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JAL-98 JAL-1854 encapsulate 'magic number' threshold 3 in Conservation
[jalview.git]
/
src
/
jalview
/
viewmodel
/
AlignmentViewport.java
diff --git
a/src/jalview/viewmodel/AlignmentViewport.java
b/src/jalview/viewmodel/AlignmentViewport.java
index
254a201
..
57258ef
100644
(file)
--- a/
src/jalview/viewmodel/AlignmentViewport.java
+++ b/
src/jalview/viewmodel/AlignmentViewport.java
@@
-1867,7
+1867,7
@@
public abstract class AlignmentViewport implements AlignViewportI,
cs.setConsensus(hconsensus);
if (cs.conservationApplied())
{
cs.setConsensus(hconsensus);
if (cs.conservationApplied())
{
- cs.setConservation(Conservation.calculateConservation("All", 3,
+ cs.setConservation(Conservation.calculateConservation("All",
alignment.getSequences(), 0, alignment.getWidth(), false,
getConsPercGaps(), false));
}
alignment.getSequences(), 0, alignment.getWidth(), false,
getConsPercGaps(), false));
}