fitting.py @ 70468a5

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 70468a5 was 0145a25, checked in by Jae Cho <jhjcho@…>, 13 years ago
minor changes for plot labeling
Property mode set to `100644`
File size: 67.6 KB

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2
3	################################################################################
4	#This software was developed by the University of Tennessee as part of the
5	#Distributed Data Analysis of Neutron Scattering Experiments (DANSE)
6	#project funded by the US National Science Foundation.
7	#
8	#See the license text in license.txt
9	#
10	#copyright 2009, University of Tennessee
11	################################################################################
12
13
14	import re
15	import sys
16	import wx
17	import logging
18	import numpy
19	import string
20	import time
21	from copy import deepcopy
22	import models
23	import fitpage
24
25
26	from DataLoader.loader import Loader
27	from sans.guiframe.dataFitting import Data2D
28	from sans.guiframe.dataFitting import Data1D
29	from sans.guiframe.events import NewPlotEvent
30	from sans.guiframe.events import StatusEvent
31	from sans.guiframe.events import EVT_SLICER_PANEL
32	from sans.guiframe.events import EVT_SLICER_PARS_UPDATE
33	from sans.guiframe.gui_style import GUIFRAME_ID
34	from sans.guiframe.plugin_base import PluginBase
35
36	#from .console import ConsoleUpdate
37	from .fitproblem import FitProblem
38	from .fitpanel import FitPanel
39	#from .fit_thread import FitThread
40	from .pagestate import Reader
41	from .fitpage import Chi2UpdateEvent
42
43	DEFAULT_BEAM = 0.005
44	DEFAULT_QMIN = 0.001
45	DEFAULT_QMAX = 0.13
46	DEFAULT_NPTS = 50
47	MAX_NBR_DATA = 4
48	SANS_F_TOL = 5e-05
49
50	(PageInfoEvent, EVT_PAGE_INFO) = wx.lib.newevent.NewEvent()
51
52	if sys.platform.count("darwin")==0:
53	ON_MAC = False
54	else:
55	ON_MAC = True
56
57	class Plugin(PluginBase):
58	"""
59	Fitting plugin is used to perform fit
60	"""
61	def __init__(self, standalone=False):
62	PluginBase.__init__(self, name="Fitting", standalone=standalone)
63
64	#list of panel to send to guiframe
65	self.mypanels = []
66	# reference to the current running thread
67	self.calc_2D = None
68	self.calc_1D = None
69	self.fit_thread_list = {}
70	self.residuals = None
71	self.fit_panel = None
72	# Start with a good default
73	self.elapsed = 0.022
74	# the type of optimizer selected, park or scipy
75	self.fitter = None
76	self.fit_panel = None
77	#let fit ready
78	self.fitproblem_count = None
79	#Flag to let the plug-in know that it is running stand alone
80	self.standalone = True
81	## dictionary of page closed and id
82	self.closed_page_dict = {}
83	## Fit engine
84	self._fit_engine = 'scipy'
85	## Relative error desired in the sum of squares (float); scipy only
86	self.ftol = SANS_F_TOL
87	#List of selected data
88	self.selected_data_list = []
89	## list of slicer panel created to display slicer parameters and results
90	self.slicer_panels = []
91	# model 2D view
92	self.model2D_id = None
93	#keep reference of the simultaneous fit page
94	self.sim_page = None
95	self.index_model = 0
96	#Create a reader for fit page's state
97	self.state_reader = None
98	self._extensions = '.fitv'
99	self.scipy_id = wx.NewId()
100	self.park_id = wx.NewId()
101
102	self.temp_state = []
103	self.state_index = 0
104	self.sfile_ext = None
105	# take care of saving data, model and page associated with each other
106	self.page_finder = {}
107	# Log startup
108	logging.info("Fitting plug-in started")
109
110	def populate_menu(self, owner):
111	"""
112	Create a menu for the Fitting plug-in
113
114	:param id: id to create a menu
115	:param owner: owner of menu
116
117	:return: list of information to populate the main menu
118
119	"""
120	#Menu for fitting
121	self.menu1 = wx.Menu()
122	id1 = wx.NewId()
123	simul_help = "Add new fit panel"
124	self.menu1.Append(id1, '&New Fit Page',simul_help)
125	wx.EVT_MENU(owner, id1, self.on_add_new_page)
126	self.menu1.AppendSeparator()
127	id1 = wx.NewId()
128	simul_help = "Simultaneous Fit"
129	self.menu1.Append(id1, '&Simultaneous Fit',simul_help)
130	wx.EVT_MENU(owner, id1, self.on_add_sim_page)
131	self.menu1.AppendSeparator()
132	#Set park engine
133
134	scipy_help= "Scipy Engine: Perform Simple fit. More in Help window...."
135	self.menu1.AppendCheckItem(self.scipy_id, "Simple FitEngine [LeastSq]",
136	scipy_help)
137	wx.EVT_MENU(owner, self.scipy_id, self._onset_engine_scipy)
138
139	park_help = "Park Engine: Perform Complex fit. More in Help window...."
140	self.menu1.AppendCheckItem(self.park_id, "Complex FitEngine [ParkMC]",
141	park_help)
142	wx.EVT_MENU(owner, self.park_id, self._onset_engine_park)
143
144	self.menu1.FindItemById(self.scipy_id).Check(True)
145	self.menu1.FindItemById(self.park_id).Check(False)
146	self.menu1.AppendSeparator()
147	self.id_tol = wx.NewId()
148	ftol_help = "Change the current FTolerance (=%s) " % str(self.ftol)
149	ftol_help += "of Simple FitEngine..."
150	self.menu1.Append(self.id_tol, "Change FTolerance [LeastSq Only]",
151	ftol_help)
152	wx.EVT_MENU(owner, self.id_tol, self.show_ftol_dialog)
153
154
155	#create menubar items
156	return [(self.menu1, self.sub_menu)]
157
158	def on_add_sim_page(self, event):
159	"""
160	Create a page to access simultaneous fit option
161	"""
162	if self.sim_page != None:
163	msg= "Simultaneous Fit page already opened"
164	wx.PostEvent(self.parent, StatusEvent(status= msg))
165	return
166
167	self.sim_page= self.fit_panel.add_sim_page()
168
169	def help(self, evt):
170	"""
171	Show a general help dialog.
172	"""
173	from help_panel import HelpWindow
174	frame = HelpWindow(None, -1, 'HelpWindow')
175	frame.Show(True)
176
177	def get_context_menu(self, plotpanel=None):
178	"""
179	Get the context menu items available for P(r).them allow fitting option
180	for Data2D and Data1D only.
