Have you checked your algorithm with small input? I'm not sure that is a memory issue.
On Thu, Jan 24, 2013 at 7:53 PM, Francisco Sanches <[email protected]> wrote: > Hi thanks for the reply, > > My input is a graph of 35 000 vertices, but my application uses a > vector of 65537 to store the distance. Each node has a vector with the > number of positions (All-pair). > > 2013/1/24 Edward J. Yoon <[email protected]>: >> Hi, >> >> How large your input data is? >> >> On Tue, Jan 22, 2013 at 11:21 PM, Francisco Sanches >> <[email protected]> wrote: >>> Hi, >>> >>> When I try to run a larger graph in the application that I developed >>> here first get this message: >>> >>> hduser@node28:/usr/local/hama-trunk$ time bin/hama jar aplic19jan.jar >>> 65537 /hdfs/disco/dados/internet_a /hdfs/disco/outinternet_a 42 30 >>> 13/01/22 10:59:14 INFO bsp.FileInputFormat: Total input paths to process : 1 >>> 13/01/22 10:59:14 INFO bsp.FileInputFormat: Total input paths to process : 1 >>> 13/01/22 10:59:17 INFO bsp.BSPJobClient: Running job: job_201301221058_0002 >>> 13/01/22 10:59:20 INFO bsp.BSPJobClient: Current supersteps number: 0 >>> 13/01/22 10:59:32 INFO bsp.BSPJobClient: Current supersteps number: 1 >>> 13/01/22 10:59:32 INFO bsp.BSPJobClient: The total number of supersteps: 1 >>> 13/01/22 10:59:32 INFO bsp.BSPJobClient: Counters: 6 >>> 13/01/22 10:59:32 INFO bsp.BSPJobClient: >>> org.apache.hama.bsp.JobInProgress$JobCounter >>> 13/01/22 10:59:32 INFO bsp.BSPJobClient: SUPERSTEPS=1 >>> 13/01/22 10:59:32 INFO bsp.BSPJobClient: LAUNCHED_TASKS=1 >>> 13/01/22 10:59:32 INFO bsp.BSPJobClient: >>> org.apache.hama.bsp.BSPPeerImpl$PeerCounter >>> 13/01/22 10:59:32 INFO bsp.BSPJobClient: SUPERSTEP_SUM=1 >>> 13/01/22 10:59:32 INFO bsp.BSPJobClient: TIME_IN_SYNC_MS=70 >>> 13/01/22 10:59:32 INFO bsp.BSPJobClient: IO_BYTES_READ=3467587 >>> 13/01/22 10:59:32 INFO bsp.BSPJobClient: TASK_INPUT_RECORDS=42089 >>> 13/01/22 10:59:32 INFO bsp.FileInputFormat: Total input paths to process : >>> 42 >>> 13/01/22 10:59:35 INFO bsp.BSPJobClient: Running job: job_201301221058_0001 >>> 13/01/22 10:59:38 INFO bsp.BSPJobClient: Current supersteps number: 0 >>> 13/01/22 11:00:38 INFO bsp.BSPJobClient: Current supersteps number: 1 >>> attempt_201301221058_0001_000001_0: SLF4J: Class path contains >>> multiple SLF4J bindings. >>> attempt_201301221058_0001_000001_0: SLF4J: Found binding in >>> [jar:file:/usr/local/hama-trunk/lib/slf4j-log4j12-1.5.8.jar!/org/slf4j/impl/StaticLoggerBinder.class] >>> attempt_201301221058_0001_000001_0: SLF4J: Found binding in >>> [file:/tmp/hama-hduser/bsp/local/groomServer/attempt_201301221058_0001_000001_0/work/org/slf4j/impl/StaticLoggerBinder.class] >>> attempt_201301221058_0001_000001_0: SLF4J: See >>> http://www.slf4j.org/codes.html#multiple_bindings for an explanation. >>> attempt_201301221058_0001_000001_0: 13/01/22 11:00:14 INFO >>> sync.ZKSyncClient: Initializing ZK Sync Client >>> attempt_201301221058_0001_000001_0: 13/01/22 11:00:14 INFO >>> sync.ZooKeeperSyncClientImpl: Start connecting to Zookeeper! At >>> node30/10.16.2.30:61003 >>> attempt_201301221058_0001_000001_0: 13/01/22 11:00:16 INFO