diff --git a/genomix/genomix-pregelix/src/test/java/edu/uci/ics/genomix/pregelix/JobGen/JobGenerator.java b/genomix/genomix-pregelix/src/test/java/edu/uci/ics/genomix/pregelix/JobGen/JobGenerator.java
index 0e798fe..e18c31b 100644
--- a/genomix/genomix-pregelix/src/test/java/edu/uci/ics/genomix/pregelix/JobGen/JobGenerator.java
+++ b/genomix/genomix-pregelix/src/test/java/edu/uci/ics/genomix/pregelix/JobGen/JobGenerator.java
@@ -7,6 +7,7 @@
 import edu.uci.ics.genomix.pregelix.format.GraphCleanInputFormat;
 import edu.uci.ics.genomix.pregelix.format.GraphCleanOutputFormat;
 import edu.uci.ics.genomix.pregelix.format.InitialGraphCleanInputFormat;
+import edu.uci.ics.genomix.pregelix.format.P2PathMergeOutputFormat;
 import edu.uci.ics.genomix.pregelix.io.VertexValueWritable;
 import edu.uci.ics.genomix.pregelix.operator.bridgeremove.BridgeAddVertex;
 import edu.uci.ics.genomix.pregelix.operator.bridgeremove.BridgeRemoveVertex;
@@ -42,21 +43,21 @@
 //                + "NaiveAlgorithmForMergeGraph.xml");
 //    }
 
-//    private static void generateLogAlgorithmForMergeGraphJob(String jobName, String outputPath) throws IOException {
-//        PregelixJob job = new PregelixJob(jobName);
-//        job.setVertexClass(LogAlgorithmForPathMergeVertex.class);
-//        job.setVertexInputFormatClass(LogAlgorithmForPathMergeInputFormat.class);
-//        job.setVertexOutputFormatClass(GraphCleanOutputFormat.class); //LogAlgorithmForPathMergeOutputFormat
-//        job.setDynamicVertexValueSize(true);
-//        job.setOutputKeyClass(PositionWritable.class);
-//        job.setOutputValueClass(VertexValueWritable.class);
-//        job.getConfiguration().setInt(LogAlgorithmForPathMergeVertex.KMER_SIZE, 3);
-//        job.getConfiguration().writeXml(new FileOutputStream(new File(outputPath)));
-//    }
-//
-//    private static void genLogAlgorithmForMergeGraph() throws IOException {
-//        generateLogAlgorithmForMergeGraphJob("LogAlgorithmForMergeGraph", outputBase + "LogAlgorithmForMergeGraph.xml");
-//    }
+    private static void generateLogAlgorithmForMergeGraphJob(String jobName, String outputPath) throws IOException {
+        PregelixJob job = new PregelixJob(jobName);
+        job.setVertexClass(LogAlgorithmForPathMergeVertex.class);
+        job.setVertexInputFormatClass(InitialGraphCleanInputFormat.class);
+        job.setVertexOutputFormatClass(P2PathMergeOutputFormat.class); 
+        job.setDynamicVertexValueSize(true);
+        job.setOutputKeyClass(KmerBytesWritable.class);
+        job.setOutputValueClass(VertexValueWritable.class);
+        job.getConfiguration().setInt(LogAlgorithmForPathMergeVertex.KMER_SIZE, 3);
+        job.getConfiguration().writeXml(new FileOutputStream(new File(outputPath)));
+    }
+
+    private static void genLogAlgorithmForMergeGraph() throws IOException {
+        generateLogAlgorithmForMergeGraphJob("LogAlgorithmForMergeGraph", outputBase + "LogAlgorithmForMergeGraph.xml");
+    }
 //    
 //    private static void generateP3ForMergeGraphJob(String jobName, String outputPath) throws IOException {
 //        PregelixJob job = new PregelixJob(jobName);
@@ -77,22 +78,22 @@
 //                + "P3ForMergeGraph.xml");
 //    }
     
-    private static void generateP4ForMergeGraphJob(String jobName, String outputPath) throws IOException {
-        PregelixJob job = new PregelixJob(jobName);
-        job.setVertexClass(P4ForPathMergeVertex.class);
-        job.setVertexInputFormatClass(InitialGraphCleanInputFormat.class);
-        job.setVertexOutputFormatClass(GraphCleanOutputFormat.class);
-        job.setDynamicVertexValueSize(true);
-        job.setOutputKeyClass(KmerBytesWritable.class);
-        job.setOutputValueClass(VertexValueWritable.class);
-        job.getConfiguration().setInt(P4ForPathMergeVertex.KMER_SIZE, 3);
-        job.getConfiguration().writeXml(new FileOutputStream(new File(outputPath)));
-    }
-
-    private static void genP4ForMergeGraph() throws IOException {
-        generateP4ForMergeGraphJob("P4ForMergeGraph", outputBase
-                + "P4ForMergeGraph.xml");
-    }
