fitting.py @ e5a1c31

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 e5a1c31 was e5a1c31, checked in by Jae Cho <jhjcho@…>, 13 years ago
removed print statements
Property mode set to `100644`
File size: 65.0 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_SLICER_PARS_UPDATE
33	from sans.guiframe.gui_style import GUIFRAME_ID
34	from sans.guiframe.plugin_base import PluginBase
35
36	from .console import ConsoleUpdate
37	from .fitproblem import FitProblem
38	from .fitpanel import FitPanel
39	from .fit_thread import FitThread
40	from .pagestate import Reader
41	from .fitpage import Chi2UpdateEvent
42
43	DEFAULT_BEAM = 0.005
44	DEFAULT_QMIN = 0.001
45	DEFAULT_QMAX = 0.13
46	DEFAULT_NPTS = 50
47	MAX_NBR_DATA = 4
48
49
50	(PageInfoEvent, EVT_PAGE_INFO) = wx.lib.newevent.NewEvent()
51
52
53
54	class Plugin(PluginBase):
55	"""
56	Fitting plugin is used to perform fit
57	"""
58	def __init__(self, standalone=False):
59	PluginBase.__init__(self, name="Fitting", standalone=standalone)
60
61	#list of panel to send to guiframe
62	self.mypanels = []
63	# reference to the current running thread
64	self.calc_2D = None
65	self.calc_1D = None
66	self.fit_thread_list = {}
67	self.residuals = None
68	self.fit_panel = None
69	# Start with a good default
70	self.elapsed = 0.022
71	# the type of optimizer selected, park or scipy
72	self.fitter = None
73	self.fit_panel = None
74	#let fit ready
75	self.fitproblem_count = None
76	#Flag to let the plug-in know that it is running stand alone
77	self.standalone = True
78	## dictionary of page closed and id
79	self.closed_page_dict = {}
80	## Fit engine
81	self._fit_engine = 'scipy'
82	## Relative error desired in the sum of squares (float); scipy only
83	self.ftol=1.49012e-08
84	#List of selected data
85	self.selected_data_list = []
86	## list of slicer panel created to display slicer parameters and results
87	self.slicer_panels = []
88	# model 2D view
89	self.model2D_id = None
90	#keep reference of the simultaneous fit page
91	self.sim_page = None
92	self.index_model = 0
93	#Create a reader for fit page's state
94	self.state_reader = None
95	self._extensions = '.fitv'
96	self.scipy_id = wx.NewId()
97	self.park_id = wx.NewId()
98
99	self.temp_state = []
100	self.state_index = 0
101	self.sfile_ext = None
102	# take care of saving data, model and page associated with each other
103	self.page_finder = {}
104	# Log startup
105	logging.info("Fitting plug-in started")
106
107	def populate_menu(self, owner):
108	"""
109	Create a menu for the Fitting plug-in
110
111	:param id: id to create a menu
112	:param owner: owner of menu
113
114	:return: list of information to populate the main menu
115
116	"""
117	#Menu for fitting
118	self.menu1 = wx.Menu()
119	id1 = wx.NewId()
120	simul_help = "Add new fit panel"
121	self.menu1.Append(id1, '&New Fit Page',simul_help)
122	wx.EVT_MENU(owner, id1, self.on_add_new_page)
123	self.menu1.AppendSeparator()
124	id1 = wx.NewId()
125	simul_help = "Simultaneous Fit"
126	self.menu1.Append(id1, '&Simultaneous Fit',simul_help)
127	wx.EVT_MENU(owner, id1, self.on_add_sim_page)
128	self.menu1.AppendSeparator()
129	#Set park engine
130
131	scipy_help= "Scipy Engine: Perform Simple fit. More in Help window...."
132	self.menu1.AppendCheckItem(self.scipy_id, "Simple FitEngine [LeastSq]",scipy_help)
133	wx.EVT_MENU(owner, self.scipy_id, self._onset_engine_scipy)
134
135	park_help = "Park Engine: Perform Complex fit. More in Help window...."
136	self.menu1.AppendCheckItem(self.park_id, "Complex FitEngine [ParkMC]",park_help)
137	wx.EVT_MENU(owner, self.park_id, self._onset_engine_park)
138
139	self.menu1.FindItemById(self.scipy_id).Check(True)
140	self.menu1.FindItemById(self.park_id).Check(False)
141	#create menubar items
142	return [(self.menu1, self.sub_menu)]
143
144	def on_add_sim_page(self, event):
145	"""
146	Create a page to access simultaneous fit option
147	"""
148	if self.sim_page != None:
149	msg= "Simultaneous Fit page already opened"
150	wx.PostEvent(self.parent, StatusEvent(status= msg))
151	return
152
153	self.sim_page= self.fit_panel.add_sim_page()
154
155	def help(self, evt):
156	"""
157	Show a general help dialog.
158	"""
159	from help_panel import HelpWindow
160	frame = HelpWindow(None, -1, 'HelpWindow')
161	frame.Show(True)
162
163	def get_context_menu(self, plotpanel=None):
164	"""
165	Get the context menu items available for P(r).them allow fitting option
166	for Data2D and Data1D only.
167
168	:param graph: the Graph object to which we attach the context menu
169
170	:return: a list of menu items with call-back function
171
172	:note: if Data1D was generated from Theory1D
173	the fitting option is not allowed
174
175	"""
176	graph = plotpanel.graph
177	fit_option = "Select data for fitting"
178	fit_hint = "Dialog with fitting parameters "
179
180	if graph.selected_plottable not in plotpanel.plots:
181	return []
182	item = plotpanel.plots[graph.selected_plottable]
183	if item.__class__.__name__ is "Data2D":
184	if hasattr(item,"is_data"):
185	if item.is_data:
186	return [[fit_option, fit_hint, self._onSelect]]
187	else:
188	return []
189	return [[fit_option, fit_hint, self._onSelect]]
190	else:
191
192	# if is_data is true , this in an actual data loaded
193	#else it is a data created from a theory model
194	if hasattr(item,"is_data"):
195	if item.is_data:
196	return [[fit_option, fit_hint,
197	self._onSelect]]
198	else:
199	return []
200	return []
201
202
203	def get_panels(self, parent):
204	"""
205	Create and return a list of panel objects
206	"""
207	self.parent = parent
208	#self.parent.Bind(EVT_FITSTATE_UPDATE, self.on_set_state_helper)
209	# Creation of the fit panel
210	self.fit_panel = FitPanel(parent=self.parent, manager=self)
211	self.on_add_new_page(event=None)
212	#Set the manager for the main panel
213	self.fit_panel.set_manager(self)
214	# List of windows used for the perspective
215	self.perspective = []
216	self.perspective.append(self.fit_panel.window_name)
217
218	#index number to create random model name
219	self.index_model = 0
220	self.index_theory= 0
221	self.parent.Bind(EVT_SLICER_PANEL, self._on_slicer_event)
222	self.parent.Bind(EVT_SLICER_PARS_UPDATE, self._onEVT_SLICER_PANEL)
223	self.parent._mgr.Bind(wx.aui.EVT_AUI_PANE_CLOSE,self._onclearslicer)
224	#Create reader when fitting panel are created
225	self.state_reader = Reader(self.set_state)
226	#append that reader to list of available reader
227	loader = Loader()
228	loader.associate_file_reader(".fitv", self.state_reader)
229	#loader.associate_file_reader(".svs", self.state_reader)
230	#from sans.perspectives.calculator.sld_panel import SldPanel
231	#Send the fitting panel to guiframe
232	self.mypanels.append(self.fit_panel)
233	#self.mypanels.append(SldPanel(parent=self.parent, base=self.parent))
234	return self.mypanels
235
236	def clear_panel(self):
237	"""
238	"""
239	self.fit_panel.clear_panel()
240
241	def set_default_perspective(self):
242	"""
243	Call back method that True to notify the parent that the current plug-in
244	can be set as default perspective.
