Changeset 1092 for extensions/net.sf.basedb.genepattern

Timestamp:

May 27, 2009, 10:00:02 AM (14 years ago)

Author:

Nicklas Nordborg

Message:

References #217: GCT exporter

Make sure assay names are unique in the GCT file

File:

• extensions/net.sf.basedb.genepattern/trunk/src/net/sf/basedb/genepattern/export/GctExporter.java (modified) (4 diffs)

extensions/net.sf.basedb.genepattern/trunk/src/net/sf/basedb/genepattern/export/GctExporter.java

@@ -3 +3 @@
 import java.sql.SQLException;
 import java.util.Arrays;
+import java.util.HashSet;
 import java.util.List;
+import java.util.Set;
 
 import net.sf.basedb.core.BioAssay;
@@ -128 +130 @@
     int index = 0;
     
+    boolean hasUniqueNames = checkUniqueNames(assays);
+    
     // Reporter fields
     for (DynamicField field : reporterFields)
@@ -136 +140 @@
     for (BioAssay ba : assays)
     {
-      data[index++] = ba.getName();
+      data[index++] = hasUniqueNames ? ba.getName() : ba.getName() + "-" + ba.getId();
     }
     out.tablePrintData(data);
@@ -286 +290 @@
   }
   
+  /**
+    Check if all bioassay names are unique.
+    @return TRUE if the names are unique, FALSE otherwise
+  */
+  private boolean checkUniqueNames(List<BioAssay> assays) 
+  {
+    Set<String> names = new HashSet<String>();
+    for (BioAssay ba : assays)
+    {
+      if (names.contains(ba.getName())) return false;
+      names.add(ba.getName());
+    }
+    return true;
+  }
+
+  
 }