Homec4science
Diffusion akantu (features/30-implementing-a-checkpoint-restart-mechanism) Browse

rAKA/src/common/aka_csr.hh
848f0fd8c83bfeatures/30-implementin…

Last Change
Raw File

aka_csr.hh
View Options

/**
* @file aka_csr.hh
*
* @author Nicolas Richart <nicolas.richart@epfl.ch>
*
* @date creation: Wed Apr 20 2011
* @date last modification: Mon Jun 02 2014
*
* @brief A compresed sparse row structure based on akantu Arrays
*
* @section LICENSE
*
* Copyright (©) 2010-2012, 2014 EPFL (Ecole Polytechnique Fédérale de Lausanne)
* Laboratory (LSMS - Laboratoire de Simulation en Mécanique des Solides)
*
* Akantu is free software: you can 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 3 of the License, or (at your option) any
* later version.
*
* Akantu is distributed in the hope that it will be useful, but WITHOUT ANY
* WARRANTY; without even the implied warranty of MERCHANTABILITY or FITNESS FOR
* A PARTICULAR PURPOSE. See the GNU Lesser General Public License for more
* details.
*
* You should have received a copy of the GNU Lesser General Public License
* along with Akantu. If not, see <http://www.gnu.org/licenses/>.
*
*/
/* -------------------------------------------------------------------------- */
#include "aka_common.hh"
#include "aka_array.hh"
/* -------------------------------------------------------------------------- */
#ifndef __AKANTU_AKA_CSR_HH__
#define __AKANTU_AKA_CSR_HH__
__BEGIN_AKANTU__
/**
* This class can be used to store the structure of a sparse matrix or for
* vectors with variable number of component per element
*
* @param nb_rows number of rows of a matrix or size of a vector.
*/
template <typename T>
class CSR {
/* ------------------------------------------------------------------------ */
/* Constructors/Destructors */
/* ------------------------------------------------------------------------ */
public:
CSR(UInt nb_rows = 0) : nb_rows(nb_rows),
rows_offsets(nb_rows + 1, 1, "rows_offsets"),
rows(0, 1, "rows") {
rows_offsets.clear();
};
virtual ~CSR() {};
/* ------------------------------------------------------------------------ */
/* Methods */
/* ------------------------------------------------------------------------ */
public:
/// does nothing
inline void beginInsertions() {};
/// insert a new entry val in row row
inline UInt insertInRow(UInt row, const T & val) {
UInt pos = rows_offsets(row)++;
rows(pos) = val;
return pos;
}
/// access an element of the matrix
inline const T & operator()(UInt row, UInt col) const {
AKANTU_DEBUG_ASSERT(rows_offsets(row + 1) - rows_offsets(row) > col, "This element is not present in this CSR");
return rows(rows_offsets(row) + col);
}
/// access an element of the matrix
inline T & operator()(UInt row, UInt col) {
AKANTU_DEBUG_ASSERT(rows_offsets(row + 1) - rows_offsets(row) > col, "This element is not present in this CSR");
return rows(rows_offsets(row) + col);
}
inline void endInsertions() {
for (UInt i = nb_rows; i > 0; --i) rows_offsets(i) = rows_offsets(i-1);
rows_offsets(0) = 0;
}
inline void countToCSR() {
for (UInt i = 1; i < nb_rows; ++i) rows_offsets(i) += rows_offsets(i-1);
for (UInt i = nb_rows; i >= 1; --i) rows_offsets(i) = rows_offsets(i-1);
rows_offsets(0) = 0;
}
inline void clearRows() { rows_offsets.clear(); rows.resize(0); };
inline void resizeRows(UInt nb_rows) {
this->nb_rows = nb_rows;
rows_offsets.resize(nb_rows + 1);
}
inline void resizeCols() {
rows.resize(rows_offsets(nb_rows));
}
inline void copy(Array<UInt> & offsets, Array<T> & values) {
offsets.copy(rows_offsets);
values.copy(rows);
}
/* ------------------------------------------------------------------------ */
/* Accessors */
/* ------------------------------------------------------------------------ */
public:
