[jira] [Commented] (HBASE-12949) Scanner can be stuck in infinite loop if the HFile is corrupted
[
https://issues.apache.org/jira/browse/HBASE-12949?page=com.atlassian.jira.plugin.system.issuetabpanels:comment-tabpanel&focusedCommentId=15511932#comment-15511932
]
Hudson commented on HBASE-12949:
FAILURE: Integrated in Jenkins build HBase-1.4 #421 (See
[https://builds.apache.org/job/HBase-1.4/421/])
HBASE-12949 Scanner can be stuck in infinite loop if the HFile is (jerryjch:
rev c80d671a062737c806d4e20a992443e9b6b86b02)
* (edit)
hbase-server/src/main/java/org/apache/hadoop/hbase/io/hfile/HFileReaderV2.java
> Scanner can be stuck in infinite loop if the HFile is corrupted
> ---
>
> Key: HBASE-12949
> URL: https://issues.apache.org/jira/browse/HBASE-12949
> Project: HBase
> Issue Type: Bug
>Affects Versions: 0.94.3, 0.98.10
>Reporter: Jerry He
>Assignee: Jerry He
> Fix For: 2.0.0, 1.4.0
>
> Attachments: HBASE-12949-branch-1-v3.patch, HBASE-12949-master-v2
> (1).patch, HBASE-12949-master-v2.patch, HBASE-12949-master-v2.patch,
> HBASE-12949-master-v2.patch, HBASE-12949-master-v3.patch,
> HBASE-12949-master.patch
>
>
> We've encountered problem where compaction hangs and never completes.
> After looking into it further, we found that the compaction scanner was stuck
> in a infinite loop. See stack below.
> {noformat}
> org.apache.hadoop.hbase.regionserver.KeyValueHeap.generalizedSeek(KeyValueHeap.java:296)
> org.apache.hadoop.hbase.regionserver.KeyValueHeap.reseek(KeyValueHeap.java:257)
> org.apache.hadoop.hbase.regionserver.StoreScanner.reseek(StoreScanner.java:697)
> org.apache.hadoop.hbase.regionserver.StoreScanner.seekToNextRow(StoreScanner.java:672)
> org.apache.hadoop.hbase.regionserver.StoreScanner.next(StoreScanner.java:529)
> org.apache.hadoop.hbase.regionserver.compactions.Compactor.performCompaction(Compactor.java:223)
> {noformat}
> We identified the hfile that seems to be corrupted. Using HFile tool shows
> the following:
> {noformat}
> [biadmin@hdtest009 bin]$ hbase org.apache.hadoop.hbase.io.hfile.HFile -v -k
> -m -f
> /user/biadmin/CUMMINS_INSITE_V1/7106432d294dd844be15996ccbf2ba84/attributes/f1a7e3113c2c4047ac1fc8fbcb41d8b7
> 15/01/23 11:53:17 INFO Configuration.deprecation: hadoop.native.lib is
> deprecated. Instead, use io.native.lib.available
> 15/01/23 11:53:18 INFO util.ChecksumType: Checksum using
> org.apache.hadoop.util.PureJavaCrc32
> 15/01/23 11:53:18 INFO util.ChecksumType: Checksum can use
> org.apache.hadoop.util.PureJavaCrc32C
> 15/01/23 11:53:18 INFO Configuration.deprecation: fs.default.name is
> deprecated. Instead, use fs.defaultFS
> Scanning ->
> /user/biadmin/CUMMINS_INSITE_V1/7106432d294dd844be15996ccbf2ba84/attributes/f1a7e3113c2c4047ac1fc8fbcb41d8b7
> WARNING, previous row is greater then current row
> filename ->
> /user/biadmin/CUMMINS_INSITE_V1/7106432d294dd844be15996ccbf2ba84/attributes/f1a7e3113c2c4047ac1fc8fbcb41d8b7
> previous ->
> \x00/20110203-094231205-79442793-1410161293068203000\x0Aattributes16794406\x00\x00\x01\x00\x00\x00\x00\x00\x00
> current ->
> Exception in thread "main" java.nio.BufferUnderflowException
> at java.nio.Buffer.nextGetIndex(Buffer.java:489)
> at java.nio.HeapByteBuffer.getInt(HeapByteBuffer.java:347)
> at
> org.apache.hadoop.hbase.io.hfile.HFileReaderV2$ScannerV2.readKeyValueLen(HFileReaderV2.java:856)
> at
> org.apache.hadoop.hbase.io.hfile.HFileReaderV2$ScannerV2.next(HFileReaderV2.java:768)
> at
> org.apache.hadoop.hbase.io.hfile.HFilePrettyPrinter.scanKeysValues(HFilePrettyPrinter.java:362)
> at
> org.apache.hadoop.hbase.io.hfile.HFilePrettyPrinter.processFile(HFilePrettyPrinter.java:262)
> at
> org.apache.hadoop.hbase.io.hfile.HFilePrettyPrinter.run(HFilePrettyPrinter.java:220)
> at org.apache.hadoop.util.ToolRunner.run(ToolRunner.java:70)
> at
> org.apache.hadoop.hbase.io.hfile.HFilePrettyPrinter.main(HFilePrettyPrinter.java:539)
> at org.apache.hadoop.hbase.io.hfile.HFile.main(HFile.java:802)
> {noformat}
> Turning on Java Assert shows the following:
> {noformat}
> Exception in thread "main" java.lang.AssertionError: Key
> 20110203-094231205-79442793-1410161293068203000/attributes:16794406/1099511627776/Minimum/vlen=15/mvcc=0
> followed by a smaller key //0/Minimum/vlen=0/mvcc=0 in cf attributes
> at
> org.apache.hadoop.hbase.regionserver.StoreScanner.checkScanOrder(StoreScanner.java:672)
> {noformat}
> It shows that the hfile seems to be corrupted -- the keys don't seem to be
> right.
> But Scanner is not able to give a meaningful error, but stuck in an infinite
> loop in here:
> {code}
> KeyValueHeap.generalizedSeek()
> while ((scanner = heap.poll()) != null) {
> }
> {code}
--
This message was sent by Atlassian JIRA
(v6.3.4#6332)
[jira] [Commented] (HBASE-12949) Scanner can be stuck in infinite loop if the HFile is corrupted
[
https://issues.apache.org/jira/browse/HBASE-12949?page=com.atlassian.jira.plugin.system.issuetabpanels:comment-tabpanel&focusedCommentId=15511569#comment-15511569
]
Hudson commented on HBASE-12949:
SUCCESS: Integrated in Jenkins build HBase-Trunk_matrix #1649 (See
[https://builds.apache.org/job/HBase-Trunk_matrix/1649/])
HBASE-12949 Scanner can be stuck in infinite loop if the HFile is (jerryjch:
rev b6b01a790f600d4699450e2e97349599c9efc0e1)
* (edit)
hbase-server/src/main/java/org/apache/hadoop/hbase/io/hfile/HFileReaderImpl.java
> Scanner can be stuck in infinite loop if the HFile is corrupted
> ---
>
> Key: HBASE-12949
> URL: https://issues.apache.org/jira/browse/HBASE-12949
> Project: HBase
> Issue Type: Bug
>Affects Versions: 0.94.3, 0.98.10
>Reporter: Jerry He
>Assignee: Jerry He
> Fix For: 2.0.0, 1.4.0
>
> Attachments: HBASE-12949-branch-1-v3.patch, HBASE-12949-master-v2
> (1).patch, HBASE-12949-master-v2.patch, HBASE-12949-master-v2.patch,
> HBASE-12949-master-v2.patch, HBASE-12949-master-v3.patch,
> HBASE-12949-master.patch
>
>
> We've encountered problem where compaction hangs and never completes.
> After looking into it further, we found that the compaction scanner was stuck
> in a infinite loop. See stack below.
> {noformat}
> org.apache.hadoop.hbase.regionserver.KeyValueHeap.generalizedSeek(KeyValueHeap.java:296)
> org.apache.hadoop.hbase.regionserver.KeyValueHeap.reseek(KeyValueHeap.java:257)
> org.apache.hadoop.hbase.regionserver.StoreScanner.reseek(StoreScanner.java:697)
> org.apache.hadoop.hbase.regionserver.StoreScanner.seekToNextRow(StoreScanner.java:672)
> org.apache.hadoop.hbase.regionserver.StoreScanner.next(StoreScanner.java:529)
> org.apache.hadoop.hbase.regionserver.compactions.Compactor.performCompaction(Compactor.java:223)
> {noformat}
> We identified the hfile that seems to be corrupted. Using HFile tool shows
> the following:
> {noformat}
> [biadmin@hdtest009 bin]$ hbase org.apache.hadoop.hbase.io.hfile.HFile -v -k
> -m -f
> /user/biadmin/CUMMINS_INSITE_V1/7106432d294dd844be15996ccbf2ba84/attributes/f1a7e3113c2c4047ac1fc8fbcb41d8b7
> 15/01/23 11:53:17 INFO Configuration.deprecation: hadoop.native.lib is
> deprecated. Instead, use io.native.lib.available
> 15/01/23 11:53:18 INFO util.ChecksumType: Checksum using
> org.apache.hadoop.util.PureJavaCrc32
> 15/01/23 11:53:18 INFO util.ChecksumType: Checksum can use
> org.apache.hadoop.util.PureJavaCrc32C
> 15/01/23 11:53:18 INFO Configuration.deprecation: fs.default.name is
> deprecated. Instead, use fs.defaultFS
> Scanning ->
> /user/biadmin/CUMMINS_INSITE_V1/7106432d294dd844be15996ccbf2ba84/attributes/f1a7e3113c2c4047ac1fc8fbcb41d8b7
> WARNING, previous row is greater then current row
> filename ->
> /user/biadmin/CUMMINS_INSITE_V1/7106432d294dd844be15996ccbf2ba84/attributes/f1a7e3113c2c4047ac1fc8fbcb41d8b7
> previous ->
> \x00/20110203-094231205-79442793-1410161293068203000\x0Aattributes16794406\x00\x00\x01\x00\x00\x00\x00\x00\x00
> current ->
> Exception in thread "main" java.nio.BufferUnderflowException
> at java.nio.Buffer.nextGetIndex(Buffer.java:489)
> at java.nio.HeapByteBuffer.getInt(HeapByteBuffer.java:347)
> at
> org.apache.hadoop.hbase.io.hfile.HFileReaderV2$ScannerV2.readKeyValueLen(HFileReaderV2.java:856)
> at
> org.apache.hadoop.hbase.io.hfile.HFileReaderV2$ScannerV2.next(HFileReaderV2.java:768)
> at
> org.apache.hadoop.hbase.io.hfile.HFilePrettyPrinter.scanKeysValues(HFilePrettyPrinter.java:362)
> at
> org.apache.hadoop.hbase.io.hfile.HFilePrettyPrinter.processFile(HFilePrettyPrinter.java:262)
> at
> org.apache.hadoop.hbase.io.hfile.HFilePrettyPrinter.run(HFilePrettyPrinter.java:220)
> at org.apache.hadoop.util.ToolRunner.run(ToolRunner.java:70)
> at
> org.apache.hadoop.hbase.io.hfile.HFilePrettyPrinter.main(HFilePrettyPrinter.java:539)
> at org.apache.hadoop.hbase.io.hfile.HFile.main(HFile.java:802)
> {noformat}
> Turning on Java Assert shows the following:
> {noformat}
> Exception in thread "main" java.lang.AssertionError: Key
> 20110203-094231205-79442793-1410161293068203000/attributes:16794406/1099511627776/Minimum/vlen=15/mvcc=0
> followed by a smaller key //0/Minimum/vlen=0/mvcc=0 in cf attributes
> at
> org.apache.hadoop.hbase.regionserver.StoreScanner.checkScanOrder(StoreScanner.java:672)
> {noformat}
> It shows that the hfile seems to be corrupted -- the keys don't seem to be
> right.
> But Scanner is not able to give a meaningful error, but stuck in an infinite
> loop in here:
> {code}
> KeyValueHeap.generalizedSeek()
> while ((scanner = heap.poll()) != null) {
> }
> {code}
--
This message was sent by Atlassian JIRA
(v6.3.4#6332)
[jira] [Commented] (HBASE-12949) Scanner can be stuck in infinite loop if the HFile is corrupted
[
https://issues.apache.org/jira/browse/HBASE-12949?page=com.atlassian.jira.plugin.system.issuetabpanels:comment-tabpanel&focusedCommentId=15511105#comment-15511105
]
Jerry He commented on HBASE-12949:
--
I committed v3 patch (after rebase) finally. Thanks for the review [~stack],
[~tedyu] (a while back).
> Scanner can be stuck in infinite loop if the HFile is corrupted
> ---
>
> Key: HBASE-12949
> URL: https://issues.apache.org/jira/browse/HBASE-12949
> Project: HBase
> Issue Type: Bug
>Affects Versions: 0.94.3, 0.98.10
>Reporter: Jerry He
> Attachments: HBASE-12949-branch-1-v3.patch, HBASE-12949-master-v2
> (1).patch, HBASE-12949-master-v2.patch, HBASE-12949-master-v2.patch,
> HBASE-12949-master-v2.patch, HBASE-12949-master-v3.patch,
> HBASE-12949-master.patch
>
>
> We've encountered problem where compaction hangs and never completes.
> After looking into it further, we found that the compaction scanner was stuck
> in a infinite loop. See stack below.
> {noformat}
> org.apache.hadoop.hbase.regionserver.KeyValueHeap.generalizedSeek(KeyValueHeap.java:296)
> org.apache.hadoop.hbase.regionserver.KeyValueHeap.reseek(KeyValueHeap.java:257)
> org.apache.hadoop.hbase.regionserver.StoreScanner.reseek(StoreScanner.java:697)
> org.apache.hadoop.hbase.regionserver.StoreScanner.seekToNextRow(StoreScanner.java:672)
> org.apache.hadoop.hbase.regionserver.StoreScanner.next(StoreScanner.java:529)
> org.apache.hadoop.hbase.regionserver.compactions.Compactor.performCompaction(Compactor.java:223)
> {noformat}
> We identified the hfile that seems to be corrupted. Using HFile tool shows
> the following:
> {noformat}
> [biadmin@hdtest009 bin]$ hbase org.apache.hadoop.hbase.io.hfile.HFile -v -k
> -m -f
> /user/biadmin/CUMMINS_INSITE_V1/7106432d294dd844be15996ccbf2ba84/attributes/f1a7e3113c2c4047ac1fc8fbcb41d8b7
> 15/01/23 11:53:17 INFO Configuration.deprecation: hadoop.native.lib is
> deprecated. Instead, use io.native.lib.available
> 15/01/23 11:53:18 INFO util.ChecksumType: Checksum using
> org.apache.hadoop.util.PureJavaCrc32
> 15/01/23 11:53:18 INFO util.ChecksumType: Checksum can use
> org.apache.hadoop.util.PureJavaCrc32C
> 15/01/23 11:53:18 INFO Configuration.deprecation: fs.default.name is
> deprecated. Instead, use fs.defaultFS
> Scanning ->
> /user/biadmin/CUMMINS_INSITE_V1/7106432d294dd844be15996ccbf2ba84/attributes/f1a7e3113c2c4047ac1fc8fbcb41d8b7
> WARNING, previous row is greater then current row
> filename ->
> /user/biadmin/CUMMINS_INSITE_V1/7106432d294dd844be15996ccbf2ba84/attributes/f1a7e3113c2c4047ac1fc8fbcb41d8b7
> previous ->
> \x00/20110203-094231205-79442793-1410161293068203000\x0Aattributes16794406\x00\x00\x01\x00\x00\x00\x00\x00\x00
> current ->
> Exception in thread "main" java.nio.BufferUnderflowException
> at java.nio.Buffer.nextGetIndex(Buffer.java:489)
> at java.nio.HeapByteBuffer.getInt(HeapByteBuffer.java:347)
> at
> org.apache.hadoop.hbase.io.hfile.HFileReaderV2$ScannerV2.readKeyValueLen(HFileReaderV2.java:856)
> at
> org.apache.hadoop.hbase.io.hfile.HFileReaderV2$ScannerV2.next(HFileReaderV2.java:768)
> at
> org.apache.hadoop.hbase.io.hfile.HFilePrettyPrinter.scanKeysValues(HFilePrettyPrinter.java:362)
> at
> org.apache.hadoop.hbase.io.hfile.HFilePrettyPrinter.processFile(HFilePrettyPrinter.java:262)
> at
> org.apache.hadoop.hbase.io.hfile.HFilePrettyPrinter.run(HFilePrettyPrinter.java:220)
> at org.apache.hadoop.util.ToolRunner.run(ToolRunner.java:70)
> at
> org.apache.hadoop.hbase.io.hfile.HFilePrettyPrinter.main(HFilePrettyPrinter.java:539)
> at org.apache.hadoop.hbase.io.hfile.HFile.main(HFile.java:802)
> {noformat}
> Turning on Java Assert shows the following:
> {noformat}
> Exception in thread "main" java.lang.AssertionError: Key
> 20110203-094231205-79442793-1410161293068203000/attributes:16794406/1099511627776/Minimum/vlen=15/mvcc=0
> followed by a smaller key //0/Minimum/vlen=0/mvcc=0 in cf attributes
> at
> org.apache.hadoop.hbase.regionserver.StoreScanner.checkScanOrder(StoreScanner.java:672)
> {noformat}
> It shows that the hfile seems to be corrupted -- the keys don't seem to be
> right.
> But Scanner is not able to give a meaningful error, but stuck in an infinite
> loop in here:
> {code}
> KeyValueHeap.generalizedSeek()
> while ((scanner = heap.poll()) != null) {
> }
> {code}
--
This message was sent by Atlassian JIRA
(v6.3.4#6332)
[jira] [Commented] (HBASE-12949) Scanner can be stuck in infinite loop if the HFile is corrupted
[
https://issues.apache.org/jira/browse/HBASE-12949?page=com.atlassian.jira.plugin.system.issuetabpanels:comment-tabpanel&focusedCommentId=15508717#comment-15508717
]
Hadoop QA commented on HBASE-12949:
---
| (x) *{color:red}-1 overall{color}* |
\\
\\
|| Vote || Subsystem || Runtime || Comment ||
| {color:blue}0{color} | {color:blue} reexec {color} | {color:blue} 12m 6s
{color} | {color:blue} Docker mode activated. {color} |
| {color:green}+1{color} | {color:green} @author {color} | {color:green} 0m 0s
{color} | {color:green} The patch does not contain any @author tags. {color} |
| {color:red}-1{color} | {color:red} test4tests {color} | {color:red} 0m 0s
{color} | {color:red} The patch doesn't appear to include any new or modified
tests. Please justify why no new tests are needed for this patch. Also please
list what manual steps were performed to verify this patch. {color} |
| {color:green}+1{color} | {color:green} mvninstall {color} | {color:green} 10m
23s {color} | {color:green} master passed {color} |
| {color:green}+1{color} | {color:green} compile {color} | {color:green} 1m 7s
{color} | {color:green} master passed {color} |
| {color:green}+1{color} | {color:green} checkstyle {color} | {color:green} 1m
1s {color} | {color:green} master passed {color} |
| {color:green}+1{color} | {color:green} mvneclipse {color} | {color:green} 0m
19s {color} | {color:green} master passed {color} |
| {color:green}+1{color} | {color:green} findbugs {color} | {color:green} 2m 1s
{color} | {color:green} master passed {color} |
| {color:green}+1{color} | {color:green} javadoc {color} | {color:green} 0m 50s
{color} | {color:green} master passed {color} |
| {color:green}+1{color} | {color:green} mvninstall {color} | {color:green} 1m
33s {color} | {color:green} the patch passed {color} |
| {color:green}+1{color} | {color:green} compile {color} | {color:green} 1m 11s
{color} | {color:green} the patch passed {color} |
| {color:green}+1{color} | {color:green} javac {color} | {color:green} 1m 11s
{color} | {color:green} the patch passed {color} |
| {color:green}+1{color} | {color:green} checkstyle {color} | {color:green} 0m
50s {color} | {color:green} the patch passed {color} |
| {color:green}+1{color} | {color:green} mvneclipse {color} | {color:green} 0m
18s {color} | {color:green} the patch passed {color} |
| {color:green}+1{color} | {color:green} whitespace {color} | {color:green} 0m
0s {color} | {color:green} The patch has no whitespace issues. {color} |
| {color:green}+1{color} | {color:green} hadoopcheck {color} | {color:green}
42m 4s {color} | {color:green} Patch does not cause any errors with Hadoop
2.4.0 2.4.1 2.5.0 2.5.1 2.5.2 2.6.1 2.6.2 2.6.3 2.7.1. {color} |
| {color:green}+1{color} | {color:green} hbaseprotoc {color} | {color:green} 0m
22s {color} | {color:green} the patch passed {color} |
| {color:green}+1{color} | {color:green} findbugs {color} | {color:green} 2m 4s
{color} | {color:green} the patch passed {color} |
| {color:green}+1{color} | {color:green} javadoc {color} | {color:green} 0m 47s
{color} | {color:green} the patch passed {color} |
| {color:red}-1{color} | {color:red} unit {color} | {color:red} 120m 56s
{color} | {color:red} hbase-server in the patch failed. {color} |
| {color:green}+1{color} | {color:green} asflicense {color} | {color:green} 0m
54s {color} | {color:green} The patch does not generate ASF License warnings.
{color} |
| {color:black}{color} | {color:black} {color} | {color:black} 200m 5s {color}
| {color:black} {color} |
\\
\\
|| Reason || Tests ||
| Failed junit tests |
hadoop.hbase.master.procedure.TestMasterFailoverWithProcedures |
| | hadoop.hbase.replication.TestMasterReplication |
| | hadoop.hbase.master.TestAssignmentManagerMetrics |
| | hadoop.hbase.master.procedure.TestWALProcedureStoreOnHDFS |
| Timed out junit tests | org.apache.hadoop.hbase.client.TestAdmin1 |
| | org.apache.hadoop.hbase.client.TestHCM |
| | org.apache.hadoop.hbase.client.TestMobRestoreSnapshotFromClient |
| |
org.apache.hadoop.hbase.client.TestCloneSnapshotFromClientWithRegionReplicas |
| | org.apache.hadoop.hbase.client.TestCloneSnapshotFromClient |
\\
\\
|| Subsystem || Report/Notes ||
| Docker | Client=1.11.2 Server=1.11.2 Image:yetus/hbase:7bda515 |
| JIRA Patch URL |
https://issues.apache.org/jira/secure/attachment/12829477/HBASE-12949-master-v3.patch
|
| JIRA Issue | HBASE-12949 |
| Optional Tests | asflicense javac javadoc unit findbugs hadoopcheck
hbaseanti checkstyle compile |
| uname | Linux 07a8b5f9188d 3.13.0-92-generic #139-Ubuntu SMP Tue Jun 28
20:42:26 UTC 2016 x86_64 x86_64 x86_64 GNU/Linux |
| Build tool | maven |
| Personality |
/home/jenkins/jenkins-slave/workspace/PreCommit-HBASE-Build/component/dev-support/hbase-personality.sh
|
| git revision | master / 6624c67 |
| Default Java | 1.8.0_101 |
| findbugs | v3.0.0 |
| unit |
https://builds.apache.org/job/PreCommit-HBASE-Build/3623/artifact/
[jira] [Commented] (HBASE-12949) Scanner can be stuck in infinite loop if the HFile is corrupted
[
https://issues.apache.org/jira/browse/HBASE-12949?page=com.atlassian.jira.plugin.system.issuetabpanels:comment-tabpanel&focusedCommentId=15332551#comment-15332551
]
Jerry He commented on HBASE-12949:
--
Hi, [~stack]
Good question. We suppose hbase checksum and then hdfs checksum will kick in
and hopefully report the corruption and not getting 'stuck'.
IIRC in this particular case that we saw this problem the FileSystem checksum
was not fully working (on GPFS).
I think the fix (a little enhancement to sanity check of the key len) is still
worth going in.
> Scanner can be stuck in infinite loop if the HFile is corrupted
> ---
>
> Key: HBASE-12949
> URL: https://issues.apache.org/jira/browse/HBASE-12949
> Project: HBase
> Issue Type: Bug
>Affects Versions: 0.94.3, 0.98.10
>Reporter: Jerry He
> Attachments: HBASE-12949-master-v2 (1).patch,
> HBASE-12949-master-v2.patch, HBASE-12949-master-v2.patch,
> HBASE-12949-master-v2.patch, HBASE-12949-master.patch
>
>
> We've encountered problem where compaction hangs and never completes.
> After looking into it further, we found that the compaction scanner was stuck
> in a infinite loop. See stack below.
> {noformat}
> org.apache.hadoop.hbase.regionserver.KeyValueHeap.generalizedSeek(KeyValueHeap.java:296)
> org.apache.hadoop.hbase.regionserver.KeyValueHeap.reseek(KeyValueHeap.java:257)
> org.apache.hadoop.hbase.regionserver.StoreScanner.reseek(StoreScanner.java:697)
> org.apache.hadoop.hbase.regionserver.StoreScanner.seekToNextRow(StoreScanner.java:672)
> org.apache.hadoop.hbase.regionserver.StoreScanner.next(StoreScanner.java:529)
> org.apache.hadoop.hbase.regionserver.compactions.Compactor.performCompaction(Compactor.java:223)
> {noformat}
> We identified the hfile that seems to be corrupted. Using HFile tool shows
> the following:
> {noformat}
> [biadmin@hdtest009 bin]$ hbase org.apache.hadoop.hbase.io.hfile.HFile -v -k
> -m -f
> /user/biadmin/CUMMINS_INSITE_V1/7106432d294dd844be15996ccbf2ba84/attributes/f1a7e3113c2c4047ac1fc8fbcb41d8b7
> 15/01/23 11:53:17 INFO Configuration.deprecation: hadoop.native.lib is
> deprecated. Instead, use io.native.lib.available
> 15/01/23 11:53:18 INFO util.ChecksumType: Checksum using
> org.apache.hadoop.util.PureJavaCrc32
> 15/01/23 11:53:18 INFO util.ChecksumType: Checksum can use
> org.apache.hadoop.util.PureJavaCrc32C
> 15/01/23 11:53:18 INFO Configuration.deprecation: fs.default.name is
> deprecated. Instead, use fs.defaultFS
> Scanning ->
> /user/biadmin/CUMMINS_INSITE_V1/7106432d294dd844be15996ccbf2ba84/attributes/f1a7e3113c2c4047ac1fc8fbcb41d8b7
> WARNING, previous row is greater then current row
> filename ->
> /user/biadmin/CUMMINS_INSITE_V1/7106432d294dd844be15996ccbf2ba84/attributes/f1a7e3113c2c4047ac1fc8fbcb41d8b7
> previous ->
> \x00/20110203-094231205-79442793-1410161293068203000\x0Aattributes16794406\x00\x00\x01\x00\x00\x00\x00\x00\x00
> current ->
> Exception in thread "main" java.nio.BufferUnderflowException
> at java.nio.Buffer.nextGetIndex(Buffer.java:489)
> at java.nio.HeapByteBuffer.getInt(HeapByteBuffer.java:347)
> at
> org.apache.hadoop.hbase.io.hfile.HFileReaderV2$ScannerV2.readKeyValueLen(HFileReaderV2.java:856)
> at
> org.apache.hadoop.hbase.io.hfile.HFileReaderV2$ScannerV2.next(HFileReaderV2.java:768)
> at
> org.apache.hadoop.hbase.io.hfile.HFilePrettyPrinter.scanKeysValues(HFilePrettyPrinter.java:362)
> at
> org.apache.hadoop.hbase.io.hfile.HFilePrettyPrinter.processFile(HFilePrettyPrinter.java:262)
> at
> org.apache.hadoop.hbase.io.hfile.HFilePrettyPrinter.run(HFilePrettyPrinter.java:220)
> at org.apache.hadoop.util.ToolRunner.run(ToolRunner.java:70)
> at
> org.apache.hadoop.hbase.io.hfile.HFilePrettyPrinter.main(HFilePrettyPrinter.java:539)
> at org.apache.hadoop.hbase.io.hfile.HFile.main(HFile.java:802)
> {noformat}
> Turning on Java Assert shows the following:
> {noformat}
> Exception in thread "main" java.lang.AssertionError: Key
> 20110203-094231205-79442793-1410161293068203000/attributes:16794406/1099511627776/Minimum/vlen=15/mvcc=0
> followed by a smaller key //0/Minimum/vlen=0/mvcc=0 in cf attributes
> at
> org.apache.hadoop.hbase.regionserver.StoreScanner.checkScanOrder(StoreScanner.java:672)
> {noformat}
> It shows that the hfile seems to be corrupted -- the keys don't seem to be
> right.
> But Scanner is not able to give a meaningful error, but stuck in an infinite
> loop in here:
> {code}
> KeyValueHeap.generalizedSeek()
> while ((scanner = heap.poll()) != null) {
> }
> {code}
--
This message was sent by Atlassian JIRA
(v6.3.4#6332)
[jira] [Commented] (HBASE-12949) Scanner can be stuck in infinite loop if the HFile is corrupted
[
https://issues.apache.org/jira/browse/HBASE-12949?page=com.atlassian.jira.plugin.system.issuetabpanels:comment-tabpanel&focusedCommentId=15329902#comment-15329902
]
stack commented on HBASE-12949:
---
Hmm... is there an outstanding issue here? Above it is asked...
bq. So, what you thinking on this issue Jerry He? How comes infinite loop if we
were supposed to have fallen back on hdfs block? Maybe that didn't happen in
this case? Or we need to throw a more violent exception?
Why would HDFS not give us a good replica to replace the one that hbase
checksum said was bad?
> Scanner can be stuck in infinite loop if the HFile is corrupted
> ---
>
> Key: HBASE-12949
> URL: https://issues.apache.org/jira/browse/HBASE-12949
> Project: HBase
> Issue Type: Bug
>Affects Versions: 0.94.3, 0.98.10
>Reporter: Jerry He
> Attachments: HBASE-12949-master-v2 (1).patch,
> HBASE-12949-master-v2.patch, HBASE-12949-master-v2.patch,
> HBASE-12949-master-v2.patch, HBASE-12949-master.patch
>
>
> We've encountered problem where compaction hangs and never completes.
