> Whenever there is a disk error during compaction of an SS table (e.g., bad > block, out of disk space), that SStable’s files stick around forever after > Fixed in 1.1.1 https://issues.apache.org/jira/browse/CASSANDRA-2261
> We are using 1.1.5, besides that I have tried to run cleanup, with no success > :( That is not what cleanup is used for. It is used to delete data that a node is no longer responsible for. If you have a log of -tmp- files created through a problem like this a restart will delete them. If you have an error reading data of disk use nodetool scrub. Cheers ----------------- Aaron Morton Freelance Cassandra Consultant New Zealand @aaronmorton http://www.thelastpickle.com On 12/04/2013, at 3:35 AM, Alexis Rodríguez <arodrig...@inconcertcc.com> wrote: > Moshe, > > We are using 1.1.5, besides that I have tried to run cleanup, with no success > :( > > > # nodetool -p 8080 cleanup > Error occured during cleanup > java.util.concurrent.ExecutionException: java.io.IOError: > org.apache.cassandra.io.compress.CorruptedBlockException: (/cass > andra/data/Repository/Files/Repository-Files-he-4533-Data.db): corruption > detected, chunk at 43325354 of length 65545. > at java.util.concurrent.FutureTask$Sync.innerGet(FutureTask.java:252) > at java.util.concurrent.FutureTask.get(FutureTask.java:111) > at > org.apache.cassandra.db.compaction.CompactionManager.performAllSSTableOperation(CompactionManager.java:216) > at > org.apache.cassandra.db.compaction.CompactionManager.performCleanup(CompactionManager.java:252) > at > org.apache.cassandra.db.ColumnFamilyStore.forceCleanup(ColumnFamilyStore.java:970) > at > org.apache.cassandra.service.StorageService.forceTableCleanup(StorageService.java:1772) > at sun.reflect.NativeMethodAccessorImpl.invoke0(Native Method) > at > sun.reflect.NativeMethodAccessorImpl.invoke(NativeMethodAccessorImpl.java:57) > at > sun.reflect.DelegatingMethodAccessorImpl.invoke(DelegatingMethodAccessorImpl.java:43) > at java.lang.reflect.Method.invoke(Method.java:616) > at > com.sun.jmx.mbeanserver.StandardMBeanIntrospector.invokeM2(StandardMBeanIntrospector.java:111) > at > com.sun.jmx.mbeanserver.StandardMBeanIntrospector.invokeM2(StandardMBeanIntrospector.java:45) > at > com.sun.jmx.mbeanserver.MBeanIntrospector.invokeM(MBeanIntrospector.java:226) > at com.sun.jmx.mbeanserver.PerInterface.invoke(PerInterface.java:138) > at com.sun.jmx.mbeanserver.MBeanSupport.invoke(MBeanSupport.java:251) > at > com.sun.jmx.interceptor.DefaultMBeanServerInterceptor.invoke(DefaultMBeanServerInterceptor.java:857) > at > com.sun.jmx.mbeanserver.JmxMBeanServer.invoke(JmxMBeanServer.java:795) > at > javax.management.remote.rmi.RMIConnectionImpl.doOperation(RMIConnectionImpl.java:1450) > at > javax.management.remote.rmi.RMIConnectionImpl.access$200(RMIConnectionImpl.java:90) > at > javax.management.remote.rmi.RMIConnectionImpl$PrivilegedOperation.run(RMIConnectionImpl.java:1285) > at > javax.management.remote.rmi.RMIConnectionImpl.doPrivilegedOperation(RMIConnectionImpl.java:1383) > at > javax.management.remote.rmi.RMIConnectionImpl.invoke(RMIConnectionImpl.java:807) > at sun.reflect.NativeMethodAccessorImpl.invoke0(Native Method) > at > sun.reflect.NativeMethodAccessorImpl.invoke(NativeMethodAccessorImpl.java:57) > > > > On Thu, Apr 11, 2013 at 11:45 AM, <moshe.kr...@barclays.com> wrote: > I have formulated the following theory regarding C* 1.2.2 which may be > relevant: Whenever there is a disk error during compaction of an SS table > (e.g., bad block, out of disk space), that SStable’s files stick around > forever after, and do not subsequently get deleted by normal compaction > (minor or major), long after all its records have been deleted. This causes > disk usage to rise dramatically. The only way to make the SStable files > disappear is to run “nodetool cleanup” (which takes hours to run). > > > > Just a theory so far…. > > > > From: Alexis Rodríguez [mailto:arodrig...