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Merge branch 'master' of git://scm.gforge.inria.fr/paradiseo/paradiseo

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manu 2014-09-23 17:06:57 +02:00
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4
INSTALL
View file

@ -183,9 +183,9 @@ Easy, isn't it ?
By performing tests, you can check your installation.
Testing is disable by default, except if you build with the full install type.
To enable testing, define -DENABLE_TESTING when you launch cmake.
To enable testing, define -DENABLE_CMAKE_TESTING=true when you launch cmake.
To perform tests simply type ctest ou make test.
To perform tests simply type ctest or make test.
------------------------------------------------------------------------------------------
5.2 REPORTING

2
eo/src/CMakeLists.txt
View file

@ -47,7 +47,7 @@ install(DIRECTORY do es ga gp other utils
add_subdirectory(es)
add_subdirectory(ga)
add_subdirectory(utils)
add_subdirectory(serial)
#add_subdirectory(serial)
if(ENABLE_PYEO)
add_subdirectory(pyeo)

2
eo/src/eoNDSorting.h
View file

@ -273,7 +273,7 @@ private :
{
unsigned i;
typedef typename EOT::Fitness::fitness_traits traits;
//typedef typename EOT::Fitness::fitness_traits traits;
std::vector<std::vector<unsigned> > S(_pop.size()); // which individuals does guy i dominate
std::vector<unsigned> n(_pop.size(), 0); // how many individuals dominate guy i

126
eo/src/eoPartiallyMappedXover.h Normal file
View file

@ -0,0 +1,126 @@
/*
<eoPartiallyMappedXover.h>
Copyright (C) DOLPHIN Project-Team, INRIA Lille - Nord Europe, 2006-2010
Sébastien Verel
This software is governed by the CeCILL license under French law and
abiding by the rules of distribution of free software. You can ue,
modify and/ or redistribute the software under the terms of the CeCILL
license as circulated by CEA, CNRS and INRIA at the following URL
"http://www.cecill.info".
In this respect, the user's attention is drawn to the risks associated
with loading, using, modifying and/or developing or reproducing the
software by the user in light of its specific status of free software,
that may mean that it is complicated to manipulate, and that also
therefore means that it is reserved for developers and experienced
professionals having in-depth computer knowledge. Users are therefore
encouraged to load and test the software's suitability as regards their
requirements in conditions enabling the security of their systems and/or
data to be ensured and, more generally, to use and operate it in the
same conditions as regards security.
The fact that you are presently reading this means that you have had
knowledge of the CeCILL license and that you accept its terms.
ParadisEO WebSite : http://paradiseo.gforge.inria.fr
Contact: paradiseo-help@lists.gforge.inria.fr
*/
#ifndef eoPartiallyMappedXover__h
#define eoPartiallyMappedXover__h
//-----------------------------------------------------------------------------
#include <algorithm>
#include <utils/eoRNG.h>
/**
*
* Partially Mapped CrossOver (PMX)
* for permutation representation
*
*/
template <class EOT>
class eoPartiallyMappedXover : public eoQuadOp<EOT>
{
public:
/**
*
* @param _solution1 The first solution
* @param _solution2 The second solution
* @return true if the solution has changed
*/
bool operator()(EOT & _solution1, EOT & _solution2) {
if (_solution1.size() > 1) {
// random indexes such that i1 < i2
int i1 = rng.random(_solution1.size());
int i2 = rng.random(_solution1.size());
while (i1 == i2)
i2 = rng.random(_solution1.size());
if (i1 > i2) {
int tmp = i1;
i1 = i2;
i2 = tmp;
}
// the permutations between s1 and s2
int * p1 = new int[_solution1.size()];
int * p2 = new int[_solution1.size()];
int i;
for(i = 0; i < _solution1.size(); i++) {
p1[i] = -1;
p2[i] = -1;
}
for(i = i1; i <= i2; i++) {
p1[ _solution2[i] ] = _solution1[i] ;
p2[ _solution1[i] ] = _solution2[i] ;
}
// replace if necessary
for(i = 0; i < i1; i++) {
while (p1[ _solution1[i] ] != -1)
_solution1[i] = p1[_solution1[i]];
while (p2[ _solution2[i] ] != -1)
_solution2[i] = p2[_solution2[i]];
}
// swap between solution1 and solution2 for [i1..i2]
for(i = i1; i <= i2; i++) {
_solution1[i] = p2[ _solution1[i] ];
_solution2[i] = p1[ _solution2[i] ];
}
// replace if necessary
for(i = i2 + 1; i < _solution1.size(); i++) {
while (p1[ _solution1[i] ] != -1)
_solution1[i] = p1[_solution1[i]];
while (p2[ _solution2[i] ] != -1)
_solution2[i] = p2[_solution2[i]];
}
// invalidate the solutions because they have been modified
_solution1.invalidate();
_solution2.invalidate();
delete [] p1;
delete [] p2;
return true;
} else
return false;
}
/**
* The class name.
*/
virtual std::string className() const {
return "eoPartiallyMappedXover";
}
};
#endif

