Ok, updated the Makefile.am again to use the
make check Command I picked up in the automake documentation (RTFM, you know) Tagged a lot of header functions in the GnuPlot files with 'inline', so they can be used from more than one sourcefile. Ok, now the interesting news. Started a new library libga (not to be confused with Matthew's GaLib). Here I suggest we put a fairly complete and configurable genetic algorithm. Just to see how far we can stretch ourselves and also to have a GA-componenent that can be used in other applications without having to rebuild the entire thing. test/t-eoGA.cpp tests this library
This commit is contained in:
maartenkeijzer
parent
9f5069b23a
commit
dea8a51f7e
12 changed files with 260 additions and 81 deletions
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@ -4,5 +4,11 @@
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##
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###############################################################################
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INCLUDES = -I$(top_builddir)/src
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lib_LIBRARIES = libga.a
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libga_a_SOURCES = ga.cpp
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CPPFLAGS = -O2 -Wall
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libeoincdir = $(includedir)/eo/ga
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libeoinc_HEADERS = eoBit.h eoBitOp.h eoBitOpFactory.h
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libeoinc_HEADERS = eoBit.h eoBitOp.h eoBitOpFactory.h ga.h
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91
eo/src/ga/ga.cpp
Normal file
91
eo/src/ga/ga.cpp
Normal file
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@ -0,0 +1,91 @@
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#include <eo>
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#include <ga/ga.h>
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eoValueParam<float> xoverRate(0.6f, "xoverrate", "The crossover rate", 'x');
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eoValueParam<float> mutRate(1.0f, "mutationrate", "The mutation rate", 'm');
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eoValueParam<unsigned> chromSize(unsigned(10), "chromosomeSize", "The length of the bitstrings", 'n');
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eoValueParam<unsigned> popSize(unsigned(20), "PopSize", "Population Size", 'P');
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template <class FitT>
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eoAlgo<eoBit<FitT> >& do_make_ga(eoParameterLoader& _parser, eoEvalFunc<eoBit<FitT> >& _eval, eoCheckPoint<eoBit<FitT> >& _checkpoint, eoState& _state)
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{
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typedef eoBit<FitT> EOT;
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_parser.processParam(xoverRate, "genetics");
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_parser.processParam(mutRate, "genetics");
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_parser.processParam(chromSize, "initialization");
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eoBitMutation<EOT>* mutOp = new eoBitMutation<EOT>(1. / float(chromSize.value()));
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_state.storeFunctor(mutOp);
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eo1PtBitXover<EOT>* crossOp = new eo1PtBitXover<EOT>;
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_state.storeFunctor(crossOp);
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eoSelectOne<EOT>* select = new eoDetTournamentSelect<EOT>(2);
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_state.storeFunctor(select);
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eoSGA<eoBit<FitT> >* sga = new eoSGA<EOT>(*select, *crossOp, xoverRate.value(), *mutOp, mutRate.value(), _eval, _checkpoint);
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_state.storeFunctor(sga);
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return *sga;
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}
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template <class FitT>
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eoPop<eoBit<FitT> >& do_init_ga(eoParameterLoader& _parser, eoState& _state, FitT)
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{
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typedef eoBit<FitT> EOT;
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_parser.processParam(chromSize, "initialization");
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_parser.processParam(popSize, "initialization");
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eoInitFixedLength<EOT, boolean_generator> init(chromSize.value(), boolean_generator());
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// Let the state handle the memory
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eoPop<EOT>& pop = _state.takeOwnership(eoPop<EOT>());
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_state.registerObject(pop);
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// initialize the population
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pop.append(popSize.value(), init);
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return pop;
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}
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template <class FitT>
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void do_run_ga(eoAlgo<eoBit<FitT> >& _ga, eoPop<eoBit<FitT> >& _pop)
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{
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_ga(_pop);
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}
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/// The following function merely call the templatized do_* functions above
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eoAlgo<eoBit<double> >& make_ga(eoParameterLoader& _parser, eoEvalFunc<eoBit<double> >& _eval, eoCheckPoint<eoBit<double> >& _checkpoint, eoState& _state)
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{
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return do_make_ga(_parser, _eval, _checkpoint, _state);
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}
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eoAlgo<eoBit<eoMinimizingFitness> >& make_ga(eoParameterLoader& _parser, eoEvalFunc<eoBit<eoMinimizingFitness> >& _eval, eoCheckPoint<eoBit<eoMinimizingFitness> >& _checkpoint, eoState& _state)
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{
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return do_make_ga(_parser, _eval, _checkpoint, _state);
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}
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eoPop<eoBit<double> >& init_ga(eoParameterLoader& _parser, eoState& _state, double _d)
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{
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return do_init_ga(_parser, _state, _d);
