fitting.py @ 000b025

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 000b025 was f22e626, checked in by Gervaise Alina <gervyh@…>, 14 years ago
working on remove data
Property mode set to `100644`
File size: 63.7 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 Fit [Scipy]",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 Fit [Park]",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	self.add_fit_page(data=data)
275	wx.PostEvent(self.parent, NewPlotEvent(plot=data,
276	title=str(data.title)))
277
278	except:
279	raise
280	#msg = "Fitting Set_data: " + str(sys.exc_value)
281	#wx.PostEvent(self.parent, StatusEvent(status=msg, info="error"))
282
283	def set_top_panel(self):
284	"""
285	Close default (welcome) panel
286	"""
287	if 'default' in self.parent.panels:
288	self.parent.on_close_welcome_panel()
289
290
291	def set_theory(self, theory_list=None):
292	"""
293	"""
294	#set the model state for a given theory_state:
295	for item in theory_list:
296	try:
297	_, theory_state = item
298	self.fit_panel.set_model_state(theory_state)
299	except:
300	msg = "Fitting: cannot deal with the theory received"
301	logging.error("set_theory " + msg + "\n" + str(sys.exc_value))
302	wx.PostEvent(self.parent, StatusEvent(status=msg, info="error"))
303
304	def set_state(self, state=None, datainfo=None, format=None):
305	"""
306	Call-back method for the fit page state reader.
307	This method is called when a .fitv/.svs file is loaded.
308
309	: param state: PageState object
310	: param datainfo: data
311	"""
312	#state = self.state_reader.get_state()
313	if state != None:
314	state = state.clone()
315	# store fitting state in temp_state
316	self.temp_state.append(state)
317	else:
318	self.temp_state = []
319	# index to start with for a new set_state
320	self.state_index = 0
321	# state file format
322	self.sfile_ext = format
323
324	self.on_set_state_helper(event=None)
325
326	def on_set_state_helper(self,event=None):
327	"""
328	Set_state_helper. This actually sets state after plotting data from state file.
329
330	: event: FitStateUpdateEvent called by dataloader.plot_data from guiframe
331	"""
332	if len(self.temp_state) == 0:
333	if self.state_index==0 and len(self.mypanels) <= 0 and self.sfile_ext =='.svs':
334	self.fit_panel.add_default_pages()
335	self.temp_state = []
336	self.state_index = 0
337	return
338
339	try:
340	# Load fitting state
341	state = self.temp_state[self.state_index]
342	#panel state should have model selection to set_state
343	if state.formfactorcombobox != None:
344	#set state
345	data = self.parent.create_gui_data(state.data)
346	data.group_id = state.data.group_id
347	self.parent.add_data(data_list={data.id:data})
348	wx.PostEvent(self.parent, NewPlotEvent(plot=data,
349	title=data.title))
350	#need to be fix later make sure we are sendind guiframe.data
351	#to panel
352	state.data = data
353	page = self.fit_panel.set_state(state)
354	else:
355	#just set data because set_state won't work
356	data = self.parent.create_gui_data(state.data)
357	data.group_id = state.data.group_id
358	self.parent.add_data(data_list={data.id:data})
359	wx.PostEvent(self.parent, NewPlotEvent(plot=data,
360	title=data.title))
361	page = self.add_fit_page(data)
362	caption = page.window_name
363	self.store_data(page=page.id, data=data, caption=caption)
364	self.mypanels.append(page)
365
366	# get ready for the next set_state
367	self.state_index += 1
368
369	#reset state variables to default when all set_state is finished.
370	if len(self.temp_state) == self.state_index:
371
372	self.temp_state = []
373	#self.state_index = 0
374	# Make sure the user sees the fitting panel after loading
375	#self.parent.set_perspective(self.perspective)
376	self.on_perspective(event=None)
377	except:
378	self.state_index==0
379	self.temp_state = []
380	raise
381
382	def save_fit_state(self, filepath, fitstate):
383	"""
384	save fit page state into file
385	"""
386	self.state_reader.write(filename=filepath, fitstate=fitstate)
387
388	def set_fit_range(self, uid, qmin, qmax):
389	"""
390	Set the fitting range of a given page
391	"""
392	self.page_finder[uid].set_range(qmin=qmin, qmax=qmax)
393
394	def schedule_for_fit(self,value=0, uid=None,fitproblem =None):
395	"""
396	Set the fit problem field to 0 or 1 to schedule that problem to fit.
397	Schedule the specified fitproblem or get the fit problem related to
398	the current page and set value.
399
400	:param value: integer 0 or 1
401	:param fitproblem: fitproblem to schedule or not to fit
402
403	"""
404	if fitproblem !=None:
405	fitproblem.schedule_tofit(value)
406	else:
407	self.page_finder[uid].schedule_tofit(value)
408
409	def get_page_finder(self):
410	"""
411	return self.page_finder used also by simfitpage.py
412	"""
413	return self.page_finder
414
415	def set_page_finder(self,modelname,names,values):
416	"""
417	Used by simfitpage.py to reset a parameter given the string constrainst.
418
419	:param modelname: the name ot the model for with the parameter has to reset
420	:param value: can be a string in this case.
