| 1 |
enderton |
1.1 |
function [AA] = rdmds(fname,varargin) |
| 2 |
|
|
% |
| 3 |
|
|
% Read MITgcmUV Meta/Data files |
| 4 |
|
|
% |
| 5 |
|
|
% A = RDMDS(FNAME) reads data described by meta/data file format. |
| 6 |
|
|
% FNAME is a string containing the "head" of the file names. |
| 7 |
|
|
% |
| 8 |
|
|
% eg. To load the meta-data files |
| 9 |
|
|
% T.0000002880.000.000.meta, T.0000002880.000.000.data |
| 10 |
|
|
% T.0000002880.001.000.meta, T.0000002880.001.000.data |
| 11 |
|
|
% T.0000002880.002.000.meta, T.0000002880.002.000.data |
| 12 |
|
|
% T.0000002880.003.000.meta, T.0000002880.003.000.data |
| 13 |
|
|
% use |
| 14 |
|
|
% >> A=rdmds('T.0000002880'); |
| 15 |
|
|
% |
| 16 |
|
|
% A = RDMDS(FNAME,MACHINEFORMAT) allows the machine format to be specified |
| 17 |
|
|
% which MACHINEFORMAT is on of the following strings: |
| 18 |
|
|
% |
| 19 |
|
|
% 'native' or 'n' - local machine format - the default |
| 20 |
|
|
% 'ieee-le' or 'l' - IEEE floating point with little-endian |
| 21 |
|
|
% byte ordering |
| 22 |
|
|
% 'ieee-be' or 'b' - IEEE floating point with big-endian |
| 23 |
|
|
% byte ordering |
| 24 |
|
|
% 'vaxd' or 'd' - VAX D floating point and VAX ordering |
| 25 |
|
|
% 'vaxg' or 'g' - VAX G floating point and VAX ordering |
| 26 |
|
|
% 'cray' or 'c' - Cray floating point with big-endian |
| 27 |
|
|
% byte ordering |
| 28 |
|
|
% 'ieee-le.l64' or 'a' - IEEE floating point with little-endian |
| 29 |
|
|
% byte ordering and 64 bit long data type |
| 30 |
|
|
% 'ieee-be.l64' or 's' - IEEE floating point with big-endian byte |
| 31 |
|
|
% ordering and 64 bit long data type. |
| 32 |
|
|
% |
| 33 |
|
|
% $Header: /u/gcmpack/MITgcm/utils/matlab/rdmeta.m,v 1.2 2001/05/29 14:01:41 adcroft Exp $ |
| 34 |
|
|
|
| 35 |
|
|
% Default options |
| 36 |
|
|
ieee='b'; |
| 37 |
|
|
|
| 38 |
|
|
% Check optional arguments |
| 39 |
|
|
args=char(varargin); |
| 40 |
|
|
while (size(args,1) > 0) |
| 41 |
|
|
if deblank(args(1,:)) == 'n' | deblank(args(1,:)) == 'native' |
| 42 |
|
|
ieee='n'; |
| 43 |
|
|
elseif deblank(args(1,:)) == 'l' | deblank(args(1,:)) == 'ieee-le' |
| 44 |
|
|
ieee='l'; |
| 45 |
|
|
elseif deblank(args(1,:)) == 'b' | deblank(args(1,:)) == 'ieee-be' |
| 46 |
|
|
ieee='b'; |
| 47 |
|
|
elseif deblank(args(1,:)) == 'c' | deblank(args(1,:)) == 'cray' |
| 48 |
|
|
ieee='c'; |
| 49 |
|
|
elseif deblank(args(1,:)) == 'a' | deblank(args(1,:)) == 'ieee-le.l64' |
| 50 |
|
|
ieee='a'; |
| 51 |
|
|
elseif deblank(args(1,:)) == 's' | deblank(args(1,:)) == 'ieee-be.l64' |
| 52 |
|
|
ieee='s'; |
| 53 |
|
|
else |
| 54 |
|
|
error(['Optional argument ' args(1,:) ' is unknown']) |
| 55 |
|
|
end |
| 56 |
|
|
args=args(2:end,:); |
| 57 |
|
|
end |
| 58 |
|
|
|
| 59 |
|
|
% Match name of all meta-files |
| 60 |
|
|
eval(['ls ' fname '*.meta;']); |
| 61 |
|
|
allfiles=ans; |
| 62 |
|
|
|
| 63 |
|
|
% Beginning and end of strings |
| 64 |
|
|
Iend=findstr(allfiles,'.meta')+4; |
