def setupIntraopSeriesSelector(self): self.intraopSeriesSelector = qt.QComboBox() self.intraopSeriesSelector.setSizePolicy(qt.QSizePolicy.Expanding, qt.QSizePolicy.Minimum) self.intraopSeriesSelector.setMinimumContentsLength(20) self.intraopSeriesSelector.setSizeAdjustPolicy(qt.QComboBox().AdjustToMinimumContentsLength) self._seriesModel = qt.QStandardItemModel() self.intraopSeriesSelector.setModel(self._seriesModel)
def onMismatchErrorApply(self):
print "apply button\n"
myWLIO = self.logic.RunMismatchError(self.WLIO)
self.averageError.setText(myWLIO.average)
self.Variance.setText(myWLIO.variance)
self.stDev.setText(myWLIO.stdev)
print "ready to draw table:"
for dist in myWLIO.landm_distance:
print dist
# the table.. - separate into a function?
self.items = []
self.model = qt.QStandardItemModel()
self.view.setModel(self.model)
self.view.verticalHeader().visible = False
row = 0
landmarkcounter = 0
for dist in myWLIO.landm_distance:
# 1st column (row,0)
item = qt.QStandardItem()
landmarkcounter += 1
item.setText(landmarkcounter)
self.model.setItem(row, 0, item)
self.items.append(item)
# 2nd column (row,1)
item = qt.QStandardItem()
item.setText(dist)
self.model.setItem(row, 1, item)
self.items.append(item)
row += 1
#done!
#self.view.setColumnWidth(0,30)
self.model.setHeaderData(0, 1, "Landmark")
self.model.setHeaderData(1, 1, "dist, mm")
def populateColors(self):
self.brushes = []
self.items = []
self.model = qt.QStandardItemModel()
self.view.setModel(self.model)
pattern = self.search.text
self.row = 0
for c in self.recents:
self.addRow(c)
if self.recents:
item = qt.QStandardItem()
item.setText("--")
self.model.setItem(self.row, 0, item)
self.model.setItem(self.row, 1, item)
self.model.setItem(self.row, 2, item)
self.items.append(item)
self.row += 1
for c in range(self.colorNode.GetNumberOfColors()):
name = self.colorNode.GetColorName(c)
if name != "(none)" and name.lower().find(pattern.lower()) >= 0:
self.addRow(c)
self.view.setColumnWidth(0, 75)
self.view.setColumnWidth(1, 50)
self.view.setColumnWidth(2, 150)
self.model.setHeaderData(0, 1, "Number")
self.model.setHeaderData(1, 1, "Color")
self.model.setHeaderData(2, 1, "Name")
def populateDistances(self):
if not self.logic:
return
self.items = []
self.model = qt.QStandardItemModel()
self.view.setModel(self.model)
self.view.verticalHeader().visible = False
row = 0
for i in self.logic.landmarkPairs["Landmarks"]:
item = qt.QStandardItem()
item.setData(points[fixed])
#item.setToolTip(colorNode.GetColorName(i))
self.model.setItem(row, 0, item)
self.items.append(item)
col = 1
for k in self.logic.keys:
item = qt.QStandardItem()
item.setText(str(self.logic.landmarkPairs[i, k]))
#item.setToolTip(colorNode.GetColorName(i))
self.model.setItem(row, col, item)
self.items.append(item)
col += 1
row += 1
self.view.setColumnWidth(0, 30)
self.model.setHeaderData(0, 1, " ")
col = 1
for k in self.logic.keys:
self.view.setColumnWidth(col, 15 * len(k))
self.model.setHeaderData(col, 1, k)
col += 1
def setupIntraopSeriesSelector(self):
self.intraopSeriesSelector = qt.QComboBox()
self.intraopSeriesSelector.setSizePolicy(qt.QSizePolicy.Expanding,
qt.QSizePolicy.Minimum)
self._seriesModel = qt.QStandardItemModel()
self.intraopSeriesSelector.setModel(self._seriesModel)
self.intraopSeriesSelector.setToolTip(
constants.IntraopSeriesSelectorToolTip)
def _createListView(self, name, headerLabels):
view = qt.QListView()
view.setObjectName(name)
view.setSpacing(3)
model = qt.QStandardItemModel()
model.setHorizontalHeaderLabels(headerLabels)
view.setModel(model)
view.setEditTriggers(qt.QAbstractItemView.NoEditTriggers)
return view, model
def _configureStudiesTable(self):
self._studiesTable = self.ui.findChild(qt.QTableView,
"studiesTableView")
self._studiesTableModel = qt.QStandardItemModel()
self._studiesTableModel.setHorizontalHeaderLabels(
["Study Instance UID", "Date"])
self._studiesTable.setModel(self._studiesTableModel)
self._studiesTable.setEditTriggers(qt.QAbstractItemView.NoEditTriggers)
self._studiesTable.horizontalHeader().setSectionResizeMode(
