fitting.py @ 5e8e615

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 5e8e615 was bd5ac39, checked in by Jae Cho <jhjcho@…>, 13 years ago
added progress bar and passed the park NameError? that we can not handle
Property mode set to `100644`
File size: 63.8 KB

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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	#
8	#See the license text in license.txt
9	#
10	#copyright 2009, University of Tennessee
11	################################################################################
12
13
14	import re
15	import sys
16	import wx
17	import logging
18	import numpy
19	import string
20	import time
21	from copy import deepcopy
22	import models
23	import fitpage
24
25
26	from DataLoader.loader import Loader
27	from sans.guiframe.dataFitting import Data2D
28	from sans.guiframe.dataFitting import Data1D
29	from sans.guiframe.events import NewPlotEvent
30	from sans.guiframe.events import StatusEvent
31	from sans.guiframe.events import EVT_SLICER_PANEL
32	from sans.guiframe.events import EVT_REMOVE_DATA
33	from sans.guiframe.events import EVT_SLICER_PARS_UPDATE
34	from sans.guiframe.gui_style import GUIFRAME_ID
35	from sans.guiframe.plugin_base import PluginBase
36
37	from .console import ConsoleUpdate
38	from .fitproblem import FitProblem
39	from .fitpanel import FitPanel
40	from .fit_thread import FitThread
41	from .pagestate import Reader
42	from .fitpage import Chi2UpdateEvent
43
44	DEFAULT_BEAM = 0.005
45	DEFAULT_QMIN = 0.001
46	DEFAULT_QMAX = 0.13
47	DEFAULT_NPTS = 50
48	MAX_NBR_DATA = 4
49
50
51	(PageInfoEvent, EVT_PAGE_INFO) = wx.lib.newevent.NewEvent()
52
53
54
55	class Plugin(PluginBase):
56	"""
57	Fitting plugin is used to perform fit
58	"""
59	def __init__(self, standalone=False):
60	PluginBase.__init__(self, name="Fitting", standalone=standalone)
61
62	#list of panel to send to guiframe
63	self.mypanels = []
64	# reference to the current running thread
65	self.calc_2D = None
66	self.calc_1D = None
67	self.fit_thread_list = {}
68	self.residuals = None
69	self.fit_panel = None
70	# Start with a good default
71	self.elapsed = 0.022
72	# the type of optimizer selected, park or scipy
73	self.fitter = None
74	self.fit_panel = None
75	#let fit ready
76	self.fitproblem_count = None
77	#Flag to let the plug-in know that it is running stand alone
78	self.standalone = True
79	## dictionary of page closed and id
80	self.closed_page_dict = {}
81	## Fit engine
82	self._fit_engine = 'scipy'
83	## Relative error desired in the sum of squares (float); scipy only
84	self.ftol=1.49012e-08
85	#List of selected data
86	self.selected_data_list = []
87	## list of slicer panel created to display slicer parameters and results
88	self.slicer_panels = []
89	# model 2D view
90	self.model2D_id = None
91	#keep reference of the simultaneous fit page
92	self.sim_page = None
93	self.index_model = 0
94	#Create a reader for fit page's state
95	self.state_reader = None
96	self._extensions = '.fitv'
97	self.scipy_id = wx.NewId()
98	self.park_id = wx.NewId()
99
100	self.temp_state = []
101	self.state_index = 0
102	self.sfile_ext = None
103	# take care of saving data, model and page associated with each other
104	self.page_finder = {}
105	# Log startup
106	logging.info("Fitting plug-in started")
107
108	def populate_menu(self, owner):
109	"""
110	Create a menu for the Fitting plug-in
111
112	:param id: id to create a menu
113	:param owner: owner of menu
114
115	:return: list of information to populate the main menu
116
117	"""
118	#Menu for fitting
119	self.menu1 = wx.Menu()
120	id1 = wx.NewId()
121	simul_help = "Add new fit panel"
122	self.menu1.Append(id1, '&New Fit Page',simul_help)
123	wx.EVT_MENU(owner, id1, self.on_add_new_page)
124	self.menu1.AppendSeparator()
125	id1 = wx.NewId()
126	simul_help = "Simultaneous Fit"
127	self.menu1.Append(id1, '&Simultaneous Fit',simul_help)
128	wx.EVT_MENU(owner, id1, self.on_add_sim_page)
129	self.menu1.AppendSeparator()
130	#Set park engine
131
132	scipy_help= "Scipy Engine: Perform Simple fit. More in Help window...."
133	self.menu1.AppendCheckItem(self.scipy_id, "Simple Fit [Scipy]",scipy_help)
134	wx.EVT_MENU(owner, self.scipy_id, self._onset_engine_scipy)
135
136	park_help = "Park Engine: Perform Complex fit. More in Help window...."
137	self.menu1.AppendCheckItem(self.park_id, "Complex Fit [Park]",park_help)
138	wx.EVT_MENU(owner, self.park_id, self._onset_engine_park)
139
140	self.menu1.FindItemById(self.scipy_id).Check(True)
141	self.menu1.FindItemById(self.park_id).Check(False)
142	#create menubar items
143	return [(self.menu1, self.sub_menu)]
144
145	def on_add_sim_page(self, event):
146	"""
147	Create a page to access simultaneous fit option
148	"""
149	if self.sim_page != None:
150	msg= "Simultaneous Fit page already opened"
151	wx.PostEvent(self.parent, StatusEvent(status= msg))
152	return
153
154	self.sim_page= self.fit_panel.add_sim_page()
155
156	def help(self, evt):
157	"""
158	Show a general help dialog.
159	"""
160	from help_panel import HelpWindow
161	frame = HelpWindow(None, -1, 'HelpWindow')
162	frame.Show(True)
163
164	def get_context_menu(self, plotpanel=None):
165	"""
166	Get the context menu items available for P(r).them allow fitting option
167	for Data2D and Data1D only.
