/[MITgcm]/MITgcm_contrib/gael/matlab_class/gcmfaces_IO/process2nctiles.m
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revision 1.1 by gforget, Thu Jan 30 17:05:12 2014 UTC revision 1.4 by gforget, Mon Feb 3 14:28:52 2014 UTC
# Line 1  Line 1 
1  function []=process2nctiles(dirModel,fileModel,fldModel);  function []=process2nctiles(dirModel,fileModel,fldModel,tileSize);
2  %process2nctiles(dirModel);  %process2nctiles(dirModel);
3  %object : convert MITgcm binary output to netcdf files (tiled)  %object : convert MITgcm binary output to netcdf files (tiled)
4  %inputs : dirModel is the MITgcm run directory  %inputs : dirModel is the MITgcm run directory
# Line 9  function []=process2nctiles(dirModel,fil Line 9  function []=process2nctiles(dirModel,fil
9  %           By default : all variables in e.g. 'state_2d_set1*'  %           By default : all variables in e.g. 'state_2d_set1*'
10  %           files will be processed, and writen individually to  %           files will be processed, and writen individually to
11  %           nctiles (tiled netcdf) that will be located in 'nctiles/'  %           nctiles (tiled netcdf) that will be located in 'nctiles/'
12  %         fldModel (optional) can be specifiec as e.g. 'ETAN'  %         fldModel (by default []) can be specified (as e.g. 'ETAN')
13    %            when fldModel is empty, all fields are processed
14    %         tileSize (optional) is e.g. [90 90] (by default tiles=faces)
15  %output : (netcdf files)  %output : (netcdf files)
16    
17  gcmfaces_global;  gcmfaces_global;
18    
 fprintf('to do list : embed README in global attributes\n');  
 fprintf('to do list : create tim variable\n');  
   
19  %directory names  %directory names
20  listDirs={'STATE/','TRSP/'};  listDirs={'STATE/','TRSP/'};
21  filAvailDiag=[dirModel 'available_diagnostics.log'];  filAvailDiag=[dirModel 'available_diagnostics.log'];
22    filReadme=[dirModel 'README'];
23  dirOut=[dirModel 'nctiles/'];  dirOut=[dirModel 'nctiles/'];
24  if ~isdir(dirOut); mkdir(dirOut); end;  if ~isdir(dirOut); mkdir(dirOut); end;
25    
# Line 39  else; Line 39  else;
39  end;  end;
40    
41  %set list of variables to process  %set list of variables to process
42  if ~isempty(who('fldModel'));  if ~isempty(fldModel);
43     if ischar(fldModel); listFlds={fldModel};     if ischar(fldModel); listFlds={fldModel};
44     else; listFlds=fldModel;     else; listFlds=fldModel;
45     end;     end;
# Line 48  else; Line 48  else;
48     listFlds=meta.fldList;     listFlds=meta.fldList;
49  end;  end;
50    
51    %determine map of tile indices (by default tiles=faces)
52    if isempty(whos('tileSize'));
53      tileNo=mygrid.XC;
54      for ff=1:mygrid.nFaces; tileNo{ff}(:)=ff; end;
55    else;
56      tileNo=gcmfaces_loc_tile(tileSize(1),tileSize(2));
57    end;
58    
59  %now do the actual processing  %now do the actual processing
60  for vv=1:length(listFlds);  for vv=1:length(listFlds);
61  nameDiag=deblank(listFlds{vv})  nameDiag=deblank(listFlds{vv})
# Line 61  if length(irec)~=1; error('field not in Line 69  if length(irec)~=1; error('field not in
69  myDiag=rdmds2gcmfaces([dirIn fileModel '*'],NaN,'rec',irec);  myDiag=rdmds2gcmfaces([dirIn fileModel '*'],NaN,'rec',irec);
70    
71  %ancilliary fields for netcdf file  %ancilliary fields for netcdf file
72  tim=[1:size(myDiag{1},3)];  nn=length(size(myDiag{1}));
73  timName='month index';  tim=[1:size(myDiag{1},nn)];
74  descr=nameDiag;  descr=nameDiag;
75    
76  %get units and long name from available_diagnostics.log  %get units and long name from available_diagnostics.log
77  [avail_diag]=read_avail_diag(filAvailDiag,nameDiag);  [avail_diag]=read_avail_diag(filAvailDiag,nameDiag);
78    
79    %get description of estimate from README
80    [rdm]=read_readme(filReadme);
81    disp(rdm');
82    
83  %convert to MITgcm format (90x1170 array)  %convert to MITgcm format (90x1170 array)
84  myFile=[dirOut nameDiag];  myFile=[dirOut nameDiag];%first instance is for subdirectory name
85    if ~isdir(myFile); mkdir(myFile); end;
86    myFile=[myFile '/' nameDiag];%second instance is for file name base
87    
88  %get grid params  %get grid params
89  [grid_diag]=set_grid_diag(avail_diag);  [grid_diag]=set_grid_diag(avail_diag);
90    
91  %create netcdf file using write2nctiles (works only with old matlab, thus far ...)  %create netcdf file using write2nctiles (works only with old matlab, thus far ...)