0, qt.QHeaderView.Stretch)
self._studiesTable.horizontalHeader().setSectionResizeMode(
1, qt.QHeaderView.ResizeToContents)
def populateStats(self):
if not self.logic:
return
displayNode = self.labelNode.GetDisplayNode()
colorNode = displayNode.GetColorNode()
lut = colorNode.GetLookupTable()
self.items = []
self.model = qt.QStandardItemModel()
self.view.setModel(self.model)
self.view.verticalHeader().visible = False
row = 0
for i in self.logic.labelStats["Labels"]:
col = 0
color = qt.QColor()
rgb = lut.GetTableValue(i)
color.setRgb(rgb[0] * 255, rgb[1] * 255, rgb[2] * 255)
item = qt.QStandardItem()
item.setData(color, qt.Qt.DecorationRole)
item.setToolTip(colorNode.GetColorName(i))
item.setEditable(False)
self.model.setItem(row, col, item)
self.items.append(item)
col += 1
item = qt.QStandardItem()
item.setData(colorNode.GetColorName(i), qt.Qt.DisplayRole)
item.setEditable(False)
self.model.setItem(row, col, item)
self.items.append(item)
col += 1
for k in self.logic.keys:
item = qt.QStandardItem()
# set data as float with Qt::DisplayRole
item.setData(float(self.logic.labelStats[i, k]),
qt.Qt.DisplayRole)
item.setToolTip(colorNode.GetColorName(i))
item.setEditable(False)
self.model.setItem(row, col, item)
self.items.append(item)
col += 1
row += 1
self.view.setColumnWidth(0, 30)
self.model.setHeaderData(0, 1, " ")
self.model.setHeaderData(1, 1, "Type")
col = 2
for k in self.logic.keys:
self.view.setColumnWidth(col, 15 * len(k))
self.model.setHeaderData(col, 1, k)
col += 1
def __init__(self, columnNames):
super().__init__()
self.addButton = qt.QPushButton('+')
self.addButton.clicked.connect(self.onAddButton)
self.removeButton = qt.QPushButton('-')
self.removeButton.clicked.connect(self.onRemoveButton)
self.linkStagesPushButton = qt.QPushButton('Link Across Stages')
self.linkStagesPushButton.toolTip = 'When checked, settings will be the same for all stages.'
self.linkStagesPushButton.checkable = True
self.buttonsFrame = qt.QFrame()
self.buttonsFrame.setSizePolicy(qt.QSizePolicy.Preferred,
qt.QSizePolicy.Minimum)
self.buttonsFrame.setLayout(qt.QHBoxLayout())
self.buttonsFrame.layout().addWidget(self.addButton)
self.buttonsFrame.layout().addWidget(self.removeButton)
self.buttonsFrame.layout().addWidget(self.linkStagesPushButton)
self.model = qt.QStandardItemModel(1, len(columnNames))
for i, columnName in enumerate(columnNames):
self.model.setHeaderData(i, qt.Qt.Horizontal, columnName)
self.view = qt.QTableView()
self.view.setEditTriggers(self.view.CurrentChanged +
self.view.DoubleClicked +
self.view.SelectedClicked)
self.view.setSelectionMode(self.view.SingleSelection)
self.view.setSelectionBehavior(self.view.SelectRows)
self.view.horizontalHeader().setStretchLastSection(True)
self.view.setHorizontalScrollMode(self.view.ScrollPerPixel)
self.view.verticalHeader().setMaximumSectionSize(self.RowHeight)
self.view.verticalHeader().setMinimumSectionSize(self.RowHeight)
self.view.verticalHeader().setDefaultSectionSize(self.RowHeight)
self.view.setFixedHeight(65)
self.view.setModel(self.model)
self.view.setCurrentIndex(self.model.index(0, 0))
self.view.selectionModel().selectionChanged.connect(
self.onSelectionChanged)
layout = qt.QVBoxLayout(self)
layout.addWidget(self.buttonsFrame)
layout.addWidget(self.view)
return layout
def PopulateTableStats(self):
""" Creates the Qt table with the statistics"""
NewOrderKeys = [
'Segment', 'Scalar Volume', 'Mean', 'Standard Deviation',
'Minimum', 'Maximum', 'Median', 'Number of voxels [voxels]',
'Surface area [mm2]', 'Volume [mm3]', 'Volume [mm3]'
]
self.items = []
self.model = qt.QStandardItemModel()
self.table.setModel(self.model)
self.table.verticalHeader().visible = False
segmentationNode = self.segmentationSelector.currentNode()
row = 0
NofSegments = len(self.statistics['SegmentIDs'])
I = np.concatenate((np.arange(NofSegments), np.arange(NofSegments)))
for i in range(len(list(self.stats.values())[0])):
col = 0
color = qt.QColor()
segment = segmentationNode.GetSegmentation().GetSegment(