@inconcertcc.com] > Sent: Thursday, April 11, 2013 5:31 PM > To: user@cassandra.apache.org > Subject: Re: CorruptedBlockException > > > > Aaron, > > > > It seems that we are in the same situation as Nury, we are storing a lot of > files of ~5MB in a CF. > > > > This happens in a test cluster, with one node using cassandra 1.1.5, we have > commitlog in a different partition than the data directory. Normally our > tests use nearly 13 GB in data, but when the exception on compaction appears > our disk space ramp up to: > > > > # df -h > > Filesystem Size Used Avail Use% Mounted on > > /dev/sda1 440G 330G 89G 79% / > > tmpfs 7.9G 0 7.9G 0% /lib/init/rw > > udev 7.9G 160K 7.9G 1% /dev > > tmpfs 7.9G 0 7.9G 0% /dev/shm > > /dev/sdb1 459G 257G 179G 59% /cassandra > > > > # cd /cassandra/data/Repository/ > > > > # ls Files/*tmp* | wc -l > > 1671 > > > > # du -ch Files | tail -1 > > 257G total > > > > # du -ch Files/*tmp* | tail -1 > > 34G total > > > > We are using cassandra 1.1.5 with one node, our schema for that keyspace is: > > > > [default@unknown] use Repository; > > Authenticated to keyspace: Repository > > [default@Repository] show schema; > > create keyspace Repository > > with placement_strategy = 'NetworkTopologyStrategy' > > and strategy_options = {datacenter1 : 1} > > and durable_writes = true; > > > > use Repository; > > > > create column family Files > > with column_type = 'Standard' > > and comparator = 'UTF8Type' > > and default_validation_class = 'BytesType' > > and key_validation_class = 'BytesType' > > and read_repair_chance = 0.1 > > and dclocal_read_repair_chance = 0.0 > > and gc_grace = 864000 > > and min_compaction_threshold = 4 > > and max_compaction_threshold = 32 > > and replicate_on_write = true > > and compaction_strategy = > 'org.apache.cassandra.db.compaction.LeveledCompactionStrategy' > > and caching = 'KEYS_ONLY' > > and compaction_strategy_options = {'sstable_size_in_mb' : '120'} > > and compression_options = {'sstable_compression' : > 'org.apache.cassandra.io.compress.SnappyCompressor'}; > > > > In our logs: > > > > ERROR [CompactionExecutor:1831] 2013-04-11 09:12:41,725 > AbstractCassandraDaemon.java (line 135) Exception in thread > Thread[CompactionExecutor:1831,1,main] > > java.io.IOError: org.apache.cassandra.io.compress.CorruptedBlockException: > (/cassandra/data/Repository/Files/Repository-Files-he-4533-Data.db): > corruption detected, chunk at 43325354 of length 65545. > > at > org.apache.cassandra.db.compaction.PrecompactedRow.merge(PrecompactedRow.java:116) > > at > org.apache.cassandra.db.compaction.PrecompactedRow.<init>(PrecompactedRow.java:99) > > at > org.apache.cassandra.db.compaction.CompactionController.getCompactedRow(CompactionController.java:176) > > at > org.apache.cassandra.db.compaction.CompactionIterable$Reducer.getReduced(CompactionIterable.java:83) > > at > org.apache.cassandra.db.compaction.CompactionIterable$Reducer.getReduced(CompactionIterable.java:68) > > at > org.apache.cassandra.utils.MergeIterator$ManyToOne.consume(MergeIterator.java:118) > > at > org.apache.cassandra.utils.MergeIterator$ManyToOne.computeNext(MergeIterator.java:101) > > at > com.google.common.collect.AbstractIterator.tryToComputeNext(AbstractIterator.java:140) > > at > com.google.common.collect.AbstractIterator.hasNext(AbstractIterator.java:135) > > at > com.google.common.collect.Iterators$7.computeNext(Iterators.java:614) > > at > com.google.common.collect.AbstractIterator.tryToComputeNext(AbstractIterator.java:140) > > at > com.google.common.collect.AbstractIterator.hasNext(AbstractIterator.java:135) > > at > org.apache.cassandra.db.compaction.CompactionTask.execute(CompactionTask.java:173) > > at > org.apache.cassandra.db.compaction.LeveledCompactionTask.execute(LeveledCompactionTask.java:50) > > at > org.apache.cassandra.db.compaction.CompactionManager$1.runMayThrow(CompactionManager.java:154) > > at > org.apache.cassandra.utils.WrappedRunnable.run(WrappedRunnable.java:30) > > at > java.util.concurrent.Executors$RunnableAdapter.call(Executors.java:471) > > at java.util.concurrent.FutureTask$Sync.innerRun(FutureTask.java:334) > > at java.util.concurrent.FutureTask.run(FutureTask.java:166) > > at > java.util.concurrent.ThreadPoolExecutor.runWorker(ThreadPoolExecutor.java:1110) > > at > java.util.concurrent.ThreadPoolExecutor$Worker.run(ThreadPoolExecutor.java:603) > > at java.lang.Thread.run(Thread.java:636) > > > > > > > > > > On Thu, Jul 5, 2012 at 7:42 PM, aaron morton <aa...@thelastpickle.com> wrote: > > > But I don't understand, how was all the available space taken away. > > Take a look on disk at /var/lib/cassandra/data/<your_keyspace> and > /var/lib/cassandra/commitlog to see what is taking up a lot of space. > > Cassandra stores the column names as well as the values, so that can take up > some space. > > > > it says that while compaction a CorruptedBlockException has occured. > > Are you able to reproduce this error ? > > Thanks > > > ----------------- > Aaron Morton > Freelance Developer > @aaronmorton > http://www.thelastpickle.com > > > On 6/07/2012, at 12:04 AM, Nury Redjepow wrote: > > > Hello to all, > > > > I have cassandra instance I'm trying to use to store millions of file with > > size ~ 3MB. Data structure is simple, 1 row for 1 file, with row key being > > the id of file. > > I'm loaded 1GB of data, and total available space is 10GB. And after a few > > hour, all the available space was taken. In log, it says that while > > compaction a CorruptedBlockException has occured. But I don't understand, > > how was all the available space taken away. > > > > Data structure > > CREATE KEYSPACE largeobjectsWITH placement_strategy = 'SimpleStrategy' > > AND strategy_options={replication_factor:1}; > > > > create column family content > > with column_type = 'Standard' > > and comparator = 'UTF8Type' > > and default_validation_class = 'BytesType' > > and key_validation_class = 'TimeUUIDType' > > and read_repair_chance = 0.1 > > and dclocal_read_repair_chance = 0.0 > > and gc_grace = 864000 > > and min_compaction_threshold = 4 > > and max_compaction_threshold = 32 > > and replicate_on_write = true > > and compaction_strategy = 'SizeTieredCompactionStrategy' > > and caching = 'keys_only'; > > > > > > Log messages > > > > INFO [FlushWriter:9] 2012-07-04 19:56:00,783 Memtable.java (line 266) > > Writing Memtable-content@240294142(3955135/49439187 serialized/live bytes, > > 91 ops) > > INFO [FlushWriter:9] 2012-07-04 19:56:00,814 Memtable.java (line 307) > > Completed flushing > > /var/lib/cassandra/data/largeobjects/content/largeobjects-content-h > > d-1608-Data.db (1991862 bytes) for commitlog position > > ReplayPosition(segmentId=24245436475633, position=78253718) > > INFO [OptionalTasks:1] 2012-07-04 19:56:02,784 MeteredFlusher.java (line > > 62) flushing high-traffic column family CFS(Keyspace='largeobjects', > > ColumnFamily=' > > content') (estimated 46971537 bytes) > > INFO [OptionalTasks:1] 2012-07-04 19:56:02,784 ColumnFamilyStore.java (line > > 633) Enqueuing flush of Memtable-content@1755783901(3757723/46971537 > > serialized/ > > live bytes, 121 ops) > > INFO [FlushWriter:9] 2012-07-04 19:56:02,785 Memtable.java (line 266) > > Writing Memtable-content@1755783901(3757723/46971537 serialized/live bytes, > > 121 ops) > > INFO [FlushWriter:9] 2012-07-04 19:56:02,835 Memtable.java (line 307) > > Completed flushing > > /var/lib/cassandra/data/largeobjects/content/largeobjects-content-h > > d-1609-Data.db (1894897 bytes) for commitlog position > > ReplayPosition(segmentId=24245436475633, position=82028986) > > INFO [OptionalTasks:1] 2012-07-04 19:56:04,785 MeteredFlusher.java (line > > 62) flushing high-traffic column family CFS(Keyspace='largeobjects', > > ColumnFamily=' > > content') (estimated 56971025 bytes) > > INFO [OptionalTasks:1] 2012-07-04 19:56:04,785 ColumnFamilyStore.java (line > > 633) Enqueuing flush of Memtable-content@1441175031(4557682/56971025 > > serialized/ > > live bytes, 124 ops) > > INFO [FlushWriter:9] 2012-07-04 19:56:04,786 Memtable.java (line 266) > > Writing Memtable-content@1441175031(4557682/56971025 serialized/live bytes, > > 124 ops) > > INFO [FlushWriter:9] 2012-07-04 19:56:04,814 Memtable.java (line 307) > > Completed flushing > > /var/lib/cassandra/data/largeobjects/content/largeobjects-content-h > > d-1610-Data.db (2287280 bytes) for commitlog position > > ReplayPosition(segmentId=24245436475633, position=86604648) > > INFO [CompactionExecutor:39] 2012-07-04 19:56:04,815 CompactionTask.java > > (line 109) Compacting > > [SSTableReader(path='/var/lib/cassandra/data/largeobjects/con > > tent/largeobjects-content-hd-1610-Data.db'), > > SSTableReader(path='/var/lib/cassandra/data/largeobjects/content/largeobjects-content-hd-1608-Data.db'), > > SSTable > > Reader(path='/var/lib/cassandra/data/largeobjects/content/largeobjects-content-hd-1609-Data.db'), > > SSTableReader(path='/var/lib/cassandra/data/largeobjects/co > > ntent/largeobjects-content-hd-1607-Data.db')] > > INFO [OptionalTasks:1] 2012-07-04 19:56:05,786 MeteredFlusher.java (line > > 62) flushing high-traffic column family CFS(Keyspace='largeobjects', > > ColumnFamily=' > > content') (estimated 28300225 bytes) > > INFO [OptionalTasks:1] 2012-07-04 19:56:05,786 ColumnFamilyStore.java (line > > 633) Enqueuing flush of Memtable-content@1828084851(2264018/28300225 > > serialized/ > > live bytes, 38 ops) > > INFO [FlushWriter:9] 2012-07-04 19:56:05,787 Memtable.java (line 266) > > Writing Memtable-content@1828084851(2264018/28300225 serialized/live bytes, > > 38 ops) > > INFO [FlushWriter:9] 2012-07-04 19:56:05,823 Memtable.java (line 307) > > Completed flushing > > /var/lib/cassandra/data/largeobjects/content/largeobjects-content-h > > d-1612-Data.db (1134604 bytes) for commitlog position > > ReplayPosition(segmentId=24245436475633, position=88874176) > > ERROR [CompactionExecutor:39] 2012-07-04 19:56:06,667 > > AbstractCassandraDaemon.java (line 134) Exception in thread > > Thread[CompactionExecutor:39,1,main] > > java.io.IOError: org.apache.cassandra.io.compress.CorruptedBlockException: > > (/var/lib/cassandra/data/largeobjects/content/largeobjects-content-hd-1610-Data.db > > ): corruption detected, chunk at 1573104 of length 65545. > > at > > org.apache.cassandra.db.compaction.PrecompactedRow.merge(PrecompactedRow.java:116) > > at > > org.apache.cassandra.db.compaction.PrecompactedRow.