/usr/include/trilinos/Tpetra_Details_CooMatrix.hpp is in libtrilinos-tpetra-dev 12.12.1-5.
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// ***********************************************************************
//
// Tpetra: Templated Linear Algebra Services Package
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#ifndef TPETRA_DETAILS_COOMATRIX_HPP
#define TPETRA_DETAILS_COOMATRIX_HPP
/// \file Tpetra_Details_CooMatrix.hpp
/// \brief Declaration and definition of Tpetra::Details::CooMatrix,
/// an implementation detail of Tpetra::CrsMatrix (sparse matrix)
/// file input and output.
#include "TpetraCore_config.h"
#include "Tpetra_Details_PackTriples.hpp"
#include "Tpetra_DistObject.hpp"
#include "Tpetra_Details_gathervPrint.hpp"
#include "Teuchos_TypeNameTraits.hpp"
#include <initializer_list>
#include <map>
#include <memory>
#include <string>
#include <type_traits>
#include <vector>
namespace Tpetra {
namespace Details {
// Implementation details of Tpetra::Details.
// So, users REALLY should not use anything in here.
namespace Impl {
/// \brief Type of each (row index, column index) pair in the
/// Tpetra::Details::CooMatrix (see below).
template<class IndexType>
struct CooGraphEntry {
IndexType row;
IndexType col;
};
/// \brief Function comparing two CooGraphEntry structs,
/// lexicographically, first by row index, then by column index.
///
/// CooMatrix (see below) will use this.
template<class IndexType>
struct CompareCooGraphEntries {
bool
operator () (const CooGraphEntry<IndexType>& x,
const CooGraphEntry<IndexType>& y) const
{
return (x.row < y.row) || (x.row == y.row && x.col < y.col);
}
};
/// \brief Implementation detail of Tpetra::Details::CooMatrix (which
/// see below).
template<class SC, class GO>
class CooMatrixImpl {
private:
/// \brief Type of the set of this matrix's locally stored entries.
///
/// The set sorts its entries lexicographically, first by row index,
/// then by column index. It uses global indices, because it's
/// easier to do Matrix Market input and output that way. (How else
/// could you process globally indexed matrix triples when you don't
/// have Maps yet?)
typedef std::map<CooGraphEntry<GO>, SC,
CompareCooGraphEntries<GO> > entries_type;
/// \brief Set of this matrix's locally stored entries, sorted
/// lexicographically, first by row index, then by column index.
entries_type entries_;
public:
//! Type for packing and unpacking data.
typedef char packet_type;
/// \brief Default constructor.
CooMatrixImpl () = default;
/// \brief Insert one entry locally into the sparse matrix, if it
/// does not exist there yet. If it does exist, sum the values.
///
/// \param gblRowInd [in] Global row index of the entry to insert.
/// \param gblColInd [in] Global column index of the entry to insert.
/// \param val [in] Value of the matrix entry to insert / sum.
void
sumIntoGlobalValue (const GO gblRowInd,
const GO gblColInd,
const SC& val)
{
// There's no sense in worrying about the insertion hint, since
// indices may be all over the place. Users make no promises of
// sorting or locality of input.
CooGraphEntry<GO> ij {gblRowInd, gblColInd};
auto result = this->entries_.insert ({ij, val});
if (! result.second) { // already in the map
result.first->second += val; // sum in the new value
}
}
/// \brief Insert multiple entries locally into the sparse matrix.
///
/// This works like multiple calls to sumIntoGlobalValue.
///
/// \param gblRowInd [in] Global row indices of the entries to insert.
/// \param gblColInd [in] Global column indices of the entries to insert.
/// \param val [in] Values of the matrix entries to insert / sum.
/// \param numEnt [in] Number of entries to insert.
void
sumIntoGlobalValues (const GO gblRowInds[],
const GO gblColInds[],
const SC vals[],
const std::size_t numEnt)
{
for (std::size_t k = 0; k < numEnt; ++k) {
// There's no sense in worrying about the insertion hint, since
// indices may be all over the place. Users make no promises of
// sorting or locality of input.
CooGraphEntry<GO> ij {gblRowInds[k], gblColInds[k]};
const SC val = vals[k];
auto result = this->entries_.insert ({ij, val});
if (! result.second) { // already in the map
result.first->second += val; // sum in the new value
}
}
}
//! Number of entries in the sparse matrix on the calling process.
std::size_t
getLclNumEntries () const
{
return this->entries_.size ();
}
/// \brief Execute the given function for all entries of the sparse
/// matrix, sequentially (no thread parallelism). Do not modify
/// entries.
void
forAllEntries (std::function<void (const GO, const GO, const SC&)> f) const
{
for (auto iter = this->entries_.begin ();
iter != this->entries_.end (); ++iter) {
f (iter->first.row, iter->first.col, iter->second);
}
}
/// \brief Into global row tgtGblRow of \c *this, merge global row
/// srcGblRow of \c src.
///
/// For matrix entries with the same row <i>and</i> column indices,
/// sum the values into the entry in tgtEntries.
void
mergeIntoRow (const GO tgtGblRow,
const CooMatrixImpl<SC, GO>& src,
const GO srcGblRow)
{
// const char prefix[] =
// "Tpetra::Details::Impl::CooMatrixImpl::mergeIntoRow: ";
entries_type& tgtEntries = this->entries_;
const entries_type& srcEntries = src.entries_;
// Find all entries with the given global row index. The min GO
// value is guaranteed to be the least possible column index, so
// beg1 is a lower bound for all (row index, column index) pairs.
// Lower bound is inclusive; upper bound is exclusive.
auto srcBeg = srcEntries.lower_bound ({srcGblRow, std::numeric_limits<GO>::min ()});
auto srcEnd = srcEntries.upper_bound ({srcGblRow+1, std::numeric_limits<GO>::min ()});
auto tgtBeg = tgtEntries.lower_bound ({tgtGblRow, std::numeric_limits<GO>::min ()});
auto tgtEnd = tgtEntries.upper_bound ({tgtGblRow+1, std::numeric_limits<GO>::min ()});
// Don't waste time iterating over the current row of *this, if
// the current row of src is empty.
if (srcBeg != srcEnd) {
for (auto tgtCur = tgtBeg; tgtCur != tgtEnd; ++tgtCur) {
auto srcCur = srcBeg;
while (srcCur != srcEnd && srcCur->first.col < tgtCur->first.col) {
++srcCur;
}
// At this point, one of the following is true:
//
// 1. srcCur == srcEnd, thus nothing more to insert.
// 2. srcCur->first.col > tgtCur->first.col, thus the current
// row of src has no entry matching tgtCur->first, so we
// have to insert it. Insertion does not invalidate
// tgtEntries iterators, and neither srcEntries nor
// tgtEntries have duplicates, so this is safe.
// 3. srcCur->first.col == tgtCur->first.col, so add the two entries.
if (srcCur != srcEnd) {
if (srcCur->first.col == tgtCur->first.col) {
tgtCur->second += srcCur->second;
}
else {
// tgtCur is (optimally) right before where we want to put
// the new entry, since srcCur points to the first entry
// in srcEntries whose column index is greater than that
// of the entry to which tgtCur points.
(void) tgtEntries.insert (tgtCur, *srcCur);
}
} // if srcCur != srcEnd
} // for each entry in the current row (lclRow) of *this
} // if srcBeg != srcEnd
}
/// \brief Count the number of packets (bytes, in this case) needed
/// to pack the given row of the matrix.
///
/// \param numPackets [out] Number of packets (bytes, in this case)
/// needed for the row. Must be an int for MPI's sake.
/// \param gblRow [in] Global index of the row to pack.
/// \param comm [in] Communicator for packing.