92  doCreate=1;  doCreate=1;
93  dimOut=write2nctiles(myFile,myDiag,doCreate,...  dimlist=write2nctiles(myFile,myDiag,doCreate,{'tileNo',tileNo},...
94      {'fldName',nameDiag},{'longName',avail_diag.longNameDiag},...      {'fldName',nameDiag},{'longName',avail_diag.longNameDiag},...
95      {'units',avail_diag.units},{'descr',descr});      {'units',avail_diag.units},{'descr',descr},{'rdm',rdm});
96    
97  %prepare to add fields  %determine relevant dimensions
98  doCreate=0;  for ff=1:length(dimlist);
99      dim.tim{ff}={dimlist{ff}{1}};
100  %determine relevant dimensions (note the reverse order)    dim.twoD{ff}={dimlist{ff}{end-1:end}};
101  for ff=1:mygrid.nFaces;    if avail_diag.nr~=1;
102    dim2d{ff}={dimOut{ff}{end-1:end}};      dim.threeD{ff}={dimlist{ff}{end-2:end}};
103    if avail_diag.nr~=1;      dim.dep{ff}={dimlist{ff}{end-2}};
     dimmsk{ff}={dimOut{ff}{end-2:end}};  
     dimdep{ff}={dimOut{ff}{end-2}};  
104    else;    else;
105      dimmsk{ff}=dim2d{ff};      dim.threeD{ff}=dim.twoD{ff};
106      dimdep{ff}=[];      dim.dep{ff}=[];
107    end;    end;
108  end;  end;
109    
110    %prepare to add fields
111    doCreate=0;
112    
113  %now add fields  %now add fields
114  write2nctiles(myFile,grid_diag.lon,doCreate,...  write2nctiles(myFile,tim,doCreate,{'tileNo',tileNo},...
115    {'fldName','longitude'},{'units',''},{'dimIn',dim2d});    {'fldName','month'},{'longName','month index starting Jan. 1992'},...
116  write2nctiles(myFile,grid_diag.lat,doCreate,...    {'units',''},{'dimIn',dim.tim});
117    {'fldName','latitude'},{'units',''},{'dimIn',dim2d});  write2nctiles(myFile,grid_diag.lon,doCreate,{'tileNo',tileNo},...
118  write2nctiles(myFile,grid_diag.msk,doCreate,...    {'fldName','longitude'},{'units',''},{'dimIn',dim.twoD});
119    write2nctiles(myFile,grid_diag.lat,doCreate,{'tileNo',tileNo},...
120      {'fldName','latitude'},{'units',''},{'dimIn',dim.twoD});
121    write2nctiles(myFile,grid_diag.msk,doCreate,{'tileNo',tileNo},...
122    {'fldName','landmask'},{'units',''},...    {'fldName','landmask'},{'units',''},...
123    {'longName','land mask'},{'dimIn',dimmsk});    {'longName','land mask'},{'dimIn',dim.threeD});
124  write2nctiles(myFile,grid_diag.RAC,doCreate,...  write2nctiles(myFile,grid_diag.RAC,doCreate,{'tileNo',tileNo},...
125    {'fldName','cellarea'},{'units','m^2'},...    {'fldName','cellarea'},{'units','m^2'},...
126    {'longName','grid cell area'},{'dimIn',dim2d});    {'longName','grid cell area'},{'dimIn',dim.twoD});
127  if isfield(grid_diag,'dep');  if isfield(grid_diag,'dep');
128      write2nctiles(myFile,grid_diag.dep,doCreate,...      write2nctiles(myFile,grid_diag.dep,doCreate,{'tileNo',tileNo},...
129        {'fldName','depth'},{'units','m'},{'dimIn',dimdep});        {'fldName','depth'},{'units','m'},{'dimIn',dim.dep});
130      write2nctiles(myFile,grid_diag.dz,doCreate,...      write2nctiles(myFile,grid_diag.dz,doCreate,{'tileNo',tileNo},...
131        {'fldName','cellthick'},{'units','m'},{'dimIn',dimdep});        {'fldName','cellthick'},{'units','m'},{'dimIn',dim.dep});
132  end;  end;
133    
134  end;%for vv=1:length(listFlds);  end;%for vv=1:length(listFlds);
# Line 144  if ~isempty(who('timeStepNumber'));  met Line 162  if ~isempty(who('timeStepNumber'));  met
162    
163  %%  %%
164    
165    function [rdm]=read_readme(filReadme);
166    
167    gcmfaces_global;
168    
169    rdm=[];
170    
171    fid=fopen(filReadme,'rt');
172    while ~feof(fid);
173        nn=length(rdm);
174        rdm{nn+1} = fgetl(fid);
175    end;
176    fclose(fid);
177    
178    %%
179    
180  function [avail_diag]=read_avail_diag(filAvailDiag,nameDiag);  function [avail_diag]=read_avail_diag(filAvailDiag,nameDiag);
181    
182  gcmfaces_global;  gcmfaces_global;
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