fitting.py @ 25e3fc9

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 25e3fc9 was 25e3fc9, checked in by Gervaise Alina <gervyh@…>, 15 years ago
remove raise and pritn statement
Property mode set to `100644`
File size: 49.2 KB

Line
1	"""
2	This software was developed by the University of Tennessee as part of the
3	Distributed Data Analysis of Neutron Scattering Experiments (DANSE)
4	project funded by the US National Science Foundation.
5
6	See the license text in license.txt
7
8	copyright 2009, University of Tennessee
9	"""
10	import re,copy
11	import sys, wx, logging
12	import string, numpy, math
13	import time
14	import thread
15	#from danse.common.plottools.plottables import Theory1D
16	from danse.common.plottools.PlotPanel import PlotPanel
17
18	from sans.guiframe.dataFitting import Data2D
19	from sans.guiframe.dataFitting import Data1D
20	from sans.guiframe.dataFitting import Theory1D
21	from sans.guiframe import dataFitting
22	from sans.guiframe.utils import format_number
23
24	from sans.guicomm.events import NewPlotEvent, StatusEvent
25	from sans.guicomm.events import EVT_SLICER_PANEL,ERR_DATA,EVT_REMOVE_DATA
26	from sans.guicomm.events import EVT_SLICER_PARS_UPDATE
27
28	from sans.fit.AbstractFitEngine import Model
29	from sans.fit.AbstractFitEngine import FitAbort
30
31
32	from fitproblem import FitProblem
33	from fitpanel import FitPanel
34	from fit_thread import FitThread
35	import models
36	import fitpage
37
38	DEFAULT_BEAM = 0.005
39	DEFAULT_QMIN = 0.001
40	DEFAULT_QMAX = 0.13
41	DEFAULT_NPTS = 50
42
43	(PageInfoEvent, EVT_PAGE_INFO) = wx.lib.newevent.NewEvent()
44
45
46	class PlotInfo:
47	"""
48	store some plotting field
49	"""
50	_xunit = 'A^{-1}'
51	_xaxis= "\\rm{Q}"
52	_yunit = "cm^{-1}"
53	_yaxis= "\\rm{Intensity} "
54	id = "Model"
55	group_id = "Model"
56	title= None
57	info= None
58
59
60	class Plugin:
61	"""
62	Fitting plugin is used to perform fit
63	"""
64	def __init__(self):
65	## Plug-in name
66	self.sub_menu = "Fitting"
67
68	## Reference to the parent window
69	self.parent = None
70	#Provide list of models existing in the application
71	self.menu_mng = models.ModelManager()
72	## List of panels for the simulation perspective (names)
73	self.perspective = []
74	#list of panel to send to guiframe
75	self.mypanels=[]
76	# reference to the current running thread
77	self.calc_2D= None
78	self.calc_1D= None
79	self.calc_fit= None
80
81	# Start with a good default
82	self.elapsed = 0.022
83	# the type of optimizer selected, park or scipy
84	self.fitter = None
85	#let fit ready
86	self.fitproblem_count = None
87	#Flag to let the plug-in know that it is running stand alone
88	self.standalone=True
89	## dictionary of page closed and id
90	self.closed_page_dict ={}
91	## Fit engine
92	self._fit_engine = 'scipy'
93	#List of selected data
94	self.selected_data_list=[]
95	## list of slicer panel created to display slicer parameters and results
96	self.slicer_panels=[]
97	# Log startup
98	logging.info("Fitting plug-in started")
99	# model 2D view
100	self.model2D_id=None
101	#keep reference of the simultaneous fit page
102	self.sim_page=None
103	#dictionary containing data name and error on dy of that data
104	self.err_dy = {}
105
106
107
108	def populate_menu(self, id, owner):
109	"""
110	Create a menu for the Fitting plug-in
111	@param id: id to create a menu
112	@param owner: owner of menu
113	@ return : list of information to populate the main menu
114	"""
115	#Menu for fitting
116	self.menu1 = wx.Menu()
117
118	#Set park engine
119	id3 = wx.NewId()
120	scipy_help= "Scipy Engine: Perform Simple fit. More in Help window...."
121	self.menu1.AppendCheckItem(id3, "Simple Fit [Scipy]",scipy_help)
122	wx.EVT_MENU(owner, id3, self._onset_engine_scipy)
123
124	id3 = wx.NewId()
125	park_help = "Park Engine: Perform Complex fit. More in Help window...."
126	self.menu1.AppendCheckItem(id3, "Complex Fit [Park]",park_help)
127	wx.EVT_MENU(owner, id3, self._onset_engine_park)
128
129	self.menu1.FindItemByPosition(0).Check(True)
130	self.menu1.FindItemByPosition(1).Check(False)
131
132	self.menu1.AppendSeparator()
133	id1 = wx.NewId()
134	simul_help = "Allow to edit fit engine with multiple model and data"
135	self.menu1.Append(id1, '&Simultaneous Page',simul_help)
136	wx.EVT_MENU(owner, id1, self.on_add_sim_page)
137
138	#menu for model
139	menu2 = wx.Menu()
140	self.menu_mng.populate_menu(menu2, owner)
141	id2 = wx.NewId()
142	owner.Bind(models.EVT_MODEL,self._on_model_menu)
143
144	self.fit_panel.set_owner(owner)
145	self.fit_panel.set_model_list(self.menu_mng.get_model_list())
146	owner.Bind(fitpage.EVT_MODEL_BOX,self._on_model_panel)
147
148	#create menubar items
149	return [(id, self.menu1, "Fitting")]
150
151	def on_add_sim_page(self, event):
152	"""
153	Create a page to access simultaneous fit option
154	"""
155	Plugin.on_perspective(self,event=event)
156	if self.sim_page !=None:
157	msg= "Simultaneous Fit page already opened"
158	wx.PostEvent(self.parent, StatusEvent(status= msg))
159	return
160
161	self.sim_page= self.fit_panel.add_sim_page()
162
163	def help(self, evt):
164	"""
165	Show a general help dialog.
166	TODO: replace the text with a nice image
167	"""
168
169	from help_panel import HelpWindow
170	frame = HelpWindow(None, -1, 'HelpWindow')
171	frame.Show(True)
172
173
174	def get_context_menu(self, graph=None):
175	"""
176	Get the context menu items available for P(r).them allow fitting option
177	for Data2D and Data1D only.
