Package Pmv :: Module repairCommands :: Class CheckForMissingAtoms

Class CheckForMissingAtoms

ViewerFramework.VFCommand.Command --+    
                                    |    
                  mvCommand.MVCommand --+
                                        |
                                       CheckForMissingAtoms

This command compares atoms present in residues with those expected by the dictionary used to assign Kollman charges, qkollua. It returns a dictionary of whose keys are residues missing atoms and whose values are the names of the missing atoms.  The keys are strings built from the residue name + its chain id.
   
Package : Pmv
   
Module  : repairCommands
   
Class   : CheckForMissingAtomsCommand
   
Command : checkForMissingAtoms
   
Synopsis:

        dictOfMissingAts <--- checkForMissingAtoms(nodes, **kw)
   
Required Arguments:
        
        nodes --- TreeNodeSet holding the current selection

Instance Methods

[hide private]

onRemoveObjFromViewer(self, obj)

onAddCmdToViewer(self)
method called when an instance of this command is added to the viewer.

doit(self, resSet)
virtual method.

__call__(self, nodes, **kw)
dictOfMissingAts <--- checkForMissingAtoms(nodes, **kw)

Inherited from mvCommand.MVCommand: __init__, guiCallback, strArg

Inherited from mvCommand.MVCommand (private): _strArg

Inherited from ViewerFramework.VFCommand.Command: __repr__, addCallbackAfter, addCallbackBefore, addUndoCall, afterDoit, beforeDoit, buildFormDescr, buildLogArgList, checkDependencies, cleanup, customizeGUI, doitWrapper, getArguments, getHelp, getLastUsedValues, getLogArgs, getValNamedArgs, log, logString, onAddNewCmd, onCmdRun, setLastUsedValues, setupUndoAfter, setupUndoBefore, showForm, tkCb, updateGeom, warningMsg