merge from zheilbron/hyracks_msr
diff --git a/pregelix/pregelix-dist/src/main/assembly/binary-assembly.xml b/pregelix/pregelix-dist/src/main/assembly/binary-assembly.xml
index ab46338..a0fc2ab 100644
--- a/pregelix/pregelix-dist/src/main/assembly/binary-assembly.xml
+++ b/pregelix/pregelix-dist/src/main/assembly/binary-assembly.xml
@@ -1,17 +1,12 @@
-<!--
- ! Copyright 2009-2013 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.
- !-->
+<!-- ! Copyright 2009-2013 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. ! -->
 <assembly>
 	<id>binary-assembly</id>
 	<formats>
@@ -31,25 +26,25 @@
 			<fileMode>0755</fileMode>
 		</fileSet>
 		<fileSet>
-                        <directory>../pregelix-core/target/appassembler/lib</directory>
-                        <outputDirectory>lib</outputDirectory>
-                         <includes>
-                                <include>*.jar</include>
-                        </includes>
-                        <fileMode>0755</fileMode>
-                </fileSet>
-		<fileSet>
-                        <directory>../pregelix-example/target</directory>
-                        <outputDirectory>examples</outputDirectory>
-                         <includes>
-        			<include>*with-dependencies.jar</include>
-      			</includes>
+			<directory>../pregelix-core/target/appassembler/lib</directory>
+			<outputDirectory>lib</outputDirectory>
+			<includes>
+				<include>*.jar</include>
+			</includes>
 			<fileMode>0755</fileMode>
-                </fileSet>
+		</fileSet>
 		<fileSet>
-                        <directory>../pregelix-example/data</directory>
-                        <outputDirectory>data</outputDirectory>
-                        <fileMode>0755</fileMode>
-                </fileSet>
+			<directory>../pregelix-example/target</directory>
+			<outputDirectory>examples</outputDirectory>
+			<includes>
+				<include>*with-dependencies.jar</include>
+			</includes>
+			<fileMode>0755</fileMode>
+		</fileSet>
+		<fileSet>
+			<directory>../pregelix-example/data</directory>
+			<outputDirectory>data</outputDirectory>
+			<fileMode>0755</fileMode>
+		</fileSet>
 	</fileSets>
 </assembly>
diff --git a/pregelix/pregelix-dist/src/main/resources/scripts/copylog.sh b/pregelix/pregelix-dist/src/main/resources/scripts/copylog.sh
new file mode 100644
index 0000000..7767b2d
--- /dev/null
+++ b/pregelix/pregelix-dist/src/main/resources/scripts/copylog.sh
@@ -0,0 +1,7 @@
+. conf/cluster.properties
+
+NODEID=`hostname | cut -d '.' -f 1`
+#echo $NODEID
+
+#echo "rsync ${NCLOGS_DIR}/${NODEID}.log ${1}:${2}"
+rsync ${NCLOGS_DIR}/${NODEID}.log ${1}:${2}
diff --git a/pregelix/pregelix-dist/src/main/resources/scripts/dumpAll.sh b/pregelix/pregelix-dist/src/main/resources/scripts/dumpAll.sh
new file mode 100644
index 0000000..e7d45e8
--- /dev/null
+++ b/pregelix/pregelix-dist/src/main/resources/scripts/dumpAll.sh
@@ -0,0 +1,12 @@
+. conf/cluster.properties
+PREGELIX_PATH=`pwd`
+LOG_PATH=$PREGELIX_PATH/logs/
+rm -rf $LOG_PATH
+mkdir $LOG_PATH
+ccname=`hostname`
+
+for i in `cat conf/slaves`
+do
+   ssh $i "cd ${PREGELIX_PATH}; bin/dumptrace.sh; bin/copylog.sh ${ccname} ${LOG_PATH}"
+done
+
diff --git a/pregelix/pregelix-dist/src/main/resources/scripts/dumptrace.sh b/pregelix/pregelix-dist/src/main/resources/scripts/dumptrace.sh
new file mode 100644
index 0000000..9fe55f0
--- /dev/null
+++ b/pregelix/pregelix-dist/src/main/resources/scripts/dumptrace.sh
@@ -0,0 +1,15 @@
+echo `hostname`
+#Kill process
+PID=`ps -ef|grep ${USER}|grep java|grep 'Dapp.name=pregelixnc'|awk '{print $2}'`
+
+if [ "$PID" == "" ]; then
+  PID=`ps -ef|grep ${USER}|grep java|grep 'hyracks'|awk '{print $2}'`
+fi
+
+if [ "$PID" == "" ]; then
+  USERID=`id | sed 's/^uid=//;s/(.*$//'`
+  PID=`ps -ef|grep ${USERID}|grep java|grep 'Dapp.name=pregelixnc'|awk '{print $2}'`
+fi
+
+echo $PID
+kill -QUIT $PID