fitting.py @ b46912b

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 b46912b was 64bc8e3, checked in by Jae Cho <jhjcho@…>, 13 years ago
sleep after set_smearer
Property mode set to `100644`
File size: 64.9 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	cpage.onsetValues(result.fitness,
927	param_name, result.pvec,result.stderr)
928	cpage._on_fit_complete()
929	if result.stderr == None:
930	msg = "Fit Abort: "
931	else:
932	msg = "Fitting: "
933	msg += "Completed!!!"
934	wx.PostEvent(self.parent, StatusEvent(status=msg))
935	except ValueError:
936	self._update_fit_button(page_id)
937	msg = "Single Fitting did not converge!!!"
938	wx.PostEvent(self.parent, StatusEvent(status=msg, info="error",
939	type="stop"))
940	return
941	except:
942	self._update_fit_button(page_id)
943	msg = "Single Fit completed but Following"
944	msg += " error occurred:%s" % sys.exc_value
945	wx.PostEvent(self.parent, StatusEvent(status=msg, info="error",
946	type="stop"))
947	raise
948	return
949
950	def _simul_fit_completed(self, result, page_id,pars=None, elapsed=None):
951	"""
952	Parameter estimation completed,
953	display the results to the user
954
955	:param alpha: estimated best alpha
956	:param elapsed: computation time
957
958	"""
959	if page_id is None:
960	page_id = []
961	## fit more than 1 model at the same time
962	time.sleep(0.2)
963	try:
964	msg = ""
965	if result == None:
966	self._update_fit_button(page_id)
967	msg= "Complex Fitting did not converge!!!"
968	wx.PostEvent(self.parent, StatusEvent(status=msg,
969	type="stop"))
970	return
971	if not numpy.isfinite(result.fitness) or \
972	numpy.any(result.pvec == None) or not \
973	numpy.all(numpy.isfinite(result.pvec)):
974	self._update_fit_button(page_id)
975	msg= "Simultaneous Fitting did not converge!!!"
976	wx.PostEvent(self.parent, StatusEvent(status=msg,type="stop"))
977	return
978
979	for uid in page_id:
980	value = self.page_finder[uid]
981	model = value.get_model()
982	data = value.get_fit_data()
983	small_param_name = []
984	small_out = []
985	small_cov = []
986	#Separate result in to data corresponding to each page
987	for p in result.parameters:
988	model_name, param_name = self.split_string(p.name)
989	if model.name == model_name:
990	p_name= model.name+"."+param_name
991	if p.name == p_name:
992	if p.value != None and numpy.isfinite(p.value):
993	small_out.append(p.value)
994	small_param_name.append(param_name)
995	small_cov.append(p.stderr)
996	# Display result on each page
997	cpage = self.fit_panel.get_page_by_id(uid)
998	cpage.onsetValues(result.fitness,
999	small_param_name,
1000	small_out,small_cov)
1001	cpage._on_fit_complete()
1002	msg = "Fit completed!"
1003	wx.PostEvent(self.parent, StatusEvent(status=msg))
1004	except Exception:
1005	self._update_fit_button(page_id)
1006	msg = "Complex Fitting did not converge!!!"