+//    private static void generateP4ForMergeGraphJob(String jobName, String outputPath) throws IOException {
+//        PregelixJob job = new PregelixJob(jobName);
+//        job.setVertexClass(P4ForPathMergeVertex.class);
+//        job.setVertexInputFormatClass(InitialGraphCleanInputFormat.class);
+//        job.setVertexOutputFormatClass(GraphCleanOutputFormat.class);
+//        job.setDynamicVertexValueSize(true);
+//        job.setOutputKeyClass(KmerBytesWritable.class);
+//        job.setOutputValueClass(VertexValueWritable.class);
+//        job.getConfiguration().setInt(P4ForPathMergeVertex.KMER_SIZE, 3);
+//        job.getConfiguration().writeXml(new FileOutputStream(new File(outputPath)));
+//    }
+//
+//    private static void genP4ForMergeGraph() throws IOException {
+//        generateP4ForMergeGraphJob("P4ForMergeGraph", outputBase
+//                + "P4ForMergeGraph.xml");
+//    }
     
 //    private static void generateTipAddGraphJob(String jobName, String outputPath) throws IOException {
 //        PregelixJob job = new PregelixJob(jobName);
@@ -198,7 +199,7 @@
     
     public static void main(String[] args) throws IOException {
         //genNaiveAlgorithmForMergeGraph();
-        //genLogAlgorithmForMergeGraph();
+        genLogAlgorithmForMergeGraph();
         //genP3ForMergeGraph();
         //genTipAddGraph();
 //        genTipRemoveGraph();
@@ -206,7 +207,7 @@
 //        genBridgeRemoveGraph();
 //        genBubbleAddGraph();
 //        genBubbleMergeGraph();
-        genP4ForMergeGraph();
+//        genP4ForMergeGraph();
     }
 
 }
diff --git a/genomix/genomix-pregelix/src/test/java/edu/uci/ics/genomix/pregelix/JobRun/PathMergeSmallTestSuite.java b/genomix/genomix-pregelix/src/test/java/edu/uci/ics/genomix/pregelix/JobRun/PathMergeSmallTestSuite.java
index 115f090..5aedeb7 100644
--- a/genomix/genomix-pregelix/src/test/java/edu/uci/ics/genomix/pregelix/JobRun/PathMergeSmallTestSuite.java
+++ b/genomix/genomix-pregelix/src/test/java/edu/uci/ics/genomix/pregelix/JobRun/PathMergeSmallTestSuite.java
@@ -45,14 +45,14 @@
 
     public static final String PreFix = "data/PathMergeTestSet"; //"graphbuildresult";
     public static final String[] TestDir = { PreFix + File.separator
-    + "2", PreFix + File.separator
-    + "3", PreFix + File.separator
-    + "4", PreFix + File.separator
-    + "5", PreFix + File.separator
-    + "6", PreFix + File.separator
-    + "7", PreFix + File.separator
-    + "8", PreFix + File.separator
-    + "9"};
+//    + "2", PreFix + File.separator
+//    + "3", PreFix + File.separator
+//    + "4", PreFix + File.separator
+//    + "5", PreFix + File.separator
+//    + "6", PreFix + File.separator
+//    + "7", PreFix + File.separator
+//    + "8", PreFix + File.separator
+    + "4"};
     private static final String ACTUAL_RESULT_DIR = "data/actual/pathmerge";
     private static final String PATH_TO_HADOOP_CONF = "src/test/resources/hadoop/conf";
     private static final String PATH_TO_CLUSTER_STORE = "src/test/resources/cluster/stores.properties";
diff --git a/genomix/genomix-pregelix/src/test/resources/jobs/P4ForMergeGraph.xml b/genomix/genomix-pregelix/src/test/resources/jobs/P4ForMergeGraph.xml
deleted file mode 100644
index 597e5c3..0000000
--- a/genomix/genomix-pregelix/src/test/resources/jobs/P4ForMergeGraph.xml
+++ /dev/null
@@ -1,142 +0,0 @@
-<?xml version="1.0" encoding="UTF-8" standalone="no"?><configuration>
-<property><name>mapred.tasktracker.dns.nameserver</name><value>default</value></property>
-<property><name>mapred.queue.default.acl-administer-jobs</name><value>*</value></property>
-<property><name>mapred.skip.map.auto.incr.proc.count</name><value>true</value></property>
-<property><name>mapred.jobtracker.instrumentation</name><value>org.apache.hadoop.mapred.JobTrackerMetricsInst</value></property>
-<property><name>mapred.skip.reduce.auto.incr.proc.count</name><value>true</value></property>
-<property><name>fs.hsftp.impl</name><value>org.apache.hadoop.hdfs.HsftpFileSystem</value></property>
-<property><name>mapred.submit.replication</name><value>10</value></property>