245	when returning False, the plug-in is not candidate for an automatic
246	default perspective setting
247	"""
248	return True
249
250	def delete_data(self, data):
251	"""
252	delete the given data from panel
253	"""
254	self.fit_panel.delete_data(data)
255
256	def set_data(self, data_list=None):
257	"""
258	receive a list of data to fit
259	"""
260	if data_list is None:
261	data_list = []
262	selected_data_list = []
263	if len(data_list) > MAX_NBR_DATA :
264	from fitting_widgets import DataDialog
265	dlg = DataDialog(data_list=data_list, nb_data=MAX_NBR_DATA)
266	if dlg.ShowModal() == wx.ID_OK:
267	selected_data_list = dlg.get_data()
268	dlg.Destroy()
269
270	else:
271	selected_data_list = data_list
272	try:
273	for data in selected_data_list:
274	page = self.add_fit_page(data=data)
275	wx.PostEvent(self.parent, NewPlotEvent(plot=data,
276	title=str(data.title)))
277	except:
278	msg = "Fitting Set_data: " + str(sys.exc_value)
279	wx.PostEvent(self.parent, StatusEvent(status=msg, info="error"))
280
281	def set_top_panel(self):
282	"""
283	Close default (welcome) panel
284	"""
285	if 'default' in self.parent.panels:
286	self.parent.on_close_welcome_panel()
287
288
289	def set_theory(self, theory_list=None):
290	"""
291	"""
292	#set the model state for a given theory_state:
293	for item in theory_list:
294	try:
295	_, theory_state = item
296	self.fit_panel.set_model_state(theory_state)
297	except:
298	msg = "Fitting: cannot deal with the theory received"
299	logging.error("set_theory " + msg + "\n" + str(sys.exc_value))
300	wx.PostEvent(self.parent, StatusEvent(status=msg, info="error"))
301
302	def set_state(self, state=None, datainfo=None, format=None):
303	"""
304	Call-back method for the fit page state reader.
305	This method is called when a .fitv/.svs file is loaded.
306
307	: param state: PageState object
308	: param datainfo: data
309	"""
310	#state = self.state_reader.get_state()
311	if state != None:
312	state = state.clone()
313	# store fitting state in temp_state
314	self.temp_state.append(state)
315	else:
316	self.temp_state = []
317	# index to start with for a new set_state
318	self.state_index = 0
319	# state file format
320	self.sfile_ext = format
321
322	self.on_set_state_helper(event=None)
323
324	def on_set_state_helper(self,event=None):
325	"""
326	Set_state_helper. This actually sets state after plotting data from state file.
327
328	: event: FitStateUpdateEvent called by dataloader.plot_data from guiframe
329	"""
330	if len(self.temp_state) == 0:
331	if self.state_index==0 and len(self.mypanels) <= 0 and self.sfile_ext =='.svs':
332	self.fit_panel.add_default_pages()
333	self.temp_state = []
334	self.state_index = 0
335	return
336
337	try:
338	# Load fitting state
339	state = self.temp_state[self.state_index]
340	#panel state should have model selection to set_state
341	if state.formfactorcombobox != None:
342	#set state
343	data = self.parent.create_gui_data(state.data)
344	data.group_id = state.data.group_id
345	self.parent.add_data(data_list={data.id:data})
346	wx.PostEvent(self.parent, NewPlotEvent(plot=data,
347	title=data.title))
348	#need to be fix later make sure we are sendind guiframe.data
349	#to panel
350	state.data = data
351	page = self.fit_panel.set_state(state)
352	else:
353	#just set data because set_state won't work
354	data = self.parent.create_gui_data(state.data)
355	data.group_id = state.data.group_id
356	self.parent.add_data(data_list={data.id:data})
357	wx.PostEvent(self.parent, NewPlotEvent(plot=data,
358	title=data.title))
359	page = self.add_fit_page(data)
360	caption = page.window_name
361	self.store_data(page=page.uid, data=data, caption=caption)
362	self.mypanels.append(page)
363
364	# get ready for the next set_state
365	self.state_index += 1
366
367	#reset state variables to default when all set_state is finished.
368	if len(self.temp_state) == self.state_index:
369
370	self.temp_state = []
371	#self.state_index = 0
372	# Make sure the user sees the fitting panel after loading
373	#self.parent.set_perspective(self.perspective)
374	self.on_perspective(event=None)
375	except:
376	self.state_index==0
377	self.temp_state = []
378	raise
379
380	def save_fit_state(self, filepath, fitstate):
381	"""
382	save fit page state into file
383	"""
384	self.state_reader.write(filename=filepath, fitstate=fitstate)
385
386	def set_fit_range(self, uid, qmin, qmax):
387	"""
388	Set the fitting range of a given page
389	"""
390	self.page_finder[uid].set_range(qmin=qmin, qmax=qmax)
391
392	def schedule_for_fit(self,value=0, uid=None,fitproblem =None):
393	"""
394	Set the fit problem field to 0 or 1 to schedule that problem to fit.
395	Schedule the specified fitproblem or get the fit problem related to
396	the current page and set value.
397
398	:param value: integer 0 or 1
399	:param fitproblem: fitproblem to schedule or not to fit
400
401	"""
402	if fitproblem !=None:
403	fitproblem.schedule_tofit(value)
404	else:
405	self.page_finder[uid].schedule_tofit(value)
406
407	def get_page_finder(self):
408	"""
409	return self.page_finder used also by simfitpage.py
410	"""
411	return self.page_finder
412
413	def set_page_finder(self,modelname,names,values):
414	"""
415	Used by simfitpage.py to reset a parameter given the string constrainst.
416
417	:param modelname: the name ot the model for with the parameter has to reset
418	:param value: can be a string in this case.
419	:param names: the paramter name
420
421	:note: expecting park used for fit.
