Package schrodinger :: Package application :: Package phase :: Module phase_markers :: Class ScreeningEditFeatureDialog

Class ScreeningEditFeatureDialog

       object --+                        
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sip.simplewrapper --+                    
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          sip.wrapper --+                
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     PyQt4.QtCore.QObject --+            
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           object --+       |            
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    sip.simplewrapper --+   |            
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 PyQt4.QtGui.QPaintDevice --+            
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          PyQt4.QtGui.QWidget --+        
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              PyQt4.QtGui.QDialog --+    
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                    EditFeatureDialog --+
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                                       ScreeningEditFeatureDialog

Advanced version of EditFeatureDialog that adds screening options for sites in Phase hypothesis.

Nested Classes

[hide private]

Inherited from PyQt4.QtGui.QDialog: DialogCode

Inherited from PyQt4.QtGui.QWidget: RenderFlag, RenderFlags

Inherited from PyQt4.QtGui.QPaintDevice: PaintDeviceMetric

Instance Methods

[hide private]

setupPanel(self, feature_id)
Set up panel

setupConnections(self)
Set up connnections

initialize(self)
Initialize dialog using site attributes from the Phase hypothesis stored in the PT.

hypothesis.PhaseHypothesis

_createFragmentHypothesis(self)
This function takes current working hypothesis and creates new hypothesis using reference ct as a 'fragment'.

_setAdditionalCts(self, additional_sts)
Add additional cts to the current hypothesis.

int or None

_findSiteIndex(self, use_orig_name=False)
This function determines site index in a hypothesis for the current feature.

int or None

_findSiteIndexByProximity(self)
This function determines site index in a hypothesis for the current feature using mapping by proximity.

_modifyFragments(self, delete_current_site=False)
Modify hypothesis fragments when feature attributes were modified.

_updateHypothesisWithFragments(self, fragments, sites)
Creates a new hypothesis from fragments but carries over the hypothesis specific ID and properties from an the currently stored hypothesis.

_featureTypeChanged(self, index)
This function is called when the feature type is changed.

setDefaultFeatureRules(self, feature_type)
Sets default feature rules.

_checkDisabledMask(self, hypo_mask)
Checks mask data for all sites in the current hypothesis and counts number of sites which are not 'Disabled' for use in screening.

_permittedFeaturesChanged(self)
This slot is called when user makes changes to 'permitted' to match features check states.

_prohibitedFeaturesChanged(self)
This slot is called when user makes changes to 'prohibited' to match features check states.

_disableMatchFeatures(self, features, combo)
This function disables given features in a specified combo box.

_toleranceChanged(self)
This slot is called when user changes feature tolerance.

_resetFeature(self)
Reset feature attributes to its original values.

_deleteFeature(self)
Delete this feature and close editor dialog.

accept(self)
This function is called when user clicks 'Ok' button.

_copyHypothesisXvol(self)
Checks whether hypothesis in the PT had excluded volumes and determines whether excluded volumes need to be copied to the current hypothesis (self.hypo).

_updateToleranceMarkers(self)
Updates feature tolerance spheres in the Workspace.

_updateTolerance(self)
Updates feature tolerance data.

_updateSiteMask(self)
Updates site mask data.

_updateRules(self)
Updates feature matching rules.

Inherited from EditFeatureDialog: __init__, close, disableProjectedFeatures, reject, showAtCursor, showHelp

Inherited from EditFeatureDialog (private): _checkHypothesisIncluded, _coordinatesChanged, _featureMoved, _featureRotated, _getSiteCoordinates, _initializeRotation, _moveStop, _moveToggled, _removeWorkspaceChangedCallback, _setSiteCoordinates, _unregisterDialog, _workspaceChanged

Inherited from PyQt4.QtGui.QDialog: accepted, closeEvent, contextMenuEvent, done, eventFilter, exec_, extension, finished, isSizeGripEnabled, keyPressEvent, minimumSizeHint, open, orientation, rejected, resizeEvent, result, setExtension, setModal, setOrientation, setResult, setSizeGripEnabled, setVisible, showEvent, showExtension, sizeHint

