JAL-2795 moved matrix conversion to the ForesterMatrix class

[jalview.git] / src / jalview / ext / forester / ForesterMatrix.java

diff --git a/src/jalview/ext/forester/ForesterMatrix.java b/src/jalview/ext/forester/ForesterMatrix.java
index e0f2994..a1381be 100644 (file)
--- a/src/jalview/ext/forester/ForesterMatrix.java
+++ b/src/jalview/ext/forester/ForesterMatrix.java
@@ -163,5 +163,34 @@ public class ForesterMatrix implements DistanceMatrix
 
   }
 
+  public static DistanceMatrix convertJalviewToForester(
+          final MatrixI jalviewInputMatrix,
+          final SequenceI[] matrixSequences)
+  {
+    if (jalviewInputMatrix.width() != jalviewInputMatrix.height())
+    {
+      // some kind of warning?
+    }
+    DistanceMatrix foresterMatrix = new ForesterMatrix(jalviewInputMatrix,
+            matrixSequences);
+    return foresterMatrix;
+
+  }
+
+  public static DistanceMatrix convertJalviewToForester(
+          final MatrixI jalviewInputMatrix,
+          final String[] matrixIdentifiers)
+  {
+    if (jalviewInputMatrix.width() != jalviewInputMatrix.height())
+    {
+      // some kind of warning?
+    }
+
+    DistanceMatrix foresterMatrix = new ForesterMatrix(jalviewInputMatrix,
+            matrixIdentifiers);
+    return foresterMatrix;
+
+  }
+
 
 }
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