181
182	:param graph: the Graph object to which we attach the context menu
183
184	:return: a list of menu items with call-back function
185
186	:note: if Data1D was generated from Theory1D
187	the fitting option is not allowed
188
189	"""
190	graph = plotpanel.graph
191	fit_option = "Select data for fitting"
192	fit_hint = "Dialog with fitting parameters "
193
194	if graph.selected_plottable not in plotpanel.plots:
195	return []
196	item = plotpanel.plots[graph.selected_plottable]
197	if item.__class__.__name__ is "Data2D":
198	if hasattr(item,"is_data"):
199	if item.is_data:
200	return [[fit_option, fit_hint, self._onSelect]]
201	else:
202	return []
203	return [[fit_option, fit_hint, self._onSelect]]
204	else:
205
206	# if is_data is true , this in an actual data loaded
207	#else it is a data created from a theory model
208	if hasattr(item,"is_data"):
209	if item.is_data:
210	return [[fit_option, fit_hint,
211	self._onSelect]]
212	else:
213	return []
214	return []
215
216
217	def get_panels(self, parent):
218	"""
219	Create and return a list of panel objects
220	"""
221	self.parent = parent
222	#self.parent.Bind(EVT_FITSTATE_UPDATE, self.on_set_state_helper)
223	# Creation of the fit panel
224	self.fit_panel = FitPanel(parent=self.parent, manager=self)
225	self.on_add_new_page(event=None)
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
232	#index number to create random model name
233	self.index_model = 0
234	self.index_theory= 0
235	self.parent.Bind(EVT_SLICER_PANEL, self._on_slicer_event)
236	self.parent.Bind(EVT_SLICER_PARS_UPDATE, self._onEVT_SLICER_PANEL)
237	self.parent._mgr.Bind(wx.aui.EVT_AUI_PANE_CLOSE,self._onclearslicer)
238	#Create reader when fitting panel are created
239	self.state_reader = Reader(self.set_state)
240	#append that reader to list of available reader
241	loader = Loader()
242	loader.associate_file_reader(".fitv", self.state_reader)
243	#loader.associate_file_reader(".svs", self.state_reader)
244	#from sans.perspectives.calculator.sld_panel import SldPanel
245	#Send the fitting panel to guiframe
246	self.mypanels.append(self.fit_panel)
247	#self.mypanels.append(SldPanel(parent=self.parent, base=self.parent))
248	return self.mypanels
249
250	def clear_panel(self):
251	"""
252	"""
253	self.fit_panel.clear_panel()
254
255	def set_default_perspective(self):
256	"""
257	Call back method that True to notify the parent that the current plug-in
258	can be set as default perspective.
259	when returning False, the plug-in is not candidate for an automatic
260	default perspective setting
261	"""
262	return True
263
264	def delete_data(self, data):
265	"""
266	delete the given data from panel
267	"""
268	self.fit_panel.delete_data(data)
269
270	def set_data(self, data_list=None):
271	"""
272	receive a list of data to fit
273	"""
274	if data_list is None:
275	data_list = []
276	selected_data_list = []
277	if len(data_list) > MAX_NBR_DATA :
278	from fitting_widgets import DataDialog
279	dlg = DataDialog(data_list=data_list, nb_data=MAX_NBR_DATA)
280	if dlg.ShowModal() == wx.ID_OK:
281	selected_data_list = dlg.get_data()
282	dlg.Destroy()
283
284	else:
285	selected_data_list = data_list
286	try:
287	for data in selected_data_list:
288	page = self.add_fit_page(data=data)
289	wx.PostEvent(self.parent, NewPlotEvent(plot=data,
290	title=str(data.title)))
291	except:
292	msg = "Fitting Set_data: " + str(sys.exc_value)
293	wx.PostEvent(self.parent, StatusEvent(status=msg, info="error"))
294
295	def set_top_panel(self):
296	"""
297	Close default (welcome) panel
298	"""
299	if 'default' in self.parent.panels:
300	self.parent.on_close_welcome_panel()
301
302
303	def set_theory(self, theory_list=None):
304	"""
305	"""
306	#set the model state for a given theory_state:
307	for item in theory_list:
308	try:
309	_, theory_state = item
310	self.fit_panel.set_model_state(theory_state)
311	except:
312	msg = "Fitting: cannot deal with the theory received"
313	logging.error("set_theory " + msg + "\n" + str(sys.exc_value))
314	wx.PostEvent(self.parent, StatusEvent(status=msg, info="error"))
315
316	def set_state(self, state=None, datainfo=None, format=None):
317	"""
318	Call-back method for the fit page state reader.
319	This method is called when a .fitv/.svs file is loaded.
320
321	: param state: PageState object
322	: param datainfo: data
323	"""
324	#state = self.state_reader.get_state()
325	if state != None:
326	state = state.clone()
327	# store fitting state in temp_state
328	self.temp_state.append(state)
329	else:
330	self.temp_state = []
331	# index to start with for a new set_state
332	self.state_index = 0
333	# state file format
334	self.sfile_ext = format
335
336	self.on_set_state_helper(event=None)
337
338	def on_set_state_helper(self,event=None):
339	"""
340	Set_state_helper. This actually sets state after plotting data from state file.
341
342	: event: FitStateUpdateEvent called by dataloader.plot_data from guiframe
343	"""
344	if len(self.temp_state) == 0:
345	if self.state_index==0 and len(self.mypanels) <= 0 and self.sfile_ext =='.svs':
346	self.fit_panel.add_default_pages()
347	self.temp_state = []
348	self.state_index = 0
349	return
350
351	try:
352	# Load fitting state
353	state = self.temp_state[self.state_index]
354	#panel state should have model selection to set_state
355	if state.formfactorcombobox != None:
356	#set state
357	data = self.parent.create_gui_data(state.data)
358	data.group_id = state.data.group_id
359	self.parent.add_data(data_list={data.id:data})
360	wx.PostEvent(self.parent, NewPlotEvent(plot=data,
361	title=data.title))
362	#need to be fix later make sure we are sendind guiframe.data
363	#to panel
364	state.data = data
365	page = self.fit_panel.set_state(state)
366	else:
367	#just set data because set_state won't work
368	data = self.parent.create_gui_data(state.data)
369	data.group_id = state.data.group_id
370	self.parent.add_data(data_list={data.id:data})
371	wx.PostEvent(self.parent, NewPlotEvent(plot=data,
372	title=data.title))
373	page = self.add_fit_page(data)
374	caption = page.window_name
375	self.store_data(page=page.uid, data=data, caption=caption)
376	self.mypanels.append(page)
377
378	# get ready for the next set_state
379	self.state_index += 1
380
381	#reset state variables to default when all set_state is finished.
382	if len(self.temp_state) == self.state_index:
383
384	self.temp_state = []
385	#self.state_index = 0
386	# Make sure the user sees the fitting panel after loading
387	#self.parent.set_perspective(self.perspective)
388	self.on_perspective(event=None)
389	except:
390	self.state_index==0
391	self.temp_state = []
392	raise
393
394	def save_fit_state(self, filepath, fitstate):
395	"""
396	save fit page state into file
397	"""
398	self.state_reader.write(filename=filepath, fitstate=fitstate)
399
400	def set_fit_range(self, uid, qmin, qmax):
401	"""
402	Set the fitting range of a given page
403	"""
404	self.page_finder[uid].set_range(qmin=qmin, qmax=qmax)
405
406	def schedule_for_fit(self,value=0, uid=None,fitproblem =None):
407	"""
408	Set the fit problem field to 0 or 1 to schedule that problem to fit.
409	Schedule the specified fitproblem or get the fit problem related to
410	the current page and set value.
411
412	:param value: integer 0 or 1
413	:param fitproblem: fitproblem to schedule or not to fit
414
415	"""
416	if fitproblem !=None:
417	fitproblem.schedule_tofit(value)
418	else:
419	self.page_finder[uid].schedule_tofit(value)
420
421	def get_page_finder(self):
422	"""
423	return self.page_finder used also by simfitpage.py
424	"""
425	return self.page_finder
426
427	def set_page_finder(self,modelname,names,values):
428	"""
429	Used by simfitpage.py to reset a parameter given the string constrainst.
430
431	:param modelname: the name ot the model for with the parameter has to reset
432	:param value: can be a string in this case.
433	:param names: the paramter name
434
435	:note: expecting park used for fit.
