fitting.py @ d48858da

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 d48858da was 9f4f8f4, checked in by Jessica Tumarkin <jtumarki@…>, 13 years ago
committing custom_color stuff that I did not commit earlier
Property mode set to `100644`
File size: 71.6 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 sans.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
70	self.color_dict = {}
71
72	self.fit_thread_list = {}
73	self.residuals = None
74	self.fit_panel = None
75	# Start with a good default
76	self.elapsed = 0.022
77	# the type of optimizer selected, park or scipy
78	self.fitter = None
79	self.fit_panel = None
80	#let fit ready
81	self.fitproblem_count = None
82	#Flag to let the plug-in know that it is running stand alone
83	self.standalone = True
84	## dictionary of page closed and id
85	self.closed_page_dict = {}
86	## Fit engine
87	self._fit_engine = 'scipy'
88	## Relative error desired in the sum of squares (float); scipy only
89	self.ftol = SANS_F_TOL
90	#List of selected data
91	self.selected_data_list = []
92	## list of slicer panel created to display slicer parameters and results
93	self.slicer_panels = []
94	# model 2D view
95	self.model2D_id = None
96	#keep reference of the simultaneous fit page
97	self.sim_page = None
98	self.index_model = 0
99	self.test_model_color = None
100	#Create a reader for fit page's state
101	self.state_reader = None
102	self._extensions = '.fitv'
103	self.scipy_id = wx.NewId()
104	self.park_id = wx.NewId()
105
106	self.temp_state = []
107	self.state_index = 0
108	self.sfile_ext = None
109	# take care of saving data, model and page associated with each other
110	self.page_finder = {}
111	# Log startup
112	logging.info("Fitting plug-in started")
113
114	def add_color(self, color, id):
115	"""
116	adds a color as a key with a plot id as its value to a dictionary
117	"""
118	self.color_dict[id] = color
119
120	def on_batch_selection(self, flag):
121	"""
122	switch the the notebook of batch mode or not
123	"""
124	self.batch_on = flag
125	if self.batch_on:
126	if self.fit_panel is not None:
127	self.fit_panel.batch_on = flag
128
129	def populate_menu(self, owner):
130	"""
131	Create a menu for the Fitting plug-in
132
133	:param id: id to create a menu
134	:param owner: owner of menu
135
136	:return: list of information to populate the main menu
137
138	"""
139	#Menu for fitting
140	self.menu1 = wx.Menu()
141	id1 = wx.NewId()
142	simul_help = "Add new fit panel"
143	self.menu1.Append(id1, '&New Fit Page',simul_help)
144	wx.EVT_MENU(owner, id1, self.on_add_new_page)
145	self.menu1.AppendSeparator()
146	id1 = wx.NewId()
147	simul_help = "Simultaneous Fit"
148	self.menu1.Append(id1, '&Simultaneous Fit',simul_help)
149	wx.EVT_MENU(owner, id1, self.on_add_sim_page)
150	self.menu1.AppendSeparator()
151	#Set park engine
152
153	scipy_help= "Scipy Engine: Perform Simple fit. More in Help window...."
154	self.menu1.AppendCheckItem(self.scipy_id, "Simple FitEngine [LeastSq]",
155	scipy_help)
156	wx.EVT_MENU(owner, self.scipy_id, self._onset_engine_scipy)
157
158	park_help = "Park Engine: Perform Complex fit. More in Help window...."
159	self.menu1.AppendCheckItem(self.park_id, "Complex FitEngine [ParkMC]",
160	park_help)
161	wx.EVT_MENU(owner, self.park_id, self._onset_engine_park)
162
163	self.menu1.FindItemById(self.scipy_id).Check(True)
164	self.menu1.FindItemById(self.park_id).Check(False)
165	self.menu1.AppendSeparator()
166	self.id_tol = wx.NewId()
167	ftol_help = "Change the current FTolerance (=%s) " % str(self.ftol)
168	ftol_help += "of Simple FitEngine..."
169	self.menu1.Append(self.id_tol, "Change FTolerance [LeastSq Only]",
170	ftol_help)
171	wx.EVT_MENU(owner, self.id_tol, self.show_ftol_dialog)
172
173
174	#create menubar items
175	return [(self.menu1, self.sub_menu)]
176
177	def on_add_sim_page(self, event):
178	"""
179	Create a page to access simultaneous fit option
180	"""
181	if self.sim_page != None:
182	msg= "Simultaneous Fit page already opened"
183	wx.PostEvent(self.parent, StatusEvent(status= msg))
184	return
185
186	self.sim_page= self.fit_panel.add_sim_page()
187
188	def help(self, evt):
189	"""
190	Show a general help dialog.
191	"""
192	from help_panel import HelpWindow
193	frame = HelpWindow(None, -1, 'HelpWindow')
194	frame.Show(True)
195
196	def get_context_menu(self, plotpanel=None):
197	"""
198	Get the context menu items available for P(r).them allow fitting option
199	for Data2D and Data1D only.
200
201	:param graph: the Graph object to which we attach the context menu
202
203	:return: a list of menu items with call-back function
204
205	:note: if Data1D was generated from Theory1D
206	the fitting option is not allowed
207
208	"""
209	graph = plotpanel.graph
210	fit_option = "Select data for fitting"
211	fit_hint = "Dialog with fitting parameters "
212
213	if graph.selected_plottable not in plotpanel.plots:
214	return []
215	item = plotpanel.plots[graph.selected_plottable]
216	self.test_model_color = item.custom_color
217	#print "i'm in fitting - color is",self.test_model_color
218	if item.__class__.__name__ is "Data2D":
219	if hasattr(item,"is_data"):
220	if item.is_data:
221	return [[fit_option, fit_hint, self._onSelect]]
222	else:
223	return []
224	return [[fit_option, fit_hint, self._onSelect]]
225	else:
226
227	# if is_data is true , this in an actual data loaded
228	#else it is a data created from a theory model
229	if hasattr(item,"is_data"):
230	if item.is_data:
231	return [[fit_option, fit_hint,
232	self._onSelect]]
233	else:
234	return []
235	return []
236
237
238	def get_panels(self, parent):
239	"""
240	Create and return a list of panel objects
241	"""
242	self.parent = parent
243	#self.parent.Bind(EVT_FITSTATE_UPDATE, self.on_set_state_helper)
244	# Creation of the fit panel
245	self.fit_panel = FitPanel(parent=self.parent, manager=self)
246	self.on_add_new_page(event=None)
247	#Set the manager for the main panel
248	self.fit_panel.set_manager(self)
249	# List of windows used for the perspective
250	self.perspective = []
251	self.perspective.append(self.fit_panel.window_name)
252
253	#index number to create random model name
254	self.index_model = 0
255	self.index_theory= 0
256	self.parent.Bind(EVT_SLICER_PANEL, self._on_slicer_event)
257	self.parent.Bind(EVT_SLICER_PARS_UPDATE, self._onEVT_SLICER_PANEL)
258	self.parent._mgr.Bind(wx.aui.EVT_AUI_PANE_CLOSE,self._onclearslicer)
259	#Create reader when fitting panel are created
260	self.state_reader = Reader(self.set_state)
261	#append that reader to list of available reader
262	loader = Loader()
263	loader.associate_file_reader(".fitv", self.state_reader)
264	#loader.associate_file_reader(".svs", self.state_reader)
265	#from sans.perspectives.calculator.sld_panel import SldPanel
266	#Send the fitting panel to guiframe
267	self.mypanels.append(self.fit_panel)
268	#self.mypanels.append(SldPanel(parent=self.parent, base=self.parent))
269	return self.mypanels
270
271	def clear_panel(self):
272	"""
273	"""
274	self.fit_panel.clear_panel()
275
276	def set_default_perspective(self):
277	"""
278	Call back method that True to notify the parent that the current plug-in
279	can be set as default perspective.