self.statistics['SegmentIDs'][I[i]])
rgb = segment.GetColor()
color.setRgb(rgb[0] * 255, rgb[1] * 255, rgb[2] * 255)
item = qt.QStandardItem()
item.setData(color, qt.Qt.DecorationRole)
item.setEditable(False)
self.model.setItem(row, col, item)
self.items.append(item)
col += 1
for k in NewOrderKeys:
item = qt.QStandardItem()
item.setData(self.stats[k][i], qt.Qt.DisplayRole)
item.setEditable(False)
self.model.setItem(row, col, item)
self.items.append(item)
col += 1
row += 1
col = 0
self.table.setColumnWidth(0, 30)
self.model.setHeaderData(0, 1, " ")
col += 1
for k in NewOrderKeys:
self.table.setColumnWidth(col, 16 * len(k))
self.model.setHeaderData(col, 1, k)
col += 1
def populateStats(self):
if not self.logic:
return
displayNode = self.labelNode.GetDisplayNode()
colorNode = displayNode.GetColorNode()
lut = colorNode.GetLookupTable()
self.items = []
self.model = qt.QStandardItemModel()
self.view.setModel(self.model)
self.view.verticalHeader().visible = False
row = 0
for regionTag, regionValue in zip(self.logic.regionTags,
self.logic.regionValues):
color = qt.QColor()
rgb = lut.GetTableValue(regionValue[0])
color.setRgb(rgb[0] * 255, rgb[1] * 255, rgb[2] * 255)
item = qt.QStandardItem()
item.setData(color, 1)
item.setText(str(regionTag))
item.setData(regionTag, 1)
item.setToolTip(regionTag)
item.setTextAlignment(1)
self.model.setItem(row, 0, item)
self.items.append(item)
col = 1
for k in self.logic.keys:
item = qt.QStandardItem()
item.setText("%.3f" % self.logic.labelStats[k, regionTag])
item.setTextAlignment(4)
self.view.setColumnWidth(col, 15 * len(item.text()))
self.model.setItem(row, col, item)
self.items.append(item)
col += 1
row += 1
self.view.setColumnWidth(0, 15 * len('Region'))
self.model.setHeaderData(0, 1, "Region")
col = 1
for k in self.logic.keys:
# self.view.setColumnWidth(col,15*len(k))
self.model.setHeaderData(col, 1, k)
col += 1
def _configureSeriesTable(self):
self._seriesTable = self.ui.findChild(qt.QTableView, "seriesTableView")
self._seriesTableModel = qt.QStandardItemModel()
self._seriesTableModel.setHorizontalHeaderLabels([
"UID", "Series Number", "Series Date", "Modality",
"Series Description"
])
self._seriesTable.setModel(self._seriesTableModel)
self._seriesTable.setEditTriggers(qt.QAbstractItemView.NoEditTriggers)
self._seriesTable.setColumnHidden(0, True)
# self._seriesTable.horizontalHeader().setSectionResizeMode(0, qt.QHeaderView.Stretch)
self._seriesTable.horizontalHeader().setSectionResizeMode(
1, qt.QHeaderView.ResizeToContents)
self._seriesTable.horizontalHeader().setSectionResizeMode(
2, qt.QHeaderView.ResizeToContents)
self._seriesTable.horizontalHeader().setSectionResizeMode(
3, qt.QHeaderView.ResizeToContents)
self._seriesTable.horizontalHeader().setSectionResizeMode(
4, qt.QHeaderView.Stretch)
self._seriesTable.setSelectionBehavior(qt.QTableView.SelectRows)
self._seriesTable.verticalHeader().hide()
def __init__(self, *args, **kwargs):
qt.QWidget.__init__(self, *args, **kwargs)
self.create()
# mrml volume node instances
self._master = None
self._merge = None
# pseudo signals
# - python callable that gets True or False
self.mergeValidCommand = None
# string
self.mergeVolumePostfix = "-label"
# instance of a ColorBox
self.colorBox = None
# qt model/view classes to track per-structure volumes
self.structures = qt.QStandardItemModel()
# mrml node for invoking command line modules
self.CLINode = None
# slicer helper class
self.volumesLogic = slicer.modules.volumes.logic()
# buttons pressed
self.addStructureButton.connect("clicked()", self.addStructure)
self.deleteStructuresButton.connect("clicked()", self.deleteStructures)
self.deleteSelectedStructureButton.connect(
"clicked()", self.deleteSelectedStructure)
# selection changed event
# invoked event
self.splitButton.connect("clicked()", self.split)
self.mergeButton.connect("clicked()", self.mergeStructures)
self.mergeAndBuildButton.connect("clicked()", self.onMergeAndBuild)
self.exportButton.connect("clicked()", self.export)
def setup(self):
ScriptedLoadableModuleWidget.setup(self)
