fitting.py @ 54905de

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 54905de was 54905de, checked in by Jae Cho <jhjcho@…>, 15 years ago
reversed the last change causing another problem
Property mode set to `100644`
File size: 42.5 KB

Line
1	import re
2	import sys, wx, logging
3	import string, numpy, math
4
5	from copy import deepcopy
6	from danse.common.plottools.plottables import Data1D, Theory1D,Data2D
7	from danse.common.plottools.PlotPanel import PlotPanel
8	from sans.guicomm.events import NewPlotEvent, StatusEvent
9	from sans.guicomm.events import EVT_SLICER_PANEL,ERR_DATA
10
11	from sans.fit.AbstractFitEngine import Model,FitData1D,FitData2D#,Data,
12	from fitproblem import FitProblem
13	from fitpanel import FitPanel
14	from fit_thread import FitThread
15	import models
16	import fitpage1D
17
18	DEFAULT_BEAM = 0.005
19	DEFAULT_QMIN = 0.0
20	DEFAULT_QMAX = 0.1
21	DEFAULT_NPTS = 50
22	import time
23	import thread
24
25	class Plugin:
26	"""
27	Fitting plugin is used to perform fit
28	"""
29	def __init__(self):
30	## Plug-in name
31	self.sub_menu = "Fitting"
32
33	## Reference to the parent window
34	self.parent = None
35	#Provide list of models existing in the application
36	self.menu_mng = models.ModelManager()
37	## List of panels for the simulation perspective (names)
38	self.perspective = []
39	#list of panel to send to guiframe
40	self.mypanels=[]
41	# reference to the current running thread
42	self.calc_thread = None
43	# Start with a good default
44	self.elapsed = 0.022
45	# the type of optimizer selected, park or scipy
46	self.fitter = None
47	#Flag to let the plug-in know that it is running stand alone
48	self.standalone=True
49	## Fit engine
50	self._fit_engine = 'scipy'
51	#List of selected data
52	self.selected_data_list=[]
53	# Log startup
54	logging.info("Fitting plug-in started")
55	# model 2D view
56	self.model2D_id=None
57	#keep reference of the simultaneous fit page
58	self.sim_page=None
59	#dictionary containing data name and error on dy of that data
60	self.err_dy={}
61
62	def _on_data_error(self, event):
63	"""
64	receives and event from plotting plu-gins to store the data name and
65	their errors of y coordinates for 1Data hide and show error
66	"""
67	self.err_dy= event.err_dy
68
69	def populate_menu(self, id, owner):
70	"""
71	Create a menu for the Fitting plug-in
72	@param id: id to create a menu
73	@param owner: owner of menu
74	@ return : list of information to populate the main menu
75	"""
76	#Menu for fitting
77	self.menu1 = wx.Menu()
78	id1 = wx.NewId()
79	self.menu1.Append(id1, '&Simultaneous')
80	wx.EVT_MENU(owner, id1, self.on_add_sim_page)
81	#Set park engine
82	id3 = wx.NewId()
83	self.menu1.AppendCheckItem(id3, "park")
84	wx.EVT_MENU(owner, id3, self._onset_engine)
85
86	#menu for model
87	menu2 = wx.Menu()
88
89	self.menu_mng.populate_menu(menu2, owner)
90	id2 = wx.NewId()
91	owner.Bind(models.EVT_MODEL,self._on_model_menu)
92
93	self.fit_panel.set_owner(owner)
94	self.fit_panel.set_model_list(self.menu_mng.get_model_list())
95	owner.Bind(fitpage1D.EVT_MODEL_BOX,self._on_model_panel)
96
97	#create menubar items
98	return [(id, self.menu1, "Fitting"),(id2, menu2, "Model")]
99
100	def on_add_sim_page(self, event):
101	"""
102	"""
103	self.sim_page= self.fit_panel.add_sim_page()
104	self.sim_page.add_model(self.page_finder)
105
106
107	def help(self, evt):
108	"""