168
169	:param graph: the Graph object to which we attach the context menu
170
171	:return: a list of menu items with call-back function
172
173	:note: if Data1D was generated from Theory1D
174	the fitting option is not allowed
175
176	"""
177	graph = plotpanel.graph
178	fit_option = "Select data for fitting"
179	fit_hint = "Dialog with fitting parameters "
180
181	if graph.selected_plottable not in plotpanel.plots:
182	return []
183	item = plotpanel.plots[graph.selected_plottable]
184	if item.__class__.__name__ is "Data2D":
185	if hasattr(item,"is_data"):
186	if item.is_data:
187	return [[fit_option, fit_hint, self._onSelect]]
188	else:
189	return []
190	return [[fit_option, fit_hint, self._onSelect]]
191	else:
192
193	# if is_data is true , this in an actual data loaded
194	#else it is a data created from a theory model
195	if hasattr(item,"is_data"):
196	if item.is_data:
197	return [[fit_option, fit_hint,
198	self._onSelect]]
199	else:
200	return []
201	return []
202
203
204	def get_panels(self, parent):
205	"""
206	Create and return a list of panel objects
207	"""
208	self.parent = parent
209	#self.parent.Bind(EVT_FITSTATE_UPDATE, self.on_set_state_helper)
210	# Creation of the fit panel
211	self.fit_panel = FitPanel(parent=self.parent, manager=self)
212	self.on_add_new_page(event=None)
213	#Set the manager for the main panel
214	self.fit_panel.set_manager(self)
215	# List of windows used for the perspective
216	self.perspective = []
217	self.perspective.append(self.fit_panel.window_name)
218
219	#index number to create random model name
220	self.index_model = 0
221	self.index_theory= 0
222	self.parent.Bind(EVT_SLICER_PANEL, self._on_slicer_event)
223
224	self.parent.Bind(EVT_REMOVE_DATA, self._closed_fitpage)
225	self.parent.Bind(EVT_SLICER_PARS_UPDATE, self._onEVT_SLICER_PANEL)
226	self.parent._mgr.Bind(wx.aui.EVT_AUI_PANE_CLOSE,self._onclearslicer)
227	#Create reader when fitting panel are created
228	self.state_reader = Reader(self.set_state)
229	#append that reader to list of available reader
230	loader = Loader()
231	loader.associate_file_reader(".fitv", self.state_reader)
232	loader.associate_file_reader(".svs", self.state_reader)
233	from sans.perspectives.calculator.sld_panel import SldPanel
234	#Send the fitting panel to guiframe
235	self.mypanels.append(self.fit_panel)
236	self.mypanels.append(SldPanel(parent=self.parent, base=self.parent))
237	return self.mypanels
238
239	def clear_panel(self):
240	"""
241	"""
242	self.fit_panel.clear_panel()
243
244	def set_default_perspective(self):
245	"""
246	Call back method that True to notify the parent that the current plug-in
247	can be set as default perspective.
248	when returning False, the plug-in is not candidate for an automatic
249	default perspective setting
250	"""
251	return True
252
253	def delete_data(self, data):
254	"""
255	delete the given data from panel
256	"""
257	self.fit_panel.delete_data(data)
258
259	def set_data(self, data_list=None):
260	"""
261	receive a list of data to fit
262	"""
263	if data_list is None:
264	data_list = []
265	selected_data_list = []
266	if len(data_list) > MAX_NBR_DATA :
267	from fitting_widgets import DataDialog
268	dlg = DataDialog(data_list=data_list, nb_data=MAX_NBR_DATA)
269	if dlg.ShowModal() == wx.ID_OK:
270	selected_data_list = dlg.get_data()
271	else:
272	selected_data_list = data_list
273	try:
274	for data in selected_data_list:
275	self.add_fit_page(data=data)
276	wx.PostEvent(self.parent, NewPlotEvent(plot=data,
277	title=str(data.title)))
278
279	except:
280	raise
281	#msg = "Fitting Set_data: " + str(sys.exc_value)
282	#wx.PostEvent(self.parent, StatusEvent(status=msg, info="error"))
283
284	def set_top_panel(self):
285	"""
286	Close default (welcome) panel
287	"""
288	if 'default' in self.parent.panels:
289	self.parent.on_close_welcome_panel()
290
291
292	def set_theory(self, theory_list=None):
293	"""
294	"""
295	#set the model state for a given theory_state:
296	for item in theory_list:
297	try:
298	_, theory_state = item
299	self.fit_panel.set_model_state(theory_state)
300	except:
301	msg = "Fitting: cannot deal with the theory received"
302	logging.error("set_theory " + msg + "\n" + str(sys.exc_value))
303	wx.PostEvent(self.parent, StatusEvent(status=msg, info="error"))
304
305	def set_state(self, state=None, datainfo=None, format=None):
306	"""
307	Call-back method for the fit page state reader.
308	This method is called when a .fitv/.svs file is loaded.
309
310	: param state: PageState object
311	: param datainfo: data
312	"""
313	#state = self.state_reader.get_state()
314	if state != None:
315	state = state.clone()
316	# store fitting state in temp_state
317	self.temp_state.append(state)
318	else:
319	self.temp_state = []
320	# index to start with for a new set_state
321	self.state_index = 0
322	# state file format
323	self.sfile_ext = format
324
325	self.on_set_state_helper(event=None)
326
327	def on_set_state_helper(self,event=None):
328	"""
329	Set_state_helper. This actually sets state after plotting data from state file.
330
331	: event: FitStateUpdateEvent called by dataloader.plot_data from guiframe
332	"""
333	if len(self.temp_state) == 0:
334	if self.state_index==0 and len(self.mypanels) <= 0 and self.sfile_ext =='.svs':
335	self.fit_panel.add_default_pages()
336	self.temp_state = []
337	self.state_index = 0
338	return
339
340	try:
341	# Load fitting state
342	state = self.temp_state[self.state_index]
343	#panel state should have model selection to set_state
344	if state.formfactorcombobox != None:
345	#set state
346	data = self.parent.create_gui_data(state.data)
347	data.group_id = state.data.group_id
348	self.parent.add_data(data_list={data.id:data})
349	wx.PostEvent(self.parent, NewPlotEvent(plot=data,
350	title=data.title))
351	#need to be fix later make sure we are sendind guiframe.data
352	#to panel
353	state.data = data
354	page = self.fit_panel.set_state(state)
355	else:
356	#just set data because set_state won't work
357	data = self.parent.create_gui_data(state.data)
358	data.group_id = state.data.group_id
359	self.parent.add_data(data_list={data.id:data})
360	wx.PostEvent(self.parent, NewPlotEvent(plot=data,
361	title=data.title))
362	page = self.add_fit_page(data)
363	caption = page.window_name
364	self.store_data(page=page.id, data=data, caption=caption)
365	self.mypanels.append(page)
366
367	# get ready for the next set_state
368	self.state_index += 1
369
370	#reset state variables to default when all set_state is finished.
371	if len(self.temp_state) == self.state_index:
372
373	self.temp_state = []
374	#self.state_index = 0
375	# Make sure the user sees the fitting panel after loading
376	#self.parent.set_perspective(self.perspective)
377	self.on_perspective(event=None)
378	except:
379	self.state_index==0
380	self.temp_state = []
381	raise
382
383	def save_fit_state(self, filepath, fitstate):
384	"""
385	save fit page state into file
386	"""
387	self.state_reader.write(filename=filepath, fitstate=fitstate)
388
389	def set_fit_range(self, uid, qmin, qmax):
390	"""
391	Set the fitting range of a given page
392	"""
393	self.page_finder[uid].set_range(qmin=qmin, qmax=qmax)
394
395	def schedule_for_fit(self,value=0, uid=None,fitproblem =None):
396	"""
397	Set the fit problem field to 0 or 1 to schedule that problem to fit.
398	Schedule the specified fitproblem or get the fit problem related to
399	the current page and set value.
400
401	:param value: integer 0 or 1
402	:param fitproblem: fitproblem to schedule or not to fit
403
404	"""
405	if fitproblem !=None:
406	fitproblem.schedule_tofit(value)
407	else:
408	self.page_finder[uid].schedule_tofit(value)
409
410	def get_page_finder(self):
411	"""
412	return self.page_finder used also by simfitpage.py
413	"""
414	return self.page_finder
415
416	def set_page_finder(self,modelname,names,values):
417	"""
418	Used by simfitpage.py to reset a parameter given the string constrainst.
419
420	:param modelname: the name ot the model for with the parameter has to reset
421	:param value: can be a string in this case.
