chemaxon.marvin.beans
Class MSketchPane

java.lang.Object
  java.awt.Component
      java.awt.Container
          javax.swing.JComponent
              javax.swing.JRootPane
                  chemaxon.marvin.beans.MarvinPane
                      chemaxon.marvin.beans.MSketchPane

All Implemented Interfaces:

java.awt.event.ComponentListener, java.awt.event.KeyListener, java.awt.image.ImageObserver, java.awt.MenuContainer, java.beans.PropertyChangeListener, java.io.Serializable, java.util.EventListener, javax.accessibility.Accessible

public class MSketchPane
extends MarvinPane

The MarvinSketch Bean.

Version:

5.0.2, 02/29/2008

Author:

Peter Csizmadia, Tamas Vertse, Szilveszter Juhos

See Also:

Serialized Form

Nested Class Summary

Nested classes/interfaces inherited from class javax.swing.JRootPane

javax.swing.JRootPane.AccessibleJRootPane, javax.swing.JRootPane.RootLayout

Nested classes/interfaces inherited from class javax.swing.JComponent

javax.swing.JComponent.AccessibleJComponent

Nested classes/interfaces inherited from class java.awt.Container

java.awt.Container.AccessibleAWTContainer

Nested classes/interfaces inherited from class java.awt.Component

java.awt.Component.AccessibleAWTComponent, java.awt.Component.BaselineResizeBehavior, java.awt.Component.BltBufferStrategy, java.awt.Component.FlipBufferStrategy

Field Summary

static int	SM_ATOM Atom mode.
static int	SM_BOND Bond mode.
static int	SM_DELETE Delete mode.
static int	SM_FLAGS_OFF Offset of flags in sketch mode.
static int	SM_MASK Sketch mode mask.
static int	SM_SELECT Select mode.
static int	SM_SELECT_LASSO Lasso select mode.

Fields inherited from class chemaxon.marvin.beans.MarvinPane

molPanel, params, topLevelContainer, VERSION

Fields inherited from class javax.swing.JRootPane

COLOR_CHOOSER_DIALOG, contentPane, defaultButton, defaultPressAction, defaultReleaseAction, ERROR_DIALOG, FILE_CHOOSER_DIALOG, FRAME, glassPane, INFORMATION_DIALOG, layeredPane, menuBar, NONE, PLAIN_DIALOG, QUESTION_DIALOG, WARNING_DIALOG

Fields inherited from class javax.swing.JComponent

accessibleContext, listenerList, TOOL_TIP_TEXT_KEY, ui, UNDEFINED_CONDITION, WHEN_ANCESTOR_OF_FOCUSED_COMPONENT, WHEN_FOCUSED, WHEN_IN_FOCUSED_WINDOW

Fields inherited from class java.awt.Component

BOTTOM_ALIGNMENT, CENTER_ALIGNMENT, LEFT_ALIGNMENT, RIGHT_ALIGNMENT, TOP_ALIGNMENT

Fields inherited from interface java.awt.image.ImageObserver

ABORT, ALLBITS, ERROR, FRAMEBITS, HEIGHT, PROPERTIES, SOMEBITS, WIDTH

Constructor Summary

MSketchPane()
Constructs the sketcher.

MSketchPane(UserSettings settings)
Constructs the sketcher with the specified user settings object.

MSketchPane(UserSettings settings, boolean loadtmpl)
Constructs the sketcher with the specified user settings object.

