diff --git a/genomix/genomix-driver/src/main/java/edu/uci/ics/genomix/driver/GenomixDriver.java b/genomix/genomix-driver/src/main/java/edu/uci/ics/genomix/driver/GenomixDriver.java
index 3067afe..9c81534 100644
--- a/genomix/genomix-driver/src/main/java/edu/uci/ics/genomix/driver/GenomixDriver.java
+++ b/genomix/genomix-driver/src/main/java/edu/uci/ics/genomix/driver/GenomixDriver.java
@@ -102,7 +102,7 @@
                     key = (Writable) ReflectionUtils.newInstance(reader.getKeyClass(), conf);
                     value = (Writable) ReflectionUtils.newInstance(reader.getValueClass(), conf);
                     if (bw == null)
-                        bw = new BufferedWriter(new FileWriter(localDestDir + File.separator + "text"));
+                        bw = new BufferedWriter(new FileWriter(localDestDir + File.separator + "data"));
                     while (reader.next(key, value)) {
                         if (key == null || value == null)
                             break;
@@ -238,13 +238,15 @@
 
     public static void main(String[] args) throws CmdLineException, NumberFormatException, HyracksException, Exception {
         String[] myArgs = { "-runLocal", "-kmerLength", "3",
-                //                "-localInput", "/home/wbiesing/code/hyracks/genomix/genomix-pregelix/data/input/reads/synthetic/",
-                "-localInput", "/home/wbiesing/code/hyracks/genomix/genomix-pregelix/data/input/reads/pathmerge",
-                "-localOutput", "output",
+                "-localInput", "../genomix-pregelix/data/input/reads/synthetic/",
+//                "-localInput", "../genomix-pregelix/data/input/reads/pathmerge",
+//                "-localInput", "/home/wbiesing/code/hyracks/genomix/genomix-pregelix/data/input/reads/test",
+//                "-localInput", "output-build/bin",
+                "-localOutput", "output-both",
                 //                            "-pipelineOrder", "BUILD,MERGE",
                 //                            "-inputDir", "/home/wbiesing/code/hyracks/genomix/genomix-driver/graphbuild.binmerge",
                 //                "-localInput", "../genomix-pregelix/data/TestSet/PathMerge/CyclePath/bin/part-00000", 
-                "-pipelineOrder", "BUILD" };
