def __initShortcuts(self):
mgr = ShortcutManager()
ActionInfo = ShortcutManager.ActionInfo
shortcutGroupName = "Cropping"
if hasattr(self.croppingDrawerUi, "AddCropButton"):
mgr.register(
"n",
ActionInfo(
shortcutGroupName,
"New Crop",
"Add a new crop.",
self.croppingDrawerUi.AddCropButton.click,
self.croppingDrawerUi.AddCropButton,
self.croppingDrawerUi.AddCropButton,
),
)
if hasattr(self.croppingDrawerUi, "SetCropButton"):
mgr.register(
"s",
ActionInfo(
shortcutGroupName,
"Save Crop",
"Save the current crop.",
self.croppingDrawerUi.SetCropButton.click,
self.croppingDrawerUi.SetCropButton,
self.croppingDrawerUi.SetCropButton,
),
)
self._cropShortcuts = []
def _updateLabelShortcuts(self):
numShortcuts = len(self._labelShortcuts)
numRows = len(self._labelControlUi.labelListModel)
mgr = ShortcutManager()
ActionInfo = ShortcutManager.ActionInfo
# Add any shortcuts we don't have yet.
for i in range(numShortcuts, numRows):
toolTipObject = LabelListModel.EntryToolTipAdapter(
self._labelControlUi.labelListModel, i)
action_info = ActionInfo(
"Labeling", "Select Label {}".format(i + 1),
"Select Label {}".format(i + 1),
partial(self._labelControlUi.labelListView.selectRow,
i), self._labelControlUi.labelListView, toolTipObject)
mgr.register(str(i + 1), action_info)
self._labelShortcuts.append(action_info)
# Make sure that all shortcuts have an appropriate description
for i in range(numRows):
action_info = self._labelShortcuts[i]
description = "Select " + self._labelControlUi.labelListModel[
i].name
new_action_info = mgr.update_description(action_info, description)
self._labelShortcuts[i] = new_action_info
def _initShortcuts(self):
mgr = ShortcutManager()
ActionInfo = ShortcutManager.ActionInfo
shortcutGroupName = "Predictions"
mgr.register(
"p",
ActionInfo(
shortcutGroupName,
"Toggle Prediction",
"Toggle Prediction Layer Visibility",
self._viewerControlUi.checkShowPredictions.click,
self._viewerControlUi.checkShowPredictions,
self._viewerControlUi.checkShowPredictions,
),
)
mgr.register(
"s",
ActionInfo(
shortcutGroupName,
"Toggle Segmentaton",
"Toggle Segmentaton Layer Visibility",
self._viewerControlUi.checkShowSegmentation.click,
self._viewerControlUi.checkShowSegmentation,
self._viewerControlUi.checkShowSegmentation,
),
)
def _updateLabelShortcuts(self):
numShortcuts = len(self._labelShortcuts)
numRows = len(self._labelControlUi.labelListModel)
mgr = ShortcutManager()
ActionInfo = ShortcutManager.ActionInfo
# Add any shortcuts we don't have yet.
for i in range(numShortcuts, numRows):
toolTipObject = LabelListModel.EntryToolTipAdapter(
self._labelControlUi.labelListModel, i)
action_info = ActionInfo(
"Labeling",
"Select Label {}".format(i + 1),
"Select Label {}".format(i + 1),
partial(self._labelControlUi.labelListView.selectRow, i),
self._labelControlUi.labelListView,
toolTipObject,
)
mgr.register(str(i + 1), action_info)
self._labelShortcuts.append(action_info)
# Make sure that all shortcuts have an appropriate description
for i in range(numRows):
action_info = self._labelShortcuts[i]
description = "Select " + self._labelControlUi.labelListModel[
i].name
new_action_info = mgr.update_description(action_info, description)
self._labelShortcuts[i] = new_action_info
def createDrawerControls(self):
op = self.topLevelOperatorView
def configure_update_handlers( qt_signal, op_slot ):
qt_signal.connect( self.configure_operator_from_gui )
cleanup_fn = op_slot.notifyDirty( self.configure_gui_from_operator, defer=True )
self.__cleanup_fns.append( cleanup_fn )
# Controls
feature_selection_button = QPushButton(text="Select Features",
icon=QIcon(ilastikIcons.AddSel),
toolTip="Select edge/superpixel features to use for classification.",
clicked=self._open_feature_selection_dlg)
self.train_from_gt_button = QPushButton(text="Auto-label",
icon=QIcon(ilastikIcons.Segment),
toolTip="Automatically label all edges according to your pre-loaded groundtruth volume.",
clicked=self._handle_label_from_gt_clicked)
self.clear_labels_button = QPushButton(text="Clear Labels",
icon=QIcon(ilastikIcons.Clear),
toolTip="Remove all edge labels. (Start over on this image.)",
clicked=self._handle_clear_labels_clicked)
self.live_update_button = QPushButton(text="Live Predict",
checkable=True,
icon=QIcon(ilastikIcons.Play),
toolTip="Update the edge classifier predictions",
clicked=self._handle_live_update_clicked)
configure_update_handlers( self.live_update_button.toggled, op.FreezeCache )
# Layout
label_layout = QHBoxLayout()
label_layout.addWidget(self.clear_labels_button)
label_layout.addWidget(self.train_from_gt_button)
label_layout.setSpacing(1)
layout = QVBoxLayout()
layout.addWidget(feature_selection_button)
layout.setSpacing(1)
layout.addLayout(label_layout)
layout.addWidget(self.live_update_button)
layout.addSpacerItem( QSpacerItem(0, 10, QSizePolicy.Minimum, QSizePolicy.Expanding) )
# Finally, the whole drawer widget
drawer = QWidget(parent=self)
drawer.setLayout(layout)
# Widget Shortcuts
mgr = ShortcutManager()
ActionInfo = ShortcutManager.ActionInfo
shortcut_group = "Edge Training"
mgr.register( "l", ActionInfo( shortcut_group,
"Live Predict",
"Toggle live edge classifier update mode",
self.live_update_button.toggle,
self.live_update_button,
self.live_update_button ) )
return drawer
def createDrawerControls(self):
op = self.topLevelOperatorView
def configure_update_handlers( qt_signal, op_slot ):
qt_signal.connect( self.configure_operator_from_gui )
cleanup_fn = op_slot.notifyDirty( self.configure_gui_from_operator, defer=True )
self.__cleanup_fns.append( cleanup_fn )
# Controls
feature_selection_button = QPushButton(text="Select Features",
icon=QIcon(ilastikIcons.AddSel),
toolTip="Select edge/superpixel features to use for classification.",
clicked=self._open_feature_selection_dlg)
self.train_from_gt_button = QPushButton(text="Auto-label",
icon=QIcon(ilastikIcons.Segment),
toolTip="Automatically label all edges according to your pre-loaded groundtruth volume.",
clicked=self._handle_label_from_gt_clicked)
self.clear_labels_button = QPushButton(text="Clear Labels",
icon=QIcon(ilastikIcons.Clear),
toolTip="Remove all edge labels. (Start over on this image.)",
clicked=self._handle_clear_labels_clicked)
self.live_update_button = QPushButton(text="Live Predict",
checkable=True,
icon=QIcon(ilastikIcons.Play),
toolTip="Update the edge classifier predictions",
clicked=self._handle_live_update_clicked)
configure_update_handlers( self.live_update_button.toggled, op.FreezeCache )
# Layout
label_layout = QHBoxLayout()
label_layout.addWidget(self.clear_labels_button)
label_layout.addWidget(self.train_from_gt_button)
label_layout.setSpacing(1)
layout = QVBoxLayout()
layout.addWidget(feature_selection_button)
layout.setSpacing(1)
layout.addLayout(label_layout)
layout.addWidget(self.live_update_button)
layout.addSpacerItem( QSpacerItem(0, 10, QSizePolicy.Minimum, QSizePolicy.Expanding) )
# Finally, the whole drawer widget
drawer = QWidget(parent=self)
drawer.setLayout(layout)
# Widget Shortcuts
mgr = ShortcutManager()
ActionInfo = ShortcutManager.ActionInfo
shortcut_group = "Edge Training"
mgr.register( "l", ActionInfo( shortcut_group,
"Live Predict",
"Toggle live edge classifier update mode",
self.live_update_button.toggle,
self.live_update_button,
self.live_update_button ) )
return drawer
def __initShortcuts(self):
mgr = ShortcutManager()
ActionInfo = ShortcutManager.ActionInfo
shortcutGroupName = "Labeling"
if hasattr(self.labelingDrawerUi, "AddLabelButton"):
mgr.register("a", ActionInfo( shortcutGroupName,
"New Label",
"Add New Label Class",
self.labelingDrawerUi.AddLabelButton.click,
self.labelingDrawerUi.AddLabelButton,
self.labelingDrawerUi.AddLabelButton ) )
mgr.register( "n", ActionInfo( shortcutGroupName,
"Navigation Cursor",
"Navigation Cursor",
self.labelingDrawerUi.arrowToolButton.click,
self.labelingDrawerUi.arrowToolButton,
self.labelingDrawerUi.arrowToolButton ) )
mgr.register( "b", ActionInfo( shortcutGroupName,
"Brush Cursor",
"Brush Cursor",
self.labelingDrawerUi.paintToolButton.click,
self.labelingDrawerUi.paintToolButton,
self.labelingDrawerUi.paintToolButton ) )
mgr.register( "e", ActionInfo( shortcutGroupName,
"Eraser Cursor",
"Eraser Cursor",
self.labelingDrawerUi.eraserToolButton.click,
self.labelingDrawerUi.eraserToolButton,
self.labelingDrawerUi.eraserToolButton ) )
self._labelShortcuts = []
def __initShortcuts(self):
mgr = ShortcutManager()
shortcutGroupName = "Labeling"
if hasattr(self.labelingDrawerUi, "AddLabelButton"):
addLabel = QShortcut(QKeySequence("a"), self, member=self.labelingDrawerUi.AddLabelButton.click)
mgr.register(shortcutGroupName, "Add New Label Class", addLabel, self.labelingDrawerUi.AddLabelButton)
navMode = QShortcut(QKeySequence("n"), self, member=self.labelingDrawerUi.arrowToolButton.click)
mgr.register(shortcutGroupName, "Navigation Cursor", navMode, self.labelingDrawerUi.arrowToolButton)
brushMode = QShortcut(QKeySequence("b"), self, member=self.labelingDrawerUi.paintToolButton.click)
mgr.register(shortcutGroupName, "Brush Cursor", brushMode, self.labelingDrawerUi.paintToolButton)
eraserMode = QShortcut(QKeySequence("e"), self, member=self.labelingDrawerUi.eraserToolButton.click)
mgr.register(shortcutGroupName, "Eraser Cursor", eraserMode, self.labelingDrawerUi.eraserToolButton)
"""
changeBrushSize = QShortcut( QKeySequence("c"), self, member=self.labelingDrawerUi.brushSizeComboBox.showPopup )
mgr.register( shortcutGroupName,
"Change Brush Size",
changeBrushSize,
self.labelingDrawerUi.brushSizeComboBox )
"""
self._labelShortcuts = []
def setUpShortcuts(self):
mgr = ShortcutManager()
ActionInfo = ShortcutManager.ActionInfo
selector = self.channelSelector
def inc():
selector.setValue(selector.value() + selector.singleStep())
def dec():
selector.setValue(selector.value() - selector.singleStep())
# Can't pass channelSelector(QSpinBox) as tooltip widget
# because it doesn't have # separate tooltips for arrows
mgr.register(NEXT_CHANNEL_SEQ, ActionInfo("Navigation", "Next channel", "Next channel", inc, selector, None))
mgr.register(PREV_CHANNEL_SEQ, ActionInfo("Navigation", "Prev channel", "Prev channel", dec, selector, None))
def __initShortcuts(self):
mgr = ShortcutManager()
