% Extract daily SST, SSS, SSH, and KPPhbl

% define desired region
region_name='IndoPac';
minlat=-30;
maxlat=35;
minlon=19;
maxlon=300;

% extract indices for desired region
nx=4320;
prec='real*4';
gdir='~dmenemen/llc_4320/grid/';
fnam=[gdir 'Depth.data'];
[tmp fc ix jx] = ...
    quikread_llc(fnam,nx,1,prec,gdir,minlat,maxlat,minlon,maxlon);
m(1)=0;
for f=1:length(fc)
    m(f+1)=length(ix{fc(f)});
end
n=length(jx{fc(1)});
fld=zeros(sum(m),n);
for f=1:length(fc)
    fld((sum(m(1:f))+1):sum(m(1:(f+1))),:)=tmp{fc(f)};
end
quikpcolor(fld')

% Get and save grid information
close all
pin='~dmenemen/llc_4320/grid/';
pout=['~dmenemen/llc_4320/regions/' region_name '/grid/'];
eval(['mkdir ' pout])
eval(['cd ' pout])
for fnm={'AngleCS','AngleSN','DXC','DXG','DYC','DYG','Depth', ...
         'RAC','RAS','RAW','RAZ','U2zonDir','V2zonDir', ...
         'XC','XG','YC','YG','hFacC','hFacS','hFacW'}
    fin=[pin fnm{1} '.data'];
    fout=[fnm{1} '_' int2str(sum(m)) 'x' int2str(n)];
    for f=1:length(fc)
        fld((sum(m(1:f))+1):sum(m(1:(f+1))),:) = ...
            read_llc_fkij(fin,nx,fc(f),1,ix{fc(f)},jx{fc(f)});
    end
    writebin(fout,fld);
end

% get and save regional fields
pin='~dmenemen/llc_4320/MITgcm/run/';
pout=['~dmenemen/llc_4320/regions/' region_name '/'];
kx=1:1;
for fnm={'Eta'}
    eval(['mkdir ' pout fnm{1}])
    eval(['cd ' pout fnm{1}])
    for ts=10368:144:279360, disp(ts)
        fin=[pin fnm{1} '.' myint2str(ts,10) '.data'];
        dy=ts2dte(ts,25,2011,9,10,30);
        fout=[fnm{1} '_' int2str(sum(m)) 'x' int2str(n) 'x' int2str(length(kx)) '.' dy];
        for k=1:length(kx); mydisp(k)
            for f=1:length(fc)
                fld((sum(m(1:f))+1):sum(m(1:(f+1))),:) = ...
                    read_llc_fkij(fin,nx,fc(f),kx(k),ix{fc(f)},jx{fc(f)});
            end
            writebin(fout,fld,1,'real*4',k-1);
        end
    end
end