public class CRAIEntry extends java.lang.Object implements java.lang.Comparable<CRAIEntry>, java.lang.Cloneable
Modifier and Type | Field and Description |
---|---|
int |
alignmentSpan |
int |
alignmentStart |
static java.util.Comparator<CRAIEntry> |
byEnd |
static java.util.Comparator<CRAIEntry> |
byStart |
static java.util.Comparator<CRAIEntry> |
byStartDesc |
long |
containerStartOffset |
int |
sequenceId |
int |
sliceIndex |
int |
sliceOffset |
int |
sliceSize |
Constructor and Description |
---|
CRAIEntry() |
CRAIEntry(java.lang.String line)
Create a CRAI Entry from a serialized CRAI index line.
|
Modifier and Type | Method and Description |
---|---|
CRAIEntry |
clone() |
int |
compareTo(CRAIEntry o) |
static java.util.List<CRAIEntry> |
fromContainer(Container container) |
static boolean |
intersect(CRAIEntry e0,
CRAIEntry e1) |
java.lang.String |
toString() |
void |
writeToStream(java.io.OutputStream os)
Serialize the entry to a CRAI index stream.
|
public int sequenceId
public int alignmentStart
public int alignmentSpan
public long containerStartOffset
public int sliceOffset
public int sliceSize
public int sliceIndex
public static java.util.Comparator<CRAIEntry> byEnd
public static final java.util.Comparator<CRAIEntry> byStart
public static java.util.Comparator<CRAIEntry> byStartDesc
public CRAIEntry()
public CRAIEntry(java.lang.String line) throws CRAIIndex.CRAIIndexException
line
- string formatted as a CRAI index entryCRAIIndex.CRAIIndexException
public void writeToStream(java.io.OutputStream os)
os
- stream to write topublic java.lang.String toString()
toString
in class java.lang.Object
public int compareTo(CRAIEntry o)
compareTo
in interface java.lang.Comparable<CRAIEntry>
public CRAIEntry clone() throws java.lang.CloneNotSupportedException
clone
in class java.lang.Object
java.lang.CloneNotSupportedException