///
/// \return Error code; MPI_SUCESSS (0) if no error.
int
countPackRow (int& numPackets,
const GO gblRow,
const ::Teuchos::Comm<int>& comm,
std::ostream* errStrm = NULL) const
{
using ::Tpetra::Details::countPackTriples;
using ::Tpetra::Details::countPackTriplesCount;
using std::endl;
const char prefix[] = "Tpetra::Details::Impl::CooMatrixImpl::countPackRow: ";
#ifdef HAVE_TPETRACORE_MPI
int errCode = MPI_SUCCESS;
#else
int errCode = 0;
#endif // HAVE_TPETRACORE_MPI
// Count the number of entries in the given row.
const GO minGO = std::numeric_limits<GO>::min ();
auto beg = this->entries_.lower_bound ({gblRow, minGO});
auto end = this->entries_.upper_bound ({gblRow+1, minGO});
int numEnt = 0;
for (auto iter = beg; iter != end; ++iter) {
++numEnt;
if (numEnt == std::numeric_limits<int>::max ()) {
if (errStrm != NULL) {
*errStrm << prefix << "In (global) row " << gblRow << ", the number "
"of entries thus far, numEnt = " << numEnt << ", has reached the "
"maximum int value. We need to store this count as int for MPI's "
"sake." << endl;
}
return -1;
}
}
int numPacketsForCount = 0; // output argument of countPackTriplesCount
{
const int errCode =
countPackTriplesCount (comm, numPacketsForCount, errStrm);
if (errCode != 0) {
if (errStrm != NULL) {
*errStrm << prefix << "countPackTriplesCount "
"returned errCode = " << errCode << " != 0." << endl;
}
return errCode;
}
if (numPacketsForCount < 0) {
if (errStrm != NULL) {
*errStrm << prefix << "countPackTriplesCount returned "
"numPacketsForCount = " << numPacketsForCount << " < 0." << endl;
}
return -1;
}
}
int numPacketsForTriples = 0; // output argument of countPackTriples
{
const int errCode = countPackTriples<SC, GO> (numEnt, comm, numPacketsForTriples);
TEUCHOS_TEST_FOR_EXCEPTION
(errCode != 0, std::runtime_error, prefix << "countPackTriples "
"returned errCode = " << errCode << " != 0.");
TEUCHOS_TEST_FOR_EXCEPTION
(numPacketsForTriples < 0, std::logic_error, prefix << "countPackTriples "
"returned numPacketsForTriples = " << numPacketsForTriples << " < 0.");
}
numPackets = numPacketsForCount + numPacketsForTriples;
return errCode;
}
/// \brief Pack the given row of the matrix.
///
/// \param outBuf [out] Output pack buffer.
/// \param outBufSize [out] Total output buffer size in bytes.
/// \param outBufCurPos [in/out] Current position from which to
/// start writing to the output buffer. This corresponds to the
/// 'position' in/out argument of MPI_Pack.
/// \param comm [in] The communicator (MPI wants this).
///
/// \param gblRowInds [in/out] Temporary space for row indices.
/// \param gblColInds [in/out] Temporary space for column indices.
/// \param vals [in/out] Temporary space for matrix values.
///
/// \param gblRow [in] Global index of the row to pack.
void
packRow (packet_type outBuf[],
const int outBufSize,
int& outBufCurPos, // in/out argument
const ::Teuchos::Comm<int>& comm,
std::vector<GO>& gblRowInds,
std::vector<GO>& gblColInds,
std::vector<SC>& vals,
const GO gblRow) const
{
using ::Tpetra::Details::packTriples;
using ::Tpetra::Details::packTriplesCount;
const char prefix[] = "Tpetra::Details::Impl::CooMatrixImpl::packRow: ";
const GO minGO = std::numeric_limits<GO>::min ();
auto beg = this->entries_.lower_bound ({gblRow, minGO});
auto end = this->entries_.upper_bound ({gblRow+1, minGO});
// This doesn't actually deallocate. Only swapping with an empty
// std::vector does that.
gblRowInds.resize (0);
gblColInds.resize (0);
vals.resize (0);
int numEnt = 0;
for (auto iter = beg; iter != end; ++iter) {
gblRowInds.push_back (iter->first.row);
gblColInds.push_back (iter->first.col);
vals.push_back (iter->second);
++numEnt;
TEUCHOS_TEST_FOR_EXCEPTION
(numEnt == std::numeric_limits<int>::max (), std::runtime_error, prefix
<< "In (global) row " << gblRow << ", the number of entries thus far, "
"numEnt = " << numEnt << ", has reached the maximum int value. "
"We need to store this count as int for MPI's sake.");
}
{
const int errCode =
packTriplesCount (numEnt, outBuf, outBufSize, outBufCurPos, comm);
TEUCHOS_TEST_FOR_EXCEPTION
(errCode != 0, std::runtime_error, prefix
<< "In (global) row " << gblRow << ", packTriplesCount returned "
"errCode = " << errCode << " != 0.");
}
{
const int errCode =
packTriples (gblRowInds.data (),
gblColInds.data (),
vals.data (),
numEnt,
outBuf,
outBufSize,
outBufCurPos, // in/out argument
comm);
TEUCHOS_TEST_FOR_EXCEPTION
(errCode != 0, std::runtime_error, prefix << "In (global) row "
<< gblRow << ", packTriples returned errCode = " << errCode
<< " != 0.");
}
}
/// \brief Get the global row indices on this process, sorted and
/// made unique, and return the minimum global row index on this
/// process.
///
/// \param rowInds [out] The global row indices on this process.
///
/// \return Minimum global row index on this process.
GO
getMyGlobalRowIndices (std::vector<GO>& rowInds) const
{
rowInds.clear ();
GO lclMinRowInd = std::numeric_limits<GO>::max (); // compute local min
for (typename entries_type::const_iterator iter = this->entries_.begin ();
iter != this->entries_.end (); ++iter) {
const GO rowInd = iter->first.row;
if (rowInd < lclMinRowInd) {
lclMinRowInd = rowInd;
}
if (rowInds.empty () || rowInds.back () != rowInd) {
rowInds.push_back (rowInd); // don't insert duplicates
}
}
return lclMinRowInd;
}
template<class OffsetType>
void
buildCrs (std::vector<OffsetType>& rowOffsets,
GO gblColInds[],
SC vals[]) const
{
static_assert (std::is_integral<OffsetType>::value,
"OffsetType must be a built-in integer type.");
// clear() doesn't generally free storage; it just resets the
// length. Thus, we reuse any existing storage here.
rowOffsets.clear ();
const std::size_t numEnt = this->getLclNumEntries ();
if (numEnt == 0) {
rowOffsets.push_back (0);
}
else {
typename entries_type::const_iterator iter = this->entries_.begin ();
GO prevGblRowInd = iter->first.row;
OffsetType k = 0;
for ( ; iter != this->entries_.end (); ++iter, ++k) {
const GO gblRowInd = iter->first.row;
if (k == 0 || gblRowInd != prevGblRowInd) {
// The row offsets array always has at least one entry. The
// first entry is always zero, and the last entry is always
// the number of matrix entries.
rowOffsets.push_back (k);
prevGblRowInd = gblRowInd;
}
gblColInds[k] = iter->first.col;
static_assert (std::is_same<typename std::decay<decltype (iter->second)>::type, SC>::value,
"The type of iter->second != SC.");
vals[k] = iter->second;
}
rowOffsets.push_back (static_cast<OffsetType> (numEnt));
}
}
/// \brief Build a locally indexed version of CRS storage.
///
/// Build a locally indexed version of compressed row sparse (CRS,
/// also known as "compressed sparse row," CSR) storage.
///
/// \param rowOffsets [out] Row offsets.
