diff --git a/genomix/genomix-hadoop/src/test/java/edu/uci/ics/gbresultschecking/ResultsCheckingTest.java b/genomix/genomix-hadoop/src/test/java/edu/uci/ics/gbresultschecking/ResultsCheckingTest.java
deleted file mode 100644
index 72e9b45..0000000
--- a/genomix/genomix-hadoop/src/test/java/edu/uci/ics/gbresultschecking/ResultsCheckingTest.java
+++ /dev/null
@@ -1,76 +0,0 @@
-package edu.uci.ics.gbresultschecking;
-
-import java.io.DataOutputStream;
-import java.io.File;
-import java.io.FileOutputStream;
-import java.io.IOException;
-import org.apache.commons.io.FileUtils;
-import org.apache.hadoop.conf.Configuration;
-import org.apache.hadoop.fs.FileSystem;
-import org.apache.hadoop.fs.Path;
-import org.apache.hadoop.hdfs.MiniDFSCluster;
-import org.apache.hadoop.mapred.JobConf;
-import org.apache.hadoop.mapred.MiniMRCluster;
-import org.junit.Test;
-
-@SuppressWarnings("deprecation")
-public class ResultsCheckingTest {
-    private static final String ACTUAL_RESULT_DIR = "actual4";
-    private JobConf conf = new JobConf();
-    private static final String HADOOP_CONF_PATH = ACTUAL_RESULT_DIR + File.separator + "conf.xml";
-    private static final String DATA_PATH1 = "ResultsCheckingData" + "/part-00000";
-    private static final String DATA_PATH2 = "ResultsCheckingData" + "/part-00001";
-    private static final String HDFS_PATH1 = "/webmap1";
-    private static final String HDFS_PATH2 = "/webmap2";
-    private static final String RESULT_PATH = "/result4";
-    private static final int COUNT_REDUCER = 4;
-    private static final int SIZE_KMER = 3;
-    private MiniDFSCluster dfsCluster;
-    private MiniMRCluster mrCluster;
-    private FileSystem dfs;
-
-    @Test
-    public void test() throws Exception {
-        FileUtils.forceMkdir(new File(ACTUAL_RESULT_DIR));
-        FileUtils.cleanDirectory(new File(ACTUAL_RESULT_DIR));
-        startHadoop();
-        ResultsCheckingDriver tldriver = new ResultsCheckingDriver();
-        tldriver.run(HDFS_PATH1, HDFS_PATH2, RESULT_PATH, COUNT_REDUCER, SIZE_KMER, HADOOP_CONF_PATH);
-        dumpResult();
-        cleanupHadoop();
-
-    }
-    private void startHadoop() throws IOException {
-        FileSystem lfs = FileSystem.getLocal(new Configuration());
-        lfs.delete(new Path("build"), true);
-        System.setProperty("hadoop.log.dir", "logs");
-        dfsCluster = new MiniDFSCluster(conf, 2, true, null);
-        dfs = dfsCluster.getFileSystem();
-        mrCluster = new MiniMRCluster(4, dfs.getUri().toString(), 2);
-
-        Path src = new Path(DATA_PATH1);
-        Path dest = new Path(HDFS_PATH1 + "/");
-        dfs.mkdirs(dest);
-        dfs.copyFromLocalFile(src, dest);
-        src = new Path(DATA_PATH2);
-        dest = new Path(HDFS_PATH2 + "/");
-        dfs.copyFromLocalFile(src, dest);
-        
-        DataOutputStream confOutput = new DataOutputStream(new FileOutputStream(new File(HADOOP_CONF_PATH)));
-        conf.writeXml(confOutput);
-        confOutput.flush();
-        confOutput.close();
-    }
-
-    private void cleanupHadoop() throws IOException {
-        mrCluster.shutdown();
-        dfsCluster.shutdown();
-    }
-
-    private void dumpResult() throws IOException {
-        Path src = new Path(RESULT_PATH);
-        Path dest = new Path(ACTUAL_RESULT_DIR + "/");
-        dfs.copyToLocalFile(src, dest);
-    }
-}
-
diff --git a/genomix/genomix-hadoop/src/test/java/edu/uci/ics/graphbuilding/GraphBuildingTest.java b/genomix/genomix-hadoop/src/test/java/edu/uci/ics/graphbuilding/GraphBuildingTest.java
deleted file mode 100755
index 002dd0a..0000000
--- a/genomix/genomix-hadoop/src/test/java/edu/uci/ics/graphbuilding/GraphBuildingTest.java
+++ /dev/null
@@ -1,145 +0,0 @@
-package edu.uci.ics.graphbuilding;
-
-/*
- * Copyright 2009-2012 by The Regents of the University of California
- * Licensed under the Apache License, Version 2.0 (the "License");
- * you may not use this file except in compliance with the License.