> After looking into it further, we found that the compaction scanner was stuck
> in a infinite loop. See stack below.
> {noformat}
> org.apache.hadoop.hbase.regionserver.KeyValueHeap.generalizedSeek(KeyValueHeap.java:296)
> org.apache.hadoop.hbase.regionserver.KeyValueHeap.reseek(KeyValueHeap.java:257)
> org.apache.hadoop.hbase.regionserver.StoreScanner.reseek(StoreScanner.java:697)
> org.apache.hadoop.hbase.regionserver.StoreScanner.seekToNextRow(StoreScanner.java:672)
> org.apache.hadoop.hbase.regionserver.StoreScanner.next(StoreScanner.java:529)
> org.apache.hadoop.hbase.regionserver.compactions.Compactor.performCompaction(Compactor.java:223)
> {noformat}
> We identified the hfile that seems to be corrupted. Using HFile tool shows
> the following:
> {noformat}
> [biadmin@hdtest009 bin]$ hbase org.apache.hadoop.hbase.io.hfile.HFile -v -k
> -m -f
> /user/biadmin/CUMMINS_INSITE_V1/7106432d294dd844be15996ccbf2ba84/attributes/f1a7e3113c2c4047ac1fc8fbcb41d8b7
> 15/01/23 11:53:17 INFO Configuration.deprecation: hadoop.native.lib is
> deprecated. Instead, use io.native.lib.available
> 15/01/23 11:53:18 INFO util.ChecksumType: Checksum using
> org.apache.hadoop.util.PureJavaCrc32
> 15/01/23 11:53:18 INFO util.ChecksumType: Checksum can use
> org.apache.hadoop.util.PureJavaCrc32C
> 15/01/23 11:53:18 INFO Configuration.deprecation: fs.default.name is
> deprecated. Instead, use fs.defaultFS
> Scanning ->
> /user/biadmin/CUMMINS_INSITE_V1/7106432d294dd844be15996ccbf2ba84/attributes/f1a7e3113c2c4047ac1fc8fbcb41d8b7
> WARNING, previous row is greater then current row
> filename ->
> /user/biadmin/CUMMINS_INSITE_V1/7106432d294dd844be15996ccbf2ba84/attributes/f1a7e3113c2c4047ac1fc8fbcb41d8b7
> previous ->
> \x00/20110203-094231205-79442793-1410161293068203000\x0Aattributes16794406\x00\x00\x01\x00\x00\x00\x00\x00\x00
> current ->
> Exception in thread "main" java.nio.BufferUnderflowException
> at java.nio.Buffer.nextGetIndex(Buffer.java:489)
> at java.nio.HeapByteBuffer.getInt(HeapByteBuffer.java:347)
> at
> org.apache.hadoop.hbase.io.hfile.HFileReaderV2$ScannerV2.readKeyValueLen(HFileReaderV2.java:856)
> at
> org.apache.hadoop.hbase.io.hfile.HFileReaderV2$ScannerV2.next(HFileReaderV2.java:768)
> at
> org.apache.hadoop.hbase.io.hfile.HFilePrettyPrinter.scanKeysValues(HFilePrettyPrinter.java:362)
> at
> org.apache.hadoop.hbase.io.hfile.HFilePrettyPrinter.processFile(HFilePrettyPrinter.java:262)
> at
> org.apache.hadoop.hbase.io.hfile.HFilePrettyPrinter.run(HFilePrettyPrinter.java:220)
> at org.apache.hadoop.util.ToolRunner.run(ToolRunner.java:70)
> at
> org.apache.hadoop.hbase.io.hfile.HFilePrettyPrinter.main(HFilePrettyPrinter.java:539)
> at org.apache.hadoop.hbase.io.hfile.HFile.main(HFile.java:802)
> {noformat}
> Turning on Java Assert shows the following:
> {noformat}
> Exception in thread "main" java.lang.AssertionError: Key
> 20110203-094231205-79442793-1410161293068203000/attributes:16794406/1099511627776/Minimum/vlen=15/mvcc=0
> followed by a smaller key //0/Minimum/vlen=0/mvcc=0 in cf attributes
> at
> org.apache.hadoop.hbase.regionserver.StoreScanner.checkScanOrder(StoreScanner.java:672)
> {noformat}
> It shows that the hfile seems to be corrupted -- the keys don't seem to be
> right.
> But Scanner is not able to give a meaningful error, but stuck in an infinite
> loop in here:
> {code}
> KeyValueHeap.generalizedSeek()
> while ((scanner = heap.poll()) != null) {
> }
> {code}
--
This message was sent by Atlassian JIRA
(v6.3.4#6332)
[jira] [Commented] (HBASE-12949) Scanner can be stuck in infinite loop if the HFile is corrupted
[
https://issues.apache.org/jira/browse/HBASE-12949?page=com.atlassian.jira.plugin.system.issuetabpanels:comment-tabpanel&focusedCommentId=15329867#comment-15329867
]
stack commented on HBASE-12949:
---
What would we release not here [~jerryhe]? That we now are no longer stuck on a
bad section in an HFile? That we instead log error and fail compaction or throw
back to the client exception if they are trying to read from bad section but we
no longer get 'stuck'?
> Scanner can be stuck in infinite loop if the HFile is corrupted
> ---
>
> Key: HBASE-12949
> URL: https://issues.apache.org/jira/browse/HBASE-12949
> Project: HBase
> Issue Type: Bug
>Affects Versions: 0.94.3, 0.98.10
>Reporter: Jerry He
> Attachments: HBASE-12949-master-v2 (1).patch,
> HBASE-12949-master-v2.patch, HBASE-12949-master-v2.patch,
> HBASE-12949-master-v2.patch, HBASE-12949-master.patch
>
>
> We've encountered problem where compaction hangs and never completes.
> After looking into it further, we found that the compaction scanner was stuck
> in a infinite loop. See stack below.
> {noformat}
> org.apache.hadoop.hbase.regionserver.KeyValueHeap.generalizedSeek(KeyValueHeap.java:296)
> org.apache.hadoop.hbase.regionserver.KeyValueHeap.reseek(KeyValueHeap.java:257)
> org.apache.hadoop.hbase.regionserver.StoreScanner.reseek(StoreScanner.java:697)
> org.apache.hadoop.hbase.regionserver.StoreScanner.seekToNextRow(StoreScanner.java:672)
> org.apache.hadoop.hbase.regionserver.StoreScanner.next(StoreScanner.java:529)
> org.apache.hadoop.hbase.regionserver.compactions.Compactor.performCompaction(Compactor.java:223)
> {noformat}
> We identified the hfile that seems to be corrupted. Using HFile tool shows
> the following:
> {noformat}
> [biadmin@hdtest009 bin]$ hbase org.apache.hadoop.hbase.io.hfile.HFile -v -k
> -m -f
> /user/biadmin/CUMMINS_INSITE_V1/7106432d294dd844be15996ccbf2ba84/attributes/f1a7e3113c2c4047ac1fc8fbcb41d8b7
> 15/01/23 11:53:17 INFO Configuration.deprecation: hadoop.native.lib is
> deprecated. Instead, use io.native.lib.available
> 15/01/23 11:53:18 INFO util.ChecksumType: Checksum using
> org.apache.hadoop.util.PureJavaCrc32
> 15/01/23 11:53:18 INFO util.ChecksumType: Checksum can use
> org.apache.hadoop.util.PureJavaCrc32C
> 15/01/23 11:53:18 INFO Configuration.deprecation: fs.default.name is
> deprecated. Instead, use fs.defaultFS
> Scanning ->
> /user/biadmin/CUMMINS_INSITE_V1/7106432d294dd844be15996ccbf2ba84/attributes/f1a7e3113c2c4047ac1fc8fbcb41d8b7
> WARNING, previous row is greater then current row
> filename ->
> /user/biadmin/CUMMINS_INSITE_V1/7106432d294dd844be15996ccbf2ba84/attributes/f1a7e3113c2c4047ac1fc8fbcb41d8b7
> previous ->
> \x00/20110203-094231205-79442793-1410161293068203000\x0Aattributes16794406\x00\x00\x01\x00\x00\x00\x00\x00\x00
> current ->
> Exception in thread "main" java.nio.BufferUnderflowException
> at java.nio.Buffer.nextGetIndex(Buffer.java:489)
> at java.nio.HeapByteBuffer.getInt(HeapByteBuffer.java:347)
> at
> org.apache.hadoop.hbase.io.hfile.HFileReaderV2$ScannerV2.readKeyValueLen(HFileReaderV2.java:856)
> at
> org.apache.hadoop.hbase.io.hfile.HFileReaderV2$ScannerV2.next(HFileReaderV2.java:768)
> at
> org.apache.hadoop.hbase.io.hfile.HFilePrettyPrinter.scanKeysValues(HFilePrettyPrinter.java:362)
> at
> org.apache.hadoop.hbase.io.hfile.HFilePrettyPrinter.processFile(HFilePrettyPrinter.java:262)
> at
> org.apache.hadoop.hbase.io.hfile.HFilePrettyPrinter.run(HFilePrettyPrinter.java:220)
> at org.apache.hadoop.util.ToolRunner.run(ToolRunner.java:70)
> at
> org.apache.hadoop.hbase.io.hfile.HFilePrettyPrinter.main(HFilePrettyPrinter.java:539)
> at org.apache.hadoop.hbase.io.hfile.HFile.main(HFile.java:802)
> {noformat}
> Turning on Java Assert shows the following:
> {noformat}
> Exception in thread "main" java.lang.AssertionError: Key
> 20110203-094231205-79442793-1410161293068203000/attributes:16794406/1099511627776/Minimum/vlen=15/mvcc=0
> followed by a smaller key //0/Minimum/vlen=0/mvcc=0 in cf attributes
> at
> org.apache.hadoop.hbase.regionserver.StoreScanner.checkScanOrder(StoreScanner.java:672)
> {noformat}
> It shows that the hfile seems to be corrupted -- the keys don't seem to be
> right.
> But Scanner is not able to give a meaningful error, but stuck in an infinite
> loop in here:
> {code}
> KeyValueHeap.generalizedSeek()
> while ((scanner = heap.poll()) != null) {
> }
> {code}
--
This message was sent by Atlassian JIRA
(v6.3.4#6332)
[jira] [Commented] (HBASE-12949) Scanner can be stuck in infinite loop if the HFile is corrupted
[
https://issues.apache.org/jira/browse/HBASE-12949?page=com.atlassian.jira.plugin.system.issuetabpanels:comment-tabpanel&focusedCommentId=15329864#comment-15329864
]
Hadoop QA commented on HBASE-12949:
---
| (x) *{color:red}-1 overall{color}* |
\\
\\
|| Vote || Subsystem || Runtime || Comment ||
| {color:red}-1{color} | {color:red} patch {color} | {color:red} 0m 3s {color}
| {color:red} HBASE-12949 does not apply to master. Rebase required? Wrong
Branch? See https://yetus.apache.org/documentation/0.2.1/precommit-patchnames
for help. {color} |
\\
\\
|| Subsystem || Report/Notes ||
| JIRA Patch URL |
https://issues.apache.org/jira/secure/attachment/12810469/HBASE-12949-master-v2.patch
|
| JIRA Issue | HBASE-12949 |
| Console output |
https://builds.apache.org/job/PreCommit-HBASE-Build/2207/console |
| Powered by | Apache Yetus 0.2.1 http://yetus.apache.org |
This message was automatically generated.
> Scanner can be stuck in infinite loop if the HFile is corrupted
> ---
>
> Key: HBASE-12949
> URL: https://issues.apache.org/jira/browse/HBASE-12949
> Project: HBase
> Issue Type: Bug
>Affects Versions: 0.94.3, 0.98.10
>Reporter: Jerry He
> Attachments: HBASE-12949-master-v2 (1).patch,
> HBASE-12949-master-v2.patch, HBASE-12949-master-v2.patch,
> HBASE-12949-master-v2.patch, HBASE-12949-master.patch
>
>
> We've encountered problem where compaction hangs and never completes.
> After looking into it further, we found that the compaction scanner was stuck
> in a infinite loop. See stack below.
> {noformat}
> org.apache.hadoop.hbase.regionserver.KeyValueHeap.generalizedSeek(KeyValueHeap.java:296)
> org.apache.hadoop.hbase.regionserver.KeyValueHeap.reseek(KeyValueHeap.java:257)
> org.apache.hadoop.hbase.regionserver.StoreScanner.reseek(StoreScanner.java:697)
> org.apache.hadoop.hbase.regionserver.StoreScanner.seekToNextRow(StoreScanner.java:672)
> org.apache.hadoop.hbase.regionserver.StoreScanner.next(StoreScanner.java:529)
> org.apache.hadoop.hbase.regionserver.compactions.Compactor.performCompaction(Compactor.java:223)
> {noformat}
> We identified the hfile that seems to be corrupted. Using HFile tool shows
> the following:
> {noformat}
> [biadmin@hdtest009 bin]$ hbase org.apache.hadoop.hbase.io.hfile.HFile -v -k
> -m -f
> /user/biadmin/CUMMINS_INSITE_V1/7106432d294dd844be15996ccbf2ba84/attributes/f1a7e3113c2c4047ac1fc8fbcb41d8b7
> 15/01/23 11:53:17 INFO Configuration.deprecation: hadoop.native.lib is
> deprecated. Instead, use io.native.lib.available
> 15/01/23 11:53:18 INFO util.ChecksumType: Checksum using
> org.apache.hadoop.util.PureJavaCrc32
> 15/01/23 11:53:18 INFO util.ChecksumType: Checksum can use
> org.apache.hadoop.util.PureJavaCrc32C
> 15/01/23 11:53:18 INFO Configuration.deprecation: fs.default.name is
> deprecated. Instead, use fs.defaultFS
> Scanning ->
> /user/biadmin/CUMMINS_INSITE_V1/7106432d294dd844be15996ccbf2ba84/attributes/f1a7e3113c2c4047ac1fc8fbcb41d8b7
> WARNING, previous row is greater then current row
> filename ->
> /user/biadmin/CUMMINS_INSITE_V1/7106432d294dd844be15996ccbf2ba84/attributes/f1a7e3113c2c4047ac1fc8fbcb41d8b7
> previous ->
> \x00/20110203-094231205-79442793-1410161293068203000\x0Aattributes16794406\x00\x00\x01\x00\x00\x00\x00\x00\x00
> current ->
> Exception in thread "main" java.nio.BufferUnderflowException
> at java.nio.Buffer.nextGetIndex(Buffer.java:489)
> at java.nio.HeapByteBuffer.getInt(HeapByteBuffer.java:347)
> at
> org.apache.hadoop.hbase.io.hfile.HFileReaderV2$ScannerV2.readKeyValueLen(HFileReaderV2.java:856)
> at
> org.apache.hadoop.hbase.io.hfile.HFileReaderV2$ScannerV2.next(HFileReaderV2.java:768)
> at
> org.apache.hadoop.hbase.io.hfile.HFilePrettyPrinter.scanKeysValues(HFilePrettyPrinter.java:362)
> at
> org.apache.hadoop.hbase.io.hfile.HFilePrettyPrinter.processFile(HFilePrettyPrinter.java:262)
> at
> org.apache.hadoop.hbase.io.hfile.HFilePrettyPrinter.run(HFilePrettyPrinter.java:220)
> at org.apache.hadoop.util.ToolRunner.run(ToolRunner.java:70)
> at
> org.apache.hadoop.hbase.io.hfile.HFilePrettyPrinter.main(HFilePrettyPrinter.java:539)
> at org.apache.hadoop.hbase.io.hfile.HFile.main(HFile.java:802)
> {noformat}
> Turning on Java Assert shows the following:
> {noformat}
> Exception in thread "main" java.lang.AssertionError: Key
> 20110203-094231205-79442793-1410161293068203000/attributes:16794406/1099511627776/Minimum/vlen=15/mvcc=0
> followed by a smaller key //0/Minimum/vlen=0/mvcc=0 in cf attributes
> at
> org.apache.hadoop.hbase.regionserver.StoreScanner.checkScanOrder(StoreScanner.java:672)
> {noformat}
> It shows that the hfile seems to be corrupted -- the keys don't seem to be
> right.
> But Scanner is not able to give a mea
[jira] [Commented] (HBASE-12949) Scanner can be stuck in infinite loop if the HFile is corrupted
[
https://issues.apache.org/jira/browse/HBASE-12949?page=com.atlassian.jira.plugin.system.issuetabpanels:comment-tabpanel&focusedCommentId=14337221#comment-14337221
]
Jerry He commented on HBASE-12949:
--
Hi, [~stack]
Thanks for getting back to this.
BufferUnderflowException and IllegalStateException are both subclass of
RuntimeException. Unchecked, no better, no worse. At least we are using
IllegalStateException currently.
Also, BufferUnderflowException is where we can not even read the length. The
other is where we can read the length, but it is bad.
Here is the case.
Two KVs:
With the patch, we fail at the first bad kv.
Without the patch:
1. we can stuck in the first bad kv.
2. BufferUnderflowException in the next kv. This is what happened in the
HFilePrettyPrinter, which uses a ad hoc scanner.
> Scanner can be stuck in infinite loop if the HFile is corrupted
> ---
>
> Key: HBASE-12949
> URL: https://issues.apache.org/jira/browse/HBASE-12949
> Project: HBase
> Issue Type: Bug
>Affects Versions: 0.94.3, 0.98.10
>Reporter: Jerry He
> Attachments: HBASE-12949-master-v2 (1).patch,
> HBASE-12949-master-v2.patch, HBASE-12949-master-v2.patch,
> HBASE-12949-master.patch
>
>
> We've encountered problem where compaction hangs and never completes.
> After looking into it further, we found that the compaction scanner was stuck
> in a infinite loop. See stack below.
> {noformat}
> org.apache.hadoop.hbase.regionserver.KeyValueHeap.generalizedSeek(KeyValueHeap.java:296)
> org.apache.hadoop.hbase.regionserver.KeyValueHeap.reseek(KeyValueHeap.java:257)
> org.apache.hadoop.hbase.regionserver.StoreScanner.reseek(StoreScanner.java:697)
> org.apache.hadoop.hbase.regionserver.StoreScanner.seekToNextRow(StoreScanner.java:672)
> org.apache.hadoop.hbase.regionserver.StoreScanner.next(StoreScanner.java:529)
> org.apache.hadoop.hbase.regionserver.compactions.Compactor.performCompaction(Compactor.java:223)
> {noformat}
> We identified the hfile that seems to be corrupted. Using HFile tool shows
> the following:
> {noformat}
> [biadmin@hdtest009 bin]$ hbase org.apache.hadoop.hbase.io.hfile.HFile -v -k
> -m -f
> /user/biadmin/CUMMINS_INSITE_V1/7106432d294dd844be15996ccbf2ba84/attributes/f1a7e3113c2c4047ac1fc8fbcb41d8b7
> 15/01/23 11:53:17 INFO Configuration.deprecation: hadoop.native.lib is
> deprecated. Instead, use io.native.lib.available
> 15/01/23 11:53:18 INFO util.ChecksumType: Checksum using
> org.apache.hadoop.util.PureJavaCrc32
> 15/01/23 11:53:18 INFO util.ChecksumType: Checksum can use
> org.apache.hadoop.util.PureJavaCrc32C
> 15/01/23 11:53:18 INFO Configuration.deprecation: fs.default.name is
> deprecated. Instead, use fs.defaultFS
> Scanning ->
> /user/biadmin/CUMMINS_INSITE_V1/7106432d294dd844be15996ccbf2ba84/attributes/f1a7e3113c2c4047ac1fc8fbcb41d8b7
> WARNING, previous row is greater then current row
> filename ->
> /user/biadmin/CUMMINS_INSITE_V1/7106432d294dd844be15996ccbf2ba84/attributes/f1a7e3113c2c4047ac1fc8fbcb41d8b7
> previous ->
> \x00/20110203-094231205-79442793-1410161293068203000\x0Aattributes16794406\x00\x00\x01\x00\x00\x00\x00\x00\x00
> current ->
> Exception in thread "main" java.nio.BufferUnderflowException
> at java.nio.Buffer.nextGetIndex(Buffer.java:489)
> at java.nio.HeapByteBuffer.getInt(HeapByteBuffer.java:347)
> at
> org.apache.hadoop.hbase.io.hfile.HFileReaderV2$ScannerV2.readKeyValueLen(HFileReaderV2.java:856)
> at
> org.apache.hadoop.hbase.io.hfile.HFileReaderV2$ScannerV2.next(HFileReaderV2.java:768)
> at
> org.apache.hadoop.hbase.io.hfile.HFilePrettyPrinter.scanKeysValues(HFilePrettyPrinter.java:362)
> at
> org.apache.hadoop.hbase.io.hfile.HFilePrettyPrinter.processFile(HFilePrettyPrinter.java:262)
> at
> org.apache.hadoop.hbase.io.hfile.HFilePrettyPrinter.run(HFilePrettyPrinter.java:220)
> at org.apache.hadoop.util.ToolRunner.run(ToolRunner.java:70)
> at
> org.apache.hadoop.hbase.io.hfile.HFilePrettyPrinter.main(HFilePrettyPrinter.java:539)
> at org.apache.hadoop.hbase.io.hfile.HFile.main(HFile.java:802)
> {noformat}
> Turning on Java Assert shows the following:
> {noformat}
> Exception in thread "main" java.lang.AssertionError: Key
> 20110203-094231205-79442793-1410161293068203000/attributes:16794406/1099511627776/Minimum/vlen=15/mvcc=0
> followed by a smaller key //0/Minimum/vlen=0/mvcc=0 in cf attributes
> at
> org.apache.hadoop.hbase.regionserver.StoreScanner.checkScanOrder(StoreScanner.java:672)
> {noformat}
> It shows that the hfile seems to be corrupted -- the keys don't seem to be
> right.
> But Scanner is not able to give a meaningful error, but stuck in an infinite
> loop in here:
> {code}
> KeyValueHeap.generalizedSeek()
> while ((scanner = heap.poll(
[jira] [Commented] (HBASE-12949) Scanner can be stuck in infinite loop if the HFile is corrupted
[
https://issues.apache.org/jira/browse/HBASE-12949?page=com.atlassian.jira.plugin.system.issuetabpanels:comment-tabpanel&focusedCommentId=14336108#comment-14336108
]
stack commented on HBASE-12949:
---
So, we'd be getting IllegalState instead of BufferUnderflow. Will the RS treat
the two exceptions differently? Thanks [~jerryhe]
> Scanner can be stuck in infinite loop if the HFile is corrupted
> ---
>
> Key: HBASE-12949
> URL: https://issues.apache.org/jira/browse/HBASE-12949
> Project: HBase
> Issue Type: Bug
>Affects Versions: 0.94.3, 0.98.10
>Reporter: Jerry He
> Attachments: HBASE-12949-master-v2 (1).patch,
> HBASE-12949-master-v2.patch, HBASE-12949-master-v2.patch,
> HBASE-12949-master.patch
>
>
> We've encountered problem where compaction hangs and never completes.
> After looking into it further, we found that the compaction scanner was stuck
> in a infinite loop. See stack below.
> {noformat}
> org.apache.hadoop.hbase.regionserver.KeyValueHeap.generalizedSeek(KeyValueHeap.java:296)
> org.apache.hadoop.hbase.regionserver.KeyValueHeap.reseek(KeyValueHeap.java:257)
> org.apache.hadoop.hbase.regionserver.StoreScanner.reseek(StoreScanner.java:697)
> org.apache.hadoop.hbase.regionserver.StoreScanner.seekToNextRow(StoreScanner.java:672)
> org.apache.hadoop.hbase.regionserver.StoreScanner.next(StoreScanner.java:529)
> org.apache.hadoop.hbase.regionserver.compactions.Compactor.performCompaction(Compactor.java:223)
> {noformat}
> We identified the hfile that seems to be corrupted. Using HFile tool shows
> the following:
> {noformat}
> [biadmin@hdtest009 bin]$ hbase org.apache.hadoop.hbase.io.hfile.HFile -v -k
> -m -f
> /user/biadmin/CUMMINS_INSITE_V1/7106432d294dd844be15996ccbf2ba84/attributes/f1a7e3113c2c4047ac1fc8fbcb41d8b7
> 15/01/23 11:53:17 INFO Configuration.deprecation: hadoop.native.lib is
> deprecated. Instead, use io.native.lib.available
> 15/01/23 11:53:18 INFO util.ChecksumType: Checksum using
> org.apache.hadoop.util.PureJavaCrc32
> 15/01/23 11:53:18 INFO util.ChecksumType: Checksum can use
> org.apache.hadoop.util.PureJavaCrc32C
> 15/01/23 11:53:18 INFO Configuration.deprecation: fs.default.name is
> deprecated. Instead, use fs.defaultFS
> Scanning ->
> /user/biadmin/CUMMINS_INSITE_V1/7106432d294dd844be15996ccbf2ba84/attributes/f1a7e3113c2c4047ac1fc8fbcb41d8b7
> WARNING, previous row is greater then current row
> filename ->
> /user/biadmin/CUMMINS_INSITE_V1/7106432d294dd844be15996ccbf2ba84/attributes/f1a7e3113c2c4047ac1fc8fbcb41d8b7
> previous ->
> \x00/20110203-094231205-79442793-1410161293068203000\x0Aattributes16794406\x00\x00\x01\x00\x00\x00\x00\x00\x00
> current ->
> Exception in thread "main" java.nio.BufferUnderflowException
> at java.nio.Buffer.nextGetIndex(Buffer.java:489)
> at java.nio.HeapByteBuffer.getInt(HeapByteBuffer.java:347)
> at
> org.apache.hadoop.hbase.io.hfile.HFileReaderV2$ScannerV2.readKeyValueLen(HFileReaderV2.java:856)
> at
> org.apache.hadoop.hbase.io.hfile.HFileReaderV2$ScannerV2.next(HFileReaderV2.java:768)
> at
> org.apache.hadoop.hbase.io.hfile.HFilePrettyPrinter.scanKeysValues(HFilePrettyPrinter.java:362)
> at
> org.apache.hadoop.hbase.io.hfile.HFilePrettyPrinter.processFile(HFilePrettyPrinter.java:262)
> at
> org.apache.hadoop.hbase.io.hfile.HFilePrettyPrinter.run(HFilePrettyPrinter.java:220)
> at org.apache.hadoop.util.ToolRunner.run(ToolRunner.java:70)
> at
> org.apache.hadoop.hbase.io.hfile.HFilePrettyPrinter.main(HFilePrettyPrinter.java:539)
> at org.apache.hadoop.hbase.io.hfile.HFile.main(HFile.java:802)
> {noformat}
> Turning on Java Assert shows the following:
> {noformat}
> Exception in thread "main" java.lang.AssertionError: Key
> 20110203-094231205-79442793-1410161293068203000/attributes:16794406/1099511627776/Minimum/vlen=15/mvcc=0
> followed by a smaller key //0/Minimum/vlen=0/mvcc=0 in cf attributes
> at
> org.apache.hadoop.hbase.regionserver.StoreScanner.checkScanOrder(StoreScanner.java:672)
> {noformat}
> It shows that the hfile seems to be corrupted -- the keys don't seem to be
> right.
> But Scanner is not able to give a meaningful error, but stuck in an infinite
> loop in here:
> {code}
> KeyValueHeap.generalizedSeek()
> while ((scanner = heap.poll()) != null) {
> }
> {code}
--
This message was sent by Atlassian JIRA
(v6.3.4#6332)
[jira] [Commented] (HBASE-12949) Scanner can be stuck in infinite loop if the HFile is corrupted
[
https://issues.apache.org/jira/browse/HBASE-12949?page=com.atlassian.jira.plugin.system.issuetabpanels:comment-tabpanel&focusedCommentId=14319509#comment-14319509
]
Jerry He commented on HBASE-12949:
--
The test failure does not seem to be related. Timeout error?
This can be seen in other
[run|https://issues.apache.org/jira/browse/HBASE-13032?focusedCommentId=14319367&page=com.atlassian.jira.plugin.system.issuetabpanels:comment-tabpanel#comment-14319367]
I have been able to run everything clean previously with and without the patch.
But after a 'git pull', it fails sometimes even without the patch.
> Scanner can be stuck in infinite loop if the HFile is corrupted
> ---
>
> Key: HBASE-12949
> URL: https://issues.apache.org/jira/browse/HBASE-12949
> Project: HBase
> Issue Type: Bug
>Affects Versions: 0.94.3, 0.98.10
>Reporter: Jerry He
> Attachments: HBASE-12949-master-v2 (1).patch,
> HBASE-12949-master-v2.patch, HBASE-12949-master-v2.patch,
> HBASE-12949-master.patch
>
>
> We've encountered problem where compaction hangs and never completes.
> After looking into it further, we found that the compaction scanner was stuck
> in a infinite loop. See stack below.