422
423	"""
424	sim_page_id = self.sim_page.uid
425	for uid, value in self.page_finder.iteritems():
426	if uid != sim_page_id:
427	list = value.get_model()
428	model = list[0]
429	if model.name == modelname:
430	value.set_model_param(names, values)
431	break
432
433	def split_string(self,item):
434	"""
435	receive a word containing dot and split it. used to split parameterset
436	name into model name and parameter name example: ::
437
438	paramaterset (item) = M1.A
439	Will return model_name = M1 , parameter name = A
440
441	"""
442	if string.find(item,".")!=-1:
443	param_names= re.split("\.",item)
444	model_name=param_names[0]
445	##Assume max len is 3; eg., M0.radius.width
446	if len(param_names) == 3:
447	param_name=param_names[1]+"."+param_names[2]
448	else:
449	param_name=param_names[1]
450	return model_name,param_name
451
452	def set_ftol(self, ftol=None):
453	"""
454	Set ftol: Relative error desired in the sum of chi squares.
455	"""
456	# check if it is flaot
457	try:
458	f_tol = float(ftol)
459	except:
460	# default
461	f_tol = 1.49012e-08
462
463	self.ftol = f_tol
464
465	def stop_fit(self, uid):
466	"""
467	Stop the fit engine
468	"""
469	if uid in self.fit_thread_list.keys():
470	calc_fit = self.fit_thread_list[uid]
471	if calc_fit is not None and calc_fit.isrunning():
472	calc_fit.stop()
473	msg = "Fit stop!"
474	wx.PostEvent(self.parent, StatusEvent(status=msg, type="stop"))
475	#set the fit button label of page when fit stop is trigger from
476	#simultaneous fit pane
477	if self.sim_page is not None and uid == self.sim_page.uid:
478	for uid, value in self.page_finder.iteritems():
479	if value.get_scheduled() == 1:
480	if uid in self.fit_panel.opened_pages.keys():
481	panel = self.fit_panel.opened_pages[uid]
482	panel. _on_fit_complete()
483
484	def set_smearer(self, uid, smearer, qmin=None, qmax=None, draw=True,
485	enable2D=False):
486	"""
487	Get a smear object and store it to a fit problem
488
489	:param smearer: smear object to allow smearing data
490
491	"""
492	if uid not in self.page_finder.keys():
493	msg = "Cannot find ID: %s in page_finder" % str(uid)
494	raise ValueError, msg
495	self.page_finder[uid].set_smearer(smearer)
496	self.page_finder[uid].set_enable2D(enable2D)
497	if draw:
498	## draw model 1D with smeared data
499	data = self.page_finder[uid].get_fit_data()
500	model = self.page_finder[uid].get_model()
501	if model is None:
502	return
503	enable1D = True
504	enable2D = self.page_finder[uid].get_enable2D()
505	if enable2D:
506	enable1D = False
507
508	## if user has already selected a model to plot
509	## redraw the model with data smeared
510	smear = self.page_finder[uid].get_smearer()
511	self.draw_model(model=model, data=data, page_id=uid, smearer=smear,
512	enable1D=enable1D, enable2D=enable2D,
513	qmin=qmin, qmax=qmax)
514	time.sleep(0.2)
515
516	def draw_model(self, model, page_id, data=None, smearer=None,
517	enable1D=True, enable2D=False,
518	state=None,
519	toggle_mode_on=False,
520	qmin=DEFAULT_QMIN, qmax=DEFAULT_QMAX,
521	qstep=DEFAULT_NPTS,
522	update_chisqr=True):
523	"""
524	Draw model.
525
526	:param model: the model to draw
527	:param name: the name of the model to draw
528	:param data: the data on which the model is based to be drawn
529	:param description: model's description
530	:param enable1D: if true enable drawing model 1D
531	:param enable2D: if true enable drawing model 2D
532	:param qmin: Range's minimum value to draw model
533	:param qmax: Range's maximum value to draw model
534	:param qstep: number of step to divide the x and y-axis
535	:param update_chisqr: update chisqr [bool]
536
537	"""
538	if data.__class__.__name__ == "Data1D" or not enable2D:
539	## draw model 1D with no loaded data
540	self._draw_model1D(model=model,
541	data=data,
542	page_id=page_id,
543	enable1D=enable1D,
544	smearer=smearer,
545	qmin=qmin,
546	qmax=qmax,
547	toggle_mode_on=toggle_mode_on,
548	state=state,
549	qstep=qstep,
550	update_chisqr=update_chisqr)
551	else:
552	## draw model 2D with no initial data
553	self._draw_model2D(model=model,
554	page_id=page_id,
555	data=data,
556	enable2D=enable2D,
557	smearer=smearer,
558	qmin=qmin,
559	qmax=qmax,
560	state=state,
561	toggle_mode_on=toggle_mode_on,
562	qstep=qstep,
563	update_chisqr=update_chisqr)
564
565	def onFit(self):
566	"""
567	perform fit
568	"""
569	## count the number of fitproblem schedule to fit
570	fitproblem_count = 0
571	for value in self.page_finder.values():
572	if value.get_scheduled() == 1:
573	fitproblem_count += 1
574
575	## if simultaneous fit change automatically the engine to park
576	if fitproblem_count > 1:
577	self._on_change_engine(engine='park')
578
579	self.fitproblem_count = fitproblem_count
580
581	from sans.fit.Fitting import Fit
582	fitter = Fit(self._fit_engine)
583
584	if self._fit_engine == "park":
585	engineType = "Simultaneous Fit"
586	else:
587	engineType = "Single Fit"
588
589	fproblemId = 0
590	self.current_pg = None
591	list_page_id = []
592	for page_id, value in self.page_finder.iteritems():
593	try:
594	if value.get_scheduled() == 1:
595	#Get list of parameters name to fit
596	pars = []
597	templist = []
598
599	page = self.fit_panel.get_page_by_id(page_id)
600	templist = page.get_param_list()
601	# missing fit parameters
602	#if not templist:
603	# return
604	# have the list
605	for element in templist:
606	name = str(element[1])
607	pars.append(name)
608	#Set Engine (model , data) related to the page on
609	self._fit_helper(value=value, pars=pars,
610	fitter=fitter,
611	fitproblem_id=fproblemId,
612	title=engineType)
613	list_page_id.append(page_id)
614	fproblemId += 1
615	current_page_id = page_id
616	except:
617	#raise
618	msg= "%s error: %s" % (engineType, sys.exc_value)
619	wx.PostEvent(self.parent, StatusEvent(status=msg, info="error",
620	type="stop"))
621	return
622	## If a thread is already started, stop it
623	#if self.calc_fit!= None and self.calc_fit.isrunning():
624	# self.calc_fit.stop()
625	msg = "Fitting is in progress..."