/// \param lclColInds [out] The matrix's local column indices; must
/// have at least getLclNumEntries() entries.
/// \param vals [out] The matrix's values; must have at least
/// getLclNumEntries() entries.
/// \param gblToLcl [in] Closure that can convert a global
/// <i>column</i> index to a local column index.
template<class OffsetType, class LO>
void
buildLocallyIndexedCrs (std::vector<OffsetType>& rowOffsets,
LO lclColInds[],
SC vals[],
std::function<LO (const GO)> gblToLcl) const
{
static_assert (std::is_integral<OffsetType>::value,
"OffsetType must be a built-in integer type.");
static_assert (std::is_integral<LO>::value,
"LO must be a built-in integer type.");
// clear() doesn't generally free storage; it just resets the
// length. Thus, we reuse any existing storage here.
rowOffsets.clear ();
const std::size_t numEnt = this->getLclNumEntries ();
if (numEnt == 0) {
rowOffsets.push_back (0);
}
else {
typename entries_type::const_iterator iter = this->entries_.begin ();
GO prevGblRowInd = iter->first.row;
OffsetType k = 0;
for ( ; iter != this->entries_.end (); ++iter, ++k) {
const GO gblRowInd = iter->first.row;
if (k == 0 || gblRowInd != prevGblRowInd) {
// The row offsets array always has at least one entry. The
// first entry is always zero, and the last entry is always
// the number of matrix entries.
rowOffsets.push_back (k);
prevGblRowInd = gblRowInd;
}
lclColInds[k] = gblToLcl (iter->first.col);
vals[k] = iter->second;
}
rowOffsets.push_back (static_cast<OffsetType> (numEnt));
}
}
};
} // namespace Impl
/// \brief Sparse matrix used only for file input / output.
///
/// This class stores a sparse matrix in coordinate format. It is
/// meant only to help file input and output. Thus, it implements
/// DistObject, but does NOT implement RowMatrix or even Operator.
///
/// Unlike other DistObject subclasses in Tpetra, this class'
/// constructor need not necessarily take a Map. If the class does
/// NOT have a Map, it builds its Map at fillComplete(), after
/// construction, as a function of the input indices.
///
/// Users are only allowed to insert matrix entries if the class does
/// NOT have a Map. Insertion is local to each process. Users insert
/// entries by calling sumIntoGlobalValue(). Each entry is a "triple"
/// consisting of a global row index, a global column index, and a
/// matrix value. Users call fillComplete() when they are done
/// inserting entries. At that point, the object builds its Map.
/// (Unlike CrsMatrix, this class does NOT allow multiple resumeFill()
/// / fillComplete() cycles.)
///
/// Once the class has a Map, users may apply DistObject methods like
/// doImport() and doExport() to redistribute the data. The target of
/// an Import or Export must have a Map, and users may not have
/// inserted entries into it.
///
/// Here is an example of how to use this class:
///
/// \code
/// Tpetra::Details::CooMatrix<double, int, long long> A_in;
/// for (size_t k = 0; k < numEntriesToInsert; ++k) {
/// long long gblRowInd, gblColInd;
/// double val;
/// // We don't implement this here. You have to do it.
/// readEntryFromFile (&gblRowInd, &gblColInd, &val);
///
/// A_in.sumIntoGlobalValue (gblRowInd, gblColInd, val);
/// }
///
/// // You are responsible for supplying the output matrix's
/// // communicator and Map.
/// A_in.fillComplete (comm);
/// Teuchos::RCP<const Tpetra::Map<int, long long> > outMap = ...;
///
/// Tpetra::Details::CooMatrix<double, int, long long> A_out (rowMap);
/// Tpetra::Export<int, long long> exporter (A_in.getMap (), outMap);
///
/// A_out.doExport (A_in, exporter, Tpetra::ADD);
/// \endcode
template<class SC,
class LO = ::Tpetra::DistObject<char>::local_ordinal_type,
class GO = ::Tpetra::DistObject<char>::global_ordinal_type,
class NT = ::Tpetra::DistObject<char>::node_type>
class CooMatrix : public ::Tpetra::DistObject<char, LO, GO, NT> {
public:
//! This class transfers data as bytes (MPI_BYTE).
typedef char packet_type;
//! Type of each entry (value) in the sparse matrix.
typedef SC scalar_type;
typedef LO local_ordinal_type;
typedef GO global_ordinal_type;
typedef NT node_type;
typedef typename NT::device_type device_type;
//! Type of the Map specialization to give to the constructor.
typedef ::Tpetra::Map<local_ordinal_type, global_ordinal_type, node_type> map_type;
private:
//! Type of the base class of CooMatrix.
typedef ::Tpetra::DistObject<packet_type, local_ordinal_type,
global_ordinal_type, node_type> base_type;
//! Implementation (internal data structure).
Impl::CooMatrixImpl<SC, GO> impl_;
public:
/// \brief Default constructor.
///
/// This creates the object with a null Map. Users may insert
/// entries into this object, until they call fillComplete. This
/// object may NOT be the target of an Import or Export operation.
CooMatrix () :
base_type (::Teuchos::null),
localError_ (new bool (false)),
errs_ (new std::shared_ptr<std::ostringstream> ()) // ptr to a null ptr
{}
/// \brief Constructor that takes a Map.
///
/// \param map [in] Input Map.
///
/// If \c map is nonnull, then users may use this object ONLY as the
/// target of an Import or Export operation. They may NOT insert
/// entries into it.
CooMatrix (const ::Teuchos::RCP<const map_type>& map) :
base_type (map),
localError_ (new bool (false)),
errs_ (new std::shared_ptr<std::ostringstream> ()) // ptr to a null ptr
{}
//! Destructor (virtual for memory safety of derived classes).
virtual ~CooMatrix () {}
/// \brief Insert one entry locally into the sparse matrix, if it
/// does not exist there yet. If it does exist, sum the values.
///
/// \param gblRowInd [in] Global row index of the entry to insert.
/// \param gblColInd [in] Global column index of the entry to insert.
/// \param val [in] Value of the matrix entry to insert / sum.
void
sumIntoGlobalValue (const GO gblRowInd,
const GO gblColInd,
const SC& val)
{
this->impl_.sumIntoGlobalValue (gblRowInd, gblColInd, val);
}
/// \brief Insert multiple entries locally into the sparse matrix.
///
/// This works like multiple calls to sumIntoGlobalValue.
///
/// \param gblRowInd [in] Global row indices of the entries to insert.
/// \param gblColInd [in] Global column indices of the entries to insert.
/// \param val [in] Values of the matrix entries to insert / sum.
