def setupOptionsFrame(self):
self.methodSelectorComboBox = qt.QComboBox()
self.methodSelectorComboBox.addItem("Median", MEDIAN)
self.methodSelectorComboBox.addItem("Opening (remove extrusions)",
MORPHOLOGICAL_OPENING)
self.methodSelectorComboBox.addItem("Closing (fill holes)",
MORPHOLOGICAL_CLOSING)
self.methodSelectorComboBox.addItem("Gaussian", GAUSSIAN)
self.methodSelectorComboBox.setToolTip(
'<html>Smoothing methods:<ul style="margin: 0"><li><b>Median:</b> removes small details while keeps smooth contours mostly unchanged.</li><li><b>Opening:</b> removes extrusions smaller than the specified kernel size.</li><li><b>Closing:</b> fills sharp corners and holes smaller than the specified kernel size.</li><li><b>Gaussian:</b> smoothes all contours, tends to shrink the segment.</li></ul></html>'
)
self.scriptedEffect.addLabeledOptionsWidget(
"Smoothing method:", self.methodSelectorComboBox)
self.kernelSizeMmSpinBox = slicer.qMRMLSpinBox()
self.kernelSizeMmSpinBox.setMRMLScene(slicer.mrmlScene)
self.kernelSizeMmSpinBox.setToolTip(
"Diameter of the neighborhood that will be considered around each voxel. Higher value makes smoothing stronger (more details are suppressed)."
)
self.kernelSizeMmSpinBox.quantity = "length"
self.kernelSizeMmSpinBox.unitAwareProperties &= ~slicer.qMRMLSpinBox.MinimumValue # disable setting deafult minimum value (it would be a large negative value)
self.kernelSizeMmSpinBox.minimum = 0.0
self.kernelSizeMmSpinBox.value = 3.0
self.kernelSizeMmSpinBox.singleStep = 1.0
self.kernelSizePixel = qt.QLabel()
self.kernelSizePixel.setToolTip(
"Diameter of the neighborhood in pixels. Computed from the segment's spacing and the specified kernel size."
)
kernelSizeFrame = qt.QHBoxLayout()
kernelSizeFrame.addWidget(self.kernelSizePixel)
kernelSizeFrame.addWidget(self.kernelSizeMmSpinBox)
self.kernelSizeMmLabel = self.scriptedEffect.addLabeledOptionsWidget(
"Kernel size:", kernelSizeFrame)
self.gaussianStandardDeviationMmSpinBox = slicer.qMRMLSpinBox()
self.gaussianStandardDeviationMmSpinBox.setMRMLScene(slicer.mrmlScene)
self.gaussianStandardDeviationMmSpinBox.setToolTip(
"Standard deviation of the Gaussian smoothing filter coefficients. Higher value makes smoothing stronger (more details are suppressed)."
)
self.gaussianStandardDeviationMmSpinBox.quantity = "length"
self.gaussianStandardDeviationMmSpinBox.value = 3.0
self.gaussianStandardDeviationMmSpinBox.singleStep = 1.0
self.gaussianStandardDeviationMmLabel = self.scriptedEffect.addLabeledOptionsWidget(
"Standard deviation:", self.gaussianStandardDeviationMmSpinBox)
self.applyButton = qt.QPushButton("Apply")
self.applyButton.objectName = self.__class__.__name__ + 'Apply'
self.applyButton.setToolTip("Apply smoothing to selected segment")
self.scriptedEffect.addOptionsWidget(self.applyButton)
self.methodSelectorComboBox.connect("currentIndexChanged(int)",
self.updateMRMLFromGUI)
self.kernelSizeMmSpinBox.connect("valueChanged(double)",
self.updateMRMLFromGUI)
self.gaussianStandardDeviationMmSpinBox.connect(
"valueChanged(double)", self.updateMRMLFromGUI)
self.applyButton.connect('clicked()', self.onApply)
def setupOptionsFrame(self):
self.methodSelectorComboBox = qt.QComboBox()
self.methodSelectorComboBox.addItem("Median", MEDIAN)
self.methodSelectorComboBox.addItem("Opening (remove extrusions)", MORPHOLOGICAL_OPENING)
self.methodSelectorComboBox.addItem("Closing (fill holes)", MORPHOLOGICAL_CLOSING)
self.methodSelectorComboBox.addItem("Gaussian", GAUSSIAN)
self.methodSelectorComboBox.setToolTip(
'<html>Smoothing methods:<ul style="margin: 0"><li><b>Median:</b> removes small details while keeps smooth contours mostly unchanged.</li><li><b>Opening:</b> removes extrusions smaller than the specified kernel size.</li><li><b>Closing:</b> fills sharp corners and holes smaller than the specified kernel size.</li><li><b>Gaussian:</b> smoothes all contours, tends to shrink the segment.</li></ul></html>'
)
self.scriptedEffect.addLabeledOptionsWidget("Smoothing method:", self.methodSelectorComboBox)
self.kernelSizeMmSpinBox = slicer.qMRMLSpinBox()
self.kernelSizeMmSpinBox.setMRMLScene(slicer.mrmlScene)
self.kernelSizeMmSpinBox.setToolTip(
"Diameter of the neighborhood that will be considered around each voxel. Higher value makes smoothing stronger (more details are suppressed)."
)
self.kernelSizeMmSpinBox.quantity = "length"
self.kernelSizeMmSpinBox.unitAwareProperties &= (
~slicer.qMRMLSpinBox.MinimumValue
) # disable setting deafult minimum value (it would be a large negative value)
self.kernelSizeMmSpinBox.minimum = 0.0
self.kernelSizeMmSpinBox.value = 3.0
self.kernelSizeMmSpinBox.singleStep = 1.0
self.kernelSizePixel = qt.QLabel()
self.kernelSizePixel.setToolTip(
"Diameter of the neighborhood in pixels. Computed from the segment's spacing and the specified kernel size."
)
kernelSizeFrame = qt.QHBoxLayout()
kernelSizeFrame.addWidget(self.kernelSizePixel)
kernelSizeFrame.addWidget(self.kernelSizeMmSpinBox)
self.kernelSizeMmLabel = self.scriptedEffect.addLabeledOptionsWidget("Kernel size:", kernelSizeFrame)
self.gaussianStandardDeviationMmSpinBox = slicer.qMRMLSpinBox()
self.gaussianStandardDeviationMmSpinBox.setMRMLScene(slicer.mrmlScene)
self.gaussianStandardDeviationMmSpinBox.setToolTip(
"Standard deviation of the Gaussian smoothing filter coefficients. Higher value makes smoothing stronger (more details are suppressed)."
