fitting.py @ d611fb93

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 d611fb93 was 44bbf6a, checked in by Gervaise Alina <gervyh@…>, 16 years ago
panel 2d changed for dispersion display
Property mode set to `100644`
File size: 23.8 KB

Line
1	import os,os.path, re
2	import sys, wx, logging
3	import string, numpy, pylab, 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.fit.AbstractFitEngine import Model,Data,FitData1D,FitData2D
10	from fitproblem import FitProblem
11	from fitpanel import FitPanel
12
13	import models,modelpage
14	import fitpage1D,fitpage2D
15	import park
16	class Theory2D(Data2D):
17	def __init__(self,image=None,err_image=None,xmin=None,
18	xmax=None,ymin=None,ymax=None,zmin=None,zmax=None):
19	Data2D.__init__(self,image,err_image,xmin,
20	xmax,ymin,ymax,zmin,zmax)
21	class Plugin:
22	"""
23	Fitting plugin is used to perform fit
24	"""
25	def __init__(self):
26	## Plug-in name
27	self.sub_menu = "Fitting"
28
29	## Reference to the parent window
30	self.parent = None
31	self.menu_mng = models.ModelManager()
32	## List of panels for the simulation perspective (names)
33	self.perspective = []
34	# Start with a good default
35	self.elapsed = 0.022
36	self.fitter = None
37
38	#Flag to let the plug-in know that it is running standalone
39	self.standalone=True
40	## Fit engine
41	self._fit_engine = 'scipy'
42	# Log startup
43	logging.info("Fitting plug-in started")
44
45	def populate_menu(self, id, owner):
46	"""
47	Create a menu for the Fitting plug-in
48	@param id: id to create a menu
49	@param owner: owner of menu
50	@ return : list of information to populate the main menu
51	"""
52	#Menu for fitting
53	self.menu1 = wx.Menu()
54	id1 = wx.NewId()
55	self.menu1.Append(id1, '&Show fit panel')
56	wx.EVT_MENU(owner, id1, self.on_perspective)
57	id3 = wx.NewId()
58	self.menu1.AppendCheckItem(id3, "park")
59	wx.EVT_MENU(owner, id3, self._onset_engine)
60
61	#menu for model
62	menu2 = wx.Menu()
63	self.menu_mng.populate_menu(menu2, owner)
64	id2 = wx.NewId()
65	owner.Bind(models.EVT_MODEL,self._on_model_menu)
66	#owner.Bind(modelpage.EVT_MODEL,self._on_model_menu)
67	self.fit_panel.set_owner(owner)
68	self.fit_panel.set_model_list(self.menu_mng.get_model_list())
69	owner.Bind(fitpage1D.EVT_MODEL_BOX,self._on_model_panel)
70	owner.Bind(fitpage2D.EVT_MODEL_BOX,self._on_model_panel)
71	#create menubar items
72	return [(id, self.menu1, "Fitting"),(id2, menu2, "Model")]
73
74
75	def help(self, evt):
76	"""
77	Show a general help dialog.
78	TODO: replace the text with a nice image
79	"""
80	pass
81
82	def get_context_menu(self, graph=None):
83	"""
84	Get the context menu items available for P(r)
85	@param graph: the Graph object to which we attach the context menu
86	@return: a list of menu items with call-back function
87	"""
88	self.graph=graph
89	for item in graph.plottables:
90	if item.__class__.__name__ is "Data2D":
91	return [["Select data for Fitting",\
92	"Dialog with fitting parameters ", self._onSelect]]
93	else:
94	if item.name==graph.selected_plottable and\
95	item.__class__.__name__ is "Data1D":
96	return [["Select data for Fitting", \
97	"Dialog with fitting parameters ", self._onSelect]]
98	return []
99
100
101	def get_panels(self, parent):
102	"""
103	Create and return a list of panel objects
104	"""
105	self.parent = parent
106	# Creation of the fit panel
107	self.fit_panel = FitPanel(self.parent, -1)
108	#Set the manager forthe main panel
109	self.fit_panel.set_manager(self)
110	# List of windows used for the perspective
111	self.perspective = []
112	self.perspective.append(self.fit_panel.window_name)
113	# take care of saving data, model and page associated with each other
114	self.page_finder = {}
115	#index number to create random model name
116	self.index_model = 0
117	#create the fitting panel
118	return [self.fit_panel]
119
120
121	def get_perspective(self):
122	"""
123	Get the list of panel names for this perspective
124	"""
125	return self.perspective
126
127
128	def on_perspective(self, event):
129	"""
130	Call back function for the perspective menu item.
131	We notify the parent window that the perspective
132	has changed.
