fitting.py @ c8c5b9a

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 c8c5b9a was 1b07935d, checked in by Gervaise Alina <gervyh@…>, 16 years ago
creating a panel for model display
Property mode set to `100644`
File size: 22.1 KB

Rev	Line
[d89f09b]	1	import os,os.path, re
	2	import sys, wx, logging
	3	import string, numpy, pylab, math
	4
	5	from sans.guitools.plottables import Data1D, Theory1D
	6	from sans.guitools.PlotPanel import PlotPanel
	7	from sans.guicomm.events import NewPlotEvent, StatusEvent
	8	from copy import deepcopy
	9	from sans.fit.AbstractFitEngine import Model
	10	from sans.fit.AbstractFitEngine import Data
	11	from fitproblem import FitProblem
	12	from fitpanel import FitPanel
	13
	14	import models
	15	import fitpage
	16	class PlottableData(Data,Data1D):
	17	""" class plottable data"""
	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	class Plugin:
	32	"""
	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 = 'park'
	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
	68	#menu for model
	69	menu2 = wx.Menu()
	70	self.menu_mng.populate_menu(menu2, owner)
	71	id2 = wx.NewId()
	72	owner.Bind(models.EVT_MODEL,self._on_model_menu)
	73	self.fit_panel.set_owner(owner)
	74	self.fit_panel.set_model_list(self.menu_mng.get_model_list())
	75	owner.Bind(fitpage.EVT_MODEL_BOX,self._on_model_panel)
[1b07935d]	76	#owner.Bind(modelpage.EVT_MODEL_DRAW,self.draw_model)
[d89f09b]	77
	78	return [(id, self.menu1, "Fitting"),(id2, menu2, "Model")]
	79
	80
	81	def help(self, evt):
	82	"""
	83	Show a general help dialog.
	84	TODO: replace the text with a nice image
	85	"""
	86	pass
	87
	88	def get_context_menu(self, graph=None):
	89	"""
	90	Get the context menu items available for P(r)
	91	@param graph: the Graph object to which we attach the context menu
	92	@return: a list of menu items with call-back function
	93	"""
	94
	95	self.graph=graph
	96	for item in graph.plottables:
	97	if item.name==graph.selected_plottable and item.__class__.__name__ is not "Theory1D":
	98	return [["Select Data", "Dialog with fitting parameters ", self._onSelect]]
	99	return []
	100
	101
	102	def get_panels(self, parent):
	103	"""
	104	Create and return a list of panel objects
	105	"""
	106	self.parent = parent
	107	# Creation of the fit panel
	108	self.fit_panel = FitPanel(self.parent, -1)
	109	#Set the manager forthe main panel
	110	self.fit_panel.set_manager(self)
	111	# List of windows used for the perspective
	112	self.perspective = []
	113	self.perspective.append(self.fit_panel.window_name)
	114	# take care of saving data, model and page associated with each other
	115	self.page_finder={}
	116	self.index_model=0
	117	return [self.fit_panel]
	118
	119
	120	def get_perspective(self):
	121	"""
	122	Get the list of panel names for this perspective
	123	"""
	124	return self.perspective
	125
	126
	127	def on_perspective(self, event):
	128	"""
	129	Call back function for the perspective menu item.
	130	We notify the parent window that the perspective
	131	has changed.
