/usr/include/deal.II/lac/trilinos_vector_base.h is in libdeal.ii-dev 8.1.0-4.
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// $Id: trilinos_vector_base.h 31932 2013-12-08 02:15:54Z heister $
//
// Copyright (C) 2008 - 2013 by the deal.II authors
//
// This file is part of the deal.II library.
//
// The deal.II library is free software; you can use it, redistribute
// it, and/or modify it under the terms of the GNU Lesser General
// Public License as published by the Free Software Foundation; either
// version 2.1 of the License, or (at your option) any later version.
// The full text of the license can be found in the file LICENSE at
// the top level of the deal.II distribution.
//
// ---------------------------------------------------------------------
#ifndef __deal2__trilinos_vector_base_h
#define __deal2__trilinos_vector_base_h
#include <deal.II/base/config.h>
#ifdef DEAL_II_WITH_TRILINOS
#include <deal.II/base/utilities.h>
# include <deal.II/base/std_cxx1x/shared_ptr.h>
# include <deal.II/base/subscriptor.h>
# include <deal.II/lac/exceptions.h>
# include <deal.II/lac/vector.h>
# include <vector>
# include <utility>
# include <memory>
# define TrilinosScalar double
# include "Epetra_ConfigDefs.h"
# ifdef DEAL_II_WITH_MPI // only if MPI is installed
# include "mpi.h"
# include "Epetra_MpiComm.h"
# else
# include "Epetra_SerialComm.h"
# endif
# include "Epetra_FEVector.h"
DEAL_II_NAMESPACE_OPEN
// forward declaration
template <typename number> class Vector;
/**
* @addtogroup TrilinosWrappers
*@{
*/
namespace TrilinosWrappers
{
// forward declaration
class VectorBase;
/**
* @cond internal
*/
/**
* A namespace for internal implementation details of the
* TrilinosWrapper members.
*
* @ingroup TrilinosWrappers
*/
namespace internal
{
/**
* Declare type for container size.
*/
typedef dealii::types::global_dof_index size_type;
/**
* This class implements a
* wrapper for accessing the
* Trilinos vector in the same
* way as we access deal.II
* objects: it is initialized
* with a vector and an element
* within it, and has a
* conversion operator to
* extract the scalar value of
* this element. It also has a
* variety of assignment
* operator for writing to this
* one element. @ingroup
* TrilinosWrappers
*/
class VectorReference
{
private:
/**
* Constructor. It is made
* private so as to only allow
* the actual vector class to
* create it.
*/
VectorReference (VectorBase &vector,
const size_type index);
public:
/**
* This looks like a copy
* operator, but does something
* different than usual. In
* particular, it does not copy
* the member variables of this
* reference. Rather, it
* handles the situation where
* we have two vectors @p v and
* @p w, and assign elements
* like in
* <tt>v(i)=w(i)</tt>. Here,
* both left and right hand
* side of the assignment have
* data type VectorReference,
* but what we really mean is
* to assign the vector
* elements represented by the
* two references. This
* operator implements this
* operation. Note also that
* this allows us to make the
* assignment operator const.
*/
const VectorReference &
operator = (const VectorReference &r) const;
/**
* Same as above but for non-const
* reference objects.
*/
const VectorReference &
operator = (const VectorReference &r);
/**
* Set the referenced element of the
* vector to <tt>s</tt>.
*/
const VectorReference &
operator = (const TrilinosScalar &s) const;
/**
* Add <tt>s</tt> to the
* referenced element of the
* vector->
*/
const VectorReference &
operator += (const TrilinosScalar &s) const;
/**
* Subtract <tt>s</tt> from the
* referenced element of the
* vector->
*/
const VectorReference &
operator -= (const TrilinosScalar &s) const;
/**
* Multiply the referenced
* element of the vector by
* <tt>s</tt>.
*/
const VectorReference &
operator *= (const TrilinosScalar &s) const;
/**
* Divide the referenced
* element of the vector by
* <tt>s</tt>.
*/
const VectorReference &
operator /= (const TrilinosScalar &s) const;
/**
* Convert the reference to an
* actual value, i.e. return
* the value of the referenced
* element of the vector.
*/
operator TrilinosScalar () const;
/**
* Exception
*/
DeclException1 (ExcTrilinosError,
int,
<< "An error with error number " << arg1
<< " occurred while calling a Trilinos function");
/**
* Exception
*/
DeclException3 (ExcAccessToNonLocalElement,
size_type, size_type, size_type,
<< "You tried to access element " << arg1
<< " of a distributed vector, but it is not stored on "
<< "the current processor. Note: the elements stored "
<< "on the current processor are within the range "
<< arg2 << " through " << arg3
<< " but Trilinos vectors need not store contiguous "
<< "ranges on each processor, and not every element in "
<< "this range may in fact be stored locally.");
private:
/**
* Point to the vector we are
* referencing.
*/
VectorBase &vector;
/**
* Index of the referenced element
* of the vector.
*/
const size_type index;
/**
* Make the vector class a
* friend, so that it can
* create objects of the
* present type.
*/
friend class ::dealii::TrilinosWrappers::VectorBase;
};
}
/**
* @endcond
*/
/**
* Base class for the two types of Trilinos vectors, the distributed
* memory vector MPI::Vector and a localized vector Vector. The latter
* is designed for use in either serial implementations or as a
* localized copy on each processor. The implementation of this class
* is based on the Trilinos vector class Epetra_FEVector, the (parallel)
* partitioning of which is governed by an Epetra_Map. This means that
* the vector type is generic and can be done in this base class, while
* the definition of the partition map (and hence, the constructor and
* reinit function) will have to be done in the derived classes. The
* Epetra_FEVector is precisely the kind of vector we deal with all the
* time - we probably get it from some assembly process, where also
* entries not locally owned might need to written and hence need to be
* forwarded to the owner. The only requirement for this class to work
* is that Trilinos is installed with the same compiler as is used for
* compilation of deal.II.
*
* The interface of this class is modeled after the existing Vector
* class in deal.II. It has almost the same member functions, and is
* often exchangable. However, since Trilinos only supports a single
* scalar type (double), it is not templated, and only works with that
* type.
*
* Note that Trilinos only guarantees that operations do what you expect
* if the function @p GlobalAssemble has been called after vector
* assembly in order to distribute the data. Therefore, you need to call
* Vector::compress() before you actually use the vectors.
