//---------------------------------------------------------------------------//
// Map a reference point to the physical space of an entity.
void MoabEntityLocalMap::mapToPhysicalFrame(
const Entity& entity,
const Teuchos::ArrayView<const double>& reference_point,
const Teuchos::ArrayView<double>& physical_point ) const
{
cacheEntity( entity );
DTK_CHECK_ERROR_CODE(
d_moab_evaluator->eval( reference_point.getRawPtr(),
physical_point.getRawPtr() )
);
}
void
MultiVecAdapter<Epetra_MultiVector>::put1dData(
const Teuchos::ArrayView<const MultiVecAdapter<Epetra_MultiVector>::scalar_t>& new_data,
size_t lda,
Teuchos::Ptr<
const Tpetra::Map<MultiVecAdapter<Epetra_MultiVector>::local_ordinal_t,
MultiVecAdapter<Epetra_MultiVector>::global_ordinal_t,
MultiVecAdapter<Epetra_MultiVector>::node_t> > source_map)
{
using Teuchos::rcpFromPtr;
using Teuchos::as;
const size_t num_vecs = getGlobalNumVectors();
// TODO: check that the following const_cast is safe
double* data_ptr = const_cast<double*>(new_data.getRawPtr());
// Optimization for ROOTED
// TODO: Element-wise copy rather than using importer
if ( num_vecs == 1 && mv_->Comm().MyPID() == 0 && mv_->Comm().NumProc() == 1 ) {
const multivec_t source_mv(Copy, *mv_map_, data_ptr, as<int>(lda), as<int>(num_vecs));
const Epetra_Import importer(*mv_map_, *mv_map_); //trivial - map does not change
mv_->Import(source_mv, importer, Insert);
}
else {
const Epetra_BlockMap e_source_map
= *Util::tpetra_map_to_epetra_map<local_ordinal_t,global_ordinal_t,global_size_t,node_t>(*source_map);
const multivec_t source_mv(Copy, e_source_map, data_ptr, as<int>(lda), as<int>(num_vecs));
const Epetra_Import importer(*mv_map_, e_source_map);
mv_->Import(source_mv, importer, Insert);
}
}
//---------------------------------------------------------------------------//
// Map a point to the reference space of an entity. Return the parameterized
// point.
bool MoabEntityLocalMap::mapToReferenceFrame(
const Entity& entity,
const Teuchos::ArrayView<const double>& physical_point,
const Teuchos::ArrayView<double>& reference_point ) const
{
cacheEntity( entity );
int is_inside = -1;
// Ignore the error code on this one because of the ridiculous
// tolerancing/convergence scheme used in the implementation.
d_moab_evaluator->reverse_eval(
physical_point.getRawPtr(), d_newton_tol,
d_inclusion_tol, reference_point.getRawPtr(), &is_inside );
return (is_inside > 0);
}
void MultiVecAdapter<Epetra_MultiVector>::get1dCopy(
const Teuchos::ArrayView<MultiVecAdapter<Epetra_MultiVector>::scalar_t>& av,
size_t lda,
Teuchos::Ptr<
const Tpetra::Map<MultiVecAdapter<Epetra_MultiVector>::local_ordinal_t,
MultiVecAdapter<Epetra_MultiVector>::global_ordinal_t,
MultiVecAdapter<Epetra_MultiVector>::node_t> > distribution_map ) const
{
using Teuchos::rcpFromPtr;
using Teuchos::as;
const size_t num_vecs = getGlobalNumVectors();
#ifdef HAVE_AMESOS2_DEBUG
const size_t requested_vector_length = distribution_map->getNodeNumElements();