	132	"""
	133	self.parent.set_perspective(self.perspective)
	134
	135
	136	def post_init(self):
	137	"""
	138	Post initialization call back to close the loose ends
	139	[Somehow openGL needs this call]
	140	"""
	141	self.parent.set_perspective(self.perspective)
	142
	143
	144	def _onSelect(self,event):
	145	"""
	146	when Select data to fit a new page is created .Its reference is
	147	added to self.page_finder
	148	"""
	149	self.panel = event.GetEventObject()
	150	for item in self.panel.graph.plottables:
	151	if item.name == self.panel.graph.selected_plottable:
	152	try:
	153	name = item.group_id # item in Data1D
	154	except:
	155	name = 'Fit'
	156	try:
[1b07935d]	157	page = self.fit_panel.add_fit_page(name)
[d89f09b]	158	page.set_data_name(item)
	159	self.page_finder[page]= FitProblem()
	160	#creating Data type
	161	data1= Data(sans_data=item)
	162	datas=PlottableData(data=data1,data1d=item)
	163	self.page_finder[page].add_data(datas)
	164	except:
	165	raise
	166	wx.PostEvent(self.parent, StatusEvent(status="Fitting error: \
	167	data already Selected "))
	168
	169
	170	def get_page_finder(self):
	171	""" @return self.page_finder used also by simfitpage.py"""
	172	return self.page_finder
	173
	174
	175	def set_page_finder(self,modelname,param,values):
	176	"""
	177	Used by simfitpage.py to reset a parameter given the string constrainst.
	178	@param modelname: the name ot the model for with the parameter has to reset
	179	@param value: can be a string in this case.
	180	@note: expecting park used for fit.
	181	"""
	182	sim_page=self.fit_panel.get_page(0)
	183	for page, value in self.page_finder.iteritems():
	184	if page != sim_page:
	185	list=value.get_model()
	186	model=list[0]
	187	if model.name== modelname:
	188	value.set_model_param(param,values)
	189	break
	190
	191
	192
	193	def split_string(self,item):
	194	"""
	195	recieve a word containing ""
	196	"""
	197	#print "fitting: split :went here"
	198
	199	if string.find(item,".")!=-1:
	200	param_names= re.split("\.",item)
	201	model_name=param_names[0]
	202	param_name=param_names[1]
	203	return model_name,param_name
	204
	205
	206	def _single_fit_completed(self,result,pars,current_pg,qmin,qmax):
	207	"""
	208
	209	"""
	210
	211	try:
	212	for page, value in self.page_finder.iteritems():
	213	if page== current_pg:
	214	data = value.get_data()
	215	list = value.get_model()
	216	model= list[0]
	217	break
	218	#print "fitting : result",result,result.pvec,result.cov,result.fitness
	219	i = 0
	220	for name in pars:
	221	if result.pvec.__class__==numpy.float64:
[1b07935d]	222	model.setParam(name,result.pvec)
[d89f09b]	223	else:
[1b07935d]	224	model.setParam(name,result.pvec[i])
[d89f09b]	225	#print "fitting: i name out[i]", i,name,float(result.pvec[i])
	226	i += 1
	227	new_cov=[]
	228	if result.cov !=None:
	229	for j in range(len(result.cov)):
	230	new_cov.append(result.cov[j][j])
	231	else:
	232	new_cov=None
	233	current_pg.onsetValues(result.fitness, result.pvec,new_cov)
	234	self.plot_helper(currpage=current_pg,qmin=qmin,qmax=qmax)
	235	except:
	236	wx.PostEvent(self.parent, StatusEvent(status="Fitting error: %s" % sys.exc_value))
	237
	238
	239	def _simul_fit_completed(self,result,qmin,qmax):
	240	"""
	241	Parameter estimation completed,
	242	display the results to the user
	243	@param alpha: estimated best alpha
	244	@param elapsed: computation time
	245	"""
	246	try:
	247	for page, value in self.page_finder.iteritems():
	248	data = value.get_data()
	249	list = value.get_model()
	250	model= list[0]
	251
	252	small_out = []
	253	small_cov = []