ActionInfo = ShortcutManager.ActionInfo
shortcutGroupName = "Labeling"
if hasattr(self.labelingDrawerUi, "AddLabelButton"):
mgr.register("a", ActionInfo( shortcutGroupName,
"New Label",
"Add New Label Class",
self.labelingDrawerUi.AddLabelButton.click,
self.labelingDrawerUi.AddLabelButton,
self.labelingDrawerUi.AddLabelButton ) )
mgr.register( "n", ActionInfo( shortcutGroupName,
"Navigation Cursor",
"Navigation Cursor",
self.labelingDrawerUi.arrowToolButton.click,
self.labelingDrawerUi.arrowToolButton,
self.labelingDrawerUi.arrowToolButton ) )
mgr.register( "b", ActionInfo( shortcutGroupName,
"Brush Cursor",
"Brush Cursor",
self.labelingDrawerUi.paintToolButton.click,
self.labelingDrawerUi.paintToolButton,
self.labelingDrawerUi.paintToolButton ) )
mgr.register( "e", ActionInfo( shortcutGroupName,
"Eraser Cursor",
"Eraser Cursor",
self.labelingDrawerUi.eraserToolButton.click,
self.labelingDrawerUi.eraserToolButton,
self.labelingDrawerUi.eraserToolButton ) )
if hasattr(self.labelingDrawerUi, "thresToolButton"):
mgr.register( "t", ActionInfo( shortcutGroupName,
"Window Leveling",
"<p>Window Leveling can be used to adjust the data range used for visualization. Pressing the left mouse button while moving the mouse back and forth changes the window width (data range). Moving the mouse in the left-right plane changes the window mean. Pressing the right mouse button leads to an automatic range adjustment.",
self.labelingDrawerUi.thresToolButton.click,
self.labelingDrawerUi.thresToolButton,
self.labelingDrawerUi.thresToolButton ) )
self._labelShortcuts = []
def __initShortcuts(self):
mgr = ShortcutManager()
ActionInfo = ShortcutManager.ActionInfo
shortcutGroupName = "Labeling"
if hasattr(self.labelingDrawerUi, "AddLabelButton"):
mgr.register("a", ActionInfo( shortcutGroupName,
"New Label",
"Add New Label Class",
self.labelingDrawerUi.AddLabelButton.click,
self.labelingDrawerUi.AddLabelButton,
self.labelingDrawerUi.AddLabelButton ) )
mgr.register( "n", ActionInfo( shortcutGroupName,
"Navigation Cursor",
"Navigation Cursor",
self.labelingDrawerUi.arrowToolButton.click,
self.labelingDrawerUi.arrowToolButton,
self.labelingDrawerUi.arrowToolButton ) )
mgr.register( "b", ActionInfo( shortcutGroupName,
"Brush Cursor",
"Brush Cursor",
self.labelingDrawerUi.paintToolButton.click,
self.labelingDrawerUi.paintToolButton,
self.labelingDrawerUi.paintToolButton ) )
mgr.register( "e", ActionInfo( shortcutGroupName,
"Eraser Cursor",
"Eraser Cursor",
self.labelingDrawerUi.eraserToolButton.click,
self.labelingDrawerUi.eraserToolButton,
self.labelingDrawerUi.eraserToolButton ) )
if hasattr(self.labelingDrawerUi, "thresToolButton"):
mgr.register( "t", ActionInfo( shortcutGroupName,
"Window Leveling",
"<p>Window Leveling can be used to adjust the data range used for visualization. Pressing the left mouse button while moving the mouse back and forth changes the window width (data range). Moving the mouse in the left-right plane changes the window mean. Pressing the right mouse button resets the view back to the original data.",
self.labelingDrawerUi.thresToolButton.click,
self.labelingDrawerUi.thresToolButton,
self.labelingDrawerUi.thresToolButton ) )
self._labelShortcuts = []
def _initShortcuts(self):
mgr = ShortcutManager()
shortcutGroupName = "Predictions"
togglePredictions = QShortcut(
QKeySequence("p"),
self,
member=self._viewerControlUi.checkShowPredictions.click)
mgr.register(shortcutGroupName, "Toggle Prediction Layer Visibility",
togglePredictions,
self._viewerControlUi.checkShowPredictions)
toggleSegmentation = QShortcut(
QKeySequence("s"),
self,
member=self._viewerControlUi.checkShowSegmentation.click)
mgr.register(shortcutGroupName, "Toggle Segmentaton Layer Visibility",
toggleSegmentation,
self._viewerControlUi.checkShowSegmentation)
toggleLivePredict = QShortcut(
QKeySequence("l"),
self,
member=self.labelingDrawerUi.liveUpdateButton.toggle)
mgr.register(shortcutGroupName, "Toggle Live Prediction Mode",
toggleLivePredict, self.labelingDrawerUi.liveUpdateButton)
def _initShortcuts(self):
mgr = ShortcutManager()
shortcutGroupName = "Predictions"
togglePredictions = QShortcut(QKeySequence("p"), self, member=self._viewerControlUi.checkShowPredictions.click)
mgr.register(
shortcutGroupName,
"Toggle Prediction Layer Visibility",
togglePredictions,
self._viewerControlUi.checkShowPredictions,
)
toggleSegmentation = QShortcut(
QKeySequence("s"), self, member=self._viewerControlUi.checkShowSegmentation.click
)
mgr.register(
shortcutGroupName,
"Toggle Segmentaton Layer Visibility",
toggleSegmentation,
self._viewerControlUi.checkShowSegmentation,
)
toggleLivePredict = QShortcut(QKeySequence("l"), self, member=self.labelingDrawerUi.liveUpdateButton.toggle)
mgr.register(
shortcutGroupName, "Toggle Live Prediction Mode", toggleLivePredict, self.labelingDrawerUi.liveUpdateButton
)
def _initShortcuts(self):
mgr = ShortcutManager()
ActionInfo = ShortcutManager.ActionInfo
shortcutGroupName = "Predictions"
mgr.register( "p", ActionInfo( shortcutGroupName,
"Toggle Prediction",
"Toggle Prediction Layer Visibility",
self._viewerControlUi.checkShowPredictions.click,
self._viewerControlUi.checkShowPredictions,
self._viewerControlUi.checkShowPredictions ) )
mgr.register( "s", ActionInfo( shortcutGroupName,
"Toggle Segmentaton",
"Toggle Segmentaton Layer Visibility",
self._viewerControlUi.checkShowSegmentation.click,
self._viewerControlUi.checkShowSegmentation,
self._viewerControlUi.checkShowSegmentation ) )
mgr.register( "l", ActionInfo( shortcutGroupName,
"Live Prediction",
"Toggle Live Prediction Mode",
self.labelingDrawerUi.liveUpdateButton.toggle,
self.labelingDrawerUi.liveUpdateButton,
self.labelingDrawerUi.liveUpdateButton ) )
def __initShortcuts(self):
mgr = ShortcutManager()
ActionInfo = ShortcutManager.ActionInfo
shortcutGroupName = "Cropping"
if hasattr(self.croppingDrawerUi, "AddCropButton"):
mgr.register("n", ActionInfo( shortcutGroupName,
"New Crop",
"Add a new crop.",
self.croppingDrawerUi.AddCropButton.click,
self.croppingDrawerUi.AddCropButton,
self.croppingDrawerUi.AddCropButton ) )
if hasattr(self.croppingDrawerUi, "SetCropButton"):
mgr.register("s", ActionInfo( shortcutGroupName,
"Save Crop",
"Save the current crop.",
self.croppingDrawerUi.SetCropButton.click,
self.croppingDrawerUi.SetCropButton,
self.croppingDrawerUi.SetCropButton ) )
self._cropShortcuts = []
def setUpShortcuts(self):
mgr = ShortcutManager()
ActionInfo = ShortcutManager.ActionInfo
selector = self.channelSelector
def inc():
selector.setValue(selector.value() + selector.singleStep())
def dec():
selector.setValue(selector.value() - selector.singleStep())
# Can't pass channelSelector(QSpinBox) as tooltip widget
# because it doesn't have # separate tooltips for arrows
mgr.register(
NEXT_CHANNEL_SEQ,
ActionInfo("Navigation", "Next channel", "Next channel", inc,
selector, None))
mgr.register(
PREV_CHANNEL_SEQ,
ActionInfo("Navigation", "Prev channel", "Prev channel", dec,
selector, None))
def __initShortcuts(self):
mgr = ShortcutManager()
shortcutGroupName = "Labeling"
if hasattr(self.labelingDrawerUi, "AddLabelButton"):
addLabel = QShortcut(
QKeySequence("a"),
self,
member=self.labelingDrawerUi.AddLabelButton.click)
mgr.register(shortcutGroupName, "Add New Label Class", addLabel,
self.labelingDrawerUi.AddLabelButton)
navMode = QShortcut(QKeySequence("n"),
self,
member=self.labelingDrawerUi.arrowToolButton.click)
mgr.register(shortcutGroupName, "Navigation Cursor", navMode,
self.labelingDrawerUi.arrowToolButton)
brushMode = QShortcut(
QKeySequence("b"),
self,
member=self.labelingDrawerUi.paintToolButton.click)
mgr.register(shortcutGroupName, "Brush Cursor", brushMode,
self.labelingDrawerUi.paintToolButton)
eraserMode = QShortcut(
QKeySequence("e"),
self,
member=self.labelingDrawerUi.eraserToolButton.click)
mgr.register(shortcutGroupName, "Eraser Cursor", eraserMode,
self.labelingDrawerUi.eraserToolButton)
'''
changeBrushSize = QShortcut( QKeySequence("c"), self, member=self.labelingDrawerUi.brushSizeComboBox.showPopup )
mgr.register( shortcutGroupName,
"Change Brush Size",
changeBrushSize,
self.labelingDrawerUi.brushSizeComboBox )
'''
self._labelShortcuts = []
def __init__(self, parentApplet, topLevelOperatorView, drawerUiPath=None):
self.topLevelOperatorView = topLevelOperatorView
self.isInitialized = (
False
) # Need this flag in carvingApplet where initialization is terminated with label selection
# members
self._doneSegmentationLayer = None
self._showSegmentationIn3D = False
# self._showUncertaintyLayer = False
# end: members
labelingSlots = LabelingGui.LabelingSlots()
labelingSlots.labelInput = topLevelOperatorView.WriteSeeds
labelingSlots.labelOutput = topLevelOperatorView.opLabelArray.Output
labelingSlots.labelEraserValue = topLevelOperatorView.opLabelArray.EraserLabelValue
labelingSlots.labelNames = topLevelOperatorView.LabelNames
labelingSlots.labelDelete = topLevelOperatorView.opLabelArray.DeleteLabel
labelingSlots.maxLabelValue = topLevelOperatorView.opLabelArray.MaxLabelValue
# We provide our own UI file (which adds an extra control for interactive mode)
directory = os.path.split(__file__)[0]
if drawerUiPath is None:
drawerUiPath = os.path.join(directory, "carvingDrawer.ui")
self.dialogdirCOM = os.path.join(directory,
"carvingObjectManagement.ui")
self.dialogdirSAD = os.path.join(directory, "saveAsDialog.ui")
# Add 3DWidget only if the data is 3D
is_3d = self._is_3d()
super(CarvingGui, self).__init__(parentApplet,
labelingSlots,
topLevelOperatorView,
drawerUiPath,
is_3d_widget_visible=is_3d)
self.parentApplet = parentApplet
self.labelingDrawerUi.currentObjectLabel.setText("<not saved yet>")
# Init special base class members
self.minLabelNumber = 2
self.maxLabelNumber = 2
mgr = ShortcutManager()
ActionInfo = ShortcutManager.ActionInfo
# set up keyboard shortcuts
mgr.register(
"3",
ActionInfo(
"Carving",
"Run interactive segmentation",
"Run interactive segmentation",
self.labelingDrawerUi.segment.click,
self.labelingDrawerUi.segment,
self.labelingDrawerUi.segment,
),
)
# Disable 3D view by default
self.render = False
if is_3d:
try:
self._renderMgr = RenderingManager(self.editor.view3d)
self._shownObjects3D = {}
self.render = True
except:
self.render = False
# Segmentation is toggled on by default in _after_init, below.
# (We can't enable it until the layers are all present.)
self._showSegmentationIn3D = False
self._segmentation_3d_label = None
self.labelingDrawerUi.segment.clicked.connect(self.onSegmentButton)
self.labelingDrawerUi.segment.setEnabled(True)
self.topLevelOperatorView.Segmentation.notifyDirty(
bind(self._segmentation_dirty))
self.topLevelOperatorView.HasSegmentation.notifyValueChanged(
bind(self._updateGui))
## uncertainty
# self.labelingDrawerUi.pushButtonUncertaintyFG.setEnabled(False)
# self.labelingDrawerUi.pushButtonUncertaintyBG.setEnabled(False)
# def onUncertaintyFGButton():
# logger.debug( "uncertFG button clicked" )
# pos = self.topLevelOperatorView.getMaxUncertaintyPos(label=2)
# self.editor.posModel.slicingPos = (pos[0], pos[1], pos[2])
# self.labelingDrawerUi.pushButtonUncertaintyFG.clicked.connect(onUncertaintyFGButton)
# def onUncertaintyBGButton():
# logger.debug( "uncertBG button clicked" )
# pos = self.topLevelOperatorView.getMaxUncertaintyPos(label=1)
# self.editor.posModel.slicingPos = (pos[0], pos[1], pos[2])
# self.labelingDrawerUi.pushButtonUncertaintyBG.clicked.connect(onUncertaintyBGButton)
# def onUncertaintyCombo(value):
# if value == 0:
# value = "none"
# self.labelingDrawerUi.pushButtonUncertaintyFG.setEnabled(False)
# self.labelingDrawerUi.pushButtonUncertaintyBG.setEnabled(False)
# self._showUncertaintyLayer = False
# else:
# if value == 1:
# value = "localMargin"
# elif value == 2:
# value = "exchangeCount"
# elif value == 3:
# value = "gabow"
# else:
# raise RuntimeError("unhandled case '%r'" % value)
# self.labelingDrawerUi.pushButtonUncertaintyFG.setEnabled(True)
# self.labelingDrawerUi.pushButtonUncertaintyBG.setEnabled(True)
# self._showUncertaintyLayer = True
# logger.debug( "uncertainty changed to %r" % value )
# self.topLevelOperatorView.UncertaintyType.setValue(value)
# self.updateAllLayers() #make sure that an added/deleted uncertainty layer is recognized
# self.labelingDrawerUi.uncertaintyCombo.currentIndexChanged.connect(onUncertaintyCombo)
self.labelingDrawerUi.objPrefix.setText(self.objectPrefix)
self.labelingDrawerUi.objPrefix.textChanged.connect(
self.setObjectPrefix)
## save
self.labelingDrawerUi.save.clicked.connect(self.onSaveButton)
## clear
self.labelingDrawerUi.clear.clicked.connect(self._onClearAction)
## object names
self.labelingDrawerUi.namesButton.clicked.connect(
self.onShowObjectNames)
if hasattr(self.labelingDrawerUi, "exportAllMeshesButton"):
self.labelingDrawerUi.exportAllMeshesButton.clicked.connect(
self._exportAllObjectMeshes)
self.labelingDrawerUi.labelListView.allowDelete = False
self._labelControlUi.labelListModel.allowRemove(False)
def layerIndexForName(name):
return self.layerstack.findMatchingIndex(lambda x: x.name == name)
def addLayerToggleShortcut(layername, shortcut):
def toggle():
row = layerIndexForName(layername)
self.layerstack.selectRow(row)
layer = self.layerstack[row]
layer.visible = not layer.visible
self.viewerControlWidget().layerWidget.setFocus()
mgr.register(
shortcut,
ActionInfo(
"Carving",
"Toggle layer %s" % layername,
"Toggle layer %s" % layername,
toggle,
self.viewerControlWidget(),
None,
),
)
# TODO
addLayerToggleShortcut("Completed segments (unicolor)", "d")
addLayerToggleShortcut("Segmentation", "s")
addLayerToggleShortcut("Input Data", "r")
def makeColortable():
self._doneSegmentationColortable = [QColor(0, 0, 0, 0).rgba()]
for i in range(254):
r, g, b = numpy.random.randint(0, 255), numpy.random.randint(
0, 255), numpy.random.randint(0, 255)
# ensure colors have sufficient distance to pure red and pure green
while (255 - r) + g + b < 128 or r + (255 - g) + b < 128:
r, g, b = numpy.random.randint(
0, 255), numpy.random.randint(
0, 255), numpy.random.randint(0, 255)
self._doneSegmentationColortable.append(QColor(r, g, b).rgba())
self._doneSegmentationColortable.append(QColor(0, 255, 0).rgba())
makeColortable()
self._updateGui()
def createDrawerControls(self):
op = self.topLevelOperatorView
def configure_update_handlers(qt_signal, op_slot):
qt_signal.connect(self.configure_operator_from_gui)
cleanup_fn = op_slot.notifyDirty(self.configure_gui_from_operator,
defer=True)
self.__cleanup_fns.append(cleanup_fn)
# Controls
feature_selection_button = QPushButton(
text="Select Features",
icon=QIcon(ilastikIcons.AddSel),
toolTip=
"Select edge/superpixel features to use for classification.",
clicked=self._open_feature_selection_dlg,
)
self.train_from_gt_button = QPushButton(
text="Auto-label",
icon=QIcon(ilastikIcons.Segment),
toolTip=
"Automatically label all edges according to your pre-loaded groundtruth volume.",
clicked=self._handle_label_from_gt_clicked,
)
self.clear_labels_button = QPushButton(
text="Clear Labels",
icon=QIcon(ilastikIcons.Clear),
toolTip="Remove all edge labels. (Start over on this image.)",
clicked=self._handle_clear_labels_clicked,
)
self.live_update_button = QPushButton(
text="Live Predict",
checkable=True,
icon=QIcon(ilastikIcons.Play),
toolTip="Update the edge classifier predictions",
clicked=self._handle_live_update_clicked,
enabled=False,
)
configure_update_handlers(self.live_update_button.toggled,
op.FreezeCache)
self.train_from_gt_button.clicked.connect(
lambda: op.FreezeClassifier.setValue(False))
def enable_live_update_on_edges_available(*args, **kwargs):
any_have_edges = False
top_level_edge_labels_dict = op.EdgeLabelsDict.top_level_slot
assert top_level_edge_labels_dict.level == 1
for subslot in op.EdgeLabelsDict.top_level_slot:
any_have_edges = subslot.ready() and bool(subslot.value)
if any_have_edges:
break
self.live_update_button.setEnabled(any_have_edges)
cleanup_fn = op.EdgeLabelsDict.notifyDirty(
enable_live_update_on_edges_available)
self.__cleanup_fns.append(cleanup_fn)
# call once when instantiating with a saved project to make the live update button available
# if there are annotations loaded from file.
enable_live_update_on_edges_available()
# Layout
label_layout = QHBoxLayout()
label_layout.addWidget(self.clear_labels_button)
label_layout.addWidget(self.train_from_gt_button)
label_layout.setSpacing(1)
layout = QVBoxLayout()
layout.addWidget(feature_selection_button)
layout.setSpacing(1)
layout.addLayout(label_layout)
layout.addWidget(self.live_update_button)
layout.addSpacerItem(
QSpacerItem(0, 10, QSizePolicy.Minimum, QSizePolicy.Expanding))
# Finally, the whole drawer widget
drawer = QWidget(parent=self)
drawer.setLayout(layout)
# Widget Shortcuts
mgr = ShortcutManager()
ActionInfo = ShortcutManager.ActionInfo
shortcut_group = "Edge Training"
mgr.register(
"l",
ActionInfo(
shortcut_group,
"Live Predict",
"Toggle live edge classifier update mode",
self.live_update_button.toggle,
self.live_update_button,
self.live_update_button,
),
)
return drawer
def __init__(self, labelingSlots, topLevelOperatorView, drawerUiPath=None, rawInputSlot=None ):
self.topLevelOperatorView = topLevelOperatorView
# We provide our own UI file (which adds an extra control for interactive mode)
directory = os.path.split(__file__)[0]
carvingDrawerUiPath = os.path.join(directory, 'carvingDrawer.ui')
super(CarvingGui, self).__init__(labelingSlots, topLevelOperatorView, carvingDrawerUiPath, rawInputSlot)
mgr = ShortcutManager()
#set up keyboard shortcuts
segmentShortcut = QShortcut(QKeySequence("3"), self, member=self.labelingDrawerUi.segment.click,
ambiguousMember=self.labelingDrawerUi.segment.click)
mgr.register("Carving", "Run interactive segmentation", segmentShortcut, self.labelingDrawerUi.segment)
self._doneSegmentationLayer = None
#volume rendering
try:
self.render = True
self._shownObjects3D = {}
self._renderMgr = RenderingManager(
renderer=self.editor.view3d.qvtk.renderer,
qvtk=self.editor.view3d.qvtk)
except:
self.render = False
def onSegmentButton():
print "segment button clicked"
self.topLevelOperatorView.opCarving.Trigger.setDirty(slice(None))
self.labelingDrawerUi.segment.clicked.connect(onSegmentButton)
self.labelingDrawerUi.segment.setEnabled(True)
def onUncertaintyFGButton():
print "uncertFG button clicked"
pos = self.topLevelOperatorView.opCarving.getMaxUncertaintyPos(label=2)
self.editor.posModel.slicingPos = (pos[0], pos[1], pos[2])
self.labelingDrawerUi.pushButtonUncertaintyFG.clicked.connect(onUncertaintyFGButton)
self.labelingDrawerUi.pushButtonUncertaintyFG.setEnabled(True)
def onUncertaintyBGButton():
print "uncertBG button clicked"
pos = self.topLevelOperatorView.opCarving.getMaxUncertaintyPos(label=1)
self.editor.posModel.slicingPos = (pos[0], pos[1], pos[2])
self.labelingDrawerUi.pushButtonUncertaintyBG.clicked.connect(onUncertaintyBGButton)
self.labelingDrawerUi.pushButtonUncertaintyBG.setEnabled(True)
def onBackgroundPrioritySpin(value):
print "background priority changed to %f" % value
self.topLevelOperatorView.opCarving.BackgroundPriority.setValue(value)
self.labelingDrawerUi.backgroundPrioritySpin.valueChanged.connect(onBackgroundPrioritySpin)
def onuncertaintyCombo(value):
if value == 0:
value = "none"
if value == 1:
value = "localMargin"
if value == 2:
value = "exchangeCount"
if value == 3:
value = "gabow"
print "uncertainty changed to %r" % value
self.topLevelOperatorView.opCarving.UncertaintyType.setValue(value)
self.labelingDrawerUi.uncertaintyCombo.currentIndexChanged.connect(onuncertaintyCombo)
def onBackgroundPriorityDirty(slot, roi):
oldValue = self.labelingDrawerUi.backgroundPrioritySpin.value()
newValue = self.topLevelOperatorView.opCarving.BackgroundPriority.value
if newValue != oldValue:
self.labelingDrawerUi.backgroundPrioritySpin.setValue(newValue)
self.topLevelOperatorView.opCarving.BackgroundPriority.notifyDirty(onBackgroundPriorityDirty)
def onNoBiasBelowDirty(slot, roi):
oldValue = self.labelingDrawerUi.noBiasBelowSpin.value()
newValue = self.topLevelOperatorView.opCarving.NoBiasBelow.value
if newValue != oldValue:
self.labelingDrawerUi.noBiasBelowSpin.setValue(newValue)
self.topLevelOperatorView.opCarving.NoBiasBelow.notifyDirty(onNoBiasBelowDirty)
def onNoBiasBelowSpin(value):
print "background priority changed to %f" % value
self.topLevelOperatorView.opCarving.NoBiasBelow.setValue(value)
self.labelingDrawerUi.noBiasBelowSpin.valueChanged.connect(onNoBiasBelowSpin)
def onSaveAsButton():
print "save object as?"
if self.topLevelOperatorView.opCarving.dataIsStorable():
name, ok = QInputDialog.getText(self, 'Save Object As', 'object name')
name = str(name)
if not ok:
return
objects = self.topLevelOperatorView.opCarving.AllObjectNames[:].wait()
if name in objects:
QMessageBox.critical(self, "Save Object As", "An object with name '%s' already exists.\nPlease choose a different name." % name)
return
self.topLevelOperatorView.opCarving.saveObjectAs(name)
print "save object as %s" % name
else:
msgBox = QMessageBox(self)
msgBox.setText("The data does not seem fit to be stored.")
msgBox.setWindowTitle("Problem with Data")
msgBox.setIcon(2)
msgBox.exec_()
print "object not saved due to faulty data."
self.labelingDrawerUi.saveAs.clicked.connect(onSaveAsButton)
def onSaveButton():
if self.topLevelOperatorView.opCarving.dataIsStorable():
if self.topLevelOperatorView.opCarving.hasCurrentObject():
name = self.topLevelOperatorView.opCarving.currentObjectName()
self.topLevelOperatorView.opCarving.saveObjectAs( name )
else:
onSaveAsButton()
else:
msgBox = QMessageBox(self)
msgBox.setText("The data does no seem fit to be stored.")
msgBox.setWindowTitle("Lousy Data")
msgBox.setIcon(2)
msgBox.exec_()
print "object not saved due to faulty data."