)
self.gaussianStandardDeviationMmSpinBox.quantity = "length"
self.gaussianStandardDeviationMmSpinBox.value = 3.0
self.gaussianStandardDeviationMmSpinBox.singleStep = 1.0
self.gaussianStandardDeviationMmLabel = self.scriptedEffect.addLabeledOptionsWidget(
"Standard deviation:", self.gaussianStandardDeviationMmSpinBox
)
self.applyButton = qt.QPushButton("Apply")
self.applyButton.objectName = self.__class__.__name__ + "Apply"
self.applyButton.setToolTip("Apply smoothing to selected segment")
self.scriptedEffect.addOptionsWidget(self.applyButton)
self.methodSelectorComboBox.connect("currentIndexChanged(int)", self.updateMRMLFromGUI)
self.kernelSizeMmSpinBox.connect("valueChanged(double)", self.updateMRMLFromGUI)
self.gaussianStandardDeviationMmSpinBox.connect("valueChanged(double)", self.updateMRMLFromGUI)
self.applyButton.connect("clicked()", self.onApply)
def setupOptionsFrame(self):
self.methodSelectorComboBox = qt.QComboBox()
self.methodSelectorComboBox.addItem("Median", MEDIAN)
self.methodSelectorComboBox.addItem("Opening (remove extrusions)", MORPHOLOGICAL_OPENING)
self.methodSelectorComboBox.addItem("Closing (fill holes)", MORPHOLOGICAL_CLOSING)
self.methodSelectorComboBox.addItem("Gaussian", GAUSSIAN)
self.methodSelectorComboBox.addItem("Joint smoothing", JOINT_TAUBIN)
self.scriptedEffect.addLabeledOptionsWidget("Smoothing method:", self.methodSelectorComboBox)
self.kernelSizeMmSpinBox = slicer.qMRMLSpinBox()
self.kernelSizeMmSpinBox.setMRMLScene(slicer.mrmlScene)
self.kernelSizeMmSpinBox.setToolTip("Diameter of the neighborhood that will be considered around each voxel. Higher value makes smoothing stronger (more details are suppressed).")
self.kernelSizeMmSpinBox.quantity = "length"
self.kernelSizeMmSpinBox.minimum = 0.0
self.kernelSizeMmSpinBox.value = 3.0
self.kernelSizeMmSpinBox.singleStep = 1.0
self.kernelSizePixel = qt.QLabel()
self.kernelSizePixel.setToolTip("Diameter of the neighborhood in pixels. Computed from the segment's spacing and the specified kernel size.")
kernelSizeFrame = qt.QHBoxLayout()
kernelSizeFrame.addWidget(self.kernelSizeMmSpinBox)
kernelSizeFrame.addWidget(self.kernelSizePixel)
self.kernelSizeMmLabel = self.scriptedEffect.addLabeledOptionsWidget("Kernel size:", kernelSizeFrame)
self.gaussianStandardDeviationMmSpinBox = slicer.qMRMLSpinBox()
self.gaussianStandardDeviationMmSpinBox.setMRMLScene(slicer.mrmlScene)
self.gaussianStandardDeviationMmSpinBox.setToolTip("Standard deviation of the Gaussian smoothing filter coefficients. Higher value makes smoothing stronger (more details are suppressed).")
self.gaussianStandardDeviationMmSpinBox.quantity = "length"
self.gaussianStandardDeviationMmSpinBox.value = 3.0
self.gaussianStandardDeviationMmSpinBox.singleStep = 1.0
self.gaussianStandardDeviationMmLabel = self.scriptedEffect.addLabeledOptionsWidget("Standard deviation:", self.gaussianStandardDeviationMmSpinBox)
self.jointTaubinSmoothingFactorSlider = ctk.ctkSliderWidget()
self.jointTaubinSmoothingFactorSlider.setToolTip("Higher value means stronger smoothing.")
self.jointTaubinSmoothingFactorSlider.minimum = 0.01
self.jointTaubinSmoothingFactorSlider.maximum = 1.0
self.jointTaubinSmoothingFactorSlider.value = 0.5
self.jointTaubinSmoothingFactorSlider.singleStep = 0.01
self.jointTaubinSmoothingFactorSlider.pageStep = 0.1
self.jointTaubinSmoothingFactorLabel = self.scriptedEffect.addLabeledOptionsWidget("Smoothing factor:", self.jointTaubinSmoothingFactorSlider)
self.applyButton = qt.QPushButton("Apply")
self.applyButton.objectName = self.__class__.__name__ + 'Apply'
self.applyButton.setToolTip("Apply smoothing to selected segment")
self.scriptedEffect.addOptionsWidget(self.applyButton)
self.methodSelectorComboBox.connect("currentIndexChanged(int)", self.updateMRMLFromGUI)
self.kernelSizeMmSpinBox.connect("valueChanged(double)", self.updateMRMLFromGUI)
self.gaussianStandardDeviationMmSpinBox.connect("valueChanged(double)", self.updateMRMLFromGUI)
self.jointTaubinSmoothingFactorSlider.connect("valueChanged(double)", self.updateMRMLFromGUI)
self.applyButton.connect('clicked()', self.onApply)
def setupOptionsFrame(self):
SegmentEditorThresholdEffect.setupOptionsFrame(self)
# Hide threshold options
self.applyButton.setHidden(True)
self.useForPaintButton.setHidden(True)
# Add diameter selector
self.minimumDiameterSpinBox = slicer.qMRMLSpinBox()
self.minimumDiameterSpinBox.setMRMLScene(slicer.mrmlScene)
self.minimumDiameterSpinBox.quantity = "length"
self.minimumDiameterSpinBox.value = 3.0
self.minimumDiameterSpinBox.singleStep = 0.5
self.minimumDiameterSpinBox.setToolTip("Minimum diameter of the structure. Regions that are connected to the selected point by a bridge"
" that this is thinner than this size will be excluded to prevent unwanted leaks through small holes.")
self.kernelSizePixel = qt.QLabel()
self.kernelSizePixel.setToolTip("Minimum diameter of the structure in pixels. Computed from the segment's spacing and the specified feature size.")