133	"""
134	self.parent.set_perspective(self.perspective)
135
136
137	def post_init(self):
138	"""
139	Post initialization call back to close the loose ends
140	[Somehow openGL needs this call]
141	"""
142	self.parent.set_perspective(self.perspective)
143
144
145	def _onSelect(self,event):
146	"""
147	when Select data to fit a new page is created .Its reference is
148	added to self.page_finder
149	"""
150	self.panel = event.GetEventObject()
151	for item in self.panel.graph.plottables:
152	if item.name == self.panel.graph.selected_plottable or\
153	item.__class__.__name__ is "Data2D":
154	#find a name for the page created for notebook
155	try:
156	page = self.fit_panel.add_fit_page(item)
157	# add data associated to the page created
158
159	if page !=None:
160
161	#create a fitproblem storing all link to data,model,page creation
162	self.page_finder[page]= FitProblem()
163	self.page_finder[page].add_data(item)
164	except:
165	wx.PostEvent(self.parent, StatusEvent(status="Creating Fit page: %s"\
166	%sys.exc_value))
167	def schedule_for_fit(self,value=0,fitproblem =None):
168	"""
169
170	"""
171	if fitproblem !=None:
172	fitproblem.schedule_tofit(value)
173	else:
174	current_pg=self.fit_panel.get_current_page()
175	for page, val in self.page_finder.iteritems():
176	if page ==current_pg :
177	val.schedule_tofit(value)
178	break
179
180
181	def get_page_finder(self):
182	""" @return self.page_finder used also by simfitpage.py"""
183	return self.page_finder
184
185
186	def set_page_finder(self,modelname,names,values):
187	"""
188	Used by simfitpage.py to reset a parameter given the string constrainst.
189	@param modelname: the name ot the model for with the parameter has to reset
190	@param value: can be a string in this case.
191	@param names: the paramter name
192	@note: expecting park used for fit.
193	"""
194	sim_page=self.fit_panel.get_page(0)
195	for page, value in self.page_finder.iteritems():
196	if page != sim_page:
197	list=value.get_model()
198	model=list[0]
199	#print "fitting",model.name,modelname
200	if model.name== modelname:
201	value.set_model_param(names,values)
202	break
203
204
205
206	def split_string(self,item):
207	"""
208	receive a word containing dot and split it. used to split parameterset
209	name into model name and parameter name example:
210	paramaterset (item) = M1.A
211	@return model_name =M1 , parameter name =A
212	"""
213	if string.find(item,".")!=-1:
214	param_names= re.split("\.",item)
215	model_name=param_names[0]
216	param_name=param_names[1]
217	return model_name,param_name
218
219
220	def _single_fit_completed(self,result,pars,cpage,qmin,qmax,ymin=None, ymax=None):
221	"""