TEUCHOS_TEST_FOR_EXCEPTION( lda < requested_vector_length,
std::invalid_argument,
"Given stride is not large enough for local vector length" );
TEUCHOS_TEST_FOR_EXCEPTION( as<size_t>(av.size()) < (num_vecs-1) * lda + requested_vector_length,
std::invalid_argument,
"MultiVector storage not large enough given leading dimension "
"and number of vectors" );
#endif
// Optimization for ROOTED
if ( num_vecs == 1 && mv_->Comm().MyPID() == 0 && mv_->Comm().NumProc() == 1 ) {
mv_->ExtractCopy(av.getRawPtr(), lda);
}
else {
Epetra_Map e_dist_map
= *Util::tpetra_map_to_epetra_map<local_ordinal_t,
global_ordinal_t,
global_size_t,
node_t>(*distribution_map);
multivec_t redist_mv(e_dist_map, as<int>(num_vecs));
const Epetra_Import importer(e_dist_map, *mv_map_); // Note, target/source order is reversed in Tpetra
redist_mv.Import(*mv_, importer, Insert);
// Finally, do copy
redist_mv.ExtractCopy(av.getRawPtr(), lda);
}
}
void RTOpC::extract_reduct_obj_state_impl(
const ReductTarget &reduct_obj,
const Teuchos::ArrayView<primitive_value_type> &value_data,
const Teuchos::ArrayView<index_type> &index_data,
const Teuchos::ArrayView<char_type> &char_data
) const
{
TEUCHOS_TEST_FOR_EXCEPTION(
0!=RTOp_extract_reduct_obj_state(
&op_, (*this)(reduct_obj),
value_data.size(), value_data.getRawPtr(),
index_data.size(), index_data.getRawPtr(),
char_data.size(), char_data.getRawPtr()
),
UnknownError,
"RTOpC::extract_reduct_obj_state(...): Error, "
"RTOp_extract_reduct_obj_state(...) returned != 0"
);
}
//---------------------------------------------------------------------------//
// Determine if a reference point is in the parameterized space of an entity.
bool MoabEntityLocalMap::checkPointInclusion(
const Entity& entity,
const Teuchos::ArrayView<const double>& reference_point ) const
{
cacheEntity( entity );
int is_inside = d_moab_evaluator->inside( reference_point.getRawPtr(),
d_inclusion_tol );
return (is_inside > 0);
}
void RTOpC::load_reduct_obj_state_impl(
const Teuchos::ArrayView<const primitive_value_type> &value_data,
const Teuchos::ArrayView<const index_type> &index_data,
const Teuchos::ArrayView<const char_type> &char_data,
const Teuchos::Ptr<ReductTarget> &reduct_obj
) const
{
TEUCHOS_TEST_FOR_EXCEPTION(
0!=RTOp_load_reduct_obj_state(
&op_,
value_data.size(), value_data.getRawPtr(),
index_data.size(), index_data.getRawPtr(),
char_data.size(), char_data.getRawPtr(),
(*this)(*reduct_obj)
),
UnknownError,
"RTOpC::load_reduct_obj_state(...): Error, "
"RTOp_load_reduct_obj_state(...) returned != 0"
);
}
//---------------------------------------------------------------------------//
// Return the centroid of the entity.
void MoabEntityLocalMap::centroid(
const Entity& entity, const Teuchos::ArrayView<double>& centroid ) const
{
// Node case.
if ( 0 == entity.topologicalDimension() )
{
moab::EntityHandle handle = MoabHelpers::extractEntity(entity);
d_moab_mesh->get_moab()->get_coords( &handle, 1, centroid.getRawPtr() );
}
// Element case.
