function data_available(theYears, dataDirectory, plotDirectory, siteA, siteB);
%
%   data_available(theYears, dataDirectory, plotDirectory, siteA, siteB);
%
%Function to create the data available plot for the MBLT report for
%theYears specified.  Uses the concatenated data sets.

%Soupy Alexander, 10/28/03


%Set up the order of the plots
plotVars = {'current'; 'temperature'; 'salinity'; 'attenuation'; 'pressure'};
plotVarNames = {'Current'; 'Temperature'; 'Salinity'; 'Attenuation'; 'Pressure'; ...
        'Sediment'; 'Traps'};
plotLocs = [51 45 40 35 30];
theDepths = [5 10 1];
theColors = {'b'; 'r'; 'g'};
t = [];

for indexYear = 1:length(theYears)
    targetYear = theYears(indexYear);
    figure, orient landscape, hold on
    
    for indexVar = 1:length(plotVars)
        moorHit = {};
        targetVar = plotVars{indexVar};
        
        %Site A
        for indexFile = 1:length(siteA)
            fileName = siteA(indexFile).fileList;
            fileMoor = fileName(1:4);
            
            startTime = siteA(indexFile).startTime;
            gregStart = gregorian(startTime);
            endTime = siteA(indexFile).endTime;
            gregEnd = gregorian(endTime);
            inYears = gregStart(1):1:gregEnd(1);
            
            theVars = siteA(indexFile).dataTypes;
            
            %If the data file doesn't have any years of interest, skip it
            if ~ismember(targetYear, inYears) | ismember(fileMoor, moorHit) | ...
                    ~ismember(targetVar, theVars)
                continue
            end
            
            moorHit = [moorHit(:); {fileMoor}];
            
            matStart = julian2datenum(startTime);
            matEnd = julian2datenum(endTime);
            
            if findstr('adc', fileName)    %ADCP stuff
                plot([matStart matEnd], [plotLocs(1)-4 plotLocs(1)-4], ...
                    'linewidth', 7, 'color', 'y')
                t(length(t)+1) = text(mean([max([matStart datenum(targetYear, 1, 1)]) ...
                        min([matEnd datenum(targetYear, 12, 31)])]), plotLocs(1) - 4, ...
                    fileName(1:4));
                set(t(length(t)), 'fontsize', 8, 'color', 'k', 'clipping', 'on', ...
                    'horiz', 'center');
                continue
            end
            
            theDepth = siteA(indexFile).instDepth;
            waterDepth = siteA(indexFile).waterDepth;
            if isnan(waterDepth)
                waterDepth = 34;
            end
            distFrom = waterDepth - theDepth;
            targDepths = [24 10 1];
            targDepthDist = abs(targDepths - distFrom);
            [junk, hitDepth] = min(targDepthDist);
            
            plot([matStart matEnd], [plotLocs(indexVar)-hitDepth plotLocs(indexVar)-hitDepth], ...
                'linewidth', 7, 'color', theColors{hitDepth})
            t(length(t)+1) = text(mean([max([matStart datenum(targetYear, 1, 1)]) ...
                        min([matEnd datenum(targetYear, 12, 31)])]), plotLocs(indexVar)-hitDepth, ...
                fileName(1:4));
            set(t(length(t)), 'fontsize', 8, 'color', 'k', 'clipping', 'on', ...
                'horiz', 'center');
        end
    end
    
    
    %Sediment trap data
    [theNums, theText] = xlsread(fullfile(dataDirectory, 'all_traps.xls'), ...
        'LNB Traps');
    theNums = [repmat(NaN, 1, size(theText, 2)); theNums];
    trapType = theText(:,19);
    for index = 1:length(trapType)
        if isempty(trapType{index})
            trapType(index) = {' '};
        end
    end
    theHonjos = strmatch('honjo', lower(trapType));
    theTubes = strmatch('tube', lower(trapType));
    
    honjoA_deploy = theNums(theHonjos,4) + datenum('30-Dec-1899');
    honjoA_recover = theNums(theHonjos,6) + datenum('30-Dec-1899');
    plot([honjoA_deploy honjoA_recover], [24 24], 'linewidth', 7, 'color', 'm');
    
    tubeA_deploy = theNums(theTubes,4) + datenum('30-Dec-1899');
    tubeA_recover = theNums(theTubes,6) + datenum('30-Dec-1899');
    plot([tubeA_deploy tubeA_recover], [23 23], 'linewidth', 7, 'color', 'c');
    