1
eo/src/eoTimeContinue.h
View file

@ -56,6 +56,7 @@ public:
*/
virtual bool operator() (const eoPop < EOT > & _pop)
{
(void)_pop;
time_t elapsed = (time_t) difftime(time(NULL), start);
if (elapsed >= max)
{

27
eo/src/utils/eoDistance.h
View file

@ -62,12 +62,35 @@ public:
};
/**
SV: from eoHammingDistance, it is in fact the L1 distance
This is a generic class for L1 distance computation:
assumes the 2 things are std::vectors of something
that is double-castable
For bitstrings, this is the Hamming distance
*/
template< class EOT >
class eoL1Distance : public eoDistance<EOT>
{
public:
double operator()(const EOT & _v1, const EOT & _v2)
{
double sum=0.0;
for (unsigned i=0; i<_v1.size(); i++)
{
double r = static_cast<double> (_v1[i]) - static_cast<double> (_v2[i]);
sum += fabs(r);
}
return sum;
}
};
/**
SV: change to have the Hamming (number of differences)
For bitstrings, this is the Hamming distance
*/
template< class EOT >
class eoHammingDistance : public eoDistance<EOT>
{
public:
@ -76,8 +99,8 @@ public:
double sum=0.0;
for (unsigned i=0; i<_v1.size(); i++)
{
double r = static_cast<double> (_v1[i]) - static_cast<double> (_v2[i]);
sum += fabs(r);
if (_v1[i] != _v2[i])
sum++;
}
return sum;
}

1
eo/test/CMakeLists.txt
View file

@ -69,6 +69,7 @@ set (TEST_LIST
#t-openmp # does not work anymore since functions used in this test were removed from EO
#t-eoDualFitness
t-eoParser
t-eoPartiallyMappedXover
)

71
eo/test/t-eoPartiallyMappedXover.cpp Normal file
View file

@ -0,0 +1,71 @@
/*
<t-eoPartiallyMappedXover.cpp>
*/
#include <eo>
#include <eoInt.h>
#include <eoPartiallyMappedXover.h>
#include <cstdlib>
#include <cassert>
//-----------------------------------------------------------------------------
typedef eoInt<int> Solution;
int main() {
std::cout << "[t-eoPartiallyMappedXover] => START" << std::endl;
Solution sol1, sol2;
sol1.resize(9);
sol2.resize(9);
for(int i = 0; i < sol1.size(); i++)
sol1[i] = i;
sol2[0] = 3;
sol2[1] = 4;
sol2[2] = 1;
sol2[3] = 0;
sol2[4] = 7;
sol2[5] = 6;
sol2[6] = 5;
sol2[7] = 8;
sol2[8] = 2;
std::cout << sol1 << std::endl;
std::cout << sol2 << std::endl;
eoPartiallyMappedXover<Solution> xover;
xover(sol1, sol2);
std::cout << "apres" << std::endl;
std::cout << sol1 << std::endl;
std::cout << sol2 << std::endl;
int verif[9];
for(int i = 0; i < sol1.size(); i++)
verif[i] = -1;
for(int i = 0; i < sol1.size(); i++)
verif[ sol1[i] ] = 1;
for(int i = 0; i < sol1.size(); i++)
assert(verif[i] != -1);
for(int i = 0; i < sol2.size(); i++)
verif[i] = -1;
for(int i = 0; i < sol2.size(); i++)
verif[ sol2[i] ] = 1;
for(int i = 0; i < sol2.size(); i++)
assert(verif[i] != -1);
std::cout << "[t-eoPartiallyMappedXover] => OK" << std::endl;
return EXIT_SUCCESS;
}

2
mo/src/algo/moRandomWalk.h
View file

@ -60,7 +60,7 @@ public:
*/
moRandomWalk(Neighborhood& _neighborhood, eoEvalFunc<EOT>& _fullEval, moEval<Neighbor>& _eval, unsigned _nbStepMax):
moLocalSearch<Neighbor>(explorer, iterCont, _fullEval),
iterCont(_nbStepMax),
iterCont(_nbStepMax, false),
explorer(_neighborhood, _eval)
{}

