fitting.py @ 90d9cd3

ESS_GUIESS_GUI_DocsESS_GUI_batch_fittingESS_GUI_bumps_abstractionESS_GUI_iss1116ESS_GUI_iss879ESS_GUI_iss959ESS_GUI_openclESS_GUI_orderingESS_GUI_sync_sascalcmagnetic_scattrelease-4.2.2ticket-1009ticket-1094-headlessticket-1242-2d-resolutionticket-1243ticket-1249ticket885unittest-saveload

Last change on this file since 90d9cd3 was a534432, checked in by Gonzalez, Miguel <gonzalez@…>, 8 years ago
Reorder if-block to clear plot when model returns only nans and show error message in screen
Property mode set to `100755`
File size: 88.9 KB

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1	"""
2	Fitting perspective
3	"""
4	################################################################################
5	#This software was developed by the University of Tennessee as part of the
6	#Distributed Data Analysis of Neutron Scattering Experiments (DANSE)
7	#project funded by the US National Science Foundation.
8	#
9	#See the license text in license.txt
10	#
11	#copyright 2009, University of Tennessee
12	################################################################################
13	from __future__ import print_function
14
15	import re
16	import sys
17	import os
18	import wx
19	import logging
20	import numpy as np
21	import time
22	from copy import deepcopy
23	import traceback
24
25	from sas.sascalc.dataloader.loader import Loader
26	from sas.sasgui.guiframe.dataFitting import Data2D
27	from sas.sasgui.guiframe.dataFitting import Data1D
28	from sas.sasgui.guiframe.dataFitting import check_data_validity
29	from sas.sasgui.guiframe.events import NewPlotEvent
30	from sas.sasgui.guiframe.events import StatusEvent
31	from sas.sasgui.guiframe.events import EVT_SLICER_PANEL
32	from sas.sasgui.guiframe.events import EVT_SLICER_PARS_UPDATE
33	from sas.sasgui.guiframe.gui_style import GUIFRAME_ID
34	from sas.sasgui.guiframe.plugin_base import PluginBase
35	from sas.sasgui.guiframe.data_processor import BatchCell
36	from sas.sascalc.fit.BumpsFitting import BumpsFit as Fit
37	from sas.sasgui.perspectives.fitting.console import ConsoleUpdate
38	from sas.sasgui.perspectives.fitting.fitproblem import FitProblemDictionary
39	from sas.sasgui.perspectives.fitting.fitpanel import FitPanel
40	from sas.sasgui.perspectives.fitting.resultpanel import ResultPanel, PlotResultEvent
41
42	from sas.sasgui.perspectives.fitting.fit_thread import FitThread
43	from sas.sasgui.perspectives.fitting.pagestate import Reader
44	from sas.sasgui.perspectives.fitting.fitpage import Chi2UpdateEvent
45	from sas.sasgui.perspectives.calculator.model_editor import TextDialog
46	from sas.sasgui.perspectives.calculator.model_editor import EditorWindow
47	from sas.sasgui.guiframe.gui_manager import MDIFrame
48	from sas.sasgui.guiframe.documentation_window import DocumentationWindow
49	from sas.sasgui.perspectives.fitting.gpu_options import GpuOptions
50
51	from . import models
52
53	logger = logging.getLogger(__name__)
54
55	MAX_NBR_DATA = 4
56
57	(PageInfoEvent, EVT_PAGE_INFO) = wx.lib.newevent.NewEvent()
58
59
60	if sys.platform == "win32":
61	ON_MAC = False
62	else:
63	ON_MAC = True
64
65	import bumps.options
66	from bumps.gui.fit_dialog import show_fit_config
67	try:
68	from bumps.gui.fit_dialog import EVT_FITTER_CHANGED
69	except ImportError:
70	# CRUFT: bumps 0.7.5.8 and below
71	EVT_FITTER_CHANGED = None # type: wx.PyCommandEvent
72
73	class Plugin(PluginBase):
74	"""
75	Fitting plugin is used to perform fit
76	"""
77	def __init__(self):
78	PluginBase.__init__(self, name="Fitting")
79
80	#list of panel to send to guiframe
81	self.mypanels = []
82	# reference to the current running thread
83	self.calc_2D = None
84	self.calc_1D = None
85
86	self.color_dict = {}
87
88	self.fit_thread_list = {}
89	self.residuals = None
90	self.weight = None
91	self.fit_panel = None
92	self.plot_panel = None
93	# Start with a good default
94	self.elapsed = 0.022
95	self.fit_panel = None
96	## dictionary of page closed and id
97	self.closed_page_dict = {}
98	## Relative error desired in the sum of squares (float)
99	self.batch_reset_flag = True
100	#List of selected data
101	self.selected_data_list = []
102	## list of slicer panel created to display slicer parameters and results
103	self.slicer_panels = []
104	# model 2D view
105	self.model2D_id = None
106	#keep reference of the simultaneous fit page
107	self.sim_page = None
108	self.sim_menu = None
109	self.batch_page = None
110	self.batch_menu = None
111	self.index_model = 0
112	self.test_model_color = None
113	#Create a reader for fit page's state
114	self.state_reader = None
115	self._extensions = '.fitv'
116	self.menu1 = None
117	self.new_model_frame = None
118
119	self.temp_state = []
120	self.state_index = 0
121	self.sfile_ext = None
122	# take care of saving data, model and page associated with each other
123	self.page_finder = {}
124	# Log startup
125	logger.info("Fitting plug-in started")
126	self.batch_capable = self.get_batch_capable()
127
128	def get_batch_capable(self):
129	"""
130	Check if the plugin has a batch capability
131	"""
132	return True
133
134	def create_fit_problem(self, page_id):
135	"""
136	Given an ID create a fitproblem container
137	"""
138	self.page_finder[page_id] = FitProblemDictionary()
139
140	def delete_fit_problem(self, page_id):
141	"""
142	Given an ID create a fitproblem container
143	"""
144	if page_id in self.page_finder.iterkeys():
145	del self.page_finder[page_id]
146
147	def add_color(self, color, id):
148	"""
149	adds a color as a key with a plot id as its value to a dictionary
150	"""
151	self.color_dict[id] = color
152
153	def on_batch_selection(self, flag):
154	"""
155	switch the the notebook of batch mode or not
156	"""
157	self.batch_on = flag
158	if self.fit_panel is not None:
159	self.fit_panel.batch_on = self.batch_on
160
161	def populate_menu(self, owner):
162	"""
163	Create a menu for the Fitting plug-in
164
165	:param id: id to create a menu
166	:param owner: owner of menu
167
168	:return: list of information to populate the main menu
169
170	"""
171	#Menu for fitting
172	self.menu1 = wx.Menu()
173	id1 = wx.NewId()
174	simul_help = "Add new fit panel"
175	self.menu1.Append(id1, '&New Fit Page', simul_help)
176	wx.EVT_MENU(owner, id1, self.on_add_new_page)
177	self.menu1.AppendSeparator()
178	self.id_simfit = wx.NewId()
179	simul_help = "Constrained or Simultaneous Fit"
180	self.menu1.Append(self.id_simfit, '&Constrained or Simultaneous Fit', simul_help)
181	wx.EVT_MENU(owner, self.id_simfit, self.on_add_sim_page)
182	self.sim_menu = self.menu1.FindItemById(self.id_simfit)
183	self.sim_menu.Enable(False)
184	#combined Batch
185	self.id_batchfit = wx.NewId()
186	batch_help = "Combined Batch"
187	self.menu1.Append(self.id_batchfit, '&Combine Batch Fit', batch_help)
188	wx.EVT_MENU(owner, self.id_batchfit, self.on_add_sim_page)
189	self.batch_menu = self.menu1.FindItemById(self.id_batchfit)
190	self.batch_menu.Enable(False)
191
192	self.menu1.AppendSeparator()
193	self.id_bumps_options = wx.NewId()
194	bopts_help = "Fitting options"
195	self.menu1.Append(self.id_bumps_options, 'Fit &Options', bopts_help)
196	wx.EVT_MENU(owner, self.id_bumps_options, self.on_bumps_options)
197	self.bumps_options_menu = self.menu1.FindItemById(self.id_bumps_options)
198	self.bumps_options_menu.Enable(True)
199
200	self.id_gpu_options_panel = wx.NewId()
201	self.menu1.Append(self.id_gpu_options_panel, "OpenCL Options", "Choose OpenCL driver or turn it off")
202	wx.EVT_MENU(owner, self.id_gpu_options_panel, self.on_gpu_options)
203
204	self.id_result_panel = wx.NewId()
205	self.menu1.Append(self.id_result_panel, "Fit Results", "Show fit results panel")
206	wx.EVT_MENU(owner, self.id_result_panel, self.on_fit_results)
207	self.menu1.AppendSeparator()
208
209	self.id_reset_flag = wx.NewId()
210	resetf_help = "BatchFit: If checked, the initial param values will be "
211	resetf_help += "propagated from the previous results. "
212	resetf_help += "Otherwise, the same initial param values will be used "
213	resetf_help += "for all fittings."
214	self.menu1.AppendCheckItem(self.id_reset_flag,
215	"Chain Fitting [BatchFit Only]",
216	resetf_help)
217	wx.EVT_MENU(owner, self.id_reset_flag, self.on_reset_batch_flag)
218	chain_menu = self.menu1.FindItemById(self.id_reset_flag)
219	chain_menu.Check(not self.batch_reset_flag)
220	chain_menu.Enable(self.batch_on)
221
222	self.menu1.AppendSeparator()
223	self.edit_model_menu = wx.Menu()
224	# Find and put files name in menu
225	try:
226	self.set_edit_menu(owner=owner)
227	except:
228	raise
229
230	self.id_edit = wx.NewId()
231	self.menu1.AppendMenu(self.id_edit, "Plugin Model Operations",
232	self.edit_model_menu)
233	#create menubar items
234	return [(self.menu1, self.sub_menu)]
235
236	def edit_custom_model(self, event):
237	"""
238	Get the python editor panel
239	"""
240	event_id = event.GetId()
241	label = self.edit_menu.GetLabel(event_id)
242	from sas.sasgui.perspectives.calculator.pyconsole import PyConsole
243	filename = os.path.join(models.find_plugins_dir(), label)
244	frame = PyConsole(parent=self.parent, manager=self,
245	panel=self.fit_panel,
246	title='Advanced Plugin Model Editor',
247	filename=filename)
248	self.put_icon(frame)
249	frame.Show(True)
250
251	def delete_custom_model(self, event):
252	"""
253	Delete custom model file
254	"""
255	event_id = event.GetId()
256	label = self.delete_menu.GetLabel(event_id)
257	toks = os.path.splitext(label)
258	path = os.path.join(models.find_plugins_dir(), toks[0])
259	try:
260	for ext in ['.py', '.pyc']:
261	p_path = path + ext
262	os.remove(p_path)
263	self.update_custom_combo()
264	if os.path.isfile(p_path):
265	msg = "Sorry! unable to delete the default "
266	msg += "plugin model... \n"
267	msg += "Please manually remove the files (.py, .pyc) "
268	msg += "in the 'plugin_models' folder \n"
269	msg += "inside of the SasView application, "
270	msg += "and try it again."