436
437	"""
438	sim_page_id = self.sim_page.uid
439	for uid, value in self.page_finder.iteritems():
440	if uid != sim_page_id:
441	list = value.get_model()
442	model = list[0]
443	if model.name == modelname:
444	value.set_model_param(names, values)
445	break
446
447	def split_string(self,item):
448	"""
449	receive a word containing dot and split it. used to split parameterset
450	name into model name and parameter name example: ::
451
452	paramaterset (item) = M1.A
453	Will return model_name = M1 , parameter name = A
454
455	"""
456	if string.find(item,".")!=-1:
457	param_names= re.split("\.",item)
458	model_name=param_names[0]
459	##Assume max len is 3; eg., M0.radius.width
460	if len(param_names) == 3:
461	param_name=param_names[1]+"."+param_names[2]
462	else:
463	param_name=param_names[1]
464	return model_name,param_name
465
466	def set_ftol(self, ftol=None):
467	"""
468	Set ftol: Relative error desired in the sum of chi squares.
469	"""
470	# check if it is flaot
471	try:
472	f_tol = float(ftol)
473	except:
474	# default
475	f_tol = SANS_F_TOL
476
477	self.ftol = f_tol
478	# update ftol menu help strings
479	ftol_help = "Change the current FTolerance (=%s) " % str(self.ftol)
480	ftol_help += "of Simple FitEngine..."
481	self.menu1.SetHelpString(self.id_tol, ftol_help)
482
483	def show_ftol_dialog(self, event=None):
484	"""
485	Dialog to select ftol for Scipy
486	"""
487	#if event != None:
488	# event.Skip()
489	from ftol_dialog import ChangeFtol
490	panel = ChangeFtol(self.parent, self)
491	panel.ShowModal()
492
493	def stop_fit(self, uid):
494	"""
495	Stop the fit engine
496	"""
497	if uid in self.fit_thread_list.keys():
498	calc_fit = self.fit_thread_list[uid]
499	if calc_fit is not None and calc_fit.isrunning():
500	calc_fit.stop()
501	msg = "Fit stop!"
502	wx.PostEvent(self.parent, StatusEvent(status=msg, type="stop"))
503	del self.fit_thread_list[uid]
504	#set the fit button label of page when fit stop is trigger from
505	#simultaneous fit pane
506	if self.sim_page is not None and uid == self.sim_page.uid:
507	for uid, value in self.page_finder.iteritems():
508	if value.get_scheduled() == 1:
509	if uid in self.fit_panel.opened_pages.keys():
510	panel = self.fit_panel.opened_pages[uid]
511	panel. _on_fit_complete()
512
513	def set_smearer(self, uid, smearer, qmin=None, qmax=None, draw=True,
514	enable2D=False):
515	"""
516	Get a smear object and store it to a fit problem
517
518	:param smearer: smear object to allow smearing data
519
520	"""
521	if uid not in self.page_finder.keys():
522	msg = "Cannot find ID: %s in page_finder" % str(uid)
523	raise ValueError, msg
524	self.page_finder[uid].set_smearer(smearer)
525	self.page_finder[uid].set_enable2D(enable2D)
526	if draw:
527	## draw model 1D with smeared data
528	data = self.page_finder[uid].get_fit_data()
529	model = self.page_finder[uid].get_model()
530	if model is None:
531	return
532	enable1D = True
533	enable2D = self.page_finder[uid].get_enable2D()
534	if enable2D:
535	enable1D = False
536
537	## if user has already selected a model to plot
538	## redraw the model with data smeared
539	smear = self.page_finder[uid].get_smearer()
540	self.draw_model(model=model, data=data, page_id=uid, smearer=smear,
541	enable1D=enable1D, enable2D=enable2D,
542	qmin=qmin, qmax=qmax)
543	self._mac_sleep(0.2)
544
545	def _mac_sleep(self, sec=0.2):
546	"""
547	Give sleep to MAC
548	"""
549	if ON_MAC:
550	time.sleep(sec)
551
552	def draw_model(self, model, page_id, data=None, smearer=None,
553	enable1D=True, enable2D=False,
554	state=None,
555	toggle_mode_on=False,
556	qmin=DEFAULT_QMIN, qmax=DEFAULT_QMAX,
557	qstep=DEFAULT_NPTS,
558	update_chisqr=True):
559	"""
560	Draw model.
561
562	:param model: the model to draw
563	:param name: the name of the model to draw
564	:param data: the data on which the model is based to be drawn
565	:param description: model's description
566	:param enable1D: if true enable drawing model 1D
567	:param enable2D: if true enable drawing model 2D
568	:param qmin: Range's minimum value to draw model
569	:param qmax: Range's maximum value to draw model
570	:param qstep: number of step to divide the x and y-axis
571	:param update_chisqr: update chisqr [bool]
572
573	"""
574	if data.__class__.__name__ == "Data1D" or not enable2D:
575	## draw model 1D with no loaded data
576	self._draw_model1D(model=model,
577	data=data,
578	page_id=page_id,
579	enable1D=enable1D,
580	smearer=smearer,
581	qmin=qmin,
582	qmax=qmax,
583	toggle_mode_on=toggle_mode_on,
584	state=state,
585	qstep=qstep,
586	update_chisqr=update_chisqr)
587	else:
588	## draw model 2D with no initial data
589	self._draw_model2D(model=model,
590	page_id=page_id,
591	data=data,
592	enable2D=enable2D,
593	smearer=smearer,
594	qmin=qmin,
595	qmax=qmax,
596	state=state,
597	toggle_mode_on=toggle_mode_on,
598	qstep=qstep,
599	update_chisqr=update_chisqr)
600
601	def onFit(self, uid=None):
602	"""
603	perform fit
604
605	: param type: uid for single fit, None for simultaneous fit
606	"""
607	from sans.fit.Fitting import Fit
608	from .fit_thread import FitThread
609	from .console import ConsoleUpdate
610	## count the number of fitproblem schedule to fit
611	#if uid == None or self._fit_engine == "park":
612	fitproblem_count = 0
613	for value in self.page_finder.values():
614	if value.get_scheduled() == 1:
615	fitproblem_count += 1
616
617	## if simultaneous fit change automatically the engine to park
618	# scipy can not handle two thread running at the same time
619	if fitproblem_count > 1 or len(self.fit_thread_list)>0:
620	self._on_change_engine(engine='park')
621
622	self.fitproblem_count = fitproblem_count
623
624	fitter = Fit(self._fit_engine)
625	if self._fit_engine == "park":
626	engineType = "Simultaneous Fit"
627	else:
628	engineType = "Single Fit"
629
630	fproblemId = 0
631	self.current_pg = None
632	list_page_id = []
633	for page_id, value in self.page_finder.iteritems():
634	# For simulfit (uid give with None), do for-loop
635	# if uid is specified (singlefit), do it only on the page.
636	if engineType == "Single Fit":
637	if page_id != uid:
638	continue
639	try:
640	if value.get_scheduled() == 1:
641	#Get list of parameters name to fit
642	pars = []
643	templist = []
644
645	page = self.fit_panel.get_page_by_id(page_id)
646	templist = page.get_param_list()
647	# missing fit parameters
648	#if not templist:
649	# return
650	# have the list
651	for element in templist:
652	name = str(element[1])
653	pars.append(name)
654	#Set Engine (model , data) related to the page on
655	self._fit_helper(value=value, pars=pars,
656	fitter=fitter,
657	fitproblem_id=fproblemId,
658	title=engineType)
659	list_page_id.append(page_id)
660	fproblemId += 1
661	current_page_id = page_id
662	except:
663	#raise
664	msg= "%s error: %s" % (engineType, sys.exc_value)
665	wx.PostEvent(self.parent, StatusEvent(status=msg, info="error",
666	type="stop"))
667	return
668	## If a thread is already started, stop it
669	#if self.calc_fit!= None and self.calc_fit.isrunning():
670	# self.calc_fit.stop()
671	msg = "Fitting is in progress..."
