diff --git a/eclipse-plugins/edu.wpi.first.wpilib.plugins.cpp/src/main/resources/cpp-zip/ant/build.xml b/eclipse-plugins/edu.wpi.first.wpilib.plugins.cpp/src/main/resources/cpp-zip/ant/build.xml
index 3627d1784b..3a3248fdb6 100644
--- a/eclipse-plugins/edu.wpi.first.wpilib.plugins.cpp/src/main/resources/cpp-zip/ant/build.xml
+++ b/eclipse-plugins/edu.wpi.first.wpilib.plugins.cpp/src/main/resources/cpp-zip/ant/build.xml
@@ -109,7 +109,7 @@ ${md5.hal} usr/local/frc/lib/libHALAthena.so</echo>
 				</tarfileset>
 			</tar>
 			<gzip destfile="${wpilib.ant.dir}/control.tar.gz" src="${wpilib.ant.dir}/control.tar"/>
-			<exec command="~\wpilib\toolchains\arm-none-linux-gnueabi-4.4.1\bin\arm-none-linux-gnueabi-ar -r ${opkg.name}_${cpp-sos}_${opkg.arch}.deb debian-binary control.tar.gz data.tar.gz" dir="${wpilib.ant.dir}"/>
+			<exec command="${wpilib.ant.dir}\..\..\..\toolchains\arm-none-linux-gnueabi-4.4.1\bin\arm-none-linux-gnueabi-ar -r ${opkg.name}_${cpp-sos}_${opkg.arch}.deb debian-binary control.tar.gz data.tar.gz" dir="${wpilib.ant.dir}"/>
 		    <scp file="${wpilib.ant.dir}/${opkg.name}_${cpp-sos}_${opkg.arch}.deb" todir="${username}@${target}:/tmp"
 				 password="${password}" trust="true"/>
 			<sshexec host="${target}"
@@ -121,8 +121,6 @@ ${md5.hal} usr/local/frc/lib/libHALAthena.so</echo>
 	</if>
     <scp file="${wpilib.ant.dir}/runcppprogram" todir="${username}@${target}:${deploy.dir}"
 	 password="${password}" trust="true"/>
-    <scp file="${wpilib.ant.dir}/runjavaprogram" todir="${username}@${target}:${deploy.dir}"
-	 password="${password}" trust="true"/>
     <echo>[athena-deploy] Starting program.</echo>
     <sshexec host="${target}"
 	     username="${username}"
diff --git a/eclipse-plugins/edu.wpi.first.wpilib.plugins.java/src/main/resources/java-zip/ant/build.xml b/eclipse-plugins/edu.wpi.first.wpilib.plugins.java/src/main/resources/java-zip/ant/build.xml
index 3579f8352d..610292a260 100644
--- a/eclipse-plugins/edu.wpi.first.wpilib.plugins.java/src/main/resources/java-zip/ant/build.xml
+++ b/eclipse-plugins/edu.wpi.first.wpilib.plugins.java/src/main/resources/java-zip/ant/build.xml
@@ -71,12 +71,14 @@
     <echo>[athena-deploy] Copying code over.</echo>
     <scp file="${dist.jar}" todir="${username}@${target}:${deploy.dir}"
 	 password="${password}" trust="true"/>
+    <scp file="${wpilib.ant.dir}/runjavaprogram" todir="${username}@${target}:${deploy.dir}"
+   password="${password}" trust="true"/>
     <echo>[athena-deploy] Starting program.</echo>
     <sshexec host="${target}"
-	     username="${username}"
-	     password="${password}"
-	     trust="true"
-	     command="${deploy.run.command}"/>
+       username="${username}"
+       password="${password}"
+       trust="true"
+       command="chmod a+x run*program; ${deploy.run.command}"/>
   </target>
 
   <target name="debug-deploy" depends="get-target-ip,jar" description="Deploy the jar and start the program running in debug mode.">
diff --git a/eclipse-plugins/edu.wpi.first.wpilib.plugins.java/src/main/resources/java-zip/ant/runjavaprogram b/eclipse-plugins/edu.wpi.first.wpilib.plugins.java/src/main/resources/java-zip/ant/runjavaprogram
new file mode 100644
index 0000000000..272b38cd18
--- /dev/null
+++ b/eclipse-plugins/edu.wpi.first.wpilib.plugins.java/src/main/resources/java-zip/ant/runjavaprogram
@@ -0,0 +1,6 @@
+#. ./.profile
+killall java
+killall FRCUserProgram
+sleep 1
+nohup /usr/local/frc/JRE/bin/java -jar FRCUserProgram.jar
+#nohup /usr/local/frc/JRE/bin/java -Djna.library.path=$LD_LIBRARY_PATH -Xmx32M -jar FRCUserProgram.jar