*
* @ingroup TrilinosWrappers
* @ingroup Vectors
* @author Martin Kronbichler, 2008
*/
class VectorBase : public Subscriptor
{
public:
/**
* Declare some of the standard
* types used in all
* containers. These types
* parallel those in the
* <tt>C</tt> standard libraries
* <tt>vector<...></tt> class.
*/
typedef TrilinosScalar value_type;
typedef TrilinosScalar real_type;
typedef dealii::types::global_dof_index size_type;
typedef value_type *iterator;
typedef const value_type *const_iterator;
typedef internal::VectorReference reference;
typedef const internal::VectorReference const_reference;
/**
* @name 1: Basic Object-handling
*/
//@{
/**
* Default constructor that
* generates an empty (zero size)
* vector. The function
* <tt>reinit()</tt> will have to
* give the vector the correct
* size and distribution among
* processes in case of an MPI
* run.
*/
VectorBase ();
/**
* Copy constructor. Sets the
* dimension to that of the given
* vector, and copies all the
* elements.
*/
VectorBase (const VectorBase &v);
/**
* Destructor
*/
virtual ~VectorBase ();
/**
* Release all memory and return
* to a state just like after
* having called the default
* constructor.
*/
void clear ();
/**
* Reinit functionality, sets the
* dimension and possibly the
* parallel partitioning (Epetra_Map)
* of the calling vector to the
* settings of the input vector.
*/
void reinit (const VectorBase &v,
const bool fast = false);
/**
* Compress the underlying
* representation of the Trilinos
* object, i.e. flush the buffers
* of the vector object if it has
* any. This function is
* necessary after writing into a
* vector element-by-element and
* before anything else can be
* done on it.
*
* The (defaulted) argument can
* be used to specify the
* compress mode
* (<code>Add</code> or
* <code>Insert</code>) in case
* the vector has not been
* written to since the last
* time this function was
* called. The argument is
* ignored if the vector has
* been added or written to
* since the last time
* compress() was called.
*
* See @ref GlossCompress "Compressing distributed objects"
* for more information.
*/
void compress (::dealii::VectorOperation::values operation);
/**
* @deprecated: Use the compress(VectorOperation::values) function
* above instead.
*/
void compress() DEAL_II_DEPRECATED;
/**
* @deprecated Use compress(dealii::VectorOperation::values) instead.
*/
void compress (const Epetra_CombineMode last_action) DEAL_II_DEPRECATED;
/**
* Returns the state of the
* vector, i.e., whether
* compress() has already been
* called after an operation
* requiring data exchange.
*/
bool is_compressed () const;
/**
* Set all components of the
* vector to the given number @p
* s. Simply pass this down to
* the Trilinos Epetra object,
* but we still need to declare
* this function to make the
* example given in the
* discussion about making the
* constructor explicit work.
*
* Since the semantics of
* assigning a scalar to a vector
* are not immediately clear,
* this operator should really
* only be used if you want to
* set the entire vector to
* zero. This allows the
* intuitive notation
* <tt>v=0</tt>. Assigning other
* values is deprecated and may
* be disallowed in the future.
*/
VectorBase &
operator = (const TrilinosScalar s);
/**
* Copy function. This function takes
* a VectorBase vector and copies all
* the elements. The target vector
* will have the same parallel
* distribution as the calling
* vector.
*/
VectorBase &
operator = (const VectorBase &v);
/**
* Another copy function. This
* one takes a deal.II vector and
* copies it into a
* TrilinosWrapper vector. Note
* that since we do not provide
* any Epetra_map that tells
* about the partitioning of the
* vector among the MPI
* processes, the size of the
* TrilinosWrapper vector has to
* be the same as the size of the
* input vector. In order to
* change the map, use the
* reinit(const Epetra_Map
* &input_map) function.
*/
template <typename Number>
VectorBase &
operator = (const ::dealii::Vector<Number> &v);
/**
* Test for equality. This
* function assumes that the
* present vector and the one to
* compare with have the same
* size already, since comparing
* vectors of different sizes
* makes not much sense anyway.
*/
bool operator == (const VectorBase &v) const;
/**
* Test for inequality. This
* function assumes that the
* present vector and the one to
* compare with have the same
* size already, since comparing
* vectors of different sizes
* makes not much sense anyway.
*/
bool operator != (const VectorBase &v) const;
/**
* Return the global dimension of
* the vector.
*/
size_type size () const;
/**
* Return the local dimension of
* the vector, i.e. the number of
* elements stored on the present
* MPI process. For sequential
* vectors, this number is the
* same as size(), but for
* parallel vectors it may be
* smaller.
*
* To figure out which elements
* exactly are stored locally,
* use local_range().
*
* If the vector contains ghost
* elements, they are included in
* this number.
*/
size_type local_size () const;
/**
* Return a pair of indices
* indicating which elements of
* this vector are stored
* locally. The first number is
* the index of the first element
* stored, the second the index
* of the one past the last one
* that is stored locally. If
* this is a sequential vector,
* then the result will be the
* pair <code>(0,N)</code>, otherwise it will
* be a pair <code>(i,i+n)</code>, where
* <code>n=local_size()</code> and <code>i</code> is the first
* element of the vector stored on this processor, corresponding
* to the half open interval $[i,i+n)$
*
* @note The description above is true most of the time, but
* not always. In particular, Trilinos vectors need not store
* contiguous ranges of elements such as $[i,i+n)$. Rather, it
* can store vectors where the elements are distributed in
* an arbitrary way across all processors and each processor
* simply stores a particular subset, not necessarily contiguous.
* In this case, this function clearly makes no sense since it
* could, at best, return a range that includes all elements
* that are stored locally. Thus, the function only succeeds
* if the locally stored range is indeed contiguous. It will
* trigger an assertion if the local portion of the vector
* is not contiguous.
*/
std::pair<size_type, size_type> local_range () const;
/**
* Return whether @p index is in
* the local range or not, see
* also local_range().
*
* @note The same limitation for the applicability of this
* function applies as listed in the documentation of local_range().
*/
bool in_local_range (const size_type index) const;
/**
* Return an index set that describes which elements of this vector
* are owned by the current processor. Note that this index set does
* not include elements this vector may store locally as ghost
* elements but that are in fact owned by another processor.
