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- Searching 3771 files for "TODO" (case sensitive)
- /orange/pylintrc:
- 129
- 130 # List of note tags to take in consideration, separated by a comma.
- 131: notes=FIXME,XXX,TODO
- 132
- 133
- /orange/Orange/OrangeCanvas/orngCanvas.pyw:
- 106 self.menuItemShowWidgetToolbar)
- 107
- 108: # TODO: Move other actions currently defined elsewhere
- 109
- 110 self.setStatusBar(MyStatusBar(self))
- ...
- 852 anyDone = False
- 853 for r in Orange.misc.addons.available_repositories:
- 854: #TODO: # Should show some progress (and enable cancellation)
- 855 try:
- 856 if r.refreshdata(force=True):
- /orange/Orange/OrangeCanvas/orngDlgs.py:
- 374 outType = self.outWidget.instance.getOutputType(outName)
- 375 inType = self.inWidget.instance.getInputType(inName)
- 376: if not issubclass(outType, inType) and not issubclass(inType, outType): return 0 #TODO check this with signalManager.canConnect
- 377
- 378 inSignal = None
- ...
- 901 import Orange.misc.addons
- 902 try:
- 903: repo = Orange.misc.addons.OrangeAddOnRepository(dlg.name, dlg.url) #TODO: This can take some time - inform the user!
- 904 self.repositories.append(repo)
- 905 except Exception, e:
- ...
- 921 repo.name, repo.url = dlg.name, dlg.url
- 922 if oldurl != repo.url:
- 923: repo.refreshdata(force=True) #TODO: This can take some time - inform the user!
- 924 except Exception, e:
- 925 repo.name, repo.url = oldname, oldurl
- ...
- 949 def reloadRepos(self):
- 950 # Reload add-on list for all repositories.
- 951: # TODO: This can take some time - show some progress to user!
- 952 for repo in self.repositories:
- 953 try:
- ...
- 1243 selectedRepository = self.getRepoFromItem(self.tree.currentItem())
- 1244 selectedAddOnId = self.getAddOnIdFromItem(self.tree.currentItem())
- 1245: #TODO: Save the next repository selection too, in case the current one was deleted
- 1246
- 1247 # Clear the tree
- /orange/Orange/OrangeCanvas/orngSignalManager.py:
- 304
- 305 def canConnect(self, widgetFrom, widgetTo, dynamic=True):
- 306: # TODO: This should be retrieved from orngRegistry.WidgetDescription
- 307 outsignals = [OutputSignal(*tt) for tt in widgetFrom.outputs]
- 308 insignals = [InputSignal(*tt) for tt in widgetTo.inputs]
- /orange/Orange/OrangeCanvas/orngView.py:
- 333 # we must check if we have really connected some output to input
- 334 if start and end and start != end:
- 335: if self.doc.signalManager.signalProcessingInProgress: # TODO: Remove this check when signal manager handles out of sync signals
- 336 QMessageBox.information( self, "Orange Canvas", "Unable to connect widgets while signal processing is in progress. Please wait.")
- 337 else:
- /orange/Orange/OrangeWidgets/OWBaseWidget.py:
- 994
- 995 """
- 996: ## TODO: make this thread safe
- 997
- 998 async.connect(async, SIGNAL("finished(PyQt_PyObject, QString)"), self.asyncFinished)
- /orange/Orange/OrangeWidgets/OWContexts.py:
- 275
- 276 if not flags & self.List:
- 277: # TODO: is setattr supposed to check that we do not assign values that are optional and do not exist?
- 278 # is context cloning's filter enough to get rid of such attributes?
- 279 setattr(widget, name, value[0])
- ...
- 374 potentiallyFilled += len(selected)
- 375 for i in selected:
- 376: # TODO: shouldn't we check the attribute type here, too? or should we change self.saveLow for these field types then?
- 377 if (not flags & self.ExcludeOrdinaryAttributes and value[i] in attributes
- 378 or flags & self.IncludeMetaAttributes and value[i] in metas):
- /orange/Orange/OrangeWidgets/OWGUI.py:
- 895
- 896 if source != self:
- 897: setattr(source.widget, source.ogLabels, [item for item in allSourceItems if item not in selectedItems]) # TODO: optimize this code. use the fact that the selectedItemIndices is a sorted list
- 898 setattr(self.widget, self.ogLabels, allDestItems[:index] + selectedItems + allDestItems[index:])
- 899 setattr(source.widget, source.ogValue, []) # clear selection in the source widget
- ...
- 1995 if have_ratio:
- 1996 # The text is raised 3 pixels above the bar.
- 1997: text_rect = rect.adjusted(4, 1, -4, -4) # TODO: Style dependent margins?
- 1998 else:
- 1999 text_rect = rect.adjusted(4, 4, -4, -4)
- ....
- 2006 qApp.style().drawPrimitive(QStyle.PE_PanelItemViewItem, option, painter)
- 2007
- 2008: # TODO: Check ForegroundRole.
- 2009 if option.state & QStyle.State_Selected:
- 2010 color = option.palette.highlightedText().color()
- ....
- 2161 space = style.pixelMetric(pm_spacing, option, button)
- 2162 width = style.pixelMetric(pm_indicator_width, option, button)
- 2163: style_correction = {"macintosh (aqua)": -2, "macintosh(aqua)": -2, "plastique": 1, "cde": 1, "motif": 1} #TODO: add other styles (Maybe load corrections from .cfg file?)
- 2164 return space + width + style_correction.get(str(qApp.style().objectName()).lower(), 0)
- 2165
- /orange/Orange/OrangeWidgets/Classify/OWNomogram.py:
- 118 self.CICheck, self.CILabel = OWGUI.checkWithSpin(layoutBox, self, 'Confidence intervals (%):', min=1, max=99, step = 1, checked='confidence_check', value='confidence_percent', checkCallback=self.showNomogram, spinCallback = self.showNomogram)
- 119
- 120: self.histogramCheck, self.histogramLabel = OWGUI.checkWithSpin(layoutBox, self, 'Show histogram, size', min=1, max=30, checked='histogram', value='histogram_size', step = 1, tooltip='-(TODO)-', checkCallback=self.showNomogram, spinCallback = self.showNomogram)
- 121
- 122 OWGUI.separator(layoutBox)
- /orange/Orange/OrangeWidgets/Data/OWDataDomain.py:
- 129 return vars, item_data
- 130 else:
- 131: #TODO: get vars from orange.Variable.getExisting
- 132 return None, None
- 133
- /orange/Orange/OrangeWidgets/Data/OWEditDomain.py:
- 346
- 347 class ContinuousVariableEditor(VariableEditor):
- 348: #TODO: enable editing of number_of_decimals, scientific format ...
- 349 pass
- 350
- ...
- 639
- 640 # Assumes getmetas().items() order has not changed.
