invariant_state.py @ bacc04b

Last change on this file since bacc04b was cb93b40, checked in by lewis, 8 years ago
Load invariant state correctly (fixes #615)
Property mode set to `100644`
File size: 30.6 KB

Rev	Line
[51f14603]	1	"""
[78a205a]	2	State class for the invariant UI
[51f14603]	3	"""
	4
[78a205a]	5	# import time
[51f14603]	6	import os
	7	import sys
	8	import logging
	9	import copy
[b699768]	10	import sas.sascalc.dataloader
[78a205a]	11	# from xml.dom.minidom import parse
[51f14603]	12	from lxml import etree
[b699768]	13	from sas.sascalc.dataloader.readers.cansas_reader import Reader as CansasReader
	14	from sas.sascalc.dataloader.readers.cansas_reader import get_content
[d85c194]	15	from sas.sasgui.guiframe.utils import format_number
	16	from sas.sasgui.guiframe.gui_style import GUIFRAME_ID
	17	from sas.sasgui.guiframe.dataFitting import Data1D
[51f14603]	18
	19	INVNODE_NAME = 'invariant'
	20	CANSAS_NS = "cansas1d/1.0"
	21
	22	# default state
[78a205a]	23	DEFAULT_STATE = {'file': 'None',
	24	'compute_num':0,
	25	'state_num':0,
	26	'is_time_machine':False,
	27	'background_tcl':0.0,
	28	'scale_tcl':1.0,
	29	'contrast_tcl':1.0,
	30	'porod_constant_tcl':'',
	31	'npts_low_tcl':10,
	32	'npts_high_tcl':10,
	33	'power_high_tcl':4.0,
	34	'power_low_tcl': 4.0,
	35	'enable_high_cbox':False,
	36	'enable_low_cbox':False,
	37	'guinier': True,
	38	'power_law_high': False,
	39	'power_law_low': False,
	40	'fit_enable_high': False,
	41	'fit_enable_low': False,
	42	'fix_enable_high':True,
	43	'fix_enable_low':True,
	44	'volume_tcl':'',
	45	'volume_err_tcl':'',
	46	'surface_tcl':'',
	47	'surface_err_tcl':''}
	48	# list of states: This list will be filled as panel
[51f14603]	49	# init and the number of states increases
	50	state_list = {}
	51	bookmark_list = {}
[78a205a]	52	# list of input parameters (will be filled up on panel init) used by __str__
[51f14603]	53	input_list = {'background_tcl':0,
[78a205a]	54	'scale_tcl':0,
	55	'contrast_tcl':0,
	56	'porod_constant_tcl':'',
	57	'npts_low_tcl':0,
	58	'npts_high_tcl':0,
	59	'power_high_tcl':0,
	60	'power_low_tcl': 0}
	61	# list of output parameters (order sensitive) used by __str__
	62	output_list = [["qstar_low", "Q* from low Q extrapolation [1/(cm*A)]"],
	63	["qstar_low_err", "dQ* from low Q extrapolation"],
	64	["qstar_low_percent", "Q* percent from low Q extrapolation"],
	65	["qstar", "Q* from data [1/(cm*A)]"],
	66	["qstar_err", "dQ* from data"],
	67	["qstar_percent", "Q* percent from data"],
	68	["qstar_high", "Q* from high Q extrapolation [1/(cm*A)]"],
	69	["qstar_high_err", "dQ* from high Q extrapolation"],
[51f14603]	70	["qstar_high_percent", "Q* percent from low Q extrapolation"],
[78a205a]	71	["qstar_total", "total Q* [1/(cm*A)]"],
	72	["qstar_total_err", "total dQ*"],
	73	["volume", "volume fraction"],
	74	["volume_err", "volume fraction error"],
	75	["surface", "specific surface"],
	76	["surface_err", "specific surface error"]]
	77
[51f14603]	78
	79
	80	class InvariantState(object):
	81	"""