1007	wx.PostEvent(self.parent, StatusEvent(status=msg, info="error",
1008	type="stop"))
1009	return
1010
1011	except:
1012	self._update_fit_button(page_id)
1013	msg = "Simultaneous Fit completed"
1014	msg += " but Following error occurred:%s" % sys.exc_value
1015	wx.PostEvent(self.parent, StatusEvent(status=msg, type="stop"))
1016
1017	def _update_fit_button(self, page_id):
1018	"""
1019	Update Fit button when fit stopped
1020
1021	: parameter page_id: fitpage where the button is
1022	"""
1023	for uid in page_id:
1024	page = self.fit_panel.get_page_by_id(uid)
1025	page._on_fit_complete()
1026
1027	def _on_show_panel(self, event):
1028	"""
1029	"""
1030	pass
1031
1032	def _onset_engine_park(self,event):
1033	"""
1034	set engine to park
1035	"""
1036	self._on_change_engine('park')
1037
1038	def _onset_engine_scipy(self,event):
1039	"""
1040	set engine to scipy
1041	"""
1042	self._on_change_engine('scipy')
1043
1044	def _on_slicer_event(self, event):
1045	"""
1046	Receive a panel as event and send it to guiframe
1047
1048	:param event: event containing a panel
1049
1050	"""
1051	if event.panel is not None:
1052	new_panel = event.panel
1053	self.slicer_panels.append(event.panel)
1054	# Set group ID if available
1055	event_id = self.parent.popup_panel(new_panel)
1056	#self.menu3.Append(event_id, new_panel.window_caption,
1057	# "Show %s plot panel" % new_panel.window_caption)
1058	# Set id to allow us to reference the panel later
1059
1060	new_panel.uid = event_id
1061	self.mypanels.append(new_panel)
1062
1063	def _onclearslicer(self, event):
1064	"""
1065	Clear the boxslicer when close the panel associate with this slicer
1066	"""
1067	name =event.GetPane().caption
1068
1069	for panel in self.slicer_panels:
1070	if panel.window_caption==name:
1071
1072	for item in self.parent.panels:
1073	if hasattr(self.parent.panels[item],"uid"):
1074	if self.parent.panels[item].uid ==panel.base.uid:
1075	self.parent.panels[item].onClearSlicer(event)
1076	self.parent._mgr.Update()
1077	break
1078	break
1079
1080	def _return_engine_type(self):
1081	"""
1082	return the current type of engine
1083	"""
1084	return self._fit_engine
1085
1086
1087	def _on_change_engine(self, engine='park'):
1088	"""
1089	Allow to select the type of engine to perform fit
1090
1091	:param engine: the key work of the engine
1092
1093	"""
1094	## saving fit engine name
1095	self._fit_engine = engine
1096	## change menu item state
1097	if engine=="park":
1098	self.menu1.FindItemById(self.park_id).Check(True)
1099	self.menu1.FindItemById(self.scipy_id).Check(False)
1100	else:
1101	self.menu1.FindItemById(self.park_id).Check(False)
1102	self.menu1.FindItemById(self.scipy_id).Check(True)
1103	## post a message to status bar
1104	msg = "Engine set to: %s" % self._fit_engine
1105	wx.PostEvent(self.parent,
1106	StatusEvent(status=msg))
1107	## send the current engine type to fitpanel
1108	self.fit_panel._on_engine_change(name=self._fit_engine)
1109
1110	def _on_model_panel(self, evt):
1111	"""
1112	react to model selection on any combo box or model menu.plot the model
1113
1114	:param evt: wx.combobox event
1115
1116	"""
1117	model = evt.model
1118	uid = evt.uid
1119	qmin = evt.qmin
1120	qmax = evt.qmax
1121	smearer = evt.smearer