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}
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eoPop<eoBit<eoMinimizingFitness> >& init_ga(eoParameterLoader& _parser, eoState& _state, eoMinimizingFitness _d)
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{
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return do_init_ga(_parser, _state, _d);
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}
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void run_ga(eoAlgo<eoBit<double> >& _ga, eoPop<eoBit<double> >& _pop)
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{
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do_run_ga(_ga, _pop);
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}
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void run_ga(eoAlgo<eoBit<eoMinimizingFitness> >& _ga, eoPop<eoBit<eoMinimizingFitness> >& _pop)
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{
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do_run_ga(_ga, _pop);
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}
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24
eo/src/ga/ga.h
Normal file
24
eo/src/ga/ga.h
Normal file
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@ -0,0 +1,24 @@
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#ifndef ga_h
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#define ga_h
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#include <eoAlgo.h>
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#include <eoScalarFitness.h>
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#include <utils/eoParser.h>
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#include <eoEvalFunc.h>
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#include <utils/eoCheckPoint.h>
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#include <eoPop.h>
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#include <ga/eoBit.h>
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#include <ga/eoBitOp.h>
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eoAlgo<eoBit<double> >& make_ga(eoParameterLoader& _parser, eoEvalFunc<eoBit<double> >& _eval, eoCheckPoint<eoBit<double> >& _checkpoint, eoState& state);
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eoAlgo<eoBit<eoMinimizingFitness> >& make_ga(eoParameterLoader& _parser, eoEvalFunc<eoBit<eoMinimizingFitness> >& _eval, eoCheckPoint<eoBit<eoMinimizingFitness> >& _checkpoint, eoState& state);
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eoPop<eoBit<double> >& init_ga(eoParameterLoader& _parser, eoState& _state, double);
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eoPop<eoBit<eoMinimizingFitness> >& init_ga(eoParameterLoader& _parser, eoState& _state, eoMinimizingFitness);
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void run_ga(eoAlgo<eoBit<double> >& _ga, eoPop<eoBit<double> >& _pop);
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void run_ga(eoAlgo<eoBit<eoMinimizingFitness> >& _ga, eoPop<eoBit<eoMinimizingFitness> >& _pop);
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#endif
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@ -5,7 +5,7 @@
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###############################################################################
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INCLUDES = -I$(top_builddir)/src
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CPPFLAGS = -O2
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CPPFLAGS = -O2 -Wall
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lib_LIBRARIES = libeoutils.a
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libeoutils_a_SOURCES = eoParser.cpp eoRNG.cpp eoState.cpp eoUpdater.cpp eoFileMonitor.cpp eoStdoutMonitor.cpp
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@ -78,7 +78,7 @@ class eoGnuplot
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}
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protected:
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protected:
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void initGnuPlot(std::string _title, std::string _extra);
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// the private data
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bool firstTime; // the stats might be unknown in Ctor
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private:
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};
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// the following should be placed in a separate eoGnuplot.cpp
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// the following should be placed in a separate eoGnuplot.cpp
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static unsigned numWindow=0;
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////////////////////////////////////////////////////////////
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void eoGnuplot::initGnuPlot(std::string _title, std::string _extra)
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inline void eoGnuplot::initGnuPlot(std::string _title, std::string _extra)
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/////////////////////////////////////////////////////////
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{
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char snum[255];
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@ -103,7 +103,7 @@ void eoGnuplot::initGnuPlot(std::string _title, std::string _extra)
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args[1] = strdup( "-geometry" );
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args[2] = strdup( os.str() );
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args[3] = strdup( "-title" );
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args[4] = strdup( _title.c_str() );
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args[4] = strdup( _title.c_str() );
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args[5] = 0;
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gpCom = PipeComOpenArgv( "gnuplot", args );
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if( ! gpCom )
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@ -115,21 +115,21 @@ void eoGnuplot::initGnuPlot(std::string _title, std::string _extra)
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}
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}
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// the following should be placed in a separate file pipecom.c
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// together with the corresponding pipecom.h
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// but first their MSC equivalent must be written and tested
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// but first their MSC equivalent must be written and tested
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// or some #idef instructions put with clear message at compile time
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// that this is for Unix only ???
