/[MITgcm]/MITgcm_contrib/gael/matlab_class/gcmfaces_IO/write2nctiles.m
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revision 1.1 by gforget, Thu Jan 30 17:05:12 2014 UTC revision 1.7 by gforget, Wed Mar 16 15:02:19 2016 UTC
# Line 7  function [dimOut]=write2nctiles(fileOut, Line 7  function [dimOut]=write2nctiles(fileOut,
7  %         can be provided in the form {'name',value}  %         can be provided in the form {'name',value}
8  %         those that are currently active are  %         those that are currently active are
9  %               'descr' is the file description (default '').  %               'descr' is the file description (default '').
10    %               'rdm' is the extended estimate description (default '').
11  %               'fldName' is the nc variable name for fld (default : the outside name of fldIn).  %               'fldName' is the nc variable name for fld (default : the outside name of fldIn).
12  %               'longName' is the corresponding long name (default : '').  %               'longName' is the corresponding long name (default : '').
13  %               'units' is the unit of fld (default : '(unknown)').  %               'units' is the unit of fld (default : '(unknown)').
14  %               'missval' is the missing value (default : NaN).  %               'missval' is the missing value (default : NaN).
15  %               'fillval' is the fill value (default : NaN).  %               'fillval' is the fill value (default : NaN).
16    %               'tileNo' is a map of tile indices (default is face number)
17    %               'coord' is auxilliary coordinates attribute (e.g. 'lon lat dep')
18  %netcdf dimensions : array dimensions are simply set to 'i1,i2,...'  %netcdf dimensions : array dimensions are simply set to 'i1,i2,...'
19    
20  gcmfaces_global;  gcmfaces_global;
21    if ~(myenv.useNativeMatlabNetcdf);
22      error('only native matlab nectdf is supported in write2nctiles');
23    end;
24    
25  doCheck=0;%set to one to print stuff to screen  doCheck=0;%set to one to print stuff to screen
26    
27    fldInIsaGcmfaces=isa(fldIn,'gcmfaces');
28    
29  %set more optional paramaters to default values  %set more optional paramaters to default values
30  descr='';  descr='';
31    rdm='';
32  fldName=inputname(2); longName='';  fldName=inputname(2); longName='';
33  units='(unknown)'; missval=NaN; fillval=NaN;  units='(unknown)'; missval=NaN; fillval=NaN; dimIn=[];
34  dimIn=[];  tileNo=mygrid.XC; for ff=1:mygrid.nFaces; tileNo{ff}(:)=ff; end;
35    coord='';
36    
37  %set more optional paramaters to user defined values  %set more optional paramaters to user defined values
38  for ii=1:nargin-3;  for ii=1:nargin-3;
# Line 41  for ii=1:nargin-3; Line 51  for ii=1:nargin-3;
51              '         Type ''help write2nctiles'' for details.']);              '         Type ''help write2nctiles'' for details.']);
52      else;      else;
53          if strcmp(varargin{ii}{1},'descr')|...          if strcmp(varargin{ii}{1},'descr')|...
54                    strcmp(varargin{ii}{1},'rdm')|...
55                  strcmp(varargin{ii}{1},'fldName')|...                  strcmp(varargin{ii}{1},'fldName')|...
56                  strcmp(varargin{ii}{1},'longName')|...                  strcmp(varargin{ii}{1},'longName')|...
57                  strcmp(varargin{ii}{1},'units')|...                  strcmp(varargin{ii}{1},'units')|...
58                  strcmp(varargin{ii}{1},'missval')|...                  strcmp(varargin{ii}{1},'missval')|...
59                  strcmp(varargin{ii}{1},'fillval')|...                  strcmp(varargin{ii}{1},'fillval')|...
60                    strcmp(varargin{ii}{1},'tileNo')|...
61                    strcmp(varargin{ii}{1},'coord')|...
62                  strcmp(varargin{ii}{1},'dimIn');                  strcmp(varargin{ii}{1},'dimIn');
63              eval([varargin{ii}{1} '=varargin{ii}{2};']);              eval([varargin{ii}{1} '=varargin{ii}{2};']);
64          else;          else;
# Line 55  for ii=1:nargin-3; Line 68  for ii=1:nargin-3;
68      end;      end;
69  end;  end;
70    
71  for ff=1:mygrid.nFaces;  %split fldIn (if isa gcmfaces) into tiles
72    tileList=unique(convert2vector(tileNo));
73    tileList=tileList(~isnan(tileList));
74    ntile=length(tileList);
75    %
76    if fldInIsaGcmfaces;
77     for ff=1:ntile;
78       tmp1=[];
79       for gg=1:mygrid.nFaces;
80         [tmpi,tmpj]=find(tileNo{gg}==ff);
81         if ~isempty(tmpi);
82           tmpi=[min(tmpi(:)):max(tmpi(:))];
83           tmpj=[min(tmpj(:)):max(tmpj(:))];
84           tmp1=fldIn{gg}(tmpi,tmpj,:,:);
85         end;
86       end;