1122
1123	if model == None:
1124	return
1125
1126	if self.page_finder[uid].get_model() is None:
1127	model.name = "M" + str(self.index_model)
1128	self.index_model += 1
1129	else:
1130	model.name = self.page_finder[uid].get_model().name
1131	# save the name containing the data name with the appropriate model
1132	self.page_finder[uid].set_model(model)
1133	self.page_finder[uid].set_range(qmin=qmin, qmax=qmax)
1134	if self.sim_page is not None:
1135	self.sim_page.draw_page()
1136
1137	def _update1D(self,x, output):
1138	"""
1139	Update the output of plotting model 1D
1140	"""
1141	msg = "Plot updating ... "
1142	wx.PostEvent(self.parent, StatusEvent(status=msg,type="update"))
1143	#self.ready_fit()
1144
1145
1146	def _fill_default_model2D(self, theory, page_id, qmax,qstep, qmin=None):
1147	"""
1148	fill Data2D with default value
1149
1150	:param theory: Data2D to fill
1151
1152	"""
1153	from DataLoader.data_info import Detector, Source
1154
1155	detector = Detector()
1156	theory.detector.append(detector)
1157	theory.source= Source()
1158
1159	## Default values
1160	theory.detector[0].distance= 8000 # mm
1161	theory.source.wavelength= 6 # A
1162	theory.detector[0].pixel_size.x= 5 # mm
1163	theory.detector[0].pixel_size.y= 5 # mm
1164
1165	theory.detector[0].beam_center.x= qmax
1166	theory.detector[0].beam_center.y= qmax
1167
1168	## create x_bins and y_bins of the model 2D
1169	pixel_width_x = theory.detector[0].pixel_size.x
1170	pixel_width_y = theory.detector[0].pixel_size.y
1171	center_x = theory.detector[0].beam_center.x/pixel_width_x
1172	center_y = theory.detector[0].beam_center.y/pixel_width_y
1173
1174	# theory default: assume the beam
1175	#center is located at the center of sqr detector
1176	xmax = qmax
1177	xmin = -qmax
1178	ymax = qmax
1179	ymin = -qmax
1180
1181	x= numpy.linspace(start= -1*qmax,
1182	stop=qmax,
1183	num=qstep,
1184	endpoint=True)
1185	y = numpy.linspace(start=-1*qmax,
1186	stop= qmax,
1187	num= qstep,
1188	endpoint=True)
1189
1190	## use data info instead
1191	new_x = numpy.tile(x, (len(y),1))
1192	new_y = numpy.tile(y, (len(x),1))
1193	new_y = new_y.swapaxes(0,1)
1194
1195	# all data reuire now in 1d array
1196	qx_data = new_x.flatten()
1197	qy_data = new_y.flatten()
1198
1199	q_data = numpy.sqrt(qx_dataqx_data+qy_dataqy_data)
1200	# set all True (standing for unmasked) as default
1201	mask = numpy.ones(len(qx_data), dtype = bool)
1202
1203	# calculate the range of qx and qy: this way,
1204	# it is a little more independent
1205	x_size = xmax- xmin
1206	y_size = ymax -ymin
1207
1208	# store x and y bin centers in q space
1209	x_bins = x
1210	y_bins = y
1211	# bin size: x- & y-directions
1212	xstep = x_size/len(x_bins-1)
1213	ystep = y_size/len(y_bins-1)
1214
1215	#theory.data = numpy.zeros(len(mask))
1216	theory.err_data = numpy.ones(len(mask))
1217	theory.qx_data = qx_data
1218	theory.qy_data = qy_data
1219	theory.q_data = q_data
1220	theory.mask = mask
1221	theory.x_bins = x_bins
1222	theory.y_bins = y_bins
1223
1224	# max and min taking account of the bin sizes
1225	theory.xmin = xmin
1226	theory.xmax = xmax
1227	theory.ymin = ymin
1228	theory.ymax = ymax
1229	theory.group_id = str(page_id) + " Model2D"
1230	theory.id = str(page_id) + " Model2D"
1231
