def setupMeasurementsArea(self):
self.measurementsGroupBox = qt.QGroupBox("Measurements")
self.measurementsGroupBox.setLayout(qt.QGridLayout())
self.tableView = slicer.qMRMLTableView()
self.tableView.setMinimumHeight(150)
self.tableView.setMaximumHeight(150)
self.tableView.setSelectionBehavior(qt.QTableView.SelectRows)
if ModuleWidgetMixin.isQtVersionOlder():
self.tableView.horizontalHeader().setResizeMode(qt.QHeaderView.Stretch)
else:
self.tableView.horizontalHeader().setSectionResizeMode(qt.QHeaderView.Stretch)
self.fourUpTableView = None
self.segmentStatisticsConfigButton = self.createButton("Segment Statistics Parameters")
self.calculateMeasurementsButton = self.createButton("Calculate Measurements", enabled=False)
self.calculateAutomaticallyCheckbox = qt.QCheckBox("Auto Update")
self.calculateAutomaticallyCheckbox.checked = True
self.measurementsGroupBox.layout().addWidget(self.tableView, 0, 0, 1, 2)
self.measurementsGroupBox.layout().addWidget(self.segmentStatisticsConfigButton, 1, 0, 1, 2)
self.measurementsGroupBox.layout().addWidget(self.calculateMeasurementsButton, 2, 0)
self.measurementsGroupBox.layout().addWidget(self.calculateAutomaticallyCheckbox, 2, 1)
self.mainModuleWidgetLayout.addWidget(self.measurementsGroupBox)
def setupMeasurementsArea(self):
self.measurementsGroupBox = qt.QGroupBox("Measurements")
self.measurementsGroupBox.setLayout(qt.QGridLayout())
self.tableView = slicer.qMRMLTableView()
self.tableView.setMinimumHeight(150)
self.tableView.setMaximumHeight(150)
self.tableView.setSelectionBehavior(qt.QTableView.SelectRows)
if ModuleWidgetMixin.isQtVersionOlder():
self.tableView.horizontalHeader().setResizeMode(qt.QHeaderView.Stretch)
else:
self.tableView.horizontalHeader().setSectionResizeMode(qt.QHeaderView.Stretch)
self.fourUpTableView = None
self.segmentStatisticsConfigButton = self.createButton("Segment Statistics Parameters")
self.calculateMeasurementsButton = self.createButton("Calculate Measurements", enabled=False)
self.calculateAutomaticallyCheckbox = qt.QCheckBox("Auto Update")
self.calculateAutomaticallyCheckbox.checked = True
self.measurementsGroupBox.layout().addWidget(self.tableView, 0, 0, 1, 2)
self.measurementsGroupBox.layout().addWidget(self.segmentStatisticsConfigButton, 1, 0, 1, 2)
self.measurementsGroupBox.layout().addWidget(self.calculateMeasurementsButton, 2, 0)
self.measurementsGroupBox.layout().addWidget(self.calculateAutomaticallyCheckbox, 2, 1)
self.mainModuleWidgetLayout.addWidget(self.measurementsGroupBox)
def __init__(self, parent):
"""
Window that display the data
:param parent: CaseReportsWidget object
"""
super(CaseReportsWindow, self).__init__()
self.mainLayout = qt.QVBoxLayout(self)
self.setLayout(self.mainLayout)
self.resize(400, 300)
self.label = qt.QLabel("Data stored in the module: ")
self.label.setStyleSheet("margin: 10px 0 15px 0")
self.mainLayout.addWidget(self.label)
self.tableView = slicer.qMRMLTableView()
self.tableView.setColumnWidth(0, 125)
self.tableView.setMRMLTableNode(parent.logic.tableNode)
self.tableView.setFirstRowLocked(True) # First row will be headers
self.tableView.setSortingEnabled(True)
self.tableView.setSizePolicy(qt.QSizePolicy.Expanding,
qt.QSizePolicy.Expanding)
self.mainLayout.addWidget(self.tableView)
self.expandRowsButton = ctk.ctkPushButton()
self.expandRowsButton.text = "Expand rows"
self.expandRowsButton.toolTip = "Change the height of the rows to show/hide all the multiline data"
self.expandRowsButton.setFixedWidth(150)
self.expandRowsButton.setIcon(
qt.QIcon("{0}/reload.png".format(SlicerUtil.CIP_ICON_DIR)))
self.expandRowsButton.setIconSize(qt.QSize(24, 24))
self.mainLayout.addWidget(self.expandRowsButton)
self.exportButton = ctk.ctkPushButton()
self.exportButton.text = "Export"
self.exportButton.toolTip = "Export to a CVS file"
self.exportButton.setFixedWidth(150)
self.exportButton.setIcon(
qt.QIcon("{0}/export-csv.png".format(SlicerUtil.CIP_ICON_DIR)))
self.exportButton.setIconSize(qt.QSize(24, 24))
self.mainLayout.addWidget(self.exportButton)
self.removeButton = ctk.ctkPushButton()
self.removeButton.text = "Clean"
self.removeButton.setIcon(
qt.QIcon("{0}/delete.png".format(SlicerUtil.CIP_ICON_DIR)))
self.removeButton.setIconSize(qt.QSize(24, 24))
self.removeButton.setFixedWidth(150)
self.mainLayout.addWidget(self.removeButton)
self.expandRowsButton.connect('clicked()', parent.onExpandRows)
self.exportButton.connect('clicked()', parent.onExport)
self.removeButton.connect('clicked()', parent.onRemoveStoredData)
def setup(self):
self.CsvInputGroupBox = qt.QGroupBox('CSV input for local files')
CsvInputLayout = qt.QFormLayout(self.CsvInputGroupBox)
#
# Input CSV Path
#
self.batchTableSelector = slicer.qMRMLNodeComboBox()
self.batchTableSelector.nodeTypes = ['vtkMRMLTableNode']
self.batchTableSelector.addEnabled = True
self.batchTableSelector.selectNodeUponCreation = True
self.batchTableSelector.renameEnabled = True
self.batchTableSelector.removeEnabled = True
self.batchTableSelector.noneEnabled = False
self.batchTableSelector.setMRMLScene(slicer.mrmlScene)
self.batchTableSelector.toolTip = 'Select the table representing the cases to process.'