> {noformat}
> org.apache.hadoop.hbase.regionserver.KeyValueHeap.generalizedSeek(KeyValueHeap.java:296)
> org.apache.hadoop.hbase.regionserver.KeyValueHeap.reseek(KeyValueHeap.java:257)
> org.apache.hadoop.hbase.regionserver.StoreScanner.reseek(StoreScanner.java:697)
> org.apache.hadoop.hbase.regionserver.StoreScanner.seekToNextRow(StoreScanner.java:672)
> org.apache.hadoop.hbase.regionserver.StoreScanner.next(StoreScanner.java:529)
> org.apache.hadoop.hbase.regionserver.compactions.Compactor.performCompaction(Compactor.java:223)
> {noformat}
> We identified the hfile that seems to be corrupted. Using HFile tool shows
> the following:
> {noformat}
> [biadmin@hdtest009 bin]$ hbase org.apache.hadoop.hbase.io.hfile.HFile -v -k
> -m -f
> /user/biadmin/CUMMINS_INSITE_V1/7106432d294dd844be15996ccbf2ba84/attributes/f1a7e3113c2c4047ac1fc8fbcb41d8b7
> 15/01/23 11:53:17 INFO Configuration.deprecation: hadoop.native.lib is
> deprecated. Instead, use io.native.lib.available
> 15/01/23 11:53:18 INFO util.ChecksumType: Checksum using
> org.apache.hadoop.util.PureJavaCrc32
> 15/01/23 11:53:18 INFO util.ChecksumType: Checksum can use
> org.apache.hadoop.util.PureJavaCrc32C
> 15/01/23 11:53:18 INFO Configuration.deprecation: fs.default.name is
> deprecated. Instead, use fs.defaultFS
> Scanning ->
> /user/biadmin/CUMMINS_INSITE_V1/7106432d294dd844be15996ccbf2ba84/attributes/f1a7e3113c2c4047ac1fc8fbcb41d8b7
> WARNING, previous row is greater then current row
> filename ->
> /user/biadmin/CUMMINS_INSITE_V1/7106432d294dd844be15996ccbf2ba84/attributes/f1a7e3113c2c4047ac1fc8fbcb41d8b7
> previous ->
> \x00/20110203-094231205-79442793-1410161293068203000\x0Aattributes16794406\x00\x00\x01\x00\x00\x00\x00\x00\x00
> current ->
> Exception in thread "main" java.nio.BufferUnderflowException
> at java.nio.Buffer.nextGetIndex(Buffer.java:489)
> at java.nio.HeapByteBuffer.getInt(HeapByteBuffer.java:347)
> at
> org.apache.hadoop.hbase.io.hfile.HFileReaderV2$ScannerV2.readKeyValueLen(HFileReaderV2.java:856)
> at
> org.apache.hadoop.hbase.io.hfile.HFileReaderV2$ScannerV2.next(HFileReaderV2.java:768)
> at
> org.apache.hadoop.hbase.io.hfile.HFilePrettyPrinter.scanKeysValues(HFilePrettyPrinter.java:362)
> at
> org.apache.hadoop.hbase.io.hfile.HFilePrettyPrinter.processFile(HFilePrettyPrinter.java:262)
> at
> org.apache.hadoop.hbase.io.hfile.HFilePrettyPrinter.run(HFilePrettyPrinter.java:220)
> at org.apache.hadoop.util.ToolRunner.run(ToolRunner.java:70)
> at
> org.apache.hadoop.hbase.io.hfile.HFilePrettyPrinter.main(HFilePrettyPrinter.java:539)
> at org.apache.hadoop.hbase.io.hfile.HFile.main(HFile.java:802)
> {noformat}
> Turning on Java Assert shows the following:
> {noformat}
> Exception in thread "main" java.lang.AssertionError: Key
> 20110203-094231205-79442793-1410161293068203000/attributes:16794406/1099511627776/Minimum/vlen=15/mvcc=0
> followed by a smaller key //0/Minimum/vlen=0/mvcc=0 in cf attributes
> at
> org.apache.hadoop.hbase.regionserver.StoreScanner.checkScanOrder(StoreScanner.java:672)
> {noformat}
> It shows that the hfile seems to be corrupted -- the keys don't seem to be
> right.
> But Scanner is not able to give a meaningful error, but stuck in an infinite
> loop in here:
> {code}
> KeyValueHeap.generalizedSeek()
> while ((scanner = heap.poll()) != null) {
> }
> {code}
--
This message was sent by Atlassian JIRA
(v6.3.4#6332)
[jira] [Commented] (HBASE-12949) Scanner can be stuck in infinite loop if the HFile is corrupted
[
https://issues.apache.org/jira/browse/HBASE-12949?page=com.atlassian.jira.plugin.system.issuetabpanels:comment-tabpanel&focusedCommentId=14316990#comment-14316990
]
Hadoop QA commented on HBASE-12949:
---
{color:red}-1 overall{color}. Here are the results of testing the latest
attachment
http://issues.apache.org/jira/secure/attachment/12698163/HBASE-12949-master-v2%20%281%29.patch
against master branch at commit dec0ec229070465ce5a1f7381366a82278149f06.
ATTACHMENT ID: 12698163
{color:green}+1 @author{color}. The patch does not contain any @author
tags.
{color:red}-1 tests included{color}. The patch doesn't appear to include
any new or modified tests.
Please justify why no new tests are needed for this
patch.
Also please list what manual steps were performed to
verify this patch.
{color:green}+1 javac{color}. The applied patch does not increase the
total number of javac compiler warnings.
{color:green}+1 javac{color}. The applied patch does not increase the
total number of javac compiler warnings.
{color:red}-1 javadoc{color}. The javadoc tool appears to have generated 1
warning messages.
{color:green}+1 checkstyle{color}. The applied patch does not increase the
total number of checkstyle errors
{color:green}+1 findbugs{color}. The patch does not introduce any new
Findbugs (version 2.0.3) warnings.
{color:green}+1 release audit{color}. The applied patch does not increase
the total number of release audit warnings.
{color:green}+1 lineLengths{color}. The patch does not introduce lines
longer than 100
{color:green}+1 site{color}. The mvn site goal succeeds with this patch.
{color:red}-1 core tests{color}. The patch failed these unit tests:
org.apache.hadoop.hbase.master.TestDistributedLogSplitting
Test results:
https://builds.apache.org/job/PreCommit-HBASE-Build/12782//testReport/
Findbugs warnings:
https://builds.apache.org/job/PreCommit-HBASE-Build/12782//artifact/patchprocess/newPatchFindbugsWarningshbase-examples.html
Findbugs warnings:
https://builds.apache.org/job/PreCommit-HBASE-Build/12782//artifact/patchprocess/newPatchFindbugsWarningshbase-prefix-tree.html
Findbugs warnings:
https://builds.apache.org/job/PreCommit-HBASE-Build/12782//artifact/patchprocess/newPatchFindbugsWarningshbase-server.html
Findbugs warnings:
https://builds.apache.org/job/PreCommit-HBASE-Build/12782//artifact/patchprocess/newPatchFindbugsWarningshbase-hadoop-compat.html
Findbugs warnings:
https://builds.apache.org/job/PreCommit-HBASE-Build/12782//artifact/patchprocess/newPatchFindbugsWarningshbase-client.html
Findbugs warnings:
https://builds.apache.org/job/PreCommit-HBASE-Build/12782//artifact/patchprocess/newPatchFindbugsWarningshbase-protocol.html
Findbugs warnings:
https://builds.apache.org/job/PreCommit-HBASE-Build/12782//artifact/patchprocess/newPatchFindbugsWarningshbase-hadoop2-compat.html
Findbugs warnings:
https://builds.apache.org/job/PreCommit-HBASE-Build/12782//artifact/patchprocess/newPatchFindbugsWarningshbase-rest.html
Findbugs warnings:
https://builds.apache.org/job/PreCommit-HBASE-Build/12782//artifact/patchprocess/newPatchFindbugsWarningshbase-thrift.html
Findbugs warnings:
https://builds.apache.org/job/PreCommit-HBASE-Build/12782//artifact/patchprocess/newPatchFindbugsWarningshbase-annotations.html
Findbugs warnings:
https://builds.apache.org/job/PreCommit-HBASE-Build/12782//artifact/patchprocess/newPatchFindbugsWarningshbase-common.html
Checkstyle Errors:
https://builds.apache.org/job/PreCommit-HBASE-Build/12782//artifact/patchprocess/checkstyle-aggregate.html
Javadoc warnings:
https://builds.apache.org/job/PreCommit-HBASE-Build/12782//artifact/patchprocess/patchJavadocWarnings.txt
Console output:
https://builds.apache.org/job/PreCommit-HBASE-Build/12782//console
This message is automatically generated.
> Scanner can be stuck in infinite loop if the HFile is corrupted
> ---
>
> Key: HBASE-12949
> URL: https://issues.apache.org/jira/browse/HBASE-12949
> Project: HBase
> Issue Type: Bug
>Affects Versions: 0.94.3, 0.98.10
>Reporter: Jerry He
> Attachments: HBASE-12949-master-v2 (1).patch,
> HBASE-12949-master-v2.patch, HBASE-12949-master-v2.patch,
> HBASE-12949-master.patch
>
>
> We've encountered problem where compaction hangs and never completes.
> After looking into it further, we found that the compaction scanner was stuck
> in a infinite loop. See stack below.
> {noformat}
> org.apache.hadoop.hbase.regionserver.KeyValueHeap.generalizedSeek(KeyValueHeap.java:296)
> org.apache.hadoop.hbase.regionserver.KeyValueHeap.reseek(KeyValueHeap.java:257)
> org.apache.hadoop.hbase.regionserver.StoreScanner.reseek(StoreScanner.java:697)
> org.apache.hadoop.hbase.
[jira] [Commented] (HBASE-12949) Scanner can be stuck in infinite loop if the HFile is corrupted
[
https://issues.apache.org/jira/browse/HBASE-12949?page=com.atlassian.jira.plugin.system.issuetabpanels:comment-tabpanel&focusedCommentId=14316837#comment-14316837
]
Ted Yu commented on HBASE-12949:
+1
> Scanner can be stuck in infinite loop if the HFile is corrupted
> ---
>
> Key: HBASE-12949
> URL: https://issues.apache.org/jira/browse/HBASE-12949
> Project: HBase
> Issue Type: Bug
>Affects Versions: 0.94.3, 0.98.10
>Reporter: Jerry He
> Attachments: HBASE-12949-master-v2 (1).patch,
> HBASE-12949-master-v2.patch, HBASE-12949-master-v2.patch,
> HBASE-12949-master.patch
>
>
> We've encountered problem where compaction hangs and never completes.
> After looking into it further, we found that the compaction scanner was stuck
> in a infinite loop. See stack below.
> {noformat}
> org.apache.hadoop.hbase.regionserver.KeyValueHeap.generalizedSeek(KeyValueHeap.java:296)
> org.apache.hadoop.hbase.regionserver.KeyValueHeap.reseek(KeyValueHeap.java:257)
> org.apache.hadoop.hbase.regionserver.StoreScanner.reseek(StoreScanner.java:697)
> org.apache.hadoop.hbase.regionserver.StoreScanner.seekToNextRow(StoreScanner.java:672)
> org.apache.hadoop.hbase.regionserver.StoreScanner.next(StoreScanner.java:529)
> org.apache.hadoop.hbase.regionserver.compactions.Compactor.performCompaction(Compactor.java:223)
> {noformat}
> We identified the hfile that seems to be corrupted. Using HFile tool shows
> the following:
> {noformat}
> [biadmin@hdtest009 bin]$ hbase org.apache.hadoop.hbase.io.hfile.HFile -v -k
> -m -f
> /user/biadmin/CUMMINS_INSITE_V1/7106432d294dd844be15996ccbf2ba84/attributes/f1a7e3113c2c4047ac1fc8fbcb41d8b7
> 15/01/23 11:53:17 INFO Configuration.deprecation: hadoop.native.lib is
> deprecated. Instead, use io.native.lib.available
> 15/01/23 11:53:18 INFO util.ChecksumType: Checksum using
> org.apache.hadoop.util.PureJavaCrc32
> 15/01/23 11:53:18 INFO util.ChecksumType: Checksum can use
> org.apache.hadoop.util.PureJavaCrc32C
> 15/01/23 11:53:18 INFO Configuration.deprecation: fs.default.name is
> deprecated. Instead, use fs.defaultFS
> Scanning ->
> /user/biadmin/CUMMINS_INSITE_V1/7106432d294dd844be15996ccbf2ba84/attributes/f1a7e3113c2c4047ac1fc8fbcb41d8b7
> WARNING, previous row is greater then current row
> filename ->
> /user/biadmin/CUMMINS_INSITE_V1/7106432d294dd844be15996ccbf2ba84/attributes/f1a7e3113c2c4047ac1fc8fbcb41d8b7
> previous ->
> \x00/20110203-094231205-79442793-1410161293068203000\x0Aattributes16794406\x00\x00\x01\x00\x00\x00\x00\x00\x00
> current ->
> Exception in thread "main" java.nio.BufferUnderflowException
> at java.nio.Buffer.nextGetIndex(Buffer.java:489)
> at java.nio.HeapByteBuffer.getInt(HeapByteBuffer.java:347)
> at
> org.apache.hadoop.hbase.io.hfile.HFileReaderV2$ScannerV2.readKeyValueLen(HFileReaderV2.java:856)
> at
> org.apache.hadoop.hbase.io.hfile.HFileReaderV2$ScannerV2.next(HFileReaderV2.java:768)
> at
> org.apache.hadoop.hbase.io.hfile.HFilePrettyPrinter.scanKeysValues(HFilePrettyPrinter.java:362)
> at
> org.apache.hadoop.hbase.io.hfile.HFilePrettyPrinter.processFile(HFilePrettyPrinter.java:262)
> at
> org.apache.hadoop.hbase.io.hfile.HFilePrettyPrinter.run(HFilePrettyPrinter.java:220)
> at org.apache.hadoop.util.ToolRunner.run(ToolRunner.java:70)
> at
> org.apache.hadoop.hbase.io.hfile.HFilePrettyPrinter.main(HFilePrettyPrinter.java:539)
> at org.apache.hadoop.hbase.io.hfile.HFile.main(HFile.java:802)
> {noformat}
> Turning on Java Assert shows the following:
> {noformat}
> Exception in thread "main" java.lang.AssertionError: Key
> 20110203-094231205-79442793-1410161293068203000/attributes:16794406/1099511627776/Minimum/vlen=15/mvcc=0
> followed by a smaller key //0/Minimum/vlen=0/mvcc=0 in cf attributes
> at
> org.apache.hadoop.hbase.regionserver.StoreScanner.checkScanOrder(StoreScanner.java:672)
> {noformat}
> It shows that the hfile seems to be corrupted -- the keys don't seem to be
> right.
> But Scanner is not able to give a meaningful error, but stuck in an infinite
> loop in here:
> {code}
> KeyValueHeap.generalizedSeek()
> while ((scanner = heap.poll()) != null) {
> }
> {code}
--
This message was sent by Atlassian JIRA
(v6.3.4#6332)
[jira] [Commented] (HBASE-12949) Scanner can be stuck in infinite loop if the HFile is corrupted
[
https://issues.apache.org/jira/browse/HBASE-12949?page=com.atlassian.jira.plugin.system.issuetabpanels:comment-tabpanel&focusedCommentId=14315627#comment-14315627
]
Jerry He commented on HBASE-12949:
--
Not sure what happened in the Hadoop QA tests.
Local run of 'mvn test' runs clean.
> Scanner can be stuck in infinite loop if the HFile is corrupted
> ---
>
> Key: HBASE-12949
> URL: https://issues.apache.org/jira/browse/HBASE-12949
> Project: HBase
> Issue Type: Bug
>Affects Versions: 0.94.3, 0.98.10
>Reporter: Jerry He
> Attachments: HBASE-12949-master-v2.patch,
> HBASE-12949-master-v2.patch, HBASE-12949-master.patch
>
>
> We've encountered problem where compaction hangs and never completes.
> After looking into it further, we found that the compaction scanner was stuck
> in a infinite loop. See stack below.
> {noformat}
> org.apache.hadoop.hbase.regionserver.KeyValueHeap.generalizedSeek(KeyValueHeap.java:296)
> org.apache.hadoop.hbase.regionserver.KeyValueHeap.reseek(KeyValueHeap.java:257)
> org.apache.hadoop.hbase.regionserver.StoreScanner.reseek(StoreScanner.java:697)
> org.apache.hadoop.hbase.regionserver.StoreScanner.seekToNextRow(StoreScanner.java:672)
> org.apache.hadoop.hbase.regionserver.StoreScanner.next(StoreScanner.java:529)
> org.apache.hadoop.hbase.regionserver.compactions.Compactor.performCompaction(Compactor.java:223)
> {noformat}
> We identified the hfile that seems to be corrupted. Using HFile tool shows
> the following:
> {noformat}
> [biadmin@hdtest009 bin]$ hbase org.apache.hadoop.hbase.io.hfile.HFile -v -k
> -m -f
> /user/biadmin/CUMMINS_INSITE_V1/7106432d294dd844be15996ccbf2ba84/attributes/f1a7e3113c2c4047ac1fc8fbcb41d8b7
> 15/01/23 11:53:17 INFO Configuration.deprecation: hadoop.native.lib is
> deprecated. Instead, use io.native.lib.available
> 15/01/23 11:53:18 INFO util.ChecksumType: Checksum using
> org.apache.hadoop.util.PureJavaCrc32
> 15/01/23 11:53:18 INFO util.ChecksumType: Checksum can use
> org.apache.hadoop.util.PureJavaCrc32C
> 15/01/23 11:53:18 INFO Configuration.deprecation: fs.default.name is
> deprecated. Instead, use fs.defaultFS
> Scanning ->
> /user/biadmin/CUMMINS_INSITE_V1/7106432d294dd844be15996ccbf2ba84/attributes/f1a7e3113c2c4047ac1fc8fbcb41d8b7
> WARNING, previous row is greater then current row
> filename ->
> /user/biadmin/CUMMINS_INSITE_V1/7106432d294dd844be15996ccbf2ba84/attributes/f1a7e3113c2c4047ac1fc8fbcb41d8b7
> previous ->
> \x00/20110203-094231205-79442793-1410161293068203000\x0Aattributes16794406\x00\x00\x01\x00\x00\x00\x00\x00\x00
> current ->
> Exception in thread "main" java.nio.BufferUnderflowException
> at java.nio.Buffer.nextGetIndex(Buffer.java:489)
> at java.nio.HeapByteBuffer.getInt(HeapByteBuffer.java:347)
> at
> org.apache.hadoop.hbase.io.hfile.HFileReaderV2$ScannerV2.readKeyValueLen(HFileReaderV2.java:856)
> at
> org.apache.hadoop.hbase.io.hfile.HFileReaderV2$ScannerV2.next(HFileReaderV2.java:768)
> at
> org.apache.hadoop.hbase.io.hfile.HFilePrettyPrinter.scanKeysValues(HFilePrettyPrinter.java:362)
> at
> org.apache.hadoop.hbase.io.hfile.HFilePrettyPrinter.processFile(HFilePrettyPrinter.java:262)
> at
> org.apache.hadoop.hbase.io.hfile.HFilePrettyPrinter.run(HFilePrettyPrinter.java:220)
> at org.apache.hadoop.util.ToolRunner.run(ToolRunner.java:70)
> at
> org.apache.hadoop.hbase.io.hfile.HFilePrettyPrinter.main(HFilePrettyPrinter.java:539)
> at org.apache.hadoop.hbase.io.hfile.HFile.main(HFile.java:802)
> {noformat}
> Turning on Java Assert shows the following:
> {noformat}
> Exception in thread "main" java.lang.AssertionError: Key
> 20110203-094231205-79442793-1410161293068203000/attributes:16794406/1099511627776/Minimum/vlen=15/mvcc=0
> followed by a smaller key //0/Minimum/vlen=0/mvcc=0 in cf attributes
> at
> org.apache.hadoop.hbase.regionserver.StoreScanner.checkScanOrder(StoreScanner.java:672)
> {noformat}
> It shows that the hfile seems to be corrupted -- the keys don't seem to be
> right.
> But Scanner is not able to give a meaningful error, but stuck in an infinite
> loop in here:
> {code}
> KeyValueHeap.generalizedSeek()
> while ((scanner = heap.poll()) != null) {
> }
> {code}
--
This message was sent by Atlassian JIRA
(v6.3.4#6332)
[jira] [Commented] (HBASE-12949) Scanner can be stuck in infinite loop if the HFile is corrupted
[
https://issues.apache.org/jira/browse/HBASE-12949?page=com.atlassian.jira.plugin.system.issuetabpanels:comment-tabpanel&focusedCommentId=14315624#comment-14315624
]
Jerry He commented on HBASE-12949:
--
Hi, [~stack]
The regions are already assigned,and can even be split-ed. The corruption in
the KV block only shows up when there is a compaction scan or user scan/get
over them.
IllegalStateException does not seem to be a Fatal error.
In case of compaction scan, it will dump the exception in the region server log
and the compaction fails.
{noformat}
2015-02-10 16:25:49,866 ERROR
org.apache.hadoop.hbase.regionserver.CompactSplitThread: Compaction failed
Request =
regionName=CUMMINS_INSITE_V1,,1422756983729.4bf5bdcfbd4f550befcfea4c3aca35d7.,
storeName=attributes, fileCount=1, fileSize=6.4 G (6.4 G), priority=9,
time=1423614300532574000
java.lang.IllegalStateException: Invalid currKeyLen 0 or currValueLen 0. Block
offset: 2853145836, block length: 65580, position: 29457 (without header).
at
org.apache.hadoop.hbase.io.hfile.HFileReaderV2$ScannerV2.readKeyValueLen(HFileReaderV2.java:884)
at
org.apache.hadoop.hbase.io.hfile.HFileReaderV2$ScannerV2.next(HFileReaderV2.java:790)
at
org.apache.hadoop.hbase.io.HalfStoreFileReader$1.next(HalfStoreFileReader.java:155)
at
org.apache.hadoop.hbase.regionserver.StoreFileScanner.next(StoreFileScanner.java:136)
at
org.apache.hadoop.hbase.regionserver.KeyValueHeap.next(KeyValueHeap.java:108)
at
org.apache.hadoop.hbase.regionserver.StoreScanner.next(StoreScanner.java:507)
at
org.apache.hadoop.hbase.regionserver.compactions.Compactor.performCompaction(Compactor.java:223)
{noformat}
In the case of a user get, the client will get an exception and an error dump
in the region server log:
{noformat}
hbase(main):002:0> get 'CUMMINS_INSITE_V1',
'20110203-094231205-79442793-1410161293068203000'
COLUMN CELL
ERROR: java.io.IOException: Invalid currKeyLen 0 or currValueLen 0. Block
offset: 2853145836, block length: 65580, position: 29457 (without header).
at org.apache.hadoop.hbase.ipc.RpcServer.call(RpcServer.java:2066)
at org.apache.hadoop.hbase.ipc.CallRunner.run(CallRunner.java:108)
at
org.apache.hadoop.hbase.ipc.RpcExecutor.consumerLoop(RpcExecutor.java:110)
at org.apache.hadoop.hbase.ipc.RpcExecutor$1.run(RpcExecutor.java:90)
at java.lang.Thread.run(Thread.java:738)
Caused by: java.lang.IllegalStateException: Invalid currKeyLen 0 or
currValueLen 0. Block offset: 2853145836, block length: 65580, position: 29457
(without header).
at
org.apache.hadoop.hbase.io.hfile.HFileReaderV2$ScannerV2.readKeyValueLen(HFileReaderV2.java:884)
at
org.apache.hadoop.hbase.io.hfile.HFileReaderV2$ScannerV2.next(HFileReaderV2.java:790)
at
org.apache.hadoop.hbase.io.HalfStoreFileReader$1.next(HalfStoreFileReader.java:155)
at
org.apache.hadoop.hbase.regionserver.StoreFileScanner.next(StoreFileScanner.java:136)
at
org.apache.hadoop.hbase.regionserver.KeyValueHeap.next(KeyValueHeap.java:108)
at
org.apache.hadoop.hbase.regionserver.StoreScanner.next(StoreScanner.java:507)
at
org.apache.hadoop.hbase.regionserver.KeyValueHeap.next(KeyValueHeap.java:140)
at
org.apache.hadoop.hbase.regionserver.HRegion$RegionScannerImpl.populateResult(HRegion.java:3992)
at
org.apache.hadoop.hbase.regionserver.HRegion$RegionScannerImpl.nextInternal(HRegion.java:4072)
at
org.apache.hadoop.hbase.regionserver.HRegion$RegionScannerImpl.nextRaw(HRegion.java:3950)
at
org.apache.hadoop.hbase.regionserver.HRegion$RegionScannerImpl.next(HRegion.java:3919)
at
org.apache.hadoop.hbase.regionserver.HRegion$RegionScannerImpl.next(HRegion.java:3906)
at org.apache.hadoop.hbase.regionserver.HRegion.get(HRegion.java:4882)
at org.apache.hadoop.hbase.regionserver.HRegion.get(HRegion.java:4856)
at
org.apache.hadoop.hbase.regionserver.HRegionServer.get(HRegionServer.java:2951)
at
org.apache.hadoop.hbase.protobuf.generated.ClientProtos$ClientService$2.callBlockingMethod(ClientProtos.java:29937)
at org.apache.hadoop.hbase.ipc.RpcServer.call(RpcServer.java:2027)
{noformat}
> Scanner can be stuck in infinite loop if the HFile is corrupted
> ---
>
> Key: HBASE-12949
> URL: https://issues.apache.org/jira/browse/HBASE-12949
> Project: HBase
> Issue Type: Bug
>Affects Versions: 0.94.3, 0.98.10
>Reporter: Jerry He
> Attachments: HBASE-12949-master-v2.patch,
> HBASE-12949-master-v2.patch, HBASE-12949-master.patch
>
>
> We've encountered problem where compaction hangs and never completes.
> After looking into it further, we found that the compaction scanner was stuck
> in a infinite loop. See
[jira] [Commented] (HBASE-12949) Scanner can be stuck in infinite loop if the HFile is corrupted
[
https://issues.apache.org/jira/browse/HBASE-12949?page=com.atlassian.jira.plugin.system.issuetabpanels:comment-tabpanel&focusedCommentId=14315446#comment-14315446
]
Hadoop QA commented on HBASE-12949:
---
{color:red}-1 overall{color}. Here are the results of testing the latest
attachment
http://issues.apache.org/jira/secure/attachment/12697917/HBASE-12949-master-v2.patch
against master branch at commit a7d93155f10184942ffc146f0694e5da83c78cd4.
ATTACHMENT ID: 12697917
{color:green}+1 @author{color}. The patch does not contain any @author
tags.
{color:red}-1 tests included{color}. The patch doesn't appear to include
any new or modified tests.
Please justify why no new tests are needed for this
patch.
Also please list what manual steps were performed to
verify this patch.
{color:green}+1 javac{color}. The applied patch does not increase the
total number of javac compiler warnings.
{color:green}+1 javac{color}. The applied patch does not increase the
total number of javac compiler warnings.
{color:green}+1 javadoc{color}. The javadoc tool did not generate any
warning messages.
{color:green}+1 checkstyle{color}. The applied patch does not increase the
total number of checkstyle errors
{color:green}+1 findbugs{color}. The patch does not introduce any new
Findbugs (version 2.0.3) warnings.
{color:green}+1 release audit{color}. The applied patch does not increase
the total number of release audit warnings.
{color:green}+1 lineLengths{color}. The patch does not introduce lines
longer than 100
{color:green}+1 site{color}. The mvn site goal succeeds with this patch.
{color:red}-1 core tests{color}. The patch failed these unit tests:
Test results:
https://builds.apache.org/job/PreCommit-HBASE-Build/12767//testReport/
Findbugs warnings:
https://builds.apache.org/job/PreCommit-HBASE-Build/12767//artifact/patchprocess/newPatchFindbugsWarningshbase-rest.html
Findbugs warnings:
https://builds.apache.org/job/PreCommit-HBASE-Build/12767//artifact/patchprocess/newPatchFindbugsWarningshbase-common.html
Findbugs warnings:
https://builds.apache.org/job/PreCommit-HBASE-Build/12767//artifact/patchprocess/newPatchFindbugsWarningshbase-client.html
Findbugs warnings:
https://builds.apache.org/job/PreCommit-HBASE-Build/12767//artifact/patchprocess/newPatchFindbugsWarningshbase-annotations.html
Findbugs warnings:
https://builds.apache.org/job/PreCommit-HBASE-Build/12767//artifact/patchprocess/newPatchFindbugsWarningshbase-hadoop-compat.html
Findbugs warnings:
https://builds.apache.org/job/PreCommit-HBASE-Build/12767//artifact/patchprocess/newPatchFindbugsWarningshbase-server.html
Findbugs warnings:
https://builds.apache.org/job/PreCommit-HBASE-Build/12767//artifact/patchprocess/newPatchFindbugsWarningshbase-prefix-tree.html
Findbugs warnings:
https://builds.apache.org/job/PreCommit-HBASE-Build/12767//artifact/patchprocess/newPatchFindbugsWarningshbase-protocol.html
Findbugs warnings:
https://builds.apache.org/job/PreCommit-HBASE-Build/12767//artifact/patchprocess/newPatchFindbugsWarningshbase-thrift.html
Findbugs warnings:
https://builds.apache.org/job/PreCommit-HBASE-Build/12767//artifact/patchprocess/newPatchFindbugsWarningshbase-examples.html
Findbugs warnings:
https://builds.apache.org/job/PreCommit-HBASE-Build/12767//artifact/patchprocess/newPatchFindbugsWarningshbase-hadoop2-compat.html
Checkstyle Errors:
https://builds.apache.org/job/PreCommit-HBASE-Build/12767//artifact/patchprocess/checkstyle-aggregate.html
Console output:
https://builds.apache.org/job/PreCommit-HBASE-Build/12767//console
This message is automatically generated.
> Scanner can be stuck in infinite loop if the HFile is corrupted
> ---
>
> Key: HBASE-12949
> URL: https://issues.apache.org/jira/browse/HBASE-12949
> Project: HBase
> Issue Type: Bug
>Affects Versions: 0.94.3, 0.98.10
>Reporter: Jerry He
> Attachments: HBASE-12949-master-v2.patch,
> HBASE-12949-master-v2.patch, HBASE-12949-master.patch
>
>
> We've encountered problem where compaction hangs and never completes.
> After looking into it further, we found that the compaction scanner was stuck
> in a infinite loop. See stack below.