	82	Class to hold the state information of the InversionControl panel.
	83	"""
	84	def __init__(self):
	85	"""
	86	Default values
	87	"""
[78a205a]	88	# Input
	89	self.file = None
[51f14603]	90	self.data = Data1D(x=[], y=[], dx=None, dy=None)
[78a205a]	91	self.theory_lowQ = Data1D(x=[], y=[], dy=None)
[51f14603]	92	self.theory_lowQ.symbol = GUIFRAME_ID.CURVE_SYMBOL_NUM
	93	self.theory_highQ = Data1D(x=[], y=[], dy=None)
	94	self.theory_highQ.symbol = GUIFRAME_ID.CURVE_SYMBOL_NUM
[78a205a]	95	# self.is_time_machine = False
	96	self.saved_state = DEFAULT_STATE
[51f14603]	97	self.state_list = state_list
	98	self.bookmark_list = bookmark_list
	99	self.input_list = input_list
	100	self.output_list = output_list
[78a205a]	101
[51f14603]	102	self.compute_num = 0
	103	self.state_num = 0
	104	self.timestamp = ('00:00:00', '00/00/0000')
	105	self.container = None
[78a205a]	106	# plot image
[51f14603]	107	self.wximbmp = None
	108	# report_html strings
[d85c194]	109	import sas.sasgui.perspectives.invariant as invariant
[51f14603]	110	path = invariant.get_data_path(media='media')
[78a205a]	111	path_report_html = os.path.join(path, "report_template.html")
	112	html_template = open(path_report_html, "r")
[51f14603]	113	self.template_str = html_template.read()
	114	self.report_str = self.template_str
[78a205a]	115	# self.report_str_save = None
[51f14603]	116	html_template.close()
[78a205a]	117
[51f14603]	118	def __str__(self):
	119	"""
	120	Pretty print
[78a205a]	121
[51f14603]	122	: return: string representing the state
	123	"""
	124	# Input string
	125	compute_num = self.saved_state['compute_num']
	126	compute_state = self.state_list[str(compute_num)]
	127	my_time, date = self.timestamp
	128	file_name = self.file
	129
	130	state_num = int(self.saved_state['state_num'])
	131	state = "\n[Invariant computation for %s: " % file_name
	132	state += "performed at %s on %s] \n" % (my_time, date)
	133	state += "State No.: %d \n" % state_num
	134	state += "\n=== Inputs ===\n"
[78a205a]	135
[51f14603]	136	# text ctl general inputs ( excluding extrapolation text ctl)
[78a205a]	137	for key, value in self.input_list.iteritems():
[51f14603]	138	if value == '':
	139	continue
[78a205a]	140	key_split = key.split('_')
	141	max_ind = len(key_split) - 1
	142	if key_split[max_ind] == 'tcl':
[51f14603]	143	name = ""
	144	if key_split[1] == 'low' or key_split[1] == 'high':
	145	continue
	146	for ind in range(0, max_ind):
	147	name += " %s" % key_split[ind]
	148	state += "%s: %s\n" % (name.lstrip(" "), value)
[78a205a]	149
	150	# other input parameters
[51f14603]	151	extra_lo = compute_state['enable_low_cbox']
	152	if compute_state['enable_low_cbox']:
	153	if compute_state['guinier']:
	154	extra_lo = 'Guinier'
	155	else:
	156	extra_lo = 'Power law'
	157	extra_hi = compute_state['enable_high_cbox']
	158	if compute_state['enable_high_cbox']:
	159	extra_hi = 'Power law'
[78a205a]	160	state += "\nExtrapolation: High=%s; Low=%s\n" % (extra_hi, extra_lo)
[51f14603]	161	low_off = False
	162	high_off = False
[78a205a]	163	for key, value in self.input_list.iteritems():
	164	key_split = key.split('_')
	165	max_ind = len(key_split) - 1
	166	if key_split[max_ind] == 'tcl':
	167	name = ""
[51f14603]	168	# check each buttons whether or not ON or OFF
	169	if key_split[1] == 'low' or key_split[1] == 'high':
	170	if not compute_state['enable_low_cbox'] and \
[78a205a]	171	key_split[max_ind - 1] == 'low':
[51f14603]	172	low_off = True
[78a205a]	173	continue
[51f14603]	174	elif not compute_state['enable_high_cbox'] and \
[78a205a]	175	key_split[max_ind - 1] == 'high':
[51f14603]	176	high_off = True
	177	continue
	178	elif extra_lo == 'Guinier' and key_split[0] == 'power' and \
[78a205a]	179	key_split[max_ind - 1] == 'low':
[51f14603]	180	continue
	181	for ind in range(0, max_ind):
	182	name += " %s" % key_split[ind]
	183	name = name.lstrip(" ")
[78a205a]	184	if name == "power low":
[51f14603]	185	if compute_state['fix_enable_low']:
	186	name += ' (Fixed)'
	187	else:
	188	name += ' (Fitted)'
[78a205a]	189	if name == "power high":
[51f14603]	190	if compute_state['fix_enable_high']:
	191	name += ' (Fixed)'
	192	else:
	193	name += ' (Fitted)'
	194	state += "%s: %s\n" % (name, value)
	195	# Outputs