CsvInputLayout.addRow(self.batchTableSelector)
self.batchTableView = slicer.qMRMLTableView()
CsvInputLayout.addRow(self.batchTableView)
self.batchTableView.show()
#
# Parameters Area
#
self.parametersCollapsibleButton = ctk.ctkCollapsibleButton()
self.parametersCollapsibleButton.text = 'Parameters'
CsvInputLayout.addWidget(self.parametersCollapsibleButton)
# Layout within the dummy collapsible button
parametersFormLayout = qt.QFormLayout(self.parametersCollapsibleButton)
#
# Input parameters GroupBox
#
self.inputParametersGroupBox = qt.QGroupBox('Input parameters')
parametersFormLayout.addRow(self.inputParametersGroupBox)
inputParametersFormLayout = qt.QFormLayout(self.inputParametersGroupBox)
#
# Root Path
#
self.rootSelector = qt.QLineEdit()
self.rootSelector.text = 'path'
self.rootSelector.toolTip = 'Location of the root directory to load from, or the column name specifying said ' \
'directory in the input CSV'
inputParametersFormLayout.addRow('Root Column', self.rootSelector)
#
# Image Path
#
self.imageSelector = qt.QLineEdit()
self.imageSelector.text = 'image'
self.imageSelector.toolTip = 'Name of the column specifying main image files in input CSV'
inputParametersFormLayout.addRow('Image Column', self.imageSelector)
#
# Mask Path
#
self.maskSelector = qt.QLineEdit()
self.maskSelector.text = 'mask'
self.maskSelector.toolTip = 'Name of the column specifying main mask files in input CSV'
inputParametersFormLayout.addRow('Mask Column', self.maskSelector)
#
# Additional images
#
self.addImsSelector = qt.QLineEdit()
self.addImsSelector.text = ''
self.addImsSelector.toolTip = 'Comma separated names of the columns specifying additional image files in input CSV'
inputParametersFormLayout.addRow('Additional images Column', self.addImsSelector)
#
# Additional masks
#
self.addMasksSelector = qt.QLineEdit()
self.addMasksSelector.text = ''
self.addMasksSelector.toolTip = 'Comma separated names of the columns specifying additional mask files in input CSV'
inputParametersFormLayout.addRow('Additional masks Column', self.addMasksSelector)
#
# Connect Event Handlers
#
self.batchTableSelector.connect('nodeActivated(vtkMRMLNode*)', self.onChangeTable)
self.imageSelector.connect('textEdited(QString)', self.onChangeImageColumn)
return self.CsvInputGroupBox
def setup(self):
self.CsvInputGroupBox = qt.QGroupBox('CSV input for local files')
CsvInputLayout = qt.QFormLayout(self.CsvInputGroupBox)
#
# Input CSV Path
#
self.batchTableSelector = slicer.qMRMLNodeComboBox()
self.batchTableSelector.nodeTypes = ['vtkMRMLTableNode']
self.batchTableSelector.addEnabled = True
self.batchTableSelector.selectNodeUponCreation = True
self.batchTableSelector.renameEnabled = True
self.batchTableSelector.removeEnabled = True
self.batchTableSelector.noneEnabled = False
self.batchTableSelector.setMRMLScene(slicer.mrmlScene)
self.batchTableSelector.toolTip = 'Select the table representing the cases to process.'