178
179	@param graph: the Graph object to which we attach the context menu
180	@return: a list of menu items with call-back function
181	@note: if Data1D was generated from Theory1D
182	the fitting option is not allowed
183	"""
184	self.graph = graph
185	fit_option = "Select data for fitting"
186	fit_hint = "Dialog with fitting parameters "
187	invariant_option = "Compute Invariant"
188	invariant_hint = "A dialog will appears for further computation"
189	for item in graph.plottables:
190	if item.__class__.__name__ is "Data2D":
191
192	if hasattr(item,"is_data"):
193	if item.is_data:
194	return [[fit_option, fit_hint, self._onSelect]]
195	else:
196	return []
197	return [[fit_option, fit_hint, self._onSelect]]
198	else:
199	if item.name==graph.selected_plottable :
200	if item.name !="$I_{obs}(q)$" and item.name !="$P_{fit}(r)$":
201	if hasattr(item, "group_id"):
202	# if is_data is true , this in an actual data loaded
203	#else it is a data created from a theory model
204	if hasattr(item,"is_data"):
205	if item.is_data:
206	return [[fit_option, fit_hint,
207	self._onSelect],
208	[invariant_option,
209	invariant_hint, self._compute_invariant]]
210	else:
211	return []
212	else:
213	return [[fit_option, fit_hint, self._onSelect],
214	[invariant_option,
215	invariant_hint, self._compute_invariant]]
216	return []
217
218
219	def get_panels(self, parent):
220	"""
221	Create and return a list of panel objects
222	"""
223	self.parent = parent
224	# Creation of the fit panel
225	self.fit_panel = FitPanel(self.parent, -1)
226	#Set the manager for the main panel
227	self.fit_panel.set_manager(self)
228	# List of windows used for the perspective
229	self.perspective = []
230	self.perspective.append(self.fit_panel.window_name)
231	# take care of saving data, model and page associated with each other
232	self.page_finder = {}
233	#index number to create random model name
234	self.index_model = 0
235	self.index_theory= 0
236	self.parent.Bind(EVT_SLICER_PANEL, self._on_slicer_event)
237	self.parent.Bind( ERR_DATA, self._on_data_error)
238	self.parent.Bind(EVT_REMOVE_DATA, self._closed_fitpage)
239	self.parent.Bind(EVT_SLICER_PARS_UPDATE, self._onEVT_SLICER_PANEL)
240	self.parent._mgr.Bind(wx.aui.EVT_AUI_PANE_CLOSE,self._onclearslicer)
241
242
243	#Send the fitting panel to guiframe
244	self.mypanels.append(self.fit_panel)
245	return self.mypanels
246
247
248
249	def get_perspective(self):
250	"""
251	Get the list of panel names for this perspective
252	"""
253	return self.perspective
254
255
256	def on_perspective(self, event):
257	"""
258	Call back function for the perspective menu item.
259	We notify the parent window that the perspective
260	has changed.
261	"""
262	self.parent.set_perspective(self.perspective)
263
264	def post_init(self):
265	"""
266	Post initialization call back to close the loose ends
267	"""
268	# Do not show the fitting perspective immediately and
269	# let the application show the Welcome Page.
270	#self.parent.set_perspective(self.perspective)
271	pass
272
273	def get_tools(self):
274	"""
275	Returns a set of menu entries for tools
276	"""
277	id = wx.NewId()
278	sld_help = "Provides computation related to Scattering Length density"
279	return [("SLD Calculator", sld_help, self.on_calculate_sld)]
280
281	def copy_data(self, item, dy=None):
282	"""
283	receive a data 1D and the list of errors on dy
284	and create a new data1D data
285	@param return
286	"""
287	id = None
288	if hasattr(item,"id"):
289	id = copy.deepcopy(item.id)
290
291	data= Data1D(x=item.x, y=item.y,dx=None, dy=None)
292	data.copy_from_datainfo(item)
293	item.clone_without_data(clone=data)
294	data.dy=dy
295	data.name = item.name
296	## allow to highlight data when plotted
297	data.interactive = copy.deepcopy(item.interactive)
298	## when 2 data have the same id override the 1 st plotted
299	data.id = id
300	data.group_id = item.group_id
301	return data
302
303	def set_fit_range(self, page, qmin, qmax):
304	"""
305	Set the fitting range of a given page
306	"""
307	if page in self.page_finder.iterkeys():
308	fitproblem= self.page_finder[page]
309	fitproblem.set_range(qmin= qmin, qmax= qmax)
310
311	def schedule_for_fit(self,value=0,page=None,fitproblem =None):
312	"""
313	Set the fit problem field to 0 or 1 to schedule that problem to fit.
314	Schedule the specified fitproblem or get the fit problem related to
315	the current page and set value.