- * you may obtain a copy of the License from
- *
- *     http://www.apache.org/licenses/LICENSE-2.0
- *
- * Unless required by applicable law or agreed to in writing, software
- * distributed under the License is distributed on an "AS IS" BASIS,
- * WITHOUT WARRANTIES OR CONDITIONS OF ANY KIND, either express or implied.
- * See the License for the specific language governing permissions and
- * limitations under the License.
- */
-import java.io.BufferedWriter;
-import java.io.DataOutputStream;
-import java.io.File;
-import java.io.FileOutputStream;
-import java.io.FileWriter;
-import java.io.IOException;
-
-import org.apache.commons.io.FileUtils;
-import org.apache.hadoop.conf.Configuration;
-import org.apache.hadoop.fs.FileSystem;
-import org.apache.hadoop.fs.Path;
-import org.apache.hadoop.hdfs.MiniDFSCluster;
-import org.apache.hadoop.io.SequenceFile;
-import org.apache.hadoop.mapred.JobConf;
-import org.apache.hadoop.mapred.MiniMRCluster;
-import org.apache.hadoop.util.ReflectionUtils;
-import org.junit.Test;
-
-import edu.uci.ics.genomix.type.GeneCode;
-import edu.uci.ics.genomix.type.KmerBytesWritable;
-import edu.uci.ics.genomix.type.KmerCountValue;
-import edu.uci.ics.utils.TestUtils;
-/**
- * This class test the correctness of graphbuilding program
- */
-@SuppressWarnings("deprecation")
-public class GraphBuildingTest {
-
-    private static final String ACTUAL_RESULT_DIR = "actual1";
-    private static final String COMPARE_DIR = "compare";
-    private JobConf conf = new JobConf();
-    private static final String HADOOP_CONF_PATH = ACTUAL_RESULT_DIR + File.separator + "conf.xml";
-    private static final String DATA_PATH = "data/webmap/TreePath";
-    private static final String HDFS_PATH = "/webmap";
-    private static final String RESULT_PATH = "/result1";
-    private static final String EXPECTED_PATH = "expected/result1";
-    private static final String TEST_SOURCE_DIR = COMPARE_DIR + RESULT_PATH + "/comparesource.txt";
-    private static final int COUNT_REDUCER = 4;
-    private static final int SIZE_KMER = 5;
-    private static final String GRAPHVIZ = "Graphviz/GenomixSource.txt";
-    
-    private MiniDFSCluster dfsCluster;
-    private MiniMRCluster mrCluster;
-    private FileSystem dfs;
-
-    @SuppressWarnings("resource")
-    @Test
-    public void test() throws Exception {
-        FileUtils.forceMkdir(new File(ACTUAL_RESULT_DIR));
-        FileUtils.cleanDirectory(new File(ACTUAL_RESULT_DIR));
-        startHadoop();
-
-        // run graph transformation tests
-        GenomixDriver tldriver = new GenomixDriver();
-        tldriver.run(HDFS_PATH, RESULT_PATH, COUNT_REDUCER, SIZE_KMER, HADOOP_CONF_PATH);
-
-        SequenceFile.Reader reader = null;
-        Path path = new Path(RESULT_PATH + "/part-00000");
-        reader = new SequenceFile.Reader(dfs, path, conf); 
-//        KmerBytesWritable key = (KmerBytesWritable) ReflectionUtils.newInstance(reader.getKeyClass(), conf);
-        KmerBytesWritable key = new KmerBytesWritable(SIZE_KMER);
-        KmerCountValue value = (KmerCountValue) ReflectionUtils.newInstance(reader.getValueClass(), conf);
-        File filePathTo = new File(TEST_SOURCE_DIR);
-        BufferedWriter bw = new BufferedWriter(new FileWriter(filePathTo));
-        File GraphViz = new File(GRAPHVIZ);
-        BufferedWriter bw2 = new BufferedWriter(new FileWriter(GraphViz));
-        
-        while (reader.next(key, value)) {
-            byte succeed = (byte) 0x0F;
-            byte adjBitMap = value.getAdjBitMap();
-            succeed = (byte) (succeed & adjBitMap);
-            byte shiftedCode = 0;
-            for(int i = 0 ; i < 4; i ++){
-                byte temp = 0x01;
-                temp  = (byte)(temp << i);
-                temp = (byte) (succeed & temp);