109	Show a general help dialog.
110	TODO: replace the text with a nice image
111	"""
112	#from helpDialog import HelpWindow
113	#dialog = HelpWindow(None, -1, 'HelpWindow')
114	#if dialog.ShowModal() == wx.ID_OK:
115	# pass
116	#dialog.Destroy()
117	from helpPanel import HelpWindow
118	frame = HelpWindow(None, -1, 'HelpWindow')
119	frame.Show(True)
120
121
122	def get_context_menu(self, graph=None):
123	"""
124	Get the context menu items available for P(r)
125	@param graph: the Graph object to which we attach the context menu
126	@return: a list of menu items with call-back function
127	"""
128	self.graph=graph
129	for item in graph.plottables:
130	if item.__class__.__name__ is "Data2D":
131	return [["Select data for Fitting",\
132	"Dialog with fitting parameters ", self._onSelect]]
133	else:
134	#if item.name==graph.selected_plottable and\
135	# item.__class__.__name__ is "Data1D":
136	if item.name==graph.selected_plottable :
137	return [["Select data for Fitting", \
138	"Dialog with fitting parameters ", self._onSelect]]
139	return []
140
141
142	def get_panels(self, parent):
143	"""
144	Create and return a list of panel objects
145	"""
146	self.parent = parent
147	# Creation of the fit panel
148	self.fit_panel = FitPanel(self.parent, -1)
149	#Set the manager forthe main panel
150	self.fit_panel.set_manager(self)
151	# List of windows used for the perspective
152	self.perspective = []
153	self.perspective.append(self.fit_panel.window_name)
154	# take care of saving data, model and page associated with each other
155	self.page_finder = {}
156	#index number to create random model name
157	self.index_model = 0
158	self.index_theory= 0
159	self.parent.Bind(EVT_SLICER_PANEL, self._on_slicer_event)
160	self.parent.Bind( ERR_DATA, self._on_data_error)
161
162	#create the fitting panel
163	#return [self.fit_panel]
164
165	self.mypanels.append(self.fit_panel)
166	return self.mypanels
167
168
169	def _on_slicer_event(self, event):
170	"""
171	"""
172	#print "fitting:slicer event ", event.panel
173	if event.panel!=None:
174	new_panel = event.panel
175	# Set group ID if available
176	event_id = self.parent.popup_panel(new_panel)
177	self.menu1.Append(event_id, new_panel.window_caption,
178	"Show %s plot panel" % new_panel.window_caption)
179	# Set UID to allow us to reference the panel later
180	new_panel.uid = event_id
181	new_panel
182	self.mypanels.append(new_panel)
183	return
184
185
186	def _on_show_panel(self, event):
187	print "_on_show_panel: fitting"
188
189
190	def get_perspective(self):
191	"""
192	Get the list of panel names for this perspective
193	"""
194	return self.perspective
195
196
197	def on_perspective(self, event):
198	"""
199	Call back function for the perspective menu item.
200	We notify the parent window that the perspective
201	has changed.
202	"""
203	self.parent.set_perspective(self.perspective)
204
205
206	def post_init(self):
207	"""
208	Post initialization call back to close the loose ends
209	[Somehow openGL needs this call]
210	"""
211	self.parent.set_perspective(self.perspective)
212
213
214	def copy_data(self, item, dy):
215	"""
216	"""
217	detector=None
218	source=None
219	dxl=None
220	dxw=None
221	if hasattr(item, "dxl"):
222	dxl = item.dxl
223	if hasattr(item, "dxw"):
224	dxw = item.dxw
225	if hasattr(item, "detector"):
226	detector =item.detector
227	if hasattr(item, "source"):
228	source =item.source
229	from sans.guiframe import dataFitting
230	data= dataFitting.Data1D(x=item.x, y=item.y, dy=dy, dxl=dxl, dxw=dxw)
231	data.name=item.name
232	data.detector=detector
233	data.source= source
234	return data
235
236
237	def _onSelect(self,event):
238	"""
239	when Select data to fit a new page is created .Its reference is
240	added to self.page_finder
241	"""
242	self.panel = event.GetEventObject()
243	for item in self.panel.graph.plottables:
244	if item.name == self.panel.graph.selected_plottable:
245	if len(self.err_dy)>0:
246	if item.name in self.err_dy.iterkeys():
247	dy= self.err_dy[item.name]
248	data= self.copy_data(item, dy)
249	else:
250	data= item
251	else:
252	if item.dy==None:
253	dy= numpy.zeros(len(item.y))
254	dy[dy==0]=1
255	data= self.copy_data(item, dy)
256	else:
257	data= item
258	else:
259	data= item
260
261
262	if item.name == self.panel.graph.selected_plottable or\
263	item.__class__.__name__ is "Data2D":
264	#find a name for the page created for notebook
265	#print "fitting", self.panel
266	try:
267
268	#page = self.fit_panel.add_fit_page(item)
269	page = self.fit_panel.add_fit_page(data)
270	#page, model_name = self.fit_panel.add_fit_page(item)
271	# add data associated to the page created
272
273	if page !=None:
274	#create a fitproblem storing all link to data,model,page creation
275	self.page_finder[page]= FitProblem()
276	#self.page_finder[page].save_model_name(model_name)
277	self.page_finder[page].add_plotted_data(item)
278	self.page_finder[page].add_fit_data(data)
279
280
281	wx.PostEvent(self.parent, StatusEvent(status="Page Created"))
282	else:
283	wx.PostEvent(self.parent, StatusEvent(status="Page was already Created"))
284	except:
285	#raise
286	wx.PostEvent(self.parent, StatusEvent(status="Creating Fit page: %s"\
287	%sys.exc_value))
288	return
289
290
291	def schedule_for_fit(self,value=0,fitproblem =None):
292	"""
293
294	"""
295	if fitproblem !=None:
296	fitproblem.schedule_tofit(value)
297	else:
298	current_pg=self.fit_panel.get_current_page()
299	for page, val in self.page_finder.iteritems():
300	if page ==current_pg :
301	val.schedule_tofit(value)
302	break
303
304
305	def get_page_finder(self):
306	""" @return self.page_finder used also by simfitpage.py"""
307	return self.page_finder
308
309
310	def set_page_finder(self,modelname,names,values):
311	"""