316	@param value : integer 0 or 1
317	@param fitproblem: fitproblem to schedule or not to fit
318	"""
319	if fitproblem !=None:
320	fitproblem.schedule_tofit(value)
321	else:
322	if page in self.page_finder.iterkeys():
323	fitproblem= self.page_finder[page]
324	fitproblem.schedule_tofit(value)
325
326	def get_page_finder(self):
327	""" @return self.page_finder used also by simfitpage.py"""
328	return self.page_finder
329
330
331	def set_page_finder(self,modelname,names,values):
332	"""
333	Used by simfitpage.py to reset a parameter given the string constrainst.
334	@param modelname: the name ot the model for with the parameter has to reset
335	@param value: can be a string in this case.
336	@param names: the paramter name
337	@note: expecting park used for fit.
338	"""
339	sim_page= self.sim_page
340	for page, value in self.page_finder.iteritems():
341	if page != sim_page:
342	list=value.get_model()
343	model = list[0]
344	if model.name== modelname:
345	value.set_model_param(names,values)
346	break
347
348	def split_string(self,item):
349	"""
350	receive a word containing dot and split it. used to split parameterset
351	name into model name and parameter name example:
352	paramaterset (item) = M1.A
353	@return model_name =M1 , parameter name =A
354	"""
355	if string.find(item,".")!=-1:
356	param_names= re.split("\.",item)
357	model_name=param_names[0]
358	##Assume max len is 3; eg., M0.radius.width
359	if len(param_names) == 3:
360	param_name=param_names[1]+"."+param_names[2]
361	else:
362	param_name=param_names[1]
363	return model_name,param_name
364
365	def stop_fit(self):
366	"""
367	Stop the fit engine
368	"""
369	if self.calc_fit!= None and self.calc_fit.isrunning():
370	self.calc_fit.stop()
371	wx.PostEvent(self.parent, StatusEvent(status="Fitting \
372	is cancelled" , type="stop"))
373
374	def set_smearer(self,smearer, qmin=None, qmax=None):
375	"""
376	Get a smear object and store it to a fit problem
377	@param smearer: smear object to allow smearing data
378	"""
379	self.current_pg=self.fit_panel.get_current_page()
380	self.page_finder[self.current_pg].set_smearer(smearer)
381	## draw model 1D with smeared data
382	data = self.page_finder[self.current_pg].get_plotted_data()
383	model = self.page_finder[self.current_pg].get_model()
384	## if user has already selected a model to plot
385	## redraw the model with data smeared
386
387	smear =self.page_finder[self.current_pg].get_smearer()
388	if model!= None:
389	self.draw_model( model=model, data= data, smearer= smear,
390	qmin= qmin, qmax= qmax)
391
392	def draw_model(self, model, data= None,smearer= None,
393	enable1D= True, enable2D= False,
394	qmin= DEFAULT_QMIN, qmax= DEFAULT_QMAX, qstep= DEFAULT_NPTS):
395	"""
396	Draw model.
397	@param model: the model to draw
398	@param name: the name of the model to draw
399	@param data: the data on which the model is based to be drawn
400	@param description: model's description
401	@param enable1D: if true enable drawing model 1D
402	@param enable2D: if true enable drawing model 2D
403	@param qmin: Range's minimum value to draw model
404	@param qmax: Range's maximum value to draw model
405	@param qstep: number of step to divide the x and y-axis
406
407	"""
408	## draw model 1D with no loaded data
409	self._draw_model1D( model= model, data= data,enable1D=enable1D, smearer= smearer,
410	qmin= qmin, qmax= qmax, qstep= qstep )
411	## draw model 2D with no initial data
412	self._draw_model2D(model=model,
413	data = data,
414	enable2D= enable2D,
415	qmin=qmin,
416	qmax=qmax,
417	qstep=qstep)
418
419	def onFit(self):
420	"""
421	perform fit
422	"""
423	## count the number of fitproblem schedule to fit
424	fitproblem_count= 0
425	for value in self.page_finder.itervalues():
426	if value.get_scheduled()==1:
427	fitproblem_count += 1
428
429	## if simultaneous fit change automatically the engine to park
430	if fitproblem_count >1:
431	self._on_change_engine(engine='park')
432
433	self.fitproblem_count = fitproblem_count
434
435	from sans.fit.Fitting import Fit
436	self.fitter= Fit(self._fit_engine)
437
438	if self._fit_engine=="park":
439	engineType="Simultaneous Fit"
440	else:
441	engineType="Single Fit"
442
443	fproblemId = 0
444	self.current_pg=None
445	for page, value in self.page_finder.iteritems():
446	try:
447	if value.get_scheduled()==1:
448	#Get list of parameters name to fit
449	pars = []
450	templist = []
451	templist = page.get_param_list()
452	for element in templist:
453	name = str(element[1])
454	pars.append(name)
455	#Set Engine (model , data) related to the page on
456	self._fit_helper( value=value,pars=pars,
457	id=fproblemId, title= engineType )
458	fproblemId += 1
459	self.current_pg= page
460	except:
461	msg= "%s error: %s" % (engineType,sys.exc_value)
462	wx.PostEvent(self.parent, StatusEvent(status= msg ))
463	return
464
465	#Do the simultaneous fit
466	try:
467	## If a thread is already started, stop it
468	#if self.calc_fit!= None and self.calc_fit.isrunning():
469	# self.calc_fit.stop()
470
471	wx.PostEvent(self.parent, StatusEvent(status="Start the computation",