/// \param numEnt [in] Number of entries to insert.
void
sumIntoGlobalValues (const GO gblRowInds[],
const GO gblColInds[],
const SC vals[],
const std::size_t numEnt)
{
this->impl_.sumIntoGlobalValues (gblRowInds, gblColInds, vals, numEnt);
}
/// \brief Initializer-list overload of the above method (which see).
void
sumIntoGlobalValues (std::initializer_list<GO> gblRowInds,
std::initializer_list<GO> gblColInds,
std::initializer_list<SC> vals,
const std::size_t numEnt)
{
this->impl_.sumIntoGlobalValues (gblRowInds.begin (), gblColInds.begin (),
vals.begin (), numEnt);
}
//! Number of entries in the sparse matrix on the calling process.
std::size_t
getLclNumEntries () const
{
return this->impl_.getLclNumEntries ();
}
template<class OffsetType>
void
buildCrs (::Kokkos::View<OffsetType*, device_type>& rowOffsets,
::Kokkos::View<GO*, device_type>& gblColInds,
::Kokkos::View<typename ::Kokkos::Details::ArithTraits<SC>::val_type*, device_type>& vals)
{
static_assert (std::is_integral<OffsetType>::value,
"OffsetType must be a built-in integer type.");
using ::Kokkos::create_mirror_view;
using ::Kokkos::deep_copy;
using ::Kokkos::View;
typedef typename ::Kokkos::Details::ArithTraits<SC>::val_type ISC;
const std::size_t numEnt = this->getLclNumEntries ();
gblColInds = View<GO*, device_type> ("gblColInds", numEnt);
vals = View<ISC*, device_type> ("vals", numEnt);
auto gblColInds_h = create_mirror_view (gblColInds);
auto vals_h = create_mirror_view (vals);
std::vector<std::size_t> rowOffsetsSV;
this->impl_.buildCrs (rowOffsetsSV,
gblColInds_h.ptr_on_device (),
vals_h.ptr_on_device ());
rowOffsets =
View<OffsetType*, device_type> ("rowOffsets", rowOffsetsSV.size ());
typename View<OffsetType*, device_type>::HostMirror
rowOffsets_h (rowOffsetsSV.data (), rowOffsetsSV.size ());
deep_copy (rowOffsets, rowOffsets_h);
deep_copy (gblColInds, gblColInds_h);
deep_copy (vals, vals_h);
}
/// \brief Tell the matrix that you are done inserting entries
/// locally, and that the matrix should build its Map now.
///
/// This is the preferred version of fillComplete().
///
/// \pre The matrix does not yet have a Map.
/// \pre fillComplete() has never been called before on this object.
/// \post The matrix has a Map.
///
/// \param comm [in] Input communicator to use for the Map.
void
fillComplete (const ::Teuchos::RCP<const ::Teuchos::Comm<int> >& comm)
{
if (comm.is_null ()) {
this->map_ = ::Teuchos::null;
}
else {
this->map_ = this->buildMap (comm);
}
}
/// \brief Special version of fillComplete that assumes that the
/// matrix already has a Map, and reuses its communicator to
/// create a new Map.
///
/// DO NOT call this method unless you know what you are doing.
///
/// \pre The matrix DOES have a (nonnull) Map with a nonnull
/// communicator.
void
fillComplete ()
{
TEUCHOS_TEST_FOR_EXCEPTION
(this->getMap ().is_null (), std::runtime_error, "Tpetra::Details::"
"CooMatrix::fillComplete: This object does not yet have a Map. "
"You must call the version of fillComplete "
"that takes an input communicator.");
this->fillComplete (this->getMap ()->getComm ());
}
/// \brief Whether this object had an error on the calling process.
///
/// Import and Export operations using this object as the target of
/// the Import or Export may incur local errors, for example due to
/// invalid rows or incorrectly sized data. On local error
/// detection, we don't want to throw an exception right away,
/// because not all processes may throw an exception; this
/// inconsistency across processes can result in deadlock or put
/// Tpetra in an incorrect state. Instead, we set a local error
/// flag on the affected process, and ignore the incorrect data. If
/// you want to check whether any process experienced an error, you
/// must do a reduction or all-reduce over this flag. Every time
/// you initiate a new Import or Export with this object as the
/// target, we clear this flag.
bool localError () const {
return *localError_;
}
/// \brief The current stream of error messages.
///
/// This is only nonempty on the calling process if localError()
/// returns true. In that case, it stores a stream of
/// human-readable, endline-separated error messages encountered
/// during an Import or Export cycle. Every time you initiate a new
/// Import or Export with this object as the target, we clear this
/// stream.
///
/// If you want to print this, you are responsible for ensuring that
/// it is valid for the calling MPI process to print to whatever
/// output stream you use. On some MPI implementations, you may
/// need to send the string to Process 0 in MPI_COMM_WORLD for
/// printing.
///
/// Note to developers: we clear the stream at the beginning of
/// checkSizes().
std::string errorMessages () const {
return ((*errs_).get () == NULL) ? std::string ("") : (*errs_)->str ();
}
private:
/// \brief Whether this object on the calling process is in an error
/// state.
///
/// See the documentation of localError() for details.
///
/// This pointer is always nonnull. Using a pointer rather than a
/// \c bool value here ensures that all views of this object have
/// access to the error state, because all views have the same
/// (nonnull at construction) pointer.
///
/// Note to developers: we clear this flag at the beginning of
/// checkSizes().
std::shared_ptr<bool> localError_;
/// \brief Stream of error messages.
///
/// The outer pointer is always nonnull, but the inner pointer is
/// only nonnull if localError_ is true. Using a pointer to a
/// pointer ensures that all views of this object have access to the
/// error stream, because all views have the same (nonnull at
/// construction) outer pointer.
std::shared_ptr<std::shared_ptr<std::ostringstream> > errs_;
//! Mark that a local error occurred, and get a stream for reporting it.
std::ostream&
markLocalErrorAndGetStream ()
{
* (this->localError_) = true;
if ((*errs_).get () == NULL) {
*errs_ = std::shared_ptr<std::ostringstream> (new std::ostringstream ());
}
return **errs_;
}
public:
/// \brief One-line descriptiion of this object; overrides
/// Teuchos::Describable method.
virtual std::string description () const {
using Teuchos::TypeNameTraits;
std::ostringstream os;
os << "\"Tpetra::Details::CooMatrix\": {"
<< "SC: " << TypeNameTraits<SC>::name ()
<< ", LO: " << TypeNameTraits<LO>::name ()
<< ", GO: " << TypeNameTraits<GO>::name ()
<< ", NT: " << TypeNameTraits<NT>::name ();
if (this->getObjectLabel () != "") {
os << ", Label: \"" << this->getObjectLabel () << "\"";
}
os << ", Has Map: " << (this->map_.is_null () ? "false" : "true")
<< "}";
return os.str ();
}
/// \brief Print a descriptiion of this object to the given output
/// stream; overrides Teuchos::Describable method.
virtual void
describe (Teuchos::FancyOStream& out,
const Teuchos::EVerbosityLevel verbLevel =
Teuchos::Describable::verbLevel_default) const
{
using ::Tpetra::Details::gathervPrint;
using ::Teuchos::EVerbosityLevel;
using ::Teuchos::OSTab;
using ::Teuchos::TypeNameTraits;
using ::Teuchos::VERB_DEFAULT;
using ::Teuchos::VERB_LOW;
using ::Teuchos::VERB_MEDIUM;
using std::endl;
const auto vl = (verbLevel == VERB_DEFAULT) ? VERB_LOW : verbLevel;
auto comm = this->getMap ().is_null () ?
Teuchos::null : this->getMap ()->getComm ();
const int myRank = comm.is_null () ? 0 : comm->getRank ();
// const int numProcs = comm.is_null () ? 1 : comm->getSize ();
if (vl != Teuchos::VERB_NONE) {
// Convention is to start describe() implementations with a tab.
OSTab tab0 (out);
if (myRank == 0) {
out << "\"Tpetra::Details::CooMatrix\":" << endl;
}
OSTab tab1 (out);
if (myRank == 0) {
out << "Template parameters:" << endl;
{
OSTab tab2 (out);
out << "SC: " << TypeNameTraits<SC>::name () << endl
<< "LO: " << TypeNameTraits<LO>::name () << endl
<< "GO: " << TypeNameTraits<GO>::name () << endl
<< "NT: " << TypeNameTraits<NT>::name () << endl;
}
if (this->getObjectLabel () != "") {
out << "Label: \"" << this->getObjectLabel () << "\"" << endl;
}
out << "Has Map: " << (this->map_.is_null () ? "false" : "true") << endl;
} // if myRank == 0
// Describe the Map, if it exists.
if (! this->map_.is_null ()) {
if (myRank == 0) {
out << "Map:" << endl;
}
OSTab tab2 (out);
this->map_->describe (out, vl);
}
// At verbosity > VERB_LOW, each process prints something.
if (vl > VERB_LOW) {
std::ostringstream os;
os << "Process " << myRank << ":" << endl;
//OSTab tab3 (os);
const std::size_t numEnt = this->impl_.getLclNumEntries ();
os << " Local number of entries: " << numEnt << endl;
if (vl > VERB_MEDIUM) {
os << " Local entries:" << endl;
//OSTab tab4 (os);
this->impl_.forAllEntries ([&os] (const GO row, const GO col, const SC& val) {
os << " {"
<< "row: " << row
<< ", col: " << col
<< ", val: " << val
<< "}" << endl;
});
}
gathervPrint (out, os.str (), *comm);
}
} // vl != Teuchos::VERB_NONE
}
private:
/// \brief Build the Map from the local sparse matrix entries.
