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OWImpute.py
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OWImpute.py
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import OWGUI
from OWWidget import *
NAME = "Impute"
DESCRIPTION = "Imputes missing values in the data table."
LONG_DESCRIPTION = ""
ICON = "icons/Impute.svg"
PRIORITY = 2130
AUTHOR = "Janez Demsar"
AUTHOR_EMAIL = "janez.demsar(@at@)fri.uni-lj.si"
INPUTS = [("Data", Orange.data.Table, "setData"),
("Learner for Imputation", orange.Learner, "setModel")]
OUTPUTS = [("Data", Orange.data.Table, ),
("Imputer", orange.ImputerConstructor, )]
class ImputeListItemDelegate(QItemDelegate):
def __init__(self, widget, parent = None):
QItemDelegate.__init__(self, parent)
self.widget = widget
def drawDisplay(self, painter, option, rect, text):
text = str(text)
meth, val = self.widget.methods.get(text, (0, None))
if meth:
if meth == 2:
ntext = self.widget.data.domain[text].varType == orange.VarTypes.Discrete and "major" or "avg"
elif meth < 6:
ntext = self.widget.indiShorts[meth]
elif meth:
attr = self.widget.data.domain[text]
if attr.varType == orange.VarTypes.Discrete:
if val < len(attr.values):
ntext = attr.values[val]
else:
ntext = "?"
else:
ntext = str(val)
rect.setWidth(self.widget.attrList.width())
QItemDelegate.drawDisplay(self, painter, option, rect, text + " -> " + ntext)
else:
QItemDelegate.drawDisplay(self, painter, option, rect, text)
#QItemDelegate.drawDisplay(self, painter, option, rect, text + " -> " + ntext)
class OWImpute(OWWidget):
settingsList = ["defaultMethod", "imputeClass", "selectedAttr", "autosend"]
contextHandlers = {"": PerfectDomainContextHandler("", ["methods"], matchValues = DomainContextHandler.MatchValuesAttributes, syncWithGlobal=False)}
indiShorts = ["", "leave", "avg", "model", "random", "remove", ""]
defaultMethods = ["Don't Impute", "Average/Most frequent", "Model-based imputer", "Random values", "Remove examples with missing values"]
def __init__(self,parent=None, signalManager = None, name = "Impute"):
OWWidget.__init__(self, parent, signalManager, name, wantMainArea = 0)
self.inputs = [("Data", ExampleTable, self.setData, Default),
("Learner for Imputation", orange.Learner, self.setModel)]
self.outputs = [("Data", ExampleTable),
("Imputer", orange.ImputerConstructor)]
self.attrIcons = self.createAttributeIconDict()
self.defaultMethod = 0
self.selectedAttr = 0
self.indiType = 0
self.imputeClass = 0
self.autosend = 1
self.methods = {}
self.dataChanged = False
self.model = self.data = None
self.indiValue = ""
self.indiValCom = 0
self.loadSettings()
bgTreat = OWGUI.radioButtonsInBox(self.controlArea, self, "defaultMethod", self.defaultMethods,
"Default imputation method", callback=self.sendIf,
addSpace=True)
self.indibox = OWGUI.widgetBox(self.controlArea, "Individual attribute settings", orientation="horizontal")#, addSpace=True)
attrListBox = OWGUI.widgetBox(self.indibox)
self.attrList = OWGUI.listBox(attrListBox, self, callback = self.individualSelected)
self.attrList.setMinimumWidth(220)
self.attrList.setItemDelegate(ImputeListItemDelegate(self, self.attrList))
indiMethBox = OWGUI.widgetBox(self.indibox)
indiMethBox.setFixedWidth(160)
self.indiButtons = OWGUI.radioButtonsInBox(indiMethBox, self, "indiType", ["Default (above)", "Don't impute", "Avg/Most frequent", "Model-based", "Random", "Remove examples", "Value"], 1, callback=self.indiMethodChanged)
self.indiValueCtrlBox = OWGUI.indentedBox(self.indiButtons)