672	wx.PostEvent( self.parent, StatusEvent(status=msg, type="progress" ))
673
674	#Handler used for park engine displayed message
675	handler = ConsoleUpdate(parent=self.parent,
676	manager=self,
677	improvement_delta=0.1)
678
679	self._mac_sleep(0.2)
680	## perform single fit
681
682	if fitproblem_count == 1:
683	calc_fit = FitThread(handler = handler,
684	fn=fitter,
685	pars=pars,
686	page_id=list_page_id,
687	completefn=self._single_fit_completed,
688	ftol=self.ftol)
689	else:
690	current_page_id = self.sim_page.uid
691	## Perform more than 1 fit at the time
692	calc_fit = FitThread(handler=handler,
693	fn=fitter,
694	page_id=list_page_id,
695	updatefn=handler.update_fit,
696	completefn=self._simul_fit_completed,
697	ftol=self.ftol)
698
699	self.fit_thread_list[current_page_id] = calc_fit
700	self._mac_sleep(0.2)
701
702	#self.ready_fit(calc_fit=calc_fit)
703	calc_fit.queue()
704
705	def ready_fit(self, calc_fit):
706	"""
707	Ready for another fit
708	"""
709	if self.fitproblem_count != None and self.fitproblem_count > 1:
710	calc_fit.ready(2.5)
711
712	else:
713	time.sleep(0.4)
714
715	def remove_plot(self, uid, theory=False):
716	"""
717	remove model plot when a fit page is closed
718	"""
719	fitproblem = self.page_finder[uid]
720	data = fitproblem.get_fit_data()
721	model = fitproblem.get_model()
722	plot_id = None
723	if model is not None:
724	plot_id = data.id + name
725	if theory:
726	plot_id = data.id
727	group_id = data.group_id
728	wx.PostEvent(self.parent, NewPlotEvent(id=plot_id,
729	group_id=group_id,
730	action='remove'))
731
732	def store_data(self, uid, data=None, caption=None):
733	"""
734	Helper to save page reference into the plug-in
735
736	:param page: page to store
737
738	"""
739	#create a fitproblem storing all link to data,model,page creation
740	if not uid in self.page_finder.keys():
741	self.page_finder[uid] = FitProblem()
742	self.page_finder[uid].set_fit_data(data)
743	self.page_finder[uid].set_fit_tab_caption(caption)
744
745	def on_add_new_page(self, event=None):
746	"""
747	ask fit panel to create a new empty page
748	"""
749	try:
750	page = self.fit_panel.add_empty_page()
751	page_caption = page.window_name
752	# add data associated to the page created
753	if page != None:
754	self.store_data(uid=page.uid, caption=page_caption,
755	data=page.get_data())
756	wx.PostEvent(self.parent, StatusEvent(status="Page Created",
757	info="info"))
758	else:
759	msg = "Page was already Created"
760	wx.PostEvent(self.parent, StatusEvent(status=msg,
761	info="warning"))
762	self.set_top_panel()
763	except:
764	raise
765	#msg = "Creating Fit page: %s"%sys.exc_value
766	#wx.PostEvent(self.parent, StatusEvent(status=msg, info="error"))
767
768
769	def add_fit_page(self, data):
770	"""
771	given a data, ask to the fitting panel to create a new fitting page,
772	get this page and store it into the page_finder of this plug-in
773	"""
774	page = self.fit_panel.set_data(data)
775	page_caption = page.window_name
776	#append Data1D to the panel containing its theory
777	#if theory already plotted
778	if page.uid in self.page_finder:
779	theory_data = self.page_finder[page.uid].get_theory_data()
780	if issubclass(data.__class__, Data2D):
781	data.group_id = wx.NewId()
782	if theory_data is not None:
783	group_id = str(page.uid) + " Model1D"
784	wx.PostEvent(self.parent,
785	NewPlotEvent(group_id=group_id,
786	action="delete"))
787	self.parent.update_data(prev_data=theory_data, new_data=data)
788	else:
789	if theory_data is not None:
790	group_id = str(page.uid) + " Model2D"
791	data.group_id = theory_data.group_id
792	wx.PostEvent(self.parent,
793	NewPlotEvent(group_id=group_id,
794	action="delete"))
795	self.parent.update_data(prev_data=theory_data, new_data=data)
796
797	self.store_data(uid=page.uid, data=data, caption=page.window_name)
798	if self.sim_page is not None:
799	self.sim_page.draw_page()
800	return page
801
802	def _onEVT_SLICER_PANEL(self, event):
803	"""
804	receive and event telling to update a panel with a name starting with
805	event.panel_name. this method update slicer panel for a given interactor.
806
807	:param event: contains type of slicer , paramaters for updating the panel
808	and panel_name to find the slicer 's panel concerned.
809	"""
810	for item in self.parent.panels:
811	if self.parent.panels[item].window_caption.startswith(event.panel_name):
812	self.parent.panels[item].set_slicer(event.type, event.params)
813
814	self.parent._mgr.Update()
815
816	def _closed_fitpage(self, event):
817	"""
818	request fitpanel to close a given page when its unique data is removed
819	from the plot. close fitpage only when the a loaded data is removed
820	"""
821	if event is None or event.data is None:
822	return
823	if hasattr(event.data,"is_data"):
824	if not event.data.is_data or \
825	event.data.__class__.__name__ == "Data1D":
826	self.fit_panel.close_page_with_data(event.data)
827
828	def _add_page_onmenu(self, name, fitproblem=None):
829	"""
830	Add name of a closed page of fitpanel in a menu
831	"""
832	list = self.menu1.GetMenuItems()
833	for item in list:
834	if name == item.GetItemLabel():
835	self.closed_page_dict[name][1] = fitproblem
836
837	if not name in self.closed_page_dict.keys():
838	# Post paramters
839	event_id = wx.NewId()
840	self.menu1.Append(event_id, name, "Show %s fit panel" % name)
841	self.closed_page_dict[name]= [event_id, fitproblem]
842	wx.EVT_MENU(self.parent, event_id, self._open_closed_page)
843
844	def _open_closed_page(self, event):
845	"""
846	reopen a closed page
847	"""
848	for name, value in self.closed_page_dict.iteritems():
849	if event.GetId() in value:
850	uid,fitproblem = value
851	if name !="Model":
852	data= fitproblem.get_fit_data()
853	page = self.fit_panel.add_fit_page(data=data, reset=True)
854	if fitproblem != None:
855	self.page_finder[uid] = fitproblem
856	if self.sim_page != None:
857	self.sim_page.draw_page()
858
859	else:
860	model = fitproblem
861	self.fit_panel.add_model_page(model=model, topmenu=True,
862	reset= True)
863	break
864
865	def _reset_schedule_problem(self, value=0, uid=None):
866	"""
867	unschedule or schedule all fitproblem to be fit
868	"""
869	# case that uid is not specified
870	if uid == None:
871	for page_id in self.page_finder.keys():
872	self.page_finder[page_id].schedule_tofit(value)
873	# when uid is given
874	else:
875	self.page_finder[uid].schedule_tofit(value)
876
877	def _fit_helper(self, pars, value, fitproblem_id,fitter, title="Single Fit " ):
878	"""
879	helper for fitting
880	"""
881	metadata = value.get_fit_data()
882	model = value.get_model()
883	smearer = value.get_smearer()
884	qmin, qmax = value.get_range()
885	self.fit_id = fitproblem_id
886	#Create list of parameters for fitting used
887	templist = []
888
889	try:
890	#Extra list of parameters and their constraints
891	listOfConstraint = []
892
893	param = value.get_model_param()
894	if len(param) > 0:
895	for item in param:
896	## check if constraint
897	if item[0] != None and item[1] != None:
898	listOfConstraint.append((item[0],item[1]))
899
900	#Do the single fit
901	fitter.set_model(model, self.fit_id,
902	pars, constraints=listOfConstraint)
903
904	fitter.set_data(data=metadata, id=self.fit_id,
905	smearer=smearer, qmin=qmin, qmax=qmax)
906
907	fitter.select_problem_for_fit(id=self.fit_id,
908	value=value.get_scheduled())
909	value.clear_model_param()
910	except:
911	raise
912	#msg = title + " error: %s" % sys.exc_value
913	#wx.PostEvent(self.parent, StatusEvent(status=msg, type="stop"))
914
915	def _onSelect(self,event):
916	"""
917	when Select data to fit a new page is created .Its reference is
918	added to self.page_finder
919	"""
920	self.panel = event.GetEventObject()
921	Plugin.on_perspective(self, event=event)
922	for plottable in self.panel.graph.plottables:
923	if plottable.__class__.__name__ in ["Data1D", "Theory1D"]:
924	data_id = self.panel.graph.selected_plottable
925	if plottable == self.panel.plots[data_id]:
926	data = plottable
927	self.add_fit_page(data=data)
928	return
929	else:
930	data = plottable
931	self.add_fit_page(data=data)
932	self.set_top_panel()
933
934	def update_fit(self, result=None, msg=""):
935	"""
936	"""
937	print "update_fit result", result
938
939	def _single_fit_completed(self, result, pars, page_id, elapsed=None):
940	"""