	196	state += "\n=== Outputs ==="
	197	for item in output_list:
[78a205a]	198	item_split = item[0].split('_')
[51f14603]	199	# Exclude the extrapolation that turned off
	200	if len(item_split) > 1:
	201	if low_off and item_split[1] == 'low':
	202	continue
	203	if high_off and item_split[1] == 'high':
	204	continue
	205	max_ind = len(item_split) - 1
	206	value = None
[78a205a]	207	if hasattr(self.container, item[0]):
[51f14603]	208	# Q* outputs
[78a205a]	209	value = getattr(self.container, item[0])
	210	else:
[51f14603]	211	# other outputs than Q*
	212	name = item[0] + "_tcl"
	213	if name in self.saved_state.keys():
[78a205a]	214	value = self.saved_state[name]
	215
	216	# Exclude the outputs w/''
[51f14603]	217	if value == '':
[78a205a]	218	continue
[51f14603]	219	# Error outputs
	220	if item_split[max_ind] == 'err':
	221	state += "+- %s " % format_number(value)
	222	# Percentage outputs
	223	elif item_split[max_ind] == 'percent':
[78a205a]	224	value = float(value) * 100
[51f14603]	225	state += "(%s %s)" % (format_number(value), '%')
	226	# Outputs
	227	else:
[78a205a]	228	state += "\n%s: %s " % (item[1],
	229	format_number(value, high=True))
[51f14603]	230	# Include warning msg
	231	if self.container is not None:
	232	state += "\n\nNote:\n" + self.container.warning_msg
	233	return state
	234
	235	def clone_state(self):
	236	"""
	237	deepcopy the state
	238	"""
	239	return copy.deepcopy(self.saved_state)
	240
	241	def toXML(self, file="inv_state.inv", doc=None, entry_node=None):
	242	"""
	243	Writes the state of the InversionControl panel to file, as XML.
[78a205a]	244
[51f14603]	245	Compatible with standalone writing, or appending to an
	246	already existing XML document. In that case, the XML document
[78a205a]	247	is required. An optional entry node in the XML document
[51f14603]	248	may also be given.
[78a205a]	249
[51f14603]	250	: param file: file to write to
	251	: param doc: XML document object [optional]
[78a205a]	252	: param entry_node: XML node within the document at which we will append the data [optional]
[51f14603]	253	"""
[92a2ecd]	254	# TODO: Get this to work
[51f14603]	255	from xml.dom.minidom import getDOMImplementation
	256	import time
	257	timestamp = time.time()
	258	# Check whether we have to write a standalone XML file
	259	if doc is None:
	260	impl = getDOMImplementation()
[78a205a]	261
	262	doc_type = impl.createDocumentType(INVNODE_NAME, "1.0", "1.0")
	263
[51f14603]	264	newdoc = impl.createDocument(None, INVNODE_NAME, doc_type)
	265	top_element = newdoc.documentElement
	266	else:
	267	# We are appending to an existing document
	268	newdoc = doc
	269	top_element = newdoc.createElement(INVNODE_NAME)
	270	if entry_node is None:
	271	newdoc.documentElement.appendChild(top_element)
	272	else:
	273	entry_node.appendChild(top_element)
[78a205a]	274
[51f14603]	275	attr = newdoc.createAttribute("version")
	276	attr.nodeValue = '1.0'
	277	top_element.setAttributeNode(attr)
[78a205a]	278
[51f14603]	279	# File name
	280	element = newdoc.createElement("filename")
	281	if self.file != None and self.file != '':
	282	element.appendChild(newdoc.createTextNode(str(self.file)))
	283	else:
	284	element.appendChild(newdoc.createTextNode(str(file)))
	285	top_element.appendChild(element)
[78a205a]	286
[51f14603]	287	element = newdoc.createElement("timestamp")
	288	element.appendChild(newdoc.createTextNode(time.ctime(timestamp)))
	289	attr = newdoc.createAttribute("epoch")
	290	attr.nodeValue = str(timestamp)
	291	element.setAttributeNode(attr)
	292	top_element.appendChild(element)
[78a205a]	293
[51f14603]	294	# Current state
	295	state = newdoc.createElement("state")
	296	top_element.appendChild(state)
[78a205a]	297
	298	for name, value in self.saved_state.iteritems():
[51f14603]	299	element = newdoc.createElement(str(name))
	300	element.appendChild(newdoc.createTextNode(str(value)))
	301	state.appendChild(element)
[78a205a]	302
[51f14603]	303	# State history list
	304	history = newdoc.createElement("history")
	305	top_element.appendChild(history)
[78a205a]	306
[51f14603]	307	for name, value in self.state_list.iteritems():
	308	history_element = newdoc.createElement('state_' + str(name))
[78a205a]	309	for state_name, state_value in value.iteritems():