* As a consequence, the index sets returned on different
* processors if this is a distributed vector will form disjoint
* sets that add up to the complete index set.
* Obviously, if a vector is created on only one processor, then
* the result would satisfy
* @code
* vec.locally_owned_elements() == complete_index_set (vec.size())
* @endcode
*/
IndexSet locally_owned_elements () const;
/**
* Return if the vector contains ghost
* elements. This answer is true if there
* are ghost elements on at least one
* process.
*/
bool has_ghost_elements() const;
/**
* Return the scalar (inner)
* product of two vectors. The
* vectors must have the same
* size.
*/
TrilinosScalar operator * (const VectorBase &vec) const;
/**
* Return square of the
* $l_2$-norm.
*/
real_type norm_sqr () const;
/**
* Mean value of the elements of
* this vector.
*/
TrilinosScalar mean_value () const;
/**
* Compute the minimal value of
* the elements of this vector.
*/
TrilinosScalar minimal_value () const;
/**
* $l_1$-norm of the vector. The
* sum of the absolute values.
*/
real_type l1_norm () const;
/**
* $l_2$-norm of the vector. The
* square root of the sum of the
* squares of the elements.
*/
real_type l2_norm () const;
/**
* $l_p$-norm of the vector. The
* <i>p</i>th root of the sum of
* the <i>p</i>th powers of the
* absolute values of the
* elements.
*/
real_type lp_norm (const TrilinosScalar p) const;
/**
* Maximum absolute value of the
* elements.
*/
real_type linfty_norm () const;
/**
* Return whether the vector
* contains only elements with
* value zero. This function is
* mainly for internal
* consistency checks and should
* seldom be used when not in
* debug mode since it uses quite
* some time.
*/
bool all_zero () const;
/**
* Return @p true if the vector
* has no negative entries,
* i.e. all entries are zero or
* positive. This function is
* used, for example, to check
* whether refinement indicators
* are really all positive (or
* zero).
*/
bool is_non_negative () const;
//@}
/**
* @name 2: Data-Access
*/
//@{
/**
* Provide access to a given
* element, both read and write.
*/
reference
operator () (const size_type index);
/**
* Provide read-only access to an
* element. This is equivalent to
* the <code>el()</code> command.
*/
TrilinosScalar
operator () (const size_type index) const;
/**
* Provide access to a given
* element, both read and write.
*
* Exactly the same as operator().
*/
reference
operator [] (const size_type index);
/**
* Provide read-only access to an
* element. This is equivalent to
* the <code>el()</code> command.
*
* Exactly the same as operator().
*/
TrilinosScalar
operator [] (const size_type index) const;
/**
* A collective get operation: instead
* of getting individual elements of a
* vector, this function allows to get
* a whole set of elements at once. The
* indices of the elements to be read
* are stated in the first argument,
* the corresponding values are returned in the
* second.
*/
void extract_subvector_to (const std::vector<size_type> &indices,
std::vector<TrilinosScalar> &values) const;
/**
* Just as the above, but with pointers.
* Useful in minimizing copying of data around.
*/
template <typename ForwardIterator, typename OutputIterator>
void extract_subvector_to (ForwardIterator indices_begin,
const ForwardIterator indices_end,
OutputIterator values_begin) const;
/**
* Return the value of the vector
* entry <i>i</i>. Note that this
* function does only work
* properly when we request a
* data stored on the local
* processor. The function will
* throw an exception in case the
* elements sits on another
* process.
*/
TrilinosScalar el (const size_type index) const;
/**
* Make the Vector class a bit like the <tt>vector<></tt> class of
* the C++ standard library by returning iterators to the start and end
* of the locally owned elements of this vector. The ordering of local elements corresponds to the one given
*
* It holds that end() - begin() == local_size().
*/
iterator begin ();
/**
* Return constant iterator to the start of the locally owned elements
* of the vector.
*/
const_iterator begin () const;
/**
* Return an iterator pointing to the element past the end of the array
* of locally owned entries.
*/
iterator end ();
/**
* Return a constant iterator pointing to the element past the end of
* the array of the locally owned entries.
*/
const_iterator end () const;
/**
* A collective set operation:
* instead of setting individual
* elements of a vector, this
* function allows to set a whole
* set of elements at once. The
* indices of the elements to be
* set are stated in the first
* argument, the corresponding
* values in the second.
*/
void set (const std::vector<size_type> &indices,
const std::vector<TrilinosScalar> &values);
/**
* This is a second collective
* set operation. As a
* difference, this function
* takes a deal.II vector of
* values.
*/
void set (const std::vector<size_type> &indices,
const ::dealii::Vector<TrilinosScalar> &values);
//@}
/**
* @name 3: Modification of vectors
*/
//@{
/**
* This collective set operation
* is of lower level and can
* handle anything else —
* the only thing you have to
* provide is an address where
* all the indices are stored and
* the number of elements to be
* set.
*/
void set (const size_type n_elements,
const size_type *indices,
const TrilinosScalar *values);
/**
* A collective add operation:
* This funnction adds a whole
* set of values stored in @p
* values to the vector
* components specified by @p
* indices.
*/
void add (const std::vector<size_type> &indices,
const std::vector<TrilinosScalar> &values);
/**
* This is a second collective
* add operation. As a
* difference, this function
* takes a deal.II vector of
* values.
*/
void add (const std::vector<size_type> &indices,
const ::dealii::Vector<TrilinosScalar> &values);
/**
* Take an address where
* <tt>n_elements</tt> are stored
* contiguously and add them into
* the vector. Handles all cases
* which are not covered by the
* other two <tt>add()</tt>
* functions above.
*/
void add (const size_type n_elements,
const size_type *indices,
const TrilinosScalar *values);
/**
* Multiply the entire vector by
* a fixed factor.
*/
VectorBase &operator *= (const TrilinosScalar factor);
/**
* Divide the entire vector by a
* fixed factor.
*/
VectorBase &operator /= (const TrilinosScalar factor);
/**
* Add the given vector to the
* present one.
*/
VectorBase &operator += (const VectorBase &V);
/**
* Subtract the given vector from
* the present one.
*/
VectorBase &operator -= (const VectorBase &V);
/**
* Addition of @p s to all
* components. Note that @p s is
* a scalar and not a vector.
*/
void add (const TrilinosScalar s);
/**
* Simple vector addition, equal
* to the <tt>operator
* +=</tt>.
