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From "Josh Elser (JIRA)" <j...@apache.org>
Subject [jira] [Commented] (ACCUMULO-3783) Unexpected Filesystem Closed exceptions
Date Thu, 25 Jun 2015 19:22:04 GMT

    [ https://issues.apache.org/jira/browse/ACCUMULO-3783?page=com.atlassian.jira.plugin.system.issuetabpanels:comment-tabpanel&focusedCommentId=14601778#comment-14601778
] 

Josh Elser commented on ACCUMULO-3783:
--------------------------------------

Wow, this is actually really obnoxious.

The code avoids the problem of informing all other threads of the classloader to use by assuming
that all other threads will have the same underlying FileSystem, Configuration and ClassLoader
(from the Configuration). So, the assumption that we can give the VFS classes their own FileSystem
instance would result in the FileSystem objects in use over the rest of the codebase wouldn't
see the VFS classloader.

> Unexpected Filesystem Closed exceptions
> ---------------------------------------
>
>                 Key: ACCUMULO-3783
>                 URL: https://issues.apache.org/jira/browse/ACCUMULO-3783
>             Project: Accumulo
>          Issue Type: Bug
>          Components: master, start, tserver
>    Affects Versions: 1.7.0
>            Reporter: Josh Elser
>            Assignee: Josh Elser
>             Fix For: 1.7.1, 1.8.0
>
>
> Noticed this in testing 1.7.0 on my laptop tonight. Started two tservers, one continuous
ingest client and would kill/restart one of the tservers occasionally. 
> {noformat}
> Failed to close map file
> 	java.io.IOException: Filesystem closed
> 		at org.apache.hadoop.hdfs.DFSClient.checkOpen(DFSClient.java:795)
> 		at org.apache.hadoop.hdfs.DFSInputStream.close(DFSInputStream.java:629)
> 		at java.io.FilterInputStream.close(FilterInputStream.java:181)
> 		at org.apache.accumulo.core.file.blockfile.impl.CachableBlockFile$Reader.close(CachableBlockFile.java:409)
> 		at org.apache.accumulo.core.file.rfile.RFile$Reader.close(RFile.java:921)
> 		at org.apache.accumulo.tserver.tablet.Compactor.compactLocalityGroup(Compactor.java:391)
> 		at org.apache.accumulo.tserver.tablet.Compactor.call(Compactor.java:214)
> 		at org.apache.accumulo.tserver.tablet.Tablet._majorCompact(Tablet.java:1981)
> 		at org.apache.accumulo.tserver.tablet.Tablet.majorCompact(Tablet.java:2098)
> 		at org.apache.accumulo.tserver.tablet.CompactionRunner.run(CompactionRunner.java:44)
> 		at org.apache.htrace.wrappers.TraceRunnable.run(TraceRunnable.java:57)
> 		at java.util.concurrent.ThreadPoolExecutor.runWorker(ThreadPoolExecutor.java:1145)
> 		at java.util.concurrent.ThreadPoolExecutor$Worker.run(ThreadPoolExecutor.java:615)
> 		at org.apache.accumulo.fate.util.LoggingRunnable.run(LoggingRunnable.java:35)
> 		at java.lang.Thread.run(Thread.java:745)
> null
> 	java.nio.channels.ClosedChannelException
> 		at org.apache.hadoop.hdfs.DFSOutputStream.checkClosed(DFSOutputStream.java:1622)
> 		at org.apache.hadoop.fs.FSOutputSummer.write(FSOutputSummer.java:104)
> 		at org.apache.hadoop.fs.FSDataOutputStream$PositionCache.write(FSDataOutputStream.java:58)
> 		at java.io.DataOutputStream.write(DataOutputStream.java:107)