941	Display fit result on one page of the notebook.
942
943	:param result: result of fit
944	:param pars: list of names of parameters fitted
945	:param current_pg: the page where information will be displayed
946	:param qmin: the minimum value of x to replot the model
947	:param qmax: the maximum value of x to replot model
948
949	"""
950	self._mac_sleep(0.2)
951	if page_id[0] in self.fit_thread_list.keys():
952	del self.fit_thread_list[page_id[0]]
953	try:
954	if result == None:
955	self._update_fit_button(page_id)
956	msg= "Single Fitting did not converge!!!"
957	wx.PostEvent(self.parent,
958	StatusEvent(status=msg,
959	info="warning",
960	type="stop"))
961	return
962	if not numpy.isfinite(result.fitness) or \
963	numpy.any(result.pvec == None) or \
964	not numpy.all(numpy.isfinite(result.pvec)):
965	msg = "Single Fitting did not converge!!!"
966	wx.PostEvent(self.parent,
967	StatusEvent(status=msg,
968	info="warning",
969	type="stop"))
970	self._update_fit_button(page_id)
971	return
972
973	for uid in page_id:
974	value = self.page_finder[uid]
975	model = value.get_model()
976	page_id = uid
977
978	param_name = []
979	for name in pars:
980	param_name.append(name)
981
982	cpage = self.fit_panel.get_page_by_id(uid)
983	# Make sure we got all results (CallAfter is important to MAC)
984	wx.CallAfter(cpage.onsetValues, result.fitness,
985	param_name, result.pvec, result.stderr)
986	cpage._on_fit_complete()
987	if result.stderr == None:
988	msg = "Fit Abort: "
989	else:
990	msg = "Fitting: "
991	msg += "Completed!!!"
992	wx.PostEvent(self.parent, StatusEvent(status=msg))
993	return
994	except ValueError:
995	self._update_fit_button(page_id)
996	msg = "Single Fitting did not converge!!!"
997	wx.PostEvent(self.parent, StatusEvent(status=msg, info="error",
998	type="stop"))
999	return
1000	except:
1001	self._update_fit_button(page_id)
1002	msg = "Single Fit completed but Following"
1003	msg += " error occurred:%s" % sys.exc_value
1004	wx.PostEvent(self.parent, StatusEvent(status=msg, info="error",
1005	type="stop"))
1006	raise
1007	return
1008
1009	def _simul_fit_completed(self, result, page_id,pars=None, elapsed=None):
1010	"""
1011	Parameter estimation completed,
1012	display the results to the user
1013
1014	:param alpha: estimated best alpha
1015	:param elapsed: computation time
1016
1017	"""
1018	self.fit_thread_list = {}
1019	if page_id is None:
1020	page_id = []
1021	## fit more than 1 model at the same time
1022	self._mac_sleep(0.2)
1023	try:
1024	msg = ""
1025	if result == None:
1026	self._update_fit_button(page_id)
1027	msg= "Complex Fitting did not converge!!!"
1028	wx.PostEvent(self.parent, StatusEvent(status=msg,
1029	type="stop"))
1030	return
1031	if not numpy.isfinite(result.fitness) or \
1032	numpy.any(result.pvec == None) or not \
1033	numpy.all(numpy.isfinite(result.pvec)):
1034	self._update_fit_button(page_id)
1035	msg= "Simultaneous Fitting did not converge!!!"
1036	wx.PostEvent(self.parent, StatusEvent(status=msg,type="stop"))
1037	return
1038
1039	for uid in page_id:
1040	value = self.page_finder[uid]
1041	model = value.get_model()
1042	data = value.get_fit_data()
1043	small_param_name = []
1044	small_out = []
1045	small_cov = []
1046	#Separate result in to data corresponding to each page
1047	for p in result.parameters:
1048	model_name, param_name = self.split_string(p.name)
1049	if model.name == model_name:
1050	p_name= model.name+"."+param_name
1051	if p.name == p_name:
1052	if p.value != None and numpy.isfinite(p.value):
1053	small_out.append(p.value)
1054	small_param_name.append(param_name)
1055	small_cov.append(p.stderr)
1056	# Display result on each page
1057	cpage = self.fit_panel.get_page_by_id(uid)
1058	wx.CallAfter(cpage.onsetValues,
1059	result.fitness,
1060	small_param_name,
1061	small_out,small_cov)
1062	cpage._on_fit_complete()
1063	msg = "Fit completed!"
1064	wx.PostEvent(self.parent, StatusEvent(status=msg))
1065	except Exception:
1066	self._update_fit_button(page_id)
1067	msg = "Complex Fitting did not converge!!!"