24
mo/src/continuator/moVectorMonitor.h
View file

@ -53,7 +53,7 @@ public:
* Constructor
* @param _param the parameter of type double to save in the vector
*/
moVectorMonitor(eoValueParam<double> & _param) : doubleParam(&_param), intParam(NULL), eotParam(NULL)
moVectorMonitor(eoValueParam<double> & _param) : doubleParam(&_param), intParam(NULL), intLongParam(NULL), eotParam(NULL)
{
// precision of the output by default
precisionOutput = std::cout.precision();
@ -63,7 +63,17 @@ public:
* Default Constructor
* @param _param the parameter of type unsigned int to save in the vector
*/
moVectorMonitor(eoValueParam<unsigned int> & _param) : doubleParam(NULL), intParam(&_param), eotParam(NULL)
moVectorMonitor(eoValueParam<unsigned int> & _param) : doubleParam(NULL), intParam(&_param), intLongParam(NULL), eotParam(NULL)
{
// precision of the output by default
precisionOutput = std::cout.precision();
}
/**
* Default Constructor
* @param _param the parameter of type unsigned int to save in the vector
*/
moVectorMonitor(eoValueParam<unsigned long> & _param) : doubleParam(NULL), intParam(NULL), intLongParam(&_param), eotParam(NULL)
{
// precision of the output by default
precisionOutput = std::cout.precision();
@ -73,7 +83,7 @@ public:
* Default Constructor
* @param _param the parameter of type EOT to save in the vector
*/
moVectorMonitor(eoValueParam<EOT> & _param) : doubleParam(NULL), intParam(NULL), eotParam(&_param)
moVectorMonitor(eoValueParam<EOT> & _param) : doubleParam(NULL), intParam(NULL), intLongParam(NULL), eotParam(&_param)
{
// precision of the output by default
precisionOutput = std::cout.precision();
@ -84,7 +94,7 @@ public:
* @param _param the parameter of type eoScalarFitness to save in the vector
*/
template <class ScalarType, class Compare>
moVectorMonitor(eoValueParam<eoScalarFitness<ScalarType, Compare> > & _param) : doubleParam( & (eoValueParam<double>&)_param), intParam(NULL), eotParam(NULL)
moVectorMonitor(eoValueParam<eoScalarFitness<ScalarType, Compare> > & _param) : doubleParam( & (eoValueParam<double>&)_param), intParam(NULL), intLongParam(NULL), eotParam(NULL)
{
// precision of the output by default
precisionOutput = std::cout.precision();
@ -95,7 +105,7 @@ public:
* @param _param unvalid Parameter
*/
template <class T>
moVectorMonitor(eoValueParam<T> & _param) : doubleParam(NULL), intParam(NULL), eotParam(NULL)
moVectorMonitor(eoValueParam<T> & _param) : doubleParam(NULL), intParam(NULL), intLongParam(NULL), eotParam(NULL)
{
std::cerr << "Sorry the type can not be in a vector of moVectorMonitor" << std::endl;
}
@ -120,6 +130,9 @@ public:
else
if (intParam != NULL)
valueVec.push_back((double) intParam->value());
else
if (intLongParam != NULL)
valueVec.push_back((double) intLongParam->value());
else
eotVec.push_back(eotParam->value());
return *this ;
@ -227,6 +240,7 @@ public:
protected:
eoValueParam<double> * doubleParam ;
eoValueParam<unsigned int> * intParam ;
eoValueParam<unsigned long> * intLongParam ;
eoValueParam<EOT> * eotParam ;
std::vector<double> valueVec;

