virtual void operator()( EOT & x )
{
if( x.invalid() ) { return; }
double sum = 0;
int sign = 1;
for( unsigned int i=0, s=x.size(); i<s; ++i ) {
sum += x[i] * x[i];
sign *= x[i]<0 ? -1 : 1;
}
x.fitness( std::make_pair( sum, sign>0 ? true : false ) );
}
void operator()(EOT& _eo)
{
if (_eo.invalid())
{
double a1 = _eo[ 0 ];
double a2 = _eo[ 1 ];
double a3 = _eo[ 3 ];
double a4 = _eo[ 4 ];
double a5 = _eo[ 5 ];
double chi2 = 0.0;
size_t N = min3( m_x1.size() , m_x2.size() , m_y.size() );
for( size_t i=0 ; i<N ; ++i )
{
double x1 = m_x1[i] , x2 = m_x2[i];
double val = a1 * ( x1*x1 + x2*x2 ) + a2 * cos( a3 * x1 + a4 ) + a5;
chi2 += ( val - m_y[i] ) * ( val - m_y[i] );
}
_eo.fitness( chi2 );
}
}
int main(void)
{
EOT sol;
sol.push_back(1.1);
sol.push_back(1.1);
sol.push_back(3.9);
sol.push_back(3.9);
sol.push_back(5.4);
sol.push_back(5.6);
sol.push_back(7.011);
sol.push_back(8.09);
sol.push_back(8.21);
std::cout << "expect: INVALID 9 1 2 3 4 5 6 7 8.1 8.2" << std::endl;
edoRepairer<EOT>* rep1 = new edoRepairerFloor<EOT>();
edoRepairer<EOT>* rep2 = new edoRepairerCeil<EOT>();
edoRepairer<EOT>* rep3 = new edoRepairerRound<EOT>();
edoRepairer<EOT>* rep4 = new edoRepairerRoundDecimals<EOT>( 10 );
std::vector<unsigned int> indexes1;
indexes1.push_back(0);
indexes1.push_back(2);
std::vector<unsigned int> indexes2;
indexes2.push_back(1);
indexes2.push_back(3);
std::vector<unsigned int> indexes3;
indexes3.push_back(4);
indexes3.push_back(5);
std::vector<unsigned int> indexes4;
indexes4.push_back(6);
indexes4.push_back(7);
indexes4.push_back(8);
edoRepairerDispatcher<EOT> repare( indexes1, rep1 );
repare.add( indexes2, rep2 );
repare.add( indexes3, rep3 );
repare.add( indexes4, rep4 );
repare(sol);
std::cout << sol << std::endl;
return 0;
}
int main(int argc, char *argv[])
{
/******************************
* Initialisation de MPI + EO *
******************************/
environment env(argc, argv);
communicator world;
eoParser parser(argc, argv);
eoState state; // keeps all things allocated
/*****************************
* Definition des paramètres *
*****************************/
// a
double alpha = parser.createParam(double(0.8), "alpha", "Alpha", 'a', "Islands Model").value();
// b
double beta = parser.createParam(double(0.99), "beta", "Beta", 'b', "Islands Model").value();
// p
/*size_t probaMin = */parser.createParam(size_t(10), "probaMin", "Minimum probability to stay in the same island", 'p', "Islands Model").value();
// d
size_t probaSame = parser.createParam(size_t(100), "probaSame", "Probability for an individual to stay in the same island", 'd', "Islands Model").value();
// r
/*size_t reward = */parser.createParam(size_t(2), "reward", "reward", 'r', "Islands Model").value();
/*size_t penalty = */parser.createParam(size_t(1), "penalty", "penalty", 0, "Islands Model").value();
// I
bool initG = parser.createParam(bool(true), "initG", "initG", 'I', "Islands Model").value();
/****************************
* Il faut au moins 4 nœuds *
****************************/
const size_t ALL = world.size();
const size_t RANK = world.rank();
if ( ALL < 4 )
{
if ( 0 == RANK )
{
cerr << "Needs at least 4 processes to be launched!" << endl;
}
return 0;
}
/*********************************
* Déclaration des composants EO *
*********************************/
unsigned chromSize = parser.getORcreateParam(unsigned(1000), "chromSize", "The length of the bitstrings", 'n',"Problem").value();
eoInit<EOT>& init = dim::do_make::genotype(parser, state, EOT(), 0);