Inherited from PyQt4.QtGui.QWidget: acceptDrops, accessibleDescription, accessibleName, actionEvent, actions, activateWindow, addAction, addActions, adjustSize, autoFillBackground, backgroundRole, baseSize, changeEvent, childAt, childrenRect, childrenRegion, clearFocus, clearMask, contentsMargins, contentsRect, contextMenuPolicy, create, cursor, customContextMenuRequested, destroy, devType, dragEnterEvent, dragLeaveEvent, dragMoveEvent, dropEvent, effectiveWinId, enabledChange, ensurePolished, enterEvent, event, find, focusInEvent, focusNextChild, focusNextPrevChild, focusOutEvent, focusPolicy, focusPreviousChild, focusProxy, focusWidget, font, fontChange, fontInfo, fontMetrics, foregroundRole, frameGeometry, frameSize, geometry, getContentsMargins, grabGesture, grabKeyboard, grabMouse, grabShortcut, graphicsEffect, graphicsProxyWidget, handle, hasFocus, hasMouseTracking, height, heightForWidth, hide, hideEvent, inputContext, inputMethodEvent, inputMethodHints, inputMethodQuery, insertAction, insertActions, isActiveWindow, isAncestorOf, isEnabled, isEnabledTo, isEnabledToTLW, isFullScreen, isHidden, isLeftToRight, isMaximized, isMinimized, isModal, isRightToLeft, isTopLevel, isVisible, isVisibleTo, isWindow, isWindowModified, keyReleaseEvent, keyboardGrabber, languageChange, layout, layoutDirection, leaveEvent, locale, lower, mapFrom, mapFromGlobal, mapFromParent, mapTo, mapToGlobal, mapToParent, mask, maximumHeight, maximumSize, maximumWidth, metric, minimumHeight, minimumSize, minimumWidth, mouseDoubleClickEvent, mouseGrabber, mouseMoveEvent, mousePressEvent, mouseReleaseEvent, move, moveEvent, nativeParentWidget, nextInFocusChain, normalGeometry, overrideWindowFlags, overrideWindowState, paintEngine, paintEvent, palette, paletteChange, parentWidget, pos, previousInFocusChain, raise_, rect, releaseKeyboard, releaseMouse, releaseShortcut, removeAction, render, repaint, resetInputContext, resize, restoreGeometry, saveGeometry, scroll, setAcceptDrops, setAccessibleDescription, setAccessibleName, setAttribute, setAutoFillBackground, setBackgroundRole, setBaseSize, setContentsMargins, setContextMenuPolicy, setCursor, setDisabled, setEnabled, setFixedHeight, setFixedSize, setFixedWidth, setFocus, setFocusPolicy, setFocusProxy, setFont, setForegroundRole, setGeometry, setGraphicsEffect, setHidden, setInputContext, setInputMethodHints, setLayout, setLayoutDirection, setLocale, setMask, setMaximumHeight, setMaximumSize, setMaximumWidth, setMinimumHeight, setMinimumSize, setMinimumWidth, setMouseTracking, setPalette, setParent, setShortcutAutoRepeat, setShortcutEnabled, setShown, setSizeIncrement, setSizePolicy, setStatusTip, setStyle, setStyleSheet, setTabOrder, setToolTip, setUpdatesEnabled, setWhatsThis, setWindowFilePath, setWindowFlags, setWindowIcon, setWindowIconText, setWindowModality, setWindowModified, setWindowOpacity, setWindowRole, setWindowState, setWindowTitle, show, showFullScreen, showMaximized, showMinimized, showNormal, size, sizeIncrement, sizePolicy, stackUnder, statusTip, style, styleSheet, tabletEvent, testAttribute, toolTip, topLevelWidget, underMouse, ungrabGesture, unsetCursor, unsetLayoutDirection, unsetLocale, update, updateGeometry, updateMicroFocus, updatesEnabled, visibleRegion, whatsThis, wheelEvent, width, winId, window, windowActivationChange, windowFilePath, windowFlags, windowIcon, windowIconText, windowModality, windowOpacity, windowRole, windowState, windowTitle, windowType, x, x11Info, x11PictureHandle, y

Inherited from PyQt4.QtCore.QObject: __getattr__, blockSignals, childEvent, children, connect, connectNotify, customEvent, deleteLater, destroyed, disconnect, disconnectNotify, dumpObjectInfo, dumpObjectTree, dynamicPropertyNames, emit, findChild, findChildren, inherits, installEventFilter, isWidgetType, killTimer, metaObject, moveToThread, objectName, parent, property, pyqtConfigure, receivers, removeEventFilter, sender, senderSignalIndex, setObjectName, setProperty, signalsBlocked, startTimer, thread, timerEvent, tr, trUtf8

