Hi Markus,
the problem should be fixed with NUTCH-2442. It wasn't the case with the first
version of the
sitemap processor. It's mandatory to check also the return value of
job.waitForCompletion(true),
only checking for exceptions isn't enough!
Sebastian
On 01/17/2018 11:51 AM, Markus Jelsma wrote:
> Hello,
>
> We noticed some abnormalities in our crawl cycle caused by a sudden reduction
> of our CrawlDB's size. The SitemapProcessor ran, failed (timed out, see
> below) and left us with a decimated CrawlDB.
>
> This is odd because of:
>
> } catch (Exception e) {
> if (fs.exists(tempCrawlDb))
> fs.delete(tempCrawlDb, true);
>
> LockUtil.removeLockFile(fs, lock);
> throw e;
> }
>
> Any ideas?
>
> Thanks,
> Markus
>
> Full thread dump OpenJDK 64-Bit Server VM (25.151-b12 mixed mode):
>
> "Thread-52" #74 prio=5 os_prio=0 tid=0x00007fe2adc85000 nid=0x6cf8 runnable
> [0x00007fe28a86d000]
> java.lang.Thread.State: RUNNABLE
> at java.util.regex.Pattern$BmpCharProperty.match(Pattern.java:3797)
> at java.util.regex.Pattern$Start.match(Pattern.java:3461)
> at java.util.regex.Matcher.search(Matcher.java:1248)
> at java.util.regex.Matcher.find(Matcher.java:637)
> at java.util.regex.Matcher.replaceAll(Matcher.java:951)
> at
> org.apache.nutch.net.urlnormalizer.regex.RegexURLNormalizer.regexNormalize(RegexURLNormalizer.java:193)
>
> at
> org.apache.nutch.net.urlnormalizer.regex.RegexURLNormalizer.normalize(RegexURLNormalizer.java:200)
>
> at org.apache.nutch.net.URLNormalizers.normalize(URLNormalizers.java:319)
> at
> org.apache.nutch.util.SitemapProcessor$SitemapMapper.filterNormalize(SitemapProcessor.java:176)
>
> at
> org.apache.nutch.util.SitemapProcessor$SitemapMapper.generateSitemapUrlDatum(SitemapProcessor.java:225)
>
> at
> org.apache.nutch.util.SitemapProcessor$SitemapMapper.generateSitemapUrlDatum(SitemapProcessor.java:264)
>
> at
> org.apache.nutch.util.SitemapProcessor$SitemapMapper.map(SitemapProcessor.java:154)
>
> at
> org.apache.nutch.util.SitemapProcessor$SitemapMapper.map(SitemapProcessor.java:95)
>
> at org.apache.hadoop.mapreduce.Mapper.run(Mapper.java:146)
> at
> org.apache.hadoop.mapreduce.lib.map.MultithreadedMapper$MapRunner.run(MultithreadedMapper.java:273)
>
> "SpillThread" #34 daemon prio=5 os_prio=0 tid=0x00007fe2ada12000 nid=0x6c2f
> waiting on condition [0x00007fe28d2ad000]
> java.lang.Thread.State: WAITING (parking)
> at sun.misc.Unsafe.park(Native Method)
> - parking to wait for <0x00000000ede6dc80> (a
> java.util.concurrent.locks.AbstractQueuedSynchronizer$ConditionObject)
> at java.util.concurrent.locks.LockSupport.park(LockSupport.java:175)
> at
> java.util.concurrent.locks.AbstractQueuedSynchronizer$ConditionObject.await(AbstractQueuedSynchronizer.java:2039)
>
> at
> org.apache.hadoop.mapred.MapTask$MapOutputBuffer$SpillThread.run(MapTask.java:1530)
>
> "org.apache.hadoop.hdfs.PeerCache@1fc0053e" #33 daemon prio=5 os_prio=0