[51f14603]	310	state_element = newdoc.createElement(str(state_name))
	311	child = newdoc.createTextNode(str(state_value))
	312	state_element.appendChild(child)
	313	history_element.appendChild(state_element)
[78a205a]	314	# history_element.appendChild(state_list_element)
[51f14603]	315	history.appendChild(history_element)
	316
	317	# Bookmarks bookmark_list[self.bookmark_num] = [\
[78a205a]	318	# my_time,date,state,comp_state]
[51f14603]	319	bookmark = newdoc.createElement("bookmark")
	320	top_element.appendChild(bookmark)
[78a205a]	321	item_list = ['time', 'date', 'state', 'comp_state']
[51f14603]	322	for name, value_list in self.bookmark_list.iteritems():
[78a205a]	323	element = newdoc.createElement('mark_' + str(name))
	324	_, date, state, comp_state = value_list
[51f14603]	325	time_element = newdoc.createElement('time')
	326	time_element.appendChild(newdoc.createTextNode(str(value_list[0])))
	327	date_element = newdoc.createElement('date')
	328	date_element.appendChild(newdoc.createTextNode(str(value_list[1])))
	329	state_list_element = newdoc.createElement('state')
	330	comp_state_list_element = newdoc.createElement('comp_state')
	331	for state_name, state_value in value_list[2].iteritems():
	332	state_element = newdoc.createElement(str(state_name))
	333	child = newdoc.createTextNode(str(state_value))
	334	state_element.appendChild(child)
	335	state_list_element.appendChild(state_element)
	336	for comp_name, comp_value in value_list[3].iteritems():
	337	comp_element = newdoc.createElement(str(comp_name))
	338	comp_element.appendChild(newdoc.createTextNode(str(comp_value)))
	339	comp_state_list_element.appendChild(comp_element)
	340	element.appendChild(time_element)
	341	element.appendChild(date_element)
	342	element.appendChild(state_list_element)
	343	element.appendChild(comp_state_list_element)
	344	bookmark.appendChild(element)
	345
	346	# Save the file
	347	if doc is None:
	348	fd = open('test000', 'w')
	349	fd.write(newdoc.toprettyxml())
	350	fd.close()
	351	return None
	352	else:
[92a2ecd]	353	return newdoc
[78a205a]	354
[51f14603]	355	def fromXML(self, file=None, node=None):
	356	"""
	357	Load invariant states from a file
[78a205a]	358
[51f14603]	359	: param file: .inv file
[78a205a]	360	: param node: node of a XML document to read from
[51f14603]	361	"""
	362	if file is not None:
	363	msg = "InvariantSate no longer supports non-CanSAS"
	364	msg += " format for invariant files"
	365	raise RuntimeError, msg
[78a205a]	366
[51f14603]	367	if node.get('version')\
	368	and node.get('version') == '1.0':
	369
	370	# Get file name
	371	entry = get_content('ns:filename', node)
	372	if entry is not None:
	373	file_name = entry.text.strip()
	374
	375	# Get time stamp
	376	entry = get_content('ns:timestamp', node)
	377	if entry is not None and entry.get('epoch'):
	378	try:
	379	timestamp = (entry.get('epoch'))
	380	except:
	381	msg = "InvariantSate.fromXML: Could not read"
	382	msg += " timestamp\n %s" % sys.exc_value
	383	logging.error(msg)
[78a205a]	384
[51f14603]	385	# Parse bookmarks
	386	entry_bookmark = get_content('ns:bookmark', node)
	387
	388	for ind in range(1, len(entry_bookmark) + 1):
	389	temp_state = {}
	390	temp_bookmark = {}
[78a205a]	391	entry = get_content('ns:mark_%s' % ind, entry_bookmark)
	392
[51f14603]	393	if entry is not None:
	394	my_time = get_content('ns:time', entry)
	395	val_time = str(my_time.text.strip())
	396	date = get_content('ns:date', entry)
	397	val_date = str(date.text.strip())
	398	state_entry = get_content('ns:state', entry)
[78a205a]	399	for item in DEFAULT_STATE:
[51f14603]	400	input_field = get_content('ns:%s' % item, state_entry)
	401	val = str(input_field.text.strip())
	402	if input_field is not None:
[78a205a]	403	temp_state[item] = val
[51f14603]	404	comp_entry = get_content('ns:comp_state', entry)
[78a205a]	405
	406	for item in DEFAULT_STATE:
[51f14603]	407	input_field = get_content('ns:%s' % item, comp_entry)
	408	val = str(input_field.text.strip())
	409	if input_field is not None:
[78a205a]	410	temp_bookmark[item] = val
[51f14603]	411	try:
[78a205a]	412	self.bookmark_list[ind] = [val_time, val_date, temp_state, temp_bookmark]
[51f14603]	413	except:
	414	raise "missing components of bookmarks..."
