It was finally Omkar who brought NUTCH-2442 forward. Time to review the patch of NUTCH-2466!
On 01/17/2018 01:53 PM, Markus Jelsma wrote: > Ah thanks! > > I knew you'd fixed some of these, now i know my patch of NUTCH-2466 silently > removes your commit! > > My bad, thanks! > Markus > > -----Original message----- >> From:Sebastian Nagel <wastl.na...@googlemail.com> >> Sent: Wednesday 17th January 2018 13:32 >> To: user@nutch.apache.org >> Subject: Re: SitemapProcessor destroyed our CrawlDB >> >> 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 >>> >> >>