- 641: # TODO: store metaids in set_data method
- 642 for (mid, _), new in zip(self.input_domain.getmetas().items(),
- 643 new_metas):
- /orange/Orange/OrangeWidgets/Data/OWPythonScript.py:
- 347 b = w.addAction(action)
- 348 b.setPopupMode(QToolButton.InstantPopup)
- 349: ## TODO: set the space for the indicator
- 350
- 351 w.layout().setSpacing(1)
- /orange/Orange/OrangeWidgets/Data/OWRank.py:
- 512 except Exception, ex:
- 513 self.warning(measure_index, "Error evaluating %r: %r" % (meas, str(ex)))
- 514: # TODO: store exception message (for widget info or item tooltip)
- 515 if meas == "Log Odds Ratio" and s is not None:
- 516 if s == -999999:
- /orange/Orange/OrangeWidgets/Prototypes/OWCorrelations.py:
- 399 vars = [self.cont_vars[i], self.cont_vars[j]]
- 400 else:
- 401: # TODO: Clear graph
- 402 vars = None
- 403 self.selected_vars = vars
- /orange/Orange/OrangeWidgets/Prototypes/OWModelMap.py:
- 513 self.set_graph(self.graph)
- 514 self.set_items_distance_matrix(self.graph_matrix)
- 515: # TODO clickedAttLstBox -> setLabelText(["attributes"]
- 516
- 517 for i, ex in enumerate(self.graph.items()):
- /orange/Orange/OrangeWidgets/Unsupervised/OWModelMapQt.py:
- 525 self.set_graph(self.graph, ModelCurve)
- 526 self.set_items_distance_matrix(self.graph_matrix)
- 527: # TODO clickedAttLstBox -> setLabelText(["attributes"]
- 528
- 529 nodes = self.networkCanvas.networkCurve.nodes()
- /orange/Orange/OrangeWidgets/Unsupervised/OWNxAnalysis.py:
- 97 ("number_weakly_connected_components", False, "Number of weakly connected components", GRAPHLEVEL, nx.number_weakly_connected_components),
- 98 ("number_attracting_components", False, "Number of attracting components", GRAPHLEVEL, nx.number_attracting_components),
- 99: # TODO: input parameters
- 100 #("max_flow", False, "Maximum flow", GRAPHLEVEL, nx.max_flow),
- 101 #("min_cut", False, "Minimum cut", GRAPHLEVEL, nx.min_cut),
- /orange/Orange/OrangeWidgets/Unsupervised/OWNxExplorer.py:
- 1526
- 1527 def setAutoSendAttributes(self):
- 1528: print 'TODO setAutoSendAttributes'
- 1529 #if self.autoSendAttributes:
- 1530 # self.networkCanvas.callbackSelectVertex = self.sendAttSelectionList
- /orange/Orange/OrangeWidgets/Unsupervised/OWNxExplorerQwt.py:
- 370
- 371 def setAutoSendAttributes(self):
- 372: print 'TODO setAutoSendAttributes'
- 373 #if self.autoSendAttributes:
- 374 # self.networkCanvas.callbackSelectVertex = self.sendAttSelectionList
- /orange/Orange/OrangeWidgets/Visualize/OWMultiCorrespondenceAnalysis.py:
- 166 for attr, labels in groups:
- 167 labels = list(labels)
- 168: advance = len(labels) # TODO add shape for each attribute and colors for each value
- 169 self.graph.addCurve(attr.name, brushColor=colors[attr],
- 170 penColor=colors[attr], size=self.pointSize,
- /orange/Orange/OrangeWidgets/Visualize Qt/OWLinProj3DPlot.py:
- 273
- 274 def getSelectionsAsExampleTables(self, attrList, useAnchorData=1, addProjectedPositions=0):
- 275: return (None, None) # TODO: this is disabled for now
- 276
- 277 if not self.have_data:
- /orange/Orange/OrangeWidgets/Visualize Qt/OWNxCanvas3D.py:
- 14
- 15 class Node3D(orangeqt.Node3D):
- 16: # TODO: __slot__
- 17 def __init__(self, index, x=None, y=None, z=None):
- 18 orangeqt.Node3D.__init__(self, index, 0, Qt.blue, 5)
- ..
- 426
- 427 def set_graph(self, graph, curve=None, items=None, links=None):
- 428: # TODO: clear previous nodes and edges?
- 429
- 430 if graph is None:
- ...
- 520 def fragviz_callback(self, a, b, mds, mds_refresh, components, progress_callback):
- 521 """Refresh the UI when running MDS on network components."""
- 522: # TODO
- 523 if not self.mdsStep % mds_refresh:
- 524 rotationOnly = False
- /orange/Orange/OrangeWidgets/Visualize Qt/OWScatterPlot3D.py:
- 58 def nicenum(x, round):
- 59 if x <= 0.:
- 60: return x # TODO: what to do in such cases?
- 61 expv = floor(log10(x))
- 62 f = x / pow(10., expv)
- ..
- 81 range = nicenum(max_value-min_value, False)
- 82 d = nicenum(range / float(num_ticks-1), True)
- 83: if d <= 0.: # TODO
- 84 return numpy.arange(min_value, max_value, (max_value-min_value)/num_ticks), 1
- 85 plot_min = floor(min_value / d) * d
- ..
- 278 glMultMatrixd(numpy.array(self.model.data(), dtype=float))
- 279
- 280: # TODO: line stipple with shaders?
- 281 self.qglColor(self._theme.axis_values_color)
- 282 glEnable(GL_LINE_STIPPLE)
- ...
- 456 cam_in_space = self.camera * self.camera_distance
- 457
- 458: # TODO: the code below is horrible and should be simplified
- 459 planes = [self.axis_plane_xy, self.axis_plane_yz,
- 460 self.axis_plane_xy_back, self.axis_plane_yz_right]
- ...
- 814 return
- 815
- 816: selected = None#selected = self.plot.get_selected_indices() # TODO: crash
- 817 if selected == None or len(selected) != len(self.data):
- 818 return
- /orange/Orange/OrangeWidgets/plot/owaxis.py:
- 166 else:
- 167 title_pos = title_pos - (v.p2() - v.p1())*offset
- 168: ## TODO: Move it according to self.label_pos
- 169 self.title_item.setVisible(self.show_title)
- 170 self.title_item.setRotation(-self.graph_line.angle())
- /orange/Orange/OrangeWidgets/plot/owopenglrenderer.py:
- 84 glBufferData(GL_ARRAY_BUFFER, data, usage)
- 85
- 86: vertex_size = sum(attribute[0]*4 for attribute in format_description) # TODO: sizeof(type)
- 87 self._num_vertices = len(data) / (vertex_size / 4)
- 88 current_size = 0
- ..
- 102
- 103 def __del__(self):
- 104: # TODO
- 105 pass
- 106
- /orange/Orange/OrangeWidgets/plot/owplot.py:
- 883
- 884 def removeAllSelections(self):
- 885: ## TODO
- 886 pass
- 887
- ...
- 932 self.title_item = QGraphicsTextItem(self.mainTitle, scene=self.scene())
- 933 title_size = self.title_item.boundingRect().size()
- 934: ## TODO: Check if the title is too big
- 935 self.title_item.setPos( graph_rect.width()/2 - title_size.width()/2, self.title_margin/2 - title_size.height()/2 )
- 936 graph_rect.setTop(graph_rect.top() + self.title_margin)
- ...
- 1112
- 1113 def update_filled_symbols(self):
- 1114: ## TODO: Implement this in Curve.cpp
- 1115 pass
- 1116
- ....
- 1445 r |= QRectF(axis.data_line.p1(), axis.data_line.p2())
- 1446 ## We leave a 5% margin on each side so the graph doesn't look overcrowded
- 1447: ## TODO: Perhaps change this from a fixed percentage to always round to a round number
- 1448 dx = r.width()/20.0
- 1449 dy = r.height()/20.0
- /orange/Orange/OrangeWidgets/plot/owplot3d.py:
- 108 glDisable(GL_DEPTH_TEST)
- 109 glDisable(GL_BLEND)
- 110: offset = QPointF(0, 15) # TODO
- 111
- 112 for category in self.items:
- ...
- 353 glDepthFunc(GL_LESS)
- 354 glEnable(GL_DEPTH_TEST)
- 355: glEnable(GL_LINE_SMOOTH) # TODO
- 356 glDisable(GL_CULL_FACE)
- 357 glEnable(GL_MULTISAMPLE)
- 358
- 359: # TODO: check hardware for OpenGL 3.x+ support
- 360
- 361 self.renderer = OWOpenGLRenderer()
- ...
- 655 label = example[self.label_index]
- 656 x, y, z = self.map_to_plot(QVector3D(x, y, z))
- 657: # TODO
- 658 #if isinstance(label, str):
- 659 #self.renderText(x,y,z, label, font=self._theme.labels_font)
- ...