-                if(temp != 0 ){
-                    bw2.write(key.toString());
-                    bw2.newLine();                    
-                    byte succeedCode = GeneCode.getGeneCodeFromBitMap(temp);
-                    shiftedCode = key.shiftKmerWithNextCode(succeedCode);
-                    bw2.write(key.toString());
-                    bw2.newLine();
-                    key.shiftKmerWithPreCode(shiftedCode);
-                }
-            }
-            bw.write(key.toString() + "\t" + value.toString());
-            bw.newLine();            
-        }
-       bw2.close();
-       bw.close();
-
-        dumpResult();
-//        TestUtils.compareWithResult(new File(TEST_SOURCE_DIR), new File(EXPECTED_PATH));
-
-        cleanupHadoop();
-
-    }
-
-    private void startHadoop() throws IOException {
-        FileSystem lfs = FileSystem.getLocal(new Configuration());
-        lfs.delete(new Path("build"), true);
-        System.setProperty("hadoop.log.dir", "logs");
-        dfsCluster = new MiniDFSCluster(conf, 2, true, null);
-        dfs = dfsCluster.getFileSystem();
-        mrCluster = new MiniMRCluster(4, dfs.getUri().toString(), 2);
-
-        Path src = new Path(DATA_PATH);
-        Path dest = new Path(HDFS_PATH + "/");
-        dfs.mkdirs(dest);
-        dfs.copyFromLocalFile(src, dest);
-
-        DataOutputStream confOutput = new DataOutputStream(new FileOutputStream(new File(HADOOP_CONF_PATH)));
-        conf.writeXml(confOutput);
-        confOutput.flush();
-        confOutput.close();
-    }
-
-    private void cleanupHadoop() throws IOException {
-        mrCluster.shutdown();
-        dfsCluster.shutdown();
-    }
-
-    private void dumpResult() throws IOException {
-        Path src = new Path(RESULT_PATH);
-        Path dest = new Path(ACTUAL_RESULT_DIR);
-        dfs.copyToLocalFile(src, dest);
-    }
-}
diff --git a/genomix/genomix-hadoop/src/test/java/edu/uci/ics/graphcountfilter/CountFilterTest.java b/genomix/genomix-hadoop/src/test/java/edu/uci/ics/graphcountfilter/CountFilterTest.java
deleted file mode 100644
index f9b0049..0000000
--- a/genomix/genomix-hadoop/src/test/java/edu/uci/ics/graphcountfilter/CountFilterTest.java
+++ /dev/null
@@ -1,101 +0,0 @@
-package edu.uci.ics.graphcountfilter;
-
-import java.io.BufferedWriter;
-import java.io.DataOutputStream;
-import java.io.File;
-import java.io.FileOutputStream;
-import java.io.FileWriter;
-import java.io.IOException;
-
-import org.apache.commons.io.FileUtils;
-import org.apache.hadoop.conf.Configuration;
-import org.apache.hadoop.fs.FileSystem;
-import org.apache.hadoop.fs.Path;
-import org.apache.hadoop.hdfs.MiniDFSCluster;
-import org.apache.hadoop.io.ByteWritable;
-import org.apache.hadoop.io.SequenceFile;
-import org.apache.hadoop.mapred.JobConf;
-import org.apache.hadoop.mapred.MiniMRCluster;
-import org.apache.hadoop.util.ReflectionUtils;
-import org.junit.Test;
-import edu.uci.ics.genomix.type.KmerBytesWritable;
-import edu.uci.ics.utils.TestUtils;
-
-
-@SuppressWarnings("deprecation")
-public class CountFilterTest {
-    private static final String ACTUAL_RESULT_DIR = "actual2";
-    private static final String COMPARE_DIR = "compare";
-    private JobConf conf = new JobConf();
-    private static final String HADOOP_CONF_PATH = ACTUAL_RESULT_DIR + File.separator + "conf.xml";
-    private static final String DATA_PATH = "actual1" + "/result1" + "/part-00000";
-    private static final String HDFS_PATH = "/webmap";
-    private static final String RESULT_PATH = "/result2";
-    private static final String EXPECTED_PATH = "expected/result2";
-    private static final String TEST_SOURCE_DIR = COMPARE_DIR + RESULT_PATH + "/comparesource.txt";
-    private static final int COUNT_REDUCER = 4;
