VMT_MBBathy

 Computes the multibeam bathymetry from the four beams of the ADCP
 using a script by D.Mueller (USGS). Beam depths are computed for each
 transect prior to any averaging or mapping.

 Added the ability to export timestamps, pitch, roll, and heading
 (2/1/10)

 Added an identifier for each individual transect to the csv output
(FEL, 6/14/12)

 V3 Adds capability to handle timeseries of WSE, PRJ 8-7-12

 P.R. Jackson, USGS, 8-7-12

0001 function [A] = VMT_MBBathy(z,A,savefile,beamAng,magVar,wsedata,saveaux)
0002 % Computes the multibeam bathymetry from the four beams of the ADCP
0003 % using a script by D.Mueller (USGS). Beam depths are computed for each
0004 % transect prior to any averaging or mapping.
0005 %
0006 % Added the ability to export timestamps, pitch, roll, and heading
0007 % (2/1/10)
0008 %
0009 % Added an identifier for each individual transect to the csv output
0010 %(FEL, 6/14/12)
0011 %
0012 % V3 Adds capability to handle timeseries of WSE, PRJ 8-7-12
0013 %
0014 % P.R. Jackson, USGS, 8-7-12
0015 
0016 %% Start
0017 try
0018     %disp('Computing corrected beam depths')
0019     if isstruct(wsedata)
0020         if length(wsedata.elev) == 1
0021             %disp('WSE is a constant value')
0022             wsefiletype = 0;
0023         else
0024             %disp('WSE is a timeseries')
0025             wsefiletype = 1;
0026         end
0027     else
0028         %disp('WSE is a constant value')
0029         wsedata.elev = wsedata;
0030         wsefiletype = 0;
0031     end
0032     
0033     %% Step through each transect in the given set
0034     %figure(1); clf
0035     for zi = 1 : z
0036         
0037         % Work on the WSE if a vector
0038         %WSE vector must have a value for each ensemble, so interpolate given
0039         %values to ensemble times
0040         
0041         if wsefiletype  %only process as vector if loaded file rather than single value
0042             %Build an ensemble time vector
0043             enstime = datenum([A(zi).Sup.year+2000 A(zi).Sup.month A(zi).Sup.day...
0044                 A(zi).Sup.hour A(zi).Sup.minute (A(zi).Sup.second+A(zi).Sup.sec100./100)]);
0045             %Had to add 2000 to year--will not work for years < 2000
0046             %Check the times (for debugging)
0047             if 0
0048                 obs_start = datestr(wsedata.obstime(1))
0049                 obs_end = datestr(wsedata.obstime(end))
0050                 
0051                 ens_start = datestr(enstime(1))
0052                 ens_end = datestr(enstime(end))
0053             end
0054             
0055             % Interpolate the WSE values to the ENS times
0056             wse = interp1(wsedata.obstime,wsedata.elev,enstime);
0057             % Plot for debugging
0058             if 0
0059                 figure(1); hold on
0060                 plot(enstime,wse,'k-')
0061                 datetick('x',13)
0062                 ylabel('WSE, in meters')
0063             end
0064         else
0065             wse = wsedata.elev; %Single value
0066         end
0067         
0068         % Compute position and elevation of each beam depth
0069         [exyz] = depthxyz(A(zi).Nav.depth,A(zi).Sup.draft_cm,...
0070             A(zi).Sensor.pitch_deg,A(zi).Sensor.roll_deg,....
0071             A(zi).Sensor.heading_deg,beamAng,...
0072             'm',A(zi).Comp.xUTMraw,A(zi).Comp.yUTMraw,wse,A(zi).Sup.ensNo);  %magVar,removed 4-8-10
0073         
0074         %Build the auxillary data matrix