+                "-pipelineOrder", "BUILD,MERGE" };
         GenomixJobConf conf = GenomixJobConf.fromArguments(myArgs);
         GenomixDriver driver = new GenomixDriver();
         driver.runGenomix(conf);
diff --git a/genomix/genomix-pregelix/data/TestSet/PathMerge/SmallRandom/synthetic1/bin/part-0 b/genomix/genomix-pregelix/data/TestSet/PathMerge/SmallRandom/synthetic1/bin/part-0
new file mode 100755
index 0000000..25c93c6
--- /dev/null
+++ b/genomix/genomix-pregelix/data/TestSet/PathMerge/SmallRandom/synthetic1/bin/part-0
Binary files differ
diff --git a/genomix/genomix-pregelix/data/TestSet/PathMerge/SmallRandom/synthetic1/bin/part-1 b/genomix/genomix-pregelix/data/TestSet/PathMerge/SmallRandom/synthetic1/bin/part-1
new file mode 100755
index 0000000..b9f464a
--- /dev/null
+++ b/genomix/genomix-pregelix/data/TestSet/PathMerge/SmallRandom/synthetic1/bin/part-1
Binary files differ
diff --git a/genomix/genomix-pregelix/data/TestSet/PathMerge/SmallRandom/synthetic1/data b/genomix/genomix-pregelix/data/TestSet/PathMerge/SmallRandom/synthetic1/data
new file mode 100644
index 0000000..a6dff12
--- /dev/null
+++ b/genomix/genomix-pregelix/data/TestSet/PathMerge/SmallRandom/synthetic1/data
@@ -0,0 +1,32 @@
+CAA	{[{AAT:[20]}, {AAC:[5]}]	[]	[]	[{AAT:[19]}, {AAC:[4,5,6]}, {TCA:[18,19,20]}, {GCA:[5,6]}]	{5':[], ~5':[]}	7.0x}
+TAA	{[{AAG:[34]}, {AAT:[26]}]	[]	[{TAA:[33,34,35]}]	[{AAT:[27]}, {GTA:[26,27,28]}, {AAG:[33,34,35]}]	{5':[], ~5':[(28-0_0)]}	9.0x}
+CCA	{[{CAC:[37]}]	[]	[]	[{GCC:[11,12]}, {CAG:[11,12,13]}]	{5':[(37-0_0)], ~5':[]}	4.0x}
+TCA	{[{CAC:[23]}, {CAA:[18,20]}, {CAG:[7]}]	[{ATG:[29,30,31]}]	[{GAC:[28,29,30,31,32]}, {GAA:[7,8,18,19,22,23,24]}]	[{CAC:[22]}, {CAA:[19]}, {CAG:[6,8]}]	{5':[(20-0_0)], ~5':[(24-0_0)]}	15.0x}
+CGA	{[]	[{CTC:[2]}]	[{CGC:[1,2,33,35]}]	[]	{5':[], ~5':[(35-0_0),(33-0_0)]}	4.0x}
+CTA	{[]	[{CTA:[2,3,4]}, {ATA:[25,26]}]	[{AGC:[2,3]}, {AGG:[3,4]}]	[{ACT:[1,24,25,26]}]	{5':[(2-0_0),(4-0_0)], ~5':[(1-0_0)]}	12.0x}
+CAC	{[{ACG:[23,37]}, {ACA:[37]}]	[]	[]	[{ACT:[1]}, {TCA:[22,23]}, {GCA:[1,2]}, {ACG:[21,22,36]}, {CCA:[37]}, {ACA:[36,37]}]	{5':[], ~5':[]}	8.0x}
+CCC	{[]	[{AGG:[3,4]}]	[]	[{ACC:[3,4,5]}]	{5':[], ~5':[]}	3.0x}
+CGC	{[{GCA:[2,6]}]	[{AGC:[1,2,3,6,32,33,35,36]}]	[{CGA:[1,2,33,35]}, {CGC:[1,2,6]}]	[{GCA:[1]}, {ACG:[31,32,36,37]}]	{5':[(3-0_0)], ~5':[(31-0_0)]}	15.0x}