> 		at org.apache.accumulo.core.file.rfile.bcfile.SimpleBufferedOutputStream.flushBuffer(SimpleBufferedOutputStream.java:39)
> 		at org.apache.accumulo.core.file.rfile.bcfile.SimpleBufferedOutputStream.flush(SimpleBufferedOutputStream.java:68)
> 		at org.apache.hadoop.io.compress.CompressionOutputStream.flush(CompressionOutputStream.java:69)
> 		at org.apache.accumulo.core.file.rfile.bcfile.Compression$FinishOnFlushCompressionStream.flush(Compression.java:66)
> 		at java.io.BufferedOutputStream.flush(BufferedOutputStream.java:141)
> 		at org.apache.accumulo.core.file.rfile.bcfile.BCFile$Writer$WBlockState.finish(BCFile.java:233)
> 		at org.apache.accumulo.core.file.rfile.bcfile.BCFile$Writer$BlockAppender.close(BCFile.java:320)
> 		at org.apache.accumulo.core.file.blockfile.impl.CachableBlockFile$BlockWrite.close(CachableBlockFile.java:121)
> 		at org.apache.accumulo.core.file.rfile.RFile$Writer.closeBlock(RFile.java:398)
> 		at org.apache.accumulo.core.file.rfile.RFile$Writer.append(RFile.java:382)
> 		at org.apache.accumulo.tserver.tablet.Compactor.compactLocalityGroup(Compactor.java:356)
> 		at org.apache.accumulo.tserver.tablet.Compactor.call(Compactor.java:214)
> 		at org.apache.accumulo.tserver.tablet.Tablet._majorCompact(Tablet.java:1981)
> 		at org.apache.accumulo.tserver.tablet.Tablet.majorCompact(Tablet.java:2098)
> 		at org.apache.accumulo.tserver.tablet.CompactionRunner.run(CompactionRunner.java:44)
> 		at org.apache.htrace.wrappers.TraceRunnable.run(TraceRunnable.java:57)
> 		at java.util.concurrent.ThreadPoolExecutor.runWorker(ThreadPoolExecutor.java:1145)
> 		at java.util.concurrent.ThreadPoolExecutor$Worker.run(ThreadPoolExecutor.java:615)
> 		at org.apache.accumulo.fate.util.LoggingRunnable.run(LoggingRunnable.java:35)
> 		at java.lang.Thread.run(Thread.java:745)
> Filesystem closed
> 	java.io.IOException: Filesystem closed
> 		at org.apache.hadoop.hdfs.DFSClient.checkOpen(DFSClient.java:795)
> 		at org.apache.hadoop.hdfs.DFSClient.delete(DFSClient.java:1927)
> 		at org.apache.hadoop.hdfs.DistributedFileSystem$12.doCall(DistributedFileSystem.java:638)
> 		at org.apache.hadoop.hdfs.DistributedFileSystem$12.doCall(DistributedFileSystem.java:634)
> 		at org.apache.hadoop.fs.FileSystemLinkResolver.resolve(FileSystemLinkResolver.java:81)
> 		at org.apache.hadoop.hdfs.DistributedFileSystem.delete(DistributedFileSystem.java:634)
> 		at org.apache.accumulo.server.fs.VolumeManagerImpl.deleteRecursively(VolumeManagerImpl.java:193)
> 		at org.apache.accumulo.tserver.tablet.Compactor.call(Compactor.java:255)
> 		at org.apache.accumulo.tserver.tablet.Tablet._majorCompact(Tablet.java:1981)
> 		at org.apache.accumulo.tserver.tablet.Tablet.majorCompact(Tablet.java:2098)
> 		at org.apache.accumulo.tserver.tablet.CompactionRunner.run(CompactionRunner.java:44)
> 		at org.apache.htrace.wrappers.TraceRunnable.run(TraceRunnable.java:57)
> 		at java.util.concurrent.ThreadPoolExecutor.runWorker(ThreadPoolExecutor.java:1145)
> 		at java.util.concurrent.ThreadPoolExecutor$Worker.run(ThreadPoolExecutor.java:615)
> 		at org.apache.accumulo.fate.util.LoggingRunnable.run(LoggingRunnable.java:35)
> 		at java.lang.Thread.run(Thread.java:745)
> MinC failed (null) to create hdfs://localhost:8020/accumulo17/tables/2/t-0000011/F00000yd.rf_tmp
retrying ...
