Merge branch 'develop' into task/JAL-2196pdbeProperties

[jalview.git] / src / jalview / gui / SequenceFetcher.java

diff --git a/src/jalview/gui/SequenceFetcher.java b/src/jalview/gui/SequenceFetcher.java
index 5d4ea68..bbe2f68 100755 (executable)
--- a/src/jalview/gui/SequenceFetcher.java
+++ b/src/jalview/gui/SequenceFetcher.java
@@ -167,9 +167,8 @@ public class SequenceFetcher extends JPanel implements Runnable
     if (sfetch == null
             || dasRegistry != Cache.getDasSourceRegistry()
             || lastDasSourceRegistry != (Cache.getDasSourceRegistry()
-                    .getDasRegistryURL() + Cache
-                    .getDasSourceRegistry().getLocalSourceString())
-                    .hashCode())
+                    .getDasRegistryURL() + Cache.getDasSourceRegistry()
+                    .getLocalSourceString()).hashCode())
     {
       _initingFetcher = true;
       initingThread = Thread.currentThread();
@@ -213,7 +212,7 @@ public class SequenceFetcher extends JPanel implements Runnable
   public SequenceFetcher(IProgressIndicator guiIndic,
           final String selectedDb, final String queryString)
   {
-    this._isConstructing=true;
+    this._isConstructing = true;
     this.progressIndicator = guiIndic;
     final SequenceFetcher us = this;
     // launch initialiser thread
@@ -226,7 +225,7 @@ public class SequenceFetcher extends JPanel implements Runnable
         if (getSequenceFetcherSingleton(progressIndicator) != null)
         {
           us.initGui(progressIndicator, selectedDb, queryString);
-          us._isConstructing=false;
+          us._isConstructing = false;
         }
         else
         {
@@ -252,17 +251,23 @@ public class SequenceFetcher extends JPanel implements Runnable
     });
     sf.start();
   }
+
   /**
-   * blocking call which creates a new sequence fetcher panel, configures it and presses the OK button with the given database and query.
+   * blocking call which creates a new sequence fetcher panel, configures it and
+   * presses the OK button with the given database and query.
+   * 
    * @param database
    * @param query
    */
   public static List<AlignFrame> fetchAndShow(String database, String query)
   {
-    final SequenceFetcher sf = new SequenceFetcher(Desktop.instance, database, query);
+    final SequenceFetcher sf = new SequenceFetcher(Desktop.instance,
+            database, query);
     while (sf._isConstructing)
     {
-      try { Thread.sleep(50);
+      try
+      {
+        Thread.sleep(50);
       } catch (Exception q)
       {
         return Collections.emptyList();
@@ -282,7 +287,7 @@ public class SequenceFetcher extends JPanel implements Runnable
   {
 
   };
-  
+
   /**
    * initialise the database and query for this fetcher panel
    * 
@@ -523,6 +528,7 @@ public class SequenceFetcher extends JPanel implements Runnable
     new UniprotFTSPanel(this);
     frame.dispose();
   }
+
   private void otherSourceAction()
   {
     try
@@ -912,8 +918,8 @@ public class SequenceFetcher extends JPanel implements Runnable
     } catch (Exception e)
     {
       Cache.log.info(
-              "Error retrieving " + accession
-              + " from " + proxy.getDbName(), e);
+              "Error retrieving " + accession + " from "
+                      + proxy.getDbName(), e);
     }
     return success;
   }
@@ -1032,8 +1038,7 @@ public class SequenceFetcher extends JPanel implements Runnable
 
         try
         {
-          af.setMaximum(Cache.getDefault("SHOW_FULLSCREEN",
-                  false));
+          af.setMaximum(Cache.getDefault("SHOW_FULLSCREEN", false));
         } catch (Exception ex)
         {
         }