Method Summary

void	addPropertyChangeListener(java.lang.String propertyName, java.beans.PropertyChangeListener listener) Adds a PropertyChangeListener for a specific property.
void	centralizeMoleculeDisplay() Puts the molecule into the center of the display.
void	clearHistory() Reset undo queue.
void	doPaste() Invokes Paste action.
boolean	getAutoScale() Returns autoscale property.
double[]	getBoundRectSize() Gets the size of the bounding rectangle.
javax.swing.JComponent	getCanvasComponent() Determines canvas component of MarvinSketch.
chemaxon.marvin.common.swing.CommonActions	getCommonActions() Gets the common actions.
static double	getDefaultScale() Returns the default scale factor which is equivalent to 100% magnification.
java.util.List<java.lang.String>	getDisabledGroupTypes()
MDocument	getDocument() Gets the document.
java.awt.Image	getImage(java.awt.Dimension size) Gets the canvas contents as an image scaled to fit in the specified rectangle.
java.awt.Image	getImage(double scale) Gets the canvas contents as an image using a scale factor.
double	getMag() Deprecated. As of Marvin 2.8.1, replaced by getScale()
double	getMergedst() Gets the merge distance.
Molecule	getMol() Returns the clone of the current molecule being on the canvas.
java.lang.String	getMol(java.lang.String fmt) Gets the molecule in a text format.
java.lang.String	getMrvWithSettings() Gets the molecule in the sketcher with its current settings in MRV format.
java.lang.Object	getObjectAtPointer() Get the object at the mouse pointer.
java.lang.String	getPiece(java.lang.String fmt) Gets the current molecule piece in the specified format.
boolean	getReactionSupport() Is reaction drawing supported?
double	getScale() Returns the scale factor of the current magnification.
Molecule	getSelection() Gets a clone of the selection.
int	getSimpView() Deprecated. as of Marvin 3.5, replaced by isBondDraggedAlong()
int	getSketchMode() Gets the sketching mode.
double	getStickdst() Gets the sticking distance.
int	getUndo() Gets the maximum undo depth.
boolean	isBondDraggedAlong() Is the currently used bond shown at the mouse cursor?
boolean	isCloseEnabled() Determines if the File->Close menu item is enabled or not.
boolean	isConfirmExit() Gets whether the confirmation dialog will be appear or not by exit.
boolean	isLoadedMolModified() Determines whether the original molecule that is loaded in is modified or not.
boolean	isReactionErrorVisible() Deprecated. As of Version 5.3.2, this method is deprecated and has no replacement. It will be removed in a future version of Marvin. Are reaction errors highlighted?
boolean	isValenceErrorVisible() Are valence errors highlighted?
void	propertyChange(java.beans.PropertyChangeEvent ev) Handles property change events.
void	readExternal(java.io.ObjectInput in) Restores object state.
void	redo() Invokes a redo command.
void	setAutoScale(boolean as) Sets the autoscale property.
void	setBondDraggedAlong(boolean v) Sets the visibility of the currently used bond at the mouse cursor.
void	setCloseEnabled(boolean b) Set the accessibility of the Close menu item in the File menu.
void	setConfirmExit(boolean b) Sets to drop confirmation dialog about exit or not.
void	setDisabledGroupTypes(java.util.List<java.lang.String> disabledGroupTypes)
void	setDocument(MDocument doc) Sets the document.
void	setMag(double m) Deprecated. As of Marvin 2.8.1, replaced by setScale()
void	setMergedst(double d) Sets the merge distance.
void	setMol(java.io.File f, java.lang.String opts) Sets the molecule.
void	setMol(Molecule m) Sets the molecule.
void	setMol(Molecule m, boolean init) Sets the molecule.
void	setMol(java.lang.String s) Starts loading a molecule into the sketcher.
void	setMol(java.lang.String s, java.lang.String opts) Starts loading a molecule into the sketcher.
void	setMrvWithSettings(java.lang.String mrvsource) Sets the molecule and its display settings.
void	setPiece(java.lang.String s) Sets the molecule piece.
void	setReactionErrorVisible(boolean v) Deprecated. As of Version 5.3.2, this method is deprecated and has no replacement. It will be removed in a future version of Marvin.
void	setReactionSupport(boolean v) Allows or disallows reaction drawing.
void	setScale(double m) Sets the scale factor and changes magnification of the canvas.
void	setSimpView(int v) Deprecated. as of Marvin 3.5, replaced by setBondDraggedAlong(boolean)
void	setSketchMode(int mode) Sets the sketching mode.
void	setStickdst(double d) Sets the sticking distance.
void	setUndo(int u) Sets the maximum undo depth.
void	setValenceErrorVisible(boolean v) Shows or hides valence errors
void	undo() Invokes an undo command.
void	writeExternal(java.io.ObjectOutput out) Saves object state.

