/[MITgcm]/MITgcm_contrib/gael/profilesMatlabProcessing/profiles_misc/MITprof_resample.m
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revision 1.3 by gforget, Fri Oct 9 01:30:12 2015 UTC revision 1.10 by gforget, Fri Feb 5 13:01:47 2016 UTC
# Line 1  Line 1 
1  function [profOut]=MITprof_resample(profIn,fldIn,filOut,method,varargin);  function [profOut]=MITprof_resample(profIn,fldIn,filOut,method);
 %object:    resample a set of fields in file filFldIn with specified time  
 %           line timeIn to the positions of profIn and add to file filOut  
 %inputs:    profIn is a gcmfaces field (nan-masked; up to N3,N4 dimensions)  
 %           fldIn is a description of the fields being resampled including  
 %               the corresponding file name and additional specs :  
 %               fldIn.name, fldIn.long_name, fldIn.units, fldIn.fil (file  
 %               name) and fldIn.tim (time axis specification). Supported  
 %               fldIn.tim spec: 'const' (for time invariant climatology),  
 %               'monclim' (for monthly climatology), 'monser' (for monthly  
 %               time series)  
 %           filOut is the output MITprof file name (if un-specified  
 %               the resul may only be returned as a function argument)  
 %           method may be 'polygons' (or 'TriScatteredInterp' ... via  
 %              gcmfaces_interp_2d in a loop ... to be implemented later)  
 %outputs:   profOut is the MITprof structure where the interpolated values  
 %               were appended to profIn (if un-specified the result  
 %               may only be returned to output file)  
2  %  %
3  %filFldIn is assumed to be 3D and binary at this point  %[profOut]=MITPROF_RESAMPLE(profIn,fldIn,filOut,method);
4    %
5    %     resamples a set of fields (fldIn) to profile 3D locations (profIn)
6    %     and output the result to nc file (filOut) and memory (profOut).
7    %     using a chosen interpolation method (method).
8    %
9    %     profIn (structure) should contain: prof_depth, prof_lon, prof_lat, prof_date
10    %     fldIn (structure) should contain: fil, name, long_name, units, tim,
11    %         missing_value, FillValue (for nc output), and fld ([] by default).
12    %         If fld is not [] then it is assumed that user already loaded
13    %         the fields from fldIn.fil.
14    %
15    %     fldIn.tim can be set to
16    %         'const' (for time invariant climatology),
17    %         'monclim' (for monthly climatology)
18    %         'monser' (for monthly time series)
19    %         'monloop' (for cyclic monthly time series)
20    %
21    %     method can be set to
22    %         'polygons' (linear in space)
23    %         'bindata' (nearest neighbor in space)
24    %
25    % Example:
26    %  grid_load; gcmfaces_global; MITprof_global; addpath matlab/;
27    %  profIn=idma_float_plot('4900828');
28    %  %
29    %  fldIn.fil=fullfile(myenv.MITprof_climdir,filesep,'T_OWPv1_M_eccollc_90x50.bin');
30    %  fldIn.name='prof_Towp';
31    %  fldIn.long_name='pot. temp. estimate (OCCA-WOA-PHC combination)';
32    %  fldIn.units='degree C';
33    %  fldIn.tim='monclim';
34    %  fldIn.missing_value=-9999.;
35    %  fldIn.FillValue=-9999.;
36    %  fldIn.fld=[];
37    %  %
38    %  profOut=MITprof_resample(profIn,fldIn);
39    
40    
41  gcmfaces_global;  gcmfaces_global;
42    
# Line 27  if doOut; doOutInit=isempty(dir(filOut)) Line 46  if doOut; doOutInit=isempty(dir(filOut))
46    
47  if isempty(who('method')); method='polygons'; end;  if isempty(who('method')); method='polygons'; end;
48    
49    %0) check for file types
50    test0=isfield(fldIn,'fil');
51    test1=0;
52    if test0;
53      test0=~isempty(dir(fldIn.fil));
54      [PATH,NAME,EXT]=fileparts(fldIn.fil);
55      fil_nc=fullfile(PATH,NAME,[NAME '.0001.nc']);
56      fil_nctiles=fullfile(PATH,NAME,NAME);
57      test1=~isempty(dir(fil_nc));
58    end;
59    test2=~isempty(fldIn.fld);
60    
61  %1) deal with time line  %1) deal with time line
62  if strcmp(fldIn.tim,'monclim');  if strcmp(fldIn.tim,'monclim');
63      tim_fld=[-0.5:12.5]; rec_fld=[12 1:12 1];      tim_fld=[-0.5:12.5]; rec_fld=[12 1:12 1];
# Line 35  if strcmp(fldIn.tim,'monclim'); Line 66  if strcmp(fldIn.tim,'monclim');
66      tim_prof=(profIn.prof_date-tmp2);      tim_prof=(profIn.prof_date-tmp2);
67      tim_prof(tim_prof>365)=365;      tim_prof(tim_prof>365)=365;
68      tim_prof=tim_prof/365*12;%neglecting differences in months length      tim_prof=tim_prof/365*12;%neglecting differences in months length
69        if test2; fldIs3d=(length(size(fldIn.fld{1}))==4); end;
70    elseif strcmp(fldIn.tim,'monloop')|strcmp(fldIn.tim,'monser');
71        if test1;
72          eval(['ncload ' fil_nc ' tim']);
73          nt=length(tim);
74        elseif ~test2;
75          %note: 2D case still needs to be treated here ... or via fldIn.is3d ?