271	wx.MessageBox(msg, 'Info')
272	#evt = StatusEvent(status=msg, type='stop', info='warning')
273	#wx.PostEvent(self.parent, evt)
274	else:
275	self.delete_menu.Delete(event_id)
276	for item in self.edit_menu.GetMenuItems():
277	if item.GetLabel() == label:
278	self.edit_menu.DeleteItem(item)
279	msg = "The plugin model, %s, has been deleted." % label
280	evt = StatusEvent(status=msg, type='stop', info='info')
281	wx.PostEvent(self.parent, evt)
282	break
283	except Exception:
284	import traceback; traceback.print_exc()
285	msg = 'Delete Error: \nCould not delete the file; Check if in use.'
286	wx.MessageBox(msg, 'Error')
287
288	def make_sum_model(self, event):
289	"""
290	Edit summodel template and make one
291	"""
292	event_id = event.GetId()
293	model_manager = models.ModelManager()
294	model_list = model_manager.get_model_name_list()
295	plug_dir = models.find_plugins_dir()
296	textdial = TextDialog(None, self, wx.ID_ANY, 'Easy Sum/Multi(p1, p2) Editor',
297	model_list, plug_dir)
298	self.put_icon(textdial)
299	textdial.ShowModal()
300	textdial.Destroy()
301
302	def make_new_model(self, event):
303	"""
304	Make new model
305	"""
306	if self.new_model_frame is not None:
307	self.new_model_frame.Show(False)
308	self.new_model_frame.Show(True)
309	else:
310	event_id = event.GetId()
311	dir_path = models.find_plugins_dir()
312	title = "New Plugin Model Function"
313	self.new_model_frame = EditorWindow(parent=self, base=self,
314	path=dir_path, title=title)
315	self.put_icon(self.new_model_frame)
316	self.new_model_frame.Show(True)
317
318	def load_plugin_models(self, event):
319	"""
320	Update of models in plugin_models folder
321	"""
322	event_id = event.GetId()
323	self.update_custom_combo()
324
325	def update_custom_combo(self):
326	"""
327	Update custom model list in the fitpage combo box
328	"""
329	custom_model = 'Plugin Models'
330	try:
331	# Update edit menus
332	self.set_edit_menu_helper(self.parent, self.edit_custom_model)
333	self.set_edit_menu_helper(self.parent, self.delete_custom_model)
334	temp = self.fit_panel.reset_pmodel_list()
335	if temp:
336	# Set the new plugin model list for all fit pages
337	for uid, page in self.fit_panel.opened_pages.iteritems():
338	if hasattr(page, "formfactorbox"):
339	page.model_list_box = temp
340	current_val = page.formfactorbox.GetLabel()
341	#if page.plugin_rbutton.GetValue():
342	mod_cat = page.categorybox.GetStringSelection()
343	if mod_cat == custom_model:
344	#pos = page.formfactorbox.GetSelection()
345	page._show_combox_helper()
346	new_val = page.formfactorbox.GetLabel()
347	if current_val != new_val and new_val != '':
348	page.formfactorbox.SetLabel(new_val)
349	else:
350	page.formfactorbox.SetLabel(current_val)
351	except:
352	logger.error("update_custom_combo: %s", sys.exc_value)
353
354	def set_edit_menu(self, owner):
355	"""
356	Set list of the edit model menu labels
357	"""
358	wx_id = wx.NewId()
359	#new_model_menu = wx.Menu()
360	self.edit_model_menu.Append(wx_id, 'New Plugin Model',
361	'Add a new model function')
362	wx.EVT_MENU(owner, wx_id, self.make_new_model)
363
364	wx_id = wx.NewId()
365	self.edit_model_menu.Append(wx_id, 'Sum\|Multi(p1, p2)',
366	'Sum of two model functions')
367	wx.EVT_MENU(owner, wx_id, self.make_sum_model)
368
369	e_id = wx.NewId()
370	self.edit_menu = wx.Menu()
371	self.edit_model_menu.AppendMenu(e_id,
372	'Advanced Plugin Editor', self.edit_menu)
373	self.set_edit_menu_helper(owner, self.edit_custom_model)
374
375	d_id = wx.NewId()
376	self.delete_menu = wx.Menu()
377	self.edit_model_menu.AppendMenu(d_id,
378	'Delete Plugin Models', self.delete_menu)
379	self.set_edit_menu_helper(owner, self.delete_custom_model)
380
381	wx_id = wx.NewId()
382	self.edit_model_menu.Append(wx_id, 'Load Plugin Models',
383	'(Re)Load all models present in user plugin_models folder')
384	wx.EVT_MENU(owner, wx_id, self.load_plugin_models)
385
386	def set_edit_menu_helper(self, owner=None, menu=None):
387	"""
388	help for setting list of the edit model menu labels
389	"""
390	if menu is None:
391	menu = self.edit_custom_model
392	list_fnames = os.listdir(models.find_plugins_dir())
393	list_fnames.sort()
394	for f_item in list_fnames:
395	name = os.path.basename(f_item)
396	toks = os.path.splitext(name)
397	if toks[-1] == '.py' and not toks[0] == '__init__':
398	if menu == self.edit_custom_model:
399	if toks[0] == 'easy_sum_of_p1_p2':
400	continue
401	submenu = self.edit_menu
402	else:
403	submenu = self.delete_menu
404	has_file = False
405	for item in submenu.GetMenuItems():
406	if name == submenu.GetLabel(item.GetId()):
407	has_file = True
408	if not has_file:
409	wx_id = wx.NewId()
410	submenu.Append(wx_id, name)
411	wx.EVT_MENU(owner, wx_id, menu)
412	has_file = False
413
414	def put_icon(self, frame):
415	"""
416	Put icon in the frame title bar
417	"""
418	if hasattr(frame, "IsIconized"):
419	if not frame.IsIconized():
420	try:
421	icon = self.parent.GetIcon()
422	frame.SetIcon(icon)
423	except:
424	pass
425
426	def on_add_sim_page(self, event):
427	"""
428	Create a page to access simultaneous fit option
429	"""
430	event_id = event.GetId()
431	caption = "Const & Simul Fit"
432	page = self.sim_page
433	if event_id == self.id_batchfit:
434	caption = "Combined Batch"
435	page = self.batch_page
436
437	def set_focus_page(page):
438	page.Show(True)
439	page.Refresh()
440	page.SetFocus()
441	#self.parent._mgr.Update()
442	msg = "%s already opened\n" % str(page.window_caption)
443	wx.PostEvent(self.parent, StatusEvent(status=msg))
444
445	if page is not None:
446	return set_focus_page(page)
447	if caption == "Const & Simul Fit":
448	self.sim_page = self.fit_panel.add_sim_page(caption=caption)
449	else:
450	self.batch_page = self.fit_panel.add_sim_page(caption=caption)
451
452	def get_context_menu(self, plotpanel=None):
453	"""
454	Get the context menu items available for P(r).them allow fitting option
455	for Data2D and Data1D only.
456
457	:param graph: the Graph object to which we attach the context menu
458
459	:return: a list of menu items with call-back function
460
461	:note: if Data1D was generated from Theory1D
462	the fitting option is not allowed
463
464	"""
465	self.plot_panel = plotpanel
466	graph = plotpanel.graph
467	fit_option = "Select data for fitting"
468	fit_hint = "Dialog with fitting parameters "
469
470	if graph.selected_plottable not in plotpanel.plots:
471	return []
472	item = plotpanel.plots[graph.selected_plottable]
473	if item.__class__.__name__ is "Data2D":
474	if hasattr(item, "is_data"):
475	if item.is_data:
476	return [[fit_option, fit_hint, self._onSelect]]
477	else:
478	return []
479	return [[fit_option, fit_hint, self._onSelect]]
480	else:
481
482	# if is_data is true , this in an actual data loaded
483	#else it is a data created from a theory model
484	if hasattr(item, "is_data"):
485	if item.is_data:
486	return [[fit_option, fit_hint, self._onSelect]]
487	else:
488	return []
489	return [[fit_option, fit_hint, self._onSelect]]
490	return []
491
492	def get_panels(self, parent):
493	"""
494	Create and return a list of panel objects
495	"""
496	self.parent = parent
497	#self.parent.Bind(EVT_FITSTATE_UPDATE, self.on_set_state_helper)
498	# Creation of the fit panel
499	self.frame = MDIFrame(self.parent, None, 'None', (100, 200))
500	self.fit_panel = FitPanel(parent=self.frame, manager=self)
501	self.frame.set_panel(self.fit_panel)
502	self._frame_set_helper()
503	self.on_add_new_page(event=None)
504	#Set the manager for the main panel
505	self.fit_panel.set_manager(self)
506	# List of windows used for the perspective
507	self.perspective = []
508	self.perspective.append(self.fit_panel.window_name)
509
510	self.result_frame = MDIFrame(self.parent, None, ResultPanel.window_caption, (220, 200))
511	self.result_panel = ResultPanel(parent=self.result_frame, manager=self)
512	self.perspective.append(self.result_panel.window_name)
513
514	#index number to create random model name
515	self.index_model = 0
516	self.index_theory = 0
517	self.parent.Bind(EVT_SLICER_PANEL, self._on_slicer_event)
518	self.parent.Bind(EVT_SLICER_PARS_UPDATE, self._onEVT_SLICER_PANEL)
519
520	# CRUFT: EVT_FITTER_CHANGED is not None for bumps 0.7.5.9 and above
521	if EVT_FITTER_CHANGED is not None:
522	self.parent.Bind(EVT_FITTER_CHANGED, self.on_fitter_changed)
523	self._set_fitter_label(bumps.options.FIT_CONFIG)
524
525	#self.parent._mgr.Bind(wx.aui.EVT_AUI_PANE_CLOSE,self._onclearslicer)
526	#Create reader when fitting panel are created
527	self.state_reader = Reader(self.set_state)
528	#append that reader to list of available reader
529	loader = Loader()
530	loader.associate_file_reader(".fitv", self.state_reader)
531	#Send the fitting panel to guiframe
532	self.mypanels.append(self.fit_panel)
533	self.mypanels.append(self.result_panel)
534	return self.mypanels
535
536	def clear_panel(self):
537	"""
538	"""
539	self.fit_panel.clear_panel()
540
541	def delete_data(self, data):
542	"""
543	delete the given data from panel
544	"""
545	self.fit_panel.delete_data(data)
546
547	def set_data(self, data_list=None):
548	"""
549	receive a list of data to fit
550	"""
551	if data_list is None:
552	data_list = []
553	selected_data_list = []
554	if self.batch_on:
555	self.add_fit_page(data=data_list)
556	else:
557	if len(data_list) > MAX_NBR_DATA:
558	from fitting_widgets import DataDialog
559	dlg = DataDialog(data_list=data_list, nb_data=MAX_NBR_DATA)
560	if dlg.ShowModal() == wx.ID_OK:
561	selected_data_list = dlg.get_data()
562	dlg.Destroy()
563
564	else:
565	selected_data_list = data_list
566	try:
567	group_id = wx.NewId()
568	for data in selected_data_list:
569	if data is not None:
570	# 2D has no same group_id
571	if data.__class__.__name__ == 'Data2D':
572	group_id = wx.NewId()
573	data.group_id = group_id
574	if group_id not in data.list_group_id:
575	data.list_group_id.append(group_id)
576	self.add_fit_page(data=[data])
577	except:
578	msg = "Fitting set_data: " + str(sys.exc_value)
579	wx.PostEvent(self.parent, StatusEvent(status=msg, info="error"))
580
581	def set_theory(self, theory_list=None):
582	"""
583	"""
584	#set the model state for a given theory_state:
585	for item in theory_list:
586	try:
587	_, theory_state = item
588	self.fit_panel.set_model_state(theory_state)
589	except Exception:
590	msg = "Fitting: cannot deal with the theory received"
591	evt = StatusEvent(status=msg, info="error")
592	logger.error("set_theory " + msg + "\n" + str(sys.exc_value))
593	wx.PostEvent(self.parent, evt)
594
595	def set_state(self, state=None, datainfo=None, format=None):
596	"""