421	:param names: the paramter name
422
423	:note: expecting park used for fit.
424
425	"""
426	sim_page_id = self.sim_page.uid
427	for uid, value in self.page_finder.iteritems():
428	if uid != sim_page_id:
429	list = value.get_model()
430	model = list[0]
431	if model.name == modelname:
432	value.set_model_param(names, values)
433	break
434
435	def split_string(self,item):
436	"""
437	receive a word containing dot and split it. used to split parameterset
438	name into model name and parameter name example: ::
439
440	paramaterset (item) = M1.A
441	Will return model_name = M1 , parameter name = A
442
443	"""
444	if string.find(item,".")!=-1:
445	param_names= re.split("\.",item)
446	model_name=param_names[0]
447	##Assume max len is 3; eg., M0.radius.width
448	if len(param_names) == 3:
449	param_name=param_names[1]+"."+param_names[2]
450	else:
451	param_name=param_names[1]
452	return model_name,param_name
453
454	def set_ftol(self, ftol=None):
455	"""
456	Set ftol: Relative error desired in the sum of chi squares.
457	"""
458	# check if it is flaot
459	try:
460	f_tol = float(ftol)
461	except:
462	# default
463	f_tol = 1.49012e-08
464
465	self.ftol = f_tol
466
467	def stop_fit(self, uid):
468	"""
469	Stop the fit engine
470	"""
471	if uid in self.fit_thread_list.keys():
472	calc_fit = self.fit_thread_list[uid]
473	if calc_fit is not None and calc_fit.isrunning():
474	calc_fit.stop()
475	msg = "Fit stop!"
476	wx.PostEvent(self.parent, StatusEvent(status=msg, type="stop"))
477	#set the fit button label of page when fit stop is trigger from
478	#simultaneous fit pane
479	if self.sim_page is not None and uid == self.sim_page.uid:
480	for uid, value in self.page_finder.iteritems():
481	if value.get_scheduled() == 1:
482	if uid in self.fit_panel.opened_pages.keys():
483	panel = self.fit_panel.opened_pages[uid]
484	panel. _on_fit_complete()
485
486	def set_smearer(self, uid, smearer, qmin=None, qmax=None, draw=True,
487	enable2D=False):
488	"""
489	Get a smear object and store it to a fit problem
490
491	:param smearer: smear object to allow smearing data
492
493	"""
494	if uid not in self.page_finder.keys():
495	msg = "Cannot find ID: %s in page_finder" % str(uid)
496	raise ValueError, msg
497	self.page_finder[uid].set_smearer(smearer)
498	self.page_finder[uid].set_enable2D(enable2D)
499	if draw:
500	## draw model 1D with smeared data
501	data = self.page_finder[uid].get_fit_data()
502	model = self.page_finder[uid].get_model()
503	if model is None:
504	return
505	enable1D = True
506	enable2D = self.page_finder[uid].get_enable2D()
507	if enable2D:
508	enable1D = False
509
510	## if user has already selected a model to plot
511	## redraw the model with data smeared
512	smear = self.page_finder[uid].get_smearer()
513	self.draw_model(model=model, data=data, page_id=uid, smearer=smear,
514	enable1D=enable1D, enable2D=enable2D,
515	qmin=qmin, qmax=qmax)
516
517	def draw_model(self, model, page_id, data=None, smearer=None,
518	enable1D=True, enable2D=False,
519	state=None,
520	toggle_mode_on=False,
521	qmin=DEFAULT_QMIN, qmax=DEFAULT_QMAX,
522	qstep=DEFAULT_NPTS,
523	update_chisqr=True):
524	"""
