def __init__(self, main, viewer, parent=None):
BaseDockWidget.__init__(self,
main,
"&Interactive Skeletonization",
"Perform interactive skeletonization",
"perform_VolumeManualSkeletonization",
"actions-volume-skeletonization-manual",
"actions-volume-skeletonization",
QtCore.Qt.LeftDockWidgetArea | QtCore.Qt.RightDockWidgetArea | QtCore.Qt.BottomDockWidgetArea,
QtCore.Qt.BottomDockWidgetArea,
parent)
self.app = main
self.app.themes.addDefaultRGB("InteractiveSkeletonizer:StartingPoint", 0, 0, 255, 255)
self.app.themes.addDefaultRGB("InteractiveSkeletonizer:EndingPoint", 0, 255, 0, 255)
self.app.themes.addDefaultRGB("InteractiveSkeletonizer:Sketch", 0, 128, 0, 255)
self.app.themes.addDefaultRGB("InteractiveSkeletonizer:UnconfirmedCurve", 255, 255, 0, 255)
self.app.themes.addDefaultRGB("InteractiveSkeletonizer:RemovableCurve", 100, 255, 100, 255)
self.started = False
self.sketchStarted = False
self.viewer = viewer
self.connect(self.viewer, QtCore.SIGNAL("modelLoaded()"), self.modelLoaded)
self.connect(self.viewer, QtCore.SIGNAL("modelChanged()"), self.modelChanged)
self.connect(self.viewer, QtCore.SIGNAL("modelUnloaded()"), self.modelUnloaded)
self.isSkeletonClicked = False;
self.createUI()
self.createActions()
def __init__(self, main, viewer, parent=None):
self.app = main
self.viewer = viewer
self.title = viewer.title + " Visualization Options"
BaseDockWidget.__init__(
self, main, self.title,
"Load the " + self.viewer.title + " visualization options",
"show_" + self.viewer.title + "Visualization",
"window-" + self.viewer.title + "VisualizationOptions", "window",
QtCore.Qt.LeftDockWidgetArea | QtCore.Qt.RightDockWidgetArea
| QtCore.Qt.BottomDockWidgetArea, QtCore.Qt.RightDockWidgetArea,
parent)
self.connect(self.viewer, QtCore.SIGNAL("modelLoaded()"),
self.modelLoaded)
self.connect(self.viewer, QtCore.SIGNAL("modelChanged()"),
self.modelChanged)
self.connect(self.viewer, QtCore.SIGNAL("modelUnloaded()"),
self.modelUnloaded)
self.setWindowTitle(self.title)
self.createUI()
self.createActions()
self.createMenus()
self.updateFromViewer()
def dockVisibilityChanged(self, visible):
BaseDockWidget.dockVisibilityChanged(self, visible)
self.app.viewers["calpha"].centerOnRMB = not visible
if(visible):
self.connect(self.app.viewers["calpha"], QtCore.SIGNAL("atomSelectionUpdated(PyQt_PyObject)"), self.atomSelectionChanged)
else:
self.disconnect(self.app.viewers["calpha"], QtCore.SIGNAL("atomSelectionUpdated(PyQt_PyObject)"), self.atomSelectionChanged)
def __init__(self, main, parent=None):
BaseDockWidget.__init__(
self, main, "&Choose Chain Model", "Choose a chain model",
"perform_chooseModel", "actions-calpha-chooseModel",
"actions-calpha", QtCore.Qt.LeftDockWidgetArea
| QtCore.Qt.RightDockWidgetArea | QtCore.Qt.BottomDockWidgetArea,
QtCore.Qt.RightDockWidgetArea, parent)
self.app = main
self.createUi()
self.connect(self.ui.refreshPushButton, QtCore.SIGNAL("clicked()"),
self.refresh)
self.connect(self.ui.chainModelsListWidget,
QtCore.SIGNAL("currentTextChanged (const QString&)"),
self.modelHighlighted)
def __init__(self, main, sseViewer, parent=None):
BaseDockWidget.__init__(self,
main,
"&Predict SSE from Sequence",
"Prediction of secondary structure elements from the sequence",
"perform_SSESequencePrediction",
"actions-sse-sequenceprediction",
"actions-sse",
QtCore.Qt.LeftDockWidgetArea | QtCore.Qt.RightDockWidgetArea | QtCore.Qt.BottomDockWidgetArea,
QtCore.Qt.RightDockWidgetArea,
parent)
self.setupUi(self)
self.app = main
self.viewer = sseViewer
self.createUI()
def __init__(self, main, camera, parent=None):
BaseDockWidget.__init__(self,
main,
"Scene Options",
"Load the scene settings",
"show_SceneEditor",
"window-sceneeditor",
"window",
QtCore.Qt.LeftDockWidgetArea | QtCore.Qt.RightDockWidgetArea | QtCore.Qt.BottomDockWidgetArea,
QtCore.Qt.RightDockWidgetArea,
parent)
self.app = main
self.camera = camera
self.createUI()
self.updateFromCamera()
def __init__(self, main, viewer, parent=None):
BaseDockWidget.__init__(
self, main, "Identify &SSEs",
"Identify secondary structure elements", "detectSSE_Volume",
"actions-sse-detectSSE", "actions-sse",
QtCore.Qt.LeftDockWidgetArea | QtCore.Qt.RightDockWidgetArea
| QtCore.Qt.BottomDockWidgetArea, QtCore.Qt.RightDockWidgetArea,
