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P

PARTICLE_NAME - Static variable in class uk.ac.ed.simulator_pdb.model.TemplateFile
 
PDBFile - class uk.ac.ed.simulator_pdb.model.PDBFile.
User: nix Date: 17-Aug-2004 Time: 13:30:58 To change this template_file_object use Options | File TemplateBuilderModel.
PDBFile(File) - Constructor for class uk.ac.ed.simulator_pdb.model.PDBFile
 
PDBFile.AminoAcid - class uk.ac.ed.simulator_pdb.model.PDBFile.AminoAcid.
 
PDBFile.AminoAcid(int) - Constructor for class uk.ac.ed.simulator_pdb.model.PDBFile.AminoAcid
 
PDBFile.Atom - class uk.ac.ed.simulator_pdb.model.PDBFile.Atom.
 
PDBFile.Atom(SimParticleTemplate, Vector3d) - Constructor for class uk.ac.ed.simulator_pdb.model.PDBFile.Atom
 
PDBFile.Cluster - class uk.ac.ed.simulator_pdb.model.PDBFile.Cluster.
 
PDBFile.Cluster(Vector3d, double, float) - Constructor for class uk.ac.ed.simulator_pdb.model.PDBFile.Cluster
 
PDBFile.DataPoint - interface uk.ac.ed.simulator_pdb.model.PDBFile.DataPoint.
 
PDBFile.PDBAdapter - class uk.ac.ed.simulator_pdb.model.PDBFile.PDBAdapter.
 
PDBFile.PDBAdapter() - Constructor for class uk.ac.ed.simulator_pdb.model.PDBFile.PDBAdapter
 
PDBFile.PDBEvent - class uk.ac.ed.simulator_pdb.model.PDBFile.PDBEvent.
 
PDBFile.PDBEvent(Object, double) - Constructor for class uk.ac.ed.simulator_pdb.model.PDBFile.PDBEvent
 
PDBFile.PDBEvent(Object, PDBFile) - Constructor for class uk.ac.ed.simulator_pdb.model.PDBFile.PDBEvent
 
PDBFile.PDBEvent(Object, TemplateFileObject) - Constructor for class uk.ac.ed.simulator_pdb.model.PDBFile.PDBEvent
 
PDBFile.PDBListener - interface uk.ac.ed.simulator_pdb.model.PDBFile.PDBListener.
 
PDBHandler - class uk.ac.ed.simulator_pdb.model.pdb_handler.PDBHandler.
 
PDBHandler() - Constructor for class uk.ac.ed.simulator_pdb.model.pdb_handler.PDBHandler
 
PROBABILITY_OF_BOND_UPDATE - Static variable in class uk.ac.ed.simulator_pdb.SimulationJava3DController
 
PropertiesController - class uk.ac.ed.simulator_pdb.PropertiesController.
User: nix Date: 05-Apr-2004 Time: 16:37:04 To change this template use Options | File TemplateBuilderModel.
PropertiesController(Model, PropertiesView) - Constructor for class uk.ac.ed.simulator_pdb.PropertiesController
Constructs a new SwingController
PropertiesView - class uk.ac.ed.simulator_pdb.PropertiesView.
User: nix Date: 05-Apr-2004 Time: 15:50:02 To change this template use Options | File TemplateBuilderModel.
PropertiesView(Model) - Constructor for class uk.ac.ed.simulator_pdb.PropertiesView
 
parent - Variable in class uk.ac.ed.simulator_pdb.model.InstanceFileObject
 
particleTemplateCoordX - Variable in class uk.ac.ed.simulator_pdb.model.neuroml_handler.XMLSimObjectTemplate
 
particleTemplateCoordY - Variable in class uk.ac.ed.simulator_pdb.model.neuroml_handler.XMLSimObjectTemplate
 
particleTemplateCoordZ - Variable in class uk.ac.ed.simulator_pdb.model.neuroml_handler.XMLSimObjectTemplate
 
particleTemplateIds - Variable in class uk.ac.ed.simulator_pdb.model.neuroml_handler.XMLSimObjectTemplate
 
particleTemplateOrientAngle - Variable in class uk.ac.ed.simulator_pdb.model.neuroml_handler.XMLSimObjectTemplate
 
particleTemplateOrientX - Variable in class uk.ac.ed.simulator_pdb.model.neuroml_handler.XMLSimObjectTemplate
 
particleTemplateOrientY - Variable in class uk.ac.ed.simulator_pdb.model.neuroml_handler.XMLSimObjectTemplate
 
particleTemplateOrientZ - Variable in class uk.ac.ed.simulator_pdb.model.neuroml_handler.XMLSimObjectTemplate
 
pdbFileAdded(TemplateBuilderModel.FileEvent) - Method in class uk.ac.ed.simulator_pdb.model.TemplateBuilderModel.FileAdapter
 
pdbFileAdded(TemplateBuilderModel.FileEvent) - Method in interface uk.ac.ed.simulator_pdb.model.TemplateBuilderModel.FileListener
 
pdbFileChanged(PDBFile.PDBEvent) - Method in class uk.ac.ed.simulator_pdb.model.PDBFile.PDBAdapter
 
pdbFileChanged(PDBFile.PDBEvent) - Method in interface uk.ac.ed.simulator_pdb.model.PDBFile.PDBListener
 
pdbFileRemoved(TemplateBuilderModel.FileEvent) - Method in class uk.ac.ed.simulator_pdb.model.TemplateBuilderModel.FileAdapter
 
pdbFileRemoved(TemplateBuilderModel.FileEvent) - Method in interface uk.ac.ed.simulator_pdb.model.TemplateBuilderModel.FileListener
 
pdb_file_ext - Static variable in class uk.ac.ed.simulator_pdb.model.pdb_handler.PDBHandler
 
pdb_file_listener - Variable in class uk.ac.ed.simulator_pdb.TemplateJava3DView
 
pdb_listeners - Variable in class uk.ac.ed.simulator_pdb.model.PDBFile
 
position - Variable in class uk.ac.ed.simulator_pdb.model.PDBFile.AminoAcid
 
position - Variable in class uk.ac.ed.simulator_pdb.model.PDBFile.Cluster
 
positionForBonding(Matrix4d, Matrix4d, double) - Method in class uk.ac.ed.simulator_pdb.SimulationJava3DController
 
probabilities - Variable in class uk.ac.ed.simulator_pdb.model.neuroml_handler.XMLSimRuleTemplate
 
probability - Variable in class uk.ac.ed.simulator_pdb.model.SimRuleTemplate.Likelyhood
 

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