danse_reader.py @ f83b94a

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 f83b94a was eadf1f9, checked in by Jae Cho <jhjcho@…>, 15 years ago
added calling qmap converter
Property mode set to `100644`
File size: 10.3 KB

Rev	Line
[11a0319]	1	"""
[99d1af6]	2	DANSE/SANS file reader
[11a0319]	3	"""
	4
[b99ac227]	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
[11a0319]	19	import math
[99d1af6]	20	import os
[11a0319]	21	import copy
	22	import numpy
[8d6440f]	23	import logging
[99d1af6]	24	from DataLoader.data_info import Data2D, Detector
[eadf1f9]	25	from DataLoader.manipulations import reader2D_converter
[99d1af6]	26
	27	# Look for unit converter
	28	has_converter = True
	29	try:
	30	from data_util.nxsunit import Converter
	31	except:
	32	has_converter = False
[16d8e5f]	33
[bb03739]	34	class Reader:
[11a0319]	35	"""
	36	Example data manipulation
	37	"""
	38	## File type
[28caa03]	39	type_name = "DANSE"
	40	## Wildcards
[11a0319]	41	type = ["DANSE files (.sans)\|.sans"]
	42	## Extension
[b99ac227]	43	ext = ['.sans', '.SANS']
[11a0319]	44
	45	def read(self, filename=None):
	46	"""
	47	Open and read the data in a file
	48	@param file: path of the file
	49	"""
	50
	51	read_it = False
	52	for item in self.ext:
	53	if filename.lower().find(item)>=0:
	54	read_it = True
	55
	56	if read_it:
[8d6440f]	57	try:
	58	datafile = open(filename, 'r')
	59	except :
	60	raise RuntimeError,"danse_reader cannot open %s"%(filename)
[11a0319]	61
	62
	63	# defaults
	64	# wavelength in Angstrom
	65	wavelength = 10.0
	66	# Distance in meter
	67	distance = 11.0
	68	# Pixel number of center in x
	69	center_x = 65
	70	# Pixel number of center in y
	71	center_y = 65
	72	# Pixel size [mm]
	73	pixel = 5.0
	74	# Size in x, in pixels
	75	size_x = 128
	76	# Size in y, in pixels
	77	size_y = 128
	78	# Format version
	79	fversion = 1.0
	80
[99d1af6]	81	output = Data2D()
	82	output.filename = os.path.basename(filename)
	83	detector = Detector()
	84	output.detector.append(detector)
	85
	86	output.data = numpy.zeros([size_x,size_y])
	87	output.err_data = numpy.zeros([size_x,size_y])
	88
	89	data_conv_q = None
	90	data_conv_i = None
	91
[ca10d8e]	92	if has_converter == True and output.Q_unit != '1/A':
	93	data_conv_q = Converter('1/A')
[99d1af6]	94	# Test it
	95	data_conv_q(1.0, output.Q_unit)
	96
[ca10d8e]	97	if has_converter == True and output.I_unit != '1/cm':
	98	data_conv_i = Converter('1/cm')
[99d1af6]	99	# Test it
	100	data_conv_i(1.0, output.I_unit)
	101
[11a0319]	102	read_on = True
	103	while read_on:
	104	line = datafile.readline()
	105	if line.find("DATA:")>=0:
	106	read_on = False
	107	break
	108	toks = line.split(':')
	109	if toks[0]=="FORMATVERSION":
	110	fversion = float(toks[1])
[99d1af6]	111	if toks[0]=="WAVELENGTH":
	112	wavelength = float(toks[1])
[11a0319]	113	elif toks[0]=="DISTANCE":
	114	distance = float(toks[1])
	115	elif toks[0]=="CENTER_X":
	116	center_x = float(toks[1])
	117	elif toks[0]=="CENTER_Y":
	118	center_y = float(toks[1])
	119	elif toks[0]=="PIXELSIZE":
	120	pixel = float(toks[1])
	121	elif toks[0]=="SIZE_X":
	122	size_x = int(toks[1])
	123	elif toks[0]=="SIZE_Y":
	124	size_y = int(toks[1])
	125
	126	# Read the data
	127	data = []
	128	error = []
	129	if fversion==1.0:
	130	data_str = datafile.readline()
	131	data = data_str.split(' ')
	132	else:
	133	read_on = True
	134	while read_on:
	135	data_str = datafile.readline()
	136	if len(data_str)==0:
	137	read_on = False
	138	else:
	139	toks = data_str.split()
	140	try:
	141	val = float(toks[0])
	142	err = float(toks[1])
[99d1af6]	143	if data_conv_i is not None:
	144	val = data_conv_i(val, units=output.y_unit)
	145	err = data_conv_i(err, units=output.y_unit)
[11a0319]	146	data.append(val)
	147	error.append(err)
	148	except:
[8d6440f]	149	logging.info("Skipping line:%s,%s" %( data_str,sys.exc_value))
[11a0319]	150
	151	# Initialize
	152	x_vals = []
	153	y_vals = []
	154	ymin = None
	155	ymax = None
	156	xmin = None
	157	xmax = None
	158
	159	# Qx and Qy vectors
[4fe4394]	160	theta = pixel / distance / 100.0
	161	stepq = 4.0math.pi/wavelength math.sin(theta/2.0)
[11a0319]	162	for i_x in range(size_x):
	163	theta = (i_x-center_x+1)*pixel / distance / 100.0
	164	qx = 4.0math.pi/wavelength math.sin(theta/2.0)
[99d1af6]	165