minimumDiameterFrame = qt.QHBoxLayout()
minimumDiameterFrame.addWidget(self.minimumDiameterSpinBox)
minimumDiameterFrame.addWidget(self.kernelSizePixel)
self.minimumDiameterMmLabel = self.scriptedEffect.addLabeledOptionsWidget("Minimum diameter:", minimumDiameterFrame)
self.scriptedEffect.addOptionsWidget(minimumDiameterFrame)
# Add algorithm options
self.segmentationAlgorithmSelector = qt.QComboBox()
self.segmentationAlgorithmSelector.addItem(SEGMENTATION_ALGORITHM_MASKING)
self.segmentationAlgorithmSelector.addItem(SEGMENTATION_ALGORITHM_GROWCUT)
self.segmentationAlgorithmSelector.addItem(SEGMENTATION_ALGORITHM_WATERSHED)
self.scriptedEffect.addLabeledOptionsWidget("Segmentation algorithm: ", self.segmentationAlgorithmSelector)
# Add feature size selector
self.featureSizeSpinBox = slicer.qMRMLSpinBox()
self.featureSizeSpinBox.setMRMLScene(slicer.mrmlScene)
self.featureSizeSpinBox.quantity = "length"
self.featureSizeSpinBox.value = 3.0
self.featureSizeSpinBox.singleStep = 0.5
self.featureSizeSpinBox.setToolTip("Spatial smoothness constraint used for WaterShed. Larger values result in smoother extracted surface.")
self.scriptedEffect.addLabeledOptionsWidget("Feature size: ", self.featureSizeSpinBox)
# Add ROI options
self.roiSelector = slicer.qMRMLNodeComboBox()
self.roiSelector.nodeTypes = ['vtkMRMLMarkupsROINode', 'vtkMRMLAnnotationROINode']
self.roiSelector.noneEnabled = True
self.roiSelector.setMRMLScene(slicer.mrmlScene)
self.scriptedEffect.addLabeledOptionsWidget("ROI: ", self.roiSelector)
# Connections
self.minimumDiameterSpinBox.connect("valueChanged(double)", self.updateMRMLFromGUI)
self.featureSizeSpinBox.connect("valueChanged(double)", self.updateMRMLFromGUI)
self.segmentationAlgorithmSelector.connect("currentIndexChanged(int)", self.updateMRMLFromGUI)
def setupOptionsFrame(self):
self.marginSizeMmSpinBox = slicer.qMRMLSpinBox()
self.marginSizeMmSpinBox.setMRMLScene(slicer.mrmlScene)
self.marginSizeMmSpinBox.setToolTip(
"Segment boundaries will be shifted by this distance. Positive value means the segments will grow, negative value means segment will shrink."
)
self.marginSizeMmSpinBox.quantity = "length"
self.marginSizeMmSpinBox.value = 3.0
self.marginSizeMmSpinBox.singleStep = 1.0
self.kernelSizePixel = qt.QLabel()
self.kernelSizePixel.setToolTip(
"Size change in pixels. Computed from the segment's spacing and the specified margin size."
)
marginSizeFrame = qt.QHBoxLayout()
marginSizeFrame.addWidget(self.kernelSizePixel)
marginSizeFrame.addWidget(self.marginSizeMmSpinBox)
self.marginSizeMmLabel = self.scriptedEffect.addLabeledOptionsWidget(
"Margin size:", marginSizeFrame)
self.applyButton = qt.QPushButton("Apply")
self.applyButton.objectName = self.__class__.__name__ + 'Apply'
self.applyButton.setToolTip(
"Grows or shrinks selected segment by the specified margin.")
self.scriptedEffect.addOptionsWidget(self.applyButton)
self.applyButton.connect('clicked()', self.onApply)
self.marginSizeMmSpinBox.connect("valueChanged(double)",
self.updateMRMLFromGUI)
def setupOptionsFrame(self):
operationLayout = qt.QVBoxLayout()
self.shrinkOptionRadioButton = qt.QRadioButton("Shrink")
self.growOptionRadioButton = qt.QRadioButton("Grow")
operationLayout.addWidget(self.shrinkOptionRadioButton)
operationLayout.addWidget(self.growOptionRadioButton)
self.growOptionRadioButton.setChecked(True)
self.scriptedEffect.addLabeledOptionsWidget("Operation:",
operationLayout)
self.marginSizeMMSpinBox = slicer.qMRMLSpinBox()
self.marginSizeMMSpinBox.setMRMLScene(slicer.mrmlScene)
self.marginSizeMMSpinBox.setToolTip(
"Segment boundaries will be shifted by this distance. Positive value means the segments will grow, negative value means segment will shrink."
)
self.marginSizeMMSpinBox.quantity = "length"
self.marginSizeMMSpinBox.value = 3.0
self.marginSizeMMSpinBox.singleStep = 1.0
self.marginSizeLabel = qt.QLabel()
self.marginSizeLabel.setToolTip(
"Size change in pixel. Computed from the segment's spacing and the specified margin size."
)
marginSizeFrame = qt.QHBoxLayout()
marginSizeFrame.addWidget(self.marginSizeMMSpinBox)
self.marginSizeMMLabel = self.scriptedEffect.addLabeledOptionsWidget(
"Margin size:", marginSizeFrame)
self.scriptedEffect.addLabeledOptionsWidget("", self.marginSizeLabel)
self.applyToAllVisibleSegmentsCheckBox = qt.QCheckBox()
self.applyToAllVisibleSegmentsCheckBox.setToolTip(
"Grow or shrink all visible segments in this segmentation node. \
This operation may take a while."
)
self.applyToAllVisibleSegmentsCheckBox.objectName = self.__class__.__name__ + 'ApplyToAllVisibleSegments'
self.applyToAllVisibleSegmentsLabel = self.scriptedEffect.addLabeledOptionsWidget(
"Apply to all segments:", self.applyToAllVisibleSegmentsCheckBox)
self.applyButton = qt.QPushButton("Apply")
self.applyButton.objectName = self.__class__.__name__ + 'Apply'
self.applyButton.setToolTip(
"Grows or shrinks selected segment /default) or all segments (checkbox) by the specified margin."