- 820 self.generating_program.setUniformValue('num_colors', len(colors))
- 821 self.generating_program.setUniformValue('num_symbols_used', num_symbols_used)
- 822: # TODO: colors is list of QColor
- 823 glUniform3fv(glGetUniformLocation(self.generating_program.programId(), 'colors'),
- 824 len(colors), numpy.array(colors, 'f').ravel())
- ...
- 1247
- 1248 if __name__ == "__main__":
- 1249: # TODO
- 1250 pass
- 1251
- /orange/Orange/classification/rules.py:
- 724
- 725 # compute extreme distributions
- 726: # TODO: why evd and evd_this????
- 727 if self.rule_finder.evaluator.optimismReduction > 0 and not self.evd:
- 728 self.evd_this = self.evd_creator.computeEVD(examples, weight_id, target_class=0, progress=progress)
- /orange/Orange/classification/tree.py:
- 1394
- 1395 """
- 1396: TODO C++ aliases
- 1397
- 1398 SplitConstructor.discrete/continuous_split_constructor -> SplitConstructor.discrete
- /orange/Orange/classification/svm/__init__.py:
- 443 return classifier
- 444
- 445: #TODO: Unified way to get attr weights for linear SVMs.
- 446
- 447 def get_linear_svm_weights(classifier, sum=True):
- /orange/Orange/clustering/consensus.py:
- 52 addones(c, cluster)
- 53
- 54: #TODO what to do if two samples did not appear at all?
- 55 #numpy prints a warning and sets "nan"
- 56 print appear
- /orange/Orange/clustering/mixture.py:
- 227 diff = self.data - means[j]
- 228 diff = numpy.asmatrix(diff)
- 229: for i in range(len(self.data)): # TODO: speed up
- 230 cov += self.probs[i, j] * diff[i].T * diff[i]
- 231
- ...
- 369 means = mixture.means[:, axis]
- 370
- 371: covariances = [cov[axis,:][:, axis] for cov in mixture.covariances] # TODO: Need the whole marginal distribution.
- 372
- 373 gmm = GMModel(weights, means, covariances)
- /orange/Orange/data/io.py:
- 596 file = as_open_file(file, "rb")
- 597 snifer = csv.Sniffer()
- 598: sample = file.read(5 * 2 ** 20) # max 5MB sample TODO: What if this is not enough. Try with a bigger sample
- 599 dialect = snifer.sniff(sample)
- 600
- ...
- 712 # Process undefined variables now that we can deduce their type
- 713 for ind, var_def in undefined_vars:
- 714: values = var_def.values - set(["?", ""]) # TODO: Other unknown strings?
- 715 values = sorted(values)
- 716 if isinstance(var_def, _disc_placeholder):
- ...
- 835 [("m", v) for v in metas]:
- 836
- 837: labels = ["{0}={1}".format(*t) for t in var.attributes.items()] # TODO escape spaces
- 838 var_attr_cells.append(" ".join([spec] if spec else [] + labels))
- 839
- ...
- 988
- 989 """
- 990: prefix, filename = prefixed_name.split(":", 1) #TODO: windows drive letters.
- 991 paths = search_paths(prefix)
- 992 if paths:
- /orange/Orange/ensemble/boosting.py:
- 136 votes[int(c(instance))] += e
- 137 index = Orange.misc.selection.select_best_index(votes)
- 138: # TODO
- 139 value = Orange.data.Value(self.class_var, index)
- 140 if result_type == orange.GetValue:
- /orange/Orange/ensemble/forest.py:
- 392 Return a number of instances which are classified correctly.
- 393 """
- 394: #TODO How to accomodate regression?
- 395 return sum(1 for el in oob if el.getclass() == classifier(el))
- 396
- ...
- 407 ex[attr] = oob[perm[index]][attr]
- 408 return ex
- 409: #TODO How to accomodate regression?
- 410 return sum(1 for i in range(len(oob)) if oob[i].getclass() == classifier(shuffle_ex(i)))
- 411
- /orange/Orange/feature/scoring.py:
- 88 """
- 89 import numpy
- 90: from orngContingency import Entropy #TODO: Move to new hierarchy
- 91 if attr in data.domain: # if we receive attr as string we have to convert to variable
- 92 attr = data.domain[attr]
- /orange/Orange/misc/addons.py:
- 873 add-on's directory.
- 874 """
- 875: #TODO This might be redefined in orngConfiguration.
- 876 return os.path.join(self.directory, "doc")
- 877
- ...
- 1527 if refresh:
- 1528 for r in available_repositories:
- 1529: #TODO: # Should show some progress (and enable cancellation)
- 1530 try:
- 1531 r.refreshdata(force=False)
- /orange/Orange/misc/environ.py:
- 256
- 257 # Create the directories if missing
- 258: # TODO: This are not needed if using orange without the GUI
- 259
- 260 _directories_to_create = ["application_dir", "orange_settings_dir",
- /orange/Orange/misc/testing.py:
- 462 s = pickle.dumps(self.measure)
- 463 measure = pickle.loads(s)
- 464: # TODO: make sure measure computes the same scores as measure
- 465
- 466
- /orange/Orange/multitarget/tree.py:
- 85 # Types of classes allowed
- 86 self.handles_discrete = True
- 87: ## TODO: for discrete classes with >2 values entropy should be used
- 88 ## instead of variance
- 89 self.handles_continuous = True
- /orange/Orange/network/network.py:
- 164 return G
- 165
- 166: ### TODO: OVERRIDE METHODS THAT CHANGE GRAPH STRUCTURE, add warning prints
- 167
- 168 def items_vars(self):
- ...
- 206 G.set_items(items)
- 207 return G
- 208: # TODO: _links
- 209
- 210 __doc__ += _get_doc(nx.Graph.__doc__)
- /orange/Orange/orng/orngProjectionPursuit.py:
- 44 self.dim = dim
- 45 if type(data) == orange.ExampleTable:
- 46: self.dataNP = data.toNumpy()[0] # TODO: check if conversion of discrete values works ok
- 47 else:
- 48 self.dataNP = data
- /orange/Orange/projection/linear.py:
- 1: #TODO: eliminate create_pls_projection (transform into a class)
- 2: #TODO: Projector as a preprocessor
- 3
- 4 import Orange
- .
- 310 if not attr_indices: return
- 311
- 312: if self.implementation == FAST_IMPLEMENTATION and not hasattr(self, '_use_3D'): # TODO
- 313 return self.optimize_fast_separation(steps, single_step, distances)
- 314
- /orange/Orange/projection/mds.py:
- 157 ravg = numpy.sum(d, axis=1)/(self.n+0.0) # row sum
- 158 tavg = numpy.sum(cavg)/(self.n+0.0) # total sum
- 159: # TODO: optimize
- 160 for i in xrange(self.n):
- 161 for j in xrange(self.k):
- /orange/Orange/regression/earth.py:
- 140 (default: 0.001).
- 141 :type thresh: float
- 142: :param min_span: TODO.
- 143 :param new_var_penalty: Penalty for introducing a new variable
- 144 in the model during the forward pass (default: 0).
- ...
- 982 if attr is not None and data is not None:
- 983 self.__init__(**kwargs)
- 984: # TODO: Should raise a warning, about caching
- 985 return self.__call__(attr, data, weight_id)
- 986 elif not attr and not data:
- ...
- 1050 if attr is not None and data is not None:
- 1051 self.__init__(**kwargs)
- 1052: # TODO: Should raise a warning, about caching
- 1053 return self.__call__(attr, data, weight_id)
- 1054 elif not attr and not data:
- ....
