charite.christo.strap
Class AbstractAlignAndCompare

java.lang.Object
  charite.christo.strap.AbstractAlignAndCompare

All Implemented Interfaces:

Disposable, HasControlPanel, HasModiCount, HasSharedControlPanel, NeedsSharedInstance, HasProtein, StrapListener, ValueOfProtein, ProteinProteinValue

Direct Known Subclasses:

AlignmentScore, IndividualSequenceDisSimilarity, RmsdValue, SequenceDisSimilarityAsAligned

public class AbstractAlignAndCompare
extends java.lang.Object
implements ProteinProteinValue, HasSharedControlPanel, HasControlPanel, Disposable, StrapListener, HasModiCount

Field Summary

Fields inherited from interface charite.christo.Disposable

NONE

Constructor Summary

AbstractAlignAndCompare()

Method Summary

ChCombo	comboClass()
void	compute() When it is time consuming then do the calculation in the compute method.
void	dispose()
java.lang.Object	getCalculator()
javax.swing.JComponent	getControlPanel(boolean real)
java.lang.Object	getOtherClass()
Protein	getOtherProtein()
Protein	getProtein()
javax.swing.JComponent	getSharedControlPanel()
java.lang.Object	getSharedInstance()
double	getValue() please store and reuse values if appropriate return NaN when not calculated yet
void	handleEvent(StrapEvent ev)
int	modificationCount()
void	setColumnRange(int f, int t) the values may depend on the range of alignment positions
void	setOtherClass(java.lang.Object o)
void	setOtherProtein(Protein prot1)
boolean	setProtein(Protein prot0)
void	setSharedInstance(java.lang.Object i)

Methods inherited from class java.lang.Object

equals, getClass, hashCode, notify, notifyAll, toString, wait, wait, wait

Constructor Detail

AbstractAlignAndCompare

public AbstractAlignAndCompare()

Method Detail

setProtein

public boolean setProtein(Protein prot0)

Specified by:

setProtein in interface ValueOfProtein

setOtherProtein

public void setOtherProtein(Protein prot1)

Specified by:

setOtherProtein in interface ProteinProteinValue

getProtein

public Protein getProtein()

Specified by:

getProtein in interface HasProtein

getOtherProtein

public Protein getOtherProtein()

Specified by:

getOtherProtein in interface ProteinProteinValue

comboClass

public ChCombo comboClass()

getOtherClass

public java.lang.Object getOtherClass()

setOtherClass

public void setOtherClass(java.lang.Object o)

setSharedInstance

public void setSharedInstance(java.lang.Object i)

Specified by:

setSharedInstance in interface NeedsSharedInstance

getSharedInstance

public java.lang.Object getSharedInstance()

Specified by:

getSharedInstance in interface NeedsSharedInstance

getSharedControlPanel

public javax.swing.JComponent getSharedControlPanel()

Specified by:

getSharedControlPanel in interface HasSharedControlPanel

getControlPanel

public javax.swing.JComponent getControlPanel(boolean real)

Specified by:

getControlPanel in interface HasControlPanel

setColumnRange

public void setColumnRange(int f,
                           int t)

Description copied from interface: ProteinProteinValue

the values may depend on the range of alignment positions

Specified by:

setColumnRange in interface ProteinProteinValue

getValue

public double getValue()

Description copied from interface: ProteinProteinValue

please store and reuse values if appropriate return NaN when not calculated yet

Specified by:

getValue in interface ValueOfProtein

Specified by:

getValue in interface ProteinProteinValue

getCalculator

public java.lang.Object getCalculator()

compute

public void compute()

Description copied from interface: ProteinProteinValue

When it is time consuming then do the calculation in the compute method. Non time intensive calculations can be performed in getValue();

Specified by:

compute in interface ValueOfProtein

Specified by:

compute in interface ProteinProteinValue

modificationCount

public int modificationCount()

Specified by:

modificationCount in interface HasModiCount

dispose

public void dispose()

Specified by:

dispose in interface Disposable

handleEvent

public void handleEvent(StrapEvent ev)

Specified by:

handleEvent in interface StrapListener