312	Used by simfitpage.py to reset a parameter given the string constrainst.
313	@param modelname: the name ot the model for with the parameter has to reset
314	@param value: can be a string in this case.
315	@param names: the paramter name
316	@note: expecting park used for fit.
317	"""
318	#sim_page=self.fit_panel.GetPage(1)
319	sim_page= self.sim_page
320	for page, value in self.page_finder.iteritems():
321	if page != sim_page:
322	list=value.get_model()
323	model=list[0]
324	#print "fitting",model.name,modelname, values
325	if model.name== modelname:
326	value.set_model_param(names,values)
327	break
328
329
330
331	def split_string(self,item):
332	"""
333	receive a word containing dot and split it. used to split parameterset
334	name into model name and parameter name example:
335	paramaterset (item) = M1.A
336	@return model_name =M1 , parameter name =A
337	"""
338	if string.find(item,".")!=-1:
339	param_names= re.split("\.",item)
340	model_name=param_names[0]
341	param_name=param_names[1]
342	return model_name,param_name
343
344
345	def _single_fit_completed(self,result,pars,cpage,qmin,qmax,elapsed=None,
346	ymin=None, ymax=None, xmin=None, xmax=None):
347	"""
348	Display fit result on one page of the notebook.
349	@param result: result of fit
350	@param pars: list of names of parameters fitted
351	@param current_pg: the page where information will be displayed
352	@param qmin: the minimum value of x to replot the model
353	@param qmax: the maximum value of x to replot model
354
355	"""
356
357	#print "single fit ", pars,result.pvec,result.stderr,result.fitness
358	wx.PostEvent(self.parent, StatusEvent(status="Single fit \
359	complete " , type="stop"))
360	try:
361	for page, value in self.page_finder.iteritems():
362	if page==cpage :
363	#fitdata = value.get_data()
364	list = value.get_model()
365	model= list[0]
366	break
367	i = 0
368
369	for name in pars:
370	if result.pvec.__class__==numpy.float64:
371	model.setParam(name,result.pvec)
372	else:
373	#print "fitting result : chisqr",result.fitness
374	#print "fitting result : pvec",result.pvec
375	#print "fitting result : stderr",result.stderr
376	model.setParam(name,result.pvec[i])
377	#print "fitting: single fit", name, result.pvec[i]
378	i += 1
379
380
381	cpage.onsetValues(result.fitness, result.pvec,result.stderr)
382	#title="Fitted model 2D "
383	self.plot_helper(currpage=cpage,qmin=qmin,qmax=qmax,
384	ymin=ymin, ymax=ymax,
385	xmin=xmin, xmax=xmax,title=None)
386	except:
387	#raise
388	wx.PostEvent(self.parent, StatusEvent(status="Fitting error: %s" % sys.exc_value))
389	return
390
391
392	def _simul_fit_completed(self,result,qmin,qmax, elapsed,pars=None,cpage=None,
393	xmin=None, xmax=None, ymin=None, ymax=None):
394	"""
395	Parameter estimation completed,
396	display the results to the user
397	@param alpha: estimated best alpha
398	@param elapsed: computation time
399	"""
400	if cpage!=None:
401	self._single_fit_completed(result=result,pars=pars,cpage=cpage,
402	qmin=qmin,qmax=qmax,
403	ymin=ymin, ymax=ymax, xmin=xmin, xmax=xmax)
404	return
405	else:
406	wx.PostEvent(self.parent, StatusEvent(status="Simultaneous fit \
407	complete ", type="stop"))
408	#print "result",cpage,str(result),result.parameters,result.fitness,result.stderr
409
410	try:
411	for page, value in self.page_finder.iteritems():
412	if value.get_scheduled()==1:
413	#fitdata = value.get_data()
414	list = value.get_model()
415	model= list[0]
416
417	small_out = []
418	small_cov = []
419	i = 0
420	#Separate result in to data corresponding to each page
421	for p in result.parameters:
422	model_name,param_name = self.split_string(p.name)
423	if model.name == model_name:
424	small_out.append(p.value )
425	if p.stderr==None:
426	p.stderr=numpy.nan
427	small_cov.append(p.stderr)
428	model.setParam(param_name,p.value)
429	# Display result on each page
430	#print "mmmm",p.value,p.stderr
431	page.onsetValues(result.fitness, small_out,small_cov)
432	#print "out,err",small_out,small_cov
433	#Replot model
434	self.plot_helper(currpage= page,qmin= qmin,qmax= qmax,
435	xmin=xmin, xmax=xmax,
436	ymin=ymin, ymax=ymax)
437	except:
438	wx.PostEvent(self.parent, StatusEvent(status="Simultaneous Fitting error: %s" % sys.exc_value))