32
mo/src/memory/moIndexedVectorTabuList.h
View file

@ -30,13 +30,19 @@ Contact: paradiseo-help@lists.gforge.inria.fr
#ifndef _moIndexedVectorTabuList_h
#define _moIndexedVectorTabuList_h
#include <utils/eoRndGenerators.h>
#include <memory/moTabuList.h>
#include <vector>
#include <iostream>
/**
*
* Tabu List of indexed neighbors save in a vector
* each neighbor can not used during howlong iterations
*
* The tabu tenure could be random between two bounds
* such as in robust tabu search
*
*/
template<class Neighbor >
class moIndexedVectorTabuList : public moTabuList<Neighbor>
@ -49,7 +55,17 @@ public:
* @param _maxSize maximum size of the tabu list
* @param _howlong how many iteration a move is tabu
*/
moIndexedVectorTabuList(unsigned int _maxSize, unsigned int _howlong) : maxSize(_maxSize), howlong(_howlong) {
moIndexedVectorTabuList(unsigned int _maxSize, unsigned int _howlong) : maxSize(_maxSize), howlong(_howlong), robust(false) {
tabuList.resize(_maxSize);
}
/**
* Constructor
* @param _maxSize maximum size of the tabu list
* @param _howlongMin minimal number of iterations during a move is tabu
* @param _howlongMax maximal number of iterations during a move is tabu
*/
moIndexedVectorTabuList(unsigned int _maxSize, unsigned int _howlongMin, unsigned int _howlongMax) : maxSize(_maxSize), howlongMin(_howlongMin), howlongMax(_howlongMax), robust(true) {
tabuList.resize(_maxSize);
}
@ -68,9 +84,14 @@ public:
* @param _neighbor the current neighbor
*/
virtual void add(EOT & _sol, Neighbor & _neighbor) {
if (_neighbor.index() < maxSize)
if (_neighbor.index() < maxSize) {
if (robust)
// random value between min and max
howlong = howlongMin + rng.random(howlongMax - howlongMin);
tabuList[_neighbor.index()] = howlong;
}
}
/**
* update the tabulist by decreasing the number of tabu iteration
@ -115,7 +136,12 @@ protected:
unsigned int maxSize;
//how many iteration a move is tabu
unsigned int howlong;
// Minimum number of iterations during a move is tabu
unsigned int howlongMin;
// Maximum number of iterations during a move is tabu
unsigned int howlongMax;
// true: robust tabu search way
bool robust;
};
#endif

1
mo/src/mo.h
View file

@ -190,6 +190,7 @@
//#include <problems/eval/moUBQPSimpleIncrEval.h>
//#include <problems/eval/moUBQPdoubleIncrEvaluation.h>
//#include <problems/eval/moUBQPBitsIncrEval.h>
#include <problems/eval/moNKlandscapesIncrEval.h>
#include <sampling/moAdaptiveWalkSampling.h>

16
mo/src/neighborhood/moIndexNeighbor.h
View file

@ -121,6 +121,22 @@ public:
return (key == _neighbor.index());
}
/**
* Write object with its index
* @param _os A std::ostream.
*/
virtual void printOn(std::ostream& _os) const {
if (this->invalid()) {
_os << "INVALID ";
}
else
{
_os << this->fitness() << ' ';
}
_os << key ;
}
protected:
// key allowing to describe the neighbor
unsigned int key;

2
mo/src/neighborhood/moRndWithoutReplNeighborhood.h
View file

@ -130,7 +130,7 @@ public:
return "moRndWithoutReplNeighborhood";
}
private:
protected:
unsigned int maxIndex;
std::vector<unsigned int> indexVector;
};

17
mo/src/perturb/moMonOpPerturb.h
View file

@ -50,7 +50,16 @@ public:
* @param _fullEval a full evaluation function
* @param _nbPerturbation number of operator executions for perturbation
*/
moMonOpPerturb(eoMonOp<EOT>& _monOp, eoEvalFunc<EOT>& _fullEval, unsigned int _nbPerturbation = 1):monOp(_monOp), fullEval(_fullEval), nbPerturbation(_nbPerturbation) {}
moMonOpPerturb(eoMonOp<EOT>& _monOp, eoEvalFunc<EOT>& _fullEval, unsigned int _nbPerturbation = 1):monOp(_monOp), fullEval(_fullEval), nbPerturbation(_nbPerturbation), rndPerturb(false) {}
/**
* Constructor with random value at each iteration of the number of perturbation moves
* @param _monOp an eoMonOp (pertubation operator)
* @param _fullEval a full evaluation function
* @param _nbPerturbationMin minimum number of operator executions for perturbation
* @param _nbPerturbationMax maximum number of operator executions for perturbation
*/
moMonOpPerturb(eoMonOp<EOT>& _monOp, eoEvalFunc<EOT>& _fullEval, unsigned int _nbPerturbationMin, unsigned int _nbPerturbationMax):monOp(_monOp), fullEval(_fullEval), nbPerturbationMin(_nbPerturbationMin), nbPerturbationMax(_nbPerturbationMax), rndPerturb(true) { }
/**
* Apply monOp on the solution
@ -60,6 +69,9 @@ public:
bool operator()(EOT& _solution) {
bool res = false;
if (rndPerturb)
nbPerturbation = nbPerturbationMin + rng.random(nbPerturbationMax - nbPerturbationMin);
for(unsigned int i = 0; i < nbPerturbation; i++)
res = monOp(_solution) || res;
@ -74,6 +86,9 @@ private:
eoMonOp<EOT>& monOp;
eoEvalFunc<EOT>& fullEval;
unsigned int nbPerturbation;
unsigned int nbPerturbationMin;
unsigned int nbPerturbationMax;
bool rndPerturb;
};
#endif