> tid=0x00007fe2ad7fe000 nid=0x6be7 waiting on condition [0x00007fe28d3ae000]
> java.lang.Thread.State: TIMED_WAITING (sleeping)
> at java.lang.Thread.sleep(Native Method)
> at org.apache.hadoop.hdfs.PeerCache.run(PeerCache.java:253)
> at org.apache.hadoop.hdfs.PeerCache.access$000(PeerCache.java:46)
> at org.apache.hadoop.hdfs.PeerCache$1.run(PeerCache.java:124)
> at java.lang.Thread.run(Thread.java:748)
>
> "communication thread" #28 daemon prio=5 os_prio=0 tid=0x00007fe2ad975800
> nid=0x6b9e in Object.wait() [0x00007fe28d8b1000]
> java.lang.Thread.State: TIMED_WAITING (on object monitor)
> at java.lang.Object.wait(Native Method)
> at org.apache.hadoop.mapred.Task$TaskReporter.run(Task.java:799)
> - locked <0x00000000ede69ae8> (a java.lang.Object)
> at java.lang.Thread.run(Thread.java:748)
>
> "client DomainSocketWatcher" #27 daemon prio=5 os_prio=0
> tid=0x00007fe2ad952000 nid=0x6b95 runnable [0x00007fe28d9b2000]
> java.lang.Thread.State: RUNNABLE
> at org.apache.hadoop.net.unix.DomainSocketWatcher.doPoll0(Native Method)
> at
> org.apache.hadoop.net.unix.DomainSocketWatcher.access$900(DomainSocketWatcher.java:52)
>
> at
> org.apache.hadoop.net.unix.DomainSocketWatcher$2.run(DomainSocketWatcher.java:503)
>
> at java.lang.Thread.run(Thread.java:748)
>
> "Thread for syncLogs" #26 daemon prio=5 os_prio=0 tid=0x00007fe2ad820000
> nid=0x6b81 waiting on condition [0x00007fe28deb3000]
> java.lang.Thread.State: TIMED_WAITING (parking)
> at sun.misc.Unsafe.park(Native Method)
> - parking to wait for <0x00000000e7118190> (a
> java.util.concurrent.locks.AbstractQueuedSynchronizer$ConditionObject)
> at java.util.concurrent.locks.LockSupport.parkNanos(LockSupport.java:215)
> at
> java.util.concurrent.locks.AbstractQueuedSynchronizer$ConditionObject.awaitNanos(AbstractQueuedSynchronizer.java:2078)
>
> at
> java.util.concurrent.ScheduledThreadPoolExecutor$DelayedWorkQueue.take(ScheduledThreadPoolExecutor.java:1093)
>
> at
> java.util.concurrent.ScheduledThreadPoolExecutor$DelayedWorkQueue.take(ScheduledThreadPoolExecutor.java:809)
>
> at
> java.util.concurrent.ThreadPoolExecutor.getTask(ThreadPoolExecutor.java:1074)
> at
> java.util.concurrent.ThreadPoolExecutor.runWorker(ThreadPoolExecutor.java:1134)
>
> at
> java.util.concurrent.ThreadPoolExecutor$Worker.run(ThreadPoolExecutor.java:624)
>
> at java.lang.Thread.run(Thread.java:748)
>
> "org.apache.hadoop.fs.FileSystem$Statistics$StatisticsDataReferenceCleaner"
> #24 daemon prio=5 os_prio=0 tid=0x00007fe2ad746800 nid=0x6b79 in
> Object.wait() [0x00007fe28e1cc000]
> java.lang.Thread.State: WAITING (on object monitor)
> at java.lang.Object.wait(Native Method)
> - waiting on <0x00000000e7171060> (a java.lang.ref.ReferenceQueue$Lock)
> at java.lang.ref.ReferenceQueue.remove(ReferenceQueue.java:143)
> - locked <0x00000000e7171060> (a java.lang.ref.ReferenceQueue$Lock)