76          tmp1=dir(fldIn.fil);
77          nt=tmp1.bytes/prod(mygrid.ioSize)/length(mygrid.RC)/4;
78        else;
79          ndim=length(size(fldIn.fld{1}));
80          fldIs3d=(ndim==4);
81          nt=size(fldIn.fld{1},ndim);
82        end;
83        tmp1=[1:nt]'; tmp2=ones(nt,1)*[1992 1 15 0 0 0]; tmp2(:,2)=tmp1;
84        tim_fld=datenum(tmp2);
85        tim_fld=[tim_fld(1)-31 tim_fld' tim_fld(end)+31];
86        rec_fld=[nt 1:nt 1];
87        if strcmp(fldIn.tim,'monloop');
88          tmp1=datenum([1992 1 1 0 0 0]);
89          tmp2=datenum([1992+nt/12 1 1 0 0 0]);;
90          tim_prof=tmp1+mod(profIn.prof_date-tmp1,tmp2-tmp1);
91        else;
92          tim_prof=profIn.prof_date;
93        end;
94        %round up tim_prof to prevent interpolation in time:
95        %  tmp3=tim_prof*ones(1,length(tim_fld))-ones(length(tim_prof),1)*tim_fld;
96        %  tmp4=sum(tmp3>0,2);
97        %  tim_prof=tim_fld(tmp4)';
98  elseif strcmp(fldIn.tim,'const')|strcmp(fldIn.tim,'std');  elseif strcmp(fldIn.tim,'const')|strcmp(fldIn.tim,'std');
99      tim_fld=[1 2]; rec_fld=[1 1];      tim_fld=[1 2]; rec_fld=[1 1];
100      tim_prof=1.5*ones(profIn.np,1);      tim_prof=1.5*ones(profIn.np,1);
101        if test2; fldIs3d=(length(size(fldIn.fld{1}))==3); end;
102  else;  else;
103      error('this case remains to be implemented');      error('this case remains to be implemented');
104  end;  end;
# Line 47  depIn=-mygrid.RC; depOut=profIn.prof_dep Line 108  depIn=-mygrid.RC; depOut=profIn.prof_dep
108  profOut=NaN*ones(profIn.np,profIn.nr);  profOut=NaN*ones(profIn.np,profIn.nr);
109    
110  %2) loop over record pairs  %2) loop over record pairs
111    if strcmp(method,'bindata'); gcmfaces_bindata; end;
112  for tt=1:length(rec_fld)-1;  for tt=1:length(rec_fld)-1;
113      fld0=mygrid.mskC.*read_bin(fldIn.fil,rec_fld(tt));    ii=find(tim_prof>=tim_fld(tt)&tim_prof<tim_fld(tt+1));
114      fld1=mygrid.mskC.*read_bin(fldIn.fil,rec_fld(tt+1));    if ~isempty(ii);
115        %tt
116        %
117        if test2&fldIs3d;
118          fld0=fldIn.fld(:,:,:,rec_fld(tt));
119          fld1=fldIn.fld(:,:,:,rec_fld(tt+1));
120        elseif test2&~fldIs3d;
121          fld0=fldIn.fld(:,:,rec_fld(tt));
122          fld1=fldIn.fld(:,:,rec_fld(tt+1));
123        elseif test1;
124          fld0=read_nctiles(fil_nctiles,NAME,rec_fld(tt));
125          fld1=read_nctiles(fil_nctiles,NAME,rec_fld(tt+1));
126        elseif test0;
127          fld0=read_bin(fldIn.fil,rec_fld(tt));
128          fld1=read_bin(fldIn.fil,rec_fld(tt+1));
129        else;
130          error(['file not found:' fldIn.fil]);
131        end;
132        %
133      ndim=length(size(fld0{1}));      ndim=length(size(fld0{1}));
134        if ndim==2;
135          fld0=fld0.*mygrid.mskC(:,:,1);
