It seems LoadIncrementalHFiles is still running. Can you run "jstack" on 1 RegionServer process also?
Which version are you using? Jieshan. -----Original Message----- From: Tao Xiao [mailto:[email protected]] Sent: Wednesday, December 18, 2013 1:49 PM To: [email protected] Subject: Re: Why so many unexpected files like partitions_xxxx are created? I did jstack one such process and can see the following output in the terminal, and I guess this info told us that the processes started by the command "LoadIncrementalHFiles" never exit. Why didn't they exit after finished running ? ... ... ... ... "LoadIncrementalHFiles-0.LruBlockCache.EvictionThread" daemon prio=10 tid=0x000000004129c000 nid=0x2186 in Object.wait() [0x00007f53f3665000] java.lang.Thread.State: WAITING (on object monitor) at java.lang.Object.wait(Native Method) - waiting on <0x000000075fcf3370> (a org.apache.hadoop.hbase.io.hfile.LruBlockCache$EvictionThread) at java.lang.Object.wait(Object.java:485) at org.apache.hadoop.hbase.io.hfile.LruBlockCache$EvictionThread.run(LruBlockCache.java:631) - locked <0x000000075fcf3370> (a org.apache.hadoop.hbase.io.hfile.LruBlockCache$EvictionThread) at java.lang.Thread.run(Thread.java:662) Locked ownable synchronizers: - None "LoadIncrementalHFiles-3" prio=10 tid=0x00007f540ca55800 nid=0x2185 runnable [0x00007f53f3765000] java.lang.Thread.State: RUNNABLE at java.io.FileOutputStream.writeBytes(Native Method) at java.io.FileOutputStream.write(FileOutputStream.java:282) at java.io.BufferedOutputStream.write(BufferedOutputStream.java:105) - locked <0x0000000763e5af70> (a java.io.BufferedOutputStream) at java.io.PrintStream.write(PrintStream.java:430) - locked <0x0000000763d5b670> (a java.io.PrintStream) at sun.nio.cs.StreamEncoder.writeBytes(StreamEncoder.java:202) at sun.nio.cs.StreamEncoder.implWrite(StreamEncoder.java:263) at sun.nio.cs.StreamEncoder.write(StreamEncoder.java:106) - locked <0x0000000763d6c6d0> (a java.io.OutputStreamWriter) at sun.nio.cs.StreamEncoder.write(StreamEncoder.java:116) at java.io.OutputStreamWriter.write(OutputStreamWriter.java:203) at java.io.Writer.write(Writer.java:140) at org.apache.log4j.helpers.QuietWriter.write(QuietWriter.java:48) at org.apache.log4j.WriterAppender.subAppend(WriterAppender.java:317) at org.apache.log4j.WriterAppender.append(WriterAppender.java:162) at org.apache.log4j.AppenderSkeleton.doAppend(AppenderSkeleton.java:251) - locked <0x0000000763d5fb90> (a org.apache.log4j.ConsoleAppender) at org.apache.log4j.helpers.AppenderAttachableImpl.appendLoopOnAppenders(AppenderAttachableImpl.java:66) at org.apache.log4j.Category.callAppenders(Category.java:206) - locked <0x0000000763d65fe8> (a org.apache.log4j.spi.RootLogger) at org.apache.log4j.Category.forcedLog(Category.java:391) at org.apache.log4j.Category.log(Category.java:856) at org.apache.commons.logging.impl.Log4JLogger.error(Log4JLogger.java:257) at org.apache.hadoop.hbase.mapreduce.LoadIncrementalHFiles.tryAtomicRegionLoad(LoadIncrementalHFiles.java:577) at org.apache.hadoop.hbase.mapreduce.LoadIncrementalHFiles$1.call(LoadIncrementalHFiles.java:316) at org.apache.hadoop.hbase.mapreduce.LoadIncrementalHFiles$1.call(LoadIncrementalHFiles.java:314) at java.util.concurrent.FutureTask$Sync.innerRun(FutureTask.java:303) at java.util.concurrent.FutureTask.run(FutureTask.java:138) at java.util.concurrent.ThreadPoolExecutor$Worker.runTask(ThreadPoolExecutor.java:895) at java.util.concurrent.ThreadPoolExecutor$Worker.run(ThreadPoolExecutor.java:918) at java.lang.Thread.run(Thread.java:662) Locked ownable synchronizers: - <0x000000075fe494c0> (a java.util.concurrent.locks.ReentrantLock$NonfairSync) ... ... ... ... "Reference Handler" daemon prio=10 tid=0x00007f540c138800 nid=0x2172 in Object.wait() [0x00007f5401355000] java.lang.Thread.State: WAITING (on object monitor) at java.lang.Object.wait(Native Method) - waiting on <0x0000000763d51078> (a java.lang.ref.Reference$Lock) at java.lang.Object.wait(Object.java:485) at java.lang.ref.Reference$ReferenceHandler.run(Reference.java:116) - locked <0x0000000763d51078> (a java.lang.ref.Reference$Lock) Locked ownable synchronizers: - None "main" prio=10 tid=0x00007f540c00e000 nid=0x216a waiting on