)
self.scriptedEffect.addOptionsWidget(self.applyButton)
self.applyButton.connect('clicked()', self.onApply)
self.marginSizeMMSpinBox.connect("valueChanged(double)",
self.updateMRMLFromGUI)
self.growOptionRadioButton.connect("toggled(bool)",
self.growOperationToggled)
self.shrinkOptionRadioButton.connect("toggled(bool)",
self.shrinkOperationToggled)
self.applyToAllVisibleSegmentsCheckBox.connect("stateChanged(int)",
self.updateMRMLFromGUI)
def create(self):
super(InterpolateROIsEffectOptions,self).create()
self.minimumSigma = 0.01
self.maximumSigma = 1.5
self.sigmaFrame = qt.QFrame(self.frame)
self.sigmaFrame.setLayout(qt.QHBoxLayout())
self.frame.layout().addWidget(self.sigmaFrame)
self.widgets.append(self.sigmaFrame)
self.sigmaLabel = qt.QLabel("Sigma:", self.sigmaFrame)
self.sigmaLabel.setToolTip("Set the sigma of the gaussian filter")
self.sigmaFrame.layout().addWidget(self.sigmaLabel)
self.widgets.append(self.sigmaLabel)
self.sigmaSpinBox = slicer.qMRMLSpinBox(self.sigmaFrame)
self.sigmaSpinBox.objectName = 'SpinBox_Sigma'
self.sigmaSpinBox.setToolTip("Set the sigma of the gaussian filter")
#self.sigmaSpinBox.quantity = "length"
# QFlags not wrapped in python. Equivalent to Prefix | Suffix
# See qMRMLSpinBox for more details.
self.sigmaSpinBox.unitAwareProperties = 0x01 | 0x02
self.sigmaSpinBox.decimals = 2
self.sigmaSpinBox.minimum = self.minimumSigma
self.sigmaSpinBox.maximum = self.maximumSigma
self.sigmaSpinBox.singleStep = self.minimumSigma
self.sigmaSpinBox.setMRMLScene(slicer.mrmlScene)
self.sigmaFrame.layout().addWidget(self.sigmaSpinBox)
self.widgets.append(self.sigmaSpinBox)
self.sigma = ctk.ctkDoubleSlider(self.frame)
self.sigma.objectName = 'DoubleSlider_Sigma'
self.sigma.minimum = self.minimumSigma
self.sigma.maximum = self.maximumSigma
self.sigma.orientation = 1
self.sigma.singleStep = self.minimumSigma
self.frame.layout().addWidget(self.sigma)
self.widgets.append(self.sigma)
self.apply = qt.QPushButton("Apply", self.frame)
self.apply.objectName = self.__class__.__name__ + 'Apply'
self.apply.setToolTip("Interpolate current label")
self.frame.layout().addWidget(self.apply)
self.widgets.append(self.apply)
EditorLib.HelpButton(self.frame, "Use this tool to remove pixels from the boundary of the current label.")
self.connections.append( (self.sigma, 'valueChanged(double)', self.onSigmaValueChanged) )
self.connections.append( (self.sigmaSpinBox, 'valueChanged(double)', self.onSigmaSpinBoxChanged) )
self.connections.append( (self.apply, 'clicked()', self.onApply) )
# Add vertical spacer
self.frame.layout().addStretch(1)
self.parameterNode.SetParameter("MorphologyEffect,neighborMode","8")
self.parameterNode.SetParameter("InterpolateROIsEffect,sigma","1.0")
def setupOptionsFrame(self):
operationLayout = qt.QVBoxLayout()
self.insideSurfaceOptionRadioButton = qt.QRadioButton("inside surface")
self.medialSurfaceOptionRadioButton = qt.QRadioButton("medial surface")
self.outsideSurfaceOptionRadioButton = qt.QRadioButton(
"outside surface")
operationLayout.addWidget(self.insideSurfaceOptionRadioButton)
operationLayout.addWidget(self.medialSurfaceOptionRadioButton)
operationLayout.addWidget(self.outsideSurfaceOptionRadioButton)
self.insideSurfaceOptionRadioButton.setChecked(True)
self.scriptedEffect.addLabeledOptionsWidget("Use current segment as:",
operationLayout)
self.shellThicknessMMSpinBox = slicer.qMRMLSpinBox()
self.shellThicknessMMSpinBox.setMRMLScene(slicer.mrmlScene)
self.shellThicknessMMSpinBox.setToolTip(
"Thickness of the hollow shell.")
self.shellThicknessMMSpinBox.quantity = "length"
self.shellThicknessMMSpinBox.minimum = 0.0
self.shellThicknessMMSpinBox.value = 3.0
self.shellThicknessMMSpinBox.singleStep = 1.0
self.shellThicknessLabel = qt.QLabel()
self.shellThicknessLabel.setToolTip(
"Closest achievable thickness. Constrained by the segmentation's binary labelmap representation spacing."
)
shellThicknessFrame = qt.QHBoxLayout()
shellThicknessFrame.addWidget(self.shellThicknessMMSpinBox)
self.shellThicknessMMLabel = self.scriptedEffect.addLabeledOptionsWidget(
"Shell thickness:", shellThicknessFrame)
self.scriptedEffect.addLabeledOptionsWidget("",
self.shellThicknessLabel)
self.applyButton = qt.QPushButton("Apply")
self.applyButton.objectName = self.__class__.__name__ + 'Apply'
self.applyButton.setToolTip(
"Makes the segment hollow by replacing it with a thick shell at the segment boundary."
)
self.scriptedEffect.addOptionsWidget(self.applyButton)
self.applyButton.connect('clicked()', self.onApply)
self.shellThicknessMMSpinBox.connect("valueChanged(double)",
self.updateMRMLFromGUI)
self.insideSurfaceOptionRadioButton.connect(
"toggled(bool)", self.insideSurfaceModeToggled)
self.medialSurfaceOptionRadioButton.connect(
"toggled(bool)", self.medialSurfaceModeToggled)
self.outsideSurfaceOptionRadioButton.connect(
"toggled(bool)", self.outsideSurfaceModeToggled)
def setupOptionsFrame(self):
SegmentEditorThresholdEffect.setupOptionsFrame(self)
# Hide threshold options
self.applyButton.setHidden(True)
self.useForPaintButton.setHidden(True)
# Add feature options
self.minimumMinimumFeatureSize = slicer.qMRMLSpinBox()
self.minimumMinimumFeatureSize.setMRMLScene(slicer.mrmlScene)
self.minimumMinimumFeatureSize.quantity = "length"
self.minimumMinimumFeatureSize.value = 3.0
self.minimumMinimumFeatureSize.singleStep = 0.5
self.kernelSizePixel = qt.QLabel()
self.kernelSizePixel.setToolTip(
"Minimum size of features in pixels. Computed from the segment's spacing and the specified feature size."