> {noformat}
> org.apache.hadoop.hbase.regionserver.KeyValueHeap.generalizedSeek(KeyValueHeap.java:296)
> org.apache.hadoop.hbase.regionserver.KeyValueHeap.reseek(KeyValueHeap.java:257)
> org.apache.hadoop.hbase.regionserver.StoreScanner.reseek(StoreScanner.java:697)
> org.apache.hadoop.hbase.regionserver.StoreScanner.seekToNextRow(StoreScanner.java:672)
> org.apache.hadoop.hbase.regionserver.StoreScanner.next(StoreScanner.java:529)
> org.apache.hadoop.hbase.regionserver.compactions.Compactor.performCompaction(Compactor.java:223)
> {noformat
[jira] [Commented] (HBASE-12949) Scanner can be stuck in infinite loop if the HFile is corrupted
[
https://issues.apache.org/jira/browse/HBASE-12949?page=com.atlassian.jira.plugin.system.issuetabpanels:comment-tabpanel&focusedCommentId=14315192#comment-14315192
]
stack commented on HBASE-12949:
---
What will happen [~jerryhe] when this comes up inside the regionserver? Will
the region never open again? It'll just be moving around the cluster looking
for a home and each time, the regionserver will take it in only to boot it out
again seconds later?
> Scanner can be stuck in infinite loop if the HFile is corrupted
> ---
>
> Key: HBASE-12949
> URL: https://issues.apache.org/jira/browse/HBASE-12949
> Project: HBase
> Issue Type: Bug
>Affects Versions: 0.94.3, 0.98.10
>Reporter: Jerry He
> Attachments: HBASE-12949-master-v2.patch,
> HBASE-12949-master-v2.patch, HBASE-12949-master.patch
>
>
> We've encountered problem where compaction hangs and never completes.
> After looking into it further, we found that the compaction scanner was stuck
> in a infinite loop. See stack below.
> {noformat}
> org.apache.hadoop.hbase.regionserver.KeyValueHeap.generalizedSeek(KeyValueHeap.java:296)
> org.apache.hadoop.hbase.regionserver.KeyValueHeap.reseek(KeyValueHeap.java:257)
> org.apache.hadoop.hbase.regionserver.StoreScanner.reseek(StoreScanner.java:697)
> org.apache.hadoop.hbase.regionserver.StoreScanner.seekToNextRow(StoreScanner.java:672)
> org.apache.hadoop.hbase.regionserver.StoreScanner.next(StoreScanner.java:529)
> org.apache.hadoop.hbase.regionserver.compactions.Compactor.performCompaction(Compactor.java:223)
> {noformat}
> We identified the hfile that seems to be corrupted. Using HFile tool shows
> the following:
> {noformat}
> [biadmin@hdtest009 bin]$ hbase org.apache.hadoop.hbase.io.hfile.HFile -v -k
> -m -f
> /user/biadmin/CUMMINS_INSITE_V1/7106432d294dd844be15996ccbf2ba84/attributes/f1a7e3113c2c4047ac1fc8fbcb41d8b7
> 15/01/23 11:53:17 INFO Configuration.deprecation: hadoop.native.lib is
> deprecated. Instead, use io.native.lib.available
> 15/01/23 11:53:18 INFO util.ChecksumType: Checksum using
> org.apache.hadoop.util.PureJavaCrc32
> 15/01/23 11:53:18 INFO util.ChecksumType: Checksum can use
> org.apache.hadoop.util.PureJavaCrc32C
> 15/01/23 11:53:18 INFO Configuration.deprecation: fs.default.name is
> deprecated. Instead, use fs.defaultFS
> Scanning ->
> /user/biadmin/CUMMINS_INSITE_V1/7106432d294dd844be15996ccbf2ba84/attributes/f1a7e3113c2c4047ac1fc8fbcb41d8b7
> WARNING, previous row is greater then current row
> filename ->
> /user/biadmin/CUMMINS_INSITE_V1/7106432d294dd844be15996ccbf2ba84/attributes/f1a7e3113c2c4047ac1fc8fbcb41d8b7
> previous ->
> \x00/20110203-094231205-79442793-1410161293068203000\x0Aattributes16794406\x00\x00\x01\x00\x00\x00\x00\x00\x00
> current ->
> Exception in thread "main" java.nio.BufferUnderflowException
> at java.nio.Buffer.nextGetIndex(Buffer.java:489)
> at java.nio.HeapByteBuffer.getInt(HeapByteBuffer.java:347)
> at
> org.apache.hadoop.hbase.io.hfile.HFileReaderV2$ScannerV2.readKeyValueLen(HFileReaderV2.java:856)
> at
> org.apache.hadoop.hbase.io.hfile.HFileReaderV2$ScannerV2.next(HFileReaderV2.java:768)
> at
> org.apache.hadoop.hbase.io.hfile.HFilePrettyPrinter.scanKeysValues(HFilePrettyPrinter.java:362)
> at
> org.apache.hadoop.hbase.io.hfile.HFilePrettyPrinter.processFile(HFilePrettyPrinter.java:262)
> at
> org.apache.hadoop.hbase.io.hfile.HFilePrettyPrinter.run(HFilePrettyPrinter.java:220)
> at org.apache.hadoop.util.ToolRunner.run(ToolRunner.java:70)
> at
> org.apache.hadoop.hbase.io.hfile.HFilePrettyPrinter.main(HFilePrettyPrinter.java:539)
> at org.apache.hadoop.hbase.io.hfile.HFile.main(HFile.java:802)
> {noformat}
> Turning on Java Assert shows the following:
> {noformat}
> Exception in thread "main" java.lang.AssertionError: Key
> 20110203-094231205-79442793-1410161293068203000/attributes:16794406/1099511627776/Minimum/vlen=15/mvcc=0
> followed by a smaller key //0/Minimum/vlen=0/mvcc=0 in cf attributes
> at
> org.apache.hadoop.hbase.regionserver.StoreScanner.checkScanOrder(StoreScanner.java:672)
> {noformat}
> It shows that the hfile seems to be corrupted -- the keys don't seem to be
> right.
> But Scanner is not able to give a meaningful error, but stuck in an infinite
> loop in here:
> {code}
> KeyValueHeap.generalizedSeek()
> while ((scanner = heap.poll()) != null) {
> }
> {code}
--
This message was sent by Atlassian JIRA
(v6.3.4#6332)
[jira] [Commented] (HBASE-12949) Scanner can be stuck in infinite loop if the HFile is corrupted
[
https://issues.apache.org/jira/browse/HBASE-12949?page=com.atlassian.jira.plugin.system.issuetabpanels:comment-tabpanel&focusedCommentId=14313108#comment-14313108
]
Jerry He commented on HBASE-12949:
--
Hi, [~stack]
bq. In the KV constructor, it is going to decode sizes anyway as part of the
parse? Check at this point rather than apart in the CellUtil I suggested above?
I looked through the constructors and methods in KeyValue and their use. It
looks the decoding of the bytes for row length, family length, type are done as
needed by the upper callers at the time of use. Also it looks we can not do
the checking in the getters at the conversion time because they are called on
the artificial/fake keys as well.
I added a v2 of the patch, which only enhanced the check of keyLength. It is
not a complete fix, but it does incremental good :-) and less controversial ?
It caught the corruption case I encountered for this JIRA:
{noformat}
Exception in thread "main" java.lang.IllegalStateException: Invalid currKeyLen
0 or currValueLen 0. Block offset: 2853145836, block length: 65580, position:
29457 (without header).
at
org.apache.hadoop.hbase.io.hfile.HFileReaderV2$ScannerV2.readKeyValueLen(HFileReaderV2.java:884)
at
org.apache.hadoop.hbase.io.hfile.HFileReaderV2$ScannerV2.next(HFileReaderV2.java:790)
at
org.apache.hadoop.hbase.regionserver.StoreFileScanner.next(StoreFileScanner.java:136)
at
org.apache.hadoop.hbase.regionserver.KeyValueHeap.next(KeyValueHeap.java:108)
at
org.apache.hadoop.hbase.regionserver.StoreScanner.next(StoreScanner.java:507)
at
org.apache.hadoop.hbase.regionserver.compactions.Compactor.performCompaction(Compactor.java:223)
at
org.apache.hadoop.hbase.regionserver.compactions.DefaultCompactor.compact(DefaultCompactor.java:77)
{noformat}
> Scanner can be stuck in infinite loop if the HFile is corrupted
> ---
>
> Key: HBASE-12949
> URL: https://issues.apache.org/jira/browse/HBASE-12949
> Project: HBase
> Issue Type: Bug
>Affects Versions: 0.94.3, 0.98.10
>Reporter: Jerry He
> Attachments: HBASE-12949-master-v2.patch, HBASE-12949-master.patch
>
>
> We've encountered problem where compaction hangs and never completes.
> After looking into it further, we found that the compaction scanner was stuck
> in a infinite loop. See stack below.
> {noformat}
> org.apache.hadoop.hbase.regionserver.KeyValueHeap.generalizedSeek(KeyValueHeap.java:296)
> org.apache.hadoop.hbase.regionserver.KeyValueHeap.reseek(KeyValueHeap.java:257)
> org.apache.hadoop.hbase.regionserver.StoreScanner.reseek(StoreScanner.java:697)
> org.apache.hadoop.hbase.regionserver.StoreScanner.seekToNextRow(StoreScanner.java:672)
> org.apache.hadoop.hbase.regionserver.StoreScanner.next(StoreScanner.java:529)
> org.apache.hadoop.hbase.regionserver.compactions.Compactor.performCompaction(Compactor.java:223)
> {noformat}
> We identified the hfile that seems to be corrupted. Using HFile tool shows
> the following:
> {noformat}
> [biadmin@hdtest009 bin]$ hbase org.apache.hadoop.hbase.io.hfile.HFile -v -k
> -m -f
> /user/biadmin/CUMMINS_INSITE_V1/7106432d294dd844be15996ccbf2ba84/attributes/f1a7e3113c2c4047ac1fc8fbcb41d8b7
> 15/01/23 11:53:17 INFO Configuration.deprecation: hadoop.native.lib is
> deprecated. Instead, use io.native.lib.available
> 15/01/23 11:53:18 INFO util.ChecksumType: Checksum using
> org.apache.hadoop.util.PureJavaCrc32
> 15/01/23 11:53:18 INFO util.ChecksumType: Checksum can use
> org.apache.hadoop.util.PureJavaCrc32C
> 15/01/23 11:53:18 INFO Configuration.deprecation: fs.default.name is
> deprecated. Instead, use fs.defaultFS
> Scanning ->
> /user/biadmin/CUMMINS_INSITE_V1/7106432d294dd844be15996ccbf2ba84/attributes/f1a7e3113c2c4047ac1fc8fbcb41d8b7
> WARNING, previous row is greater then current row
> filename ->
> /user/biadmin/CUMMINS_INSITE_V1/7106432d294dd844be15996ccbf2ba84/attributes/f1a7e3113c2c4047ac1fc8fbcb41d8b7
> previous ->
> \x00/20110203-094231205-79442793-1410161293068203000\x0Aattributes16794406\x00\x00\x01\x00\x00\x00\x00\x00\x00
> current ->
> Exception in thread "main" java.nio.BufferUnderflowException
> at java.nio.Buffer.nextGetIndex(Buffer.java:489)
> at java.nio.HeapByteBuffer.getInt(HeapByteBuffer.java:347)
> at
> org.apache.hadoop.hbase.io.hfile.HFileReaderV2$ScannerV2.readKeyValueLen(HFileReaderV2.java:856)
> at
> org.apache.hadoop.hbase.io.hfile.HFileReaderV2$ScannerV2.next(HFileReaderV2.java:768)
> at
> org.apache.hadoop.hbase.io.hfile.HFilePrettyPrinter.scanKeysValues(HFilePrettyPrinter.java:362)
> at
> org.apache.hadoop.hbase.io.hfile.HFilePrettyPrinter.processFile(HFilePrettyPrinter.java:262)
> at
> org.apache.hadoop.hbase.io.hfile.HFilePrettyPr
[jira] [Commented] (HBASE-12949) Scanner can be stuck in infinite loop if the HFile is corrupted
[
https://issues.apache.org/jira/browse/HBASE-12949?page=com.atlassian.jira.plugin.system.issuetabpanels:comment-tabpanel&focusedCommentId=14311057#comment-14311057
]
Jerry He commented on HBASE-12949:
--
Right, The file/block is indeed bad from HBase perspective with the wrong kv
type and lengths. But the FileSystem gives it back to us without complain.
The wrong kv type confused the next and seek logic in scanner, and we were
stuck in an infinite loop.
The original problem was reported with other symptoms on the surface. HBase
clients often failed after a period of time.
The cause was that the infinite compaction held the region lock. There were
periodic bulk loads going to the same table. The bulk loads would block on the
region lock and there was no timeout on the lock.
Then the accumulated bulk loads occupied all the RPC handlers on the region
server. If the region server happens to hold the meta table, the HBase cluster
becomes entirely inaccessible.
> Scanner can be stuck in infinite loop if the HFile is corrupted
> ---
>
> Key: HBASE-12949
> URL: https://issues.apache.org/jira/browse/HBASE-12949
> Project: HBase
> Issue Type: Bug
>Affects Versions: 0.94.3, 0.98.10
>Reporter: Jerry He
> Attachments: HBASE-12949-master.patch
>
>
> We've encountered problem where compaction hangs and never completes.
> After looking into it further, we found that the compaction scanner was stuck
> in a infinite loop. See stack below.
> {noformat}
> org.apache.hadoop.hbase.regionserver.KeyValueHeap.generalizedSeek(KeyValueHeap.java:296)
> org.apache.hadoop.hbase.regionserver.KeyValueHeap.reseek(KeyValueHeap.java:257)
> org.apache.hadoop.hbase.regionserver.StoreScanner.reseek(StoreScanner.java:697)
> org.apache.hadoop.hbase.regionserver.StoreScanner.seekToNextRow(StoreScanner.java:672)
> org.apache.hadoop.hbase.regionserver.StoreScanner.next(StoreScanner.java:529)
> org.apache.hadoop.hbase.regionserver.compactions.Compactor.performCompaction(Compactor.java:223)
> {noformat}
> We identified the hfile that seems to be corrupted. Using HFile tool shows
> the following:
> {noformat}
> [biadmin@hdtest009 bin]$ hbase org.apache.hadoop.hbase.io.hfile.HFile -v -k
> -m -f
> /user/biadmin/CUMMINS_INSITE_V1/7106432d294dd844be15996ccbf2ba84/attributes/f1a7e3113c2c4047ac1fc8fbcb41d8b7
> 15/01/23 11:53:17 INFO Configuration.deprecation: hadoop.native.lib is
> deprecated. Instead, use io.native.lib.available
> 15/01/23 11:53:18 INFO util.ChecksumType: Checksum using
> org.apache.hadoop.util.PureJavaCrc32
> 15/01/23 11:53:18 INFO util.ChecksumType: Checksum can use
> org.apache.hadoop.util.PureJavaCrc32C
> 15/01/23 11:53:18 INFO Configuration.deprecation: fs.default.name is
> deprecated. Instead, use fs.defaultFS
> Scanning ->
> /user/biadmin/CUMMINS_INSITE_V1/7106432d294dd844be15996ccbf2ba84/attributes/f1a7e3113c2c4047ac1fc8fbcb41d8b7
> WARNING, previous row is greater then current row
> filename ->
> /user/biadmin/CUMMINS_INSITE_V1/7106432d294dd844be15996ccbf2ba84/attributes/f1a7e3113c2c4047ac1fc8fbcb41d8b7
> previous ->
> \x00/20110203-094231205-79442793-1410161293068203000\x0Aattributes16794406\x00\x00\x01\x00\x00\x00\x00\x00\x00
> current ->
> Exception in thread "main" java.nio.BufferUnderflowException
> at java.nio.Buffer.nextGetIndex(Buffer.java:489)
> at java.nio.HeapByteBuffer.getInt(HeapByteBuffer.java:347)
> at
> org.apache.hadoop.hbase.io.hfile.HFileReaderV2$ScannerV2.readKeyValueLen(HFileReaderV2.java:856)
> at
> org.apache.hadoop.hbase.io.hfile.HFileReaderV2$ScannerV2.next(HFileReaderV2.java:768)
> at
> org.apache.hadoop.hbase.io.hfile.HFilePrettyPrinter.scanKeysValues(HFilePrettyPrinter.java:362)
> at
> org.apache.hadoop.hbase.io.hfile.HFilePrettyPrinter.processFile(HFilePrettyPrinter.java:262)
> at
> org.apache.hadoop.hbase.io.hfile.HFilePrettyPrinter.run(HFilePrettyPrinter.java:220)
> at org.apache.hadoop.util.ToolRunner.run(ToolRunner.java:70)
> at
> org.apache.hadoop.hbase.io.hfile.HFilePrettyPrinter.main(HFilePrettyPrinter.java:539)
> at org.apache.hadoop.hbase.io.hfile.HFile.main(HFile.java:802)
> {noformat}
> Turning on Java Assert shows the following:
> {noformat}
> Exception in thread "main" java.lang.AssertionError: Key
> 20110203-094231205-79442793-1410161293068203000/attributes:16794406/1099511627776/Minimum/vlen=15/mvcc=0
> followed by a smaller key //0/Minimum/vlen=0/mvcc=0 in cf attributes
> at
> org.apache.hadoop.hbase.regionserver.StoreScanner.checkScanOrder(StoreScanner.java:672)
> {noformat}
> It shows that the hfile seems to be corrupted -- the keys don't seem to be
> right.
> But Scanner is not able to give a meaningful error, but stuck in an infinite
> loop in here:
> {code}
[jira] [Commented] (HBASE-12949) Scanner can be stuck in infinite loop if the HFile is corrupted
[
https://issues.apache.org/jira/browse/HBASE-12949?page=com.atlassian.jira.plugin.system.issuetabpanels:comment-tabpanel&focusedCommentId=14310341#comment-14310341
]
stack commented on HBASE-12949:
---
But we are stuck in an infinite look [~jerryhe]?
> Scanner can be stuck in infinite loop if the HFile is corrupted
> ---
>
> Key: HBASE-12949
> URL: https://issues.apache.org/jira/browse/HBASE-12949
> Project: HBase
> Issue Type: Bug
>Affects Versions: 0.94.3, 0.98.10
>Reporter: Jerry He
> Attachments: HBASE-12949-master.patch
>
>
> We've encountered problem where compaction hangs and never completes.
> After looking into it further, we found that the compaction scanner was stuck
> in a infinite loop. See stack below.
> {noformat}
> org.apache.hadoop.hbase.regionserver.KeyValueHeap.generalizedSeek(KeyValueHeap.java:296)
> org.apache.hadoop.hbase.regionserver.KeyValueHeap.reseek(KeyValueHeap.java:257)
> org.apache.hadoop.hbase.regionserver.StoreScanner.reseek(StoreScanner.java:697)
> org.apache.hadoop.hbase.regionserver.StoreScanner.seekToNextRow(StoreScanner.java:672)
> org.apache.hadoop.hbase.regionserver.StoreScanner.next(StoreScanner.java:529)
> org.apache.hadoop.hbase.regionserver.compactions.Compactor.performCompaction(Compactor.java:223)
> {noformat}
> We identified the hfile that seems to be corrupted. Using HFile tool shows
> the following:
> {noformat}
> [biadmin@hdtest009 bin]$ hbase org.apache.hadoop.hbase.io.hfile.HFile -v -k
> -m -f
> /user/biadmin/CUMMINS_INSITE_V1/7106432d294dd844be15996ccbf2ba84/attributes/f1a7e3113c2c4047ac1fc8fbcb41d8b7
> 15/01/23 11:53:17 INFO Configuration.deprecation: hadoop.native.lib is
> deprecated. Instead, use io.native.lib.available
> 15/01/23 11:53:18 INFO util.ChecksumType: Checksum using
> org.apache.hadoop.util.PureJavaCrc32
> 15/01/23 11:53:18 INFO util.ChecksumType: Checksum can use
> org.apache.hadoop.util.PureJavaCrc32C
> 15/01/23 11:53:18 INFO Configuration.deprecation: fs.default.name is
> deprecated. Instead, use fs.defaultFS
> Scanning ->
> /user/biadmin/CUMMINS_INSITE_V1/7106432d294dd844be15996ccbf2ba84/attributes/f1a7e3113c2c4047ac1fc8fbcb41d8b7
> WARNING, previous row is greater then current row
> filename ->
> /user/biadmin/CUMMINS_INSITE_V1/7106432d294dd844be15996ccbf2ba84/attributes/f1a7e3113c2c4047ac1fc8fbcb41d8b7
> previous ->
> \x00/20110203-094231205-79442793-1410161293068203000\x0Aattributes16794406\x00\x00\x01\x00\x00\x00\x00\x00\x00
> current ->
> Exception in thread "main" java.nio.BufferUnderflowException
> at java.nio.Buffer.nextGetIndex(Buffer.java:489)
> at java.nio.HeapByteBuffer.getInt(HeapByteBuffer.java:347)
> at
> org.apache.hadoop.hbase.io.hfile.HFileReaderV2$ScannerV2.readKeyValueLen(HFileReaderV2.java:856)
> at
> org.apache.hadoop.hbase.io.hfile.HFileReaderV2$ScannerV2.next(HFileReaderV2.java:768)
> at
> org.apache.hadoop.hbase.io.hfile.HFilePrettyPrinter.scanKeysValues(HFilePrettyPrinter.java:362)
> at
> org.apache.hadoop.hbase.io.hfile.HFilePrettyPrinter.processFile(HFilePrettyPrinter.java:262)
> at
> org.apache.hadoop.hbase.io.hfile.HFilePrettyPrinter.run(HFilePrettyPrinter.java:220)
> at org.apache.hadoop.util.ToolRunner.run(ToolRunner.java:70)
> at
> org.apache.hadoop.hbase.io.hfile.HFilePrettyPrinter.main(HFilePrettyPrinter.java:539)
> at org.apache.hadoop.hbase.io.hfile.HFile.main(HFile.java:802)
> {noformat}
> Turning on Java Assert shows the following:
> {noformat}
> Exception in thread "main" java.lang.AssertionError: Key
> 20110203-094231205-79442793-1410161293068203000/attributes:16794406/1099511627776/Minimum/vlen=15/mvcc=0
> followed by a smaller key //0/Minimum/vlen=0/mvcc=0 in cf attributes
> at
> org.apache.hadoop.hbase.regionserver.StoreScanner.checkScanOrder(StoreScanner.java:672)
> {noformat}
> It shows that the hfile seems to be corrupted -- the keys don't seem to be
> right.
> But Scanner is not able to give a meaningful error, but stuck in an infinite
> loop in here:
> {code}
> KeyValueHeap.generalizedSeek()
> while ((scanner = heap.poll()) != null) {
> }
> {code}
--
This message was sent by Atlassian JIRA
(v6.3.4#6332)
[jira] [Commented] (HBASE-12949) Scanner can be stuck in infinite loop if the HFile is corrupted
[
https://issues.apache.org/jira/browse/HBASE-12949?page=com.atlassian.jira.plugin.system.issuetabpanels:comment-tabpanel&focusedCommentId=14310318#comment-14310318
]
Jerry He commented on HBASE-12949:
--
Hi, [~stack]
We are racing on the posting.
Regarding your new question, the symptom seems to be that HBase sees problem
with the its checksum and the data, but the FileSystem is good with the file.
> Scanner can be stuck in infinite loop if the HFile is corrupted
> ---
>
> Key: HBASE-12949
> URL: https://issues.apache.org/jira/browse/HBASE-12949
> Project: HBase
> Issue Type: Bug
>Affects Versions: 0.94.3, 0.98.10
>Reporter: Jerry He
> Attachments: HBASE-12949-master.patch
>
>
> We've encountered problem where compaction hangs and never completes.
> After looking into it further, we found that the compaction scanner was stuck
> in a infinite loop. See stack below.
> {noformat}
> org.apache.hadoop.hbase.regionserver.KeyValueHeap.generalizedSeek(KeyValueHeap.java:296)
> org.apache.hadoop.hbase.regionserver.KeyValueHeap.reseek(KeyValueHeap.java:257)
> org.apache.hadoop.hbase.regionserver.StoreScanner.reseek(StoreScanner.java:697)
> org.apache.hadoop.hbase.regionserver.StoreScanner.seekToNextRow(StoreScanner.java:672)
> org.apache.hadoop.hbase.regionserver.StoreScanner.next(StoreScanner.java:529)
> org.apache.hadoop.hbase.regionserver.compactions.Compactor.performCompaction(Compactor.java:223)
> {noformat}
> We identified the hfile that seems to be corrupted. Using HFile tool shows
> the following:
> {noformat}
> [biadmin@hdtest009 bin]$ hbase org.apache.hadoop.hbase.io.hfile.HFile -v -k
> -m -f
> /user/biadmin/CUMMINS_INSITE_V1/7106432d294dd844be15996ccbf2ba84/attributes/f1a7e3113c2c4047ac1fc8fbcb41d8b7
> 15/01/23 11:53:17 INFO Configuration.deprecation: hadoop.native.lib is
> deprecated. Instead, use io.native.lib.available
> 15/01/23 11:53:18 INFO util.ChecksumType: Checksum using
> org.apache.hadoop.util.PureJavaCrc32
> 15/01/23 11:53:18 INFO util.ChecksumType: Checksum can use
> org.apache.hadoop.util.PureJavaCrc32C
> 15/01/23 11:53:18 INFO Configuration.deprecation: fs.default.name is
> deprecated. Instead, use fs.defaultFS
> Scanning ->
> /user/biadmin/CUMMINS_INSITE_V1/7106432d294dd844be15996ccbf2ba84/attributes/f1a7e3113c2c4047ac1fc8fbcb41d8b7
> WARNING, previous row is greater then current row
> filename ->
> /user/biadmin/CUMMINS_INSITE_V1/7106432d294dd844be15996ccbf2ba84/attributes/f1a7e3113c2c4047ac1fc8fbcb41d8b7
> previous ->
> \x00/20110203-094231205-79442793-1410161293068203000\x0Aattributes16794406\x00\x00\x01\x00\x00\x00\x00\x00\x00
> current ->
> Exception in thread "main" java.nio.BufferUnderflowException
> at java.nio.Buffer.nextGetIndex(Buffer.java:489)
> at java.nio.HeapByteBuffer.getInt(HeapByteBuffer.java:347)
> at
> org.apache.hadoop.hbase.io.hfile.HFileReaderV2$ScannerV2.readKeyValueLen(HFileReaderV2.java:856)
> at
> org.apache.hadoop.hbase.io.hfile.HFileReaderV2$ScannerV2.next(HFileReaderV2.java:768)
> at
> org.apache.hadoop.hbase.io.hfile.HFilePrettyPrinter.scanKeysValues(HFilePrettyPrinter.java:362)
> at
> org.apache.hadoop.hbase.io.hfile.HFilePrettyPrinter.processFile(HFilePrettyPrinter.java:262)
> at
> org.apache.hadoop.hbase.io.hfile.HFilePrettyPrinter.run(HFilePrettyPrinter.java:220)
> at org.apache.hadoop.util.ToolRunner.run(ToolRunner.java:70)
> at
> org.apache.hadoop.hbase.io.hfile.HFilePrettyPrinter.main(HFilePrettyPrinter.java:539)
> at org.apache.hadoop.hbase.io.hfile.HFile.main(HFile.java:802)
> {noformat}
> Turning on Java Assert shows the following:
> {noformat}
> Exception in thread "main" java.lang.AssertionError: Key
> 20110203-094231205-79442793-1410161293068203000/attributes:16794406/1099511627776/Minimum/vlen=15/mvcc=0
> followed by a smaller key //0/Minimum/vlen=0/mvcc=0 in cf attributes
> at
> org.apache.hadoop.hbase.regionserver.StoreScanner.checkScanOrder(StoreScanner.java:672)
> {noformat}
> It shows that the hfile seems to be corrupted -- the keys don't seem to be
> right.
> But Scanner is not able to give a meaningful error, but stuck in an infinite
> loop in here:
> {code}
> KeyValueHeap.generalizedSeek()
> while ((scanner = heap.poll()) != null) {
> }
> {code}
--
This message was sent by Atlassian JIRA
(v6.3.4#6332)
[jira] [Commented] (HBASE-12949) Scanner can be stuck in infinite loop if the HFile is corrupted
[
https://issues.apache.org/jira/browse/HBASE-12949?page=com.atlassian.jira.plugin.system.issuetabpanels:comment-tabpanel&focusedCommentId=14310301#comment-14310301
]
Jerry He commented on HBASE-12949:
--
In this particular case, I have not determined why the corruption happened.
> Scanner can be stuck in infinite loop if the HFile is corrupted
> ---
>
> Key: HBASE-12949
> URL: https://issues.apache.org/jira/browse/HBASE-12949
> Project: HBase
> Issue Type: Bug
>Affects Versions: 0.94.3, 0.98.10
>Reporter: Jerry He
> Attachments: HBASE-12949-master.patch
>
>
> We've encountered problem where compaction hangs and never completes.
> After looking into it further, we found that the compaction scanner was stuck
> in a infinite loop. See stack below.