+CTC	{[]	[{GGA:[4,5]}, {CGA:[2]}, {AGA:[12,13,14]}]	[{AGG:[2,4]}, {AGA:[13,14]}]	[{ACT:[4,5]}]	{5':[(12-0_0)], ~5':[(4-0_0)]}	7.0x}
+CAG	{[{AGC:[7]}, {AGA:[9,10,11]}]	[]	[]	[{AGC:[6]}, {AGA:[12,13]}, {TCA:[6,7,8]}, {GCA:[10,11]}, {CCA:[11,12,13]}]	{5':[(9-0_0)], ~5':[(8-0_0),(11-0_0)]}	9.0x}
+CCG	{[]	[{ACG:[16,17]}]	[]	[{GCC:[15,16,17]}]	{5':[], ~5':[(15-0_0)]}	3.0x}
+AAA	{[{AAT:[8]}, {AAC:[17,24,25]}]	[]	[]	[{AAT:[9]}, {AAC:[18,23]}, {GAA:[7,8,9,17,18,19,23,24]}]	{5':[(25-0_0)], ~5':[(7-0_0)]}	9.0x}
+GAA	{[{AAA:[8,17,19,24]}]	[]	[{TCA:[7,8,18,19,22,23,24]}]	[{AAA:[7,9,18,23]}]	{5':[(17-0_0)], ~5':[]}	9.0x}
+ACA	{[{CAC:[37]}]	[]	[]	[{CAC:[36,37]}]	{5':[], ~5':[]}	2.0x}
+GCA	{[{CAC:[2]}, {CAA:[5]}, {CAG:[10,11]}]	[{ATG:[1,6,14,15,16]}]	[{GCC:[10,11,12,15,16]}]	[{AGC:[5,6,7]}, {CAC:[1]}, {CGC:[1,2,6]}, {CAA:[6]}]	{5':[(14-0_0)], ~5':[]}	14.0x}
+AGA	{[]	[{ATC:[9,10,13,14,15]}, {CTC:[12,13,14]}]	[{CTC:[13,14]}]	[{CAG:[9,10,11,12,13]}]	{5':[], ~5':[]}	9.0x}
+GGA	{[]	[{CTC:[4,5]}]	[]	[{AGG:[3,4,5]}]	{5':[], ~5':[]}	3.0x}
+ATA	{[]	[{CTA:[25,26]}, {GTA:[20,21]}]	[]	[{AAT:[19,20,21,25,26,27]}]	{5':[], ~5':[(19-0_0),(27-0_0)]}	6.0x}
+GTA	{[{TAA:[26]}]	[{ATA:[20,21]}]	[{ACG:[20,21,22,27,28]}]	[{TAA:[27,28]}]	{5':[(26-0_0)], ~5':[(22-0_0)]}	6.0x}
+AAC	{[{ACT:[24,25]}, {ACG:[16,17]}, {ACC:[5]}]	[]	[]	[{ACT:[5]}, {ACG:[18]}, {ACC:[4]}, {CAA:[4,5,6]}, {AAA:[17,18,23,24,25]}]	{5':[(16-0_0)], ~5':[(23-0_0),(6-0_0)]}	10.0x}
+GAC	{[{ACG:[29]}]	[]	[{TCA:[28,29,30,31,32]}]	[{ACG:[28,31,32]}]	{5':[], ~5':[(30-0_0)]}	6.0x}
+ACC	{[{CCC:[5]}]	[]	[]	[{AAC:[4,5]}, {CCC:[3,4]}]	{5':[], ~5':[]}	3.0x}
+GCC	{[]	[]	[{GCA:[10,11,12,15,16]}]	[{CCG:[15,16,17]}, {CCA:[11,12]}]	{5':[], ~5':[(10-0_0)]}	6.0x}
+AGC	{[{GCA:[5,7]}]	[{CGC:[1,2,3,6,32,33,35,36]}]	[{CTA:[2,3]}]	[{GCA:[6]}, {AAG:[32,33,34,35,36]}, {CAG:[6,7]}]	{5':[(6-0_0),(5-0_0)], ~5':[(34-0_0),(3-0_0)]}	14.0x}
+ATC	{[]	[{AGA:[9,10,13,14,15]}]	[{ATG:[14,15]}]	[{AAT:[8,9,10]}]	{5':[(13-0_0)], ~5':[]}	6.0x}
+AAG	{[{AGC:[32,34,36]}]	[]	[]	[{TAA:[33,34,35]}, {AGC:[33,34,35]}]	{5':[(32-0_0),(36-0_0)], ~5':[]}	6.0x}
+ACG	{[{CGC:[37]}]	[{CCG:[16,17]}, {ACG:[21,22,27,28,29]}]	[{GTA:[20,21,22,27,28]}]	[{GAC:[28,29,31,32]}, {CAC:[21,22,23,36,37]}, {CGC:[31,32,36]}, {AAC:[16,17,18]}]	{5':[], ~5':[(18-0_0)]}	19.0x}