280	when returning False, the plug-in is not candidate for an automatic
281	default perspective setting
282	"""
283	return True
284
285	def delete_data(self, data):
286	"""
287	delete the given data from panel
288	"""
289	self.fit_panel.delete_data(data)
290
291	def set_data(self, data_list=None):
292	"""
293	receive a list of data to fit
294	"""
295	if data_list is None:
296	data_list = []
297	selected_data_list = []
298	if self.batch_on:
299	page = self.add_fit_page(data=data_list)
300	else:
301	if len(data_list) > MAX_NBR_DATA:
302	from fitting_widgets import DataDialog
303	dlg = DataDialog(data_list=data_list, nb_data=MAX_NBR_DATA)
304	if dlg.ShowModal() == wx.ID_OK:
305	selected_data_list = dlg.get_data()
306	dlg.Destroy()
307
308	else:
309	selected_data_list = data_list
310	try:
311	for data in selected_data_list:
312	page = self.add_fit_page(data=[data])
313	except:
314	msg = "Fitting Set_data: " + str(sys.exc_value)
315	wx.PostEvent(self.parent, StatusEvent(status=msg, info="error"))
316
317	def set_top_panel(self):
318	"""
319	Close default (welcome) panel
320	"""
321	if 'default' in self.parent.panels:
322	self.parent.on_close_welcome_panel()
323
324
325	def set_theory(self, theory_list=None):
326	"""
327	"""
328	#set the model state for a given theory_state:
329	for item in theory_list:
330	try:
331	_, theory_state = item
332	self.fit_panel.set_model_state(theory_state)
333	except:
334	msg = "Fitting: cannot deal with the theory received"
335	logging.error("set_theory " + msg + "\n" + str(sys.exc_value))
336	wx.PostEvent(self.parent, StatusEvent(status=msg, info="error"))
337
338	def set_state(self, state=None, datainfo=None, format=None):
339	"""
340	Call-back method for the fit page state reader.
341	This method is called when a .fitv/.svs file is loaded.
342
343	: param state: PageState object
344	: param datainfo: data
345	"""
346	#state = self.state_reader.get_state()
347	if state != None:
348	state = state.clone()
349	# store fitting state in temp_state
350	self.temp_state.append(state)
351	else:
352	self.temp_state = []
353	# index to start with for a new set_state
354	self.state_index = 0
355	# state file format
356	self.sfile_ext = format
357
358	self.on_set_state_helper(event=None)
359
360	def on_set_state_helper(self,event=None):
361	"""
362	Set_state_helper. This actually sets state
363	after plotting data from state file.
364
365	: event: FitStateUpdateEvent called
366	by dataloader.plot_data from guiframe
367	"""
368	if len(self.temp_state) == 0:
369	if self.state_index==0 and len(self.mypanels) <= 0 \
370	and self.sfile_ext =='.svs':
371	self.fit_panel.add_default_pages()
372	self.temp_state = []
373	self.state_index = 0
374	return
375
376	try:
377	# Load fitting state
378	state = self.temp_state[self.state_index]
379	#panel state should have model selection to set_state
380	if state.formfactorcombobox != None:
381	#set state
382	data = self.parent.create_gui_data(state.data)
383	data.group_id = state.data.group_id
384	self.parent.add_data(data_list={data.id:data})
385	wx.PostEvent(self.parent, NewPlotEvent(plot=data,
386	title=data.title))
387	#need to be fix later make sure we are sendind guiframe.data
388	#to panel
389	state.data = data
390	page = self.fit_panel.set_state(state)
391	else:
392	#just set data because set_state won't work
393	data = self.parent.create_gui_data(state.data)
394	data.group_id = state.data.group_id
395	self.parent.add_data(data_list={data.id:data})
396	wx.PostEvent(self.parent, NewPlotEvent(plot=data,
397	title=data.title))
398	page = self.add_fit_page([data])
399	caption = page.window_name
400	self.store_data(uid=page.uid, data=page.get_data(),
401	data_list=page.get_data_list(),
402	caption=page.window_name)
403	self.mypanels.append(page)
404
405	# get ready for the next set_state
406	self.state_index += 1
407
408	#reset state variables to default when all set_state is finished.
409	if len(self.temp_state) == self.state_index:
410
411	self.temp_state = []
412	#self.state_index = 0
413	# Make sure the user sees the fitting panel after loading
414	#self.parent.set_perspective(self.perspective)
415	self.on_perspective(event=None)
416	except:
417	self.state_index==0
418	self.temp_state = []
419	raise
420
421	def save_fit_state(self, filepath, fitstate):
422	"""
423	save fit page state into file
424	"""
425	self.state_reader.write(filename=filepath, fitstate=fitstate)
426
427	def set_fit_range(self, uid, qmin, qmax):
428	"""
429	Set the fitting range of a given page
430	"""
431	self.page_finder[uid].set_range(qmin=qmin, qmax=qmax)
432
433	def schedule_for_fit(self,value=0, uid=None,fitproblem =None):
434	"""
435	Set the fit problem field to 0 or 1 to schedule that problem to fit.
436	Schedule the specified fitproblem or get the fit problem related to
437	the current page and set value.
438
439	:param value: integer 0 or 1
440	:param fitproblem: fitproblem to schedule or not to fit
441
442	"""
443	if fitproblem !=None:
444	fitproblem.schedule_tofit(value)
445	else:
446	self.page_finder[uid].schedule_tofit(value)
447
448	def get_page_finder(self):
449	"""
450	return self.page_finder used also by simfitpage.py
451	"""
452	return self.page_finder
453
454	def set_page_finder(self,modelname,names,values):
455	"""
456	Used by simfitpage.py to reset a parameter given the string constrainst.
457
458	:param modelname: the name ot the model for with the parameter
459	has to reset
460	:param value: can be a string in this case.
461	:param names: the paramter name
462
463	:note: expecting park used for fit.
464
465	"""
466	sim_page_id = self.sim_page.uid
467	for uid, value in self.page_finder.iteritems():
468	if uid != sim_page_id:
469	list = value.get_model()
470	model = list[0]
471	if model.name == modelname:
472	value.set_model_param(names, values)
473	break
474
475	def split_string(self,item):
476	"""
477	receive a word containing dot and split it. used to split parameterset
478	name into model name and parameter name example: ::
479
480	paramaterset (item) = M1.A
481	Will return model_name = M1 , parameter name = A
482
483	"""
484	if string.find(item,".")!=-1:
485	param_names= re.split("\.",item)
486	model_name=param_names[0]
487	##Assume max len is 3; eg., M0.radius.width
488	if len(param_names) == 3:
489	param_name=param_names[1]+"."+param_names[2]
490	else:
491	param_name=param_names[1]
492	return model_name,param_name
493
494	def set_ftol(self, ftol=None):
495	"""
496	Set ftol: Relative error desired in the sum of chi squares.
497	"""
498	# check if it is flaot
499	try:
500	f_tol = float(ftol)
501	except:
502	# default
503	f_tol = SANS_F_TOL
504
505	self.ftol = f_tol
506	# update ftol menu help strings
507	ftol_help = "Change the current FTolerance (=%s) " % str(self.ftol)
508	ftol_help += "of Simple FitEngine..."
509	self.menu1.SetHelpString(self.id_tol, ftol_help)
510
511	def show_ftol_dialog(self, event=None):
512	"""
513	Dialog to select ftol for Scipy
514	"""
515	#if event != None:
516	# event.Skip()
517	from ftol_dialog import ChangeFtol
518	panel = ChangeFtol(self.parent, self)
519	panel.ShowModal()
520
521	def stop_fit(self, uid):
522	"""
523	Stop the fit engine
524	"""
525	if uid in self.fit_thread_list.keys():
526	calc_fit = self.fit_thread_list[uid]
527	if calc_fit is not None and calc_fit.isrunning():
528	calc_fit.stop()
529	msg = "Fit stop!"