597	Call-back method for the fit page state reader.
598	This method is called when a .fitv/.svs file is loaded.
599
600	: param state: PageState object
601	: param datainfo: data
602	"""
603	from pagestate import PageState
604	from simfitpage import SimFitPageState
605	if isinstance(state, PageState):
606	state = state.clone()
607	self.temp_state.append(state)
608	elif isinstance(state, SimFitPageState):
609	state.load_from_save_state(self)
610	else:
611	self.temp_state = []
612	# index to start with for a new set_state
613	self.state_index = 0
614	# state file format
615	self.sfile_ext = format
616
617	self.on_set_state_helper(event=None)
618
619	def on_set_state_helper(self, event=None):
620	"""
621	Set_state_helper. This actually sets state
622	after plotting data from state file.
623
624	: event: FitStateUpdateEvent called
625	by dataloader.plot_data from guiframe
626	"""
627	if len(self.temp_state) == 0:
628	if self.state_index == 0 and len(self.mypanels) <= 0 \
629	and self.sfile_ext == '.svs':
630	self.temp_state = []
631	self.state_index = 0
632	return
633
634	try:
635	# Load fitting state
636	state = self.temp_state[self.state_index]
637	#panel state should have model selection to set_state
638	if state.formfactorcombobox is not None:
639	#set state
640	data = self.parent.create_gui_data(state.data)
641	data.group_id = state.data.group_id
642	self.parent.add_data(data_list={data.id: data})
643	wx.PostEvent(self.parent, NewPlotEvent(plot=data,
644	title=data.title))
645	#need to be fix later make sure we are sendind guiframe.data
646	#to panel
647	state.data = data
648	page = self.fit_panel.set_state(state)
649	else:
650	#just set data because set_state won't work
651	data = self.parent.create_gui_data(state.data)
652	data.group_id = state.data.group_id
653	self.parent.add_data(data_list={data.id: data})
654	wx.PostEvent(self.parent, NewPlotEvent(plot=data,
655	title=data.title))
656	page = self.add_fit_page([data])
657	caption = page.window_caption
658	self.store_data(uid=page.uid, data_list=page.get_data_list(),
659	caption=caption)
660	self.mypanels.append(page)
661
662	# get ready for the next set_state
663	self.state_index += 1
664
665	#reset state variables to default when all set_state is finished.
666	if len(self.temp_state) == self.state_index:
667
668	self.temp_state = []
669	#self.state_index = 0
670	# Make sure the user sees the fitting panel after loading
671	#self.parent.set_perspective(self.perspective)
672	self.on_perspective(event=None)
673	except:
674	self.state_index = 0
675	self.temp_state = []
676	raise
677
678	def set_param2fit(self, uid, param2fit):
679	"""
680	Set the list of param names to fit for fitprobelm
681	"""
682	self.page_finder[uid].set_param2fit(param2fit)
683
684	def set_graph_id(self, uid, graph_id):
685	"""
686	Set graph_id for fitprobelm
687	"""
688	self.page_finder[uid].set_graph_id(graph_id)
689
690	def get_graph_id(self, uid):
691	"""
692	Set graph_id for fitprobelm
693	"""
694	return self.page_finder[uid].get_graph_id()
695
696	def save_fit_state(self, filepath, fitstate):
697	"""
698	save fit page state into file
699	"""
700	self.state_reader.write(filename=filepath, fitstate=fitstate)
701
702	def set_fit_weight(self, uid, flag, is2d=False, fid=None):
703	"""
704	Set the fit weights of a given page for all
705	its data by default. If fid is provide then set the range
706	only for the data with fid as id
707	:param uid: id corresponding to a fit page
708	:param fid: id corresponding to a fit problem (data, model)
709	:param weight: current dy data
710	"""
711	# If we are not dealing with a specific fit problem, then
712	# there is no point setting the weights.
713	if fid is None:
714	return
715	if uid in self.page_finder.keys():
716	self.page_finder[uid].set_weight(flag=flag, is2d=is2d)
717
718	def set_fit_range(self, uid, qmin, qmax, fid=None):
719	"""
720	Set the fitting range of a given page for all
721	its data by default. If fid is provide then set the range
722	only for the data with fid as id
723	:param uid: id corresponding to a fit page
724	:param fid: id corresponding to a fit problem (data, model)
725	:param qmin: minimum value of the fit range
726	:param qmax: maximum value of the fit range
727	"""
728	if uid in self.page_finder.keys():
729	self.page_finder[uid].set_range(qmin=qmin, qmax=qmax, fid=fid)
730
731	def schedule_for_fit(self, value=0, uid=None):
732	"""
733	Set the fit problem field to 0 or 1 to schedule that problem to fit.
734	Schedule the specified fitproblem or get the fit problem related to
735	the current page and set value.
736	:param value: integer 0 or 1
737	:param uid: the id related to a page contaning fitting information
738	"""
739	if uid in self.page_finder.keys():
740	self.page_finder[uid].schedule_tofit(value)
741
742	def get_page_finder(self):
743	"""
744	return self.page_finder used also by simfitpage.py
745	"""
746	return self.page_finder
747
748	def set_page_finder(self, modelname, names, values):
749	"""
750	Used by simfitpage.py to reset a parameter given the string constrainst.
751
752	:param modelname: the name ot the model for with the parameter
753	has to reset
754	:param value: can be a string in this case.
755	:param names: the paramter name
756	"""
757	sim_page_id = self.sim_page.uid
758	for uid, value in self.page_finder.iteritems():
759	if uid != sim_page_id and uid != self.batch_page.uid:
760	model_list = value.get_model()
761	model = model_list[0]
762	if model.name == modelname:
763	value.set_model_param(names, values)
764	break
765
766	def split_string(self, item):
767	"""
768	receive a word containing dot and split it. used to split parameterset
769	name into model name and parameter name example: ::
770
771	paramaterset (item) = M1.A
772	Will return model_name = M1 , parameter name = A
773
774	"""
775	if item.find(".") >= 0:
776	param_names = re.split("\.", item)
777	model_name = param_names[0]
778	##Assume max len is 3; eg., M0.radius.width
779	if len(param_names) == 3:
780	param_name = param_names[1] + "." + param_names[2]
781	else:
782	param_name = param_names[1]
783	return model_name, param_name
784
785	def on_bumps_options(self, event=None):
786	"""
787	Open the bumps options panel.
788	"""
789	show_fit_config(self.parent, help=self.on_help)
790
791	def on_fitter_changed(self, event):
792	self._set_fitter_label(event.config)
793
794	def _set_fitter_label(self, config):
795	self.fit_panel.parent.SetTitle(self.fit_panel.window_name
796	+ " - Active Fitting Optimizer: "
797	+ config.selected_name)
798
799	def on_help(self, algorithm_id):
800	_TreeLocation = "user/sasgui/perspectives/fitting/optimizer.html"
801	_anchor = "#fit-"+algorithm_id
802	DocumentationWindow(self.parent, wx.ID_ANY, _TreeLocation, _anchor, "Optimizer Help")
803
804
805	def on_fit_results(self, event=None):
806	"""
807	Make the Fit Results panel visible.
808	"""
809	self.result_frame.Show()
810	self.result_frame.Raise()
811
812	def on_gpu_options(self, event=None):
813	"""
814	Make the Fit Results panel visible.
815	"""
816	dialog = GpuOptions(None, wx.ID_ANY, "")
817	dialog.Show()
818
819	def stop_fit(self, uid):
820	"""
821	Stop the fit
822	"""
823	if uid in self.fit_thread_list.keys():
824	calc_fit = self.fit_thread_list[uid]
825	if calc_fit is not None and calc_fit.isrunning():
826	calc_fit.stop()
827	msg = "Fit stop!"
828	wx.PostEvent(self.parent, StatusEvent(status=msg, type="stop"))
829	del self.fit_thread_list[uid]
830	#set the fit button label of page when fit stop is trigger from
831	#simultaneous fit pane
832	sim_flag = self.sim_page is not None and uid == self.sim_page.uid
833	batch_flag = self.batch_page is not None and uid == self.batch_page.uid
834	if sim_flag or batch_flag:
835	for uid, value in self.page_finder.iteritems():
836	if value.get_scheduled() == 1:
837	if uid in self.fit_panel.opened_pages.keys():
838	panel = self.fit_panel.opened_pages[uid]
839	panel._on_fit_complete()
840
841	def set_smearer(self, uid, smearer, fid, qmin=None, qmax=None, draw=True,
842	enable_smearer=False):
843	"""
844	Get a smear object and store it to a fit problem of fid as id. If proper
845	flag is enable , will plot the theory with smearing information.
