net.sf.jannot
Class MemoryFeatureAnnotation

java.lang.Object
  java.util.AbstractCollection<E>
      java.util.AbstractList<E>
          java.util.ArrayList<T>
              net.sf.jannot.MemoryListData<Feature>
                  net.sf.jannot.MemoryFeatureAnnotation

All Implemented Interfaces:

java.io.Serializable, java.lang.Cloneable, java.lang.Iterable<Feature>, java.util.Collection<Feature>, java.util.List<Feature>, java.util.RandomAccess, Data<Feature>, DensityEstimate, FeatureAnnotation

public class MemoryFeatureAnnotation
extends MemoryListData<Feature>
implements FeatureAnnotation

See Also:

Serialized Form

Field Summary

Fields inherited from class java.util.AbstractList

modCount

Constructor Summary

MemoryFeatureAnnotation()

Method Summary

boolean	add(Feature f)
int	cachedCount() Returns the number of features that resides in memory.
boolean	canSave()
java.lang.Iterable<Feature>	get()
java.lang.Iterable<Feature>	get(int start, int end) Gets data.
Feature	getCached(int row)
int	getCachedIndexOf(Feature first)
int	getEstimateCount(Location l)
int	getMaximumCoordinate()
double	getMaxScore() Gives the most reliable estimate of the maximum score.
double	getMinScore() Gives the most reliable estimate of the mininum score.
java.lang.String	label()
java.util.Set<java.lang.String>	qualifierKeys() List of keys of qualifiers that are oresent in this data set.
void	remove(Feature f)
java.lang.String	toString()

Methods inherited from class net.sf.jannot.MemoryListData

addAll, addAll

Methods inherited from class java.util.ArrayList

add, addAll, addAll, clear, clone, contains, ensureCapacity, get, indexOf, isEmpty, lastIndexOf, remove, remove, removeRange, set, size, toArray, toArray, trimToSize

Methods inherited from class java.util.AbstractList

equals, hashCode, iterator, listIterator, listIterator, subList

Methods inherited from class java.util.AbstractCollection

containsAll, removeAll, retainAll

Methods inherited from class java.lang.Object

finalize, getClass, notify, notifyAll, wait, wait, wait

Methods inherited from interface java.util.List

containsAll, equals, hashCode, iterator, listIterator, listIterator, removeAll, retainAll, subList

Constructor Detail

MemoryFeatureAnnotation

public MemoryFeatureAnnotation()

Method Detail

get

public java.lang.Iterable<Feature> get(int start,
                                       int end)

Description copied from interface: Data

Gets data. The selected data should cover [start,end[. The coordinates are one based.

Specified by:

get in interface Data<Feature>

Overrides:

get in class MemoryListData<Feature>

Parameters:

start - the start coordinate, this one will be included. This is a one-based coordinate.

end - the end coordinate, this one will not be included. This is a one-based coordinate.

Returns:

the selected data.

get

public java.lang.Iterable<Feature> get()

Specified by:

get in interface Data<Feature>

Overrides:

get in class MemoryListData<Feature>

add

public boolean add(Feature f)

Specified by:

add in interface java.util.Collection<Feature>

Specified by:

add in interface java.util.List<Feature>

Overrides:

add in class java.util.ArrayList<Feature>

Parameters:

f -

Returns:

remove

public void remove(Feature f)

Parameters:

f -

cachedCount

public int cachedCount()

Returns the number of features that resides in memory.

Returns:

getCached

public Feature getCached(int row)

Parameters:

row -

Returns:

getCachedIndexOf

public int getCachedIndexOf(Feature first)

Parameters:

first -

Returns:

getEstimateCount

public int getEstimateCount(Location l)

Specified by:

getEstimateCount in interface DensityEstimate

getMaximumCoordinate

public int getMaximumCoordinate()

Specified by:

getMaximumCoordinate in interface DensityEstimate

getMaxScore

public double getMaxScore()

Description copied from interface: FeatureAnnotation

Gives the most reliable estimate of the maximum score. For memory based containers, this value should be accurate for indexed structure a best effort will suffice. At least all features that have been returned before the invocation of this method should be within range of getMinScore and getMaxScore.

Specified by:

getMaxScore in interface FeatureAnnotation

Returns:

getMinScore

public double getMinScore()

Description copied from interface: FeatureAnnotation

Gives the most reliable estimate of the mininum score. For memory based containers, this value should be accurate for indexed structure a best effort will suffice. At least all features that have been returned before the invocation of this method should be within range of getMinScore and getMaxScore.

Specified by:

getMinScore in interface FeatureAnnotation

Returns:

toString

public java.lang.String toString()

Overrides:

toString in class java.util.AbstractCollection<Feature>

qualifierKeys

public java.util.Set<java.lang.String> qualifierKeys()

Description copied from interface: FeatureAnnotation

List of keys of qualifiers that are oresent in this data set. In case of indexed structures at least all qualifier keys that have appeared so far, should be in the list.

Specified by:

qualifierKeys in interface FeatureAnnotation

Returns:

canSave

public boolean canSave()

Specified by:

canSave in interface Data<Feature>

Overrides:

canSave in class MemoryListData<Feature>

Returns:

label

public java.lang.String label()

Specified by:

label in interface Data<Feature>