	415	# Parse histories
	416	entry_history = get_content('ns:history', node)
	417
	418	for ind in range(0, len(entry_history)):
	419	temp_state = {}
[78a205a]	420	entry = get_content('ns:state_%s' % ind, entry_history)
[51f14603]	421
	422	if entry is not None:
[78a205a]	423	for item in DEFAULT_STATE:
	424	input_field = get_content('ns:%s' % item, entry)
[51f14603]	425	val = str(input_field.text.strip())
	426	if input_field is not None:
[78a205a]	427	temp_state[item] = val
[cb93b40]	428	self.state_list[str(ind)] = temp_state
[78a205a]	429
[51f14603]	430	# Parse current state (ie, saved_state)
[78a205a]	431	entry = get_content('ns:state', node)
[51f14603]	432	if entry is not None:
[78a205a]	433	for item in DEFAULT_STATE:
[51f14603]	434	input_field = get_content('ns:%s' % item, entry)
	435	val = str(input_field.text.strip())
	436	if input_field is not None:
	437	self.set_saved_state(name=item, value=val)
	438	self.file = file_name
[78a205a]	439
[51f14603]	440	def set_report_string(self):
	441	"""
[78a205a]	442	Get the values (strings) from __str__ for report
[51f14603]	443	"""
	444	strings = self.__str__()
[78a205a]	445
[51f14603]	446	# default string values
[78a205a]	447	for num in range(1, 19):
[51f14603]	448	exec "s_%s = 'NA'" % str(num)
	449	lines = strings.split('\n')
	450	# get all string values from __str__()
	451	for line in range(0, len(lines)):
	452	if line == 1:
	453	s_1 = lines[1]
	454	elif line == 2:
	455	s_2 = lines[2]
	456	else:
	457	item = lines[line].split(':')
	458	item[0] = item[0].strip()
	459	if item[0] == "scale":
	460	s_3 = item[1]
	461	elif item[0] == "porod constant":
	462	s_4 = item[1]
	463	elif item[0] == "background":
	464	s_5 = item[1]
	465	elif item[0] == "contrast":
	466	s_6 = item[1]
	467	elif item[0] == "Extrapolation":
	468	extra = item[1].split(";")
	469	bool_0 = extra[0].split("=")
	470	bool_1 = extra[1].split("=")
	471	s_8 = " " + bool_0[0] + "Q region = " + bool_0[1]
	472	s_7 = " " + bool_1[0] + "Q region = " + bool_1[1]
	473	elif item[0] == "npts low":
	474	s_9 = item[1]
	475	elif item[0] == "npts high":
	476	s_10 = item[1]
	477	elif item[0] == "volume fraction":
[78a205a]	478	val = item[1].split("+-")[0].strip()
[51f14603]	479	error = item[1].split("+-")[1].strip()
	480	s_17 = val + " ± " + error
	481	elif item[0] == "specific surface":
	482	val = item[1].split("+-")[0].strip()
	483	error = item[1].split("+-")[1].strip()
	484	s_18 = val + " ± " + error
	485	elif item[0].split("(")[0].strip() == "power low":
[78a205a]	486	s_11 = item[0] + " =" + item[1]
[51f14603]	487	elif item[0].split("(")[0].strip() == "power high":
[78a205a]	488	s_12 = item[0] + " =" + item[1]
[51f14603]	489	elif item[0].split("[")[0].strip() == "Q* from low Q extrapolation":
[78a205a]	490	# looks messy but this way the symbols +_ and % work on html
[51f14603]	491	val = item[1].split("+-")[0].strip()
	492	error = item[1].split("+-")[1].strip()
	493	err = error.split("%")[0].strip()
	494	percent = error.split("%")[1].strip()
	495	s_13 = val + " ± " + err + "&#37" + percent
	496	elif item[0].split("[")[0].strip() == "Q* from data":
	497	val = item[1].split("+-")[0].strip()
	498	error = item[1].split("+-")[1].strip()
	499	err = error.split("%")[0].strip()
	500	percent = error.split("%")[1].strip()
	501	s_14 = val + " ± " + err + "&#37" + percent