+AGG	{[{GGA:[3,4,5]}]	[{CCC:[3,4]}]	[{CTA:[3,4]}, {CTC:[2,4]}]	[]	{5':[(5-0_0)], ~5':[(2-0_0)]}	6.0x}
+ATG	{[]	[{TCA:[29,30,31]}, {GCA:[1,6,14,15,16]}]	[{ATC:[14,15]}, {ATG:[29,30,31]}]	[{AAT:[1,6]}]	{5':[], ~5':[(29-0_0)]}	11.0x}
+AAT	{[{ATG:[1]}, {ATC:[8]}, {ATA:[20,21,26]}]	[]	[]	[{TAA:[26,27]}, {ATG:[6]}, {ATC:[9,10]}, {CAA:[19,20]}, {AAA:[8,9]}, {ATA:[19,25,27]}]	{5':[(21-0_0),(1-0_0)], ~5':[]}	11.0x}
+ACT	{[{CTA:[24,25]}]	[]	[]	[{CAC:[1]}, {AAC:[5,24,25]}, {CTA:[1,26]}, {CTC:[4,5]}]	{5':[], ~5':[]}	6.0x}
diff --git a/genomix/genomix-pregelix/data/input/graphs/synthetic/combined_random_walks/bin/part-0 b/genomix/genomix-pregelix/data/input/graphs/synthetic/combined_random_walks/bin/part-0
new file mode 100755
index 0000000..25c93c6
--- /dev/null
+++ b/genomix/genomix-pregelix/data/input/graphs/synthetic/combined_random_walks/bin/part-0
Binary files differ
diff --git a/genomix/genomix-pregelix/data/input/graphs/synthetic/combined_random_walks/bin/part-1 b/genomix/genomix-pregelix/data/input/graphs/synthetic/combined_random_walks/bin/part-1
new file mode 100755
index 0000000..b9f464a
--- /dev/null
+++ b/genomix/genomix-pregelix/data/input/graphs/synthetic/combined_random_walks/bin/part-1
Binary files differ
diff --git a/genomix/genomix-pregelix/data/input/graphs/synthetic/combined_random_walks/text b/genomix/genomix-pregelix/data/input/graphs/synthetic/combined_random_walks/text
new file mode 100644
index 0000000..a6dff12
--- /dev/null
+++ b/genomix/genomix-pregelix/data/input/graphs/synthetic/combined_random_walks/text
@@ -0,0 +1,32 @@
+CAA	{[{AAT:[20]}, {AAC:[5]}]	[]	[]	[{AAT:[19]}, {AAC:[4,5,6]}, {TCA:[18,19,20]}, {GCA:[5,6]}]	{5':[], ~5':[]}	7.0x}
+TAA	{[{AAG:[34]}, {AAT:[26]}]	[]	[{TAA:[33,34,35]}]	[{AAT:[27]}, {GTA:[26,27,28]}, {AAG:[33,34,35]}]	{5':[], ~5':[(28-0_0)]}	9.0x}
+CCA	{[{CAC:[37]}]	[]	[]	[{GCC:[11,12]}, {CAG:[11,12,13]}]	{5':[(37-0_0)], ~5':[]}	4.0x}
+TCA	{[{CAC:[23]}, {CAA:[18,20]}, {CAG:[7]}]	[{ATG:[29,30,31]}]	[{GAC:[28,29,30,31,32]}, {GAA:[7,8,18,19,22,23,24]}]	[{CAC:[22]}, {CAA:[19]}, {CAG:[6,8]}]	{5':[(20-0_0)], ~5':[(24-0_0)]}	15.0x}
+CGA	{[]	[{CTC:[2]}]	[{CGC:[1,2,33,35]}]	[]	{5':[], ~5':[(35-0_0),(33-0_0)]}	4.0x}
