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From "Josh Elser (JIRA)" <j...@apache.org>
Subject [jira] [Created] (ACCUMULO-4405) GC collection cycle stuck on waitForFlush RPC to Master
Date Mon, 15 Aug 2016 15:57:20 GMT
Josh Elser created ACCUMULO-4405:
------------------------------------

             Summary: GC collection cycle stuck on waitForFlush RPC to Master
                 Key: ACCUMULO-4405
                 URL: https://issues.apache.org/jira/browse/ACCUMULO-4405
             Project: Accumulo
          Issue Type: Bug
          Components: gc, master
            Reporter: Josh Elser
            Assignee: Josh Elser
             Fix For: 1.8.1


While testing out 1.8.0rc1, all of the TabletServers had crashed due to an OOME, I believe,
because I temporarily ran out of HDFS space because HDFS trash was enabled (trash could not
be cleaned up fast enough for Accumulo generating more trash). I came back to the system after
restarting the TabletServers and found that the GC had not run a new cycle after restarting
the TabletServers. In a jstack of the GC, I saw:

{noformat}
"gc" #13 prio=5 os_prio=0 tid=0x00000000021f3800 nid=0x4dd5 runnable [0x00007f6f1ebc0000]
   java.lang.Thread.State: RUNNABLE
        at java.net.SocketInputStream.socketRead0(Native Method)
        at java.net.SocketInputStream.socketRead(SocketInputStream.java:116)
        at java.net.SocketInputStream.read(SocketInputStream.java:170)
        at java.net.SocketInputStream.read(SocketInputStream.java:141)
        at java.io.BufferedInputStream.fill(BufferedInputStream.java:246)
        at java.io.BufferedInputStream.read1(BufferedInputStream.java:286)
        at java.io.BufferedInputStream.read(BufferedInputStream.java:345)
        - locked <0x00000000f5b4b750> (a java.io.BufferedInputStream)
        at org.apache.thrift.transport.TIOStreamTransport.read(TIOStreamTransport.java:127)
        at org.apache.thrift.transport.TTransport.readAll(TTransport.java:86)
        at org.apache.thrift.transport.TFramedTransport.readFrame(TFramedTransport.java:129)
        at org.apache.thrift.transport.TFramedTransport.read(TFramedTransport.java:101)
        at org.apache.thrift.transport.TTransport.readAll(TTransport.java:86)
        at org.apache.accumulo.core.client.impl.ThriftTransportPool$CachedTTransport.readAll(ThriftTransportPool.java:270)
        at org.apache.thrift.protocol.TCompactProtocol.readByte(TCompactProtocol.java:634)
        at org.apache.thrift.protocol.TCompactProtocol.readMessageBegin(TCompactProtocol.java:501)
        at org.apache.thrift.TServiceClient.receiveBase(TServiceClient.java:77)
        at org.apache.accumulo.core.master.thrift.MasterClientService$Client.recv_waitForFlush(MasterClientService.java:209)
        at org.apache.accumulo.core.master.thrift.MasterClientService$Client.waitForFlush(MasterClientService.java:190)
        at org.apache.accumulo.core.client.impl.TableOperationsImpl._flush(TableOperationsImpl.java:820)
        at org.apache.accumulo.core.client.impl.TableOperationsImpl.compact(TableOperationsImpl.java:758)
        at org.apache.accumulo.core.client.impl.TableOperationsImpl.compact(TableOperationsImpl.java:727)
        at org.apache.accumulo.core.client.impl.TableOperationsImpl.compact(TableOperationsImpl.java:721)
        at org.apache.accumulo.gc.SimpleGarbageCollector.run(SimpleGarbageCollector.java:592)
        at org.apache.accumulo.gc.SimpleGarbageCollector.main(SimpleGarbageCollector.java:160)
        at org.apache.accumulo.gc.GCExecutable.execute(GCExecutable.java:34)
        at org.apache.accumulo.start.Main$1.run(Main.java:120)
        at java.lang.Thread.run(Thread.java:745)

   Locked ownable synchronizers:
        - None
{noformat}

The Master was also stuck with an active thread/RPC:

{noformat}
"ClientPool 23257" #45412 daemon prio=5 os_prio=0 tid=0x00000000049cc000 nid=0x6401 waiting
on condition [0x00007f8462d94000]
   java.lang.Thread.State: TIMED_WAITING (sleeping)
        at java.lang.Thread.sleep(Native Method)
        at org.apache.accumulo.core.client.impl.ThriftScanner.pause(ThriftScanner.java:211)
        at org.apache.accumulo.core.client.impl.ThriftScanner.scan(ThriftScanner.java:259)
        at org.apache.accumulo.core.client.impl.ScannerIterator$Reader.run(ScannerIterator.java:79)
        at org.apache.accumulo.core.client.impl.ScannerIterator.hasNext(ScannerIterator.java:150)
        at org.apache.accumulo.core.client.IsolatedScanner$RowBufferingIterator.readRow(IsolatedScanner.java:70)
        at org.apache.accumulo.core.client.IsolatedScanner$RowBufferingIterator.<init>(IsolatedScanner.java:149)
        at org.apache.accumulo.core.client.IsolatedScanner.iterator(IsolatedScanner.java:238)
        at org.apache.accumulo.core.client.RowIterator.<init>(RowIterator.java:117)
        at org.apache.accumulo.master.MasterClientServiceHandler.waitForFlush(MasterClientServiceHandler.java:188)
        at sun.reflect.GeneratedMethodAccessor8.invoke(Unknown Source)
        at sun.reflect.DelegatingMethodAccessorImpl.invoke(DelegatingMethodAccessorImpl.java:43)
        at java.lang.reflect.Method.invoke(Method.java:497)
        at org.apache.accumulo.core.trace.wrappers.RpcServerInvocationHandler.invoke(RpcServerInvocationHandler.java:46)
        at org.apache.accumulo.server.rpc.RpcWrapper$1.invoke(RpcWrapper.java:74)
        at com.sun.proxy.$Proxy18.waitForFlush(Unknown Source)
        at org.apache.accumulo.core.master.thrift.MasterClientService$Processor$waitForFlush.getResult(MasterClientService.java:1436)
        at org.apache.accumulo.core.master.thrift.MasterClientService$Processor$waitForFlush.getResult(MasterClientService.java:1420)
        at org.apache.thrift.ProcessFunction.process(ProcessFunction.java:39)
        at org.apache.thrift.TBaseProcessor.process(TBaseProcessor.java:39)
        at org.apache.accumulo.server.rpc.TimedProcessor.process(TimedProcessor.java:63)
        at org.apache.thrift.server.AbstractNonblockingServer$FrameBuffer.invoke(AbstractNonblockingServer.java:518)
        at org.apache.accumulo.server.rpc.CustomNonBlockingServer$CustomFrameBuffer.invoke(CustomNonBlockingServer.java:106)
        at org.apache.thrift.server.Invocation.run(Invocation.java:18)
        at java.util.concurrent.ThreadPoolExecutor.runWorker(ThreadPoolExecutor.java:1142)
        at java.util.concurrent.ThreadPoolExecutor$Worker.run(ThreadPoolExecutor.java:617)
        at org.apache.accumulo.fate.util.LoggingRunnable.run(LoggingRunnable.java:35)
        at java.lang.Thread.run(Thread.java:745)

   Locked ownable synchronizers:
        - <0x00000006caeb94d8> (a java.util.concurrent.ThreadPoolExecutor$Worker)
{noformat}

It would appear that in the {{waitForFlush}} implementation in MasterClientServiceHandler,
we construct a scanner (with the default timeout) and wrap an IsolatedScanner around that.
We do not set the timeout on the scanner which ends up using a default value of {{Long.MAX_VALUE}}
(essentially, never time out).

The problem is that in ThriftScanner, the backoff policy for retrying the failed RPC's starts
at 100ms and then, for each subsequent retry loop, doubles the previous value (+/- 10%). In
the face of a prolonged inability to scan a Tablet, the value we sleep grows: 100, ~200, ~400,
~800, ~1600ms, etc.

Because the scan will not time out until Long.MAX_VALUE, we've essentially create an RPC which
never times out. We should apply an upper-limit, on the order of seconds, to the maximum amount
of time that ThriftScanner will sleep before retrying (without needing to change the overall
timeout property)



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