> {noformat}
> org.apache.hadoop.hbase.regionserver.KeyValueHeap.generalizedSeek(KeyValueHeap.java:296)
> org.apache.hadoop.hbase.regionserver.KeyValueHeap.reseek(KeyValueHeap.java:257)
> org.apache.hadoop.hbase.regionserver.StoreScanner.reseek(StoreScanner.java:697)
> org.apache.hadoop.hbase.regionserver.StoreScanner.seekToNextRow(StoreScanner.java:672)
> org.apache.hadoop.hbase.regionserver.StoreScanner.next(StoreScanner.java:529)
> org.apache.hadoop.hbase.regionserver.compactions.Compactor.performCompaction(Compactor.java:223)
> {noformat}
> We identified the hfile that seems to be corrupted. Using HFile tool shows
> the following:
> {noformat}
> [biadmin@hdtest009 bin]$ hbase org.apache.hadoop.hbase.io.hfile.HFile -v -k
> -m -f
> /user/biadmin/CUMMINS_INSITE_V1/7106432d294dd844be15996ccbf2ba84/attributes/f1a7e3113c2c4047ac1fc8fbcb41d8b7
> 15/01/23 11:53:17 INFO Configuration.deprecation: hadoop.native.lib is
> deprecated. Instead, use io.native.lib.available
> 15/01/23 11:53:18 INFO util.ChecksumType: Checksum using
> org.apache.hadoop.util.PureJavaCrc32
> 15/01/23 11:53:18 INFO util.ChecksumType: Checksum can use
> org.apache.hadoop.util.PureJavaCrc32C
> 15/01/23 11:53:18 INFO Configuration.deprecation: fs.default.name is
> deprecated. Instead, use fs.defaultFS
> Scanning ->
> /user/biadmin/CUMMINS_INSITE_V1/7106432d294dd844be15996ccbf2ba84/attributes/f1a7e3113c2c4047ac1fc8fbcb41d8b7
> WARNING, previous row is greater then current row
> filename ->
> /user/biadmin/CUMMINS_INSITE_V1/7106432d294dd844be15996ccbf2ba84/attributes/f1a7e3113c2c4047ac1fc8fbcb41d8b7
> previous ->
> \x00/20110203-094231205-79442793-1410161293068203000\x0Aattributes16794406\x00\x00\x01\x00\x00\x00\x00\x00\x00
> current ->
> Exception in thread "main" java.nio.BufferUnderflowException
> at java.nio.Buffer.nextGetIndex(Buffer.java:489)
> at java.nio.HeapByteBuffer.getInt(HeapByteBuffer.java:347)
> at
> org.apache.hadoop.hbase.io.hfile.HFileReaderV2$ScannerV2.readKeyValueLen(HFileReaderV2.java:856)
> at
> org.apache.hadoop.hbase.io.hfile.HFileReaderV2$ScannerV2.next(HFileReaderV2.java:768)
> at
> org.apache.hadoop.hbase.io.hfile.HFilePrettyPrinter.scanKeysValues(HFilePrettyPrinter.java:362)
> at
> org.apache.hadoop.hbase.io.hfile.HFilePrettyPrinter.processFile(HFilePrettyPrinter.java:262)
> at
> org.apache.hadoop.hbase.io.hfile.HFilePrettyPrinter.run(HFilePrettyPrinter.java:220)
> at org.apache.hadoop.util.ToolRunner.run(ToolRunner.java:70)
> at
> org.apache.hadoop.hbase.io.hfile.HFilePrettyPrinter.main(HFilePrettyPrinter.java:539)
> at org.apache.hadoop.hbase.io.hfile.HFile.main(HFile.java:802)
> {noformat}
> Turning on Java Assert shows the following:
> {noformat}
> Exception in thread "main" java.lang.AssertionError: Key
> 20110203-094231205-79442793-1410161293068203000/attributes:16794406/1099511627776/Minimum/vlen=15/mvcc=0
> followed by a smaller key //0/Minimum/vlen=0/mvcc=0 in cf attributes
> at
> org.apache.hadoop.hbase.regionserver.StoreScanner.checkScanOrder(StoreScanner.java:672)
> {noformat}
> It shows that the hfile seems to be corrupted -- the keys don't seem to be
> right.
> But Scanner is not able to give a meaningful error, but stuck in an infinite
> loop in here:
> {code}
> KeyValueHeap.generalizedSeek()
> while ((scanner = heap.poll()) != null) {
> }
> {code}
--
This message was sent by Atlassian JIRA
(v6.3.4#6332)
[jira] [Commented] (HBASE-12949) Scanner can be stuck in infinite loop if the HFile is corrupted
[
https://issues.apache.org/jira/browse/HBASE-12949?page=com.atlassian.jira.plugin.system.issuetabpanels:comment-tabpanel&focusedCommentId=14310299#comment-14310299
]
stack commented on HBASE-12949:
---
So, what you thinking on this issue [~jerryhe]? How comes infinite loop if we
were supposed to have fallen back on hdfs block? Maybe that didn't happen in
this case? Or we need to throw a more violent exception?
> Scanner can be stuck in infinite loop if the HFile is corrupted
> ---
>
> Key: HBASE-12949
> URL: https://issues.apache.org/jira/browse/HBASE-12949
> Project: HBase
> Issue Type: Bug
>Affects Versions: 0.94.3, 0.98.10
>Reporter: Jerry He
> Attachments: HBASE-12949-master.patch
>
>
> We've encountered problem where compaction hangs and never completes.
> After looking into it further, we found that the compaction scanner was stuck
> in a infinite loop. See stack below.
> {noformat}
> org.apache.hadoop.hbase.regionserver.KeyValueHeap.generalizedSeek(KeyValueHeap.java:296)
> org.apache.hadoop.hbase.regionserver.KeyValueHeap.reseek(KeyValueHeap.java:257)
> org.apache.hadoop.hbase.regionserver.StoreScanner.reseek(StoreScanner.java:697)
> org.apache.hadoop.hbase.regionserver.StoreScanner.seekToNextRow(StoreScanner.java:672)
> org.apache.hadoop.hbase.regionserver.StoreScanner.next(StoreScanner.java:529)
> org.apache.hadoop.hbase.regionserver.compactions.Compactor.performCompaction(Compactor.java:223)
> {noformat}
> We identified the hfile that seems to be corrupted. Using HFile tool shows
> the following:
> {noformat}
> [biadmin@hdtest009 bin]$ hbase org.apache.hadoop.hbase.io.hfile.HFile -v -k
> -m -f
> /user/biadmin/CUMMINS_INSITE_V1/7106432d294dd844be15996ccbf2ba84/attributes/f1a7e3113c2c4047ac1fc8fbcb41d8b7
> 15/01/23 11:53:17 INFO Configuration.deprecation: hadoop.native.lib is
> deprecated. Instead, use io.native.lib.available
> 15/01/23 11:53:18 INFO util.ChecksumType: Checksum using
> org.apache.hadoop.util.PureJavaCrc32
> 15/01/23 11:53:18 INFO util.ChecksumType: Checksum can use
> org.apache.hadoop.util.PureJavaCrc32C
> 15/01/23 11:53:18 INFO Configuration.deprecation: fs.default.name is
> deprecated. Instead, use fs.defaultFS
> Scanning ->
> /user/biadmin/CUMMINS_INSITE_V1/7106432d294dd844be15996ccbf2ba84/attributes/f1a7e3113c2c4047ac1fc8fbcb41d8b7
> WARNING, previous row is greater then current row
> filename ->
> /user/biadmin/CUMMINS_INSITE_V1/7106432d294dd844be15996ccbf2ba84/attributes/f1a7e3113c2c4047ac1fc8fbcb41d8b7
> previous ->
> \x00/20110203-094231205-79442793-1410161293068203000\x0Aattributes16794406\x00\x00\x01\x00\x00\x00\x00\x00\x00
> current ->
> Exception in thread "main" java.nio.BufferUnderflowException
> at java.nio.Buffer.nextGetIndex(Buffer.java:489)
> at java.nio.HeapByteBuffer.getInt(HeapByteBuffer.java:347)
> at
> org.apache.hadoop.hbase.io.hfile.HFileReaderV2$ScannerV2.readKeyValueLen(HFileReaderV2.java:856)
> at
> org.apache.hadoop.hbase.io.hfile.HFileReaderV2$ScannerV2.next(HFileReaderV2.java:768)
> at
> org.apache.hadoop.hbase.io.hfile.HFilePrettyPrinter.scanKeysValues(HFilePrettyPrinter.java:362)
> at
> org.apache.hadoop.hbase.io.hfile.HFilePrettyPrinter.processFile(HFilePrettyPrinter.java:262)
> at
> org.apache.hadoop.hbase.io.hfile.HFilePrettyPrinter.run(HFilePrettyPrinter.java:220)
> at org.apache.hadoop.util.ToolRunner.run(ToolRunner.java:70)
> at
> org.apache.hadoop.hbase.io.hfile.HFilePrettyPrinter.main(HFilePrettyPrinter.java:539)
> at org.apache.hadoop.hbase.io.hfile.HFile.main(HFile.java:802)
> {noformat}
> Turning on Java Assert shows the following:
> {noformat}
> Exception in thread "main" java.lang.AssertionError: Key
> 20110203-094231205-79442793-1410161293068203000/attributes:16794406/1099511627776/Minimum/vlen=15/mvcc=0
> followed by a smaller key //0/Minimum/vlen=0/mvcc=0 in cf attributes
> at
> org.apache.hadoop.hbase.regionserver.StoreScanner.checkScanOrder(StoreScanner.java:672)
> {noformat}
> It shows that the hfile seems to be corrupted -- the keys don't seem to be
> right.
> But Scanner is not able to give a meaningful error, but stuck in an infinite
> loop in here:
> {code}
> KeyValueHeap.generalizedSeek()
> while ((scanner = heap.poll()) != null) {
> }
> {code}
--
This message was sent by Atlassian JIRA
(v6.3.4#6332)
[jira] [Commented] (HBASE-12949) Scanner can be stuck in infinite loop if the HFile is corrupted
[
https://issues.apache.org/jira/browse/HBASE-12949?page=com.atlassian.jira.plugin.system.issuetabpanels:comment-tabpanel&focusedCommentId=14310295#comment-14310295
]
Jerry He commented on HBASE-12949:
--
Hi, [~stack], [~ram_krish]
Thanks for the comments.
Did a quick dig on the HBase checksum a little as you guys pointed.
The code is doing what is documented, which is:
HBase checksum is on by default, HBase will verify checksums for hfile blocks.
Checksum verification inside FileSystem will be switched off.
If the hbase-checksum verification fails, it will fall back to using FileSystem
checksums.
And it will go back to HBase Checksum later, as Stack mentioned, presumably
HDFS will get the good blocks again.
> Scanner can be stuck in infinite loop if the HFile is corrupted
> ---
>
> Key: HBASE-12949
> URL: https://issues.apache.org/jira/browse/HBASE-12949
> Project: HBase
> Issue Type: Bug
>Affects Versions: 0.94.3, 0.98.10
>Reporter: Jerry He
> Attachments: HBASE-12949-master.patch
>
>
> We've encountered problem where compaction hangs and never completes.
> After looking into it further, we found that the compaction scanner was stuck
> in a infinite loop. See stack below.
> {noformat}
> org.apache.hadoop.hbase.regionserver.KeyValueHeap.generalizedSeek(KeyValueHeap.java:296)
> org.apache.hadoop.hbase.regionserver.KeyValueHeap.reseek(KeyValueHeap.java:257)
> org.apache.hadoop.hbase.regionserver.StoreScanner.reseek(StoreScanner.java:697)
> org.apache.hadoop.hbase.regionserver.StoreScanner.seekToNextRow(StoreScanner.java:672)
> org.apache.hadoop.hbase.regionserver.StoreScanner.next(StoreScanner.java:529)
> org.apache.hadoop.hbase.regionserver.compactions.Compactor.performCompaction(Compactor.java:223)
> {noformat}
> We identified the hfile that seems to be corrupted. Using HFile tool shows
> the following:
> {noformat}
> [biadmin@hdtest009 bin]$ hbase org.apache.hadoop.hbase.io.hfile.HFile -v -k
> -m -f
> /user/biadmin/CUMMINS_INSITE_V1/7106432d294dd844be15996ccbf2ba84/attributes/f1a7e3113c2c4047ac1fc8fbcb41d8b7
> 15/01/23 11:53:17 INFO Configuration.deprecation: hadoop.native.lib is
> deprecated. Instead, use io.native.lib.available
> 15/01/23 11:53:18 INFO util.ChecksumType: Checksum using
> org.apache.hadoop.util.PureJavaCrc32
> 15/01/23 11:53:18 INFO util.ChecksumType: Checksum can use
> org.apache.hadoop.util.PureJavaCrc32C
> 15/01/23 11:53:18 INFO Configuration.deprecation: fs.default.name is
> deprecated. Instead, use fs.defaultFS
> Scanning ->
> /user/biadmin/CUMMINS_INSITE_V1/7106432d294dd844be15996ccbf2ba84/attributes/f1a7e3113c2c4047ac1fc8fbcb41d8b7
> WARNING, previous row is greater then current row
> filename ->
> /user/biadmin/CUMMINS_INSITE_V1/7106432d294dd844be15996ccbf2ba84/attributes/f1a7e3113c2c4047ac1fc8fbcb41d8b7
> previous ->
> \x00/20110203-094231205-79442793-1410161293068203000\x0Aattributes16794406\x00\x00\x01\x00\x00\x00\x00\x00\x00
> current ->
> Exception in thread "main" java.nio.BufferUnderflowException
> at java.nio.Buffer.nextGetIndex(Buffer.java:489)
> at java.nio.HeapByteBuffer.getInt(HeapByteBuffer.java:347)
> at
> org.apache.hadoop.hbase.io.hfile.HFileReaderV2$ScannerV2.readKeyValueLen(HFileReaderV2.java:856)
> at
> org.apache.hadoop.hbase.io.hfile.HFileReaderV2$ScannerV2.next(HFileReaderV2.java:768)
> at
> org.apache.hadoop.hbase.io.hfile.HFilePrettyPrinter.scanKeysValues(HFilePrettyPrinter.java:362)
> at
> org.apache.hadoop.hbase.io.hfile.HFilePrettyPrinter.processFile(HFilePrettyPrinter.java:262)
> at
> org.apache.hadoop.hbase.io.hfile.HFilePrettyPrinter.run(HFilePrettyPrinter.java:220)
> at org.apache.hadoop.util.ToolRunner.run(ToolRunner.java:70)
> at
> org.apache.hadoop.hbase.io.hfile.HFilePrettyPrinter.main(HFilePrettyPrinter.java:539)
> at org.apache.hadoop.hbase.io.hfile.HFile.main(HFile.java:802)
> {noformat}
> Turning on Java Assert shows the following:
> {noformat}
> Exception in thread "main" java.lang.AssertionError: Key
> 20110203-094231205-79442793-1410161293068203000/attributes:16794406/1099511627776/Minimum/vlen=15/mvcc=0
> followed by a smaller key //0/Minimum/vlen=0/mvcc=0 in cf attributes
> at
> org.apache.hadoop.hbase.regionserver.StoreScanner.checkScanOrder(StoreScanner.java:672)
> {noformat}
> It shows that the hfile seems to be corrupted -- the keys don't seem to be
> right.
> But Scanner is not able to give a meaningful error, but stuck in an infinite
> loop in here:
> {code}
> KeyValueHeap.generalizedSeek()
> while ((scanner = heap.poll()) != null) {
> }
> {code}
--
This message was sent by Atlassian JIRA
(v6.3.4#6332)
[jira] [Commented] (HBASE-12949) Scanner can be stuck in infinite loop if the HFile is corrupted
[
https://issues.apache.org/jira/browse/HBASE-12949?page=com.atlassian.jira.plugin.system.issuetabpanels:comment-tabpanel&focusedCommentId=14310253#comment-14310253
]
stack commented on HBASE-12949:
---
bq. ... is it ok to continue with hdfs checksumming?
Sure. Our version of the block is 'bad'. Hopefully HDFS will have a good one
for us to use.
bq. I think it would be better to identify the reason for corruption - leading
to hbase checksumming issue.
If checksum error persists, probably something up w/ the machine worth looking
into.
> Scanner can be stuck in infinite loop if the HFile is corrupted
> ---
>
> Key: HBASE-12949
> URL: https://issues.apache.org/jira/browse/HBASE-12949
> Project: HBase
> Issue Type: Bug
>Affects Versions: 0.94.3, 0.98.10
>Reporter: Jerry He
> Attachments: HBASE-12949-master.patch
>
>
> We've encountered problem where compaction hangs and never completes.
> After looking into it further, we found that the compaction scanner was stuck
> in a infinite loop. See stack below.
> {noformat}
> org.apache.hadoop.hbase.regionserver.KeyValueHeap.generalizedSeek(KeyValueHeap.java:296)
> org.apache.hadoop.hbase.regionserver.KeyValueHeap.reseek(KeyValueHeap.java:257)
> org.apache.hadoop.hbase.regionserver.StoreScanner.reseek(StoreScanner.java:697)
> org.apache.hadoop.hbase.regionserver.StoreScanner.seekToNextRow(StoreScanner.java:672)
> org.apache.hadoop.hbase.regionserver.StoreScanner.next(StoreScanner.java:529)
> org.apache.hadoop.hbase.regionserver.compactions.Compactor.performCompaction(Compactor.java:223)
> {noformat}
> We identified the hfile that seems to be corrupted. Using HFile tool shows
> the following:
> {noformat}
> [biadmin@hdtest009 bin]$ hbase org.apache.hadoop.hbase.io.hfile.HFile -v -k
> -m -f
> /user/biadmin/CUMMINS_INSITE_V1/7106432d294dd844be15996ccbf2ba84/attributes/f1a7e3113c2c4047ac1fc8fbcb41d8b7
> 15/01/23 11:53:17 INFO Configuration.deprecation: hadoop.native.lib is
> deprecated. Instead, use io.native.lib.available
> 15/01/23 11:53:18 INFO util.ChecksumType: Checksum using
> org.apache.hadoop.util.PureJavaCrc32
> 15/01/23 11:53:18 INFO util.ChecksumType: Checksum can use
> org.apache.hadoop.util.PureJavaCrc32C
> 15/01/23 11:53:18 INFO Configuration.deprecation: fs.default.name is
> deprecated. Instead, use fs.defaultFS
> Scanning ->
> /user/biadmin/CUMMINS_INSITE_V1/7106432d294dd844be15996ccbf2ba84/attributes/f1a7e3113c2c4047ac1fc8fbcb41d8b7
> WARNING, previous row is greater then current row
> filename ->
> /user/biadmin/CUMMINS_INSITE_V1/7106432d294dd844be15996ccbf2ba84/attributes/f1a7e3113c2c4047ac1fc8fbcb41d8b7
> previous ->
> \x00/20110203-094231205-79442793-1410161293068203000\x0Aattributes16794406\x00\x00\x01\x00\x00\x00\x00\x00\x00
> current ->
> Exception in thread "main" java.nio.BufferUnderflowException
> at java.nio.Buffer.nextGetIndex(Buffer.java:489)
> at java.nio.HeapByteBuffer.getInt(HeapByteBuffer.java:347)
> at
> org.apache.hadoop.hbase.io.hfile.HFileReaderV2$ScannerV2.readKeyValueLen(HFileReaderV2.java:856)
> at
> org.apache.hadoop.hbase.io.hfile.HFileReaderV2$ScannerV2.next(HFileReaderV2.java:768)
> at
> org.apache.hadoop.hbase.io.hfile.HFilePrettyPrinter.scanKeysValues(HFilePrettyPrinter.java:362)
> at
> org.apache.hadoop.hbase.io.hfile.HFilePrettyPrinter.processFile(HFilePrettyPrinter.java:262)
> at
> org.apache.hadoop.hbase.io.hfile.HFilePrettyPrinter.run(HFilePrettyPrinter.java:220)
> at org.apache.hadoop.util.ToolRunner.run(ToolRunner.java:70)
> at
> org.apache.hadoop.hbase.io.hfile.HFilePrettyPrinter.main(HFilePrettyPrinter.java:539)
> at org.apache.hadoop.hbase.io.hfile.HFile.main(HFile.java:802)
> {noformat}
> Turning on Java Assert shows the following:
> {noformat}
> Exception in thread "main" java.lang.AssertionError: Key
> 20110203-094231205-79442793-1410161293068203000/attributes:16794406/1099511627776/Minimum/vlen=15/mvcc=0
> followed by a smaller key //0/Minimum/vlen=0/mvcc=0 in cf attributes
> at
> org.apache.hadoop.hbase.regionserver.StoreScanner.checkScanOrder(StoreScanner.java:672)
> {noformat}
> It shows that the hfile seems to be corrupted -- the keys don't seem to be
> right.
> But Scanner is not able to give a meaningful error, but stuck in an infinite
> loop in here:
> {code}
> KeyValueHeap.generalizedSeek()
> while ((scanner = heap.poll()) != null) {
> }
> {code}
--
This message was sent by Atlassian JIRA
(v6.3.4#6332)
[jira] [Commented] (HBASE-12949) Scanner can be stuck in infinite loop if the HFile is corrupted
[
https://issues.apache.org/jira/browse/HBASE-12949?page=com.atlassian.jira.plugin.system.issuetabpanels:comment-tabpanel&focusedCommentId=14309062#comment-14309062
]
ramkrishna.s.vasudevan commented on HBASE-12949:
I agree with Stack here. [~saint@gmail.com] a general question, if HBase
checksum is going to fail and because of that KV parsing is going to fail, is
it ok to continue with hdfs checksumming?
I think it would be better to identify the reason for corruption - leading to
hbase checksumming issue.
> Scanner can be stuck in infinite loop if the HFile is corrupted
> ---
>
> Key: HBASE-12949
> URL: https://issues.apache.org/jira/browse/HBASE-12949
> Project: HBase
> Issue Type: Bug
>Affects Versions: 0.94.3, 0.98.10
>Reporter: Jerry He
> Attachments: HBASE-12949-master.patch
>
>
> We've encountered problem where compaction hangs and never completes.
> After looking into it further, we found that the compaction scanner was stuck
> in a infinite loop. See stack below.
> {noformat}
> org.apache.hadoop.hbase.regionserver.KeyValueHeap.generalizedSeek(KeyValueHeap.java:296)
> org.apache.hadoop.hbase.regionserver.KeyValueHeap.reseek(KeyValueHeap.java:257)
> org.apache.hadoop.hbase.regionserver.StoreScanner.reseek(StoreScanner.java:697)
> org.apache.hadoop.hbase.regionserver.StoreScanner.seekToNextRow(StoreScanner.java:672)
> org.apache.hadoop.hbase.regionserver.StoreScanner.next(StoreScanner.java:529)
> org.apache.hadoop.hbase.regionserver.compactions.Compactor.performCompaction(Compactor.java:223)
> {noformat}
> We identified the hfile that seems to be corrupted. Using HFile tool shows
> the following:
> {noformat}
> [biadmin@hdtest009 bin]$ hbase org.apache.hadoop.hbase.io.hfile.HFile -v -k
> -m -f
> /user/biadmin/CUMMINS_INSITE_V1/7106432d294dd844be15996ccbf2ba84/attributes/f1a7e3113c2c4047ac1fc8fbcb41d8b7
> 15/01/23 11:53:17 INFO Configuration.deprecation: hadoop.native.lib is
> deprecated. Instead, use io.native.lib.available
> 15/01/23 11:53:18 INFO util.ChecksumType: Checksum using
> org.apache.hadoop.util.PureJavaCrc32
> 15/01/23 11:53:18 INFO util.ChecksumType: Checksum can use
> org.apache.hadoop.util.PureJavaCrc32C
> 15/01/23 11:53:18 INFO Configuration.deprecation: fs.default.name is
> deprecated. Instead, use fs.defaultFS
> Scanning ->
> /user/biadmin/CUMMINS_INSITE_V1/7106432d294dd844be15996ccbf2ba84/attributes/f1a7e3113c2c4047ac1fc8fbcb41d8b7
> WARNING, previous row is greater then current row
> filename ->
> /user/biadmin/CUMMINS_INSITE_V1/7106432d294dd844be15996ccbf2ba84/attributes/f1a7e3113c2c4047ac1fc8fbcb41d8b7
> previous ->
> \x00/20110203-094231205-79442793-1410161293068203000\x0Aattributes16794406\x00\x00\x01\x00\x00\x00\x00\x00\x00
> current ->
> Exception in thread "main" java.nio.BufferUnderflowException
> at java.nio.Buffer.nextGetIndex(Buffer.java:489)
> at java.nio.HeapByteBuffer.getInt(HeapByteBuffer.java:347)
> at
> org.apache.hadoop.hbase.io.hfile.HFileReaderV2$ScannerV2.readKeyValueLen(HFileReaderV2.java:856)
> at
> org.apache.hadoop.hbase.io.hfile.HFileReaderV2$ScannerV2.next(HFileReaderV2.java:768)
> at
> org.apache.hadoop.hbase.io.hfile.HFilePrettyPrinter.scanKeysValues(HFilePrettyPrinter.java:362)
> at
> org.apache.hadoop.hbase.io.hfile.HFilePrettyPrinter.processFile(HFilePrettyPrinter.java:262)
> at
> org.apache.hadoop.hbase.io.hfile.HFilePrettyPrinter.run(HFilePrettyPrinter.java:220)
> at org.apache.hadoop.util.ToolRunner.run(ToolRunner.java:70)
> at
> org.apache.hadoop.hbase.io.hfile.HFilePrettyPrinter.main(HFilePrettyPrinter.java:539)
> at org.apache.hadoop.hbase.io.hfile.HFile.main(HFile.java:802)
> {noformat}
> Turning on Java Assert shows the following:
> {noformat}
> Exception in thread "main" java.lang.AssertionError: Key
> 20110203-094231205-79442793-1410161293068203000/attributes:16794406/1099511627776/Minimum/vlen=15/mvcc=0
> followed by a smaller key //0/Minimum/vlen=0/mvcc=0 in cf attributes
> at
> org.apache.hadoop.hbase.regionserver.StoreScanner.checkScanOrder(StoreScanner.java:672)
> {noformat}
> It shows that the hfile seems to be corrupted -- the keys don't seem to be
> right.
> But Scanner is not able to give a meaningful error, but stuck in an infinite
> loop in here:
> {code}
> KeyValueHeap.generalizedSeek()
> while ((scanner = heap.poll()) != null) {
> }
> {code}
--
This message was sent by Atlassian JIRA
(v6.3.4#6332)
[jira] [Commented] (HBASE-12949) Scanner can be stuck in infinite loop if the HFile is corrupted
[
https://issues.apache.org/jira/browse/HBASE-12949?page=com.atlassian.jira.plugin.system.issuetabpanels:comment-tabpanel&focusedCommentId=14308732#comment-14308732
]
stack commented on HBASE-12949:
---
bq. Looks like in the code, if HBase checksum fails, we just turn it off?
Suggest we dig in here more. If checksum fails, indeed, parse of KV/Cell is
going to be problematic.
Looking at logging, the hbase-based checksumming failed so we were supposed to
fall back to the hdfs checksumming (you know about this [~jerryhe]? If not,
just say and I can point you to right place). Maybe something messed up here.
If bad checksum, we should be failing the read for sure.
> Scanner can be stuck in infinite loop if the HFile is corrupted
> ---
>
> Key: HBASE-12949
> URL: https://issues.apache.org/jira/browse/HBASE-12949
> Project: HBase
> Issue Type: Bug
>Affects Versions: 0.94.3, 0.98.10
>Reporter: Jerry He
> Attachments: HBASE-12949-master.patch
>
>
> We've encountered problem where compaction hangs and never completes.
> After looking into it further, we found that the compaction scanner was stuck
> in a infinite loop. See stack below.
> {noformat}
> org.apache.hadoop.hbase.regionserver.KeyValueHeap.generalizedSeek(KeyValueHeap.java:296)
> org.apache.hadoop.hbase.regionserver.KeyValueHeap.reseek(KeyValueHeap.java:257)
> org.apache.hadoop.hbase.regionserver.StoreScanner.reseek(StoreScanner.java:697)
> org.apache.hadoop.hbase.regionserver.StoreScanner.seekToNextRow(StoreScanner.java:672)
> org.apache.hadoop.hbase.regionserver.StoreScanner.next(StoreScanner.java:529)
> org.apache.hadoop.hbase.regionserver.compactions.Compactor.performCompaction(Compactor.java:223)
> {noformat}
> We identified the hfile that seems to be corrupted. Using HFile tool shows
> the following:
> {noformat}
> [biadmin@hdtest009 bin]$ hbase org.apache.hadoop.hbase.io.hfile.HFile -v -k
> -m -f
> /user/biadmin/CUMMINS_INSITE_V1/7106432d294dd844be15996ccbf2ba84/attributes/f1a7e3113c2c4047ac1fc8fbcb41d8b7
> 15/01/23 11:53:17 INFO Configuration.deprecation: hadoop.native.lib is
> deprecated. Instead, use io.native.lib.available
> 15/01/23 11:53:18 INFO util.ChecksumType: Checksum using
> org.apache.hadoop.util.PureJavaCrc32
> 15/01/23 11:53:18 INFO util.ChecksumType: Checksum can use
> org.apache.hadoop.util.PureJavaCrc32C
> 15/01/23 11:53:18 INFO Configuration.deprecation: fs.default.name is
> deprecated. Instead, use fs.defaultFS
> Scanning ->
> /user/biadmin/CUMMINS_INSITE_V1/7106432d294dd844be15996ccbf2ba84/attributes/f1a7e3113c2c4047ac1fc8fbcb41d8b7
> WARNING, previous row is greater then current row
> filename ->
> /user/biadmin/CUMMINS_INSITE_V1/7106432d294dd844be15996ccbf2ba84/attributes/f1a7e3113c2c4047ac1fc8fbcb41d8b7
> previous ->
> \x00/20110203-094231205-79442793-1410161293068203000\x0Aattributes16794406\x00\x00\x01\x00\x00\x00\x00\x00\x00
> current ->
> Exception in thread "main" java.nio.BufferUnderflowException
> at java.nio.Buffer.nextGetIndex(Buffer.java:489)
> at java.nio.HeapByteBuffer.getInt(HeapByteBuffer.java:347)
> at
> org.apache.hadoop.hbase.io.hfile.HFileReaderV2$ScannerV2.readKeyValueLen(HFileReaderV2.java:856)
> at
> org.apache.hadoop.hbase.io.hfile.HFileReaderV2$ScannerV2.next(HFileReaderV2.java:768)
> at
> org.apache.hadoop.hbase.io.hfile.HFilePrettyPrinter.scanKeysValues(HFilePrettyPrinter.java:362)
> at
> org.apache.hadoop.hbase.io.hfile.HFilePrettyPrinter.processFile(HFilePrettyPrinter.java:262)
> at
> org.apache.hadoop.hbase.io.hfile.HFilePrettyPrinter.run(HFilePrettyPrinter.java:220)
> at org.apache.hadoop.util.ToolRunner.run(ToolRunner.java:70)
> at
> org.apache.hadoop.hbase.io.hfile.HFilePrettyPrinter.main(HFilePrettyPrinter.java:539)
> at org.apache.hadoop.hbase.io.hfile.HFile.main(HFile.java:802)
> {noformat}
> Turning on Java Assert shows the following:
> {noformat}
> Exception in thread "main" java.lang.AssertionError: Key
> 20110203-094231205-79442793-1410161293068203000/attributes:16794406/1099511627776/Minimum/vlen=15/mvcc=0
> followed by a smaller key //0/Minimum/vlen=0/mvcc=0 in cf attributes
> at
> org.apache.hadoop.hbase.regionserver.StoreScanner.checkScanOrder(StoreScanner.java:672)
> {noformat}
> It shows that the hfile seems to be corrupted -- the keys don't seem to be
> right.
