JAL-1632 'includeGaps' applied to FeatureDistanceModel (needs review)

[jalview.git] / test / jalview / analysis / scoremodels / ScoreMatrixTest.java

diff --git a/test/jalview/analysis/scoremodels/ScoreMatrixTest.java b/test/jalview/analysis/scoremodels/ScoreMatrixTest.java
index 85be5b7..374d308 100644 (file)
--- a/test/jalview/analysis/scoremodels/ScoreMatrixTest.java
+++ b/test/jalview/analysis/scoremodels/ScoreMatrixTest.java
@@ -247,8 +247,7 @@ public class ScoreMatrixTest
   }
 
   /**
-   * Tests for percentage identity variants where the longer length of two
-   * sequences is used
+   * Tests for scoring options where the longer length of two sequences is used
    */
   @Test(groups = "Functional")
   public void testcomputeSimilarity_matchLongestSequence()
@@ -312,8 +311,8 @@ public class ScoreMatrixTest
   }
 
   /**
-   * Tests for percentage identity variants where only the shorter length of two
-   * sequences is used
+   * Tests for scoring options where only the shorter length of two sequences is
+   * used
    */
   @Test(groups = "Functional")
   public void testcomputeSimilarity_matchShortestSequence()
@@ -332,7 +331,7 @@ public class ScoreMatrixTest
 
     /*
      * score gap-gap and gap-char
-     * shorter sequence treated as if with trailing gaps
+     * match shorter sequence only
      * score = F^F + R^S + -^- + K^- + -^L
      * = 6 + -1 + 1 + -4 + -4 = -2
      */