626	wx.PostEvent( self.parent, StatusEvent(status=msg, type="progress" ))
627
628	#Handler used for park engine displayed message
629	handler = ConsoleUpdate(parent=self.parent,
630	manager=self,
631	improvement_delta=0.1)
632	time.sleep(0.2)
633	## perform single fit
634	if fitproblem_count == 1:
635	calc_fit = FitThread(handler = handler,
636	fn=fitter,
637	pars=pars,
638	page_id=list_page_id,
639	completefn=self._single_fit_completed,
640	ftol=self.ftol)
641	else:
642	current_page_id = self.sim_page.uid
643	## Perform more than 1 fit at the time
644	calc_fit = FitThread(handler=handler,
645	fn=fitter,
646	page_id=list_page_id,
647	updatefn=handler.update_fit,
648	completefn=self._simul_fit_completed,
649	ftol=self.ftol)
650	self.fit_thread_list[current_page_id] = calc_fit
651	time.sleep(0.3)
652
653	self.ready_fit(calc_fit=calc_fit)
654	calc_fit.queue()
655
656	def ready_fit(self, calc_fit):
657	"""
658	Ready for another fit
659	"""
660	if self.fitproblem_count != None and self.fitproblem_count > 1:
661	calc_fit.ready(2.5)
662
663	else:
664	time.sleep(0.4)
665
666	def remove_plot(self, uid, theory=False):
667	"""
668	remove model plot when a fit page is closed
669	"""
670	fitproblem = self.page_finder[uid]
671	data = fitproblem.get_fit_data()
672	model = fitproblem.get_model()
673	plot_id = None
674	if model is not None:
675	plot_id = data.id + name
676	if theory:
677	plot_id = data.id
678	group_id = data.group_id
679	wx.PostEvent(self.parent, NewPlotEvent(id=plot_id,
680	group_id=group_id,
681	action='remove'))
682
683	def store_data(self, uid, data=None, caption=None):
684	"""
685	Helper to save page reference into the plug-in
686
687	:param page: page to store
688
689	"""
690	#create a fitproblem storing all link to data,model,page creation
691	if not uid in self.page_finder.keys():
692	self.page_finder[uid] = FitProblem()
693	self.page_finder[uid].set_fit_data(data)
694	self.page_finder[uid].set_fit_tab_caption(caption)
695
696	def on_add_new_page(self, event=None):
697	"""
698	ask fit panel to create a new empty page
699	"""
700	try:
701	page = self.fit_panel.add_empty_page()
702	page_caption = page.window_name
703	# add data associated to the page created
704	if page != None:
705	self.store_data(uid=page.uid, caption=page_caption,
706	data=page.get_data())
707	wx.PostEvent(self.parent, StatusEvent(status="Page Created",
708	info="info"))
709	else:
710	msg = "Page was already Created"
711	wx.PostEvent(self.parent, StatusEvent(status=msg,
712	info="warning"))
713	self.set_top_panel()
714	except:
715	raise
716	#msg = "Creating Fit page: %s"%sys.exc_value
717	#wx.PostEvent(self.parent, StatusEvent(status=msg, info="error"))
718
719
720	def add_fit_page(self, data):
721	"""
722	given a data, ask to the fitting panel to create a new fitting page,
723	get this page and store it into the page_finder of this plug-in
724	"""
725	page = self.fit_panel.set_data(data)
726	page_caption = page.window_name
727	#append Data1D to the panel containing its theory
728	#if theory already plotted
729	if page.uid in self.page_finder:
730	theory_data = self.page_finder[page.uid].get_theory_data()
731	if issubclass(data.__class__, Data2D):
732	data.group_id = wx.NewId()
733	if theory_data is not None:
734	group_id = str(page.uid) + " Model1D"
735	wx.PostEvent(self.parent,
736	NewPlotEvent(group_id=group_id,
737	action="delete"))
738	self.parent.update_data(prev_data=theory_data, new_data=data)
739	else:
740	if theory_data is not None:
741	group_id = str(page.uid) + " Model2D"
742	data.group_id = theory_data.group_id
743	wx.PostEvent(self.parent,
744	NewPlotEvent(group_id=group_id,
745	action="delete"))
746	self.parent.update_data(prev_data=theory_data, new_data=data)
747
748	self.store_data(uid=page.uid, data=data, caption=page.window_name)
749	if self.sim_page is not None:
750	self.sim_page.draw_page()
751	return page
752
753	def _onEVT_SLICER_PANEL(self, event):
754	"""
755	receive and event telling to update a panel with a name starting with
756	event.panel_name. this method update slicer panel for a given interactor.
757
758	:param event: contains type of slicer , paramaters for updating the panel
759	and panel_name to find the slicer 's panel concerned.
760	"""
761	for item in self.parent.panels:
762	if self.parent.panels[item].window_caption.startswith(event.panel_name):
763	self.parent.panels[item].set_slicer(event.type, event.params)
764
765	self.parent._mgr.Update()
766
767	def _closed_fitpage(self, event):
768	"""
769	request fitpanel to close a given page when its unique data is removed
770	from the plot. close fitpage only when the a loaded data is removed
771	"""
772	if event is None or event.data is None:
773	return
774	if hasattr(event.data,"is_data"):
775	if not event.data.is_data or \
776	event.data.__class__.__name__ == "Data1D":
777	self.fit_panel.close_page_with_data(event.data)
778
779	def _add_page_onmenu(self, name, fitproblem=None):
780	"""
781	Add name of a closed page of fitpanel in a menu
782	"""
783	list = self.menu1.GetMenuItems()
784	for item in list:
785	if name == item.GetItemLabel():
786	self.closed_page_dict[name][1] = fitproblem
787
788	if not name in self.closed_page_dict.keys():
789	# Post paramters
790	event_id = wx.NewId()
791	self.menu1.Append(event_id, name, "Show %s fit panel" % name)
792	self.closed_page_dict[name]= [event_id, fitproblem]
793	wx.EVT_MENU(self.parent, event_id, self._open_closed_page)
794
795	def _open_closed_page(self, event):
796	"""
797	reopen a closed page
798	"""
799	for name, value in self.closed_page_dict.iteritems():
800	if event.GetId() in value:
801	uid,fitproblem = value
802	if name !="Model":
803	data= fitproblem.get_fit_data()
804	page = self.fit_panel.add_fit_page(data=data, reset=True)
805	if fitproblem != None:
806	self.page_finder[uid] = fitproblem
807	if self.sim_page != None:
808	self.sim_page.draw_page()
809
810	else:
811	model = fitproblem
812	self.fit_panel.add_model_page(model=model, topmenu=True,
813	reset= True)
814	break
815
816	def _reset_schedule_problem(self, value=0):
817	"""
818	unschedule or schedule all fitproblem to be fit
819	"""
820	for page_id in self.page_finder.keys():
821	self.page_finder[page_id].schedule_tofit(value)
822
823	def _fit_helper(self, pars, value, fitproblem_id,fitter, title="Single Fit " ):
824	"""
825	helper for fitting
826	"""
827	metadata = value.get_fit_data()
828	model = value.get_model()
829	smearer = value.get_smearer()
830	qmin, qmax = value.get_range()
831	self.fit_id = fitproblem_id
832	#Create list of parameters for fitting used
833	templist = []
834
835	try:
836	#Extra list of parameters and their constraints
837	listOfConstraint = []
838
839	param = value.get_model_param()
840	if len(param) > 0:
841	for item in param:
842	## check if constraint
843	if item[0] != None and item[1] != None:
844	listOfConstraint.append((item[0],item[1]))
845
846	#Do the single fit
847	fitter.set_model(model, self.fit_id,
848	pars, constraints=listOfConstraint)
849
850	fitter.set_data(data=metadata, id=self.fit_id,
851	smearer=smearer, qmin=qmin, qmax=qmax)
852
853	fitter.select_problem_for_fit(id=self.fit_id,
854	value=value.get_scheduled())
855	value.clear_model_param()
856	except:
857	raise
858	#msg = title + " error: %s" % sys.exc_value
859	#wx.PostEvent(self.parent, StatusEvent(status=msg, type="stop"))
860
861	def _onSelect(self,event):
862	"""
863	when Select data to fit a new page is created .Its reference is
864	added to self.page_finder
865	"""
866	self.panel = event.GetEventObject()
867	Plugin.on_perspective(self, event=event)
868	for plottable in self.panel.graph.plottables:
869	if plottable.__class__.__name__ in ["Data1D", "Theory1D"]:
870	data_id = self.panel.graph.selected_plottable
871	if plottable == self.panel.plots[data_id]:
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	time.sleep(0.2)
897	try:
898	if result == None:
899	self._update_fit_button(page_id)
900	msg= "Single Fitting did not converge!!!"
