fitting.py @ 3b19ac9

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 3b19ac9 was 3b19ac9, checked in by Gervaise Alina <gervyh@…>, 16 years ago
working on simultaneous fit and scipy/park fit added on menubar
Property mode set to `100644`
File size: 21.0 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 sans.guitools.plottables import Data1D, Theory1D
7	from sans.guitools.PlotPanel import PlotPanel
8	from sans.guicomm.events import NewPlotEvent, StatusEvent
9	from sans.fit.AbstractFitEngine import Model,Data
10	from fitproblem import FitProblem
11	from fitpanel import FitPanel
12
13	import models
14	import fitpage
15
16	class PlottableData(Data,Data1D):
17	""" class plottable data: class allowing to plot Data type on panel"""
18	def __init__(self,data,data1d):
19	self.x = data1d.x
20	self.y = data1d.y
21	self.dx = data1d.dx
22	self.dy = data1d.dy
23
24	self.group_id = data1d.group_id
25	x_name, x_units = data1d.get_xaxis()
26	y_name, y_units = data1d.get_yaxis()
27	self.xaxis( x_name, x_units)
28	self.yaxis( y_name, y_units )
29	self.qmin = data.qmin
30	self.qmax = data.qmax
31
32	class Plugin:
33	"""
34	"""
35	def __init__(self):
36	## Plug-in name
37	self.sub_menu = "Fitting"
38
39	## Reference to the parent window
40	self.parent = None
41	self.menu_mng = models.ModelManager()
42	## List of panels for the simulation perspective (names)
43	self.perspective = []
44	# Start with a good default
45	self.elapsed = 0.022
46	self.fitter = None
47
48	#Flag to let the plug-in know that it is running standalone
49	self.standalone=True
50	## Fit engine
51	self._fit_engine = 'scipy'
52	# Log startup
53	logging.info("Fitting plug-in started")
54
55	def populate_menu(self, id, owner):
56	"""
57	Create a menu for the Fitting plug-in
58	@param id: id to create a menu
59	@param owner: owner of menu
60	@ return : list of information to populate the main menu
61	"""
62	#Menu for fitting
63	self.menu1 = wx.Menu()
64	id1 = wx.NewId()
65	self.menu1.Append(id1, '&Show fit panel')
66	wx.EVT_MENU(owner, id1, self.on_perspective)
67	id3 = wx.NewId()
68	self.menu1.Append(id3,'&scipy \ park','toggle engine to park or scipy')
69	wx.EVT_MENU(owner, id3, self._onset_engine)
70
71	#menu for model
72	menu2 = wx.Menu()
73	self.menu_mng.populate_menu(menu2, owner)
74	id2 = wx.NewId()
75	owner.Bind(models.EVT_MODEL,self._on_model_menu)
76	self.fit_panel.set_owner(owner)
77	self.fit_panel.set_model_list(self.menu_mng.get_model_list())
78	owner.Bind(fitpage.EVT_MODEL_BOX,self._on_model_panel)
79	#create menubar items
80	return [(id, self.menu1, "Fitting"),(id2, menu2, "Model")]
81
82
83	def help(self, evt):
84	"""
85	Show a general help dialog.
86	TODO: replace the text with a nice image
87	"""
88	pass
89
90	def get_context_menu(self, graph=None):
91	"""
92	Get the context menu items available for P(r)
93	@param graph: the Graph object to which we attach the context menu
94	@return: a list of menu items with call-back function
95	"""
96
97	self.graph=graph
98	for item in graph.plottables:
99	if item.name==graph.selected_plottable and item.__class__.__name__ is not "Theory1D":
100	return [["Select Data", "Dialog with fitting parameters ", self._onSelect]]
101	return []
102
103
104	def get_panels(self, parent):
105	"""
106	Create and return a list of panel objects
107	"""
108	self.parent = parent
109	# Creation of the fit panel
110	self.fit_panel = FitPanel(self.parent, -1)
111	#Set the manager forthe main panel
112	self.fit_panel.set_manager(self)
113	# List of windows used for the perspective
114	self.perspective = []
115	self.perspective.append(self.fit_panel.window_name)
116	# take care of saving data, model and page associated with each other
117	self.page_finder = {}
118	#index number to create random model name
119	self.index_model = 0
120	#create the fitting panel
121	return [self.fit_panel]
122
123
124	def get_perspective(self):
125	"""
126	Get the list of panel names for this perspective
127	"""
128	return self.perspective
129
130
131	def on_perspective(self, event):
132	"""
133	Call back function for the perspective menu item.
134	We notify the parent window that the perspective
135	has changed.