# Instantiate and connect widgets ...
#
# Input/Export Area
#
IOCollapsibleButton = ctk.ctkCollapsibleButton()
IOCollapsibleButton.text = "Input and Export"
self.layout.addWidget(IOCollapsibleButton)
# Layout within the dummy collapsible button
#IOFormLayout = qt.QFormLayout(IOCollapsibleButton)
IOFormLayout = qt.QFormLayout(IOCollapsibleButton)
#
# Username input
#
self.userNameInput = qt.QLineEdit()
self.userNameInput.setText(slicer.userNameDefault)
self.userNameInput.setToolTip("Input MorphoSource account username")
IOFormLayout.addRow("MorphSource Username: "******"Input MorphoSource account password")
IOFormLayout.addRow("MorphSource Password: "******"Log in")
self.loginButton.toolTip = "Log into the Morphosource database"
self.loginButton.enabled = False
IOFormLayout.addRow(self.loginButton)
#
# Query parameter area
#
parametersCollapsibleButton = ctk.ctkCollapsibleButton()
parametersCollapsibleButton.text = "Query parameters"
self.layout.addWidget(parametersCollapsibleButton)
# Layout within the dummy collapsible button
parametersFormLayout = qt.QFormLayout(parametersCollapsibleButton)
#
# Username input
#
self.orderInput = qt.QLineEdit()
self.orderInput.setToolTip(
"Input the the specimen order, eg: 'Euprimates' ")
parametersFormLayout.addRow("Query order: ", self.orderInput)
#
# Username input
#
self.elementInput = qt.QLineEdit()
self.elementInput.setToolTip(
"Input the speciment element, eg: 'Cranuim' ")
parametersFormLayout.addRow("Query element: ", self.elementInput)
#
# Submit query Button
#
self.submitQueryButton = qt.QPushButton("Submit query")
self.submitQueryButton.toolTip = "Query the MorphoSource database for 3D models. This may take a few minutes."
self.submitQueryButton.enabled = False
parametersFormLayout.addRow(self.submitQueryButton)
#
# Query results area
#
resultsCollapsibleButton = ctk.ctkCollapsibleButton()
resultsCollapsibleButton.text = "Query results:"
resultsCollapsibleButton.collapsed = False
self.layout.addWidget(resultsCollapsibleButton)
resultsFormLayout = qt.QFormLayout(resultsCollapsibleButton)
self.resultsModel = qt.QStandardItemModel()
self.resultsTable = qt.QTableView()
self.resultsTable.horizontalHeader().stretchLastSection = True
self.resultsTable.horizontalHeader().visible = False
self.resultsTable.verticalHeader().visible = False
self.resultsTable.setSelectionBehavior(
qt.QAbstractItemView().SelectRows)
self.resultsTable.setModel(self.resultsModel)
resultsFormLayout.addRow(self.resultsTable)
self.loadResultsButton = qt.QPushButton("Load selected models")
self.loadResultsButton.toolTip = "Load the selected models into the scene."
self.loadResultsButton.enabled = False
resultsFormLayout.addRow(self.loadResultsButton)
# connections
self.loginButton.connect('clicked(bool)', self.onLogin)
self.userNameInput.connect('textChanged(const QString &)',
self.onLoginStringChanged)
self.passwordInput.connect('textChanged(const QString &)',
self.onLoginStringChanged)
self.orderInput.connect('textChanged(const QString &)',
self.onQueryStringChanged)
self.elementInput.connect('textChanged(const QString &)',
self.onQueryStringChanged)
self.submitQueryButton.connect('clicked(bool)', self.onSubmitQuery)
self.loadResultsButton.connect('clicked(bool)', self.onLoadResults)
# Add vertical spacer
self.layout.addStretch(1)
# Refresh Apply button state
self.onLoginStringChanged()
self.onQueryStringChanged()
def updateStructures(self, caller=None, event=None):
"""re-build the Structures frame
- optional caller and event ignored (for use as vtk observer callback)
"""
if slicer.mrmlScene.IsBatchProcessing():
return
if self.mergeButton.destroyed():
""" TODO: here the python class still exists but the
Qt widgets are gone - need to figure out when to remove observers
and free python code - probably the destroyed() signal.