///
/// This method has collective semantics over the input communicator.
///
/// \param comm [in] Communicator to use for the Map.
///
/// \return The Map, whose global indices on the calling process are
/// exactly those in \c entries.
Teuchos::RCP<const map_type>
buildMap (const ::Teuchos::RCP<const ::Teuchos::Comm<int> >& comm)
{
using ::Teuchos::outArg;
using ::Teuchos::rcp;
using ::Teuchos::REDUCE_MIN;
using ::Teuchos::reduceAll;
typedef ::Tpetra::global_size_t GST;
//const char prefix[] = "Tpetra::Details::CooMatrix::buildMap: ";
// Processes where comm is null don't participate in the Map.
if (comm.is_null ()) {
return ::Teuchos::null;
}
// mfh 17 Jan 2017: We just happen to use row indices, because
// that's what Tpetra::CrsMatrix currently uses. That's probably
// not the best thing to use, but it's not bad for commonly
// encountered matrices. A better more general approach might be
// to hash (row index, column index) pairs to a global index. One
// could make that unique by doing a parallel scan at map
// construction time.
std::vector<GO> rowInds;
const GO lclMinGblRowInd = this->impl_.getMyGlobalRowIndices (rowInds);
// Compute the globally min row index for the "index base."
GO gblMinGblRowInd = 0; // output argument
reduceAll<int, GO> (*comm, REDUCE_MIN, lclMinGblRowInd,
outArg (gblMinGblRowInd));
const GO indexBase = gblMinGblRowInd;
const GST INV = Tpetra::Details::OrdinalTraits<GST>::invalid ();
return rcp (new map_type (INV, rowInds.data (), rowInds.size (),
indexBase, comm));
}
protected:
/// \brief By returning 0, tell DistObject that this class may not
/// necessarily have a constant number of "packets" per local
/// index.
virtual size_t constantNumberOfPackets () const {
return static_cast<size_t> (0);
}
/// \brief Compare the source and target (\e this) objects for compatibility.
///
/// \return True if they are compatible, else false.
virtual bool
checkSizes (const ::Tpetra::SrcDistObject& source)
{
using std::endl;
typedef CooMatrix<SC, LO, GO, NT> this_type;
const char prefix[] = "Tpetra::Details::CooMatrix::checkSizes: ";
const this_type* src = dynamic_cast<const this_type* > (&source);
if (src == NULL) {
std::ostream& err = markLocalErrorAndGetStream ();
err << prefix << "The source object of the Import or Export "
"must be a CooMatrix with the same template parameters as the "
"target object." << endl;
}
else if (this->map_.is_null ()) {
std::ostream& err = markLocalErrorAndGetStream ();
err << prefix << "The target object of the Import or Export "
"must be a CooMatrix with a nonnull Map." << endl;
}
return ! (* (this->localError_));
}
/// \brief Whether the subclass implements the "old" or "new"
/// (Kokkos-friendly) interface (it implements the "new"
/// interface).
virtual bool useNewInterface () { return true; }
/// \brief While we do use the "new" Kokkos::DualView - based
/// interface, we don't currently use device Views.
virtual void
copyAndPermuteNew (const ::Tpetra::SrcDistObject& sourceObject,
const size_t numSameIDs,
const ::Kokkos::DualView<const LO*, device_type>& permuteToLIDs,
const ::Kokkos::DualView<const LO*, device_type>& permuteFromLIDs)
{
using std::endl;
typedef CooMatrix<SC, LO, GO, NT> this_type;
const char prefix[] = "Tpetra::Details::CooMatrix::copyAndPermuteNew: ";
// There's no communication in this method, so it's safe just to
// return on error.
if (* (this->localError_)) {
std::ostream& err = this->markLocalErrorAndGetStream ();
err << prefix << "The target object of the Import or Export is "
"already in an error state." << endl;
return;
}
const this_type* src = dynamic_cast<const this_type*> (&sourceObject);
if (src == NULL) {
std::ostream& err = this->markLocalErrorAndGetStream ();
err << prefix << "Input argument 'sourceObject' is not a CooMatrix."
<< endl;
return;
}
const size_t numPermuteIDs =
static_cast<size_t> (permuteToLIDs.dimension_0 ());
if (numPermuteIDs != static_cast<size_t> (permuteFromLIDs.dimension_0 ())) {
std::ostream& err = this->markLocalErrorAndGetStream ();
err << prefix << "permuteToLIDs.dimension_0() = "
<< numPermuteIDs << " != permuteFromLIDs.dimension_0() = "
<< permuteFromLIDs.dimension_0 () << "." << endl;
return;
}
if (sizeof (int) <= sizeof (size_t) &&
numPermuteIDs > static_cast<size_t> (std::numeric_limits<int>::max ())) {
std::ostream& err = this->markLocalErrorAndGetStream ();
err << prefix << "numPermuteIDs = " << numPermuteIDs
<< ", a size_t, overflows int." << endl;
return;
}
// TODO (mfh 19 Jan 2017) Check that permuteToLIDs and
// permuteFromLIDs are sync'd to host.
// Even though this is an std::set, we can start with numSameIDs
// just by iterating through the first entries of the set.
if (sizeof (int) <= sizeof (size_t) &&
numSameIDs > static_cast<size_t> (std::numeric_limits<int>::max ())) {
std::ostream& err = this->markLocalErrorAndGetStream ();
err << prefix << "numSameIDs = " << numSameIDs
<< ", a size_t, overflows int." << endl;
return;
}
//
// Copy in entries from any initial rows with the same global row indices.
//
const LO numSame = static_cast<int> (numSameIDs);
// Count of local row indices encountered here with invalid global
// row indices. If nonzero, something went wrong. If something
// did go wrong, we'll defer responding until the end of this
// method, so we can print as much useful info as possible.
LO numInvalidSameRows = 0;
for (LO lclRow = 0; lclRow < numSame; ++lclRow) {
// All numSame initial rows have the same global index in both
// source and target Maps, so we only need to convert to global
// once.
const GO gblRow = this->map_->getGlobalElement (lclRow);
if (gblRow == ::Tpetra::Details::OrdinalTraits<GO>::invalid ()) {
++numInvalidSameRows;
continue;
}
else {
this->impl_.mergeIntoRow (gblRow, src->impl_, gblRow);
}
}
//
// Copy in entries from remaining rows that are permutations, that
// is, that live in both the source and target Maps, but aren't
// included in the "same" list (see above).
//
const LO numPermute = static_cast<int> (numPermuteIDs);
// Count of local "from" row indices encountered here with invalid
// global row indices. If nonzero, something went wrong. If
// something did go wrong, we'll defer responding until the end of
// this method, so we can print as much useful info as possible.
LO numInvalidRowsFrom = 0;
// Count of local "to" row indices encountered here with invalid
// global row indices. If nonzero, something went wrong. If
// something did go wrong, we'll defer responding until the end of
// this method, so we can print as much useful info as possible.