-    private static final int SIZE_KMER = 5;
-    private MiniDFSCluster dfsCluster;
-    private MiniMRCluster mrCluster;
-    private FileSystem dfs;
-
-    @SuppressWarnings("resource")
-    @Test
-    public void test() throws Exception {
-        FileUtils.forceMkdir(new File(ACTUAL_RESULT_DIR));
-        FileUtils.cleanDirectory(new File(ACTUAL_RESULT_DIR));
-        startHadoop();
-
-        // run graph transformation tests
-        CountFilterDriver tldriver = new CountFilterDriver();
-        tldriver.run(HDFS_PATH, RESULT_PATH, COUNT_REDUCER, 1, HADOOP_CONF_PATH);
-
-        SequenceFile.Reader reader = null;
-        Path path = new Path(RESULT_PATH + "/part-00000");
-        reader = new SequenceFile.Reader(dfs, path, conf);
-        KmerBytesWritable key = (KmerBytesWritable) ReflectionUtils.newInstance(reader.getKeyClass(), conf);
-        ByteWritable value = (ByteWritable) ReflectionUtils.newInstance(reader.getValueClass(), conf);
-        File filePathTo = new File(TEST_SOURCE_DIR);
-        BufferedWriter bw = new BufferedWriter(new FileWriter(filePathTo));
-        while (reader.next(key, value)) {
-            bw.write(key.toString() + "\t" + value.toString());
-            bw.newLine();
-        }
-        bw.close();
-
-        dumpResult();
-        TestUtils.compareWithResult(new File(TEST_SOURCE_DIR), new File(EXPECTED_PATH));
-
-        cleanupHadoop();
-
-    }
-    private void startHadoop() throws IOException {
-        FileSystem lfs = FileSystem.getLocal(new Configuration());
-        lfs.delete(new Path("build"), true);
-        System.setProperty("hadoop.log.dir", "logs");
-        dfsCluster = new MiniDFSCluster(conf, 2, true, null);
-        dfs = dfsCluster.getFileSystem();
-        mrCluster = new MiniMRCluster(4, dfs.getUri().toString(), 2);
-
-        Path src = new Path(DATA_PATH);
-        Path dest = new Path(HDFS_PATH + "/");
-        dfs.mkdirs(dest);
-        dfs.copyFromLocalFile(src, dest);
-
-        DataOutputStream confOutput = new DataOutputStream(new FileOutputStream(new File(HADOOP_CONF_PATH)));
-        conf.writeXml(confOutput);
-        confOutput.flush();
-        confOutput.close();
-    }
-
-    private void cleanupHadoop() throws IOException {
-        mrCluster.shutdown();
-        dfsCluster.shutdown();
-    }
-
-    private void dumpResult() throws IOException {
-        Path src = new Path(RESULT_PATH);
-        Path dest = new Path(ACTUAL_RESULT_DIR + "/");
-        dfs.copyToLocalFile(src, dest);
-    }
-}
diff --git a/genomix/genomix-hadoop/src/test/java/edu/uci/ics/pathmerging/MergePathTest.java b/genomix/genomix-hadoop/src/test/java/edu/uci/ics/pathmerging/MergePathTest.java
deleted file mode 100644
index 5e6e51e..0000000
--- a/genomix/genomix-hadoop/src/test/java/edu/uci/ics/pathmerging/MergePathTest.java
+++ /dev/null
@@ -1,106 +0,0 @@
-package edu.uci.ics.pathmerging;
-
-import java.io.BufferedWriter;
-import java.io.DataOutputStream;
-import java.io.File;
-import java.io.FileOutputStream;
-import java.io.FileWriter;
-import java.io.IOException;
-import org.apache.commons.io.FileUtils;
-import org.apache.hadoop.conf.Configuration;
-import org.apache.hadoop.fs.FileSystem;
-import org.apache.hadoop.fs.Path;
-import org.apache.hadoop.hdfs.MiniDFSCluster;
-import org.apache.hadoop.io.SequenceFile;
-import org.apache.hadoop.mapred.JobConf;
-import org.apache.hadoop.mapred.MiniMRCluster;
-import org.apache.hadoop.util.ReflectionUtils;
-import org.junit.Test;
-
-import edu.uci.ics.genomix.type.KmerBytesWritable;
-import edu.uci.ics.genomix.type.VKmerBytesWritable;
-import edu.uci.ics.utils.TestUtils;
-
-@SuppressWarnings("deprecation")
-public class MergePathTest {
-    private static final String ACTUAL_RESULT_DIR = "actual3";
-    private static final String COMPARE_DIR = "compare";