- 1158 #
- 1159 # bx_used = bx[:, best_set]
- 1160: # subsets, rss_per_subset = subsets_selection_xtx(bx_used, y) # TODO: Use leaps like library
- 1161 # gcv_per_subset = [gcv(rss, bx.shape[0], i + self.penalty * (i - 1) / 2.0) \
- 1162 # for i, rss in enumerate(rss_per_subset, 1)]
- /orange/Orange/regression/linear.py:
- 261 else:
- 262 cov = pinv(dot(dot(X.T, W), X) + self.ridge_lambda * numpy.eye(m))
- 263: # TODO: find inferential properties of the estimators
- 264 compute_stats = False
- 265 D = dot(dot(cov, X.T), W)
- /orange/Orange/testing/unit/tests/test_bayes.py:
- 1 from Orange.misc import testing
- 2
- 3: # TODO: test different prob estimators
- 4 @testing.datasets_driven(datasets=testing.CLASSIFICATION_DATASETS)
- 5 class TestNaiveBayes(testing.LearnerTestCase):
- /orange/Orange/testing/unit/tests/test_io.py:
- 20 def test_io_on(self, name):
- 21 table = Orange.data.Table(name)
- 22: for ext in ["tab", "svm", "arff"]: # TODO: add R, and C50
- 23 filename = name + "." + ext
- 24 try:
- /orange/Orange/testing/unit/tests/test_measures.py:
- 20
- 21
- 22: # TODO: Relevance, Cost
- 23
- 24 @datasets_driven(datasets=testing.CLASSIFICATION_DATASETS,
- /orange/Orange/testing/unit/tests/test_tree.py:
- 8 from Orange.regression import tree as rtree
- 9 from Orange.feature import scoring
- 10: # TODO: test different split_constructors, descenders, measures, stop criteria...
- 11
- 12 @datasets_driven(datasets=testing.CLASSIFICATION_DATASETS)
- /orange/build/lib.linux-i686-2.6/Orange/OrangeCanvas/orngCanvas.pyw:
- 106 self.menuItemShowWidgetToolbar)
- 107
- 108: # TODO: Move other actions currently defined elsewhere
- 109
- 110 self.setStatusBar(MyStatusBar(self))
- ...
- 852 anyDone = False
- 853 for r in Orange.misc.addons.available_repositories:
- 854: #TODO: # Should show some progress (and enable cancellation)
- 855 try:
- 856 if r.refreshdata(force=True):
- /orange/build/lib.linux-i686-2.6/Orange/OrangeCanvas/orngDlgs.py:
- 374 outType = self.outWidget.instance.getOutputType(outName)
- 375 inType = self.inWidget.instance.getInputType(inName)
- 376: if not issubclass(outType, inType) and not issubclass(inType, outType): return 0 #TODO check this with signalManager.canConnect
- 377
- 378 inSignal = None
- ...
- 901 import Orange.misc.addons
- 902 try:
- 903: repo = Orange.misc.addons.OrangeAddOnRepository(dlg.name, dlg.url) #TODO: This can take some time - inform the user!
- 904 self.repositories.append(repo)
- 905 except Exception, e:
- ...
- 921 repo.name, repo.url = dlg.name, dlg.url
- 922 if oldurl != repo.url:
- 923: repo.refreshdata(force=True) #TODO: This can take some time - inform the user!
- 924 except Exception, e:
- 925 repo.name, repo.url = oldname, oldurl
- ...
- 949 def reloadRepos(self):
- 950 # Reload add-on list for all repositories.
- 951: # TODO: This can take some time - show some progress to user!
- 952 for repo in self.repositories:
- 953 try:
- ...
- 1243 selectedRepository = self.getRepoFromItem(self.tree.currentItem())
- 1244 selectedAddOnId = self.getAddOnIdFromItem(self.tree.currentItem())
- 1245: #TODO: Save the next repository selection too, in case the current one was deleted
- 1246
- 1247 # Clear the tree
- /orange/build/lib.linux-i686-2.6/Orange/OrangeCanvas/orngSignalManager.py:
- 304
- 305 def canConnect(self, widgetFrom, widgetTo, dynamic=True):
- 306: # TODO: This should be retrieved from orngRegistry.WidgetDescription
- 307 outsignals = [OutputSignal(*tt) for tt in widgetFrom.outputs]
- 308 insignals = [InputSignal(*tt) for tt in widgetTo.inputs]
- /orange/build/lib.linux-i686-2.6/Orange/OrangeCanvas/orngView.py:
- 333 # we must check if we have really connected some output to input
- 334 if start and end and start != end:
- 335: if self.doc.signalManager.signalProcessingInProgress: # TODO: Remove this check when signal manager handles out of sync signals
- 336 QMessageBox.information( self, "Orange Canvas", "Unable to connect widgets while signal processing is in progress. Please wait.")
- 337 else:
- /orange/build/lib.linux-i686-2.6/Orange/OrangeWidgets/OWBaseWidget.py:
- 994
- 995 """
- 996: ## TODO: make this thread safe
- 997
- 998 async.connect(async, SIGNAL("finished(PyQt_PyObject, QString)"), self.asyncFinished)
- /orange/build/lib.linux-i686-2.6/Orange/OrangeWidgets/OWContexts.py:
- 275
- 276 if not flags & self.List:
- 277: # TODO: is setattr supposed to check that we do not assign values that are optional and do not exist?
- 278 # is context cloning's filter enough to get rid of such attributes?
- 279 setattr(widget, name, value[0])
- ...
- 374 potentiallyFilled += len(selected)
- 375 for i in selected:
- 376: # TODO: shouldn't we check the attribute type here, too? or should we change self.saveLow for these field types then?
- 377 if (not flags & self.ExcludeOrdinaryAttributes and value[i] in attributes
- 378 or flags & self.IncludeMetaAttributes and value[i] in metas):
- /orange/build/lib.linux-i686-2.6/Orange/OrangeWidgets/OWGUI.py:
- 895
- 896 if source != self:
- 897: setattr(source.widget, source.ogLabels, [item for item in allSourceItems if item not in selectedItems]) # TODO: optimize this code. use the fact that the selectedItemIndices is a sorted list
- 898 setattr(self.widget, self.ogLabels, allDestItems[:index] + selectedItems + allDestItems[index:])
- 899 setattr(source.widget, source.ogValue, []) # clear selection in the source widget
- ...
- 1995 if have_ratio:
- 1996 # The text is raised 3 pixels above the bar.
- 1997: text_rect = rect.adjusted(4, 1, -4, -4) # TODO: Style dependent margins?
- 1998 else:
- 1999 text_rect = rect.adjusted(4, 4, -4, -4)
- ....
- 2006 qApp.style().drawPrimitive(QStyle.PE_PanelItemViewItem, option, painter)
- 2007
- 2008: # TODO: Check ForegroundRole.
- 2009 if option.state & QStyle.State_Selected:
- 2010 color = option.palette.highlightedText().color()
- ....
- 2161 space = style.pixelMetric(pm_spacing, option, button)
- 2162 width = style.pixelMetric(pm_indicator_width, option, button)
- 2163: style_correction = {"macintosh (aqua)": -2, "macintosh(aqua)": -2, "plastique": 1, "cde": 1, "motif": 1} #TODO: add other styles (Maybe load corrections from .cfg file?)
- 2164 return space + width + style_correction.get(str(qApp.style().objectName()).lower(), 0)
- 2165
- /orange/build/lib.linux-i686-2.6/Orange/OrangeWidgets/Classify/OWNomogram.py:
- 118 self.CICheck, self.CILabel = OWGUI.checkWithSpin(layoutBox, self, 'Confidence intervals (%):', min=1, max=99, step = 1, checked='confidence_check', value='confidence_percent', checkCallback=self.showNomogram, spinCallback = self.showNomogram)
- 119
- 120: self.histogramCheck, self.histogramLabel = OWGUI.checkWithSpin(layoutBox, self, 'Show histogram, size', min=1, max=30, checked='histogram', value='histogram_size', step = 1, tooltip='-(TODO)-', checkCallback=self.showNomogram, spinCallback = self.showNomogram)
- 121
- 122 OWGUI.separator(layoutBox)
- /orange/build/lib.linux-i686-2.6/Orange/OrangeWidgets/Data/OWDataDomain.py:
- 129 return vars, item_data
- 130 else:
- 131: #TODO: get vars from orange.Variable.getExisting
- 132 return None, None
- 133
- /orange/build/lib.linux-i686-2.6/Orange/OrangeWidgets/Data/OWEditDomain.py:
- 346
- 347 class ContinuousVariableEditor(VariableEditor):
- 348: #TODO: enable editing of number_of_decimals, scientific format ...