525	Draw model.
526
527	:param model: the model to draw
528	:param name: the name of the model to draw
529	:param data: the data on which the model is based to be drawn
530	:param description: model's description
531	:param enable1D: if true enable drawing model 1D
532	:param enable2D: if true enable drawing model 2D
533	:param qmin: Range's minimum value to draw model
534	:param qmax: Range's maximum value to draw model
535	:param qstep: number of step to divide the x and y-axis
536	:param update_chisqr: update chisqr [bool]
537
538	"""
539	if data.__class__.__name__ == "Data1D" or not enable2D:
540	## draw model 1D with no loaded data
541	self._draw_model1D(model=model,
542	data=data,
543	page_id=page_id,
544	enable1D=enable1D,
545	smearer=smearer,
546	qmin=qmin,
547	qmax=qmax,
548	toggle_mode_on=toggle_mode_on,
549	state=state,
550	qstep=qstep,
551	update_chisqr=update_chisqr)
552	else:
553	## draw model 2D with no initial data
554	self._draw_model2D(model=model,
555	page_id=page_id,
556	data=data,
557	enable2D=enable2D,
558	smearer=smearer,
559	qmin=qmin,
560	qmax=qmax,
561	state=state,
562	toggle_mode_on=toggle_mode_on,
563	qstep=qstep,
564	update_chisqr=update_chisqr)
565
566	def onFit(self):
567	"""
568	perform fit
569	"""
570	## count the number of fitproblem schedule to fit
571	fitproblem_count = 0
572	for value in self.page_finder.values():
573	if value.get_scheduled() == 1:
574	fitproblem_count += 1
575
576	## if simultaneous fit change automatically the engine to park
577	if fitproblem_count > 1:
578	self._on_change_engine(engine='park')
579
580	self.fitproblem_count = fitproblem_count
581
582	from sans.fit.Fitting import Fit
583	fitter = Fit(self._fit_engine)
584
585	if self._fit_engine == "park":
586	engineType = "Simultaneous Fit"
587	else:
588	engineType = "Single Fit"
589
590	fproblemId = 0
591	self.current_pg = None
592	list_page_id = []
593	for page_id, value in self.page_finder.iteritems():
594	try:
595	if value.get_scheduled() == 1:
596	#Get list of parameters name to fit
597	pars = []
598	templist = []
599
600	page = self.fit_panel.get_page_by_id(page_id)
601	templist = page.get_param_list()
602	# missing fit parameters
603	#if not templist:
604	# return
605	# have the list
606	for element in templist:
607	name = str(element[1])
608	pars.append(name)
609	#Set Engine (model , data) related to the page on
610	self._fit_helper(value=value, pars=pars,
611	fitter=fitter,
612	fitproblem_id=fproblemId,
613	title=engineType)
614	list_page_id.append(page_id)
615	fproblemId += 1
616	current_page_id = page_id
617	except:
618	#raise
619	msg= "%s error: %s" % (engineType, sys.exc_value)
620	wx.PostEvent(self.parent, StatusEvent(status=msg, info="error",
621	type="stop"))
622	return
623	## If a thread is already started, stop it
624	#if self.calc_fit!= None and self.calc_fit.isrunning():
625	# self.calc_fit.stop()
626	#Handler used for park engine displayed message
627	handler = ConsoleUpdate(parent=self.parent,
628	manager=self,
629	improvement_delta=0.1)
630
631	## perform single fit
632	if fitproblem_count == 1:
633	calc_fit = FitThread(handler = handler,
634	fn=fitter,
635	pars=pars,
636	page_id=list_page_id,
637	completefn=self._single_fit_completed,
638	ftol=self.ftol)
639	else:
640	current_page_id = self.sim_page.uid
641	## Perform more than 1 fit at the time
642	calc_fit = FitThread(handler=handler,
643	fn=fitter,
644	page_id=list_page_id,
645	updatefn=handler.update_fit,
646	completefn=self._simul_fit_completed,
647	ftol=self.ftol)
648	self.fit_thread_list[current_page_id] = calc_fit
649	calc_fit.queue()
650	msg = "Fitting is in progress..."
651	wx.PostEvent( self.parent, StatusEvent(status=msg, type="progress" ))
652
653	self.ready_fit(calc_fit=calc_fit)
654
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	try:
897	if result == None:
898	msg= "Single Fitting did not converge!!!"
899	wx.PostEvent(self.parent,
900	StatusEvent(status=msg,
901	info="warning",
902	type="stop"))
903	return
904	if not numpy.isfinite(result.fitness) or \
905	numpy.any(result.pvec == None) or \
906	not numpy.all(numpy.isfinite(result.pvec)):
907	msg = "Single Fitting did not converge!!!"
908	wx.PostEvent(self.parent,
909	StatusEvent(status=msg,
910	info="warning",
911	type="stop"))
912	return
913	for uid in page_id:
914	value = self.page_finder[uid]
915	model = value.get_model()
916	page_id = uid
917
918	param_name = []
919	for name in pars:
920	param_name.append(name)
921
922	cpage = self.fit_panel.get_page_by_id(uid)
923	cpage.onsetValues(result.fitness,
924	param_name, result.pvec,result.stderr)
925	cpage._on_fit_complete()
926
927	except ValueError:
928	msg = "Single Fitting did not converge!!!"
929	wx.PostEvent(self.parent, StatusEvent(status=msg, info="error",
930	type="stop"))
931	return
932	except:
933	raise
934	#msg = "Single Fit completed but Following"
935	#msg += " error occurred:%s" % sys.exc_value
936	#wx.PostEvent(self.parent, StatusEvent(status=msg, info="error",
937	# type="stop"))
938	return
939
940	def _simul_fit_completed(self, result, page_id,pars=None, elapsed=None):
941	"""
942	Parameter estimation completed,
943	display the results to the user
944
945	:param alpha: estimated best alpha
946	:param elapsed: computation time
947
948	"""
949	if page_id is None:
950	page_id = []
951	## fit more than 1 model at the same time
952	try:
953	msg = ""
954	if result == None:
955	msg= "Complex Fitting did not converge!!!"
956	wx.PostEvent(self.parent, StatusEvent(status=msg,
957	type="stop"))
958	return
959	if not numpy.isfinite(result.fitness) or \
960	numpy.any(result.pvec == None) or not \
961	numpy.all(numpy.isfinite(result.pvec)):
962	msg= "Simultaneous Fitting did not converge!!!"