422	:param names: the paramter name
423
424	:note: expecting park used for fit.
425
426	"""
427	sim_page_id = self.sim_page.uid
428	for uid, value in self.page_finder.iteritems():
429	if uid != sim_page_id:
430	list = value.get_model()
431	model = list[0]
432	if model.name == modelname:
433	value.set_model_param(names, values)
434	break
435
436	def split_string(self,item):
437	"""
438	receive a word containing dot and split it. used to split parameterset
439	name into model name and parameter name example: ::
440
441	paramaterset (item) = M1.A
442	Will return model_name = M1 , parameter name = A
443
444	"""
445	if string.find(item,".")!=-1:
446	param_names= re.split("\.",item)
447	model_name=param_names[0]
448	##Assume max len is 3; eg., M0.radius.width
449	if len(param_names) == 3:
450	param_name=param_names[1]+"."+param_names[2]
451	else:
452	param_name=param_names[1]
453	return model_name,param_name
454
455	def set_ftol(self, ftol=None):
456	"""
457	Set ftol: Relative error desired in the sum of chi squares.
458	"""
459	# check if it is flaot
460	try:
461	f_tol = float(ftol)
462	except:
463	# default
464	f_tol = 1.49012e-08
465
466	self.ftol = f_tol
467
468	def stop_fit(self, uid):
469	"""
470	Stop the fit engine
471	"""
472	if uid in self.fit_thread_list.keys():
473	calc_fit = self.fit_thread_list[uid]
474	if calc_fit is not None and calc_fit.isrunning():
475	calc_fit.stop()
476	msg = "Fit stop!"
477	wx.PostEvent(self.parent, StatusEvent(status=msg, type="stop"))
478	#set the fit button label of page when fit stop is trigger from
479	#simultaneous fit pane
480	if self.sim_page is not None and uid == self.sim_page.uid:
481	for uid, value in self.page_finder.iteritems():
482	if value.get_scheduled() == 1:
483	if uid in self.fit_panel.opened_pages.keys():
484	panel = self.fit_panel.opened_pages[uid]
485	panel. _on_fit_complete()
486
487	def set_smearer(self, uid, smearer, qmin=None, qmax=None, draw=True,
488	enable2D=False):
489	"""
490	Get a smear object and store it to a fit problem
491
492	:param smearer: smear object to allow smearing data
493
494	"""
495	if uid not in self.page_finder.keys():
496	msg = "Cannot find ID: %s in page_finder" % str(uid)
497	raise ValueError, msg
498	self.page_finder[uid].set_smearer(smearer)
499	self.page_finder[uid].set_enable2D(enable2D)
500	if draw:
501	## draw model 1D with smeared data
502	data = self.page_finder[uid].get_fit_data()
503	model = self.page_finder[uid].get_model()
504	if model is None:
505	return
506	enable1D = True
507	enable2D = self.page_finder[uid].get_enable2D()
508	if enable2D:
509	enable1D = False
510
511	## if user has already selected a model to plot
512	## redraw the model with data smeared
513	smear = self.page_finder[uid].get_smearer()
514	self.draw_model(model=model, data=data, page_id=uid, smearer=smear,
515	enable1D=enable1D, enable2D=enable2D,
516	qmin=qmin, qmax=qmax)
517
518	def draw_model(self, model, page_id, data=None, smearer=None,
519	enable1D=True, enable2D=False,
520	state=None,
521	toggle_mode_on=False,
522	qmin=DEFAULT_QMIN, qmax=DEFAULT_QMAX,
523	qstep=DEFAULT_NPTS,
524	update_chisqr=True):
525	"""
526	Draw model.
527
528	:param model: the model to draw
529	:param name: the name of the model to draw
530	:param data: the data on which the model is based to be drawn
531	:param description: model's description
532	:param enable1D: if true enable drawing model 1D
533	:param enable2D: if true enable drawing model 2D
534	:param qmin: Range's minimum value to draw model
535	:param qmax: Range's maximum value to draw model
536	:param qstep: number of step to divide the x and y-axis
537	:param update_chisqr: update chisqr [bool]
538
539	"""
540	if data.__class__.__name__ == "Data1D" or not enable2D:
541	## draw model 1D with no loaded data
542	self._draw_model1D(model=model,
543	data=data,
544	page_id=page_id,
545	enable1D=enable1D,
546	smearer=smearer,
547	qmin=qmin,
548	qmax=qmax,
549	toggle_mode_on=toggle_mode_on,
550	state=state,
551	qstep=qstep,
552	update_chisqr=update_chisqr)
553	else:
554	## draw model 2D with no initial data
555	self._draw_model2D(model=model,
556	page_id=page_id,
557	data=data,
558	enable2D=enable2D,
559	smearer=smearer,
560	qmin=qmin,
561	qmax=qmax,
562	state=state,
563	toggle_mode_on=toggle_mode_on,
564	qstep=qstep,
565	update_chisqr=update_chisqr)
566
567	def onFit(self):
568	"""
569	perform fit
570	"""
571	## count the number of fitproblem schedule to fit
572	fitproblem_count = 0
573	for value in self.page_finder.values():
574	if value.get_scheduled() == 1:
575	fitproblem_count += 1
576
577	## if simultaneous fit change automatically the engine to park
578	if fitproblem_count > 1:
579	self._on_change_engine(engine='park')
580
581	self.fitproblem_count = fitproblem_count
582
583	from sans.fit.Fitting import Fit
584	fitter = Fit(self._fit_engine)
585
586	if self._fit_engine == "park":
587	engineType = "Simultaneous Fit"
588	else:
589	engineType = "Single Fit"
590
591	fproblemId = 0
592	self.current_pg = None
593	list_page_id = []
594	for page_id, value in self.page_finder.iteritems():
595	try:
596	if value.get_scheduled() == 1:
597	#Get list of parameters name to fit
598	pars = []
599	templist = []
600
601	page = self.fit_panel.get_page_by_id(page_id)
602	templist = page.get_param_list()
603	# missing fit parameters
604	#if not templist:
605	# return
606	# have the list
607	for element in templist:
608	name = str(element[1])
609	pars.append(name)
610	#Set Engine (model , data) related to the page on
611	self._fit_helper(value=value, pars=pars,
612	fitter=fitter,
613	fitproblem_id=fproblemId,
614	title=engineType)
615	list_page_id.append(page_id)
616	fproblemId += 1
617	current_page_id = page_id
618	except:
619	#raise
620	msg= "%s error: %s" % (engineType, sys.exc_value)
621	wx.PostEvent(self.parent, StatusEvent(status=msg, info="error",
622	type="stop"))
623	return
624	## If a thread is already started, stop it
625	#if self.calc_fit!= None and self.calc_fit.isrunning():
626	# self.calc_fit.stop()
627	#Handler used for park engine displayed message
628	handler = ConsoleUpdate(parent=self.parent,
629	manager=self,
630	improvement_delta=0.1)
631
632	## perform single fit
633	if fitproblem_count == 1:
634	calc_fit = FitThread(handler = handler,
635	fn=fitter,
636	pars=pars,
637	page_id=list_page_id,
638	completefn=self._single_fit_completed,
639	ftol=self.ftol)
640	else:
641	current_page_id = self.sim_page.uid
642	## Perform more than 1 fit at the time
643	calc_fit = FitThread(handler=handler,
644	fn=fitter,
645	page_id=list_page_id,
646	updatefn=handler.update_fit,
647	completefn=self._simul_fit_completed,
648	ftol=self.ftol)
649	self.fit_thread_list[current_page_id] = calc_fit
650	calc_fit.queue()
651	msg = "Fitting is in progress..."