	254	i = 0
	255	for p in result.parameters:
	256	print "fitting: fit in park fitting", p.name, p.value,p.stderr
	257	model_name,param_name = self.split_string(p.name)
[1b07935d]	258	print "fitting: simultfit",model.name,model_name,param_name ,p.name,param_name,p.value
	259	if model.name == model_name:
[d89f09b]	260	print "fitting: hello",p.name,param_name,p.value
	261	small_out.append(p.value )
	262	small_cov.append(p.stderr)
[1b07935d]	263	model.setParam(param_name,p.value)
[d89f09b]	264	#print "fitting: out of each page",page,small_out,small_cov,data.group_id
	265	page.onsetValues(result.fitness, small_out,small_cov)
	266	self.plot_helper(currpage= page,qmin= qmin,qmax= qmax)
	267	except:
	268	wx.PostEvent(self.parent, StatusEvent(status="Fitting error: %s" % sys.exc_value))
	269
	270
	271	def _completed(self,result,pars,current_pg, elapsed):
	272	"""
	273	Method called with the results when the inversion
	274	is done
	275
	276	@param out: output coefficient for the base functions
	277	@param cov: covariance matrix
	278	@param pr: Invertor instance
	279	@param elapsed: time spent computing
	280	"""
	281
	282	# Save useful info
	283	self.elapsed = elapsed
	284	# Keep a copy of the last result
	285	self._last_out = result.pvec
	286	self._last_cov = result.cov
	287	self._last_chisqr=result.fitness
	288	#print "fitting: initial parameter ",pars
	289	#result=self.fitter.fit(qmin,qmax)
	290
	291	#print "fitting : result",result,result.pvec,result.cov,result.fitness
	292	i = 0
	293	for name in pars:
	294	if result.pvec.__class__==numpy.float64:
	295	model.model.setParam(name,result.pvec)
	296	else:
	297	model.model.setParam(name,result.pvec[i])
	298	#print "fitting: i name out[i]", i,name,float(result.pvec[i])
	299	i += 1
	300	new_cov=[]
	301	if result.cov !=None:
	302	for j in range(len(result.cov)):
	303	new_cov.append(result.cov[j][j])
	304	else:
	305	new_cov=None
	306	current_pg.onsetValues(result.fitness, result.pvec,new_cov)
	307	self.plot_helper(currpage=current_pg,qmin=qmin,qmax=qmax)
	308
	309
	310	def _on_single_fit(self,id=None,qmin=None,qmax=None):
	311	"""
	312	perform fit for the current page and return chisqr,out and cov
	313	@param engineName: type of fit to be performed
	314	@param id: unique id corresponding to a fit problem(model, set of data)
	315	@param model: model to fit
	316
	317	"""
	318	#set an engine to perform fit
	319	from sans.fit.Fitting import Fit
	320	self.fitter= Fit(self._fit_engine)
	321	#Setting an id to store model and data
	322	if id==None:
	323	id=0
	324	self.id=id
	325	current_pg=self.fit_panel.get_current_page()
	326	for page, value in self.page_finder.iteritems():
	327	if page ==current_pg :
	328	#print "fitting: self.page_finder",self.page_finder
	329	data = value.get_data()
	330	list=value.get_model()
	331	model=list[0]
	332
	333	#Create dictionary of parameters for fitting used
	334	pars=[]
	335	templist=[]
	336	try:
	337	templist=current_pg.get_param_list()
	338	except:
	339	raise
	340	wx.PostEvent(self.parent, StatusEvent(status="Fitting error: %s" % sys.exc_value))
	341	return
	342	#for element in templist:
	343	# print "fitting: templist",str(element[0].GetLabelText())
	344	#print "fitting: model list",model.getParamList()
	345	for element in templist:
	346	try:
	347	pars.append(str(element[0].GetLabelText()))
	348	except:
	349	raise
	350	wx.PostEvent(self.parent, StatusEvent(status="Fitting error: %s" % sys.exc_value))
	351	return
	352	#print "fitting: pars",pars
	353	pars.sort()
	354
	355	self.fitter.set_model(model,model.name, self.id, pars)