963	wx.PostEvent(self.parent, StatusEvent(status=msg,type="stop"))
964	return
965
966	for uid in page_id:
967	value = self.page_finder[uid]
968	model = value.get_model()
969	data = value.get_fit_data()
970	small_param_name = []
971	small_out = []
972	small_cov = []
973	#Separate result in to data corresponding to each page
974	for p in result.parameters:
975	model_name, param_name = self.split_string(p.name)
976	if model.name == model_name:
977	p_name= model.name+"."+param_name
978	if p.name == p_name:
979	if p.value != None and numpy.isfinite(p.value):
980	small_out.append(p.value)
981	small_param_name.append(param_name)
982	small_cov.append(p.stderr)
983	# Display result on each page
984	cpage = self.fit_panel.get_page_by_id(uid)
985	cpage.onsetValues(result.fitness,
986	small_param_name,
987	small_out,small_cov)
988	cpage._on_fit_complete()
989
990	except Exception:
991	msg = "Complex Fitting did not converge!!!"
992	wx.PostEvent(self.parent, StatusEvent(status=msg, info="error",
993	type="stop"))
994	return
995
996	except:
997	msg = "Simultaneous Fit completed"
998	msg += " but Following error occurred:%s" % sys.exc_value
999	wx.PostEvent(self.parent, StatusEvent(status=msg, type="stop"))
1000
1001	def _on_show_panel(self, event):
1002	"""
1003	"""
1004	pass
1005
1006	def _onset_engine_park(self,event):
1007	"""
1008	set engine to park
1009	"""
1010	self._on_change_engine('park')
1011
1012	def _onset_engine_scipy(self,event):
1013	"""
1014	set engine to scipy
1015	"""
1016	self._on_change_engine('scipy')
1017
1018	def _on_slicer_event(self, event):
1019	"""
1020	Receive a panel as event and send it to guiframe
1021
1022	:param event: event containing a panel
1023
1024	"""
1025	if event.panel is not None:
1026	new_panel = event.panel
1027	self.slicer_panels.append(event.panel)
1028	# Set group ID if available
1029	event_id = self.parent.popup_panel(new_panel)
1030	#self.menu3.Append(event_id, new_panel.window_caption,
1031	# "Show %s plot panel" % new_panel.window_caption)
1032	# Set id to allow us to reference the panel later
1033
1034	new_panel.uid = event_id
1035	self.mypanels.append(new_panel)
1036
1037	def _onclearslicer(self, event):
1038	"""
1039	Clear the boxslicer when close the panel associate with this slicer
1040	"""
1041	name =event.GetPane().caption
1042
1043	for panel in self.slicer_panels:
1044	if panel.window_caption==name:
1045
1046	for item in self.parent.panels:
1047	if hasattr(self.parent.panels[item],"uid"):
1048	if self.parent.panels[item].uid ==panel.base.uid:
1049	self.parent.panels[item].onClearSlicer(event)
1050	self.parent._mgr.Update()
1051	break
1052	break
1053
1054	def _return_engine_type(self):
1055	"""
1056	return the current type of engine
1057	"""
1058	return self._fit_engine
1059
1060
1061	def _on_change_engine(self, engine='park'):
1062	"""
1063	Allow to select the type of engine to perform fit
1064
1065	:param engine: the key work of the engine
1066
1067	"""
1068	## saving fit engine name
1069	self._fit_engine = engine
1070	## change menu item state
1071	if engine=="park":
1072	self.menu1.FindItemById(self.park_id).Check(True)
1073	self.menu1.FindItemById(self.scipy_id).Check(False)
1074	else:
1075	self.menu1.FindItemById(self.park_id).Check(False)
1076	self.menu1.FindItemById(self.scipy_id).Check(True)
1077	## post a message to status bar
1078	msg = "Engine set to: %s" % self._fit_engine
1079	wx.PostEvent(self.parent,
1080	StatusEvent(status=msg))
1081	## send the current engine type to fitpanel
1082	self.fit_panel._on_engine_change(name=self._fit_engine)
1083
1084	def _on_model_panel(self, evt):
1085	"""
1086	react to model selection on any combo box or model menu.plot the model
1087
1088	:param evt: wx.combobox event
1089
1090	"""
1091	model = evt.model
1092	uid = evt.uid
1093	qmin = evt.qmin
1094	qmax = evt.qmax
1095	smearer = evt.smearer
1096
1097	if model == None:
1098	return
1099
1100	if self.page_finder[uid].get_model() is None:
1101	model.name = "M" + str(self.index_model)
1102	self.index_model += 1
1103	else:
1104	model.name = self.page_finder[uid].get_model().name
1105	# save the name containing the data name with the appropriate model
1106	self.page_finder[uid].set_model(model)
1107	self.page_finder[uid].set_range(qmin=qmin, qmax=qmax)
1108	if self.sim_page is not None:
1109	self.sim_page.draw_page()
1110
1111	def _update1D(self,x, output):
1112	"""
1113	Update the output of plotting model 1D
1114	"""
1115	msg = "Plot updating ... "
1116	wx.PostEvent(self.parent, StatusEvent(status=msg,type="update"))
1117	self.ready_fit()
1118
1119
1120	def _fill_default_model2D(self, theory, page_id, qmax,qstep, qmin=None):
1121	"""
1122	fill Data2D with default value
1123
1124	:param theory: Data2D to fill
1125
1126	"""
