RuntimeException during copy

java.lang.RuntimeException: Molecule@f73c43[19a,21b] is not a parent of child S-group: SuperatomSgroup@95815d[NO2,C].parentMolecule=Molecule@600fd7[79a,84b]


at chemaxon.struc.Molecule.clonecopySgroups(Molecule.java:992)


at chemaxon.struc.Molecule.clonecopy(Molecule.java:872)


at chemaxon.struc.Molecule.cloneMolecule(Molecule.java:1056)


at chemaxon.struc.RxnMolecule.clonecopy(RxnMolecule.java:2142)


at chemaxon.struc.RxnMolecule.cloneMolecule(RxnMolecule.java:2212)


at chemaxon.struc.Molecule.clone(Molecule.java:1065)


at chemaxon.struc.graphics.MChemicalStruct.<init>(MChemicalStruct.java:35)


at chemaxon.struc.graphics.MChemicalStruct.clone(MChemicalStruct.java:51)


at chemaxon.struc.MDocument.<init>(MDocument.java:221)


at chemaxon.struc.MDocument.<init>(MDocument.java:192)


at chemaxon.struc.MDocument.cloneDocument(MDocument.java:463)


at chemaxon.struc.MDocument.cloneMainMoleculeGraph(MDocument.java:483)


at chemaxon.struc.MDocument.cloneMainMolecule(MDocument.java:474)


at chemaxon.marvin.beans.MSketchPane.getMol(MSketchPane.java:191)


at com.vpharm.application.medchem.vbook.gui.reaction.ReactionPane$3$1.actionPerformed(ReactionPane.java:127)


at com.vpharm.application.medchem.vbook.gui.reaction.ReactionPane$3$2.windowClosing(ReactionPane.java:161)


at java.awt.AWTEventMulticaster.windowClosing(AWTEventMulticaster.java:291)


at java.awt.AWTEventMulticaster.windowClosing(AWTEventMulticaster.java:291)


at java.awt.Window.processWindowEvent(Window.java:1190)


at javax.swing.JDialog.processWindowEvent(JDialog.java:414)


at java.awt.Window.processEvent(Window.java:1148)


at java.awt.Component.dispatchEventImpl(Component.java:4021)


at java.awt.Container.dispatchEventImpl(Container.java:2068)


at java.awt.Window.dispatchEventImpl(Window.java:1774)


at java.awt.Component.dispatchEvent(Component.java:3869)


at java.awt.EventQueue.dispatchEvent(EventQueue.java:463)


at java.awt.EventDispatchThread.pumpOneEventForHierarchy(EventDispatchThread.java:269)


at java.awt.EventDispatchThread.pumpEventsForHierarchy(EventDispatchThread.java:190)


at java.awt.EventDispatchThread.pumpEventsForHierarchy(EventDispatchThread.java:180)


at java.awt.Dialog$1.run(Dialog.java:517)


at java.awt.Dialog$2.run(Dialog.java:545)


at java.security.AccessController.doPrivileged(Native Method)


at java.awt.Dialog.show(Dialog.java:543)


at java.awt.Component.show(Component.java:1300)


at java.awt.Component.setVisible(Component.java:1253)


at com.vpharm.application.medchem.vbook.gui.reaction.ReactionPane$3.mouseClicked(ReactionPane.java:302)


at java.awt.AWTEventMulticaster.mouseClicked(AWTEventMulticaster.java:212)


at java.awt.Component.processMouseEvent(Component.java:5557)


at javax.swing.JComponent.processMouseEvent(JComponent.java:3126)


at java.awt.Component.processEvent(Component.java:5319)


at java.awt.Container.processEvent(Container.java:2010)


at java.awt.Component.dispatchEventImpl(Component.java:4021)


at java.awt.Container.dispatchEventImpl(Container.java:2068)


at java.awt.Component.dispatchEvent(Component.java:3869)


at java.awt.LightweightDispatcher.retargetMouseEvent(Container.java:4256)


at java.awt.LightweightDispatcher.processMouseEvent(Container.java:3945)


at java.awt.LightweightDispatcher.dispatchEvent(Container.java:3866)


at java.awt.Container.dispatchEventImpl(Container.java:2054)


at java.awt.Window.dispatchEventImpl(Window.java:1774)


at java.awt.Component.dispatchEvent(Component.java:3869)


at java.awt.EventQueue.dispatchEvent(EventQueue.java:463)


at java.awt.EventDispatchThread.pumpOneEventForHierarchy(EventDispatchThread.java:269)


at java.awt.EventDispatchThread.pumpEventsForHierarchy(EventDispatchThread.java:190)


at java.awt.EventDispatchThread.pumpEvents(EventDispatchThread.java:184)


at java.awt.EventDispatchThread.pumpEvents(EventDispatchThread.java:176)


at java.awt.EventDispatchThread.run(EventDispatchThread.java:110)

Dear Trevor,


Do you use the latest Marvin 4.1.x or evaluate a pre-release of new Marvin 5.0?

New Marvin 5.0 is already available. Try this.