222	Display fit result on one page of the notebook.
223	@param result: result of fit
224	@param pars: list of names of parameters fitted
225	@param current_pg: the page where information will be displayed
226	@param qmin: the minimum value of x to replot the model
227	@param qmax: the maximum value of x to replot model
228
229	"""
230	try:
231	for page, value in self.page_finder.iteritems():
232	if page==cpage :
233	#fitdata = value.get_data()
234	list = value.get_model()
235	model= list[0]
236	break
237	i = 0
238	# print "fitting: single fit pars ", pars
239	for name in pars:
240	if result.pvec.__class__==numpy.float64:
241	model.setParam(name,result.pvec)
242	else:
243	model.setParam(name,result.pvec[i])
244	# print "fitting: single fit", name, result.pvec[i]
245	i += 1
246	# print "fitting result : chisqr",result.fitness
247	# print "fitting result : pvec",result.pvec
248	# print "fitting result : stderr",result.stderr
249
250	cpage.onsetValues(result.fitness, result.pvec,result.stderr)
251	self.plot_helper(currpage=cpage,qmin=qmin,qmax=qmax,ymin=ymin, ymax=ymax)
252	except:
253	raise
254	wx.PostEvent(self.parent, StatusEvent(status="Fitting error: %s" % sys.exc_value))
255
256
257	def _simul_fit_completed(self,result,qmin,qmax,ymin=None, ymax=None):
258	"""
259	Parameter estimation completed,
260	display the results to the user
261	@param alpha: estimated best alpha
262	@param elapsed: computation time
263	"""
264	try:
265	for page, value in self.page_finder.iteritems():
266	if value.get_scheduled()==1:
267	#fitdata = value.get_data()
268	list = value.get_model()
269	model= list[0]
270
271	small_out = []
272	small_cov = []
273	i = 0
274	#Separate result in to data corresponding to each page
275	for p in result.parameters:
276	model_name,param_name = self.split_string(p.name)
277	if model.name == model_name:
278	small_out.append(p.value )
279	small_cov.append(p.stderr)
280	model.setParam(param_name,p.value)
281	# Display result on each page
282	page.onsetValues(result.fitness, small_out,small_cov)
283	#Replot model
284	self.plot_helper(currpage= page,qmin= qmin,qmax= qmax,ymin=ymin, ymax=ymax)
285	except:
286	wx.PostEvent(self.parent, StatusEvent(status="Fitting error: %s" % sys.exc_value))
287
288
289	def _on_single_fit(self,id=None,qmin=None,qmax=None,ymin=None,ymax=None):
290	"""
291	perform fit for the current page and return chisqr,out and cov
292	@param engineName: type of fit to be performed
293	@param id: unique id corresponding to a fit problem(model, set of data)
294	@param model: model to fit
295
296	"""
297	#print "in single fitting"
298	#set an engine to perform fit
299	from sans.fit.Fitting import Fit
300	self.fitter= Fit(self._fit_engine)
301	#Setting an id to store model and data in fit engine
302	if id==None:
303	id=0
304	self.id = id
305	page_fitted=None
306	fit_problem=None
307	#Get information (model , data) related to the page on
308	#with the fit will be perform
309	#current_pg=self.fit_panel.get_current_page()
310	#simul_pg=self.fit_panel.get_page(0)
311
312	for page, value in self.page_finder.iteritems():
313	if value.get_scheduled() ==1 :
314	metadata = value.get_data()
315	list=value.get_model()
316	model=list[0]
317	#Create list of parameters for fitting used
318	pars=[]
319	templist=[]
320	try:
321	#templist=current_pg.get_param_list()
322	templist=page.get_param_list()
323	for element in templist:
324	pars.append(str(element[0].GetLabelText()))
325	pars.sort()
326	#Do the single fit
327	self.fitter.set_model(Model(model), self.id, pars)
328	self.fitter.set_data(metadata,self.id,qmin,qmax)
329	self.fitter.select_problem_for_fit(Uid=self.id,value=value.get_scheduled())
330	page_fitted=page
331	self.id+=1
332	self.schedule_for_fit( 0,value)
333	except:
334	wx.PostEvent(self.parent, StatusEvent(status="Fitting error: %s" % sys.exc_value))
335	return
336	# make sure to keep an alphabetic order