846
847	:param smearer: smear object to allow smearing data of id fid
848	:param enable_smearer: Define whether or not all (data, model) contained
849	in the structure of id uid will be smeared before fitting.
850	:param qmin: the maximum value of the theory plotting range
851	:param qmax: the maximum value of the theory plotting range
852	:param draw: Determine if the theory needs to be plot
853	"""
854	if uid not in self.page_finder.keys():
855	return
856	self.page_finder[uid].enable_smearing(flag=enable_smearer)
857	self.page_finder[uid].set_smearer(smearer, fid=fid)
858	if draw:
859	## draw model 1D with smeared data
860	data = self.page_finder[uid].get_fit_data(fid=fid)
861	if data is None:
862	msg = "set_mearer requires at least data.\n"
863	msg += "Got data = %s .\n" % str(data)
864	return
865	#raise ValueError, msg
866	model = self.page_finder[uid].get_model(fid=fid)
867	if model is None:
868	return
869	enable1D = issubclass(data.__class__, Data1D)
870	enable2D = issubclass(data.__class__, Data2D)
871	## if user has already selected a model to plot
872	## redraw the model with data smeared
873	smear = self.page_finder[uid].get_smearer(fid=fid)
874
875	# compute weight for the current data
876	weight = self.page_finder[uid].get_weight(fid=fid)
877
878	self.draw_model(model=model, data=data, page_id=uid, smearer=smear,
879	enable1D=enable1D, enable2D=enable2D,
880	qmin=qmin, qmax=qmax, weight=weight)
881
882	def draw_model(self, model, page_id, data=None, smearer=None,
883	enable1D=True, enable2D=False,
884	state=None,
885	fid=None,
886	toggle_mode_on=False,
887	qmin=None, qmax=None,
888	update_chisqr=True, weight=None, source='model'):
889	"""
890	Draw model.
891
892	:param model: the model to draw
893	:param name: the name of the model to draw
894	:param data: the data on which the model is based to be drawn
895	:param description: model's description
896	:param enable1D: if true enable drawing model 1D
897	:param enable2D: if true enable drawing model 2D
898	:param qmin: Range's minimum value to draw model
899	:param qmax: Range's maximum value to draw model
900	:param qstep: number of step to divide the x and y-axis
901	:param update_chisqr: update chisqr [bool]
902
903	"""
904	#self.weight = weight
905	if issubclass(data.__class__, Data1D) or not enable2D:
906	## draw model 1D with no loaded data
907	self._draw_model1D(model=model,
908	data=data,
909	page_id=page_id,
910	enable1D=enable1D,
911	smearer=smearer,
912	qmin=qmin,
913	qmax=qmax,
914	fid=fid,
915	weight=weight,
916	toggle_mode_on=toggle_mode_on,
917	state=state,
918	update_chisqr=update_chisqr,
919	source=source)
920	else:
921	## draw model 2D with no initial data
922	self._draw_model2D(model=model,
923	page_id=page_id,
924	data=data,
925	enable2D=enable2D,
926	smearer=smearer,
927	qmin=qmin,
928	qmax=qmax,
929	fid=fid,
930	weight=weight,
931	state=state,
932	toggle_mode_on=toggle_mode_on,
933	update_chisqr=update_chisqr,
934	source=source)
935
936	def onFit(self, uid):
937	"""
938	Get series of data, model, associates parameters and range and send then
939	to series of fitters. Fit data and model, display result to
940	corresponding panels.
941	:param uid: id related to the panel currently calling this fit function.
942	"""
943	if uid is None: raise RuntimeError("no page to fit") # Should never happen
944
945	sim_page_uid = getattr(self.sim_page, 'uid', None)
946	batch_page_uid = getattr(self.batch_page, 'uid', None)
947
948	if uid == sim_page_uid:
949	fit_type = 'simultaneous'
950	elif uid == batch_page_uid:
951	fit_type = 'combined_batch'
952	else:
953	fit_type = 'single'
954
955	fitter_list = []
956	sim_fitter = None
957	if fit_type == 'simultaneous':
958	# for simultaneous fitting only one fitter is needed
959	sim_fitter = Fit()
960	sim_fitter.fitter_id = self.sim_page.uid
961	fitter_list.append(sim_fitter)
962
963	self.current_pg = None
964	list_page_id = []
965	fit_id = 0
966	for page_id, page_info in self.page_finder.iteritems():
967	# For simulfit (uid give with None), do for-loop
968	# if uid is specified (singlefit), do it only on the page.
969	if page_id in (sim_page_uid, batch_page_uid): continue
970	if fit_type == "single" and page_id != uid: continue
971
972	try:
973	if page_info.get_scheduled() == 1:
974	page_info.nbr_residuals_computed = 0
975	page = self.fit_panel.get_page_by_id(page_id)
976	self.set_fit_weight(uid=page.uid,
977	flag=page.get_weight_flag(),
978	is2d=page._is_2D())
979	if not page.param_toFit:
980	msg = "No fitting parameters for %s" % page.window_caption
981	evt = StatusEvent(status=msg, info="error", type="stop")
982	wx.PostEvent(page.parent.parent, evt)
983	return False
984	if not page._update_paramv_on_fit():
985	msg = "Fitting range or parameter values are"
986	msg += " invalid in %s" % \
987	page.window_caption
988	evt = StatusEvent(status=msg, info="error", type="stop")
989	wx.PostEvent(page.parent.parent, evt)
990	return False
991
992	pars = [str(element[1]) for element in page.param_toFit]
993	fitproblem_list = page_info.values()
994	for fitproblem in fitproblem_list:
995	if sim_fitter is None:
996	fitter = Fit()
997	fitter.fitter_id = page_id
998	fitter_list.append(fitter)
999	else:
1000	fitter = sim_fitter
1001	self._add_problem_to_fit(fitproblem=fitproblem,
1002	pars=pars,
1003	fitter=fitter,
1004	fit_id=fit_id)
1005	fit_id += 1
1006	list_page_id.append(page_id)
1007	page_info.clear_model_param()
1008	except KeyboardInterrupt:
1009	msg = "Fitting terminated"
1010	evt = StatusEvent(status=msg, info="info", type="stop")
1011	wx.PostEvent(self.parent, evt)
1012	return True
1013	except:
1014	raise
1015	msg = "Fitting error: %s" % str(sys.exc_value)
1016	evt = StatusEvent(status=msg, info="error", type="stop")
1017	wx.PostEvent(self.parent, evt)
1018	return False
1019	## If a thread is already started, stop it
1020	#if self.calc_fitis not None and self.calc_fit.isrunning():
1021	# self.calc_fit.stop()
1022	msg = "Fitting is in progress..."
1023	wx.PostEvent(self.parent, StatusEvent(status=msg, type="progress"))
1024
1025	#Handler used to display fit message
1026	handler = ConsoleUpdate(parent=self.parent,
1027	manager=self,
1028	improvement_delta=0.1)
1029
1030	# batch fit
1031	batch_inputs = {}
1032	batch_outputs = {}
1033	if fit_type == "simultaneous":
1034	page = self.sim_page
1035	elif fit_type == "combined_batch":
1036	page = self.batch_page
1037	else:
1038	page = self.fit_panel.get_page_by_id(uid)
1039	if page.batch_on:
1040	calc_fit = FitThread(handler=handler,
1041	fn=fitter_list,
1042	pars=pars,
1043	batch_inputs=batch_inputs,
1044	batch_outputs=batch_outputs,
1045	page_id=list_page_id,
1046	completefn=self._batch_fit_complete,
1047	reset_flag=self.batch_reset_flag)
1048	else:
1049	## Perform more than 1 fit at the time
1050	calc_fit = FitThread(handler=handler,
1051	fn=fitter_list,
1052	batch_inputs=batch_inputs,
1053	batch_outputs=batch_outputs,
1054	page_id=list_page_id,
1055	updatefn=handler.update_fit,
1056	completefn=self._fit_completed)
1057	#self.fit_thread_list[current_page_id] = calc_fit
1058	self.fit_thread_list[uid] = calc_fit
1059	calc_fit.queue()
1060	calc_fit.ready(2.5)
1061	msg = "Fitting is in progress..."
1062	wx.PostEvent(self.parent, StatusEvent(status=msg, type="progress"))
1063
1064	return True
1065
1066	def remove_plot(self, uid, fid=None, theory=False):
1067	"""
1068	remove model plot when a fit page is closed
1069	:param uid: the id related to the fitpage to close
1070	:param fid: the id of the fitproblem(data, model, range,etc)
1071	"""
1072	if uid not in self.page_finder.keys():
1073	return
1074	fitproblemList = self.page_finder[uid].get_fit_problem(fid)
1075	for fitproblem in fitproblemList:
1076	data = fitproblem.get_fit_data()
1077	model = fitproblem.get_model()
1078	plot_id = None
1079	if model is not None:
1080	plot_id = data.id + model.name
1081	if theory:
1082	plot_id = data.id + model.name
1083	group_id = data.group_id
1084	wx.PostEvent(self.parent, NewPlotEvent(id=plot_id,
1085	group_id=group_id,
1086	action='remove'))
1087
1088	def store_data(self, uid, data_list=None, caption=None):
1089	"""
1090	Recieve a list of data and store them ans well as a caption of
1091	the fit page where they come from.