| 65 |
|
|
Ibeg=[1 Iend(1:end-1)+2]; |
| 66 |
|
|
|
| 67 |
|
|
% Loop through allfiles |
| 68 |
|
|
for j=1:prod(size(Ibeg)), |
| 69 |
|
|
|
| 70 |
|
|
% Read meta- and data-file |
| 71 |
|
|
[A,N] = localrdmds(allfiles(Ibeg(j):Iend(j)),ieee); |
| 72 |
|
|
|
| 73 |
|
|
bdims=N(1,:); |
| 74 |
|
|
r0=N(2,:); |
| 75 |
|
|
rN=N(3,:); |
| 76 |
|
|
ndims=prod(size(bdims)); |
| 77 |
|
|
if (ndims == 1) |
| 78 |
|
|
AA(r0(1):rN(1))=A; |
| 79 |
|
|
elseif (ndims == 2) |
| 80 |
|
|
AA(r0(1):rN(1),r0(2):rN(2))=A; |
| 81 |
|
|
elseif (ndims == 3) |
| 82 |
|
|
AA(r0(1):rN(1),r0(2):rN(2),r0(3):rN(3))=A; |
| 83 |
|
|
elseif (ndims == 4) |
| 84 |
|
|
AA(r0(1):rN(1),r0(2):rN(2),r0(3):rN(3),r0(4):rN(4))=A; |
| 85 |
|
|
else |
| 86 |
|
|
error('Dimension of data set is larger than currently coded. Sorry!') |
| 87 |
|
|
end |
| 88 |
|
|
|
| 89 |
|
|
end |
| 90 |
|
|
|
| 91 |
|
|
%------------------------------------------------------------------------------- |
| 92 |
|
|
|
| 93 |
|
|
function [A,N] = localrdmds(fname,ieee) |
| 94 |
|
|
|
| 95 |
|
|
mname=strrep(fname,' ',''); |
| 96 |
|
|
dname=strrep(mname,'.meta','.data'); |
| 97 |
|
|
|
| 98 |
|
|
% Read and interpret Meta file |
| 99 |
|
|
fid = fopen(mname,'r'); |
| 100 |
|
|
if (fid == -1) |
| 101 |
|
|
error(['File' mname ' could not be opened']) |
| 102 |
|
|
end |
| 103 |
|
|
|
| 104 |
|
|
% Scan each line of the Meta file |
| 105 |
|
|
allstr=' '; |
| 106 |
|
|
keepgoing = 1; |
| 107 |
|
|
while keepgoing > 0, |
| 108 |
|
|
line = fgetl(fid); |
| 109 |
|
|
if (line == -1) |
| 110 |
|
|
keepgoing=-1; |
| 111 |
|
|
else |
| 112 |
|
|
% Strip out "(PID.TID *.*)" by finding first ")" |
| 113 |
|
|
%old ind=findstr([line ')'],')'); line=line(ind(1)+1:end); |
| 114 |
|
|
ind=findstr(line,')'); |
| 115 |
|
|
if size(ind) ~= 0 |
| 116 |
|
|
line=line(ind(1)+1:end); |
| 117 |
|
|
end |
| 118 |
|
|
% Remove comments of form // |
| 119 |
|
|
line=[line ' //']; ind=findstr(line,'//'); line=line(1:ind(1)-1); |
| 120 |
|
|
% Add to total string |
| 121 |
|
|
allstr=[allstr line]; |
| 122 |
|
|
end |
| 123 |
|
|
end |
| 124 |
|
|
|
| 125 |
|
|
% Close meta file |
| 126 |
|
|
fclose(fid); |
| 127 |
|
|
|
| 128 |
|
|
% Strip out comments of form /* ... */ |
| 129 |
|
|
ind1=findstr(allstr,'/*'); ind2=findstr(allstr,'*/'); |
| 130 |
|
|
if size(ind1) ~= size(ind2) |
| 131 |
|
|
error('The /* ... */ comments are not properly paired') |
| 132 |
|
|
end |
| 133 |
|
|
while size(ind1,2) > 0 |
| 134 |
|
|
allstr=[allstr(1:ind1(1)-1) allstr(ind2(1)+3:end)]; |
| 135 |
|
|
ind1=findstr(allstr,'/*'); ind2=findstr(allstr,'*/'); |
| 136 |
|
|
end |
| 137 |
|
|
|
| 138 |
|
|
% This is a kludge to catch whether the meta-file is of the |
| 139 |
|
|
% old or new type. nrecords does not exist in the old type. |
| 140 |
|
|
nrecords = -987; |
| 141 |
|
|
|
| 142 |
|
|
% Everything in lower case |
| 143 |
|
|
allstr=lower(allstr); |
| 144 |
|
|
|
| 145 |