-<property><name>ipc.server.tcpnodelay</name><value>false</value></property>
-<property><name>fs.checkpoint.dir</name><value>${hadoop.tmp.dir}/dfs/namesecondary</value></property>
-<property><name>mapred.output.compression.type</name><value>RECORD</value></property>
-<property><name>mapred.job.shuffle.merge.percent</name><value>0.66</value></property>
-<property><name>mapred.child.java.opts</name><value>-Xmx200m</value></property>
-<property><name>mapred.queue.default.acl-submit-job</name><value>*</value></property>
-<property><name>keep.failed.task.files</name><value>false</value></property>
-<property><name>mapred.jobtracker.job.history.block.size</name><value>3145728</value></property>
-<property><name>mapred.output.value.class</name><value>edu.uci.ics.genomix.pregelix.io.VertexValueWritable</value></property>
-<property><name>io.bytes.per.checksum</name><value>512</value></property>
-<property><name>mapred.task.tracker.report.address</name><value>127.0.0.1:0</value></property>
-<property><name>hadoop.util.hash.type</name><value>murmur</value></property>
-<property><name>fs.hdfs.impl</name><value>org.apache.hadoop.hdfs.DistributedFileSystem</value></property>
-<property><name>fs.ramfs.impl</name><value>org.apache.hadoop.fs.InMemoryFileSystem</value></property>
-<property><name>mapred.jobtracker.restart.recover</name><value>false</value></property>
-<property><name>fs.hftp.impl</name><value>org.apache.hadoop.hdfs.HftpFileSystem</value></property>
-<property><name>fs.checkpoint.period</name><value>3600</value></property>
-<property><name>mapred.child.tmp</name><value>./tmp</value></property>
-<property><name>mapred.local.dir.minspacekill</name><value>0</value></property>
-<property><name>map.sort.class</name><value>org.apache.hadoop.util.QuickSort</value></property>
-<property><name>hadoop.logfile.count</name><value>10</value></property>
-<property><name>ipc.client.connection.maxidletime</name><value>10000</value></property>
-<property><name>io.map.index.skip</name><value>0</value></property>
-<property><name>mapred.tasktracker.expiry.interval</name><value>600000</value></property>
-<property><name>mapred.output.compress</name><value>false</value></property>
-<property><name>io.seqfile.lazydecompress</name><value>true</value></property>
-<property><name>mapred.reduce.parallel.copies</name><value>5</value></property>
-<property><name>fs.checkpoint.size</name><value>67108864</value></property>
-<property><name>mapred.job.reduce.input.buffer.percent</name><value>0.0</value></property>
-<property><name>mapred.job.name</name><value>P4ForMergeGraph</value></property>
-<property><name>local.cache.size</name><value>10737418240</value></property>
-<property><name>fs.s3n.impl</name><value>org.apache.hadoop.fs.s3native.NativeS3FileSystem</value></property>
-<property><name>mapred.userlog.limit.kb</name><value>0</value></property>
-<property><name>fs.file.impl</name><value>org.apache.hadoop.fs.LocalFileSystem</value></property>
-<property><name>mapred.task.tracker.http.address</name><value>0.0.0.0:50060</value></property>
-<property><name>mapred.task.timeout</name><value>600000</value></property>
-<property><name>fs.kfs.impl</name><value>org.apache.hadoop.fs.kfs.KosmosFileSystem</value></property>
-<property><name>mapred.max.tracker.blacklists</name><value>4</value></property>
-<property><name>fs.s3.buffer.dir</name><value>${hadoop.tmp.dir}/s3</value></property>
-<property><name>mapred.job.tracker.persist.jobstatus.dir</name><value>/jobtracker/jobsInfo</value></property>
-<property><name>ipc.client.kill.max</name><value>10</value></property>
-<property><name>mapred.tasktracker.instrumentation</name><value>org.apache.hadoop.mapred.TaskTrackerMetricsInst</value></property>
-<property><name>mapred.reduce.tasks.speculative.execution</name><value>true</value></property>
-<property><name>io.sort.record.percent</name><value>0.05</value></property>
-<property><name>hadoop.security.authorization</name><value>false</value></property>
-<property><name>mapred.max.tracker.failures</name><value>4</value></property>