652	wx.PostEvent( self.parent, StatusEvent(status=msg, type="progress" ))
653
654	self.ready_fit(calc_fit=calc_fit)
655
656
657	def ready_fit(self, calc_fit):
658	"""
659	Ready for another fit
660	"""
661	if self.fitproblem_count != None and self.fitproblem_count > 1:
662	calc_fit.ready(2.5)
663
664	else:
665	time.sleep(0.4)
666
667	def remove_plot(self, uid, theory=False):
668	"""
669	remove model plot when a fit page is closed
670	"""
671	fitproblem = self.page_finder[uid]
672	data = fitproblem.get_fit_data()
673	model = fitproblem.get_model()
674	plot_id = None
675	if model is not None:
676	plot_id = data.id + name
677	if theory:
678	plot_id = data.id
679	group_id = data.group_id
680	wx.PostEvent(self.parent, NewPlotEvent(id=plot_id,
681	group_id=group_id,
682	action='remove'))
683
684	def store_data(self, uid, data=None, caption=None):
685	"""
686	Helper to save page reference into the plug-in
687
688	:param page: page to store
689
690	"""
691	#create a fitproblem storing all link to data,model,page creation
692	if not uid in self.page_finder.keys():
693	self.page_finder[uid] = FitProblem()
694	self.page_finder[uid].set_fit_data(data)
695	self.page_finder[uid].set_fit_tab_caption(caption)
696
697	def on_add_new_page(self, event=None):
698	"""
699	ask fit panel to create a new empty page
700	"""
701	try:
702	page = self.fit_panel.add_empty_page()
703	page_caption = page.window_name
704	# add data associated to the page created
705	if page != None:
706	self.store_data(uid=page.uid, caption=page_caption,
707	data=page.get_data())
708	wx.PostEvent(self.parent, StatusEvent(status="Page Created",
709	info="info"))
710	else:
711	msg = "Page was already Created"
712	wx.PostEvent(self.parent, StatusEvent(status=msg,
713	info="warning"))
714	self.set_top_panel()
715	except:
716	raise
717	#msg = "Creating Fit page: %s"%sys.exc_value
718	#wx.PostEvent(self.parent, StatusEvent(status=msg, info="error"))
719
720
721	def add_fit_page(self, data):
722	"""
723	given a data, ask to the fitting panel to create a new fitting page,
724	get this page and store it into the page_finder of this plug-in
725	"""
726	page = self.fit_panel.set_data(data)
727	page_caption = page.window_name
728	#append Data1D to the panel containing its theory
729	#if theory already plotted
730	if page.uid in self.page_finder:
731	theory_data = self.page_finder[page.uid].get_theory_data()
732	if issubclass(data.__class__, Data2D):
733	data.group_id = wx.NewId()
734	if theory_data is not None:
735	group_id = str(page.uid) + " Model1D"
736	wx.PostEvent(self.parent,
737	NewPlotEvent(group_id=group_id,
738	action="delete"))
739	self.parent.update_data(prev_data=theory_data, new_data=data)
740	else:
741	if theory_data is not None:
742	group_id = str(page.uid) + " Model2D"
743	data.group_id = theory_data.group_id
744	wx.PostEvent(self.parent,
745	NewPlotEvent(group_id=group_id,
746	action="delete"))
747	self.parent.update_data(prev_data=theory_data, new_data=data)
748
749	self.store_data(uid=page.uid, data=data, caption=page.window_name)
750	if self.sim_page is not None:
751	self.sim_page.draw_page()
752	return page
753
754	def _onEVT_SLICER_PANEL(self, event):
755	"""
756	receive and event telling to update a panel with a name starting with
757	event.panel_name. this method update slicer panel for a given interactor.
758
759	:param event: contains type of slicer , paramaters for updating the panel
760	and panel_name to find the slicer 's panel concerned.
761	"""
762	for item in self.parent.panels:
763	if self.parent.panels[item].window_caption.startswith(event.panel_name):
764	self.parent.panels[item].set_slicer(event.type, event.params)
765
766	self.parent._mgr.Update()
767
768	def _closed_fitpage(self, event):
769	"""
770	request fitpanel to close a given page when its unique data is removed
771	from the plot. close fitpage only when the a loaded data is removed
772	"""
773	if event is None or event.data is None:
774	return
775	if hasattr(event.data,"is_data"):
776	if not event.data.is_data or \
777	event.data.__class__.__name__ == "Data1D":
778	self.fit_panel.close_page_with_data(event.data)
779
780	def _add_page_onmenu(self, name, fitproblem=None):
781	"""
782	Add name of a closed page of fitpanel in a menu
783	"""
784	list = self.menu1.GetMenuItems()
785	for item in list:
786	if name == item.GetItemLabel():
787	self.closed_page_dict[name][1] = fitproblem
788
789	if not name in self.closed_page_dict.keys():
790	# Post paramters
791	event_id = wx.NewId()
792	self.menu1.Append(event_id, name, "Show %s fit panel" % name)
793	self.closed_page_dict[name]= [event_id, fitproblem]
794	wx.EVT_MENU(self.parent, event_id, self._open_closed_page)
795
796	def _open_closed_page(self, event):
797	"""
798	reopen a closed page
799	"""
800	for name, value in self.closed_page_dict.iteritems():
801	if event.GetId() in value:
802	uid,fitproblem = value
803	if name !="Model":
804	data= fitproblem.get_fit_data()
805	page = self.fit_panel.add_fit_page(data=data, reset=True)
806	if fitproblem != None:
807	self.page_finder[uid] = fitproblem
808	if self.sim_page != None:
809	self.sim_page.draw_page()
810
811	else:
812	model = fitproblem
813	self.fit_panel.add_model_page(model=model, topmenu=True,
814	reset= True)
815	break
816
817	def _reset_schedule_problem(self, value=0):
818	"""
819	unschedule or schedule all fitproblem to be fit
820	"""
821	for page_id in self.page_finder.keys():
822	self.page_finder[page_id].schedule_tofit(value)
823
824	def _fit_helper(self, pars, value, fitproblem_id,fitter, title="Single Fit " ):
825	"""
826	helper for fitting
827	"""
828	metadata = value.get_fit_data()
829	model = value.get_model()
830	smearer = value.get_smearer()
831	qmin, qmax = value.get_range()
832	self.fit_id = fitproblem_id
833	#Create list of parameters for fitting used
834	templist = []
835
836	try:
837	#Extra list of parameters and their constraints
838	listOfConstraint = []
839
840	param = value.get_model_param()
841	if len(param) > 0:
842	for item in param:
843	## check if constraint
844	if item[0] != None and item[1] != None:
845	listOfConstraint.append((item[0],item[1]))
846
847	#Do the single fit
848	fitter.set_model(model, self.fit_id,
849	pars, constraints=listOfConstraint)
850
851	fitter.set_data(data=metadata, id=self.fit_id,
852	smearer=smearer, qmin=qmin, qmax=qmax)
853
854	fitter.select_problem_for_fit(id=self.fit_id,
855	value=value.get_scheduled())
856	value.clear_model_param()
857	except:
858	raise
859	#msg = title + " error: %s" % sys.exc_value
860	#wx.PostEvent(self.parent, StatusEvent(status=msg, type="stop"))
861
862	def _onSelect(self,event):
863	"""
864	when Select data to fit a new page is created .Its reference is
865	added to self.page_finder
866	"""
867	self.panel = event.GetEventObject()
868	Plugin.on_perspective(self, event=event)
869	for plottable in self.panel.graph.plottables:
870	if plottable.__class__.__name__ in ["Data1D", "Theory1D"]:
871	if plottable.name == self.panel.graph.selected_plottable:
872	data = plottable
873	self.add_fit_page(data=data)
874	return
875	else:
876	data = plottable
877	self.add_fit_page(data=data)
878	self.set_top_panel()
879
880	def update_fit(self, result=None, msg=""):
881	"""
882	"""
883	print "update_fit result", result
884
885	def _single_fit_completed(self, result, pars, page_id, elapsed=None):
886	"""