    %Plot parameters
    axis([datenum(targetYear, 1, 1) datenum(targetYear, 12, 31) 20 52])
    theTicks = [];
    for index = 1:12
        theTicks = [theTicks(:); datenum(targetYear, index, 1)];
    end
    set(gca, 'xtick', theTicks)
        
    datetick('x', 3, 'keeplimits', 'keepticks')
    plotLocs = plotLocs(:);
    set(gca, 'ytick', flipud([plotLocs - 1.5; [24; 23]]), 'yticklabel', flipud(plotVarNames))
    box('on')
    
    bigAx = gca;
    axPosition = get(bigAx, 'Position');
    axPositionNew = axPosition;
    axPositionNew(2) = axPosition(2) + 0.25*axPosition(4);
    axPositionNew(4) = axPosition(4)*0.75;
    axPositionNew(1) = axPosition(1) + axPosition(1)*0.05;
    set(bigAx, 'Position', axPositionNew)
    
    axPosition(4) = axPosition(4)*0.2;
    lilAx = subplot('position', axPosition);
    hold on
    
    plot([4 5], [6 6], 'b', 'linewidth', 7);
    text(5.5, 6, '= 5 meters deep');
    plot([4 5], [5 5], 'r', 'linewidth', 7);
    text(5.5, 5, '= 10 meters above bottom');
    plot([4 5], [4 4], 'g', 'linewidth', 7);
    text(5.5, 4, '= 1 meter above the bottom');
    plot([4 5], [3 3], 'y', 'linewidth', 7);
    text(5.5, 3, '= ADCP measurement');
    plot([4 5], [2 2], 'm', 'linewidth', 7);
    text(5.5, 2, '= Honjo Trap measurement');
    plot([4 5], [1 1], 'c', 'linewidth', 7);
    text(5.5, 1, '= Tube Trap measurement');
    
    axis([0 12 0 7])
    axis('off')
    printTitle = ['a_dcov_' num2str(targetYear, '%.0f')];
    axisTitle = ['Site A Data Coverage, ' num2str(targetYear, '%.0f')];
    suptitle(axisTitle)
    print(gcf, '-dpdf', fullfile(plotDirectory, printTitle));
    
    close
    
    %%%%%%%%%%%%%%%%%%%%Site B%%%%%%%%%%%%%%%%%%%%%%%%%%
    
    if targetYear < 1997
        continue
    end
    
    figure, orient landscape, hold on
    
    for indexVar = 1:length(plotVars)
        moorHit = {};
        targetVar = plotVars{indexVar};
        
        %Site B
        for indexFile = 1:length(siteB)
            fileName = siteB(indexFile).fileList;
            fileMoor = fileName(1:4);
            
            startTime = siteB(indexFile).startTime;
            gregStart = gregorian(startTime);
            endTime = siteB(indexFile).endTime;
            gregEnd = gregorian(endTime);
            inYears = gregStart(1):1:gregEnd(1);
            
            theVars = siteB(indexFile).dataTypes;
            
            %If the data file doesn't have any years of interest, skip it
            if ~ismember(targetYear, inYears) | ismember(fileMoor, moorHit) | ...
                    ~ismember(targetVar, theVars)
                continue
            end
            
            moorHit = [moorHit(:); {fileMoor}];
            
            matStart = julian2datenum(startTime);
            matEnd = julian2datenum(endTime);
            
            if findstr('adc', fileName)    %ADCP stuff
                plot([matStart matEnd], [plotLocs(1)-4 plotLocs(1)-4], ...
                    'linewidth', 7, 'color', 'y')
                t(length(t)+1) = text(mean([max([matStart datenum(targetYear, 1, 1)]) ...
                        min([matEnd datenum(targetYear, 12, 31)])]), plotLocs(1) - 4, ...
                    fileName(1:4));
                set(t(length(t)), 'fontsize', 8, 'color', 'k', 'clipping', 'on', ...
                    'horiz', 'center');
                continue
            end
            