/// returns the number of rows
inline UInt getNbRows() const { return rows_offsets.getSize() - 1; };
/// returns the number of non-empty columns in a given row
inline UInt getNbCols(UInt row) const { return rows_offsets(row + 1) - rows_offsets(row); };
/// returns the offset (start of columns) for a given row
inline UInt & rowOffset(UInt row) { return rows_offsets(row); };
/// iterator on a row
template <class R>
class iterator_internal : public std::iterator<std::bidirectional_iterator_tag, R> {
public:
typedef std::iterator<std::bidirectional_iterator_tag, R> _parent;
typedef typename _parent::pointer pointer;
typedef typename _parent::reference reference;
iterator_internal(pointer x = NULL) : pos(x) {};
iterator_internal(const iterator_internal & it) : pos(it.pos) {};
iterator_internal& operator++() { ++pos; return *this; };
iterator_internal operator++(int) { iterator tmp(*this); operator++(); return tmp; };
iterator_internal& operator--() { --pos; return *this; };
iterator_internal operator--(int) { iterator_internal tmp(*this); operator--(); return tmp; };
bool operator==(const iterator_internal& rhs) { return pos == rhs.pos; };
bool operator!=(const iterator_internal& rhs) { return pos != rhs.pos; };
reference operator*() { return *pos; };
pointer operator->() const { return pos; };
private:
pointer pos;
};
typedef iterator_internal<T> iterator;
typedef iterator_internal<const T> const_iterator;
inline iterator begin(UInt row) { return iterator(rows.storage() + rows_offsets(row)); };
inline iterator end(UInt row) { return iterator(rows.storage() + rows_offsets(row+1)); };
inline const_iterator begin(UInt row) const { return const_iterator(rows.storage() + rows_offsets(row)); };
inline const_iterator end(UInt row) const { return const_iterator(rows.storage() + rows_offsets(row+1)); };
inline iterator rbegin(UInt row) { return iterator(rows.storage() + rows_offsets(row+1) - 1); };
inline iterator rend(UInt row) { return iterator(rows.storage() + rows_offsets(row) - 1); };
inline const Array<UInt> & getRowsOffset() const { return rows_offsets; };
inline const Array<T> & getRows() const { return rows; };
inline Array<T> & getRows() { return rows; };
/* ------------------------------------------------------------------------ */
/* Class Members */
/* ------------------------------------------------------------------------ */
protected:
UInt nb_rows;
/// array of size nb_rows containing the offset where the values are stored in
Array<UInt> rows_offsets;
/// compressed row values, values of row[i] are stored between rows_offsets[i]
/// and rows_offsets[i+1]
Array<T> rows;
};
/* -------------------------------------------------------------------------- */
/* Data CSR */
/* -------------------------------------------------------------------------- */
/**
* Inherits from CSR<UInt> and can contain information such as matrix values
* where the mother class would be a CSR structure for row and cols
*
* @return nb_rows
*/
template<class T>
class DataCSR : public CSR<UInt> {
public:
DataCSR(UInt nb_rows = 0) : CSR<UInt>(nb_rows), data(0,1) { };
inline void resizeCols() {
CSR<UInt>::resizeCols();
data.resize(rows_offsets(nb_rows));
}
inline const Array<T> & getData() const { return data; };
private:
Array<T> data;
};
/* -------------------------------------------------------------------------- */
/* inline functions */
/* -------------------------------------------------------------------------- */
//#include "aka_csr_inline_impl.cc"
/// standard output stream operator
// inline std::ostream & operator <<(std::ostream & stream, const CSR & _this)
// {
// _this.printself(stream);
// return stream;
// }
__END_AKANTU__
#endif /* __AKANTU_AKA_CSR_HH__ */
c4science · Help