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/* ----------------------------------------------------------------------
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* Where........: CMAP - Polytechnique
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* Where........: CMAP - Polytechnique
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* File.........: pipecom.c
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* Author.......: Bertrand Lamy (Equipe genetique)
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* Created......: Mon Mar 13 13:50:11 1995
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* Description..: Communication par pipe bidirectionnel avec un autre process
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*
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* Ident........: $Id: eoGnuplot.h,v 1.2 2001-02-01 05:17:16 evomarc Exp $
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*
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* Ident........: $Id: eoGnuplot.h,v 1.3 2001-02-12 13:58:51 maartenkeijzer Exp $
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* ----------------------------------------------------------------------
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*/
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@ -142,7 +142,7 @@ void eoGnuplot::initGnuPlot(std::string _title, std::string _extra)
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// #include "pipecom.h"
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int Check( PCom *com )
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inline int Check( PCom *com )
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{
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if( ! com ) {
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fprintf( stderr, "PipeCom: Null pointer.\n" );
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@ -158,16 +158,16 @@ int Check( PCom *com )
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}
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PCom * PipeComOpen( char *prog )
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inline PCom * PipeComOpen( char *prog )
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{
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char *args[2];
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args[0] = prog;
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args[1] = NULL;
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return PipeComOpenArgv( prog, args );
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return PipeComOpenArgv( prog, args );
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}
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PCom * PipeComOpenArgv( char *prog, char *argv[] )
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inline PCom * PipeComOpenArgv( char *prog, char *argv[] )
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{
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int toFils[2];
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int toPere[2];
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@ -188,7 +188,7 @@ PCom * PipeComOpenArgv( char *prog, char *argv[] )
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perror("PipeComOpen: fork failed" );
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return ret;
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break;
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case 0:
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/* --- Here's the son --- */
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/* --- replace old stdin --- */
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@ -197,7 +197,7 @@ PCom * PipeComOpenArgv( char *prog, char *argv[] )
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exit( -1 );
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/* --- AVOIR: kill my father --- */
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}
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if( dup2( toPere[1], fileno(stdout) ) < 0 ) {
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if( dup2( toPere[1], fileno(stdout) ) < 0 ) {
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perror( "PipeComOpen(son): could not connect" );
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exit( -1 );
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}
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@ -211,7 +211,7 @@ PCom * PipeComOpenArgv( char *prog, char *argv[] )
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ret = (PCom *) malloc( sizeof(PCom) );
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if( ! ret )
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return NULL;
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ret->fWrit = (FILE *)fdopen( toFils[1], "w" );
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ret->fRead = (FILE *)fdopen( toPere[0], "r" );
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ret->pid = sonPid;
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@ -220,7 +220,7 @@ PCom * PipeComOpenArgv( char *prog, char *argv[] )
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}
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int PipeComSend( PCom *to, const char *line )
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inline int PipeComSend( PCom *to, const char *line )
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{
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int nb = 0;
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if( ! Check(to ) )
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@ -231,10 +231,10 @@ int PipeComSend( PCom *to, const char *line )
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}
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int PipeComSendn( PCom *to, const char *data, int n )
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inline int PipeComSendn( PCom *to, const char *data, int n )
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{
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int nb = 0;
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if( ! Check(to) )
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if( ! Check(to) )
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return nb;
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nb = fwrite( data, 1, n, to->fWrit );
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@ -243,9 +243,9 @@ int PipeComSendn( PCom *to, const char *data, int n )
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}
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int PipeComReceive( PCom *from, char *data, int max )
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inline int PipeComReceive( PCom *from, char *data, int max )
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{
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if( ! Check(from) )
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if( ! Check(from) )
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return 0;
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if( ! data ) {
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fprintf( stderr, "PipeComReceive: Invalid data pointer\n" );
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@ -259,7 +259,7 @@ int PipeComReceive( PCom *from, char *data, int max )
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int PipeComClose( PCom *to )
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inline int PipeComClose( PCom *to )
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{
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if( ! Check(to) )
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return 0;
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@ -271,7 +271,7 @@ int PipeComClose( PCom *to )
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int PipeComWaitFor( PCom *from, char *what )
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inline int PipeComWaitFor( PCom *from, char *what )
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{
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char buffer[256];
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do {
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@ -48,34 +48,34 @@ This class plots through gnuplot the eoStat given as argument
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/** eoGnuplot1DMonitor plots stats through gnuplot
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* assumes that the same file is appened every so and so,
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* assumes that the same file is appened every so and so,
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* and replots it everytime
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*/
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class eoGnuplot1DMonitor: public eoFileMonitor, public eoGnuplot
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{
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public:
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// Ctor
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eoGnuplot1DMonitor(std::string _filename, bool _top=false) :
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eoFileMonitor(_filename, " "),
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eoGnuplot1DMonitor(std::string _filename, bool _top=false) :
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eoFileMonitor(_filename, " "),
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eoGnuplot(_filename,(_top?"":"set key bottom"))
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{}
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// Dtor
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virtual ~eoGnuplot1DMonitor(){}
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virtual eoMonitor& operator() (void) ;
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virtual void FirstPlot();
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virtual void FirstPlot();
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/// Class name.
