IgorReader.py @ 628acad

ESS_GUIESS_GUI_DocsESS_GUI_batch_fittingESS_GUI_bumps_abstractionESS_GUI_iss1116ESS_GUI_iss879ESS_GUI_iss959ESS_GUI_openclESS_GUI_orderingESS_GUI_sync_sascalccostrafo411magnetic_scattrelease-4.1.1release-4.1.2release-4.2.2release_4.0.1ticket-1009ticket-1094-headlessticket-1242-2d-resolutionticket-1243ticket-1249ticket885unittest-saveload

Last change on this file since 628acad was b699768, checked in by Piotr Rozyczko <piotr.rozyczko@…>, 9 years ago
Initial commit of the refactored SasCalc? module.
Property mode set to `100644`
File size: 10.6 KB

Line
1	"""
2	IGOR 2D reduced file reader
3	"""
4	############################################################################
5	#This software was developed by the University of Tennessee as part of the
6	#Distributed Data Analysis of Neutron Scattering Experiments (DANSE)
7	#project funded by the US National Science Foundation.
8	#If you use DANSE applications to do scientific research that leads to
9	#publication, we ask that you acknowledge the use of the software with the
10	#following sentence:
11	#This work benefited from DANSE software developed under NSF award DMR-0520547.
12	#copyright 2008, University of Tennessee
13	#############################################################################
14	import os
15	import numpy
16	import math
17	#import logging
18	from sas.sascalc.dataloader.data_info import Data2D
19	from sas.sascalc.dataloader.data_info import Detector
20	from sas.sascalc.dataloader.manipulations import reader2D_converter
21
22	# Look for unit converter
23	has_converter = True
24	try:
25	from sas.sascalc.data_util.nxsunit import Converter
26	except:
27	has_converter = False
28
29
30	class Reader:
31	""" Simple data reader for Igor data files """
32	## File type
33	type_name = "IGOR 2D"
34	## Wildcards
35	type = ["IGOR 2D files (.ASC)\|.ASC"]
36	## Extension
37	ext=['.ASC', '.asc']
38
39	def read(self, filename=None):
40	""" Read file """
41	if not os.path.isfile(filename):
42	raise ValueError, \
43	"Specified file %s is not a regular file" % filename
44
45	# Read file
46	f = open(filename, 'r')
47	buf = f.read()
48
49	# Instantiate data object
50	output = Data2D()
51	output.filename = os.path.basename(filename)
52	detector = Detector()
53	if len(output.detector) > 0:
54	print str(output.detector[0])
55	output.detector.append(detector)
56
57	# Get content
58	dataStarted = False
59
60	lines = buf.split('\n')
61	itot = 0
62	x = []
63	y = []
64
65	ncounts = 0
66
67	xmin = None
68	xmax = None
69	ymin = None
70	ymax = None
71
72	i_x = 0
73	i_y = -1
74	i_tot_row = 0
75
76	isInfo = False
77	isCenter = False
78
79	data_conv_q = None
80	data_conv_i = None
81
82	if has_converter == True and output.Q_unit != '1/A':
83	data_conv_q = Converter('1/A')
84	# Test it
85	data_conv_q(1.0, output.Q_unit)
86
87	if has_converter == True and output.I_unit != '1/cm':
88	data_conv_i = Converter('1/cm')
89	# Test it
90	data_conv_i(1.0, output.I_unit)
91
92	for line in lines:
93
94	# Find setup info line
95	if isInfo:
96	isInfo = False
97	line_toks = line.split()
98	# Wavelength in Angstrom
99	try:
100	wavelength = float(line_toks[1])
101	except:
102	msg = "IgorReader: can't read this file, missing wavelength"
103	raise ValueError, msg
104
105	#Find # of bins in a row assuming the detector is square.
106	if dataStarted == True:
107	try:
108	value = float(line)
109	except:
110	# Found a non-float entry, skip it
111	continue
112
113	# Get total bin number
114
115	i_tot_row += 1
116	i_tot_row = math.ceil(math.sqrt(i_tot_row)) - 1
117	#print "i_tot", i_tot_row
118	size_x = i_tot_row # 192#128
119	size_y = i_tot_row # 192#128
120	output.data = numpy.zeros([size_x, size_y])
121	output.err_data = numpy.zeros([size_x, size_y])
122
123	#Read Header and 2D data
124	for line in lines:
125	# Find setup info line
126	if isInfo:
127	isInfo = False
128	line_toks = line.split()
129	# Wavelength in Angstrom
130	try:
131	wavelength = float(line_toks[1])
132	except:
133	msg = "IgorReader: can't read this file, missing wavelength"
134	raise ValueError, msg
135	# Distance in meters
136	try:
137	distance = float(line_toks[3])
138	except:
139	msg = "IgorReader: can't read this file, missing distance"
140	raise ValueError, msg
141
142	# Distance in meters
143	try:
144	transmission = float(line_toks[4])
145	except:
146	msg = "IgorReader: can't read this file, "
147	msg += "missing transmission"
148	raise ValueError, msg
149
150	if line.count("LAMBDA") > 0:
151	isInfo = True
152