87       fldTiles{ff}=tmp1;
88     end;
89     clear fldIn;
90    end;
91    
92    %start processing loop
93    for ff=1:ntile;
94    
95  if isa(fldIn,'gcmfaces');  if fldInIsaGcmfaces;
96    fldTile=fldIn{ff};    fldTile=fldTiles{ff};
97    %reverse order of dimensions    %reverse order of dimensions
98    nn=length(size(fldTile));    nn=length(size(fldTile));
99    fldTile=permute(fldTile,[nn:-1:1]);    fldTile=permute(fldTile,[nn:-1:1]);
100      if ntile==1; clear fldTiles; end;
101  else;  else;
102    fldTile=fldIn;    fldTile=fldIn;
103  end;  end;
104  fileTile=[fileOut sprintf('.%03d.nc',ff)];  fileTile=[fileOut sprintf('.%04d.nc',ff)];
105    
106  %select dimensions of relevance:  %select dimensions of relevance:
107  nDim=length(size(fldTile));  nDim=length(size(fldTile));
# Line 106  dimOut{ff}=dimlist; Line 142  dimOut{ff}=dimlist;
142  if doCreate;  if doCreate;
143    %create netcdf file:    %create netcdf file:
144    %-------------------    %-------------------
145    ncid=nccreate(fileTile,'NETCDF4');    if prod(size(fldTile))*4/1e9<1.5;%use (always available) basic ncetcf:
146        mode='clobber';
147      else;%to allow for large file:
148        mode='NETCDF4';
149      end;
150      ncid=nccreate(fileTile,mode);
151      nc_global=netcdf.getConstant('NC_GLOBAL');
152    
153    aa=sprintf([descr '    [file created with gcmfaces_IO/write2nctiles.m]']);    if ~isempty(rdm);
154    ncputAtt(ncid,'','description',aa);      descr2=[descr ' -- ' rdm{1}];
155      else;
156        descr2=descr;
157      end;
158      ncputAtt(ncid,'','description',descr2);
159      for pp=2:length(rdm);
160      tmp1=char(pp+63);
161      netcdf.putAtt(ncid,nc_global,tmp1,rdm{pp});
162      end;
163      %append readme
164      pp=length(rdm)+1;
165      netcdf.putAtt(ncid,nc_global,tmp1,'file created using gcmfaces_IO/write2nctiles.m');
166    ncputAtt(ncid,'','date',date);    ncputAtt(ncid,'','date',date);
167      netcdf.putAtt(ncid,nc_global,'Conventions','CF-1.6')  
168    
169      ncputAtt(ncid,'','_FillValue',fillval);
170      ncputAtt(ncid,'','missing_value',missval);
171    
172    ncdefDim(ncid,'itxt',30);    ncdefDim(ncid,'itxt',30);
173    for dd=1:length(dimlist); ncdefDim(ncid,dimlist{dd},dimsize(dd)); end;    for dd=1:length(dimlist); ncdefDim(ncid,dimlist{dd},dimsize(dd)); end;
# Line 118  if doCreate; Line 175  if doCreate;
175    for dd=1:length(dimlist);    for dd=1:length(dimlist);
176      ncdefVar(ncid,dimlist{dd},'double',{dimlist{dd}});      ncdefVar(ncid,dimlist{dd},'double',{dimlist{dd}});
177      ncputAtt(ncid,dimlist{dd},'long_name',dimName{dd});      ncputAtt(ncid,dimlist{dd},'long_name',dimName{dd});
178        ncputAtt(ncid,dimlist{dd},'units','1');
179    end;    end;
180    ncclose(ncid);    ncclose(ncid);
181    
# Line 136  if ~isempty(dimIn); dimlist=dimIn{ff}; e Line 194  if ~isempty(dimIn); dimlist=dimIn{ff}; e
194  %define and fill field:  %define and fill field:
195  %----------------------  %----------------------
196  ncid=ncopen(fileTile,'write');  ncid=ncopen(fileTile,'write');
197  if (myenv.useNativeMatlabNetcdf); netcdf.reDef(ncid); end;  %
198    netcdf.reDef(ncid);
199  ncdefVar(ncid,fldName,'double',flipdim(dimlist,2));%note the direction flip  ncdefVar(ncid,fldName,'double',flipdim(dimlist,2));%note the direction flip
200  if ~isempty(longName); ncputAtt(ncid,fldName,'long_name',longName); end;  if ~isempty(longName); ncputAtt(ncid,fldName,'long_name',longName); end;
201  if ~isempty(units); ncputAtt(ncid,fldName,'units',units); end;  if ~isempty(units); ncputAtt(ncid,fldName,'units',units); end;
202  ncputAtt(ncid,fldName,'missing_value',missval);  if ~isempty(coord); ncputAtt(ncid,fldName,'coordinates',coord); end;
203  if (myenv.useNativeMatlabNetcdf); netcdf.endDef(ncid); end;  if strcmp(fldName,'lon'); ncputAtt(ncid,fldName,'standard_name','longitude'); end;
204    if strcmp(fldName,'lat'); ncputAtt(ncid,fldName,'standard_name','latitude'); end;
205    if strcmp(fldName,'dep'); ncputAtt(ncid,fldName,'standard_name','depth'); end;
206    if strcmp(fldName,'tim'); ncputAtt(ncid,fldName,'standard_name','time'); end;
207    if strcmp(fldName,'land'); ncputAtt(ncid,fldName,'standard_name','land_binary_mask'); end;
208    if strcmp(fldName,'area'); ncputAtt(ncid,fldName,'standard_name','cell_area'); end;
209    if strcmp(fldName,'thic'); ncputAtt(ncid,fldName,'standard_name','cell_thickness'); end;
210    netcdf.endDef(ncid);
211    %
212  ncputvar(ncid,fldName,fldTile);  ncputvar(ncid,fldName,fldTile);
213  ncclose(ncid);  ncclose(ncid);
214    
215  end;%for ff=1:mygrid.nFaces;  end;%for ff=1:ntile;
216    
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