Methods inherited from class chemaxon.marvin.beans.MarvinPane

addActionListener, addHelpMenu, addMenuBarChangeListener, addToolsMenu, arePopupMenusEnabled, beginHourglass, closeWindows, componentHidden, componentMoved, componentResized, componentShown, createMenu, endHourglass, exit, getAtomNumbersVisible, getAtomSetColor, getAtomsize, getBallRadius, getBondSpacing, getBondWidth, getChiralitySupport, getCleanDim, getColorScheme, getDebug, getDirectory, getDispopts, getDispQuality, getDownWedge, getExplicitH, getFile, getFormat, getImplicitH, getInvisibleSets, getLabels, getLonePairsVisible, getMolbg, getMolPanel, getParameter, getParams, getPopupMenusEnabled, getReadGlobalGUIProperties, getRendering, getResourceBundle, getSaveGlobalGUIProperties, getSetColor, getStickThickness, getTopLevelContainer, getUserSettings, getWireThickness, init, init, initAction, initButton, isAtomMappingVisible, isAtomNumbersVisible, isAtomSymbolsVisible, isBondLengthVisible, isExitCanceled, isExperimentalEnabled, isEzVisible, isGrinv, isGrinvVisible, isPrintEnabled, isRgroupsVisible, isSaveIniEnabled, isSetColoringEnabled, keyPressed, keyReleased, keyTyped, readDoc, readMol, readResources, removeActionListener, setAtomMappingVisible, setAtomNumbersVisible, setAtomSetColor, setAtomsize, setAtomSymbolsVisible, setBallRadius, setBondLengthVisible, setBondSetColor, setBondSpacing, setBondWidth, setChiralitySupport, setCleanDim, setColorScheme, setDebug, setDirectory, setDispopts, setDispQuality, setDownWedge, setEnabled, setExperimentalEnabled, setExplicitH, setEzVisible, setFile, setFormat, setGlobalGUIProperties, setGrinv, setGrinvVisible, setImplicitH, setInvisibleSets, setLabels, setLonePairsVisible, setMolbg, setParams, setPopupMenusEnabled, setPrintEnabled, setRendering, setRgroupsVisible, setSaveIniEnabled, setSetColor, setSetColoringEnabled, setStickThickness, setTopLevelContainer, setUserSettings, setWireThickness, showErrorDialog, showFileDialog, showFileOpenDialog, writeMol

Methods inherited from class javax.swing.JRootPane

addImpl, addNotify, createContentPane, createGlassPane, createLayeredPane, createRootLayout, getAccessibleContext, getContentPane, getDefaultButton, getGlassPane, getJMenuBar, getLayeredPane, getMenuBar, getUI, getUIClassID, getWindowDecorationStyle, isOptimizedDrawingEnabled, isValidateRoot, paramString, removeNotify, setContentPane, setDefaultButton, setDoubleBuffered, setGlassPane, setJMenuBar, setLayeredPane, setMenuBar, setUI, setWindowDecorationStyle, updateUI

Methods inherited from class javax.swing.JComponent

addAncestorListener, addVetoableChangeListener, computeVisibleRect, contains, createToolTip, disable, enable, firePropertyChange, firePropertyChange, firePropertyChange, fireVetoableChange, getActionForKeyStroke, getActionMap, getAlignmentX, getAlignmentY, getAncestorListeners, getAutoscrolls, getBaseline, getBaselineResizeBehavior, getBorder, getBounds, getClientProperty, getComponentGraphics, getComponentPopupMenu, getConditionForKeyStroke, getDebugGraphicsOptions, getDefaultLocale, getFontMetrics, getGraphics, getHeight, getInheritsPopupMenu, getInputMap, getInputMap, getInputVerifier, getInsets, getInsets, getListeners, getLocation, getMaximumSize, getMinimumSize, getNextFocusableComponent, getPopupLocation, getPreferredSize, getRegisteredKeyStrokes, getRootPane, getSize, getToolTipLocation, getToolTipText, getToolTipText, getTopLevelAncestor, getTransferHandler, getVerifyInputWhenFocusTarget, getVetoableChangeListeners, getVisibleRect, getWidth, getX, getY, grabFocus, isDoubleBuffered, isLightweightComponent, isManagingFocus, isOpaque, isPaintingForPrint, isPaintingTile, isRequestFocusEnabled, paint, paintBorder, paintChildren, paintComponent, paintImmediately, paintImmediately, print, printAll, printBorder, printChildren, printComponent, processComponentKeyEvent, processKeyBinding, processKeyEvent, processMouseEvent, processMouseMotionEvent, putClientProperty, registerKeyboardAction, registerKeyboardAction, removeAncestorListener, removeVetoableChangeListener, repaint, repaint, requestDefaultFocus, requestFocus, requestFocus, requestFocusInWindow, requestFocusInWindow, resetKeyboardActions, reshape, revalidate, scrollRectToVisible, setActionMap, setAlignmentX, setAlignmentY, setAutoscrolls, setBackground, setBorder, setComponentPopupMenu, setDebugGraphicsOptions, setDefaultLocale, setFocusTraversalKeys, setFont, setForeground, setInheritsPopupMenu, setInputMap, setInputVerifier, setMaximumSize, setMinimumSize, setNextFocusableComponent, setOpaque, setPreferredSize, setRequestFocusEnabled, setToolTipText, setTransferHandler, setUI, setVerifyInputWhenFocusTarget, setVisible, unregisterKeyboardAction, update