// string nklInstance = parser.getORcreateParam(string(), "nklInstance", "filename of the instance for NK-L problem", 0, "Problem").value();
dim::evaluation::OneMax<EOT> mainEval;
// my::nkLandscapesEval<EOT> mainEval;
eoEvalFuncCounter<EOT> eval(mainEval);
/*unsigned popSize = */parser.getORcreateParam(unsigned(100), "popSize", "Population Size", 'P', "Evolution Engine")/*.value()*/;
dim::core::Pop<EOT>& pop = dim::do_make::pop(parser, state, init);
/*double targetFitness = */parser.getORcreateParam(double(chromSize), "targetFitness", "Stop when fitness reaches",'T', "Stopping criterion")/*.value()*/;
dim::continuator::Base<EOT>& continuator = dim::do_make::continuator<EOT>(parser, state, eval);
vector< double > vecProba( ALL );
vector< double > vecProbaRet( ALL );
dim::core::IslandData<EOT> data;
dim::utils::CheckPoint<EOT>& checkpoint = dim::do_make::checkpoint(parser, state, continuator, data);
/****************************************
* Distribution des opérateurs aux iles *
****************************************/
eoMonOp<EOT>* ptMon = NULL;
if ( RANK == 0 )
{
eo::log << eo::logging << RANK << ": bitflip ";
ptMon = new eoBitMutation<EOT>( 1, true );
}
else
{
eo::log << eo::logging << RANK << ": kflip(" << (RANK-1) * 2 + 1 << ") ";
ptMon = new eoDetPermutBitFlip<EOT>( (RANK-1) * 2 + 1 );
}
eo::log << eo::logging << endl;
eo::log.flush();
state.storeFunctor(ptMon);
dim::evolver::Easy<EOT> evolver( eval, *ptMon );
dim::feedbacker::Easy<EOT> feedbacker;
dim::inputprobasender::Easy<EOT> probasender;
dim::vectorupdater::Easy<EOT> updater(alpha, beta);
dim::memorizer::Easy<EOT> memorizer;
dim::migrator::Easy<EOT> migrator;
dim::algo::EasyIsland<EOT> island( evolver, feedbacker, probasender, updater, memorizer, migrator, checkpoint );
/**************
* EO routine *
**************/
make_parallel(parser);
make_verbose(parser);
make_help(parser);
// mainEval.load(nklInstance.c_str()); // nklandscapeseval specific
/******************************************************************************
* Création de la matrice de transition et distribution aux iles des vecteurs *
******************************************************************************/
dim::core::MigrationMatrix probabilities( ALL );
dim::core::InitMatrix initmatrix( initG, probaSame );
// ublas::matrix< double > m(ALL, ALL);
if ( 0 == RANK )
{
initmatrix( probabilities );
cout << probabilities;
vecProba = probabilities(RANK);
for (size_t j = 0; j < ALL; ++j)
{
vecProbaRet[j] = probabilities(j,RANK);
}
for (size_t i = 1; i < ALL; ++i)
{
world.send( i, 100, probabilities(i) );
vector< double > vecProbaRetIsl( ALL );
for (size_t j = 0; j < ALL; ++j)
{
vecProbaRetIsl[j] = probabilities(j,i);
}
world.send( i, 101, vecProbaRetIsl );
}
}
else
{
world.recv( 0, 100, vecProba );
world.recv( 0, 101, vecProbaRet );
}
/******************************************
* Get the population size of all islands *
******************************************/
world.barrier();
dim::utils::print_sum(pop);
/***************
* Rock & Roll *
***************/
apply<EOT>(eval, pop);
for (auto &ind : pop)
{
ind.addIsland(RANK);
}
vector< typename EOT::Fitness > vecAvg(ALL, 0);
vector< typename EOT::Fitness > vecFeedbacks(ALL, 0);
vector< size_t > outputSizes(ALL, 0);
// ostringstream ss;
// ss << "gen.time." << RANK;
// ofstream gen_time(ss.str());
// ss.str("");
// ss << "fb.time." << RANK;
// ofstream fb_time(ss.str());
// ss.str("");
// ss << "vp.time." << RANK;
// ofstream vp_time(ss.str());
// ss.str("");
// ss << "mig.time." << RANK;
// ofstream mig_time(ss.str());
// ss.str("");
// ss << "eval.time." << RANK;