1092	:param uid: if related to a fit page
1093	:param data_list: list of data to fit
1094	:param caption: caption of the window related to these data
1095	"""
1096	if data_list is None:
1097	data_list = []
1098
1099	self.page_finder[uid].set_fit_data(data=data_list)
1100	if caption is not None:
1101	self.page_finder[uid].set_fit_tab_caption(caption=caption)
1102
1103	def on_add_new_page(self, event=None):
1104	"""
1105	ask fit panel to create a new empty page
1106	"""
1107	try:
1108	page = self.fit_panel.add_empty_page()
1109	# add data associated to the page created
1110	if page is not None:
1111	evt = StatusEvent(status="Page Created", info="info")
1112	wx.PostEvent(self.parent, evt)
1113	else:
1114	msg = "Page was already Created"
1115	evt = StatusEvent(status=msg, info="warning")
1116	wx.PostEvent(self.parent, evt)
1117	except:
1118	msg = "Creating Fit page: %s" % sys.exc_value
1119	wx.PostEvent(self.parent, StatusEvent(status=msg, info="error"))
1120
1121	def add_fit_page(self, data):
1122	"""
1123	given a data, ask to the fitting panel to create a new fitting page,
1124	get this page and store it into the page_finder of this plug-in
1125	:param data: is a list of data
1126	"""
1127	page = self.fit_panel.set_data(data)
1128	# page could be None when loading state files
1129	if page is None:
1130	return page
1131	#append Data1D to the panel containing its theory
1132	#if theory already plotted
1133	if page.uid in self.page_finder:
1134	data = page.get_data()
1135	theory_data = self.page_finder[page.uid].get_theory_data(data.id)
1136	if issubclass(data.__class__, Data2D):
1137	data.group_id = wx.NewId()
1138	if theory_data is not None:
1139	group_id = str(page.uid) + " Model1D"
1140	wx.PostEvent(self.parent,
1141	NewPlotEvent(group_id=group_id,
1142	action="delete"))
1143	self.parent.update_data(prev_data=theory_data,
1144	new_data=data)
1145	else:
1146	if theory_data is not None:
1147	group_id = str(page.uid) + " Model2D"
1148	data.group_id = theory_data.group_id
1149	wx.PostEvent(self.parent,
1150	NewPlotEvent(group_id=group_id,
1151	action="delete"))
1152	self.parent.update_data(prev_data=theory_data,
1153	new_data=data)
1154	self.store_data(uid=page.uid, data_list=page.get_data_list(),
1155	caption=page.window_caption)
1156	if self.sim_page is not None and not self.batch_on:
1157	self.sim_page.draw_page()
1158	if self.batch_page is not None and self.batch_on:
1159	self.batch_page.draw_page()
1160
1161	return page
1162
1163	def _onEVT_SLICER_PANEL(self, event):
1164	"""
1165	receive and event telling to update a panel with a name starting with
1166	event.panel_name. this method update slicer panel
1167	for a given interactor.
1168
1169	:param event: contains type of slicer , paramaters for updating
1170	the panel and panel_name to find the slicer 's panel concerned.
1171	"""
1172	event.panel_name
1173	for item in self.parent.panels:
1174	name = event.panel_name
1175	if self.parent.panels[item].window_caption.startswith(name):
1176	self.parent.panels[item].set_slicer(event.type, event.params)
1177
1178	#self.parent._mgr.Update()
1179
1180	def _closed_fitpage(self, event):
1181	"""
1182	request fitpanel to close a given page when its unique data is removed
1183	from the plot. close fitpage only when the a loaded data is removed
1184	"""
1185	if event is None or event.data is None:
1186	return
1187	if hasattr(event.data, "is_data"):
1188	if not event.data.is_data or \
1189	event.data.__class__.__name__ == "Data1D":
1190	self.fit_panel.close_page_with_data(event.data)
1191
1192	def _reset_schedule_problem(self, value=0, uid=None):
1193	"""
1194	unschedule or schedule all fitproblem to be fit
1195	"""
1196	# case that uid is not specified
1197	if uid is None:
1198	for page_id in self.page_finder.keys():
1199	self.page_finder[page_id].schedule_tofit(value)
1200	# when uid is given
1201	else:
1202	if uid in self.page_finder.keys():
1203	self.page_finder[uid].schedule_tofit(value)
1204
1205	def _add_problem_to_fit(self, fitproblem, pars, fitter, fit_id):
1206	"""
1207	Create and set fitter with series of data and model
1208	"""
1209	data = fitproblem.get_fit_data()
1210	model = fitproblem.get_model()
1211	smearer = fitproblem.get_smearer()
1212	qmin, qmax = fitproblem.get_range()
1213
1214	#Extra list of parameters and their constraints
1215	listOfConstraint = []
1216	param = fitproblem.get_model_param()
1217	if len(param) > 0:
1218	for item in param:
1219	## check if constraint
1220	if item[0] is not None and item[1] is not None:
1221	listOfConstraint.append((item[0], item[1]))
1222	new_model = model
1223	fitter.set_model(new_model, fit_id, pars, data=data,
1224	constraints=listOfConstraint)
1225	fitter.set_data(data=data, id=fit_id, smearer=smearer, qmin=qmin,
1226	qmax=qmax)
1227	fitter.select_problem_for_fit(id=fit_id, value=1)
1228
1229	def _onSelect(self, event):
1230	"""
1231	when Select data to fit a new page is created .Its reference is
1232	added to self.page_finder
1233	"""
1234	panel = self.plot_panel
1235	if panel is None:
1236	raise ValueError, "Fitting:_onSelect: NonType panel"
1237	Plugin.on_perspective(self, event=event)
1238	self.select_data(panel)
1239
1240	def select_data(self, panel):
1241	"""
1242	"""
1243	for plottable in panel.graph.plottables:
1244	if plottable.__class__.__name__ in ["Data1D", "Theory1D"]:
1245	data_id = panel.graph.selected_plottable
1246	if plottable == panel.plots[data_id]:
1247	data = plottable
1248	self.add_fit_page(data=[data])
1249	return
1250	else:
1251	data = plottable
1252	self.add_fit_page(data=[data])
1253
1254	def update_fit(self, result=None, msg=""):
1255	"""
1256	"""
1257	print("update_fit result", result)
1258
1259	def _batch_fit_complete(self, result, pars, page_id,
1260	batch_outputs, batch_inputs, elapsed=None):
1261	"""
1262	Display fit result in batch
1263	:param result: list of objects received from fitters
1264	:param pars: list of fitted parameters names
1265	:param page_id: list of page ids which called fit function
1266	:param elapsed: time spent at the fitting level
1267	"""
1268	uid = page_id[0]
1269	if uid in self.fit_thread_list.keys():
1270	del self.fit_thread_list[uid]
1271
1272	wx.CallAfter(self._update_fit_button, page_id)
1273	t1 = time.time()
1274	str_time = time.strftime("%a, %d %b %Y %H:%M:%S ", time.localtime(t1))
1275	msg = "Fit completed on %s \n" % str_time
1276	msg += "Duration time: %s s.\n" % str(elapsed)
1277	evt = StatusEvent(status=msg, info="info", type="stop")
1278	wx.PostEvent(self.parent, evt)
1279
1280	if batch_outputs is None:
1281	batch_outputs = {}
1282
1283	# format batch_outputs
1284	batch_outputs["Chi2"] = []
1285	#Don't like these loops
1286	# Need to create dictionary of all fitted parameters
1287	# since the number of parameters can differ between each fit result
1288	for list_res in result:
1289	for res in list_res:
1290	model, data = res.inputs[0]
1291	if model is not None and hasattr(model, "model"):
1292	model = model.model
1293	#get all fittable parameters of the current model
1294	for param in model.getParamList():
1295	if param not in batch_outputs.keys():
1296	batch_outputs[param] = []
1297	for param in model.getDispParamList():
1298	if not model.is_fittable(param) and \
1299	param in batch_outputs.keys():
1300	del batch_outputs[param]
1301	# Add fitted parameters and their error
1302	for param in res.param_list:
1303	if param not in batch_outputs.keys():
1304	batch_outputs[param] = []
1305	err_param = "error on %s" % str(param)
1306	if err_param not in batch_inputs.keys():
1307	batch_inputs[err_param] = []
1308	msg = ""
1309	for list_res in result:
1310	for res in list_res:
1311	pid = res.fitter_id
1312	model, data = res.inputs[0]
1313	correct_result = False
1314	if model is not None and hasattr(model, "model"):
1315	model = model.model
1316	if data is not None and hasattr(data, "sas_data"):
1317	data = data.sas_data
1318
1319	is_data2d = issubclass(data.__class__, Data2D)
1320	#check consistency of arrays
1321	if not is_data2d:
1322	if len(res.theory) == len(res.index[res.index]) and \
1323	len(res.index) == len(data.y):
1324	correct_result = True
1325	else:
1326	copy_data = deepcopy(data)
1327	new_theory = copy_data.data
1328	new_theory[res.index] = res.theory
1329	new_theory[res.index == False] = np.nan
1330	correct_result = True
1331	#get all fittable parameters of the current model
1332	param_list = model.getParamList()
1333	for param in model.getDispParamList():
1334	if not model.is_fittable(param) and \
1335	param in param_list:
1336	param_list.remove(param)
1337	if not correct_result or res.fitness is None or \
1338	not np.isfinite(res.fitness) or \
1339	np.any(res.pvec is None) or not \
1340	np.all(np.isfinite(res.pvec)):
1341	data_name = str(None)
1342	if data is not None:
1343	data_name = str(data.name)
1344	model_name = str(None)
1345	if model is not None:
1346	model_name = str(model.name)
1347	msg += "Data %s and Model %s did not fit.\n" % (data_name,
1348	model_name)
1349	ERROR = np.NAN
1350	cell = BatchCell()
1351	cell.label = res.fitness
1352	cell.value = res.fitness
1353	batch_outputs["Chi2"].append(ERROR)
1354	for param in param_list:
1355	# save value of fixed parameters
1356	if param not in res.param_list:
1357	batch_outputs[str(param)].append(ERROR)
1358	else:
1359	#save only fitted values
1360	batch_outputs[param].append(ERROR)
1361	batch_inputs["error on %s" % str(param)].append(ERROR)
1362	else:
1363	# TODO: Why sometimes res.pvec comes with np.float64?
