X-Git-Url: http://source.jalview.org/gitweb/?a=blobdiff_plain;f=src%2Fjalview%2Fio%2FWSWUBlastClient.java;h=9d9b9407a3e915d6845887306f038ed0ac74db6a;hb=refs%2Fheads%2Freleases%2FRelease_2_10_0_Branch;hp=f4569dc3d6439655336be72db6cb325e9c5fa3ed;hpb=a45774ee31d9f35d4eff46d54d7deab719afb092;p=jalview.git
diff --git a/src/jalview/io/WSWUBlastClient.java b/src/jalview/io/WSWUBlastClient.java
index f4569dc..9d9b940 100755
--- a/src/jalview/io/WSWUBlastClient.java
+++ b/src/jalview/io/WSWUBlastClient.java
@@ -1,30 +1,48 @@
/*
- * Jalview - A Sequence Alignment Editor and Viewer (Version 2.7)
- * Copyright (C) 2011 J Procter, AM Waterhouse, 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 .
+ * You should have received a copy of the GNU General Public License
+ * along with Jalview. If not, see .
+ * The Jalview Authors are detailed in the 'AUTHORS' file.
*/
package jalview.io;
-import java.util.*;
-
-import javax.swing.*;
-
-import jalview.analysis.*;
-import jalview.datamodel.*;
-import jalview.gui.*;
-import uk.ac.ebi.www.*;
+import jalview.analysis.AlignSeq;
+import jalview.datamodel.AlignmentI;
+import jalview.datamodel.DBRefEntry;
+import jalview.datamodel.Sequence;
+import jalview.gui.AlignmentPanel;
+import jalview.gui.CutAndPasteTransfer;
+import jalview.gui.Desktop;
+import jalview.util.MessageManager;
+
+import java.util.ArrayList;
+import java.util.Enumeration;
+import java.util.StringTokenizer;
+import java.util.Vector;
+
+import javax.swing.ImageIcon;
+import javax.swing.JOptionPane;
+
+import uk.ac.ebi.www.Data;
+import uk.ac.ebi.www.InputParams;
+import uk.ac.ebi.www.WSFile;
+import uk.ac.ebi.www.WSWUBlast;
+import uk.ac.ebi.www.WSWUBlastService;
+import uk.ac.ebi.www.WSWUBlastServiceLocator;
/**
* DOCUMENT ME!
@@ -56,15 +74,12 @@ public class WSWUBlastClient
{
this.ap = ap;
this.al = al;
- output.setText("To display sequence features an exact Uniprot id with 100% sequence identity match must be entered."
- + "\nIn order to display these features, try changing the names of your sequences to the ids suggested below."
- + "\n\nRunning WSWUBlast at EBI."
- + "\nPlease quote Pillai S., Silventoinen V., Kallio K., Senger M., Sobhany S., Tate J., Velankar S., Golovin A., Henrick K., Rice P., Stoehr P., Lopez R."
- + "\nSOAP-based services provided by the European Bioinformatics Institute."
- + "\nNucleic Acids Res. 33(1):W25-W28 (2005));");
+ output.setText(MessageManager
+ .getString("label.wswublast_client_credits"));
- Desktop.addInternalFrame(output,
- "BLASTing for unidentified sequences ", 800, 300);
+ Desktop.addInternalFrame(output, MessageManager
+ .getString("label.blasting_for_unidentified_sequence"), 800,
+ 300);
for (int i = 0; i < ids.size(); i++)
{
@@ -121,8 +136,7 @@ public class WSWUBlastClient
{
maxFound = value;
buffer.append(" " + id2 + " " + value + "%; ");
- suggestedIds.addElement(new Object[]
- { seq, id2 });
+ suggestedIds.addElement(new Object[] { seq, id2 });
}
}
}
@@ -162,7 +176,7 @@ public class WSWUBlastClient
}
}
- DBRefEntry[] entries = oldseq.getDBRef();
+ DBRefEntry[] entries = oldseq.getDBRefs();
if (entries != null)
{
oldseq.addDBRef(new jalview.datamodel.DBRefEntry(
@@ -207,8 +221,9 @@ public class WSWUBlastClient
imageIndex++;
imageIndex %= 9;
output.setFrameIcon(imageIcon[imageIndex]);
- output.setTitle("BLASTing for unidentified sequences - "
- + jobsRunning + " jobs running.");
+ output.setTitle(MessageManager.formatMessage(
+ "label.blasting_for_unidentified_sequence_jobs_running",
+ new String[] { Integer.valueOf(jobsRunning).toString() }));
} catch (Exception ex)
{
}