136	"""
137	self.parent.set_perspective(self.perspective)
138
139
140	def post_init(self):
141	"""
142	Post initialization call back to close the loose ends
143	[Somehow openGL needs this call]
144	"""
145	self.parent.set_perspective(self.perspective)
146
147
148	def _onSelect(self,event):
149	"""
150	when Select data to fit a new page is created .Its reference is
151	added to self.page_finder
152	"""
153	self.panel = event.GetEventObject()
154	for item in self.panel.graph.plottables:
155	if item.name == self.panel.graph.selected_plottable:
156	#find a name for the page created for notebook
157	try:
158	name = item.group_id # item in Data1D
159	except:
160	name = 'Fit'
161	try:
162	page = self.fit_panel.add_fit_page(name)
163	# add data associated to the page created
164	page.set_data_name(item)
165	#create a fitproblem storing all link to data,model,page creation
166	self.page_finder[page]= FitProblem()
167	data_for_park= Data(sans_data=item)
168	datap=PlottableData(data=data_for_park,data1d=item)
169	self.page_finder[page].add_data(datap)
170	except:
171	raise
172	wx.PostEvent(self.parent, StatusEvent(status="Fitting error: \
173	data already Selected "))
174
175
176	def get_page_finder(self):
177	""" @return self.page_finder used also by simfitpage.py"""
178	return self.page_finder
179
180
181	def set_page_finder(self,modelname,names,values):
182	"""
183	Used by simfitpage.py to reset a parameter given the string constrainst.
184	@param modelname: the name ot the model for with the parameter has to reset
185	@param value: can be a string in this case.
186	@param names: the paramter name
187	@note: expecting park used for fit.
188	"""
189	sim_page=self.fit_panel.get_page(0)
190	for page, value in self.page_finder.iteritems():
191	if page != sim_page:
192	list=value.get_model()
193	model=list[0]
194	if model.name== modelname:
195	value.set_model_param(names,values)
196
197	break
198
199
200
201	def split_string(self,item):
202	"""
203	receive a word containing dot and split it. used to split parameterset
204	name into model name and parameter name example:
205	paramaterset (item) = M1.A
206	@return model_name =M1 , parameter name =A
207	"""
208	if string.find(item,".")!=-1:
209	param_names= re.split("\.",item)
210	model_name=param_names[0]
211	param_name=param_names[1]
212	return model_name,param_name
213
214
215	def _single_fit_completed(self,result,pars,current_pg,qmin,qmax):
216	"""
217	Display fit result on one page of the notebook.
218	@param result: result of fit
219	@param pars: list of names of parameters fitted
220	@param current_pg: the page where information will be displayed
221	@param qmin: the minimum value of x to replot the model
222	@param qmax: the maximum value of x to replot model
223
224	"""
225	try:
226	for page, value in self.page_finder.iteritems():
227	if page== current_pg:
228	data = value.get_data()
229	list = value.get_model()
230	model= list[0]
231	break
232	i = 0
233	for name in pars:
234	if result.pvec.__class__==numpy.float64:
235	model.setParam(name,result.pvec)
236	else:
237	model.setParam(name,result.pvec[i])
238	i += 1
239	current_pg.onsetValues(result.fitness, result.pvec,result.stderr)
240	self.plot_helper(currpage=current_pg,qmin=qmin,qmax=qmax)
241	except:
242	wx.PostEvent(self.parent, StatusEvent(status="Fitting error: %s" % sys.exc_value))
243
244
245	def _simul_fit_completed(self,result,qmin,qmax):
246	"""
247	Parameter estimation completed,
248	display the results to the user
249	@param alpha: estimated best alpha
250	@param elapsed: computation time
251	"""
252	try:
253	for page, value in self.page_finder.iteritems():
254	print "fitting : simultaneous scheduled ",value.get_scheduled()
255	if value.get_scheduled()=='True':
256	data = value.get_data()
257	list = value.get_model()
258	model= list[0]
259
260	small_out = []
261	small_cov = []
262	i = 0
263	#Separate result in to data corresponding to each page
264	for p in result.parameters:
265	model_name,param_name = self.split_string(p.name)
266	if model.name == model_name:
267	small_out.append(p.value )
268	small_cov.append(p.stderr)
269	model.setParam(param_name,p.value)
270	# Display result on each page
271	page.onsetValues(result.fitness, small_out,small_cov)
272	#Replot model
273	self.plot_helper(currpage= page,qmin= qmin,qmax= qmax)
274	except:
275	wx.PostEvent(self.parent, StatusEvent(status="Fitting error: %s" % sys.exc_value))
276
277
278	def _on_single_fit(self,id=None,qmin=None,qmax=None):
279	"""
280	perform fit for the current page and return chisqr,out and cov
281	@param engineName: type of fit to be performed