	356	self.fitter.set_data(data,self.id,qmin,qmax)
	357	#Do the fit SCIPY
	358	try:
	359	result=self.fitter.fit()
	360	self._single_fit_completed(result,pars,current_pg,qmin,qmax)
	361
	362	except:
	363	wx.PostEvent(self.parent, StatusEvent(status="Single Fit error: %s" % sys.exc_value))
	364	return
	365
	366	def _on_simul_fit(self, id=None,qmin=None,qmax=None):
	367	"""
	368	perform fit for all the pages selected on simpage and return chisqr,out and cov
	369	@param engineName: type of fit to be performed
	370	@param id: unique id corresponding to a fit problem(model, set of data)
	371	in park_integration
	372	@param model: model to fit
	373
	374	"""
	375	#print "fitting: probabily breaking on fit call"
	376	#set an engine to perform fit
	377	from sans.fit.Fitting import Fit
	378	self.fitter= Fit(self._fit_engine)
	379	#Setting an id to store model and data
	380	if id==None:
	381	id = 0
	382	self.id = id
	383	for page, value in self.page_finder.iteritems():
	384	try:
	385	#print "fitting: self.page_finder",value
	386	data = value.get_data()
	387	#print "fitting: data",data
	388	list = value.get_model()
	389	model= list[0]
	390	if data != None :
	391	#Create dictionary of parameters for fitting used
	392	pars = []
	393	templist = []
	394	try:
	395	templist = page.get_param_list()
	396	except:
	397	wx.PostEvent(self.parent, StatusEvent(status="Fitting error: %s" % sys.exc_value))
	398	return
	399
	400	for element in templist:
	401	try:
	402	name = str(element[0].GetLabelText())
	403	pars.append(name)
	404	except:
	405	wx.PostEvent(self.parent, StatusEvent(status="Fitting error: %s" % sys.exc_value))
	406	return
	407
	408	print "fitting: pars",pars,model.name
	409	#print "fitter",self.fitter
	410	#print "fitting: model name",model.name
[1b07935d]	411	self.fitter.set_model(Model(model),model.name, self.id, pars)
[d89f09b]	412	self.fitter.set_data(data,self.id,qmin,qmax)
	413	else:
	414	raise ValueError," Fitting: cannot set model with empty parameter"
	415	self.id += 1
	416	except:
	417	raise
	418	wx.PostEvent(self.parent, StatusEvent(status="Fitting error: %s" % sys.exc_value))
	419	return
	420	#Do the fit SCIPY
	421	try:
	422	result=self.fitter.fit()
	423	self._simul_fit_completed(result,qmin,qmax)
	424	except:
	425	raise
	426	wx.PostEvent(self.parent, StatusEvent(status="Simultaneous Fitting error: %s" % sys.exc_value))
	427	return
	428
	429	def _on_change_engine(self, engine='park'):
	430	"""
	431	Allow to select the type of engine to perform fit
	432	@param engine: the key work of the engine
	433	"""
	434	self._fit_engine = engine
	435
	436
	437	def _on_model_panel(self, evt):
	438	"""
	439	react to model selection on any combo box or model menu.plot the model
	440	"""
	441	model = evt.model
	442	name = evt.name
	443	sim_page=self.fit_panel.get_page(0)
	444	current_pg = self.fit_panel.get_current_page()
	445	if current_pg != sim_page:
	446	current_pg.set_model_name(name)
	447	current_pg.set_panel(model)
	448	try:
	449	data=self.page_finder[current_pg].get_data()
	450	M_name="M"+str(self.index_model)+"= "+name+"("+data.group_id+")"
	451	except:
	452	raise
	453	M_name="M"+str(self.index_model)+"= "+name
	454	model.name="M"+str(self.index_model)
	455	self.index_model += 1
	456	self.page_finder[current_pg].set_theory("Fitness")
	457	#print "on model",model.name
[1b07935d]	458	self.page_finder[current_pg].set_model(model,M_name)
[d89f09b]	459	self.plot_helper(currpage= current_pg,qmin= None,qmax= None)
	460	sim_page.add_model(self.page_finder)
	461
	462
	463	def redraw_model(self,qmin= None,qmax= None):
	464	"""