439	return
440
441
442	def stop_fit(self):
443	"""
444	"""
445	if self.calc_thread != None and self.calc_thread.isrunning():
446	#self.calc_thread.interrupt()
447	self.calc_thread.stop()
448	wx.PostEvent(self.parent, StatusEvent(status="Fitting \
449	is cancelled" , type="stop"))
450
451
452	def _on_single_fit(self,id=None,qmin=None, qmax=None,ymin=None, ymax=None,xmin=None,xmax=None):
453	"""
454	perform fit for the current page and return chisqr,out and cov
455	@param engineName: type of fit to be performed
456	@param id: unique id corresponding to a fit problem(model, set of data)
457	@param model: model to fit
458
459	"""
460	#print "in single fitting"
461	#set an engine to perform fit
462	from sans.fit.Fitting import Fit
463	self.fitter= Fit(self._fit_engine)
464	#Setting an id to store model and data in fit engine
465	self.fit_id= 0
466	if id!=None:
467	self.fit_id= id
468
469	page_fitted=None
470	fit_problem=None
471	#Get information (model , data) related to the page on
472	#with the fit will be perform
473	current_pg=self.fit_panel.get_current_page()
474	#simul_pg=self.fit_panel.GetPage(1 )
475	simul_pg=self.sim_page
476	pars=[]
477	#for page, value in self.page_finder.iteritems():
478	if current_pg!= simul_pg:
479	# if value.get_scheduled() ==1 :
480	value = self.page_finder[current_pg]
481	metadata = value.get_fit_data()
482	list = value.get_model()
483	model = list[0]
484	smearer= value.get_smearer()
485
486
487	#Create list of parameters for fitting used
488
489	templist=[]
490	try:
491	#templist=current_pg.get_param_list()
492	templist=current_pg.get_param_list()
493	for element in templist:
494	pars.append(str(element[0].GetLabelText()))
495	pars.sort()
496	#Do the single fit
497	self.fitter.set_model(Model(model), self.fit_id, pars)
498	if self._fit_engine=="scipy":
499	wx.PostEvent(self.parent, StatusEvent(status="Parameters range will\
500	be ignored for %s fitting engine"%str(self._fit_engine)))
501	#print "args...:",metadata,self.fit_id,smearer,qmin,qmax,ymin,ymax
502	dy=[]
503	x=[]
504	y=[]
505	if metadata.__class__ in ["Data1D","Theory1D"]:
506	for i in range(len(metadata.dy)):
507	if metadata.dy[i] !=0:
508	dy.append(metadata.dy[i])
509	x.append(metadata.x[i])
510	y.append(metadata.y[i])
511	if len(dy)>0:
512	metadata.dy=numpy.zeros(len(dy))
513	metadata.dy=dy
514	metadata.y=numpy.zeros(len(y))
515	metadata.y=y
516	metadata.x=numpy.zeros(len(x))
517	metadata.x=x
518	self.fitter.set_data(data=metadata,Uid=self.fit_id,
519	smearer=smearer,qmin= qmin,qmax=qmax,
520	ymin=ymin,ymax=ymax)
521	self.fitter.select_problem_for_fit(Uid=self.fit_id,value=value.get_scheduled())
522	page_fitted=current_pg
523	#self.fit_id+=1
524	#self.schedule_for_fit( 0,value)
525	except:
526	wx.PostEvent(self.parent, StatusEvent(status="Single Fit error: %s" % sys.exc_value))
527	return
528	# make sure to keep an alphabetic order
529	#of parameter names in the list
530	try:
531	# If a thread is already started, stop it
532	if self.calc_thread != None and self.calc_thread.isrunning():
533	self.calc_thread.stop()
534
535	self.calc_thread =FitThread(parent =self.parent,
536	fn= self.fitter,
537	pars= pars,
538	cpage= page_fitted,
539	qmin=qmin,
540	qmax=qmax,
541
542	completefn=self._single_fit_completed,
543	updatefn=None)
544	self.calc_thread.queue()
545	self.calc_thread.ready(2.5)
546
547	except:
548	wx.PostEvent(self.parent, StatusEvent(status="Single Fit error: %s" % sys.exc_value))
549	return
550
551	def _on_simul_fit(self, id=None,qmin=None,qmax=None, ymin=None, ymax=None):
552	"""
553	perform fit for all the pages selected on simpage and return chisqr,out and cov
554	@param engineName: type of fit to be performed
555	@param id: unique id corresponding to a fit problem(model, set of data)
556	in park_integration
557	@param model: model to fit
558
559	"""
560	#set an engine to perform fit
561	from sans.fit.Fitting import Fit
562	self.fitter= Fit(self._fit_engine)
563	self.fit_id= 0
564	#Setting an id to store model and data
565	if id!=None:
566	self.fit_id= id
567
568
569	for page, value in self.page_finder.iteritems():
570	try:
571	if value.get_scheduled()==1:
572	metadata = value.get_fit_data()