-    private JobConf conf = new JobConf();
-    private static final String HADOOP_CONF_PATH = ACTUAL_RESULT_DIR + File.separator + "conf.xml";
-    private static final String DATA_PATH = "actual2" + "/result2" + "/part-00000";
-    private static final String HDFS_PATH = "/webmap";
-    private static final String HDFA_PATH_DATA = "/webmapdata";
-    
-    private static final String RESULT_PATH = "/result3";
-    private static final String EXPECTED_PATH = "expected/result3";
-    private static final String TEST_SOURCE_DIR = COMPARE_DIR + RESULT_PATH + "/comparesource.txt";
-    private static final int COUNT_REDUCER = 1;
-    private static final int SIZE_KMER = 3;
-
-    private MiniDFSCluster dfsCluster;
-    private MiniMRCluster mrCluster;
-    private FileSystem dfs;
-
-    @SuppressWarnings("resource")
-    @Test
-    public void test() throws Exception {
-        FileUtils.forceMkdir(new File(ACTUAL_RESULT_DIR));
-        FileUtils.cleanDirectory(new File(ACTUAL_RESULT_DIR));
-        startHadoop();
-
-        MergePathDriver tldriver = new MergePathDriver();
-        tldriver.run(HDFS_PATH, RESULT_PATH, HDFA_PATH_DATA, COUNT_REDUCER, SIZE_KMER, 1, HADOOP_CONF_PATH);
-        
-/*        SequenceFile.Reader reader = null;
-        Path path = new Path(RESULT_PATH + "/part-00000");
-//        Path path = new Path(RESULT_PATH + "/uncomplete0" + "/uncomplete0-r-00000");
-        reader = new SequenceFile.Reader(dfs, path, conf);
-        VKmerBytesWritable key = (VKmerBytesWritable) ReflectionUtils.newInstance(reader.getKeyClass(), conf);
-        MergePathValueWritable value = (MergePathValueWritable) ReflectionUtils.newInstance(reader.getValueClass(), conf);
-        File filePathTo = new File(TEST_SOURCE_DIR);
-        BufferedWriter bw = new BufferedWriter(new FileWriter(filePathTo));
-        while (reader.next(key, value)) {
-            bw.write(key.toString() + "\t" + value.getAdjBitMap() + "\t" + value.getFlag());
-            bw.newLine();
-        }
-        bw.close();*/
-        dumpResult();
-        
-//        TestUtils.compareWithResult(new File(TEST_SOURCE_DIR), new File(EXPECTED_PATH));
-
-        cleanupHadoop();
-
-    }
-    private void startHadoop() throws IOException {
-        FileSystem lfs = FileSystem.getLocal(new Configuration());
-        lfs.delete(new Path("build"), true);
-        System.setProperty("hadoop.log.dir", "logs");
-        dfsCluster = new MiniDFSCluster(conf, 2, true, null);
-        dfs = dfsCluster.getFileSystem();
-        mrCluster = new MiniMRCluster(4, dfs.getUri().toString(), 2);
-
-        Path src = new Path(DATA_PATH);
-        Path dest = new Path(HDFS_PATH + "/");
-        dfs.mkdirs(dest);
-        dfs.copyFromLocalFile(src, dest);
-        Path data = new Path(HDFA_PATH_DATA + "/");
-        dfs.mkdirs(data);
-   
-        DataOutputStream confOutput = new DataOutputStream(new FileOutputStream(new File(HADOOP_CONF_PATH)));
-        conf.writeXml(confOutput);
-        confOutput.flush();
-        confOutput.close();
-    }
-
-    private void cleanupHadoop() throws IOException {
-        mrCluster.shutdown();
-        dfsCluster.shutdown();
-    }
-
-    private void dumpResult() throws IOException {
-//        Path src = new Path(HDFA_PATH_DATA + "/" + "complete2");
-        Path src = new Path(RESULT_PATH);
-        Path dest = new Path(ACTUAL_RESULT_DIR + "/");
-        dfs.copyToLocalFile(src, dest);
-    }
-}
diff --git a/genomix/genomix-hadoop/src/test/java/edu/uci/ics/pathmergingh2/MergePathH2Test.java b/genomix/genomix-hadoop/src/test/java/edu/uci/ics/pathmergingh2/MergePathH2Test.java
deleted file mode 100644
index ff15299..0000000
--- a/genomix/genomix-hadoop/src/test/java/edu/uci/ics/pathmergingh2/MergePathH2Test.java
+++ /dev/null