CsvInputLayout.addRow(self.batchTableSelector)
self.batchTableView = slicer.qMRMLTableView()
CsvInputLayout.addRow(self.batchTableView)
self.batchTableView.show()
#
# Parameters Area
#
self.parametersCollapsibleButton = ctk.ctkCollapsibleButton()
self.parametersCollapsibleButton.text = 'Parameters'
CsvInputLayout.addWidget(self.parametersCollapsibleButton)
# Layout within the dummy collapsible button
parametersFormLayout = qt.QFormLayout(self.parametersCollapsibleButton)
#
# Input parameters GroupBox
#
self.inputParametersGroupBox = qt.QGroupBox('Input parameters')
parametersFormLayout.addRow(self.inputParametersGroupBox)
inputParametersFormLayout = qt.QFormLayout(self.inputParametersGroupBox)
#
# Root Path
#
self.rootSelector = qt.QLineEdit()
self.rootSelector.text = 'path'
self.rootSelector.toolTip = 'Location of the root directory to load from, or the column name specifying said ' \
'directory in the input CSV'
inputParametersFormLayout.addRow('Root Column', self.rootSelector)
#
# Image Path
#
self.imageSelector = qt.QLineEdit()
self.imageSelector.text = 'image'
self.imageSelector.toolTip = 'Name of the column specifying main image files in input CSV'
inputParametersFormLayout.addRow('Image Column', self.imageSelector)
#
# Mask Path
#
self.maskSelector = qt.QLineEdit()
self.maskSelector.text = 'mask'
self.maskSelector.toolTip = 'Name of the column specifying main mask files in input CSV'
inputParametersFormLayout.addRow('Mask Column', self.maskSelector)
#
# Additional images
#
self.addImsSelector = qt.QLineEdit()
self.addImsSelector.text = ''
self.addImsSelector.toolTip = 'Comma separated names of the columns specifying additional image files in input CSV'
inputParametersFormLayout.addRow('Additional images Column(s)', self.addImsSelector)
#
# Additional masks
#
self.addMasksSelector = qt.QLineEdit()
self.addMasksSelector.text = ''
self.addMasksSelector.toolTip = 'Comma separated names of the columns specifying additional mask files in input CSV'
inputParametersFormLayout.addRow('Additional masks Column(s)', self.addMasksSelector)
#
# Connect Event Handlers
#
self.batchTableSelector.connect('nodeActivated(vtkMRMLNode*)', self.onChangeTable)
self.imageSelector.connect('textEdited(QString)', self.onChangeImageColumn)
self.segmentationParametersGroupBox = qt.QGroupBox('Mask interaction parameters')
parametersFormLayout.addRow(self.segmentationParametersGroupBox)
segmentationParametersFormLayout = qt.QFormLayout(self.segmentationParametersGroupBox)
#
# Auto-redirect to SegmentEditor
#
self.chkAutoRedirect = qt.QCheckBox()
self.chkAutoRedirect.checked = False
self.chkAutoRedirect.toolTip = 'Automatically switch module to "SegmentEditor" when each case is loaded'
segmentationParametersFormLayout.addRow('Go to Segment Editor', self.chkAutoRedirect)
#
# Save masks
#
self.chkSaveMasks = qt.QCheckBox()
self.chkSaveMasks.checked = False
self.chkSaveMasks.toolTip = 'save all initially loaded masks when proceeding to next case'
segmentationParametersFormLayout.addRow('Save loaded masks', self.chkSaveMasks)
#
# Save new masks
#
self.chkSaveNewMasks = qt.QCheckBox()
self.chkSaveNewMasks.checked = True
self.chkSaveNewMasks.toolTip = 'save all newly generated masks when proceeding to next case'
segmentationParametersFormLayout.addRow('Save new masks', self.chkSaveNewMasks)
return self.CsvInputGroupBox
def setup(self):
self.CsvInputGroupBox = qt.QGroupBox('CSV input for local files')
CsvInputLayout = qt.QFormLayout(self.CsvInputGroupBox)
#
# Input CSV Path
#
self.batchTableSelector = slicer.qMRMLNodeComboBox()
self.batchTableSelector.nodeTypes = ['vtkMRMLTableNode']
self.batchTableSelector.addEnabled = True
self.batchTableSelector.selectNodeUponCreation = True
self.batchTableSelector.renameEnabled = True
self.batchTableSelector.removeEnabled = True
self.batchTableSelector.noneEnabled = False
self.batchTableSelector.setMRMLScene(slicer.mrmlScene)
self.batchTableSelector.toolTip = 'Select the table representing the cases to process.'
CsvInputLayout.addRow(self.batchTableSelector)
#
# Parameters Area
#
self.parametersCollapsibleButton = ctk.ctkCollapsibleButton()
self.parametersCollapsibleButton.text = 'Table view and attribute properties'
CsvInputLayout.addWidget(self.parametersCollapsibleButton)
# Layout within the dummy collapsible button
parametersFormLayout = qt.QFormLayout(self.parametersCollapsibleButton)
self.batchTableView = slicer.qMRMLTableView()