> at java.lang.ref.ReferenceQueue.remove(ReferenceQueue.java:164)
> at
> org.apache.hadoop.fs.FileSystem$Statistics$StatisticsDataReferenceCleaner.run(FileSystem.java:3212)
>
> at java.lang.Thread.run(Thread.java:748)
>
> "IPC Parameter Sending Thread #0" #23 daemon prio=5 os_prio=0
> tid=0x00007fe2ad637000 nid=0x6b6d waiting on condition [0x00007fe28e4cd000]
> java.lang.Thread.State: TIMED_WAITING (parking)
> at sun.misc.Unsafe.park(Native Method)
> - parking to wait for <0x00000000e7117338> (a
> java.util.concurrent.SynchronousQueue$TransferStack)
> at java.util.concurrent.locks.LockSupport.parkNanos(LockSupport.java:215)
> at
> java.util.concurrent.SynchronousQueue$TransferStack.awaitFulfill(SynchronousQueue.java:460)
>
> at
> java.util.concurrent.SynchronousQueue$TransferStack.transfer(SynchronousQueue.java:362)
>
> at java.util.concurrent.SynchronousQueue.poll(SynchronousQueue.java:941)
> at
> java.util.concurrent.ThreadPoolExecutor.getTask(ThreadPoolExecutor.java:1073)
> at
> java.util.concurrent.ThreadPoolExecutor.runWorker(ThreadPoolExecutor.java:1134)
>
> at
> java.util.concurrent.ThreadPoolExecutor$Worker.run(ThreadPoolExecutor.java:624)
>
> at java.lang.Thread.run(Thread.java:748)
>
> "IPC Client (1373419525) connection to /89.188.14.3:36783 from
> job_1516025831039_0247" #22 daemon prio=5 os_prio=0 tid=0x00007fe2ad632000
> nid=0x6b6c in Object.wait() [0x00007fe28e5ce000]
> java.lang.Thread.State: TIMED_WAITING (on object monitor)
> at java.lang.Object.wait(Native Method)
> at org.apache.hadoop.ipc.Client$Connection.waitForWork(Client.java:1008)
> - locked <0x00000000e7119130> (a org.apache.hadoop.ipc.Client$Connection)
> at org.apache.hadoop.ipc.Client$Connection.run(Client.java:1052)
>
> "Timer for 'MapTask' metrics system" #21 daemon prio=5 os_prio=0
> tid=0x00007fe2ad525800 nid=0x6b5f in Object.wait() [0x00007fe28f551000]
> java.lang.Thread.State: TIMED_WAITING (on object monitor)
> at java.lang.Object.wait(Native Method)
> at java.util.TimerThread.mainLoop(Timer.java:552)
> - locked <0x00000000e713ca30> (a java.util.TaskQueue)
> at java.util.TimerThread.run(Timer.java:505)
>
> "Service Thread" #17 daemon prio=9 os_prio=0 tid=0x00007fe2ac0f8800
> nid=0x6b36 runnable [0x0000000000000000]
> java.lang.Thread.State: RUNNABLE
>
> "C1 CompilerThread11" #16 daemon prio=9 os_prio=0 tid=0x00007fe2ac0eb800
> nid=0x6b34 waiting on condition [0x0000000000000000]
> java.lang.Thread.State: RUNNABLE
>
> "C1 CompilerThread10" #15 daemon prio=9 os_prio=0 tid=0x00007fe2ac0e9800
> nid=0x6b33 waiting on condition [0x0000000000000000]
> java.lang.Thread.State: RUNNABLE
>
> "C1 CompilerThread9" #14 daemon prio=9 os_prio=0 tid=0x00007fe2ac0e7000
> nid=0x6b32 waiting on condition [0x0000000000000000]
> java.lang.Thread.State: RUNNABLE
>
> "C1 CompilerThread8" #13 daemon prio=9 os_prio=0 tid=0x00007fe2ac0e5000