1232	def _complete1D(self, x,y, page_id, elapsed,index,model,
1233	toggle_mode_on=False,state=None,
1234	data=None, update_chisqr=True):
1235	"""
1236	Complete plotting 1D data
1237	"""
1238	try:
1239	new_plot = Data1D(x=x, y=y)
1240	new_plot.is_data = False
1241	new_plot.symbol = GUIFRAME_ID.CURVE_SYMBOL_NUM
1242	if data != None:
1243	_xaxis, _xunit = data.get_xaxis()
1244	_yaxis, _yunit = data.get_yaxis()
1245	new_plot.title = data.name
1246	#if the theory is already plotted use the same group id
1247	#to replot
1248	if page_id in self.page_finder:
1249	theory_data = self.page_finder[page_id].get_theory_data()
1250	if theory_data is not None:
1251	data.group_id = theory_data.group_id
1252	#data is plotted before the theory, then take its group_id
1253	#assign to the new theory
1254	new_plot.group_id = data.group_id
1255
1256	else:
1257	_xaxis, _xunit = "\\rm{Q}", 'A^{-1}'
1258	_yaxis, _yunit = "\\rm{Intensity} ", "cm^{-1}"
1259	new_plot.title = "Analytical model 1D "
1260	#find a group id to plot theory without data
1261	new_plot.group_id = str(page_id) + " Model1D"
1262	new_plot.id = str(page_id) + " Model1D"
1263
1264	#find if this theory was already plotted and replace that plot given
1265	#the same id
1266
1267	theory_data = self.page_finder[page_id].get_theory_data()
1268	if theory_data is not None:
1269	new_plot.id = theory_data.id
1270
1271	new_plot.name = model.name + " ["+ str(model.__class__.__name__)+ "]"
1272	new_plot.xaxis(_xaxis, _xunit)
1273	new_plot.yaxis(_yaxis, _yunit)
1274	if toggle_mode_on:
1275	new_plot.id = str(page_id) + " Model"
1276	wx.PostEvent(self.parent,
1277	NewPlotEvent(group_id=str(page_id) + " Model2D",
1278	action="Hide"))
1279
1280	self.page_finder[page_id].set_theory_data(new_plot)
1281	if data is None:
1282	data_id = None
1283	else:
1284	data_id = data.id
1285	self.parent.update_theory(data_id=data_id,
1286	theory=new_plot,
1287	state=state)
1288	current_pg = self.fit_panel.get_page_by_id(page_id)
1289	title = new_plot.title
1290	wx.PostEvent(self.parent, NewPlotEvent(plot=new_plot,
1291	title= str(title)))
1292
1293	self.page_finder[page_id].set_theory_data(new_plot)
1294
1295	if update_chisqr:
1296	wx.PostEvent(current_pg,
1297	Chi2UpdateEvent(output=self._cal_chisqr(data=data,
1298	page_id=page_id,
1299	index=index)))
1300	else:
1301	self._plot_residuals(page_id, data, index)
1302
1303	msg = "Computation completed!"
1304	wx.PostEvent( self.parent, StatusEvent(status=msg, type="stop" ))
1305	#self.current_pg.state.theory_data = deepcopy(self.theory_data)
1306	except:
1307	raise
1308	#msg = " Error occurred when drawing %s Model 1D: " % new_plot.name
1309	#msg += " %s" % sys.exc_value
1310	#wx.PostEvent(self.parent, StatusEvent(status=msg, type="stop"))
1311
1312	def _update2D(self, output,time=None):
1313	"""
1314	Update the output of plotting model
1315	"""
1316	wx.PostEvent(self.parent, StatusEvent(status="Plot \
1317	#updating ... ", type="update"))
1318	#self.ready_fit()
1319
1320	def _complete2D(self, image, data, model, page_id, elapsed, index, qmin,
1321	qmax, toggle_mode_on=False,state=None,qstep=DEFAULT_NPTS,
1322	update_chisqr=True):
1323	"""
1324	Complete get the result of modelthread and create model 2D
1325	that can be plot.