573	list = value.get_model()
574	model= list[0]
575	#Create dictionary of parameters for fitting used
576	cpage= page
577	print ""
578	pars = []
579	templist = []
580	templist = page.get_param_list()
581	for element in templist:
582	try:
583	name = str(element[0].GetLabelText())
584	pars.append(name)
585	except:
586	wx.PostEvent(self.parent, StatusEvent(status="Simultaneous Fit error: %s" % sys.exc_value))
587	return
588	# need to check this print "new model "
589
590	new_model=Model(model)
591	param=value.get_model_param()
592
593	if len(param)>0:
594	for item in param:
595	param_value = item[1]
596	param_name = item[0]
597
598	new_model.parameterset[ param_name].set( param_value )
599
600	self.fitter.set_model(new_model, self.fit_id, pars)
601	#print "sim-->model",metadata,model,self.fit_id, pars
602	dy=[]
603	x=[]
604	y=[]
605	if metadata.__class__ in ["Data1D","Theory1D"]:
606	for i in range(len(metadata.dy)):
607	if metadata.dy[i] !=0:
608	dy.append(metadata.dy[i])
609	x.append(metadata.x[i])
610	y.append(metadata.y[i])
611	if len(dy)>0:
612	metadata.dy=numpy.zeros(len(dy))
613	metadata.dy=dy
614	metadata.y=numpy.zeros(len(y))
615	metadata.y=y
616	metadata.x=numpy.zeros(len(x))
617	metadata.x=x
618	self.fitter.set_data(metadata,self.fit_id,qmin,qmax,ymin,ymax)
619	#print "sim---->value of problem",value.get_scheduled()
620	self.fitter.select_problem_for_fit(Uid=self.fit_id,value=value.get_scheduled())
621	self.fit_id += 1
622	value.clear_model_param()
623	#self.schedule_for_fit( 0,value)
624	except:
625	wx.PostEvent(self.parent, StatusEvent(status="Simultaneous Fit error: %s" % sys.exc_value))
626	return
627	#Do the simultaneous fit
628	try:
629	# If a thread is already started, stop it
630	if self.calc_thread != None and self.calc_thread.isrunning():
631	self.calc_thread.stop()
632	if self.fit_id==1:
633	self.calc_thread =FitThread(parent =self.parent,
634	fn= self.fitter,
635	qmin=qmin,
636	qmax=qmax,
637	ymin= ymin,
638	ymax= ymax,
639	cpage=cpage,
640	pars= pars,
641	completefn= self._simul_fit_completed,
642	updatefn=None)
643
644	else:
645	self.calc_thread =FitThread(parent =self.parent,
646	fn= self.fitter,
647	qmin=qmin,
648	qmax=qmax,
649	ymin= ymin,
650	ymax= ymax,
651	completefn= self._simul_fit_completed,
652	updatefn=None)
653	self.calc_thread.queue()
654	self.calc_thread.ready(2.5)
655
656	except:
657	wx.PostEvent(self.parent, StatusEvent(status="Simultaneous Fit error: %s" % sys.exc_value))
658	return
659
660
661	def _onset_engine(self,event):
662	"""
663	set engine to scipy
664	"""
665	if self._fit_engine== 'park':
666	self._on_change_engine('scipy')
667	else:
668	self._on_change_engine('park')
669	wx.PostEvent(self.parent, StatusEvent(status="Engine set to: %s" % self._fit_engine))
670
671
672	def _on_change_engine(self, engine='park'):
673	"""
674	Allow to select the type of engine to perform fit
675	@param engine: the key work of the engine
676	"""
677	self._fit_engine = engine
678
679
680	def _on_model_panel(self, evt):
681	"""
682	react to model selection on any combo box or model menu.plot the model
683	"""
684
685	model = evt.model
686	name = evt.name
687
688	#print "name fitting", name
689	#sim_page=self.fit_panel.GetPage(1)
690	sim_page=self.sim_page
691	current_pg = self.fit_panel.get_current_page()
692	if current_pg != sim_page:
693	current_pg.set_panel(model)
694	#model.name = self.page_finder[current_pg].get_name()
695	#print "model name", model.name
696	model.name="M"+str(self.index_model)
697	try:
698	metadata=self.page_finder[current_pg].get_data()
699	M_name=model.name+"= "+name+"("+metadata.group_id+")"
700	except:
701	M_name=model.name+"= "+name
702	self.index_model += 1
703
704
705	# save model name
706
707	# save the name containing the data name with the appropriate model
708	self.page_finder[current_pg].set_model(model,M_name)
709	self.plot_helper(currpage= current_pg,qmin= None,qmax= None)
710	if self.sim_page!=None:
711	self.sim_page.add_model(self.page_finder)
712
713	def set_smearer(self,smearer):
714	"""
715
716	"""
717	current_pg=self.fit_panel.get_current_page()
718	self.page_finder[current_pg].set_smearer(smearer)
719
720	def redraw_model(self,qmin= None,qmax= None):
721	"""