	502	elif item[0].split("[")[0].strip() == "Q* from high Q extrapolation":
	503	val = item[1].split("+-")[0].strip()
	504	error = item[1].split("+-")[1].strip()
	505	err = error.split("%")[0].strip()
	506	percent = error.split("%")[1].strip()
	507	s_15 = val + " ± " + err + "&#37" + percent
	508	elif item[0].split("[")[0].strip() == "total Q*":
	509	val = item[1].split("+-")[0].strip()
	510	error = item[1].split("+-")[1].strip()
	511	s_16 = val + " ± " + error
	512	else:
	513	continue
	514
	515	s_1 = self._check_html_format(s_1)
	516	file_name = self._check_html_format(self.file)
	517
	518	# make plot image
[78a205a]	519	self.set_plot_state(extra_high=bool_0[1], extra_low=bool_1[1])
[51f14603]	520	# get ready for report with setting all the html strings
	521	self.report_str = str(self.template_str) % (s_1, s_2,
[78a205a]	522	s_3, s_4, s_5, s_6, s_7, s_8,
	523	s_9, s_10, s_11, s_12, s_13, s_14, s_15,
	524	s_16, s_17, s_18, file_name, "%s")
[51f14603]	525
	526	def _check_html_format(self, name):
	527	"""
	528	Check string '%' for html format
	529	"""
	530	if name.count('%'):
	531	name = name.replace('%', '&#37')
[78a205a]	532
[51f14603]	533	return name
[78a205a]	534
[51f14603]	535	def set_saved_state(self, name, value):
	536	"""
[78a205a]	537	Set the state list
	538
[51f14603]	539	: param name: name of the state component
	540	: param value: value of the state component
	541	"""
[78a205a]	542	rb_list = [['power_law_low', 'guinier'],
	543	['fit_enable_low', 'fix_enable_low'],
	544	['fit_enable_high', 'fix_enable_high']]
[51f14603]	545
[78a205a]	546	self.name = value
	547	self.saved_state[name] = value
	548	# set the count part of radio button clicked
	549	# False for the saved_state
	550	for title, content in rb_list:
	551	if name == title:
	552	name = content
	553	value = False
	554	elif name == content:
	555	name = title
	556	value = False
	557	self.saved_state[name] = value
	558	self.state_num = self.saved_state['state_num']
[51f14603]	559
	560	def set_plot_state(self, extra_high=False, extra_low=False):
	561	"""
	562	Build image state that wx.html understand
	563	by plotting, putting it into wx.FileSystem image object
[78a205a]	564
[51f14603]	565	: extrap_high,extra_low: low/high extrapolations
	566	are possible extra-plots
	567	"""
	568	# some imports
	569	import wx
	570	import matplotlib.pyplot as plt
	571	from matplotlib.backends.backend_agg import FigureCanvasAgg
	572
[78a205a]	573	# we use simple plot, not plotpanel
	574	# make matlab figure
[51f14603]	575	fig = plt.figure()
	576	fig.set_facecolor('w')
	577	graph = fig.add_subplot(111)
	578
[78a205a]	579	# data plot
[51f14603]	580	graph.errorbar(self.data.x, self.data.y, yerr=self.data.dy, fmt='o')
[78a205a]	581	# low Q extrapolation fit plot
[51f14603]	582	if not extra_low == 'False':
[78a205a]	583	graph.plot(self.theory_lowQ.x, self.theory_lowQ.y)
	584	# high Q extrapolation fit plot
[51f14603]	585	if not extra_high == 'False':
[78a205a]	586	graph.plot(self.theory_highQ.x, self.theory_highQ.y)
[51f14603]	587	graph.set_xscale("log", nonposx='clip')
	588	graph.set_yscale("log", nonposy='clip')
[78a205a]	589	graph.set_xlabel('$\\rm{Q}(\\AA^{-1})$', fontsize=12)
	590	graph.set_ylabel('$\\rm{Intensity}(cm^{-1})$', fontsize=12)
[51f14603]	591	canvas = FigureCanvasAgg(fig)
[78a205a]	592	# actually make image
[51f14603]	593	canvas.draw()