1068	wx.PostEvent(self.parent, StatusEvent(status=msg, info="error",
1069	type="stop"))
1070	return
1071
1072	except:
1073	self._update_fit_button(page_id)
1074	msg = "Simultaneous Fit completed"
1075	msg += " but Following error occurred:%s" % sys.exc_value
1076	wx.PostEvent(self.parent, StatusEvent(status=msg, type="stop"))
1077
1078	def _update_fit_button(self, page_id):
1079	"""
1080	Update Fit button when fit stopped
1081
1082	: parameter page_id: fitpage where the button is
1083	"""
1084	if page_id.__class__.__name__ != 'list':
1085	page_id = [page_id]
1086	for uid in page_id:
1087	page = self.fit_panel.get_page_by_id(uid)
1088	page._on_fit_complete()
1089
1090	def _on_show_panel(self, event):
1091	"""
1092	"""
1093	pass
1094
1095	def _onset_engine_park(self,event):
1096	"""
1097	set engine to park
1098	"""
1099	self._on_change_engine('park')
1100
1101	def _onset_engine_scipy(self,event):
1102	"""
1103	set engine to scipy
1104	"""
1105	self._on_change_engine('scipy')
1106
1107	def _on_slicer_event(self, event):
1108	"""
1109	Receive a panel as event and send it to guiframe
1110
1111	:param event: event containing a panel
1112
1113	"""
1114	if event.panel is not None:
1115	new_panel = event.panel
1116	self.slicer_panels.append(event.panel)
1117	# Set group ID if available
1118	event_id = self.parent.popup_panel(new_panel)
1119	#self.menu3.Append(event_id, new_panel.window_caption,
1120	# "Show %s plot panel" % new_panel.window_caption)
1121	# Set id to allow us to reference the panel later
1122
1123	new_panel.uid = event_id
1124	self.mypanels.append(new_panel)
1125
1126	def _onclearslicer(self, event):
1127	"""
1128	Clear the boxslicer when close the panel associate with this slicer
1129	"""
1130	name =event.GetPane().caption
1131
1132	for panel in self.slicer_panels:
1133	if panel.window_caption==name:
1134
1135	for item in self.parent.panels:
1136	if hasattr(self.parent.panels[item],"uid"):
1137	if self.parent.panels[item].uid ==panel.base.uid:
1138	self.parent.panels[item].onClearSlicer(event)
1139	self.parent._mgr.Update()
1140	break
1141	break
1142
1143	def _return_engine_type(self):
1144	"""
1145	return the current type of engine
1146	"""
1147	return self._fit_engine
1148
1149
1150	def _on_change_engine(self, engine='park'):
1151	"""
1152	Allow to select the type of engine to perform fit
1153
1154	:param engine: the key work of the engine
1155
1156	"""
1157	## saving fit engine name
1158	self._fit_engine = engine
1159	## change menu item state
1160	if engine=="park":
1161	self.menu1.FindItemById(self.park_id).Check(True)
1162	self.menu1.FindItemById(self.scipy_id).Check(False)
1163	else:
1164	self.menu1.FindItemById(self.park_id).Check(False)
1165	self.menu1.FindItemById(self.scipy_id).Check(True)
1166	## post a message to status bar
1167	msg = "Engine set to: %s" % self._fit_engine
1168	wx.PostEvent(self.parent,
1169	StatusEvent(status=msg))
1170	## send the current engine type to fitpanel
1171	self.fit_panel._on_engine_change(name=self._fit_engine)
1172
1173
1174	def _on_model_panel(self, evt):
1175	"""
1176	react to model selection on any combo box or model menu.plot the model
1177
1178	:param evt: wx.combobox event
1179
1180	"""
1181	model = evt.model
1182	uid = evt.uid
1183	qmin = evt.qmin
1184	qmax = evt.qmax
1185	smearer = evt.smearer
1186
1187	if model == None:
1188	return
1189
1190	if self.page_finder[uid].get_model() is None:
1191	model.name = "M" + str(self.index_model)
1192	self.index_model += 1
1193	else:
1194	model.name = self.page_finder[uid].get_model().name
1195	# save the name containing the data name with the appropriate model
1196	self.page_finder[uid].set_model(model)
1197	self.page_finder[uid].set_range(qmin=qmin, qmax=qmax)
1198	if self.sim_page is not None:
1199	self.sim_page.draw_page()
1200
1201	def _update1D(self,x, output):
1202	"""
1203	Update the output of plotting model 1D
1204	"""
1205	msg = "Plot updating ... "
1206	wx.PostEvent(self.parent, StatusEvent(status=msg,type="update"))
1207	#self.ready_fit()
1208
1209
1210	def _fill_default_model2D(self, theory, page_id, qmax,qstep, qmin=None):
1211	"""
1212	fill Data2D with default value
1213
1214	:param theory: Data2D to fill
1215
1216	"""
1217	from DataLoader.data_info import Detector, Source
1218
1219	detector = Detector()
1220	theory.detector.append(detector)
1221	theory.source= Source()
1222
1223	## Default values
1224	theory.detector[0].distance= 8000 # mm
1225	theory.source.wavelength= 6 # A
1226	theory.detector[0].pixel_size.x= 5 # mm
1227	theory.detector[0].pixel_size.y= 5 # mm
1228
1229	theory.detector[0].beam_center.x= qmax
1230	theory.detector[0].beam_center.y= qmax
1231
1232	## create x_bins and y_bins of the model 2D
1233	pixel_width_x = theory.detector[0].pixel_size.x
1234	pixel_width_y = theory.detector[0].pixel_size.y
1235	center_x = theory.detector[0].beam_center.x/pixel_width_x
1236	center_y = theory.detector[0].beam_center.y/pixel_width_y
1237
1238	# theory default: assume the beam
1239	#center is located at the center of sqr detector
1240	xmax = qmax
1241	xmin = -qmax
1242	ymax = qmax
1243	ymin = -qmax
1244
1245	x= numpy.linspace(start= -1*qmax,
1246	stop=qmax,
1247	num=qstep,
1248	endpoint=True)
1249	y = numpy.linspace(start=-1*qmax,
1250	stop= qmax,
1251	num= qstep,
1252	endpoint=True)
1253
1254	## use data info instead
1255	new_x = numpy.tile(x, (len(y),1))
1256	new_y = numpy.tile(y, (len(x),1))
1257	new_y = new_y.swapaxes(0,1)
1258
1259	# all data reuire now in 1d array
1260	qx_data = new_x.flatten()
1261	qy_data = new_y.flatten()
1262
1263	q_data = numpy.sqrt(qx_dataqx_data+qy_dataqy_data)
1264	# set all True (standing for unmasked) as default
1265	mask = numpy.ones(len(qx_data), dtype = bool)
1266
1267	# calculate the range of qx and qy: this way,
1268	# it is a little more independent
1269	x_size = xmax- xmin
1270	y_size = ymax -ymin
1271
1272	# store x and y bin centers in q space
1273	x_bins = x
1274	y_bins = y
1275	# bin size: x- & y-directions
1276	xstep = x_size/len(x_bins-1)
1277	ystep = y_size/len(y_bins-1)
1278
1279	#theory.data = numpy.zeros(len(mask))
1280	theory.err_data = numpy.ones(len(mask))
1281	theory.qx_data = qx_data
1282	theory.qy_data = qy_data
1283	theory.q_data = q_data
1284	theory.mask = mask
1285	theory.x_bins = x_bins
1286	theory.y_bins = y_bins
1287
1288	# max and min taking account of the bin sizes
1289	theory.xmin = xmin
1290	theory.xmax = xmax
1291	theory.ymin = ymin
1292	theory.ymax = ymax
1293	theory.group_id = str(page_id) + " Model2D"
1294	theory.id = str(page_id) + " Model2D"
1295
1296	def _complete1D(self, x,y, page_id, elapsed,index,model,
1297	toggle_mode_on=False,state=None,
1298	data=None, update_chisqr=True):
1299	"""
1300	Complete plotting 1D data
1301	"""
1302	try:
1303	new_plot = Data1D(x=x, y=y)
1304	new_plot.is_data = False
1305	new_plot.symbol = GUIFRAME_ID.CURVE_SYMBOL_NUM
1306	if data != None:
1307	#if model.output_name.lower().count("reflectivity") > 0:
1308	# _yaxis, _yunit = "\\rm{%s}"% model.output_name, \
1309	# "%s"% model.output_unit
1310	#else:
1311	_yaxis, _yunit = data.get_yaxis()
1312	_xaxis, _xunit = data.get_xaxis()
1313	new_plot.title = data.name
1314	#if the theory is already plotted use the same group id
1315	#to replot
1316	if page_id in self.page_finder:
1317	theory_data = self.page_finder[page_id].get_theory_data()
1318	if theory_data is not None:
1319	data.group_id = theory_data.group_id
1320	#data is plotted before the theory, then take its group_id
1321	#assign to the new theory
1322	new_plot.group_id = data.group_id
1323
1324	else:
1325	_xaxis, _xunit = "\\rm{%s}"% model.input_name, \
1326	"%s"% model.input_unit
1327	_yaxis, _yunit = "\\rm{%s}"% model.output_name, \
1328	"%s"% model.output_unit
1329	new_plot.title = "Analytical model 1D "
1330	#find a group id to plot theory without data
1331	new_plot.group_id = str(page_id) + " Model1D"
1332	new_plot.id = str(page_id) + " Model1D"
1333
1334	#find if this theory was already plotted and replace that plot given
1335	#the same id
1336
1337	theory_data = self.page_finder[page_id].get_theory_data()
1338	if theory_data is not None:
1339	new_plot.id = theory_data.id
1340
1341	new_plot.name = model.name + " ["+ str(model.__class__.__name__)+ "]"
1342	new_plot.xaxis(_xaxis, _xunit)
1343	new_plot.yaxis(_yaxis, _yunit)
1344	if toggle_mode_on:
1345	new_plot.id = str(page_id) + " Model"
1346	wx.PostEvent(self.parent,
1347	NewPlotEvent(group_id=str(page_id) + " Model2D",
1348	action="Hide"))
1349
1350	self.page_finder[page_id].set_theory_data(new_plot)
1351	if data is None:
1352	data_id = None
1353	else:
1354	data_id = data.id
1355
1356	self.parent.update_theory(data_id=data_id,
1357	theory=new_plot,
1358	state=state)
1359
1360	current_pg = self.fit_panel.get_page_by_id(page_id)
1361	title = new_plot.title
1362
1363	wx.PostEvent(self.parent, NewPlotEvent(plot=new_plot,
1364	title= str(title)))
1365
1366	self.page_finder[page_id].set_theory_data(new_plot)
1367
1368	if update_chisqr:
1369	wx.PostEvent(current_pg,
1370	Chi2UpdateEvent(output=self._cal_chisqr(data=data,
1371	page_id=page_id,
1372	index=index)))
1373	else:
1374	self._plot_residuals(page_id, data, index)
1375
1376	msg = "Computation completed!"