@@ -1,105 +0,0 @@
-package edu.uci.ics.pathmergingh2;
-
-import java.io.BufferedWriter;
-import java.io.DataOutputStream;
-import java.io.File;
-import java.io.FileOutputStream;
-import java.io.FileWriter;
-import java.io.IOException;
-import org.apache.commons.io.FileUtils;
-import org.apache.hadoop.conf.Configuration;
-import org.apache.hadoop.fs.FileSystem;
-import org.apache.hadoop.fs.Path;
-import org.apache.hadoop.hdfs.MiniDFSCluster;
-import org.apache.hadoop.io.SequenceFile;
-import org.apache.hadoop.mapred.JobConf;
-import org.apache.hadoop.mapred.MiniMRCluster;
-import org.apache.hadoop.util.ReflectionUtils;
-import org.junit.Test;
-import edu.uci.ics.genomix.type.KmerBytesWritable;
-import edu.uci.ics.genomix.type.VKmerBytesWritable;
-import edu.uci.ics.utils.TestUtils;
-
-@SuppressWarnings("deprecation")
-public class MergePathH2Test {
-    private static final String ACTUAL_RESULT_DIR = "actual4";
-    private static final String COMPARE_DIR = "compare";
-    private JobConf conf = new JobConf();
-    private static final String HADOOP_CONF_PATH = ACTUAL_RESULT_DIR + File.separator + "conf.xml";
-    private static final String DATA_PATH = "actual2" + "/result2" + "/part-00000";
-    private static final String HDFS_PATH = "/webmap";
-    private static final String HDFA_PATH_DATA = "/webmapdata";
-    
-    private static final String RESULT_PATH = "/result4";
-    private static final String EXPECTED_PATH = "expected/result4";
-    private static final String TEST_SOURCE_DIR = COMPARE_DIR + RESULT_PATH + "/comparesource.txt";
-    private static final int COUNT_REDUCER = 1;
-    private static final int SIZE_KMER = 3;
-
-    private MiniDFSCluster dfsCluster;
-    private MiniMRCluster mrCluster;
-    private FileSystem dfs;
-
-    @SuppressWarnings("resource")
-    @Test
-    public void test() throws Exception {
-        FileUtils.forceMkdir(new File(ACTUAL_RESULT_DIR));
-        FileUtils.cleanDirectory(new File(ACTUAL_RESULT_DIR));
-        startHadoop();
-
-        MergePathH2Driver tldriver = new MergePathH2Driver();
-        tldriver.run(HDFS_PATH, RESULT_PATH, HDFA_PATH_DATA, COUNT_REDUCER, SIZE_KMER, 1, HADOOP_CONF_PATH);
-        
-/*        SequenceFile.Reader reader = null;
-//        Path path = new Path(RESULT_PATH + "/part-00000");
-        Path path = new Path(RESULT_PATH + "/uncomplete0" + "/uncomplete0-r-00000");
-        reader = new SequenceFile.Reader(dfs, path, conf);
-        VKmerBytesWritable key = (VKmerBytesWritable) ReflectionUtils.newInstance(reader.getKeyClass(), conf);
-        MergePathValueWritable value = (MergePathValueWritable) ReflectionUtils.newInstance(reader.getValueClass(), conf);
-        File filePathTo = new File(TEST_SOURCE_DIR);
-        BufferedWriter bw = new BufferedWriter(new FileWriter(filePathTo));
-        while (reader.next(key, value)) {
-            bw.write(key.toString() + "\t" + value.getAdjBitMap() + "\t" + value.getFlag());
-            bw.newLine();
-        }
-        bw.close();*/
-//        dumpResult();
-        
-//        TestUtils.compareWithResult(new File(TEST_SOURCE_DIR), new File(EXPECTED_PATH));
-
-        cleanupHadoop();
-
-    }
-    private void startHadoop() throws IOException {
-        FileSystem lfs = FileSystem.getLocal(new Configuration());
-        lfs.delete(new Path("build"), true);
-        System.setProperty("hadoop.log.dir", "logs");
-        dfsCluster = new MiniDFSCluster(conf, 2, true, null);
-        dfs = dfsCluster.getFileSystem();
-        mrCluster = new MiniMRCluster(4, dfs.getUri().toString(), 2);
-
-        Path src = new Path(DATA_PATH);
-        Path dest = new Path(HDFS_PATH + "/");
-        dfs.mkdirs(dest);
-        dfs.copyFromLocalFile(src, dest);
-        Path data = new Path(HDFA_PATH_DATA + "/");
