abs_reader.py @ d17597f

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 d17597f was 121c224, checked in by Jae Cho <jhjcho@…>, 14 years ago
final fixes for dQ=0 and Q=0 points
Property mode set to `100644`
File size: 11.3 KB

Rev	Line
[a7a5886]	1	"""
	2	"""
[0997158f]	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	######################################################################
[d8a5f12]	10
	11	import numpy
	12	import os
[a7a5886]	13	from DataLoader.data_info import Data1D
	14	from DataLoader.data_info import Detector
[d8a5f12]	15
[99d1af6]	16	has_converter = True
	17	try:
	18	from data_util.nxsunit import Converter
	19	except:
	20	has_converter = False
	21
[d8a5f12]	22	class Reader:
	23	"""
[0997158f]	24	Class to load IGOR reduced .ABS files
[d8a5f12]	25	"""
[8780e9a]	26	## File type
[28caa03]	27	type_name = "IGOR 1D"
	28	## Wildcards
[8780e9a]	29	type = ["IGOR 1D files (.abs)\|.abs"]
[d8a5f12]	30	## List of allowed extensions
[a7a5886]	31	ext = ['.abs', '.ABS']
[d8a5f12]	32
	33	def read(self, path):
	34	"""
[0997158f]	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
[d8a5f12]	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)
[148ad64]	57	dx = numpy.zeros(0)
	58	output = Data1D(x, y, dy=dy, dx=dx)
[99d1af6]	59	detector = Detector()
	60	output.detector.append(detector)
[b99ac227]	61	output.filename = basename
[d8a5f12]	62
	63	is_info = False
	64	is_center = False
	65	is_data_started = False
	66
[99d1af6]	67	data_conv_q = None
	68	data_conv_i = None
	69
[ca10d8e]	70	if has_converter == True and output.x_unit != '1/A':
	71	data_conv_q = Converter('1/A')
[99d1af6]	72	# Test it
	73	data_conv_q(1.0, output.x_unit)
	74
[ca10d8e]	75	if has_converter == True and output.y_unit != '1/cm':
	76	data_conv_i = Converter('1/cm')
[99d1af6]	77	# Test it
	78	data_conv_i(1.0, output.y_unit)
	79
[d8a5f12]	80	for line in lines:
[470bf7e]	81
[d8a5f12]	82	# Information line 1
[a7a5886]	83	if is_info == True:
[d8a5f12]	84	is_info = False
	85	line_toks = line.split()
	86
	87	# Wavelength in Angstrom
	88	try:
[99d1af6]	89	value = float(line_toks[1])
[a7a5886]	90	if has_converter == True and \
	91	output.source.wavelength_unit != 'A':
[99d1af6]	92	conv = Converter('A')
[a7a5886]	93	output.source.wavelength = conv(value,
	94	units=output.source.wavelength_unit)
[99d1af6]	95	else:
	96	output.source.wavelength = value
[d8a5f12]	97	except:
[470bf7e]	98	#goes to ASC reader
[a7a5886]	99	msg = "abs_reader: cannot open %s" % path
	100	raise RuntimeError, msg
	101	#raise ValueError,"IgorReader: can't read this file,
	102	# missing wavelength"
[d8a5f12]	103
	104	# Distance in meters
	105	try:
[99d1af6]	106	value = float(line_toks[3])
[a7a5886]	107	if has_converter == True and \
	108	detector.distance_unit != 'm':
[99d1af6]	109	conv = Converter('m')
[a7a5886]	110	detector.distance = conv(value,
	111	units=detector.distance_unit)
[99d1af6]	112	else:
	113	detector.distance = value
[d8a5f12]	114	except:
[470bf7e]	115	#goes to ASC reader
[a7a5886]	116	msg = "abs_reader: cannot open %s" % path
	117	raise RuntimeError, msg
[99d1af6]	118	# Transmission
[d8a5f12]	119	try:
	120	output.sample.transmission = float(line_toks[4])
	121	except:
	122	# Transmission is not a mandatory entry
	123	pass
	124
[99d1af6]	125	# Thickness in mm
[d8a5f12]	126	try:
[99d1af6]	127	value = float(line_toks[5])
[a7a5886]	128	if has_converter == True and \
	129	output.sample.thickness_unit != 'cm':
[b99ac227]	130	conv = Converter('cm')