else
{
cacheEntity( entity );
Teuchos::Array<double> param_center;
parametricCenter( entity, param_center );
DTK_CHECK_ERROR_CODE(
d_moab_evaluator->eval( param_center.getRawPtr(),
centroid.getRawPtr() )
);
}
}
Kokkos::View<const T*,D>
getKokkosViewDeepCopy(const Teuchos::ArrayView<const T>& a) {
#if defined(KOKKOS_HAVE_PTHREAD)
typedef Kokkos::Threads HostDevice;
#elif defined(KOKKOS_HAVE_OPENMP)
typedef Kokkos::OpenMP HostDevice;
#else
typedef Kokkos::Serial HostDevice;
#endif
typedef Kokkos::View<T*,D> view_type;
typedef Kokkos::View<const T*,typename view_type::array_layout,HostDevice,Kokkos::MemoryUnmanaged> unmanaged_host_view_type;
if (a.size() == 0)
return view_type();
view_type v("", a.size());
unmanaged_host_view_type hv(a.getRawPtr(), a.size());
Kokkos::deep_copy(v,hv);
return v;
}
Kokkos::View<const T*,D>
getKokkosViewDeepCopy(const Teuchos::ArrayView<const T>& a)
{
typedef typename Kokkos::Impl::if_c<
Impl::VerifyExecutionCanAccessMemorySpace< D, Kokkos::HostSpace>::value,
typename D::execution_space, Kokkos::HostSpace>::type
HostDevice;
typedef Kokkos::View<T*, D> view_type;
typedef Kokkos::View<const T*, typename view_type::array_layout, HostDevice,
Kokkos::MemoryUnmanaged> unmanaged_host_view_type;
if (a.size () == 0) {
return view_type ();
}
view_type v ("", a.size ());
unmanaged_host_view_type hv (a.getRawPtr (), a.size ());
Kokkos::deep_copy (v, hv);
return v;
}
Map<LocalOrdinal,GlobalOrdinal,Kokkos::Compat::KokkosDeviceWrapperNode<DeviceType> >::
Map (const global_size_t globalNumIndices,
const Teuchos::ArrayView<const GlobalOrdinal>& myGlobalIndices,
const GlobalOrdinal indexBase,
const Teuchos::RCP<const Teuchos::Comm<int> >& comm,
const Teuchos::RCP<node_type> &node) :
comm_ (comm),
node_ (node),
directory_ (new Directory<LocalOrdinal, GlobalOrdinal, node_type> ())
{
typedef GlobalOrdinal GO;
typedef Kokkos::View<const GlobalOrdinal*, device_type,
Kokkos::MemoryUnmanaged> host_view_type;
typedef Kokkos::View<GlobalOrdinal*, device_type> device_view_type;
// Copy the input GID list from host (we assume that
// Teuchos::ArrayView should only view host memory) to device.
//
// FIXME (mfh 06 Feb, 24 Mar 2014) We could use the CUDA API
// function here that can look at a pointer and tell whether it
// lives on host or device, to tell whether the Teuchos::ArrayView
// is viewing host or device memory. Regardless, we don't own the
// data and we will need a deep copy anyway, so we might as well
// copy it.
host_view_type gidsHost (myGlobalIndices.getRawPtr (), myGlobalIndices.size ());
device_view_type gidsDevice ("GIDs", myGlobalIndices.size ());
Kokkos::deep_copy (gidsDevice, gidsHost);
const global_size_t GSTI = Teuchos::OrdinalTraits<global_size_t>::invalid ();
const GO globalNumInds = (globalNumIndices == GSTI) ?
getInvalidGlobalIndex () : Teuchos::as<GO> (globalNumIndices);
// Start with a host Map implementation, since this will make this
// class' public (host) methods work. If users want device
// methods, they will call getDeviceView(), which will initialize
// the device Map implementation.
//
// NOTE (mfh 06 Feb 2014) If we're using UVM, we don't really need
// the host and device Maps to be separate.
mapHost_ = host_impl_type (globalNumInds, gidsDevice, indexBase, *comm);
// Create the Directory on demand in getRemoteIndexList().