887	Display fit result on one page of the notebook.
888
889	:param result: result of fit
890	:param pars: list of names of parameters fitted
891	:param current_pg: the page where information will be displayed
892	:param qmin: the minimum value of x to replot the model
893	:param qmax: the maximum value of x to replot model
894
895	"""
896	try:
897	if result == None:
898	msg= "Single Fitting did not converge!!!"
899	wx.PostEvent(self.parent,
900	StatusEvent(status=msg,
901	info="warning",
902	type="stop"))
903	return
904	if not numpy.isfinite(result.fitness) or \
905	numpy.any(result.pvec == None) or \
906	not numpy.all(numpy.isfinite(result.pvec)):
907	msg = "Single Fitting did not converge!!!"
908	wx.PostEvent(self.parent,
909	StatusEvent(status=msg,
910	info="warning",
911	type="stop"))
912	return
913	for uid in page_id:
914	value = self.page_finder[uid]
915	model = value.get_model()
916	page_id = uid
917
918	param_name = []
919	for name in pars:
920	param_name.append(name)
921
922	cpage = self.fit_panel.get_page_by_id(uid)
923	cpage.onsetValues(result.fitness,
924	param_name, result.pvec,result.stderr)
925	cpage._on_fit_complete()
926
927	except ValueError:
928	msg = "Single Fitting did not converge!!!"
929	wx.PostEvent(self.parent, StatusEvent(status=msg, info="error",
930	type="stop"))
931	return
932	except:
933	raise
934	#msg = "Single Fit completed but Following"
935	#msg += " error occurred:%s" % sys.exc_value
936	#wx.PostEvent(self.parent, StatusEvent(status=msg, info="error",
937	# type="stop"))
938	return
939
940	def _simul_fit_completed(self, result, page_id,pars=None, elapsed=None):
941	"""
942	Parameter estimation completed,
943	display the results to the user
944
945	:param alpha: estimated best alpha
946	:param elapsed: computation time
947
948	"""
949	if page_id is None:
950	page_id = []
951	## fit more than 1 model at the same time
952	try:
953	msg = ""
954	if result == None:
955	msg= "Complex Fitting did not converge!!!"
956	wx.PostEvent(self.parent, StatusEvent(status=msg,
957	type="stop"))
958	return
959	if not numpy.isfinite(result.fitness) or \
960	numpy.any(result.pvec == None) or not \
961	numpy.all(numpy.isfinite(result.pvec)):
962	msg= "Simultaneous Fitting did not converge!!!"
963	wx.PostEvent(self.parent, StatusEvent(status=msg,type="stop"))
964	return
965
966	for uid in page_id:
967	value = self.page_finder[uid]
968	model = value.get_model()
969	data = value.get_fit_data()
970	small_param_name = []
971	small_out = []
972	small_cov = []
973	#Separate result in to data corresponding to each page
974	for p in result.parameters:
975	model_name, param_name = self.split_string(p.name)
976	if model.name == model_name:
977	p_name= model.name+"."+param_name
978	if p.name == p_name:
979	if p.value != None and numpy.isfinite(p.value):
980	small_out.append(p.value)
981	small_param_name.append(param_name)
982	small_cov.append(p.stderr)
983	# Display result on each page
984	cpage = self.fit_panel.get_page_by_id(uid)
985	cpage.onsetValues(result.fitness,
986	small_param_name,
987	small_out,small_cov)
988	cpage._on_fit_complete()
989
990	except Exception:
991	msg = "Complex Fitting did not converge!!!"
992	wx.PostEvent(self.parent, StatusEvent(status=msg, info="error",
993	type="stop"))
994	return
995
996	except:
997	msg = "Simultaneous Fit completed"
998	msg += " but Following error occurred:%s" % sys.exc_value
999	wx.PostEvent(self.parent, StatusEvent(status=msg, type="stop"))
1000
1001	def _on_show_panel(self, event):
1002	"""
1003	"""
1004	pass
1005
1006	def _onset_engine_park(self,event):
1007	"""
1008	set engine to park
1009	"""
1010	self._on_change_engine('park')
1011
1012	def _onset_engine_scipy(self,event):
1013	"""
1014	set engine to scipy
1015	"""
1016	self._on_change_engine('scipy')
1017
1018	def _on_slicer_event(self, event):
1019	"""
1020	Receive a panel as event and send it to guiframe
1021
1022	:param event: event containing a panel
1023
1024	"""
1025	if event.panel is not None:
1026	new_panel = event.panel
1027	self.slicer_panels.append(event.panel)
1028	# Set group ID if available
1029	event_id = self.parent.popup_panel(new_panel)
1030	#self.menu3.Append(event_id, new_panel.window_caption,
1031	# "Show %s plot panel" % new_panel.window_caption)
1032	# Set id to allow us to reference the panel later
1033
1034	new_panel.uid = event_id
1035	self.mypanels.append(new_panel)
1036
1037	def _onclearslicer(self, event):
1038	"""
1039	Clear the boxslicer when close the panel associate with this slicer
1040	"""
1041	name =event.GetPane().caption
1042
1043	for panel in self.slicer_panels:
1044	if panel.window_caption==name:
1045
1046	for item in self.parent.panels:
1047	if hasattr(self.parent.panels[item],"uid"):
1048	if self.parent.panels[item].uid ==panel.base.uid:
1049	self.parent.panels[item].onClearSlicer(event)
1050	self.parent._mgr.Update()
1051	break
1052	break
1053
1054	def _return_engine_type(self):
1055	"""
1056	return the current type of engine
1057	"""
1058	return self._fit_engine
1059
1060
1061	def _on_change_engine(self, engine='park'):
1062	"""
1063	Allow to select the type of engine to perform fit
1064
1065	:param engine: the key work of the engine
1066
1067	"""
1068	## saving fit engine name
1069	self._fit_engine = engine
1070	## change menu item state
1071	if engine=="park":
1072	self.menu1.FindItemById(self.park_id).Check(True)
1073	self.menu1.FindItemById(self.scipy_id).Check(False)
1074	else:
1075	self.menu1.FindItemById(self.park_id).Check(False)
1076	self.menu1.FindItemById(self.scipy_id).Check(True)
1077	## post a message to status bar
1078	msg = "Engine set to: %s" % self._fit_engine
1079	wx.PostEvent(self.parent,
1080	StatusEvent(status=msg))
1081	## send the current engine type to fitpanel
1082	self.fit_panel._on_engine_change(name=self._fit_engine)
1083
1084	def _on_model_panel(self, evt):
1085	"""