"""
self.cleanup()
return
#self.mergeSelector.setDisabled(not self.master)
# reset to a fresh model
self.structures = qt.QStandardItemModel()
self.structuresView.setModel(self.structures)
# if no merge volume exists, disable everything - else enable
merge = self.merge
self.addStructureButton.setDisabled(not merge)
self.deleteStructuresButton.setDisabled(not merge)
self.deleteSelectedStructureButton.setDisabled(not merge)
self.mergeButton.setDisabled(not merge)
self.splitButton.setDisabled(not merge)
self.mergeAndBuildButton.setDisabled(not merge)
self.replaceModels.setDisabled(not merge)
if self.mergeValidCommand:
# will be passed current
self.mergeValidCommand(merge)
if not merge:
return
colorNode = merge.GetDisplayNode().GetColorNode()
lut = colorNode.GetLookupTable()
masterName = self.master.GetName()
volumeNodes = self.structureVolumes()
for vNode in volumeNodes:
vName = vNode.GetName()
# figure out what name it is
# - account for the fact that sometimes a number will be added to the end of the name
start = 1 + len(masterName)
end = vName.rfind(self.mergeVolumePostfix)
structureName = vName[start:end]
structureIndex = colorNode.GetColorIndexByName(structureName)
structureColor = lut.GetTableValue(structureIndex)[0:3]
color = qt.QColor()
color.setRgb(structureColor[0] * 255, structureColor[1] * 255,
structureColor[2] * 255)
# label index
item = qt.QStandardItem()
item.setEditable(False)
item.setText("%03d" % int(structureIndex))
self.structures.setItem(self.row, 0, item)
# label color
item = qt.QStandardItem()
item.setEditable(False)
item.setData(color, 1)
self.structures.setItem(self.row, 1, item)
# structure name
item = qt.QStandardItem()
item.setEditable(False)
item.setText(structureName)
self.structures.setItem(self.row, 2, item)
# volumeName name
item = qt.QStandardItem()
item.setEditable(False)
item.setText(vName)
self.structures.setItem(self.row, 3, item)
# sort order
item = qt.QStandardItem()
item.setEditable(True)
item.setText("")
self.structures.setItem(self.row, 4, item)
self.row += 1
for i in range(5):
self.structuresView.resizeColumnToContents(i)
self.structures.setHeaderData(0, 1, "Number")
self.structures.setHeaderData(1, 1, "Color")
self.structures.setHeaderData(2, 1, "Name")
self.structures.setHeaderData(3, 1, "Label Volume")
self.structures.setHeaderData(4, 1, "Order")
self.structuresView.setModel(self.structures)
self.structuresView.connect("activated(QModelIndex)",
self.onStructuresClicked)
self.structuresView.setProperty(
'SH_ItemView_ActivateItemOnSingleClick', 1)
self.structureLabelNames = []
rows = self.structures.rowCount()
for row in xrange(rows):
self.structureLabelNames.append(
self.structures.item(row, 2).text())
def setup(self):
ScriptedLoadableModuleWidget.setup(self)
# Instantiate and connect widgets ...
#
# File area
#
filesCollapsibleButton = ctk.ctkCollapsibleButton()
filesCollapsibleButton.text = "Files"
filesCollapsibleButton.collapsed = False
self.layout.addWidget(filesCollapsibleButton)
# Layout within the files collapsible button
filesFormLayout = qt.QFormLayout(filesCollapsibleButton)
self.fileModel = qt.QStandardItemModel()
self.fileTable = qt.QTableView()
self.fileTable.horizontalHeader().stretchLastSection = True
self.fileTable.horizontalHeader().visible = False
self.fileTable.setModel(self.fileModel)
filesFormLayout.addRow(self.fileTable)
buttonLayout = qt.QHBoxLayout()
self.addByBrowsingButton = qt.QPushButton("Browse for files")
self.clearFilesButton = qt.QPushButton("Clear files")
buttonLayout.addWidget(self.addByBrowsingButton)
buttonLayout.addWidget(self.clearFilesButton)
filesFormLayout.addRow(buttonLayout)
#
# output area
#
outputCollapsibleButton = ctk.ctkCollapsibleButton()
outputCollapsibleButton.text = "Output"
outputCollapsibleButton.collapsed = False
self.layout.addWidget(outputCollapsibleButton)
outputFormLayout = qt.QFormLayout(outputCollapsibleButton)
#
# output volume selector
#
#self.outputSelector = slicer.qMRMLSubjectHierarchyComboBox()
self.outputSelector = slicer.qMRMLNodeComboBox()
self.outputSelector.nodeTypes = ["vtkMRMLScalarVolumeNode",]
#self.outputSelector.setNodeTypes(["vtkMRMLScalarVolumeNode",]) ; TODO: make nodeTypes property for SH box
"""
TODO: which are supported and needed for SubjectHierarchy combo box.
