[ACCUMULO-3343] EOFException when source switching iterator fires

• Type: Bug
• Status: Resolved
• Priority: Major
• Resolution: Auto Closed
• Affects Version/s: 1.5.2, 1.6.1
• Component/s: tserver

Environment

1.6.0 with the patch for ACCUMULO-1628 applied to it

• Assignee: Unassigned
• Reporter: John Vines
• Created: 19/Nov/14 17:12
• Updated: 27/Aug/19 23:22
• Resolved: 27/Aug/19 23:22

Description

On a high ingest/query cluster (between 10-20 nodes) I see the following -

2014-11-14 22:08:12,745 [tserver.InMemoryMap] ERROR: Failed to create mem dump file
java.io.EOFException
        at java.io.DataInputStream.readByte(DataInputStream.java:267)
        at org.apache.accumulo.core.file.rfile.RelativeKey.fastSkip(RelativeKey.java:314)
        at org.apache.accumulo.core.file.rfile.RFile$LocalityGroupReader._seek(RFile.java:748)
        at org.apache.accumulo.core.file.rfile.RFile$LocalityGroupReader.seek(RFile.java:607)
        at org.apache.accumulo.core.iterators.system.LocalityGroupIterator.seek(LocalityGroupIterator.java:142)
        at org.apache.accumulo.core.file.rfile.RFile$Reader.seek(RFile.java:979)
        at org.apache.accumulo.core.iterators.WrappingIterator.seek(WrappingIterator.java:101)
        at org.apache.accumulo.tserver.MemKeyConversionIterator.seek(InMemoryMap.java:168)
        at org.apache.accumulo.core.iterators.system.SourceSwitchingIterator._switchNow(SourceSwitchingIterator.java:171)
        at org.apache.accumulo.core.iterators.system.SourceSwitchingIterator.switchNow(SourceSwitchingIterator.java:179)
        at org.apache.accumulo.tserver.InMemoryMap$MemoryIterator.switchNow(InMemoryMap.java:647)
        at org.apache.accumulo.tserver.InMemoryMap$MemoryIterator.access$900(InMemoryMap.java:601)
        at org.apache.accumulo.tserver.InMemoryMap.delete(InMemoryMap.java:746)
        at org.apache.accumulo.tserver.Tablet$TabletMemory.finalizeMinC(Tablet.java:327)
        at org.apache.accumulo.tserver.Tablet.minorCompact(Tablet.java:2068)
        at org.apache.accumulo.tserver.Tablet.access$4300(Tablet.java:170)
        at org.apache.accumulo.tserver.Tablet$MinorCompactionTask.run(Tablet.java:2134)
        at org.apache.accumulo.core.util.LoggingRunnable.run(LoggingRunnable.java:34)
        at org.apache.accumulo.trace.instrument.TraceRunnable.run(TraceRunnable.java:47)
        at java.util.concurrent.ThreadPoolExecutor.runWorker(ThreadPoolExecutor.java:1145)
        at java.util.concurrent.ThreadPoolExecutor$Worker.run(ThreadPoolExecutor.java:615)
        at org.apache.accumulo.trace.instrument.TraceRunnable.run(TraceRunnable.java:47)
        at org.apache.accumulo.core.util.LoggingRunnable.run(LoggingRunnable.java:34)
        at java.lang.Thread.run(Thread.java:744)

After this happens, I also see iterators failing-

 ERROR: exception when running query
java.io.EOFException
        at java.io.DataInputStream.readByte(DataInputStream.java:267)
        at org.apache.accumulo.core.file.rfile.RelativeKey.fastSkip(RelativeKey.java:314)
        at org.apache.accumulo.core.file.rfile.RFile$LocalityGroupReader._seek(RFile.java:748)
        at org.apache.accumulo.core.file.rfile.RFile$LocalityGroupReader.seek(RFile.java:607)
        at org.apache.accumulo.core.iterators.system.LocalityGroupIterator.seek(LocalityGroupIterator.java:142)
        at org.apache.accumulo.core.file.rfile.RFile$Reader.seek(RFile.java:979)
        at org.apache.accumulo.core.iterators.WrappingIterator.seek(WrappingIterator.java:101)
        at org.apache.accumulo.tserver.MemKeyConversionIterator.seek(InMemoryMap.java:168)
        at org.apache.accumulo.core.iterators.system.SourceSwitchingIterator.readNext(SourceSwitchingIterator.java:116)
        at org.apache.accumulo.core.iterators.system.SourceSwitchingIterator.seek(SourceSwitchingIterator.java:162)
        at org.apache.accumulo.core.iterators.WrappingIterator.seek(WrappingIterator.java:101)
        at org.apache.accumulo.core.iterators.SkippingIterator.seek(SkippingIterator.java:37)
        at org.apache.accumulo.core.iterators.WrappingIterator.seek(WrappingIterator.java:101)
        at org.apache.accumulo.core.iterators.system.MultiIterator.seek(MultiIterator.java:105)
        at org.apache.accumulo.core.iterators.WrappingIterator.seek(WrappingIterator.java:101)
        at org.apache.accumulo.core.iterators.system.StatsIterator.seek(StatsIterator.java:64)
        at org.apache.accumulo.core.iterators.WrappingIterator.seek(WrappingIterator.java:101)
        at org.apache.accumulo.core.iterators.system.DeletingIterator.seek(DeletingIterator.java:67)
        at org.apache.accumulo.core.iterators.WrappingIterator.seek(WrappingIterator.java:101)
        at org.apache.accumulo.core.iterators.SkippingIterator.seek(SkippingIterator.java:37)
        at org.apache.accumulo.core.iterators.system.ColumnFamilySkippingIterator.seek(ColumnFamilySkippingIterator.java:123)
        at org.apache.accumulo.core.iterators.WrappingIterator.seek(WrappingIterator.java:101)
        at org.apache.accumulo.core.iterators.Filter.seek(Filter.java:64)
        at org.apache.accumulo.core.iterators.WrappingIterator.seek(WrappingIterator.java:101)
        at org.apache.accumulo.core.iterators.Filter.seek(Filter.java:64)
        at org.apache.accumulo.core.iterators.system.SynchronizedIterator.seek(SynchronizedIterator.java:55)

Still waiting on logs related, but when the system gets into this state, all tservers are throwing errors like this (our query pattern uses a lot of batchscanners), but also we see the gc take extremely long times to run, throwing

[impl.ThriftScanner] DEBUG: Scan failed, thrift error org.apache.thrift.transport.TTransportException  java.net.SocketTimeoutException: 120000 millis timeout while waiting for channel to be ready for read. ch : java.nio.channels.SocketChannel[connected...

but I think that is unrelated

Issue Links

• relates to: ACCUMULO-1628 NPE on deep copied dumped memory iterator
• relates to: ACCUMULO-2247 random walk fails when server gets EOFException