parametersFormLayout.addRow(self.batchTableView)
self.batchTableView.show()
#
# Input parameters GroupBox
#
self.inputParametersGroupBox = qt.QGroupBox('Input parameters')
parametersFormLayout.addRow(self.inputParametersGroupBox)
inputParametersFormLayout = qt.QFormLayout(self.inputParametersGroupBox)
#
# Root Path
#
self.rootSelector = qt.QLineEdit()
self.rootSelector.text = 'path'
self.rootSelector.toolTip = 'Location of the root directory to load from, or the column name specifying said ' \
'directory in the input CSV'
inputParametersFormLayout.addRow('Root Column', self.rootSelector)
#
# Image Path
#
self.imageSelector = qt.QLineEdit()
self.imageSelector.text = 'image'
self.imageSelector.toolTip = 'Name of the column specifying main image files in input CSV'
inputParametersFormLayout.addRow('Image Column', self.imageSelector)
#
# GroundTruth masks
#
self.inputGTMaskColumnNames = qt.QLineEdit()
self.inputGTMaskColumnNames.text = 'gt_0,gt_1,gt_2'
self.inputGTMaskColumnNames.toolTip = 'Comma separated names of the columns specifying groundtruth mask files in input CSV'
inputParametersFormLayout.addRow('Groundtruth masks Column(s)', self.inputGTMaskColumnNames)
#
# Predicted masks
#
self.inputPredMaskColumnNames = qt.QLineEdit()
self.inputPredMaskColumnNames.text = 'pred_0,pred_1,pred_2'
self.inputPredMaskColumnNames.toolTip = 'Comma separated names of the columns specifying predicted mask files in input CSV'
inputParametersFormLayout.addRow('Predicted masks Column(s)', self.inputPredMaskColumnNames)
self.iterationParametersGroupBox = qt.QGroupBox('Iteration parameters')
parametersFormLayout.addRow(self.iterationParametersGroupBox)
iterationParametersFormLayout = qt.QFormLayout(self.iterationParametersGroupBox)
#
# Cache Cases
#
self.cacheCases = qt.QCheckBox()
self.cacheCases.checked = True
self.cacheCases.toolTip = 'Cache cases for faster reload'
iterationParametersFormLayout.addRow('Cache cases', self.cacheCases)
#
# Preload Cases
#
self.preloadCases = qt.QCheckBox()
self.preloadCases.checked = False
self.preloadCases.toolTip = 'Preloading all cases'
iterationParametersFormLayout.addRow('Preload cases', self.preloadCases)
#
# Output Case Table Directory
#
self.tableOutputDirectory = ctk.ctkPathLineEdit()
self.tableOutputDirectory.filters = ctk.ctkPathLineEdit.Dirs
iterationParametersFormLayout.addRow('Case tables output dir', self.tableOutputDirectory)
#
# Progressbar
#
self.progressBar = qt.QProgressBar()
self.progressBar.setFormat("%v/%m")
self.progressBar.visible = False
iterationParametersFormLayout.addWidget(self.progressBar)
#
# Connect Event Handlers
#
self.batchTableSelector.connect('nodeActivated(vtkMRMLNode*)', self.onChangeTable)
self.imageSelector.connect('textEdited(QString)', self.onChangeImageColumn)
self.preloadCases.stateChanged.connect(self.onPreloadCasesChanged)
return self.CsvInputGroupBox
def setup(self):
ScriptedLoadableModuleWidget.setup(self)
#
# Parameter Combobox
#
self.parameterSelector = slicer.qMRMLNodeComboBox()
self.parameterLabel = qt.QLabel(" Parameter set: ")
self.parameterSelector.nodeTypes = ["vtkMRMLScriptedModuleNode"]
self.parameterSelector.removeEnabled = False
self.parameterSelector.showHidden = True
self.parameterSelector.setMRMLScene( slicer.mrmlScene )
self.parameterLayout = qt.QHBoxLayout()
self.parameterLayout.addWidget(self.parameterLabel)
self.parameterLayout.addWidget(self.parameterSelector)
self.layout.addLayout(self.parameterLayout)
#
# Input Area
#
inputCollapsibleButton = ctk.ctkCollapsibleButton()
inputCollapsibleButton.text = "Input"
self.layout.addWidget(inputCollapsibleButton)
# Layout within the dummy collapsible button
inputFormLayout = qt.QFormLayout(inputCollapsibleButton)
#
# Input first DVH selector
#
self.dvh1Selector = slicer.qMRMLNodeComboBox()
self.dvh1Selector.nodeTypes = ["vtkMRMLTableNode"]
self.dvh1Selector.addAttribute("vtkMRMLTableNode", "DoseVolumeHistogram.DVH")
self.dvh1Selector.removeEnabled = False
self.dvh1Selector.setMRMLScene( slicer.mrmlScene )
inputFormLayout.addRow("DVH 1: ", self.dvh1Selector)
#
# Input second DVH selector
#
self.dvh2Selector = slicer.qMRMLNodeComboBox()
self.dvh2Selector.nodeTypes = ["vtkMRMLTableNode"]
self.dvh1Selector.addAttribute("vtkMRMLTableNode", "DoseVolumeHistogram.DVH")
self.dvh2Selector.removeEnabled = False
self.dvh2Selector.setMRMLScene( slicer.mrmlScene )
inputFormLayout.addRow("DVH 2: ", self.dvh2Selector)
#
# Input the dose volume
#
self.doseVolumeSelector = slicer.qMRMLNodeComboBox()