self.indiValueLineEdit = OWGUI.lineEdit(self.indiValueCtrlBox, self, "indiValue", callback = self.lineEditChanged)
#self.indiValueLineEdit.hide()
valid = QDoubleValidator(self)
valid.setRange(-1e30, 1e30, 10)
self.indiValueLineEdit.setValidator(valid)
self.indiValueComboBox = OWGUI.comboBox(self.indiValueCtrlBox, self, "indiValCom", callback = self.valueComboChanged)
self.indiValueComboBox.hide()
OWGUI.rubber(indiMethBox)
self.btAllToDefault = OWGUI.button(indiMethBox, self, "Set All to Default", callback = self.allToDefault)
OWGUI.separator(self.controlArea)
box = OWGUI.widgetBox(self.controlArea, "Class Imputation")#, addSpace=True)
self.cbImputeClass = OWGUI.checkBox(box, self, "imputeClass", "Impute class values", callback=self.sendIf)
OWGUI.separator(self.controlArea)
snbox = OWGUI.widgetBox(self.controlArea, "Send data and imputer")
self.btApply = OWGUI.button(snbox, self, "Apply", callback=self.sendDataAndImputer, default=True)
OWGUI.checkBox(snbox, self, "autosend", "Send automatically", callback=self.enableAuto, disables = [(-1, self.btApply)])
self.individualSelected(self.selectedAttr)
self.btApply.setDisabled(self.autosend)
self.setBtAllToDefault()
self.resize(200,200)
def allToDefault(self):
self.methods = {}
self.attrList.reset()
self.setBtAllToDefault()
self.setIndiType()
self.sendIf()
def setBtAllToDefault(self):
self.btAllToDefault.setDisabled(not self.methods)
def setIndiType(self):
if self.data:
attr = self.data.domain[self.selectedAttr]
specific = self.methods.get(attr.name, False)
if specific:
self.indiType = specific[0]
if self.indiType == 6:
if attr.varType == orange.VarTypes.Discrete:
self.indiValCom = specific[1]
else:
self.indiValue = specific[1]
else:
self.indiType = 0
def individualSelected(self, i = -1):
if i == -1:
if self.attrList.selectedItems() != []:
i = self.attrList.row(self.attrList.selectedItems()[0])
else:
i = 0
if self.data:
self.selectedAttr = i
attr = self.data.domain[i]
attrName = attr.name
self.indiType = self.methods.get(attrName, (0, ""))[0]
else:
attr = None
if attr and attr.varType == orange.VarTypes.Discrete:
self.indiValueComboBox.clear()
self.indiValueComboBox.addItems(list(attr.values))
self.indiValCom = self.methods.get(attrName, (0, 0))[1] or 0
self.indiValueLineEdit.hide()
self.indiValueComboBox.show()
else:
if attr and self.methods.has_key(attrName):
self.indiValue = self.methods[attrName][1]
self.indiValueComboBox.hide()
self.indiValueLineEdit.show()
self.indiValueCtrlBox.update()
def indiMethodChanged(self):
if self.data:
attr = self.data.domain[self.selectedAttr]
attrName = attr.name
if self.indiType:
if self.indiType == 6:
if attr.varType == orange.VarTypes.Discrete:
self.methods[attrName] = 6, self.indiValCom
else:
self.methods[attrName] = 6, str(self.indiValue)
else:
self.methods[attrName] = self.indiType, None
else:
if self.methods.has_key(attrName):
del self.methods[attrName]
self.attrList.reset()
self.setBtAllToDefault()
self.sendIf()
def lineEditChanged(self):
if self.data:
self.indiType = 6
self.methods[self.data.domain[self.selectedAttr].name] = 6, str(self.indiValue)
self.attrList.reset()
self.setBtAllToDefault()
self.sendIf()
def valueComboChanged(self):
self.indiType = 6
self.methods[self.data.domain[self.selectedAttr].name] = 6, self.indiValCom
self.attrList.reset()
self.setBtAllToDefault()
self.sendIf()
def enableAuto(self):
if self.dataChanged:
self.sendDataAndImputer()
def setData(self,data):
