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readFloxBoxdata.m
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readFloxBoxdata.m
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%clear all,%
close all
%files = dir('L*.csv');
%datapath = '180914';
%datapath = '180923';
%datapath = 'OHP/180926';
datapath = 'OHP/180927';
%datapath = 'IT1/180713';
%datapath = 'SWI/180804';
colorsFLD = {'r','m'};
colorsNEW = { 'k','b'};
%% the following indices are needed for the iFLD method
parameters = set_parameters;
wl_in = [761,686.9]; % next 6 coefficients are all used in iFLD
wl_out = [755,686.5];
wl_left0 = [750,680];
wl_left1 = [755,686.5];
wl_right0 = [772,688.1];
wl_right1 = [777,690];
wl_left = [759, 686.5]; % just left, used in new method
wl_right = [768, 688.1]; % just right, used in new method
%%
for FB = 1:2%2
switch FB
case 1
files = dir([datapath '/*_*09*.csv']);
i_E = 1;
i_piL = 5;
%First = 1;
Last = 210;
case 2
files = dir([datapath '/L*.csv']);
i_E = 5;
i_piL = 7;
%First = 60;
%Last = 700;
Last = 600;
%Last = 292;
end
for k = 1:length(files)
filename = [datapath '/' files(k).name];
fileID = fopen(filename);
T = readtable(filename, 'TreatAsEmpty', '#N/D');
fclose(fileID);
x = table2array(T);
D(k).filename = filename;
D(k).wl = x(:,1);
D(k).data = x(:,2:Last+1);
format = '%4c';
for n = 1:size(x,2)
format =[format '%2c%d%c%d%c%d%c']; %#ok<AGROW>
end
fid = fopen(filename);
line = fgetl(fid);
z = sscanf(line,format);
fclose('all');
hr = z(7:8:end);
minute = z(9:8:end);
sec = z(11:8:end);
D(k).time = datenum(0,0,0,hr,minute,sec); %#ok<*SAGROW>
end
%%
%close all
[a] = deal(nan*zeros(Last,1));
[F,FY,iFLDr] = deal(nan*zeros(Last,2));
%for I = 1:Last%length(F)%First : Last
for I = 1:length(F)%First : Last
wl = D(i_E).wl;
E = D(i_E).data(:,I);
piL = D(i_piL).data(:,I);
for O2band = 1:2
index2 = find(wl>wl_left(O2band) & wl<wl_right(O2band));
normE = interp1([wl(index2(1)),wl(index2(end))],[E(index2(1)),E(index2(end))],wl(index2));
normpiL = interp1([wl(index2(1)),wl(index2(end))],[piL(index2(1)),piL(index2(end))],wl(index2));
input.logx = log(E(index2(1:end))./normE);
input.y = piL(index2(1:end))./normpiL;
input.normpiL = normpiL;
switch O2band
case 1 %O2A
input.flwf = 0.6+0.4*(length(index2):-1:1)'/length(index2);
input.atcor = 1;
case 2 %O2B
input.flwf = 1;
input.atcor = 0;
input.a = ai;
end
f = @(Fi)cost4F(Fi,input);
%FY(I,O2band) = lsqnonlin(f,0,0,.1);
%F(I,O2band) = lsqnonlin(f,0,0,.1);
F(I,O2band) = lsqnonlin(f,0,0,20);
%[e,ai] = cost4F(FY(I,O2band),input);
[e,ai] = cost4F(F(I,O2band),input);
%F(I,O2band) = mean(normpiL.*input.flwf)* FY(I,O2band);
piLr = piL - F(I,O2band);
a(I) = ai;
%F(I,O2band) = piL(index2(1))* FY(I,O2band)*mean(input.flwf);
%if O2band ==1 % I only apply iFLD to the O2A band
[iFLDr(I,O2band)] = iFLD(E,piL,wl,wl_left0(O2band),wl_left1(O2band),wl_in(O2band),wl_right0(O2band),wl_right1(O2band),wl_out(O2band));
%iFLDr(I,O2band) = FLD3(E,piL,wl,wl_left(O2band),wl_in(O2band),wl_right(O2band));
%iFLDr(I,O2band) = FLD(E,piL,wl,wl_left(O2band),wl_in(O2band));
%end
% toc
if I == 100
figure(O2band),
subplot(2,2,2*FB-1)
plot(wl(index2),[E(index2)./normE piL(index2)./normpiL], 'x-', 'MarkerSize', 3);
xlabel('wl (nm)')
ylabel('norm. irradiance')
legend('E', 'piL', 'location', 'best')
% keyboard
subplot(2,2,2*FB)
hold on
plot(log(E(index2)./normE), log(piL(index2)./normpiL), 'kx','MarkerSize',3)
hold on
plot([-2.5 0],[-2.5 0], 'k--')
% if O2band ==1
plot(log(E(index2)./normE), log(piLr(index2)./normpiL), 'r*', 'MarkerSize',3)
% end
plot([-2.5 0],a(I)*[-2.5 0],'r')
if O2band ==2, set(gca,'xlim', [-1 0],'ylim', [-1 0]), else
set(gca,'xlim', [-3 0],'ylim', [-3 0]), end
end
end
end
xlabel('log E(\lambda)/log(E(759))')
ylabel('log \piL(\lambda)/log(\piL(759))')
%%
figure(3)
for O2band = 1:2
%figure(O2band+2),
subplot(2,3,3*FB-2)
plot(D(k).time(1:Last)*24,a,'k')
ylabel('(x2+x3)/x1'),
hold on
plot(D(k).time(1:Last)*24,a*0+1,'k')
%set(gca,'ylim', [0.98, 1.08])
set(gca, 'xlim', [7,17])
xlabel('hour')
subplot(2,3,3*FB-2+O2band),
plot(D(k).time(1:Last)*24,iFLDr(:,O2band)*1E3,'r'); hold on
plot(D(k).time(1:Last)*24,F(:,O2band)*1E3,'k');
ylabel('F (W m^{-2}\mu m^{-1}sr^{-1})');
switch O2band
case 1, set(gca, 'ylim', [-0.5 1.0])
case 2, set(gca, 'ylim', [-0.50 1.0])
end
set(gca, 'xlim', [7,17])
legend('F_{iFLD}','F_{new}', 'Location','North','orientation', 'horizontal')
xlabel('hour')
% subplot(2,3,3*FB),
% plot(D(k).time(1:Last)*24,FY(:,O2band)*1E3,'k');
% ylabel('F/E');
% %set(gca, 'xlim', [D(k).time(First)*24 D(k).time(Last)*24])
% set(gca, 'xlim', [7,17])
% % set(gca, 'ylim', [0 1.2])
% xlabel('hour')
end
end
% end
%%