- 349 pass
- 350
- ...
- 639
- 640 # Assumes getmetas().items() order has not changed.
- 641: # TODO: store metaids in set_data method
- 642 for (mid, _), new in zip(self.input_domain.getmetas().items(),
- 643 new_metas):
- /orange/build/lib.linux-i686-2.6/Orange/OrangeWidgets/Data/OWPythonScript.py:
- 347 b = w.addAction(action)
- 348 b.setPopupMode(QToolButton.InstantPopup)
- 349: ## TODO: set the space for the indicator
- 350
- 351 w.layout().setSpacing(1)
- /orange/build/lib.linux-i686-2.6/Orange/OrangeWidgets/Data/OWRank.py:
- 512 except Exception, ex:
- 513 self.warning(measure_index, "Error evaluating %r: %r" % (meas, str(ex)))
- 514: # TODO: store exception message (for widget info or item tooltip)
- 515 if meas == "Log Odds Ratio" and s is not None:
- 516 if s == -999999:
- /orange/build/lib.linux-i686-2.6/Orange/OrangeWidgets/Prototypes/OWCorrelations.py:
- 399 vars = [self.cont_vars[i], self.cont_vars[j]]
- 400 else:
- 401: # TODO: Clear graph
- 402 vars = None
- 403 self.selected_vars = vars
- /orange/build/lib.linux-i686-2.6/Orange/OrangeWidgets/Prototypes/OWModelMap.py:
- 513 self.set_graph(self.graph)
- 514 self.set_items_distance_matrix(self.graph_matrix)
- 515: # TODO clickedAttLstBox -> setLabelText(["attributes"]
- 516
- 517 for i, ex in enumerate(self.graph.items()):
- /orange/build/lib.linux-i686-2.6/Orange/OrangeWidgets/Unsupervised/OWModelMapQt.py:
- 525 self.set_graph(self.graph, ModelCurve)
- 526 self.set_items_distance_matrix(self.graph_matrix)
- 527: # TODO clickedAttLstBox -> setLabelText(["attributes"]
- 528
- 529 nodes = self.networkCanvas.networkCurve.nodes()
- /orange/build/lib.linux-i686-2.6/Orange/OrangeWidgets/Unsupervised/OWNxAnalysis.py:
- 97 ("number_weakly_connected_components", False, "Number of weakly connected components", GRAPHLEVEL, nx.number_weakly_connected_components),
- 98 ("number_attracting_components", False, "Number of attracting components", GRAPHLEVEL, nx.number_attracting_components),
- 99: # TODO: input parameters
- 100 #("max_flow", False, "Maximum flow", GRAPHLEVEL, nx.max_flow),
- 101 #("min_cut", False, "Minimum cut", GRAPHLEVEL, nx.min_cut),
- /orange/build/lib.linux-i686-2.6/Orange/OrangeWidgets/Unsupervised/OWNxExplorer.py:
- 1526
- 1527 def setAutoSendAttributes(self):
- 1528: print 'TODO setAutoSendAttributes'
- 1529 #if self.autoSendAttributes:
- 1530 # self.networkCanvas.callbackSelectVertex = self.sendAttSelectionList
- /orange/build/lib.linux-i686-2.6/Orange/OrangeWidgets/Unsupervised/OWNxExplorerQwt.py:
- 370
- 371 def setAutoSendAttributes(self):
- 372: print 'TODO setAutoSendAttributes'
- 373 #if self.autoSendAttributes:
- 374 # self.networkCanvas.callbackSelectVertex = self.sendAttSelectionList
- /orange/build/lib.linux-i686-2.6/Orange/OrangeWidgets/Visualize/OWMultiCorrespondenceAnalysis.py:
- 166 for attr, labels in groups:
- 167 labels = list(labels)
- 168: advance = len(labels) # TODO add shape for each attribute and colors for each value
- 169 self.graph.addCurve(attr.name, brushColor=colors[attr],
- 170 penColor=colors[attr], size=self.pointSize,
- /orange/build/lib.linux-i686-2.6/Orange/OrangeWidgets/Visualize Qt/OWLinProj3DPlot.py:
- 273
- 274 def getSelectionsAsExampleTables(self, attrList, useAnchorData=1, addProjectedPositions=0):
- 275: return (None, None) # TODO: this is disabled for now
- 276
- 277 if not self.have_data:
- /orange/build/lib.linux-i686-2.6/Orange/OrangeWidgets/Visualize Qt/OWNxCanvas3D.py:
- 14
- 15 class Node3D(orangeqt.Node3D):
- 16: # TODO: __slot__
- 17 def __init__(self, index, x=None, y=None, z=None):
- 18 orangeqt.Node3D.__init__(self, index, 0, Qt.blue, 5)
- ..
- 426
- 427 def set_graph(self, graph, curve=None, items=None, links=None):
- 428: # TODO: clear previous nodes and edges?
- 429
- 430 if graph is None:
- ...
- 520 def fragviz_callback(self, a, b, mds, mds_refresh, components, progress_callback):
- 521 """Refresh the UI when running MDS on network components."""
- 522: # TODO
- 523 if not self.mdsStep % mds_refresh:
- 524 rotationOnly = False
- /orange/build/lib.linux-i686-2.6/Orange/OrangeWidgets/Visualize Qt/OWScatterPlot3D.py:
- 58 def nicenum(x, round):
- 59 if x <= 0.:
- 60: return x # TODO: what to do in such cases?
- 61 expv = floor(log10(x))
- 62 f = x / pow(10., expv)
- ..
- 81 range = nicenum(max_value-min_value, False)
- 82 d = nicenum(range / float(num_ticks-1), True)
- 83: if d <= 0.: # TODO
- 84 return numpy.arange(min_value, max_value, (max_value-min_value)/num_ticks), 1
- 85 plot_min = floor(min_value / d) * d
- ..
- 278 glMultMatrixd(numpy.array(self.model.data(), dtype=float))
- 279
- 280: # TODO: line stipple with shaders?
- 281 self.qglColor(self._theme.axis_values_color)
- 282 glEnable(GL_LINE_STIPPLE)
- ...
- 456 cam_in_space = self.camera * self.camera_distance
- 457
- 458: # TODO: the code below is horrible and should be simplified
- 459 planes = [self.axis_plane_xy, self.axis_plane_yz,
- 460 self.axis_plane_xy_back, self.axis_plane_yz_right]
- ...
- 814 return
- 815
- 816: selected = None#selected = self.plot.get_selected_indices() # TODO: crash
- 817 if selected == None or len(selected) != len(self.data):
- 818 return
- /orange/build/lib.linux-i686-2.6/Orange/OrangeWidgets/plot/owaxis.py:
- 166 else:
- 167 title_pos = title_pos - (v.p2() - v.p1())*offset
- 168: ## TODO: Move it according to self.label_pos
- 169 self.title_item.setVisible(self.show_title)
- 170 self.title_item.setRotation(-self.graph_line.angle())
- /orange/build/lib.linux-i686-2.6/Orange/OrangeWidgets/plot/owopenglrenderer.py:
- 84 glBufferData(GL_ARRAY_BUFFER, data, usage)
- 85
- 86: vertex_size = sum(attribute[0]*4 for attribute in format_description) # TODO: sizeof(type)
- 87 self._num_vertices = len(data) / (vertex_size / 4)
- 88 current_size = 0
- ..