	465	Draw a theory according to model changes or data range.
	466	@param qmin: the minimum value plotted for theory
	467	@param qmax: the maximum value plotted for theory
	468	"""
	469	current_pg=self.fit_panel.get_current_page()
	470	for page, value in self.page_finder.iteritems():
	471	if page ==current_pg :
	472	break
	473	self.plot_helper(currpage=page,qmin= qmin,qmax= qmax)
	474
	475	def plot_helper(self,currpage,qmin=None,qmax=None):
	476	"""
	477	Plot a theory given a model and data
	478	@param model: the model from where the theory is derived
	479	@param currpage: page in a dictionary referring to some data
	480	"""
	481	#print "fitting: plot helper"
	482	if self.fit_panel.get_page_count() >1:
	483	for page in self.page_finder.iterkeys():
	484	if page==currpage :
	485	break
	486
	487	data=self.page_finder[page].get_data()
	488	list=self.page_finder[page].get_model()
	489	model=list[0]
	490	if data!=None:
	491	theory = Theory1D(x=[], y=[])
	492	theory.name = self.page_finder[page].get_theory()
	493	theory.group_id = data.group_id
	494
	495	x_name, x_units = data.get_xaxis()
	496	y_name, y_units = data.get_yaxis()
	497	theory.xaxis(x_name, x_units)
	498	theory.yaxis(y_name, y_units)
	499
	500	if qmin == None :
	501	qmin = min(data.x)
	502	if qmax == None :
	503	qmax = max(data.x)
	504	try:
	505	tempx = qmin
[1b07935d]	506	tempy = model.run(qmin)
[d89f09b]	507	theory.x.append(tempx)
	508	theory.y.append(tempy)
	509	except :
	510	wx.PostEvent(self.parent, StatusEvent(status="fitting \
	511	skipping point x %g %s" %(qmin, sys.exc_value)))
	512
	513	for i in range(len(data.x)):
	514	try:
	515	if data.x[i]> qmin and data.x[i]< qmax:
	516	tempx = data.x[i]
[1b07935d]	517	tempy = model.run(tempx)
[d89f09b]	518
	519	theory.x.append(tempx)
	520	theory.y.append(tempy)
	521	except:
	522	wx.PostEvent(self.parent, StatusEvent(status="fitting \
	523	skipping point x %g %s" %(data.x[i], sys.exc_value)))
	524	try:
	525	tempx = qmax
[1b07935d]	526	tempy = model.run(qmax)
[d89f09b]	527	theory.x.append(tempx)
	528	theory.y.append(tempy)
	529	except:
	530	wx.PostEvent(self.parent, StatusEvent(status="fitting \
	531	skipping point x %g %s" %(qmax, sys.exc_value)))
	532	try:
	533	from sans.guicomm.events import NewPlotEvent
	534	#print"fitting: theory",theory
	535	wx.PostEvent(self.parent, NewPlotEvent(plot=theory, title="Analytical model"))
	536	except:
	537	raise
	538	print "SimView.complete1D: could not import sans.guicomm.events"
	539
	540
	541	def _on_model_menu(self, evt):
	542	"""
	543	Plot a theory from a model selected from the menu
	544	"""
[1b07935d]	545	#name = evt.model.__class__.__name__
	546	name="Model View"
	547	self.fit_panel.add_model_page(evt.model,name)
	548	self.draw_model(evt.model)
	549
	550	def draw_model(self,model):
[d89f09b]	551	x = pylab.arange(0.001, 0.1, 0.001)
	552	xlen = len(x)
	553	dy = numpy.zeros(xlen)
	554	y = numpy.zeros(xlen)
	555
	556	for i in range(xlen):
[1b07935d]	557	y[i] = model.run(x[i])
[d89f09b]	558	dy[i] = math.sqrt(math.fabs(y[i]))
	559	try:
	560
	561	new_plot = Theory1D(x, y)
	562	#new_plot.name = evt.model.__class__.__name__
	563	new_plot.name ="Fitness"
	564	new_plot.xaxis("\\rm{Q}", 'A^{-1}')
	565	new_plot.yaxis("\\rm{Intensity} ","cm^{-1}")
	566
	567	wx.PostEvent(self.parent, NewPlotEvent(plot=new_plot, title="Analytical model"))
	568	except:
	569	print "SimView.complete1D: could not import sans.guicomm.events"
	570
	571	if __name__ == "__main__":
	572	i = Plugin()
	573
	574
	575
	576

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source: sasview/sansview/perspectives/fitting/fitting.py @ c8c5b9a

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