530	wx.PostEvent(self.parent, StatusEvent(status=msg, type="stop"))
531	del self.fit_thread_list[uid]
532	#set the fit button label of page when fit stop is trigger from
533	#simultaneous fit pane
534	if self.sim_page is not None and uid == self.sim_page.uid:
535	for uid, value in self.page_finder.iteritems():
536	if value.get_scheduled() == 1:
537	if uid in self.fit_panel.opened_pages.keys():
538	panel = self.fit_panel.opened_pages[uid]
539	panel. _on_fit_complete()
540
541	def set_smearer(self, uid, smearer, qmin=None, qmax=None, draw=True,
542	enable2D=False):
543	"""
544	Get a smear object and store it to a fit problem
545
546	:param smearer: smear object to allow smearing data
547
548	"""
549	if uid not in self.page_finder.keys():
550	msg = "Cannot find ID: %s in page_finder" % str(uid)
551	raise ValueError, msg
552	self.page_finder[uid].set_smearer(smearer)
553	self.page_finder[uid].set_enable2D(enable2D)
554	if draw:
555	## draw model 1D with smeared data
556	data = self.page_finder[uid].get_fit_data()
557	model = self.page_finder[uid].get_model()
558	if model is None:
559	return
560	enable1D = True
561	enable2D = self.page_finder[uid].get_enable2D()
562	if enable2D:
563	enable1D = False
564
565	## if user has already selected a model to plot
566	## redraw the model with data smeared
567	smear = self.page_finder[uid].get_smearer()
568	self.draw_model(model=model, data=data, page_id=uid, smearer=smear,
569	enable1D=enable1D, enable2D=enable2D,
570	qmin=qmin, qmax=qmax)
571	self._mac_sleep(0.2)
572
573	def _mac_sleep(self, sec=0.2):
574	"""
575	Give sleep to MAC
576	"""
577	if ON_MAC:
578	time.sleep(sec)
579
580	def draw_model(self, model, page_id, data=None, smearer=None,
581	enable1D=True, enable2D=False,
582	state=None,
583	toggle_mode_on=False,
584	qmin=DEFAULT_QMIN, qmax=DEFAULT_QMAX,
585	qstep=DEFAULT_NPTS,
586	update_chisqr=True):
587	"""
588	Draw model.
589
590	:param model: the model to draw
591	:param name: the name of the model to draw
592	:param data: the data on which the model is based to be drawn
593	:param description: model's description
594	:param enable1D: if true enable drawing model 1D
595	:param enable2D: if true enable drawing model 2D
596	:param qmin: Range's minimum value to draw model
597	:param qmax: Range's maximum value to draw model
598	:param qstep: number of step to divide the x and y-axis
599	:param update_chisqr: update chisqr [bool]
600
601	"""
602	if data.__class__.__name__ == "Data1D" or not enable2D:
603	## draw model 1D with no loaded data
604	self._draw_model1D(model=model,
605	data=data,
606	page_id=page_id,
607	enable1D=enable1D,
608	smearer=smearer,
609	qmin=qmin,
610	qmax=qmax,
611	toggle_mode_on=toggle_mode_on,
612	state=state,
613	qstep=qstep,
614	update_chisqr=update_chisqr)
615	else:
616	## draw model 2D with no initial data
617	self._draw_model2D(model=model,
618	page_id=page_id,
619	data=data,
620	enable2D=enable2D,
621	smearer=smearer,
622	qmin=qmin,
623	qmax=qmax,
624	state=state,
625	toggle_mode_on=toggle_mode_on,
626	qstep=qstep,
627	update_chisqr=update_chisqr)
628
629	def onFit(self, uid=None):
630	"""
631	perform fit
632	"""
633	## count the number of fitproblem schedule to fit
634	fitproblem_count = 0
635	for value in self.page_finder.values():
636	if value.get_scheduled() == 1:
637	fitproblem_count += 1
638
639	## if simultaneous fit change automatically the engine to park
640	if fitproblem_count > 1:
641	self._on_change_engine(engine='park')
642
643	self.fitproblem_count = fitproblem_count
644
645	from sans.fit.Fitting import Fit
646	fitter = Fit(self._fit_engine)
647
648	if self._fit_engine == "park":
649	engineType = "Simultaneous Fit"
650	else:
651	engineType = "Single Fit"
652
653	fitter_list = []
654	fproblemId = 0
655	self.current_pg = None
656	list_page_id = []
657	for page_id, value in self.page_finder.iteritems():
658	# For simulfit (uid give with None), do for-loop
659	# if uid is specified (singlefit), do it only on the page.
660	if engineType == "Single Fit":
661	if page_id != uid:
662	continue
663	try:
664	if value.get_scheduled() == 1:
665	#Get list of parameters name to fit
666	pars = []
667	templist = []
668
669	page = self.fit_panel.get_page_by_id(page_id)
670	templist = page.get_param_list()
671	# missing fit parameters
672	#if not templist:
673	# return
674	# have the list
675	for element in templist:
676	name = str(element[1])
677	pars.append(name)
678	#Set Engine (model , data) related to the page on
679	self._fit_helper(value=value, pars=pars,
680	fitter=fitter,
681	fitter_list=fitter_list,
682	fitproblem_id=fproblemId,
683	title=engineType)
684	list_page_id.append(page_id)
685	fproblemId += 1
686	current_page_id = page_id
687	except:
688	#raise
689	msg= "%s error: %s" % (engineType, sys.exc_value)
690	wx.PostEvent(self.parent, StatusEvent(status=msg, info="error",
691	type="stop"))
692	return
693	## If a thread is already started, stop it
694	#if self.calc_fit!= None and self.calc_fit.isrunning():
695	# self.calc_fit.stop()
696	msg = "Fitting is in progress..."
697	wx.PostEvent( self.parent, StatusEvent(status=msg, type="progress" ))
698
699	#Handler used for park engine displayed message
700	handler = ConsoleUpdate(parent=self.parent,
701	manager=self,
702	improvement_delta=0.1)
703
704	self._mac_sleep(0.2)
705	## perform single fit
706	if fitproblem_count == 1:
707	calc_fit = FitThread(handler = handler,
708	fn=fitter_list,
709	pars=pars,
710	page_id=list_page_id,
711	completefn=self._single_fit_completed,
712	ftol=self.ftol)
713	else:
714	current_page_id = self.sim_page.uid
715	## Perform more than 1 fit at the time
716	calc_fit = FitThread(handler=handler,
717	fn=fitter_list,
718	page_id=list_page_id,
719	updatefn=handler.update_fit,
720	completefn=self._simul_fit_completed,
721	ftol=self.ftol)
722	self.fit_thread_list[current_page_id] = calc_fit
723	calc_fit.queue()
724	msg = "Fitting is in progress..."
