1
2
3
4
5
6
7
8
9
10
11
12
13
14
15
16
17
18
19
20
21
22
23
24
25
26
27
28
29
30
31
32
33
34
35
36
37
38
39
40
41
42
43
44
45
46
47
48
49
50
51
52
53
54
55
56
57
58
59
60
61
62
63
64
65
66
67
68
69
70
71
72
73
74
75
76
77
78
79
80
81
82
83
84
85
86
87
88
89
90
91
92
93
94
95
96
97
98
99
100
101
102
103
104
105
106
107
108
109
110
111
112
113
114
115
116
117
118
119
120
121
122
123
124
125
126
127
128
129
130
131
132
133
134
135
136
137
138
139
140
141
142
143
144
145
146
147
148
149
150
151
152
153
154
155
156
157
158
159
160
161
162
163
164
165
166
167
168
169
170
171
172
173
174
175
176
177
178
179
180
181
182
183
184
185
186
187
188
189
190
191
192
193
194
195
196
197
198
199
200
201
202
203
204
205
206
207
208
209
210
211
212
213
214
215
216
217
218
219
220
221
222
223
224
225
226
227
228
229
230
231
232
233
234
235
236
237
238
239
240
241
242
243
244
245
246
247
248
249
250
251
252
253
254
255
256
257
258
259
260
261
262
263
264
265
266
267
268
269
270
271
272
273
274
275
276
277
278
279
280
281
282
283
284
285
286
287
288
289
290
291
292
293
294
295
296
297
298
299
300
301
302
303
304
305
306
307
308
309
310
311
312
313
314
315
316
317
318
319
320
321
322
323
324
325
326
327
328
329
330
331
332
333
334
335
336
337
338
339
340
341
342
343
344
345
346
347
348
349
350
351
352
353
354
355
356
357
358
359
360
361
362
363
364
365
366
367
368
369
370
371
372
373
374
375
376
377
378
379
380
381
382
383
384
385
386
387
388
389
390
391
392
393
394
395
396
|
#!/usr/bin/env python
# -*- coding: utf-8 -*-
import re,os
"""
GEMS
This parser parse a table formatted like this:
Attribute Name Tag VR VM
"""
class TextParser:
def __init__(self, inputfilename, outputfilename):
self._InputFilename = ''
self._OutputFilename = ''
def Parse(self):
infile = file(inputfilename, 'r')
outLines = []
for line in infile.readlines():
patt = re.compile("^\s*([A-Za-z0-9&{}=+ %;#()./,_:<>-]+)\s+\(?([0-9A-Fa-fn]+),\s?([0-9A-Fa-fyxX]+)\)?\s+([A-Z][A-Z])\s+([0-9Nn-]+)\s*$")
patt1 = re.compile("^\s*([A-Za-z0-9&{}=+ ;%#\[\]()./,_:<>-]+)\s+\(?([0-9A-Fa-f]+),\s?([0-9A-Fa-fyxX]+)\)?\s+([1-3C]+)\s+([A-Z][A-Z])\s+([0-9Nn-]+)\s*$")
patt2 = re.compile( "^\s*([Table ]*[A-Z1-9.:-]+)\s+([A-Za-z -]+)\s+\(([A-Z0-9_]+)\)\s*$")
#patt3 = re.compile( '^\s*Private Creator Identification\s*\((["A-Za-z0-9() ./])\)\s*$' )
patt3 = re.compile( '^\s*Private Creator Identification\s*\("?(.*)"?\)\)?\s*$' )
patt4 = re.compile( '^\s*Private Creator Identification\s*([A-Z0-9_]+)\s*$' )
m = patt.match(line)
m1 = patt1.match(line)
m2 = patt2.match(line)
m3 = patt3.match(line)
m4 = patt4.match(line)
#print line
if m:
# <entry group="0001" element="0001" vr="LO" vm="1" owner="Private Creator"/>
dicom = "<entry group=\"%s\" element=\"%s\" vr=\"%s\" vm=\"%s\" name=\"%s\"/>"%(m.group(2),m.group(3),m.group(4),m.group(5),m.group(1).rstrip())
#dicom = m.group(1) + ' ' + m.group(2) + ' ' + m.group(3) + ' ' + m.group(4)
#print dicom
outLines.append( dicom )
elif m1:
# <entry group="0001" element="0001" vr="LO" vm="1" type="1C"/>
dicom = "<entry group=\"%s\" element=\"%s\" vr=\"%s\" vm=\"%s\" type=\"%s\" name=\"%s\"/>"%(m1.group(2),m1.group(3),m1.group(5),m1.group(6),m1.group(4),m1.group(1).rstrip())
#dicom = m.group(1) + ' ' + m.group(2) + ' ' + m.group(3) + ' ' + m.group(4)
#print dicom
outLines.append( dicom )
elif m2:
# <dict edition="2007" url="http://??" ref="Table A-16" name="Private Creator Identification - Xeleris" owner="GEMS_GENIE_1">
s = "</dict><dict ref=\"%s\" name=\"%s\" owner=\"%s\">"%(m2.group(1),m2.group(2).rstrip(),m2.group(3))
s += '\n'
outLines.append( s )
elif m3:
s = "</dict><dict ref=\"%s\" name=\"%s\" owner=\"%s\">"%("??","??",m3.group(1))
s += '\n'
outLines.append( s )
elif m4:
s = "</dict><dict ref=\"%s\" name=\"%s\" owner=\"%s\">"%("??","??",m4.group(1))
s += '\n'
outLines.append( s )
else:
print line
#print self.Reformat(line)
#outLines.append( self.Reformat(line) + '\n' )
outfile = file(outputfilename, 'w')
outfile.writelines( outLines )
outfile.close()
"""
GEMS
This parser parse a table formatted like this:
Grp Elm VR VM Type Definition
"""
class TextParser2:
def __init__(self, inputfilename, outputfilename):
self._InputFilename = ''
self._OutputFilename = ''
def Parse(self):
infile = file(inputfilename, 'r')
outLines = []
for line in infile.readlines():
patt = re.compile("^\s*([0-9A-Z]+)\s+([0-9A-Zx]+)\s+([A-Z][A-Z])\s+([1-9SNn-]+)\s+([1-9])\s+([A-Za-z0-9 ()._,/#>-]+)\s*$")
patt2 = re.compile( "^\s*([A-Z1-9.-]+)\s*([A-Za-z -]+)\s*$")
m = patt.match(line)
m2 = patt2.match(line)
#print line
if m:
# <entry group="0001" element="0001" vr="LO" vm="1" owner="Private Creator"/>
dicom = "<entry group=\"%s\" element=\"%s\" vr=\"%s\" vm=\"%s\" type=\"%s\" name=\"%s\"/>"%(m.group(1),m.group(2),m.group(3),m.group(4),m.group(5),m.group(6).rstrip())
#dicom = m.group(1) + ' ' + m.group(2) + ' ' + m.group(3) + ' ' + m.group(4)
#print dicom
outLines.append( dicom )
elif m2:
# <dict edition="2007" url="http://??" ref="Table A-16" name="Private Creator Identification - Xeleris" owner="GEMS_GENIE_1">
s = "<dict ref=\"%s\" name=\"%s\" owner=\"%s\">"%(m2.group(1),m2.group(2).rstrip(),"")
s += '\n'
outLines.append( s )
else:
print line
#print self.Reformat(line)
#outLines.append( self.Reformat(line) + '\n' )
outfile = file(outputfilename, 'w')
outfile.writelines( outLines )
outfile.close()
"""
SIEMENS:
This parser parse a table formatted like this:
Tag Private Owner Code Name VR VM
"""
class TextParser3:
def __init__(self, inputfilename, outputfilename):
self._InputFilename = ''
self._OutputFilename = ''
def Parse(self):
infile = file(inputfilename, 'r')
outLines = []
for line in infile.readlines():
patt = re.compile("^\s*\(([0-9A-Z]+),([0-9A-Zx]+)\)\s+([A-Za-z0-9./:_ -]+)\s+\|\s+([A-Za-z0-9 ()._,/#>-]+)\s+([A-Z][A-Z]_?O?W?)\s+([0-9n-]+)\s*$")
patt2 = re.compile( "^\s*([A-Z1-9.-]+)\s*([A-Za-z -]+)\s*$")
m = patt.match(line)
m2 = patt2.match(line)
#print line
if m:
# <entry group="0001" element="0001" vr="LO" vm="1" owner="Private Creator"/>
dicom = "<entry group=\"%s\" element=\"%s\" vr=\"%s\" vm=\"%s\" owner=\"%s\" name=\"%s\"/>"%(m.group(1),m.group(2),m.group(5),m.group(6),m.group(3).rstrip(),m.group(4).rstrip())
#dicom = m.group(1) + ' ' + m.group(2) + ' ' + m.group(3) + ' ' + m.group(4)
#print dicom
outLines.append( dicom )
elif m2:
# <dict edition="2007" url="http://??" ref="Table A-16" name="Private Creator Identification - Xeleris" owner="GEMS_GENIE_1">
s = "<dict ref=\"%s\" name=\"%s\" owner=\"%s\">"%(m2.group(1),m2.group(2).rstrip(),"")
s += '\n'
outLines.append( s )
else:
print line
#print self.Reformat(line)
#outLines.append( self.Reformat(line) + '\n' )
outfile = file(outputfilename, 'w')
outfile.writelines( outLines )
outfile.close()
"""
PHILIPS: (see mr91.pdf)
Diffusion B-Factor 2001,xx03 VR = FL, VM = 1 Dimension: s/mm2
Indicates the Diffusion coefficient.