1364	# probably from scipy lmfit
1365	if res.pvec.__class__ == np.float64:
1366	res.pvec = [res.pvec]
1367
1368	cell = BatchCell()
1369	cell.label = res.fitness
1370	cell.value = res.fitness
1371	batch_outputs["Chi2"].append(cell)
1372	# add parameters to batch_results
1373	for param in param_list:
1374	# save value of fixed parameters
1375	if param not in res.param_list:
1376	batch_outputs[str(param)].append(model.getParam(param))
1377	else:
1378	index = res.param_list.index(param)
1379	#save only fitted values
1380	batch_outputs[param].append(res.pvec[index])
1381	if res.stderr is not None and \
1382	len(res.stderr) == len(res.param_list):
1383	item = res.stderr[index]
1384	batch_inputs["error on %s" % param].append(item)
1385	else:
1386	batch_inputs["error on %s" % param].append('-')
1387	model.setParam(param, res.pvec[index])
1388	#fill the batch result with emtpy value if not in the current
1389	#model
1390	EMPTY = "-"
1391	for key in batch_outputs.keys():
1392	if key not in param_list and key not in ["Chi2", "Data"]:
1393	batch_outputs[key].append(EMPTY)
1394
1395	self.page_finder[pid].set_batch_result(batch_inputs=batch_inputs,
1396	batch_outputs=batch_outputs)
1397
1398	cpage = self.fit_panel.get_page_by_id(pid)
1399	cpage._on_fit_complete()
1400	self.page_finder[pid][data.id].set_result(res)
1401	fitproblem = self.page_finder[pid][data.id]
1402	qmin, qmax = fitproblem.get_range()
1403	plot_result = False
1404	if correct_result:
1405	if not is_data2d:
1406	self._complete1D(x=data.x[res.index], y=res.theory, page_id=pid,
1407	elapsed=None,
1408	index=res.index, model=model,
1409	weight=None, fid=data.id,
1410	toggle_mode_on=False, state=None,
1411	data=data, update_chisqr=False,
1412	source='fit', plot_result=plot_result)
1413	else:
1414	self._complete2D(image=new_theory, data=data,
1415	model=model,
1416	page_id=pid, elapsed=None,
1417	index=res.index,
1418	qmin=qmin,
1419	qmax=qmax, fid=data.id, weight=None,
1420	toggle_mode_on=False, state=None,
1421	update_chisqr=False,
1422	source='fit', plot_result=plot_result)
1423	self.on_set_batch_result(page_id=pid,
1424	fid=data.id,
1425	batch_outputs=batch_outputs,
1426	batch_inputs=batch_inputs)
1427
1428	evt = StatusEvent(status=msg, error="info", type="stop")
1429	wx.PostEvent(self.parent, evt)
1430	# Remove parameters that are not shown
1431	cpage = self.fit_panel.get_page_by_id(uid)
1432	tbatch_outputs = {}
1433	shownkeystr = cpage.get_copy_params()
1434	for key in batch_outputs.keys():
1435	if key in ["Chi2", "Data"] or shownkeystr.count(key) > 0:
1436	tbatch_outputs[key] = batch_outputs[key]
1437
1438	wx.CallAfter(self.parent.on_set_batch_result, tbatch_outputs,
1439	batch_inputs, self.sub_menu)
1440
1441	def on_set_batch_result(self, page_id, fid, batch_outputs, batch_inputs):
1442	"""
1443	"""
1444	pid = page_id
1445	if fid not in self.page_finder[pid]:
1446	return
1447	fitproblem = self.page_finder[pid][fid]
1448	index = self.page_finder[pid].nbr_residuals_computed - 1
1449	residuals = fitproblem.get_residuals()
1450	theory_data = fitproblem.get_theory_data()
1451	data = fitproblem.get_fit_data()
1452	model = fitproblem.get_model()
1453	#fill batch result information
1454	if "Data" not in batch_outputs.keys():
1455	batch_outputs["Data"] = []
1456	from sas.sasgui.guiframe.data_processor import BatchCell
1457	cell = BatchCell()
1458	cell.label = data.name
1459	cell.value = index
1460
1461	if theory_data is not None:
1462	#Suucessful fit
1463	theory_data.id = wx.NewId()
1464	theory_data.name = model.name + "[%s]" % str(data.name)
1465	if issubclass(theory_data.__class__, Data2D):
1466	group_id = wx.NewId()
1467	theory_data.group_id = group_id
1468	if group_id not in theory_data.list_group_id:
1469	theory_data.list_group_id.append(group_id)
1470
1471	try:
1472	# associate residuals plot
1473	if issubclass(residuals.__class__, Data2D):
1474	group_id = wx.NewId()
1475	residuals.group_id = group_id
1476	if group_id not in residuals.list_group_id:
1477	residuals.list_group_id.append(group_id)
1478	batch_outputs["Chi2"][index].object = [residuals]
1479	except:
1480	pass
1481
1482	cell.object = [data, theory_data]
1483	batch_outputs["Data"].append(cell)
1484	for key, value in data.meta_data.iteritems():
1485	if key not in batch_inputs.keys():
1486	batch_inputs[key] = []
1487	#if key.lower().strip() != "loader":
1488	batch_inputs[key].append(value)
1489	param = "temperature"
1490	if hasattr(data.sample, param):
1491	if param not in batch_inputs.keys():
1492	batch_inputs[param] = []
1493	batch_inputs[param].append(data.sample.temperature)
1494
1495	def _fit_completed(self, result, page_id, batch_outputs,
1496	batch_inputs=None, pars=None, elapsed=None):
1497	"""
1498	Display result of the fit on related panel(s).
1499	:param result: list of object generated when fit ends
1500	:param pars: list of names of parameters fitted
1501	:param page_id: list of page ids which called fit function
1502	:param elapsed: time spent at the fitting level
1503	"""
1504	t1 = time.time()
1505	str_time = time.strftime("%a, %d %b %Y %H:%M:%S ", time.localtime(t1))
1506	msg = "Fit completed on %s \n" % str_time
1507	msg += "Duration time: %s s.\n" % str(elapsed)
1508	evt = StatusEvent(status=msg, info="info", type="stop")
1509	wx.PostEvent(self.parent, evt)
1510	wx.PostEvent(self.result_panel, PlotResultEvent(result=result))
1511	wx.CallAfter(self._update_fit_button, page_id)
1512	result = result[0]
1513	self.fit_thread_list = {}
1514	if page_id is None:
1515	page_id = []
1516	## fit more than 1 model at the same time
1517	try:
1518	index = 0
1519	# Update potential simfit page(s)
1520	if self.sim_page is not None:
1521	self.sim_page._on_fit_complete()
1522	if self.batch_page:
1523	self.batch_page._on_fit_complete()
1524	# Update all fit pages
1525	for uid in page_id:
1526	res = result[index]
1527	fit_msg = res.mesg
1528	if res.fitness is None or \
1529	not np.isfinite(res.fitness) or \
1530	np.any(res.pvec is None) or \
1531	not np.all(np.isfinite(res.pvec)):
1532	fit_msg += "\nFitting did not converge!!!"
1533	wx.CallAfter(self._update_fit_button, page_id)
1534	else:
1535	#set the panel when fit result are float not list
1536	if res.pvec.__class__ == np.float64:
1537	pvec = [res.pvec]
1538	else:
1539	pvec = res.pvec
1540	if res.stderr.__class__ == np.float64:
1541	stderr = [res.stderr]
1542	else:
1543	stderr = res.stderr
1544	cpage = self.fit_panel.get_page_by_id(uid)
1545	# Make sure we got all results
1546	#(CallAfter is important to MAC)
1547	try:
1548	#if res is not None:
1549	wx.CallAfter(cpage.onsetValues, res.fitness,
1550	res.param_list,
1551	pvec, stderr)
1552	index += 1
1553	wx.CallAfter(cpage._on_fit_complete)
1554	except KeyboardInterrupt:
1555	fit_msg += "\nSingular point: Fitting stopped."
1556	except:
1557	fit_msg += "\nSingular point: Fitting error occurred."
1558	if fit_msg:
1559	evt = StatusEvent(status=fit_msg, info="warning", type="stop")
1560	wx.PostEvent(self.parent, evt)
1561
1562	except:
1563	msg = ("Fit completed but the following error occurred: %s"
1564	% sys.exc_value)
1565	#import traceback; msg = "\n".join((traceback.format_exc(), msg))
1566	evt = StatusEvent(status=msg, info="warning", type="stop")
1567	wx.PostEvent(self.parent, evt)
1568
1569	def _update_fit_button(self, page_id):
1570	"""
1571	Update Fit button when fit stopped
1572
1573	: parameter page_id: fitpage where the button is
1574	"""
1575	if page_id.__class__.__name__ != 'list':
1576	page_id = [page_id]
1577	for uid in page_id:
1578	page = self.fit_panel.get_page_by_id(uid)
1579	page._on_fit_complete()
1580
1581	def _on_show_panel(self, event):
1582	"""
1583	"""
1584	pass
1585
1586	def on_reset_batch_flag(self, event):
1587	"""
1588	Set batch_reset_flag
1589	"""
1590	event.Skip()
1591	if self.menu1 is None:
1592	return
1593	menu_item = self.menu1.FindItemById(self.id_reset_flag)
1594	flag = menu_item.IsChecked()
1595	if not flag:
1596	menu_item.Check(False)
1597	self.batch_reset_flag = True
1598	else:
1599	menu_item.Check(True)
1600	self.batch_reset_flag = False
1601
1602	## post a message to status bar
1603	msg = "Set Chain Fitting: %s" % str(not self.batch_reset_flag)
1604	wx.PostEvent(self.parent, StatusEvent(status=msg))
1605
1606
1607	def _on_slicer_event(self, event):
1608	"""
1609	Receive a panel as event and send it to guiframe
1610
1611	:param event: event containing a panel
1612
1613	"""
1614	if event.panel is not None:
1615	self.slicer_panels.append(event.panel)
1616	# Set group ID if available
1617	event_id = self.parent.popup_panel(event.panel)
1618	event.panel.uid = event_id
1619	self.mypanels.append(event.panel)
1620
1621	def _onclearslicer(self, event):
1622	"""
1623	Clear the boxslicer when close the panel associate with this slicer
1624	"""
1625	name = event.GetEventObject().frame.GetTitle()
1626	for panel in self.slicer_panels:
1627	if panel.window_caption == name:
1628
1629	for item in self.parent.panels:
1630	if hasattr(self.parent.panels[item], "uid"):
1631	if self.parent.panels[item].uid == panel.base.uid:
1632	self.parent.panels[item].onClearSlicer(event)
1633	#self.parent._mgr.Update()
1634	break
1635	break
1636
1637	def _on_model_panel(self, evt):
1638	"""
1639	react to model selection on any combo box or model menu.plot the model
1640
1641	:param evt: wx.combobox event
1642
1643	"""
1644	model = evt.model
1645	uid = evt.uid
1646	qmin = evt.qmin
1647	qmax = evt.qmax
1648	caption = evt.caption
1649	enable_smearer = evt.enable_smearer
1650	if model is None:
1651	return
1652	if uid not in self.page_finder.keys():
1653	return
1654	# save the name containing the data name with the appropriate model
1655	self.page_finder[uid].set_model(model)
1656	self.page_finder[uid].enable_smearing(enable_smearer)
1657	self.page_finder[uid].set_range(qmin=qmin, qmax=qmax)
1658	self.page_finder[uid].set_fit_tab_caption(caption=caption)
1659	if self.sim_page is not None and not self.batch_on:
1660	self.sim_page.draw_page()
1661	if self.batch_page is not None and self.batch_on:
1662	self.batch_page.draw_page()
1663
1664	def _update1D(self, x, output):
1665	"""
1666	Update the output of plotting model 1D
1667	"""
1668	msg = "Plot updating ... "
1669	wx.PostEvent(self.parent, StatusEvent(status=msg, type="update"))
1670
1671	def create_theory_1D(self, x, y, page_id, model, data, state,
1672	data_description, data_id, dy=None):
1673	"""
1674	Create a theory object associate with an existing Data1D
1675	and add it to the data manager.