725	wx.PostEvent( self.parent, StatusEvent(status=msg, type="progress" ))
726
727	self.ready_fit(calc_fit=calc_fit)
728
729	def ready_fit(self, calc_fit):
730	"""
731	Ready for another fit
732	"""
733	if self.fitproblem_count != None and self.fitproblem_count > 1:
734	calc_fit.ready(2.5)
735
736	else:
737	time.sleep(0.4)
738
739	def remove_plot(self, uid, theory=False):
740	"""
741	remove model plot when a fit page is closed
742	"""
743	fitproblem = self.page_finder[uid]
744	data = fitproblem.get_fit_data()
745	model = fitproblem.get_model()
746	plot_id = None
747	if model is not None:
748	plot_id = data.id + name
749	if theory:
750	plot_id = data.id
751	group_id = data.group_id
752	wx.PostEvent(self.parent, NewPlotEvent(id=plot_id,
753	group_id=group_id,
754	action='remove'))
755
756	def store_data(self, uid, data=None, data_list=None, caption=None):
757	"""
758	Helper to save page reference into the plug-in
759
760	:param page: page to store
761
762	"""
763	if data_list is None:
764	data_list = []
765	#create a fitproblem storing all link to data,model,page creation
766	if not uid in self.page_finder.keys():
767	self.page_finder[uid] = FitProblem()
768	self.page_finder[uid].set_fit_data(data)
769	self.page_finder[uid].set_fit_data_list(data_list)
770	self.page_finder[uid].set_fit_tab_caption(caption)
771
772	def on_add_new_page(self, event=None):
773	"""
774	ask fit panel to create a new empty page
775	"""
776	try:
777	page = self.fit_panel.add_empty_page()
778	page_caption = page.window_name
779	# add data associated to the page created
780	if page != None:
781	self.store_data(uid=page.uid, caption=page_caption,
782	data=page.get_data())
783	wx.PostEvent(self.parent, StatusEvent(status="Page Created",
784	info="info"))
785	else:
786	msg = "Page was already Created"
787	wx.PostEvent(self.parent, StatusEvent(status=msg,
788	info="warning"))
789	self.set_top_panel()
790	except:
791	raise
792	#msg = "Creating Fit page: %s"%sys.exc_value
793	#wx.PostEvent(self.parent, StatusEvent(status=msg, info="error"))
794
795
796	def add_fit_page(self, data):
797	"""
798	given a data, ask to the fitting panel to create a new fitting page,
799	get this page and store it into the page_finder of this plug-in
800	"""
801	page = self.fit_panel.set_data(data)
802	page_caption = page.window_name
803	#append Data1D to the panel containing its theory
804	#if theory already plotted
805	if page.uid in self.page_finder:
806	theory_data = self.page_finder[page.uid].get_theory_data()
807	data = page.get_data()
808	if issubclass(data.__class__, Data2D):
809	data.group_id = wx.NewId()
810	if theory_data is not None:
811	group_id = str(page.uid) + " Model1D"
812	wx.PostEvent(self.parent,
813	NewPlotEvent(group_id=group_id,
814	action="delete"))
815	self.parent.update_data(prev_data=theory_data,
816	new_data=data)
817	else:
818	if theory_data is not None:
819	group_id = str(page.uid) + " Model2D"
820	data.group_id = theory_data.group_id
821	wx.PostEvent(self.parent,
822	NewPlotEvent(group_id=group_id,
823	action="delete"))
824	self.parent.update_data(prev_data=theory_data,
825	new_data=data)
826
827	self.store_data(uid=page.uid, data=page.get_data(),
828	data_list=page.get_data_list(),
829	caption=page.window_name)
830	if self.sim_page is not None:
831	self.sim_page.draw_page()
832	return page
833
834	def _onEVT_SLICER_PANEL(self, event):
835	"""
836	receive and event telling to update a panel with a name starting with
837	event.panel_name. this method update slicer panel for a given interactor.
838
839	:param event: contains type of slicer , paramaters for updating the panel
840	and panel_name to find the slicer 's panel concerned.
841	"""
842	for item in self.parent.panels:
843	name = event.panel_name
844	if self.parent.panels[item].window_caption.startswith(name):
845	self.parent.panels[item].set_slicer(event.type, event.params)
846
847	self.parent._mgr.Update()
848
849	def _closed_fitpage(self, event):
850	"""
851	request fitpanel to close a given page when its unique data is removed
852	from the plot. close fitpage only when the a loaded data is removed
853	"""
854	if event is None or event.data is None:
855	return
856	if hasattr(event.data,"is_data"):
857	if not event.data.is_data or \
858	event.data.__class__.__name__ == "Data1D":
859	self.fit_panel.close_page_with_data(event.data)
860
861	def _add_page_onmenu(self, name, fitproblem=None):
862	"""
863	Add name of a closed page of fitpanel in a menu
864	"""
865	list = self.menu1.GetMenuItems()
866	for item in list:
867	if name == item.GetItemLabel():
868	self.closed_page_dict[name][1] = fitproblem
869
870	if not name in self.closed_page_dict.keys():
871	# Post paramters
872	event_id = wx.NewId()
873	self.menu1.Append(event_id, name, "Show %s fit panel" % name)
874	self.closed_page_dict[name]= [event_id, fitproblem]
875	wx.EVT_MENU(self.parent, event_id, self._open_closed_page)
876
877	def _open_closed_page(self, event):
878	"""
879	reopen a closed page
880	"""
881	for name, value in self.closed_page_dict.iteritems():
882	if event.GetId() in value:
883	uid,fitproblem = value
884	if name !="Model":
885	data= fitproblem.get_fit_data()
886	page = self.fit_panel.add_fit_page(data=data, reset=True)
887	if fitproblem != None:
888	self.page_finder[uid] = fitproblem
889	if self.sim_page != None:
890	self.sim_page.draw_page()
891
892	else:
893	model = fitproblem
894	self.fit_panel.add_model_page(model=model, topmenu=True,
895	reset= True)
896	break
897
898	def _reset_schedule_problem(self, value=0, uid=None):
899	"""
900	unschedule or schedule all fitproblem to be fit
901	"""
902	# case that uid is not specified
903	if uid == None:
904	for page_id in self.page_finder.keys():
905	self.page_finder[page_id].schedule_tofit(value)
906	# when uid is given
907	else:
908	self.page_finder[uid].schedule_tofit(value)
909
910	def _fit_setter(self, data, value, fitter, fit_id, pars):
911	"""
912	"""
913	model = value.get_model()
914	smearer = value.get_smearer()
915	qmin, qmax = value.get_range()
916	print "fitter_setter", qmin, qmax
917	#Extra list of parameters and their constraints
918	listOfConstraint = []
919
920	param = value.get_model_param()
921	if len(param) > 0:
922	for item in param:
923	## check if constraint
924	if item[0] != None and item[1] != None:
925	listOfConstraint.append((item[0],item[1]))
926
927	#Do the single fit
928	fitter.set_model(deepcopy(model), fit_id,
929	pars, constraints=listOfConstraint)
930
931	fitter.set_data(data=data, id=fit_id,
932	smearer=smearer, qmin=qmin, qmax=qmax)
933
934	fitter.select_problem_for_fit(id=fit_id, value=1)
935	value.clear_model_param()
936
937
938	def _fit_helper(self, pars, value, fitproblem_id, fitter_list,
939	fitter=None, title="Single Fit " ):
940	"""
941	helper for fitting
942	"""
943	from sans.fit.Fitting import Fit
944	self.fit_id = 0
945	data_list = value.get_fit_data_list()
946	pointer_to_fitproblem = value.get_pointer_to_fitproblem()
947	#Create list of parameters for fitting used
948	templist = []
949	for single_data in data_list:
950	fitter = Fit(self._fit_engine)
951	try:
952	if single_data.id in pointer_to_fitproblem:
953	v = self.page_finder[pointer_to_fitproblem[single_data.id]]
954	self._fit_setter(data=single_data, value=v,
955	fitter=fitter,
956	pars=pars,
957	fit_id=self.fit_id)
958	else:
959	self._fit_setter(data=single_data, value=value,
960	fitter=fitter,
961	pars=pars,
962	fit_id=self.fit_id)
963	except:
964	raise
965	#msg = title + " error: %s" % sys.exc_value
966	#wx.PostEvent(self.parent, StatusEvent(status=msg, type="stop"))
967	fitter_list.append(fitter)
968	self.fit_id += 1
969
970	def _onSelect(self,event):
971	"""
972	when Select data to fit a new page is created .Its reference is
973	added to self.page_finder
974	"""
975	self.panel = event.GetEventObject()
976	Plugin.on_perspective(self, event=event)
977	for plottable in self.panel.graph.plottables:
978	if plottable.__class__.__name__ in ["Data1D", "Theory1D"]:
979	data_id = self.panel.graph.selected_plottable
980	if plottable == self.panel.plots[data_id]:
981	data = plottable
982	self.add_fit_page(data=[data])
983	return
984	else:
985	data = plottable
986	self.add_fit_page(data=[data])
987	self.set_top_panel()
988
989	def update_fit(self, result=None, msg=""):
990	"""
991	"""
992	print "update_fit result", result
993
994	def _batch_single_fit_complete_helper(self,result, pars, page_id,
995	elapsed=None):
996	"""
997	Fit result are display in batch mode
998	"""
999	self._update_fit_button(page_id)
1000	msg = "Single Fitting complete "
1001	wx.PostEvent(self.parent, StatusEvent(status=msg, info="info",
1002	type="stop"))
1003	if self.batch_on:
1004	batch_result = {"Chi2":[]}
1005	for index in range(len(pars)):
1006	batch_result[pars[index]] = []
1007	batch_result["error on %s" % pars[index]] = []
1008	for res in result:
1009	batch_result["Chi2"].append(res.fitness)
1010	for index in range(len(pars)):
1011	batch_result[pars[index]].append(res.pvec[index])
1012	item = res.stderr[index]
1013	batch_result["error on %s" % pars[index]].append(item)
1014
1015	pid = page_id[0]
1016	self.page_finder[pid].set_result(result=batch_result)
1017	self.parent.on_set_batch_result(data=batch_result,
1018	name=self.sub_menu)
1019
1020
1021	def _single_fit_completed(self, result, pars, page_id, elapsed=None):
1022	"""