            theDepth = siteB(indexFile).instDepth;
            waterDepth = siteB(indexFile).waterDepth;
            if isnan(waterDepth)
                waterDepth = 23;
            end
            distFrom = waterDepth - theDepth;
            targDepths = [22 11 1];
            targDepthDist = abs(targDepths - distFrom);
            [junk, hitDepth] = min(targDepthDist);
            
            plot([matStart matEnd], [plotLocs(indexVar)-hitDepth plotLocs(indexVar)-hitDepth], ...
                'linewidth', 7, 'color', theColors{hitDepth})
            t(length(t)+1) = text(mean([max([matStart datenum(targetYear, 1, 1)]) ...
                        min([matEnd datenum(targetYear, 12, 31)])]), plotLocs(indexVar)-hitDepth, ...
                fileName(1:4));
            set(t(length(t)), 'fontsize', 8, 'color', 'k', 'clipping', 'on', ...
                'horiz', 'center');
        end
    end
    
    
    %Sediment trap data
    [theNums, theText] = xlsread(fullfile(dataDirectory, 'all_traps.xls'), ...
        'Scituate Traps');
    theNums = [repmat(NaN, 1, size(theNums, 2)); theNums];
    trapType = theText(:,19);
    for index = 1:length(trapType)
        if isempty(trapType{index})
            trapType(index) = {' '};
        end
    end
    theHonjos = strmatch('honjo', lower(trapType));
    theTubes = strmatch('tube', lower(trapType));
    
    honjoA_deploy = theNums(theHonjos,1) + datenum('30-Dec-1899');
    honjoA_recover = theNums(theHonjos,3) + datenum('30-Dec-1899');
    plot([honjoA_deploy honjoA_recover], [24 24], 'linewidth', 7, 'color', 'm');
    
    tubeA_deploy = theNums(theTubes,1) + datenum('30-Dec-1899');
    tubeA_recover = theNums(theTubes,3) + datenum('30-Dec-1899');
    plot([tubeA_deploy tubeA_recover], [23 23], 'linewidth', 7, 'color', 'c');
    
    %Plot parameters
    axis([datenum(targetYear, 1, 1) datenum(targetYear, 12, 31) 20 52])
    theTicks = [];
    for index = 1:12
        theTicks = [theTicks(:); datenum(targetYear, index, 1)];
    end
    set(gca, 'xtick', theTicks)
        
    datetick('x', 3, 'keeplimits', 'keepticks')
    plotLocs = plotLocs(:);
    set(gca, 'ytick', flipud([plotLocs - 1.5; [24; 23]]), 'yticklabel', flipud(plotVarNames))
    box('on')
    
    bigAx = gca;
    axPosition = get(bigAx, 'Position');
    axPositionNew = axPosition;
    axPositionNew(2) = axPosition(2) + 0.25*axPosition(4);
    axPositionNew(4) = axPosition(4)*0.75;
    axPositionNew(1) = axPosition(1) + axPosition(1)*0.05;
    set(bigAx, 'Position', axPositionNew)
    
    axPosition(4) = axPosition(4)*0.2;
    lilAx = subplot('position', axPosition);
    hold on
    
    plot([4 5], [6 6], 'b', 'linewidth', 7);
    text(5.5, 6, '= 5 meters deep');
    plot([4 5], [5 5], 'r', 'linewidth', 7);
    text(5.5, 5, '= 10 meters above bottom');
    plot([4 5], [4 4], 'g', 'linewidth', 7);
    text(5.5, 4, '= 1 meter above the bottom');
    plot([4 5], [3 3], 'y', 'linewidth', 7);
    text(5.5, 3, '= ADCP measurement');
    plot([4 5], [2 2], 'm', 'linewidth', 7);
    text(5.5, 2, '= Honjo Trap measurement');
    plot([4 5], [1 1], 'c', 'linewidth', 7);
    text(5.5, 1, '= Tube Trap measurement');
    
    axis([0 12 0 7])
    axis('off')
    printTitle = ['b_dcov_' num2str(targetYear, '%.0f')];
    axisTitle = ['Site B Data Coverage, ' num2str(targetYear, '%.0f')];
    suptitle(axisTitle)
    print(gcf, '-dpdf', fullfile(plotDirectory, printTitle));
    
    close
    
end