[a7a5886]	131	output.sample.thickness = conv(value,
	132	units=output.sample.thickness_unit)
[99d1af6]	133	else:
	134	output.sample.thickness = value
[d8a5f12]	135	except:
	136	# Thickness is not a mandatory entry
	137	pass
[470bf7e]	138
[a7a5886]	139	#MON CNT LAMBDA DET ANG DET DIST TRANS THICK
	140	# AVE STEP
	141	if line.count("LAMBDA") > 0:
[470bf7e]	142	is_info = True
[d8a5f12]	143
[470bf7e]	144	# Find center info line
[a7a5886]	145	if is_center == True:
[470bf7e]	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])
[99d1af6]	151
[470bf7e]	152	# Bin size
[a7a5886]	153	if has_converter == True and \
	154	detector.pixel_size_unit != 'mm':
[470bf7e]	155	conv = Converter('mm')
[a7a5886]	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)
[470bf7e]	160	else:
	161	detector.pixel_size.x = 5.0
	162	detector.pixel_size.y = 5.0
[99d1af6]	163
[470bf7e]	164	# Store beam center in distance units
	165	# Det 640 x 640 mm
[a7a5886]	166	if has_converter==True and \
	167	detector.beam_center_unit != 'mm':
[470bf7e]	168	conv = Converter('mm')
[a7a5886]	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)
[470bf7e]	173	else:
[a7a5886]	174	detector.beam_center.x = center_x * 5.0
	175	detector.beam_center.y = center_y * 5.0
[d8a5f12]	176
[470bf7e]	177	# Detector type
	178	try:
	179	detector.name = line_toks[7]
	180	except:
	181	# Detector name is not a mandatory entry
	182	pass
	183
[a7a5886]	184	#BCENT(X,Y) A1(mm) A2(mm) A1A2DIST(m) DL/L
	185	# BSTOP(mm) DET_TYP
	186	if line.count("BCENT") > 0:
[470bf7e]	187	is_center = True
[d8a5f12]	188
[470bf7e]	189	# Parse the data
[a7a5886]	190	if is_data_started == True:
[470bf7e]	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])
[99d1af6]	198
[470bf7e]	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)
[148ad64]	202
[470bf7e]	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
[148ad64]	217
[a7a5886]	218	#The 6 columns are \| Q (1/A) \| I(Q) (1/cm) \| std. dev.
	219	# I(Q) (1/cm) \| sigmaQ \| meanQ \| ShadowFactor\|
[470bf7e]	220	if line.count("The 6 columns")>0:
	221	is_data_started = True
	222
[d8a5f12]	223	# Sanity check
	224	if not len(y) == len(dy):
[a7a5886]	225	msg = "abs_reader: y and dy have different length"
	226	raise ValueError, msg
[8bd8ea4]	227	# If the data length is zero, consider this as
	228	# though we were not able to read the file.
[a7a5886]	229	if len(x) == 0:
[8bd8ea4]	230	raise ValueError, "ascii_reader: could not load file"
[121c224]	231
	232	# Zeros in dx, dy
	233	if not numpy.all(dx==0):
	234	dx[dx==0] = _ZERO
	235	if not numpy.all(dy==0):
	236	dy[dy==0] = _ZERO
	237
	238	output.x = x[x!=0]
	239	output.y = y[x!=0]
	240	output.dy = dy[x!=0]
	241	output.dx = dx[x!=0]
[99d1af6]	242	if data_conv_q is not None:
	243	output.xaxis("\\rm{Q}", output.x_unit)
	244	else:
	245	output.xaxis("\\rm{Q}", 'A^{-1}')
	246	if data_conv_i is not None:
[0e2aa40]	247	output.yaxis("\\rm{Intensity}", output.y_unit)
[99d1af6]	248	else:
[0e2aa40]	249	output.yaxis("\\rm{Intensity}","cm^{-1}")
[fe78c7b]	250
	251	# Store loading process information
	252	output.meta_data['loader'] = self.type_name
[d8a5f12]	253	return output
	254	else:
	255	raise RuntimeError, "%s is not a file" % path
	256	return None
	257
	258	if __name__ == "__main__":
	259	reader = Reader()
[470bf7e]	260	print reader.read("../test/jan08002.ABS")
[d8a5f12]	261
	262
	263

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source: sasview/DataLoader/readers/abs_reader.py @ d17597f

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