org.biojava.nbio.core.sequence.location

Class InsdcLocations.GroupLocation

java.lang.Object

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

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

org.biojava.nbio.core.sequence.location.InsdcLocations.GroupLocation

All Implemented Interfaces:

java.io.Serializable, java.lang.Iterable<Location>, Location, Accessioned

Enclosing class:

InsdcLocations

public static class InsdcLocations.GroupLocation
extends SimpleLocation

Deprecated in INSDC yet still appears; equivalent to the order() directive except no 5' to 3' ordering is defined. The constructor reflects this relationship and only allows the creation of complex locations

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 and Description
GroupLocation(boolean isCircular, Location... subLocations)
GroupLocation(int start, int end, Strand strand, java.util.List<Location> subLocations)
GroupLocation(int start, int end, Strand strand, Location... subLocations)
GroupLocation(java.util.List subLocations)
GroupLocation(Location... subLocations)
GroupLocation(Point start, Point end, Strand strand, boolean circular, java.util.List<Location> subLocations)
GroupLocation(Point start, Point end, Strand strand, boolean circular, Location... subLocations)
GroupLocation(Point start, Point end, Strand strand, java.util.List<Location> subLocations)
GroupLocation(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

GroupLocation

public GroupLocation(java.util.List subLocations)

GroupLocation

public GroupLocation(Location... subLocations)

GroupLocation

public GroupLocation(boolean isCircular,
                     Location... subLocations)

GroupLocation

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

GroupLocation

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

GroupLocation

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

GroupLocation

public GroupLocation(Point start,
                     Point end,
                     Strand strand,
                     boolean circular,
                     java.util.List<Location> subLocations)

GroupLocation

public GroupLocation(Point start,
                     Point end,
                     Strand strand,
                     java.util.List<Location> subLocations)

GroupLocation

public GroupLocation(int start,
                     int end,
                     Strand strand,
                     java.util.List<Location> subLocations)