X-Git-Url: http://source.jalview.org/gitweb/?a=blobdiff_plain;f=src%2Fjalview%2Fio%2Fpacked%2FParsePackedSet.java;h=d40446de56ec19d9acacb2e800c206066035956b;hb=bed0c230be450b16213e30ee1dcaf3e76ddfc669;hp=138fef717606bb6e7af189c2390a9f5457212daf;hpb=4a5137b64f7ec23db2a09290bfcd392984a52150;p=jalview.git

diff --git a/src/jalview/io/packed/ParsePackedSet.java b/src/jalview/io/packed/ParsePackedSet.java
index 138fef7..d40446d 100644
--- a/src/jalview/io/packed/ParsePackedSet.java
+++ b/src/jalview/io/packed/ParsePackedSet.java
@@ -52,7 +52,7 @@ public class ParsePackedSet
   public Object[] getAlignment(JalviewDataset context,
           Iterable<DataProvider> files) throws Exception
   {
-    List<Object> rslt = new ArrayList<Object>();
+    List<Object> rslt = new ArrayList<>();
     if (context == null)
     {
       context = new JalviewDataset();
@@ -151,13 +151,14 @@ public class ParsePackedSet
         // if not, create one.
         if (context.featureColours == null)
         {
-          context.featureColours = new HashMap<String, FeatureColourI>();
+          context.featureColours = new HashMap<>();
         }
         try
         {
           jalview.io.FeaturesFile ff = new jalview.io.FeaturesFile(src);
           context.updateSetModified(ff.parse(context.getLastAlignment(),
-                  context.featureColours, false, context.relaxedIdMatching));
+                  context.featureColours, false,
+                  context.relaxedIdMatching));
         } catch (Exception e)
         {
           errmsg = ("Failed to parse the Features file associated with the alignment.");
@@ -222,18 +223,19 @@ public class ParsePackedSet
    * would be created.
    * 
    * @param args
+   * @j2sIgnore
    */
   public static void main(String args[])
   {
     // make data providers from the set of keys/files
     int i = 0;
-    List<DataProvider> dp = new ArrayList<DataProvider>();
+    List<DataProvider> dp = new ArrayList<>();
     while ((i + 1) < args.length)
     {
       String type = args[i++];
       final String file = args[i++];
-      final JvDataType jtype = DataProvider.JvDataType.valueOf(type
-              .toUpperCase());
+      final JvDataType jtype = DataProvider.JvDataType
+              .valueOf(type.toUpperCase());
       if (jtype != null)
       {
         final FileParse fp;
@@ -271,8 +273,8 @@ public class ParsePackedSet
     ParsePackedSet pps;
     try
     {
-      newdm = (pps = new ParsePackedSet()).getAlignment(
-              context = new JalviewDataset(), dp);
+      newdm = (pps = new ParsePackedSet())
+              .getAlignment(context = new JalviewDataset(), dp);
     } catch (Exception e)
     {
       System.out.println("Test failed for these arguments.\n");
@@ -296,8 +298,8 @@ public class ParsePackedSet
     {
       if (context.getLastAlignmentSet().isModified())
       {
-        System.err
-                .println("Initial alignment set was modified and any associated views should be updated.");
+        System.err.println(
+                "Initial alignment set was modified and any associated views should be updated.");
       }
     }
   }