282	@param id: unique id corresponding to a fit problem(model, set of data)
283	@param model: model to fit
284
285	"""
286	#set an engine to perform fit
287	from sans.fit.Fitting import Fit
288	self.fitter= Fit(self._fit_engine)
289	#Setting an id to store model and data in fit engine
290	if id==None:
291	id=0
292	self.id = id
293	#Get information (model , data) related to the page on
294	#with the fit will be perform
295	current_pg=self.fit_panel.get_current_page()
296	for page, value in self.page_finder.iteritems():
297	if page ==current_pg :
298	data = value.get_data()
299	list=value.get_model()
300	model=list[0]
301
302	#Create list of parameters for fitting used
303	pars=[]
304	templist=[]
305	try:
306	templist=current_pg.get_param_list()
307	except:
308	raise
309	wx.PostEvent(self.parent, StatusEvent(status="Fitting error: %s" % sys.exc_value))
310	return
311
312	for element in templist:
313	try:
314	pars.append(str(element[0].GetLabelText()))
315	except:
316	wx.PostEvent(self.parent, StatusEvent(status="Fitting error: %s" % sys.exc_value))
317	return
318	# make sure to keep an alphabetic order
319	#of parameter names in the list
320	pars.sort()
321	#Do the single fit
322	try:
323	self.fitter.set_model(Model(model), self.id, pars)
324	self.fitter.set_data(data,self.id,qmin,qmax)
325
326	result=self.fitter.fit()
327	self._single_fit_completed(result,pars,current_pg,qmin,qmax)
328
329	except:
330	wx.PostEvent(self.parent, StatusEvent(status="Single Fit error: %s" % sys.exc_value))
331	return
332
333	def _on_simul_fit(self, id=None,qmin=None,qmax=None):
334	"""
335	perform fit for all the pages selected on simpage and return chisqr,out and cov
336	@param engineName: type of fit to be performed
337	@param id: unique id corresponding to a fit problem(model, set of data)
338	in park_integration
339	@param model: model to fit
340
341	"""
342	#set an engine to perform fit
343	from sans.fit.Fitting import Fit
344	self.fitter= Fit(self._fit_engine)
345
346	#Setting an id to store model and data
347	if id==None:
348	id = 0
349	self.id = id
350
351	for page, value in self.page_finder.iteritems():
352	try:
353	print "fitting : simultaneous scheduled ",value.get_scheduled(),value.schedule
354	if value.get_scheduled()=='True':
355	print "fitting: self.page_finder",value.get_scheduled()
356	data = value.get_data()
357	#print "fitting: data",data
358	list = value.get_model()
359	model= list[0]
360	#Create dictionary of parameters for fitting used
361	pars = []
362	templist = []
363	templist = page.get_param_list()
364	for element in templist:
365	try:
366	name = str(element[0].GetLabelText())
367	pars.append(name)
368	except:
369	wx.PostEvent(self.parent, StatusEvent(status="Fitting error: %s" % sys.exc_value))
370	return
371	self.fitter.set_model(Model(model), self.id, pars)
372	self.fitter.set_data(data,self.id,qmin,qmax)
373
374	self.id += 1
375	except:
376	wx.PostEvent(self.parent, StatusEvent(status="Fitting error: %s" % sys.exc_value))
377	return
378	#Do the simultaneous fit
379	try:
380	result=self.fitter.fit()
381	self._simul_fit_completed(result,qmin,qmax)
382	except:
383	wx.PostEvent(self.parent, StatusEvent(status="Simultaneous Fitting error: %s" % sys.exc_value))
384	return
385
386
387	def _onset_engine(self,event):
388	""" set engine to scipy"""
389	if self._fit_engine== 'park':
390	self._on_change_engine('scipy')
391	else:
392	self._on_change_engine('park')
393	wx.PostEvent(self.parent, StatusEvent(status="Engine set to: %s" % self._fit_engine))
394
395
396
397	def _on_change_engine(self, engine='park'):
398	"""
399	Allow to select the type of engine to perform fit
400	@param engine: the key work of the engine
401	"""
402	self._fit_engine = engine
403
404
405	def _on_model_panel(self, evt):
406	"""
407	react to model selection on any combo box or model menu.plot the model
408	"""
409	model = evt.model
410	name = evt.name
411	sim_page=self.fit_panel.get_page(0)
412	current_pg = self.fit_panel.get_current_page()
413	if current_pg != sim_page:
414	current_pg.set_model_name(name)
415	current_pg.set_panel(model)
416	try:
417	data=self.page_finder[current_pg].get_data()
418	M_name="M"+str(self.index_model)+"= "+name+"("+data.group_id+")"
419	except:
420	raise
421	M_name="M"+str(self.index_model)+"= "+name
422	model.name="M"+str(self.index_model)
423	self.index_model += 1
424	self.page_finder[current_pg].set_theory("Fitness")
425	#print "on model",model.name
426	self.page_finder[current_pg].set_model(model,M_name)
427	self.plot_helper(currpage= current_pg,qmin= None,qmax= None)
428	sim_page.add_model(self.page_finder)
429
430
431	def redraw_model(self,qmin= None,qmax= None):
432	"""
