X-Git-Url: http://source.jalview.org/gitweb/?a=blobdiff_plain;f=src%2Fjalview%2Fgui%2FAssociatePdbFileWithSeq.java;h=efb4863d41f9f877d15102d2cedce40d248cbf4c;hb=f3df97a8d39f8124610d661f8c141677f73d86b0;hp=22c891dafe6c464967358e5d6a53dd3a3227eec6;hpb=28787d9646cca5dd77190930f59b7ff32cf995b4;p=jalview.git

diff --git a/src/jalview/gui/AssociatePdbFileWithSeq.java b/src/jalview/gui/AssociatePdbFileWithSeq.java
index 22c891d..efb4863 100644
--- a/src/jalview/gui/AssociatePdbFileWithSeq.java
+++ b/src/jalview/gui/AssociatePdbFileWithSeq.java
@@ -18,17 +18,9 @@
 package jalview.gui;
 
 import javax.swing.JOptionPane;
-import javax.xml.parsers.ParserConfigurationException;
-
-import org.xml.sax.SAXException;
-
-import fr.orsay.lri.varna.exceptions.ExceptionFileFormatOrSyntax;
-import fr.orsay.lri.varna.exceptions.ExceptionLoadingFailed;
-import fr.orsay.lri.varna.exceptions.ExceptionPermissionDenied;
-import fr.orsay.lri.varna.exceptions.ExceptionUnmatchedClosingParentheses;
-
 import jalview.datamodel.PDBEntry;
 import jalview.datamodel.SequenceI;
+import jalview.util.MessageManager;
 
 /**
  * GUI related routines for associating PDB files with sequences
@@ -39,29 +31,19 @@ import jalview.datamodel.SequenceI;
 public class AssociatePdbFileWithSeq
 {
 
-/**
- * assocate the given PDB file with 
- * @param choice
- * @param sequence
- * @throws SAXException 
- * @throws ParserConfigurationException 
- * @throws ExceptionFileFormatOrSyntax 
- * @throws ExceptionLoadingFailed 
- * @throws ExceptionPermissionDenied 
- * @throws InterruptedException 
- * @throws ExceptionUnmatchedClosingParentheses 
- */
-  public PDBEntry associatePdbWithSeq(String choice, String protocol, SequenceI sequence, boolean prompt) throws ExceptionFileFormatOrSyntax, ParserConfigurationException, SAXException, ExceptionPermissionDenied, ExceptionLoadingFailed, InterruptedException, ExceptionUnmatchedClosingParentheses
+  /**
+   * assocate the given PDB file with
+   * 
+   * @param choice
+   * @param sequence
+   */
+  public PDBEntry associatePdbWithSeq(String choice, String protocol,
+          SequenceI sequence, boolean prompt)
   {
     PDBEntry entry = new PDBEntry();
     try
     {
- 
-    		System.out.println("This is a annotation PDB");
-    	
-    	
-      MCview.PDBfile pdbfile = new MCview.PDBfile(choice,
-              protocol);
+      MCview.PDBfile pdbfile = new MCview.PDBfile(choice, protocol);
 
       if (pdbfile.id == null)
       {
@@ -72,9 +54,8 @@ public class AssociatePdbFileWithSeq
           reply = JOptionPane
                   .showInternalInputDialog(
                           Desktop.desktop,
-                          "Couldn't find a PDB id in the file supplied."
-                                  + "Please enter an Id to identify this structure.",
-                          "No PDB Id in File", JOptionPane.QUESTION_MESSAGE);
+                          MessageManager.getString("label.couldnt_find_pdb_id_in_file"),
+                          MessageManager.getString("label.no_pdb_id_in_file"), JOptionPane.QUESTION_MESSAGE);
         }
         if (reply == null)
         {
@@ -87,7 +68,7 @@ public class AssociatePdbFileWithSeq
       {
         entry.setId(pdbfile.id);
       }
-    	
+
     } catch (java.io.IOException ex)
     {
       ex.printStackTrace();
@@ -96,7 +77,5 @@ public class AssociatePdbFileWithSeq
     entry.setFile(choice);
     sequence.getDatasetSequence().addPDBId(entry);
     return entry;
-    
   }
-
 }