1326	"""
1327	err_image = numpy.zeros(numpy.shape(image))
1328
1329	new_plot= Data2D(image=image, err_image=err_image)
1330	new_plot.name = model.name
1331	new_plot.title = "Analytical model 2D "
1332	if data is None:
1333	self._fill_default_model2D(theory=new_plot,
1334	qmax=qmax,
1335	page_id=page_id,
1336	qstep=qstep,
1337	qmin= qmin)
1338
1339	else:
1340	new_plot.id = str(page_id) + " Model2D"
1341	new_plot.group_id = str(page_id) + " Model2D"
1342	new_plot.x_bins = data.x_bins
1343	new_plot.y_bins = data.y_bins
1344	new_plot.detector = data.detector
1345	new_plot.source = data.source
1346	new_plot.is_data = False
1347	new_plot.qx_data = data.qx_data
1348	new_plot.qy_data = data.qy_data
1349	new_plot.q_data = data.q_data
1350	#numpy.zeros(len(data.err_data))#data.err_data
1351	new_plot.err_data = err_image
1352	new_plot.mask = data.mask
1353	## plot boundaries
1354	new_plot.ymin = data.ymin
1355	new_plot.ymax = data.ymax
1356	new_plot.xmin = data.xmin
1357	new_plot.xmax = data.xmax
1358	title = data.title
1359	if len(title) > 1:
1360	new_plot.title = "Model2D for " + data.name
1361	new_plot.is_data = False
1362	new_plot.name = model.name + " ["+ str(model.__class__.__name__)+ "]"
1363
1364	theory_data = deepcopy(new_plot)
1365	theory_data.name = "Unknown"
1366	if toggle_mode_on:
1367	new_plot.id = str(page_id) + " Model"
1368	wx.PostEvent(self.parent,
1369	NewPlotEvent(group_id=str(page_id) + " Model1D",
1370	action="Hide"))
1371
1372	self.page_finder[page_id].set_theory_data(new_plot)
1373	if data is None:
1374	data_id = None
1375	else:
1376	data_id = data.id
1377	self.parent.update_theory(data_id=data_id,
1378	theory=new_plot,
1379	state=state)
1380	current_pg = self.fit_panel.get_page_by_id(page_id)
1381	title = new_plot.title
1382
1383	wx.PostEvent(self.parent, NewPlotEvent(plot=new_plot,
1384	title=title))
1385	self.page_finder[page_id].set_theory_data(new_plot)
1386	# Chisqr in fitpage
1387	if update_chisqr:
1388	wx.PostEvent(current_pg,
1389	Chi2UpdateEvent(output=\
1390	self._cal_chisqr(data=data,
1391	page_id=page_id,
1392	index=index)))
1393	else:
1394	self._plot_residuals(page_id, data, index)
1395	msg = "Computation completed!"
1396	wx.PostEvent(self.parent, StatusEvent(status=msg, type="stop"))
1397
1398	def _draw_model2D(self, model, page_id, data=None, smearer=None,
1399	description=None, enable2D=False,
1400	state=None,
1401	toggle_mode_on=False,
1402	qmin=DEFAULT_QMIN, qmax=DEFAULT_QMAX,
1403	qstep=DEFAULT_NPTS,
1404	update_chisqr=True):
1405	"""
1406	draw model in 2D
1407
1408	:param model: instance of the model to draw
1409	:param description: the description of the model
1410	:param enable2D: when True allows to draw model 2D
1411	:param qmin: the minimum value to draw model 2D
1412	:param qmax: the maximum value to draw model 2D
1413	:param qstep: the number of division of Qx and Qy of the model to draw
1414
1415	"""
1416	x= numpy.linspace(start=-1*qmax,
1417	stop=qmax,
1418	num=qstep,
1419	endpoint=True)
1420	y = numpy.linspace(start= -1*qmax,
1421	stop=qmax,
1422	num=qstep,
1423	endpoint=True)
1424	if model is None:
1425	msg = "Panel with ID: %s does not contained model" % str(page_id)
1426	raise ValueError, msg
1427	## use data info instead
1428	if data is not None:
1429	## check if data2D to plot
1430	if hasattr(data, "x_bins"):