)
featureSizeFrame = qt.QHBoxLayout()
featureSizeFrame.addWidget(self.minimumMinimumFeatureSize)
featureSizeFrame.addWidget(self.kernelSizePixel)
self.featureSizeMmLabel = self.scriptedEffect.addLabeledOptionsWidget(
"Feature size:", featureSizeFrame)
self.scriptedEffect.addOptionsWidget(featureSizeFrame)
# Add algorithm options
self.segmentationAlgorithmSelector = qt.QComboBox()
self.segmentationAlgorithmSelector.addItem(
SEGMENTATION_ALGORITHM_MASKING)
self.segmentationAlgorithmSelector.addItem(
SEGMENTATION_ALGORITHM_GROWCUT)
self.segmentationAlgorithmSelector.addItem(
SEGMENTATION_ALGORITHM_WATERSHED)
self.scriptedEffect.addLabeledOptionsWidget(
"Segmentation algorithm: ", self.segmentationAlgorithmSelector)
# Add ROI options
self.roiSelector = slicer.qMRMLNodeComboBox()
self.roiSelector.nodeTypes = ['vtkMRMLAnnotationROINode']
self.roiSelector.noneEnabled = True
self.roiSelector.setMRMLScene(slicer.mrmlScene)
self.scriptedEffect.addLabeledOptionsWidget("ROI: ", self.roiSelector)
# Connections
self.minimumMinimumFeatureSize.connect("valueChanged(double)",
self.updateMRMLFromGUI)
self.segmentationAlgorithmSelector.connect("currentIndexChanged(int)",
self.updateMRMLFromGUI)
def setupOptionsFrame(self):
operationLayout = qt.QVBoxLayout()
self.insideSurfaceOptionRadioButton = qt.QRadioButton("inside surface")
self.medialSurfaceOptionRadioButton = qt.QRadioButton("medial surface")
self.outsideSurfaceOptionRadioButton = qt.QRadioButton("outside surface")
operationLayout.addWidget(self.insideSurfaceOptionRadioButton)
operationLayout.addWidget(self.medialSurfaceOptionRadioButton)
operationLayout.addWidget(self.outsideSurfaceOptionRadioButton)
self.insideSurfaceOptionRadioButton.setChecked(True)
self.scriptedEffect.addLabeledOptionsWidget("Use current segment as:", operationLayout)
self.shellThicknessMmSpinBox = slicer.qMRMLSpinBox()
self.shellThicknessMmSpinBox.setMRMLScene(slicer.mrmlScene)
self.shellThicknessMmSpinBox.setToolTip("Thickness of the hollow shell.")
self.shellThicknessMmSpinBox.quantity = "length"
self.shellThicknessMmSpinBox.minimum = 0.0
self.shellThicknessMmSpinBox.value = 3.0
self.shellThicknessMmSpinBox.singleStep = 1.0
self.kernelSizePixel = qt.QLabel()
self.kernelSizePixel.setToolTip("Thickness in pixels. Computed from the segment's spacing and the specified margin size.")
shellThicknessFrame = qt.QHBoxLayout()
shellThicknessFrame.addWidget(self.shellThicknessMmSpinBox)
shellThicknessFrame.addWidget(self.kernelSizePixel)
self.shellThicknessMmLabel = self.scriptedEffect.addLabeledOptionsWidget("Shell thickness:", shellThicknessFrame)
self.applyButton = qt.QPushButton("Apply")
self.applyButton.objectName = self.__class__.__name__ + 'Apply'
self.applyButton.setToolTip("Makes the segment hollow by replacing it with a thick shell at the segment boundary.")
self.scriptedEffect.addOptionsWidget(self.applyButton)
self.applyButton.connect('clicked()', self.onApply)
self.shellThicknessMmSpinBox.connect("valueChanged(double)", self.updateMRMLFromGUI)
self.insideSurfaceOptionRadioButton.connect("toggled(bool)", self.insideSurfaceModeToggled)
self.medialSurfaceOptionRadioButton.connect("toggled(bool)", self.medialSurfaceModeToggled)
self.outsideSurfaceOptionRadioButton.connect("toggled(bool)", self.outsideSurfaceModeToggled)
def setupOptionsFrame(self):
self.marginSizeMmSpinBox = slicer.qMRMLSpinBox()
self.marginSizeMmSpinBox.setMRMLScene(slicer.mrmlScene)
self.marginSizeMmSpinBox.setToolTip("Segment boundaries will be shifted by this distance. Positive value means the segments will grow, negative value means segment will shrink.")
self.marginSizeMmSpinBox.quantity = "length"
self.marginSizeMmSpinBox.value = 3.0
self.marginSizeMmSpinBox.singleStep = 1.0
self.kernelSizePixel = qt.QLabel()
self.kernelSizePixel.setToolTip("Size change in pixels. Computed from the segment's spacing and the specified margin size.")
marginSizeFrame = qt.QHBoxLayout()
marginSizeFrame.addWidget(self.kernelSizePixel)
marginSizeFrame.addWidget(self.marginSizeMmSpinBox)
self.marginSizeMmLabel = self.scriptedEffect.addLabeledOptionsWidget("Margin size:", marginSizeFrame)
self.applyButton = qt.QPushButton("Apply")
self.applyButton.objectName = self.__class__.__name__ + 'Apply'
self.applyButton.setToolTip("Grows or shrinks selected segment by the specified margin.")
self.scriptedEffect.addOptionsWidget(self.applyButton)
self.applyButton.connect('clicked()', self.onApply)
self.marginSizeMmSpinBox.connect("valueChanged(double)", self.updateMRMLFromGUI)
def setupOptionsFrame(self):
self.interpolationRadioButtons = []
# Fiducial Placement widget
self.fiducialPlacementToggle = slicer.qSlicerMarkupsPlaceWidget()
self.fiducialPlacementToggle.setMRMLScene(slicer.mrmlScene)
self.fiducialPlacementToggle.placeMultipleMarkups = self.fiducialPlacementToggle.ForcePlaceMultipleMarkups
self.fiducialPlacementToggle.buttonsVisible = False
self.fiducialPlacementToggle.show()
self.fiducialPlacementToggle.placeButton().show()
self.fiducialPlacementToggle.deleteButton().show()
# Edit surface button
self.editButton = qt.QPushButton("Edit")
self.editButton.objectName = self.__class__.__name__ + 'Edit'
self.editButton.setToolTip(
"Edit the previously placed group of fiducials.")