136          fld1=fld1.*mygrid.mskC(:,:,1);
137          fldIs3d=0;
138        else;
139          fld0=fld0.*mygrid.mskC;
140          fld1=fld1.*mygrid.mskC;
141          fldIs3d=1;
142        end;
143      fld=cat(ndim+1,fld0,fld1);      fld=cat(ndim+1,fld0,fld1);
144      %      %
145      ii=find(tim_prof>=tim_fld(tt)&tim_prof<tim_fld(tt+1));      if ~strcmp(method,'bindata');
146      if ~isempty(ii);        arr=gcmfaces_interp_2d(fld,lon(ii),lat(ii),method);
147          arr=gcmfaces_interp(fld,lon(ii),lat(ii),method);        if fldIs3d;
148          arr2=gcmfaces_interp_1d(2,depIn,arr,depOut);          arr2=gcmfaces_interp_1d(2,depIn,arr,depOut);
149          if strcmp(fldIn.tim,'std');        else;
150              arr2=arr2.*randn(size(arr2));          arr2=arr;
151          end;        end;
152      end;                %now linear in time:
153          k0=floor(tim_prof(ii));
154          a0=tim_prof(ii)-k0;
155          if fldIs3d;
156            a0=a0*ones(1,profIn.nr);
157            profOut(ii,:)=(1-a0).*arr2(:,:,1)+a0.*arr2(:,:,2);
158          else;
159            profOut(ii,1)=(1-a0).*arr2(:,1)+a0.*arr2(:,2);
160          end;
161        elseif fldIs3d;
162          [prof_i,prof_j]=gcmfaces_bindata(lon(ii),lat(ii));
163          FLD=convert2array(fld(:,:,:,1));
164          nk=length(mygrid.RC); kk=ones(1,nk);
165          np=length(ii); pp=ones(np,1);
166          ind2prof=sub2ind(size(FLD),prof_i*kk,prof_j*kk,pp*[1:nk]);
167          arr=FLD(ind2prof);
168          arr2=gcmfaces_interp_1d(2,depIn,arr,depOut);
169          profOut(ii,:)=arr2;
170        else;
171          error('2D field case is missing here');
172        end;
173      %          %    
174      k0=floor(tim_prof(ii)); k1=k0+1;      if strcmp(fldIn.tim,'std');
175      a0=tim_prof(ii)-k0; a0=a0*ones(1,profIn.nr);        profOut(ii,:)=profOut(ii,:).*randn(size(profOut(ii,:)));
176      profOut(ii,:)=(1-a0).*arr2(:,:,1)+a0.*arr2(:,:,2);      end;
177    
178      end;%if ~isempty(ii);
179    end;
180    
181    if ~fldIs3d;
182      profOut=profOut(:,1);
183  end;  end;
184    
185  %3) deal with file output  %3) deal with file output
# Line 82  if doOutInit; Line 197  if doOutInit;
197  end;  end;
198    
199  if doOut;  if doOut;
200        if ~fldIs3d;
201          dims={'iPROF'};
202        else;
203          dims={'iDEPTH','iPROF'};
204        end;
205      %add the array itelf          %add the array itelf    
206      MITprof_addVar(filOut,fldIn.name,'double',{'iDEPTH','iPROF'},profOut);      MITprof_addVar(filOut,fldIn.name,'double',dims,profOut);
207            
208      %add its attributes      %add its attributes
209      nc=ncopen(filOut,'write');      nc=ncopen(filOut,'write');
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