1431	enable2D = True
1432	x = data.x_bins
1433	y = data.y_bins
1434
1435	if not enable2D:
1436	return None, None
1437	try:
1438	from model_thread import Calc2D
1439	## If a thread is already started, stop it
1440	if (self.calc_2D is not None) and self.calc_2D.isrunning():
1441	self.calc_2D.stop()
1442	self.calc_2D = Calc2D(x=x,
1443	y=y,
1444	model=model,
1445	data=data,
1446	page_id=page_id,
1447	smearer=smearer,
1448	qmin=qmin,
1449	qmax=qmax,
1450	qstep=qstep,
1451	toggle_mode_on=toggle_mode_on,
1452	state=state,
1453	completefn=self._complete2D,
1454	#updatefn= self._update2D,
1455	update_chisqr=update_chisqr)
1456
1457	self.calc_2D.queue()
1458
1459	except:
1460	raise
1461	#msg = " Error occurred when drawing %s Model 2D: " % model.name
1462	#msg += " %s" % sys.exc_value
1463	#wx.PostEvent(self.parent, StatusEvent(status=msg))
1464
1465	def _draw_model1D(self, model, page_id, data=None, smearer=None,
1466	qmin=DEFAULT_QMIN, qmax=DEFAULT_QMAX,
1467	state=None,
1468	toggle_mode_on=False,
1469	qstep=DEFAULT_NPTS, update_chisqr=True,
1470	enable1D=True):
1471	"""
1472	Draw model 1D from loaded data1D
1473
1474	:param data: loaded data
1475	:param model: the model to plot
1476
1477	"""
1478	x= numpy.linspace(start=qmin,
1479	stop=qmax,
1480	num=qstep,
1481	endpoint=True
1482	)
1483	if data is not None:
1484	## check for data2D
1485	if hasattr(data,"x_bins"):
1486	return
1487	x = data.x
1488	if qmin == None :
1489	qmin == DEFAULT_QMIN
1490
1491	if qmax == None:
1492	qmax == DEFAULT_QMAX
1493	if not enable1D:
1494	return
1495	try:
1496	from model_thread import Calc1D
1497	## If a thread is already started, stop it
1498	if (self.calc_1D is not None) and self.calc_1D.isrunning():
1499	self.calc_1D.stop()
1500	self.calc_1D = Calc1D(x=x,
1501	data=data,
1502	model=model,
1503	page_id=page_id,
1504	qmin=qmin,
1505	qmax=qmax,
1506	smearer=smearer,
1507	state=state,
1508	toggle_mode_on=toggle_mode_on,
1509	completefn=self._complete1D,
1510	#updatefn = self._update1D,
1511	update_chisqr=update_chisqr)
1512
1513	self.calc_1D.queue()
1514
1515	except:
1516	msg = " Error occurred when drawing %s Model 1D: " % model.name
1517	msg += " %s" % sys.exc_value
1518	wx.PostEvent(self.parent, StatusEvent(status=msg))
1519
1520	def _cal_chisqr(self, page_id, data=None, index=None):
1521	"""
1522	Get handy Chisqr using the output from draw1D and 2D,
1523	instead of calling expansive CalcChisqr in guithread
1524	"""
1525	# default chisqr
1526	chisqr = None
1527
1528	# return None if data == None
1529	if data == None: return chisqr
1530
1531	# Get data: data I, theory I, and data dI in order
1532	if data.__class__.__name__ == "Data2D":
1533	if index == None:
1534	index = numpy.ones(len(data.data),ntype=bool)
1535	# get rid of zero error points
1536	index = index & (data.err_data != 0 )
1537	index = index & (numpy.isfinite(data.data))
1538	fn = data.data[index]
1539	theory_data = self.page_finder[page_id].get_theory_data()
1540	gn = theory_data.data[index]
1541	en = data.err_data[index]
1542	else:
1543	# 1 d theory from model_thread is only in the range of index
1544	if index == None:
1545	index = numpy.ones(len(data.y), ntype=bool)
1546	if data.dy == None or data.dy == []:
1547	dy = numpy.ones(len(data.y))
1548	else:
1549	## Set consitently w/AbstractFitengine:
1550	# But this should be corrected later.