337	#of parameter names in the list
338	try:
339	result=self.fitter.fit()
340	#self._single_fit_completed(result,pars,current_pg,qmin,qmax)
341	print "single_fit: result",result.fitness,result.pvec,result.stderr
342	#self._single_fit_completed(result,pars,page,qmin,qmax)
343	self._single_fit_completed(result,pars,page_fitted,qmin,qmax,ymin,ymax)
344	except:
345	raise
346	wx.PostEvent(self.parent, StatusEvent(status="Single Fit error: %s" % sys.exc_value))
347	return
348
349	def _on_simul_fit(self, id=None,qmin=None,qmax=None, ymin=None, ymax=None):
350	"""
351	perform fit for all the pages selected on simpage and return chisqr,out and cov
352	@param engineName: type of fit to be performed
353	@param id: unique id corresponding to a fit problem(model, set of data)
354	in park_integration
355	@param model: model to fit
356
357	"""
358	#set an engine to perform fit
359	from sans.fit.Fitting import Fit
360	self.fitter= Fit(self._fit_engine)
361
362	#Setting an id to store model and data
363	if id==None:
364	id = 0
365	self.id = id
366
367	for page, value in self.page_finder.iteritems():
368	try:
369	if value.get_scheduled()==1:
370	metadata = value.get_data()
371	list = value.get_model()
372	model= list[0]
373	#Create dictionary of parameters for fitting used
374	pars = []
375	templist = []
376	templist = page.get_param_list()
377	for element in templist:
378	try:
379	name = str(element[0].GetLabelText())
380	pars.append(name)
381	except:
382	wx.PostEvent(self.parent, StatusEvent(status="Fitting error: %s" % sys.exc_value))
383	return
384	new_model=Model(model)
385	param=value.get_model_param()
386
387	if len(param)>0:
388	for item in param:
389	param_value = item[1]
390	param_name = item[0]
391	#print "fitting ", param,param_name, param_value
392
393	#new_model.set( model.getParam(param_name[0])= param_value)
394	#new_model.set( exec"%s=%s"%(param_name[0], param_value))
395	#new_model.set( exec "%s"%(param_nam) = param_value)
396	new_model.parameterset[ param_name].set( param_value )
397
398	self.fitter.set_model(new_model, self.id, pars)
399	self.fitter.set_data(metadata,self.id,qmin,qmax,ymin,ymax)
400	self.fitter.select_problem_for_fit(Uid=self.id,value=value.get_scheduled())
401	self.id += 1
402	except:
403	wx.PostEvent(self.parent, StatusEvent(status="Fitting error: %s" % sys.exc_value))
404	return
405	#Do the simultaneous fit
406	try:
407	result=self.fitter.fit()
408	self._simul_fit_completed(result,qmin,qmax,ymin,ymax)
409	except:
410	wx.PostEvent(self.parent, StatusEvent(status="Simultaneous Fitting error: %s" % sys.exc_value))
411	return
412
413
414	def _onset_engine(self,event):
415	""" set engine to scipy"""
416	if self._fit_engine== 'park':
417	self._on_change_engine('scipy')
418	else:
419	self._on_change_engine('park')
420	wx.PostEvent(self.parent, StatusEvent(status="Engine set to: %s" % self._fit_engine))
421
422
423	def _on_change_engine(self, engine='park'):
424	"""
425	Allow to select the type of engine to perform fit
426	@param engine: the key work of the engine
427	"""
428	self._fit_engine = engine
429
430
431	def _on_model_panel(self, evt):
432	"""
433	react to model selection on any combo box or model menu.plot the model
434	"""
435
436	model = evt.model
437	name = evt.name
438	sim_page=self.fit_panel.get_page(0)
439	current_pg = self.fit_panel.get_current_page()
440	if current_pg != sim_page:
441	current_pg.set_panel(model)
442
443	try:
444	metadata=self.page_finder[current_pg].get_data()
445	M_name="M"+str(self.index_model)+"= "+name+"("+metadata.group_id+")"
446	except:
447	M_name="M"+str(self.index_model)+"= "+name
448	model.name="M"+str(self.index_model)
449	self.index_model += 1
450
451	self.page_finder[current_pg].set_model(model,M_name)
452	self.plot_helper(currpage= current_pg,qmin= None,qmax= None)
453	sim_page.add_model(self.page_finder)
454
455
456	def redraw_model(self,qmin= None,qmax= None):
457	"""