+CTA	{[]	[{CTA:[2,3,4]}, {ATA:[25,26]}]	[{AGC:[2,3]}, {AGG:[3,4]}]	[{ACT:[1,24,25,26]}]	{5':[(2-0_0),(4-0_0)], ~5':[(1-0_0)]}	12.0x}
+CAC	{[{ACG:[23,37]}, {ACA:[37]}]	[]	[]	[{ACT:[1]}, {TCA:[22,23]}, {GCA:[1,2]}, {ACG:[21,22,36]}, {CCA:[37]}, {ACA:[36,37]}]	{5':[], ~5':[]}	8.0x}
+CCC	{[]	[{AGG:[3,4]}]	[]	[{ACC:[3,4,5]}]	{5':[], ~5':[]}	3.0x}
+CGC	{[{GCA:[2,6]}]	[{AGC:[1,2,3,6,32,33,35,36]}]	[{CGA:[1,2,33,35]}, {CGC:[1,2,6]}]	[{GCA:[1]}, {ACG:[31,32,36,37]}]	{5':[(3-0_0)], ~5':[(31-0_0)]}	15.0x}
+CTC	{[]	[{GGA:[4,5]}, {CGA:[2]}, {AGA:[12,13,14]}]	[{AGG:[2,4]}, {AGA:[13,14]}]	[{ACT:[4,5]}]	{5':[(12-0_0)], ~5':[(4-0_0)]}	7.0x}
+CAG	{[{AGC:[7]}, {AGA:[9,10,11]}]	[]	[]	[{AGC:[6]}, {AGA:[12,13]}, {TCA:[6,7,8]}, {GCA:[10,11]}, {CCA:[11,12,13]}]	{5':[(9-0_0)], ~5':[(8-0_0),(11-0_0)]}	9.0x}
+CCG	{[]	[{ACG:[16,17]}]	[]	[{GCC:[15,16,17]}]	{5':[], ~5':[(15-0_0)]}	3.0x}
+AAA	{[{AAT:[8]}, {AAC:[17,24,25]}]	[]	[]	[{AAT:[9]}, {AAC:[18,23]}, {GAA:[7,8,9,17,18,19,23,24]}]	{5':[(25-0_0)], ~5':[(7-0_0)]}	9.0x}
+GAA	{[{AAA:[8,17,19,24]}]	[]	[{TCA:[7,8,18,19,22,23,24]}]	[{AAA:[7,9,18,23]}]	{5':[(17-0_0)], ~5':[]}	9.0x}
+ACA	{[{CAC:[37]}]	[]	[]	[{CAC:[36,37]}]	{5':[], ~5':[]}	2.0x}
+GCA	{[{CAC:[2]}, {CAA:[5]}, {CAG:[10,11]}]	[{ATG:[1,6,14,15,16]}]	[{GCC:[10,11,12,15,16]}]	[{AGC:[5,6,7]}, {CAC:[1]}, {CGC:[1,2,6]}, {CAA:[6]}]	{5':[(14-0_0)], ~5':[]}	14.0x}
+AGA	{[]	[{ATC:[9,10,13,14,15]}, {CTC:[12,13,14]}]	[{CTC:[13,14]}]	[{CAG:[9,10,11,12,13]}]	{5':[], ~5':[]}	9.0x}
+GGA	{[]	[{CTC:[4,5]}]	[]	[{AGG:[3,4,5]}]	{5':[], ~5':[]}	3.0x}
+ATA	{[]	[{CTA:[25,26]}, {GTA:[20,21]}]	[]	[{AAT:[19,20,21,25,26,27]}]	{5':[], ~5':[(19-0_0),(27-0_0)]}	6.0x}
+GTA	{[{TAA:[26]}]	[{ATA:[20,21]}]	[{ACG:[20,21,22,27,28]}]	[{TAA:[27,28]}]	{5':[(26-0_0)], ~5':[(22-0_0)]}	6.0x}
+AAC	{[{ACT:[24,25]}, {ACG:[16,17]}, {ACC:[5]}]	[]	[]	[{ACT:[5]}, {ACG:[18]}, {ACC:[4]}, {CAA:[4,5,6]}, {AAA:[17,18,23,24,25]}]	{5':[(16-0_0)], ~5':[(23-0_0),(6-0_0)]}	10.0x}
+GAC	{[{ACG:[29]}]	[]	[{TCA:[28,29,30,31,32]}]	[{ACG:[28,31,32]}]	{5':[], ~5':[(30-0_0)]}	6.0x}
+ACC	{[{CCC:[5]}]	[]	[]	[{AAC:[4,5]}, {CCC:[3,4]}]	{5':[], ~5':[]}	3.0x}
+GCC	{[]	[]	[{GCA:[10,11,12,15,16]}]	[{CCG:[15,16,17]}, {CCA:[11,12]}]	{5':[], ~5':[(10-0_0)]}	6.0x}
+AGC	{[{GCA:[5,7]}]	[{CGC:[1,2,3,6,32,33,35,36]}]	[{CTA:[2,3]}]	[{GCA:[6]}, {AAG:[32,33,34,35,36]}, {CAG:[6,7]}]	{5':[(6-0_0),(5-0_0)], ~5':[(34-0_0),(3-0_0)]}	14.0x}
