danse_reader.py @ 895e04d7

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 895e04d7 was ca10d8e, checked in by Gervaise Alina <gervyh@…>, 16 years ago
reverse code from version 1237 with modification on output axis unit
Property mode set to `100644`
File size: 10.0 KB

Line
1	"""
2	DANSE/SANS file reader
3	"""
4
5	"""
6	This software was developed by the University of Tennessee as part of the
7	Distributed Data Analysis of Neutron Scattering Experiments (DANSE)
8	project funded by the US National Science Foundation.
9
10	If you use DANSE applications to do scientific research that leads to
11	publication, we ask that you acknowledge the use of the software with the
12	following sentence:
13
14	"This work benefited from DANSE software developed under NSF award DMR-0520547."
15
16	copyright 2008, University of Tennessee
17	"""
18
19	import math
20	import os
21	import copy
22	import numpy
23	import logging
24	from DataLoader.data_info import Data2D, Detector
25
26	# Look for unit converter
27	has_converter = True
28	try:
29	from data_util.nxsunit import Converter
30	except:
31	has_converter = False
32
33	class Reader:
34	"""
35	Example data manipulation
36	"""
37	## File type
38	type = ["DANSE files (.sans)\|.sans"]
39	## Extension
40	ext = ['.sans', '.SANS']
41
42	def read(self, filename=None):
43	"""
44	Open and read the data in a file
45	@param file: path of the file
46	"""
47
48	read_it = False
49	for item in self.ext:
50	if filename.lower().find(item)>=0:
51	read_it = True
52
53	if read_it:
54	try:
55	datafile = open(filename, 'r')
56	except :
57	raise RuntimeError,"danse_reader cannot open %s"%(filename)
58
59
60	# defaults
61	# wavelength in Angstrom
62	wavelength = 10.0
63	# Distance in meter
64	distance = 11.0
65	# Pixel number of center in x
66	center_x = 65
67	# Pixel number of center in y
68	center_y = 65
69	# Pixel size [mm]
70	pixel = 5.0
71	# Size in x, in pixels
72	size_x = 128
73	# Size in y, in pixels
74	size_y = 128
75	# Format version
76	fversion = 1.0
77
78	output = Data2D()
79	output.filename = os.path.basename(filename)
80	detector = Detector()
81	output.detector.append(detector)
82
83	output.data = numpy.zeros([size_x,size_y])
84	output.err_data = numpy.zeros([size_x,size_y])
85
86	data_conv_q = None
87	data_conv_i = None
88
89	if has_converter == True and output.Q_unit != '1/A':
90	data_conv_q = Converter('1/A')
91	# Test it
92	data_conv_q(1.0, output.Q_unit)
93
94	if has_converter == True and output.I_unit != '1/cm':
95	data_conv_i = Converter('1/cm')
96	# Test it
97	data_conv_i(1.0, output.I_unit)
98
99	read_on = True
100	while read_on:
101	line = datafile.readline()
102	if line.find("DATA:")>=0:
103	read_on = False
104	break
105	toks = line.split(':')
106	if toks[0]=="FORMATVERSION":
107	fversion = float(toks[1])
108	if toks[0]=="WAVELENGTH":
109	wavelength = float(toks[1])
110	elif toks[0]=="DISTANCE":
111	distance = float(toks[1])
112	elif toks[0]=="CENTER_X":
113	center_x = float(toks[1])
114	elif toks[0]=="CENTER_Y":
115	center_y = float(toks[1])
116	elif toks[0]=="PIXELSIZE":
117	pixel = float(toks[1])
118	elif toks[0]=="SIZE_X":
119	size_x = int(toks[1])
120	elif toks[0]=="SIZE_Y":
121	size_y = int(toks[1])
122
123	# Read the data
124	data = []
125	error = []
126	if fversion==1.0:
127	data_str = datafile.readline()
128	data = data_str.split(' ')
129	else:
130	read_on = True
131	while read_on:
132	data_str = datafile.readline()
133	if len(data_str)==0:
134	read_on = False
135	else:
136	toks = data_str.split()
137	try:
138	val = float(toks[0])
139	err = float(toks[1])
140	if data_conv_i is not None:
141	val = data_conv_i(val, units=output.y_unit)
142	err = data_conv_i(err, units=output.y_unit)
143	data.append(val)
144	error.append(err)
145	except:
146	logging.info("Skipping line:%s,%s" %( data_str,sys.exc_value))
147
148	# Initialize
149	x_vals = []
150	y_vals = []
151	ymin = None