458	Draw a theory according to model changes or data range.
459	@param qmin: the minimum value plotted for theory
460	@param qmax: the maximum value plotted for theory
461	"""
462	current_pg=self.fit_panel.get_current_page()
463	for page, value in self.page_finder.iteritems():
464	if page ==current_pg :
465	break
466	self.plot_helper(currpage=page,qmin= qmin,qmax= qmax)
467
468	def plot_helper(self,currpage,qmin=None,qmax=None,ymin=None,ymax=None):
469	"""
470	Plot a theory given a model and data
471	@param model: the model from where the theory is derived
472	@param currpage: page in a dictionary referring to some data
473	"""
474	if self.fit_panel.get_page_count() >1:
475	for page in self.page_finder.iterkeys():
476	if page==currpage :
477	data=self.page_finder[page].get_data()
478	list=self.page_finder[page].get_model()
479	model=list[0]
480	break
481
482	if data!=None and data.__class__.__name__ != 'Data2D':
483	theory = Theory1D(x=[], y=[])
484	theory.name = "Model"
485	theory.group_id = data.group_id
486
487	x_name, x_units = data.get_xaxis()
488	y_name, y_units = data.get_yaxis()
489	theory.xaxis(x_name, x_units)
490	theory.yaxis(y_name, y_units)
491	if qmin == None :
492	qmin = min(data.x)
493	if qmax == None :
494	qmax = max(data.x)
495	try:
496	tempx = qmin
497	tempy = model.run(qmin)
498	theory.x.append(tempx)
499	theory.y.append(tempy)
500	except :
501	wx.PostEvent(self.parent, StatusEvent(status="fitting \
502	skipping point x %g %s" %(qmin, sys.exc_value)))
503
504	for i in range(len(data.x)):
505	try:
506	if data.x[i]> qmin and data.x[i]< qmax:
507	tempx = data.x[i]
508	tempy = model.run(tempx)
509	theory.x.append(tempx)
510	theory.y.append(tempy)
511	except:
512	wx.PostEvent(self.parent, StatusEvent(status="fitting \
513	skipping point x %g %s" %(data.x[i], sys.exc_value)))
514	try:
515	tempx = qmax
516	tempy = model.run(qmax)
517	theory.x.append(tempx)
518	theory.y.append(tempy)
519	except:
520	wx.PostEvent(self.parent, StatusEvent(status="fitting \
521	skipping point x %g %s" %(qmax, sys.exc_value)))
522	else:
523	theory=Data2D(data.image, data.err_image)
524	#theory=Theory2D(data.image, data.err_image)
525	theory.x_bins= data.x_bins
526	theory.y_bins= data.y_bins
527	tempy=[]
528	if qmin==None:
529	qmin=data.xmin
530	if qmax==None:
531	qmax=data.xmax
532	if ymin==None:
533	ymin=data.ymin
534	if ymax==None:
535	ymax=data.ymax
536
537	theory.image = numpy.zeros((len(data.y_bins),len(data.x_bins)))
538	for i in range(len(data.y_bins)):
539	if data.y_bins[i]>= ymin and data.y_bins[i]<= ymax:
540	for j in range(len(data.x_bins)):
541	if data.x_bins[i]>= qmin and data.x_bins[i]<= qmax:
542	theory.image[j][i]=model.runXY([data.x_bins[j],data.y_bins[i]])
543
544	#print "fitting : plot_helper:", theory.image
545	#print data.image
546	#print "fitting : plot_helper:",theory.image
547	theory.zmin= data.zmin
548	theory.zmax= data.zmax
549	theory.xmin= qmin
550	theory.xmax= qmax
551	theory.ymin= ymin
552	theory.ymax= ymax
553
554	wx.PostEvent(self.parent, NewPlotEvent(plot=theory, title="Analytical model"))
555
556
557	def _on_model_menu(self, evt):
558	"""
559	Plot a theory from a model selected from the menu
560	"""
561	name="Model View"
562	model=evt.model()
563
564	description=model.description
565	self.fit_panel.add_model_page(model,description,name)
566	self.draw_model(model)
567
568	def draw_model(self,model):
569	"""
570	draw model with default data value
571	"""
572	x = pylab.arange(0.001, 0.1, 0.001)
573	xlen = len(x)
574	dy = numpy.zeros(xlen)
575	y = numpy.zeros(xlen)
576
577	for i in range(xlen):
578	y[i] = model.run(x[i])
579	dy[i] = math.sqrt(math.fabs(y[i]))
580	try:
581	new_plot = Theory1D(x, y)
582	new_plot.name = "Model"
583	new_plot.xaxis("\\rm{Q}", 'A^{-1}')
584	new_plot.yaxis("\\rm{Intensity} ","cm^{-1}")
585	new_plot.group_id ="Fitness"
586	wx.PostEvent(self.parent, NewPlotEvent(plot=new_plot, title="Analytical model"))
587	except:
588	raise
589	if __name__ == "__main__":
590	i = Plugin()
591
592
593
594

Note: See TracBrowser for help on using the repository browser.

SasView

source: sasview/sansview/perspectives/fitting/fitting.py @ d611fb93

Download in other formats: