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gforget |
1.1 |
%function: MITprof_create |
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%object: read netcdf data files in the "MIT format" |
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%author: Gael Forget (gforget@mit.edu) |
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%date: june 21th, 2006 |
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% |
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%usage: []=MITprof_create(dirOut,fileOut,specs); |
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% ---> create an empty MITprof netcdf file that contains all T/S fields |
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% []=MITprof_create(dirOut,fileOut,specs,list_vars); |
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% ---> same but specifying the list of variables in list_vars cell |
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% array (e.g. list_vars={'prof_T','prof_Tweight'}). |
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% |
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%inputs: dirOut data file directory |
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% fileOut data file name |
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% specs {iProf,iLev,lTXT,fillval} |
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% nProf is the number of profiles |
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% nLev is the number of levels, |
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% nChar is the length of profiles description |
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% (list_vars optional variable list) |
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% |
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%outputs: (none) |
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function []=MITprof_create(dirOut,fileOut,specs,varargin); |
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%=============list of variables that will actually be in the file==============% |
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if nargin>4; list_vars=varargin{1}; |
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gforget |
1.2 |
else; list_vars={'prof_T','prof_Tweight','prof_Testim','prof_Terr','prof_Tflag',... |
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'prof_S','prof_Sweight','prof_Sestim','prof_Serr','prof_Sflag'}; |
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gforget |
1.1 |
end; |
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list_vars_plus=[{'prof_depth','prof_date','prof_YYYYMMDD','prof_HHMMSS',... |
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'prof_lon','prof_lat','prof_basin','prof_point'}... |
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list_vars]; |
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%==========masters table of variables, units, names and dimensions=============% |
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mt_v={'prof_depth'}; mt_u={'me'}; mt_n={'depth'}; mt_d={'iDEPTH'}; |
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%mt_v=[mt_v '']; mt_u=[mt_u ' ']; mt_n=[mt_n '']; mt_d=[mt_d '']; |
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mt_v=[mt_v 'prof_date']; mt_u=[mt_u ' ']; mt_n=[mt_n 'Julian day since Jan-1-0000']; mt_d=[mt_d 'iPROF']; |
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mt_v=[mt_v 'prof_YYYYMMDD']; mt_u=[mt_u ' ']; mt_n=[mt_n 'year (4 digits), month (2 digits), day (2 digits)']; mt_d=[mt_d 'iPROF']; |
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mt_v=[mt_v 'prof_HHMMSS']; mt_u=[mt_u ' ']; mt_n=[mt_n 'hour (2 digits), minute (2 digits), second (2 digits)']; mt_d=[mt_d 'iPROF']; |
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mt_v=[mt_v 'prof_lon']; mt_u=[mt_u ' ']; mt_n=[mt_n 'Longitude (degree East)']; mt_d=[mt_d 'iPROF']; |
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mt_v=[mt_v 'prof_lat']; mt_u=[mt_u ' ']; mt_n=[mt_n 'Latitude (degree North)']; mt_d=[mt_d 'iPROF']; |
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mt_v=[mt_v 'prof_basin']; mt_u=[mt_u ' ']; mt_n=[mt_n 'ocean basin index (ecco 4g)']; mt_d=[mt_d 'iPROF']; |
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mt_v=[mt_v 'prof_point']; mt_u=[mt_u ' ']; mt_n=[mt_n 'grid point index (ecco 4g)']; mt_d=[mt_d 'iPROF']; |
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% |
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mt_v=[mt_v 'prof_T']; mt_u=[mt_u 'degree C']; mt_n=[mt_n 'potential temperature']; mt_d=[mt_d 'iPROF,iDEPTH']; |
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mt_v=[mt_v 'prof_Tweight']; mt_u=[mt_u '(degree C)^-2']; mt_n=[mt_n 'pot. temp. least-square weight']; mt_d=[mt_d 'iPROF,iDEPTH']; |
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gforget |
1.2 |
mt_v=[mt_v 'prof_Testim']; mt_u=[mt_u 'degree C']; mt_n=[mt_n 'pot. temp. estimate (e.g. from atlas)']; mt_d=[mt_d 'iPROF,iDEPTH']; |
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gforget |
1.1 |
mt_v=[mt_v 'prof_Terr']; mt_u=[mt_u 'degree C']; mt_n=[mt_n 'pot. temp. instrumental error']; mt_d=[mt_d 'iPROF,iDEPTH']; |
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gforget |
1.2 |
mt_v=[mt_v 'prof_Tflag']; mt_u=[mt_u ' ']; mt_n=[mt_n 'flag = i > 0 means test i rejected data.']; mt_d=[mt_d 'iPROF,iDEPTH']; |
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gforget |
1.1 |
% |
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mt_v=[mt_v 'prof_S']; mt_u=[mt_u 'psu']; mt_n=[mt_n 'salinity']; mt_d=[mt_d 'iPROF,iDEPTH']; |