152	ymax = None
153	xmin = None
154	xmax = None
155
156	# Qx and Qy vectors
157	theta = pixel / distance / 100.0
158	stepq = 4.0math.pi/wavelength math.sin(theta/2.0)
159	for i_x in range(size_x):
160	theta = (i_x-center_x+1)*pixel / distance / 100.0
161	qx = 4.0math.pi/wavelength math.sin(theta/2.0)
162
163	if has_converter == True and output.Q_unit != '1/A':
164	qx = data_conv_q(qx, units=output.Q_unit)
165
166	x_vals.append(qx)
167	if xmin==None or qx<xmin:
168	xmin = qx
169	if xmax==None or qx>xmax:
170	xmax = qx
171
172	ymin = None
173	ymax = None
174	for i_y in range(size_y):
175	theta = (i_y-center_y+1)*pixel / distance / 100.0
176	qy = 4.0math.pi/wavelength math.sin(theta/2.0)
177
178	if has_converter == True and output.Q_unit != '1/A':
179	qy = data_conv_q(qy, units=output.Q_unit)
180
181	y_vals.append(qy)
182	if ymin==None or qy<ymin:
183	ymin = qy
184	if ymax==None or qy>ymax:
185	ymax = qy
186
187	# Store the data in the 2D array
188	itot = 0
189	i_x = 0
190	i_y = -1
191
192	for i_pt in range(len(data)):
193	try:
194	value = float(data[i_pt])
195	except:
196	# For version 1.0, the data were still
197	# stored as strings at this point.
198	logging.info("Skipping entry (v1.0):%s,%s" %(str(data[i_pt]), sys.exc_value))
199
200	# Get bin number
201	if math.fmod(i_pt, size_x)==0:
202	i_x = 0
203	i_y += 1
204	else:
205	i_x += 1
206
207	output.data[i_y][i_x] = value
208	#output.data[size_y-1-i_y][i_x] = value
209	if fversion>1.0:
210	output.err_data[i_y][i_x] = error[i_pt]
211	#output.err_data[size_y-1-i_y][i_x] = error[i_pt]
212
213
214	# Store all data ######################################
215	# Store wavelength
216	if has_converter==True and output.source.wavelength_unit != 'A':
217	conv = Converter('A')
218	wavelength = conv(wavelength, units=output.source.wavelength_unit)
219	output.source.wavelength = wavelength
220
221	# Store distance
222	if has_converter==True and detector.distance_unit != 'm':
223	conv = Converter('m')
224	distance = conv(distance, units=detector.distance_unit)
225	detector.distance = distance
226
227	# Store pixel size
228	if has_converter==True and detector.pixel_size_unit != 'mm':
229	conv = Converter('mm')
230	pixel = conv(pixel, units=detector.pixel_size_unit)
231	detector.pixel_size.x = pixel
232	detector.pixel_size.y = pixel
233
234	# Store beam center in distance units
235	detector.beam_center.x = center_x*pixel
236	detector.beam_center.y = center_y*pixel
237
238	# Store limits of the image (2D array)
239	xmin =xmin-stepq/2.0
240	xmax =xmax+stepq/2.0
241	ymin =ymin-stepq/2.0
242	ymax =ymax+stepq/2.0
243
244	if has_converter == True and output.Q_unit != '1/A':
245	xmin = data_conv_q(xmin, units=output.Q_unit)
246	xmax = data_conv_q(xmax, units=output.Q_unit)
247	ymin = data_conv_q(ymin, units=output.Q_unit)
248	ymax = data_conv_q(ymax, units=output.Q_unit)
249	output.xmin = xmin
250	output.xmax = xmax
251	output.ymin = ymin
252	output.ymax = ymax
253
254	# Store x and y axis bin centers
255	output.x_bins = x_vals
256	output.y_bins = y_vals
257
258	# Units
259	if data_conv_q is not None:
260	output.xaxis("\\rm{Q_{x}}", output.Q_unit)
261	output.yaxis("\\rm{Q_{y}}", output.Q_unit)
262	else:
263	output.xaxis("\\rm{Q_{x}}", 'A^{-1}')
264	output.yaxis("\\rm{Q_{y}}", 'A^{-1}')
265
266	if data_conv_i is not None:
267	output.zaxis("\\{I(Q)}", output.I_unit)
268	else:
269	output.zaxis("\\rm{I(Q)}","cm^{-1}")
270
271	if not fversion>=1.0:
272	raise ValueError,"Danse_reader can't read this file %s"%filename
273	else:
274	logging.info("Danse_reader Reading %s \n"%filename)
275	return output
276
277	return None
278
279	if __name__ == "__main__":
280	reader = Reader()
281	print reader.read("../test/MP_New.sans")
282

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source: sasview/DataLoader/readers/danse_reader.py @ 895e04d7

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