722	Draw a theory according to model changes or data range.
723	@param qmin: the minimum value plotted for theory
724	@param qmax: the maximum value plotted for theory
725	"""
726	current_pg=self.fit_panel.get_current_page()
727	for page, value in self.page_finder.iteritems():
728	if page ==current_pg :
729	break
730	self.plot_helper(currpage=page,qmin= qmin,qmax= qmax)
731
732	def plot_helper(self,currpage, fitModel=None, qmin=None,qmax=None,
733	ymin=None,ymax=None, xmin=None, xmax=None,title=None ):
734	"""
735	Plot a theory given a model and data
736	@param model: the model from where the theory is derived
737	@param currpage: page in a dictionary referring to some data
738	"""
739	if self.fit_panel.GetPageCount() >1:
740	for page in self.page_finder.iterkeys():
741	if page==currpage :
742	data=self.page_finder[page].get_plotted_data()
743	list=self.page_finder[page].get_model()
744	model=list[0]
745	break
746	#print "model in fitting",model
747	if data!=None and data.__class__.__name__ != 'Data2D':
748	theory = Theory1D(x=[], y=[])
749	theory.name = model.name
750	theory.group_id = data.group_id
751	theory.id = "Model"
752
753	x_name, x_units = data.get_xaxis()
754	y_name, y_units = data.get_yaxis()
755	theory.xaxis(x_name, x_units)
756	theory.yaxis(y_name, y_units)
757	if qmin == None :
758	qmin = min(data.x)
759	if qmax == None :
760	qmax = max(data.x)
761	try:
762	tempx = qmin
763	tempy = model.run(qmin)
764	theory.x.append(tempx)
765	theory.y.append(tempy)
766	except :
767	wx.PostEvent(self.parent, StatusEvent(status="fitting \
768	skipping point x %g %s" %(qmin, sys.exc_value)))
769
770	for i in range(len(data.x)):
771	try:
772	if data.x[i]> qmin and data.x[i]< qmax:
773	tempx = data.x[i]
774	tempy = model.run(tempx)
775	theory.x.append(tempx)
776	theory.y.append(tempy)
777
778	except:
779	wx.PostEvent(self.parent, StatusEvent(status="fitting \
780	skipping point x %g %s" %(data.x[i], sys.exc_value)))
781	try:
782	tempx = qmax
783	tempy = model.run(qmax)
784	theory.x.append(tempx)
785	theory.y.append(tempy)
786	except:
787	wx.PostEvent(self.parent, StatusEvent(status="fitting \
788	skipping point x %g %s" %(qmin, sys.exc_value)) )
789
790	wx.PostEvent(self.parent, NewPlotEvent(plot=theory,
791	title=str(data.name)))
792	else:
793
794	theory=Data2D(data.data, data.err_data)
795	theory.name= model.name
796	if title !=None:
797	self.title = title
798	theory.id= self.title
799	theory.group_id= self.title+data.name
800	else:
801	self.title= "Analytical model 2D "
802	theory.id= "Model"
803	theory.group_id= "Model"+data.name
804	theory.x_bins= data.x_bins
805	theory.y_bins= data.y_bins
806	tempy=[]
807	#print "max x,y",max(data.xmax,data.xmin),max(data.ymax,data.ymin)
808	if qmin==None:
809	qmin=0#min(math.fabs(data.xmax),math.fabs(data.ymin))
810	if qmax==None:
811	qmax=math.sqrt(math.pow(max(math.fabs(data.xmax),math.fabs(data.xmin)),2)/
812	+math.pow(max(math.fabs(data.ymax),math.fabs(data.ymin)),2))
813	if ymin==None:
814	ymin=data.ymin
815	if ymax==None:
816	ymax=data.ymax
817	if xmin ==None:
818	xmin=data.xmin
819	if xmax==None:
820	xmax=data.xmax
821
822	theory.data = numpy.zeros((len(data.y_bins),len(data.x_bins)))
823	for j in range(len(data.y_bins)):
824	for i in range(len(data.x_bins)):
825	tempqij=math.sqrt((math.pow(data.y_bins[j],2)+math.pow(data.x_bins[i],2)))
826	if tempqij>= qmin and tempqij<= qmax:
827	theory.data[j][i]=model.runXY([data.y_bins[j],data.x_bins[i]])
828	else:
829	theory.data[j][i]=0 #None # Later, We need to decide which of 0 and None is better.