condition [0x00007f54114ac000] java.lang.Thread.State: WAITING (parking) at sun.misc.Unsafe.park(Native Method) - parking to wait for <0x000000075ea67310> (a java.util.concurrent.FutureTask$Sync) at java.util.concurrent.locks.LockSupport.park(LockSupport.java:156) at java.util.concurrent.locks.AbstractQueuedSynchronizer.parkAndCheckInterrupt(AbstractQueuedSynchronizer.java:811) at java.util.concurrent.locks.AbstractQueuedSynchronizer.doAcquireSharedInterruptibly(AbstractQueuedSynchronizer.java:969) at java.util.concurrent.locks.AbstractQueuedSynchronizer.acquireSharedInterruptibly(AbstractQueuedSynchronizer.java:1281) at java.util.concurrent.FutureTask$Sync.innerGet(FutureTask.java:218) at java.util.concurrent.FutureTask.get(FutureTask.java:83) at org.apache.hadoop.hbase.mapreduce.LoadIncrementalHFiles.bulkLoadPhase(LoadIncrementalHFiles.java:326) at org.apache.hadoop.hbase.mapreduce.LoadIncrementalHFiles.doBulkLoad(LoadIncrementalHFiles.java:261) at org.apache.hadoop.hbase.mapreduce.LoadIncrementalHFiles.run(LoadIncrementalHFiles.java:780) at org.apache.hadoop.util.ToolRunner.run(ToolRunner.java:65) at org.apache.hadoop.util.ToolRunner.run(ToolRunner.java:79) at org.apache.hadoop.hbase.mapreduce.LoadIncrementalHFiles.main(LoadIncrementalHFiles.java:785) Locked ownable synchronizers: - None "VM Thread" prio=10 tid=0x00007f540c132000 nid=0x2170 runnable "Gang worker#0 (Parallel GC Threads)" prio=10 tid=0x00007f540c01c800 nid=0x216b runnable "Gang worker#1 (Parallel GC Threads)" prio=10 tid=0x00007f540c01e800 nid=0x216c runnable "Gang worker#2 (Parallel GC Threads)" prio=10 tid=0x00007f540c020000 nid=0x216d runnable "Gang worker#3 (Parallel GC Threads)" prio=10 tid=0x00007f540c022000 nid=0x216e runnable "Concurrent Mark-Sweep GC Thread" prio=10 tid=0x00007f540c0b1000 nid=0x216f runnable "VM Periodic Task Thread" prio=10 tid=0x00007f540c16b000 nid=0x217a waiting on condition JNI global references: 1118 2013/12/18 Ted Yu <[email protected]> > Tao: > Can you jstack one such process next time you see them hanging ? > > Thanks > > > On Tue, Dec 17, 2013 at 6:31 PM, Tao Xiao <[email protected]> > wrote: > > > BTW, I noticed another problem. I bulk load data into HBase every > > five minutes, but I found that whenever the following command was executed > > hbase org.apache.hadoop.hbase.mapreduce.LoadIncrementalHFiles > > HFiles-Dir MyTable > > > > there is a new process called "LoadIncrementalHFiles" > > > > I can see many processes called "LoadIncrementalHFiles" using the > > command "jps" in the terminal， why are these processes still there > > even after the command that bulk load HFiles into HBase has finished > > executing ? I have > to > > kill them myself. > > > > > > 2013/12/17 Bijieshan <[email protected]> > > > > > Yes, it should be cleaned up. But not included in current code in > > > my understanding. > > > > > > Jieshan. > > > -----Original Message----- > > > From: Ted Yu [mailto:[email protected]] > > > Sent: Tuesday, December 17, 2013 10:55 AM > > > To: [email protected] > > > Subject: Re: Why so many unexpected files like partitions_xxxx are > > created? > > > > > > Should bulk load task clean up partitions_xxxx upon completion ? > > > > > > Cheers > > > > > > > > > On Mon, Dec 16, 2013 at 6:53 PM, Bijieshan <[email protected]> > wrote: > > > > > > > > I think I should delete these files immediately after I have > > > > > finished > > > > bulk loading data into HBase since they are useless at that > > > > time, > > right ? > > > > > > > > Ya. I think so. They are useless once bulk load task finished. > > > > > > > > Jieshan. > > > > -----Original Message----- > > > > From: Tao Xiao [mailto:[email protected]] > > > > Sent: Tuesday, December 17, 2013 9:34 AM > > > > To: [email protected] > > > > Subject: Re: Why so many unexpected files like partitions_xxxx > > > > are > > > created? > > > > > > > > Indeed these files are produced by org.apache.hadoop.hbase.mapreduce. > > > > LoadIncrementalHFiles in the directory specified by what > > > > job.getWorkingDirectory() > > > > returns, and I think I should delete these files immediately > > > > after I have finished bulk loading data into HBase since they > > > > are useless