ipc.Server: >>> Starting SocketReader >>> attempt_201301221058_0001_000001_0: 13/01/22 11:00:16 INFO ipc.Server: >>> IPC Server Responder: starting >>> attempt_201301221058_0001_000001_0: 13/01/22 11:00:16 INFO ipc.Server: >>> IPC Server listener on 61003: starting >>> attempt_201301221058_0001_000001_0: 13/01/22 11:00:16 INFO >>> message.HadoopMessageManagerImpl: BSPPeer address:node30 port:61003 >>> attempt_201301221058_0001_000001_0: 13/01/22 11:00:16 INFO ipc.Server: >>> IPC Server handler 0 on 61003: starting >>> attempt_201301221058_0001_000001_0: 13/01/22 11:00:34 INFO >>> graph.GraphJobRunner: Loading finished at 1 steps. >>> 13/01/22 11:04:46 INFO bsp.BSPJobClient: Job failed. >>> >>> real 5m34.523s >>> user 0m4.832s >>> sys 0m0.960s >>> >>> Analyzing logs the one that fails has this log: >>> >>> /************************************************************ >>> STARTUP_MSG: Starting GroomServer >>> STARTUP_MSG: host = node30/10.16.2.30 >>> STARTUP_MSG: args = [node30] >>> STARTUP_MSG: version = 1.0.0 >>> STARTUP_MSG: build = >>> https://svn.apache.org/repos/asf/hadoop/common/branches/branch-1.0 -r >>> 1214675; compiled by 'hortonfo' on Fri Dec 16 20:01:27 UTC 2011 >>> ************************************************************/ >>> 2013-01-22 10:58:51,118 INFO org.apache.hama.bsp.GroomServer: groom start >>> 2013-01-22 10:58:51,420 INFO org.apache.hama.bsp.GroomServer: >>> /tmp/hama-hduser/bsp/local >>> 2013-01-22 10:58:55,417 INFO org.apache.hadoop.ipc.Server: Starting >>> SocketReader >>> 2013-01-22 10:58:55,452 INFO org.apache.hadoop.ipc.Server: IPC Server >>> listener on 50000: starting >>> 2013-01-22 10:58:55,452 INFO org.apache.hadoop.ipc.Server: IPC Server >>> Responder: starting >>> 2013-01-22 10:58:55,455 INFO org.apache.hama.bsp.GroomServer: Worker >>> rpc server --> node30:50000 >>> 2013-01-22 10:58:55,455 INFO org.apache.hadoop.ipc.Server: IPC Server >>> handler 0 on 50000: starting >>> 2013-01-22 10:58:55,560 INFO org.mortbay.log: Logging to >>> org.slf4j.impl.Log4jLoggerAdapter(org.mortbay.log) via >>> org.mortbay.log.Slf4jLog >>> 2013-01-22 10:58:55,645 INFO org.apache.hama.bsp.GroomServer: starting >>> webserver: node30 >>> 2013-01-22 10:58:55,645 INFO org.apache.hama.http.HttpServer: Port >>> returned by webServer.getConnectors()[0].getLocalPort() before open() >>> is -1. Opening the listener on 40015 >>> 2013-01-22 10:58:55,646 INFO org.apache.hama.http.HttpServer: >>> listener.getLocalPort() returned 40015 >>> webServer.getConnectors()[0].getLocalPort() returned 40015 >>> 2013-01-22 10:58:55,646 INFO org.apache.hama.http.HttpServer: Jetty >>> bound to port 40015 >>> 2013-01-22 10:58:55,646 INFO org.mortbay.log: jetty-6.1.14 >>> 2013-01-22 10:58:56,252 INFO org.mortbay.log: Started >>> SelectChannelConnector@node30:40015 >>> 2013-01-22 10:59:01,574 INFO org.apache.hadoop.ipc.Server: Starting >>> SocketReader >>> 2013-01-22 10:59:01,576 INFO org.apache.hadoop.ipc.Server: IPC Server >>> Responder: starting >>> 2013-01-22 10:59:01,576 INFO org.apache.hadoop.ipc.Server: IPC Server >>> listener on 59102: starting >>> 2013-01-22 10:59:01,576 INFO org.apache.hadoop.ipc.Server: IPC Server >>> handler 0 on 59102: starting >>> 2013-01-22 10:59:01,580 INFO org.apache.hadoop.ipc.Server: IPC Server >>> handler 1 on 59102: starting >>> 2013-01-22 10:59:01,577 INFO org.apache.hadoop.ipc.Server: IPC Server >>> handler 2 on 59102: starting >>> 2013-01-22 10:59:01,584 INFO org.apache.hadoop.ipc.Server: IPC Server >>> handler 4 on 59102: starting >>> 2013-01-22 10:59:01,583 INFO org.apache.hadoop.ipc.Server: IPC Server >>> handler 3 on 59102: starting >>> 2013-01-22 10:59:01,584 INFO org.apache.hadoop.ipc.Server: IPC Server >>> handler 5 on 59102: starting >>> 2013-01-22 10:59:01,584 INFO org.apache.hadoop.ipc.Server: IPC Server >>> handler 6 on 59102: starting >>> 2013-01-22 10:59:01,585 INFO org.apache.hadoop.ipc.Server: IPC Server >>> handler 7 on 59102: starting >>> 2013-01-22 10:59:01,585 INFO org.apache.hadoop.ipc.Server: IPC Server >>> handler 8 on 59102: starting >>> 2013-01-22 10:59:01,585 INFO org.apache.hadoop.ipc.Server: IPC Server >>> handler 9 on 59102: starting >>> 2013-01-22 10:59:06,899 INFO org.apache.hama.bsp.GroomServer: >>> GroomServer up at: 127.0.0.1/127.0.0.1:59102 >>> 2013-01-22 10:59:06,900 INFO org.apache.hama.bsp.GroomServer: Starting >>> groom: node30:50000 >>> 2013-01-22 10:59:18,083 INFO org.apache.hama.bsp.GroomServer: Launch 1 >>> tasks. >>> 2013-01-22 10:59:18,283 WARN org.apache.hadoop.util.NativeCodeLoader: >>> Unable to load native-hadoop library for your platform... using >>> builtin-java classes where applicable >>> 2013-01-22 10:59:23,057 INFO org.apache.hama.bsp.GroomServer: Task >>> 'attempt_201301221058_0002_000000_0' has started. >>> 2013-01-22 10:59:31,403 INFO org.apache.hama.bsp.GroomServer: Task >>> attempt_201301221058_0002_000000_0 is done. >>> 2013-01-22 10:59:35,757 INFO org.apache.hama.bsp.GroomServer: Launch 3 >>> tasks. >>> 2013-01-22 10:59:56,486 INFO org.apache.hama.bsp.GroomServer: Task >>> 'attempt_201301221058_0001_000000_0' has started. >>> 2013-01-22 10:59:56,487 INFO org.apache.hama.bsp.GroomServer: Launch 3 >>> tasks. >>> 2013-01-22 11:00:06,973 INFO org.apache.hama.bsp.GroomServer: Task >>> 'attempt_201301221058_0001_000002_0' has started. >>> 2013-01-22 11:00:06,974 INFO org.apache.hama.bsp.GroomServer: Launch 3 >>> tasks. >>> 2013-01-22 11:00:12,927 INFO org.apache.hama.bsp.GroomServer: Task >>> 'attempt_201301221058_0001_000001_0' has started. >>> 2013-01-22 11:03:50,330 ERROR org.apache.hama.bsp.TaskRunner: Error >>> when executing BSPPeer process. >>> java.io.IOException: BSP task process exit with nonzero status of 137. >>> command = [/usr/lib/jvm/jdk1.7.0_11/jre/bin/java, -Xmx6144m, >>> -classpath, >>> /usr/local/hama-trunk/bin/../conf:/usr/lib/jvm/java-7-oracle//lib/tools.jar:/usr/local/hama-trunk/bin/../core/target/classes:/usr/local/hama-trunk/bin/../hama-**.jar:/usr/local/hama-trunk/bin/../lib/ant-1.7.1.jar:/usr/local/hama-trunk/bin/../lib/ant-launcher-1.7.1.jar:/usr/local/hama-trunk/bin/../lib/avro-1.6.0.jar:/usr/local/hama-trunk/bin/../lib/avro-ipc-1.6.0.jar:/usr/local/hama-trunk/bin/../lib/commons-cli-1.2.jar:/usr/local/hama-trunk/bin/../lib/commons-configuration-1.7.jar:/usr/local/hama-trunk/