> But Scanner is not able to give a meaningful error, but stuck in an infinite
> loop in here:
> {code}
> KeyValueHeap.generalizedSeek()
> while ((scanner = heap.poll()) != null) {
> }
> {code}
--
This message was sent by Atlassian JIRA
(v6.3.4#6332)
[jira] [Commented] (HBASE-12949) Scanner can be stuck in infinite loop if the HFile is corrupted
[
https://issues.apache.org/jira/browse/HBASE-12949?page=com.atlassian.jira.plugin.system.issuetabpanels:comment-tabpanel&focusedCommentId=14308339#comment-14308339
]
Jerry He commented on HBASE-12949:
--
Hi, [~stack]
Regarding the checksum comment, there were indeed these messages in the logs
{noformat}
2015-01-31 14:53:09,848 WARN org.apache.hadoop.hbase.io.hfile.HFile: File
hdfs://hdtest009:9000/hbase/data/default/CUMMINS_INSITE_V1/e57ef4908adb6bcfc72cdcfd2ac2564f/attributes/f1a7e3113c2c4047ac1fc8fbcb41d8b7
Stored checksum value of 0 at offset 65613 does not match computed checksum
2413089988, total data size 65666 Checksum data range offset 33 len 16351
Header dump: magic: 4918304907327195946 blockType DATA
compressedBlockSizeNoHeader 65600 uncompressedBlockSizeNoHeader 65580
prevBlockOffset 2853080217 checksumType CRC32 bytesPerChecksum 16384
onDiskDataSizeWithHeader 65613
2015-01-31 14:53:09,848 WARN org.apache.hadoop.hbase.io.hfile.HFile: HBase
checksum verification failed for file
hdfs://hdtest009:9000/hbase/data/default/CUMMINS_INSITE_V1/e57ef4908adb6bcfc72cdcfd2ac2564f/attributes/f1a7e3113c2c4047ac1fc8fbcb41d8b7
at offset 2853145836 filesize 6861765956. Retrying read with HDFS checksums
turned on...
2015-01-31 14:53:09,855 WARN org.apache.hadoop.hbase.io.hfile.HFile: HDFS
checksum verification suceeded for file
hdfs://hdtest009:9000/hbase/data/default/CUMMINS_INSITE_V1/e57ef4908adb6bcfc72cdcfd2ac2564f/attributes/f1a7e3113c2c4047ac1fc8fbcb41d8b7
at offset 2853145836 filesize 6861765956
{noformat}
Looks like in the code, if HBase checksum fails, we just turn it off?
> Scanner can be stuck in infinite loop if the HFile is corrupted
> ---
>
> Key: HBASE-12949
> URL: https://issues.apache.org/jira/browse/HBASE-12949
> Project: HBase
> Issue Type: Bug
>Affects Versions: 0.94.3, 0.98.10
>Reporter: Jerry He
> Attachments: HBASE-12949-master.patch
>
>
> We've encountered problem where compaction hangs and never completes.
> After looking into it further, we found that the compaction scanner was stuck
> in a infinite loop. See stack below.
> {noformat}
> org.apache.hadoop.hbase.regionserver.KeyValueHeap.generalizedSeek(KeyValueHeap.java:296)
> org.apache.hadoop.hbase.regionserver.KeyValueHeap.reseek(KeyValueHeap.java:257)
> org.apache.hadoop.hbase.regionserver.StoreScanner.reseek(StoreScanner.java:697)
> org.apache.hadoop.hbase.regionserver.StoreScanner.seekToNextRow(StoreScanner.java:672)
> org.apache.hadoop.hbase.regionserver.StoreScanner.next(StoreScanner.java:529)
> org.apache.hadoop.hbase.regionserver.compactions.Compactor.performCompaction(Compactor.java:223)
> {noformat}
> We identified the hfile that seems to be corrupted. Using HFile tool shows
> the following:
> {noformat}
> [biadmin@hdtest009 bin]$ hbase org.apache.hadoop.hbase.io.hfile.HFile -v -k
> -m -f
> /user/biadmin/CUMMINS_INSITE_V1/7106432d294dd844be15996ccbf2ba84/attributes/f1a7e3113c2c4047ac1fc8fbcb41d8b7
> 15/01/23 11:53:17 INFO Configuration.deprecation: hadoop.native.lib is
> deprecated. Instead, use io.native.lib.available
> 15/01/23 11:53:18 INFO util.ChecksumType: Checksum using
> org.apache.hadoop.util.PureJavaCrc32
> 15/01/23 11:53:18 INFO util.ChecksumType: Checksum can use
> org.apache.hadoop.util.PureJavaCrc32C
> 15/01/23 11:53:18 INFO Configuration.deprecation: fs.default.name is
> deprecated. Instead, use fs.defaultFS
> Scanning ->
> /user/biadmin/CUMMINS_INSITE_V1/7106432d294dd844be15996ccbf2ba84/attributes/f1a7e3113c2c4047ac1fc8fbcb41d8b7
> WARNING, previous row is greater then current row
> filename ->
> /user/biadmin/CUMMINS_INSITE_V1/7106432d294dd844be15996ccbf2ba84/attributes/f1a7e3113c2c4047ac1fc8fbcb41d8b7
> previous ->
> \x00/20110203-094231205-79442793-1410161293068203000\x0Aattributes16794406\x00\x00\x01\x00\x00\x00\x00\x00\x00
> current ->
> Exception in thread "main" java.nio.BufferUnderflowException
> at java.nio.Buffer.nextGetIndex(Buffer.java:489)
> at java.nio.HeapByteBuffer.getInt(HeapByteBuffer.java:347)
> at
> org.apache.hadoop.hbase.io.hfile.HFileReaderV2$ScannerV2.readKeyValueLen(HFileReaderV2.java:856)
> at
> org.apache.hadoop.hbase.io.hfile.HFileReaderV2$ScannerV2.next(HFileReaderV2.java:768)
> at
> org.apache.hadoop.hbase.io.hfile.HFilePrettyPrinter.scanKeysValues(HFilePrettyPrinter.java:362)
> at
> org.apache.hadoop.hbase.io.hfile.HFilePrettyPrinter.processFile(HFilePrettyPrinter.java:262)
> at
> org.apache.hadoop.hbase.io.hfile.HFilePrettyPrinter.run(HFilePrettyPrinter.java:220)
> at org.apache.hadoop.util.ToolRunner.run(ToolRunner.java:70)
> at
> org.apache.hadoop.hbase.io.hfile.HFilePrettyPrinter.main(HFilePrettyPrinter.java:539)
> at org.apache.hadoop.hbase.io.hfile.HFile.main(HFil
[jira] [Commented] (HBASE-12949) Scanner can be stuck in infinite loop if the HFile is corrupted
[
https://issues.apache.org/jira/browse/HBASE-12949?page=com.atlassian.jira.plugin.system.issuetabpanels:comment-tabpanel&focusedCommentId=14308265#comment-14308265
]
Jerry He commented on HBASE-12949:
--
If the header/trailer of the hfile is corrupted, the problem probably shows up
very quickly.
The hbck tool has a '-checkCorruptHFiles' option, although it only checks that
we can create readers on the files: headers/trailers are ok.
For corruptions in the data cells, there does not seem to be a quick way. I
had to run the HFile tool on the individual suspected region files.
The hbck tool can be enhanced to have option to check rows/cells on a table.
> Scanner can be stuck in infinite loop if the HFile is corrupted
> ---
>
> Key: HBASE-12949
> URL: https://issues.apache.org/jira/browse/HBASE-12949
> Project: HBase
> Issue Type: Bug
>Affects Versions: 0.94.3, 0.98.10
>Reporter: Jerry He
> Attachments: HBASE-12949-master.patch
>
>
> We've encountered problem where compaction hangs and never completes.
> After looking into it further, we found that the compaction scanner was stuck
> in a infinite loop. See stack below.
> {noformat}
> org.apache.hadoop.hbase.regionserver.KeyValueHeap.generalizedSeek(KeyValueHeap.java:296)
> org.apache.hadoop.hbase.regionserver.KeyValueHeap.reseek(KeyValueHeap.java:257)
> org.apache.hadoop.hbase.regionserver.StoreScanner.reseek(StoreScanner.java:697)
> org.apache.hadoop.hbase.regionserver.StoreScanner.seekToNextRow(StoreScanner.java:672)
> org.apache.hadoop.hbase.regionserver.StoreScanner.next(StoreScanner.java:529)
> org.apache.hadoop.hbase.regionserver.compactions.Compactor.performCompaction(Compactor.java:223)
> {noformat}
> We identified the hfile that seems to be corrupted. Using HFile tool shows
> the following:
> {noformat}
> [biadmin@hdtest009 bin]$ hbase org.apache.hadoop.hbase.io.hfile.HFile -v -k
> -m -f
> /user/biadmin/CUMMINS_INSITE_V1/7106432d294dd844be15996ccbf2ba84/attributes/f1a7e3113c2c4047ac1fc8fbcb41d8b7
> 15/01/23 11:53:17 INFO Configuration.deprecation: hadoop.native.lib is
> deprecated. Instead, use io.native.lib.available
> 15/01/23 11:53:18 INFO util.ChecksumType: Checksum using
> org.apache.hadoop.util.PureJavaCrc32
> 15/01/23 11:53:18 INFO util.ChecksumType: Checksum can use
> org.apache.hadoop.util.PureJavaCrc32C
> 15/01/23 11:53:18 INFO Configuration.deprecation: fs.default.name is
> deprecated. Instead, use fs.defaultFS
> Scanning ->
> /user/biadmin/CUMMINS_INSITE_V1/7106432d294dd844be15996ccbf2ba84/attributes/f1a7e3113c2c4047ac1fc8fbcb41d8b7
> WARNING, previous row is greater then current row
> filename ->
> /user/biadmin/CUMMINS_INSITE_V1/7106432d294dd844be15996ccbf2ba84/attributes/f1a7e3113c2c4047ac1fc8fbcb41d8b7
> previous ->
> \x00/20110203-094231205-79442793-1410161293068203000\x0Aattributes16794406\x00\x00\x01\x00\x00\x00\x00\x00\x00
> current ->
> Exception in thread "main" java.nio.BufferUnderflowException
> at java.nio.Buffer.nextGetIndex(Buffer.java:489)
> at java.nio.HeapByteBuffer.getInt(HeapByteBuffer.java:347)
> at
> org.apache.hadoop.hbase.io.hfile.HFileReaderV2$ScannerV2.readKeyValueLen(HFileReaderV2.java:856)
> at
> org.apache.hadoop.hbase.io.hfile.HFileReaderV2$ScannerV2.next(HFileReaderV2.java:768)
> at
> org.apache.hadoop.hbase.io.hfile.HFilePrettyPrinter.scanKeysValues(HFilePrettyPrinter.java:362)
> at
> org.apache.hadoop.hbase.io.hfile.HFilePrettyPrinter.processFile(HFilePrettyPrinter.java:262)
> at
> org.apache.hadoop.hbase.io.hfile.HFilePrettyPrinter.run(HFilePrettyPrinter.java:220)
> at org.apache.hadoop.util.ToolRunner.run(ToolRunner.java:70)
> at
> org.apache.hadoop.hbase.io.hfile.HFilePrettyPrinter.main(HFilePrettyPrinter.java:539)
> at org.apache.hadoop.hbase.io.hfile.HFile.main(HFile.java:802)
> {noformat}
> Turning on Java Assert shows the following:
> {noformat}
> Exception in thread "main" java.lang.AssertionError: Key
> 20110203-094231205-79442793-1410161293068203000/attributes:16794406/1099511627776/Minimum/vlen=15/mvcc=0
> followed by a smaller key //0/Minimum/vlen=0/mvcc=0 in cf attributes
> at
> org.apache.hadoop.hbase.regionserver.StoreScanner.checkScanOrder(StoreScanner.java:672)
> {noformat}
> It shows that the hfile seems to be corrupted -- the keys don't seem to be
> right.
> But Scanner is not able to give a meaningful error, but stuck in an infinite
> loop in here:
> {code}
> KeyValueHeap.generalizedSeek()
> while ((scanner = heap.poll()) != null) {
> }
> {code}
--
This message was sent by Atlassian JIRA
(v6.3.4#6332)
[jira] [Commented] (HBASE-12949) Scanner can be stuck in infinite loop if the HFile is corrupted
[
https://issues.apache.org/jira/browse/HBASE-12949?page=com.atlassian.jira.plugin.system.issuetabpanels:comment-tabpanel&focusedCommentId=14308264#comment-14308264
]
stack commented on HBASE-12949:
---
Another thought, we'd not fail checksum if managled Cells?
[~jerryhe] Just say no to more configs! I'm not mad about adding friction on
our reads. In the KV constructor, it is going to decode sizes anyway as part
of the parse? Check at this point rather than apart in the CellUtil I
suggested above?
Thanks.
> Scanner can be stuck in infinite loop if the HFile is corrupted
> ---
>
> Key: HBASE-12949
> URL: https://issues.apache.org/jira/browse/HBASE-12949
> Project: HBase
> Issue Type: Bug
>Affects Versions: 0.94.3, 0.98.10
>Reporter: Jerry He
> Attachments: HBASE-12949-master.patch
>
>
> We've encountered problem where compaction hangs and never completes.
> After looking into it further, we found that the compaction scanner was stuck
> in a infinite loop. See stack below.
> {noformat}
> org.apache.hadoop.hbase.regionserver.KeyValueHeap.generalizedSeek(KeyValueHeap.java:296)
> org.apache.hadoop.hbase.regionserver.KeyValueHeap.reseek(KeyValueHeap.java:257)
> org.apache.hadoop.hbase.regionserver.StoreScanner.reseek(StoreScanner.java:697)
> org.apache.hadoop.hbase.regionserver.StoreScanner.seekToNextRow(StoreScanner.java:672)
> org.apache.hadoop.hbase.regionserver.StoreScanner.next(StoreScanner.java:529)
> org.apache.hadoop.hbase.regionserver.compactions.Compactor.performCompaction(Compactor.java:223)
> {noformat}
> We identified the hfile that seems to be corrupted. Using HFile tool shows
> the following:
> {noformat}
> [biadmin@hdtest009 bin]$ hbase org.apache.hadoop.hbase.io.hfile.HFile -v -k
> -m -f
> /user/biadmin/CUMMINS_INSITE_V1/7106432d294dd844be15996ccbf2ba84/attributes/f1a7e3113c2c4047ac1fc8fbcb41d8b7
> 15/01/23 11:53:17 INFO Configuration.deprecation: hadoop.native.lib is
> deprecated. Instead, use io.native.lib.available
> 15/01/23 11:53:18 INFO util.ChecksumType: Checksum using
> org.apache.hadoop.util.PureJavaCrc32
> 15/01/23 11:53:18 INFO util.ChecksumType: Checksum can use
> org.apache.hadoop.util.PureJavaCrc32C
> 15/01/23 11:53:18 INFO Configuration.deprecation: fs.default.name is
> deprecated. Instead, use fs.defaultFS
> Scanning ->
> /user/biadmin/CUMMINS_INSITE_V1/7106432d294dd844be15996ccbf2ba84/attributes/f1a7e3113c2c4047ac1fc8fbcb41d8b7
> WARNING, previous row is greater then current row
> filename ->
> /user/biadmin/CUMMINS_INSITE_V1/7106432d294dd844be15996ccbf2ba84/attributes/f1a7e3113c2c4047ac1fc8fbcb41d8b7
> previous ->
> \x00/20110203-094231205-79442793-1410161293068203000\x0Aattributes16794406\x00\x00\x01\x00\x00\x00\x00\x00\x00
> current ->
> Exception in thread "main" java.nio.BufferUnderflowException
> at java.nio.Buffer.nextGetIndex(Buffer.java:489)
> at java.nio.HeapByteBuffer.getInt(HeapByteBuffer.java:347)
> at
> org.apache.hadoop.hbase.io.hfile.HFileReaderV2$ScannerV2.readKeyValueLen(HFileReaderV2.java:856)
> at
> org.apache.hadoop.hbase.io.hfile.HFileReaderV2$ScannerV2.next(HFileReaderV2.java:768)
> at
> org.apache.hadoop.hbase.io.hfile.HFilePrettyPrinter.scanKeysValues(HFilePrettyPrinter.java:362)
> at
> org.apache.hadoop.hbase.io.hfile.HFilePrettyPrinter.processFile(HFilePrettyPrinter.java:262)
> at
> org.apache.hadoop.hbase.io.hfile.HFilePrettyPrinter.run(HFilePrettyPrinter.java:220)
> at org.apache.hadoop.util.ToolRunner.run(ToolRunner.java:70)
> at
> org.apache.hadoop.hbase.io.hfile.HFilePrettyPrinter.main(HFilePrettyPrinter.java:539)
> at org.apache.hadoop.hbase.io.hfile.HFile.main(HFile.java:802)
> {noformat}
> Turning on Java Assert shows the following:
> {noformat}
> Exception in thread "main" java.lang.AssertionError: Key
> 20110203-094231205-79442793-1410161293068203000/attributes:16794406/1099511627776/Minimum/vlen=15/mvcc=0
> followed by a smaller key //0/Minimum/vlen=0/mvcc=0 in cf attributes
> at
> org.apache.hadoop.hbase.regionserver.StoreScanner.checkScanOrder(StoreScanner.java:672)
> {noformat}
> It shows that the hfile seems to be corrupted -- the keys don't seem to be
> right.
> But Scanner is not able to give a meaningful error, but stuck in an infinite
> loop in here:
> {code}
> KeyValueHeap.generalizedSeek()
> while ((scanner = heap.poll()) != null) {
> }
> {code}
--
This message was sent by Atlassian JIRA
(v6.3.4#6332)
Re: [jira] [Commented] (HBASE-12949) Scanner can be stuck in infinite loop if the HFile is corrupted
Jerry
What is the quick and easy way to monitor corrupted hfiles ? We are using HBASE
0.98
Thanks
Asim
> On Feb 5, 2015, at 10:47 AM, Jerry He (JIRA) wrote:
>
>
>[
> https://issues.apache.org/jira/browse/HBASE-12949?page=com.atlassian.jira.plugin.system.issuetabpanels:comment-tabpanel&focusedCommentId=14307748#comment-14307748
> ]
>
> Jerry He commented on HBASE-12949:
> --
>
> Hi, [~stack], [~ram_krish]
> I agree.
> It is a balancing act between checking, not checking, and checking more or
> checking less.
> We can check less, for example, only the type.
>
> Another option I can think of is that we have a property (say
> 'SanityCheckCell').
> We will only do checking when reading the cells if the property is set to
> true,
> for people indicating strong cell sanity check, or for people lacking strong
> FileSystem protection (checksum, etc).
>
> What do you think?
>
>> Scanner can be stuck in infinite loop if the HFile is corrupted
>> ---
>>
>>Key: HBASE-12949
>>URL: https://issues.apache.org/jira/browse/HBASE-12949
>>Project: HBase
>> Issue Type: Bug
>> Affects Versions: 0.94.3, 0.98.10
>> Reporter: Jerry He
>>Attachments: HBASE-12949-master.patch
>>
>>
>> We've encountered problem where compaction hangs and never completes.
>> After looking into it further, we found that the compaction scanner was
>> stuck in a infinite loop. See stack below.
>> {noformat}
>> org.apache.hadoop.hbase.regionserver.KeyValueHeap.generalizedSeek(KeyValueHeap.java:296)
>> org.apache.hadoop.hbase.regionserver.KeyValueHeap.reseek(KeyValueHeap.java:257)
>> org.apache.hadoop.hbase.regionserver.StoreScanner.reseek(StoreScanner.java:697)
>> org.apache.hadoop.hbase.regionserver.StoreScanner.seekToNextRow(StoreScanner.java:672)
>> org.apache.hadoop.hbase.regionserver.StoreScanner.next(StoreScanner.java:529)
>> org.apache.hadoop.hbase.regionserver.compactions.Compactor.performCompaction(Compactor.java:223)
>> {noformat}
>> We identified the hfile that seems to be corrupted. Using HFile tool shows
>> the following:
>> {noformat}
>> [biadmin@hdtest009 bin]$ hbase org.apache.hadoop.hbase.io.hfile.HFile -v -k
>> -m -f
>> /user/biadmin/CUMMINS_INSITE_V1/7106432d294dd844be15996ccbf2ba84/attributes/f1a7e3113c2c4047ac1fc8fbcb41d8b7
>> 15/01/23 11:53:17 INFO Configuration.deprecation: hadoop.native.lib is
>> deprecated. Instead, use io.native.lib.available
>> 15/01/23 11:53:18 INFO util.ChecksumType: Checksum using
>> org.apache.hadoop.util.PureJavaCrc32
>> 15/01/23 11:53:18 INFO util.ChecksumType: Checksum can use
>> org.apache.hadoop.util.PureJavaCrc32C
>> 15/01/23 11:53:18 INFO Configuration.deprecation: fs.default.name is
>> deprecated. Instead, use fs.defaultFS
>> Scanning ->
>> /user/biadmin/CUMMINS_INSITE_V1/7106432d294dd844be15996ccbf2ba84/attributes/f1a7e3113c2c4047ac1fc8fbcb41d8b7
>> WARNING, previous row is greater then current row
>>filename ->
>> /user/biadmin/CUMMINS_INSITE_V1/7106432d294dd844be15996ccbf2ba84/attributes/f1a7e3113c2c4047ac1fc8fbcb41d8b7
>>previous ->
>> \x00/20110203-094231205-79442793-1410161293068203000\x0Aattributes16794406\x00\x00\x01\x00\x00\x00\x00\x00\x00
>>current ->
>> Exception in thread "main" java.nio.BufferUnderflowException
>>at java.nio.Buffer.nextGetIndex(Buffer.java:489)
>>at java.nio.HeapByteBuffer.getInt(HeapByteBuffer.java:347)
>>at
>> org.apache.hadoop.hbase.io.hfile.HFileReaderV2$ScannerV2.readKeyValueLen(HFileReaderV2.java:856)
>>at
>> org.apache.hadoop.hbase.io.hfile.HFileReaderV2$ScannerV2.next(HFileReaderV2.java:768)
>>at
>> org.apache.hadoop.hbase.io.hfile.HFilePrettyPrinter.scanKeysValues(HFilePrettyPrinter.java:362)
>>at
>> org.apache.hadoop.hbase.io.hfile.HFilePrettyPrinter.processFile(HFilePrettyPrinter.java:262)
>>at
>> org.apache.hadoop.hbase.io.hfile.HFilePrettyPrinter.run(HFilePrettyPrinter.java:220)
>>at org.apache.hadoop.util.ToolRunner.run(ToolRunner.java:70)
>>at
>> org.apache.hadoop.hbase.io.hfile.HFilePrettyPrinter.main(HFilePrettyPrinter.java:539)
>>at org.apache.hadoop.hbase.io.hfile.HFile.main(HFile.java:802)
>> {noformat}
>> Turning on Java Assert shows the following:
>> {noformat}
>> Exception in thread "main" java.lang.AssertionError: Key
>> 20110203-094231205-79442793-1410161293068203000/attributes:16794406/1099511627776/Minimum/vlen=15/mvcc=0
>> followed by a smaller key //0/Minimum/vlen=0/mvcc=0 in cf attributes
>>at
>> org.apache.hadoop.hbase.regionserver.StoreScanner.checkScanOrder(StoreScanner.java:672)
>> {noformat}
>> It shows that the hfile seems to be corrupted -- the keys don't seem to be
>> right.
>> But Scanner is not able to give a meaningful error, but stuck in an infinite
>> loop in here:
>> {code}
>> KeyValueHeap.generali
[jira] [Commented] (HBASE-12949) Scanner can be stuck in infinite loop if the HFile is corrupted
[
https://issues.apache.org/jira/browse/HBASE-12949?page=com.atlassian.jira.plugin.system.issuetabpanels:comment-tabpanel&focusedCommentId=14307960#comment-14307960
]
Asim Zafir commented on HBASE-12949:
Jerry
What is the quick and easy way to monitor corrupted hfiles ? We are using HBASE
0.98
Thanks
Asim
> Scanner can be stuck in infinite loop if the HFile is corrupted
> ---
>
> Key: HBASE-12949
> URL: https://issues.apache.org/jira/browse/HBASE-12949
> Project: HBase
> Issue Type: Bug
>Affects Versions: 0.94.3, 0.98.10
>Reporter: Jerry He
> Attachments: HBASE-12949-master.patch
>
>
> We've encountered problem where compaction hangs and never completes.
> After looking into it further, we found that the compaction scanner was stuck
> in a infinite loop. See stack below.
> {noformat}
> org.apache.hadoop.hbase.regionserver.KeyValueHeap.generalizedSeek(KeyValueHeap.java:296)
> org.apache.hadoop.hbase.regionserver.KeyValueHeap.reseek(KeyValueHeap.java:257)
> org.apache.hadoop.hbase.regionserver.StoreScanner.reseek(StoreScanner.java:697)
> org.apache.hadoop.hbase.regionserver.StoreScanner.seekToNextRow(StoreScanner.java:672)
> org.apache.hadoop.hbase.regionserver.StoreScanner.next(StoreScanner.java:529)
> org.apache.hadoop.hbase.regionserver.compactions.Compactor.performCompaction(Compactor.java:223)
> {noformat}
> We identified the hfile that seems to be corrupted. Using HFile tool shows
> the following:
> {noformat}
> [biadmin@hdtest009 bin]$ hbase org.apache.hadoop.hbase.io.hfile.HFile -v -k
> -m -f
> /user/biadmin/CUMMINS_INSITE_V1/7106432d294dd844be15996ccbf2ba84/attributes/f1a7e3113c2c4047ac1fc8fbcb41d8b7
> 15/01/23 11:53:17 INFO Configuration.deprecation: hadoop.native.lib is
> deprecated. Instead, use io.native.lib.available
> 15/01/23 11:53:18 INFO util.ChecksumType: Checksum using
> org.apache.hadoop.util.PureJavaCrc32
> 15/01/23 11:53:18 INFO util.ChecksumType: Checksum can use
> org.apache.hadoop.util.PureJavaCrc32C
> 15/01/23 11:53:18 INFO Configuration.deprecation: fs.default.name is
> deprecated. Instead, use fs.defaultFS
> Scanning ->
> /user/biadmin/CUMMINS_INSITE_V1/7106432d294dd844be15996ccbf2ba84/attributes/f1a7e3113c2c4047ac1fc8fbcb41d8b7
> WARNING, previous row is greater then current row
> filename ->
> /user/biadmin/CUMMINS_INSITE_V1/7106432d294dd844be15996ccbf2ba84/attributes/f1a7e3113c2c4047ac1fc8fbcb41d8b7
> previous ->
> \x00/20110203-094231205-79442793-1410161293068203000\x0Aattributes16794406\x00\x00\x01\x00\x00\x00\x00\x00\x00
> current ->
> Exception in thread "main" java.nio.BufferUnderflowException
> at java.nio.Buffer.nextGetIndex(Buffer.java:489)
> at java.nio.HeapByteBuffer.getInt(HeapByteBuffer.java:347)
> at
> org.apache.hadoop.hbase.io.hfile.HFileReaderV2$ScannerV2.readKeyValueLen(HFileReaderV2.java:856)
> at
> org.apache.hadoop.hbase.io.hfile.HFileReaderV2$ScannerV2.next(HFileReaderV2.java:768)
> at
> org.apache.hadoop.hbase.io.hfile.HFilePrettyPrinter.scanKeysValues(HFilePrettyPrinter.java:362)
> at
> org.apache.hadoop.hbase.io.hfile.HFilePrettyPrinter.processFile(HFilePrettyPrinter.java:262)
> at
> org.apache.hadoop.hbase.io.hfile.HFilePrettyPrinter.run(HFilePrettyPrinter.java:220)
> at org.apache.hadoop.util.ToolRunner.run(ToolRunner.java:70)
> at
> org.apache.hadoop.hbase.io.hfile.HFilePrettyPrinter.main(HFilePrettyPrinter.java:539)
> at org.apache.hadoop.hbase.io.hfile.HFile.main(HFile.java:802)
> {noformat}
> Turning on Java Assert shows the following:
> {noformat}
> Exception in thread "main" java.lang.AssertionError: Key
> 20110203-094231205-79442793-1410161293068203000/attributes:16794406/1099511627776/Minimum/vlen=15/mvcc=0
> followed by a smaller key //0/Minimum/vlen=0/mvcc=0 in cf attributes
> at
> org.apache.hadoop.hbase.regionserver.StoreScanner.checkScanOrder(StoreScanner.java:672)
> {noformat}
> It shows that the hfile seems to be corrupted -- the keys don't seem to be
> right.