830	#print "len(data.x_bins),len(data.y_bins);",len(data.x_bins),len(data.y_bins),qmax
831	#print "fitting : plot_helper:", theory.image
832	#print "fitting : plot_helper:",theory.image
833	theory.detector= data.detector
834	theory.source= data.source
835
836	theory.qmin= qmin
837	theory.qmax= qmax
838	theory.ymin= ymin
839	theory.ymax= ymax
840	theory.xmin= xmin
841	theory.xmax= xmax
842
843	wx.PostEvent(self.parent, NewPlotEvent(plot=theory,
844	title=self.title +str(data.name)))
845
846
847	def _on_model_menu(self, evt):
848	"""
849	Plot a theory from a model selected from the menu
850	"""
851	name = evt.model.__name__
852	if hasattr(evt.model, "name"):
853	name = evt.model.name
854	#print "on model menu", name
855	model=evt.model()
856	description=model.description
857
858	# Create a model page. If a new page is created, the model
859	# will be plotted automatically. If a page already exists,
860	# the content will be updated and the plot refreshed
861	self.fit_panel.add_model_page(model,description,name,topmenu=True)
862
863	def draw_model(self,model,name ,data=None,description=None,enable1D=True, enable2D=False,
864	qmin=DEFAULT_QMIN, qmax=DEFAULT_QMAX, qstep=DEFAULT_NPTS):
865	"""
866	draw model with default data value
867	"""
868	if data !=None:
869	self.redraw_model(qmin,qmax)
870	return
871	self._draw_model1D(model,name,model.description, enable1D,qmin,qmax, qstep)
872	self._draw_model2D(model=model,
873	description=model.description,
874	enable2D= enable2D,
875	qmin=qmin,
876	qmax=qmax,
877	qstep=qstep)
878
879
880	def _draw_model1D(self,model,name,description=None, enable1D=True,
881	qmin=DEFAULT_QMIN, qmax=DEFAULT_QMAX, qstep=DEFAULT_NPTS):
882	"""
883
884	"""
885
886	if enable1D:
887	x= numpy.linspace(start= qmin,
888	stop= qmax,
889	num= qstep,
890	endpoint=True
891	)
892	xlen= len(x)
893	y = numpy.zeros(xlen)
894	if not enable1D:
895	for i in range(xlen):
896	y[i] = model.run(x[i])
897
898	try:
899	new_plot = Theory1D(x, y)
900
901	new_plot.name = name
902	new_plot.xaxis("\\rm{Q}", 'A^{-1}')
903	new_plot.yaxis("\\rm{Intensity} ","cm^{-1}")
904	new_plot.id = "Model"
905	new_plot.group_id ="Model"
906	wx.PostEvent(self.parent, NewPlotEvent(plot=new_plot, title="Analytical model 1D"))
907	except:
908	wx.PostEvent(self.parent, StatusEvent(status="Draw model 1D error: %s" % sys.exc_value))
909	#raise
910	return
911	else:
912	for i in range(xlen):
913	y[i] = model.run(x[i])
914	try:
915	new_plot = Theory1D(x, y)
916	#print "draw model 1D", name
917	new_plot.name = name
918	new_plot.xaxis("\\rm{Q}", 'A^{-1}')
919	new_plot.yaxis("\\rm{Intensity} ","cm^{-1}")
920	new_plot.id ="Model"
921	new_plot.group_id ="Model"
922
923	# Pass the reset flag to let the plotting event handler
924	# know that we are replacing the whole plot
925	wx.PostEvent(self.parent, NewPlotEvent(plot=new_plot,
926	title="Analytical model 1D ", reset=True ))
927
928	except:
929	#raise
930	wx.PostEvent(self.parent, StatusEvent(status="Draw model 1D error: %s" % sys.exc_value))
931	return
932
933
934
935	def update(self, output,time):
936	"""
937	"""
938	pass
939
940	def complete(self, output, elapsed, model, qmin, qmax,qstep=DEFAULT_NPTS):
941	"""
942	"""
943	wx.PostEvent(self.parent, StatusEvent(status="Calc \
944	complete !" , type="stop"))
945	#print "complete",output, model,qmin, qmax
946	data = output
947	temp= numpy.zeros(numpy.shape(data))
948	temp[temp==0]=1
949	theory= Data2D(image=data, err_image=temp)
950
951	from DataLoader.data_info import Detector, Source
952
953	detector = Detector()
954	theory.detector=[]
955	theory.detector.append(detector)
956
957	theory.detector[0].distance=1e+32#13705.0
958	theory.source= Source()
959	theory.source.wavelength=2*math.pi/1e+32#8.4
960	theory.x_bins =[]
961	theory.y_bins =[]
962	#Now qmax is xmax.