901	wx.PostEvent(self.parent,
902	StatusEvent(status=msg,
903	info="warning",
904	type="stop"))
905	return
906	if not numpy.isfinite(result.fitness) or \
907	numpy.any(result.pvec == None) or \
908	not numpy.all(numpy.isfinite(result.pvec)):
909	msg = "Single Fitting did not converge!!!"
910	wx.PostEvent(self.parent,
911	StatusEvent(status=msg,
912	info="warning",
913	type="stop"))
914	self._update_fit_button(page_id)
915	return
916	for uid in page_id:
917	value = self.page_finder[uid]
918	model = value.get_model()
919	page_id = uid
920
921	param_name = []
922	for name in pars:
923	param_name.append(name)
924
925	cpage = self.fit_panel.get_page_by_id(uid)
926
927	cpage.onsetValues(result.fitness,
928	param_name, result.pvec,result.stderr)
929	wx.CallAfter(cpage._on_fit_complete)
930	if result.stderr == None:
931	msg = "Fit Abort: "
932	else:
933	msg = "Fitting: "
934	msg += "Completed!!!"
935	wx.PostEvent(self.parent, StatusEvent(status=msg))
936	return
937	except ValueError:
938	self._update_fit_button(page_id)
939	msg = "Single Fitting did not converge!!!"
940	wx.PostEvent(self.parent, StatusEvent(status=msg, info="error",
941	type="stop"))
942	return
943	except:
944	self._update_fit_button(page_id)
945	msg = "Single Fit completed but Following"
946	msg += " error occurred:%s" % sys.exc_value
947	wx.PostEvent(self.parent, StatusEvent(status=msg, info="error",
948	type="stop"))
949	raise
950	return
951
952	def _simul_fit_completed(self, result, page_id,pars=None, elapsed=None):
953	"""
954	Parameter estimation completed,
955	display the results to the user
956
957	:param alpha: estimated best alpha
958	:param elapsed: computation time
959
960	"""
961	if page_id is None:
962	page_id = []
963	## fit more than 1 model at the same time
964	time.sleep(0.2)
965	try:
966	msg = ""
967	if result == None:
968	self._update_fit_button(page_id)
969	msg= "Complex Fitting did not converge!!!"
970	wx.PostEvent(self.parent, StatusEvent(status=msg,
971	type="stop"))
972	return
973	if not numpy.isfinite(result.fitness) or \
974	numpy.any(result.pvec == None) or not \
975	numpy.all(numpy.isfinite(result.pvec)):
976	self._update_fit_button(page_id)
977	msg= "Simultaneous Fitting did not converge!!!"
978	wx.PostEvent(self.parent, StatusEvent(status=msg,type="stop"))
979	return
980
981	for uid in page_id:
982	value = self.page_finder[uid]
983	model = value.get_model()
984	data = value.get_fit_data()
985	small_param_name = []
986	small_out = []
987	small_cov = []
988	#Separate result in to data corresponding to each page
989	for p in result.parameters:
990	model_name, param_name = self.split_string(p.name)
991	if model.name == model_name:
992	p_name= model.name+"."+param_name
993	if p.name == p_name:
994	if p.value != None and numpy.isfinite(p.value):
995	small_out.append(p.value)
996	small_param_name.append(param_name)
997	small_cov.append(p.stderr)
998	# Display result on each page
999	cpage = self.fit_panel.get_page_by_id(uid)
1000	cpage.onsetValues(result.fitness,
1001	small_param_name,
1002	small_out,small_cov)
1003	wx.CallAfter(cpage._on_fit_complete)
1004	msg = "Fit completed!"
1005	wx.PostEvent(self.parent, StatusEvent(status=msg))
1006	except Exception:
1007	self._update_fit_button(page_id)
1008	msg = "Complex Fitting did not converge!!!"
1009	wx.PostEvent(self.parent, StatusEvent(status=msg, info="error",
1010	type="stop"))
1011	return
1012
1013	except:
1014	self._update_fit_button(page_id)
1015	msg = "Simultaneous Fit completed"
1016	msg += " but Following error occurred:%s" % sys.exc_value
1017	wx.PostEvent(self.parent, StatusEvent(status=msg, type="stop"))
1018
1019	def _update_fit_button(self, page_id):
1020	"""
1021	Update Fit button when fit stopped
1022
1023	: parameter page_id: fitpage where the button is
1024	"""
1025	if page_id.__class__.__name__ != 'list':
1026	page_id = [page_id]
1027	for uid in page_id:
1028	page = self.fit_panel.get_page_by_id(uid)
1029	page._on_fit_complete()
1030
1031	def _on_show_panel(self, event):
1032	"""
1033	"""
1034	pass
1035
1036	def _onset_engine_park(self,event):
1037	"""
1038	set engine to park
1039	"""
1040	self._on_change_engine('park')
1041
1042	def _onset_engine_scipy(self,event):
1043	"""
1044	set engine to scipy
1045	"""
1046	self._on_change_engine('scipy')
1047
1048	def _on_slicer_event(self, event):
1049	"""
1050	Receive a panel as event and send it to guiframe
1051
1052	:param event: event containing a panel
1053
1054	"""
1055	if event.panel is not None:
1056	new_panel = event.panel
1057	self.slicer_panels.append(event.panel)
1058	# Set group ID if available
1059	event_id = self.parent.popup_panel(new_panel)
1060	#self.menu3.Append(event_id, new_panel.window_caption,
1061	# "Show %s plot panel" % new_panel.window_caption)
1062	# Set id to allow us to reference the panel later
1063
1064	new_panel.uid = event_id
1065	self.mypanels.append(new_panel)
1066
1067	def _onclearslicer(self, event):
1068	"""
1069	Clear the boxslicer when close the panel associate with this slicer
1070	"""
1071	name =event.GetPane().caption
1072
1073	for panel in self.slicer_panels:
1074	if panel.window_caption==name:
1075
1076	for item in self.parent.panels:
1077	if hasattr(self.parent.panels[item],"uid"):
1078	if self.parent.panels[item].uid ==panel.base.uid:
1079	self.parent.panels[item].onClearSlicer(event)
1080	self.parent._mgr.Update()
1081	break
1082	break
1083
1084	def _return_engine_type(self):
1085	"""
1086	return the current type of engine
1087	"""
1088	return self._fit_engine
1089
1090
1091	def _on_change_engine(self, engine='park'):
1092	"""
1093	Allow to select the type of engine to perform fit
1094
1095	:param engine: the key work of the engine
1096
1097	"""
1098	## saving fit engine name
1099	self._fit_engine = engine
1100	## change menu item state
1101	if engine=="park":
1102	self.menu1.FindItemById(self.park_id).Check(True)
1103	self.menu1.FindItemById(self.scipy_id).Check(False)
1104	else:
1105	self.menu1.FindItemById(self.park_id).Check(False)
1106	self.menu1.FindItemById(self.scipy_id).Check(True)
1107	## post a message to status bar
1108	msg = "Engine set to: %s" % self._fit_engine