|
|
% Fix the unfortunate choice of 'format' |
| 146 |
|
|
allstr=strrep(allstr,'format','dataprec'); |
| 147 |
|
|
|
| 148 |
|
|
% Evaluate meta information |
| 149 |
|
|
eval(allstr); |
| 150 |
|
|
|
| 151 |
|
|
N=reshape( dimlist , 3 , prod(size(dimlist))/3 ); |
| 152 |
|
|
|
| 153 |
|
|
if nrecords == -987 |
| 154 |
|
|
% This is the old 'meta' method that used sequential access |
| 155 |
|
|
|
| 156 |
|
|
A=allstr; |
| 157 |
|
|
% Open data file |
| 158 |
|
|
fid=fopen(dname,'r',ieee); |
| 159 |
|
|
|
| 160 |
|
|
% Read record size in bytes |
| 161 |
|
|
recsz=fread(fid,1,'uint32'); |
| 162 |
|
|
ldims=N(3,:)-N(2,:)+1; |
| 163 |
|
|
numels=prod(ldims); |
| 164 |
|
|
|
| 165 |
|
|
rat=recsz/numels; |
| 166 |
|
|
if rat == 4 |
| 167 |
|
|
A=fread(fid,numels,'real*4'); |
| 168 |
|
|
elseif rat == 8 |
| 169 |
|
|
A=fread(fid,numels,'real*8'); |
| 170 |
|
|
else |
| 171 |
|
|
sprintf(' Implied size in meta-file = %d', numels ) |
| 172 |
|
|
sprintf(' Record size in data-file = %d', recsz ) |
| 173 |
|
|
error('Ratio between record size and size in meta-file inconsistent') |
| 174 |
|
|
end |
| 175 |
|
|
|
| 176 |
|
|
erecsz=fread(fid,1,'uint32'); |
| 177 |
|
|
if erecsz ~= recsz |
| 178 |
|
|
sprintf('WARNING: Record sizes at beginning and end of file are inconsistent') |
| 179 |
|
|
end |
| 180 |
|
|
|
| 181 |
|
|
fclose(fid); |
| 182 |
|
|
|
| 183 |
|
|
A=reshape(A,ldims); |
| 184 |
|
|
|
| 185 |
|
|
else |
| 186 |
|
|
% This is the new MDS format that uses direct access |
| 187 |
|
|
|
| 188 |
|
|
ldims=N(3,:)-N(2,:)+1; |
| 189 |
|
|
if dataprec == 'float32' |
| 190 |
|
|
A=myrdda(dname,ldims,1,'real*4',ieee); |
| 191 |
|
|
elseif dataprec == 'float64' |
| 192 |
|
|
A=myrdda(dname,ldims,1,'real*8',ieee); |
| 193 |
|
|
else |
| 194 |
|
|
error(['Unrecognized format in meta-file = ' format]); |
| 195 |
|
|
end |
| 196 |
|
|
|
| 197 |
|
|
end |
| 198 |
|
|
|
| 199 |
|
|
%------------------------------------------------------------------------------- |
| 200 |
|
|
|
| 201 |
|
|
% result = RDDA( file, dim, irec [options] ) |
| 202 |
|
|
% |
| 203 |
|
|
% This routine reads the irec'th record of shape 'dim' from the |
| 204 |
|
|
% direct-access binary file (float or double precision) 'file'. |
| 205 |
|
|
% |
| 206 |
|
|
% Required arguments: |
| 207 |
|
|
% |
| 208 |
|
|
% file - string - name of file to read from |
| 209 |
|
|
% dim - vector - dimensions of the file records and the resulting array |
| 210 |
|
|
% irec - integer - record number in file in which to write data |
| 211 |
|
|
% |
| 212 |
|
|
% Optional arguments (must appear after the required arguments): |
| 213 |
|
|
% prec - string - precision of storage in file. Default = 'real*8'. |
| 214 |
|
|
% ieee - string - IEEE bit-wise representation in file. Default = 'b'. |
| 215 |
|
|
% |
| 216 |
|
|
% 'prec' may take the values: |
| 217 |
|
|
% 'real*4' - floating point, 32 bits. |
| 218 |
|
|
