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JAL-3949 - refactor logging from jalview.bin.Cache to jalview.bin.Console
[jalview.git]
/
src
/
jalview
/
ws
/
jws2
/
AADisorderClient.java
diff --git
a/src/jalview/ws/jws2/AADisorderClient.java
b/src/jalview/ws/jws2/AADisorderClient.java
index
9a2316c
..
315e69f
100644
(file)
--- a/
src/jalview/ws/jws2/AADisorderClient.java
+++ b/
src/jalview/ws/jws2/AADisorderClient.java
@@
-21,7
+21,7
@@
package jalview.ws.jws2;
import jalview.api.FeatureColourI;
package jalview.ws.jws2;
import jalview.api.FeatureColourI;
-import jalview.bin.Cache;
+import jalview.bin.Console;
import jalview.datamodel.AlignmentAnnotation;
import jalview.datamodel.GraphLine;
import jalview.datamodel.SequenceFeature;
import jalview.datamodel.AlignmentAnnotation;
import jalview.datamodel.GraphLine;
import jalview.datamodel.SequenceFeature;
@@
-207,8
+207,7
@@
public class AADisorderClient extends JabawsCalcWorker
scores = scoremanager.getAnnotationForSequence(seqId);
} catch (Exception q)
{
scores = scoremanager.getAnnotationForSequence(seqId);
} catch (Exception q)
{
- Cache.log
- .info("Couldn't recover disorder prediction for sequence "
+ Console.info("Couldn't recover disorder prediction for sequence "
+ seq.getName() + "(Prediction name was " + seqId
+ ")"
+ "\nSee http://issues.jalview.org/browse/JAL-1319 for one possible reason why disorder predictions might fail.");
+ seq.getName() + "(Prediction name was " + seqId
+ ")"
+ "\nSee http://issues.jalview.org/browse/JAL-1319 for one possible reason why disorder predictions might fail.");
@@
-344,8
+343,9
@@
public class AADisorderClient extends JabawsCalcWorker
{
// set graduated color as fading to white for minimum, and
// autoscaling to values on alignment
{
// set graduated color as fading to white for minimum, and
// autoscaling to values on alignment
- FeatureColourI ggc = new FeatureColour(Color.white,
- gc.getColour(), Float.MIN_VALUE, Float.MAX_VALUE);
+ FeatureColourI ggc = new FeatureColour(gc.getColour(),
+ Color.white, gc.getColour(), Color.white,
+ Float.MIN_VALUE, Float.MAX_VALUE);
ggc.setAutoScaled(true);
fr.setColour(ft, ggc);
}
ggc.setAutoScaled(true);
fr.setColour(ft, ggc);
}