963	xmax=2theory.detector[0].distancemath.atan(qmax/(4*math.pi/theory.source.wavelength))
964	theory.detector[0].pixel_size.x= xmax/(qstep/2-0.5)#5.0
965	theory.detector[0].pixel_size.y= xmax/(qstep/2-0.5)#5.0
966	theory.detector[0].beam_center.x= qmax
967	theory.detector[0].beam_center.y= qmax
968	#print "xmax,qmax",xmax,qmax
969	# compute x_bins and y_bins
970	# Qx and Qy vectors
971
972	distance = theory.detector[0].distance
973	pixel = qstep/2-1
974	theta = pixel / distance / qstep#100.0
975	wavelength = theory.source.wavelength
976	pixel_width_x = theory.detector[0].pixel_size.x
977	pixel_width_y = theory.detector[0].pixel_size.y
978	center_x = theory.detector[0].beam_center.x/pixel_width_x
979	center_y = theory.detector[0].beam_center.y/pixel_width_y
980
981
982	size_x, size_y= numpy.shape(theory.data)
983	#print "size_x,size_y",size_x, size_y
984	#This case, q and x are equivalent to each other.
985	for i_x in range(size_x):
986	theta = (i_x-center_x)*pixel_width_x / distance #/ size_x#100.0
987	qx = 4.0math.pi/wavelength math.tan(theta/2.0)
988	theory.x_bins.append(qx)
989	for i_y in range(size_y):
990	theta = (i_y-center_y)*pixel_width_y / distance #/ size_y#100.0
991	qy =4.0math.pi/wavelength math.tan(theta/2.0)
992	theory.y_bins.append(qy)
993
994	#theory.err_data= numpy.
995	theory.name= model.name
996	theory.group_id ="Model"
997	theory.id ="Model"
998
999
1000
1001	theory.xmin= -qmax#/math.sqrt(2)#You can not do sqrt(2), that changes axis scale not data itself
1002	theory.xmax= qmax#/math.sqrt(2)
1003	theory.ymin= -qmax#/math.sqrt(2)
1004	theory.ymax= qmax#/math.sqrt(2)
1005
1006	#print "model draw comptele xmax",theory.xmax,model.name
1007	wx.PostEvent(self.parent, NewPlotEvent(plot=theory,
1008	title="Analytical model 2D ", reset=True ))
1009
1010
1011
1012	def _draw_model2D(self,model,description=None, enable2D=False,
1013	qmin=DEFAULT_QMIN, qmax=DEFAULT_QMAX, qstep=DEFAULT_NPTS):
1014
1015	x= numpy.linspace(start= -1*qmax,
1016	stop= qmax,
1017	num= qstep,
1018	endpoint=True )
1019	y = numpy.linspace(start= -1*qmax,
1020	stop= qmax,
1021	num= qstep,
1022	endpoint=True )
1023
1024	lx = len(x)
1025	#print x
1026	#data=numpy.zeros([len(x),len(y)])
1027	self.model= model
1028	if enable2D:
1029	try:
1030	from sans.guiframe.model_thread import Calc2D
1031	# print "in draw model 2d ",self.model
1032	self.calc_thread = Calc2D(parent =self.parent,x=x,
1033	y=y,model= self.model,
1034	qmin=qmin,
1035	qmax=qmax,
1036	qstep=qstep,
1037	completefn=self.complete,
1038	updatefn=None)
1039	self.calc_thread.queue()
1040	self.calc_thread.ready(2.5)
1041	except:
1042	raise
1043
1044	def show_panel2D(self, id=None ):
1045	self.parent.show_panel(self.model2D_id)
1046
1047
1048	if __name__ == "__main__":
1049	i = Plugin()
1050
1051
1052
1053

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SasView

source: sasview/sansview/perspectives/fitting/fitting.py @ 54905de

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