% 'real*8' - floating point, 64 bits - the efault. |
| 219 |
|
|
% |
| 220 |
|
|
% 'ieee' may take values: |
| 221 |
|
|
% 'ieee-be' or 'b' - IEEE floating point with big-endian |
| 222 |
|
|
% byte ordering - the default |
| 223 |
|
|
% 'ieee-le' or 'l' - IEEE floating point with little-endian |
| 224 |
|
|
% byte ordering |
| 225 |
|
|
% 'native' or 'n' - local machine format |
| 226 |
|
|
% 'cray' or 'c' - Cray floating point with big-endian |
| 227 |
|
|
% byte ordering |
| 228 |
|
|
% 'ieee-le.l64' or 'a' - IEEE floating point with little-endian |
| 229 |
|
|
% byte ordering and 64 bit long data type |
| 230 |
|
|
% 'ieee-be.l64' or 's' - IEEE floating point with big-endian byte |
| 231 |
|
|
% ordering and 64 bit long data type. |
| 232 |
|
|
% |
| 233 |
|
|
% eg. T=rdda('t.data',[64 64 32],1); |
| 234 |
|
|
% T=rdda('t.data',[256],4,'real*4'); |
| 235 |
|
|
% T=rdda('t.data',[128 64],2,'real*4','b'); |
| 236 |
|
|
function [arr] = myrdda(file,N,k,varargin) |
| 237 |
|
|
|
| 238 |
|
|
% Defaults |
| 239 |
|
|
WORDLENGTH=8; |
| 240 |
|
|
rtype='real*8'; |
| 241 |
|
|
ieee='b'; |
| 242 |
|
|
|
| 243 |
|
|
% Check optional arguments |
| 244 |
|
|
args=char(varargin); |
| 245 |
|
|
while (size(args,1) > 0) |
| 246 |
|
|
if deblank(args(1,:)) == 'real*4' |
| 247 |
|
|
WORDLENGTH=4; |
| 248 |
|
|
rtype='real*4'; |
| 249 |
|
|
elseif deblank(args(1,:)) == 'real*8' |
| 250 |
|
|
WORDLENGTH=8; |
| 251 |
|
|
rtype='real*8'; |
| 252 |
|
|
elseif deblank(args(1,:)) == 'n' | deblank(args(1,:)) == 'native' |
| 253 |
|
|
ieee='n'; |
| 254 |
|
|
elseif deblank(args(1,:)) == 'l' | deblank(args(1,:)) == 'ieee-le' |
| 255 |
|
|
ieee='l'; |
| 256 |
|
|
elseif deblank(args(1,:)) == 'b' | deblank(args(1,:)) == 'ieee-be' |
| 257 |
|
|
ieee='b'; |
| 258 |
|
|
elseif deblank(args(1,:)) == 'c' | deblank(args(1,:)) == 'cray' |
| 259 |
|
|
ieee='c'; |
| 260 |
|
|
elseif deblank(args(1,:)) == 'a' | deblank(args(1,:)) == 'ieee-le.l64' |
| 261 |
|
|
ieee='a'; |
| 262 |
|
|
elseif deblank(args(1,:)) == 's' | deblank(args(1,:)) == 'ieee-be.l64' |
| 263 |
|
|
ieee='s'; |
| 264 |
|
|
else |
| 265 |
|
|
error(['Optional argument ' args(1,:) ' is unknown']) |
| 266 |
|
|
end |
| 267 |
|
|
args=args(2:end,:); |
| 268 |
|
|
end |
| 269 |
|
|
|
| 270 |
|
|
nnn=prod(N); |
| 271 |
|
|
|
| 272 |
|
|
[fid mess]=fopen(file,'r',ieee); |
| 273 |
|
|
if fid == -1 |
| 274 |
|
|
error('Error while opening file:\n%s',mess) |
| 275 |
|
|
end |
| 276 |
|
|
st=fseek(fid,nnn*(k-1)*WORDLENGTH,'bof'); |
| 277 |
|
|
if st ~= 0 |
| 278 |
|
|
mess=ferror(fid); |
| 279 |
|
|
error('There was an error while positioning the file pointer:\n%s',mess) |
| 280 |
|
|
end |
| 281 |
|
|
[arr count]=fread(fid,nnn,rtype); |
| 282 |
|
|
if count ~= nnn |
| 283 |
|
|
error('Not enough data was available to be read: off EOF?') |
| 284 |
|
|
end |
| 285 |
|
|
st=fclose(fid); |
| 286 |
|
|
arr=reshape(arr,N); |
Parent Directory
| 
Revision Log
| 
Revision Graph