1023	Display fit result on one page of the notebook.
1024
1025	:param result: result of fit
1026	:param pars: list of names of parameters fitted
1027	:param current_pg: the page where information will be displayed
1028	:param qmin: the minimum value of x to replot the model
1029	:param qmax: the maximum value of x to replot model
1030
1031	"""
1032	self._mac_sleep(0.2)
1033	if page_id[0] in self.fit_thread_list.keys():
1034	del self.fit_thread_list[page_id[0]]
1035	if self.batch_on:
1036	wx.CallAfter(self._batch_single_fit_complete_helper,
1037	result, pars, page_id, elapsed=None)
1038	return
1039	else:
1040	try:
1041	result = result[0]
1042	if result == None:
1043	self._update_fit_button(page_id)
1044	msg= "Single Fitting did not converge!!!"
1045	wx.PostEvent(self.parent,
1046	StatusEvent(status=msg,
1047	info="warning",
1048	type="stop"))
1049	return
1050	if not numpy.isfinite(result.fitness) or \
1051	numpy.any(result.pvec == None) or \
1052	not numpy.all(numpy.isfinite(result.pvec)):
1053	msg = "Single Fitting did not converge!!!"
1054	wx.PostEvent(self.parent,
1055	StatusEvent(status=msg,
1056	info="warning",
1057	type="stop"))
1058	self._update_fit_button(page_id)
1059	return
1060
1061	for uid in page_id:
1062	value = self.page_finder[uid]
1063	model = value.get_model()
1064	page_id = uid
1065
1066	param_name = []
1067	for name in pars:
1068	param_name.append(name)
1069
1070	cpage = self.fit_panel.get_page_by_id(uid)
1071	# Make sure we got all results
1072	#(CallAfter is important to MAC)
1073	wx.CallAfter(cpage.onsetValues, result.fitness,
1074	param_name, result.pvec, result.stderr)
1075	cpage._on_fit_complete()
1076	if result.stderr == None:
1077	msg = "Fit Abort: "
1078	else:
1079	msg = "Fitting: "
1080	msg += "Completed!!!"
1081	wx.PostEvent(self.parent, StatusEvent(status=msg))
1082	return
1083	except ValueError:
1084	self._update_fit_button(page_id)
1085	msg = "Single Fitting did not converge!!!"
1086	wx.PostEvent(self.parent, StatusEvent(status=msg, info="error",
1087	type="stop"))
1088	return
1089	except:
1090	self._update_fit_button(page_id)
1091	msg = "Single Fit completed but Following"
1092	msg += " error occurred:%s" % sys.exc_value
1093	wx.PostEvent(self.parent, StatusEvent(status=msg, info="error",
1094	type="stop"))
1095	raise
1096	return
1097
1098	def _simul_fit_completed(self, result, page_id,pars=None, elapsed=None):
1099	"""
1100	Parameter estimation completed,
1101	display the results to the user
1102
1103	:param alpha: estimated best alpha
1104	:param elapsed: computation time
1105
1106	"""
1107	self.fit_thread_list = {}
1108	if page_id is None:
1109	page_id = []
1110	## fit more than 1 model at the same time
1111	self._mac_sleep(0.2)
1112	try:
1113	msg = ""
1114	if result == None:
1115	self._update_fit_button(page_id)
1116	msg= "Complex Fitting did not converge!!!"
1117	wx.PostEvent(self.parent, StatusEvent(status=msg,
1118	type="stop"))
1119	return
1120	if not numpy.isfinite(result.fitness) or \
1121	numpy.any(result.pvec == None) or not \
1122	numpy.all(numpy.isfinite(result.pvec)):
1123	self._update_fit_button(page_id)
1124	msg= "Simultaneous Fitting did not converge!!!"
1125	wx.PostEvent(self.parent, StatusEvent(status=msg,type="stop"))
1126	return
1127
1128	for uid in page_id:
1129	value = self.page_finder[uid]
1130	model = value.get_model()
1131	data = value.get_fit_data()
1132	small_param_name = []
1133	small_out = []
1134	small_cov = []
1135	#Separate result in to data corresponding to each page
1136	for p in result.parameters:
1137	model_name, param_name = self.split_string(p.name)
1138	if model.name == model_name:
1139	p_name= model.name+"."+param_name
1140	if p.name == p_name:
1141	if p.value != None and numpy.isfinite(p.value):
1142	small_out.append(p.value)
1143	small_param_name.append(param_name)
1144	small_cov.append(p.stderr)
1145	# Display result on each page
1146	cpage = self.fit_panel.get_page_by_id(uid)
1147	wx.CallAfter(cpage.onsetValues,
1148	result.fitness,
1149	small_param_name,
1150	small_out,small_cov)
1151	cpage._on_fit_complete()
1152	msg = "Fit completed!"
1153	wx.PostEvent(self.parent, StatusEvent(status=msg))
1154	except Exception:
1155	self._update_fit_button(page_id)
1156	msg = "Complex Fitting did not converge!!!"
