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jmc |
1.1 |
function [AA] = rdmds(fname,varargin) |
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% |
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% Read MITgcmUV Meta/Data files |
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% |
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% A = RDMDS(FNAME) reads data described by meta/data file format. |
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% FNAME is a string containing the "head" of the file names. |
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% |
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% eg. To load the meta-data files |
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% T.0000002880.000.000.meta, T.0000002880.000.000.data |
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% T.0000002880.001.000.meta, T.0000002880.001.000.data |
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% T.0000002880.002.000.meta, T.0000002880.002.000.data |
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% T.0000002880.003.000.meta, T.0000002880.003.000.data |
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% use |
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% >> A=rdmds('T.0000002880'); |
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% |
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% A = RDMDS(FNAME,MACHINEFORMAT) allows the machine format to be specified |
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% which MACHINEFORMAT is on of the following strings: |
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% |
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% 'native' or 'n' - local machine format - the default |
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% 'ieee-le' or 'l' - IEEE floating point with little-endian |
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% byte ordering |
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% 'ieee-be' or 'b' - IEEE floating point with big-endian |
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% byte ordering |
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% 'vaxd' or 'd' - VAX D floating point and VAX ordering |
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% 'vaxg' or 'g' - VAX G floating point and VAX ordering |
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% 'cray' or 'c' - Cray floating point with big-endian |
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% byte ordering |
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% 'ieee-le.l64' or 'a' - IEEE floating point with little-endian |
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% byte ordering and 64 bit long data type |
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% 'ieee-be.l64' or 's' - IEEE floating point with big-endian byte |
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% ordering and 64 bit long data type. |
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% |
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jmc |
1.3 |
% $Header: $ |
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jmc |
1.1 |
% $Name: $ |
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% Default options |
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ieee='b'; |
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% Check optional arguments |
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args=char(varargin); |
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while (size(args,1) > 0) |
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if deblank(args(1,:)) == 'n' | deblank(args(1,:)) == 'native' |
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ieee='n'; |
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elseif deblank(args(1,:)) == 'l' | deblank(args(1,:)) == 'ieee-le' |
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ieee='l'; |
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elseif deblank(args(1,:)) == 'b' | deblank(args(1,:)) == 'ieee-be' |
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ieee='b'; |
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elseif deblank(args(1,:)) == 'c' | deblank(args(1,:)) == 'cray' |
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ieee='c'; |
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elseif deblank(args(1,:)) == 'a' | deblank(args(1,:)) == 'ieee-le.l64' |
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ieee='a'; |
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elseif deblank(args(1,:)) == 's' | deblank(args(1,:)) == 'ieee-be.l64' |
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ieee='s'; |
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else |
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error(['Optional argument ' args(1,:) ' is unknown']) |
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end |
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args=args(2:end,:); |
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end |
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% Match name of all meta-files |
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eval(['ls ' fname '*.meta;']); |
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allfiles=ans; |
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% Beginning and end of strings |
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Iend=findstr(allfiles,'.meta')+4; |
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Ibeg=[1 Iend(1:end-1)+2]; |
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% Loop through allfiles |
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for j=1:prod(size(Ibeg)), |
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% Read meta- and data-file |
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[A,N] = localrdmds(allfiles(Ibeg(j):Iend(j)),ieee); |
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bdims=N(1,:); |
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r0=N(2,:); |
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rN=N(3,:); |
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ndims=prod(size(bdims)); |
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if (ndims == 1) |
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AA(r0(1):rN(1))=A; |
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elseif (ndims == 2) |
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AA(r0(1):rN(1),r0(2):rN(2))=A; |
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elseif (ndims == 3) |
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AA(r0(1):rN(1),r0(2):rN(2),r0(3):rN(3))=A; |
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elseif (ndims == 4) |
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AA(r0(1):rN(1),r0(2):rN(2),r0(3):rN(3),r0(4):rN(4))=A; |
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else |
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error('Dimension of data set is larger than currently coded. Sorry!') |
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end |
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end |
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%------------------------------------------------------------------------------- |
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function [A,N] = localrdmds(fname,ieee) |
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mname=strrep(fname,' ',''); |
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dname=strrep(mname,'.meta','.data'); |
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% Read and interpret Meta file |
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fid = fopen(mname,'r'); |
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if (fid == -1) |
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error(['File' mname ' could not be opened']) |
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end |
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% Scan each line of the Meta file |
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allstr=' '; |
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keepgoing = 1; |
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while keepgoing > 0, |
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line = fgetl(fid); |
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if (line == -1) |
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keepgoing=-1; |
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else |
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% Strip out "(PID.TID *.*)" by finding first ")" |
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%old ind=findstr([line ')'],')'); line=line(ind(1)+1:end); |
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ind=findstr(line,')'); |
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if size(ind) ~= 0 |
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line=line(ind(1)+1:end); |
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end |
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% Remove comments of form // |
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line=[line ' //']; ind=findstr(line,'//'); line=line(1:ind(1)-1); |
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% Add to total string |
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allstr=[allstr line]; |
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end |
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end |
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% Close meta file |
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fclose(fid); |
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% Strip out comments of form /* ... */ |
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ind1=findstr(allstr,'/*'); ind2=findstr(allstr,'*/'); |
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if size(ind1) ~= size(ind2) |
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error('The /* ... */ comments are not properly paired') |
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end |
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while size(ind1,2) > 0 |
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allstr=[allstr(1:ind1(1)-1) allstr(ind2(1)+3:end)]; |
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ind1=findstr(allstr,'/*'); ind2=findstr(allstr,'*/'); |
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end |
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% This is a kludge to catch whether the meta-file is of the |
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% old or new type. nrecords does not exist in the old type. |
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nrecords = -987; |
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% Everything in lower case |
