git://source.jalview.org
/
jalview.git
/ blobdiff
commit
grep
author
committer
pickaxe
?
search:
re
summary
|
shortlog
|
log
|
commit
|
commitdiff
|
tree
raw
|
inline
| side by side
conservation removed
[jalview.git]
/
src
/
jalview
/
schemes
/
Blosum62ColourScheme.java
diff --git
a/src/jalview/schemes/Blosum62ColourScheme.java
b/src/jalview/schemes/Blosum62ColourScheme.java
index
6c83920
..
7798672
100755
(executable)
--- a/
src/jalview/schemes/Blosum62ColourScheme.java
+++ b/
src/jalview/schemes/Blosum62ColourScheme.java
@@
-21,29
+21,18
@@
package jalview.schemes;
\r
import java.util.*;
\r
import java.awt.*;
\r
\r
import java.util.*;
\r
import java.awt.*;
\r
-import jalview.gui.*;
\r
-import jalview.datamodel.*;
\r
\r
public class Blosum62ColourScheme extends ResidueColourScheme
\r
{
\r
\r
\r
public class Blosum62ColourScheme extends ResidueColourScheme
\r
{
\r
\r
- // need to keep an eye on the changing visible consensus sequence
\r
- AlignViewport av;
\r
-
\r
- public Blosum62ColourScheme(AlignViewport av)
\r
+ public Blosum62ColourScheme()
\r
{
\r
super();
\r
{
\r
super();
\r
- this.av = av;
\r
}
\r
\r
}
\r
\r
- public Color findColour(String s, int j, Vector aa)
\r
+ public Color findColour(String s, int j)
\r
{
\r
{
\r
- Hashtable hash;
\r
-
\r
- if (aa != null)
\r
- hash = (Hashtable)aa.elementAt(j);
\r
- else
\r
- return Color.white;
\r
+ Hashtable hash = (Hashtable)consensus.elementAt(j);
\r
\r
if (!jalview.util.Comparison.isGap((s.charAt(0))))
\r
{
\r
\r
if (!jalview.util.Comparison.isGap((s.charAt(0))))
\r
{
\r
@@
-73,7
+62,7
@@
public class Blosum62ColourScheme extends ResidueColourScheme
\r
public boolean canThreshold()
\r
{
\r
\r
public boolean canThreshold()
\r
{
\r
- return false;
\r
+ return true;
\r
}
\r
\r
}
\r
}
\r
\r
}
\r