472	curr_thread=self.calc_fit,type="start"))
473	time.sleep(0.5)
474	wx.PostEvent(self.parent, StatusEvent(status="Computing...",
475	curr_thread=self.calc_fit,type="progress"))
476	time.sleep(0.5)
477	## perform single fit
478	if fitproblem_count == 1:
479	#qmin, qmax= self.current_pg.get_range()
480	print "went here fitproblem_count == 1",fitproblem_count == 1
481	calc_fit=FitThread(parent =self.parent,
482	fn= self.fitter,
483	cpage=self.current_pg,
484	pars= pars,
485	completefn= self._single_fit_completed,
486	updatefn=self._updateFit)
487
488
489	else:
490	## Perform more than 1 fit at the time
491	calc_fit=FitThread(parent =self.parent,
492	fn= self.fitter,
493	completefn= self._simul_fit_completed,
494	updatefn=self._updateFit)
495
496	calc_fit.queue()
497	self.ready_fit(calc_fit=calc_fit)
498
499	except FitAbort:
500	print "in pluging"
501	except:
502	msg= "%s error: %s" % (engineType,sys.exc_value)
503	wx.PostEvent(self.parent, StatusEvent(status= msg ,type="stop"))
504	return
505
506	def ready_fit(self, calc_fit):
507	"""
508	Ready for another fit
509	"""
510	if self.fitproblem_count != None and self.fitproblem_count > 1:
511	calc_fit.ready(2.5)
512
513	else:
514	time.sleep(0.4)
515
516	def on_calculate_sld(self, event):
517	"""
518	Compute the scattering length density of molecula
519	"""
520
521	import sld_panel
522	frame = sld_panel.SldWindow(base=self.parent)
523	frame.Show(True)
524
525
526	def _onEVT_SLICER_PANEL(self, event):
527	"""
528	receive and event telling to update a panel with a name starting with
529	event.panel_name. this method update slicer panel for a given interactor.
530	@param event: contains type of slicer , paramaters for updating the panel
531	and panel_name to find the slicer 's panel concerned.
532	"""
533
534	for item in self.parent.panels:
535	if self.parent.panels[item].window_caption.startswith(event.panel_name):
536	self.parent.panels[item].set_slicer(event.type, event.params)
537
538	self.parent._mgr.Update()
539
540	def _compute_invariant(self, event):
541	"""
542	Open the invariant panel to invariant computation
543	"""
544	self.panel = event.GetEventObject()
545	Plugin.on_perspective(self,event=event)
546	for plottable in self.panel.graph.plottables:
547	if plottable.name == self.panel.graph.selected_plottable:
548	data = self.copy_data(item= plottable, dy=plottable.dy)
549
550	from invariant_panel import InvariantWindow
551	frame = InvariantWindow(base=self.parent, data=plottable, graph=self.panel.graph)
552	frame.Show(True)
553
554	def _closed_fitpage(self, event):
555	"""
556	request fitpanel to close a given page when its unique data is removed
557	from the plot
558	"""
559	self.fit_panel._close_fitpage(event.data)
560
561	def _add_page_onmenu(self, name,fitproblem=None):
562	"""
563	Add name of a closed page of fitpanel in a menu
564	"""
565	list = self.menu1.GetMenuItems()
566	for item in list:
567	if name == item.GetItemLabel():
568	self.closed_page_dict[name][1] = fitproblem
569
570	if not name in self.closed_page_dict.keys():
571	# Post paramters
572	event_id = wx.NewId()
573	self.menu1.Append(event_id, name, "Show %s fit panel" % name)
574	self.closed_page_dict[name]= [event_id, fitproblem]
575	wx.EVT_MENU(self.parent,event_id, self._open_closed_page)
576
577
578	def _open_closed_page(self, event):
579	"""
580	reopen a closed page
581	"""
582	for name, value in self.closed_page_dict.iteritems():
583	if event.GetId() in value:
584	id,fitproblem = value
585	if name !="Model":
586	data= fitproblem.get_fit_data()
587	page = self.fit_panel.add_fit_page(data= data,reset=True)
588	if fitproblem != None:
589	self.page_finder[page]=fitproblem
590	if self.sim_page != None:
591	self.sim_page.draw_page()
592
593	else:
594	model = fitproblem
595	self.fit_panel.add_model_page(model=model, topmenu=True,
596	reset= True)
597	break
598
599
600	def _reset_schedule_problem(self, value=0):
601	"""
602	unschedule or schedule all fitproblem to be fit
603	"""
604	for page, fitproblem in self.page_finder.iteritems():
605	fitproblem.schedule_tofit(value)
606
607	def _fit_helper(self,pars,value, id, title="Single Fit " ):
608	"""
609	helper for fitting
610	"""
611	metadata = value.get_fit_data()
612	model = value.get_model()
613	smearer = value.get_smearer()
614	qmin , qmax = value.get_range()
615	self.fit_id =id
616	#Create list of parameters for fitting used
617	templist=[]
618
619	try:
620	#Extra list of parameters and their constraints
621	listOfConstraint= []
622
623	param = value.get_model_param()
624	if len(param)>0:
625	for item in param:
626	## check if constraint
627	if item[0] !=None and item[1] != None:
628	listOfConstraint.append((item[0],item[1]))
629
630	#Do the single fit
631	self.fitter.set_model(model, self.fit_id,
632	pars,constraints = listOfConstraint)
633
634	self.fitter.set_data(data=metadata,Uid=self.fit_id,
635	smearer=smearer,qmin= qmin,qmax=qmax )
636	print "self.fitter.set_data"
637	self.fitter.select_problem_for_fit(Uid= self.fit_id,
638	value= value.get_scheduled())
639	value.clear_model_param()