"""
class TextParser4:
def __init__(self, inputfilename, outputfilename):
self._InputFilename = ''
self._OutputFilename = ''
def Parse(self):
infile = file(inputfilename, 'r')
outLines = []
for line in infile.readlines():
patt = re.compile("^\s*([A-Za-z0-9> -]+)\s+([0-9]+),([0-9A-Fx]+)\s+VR = ([A-Z][A-Z]), VM = ([0-9n-]+)\s+(.*)\s*$")
patt1 = re.compile("^\s*([A-Za-z0-9()> -]+)\s+([0-9]+),([0-9A-Fx]+)\s+Value Representation = ([A-Z][A-Z]), Multiplicity = ([0-9n-]+)(.*)\s*$")
patt2 = re.compile("^\s*[STUDYSERIES]+\s+\(([0-9]+),([0-9]+)\)\s+([A-Za-z ]+)\s*$")
m = patt.match(line)
m1 = patt1.match(line)
m2 = patt2.match(line)
if m:
# <entry group="0001" element="0001" vr="LO" vm="1" owner="Private Creator"/>
dicom = "<entry group=\"%s\" element=\"%s\" vr=\"%s\" vm=\"%s\" name=\"%s\"/>"%(m.group(2),m.group(3),m.group(4),m.group(5),m.group(1).rstrip())
#print dicom
outLines.append( dicom )
elif m1:
# <entry group="0001" element="0001" vr="LO" vm="1" owner="Private Creator"/>
dicom = "<entry group=\"%s\" element=\"%s\" vr=\"%s\" vm=\"%s\" name=\"%s\"/>"%(m1.group(2),m1.group(3),m1.group(4),m1.group(5),m1.group(1).rstrip())
#print dicom
outLines.append( dicom )
elif m2:
# <entry group="0001" element="0001" vr="LO" vm="1" owner="Private Creator"/>
dicom = "<entry group=\"%s\" element=\"%s\" name=\"%s\" />"%(m2.group(1),m2.group(2),m2.group(3).rstrip())
#print dicom
outLines.append( dicom )
else:
print line
#print self.Reformat(line)
#outLines.append( self.Reformat(line) + '\n' )
outfile = file(outputfilename, 'w')
outfile.writelines( outLines )
outfile.close()
"""
PHILIPS: (see 453567994381_B.pdf)
7053,0010 LO Private Creator Data element 1
"""
class TextParser5:
def __init__(self, inputfilename, outputfilename):
self._InputFilename = ''
self._OutputFilename = ''
def Parse(self):
infile = file(inputfilename, 'r')
outLines = []
for line in infile.readlines():
patt = re.compile("^([\s>]*)([0-9]+),([0-9A-Fx]+)\s+([A-Z][A-Z])\s+([A-Za-z0-9.?(,)> -]+)\s+([0-9n-]+)\s*$")
m = patt.match(line)
if m:
# <entry group="0001" element="0001" vr="LO" vm="1" owner="Private Creator"/>
dicom = "<entry group=\"%s\" element=\"%s\" vr=\"%s\" vm=\"%s\" name=\"%s%s\"/>\n"%(m.group(2),m.group(3),m.group(4),m.group(6),m.group(1).lstrip(),m.group(5).rstrip())
#print dicom
outLines.append( dicom )
else:
print line
#print self.Reformat(line)
#outLines.append( self.Reformat(line) + '\n' )
outfile = file(outputfilename, 'w')
outfile.writelines( outLines )
outfile.close()
"""
PHILIPS: (see 9605_0132RevC.pdf)
Attribute Tag Type VR VM
ADAC Header Signature 0019, 0010 3 LO 2
"""
class TextParser6:
def __init__(self, inputfilename, outputfilename):
self._InputFilename = ''
self._OutputFilename = ''
def Parse(self):
infile = file(inputfilename, 'r')
outLines = []
for line in infile.readlines():
patt = re.compile("^\s*([A-Za-z0-9 #()./,_:>-]+)\s+([0-9A-Z]+),\s?([0-9A-ZxX]+)\s+([1-3C]+)\s+([A-Z][A-Z])\s+([0-9Nn-]+)\s*$")