1377	wx.PostEvent( self.parent, StatusEvent(status=msg, type="stop" ))
1378
1379	#self.current_pg.state.theory_data = deepcopy(self.theory_data)
1380	except:
1381	raise
1382	#msg = " Error occurred when drawing %s Model 1D: " % new_plot.name
1383	#msg += " %s" % sys.exc_value
1384	#wx.PostEvent(self.parent, StatusEvent(status=msg, type="stop"))
1385
1386	def _update2D(self, output,time=None):
1387	"""
1388	Update the output of plotting model
1389	"""
1390	wx.PostEvent(self.parent, StatusEvent(status="Plot \
1391	#updating ... ", type="update"))
1392	#self.ready_fit()
1393
1394	def _complete2D(self, image, data, model, page_id, elapsed, index, qmin,
1395	qmax, toggle_mode_on=False,state=None,qstep=DEFAULT_NPTS,
1396	update_chisqr=True):
1397	"""
1398	Complete get the result of modelthread and create model 2D
1399	that can be plot.
1400	"""
1401	err_image = numpy.zeros(numpy.shape(image))
1402
1403	new_plot= Data2D(image=image, err_image=err_image)
1404	new_plot.name = model.name
1405	new_plot.title = "Analytical model 2D "
1406	if data is None:
1407	self._fill_default_model2D(theory=new_plot,
1408	qmax=qmax,
1409	page_id=page_id,
1410	qstep=qstep,
1411	qmin= qmin)
1412
1413	else:
1414	new_plot.id = str(page_id) + " Model2D"
1415	new_plot.group_id = str(page_id) + " Model2D"
1416	new_plot.x_bins = data.x_bins
1417	new_plot.y_bins = data.y_bins
1418	new_plot.detector = data.detector
1419	new_plot.source = data.source
1420	new_plot.is_data = False
1421	new_plot.qx_data = data.qx_data
1422	new_plot.qy_data = data.qy_data
1423	new_plot.q_data = data.q_data
1424	#numpy.zeros(len(data.err_data))#data.err_data
1425	new_plot.err_data = err_image
1426	new_plot.mask = data.mask
1427	## plot boundaries
1428	new_plot.ymin = data.ymin
1429	new_plot.ymax = data.ymax
1430	new_plot.xmin = data.xmin
1431	new_plot.xmax = data.xmax
1432	title = data.title
1433	if len(title) > 1:
1434	new_plot.title = "Model2D for " + data.name
1435	new_plot.is_data = False
1436	new_plot.name = model.name + " ["+ str(model.__class__.__name__)+ "]"
1437
1438	theory_data = deepcopy(new_plot)
1439	theory_data.name = "Unknown"
1440	if toggle_mode_on:
1441	new_plot.id = str(page_id) + " Model"
1442	wx.PostEvent(self.parent,
1443	NewPlotEvent(group_id=str(page_id) + " Model1D",
1444	action="Hide"))
1445
1446	self.page_finder[page_id].set_theory_data(new_plot)
1447	if data is None:
1448	data_id = None
1449	else:
1450	data_id = data.id
1451	self.parent.update_theory(data_id=data_id,
1452	theory=new_plot,
1453	state=state)
1454	current_pg = self.fit_panel.get_page_by_id(page_id)
1455	title = new_plot.title
1456
1457	wx.PostEvent(self.parent, NewPlotEvent(plot=new_plot,
1458	title=title))
1459	self.page_finder[page_id].set_theory_data(new_plot)
1460	# Chisqr in fitpage
1461	if update_chisqr:
1462	wx.PostEvent(current_pg,
1463	Chi2UpdateEvent(output=\
1464	self._cal_chisqr(data=data,
1465	page_id=page_id,
1466	index=index)))
1467	else:
1468	self._plot_residuals(page_id, data, index)
1469	msg = "Computation completed!"
1470	wx.PostEvent(self.parent, StatusEvent(status=msg, type="stop"))
1471
1472	def _draw_model2D(self, model, page_id, data=None, smearer=None,
1473	description=None, enable2D=False,
1474	state=None,
1475	toggle_mode_on=False,
1476	qmin=DEFAULT_QMIN, qmax=DEFAULT_QMAX,
1477	qstep=DEFAULT_NPTS,
1478	update_chisqr=True):
1479	"""
1480	draw model in 2D
1481
1482	:param model: instance of the model to draw
1483	:param description: the description of the model
1484	:param enable2D: when True allows to draw model 2D
1485	:param qmin: the minimum value to draw model 2D
1486	:param qmax: the maximum value to draw model 2D
1487	:param qstep: the number of division of Qx and Qy of the model to draw
1488
1489	"""
1490	x= numpy.linspace(start=-1*qmax,
1491	stop=qmax,
1492	num=qstep,
1493	endpoint=True)
1494	y = numpy.linspace(start= -1*qmax,
1495	stop=qmax,
1496	num=qstep,
1497	endpoint=True)
1498	if model is None:
1499	msg = "Panel with ID: %s does not contained model" % str(page_id)
1500	raise ValueError, msg
1501	## use data info instead
1502	if data is not None:
1503	## check if data2D to plot
1504	if hasattr(data, "x_bins"):
1505	enable2D = True
1506	x = data.x_bins
1507	y = data.y_bins
1508
1509	if not enable2D:
1510	return None, None
1511	try:
1512	from model_thread import Calc2D
1513	## If a thread is already started, stop it
1514	if (self.calc_2D is not None) and self.calc_2D.isrunning():
1515	self.calc_2D.stop()
1516	self.calc_2D = Calc2D(x=x,
1517	y=y,
1518	model=model,
1519	data=data,
1520	page_id=page_id,
1521	smearer=smearer,
1522	qmin=qmin,
1523	qmax=qmax,
1524	qstep=qstep,
1525	toggle_mode_on=toggle_mode_on,
1526	state=state,
1527	completefn=self._complete2D,
1528	#updatefn= self._update2D,
1529	update_chisqr=update_chisqr)
1530
1531	self.calc_2D.queue()
1532
1533	except:
1534	raise
1535	#msg = " Error occurred when drawing %s Model 2D: " % model.name
1536	#msg += " %s" % sys.exc_value
1537	#wx.PostEvent(self.parent, StatusEvent(status=msg))
1538
1539	def _draw_model1D(self, model, page_id, data=None, smearer=None,
1540	qmin=DEFAULT_QMIN, qmax=DEFAULT_QMAX,
1541	state=None,
1542	toggle_mode_on=False,
1543	qstep=DEFAULT_NPTS, update_chisqr=True,
1544	enable1D=True):
1545	"""
1546	Draw model 1D from loaded data1D
1547
1548	:param data: loaded data
1549	:param model: the model to plot
1550
1551	"""
1552	x= numpy.linspace(start=qmin,
1553	stop=qmax,
1554	num=qstep,
1555	endpoint=True
1556	)
1557	if data is not None:
1558	## check for data2D
1559	if hasattr(data,"x_bins"):
1560	return
1561	x = data.x
1562	if qmin == None :
1563	qmin == DEFAULT_QMIN
1564
1565	if qmax == None:
1566	qmax == DEFAULT_QMAX
1567	if not enable1D:
1568	return
1569	try:
1570	from model_thread import Calc1D