- 102
- 103 def __del__(self):
- 104: # TODO
- 105 pass
- 106
- /orange/build/lib.linux-i686-2.6/Orange/OrangeWidgets/plot/owplot.py:
- 883
- 884 def removeAllSelections(self):
- 885: ## TODO
- 886 pass
- 887
- ...
- 932 self.title_item = QGraphicsTextItem(self.mainTitle, scene=self.scene())
- 933 title_size = self.title_item.boundingRect().size()
- 934: ## TODO: Check if the title is too big
- 935 self.title_item.setPos( graph_rect.width()/2 - title_size.width()/2, self.title_margin/2 - title_size.height()/2 )
- 936 graph_rect.setTop(graph_rect.top() + self.title_margin)
- ...
- 1112
- 1113 def update_filled_symbols(self):
- 1114: ## TODO: Implement this in Curve.cpp
- 1115 pass
- 1116
- ....
- 1445 r |= QRectF(axis.data_line.p1(), axis.data_line.p2())
- 1446 ## We leave a 5% margin on each side so the graph doesn't look overcrowded
- 1447: ## TODO: Perhaps change this from a fixed percentage to always round to a round number
- 1448 dx = r.width()/20.0
- 1449 dy = r.height()/20.0
- /orange/build/lib.linux-i686-2.6/Orange/OrangeWidgets/plot/owplot3d.py:
- 108 glDisable(GL_DEPTH_TEST)
- 109 glDisable(GL_BLEND)
- 110: offset = QPointF(0, 15) # TODO
- 111
- 112 for category in self.items:
- ...
- 353 glDepthFunc(GL_LESS)
- 354 glEnable(GL_DEPTH_TEST)
- 355: glEnable(GL_LINE_SMOOTH) # TODO
- 356 glDisable(GL_CULL_FACE)
- 357 glEnable(GL_MULTISAMPLE)
- 358
- 359: # TODO: check hardware for OpenGL 3.x+ support
- 360
- 361 self.renderer = OWOpenGLRenderer()
- ...
- 655 label = example[self.label_index]
- 656 x, y, z = self.map_to_plot(QVector3D(x, y, z))
- 657: # TODO
- 658 #if isinstance(label, str):
- 659 #self.renderText(x,y,z, label, font=self._theme.labels_font)
- ...
- 820 self.generating_program.setUniformValue('num_colors', len(colors))
- 821 self.generating_program.setUniformValue('num_symbols_used', num_symbols_used)
- 822: # TODO: colors is list of QColor
- 823 glUniform3fv(glGetUniformLocation(self.generating_program.programId(), 'colors'),
- 824 len(colors), numpy.array(colors, 'f').ravel())
- ...
- 1247
- 1248 if __name__ == "__main__":
- 1249: # TODO
- 1250 pass
- 1251
- /orange/build/lib.linux-i686-2.6/Orange/classification/rules.py:
- 724
- 725 # compute extreme distributions
- 726: # TODO: why evd and evd_this????
- 727 if self.rule_finder.evaluator.optimismReduction > 0 and not self.evd:
- 728 self.evd_this = self.evd_creator.computeEVD(examples, weight_id, target_class=0, progress=progress)
- /orange/build/lib.linux-i686-2.6/Orange/classification/tree.py:
- 1394
- 1395 """
- 1396: TODO C++ aliases
- 1397
- 1398 SplitConstructor.discrete/continuous_split_constructor -> SplitConstructor.discrete
- /orange/build/lib.linux-i686-2.6/Orange/classification/svm/__init__.py:
- 443 return classifier
- 444
- 445: #TODO: Unified way to get attr weights for linear SVMs.
- 446
- 447 def get_linear_svm_weights(classifier, sum=True):
- /orange/build/lib.linux-i686-2.6/Orange/clustering/consensus.py:
- 52 addones(c, cluster)
- 53
- 54: #TODO what to do if two samples did not appear at all?
- 55 #numpy prints a warning and sets "nan"
- 56 print appear
- /orange/build/lib.linux-i686-2.6/Orange/clustering/mixture.py:
- 227 diff = self.data - means[j]
- 228 diff = numpy.asmatrix(diff)
- 229: for i in range(len(self.data)): # TODO: speed up
- 230 cov += self.probs[i, j] * diff[i].T * diff[i]
- 231
- ...
- 369 means = mixture.means[:, axis]
- 370
- 371: covariances = [cov[axis,:][:, axis] for cov in mixture.covariances] # TODO: Need the whole marginal distribution.
- 372
- 373 gmm = GMModel(weights, means, covariances)
- /orange/build/lib.linux-i686-2.6/Orange/data/io.py:
- 596 file = as_open_file(file, "rb")
- 597 snifer = csv.Sniffer()
- 598: sample = file.read(5 * 2 ** 20) # max 5MB sample TODO: What if this is not enough. Try with a bigger sample
- 599 dialect = snifer.sniff(sample)
- 600
- ...
- 712 # Process undefined variables now that we can deduce their type
- 713 for ind, var_def in undefined_vars:
- 714: values = var_def.values - set(["?", ""]) # TODO: Other unknown strings?
- 715 values = sorted(values)
- 716 if isinstance(var_def, _disc_placeholder):
- ...
- 835 [("m", v) for v in metas]:
- 836
- 837: labels = ["{0}={1}".format(*t) for t in var.attributes.items()] # TODO escape spaces
- 838 var_attr_cells.append(" ".join([spec] if spec else [] + labels))
- 839
- ...
- 988
- 989 """
- 990: prefix, filename = prefixed_name.split(":", 1) #TODO: windows drive letters.
- 991 paths = search_paths(prefix)
- 992 if paths:
- /orange/build/lib.linux-i686-2.6/Orange/ensemble/boosting.py:
- 136 votes[int(c(instance))] += e
- 137 index = Orange.misc.selection.select_best_index(votes)
- 138: # TODO
- 139 value = Orange.data.Value(self.class_var, index)
- 140 if result_type == orange.GetValue:
- /orange/build/lib.linux-i686-2.6/Orange/ensemble/forest.py:
- 392 Return a number of instances which are classified correctly.
- 393 """
- 394: #TODO How to accomodate regression?
- 395 return sum(1 for el in oob if el.getclass() == classifier(el))
- 396
- ...
- 407 ex[attr] = oob[perm[index]][attr]
- 408 return ex
- 409: #TODO How to accomodate regression?
- 410 return sum(1 for i in range(len(oob)) if oob[i].getclass() == classifier(shuffle_ex(i)))
- 411
- /orange/build/lib.linux-i686-2.6/Orange/feature/scoring.py:
- 88 """
- 89 import numpy
- 90: from orngContingency import Entropy #TODO: Move to new hierarchy
- 91 if attr in data.domain: # if we receive attr as string we have to convert to variable
- 92 attr = data.domain[attr]
- /orange/build/lib.linux-i686-2.6/Orange/misc/addons.py:
- 873 add-on's directory.
- 874 """
- 875: #TODO This might be redefined in orngConfiguration.
- 876 return os.path.join(self.directory, "doc")
- 877
- ...
- 1527 if refresh:
- 1528 for r in available_repositories:
- 1529: #TODO: # Should show some progress (and enable cancellation)
- 1530 try:
- 1531 r.refreshdata(force=False)
- /orange/build/lib.linux-i686-2.6/Orange/misc/environ.py:
- 256
- 257 # Create the directories if missing
- 258: # TODO: This are not needed if using orange without the GUI
- 259
- 260 _directories_to_create = ["application_dir", "orange_settings_dir",
- /orange/build/lib.linux-i686-2.6/Orange/misc/testing.py:
- 462 s = pickle.dumps(self.measure)
- 463 measure = pickle.loads(s)
- 464: # TODO: make sure measure computes the same scores as measure
- 465
- 466
- /orange/build/lib.linux-i686-2.6/Orange/multitarget/tree.py:
- 85 # Types of classes allowed
- 86 self.handles_discrete = True
- 87: ## TODO: for discrete classes with >2 values entropy should be used
- 88 ## instead of variance
- 89 self.handles_continuous = True
- /orange/build/lib.linux-i686-2.6/Orange/network/network.py:
- 164 return G
- 165
- 166: ### TODO: OVERRIDE METHODS THAT CHANGE GRAPH STRUCTURE, add warning prints
- 167
- 168 def items_vars(self):
- ...