self.doseVolumeSelector.nodeTypes = ["vtkMRMLScalarVolumeNode"]
self.doseVolumeSelector.addAttribute("vtkMRMLScalarVolumeNode", "DicomRtImport.DoseVolume")
self.doseVolumeSelector.removeEnabled = False
self.doseVolumeSelector.setMRMLScene( slicer.mrmlScene )
inputFormLayout.addRow("Dose Volume: ", self.doseVolumeSelector)
#
# Dose volume only check box
#
self.showDoseVolumeOnlyCheckbox = qt.QCheckBox("Show dose volume only")
self.showDoseVolumeOnlyCheckbox.setChecked(2)
inputFormLayout.addWidget(self.showDoseVolumeOnlyCheckbox)
#
# Volume difference criterion spin box
#
self.volumeDifferenceSpinbox = qt.QDoubleSpinBox()
self.volumeDifferenceSpinbox.setValue(1.0)
self.volumeDifferenceSpinbox.setDecimals(1)
self.volumeDifferenceSpinbox.setSingleStep(0.1)
inputFormLayout.addRow("Volume difference criterion: ", self.volumeDifferenceSpinbox)
#
# Dose to agreement criterion spin box
#
self.doseToAgreementSpinbox = qt.QDoubleSpinBox()
self.doseToAgreementSpinbox.setValue(1.0)
self.doseToAgreementSpinbox.setDecimals(1)
self.doseToAgreementSpinbox.setSingleStep(0.1)
inputFormLayout.addRow("Dose to agreement criterion: ", self.doseToAgreementSpinbox)
#
# Compute button
#
self.computeButton = qt.QPushButton("Compute")
self.computeButtonLayout = qt.QVBoxLayout()
self.computeButtonLayout.addStrut(100)
self.computeButtonLayout.setAlignment(2)
self.computeButtonLayout.addWidget(self.computeButton)
self.computeButtonFont = qt.QFont()
self.computeButtonFont.setBold(True)
self.computeButton.setFont(self.computeButtonFont)
inputFormLayout.addRow(self.computeButtonLayout)
#
# Output Area
#
outputCollapsibleButton = ctk.ctkCollapsibleButton()
outputCollapsibleButton.text = "Output"
self.layout.addWidget(outputCollapsibleButton)
# Layout within the dummy collapsible button
outputFormLayout = qt.QFormLayout(outputCollapsibleButton)
self.agreementAcceptanceOutput = qt.QLineEdit()
self.agreementAcceptanceOutput.setReadOnly(True)
outputFormLayout.addRow("Agreement acceptance %: ", self.agreementAcceptanceOutput)
#
# Visualize Area
#
visualizeCollapsibleButton = ctk.ctkCollapsibleButton()
visualizeCollapsibleButton.text = "Visualize"
sizePolicy = qt.QSizePolicy()
sizePolicy.setHorizontalPolicy(qt.QSizePolicy.Preferred)
sizePolicy.setVerticalPolicy(qt.QSizePolicy.Expanding)
visualizeCollapsibleButton.setSizePolicy(sizePolicy)
self.layout.addWidget(visualizeCollapsibleButton)
# Layout within the dummy collapsible button
visualizeLayout = qt.QVBoxLayout(visualizeCollapsibleButton)
#
# DVH Table
#
self.dvhTable = slicer.qMRMLTableView()
self.dvhTable.setMRMLScene(slicer.mrmlScene)
self.dvhTable.setSelectionMode(qt.QAbstractItemView.NoSelection)
self.dvhTable.setSizePolicy(sizePolicy)
visualizeLayout.addWidget(self.dvhTable)
# Connections
self.parameterSelector.connect('nodeAddedByUser(vtkMRMLNode*)', self.parameterNodeCreated)
self.parameterSelector.connect('currentNodeChanged(vtkMRMLNode*)', self.updateWidgetFromMRML)
self.showDoseVolumeOnlyCheckbox.connect('stateChanged(int)', self.showDoseVolumesOnlyCheckboxChanged)
self.dvh1Selector.connect("currentNodeChanged(vtkMRMLNode*)", self.dvh1SelectorChanged)
self.dvh2Selector.connect("currentNodeChanged(vtkMRMLNode*)", self.dvh2SelectorChanged)
self.doseVolumeSelector.connect("currentNodeChanged(vtkMRMLNode*)", self.doseVolumeSelectorChanged)
self.volumeDifferenceSpinbox.connect("valueChanged(double)", self.volumeDifferenceSpinboxChanged)
self.doseToAgreementSpinbox.connect("valueChanged(double)", self.doseToAgreementSpinboxChanged)
self.computeButton.connect('clicked(bool)', self.onComputeButton)
self.updateWidgetFromMRML()
def setup(self):
ScriptedLoadableModuleWidget.setup(self)
#
# Parameter Combobox
#
self.parameterSelector = slicer.qMRMLNodeComboBox()
self.parameterLabel = qt.QLabel(" Parameter set: ")
self.parameterSelector.nodeTypes = ["vtkMRMLScriptedModuleNode"]
self.parameterSelector.removeEnabled = False
self.parameterSelector.showHidden = True
self.parameterSelector.setMRMLScene( slicer.mrmlScene )
self.parameterLayout = qt.QHBoxLayout()
self.parameterLayout.addWidget(self.parameterLabel)
self.parameterLayout.addWidget(self.parameterSelector)
self.layout.addLayout(self.parameterLayout)
#
# Input Area
#
inputCollapsibleButton = ctk.ctkCollapsibleButton()
inputCollapsibleButton.text = "Input"
self.layout.addWidget(inputCollapsibleButton)
# Layout within the dummy collapsible button
inputFormLayout = qt.QFormLayout(inputCollapsibleButton)