1086	react to model selection on any combo box or model menu.plot the model
1087
1088	:param evt: wx.combobox event
1089
1090	"""
1091	model = evt.model
1092	uid = evt.uid
1093	qmin = evt.qmin
1094	qmax = evt.qmax
1095	smearer = evt.smearer
1096
1097	if model == None:
1098	return
1099
1100	if self.page_finder[uid].get_model() is None:
1101	model.name = "M" + str(self.index_model)
1102	self.index_model += 1
1103	else:
1104	model.name = self.page_finder[uid].get_model().name
1105	# save the name containing the data name with the appropriate model
1106	self.page_finder[uid].set_model(model)
1107	self.page_finder[uid].set_range(qmin=qmin, qmax=qmax)
1108	if self.sim_page is not None:
1109	self.sim_page.draw_page()
1110
1111	def _update1D(self,x, output):
1112	"""
1113	Update the output of plotting model 1D
1114	"""
1115	msg = "Plot updating ... "
1116	wx.PostEvent(self.parent, StatusEvent(status=msg,type="update"))
1117	self.ready_fit()
1118
1119
1120	def _fill_default_model2D(self, theory, page_id, qmax,qstep, qmin=None):
1121	"""
1122	fill Data2D with default value
1123
1124	:param theory: Data2D to fill
1125
1126	"""
1127	from DataLoader.data_info import Detector, Source
1128
1129	detector = Detector()
1130	theory.detector.append(detector)
1131	theory.source= Source()
1132
1133	## Default values
1134	theory.detector[0].distance= 8000 # mm
1135	theory.source.wavelength= 6 # A
1136	theory.detector[0].pixel_size.x= 5 # mm
1137	theory.detector[0].pixel_size.y= 5 # mm
1138
1139	theory.detector[0].beam_center.x= qmax
1140	theory.detector[0].beam_center.y= qmax
1141
1142	## create x_bins and y_bins of the model 2D
1143	pixel_width_x = theory.detector[0].pixel_size.x
1144	pixel_width_y = theory.detector[0].pixel_size.y
1145	center_x = theory.detector[0].beam_center.x/pixel_width_x
1146	center_y = theory.detector[0].beam_center.y/pixel_width_y
1147
1148	# theory default: assume the beam
1149	#center is located at the center of sqr detector
1150	xmax = qmax
1151	xmin = -qmax
1152	ymax = qmax
1153	ymin = -qmax
1154
1155	x= numpy.linspace(start= -1*qmax,
1156	stop=qmax,
1157	num=qstep,
1158	endpoint=True)
1159	y = numpy.linspace(start=-1*qmax,
1160	stop= qmax,
1161	num= qstep,
1162	endpoint=True)
1163
1164	## use data info instead
1165	new_x = numpy.tile(x, (len(y),1))
1166	new_y = numpy.tile(y, (len(x),1))
1167	new_y = new_y.swapaxes(0,1)
1168
1169	# all data reuire now in 1d array
1170	qx_data = new_x.flatten()
1171	qy_data = new_y.flatten()
1172
1173	q_data = numpy.sqrt(qx_dataqx_data+qy_dataqy_data)
1174	# set all True (standing for unmasked) as default
1175	mask = numpy.ones(len(qx_data), dtype = bool)
1176
1177	# calculate the range of qx and qy: this way,
1178	# it is a little more independent
1179	x_size = xmax- xmin
1180	y_size = ymax -ymin
1181
1182	# store x and y bin centers in q space
1183	x_bins = x
1184	y_bins = y
1185	# bin size: x- & y-directions
1186	xstep = x_size/len(x_bins-1)
1187	ystep = y_size/len(y_bins-1)
1188
1189	#theory.data = numpy.zeros(len(mask))
1190	theory.err_data = numpy.ones(len(mask))
1191	theory.qx_data = qx_data
1192	theory.qy_data = qy_data
1193	theory.q_data = q_data
1194	theory.mask = mask
1195	theory.x_bins = x_bins
1196	theory.y_bins = y_bins
1197
1198	# max and min taking account of the bin sizes
1199	theory.xmin = xmin
1200	theory.xmax = xmax
1201	theory.ymin = ymin
1202	theory.ymax = ymax
1203	theory.group_id = str(page_id) + " Model2D"
1204	theory.id = str(page_id) + " Model2D"
1205
1206	def _complete1D(self, x,y, page_id, elapsed,index,model,
1207	toggle_mode_on=False,state=None,
1208	data=None, update_chisqr=True):
1209	"""
1210	Complete plotting 1D data
1211	"""
1212	try:
1213	new_plot = Data1D(x=x, y=y)
1214	new_plot.is_data = False
1215	new_plot.symbol = GUIFRAME_ID.CURVE_SYMBOL_NUM
1216	if data != None:
1217	_xaxis, _xunit = data.get_xaxis()
1218	_yaxis, _yunit = data.get_yaxis()
1219	new_plot.title = data.name
1220	#if the theory is already plotted use the same group id
1221	#to replot
1222	if page_id in self.page_finder:
1223	theory_data = self.page_finder[page_id].get_theory_data()
1224	if theory_data is not None:
1225	data.group_id = theory_data.group_id
1226	#data is plotted before the theory, then take its group_id
1227	#assign to the new theory
1228	new_plot.group_id = data.group_id
1229
1230	else:
1231	_xaxis, _xunit = "\\rm{Q}", 'A^{-1}'
1232	_yaxis, _yunit = "\\rm{Intensity} ", "cm^{-1}"
1233	new_plot.title = "Analytical model 1D "
1234	#find a group id to plot theory without data
1235	new_plot.group_id = str(page_id) + " Model1D"
1236	new_plot.id = str(page_id) + " Model1D"
1237
1238	#find if this theory was already plotted and replace that plot given
1239	#the same id
1240
1241	theory_data = self.page_finder[page_id].get_theory_data()
1242	if theory_data is not None:
1243	new_plot.id = theory_data.id
1244
1245	new_plot.name = model.name + " ["+ str(model.__class__.__name__)+ "]"
1246	new_plot.xaxis(_xaxis, _xunit)
1247	new_plot.yaxis(_yaxis, _yunit)
1248	if toggle_mode_on:
1249	new_plot.id = str(page_id) + " Model"
1250	wx.PostEvent(self.parent,
1251	NewPlotEvent(group_id=str(page_id) + " Model2D",
1252	action="Hide"))
1253
1254	self.page_finder[page_id].set_theory_data(new_plot)
1255	if data is None:
1256	data_id = None
1257	else:
1258	data_id = data.id
1259	self.parent.update_theory(data_id=data_id,
1260	theory=new_plot,
1261	state=state)
1262	current_pg = self.fit_panel.get_page_by_id(page_id)
1263	title = new_plot.title
1264	wx.PostEvent(self.parent, NewPlotEvent(plot=new_plot,
1265	title= str(title)))
1266
1267	self.page_finder[page_id].set_theory_data(new_plot)
1268
1269	if update_chisqr:
1270	wx.PostEvent(current_pg,
1271	Chi2UpdateEvent(output=self._cal_chisqr(data=data,
1272	page_id=page_id,
1273	index=index)))
1274	else:
1275	self._plot_residuals(page_id, data, index)
1276
1277	msg = "Plot 1D complete !"