1157	wx.PostEvent(self.parent, StatusEvent(status=msg, info="error",
1158	type="stop"))
1159	return
1160
1161	except:
1162	self._update_fit_button(page_id)
1163	msg = "Simultaneous Fit completed"
1164	msg += " but Following error occurred:%s" % sys.exc_value
1165	wx.PostEvent(self.parent, StatusEvent(status=msg, type="stop"))
1166
1167	def _update_fit_button(self, page_id):
1168	"""
1169	Update Fit button when fit stopped
1170
1171	: parameter page_id: fitpage where the button is
1172	"""
1173	if page_id.__class__.__name__ != 'list':
1174	page_id = [page_id]
1175	for uid in page_id:
1176	page = self.fit_panel.get_page_by_id(uid)
1177	page._on_fit_complete()
1178
1179	def _on_show_panel(self, event):
1180	"""
1181	"""
1182	pass
1183
1184	def _onset_engine_park(self,event):
1185	"""
1186	set engine to park
1187	"""
1188	self._on_change_engine('park')
1189
1190	def _onset_engine_scipy(self,event):
1191	"""
1192	set engine to scipy
1193	"""
1194	self._on_change_engine('scipy')
1195
1196	def _on_slicer_event(self, event):
1197	"""
1198	Receive a panel as event and send it to guiframe
1199
1200	:param event: event containing a panel
1201
1202	"""
1203	if event.panel is not None:
1204	new_panel = event.panel
1205	self.slicer_panels.append(event.panel)
1206	# Set group ID if available
1207	event_id = self.parent.popup_panel(new_panel)
1208	#self.menu3.Append(event_id, new_panel.window_caption,
1209	# "Show %s plot panel" % new_panel.window_caption)
1210	# Set id to allow us to reference the panel later
1211
1212	new_panel.uid = event_id
1213	self.mypanels.append(new_panel)
1214
1215	def _onclearslicer(self, event):
1216	"""
1217	Clear the boxslicer when close the panel associate with this slicer
1218	"""
1219	name =event.GetPane().caption
1220
1221	for panel in self.slicer_panels:
1222	if panel.window_caption==name:
1223
1224	for item in self.parent.panels:
1225	if hasattr(self.parent.panels[item],"uid"):
1226	if self.parent.panels[item].uid ==panel.base.uid:
1227	self.parent.panels[item].onClearSlicer(event)
1228	self.parent._mgr.Update()
1229	break
1230	break
1231
1232	def _return_engine_type(self):
1233	"""
1234	return the current type of engine
1235	"""
1236	return self._fit_engine
1237
1238
1239	def _on_change_engine(self, engine='park'):
1240	"""
1241	Allow to select the type of engine to perform fit
1242
1243	:param engine: the key work of the engine
1244
1245	"""
1246	## saving fit engine name
1247	self._fit_engine = engine
1248	## change menu item state
1249	if engine=="park":
1250	self.menu1.FindItemById(self.park_id).Check(True)
1251	self.menu1.FindItemById(self.scipy_id).Check(False)
1252	else:
1253	self.menu1.FindItemById(self.park_id).Check(False)
1254	self.menu1.FindItemById(self.scipy_id).Check(True)
1255	## post a message to status bar
1256	msg = "Engine set to: %s" % self._fit_engine
1257	wx.PostEvent(self.parent,
1258	StatusEvent(status=msg))
1259	## send the current engine type to fitpanel
1260	self.fit_panel._on_engine_change(name=self._fit_engine)
1261
1262
1263	def _on_model_panel(self, evt):
1264	"""
1265	react to model selection on any combo box or model menu.plot the model
1266
1267	:param evt: wx.combobox event
1268
1269	"""
1270	model = evt.model
1271	uid = evt.uid
1272	qmin = evt.qmin
1273	qmax = evt.qmax
1274	smearer = evt.smearer
1275
1276	if model == None:
1277	return
1278
1279	if self.page_finder[uid].get_model() is None:
1280	model.name = "M" + str(self.index_model)
1281	self.index_model += 1
1282	else:
1283	model.name = self.page_finder[uid].get_model().name
1284	# save the name containing the data name with the appropriate model
1285	self.page_finder[uid].set_model(model)
1286	self.page_finder[uid].set_range(qmin=qmin, qmax=qmax)
1287	if self.sim_page is not None:
1288	self.sim_page.draw_page()
1289
1290	def _update1D(self,x, output):
1291	"""
1292	Update the output of plotting model 1D
1293	"""
1294	msg = "Plot updating ... "
1295	wx.PostEvent(self.parent, StatusEvent(status=msg,type="update"))
1296	#self.ready_fit()
1297
1298
1299	def _fill_default_model2D(self, theory, page_id, qmax,qstep, qmin=None):
1300	"""
1301	fill Data2D with default value
1302
1303	:param theory: Data2D to fill
1304
1305	"""
1306	from sans.dataloader.data_info import Detector, Source
1307
1308	detector = Detector()
1309	theory.detector.append(detector)
1310	theory.source= Source()
1311
1312	## Default values
1313	theory.detector[0].distance= 8000 # mm
1314	theory.source.wavelength= 6 # A
1315	theory.detector[0].pixel_size.x= 5 # mm
1316	theory.detector[0].pixel_size.y= 5 # mm
1317
1318	theory.detector[0].beam_center.x= qmax
1319	theory.detector[0].beam_center.y= qmax
1320
1321	## create x_bins and y_bins of the model 2D
1322	pixel_width_x = theory.detector[0].pixel_size.x
1323	pixel_width_y = theory.detector[0].pixel_size.y
1324	center_x = theory.detector[0].beam_center.x/pixel_width_x
1325	center_y = theory.detector[0].beam_center.y/pixel_width_y
1326
1327	# theory default: assume the beam
1328	#center is located at the center of sqr detector
1329	xmax = qmax
1330	xmin = -qmax
1331	ymax = qmax
1332	ymin = -qmax
1333
1334	x= numpy.linspace(start= -1*qmax,
1335	stop=qmax,
1336	num=qstep,
1337	endpoint=True)
1338	y = numpy.linspace(start=-1*qmax,
1339	stop= qmax,
1340	num= qstep,
1341	endpoint=True)
1342
1343	## use data info instead
1344	new_x = numpy.tile(x, (len(y),1))
1345	new_y = numpy.tile(y, (len(x),1))
1346	new_y = new_y.swapaxes(0,1)
1347
1348	# all data reuire now in 1d array
1349	qx_data = new_x.flatten()
1350	qy_data = new_y.flatten()
1351
1352	q_data = numpy.sqrt(qx_dataqx_data+qy_dataqy_data)
1353	# set all True (standing for unmasked) as default
1354	mask = numpy.ones(len(qx_data), dtype = bool)
1355
1356	# calculate the range of qx and qy: this way,
1357	# it is a little more independent
1358	x_size = xmax- xmin
1359	y_size = ymax -ymin
1360
1361	# store x and y bin centers in q space
1362	x_bins = x
1363	y_bins = y
1364	# bin size: x- & y-directions
1365	xstep = x_size/len(x_bins-1)
1366	ystep = y_size/len(y_bins-1)
1367
1368	#theory.data = numpy.zeros(len(mask))
1369	theory.err_data = numpy.ones(len(mask))
1370	theory.qx_data = qx_data
1371	theory.qy_data = qy_data
1372	theory.q_data = q_data
1373	theory.mask = mask
1374	theory.x_bins = x_bins
1375	theory.y_bins = y_bins
1376
1377	# max and min taking account of the bin sizes
1378	theory.xmin = xmin
1379	theory.xmax = xmax
1380	theory.ymin = ymin
1381	theory.ymax = ymax
1382	theory.group_id = str(page_id) + " Model2D"
1383	theory.id = str(page_id) + " Model2D"
1384
1385	def _complete1D(self, x,y, page_id, elapsed,index,model,
1386	toggle_mode_on=False,state=None,
1387	data=None, update_chisqr=True):
1388	"""
1389	Complete plotting 1D data
1390	"""
1391	try:
1392	new_plot = Data1D(x=x, y=y)
1393	new_plot.is_data = False
1394	new_plot.symbol = GUIFRAME_ID.CURVE_SYMBOL_NUM
1395	if data != None:
1396	#if model.output_name.lower().count("reflectivity") > 0:
1397	# _yaxis, _yunit = "\\rm{%s}"% model.output_name, \
1398	# "%s"% model.output_unit
1399	#else:
1400	_yaxis, _yunit = data.get_yaxis()
1401	_xaxis, _xunit = data.get_xaxis()
1402	new_plot.title = data.name
1403	#if the theory is already plotted use the same group id
1404	#to replot
1405	if page_id in self.page_finder:
1406	theory_data = self.page_finder[page_id].get_theory_data()
1407	if theory_data is not None:
1408	data.group_id = theory_data.group_id
1409	#data is plotted before the theory, then take its group_id
1410	#assign to the new theory
1411	new_plot.group_id = data.group_id
1412
1413	else:
1414	_xaxis, _xunit = "\\rm{%s}"% model.input_name, \
1415	"%s"% model.input_unit
1416	_yaxis, _yunit = "\\rm{%s}"% model.output_name, \
1417	"%s"% model.output_unit
1418	new_plot.title = "Analytical model 1D "
1419	#find a group id to plot theory without data
1420	new_plot.group_id = str(page_id) + " Model1D"
1421	new_plot.id = str(page_id) + " Model1D"
1422
1423	#find if this theory was already plotted and replace that plot given
1424	#the same id
1425
1426	theory_data = self.page_finder[page_id].get_theory_data()
1427	if theory_data is not None:
1428	new_plot.id = theory_data.id
1429
1430	new_plot.name = model.name + " ["+ str(model.__class__.__name__)+ "]"
1431	new_plot.xaxis(_xaxis, _xunit)
1432	new_plot.yaxis(_yaxis, _yunit)
1433	if toggle_mode_on:
1434	new_plot.id = str(page_id) + " Model"
1435	wx.PostEvent(self.parent,
1436	NewPlotEvent(group_id=str(page_id) + " Model2D",
1437	action="Hide"))
1438
1439	self.page_finder[page_id].set_theory_data(new_plot)
1440	if data is None:
1441	data_id = None
1442	else:
1443	data_id = data.id
1444
1445	self.parent.update_theory(data_id=data_id,
1446	theory=new_plot,
1447	state=state)
1448
1449	current_pg = self.fit_panel.get_page_by_id(page_id)
1450	title = new_plot.title
1451	new_plot.custom_color = self.test_model_color
1452	#print "just set the new plot color"
1453	if new_plot.id in self.color_dict:
1454	new_plot.custom_color = self.color_dict[new_plot.id]
1455	#print "I HAVE JUST ADDED A NEW COLOR/ID ", new_plot.custom_color
1456	wx.PostEvent(self.parent, NewPlotEvent(plot=new_plot,
1457	title= str(title)))
1458
1459	self.page_finder[page_id].set_theory_data(new_plot)
1460
1461	if update_chisqr:
1462	wx.PostEvent(current_pg,
1463	Chi2UpdateEvent(output=self._cal_chisqr(data=data,
1464	page_id=page_id,
1465	index=index)))
1466	else:
1467	self._plot_residuals(page_id, data, index)
1468
1469	msg = "Computation completed!"