parent)
self.app = main
self.viewer = viewer
self.connect(self.viewer, QtCore.SIGNAL("modelLoaded()"),
self.modelLoaded)
self.connect(self.viewer, QtCore.SIGNAL("modelUnloaded()"),
self.modelUnloaded)
self.createUI()
self.createActions()
def loadWidget(self):
self.structPred = self.viewer.structPred
if(self.app.actions.getAction("perform_CAlphaManualAtomPlacement").isChecked()) :
if self.structPred and self.structPred.chain:
self.resSeqNumSpinBox.setRange( min(self.structPred.chain.residueRange()), max(self.structPred.chain.residueRange()) )
else:
return
self.skeletonViewer.setSelectEnabled(True)
if not self.viewer.main_chain:
self.viewer.main_chain = self.viewer.structPred.chain
self.main_chain = self.viewer.main_chain
residue = self.structPred.chain[self.resSeqNumSpinBox.value()]
self.resNameLabel.setText(residue.symbol3)
self.identifierLabel.setText( self.main_chain.getPdbID() + ' chain ' + self.main_chain.getChainID() )
else:
self.skeletonViewer.setSelectEnabled(False)
BaseDockWidget.loadWidget(self)
def __init__(self, main, volumeViewer, parent=None):
BaseDockWidget.__init__(self,
main,
"&Volume - Surface Editor",
"Modify the volume surface",
"show_VolumeSurfaceEditor",
"window-VolumeSurfaceEditor",
"window",
QtCore.Qt.LeftDockWidgetArea | QtCore.Qt.RightDockWidgetArea | QtCore.Qt.BottomDockWidgetArea,
QtCore.Qt.BottomDockWidgetArea,
parent)
self.app = main
self.viewer = volumeViewer
self.connect(self.viewer, QtCore.SIGNAL("modelLoadedPreDraw()"), self.modelLoadedPreDraw)
self.connect(self.viewer, QtCore.SIGNAL("modelUnloaded()"), self.modelUnloaded)
self.createUI()
self.createActions()
self.createMenus()
def __init__(self, main, volumeViewer, parent=None):
BaseDockWidget.__init__(
self, main, "&Laplacian Smoothing", "Perform laplacian smoothing",
"perform_VolumeLaplacianSmoothing",
"actions-volume-laplacianSmoothing", "actions-volume",
QtCore.Qt.LeftDockWidgetArea | QtCore.Qt.RightDockWidgetArea
| QtCore.Qt.BottomDockWidgetArea, QtCore.Qt.RightDockWidgetArea,
parent)
self.app = main
self.viewer = volumeViewer
self.connect(self.viewer, QtCore.SIGNAL("modelLoaded()"),
self.modelLoaded)
self.connect(self.viewer, QtCore.SIGNAL("modelUnloaded()"),
self.modelUnloaded)
self.connect(self.viewer, QtCore.SIGNAL("modelChanged()"),
self.modelChanged)
self.createUI()
self.createActions()
def __init__(self, main, viewer, parent=None):
BaseDockWidget.__init__(
self, main, "Fit to density", "Fit CAlpha atoms to density",
"perform_CAlphaFlexibleFitting", "actions-calpha-flexiblefitting",
"actions-calpha", QtCore.Qt.LeftDockWidgetArea
| QtCore.Qt.RightDockWidgetArea | QtCore.Qt.BottomDockWidgetArea,
QtCore.Qt.RightDockWidgetArea, parent)
self.app = main
self.viewer = viewer
self.cAlphaViewer = viewer
self.volumeViewer = self.app.viewers["volume"]
self.sseViewer = self.app.viewers["sse"]
self.rigidDone = False
self.createUI()
self.enableDisableWindowElements()
self.engine = FlexibleFittingEngine()
self.chainHelixMapping = {}
self.invChainHelixMapping = {}
self.backupPositions = {}
def __init__(self, main, viewer, main_chain, structPred, parent=None):
BaseDockWidget.__init__(self,
main,
"&Manual C-Alpha Atom Placement",
"Perform Manual C-Alpha atom placement",
"perform_CAlphaManualAtomPlacement",
"actions-calpha-manualAtomPlacement",
"actions-calpha",
QtCore.Qt.LeftDockWidgetArea | QtCore.Qt.RightDockWidgetArea | QtCore.Qt.BottomDockWidgetArea,
QtCore.Qt.RightDockWidgetArea,
parent)
self.app = main
self.viewer = viewer
self.skeletonViewer = self.app.viewers["skeleton"]
self.connect(self.skeletonViewer, QtCore.SIGNAL("elementSelected (int, int, int, int, int, int, QMouseEvent)"), self.skeletonSelected)
self.main_chain=main_chain
self.structPred = structPred
self.createUI()
self.connect(self.addAtomPushButton, QtCore.SIGNAL("pressed()"), self.addAtom)
self.connect(self.resSeqNumSpinBox, QtCore.SIGNAL('valueChanged(int)'), self.updateResName)
def showWidget(self, show):
BaseDockWidget.showWidget(self, show)
if(not show):
self.setSkeletonViewerProperties(False)
self.ui.pushButtonStart.setEnabled(True)
self.ui.pushButtonClose.setEnabled(False)
def loadWidget(self):
BaseDockWidget.loadWidget(self)
if self.app.actions.getAction("perform_chooseModel").isChecked():
self.refresh()