[78a205a]	594
	595	# make python.Image object
	596	# size
[51f14603]	597	w, h = canvas.get_width_height()
[78a205a]	598	# convert to wx.Image
	599	wximg = wx.EmptyImage(w, h)
	600	# wxim.SetData(img.convert('RGB').tostring() )
	601	wximg.SetData(canvas.tostring_rgb())
	602	# get the dynamic image for the htmlwindow
[51f14603]	603	wximgbmp = wx.BitmapFromImage(wximg)
[78a205a]	604	# store the image in wx.FileSystem Object
[51f14603]	605	wx.FileSystem.AddHandler(wx.MemoryFSHandler())
	606	# use wx.MemoryFSHandler
	607	self.imgRAM = wx.MemoryFSHandler()
[78a205a]	608	# AddFile, image can be retrieved with 'memory:filename'
[51f14603]	609	self.imgRAM.AddFile('img_inv.png', wximgbmp, wx.BITMAP_TYPE_PNG)
[78a205a]	610
[51f14603]	611	self.wximgbmp = 'memory:img_inv.png'
	612	self.image = fig
	613
	614	class Reader(CansasReader):
	615	"""
	616	Class to load a .inv invariant file
	617	"""
[78a205a]	618	# # File type
[51f14603]	619	type_name = "Invariant"
[78a205a]	620
	621	# # Wildcards
[51f14603]	622	type = ["Invariant file (.inv)\|.inv",
[b9a5f0e]	623	"SASView file (.svs)\|.svs"]
[78a205a]	624	# # List of allowed extensions
	625	ext = ['.inv', '.INV', '.svs', 'SVS']
	626
[51f14603]	627	def __init__(self, call_back, cansas=True):
	628	"""
	629	Initialize the call-back method to be called
	630	after we load a file
[78a205a]	631
[51f14603]	632	: param call_back: call-back method
	633	: param cansas: True = files will be written/read in CanSAS format
[78a205a]	634	False = write CanSAS format
[51f14603]	635	"""
[78a205a]	636	# # Call back method to be executed after a file is read
[51f14603]	637	self.call_back = call_back
[78a205a]	638	# # CanSAS format flag
[51f14603]	639	self.cansas = cansas
	640	self.state = None
	641
	642	def read(self, path):
[78a205a]	643	"""
[51f14603]	644	Load a new invariant state from file
[78a205a]	645
[51f14603]	646	: param path: file path
	647	: return: None
	648	"""
	649	if self.cansas == True:
	650	return self._read_cansas(path)
	651	else:
	652	return self._read_standalone(path)
[78a205a]	653
[51f14603]	654	def _read_standalone(self, path):
[78a205a]	655	"""
[51f14603]	656	Load a new invariant state from file.
	657	The invariant node is assumed to be the top element.
[78a205a]	658
[51f14603]	659	: param path: file path
	660	: return: None
	661	"""
	662	# Read the new state from file
	663	state = InvariantState()
	664
	665	state.fromXML(file=path)
[78a205a]	666
[51f14603]	667	# Call back to post the new state
	668	self.call_back(state)
	669	return None
[78a205a]	670
[51f14603]	671	def _parse_state(self, entry):
	672	"""
	673	Read an invariant result from an XML node
[78a205a]	674
	675	: param entry: XML node to read from
[51f14603]	676	: return: InvariantState object
	677	"""
	678	state = None
	679	# Locate the invariant node
	680	try:
	681	nodes = entry.xpath('ns:%s' % INVNODE_NAME,
	682	namespaces={'ns': CANSAS_NS})
	683	# Create an empty state
	684	if nodes != []:
	685	state = InvariantState()
	686	state.fromXML(node=nodes[0])
	687	except:
	688	msg = "XML document does not contain invariant"
	689	msg += " information.\n %s" % sys.exc_value
[78a205a]	690	logging.info(msg)
[51f14603]	691	return state
[78a205a]	692
[51f14603]	693	def _read_cansas(self, path):
[78a205a]	694	"""
[51f14603]	695	Load data and invariant information from a CanSAS XML file.