1278	wx.PostEvent( self.parent, StatusEvent(status=msg, type="stop" ))
1279	#self.current_pg.state.theory_data = deepcopy(self.theory_data)
1280	except:
1281	raise
1282	#msg = " Error occurred when drawing %s Model 1D: " % new_plot.name
1283	#msg += " %s" % sys.exc_value
1284	#wx.PostEvent(self.parent, StatusEvent(status=msg, type="stop"))
1285
1286	def _update2D(self, output,time=None):
1287	"""
1288	Update the output of plotting model
1289	"""
1290	wx.PostEvent(self.parent, StatusEvent(status="Plot \
1291	#updating ... ", type="update"))
1292	self.ready_fit()
1293
1294	def _complete2D(self, image, data, model, page_id, elapsed, index, qmin,
1295	qmax, toggle_mode_on=False,state=None,qstep=DEFAULT_NPTS,
1296	update_chisqr=True):
1297	"""
1298	Complete get the result of modelthread and create model 2D
1299	that can be plot.
1300	"""
1301	err_image = numpy.zeros(numpy.shape(image))
1302
1303	new_plot= Data2D(image=image, err_image=err_image)
1304	new_plot.name = model.name
1305	new_plot.title = "Analytical model 2D "
1306	if data is None:
1307	self._fill_default_model2D(theory=new_plot,
1308	qmax=qmax,
1309	page_id=page_id,
1310	qstep=qstep,
1311	qmin= qmin)
1312
1313	else:
1314	new_plot.id = str(page_id) + " Model2D"
1315	new_plot.group_id = str(page_id) + " Model2D"
1316	new_plot.x_bins = data.x_bins
1317	new_plot.y_bins = data.y_bins
1318	new_plot.detector = data.detector
1319	new_plot.source = data.source
1320	new_plot.is_data = False
1321	new_plot.qx_data = data.qx_data
1322	new_plot.qy_data = data.qy_data
1323	new_plot.q_data = data.q_data
1324	#numpy.zeros(len(data.err_data))#data.err_data
1325	new_plot.err_data = err_image
1326	new_plot.mask = data.mask
1327	## plot boundaries
1328	new_plot.ymin = data.ymin
1329	new_plot.ymax = data.ymax
1330	new_plot.xmin = data.xmin
1331	new_plot.xmax = data.xmax
1332	title = data.title
1333	if len(title) > 1:
1334	new_plot.title = "Model2D for " + data.name
1335	new_plot.is_data = False
1336	new_plot.name = model.name + " ["+ str(model.__class__.__name__)+ "]"
1337
1338	theory_data = deepcopy(new_plot)
1339	theory_data.name = "Unknown"
1340	if toggle_mode_on:
1341	new_plot.id = str(page_id) + " Model"
1342	wx.PostEvent(self.parent,
1343	NewPlotEvent(group_id=str(page_id) + " Model1D",
1344	action="Hide"))
1345
1346	self.page_finder[page_id].set_theory_data(new_plot)
1347	if data is None:
1348	data_id = None
1349	else:
1350	data_id = data.id
1351	self.parent.update_theory(data_id=data_id,
1352	theory=new_plot,
1353	state=state)
1354	current_pg = self.fit_panel.get_page_by_id(page_id)
1355	title = new_plot.title
1356
1357	wx.PostEvent(self.parent, NewPlotEvent(plot=new_plot,
1358	title=title))
1359	self.page_finder[page_id].set_theory_data(new_plot)
1360	# Chisqr in fitpage
1361	if update_chisqr:
1362	wx.PostEvent(current_pg,
1363	Chi2UpdateEvent(output=\
1364	self._cal_chisqr(data=data,
1365	page_id=page_id,
1366	index=index)))
1367	else:
1368	self._plot_residuals(page_id, data, index)
1369	msg = "Plot 2D complete !"
1370	wx.PostEvent(self.parent, StatusEvent(status=msg, type="stop"))
1371
1372	def _draw_model2D(self, model, page_id, data=None, smearer=None,
1373	description=None, enable2D=False,
1374	state=None,
1375	toggle_mode_on=False,
1376	qmin=DEFAULT_QMIN, qmax=DEFAULT_QMAX,
1377	qstep=DEFAULT_NPTS,
1378	update_chisqr=True):
1379	"""
1380	draw model in 2D
1381
1382	:param model: instance of the model to draw
1383	:param description: the description of the model
1384	:param enable2D: when True allows to draw model 2D
1385	:param qmin: the minimum value to draw model 2D
1386	:param qmax: the maximum value to draw model 2D
1387	:param qstep: the number of division of Qx and Qy of the model to draw
1388
1389	"""
1390	x= numpy.linspace(start=-1*qmax,
1391	stop=qmax,
1392	num=qstep,
1393	endpoint=True)
1394	y = numpy.linspace(start= -1*qmax,
1395	stop=qmax,
1396	num=qstep,
1397	endpoint=True)
1398	if model is None:
1399	msg = "Panel with ID: %s does not contained model" % str(page_id)
1400	raise ValueError, msg
1401	## use data info instead
1402	if data is not None:
1403	## check if data2D to plot
1404	if hasattr(data, "x_bins"):
1405	enable2D = True
1406	x = data.x_bins
1407	y = data.y_bins
1408
1409	if not enable2D:
1410	return None, None
1411	try:
1412	from model_thread import Calc2D
1413	## If a thread is already started, stop it
1414	if (self.calc_2D is not None) and self.calc_2D.isrunning():
1415	self.calc_2D.stop()
1416	self.calc_2D = Calc2D(x=x,
1417	y=y,
1418	model=model,
1419	data=data,
1420	page_id=page_id,
1421	smearer=smearer,
1422	qmin=qmin,
1423	qmax=qmax,
1424	qstep=qstep,
1425	toggle_mode_on=toggle_mode_on,
1426	state=state,
1427	completefn=self._complete2D,
1428	#updatefn= self._update2D,
1429	update_chisqr=update_chisqr)
1430
1431	self.calc_2D.queue()
1432
1433	except:
1434	raise
1435	#msg = " Error occurred when drawing %s Model 2D: " % model.name
1436	#msg += " %s" % sys.exc_value
1437	#wx.PostEvent(self.parent, StatusEvent(status=msg))
1438
1439	def _draw_model1D(self, model, page_id, data=None, smearer=None,
1440	qmin=DEFAULT_QMIN, qmax=DEFAULT_QMAX,
1441	state=None,
1442	toggle_mode_on=False,
1443	qstep=DEFAULT_NPTS, update_chisqr=True,
1444	enable1D=True):
1445	"""
1446	Draw model 1D from loaded data1D
1447
1448	:param data: loaded data
1449	:param model: the model to plot
1450
1451	"""
1452	x= numpy.linspace(start=qmin,
1453	stop=qmax,
1454	num=qstep,
1455	endpoint=True
1456	)
1457	if data is not None:
1458	## check for data2D
1459	if hasattr(data,"x_bins"):
1460	return
1461	x = data.x
1462	if qmin == None :
1463	qmin == DEFAULT_QMIN
1464
1465	if qmax == None:
1466	qmax == DEFAULT_QMAX
1467	if not enable1D:
1468	return
1469	try:
1470	from model_thread import Calc1D