1470	wx.PostEvent( self.parent, StatusEvent(status=msg, type="stop" ))
1471
1472	#self.current_pg.state.theory_data = deepcopy(self.theory_data)
1473	except:
1474	raise
1475	#msg = " Error occurred when drawing %s Model 1D: " % new_plot.name
1476	#msg += " %s" % sys.exc_value
1477	#wx.PostEvent(self.parent, StatusEvent(status=msg, type="stop"))
1478
1479	def _update2D(self, output,time=None):
1480	"""
1481	Update the output of plotting model
1482	"""
1483	wx.PostEvent(self.parent, StatusEvent(status="Plot \
1484	#updating ... ", type="update"))
1485	#self.ready_fit()
1486
1487	def _complete2D(self, image, data, model, page_id, elapsed, index, qmin,
1488	qmax, toggle_mode_on=False,state=None,qstep=DEFAULT_NPTS,
1489	update_chisqr=True):
1490	"""
1491	Complete get the result of modelthread and create model 2D
1492	that can be plot.
1493	"""
1494	err_image = numpy.zeros(numpy.shape(image))
1495
1496	new_plot= Data2D(image=image, err_image=err_image)
1497	new_plot.name = model.name
1498	new_plot.title = "Analytical model 2D "
1499	if data is None:
1500	self._fill_default_model2D(theory=new_plot,
1501	qmax=qmax,
1502	page_id=page_id,
1503	qstep=qstep,
1504	qmin= qmin)
1505
1506	else:
1507	new_plot.id = str(page_id) + " Model2D"
1508	new_plot.group_id = str(page_id) + " Model2D"
1509	new_plot.x_bins = data.x_bins
1510	new_plot.y_bins = data.y_bins
1511	new_plot.detector = data.detector
1512	new_plot.source = data.source
1513	new_plot.is_data = False
1514	new_plot.qx_data = data.qx_data
1515	new_plot.qy_data = data.qy_data
1516	new_plot.q_data = data.q_data
1517	#numpy.zeros(len(data.err_data))#data.err_data
1518	new_plot.err_data = err_image
1519	new_plot.mask = data.mask
1520	## plot boundaries
1521	new_plot.ymin = data.ymin
1522	new_plot.ymax = data.ymax
1523	new_plot.xmin = data.xmin
1524	new_plot.xmax = data.xmax
1525	title = data.title
1526	if len(title) > 1:
1527	new_plot.title = "Model2D for " + data.name
1528	new_plot.is_data = False
1529	new_plot.name = model.name + " ["+ str(model.__class__.__name__)+ "]"
1530
1531	theory_data = deepcopy(new_plot)
1532	theory_data.name = "Unknown"
1533	if toggle_mode_on:
1534	new_plot.id = str(page_id) + " Model"
1535	wx.PostEvent(self.parent,
1536	NewPlotEvent(group_id=str(page_id) + " Model1D",
1537	action="Hide"))
1538
1539	self.page_finder[page_id].set_theory_data(new_plot)
1540	if data is None:
1541	data_id = None
1542	else:
1543	data_id = data.id
1544	self.parent.update_theory(data_id=data_id,
1545	theory=new_plot,
1546	state=state)
1547	current_pg = self.fit_panel.get_page_by_id(page_id)
1548	title = new_plot.title
1549
1550	wx.PostEvent(self.parent, NewPlotEvent(plot=new_plot,
1551	title=title))
1552	self.page_finder[page_id].set_theory_data(new_plot)
1553	# Chisqr in fitpage
1554	if update_chisqr:
1555	wx.PostEvent(current_pg,
1556	Chi2UpdateEvent(output=\
1557	self._cal_chisqr(data=data,
1558	page_id=page_id,
1559	index=index)))
1560	else:
1561	self._plot_residuals(page_id, data, index)
1562	msg = "Computation completed!"