131
mo/src/problems/eval/moNKlandscapesIncrEval.h Normal file
View file

@ -0,0 +1,131 @@
/*
<moNKlandscapesIncrEval.h>
Copyright (C) DOLPHIN Project-Team, INRIA Lille - Nord Europe, 2006-2010
Sebastien Verel, Arnaud Liefooghe, Jeremie Humeau
This software is governed by the CeCILL license under French law and
abiding by the rules of distribution of free software. You can ue,
modify and/ or redistribute the software under the terms of the CeCILL
license as circulated by CEA, CNRS and INRIA at the following URL
"http://www.cecill.info".
In this respect, the user's attention is drawn to the risks associated
with loading, using, modifying and/or developing or reproducing the
software by the user in light of its specific status of free software,
that may mean that it is complicated to manipulate, and that also
therefore means that it is reserved for developers and experienced
professionals having in-depth computer knowledge. Users are therefore
encouraged to load and test the software's suitability as regards their
requirements in conditions enabling the security of their systems and/or
data to be ensured and, more generally, to use and operate it in the
same conditions as regards security.
The fact that you are presently reading this means that you have had
knowledge of the CeCILL license and that you accept its terms.
ParadisEO WebSite : http://paradiseo.gforge.inria.fr
Contact: paradiseo-help@lists.gforge.inria.fr
*/
#ifndef _moNKlandscapesIncrEval_H
#define _moNKlandscapesIncrEval_H
#include <eval/moEval.h>
#include <eval/nkLandscapesEval.h>
#include <vector>
/**
*
* Incremental evaluation function (1 bit flip, Hamming distance 1)
* for the NK-landscapes problem
*
*
*/
template< class Neighbor >
class moNKlandscapesIncrEval : public moEval<Neighbor>
{
public:
typedef typename Neighbor::EOT EOT;
/*
* Constructor
*
* @param _nk fitness function of the NK landscapes
*/
moNKlandscapesIncrEval(nkLandscapesEval<EOT> & _nk) : nk(_nk) {
inverseLinks = new std::vector<unsigned>[ nk.N ];
// compute the contributions which are modified by flipping one bit
for(unsigned int i = 0; i < nk.N; i++)
for(unsigned int j = 0; j < nk.K + 1; j++) {
inverseLinks[ nk.links[i][j] ].push_back(i);
}
}
/*
* Destructor
*
*/
~moNKlandscapesIncrEval() {
delete [] inverseLinks;
}
/*
* incremental evaluation of the neighbor for the oneMax problem
* @param _solution the solution to move (bit string)
* @param _neighbor the neighbor to consider (of type moBitNeigbor)
*/
virtual void operator()(EOT & _solution, Neighbor & _neighbor) {
unsigned bit = _neighbor.index() ;
unsigned sig, nonSig;
unsigned i;
double delta = 0 ;
for(unsigned int j = 0; j < inverseLinks[bit].size(); j++) {
i = inverseLinks[bit][j];
sigma(_solution, i, bit, sig, nonSig);
delta += nk.tables[i][nonSig] - nk.tables[i][sig];
}
_neighbor.fitness(_solution.fitness() + delta / (double) nk.N);
}
private:
// Original nk fitness function
nkLandscapesEval<EOT> & nk;
// give the list of contributions which are modified when the corresponding bit is flipped
std::vector<unsigned> * inverseLinks;
/**
* Compute the mask of the linked bits, and the mask when the bit is flipped
*
* @param _solution the solution to evaluate
* @param i the bit of the contribution
* @param _bit the bit to flip
* @param sig value of the mask of contribution i
* @param nonSig value of the mask of contribution i when the bit _bit is flipped
*/
void sigma(EOT & _solution, int i, unsigned _bit, unsigned & sig, unsigned & nonSig) {
sig = 0;
nonSig = 0;
unsigned int n = 1;
for(int j = 0; j < nk.K + 1; j++) {
if (_solution[ nk.links[i][j] ] == 1)
sig = sig | n;
if (nk.links[i][j] == _bit)
nonSig = n;
n = n << 1;
}
nonSig = sig ^ nonSig;
}
};
#endif