// ofstream eval_time(ss.str());
// ss.str("");
// ss << "com.time." << RANK;
// ofstream com_time(ss.str());
// ss.str("");
// ss << "noncom.time." << RANK;
// ofstream noncom_time(ss.str());
// ss.str("");
long elapsed_mean = 0;
long elapsed_sum = 0;
long n = 0;
// island( pop );
while ( checkpoint(pop) )
{
auto gen_start = chrono::system_clock::now();
long com_elapsed = 0;
/**************************************************
* Initialize a few variables for each generation *
**************************************************/
eval.value(0);
vector< request > reqs;
/**********
* Evolve *
**********/
{
// auto start = chrono::system_clock::now();
for (auto &ind : pop)
{
EOT candidate = ind;
(*ptMon)( candidate );
candidate.invalidate();
eval( candidate );
if ( candidate.fitness() > ind.fitness() )
{
ind = candidate;
}
}
// auto end = chrono::system_clock::now();
//long elapsed = chrono::duration_cast<chrono::microseconds>(end-start).count();
// eval_time << elapsed << " "; eval_time.flush();
// cout << "eval elapsed microseconds: " << elapsed << endl; cout.flush();
}
/************************************************
* Send feedbacks back to all islands (ANALYSE) *
************************************************/
{
auto start = chrono::system_clock::now();
vector<typename EOT::Fitness> sums(ALL, 0);
vector<int> nbs(ALL, 0);
for (auto &ind : pop)
{
sums[ind.getLastIsland()] += ind.fitness() - ind.getLastFitness();
++nbs[ind.getLastIsland()];
}
for (size_t i = 0; i < ALL; ++i)
{
if (i == RANK) {
continue;
}
reqs.push_back( world.isend( i, FEEDBACKS, nbs[i] > 0 ? sums[i] / nbs[i] : 0 ) );
}
/**************************************
* Receive feedbacks from all islands *
**************************************/
for (size_t i = 0; i < ALL; ++i)
{
if (i == RANK) {
continue;
}
reqs.push_back( world.irecv( i, FEEDBACKS, vecFeedbacks[i] ) );
}
vecFeedbacks[RANK] = nbs[RANK] > 0 ? sums[RANK] / nbs[RANK] : 0;
/****************************
* Process all MPI requests *
****************************/
wait_all( reqs.begin(), reqs.end() );
reqs.clear();
auto end = chrono::system_clock::now();
long elapsed = chrono::duration_cast<chrono::microseconds>(end-start).count();
// fb_time << elapsed << " "; fb_time.flush();
com_elapsed += elapsed;
}
/***********************************
* Send vecProbaRet to all islands *
***********************************/
{
auto start = chrono::system_clock::now();
for (size_t i = 0; i < ALL; ++i)
{
if (i == RANK) {
continue;
}
reqs.push_back( world.isend( i, 5, vecProba[i] ) );
}
/**************************************
* Receive vecProbaRet from all islands *
**************************************/
for (size_t i = 0; i < ALL; ++i)
{
if (i == RANK) {
continue;
}
reqs.push_back( world.irecv( i, 5, vecProbaRet[i] ) );
}
vecProbaRet[RANK] = vecProba[RANK];
/****************************
* Process all MPI requests *
****************************/
wait_all( reqs.begin(), reqs.end() );
reqs.clear();
auto end = chrono::system_clock::now();
long elapsed = chrono::duration_cast<chrono::microseconds>(end-start).count();
// vp_time << elapsed << " "; vp_time.flush();
com_elapsed += elapsed;
}
/******************************************************************
* Memorize last fitness and island of population before evolving *
******************************************************************/
for (auto &indi : pop)
{
indi.addFitness();
indi.addIsland(RANK);
}
/***********************************
* Send individuals to all islands *
***********************************/
{