[ca10d8e]	166	if has_converter == True and output.Q_unit != '1/A':
[99d1af6]	167	qx = data_conv_q(qx, units=output.Q_unit)
	168
[11a0319]	169	x_vals.append(qx)
[ca10d8e]	170	if xmin==None or qx<xmin:
[11a0319]	171	xmin = qx
[ca10d8e]	172	if xmax==None or qx>xmax:
[11a0319]	173	xmax = qx
	174
	175	ymin = None
	176	ymax = None
	177	for i_y in range(size_y):
	178	theta = (i_y-center_y+1)*pixel / distance / 100.0
	179	qy = 4.0math.pi/wavelength math.sin(theta/2.0)
[99d1af6]	180
[ca10d8e]	181	if has_converter == True and output.Q_unit != '1/A':
[99d1af6]	182	qy = data_conv_q(qy, units=output.Q_unit)
	183
[11a0319]	184	y_vals.append(qy)
	185	if ymin==None or qy<ymin:
	186	ymin = qy
	187	if ymax==None or qy>ymax:
	188	ymax = qy
	189
[99d1af6]	190	# Store the data in the 2D array
[b99ac227]	191	itot = 0
	192	i_x = 0
	193	i_y = -1
	194
[11a0319]	195	for i_pt in range(len(data)):
	196	try:
[99d1af6]	197	value = float(data[i_pt])
[11a0319]	198	except:
[99d1af6]	199	# For version 1.0, the data were still
	200	# stored as strings at this point.
	201	logging.info("Skipping entry (v1.0):%s,%s" %(str(data[i_pt]), sys.exc_value))
[11a0319]	202
	203	# Get bin number
[b99ac227]	204	if math.fmod(i_pt, size_x)==0:
[11a0319]	205	i_x = 0
	206	i_y += 1
	207	else:
	208	i_x += 1
	209
[b99ac227]	210	output.data[i_y][i_x] = value
	211	#output.data[size_y-1-i_y][i_x] = value
[11a0319]	212	if fversion>1.0:
[b99ac227]	213	output.err_data[i_y][i_x] = error[i_pt]
	214	#output.err_data[size_y-1-i_y][i_x] = error[i_pt]
[11a0319]	215
[99d1af6]	216
	217	# Store all data ######################################
	218	# Store wavelength
	219	if has_converter==True and output.source.wavelength_unit != 'A':
	220	conv = Converter('A')
	221	wavelength = conv(wavelength, units=output.source.wavelength_unit)
	222	output.source.wavelength = wavelength
	223
	224	# Store distance
	225	if has_converter==True and detector.distance_unit != 'm':
	226	conv = Converter('m')
	227	distance = conv(distance, units=detector.distance_unit)
	228	detector.distance = distance
	229
	230	# Store pixel size
	231	if has_converter==True and detector.pixel_size_unit != 'mm':
	232	conv = Converter('mm')
	233	pixel = conv(pixel, units=detector.pixel_size_unit)
	234	detector.pixel_size.x = pixel
	235	detector.pixel_size.y = pixel
	236
	237	# Store beam center in distance units
	238	detector.beam_center.x = center_x*pixel
	239	detector.beam_center.y = center_y*pixel
	240
	241	# Store limits of the image (2D array)
[4fe4394]	242	xmin =xmin-stepq/2.0
	243	xmax =xmax+stepq/2.0
	244	ymin =ymin-stepq/2.0
	245	ymax =ymax+stepq/2.0
	246
[ca10d8e]	247	if has_converter == True and output.Q_unit != '1/A':
[99d1af6]	248	xmin = data_conv_q(xmin, units=output.Q_unit)
	249	xmax = data_conv_q(xmax, units=output.Q_unit)
	250	ymin = data_conv_q(ymin, units=output.Q_unit)
	251	ymax = data_conv_q(ymax, units=output.Q_unit)
	252	output.xmin = xmin
	253	output.xmax = xmax
	254	output.ymin = ymin
	255	output.ymax = ymax
	256
	257	# Store x and y axis bin centers
	258	output.x_bins = x_vals
	259	output.y_bins = y_vals
	260
	261	# Units
	262	if data_conv_q is not None:
[eeaabb1]	263	output.xaxis("\\rm{Q_{x}}", output.Q_unit)
	264	output.yaxis("\\rm{Q_{y}}", output.Q_unit)
[99d1af6]	265	else:
[eeaabb1]	266	output.xaxis("\\rm{Q_{x}}", 'A^{-1}')
	267	output.yaxis("\\rm{Q_{y}}", 'A^{-1}')
[99d1af6]	268
	269	if data_conv_i is not None:
[0e2aa40]	270	output.zaxis("\\rm{Intensity}", output.I_unit)
[99d1af6]	271	else:
[0e2aa40]	272	output.zaxis("\\rm{Intensity}","cm^{-1}")
[16d8e5f]	273
	274	if not fversion>=1.0:
[c125e0c]	275	raise ValueError,"Danse_reader can't read this file %s"%filename
[11a0319]	276	else:
[8d6440f]	277	logging.info("Danse_reader Reading %s \n"%filename)
[fe78c7b]	278
	279	# Store loading process information
	280	output.meta_data['loader'] = self.type_name
[eadf1f9]	281	output = reader2D_converter(output)
[fe78c7b]	282	return output
[11a0319]	283
	284	return None
[99d1af6]	285
	286	if __name__ == "__main__":
	287	reader = Reader()
	288	print reader.read("../test/MP_New.sans")
	289

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source: sasview/DataLoader/readers/danse_reader.py @ f83b94a

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