abs_reader.py @ 5a0dac1f

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 5a0dac1f was aac129aa, checked in by Jae Cho <jhjcho@…>, 13 years ago
reverted taking x=0 point: need more careful thought
Property mode set to `100644`
File size: 11.1 KB

Line
1	"""
2	"""
3	#####################################################################
4	#This software was developed by the University of Tennessee as part of the
5	#Distributed Data Analysis of Neutron Scattering Experiments (DANSE)
6	#project funded by the US National Science Foundation.
7	#See the license text in license.txt
8	#copyright 2008, University of Tennessee
9	######################################################################
10
11	import numpy
12	import os
13	from sans.dataloader.data_info import Data1D
14	from sans.dataloader.data_info import Detector
15
16	has_converter = True
17	try:
18	from data_util.nxsunit import Converter
19	except:
20	has_converter = False
21
22	class Reader:
23	"""
24	Class to load IGOR reduced .ABS files
25	"""
26	## File type
27	type_name = "IGOR 1D"
28	## Wildcards
29	type = ["IGOR 1D files (.abs)\|.abs"]
30	## List of allowed extensions
31	ext = ['.abs', '.ABS']
32
33	def read(self, path):
34	"""
35	Load data file.
36
37	:param path: file path
38
39	:return: Data1D object, or None
40
41	:raise RuntimeError: when the file can't be opened
42	:raise ValueError: when the length of the data vectors are inconsistent
43	"""
44	if os.path.isfile(path):
45	basename = os.path.basename(path)
46	root, extension = os.path.splitext(basename)
47	if extension.lower() in self.ext:
48	try:
49	input_f = open(path,'r')
50	except :
51	raise RuntimeError, "abs_reader: cannot open %s" % path
52	buff = input_f.read()
53	lines = buff.split('\n')
54	x = numpy.zeros(0)
55	y = numpy.zeros(0)
56	dy = numpy.zeros(0)
57	dx = numpy.zeros(0)
58	output = Data1D(x, y, dy=dy, dx=dx)
59	detector = Detector()
60	output.detector.append(detector)
61	output.filename = basename
62
63	is_info = False
64	is_center = False
65	is_data_started = False
66
67	data_conv_q = None
68	data_conv_i = None
69
70	if has_converter == True and output.x_unit != '1/A':
71	data_conv_q = Converter('1/A')
72	# Test it
73	data_conv_q(1.0, output.x_unit)
74
75	if has_converter == True and output.y_unit != '1/cm':
76	data_conv_i = Converter('1/cm')
77	# Test it
78	data_conv_i(1.0, output.y_unit)
79
80	for line in lines:
81
82	# Information line 1
83	if is_info == True:
84	is_info = False
85	line_toks = line.split()
86
87	# Wavelength in Angstrom
88	try:
89	value = float(line_toks[1])
90	if has_converter == True and \
91	output.source.wavelength_unit != 'A':
92	conv = Converter('A')
93	output.source.wavelength = conv(value,
94	units=output.source.wavelength_unit)
95	else:
96	output.source.wavelength = value
97	except:
98	#goes to ASC reader
99	msg = "abs_reader: cannot open %s" % path
100	raise RuntimeError, msg
101	#raise ValueError,"IgorReader: can't read this file,
102	# missing wavelength"
103
104	# Distance in meters
105	try:
106	value = float(line_toks[3])
107	if has_converter == True and \
108	detector.distance_unit != 'm':
109	conv = Converter('m')
110	detector.distance = conv(value,
111	units=detector.distance_unit)
112	else:
113	detector.distance = value
114	except:
115	#goes to ASC reader
116	msg = "abs_reader: cannot open %s" % path
117	raise RuntimeError, msg
118	# Transmission
119	try:
120	output.sample.transmission = float(line_toks[4])
121	except:
122	# Transmission is not a mandatory entry
123	pass
124
125	# Thickness in mm
126	try:
127	value = float(line_toks[5])
