Package org.biojava.nbio.core.sequence.location

Class SimpleLocation

java.lang.Object

org.biojava.nbio.core.sequence.location.template.AbstractLocation

org.biojava.nbio.core.sequence.location.SimpleLocation

All Implemented Interfaces:

Serializable, Iterable<Location>, Location, Accessioned

Direct Known Subclasses:

InsdcLocations.GroupLocation, InsdcLocations.OrderLocation, SequenceLocation

public class SimpleLocation
extends AbstractLocation

Very basic implementation of the Location interface which defines a series of simple constructors.

Author:

ayates, Paolo Pavan

See Also:

Serialized Form

Nested Class Summary

Nested classes/interfaces inherited from interface org.biojava.nbio.core.sequence.location.template.Location

Location.Tools

Field Summary

Fields inherited from interface org.biojava.nbio.core.sequence.location.template.Location

EMPTY

Constructor Summary

Constructors

Constructor	Description
SimpleLocation(int start, int end)
SimpleLocation(int start, int end, Strand strand)
SimpleLocation(int start, int end, Strand strand, List<Location> subLocations)
SimpleLocation(int start, int end, Strand strand, Location... subLocations)
SimpleLocation(Point start, Point end)
SimpleLocation(Point start, Point end, Strand strand)
SimpleLocation(Point start, Point end, Strand strand, boolean circular, boolean betweenBases)
SimpleLocation(Point start, Point end, Strand strand, boolean circular, boolean betweenBases, List<Location> subLocations)
SimpleLocation(Point start, Point end, Strand strand, boolean circular, List<Location> subLocations)
SimpleLocation(Point start, Point end, Strand strand, boolean betweenCompounds, AccessionID accession)
SimpleLocation(Point start, Point end, Strand strand, boolean circular, Location... subLocations)
SimpleLocation(Point start, Point end, Strand strand, List<Location> subLocations)
SimpleLocation(Point start, Point end, Strand strand, AccessionID accession)
SimpleLocation(Point start, Point end, Strand strand, Location... subLocations)

Method Summary

Methods inherited from class org.biojava.nbio.core.sequence.location.template.AbstractLocation

assertLocation, canComplement, equals, getAccession, getEnd, getLength, getRelevantSubLocations, getRelevantSubSequence, getStart, getStrand, getSubLocations, getSubSequence, hashCode, isBetweenCompounds, isCircular, isComplex, isPartial, isPartialOn3prime, isPartialOn5prime, iterator, reverseSequence, setAccession, setBetweenCompounds, setCircular, setEnd, setPartialOn3prime, setPartialOn5prime, setStart, setStrand, setSubLocations, toString

Methods inherited from class java.lang.Object

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

Methods inherited from interface java.lang.Iterable

forEach, spliterator

Constructor Detail

SimpleLocation

public SimpleLocation(int start,
                      int end)

SimpleLocation

public SimpleLocation(Point start,
                      Point end)

SimpleLocation

public SimpleLocation(int start,
                      int end,
                      Strand strand)

SimpleLocation

public SimpleLocation(int start,
                      int end,
                      Strand strand,
                      List<Location> subLocations)

SimpleLocation

public SimpleLocation(Point start,
                      Point end,
                      Strand strand)

SimpleLocation

public SimpleLocation(Point start,
                      Point end,
                      Strand strand,
                      AccessionID accession)

SimpleLocation

public SimpleLocation(Point start,
                      Point end,
                      Strand strand,
                      boolean betweenCompounds,
                      AccessionID accession)

SimpleLocation

public SimpleLocation(Point start,
                      Point end,
                      Strand strand,
                      boolean circular,
                      boolean betweenBases)

SimpleLocation

public SimpleLocation(int start,
                      int end,
                      Strand strand,
                      Location... subLocations)

SimpleLocation

public SimpleLocation(Point start,
                      Point end,
                      Strand strand,
                      Location... subLocations)

SimpleLocation

public SimpleLocation(Point start,
                      Point end,
                      Strand strand,
                      boolean circular,
                      Location... subLocations)

SimpleLocation

public SimpleLocation(Point start,
                      Point end,
                      Strand strand,
                      boolean circular,
                      List<Location> subLocations)

SimpleLocation

public SimpleLocation(Point start,
                      Point end,
                      Strand strand,
                      List<Location> subLocations)

SimpleLocation

public SimpleLocation(Point start,
                      Point end,
                      Strand strand,
                      boolean circular,
                      boolean betweenBases,
                      List<Location> subLocations)