1127	from DataLoader.data_info import Detector, Source
1128
1129	detector = Detector()
1130	theory.detector.append(detector)
1131	theory.source= Source()
1132
1133	## Default values
1134	theory.detector[0].distance= 8000 # mm
1135	theory.source.wavelength= 6 # A
1136	theory.detector[0].pixel_size.x= 5 # mm
1137	theory.detector[0].pixel_size.y= 5 # mm
1138
1139	theory.detector[0].beam_center.x= qmax
1140	theory.detector[0].beam_center.y= qmax
1141
1142	## create x_bins and y_bins of the model 2D
1143	pixel_width_x = theory.detector[0].pixel_size.x
1144	pixel_width_y = theory.detector[0].pixel_size.y
1145	center_x = theory.detector[0].beam_center.x/pixel_width_x
1146	center_y = theory.detector[0].beam_center.y/pixel_width_y
1147
1148	# theory default: assume the beam
1149	#center is located at the center of sqr detector
1150	xmax = qmax
1151	xmin = -qmax
1152	ymax = qmax
1153	ymin = -qmax
1154
1155	x= numpy.linspace(start= -1*qmax,
1156	stop=qmax,
1157	num=qstep,
1158	endpoint=True)
1159	y = numpy.linspace(start=-1*qmax,
1160	stop= qmax,
1161	num= qstep,
1162	endpoint=True)
1163
1164	## use data info instead
1165	new_x = numpy.tile(x, (len(y),1))
1166	new_y = numpy.tile(y, (len(x),1))
1167	new_y = new_y.swapaxes(0,1)
1168
1169	# all data reuire now in 1d array
1170	qx_data = new_x.flatten()
1171	qy_data = new_y.flatten()
1172
1173	q_data = numpy.sqrt(qx_dataqx_data+qy_dataqy_data)
1174	# set all True (standing for unmasked) as default
1175	mask = numpy.ones(len(qx_data), dtype = bool)
1176
1177	# calculate the range of qx and qy: this way,
1178	# it is a little more independent
1179	x_size = xmax- xmin
1180	y_size = ymax -ymin
1181
1182	# store x and y bin centers in q space
1183	x_bins = x
1184	y_bins = y
1185	# bin size: x- & y-directions
1186	xstep = x_size/len(x_bins-1)
1187	ystep = y_size/len(y_bins-1)
1188
1189	#theory.data = numpy.zeros(len(mask))
1190	theory.err_data = numpy.ones(len(mask))
1191	theory.qx_data = qx_data
1192	theory.qy_data = qy_data
1193	theory.q_data = q_data
1194	theory.mask = mask
1195	theory.x_bins = x_bins
1196	theory.y_bins = y_bins
1197
1198	# max and min taking account of the bin sizes
1199	theory.xmin = xmin
1200	theory.xmax = xmax
1201	theory.ymin = ymin
1202	theory.ymax = ymax
1203	theory.group_id = str(page_id) + " Model2D"
1204	theory.id = str(page_id) + " Model2D"
1205
1206	def _complete1D(self, x,y, page_id, elapsed,index,model,
1207	toggle_mode_on=False,state=None,
1208	data=None, update_chisqr=True):
1209	"""
1210	Complete plotting 1D data
1211	"""
1212	try:
1213	new_plot = Data1D(x=x, y=y)
1214	new_plot.is_data = False
1215	new_plot.symbol = GUIFRAME_ID.CURVE_SYMBOL_NUM
1216	if data != None:
1217	_xaxis, _xunit = data.get_xaxis()
1218	_yaxis, _yunit = data.get_yaxis()
1219	new_plot.title = data.name
1220	#if the theory is already plotted use the same group id
1221	#to replot
1222	if page_id in self.page_finder:
1223	theory_data = self.page_finder[page_id].get_theory_data()
1224	if theory_data is not None:
1225	data.group_id = theory_data.group_id
1226	#data is plotted before the theory, then take its group_id
1227	#assign to the new theory
1228	new_plot.group_id = data.group_id
1229
1230	else:
1231	_xaxis, _xunit = "\\rm{Q}", 'A^{-1}'
1232	_yaxis, _yunit = "\\rm{Intensity} ", "cm^{-1}"
1233	new_plot.title = "Analytical model 1D "
1234	#find a group id to plot theory without data
1235	new_plot.group_id = str(page_id) + " Model1D"
1236	new_plot.id = str(page_id) + " Model1D"
1237
1238	#find if this theory was already plotted and replace that plot given
1239	#the same id
1240
1241	theory_data = self.page_finder[page_id].get_theory_data()
1242	if theory_data is not None:
1243	new_plot.id = theory_data.id
1244
1245	new_plot.name = model.name + " ["+ str(model.__class__.__name__)+ "]"
1246	new_plot.xaxis(_xaxis, _xunit)
1247	new_plot.yaxis(_yaxis, _yunit)
1248	if toggle_mode_on:
1249	new_plot.id = str(page_id) + " Model"
1250	wx.PostEvent(self.parent,
1251	NewPlotEvent(group_id=str(page_id) + " Model2D",
1252	action="Hide"))
1253
1254	self.page_finder[page_id].set_theory_data(new_plot)
1255	if data is None:
1256	data_id = None
1257	else:
1258	data_id = data.id
1259	self.parent.update_theory(data_id=data_id,
1260	theory=new_plot,
1261	state=state)
1262	current_pg = self.fit_panel.get_page_by_id(page_id)
1263	title = new_plot.title
1264	wx.PostEvent(self.parent, NewPlotEvent(plot=new_plot,
1265	title= str(title)))
1266
1267	self.page_finder[page_id].set_theory_data(new_plot)
1268
1269	if update_chisqr:
1270	wx.PostEvent(current_pg,
1271	Chi2UpdateEvent(output=self._cal_chisqr(data=data,
1272	page_id=page_id,
1273	index=index)))
1274	else:
1275	self._plot_residuals(page_id, data, index)
1276
1277	msg = "Plot 1D complete !"