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allstr=lower(allstr); |
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% Fix the unfortunate choice of 'format' |
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allstr=strrep(allstr,'format','dataprec'); |
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% Evaluate meta information |
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eval(allstr); |
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N=reshape( dimlist , 3 , prod(size(dimlist))/3 ); |
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if nrecords == -987 |
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% This is the old 'meta' method that used sequential access |
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A=allstr; |
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% Open data file |
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fid=fopen(dname,'r',ieee); |
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% Read record size in bytes |
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recsz=fread(fid,1,'uint32'); |
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ldims=N(3,:)-N(2,:)+1; |
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numels=prod(ldims); |
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rat=recsz/numels; |
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if rat == 4 |
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A=fread(fid,numels,'real*4'); |
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elseif rat == 8 |
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A=fread(fid,numels,'real*8'); |
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else |
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sprintf(' Implied size in meta-file = %d', numels ) |
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sprintf(' Record size in data-file = %d', recsz ) |
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error('Ratio between record size and size in meta-file inconsistent') |
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end |
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erecsz=fread(fid,1,'uint32'); |
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if erecsz ~= recsz |
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sprintf('WARNING: Record sizes at beginning and end of file are inconsistent') |
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end |
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fclose(fid); |
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A=reshape(A,ldims); |
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else |
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% This is the new MDS format that uses direct access |
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ldims=N(3,:)-N(2,:)+1; |
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if dataprec == 'float32' |
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A=myrdda(dname,ldims,1,'real*4',ieee); |
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elseif dataprec == 'float64' |
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A=myrdda(dname,ldims,1,'real*8',ieee); |
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else |
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error(['Unrecognized format in meta-file = ' format]); |
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end |
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end |
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%------------------------------------------------------------------------------- |
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% result = RDDA( file, dim, irec [options] ) |
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% |
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% This routine reads the irec'th record of shape 'dim' from the |
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% direct-access binary file (float or double precision) 'file'. |
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% |
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% Required arguments: |
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% |
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% file - string - name of file to read from |
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% dim - vector - dimensions of the file records and the resulting array |
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% irec - integer - record number in file in which to write data |
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% |
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% Optional arguments (must appear after the required arguments): |
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% prec - string - precision of storage in file. Default = 'real*8'. |
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% ieee - string - IEEE bit-wise representation in file. Default = 'b'. |
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% |
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% 'prec' may take the values: |
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% 'real*4' - floating point, 32 bits. |
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% 'real*8' - floating point, 64 bits - the efault. |
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% |
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% 'ieee' may take values: |
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% 'ieee-be' or 'b' - IEEE floating point with big-endian |
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% byte ordering - the default |
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% 'ieee-le' or 'l' - IEEE floating point with little-endian |
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% byte ordering |
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% 'native' or 'n' - local machine format |
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% 'cray' or 'c' - Cray floating point with big-endian |
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% byte ordering |
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% 'ieee-le.l64' or 'a' - IEEE floating point with little-endian |
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% byte ordering and 64 bit long data type |
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% 'ieee-be.l64' or 's' - IEEE floating point with big-endian byte |
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% ordering and 64 bit long data type. |
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% |
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% eg. T=rdda('t.data',[64 64 32],1); |
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% T=rdda('t.data',[256],4,'real*4'); |
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% T=rdda('t.data',[128 64],2,'real*4','b'); |
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function [arr] = myrdda(file,N,k,varargin) |
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% Defaults |
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WORDLENGTH=8; |
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rtype='real*8'; |
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ieee='b'; |
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% Check optional arguments |
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args=char(varargin); |
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while (size(args,1) > 0) |
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if deblank(args(1,:)) == 'real*4' |
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WORDLENGTH=4; |
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rtype='real*4'; |
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elseif deblank(args(1,:)) == 'real*8' |
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WORDLENGTH=8; |
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rtype='real*8'; |
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elseif deblank(args(1,:)) == 'n' | deblank(args(1,:)) == 'native' |
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ieee='n'; |
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elseif deblank(args(1,:)) == 'l' | deblank(args(1,:)) == 'ieee-le' |
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ieee='l'; |
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elseif deblank(args(1,:)) == 'b' | deblank(args(1,:)) == 'ieee-be' |
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ieee='b'; |
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elseif deblank(args(1,:)) == 'c' | deblank(args(1,:)) == 'cray' |
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ieee='c'; |
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elseif deblank(args(1,:)) == 'a' | deblank(args(1,:)) == 'ieee-le.l64' |
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ieee='a'; |
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elseif deblank(args(1,:)) == 's' | deblank(args(1,:)) == 'ieee-be.l64' |
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ieee='s'; |
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else |
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error(['Optional argument ' args(1,:) ' is unknown']) |
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end |
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args=args(2:end,:); |
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end |
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nnn=prod(N); |
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[fid mess]=fopen(file,'r',ieee); |
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if fid == -1 |
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error('Error while opening file:\n%s',mess) |
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end |
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st=fseek(fid,nnn*(k-1)*WORDLENGTH,'bof'); |
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if st ~= 0 |
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mess=ferror(fid); |
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error('There was an error while positioning the file pointer:\n%s',mess) |
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end |
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[arr count]=fread(fid,nnn,rtype); |
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if count ~= nnn |
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error('Not enough data was available to be read: off EOF?') |
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end |
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st=fclose(fid); |
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arr=reshape(arr,N); |
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