}
void
MultiVecAdapter<Epetra_MultiVector>::put1dData(
const Teuchos::ArrayView<const MultiVecAdapter<Epetra_MultiVector>::scalar_t>& new_data,
size_t lda,
Teuchos::Ptr<
const Tpetra::Map<MultiVecAdapter<Epetra_MultiVector>::local_ordinal_t,
MultiVecAdapter<Epetra_MultiVector>::global_ordinal_t,
MultiVecAdapter<Epetra_MultiVector>::node_t> > source_map)
{
using Teuchos::rcpFromPtr;
using Teuchos::as;
const size_t num_vecs = getGlobalNumVectors();
// TODO: check that the following const_cast is safe
double* data_ptr = const_cast<double*>(new_data.getRawPtr());
const Epetra_BlockMap e_source_map
= *Util::tpetra_map_to_epetra_map<local_ordinal_t,global_ordinal_t,global_size_t,node_t>(*source_map);
const multivec_t source_mv(Copy, e_source_map, data_ptr, as<int>(lda), as<int>(num_vecs));
const Epetra_Import importer(*mv_map_, e_source_map);
mv_->Import(source_mv, importer, Insert);
}
PyObject *
convertToDimData(const Teuchos::RCP< const Tpetra::Map< PYTRILINOS_LOCAL_ORD,
PYTRILINOS_GLOBAL_ORD > > & tm,
int extraDim)
{
// Initialization
PyObject * dim_data = NULL;
PyObject * dim_dict = NULL;
PyObject * indices = NULL;
npy_intp dims = 1;
int currentDim = 0;
Teuchos::ArrayView< const PYTRILINOS_GLOBAL_ORD > nodeBlockIDs;
// Get the Teuchos::Comm
Teuchos::RCP< const Teuchos::Comm< int > > comm = tm->getComm();
// Get the number of dimensions. The vector data constitutes one
// dimension. If the extraDim is greater than one, then that
// constitutes a second possible dimension.
Py_ssize_t ndim = 1;
if (extraDim > 1) ndim += 1;
// Allocate the dim_data return object, which is a tuple of length
// ndim
dim_data = PyTuple_New(ndim);
if (!dim_data) goto fail;
// If we have an extra dimension argument greater than one, then
// define a dimension associated with the multiple vectors
if (extraDim > 1)
{
dim_dict = PyDict_New();
if (!dim_dict) goto fail;
if (PyDict_SetItemString(dim_dict,
"dist_type",
PyString_FromString("n")) == -1) goto fail;
if (PyDict_SetItemString(dim_dict,
"size",
PyInt_FromLong(extraDim)) == -1) goto fail;
// This function steals a reference from dim_dict
PyTuple_SET_ITEM(dim_data, currentDim, dim_dict);
currentDim += 1;
}
// Allocate the dimension data dictionary for the distributed points
// and assign the common key values
dim_dict = PyDict_New();
if (!dim_dict) goto fail;
if (PyDict_SetItemString(dim_dict,
"size",
PyInt_FromLong(tm->getGlobalNumElements())) == -1)
goto fail;
if (PyDict_SetItemString(dim_dict,
"proc_grid_size",
PyInt_FromLong(comm->getSize())) == -1) goto fail;
if (PyDict_SetItemString(dim_dict,
"proc_grid_rank",
PyInt_FromLong(comm->getRank())) == -1) goto fail;
// Determine the type of the dimension data, either block "b" or
// unstructured "u", set the "dist_type" key and other keys required
// according to dist_type.