> But Scanner is not able to give a meaningful error, but stuck in an infinite
> loop in here:
> {code}
> KeyValueHeap.generalizedSeek()
> while ((scanner = heap.poll()) != null) {
> }
> {code}
--
This message was sent by Atlassian JIRA
(v6.3.4#6332)
[jira] [Commented] (HBASE-12949) Scanner can be stuck in infinite loop if the HFile is corrupted
[
https://issues.apache.org/jira/browse/HBASE-12949?page=com.atlassian.jira.plugin.system.issuetabpanels:comment-tabpanel&focusedCommentId=14307748#comment-14307748
]
Jerry He commented on HBASE-12949:
--
Hi, [~stack], [~ram_krish]
I agree.
It is a balancing act between checking, not checking, and checking more or
checking less.
We can check less, for example, only the type.
Another option I can think of is that we have a property (say
'SanityCheckCell').
We will only do checking when reading the cells if the property is set to true,
for people indicating strong cell sanity check, or for people lacking strong
FileSystem protection (checksum, etc).
What do you think?
> Scanner can be stuck in infinite loop if the HFile is corrupted
> ---
>
> Key: HBASE-12949
> URL: https://issues.apache.org/jira/browse/HBASE-12949
> Project: HBase
> Issue Type: Bug
>Affects Versions: 0.94.3, 0.98.10
>Reporter: Jerry He
> Attachments: HBASE-12949-master.patch
>
>
> We've encountered problem where compaction hangs and never completes.
> After looking into it further, we found that the compaction scanner was stuck
> in a infinite loop. See stack below.
> {noformat}
> org.apache.hadoop.hbase.regionserver.KeyValueHeap.generalizedSeek(KeyValueHeap.java:296)
> org.apache.hadoop.hbase.regionserver.KeyValueHeap.reseek(KeyValueHeap.java:257)
> org.apache.hadoop.hbase.regionserver.StoreScanner.reseek(StoreScanner.java:697)
> org.apache.hadoop.hbase.regionserver.StoreScanner.seekToNextRow(StoreScanner.java:672)
> org.apache.hadoop.hbase.regionserver.StoreScanner.next(StoreScanner.java:529)
> org.apache.hadoop.hbase.regionserver.compactions.Compactor.performCompaction(Compactor.java:223)
> {noformat}
> We identified the hfile that seems to be corrupted. Using HFile tool shows
> the following:
> {noformat}
> [biadmin@hdtest009 bin]$ hbase org.apache.hadoop.hbase.io.hfile.HFile -v -k
> -m -f
> /user/biadmin/CUMMINS_INSITE_V1/7106432d294dd844be15996ccbf2ba84/attributes/f1a7e3113c2c4047ac1fc8fbcb41d8b7
> 15/01/23 11:53:17 INFO Configuration.deprecation: hadoop.native.lib is
> deprecated. Instead, use io.native.lib.available
> 15/01/23 11:53:18 INFO util.ChecksumType: Checksum using
> org.apache.hadoop.util.PureJavaCrc32
> 15/01/23 11:53:18 INFO util.ChecksumType: Checksum can use
> org.apache.hadoop.util.PureJavaCrc32C
> 15/01/23 11:53:18 INFO Configuration.deprecation: fs.default.name is
> deprecated. Instead, use fs.defaultFS
> Scanning ->
> /user/biadmin/CUMMINS_INSITE_V1/7106432d294dd844be15996ccbf2ba84/attributes/f1a7e3113c2c4047ac1fc8fbcb41d8b7
> WARNING, previous row is greater then current row
> filename ->
> /user/biadmin/CUMMINS_INSITE_V1/7106432d294dd844be15996ccbf2ba84/attributes/f1a7e3113c2c4047ac1fc8fbcb41d8b7
> previous ->
> \x00/20110203-094231205-79442793-1410161293068203000\x0Aattributes16794406\x00\x00\x01\x00\x00\x00\x00\x00\x00
> current ->
> Exception in thread "main" java.nio.BufferUnderflowException
> at java.nio.Buffer.nextGetIndex(Buffer.java:489)
> at java.nio.HeapByteBuffer.getInt(HeapByteBuffer.java:347)
> at
> org.apache.hadoop.hbase.io.hfile.HFileReaderV2$ScannerV2.readKeyValueLen(HFileReaderV2.java:856)
> at
> org.apache.hadoop.hbase.io.hfile.HFileReaderV2$ScannerV2.next(HFileReaderV2.java:768)
> at
> org.apache.hadoop.hbase.io.hfile.HFilePrettyPrinter.scanKeysValues(HFilePrettyPrinter.java:362)
> at
> org.apache.hadoop.hbase.io.hfile.HFilePrettyPrinter.processFile(HFilePrettyPrinter.java:262)
> at
> org.apache.hadoop.hbase.io.hfile.HFilePrettyPrinter.run(HFilePrettyPrinter.java:220)
> at org.apache.hadoop.util.ToolRunner.run(ToolRunner.java:70)
> at
> org.apache.hadoop.hbase.io.hfile.HFilePrettyPrinter.main(HFilePrettyPrinter.java:539)
> at org.apache.hadoop.hbase.io.hfile.HFile.main(HFile.java:802)
> {noformat}
> Turning on Java Assert shows the following:
> {noformat}
> Exception in thread "main" java.lang.AssertionError: Key
> 20110203-094231205-79442793-1410161293068203000/attributes:16794406/1099511627776/Minimum/vlen=15/mvcc=0
> followed by a smaller key //0/Minimum/vlen=0/mvcc=0 in cf attributes
> at
> org.apache.hadoop.hbase.regionserver.StoreScanner.checkScanOrder(StoreScanner.java:672)
> {noformat}
> It shows that the hfile seems to be corrupted -- the keys don't seem to be
> right.
> But Scanner is not able to give a meaningful error, but stuck in an infinite
> loop in here:
> {code}
> KeyValueHeap.generalizedSeek()
> while ((scanner = heap.poll()) != null) {
> }
> {code}
--
This message was sent by Atlassian JIRA
(v6.3.4#6332)
[jira] [Commented] (HBASE-12949) Scanner can be stuck in infinite loop if the HFile is corrupted
[
https://issues.apache.org/jira/browse/HBASE-12949?page=com.atlassian.jira.plugin.system.issuetabpanels:comment-tabpanel&focusedCommentId=14307547#comment-14307547
]
stack commented on HBASE-12949:
---
One thought, doing the check on each key we read in is going to cost (making
long or int or short from bytes is expensive).
> Scanner can be stuck in infinite loop if the HFile is corrupted
> ---
>
> Key: HBASE-12949
> URL: https://issues.apache.org/jira/browse/HBASE-12949
> Project: HBase
> Issue Type: Bug
>Affects Versions: 0.94.3, 0.98.10
>Reporter: Jerry He
> Attachments: HBASE-12949-master.patch
>
>
> We've encountered problem where compaction hangs and never completes.
> After looking into it further, we found that the compaction scanner was stuck
> in a infinite loop. See stack below.
> {noformat}
> org.apache.hadoop.hbase.regionserver.KeyValueHeap.generalizedSeek(KeyValueHeap.java:296)
> org.apache.hadoop.hbase.regionserver.KeyValueHeap.reseek(KeyValueHeap.java:257)
> org.apache.hadoop.hbase.regionserver.StoreScanner.reseek(StoreScanner.java:697)
> org.apache.hadoop.hbase.regionserver.StoreScanner.seekToNextRow(StoreScanner.java:672)
> org.apache.hadoop.hbase.regionserver.StoreScanner.next(StoreScanner.java:529)
> org.apache.hadoop.hbase.regionserver.compactions.Compactor.performCompaction(Compactor.java:223)
> {noformat}
> We identified the hfile that seems to be corrupted. Using HFile tool shows
> the following:
> {noformat}
> [biadmin@hdtest009 bin]$ hbase org.apache.hadoop.hbase.io.hfile.HFile -v -k
> -m -f
> /user/biadmin/CUMMINS_INSITE_V1/7106432d294dd844be15996ccbf2ba84/attributes/f1a7e3113c2c4047ac1fc8fbcb41d8b7
> 15/01/23 11:53:17 INFO Configuration.deprecation: hadoop.native.lib is
> deprecated. Instead, use io.native.lib.available
> 15/01/23 11:53:18 INFO util.ChecksumType: Checksum using
> org.apache.hadoop.util.PureJavaCrc32
> 15/01/23 11:53:18 INFO util.ChecksumType: Checksum can use
> org.apache.hadoop.util.PureJavaCrc32C
> 15/01/23 11:53:18 INFO Configuration.deprecation: fs.default.name is
> deprecated. Instead, use fs.defaultFS
> Scanning ->
> /user/biadmin/CUMMINS_INSITE_V1/7106432d294dd844be15996ccbf2ba84/attributes/f1a7e3113c2c4047ac1fc8fbcb41d8b7
> WARNING, previous row is greater then current row
> filename ->
> /user/biadmin/CUMMINS_INSITE_V1/7106432d294dd844be15996ccbf2ba84/attributes/f1a7e3113c2c4047ac1fc8fbcb41d8b7
> previous ->
> \x00/20110203-094231205-79442793-1410161293068203000\x0Aattributes16794406\x00\x00\x01\x00\x00\x00\x00\x00\x00
> current ->
> Exception in thread "main" java.nio.BufferUnderflowException
> at java.nio.Buffer.nextGetIndex(Buffer.java:489)
> at java.nio.HeapByteBuffer.getInt(HeapByteBuffer.java:347)
> at
> org.apache.hadoop.hbase.io.hfile.HFileReaderV2$ScannerV2.readKeyValueLen(HFileReaderV2.java:856)
> at
> org.apache.hadoop.hbase.io.hfile.HFileReaderV2$ScannerV2.next(HFileReaderV2.java:768)
> at
> org.apache.hadoop.hbase.io.hfile.HFilePrettyPrinter.scanKeysValues(HFilePrettyPrinter.java:362)
> at
> org.apache.hadoop.hbase.io.hfile.HFilePrettyPrinter.processFile(HFilePrettyPrinter.java:262)
> at
> org.apache.hadoop.hbase.io.hfile.HFilePrettyPrinter.run(HFilePrettyPrinter.java:220)
> at org.apache.hadoop.util.ToolRunner.run(ToolRunner.java:70)
> at
> org.apache.hadoop.hbase.io.hfile.HFilePrettyPrinter.main(HFilePrettyPrinter.java:539)
> at org.apache.hadoop.hbase.io.hfile.HFile.main(HFile.java:802)
> {noformat}
> Turning on Java Assert shows the following:
> {noformat}
> Exception in thread "main" java.lang.AssertionError: Key
> 20110203-094231205-79442793-1410161293068203000/attributes:16794406/1099511627776/Minimum/vlen=15/mvcc=0
> followed by a smaller key //0/Minimum/vlen=0/mvcc=0 in cf attributes
> at
> org.apache.hadoop.hbase.regionserver.StoreScanner.checkScanOrder(StoreScanner.java:672)
> {noformat}
> It shows that the hfile seems to be corrupted -- the keys don't seem to be
> right.
> But Scanner is not able to give a meaningful error, but stuck in an infinite
> loop in here:
> {code}
> KeyValueHeap.generalizedSeek()
> while ((scanner = heap.poll()) != null) {
> }
> {code}
--
This message was sent by Atlassian JIRA
(v6.3.4#6332)
[jira] [Commented] (HBASE-12949) Scanner can be stuck in infinite loop if the HFile is corrupted
[
https://issues.apache.org/jira/browse/HBASE-12949?page=com.atlassian.jira.plugin.system.issuetabpanels:comment-tabpanel&focusedCommentId=14306836#comment-14306836
]
ramkrishna.s.vasudevan commented on HBASE-12949:
+1 on moving to CellUtil. Checking only the type is enough? Why only rowLength
and famLength checked?
> Scanner can be stuck in infinite loop if the HFile is corrupted
> ---
>
> Key: HBASE-12949
> URL: https://issues.apache.org/jira/browse/HBASE-12949
> Project: HBase
> Issue Type: Bug
>Affects Versions: 0.94.3, 0.98.10
>Reporter: Jerry He
> Attachments: HBASE-12949-master.patch
>
>
> We've encountered problem where compaction hangs and never completes.
> After looking into it further, we found that the compaction scanner was stuck
> in a infinite loop. See stack below.
> {noformat}
> org.apache.hadoop.hbase.regionserver.KeyValueHeap.generalizedSeek(KeyValueHeap.java:296)
> org.apache.hadoop.hbase.regionserver.KeyValueHeap.reseek(KeyValueHeap.java:257)
> org.apache.hadoop.hbase.regionserver.StoreScanner.reseek(StoreScanner.java:697)
> org.apache.hadoop.hbase.regionserver.StoreScanner.seekToNextRow(StoreScanner.java:672)
> org.apache.hadoop.hbase.regionserver.StoreScanner.next(StoreScanner.java:529)
> org.apache.hadoop.hbase.regionserver.compactions.Compactor.performCompaction(Compactor.java:223)
> {noformat}
> We identified the hfile that seems to be corrupted. Using HFile tool shows
> the following:
> {noformat}
> [biadmin@hdtest009 bin]$ hbase org.apache.hadoop.hbase.io.hfile.HFile -v -k
> -m -f
> /user/biadmin/CUMMINS_INSITE_V1/7106432d294dd844be15996ccbf2ba84/attributes/f1a7e3113c2c4047ac1fc8fbcb41d8b7
> 15/01/23 11:53:17 INFO Configuration.deprecation: hadoop.native.lib is
> deprecated. Instead, use io.native.lib.available
> 15/01/23 11:53:18 INFO util.ChecksumType: Checksum using
> org.apache.hadoop.util.PureJavaCrc32
> 15/01/23 11:53:18 INFO util.ChecksumType: Checksum can use
> org.apache.hadoop.util.PureJavaCrc32C
> 15/01/23 11:53:18 INFO Configuration.deprecation: fs.default.name is
> deprecated. Instead, use fs.defaultFS
> Scanning ->
> /user/biadmin/CUMMINS_INSITE_V1/7106432d294dd844be15996ccbf2ba84/attributes/f1a7e3113c2c4047ac1fc8fbcb41d8b7
> WARNING, previous row is greater then current row
> filename ->
> /user/biadmin/CUMMINS_INSITE_V1/7106432d294dd844be15996ccbf2ba84/attributes/f1a7e3113c2c4047ac1fc8fbcb41d8b7
> previous ->
> \x00/20110203-094231205-79442793-1410161293068203000\x0Aattributes16794406\x00\x00\x01\x00\x00\x00\x00\x00\x00
> current ->
> Exception in thread "main" java.nio.BufferUnderflowException
> at java.nio.Buffer.nextGetIndex(Buffer.java:489)
> at java.nio.HeapByteBuffer.getInt(HeapByteBuffer.java:347)
> at
> org.apache.hadoop.hbase.io.hfile.HFileReaderV2$ScannerV2.readKeyValueLen(HFileReaderV2.java:856)
> at
> org.apache.hadoop.hbase.io.hfile.HFileReaderV2$ScannerV2.next(HFileReaderV2.java:768)
> at
> org.apache.hadoop.hbase.io.hfile.HFilePrettyPrinter.scanKeysValues(HFilePrettyPrinter.java:362)
> at
> org.apache.hadoop.hbase.io.hfile.HFilePrettyPrinter.processFile(HFilePrettyPrinter.java:262)
> at
> org.apache.hadoop.hbase.io.hfile.HFilePrettyPrinter.run(HFilePrettyPrinter.java:220)
> at org.apache.hadoop.util.ToolRunner.run(ToolRunner.java:70)
> at
> org.apache.hadoop.hbase.io.hfile.HFilePrettyPrinter.main(HFilePrettyPrinter.java:539)
> at org.apache.hadoop.hbase.io.hfile.HFile.main(HFile.java:802)
> {noformat}
> Turning on Java Assert shows the following:
> {noformat}
> Exception in thread "main" java.lang.AssertionError: Key
> 20110203-094231205-79442793-1410161293068203000/attributes:16794406/1099511627776/Minimum/vlen=15/mvcc=0
> followed by a smaller key //0/Minimum/vlen=0/mvcc=0 in cf attributes
> at
> org.apache.hadoop.hbase.regionserver.StoreScanner.checkScanOrder(StoreScanner.java:672)
> {noformat}
> It shows that the hfile seems to be corrupted -- the keys don't seem to be
> right.
> But Scanner is not able to give a meaningful error, but stuck in an infinite
> loop in here:
> {code}
> KeyValueHeap.generalizedSeek()
> while ((scanner = heap.poll()) != null) {
> }
> {code}
--
This message was sent by Atlassian JIRA
(v6.3.4#6332)
[jira] [Commented] (HBASE-12949) Scanner can be stuck in infinite loop if the HFile is corrupted
[
https://issues.apache.org/jira/browse/HBASE-12949?page=com.atlassian.jira.plugin.system.issuetabpanels:comment-tabpanel&focusedCommentId=14306608#comment-14306608
]
Jerry He commented on HBASE-12949:
--
Hi, [~tedyu]
bq.The above can be declared as local variables in respective methods, right ?
Was trying to save some repeated local allocations. Well. Probably no big
deal.
> Scanner can be stuck in infinite loop if the HFile is corrupted
> ---
>
> Key: HBASE-12949
> URL: https://issues.apache.org/jira/browse/HBASE-12949
> Project: HBase
> Issue Type: Bug
>Affects Versions: 0.94.3, 0.98.10
>Reporter: Jerry He
> Attachments: HBASE-12949-master.patch
>
>
> We've encountered problem where compaction hangs and never completes.
> After looking into it further, we found that the compaction scanner was stuck
> in a infinite loop. See stack below.
> {noformat}
> org.apache.hadoop.hbase.regionserver.KeyValueHeap.generalizedSeek(KeyValueHeap.java:296)
> org.apache.hadoop.hbase.regionserver.KeyValueHeap.reseek(KeyValueHeap.java:257)
> org.apache.hadoop.hbase.regionserver.StoreScanner.reseek(StoreScanner.java:697)
> org.apache.hadoop.hbase.regionserver.StoreScanner.seekToNextRow(StoreScanner.java:672)
> org.apache.hadoop.hbase.regionserver.StoreScanner.next(StoreScanner.java:529)
> org.apache.hadoop.hbase.regionserver.compactions.Compactor.performCompaction(Compactor.java:223)
> {noformat}
> We identified the hfile that seems to be corrupted. Using HFile tool shows
> the following:
> {noformat}
> [biadmin@hdtest009 bin]$ hbase org.apache.hadoop.hbase.io.hfile.HFile -v -k
> -m -f
> /user/biadmin/CUMMINS_INSITE_V1/7106432d294dd844be15996ccbf2ba84/attributes/f1a7e3113c2c4047ac1fc8fbcb41d8b7
> 15/01/23 11:53:17 INFO Configuration.deprecation: hadoop.native.lib is
> deprecated. Instead, use io.native.lib.available
> 15/01/23 11:53:18 INFO util.ChecksumType: Checksum using
> org.apache.hadoop.util.PureJavaCrc32
> 15/01/23 11:53:18 INFO util.ChecksumType: Checksum can use
> org.apache.hadoop.util.PureJavaCrc32C
> 15/01/23 11:53:18 INFO Configuration.deprecation: fs.default.name is
> deprecated. Instead, use fs.defaultFS
> Scanning ->
> /user/biadmin/CUMMINS_INSITE_V1/7106432d294dd844be15996ccbf2ba84/attributes/f1a7e3113c2c4047ac1fc8fbcb41d8b7
> WARNING, previous row is greater then current row
> filename ->
> /user/biadmin/CUMMINS_INSITE_V1/7106432d294dd844be15996ccbf2ba84/attributes/f1a7e3113c2c4047ac1fc8fbcb41d8b7
> previous ->
> \x00/20110203-094231205-79442793-1410161293068203000\x0Aattributes16794406\x00\x00\x01\x00\x00\x00\x00\x00\x00
> current ->
> Exception in thread "main" java.nio.BufferUnderflowException
> at java.nio.Buffer.nextGetIndex(Buffer.java:489)
> at java.nio.HeapByteBuffer.getInt(HeapByteBuffer.java:347)
> at
> org.apache.hadoop.hbase.io.hfile.HFileReaderV2$ScannerV2.readKeyValueLen(HFileReaderV2.java:856)
> at
> org.apache.hadoop.hbase.io.hfile.HFileReaderV2$ScannerV2.next(HFileReaderV2.java:768)
> at
> org.apache.hadoop.hbase.io.hfile.HFilePrettyPrinter.scanKeysValues(HFilePrettyPrinter.java:362)
> at
> org.apache.hadoop.hbase.io.hfile.HFilePrettyPrinter.processFile(HFilePrettyPrinter.java:262)
> at
> org.apache.hadoop.hbase.io.hfile.HFilePrettyPrinter.run(HFilePrettyPrinter.java:220)
> at org.apache.hadoop.util.ToolRunner.run(ToolRunner.java:70)
> at
> org.apache.hadoop.hbase.io.hfile.HFilePrettyPrinter.main(HFilePrettyPrinter.java:539)
> at org.apache.hadoop.hbase.io.hfile.HFile.main(HFile.java:802)
> {noformat}
> Turning on Java Assert shows the following:
> {noformat}
> Exception in thread "main" java.lang.AssertionError: Key
> 20110203-094231205-79442793-1410161293068203000/attributes:16794406/1099511627776/Minimum/vlen=15/mvcc=0
> followed by a smaller key //0/Minimum/vlen=0/mvcc=0 in cf attributes
> at
> org.apache.hadoop.hbase.regionserver.StoreScanner.checkScanOrder(StoreScanner.java:672)
> {noformat}
> It shows that the hfile seems to be corrupted -- the keys don't seem to be
> right.
> But Scanner is not able to give a meaningful error, but stuck in an infinite
> loop in here:
> {code}
> KeyValueHeap.generalizedSeek()
> while ((scanner = heap.poll()) != null) {
> }
> {code}
--
This message was sent by Atlassian JIRA
(v6.3.4#6332)
[jira] [Commented] (HBASE-12949) Scanner can be stuck in infinite loop if the HFile is corrupted
[
https://issues.apache.org/jira/browse/HBASE-12949?page=com.atlassian.jira.plugin.system.issuetabpanels:comment-tabpanel&focusedCommentId=14306599#comment-14306599
]
Jerry He commented on HBASE-12949:
--
Hi, [~stack]
Thanks for the review.
bq. Do you think the sanity checks better belong inside the KeyValue
constructor that takes a buffer and coordinates rather than in hfilev2? Then
they'll be triggered always? Or put the checks into CellUtil so available as
utility?
I will see if it can be better done that way.
> Scanner can be stuck in infinite loop if the HFile is corrupted
> ---
>
> Key: HBASE-12949
> URL: https://issues.apache.org/jira/browse/HBASE-12949
> Project: HBase
> Issue Type: Bug
>Affects Versions: 0.94.3, 0.98.10
>Reporter: Jerry He
> Attachments: HBASE-12949-master.patch
>
>
> We've encountered problem where compaction hangs and never completes.
> After looking into it further, we found that the compaction scanner was stuck
> in a infinite loop. See stack below.
> {noformat}
> org.apache.hadoop.hbase.regionserver.KeyValueHeap.generalizedSeek(KeyValueHeap.java:296)
> org.apache.hadoop.hbase.regionserver.KeyValueHeap.reseek(KeyValueHeap.java:257)
> org.apache.hadoop.hbase.regionserver.StoreScanner.reseek(StoreScanner.java:697)
> org.apache.hadoop.hbase.regionserver.StoreScanner.seekToNextRow(StoreScanner.java:672)
> org.apache.hadoop.hbase.regionserver.StoreScanner.next(StoreScanner.java:529)
> org.apache.hadoop.hbase.regionserver.compactions.Compactor.performCompaction(Compactor.java:223)
> {noformat}
> We identified the hfile that seems to be corrupted. Using HFile tool shows
> the following:
> {noformat}
> [biadmin@hdtest009 bin]$ hbase org.apache.hadoop.hbase.io.hfile.HFile -v -k
> -m -f
> /user/biadmin/CUMMINS_INSITE_V1/7106432d294dd844be15996ccbf2ba84/attributes/f1a7e3113c2c4047ac1fc8fbcb41d8b7
> 15/01/23 11:53:17 INFO Configuration.deprecation: hadoop.native.lib is
> deprecated. Instead, use io.native.lib.available
> 15/01/23 11:53:18 INFO util.ChecksumType: Checksum using
> org.apache.hadoop.util.PureJavaCrc32
> 15/01/23 11:53:18 INFO util.ChecksumType: Checksum can use
> org.apache.hadoop.util.PureJavaCrc32C
> 15/01/23 11:53:18 INFO Configuration.deprecation: fs.default.name is
> deprecated. Instead, use fs.defaultFS
> Scanning ->
> /user/biadmin/CUMMINS_INSITE_V1/7106432d294dd844be15996ccbf2ba84/attributes/f1a7e3113c2c4047ac1fc8fbcb41d8b7
> WARNING, previous row is greater then current row
> filename ->
> /user/biadmin/CUMMINS_INSITE_V1/7106432d294dd844be15996ccbf2ba84/attributes/f1a7e3113c2c4047ac1fc8fbcb41d8b7
> previous ->
> \x00/20110203-094231205-79442793-1410161293068203000\x0Aattributes16794406\x00\x00\x01\x00\x00\x00\x00\x00\x00
> current ->
> Exception in thread "main" java.nio.BufferUnderflowException
> at java.nio.Buffer.nextGetIndex(Buffer.java:489)
> at java.nio.HeapByteBuffer.getInt(HeapByteBuffer.java:347)
> at
> org.apache.hadoop.hbase.io.hfile.HFileReaderV2$ScannerV2.readKeyValueLen(HFileReaderV2.java:856)
> at
> org.apache.hadoop.hbase.io.hfile.HFileReaderV2$ScannerV2.next(HFileReaderV2.java:768)
> at
> org.apache.hadoop.hbase.io.hfile.HFilePrettyPrinter.scanKeysValues(HFilePrettyPrinter.java:362)
> at
> org.apache.hadoop.hbase.io.hfile.HFilePrettyPrinter.processFile(HFilePrettyPrinter.java:262)
> at
> org.apache.hadoop.hbase.io.hfile.HFilePrettyPrinter.run(HFilePrettyPrinter.java:220)
> at org.apache.hadoop.util.ToolRunner.run(ToolRunner.java:70)
> at
> org.apache.hadoop.hbase.io.hfile.HFilePrettyPrinter.main(HFilePrettyPrinter.java:539)
> at org.apache.hadoop.hbase.io.hfile.HFile.main(HFile.java:802)
> {noformat}
> Turning on Java Assert shows the following:
> {noformat}
> Exception in thread "main" java.lang.AssertionError: Key
> 20110203-094231205-79442793-1410161293068203000/attributes:16794406/1099511627776/Minimum/vlen=15/mvcc=0
> followed by a smaller key //0/Minimum/vlen=0/mvcc=0 in cf attributes
> at
> org.apache.hadoop.hbase.regionserver.StoreScanner.checkScanOrder(StoreScanner.java:672)
> {noformat}
> It shows that the hfile seems to be corrupted -- the keys don't seem to be
> right.
> But Scanner is not able to give a meaningful error, but stuck in an infinite
> loop in here:
> {code}
> KeyValueHeap.generalizedSeek()
> while ((scanner = heap.poll()) != null) {
> }
> {code}
--
This message was sent by Atlassian JIRA
(v6.3.4#6332)
[jira] [Commented] (HBASE-12949) Scanner can be stuck in infinite loop if the HFile is corrupted
[
https://issues.apache.org/jira/browse/HBASE-12949?page=com.atlassian.jira.plugin.system.issuetabpanels:comment-tabpanel&focusedCommentId=14306300#comment-14306300
]
Hadoop QA commented on HBASE-12949:
---
{color:red}-1 overall{color}. Here are the results of testing the latest
attachment
http://issues.apache.org/jira/secure/attachment/12696577/HBASE-12949-master.patch
against master branch at commit 4f472062a436726f686608023126dd8d5cc9c9bc.
ATTACHMENT ID: 12696577
{color:green}+1 @author{color}. The patch does not contain any @author
tags.
{color:red}-1 tests included{color}. The patch doesn't appear to include
any new or modified tests.
Please justify why no new tests are needed for this
patch.
Also please list what manual steps were performed to
verify this patch.
{color:green}+1 javac{color}. The applied patch does not increase the
total number of javac compiler warnings.
{color:green}+1 javac{color}. The applied patch does not increase the
total number of javac compiler warnings.
{color:green}+1 javadoc{color}. The javadoc tool did not generate any
warning messages.
{color:green}+1 checkstyle{color}. The applied patch does not increase the
total number of checkstyle errors
{color:green}+1 findbugs{color}. The patch does not introduce any new
Findbugs (version 2.0.3) warnings.
{color:green}+1 release audit{color}. The applied patch does not increase
the total number of release audit warnings.
{color:green}+1 lineLengths{color}. The patch does not introduce lines
longer than 100
{color:green}+1 site{color}. The mvn site goal succeeds with this patch.
{color:green}+1 core tests{color}. The patch passed unit tests in .