LO numInvalidRowsTo = 0;
for (LO k = 0; k < numPermute; ++k) {
const LO lclRowFrom = permuteFromLIDs.h_view(k);
const LO lclRowTo = permuteToLIDs.h_view(k);
const GO gblRowFrom = src->map_->getGlobalElement (lclRowFrom);
const GO gblRowTo = this->map_->getGlobalElement (lclRowTo);
bool bothConversionsValid = true;
if (gblRowFrom == ::Tpetra::Details::OrdinalTraits<GO>::invalid ()) {
++numInvalidRowsFrom;
bothConversionsValid = false;
}
if (gblRowTo == ::Tpetra::Details::OrdinalTraits<GO>::invalid ()) {
++numInvalidRowsTo;
bothConversionsValid = false;
}
if (bothConversionsValid) {
this->impl_.mergeIntoRow (gblRowTo, src->impl_, gblRowFrom);
}
}
// Print info if any errors occurred.
if (numInvalidSameRows != 0 || numInvalidRowsFrom != 0 || numInvalidRowsTo != 0) {
// Collect and print all the invalid input row indices, for the
// "same," "from," and "to" lists.
std::vector<std::pair<LO, GO> > invalidSameRows;
invalidSameRows.reserve (numInvalidSameRows);
std::vector<std::pair<LO, GO> > invalidRowsFrom;
invalidRowsFrom.reserve (numInvalidRowsFrom);
std::vector<std::pair<LO, GO> > invalidRowsTo;
invalidRowsTo.reserve (numInvalidRowsTo);
for (LO lclRow = 0; lclRow < numSame; ++lclRow) {
// All numSame initial rows have the same global index in both
// source and target Maps, so we only need to convert to global
// once.
const GO gblRow = this->map_->getGlobalElement (lclRow);
if (gblRow == ::Tpetra::Details::OrdinalTraits<GO>::invalid ()) {
invalidSameRows.push_back ({lclRow, gblRow});
}
}
for (LO k = 0; k < numPermute; ++k) {
const LO lclRowFrom = permuteFromLIDs.h_view(k);
const LO lclRowTo = permuteToLIDs.h_view(k);
const GO gblRowFrom = src->map_->getGlobalElement (lclRowFrom);
const GO gblRowTo = this->map_->getGlobalElement (lclRowTo);
if (gblRowFrom == ::Tpetra::Details::OrdinalTraits<GO>::invalid ()) {
invalidRowsFrom.push_back ({lclRowFrom, gblRowFrom});
}
if (gblRowTo == ::Tpetra::Details::OrdinalTraits<GO>::invalid ()) {
invalidRowsTo.push_back ({lclRowTo, gblRowTo});
}
}
std::ostringstream os;
if (numInvalidSameRows != 0) {
os << "Invalid permute \"same\" (local, global) index pairs: [";
for (std::size_t k = 0; k < invalidSameRows.size (); ++k) {
const auto& p = invalidSameRows[k];
os << "(" << p.first << "," << p.second << ")";
if (k + 1 < invalidSameRows.size ()) {
os << ", ";
}
}
os << "]" << std::endl;
}
if (numInvalidRowsFrom != 0) {
os << "Invalid permute \"from\" (local, global) index pairs: [";
for (std::size_t k = 0; k < invalidRowsFrom.size (); ++k) {
const auto& p = invalidRowsFrom[k];
os << "(" << p.first << "," << p.second << ")";
if (k + 1 < invalidRowsFrom.size ()) {
os << ", ";
}
}
os << "]" << std::endl;
}
if (numInvalidRowsTo != 0) {
os << "Invalid permute \"to\" (local, global) index pairs: [";
for (std::size_t k = 0; k < invalidRowsTo.size (); ++k) {
const auto& p = invalidRowsTo[k];
os << "(" << p.first << "," << p.second << ")";
if (k + 1 < invalidRowsTo.size ()) {
os << ", ";
}
}
os << "]" << std::endl;
}
std::ostream& err = this->markLocalErrorAndGetStream ();
err << prefix << os.str ();
return;
}
}
/// \brief While we do use the "new" Kokkos::DualView - based
/// interface, we don't currently use device Views.
virtual void
packAndPrepareNew (const ::Tpetra::SrcDistObject& sourceObject,
const ::Kokkos::DualView<const local_ordinal_type*, device_type>& exportLIDs,
::Kokkos::DualView<packet_type*, device_type>& exports,
const ::Kokkos::DualView<size_t*, device_type>& numPacketsPerLID,
size_t& constantNumPackets,
::Tpetra::Distributor& /* distor */)
{
using ::Teuchos::Comm;
using ::Teuchos::RCP;
using std::endl;
typedef CooMatrix<SC, LO, GO, NT> this_type;
typedef ::Kokkos::DualView<packet_type*, device_type> out_buf_dv_type;
const char prefix[] = "Tpetra::Details::CooMatrix::packAndPrepareNew: ";
const char suffix[] = " This should never happen. "
"Please report this bug to the Tpetra developers.";
// Tell the caller that different rows may have different numbers
// of matrix entries.
constantNumPackets = 0;
const this_type* src = dynamic_cast<const this_type*> (&sourceObject);
if (src == NULL) {
std::ostream& err = this->markLocalErrorAndGetStream ();
err << prefix << "Input argument 'sourceObject' is not a CooMatrix."
<< endl;
}
else if (* (src->localError_)) {
std::ostream& err = this->markLocalErrorAndGetStream ();
err << prefix << "The source (input) object of the Import or Export "
"is already in an error state on this process."
<< endl;
}
else if (* (this->localError_)) {
std::ostream& err = this->markLocalErrorAndGetStream ();
err << prefix << "The target (output, \"this\") object of the Import "
"or Export is already in an error state on this process." << endl;
}
// Respond to detected error(s) by resizing 'exports' to zero (so
// we won't be tempted to read it later), and filling
// numPacketsPerLID with zeros.
if (* (this->localError_)) {
// Resize 'exports' to zero, so we won't be tempted to read it.
exports = out_buf_dv_type ("CooMatrix exports", 0);
// Trick to get around const DualView& being const.
{
using ::Kokkos::DualView;
DualView<size_t*, device_type> numPacketsPerLID_tmp = numPacketsPerLID;
numPacketsPerLID_tmp.template sync<Kokkos::HostSpace> ();
numPacketsPerLID_tmp.template modify<Kokkos::HostSpace> ();
}
// Fill numPacketsPerLID with zeros.
::Kokkos::deep_copy (numPacketsPerLID.h_view, static_cast<size_t> (0));
return;
}
// TODO (mfh 28 Jan 2017) pack source object's data, NOT *this's data!
const size_t numExports = exportLIDs.dimension_0 ();
if (numExports == 0) {
exports = out_buf_dv_type (exports.h_view.label (), 0);
return; // nothing to send
}
RCP<const Comm<int> > comm = src->getMap ().is_null () ?
Teuchos::null : src->getMap ()->getComm ();
if (comm.is_null () || comm->getSize () == 1) {
if (numExports != static_cast<size_t> (0)) {
std::ostream& err = this->markLocalErrorAndGetStream ();
err << prefix << "The input communicator is either null or "
"has only one process, but numExports = " << numExports << " != 0."
<< suffix << endl;
return;
}
// Don't go into the rest of this method unless there are
// actually processes other than the calling process. This is
// because the pack and unpack functions only have nonstub
// implementations if building with MPI.
return;
}
// Trick to get around const DualView& being const.