Inherited from PyQt4.QtGui.QPaintDevice: colorCount, depth, heightMM, logicalDpiX, logicalDpiY, numColors, paintingActive, physicalDpiX, physicalDpiY, widthMM

Inherited from sip.simplewrapper: __new__

Inherited from object: __delattr__, __format__, __getattribute__, __hash__, __reduce__, __reduce_ex__, __repr__, __setattr__, __sizeof__, __str__, __subclasshook__

Class Variables

[hide private]

Inherited from EditFeatureDialog: FEATURE_OFFSET

Inherited from PyQt4.QtGui.QDialog: Accepted, Rejected

Inherited from PyQt4.QtGui.QWidget: DrawChildren, DrawWindowBackground, IgnoreMask

Inherited from PyQt4.QtCore.QObject: staticMetaObject

Inherited from PyQt4.QtGui.QPaintDevice: PdmDepth, PdmDpiX, PdmDpiY, PdmHeight, PdmHeightMM, PdmNumColors, PdmPhysicalDpiX, PdmPhysicalDpiY, PdmWidth, PdmWidthMM

Properties

[hide private]

Inherited from object: __class__

Method Details

[hide private]

setupPanel(self, feature_id)

Set up panel

Parameters:

feature_id (int) - feature id

Overrides: EditFeatureDialog.setupPanel

setupConnections(self)

Set up connnections

Overrides: EditFeatureDialog.setupConnections: (inherited documentation)

initialize(self)

Initialize dialog using site attributes from the Phase hypothesis stored in the PT.

Overrides: EditFeatureDialog.initialize

_createFragmentHypothesis(self)

This function takes current working hypothesis and creates new hypothesis using reference ct as a 'fragment'. This will later allow to edit hypothesis features.

Returns: hypothesis.PhaseHypothesis: new fragment based hypothesis

_setAdditionalCts(self, additional_sts)

Add additional cts to the current hypothesis.

Parameters:

additional_sts (list) - list of additional cts

_findSiteIndex(self, use_orig_name=False)

This function determines site index in a hypothesis for the current feature.

Parameters:

use_orig_name (bool) - defines whether original site name should be used to find site index in a hypothesis.

Returns: int or None

index of a given site in the current hypothesis

_findSiteIndexByProximity(self)

This function determines site index in a hypothesis for the current feature using mapping by proximity. This is need for the case when feature type changes.

Returns: int or None: index of a given site in the current hypothesis

_modifyFragments(self, delete_current_site=False)

Modify hypothesis fragments when feature attributes were modified. This function is called when hypothesis already has fragments.

Parameters:

delete_current_site (bool) - flag indicating whether current site should be deleted (this happens when user clicks 'Delete' button)

_updateHypothesisWithFragments(self, fragments, sites)

Creates a new hypothesis from fragments but carries over the hypothesis specific ID and properties from an the currently stored hypothesis.

Parameters:

fragments (list) - list of fragment cts
sites (list) - list of hypothesis sites

_featureTypeChanged(self, index)

This function is called when the feature type is changed.

Parameters:

index (int) - type index in features combo box

Overrides: EditFeatureDialog._featureTypeChanged

setDefaultFeatureRules(self, feature_type)

Sets default feature rules. Given feature type is permitted and disabled, so that user can not change it. No 'prohibited' features are specificed.

Parameters:

feature_type (str) - feature type

_checkDisabledMask(self, hypo_mask)

Checks mask data for all sites in the current hypothesis and counts number of sites which are not 'Disabled' for use in screening. If the count equals 2 disable 'Disabled' item in 'Use in screening' combo box.

Parameters:

hypo_mask (phase.PhpSiteMask) - hypothesis mask

_disableMatchFeatures(self, features, combo)

This function disables given features in a specified combo box.

Parameters:

features (list) - list of features that should be disabled
combo (QtWidgets.QComboBox) - combo box that contains features that should disabled.

_resetFeature(self)

Reset feature attributes to its original values.

Overrides: EditFeatureDialog._resetFeature

accept(self)

This function is called when user clicks 'Ok' button. Here we determine what attributes were modified and make calls to save modified hypothesis in the Project Table.

Overrides: PyQt4.QtGui.QDialog.accept