#
# Input first DVH selector
#
self.dvh1Selector = slicer.qMRMLNodeComboBox()
self.dvh1Selector.nodeTypes = ["vtkMRMLDoubleArrayNode"]
self.dvh1Selector.removeEnabled = False
self.dvh1Selector.setMRMLScene( slicer.mrmlScene )
inputFormLayout.addRow("DVH 1: ", self.dvh1Selector)
#
# Input second DVH selector
#
self.dvh2Selector = slicer.qMRMLNodeComboBox()
self.dvh2Selector.nodeTypes = ["vtkMRMLDoubleArrayNode"]
self.dvh2Selector.removeEnabled = False
self.dvh2Selector.setMRMLScene( slicer.mrmlScene )
inputFormLayout.addRow("DVH 2: ", self.dvh2Selector)
#
# Input the dose volume
#
self.doseVolumeSelector = slicer.qMRMLNodeComboBox()
self.doseVolumeSelector.nodeTypes = ["vtkMRMLScalarVolumeNode"]
self.doseVolumeSelector.addAttribute("vtkMRMLScalarVolumeNode", "DicomRtImport.DoseVolume")
self.doseVolumeSelector.removeEnabled = False
self.doseVolumeSelector.setMRMLScene( slicer.mrmlScene )
inputFormLayout.addRow("Dose Volume: ", self.doseVolumeSelector)
#
# Dose volume only check box
#
self.showDoseVolumeOnlyCheckbox = qt.QCheckBox("Show dose volume only")
self.showDoseVolumeOnlyCheckbox.setChecked(2)
inputFormLayout.addWidget(self.showDoseVolumeOnlyCheckbox)
#
# Volume difference criterion spin box
#
self.volumeDifferenceSpinbox = qt.QDoubleSpinBox()
self.volumeDifferenceSpinbox.setValue(1.0)
self.volumeDifferenceSpinbox.setDecimals(1)
self.volumeDifferenceSpinbox.setSingleStep(0.1)
inputFormLayout.addRow("Volume difference criterion: ", self.volumeDifferenceSpinbox)
#
# Dose to agreement criterion spin box
#
self.doseToAgreementSpinbox = qt.QDoubleSpinBox()
self.doseToAgreementSpinbox.setValue(1.0)
self.doseToAgreementSpinbox.setDecimals(1)
self.doseToAgreementSpinbox.setSingleStep(0.1)
inputFormLayout.addRow("Dose to agreement criterion: ", self.doseToAgreementSpinbox)
#
# Compute button
#
self.computeButton = qt.QPushButton("Compute")
self.computeButtonLayout = qt.QVBoxLayout()
self.computeButtonLayout.addStrut(100)
self.computeButtonLayout.setAlignment(2)
self.computeButtonLayout.addWidget(self.computeButton)
self.computeButtonFont = qt.QFont()
self.computeButtonFont.setBold(True)
self.computeButton.setFont(self.computeButtonFont)
inputFormLayout.addRow(self.computeButtonLayout)
#
# Output Area
#
outputCollapsibleButton = ctk.ctkCollapsibleButton()
outputCollapsibleButton.text = "Output"
self.layout.addWidget(outputCollapsibleButton)
# Layout within the dummy collapsible button
outputFormLayout = qt.QFormLayout(outputCollapsibleButton)
self.agreementAcceptanceOutput = qt.QLineEdit()
self.agreementAcceptanceOutput.setReadOnly(True)
outputFormLayout.addRow("Agreement acceptance %: ", self.agreementAcceptanceOutput)
#
# Visualize Area
#
visualizeCollapsibleButton = ctk.ctkCollapsibleButton()
visualizeCollapsibleButton.text = "Visualize"
sizePolicy = qt.QSizePolicy()
sizePolicy.setHorizontalPolicy(qt.QSizePolicy.Preferred)
sizePolicy.setVerticalPolicy(qt.QSizePolicy.Expanding)
visualizeCollapsibleButton.setSizePolicy(sizePolicy)
self.layout.addWidget(visualizeCollapsibleButton)
# Layout within the dummy collapsible button
visualizeLayout = qt.QVBoxLayout(visualizeCollapsibleButton)
#
# DVH Table
#
self.dvhTable = slicer.qMRMLTableView()
self.dvhTable.setMRMLScene(slicer.mrmlScene)
self.dvhTable.setSelectionMode(qt.QAbstractItemView.NoSelection)
self.dvhTable.setSizePolicy(sizePolicy)
visualizeLayout.addWidget(self.dvhTable)
# Connections
self.parameterSelector.connect('nodeAddedByUser(vtkMRMLNode*)', self.parameterNodeCreated)
self.parameterSelector.connect('currentNodeChanged(vtkMRMLNode*)', self.updateWidgetFromMRML)
self.showDoseVolumeOnlyCheckbox.connect('stateChanged(int)', self.showDoseVolumesOnlyCheckboxChanged)
self.dvh1Selector.connect("currentNodeChanged(vtkMRMLNode*)", self.dvh1SelectorChanged)
self.dvh2Selector.connect("currentNodeChanged(vtkMRMLNode*)", self.dvh2SelectorChanged)
self.doseVolumeSelector.connect("currentNodeChanged(vtkMRMLNode*)", self.doseVolumeSelectorChanged)
self.volumeDifferenceSpinbox.connect("valueChanged(double)", self.volumeDifferenceSpinboxChanged)
self.doseToAgreementSpinbox.connect("valueChanged(double)", self.doseToAgreementSpinboxChanged)
self.computeButton.connect('clicked(bool)', self.onComputeButton)
self.updateWidgetFromMRML()
def setup(self):
ScriptedLoadableModuleWidget.setup(self)
self.logic = ExtensionStatsLogic()
self.logic.setStatusCallback(self.setStatusText)