153	# Find center info line
154	if isCenter:
155	isCenter = False
156	line_toks = line.split()
157
158	# Center in bin number: Must substrate 1 because
159	#the index starts from 1
160	center_x = float(line_toks[0]) - 1
161	center_y = float(line_toks[1]) - 1
162
163	if line.count("BCENT") > 0:
164	isCenter = True
165
166	# Find data start
167	if line.count("***")>0:
168	dataStarted = True
169
170	# Check that we have all the info
171	if wavelength == None \
172	or distance == None \
173	or center_x == None \
174	or center_y == None:
175	msg = "IgorReader:Missing information in data file"
176	raise ValueError, msg
177
178	if dataStarted == True:
179	try:
180	value = float(line)
181	except:
182	# Found a non-float entry, skip it
183	continue
184
185	# Get bin number
186	if math.fmod(itot, i_tot_row) == 0:
187	i_x = 0
188	i_y += 1
189	else:
190	i_x += 1
191
192	output.data[i_y][i_x] = value
193	ncounts += 1
194
195	# Det 640 x 640 mm
196	# Q = 4pi/lambda sin(theta/2)
197	# Bin size is 0.5 cm
198	#REmoved +1 from theta = (i_x-center_x+1)*0.5 / distance
199	# / 100.0 and
200	#REmoved +1 from theta = (i_y-center_y+1)*0.5 /
201	# distance / 100.0
202	#ToDo: Need complete check if the following
203	# covert process is consistent with fitting.py.
204	theta = (i_x - center_x) * 0.5 / distance / 100.0
205	qx = 4.0 * math.pi / wavelength * math.sin(theta/2.0)
206
207	if has_converter == True and output.Q_unit != '1/A':
208	qx = data_conv_q(qx, units=output.Q_unit)
209
210	if xmin == None or qx < xmin:
211	xmin = qx
212	if xmax == None or qx > xmax:
213	xmax = qx
214
215	theta = (i_y - center_y) * 0.5 / distance / 100.0
216	qy = 4.0 * math.pi / wavelength * math.sin(theta / 2.0)
217
218	if has_converter == True and output.Q_unit != '1/A':
219	qy = data_conv_q(qy, units=output.Q_unit)
220
221	if ymin == None or qy < ymin:
222	ymin = qy
223	if ymax == None or qy > ymax:
224	ymax = qy
225
226	if not qx in x:
227	x.append(qx)
228	if not qy in y:
229	y.append(qy)
230
231	itot += 1
232
233
234	theta = 0.25 / distance / 100.0
235	xstep = 4.0 * math.pi / wavelength * math.sin(theta / 2.0)
236
237	theta = 0.25 / distance / 100.0
238	ystep = 4.0 * math.pi/ wavelength * math.sin(theta / 2.0)
239
240	# Store all data ######################################
241	# Store wavelength
242	if has_converter == True and output.source.wavelength_unit != 'A':
243	conv = Converter('A')
244	wavelength = conv(wavelength, units=output.source.wavelength_unit)
245	output.source.wavelength = wavelength
246
247	# Store distance
248	if has_converter == True and detector.distance_unit != 'm':
249	conv = Converter('m')
250	distance = conv(distance, units=detector.distance_unit)
251	detector.distance = distance
252
253	# Store transmission
254	output.sample.transmission = transmission
255
256	# Store pixel size
257	pixel = 5.0
258	if has_converter == True and detector.pixel_size_unit != 'mm':
259	conv = Converter('mm')
260	pixel = conv(pixel, units=detector.pixel_size_unit)
261	detector.pixel_size.x = pixel
262	detector.pixel_size.y = pixel
263
264	# Store beam center in distance units
265	detector.beam_center.x = center_x * pixel
266	detector.beam_center.y = center_y * pixel
267
268	# Store limits of the image (2D array)
269	xmin = xmin - xstep / 2.0
270	xmax = xmax + xstep / 2.0
271	ymin = ymin - ystep / 2.0
272	ymax = ymax + ystep / 2.0
273	if has_converter == True and output.Q_unit != '1/A':
274	xmin = data_conv_q(xmin, units=output.Q_unit)
275	xmax = data_conv_q(xmax, units=output.Q_unit)
276	ymin = data_conv_q(ymin, units=output.Q_unit)
277	ymax = data_conv_q(ymax, units=output.Q_unit)
278	output.xmin = xmin
279	output.xmax = xmax
280	output.ymin = ymin
281	output.ymax = ymax
282
283	# Store x and y axis bin centers
284	output.x_bins = x
285	output.y_bins = y
286
287	# Units
288	if data_conv_q is not None:
289	output.xaxis("\\rm{Q_{x}}", output.Q_unit)
290	output.yaxis("\\rm{Q_{y}}", output.Q_unit)
291	else:
292	output.xaxis("\\rm{Q_{x}}", 'A^{-1}')
293	output.yaxis("\\rm{Q_{y}}", 'A^{-1}')
294
295	if data_conv_i is not None:
296	output.zaxis("\\rm{Intensity}", output.I_unit)
297	else:
298	output.zaxis("\\rm{Intensity}", "cm^{-1}")
299
300	# Store loading process information
301	output.meta_data['loader'] = self.type_name
302	output = reader2D_converter(output)
303
304	return output

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SasView

source: sasview/src/sas/sascalc/dataloader/readers/IgorReader.py @ 628acad

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