{
using ::Kokkos::DualView;
DualView<size_t*, device_type> numPacketsPerLID_tmp = numPacketsPerLID;
numPacketsPerLID_tmp.template sync<Kokkos::HostSpace> ();
numPacketsPerLID_tmp.template modify<Kokkos::HostSpace> ();
}
int totalNumPackets = 0;
size_t numInvalidRowInds = 0;
std::ostringstream errStrm; // current loop iteration's error messages
for (size_t k = 0; k < numExports; ++k) {
const LO lclRow = exportLIDs.h_view[k];
// We're packing the source object's data, so we need to use the
// source object's Map to convert from local to global indices.
const GO gblRow = src->map_->getGlobalElement (lclRow);
if (gblRow == ::Tpetra::Details::OrdinalTraits<GO>::invalid ()) {
// Mark the error later; just count for now.
++numInvalidRowInds;
numPacketsPerLID.h_view[k] = 0;
continue;
}
// Count the number of bytes needed to pack the current row of
// the source object.
int numPackets = 0;
const int errCode =
src->impl_.countPackRow (numPackets, gblRow, *comm, &errStrm);
if (errCode != 0) {
std::ostream& err = this->markLocalErrorAndGetStream ();
err << prefix << errStrm.str () << endl;
numPacketsPerLID.h_view[k] = 0;
continue;
}
// Make sure that the total number of packets fits in int.
// MPI requires this.
const long long newTotalNumPackets =
static_cast<long long> (totalNumPackets) +
static_cast<long long> (numPackets);
if (newTotalNumPackets >
static_cast<long long> (std::numeric_limits<int>::max ())) {
std::ostream& err = this->markLocalErrorAndGetStream ();
err << prefix << "The new total number of packets "
<< newTotalNumPackets << " does not fit in int." << endl;
// At this point, we definitely cannot continue. In order to
// leave the output arguments in a rational state, we zero out
// all remaining entries of numPacketsPerLID before returning.
for (size_t k2 = k; k2 < numExports; ++k2) {
numPacketsPerLID.h_view[k2] = 0;
}
return;
}
numPacketsPerLID.h_view[k] = static_cast<size_t> (numPackets);
totalNumPackets = static_cast<int> (newTotalNumPackets);
}
// If we found invalid row indices in exportLIDs, go back,
// collect, and report them.
if (numInvalidRowInds != 0) {
std::vector<std::pair<LO, GO> > invalidRowInds;
for (size_t k = 0; k < numExports; ++k) {
const LO lclRow = exportLIDs.h_view[k];
// We're packing the source object's data, so we need to use
// the source object's Map to convert from local to global
// indices.
const GO gblRow = src->map_->getGlobalElement (lclRow);
if (gblRow == ::Tpetra::Details::OrdinalTraits<GO>::invalid ()) {
invalidRowInds.push_back ({lclRow, gblRow});
}
}
std::ostringstream os;
os << prefix << "We found " << numInvalidRowInds << " invalid row ind"
<< (numInvalidRowInds != static_cast<size_t> (1) ? "ices" : "ex")
<< " out of " << numExports << " in exportLIDs. Here is the list "
<< " of invalid row indices: [";
for (size_t k = 0; k < invalidRowInds.size (); ++k) {
os << "(LID: " << invalidRowInds[k].first << ", GID: "
<< invalidRowInds[k].second << ")";
if (k + 1 < invalidRowInds.size ()) {
os << ", ";
}
}
os << "].";
std::ostream& err = this->markLocalErrorAndGetStream ();
err << prefix << os.str () << std::endl;
return;
}
if (static_cast<int> (exports.dimension_0 ()) != totalNumPackets) {
exports = out_buf_dv_type ("CooMatrix exports", totalNumPackets);
exports.template sync<Kokkos::HostSpace> (); // make sure alloc'd on host
}
exports.template modify<Kokkos::HostSpace> ();
// FIXME (mfh 17 Jan 2017) packTriples wants three arrays, not a
// single array of structs. For now, we just copy.
std::vector<GO> gblRowInds;
std::vector<GO> gblColInds;
std::vector<SC> vals;
int outBufCurPos = 0;
packet_type* outBuf = exports.h_view.ptr_on_device ();
for (size_t k = 0; k < numExports; ++k) {
const LO lclRow = exportLIDs.h_view[k];
// We're packing the source object's data, so we need to use the
// source object's Map to convert from local to global indices.
const GO gblRow = src->map_->getGlobalElement (lclRow);
// Pack the current row of the source object.
src->impl_.packRow (outBuf, totalNumPackets, outBufCurPos, *comm,
gblRowInds, gblColInds, vals, gblRow);
}
// Keep 'exports' modified on host.
//exports.template sync<typename device_type::memory_space> ();
}
/// \brief While we do use the "new" Kokkos::DualView - based
/// interface, we don't currently use device Views.
virtual void
unpackAndCombineNew (const ::Kokkos::DualView<const local_ordinal_type*, device_type>& importLIDs,
const ::Kokkos::DualView<const packet_type*, device_type>& imports,
const ::Kokkos::DualView<const size_t*, device_type>& numPacketsPerLID,
const size_t /* constantNumPackets */, // we don't actually use this; we assume this is 0
::Tpetra::Distributor& /* distor */,
const ::Tpetra::CombineMode /* CM */)
{
using ::Kokkos::DualView;
using ::Teuchos::Comm;
using ::Teuchos::RCP;
using std::endl;
//typedef ::Kokkos::DualView<const packet_type*, device_type> in_buf_dv_type;
typedef typename device_type::memory_space DMS;
typedef ::Kokkos::HostSpace HMS;
const char prefix[] = "Tpetra::Details::CooMatrix::unpackAndCombineNew: ";
const char suffix[] = " This should never happen. "
"Please report this bug to the Tpetra developers.";
const std::size_t numImports = importLIDs.dimension_0 ();
if (numImports == 0) {
return; // nothing to receive
}
else if (imports.dimension_0 () == 0) {
std::ostream& err = this->markLocalErrorAndGetStream ();
typename DualView<const LO*, device_type>::t_host importLIDs_h;
{
if (importLIDs.template need_sync<HMS> ()) {
// Device version of the DualView is the most recently updated.
// It's forbidden to sync a DualView<const T>, so we must copy.
auto importLIDs_d = importLIDs.template view<DMS> ();
typedef typename decltype (importLIDs_h)::non_const_type HVNC;
HVNC importLIDs_h_nc (importLIDs_d.label (), importLIDs.dimension_0 ());
Kokkos::deep_copy (importLIDs_h_nc, importLIDs_d);
importLIDs_h = importLIDs_h_nc;
}
else { // host version of the DualView is up-to-date
importLIDs_h = importLIDs.h_view; // importLIDs.template view<HMS> ();
}
}
err << prefix << "importLIDs.dimension_0() = " << numImports << " != 0, "
<< "but imports.dimension_0() = 0. This doesn't make sense, because "
<< "for every incoming LID, CooMatrix packs at least the count of "
<< "triples associated with that LID, even if the count is zero. "
<< "importLIDs = [";
for (std::size_t k = 0; k < numImports; ++k) {
err << importLIDs.h_view[k];
if (k + 1 < numImports) {
err << ", ";
}
}
err << "]. " << suffix << endl;
return;
}
RCP<const Comm<int> > comm = this->getMap ().is_null () ?
Teuchos::null : this->getMap ()->getComm ();
if (comm.is_null () || comm->getSize () == 1) {
if (numImports != static_cast<size_t> (0)) {
std::ostream& err = this->markLocalErrorAndGetStream ();
err << prefix << "The input communicator is either null or "
"has only one process, but numImports = " << numImports << " != 0."
<< suffix << endl;
return;
}
// Don't go into the rest of this method unless there are
// actually processes other than the calling process. This is
// because the pack and unpack functions only have nonstub
// implementations if building with MPI.
return;
}
// Make sure that the length of 'imports' fits in int.
