source: trunk/src/struct2nc.m @ 106

Last change on this file since 106 was 106, checked in by sommeria, 11 years ago

merge_proj and series.m: bug for use of mmreader corrected
struct2nc: bug for regularly meshed coordinates corrected (builtin netcdf lib)

File size: 6.4 KB
Line 
1% 'struct2nc': create a netcdf file from a Matlab structure
2%---------------------------------------------------------------------
3% errormsg=struct2nc(flname,Data)
4%
5% OUPUT:
6% errormsg=error message, =[]: default, no error
7%
8% INPUT:
9% flname: name of the netcdf file to create (must end with the extension '.nc')
10%  Data: structure containing all the information of the netcdf file (or netcdf object)
11%           with fields:
12%       (optional) .ListGlobalAttribute: list (cell array of character strings) of the names of the global attributes Att_1, Att_2...
13%                  .Att_1,Att_2...: values of the global attributes
14%      (requested) .ListVarName: list of the variable names Var_1, Var_2....(cell array of character strings).
15%      (requested) .VarDimName: list of dimension names for each element of .ListVarName (cell array of string cells)
16%       (optional) .VarAttribute: cell array of structures of the form .VarAttribute{ivar}.key=value, defining an attribute key name and value for the variable #ivar
17%      (requested) .Var1, .Var2....: variables (Matlab arrays) with names listed in .ListVarName
18
19%AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
20%  Copyright Joel Sommeria, 2008, LEGI / CNRS-UJF-INPG, sommeria@coriolis-legi.org.
21%AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
22%     This file is part of the toolbox UVMAT.
23%
24%     UVMAT is free software; you can redistribute it and/or modify
25%     it under the terms of the GNU General Public License as published by
26%     the Free Software Foundation; either version 2 of the License, or
27%     (at your option) any later version.
28%
29%     UVMAT is distributed in the hope that it will be useful,
30%     but WITHOUT ANY WARRANTY; without even the implied warranty of
31%     MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE.  See the
32%     GNU General Public License (file UVMAT/COPYING.txt) for more details.
33%AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
34
35function errormsg=struct2nc(flname,Data)
36if ~ischar(flname)
37    errormsg='no name input for the netcf file';
38    return
39end
40if ~exist('Data','var')
41     errormsg='no data  input for the netcdf file';
42    return
43end
44hhh=which('netcdf.create');% look for built-in matlab library
45
46%USE OF built-in  netcdf library
47if ~isequal(hhh,'')
48    FilePath=fileparts(flname);
49    if ~strcmp(FilePath,'') && ~exist(FilePath,'dir')
50        errormsg=['directory ' FilePath ' needs to be created'];
51        return
52    end
53    [Data,errormsg]=check_field_structure(Data);%check the validity of the input field structure
54    ListVarName=Data.ListVarName;
55    nc=netcdf.create(flname,'NC_CLOBBER');%,'clobber'); %create the netcdf file with name flname   
56    %write global constants
57    if isfield(Data,'ListGlobalAttribute')
58        keys=Data.ListGlobalAttribute;
59        for iattr=1:length(keys)
60            if isfield(Data,keys{iattr})
61                 testvar=0;
62                for ivar=1:length(ListVarName)% eliminate possible global attributes with the same name as a variable
63                    if isequal(ListVarName{ivar}, keys{iattr})
64                        testvar=1;
65                        break
66                    end
67                end
68                if ~testvar               
69                    eval(['cte=Data.' keys{iattr} ';'])
70                    if (ischar(cte) ||isnumeric(cte)) &&  ~isempty(cte)&& ~isequal(cte,'')
71                        netcdf.putAtt(nc,netcdf.getConstant('NC_GLOBAL'),keys{iattr},cte)
72                    else
73                        errormsg='global attributes must be characters or numbers';
74                        return
75                    end
76                end
77            end
78        end
79    end
80    %create dimensions
81    dimid=[];
82    for idim=1:length(Data.ListDimName)
83         dimid(idim) = netcdf.defDim(nc,Data.ListDimName{idim},Data.DimValue(idim));
84    end
85    VarAttribute={}; %default
86    testattr=0;
87    if isfield(Data,'VarAttribute')
88        VarAttribute=Data.VarAttribute;
89        testattr=1;
90    end
91    varid=[];
92    for ivar=1:length(ListVarName)
93        varid(ivar)=netcdf.defVar(nc,ListVarName{ivar},'double',dimid(Data.VarDimIndex{ivar}));%define variable 
94    end
95     %write variable attributes
96    if testattr
97        for ivar=1:length(VarAttribute) 
98            if isstruct(VarAttribute{ivar})
99                attr_names=fields(VarAttribute{ivar});
100                for iattr=1:length(attr_names)
101                    eval(['attr_val=VarAttribute{ivar}.' attr_names{iattr} ';']);
102                    if ~isempty(attr_names{iattr})&& ~isempty(attr_val)
103                        netcdf.putAtt(nc,varid(ivar),attr_names{iattr},attr_val);
104                    end
105                end
106            end
107        end
108    end
109    netcdf.endDef(nc); %put in data mode
110    for ivar=1:length(ListVarName)
111        if isfield(Data,ListVarName{ivar})
112            eval(['VarVal=Data.' ListVarName{ivar} ';'])%varval=values of the current variable
113            VarDimIndex=Data.VarDimIndex{ivar}; %indices of the variable dimensions in the list of dimensions
114            siz=size(VarVal);
115            VarDimName=Data.VarDimName{ivar};
116            if ischar(VarDimName)
117                VarDimName={VarDimName};
118            end
119            testrange=(numel(VarDimName)==1 && strcmp(VarDimName{1},ListVarName{ivar}) && numel(VarVal)==2);
120            testline=isequal(length(siz),2) && isequal(siz(1),1)&& isequal(siz(2), Data.DimValue(VarDimIndex));
121            testcolumn=isequal(length(siz),2) && isequal(siz(1), Data.DimValue(VarDimIndex))&& isequal(siz(2),1);
122            if ~testrange && ~testline && ~testcolumn && ~isequal(siz,Data.DimValue(VarDimIndex))
123                errormsg=['wrong dimensions declared for ' ListVarName{ivar} ' in struct2nc.m'];
124                break
125            end
126            if testline || testrange
127                if testrange
128                    VarVal=linspace(VarVal(1),VarVal(2),Data.DimValue(VarDimIndex));
129                end
130               %nc{ListVarName{ivar}}=ncfloat(Data.ListDimName(VarDimIndex));%vector of x coordinates
131               netcdf.putVar(nc,varid(ivar), double(VarVal'));
132            else
133                netcdf.putVar(nc,varid(ivar), double(VarVal));
134                %nc{ListVarName{ivar}}(:) = VarVal;
135            end
136           
137        end
138    end
139%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%
140%OLD netcdf toolbox
141else
142    errormsg=struct2nc_toolbox(flname,Data);
143end
144
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