auto start = chrono::system_clock::now();
{
vector< dim::core::Pop<EOT> > pops( ALL );
/*************
* Selection *
*************/
for (auto &indi : pop)
{
double s = 0;
int r = rng.rand() % 1000 + 1;
size_t j;
for ( j = 0; j < ALL && r > s; ++j )
{
s += vecProba[j];
}
--j;
pops[j].push_back(indi);
}
size_t outputSize = 0;
for (size_t i = 0; i < ALL; ++i)
{
if (i == RANK) {
continue;
}
outputSizes[i] = pops[i].size();
outputSize += pops[i].size();
}
pop.setOutputSizes( outputSizes );
pop.setOutputSize( outputSize );
pop.clear();
for ( size_t i = 0; i < ALL; ++i )
{
if (i == RANK) {
continue;
}
reqs.push_back( world.isend( i, INDIVIDUALS, pops[i] ) );
}
dim::core::Pop<EOT>& newpop = pops[RANK];
for (auto &indi : newpop)
{
pop.push_back( indi );
}
}
vector< dim::core::Pop<EOT> > pops( ALL );
/****************************************
* Receive individuals from all islands *
****************************************/
{
for (size_t i = 0; i < ALL; ++i)
{
if (i == RANK) {
continue;
}
reqs.push_back( world.irecv( i, INDIVIDUALS, pops[i] ) );
}
}
/****************************
* Process all MPI requests *
****************************/
wait_all( reqs.begin(), reqs.end() );
reqs.clear();
auto end = chrono::system_clock::now();
long elapsed = chrono::duration_cast<chrono::microseconds>(end-start).count();
// mig_time << elapsed << " "; mig_time.flush();
com_elapsed += elapsed;
/*********************
* Update population *
*********************/
{
size_t inputSize = 0;
for (size_t i = 0; i < ALL; ++i)
{
if (i == RANK) {
continue;
}
dim::core::Pop<EOT>& newpop = pops[i];
for (auto &indi : newpop)
{
pop.push_back( indi );
}
inputSize += newpop.size();
}
pop.setInputSize( inputSize );
}
}
auto gen_end = chrono::system_clock::now();
long elapsed_microseconds = chrono::duration_cast<chrono::microseconds>(gen_end-gen_start).count();
// gen_time << elapsed_microseconds << " "; gen_time.flush();
// com_time << com_elapsed << " "; com_time.flush();
// noncom_time << elapsed_microseconds - com_elapsed << " "; noncom_time.flush();
++n;
elapsed_mean += (elapsed_microseconds - elapsed_mean) / n;
elapsed_sum += elapsed_microseconds;
// cout << "generation elapsed microseconds: " << chrono::duration_cast<chrono::microseconds>(gen_end-gen_start).count()
// << " mean: " << elapsed_mean
// << " sum: " << elapsed_sum
// << endl; cout.flush();
}
world.abort(0);
// /*************************************************************************
// * MAJ de la matrice de transition et récupération des vecteurs des iles *
// *************************************************************************/
// world.barrier();
// if ( RANK > 0 )
// {
// world.send( 0, 0, vecProba );
// }
// else
// {
// for (int i = 1; i < ALL; ++i)
// {
// vector<double> proba(ALL);
// world.recv( i, 0, proba );
// for (int j = 0; j < proba.size(); ++j)
// {
// probabilities(i,j) = proba[j];
// }
// }
// for (int j = 0; j < vecProba.size(); ++j)
// {
// probabilities(0,j) = vecProba[j];
// }
// cout << probabilities;
// cout.flush();
// }
/******************************************
* Get the population size of all islands *
******************************************/
// world.barrier();
// dim::utils::print_sum(pop);
/*********
* DEBUG *
*********/
// world.barrier();
// eo::log << eo::progress;
// copy(vecAvg.begin(), vecAvg.end(), ostream_iterator<typename EOT::Fitness>(eo::log, " "));
// eo::log << endl; eo::log.flush();
return 0;
}
void operator()(EOT& sol)
{
sol.fitness( 0 );
}
void operator()(EOT& sol)
{
sol.fitness( sol.fitness() + _fit );
}