433	Draw a theory according to model changes or data range.
434	@param qmin: the minimum value plotted for theory
435	@param qmax: the maximum value plotted for theory
436	"""
437	current_pg=self.fit_panel.get_current_page()
438	for page, value in self.page_finder.iteritems():
439	if page ==current_pg :
440	break
441	self.plot_helper(currpage=page,qmin= qmin,qmax= qmax)
442
443	def plot_helper(self,currpage,qmin=None,qmax=None):
444	"""
445	Plot a theory given a model and data
446	@param model: the model from where the theory is derived
447	@param currpage: page in a dictionary referring to some data
448	"""
449	if self.fit_panel.get_page_count() >1:
450	for page in self.page_finder.iterkeys():
451	if page==currpage :
452	break
453
454	data=self.page_finder[page].get_data()
455	list=self.page_finder[page].get_model()
456	model=list[0]
457	if data!=None:
458	theory = Theory1D(x=[], y=[])
459	theory.name = self.page_finder[page].get_theory()
460	theory.group_id = data.group_id
461
462	x_name, x_units = data.get_xaxis()
463	y_name, y_units = data.get_yaxis()
464	theory.xaxis(x_name, x_units)
465	theory.yaxis(y_name, y_units)
466
467	if qmin == None :
468	qmin = min(data.x)
469	if qmax == None :
470	qmax = max(data.x)
471	try:
472	tempx = qmin
473	tempy = model.run(qmin)
474	theory.x.append(tempx)
475	theory.y.append(tempy)
476	except :
477	wx.PostEvent(self.parent, StatusEvent(status="fitting \
478	skipping point x %g %s" %(qmin, sys.exc_value)))
479
480	for i in range(len(data.x)):
481	try:
482	if data.x[i]> qmin and data.x[i]< qmax:
483	tempx = data.x[i]
484	tempy = model.run(tempx)
485
486	theory.x.append(tempx)
487	theory.y.append(tempy)
488	except:
489	wx.PostEvent(self.parent, StatusEvent(status="fitting \
490	skipping point x %g %s" %(data.x[i], sys.exc_value)))
491	try:
492	tempx = qmax
493	tempy = model.run(qmax)
494	theory.x.append(tempx)
495	theory.y.append(tempy)
496	except:
497	wx.PostEvent(self.parent, StatusEvent(status="fitting \
498	skipping point x %g %s" %(qmax, sys.exc_value)))
499	try:
500	from sans.guicomm.events import NewPlotEvent
501	wx.PostEvent(self.parent, NewPlotEvent(plot=theory, title="Analytical model"))
502	except:
503	raise
504	print "SimView.complete1D: could not import sans.guicomm.events"
505
506
507	def _on_model_menu(self, evt):
508	"""
509	Plot a theory from a model selected from the menu
510	"""
511	name="Model View"
512	model=evt.modelinfo.model()
513	description=evt.modelinfo.description
514	self.fit_panel.add_model_page(model,description,name)
515	self.draw_model(model)
516
517	def draw_model(self,model):
518	"""
519	draw model with default data value
520	"""
521	x = pylab.arange(0.001, 0.1, 0.001)
522	xlen = len(x)
523	dy = numpy.zeros(xlen)
524	y = numpy.zeros(xlen)
525
526	for i in range(xlen):
527	y[i] = model.run(x[i])
528	dy[i] = math.sqrt(math.fabs(y[i]))
529	try:
530
531	new_plot = Theory1D(x, y)
532	new_plot.name ="Fitness"
533	new_plot.xaxis("\\rm{Q}", 'A^{-1}')
534	new_plot.yaxis("\\rm{Intensity} ","cm^{-1}")
535
536	wx.PostEvent(self.parent, NewPlotEvent(plot=new_plot, title="Analytical model"))
537	except:
538	print "SimView.complete1D: could not import sans.guicomm.events"
539
540	if __name__ == "__main__":
541	i = Plugin()
542
543
544
545

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source: sasview/sansview/perspectives/fitting/fitting.py @ 3b19ac9

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