1109	wx.PostEvent(self.parent,
1110	StatusEvent(status=msg))
1111	## send the current engine type to fitpanel
1112	self.fit_panel._on_engine_change(name=self._fit_engine)
1113
1114	def _on_model_panel(self, evt):
1115	"""
1116	react to model selection on any combo box or model menu.plot the model
1117
1118	:param evt: wx.combobox event
1119
1120	"""
1121	model = evt.model
1122	uid = evt.uid
1123	qmin = evt.qmin
1124	qmax = evt.qmax
1125	smearer = evt.smearer
1126
1127	if model == None:
1128	return
1129
1130	if self.page_finder[uid].get_model() is None:
1131	model.name = "M" + str(self.index_model)
1132	self.index_model += 1
1133	else:
1134	model.name = self.page_finder[uid].get_model().name
1135	# save the name containing the data name with the appropriate model
1136	self.page_finder[uid].set_model(model)
1137	self.page_finder[uid].set_range(qmin=qmin, qmax=qmax)
1138	if self.sim_page is not None:
1139	self.sim_page.draw_page()
1140
1141	def _update1D(self,x, output):
1142	"""
1143	Update the output of plotting model 1D
1144	"""
1145	msg = "Plot updating ... "
1146	wx.PostEvent(self.parent, StatusEvent(status=msg,type="update"))
1147	#self.ready_fit()
1148
1149
1150	def _fill_default_model2D(self, theory, page_id, qmax,qstep, qmin=None):
1151	"""
1152	fill Data2D with default value
1153
1154	:param theory: Data2D to fill
1155
1156	"""
1157	from DataLoader.data_info import Detector, Source
1158
1159	detector = Detector()
1160	theory.detector.append(detector)
1161	theory.source= Source()
1162
1163	## Default values
1164	theory.detector[0].distance= 8000 # mm
1165	theory.source.wavelength= 6 # A
1166	theory.detector[0].pixel_size.x= 5 # mm
1167	theory.detector[0].pixel_size.y= 5 # mm
1168
1169	theory.detector[0].beam_center.x= qmax
1170	theory.detector[0].beam_center.y= qmax
1171
1172	## create x_bins and y_bins of the model 2D
1173	pixel_width_x = theory.detector[0].pixel_size.x
1174	pixel_width_y = theory.detector[0].pixel_size.y
1175	center_x = theory.detector[0].beam_center.x/pixel_width_x
1176	center_y = theory.detector[0].beam_center.y/pixel_width_y
1177
1178	# theory default: assume the beam
1179	#center is located at the center of sqr detector
1180	xmax = qmax
1181	xmin = -qmax
1182	ymax = qmax
1183	ymin = -qmax
1184
1185	x= numpy.linspace(start= -1*qmax,
1186	stop=qmax,
1187	num=qstep,
1188	endpoint=True)
1189	y = numpy.linspace(start=-1*qmax,
1190	stop= qmax,
1191	num= qstep,
1192	endpoint=True)
1193
1194	## use data info instead
1195	new_x = numpy.tile(x, (len(y),1))
1196	new_y = numpy.tile(y, (len(x),1))
1197	new_y = new_y.swapaxes(0,1)
1198
1199	# all data reuire now in 1d array
1200	qx_data = new_x.flatten()
1201	qy_data = new_y.flatten()
1202
1203	q_data = numpy.sqrt(qx_dataqx_data+qy_dataqy_data)
1204	# set all True (standing for unmasked) as default
1205	mask = numpy.ones(len(qx_data), dtype = bool)
1206
1207	# calculate the range of qx and qy: this way,
1208	# it is a little more independent
1209	x_size = xmax- xmin
1210	y_size = ymax -ymin
1211
1212	# store x and y bin centers in q space
1213	x_bins = x
1214	y_bins = y
1215	# bin size: x- & y-directions
1216	xstep = x_size/len(x_bins-1)
1217	ystep = y_size/len(y_bins-1)
1218
1219	#theory.data = numpy.zeros(len(mask))
1220	theory.err_data = numpy.ones(len(mask))
1221	theory.qx_data = qx_data
1222	theory.qy_data = qy_data
1223	theory.q_data = q_data
1224	theory.mask = mask
1225	theory.x_bins = x_bins
1226	theory.y_bins = y_bins
1227
1228	# max and min taking account of the bin sizes
1229	theory.xmin = xmin
1230	theory.xmax = xmax
1231	theory.ymin = ymin
1232	theory.ymax = ymax
1233	theory.group_id = str(page_id) + " Model2D"
1234	theory.id = str(page_id) + " Model2D"
1235
1236	def _complete1D(self, x,y, page_id, elapsed,index,model,
1237	toggle_mode_on=False,state=None,
1238	data=None, update_chisqr=True):
1239	"""
1240	Complete plotting 1D data
1241	"""
1242	try:
1243	new_plot = Data1D(x=x, y=y)
1244	new_plot.is_data = False
1245	new_plot.symbol = GUIFRAME_ID.CURVE_SYMBOL_NUM
1246	if data != None:
1247	_xaxis, _xunit = data.get_xaxis()
1248	_yaxis, _yunit = data.get_yaxis()
1249	new_plot.title = data.name
1250	#if the theory is already plotted use the same group id
1251	#to replot
1252	if page_id in self.page_finder:
1253	theory_data = self.page_finder[page_id].get_theory_data()
1254	if theory_data is not None:
1255	data.group_id = theory_data.group_id
1256	#data is plotted before the theory, then take its group_id
1257	#assign to the new theory
1258	new_plot.group_id = data.group_id
1259
1260	else:
1261	_xaxis, _xunit = "\\rm{Q}", 'A^{-1}'
1262	_yaxis, _yunit = "\\rm{Intensity} ", "cm^{-1}"
1263	new_plot.title = "Analytical model 1D "
1264	#find a group id to plot theory without data
1265	new_plot.group_id = str(page_id) + " Model1D"
1266	new_plot.id = str(page_id) + " Model1D"
1267
1268	#find if this theory was already plotted and replace that plot given
1269	#the same id
1270
1271	theory_data = self.page_finder[page_id].get_theory_data()
1272	if theory_data is not None:
1273	new_plot.id = theory_data.id
1274
1275	new_plot.name = model.name + " ["+ str(model.__class__.__name__)+ "]"
1276	new_plot.xaxis(_xaxis, _xunit)
1277	new_plot.yaxis(_yaxis, _yunit)
1278	if toggle_mode_on:
1279	new_plot.id = str(page_id) + " Model"
1280	wx.PostEvent(self.parent,
1281	NewPlotEvent(group_id=str(page_id) + " Model2D",
1282	action="Hide"))
1283
1284	self.page_finder[page_id].set_theory_data(new_plot)
1285	if data is None:
1286	data_id = None
1287	else:
1288	data_id = data.id
1289
1290	self.parent.update_theory(data_id=data_id,
1291	theory=new_plot,
1292	state=state)
1293
1294	current_pg = self.fit_panel.get_page_by_id(page_id)
1295	title = new_plot.title
1296
1297	wx.PostEvent(self.parent, NewPlotEvent(plot=new_plot,
1298	title= str(title)))
1299
1300	self.page_finder[page_id].set_theory_data(new_plot)
1301
1302	if update_chisqr:
1303	wx.PostEvent(current_pg,
1304	Chi2UpdateEvent(output=self._cal_chisqr(data=data,
1305	page_id=page_id,
1306	index=index)))
1307	else:
1308	self._plot_residuals(page_id, data, index)
1309
1310	msg = "Computation completed!"