self.queryInProgress = False
# Instantiate and connect widgets ...
#
# Parameters Area
#
parametersCollapsibleButton = ctk.ctkCollapsibleButton()
parametersCollapsibleButton.text = "Parameters"
self.layout.addWidget(parametersCollapsibleButton)
parametersFormLayout = qt.QFormLayout(parametersCollapsibleButton)
extensionNameBox = qt.QHBoxLayout()
self.extensionNameEdit = qt.QLineEdit()
self.extensionNameEdit.setText('')
extensionNameBox.addWidget(self.extensionNameEdit)
self.extensionNameAllButton = qt.QPushButton()
self.extensionNameAllButton.text = "all"
self.extensionNameAllButton.toolTip = "Get statistics for all extensions"
extensionNameBox.addWidget(self.extensionNameAllButton)
self.populateExtensionNameEdit()
parametersFormLayout.addRow("Extension name: ", extensionNameBox)
self.applyButton = qt.QPushButton("Get download statistics")
self.applyButton.toolTip = "Get download statistics"
parametersFormLayout.addRow(self.applyButton)
self.statusText = qt.QLabel()
parametersFormLayout.addRow("Status:", self.statusText)
# Stats table
self.statsTableWidget = slicer.qMRMLTableView()
self.statsTableWidget.setMRMLScene(slicer.mrmlScene)
parametersFormLayout.addRow("Statistics:", self.statsTableWidget)
policy = qt.QSizePolicy()
policy.setVerticalStretch(1)
policy.setHorizontalPolicy(qt.QSizePolicy.Expanding)
policy.setVerticalPolicy(qt.QSizePolicy.Expanding)
self.statsTableWidget.setSizePolicy(policy)
self.statsTableNode = slicer.vtkMRMLTableNode()
self.statsTableNode.SetName('ExtensionStats')
self.statsTableNode.SetUseColumnNameAsColumnHeader(True)
self.statsTableNode.SetUseFirstColumnAsRowHeader(True)
slicer.mrmlScene.AddNode(self.statsTableNode)
self.statsTableWidget.setMRMLTableNode(self.statsTableNode)
# Copy to clipboard button
self.copyToClipboardButton = qt.QPushButton("Copy table to clipboard")
parametersFormLayout.addRow('', self.copyToClipboardButton)
# connections
self.extensionNameAllButton.connect('clicked()', self.populateExtensionNameEdit)
self.applyButton.connect('clicked(bool)', self.onApplyButton)
self.copyToClipboardButton.connect('clicked()', self.copyTableToClipboard)
def setup(self):
ScriptedLoadableModuleWidget.setup(self)
#Set Two Over Two View
layoutManagerApp = slicer.app.layoutManager()
layoutManagerApp.setLayout(
slicer.vtkMRMLLayoutNode.SlicerLayoutTwoOverTwoView)
# Setup a logger for the extension log messages
self.logger = logging.getLogger('SlicerCaseIterator')
# Instantiate some variables used during iteration
self.csv_dir = None # Directory containing the file specifying the cases, needed when using relative paths
self.tableNode = None
self.caseColumns = None # Dictionary holding the specified (and found) columns from the batchTable
self.currentCase = None # Represents the currently loaded case
self.caseCount = 0 # Counter equalling the total number of cases
self.currentIdx = -1 # Current case index (starts at 0 for fist case, -1 means nothing loaded)
# These variables hold connections to other parts of Slicer, such as registered keyboard shortcuts and
# Event observers
self.shortcuts = []
self.observers = []
# Instantiate and connect widgets ...
#
# Select and Load input data section
#
self.inputDataCollapsibleButton = ctk.ctkCollapsibleButton()
self.inputDataCollapsibleButton.text = 'Select and Load case data'
self.layout.addWidget(self.inputDataCollapsibleButton)
inputDataFormLayout = qt.QFormLayout(self.inputDataCollapsibleButton)
#
# Input CSV Path
#
self.inputPathSelector = ctk.ctkPathLineEdit()
self.inputPathSelector.toolTip = 'Location of the CSV file containing the cases to process'
inputDataFormLayout.addRow('Input CSV path', self.inputPathSelector)
self.loadBatchButton = qt.QPushButton('Load Input Data')
self.loadBatchButton.enabled = False
self.loadBatchButton.toolTip = 'Load the select file into the input Table'
inputDataFormLayout.addRow(self.loadBatchButton)
self.batchTableSelector = slicer.qMRMLNodeComboBox()
self.batchTableSelector.nodeTypes = ['vtkMRMLTableNode']
self.batchTableSelector.addEnabled = True
self.batchTableSelector.selectNodeUponCreation = True
self.batchTableSelector.renameEnabled = True
self.batchTableSelector.removeEnabled = True
self.batchTableSelector.noneEnabled = False
self.batchTableSelector.setMRMLScene(slicer.mrmlScene)
self.batchTableSelector.toolTip = 'Select the table representing the cases to process.'