*
* Though, if the second argument
* <tt>allow_different_maps</tt>
* is set, then it is possible to
* add data from a different map.
*/
void add (const VectorBase &V,
const bool allow_different_maps = false);
/**
* Simple addition of a multiple
* of a vector, i.e. <tt>*this =
* a*V</tt>.
*/
void add (const TrilinosScalar a,
const VectorBase &V);
/**
* Multiple addition of scaled
* vectors, i.e. <tt>*this = a*V +
* b*W</tt>.
*/
void add (const TrilinosScalar a,
const VectorBase &V,
const TrilinosScalar b,
const VectorBase &W);
/**
* Scaling and simple vector
* addition, i.e. <tt>*this =
* s*(*this) + V</tt>.
*/
void sadd (const TrilinosScalar s,
const VectorBase &V);
/**
* Scaling and simple addition,
* i.e. <tt>*this = s*(*this) +
* a*V</tt>.
*/
void sadd (const TrilinosScalar s,
const TrilinosScalar a,
const VectorBase &V);
/**
* Scaling and multiple addition.
*/
void sadd (const TrilinosScalar s,
const TrilinosScalar a,
const VectorBase &V,
const TrilinosScalar b,
const VectorBase &W);
/**
* Scaling and multiple addition.
* <tt>*this = s*(*this) + a*V +
* b*W + c*X</tt>.
*/
void sadd (const TrilinosScalar s,
const TrilinosScalar a,
const VectorBase &V,
const TrilinosScalar b,
const VectorBase &W,
const TrilinosScalar c,
const VectorBase &X);
/**
* Scale each element of this
* vector by the corresponding
* element in the argument. This
* function is mostly meant to
* simulate multiplication (and
* immediate re-assignment) by a
* diagonal scaling matrix.
*/
void scale (const VectorBase &scaling_factors);
/**
* Assignment <tt>*this =
* a*V</tt>.
*/
void equ (const TrilinosScalar a,
const VectorBase &V);
/**
* Assignment <tt>*this = a*V +
* b*W</tt>.
*/
void equ (const TrilinosScalar a,
const VectorBase &V,
const TrilinosScalar b,
const VectorBase &W);
/**
* Compute the elementwise ratio
* of the two given vectors, that
* is let <tt>this[i] =
* a[i]/b[i]</tt>. This is useful
* for example if you want to
* compute the cellwise ratio of
* true to estimated error.
*
* This vector is appropriately
* scaled to hold the result.
*
* If any of the <tt>b[i]</tt> is
* zero, the result is
* undefined. No attempt is made
* to catch such situations.
*/
void ratio (const VectorBase &a,
const VectorBase &b);
//@}
/**
* @name 4: Mixed stuff
*/
//@{
/**
* Return a const reference to the
* underlying Trilinos
* Epetra_MultiVector class.
*/
const Epetra_MultiVector &trilinos_vector () const;
/**
* Return a (modifyable) reference to
* the underlying Trilinos
* Epetra_FEVector class.
*/
Epetra_FEVector &trilinos_vector ();
/**
* Return a const reference to the
* underlying Trilinos Epetra_Map
* that sets the parallel
* partitioning of the vector.
*/
const Epetra_Map &vector_partitioner () const;
/**
* Output of vector in
* user-defined format in analogy
* to the dealii::Vector<number>
* class.
*/
void print (const char *format = 0) const;
/**
* Print to a stream. @p
* precision denotes the desired
* precision with which values
* shall be printed, @p
* scientific whether scientific
* notation shall be used. If @p
* across is @p true then the
* vector is printed in a line,
* while if @p false then the
* elements are printed on a
* separate line each.
*/
void print (std::ostream &out,
const unsigned int precision = 3,
const bool scientific = true,
const bool across = true) const;
/**
* Swap the contents of this
* vector and the other vector @p
* v. One could do this operation
* with a temporary variable and
* copying over the data
* elements, but this function is
* significantly more efficient
* since it only swaps the
* pointers to the data of the
* two vectors and therefore does
* not need to allocate temporary
* storage and move data
* around. Note that the vectors
* need to be of the same size
* and base on the same map.
*
* This function is analog to the
* the @p swap function of all C
* standard containers. Also,
* there is a global function
* <tt>swap(u,v)</tt> that simply
* calls <tt>u.swap(v)</tt>,
* again in analogy to standard
* functions.
*/
void swap (VectorBase &v);
/**
* Estimate for the memory
* consumption in bytes.
*/
std::size_t memory_consumption () const;
/**
* Return a reference to the MPI
* communicator object in use with this
* object.
*/
const MPI_Comm &get_mpi_communicator () const;
//@}
/**
* Exception
*/
DeclException0 (ExcGhostsPresent);
/**
* Exception
*/
DeclException0 (ExcDifferentParallelPartitioning);
/**
* Exception
*/
DeclException1 (ExcTrilinosError,
int,
<< "An error with error number " << arg1
<< " occurred while calling a Trilinos function");
/**
* Exception
*/
DeclException3 (ExcAccessToNonlocalElement,
size_type, size_type, size_type,
<< "You tried to access element " << arg1
<< " of a distributed vector, but only entries "
<< arg2 << " through " << arg3
<< " are stored locally and can be accessed.");
private:
/**
* Trilinos doesn't allow to
* mix additions to matrix
* entries and overwriting them
* (to make synchronisation of
* parallel computations
* simpler). The way we do it
* is to, for each access
* operation, store whether it
* is an insertion or an
* addition. If the previous
* one was of different type,
* then we first have to flush
* the Trilinos buffers;
* otherwise, we can simply go
* on. Luckily, Trilinos has
* an object for this which
* does already all the
* parallel communications in
* such a case, so we simply
* use their model, which
* stores whether the last
* operation was an addition or
* an insertion.
*/
Epetra_CombineMode last_action;
/**
* A boolean variable to hold
* information on whether the
* vector is compressed or not.
*/
bool compressed;
/**
* Whether this vector has ghost elements. This is true
* on all processors even if only one of them has any
* ghost elements.
*/
bool has_ghosts;
/**
* An Epetra distibuted vector
* type. Requires an existing
* Epetra_Map for storing data.
*/
std_cxx1x::shared_ptr<Epetra_FEVector> vector;
/**
* Make the reference class a
* friend.
