JAL-1705 isFromForwardStrand added; toString (for debug) tweaked

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

diff --git a/src/jalview/util/MapList.java b/src/jalview/util/MapList.java
index e0cad6e..c32447c 100644 (file)
--- a/src/jalview/util/MapList.java
+++ b/src/jalview/util/MapList.java
@@ -889,8 +889,7 @@ public class MapList
   public String toString()
   {
     StringBuilder sb = new StringBuilder(64);
-    sb.append("From (").append(fromRatio).append(":").append(toRatio)
-            .append(") [");
+    sb.append("[");
     for (int[] shift : fromShifts)
     {
       sb.append(" ").append(Arrays.toString(shift));
@@ -975,4 +974,30 @@ public class MapList
      */
     addTo.add(range);
   }
+
+  /**
+   * Returns true if mapping is from forward strand, false if from reverse
+   * strand. Result is just based on the first 'from' range that is not a single
+   * position. Default is true unless proven to be false. Behaviour is not well
+   * defined if the mapping has a mixture of forward and reverse ranges.
+   * 
+   * @return
+   */
+  public boolean isFromForwardStrand()
+  {
+    boolean forwardStrand = true;
+    for (int[] range : getFromRanges())
+    {
+      if (range[1] > range[0])
+      {
+        break; // forward strand confirmed
+      }
+      else if (range[1] < range[0])
+      {
+        forwardStrand = false;
+        break; // reverse strand confirmed
+      }
+    }
+    return forwardStrand;
+  }
 }