self.labelingDrawerUi.save.clicked.connect(onSaveButton)
self.labelingDrawerUi.save.setEnabled(False) #initially, the user need to use "Save As"
def onClearButton():
self.topLevelOperatorView.opCarving._clear()
self.topLevelOperatorView.opCarving.clearCurrentLabeling()
# trigger a re-computation
self.topLevelOperatorView.opCarving.Trigger.setDirty(slice(None))
self.labelingDrawerUi.clear.clicked.connect(onClearButton)
self.labelingDrawerUi.clear.setEnabled(True)
def onShowObjectNames():
'''show object names and allow user to load/delete them'''
dialog = uic.loadUi(os.path.join(directory, 'carvingObjectManagement.ui'))
listOfItems = self.topLevelOperatorView.opCarving.AllObjectNames[:].wait()
dialog.objectNames.addItems(sorted(listOfItems))
def loadSelection():
for name in dialog.objectNames.selectedItems():
objectname = str(name.text())
self.topLevelOperatorView.opCarving.loadObject(objectname)
def deleteSelection():
for name in dialog.objectNames.selectedItems():
objectname = str(name.text())
self.topLevelOperatorView.opCarving.deleteObject(objectname)
name.setHidden(True)
dialog.loadButton.clicked.connect(loadSelection)
dialog.deleteButton.clicked.connect(deleteSelection)
dialog.cancelButton.clicked.connect(dialog.close)
dialog.exec_()
self.labelingDrawerUi.namesButton.clicked.connect(onShowObjectNames)
def labelBackground():
self.selectLabel(0)
def labelObject():
self.selectLabel(1)
self._labelControlUi.labelListModel.allowRemove(False)
bg = QShortcut(QKeySequence("1"), self, member=labelBackground, ambiguousMember=labelBackground)
mgr.register("Carving", "Select background label", bg)
fg = QShortcut(QKeySequence("2"), self, member=labelObject, ambiguousMember=labelObject)
mgr.register("Carving", "Select object label", fg)
def layerIndexForName(name):
return self.layerstack.findMatchingIndex(lambda x: x.name == name)
def addLayerToggleShortcut(layername, shortcut):
def toggle():
row = layerIndexForName(layername)
self.layerstack.selectRow(row)
layer = self.layerstack[row]
layer.visible = not layer.visible
self.viewerControlWidget().layerWidget.setFocus()
shortcut = QShortcut(QKeySequence(shortcut), self, member=toggle, ambiguousMember=toggle)
mgr.register("Carving", "Toggle layer %s" % layername, shortcut)
addLayerToggleShortcut("done", "d")
addLayerToggleShortcut("segmentation", "s")
addLayerToggleShortcut("raw", "r")
addLayerToggleShortcut("pmap", "v")
addLayerToggleShortcut("hints","h")
'''
def updateLayerTimings():
s = "Layer timings:\n"
for l in self.layerstack:
s += "%s: %f sec.\n" % (l.name, l.averageTimePerTile)
self.labelingDrawerUi.layerTimings.setText(s)
t = QTimer(self)
t.setInterval(1*1000) # 10 seconds
t.start()
t.timeout.connect(updateLayerTimings)
'''
def makeColortable():
self._doneSegmentationColortable = [QColor(0,0,0,0).rgba()]
for i in range(254):
r,g,b = numpy.random.randint(0,255), numpy.random.randint(0,255), numpy.random.randint(0,255)
self._doneSegmentationColortable.append(QColor(r,g,b).rgba())
self._doneSegmentationColortable[1:17] = colortables.default16
makeColortable()
self._doneSegmentationLayer = None
def onRandomizeColors():
if self._doneSegmentationLayer is not None:
print "randomizing colors ..."
makeColortable()
self._doneSegmentationLayer.colorTable = self._doneSegmentationColortable
if self.render and self._renderMgr.ready:
self._update_rendering()
def createDrawerControls(self):
"""
This is a separate function from initAppletDrawer() so that it can be
called and used within another applet (this class is a mixin).
"""
op = self.__topLevelOperatorView
def configure_update_handlers(qt_signal, op_slot):
qt_signal.connect(self.configure_operator_from_gui)
op_slot.notifyDirty(self.configure_gui_from_operator)
self.__cleanup_fns.append(
partial(op_slot.unregisterDirty,
self.configure_gui_from_operator))
def control_layout(label_text, widget):
row_layout = QHBoxLayout()
row_layout.addWidget(QLabel(label_text))
row_layout.addSpacerItem(QSpacerItem(10, 0, QSizePolicy.Expanding))
row_layout.addWidget(widget)
return row_layout
drawer_layout = QVBoxLayout()
drawer_layout.setSpacing(1)
# Beta
beta_box = QDoubleSpinBox(
decimals=2,
minimum=0.01,
maximum=0.99,
singleStep=0.1,
toolTip="Bias parameter for the multicut optimization.")
configure_update_handlers(beta_box.valueChanged, op.Beta)
beta_layout = control_layout("Beta", beta_box)
drawer_layout.addLayout(beta_layout)
self.beta_box = beta_box
# Solver
solver_name_combo = QComboBox(
toolTip=
"Multicut optimization technique. Available solvers depend on which optimizer library you have installed."
)
for solver_name in AVAILABLE_SOLVER_NAMES:
solver_name_combo.addItem(solver_name)
configure_update_handlers(solver_name_combo.currentIndexChanged,
op.SolverName)
drawer_layout.addLayout(control_layout("Solver", solver_name_combo))
self.solver_name_combo = solver_name_combo
button_layout = QHBoxLayout()
# Live Multicut Button
live_multicut_button = QPushButton(text="Live Multicut",
checkable=True,
icon=QIcon(ilastikIcons.Play))
configure_update_handlers(live_multicut_button.toggled, op.FreezeCache)
# Extra: Auto-show the multicut edges if necessary.
def auto_show_multicut_layer(checked):
if checked:
self.getLayerByName("Multicut Edges").visible = True
live_multicut_button.toggled.connect(auto_show_multicut_layer)
button_layout.addWidget(live_multicut_button)
self.live_multicut_button = live_multicut_button
# Update Button
update_button = QPushButton(
text="Update Now",
icon=QIcon(ilastikIcons.Play),
clicked=self._handle_mulicut_update_clicked)
button_layout.addWidget(update_button)
self.update_button = update_button
drawer_layout.addLayout(button_layout)
# Layout
drawer_layout.addSpacerItem(
QSpacerItem(0, 10, QSizePolicy.Minimum, QSizePolicy.Expanding))
# Finally, the whole drawer widget
drawer = QWidget(parent=self)
drawer.setLayout(drawer_layout)
# Widget Shortcuts
mgr = ShortcutManager()
ActionInfo = ShortcutManager.ActionInfo
shortcut_group = "Multicut"
mgr.register(
"u",
ActionInfo(
shortcut_group, "UpdateMulticut",
"Run the multicut optimization using the current edge probabilities",
update_button.click, update_button, update_button))
return drawer
def createDrawerControls(self):
"""
This is a separate function from initAppletDrawer() so that it can be
called and used within another applet (this class is a mixin).
"""
op = self.__topLevelOperatorView
def configure_update_handlers(qt_signal, op_slot):
qt_signal.connect(self.configure_operator_from_gui)
op_slot.notifyDirty(self.configure_gui_from_operator)
self.__cleanup_fns.append(partial(op_slot.unregisterDirty, self.configure_gui_from_operator))
def control_layout(label_text, widget):
row_layout = QHBoxLayout()
row_layout.addWidget(QLabel(label_text))
row_layout.addSpacerItem(QSpacerItem(10, 0, QSizePolicy.Expanding))
row_layout.addWidget(widget)
return row_layout
drawer_layout = QVBoxLayout()
drawer_layout.setSpacing(1)
# Beta
beta_box = QDoubleSpinBox(
decimals=2,
minimum=0.01,
maximum=0.99,
singleStep=0.1,
toolTip="Bias parameter for the multicut optimization.",
)
configure_update_handlers(beta_box.valueChanged, op.Beta)
beta_layout = control_layout("Beta", beta_box)
drawer_layout.addLayout(beta_layout)
self.beta_box = beta_box
# Solver
solver_name_combo = QComboBox(
toolTip="Multicut optimization technique. Available solvers depend on which optimizer library you have installed."
)
for solver_name in AVAILABLE_SOLVER_NAMES:
solver_name_combo.addItem(solver_name)
configure_update_handlers(solver_name_combo.currentIndexChanged, op.SolverName)
drawer_layout.addLayout(control_layout("Solver", solver_name_combo))
self.solver_name_combo = solver_name_combo
# Update Button
update_button = QPushButton(
text="Update Multicut", icon=QIcon(ilastikIcons.Play), clicked=self.onUpdateMulticutButton
)
drawer_layout.addWidget(update_button)
# Layout
drawer_layout.addSpacerItem(QSpacerItem(0, 10, QSizePolicy.Minimum, QSizePolicy.Expanding))
# Finally, the whole drawer widget
drawer = QWidget(parent=self)
drawer.setLayout(drawer_layout)
# Widget Shortcuts
mgr = ShortcutManager()
ActionInfo = ShortcutManager.ActionInfo
shortcut_group = "Multicut"
mgr.register(
"u",
ActionInfo(
shortcut_group,
"UpdateMulticut",
"Run the multicut optimization using the current edge probabilities",
update_button.click,
update_button,
update_button,
),
)
return drawer
def __init__(self, parentApplet, topLevelOperatorView, drawerUiPath=None ):
self.topLevelOperatorView = topLevelOperatorView
#members
self._doneSegmentationLayer = None
self._showSegmentationIn3D = False
#self._showUncertaintyLayer = False
#end: members
labelingSlots = LabelingGui.LabelingSlots()
labelingSlots.labelInput = topLevelOperatorView.WriteSeeds
labelingSlots.labelOutput = topLevelOperatorView.opLabelArray.Output
labelingSlots.labelEraserValue = topLevelOperatorView.opLabelArray.EraserLabelValue
labelingSlots.labelNames = topLevelOperatorView.LabelNames
labelingSlots.labelDelete = topLevelOperatorView.opLabelArray.DeleteLabel
labelingSlots.maxLabelValue = topLevelOperatorView.opLabelArray.MaxLabelValue
# We provide our own UI file (which adds an extra control for interactive mode)
directory = os.path.split(__file__)[0]
if drawerUiPath is None:
drawerUiPath = os.path.join(directory, 'carvingDrawer.ui')
self.dialogdirCOM = os.path.join(directory, 'carvingObjectManagement.ui')
self.dialogdirSAD = os.path.join(directory, 'saveAsDialog.ui')
super(CarvingGui, self).__init__(parentApplet, labelingSlots, topLevelOperatorView, drawerUiPath)
self.labelingDrawerUi.currentObjectLabel.setText("<not saved yet>")
# Init special base class members
self.minLabelNumber = 2
self.maxLabelNumber = 2
mgr = ShortcutManager()
ActionInfo = ShortcutManager.ActionInfo
#set up keyboard shortcuts
mgr.register( "3", ActionInfo( "Carving",
"Run interactive segmentation",
"Run interactive segmentation",
self.labelingDrawerUi.segment.click,
self.labelingDrawerUi.segment,
self.labelingDrawerUi.segment ) )
# Disable 3D view by default
self.render = False
tagged_shape = defaultdict(lambda: 1)
tagged_shape.update( topLevelOperatorView.InputData.meta.getTaggedShape() )
is_3d = (tagged_shape['x'] > 1 and tagged_shape['y'] > 1 and tagged_shape['z'] > 1)
if is_3d:
try:
self._renderMgr = RenderingManager( self.editor.view3d )
self._shownObjects3D = {}
self.render = True
except:
self.render = False
# Segmentation is toggled on by default in _after_init, below.
# (We can't enable it until the layers are all present.)
self._showSegmentationIn3D = False
self._segmentation_3d_label = None
self.labelingDrawerUi.segment.clicked.connect(self.onSegmentButton)
self.labelingDrawerUi.segment.setEnabled(True)
self.topLevelOperatorView.Segmentation.notifyDirty( bind( self._update_rendering ) )
self.topLevelOperatorView.HasSegmentation.notifyValueChanged( bind( self._updateGui ) )
## uncertainty
#self.labelingDrawerUi.pushButtonUncertaintyFG.setEnabled(False)
#self.labelingDrawerUi.pushButtonUncertaintyBG.setEnabled(False)
#def onUncertaintyFGButton():
# logger.debug( "uncertFG button clicked" )
# pos = self.topLevelOperatorView.getMaxUncertaintyPos(label=2)
# self.editor.posModel.slicingPos = (pos[0], pos[1], pos[2])
#self.labelingDrawerUi.pushButtonUncertaintyFG.clicked.connect(onUncertaintyFGButton)
#def onUncertaintyBGButton():
# logger.debug( "uncertBG button clicked" )
# pos = self.topLevelOperatorView.getMaxUncertaintyPos(label=1)
# self.editor.posModel.slicingPos = (pos[0], pos[1], pos[2])
#self.labelingDrawerUi.pushButtonUncertaintyBG.clicked.connect(onUncertaintyBGButton)
#def onUncertaintyCombo(value):
# if value == 0:
# value = "none"
# self.labelingDrawerUi.pushButtonUncertaintyFG.setEnabled(False)
# self.labelingDrawerUi.pushButtonUncertaintyBG.setEnabled(False)
# self._showUncertaintyLayer = False
# else:
# if value == 1:
# value = "localMargin"
# elif value == 2:
# value = "exchangeCount"
# elif value == 3:
# value = "gabow"
# else:
# raise RuntimeError("unhandled case '%r'" % value)
# self.labelingDrawerUi.pushButtonUncertaintyFG.setEnabled(True)
# self.labelingDrawerUi.pushButtonUncertaintyBG.setEnabled(True)
# self._showUncertaintyLayer = True
# logger.debug( "uncertainty changed to %r" % value )
# self.topLevelOperatorView.UncertaintyType.setValue(value)
# self.updateAllLayers() #make sure that an added/deleted uncertainty layer is recognized
#self.labelingDrawerUi.uncertaintyCombo.currentIndexChanged.connect(onUncertaintyCombo)
## background priority
def onBackgroundPrioritySpin(value):
logger.debug( "background priority changed to %f" % value )
self.topLevelOperatorView.BackgroundPriority.setValue(value)
self.labelingDrawerUi.backgroundPrioritySpin.valueChanged.connect(onBackgroundPrioritySpin)
def onBackgroundPriorityDirty(slot, roi):
oldValue = self.labelingDrawerUi.backgroundPrioritySpin.value()
newValue = self.topLevelOperatorView.BackgroundPriority.value
if newValue != oldValue:
self.labelingDrawerUi.backgroundPrioritySpin.setValue(newValue)
self.topLevelOperatorView.BackgroundPriority.notifyDirty(onBackgroundPriorityDirty)
## bias
def onNoBiasBelowDirty(slot, roi):
oldValue = self.labelingDrawerUi.noBiasBelowSpin.value()
newValue = self.topLevelOperatorView.NoBiasBelow.value
if newValue != oldValue:
self.labelingDrawerUi.noBiasBelowSpin.setValue(newValue)
self.topLevelOperatorView.NoBiasBelow.notifyDirty(onNoBiasBelowDirty)
def onNoBiasBelowSpin(value):
logger.debug( "background priority changed to %f" % value )
self.topLevelOperatorView.NoBiasBelow.setValue(value)
self.labelingDrawerUi.noBiasBelowSpin.valueChanged.connect(onNoBiasBelowSpin)
## save
self.labelingDrawerUi.save.clicked.connect(self.onSaveButton)
## clear
self.labelingDrawerUi.clear.clicked.connect(self._onClearAction)
## object names
self.labelingDrawerUi.namesButton.clicked.connect(self.onShowObjectNames)
if hasattr( self.labelingDrawerUi, 'exportAllMeshesButton' ):
self.labelingDrawerUi.exportAllMeshesButton.clicked.connect(self._exportAllObjectMeshes)
self.labelingDrawerUi.labelListView.allowDelete = False
self._labelControlUi.labelListModel.allowRemove(False)
def layerIndexForName(name):
return self.layerstack.findMatchingIndex(lambda x: x.name == name)
def addLayerToggleShortcut(layername, shortcut):
def toggle():
row = layerIndexForName(layername)
self.layerstack.selectRow(row)
layer = self.layerstack[row]
layer.visible = not layer.visible
self.viewerControlWidget().layerWidget.setFocus()
mgr.register(shortcut, ActionInfo( "Carving",
"Toggle layer %s" % layername,
"Toggle layer %s" % layername,
toggle,
self.viewerControlWidget(),
None ) )
#TODO
addLayerToggleShortcut("Completed segments (unicolor)", "d")
addLayerToggleShortcut("Segmentation", "s")
addLayerToggleShortcut("Input Data", "r")
def makeColortable():
self._doneSegmentationColortable = [QColor(0,0,0,0).rgba()]
for i in range(254):
r,g,b = numpy.random.randint(0,255), numpy.random.randint(0,255), numpy.random.randint(0,255)
# ensure colors have sufficient distance to pure red and pure green
while (255 - r)+g+b<128 or r+(255-g)+b<128:
r,g,b = numpy.random.randint(0,255), numpy.random.randint(0,255), numpy.random.randint(0,255)
self._doneSegmentationColortable.append(QColor(r,g,b).rgba())
self._doneSegmentationColortable.append(QColor(0,255,0).rgba())
makeColortable()
def onRandomizeColors():
if self._doneSegmentationLayer is not None:
logger.debug( "randomizing colors ..." )
makeColortable()
self._doneSegmentationLayer.colorTable = self._doneSegmentationColortable
if self.render and self._renderMgr.ready:
self._update_rendering()
#self.labelingDrawerUi.randomizeColors.clicked.connect(onRandomizeColors)
self._updateGui()
def __initShortcuts(self):
mgr = ShortcutManager()
ActionInfo = ShortcutManager.ActionInfo
shortcutGroupName = "Labeling"
if hasattr(self.labelingDrawerUi, "AddLabelButton"):
mgr.register(
"a",
ActionInfo(
shortcutGroupName,
"New Label",
"Add New Label Class",
self.labelingDrawerUi.AddLabelButton.click,
self.labelingDrawerUi.AddLabelButton,
self.labelingDrawerUi.AddLabelButton,
),
)
mgr.register(
"n",
ActionInfo(
shortcutGroupName,
"Navigation Cursor",
"Navigation Cursor",
self.labelingDrawerUi.arrowToolButton.click,
self.labelingDrawerUi.arrowToolButton,
self.labelingDrawerUi.arrowToolButton,
),
)
mgr.register(
"b",
ActionInfo(
shortcutGroupName,
"Brush Cursor",
"Brush Cursor",
self.labelingDrawerUi.paintToolButton.click,
self.labelingDrawerUi.paintToolButton,
self.labelingDrawerUi.paintToolButton,
),
)
mgr.register(
"e",
ActionInfo(
shortcutGroupName,
"Eraser Cursor",
"Eraser Cursor",
self.labelingDrawerUi.eraserToolButton.click,
self.labelingDrawerUi.eraserToolButton,
self.labelingDrawerUi.eraserToolButton,
),
)
mgr.register(
",",
ActionInfo(
shortcutGroupName,
"Decrease Brush Size",
"Decrease Brush Size",
partial(self._tweakBrushSize, False),
self.labelingDrawerUi.brushSizeComboBox,
self.labelingDrawerUi.brushSizeComboBox,
),
)
mgr.register(
".",
ActionInfo(
shortcutGroupName,
"Increase Brush Size",
"Increase Brush Size",
partial(self._tweakBrushSize, True),
self.labelingDrawerUi.brushSizeComboBox,
self.labelingDrawerUi.brushSizeComboBox,
),
)
if hasattr(self.labelingDrawerUi, "thresToolButton"):
mgr.register(
"t",
ActionInfo(
shortcutGroupName,
"Window Leveling",
"<p>Window Leveling can be used to adjust the data range used for visualization. Pressing the left mouse button while moving the mouse back and forth changes the window width (data range). Moving the mouse in the left-right plane changes the window mean. Pressing the right mouse button resets the view back to the original data.",
self.labelingDrawerUi.thresToolButton.click,
self.labelingDrawerUi.thresToolButton,
self.labelingDrawerUi.thresToolButton,
),
)
if hasattr(self.labelingDrawerUi, "liveUpdateButton"):
mgr.register(
"l",
ActionInfo(
shortcutGroupName,
"Live Prediction",
"Toggle Live Prediction Mode",
self.labelingDrawerUi.liveUpdateButton.toggle,
self.labelingDrawerUi.liveUpdateButton,
self.labelingDrawerUi.liveUpdateButton,
),
)
self._labelShortcuts = []
def __initShortcuts(self):
mgr = ShortcutManager()
ActionInfo = ShortcutManager.ActionInfo
shortcutGroupName = "Labeling"
if hasattr(self.labelingDrawerUi, "AddLabelButton"):
mgr.register("a", ActionInfo(shortcutGroupName,
"New Label",
"Add New Label Class",
self.labelingDrawerUi.AddLabelButton.click,
self.labelingDrawerUi.AddLabelButton,
self.labelingDrawerUi.AddLabelButton))
mgr.register("n", ActionInfo(shortcutGroupName,
"Navigation Cursor",
"Navigation Cursor",
self.labelingDrawerUi.arrowToolButton.click,
self.labelingDrawerUi.arrowToolButton,
self.labelingDrawerUi.arrowToolButton))
mgr.register("b", ActionInfo( shortcutGroupName,
"Brush Cursor",
"Brush Cursor",
self.labelingDrawerUi.paintToolButton.click,
self.labelingDrawerUi.paintToolButton,
self.labelingDrawerUi.paintToolButton))
mgr.register("e", ActionInfo(shortcutGroupName,
"Eraser Cursor",
"Eraser Cursor",
self.labelingDrawerUi.eraserToolButton.click,
self.labelingDrawerUi.eraserToolButton,
self.labelingDrawerUi.eraserToolButton))
mgr.register(",", ActionInfo( shortcutGroupName,
"Decrease Brush Size",
"Decrease Brush Size",
partial(self._tweakBrushSize, False),
self.labelingDrawerUi.brushSizeComboBox,
self.labelingDrawerUi.brushSizeComboBox))
mgr.register(".", ActionInfo(shortcutGroupName,
"Increase Brush Size",
"Increase Brush Size",
partial(self._tweakBrushSize, True),
self.labelingDrawerUi.brushSizeComboBox,
self.labelingDrawerUi.brushSizeComboBox))
if hasattr(self.labelingDrawerUi, "thresToolButton"):
mgr.register("t", ActionInfo(shortcutGroupName,
"Window Leveling",
"<p>Window Leveling can be used to adjust the data range used for visualization. Pressing the left mouse button while moving the mouse back and forth changes the window width (data range). Moving the mouse in the left-right plane changes the window mean. Pressing the right mouse button resets the view back to the original data.",
self.labelingDrawerUi.thresToolButton.click,
self.labelingDrawerUi.thresToolButton,
self.labelingDrawerUi.thresToolButton))
self._labelShortcuts = []
def createDrawerControls(self):
"""
This is a separate function from initAppletDrawer() so that it can be
called and used within another applet (this class is a mixin).
"""
op = self.__topLevelOperatorView
def configure_update_handlers(qt_signal, op_slot):
qt_signal.connect(self.configure_operator_from_gui)
op_slot.notifyDirty(self.configure_gui_from_operator)
self.__cleanup_fns.append(partial(op_slot.unregisterDirty, self.configure_gui_from_operator))
def control_layout(label_text, widget):
row_layout = QHBoxLayout()
row_layout.addWidget(QLabel(label_text))
row_layout.addSpacerItem(QSpacerItem(10, 0, QSizePolicy.Expanding))
row_layout.addWidget(widget)
return row_layout
drawer_layout = QVBoxLayout()
drawer_layout.setSpacing(1)
# Beta
beta_box = QDoubleSpinBox(
decimals=2,
minimum=0.01,
maximum=0.99,
singleStep=0.1,
toolTip="Bias parameter for the multicut optimization.",
)
configure_update_handlers(beta_box.valueChanged, op.Beta)
beta_layout = control_layout("Beta", beta_box)
self.beta_box = beta_box
# Beta parameter only modifiable in debug mode
dbg = ilastik_config.getboolean("ilastik", "debug")
if dbg:
drawer_layout.addLayout(beta_layout)
# Probability Threshold - above which an edge is 'on'
probability_threshold_box = QDoubleSpinBox(
decimals=2,
minimum=0.01,
maximum=0.99,
singleStep=0.1,
toolTip="Probability threshold for an edge to be 'ON'",
)
configure_update_handlers(probability_threshold_box.valueChanged, op.ProbabilityThreshold)
probability_threshold_layout = control_layout("Threshold", probability_threshold_box)
drawer_layout.addLayout(probability_threshold_layout)
drawer_layout.addSpacerItem(QSpacerItem(0, 10, QSizePolicy.Minimum, QSizePolicy.Expanding))
self.probability_threshold_box = probability_threshold_box
# Solver
solver_name_combo = QComboBox(
toolTip="Multicut optimization technique. Available solvers depend on which optimizer library you have installed."