Methods inherited from class java.awt.Container

add, add, add, add, add, addContainerListener, addPropertyChangeListener, applyComponentOrientation, areFocusTraversalKeysSet, countComponents, deliverEvent, doLayout, findComponentAt, findComponentAt, getComponent, getComponentAt, getComponentAt, getComponentCount, getComponents, getComponentZOrder, getContainerListeners, getFocusTraversalKeys, getFocusTraversalPolicy, getLayout, getMousePosition, insets, invalidate, isAncestorOf, isFocusCycleRoot, isFocusCycleRoot, isFocusTraversalPolicyProvider, isFocusTraversalPolicySet, layout, list, list, locate, minimumSize, paintComponents, preferredSize, printComponents, processContainerEvent, processEvent, remove, remove, removeAll, removeContainerListener, setComponentZOrder, setFocusCycleRoot, setFocusTraversalPolicy, setFocusTraversalPolicyProvider, setLayout, transferFocusBackward, transferFocusDownCycle, validate, validateTree

Methods inherited from class java.awt.Component

action, add, addComponentListener, addFocusListener, addHierarchyBoundsListener, addHierarchyListener, addInputMethodListener, addKeyListener, addMouseListener, addMouseMotionListener, addMouseWheelListener, bounds, checkImage, checkImage, coalesceEvents, contains, createImage, createImage, createVolatileImage, createVolatileImage, disableEvents, dispatchEvent, enable, enableEvents, enableInputMethods, firePropertyChange, firePropertyChange, firePropertyChange, firePropertyChange, firePropertyChange, firePropertyChange, getBackground, getBounds, getColorModel, getComponentListeners, getComponentOrientation, getCursor, getDropTarget, getFocusCycleRootAncestor, getFocusListeners, getFocusTraversalKeysEnabled, getFont, getForeground, getGraphicsConfiguration, getHierarchyBoundsListeners, getHierarchyListeners, getIgnoreRepaint, getInputContext, getInputMethodListeners, getInputMethodRequests, getKeyListeners, getLocale, getLocation, getLocationOnScreen, getMouseListeners, getMouseMotionListeners, getMousePosition, getMouseWheelListeners, getName, getParent, getPeer, getPropertyChangeListeners, getPropertyChangeListeners, getSize, getToolkit, getTreeLock, gotFocus, handleEvent, hasFocus, hide, imageUpdate, inside, isBackgroundSet, isCursorSet, isDisplayable, isEnabled, isFocusable, isFocusOwner, isFocusTraversable, isFontSet, isForegroundSet, isLightweight, isMaximumSizeSet, isMinimumSizeSet, isPreferredSizeSet, isShowing, isValid, isVisible, keyDown, keyUp, list, list, list, location, lostFocus, mouseDown, mouseDrag, mouseEnter, mouseExit, mouseMove, mouseUp, move, nextFocus, paintAll, postEvent, prepareImage, prepareImage, processComponentEvent, processFocusEvent, processHierarchyBoundsEvent, processHierarchyEvent, processInputMethodEvent, processMouseWheelEvent, remove, removeComponentListener, removeFocusListener, removeHierarchyBoundsListener, removeHierarchyListener, removeInputMethodListener, removeKeyListener, removeMouseListener, removeMouseMotionListener, removeMouseWheelListener, removePropertyChangeListener, removePropertyChangeListener, repaint, repaint, repaint, resize, resize, setBounds, setBounds, setComponentOrientation, setCursor, setDropTarget, setFocusable, setFocusTraversalKeysEnabled, setIgnoreRepaint, setLocale, setLocation, setLocation, setName, setSize, setSize, show, show, size, toString, transferFocus, transferFocusUpCycle

