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gforget |
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function [varargout]=profile_read_argo(dataset,nf,m); |
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fileIn=[dataset.dirIn dataset.fileInList(nf).name]; |
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%output: |
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% ymd hms imonth lat lon direc p t s p_ERR t_ERR s_ERR |
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%common block: |
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global PLATFORM_NUMBER_fillval PLATFORM_NUMBER; |
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global VECdateOBS LATITUDE LONGITUDE DIRECTION; |
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global PRES PRES_ADJUSTED PRES_ADJUSTED_QC PRES_fillval PRES_QC; |
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global TEMP TEMP_ADJUSTED TEMP_ADJUSTED_QC TEMP_fillval TEMP_QC TEMP_ADJUSTED_ERROR; |
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global PSAL PSAL_ADJUSTED PSAL_ADJUSTED_QC PSAL_fillval PSAL_QC PSAL_ADJUSTED_ERROR; |
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if m==0; |
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gforget |
1.2 |
%read the file and put the data in common blocks: |
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clear PRES* PSAL* TEMP*; |
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global PRES PRES_ADJUSTED PRES_ADJUSTED_QC PRES_fillval PRES_QC; |
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global TEMP TEMP_ADJUSTED TEMP_ADJUSTED_QC TEMP_fillval TEMP_QC TEMP_ADJUSTED_ERROR; |
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global PSAL PSAL_ADJUSTED PSAL_ADJUSTED_QC PSAL_fillval PSAL_QC PSAL_ADJUSTED_ERROR; |
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TEMP=8888*ones(500,1);PSAL=8888*ones(500,1); |
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%WHAT IS WRONG HERE??? |
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%if ( rep_nb~=1|isempty(findstr(fileIn,'20050911_prof')) ) |
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eval(['ncload ' fileIn ';']); |
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%some dimensions inversions exist for _QC variables (!?) |
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if size(PRES_QC,1)~=size(PRES,1) |
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PRES_QC=PRES_QC'; |
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if ~isempty(who('PRES_ADJUSTED_QC'));PRES_ADJUSTED_QC=PRES_ADJUSTED_QC';end; |
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if ~isempty(who('PSAL_QC'));PSAL_QC=PSAL_QC';end; |
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if ~isempty(who('PSAL_ADJUSTED_QC'));PSAL_ADJUSTED_QC=PSAL_ADJUSTED_QC';end; |
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if ~isempty(who('TEMP_QC'));TEMP_QC=TEMP_QC';end; |
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if ~isempty(who('TEMP_ADJUSTED_QC'));TEMP_ADJUSTED_QC=TEMP_ADJUSTED_QC';end; |
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end |
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if size(PLATFORM_NUMBER,1)~=size(PRES,1); PLATFORM_NUMBER=PLATFORM_NUMBER'; end; %' |
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%get the fillvalues: |
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global useNativeMatlabNetcdf; if isempty(useNativeMatlabNetcdf); useNativeMatlabNetcdf = ~isempty(which('netcdf.open')); end; |
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if (useNativeMatlabNetcdf); |
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ncid=netcdf.open(fileIn,'nowrite'); |
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vv = netcdf.inqVarID(ncid,'PRES'); PRES_fillval=netcdf.getAtt(ncid,vv,'_FillValue'); |
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if PSAL(1,1) ~= 8888; vv = netcdf.inqVarID(ncid,'PSAL'); PSAL_fillval=netcdf.getAtt(ncid,vv,'_FillValue'); end; |
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if TEMP(1,1) ~= 8888; vv = netcdf.inqVarID(ncid,'TEMP'); TEMP_fillval=netcdf.getAtt(ncid,vv,'_FillValue'); end; |
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vv = netcdf.inqVarID(ncid,'PLATFORM_NUMBER'); PLATFORM_NUMBER_fillval=netcdf.getAtt(ncid,vv,'_FillValue'); |
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netcdf.close(ncid); |
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else;%try to use old mex stuff |
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gforget |
1.1 |
nc = netcdf(fileIn, 'nowrite'); |
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PRES_fillval=fillval(nc{'PRES'}); |
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if PSAL(1,1) ~= 8888; PSAL_fillval=fillval(nc{'PSAL'});end; |
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if TEMP(1,1) ~= 8888; TEMP_fillval=fillval(nc{'TEMP'});end; |
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PLATFORM_NUMBER_fillval=fillval(nc{'PLATFORM_NUMBER'}); |
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nc = close(nc); |
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gforget |
1.2 |
end; |
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gforget |
1.1 |
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gforget |
1.2 |
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if size(REFERENCE_DATE_TIME,1)>1; REFERENCE_DATE_TIME=REFERENCE_DATE_TIME'; end; |
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REFdateOBS=str2num(strvcat(REFERENCE_DATE_TIME(1:4),REFERENCE_DATE_TIME(5:6),REFERENCE_DATE_TIME(7:8),REFERENCE_DATE_TIME(9:10),REFERENCE_DATE_TIME(11:12),REFERENCE_DATE_TIME(13:14)))';%' |
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REFdateOBS=jul_0h(REFdateOBS); |
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VECdateOBS=REFdateOBS+JULD; |
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xx=size(PRES);mloc=xx(1);mpts=xx(2); |
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varargout(1) = {length(LONGITUDE)}; |
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gforget |
1.1 |
else;%if m==0; |
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gforget |
1.2 |
%select one profile for output: |
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%date, position, etc |
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tmp1=greg_0h(VECdateOBS(m)); |
