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SUMMARY: INNER | FIELD | CONSTR | METHOD | DETAIL: FIELD | CONSTR | METHOD |
java.lang.Object | +--ec.vector.VectorGene
VectorGene is an abstract superclass of objects which may be used in the genome array of GeneVectorIndividuals.
Default Base
vector.vect-gene
Field Summary | |
static java.lang.String |
P_VECTORGENE
|
Constructor Summary | |
VectorGene()
|
Method Summary | |
Parameter |
defaultBase()
Returns the default base for this prototype. |
abstract boolean |
equals(java.lang.Object other)
Unlike the standard form for Java, this function should return true if this gene is "genetically identical" to the other gene. |
abstract int |
hashCode()
Generates a hash code for this gene -- the rule for this is that the hash code must be the same for two genes that are equal to each other genetically. |
void |
mutate(EvolutionState state,
int thread)
Mutate the gene. |
void |
printGene(EvolutionState state,
int verbosity,
int log)
Prints the gene in a way that can be read by readGene(). |
void |
printGene(EvolutionState state,
java.io.PrintWriter writer)
Prints the gene in a way that can be read by readGene(). |
void |
printGeneForHumans(EvolutionState state,
int verbosity,
int log)
Nice printing. |
java.lang.String |
printGeneToString(EvolutionState state)
Prints the gene to a string in a fashion readable by readGeneFromString. |
java.lang.Object |
protoClone()
Creates a new individual cloned from a prototype, and suitable to begin use in its own evolutionary context. |
java.lang.Object |
protoCloneSimple()
This should be implemented in a the top-level Prototype ONLY; in fact, it should probably be declared final. |
void |
readGene(EvolutionState state,
java.io.LineNumberReader reader)
Reads a gene printed by printGene(...). |
void |
readGeneFromString(java.lang.String string,
EvolutionState state)
Reads a gene from a string, which may contain a final '\n'. |
abstract void |
reset(EvolutionState state,
int thread)
The reset method randomly reinitializes the gene. |
void |
setup(EvolutionState state,
Parameter base)
Sets up the object by reading it from the parameters stored in state, built off of the parameter base base. |
Methods inherited from class java.lang.Object |
clone, finalize, getClass, notify, notifyAll, toString, wait, wait, wait |
Field Detail |
public static final java.lang.String P_VECTORGENE
Constructor Detail |
public VectorGene()
Method Detail |
public void setup(EvolutionState state, Parameter base)
Prototype
For prototypes, setup(...) is typically called once for the prototype instance; cloned instances do not receive the setup(...) call. setup(...) may be called more than once; the only guarantee is that it will get called at least once on an instance or some "parent" object from which it was ultimately cloned.
setup
in interface Prototype
public Parameter defaultBase()
Prototype
defaultBase
in interface Prototype
public java.lang.Object protoClone() throws java.lang.CloneNotSupportedException
Prototype
The question here is whether or not this means to perform a "deep" or "light" ("shallow") clone, or something in-between. You may need to deep-clone parts of your object rather than simply copying their references, depending on the situation:
Implementations.
public Object protoClone() throws CloneNotSupportedException
{
return super.clone();
}
public Object protoClone() throws CloneNotSupportedException
{
myobj = (MyObject) (super.clone());
// put your deep-cloning code here...
// ...you should use protoClone and not
// protoCloneSimple to clone subordinate objects...
return myobj;
}
public Object protoClone() throws CloneNotSupportedException
{
MyObject myobj = (MyObject)(super.protoClone());
// put your deep-cloning code here...
// ...you should use protoClone and not
// protoCloneSimple to clone subordinate objects...
return myobj;
}
If you know that your superclasses will never change their protoClone() implementations, you might try inlining them in your overridden protoClone() method. But this is dangerous (though it yields a small net increase).
In general, you want to keep your deep cloning to an absolute minimum, so that you don't have to call protoClone() but one time.
The approach taken here is the fastest that I am aware of while still permitting objects to be specified at runtime from a parameter file. It would be faster to use the "new" operator; but that would require hard-coding that we can't do. Although using java.lang.Object.clone() entails an extra layer that deals with stripping away the "protected" keyword and also wrapping the exception handling (which is a BIG hit, about three times as slow as using "new"), it's still MUCH faster than using java.lang.Class.newInstance(), and also much faster than rolling our own Clone() method.
protoClone
in interface Prototype
public final java.lang.Object protoCloneSimple()
Prototype
public final Object protoCloneSimple()
{
try { return protoClone(); }
catch (CloneNotSupportedException e)
{ throw new InternalError(); } // never happens
}
protoCloneSimple
in interface Prototype
public abstract int hashCode()
hashCode
in class java.lang.Object
public abstract boolean equals(java.lang.Object other)
equals
in class java.lang.Object
public abstract void reset(EvolutionState state, int thread)
public void mutate(EvolutionState state, int thread)
public void printGeneForHumans(EvolutionState state, int verbosity, int log)
public java.lang.String printGeneToString(EvolutionState state)
public void readGeneFromString(java.lang.String string, EvolutionState state)
public void printGene(EvolutionState state, int verbosity, int log)
public void printGene(EvolutionState state, java.io.PrintWriter writer)
public void readGene(EvolutionState state, java.io.LineNumberReader reader) throws java.io.IOException, java.lang.CloneNotSupportedException
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