[78a205a]	696
[51f14603]	697	: param path: file path
[78a205a]	698	: return: Data1D object if a single SASentry was found,
[51f14603]	699	or a list of Data1D objects if multiple entries were found,
	700	or None of nothing was found
	701	: raise RuntimeError: when the file can't be opened
	702	: raise ValueError: when the length of the data vectors are inconsistent
	703	"""
	704	output = []
	705	if os.path.isfile(path):
[78a205a]	706	basename = os.path.basename(path)
[51f14603]	707	root, extension = os.path.splitext(basename)
[78a205a]	708
[51f14603]	709	if extension.lower() in self.ext or \
	710	extension.lower() == '.xml':
	711	tree = etree.parse(path, parser=etree.ETCompatXMLParser())
[78a205a]	712
[51f14603]	713	# Check the format version number
[78a205a]	714	# Specifying the namespace will take care of
	715	# the file format version
[51f14603]	716	root = tree.getroot()
[78a205a]	717
[51f14603]	718	entry_list = root.xpath('/ns:SASroot/ns:SASentry',
	719	namespaces={'ns': CANSAS_NS})
[78a205a]	720
[51f14603]	721	for entry in entry_list:
[78a205a]	722
[92a2ecd]	723	sas_entry, _ = self._parse_entry(entry)
[51f14603]	724	invstate = self._parse_state(entry)
[78a205a]	725
	726	# invstate could be None when .svs file is loaded
	727	# in this case, skip appending to output
[51f14603]	728	if invstate != None:
	729	sas_entry.meta_data['invstate'] = invstate
	730	sas_entry.filename = invstate.file
	731	output.append(sas_entry)
	732	else:
	733	raise RuntimeError, "%s is not a file" % path
	734
	735	# Return output consistent with the loader's api
	736	if len(output) == 0:
	737	return None
	738	elif len(output) == 1:
	739	# Call back to post the new state
	740	self.state = output[0].meta_data['invstate']
	741	self.call_back(state=output[0].meta_data['invstate'],
[78a205a]	742	datainfo=output[0])
[51f14603]	743	return output[0]
	744	else:
[78a205a]	745	return output
	746
[51f14603]	747	def get_state(self):
	748	return self.state
[78a205a]	749
[51f14603]	750	def write(self, filename, datainfo=None, invstate=None):
	751	"""
	752	Write the content of a Data1D as a CanSAS XML file
[78a205a]	753
[51f14603]	754	: param filename: name of the file to write
	755	: param datainfo: Data1D object
	756	: param invstate: InvariantState object
	757	"""
	758	# Sanity check
	759	if self.cansas == True:
[78a205a]	760	doc = self.write_toXML(datainfo, invstate)
[51f14603]	761	# Write the XML document
	762	fd = open(filename, 'w')
	763	fd.write(doc.toprettyxml())
	764	fd.close()
	765	else:
	766	invstate.toXML(file=filename)
[78a205a]	767
[51f14603]	768	def write_toXML(self, datainfo=None, state=None):
	769	"""
	770	Write toXML, a helper for write()
[78a205a]	771
[51f14603]	772	: return: xml doc
	773	"""
	774	if datainfo is None:
[c10d9d6c]	775	datainfo = sas.sascalc.dataloader.data_info.Data1D(x=[], y=[])
	776	elif not issubclass(datainfo.__class__, sas.sascalc.dataloader.data_info.Data1D):
[51f14603]	777	msg = "The cansas writer expects a Data1D"
	778	msg += " instance: %s" % str(datainfo.__class__.__name__)
	779	raise RuntimeError, msg
[78a205a]	780	# make sure title and data run is filled up.
[51f14603]	781	if datainfo.title == None or datainfo.title == '':
	782	datainfo.title = datainfo.name
[78a205a]	783	if datainfo.run_name == None or datainfo.run_name == {}:
[51f14603]	784	datainfo.run = [str(datainfo.name)]
	785	datainfo.run_name[0] = datainfo.name
	786	# Create basic XML document
	787	doc, sasentry = self._to_xml_doc(datainfo)
	788	# Add the invariant information to the XML document
	789	if state is not None:
[78a205a]	790	doc = state.toXML(datainfo.name, doc=doc, entry_node=sasentry)
[51f14603]	791	return doc

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SasView

source: sasview/src/sas/sasgui/perspectives/invariant/invariant_state.py @ bacc04b

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