fiducialActionLayout = qt.QHBoxLayout()
fiducialActionLayout.addWidget(self.fiducialPlacementToggle)
fiducialActionLayout.addWidget(self.editButton)
self.scriptedEffect.addLabeledOptionsWidget("Fiducial Placement: ",
fiducialActionLayout)
# Radius spinbox
self.radiusSpinBox = slicer.qMRMLSpinBox()
self.radiusSpinBox.value = self.logic.radius
self.radiusSpinBox.quantity = 'length'
self.radiusSpinBox.unitAwareProperties = slicer.qMRMLSpinBox.MaximumValue | slicer.qMRMLSpinBox.Precision | slicer.qMRMLSpinBox.Prefix | slicer.qMRMLSpinBox.Suffix
self.scriptedEffect.addLabeledOptionsWidget("Radius: ",
self.radiusSpinBox)
# Interpolation buttons
self.piecewiseLinearButton = qt.QRadioButton("Piecewise linear")
self.interpolationRadioButtons.append(self.piecewiseLinearButton)
self.buttonToInterpolationTypeMap[
self.piecewiseLinearButton] = "LINEAR"
self.cardinalSplineButton = qt.QRadioButton("Cardinal spline")
self.interpolationRadioButtons.append(self.cardinalSplineButton)
self.buttonToInterpolationTypeMap[
self.cardinalSplineButton] = "CARDINAL_SPLINE"
self.kochanekSplineButton = qt.QRadioButton("Kochanek spline")
self.interpolationRadioButtons.append(self.kochanekSplineButton)
self.buttonToInterpolationTypeMap[
self.kochanekSplineButton] = "KOCHANEK_SPLINE"
self.globalPolynomialButton = qt.QRadioButton("Global polynomial")
self.interpolationRadioButtons.append(self.globalPolynomialButton)
self.buttonToInterpolationTypeMap[
self.globalPolynomialButton] = "GLOBAL_POLYNOMIAL"
self.movingPolynomialButton = qt.QRadioButton("Moving polynomial")
self.interpolationRadioButtons.append(self.movingPolynomialButton)
self.buttonToInterpolationTypeMap[
self.movingPolynomialButton] = "MOVING_POLYNOMIAL"
# Interpolation buttons layout
interpolationLayout = qt.QGridLayout()
interpolationLayout.addWidget(self.piecewiseLinearButton, 0, 0)
interpolationLayout.addWidget(self.cardinalSplineButton, 1, 0)
interpolationLayout.addWidget(self.kochanekSplineButton, 0, 1)
interpolationLayout.addWidget(self.globalPolynomialButton, 1, 1)
interpolationLayout.addWidget(self.movingPolynomialButton, 0, 2)
self.scriptedEffect.addLabeledOptionsWidget("Interpolation:",
interpolationLayout)
# Apply button
self.applyButton = qt.QPushButton("Apply")
self.applyButton.objectName = self.__class__.__name__ + 'Apply'
self.applyButton.setToolTip("Generate tube from markup fiducials.")
self.scriptedEffect.addOptionsWidget(self.applyButton)
# Cancel button
self.cancelButton = qt.QPushButton("Cancel")
self.cancelButton.objectName = self.__class__.__name__ + 'Cancel'
self.cancelButton.setToolTip("Clear fiducials and remove from scene.")
# Finish action buttons
finishAction = qt.QHBoxLayout()
finishAction.addWidget(self.cancelButton)
finishAction.addWidget(self.applyButton)
self.scriptedEffect.addOptionsWidget(finishAction)
# Connections
for button in self.interpolationRadioButtons:
button.connect('toggled(bool)',
lambda toggle, widget=self.
buttonToInterpolationTypeMap[button]: self.
onInterpolationSelectionChanged(widget, toggle))
self.applyButton.connect('clicked()', self.onApply)
self.cancelButton.connect('clicked()', self.onCancel)
self.editButton.connect('clicked()', self.onEdit)
self.fiducialPlacementToggle.placeButton().clicked.connect(
self.onFiducialPlacementToggleChanged)
self.radiusSpinBox.connect('valueChanged(double)',
self.onRadiusChanged)
def create(self):
super(PaintEffectOptions, self).create()
self.radiusFrame = qt.QFrame(self.frame)
self.radiusFrame.setLayout(qt.QHBoxLayout())
self.frame.layout().addWidget(self.radiusFrame)
self.widgets.append(self.radiusFrame)
self.radiusLabel = qt.QLabel("Radius:", self.radiusFrame)
self.radiusLabel.setToolTip(
"Set the radius of the paint brush in millimeters")
self.radiusFrame.layout().addWidget(self.radiusLabel)
self.widgets.append(self.radiusLabel)
self.radiusSpinBox = slicer.qMRMLSpinBox(self.radiusFrame)
self.radiusSpinBox.objectName = 'SpinBox_Radius'
self.radiusSpinBox.setToolTip(
"Set the radius of the paint brush in millimeters")
self.radiusSpinBox.quantity = "length"
# QFlags not wrapped in python. Equivalent to Prefix | Suffix
# See qMRMLSpinBox for more details.
self.radiusSpinBox.unitAwareProperties = 0x01 | 0x02
self.radiusSpinBox.minimum = self.minimumRadius
self.radiusSpinBox.maximum = self.maximumRadius
self.radiusSpinBox.setMRMLScene(slicer.mrmlScene)
from math import log, floor
decimals = floor(log(self.minimumRadius, 10))
if decimals < 0:
self.radiusSpinBox.decimals = -decimals + 2
self.radiusFrame.layout().addWidget(self.radiusSpinBox)
self.widgets.append(self.radiusSpinBox)
self.radiusUnitsToggle = qt.QPushButton("px:")
self.radiusUnitsToggle.objectName = 'PushButton_RadiusUnitsToggle'
self.radiusUnitsToggle.setToolTip(
"Toggle radius quick set buttons between mm and label volume pixel size units"
)
self.radiusUnitsToggle.setFixedWidth(35)
self.radiusFrame.layout().addWidget(self.radiusUnitsToggle)
self.radiusUnitsToggle.connect('clicked()', self.onRadiusUnitsToggle)
self.radiusQuickies = {}
quickies = ((2, self.onQuickie2Clicked), (3, self.onQuickie3Clicked),
(4, self.onQuickie4Clicked), (5, self.onQuickie5Clicked),
(10, self.onQuickie10Clicked), (20,
self.onQuickie20Clicked))
for rad, callback in quickies:
self.radiusQuickies[rad] = qt.QPushButton(str(rad))
self.radiusQuickies[
rad].objectName = 'PushButton_QuickRadius_{0}'.format(rad)
self.radiusFrame.layout().addWidget(self.radiusQuickies[rad])
self.radiusQuickies[rad].setFixedWidth(25)
self.radiusQuickies[rad].connect('clicked()', callback)
self.radiusQuickies[rad].setToolTip(
"Set radius based on mm or label voxel size units depending on toggle value"
)
self.radius = ctk.ctkDoubleSlider(self.frame)
self.radius.objectName = 'DoubleSlider_Radius'
self.radius.minimum = self.minimumRadius
self.radius.maximum = self.maximumRadius
self.radius.orientation = 1
self.radius.singleStep = self.minimumRadius
self.frame.layout().addWidget(self.radius)
self.widgets.append(self.radius)
self.sphere = qt.QCheckBox("Sphere", self.frame)
self.sphere.objectName = 'CheckBox_Sphere'
self.sphere.setToolTip(
"Use a 3D spherical brush rather than a 2D circular brush.")
self.frame.layout().addWidget(self.sphere)
self.widgets.append(self.sphere)
self.smudge = qt.QCheckBox("Smudge", self.frame)
self.smudge.objectName = 'CheckBox_Smudge'
self.smudge.setToolTip(
"Set the label number automatically by sampling the pixel location where the brush stroke starts."