self.closeContext()
self.methods = {}
if not data or not len(data.domain):
self.indibox.setDisabled(True)
self.data = None
self.send("Data", data)
self.attrList.clear()
else:
self.indibox.setDisabled(False)
if not self.data or data.domain != self.data.domain:
self.data = data
if not data.domain.classVar:
self.imputeClass = 0
self.cbImputeClass.setDisabled(True)
else:
self.cbImputeClass.setDisabled(False)
pass
self.attrList.clear()
for i, attr in enumerate(self.data.domain):
self.attrList.addItem(QListWidgetItem(self.attrIcons[attr.varType], attr.name))
if 0 <= self.selectedAttr < self.attrList.count():
self.attrList.setCurrentRow(self.selectedAttr)
else:
self.attrList.setCurrentRow(0)
self.selectedAttr = 0
self.openContext("", data)
self.setBtAllToDefault()
self.setIndiType()
self.sendIf()
def setModel(self, model):
self.model = model
self.sendIf()
class RemoverAndImputerConstructor:
def __init__(self, removerConstructor, imputerConstructor):
self.removerConstructor = removerConstructor
self.imputerConstructor = imputerConstructor
def __call__(self, data):
return lambda data2, remover=self.removerConstructor(data), imputer=self.imputerConstructor(data): imputer(data2 if isinstance(data2, orange.Example) else remover(data2))
class SelectDefined:
# This argument can be a list of attributes or a bool
# in which case it means 'onlyAttributes' (e.g. do not mind about the class)
def __init__(self, attributes):
self.attributes = attributes
def __call__(self, data):
f = orange.Filter_isDefined(domain = data.domain)
if isinstance(self.attributes, bool):
if self.attributes and data.domain.classVar:
f.check[data.domain.classVar] = False
else:
for attr in data.domain:
f.check[attr] = attr in self.attributes
return f
def constructImputer(self, *a):
if not self.methods:
if self.defaultMethod == 0:
self.imputer = lambda *x: (lambda x,w=0: x)
elif self.defaultMethod == 2:
model = self.model or orange.kNNLearner()
self.imputer = orange.ImputerConstructor_model(learnerDiscrete = model, learnerContinuous = model, imputeClass = self.imputeClass)
elif self.defaultMethod == 3:
self.imputer = orange.ImputerConstructor_random(imputeClass = self.imputeClass)
elif self.defaultMethod == 4:
self.imputer = self.SelectDefined(not self.imputeClass)
else:
self.imputer = orange.ImputerConstructor_average(imputeClass = self.imputeClass)
return
class AttrMajorityLearner:
def __init__(self, attr):
self.attr = attr
def __call__(self, examples, weight):
return orange.DefaultClassifier(orange.Distribution(self.attr, examples, weight).modus())
class AttrRandomLearner:
def __init__(self, attr):
self.attr = attr
def __call__(self, examples, weight):
if self.attr.varType == orange.VarTypes.Discrete:
probabilities = orange.Distribution(self.attr, examples, weight)
else:
basstat = orange.BasicAttrStat(self.attr, examples, weight)
probabilities = orange.GaussianDistribution(basstat.avg, basstat.dev)
return orange.RandomClassifier(classVar = self.attr, probabilities = probabilities)
class AttrModelLearner:
def __init__(self, attr, model):
self.attr = attr
self.model = model
def __call__(self, examples, weight):
newdata = orange.ExampleTable(orange.Domain([attr for attr in examples.domain.attributes if attr != self.attr] + [self.attr]), examples)
newdata = orange.Filter_hasClassValue(newdata)
return self.model(newdata, weight)
classVar = self.data.domain.classVar
imputeClass = self.imputeClass or classVar and self.methods.get(classVar.name, (0, None))[0]
