Changeset 4132

Timestamp:

Feb 8, 2008, 11:18:11 AM (15 years ago)

Author:

Nicklas Nordborg

Message:

Fixes #926: Update IlluminaRawDataImporter? to set the RawBioAssay?.arrayNum property

File:

• trunk/src/plugins/core/net/sf/basedb/plugins/IlluminaRawDataImporter.java (modified) (3 diffs)

trunk/src/plugins/core/net/sf/basedb/plugins/IlluminaRawDataImporter.java

@@ -83 +83 @@
 import net.sf.basedb.core.query.Restrictions;
 import net.sf.basedb.plugins.util.Parameters;
+import net.sf.basedb.util.Coordinate;
 import net.sf.basedb.util.error.SimpleErrorHandler;
 import net.sf.basedb.util.parser.ColumnMapper;
@@ -603 +604 @@
         String propertyName = m.group(1);
         String arrayName = m.group(2);
+        String lastInName = arrayName.substring(arrayName.length()-1);
+        int arrayNum = Coordinate.alphaToNumeric(lastInName);
+        if (arrayNum <= 0) arrayNum = 1;
         // Check if raw data property exists
         if (illumina.getProperty(propertyName) == null)
@@ -621 +625 @@
             RawBioAssay rba = RawBioAssay.getNew(dc, generic, illumina);
             rba.setName(arrayName);
+            rba.setArrayNum(arrayNum);
             if (design != null) rba.setArrayDesign(design);
             if (scan != null) rba.setScan(scan);