0075         if saveaux
0076             auxmat = [A(zi).Sup.year+2000 A(zi).Sup.month A(zi).Sup.day...
0077                 A(zi).Sup.hour A(zi).Sup.minute (A(zi).Sup.second+A(zi).Sup.sec100./100) ...
0078                 A(zi).Sensor.heading_deg A(zi).Sensor.pitch_deg A(zi).Sensor.roll_deg ...
0079                 repmat(zi,size(A(zi).Sup.year))]; % Added transect #(zi) FLE 6/14/12    %Had to add 2000 to year--will not work for years < 2000
0080             auxmat2 = [];
0081             for i = 1:length(A(zi).Sup.ensNo);
0082                 dum = repmat(auxmat(i,:),4,1);
0083                 auxmat2 = cat(1,auxmat2,dum);
0084             end
0085             clear auxmat dum enstime wse
0086         end
0087         
0088         % Store results
0089         idxmbb = find(~isnan(exyz(:,4))& ~isnan(exyz(:,2)));
0090         if zi==1
0091             zmbb=[exyz(idxmbb,1) exyz(idxmbb,2)...
0092                 exyz(idxmbb,3) exyz(idxmbb,4)];
0093             if saveaux
0094                 auxmbb = auxmat2(idxmbb,:);
0095             end
0096         else
0097             zmbb=cat(1,zmbb,[exyz(idxmbb,1)...
0098                 exyz(idxmbb,2) exyz(idxmbb,3) exyz(idxmbb,4)]);
0099             if saveaux
0100                 auxmbb = cat(1,auxmbb,auxmat2(idxmbb,:));
0101             end
0102         end
0103         
0104         A(zi).Comp.exyz = exyz(idxmbb,:);
0105         
0106         
0107         clear idxmbb exyz;
0108         %pack;
0109     end
0110     
0111     
0112     %% Save the data
0113     
0114     if 1
0115         %disp('Exporting multibeam bathymetry')
0116         %disp([savefile(1:end-4) '_mbxyz.csv'])
0117         outfile = [savefile(1:end-4) '.csv'];
0118         if saveaux
0119             outmat = [zmbb auxmbb];
0120             ofid   = fopen(outfile, 'wt');
0121             outcount = fprintf(ofid,'EnsNo,     Easting_WGS84_m,    Northing_WGS84_m,  Elev_m,  Year,  Month,  Day,  Hour,  Minute,  Second,  Heading_deg,  Pitch_deg,  Roll_deg,  Transect\n'); % Modified to output transect # FLE 6/14/12
0122             outcount = fprintf(ofid,'%6.0f, %14.2f, %14.2f, %8.2f, %4.0f, %2.0f, %2.0f, %2.0f, %2.0f, %2.2f, %3.3f, %3.3f, %3.3f, %3.0f\n',outmat');
0123             fclose(ofid);
0124         else
0125             outmat = zmbb;
0126             ofid   = fopen(outfile, 'wt');
0127             outcount = fprintf(ofid,'EnsNo,     Easting_WGS84_m,    Northing_WGS84_m,  Elev_m\n');
0128             outcount = fprintf(ofid,'%6.0f, %14.2f, %14.2f, %8.2f\n',outmat');
0129             fclose(ofid);
0130         end
0131         %dlmwrite([savefile(1:end-4) '_mbxyz.csv'],outmat,'precision',15);
0132     end
0133 catch err
0134      if isdeployed
0135         errLogFileName = fullfile(pwd,...
0136             ['errorLog' datestr(now,'yyyymmddHHMMSS') '.txt']);
0137         msgbox({['An unexpected error occurred. Error code: ' err.identifier];...
0138             ['Error details are being written to the following file: '];...
0139             errLogFileName},...
0140             'VMT Status: Unexpected Error',...
0141             'error');
0142         fid = fopen(errLogFileName,'W');
0143         fwrite(fid,err.getReport('extended','hyperlinks','off'));
0144         fclose(fid);
0145         rethrow(err)
0146     else
0147         msgbox(['An unexpected error occurred. Error code: ' err.identifier],...
0148             'VMT Status: Unexpected Error',...
0149             'error');
0150         rethrow(err);
0151     end    
0152 end