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mt_v=[mt_v 'prof_Sweight']; mt_u=[mt_u '(psu)^-2']; mt_n=[mt_n 'salinity least-square weight']; mt_d=[mt_d 'iPROF,iDEPTH']; |
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gforget |
1.2 |
mt_v=[mt_v 'prof_Sestim']; mt_u=[mt_u 'psu']; mt_n=[mt_n 'salinity estimate (e.g. from atlas)']; mt_d=[mt_d 'iPROF,iDEPTH']; |
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gforget |
1.1 |
mt_v=[mt_v 'prof_Serr']; mt_u=[mt_u 'psu']; mt_n=[mt_n 'salinity instrumental error']; mt_d=[mt_d 'iPROF,iDEPTH']; |
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gforget |
1.2 |
mt_v=[mt_v 'prof_Sflag']; mt_u=[mt_u ' ']; mt_n=[mt_n 'flag = i > 0 means test i rejected data.']; mt_d=[mt_d 'iPROF,iDEPTH']; |
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gforget |
1.1 |
% |
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mt_v=[mt_v 'prof_U']; mt_u=[mt_u 'm/s']; mt_n=[mt_n 'eastward velocity comp.']; mt_d=[mt_d 'iPROF,iDEPTH']; |
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mt_v=[mt_v 'prof_Uweight']; mt_u=[mt_u '(m/s)^-2']; mt_n=[mt_n 'east. v. least-square weight']; mt_d=[mt_d 'iPROF,iDEPTH']; |
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mt_v=[mt_v 'prof_V']; mt_u=[mt_u 'm/s']; mt_n=[mt_n 'northward velocity comp.']; mt_d=[mt_d 'iPROF,iDEPTH']; |
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mt_v=[mt_v 'prof_Vweight']; mt_u=[mt_u '(m/s)^-2']; mt_n=[mt_n 'north. v. least-square weight']; mt_d=[mt_d 'iPROF,iDEPTH']; |
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mt_v=[mt_v 'prof_ptr']; mt_u=[mt_u 'X']; mt_n=[mt_n 'passive tracer']; mt_d=[mt_d 'iPROF,iDEPTH']; |
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mt_v=[mt_v 'prof_ptrweight']; mt_u=[mt_u '(X)^-2']; mt_n=[mt_n 'pass. tracer least-square weight']; mt_d=[mt_d 'iPROF,iDEPTH']; |
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% |
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mt_v=[mt_v 'prof_bp']; mt_u=[mt_u 'cm']; mt_n=[mt_n 'bottom pressure']; mt_d=[mt_d 'iPROF']; |
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mt_v=[mt_v 'prof_bpweight']; mt_u=[mt_u '(cm)^-2']; mt_n=[mt_n 'bot. pres. least-square weight']; mt_d=[mt_d 'iPROF']; |
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mt_v=[mt_v 'prof_ssh']; mt_u=[mt_u 'cm']; mt_n=[mt_n 'sea surface height']; mt_d=[mt_d 'iPROF']; |
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mt_v=[mt_v 'prof_sshweight']; mt_u=[mt_u '(cm)^-2']; mt_n=[mt_n 'ssh least-square weight']; mt_d=[mt_d 'iPROF']; |
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%=============================create the file=================================% |
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if ~strcmp(fileOut(end-2:end),'.nc'); suff='.nc'; else; suff=''; end; |
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nc=netcdf([dirOut fileOut suff],'clobber'); |
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gforget |
1.3 |
%put a couple global attributes |
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aa=sprintf(['Format: MITprof. This file was created using \n' ... |
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'the matlab toolbox which can be obtained (see README) from \n'... |
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'http://mitgcm.org/viewvc/MITgcm/MITgcm_contrib/gael/profilesMatlabProcessing/']); |
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nc.description=aa; |
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nc.date = date; |
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gforget |
1.1 |
%define netcdf dimensions : |
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iPROF=specs{1}; iDEPTH=specs{2}; |
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lTXT=specs{3}; fillval=specs{4}; |
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nc('iPROF') = iPROF; |
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nc('iDEPTH') = iDEPTH; |
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nc('lTXT') = lTXT; |
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%mt_v=[mt_v 'prof_descr']; mt_u=[mt_u ' ']; mt_n=[mt_n 'profile description']; mt_d=[mt_d 'iPROF,lTXT']; |
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nc{'prof_descr'} = ncchar('iPROF','lTXT'); |
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nc{'prof_descr'}.long_name='profile description'; |
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for ii=1:length(list_vars_plus); |
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jj=find(strcmp(mt_v,list_vars_plus{ii})); |
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if ~isempty(jj); |
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if strcmp(mt_d{jj},'iPROF,iDEPTH'); |
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nc{mt_v{jj}} = ncdouble('iPROF','iDEPTH'); |
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else; |
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nc{mt_v{jj}} = mt_d{jj}; |
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end; |
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nc{mt_v{jj}}.long_name = mt_n{jj}; |
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nc{mt_v{jj}}.units = mt_u{jj}; |
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nc{mt_v{jj}}.missing_value=fillval; |
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end; |
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end; |
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close(nc); |
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