TODO: can we delete/rename/create as with SH
self.outputSelector.defaultText = "Create new volume." ; # TODO any way to reset value?
"""
self.outputSelector.showChildNodeTypes = False
self.outputSelector.showHidden = False
self.outputSelector.showChildNodeTypes = False
self.outputSelector.selectNodeUponCreation = False
self.outputSelector.noneEnabled = True
self.outputSelector.removeEnabled = True
self.outputSelector.renameEnabled = True
self.outputSelector.addEnabled = True
self.outputSelector.setMRMLScene( slicer.mrmlScene )
self.outputSelector.setToolTip( "Pick the output volume to populate or None to autogenerate." )
outputFormLayout.addRow("Output Volume: ", self.outputSelector)
self.spacing = ctk.ctkCoordinatesWidget()
self.spacing.coordinates = "1,1,1"
self.spacing.toolTip = "Set the colunm, row, slice spacing in mm"
outputFormLayout.addRow("Spacing: ", self.spacing)
self.loadButton = qt.QPushButton("Load files")
outputFormLayout.addRow(self.loadButton)
#
# Add by name area
#
addByNameCollapsibleButton = ctk.ctkCollapsibleButton()
addByNameCollapsibleButton.text = "Add files by name"
addByNameCollapsibleButton.collapsed = True
addByNameFormLayout = qt.QFormLayout(addByNameCollapsibleButton)
# Don't enable Add by name for now - let's see if it's actually needed
# self.layout.addWidget(addByNameCollapsibleButton)
forExample = """
directoryPath = '/Volumes/SSD2T/data/SlicerMorph/Sample_for_steve/1326_Rec'
pathFormat = '%s/1326__rec%04d.png'
start, end = (50, 621)
"""
self.archetypePathEdit = ctk.ctkPathLineEdit()
addByNameFormLayout.addRow("Archetype file", self.archetypePathEdit)
self.archetypeFormat = qt.QLineEdit()
addByNameFormLayout.addRow("Name format", self.archetypeFormat)
self.indexRange = ctk.ctkRangeWidget()
self.indexRange.decimals = 0
self.indexRange.maximum = 0
addByNameFormLayout.addRow("Index range", self.indexRange)
self.generateNamesButton = qt.QPushButton("Apply")
self.generateNamesButton.toolTip = "Run the algorithm."
self.generateNamesButton.enabled = False
addByNameFormLayout.addRow(self.generateNamesButton)
# connections
self.addByBrowsingButton.connect('clicked()', self.addByBrowsing)
self.clearFilesButton.connect('clicked()', self.fileTable.model().clear)
self.archetypePathEdit.connect('currentPathChanged(QString)', self.validateInput)
self.archetypePathEdit.connect('currentPathChanged(QString)', self.updateGUIFromArchetype)
self.archetypeFormat.connect('textChanged(QString)', self.validateInput)
self.generateNamesButton.connect('clicked()', self.onGenerateNames)
# self.outputSelector.connect("currentNodeChanged(vtkMRMLNode*)", self.validateInput) # TODO - this is missing
self.loadButton.connect('clicked()', self.onLoadButton)
# refill last selection
self.archetypePathEdit.currentPath = slicer.util.settingsValue("ImageStacks/lastArchetypePath", "")
# Add vertical spacer
self.layout.addStretch(1)
# Refresh Apply button state
self.validateInput()
def setup(self):
ScriptedLoadableModuleWidget.setup(self)