33
mo/src/problems/permutation/moIndexedSwapNeighbor.h
View file

@ -45,6 +45,33 @@ public:
using moIndexNeighbor<EOT>::key;
using moIndexNeighbor<EOT>::index;
/**
* Default Constructor
*/
moIndexedSwapNeighbor() : moIndexNeighbor<EOT, Fitness>() {
}
/**
* Copy Constructor
* @param _n the neighbor to copy
*/
moIndexedSwapNeighbor(const moIndexedSwapNeighbor<EOT, Fitness> & _n) : moIndexNeighbor<EOT, Fitness>(_n)
{
indices.first = _n.first();
indices.second = _n.second();
}
/**
* Assignment operator
* @param _source the source neighbor
*/
moIndexedSwapNeighbor<EOT, Fitness> & operator=(const moIndexedSwapNeighbor<EOT, Fitness> & _source) {
moIndexNeighbor<EOT, Fitness>::operator=(_source);
indices.first = _source.first();
indices.second = _source.second();
return *this;
}
/**
* Apply the swap
* @param _solution the solution to move
@ -111,7 +138,7 @@ public:
* Getter of the firt location
* @return first indice
*/
unsigned int first() {
unsigned int first() const {
return indices.first;
}
@ -119,11 +146,11 @@ public:
* Getter of the second location
* @return second indice
*/
unsigned int second() {
unsigned int second() const {
return indices.second;
}
private:
protected:
std::pair<unsigned int, unsigned int> indices;
};

1
mo/test/CMakeLists.txt
View file

@ -18,6 +18,7 @@ set (TEST_LIST
t-moOrderNeighborhood
t-moFullEvalByCopy
t-moFullEvalByModif
t-moNKlandscapesIncrEval
t-moNeighborComparator
t-moSolNeighborComparator
t-moTrueContinuator

89
mo/test/t-moNKlandscapesIncrEval.cpp Normal file
View file

@ -0,0 +1,89 @@
/*
<t-moNKlandscapesIncrEval.cpp>
Copyright (C) DOLPHIN Project-Team, INRIA Lille - Nord Europe, 2006-2010
Sébastien Verel, Arnaud Liefooghe, Jérémie Humeau
This software is governed by the CeCILL license under French law and
abiding by the rules of distribution of free software. You can use,
modify and/ or redistribute the software under the terms of the CeCILL
license as circulated by CEA, CNRS and INRIA at the following URL
"http://www.cecill.info".
As a counterpart to the access to the source code and rights to copy,
modify and redistribute granted by the license, users are provided only
with a limited warranty and the software's author, the holder of the
economic rights, and the successive licensors have only limited liability.
In this respect, the user's attention is drawn to the risks associated
with loading, using, modifying and/or developing or reproducing the
software by the user in light of its specific status of free software,
that may mean that it is complicated to manipulate, and that also
therefore means that it is reserved for developers and experienced
professionals having in-depth computer knowledge. Users are therefore
encouraged to load and test the software's suitability as regards their
requirements in conditions enabling the security of their systems and/or
data to be ensured and, more generally, to use and operate it in the
same conditions as regards security.
The fact that you are presently reading this means that you have had
knowledge of the CeCILL license and that you accept its terms.
ParadisEO WebSite : http://paradiseo.gforge.inria.fr
Contact: paradiseo-help@lists.gforge.inria.fr
*/
#include <ga/eoBit.h>
#include <eoInit.h>
#include <problems/bitString/moBitNeighbor.h>
#include <eval/nkLandscapesEval.h>
#include <problems/eval/moNKlandscapesIncrEval.h>
#include <cstdlib>
#include <cassert>
typedef eoBit<double> Solution;
typedef moBitNeighbor<double> Neighbor ;
int main() {
std::cout << "[t-moNKlandscapesIncrEval] => START" << std::endl;
// nk fitness function
int N = 18;
int K = 4;
rng.reseed(0); // random seed = 0
nkLandscapesEval<Solution> eval(N, K);
// init
eoUniformGenerator<bool> uGen;
eoInitFixedLength<Solution> init(N, uGen);
// verif constructor
moNKlandscapesIncrEval<Neighbor> neighborEval(eval);
Solution solution;
// random initialization
rng.reseed(1); // random seed = 1
init(solution);
// evaluation
eval(solution);
Neighbor n ;
n.index(0);
neighborEval(solution, n);
n.move(solution);
eval(solution);
// verif incremental eval
assert(solution.fitness() == n.fitness());
std::cout << "[t-moNKlandscapesIncrEval] => OK" << std::endl;
return EXIT_SUCCESS;
}