1311	wx.PostEvent( self.parent, StatusEvent(status=msg, type="stop" ))
1312
1313	#self.current_pg.state.theory_data = deepcopy(self.theory_data)
1314	except:
1315	raise
1316	#msg = " Error occurred when drawing %s Model 1D: " % new_plot.name
1317	#msg += " %s" % sys.exc_value
1318	#wx.PostEvent(self.parent, StatusEvent(status=msg, type="stop"))
1319
1320	def _update2D(self, output,time=None):
1321	"""
1322	Update the output of plotting model
1323	"""
1324	wx.PostEvent(self.parent, StatusEvent(status="Plot \
1325	#updating ... ", type="update"))
1326	#self.ready_fit()
1327
1328	def _complete2D(self, image, data, model, page_id, elapsed, index, qmin,
1329	qmax, toggle_mode_on=False,state=None,qstep=DEFAULT_NPTS,
1330	update_chisqr=True):
1331	"""
1332	Complete get the result of modelthread and create model 2D
1333	that can be plot.
1334	"""
1335	err_image = numpy.zeros(numpy.shape(image))
1336
1337	new_plot= Data2D(image=image, err_image=err_image)
1338	new_plot.name = model.name
1339	new_plot.title = "Analytical model 2D "
1340	if data is None:
1341	self._fill_default_model2D(theory=new_plot,
1342	qmax=qmax,
1343	page_id=page_id,
1344	qstep=qstep,
1345	qmin= qmin)
1346
1347	else:
1348	new_plot.id = str(page_id) + " Model2D"
1349	new_plot.group_id = str(page_id) + " Model2D"
1350	new_plot.x_bins = data.x_bins
1351	new_plot.y_bins = data.y_bins
1352	new_plot.detector = data.detector
1353	new_plot.source = data.source
1354	new_plot.is_data = False
1355	new_plot.qx_data = data.qx_data
1356	new_plot.qy_data = data.qy_data
1357	new_plot.q_data = data.q_data
1358	#numpy.zeros(len(data.err_data))#data.err_data
1359	new_plot.err_data = err_image
1360	new_plot.mask = data.mask
1361	## plot boundaries
1362	new_plot.ymin = data.ymin
1363	new_plot.ymax = data.ymax
1364	new_plot.xmin = data.xmin
1365	new_plot.xmax = data.xmax
1366	title = data.title
1367	if len(title) > 1:
1368	new_plot.title = "Model2D for " + data.name
1369	new_plot.is_data = False
1370	new_plot.name = model.name + " ["+ str(model.__class__.__name__)+ "]"
1371
1372	theory_data = deepcopy(new_plot)
1373	theory_data.name = "Unknown"
1374	if toggle_mode_on:
1375	new_plot.id = str(page_id) + " Model"
1376	wx.PostEvent(self.parent,
1377	NewPlotEvent(group_id=str(page_id) + " Model1D",
1378	action="Hide"))
1379
1380	self.page_finder[page_id].set_theory_data(new_plot)
1381	if data is None:
1382	data_id = None
1383	else:
1384	data_id = data.id
1385	self.parent.update_theory(data_id=data_id,
1386	theory=new_plot,
1387	state=state)
1388	current_pg = self.fit_panel.get_page_by_id(page_id)
1389	title = new_plot.title
1390
1391	wx.PostEvent(self.parent, NewPlotEvent(plot=new_plot,
1392	title=title))
1393	self.page_finder[page_id].set_theory_data(new_plot)
1394	# Chisqr in fitpage
1395	if update_chisqr:
1396	wx.PostEvent(current_pg,
1397	Chi2UpdateEvent(output=\
1398	self._cal_chisqr(data=data,
1399	page_id=page_id,
1400	index=index)))
1401	else:
1402	self._plot_residuals(page_id, data, index)
1403	msg = "Computation completed!"
1404	wx.PostEvent(self.parent, StatusEvent(status=msg, type="stop"))
1405
1406	def _draw_model2D(self, model, page_id, data=None, smearer=None,
1407	description=None, enable2D=False,
1408	state=None,
1409	toggle_mode_on=False,
1410	qmin=DEFAULT_QMIN, qmax=DEFAULT_QMAX,
1411	qstep=DEFAULT_NPTS,
1412	update_chisqr=True):
1413	"""
1414	draw model in 2D
1415
1416	:param model: instance of the model to draw
1417	:param description: the description of the model
1418	:param enable2D: when True allows to draw model 2D
1419	:param qmin: the minimum value to draw model 2D
1420	:param qmax: the maximum value to draw model 2D
1421	:param qstep: the number of division of Qx and Qy of the model to draw
1422
1423	"""
1424	x= numpy.linspace(start=-1*qmax,
1425	stop=qmax,
1426	num=qstep,
1427	endpoint=True)
1428	y = numpy.linspace(start= -1*qmax,
1429	stop=qmax,
1430	num=qstep,
1431	endpoint=True)
1432	if model is None:
1433	msg = "Panel with ID: %s does not contained model" % str(page_id)
1434	raise ValueError, msg
1435	## use data info instead
1436	if data is not None:
1437	## check if data2D to plot
1438	if hasattr(data, "x_bins"):
1439	enable2D = True
1440	x = data.x_bins
1441	y = data.y_bins
1442
1443	if not enable2D:
1444	return None, None
1445	try:
1446	from model_thread import Calc2D
1447	## If a thread is already started, stop it
1448	if (self.calc_2D is not None) and self.calc_2D.isrunning():
1449	self.calc_2D.stop()
1450	self.calc_2D = Calc2D(x=x,
1451	y=y,
1452	model=model,
1453	data=data,
1454	page_id=page_id,
1455	smearer=smearer,
1456	qmin=qmin,
1457	qmax=qmax,
1458	qstep=qstep,
1459	toggle_mode_on=toggle_mode_on,
1460	state=state,
1461	completefn=self._complete2D,
1462	#updatefn= self._update2D,
1463	update_chisqr=update_chisqr)
1464
1465	self.calc_2D.queue()
1466
1467	except:
1468	raise
1469	#msg = " Error occurred when drawing %s Model 2D: " % model.name
1470	#msg += " %s" % sys.exc_value
1471	#wx.PostEvent(self.parent, StatusEvent(status=msg))
1472
1473	def _draw_model1D(self, model, page_id, data=None, smearer=None,
1474	qmin=DEFAULT_QMIN, qmax=DEFAULT_QMAX,
1475	state=None,
1476	toggle_mode_on=False,
1477	qstep=DEFAULT_NPTS, update_chisqr=True,
1478	enable1D=True):
1479	"""
1480	Draw model 1D from loaded data1D
1481
1482	:param data: loaded data
1483	:param model: the model to plot
1484
1485	"""
1486	x= numpy.linspace(start=qmin,
1487	stop=qmax,
1488	num=qstep,
1489	endpoint=True
1490	)
1491	if data is not None:
1492	## check for data2D
1493	if hasattr(data,"x_bins"):
1494	return
1495	x = data.x
1496	if qmin == None :
1497	qmin == DEFAULT_QMIN
1498
1499	if qmax == None:
1500	qmax == DEFAULT_QMAX
1501	if not enable1D:
1502	return
1503	try:
1504	from model_thread import Calc1D
