JAL-1807 explicit imports (jalview.io.*)

[jalview.git] / src / jalview / io / vamsas / Datasetsequence.java

diff --git a/src/jalview/io/vamsas/Datasetsequence.java b/src/jalview/io/vamsas/Datasetsequence.java
index 1e54ef8..d170513 100644 (file)
--- a/src/jalview/io/vamsas/Datasetsequence.java
+++ b/src/jalview/io/vamsas/Datasetsequence.java
@@ -1,26 +1,29 @@
 /*
- * Jalview - A Sequence Alignment Editor and Viewer (Version 2.8)
- * Copyright (C) 2012 J Procter, AM Waterhouse, LM Lui, J Engelhardt, G Barton, M Clamp, S Searle
+ * Jalview - A Sequence Alignment Editor and Viewer ($$Version-Rel$$)
+ * Copyright (C) $$Year-Rel$$ The Jalview Authors
  * 
  * This file is part of Jalview.
  * 
  * Jalview is free software: you can redistribute it and/or
  * modify it under the terms of the GNU General Public License 
- * as published by the Free Software Foundation, either version 3 of the License, or (at your option) any later version.
+ * as published by the Free Software Foundation, either version 3
+ * of the License, or (at your option) any later version.
  *  
  * Jalview is distributed in the hope that it will be useful, but 
  * WITHOUT ANY WARRANTY; without even the implied warranty 
  * of MERCHANTABILITY or FITNESS FOR A PARTICULAR 
  * PURPOSE.  See the GNU General Public License for more details.
  * 
- * You should have received a copy of the GNU General Public License along with Jalview.  If not, see <http://www.gnu.org/licenses/>.
+ * You should have received a copy of the GNU General Public License
+ * along with Jalview.  If not, see <http://www.gnu.org/licenses/>.
+ * The Jalview Authors are detailed in the 'AUTHORS' file.
  */
 package jalview.io.vamsas;
 
-import jalview.datamodel.AlignmentI;
 import jalview.datamodel.DBRefEntry;
 import jalview.datamodel.SequenceI;
 import jalview.io.VamsasAppDatastore;
+
 import uk.ac.vamsas.objects.core.DataSet;
 import uk.ac.vamsas.objects.core.DbRef;
 import uk.ac.vamsas.objects.core.Sequence;
@@ -135,9 +138,8 @@ public class Datasetsequence extends DatastoreItem
 
       for (int sf = 0; sf < sfSize; sf++)
       {
-        modified |= new jalview.io.vamsas.Sequencefeature(datastore,
-                (jalview.datamodel.SequenceFeature) sq
-                        .getSequenceFeatures()[sf], dataset,
+        modified |= new Sequencefeature(datastore,
+                sq.getSequenceFeatures()[sf], dataset,
                 (Sequence) vobj).docWasUpdated();
       }
     }
@@ -179,7 +181,7 @@ public class Datasetsequence extends DatastoreItem
       // jalview.datamodel.DBRefEntry dbentry;
       for (int db = 0; db < entries.length; db++)
       {
-        modifiedthedoc |= new jalview.io.vamsas.Dbref(datastore,
+        modifiedthedoc |= new Dbref(datastore,
         // dbentry =
                 entries[db], sq, (Sequence) vobj, dataset).docWasUpdated();
 
@@ -206,7 +208,7 @@ public class Datasetsequence extends DatastoreItem
       // DbRef dbentry;
       for (int db = 0; db < entries.length; db++)
       {
-        modifiedtheseq |= new jalview.io.vamsas.Dbref(datastore,
+        modifiedtheseq |= new Dbref(datastore,
         // dbentry =
                 entries[db], vsq, sq).jvWasUpdated();
       }