Changeset 300

Timestamp:

May 24, 2007, 3:57:07 PM (16 years ago)

Author:

Peter Johansson

Message:

Result from plier is now logarithmized prior imported to BASE

File:

• trunk/se/lu/thep/affymetrix/Plier.java (modified) (3 diffs)

trunk/se/lu/thep/affymetrix/Plier.java

@@ -72 +72 @@
 
 import java.io.IOException;
+
+import java.lang.Double;
+import java.lang.Float;
+import java.lang.Math;
 
 import java.util.ArrayList;
@@ -406 +410 @@
       while (ffp.hasMoreData()) {
         FlatFileParser.Data data = ffp.nextData();
-        for (Map.Entry<Integer,Short> entry : cubecolumn.entrySet())
-          sbatcher.insert(entry.getValue().shortValue(), position,
-                          Float.parseFloat(data.get(entry.getKey())));
+        for (Map.Entry<Integer,Short> entry : cubecolumn.entrySet()){
+          Double x = 
+            new Double(Math.log(Double.parseDouble(data.get(entry.getKey()))));
+          sbatcher.insert(entry.getValue().shortValue(), position, 
+                          x.floatValue());
+        }
         // The reporter id is assumed to be the first column
         pbatcher.insert(position,rbatcher.getByExternalId(data.get(0)));
@@ -435 +442 @@
      "Department of Theoretical Physics, Lund University",
      null, null,
-     "http://baseplugins.thep.lu.se/wiki/se.lu.thep.affymetrix.Plier" );
+     "http://baseplugins.thep.lu.se/wiki/se.lu.thep.affymetrix" );
   private RequestInformation configureJob = null;
   private RequestInformation configurePlugin = null;