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JAL-3383 minor code tidying and commenting
[jalview.git]
/
src
/
jalview
/
datamodel
/
Alignment.java
diff --git
a/src/jalview/datamodel/Alignment.java
b/src/jalview/datamodel/Alignment.java
index
22d23bc
..
26379d3
100755
(executable)
--- a/
src/jalview/datamodel/Alignment.java
+++ b/
src/jalview/datamodel/Alignment.java
@@
-42,13
+42,13
@@
import java.util.Vector;
/**
* Data structure to hold and manipulate a multiple sequence alignment
/**
* Data structure to hold and manipulate a multiple sequence alignment
- */
-/**
- * @author JimP
*
*
+ * @author JimP
*/
public class Alignment implements AlignmentI
{
*/
public class Alignment implements AlignmentI
{
+ private static final SequenceGroup[] NO_GROUPS = new SequenceGroup[0];
+
private Alignment dataset;
private List<SequenceI> sequences;
private Alignment dataset;
private List<SequenceI> sequences;
@@
-61,8
+61,6
@@
public class Alignment implements AlignmentI
private List<AlignedCodonFrame> codonFrameList;
private List<AlignedCodonFrame> codonFrameList;
- private static final SequenceGroup[] noGroups = new SequenceGroup[0];
-
/*
* persistent object to hold result of findAllGroups(SequenceI)
*/
/*
* persistent object to hold result of findAllGroups(SequenceI)
*/
@@
-419,7
+417,7
@@
public class Alignment implements AlignmentI
int gSize = groups.size();
if (gSize == 0)
{
int gSize = groups.size();
if (gSize == 0)
{
- return noGroups;
+ return NO_GROUPS;
}
groupsForSequence.clear();
for (int i = 0; i < gSize; i++)
}
groupsForSequence.clear();
for (int i = 0; i < gSize; i++)