Vector field " << *it << " since no constant value nor filename has been specified\n";
continue;
}
}
// Fill the (possibly) parallel vector
req_mvec.doImport(serial_req_mvec,importOperatorNode,Tpetra::INSERT);
// Extracting the mesh field and the tpetra vector views
VectorFieldType* field = metaData->get_field<VectorFieldType>(stk::topology::NODE_RANK, *it);
TEUCHOS_TEST_FOR_EXCEPTION (field==0, std::logic_error, "Error! Field " << *it << " not present (perhaps is 'Elem Vector'?).\n");
std::vector<Teuchos::ArrayRCP<const ST> > req_mvec_view;
for (int i(0); i<fieldDim; ++i)
req_mvec_view.push_back(req_mvec.getVector(i)->get1dView());
//Now we have to stuff the vector in the mesh data
for (int i(0); i<nodes.size(); ++i)
{
nodeId = bulkData->identifier(nodes[i]) - 1;
lid = nodes_map->getLocalElement((GO)(nodeId));
values = stk::mesh::field_data(*field, nodes[i]);
for (int iDim(0); iDim<fieldDim; ++iDim)
values[iDim] = req_mvec_view[iDim][lid];
}
}
else if (ftype == "Elem Vector")
{
// Loading the dimension of the Vector Field (by default equal to the mesh dimension)
temp_str = *it + " Field Dimension";
int fieldDim = req_fields_info->get<int>(temp_str,this->meshSpecs[0]->numDim);
// Creating the serial and (possibly) parallel Tpetra service multivectors
Tpetra_MultiVector serial_req_mvec(serial_elems_map,fieldDim);
Tpetra_MultiVector req_mvec(elems_map,fieldDim);
temp_str = *it + " Value";
if (req_fields_info->isParameter(temp_str))
{
*out << "Discarding other info about Elem Vector field " << *it << " and filling it with constant value "
<< req_fields_info->get<Teuchos::Array<double> >(temp_str) << "\n";
// For debug, we allow to fill the field with a given uniform value
fillTpetraMVec (serial_req_mvec,req_fields_info->get<Teuchos::Array<double> >(temp_str));
}
else if (fname!="")
{
*out << "Reading Elem Vector field " << *it << " from file " << fname << "\n";
// Read the input file and stuff it in the Tpetra multivector
readVectorFileSerial (fname,serial_req_mvec,commT);
temp_str = *it + " Scale Factor";
if (req_fields_info->isParameter(temp_str))
{
double scale_factor = req_fields_info->get<double>(temp_str);
serial_req_mvec.scale (scale_factor);
}
}
else
{
bool found = false;
for (int i(0); i<missing.size(); ++i)
{
if (missing[i].field()->name()==*it)
{
*out << "No file name nor constant value specified for Elem Vector field " << *it << "; initializing it to 0.\n";
Teuchos::Array<double> vals(fieldDim,0.);
fillTpetraMVec (serial_req_mvec,vals);
found = true;
break;
}
}
if (!found)
{
*out << "Using mesh-stored values for Elem Vector field " << *it << " since no constant value nor filename has been specified\n";
continue;
}
}
// Fill the (possibly) parallel vector
req_mvec.doImport(serial_req_mvec,importOperatorElem,Tpetra::INSERT);
// Extracting the mesh field and the tpetra vector views
VectorFieldType* field = metaData->get_field<VectorFieldType>(stk::topology::ELEM_RANK, *it);
TEUCHOS_TEST_FOR_EXCEPTION (field==0, std::logic_error, "Error! Field " << *it << " not present (perhaps is 'Node Vector'?).\n");
std::vector<Teuchos::ArrayRCP<const ST> > req_mvec_view;
for (int i(0); i<fieldDim; ++i)
req_mvec_view.push_back(req_mvec.getVector(i)->get1dView());
//Now we have to stuff the vector in the mesh data
for (int i(0); i<elems.size(); ++i)
{
elemId = bulkData->identifier(elems[i]) - 1;
lid = elems_map->getLocalElement((GO)(elemId));
values = stk::mesh::field_data(*field, nodes[i]);
for (int iDim(0); iDim<fieldDim; ++iDim)
values[iDim] = req_mvec_view[iDim][lid];
}
}
else
{
TEUCHOS_TEST_FOR_EXCEPTION (true, Teuchos::Exceptions::InvalidParameterValue,
"Sorry, I haven't yet implemented the case of field that are not Scalar nor Vector or that is not at nodal nor elemental.\n");
}
}
}
if (params->get<bool>("Write points coordinates to ascii file", false))
{
AbstractSTKFieldContainer::VectorFieldType* coordinates_field = fieldContainer->getCoordinatesField();
std::ofstream ofile;
ofile.open("coordinates.ascii");
if (!ofile.is_open())
{
TEUCHOS_TEST_FOR_EXCEPTION (true, std::logic_error, "Error! Cannot open coordinates file.\n");
}
ofile << nodes.size() << " " << 4 << "\n";
stk::mesh::Entity node;
for (int i(0); i<nodes.size(); ++i)
{
node = bulkData->get_entity(stk::topology::NODE_RANK, i + 1);
double* coord = stk::mesh::field_data(*coordinates_field, node);
ofile << bulkData->identifier (nodes[i]) << " " << coord[0] << " " << coord[1] << " " << coord[2] << "\n";
}
ofile.close();
}
#endif
// Refine the mesh before starting the simulation if indicated
uniformRefineMesh(commT);
// Rebalance the mesh before starting the simulation if indicated
rebalanceInitialMeshT(commT);
// Build additional mesh connectivity needed for mesh fracture (if indicated)
computeAddlConnectivity();
}