1676	@param x: x-values of the data
1677	@param y: y_values of the data
1678	@param page_id: fit page ID
1679	@param model: model used for fitting
1680	@param data: Data1D object to create the theory for
1681	@param state: model state
1682	@param data_description: title to use in the data manager
1683	@param data_id: unique data ID
1684	"""
1685	new_plot = Data1D(x=x, y=y)
1686	if dy is None:
1687	new_plot.is_data = False
1688	new_plot.dy = np.zeros(len(y))
1689	# If this is a theory curve, pick the proper symbol to make it a curve
1690	new_plot.symbol = GUIFRAME_ID.CURVE_SYMBOL_NUM
1691	else:
1692	new_plot.is_data = True
1693	new_plot.dy = dy
1694	new_plot.interactive = True
1695	new_plot.dx = None
1696	new_plot.dxl = None
1697	new_plot.dxw = None
1698	_yaxis, _yunit = data.get_yaxis()
1699	_xaxis, _xunit = data.get_xaxis()
1700	new_plot.title = data.name
1701	new_plot.group_id = data.group_id
1702	if new_plot.group_id is None:
1703	new_plot.group_id = data.group_id
1704	new_plot.id = data_id
1705	# Find if this theory was already plotted and replace that plot given
1706	# the same id
1707	self.page_finder[page_id].get_theory_data(fid=data.id)
1708
1709	if data.is_data:
1710	data_name = str(data.name)
1711	else:
1712	data_name = str(model.__class__.__name__)
1713
1714	new_plot.name = data_description + " [" + data_name + "]"
1715	new_plot.xaxis(_xaxis, _xunit)
1716	new_plot.yaxis(_yaxis, _yunit)
1717	self.page_finder[page_id].set_theory_data(data=new_plot,
1718	fid=data.id)
1719	self.parent.update_theory(data_id=data.id, theory=new_plot,
1720	state=state)
1721	return new_plot
1722
1723	def _complete1D(self, x, y, page_id, elapsed, index, model,
1724	weight=None, fid=None,
1725	toggle_mode_on=False, state=None,
1726	data=None, update_chisqr=True,
1727	source='model', plot_result=True,
1728	unsmeared_model=None, unsmeared_data=None,
1729	unsmeared_error=None, sq_model=None, pq_model=None):
1730	"""
1731	Complete plotting 1D data
1732	@param unsmeared_model: fit model, without smearing
1733	@param unsmeared_data: data, rescaled to unsmeared model
1734	@param unsmeared_error: data error, rescaled to unsmeared model
1735	"""
1736
1737	number_finite = np.count_nonzero(np.isfinite(y))
1738	np.nan_to_num(y)
1739	new_plot = self.create_theory_1D(x, y, page_id, model, data, state,
1740	data_description=model.name,
1741	data_id=str(page_id) + " " + data.name)
1742	if unsmeared_model is not None:
1743	self.create_theory_1D(x, unsmeared_model, page_id, model, data, state,
1744	data_description=model.name + " unsmeared",
1745	data_id=str(page_id) + " " + data.name + " unsmeared")
1746
1747	if unsmeared_data is not None and unsmeared_error is not None:
1748	self.create_theory_1D(x, unsmeared_data, page_id, model, data, state,
1749	data_description="Data unsmeared",
1750	data_id="Data " + data.name + " unsmeared",
1751	dy=unsmeared_error)
1752	# Comment this out until we can get P*S models with correctly populated parameters
1753	#if sq_model is not None and pq_model is not None:
1754	# self.create_theory_1D(x, sq_model, page_id, model, data, state,
1755	# data_description=model.name + " S(q)",
1756	# data_id=str(page_id) + " " + data.name + " S(q)")
1757	# self.create_theory_1D(x, pq_model, page_id, model, data, state,
1758	# data_description=model.name + " P(q)",
1759	# data_id=str(page_id) + " " + data.name + " P(q)")
1760
1761	current_pg = self.fit_panel.get_page_by_id(page_id)
1762	title = new_plot.title
1763	batch_on = self.fit_panel.get_page_by_id(page_id).batch_on
1764	if not batch_on:
1765	wx.PostEvent(self.parent, NewPlotEvent(plot=new_plot, title=str(title)))
1766	elif plot_result:
1767	top_data_id = self.fit_panel.get_page_by_id(page_id).data.id
1768	if data.id == top_data_id:
1769	wx.PostEvent(self.parent, NewPlotEvent(plot=new_plot, title=str(title)))
1770	caption = current_pg.window_caption
1771	self.page_finder[page_id].set_fit_tab_caption(caption=caption)
1772
1773	self.page_finder[page_id].set_theory_data(data=new_plot,
1774	fid=data.id)
1775	if toggle_mode_on:
1776	wx.PostEvent(self.parent,
1777	NewPlotEvent(group_id=str(page_id) + " Model2D",
1778	action="Hide"))
1779	else:
1780	if update_chisqr:
1781	wx.PostEvent(current_pg,
1782	Chi2UpdateEvent(output=self._cal_chisqr(
1783	data=data,
1784	fid=fid,
1785	weight=weight,
1786	page_id=page_id,
1787	index=index)))
1788	else:
1789	self._plot_residuals(page_id=page_id, data=data, fid=fid,
1790	index=index, weight=weight)
1791
1792	if not number_finite:
1793	logger.error("Using the present parameters the model does not return any finite value. ")
1794	msg = "Computing Error: Model did not return any finite value."
1795	wx.PostEvent(self.parent, StatusEvent(status = msg, info="error"))
1796	else:
1797	msg = "Computation completed!"
1798	if number_finite != y.size:
1799	msg += ' PROBLEM: For some Q values the model returns non finite intensities!'
1800	logger.error("For some Q values the model returns non finite intensities.")
1801	wx.PostEvent(self.parent, StatusEvent(status=msg, type="stop"))
1802
1803	def _calc_exception(self, etype, value, tb):
1804	"""
1805	Handle exception from calculator by posting it as an error.
1806	"""
1807	logger.error("".join(traceback.format_exception(etype, value, tb)))
1808	msg = traceback.format_exception(etype, value, tb, limit=1)
1809	evt = StatusEvent(status="".join(msg), type="stop", info="error")
1810	wx.PostEvent(self.parent, evt)
1811
1812	def _update2D(self, output, time=None):
1813	"""
1814	Update the output of plotting model
1815	"""
1816	msg = "Plot updating ... "
1817	wx.PostEvent(self.parent, StatusEvent(msg, type="update"))
1818
1819	def _complete2D(self, image, data, model, page_id, elapsed, index, qmin,
1820	qmax, fid=None, weight=None, toggle_mode_on=False, state=None,
1821	update_chisqr=True, source='model', plot_result=True):
1822	"""
1823	Complete get the result of modelthread and create model 2D
1824	that can be plot.
1825	"""
1826	number_finite = np.count_nonzero(np.isfinite(image))
1827	np.nan_to_num(image)
1828	new_plot = Data2D(image=image, err_image=data.err_data)
1829	new_plot.name = model.name + '2d'
1830	new_plot.title = "Analytical model 2D "
1831	new_plot.id = str(page_id) + " " + data.name
1832	new_plot.group_id = str(page_id) + " Model2D"
1833	new_plot.detector = data.detector
1834	new_plot.source = data.source
1835	new_plot.is_data = False
1836	new_plot.qx_data = data.qx_data
1837	new_plot.qy_data = data.qy_data
1838	new_plot.q_data = data.q_data
1839	new_plot.mask = data.mask
1840	## plot boundaries
1841	new_plot.ymin = data.ymin
1842	new_plot.ymax = data.ymax
1843	new_plot.xmin = data.xmin
1844	new_plot.xmax = data.xmax
1845	title = data.title
1846
1847	new_plot.is_data = False
1848	if data.is_data:
1849	data_name = str(data.name)
1850	else:
1851	data_name = str(model.__class__.__name__) + '2d'
1852
1853	if len(title) > 1:
1854	new_plot.title = "Model2D for %s " % model.name + data_name
1855	new_plot.name = model.name + " [" + \
1856	data_name + "]"
1857	theory_data = deepcopy(new_plot)
1858
1859	self.page_finder[page_id].set_theory_data(data=theory_data,
1860	fid=data.id)
1861	self.parent.update_theory(data_id=data.id,
1862	theory=new_plot,
1863	state=state)
1864	current_pg = self.fit_panel.get_page_by_id(page_id)
1865	title = new_plot.title
1866	if not source == 'fit' and plot_result:
1867	wx.PostEvent(self.parent, NewPlotEvent(plot=new_plot,
1868	title=title))
1869	if toggle_mode_on:
1870	wx.PostEvent(self.parent,
1871	NewPlotEvent(group_id=str(page_id) + " Model1D",
1872	action="Hide"))
1873	else:
1874	# Chisqr in fitpage
1875	if update_chisqr:
1876	wx.PostEvent(current_pg,
1877	Chi2UpdateEvent(output=self._cal_chisqr(data=data,
1878	weight=weight,
1879	fid=fid,
1880	page_id=page_id,
1881	index=index)))
1882	else:
1883	self._plot_residuals(page_id=page_id, data=data, fid=fid,
1884	index=index, weight=weight)
1885
1886	if not number_finite:
1887	logger.error("Using the present parameters the model does not return any finite value. ")
1888	msg = "Computing Error: Model did not return any finite value."
1889	wx.PostEvent(self.parent, StatusEvent(status = msg, info="error"))
1890	else:
1891	msg = "Computation completed!"
1892	if number_finite != image.size:
1893	msg += ' PROBLEM: For some Qx,Qy values the model returns non finite intensities!'
1894	logger.error("For some Qx,Qy values the model returns non finite intensities.")