)
self.frame.layout().addWidget(self.smudge)
self.widgets.append(self.smudge)
self.pixelMode = qt.QCheckBox("Pixel Mode", self.frame)
self.pixelMode.objectName = 'CheckBox_PixelMode'
self.pixelMode.setToolTip(
"Paint exactly the pixel under the cursor, ignoring the radius, threshold, and paint over."
)
self.frame.layout().addWidget(self.pixelMode)
self.widgets.append(self.pixelMode)
HelpButton(
self.frame,
"Use this tool to paint with a round brush of the selected radius")
self.connections.append(
(self.sphere, 'clicked()', self.updateMRMLFromGUI))
self.connections.append(
(self.smudge, 'clicked()', self.updateMRMLFromGUI))
self.connections.append(
(self.pixelMode, 'clicked()', self.updateMRMLFromGUI))
self.connections.append(
(self.radius, 'valueChanged(double)', self.onRadiusValueChanged))
self.connections.append((self.radiusSpinBox, 'valueChanged(double)',
self.onRadiusSpinBoxChanged))
# Add vertical spacer
self.frame.layout().addStretch(1)
def create(self):
super(PaintEffectOptions,self).create()
self.radiusFrame = qt.QFrame(self.frame)
self.radiusFrame.setLayout(qt.QHBoxLayout())
self.frame.layout().addWidget(self.radiusFrame)
self.widgets.append(self.radiusFrame)
self.radiusLabel = qt.QLabel("Radius:", self.radiusFrame)
self.radiusLabel.setToolTip("Set the radius of the paint brush in millimeters")
self.radiusFrame.layout().addWidget(self.radiusLabel)
self.widgets.append(self.radiusLabel)
self.radiusSpinBox = slicer.qMRMLSpinBox(self.radiusFrame)
self.radiusSpinBox.objectName = 'SpinBox_Radius'
self.radiusSpinBox.setToolTip("Set the radius of the paint brush in millimeters")
self.radiusSpinBox.quantity = "length"
# QFlags not wrapped in python. Equivalent to Prefix | Suffix
# See qMRMLSpinBox for more details.
self.radiusSpinBox.unitAwareProperties = 0x01 | 0x02
self.radiusSpinBox.minimum = self.minimumRadius
self.radiusSpinBox.maximum = self.maximumRadius
self.radiusSpinBox.setMRMLScene(slicer.mrmlScene)
from math import log,floor
decimals = floor(log(self.minimumRadius,10))
if decimals < 0:
self.radiusSpinBox.decimals = -decimals + 2
self.radiusFrame.layout().addWidget(self.radiusSpinBox)
self.widgets.append(self.radiusSpinBox)
self.radiusUnitsToggle = qt.QPushButton("px:")
self.radiusUnitsToggle.objectName = 'PushButton_RadiusUnitsToggle'
self.radiusUnitsToggle.setToolTip("Toggle radius quick set buttons between mm and label volume pixel size units")
self.radiusUnitsToggle.setFixedWidth(35)
self.radiusFrame.layout().addWidget(self.radiusUnitsToggle)
self.radiusUnitsToggle.connect('clicked()',self.onRadiusUnitsToggle)
self.radiusQuickies = {}
quickies = ( (2, self.onQuickie2Clicked), (3,self.onQuickie3Clicked),
(4, self.onQuickie4Clicked), (5, self.onQuickie5Clicked),
(10, self.onQuickie10Clicked), (20, self.onQuickie20Clicked) )
for rad,callback in quickies:
self.radiusQuickies[rad] = qt.QPushButton(str(rad))
self.radiusQuickies[rad].objectName = 'PushButton_QuickRadius_{0}'.format(rad)
self.radiusFrame.layout().addWidget(self.radiusQuickies[rad])
self.radiusQuickies[rad].setFixedWidth(25)
self.radiusQuickies[rad].connect('clicked()', callback)
self.radiusQuickies[rad].setToolTip("Set radius based on mm or label voxel size units depending on toggle value")
self.radius = ctk.ctkDoubleSlider(self.frame)
self.radius.objectName = 'DoubleSlider_Radius'
self.radius.minimum = self.minimumRadius
self.radius.maximum = self.maximumRadius
self.radius.orientation = 1
self.radius.singleStep = self.minimumRadius
self.frame.layout().addWidget(self.radius)
self.widgets.append(self.radius)
self.sphere = qt.QCheckBox("Sphere", self.frame)
self.sphere.objectName = 'CheckBox_Sphere'
self.sphere.setToolTip("Use a 3D spherical brush rather than a 2D circular brush.")
self.frame.layout().addWidget(self.sphere)
self.widgets.append(self.sphere)
self.smudge = qt.QCheckBox("Smudge", self.frame)
self.smudge.objectName = 'CheckBox_Smudge'
self.smudge.setToolTip("Set the label number automatically by sampling the pixel location where the brush stroke starts.")
self.frame.layout().addWidget(self.smudge)
self.widgets.append(self.smudge)
self.pixelMode = qt.QCheckBox("Pixel Mode", self.frame)
self.pixelMode.objectName = 'CheckBox_PixelMode'
self.pixelMode.setToolTip("Paint exactly the pixel under the cursor, ignoring the radius, threshold, and paint over.")