imputerModels = []
missingValues = []
toRemove = []
usedModel = None
for attr in (self.data.domain if imputeClass else self.data.domain.attributes):
method, value = self.methods.get(attr.name, (0, None))
if not method:
method = self.defaultMethod + 1
if method == 1:
imputerModels.append(lambda e, wei=0: None)
elif method==2:
imputerModels.append(AttrMajorityLearner(attr))
elif method == 3:
if not usedModel:
usedModel = self.model or orange.kNNLearner()
imputerModels.append(AttrModelLearner(attr, usedModel))
elif method == 4:
imputerModels.append(AttrRandomLearner(attr))
elif method == 5:
toRemove.append(attr)
imputerModels.append(lambda e, wei=0: None)
elif method == 6:
if (attr.varType == orange.VarTypes.Discrete or value):
imputerModels.append(lambda e, v=0, attr=attr, value=value: orange.DefaultClassifier(attr, attr(value)))
else:
missingValues.append("'"+attr.name+"'")
imputerModels.append(AttrMajorityLearner(attr))
self.warning(0)
if missingValues:
if len(missingValues) <= 3:
msg = "The imputed values for some attributes (%s) are not specified." % ", ".join(missingValues)
else:
msg = "The imputed values for some attributes (%s, ...) are not specified." % ", ".join(missingValues[:3])
self.warning(0, msg + "\n"+"Averages and/or majority values are used instead.")
if classVar and not imputeClass:
imputerModels.append(lambda e, wei=0: None)
self.imputer = lambda ex, wei=0, ic=imputerModels: orange.Imputer_model(models=[i(ex, wei) for i in ic])
if toRemove:
remover = self.SelectDefined(toRemove)
self.imputer = self.RemoverAndImputerConstructor(remover, self.imputer)
def sendReport(self):
self.reportData(self.data, "Input data")
self.reportSettings("Imputed values",
[("Default method", self.defaultMethods[self.defaultMethod]),
("Impute class values", OWGUI.YesNo[self.imputeClass])])
if self.data:
attrs = []
eex = getattr(self, "imputedValues", None)
classVar = self.data.domain.classVar
imputeClass = self.imputeClass or classVar and self.methods.get(classVar.name, (0, None))[0]
for attr in (self.data.domain if imputeClass else self.data.domain.attributes):
method, value = self.methods.get(attr.name, (0, None))
if method == 6:
attrs.append((attr.name, "%s (%s)" % (attr(value), "set manually")))
elif eex and method != 3:
attrs.append((attr.name, str(eex[attr]) + (" (%s)" % self.defaultMethods[method-1] if method else "")))
elif method:
attrs.append((attr.name, self.defaultMethods[method-1]))
if attrs:
self.reportRaw("<br/>")
self.reportSettings("", attrs)
def sendIf(self):
if self.autosend:
self.sendDataAndImputer()
else:
self.dataChanged = True
def sendDataAndImputer(self):
self.error(0)
self.constructImputer()
self.send("Imputer", self.imputer)
if self.data:
if self.imputer:
try:
constructed = self.imputer(self.data)
data = constructed(self.data)
## meta-comment: is there a missing 'not' in the below comment?
# if the above fails, dataChanged should be set to False
self.imputedValues = constructed(orange.Example(self.data.domain))
self.dataChanged = False
except:
self.error(0, "Imputation failed; this is typically due to unsuitable model.\nIt can also happen with some imputation techniques if no values are defined.")
data = None
else:
data = None
self.send("Data", data)
else:
self.dataChanged = False
if __name__ == "__main__":
a = QApplication(sys.argv)
ow = OWImpute()
data = orange.ExampleTable(r'../../doc/datasets/imports-85')
ow.show()
ow.setData(data)
a.exec_()
ow.saveSettings()