diff --git a/java/src/org/broadinstitute/sting/gatk/GenomeAnalysisTK.java b/java/src/org/broadinstitute/sting/gatk/GenomeAnalysisTK.java
index 542d5df2e..d8f66489a 100644
--- a/java/src/org/broadinstitute/sting/gatk/GenomeAnalysisTK.java
+++ b/java/src/org/broadinstitute/sting/gatk/GenomeAnalysisTK.java
@@ -10,8 +10,8 @@ import net.sf.samtools.util.RuntimeIOException;
 import org.apache.commons.cli.Option;
 import org.apache.commons.cli.OptionBuilder;
 import org.apache.log4j.Logger;
-import org.broadinstitute.sting.gatk.executive.LinearMicroManager;
 import org.broadinstitute.sting.gatk.executive.MicroScheduler;
+import org.broadinstitute.sting.gatk.executive.LinearMicroScheduler;
 import org.broadinstitute.sting.gatk.refdata.ReferenceOrderedData;
 import org.broadinstitute.sting.gatk.refdata.ReferenceOrderedDatum;
 import org.broadinstitute.sting.gatk.traversals.*;
@@ -264,11 +264,11 @@ public class GenomeAnalysisTK extends CommandLineProgram {
                     Utils.scareUser(String.format("Analysis %s doesn't support SAM/BAM reads, but a read file %s was provided", Analysis_Name, INPUT_FILES));
 
                 if ( WALK_ALL_LOCI ) {
-                    // TODO: Temporary debugging code.  Activate the new debugging code only when the MicroManager
+                    // TODO: Temporary debugging code.  Activate the new debugging code only when the MicroScheduler
                     //                                  is not filtered.
                     if( !DISABLE_THREADING ) {
                         logger.warn("Preliminary threading support ENABLED");
-                        microScheduler = new LinearMicroManager( INPUT_FILES, REF_FILE_ARG, numThreads );
+                        microScheduler = new LinearMicroScheduler( INPUT_FILES, REF_FILE_ARG, numThreads );
                         this.engine = microScheduler.getTraversalEngine();
                     }
                     else {
diff --git a/java/src/org/broadinstitute/sting/gatk/executive/LinearMicroManager.java b/java/src/org/broadinstitute/sting/gatk/executive/LinearMicroScheduler.java
similarity index 93%
rename from java/src/org/broadinstitute/sting/gatk/executive/LinearMicroManager.java
rename to java/src/org/broadinstitute/sting/gatk/executive/LinearMicroScheduler.java
index c5e899eb0..39ae1c6b6 100644
--- a/java/src/org/broadinstitute/sting/gatk/executive/LinearMicroManager.java
+++ b/java/src/org/broadinstitute/sting/gatk/executive/LinearMicroScheduler.java
@@ -12,7 +12,6 @@ import org.broadinstitute.sting.gatk.traversals.TraverseLociByReference;
 import org.broadinstitute.sting.gatk.walkers.LocusWalker;
 import org.broadinstitute.sting.gatk.walkers.Walker;
 import org.broadinstitute.sting.utils.GenomeLoc;
-import org.broadinstitute.sting.utils.fasta.IndexedFastaSequenceFile;
 
 import java.io.File;
 import java.util.List;
@@ -21,7 +20,7 @@ import java.util.List;
  * A micro-scheduling manager for N-way threaded execution of a traversal
  *
  */
-public class LinearMicroManager extends MicroScheduler {
+public class LinearMicroScheduler extends MicroScheduler {
 
     private TraverseLociByReference traversalEngine = null;
 
@@ -29,7 +28,7 @@ public class LinearMicroManager extends MicroScheduler {
         return traversalEngine;
     }
 
-    public LinearMicroManager( List<File> reads,              // the reads file(s)
+    public LinearMicroScheduler( List<File> reads,              // the reads file(s)
                          File refFile,                        // the reference file driving the traversal
                          int nThreadsToUse ) {                // maximum number of threads to use to do the work
         super( reads, refFile );
diff --git a/java/src/org/broadinstitute/sting/gatk/executive/MicroScheduler.java b/java/src/org/broadinstitute/sting/gatk/executive/MicroScheduler.java
index a26218f92..aab8836f5 100755
--- a/java/src/org/broadinstitute/sting/gatk/executive/MicroScheduler.java
+++ b/java/src/org/broadinstitute/sting/gatk/executive/MicroScheduler.java
@@ -27,7 +27,7 @@ public abstract class MicroScheduler {
     private List<File> reads;
     private static long SHARD_SIZE = 100000L;    
 
-    protected static Logger logger = Logger.getLogger(LinearMicroManager.class);
+    protected static Logger logger = Logger.getLogger(MicroScheduler.class);
 
     protected IndexedFastaSequenceFile reference;