*/
friend class internal::VectorReference;
friend class Vector;
friend class MPI::Vector;
};
// ------------------- inline and template functions --------------
/**
* Global function swap which overloads the default implementation of
* the C standard library which uses a temporary object. The function
* simply exchanges the data of the two vectors.
*
* @relates TrilinosWrappers::VectorBase
* @author Martin Kronbichler, Wolfgang Bangerth, 2008
*/
inline
void swap (VectorBase &u, VectorBase &v)
{
u.swap (v);
}
#ifndef DOXYGEN
namespace internal
{
inline
VectorReference::VectorReference (VectorBase &vector,
const size_type index)
:
vector (vector),
index (index)
{}
inline
const VectorReference &
VectorReference::operator = (const VectorReference &r) const
{
// as explained in the class
// documentation, this is not the copy
// operator. so simply pass on to the
// "correct" assignment operator
*this = static_cast<TrilinosScalar> (r);
return *this;
}
inline
const VectorReference &
VectorReference::operator = (const VectorReference &r)
{
// as above
*this = static_cast<TrilinosScalar> (r);
return *this;
}
inline
const VectorReference &
VectorReference::operator = (const TrilinosScalar &value) const
{
vector.set (1, &index, &value);
return *this;
}
inline
const VectorReference &
VectorReference::operator += (const TrilinosScalar &value) const
{
vector.add (1, &index, &value);
return *this;
}
inline
const VectorReference &
VectorReference::operator -= (const TrilinosScalar &value) const
{
TrilinosScalar new_value = -value;
vector.add (1, &index, &new_value);
return *this;
}
inline
const VectorReference &
VectorReference::operator *= (const TrilinosScalar &value) const
{
TrilinosScalar new_value = static_cast<TrilinosScalar>(*this) * value;
vector.set (1, &index, &new_value);
return *this;
}
inline
const VectorReference &
VectorReference::operator /= (const TrilinosScalar &value) const
{
TrilinosScalar new_value = static_cast<TrilinosScalar>(*this) / value;
vector.set (1, &index, &new_value);
return *this;
}
}
inline
bool
VectorBase::is_compressed () const
{
return compressed;
}
inline
bool
VectorBase::in_local_range (const size_type index) const
{
std::pair<size_type, size_type> range = local_range();
return ((index >= range.first) && (index < range.second));
}
inline
IndexSet
VectorBase::locally_owned_elements() const
{
IndexSet is (size());
// easy case: local range is contiguous
if (vector->Map().LinearMap())
{
const std::pair<size_type, size_type> x = local_range();
is.add_range (x.first, x.second);
}
else if (vector->Map().NumMyElements() > 0)
{
const size_type n_indices = vector->Map().NumMyElements();
#ifndef DEAL_II_USE_LARGE_INDEX_TYPE
unsigned int *vector_indices = (unsigned int *)vector->Map().MyGlobalElements();
#else
size_type *vector_indices = (size_type *)vector->Map().MyGlobalElements64();
#endif
is.add_indices(vector_indices, vector_indices+n_indices);
is.compress();
}
return is;
}
inline
bool
VectorBase::has_ghost_elements() const
{
return has_ghosts;
}
inline
internal::VectorReference
VectorBase::operator () (const size_type index)
{
return internal::VectorReference (*this, index);
}
inline
internal::VectorReference
VectorBase::operator [] (const size_type index)
{
return operator() (index);
}
inline
TrilinosScalar
VectorBase::operator [] (const size_type index) const
{
return operator() (index);
}
inline
void VectorBase::extract_subvector_to (const std::vector<size_type> &indices,
std::vector<TrilinosScalar> &values) const
{
for (size_type i = 0; i < indices.size(); ++i)
values[i] = operator()(indices[i]);
}
template <typename ForwardIterator, typename OutputIterator>
inline
void VectorBase::extract_subvector_to (ForwardIterator indices_begin,
const ForwardIterator indices_end,
OutputIterator values_begin) const
{
while (indices_begin != indices_end)
{
*values_begin = operator()(*indices_begin);
indices_begin++;
values_begin++;
}
}
inline
VectorBase::iterator
VectorBase::begin()
{
return (*vector)[0];
}
inline
VectorBase::iterator
VectorBase::end()
{
return (*vector)[0]+local_size();
}
inline
VectorBase::const_iterator
VectorBase::begin() const
{
return (*vector)[0];
}
inline
VectorBase::const_iterator
VectorBase::end() const
{
return (*vector)[0]+local_size();
}
inline
void
VectorBase::reinit (const VectorBase &v,
const bool fast)
{
Assert (vector.get() != 0,
ExcMessage("Vector has not been constructed properly."));
if (fast == false ||
vector_partitioner().SameAs(v.vector_partitioner())==false)
vector.reset (new Epetra_FEVector(*v.vector));
}
inline
void
VectorBase::compress (const Epetra_CombineMode last_action)
{
::dealii::VectorOperation::values last_action_ =
::dealii::VectorOperation::unknown;
if (last_action == Add)
last_action_ = ::dealii::VectorOperation::add;
else if (last_action == Insert)
last_action_ = ::dealii::VectorOperation::insert;
else
AssertThrow(false, ExcNotImplemented());
compress(last_action_);
}
inline
void
VectorBase::compress (::dealii::VectorOperation::values given_last_action)
{
//Select which mode to send to
//Trilinos. Note that we use last_action
//if available and ignore what the user
//tells us to detect wrongly mixed
//operations. Typically given_last_action
//is only used on machines that do not
//execute an operation (because they have
//no own cells for example).
Epetra_CombineMode mode = last_action;
if (last_action == Zero)
{
if (given_last_action==::dealii::VectorOperation::add)
mode = Add;
else if (given_last_action==::dealii::VectorOperation::insert)
mode = Insert;
}
#ifdef DEBUG
# ifdef DEAL_II_WITH_MPI
// check that every process has decided
// to use the same mode. This will
// otherwise result in undefined
// behaviour in the call to
// GlobalAssemble().
double double_mode = mode;
Utilities::MPI::MinMaxAvg result
= Utilities::MPI::min_max_avg (double_mode,
dynamic_cast<const Epetra_MpiComm *>
(&vector_partitioner().Comm())->GetMpiComm());
Assert(result.max-result.min<1e-5,
ExcMessage ("Not all processors agree whether the last operation on "
"this vector was an addition or a set operation. This will "
"prevent the compress() operation from succeeding."));
# endif
#endif
// Now pass over the information about
// what we did last to the vector.
const int ierr = vector->GlobalAssemble(mode);
AssertThrow (ierr == 0, ExcTrilinosError(ierr));
last_action = Zero;
compressed = true;
}
inline
void
VectorBase::compress ()
{
compress(VectorOperation::unknown);
}
inline
VectorBase &
VectorBase::operator = (const TrilinosScalar s)
{
// if we have ghost values, do not allow
// writing to this vector at all.