1278	wx.PostEvent( self.parent, StatusEvent(status=msg, type="stop" ))
1279	#self.current_pg.state.theory_data = deepcopy(self.theory_data)
1280	except:
1281	raise
1282	#msg = " Error occurred when drawing %s Model 1D: " % new_plot.name
1283	#msg += " %s" % sys.exc_value
1284	#wx.PostEvent(self.parent, StatusEvent(status=msg, type="stop"))
1285
1286	def _update2D(self, output,time=None):
1287	"""
1288	Update the output of plotting model
1289	"""
1290	wx.PostEvent(self.parent, StatusEvent(status="Plot \
1291	#updating ... ", type="update"))
1292	self.ready_fit()
1293
1294	def _complete2D(self, image, data, model, page_id, elapsed, index, qmin,
1295	qmax, toggle_mode_on=False,state=None,qstep=DEFAULT_NPTS,
1296	update_chisqr=True):
1297	"""
1298	Complete get the result of modelthread and create model 2D
1299	that can be plot.
1300	"""
1301	err_image = numpy.zeros(numpy.shape(image))
1302
1303	new_plot= Data2D(image=image, err_image=err_image)
1304	new_plot.name = model.name
1305	new_plot.title = "Analytical model 2D "
1306	if data is None:
1307	self._fill_default_model2D(theory=new_plot,
1308	qmax=qmax,
1309	page_id=page_id,
1310	qstep=qstep,
1311	qmin= qmin)
1312
1313	else:
1314	new_plot.id = str(page_id) + " Model2D"
1315	new_plot.group_id = str(page_id) + " Model2D"
1316	new_plot.x_bins = data.x_bins
1317	new_plot.y_bins = data.y_bins
1318	new_plot.detector = data.detector
1319	new_plot.source = data.source
1320	new_plot.is_data = False
1321	new_plot.qx_data = data.qx_data
1322	new_plot.qy_data = data.qy_data
1323	new_plot.q_data = data.q_data
1324	#numpy.zeros(len(data.err_data))#data.err_data
1325	new_plot.err_data = err_image
1326	new_plot.mask = data.mask
1327	## plot boundaries
1328	new_plot.ymin = data.ymin
1329	new_plot.ymax = data.ymax
1330	new_plot.xmin = data.xmin
1331	new_plot.xmax = data.xmax
1332	title = data.title
1333	if len(title) > 1:
1334	new_plot.title = "Model2D for " + data.name
1335	new_plot.is_data = False
1336	new_plot.name = model.name + " ["+ str(model.__class__.__name__)+ "]"
1337
1338	theory_data = deepcopy(new_plot)
1339	theory_data.name = "Unknown"
1340	if toggle_mode_on:
1341	new_plot.id = str(page_id) + " Model"
1342	wx.PostEvent(self.parent,
1343	NewPlotEvent(group_id=str(page_id) + " Model1D",
1344	action="Hide"))
1345
1346	self.page_finder[page_id].set_theory_data(new_plot)
1347	if data is None:
1348	data_id = None
1349	else:
1350	data_id = data.id
1351	self.parent.update_theory(data_id=data_id,
1352	theory=new_plot,
1353	state=state)
1354	current_pg = self.fit_panel.get_page_by_id(page_id)
1355	title = new_plot.title
1356
1357	wx.PostEvent(self.parent, NewPlotEvent(plot=new_plot,
1358	title=title))
1359	self.page_finder[page_id].set_theory_data(new_plot)
1360	# Chisqr in fitpage
1361	if update_chisqr:
1362	wx.PostEvent(current_pg,
1363	Chi2UpdateEvent(output=\
1364	self._cal_chisqr(data=data,
1365	page_id=page_id,
1366	index=index)))
1367	else:
1368	self._plot_residuals(page_id, data, index)
1369	msg = "Plot 2D complete !"
