Package Pmv :: Module fileCommands :: Class PDBReader

Class PDBReader

ViewerFramework.VFCommand.Command --+        
                                    |        
                  mvCommand.MVCommand --+    
                                        |    
                           MoleculeLoader --+
                                            |
                                           PDBReader

Known Subclasses:: genparserCommands.GenPDBReader

Command to load PDB files using a PDB spec compliant parser
    
Package : Pmv
    
Module  : fileCommands
    
Class   : MoleculeReader
    
Command : readMolecule 
    
Synopsis:

        mols <--- readPDB(filename, **kw)
    
Required Arguments:

        filename --- path to the PDB file

Instance Methods

[hide private]

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

onRemoveObjectFromViewer(self, obj)
Function to remove the sets able to reference a TreeNode created in this command : Here remove the alternate location list created when a pdb File is read.

doit(self, filename, ask=True)
virtual method.

__call__(self, filename, **kw)
mols <- readPDB(filename, **kw)

Inherited from MoleculeLoader: __init__, guiCallback

Inherited from mvCommand.MVCommand: 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

Class Variables

[hide private]

lastDir = None

Inherited from ViewerFramework.VFCommand.Command: negateKw, objArgOnly

Method Details

[hide private]

onAddCmdToViewer(self)

source code

method called when an instance of this command is added to the viewer. This enable viewer-addition time initializations

Overrides: ViewerFramework.VFCommand.Command.onAddCmdToViewer: (inherited documentation)

onRemoveObjectFromViewer(self, obj)

source code

Function to remove the sets able to reference a TreeNode created in this command : Here remove the alternate location list created when a pdb File is read.