<init>(PrecompactedRow.java:99) > > at > > org.apache.cassandra.db.compaction.CompactionController.getCompactedRow(CompactionController.java:164) > > at > > org.apache.cassandra.db.compaction.CompactionIterable$Reducer.getReduced(CompactionIterable.java:83) > > at > > org.apache.cassandra.db.compaction.CompactionIterable$Reducer.getReduced(CompactionIterable.java:68) > > at > > org.apache.cassandra.utils.MergeIterator$ManyToOne.consume(MergeIterator.java:118) > > at > > org.apache.cassandra.utils.MergeIterator$ManyToOne.computeNext(MergeIterator.java:101) > > at > > com.google.common.collect.AbstractIterator.tryToComputeNext(AbstractIterator.java:140) > > at > > com.google.common.collect.AbstractIterator.hasNext(AbstractIterator.java:135) > > at com.google.common.collect.Iterators$7.computeNext(Iterators.java:614) > > at > > com.google.common.collect.AbstractIterator.tryToComputeNext(AbstractIterator.java:140) > > at > > com.google.common.collect.AbstractIterator.hasNext(AbstractIterator.java:135) > > at > > org.apache.cassandra.db.compaction.CompactionTask.execute(CompactionTask.java:173) > > at > > org.apache.cassandra.db.compaction.CompactionManager$1.runMayThrow(CompactionManager.java:150) > > at org.apache.cassandra.utils.WrappedRunnable.run(WrappedRunnable.java:30) > > at java.util.concurrent.Executors$RunnableAdapter.call(Executors.java:471) > > at java.util.concurrent.FutureTask$Sync.innerRun(FutureTask.java:334) > > at java.util.concurrent.FutureTask.run(FutureTask.java:166) > > at > > java.util.concurrent.ThreadPoolExecutor.runWorker(ThreadPoolExecutor.java:1110) > > at > > java.util.concurrent.ThreadPoolExecutor$Worker.run(ThreadPoolExecutor.java:603) > > at java.lang.Thread.run(Thread.java:679) > > Caused by: org.apache.cassandra.io.compress.CorruptedBlockException: > > (/var/lib/cassandra/data/largeobjects/content/largeobjects-content-hd-1610-Data.db): > > cor > > ruption detected, chunk at 1573104 of length 65545. > > at > > org.apache.cassandra.io.compress.CompressedRandomAccessReader.decompressChunk(CompressedRandomAccessReader.java:98) > > at > > org.apache.cassandra.io.compress.CompressedRandomAccessReader.reBuffer(CompressedRandomAccessReader.java:77) > > at > > org.apache.cassandra.io.util.RandomAccessReader.read(RandomAccessReader.java:302) > > at java.io.RandomAccessFile.readFully(RandomAccessFile.java:414) > > at java.io.RandomAccessFile.readFully(RandomAccessFile.java:394) > > at > > org.apache.cassandra.utils.BytesReadTracker.readFully(BytesReadTracker.java:95) > > at org.apache.cassandra.utils.ByteBufferUtil.read(ByteBufferUtil.java:401) > > at > > org.apache.cassandra.utils.ByteBufferUtil.readWithLength(ByteBufferUtil.java:363) > > at > > org.apache.cassandra.db.ColumnSerializer.deserialize(ColumnSerializer.java:119) > > at > > org.apache.cassandra.db.ColumnSerializer.deserialize(ColumnSerializer.java:36) > > at > > org.apache.cassandra.db.ColumnFamilySerializer.deserializeColumns(ColumnFamilySerializer.java:144) > > at > > org.apache.cassandra.io.sstable.SSTableIdentityIterator.getColumnFamilyWithColumns(SSTableIdentityIterator.java:234) > > at > > org.apache.cassandra.db.compaction.PrecompactedRow.merge(PrecompactedRow.java:112) > > ... 20 more > > INFO [OptionalTasks:1] 2012-07-04 19:57:00,796 MeteredFlusher.java (line > > 62) flushing high-traffic column family CFS(Keyspace='largeobjects', > > ColumnFamily=' > > content') (estimated 38711275 bytes) > > INFO [OptionalTasks:1] 2012-07-04 19:57:00,796 ColumnFamilyStore.java (line > > 633) Enqueuing flush of Memtable-content@1363920595(3096902/38711275 > > serialized/ > > live bytes, 74 ops) > > INFO [FlushWriter:9] 2012-07-04 19:57:00,796 Memtable.java (line 266) > > Writing Memtable-content@1363920595(3096902/38711275 serialized/live bytes, > > 74 ops) > > INFO [FlushWriter:9] 2012-07-04 19:57:00,821 Memtable.java (line 307) > > Completed flushing > > /var/lib/cassandra/data/largeobjects/content/largeobjects-content-h > > d-1613-Data.db (1553451 bytes) for commitlog position > > ReplayPosition(segmentId=24245436475633, position=91981808) > > INFO [CompactionExecutor:40] 2012-07-04 19:57:00,822 CompactionTask.java > > (line 109) Compacting > > [SSTableReader(path='/var/lib/cassandra/data/largeobjects/con > > tent/largeobjects-content-hd-1610-Data.db'), > > SSTableReader(path='/var/lib/cassandra/data/largeobjects/content/largeobjects-content-hd-1613-Data.db'), > > SSTable > > Reader(path='/var/lib/cassandra/data/largeobjects/content/largeobjects-content-hd-1608-Data.db'), > > SSTableReader(path='/var/lib/cassandra/data/largeobjects/co > > ntent/largeobjects-content-hd-1609-Data.db'), > > SSTableReader(path='/var/lib/cassandra/data/largeobjects/content/largeobjects-content-hd-1607-Data.db'), > > SSTabl > > eReader(path='/var/lib/cassandra/data/largeobjects/content/largeobjects-content-hd-1612-Data.db')] > > INFO [OptionalTasks:1] 2012-07-04 19:57:01,797 MeteredFlusher.java (line > > 62) flushing high-traffic column family CFS(Keyspace='largeobjects', > > ColumnFamily=' > > content') (estimated 27750950 bytes) > > INFO [OptionalTasks:1] 2012-07-04 19:57:01,797 ColumnFamilyStore.java (line > > 633) Enqueuing flush of Memtable-content@289600485(2220076/27750950 > > serialized/l > > ive bytes, 70 ops) > > INFO [FlushWriter:9] 2012-07-04 19:57:01,797 Memtable.java (line 266) > > Writing Memtable-content@289600485(2220076/27750950 serialized/live bytes, > > 70 ops) > > INFO [FlushWriter:9] 2012-07-04 19:57:01,819 Memtable.java (line 307) > > Completed flushing > > /var/lib/cassandra/data/largeobjects/content/largeobjects-content-h > > d-1615-Data.db (1114538 bytes) for commitlog position > > ReplayPosition(segmentId=24245436475633, position=94212034) > > ERROR [ReadStage:263] 2012-07-04 19:57:02,599 AbstractCassandraDaemon.java > > (line 134) Exception in thread Thread[ReadStage:263,5,main] > > java.lang.RuntimeException: java.lang.RuntimeException: error reading 1 of 1 > > at > > org.apache.cassandra.service.StorageProxy$DroppableRunnable.run(StorageProxy.java:1254) > > at > > java.util.concurrent.ThreadPoolExecutor.runWorker(ThreadPoolExecutor.java:1110) > > at > > java.util.concurrent.ThreadPoolExecutor$Worker.run(ThreadPoolExecutor.java:603) > > at java.lang.Thread.run(Thread.java:679) > > Caused by: java.lang.RuntimeException: error reading 1 of 1 > > at > > org.apache.cassandra.db.columniterator.SimpleSliceReader.computeNext(SimpleSliceReader.java:83) > > at > > org.apache.cassandra.db.columniterator.SimpleSliceReader.computeNext(SimpleSliceReader.java:39) > > at > > com.google.common.collect.AbstractIterator.tryToComputeNext(AbstractIterator.java:140) > > at > > com.google.common.collect.AbstractIterator.hasNext(AbstractIterator.java:135) > > at > > org.apache.cassandra.db.columniterator.SSTableSliceIterator.hasNext(SSTableSliceIterator.java:108) > > at > > org.apache.cassandra.utils.MergeIterator$Candidate.advance(MergeIterator.java:147) > > at > > org.apache.cassandra.utils.MergeIterator$ManyToOne.<init>(MergeIterator.java:90) > > at org.apache.cassandra.utils.MergeIterator.get(MergeIterator.java:47) > > at > > org.apache.cassandra.db.filter.QueryFilter.collateColumns(QueryFilter.java:137) > > at > > org.apache.cassandra.db.CollationController.collectAllData(CollationController.java:283) > > at > > org.apache.cassandra.db.CollationController.getTopLevelColumns(CollationController.java:63) > > at > > org.apache.cassandra.db.ColumnFamilyStore.getTopLevelColumns(ColumnFamilyStore.java:1321) > > > > > > > > > > _______________________________________________ > > This message may contain information that is confidential or privileged. 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