1
mo/tutorial/Lesson6/adaptiveWalks.cpp
View file

@ -85,6 +85,7 @@ void main_function(int argc, char **argv)
string str_out = "out.dat"; // default value
eoValueParam<string> outParam(str_out.c_str(), "out", "Output file of the sampling", 'o');
parser.processParam(outParam, "Persistence" );
str_out = outParam.value();
// the name of the "status" file where all actual parameter values will be saved
string str_status = parser.ProgramName() + ".status"; // default value

1
mo/tutorial/Lesson6/autocorrelation.cpp
View file

@ -89,6 +89,7 @@ void main_function(int argc, char **argv)
string str_out = "out.dat"; // default value
eoValueParam<string> outParam(str_out.c_str(), "out", "Output file of the sampling", 'o');
parser.processParam(outParam, "Persistence" );
str_out = outParam.value();
// the name of the "status" file where all actual parameter values will be saved
string str_status = parser.ProgramName() + ".status"; // default value

1
mo/tutorial/Lesson6/densityOfStates.cpp
View file

@ -83,6 +83,7 @@ void main_function(int argc, char **argv)
string str_out = "out.dat"; // default value
eoValueParam<string> outParam(str_out.c_str(), "out", "Output file of the sampling", 'o');
parser.processParam(outParam, "Persistence" );
str_out = outParam.value();
// the name of the "status" file where all actual parameter values will be saved
string str_status = parser.ProgramName() + ".status"; // default value

2
moeo/src/metric/moeoHyperVolumeMetric.h
View file

@ -83,7 +83,7 @@ class moeoHyperVolumeMetric : public moeoVectorUnaryMetric < ObjectiveVector , d
* @param _ref_point the reference point
* @param _bounds bounds value
*/
moeoHyperVolumeMetric(ObjectiveVector& _ref_point=NULL, std::vector < eoRealInterval >& _bounds=NULL): normalize(false), rho(0.0), ref_point(_ref_point), bounds(_bounds){}
moeoHyperVolumeMetric(ObjectiveVector& _ref_point, std::vector < eoRealInterval >& _bounds): normalize(false), rho(0.0), ref_point(_ref_point), bounds(_bounds){}
/**
* calculates and returns the HyperVolume value of a pareto front

2
moeo/src/selection/moeoRouletteSelect.h
View file

@ -80,7 +80,7 @@ class moeoRouletteSelect:public moeoSelectOne < MOEOT >
protected:
/** size */
double & tSize;
unsigned int & tSize;
};

2
moeo/src/utils/moeoBinaryMetricSavingUpdater.h
View file

@ -65,7 +65,7 @@ class moeoBinaryMetricSavingUpdater : public eoUpdater
* @param _filename the target filename
*/
moeoBinaryMetricSavingUpdater (moeoVectorVsVectorBinaryMetric < ObjectiveVector, double > & _metric, const eoPop < MOEOT > & _pop, std::string _filename) :
metric(_metric), pop(_pop), filename(_filename), counter(1), firstGen(true)
metric(_metric), pop(_pop), filename(_filename), firstGen(true), counter(1)
{}