-<property><name>mapred.jobtracker.taskScheduler</name><value>org.apache.hadoop.mapred.JobQueueTaskScheduler</value></property>
-<property><name>mapred.tasktracker.dns.interface</name><value>default</value></property>
-<property><name>mapred.map.tasks</name><value>2</value></property>
-<property><name>mapred.job.tracker.persist.jobstatus.hours</name><value>0</value></property>
-<property><name>fs.s3.sleepTimeSeconds</name><value>10</value></property>
-<property><name>fs.default.name</name><value>file:///</value></property>
-<property><name>mapred.output.key.class</name><value>edu.uci.ics.genomix.type.KmerBytesWritable</value></property>
-<property><name>tasktracker.http.threads</name><value>40</value></property>
-<property><name>mapred.tasktracker.taskmemorymanager.monitoring-interval</name><value>5000</value></property>
-<property><name>hadoop.rpc.socket.factory.class.default</name><value>org.apache.hadoop.net.StandardSocketFactory</value></property>
-<property><name>mapred.reduce.tasks</name><value>1</value></property>
-<property><name>topology.node.switch.mapping.impl</name><value>org.apache.hadoop.net.ScriptBasedMapping</value></property>
-<property><name>pregelix.vertexClass</name><value>edu.uci.ics.genomix.pregelix.operator.pathmerge.P4ForPathMergeVertex</value></property>
-<property><name>mapred.skip.reduce.max.skip.groups</name><value>0</value></property>
-<property><name>io.file.buffer.size</name><value>4096</value></property>
-<property><name>mapred.jobtracker.maxtasks.per.job</name><value>-1</value></property>
-<property><name>mapred.tasktracker.indexcache.mb</name><value>10</value></property>
-<property><name>mapred.tasktracker.map.tasks.maximum</name><value>2</value></property>
-<property><name>fs.har.impl.disable.cache</name><value>true</value></property>
-<property><name>mapred.task.profile.maps</name><value>0-2</value></property>
-<property><name>hadoop.native.lib</name><value>true</value></property>
-<property><name>fs.s3.block.size</name><value>67108864</value></property>
-<property><name>mapred.job.reuse.jvm.num.tasks</name><value>1</value></property>
-<property><name>mapred.job.tracker.http.address</name><value>0.0.0.0:50030</value></property>
-<property><name>mapred.tasktracker.reduce.tasks.maximum</name><value>2</value></property>
-<property><name>io.compression.codecs</name><value>org.apache.hadoop.io.compress.DefaultCodec,org.apache.hadoop.io.compress.GzipCodec,org.apache.hadoop.io.compress.BZip2Codec</value></property>
-<property><name>mapred.job.shuffle.input.buffer.percent</name><value>0.70</value></property>
-<property><name>io.seqfile.compress.blocksize</name><value>1000000</value></property>
-<property><name>mapred.queue.names</name><value>default</value></property>
-<property><name>fs.har.impl</name><value>org.apache.hadoop.fs.HarFileSystem</value></property>
-<property><name>io.mapfile.bloom.error.rate</name><value>0.005</value></property>
-<property><name>mapred.job.tracker</name><value>local</value></property>
-<property><name>io.skip.checksum.errors</name><value>false</value></property>
-<property><name>mapred.reduce.max.attempts</name><value>4</value></property>
-<property><name>fs.s3.maxRetries</name><value>4</value></property>
-<property><name>ipc.server.listen.queue.size</name><value>128</value></property>
-<property><name>fs.trash.interval</name><value>0</value></property>
-<property><name>mapred.local.dir.minspacestart</name><value>0</value></property>
-<property><name>fs.s3.impl</name><value>org.apache.hadoop.fs.s3.S3FileSystem</value></property>
-<property><name>io.seqfile.sorter.recordlimit</name><value>1000000</value></property>
-<property><name>io.mapfile.bloom.size</name><value>1048576</value></property>
-<property><name>io.sort.mb</name><value>100</value></property>
-<property><name>mapred.local.dir</name><value>${hadoop.tmp.dir}/mapred/local</value></property>
-<property><name>io.sort.factor</name><value>10</value></property>
-<property><name>BasicPathMergeVertex.kmerSize</name><value>3</value></property>
-<property><name>mapred.task.profile</name><value>false</value></property>