{color:red}-1 core zombie tests{color}. There are 1 zombie test(s):
at
org.apache.hadoop.mapred.TestLazyOutput.testLazyOutput(TestLazyOutput.java:156)
Test results:
https://builds.apache.org/job/PreCommit-HBASE-Build/12693//testReport/
Findbugs warnings:
https://builds.apache.org/job/PreCommit-HBASE-Build/12693//artifact/patchprocess/newPatchFindbugsWarningshbase-examples.html
Findbugs warnings:
https://builds.apache.org/job/PreCommit-HBASE-Build/12693//artifact/patchprocess/newPatchFindbugsWarningshbase-prefix-tree.html
Findbugs warnings:
https://builds.apache.org/job/PreCommit-HBASE-Build/12693//artifact/patchprocess/newPatchFindbugsWarningshbase-server.html
Findbugs warnings:
https://builds.apache.org/job/PreCommit-HBASE-Build/12693//artifact/patchprocess/newPatchFindbugsWarningshbase-hadoop-compat.html
Findbugs warnings:
https://builds.apache.org/job/PreCommit-HBASE-Build/12693//artifact/patchprocess/newPatchFindbugsWarningshbase-client.html
Findbugs warnings:
https://builds.apache.org/job/PreCommit-HBASE-Build/12693//artifact/patchprocess/newPatchFindbugsWarningshbase-protocol.html
Findbugs warnings:
https://builds.apache.org/job/PreCommit-HBASE-Build/12693//artifact/patchprocess/newPatchFindbugsWarningshbase-hadoop2-compat.html
Findbugs warnings:
https://builds.apache.org/job/PreCommit-HBASE-Build/12693//artifact/patchprocess/newPatchFindbugsWarningshbase-rest.html
Findbugs warnings:
https://builds.apache.org/job/PreCommit-HBASE-Build/12693//artifact/patchprocess/newPatchFindbugsWarningshbase-thrift.html
Findbugs warnings:
https://builds.apache.org/job/PreCommit-HBASE-Build/12693//artifact/patchprocess/newPatchFindbugsWarningshbase-annotations.html
Findbugs warnings:
https://builds.apache.org/job/PreCommit-HBASE-Build/12693//artifact/patchprocess/newPatchFindbugsWarningshbase-common.html
Checkstyle Errors:
https://builds.apache.org/job/PreCommit-HBASE-Build/12693//artifact/patchprocess/checkstyle-aggregate.html
Console output:
https://builds.apache.org/job/PreCommit-HBASE-Build/12693//console
This message is automatically generated.
> Scanner can be stuck in infinite loop if the HFile is corrupted
> ---
>
> Key: HBASE-12949
> URL: https://issues.apache.org/jira/browse/HBASE-12949
> Project: HBase
> Issue Type: Bug
>Affects Versions: 0.94.3, 0.98.10
>Reporter: Jerry He
> Attachments: HBASE-12949-master.patch
>
>
> We've encountered problem where compaction hangs and never completes.
> After looking into it further, we found that the compaction scanner was stuck
> in a infinite loop. See stack below.
> {noformat}
> org.apache.hadoop.hbase.regionserver.KeyValueHeap.generalizedSeek(KeyValueHeap.java:296)
> org.apache.hadoop.hbase.regionserver.KeyValueHeap.reseek(KeyValueHeap.java:257)
> org.apache.hadoop.hbase.regionserver.StoreScanner.reseek(StoreScanner.java:697)
> org.apache.hadoop.hbase.regionserver.StoreScanner.seekToNextRow(StoreScanner.java:672)
> org.apache.hadoop.hbase.regionserver.StoreScanner.next(StoreScanner.java:529)
> org.apache.ha
[jira] [Commented] (HBASE-12949) Scanner can be stuck in infinite loop if the HFile is corrupted
[
https://issues.apache.org/jira/browse/HBASE-12949?page=com.atlassian.jira.plugin.system.issuetabpanels:comment-tabpanel&focusedCommentId=14306161#comment-14306161
]
stack commented on HBASE-12949:
---
Do you think the sanity checks better belong inside the KeyValue constructor
that takes a buffer and coordinates rather than in hfilev2? Then they'll be
triggered always? Or put the checks into CellUtil so available as utility?
Looks good otherwise.
> Scanner can be stuck in infinite loop if the HFile is corrupted
> ---
>
> Key: HBASE-12949
> URL: https://issues.apache.org/jira/browse/HBASE-12949
> Project: HBase
> Issue Type: Bug
>Affects Versions: 0.94.3, 0.98.10
>Reporter: Jerry He
> Attachments: HBASE-12949-master.patch
>
>
> We've encountered problem where compaction hangs and never completes.
> After looking into it further, we found that the compaction scanner was stuck
> in a infinite loop. See stack below.
> {noformat}
> org.apache.hadoop.hbase.regionserver.KeyValueHeap.generalizedSeek(KeyValueHeap.java:296)
> org.apache.hadoop.hbase.regionserver.KeyValueHeap.reseek(KeyValueHeap.java:257)
> org.apache.hadoop.hbase.regionserver.StoreScanner.reseek(StoreScanner.java:697)
> org.apache.hadoop.hbase.regionserver.StoreScanner.seekToNextRow(StoreScanner.java:672)
> org.apache.hadoop.hbase.regionserver.StoreScanner.next(StoreScanner.java:529)
> org.apache.hadoop.hbase.regionserver.compactions.Compactor.performCompaction(Compactor.java:223)
> {noformat}
> We identified the hfile that seems to be corrupted. Using HFile tool shows
> the following:
> {noformat}
> [biadmin@hdtest009 bin]$ hbase org.apache.hadoop.hbase.io.hfile.HFile -v -k
> -m -f
> /user/biadmin/CUMMINS_INSITE_V1/7106432d294dd844be15996ccbf2ba84/attributes/f1a7e3113c2c4047ac1fc8fbcb41d8b7
> 15/01/23 11:53:17 INFO Configuration.deprecation: hadoop.native.lib is
> deprecated. Instead, use io.native.lib.available
> 15/01/23 11:53:18 INFO util.ChecksumType: Checksum using
> org.apache.hadoop.util.PureJavaCrc32
> 15/01/23 11:53:18 INFO util.ChecksumType: Checksum can use
> org.apache.hadoop.util.PureJavaCrc32C
> 15/01/23 11:53:18 INFO Configuration.deprecation: fs.default.name is
> deprecated. Instead, use fs.defaultFS
> Scanning ->
> /user/biadmin/CUMMINS_INSITE_V1/7106432d294dd844be15996ccbf2ba84/attributes/f1a7e3113c2c4047ac1fc8fbcb41d8b7
> WARNING, previous row is greater then current row
> filename ->
> /user/biadmin/CUMMINS_INSITE_V1/7106432d294dd844be15996ccbf2ba84/attributes/f1a7e3113c2c4047ac1fc8fbcb41d8b7
> previous ->
> \x00/20110203-094231205-79442793-1410161293068203000\x0Aattributes16794406\x00\x00\x01\x00\x00\x00\x00\x00\x00
> current ->
> Exception in thread "main" java.nio.BufferUnderflowException
> at java.nio.Buffer.nextGetIndex(Buffer.java:489)
> at java.nio.HeapByteBuffer.getInt(HeapByteBuffer.java:347)
> at
> org.apache.hadoop.hbase.io.hfile.HFileReaderV2$ScannerV2.readKeyValueLen(HFileReaderV2.java:856)
> at
> org.apache.hadoop.hbase.io.hfile.HFileReaderV2$ScannerV2.next(HFileReaderV2.java:768)
> at
> org.apache.hadoop.hbase.io.hfile.HFilePrettyPrinter.scanKeysValues(HFilePrettyPrinter.java:362)
> at
> org.apache.hadoop.hbase.io.hfile.HFilePrettyPrinter.processFile(HFilePrettyPrinter.java:262)
> at
> org.apache.hadoop.hbase.io.hfile.HFilePrettyPrinter.run(HFilePrettyPrinter.java:220)
> at org.apache.hadoop.util.ToolRunner.run(ToolRunner.java:70)
> at
> org.apache.hadoop.hbase.io.hfile.HFilePrettyPrinter.main(HFilePrettyPrinter.java:539)
> at org.apache.hadoop.hbase.io.hfile.HFile.main(HFile.java:802)
> {noformat}
> Turning on Java Assert shows the following:
> {noformat}
> Exception in thread "main" java.lang.AssertionError: Key
> 20110203-094231205-79442793-1410161293068203000/attributes:16794406/1099511627776/Minimum/vlen=15/mvcc=0
> followed by a smaller key //0/Minimum/vlen=0/mvcc=0 in cf attributes
> at
> org.apache.hadoop.hbase.regionserver.StoreScanner.checkScanOrder(StoreScanner.java:672)
> {noformat}
> It shows that the hfile seems to be corrupted -- the keys don't seem to be
> right.
> But Scanner is not able to give a meaningful error, but stuck in an infinite
> loop in here:
> {code}
> KeyValueHeap.generalizedSeek()
> while ((scanner = heap.poll()) != null) {
> }
> {code}
--
This message was sent by Atlassian JIRA
(v6.3.4#6332)
[jira] [Commented] (HBASE-12949) Scanner can be stuck in infinite loop if the HFile is corrupted
[
https://issues.apache.org/jira/browse/HBASE-12949?page=com.atlassian.jira.plugin.system.issuetabpanels:comment-tabpanel&focusedCommentId=14306097#comment-14306097
]
Ted Yu commented on HBASE-12949:
{code}
+protected int currRowLength;
+protected int currFamilyLength;
+protected byte currType;
{code}
The above can be declared as local variables in respective methods, right ?
> Scanner can be stuck in infinite loop if the HFile is corrupted
> ---
>
> Key: HBASE-12949
> URL: https://issues.apache.org/jira/browse/HBASE-12949
> Project: HBase
> Issue Type: Bug
>Affects Versions: 0.94.3, 0.98.10
>Reporter: Jerry He
> Attachments: HBASE-12949-master.patch
>
>
> We've encountered problem where compaction hangs and never completes.
> After looking into it further, we found that the compaction scanner was stuck
> in a infinite loop. See stack below.
> {noformat}
> org.apache.hadoop.hbase.regionserver.KeyValueHeap.generalizedSeek(KeyValueHeap.java:296)
> org.apache.hadoop.hbase.regionserver.KeyValueHeap.reseek(KeyValueHeap.java:257)
> org.apache.hadoop.hbase.regionserver.StoreScanner.reseek(StoreScanner.java:697)
> org.apache.hadoop.hbase.regionserver.StoreScanner.seekToNextRow(StoreScanner.java:672)
> org.apache.hadoop.hbase.regionserver.StoreScanner.next(StoreScanner.java:529)
> org.apache.hadoop.hbase.regionserver.compactions.Compactor.performCompaction(Compactor.java:223)
> {noformat}
> We identified the hfile that seems to be corrupted. Using HFile tool shows
> the following:
> {noformat}
> [biadmin@hdtest009 bin]$ hbase org.apache.hadoop.hbase.io.hfile.HFile -v -k
> -m -f
> /user/biadmin/CUMMINS_INSITE_V1/7106432d294dd844be15996ccbf2ba84/attributes/f1a7e3113c2c4047ac1fc8fbcb41d8b7
> 15/01/23 11:53:17 INFO Configuration.deprecation: hadoop.native.lib is
> deprecated. Instead, use io.native.lib.available
> 15/01/23 11:53:18 INFO util.ChecksumType: Checksum using
> org.apache.hadoop.util.PureJavaCrc32
> 15/01/23 11:53:18 INFO util.ChecksumType: Checksum can use
> org.apache.hadoop.util.PureJavaCrc32C
> 15/01/23 11:53:18 INFO Configuration.deprecation: fs.default.name is
> deprecated. Instead, use fs.defaultFS
> Scanning ->
> /user/biadmin/CUMMINS_INSITE_V1/7106432d294dd844be15996ccbf2ba84/attributes/f1a7e3113c2c4047ac1fc8fbcb41d8b7
> WARNING, previous row is greater then current row
> filename ->
> /user/biadmin/CUMMINS_INSITE_V1/7106432d294dd844be15996ccbf2ba84/attributes/f1a7e3113c2c4047ac1fc8fbcb41d8b7
> previous ->
> \x00/20110203-094231205-79442793-1410161293068203000\x0Aattributes16794406\x00\x00\x01\x00\x00\x00\x00\x00\x00
> current ->
> Exception in thread "main" java.nio.BufferUnderflowException
> at java.nio.Buffer.nextGetIndex(Buffer.java:489)
> at java.nio.HeapByteBuffer.getInt(HeapByteBuffer.java:347)
> at
> org.apache.hadoop.hbase.io.hfile.HFileReaderV2$ScannerV2.readKeyValueLen(HFileReaderV2.java:856)
> at
> org.apache.hadoop.hbase.io.hfile.HFileReaderV2$ScannerV2.next(HFileReaderV2.java:768)
> at
> org.apache.hadoop.hbase.io.hfile.HFilePrettyPrinter.scanKeysValues(HFilePrettyPrinter.java:362)
> at
> org.apache.hadoop.hbase.io.hfile.HFilePrettyPrinter.processFile(HFilePrettyPrinter.java:262)
> at
> org.apache.hadoop.hbase.io.hfile.HFilePrettyPrinter.run(HFilePrettyPrinter.java:220)
> at org.apache.hadoop.util.ToolRunner.run(ToolRunner.java:70)
> at
> org.apache.hadoop.hbase.io.hfile.HFilePrettyPrinter.main(HFilePrettyPrinter.java:539)
> at org.apache.hadoop.hbase.io.hfile.HFile.main(HFile.java:802)
> {noformat}
> Turning on Java Assert shows the following:
> {noformat}
> Exception in thread "main" java.lang.AssertionError: Key
> 20110203-094231205-79442793-1410161293068203000/attributes:16794406/1099511627776/Minimum/vlen=15/mvcc=0
> followed by a smaller key //0/Minimum/vlen=0/mvcc=0 in cf attributes
> at
> org.apache.hadoop.hbase.regionserver.StoreScanner.checkScanOrder(StoreScanner.java:672)
> {noformat}
> It shows that the hfile seems to be corrupted -- the keys don't seem to be
> right.
> But Scanner is not able to give a meaningful error, but stuck in an infinite
> loop in here:
> {code}
> KeyValueHeap.generalizedSeek()
> while ((scanner = heap.poll()) != null) {
> }
> {code}
--
This message was sent by Atlassian JIRA
(v6.3.4#6332)
[jira] [Commented] (HBASE-12949) Scanner can be stuck in infinite loop if the HFile is corrupted
[
https://issues.apache.org/jira/browse/HBASE-12949?page=com.atlassian.jira.plugin.system.issuetabpanels:comment-tabpanel&focusedCommentId=14299691#comment-14299691
]
Jerry He commented on HBASE-12949:
--
Thanks, [~stack]
I will look into your suggestion.
> Scanner can be stuck in infinite loop if the HFile is corrupted
> ---
>
> Key: HBASE-12949
> URL: https://issues.apache.org/jira/browse/HBASE-12949
> Project: HBase
> Issue Type: Bug
>Affects Versions: 0.94.3, 0.98.10
>Reporter: Jerry He
>
> We've encountered problem where compaction hangs and never completes.
> After looking into it further, we found that the compaction scanner was stuck
> in a infinite loop. See stack below.
> {noformat}
> org.apache.hadoop.hbase.regionserver.KeyValueHeap.generalizedSeek(KeyValueHeap.java:296)
> org.apache.hadoop.hbase.regionserver.KeyValueHeap.reseek(KeyValueHeap.java:257)
> org.apache.hadoop.hbase.regionserver.StoreScanner.reseek(StoreScanner.java:697)
> org.apache.hadoop.hbase.regionserver.StoreScanner.seekToNextRow(StoreScanner.java:672)
> org.apache.hadoop.hbase.regionserver.StoreScanner.next(StoreScanner.java:529)
> org.apache.hadoop.hbase.regionserver.compactions.Compactor.performCompaction(Compactor.java:223)
> {noformat}
> We identified the hfile that seems to be corrupted. Using HFile tool shows
> the following:
> {noformat}
> [biadmin@hdtest009 bin]$ hbase org.apache.hadoop.hbase.io.hfile.HFile -v -k
> -m -f
> /user/biadmin/CUMMINS_INSITE_V1/7106432d294dd844be15996ccbf2ba84/attributes/f1a7e3113c2c4047ac1fc8fbcb41d8b7
> 15/01/23 11:53:17 INFO Configuration.deprecation: hadoop.native.lib is
> deprecated. Instead, use io.native.lib.available
> 15/01/23 11:53:18 INFO util.ChecksumType: Checksum using
> org.apache.hadoop.util.PureJavaCrc32
> 15/01/23 11:53:18 INFO util.ChecksumType: Checksum can use
> org.apache.hadoop.util.PureJavaCrc32C
> 15/01/23 11:53:18 INFO Configuration.deprecation: fs.default.name is
> deprecated. Instead, use fs.defaultFS
> Scanning ->
> /user/biadmin/CUMMINS_INSITE_V1/7106432d294dd844be15996ccbf2ba84/attributes/f1a7e3113c2c4047ac1fc8fbcb41d8b7
> WARNING, previous row is greater then current row
> filename ->
> /user/biadmin/CUMMINS_INSITE_V1/7106432d294dd844be15996ccbf2ba84/attributes/f1a7e3113c2c4047ac1fc8fbcb41d8b7
> previous ->
> \x00/20110203-094231205-79442793-1410161293068203000\x0Aattributes16794406\x00\x00\x01\x00\x00\x00\x00\x00\x00
> current ->
> Exception in thread "main" java.nio.BufferUnderflowException
> at java.nio.Buffer.nextGetIndex(Buffer.java:489)
> at java.nio.HeapByteBuffer.getInt(HeapByteBuffer.java:347)
> at
> org.apache.hadoop.hbase.io.hfile.HFileReaderV2$ScannerV2.readKeyValueLen(HFileReaderV2.java:856)
> at
> org.apache.hadoop.hbase.io.hfile.HFileReaderV2$ScannerV2.next(HFileReaderV2.java:768)
> at
> org.apache.hadoop.hbase.io.hfile.HFilePrettyPrinter.scanKeysValues(HFilePrettyPrinter.java:362)
> at
> org.apache.hadoop.hbase.io.hfile.HFilePrettyPrinter.processFile(HFilePrettyPrinter.java:262)
> at
> org.apache.hadoop.hbase.io.hfile.HFilePrettyPrinter.run(HFilePrettyPrinter.java:220)
> at org.apache.hadoop.util.ToolRunner.run(ToolRunner.java:70)
> at
> org.apache.hadoop.hbase.io.hfile.HFilePrettyPrinter.main(HFilePrettyPrinter.java:539)
> at org.apache.hadoop.hbase.io.hfile.HFile.main(HFile.java:802)
> {noformat}
> Turning on Java Assert shows the following:
> {noformat}
> Exception in thread "main" java.lang.AssertionError: Key
> 20110203-094231205-79442793-1410161293068203000/attributes:16794406/1099511627776/Minimum/vlen=15/mvcc=0
> followed by a smaller key //0/Minimum/vlen=0/mvcc=0 in cf attributes
> at
> org.apache.hadoop.hbase.regionserver.StoreScanner.checkScanOrder(StoreScanner.java:672)
> {noformat}
> It shows that the hfile seems to be corrupted -- the keys don't seem to be
> right.
> But Scanner is not able to give a meaningful error, but stuck in an infinite
> loop in here:
> {code}
> KeyValueHeap.generalizedSeek()
> while ((scanner = heap.poll()) != null) {
> }
> {code}
--
This message was sent by Atlassian JIRA
(v6.3.4#6332)
[jira] [Commented] (HBASE-12949) Scanner can be stuck in infinite loop if the HFile is corrupted
[
https://issues.apache.org/jira/browse/HBASE-12949?page=com.atlassian.jira.plugin.system.issuetabpanels:comment-tabpanel&focusedCommentId=14299464#comment-14299464
]
stack commented on HBASE-12949:
---
A KV w/ minimum is 'wrong', yeah.
A corrupt hfile is going to happen. We should deal with it. A few basic checks
on values read in before we go to allocate memory, etc., throwing exception if
obviously bad would be the way to go.
Would be good to avoid one bad file bringing down the whole cluster so should
throw a particular exception, CorruptionException, then high up in the store it
should loudly close the file when it gets one of these.
Something like that?
Good one [~jerryhe]
> Scanner can be stuck in infinite loop if the HFile is corrupted
> ---
>
> Key: HBASE-12949
> URL: https://issues.apache.org/jira/browse/HBASE-12949
> Project: HBase
> Issue Type: Bug
>Affects Versions: 0.94.3, 0.98.10
>Reporter: Jerry He
>
> We've encountered problem where compaction hangs and never completes.
> After looking into it further, we found that the compaction scanner was stuck
> in a infinite loop. See stack below.
> {noformat}
> org.apache.hadoop.hbase.regionserver.KeyValueHeap.generalizedSeek(KeyValueHeap.java:296)
> org.apache.hadoop.hbase.regionserver.KeyValueHeap.reseek(KeyValueHeap.java:257)
> org.apache.hadoop.hbase.regionserver.StoreScanner.reseek(StoreScanner.java:697)
> org.apache.hadoop.hbase.regionserver.StoreScanner.seekToNextRow(StoreScanner.java:672)
> org.apache.hadoop.hbase.regionserver.StoreScanner.next(StoreScanner.java:529)
> org.apache.hadoop.hbase.regionserver.compactions.Compactor.performCompaction(Compactor.java:223)
> {noformat}
> We identified the hfile that seems to be corrupted. Using HFile tool shows
> the following:
> {noformat}
> [biadmin@hdtest009 bin]$ hbase org.apache.hadoop.hbase.io.hfile.HFile -v -k
> -m -f
> /user/biadmin/CUMMINS_INSITE_V1/7106432d294dd844be15996ccbf2ba84/attributes/f1a7e3113c2c4047ac1fc8fbcb41d8b7
> 15/01/23 11:53:17 INFO Configuration.deprecation: hadoop.native.lib is
> deprecated. Instead, use io.native.lib.available
> 15/01/23 11:53:18 INFO util.ChecksumType: Checksum using
> org.apache.hadoop.util.PureJavaCrc32
> 15/01/23 11:53:18 INFO util.ChecksumType: Checksum can use
> org.apache.hadoop.util.PureJavaCrc32C
> 15/01/23 11:53:18 INFO Configuration.deprecation: fs.default.name is
> deprecated. Instead, use fs.defaultFS
> Scanning ->
> /user/biadmin/CUMMINS_INSITE_V1/7106432d294dd844be15996ccbf2ba84/attributes/f1a7e3113c2c4047ac1fc8fbcb41d8b7
> WARNING, previous row is greater then current row
> filename ->
> /user/biadmin/CUMMINS_INSITE_V1/7106432d294dd844be15996ccbf2ba84/attributes/f1a7e3113c2c4047ac1fc8fbcb41d8b7
> previous ->
> \x00/20110203-094231205-79442793-1410161293068203000\x0Aattributes16794406\x00\x00\x01\x00\x00\x00\x00\x00\x00
> current ->
> Exception in thread "main" java.nio.BufferUnderflowException
> at java.nio.Buffer.nextGetIndex(Buffer.java:489)
> at java.nio.HeapByteBuffer.getInt(HeapByteBuffer.java:347)
> at
> org.apache.hadoop.hbase.io.hfile.HFileReaderV2$ScannerV2.readKeyValueLen(HFileReaderV2.java:856)
> at
> org.apache.hadoop.hbase.io.hfile.HFileReaderV2$ScannerV2.next(HFileReaderV2.java:768)
> at
> org.apache.hadoop.hbase.io.hfile.HFilePrettyPrinter.scanKeysValues(HFilePrettyPrinter.java:362)
> at
> org.apache.hadoop.hbase.io.hfile.HFilePrettyPrinter.processFile(HFilePrettyPrinter.java:262)
> at
> org.apache.hadoop.hbase.io.hfile.HFilePrettyPrinter.run(HFilePrettyPrinter.java:220)
> at org.apache.hadoop.util.ToolRunner.run(ToolRunner.java:70)
> at
> org.apache.hadoop.hbase.io.hfile.HFilePrettyPrinter.main(HFilePrettyPrinter.java:539)
> at org.apache.hadoop.hbase.io.hfile.HFile.main(HFile.java:802)
> {noformat}
> Turning on Java Assert shows the following:
> {noformat}
> Exception in thread "main" java.lang.AssertionError: Key
> 20110203-094231205-79442793-1410161293068203000/attributes:16794406/1099511627776/Minimum/vlen=15/mvcc=0
> followed by a smaller key //0/Minimum/vlen=0/mvcc=0 in cf attributes
> at
> org.apache.hadoop.hbase.regionserver.StoreScanner.checkScanOrder(StoreScanner.java:672)
> {noformat}
> It shows that the hfile seems to be corrupted -- the keys don't seem to be
> right.
> But Scanner is not able to give a meaningful error, but stuck in an infinite
> loop in here:
> {code}
> KeyValueHeap.generalizedSeek()
> while ((scanner = heap.poll()) != null) {
> }
> {code}
--
This message was sent by Atlassian JIRA
(v6.3.4#6332)
[jira] [Commented] (HBASE-12949) Scanner can be stuck in infinite loop if the HFile is corrupted
[
https://issues.apache.org/jira/browse/HBASE-12949?page=com.atlassian.jira.plugin.system.issuetabpanels:comment-tabpanel&focusedCommentId=14299402#comment-14299402
]
Jerry He commented on HBASE-12949:
--
We can see this key
"20110203-094231205-79442793-1410161293068203000/attributes:16794406/1099511627776/Minimum/vlen=15/mvcc=0"
is probably bad already. It is not possible to have type 'Minimum' in real kv,
correct?
The next kv "//0/Minimum/vlen=0/mvcc=0" is worse.
The Java Asserts in the code would probably catch all these. But that is not
going to be turned on in production.
We are probably not able to take care or error out all corruption cases.
On the other hand, I wonder if any simple sanity checks can be done with
minimal performance impact.
Any idea and comment is welcome.
> Scanner can be stuck in infinite loop if the HFile is corrupted
> ---
>
> Key: HBASE-12949
> URL: https://issues.apache.org/jira/browse/HBASE-12949
> Project: HBase
> Issue Type: Bug
>Affects Versions: 0.94.3, 0.98.10
>Reporter: Jerry He
>
> We've encountered problem where compaction hangs and never completes.
> After looking into it further, we found that the compaction scanner was stuck
> in a infinite loop. See stack below.
> {noformat}
> org.apache.hadoop.hbase.regionserver.KeyValueHeap.generalizedSeek(KeyValueHeap.java:296)
> org.apache.hadoop.hbase.regionserver.KeyValueHeap.reseek(KeyValueHeap.java:257)
> org.apache.hadoop.hbase.regionserver.StoreScanner.reseek(StoreScanner.java:697)
> org.apache.hadoop.hbase.regionserver.StoreScanner.seekToNextRow(StoreScanner.java:672)
> org.apache.hadoop.hbase.regionserver.StoreScanner.next(StoreScanner.java:529)
> org.apache.hadoop.hbase.regionserver.compactions.Compactor.performCompaction(Compactor.java:223)
> {noformat}
> We identified the hfile that seems to be corrupted. Using HFile tool shows
> the following:
> {noformat}
> [biadmin@hdtest009 bin]$ hbase org.apache.hadoop.hbase.io.hfile.HFile -v -k
> -m -f
> /user/biadmin/CUMMINS_INSITE_V1/7106432d294dd844be15996ccbf2ba84/attributes/f1a7e3113c2c4047ac1fc8fbcb41d8b7
> 15/01/23 11:53:17 INFO Configuration.deprecation: hadoop.native.lib is
> deprecated. Instead, use io.native.lib.available
> 15/01/23 11:53:18 INFO util.ChecksumType: Checksum using
> org.apache.hadoop.util.PureJavaCrc32
> 15/01/23 11:53:18 INFO util.ChecksumType: Checksum can use
> org.apache.hadoop.util.PureJavaCrc32C
> 15/01/23 11:53:18 INFO Configuration.deprecation: fs.default.name is
> deprecated. Instead, use fs.defaultFS
> Scanning ->
> /user/biadmin/CUMMINS_INSITE_V1/7106432d294dd844be15996ccbf2ba84/attributes/f1a7e3113c2c4047ac1fc8fbcb41d8b7
> WARNING, previous row is greater then current row
> filename ->
> /user/biadmin/CUMMINS_INSITE_V1/7106432d294dd844be15996ccbf2ba84/attributes/f1a7e3113c2c4047ac1fc8fbcb41d8b7
> previous ->
> \x00/20110203-094231205-79442793-1410161293068203000\x0Aattributes16794406\x00\x00\x01\x00\x00\x00\x00\x00\x00
> current ->
> Exception in thread "main" java.nio.BufferUnderflowException
> at java.nio.Buffer.nextGetIndex(Buffer.java:489)
> at java.nio.HeapByteBuffer.getInt(HeapByteBuffer.java:347)
> at
> org.apache.hadoop.hbase.io.hfile.HFileReaderV2$ScannerV2.readKeyValueLen(HFileReaderV2.java:856)
> at
> org.apache.hadoop.hbase.io.hfile.HFileReaderV2$ScannerV2.next(HFileReaderV2.java:768)
> at
> org.apache.hadoop.hbase.io.hfile.HFilePrettyPrinter.scanKeysValues(HFilePrettyPrinter.java:362)
> at
> org.apache.hadoop.hbase.io.hfile.HFilePrettyPrinter.processFile(HFilePrettyPrinter.java:262)
> at
> org.apache.hadoop.hbase.io.hfile.HFilePrettyPrinter.run(HFilePrettyPrinter.java:220)
> at org.apache.hadoop.util.ToolRunner.run(ToolRunner.java:70)
> at
> org.apache.hadoop.hbase.io.hfile.HFilePrettyPrinter.main(HFilePrettyPrinter.java:539)
> at org.apache.hadoop.hbase.io.hfile.HFile.main(HFile.java:802)
> {noformat}
> Turning on Java Assert shows the following:
> {noformat}
> Exception in thread "main" java.lang.AssertionError: Key
> 20110203-094231205-79442793-1410161293068203000/attributes:16794406/1099511627776/Minimum/vlen=15/mvcc=0
> followed by a smaller key //0/Minimum/vlen=0/mvcc=0 in cf attributes
> at
> org.apache.hadoop.hbase.regionserver.StoreScanner.checkScanOrder(StoreScanner.java:672)
> {noformat}
> It shows that the hfile seems to be corrupted -- the keys don't seem to be
> right.
> But Scanner is not able to give a meaningful error, but stuck in an infinite
> loop in here:
> {code}
> KeyValueHeap.generalizedSeek()
> while ((scanner = heap.poll()) != null) {
> }
> {code}
--
This message was sent by Atlassian JIRA
(v6.3.4#6332)