+ATC	{[]	[{AGA:[9,10,13,14,15]}]	[{ATG:[14,15]}]	[{AAT:[8,9,10]}]	{5':[(13-0_0)], ~5':[]}	6.0x}
+AAG	{[{AGC:[32,34,36]}]	[]	[]	[{TAA:[33,34,35]}, {AGC:[33,34,35]}]	{5':[(32-0_0),(36-0_0)], ~5':[]}	6.0x}
+ACG	{[{CGC:[37]}]	[{CCG:[16,17]}, {ACG:[21,22,27,28,29]}]	[{GTA:[20,21,22,27,28]}]	[{GAC:[28,29,31,32]}, {CAC:[21,22,23,36,37]}, {CGC:[31,32,36]}, {AAC:[16,17,18]}]	{5':[], ~5':[(18-0_0)]}	19.0x}
+AGG	{[{GGA:[3,4,5]}]	[{CCC:[3,4]}]	[{CTA:[3,4]}, {CTC:[2,4]}]	[]	{5':[(5-0_0)], ~5':[(2-0_0)]}	6.0x}
+ATG	{[]	[{TCA:[29,30,31]}, {GCA:[1,6,14,15,16]}]	[{ATC:[14,15]}, {ATG:[29,30,31]}]	[{AAT:[1,6]}]	{5':[], ~5':[(29-0_0)]}	11.0x}
+AAT	{[{ATG:[1]}, {ATC:[8]}, {ATA:[20,21,26]}]	[]	[]	[{TAA:[26,27]}, {ATG:[6]}, {ATC:[9,10]}, {CAA:[19,20]}, {AAA:[8,9]}, {ATA:[19,25,27]}]	{5':[(21-0_0),(1-0_0)], ~5':[]}	11.0x}
+ACT	{[{CTA:[24,25]}]	[]	[]	[{CAC:[1]}, {AAC:[5,24,25]}, {CTA:[1,26]}, {CTC:[4,5]}]	{5':[], ~5':[]}	6.0x}
diff --git a/genomix/genomix-pregelix/src/test/java/edu/uci/ics/genomix/pregelix/JobRun/PathMergeTestSuite.java b/genomix/genomix-pregelix/src/test/java/edu/uci/ics/genomix/pregelix/JobRun/PathMergeTestSuite.java
index a5ac42b..4d9bfc5 100644
--- a/genomix/genomix-pregelix/src/test/java/edu/uci/ics/genomix/pregelix/JobRun/PathMergeTestSuite.java
+++ b/genomix/genomix-pregelix/src/test/java/edu/uci/ics/genomix/pregelix/JobRun/PathMergeTestSuite.java
@@ -18,11 +18,14 @@
 //                "RingPath", "CyclePath",
 //                "SimpleTreePath", "ComplexTreePath", "HyracksGraphBuild"
 //                };
-        String PreFix = "BubbleMerge_Input"; 
+//        String PreFix = "BubbleMerge_Input"; 
+//        String testSet[] = { PreFix + File.separator
+//            + "SimpleRectangle", PreFix + File.separator
+//            + "MediumRectangle", PreFix + File.separator
+//            + "ComplexRectangle"};
+        String PreFix = "SmallRandom"; 
         String testSet[] = { PreFix + File.separator
-            + "SimpleRectangle", PreFix + File.separator
-            + "MediumRectangle", PreFix + File.separator
-            + "ComplexRectangle"};
+            + "synthetic1"};
 //        , PreFix + File.separator
 //            + "LtoL", PreFix + File.separator
 //            + "LtoR", PreFix + File.separator