1895	wx.PostEvent(self.parent, StatusEvent(status=msg, type="stop"))
1896
1897	def _draw_model2D(self, model, page_id, qmin,
1898	qmax,
1899	data=None, smearer=None,
1900	description=None, enable2D=False,
1901	state=None,
1902	fid=None,
1903	weight=None,
1904	toggle_mode_on=False,
1905	update_chisqr=True, source='model'):
1906	"""
1907	draw model in 2D
1908
1909	:param model: instance of the model to draw
1910	:param description: the description of the model
1911	:param enable2D: when True allows to draw model 2D
1912	:param qmin: the minimum value to draw model 2D
1913	:param qmax: the maximum value to draw model 2D
1914	:param qstep: the number of division of Qx and Qy of the model to draw
1915
1916	"""
1917	if not enable2D:
1918	return None
1919	try:
1920	from model_thread import Calc2D
1921	## If a thread is already started, stop it
1922	if (self.calc_2D is not None) and self.calc_2D.isrunning():
1923	self.calc_2D.stop()
1924	## stop just raises a flag to tell the thread to kill
1925	## itself -- see the fix in Calc1D implemented to fix
1926	## an actual problem. Seems the fix should also go here
1927	## and may be the cause of other noted instabilities
1928	##
1929	## -PDB August 12, 2014
1930	while self.calc_2D.isrunning():
1931	time.sleep(0.1)
1932	self.calc_2D = Calc2D(model=model,
1933	data=data,
1934	page_id=page_id,
1935	smearer=smearer,
1936	qmin=qmin,
1937	qmax=qmax,
1938	weight=weight,
1939	fid=fid,
1940	toggle_mode_on=toggle_mode_on,
1941	state=state,
1942	completefn=self._complete2D,
1943	update_chisqr=update_chisqr,
1944	exception_handler=self._calc_exception,
1945	source=source)
1946	self.calc_2D.queue()
1947	except:
1948	raise
1949
1950	def _draw_model1D(self, model, page_id, data,
1951	qmin, qmax, smearer=None,
1952	state=None,
1953	weight=None,
1954	fid=None,
1955	toggle_mode_on=False, update_chisqr=True, source='model',
1956	enable1D=True):
1957	"""
1958	Draw model 1D from loaded data1D
1959
1960	:param data: loaded data
1961	:param model: the model to plot
1962
1963	"""
1964	if not enable1D:
1965	return
1966	try:
1967	from model_thread import Calc1D
1968	## If a thread is already started, stop it
1969	if (self.calc_1D is not None) and self.calc_1D.isrunning():
1970	self.calc_1D.stop()
1971	## stop just raises the flag -- the thread is supposed to
1972	## then kill itself but cannot. Paul Kienzle came up with
1973	## this fix to prevent threads from stepping on each other
1974	## which was causing a simple custom plugin model to crash
1975	##Sasview.
1976	## We still don't know why the fit sometimes lauched a second
1977	## thread -- something which should also be investigated.
1978	## The thread approach was implemented in order to be able
1979	## to lauch a computation in a separate thread from the GUI so
1980	## that the GUI can still respond to user input including
1981	## a request to stop the computation.
1982	## It seems thus that the whole thread approach used here
1983	## May need rethinking
1984	##
1985	## -PDB August 12, 2014
1986	while self.calc_1D.isrunning():
1987	time.sleep(0.1)
1988	self.calc_1D = Calc1D(data=data,
1989	model=model,
1990	page_id=page_id,
1991	qmin=qmin,
1992	qmax=qmax,
1993	smearer=smearer,
1994	state=state,
1995	weight=weight,
1996	fid=fid,
1997	toggle_mode_on=toggle_mode_on,
1998	completefn=self._complete1D,
1999	#updatefn = self._update1D,
2000	update_chisqr=update_chisqr,
2001	exception_handler=self._calc_exception,
2002	source=source)
2003	self.calc_1D.queue()
2004	except:
2005	msg = " Error occurred when drawing %s Model 1D: " % model.name
2006	msg += " %s" % sys.exc_value
2007	wx.PostEvent(self.parent, StatusEvent(status=msg))
2008
2009	def _cal_chisqr(self, page_id, data, weight, fid=None, index=None):
2010	"""
2011	Get handy Chisqr using the output from draw1D and 2D,
2012	instead of calling expansive CalcChisqr in guithread
2013	"""
2014	try:
2015	data_copy = deepcopy(data)
2016	except:
2017	return
2018	# default chisqr
2019	chisqr = None
2020	#to compute chisq make sure data has valid data
2021	# return None if data is None
2022	if not check_data_validity(data_copy) or data_copy is None:
2023	return chisqr
2024
2025	# Get data: data I, theory I, and data dI in order
2026	if data_copy.__class__.__name__ == "Data2D":
2027	if index is None:
2028	index = np.ones(len(data_copy.data), dtype=bool)
2029	if weight is not None:
2030	data_copy.err_data = weight
2031	# get rid of zero error points
2032	index = index & (data_copy.err_data != 0)
2033	index = index & (np.isfinite(data_copy.data))
2034	fn = data_copy.data[index]
2035	theory_data = self.page_finder[page_id].get_theory_data(fid=data_copy.id)
2036	if theory_data is None:
2037	return chisqr
2038	gn = theory_data.data[index]
2039	en = data_copy.err_data[index]
2040	else:
2041	# 1 d theory from model_thread is only in the range of index
2042	if index is None:
2043	index = np.ones(len(data_copy.y), dtype=bool)
2044	if weight is not None:
2045	data_copy.dy = weight
2046	if data_copy.dy is None or data_copy.dy == []:
2047	dy = np.ones(len(data_copy.y))
2048	else:
2049	## Set consistently w/AbstractFitengine:
2050	# But this should be corrected later.
2051	dy = deepcopy(data_copy.dy)
2052	dy[dy == 0] = 1
2053	fn = data_copy.y[index]
2054
2055	theory_data = self.page_finder[page_id].get_theory_data(fid=data_copy.id)
2056	if theory_data is None:
2057	return chisqr
2058	gn = theory_data.y
2059	en = dy[index]
2060
2061	# residual
2062	try:
2063	res = (fn - gn) / en
2064	except ValueError:
2065	print("Unmatch lengths %s, %s, %s" % (len(fn), len(gn), len(en)))
2066	return
2067
2068	residuals = res[np.isfinite(res)]
2069	# get chisqr only w/finite
2070	chisqr = np.average(residuals * residuals)
2071
2072	self._plot_residuals(page_id=page_id, data=data_copy,
2073	fid=fid,
2074	weight=weight, index=index)
2075
2076	return chisqr
2077
2078	def _plot_residuals(self, page_id, weight, fid=None,
2079	data=None, index=None):
2080	"""
2081	Plot the residuals
2082
2083	:param data: data
2084	:param index: index array (bool)
2085	: Note: this is different from the residuals in cal_chisqr()
2086	"""
2087	data_copy = deepcopy(data)
2088	# Get data: data I, theory I, and data dI in order
2089	if data_copy.__class__.__name__ == "Data2D":
2090	# build residuals
2091	residuals = Data2D()
2092	#residuals.copy_from_datainfo(data)
2093	# Not for trunk the line below, instead use the line above
2094	data_copy.clone_without_data(len(data_copy.data), residuals)
2095	residuals.data = None
2096	fn = data_copy.data
2097	theory_data = self.page_finder[page_id].get_theory_data(fid=data_copy.id)
2098	gn = theory_data.data
2099	if weight is None:
2100	en = data_copy.err_data
2101	else:
2102	en = weight
2103	residuals.data = (fn - gn) / en
2104	residuals.qx_data = data_copy.qx_data
2105	residuals.qy_data = data_copy.qy_data
2106	residuals.q_data = data_copy.q_data
2107	residuals.err_data = np.ones(len(residuals.data))
2108	residuals.xmin = min(residuals.qx_data)
2109	residuals.xmax = max(residuals.qx_data)
2110	residuals.ymin = min(residuals.qy_data)
2111	residuals.ymax = max(residuals.qy_data)
2112	residuals.q_data = data_copy.q_data
2113	residuals.mask = data_copy.mask
2114	residuals.scale = 'linear'
2115	# check the lengths
2116	if len(residuals.data) != len(residuals.q_data):
2117	return
2118	else:
2119	# 1 d theory from model_thread is only in the range of index
2120	if data_copy.dy is None or data_copy.dy == []:
2121	dy = np.ones(len(data_copy.y))
2122	else:
2123	if weight is None:
2124	dy = np.ones(len(data_copy.y))
2125	## Set consitently w/AbstractFitengine:
2126	## But this should be corrected later.
2127	else:
2128	dy = weight
2129	dy[dy == 0] = 1
2130	fn = data_copy.y[index]
2131	theory_data = self.page_finder[page_id].get_theory_data(fid=data_copy.id)
2132	gn = theory_data.y
2133	en = dy[index]
2134	# build residuals
2135	residuals = Data1D()
2136	try:
2137	residuals.y = (fn - gn) / en
2138	except:
2139	msg = "ResidualPlot Error: different # of data points in theory"
2140	wx.PostEvent(self.parent, StatusEvent(status=msg, info="error"))
2141	residuals.y = (fn - gn[index]) / en
2142	residuals.x = data_copy.x[index]
2143	residuals.dy = np.ones(len(residuals.y))
2144	residuals.dx = None
2145	residuals.dxl = None
2146	residuals.dxw = None
2147	residuals.ytransform = 'y'
2148	# For latter scale changes
2149	residuals.xaxis('\\rm{Q} ', 'A^{-1}')
2150	residuals.yaxis('\\rm{Residuals} ', 'normalized')
2151	theory_name = str(theory_data.name.split()[0])
2152	new_plot = residuals
2153	new_plot.name = "Residuals for " + str(theory_name) + "[" + \
2154	str(data.name) + "]"
2155	## allow to highlight data when plotted
2156	new_plot.interactive = True
2157	## when 2 data have the same id override the 1 st plotted
2158	new_plot.id = "res" + str(data_copy.id) + str(theory_name)
2159	##group_id specify on which panel to plot this data
2160	group_id = self.page_finder[page_id].get_graph_id()
2161	if group_id is None:
2162	group_id = data.group_id
2163	new_plot.group_id = "res" + str(group_id)
2164	#new_plot.is_data = True
2165	##post data to plot
2166	title = new_plot.name
2167	self.page_finder[page_id].set_residuals(residuals=new_plot,
2168	fid=data.id)
2169	self.parent.update_theory(data_id=data.id, theory=new_plot)
2170	batch_on = self.fit_panel.get_page_by_id(page_id).batch_on
2171	if not batch_on:
2172	wx.PostEvent(self.parent, NewPlotEvent(plot=new_plot, title=title))

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SasView

source: sasview/src/sas/sasgui/perspectives/fitting/fitting.py @ 90d9cd3

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