- 206 G.set_items(items)
- 207 return G
- 208: # TODO: _links
- 209
- 210 __doc__ += _get_doc(nx.Graph.__doc__)
- /orange/build/lib.linux-i686-2.6/Orange/orng/orngProjectionPursuit.py:
- 44 self.dim = dim
- 45 if type(data) == orange.ExampleTable:
- 46: self.dataNP = data.toNumpy()[0] # TODO: check if conversion of discrete values works ok
- 47 else:
- 48 self.dataNP = data
- /orange/build/lib.linux-i686-2.6/Orange/projection/linear.py:
- 1: #TODO: eliminate create_pls_projection (transform into a class)
- 2: #TODO: Projector as a preprocessor
- 3
- 4 import Orange
- .
- 310 if not attr_indices: return
- 311
- 312: if self.implementation == FAST_IMPLEMENTATION and not hasattr(self, '_use_3D'): # TODO
- 313 return self.optimize_fast_separation(steps, single_step, distances)
- 314
- /orange/build/lib.linux-i686-2.6/Orange/projection/mds.py:
- 157 ravg = numpy.sum(d, axis=1)/(self.n+0.0) # row sum
- 158 tavg = numpy.sum(cavg)/(self.n+0.0) # total sum
- 159: # TODO: optimize
- 160 for i in xrange(self.n):
- 161 for j in xrange(self.k):
- /orange/build/lib.linux-i686-2.6/Orange/regression/earth.py:
- 140 (default: 0.001).
- 141 :type thresh: float
- 142: :param min_span: TODO.
- 143 :param new_var_penalty: Penalty for introducing a new variable
- 144 in the model during the forward pass (default: 0).
- ...
- 982 if attr is not None and data is not None:
- 983 self.__init__(**kwargs)
- 984: # TODO: Should raise a warning, about caching
- 985 return self.__call__(attr, data, weight_id)
- 986 elif not attr and not data:
- ...
- 1050 if attr is not None and data is not None:
- 1051 self.__init__(**kwargs)
- 1052: # TODO: Should raise a warning, about caching
- 1053 return self.__call__(attr, data, weight_id)
- 1054 elif not attr and not data:
- ....
- 1158 #
- 1159 # bx_used = bx[:, best_set]
- 1160: # subsets, rss_per_subset = subsets_selection_xtx(bx_used, y) # TODO: Use leaps like library
- 1161 # gcv_per_subset = [gcv(rss, bx.shape[0], i + self.penalty * (i - 1) / 2.0) \
- 1162 # for i, rss in enumerate(rss_per_subset, 1)]
- /orange/build/lib.linux-i686-2.6/Orange/regression/linear.py:
- 261 else:
- 262 cov = pinv(dot(dot(X.T, W), X) + self.ridge_lambda * numpy.eye(m))
- 263: # TODO: find inferential properties of the estimators
- 264 compute_stats = False
- 265 D = dot(dot(cov, X.T), W)
- /orange/build/lib.linux-i686-2.6/Orange/testing/unit/tests/test_bayes.py:
- 1 from Orange.misc import testing
- 2
- 3: # TODO: test different prob estimators
- 4 @testing.datasets_driven(datasets=testing.CLASSIFICATION_DATASETS)
- 5 class TestNaiveBayes(testing.LearnerTestCase):
- /orange/build/lib.linux-i686-2.6/Orange/testing/unit/tests/test_io.py:
- 20 def test_io_on(self, name):
- 21 table = Orange.data.Table(name)
- 22: for ext in ["tab", "svm", "arff"]: # TODO: add R, and C50
- 23 filename = name + "." + ext
- 24 try:
- /orange/build/lib.linux-i686-2.6/Orange/testing/unit/tests/test_measures.py:
- 20
- 21
- 22: # TODO: Relevance, Cost
- 23
- 24 @datasets_driven(datasets=testing.CLASSIFICATION_DATASETS,
- /orange/build/lib.linux-i686-2.6/Orange/testing/unit/tests/test_tree.py:
- 8 from Orange.regression import tree as rtree
- 9 from Orange.feature import scoring
- 10: # TODO: test different split_constructors, descenders, measures, stop criteria...
- 11
- 12 @datasets_driven(datasets=testing.CLASSIFICATION_DATASETS)
- /orange/docs/extend-widgets/rst/OrangeWidgets.plot.rst:
- 14 OrangeWidgets.plot.owpoint
- 15 OrangeWidgets.plot.owlegend
- 16: .. OrangeWidgets.plot.owaxis TODO: add file
- 17
- /orange/docs/reference/rst/Orange.classification.tree.rst:
- 1397
- 1398 """
- 1399: TODO C++ aliases
- 1400
- 1401 SplitConstructor.discrete/continuous_split_constructor -> SplitConstructor.discrete
- /orange/docs/reference/rst/Orange.feature.descriptor.rst:
- 238 and can be used as a descriptor for attributes that contain arbitrary Python
- 239 values. Since this is an advanced topic, PythonVariables are described on a
- 240: separate page. !!TODO!!
- 241
- 242
- /orange/docs/reference/rst/Orange.feature.scoring.rst:
- 202 classification cost for approximately 0.083 per instance.
- 203
- 204: .. comment opposite error - is this term correct? TODO
- 205
- 206 .. index::
- /orange/docs/reference/rst/code/tree3.py:
- 4 # Category: modelling
- 5 # Uses: iris.tab
- 6: # Referenced: TODO
- 7
- 8 import Orange
- /orange/docs/reference/rst/code/tree_c45.py:
- 3 # Classes: C45Learner, C45Classifier
- 4 # Uses: iris
- 5: # Referenced: TODO
- 6
- 7 import Orange
- /orange/install-scripts/addon-pack/pack-addons.sh:
- 8 # first, so the contents must be a SVN checkout.
- 9 # The packing only occurs if the addon.txt has been changed!
- 10: # TODO: Pack the binary parts too!
- 11 #
- 12
- /orange/install-scripts/mac/bundle-build-hg.sh:
- 55 ./bundle-inject-pypi.sh distribute-0.6.24 http://pypi.python.org/packages/source/d/distribute/distribute-0.6.24.tar.gz $REPOS_DIR ${TMP_BUNDLE_DIR}/Orange.app
- 56
- 57: # TODO: from here on we could use easy_install to install pip and then use that
- 58 echo "Installing suds library"
- 59 echo "+++++++++++++++++++++++"
- /orange/install-scripts/mac/bundle-daily-build-hg.sh:
- 27
- 28
- 29: # TODO: Should be called only on a daily build server and not if building locally
- 30 /Users/ailabc/mount-dirs.sh
- 31
- /orange/install-scripts/mac/bundle-daily-build.sh:
- 171 fi
- 172
- 173: # TODO: Should be called only on a daily build server and not if building locally
- 174 /Users/ailabc/mount-dirs.sh
- 175
- ...