Assert (!has_ghost_elements(), ExcGhostsPresent());
Assert (numbers::is_finite(s), ExcNumberNotFinite());
const int ierr = vector->PutScalar(s);
AssertThrow (ierr == 0, ExcTrilinosError(ierr));
return *this;
}
inline
void
VectorBase::set (const std::vector<size_type> &indices,
const std::vector<TrilinosScalar> &values)
{
// if we have ghost values, do not allow
// writing to this vector at all.
Assert (!has_ghost_elements(), ExcGhostsPresent());
Assert (indices.size() == values.size(),
ExcDimensionMismatch(indices.size(),values.size()));
set (indices.size(), &indices[0], &values[0]);
}
inline
void
VectorBase::set (const std::vector<size_type> &indices,
const ::dealii::Vector<TrilinosScalar> &values)
{
// if we have ghost values, do not allow
// writing to this vector at all.
Assert (!has_ghost_elements(), ExcGhostsPresent());
Assert (indices.size() == values.size(),
ExcDimensionMismatch(indices.size(),values.size()));
set (indices.size(), &indices[0], values.begin());
}
inline
void
VectorBase::set (const size_type n_elements,
const size_type *indices,
const TrilinosScalar *values)
{
// if we have ghost values, do not allow
// writing to this vector at all.
Assert (!has_ghost_elements(), ExcGhostsPresent());
if (last_action == Add)
vector->GlobalAssemble(Add);
if (last_action != Insert)
last_action = Insert;
for (size_type i=0; i<n_elements; ++i)
{
const size_type row = indices[i];
const TrilinosWrappers::types::int_type local_row = vector->Map().LID(static_cast<TrilinosWrappers::types::int_type>(row));
if (local_row == -1)
{
const int ierr = vector->ReplaceGlobalValues (1,
(const TrilinosWrappers::types::int_type *)(&row),
&values[i]);
AssertThrow (ierr == 0, ExcTrilinosError(ierr));
compressed = false;
}
else
(*vector)[0][local_row] = values[i];
}
}
inline
void
VectorBase::add (const std::vector<size_type> &indices,
const std::vector<TrilinosScalar> &values)
{
// if we have ghost values, do not allow
// writing to this vector at all.
Assert (!has_ghost_elements(), ExcGhostsPresent());
Assert (indices.size() == values.size(),
ExcDimensionMismatch(indices.size(),values.size()));
add (indices.size(), &indices[0], &values[0]);
}
inline
void
VectorBase::add (const std::vector<size_type> &indices,
const ::dealii::Vector<TrilinosScalar> &values)
{
// if we have ghost values, do not allow
// writing to this vector at all.
Assert (!has_ghost_elements(), ExcGhostsPresent());
Assert (indices.size() == values.size(),
ExcDimensionMismatch(indices.size(),values.size()));
add (indices.size(), &indices[0], values.begin());
}
inline
void
VectorBase::add (const size_type n_elements,
const size_type *indices,
const TrilinosScalar *values)
{
// if we have ghost values, do not allow
// writing to this vector at all.
Assert (!has_ghost_elements(), ExcGhostsPresent());
if (last_action != Add)
{
if (last_action == Insert)
vector->GlobalAssemble(Insert);
last_action = Add;
}
for (size_type i=0; i<n_elements; ++i)
{
const size_type row = indices[i];
const TrilinosWrappers::types::int_type local_row = vector->Map().LID(static_cast<TrilinosWrappers::types::int_type>(row));
if (local_row == -1)
{
const int ierr = vector->SumIntoGlobalValues (1,
(const TrilinosWrappers::types::int_type *)(&row),
&values[i]);
AssertThrow (ierr == 0, ExcTrilinosError(ierr));
compressed = false;
}
else
(*vector)[0][local_row] += values[i];
}
}
inline
VectorBase::size_type
VectorBase::size () const
{
#ifndef DEAL_II_USE_LARGE_INDEX_TYPE
return (size_type) (vector->Map().MaxAllGID() + 1 - vector->Map().MinAllGID());
#else
return (size_type) (vector->Map().MaxAllGID64() + 1 - vector->Map().MinAllGID64());
#endif
}
inline
VectorBase::size_type
VectorBase::local_size () const
{
return (size_type) vector->Map().NumMyElements();
}
inline
std::pair<VectorBase::size_type, VectorBase::size_type>
VectorBase::local_range () const
{
#ifndef DEAL_II_USE_LARGE_INDEX_TYPE
const TrilinosWrappers::types::int_type begin = vector->Map().MinMyGID();
const TrilinosWrappers::types::int_type end = vector->Map().MaxMyGID()+1;
#else
const TrilinosWrappers::types::int_type begin = vector->Map().MinMyGID64();
const TrilinosWrappers::types::int_type end = vector->Map().MaxMyGID64()+1;
#endif
Assert (end-begin == vector->Map().NumMyElements(),
ExcMessage ("This function only makes sense if the elements that this "
"vector stores on the current processor form a contiguous range. "
"This does not appear to be the case for the current vector."));
return std::make_pair (begin, end);
}
inline
TrilinosScalar
VectorBase::operator * (const VectorBase &vec) const
{
Assert (vector->Map().SameAs(vec.vector->Map()),
ExcDifferentParallelPartitioning());
Assert (!has_ghost_elements(), ExcGhostsPresent());
TrilinosScalar result;
const int ierr = vector->Dot(*(vec.vector), &result);
AssertThrow (ierr == 0, ExcTrilinosError(ierr));
return result;
}
inline
VectorBase::real_type
VectorBase::norm_sqr () const
{
const TrilinosScalar d = l2_norm();
return d*d;
}
inline
TrilinosScalar
VectorBase::mean_value () const
{
Assert (!has_ghost_elements(), ExcGhostsPresent());