# Instantiate and connect widgets ...
#
# File area
#
filesCollapsibleButton = ctk.ctkCollapsibleButton()
filesCollapsibleButton.text = "Files"
filesCollapsibleButton.collapsed = False
self.layout.addWidget(filesCollapsibleButton)
# Layout within the files collapsible button
filesFormLayout = qt.QFormLayout(filesCollapsibleButton)
self.fileModel = qt.QStandardItemModel()
self.fileTable = qt.QTableView()
self.fileTable.horizontalHeader().stretchLastSection = True
self.fileTable.horizontalHeader().visible = False
self.fileTable.setModel(self.fileModel)
filesFormLayout.addRow(self.fileTable)
buttonLayout = qt.QHBoxLayout()
self.addByBrowsingButton = qt.QPushButton("Browse for files")
self.clearFilesButton = qt.QPushButton("Clear files")
buttonLayout.addWidget(self.addByBrowsingButton)
buttonLayout.addWidget(self.clearFilesButton)
filesFormLayout.addRow(buttonLayout)
self.propertiesLabel = qt.QLabel()
filesFormLayout.addRow(self.propertiesLabel)
#
# output area
#
outputCollapsibleButton = ctk.ctkCollapsibleButton()
outputCollapsibleButton.text = "Output"
outputCollapsibleButton.collapsed = False
self.layout.addWidget(outputCollapsibleButton)
outputFormLayout = qt.QFormLayout(outputCollapsibleButton)
#
# output volume selector
#
self.outputSelector = slicer.qMRMLNodeComboBox()
self.outputSelector.nodeTypes = [
"vtkMRMLScalarVolumeNode",
]
self.outputSelector.showChildNodeTypes = False
self.outputSelector.showHidden = False
self.outputSelector.showChildNodeTypes = False
self.outputSelector.selectNodeUponCreation = True
self.outputSelector.noneEnabled = True
self.outputSelector.removeEnabled = True
self.outputSelector.renameEnabled = True
self.outputSelector.addEnabled = True
self.outputSelector.setMRMLScene(slicer.mrmlScene)
self.outputSelector.setToolTip(
"Pick the output volume to populate or None to autogenerate.")
outputFormLayout.addRow("Output Volume: ", self.outputSelector)
self.spacing = ctk.ctkCoordinatesWidget()
self.spacing.decimals = 8
self.spacing.coordinates = "1,1,1"
self.spacing.toolTip = "Set the colunm, row, slice spacing in mm; original spacing not including downsample"
outputFormLayout.addRow("Spacing: ", self.spacing)
self.downsample = qt.QCheckBox()
self.downsample.toolTip = "Reduces data size by half in each dimension by skipping every other pixel and slice (uses about 1/8 memory)"
outputFormLayout.addRow("Downsample: ", self.downsample)
self.reverse = qt.QCheckBox()
self.reverse.toolTip = "Read the images in reverse order"
outputFormLayout.addRow("Reverse: ", self.reverse)
self.sliceSkip = ctk.ctkDoubleSpinBox()
self.sliceSkip.decimals = 0
self.sliceSkip.minimum = 0
self.sliceSkip.toolTip = "Skips the selected number of slices (use, for example, on long thin samples with more slices than in-plane resolution)"
outputFormLayout.addRow("Slice skip: ", self.sliceSkip)
self.loadButton = qt.QPushButton("Load files")
outputFormLayout.addRow(self.loadButton)
#
# Add by name area
#
addByNameCollapsibleButton = ctk.ctkCollapsibleButton()
addByNameCollapsibleButton.text = "Add files by name"
addByNameCollapsibleButton.collapsed = True
addByNameFormLayout = qt.QFormLayout(addByNameCollapsibleButton)
# Don't enable Add by name for now - let's see if it's actually needed
# self.layout.addWidget(addByNameCollapsibleButton)
forExample = """
directoryPath = '/Volumes/SSD2T/data/SlicerMorph/Sample_for_steve/1326_Rec'
pathFormat = '%s/1326__rec%04d.png'
start, end = (50, 621)
"""
self.archetypePathEdit = ctk.ctkPathLineEdit()
addByNameFormLayout.addRow("Archetype file", self.archetypePathEdit)
self.archetypeFormat = qt.QLineEdit()
addByNameFormLayout.addRow("Name format", self.archetypeFormat)
self.indexRange = ctk.ctkRangeWidget()
self.indexRange.decimals = 0
self.indexRange.maximum = 0
addByNameFormLayout.addRow("Index range", self.indexRange)
self.generateNamesButton = qt.QPushButton("Apply")
self.generateNamesButton.toolTip = "Run the algorithm."
self.generateNamesButton.enabled = False
addByNameFormLayout.addRow(self.generateNamesButton)
# connections
self.addByBrowsingButton.connect('clicked()', self.addByBrowsing)
self.clearFilesButton.connect('clicked()', self.onClearFiles)
self.archetypePathEdit.connect('currentPathChanged(QString)',
self.validateInput)
self.archetypePathEdit.connect('currentPathChanged(QString)',
self.updateGUIFromArchetype)
self.archetypeFormat.connect('textChanged(QString)',
self.validateInput)
self.generateNamesButton.connect('clicked()', self.onGenerateNames)
# self.outputSelector.connect("currentNodeChanged(vtkMRMLNode*)", self.validateInput) # TODO - this is missing
self.loadButton.connect('clicked()', self.onLoadButton)
# refill last selection
self.archetypePathEdit.currentPath = slicer.util.settingsValue(
"ImageStacks/lastArchetypePath", "")
# Add vertical spacer
self.layout.addStretch(1)
# Refresh Apply button state
self.validateInput()
"""Create and execute an explorer dialog."""