1563	wx.PostEvent(self.parent, StatusEvent(status=msg, type="stop"))
1564
1565	def _draw_model2D(self, model, page_id, data=None, smearer=None,
1566	description=None, enable2D=False,
1567	state=None,
1568	toggle_mode_on=False,
1569	qmin=DEFAULT_QMIN, qmax=DEFAULT_QMAX,
1570	qstep=DEFAULT_NPTS,
1571	update_chisqr=True):
1572	"""
1573	draw model in 2D
1574
1575	:param model: instance of the model to draw
1576	:param description: the description of the model
1577	:param enable2D: when True allows to draw model 2D
1578	:param qmin: the minimum value to draw model 2D
1579	:param qmax: the maximum value to draw model 2D
1580	:param qstep: the number of division of Qx and Qy of the model to draw
1581
1582	"""
1583	x= numpy.linspace(start=-1*qmax,
1584	stop=qmax,
1585	num=qstep,
1586	endpoint=True)
1587	y = numpy.linspace(start= -1*qmax,
1588	stop=qmax,
1589	num=qstep,
1590	endpoint=True)
1591	if model is None:
1592	msg = "Panel with ID: %s does not contained model" % str(page_id)
1593	raise ValueError, msg
1594	## use data info instead
1595	if data is not None:
1596	## check if data2D to plot
1597	if hasattr(data, "x_bins"):
1598	enable2D = True
1599	x = data.x_bins
1600	y = data.y_bins
1601
1602	if not enable2D:
1603	return None, None
1604	try:
1605	from model_thread import Calc2D
1606	## If a thread is already started, stop it
1607	if (self.calc_2D is not None) and self.calc_2D.isrunning():
1608	self.calc_2D.stop()
1609	self.calc_2D = Calc2D(x=x,
1610	y=y,
1611	model=model,
1612	data=data,
1613	page_id=page_id,
1614	smearer=smearer,
1615	qmin=qmin,
1616	qmax=qmax,
1617	qstep=qstep,
1618	toggle_mode_on=toggle_mode_on,
1619	state=state,
1620	completefn=self._complete2D,
1621	#updatefn= self._update2D,
1622	update_chisqr=update_chisqr)
1623
1624	self.calc_2D.queue()
1625
1626	except:
1627	raise
1628	#msg = " Error occurred when drawing %s Model 2D: " % model.name
1629	#msg += " %s" % sys.exc_value
1630	#wx.PostEvent(self.parent, StatusEvent(status=msg))
1631
1632	def _draw_model1D(self, model, page_id, data=None, smearer=None,
1633	qmin=DEFAULT_QMIN, qmax=DEFAULT_QMAX,
1634	state=None,
1635	toggle_mode_on=False,
1636	qstep=DEFAULT_NPTS, update_chisqr=True,
1637	enable1D=True):
1638	"""
1639	Draw model 1D from loaded data1D
1640
1641	:param data: loaded data
1642	:param model: the model to plot
1643
1644	"""
1645	x= numpy.linspace(start=qmin,
1646	stop=qmax,
1647	num=qstep,
1648	endpoint=True
1649	)
1650	if data is not None:
1651	## check for data2D
1652	if hasattr(data,"x_bins"):
1653	return
1654	x = data.x
1655	if qmin == None :
1656	qmin == DEFAULT_QMIN
1657
1658	if qmax == None:
1659	qmax == DEFAULT_QMAX
1660	if not enable1D:
1661	return
1662	try:
1663	from model_thread import Calc1D
1664	## If a thread is already started, stop it
1665	if (self.calc_1D is not None) and self.calc_1D.isrunning():
1666	self.calc_1D.stop()
1667	self.calc_1D = Calc1D(x=x,
1668	data=data,
1669	model=model,
1670	page_id=page_id,
1671	qmin=qmin,
1672	qmax=qmax,
1673	smearer=smearer,
1674	state=state,
1675	toggle_mode_on=toggle_mode_on,
1676	completefn=self._complete1D,
1677	#updatefn = self._update1D,
1678	update_chisqr=update_chisqr)
1679
1680	self.calc_1D.queue()
1681	except:
1682	msg = " Error occurred when drawing %s Model 1D: " % model.name
1683	msg += " %s" % sys.exc_value
1684	wx.PostEvent(self.parent, StatusEvent(status=msg))
1685
1686	def _cal_chisqr(self, page_id, data=None, index=None):
1687	"""
1688	Get handy Chisqr using the output from draw1D and 2D,
1689	instead of calling expansive CalcChisqr in guithread
1690	"""
1691	# default chisqr
1692	chisqr = None
1693
1694	# return None if data == None
1695	if data == None: return chisqr
1696
1697	# Get data: data I, theory I, and data dI in order
1698	if data.__class__.__name__ == "Data2D":
1699	if index == None:
1700	index = numpy.ones(len(data.data),ntype=bool)
1701	# get rid of zero error points
1702	index = index & (data.err_data != 0 )
1703	index = index & (numpy.isfinite(data.data))
1704	fn = data.data[index]
1705	theory_data = self.page_finder[page_id].get_theory_data()
1706	gn = theory_data.data[index]
1707	en = data.err_data[index]
1708	else:
1709	# 1 d theory from model_thread is only in the range of index
1710	if index == None:
1711	index = numpy.ones(len(data.y), ntype=bool)
1712	if data.dy == None or data.dy == []:
1713	dy = numpy.ones(len(data.y))
1714	else:
1715	## Set consitently w/AbstractFitengine:
1716	# But this should be corrected later.
1717	dy = deepcopy(data.dy)
1718	dy[dy==0] = 1
1719	fn = data.y[index]
1720	theory_data = self.page_finder[page_id].get_theory_data()
1721	gn = theory_data.y
1722	en = dy[index]
1723
1724	# residual
1725	res = (fn - gn) / en
1726	residuals = res[numpy.isfinite(res)]
1727	# get chisqr only w/finite
1728	chisqr = numpy.average(residuals * residuals)
1729
1730	self._plot_residuals(page_id, data, index)
1731	return chisqr
1732
1733
1734
1735	def _plot_residuals(self, page_id, data=None, index=None):
1736	"""
1737	Plot the residuals
1738
1739	:param data: data
1740	:param index: index array (bool)
1741	: Note: this is different from the residuals in cal_chisqr()
1742	"""
1743	if data == None:
1744	return
1745
1746	# Get data: data I, theory I, and data dI in order
1747	if data.__class__.__name__ == "Data2D":
1748	# build residuals
1749	#print data
1750	residuals = Data2D()
1751	#residuals.copy_from_datainfo(data)
1752	# Not for trunk the line below, instead use the line above
1753	data.clone_without_data(len(data.data), residuals)
1754	residuals.data = None
1755	fn = data.data#[index]
1756	theory_data = self.page_finder[page_id].get_theory_data()
1757	gn = theory_data.data#[index]
1758	en = data.err_data#[index]
1759	residuals.data = (fn - gn) / en
1760	residuals.qx_data = data.qx_data#[index]
1761	residuals.qy_data = data.qy_data #[index]
1762	residuals.q_data = data.q_data#[index]
1763	residuals.err_data = numpy.ones(len(residuals.data))#[index]
1764	residuals.xmin = min(residuals.qx_data)
1765	residuals.xmax = max(residuals.qx_data)
1766	residuals.ymin = min(residuals.qy_data)
1767	residuals.ymax = max(residuals.qy_data)
1768	residuals.q_data = data.q_data#[index]
1769	residuals.mask = data.mask
1770	residuals.scale = 'linear'
1771	#print "print data",residuals
1772	# check the lengths
1773	if len(residuals.data) != len(residuals.q_data):
1774	return
1775
1776	else:
1777	# 1 d theory from model_thread is only in the range of index
1778	if data.dy == None or data.dy == []:
1779	dy = numpy.ones(len(data.y))
1780	else:
1781	## Set consitently w/AbstractFitengine:
1782	## But this should be corrected later.
1783	dy = deepcopy(data.dy)
1784	dy[dy==0] = 1
1785	fn = data.y[index]
1786	theory_data = self.page_finder[page_id].get_theory_data()
1787	gn = theory_data.y
1788	en = dy[index]
1789	# build residuals
1790	residuals = Data1D()
1791	residuals.y = (fn - gn) / en
1792	residuals.x = data.x[index]
1793	residuals.dy = numpy.ones(len(residuals.y))
1794	residuals.dx = None
1795	residuals.dxl = None
1796	residuals.dxw = None
1797	residuals.ytransform = 'y'
1798	# For latter scale changes
1799	residuals.xaxis('\\rm{Q} ', 'A^{-1}')
1800	residuals.yaxis('\\rm{Residuals} ', 'normalized')
1801
1802	new_plot = residuals
1803	if data.id == None:
1804	data.id = data.name
1805	name = data.id
1806	new_plot.name = "Residuals for " + str(data.name)
1807	## allow to highlight data when plotted
1808	new_plot.interactive = True
1809	## when 2 data have the same id override the 1 st plotted
1810	new_plot.id = new_plot.name#name + " residuals"
1811	##group_id specify on which panel to plot this data
1812	new_plot.group_id = new_plot.id
1813	#new_plot.is_data = True
1814	##post data to plot
1815	title = new_plot.name
1816
1817	# plot data
1818	wx.PostEvent(self.parent, NewPlotEvent(plot=new_plot, title=title))
1819
1820	#def profile(fn, args, *kw):
1821	# import cProfile, pstats, os
1822	# global call_result
1823	# def call():
1824	# global call_result
1825	# call_result = fn(args, *kw)
1826	# cProfile.runctx('call()', dict(call=call), {}, 'profile.out')
1827	# stats = pstats.Stats('profile.out')
1828	# #stats.sort_stats('time')
1829	# stats.sort_stats('calls')
1830	# stats.print_stats()
1831	# os.unlink('profile.out')
1832	# return call_result
1833	if __name__ == "__main__":
1834	i = Plugin()
1835
1836
1837
1838

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SasView

source: sasview/fittingview/src/sans/perspectives/fitting/fitting.py @ d48858da

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