> MajC Failed, extent = 2;5;45
> 	java.io.IOException: Filesystem closed
> 		at org.apache.hadoop.hdfs.DFSClient.checkOpen(DFSClient.java:795)
> 		at org.apache.hadoop.hdfs.DFSClient.create(DFSClient.java:1651)
> 		at org.apache.hadoop.hdfs.DFSClient.create(DFSClient.java:1593)
> 		at org.apache.hadoop.hdfs.DistributedFileSystem$6.doCall(DistributedFileSystem.java:397)
> 		at org.apache.hadoop.hdfs.DistributedFileSystem$6.doCall(DistributedFileSystem.java:393)
> 		at org.apache.hadoop.fs.FileSystemLinkResolver.resolve(FileSystemLinkResolver.java:81)
> 		at org.apache.hadoop.hdfs.DistributedFileSystem.create(DistributedFileSystem.java:393)
> 		at org.apache.hadoop.hdfs.DistributedFileSystem.create(DistributedFileSystem.java:337)
> 		at org.apache.hadoop.fs.FileSystem.create(FileSystem.java:908)
> 		at org.apache.hadoop.fs.FileSystem.create(FileSystem.java:889)
> 		at org.apache.accumulo.core.file.rfile.RFileOperations.openWriter(RFileOperations.java:126)
> 		at org.apache.accumulo.core.file.rfile.RFileOperations.openWriter(RFileOperations.java:106)
> 		at org.apache.accumulo.core.file.DispatchingFileFactory.openWriter(DispatchingFileFactory.java:78)
> 		at org.apache.accumulo.tserver.tablet.Compactor.call(Compactor.java:192)
> 		at org.apache.accumulo.tserver.tablet.Tablet._majorCompact(Tablet.java:1981)
> 		at org.apache.accumulo.tserver.tablet.Tablet.majorCompact(Tablet.java:2098)
> 		at org.apache.accumulo.tserver.tablet.CompactionRunner.run(CompactionRunner.java:44)
> 		at org.apache.htrace.wrappers.TraceRunnable.run(TraceRunnable.java:57)
> 		at java.util.concurrent.ThreadPoolExecutor.runWorker(ThreadPoolExecutor.java:1145)
> 		at java.util.concurrent.ThreadPoolExecutor$Worker.run(ThreadPoolExecutor.java:615)
> 		at org.apache.accumulo.fate.util.LoggingRunnable.run(LoggingRunnable.java:35)
> 		at java.lang.Thread.run(Thread.java:745)
> MajC Failed, extent = 2;45;4
> 	java.io.IOException: Filesystem closed
> 		at org.apache.hadoop.hdfs.DFSClient.checkOpen(DFSClient.java:795)
> 		at org.apache.hadoop.hdfs.DFSClient.create(DFSClient.java:1651)
> 		at org.apache.hadoop.hdfs.DFSClient.create(DFSClient.java:1593)
> 		at org.apache.hadoop.hdfs.DistributedFileSystem$6.doCall(DistributedFileSystem.java:397)
> 		at org.apache.hadoop.hdfs.DistributedFileSystem$6.doCall(DistributedFileSystem.java:393)
> 		at org.apache.hadoop.fs.FileSystemLinkResolver.resolve(FileSystemLinkResolver.java:81)
> 		at org.apache.hadoop.hdfs.DistributedFileSystem.create(DistributedFileSystem.java:393)
> 		at org.apache.hadoop.hdfs.DistributedFileSystem.create(DistributedFileSystem.java:337)
> 		at org.apache.hadoop.fs.FileSystem.create(FileSystem.java:908)
> 		at org.apache.hadoop.fs.FileSystem.create(FileSystem.java:889)
> 		at org.apache.accumulo.core.file.rfile.RFileOperations.openWriter(RFileOperations.java:126)
> 		at org.apache.accumulo.core.file.rfile.RFileOperations.openWriter(RFileOperations.java:106)
> 		at org.apache.accumulo.core.file.DispatchingFileFactory.openWriter(DispatchingFileFactory.java:78)
> 		at org.apache.accumulo.tserver.tablet.Compactor.call(Compactor.java:192)
> 		at org.apache.accumulo.tserver.tablet.Tablet._majorCompact(Tablet.java:1981)
> 		at org.apache.accumulo.tserver.tablet.Tablet.majorCompact(Tablet.java:2098)
> 		at org.apache.accumulo.tserver.tablet.CompactionRunner.run(CompactionRunner.java:44)
> 		at org.apache.htrace.wrappers.TraceRunnable.run(TraceRunnable.java:57)
> 		at java.util.concurrent.ThreadPoolExecutor.runWorker(ThreadPoolExecutor.java:1145)
> 		at java.util.concurrent.ThreadPoolExecutor$Worker.run(ThreadPoolExecutor.java:615)
> 		at org.apache.accumulo.fate.util.LoggingRunnable.run(LoggingRunnable.java:35)
> 		at java.lang.Thread.run(Thread.java:745)
> MajC Failed, extent = 2;35;3
> 	java.io.IOException: Filesystem closed
> 		at org.apache.hadoop.hdfs.DFSClient.checkOpen(DFSClient.java:795)
> 		at org.apache.hadoop.hdfs.DFSClient.create(DFSClient.java:1651)
> 		at org.apache.hadoop.hdfs.DFSClient.create(DFSClient.java:1593)
> 		at org.apache.hadoop.hdfs.DistributedFileSystem$6.doCall(DistributedFileSystem.java:397)
> 		at org.apache.hadoop.hdfs.DistributedFileSystem$6.doCall(DistributedFileSystem.java:393)