67
problems/eval/nkLandscapesEval.h
View file

@ -31,6 +31,7 @@ Contact: paradiseo-help@lists.gforge.inria.fr
#define __nkLandscapesEval_H
#include <eoEvalFunc.h>
#include <fstream>
template< class EOT >
class nkLandscapesEval : public eoEvalFunc<EOT> {
@ -79,7 +80,7 @@ public:
*/
nkLandscapesEval(const char * _fileName)
{
string fname(_fileName);
std::string fname(_fileName);
load(fname);
};
@ -132,16 +133,16 @@ public:
*
* @param _fileName file name of the instance
*/
virtual void load(const string _fileName)
virtual void load(const std::string _fileName)
{
fstream file;
file.open(_fileName.c_str(), ios::in);
std::fstream file;
file.open(_fileName.c_str(), std::fstream::in);
if (file.is_open()) {
string s;
std::string s;
// Read the commentairies
string line;
std::string line;
file >> s;
while (s[0] == 'c') {
getline(file,line,'\n');
@ -150,14 +151,14 @@ public:
// Read the parameters
if (s[0] != 'p') {
string str = "nkLandscapesEval.load: -- p -- expected in [" + _fileName + "] at the begining." ;
throw runtime_error(str);
std::string str = "nkLandscapesEval.load: -- p -- expected in [" + _fileName + "] at the begining." ;
throw std::runtime_error(str);
}
file >> s;
if (s != "NK") {
string str = "nkLandscapesEval.load: -- NK -- expected in [" + _fileName + "] at the begining." ;
throw runtime_error(str);
std::string str = "nkLandscapesEval.load: -- NK -- expected in [" + _fileName + "] at the begining." ;
throw std::runtime_error(str);
}
// read parameters N and K
@ -166,22 +167,22 @@ public:
// read the links
if (s[0] != 'p') {
string str = "nkLandscapesEval.load: -- p -- expected in [" + _fileName + "] after the parameters N and K." ;
throw runtime_error(str);
std::string str = "nkLandscapesEval.load: -- p -- expected in [" + _fileName + "] after the parameters N and K." ;
throw std::runtime_error(str);
}
file >> s;
if (s == "links") {
loadLinks(file);
} else {
string str = "nkLandscapesEval.load: -- links -- expected in [" + _fileName + "] after the parameters N and K." ;
throw runtime_error(str);
std::string str = "nkLandscapesEval.load: -- links -- expected in [" + _fileName + "] after the parameters N and K." ;
throw std::runtime_error(str);
}
// lecture des tables
if (s[0] != 'p') {
string str = "nkLandscapesEval.load: -- p -- expected in [" + _fileName + "] after the links." ;
throw runtime_error(str);
std::string str = "nkLandscapesEval.load: -- p -- expected in [" + _fileName + "] after the links." ;
throw std::runtime_error(str);
}
file >> s;
@ -189,14 +190,14 @@ public:
if (s == "tables") {
loadTables(file);
} else {
string str = "nkLandscapesEval.load: -- tables -- expected in [" + _fileName + "] after the links." ;
throw runtime_error(str);
std::string str = "nkLandscapesEval.load: -- tables -- expected in [" + _fileName + "] after the links." ;
throw std::runtime_error(str);
}
file.close();
} else {
string str = "nkLandscapesEval.load: Could not open file [" + _fileName + "]." ;
throw runtime_error(str);
std::string str = "nkLandscapesEval.load: Could not open file [" + _fileName + "]." ;
throw std::runtime_error(str);
}
};
@ -206,7 +207,7 @@ public:
*
* @param file the file to read
*/
void loadLinks(fstream & file) {
void loadLinks(std::fstream & file) {
for(int j = 0; j < K+1; j++)
for(int i = 0; i < N; i++) {
file >> links[i][j];
@ -218,7 +219,7 @@ public:
*
* @param file the file to read
*/
void loadTables(fstream & file) {
void loadTables(std::fstream & file) {
for(int j = 0; j < (1<<(K+1)); j++)
for(int i = 0; i < N; i++)
file >> tables[i][j];
@ -230,29 +231,29 @@ public:
* @param _fileName the file name of instance
*/
virtual void save(const char * _fileName) {
fstream file;
file.open(_fileName, ios::out);
std::fstream file;
file.open(_fileName, std::fstream::out);
if (file.is_open()) {
file << "c name of the file : " << _fileName << endl;
file << "p NK " << N << " " << K <<endl;
file << "c name of the file : " << _fileName << std::endl;
file << "p NK " << N << " " << K <<std::endl;
file << "p links" << endl;
file << "p links" << std::endl;
for(int j=0; j<K+1; j++)
for(int i=0; i<N; i++)
file << links[i][j] << endl;
file << links[i][j] << std::endl;
file << "p tables" << endl;
file << "p tables" << std::endl;
for(int j=0; j<(1<<(K+1)); j++) {
for(int i=0; i<N; i++)
file << tables[i][j] << " ";
file << endl;
file << std::endl;
}
file.close();
} else {
string fname(_fileName);
string str = "nkLandscapesEval.save: Could not open file [" + fname + "]." ;
throw runtime_error(str);
std::string fname(_fileName);
std::string str = "nkLandscapesEval.save: Could not open file [" + fname + "]." ;
throw std::runtime_error(str);
}
};

6
smp/src/scheduler.cpp
View file

@ -68,15 +68,19 @@ void paradiseo::smp::Scheduler<EOT,Policy>::operator()(eoUF<EOT&, void>& func, e
}
}
if(nbIndi != 0) // Handle the offset if there is less individuals than workers
indice++;
for(unsigned i = 0; i < remaining; i++)
popPackages[i].push_back(&pop[indice+i+1]);
popPackages[i].push_back(&pop[indice+i]);
// Starting threads
for(unsigned i = 0; i < workers.size(); i++)
if(!popPackages[i].empty())
workers[i] = std::thread(&Scheduler<EOT,Policy>::applyLinearPolicy, this, std::ref(func), std::ref(popPackages[i]));
// Wait the end of tasks
for(unsigned i = 0; i < workers.size(); i++)
if(!popPackages[i].empty() && workers[i].joinable())
workers[i].join();
}