Overview | Package | Class | Use | Tree | Deprecated | Index | Help
PREV CLASS NEXT CLASS | FRAMES NO FRAMES
SUMMARY: NESTED | FIELD | CONSTR | METHOD | DETAIL: FIELD | CONSTR | METHOD

## org.biojavax.ga.functions
Class CrossOverFunction.NoCross

    java.lang.Object
      org.biojavax.ga.functions.CrossOverFunction.NoCross

All Implemented Interfaces:
  Changeable, CrossOverFunction

Enclosing interface:
  CrossOverFunction

    public static final class CrossOverFunction.NoCross

extends Object
implements CrossOverFunction

A place holder CrossOverFunction that doesn't perform cross overs

Version:
  1.0
Author:
  Mark Schreiber

Nested Class Summary

Nested classes/interfaces inherited from interface org.biojavax.ga.functions.CrossOverFunction
`CrossOverFunction.NoCross`

Field Summary

Fields inherited from interface org.biojavax.ga.functions.CrossOverFunction
`CROSS_PROB, DEFAULT_CROSS_PROB, DEFAULT_MAX_CROSS, MAX_CROSSES, NO_CROSS`

Constructor Summary
`CrossOverFunction.NoCross()`

Method Summary
`void` | `addChangeListener(ChangeListener cl)` Add a listener that will be informed of all changes.
`void` | `addChangeListener(ChangeListener cl, ChangeType ct)` Add a listener that will be informed of changes of a given type.
`double[]` | `getCrossOverProbs()`
`int` | `getMaxCrossOvers()`
`boolean` | `isUnchanging(ChangeType t)` A particular ChangeType can never be raised by this Changeable.
`GACrossResult` | `performCrossOver(SymbolList chromA, SymbolList chromB)` Performs a cross between the pair of chromosomes
`void` | `removeChangeListener(ChangeListener c)` Remove a listener that was interested in all types of changes.
`void` | `removeChangeListener(ChangeListener cl, ChangeType ct)` Remove a listener that was interested in a specific types of changes.
`void` | `setCrossOverProbs(double[] crossOverProb)` Sets the probability of crossing at each base.
`void` | `setMaxCrossOvers(int max)` Sets an upper limit on the number of crosses.

Methods inherited from class java.lang.Object
`clone, equals, finalize, getClass, hashCode, notify, notifyAll, toString, wait, wait, wait`

Constructor Detail

### CrossOverFunction.NoCross

    public CrossOverFunction.NoCross()

Method Detail

### getCrossOverProbs

    public double[] getCrossOverProbs()

  Specified by:
    `getCrossOverProbs` in interface `CrossOverFunction`
  Returns:
    a single member array equal to {0.0}

### getMaxCrossOvers

    public int getMaxCrossOvers()

  Specified by:
    `getMaxCrossOvers` in interface `CrossOverFunction`
  Returns:
    0 (after all you can't cross over with this function)

### performCrossOver

    public GACrossResult performCrossOver(SymbolList chromA,
                                          SymbolList chromB)

  Description copied from interface: `CrossOverFunction`
  Performs a cross between the pair of chromosomes

  Specified by:
    `performCrossOver` in interface `CrossOverFunction`
  Parameters:
    `chromA` - The first chromosome in the cross
    `chromB` - The second chromosome in the cross
  Returns:
    A `GACross` that holds the results of the cross

### setCrossOverProbs

    public void setCrossOverProbs(double[] crossOverProb)
                           throws ChangeVetoException

  Description copied from interface: `CrossOverFunction`
  Sets the probability of crossing at each base. Each position in the array corresponds to a position in the sequences to be crossed. The probability of a cross occuring after position 1 in the `SymbolList` is given by `crossOverProbs[1]`. `CrossOverProbs[0]` is effectively redundant as the cross would occur before the 1st position in the `SymbolList`. By convention if the array is shorter than the SymbolList it is being applied to then the last value in the array will be applied to every subsequent residue. The default value in all implementations should be `DEFAULT_CROSS_PROB`

  Specified by:
    `setCrossOverProbs` in interface `CrossOverFunction`
  Parameters:
    `crossOverProb` - an array of doubles giving the probability of a cross occuring at any place.
  Throws:
    `ChangeVetoException`

### setMaxCrossOvers

    public void setMaxCrossOvers(int max)
                          throws ChangeVetoException

  Description copied from interface: `CrossOverFunction`
  Sets an upper limit on the number of crosses. Its up to the implementation to decide what to do when the limit is reached although a good convention would be to keep only the first N crosses from the left end (5' end) of the sequence. By convention the default upper limit is DEFAULT_MAX_CROSS (eg infinite). This value should be used as the default by all implementations.

  Specified by:
    `setMaxCrossOvers` in interface `CrossOverFunction`
  Parameters:
    `max` - the limit on crosses
  Throws:
    `ChangeVetoException` - if a ChangeListener vetoes this change

### isUnchanging

    public boolean isUnchanging(ChangeType t)

  Description copied from interface: `Changeable`

  A particular ChangeType can never be raised by this Changeable.

  If this returns true, then it is guaranteed that change events of this type (and all child types) can never under any circumstances be fired by this Changeable instance. If it returns false, that does not mean that this type of event will or even can be raised, but that it is worth registering listeners incase.

  Specified by:
    `isUnchanging` in interface `Changeable`
  Parameters:
    `t` - the ChangeType to check
  Returns:
    true if ChangeEvents of this type are guaranteed to never be fired

### removeChangeListener

    public void removeChangeListener(ChangeListener c)

  Description copied from interface: `Changeable`
  Remove a listener that was interested in all types of changes.

  Specified by:
    `removeChangeListener` in interface `Changeable`
  Parameters:
    `c` - a ChangeListener to remove

### addChangeListener

    public void addChangeListener(ChangeListener cl)

  Description copied from interface: `Changeable`
  Add a listener that will be informed of all changes.

  Specified by:
    `addChangeListener` in interface `Changeable`
  Parameters:
    `cl` - the ChangeListener to add

### addChangeListener

    public void addChangeListener(ChangeListener cl,
                                  ChangeType ct)

  Description copied from interface: `Changeable`
  Add a listener that will be informed of changes of a given type.

  Specified by:
    `addChangeListener` in interface `Changeable`
  Parameters:
    `cl` - the ChangeListener
    `ct` - the ChangeType it is to be informed of

### removeChangeListener

    public void removeChangeListener(ChangeListener cl,
                                     ChangeType ct)

  Description copied from interface: `Changeable`
  Remove a listener that was interested in a specific types of changes.

  Specified by:
    `removeChangeListener` in interface `Changeable`
  Parameters:
    `cl` - a ChangeListener to remove
    `ct` - the ChangeType that it was interested in

Overview | Package | Class | Use | Tree | Deprecated | Index | Help
PREV CLASS NEXT CLASS | FRAMES NO FRAMES
SUMMARY: NESTED | FIELD | CONSTR | METHOD | DETAIL: FIELD | CONSTR | METHOD