Methods inherited from class java.lang.Object

clone, equals, finalize, getClass, hashCode, notify, notifyAll, wait, wait, wait

Field Detail

SM_SELECT

public static final int SM_SELECT

Select mode.

Since:

4.0, 02/17/2004

See Also:

Constant Field Values

SM_DELETE

public static final int SM_DELETE

Delete mode.

Since:

4.0, 02/17/2004

See Also:

Constant Field Values

SM_ATOM

public static final int SM_ATOM

Atom mode. Additional flags must be used to specify the element type. Example:

 setSketchMode(MSketchPane.SM_Atom | (6 << MSketchPane.SM_FLAGS_OFF));
 

Since:

4.0, 02/17/2004

See Also:

Constant Field Values

SM_BOND

public static final int SM_BOND

Bond mode. Additional flags must be used to specify the bond type. Example:

 setSketchMode(MSketchPane.SM_BOND | (1 << MSketchPane.SM_FLAGS_OFF));
 

Since:

4.0, 02/17/2004

See Also:

Constant Field Values

SM_SELECT_LASSO

public static final int SM_SELECT_LASSO

Lasso select mode.

See Also:

Constant Field Values

SM_MASK

public static final int SM_MASK

Sketch mode mask.

Since:

4.0, 02/17/2004

See Also:

Constant Field Values

SM_FLAGS_OFF

public static final int SM_FLAGS_OFF

Offset of flags in sketch mode.

Since:

4.0, 02/17/2004

See Also:

Constant Field Values

Constructor Detail

MSketchPane

public MSketchPane()

Constructs the sketcher.

MSketchPane

public MSketchPane(UserSettings settings)

Constructs the sketcher with the specified user settings object.

Parameters:

settings - the user settings

Since:

Marvin 3.0

MSketchPane

public MSketchPane(UserSettings settings,
                   boolean loadtmpl)

Constructs the sketcher with the specified user settings object.

Parameters:

settings - the user settings

loadtmpl - load template structures and abbreviated groups immediately (true) or not (false)

Since:

Marvin 3.4.2

Method Detail

getCanvasComponent

public javax.swing.JComponent getCanvasComponent()

Determines canvas component of MarvinSketch. This method is required to add new eventlistener to MarvinSketch. (e.g.: getCanvasComponent().addMouseListener(actionListener); This method is required for creating a custom popup menu.)

Returns:

Canvas component of MarvinSketch.

Since:

Marvin 2.9.12

See Also:

MarvinPane.setPopupMenusEnabled(boolean)

setAutoScale

public void setAutoScale(boolean as)

Sets the autoscale property. If autoscale is true the molecule is sized to fit on the molecule panel.

Parameters:

as - set to true to enable autoscale

getAutoScale

public boolean getAutoScale()

Returns autoscale property.

Returns:

true, if autoscale is enabled

propertyChange

public void propertyChange(java.beans.PropertyChangeEvent ev)

Handles property change events.

Specified by:

propertyChange in interface java.beans.PropertyChangeListener

Overrides:

propertyChange in class MarvinPane

Parameters:

ev - the event object

addPropertyChangeListener

public void addPropertyChangeListener(java.lang.String propertyName,
                                      java.beans.PropertyChangeListener listener)

Adds a PropertyChangeListener for a specific property. The listener will be invoked only when a call on firePropertyChange names that specific property.

If listener is null, no exception is thrown and no action is performed.

MarvinSketch: parameters and events

Overrides:

addPropertyChangeListener in class java.awt.Container

Parameters:

propertyName - the name of the property to listen on

listener - the PropertyChangeListener to be added

getMol

public Molecule getMol()

Returns the clone of the current molecule being on the canvas. In case this molecule is changed, it will not affect the content of the canvas.