> 		at org.apache.hadoop.fs.FileSystemLinkResolver.resolve(FileSystemLinkResolver.java:81)
> 		at org.apache.hadoop.hdfs.DistributedFileSystem.create(DistributedFileSystem.java:393)
> 		at org.apache.hadoop.hdfs.DistributedFileSystem.create(DistributedFileSystem.java:337)
> 		at org.apache.hadoop.fs.FileSystem.create(FileSystem.java:908)
> 		at org.apache.hadoop.fs.FileSystem.create(FileSystem.java:889)
> 		at org.apache.accumulo.core.file.rfile.RFileOperations.openWriter(RFileOperations.java:126)
> 		at org.apache.accumulo.core.file.rfile.RFileOperations.openWriter(RFileOperations.java:106)
> 		at org.apache.accumulo.core.file.DispatchingFileFactory.openWriter(DispatchingFileFactory.java:78)
> 		at org.apache.accumulo.tserver.tablet.Compactor.call(Compactor.java:192)
> 		at org.apache.accumulo.tserver.tablet.Tablet._majorCompact(Tablet.java:1981)
> 		at org.apache.accumulo.tserver.tablet.Tablet.majorCompact(Tablet.java:2098)
> 		at org.apache.accumulo.tserver.tablet.CompactionRunner.run(CompactionRunner.java:44)
> 		at org.apache.htrace.wrappers.TraceRunnable.run(TraceRunnable.java:57)
> 		at java.util.concurrent.ThreadPoolExecutor.runWorker(ThreadPoolExecutor.java:1145)
> 		at java.util.concurrent.ThreadPoolExecutor$Worker.run(ThreadPoolExecutor.java:615)
> 		at org.apache.accumulo.fate.util.LoggingRunnable.run(LoggingRunnable.java:35)
> 		at java.lang.Thread.run(Thread.java:745)
> Filesystem closed
> 	java.io.IOException: Filesystem closed
> 		at org.apache.hadoop.hdfs.DFSClient.checkOpen(DFSClient.java:795)
> 		at org.apache.hadoop.hdfs.DFSClient.create(DFSClient.java:1651)
> 		at org.apache.hadoop.hdfs.DFSClient.create(DFSClient.java:1593)
> 		at org.apache.hadoop.hdfs.DistributedFileSystem$6.doCall(DistributedFileSystem.java:397)
> 		at org.apache.hadoop.hdfs.DistributedFileSystem$6.doCall(DistributedFileSystem.java:393)
> 		at org.apache.hadoop.fs.FileSystemLinkResolver.resolve(FileSystemLinkResolver.java:81)
> 		at org.apache.hadoop.hdfs.DistributedFileSystem.create(DistributedFileSystem.java:393)
> 		at org.apache.hadoop.hdfs.DistributedFileSystem.create(DistributedFileSystem.java:337)
> 		at org.apache.hadoop.fs.FileSystem.create(FileSystem.java:908)
> 		at org.apache.hadoop.fs.FileSystem.create(FileSystem.java:889)
> 		at org.apache.accumulo.core.file.rfile.RFileOperations.openWriter(RFileOperations.java:126)
> 		at org.apache.accumulo.core.file.rfile.RFileOperations.openWriter(RFileOperations.java:106)
> 		at org.apache.accumulo.core.file.DispatchingFileFactory.openWriter(DispatchingFileFactory.java:78)
> 		at org.apache.accumulo.tserver.tablet.Compactor.call(Compactor.java:192)
> 		at org.apache.accumulo.tserver.tablet.Tablet._majorCompact(Tablet.java:1981)
> 		at org.apache.accumulo.tserver.tablet.Tablet.majorCompact(Tablet.java:2098)
> 		at org.apache.accumulo.tserver.tablet.CompactionRunner.run(CompactionRunner.java:44)
> 		at org.apache.htrace.wrappers.TraceRunnable.run(TraceRunnable.java:57)
> 		at java.util.concurrent.ThreadPoolExecutor.runWorker(ThreadPoolExecutor.java:1145)
> 		at java.util.concurrent.ThreadPoolExecutor$Worker.run(ThreadPoolExecutor.java:615)
> 		at org.apache.accumulo.fate.util.LoggingRunnable.run(LoggingRunnable.java:35)
> 		at java.lang.Thread.run(Thread.java:745)
> {noformat}
> This reminded me of something that [~bills] ran into and tried to get to the bottom of.
> My hunch was that somethign registered a shutdown hook which closed the filesystem object.
I also remembered that FileSystem instances are cached.
> Bill pointed out that he thought this might still be a VFS related issue (despite having
nothign to do with VFS). After I noticed a shutdown hook in our VFS usage, I think it's unsafe
to be sharing FileSystem instances with VFS code that might also be used by Accumulo for important
things like writing to files.
> We should get a unique FileSystem instance to provide to any VFS code. We can do this
by:
> # Setting {{fs.hdfs.impl.disable.cache}} in the Hadoop Configuration we provide to {{FileSystem.get(Configuration)}}
> # Call {{FileSystem.newInstance(URI, Configuration)}}.
> Either seem to do what we want -- the latter possibly having more reliable semantics
than just a configuration value.



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