if (tm->isContiguous())
{
// isContiguous() == true corresponds to DistArray Protocol
// dist_type == "b" (block)
if (PyDict_SetItemString(dim_dict,
"dist_type",
PyString_FromString("b")) == -1) goto fail;
if (PyDict_SetItemString(dim_dict,
"start",
PyInt_FromLong(tm->getMinGlobalIndex())) == -1)
goto fail;
if (PyDict_SetItemString(dim_dict,
"stop",
PyInt_FromLong(tm->getMaxGlobalIndex()+1)) == -1)
goto fail;
}
else
{
// isContiguous() == false corresponds to DistArray Protocol
// dist_type == "u" (unstructured)
if (PyDict_SetItemString(dim_dict,
"dist_type",
PyString_FromString("u")) == -1) goto fail;
dims = tm->getNodeElementList().size();
nodeBlockIDs = tm->getNodeElementList();
indices = PyArray_SimpleNewFromData(1,
&dims,
NPY_LONG,
(void*)nodeBlockIDs.getRawPtr());
if (!indices) goto fail;
if (PyDict_SetItemString(dim_dict,
"indices",
indices) == -1) goto fail;
Py_DECREF(indices);
indices = NULL;
}
// Put the dimension dictionary into the dim_data tuple
PyTuple_SET_ITEM(dim_data, currentDim, dim_dict);
// Return the dim_data tuple
return dim_data;
// Error handling
fail:
Py_XDECREF(dim_data);
Py_XDECREF(dim_dict);
Py_XDECREF(indices);
return NULL;
}
LookupStatus EpetraMap::getRemoteIndexList(const Teuchos::ArrayView< const int > &GIDList, const Teuchos::ArrayView< int > &nodeIDList) const { XPETRA_MONITOR("EpetraMap::getRemoteIndexList"); return toXpetra(map_->RemoteIDList(GIDList.size(), GIDList.getRawPtr(), nodeIDList.getRawPtr(), 0)); }
// TODO: UnitTest FAILED
EpetraMap::EpetraMap(global_size_t numGlobalElements, const Teuchos::ArrayView<const int> &elementList, int indexBase,
const Teuchos::RCP<const Teuchos::Comm<int> > &comm, const Teuchos::RCP<Node> &node)
{
if (numGlobalElements == Teuchos::OrdinalTraits<global_size_t>::invalid()) {
IF_EPETRA_EXCEPTION_THEN_THROW_GLOBAL_INVALID_ARG((map_ = (rcp(new Epetra_BlockMap(-1, elementList.size(), elementList.getRawPtr(), 1, indexBase, *toEpetra(comm))))));
} else {
IF_EPETRA_EXCEPTION_THEN_THROW_GLOBAL_INVALID_ARG((map_ = (rcp(new Epetra_BlockMap(numGlobalElements, elementList.size(), elementList.getRawPtr(), 1, indexBase, *toEpetra(comm))))));
}
}
void EpetraMultiVector::normInf(const Teuchos::ArrayView< Teuchos::ScalarTraits< Scalar >::magnitudeType > &norms) const { XPETRA_MONITOR("EpetraMultiVector::normInf"); vec_->NormInf(norms.getRawPtr()); }
void EpetraMultiVector::normWeighted(const MultiVector<double,int,int> &weights, const Teuchos::ArrayView<Teuchos::ScalarTraits<double>::magnitudeType> &norms) const {
XPETRA_MONITOR("EpetraMultiVector::normWeighted");
XPETRA_DYNAMIC_CAST(const EpetraMultiVector, weights, eWeights, "This Xpetra::EpetraMultiVector method only accept Xpetra::EpetraMultiVector as input arguments.");
vec_->NormWeighted(*eWeights.getEpetra_MultiVector(), norms.getRawPtr());
}
void EpetraMultiVector::meanValue(const Teuchos::ArrayView<double> &means) const { XPETRA_MONITOR("EpetraMultiVector::meanValue"); vec_->MeanValue(means.getRawPtr()); } //TODO: modify ArrayView size ??
void EpetraMultiVector::dot(const MultiVector<double,int,int> &A, const Teuchos::ArrayView<double> &dots) const {
XPETRA_MONITOR("EpetraMultiVector::dot");
XPETRA_DYNAMIC_CAST(const EpetraMultiVector, A, eA, "This Xpetra::EpetraMultiVector method only accept Xpetra::EpetraMultiVector as input arguments.");
vec_->Dot(*eA.getEpetra_MultiVector(), dots.getRawPtr());
}