TrilinosScalar mean;
const int ierr = vector->MeanValue (&mean);
AssertThrow (ierr == 0, ExcTrilinosError(ierr));
return mean;
}
inline
TrilinosScalar
VectorBase::minimal_value () const
{
TrilinosScalar min_value;
const int ierr = vector->MinValue (&min_value);
AssertThrow (ierr == 0, ExcTrilinosError(ierr));
return min_value;
}
inline
VectorBase::real_type
VectorBase::l1_norm () const
{
Assert (!has_ghost_elements(), ExcGhostsPresent());
TrilinosScalar d;
const int ierr = vector->Norm1 (&d);
AssertThrow (ierr == 0, ExcTrilinosError(ierr));
return d;
}
inline
VectorBase::real_type
VectorBase::l2_norm () const
{
Assert (!has_ghost_elements(), ExcGhostsPresent());
TrilinosScalar d;
const int ierr = vector->Norm2 (&d);
AssertThrow (ierr == 0, ExcTrilinosError(ierr));
return d;
}
inline
VectorBase::real_type
VectorBase::lp_norm (const TrilinosScalar p) const
{
Assert (!has_ghost_elements(), ExcGhostsPresent());
TrilinosScalar norm = 0;
TrilinosScalar sum=0;
const size_type n_local = local_size();
// loop over all the elements because
// Trilinos does not support lp norms
for (size_type i=0; i<n_local; i++)
sum += std::pow(std::fabs((*vector)[0][i]), p);
norm = std::pow(sum, static_cast<TrilinosScalar>(1./p));
return norm;
}
inline
VectorBase::real_type
VectorBase::linfty_norm () const
{
// while we disallow the other
// norm operations on ghosted
// vectors, this particular norm
// is safe to run even in the
// presence of ghost elements
TrilinosScalar d;
const int ierr = vector->NormInf (&d);
AssertThrow (ierr == 0, ExcTrilinosError(ierr));
return d;
}
// inline also scalar products, vector
// additions etc. since they are all
// representable by a single Trilinos
// call. This reduces the overhead of the
// wrapper class.
inline
VectorBase &
VectorBase::operator *= (const TrilinosScalar a)
{
Assert (numbers::is_finite(a), ExcNumberNotFinite());
const int ierr = vector->Scale(a);
AssertThrow (ierr == 0, ExcTrilinosError(ierr));
return *this;
}
inline
VectorBase &
VectorBase::operator /= (const TrilinosScalar a)
{
Assert (numbers::is_finite(a), ExcNumberNotFinite());
const TrilinosScalar factor = 1./a;
Assert (numbers::is_finite(factor), ExcNumberNotFinite());
const int ierr = vector->Scale(factor);
AssertThrow (ierr == 0, ExcTrilinosError(ierr));
return *this;
}
inline
VectorBase &
VectorBase::operator += (const VectorBase &v)
{
Assert (size() == v.size(),
ExcDimensionMismatch(size(), v.size()));
Assert (vector->Map().SameAs(v.vector->Map()),
ExcDifferentParallelPartitioning());
const int ierr = vector->Update (1.0, *(v.vector), 1.0);
AssertThrow (ierr == 0, ExcTrilinosError(ierr));
return *this;
}
inline
VectorBase &
VectorBase::operator -= (const VectorBase &v)
{
Assert (size() == v.size(),
ExcDimensionMismatch(size(), v.size()));
Assert (vector->Map().SameAs(v.vector->Map()),
ExcDifferentParallelPartitioning());
const int ierr = vector->Update (-1.0, *(v.vector), 1.0);
AssertThrow (ierr == 0, ExcTrilinosError(ierr));
return *this;
}
inline
void
VectorBase::add (const TrilinosScalar s)
{
// if we have ghost values, do not allow
// writing to this vector at all.
Assert (!has_ghost_elements(), ExcGhostsPresent());
Assert (numbers::is_finite(s), ExcNumberNotFinite());
size_type n_local = local_size();
for (size_type i=0; i<n_local; i++)
(*vector)[0][i] += s;
}
inline
void
VectorBase::add (const TrilinosScalar a,
const VectorBase &v)
{
// if we have ghost values, do not allow
// writing to this vector at all.
Assert (!has_ghost_elements(), ExcGhostsPresent());
Assert (local_size() == v.local_size(),
ExcDimensionMismatch(local_size(), v.local_size()));
Assert (numbers::is_finite(a), ExcNumberNotFinite());
const int ierr = vector->Update(a, *(v.vector), 1.);
AssertThrow (ierr == 0, ExcTrilinosError(ierr));
}
inline
void
VectorBase::add (const TrilinosScalar a,
const VectorBase &v,
const TrilinosScalar b,
const VectorBase &w)
{
// if we have ghost values, do not allow
// writing to this vector at all.
Assert (!has_ghost_elements(), ExcGhostsPresent());
Assert (local_size() == v.local_size(),
ExcDimensionMismatch(local_size(), v.local_size()));
Assert (local_size() == w.local_size(),
ExcDimensionMismatch(local_size(), w.local_size()));
Assert (numbers::is_finite(a), ExcNumberNotFinite());
Assert (numbers::is_finite(b), ExcNumberNotFinite());
const int ierr = vector->Update(a, *(v.vector), b, *(w.vector), 1.);
AssertThrow (ierr == 0, ExcTrilinosError(ierr));
}
inline
void
VectorBase::sadd (const TrilinosScalar s,
const VectorBase &v)
{
// if we have ghost values, do not allow
// writing to this vector at all.
Assert (!has_ghost_elements(), ExcGhostsPresent());
Assert (local_size() == v.local_size(),
ExcDimensionMismatch(local_size(), v.local_size()));
Assert (numbers::is_finite(s), ExcNumberNotFinite());
const int ierr = vector->Update(1., *(v.vector), s);
AssertThrow (ierr == 0, ExcTrilinosError(ierr));
}
inline
void
VectorBase::sadd (const TrilinosScalar s,
const TrilinosScalar a,
const VectorBase &v)
{
// if we have ghost values, do not allow
// writing to this vector at all.