640	except:
641	msg= title +" error: %s" % sys.exc_value
642	wx.PostEvent(self.parent, StatusEvent(status= msg, type="stop"))
643	return
644
645	def _onSelect(self,event):
646	"""
647	when Select data to fit a new page is created .Its reference is
648	added to self.page_finder
649	"""
650	self.panel = event.GetEventObject()
651	Plugin.on_perspective(self,event=event)
652	for plottable in self.panel.graph.plottables:
653	if plottable.name == self.panel.graph.selected_plottable:
654	#if not hasattr(plottable, "is_data"):
655
656	if plottable.__class__.__name__=="Theory1D":
657	dy=numpy.zeros(len(plottable.y))
658	if hasattr(plottable, "dy"):
659	dy= copy.deepcopy(plottable.dy)
660
661	item= self.copy_data(plottable, dy)
662	item.group_id += "data1D"
663	item.id +="data1D"
664	item.is_data= False
665	title = item.name
666	wx.PostEvent(self.parent, NewPlotEvent(plot=item, title=str(title)))
667	else:
668	item= self.copy_data(plottable, plottable.dy)
669	item.is_data=True
670
671	## put the errors values back to the model if the errors were hiden
672	## before sending them to the fit engine
673	if len(self.err_dy)>0:
674	if item.name in self.err_dy.iterkeys():
675	dy= self.err_dy[item.name]
676	data= self.copy_data(item, dy)
677	data.is_data= item.is_data
678	else:
679	data= self.copy_data(item, item.dy)
680	data.is_data= item.is_data
681
682
683	else:
684	if item.dy==None:
685	dy= numpy.zeros(len(item.y))
686	data= self.copy_data(item, dy)
687	data.is_data=item.is_data
688	else:
689	data= self.copy_data(item,item.dy)
690	data.is_data=item.is_data
691
692	else:
693	if plottable.__class__.__name__ !="Data2D":
694	return
695	## Data2D case
696	if not hasattr(plottable, "is_data"):
697	item= copy.deepcopy(plottable)
698	item.group_id += "data2D"
699	item.id +="data2D"
700	item.is_data= False
701	title = item.name
702	title += " Fit"
703	data = item
704	wx.PostEvent(self.parent, NewPlotEvent(plot=item, title=str(title)))
705	else:
706	item= copy.deepcopy(plottable )
707	data= copy.deepcopy(plottable )
708	item.is_data=True
709	data.is_data=True
710
711
712	## create anew page
713	if item.name == self.panel.graph.selected_plottable or\
714	item.__class__.__name__ is "Data2D":
715	try:
716	page = self.fit_panel.add_fit_page(data)
717	page.set_data(data)
718	# add data associated to the page created
719	if page != None:
720	#create a fitproblem storing all link to data,model,page creation
721	if not page in self.page_finder.keys():
722	self.page_finder[page]= FitProblem()
723	## item is almost the same as data but contains
724	## axis info for plotting
725	self.page_finder[page].add_plotted_data(item)
726	self.page_finder[page].add_fit_data(data)
727
728	wx.PostEvent(self.parent, StatusEvent(status="Page Created"))
729	else:
730	wx.PostEvent(self.parent, StatusEvent(status="Page was already Created"))
731	except:
732	wx.PostEvent(self.parent, StatusEvent(status="Creating Fit page: %s"\
733	%sys.exc_value))
734	return
735
736
737	def _updateFit(self):
738	"""
739	Is called when values of result are available
740	"""
741	##Sending a progess message to the status bar
742	wx.PostEvent(self.parent, StatusEvent(status="Computing..."))
743
744	def _single_fit_completed(self,result,pars,cpage, elapsed=None):
745	"""
746	Display fit result on one page of the notebook.
747	@param result: result of fit
748	@param pars: list of names of parameters fitted
749	@param current_pg: the page where information will be displayed
750	@param qmin: the minimum value of x to replot the model
751	@param qmax: the maximum value of x to replot model
752
753	"""
754	try:
755	if result ==None:
756	msg= "Simple Fitting Stop !!!"
757	wx.PostEvent(self.parent, StatusEvent(status=msg,type="stop"))
758	return
759	if not numpy.isfinite(result.fitness) or numpy.any(result.pvec ==None )or not numpy.all(numpy.isfinite(result.pvec) ):
760	msg= "Single Fitting did not converge!!!"
761	wx.PostEvent(self.parent, StatusEvent(status=msg,type="stop"))
762	return
763	for page, value in self.page_finder.iteritems():
764	if page==cpage :
765	model= value.get_model()
766	break
767	param_name = []
768	i = 0
769	for name in pars:
770	param_name.append(name)
771
772	cpage.onsetValues(result.fitness,param_name, result.pvec,result.stderr)
773
774	except:
775	msg= "Single Fit completed but Following error occurred:%s"% sys.exc_value
776	wx.PostEvent(self.parent, StatusEvent(status=msg,type="stop"))
777	return
778
779
780	def _simul_fit_completed(self,result,pars=None,cpage=None, elapsed=None):
781	"""
782	Parameter estimation completed,
783	display the results to the user
784	@param alpha: estimated best alpha
785	@param elapsed: computation time
786	"""
787	## fit more than 1 model at the same time
788	try:
789	msg = ""
790	if result ==None:
791	msg= "Complex Fitting Stop !!!"
792	wx.PostEvent(self.parent, StatusEvent(status=msg,type="stop"))
793	return
794	if not numpy.isfinite(result.fitness) or numpy.any(result.pvec ==None )or not numpy.all(numpy.isfinite(result.pvec) ):
795	msg= "Single Fitting did not converge!!!"