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virtual string className() const { return "eoGnuplot1DMonitor"; }
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private:
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private:
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};
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// the following should be placed in a separate eoGnuplot1DMonitor.cpp
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// the following should be placed in a separate eoGnuplot1DMonitor.cpp
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// then the inline specifier should dissappear
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////////////////////////////////////////////////////////////
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eoMonitor& eoGnuplot1DMonitor::operator() (void)
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inline eoMonitor& eoGnuplot1DMonitor::operator() (void)
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/////////////////////////////////////////////////////////
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{
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// update file using the eoFileMonitor
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@ -98,10 +98,10 @@ eoMonitor& eoGnuplot1DMonitor::operator() (void)
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}
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////////////////////////////////////////////////////////////
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void eoGnuplot1DMonitor::FirstPlot()
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inline void eoGnuplot1DMonitor::FirstPlot()
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////////////////////////////////////////////////////////
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{
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if (vec.size() < 2)
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if (vec.size() < 2)
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{
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throw runtime_error("Must have some stats to plot!\n");
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}
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@ -118,5 +118,5 @@ void eoGnuplot1DMonitor::FirstPlot()
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os << '\0';
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PipeComSend( gpCom, buff );
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}
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#endif _eoGnuplot1DMonitor_H
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|
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@ -81,7 +81,7 @@ private:
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// the following should be placed in a separate eoGnuplot1DMonitor.cpp
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////////////////////////////////////////////////////////////
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eoMonitor& eoGnuplot1DSnapshot::operator() (void)
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inline eoMonitor& eoGnuplot1DSnapshot::operator() (void)
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/////////////////////////////////////////////////////////
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{
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// update file using the eoFileMonitor
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|
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@ -3,7 +3,7 @@
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//-----------------------------------------------------------------------------
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// eoState.h
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// (c) Marc Schoenauer, Maarten Keijzer and GeNeura Team, 2000
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/*
|
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/*
|
||||
This library is free software; you can redistribute it and/or
|
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modify it under the terms of the GNU Lesser General Public
|
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License as published by the Free Software Foundation; either
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@ -32,6 +32,8 @@
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#include <map>
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#include <vector>
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#include <eoFunctorStore.h>
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|
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class eoObject;
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class eoPersistent;
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@ -40,7 +42,7 @@ class eoPersistent;
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* then in turn implement the persistence framework through members load
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* and save, that will call readFrom and printOn for the registrated objects.
|
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*/
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class eoState
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class eoState
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{
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public :
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|
|
@ -54,7 +56,7 @@ public :
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void registerObject(eoPersistent& registrant);
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/**
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* Copies the object (MUST be derived from eoPersistent)
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* Copies the object (MUST be derived from eoPersistent)
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* and returns a reference to the owned object.
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* Note: it does not register the object, this must be done afterwards!
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*/
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@ -65,7 +67,13 @@ public :
|
|||
ownedObjects.push_back(new T(persistent));
|
||||
return static_cast<T&>(*ownedObjects.back());
|
||||
}
|
||||
|
||||
|
||||
void storeFunctor(eoFunctorBase* _functor)
|
||||
{
|
||||
// add it to the functorStore, fo
|
||||
functorStore.add(_functor);
|
||||
}
|
||||
|
||||
/**
|
||||
* Loading error thrown when nothing seems to work.
|
||||
*/
|
||||
|
|
@ -82,21 +90,21 @@ public :
|
|||
* @param _filename the name of the file to load from
|
||||
*/
|
||||
void load(const std::string& _filename);
|
||||
|
||||
|
||||
/**
|
||||
* Reads the file specified
|
||||
*
|
||||
* @param is the stream to load from
|
||||
*/
|
||||
void load(std::istream& is);
|
||||
|
||||
|
||||
/**
|
||||
* Saves the state in file specified
|
||||
*
|
||||
* @param _filename the name of the file to save into
|
||||
*/
|
||||
void save(const std::string& _filename) const;
|
||||
|
||||
|
||||
/**
|
||||
* Saves the state in file specified
|
||||
*
|
||||
|
|
@ -109,13 +117,15 @@ private :
|
|||
|
||||
// first is Persistent, second is the raw data associated with it.
|
||||
typedef std::map<std::string, eoPersistent*> ObjectMap;
|
||||
|
||||
|
||||
ObjectMap objectMap;
|
||||
|
||||
std::vector<ObjectMap::iterator> creationOrder;
|
||||
|
||||
std::vector<eoPersistent*> ownedObjects;
|
||||
|
||||
// And a functor store to boot
|
||||
eoFunctorStore functorStore;
|
||||
|
||||
// private copy and assignment as eoState is supposed to be unique
|
||||
eoState(const eoState&);
|
||||
eoState& operator=(const eoState&);
|
||||
|
|
|
|||
Reference in a new issue