bin/../lib/commons-httpclient-3.0.1.jar:/usr/local/hama-trunk/bin/../lib/commons-lang-2.6.jar:/usr/local/hama-trunk/bin/../lib/commons-logging-1.1.1.jar:/usr/local/hama-trunk/bin/../lib/commons-math3-3.0.jar:/usr/local/hama-trunk/bin/../lib/guava-10.0.1.jar:/usr/local/hama-trunk/bin/../lib/hadoop-core-1.0.0.jar:/usr/local/hama-trunk/bin/../lib/hadoop-test-1.0.0.jar:/usr/local/hama-trunk/bin/../lib/jackson-core-asl-1.9.2.jar:/usr/local/hama-trunk/bin/../lib/jackson-mapper-asl-1.9.2.jar:/usr/local/hama-trunk/bin/../lib/jetty-6.1.14.jar:/usr/local/hama-trunk/bin/../lib/jetty-annotations-6.1.14.jar:/usr/local/hama-trunk/bin/../lib/jetty-util-6.1.14.jar:/usr/local/hama-trunk/bin/../lib/jsp-2.1-6.1.14.jar:/usr/local/hama-trunk/bin/../lib/jsp-api-2.1-6.1.14.jar:/usr/local/hama-trunk/bin/../lib/junit-4.8.1.jar:/usr/local/hama-trunk/bin/../lib/log4j-1.2.16.jar:/usr/local/hama-trunk/bin/../lib/netty-3.2.6.Final.jar:/usr/local/hama-trunk/bin/../lib/servlet-api-6.0.32.jar:/usr/local/hama-trunk/bin/../lib/slf4j-api-1.5.8.jar:/usr/local/hama-trunk/bin/../lib/slf4j-log4j12-1.5.8.jar:/usr/local/hama-trunk/bin/../lib/snappy-java-1.0.4.1.jar:/usr/local/hama-trunk/bin/../lib/zookeeper-3.4.5.jar::/tmp/hama-hduser/bsp/local/groomServer/attempt_201301221058_0001_000001_0/work/classes:/tmp/hama-hduser/bsp/local/groomServer/attempt_201301221058_0001_000001_0/work, >>> org.apache.hama.bsp.GroomServer$BSPPeerChild, 127.0.0.1, 59102, >>> attempt_201301221058_0001_000001_0, node30, -1, RUNNING] >>> at >>> org.apache.hama.bsp.TaskRunner$BspChildRunner.call(TaskRunner.java:126) >>> at >>> java.util.concurrent.FutureTask$Sync.innerRun(FutureTask.java:334) >>> at java.util.concurrent.FutureTask.run(FutureTask.java:166) >>> at >>> java.util.concurrent.ScheduledThreadPoolExecutor$ScheduledFutureTask.access$201(ScheduledThreadPoolExecutor.java:178) >>> at >>> java.util.concurrent.ScheduledThreadPoolExecutor$ScheduledFutureTask.run(ScheduledThreadPoolExecutor.java:292) >>> at >>> java.util.concurrent.ThreadPoolExecutor.runWorker(ThreadPoolExecutor.java:1110) >>> at >>> java.util.concurrent.ThreadPoolExecutor$Worker.run(ThreadPoolExecutor.java:603) >>> at java.lang.Thread.run(Thread.java:722) >>> 2013-01-22 11:04:39,789 INFO org.apache.hama.bsp.GroomServer: adding >>> purge task: attempt_201301221058_0001_000001_0 >>> 2013-01-22 11:04:39,884 INFO org.apache.hama.bsp.GroomServer: About to >>> purge task: attempt_201301221058_0001_000001_0 >>> 2013-01-22 11:04:41,170 INFO org.apache.hama.bsp.GroomServer: Kill 1 tasks. >>> 2013-01-22 11:04:41,219 INFO org.apache.hama.bsp.GroomServer: Kill 1 tasks. >>> 2013-01-22 11:04:41,589 INFO org.apache.hama.bsp.GroomServer: Kill 1 tasks. >>> >>> >>> What can it be? Some configuration? To not get the message of Java >>> Heap Space configured: >>> >>> <name> bsp.child.java.opts </ name> >>> <value>-Xmx6144m </ value> >>> >>> I have only 4 GB of memory in each Groomserver, can it be that? I am >>> using the trunk version of Hama. >>> >>> -- >>> Francisco Sanches >> >> >> >> -- >> Best Regards, Edward J. Yoon >> @eddieyoon > > > > -- > Francisco Sanches -- Best Regards, Edward J. Yoon @eddieyoon