1370	wx.PostEvent(self.parent, StatusEvent(status=msg, type="stop"))
1371
1372	def _draw_model2D(self, model, page_id, data=None, smearer=None,
1373	description=None, enable2D=False,
1374	state=None,
1375	toggle_mode_on=False,
1376	qmin=DEFAULT_QMIN, qmax=DEFAULT_QMAX,
1377	qstep=DEFAULT_NPTS,
1378	update_chisqr=True):
1379	"""
1380	draw model in 2D
1381
1382	:param model: instance of the model to draw
1383	:param description: the description of the model
1384	:param enable2D: when True allows to draw model 2D
1385	:param qmin: the minimum value to draw model 2D
1386	:param qmax: the maximum value to draw model 2D
1387	:param qstep: the number of division of Qx and Qy of the model to draw
1388
1389	"""
1390	x= numpy.linspace(start=-1*qmax,
1391	stop=qmax,
1392	num=qstep,
1393	endpoint=True)
1394	y = numpy.linspace(start= -1*qmax,
1395	stop=qmax,
1396	num=qstep,
1397	endpoint=True)
1398	if model is None:
1399	msg = "Panel with ID: %s does not contained model" % str(page_id)
1400	raise ValueError, msg
1401	## use data info instead
1402	if data is not None:
1403	## check if data2D to plot
1404	if hasattr(data, "x_bins"):
1405	enable2D = True
1406	x = data.x_bins
1407	y = data.y_bins
1408
1409	if not enable2D:
1410	return None, None
1411	try:
1412	from model_thread import Calc2D
1413	## If a thread is already started, stop it
1414	if (self.calc_2D is not None) and self.calc_2D.isrunning():
1415	self.calc_2D.stop()
1416	self.calc_2D = Calc2D(x=x,
1417	y=y,
1418	model=model,
1419	data=data,
1420	page_id=page_id,
1421	smearer=smearer,
1422	qmin=qmin,
1423	qmax=qmax,
1424	qstep=qstep,
1425	toggle_mode_on=toggle_mode_on,
1426	state=state,
1427	completefn=self._complete2D,
1428	#updatefn= self._update2D,
1429	update_chisqr=update_chisqr)
1430
1431	self.calc_2D.queue()
1432
1433	except:
1434	raise
1435	#msg = " Error occurred when drawing %s Model 2D: " % model.name
1436	#msg += " %s" % sys.exc_value
1437	#wx.PostEvent(self.parent, StatusEvent(status=msg))
1438
1439	def _draw_model1D(self, model, page_id, data=None, smearer=None,
1440	qmin=DEFAULT_QMIN, qmax=DEFAULT_QMAX,
1441	state=None,
1442	toggle_mode_on=False,
1443	qstep=DEFAULT_NPTS, update_chisqr=True,
1444	enable1D=True):
1445	"""
1446	Draw model 1D from loaded data1D
1447
1448	:param data: loaded data
1449	:param model: the model to plot
1450
1451	"""
1452	x= numpy.linspace(start=qmin,
1453	stop=qmax,
1454	num=qstep,
1455	endpoint=True
1456	)
1457	if data is not None:
1458	## check for data2D
1459	if hasattr(data,"x_bins"):
1460	return
1461	x = data.x
1462	if qmin == None :
1463	qmin == DEFAULT_QMIN
1464
1465	if qmax == None:
1466	qmax == DEFAULT_QMAX
1467	if not enable1D:
1468	return
1469	try:
1470	from model_thread import Calc1D
1471	## If a thread is already started, stop it
1472	if (self.calc_1D is not None) and self.calc_1D.isrunning():
1473	self.calc_1D.stop()
1474	self.calc_1D = Calc1D(x=x,
1475	data=data,
1476	model=model,
1477	page_id=page_id,
1478	qmin=qmin,
1479	qmax=qmax,
1480	smearer=smearer,
1481	state=state,
1482	toggle_mode_on=toggle_mode_on,
1483	completefn=self._complete1D,
1484	#updatefn = self._update1D,
1485	update_chisqr=update_chisqr)
1486
1487	self.calc_1D.queue()
1488
1489	except:
1490	msg = " Error occurred when drawing %s Model 1D: " % model.name
1491	msg += " %s" % sys.exc_value
1492	wx.PostEvent(self.parent, StatusEvent(status=msg))
1493
1494	def _cal_chisqr(self, page_id, data=None, index=None):
1495	"""
1496	Get handy Chisqr using the output from draw1D and 2D,
1497	instead of calling expansive CalcChisqr in guithread
1498	"""
1499	# default chisqr
1500	chisqr = None
1501
1502	# return None if data == None
1503	if data == None: return chisqr
1504
1505	# Get data: data I, theory I, and data dI in order
1506	if data.__class__.__name__ == "Data2D":
1507	if index == None:
1508	index = numpy.ones(len(data.data),ntype=bool)
1509	# get rid of zero error points
1510	index = index & (data.err_data != 0 )
1511	index = index & (numpy.isfinite(data.data))
1512	fn = data.data[index]
1513	theory_data = self.page_finder[page_id].get_theory_data()
1514	gn = theory_data.data[index]
1515	en = data.err_data[index]
1516	else:
1517	# 1 d theory from model_thread is only in the range of index
1518	if index == None:
1519	index = numpy.ones(len(data.y), ntype=bool)
1520	if data.dy == None or data.dy == []:
1521	dy = numpy.ones(len(data.y))
1522	else:
1523	## Set consitently w/AbstractFitengine:
1524	# But this should be corrected later.