m = patt.match(line)
if m:
# <entry group="0001" element="0001" vr="LO" vm="1" owner="Private Creator"/>
dicom = "<entry group=\"%s\" element=\"%s\" vr=\"%s\" vm=\"%s\" type=\"%s\" name=\"%s\" />"%(m.group(2),m.group(3),m.group(5),m.group(6),m.group(4),m.group(1).rstrip())
#print dicom
outLines.append( dicom )
else:
print line
#print self.Reformat(line)
#outLines.append( self.Reformat(line) + '\n' )
outfile = file(outputfilename, 'w')
outfile.writelines( outLines )
outfile.close()
"""
PHILIPS: (see MR_System_R1_5_dcs.pdf
Number of PC Directions 2001,1016 SS 2, USER -
"""
class TextParser7:
def __init__(self, inputfilename, outputfilename):
self._InputFilename = ''
self._OutputFilename = ''
def Parse(self):
infile = file(inputfilename, 'r')
outLines = []
for line in infile.readlines():
patt = re.compile("^\s*([A-Za-z0-9'./> -]+)\s+\(?([0-9A-F]+),([0-9A-FxXY]+)\)?\s+([A-Z][A-Z])\s+([1-3C]+)?,?.*\s*$")
m = patt.match(line)
if m:
# <entry group="0001" element="0001" vr="LO" vm="1" owner="Private Creator"/>
dicom = "<entry group=\"%s\" element=\"%s\" vr=\"%s\" type=\"%s\" name=\"%s\" />"%(m.group(2),m.group(3),m.group(4),m.group(5),m.group(1).rstrip())
#print dicom
outLines.append( dicom )
else:
print line
#print self.Reformat(line)
#outLines.append( self.Reformat(line) + '\n' )
outfile = file(outputfilename, 'w')
outfile.writelines( outLines )
outfile.close()
"""
AGFA
IMPAX object document (0029,xx00) OB 1 Mitra Object Document 1.0
"""
class TextParser8:
def __init__(self, inputfilename, outputfilename):
self._InputFilename = ''
self._OutputFilename = ''
def Parse(self):
infile = file(inputfilename, 'r')
outLines = []
for line in infile.readlines():
patt = re.compile("^\s*([A-Za-z0-9()> -]+)\s+\(([0-9]+),([0-9A-Fx]+)\)\s+([A-Z][A-Z])\s+([1-9n-]+)\s+([A-Za-z_0-9. ]+)\s*$")
m = patt.match(line)
if m:
# <entry group="0001" element="0001" vr="LO" vm="1" owner="Private Creator"/>
dicom = "<entry group=\"%s\" element=\"%s\" vr=\"%s\" vm=\"%s\" owner=\"%s\" name=\"%s\" />"%(m.group(2),m.group(3),m.group(4),m.group(5),m.group(6),m.group(1).rstrip())
#print dicom
outLines.append( dicom )
else:
print line
#print self.Reformat(line)
#outLines.append( self.Reformat(line) + '\n' )
outfile = file(outputfilename, 'w')
outfile.writelines( outLines )
outfile.close()
"""
SIEMENS
Parse a diction.pfl file
Pixel Overflow Flag 1 Pixel Overflow,7FE3,SIEMENS MED NM,1B,SS,1
"""
class TextParser9:
def __init__(self, inputfilename, outputfilename):
self._InputFilename = ''
self._OutputFilename = ''
def Parse(self):
infile = file(inputfilename, 'r')
outLines = []
for line in infile.readlines():
patt = re.compile("^([A-Z0-9a-z()=/:%. -]+),([0-9A-F]+),([A-Za-z0-9. -]+),([0-9A-F][0-9A-F]),([A-Z][A-Z]),([1-9N-]+)$")
patt1 = re.compile("^[^,]+,([0-9A-F]+),.*$")
m = patt.match(line)
m1 = patt1.match(line)
if m:
# <entry group="0001" element="0001" vr="LO" vm="1" owner="Private Creator"/>
dicom = "<entry group=\"%s\" element=\"%s\" vr=\"%s\" vm=\"%s\" owner=\"%s\" name=\"%s\" />"%(m.group(2),m.group(4),m.group(5),m.group(6),m.group(3),m.group(1).rstrip())
#print dicom
outLines.append( dicom )
else:
#print line
n = eval( '0x' + m1.group(1) )
#print m1.group(1)
if( not (n % 2 == 0) ):
print n
print line
#print self.Reformat(line)
#outLines.append( self.Reformat(line) + '\n' )
outfile = file(outputfilename, 'w')
outfile.writelines( outLines )
outfile.close()
"""
Storage.pdf
Attribute Name Group Byte Type VR Attribute Description
"""
class TextParser10:
def __init__(self, inputfilename, outputfilename):
self._InputFilename = ''
self._OutputFilename = ''
def Parse(self):
infile = file(inputfilename, 'r')
outLines = []
for line in infile.readlines():
patt = re.compile("^\s*([A-Z.a-z -]+[1-2]?)\s+([0-9A-Z]+)\s+([0-9A-Zx]+)\s+([1-3])\s+([A-Z][A-Z])\s+.*$")
m = patt.match(line)
#print line
if m:
# <entry group="0001" element="0001" vr="LO" vm="1" owner="Private Creator"/>
dicom = "<entry group=\"%s\" element=\"%s\" vr=\"%s\" type=\"%s\">"%(m.group(2),m.group(3),m.group(5),m.group(4))
#dicom = m.group(1) + ' ' + m.group(2) + ' ' + m.group(3) + ' ' + m.group(4)
#print dicom
dicom += '\n'
dicom += "<description>%s</description>\n</entry>\n"%m.group(1).rstrip()
outLines.append( dicom )
else:
print line
#print self.Reformat(line)
#outLines.append( self.Reformat(line) + '\n' )
outfile = file(outputfilename, 'w')
outfile.writelines( outLines )
outfile.close()
"""
S2000_1.5_DCS_public.pdf
Attribute Name (Group,Element) Type Attribute Description
"""
class TextParser11:
def __init__(self, inputfilename, outputfilename):
self._InputFilename = ''
self._OutputFilename = ''
def Parse(self):
infile = file(inputfilename, 'r')
outLines = []
for line in infile.readlines():
#patt = re.compile("^\s*([A-Za-z ]+)\s+\(([0-9A-F]+),([0-9A-F]+)\)\s+([1-3])\s+([A-Za-z0-9=,. ])\s*$")
patt = re.compile("^\s*([A-Za-z0-9 '/-]+)\s+\(([0-9]+),([0-9A-Fa-fx]+)\)\s+([1-3])\s+.*$")
m = patt.match(line)
#print line
if m:
# <entry group="0001" element="0001" vr="LO" vm="1" owner="Private Creator"/>
dicom = "<entry name=\"%s\" group=\"%s\" element=\"%s\" type=\"%s\">"%(m.group(1).rstrip(),m.group(2),m.group(3),m.group(4))
#dicom = m.group(1) + ' ' + m.group(2) + ' ' + m.group(3) + ' ' + m.group(4)
#print dicom
dicom += '\n'
#dicom += "<description>%s</description>\n</entry>\n"%
outLines.append( dicom )
else:
print "no:",line
#print self.Reformat(line)
#outLines.append( self.Reformat(line) + '\n' )
outfile = file(outputfilename, 'w')
outfile.writelines( outLines )
outfile.close()
if __name__ == "__main__":
argc = len(os.sys.argv )
if ( argc < 3 ):
print "Sorry, wrong list of args"
os.sys.exit(1) #error
inputfilename = os.sys.argv[1]
outputfilename = os.sys.argv[2]
tp = TextParser(inputfilename,outputfilename);
tp.Parse()
|
