charite.christo.interfaces
Interface ProteinViewer

All Superinterfaces:

CommandInterpreter, Disposable, HasControlPanel, HasProtein, ProteinListener

public interface ProteinViewer
extends Disposable, HasProtein, HasControlPanel, CommandInterpreter, ProteinListener

A protein viewer can display proteins three-dimensionally.

Field Summary

static int	ASK
static String	PROTEIN
static String	RESIDUES
static int	SEND_ALL_ANNOTATIONS
static ChButton	TOG_CURSOR_PYMOL
static ChButton	TOG_CURSOR_RASMOL
static ChButton	TOG_CURSOR_VMD
static int	VERBOSE

Method Summary

boolean	isProteinLoaded()
boolean	setProtein(Protein p, ProteinViewer inSameView, Runnable runAfterInstallation, long options) The only use of the setProtein and getProtein methods are to to keep a reference to the protein object.
void	setSelectedResidues(boolean[] bb, int atomType, String representation_id)
void	transform(Matrix3D m)

Methods inherited from interface charite.christo.interfaces.Disposable

dispose

Methods inherited from interface charite.christo.interfaces.HasProtein

getProtein

Methods inherited from interface charite.christo.interfaces.HasControlPanel

getControlPanel

Methods inherited from interface charite.christo.interfaces.CommandInterpreter

interpret

Methods inherited from interface charite.christo.interfaces.ProteinListener

handleEvent

Field Detail

PROTEIN

static final String PROTEIN

See Also:

Constant Field Values

RESIDUES

static final String RESIDUES

See Also:

Constant Field Values

VERBOSE

static final int VERBOSE

See Also:

Constant Field Values

ASK

static final int ASK

See Also:

Constant Field Values

SEND_ALL_ANNOTATIONS

static final int SEND_ALL_ANNOTATIONS

See Also:

Constant Field Values

TOG_CURSOR_PYMOL

static final ChButton TOG_CURSOR_PYMOL

TOG_CURSOR_RASMOL

static final ChButton TOG_CURSOR_RASMOL

TOG_CURSOR_VMD

static final ChButton TOG_CURSOR_VMD

Method Detail

setSelectedResidues

void setSelectedResidues(boolean[] bb,
                         int atomType,
                         String representation_id)

Parameters:

bb - {false,true,true} means select exactly the snd and 3rd

representation_id - Vmd for instance requires identifiers for each representation. It is a String starting with a letter and containing only letters and numbers. Rasmol for Example ignors this String

atomType - ProteinViewer.ATOM_TYPE_ANY or ProteinViewer.ATOM_TYPE_CA

setProtein

boolean setProtein(Protein p,
                   ProteinViewer inSameView,
                   Runnable runAfterInstallation,
                   long options)

The only use of the setProtein and getProtein methods are to to keep a reference to the protein object. Otherwise both methods are not important.

isProteinLoaded

boolean isProteinLoaded()

transform

void transform(Matrix3D m)