Returns:

the molecule

getMol

public java.lang.String getMol(java.lang.String fmt)

Gets the molecule in a text format. The format descriptor string can also contain export options. Format and options are separated by a colon, multiple options can be separated by commas. See the text formats and their options on the File Formats in Marvin page. Examples:

 s1 = msketch.getMol("mol");
 s2 = msketch.getMol("smiles:a-H"); // aromatize and remove Hydrogens
 

Parameters:

fmt - the format descriptor string

Returns:

the molecule in the specified format

setMol

public void setMol(Molecule m)

Sets the molecule. Initialization is always performed.

Parameters:

m - the molecule

setMol

public void setMol(Molecule m,
                   boolean init)

Sets the molecule.

Parameters:

m - the molecule

init - set this to false if initialization is not needed

setMol

public void setMol(java.lang.String s)

Starts loading a molecule into the sketcher. The argument can be a molecule in text format, or a reference/URL to a molecule file. The file format and/or import options can be specified if the argument is in one of the following forms: "file{options}", "file{format:}", or "file{format:options}". See the text formats and their options on the File Formats in Marvin page.
Examples:
setMol(dir+fileSeparator+"foo.xyz.gz{gzip:xyz:f1.4C4}");
setMol("CCCC=O");

Parameters:

s - molfile contents, URL or (Unix) filename

setMol

public void setMol(java.lang.String s,
                   java.lang.String opts)

Starts loading a molecule into the sketcher. The first argument can be a molecule in text format, or a reference/URL to a molecule file. The file format and/or import options can be specified if the second argument is in one of the following forms: "options", "format:", or "format:options". See the text formats and their options on the File Formats in Marvin page.

Parameters:

s - molfile contents, URL or (Unix) filename

opts - options or null

Since:

Marvin 3.3

setMol

public void setMol(java.io.File f,
                   java.lang.String opts)

Sets the molecule. The file format and/or import options can be specified with the opts argument in one of the following forms: "options", "format:", or "format:options". See the text formats and their options on the File Formats in Marvin page.
Example: setMol(new File(dir, "foo.xyz.gz"), "gzip:xyz:f1.4C4");

Parameters:

f - the molecule file

opts - import options or null

getDocument

public MDocument getDocument()

Gets the document.

Returns:

the document

Since:

Marvin 3.4, 06/03/2004

setDocument

public void setDocument(MDocument doc)

Sets the document.

Parameters:

doc - the document

Since:

Marvin 3.4, 06/03/2004

getSelection

public Molecule getSelection()

Gets a clone of the selection.

Returns:

the selection

getObjectAtPointer

public java.lang.Object getObjectAtPointer()

Get the object at the mouse pointer.

Returns:

a MolAtom or MolBond object.

getPiece

public java.lang.String getPiece(java.lang.String fmt)

Gets the current molecule piece in the specified format.

Parameters:

fmt - the format

Returns:

the piece in the specified molecule file format

See Also:

getMol(java.lang.String)

setPiece

public void setPiece(java.lang.String s)

Sets the molecule piece.

Parameters:

s - the piece in some molecule file format

getImage

public java.awt.Image getImage(double scale)

Gets the canvas contents as an image using a scale factor.
Examples:
To get an image with a scale factor equivalent to 100% magnification: getImage(getDefaultScale());
To get an image with the actual scale factor: getImage(getScale());

Parameters:

scale - the absolute scale factor, see getScale()

Returns:

the molecule image

Since:

Marvin 4.0, 07/09/2005

getImage

public java.awt.Image getImage(java.awt.Dimension size)

Gets the canvas contents as an image scaled to fit in the specified rectangle. The best width/height ratio can be determined using the getBoundRectSize() method.

Parameters:

size - the image size

Returns:

the molecule image

Since:

Marvin 4.0, 07/09/2005

getBoundRectSize

public double[] getBoundRectSize()

Gets the size of the bounding rectangle.

Returns:

two-element array containing the width and height in C-C bond length units

Since:

Marvin 4.0, 07/09/2005

See Also:

MolBond.CCLENGTH, getScale()

getDefaultScale

public static double getDefaultScale()

Returns the default scale factor which is equivalent to 100% magnification.