> nid=0x6b31 waiting on condition [0x0000000000000000]
> java.lang.Thread.State: RUNNABLE
>
> "C2 CompilerThread7" #12 daemon prio=9 os_prio=0 tid=0x00007fe2ac0e3000
> nid=0x6b30 waiting on condition [0x0000000000000000]
> java.lang.Thread.State: RUNNABLE
>
> "C2 CompilerThread6" #11 daemon prio=9 os_prio=0 tid=0x00007fe2ac0e1000
> nid=0x6b2f waiting on condition [0x0000000000000000]
> java.lang.Thread.State: RUNNABLE
>
> "C2 CompilerThread5" #10 daemon prio=9 os_prio=0 tid=0x00007fe2ac0de800
> nid=0x6b2d waiting on condition [0x0000000000000000]
> java.lang.Thread.State: RUNNABLE
>
> "C2 CompilerThread4" #9 daemon prio=9 os_prio=0 tid=0x00007fe2ac0d4800
> nid=0x6b2b waiting on condition [0x0000000000000000]
> java.lang.Thread.State: RUNNABLE
>
> "C2 CompilerThread3" #8 daemon prio=9 os_prio=0 tid=0x00007fe2ac0d2800
> nid=0x6b2a waiting on condition [0x0000000000000000]
> java.lang.Thread.State: RUNNABLE
>
> "C2 CompilerThread2" #7 daemon prio=9 os_prio=0 tid=0x00007fe2ac0ce000
> nid=0x6b29 waiting on condition [0x0000000000000000]
> java.lang.Thread.State: RUNNABLE
>
> "C2 CompilerThread1" #6 daemon prio=9 os_prio=0 tid=0x00007fe2ac0cc000
> nid=0x6b28 waiting on condition [0x0000000000000000]
> java.lang.Thread.State: RUNNABLE
>
> "C2 CompilerThread0" #5 daemon prio=9 os_prio=0 tid=0x00007fe2ac0c9000
> nid=0x6b26 waiting on condition [0x0000000000000000]
> java.lang.Thread.State: RUNNABLE
>
> "Signal Dispatcher" #4 daemon prio=9 os_prio=0 tid=0x00007fe2ac0c7000
> nid=0x6b24 waiting on condition [0x0000000000000000]
> java.lang.Thread.State: RUNNABLE
>
> "Finalizer" #3 daemon prio=8 os_prio=0 tid=0x00007fe2ac0a0000 nid=0x6ab7 in
> Object.wait() [0x00007fe29592c000]
> java.lang.Thread.State: WAITING (on object monitor)
> at java.lang.Object.wait(Native Method)
> at java.lang.ref.ReferenceQueue.remove(ReferenceQueue.java:143)
> - locked <0x00000000e72f0140> (a java.lang.ref.ReferenceQueue$Lock)
> at java.lang.ref.ReferenceQueue.remove(ReferenceQueue.java:164)
> at java.lang.ref.Finalizer$FinalizerThread.run(Finalizer.java:209)
>
> "Reference Handler" #2 daemon prio=10 os_prio=0 tid=0x00007fe2ac09b800
> nid=0x6ab6 in Object.wait() [0x00007fe295a2d000]
> java.lang.Thread.State: WAITING (on object monitor)
> at java.lang.Object.wait(Native Method)
> at java.lang.Object.wait(Object.java:502)
> at java.lang.ref.Reference.tryHandlePending(Reference.java:191)
> - locked <0x00000000e72f0180> (a java.lang.ref.Reference$Lock)
> at java.lang.ref.Reference$ReferenceHandler.run(Reference.java:153)
>
> "main" #1 prio=5 os_prio=0 tid=0x00007fe2ac014000 nid=0x6a69 in Object.wait()
> [0x00007fe2b5747000]
> java.lang.Thread.State: WAITING (on object monitor)
> at java.lang.Object.wait(Native Method)
> - waiting on <0x00000000edb32e88> (a
> org.apache.hadoop.mapreduce.lib.map.MultithreadedMapper$MapRunner)
> at java.lang.Thread.join(Thread.java:1252)