-        dfs.mkdirs(data);
-   
-        DataOutputStream confOutput = new DataOutputStream(new FileOutputStream(new File(HADOOP_CONF_PATH)));
-        conf.writeXml(confOutput);
-        confOutput.flush();
-        confOutput.close();
-    }
-
-    private void cleanupHadoop() throws IOException {
-        mrCluster.shutdown();
-        dfsCluster.shutdown();
-    }
-
-    private void dumpResult() throws IOException {
-//        Path src = new Path(HDFA_PATH_DATA + "/" + "complete2");
-        Path src = new Path(RESULT_PATH);
-        Path dest = new Path(ACTUAL_RESULT_DIR + "/");
-        dfs.copyToLocalFile(src, dest);
-    }
-}
\ No newline at end of file
diff --git a/genomix/genomix-hadoop/src/test/java/edu/uci/ics/utils/TestUtils.java b/genomix/genomix-hadoop/src/test/java/edu/uci/ics/utils/TestUtils.java
deleted file mode 100755
index 015017a..0000000
--- a/genomix/genomix-hadoop/src/test/java/edu/uci/ics/utils/TestUtils.java
+++ /dev/null
@@ -1,75 +0,0 @@
-package edu.uci.ics.utils;
-
-/*
- * Copyright 2009-2012 by The Regents of the University of California
- * Licensed under the Apache License, Version 2.0 (the "License");
- * you may not use this file except in compliance with the License.
- * you may obtain a copy of the License from
- *
- *     http://www.apache.org/licenses/LICENSE-2.0
- *
- * Unless required by applicable law or agreed to in writing, software
- * distributed under the License is distributed on an "AS IS" BASIS,
- * WITHOUT WARRANTIES OR CONDITIONS OF ANY KIND, either express or implied.
- * See the License for the specific language governing permissions and
- * limitations under the License.
- */
-import java.io.BufferedReader;
-import java.io.File;
-import java.io.FileReader;
-
-/**
- * This class offer the service for graphbuildingtest.class
- */
-public class TestUtils {
-    public static void compareWithResult(File expectedFile, File actualFile) throws Exception {
-        BufferedReader readerExpected = new BufferedReader(new FileReader(expectedFile));
-        BufferedReader readerActual = new BufferedReader(new FileReader(actualFile));
-        String lineExpected, lineActual;
-        int num = 1;
-        try {
-            while ((lineExpected = readerExpected.readLine()) != null) {
-                lineActual = readerActual.readLine();
-                // Assert.assertEquals(lineExpected, lineActual);
-                if (lineActual == null) {
-                    throw new Exception("Actual result changed at line " + num + ":\n< " + lineExpected + "\n> ");
-                }
-                if (!equalStrings(lineExpected, lineActual)) {
-                    throw new Exception("Result for changed at line " + num + ":\n< " + lineExpected + "\n> "
-                            + lineActual);
-                }
-                ++num;
-            }
-            lineActual = readerActual.readLine();
-            if (lineActual != null) {
-                throw new Exception("Actual result changed at line " + num + ":\n< \n> " + lineActual);
-            }
-        } finally {
-            readerExpected.close();
-            readerActual.close();
-        }
-    }
-
-    private static boolean equalStrings(String s1, String s2) {
-        String[] rowsOne = s1.split("\t");
-        String[] rowsTwo = s2.split("\t");
-
-        if (rowsOne.length != rowsTwo.length)
-            return false;
-
-        for (int i = 0; i < rowsOne.length; i++) {
-            String row1 = rowsOne[i];
-            String row2 = rowsTwo[i];
-
-            if (row1.equals(row2))
-                continue;
-            else
-                return false;
-        }
-        return true;
-    }
-
-    public static void main(String[] args) throws Exception {
-        TestUtils TUtils = new TestUtils();
-    }
-}