dialog = ExplorerDialog(widget)
dialog.exec_()
if __name__ == '__main__':
parser = argparse.ArgumentParser()
parser.add_argument('class_name',
help='Create a widget of this class to explore.')
parser.add_argument('--model',
metavar='COLUMNS',
type=int,
help='Create a model for the widget.')
args = parser.parse_args()
app = qt.QApplication([])
w = getattr(qt, args.class_name)()
if args.model:
model = qt.QStandardItemModel(0, args.model)
for s in ['foo', 'bar', 'baz']:
row = [
qt.QStandardItem(c)
for c in [s] + list(map(str, range(args.model - 1)))
]
model.appendRow(row)
print(w, model)
w.setModel(model)
explore(w)
def createSmall(self):
"""Make the internals of the widget to display in the
Data Probe frame (lower left of slicer main window by default)"""
# top row - things about the viewer itself
self.viewerFrame = qt.QFrame(self.frame)
self.viewerFrame.setLayout(qt.QHBoxLayout())
self.frame.layout().addWidget(self.viewerFrame)
self.viewerColor = qt.QLabel(self.viewerFrame)
self.viewerFrame.layout().addWidget(self.viewerColor)
self.viewerName = qt.QLabel(self.viewerFrame)
self.viewerFrame.layout().addWidget(self.viewerName)
self.viewerRAS = qt.QLabel()
self.viewerFrame.layout().addWidget(self.viewerRAS)
self.viewerOrient = qt.QLabel()
self.viewerFrame.layout().addWidget(self.viewerOrient)
self.viewerSpacing = qt.QLabel()
self.viewerFrame.layout().addWidget(self.viewerSpacing)
self.viewerFrame.layout().addStretch(1)
# the grid - things about the layers
if True:
# this method makes labels
self.layerGrid = qt.QFrame(self.frame)
self.layerGrid.setLayout(qt.QGridLayout())
self.frame.layout().addWidget(self.layerGrid)
layers = ('L', 'F', 'B')
self.layerNames = {}
self.layerIJKs = {}
self.layerValues = {}
row = 0
for layer in layers:
col = 0
self.layerGrid.layout().addWidget(qt.QLabel(layer), row, col)
col += 1
self.layerNames[layer] = qt.QLabel()
self.layerGrid.layout().addWidget(self.layerNames[layer], row,
col)
col += 1
self.layerIJKs[layer] = qt.QLabel()
self.layerGrid.layout().addWidget(self.layerIJKs[layer], row,
col)
col += 1
self.layerValues[layer] = qt.QLabel()
self.layerGrid.layout().addWidget(self.layerValues[layer], row,
col)
self.layerGrid.layout().setColumnStretch(col, 100)
col += 1
row += 1
else:
# this method use a model/view
self.layerView = qt.QTableView(self.frame)
self.layerView.verticalHeader().hide()
self.frame.layout().addWidget(self.layerView)
self.layerModel = qt.QStandardItemModel()
self.layerView.setModel(self.layerModel)
layers = ('L', 'F', 'B')
self.layerNames = {}
self.layerIJKs = {}
self.layerValues = {}
self.items = []
row = 0
for layer in layers:
col = 0
item = qt.QStandardItem()
item.setText(layer)
self.layerModel.setItem(row, col, item)
self.items.append(item)
col += 1
self.layerNames[layer] = qt.QStandardItem()
self.layerModel.setItem(row, col, self.layerNames[layer])
col += 1
self.layerIJKs[layer] = qt.QStandardItem()
self.layerModel.setItem(row, col, self.layerIJKs[layer])
col += 1
self.layerValues[layer] = qt.QStandardItem()
self.layerModel.setItem(row, col, self.layerValues[layer])
col += 1
row += 1
self.layerView.setColumnWidth(0, 15)
self.layerView.setColumnWidth(1, 80)
self.layerView.setColumnWidth(2, 65)
self.layerView.setColumnWidth(3, 55)
self.layerModel.setHeaderData(0, 1, "")
self.layerModel.setHeaderData(1, 1, "Volume")
self.layerModel.setHeaderData(2, 1, "IJK")
self.layerModel.setHeaderData(3, 1, "Value")
# goto module button
self.goToModule = qt.QPushButton('->', self.frame)
self.goToModule.setToolTip(
'Go to the DataProbe module for more information and options')
self.frame.layout().addWidget(self.goToModule)
self.goToModule.connect("clicked()", self.onGoToModule)
# hide this for now - there's not much to see in the module itself
self.goToModule.hide()