796	wx.PostEvent(self.parent, StatusEvent(status=msg,type="stop"))
797	return
798
799	for page, value in self.page_finder.iteritems():
800	"""
801	if format_number(result.fitness) == page.get_chi2():
802	#ToDo: Compare parameter inputs with outputs too.
803	wx.PostEvent(self.parent, StatusEvent(status="%s " % msg))
804	break
805	"""
806	if value.get_scheduled()==1:
807	model = value.get_model()
808	metadata = value.get_plotted_data()
809	small_param_name = []
810	small_out = []
811	small_cov = []
812	i = 0
813	#Separate result in to data corresponding to each page
814	for p in result.parameters:
815	model_name,param_name = self.split_string(p.name)
816	if model.name == model_name:
817	p_name= model.name+"."+param_name
818	if p.name == p_name:
819	if p.value != None and numpy.isfinite(p.value):
820	small_out.append(p.value )
821	small_param_name.append(param_name)
822	small_cov.append(p.stderr)
823
824	# Display result on each page
825	page.onsetValues(result.fitness, small_param_name,small_out,small_cov)
826	except:
827	msg= "Simultaneous Fit completed"
828	msg +=" but Following error occurred:%s"%sys.exc_value
829	wx.PostEvent(self.parent, StatusEvent(status=msg,type="stop"))
830	return
831
832
833
834	def _on_show_panel(self, event):
835	print "_on_show_panel: fitting"
836
837
838	def _onset_engine_park(self,event):
839	"""
840	set engine to park
841	"""
842	Plugin.on_perspective(self,event=event)
843	self._on_change_engine('park')
844
845
846	def _onset_engine_scipy(self,event):
847	"""
848	set engine to scipy
849	"""
850	self._on_change_engine('scipy')
851
852	def _on_slicer_event(self, event):
853	"""
854	Receive a panel as event and send it to guiframe
855	@param event: event containing a panel
856	"""
857
858	if event.panel!=None:
859	new_panel = event.panel
860	self.slicer_panels.append(event.panel)
861	# Set group ID if available
862	event_id = self.parent.popup_panel(new_panel)
863	#self.menu3.Append(event_id, new_panel.window_caption,
864	# "Show %s plot panel" % new_panel.window_caption)
865	# Set UID to allow us to reference the panel later
866
867	new_panel.uid = event_id
868	self.mypanels.append(new_panel)
869	return
870
871	def _onclearslicer(self, event):
872	"""
873	Clear the boxslicer when close the panel associate with this slicer
874	"""
875	name =event.GetPane().caption
876
877	for panel in self.slicer_panels:
878	if panel.window_caption==name:
879
880	for item in self.parent.panels:
881	if hasattr(self.parent.panels[item],"uid"):
882	if self.parent.panels[item].uid ==panel.base.uid:
883	self.parent.panels[item].onClearSlicer(event)
884	self.parent._mgr.Update()
885	break
886	break
887
888
889
890
891	def _return_engine_type(self):
892	"""
893	return the current type of engine
894	"""
895	return self._fit_engine
896
897
898	def _on_change_engine(self, engine='park'):
899	"""
900	Allow to select the type of engine to perform fit
901	@param engine: the key work of the engine
902	"""
903
904	## saving fit engine name
905	self._fit_engine = engine
906	## change menu item state
907	if engine=="park":
908	self.menu1.FindItemByPosition(0).Check(False)
909	self.menu1.FindItemByPosition(1).Check(True)
910	else:
911	self.menu1.FindItemByPosition(0).Check(True)
912	self.menu1.FindItemByPosition(1).Check(False)
913
914	## post a message to status bar
915	wx.PostEvent(self.parent, StatusEvent(status="Engine set to: %s" % self._fit_engine))
916
917	## Bind every open fit page with a newevent to know the current fitting engine
918	import fitpage
919	event= fitpage.FitterTypeEvent()
920	event.type = self._fit_engine
921	for key in self.page_finder.keys():
922	wx.PostEvent(key, event)
923
924
925	def _on_model_panel(self, evt):
926	"""
927	react to model selection on any combo box or model menu.plot the model
928	@param evt: wx.combobox event
929	"""
930	model = evt.model
931
932	if model == None:
933	return
934	model.origin_name = model.name
935	self.current_pg = self.fit_panel.get_current_page()
936	## make sure nothing is done on self.sim_page
937	## example trying to call set_panel on self.sim_page
938	if self.current_pg != self.sim_page :
939
940	if self.page_finder[self.current_pg].get_model()== None :
941
942	model.name="M"+str(self.index_model)
943	self.index_model += 1
944	else:
945	model.name= self.page_finder[self.current_pg].get_model().name
946
947	metadata = self.page_finder[self.current_pg].get_plotted_data()
948
949	# save the name containing the data name with the appropriate model
950	self.page_finder[self.current_pg].set_model(model)
951	qmin, qmax= self.current_pg.get_range()
952	self.page_finder[self.current_pg].set_range(qmin=qmin, qmax=qmax)
953	smearer= self.page_finder[self.current_pg].get_smearer()
954	# save model name
955	self.draw_model( model=model,smearer=smearer,
956	data= metadata, qmin=qmin, qmax=qmax)
957
958	if self.sim_page!=None:
959	self.sim_page.draw_page()
960
961
962
963	def _on_model_menu(self, evt):
964	"""
965	Plot a theory from a model selected from the menu
966	@param evt: wx.menu event
967	"""
968	model = evt.model
969	Plugin.on_perspective(self,event=evt)
970	# Create a model page. If a new page is created, the model
971	# will be plotted automatically. If a page already exists,
972	# the content will be updated and the plot refreshed
973	self.fit_panel.add_model_page(model,topmenu=True)
974
975
976
977
978	def _update1D(self,x, output):
979	"""
980	Update the output of plotting model 1D
981	"""
982	wx.PostEvent(self.parent, StatusEvent(status="Plot \
983	#updating ... ",type="update"))
984	self.ready_fit()
985	#self.calc_thread.ready(0.01)
986
987
988	def _fill_default_model2D(self, theory, qmax,qstep, qmin=None):
989	"""
990	fill Data2D with default value
991	@param theory: Data2D to fill
992	"""
993	from DataLoader.data_info import Detector, Source
994
995	detector = Detector()
996	theory.detector.append(detector)
997
998	theory.detector[0].distance=1e+32
999	theory.source= Source()
1000	theory.source.wavelength=2*math.pi/1e+32
1001
1002	## Create detector for Model 2D
1003	xmax=2theory.detector[0].distancemath.atan(\
1004	qmax/(4*math.pi/theory.source.wavelength))
1005
1006	theory.detector[0].pixel_size.x= xmax/(qstep/2-0.5)
1007	theory.detector[0].pixel_size.y= xmax/(qstep/2-0.5)
1008	theory.detector[0].beam_center.x= qmax
1009	theory.detector[0].beam_center.y= qmax
1010	## create x_bins and y_bins of the model 2D
1011	distance = theory.detector[0].distance
1012	pixel = qstep/2-1
1013	theta = pixel / distance / qstep#100.0
1014	wavelength = theory.source.wavelength
1015	pixel_width_x = theory.detector[0].pixel_size.x
1016	pixel_width_y = theory.detector[0].pixel_size.y
1017	center_x = theory.detector[0].beam_center.x/pixel_width_x
1018	center_y = theory.detector[0].beam_center.y/pixel_width_y
1019
1020
1021	size_x, size_y= numpy.shape(theory.data)
1022	for i_x in range(size_x):
1023	theta = (i_x-center_x)*pixel_width_x / distance
1024	qx = 4.0math.pi/wavelength math.tan(theta/2.0)
1025	theory.x_bins.append(qx)
1026	for i_y in range(size_y):
1027	theta = (i_y-center_y)*pixel_width_y / distance
1028	qy =4.0math.pi/wavelength math.tan(theta/2.0)
1029	theory.y_bins.append(qy)
1030
1031	theory.group_id ="Model"
1032	theory.id ="Model"
1033	## determine plot boundaries
1034	theory.xmin= -qmax
1035	theory.xmax= qmax
1036	theory.ymin= -qmax
1037	theory.ymax= qmax
1038
1039
1040	def _get_plotting_info(self, data=None):
1041	"""
1042	get plotting info from data if data !=None
1043	else use some default
1044	"""
1045	my_info = PlotInfo()
1046	if data !=None:
1047	if hasattr(data,"info"):
1048	x_name, x_units = data.get_xaxis()
1049	y_name, y_units = data.get_yaxis()
1050
1051	my_info._xunit = x_units
1052	my_info._xaxis = x_name
1053	my_info._yunit = y_units
1054	my_info._yaxis = y_name
1055
1056	my_info.title= data.name
1057	if hasattr(data, "info"):
1058	my_info.info= data.info
1059	if hasattr(data, "group_id"):
1060	my_info.group_id= data.group_id
1061
1062	return my_info
1063
1064
1065	def _complete1D(self, x,y, elapsed,model,data=None):
1066	"""
1067	Complete plotting 1D data
1068	"""
1069	try:
1070	new_plot = Theory1D(x=x, y=y)
1071	my_info = self._get_plotting_info( data)
1072	new_plot.name = model.name
1073	new_plot.id = my_info.id
1074	new_plot.group_id = my_info.group_id
1075
1076	new_plot.xaxis( my_info._xaxis, my_info._xunit)
1077	new_plot.yaxis( my_info._yaxis, my_info._yunit)
1078	if data!=None:
1079	if new_plot.id == data.id:
1080	new_plot.id += "Model"
1081	new_plot.is_data =False
1082
1083	title= new_plot.name
1084	#new_plot.perspective = self.get_perspective()
1085	# Pass the reset flag to let the plotting event handler
1086	# know that we are replacing the whole plot
1087	if title== None:
1088	title = "Analytical model 1D "
1089	if data ==None:
1090	wx.PostEvent(self.parent, NewPlotEvent(plot=new_plot,
1091	title=str(title), reset=True))
1092	else:
1093	wx.PostEvent(self.parent, NewPlotEvent(plot=new_plot,
1094	title= str(title)))
1095	msg = "Plot 1D complete !"
1096	wx.PostEvent( self.parent, StatusEvent( status= msg , type="stop" ))
1097	except:
1098	msg= " Error occurred when drawing %s Model 1D: "%new_plot.name
1099	msg+= " %s"%sys.exc_value
1100	wx.PostEvent( self.parent, StatusEvent(status= msg, type="stop" ))
1101	return
1102
1103	def _update2D(self, output,time=None):
1104	"""
1105	Update the output of plotting model
1106	"""
1107	wx.PostEvent(self.parent, StatusEvent(status="Plot \
1108	#updating ... ",type="update"))
1109	self.ready_fit()
1110	#self.calc_thread.ready(0.01)
1111
1112
1113	def _complete2D(self, image,data, model, elapsed,qmin, qmax,qstep=DEFAULT_NPTS):
1114	"""
1115	Complete get the result of modelthread and create model 2D
1116	that can be plot.
