%ga
clear all;
close all;
global rin yout timef
Size=30;
CodeL=3;
MinX(1)=zeros(1);
MaxX(1)=20*ones(1);
MinX(2)=zeros(1);
MaxX(2)=1.0*ones(1);
MinX(3)=zeros(1);
MaxX(3)=1.0*ones(1);
Kpid(:,1)=MinX(1)+(MaxX(1)-MinX(1))*rand(Size,1);
Kpid(:,2)=MinX(2)+(MinX(2)-MaxX(2))*rand(Size,1);
Kpid(:,3)=MinX(3)+(MaxX(3)-MinX(3))*rand(Size,1);
G=100;
BsJ=0;
%-----start running------
for kg=1:1:G
    time(kg)=kg;
%-----step1:Evaluate BestJ----
for i=1:1:Size
    Kpidi=Kpid(i,:);
[Kpidi,BsJ]=chap5_2f(Kpidi,BsJ);%Call the function 
BsJi(i)=BsJ;
end
[OderJi,IndexJi]=sort(BsJi);
BestJ(kg)=OderJi(1);
BJ=BestJ(kg);
Ji=BsJi+1e-10;%avoiding deviding zero
fi=1./Ji;
%Cm=max(Ji);
%fi=Cm-Ji;
[Oderfi,Indexfi]=sort(fi);%arranging fi small to bigger
Bestfi=Oderfi(Size);%Let Bestfi=max(fi)
BestS=Kpid(Indexfi(Size),:);%let bests=e(m),m is the indexfi belong to max(fi)
kg
BJ
BestS
%-----selection------
fi_sum=sum(fi);
fi_Size=(Oderfi/fi_sum)*Size;
fi_S=floor(fi_Size);%Selecting bigger fi value
r=Size-sum(fi_S);
Rest=fi_Size-fi_S;
[RestValue,Index]=sort(Rest);
for i=Size:-1:Size-r+1
    fi_S(Index(i))=fi_S(Index(i))+1;%adding rest to equal size 
end
k=1;
for i=Size:-1:1%select the sizeth and reproduce firstly
    for j=1:1:fi_S(i)
        TempE(k,:)=Kpid(Indexfi(i),:);%select and reproduce
        k=k+1;%k is used to reproduce
    end
end
%--------------------crossover opration----------------
Pc=0.90;
for i=1:2:(Size-1)
    temp=rand;
    if Pc>temp%crossover condition
        alfa=rand;
        TempE(i,:)=alfa*Kpid(i+1,:)+(1-alfa)*Kpid(i,:);
        TempE(i+1,:)=alfa*Kpid(i,:)+(i-alfa)*Kpid(i+1,:);
    end
end
TempE(Size,:)=BestS;
kpid=TempE
%------------mutation operation-----------------
Pm=0.10-[1:1:Size]*(0.01)/Size;%bigger fi smaller pm
Pm_rand=rand(Size,CodeL);
Mean=(MaxX+MinX)/2;
Dif=(MaxX-MinX);
for i=1:1:Size
    for j=1:1:CodeL
        if Pm(i)>Pm_rand(i,j)%mutation condition
            TempE(i,j)=Mean(j)+Dif(j)*(rand-0.5);
        end
    end
end
%guarantee TempE(Size,:) belong to the best individual
TempE(Size,:)=BestS;
Kpid=TempE;
end
Bestfi
BestS
Best_J=BestJ(G)
figure(1);
plot(time,BestJ);
xlabel('Time');ylabel('Best J');
figure(2);
plot(timef,rin,'r',timef,yout,'b');
xlabel('Time(s)');
ylabel('rin,yout');