// This is ultimately an MPI restriction.
if (static_cast<size_t> (imports.dimension_0 ()) >
static_cast<size_t> (std::numeric_limits<int>::max ())) {
std::ostream& err = this->markLocalErrorAndGetStream ();
err << prefix << "imports.dimension_0() = "
<< imports.dimension_0 () << " does not fit in int." << endl;
return;
}
const int inBufSize = static_cast<int> (imports.dimension_0 ());
// It's forbidden to sync a DualView<const T>, so if the input
// DualView are not in sync on host, we must make copies.
typename std::decay<decltype (importLIDs)>::type::t_host importLIDs_h;
typename std::decay<decltype (imports)>::type::t_host imports_h;
typename std::decay<decltype (numPacketsPerLID)>::type::t_host numPacketsPerLID_h;
{
if (importLIDs.template need_sync<HMS> ()) {
// Device version of the DualView is the most recently updated.
auto importLIDs_d = importLIDs.template view<DMS> ();
typedef typename decltype (importLIDs_h)::non_const_type HVNC;
HVNC importLIDs_h_nc (importLIDs_d.label (),
importLIDs.dimension_0 ());
Kokkos::deep_copy (importLIDs_h_nc, importLIDs_d);
importLIDs_h = importLIDs_h_nc;
}
else { // host version of the DualView is up-to-date
importLIDs_h = importLIDs.h_view; // importLIDs.template view<HMS> ();
}
if (imports.template need_sync<HMS> ()) {
// Device version of the DualView is the most recently updated.
auto imports_d = imports.template view<DMS> ();
typedef typename decltype (imports_h)::non_const_type HVNC;
HVNC imports_h_nc (imports_d.label (),
imports.dimension_0 ());
Kokkos::deep_copy (imports_h_nc, imports_d);
imports_h = imports_h_nc;
}
else { // host version of the DualView is up-to-date
imports_h = imports.h_view; // imports.template view<HMS> ();
}
if (numPacketsPerLID.template need_sync<HMS> ()) {
// Device version of the DualView is the most recently updated.
auto numPacketsPerLID_d = numPacketsPerLID.template view<DMS> ();
typedef typename decltype (numPacketsPerLID_h)::non_const_type HVNC;
HVNC numPacketsPerLID_h_nc (numPacketsPerLID_d.label (),
numPacketsPerLID.dimension_0 ());
Kokkos::deep_copy (numPacketsPerLID_h_nc, numPacketsPerLID_d);
numPacketsPerLID_h = numPacketsPerLID_h_nc;
}
else { // host version of the DualView is up-to-date
numPacketsPerLID_h = numPacketsPerLID.h_view; // numPacketsPerLID.template view<HMS> ();
}
}
// FIXME (mfh 17,24 Jan 2017) packTriples wants three arrays, not a
// single array of structs. For now, we just copy.
std::vector<GO> gblRowInds;
std::vector<GO> gblColInds;
std::vector<SC> vals;
const packet_type* inBuf = imports_h.ptr_on_device ();
int inBufCurPos = 0;
size_t numInvalidRowInds = 0;
int errCode = 0;
std::ostringstream errStrm; // for unpack* error output.
for (size_t k = 0; k < numImports; ++k) {
const LO lclRow = importLIDs_h(k);
const GO gblRow = this->map_->getGlobalElement (lclRow);
if (gblRow == ::Tpetra::Details::OrdinalTraits<GO>::invalid ()) {
++numInvalidRowInds;
continue;
}
// Remember where we were, so we don't overrun the buffer
// length. inBufCurPos is an in/out argument of unpackTriples*.
const int origInBufCurPos = inBufCurPos;
int numEnt = 0; // output argument of unpackTriplesCount
errCode = unpackTriplesCount (inBuf, inBufSize, inBufCurPos,
numEnt, *comm, &errStrm);
if (errCode != 0 || numEnt < 0 || inBufCurPos < origInBufCurPos) {
std::ostream& err = this->markLocalErrorAndGetStream ();
err << prefix << "In unpack loop, k=" << k << ": ";
if (errCode != 0) {
err << " unpackTriplesCount returned errCode = " << errCode
<< " != 0." << endl;
}
if (numEnt < 0) {
err << " unpackTriplesCount returned errCode = 0, but numEnt = "
<< numEnt << " < 0." << endl;
}
if (inBufCurPos < origInBufCurPos) {
err << " After unpackTriplesCount, inBufCurPos = " << inBufCurPos
<< " < origInBufCurPos = " << origInBufCurPos << "." << endl;
}
err << " unpackTriplesCount report: " << errStrm.str () << endl;
err << suffix << endl;
// We only continue in a debug build, because the above error
// messages could consume too much memory and cause an
// out-of-memory error, without actually printing. Printing
// everything is useful in a debug build, but not so much in a
// release build.
#ifdef HAVE_TPETRA_DEBUG
// Clear out the current error stream, so we don't accumulate
// over loop iterations.
errStrm.str ("");
continue;
#else
return;
#endif // HAVE_TPETRA_DEBUG
}
// FIXME (mfh 17,24 Jan 2017) packTriples wants three arrays,
// not a single array of structs. For now, we just copy.
gblRowInds.resize (numEnt);
gblColInds.resize (numEnt);
vals.resize (numEnt);
errCode = unpackTriples (inBuf, inBufSize, inBufCurPos,
gblRowInds.data (), gblColInds.data (),
vals.data (), numEnt, *comm, &errStrm);
if (errCode != 0) {
std::ostream& err = this->markLocalErrorAndGetStream ();
err << prefix << "unpackTriples returned errCode = "
<< errCode << " != 0. It reports: " << errStrm.str ()
<< endl;
// We only continue in a debug build, because the above error
// messages could consume too much memory and cause an
// out-of-memory error, without actually printing. Printing
// everything is useful in a debug build, but not so much in a
// release build.
#ifdef HAVE_TPETRA_DEBUG
// Clear out the current error stream, so we don't accumulate
// over loop iterations.
errStrm.str ("");
continue;
#else
return;
#endif // HAVE_TPETRA_DEBUG
}
this->sumIntoGlobalValues (gblRowInds.data (), gblColInds.data (),
vals.data (), numEnt);
}
// If we found invalid row indices in exportLIDs, go back,
// collect, and report them.
if (numInvalidRowInds != 0) {
// Mark the error now, before we possibly run out of memory.
// The latter could raise an exception (e.g., std::bad_alloc),
// but at least we would get the error state right.
std::ostream& err = this->markLocalErrorAndGetStream ();
std::vector<std::pair<LO, GO> > invalidRowInds;
for (size_t k = 0; k < numImports; ++k) {
const LO lclRow = importLIDs_h(k);
const GO gblRow = this->map_->getGlobalElement (lclRow);
if (gblRow == ::Tpetra::Details::OrdinalTraits<GO>::invalid ()) {
invalidRowInds.push_back ({lclRow, gblRow});
}
}
err << prefix << "We found " << numInvalidRowInds << " invalid row ind"
<< (numInvalidRowInds != static_cast<size_t> (1) ? "ices" : "ex")
<< " out of " << numImports << " in importLIDs. Here is the list "
<< " of invalid row indices: [";
for (size_t k = 0; k < invalidRowInds.size (); ++k) {
err << "(LID: " << invalidRowInds[k].first << ", GID: "
<< invalidRowInds[k].second << ")";
if (k + 1 < invalidRowInds.size ()) {
err << ", ";
}
}
err << "].";
return;
}
}
};
} // namespace Details
} // namespace Tpetra
#endif // TPETRA_DETAILS_COOMATRIX_HPP
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