-<property><name>job.end.retry.interval</name><value>30000</value></property>
-<property><name>mapred.tasktracker.procfsbasedprocesstree.sleeptime-before-sigkill</name><value>5000</value></property>
-<property><name>mapred.jobtracker.completeuserjobs.maximum</name><value>100</value></property>
-<property><name>mapred.task.profile.reduces</name><value>0-2</value></property>
-<property><name>webinterface.private.actions</name><value>false</value></property>
-<property><name>hadoop.tmp.dir</name><value>/tmp/hadoop-${user.name}</value></property>
-<property><name>mapred.output.compression.codec</name><value>org.apache.hadoop.io.compress.DefaultCodec</value></property>
-<property><name>mapred.skip.attempts.to.start.skipping</name><value>2</value></property>
-<property><name>mapred.temp.dir</name><value>${hadoop.tmp.dir}/mapred/temp</value></property>
-<property><name>mapred.merge.recordsBeforeProgress</name><value>10000</value></property>
-<property><name>mapred.map.output.compression.codec</name><value>org.apache.hadoop.io.compress.DefaultCodec</value></property>
-<property><name>mapred.compress.map.output</name><value>false</value></property>
-<property><name>io.sort.spill.percent</name><value>0.80</value></property>
-<property><name>fs.checkpoint.edits.dir</name><value>${fs.checkpoint.dir}</value></property>
-<property><name>mapred.userlog.retain.hours</name><value>24</value></property>
-<property><name>mapred.system.dir</name><value>${hadoop.tmp.dir}/mapred/system</value></property>
-<property><name>mapred.line.input.format.linespermap</name><value>1</value></property>
-<property><name>job.end.retry.attempts</name><value>0</value></property>
-<property><name>ipc.client.idlethreshold</name><value>4000</value></property>
-<property><name>pregelix.vertexOutputFormatClass</name><value>edu.uci.ics.genomix.pregelix.format.GraphCleanOutputFormat</value></property>
-<property><name>mapred.reduce.copy.backoff</name><value>300</value></property>
-<property><name>mapred.map.tasks.speculative.execution</name><value>true</value></property>
-<property><name>mapred.inmem.merge.threshold</name><value>1000</value></property>
-<property><name>hadoop.logfile.size</name><value>10000000</value></property>
-<property><name>pregelix.vertexInputFormatClass</name><value>edu.uci.ics.genomix.pregelix.format.InitialGraphCleanInputFormat</value></property>
-<property><name>mapred.job.queue.name</name><value>default</value></property>
-<property><name>mapred.job.tracker.persist.jobstatus.active</name><value>false</value></property>
-<property><name>pregelix.incStateLength</name><value>true</value></property>
-<property><name>mapred.reduce.slowstart.completed.maps</name><value>0.05</value></property>
-<property><name>topology.script.number.args</name><value>100</value></property>
-<property><name>mapred.skip.map.max.skip.records</name><value>0</value></property>
-<property><name>fs.ftp.impl</name><value>org.apache.hadoop.fs.ftp.FTPFileSystem</value></property>
-<property><name>mapred.task.cache.levels</name><value>2</value></property>
-<property><name>mapred.job.tracker.handler.count</name><value>10</value></property>
-<property><name>io.serializations</name><value>org.apache.hadoop.io.serializer.WritableSerialization</value></property>
-<property><name>ipc.client.connect.max.retries</name><value>10</value></property>
-<property><name>mapred.min.split.size</name><value>0</value></property>
-<property><name>mapred.map.max.attempts</name><value>4</value></property>
-<property><name>jobclient.output.filter</name><value>FAILED</value></property>
-<property><name>ipc.client.tcpnodelay</name><value>false</value></property>
-<property><name>mapred.acls.enabled</name><value>false</value></property>
-</configuration>
\ No newline at end of file
diff --git a/genomix/genomix-pregelix/src/test/resources/only_pathmerge.txt b/genomix/genomix-pregelix/src/test/resources/only_pathmerge.txt
index 3d007d2..5a15ca0 100644
--- a/genomix/genomix-pregelix/src/test/resources/only_pathmerge.txt
+++ b/genomix/genomix-pregelix/src/test/resources/only_pathmerge.txt
@@ -1 +1 @@
-P4ForMergeGraph.xml
+LogAlgorithmForMergeGraph.xml