self.frame.layout().addWidget(self.pixelMode)
self.widgets.append(self.pixelMode)
HelpButton(self.frame, "Use this tool to paint with a round brush of the selected radius")
self.connections.append( (self.sphere, 'clicked()', self.updateMRMLFromGUI) )
self.connections.append( (self.smudge, 'clicked()', self.updateMRMLFromGUI) )
self.connections.append( (self.pixelMode, 'clicked()', self.updateMRMLFromGUI) )
self.connections.append( (self.radius, 'valueChanged(double)', self.onRadiusValueChanged) )
self.connections.append( (self.radiusSpinBox, 'valueChanged(double)', self.onRadiusSpinBoxChanged) )
# Add vertical spacer
self.frame.layout().addStretch(1)
def setup(self):
ScriptedLoadableModuleWidget.setup(self)
self.logic = CreateMeshLogic()
# Inputs
inputsCollapsibleButton = ctk.ctkCollapsibleButton()
inputsCollapsibleButton.text = 'Inputs'
self.layout.addWidget(inputsCollapsibleButton)
inputsFormLayout = qt.QFormLayout(inputsCollapsibleButton)
# Segmentation selector
self.segmentationSelector = slicer.qMRMLNodeComboBox()
self.segmentationSelector.nodeTypes = ['vtkMRMLSegmentationNode']
self.segmentationSelector.addEnabled = False
self.segmentationSelector.removeEnabled = False
self.segmentationSelector.renameEnabled = False
self.segmentationSelector.setMRMLScene(slicer.mrmlScene)
self.segmentationSelector.setToolTip(
'Pick the segmentation to compute a mesh from')
inputsFormLayout.addRow('Segmentation:', self.segmentationSelector)
# Fiducials selector
self.fiducialsSelector = slicer.qMRMLNodeComboBox()
self.fiducialsSelector.nodeTypes = ['vtkMRMLMarkupsFiducialNode']
self.fiducialsSelector.addEnabled = False
self.fiducialsSelector.removeEnabled = False
self.fiducialsSelector.renameEnabled = False
self.fiducialsSelector.setMRMLScene(slicer.mrmlScene)
self.fiducialsSelector.setToolTip(
'Select the fiducials that will define the light sources and detectors position'
)
inputsFormLayout.addRow('Fiducials:', self.fiducialsSelector)
# Outputs
outputsCollapsibleButton = ctk.ctkCollapsibleButton()
outputsCollapsibleButton.text = 'Outputs'
self.layout.addWidget(outputsCollapsibleButton)
outputsFormLayout = qt.QFormLayout(outputsCollapsibleButton)
# Mesh directory
self.meshPathLineEdit = ctk.ctkPathLineEdit()
self.meshPathLineEdit.filters = ctk.ctkPathLineEdit.Dirs
self.meshPathLineEdit.currentPath = self.cachedPathFor(
'CreateMeshOutputPath')
outputsFormLayout.addRow('Mesh directory:', self.meshPathLineEdit)
# Mesh name
self.meshNameField = qt.QLineEdit()
outputsFormLayout.addRow('Mesh name:', self.meshNameField)
# Meshing
meshingCollapsibleButton = ctk.ctkCollapsibleButton()
meshingCollapsibleButton.text = 'Meshing'
self.layout.addWidget(meshingCollapsibleButton)
meshingFormLayout = qt.QFormLayout(meshingCollapsibleButton)
# Mesh type
self.meshTypeComboBox = ctk.ctkComboBox()
for meshType in self.logic.meshTypes:
self.meshTypeComboBox.addItem(meshType)
meshingFormLayout.addRow('Mesh type:', self.meshTypeComboBox)
# Cell size
self.cellSizeSpinBox = slicer.qMRMLSpinBox()
self.cellSizeSpinBox.setValue(1.5)
self.cellSizeSpinBox.setMRMLScene(slicer.mrmlScene)
meshingFormLayout.addRow('Cell size:', self.cellSizeSpinBox)
# Cell radius edge
self.cellRadiusSpinBox = slicer.qMRMLSpinBox()
self.cellRadiusSpinBox.setValue(3.0)
self.cellRadiusSpinBox.setMRMLScene(slicer.mrmlScene)
meshingFormLayout.addRow('Cell radius edge:', self.cellRadiusSpinBox)
# Facet size
self.facetSizeSpinBox = slicer.qMRMLSpinBox()
self.facetSizeSpinBox.setValue(1.5)
self.facetSizeSpinBox.setMRMLScene(slicer.mrmlScene)
meshingFormLayout.addRow('Facet size:', self.facetSizeSpinBox)
# Facet angle
self.facetAngleSpinBox = slicer.qMRMLSpinBox()
self.facetAngleSpinBox.setValue(25.0)
self.facetAngleSpinBox.setMRMLScene(slicer.mrmlScene)
meshingFormLayout.addRow('Facet angle:', self.facetAngleSpinBox)
# Facet distance
self.facetDistanceSpinBox = slicer.qMRMLSpinBox()
self.facetDistanceSpinBox.setValue(3.0)
self.facetDistanceSpinBox.setMRMLScene(slicer.mrmlScene)
meshingFormLayout.addRow('Facet distance:', self.facetDistanceSpinBox)
# Optimize mesh
self.optimizeCheckBox = qt.QCheckBox()
meshingFormLayout.addRow('Optimize mesh:', self.optimizeCheckBox)
# NIRFAST
nirfastCollapsibleButton = ctk.ctkCollapsibleButton()
nirfastCollapsibleButton.text = 'NIRFAST Matlab'
self.layout.addWidget(nirfastCollapsibleButton)
nirfastFormLayout = qt.QFormLayout(nirfastCollapsibleButton)
# NIRFAST-Matlab
self.nirfastMatlabPathLineEdit = ctk.ctkPathLineEdit()
self.nirfastMatlabPathLineEdit.filters = ctk.ctkPathLineEdit.Dirs
self.nirfastMatlabPathLineEdit.currentPath = self.cachedPathFor(
'NIRFASTMatlabPath')
nirfastFormLayout.addRow('NIRFAST Matlab:',
self.nirfastMatlabPathLineEdit)
# Run
self.runButton = qt.QPushButton()
self.runButton.setCheckable(True)
self.setRunning(False)
self.layout.addWidget(self.runButton)
# Progress
self.progressBar = slicer.qSlicerCLIProgressBar()
self.logic.setProgressBar(self.progressBar)
self.layout.addWidget(self.progressBar)
# Add vertical spacer
self.layout.addStretch(1)
# Connections
self.segmentationSelector.connect('currentNodeChanged(vtkMRMLNode*)',
self.onSegmentationNodeChanged)
self.onSegmentationNodeChanged(self.segmentationSelector.currentNode())
self.meshPathLineEdit.connect('currentPathChanged(QString)',
self.logic.cacheOutputMeshDir)
self.nirfastMatlabPathLineEdit.connect(
'currentPathChanged(QString)', self.logic.cacheNirfastMatlabDir)
self.runButton.connect('clicked()', self.onRun)
self.logic.setBusy = self.setRunning
self.logic.setError = self.showError