Returns:

default displayed length of a C-C bond in pixels

getScale

public double getScale()

Returns the scale factor of the current magnification. The scale factor determines the displayed size of a Carbon-Carbon single bond measured in pixels. In case the magnification is 100%, the returned scale factor equals with the value of getDefaultScale().

Returns:

displayed length of a C-C bond in pixels

See Also:

MolBond.CCLENGTH

setScale

public void setScale(double m)

Sets the scale factor and changes magnification of the canvas. The scale factor determines the displayed size of a Carbon-Carbon single bond measured in pixels. In case the value of getDefaultScale() is set, the magnification of the canvas will be set to 100%.

Parameters:

m - displayed length of a C-C bond in pixels

See Also:

MolBond.CCLENGTH

getStickdst

public double getStickdst()

Gets the sticking distance.

Returns:

the stick distance in C-C bond length units

See Also:

MolBond.CCLENGTH

setStickdst

public void setStickdst(double d)

Sets the sticking distance.

Parameters:

d - the stick distance in C-C bond length units

See Also:

MolBond.CCLENGTH

getMergedst

public double getMergedst()

Gets the merge distance.

Returns:

the merge distance in C-C bond length units

See Also:

MolBond.CCLENGTH

setMergedst

public void setMergedst(double d)

Sets the merge distance.

Parameters:

d - the merge distance in C-C bond length units

See Also:

MolBond.CCLENGTH

getUndo

public int getUndo()

Gets the maximum undo depth.

Returns:

maximum history length

setUndo

public void setUndo(int u)

Sets the maximum undo depth.

Parameters:

u - maximum history length

getReactionSupport

public boolean getReactionSupport()

Is reaction drawing supported?

Returns:

true if supported, false otherwise

setReactionSupport

public void setReactionSupport(boolean v)

Allows or disallows reaction drawing.

Parameters:

v - true to allow, false to disallow

isReactionErrorVisible

@Deprecated
public boolean isReactionErrorVisible()

Deprecated. As of Version 5.3.2, this method is deprecated and has no replacement. It will be removed in a future version of Marvin.

Are reaction errors highlighted?

Returns:

false

Since:

Marvin 2.9.13

setReactionErrorVisible

@Deprecated
public void setReactionErrorVisible(boolean v)

Deprecated. As of Version 5.3.2, this method is deprecated and has no replacement. It will be removed in a future version of Marvin.

Shows or hides reaction errors

Parameters:

v - True, draws red rectangles around the reaction arrows, if reactions are invalid.

Since:

Marvin 2.9.13

isValenceErrorVisible

public boolean isValenceErrorVisible()

Are valence errors highlighted?

Returns:

True, if valence errors are highlighted with underline.

Since:

Marvin 2.9.13

setValenceErrorVisible

public void setValenceErrorVisible(boolean v)

Shows or hides valence errors

Parameters:

v - True, underlines atom symbols in case valence errors.

Since:

Marvin 2.9.13

isBondDraggedAlong

public boolean isBondDraggedAlong()

Is the currently used bond shown at the mouse cursor?

Returns:

true if the bond is dragged along by the mouse cursor, false otherwise

Since:

Marvin 3.5, 09/30/2004

setBondDraggedAlong

public void setBondDraggedAlong(boolean v)

Sets the visibility of the currently used bond at the mouse cursor.

Parameters:

v - true to drag along the bond by the mouse cursor, false to hide it

Since:

Marvin 3.5, 09/30/2004

setSketchMode

public void setSketchMode(int mode)

Sets the sketching mode.

Parameters:

mode - the sketching mode

Since:

Marvin 4.0

See Also:

SM_SELECT, SM_DELETE, SM_ATOM, SM_BOND, SM_SELECT_LASSO

getSketchMode

public int getSketchMode()

Gets the sketching mode.

Returns:

the sketching mode or -1 for special modes

Since:

Marvin 4.0

See Also:

SM_SELECT, SM_DELETE, SM_ATOM, SM_BOND, SM_SELECT_LASSO

getSimpView

public int getSimpView()

Deprecated. as of Marvin 3.5, replaced by isBondDraggedAlong()

Gets the visibility of the object in hand.

