Merge branch 'develop' into features/mchmmer

[jalview.git] / src / jalview / util / HMMProbabilityDistributionAnalyser.java

diff --git a/src/jalview/util/HMMProbabilityDistributionAnalyser.java b/src/jalview/util/HMMProbabilityDistributionAnalyser.java
index 567a109..66ae552 100644 (file)
--- a/src/jalview/util/HMMProbabilityDistributionAnalyser.java
+++ b/src/jalview/util/HMMProbabilityDistributionAnalyser.java
@@ -373,7 +373,7 @@ public class HMMProbabilityDistributionAnalyser
       {
         char symbol;
         int alignPos;
-        alignPos = hmm.getNodeAlignmentColumn(length);
+        alignPos = hmm.getNodeMapPosition(length);
 
         symbol = sequences.get(width).getCharAt(alignPos);
         if (ResidueProperties.backgroundFrequencies.get("amino")
@@ -407,7 +407,7 @@ public class HMMProbabilityDistributionAnalyser
       {
         char symbol;
         int alignPos;
-        alignPos = hmm.getNodeAlignmentColumn(length);
+        alignPos = hmm.getNodeMapPosition(length);
         
         symbol = sequences.get(width).getCharAt(alignPos);
         if (ResidueProperties.backgroundFrequencies.get("amino")