1571	## If a thread is already started, stop it
1572	if (self.calc_1D is not None) and self.calc_1D.isrunning():
1573	self.calc_1D.stop()
1574	self.calc_1D = Calc1D(x=x,
1575	data=data,
1576	model=model,
1577	page_id=page_id,
1578	qmin=qmin,
1579	qmax=qmax,
1580	smearer=smearer,
1581	state=state,
1582	toggle_mode_on=toggle_mode_on,
1583	completefn=self._complete1D,
1584	#updatefn = self._update1D,
1585	update_chisqr=update_chisqr)
1586
1587	self.calc_1D.queue()
1588	except:
1589	msg = " Error occurred when drawing %s Model 1D: " % model.name
1590	msg += " %s" % sys.exc_value
1591	wx.PostEvent(self.parent, StatusEvent(status=msg))
1592
1593	def _cal_chisqr(self, page_id, data=None, index=None):
1594	"""
1595	Get handy Chisqr using the output from draw1D and 2D,
1596	instead of calling expansive CalcChisqr in guithread
1597	"""
1598	# default chisqr
1599	chisqr = None
1600
1601	# return None if data == None
1602	if data == None: return chisqr
1603
1604	# Get data: data I, theory I, and data dI in order
1605	if data.__class__.__name__ == "Data2D":
1606	if index == None:
1607	index = numpy.ones(len(data.data),ntype=bool)
1608	# get rid of zero error points
1609	index = index & (data.err_data != 0 )
1610	index = index & (numpy.isfinite(data.data))
1611	fn = data.data[index]
1612	theory_data = self.page_finder[page_id].get_theory_data()
1613	gn = theory_data.data[index]
1614	en = data.err_data[index]
1615	else:
1616	# 1 d theory from model_thread is only in the range of index
1617	if index == None:
1618	index = numpy.ones(len(data.y), ntype=bool)
1619	if data.dy == None or data.dy == []:
1620	dy = numpy.ones(len(data.y))
1621	else:
1622	## Set consitently w/AbstractFitengine:
1623	# But this should be corrected later.
1624	dy = deepcopy(data.dy)
1625	dy[dy==0] = 1
1626	fn = data.y[index]
1627	theory_data = self.page_finder[page_id].get_theory_data()
1628	gn = theory_data.y
1629	en = dy[index]
1630
1631	# residual
1632	res = (fn - gn) / en
1633	residuals = res[numpy.isfinite(res)]
1634	# get chisqr only w/finite
1635	chisqr = numpy.average(residuals * residuals)
1636
1637	self._plot_residuals(page_id, data, index)
1638	return chisqr
1639
1640
1641
1642	def _plot_residuals(self, page_id, data=None, index=None):
1643	"""
1644	Plot the residuals
1645
1646	:param data: data
1647	:param index: index array (bool)
1648	: Note: this is different from the residuals in cal_chisqr()
1649	"""
1650	if data == None:
1651	return
1652
1653	# Get data: data I, theory I, and data dI in order
1654	if data.__class__.__name__ == "Data2D":
1655	# build residuals
1656	#print data
1657	residuals = Data2D()
1658	#residuals.copy_from_datainfo(data)
1659	# Not for trunk the line below, instead use the line above
1660	data.clone_without_data(len(data.data), residuals)
1661	residuals.data = None
1662	fn = data.data#[index]
1663	theory_data = self.page_finder[page_id].get_theory_data()
1664	gn = theory_data.data#[index]
1665	en = data.err_data#[index]
1666	residuals.data = (fn - gn) / en
1667	residuals.qx_data = data.qx_data#[index]
1668	residuals.qy_data = data.qy_data #[index]
1669	residuals.q_data = data.q_data#[index]
1670	residuals.err_data = numpy.ones(len(residuals.data))#[index]
1671	residuals.xmin = min(residuals.qx_data)
1672	residuals.xmax = max(residuals.qx_data)
1673	residuals.ymin = min(residuals.qy_data)
1674	residuals.ymax = max(residuals.qy_data)
1675	residuals.q_data = data.q_data#[index]
1676	residuals.mask = data.mask
1677	residuals.scale = 'linear'
1678	#print "print data",residuals
1679	# check the lengths
1680	if len(residuals.data) != len(residuals.q_data):
1681	return
1682
1683	else:
1684	# 1 d theory from model_thread is only in the range of index
1685	if data.dy == None or data.dy == []:
1686	dy = numpy.ones(len(data.y))
1687	else:
1688	## Set consitently w/AbstractFitengine:
1689	## But this should be corrected later.
1690	dy = deepcopy(data.dy)
1691	dy[dy==0] = 1
1692	fn = data.y[index]
1693	theory_data = self.page_finder[page_id].get_theory_data()
1694	gn = theory_data.y
1695	en = dy[index]
1696	# build residuals
1697	residuals = Data1D()
1698	residuals.y = (fn - gn) / en
1699	residuals.x = data.x[index]
1700	residuals.dy = numpy.ones(len(residuals.y))
1701	residuals.dx = None
1702	residuals.dxl = None
1703	residuals.dxw = None
1704	residuals.ytransform = 'y'
1705	# For latter scale changes
1706	residuals.xaxis('\\rm{Q} ', 'A^{-1}')
1707	residuals.yaxis('\\rm{Residuals} ', 'normalized')
1708
1709	new_plot = residuals
1710	if data.id == None:
1711	data.id = data.name
1712	name = data.id
1713	new_plot.name = "Residuals for " + str(data.name)
1714	## allow to highlight data when plotted
1715	new_plot.interactive = True
1716	## when 2 data have the same id override the 1 st plotted
1717	new_plot.id = new_plot.name#name + " residuals"
1718	##group_id specify on which panel to plot this data
1719	new_plot.group_id = new_plot.id
1720	#new_plot.is_data = True
1721	##post data to plot
1722	title = new_plot.name
1723
1724	# plot data
1725	wx.PostEvent(self.parent, NewPlotEvent(plot=new_plot, title=title))
1726
1727	#def profile(fn, args, *kw):
1728	# import cProfile, pstats, os
1729	# global call_result
1730	# def call():
1731	# global call_result
1732	# call_result = fn(args, *kw)
1733	# cProfile.runctx('call()', dict(call=call), {}, 'profile.out')
1734	# stats = pstats.Stats('profile.out')
1735	# #stats.sort_stats('time')
1736	# stats.sort_stats('calls')
1737	# stats.print_stats()
1738	# os.unlink('profile.out')
1739	# return call_result
1740	if __name__ == "__main__":
1741	i = Plugin()
1742
1743
1744
1745

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SasView

source: sasview/sansview/perspectives/fitting/fitting.py @ 70468a5

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