Returns:

0 normally, 1 if the objects in hand are invisible

setSimpView

public void setSimpView(int v)

Deprecated. as of Marvin 3.5, replaced by setBondDraggedAlong(boolean)

Hides the object in hand.

Parameters:

v - 0 for normal behaviour, 1 to hide bond in hand

getMag

public double getMag()

Deprecated. As of Marvin 2.8.1, replaced by getScale()

Returns:

the magnification

setMag

public void setMag(double m)

Deprecated. As of Marvin 2.8.1, replaced by setScale()

Parameters:

m - the magnification

writeExternal

public void writeExternal(java.io.ObjectOutput out)
                   throws java.io.IOException

Saves object state. For internal use only! This method does not implement the Externalizable interface. It is called by the writeExternal method of class MSketch, which does implement it.

Overrides:

writeExternal in class MarvinPane

Parameters:

out - the stream to write the object to

Throws:

java.io.IOException - Includes any I/O exceptions that may occur

Since:

Marvin 3.5, 2004/11/01

readExternal

public void readExternal(java.io.ObjectInput in)
                  throws java.io.IOException,
                         java.lang.ClassNotFoundException

Restores object state. For internal use only! This method does not implement the Externalizable interface. It is called by the readExternal method of class MSketch, which does implement it.

Overrides:

readExternal in class MarvinPane

Parameters:

in - the stream to read data from in order to restore the object

Throws:

java.io.IOException - if I/O errors occur

java.lang.ClassNotFoundException - If the class for an object being restored cannot be found.

Since:

Marvin 3.5, 2004/11/01

getMrvWithSettings

public java.lang.String getMrvWithSettings()

Gets the molecule in the sketcher with its current settings in MRV format.

Returns:

the MRV source

Since:

4.0 07/01/2005

See Also:

setMrvWithSettings(String)

setMrvWithSettings

public void setMrvWithSettings(java.lang.String mrvsource)

Sets the molecule and its display settings. Settings can be imported if the MRV source includes display infos.

Parameters:

mrvsource - the MRV source

Since:

4.0 07/01/2005

See Also:

getMrvWithSettings()

isCloseEnabled

public boolean isCloseEnabled()

Determines if the File->Close menu item is enabled or not.

Returns:

True, if Close is enabled in the menu, else false.

Since:

4.0 07/05/2005

See Also:

setCloseEnabled(boolean)

setCloseEnabled

public void setCloseEnabled(boolean b)

Set the accessibility of the Close menu item in the File menu.

Parameters:

b - True to enable close operation from the file menu. False to set it to disabled.

Since:

4.0 07/05/2005

See Also:

isCloseEnabled()

undo

public void undo()

Invokes an undo command.

redo

public void redo()

Invokes a redo command.

setConfirmExit

public void setConfirmExit(boolean b)

Sets to drop confirmation dialog about exit or not.

Parameters:

b - True, confirmation dialog will be appear by exit if modifications were not saved, else false.

isConfirmExit

public boolean isConfirmExit()

Gets whether the confirmation dialog will be appear or not by exit.

Returns:

True, confirmation dialog will be appear by exit if modifications were not saved, else false.

isLoadedMolModified

public boolean isLoadedMolModified()

Determines whether the original molecule that is loaded in is modified or not.

Returns:

If modified returns with true, else false.

Since:

5.0.2 02/29/2008

doPaste

public void doPaste()

Invokes Paste action.

Specified by:

doPaste in class MarvinPane

Since:

Marvin 5.0

clearHistory

public void clearHistory()

Reset undo queue.

Since:

Marvin 4.1.11 07/06/2007

getCommonActions

public chemaxon.marvin.common.swing.CommonActions getCommonActions()

Description copied from class: MarvinPane

Gets the common actions.

Overrides:

getCommonActions in class MarvinPane

Returns:

the actions

centralizeMoleculeDisplay

public void centralizeMoleculeDisplay()

Puts the molecule into the center of the display.

setDisabledGroupTypes

public void setDisabledGroupTypes(java.util.List<java.lang.String> disabledGroupTypes)

getDisabledGroupTypes

public java.util.List<java.lang.String> getDisabledGroupTypes()