JAL-1834 added tooltip to the PDB sequence fetcher and structure chooser summary...

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

diff --git a/src/jalview/gui/PDBSearchPanel.java b/src/jalview/gui/PDBSearchPanel.java
index 514406a..63c3761 100644 (file)
--- a/src/jalview/gui/PDBSearchPanel.java
+++ b/src/jalview/gui/PDBSearchPanel.java
@@ -33,6 +33,7 @@ import java.util.ArrayList;
 import java.util.Collection;
 import java.util.Collections;
 import java.util.Comparator;
+import java.util.HashSet;
 import java.util.List;
 
 import javax.swing.table.DefaultTableModel;
@@ -60,6 +61,9 @@ public class PDBSearchPanel extends GPDBSearchPanel
   @Override
   public void txt_search_ActionPerformed()
   {
+    errorWarning.setLength(0);
+    lbl_warning.setVisible(false);
+    btn_ok.setEnabled(false);
     boolean allowEmptySequence = false;
     mainFrame.setTitle(MessageManager
             .getString("label.pdb_sequence_getcher"));
@@ -85,7 +89,19 @@ public class PDBSearchPanel extends GPDBSearchPanel
       request.setWantedFields(wantedFields);
       // System.out.println(">>>>>>>>>>>>>> " + request.getQuery());
       PDBRestClient pdbRestCleint = new PDBRestClient();
-      PDBRestResponse resultList = pdbRestCleint.executeRequest(request);
+      PDBRestResponse resultList;
+      try
+      {
+        resultList = pdbRestCleint.executeRequest(request);
+      } catch (Exception e)
+      {
+        // System.out.println(">>>>>>>>>>>>>>>" + e.getMessage());
+        e.printStackTrace();
+        errorWarning.append(e.getMessage());
+        checkForErrors();
+        return;
+      }
+
       if (resultList.getSearchSummary() != null)
       {
         tbl_summary.setModel(PDBRestResponse.getTableModel(request,
@@ -158,23 +174,35 @@ public class PDBSearchPanel extends GPDBSearchPanel
     mainFrame.dispose();
   }
 
+  public void transferToSequenceFetcher(String ids)
+  {
+    // mainFrame.dispose();
+    seqFetcher.textArea.setText(ids);
+    Thread worker = new Thread(seqFetcher);
+    worker.start();
+  }
+
   /**
    * Add the discovered/selected sequences to a target alignment window
    */
   public void loadSelectedPDBSequencesToAlignment()
   {
-    mainFrame.dispose();
+    // mainFrame.dispose();
     StringBuilder selectedIds = new StringBuilder();
+    HashSet<String> selectedIdsSet = new HashSet<String>();
     int pdbIdCol = PDBRestClient.getPDBIdColumIndex(wantedFields, false);
     int[] selectedRows = tbl_summary.getSelectedRows();
     for (int summaryRow : selectedRows)
     {
       String pdbIdStr = tbl_summary.getValueAt(summaryRow, pdbIdCol)
               .toString();
-
       String searchTerm = txt_search.getText();
-      selectedIds.append(getPDBIdwithSpecifiedChain(pdbIdStr, searchTerm))
-              .append(";");
+      selectedIdsSet.add(getPDBIdwithSpecifiedChain(pdbIdStr, searchTerm));
+    }
+
+    for (String selectedId : selectedIdsSet)
+    {
+      selectedIds.append(selectedId).append(";");
     }
 
     String ids = selectedIds.toString();
@@ -240,4 +268,14 @@ public class PDBSearchPanel extends GPDBSearchPanel
     }
   }
 
+  public void checkForErrors()
+  {
+    lbl_warning.setVisible(false);
+    if (errorWarning.length() > 0)
+    {
+      lbl_warning.setToolTipText(JvSwingUtils.wrapTooltip(true,
+              errorWarning.toString()));
+      lbl_warning.setVisible(true);
+    }
+  }
 }