1505	## If a thread is already started, stop it
1506	if (self.calc_1D is not None) and self.calc_1D.isrunning():
1507	self.calc_1D.stop()
1508	self.calc_1D = Calc1D(x=x,
1509	data=data,
1510	model=model,
1511	page_id=page_id,
1512	qmin=qmin,
1513	qmax=qmax,
1514	smearer=smearer,
1515	state=state,
1516	toggle_mode_on=toggle_mode_on,
1517	completefn=self._complete1D,
1518	#updatefn = self._update1D,
1519	update_chisqr=update_chisqr)
1520
1521	self.calc_1D.queue()
1522
1523	except:
1524	msg = " Error occurred when drawing %s Model 1D: " % model.name
1525	msg += " %s" % sys.exc_value
1526	wx.PostEvent(self.parent, StatusEvent(status=msg))
1527
1528	def _cal_chisqr(self, page_id, data=None, index=None):
1529	"""
1530	Get handy Chisqr using the output from draw1D and 2D,
1531	instead of calling expansive CalcChisqr in guithread
1532	"""
1533	# default chisqr
1534	chisqr = None
1535
1536	# return None if data == None
1537	if data == None: return chisqr
1538
1539	# Get data: data I, theory I, and data dI in order
1540	if data.__class__.__name__ == "Data2D":
1541	if index == None:
1542	index = numpy.ones(len(data.data),ntype=bool)
1543	# get rid of zero error points
1544	index = index & (data.err_data != 0 )
1545	index = index & (numpy.isfinite(data.data))
1546	fn = data.data[index]
1547	theory_data = self.page_finder[page_id].get_theory_data()
1548	gn = theory_data.data[index]
1549	en = data.err_data[index]
1550	else:
1551	# 1 d theory from model_thread is only in the range of index
1552	if index == None:
1553	index = numpy.ones(len(data.y), ntype=bool)
1554	if data.dy == None or data.dy == []:
1555	dy = numpy.ones(len(data.y))
1556	else:
1557	## Set consitently w/AbstractFitengine:
1558	# But this should be corrected later.
1559	dy = deepcopy(data.dy)
1560	dy[dy==0] = 1
1561	fn = data.y[index]
1562	theory_data = self.page_finder[page_id].get_theory_data()
1563	gn = theory_data.y
1564	en = dy[index]
1565
1566	# residual
1567	res = (fn - gn) / en
1568	residuals = res[numpy.isfinite(res)]
1569	# get chisqr only w/finite
1570	chisqr = numpy.average(residuals * residuals)
1571
1572	self._plot_residuals(page_id, data, index)
1573	return chisqr
1574
1575
1576
1577	def _plot_residuals(self, page_id, data=None, index=None):
1578	"""
1579	Plot the residuals
1580
1581	:param data: data
1582	:param index: index array (bool)
1583	: Note: this is different from the residuals in cal_chisqr()
1584	"""
1585	if data == None:
1586	return
1587
1588	# Get data: data I, theory I, and data dI in order
1589	if data.__class__.__name__ == "Data2D":
1590	# build residuals
1591	#print data
1592	residuals = Data2D()
1593	#residuals.copy_from_datainfo(data)
1594	# Not for trunk the line below, instead use the line above
1595	data.clone_without_data(len(data.data), residuals)
1596	residuals.data = None
1597	fn = data.data#[index]
1598	theory_data = self.page_finder[page_id].get_theory_data()
1599	gn = theory_data.data#[index]
1600	en = data.err_data#[index]
1601	residuals.data = (fn - gn) / en
1602	residuals.qx_data = data.qx_data#[index]
1603	residuals.qy_data = data.qy_data #[index]
1604	residuals.q_data = data.q_data#[index]
1605	residuals.err_data = numpy.ones(len(residuals.data))#[index]
1606	residuals.xmin = min(residuals.qx_data)
1607	residuals.xmax = max(residuals.qx_data)
1608	residuals.ymin = min(residuals.qy_data)
1609	residuals.ymax = max(residuals.qy_data)
1610	residuals.q_data = data.q_data#[index]
1611	residuals.mask = data.mask
1612	residuals.scale = 'linear'
1613	#print "print data",residuals
1614	# check the lengths
1615	if len(residuals.data) != len(residuals.q_data):
1616	return
1617
1618	else:
1619	# 1 d theory from model_thread is only in the range of index
1620	if data.dy == None or data.dy == []:
1621	dy = numpy.ones(len(data.y))
1622	else:
1623	## Set consitently w/AbstractFitengine:
1624	## But this should be corrected later.
1625	dy = deepcopy(data.dy)
1626	dy[dy==0] = 1
1627	fn = data.y[index]
1628	theory_data = self.page_finder[page_id].get_theory_data()
1629	gn = theory_data.y
1630	en = dy[index]
1631	# build residuals
1632	residuals = Data1D()
1633	residuals.y = (fn - gn) / en
1634	residuals.x = data.x[index]
1635	residuals.dy = numpy.ones(len(residuals.y))
1636	residuals.dx = None
1637	residuals.dxl = None
1638	residuals.dxw = None
1639	residuals.ytransform = 'y'
1640	# For latter scale changes
1641	residuals.xaxis('\\rm{Q} ', 'A^{-1}')
1642	residuals.yaxis('\\rm{Residuals} ', 'normalized')
1643
1644	new_plot = residuals
1645	if data.id == None:
1646	data.id = data.name
1647	name = data.id
1648	new_plot.name = "Residuals for " + str(data.name)
1649	## allow to highlight data when plotted
1650	new_plot.interactive = True
1651	## when 2 data have the same id override the 1 st plotted
1652	new_plot.id = new_plot.name#name + " residuals"
1653	##group_id specify on which panel to plot this data
1654	new_plot.group_id = new_plot.id
1655	#new_plot.is_data = True
1656	##post data to plot
1657	title = new_plot.name
1658
1659	# plot data
1660	wx.PostEvent(self.parent, NewPlotEvent(plot=new_plot, title=title))
1661
1662	#def profile(fn, args, *kw):
1663	# import cProfile, pstats, os
1664	# global call_result
1665	# def call():
1666	# global call_result
1667	# call_result = fn(args, *kw)
1668	# cProfile.runctx('call()', dict(call=call), {}, 'profile.out')
1669	# stats = pstats.Stats('profile.out')
1670	# #stats.sort_stats('time')
1671	# stats.sort_stats('calls')
1672	# stats.print_stats()
1673	# os.unlink('profile.out')
1674	# return call_result
1675	if __name__ == "__main__":
1676	i = Plugin()
1677
1678
1679
1680

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SasView

source: sasview/sansview/perspectives/fitting/fitting.py @ e5a1c31

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