1117	"""
1118	err_image = numpy.zeros(numpy.shape(image))
1119
1120	theory= Data2D(image= image , err_image= err_image)
1121	theory.name= model.name
1122
1123	if data ==None:
1124	self._fill_default_model2D(theory= theory, qmax=qmax,qstep=qstep, qmin= qmin)
1125
1126	else:
1127	theory.id= data.id+"Model"
1128	theory.group_id= data.name+"Model"
1129	theory.x_bins= data.x_bins
1130	theory.y_bins= data.y_bins
1131	theory.detector= data.detector
1132	theory.source= data.source
1133	theory.is_data =False
1134	## plot boundaries
1135	theory.ymin= data.ymin
1136	theory.ymax= data.ymax
1137	theory.xmin= data.xmin
1138	theory.xmax= data.xmax
1139
1140
1141	## plot
1142	wx.PostEvent(self.parent, NewPlotEvent(plot=theory,
1143	title="Analytical model 2D ", reset=True ))
1144	msg = "Plot 2D complete !"
1145	wx.PostEvent( self.parent, StatusEvent( status= msg , type="stop" ))
1146
1147	def _on_data_error(self, event):
1148	"""
1149	receives and event from plotting plu-gins to store the data name and
1150	their errors of y coordinates for 1Data hide and show error
1151	"""
1152	self.err_dy= event.err_dy
1153
1154
1155	def _draw_model2D(self,model,data=None,description=None, enable2D=False,
1156	qmin=DEFAULT_QMIN, qmax=DEFAULT_QMAX, qstep=DEFAULT_NPTS):
1157	"""
1158	draw model in 2D
1159	@param model: instance of the model to draw
1160	@param description: the description of the model
1161	@param enable2D: when True allows to draw model 2D
1162	@param qmin: the minimum value to draw model 2D
1163	@param qmax: the maximum value to draw model 2D
1164	@param qstep: the number of division of Qx and Qy of the model to draw
1165
1166	"""
1167	x= numpy.linspace(start= -1*qmax,
1168	stop= qmax,
1169	num= qstep,
1170	endpoint=True )
1171	y = numpy.linspace(start= -1*qmax,
1172	stop= qmax,
1173	num= qstep,
1174	endpoint=True )
1175	## use data info instead
1176	if data !=None:
1177	## check if data2D to plot
1178	if hasattr(data, "x_bins"):
1179	enable2D = True
1180	x= data.x_bins
1181	y= data.y_bins
1182
1183	if not enable2D:
1184	return
1185	try:
1186	from model_thread import Calc2D
1187	## If a thread is already started, stop it
1188	if self.calc_2D != None and self.calc_2D.isrunning():
1189	self.calc_2D.stop()
1190	self.calc_2D = Calc2D( x= x,
1191	y= y,
1192	model= model,
1193	data = data,
1194	qmin= qmin,
1195	qmax= qmax,
1196	qstep= qstep,
1197	completefn= self._complete2D,
1198	updatefn= self._update2D )
1199	self.calc_2D.queue()
1200
1201	except:
1202	msg= " Error occurred when drawing %s Model 2D: "%model.name
1203	msg+= " %s"%sys.exc_value
1204	wx.PostEvent( self.parent, StatusEvent(status= msg ))
1205	return
1206
1207	def _draw_model1D(self, model, data=None, smearer= None,
1208	qmin=DEFAULT_QMIN, qmax=DEFAULT_QMAX, qstep= DEFAULT_NPTS,enable1D= True):
1209	"""
1210	Draw model 1D from loaded data1D
1211	@param data: loaded data
1212	@param model: the model to plot
1213	"""
1214	x= numpy.linspace(start= qmin,
1215	stop= qmax,
1216	num= qstep,
1217	endpoint=True
1218	)
1219	if data!=None:
1220	## check for data2D
1221	if hasattr(data,"x_bins"):
1222	return
1223	x = data.x
1224	if qmin == DEFAULT_QMIN :
1225	qmin = min(data.x)
1226	if qmax == DEFAULT_QMAX:
1227	qmax = max(data.x)
1228
1229
1230	if not enable1D:
1231	return
1232
1233	try:
1234	from model_thread import Calc1D
1235	## If a thread is already started, stop it
1236	if self.calc_1D!= None and self.calc_1D.isrunning():
1237	self.calc_1D.stop()
1238	self.calc_1D= Calc1D( x= x,
1239	data = data,
1240	model= model,
1241	qmin = qmin,
1242	qmax = qmax,
1243	smearer = smearer,
1244	completefn = self._complete1D,
1245	updatefn = self._update1D )
1246	self.calc_1D.queue()
1247
1248	except:
1249	msg= " Error occurred when drawing %s Model 1D: "%model.name
1250	msg+= " %s"%sys.exc_value
1251	wx.PostEvent( self.parent, StatusEvent(status= msg ))
1252	return
1253
1254
1255	def profile(fn, args, *kw):
1256	import cProfile, pstats, os
1257	global call_result
1258	def call():
1259	global call_result
1260	call_result = fn(args, *kw)
1261	cProfile.runctx('call()', dict(call=call), {}, 'profile.out')
1262	stats = pstats.Stats('profile.out')
1263	stats.sort_stats('time')
1264	#stats.sort_stats('calls')
1265	stats.print_stats()
1266	os.unlink('profile.out')
1267	return call_result
1268	if __name__ == "__main__":
1269	i = Plugin()
1270
1271
1272
1273

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SasView

source: sasview/sansview/perspectives/fitting/fitting.py @ 25e3fc9

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