)
for solver_name in AVAILABLE_SOLVER_NAMES:
solver_name_combo.addItem(solver_name)
configure_update_handlers(solver_name_combo.currentIndexChanged, op.SolverName)
# Only add the solver checkbox in debug mode
if dbg:
drawer_layout.addLayout(control_layout("Solver", solver_name_combo))
self.solver_name_combo = solver_name_combo
button_layout = QHBoxLayout()
# Update Button
update_button = QPushButton(
text="Update Now", icon=QIcon(ilastikIcons.Play), clicked=self._handle_multicut_update_clicked
)
button_layout.addWidget(update_button)
self.update_button = update_button
drawer_layout.addLayout(button_layout)
# Layout
drawer_layout.addSpacerItem(QSpacerItem(0, 10, QSizePolicy.Minimum, QSizePolicy.Expanding))
# Finally, the whole drawer widget
drawer = QWidget(parent=self)
drawer.setLayout(drawer_layout)
# Widget Shortcuts
mgr = ShortcutManager()
ActionInfo = ShortcutManager.ActionInfo
shortcut_group = "Multicut"
mgr.register(
"u",
ActionInfo(
shortcut_group,
"UpdateMulticut",
"Run the multicut optimization using the current edge probabilities",
update_button.click,
update_button,
update_button,
),
)
return drawer
def _initShortcuts(self):
mgr = ShortcutManager()
shortcutGroupName = "Manual Tracking"
divisionEvent = QtGui.QShortcut( QtGui.QKeySequence("d"), self, member=self._drawer.divEvent.click )
mgr.register( shortcutGroupName,
"Mark Division Event (Click on parent object first, then on the two children.)",
divisionEvent,
self._drawer.divEvent )
newTrack = QtGui.QShortcut( QtGui.QKeySequence("s"), self, member=self._drawer.newTrack.click )
mgr.register( shortcutGroupName,
"Start New Track",
newTrack,
self._drawer.newTrack )
markMisdet = QtGui.QShortcut( QtGui.QKeySequence("f"), self, member=self._drawer.markMisdetection.click )
mgr.register( shortcutGroupName,
"Mark False Detection",
markMisdet,
self._drawer.markMisdetection )
activeTrackUp = QtGui.QShortcut( QtGui.QKeySequence("q"), self, member=self._incrementActiveTrack )
mgr.register( shortcutGroupName,
"Increment Active Track ID",
activeTrackUp,)
activeTrackDown = QtGui.QShortcut( QtGui.QKeySequence("a"), self, member=self._decrementActiveTrack )
mgr.register( shortcutGroupName,
"Decrement Active Track ID",
activeTrackDown,)
goToNext = QtGui.QShortcut( QtGui.QKeySequence("g"), self, member=self._onNextUnlabeledPressed )
mgr.register( shortcutGroupName,
"Go To Next Unlabeled Object",
goToNext,)
def _initShortcuts(self):
# TODO: Fix this dependency on ImageView/HUD internals
mgr = ShortcutManager()
ActionInfo = ShortcutManager.ActionInfo
mgr.register(
"x",
ActionInfo(
"Navigation",
"Minimize/Maximize x-Window",
"Minimize/Maximize x-Window",
self.quadview.switchXMinMax,
self.editor.imageViews[0].hud.buttons["maximize"],
self.editor.imageViews[0].hud.buttons["maximize"],
),
)
mgr.register(
"y",
ActionInfo(
"Navigation",
"Minimize/Maximize y-Window",
"Minimize/Maximize y-Window",
self.quadview.switchYMinMax,
self.editor.imageViews[1].hud.buttons["maximize"],
self.editor.imageViews[1].hud.buttons["maximize"],
),
)
mgr.register(
"z",
ActionInfo(
"Navigation",
"Minimize/Maximize z-Window",
"Minimize/Maximize z-Window",
self.quadview.switchZMinMax,
self.editor.imageViews[2].hud.buttons["maximize"],
self.editor.imageViews[2].hud.buttons["maximize"],
),
)
for i, v in enumerate(self.editor.imageViews):
mgr.register("+", ActionInfo("Navigation", "Zoom in", "Zoom in", v.zoomIn, v, None))
mgr.register("-", ActionInfo("Navigation", "Zoom out", "Zoom out", v.zoomOut, v, None))
mgr.register("c", ActionInfo("Navigation", "Center image", "Center image", v.centerImage, v, None))
mgr.register("h", ActionInfo("Navigation", "Toggle hud", "Toggle hud", v.toggleHud, v, None))
# FIXME: The nextChannel/previousChannel functions don't work right now.
# self._shortcutHelper("q", "Navigation", "Switch to next channel", v, self.editor.nextChannel, Qt.WidgetShortcut))
# self._shortcutHelper("a", "Navigation", "Switch to previous channel", v, self.editor.previousChannel, Qt.WidgetShortcut))
def sliceDelta(axis, delta):
newPos = copy.copy(self.editor.posModel.slicingPos)
newPos[axis] += delta
newPos[axis] = max(0, newPos[axis])
newPos[axis] = min(self.editor.posModel.shape[axis] - 1, newPos[axis])
self.editor.posModel.slicingPos = newPos
def jumpToFirstSlice(axis):
newPos = copy.copy(self.editor.posModel.slicingPos)
newPos[axis] = 0
self.editor.posModel.slicingPos = newPos
def jumpToLastSlice(axis):
newPos = copy.copy(self.editor.posModel.slicingPos)
newPos[axis] = self.editor.posModel.shape[axis] - 1
self.editor.posModel.slicingPos = newPos
# TODO: Fix this dependency on ImageView/HUD internals
mgr.register(
"Ctrl+Up",
ActionInfo(
"Navigation", "Slice up", "Slice up", partial(sliceDelta, i, 1), v, v.hud.buttons["slice"].upLabel
),
)
mgr.register(
"Ctrl+Down",
ActionInfo(
"Navigation",
"Slice up",
"Slice up",
partial(sliceDelta, i, -1),
v,
v.hud.buttons["slice"].downLabel,
),
)
# self._shortcutHelper("p", "Navigation", "Slice up (alternate shortcut)", v, partial(sliceDelta, i, 1), Qt.WidgetShortcut)
# self._shortcutHelper("o", "Navigation", "Slice down (alternate shortcut)", v, partial(sliceDelta, i, -1), Qt.WidgetShortcut)
mgr.register(
"Ctrl+Shift+Up",
ActionInfo("Navigation", "10 slices up", "10 slices up", partial(sliceDelta, i, 10), v, None),
)
mgr.register(
"Ctrl+Shift+Down",
ActionInfo("Navigation", "10 slices down", "10 slices down", partial(sliceDelta, i, -10), v, None),
)
mgr.register(
"Shift+Up",
ActionInfo(
"Navigation", "Jump to first slice", "Jump to first slice", partial(jumpToFirstSlice, i), v, None
),
)
mgr.register(
"Shift+Down",
ActionInfo(
"Navigation", "Jump to last slice", "Jump to last slice", partial(jumpToLastSlice, i), v, None
),
)
def _initShortcuts(self):
# TODO: Fix this dependency on ImageView/HUD internals
mgr = ShortcutManager()
ActionInfo = ShortcutManager.ActionInfo
mgr.register(
"x",
ActionInfo(
"Navigation",
"Minimize/Maximize x-Window",
"Minimize/Maximize x-Window",
self.quadview.switchXMinMax,
self.editor.imageViews[0].hud.buttons["maximize"],
self.editor.imageViews[0].hud.buttons["maximize"],
),
)
mgr.register(
"y",
ActionInfo(
"Navigation",
"Minimize/Maximize y-Window",
"Minimize/Maximize y-Window",
self.quadview.switchYMinMax,
self.editor.imageViews[1].hud.buttons["maximize"],
self.editor.imageViews[1].hud.buttons["maximize"],
),
)
mgr.register(
"z",
ActionInfo(
"Navigation",
"Minimize/Maximize z-Window",
"Minimize/Maximize z-Window",
self.quadview.switchZMinMax,
self.editor.imageViews[2].hud.buttons["maximize"],
self.editor.imageViews[2].hud.buttons["maximize"],
),
)
for i, v in enumerate(self.editor.imageViews):
mgr.register(
"+",
ActionInfo("Navigation", "Zoom in", "Zoom in", v.zoomIn, v,
None))
mgr.register(
"-",
ActionInfo("Navigation", "Zoom out", "Zoom out", v.zoomOut, v,
None))
mgr.register(
"c",
ActionInfo("Navigation", "Center image", "Center image",
v.centerImage, v, None))
mgr.register(
"h",
ActionInfo("Navigation", "Toggle hud", "Toggle hud",
v.toggleHud, v, None))
# FIXME: The nextChannel/previousChannel functions don't work right now.
# self._shortcutHelper("q", "Navigation", "Switch to next channel", v, self.editor.nextChannel, Qt.WidgetShortcut))
# self._shortcutHelper("a", "Navigation", "Switch to previous channel", v, self.editor.previousChannel, Qt.WidgetShortcut))
def sliceDelta(axis, delta):
newPos = copy.copy(self.editor.posModel.slicingPos)
newPos[axis] += delta
newPos[axis] = max(0, newPos[axis])
newPos[axis] = min(self.editor.posModel.shape[axis] - 1,
newPos[axis])
self.editor.posModel.slicingPos = newPos
def jumpToFirstSlice(axis):
newPos = copy.copy(self.editor.posModel.slicingPos)
newPos[axis] = 0
self.editor.posModel.slicingPos = newPos
def jumpToLastSlice(axis):
newPos = copy.copy(self.editor.posModel.slicingPos)
newPos[axis] = self.editor.posModel.shape[axis] - 1
self.editor.posModel.slicingPos = newPos
# TODO: Fix this dependency on ImageView/HUD internals
mgr.register(
"Ctrl+Up",
ActionInfo("Navigation", "Slice up", "Slice up",
partial(sliceDelta, i, 1), v,
v.hud.buttons["slice"].upLabel),
)
mgr.register(
"Ctrl+Down",
ActionInfo(
"Navigation",
"Slice down",
"Slice down",
partial(sliceDelta, i, -1),
v,
v.hud.buttons["slice"].downLabel,
),
)
# self._shortcutHelper("p", "Navigation", "Slice up (alternate shortcut)", v, partial(sliceDelta, i, 1), Qt.WidgetShortcut)
# self._shortcutHelper("o", "Navigation", "Slice down (alternate shortcut)", v, partial(sliceDelta, i, -1), Qt.WidgetShortcut)
mgr.register(
"Ctrl+Shift+Up",
ActionInfo("Navigation", "10 slices up", "10 slices up",
partial(sliceDelta, i, 10), v, None),
)
mgr.register(
"Ctrl+Shift+Down",
ActionInfo("Navigation", "10 slices down", "10 slices down",
partial(sliceDelta, i, -10), v, None),
)
mgr.register(
"Shift+Up",
ActionInfo("Navigation",
"Jump to first slice", "Jump to first slice",
partial(jumpToFirstSlice, i), v, None),
)
mgr.register(
"Shift+Down",
ActionInfo("Navigation",
"Jump to last slice", "Jump to last slice",
partial(jumpToLastSlice, i), v, None),
)
def __init__(self, parentApplet, topLevelOperatorView, drawerUiPath=None ):
self.topLevelOperatorView = topLevelOperatorView
#members
self._doneSegmentationLayer = None
self._showSegmentationIn3D = False
self._showUncertaintyLayer = False
#end: members
labelingSlots = LabelingGui.LabelingSlots()
labelingSlots.labelInput = topLevelOperatorView.WriteSeeds
labelingSlots.labelOutput = topLevelOperatorView.opLabelArray.Output
labelingSlots.labelEraserValue = topLevelOperatorView.opLabelArray.EraserLabelValue
labelingSlots.labelNames = topLevelOperatorView.LabelNames
labelingSlots.labelDelete = topLevelOperatorView.opLabelArray.DeleteLabel
labelingSlots.maxLabelValue = topLevelOperatorView.opLabelArray.MaxLabelValue
labelingSlots.labelsAllowed = topLevelOperatorView.LabelsAllowed
# We provide our own UI file (which adds an extra control for interactive mode)
directory = os.path.split(__file__)[0]
if drawerUiPath is None:
drawerUiPath = os.path.join(directory, 'carvingDrawer.ui')
self.dialogdirCOM = os.path.join(directory, 'carvingObjectManagement.ui')
self.dialogdirSAD = os.path.join(directory, 'saveAsDialog.ui')
rawInputSlot = topLevelOperatorView.RawData
super(CarvingGui, self).__init__(parentApplet, labelingSlots, topLevelOperatorView, drawerUiPath, rawInputSlot)
self.labelingDrawerUi.currentObjectLabel.setText("<not saved yet>")
# Init special base class members
self.minLabelNumber = 2
self.maxLabelNumber = 2
mgr = ShortcutManager()
ActionInfo = ShortcutManager.ActionInfo
#set up keyboard shortcuts
mgr.register( "3", ActionInfo( "Carving",
"Run interactive segmentation",
"Run interactive segmentation",
self.labelingDrawerUi.segment.click,
self.labelingDrawerUi.segment,
self.labelingDrawerUi.segment ) )
try:
self.render = True
self._shownObjects3D = {}
self._renderMgr = RenderingManager(
renderer=self.editor.view3d.qvtk.renderer,
qvtk=self.editor.view3d.qvtk)
except:
self.render = False
# Segmentation is toggled on by default in _after_init, below.
# (We can't enable it until the layers are all present.)
self._showSegmentationIn3D = False
self._segmentation_3d_label = None
self.labelingDrawerUi.segment.clicked.connect(self.onSegmentButton)
self.labelingDrawerUi.segment.setEnabled(True)
self.topLevelOperatorView.Segmentation.notifyDirty( bind( self._update_rendering ) )
self.topLevelOperatorView.HasSegmentation.notifyValueChanged( bind( self._updateGui ) )
## uncertainty
self.labelingDrawerUi.pushButtonUncertaintyFG.setEnabled(False)
self.labelingDrawerUi.pushButtonUncertaintyBG.setEnabled(False)
def onUncertaintyFGButton():
logger.debug( "uncertFG button clicked" )
pos = self.topLevelOperatorView.getMaxUncertaintyPos(label=2)
self.editor.posModel.slicingPos = (pos[0], pos[1], pos[2])
self.labelingDrawerUi.pushButtonUncertaintyFG.clicked.connect(onUncertaintyFGButton)
def onUncertaintyBGButton():
logger.debug( "uncertBG button clicked" )
pos = self.topLevelOperatorView.getMaxUncertaintyPos(label=1)
self.editor.posModel.slicingPos = (pos[0], pos[1], pos[2])
self.labelingDrawerUi.pushButtonUncertaintyBG.clicked.connect(onUncertaintyBGButton)
def onUncertaintyCombo(value):
if value == 0:
value = "none"
self.labelingDrawerUi.pushButtonUncertaintyFG.setEnabled(False)
self.labelingDrawerUi.pushButtonUncertaintyBG.setEnabled(False)
self._showUncertaintyLayer = False
else:
if value == 1:
value = "localMargin"
elif value == 2:
value = "exchangeCount"
elif value == 3:
value = "gabow"
else:
raise RuntimeError("unhandled case '%r'" % value)
self.labelingDrawerUi.pushButtonUncertaintyFG.setEnabled(True)
self.labelingDrawerUi.pushButtonUncertaintyBG.setEnabled(True)
self._showUncertaintyLayer = True
logger.debug( "uncertainty changed to %r" % value )
self.topLevelOperatorView.UncertaintyType.setValue(value)
self.updateAllLayers() #make sure that an added/deleted uncertainty layer is recognized
self.labelingDrawerUi.uncertaintyCombo.currentIndexChanged.connect(onUncertaintyCombo)
## background priority
def onBackgroundPrioritySpin(value):
logger.debug( "background priority changed to %f" % value )
self.topLevelOperatorView.BackgroundPriority.setValue(value)
self.labelingDrawerUi.backgroundPrioritySpin.valueChanged.connect(onBackgroundPrioritySpin)
def onBackgroundPriorityDirty(slot, roi):
oldValue = self.labelingDrawerUi.backgroundPrioritySpin.value()
newValue = self.topLevelOperatorView.BackgroundPriority.value
if newValue != oldValue:
self.labelingDrawerUi.backgroundPrioritySpin.setValue(newValue)
self.topLevelOperatorView.BackgroundPriority.notifyDirty(onBackgroundPriorityDirty)
## bias
def onNoBiasBelowDirty(slot, roi):
oldValue = self.labelingDrawerUi.noBiasBelowSpin.value()
newValue = self.topLevelOperatorView.NoBiasBelow.value
if newValue != oldValue:
self.labelingDrawerUi.noBiasBelowSpin.setValue(newValue)
self.topLevelOperatorView.NoBiasBelow.notifyDirty(onNoBiasBelowDirty)
def onNoBiasBelowSpin(value):
logger.debug( "background priority changed to %f" % value )
self.topLevelOperatorView.NoBiasBelow.setValue(value)
self.labelingDrawerUi.noBiasBelowSpin.valueChanged.connect(onNoBiasBelowSpin)
## save
self.labelingDrawerUi.save.clicked.connect(self.onSaveButton)
## clear
self.labelingDrawerUi.clear.clicked.connect(self.topLevelOperatorView.clearCurrentLabeling)
## object names
self.labelingDrawerUi.namesButton.clicked.connect(self.onShowObjectNames)
def labelBackground():
self.selectLabel(0)
def labelObject():
self.selectLabel(1)
self._labelControlUi.labelListModel.allowRemove(False)
bgToolTipObject = LabelListModel.EntryToolTipAdapter(self._labelControlUi.labelListModel, 0)
mgr.register( "1", ActionInfo( "Carving",
"Select background label",
"Select background label",
labelBackground,
self.viewerControlWidget(),
bgToolTipObject ) )
fgToolTipObject = LabelListModel.EntryToolTipAdapter(self._labelControlUi.labelListModel, 1)
mgr.register( "2", ActionInfo( "Carving",
"Select object label",
"Select object label",
labelObject,
self.viewerControlWidget(),
fgToolTipObject ) )
def layerIndexForName(name):
return self.layerstack.findMatchingIndex(lambda x: x.name == name)
def addLayerToggleShortcut(layername, shortcut):
def toggle():
row = layerIndexForName(layername)
self.layerstack.selectRow(row)
layer = self.layerstack[row]
layer.visible = not layer.visible
self.viewerControlWidget().layerWidget.setFocus()
mgr.register(shortcut, ActionInfo( "Carving",
"Toggle layer %s" % layername,
"Toggle layer %s" % layername,
toggle,
self.viewerControlWidget(),
None ) )
#TODO
addLayerToggleShortcut("Completed segments (unicolor)", "d")
addLayerToggleShortcut("Segmentation", "s")
addLayerToggleShortcut("Input Data", "r")
'''
def updateLayerTimings():
s = "Layer timings:\n"
for l in self.layerstack:
s += "%s: %f sec.\n" % (l.name, l.averageTimePerTile)
self.labelingDrawerUi.layerTimings.setText(s)
t = QTimer(self)
t.setInterval(1*1000) # 10 seconds
t.start()
t.timeout.connect(updateLayerTimings)
'''
def makeColortable():
self._doneSegmentationColortable = [QColor(0,0,0,0).rgba()]
for i in range(254):
r,g,b = numpy.random.randint(0,255), numpy.random.randint(0,255), numpy.random.randint(0,255)
# ensure colors have sufficient distance to pure red and pure green
while (255 - r)+g+b<128 or r+(255-g)+b<128:
r,g,b = numpy.random.randint(0,255), numpy.random.randint(0,255), numpy.random.randint(0,255)
self._doneSegmentationColortable.append(QColor(r,g,b).rgba())
self._doneSegmentationColortable.append(QColor(0,255,0).rgba())
makeColortable()
def onRandomizeColors():
if self._doneSegmentationLayer is not None:
logger.debug( "randomizing colors ..." )
makeColortable()
self._doneSegmentationLayer.colorTable = self._doneSegmentationColortable
if self.render and self._renderMgr.ready:
self._update_rendering()
#self.labelingDrawerUi.randomizeColors.clicked.connect(onRandomizeColors)
self._updateGui()
def __init__(self, parentApplet, topLevelOperatorView, drawerUiPath=None ):
self.topLevelOperatorView = topLevelOperatorView
#members
self._doneSegmentationLayer = None
self._showSegmentationIn3D = False
self._showUncertaintyLayer = False
#end: members
labelingSlots = LabelingGui.LabelingSlots()
labelingSlots.labelInput = topLevelOperatorView.WriteSeeds
labelingSlots.labelOutput = topLevelOperatorView.opLabelArray.Output
labelingSlots.labelEraserValue = topLevelOperatorView.opLabelArray.EraserLabelValue
labelingSlots.labelNames = topLevelOperatorView.LabelNames
labelingSlots.labelDelete = topLevelOperatorView.opLabelArray.DeleteLabel
labelingSlots.maxLabelValue = topLevelOperatorView.opLabelArray.MaxLabelValue
labelingSlots.labelsAllowed = topLevelOperatorView.LabelsAllowed
# We provide our own UI file (which adds an extra control for interactive mode)
directory = os.path.split(__file__)[0]
if drawerUiPath is None:
drawerUiPath = os.path.join(directory, 'carvingDrawer.ui')
self.dialogdirCOM = os.path.join(directory, 'carvingObjectManagement.ui')
self.dialogdirSAD = os.path.join(directory, 'saveAsDialog.ui')
rawInputSlot = topLevelOperatorView.RawData
super(CarvingGui, self).__init__(parentApplet, labelingSlots, topLevelOperatorView, drawerUiPath, rawInputSlot)
self.labelingDrawerUi.currentObjectLabel.setText("<not saved yet>")
# Init special base class members
self.minLabelNumber = 2
self.maxLabelNumber = 2
mgr = ShortcutManager()
ActionInfo = ShortcutManager.ActionInfo
#set up keyboard shortcuts
mgr.register( "3", ActionInfo( "Carving",
"Run interactive segmentation",
"Run interactive segmentation",
self.labelingDrawerUi.segment.click,
self.labelingDrawerUi.segment,
self.labelingDrawerUi.segment ) )
try:
self.render = True
self._shownObjects3D = {}
self._renderMgr = RenderingManager( self.editor.view3d )
except:
self.render = False
# Segmentation is toggled on by default in _after_init, below.
# (We can't enable it until the layers are all present.)
self._showSegmentationIn3D = False
self._segmentation_3d_label = None
self.labelingDrawerUi.segment.clicked.connect(self.onSegmentButton)
self.labelingDrawerUi.segment.setEnabled(True)
self.topLevelOperatorView.Segmentation.notifyDirty( bind( self._update_rendering ) )
self.topLevelOperatorView.HasSegmentation.notifyValueChanged( bind( self._updateGui ) )
## uncertainty
self.labelingDrawerUi.pushButtonUncertaintyFG.setEnabled(False)
self.labelingDrawerUi.pushButtonUncertaintyBG.setEnabled(False)
def onUncertaintyFGButton():
logger.debug( "uncertFG button clicked" )
pos = self.topLevelOperatorView.getMaxUncertaintyPos(label=2)
self.editor.posModel.slicingPos = (pos[0], pos[1], pos[2])
self.labelingDrawerUi.pushButtonUncertaintyFG.clicked.connect(onUncertaintyFGButton)
def onUncertaintyBGButton():
logger.debug( "uncertBG button clicked" )
pos = self.topLevelOperatorView.getMaxUncertaintyPos(label=1)
self.editor.posModel.slicingPos = (pos[0], pos[1], pos[2])
self.labelingDrawerUi.pushButtonUncertaintyBG.clicked.connect(onUncertaintyBGButton)
def onUncertaintyCombo(value):
if value == 0:
value = "none"
self.labelingDrawerUi.pushButtonUncertaintyFG.setEnabled(False)
self.labelingDrawerUi.pushButtonUncertaintyBG.setEnabled(False)
self._showUncertaintyLayer = False
else:
if value == 1:
value = "localMargin"
elif value == 2:
value = "exchangeCount"
elif value == 3:
value = "gabow"
else:
raise RuntimeError("unhandled case '%r'" % value)
self.labelingDrawerUi.pushButtonUncertaintyFG.setEnabled(True)
self.labelingDrawerUi.pushButtonUncertaintyBG.setEnabled(True)
self._showUncertaintyLayer = True
logger.debug( "uncertainty changed to %r" % value )
self.topLevelOperatorView.UncertaintyType.setValue(value)
self.updateAllLayers() #make sure that an added/deleted uncertainty layer is recognized
self.labelingDrawerUi.uncertaintyCombo.currentIndexChanged.connect(onUncertaintyCombo)
## background priority
def onBackgroundPrioritySpin(value):
logger.debug( "background priority changed to %f" % value )
self.topLevelOperatorView.BackgroundPriority.setValue(value)
self.labelingDrawerUi.backgroundPrioritySpin.valueChanged.connect(onBackgroundPrioritySpin)
def onBackgroundPriorityDirty(slot, roi):
oldValue = self.labelingDrawerUi.backgroundPrioritySpin.value()
newValue = self.topLevelOperatorView.BackgroundPriority.value
if newValue != oldValue:
self.labelingDrawerUi.backgroundPrioritySpin.setValue(newValue)
self.topLevelOperatorView.BackgroundPriority.notifyDirty(onBackgroundPriorityDirty)
## bias
def onNoBiasBelowDirty(slot, roi):
oldValue = self.labelingDrawerUi.noBiasBelowSpin.value()
newValue = self.topLevelOperatorView.NoBiasBelow.value
if newValue != oldValue:
self.labelingDrawerUi.noBiasBelowSpin.setValue(newValue)
self.topLevelOperatorView.NoBiasBelow.notifyDirty(onNoBiasBelowDirty)
def onNoBiasBelowSpin(value):
logger.debug( "background priority changed to %f" % value )
self.topLevelOperatorView.NoBiasBelow.setValue(value)
self.labelingDrawerUi.noBiasBelowSpin.valueChanged.connect(onNoBiasBelowSpin)
## save
self.labelingDrawerUi.save.clicked.connect(self.onSaveButton)
## clear
self.labelingDrawerUi.clear.clicked.connect(self._onClearAction)
## object names
self.labelingDrawerUi.namesButton.clicked.connect(self.onShowObjectNames)
if hasattr( self.labelingDrawerUi, 'exportAllMeshesButton' ):
self.labelingDrawerUi.exportAllMeshesButton.clicked.connect(self._exportAllObjectMeshes)
def labelBackground():
self.selectLabel(0)
def labelObject():
self.selectLabel(1)
self._labelControlUi.labelListModel.allowRemove(False)
bgToolTipObject = LabelListModel.EntryToolTipAdapter(self._labelControlUi.labelListModel, 0)
mgr.register( "1", ActionInfo( "Carving",
"Select background label",
"Select background label",
labelBackground,
self.viewerControlWidget(),
bgToolTipObject ) )
fgToolTipObject = LabelListModel.EntryToolTipAdapter(self._labelControlUi.labelListModel, 1)
mgr.register( "2", ActionInfo( "Carving",
"Select object label",
"Select object label",
labelObject,
self.viewerControlWidget(),
fgToolTipObject ) )
def layerIndexForName(name):
return self.layerstack.findMatchingIndex(lambda x: x.name == name)
def addLayerToggleShortcut(layername, shortcut):
def toggle():
row = layerIndexForName(layername)
self.layerstack.selectRow(row)
layer = self.layerstack[row]
layer.visible = not layer.visible
self.viewerControlWidget().layerWidget.setFocus()
mgr.register(shortcut, ActionInfo( "Carving",
"Toggle layer %s" % layername,
"Toggle layer %s" % layername,
toggle,
self.viewerControlWidget(),
None ) )
#TODO
addLayerToggleShortcut("Completed segments (unicolor)", "d")
addLayerToggleShortcut("Segmentation", "s")
addLayerToggleShortcut("Input Data", "r")
'''
def updateLayerTimings():
s = "Layer timings:\n"
for l in self.layerstack:
s += "%s: %f sec.\n" % (l.name, l.averageTimePerTile)
self.labelingDrawerUi.layerTimings.setText(s)
t = QTimer(self)
t.setInterval(1*1000) # 10 seconds
t.start()
t.timeout.connect(updateLayerTimings)
'''
def makeColortable():
self._doneSegmentationColortable = [QColor(0,0,0,0).rgba()]
for i in range(254):
r,g,b = numpy.random.randint(0,255), numpy.random.randint(0,255), numpy.random.randint(0,255)
# ensure colors have sufficient distance to pure red and pure green
while (255 - r)+g+b<128 or r+(255-g)+b<128:
r,g,b = numpy.random.randint(0,255), numpy.random.randint(0,255), numpy.random.randint(0,255)
self._doneSegmentationColortable.append(QColor(r,g,b).rgba())
self._doneSegmentationColortable.append(QColor(0,255,0).rgba())
makeColortable()
def onRandomizeColors():
if self._doneSegmentationLayer is not None:
logger.debug( "randomizing colors ..." )
makeColortable()
self._doneSegmentationLayer.colorTable = self._doneSegmentationColortable
if self.render and self._renderMgr.ready:
self._update_rendering()
#self.labelingDrawerUi.randomizeColors.clicked.connect(onRandomizeColors)
self._updateGui()
def __init__(self, topLevelOperatorView, drawerUiPath=None ):
self.topLevelOperatorView = topLevelOperatorView
labelingSlots = LabelingGui.LabelingSlots()
labelingSlots.labelInput = topLevelOperatorView.WriteSeeds
labelingSlots.labelOutput = topLevelOperatorView.opLabelArray.Output
labelingSlots.labelEraserValue = topLevelOperatorView.opLabelArray.EraserLabelValue
labelingSlots.labelDelete = topLevelOperatorView.opLabelArray.DeleteLabel
labelingSlots.maxLabelValue = topLevelOperatorView.opLabelArray.MaxLabelValue
labelingSlots.labelsAllowed = topLevelOperatorView.LabelsAllowed
# We provide our own UI file (which adds an extra control for interactive mode)
directory = os.path.split(__file__)[0]
if drawerUiPath is None:
drawerUiPath = os.path.join(directory, 'carvingDrawer.ui')
self.dialogdirCOM = os.path.join(directory, 'carvingObjectManagement.ui')
self.dialogdirSAD = os.path.join(directory, 'saveAsDialog.ui')
rawInputSlot = topLevelOperatorView.RawData
super(CarvingGui, self).__init__(labelingSlots, topLevelOperatorView, drawerUiPath, rawInputSlot)
# Init special base class members
self.minLabelNumber = 2
self.maxLabelNumber = 2
mgr = ShortcutManager()
#set up keyboard shortcuts
segmentShortcut = QShortcut(QKeySequence("3"), self, member=self.labelingDrawerUi.segment.click,
ambiguousMember=self.labelingDrawerUi.segment.click)
mgr.register("Carving", "Run interactive segmentation", segmentShortcut, self.labelingDrawerUi.segment)
self._doneSegmentationLayer = None
self._showSegmentationIn3D = False
#volume rendering
try:
self.render = True
self._shownObjects3D = {}
self._renderMgr = RenderingManager(
renderer=self.editor.view3d.qvtk.renderer,
qvtk=self.editor.view3d.qvtk)
except:
self.render = False
self.labelingDrawerUi.segment.clicked.connect(self.onSegmentButton)
self.labelingDrawerUi.segment.setEnabled(True)
self.topLevelOperatorView.Segmentation.notifyDirty( bind( self._update_rendering ) )
def onUncertaintyFGButton():
print "uncertFG button clicked"
pos = self.topLevelOperatorView.getMaxUncertaintyPos(label=2)
self.editor.posModel.slicingPos = (pos[0], pos[1], pos[2])
self.labelingDrawerUi.pushButtonUncertaintyFG.clicked.connect(onUncertaintyFGButton)
self.labelingDrawerUi.pushButtonUncertaintyFG.setEnabled(True)
def onUncertaintyBGButton():
print "uncertBG button clicked"
pos = self.topLevelOperatorView.getMaxUncertaintyPos(label=1)
self.editor.posModel.slicingPos = (pos[0], pos[1], pos[2])
self.labelingDrawerUi.pushButtonUncertaintyBG.clicked.connect(onUncertaintyBGButton)
self.labelingDrawerUi.pushButtonUncertaintyBG.setEnabled(True)
def onBackgroundPrioritySpin(value):
print "background priority changed to %f" % value
self.topLevelOperatorView.BackgroundPriority.setValue(value)
self.labelingDrawerUi.backgroundPrioritySpin.valueChanged.connect(onBackgroundPrioritySpin)
def onuncertaintyCombo(value):
if value == 0:
value = "none"
if value == 1:
value = "localMargin"
if value == 2:
value = "exchangeCount"
if value == 3:
value = "gabow"
print "uncertainty changed to %r" % value
self.topLevelOperatorView.UncertaintyType.setValue(value)
self.labelingDrawerUi.uncertaintyCombo.currentIndexChanged.connect(onuncertaintyCombo)
def onBackgroundPriorityDirty(slot, roi):
oldValue = self.labelingDrawerUi.backgroundPrioritySpin.value()
newValue = self.topLevelOperatorView.BackgroundPriority.value
if newValue != oldValue:
self.labelingDrawerUi.backgroundPrioritySpin.setValue(newValue)
self.topLevelOperatorView.BackgroundPriority.notifyDirty(onBackgroundPriorityDirty)
def onNoBiasBelowDirty(slot, roi):
oldValue = self.labelingDrawerUi.noBiasBelowSpin.value()
newValue = self.topLevelOperatorView.NoBiasBelow.value
if newValue != oldValue:
self.labelingDrawerUi.noBiasBelowSpin.setValue(newValue)
self.topLevelOperatorView.NoBiasBelow.notifyDirty(onNoBiasBelowDirty)
def onNoBiasBelowSpin(value):
print "background priority changed to %f" % value
self.topLevelOperatorView.NoBiasBelow.setValue(value)
self.labelingDrawerUi.noBiasBelowSpin.valueChanged.connect(onNoBiasBelowSpin)
self.labelingDrawerUi.saveAs.clicked.connect(self.onSaveAsButton)
self.labelingDrawerUi.save.clicked.connect(self.onSaveButton)
self.labelingDrawerUi.save.setEnabled(False) #initially, the user need to use "Save As"
self.labelingDrawerUi.clear.clicked.connect(self.topLevelOperatorView.clearCurrentLabeling)
self.labelingDrawerUi.clear.setEnabled(True)
self.labelingDrawerUi.namesButton.clicked.connect(self.onShowObjectNames)
def labelBackground():
self.selectLabel(0)
def labelObject():
self.selectLabel(1)
self._labelControlUi.labelListModel.allowRemove(False)
bg = QShortcut(QKeySequence("1"), self, member=labelBackground, ambiguousMember=labelBackground)
bgToolTipObject = LabelListModel.EntryToolTipAdapter(self._labelControlUi.labelListModel, 0)
mgr.register("Carving", "Select background label", bg, bgToolTipObject)
fg = QShortcut(QKeySequence("2"), self, member=labelObject, ambiguousMember=labelObject)
fgToolTipObject = LabelListModel.EntryToolTipAdapter(self._labelControlUi.labelListModel, 1)
mgr.register("Carving", "Select object label", fg, fgToolTipObject)
def layerIndexForName(name):
return self.layerstack.findMatchingIndex(lambda x: x.name == name)
def addLayerToggleShortcut(layername, shortcut):
def toggle():
row = layerIndexForName(layername)
self.layerstack.selectRow(row)
layer = self.layerstack[row]
layer.visible = not layer.visible
self.viewerControlWidget().layerWidget.setFocus()
shortcut = QShortcut(QKeySequence(shortcut), self, member=toggle, ambiguousMember=toggle)
mgr.register("Carving", "Toggle layer %s" % layername, shortcut)
addLayerToggleShortcut("done", "d")
addLayerToggleShortcut("segmentation", "s")
addLayerToggleShortcut("raw", "r")
addLayerToggleShortcut("pmap", "v")
addLayerToggleShortcut("hints","t")
'''
def updateLayerTimings():
s = "Layer timings:\n"
for l in self.layerstack:
s += "%s: %f sec.\n" % (l.name, l.averageTimePerTile)
self.labelingDrawerUi.layerTimings.setText(s)
t = QTimer(self)
t.setInterval(1*1000) # 10 seconds
t.start()
t.timeout.connect(updateLayerTimings)
'''
def makeColortable():
self._doneSegmentationColortable = [QColor(0,0,0,0).rgba()]
for i in range(254):
r,g,b = numpy.random.randint(0,255), numpy.random.randint(0,255), numpy.random.randint(0,255)
self._doneSegmentationColortable.append(QColor(r,g,b).rgba())
self._doneSegmentationColortable[1:17] = colortables.default16
self._doneSegmentationColortable.append(QColor(0,255,0).rgba())
makeColortable()
self._doneSegmentationLayer = None
def onRandomizeColors():
if self._doneSegmentationLayer is not None:
print "randomizing colors ..."
makeColortable()
self._doneSegmentationLayer.colorTable = self._doneSegmentationColortable
if self.render and self._renderMgr.ready:
self._update_rendering()