Assert (!has_ghost_elements(), ExcGhostsPresent());
Assert (local_size() == v.local_size(),
ExcDimensionMismatch(local_size(), v.local_size()));
Assert (numbers::is_finite(s), ExcNumberNotFinite());
Assert (numbers::is_finite(a), ExcNumberNotFinite());
const int ierr = vector->Update(a, *(v.vector), s);
AssertThrow (ierr == 0, ExcTrilinosError(ierr));
}
inline
void
VectorBase::sadd (const TrilinosScalar s,
const TrilinosScalar a,
const VectorBase &v,
const TrilinosScalar b,
const VectorBase &w)
{
// if we have ghost values, do not allow
// writing to this vector at all.
Assert (!has_ghost_elements(), ExcGhostsPresent());
Assert (local_size() == v.local_size(),
ExcDimensionMismatch(local_size(), v.local_size()));
Assert (local_size() == w.local_size(),
ExcDimensionMismatch(local_size(), w.local_size()));
Assert (numbers::is_finite(s), ExcNumberNotFinite());
Assert (numbers::is_finite(a), ExcNumberNotFinite());
Assert (numbers::is_finite(b), ExcNumberNotFinite());
const int ierr = vector->Update(a, *(v.vector), b, *(w.vector), s);
AssertThrow (ierr == 0, ExcTrilinosError(ierr));
}
inline
void
VectorBase::sadd (const TrilinosScalar s,
const TrilinosScalar a,
const VectorBase &v,
const TrilinosScalar b,
const VectorBase &w,
const TrilinosScalar c,
const VectorBase &x)
{
// if we have ghost values, do not allow
// writing to this vector at all.
Assert (!has_ghost_elements(), ExcGhostsPresent());
Assert (local_size() == v.local_size(),
ExcDimensionMismatch(local_size(), v.local_size()));
Assert (local_size() == w.local_size(),
ExcDimensionMismatch(local_size(), w.local_size()));
Assert (local_size() == x.local_size(),
ExcDimensionMismatch(local_size(), x.local_size()));
Assert (numbers::is_finite(s), ExcNumberNotFinite());
Assert (numbers::is_finite(a), ExcNumberNotFinite());
Assert (numbers::is_finite(b), ExcNumberNotFinite());
Assert (numbers::is_finite(c), ExcNumberNotFinite());
// Update member can only
// input two other vectors so
// do it in two steps
const int ierr = vector->Update(a, *(v.vector), b, *(w.vector), s);
AssertThrow (ierr == 0, ExcTrilinosError(ierr));
const int jerr = vector->Update(c, *(x.vector), 1.);
Assert (jerr == 0, ExcTrilinosError(jerr));
(void)jerr; // removes -Wunused-parameter warning in optimized mode
}
inline
void
VectorBase::scale (const VectorBase &factors)
{
// if we have ghost values, do not allow
// writing to this vector at all.
Assert (!has_ghost_elements(), ExcGhostsPresent());
Assert (local_size() == factors.local_size(),
ExcDimensionMismatch(local_size(), factors.local_size()));
const int ierr = vector->Multiply (1.0, *(factors.vector), *vector, 0.0);
AssertThrow (ierr == 0, ExcTrilinosError(ierr));
}
inline
void
VectorBase::equ (const TrilinosScalar a,
const VectorBase &v)
{
// if we have ghost values, do not allow
// writing to this vector at all.
Assert (!has_ghost_elements(), ExcGhostsPresent());
Assert (numbers::is_finite(a), ExcNumberNotFinite());
// If we don't have the same map, copy.
if (vector->Map().SameAs(v.vector->Map())==false)
{
*vector = *v.vector;
*this *= a;
}
else
{
// Otherwise, just update
int ierr = vector->Update(a, *v.vector, 0.0);
AssertThrow (ierr == 0, ExcTrilinosError(ierr));
last_action = Zero;
}
}
inline
void
VectorBase::equ (const TrilinosScalar a,
const VectorBase &v,
const TrilinosScalar b,
const VectorBase &w)
{
// if we have ghost values, do not allow
// writing to this vector at all.
Assert (!has_ghost_elements(), ExcGhostsPresent());
Assert (v.local_size() == w.local_size(),
ExcDimensionMismatch (v.local_size(), w.local_size()));
Assert (numbers::is_finite(a), ExcNumberNotFinite());
Assert (numbers::is_finite(b), ExcNumberNotFinite());
// If we don't have the same map, copy.
if (vector->Map().SameAs(v.vector->Map())==false)
{
*vector = *v.vector;
sadd(a, b, w);
}
else
{
// Otherwise, just update. verify
// that *this does not only have
// the same map as v (the
// if-condition above) but also as
// w
Assert (vector->Map().SameAs(w.vector->Map()),
ExcDifferentParallelPartitioning());
int ierr = vector->Update(a, *v.vector, b, *w.vector, 0.0);
AssertThrow (ierr == 0, ExcTrilinosError(ierr));
last_action = Zero;
}
}
inline
void
VectorBase::ratio (const VectorBase &v,
const VectorBase &w)
{
Assert (v.local_size() == w.local_size(),
ExcDimensionMismatch (v.local_size(), w.local_size()));
Assert (local_size() == w.local_size(),
ExcDimensionMismatch (local_size(), w.local_size()));
const int ierr = vector->ReciprocalMultiply(1.0, *(w.vector),
*(v.vector), 0.0);
AssertThrow (ierr == 0, ExcTrilinosError(ierr));
}
inline
const Epetra_MultiVector &
VectorBase::trilinos_vector () const
{
return static_cast<const Epetra_MultiVector &>(*vector);
}
inline
Epetra_FEVector &
VectorBase::trilinos_vector ()
{
return *vector;
}
inline
const Epetra_Map &
VectorBase::vector_partitioner () const
{
return static_cast<const Epetra_Map &>(vector->Map());
}
inline
const MPI_Comm &
VectorBase::get_mpi_communicator () const
{
static MPI_Comm comm;
#ifdef DEAL_II_WITH_MPI
const Epetra_MpiComm *mpi_comm
= dynamic_cast<const Epetra_MpiComm *>(&vector->Map().Comm());
comm = mpi_comm->Comm();
#else
comm = MPI_COMM_SELF;
#endif
return comm;
}
#endif // DOXYGEN
}
/*@}*/
DEAL_II_NAMESPACE_CLOSE
#endif // DEAL_II_WITH_TRILINOS
/*---------------------------- trilinos_vector_base.h ---------------------------*/
#endif
/*---------------------------- trilinos_vector_base.h ---------------------------*/
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