- 290 fi
- 291
- 292: # TODO: Should be called only on a daily build server and not if building locally
- 293 /Users/ailabc/mount-dirs.sh
- 294
- /orange/install-scripts/mac/fink-daily-build-packages.sh:
- 185 fink $FINK_ARGS cleanup --all
- 186
- 187: # TODO: Should be called only on a daily build server and not if building locally
- 188 /Users/ailabc/mount-dirs.sh
- 189
- /orange/install-scripts/mac/fink-daily-build.sh:
- 367 fink $FINK_ARGS cleanup --all
- 368
- 369: # TODO: Should be called only on a daily build server and not if building locally
- 370 /Users/ailabc/mount-dirs.sh
- 371
- /orange/install-scripts/mac/fink/matplotlib-py.info:
- 96 <<
- 97 License: OSI-Approved
- 98: DocFiles: README.txt license/*LICENSE* TODO INTERACTIVE INSTALL CHANGELOG KNOWN_BUGS
- 99 # API_CHANGES
- 100 Description: Pure python 2D plotting with a Matlab syntax
- /orange/install-scripts/mac/fink/orange-bioinformatics-gui-svn-py.info:
- 103 now run:
- 104
- 105: $PYTHON TODO/PATH/TO/SCRIPT.py
- 106 EOMSG
- 107 <<
- /orange/install-scripts/mac/fink/orange-gui-hg-py.info:
- 131
- 132 # Register dataset path
- 133: # TODO: this should be done by setup.py install and using global orangerc.cfg file
- 134 echo "datasetsPath=\"%p/share/doc/orange-svn-py%type_pkg[python]/datasets/\"" > %i/lib/python%type_raw[python]/site-packages/Orange/orng/orngConfiguration.py
- 135
- /orange/install-scripts/orngServer/orngServerFilesServer.py:
- 329 shutil.copyfileobj(data.file, fupl, 1024*8) #copy with buffer
- 330 fupl.close()
- 331: #print "transfer successful?" #TODO check this - MD5?
- 332
- 333: #TODO is there any difference in those files?
- 334
- 335 fupl = open(fi.fname + ".uploading", 'rb')
- /orange/source/orange/earth.cpp:
- 1 // This code is derived from code in the Rational Fortran file dmarss.r which is
- 2 // part of the R and S mda package by Hastie and Tibshirani.
- 3: // Comments containing "TODO" mark known issues
- 4 //
- 5 // See the R earth documentation for descriptions of the principal data structures.
- .
- 75 - Changed EvalSubsetsUsingXtX to return an error code if lin. dep. terms in bx
- 76
- 77: - TODO: Move global vars inside the functions using them (most are local)
- 78 */
- 79
- ..
- 702 // values of inverse(bx'bx). We assume that R is created from a full rank X.
- 703 //
- 704: // TODO This could be simplified
- 705
- 706 static void CalcDiags(
- ...
- 1558 RssDelta /= NewVarAdjust;
- 1559
- 1560: // TODO HastieTibs code had an extra test here, seems unnecessary
- 1561 // !(iCase > 0 && x_(ix0,iPred) == x_(xOrder_(iCase-1,iPred),iPred))
- 1562
- ....
- 1612
- 1613 // init bxOrth[,nTerms] and bxOrthMean[nTerms] for the candidate term
- 1614: // TODO look into *pIsNewForm handling here, it's confusing
- 1615
- 1616 InitBxOrthCol(bxOrth, bxOrthCenteredT, bxOrthMean, pIsNewForm,
- ....
- 1646 // This function now selects a predictor, and a knot for that predictor.
- 1647 //
- 1648: // TODO These functions have a ridiculous number of parameters, I know.
- 1649 //
- 1650: // TODO A note on the comparison against ALMOST_ZERO below:
- 1651 // It's not a clean solution but seems to work ok.
- 1652 // It was added after we saw different results on different
- ....
- 2159 // increment nTerms by 2 but don't set the flag in FullSet.
- 2160 //
- 2161: // TODO feature: add option to prescale x and y
- 2162
- 2163 static void ForwardPass(
- ....
- 2814 //-----------------------------------------------------------------------------
- 2815 // print a string representing the earth expresssion, one term per line
- 2816: // TODO spacing is not quite right and is overly complicated
- 2817
- 2818 #if STANDALONE
- ....
- 3070 }
- 3071
- 3072: // TODO: Check for classVar, assert all attributes are continuous
- 3073
- 3074 // num_preds = 1;
- ....
- 3212 std::string TEarthClassifier::format_earth(){
- 3213 FormatEarth(_best_set, _dirs, _cuts, _betas, num_preds, 1, num_terms, max_terms, 3, 0.0);
- 3214: // TODO: FormatEarth to a string.
- 3215 return "";
- 3216 }
- /orange/source/orange/hclust.cpp:
- 753 mapping.begin() + right_left.last);
- 754
- 755: // TODO: precompute the scores for m and k in an array and use a simpler
- 756 // comparison function
- 757 std::sort(m_ordered.begin(), m_ordered.end(), CompareByScores(M, left, u));
- ...
- 863 }
- 864 if (callback)
- 865: // TODO: count the number of already processed nodes.
- 866 callback->operator()(0.0, PHierarchicalCluster(&cluster));
- 867 }
- /orange/source/orange/logfit.cpp:
- 141 beta_se=mlnew TAttributedFloatList(enum_attributes);
- 142
- 143: //TODO: obstaja konstruktor, ki pretvori iz navadnega arraya?
- 144 for (i=0; i<input.k+1; i++) {
- 145 beta->push_back(O.beta[i]);
- /orange/source/orange/logistic.cpp:
- 29 {}
- 30
- 31: // TODO: najdi pametno mesto za naslednji dve funkciji
- 32 // compute waldZ statistic from beta and beta_se
- 33 PAttributedFloatList TLogRegLearner::computeWaldZ(PAttributedFloatList &beta, PAttributedFloatList &beta_se)
- ..
- 53 }
- 54 double p = exp(-0.5*zt);
- 55: // TODO: PI, kje najdes to konstano
- 56 p *= sqrt(2*zt/3.141592);
- 57
- 58 double t=p;
- 59 int a=3;
- 60: // TODO: poglej kaj je to 0.0000...1 ?
- 61 for (; t>0.0000000001*p; a=a+2) {
- 62 t*=zt/a;
- /orange/source/orange/logistic.hpp:
- 34 #include "transval.hpp"
- 35
- 36: // TODO: add other includings
- 37
- 38
- /orange/source/orangeom/graph_layout.cpp:
- 98 {
- 99 vector<int> neighbours;
- 100: /* network->getNeighbours(i, neighbours); TODO: FIX! */
- 101
- 102 QueueVertex *vertex = new QueueVertex();
- ...
- 665 links[0].push_back(nodes_map[u]);
- 666 links[1].push_back(nodes_map[v]);
- 667: weights.push_back(1); // TODO: compute weight
- 668 nLinks++;
- 669 }
- /orange/source/orangeom/network.cpp:
- 394 nodes[i]->parent->childs.erase(it);
- 395
- 396: // TODO: erase meta-nodes with 1 or 0 childs
- 397 }
- 398 }
- /orange/source/orangeqt/canvas3d.cpp:
- 287 {
- 288 //setToolTip(tooltip);
- 289: //TODO
- 290 }
- 291
- /orange/source/orangeqt/networkcurve.cpp:
- 508 {
- 509 m_arrows = arrows;
- 510: // TODO: Update the QGraphicsItem element, add arrows
- 511 }
- 512
- ...
- 549 if (m_show_component_distances)
- 550 {
- 551: // TODO: move code from Python to C++
- 552 }
- 553 }
- /orange/source/orangeqt/point.cpp:
- 389 QPixmap image(QSize(size, size));
- 390
- 391: // TODO: Create fils with actual images, preferably SVG so they are scalable
- 392 // image.load(filename);
- 393 return image;
- /orange/source/orangeqt/types.sip:
- 461 PyTuple_SET_ITEM(t, 2, PyFloat_FromDouble((double)(sipCpp->third)));
- 462
- 463: // TODO: any DECREF needed?
- 464
- 465 return t;
- ...
- 469 if (sipIsErr == NULL)
- 470 {
- 471: // TODO
- 472 return 1;
- 473 }
- 218 matches across 126 files
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