1551	dy = deepcopy(data.dy)
1552	dy[dy==0] = 1
1553	fn = data.y[index]
1554	theory_data = self.page_finder[page_id].get_theory_data()
1555	gn = theory_data.y
1556	en = dy[index]
1557
1558	# residual
1559	res = (fn - gn) / en
1560	residuals = res[numpy.isfinite(res)]
1561	# get chisqr only w/finite
1562	chisqr = numpy.average(residuals * residuals)
1563
1564	self._plot_residuals(page_id, data, index)
1565	return chisqr
1566
1567
1568
1569	def _plot_residuals(self, page_id, data=None, index=None):
1570	"""
1571	Plot the residuals
1572
1573	:param data: data
1574	:param index: index array (bool)
1575	: Note: this is different from the residuals in cal_chisqr()
1576	"""
1577	if data == None:
1578	return
1579
1580	# Get data: data I, theory I, and data dI in order
1581	if data.__class__.__name__ == "Data2D":
1582	# build residuals
1583	#print data
1584	residuals = Data2D()
1585	#residuals.copy_from_datainfo(data)
1586	# Not for trunk the line below, instead use the line above
1587	data.clone_without_data(len(data.data), residuals)
1588	residuals.data = None
1589	fn = data.data#[index]
1590	theory_data = self.page_finder[page_id].get_theory_data()
1591	gn = theory_data.data#[index]
1592	en = data.err_data#[index]
1593	residuals.data = (fn - gn) / en
1594	residuals.qx_data = data.qx_data#[index]
1595	residuals.qy_data = data.qy_data #[index]
1596	residuals.q_data = data.q_data#[index]
1597	residuals.err_data = numpy.ones(len(residuals.data))#[index]
1598	residuals.xmin = min(residuals.qx_data)
1599	residuals.xmax = max(residuals.qx_data)
1600	residuals.ymin = min(residuals.qy_data)
1601	residuals.ymax = max(residuals.qy_data)
1602	residuals.q_data = data.q_data#[index]
1603	residuals.mask = data.mask
1604	residuals.scale = 'linear'
1605	#print "print data",residuals
1606	# check the lengths
1607	if len(residuals.data) != len(residuals.q_data):
1608	return
1609
1610	else:
1611	# 1 d theory from model_thread is only in the range of index
1612	if data.dy == None or data.dy == []:
1613	dy = numpy.ones(len(data.y))
1614	else:
1615	## Set consitently w/AbstractFitengine:
1616	## But this should be corrected later.
1617	dy = deepcopy(data.dy)
1618	dy[dy==0] = 1
1619	fn = data.y[index]
1620	theory_data = self.page_finder[page_id].get_theory_data()
1621	gn = theory_data.y
1622	en = dy[index]
1623	# build residuals
1624	residuals = Data1D()
1625	residuals.y = (fn - gn) / en
1626	residuals.x = data.x[index]
1627	residuals.dy = numpy.ones(len(residuals.y))
1628	residuals.dx = None
1629	residuals.dxl = None
1630	residuals.dxw = None
1631	residuals.ytransform = 'y'
1632	# For latter scale changes
1633	residuals.xaxis('\\rm{Q} ', 'A^{-1}')
1634	residuals.yaxis('\\rm{Residuals} ', 'normalized')
1635
1636	new_plot = residuals
1637	if data.id == None:
1638	data.id = data.name
1639	name = data.id
1640	new_plot.name = "Residuals for " + str(data.name)
1641	## allow to highlight data when plotted
1642	new_plot.interactive = True
1643	## when 2 data have the same id override the 1 st plotted
1644	new_plot.id = new_plot.name#name + " residuals"
1645	##group_id specify on which panel to plot this data
1646	new_plot.group_id = new_plot.id
1647	#new_plot.is_data = True
1648	##post data to plot
1649	title = new_plot.name
1650
1651	# plot data
1652	wx.PostEvent(self.parent, NewPlotEvent(plot=new_plot, title=title))
1653
1654	#def profile(fn, args, *kw):
1655	# import cProfile, pstats, os
1656	# global call_result
1657	# def call():
1658	# global call_result
1659	# call_result = fn(args, *kw)
1660	# cProfile.runctx('call()', dict(call=call), {}, 'profile.out')
1661	# stats = pstats.Stats('profile.out')
1662	# #stats.sort_stats('time')
1663	# stats.sort_stats('calls')
1664	# stats.print_stats()
1665	# os.unlink('profile.out')
1666	# return call_result
1667	if __name__ == "__main__":
1668	i = Plugin()
1669
1670
1671
1672

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SasView

source: sasview/sansview/perspectives/fitting/fitting.py @ b46912b

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