inputDataFormLayout.addRow(self.batchTableSelector)
self.batchTableView = slicer.qMRMLTableView()
inputDataFormLayout.addRow(self.batchTableView)
self.batchTableView.show()
#
# Parameters Area
#
self.parametersCollapsibleButton = ctk.ctkCollapsibleButton()
self.parametersCollapsibleButton.text = 'Parameters'
self.layout.addWidget(self.parametersCollapsibleButton)
# Layout within the dummy collapsible button
parametersFormLayout = qt.QFormLayout(self.parametersCollapsibleButton)
#
# Input parameters GroupBox
#
self.inputParametersGroupBox = qt.QGroupBox('Input parameters')
parametersFormLayout.addRow(self.inputParametersGroupBox)
inputParametersFormLayout = qt.QFormLayout(
self.inputParametersGroupBox)
#
# Start position
#
self.npStart = qt.QSpinBox()
self.npStart.minimum = 1
self.npStart.maximum = 999999
self.npStart.value = 1
self.npStart.toolTip = 'Start position in the CSV file (1 = first patient)'
inputParametersFormLayout.addRow('Start position', self.npStart)
#
# Root Path
#
self.rootSelector = qt.QLineEdit()
self.rootSelector.text = 'path'
self.rootSelector.toolTip = 'Location of the root directory to load from, or the column name specifying said ' \
'directory in the input CSV'
inputParametersFormLayout.addRow('Root Column', self.rootSelector)
#
# Image Path
#
self.imageSelector = qt.QLineEdit()
self.imageSelector.text = 'image'
self.imageSelector.toolTip = 'Name of the column specifying main image files in input CSV'
inputParametersFormLayout.addRow('Image Column', self.imageSelector)
#
# Mask Path
#
self.maskSelector = qt.QLineEdit()
self.maskSelector.text = 'mask'
self.maskSelector.toolTip = 'Name of the column specifying main mask files in input CSV'
inputParametersFormLayout.addRow('Mask Column', self.maskSelector)
#
# Additional images
#
self.addImsSelector = qt.QLineEdit()
self.addImsSelector.text = ''
self.addImsSelector.toolTip = 'Comma separated names of the columns specifying additional image files in input CSV'
inputParametersFormLayout.addRow('Additional images Column',
self.addImsSelector)
#
# Additional masks
#
self.addMasksSelector = qt.QLineEdit()
self.addMasksSelector.text = ''
self.addMasksSelector.toolTip = 'Comma separated names of the columns specifying additional mask files in input CSV'
inputParametersFormLayout.addRow('Additional masks Column',
self.addMasksSelector)
#
# Output parameters GroupBox
#
self.outputParametersGroupBox = qt.QGroupBox('Output parameters')
parametersFormLayout.addRow(self.outputParametersGroupBox)
outputParametersFormLayout = qt.QFormLayout(
self.outputParametersGroupBox)
#
# Reader Name
#
self.txtReaderName = qt.QLineEdit()
self.txtReaderName.text = ''
self.txtReaderName.toolTip = 'Name of the current reader; if not empty, this name will be added to the filename ' \
'of saved masks'
outputParametersFormLayout.addRow('Reader name', self.txtReaderName)
#
# Auto-redirect to SegmentEditor
#
self.chkAutoRedirect = qt.QCheckBox()
self.chkAutoRedirect.checked = 1
self.chkAutoRedirect.toolTip = 'Automatically switch module to "SegmentEditor" when each case is loaded'
outputParametersFormLayout.addRow('Go to Segment Editor',
self.chkAutoRedirect)
#
# Save masks
#
self.chkSaveMasks = qt.QCheckBox()
self.chkSaveMasks.checked = 1
self.chkSaveMasks.toolTip = 'save all initially loaded masks when proceeding to next case'
outputParametersFormLayout.addRow('Save loaded masks',
self.chkSaveMasks)
#
# Save masks
#
self.chkSaveNewMasks = qt.QCheckBox()
self.chkSaveNewMasks.checked = 1
self.chkSaveNewMasks.toolTip = 'save all newly generated masks when proceeding to next case'
outputParametersFormLayout.addRow('Save new masks',
self.chkSaveNewMasks)
#
# Previous Case
#
self.previousButton = qt.QPushButton('Previous Case')
self.previousButton.enabled = False
self.previousButton.toolTip = '(Ctrl+P) Press this button to go to the previous case, previous new masks are not reloaded'
self.layout.addWidget(self.previousButton)
#
# Load CSV / Next Case
#
self.nextButton = qt.QPushButton('Next Case')
self.nextButton.enabled = False
self.nextButton.toolTip = '(Ctrl+N) Press this button to go to the next case'
self.layout.addWidget(self.nextButton)
#
# Reset
#
self.resetButton = qt.QPushButton('Start Batch')
self.resetButton.enabled = False
self.layout.addWidget(self.resetButton)
self.layout.addStretch(1)
#
# Connect buttons to functions
#
self.batchTableSelector.connect('currentNodeChanged(vtkMRMLNode*)',
self.onChangeTable)
self.loadBatchButton.connect('clicked(bool)', self.onLoadBatch)
self.previousButton.connect('clicked(bool)', self.onPrevious)
self.nextButton.connect('clicked(bool)', self.onNext)
self.resetButton.connect('clicked(bool)', self.onReset)
self._setGUIstate(csv_loaded=False)