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ymd=tmp1(1)*1e4+tmp1(2)*1e2+tmp1(3); |
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hms=tmp1(4)*1e4+tmp1(5)*1e2+tmp1(6); |
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lat=LATITUDE(m); |
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lon=LONGITUDE(m); if lon < 0; lon=lon+360;end; |
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%%%%%%%ilon=find(((vec_lon-lon).^2)==min((vec_lon-lon).^2)); ilon=ilon(1); |
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%%%%%%%ilat=find(((vec_lat-lat).^2)==min((vec_lat-lat).^2)); ilat=ilat(1); |
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direc=0;if(DIRECTION(m)=='A');direc=1;end;if(DIRECTION(m)=='D');direc=2;end |
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pnum_txt=deblank(PLATFORM_NUMBER(m,:)); pnum_txt=pnum_txt(pnum_txt~=PLATFORM_NUMBER_fillval); |
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pnum=double(pnum_txt); pnum=pnum(find(pnum>=48&pnum<=57)); pnum=str2num(char(pnum)); |
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if isempty(pnum); pnum_txt='9999'; pnum=9999; end; |
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%observations |
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p=PRES_ADJUSTED(m,:); |
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p_QC=PRES_ADJUSTED_QC(m,:); |
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if isempty(find(p~=PRES_fillval)); p=PRES(m,:); p_QC=PRES_QC(m,:); end |
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tmp1=find(isnan(p)); p(tmp1)=PRES_fillval; p_QC(tmp1)='5'; |
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for n=1:length(p)-1; |
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gforget |
1.1 |
tmp1=find(p(n+1:end)==p(n)&p(n+1:end)~=PRES_fillval); |
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p(n+tmp1)=PRES_fillval;p_QC(n+tmp1)='5'; |
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gforget |
1.2 |
end |
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bad_P=0; |
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tmp1=find(p_QC=='4'); |
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if(length(tmp1)<=5); |
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%get rid of these few bad points and keep the profile |
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p(tmp1)=PRES_fillval;p_QC(tmp1)='5'; |
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else; |
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%flag the profile (will be masked in the main file) |
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%but keep the bad points (to interp and be able to CHECK) |
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bad_P=1; |
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end; |
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if TEMP(m,1) ~= 8888 |
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t=TEMP_ADJUSTED(m,:); |
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t_QC=TEMP_ADJUSTED_QC(m,:); |
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t_ERR=TEMP_ADJUSTED_ERROR(m,:);tf=find(t_ERR==TEMP_fillval|isnan(t_ERR));t_ERR(tf)=0; |
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if isempty(find(t~=TEMP_fillval)); t=TEMP(m,:); t_QC=TEMP_QC(m,:); end |
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end |
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if PSAL(m,1) ~= 8888 |
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s=PSAL_ADJUSTED(m,:); |
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s_QC=PSAL_ADJUSTED_QC(m,:); |
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s_ERR=PSAL_ADJUSTED_ERROR(m,:);sf=find(s_ERR==PSAL_fillval|isnan(s_ERR));,s_ERR(sf)=0; |
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if isempty(find(s~=PSAL_fillval)); s=PSAL(m,:); s_QC=PSAL_QC(m,:); end |
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end |
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p(p==PRES_fillval)=NaN; |
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p(p==PRES_fillval)=NaN; |
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if isempty(whos('t')); %this file does not contain salinity data... |
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t=NaN*p; t_ERR=0*p; |
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else; |
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t(t_QC~='1'&t_QC~='2')=NaN; |
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end; |
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if isempty(whos('s')); %this file does not contain salinity data... |
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s=NaN*t; s_ERR=0*t_ERR; |
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else; |
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s(s_QC~='1'&s_QC~='2')=NaN; |
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end; |
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profileCur.pnum_txt=pnum_txt; |
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profileCur.ymd=ymd; profileCur.hms=hms; |
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profileCur.lat=lat; profileCur.lon=lon; |
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profileCur.direc=direc; |
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profileCur.t=t; |
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profileCur.s=s; |
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profileCur.p=p; |
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profileCur.t_ERR=t_ERR; |
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profileCur.s_ERR=s_ERR; |
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profileCur.PorZisBAD=bad_P; |
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%bad_latlon=0; |
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%if profileCur.lat<-90|profileCur.lat>90; bad_latlon=1; end; |
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%if profileCur.lon<-180|profileCur.lon>360; bad_latlon=1; end; |
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%profileCur.LONorLATisBAD=bad_latlon; |
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varargout = {profileCur}; |
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gforget |
1.1 |
end; |
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