1471	## If a thread is already started, stop it
1472	if (self.calc_1D is not None) and self.calc_1D.isrunning():
1473	self.calc_1D.stop()
1474	self.calc_1D = Calc1D(x=x,
1475	data=data,
1476	model=model,
1477	page_id=page_id,
1478	qmin=qmin,
1479	qmax=qmax,
1480	smearer=smearer,
1481	state=state,
1482	toggle_mode_on=toggle_mode_on,
1483	completefn=self._complete1D,
1484	#updatefn = self._update1D,
1485	update_chisqr=update_chisqr)
1486
1487	self.calc_1D.queue()
1488
1489	except:
1490	msg = " Error occurred when drawing %s Model 1D: " % model.name
1491	msg += " %s" % sys.exc_value
1492	wx.PostEvent(self.parent, StatusEvent(status=msg))
1493
1494	def _cal_chisqr(self, page_id, data=None, index=None):
1495	"""
1496	Get handy Chisqr using the output from draw1D and 2D,
1497	instead of calling expansive CalcChisqr in guithread
1498	"""
1499	# default chisqr
1500	chisqr = None
1501
1502	# return None if data == None
1503	if data == None: return chisqr
1504
1505	# Get data: data I, theory I, and data dI in order
1506	if data.__class__.__name__ == "Data2D":
1507	if index == None:
1508	index = numpy.ones(len(data.data),ntype=bool)
1509	# get rid of zero error points
1510	index = index & (data.err_data != 0 )
1511	index = index & (numpy.isfinite(data.data))
1512	fn = data.data[index]
1513	theory_data = self.page_finder[page_id].get_theory_data()
1514	gn = theory_data.data[index]
1515	en = data.err_data[index]
1516	else:
1517	# 1 d theory from model_thread is only in the range of index
1518	if index == None:
1519	index = numpy.ones(len(data.y), ntype=bool)
1520	if data.dy == None or data.dy == []:
1521	dy = numpy.ones(len(data.y))
1522	else:
1523	## Set consitently w/AbstractFitengine:
1524	# But this should be corrected later.
1525	dy = deepcopy(data.dy)
1526	dy[dy==0] = 1
1527	fn = data.y[index]
1528	theory_data = self.page_finder[page_id].get_theory_data()
1529	gn = theory_data.y
1530	en = dy[index]
1531
1532	# residual
1533	res = (fn - gn) / en
1534	residuals = res[numpy.isfinite(res)]
1535	# get chisqr only w/finite
1536	chisqr = numpy.average(residuals * residuals)
1537
1538	self._plot_residuals(page_id, data, index)
1539	return chisqr
1540
1541
1542
1543	def _plot_residuals(self, page_id, data=None, index=None):
1544	"""
1545	Plot the residuals
1546
1547	:param data: data
1548	:param index: index array (bool)
1549	: Note: this is different from the residuals in cal_chisqr()
1550	"""
1551	if data == None:
1552	return
1553
1554	# Get data: data I, theory I, and data dI in order
1555	if data.__class__.__name__ == "Data2D":
1556	# build residuals
1557	#print data
1558	residuals = Data2D()
1559	#residuals.copy_from_datainfo(data)
1560	# Not for trunk the line below, instead use the line above
1561	data.clone_without_data(len(data.data), residuals)
1562	residuals.data = None
1563	fn = data.data#[index]
1564	theory_data = self.page_finder[page_id].get_theory_data()
1565	gn = theory_data.data#[index]
1566	en = data.err_data#[index]
1567	residuals.data = (fn - gn) / en
1568	residuals.qx_data = data.qx_data#[index]
1569	residuals.qy_data = data.qy_data #[index]
1570	residuals.q_data = data.q_data#[index]
1571	residuals.err_data = numpy.ones(len(residuals.data))#[index]
1572	residuals.xmin = min(residuals.qx_data)
1573	residuals.xmax = max(residuals.qx_data)
1574	residuals.ymin = min(residuals.qy_data)
1575	residuals.ymax = max(residuals.qy_data)
1576	residuals.q_data = data.q_data#[index]
1577	residuals.mask = data.mask
1578	residuals.scale = 'linear'
1579	#print "print data",residuals
1580	# check the lengths
1581	if len(residuals.data) != len(residuals.q_data):
1582	return
1583
1584	else:
1585	# 1 d theory from model_thread is only in the range of index
1586	if data.dy == None or data.dy == []:
1587	dy = numpy.ones(len(data.y))
1588	else:
1589	## Set consitently w/AbstractFitengine:
1590	## But this should be corrected later.
1591	dy = deepcopy(data.dy)
1592	dy[dy==0] = 1
1593	fn = data.y[index]
1594	theory_data = self.page_finder[page_id].get_theory_data()
1595	gn = theory_data.y
1596	en = dy[index]
1597	# build residuals
1598	residuals = Data1D()
1599	residuals.y = (fn - gn) / en
1600	residuals.x = data.x[index]
1601	residuals.dy = numpy.ones(len(residuals.y))
1602	residuals.dx = None
1603	residuals.dxl = None
1604	residuals.dxw = None
1605	residuals.ytransform = 'y'
1606	# For latter scale changes
1607	residuals.xaxis('\\rm{Q} ', 'A^{-1}')
1608	residuals.yaxis('\\rm{Residuals} ', 'normalized')
1609
1610	new_plot = residuals
1611	if data.id == None:
1612	data.id = data.name
1613	name = data.id
1614	new_plot.name = "Residuals for " + str(data.name)
1615	## allow to highlight data when plotted
1616	new_plot.interactive = True
1617	## when 2 data have the same id override the 1 st plotted
1618	new_plot.id = new_plot.name#name + " residuals"
1619	##group_id specify on which panel to plot this data
1620	new_plot.group_id = new_plot.id
1621	#new_plot.is_data = True
1622	##post data to plot
1623	title = new_plot.name
1624
1625	# plot data
1626	wx.PostEvent(self.parent, NewPlotEvent(plot=new_plot, title=title))
1627
1628	#def profile(fn, args, *kw):
1629	# import cProfile, pstats, os
1630	# global call_result
1631	# def call():
1632	# global call_result
1633	# call_result = fn(args, *kw)
1634	# cProfile.runctx('call()', dict(call=call), {}, 'profile.out')
1635	# stats = pstats.Stats('profile.out')
1636	# #stats.sort_stats('time')
1637	# stats.sort_stats('calls')
1638	# stats.print_stats()
1639	# os.unlink('profile.out')
1640	# return call_result
1641	if __name__ == "__main__":
1642	i = Plugin()
1643
1644
1645
1646

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SasView

source: sasview/sansview/perspectives/fitting/fitting.py @ 5e8e615

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