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JAL-98 ProfileI interface for Profile
[jalview.git]
/
src
/
jalview
/
datamodel
/
SequenceGroup.java
diff --git
a/src/jalview/datamodel/SequenceGroup.java
b/src/jalview/datamodel/SequenceGroup.java
index
98fd8f2
..
2870a2c
100755
(executable)
--- a/
src/jalview/datamodel/SequenceGroup.java
+++ b/
src/jalview/datamodel/SequenceGroup.java
@@
-22,7
+22,6
@@
package jalview.datamodel;
import jalview.analysis.AAFrequency;
import jalview.analysis.Conservation;
import jalview.analysis.AAFrequency;
import jalview.analysis.Conservation;
-import jalview.analysis.Profile;
import jalview.schemes.ColourSchemeI;
import java.awt.Color;
import jalview.schemes.ColourSchemeI;
import java.awt.Color;
@@
-528,7
+527,7
@@
public class SequenceGroup implements AnnotatedCollectionI
boolean upd = false;
try
{
boolean upd = false;
try
{
- Profile[] cnsns = AAFrequency.calculate(sequences, startRes,
+ ProfileI[] cnsns = AAFrequency.calculate(sequences, startRes,
endRes + 1, showSequenceLogo);
if (consensus != null)
{
endRes + 1, showSequenceLogo);
if (consensus != null)
{
@@
-600,9
+599,9
@@
public class SequenceGroup implements AnnotatedCollectionI
c.completeAnnotations(conservation, null, startRes, endRes + 1);
}
c.completeAnnotations(conservation, null, startRes, endRes + 1);
}
- public Profile[] consensusData = null;
+ public ProfileI[] consensusData = null;
- private void _updateConsensusRow(Profile[] cnsns, long nseq)
+ private void _updateConsensusRow(ProfileI[] cnsns, long nseq)
{
if (consensus == null)
{
{
if (consensus == null)
{