1525	dy = deepcopy(data.dy)
1526	dy[dy==0] = 1
1527	fn = data.y[index]
1528	theory_data = self.page_finder[page_id].get_theory_data()
1529	gn = theory_data.y
1530	en = dy[index]
1531
1532	# residual
1533	res = (fn - gn) / en
1534	residuals = res[numpy.isfinite(res)]
1535	# get chisqr only w/finite
1536	chisqr = numpy.average(residuals * residuals)
1537
1538	self._plot_residuals(page_id, data, index)
1539	return chisqr
1540
1541
1542
1543	def _plot_residuals(self, page_id, data=None, index=None):
1544	"""
1545	Plot the residuals
1546
1547	:param data: data
1548	:param index: index array (bool)
1549	: Note: this is different from the residuals in cal_chisqr()
1550	"""
1551	if data == None:
1552	return
1553
1554	# Get data: data I, theory I, and data dI in order
1555	if data.__class__.__name__ == "Data2D":
1556	# build residuals
1557	#print data
1558	residuals = Data2D()
1559	#residuals.copy_from_datainfo(data)
1560	# Not for trunk the line below, instead use the line above
1561	data.clone_without_data(len(data.data), residuals)
1562	residuals.data = None
1563	fn = data.data#[index]
1564	theory_data = self.page_finder[page_id].get_theory_data()
1565	gn = theory_data.data#[index]
1566	en = data.err_data#[index]
1567	residuals.data = (fn - gn) / en
1568	residuals.qx_data = data.qx_data#[index]
1569	residuals.qy_data = data.qy_data #[index]
1570	residuals.q_data = data.q_data#[index]
1571	residuals.err_data = numpy.ones(len(residuals.data))#[index]
1572	residuals.xmin = min(residuals.qx_data)
1573	residuals.xmax = max(residuals.qx_data)
1574	residuals.ymin = min(residuals.qy_data)
1575	residuals.ymax = max(residuals.qy_data)
1576	residuals.q_data = data.q_data#[index]
1577	residuals.mask = data.mask
1578	residuals.scale = 'linear'
1579	#print "print data",residuals
1580	# check the lengths
1581	if len(residuals.data) != len(residuals.q_data):
1582	return
1583
1584	else:
1585	# 1 d theory from model_thread is only in the range of index
1586	if data.dy == None or data.dy == []:
1587	dy = numpy.ones(len(data.y))
1588	else:
1589	## Set consitently w/AbstractFitengine:
1590	## But this should be corrected later.
1591	dy = deepcopy(data.dy)
1592	dy[dy==0] = 1
1593	fn = data.y[index]
1594	theory_data = self.page_finder[page_id].get_theory_data()
1595	gn = theory_data.y
1596	en = dy[index]
1597	# build residuals
1598	residuals = Data1D()
1599	residuals.y = (fn - gn) / en
1600	residuals.x = data.x[index]
1601	residuals.dy = numpy.ones(len(residuals.y))
1602	residuals.dx = None
1603	residuals.dxl = None
1604	residuals.dxw = None
1605	residuals.ytransform = 'y'
1606	# For latter scale changes
1607	residuals.xaxis('\\rm{Q} ', 'A^{-1}')
1608	residuals.yaxis('\\rm{Residuals} ', 'normalized')
1609
1610	new_plot = residuals
1611	if data.id == None:
1612	data.id = data.name
1613	name = data.id
1614	new_plot.name = "Residuals for " + str(data.name)
1615	## allow to highlight data when plotted
1616	new_plot.interactive = True
1617	## when 2 data have the same id override the 1 st plotted
1618	new_plot.id = new_plot.name#name + " residuals"
1619	##group_id specify on which panel to plot this data
1620	new_plot.group_id = new_plot.id
1621	#new_plot.is_data = True
1622	##post data to plot
1623	title = new_plot.name
1624
1625	# plot data
1626	wx.PostEvent(self.parent, NewPlotEvent(plot=new_plot, title=title))
1627
1628	#def profile(fn, args, *kw):
1629	# import cProfile, pstats, os
1630	# global call_result
1631	# def call():
1632	# global call_result
1633	# call_result = fn(args, *kw)
1634	# cProfile.runctx('call()', dict(call=call), {}, 'profile.out')
1635	# stats = pstats.Stats('profile.out')
1636	# #stats.sort_stats('time')
1637	# stats.sort_stats('calls')
1638	# stats.print_stats()
1639	# os.unlink('profile.out')
1640	# return call_result
1641	if __name__ == "__main__":
1642	i = Plugin()
1643
1644
1645
1646

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SasView

source: sasview/sansview/perspectives/fitting/fitting.py @ 000b025

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