128	if has_converter == True and \
129	output.sample.thickness_unit != 'cm':
130	conv = Converter('cm')
131	output.sample.thickness = conv(value,
132	units=output.sample.thickness_unit)
133	else:
134	output.sample.thickness = value
135	except:
136	# Thickness is not a mandatory entry
137	pass
138
139	#MON CNT LAMBDA DET ANG DET DIST TRANS THICK
140	# AVE STEP
141	if line.count("LAMBDA") > 0:
142	is_info = True
143
144	# Find center info line
145	if is_center == True:
146	is_center = False
147	line_toks = line.split()
148	# Center in bin number
149	center_x = float(line_toks[0])
150	center_y = float(line_toks[1])
151
152	# Bin size
153	if has_converter == True and \
154	detector.pixel_size_unit != 'mm':
155	conv = Converter('mm')
156	detector.pixel_size.x = conv(5.0,
157	units=detector.pixel_size_unit)
158	detector.pixel_size.y = conv(5.0,
159	units=detector.pixel_size_unit)
160	else:
161	detector.pixel_size.x = 5.0
162	detector.pixel_size.y = 5.0
163
164	# Store beam center in distance units
165	# Det 640 x 640 mm
166	if has_converter==True and \
167	detector.beam_center_unit != 'mm':
168	conv = Converter('mm')
169	detector.beam_center.x = conv(center_x * 5.0,
170	units=detector.beam_center_unit)
171	detector.beam_center.y = conv(center_y * 5.0,
172	units=detector.beam_center_unit)
173	else:
174	detector.beam_center.x = center_x * 5.0
175	detector.beam_center.y = center_y * 5.0
176
177	# Detector type
178	try:
179	detector.name = line_toks[7]
180	except:
181	# Detector name is not a mandatory entry
182	pass
183
184	#BCENT(X,Y) A1(mm) A2(mm) A1A2DIST(m) DL/L
185	# BSTOP(mm) DET_TYP
186	if line.count("BCENT") > 0:
187	is_center = True
188
189	# Parse the data
190	if is_data_started == True:
191	toks = line.split()
192
193	try:
194	_x = float(toks[0])
195	_y = float(toks[1])
196	_dy = float(toks[2])
197	_dx = float(toks[3])
198
199	if data_conv_q is not None:
200	_x = data_conv_q(_x, units=output.x_unit)
201	_dx = data_conv_i(_dx, units=output.x_unit)
202
203	if data_conv_i is not None:
204	_y = data_conv_i(_y, units=output.y_unit)
205	_dy = data_conv_i(_dy, units=output.y_unit)
206
207	x = numpy.append(x, _x)
208	y = numpy.append(y, _y)
209	dy = numpy.append(dy, _dy)
210	dx = numpy.append(dx, _dx)
211
212	except:
213	# Could not read this data line. If we are here
214	# it is because we are in the data section. Just
215	# skip it.
216	pass
217
218	#The 6 columns are \| Q (1/A) \| I(Q) (1/cm) \| std. dev.
219	# I(Q) (1/cm) \| sigmaQ \| meanQ \| ShadowFactor\|
220	if line.count("The 6 columns")>0:
221	is_data_started = True
222
223	# Sanity check
224	if not len(y) == len(dy):
225	msg = "abs_reader: y and dy have different length"
226	raise ValueError, msg
227	# If the data length is zero, consider this as
228	# though we were not able to read the file.
229	if len(x) == 0:
230	raise ValueError, "ascii_reader: could not load file"
231
232	output.x = x[x!=0]
233	output.y = y[x!=0]
234	output.dy = dy[x!=0]
235	output.dx = dx[x!=0]
236	if data_conv_q is not None:
237	output.xaxis("\\rm{Q}", output.x_unit)
238	else:
239	output.xaxis("\\rm{Q}", 'A^{-1}')
240	if data_conv_i is not None:
241	output.yaxis("\\rm{Intensity}", output.y_unit)
242	else:
243	output.yaxis("\\rm{Intensity}","cm^{-1}")
244
245	# Store loading process information
246	output.meta_data['loader'] = self.type_name
247	return output
248	else:
249	raise RuntimeError, "%s is not a file" % path
250	return None
251
252	if __name__ == "__main__":
253	reader = Reader()
254	print reader.read("../test/jan08002.ABS")
255
256
257

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