X-Git-Url: http://source.jalview.org/gitweb/?p=jalview.git;a=blobdiff_plain;f=src%2Fjalview%2Fio%2Fvamsas%2FRangetype.java;h=64a07e13fa80a89b935ed822a498e39bfa281761;hp=08b1b52cea989eb33f4864469f4d7b9d3c9b70ae;hb=67b3acb8df1438ef37a756c04e14f5a3b8406808;hpb=aa91e8c4561c2dd0f18760e18fb0052979733bf8

diff --git a/src/jalview/io/vamsas/Rangetype.java b/src/jalview/io/vamsas/Rangetype.java
index 08b1b52..64a07e1 100644
--- a/src/jalview/io/vamsas/Rangetype.java
+++ b/src/jalview/io/vamsas/Rangetype.java
@@ -20,7 +20,9 @@
  */
 package jalview.io.vamsas;
 
+import jalview.bin.Cache;
 import jalview.io.VamsasAppDatastore;
+import jalview.util.MapList;
 import jalview.util.MessageManager;
 
 import java.util.List;
@@ -246,26 +248,26 @@ public abstract class Rangetype extends DatastoreItem
    * @param default unit for mapped
    * @return MapList
    */
-  protected jalview.util.MapList parsemapType(MapType maprange, int localu,
+  protected MapList parsemapType(MapType maprange, int localu,
           int mappedu)
   {
-    jalview.util.MapList ml = null;
+    MapList ml = null;
     int[] localRange = getIntervals(maprange.getLocal());
     int[] mappedRange = getIntervals(maprange.getMapped());
     long lu = maprange.getLocal().hasUnit() ? maprange.getLocal().getUnit()
             : localu;
     long mu = maprange.getMapped().hasUnit() ? maprange.getMapped()
             .getUnit() : mappedu;
-    ml = new jalview.util.MapList(localRange, mappedRange, (int) lu,
+    ml = new MapList(localRange, mappedRange, (int) lu,
             (int) mu);
     return ml;
   }
 
-  protected jalview.util.MapList parsemapType(MapType map)
+  protected MapList parsemapType(MapType map)
   {
     if (!map.getLocal().hasUnit() || map.getMapped().hasUnit())
     {
-      jalview.bin.Cache.log
+      Cache.log
               .warn("using default mapping length of 1:1 for map "
                       + (map.isRegistered() ? map.getVorbaId().toString()
                               : ("<no Id registered> " + map.toString())));
@@ -280,7 +282,7 @@ public abstract class Rangetype extends DatastoreItem
    * @param ml
    * @param setUnits
    */
-  protected void initMapType(MapType maprange, jalview.util.MapList ml,
+  protected void initMapType(MapType maprange, MapList ml,
           boolean setUnits)
   {
     initMapType(maprange, ml, setUnits, false);
@@ -294,7 +296,7 @@ public abstract class Rangetype extends DatastoreItem
    * @param reverse
    *          - reverse MapList mapping for Local and Mapped ranges and units
    */
-  protected void initMapType(MapType maprange, jalview.util.MapList ml,
+  protected void initMapType(MapType maprange, MapList ml,
           boolean setUnits, boolean reverse)
   {
     if (ml == null)