> - locked <0x00000000edb32e88> (a
> org.apache.hadoop.mapreduce.lib.map.MultithreadedMapper$MapRunner)
> at java.lang.Thread.join(Thread.java:1326)
> at
> org.apache.hadoop.mapreduce.lib.map.MultithreadedMapper.run(MultithreadedMapper.java:146)
>
> at org.apache.hadoop.mapred.MapTask.runNewMapper(MapTask.java:787)
> at org.apache.hadoop.mapred.MapTask.run(MapTask.java:341)
> at org.apache.hadoop.mapred.YarnChild$2.run(YarnChild.java:175)
> at java.security.AccessController.doPrivileged(Native Method)
> at javax.security.auth.Subject.doAs(Subject.java:422)
> at
> org.apache.hadoop.security.UserGroupInformation.doAs(UserGroupInformation.java:1836)
>
> at org.apache.hadoop.mapred.YarnChild.main(YarnChild.java:169)
>
> "VM Thread" os_prio=0 tid=0x00007fe2ac093800 nid=0x6aad runnable
>
> "GC task thread#0 (ParallelGC)" os_prio=0 tid=0x00007fe2ac029000 nid=0x6a77
> runnable
>
> "GC task thread#1 (ParallelGC)" os_prio=0 tid=0x00007fe2ac02b000 nid=0x6a79
> runnable
>
> "GC task thread#2 (ParallelGC)" os_prio=0 tid=0x00007fe2ac02c800 nid=0x6a7b
> runnable
>
> "GC task thread#3 (ParallelGC)" os_prio=0 tid=0x00007fe2ac02e800 nid=0x6a7d
> runnable
>
> "GC task thread#4 (ParallelGC)" os_prio=0 tid=0x00007fe2ac030000 nid=0x6a80
> runnable
>
> "GC task thread#5 (ParallelGC)" os_prio=0 tid=0x00007fe2ac032000 nid=0x6a95
> runnable
>
> "GC task thread#6 (ParallelGC)" os_prio=0 tid=0x00007fe2ac033800 nid=0x6a96
> runnable
>
> "GC task thread#7 (ParallelGC)" os_prio=0 tid=0x00007fe2ac035800 nid=0x6a97
> runnable
>
> "GC task thread#8 (ParallelGC)" os_prio=0 tid=0x00007fe2ac037000 nid=0x6a98
> runnable
>
> "GC task thread#9 (ParallelGC)" os_prio=0 tid=0x00007fe2ac039000 nid=0x6a99
> runnable
>
> "GC task thread#10 (ParallelGC)" os_prio=0 tid=0x00007fe2ac03a800 nid=0x6a9a
> runnable
>
> "GC task thread#11 (ParallelGC)" os_prio=0 tid=0x00007fe2ac03c800 nid=0x6a9b
> runnable
>
> "GC task thread#12 (ParallelGC)" os_prio=0 tid=0x00007fe2ac03e000 nid=0x6a9c
> runnable
>
> "VM Periodic Task Thread" os_prio=0 tid=0x00007fe2ac0fb000 nid=0x6b38 waiting
> on condition
>
> JNI global references: 275
>
> Heap
> PSYoungGen total 116224K, used 105934K [0x00000000f7b00000,
> 0x0000000100000000, 0x0000000100000000)
> eden space 100864K, 89% used
> [0x00000000f7b00000,0x00000000fd3a6228,0x00000000fdd80000)
> from space 15360K, 98% used
> [0x00000000fdd80000,0x00000000fec4d7a0,0x00000000fec80000)
> to space 19456K, 0% used
> [0x00000000fed00000,0x00000000fed00000,0x0000000100000000)
> ParOldGen total 273408K, used 189187K [0x00000000e7000000,
> 0x00000000f7b00000, 0x00000000f7b00000)
> object space 273408K, 69% used
> [0x00000000e7000000,0x00000000f28c0c88,0x00000000f7b00000)
> Metaspace used 33001K, capacity 33602K, committed 34048K, reserved
> 1079296K
> class space used 3581K, capacity 3675K, committed 3840K, reserved
> 1048576K
>