at that time, right ? > > > > > > > > > > > > > > > > > > > > 2013/12/16 Bijieshan <[email protected]> > > > > > > > > > The reduce partition information is stored in this > > > > > partition_XXXX > > file. > > > > > See the below code: > > > > > > > > > > HFileOutputFormat#configureIncrementalLoad: > > > > > ..................... > > > > > Path partitionsPath = new Path(job.getWorkingDirectory(), > > > > > "partitions_" + > > UUID.randomUUID()); > > > > > LOG.info("Writing partition information to " + > > > > > partitionsPath); > > > > > > > > > > FileSystem fs = partitionsPath.getFileSystem(conf); > > > > > writePartitions(conf, partitionsPath, startKeys); > > > > > ..................... > > > > > > > > > > Hoping it helps. > > > > > > > > > > Jieshan > > > > > -----Original Message----- > > > > > From: Tao Xiao [mailto:[email protected]] > > > > > Sent: Monday, December 16, 2013 6:48 PM > > > > > To: [email protected] > > > > > Subject: Why so many unexpected files like partitions_xxxx are > > created? > > > > > > > > > > I imported data into HBase in the fashion of bulk load, but > > > > > after that I found many unexpected file were created in the > > > > > HDFS > directory > > > > > of /user/root/, and they like these: > > > > > > > > > > /user/root/partitions_fd74866b-6588-468d-8463-474e202db070 > > > > > /user/root/partitions_fd867cd2-d9c9-48f5-9eec-185b2e57788d > > > > > /user/root/partitions_fda37b8a-a882-4787-babc-8310a969f85c > > > > > /user/root/partitions_fdaca2f4-2792-41f6-b7e8-61a8a5677dea > > > > > /user/root/partitions_fdd55baa-3a12-493e-8844-a23ae83209c5 > > > > > /user/root/partitions_fdd85a3c-9abe-45d4-a0c6-76d2bed88ea5 > > > > > /user/root/partitions_fe133460-5f3f-4c6a-9fff-ff6c62410cc1 > > > > > /user/root/partitions_fe29a2b0-b281-465f-8d4a-6044822d960a > > > > > /user/root/partitions_fe2fa6fa-9066-484c-bc91-ec412e48d008 > > > > > /user/root/partitions_fe31667b-2d5a-452e-baf7-a81982fe954a > > > > > /user/root/partitions_fe3a5542-bc4d-4137-9d5e-1a0c59f72ac3 > > > > > /user/root/partitions_fe6a9407-c27b-4a67-bb50-e6b9fd172bc9 > > > > > /user/root/partitions_fe6f9294-f970-473c-8659-c08292c27ddd > > > > > ... ... > > > > > ... ... > > > > > > > > > > > > > > > It seems that they are HFiles, but I don't know why the were > created > > > > here? > > > > > > > > > > I bulk load data into HBase in the following way: > > > > > > > > > > Firstly, I wrote a MapReduce program which only has map tasks. > The > > > map > > > > > tasks read some text data and emit them in the form of RowKey > > > > > and KeyValue.The following is my program: > > > > > > > > > > @Override > > > > > protected void map(NullWritable NULL, > > > > > GtpcV1SignalWritable signal, Context ctx) throws > > > > > InterruptedException, IOException { > > > > > String strRowkey = xxx; > > > > > byte[] rowkeyBytes = Bytes.toBytes(strRowkey); > > > > > > > > > > rowkey.set(rowkeyBytes); > > > > > > > > > > part1.init(signal); > > > > > part2.init(signal); > > > > > > > > > > KeyValue kv = new KeyValue(rowkeyBytes, Family_A, > > > > > Qualifier_Q, part1.serialize()); > > > > > ctx.write(rowkey, kv); > > > > > > > > > > kv = new KeyValue(rowkeyBytes, Family_B, > > > > > Qualifier_Q, part2.serialize()); > > > > > ctx.write(rowkey, kv); > > > > > } > > > > > > > > > > > > > > > after the MR programs finished, there were several HFiles > > > > > generated in the output directory I specified. > > > > > > > > > > Then I bean to load these HFiles into HBase using the > > > > > following > > > command: > > > > > hbase > org.apache.hadoop.hbase.mapreduce.LoadIncrementalHFiles > > > > > HFiles-Dir MyTable > > > > > > > > > > Finally , I could see that the data were indeed loaded into > > > > > the table in HBase. > > > > > > > > > > > > > > > But, I could also see that there were many unexpected files > > > > > generated in the HDFS directory of /user/root/, just as I > > > > > have mentioned at the begining of this mail, and I did not > > > > > specify any files to be produced in this directory. > > > > > > > > > > What happened ? Who can tell me what there files are and who > > > > > produced > > > > them? > > > > > > > > > > Thanks > > > > > > > > > > > > > > >
