Re: Can't access file in spark, but can in hadoop
Thanks for the follow-up, Dale. bq. hdp 2.3.1 Minor correction: should be hdp 2.1.3 Cheers On Sat, Mar 28, 2015 at 2:28 AM, Johnson, Dale daljohn...@ebay.com wrote: Actually I did figure this out eventually. I’m running on a Hortonworks cluster hdp 2.3.1 (hadoop 2.4.1). Spark bundles the org/apache/hadoop/hdfs/… classes along with the spark-assembly jar. This turns out to introduce a small incompatibility with hdp 2.3.1. I carved these classes out of the jar, and put a distro-provided jar into the class path for the hdfs classes, and this fixed the problem. Ideally there would be an exclusion in the pom to deal with this. Dale. From: Zhan Zhang zzh...@hortonworks.com Date: Friday, March 27, 2015 at 4:28 PM To: Johnson, Dale daljohn...@ebay.com Cc: Ted Yu yuzhih...@gmail.com, user user@spark.apache.org Subject: Re: Can't access file in spark, but can in hadoop Probably guava version conflicts issue. What spark version did you use, and which hadoop version it compile against? Thanks. Zhan Zhang On Mar 27, 2015, at 12:13 PM, Johnson, Dale daljohn...@ebay.com wrote: Yes, I could recompile the hdfs client with more logging, but I don’t have the day or two to spare right this week. One more thing about this, the cluster is Horton Works 2.1.3 [.0] They seem to have a claim of supporting spark on Horton Works 2.2 Dale. From: Ted Yu yuzhih...@gmail.com Date: Thursday, March 26, 2015 at 4:54 PM To: Johnson, Dale daljohn...@ebay.com Cc: user user@spark.apache.org Subject: Re: Can't access file in spark, but can in hadoop Looks like the following assertion failed: Preconditions.checkState(storageIDsCount == locs.size()); locs is ListDatanodeInfoProto Can you enhance the assertion to log more information ? Cheers On Thu, Mar 26, 2015 at 3:06 PM, Dale Johnson daljohn...@ebay.com wrote: There seems to be a special kind of corrupted according to Spark state of file in HDFS. I have isolated a set of files (maybe 1% of all files I need to work with) which are producing the following stack dump when I try to sc.textFile() open them. When I try to open directories, most large directories contain at least one file of this type. Curiously, the following two lines fail inside of a Spark job, but not inside of a Scoobi job: val conf = new org.apache.hadoop.conf.Configuration val fs = org.apache.hadoop.fs.FileSystem.get(conf) The stack trace follows: 15/03/26 14:22:43 INFO yarn.ApplicationMaster: Final app status: FAILED, exitCode: 15, (reason: User class threw exception: null) Exception in thread Driver java.lang.IllegalStateException at org.spark-project.guava.common.base.Preconditions.checkState(Preconditions.java:133) at org.apache.hadoop.hdfs.protocolPB.PBHelper.convert(PBHelper.java:673) at org.apache.hadoop.hdfs.protocolPB.PBHelper.convertLocatedBlock(PBHelper.java:1100) at org.apache.hadoop.hdfs.protocolPB.PBHelper.convert(PBHelper.java:1118) at org.apache.hadoop.hdfs.protocolPB.PBHelper.convert(PBHelper.java:1251) at org.apache.hadoop.hdfs.protocolPB.PBHelper.convert(PBHelper.java:1354) at org.apache.hadoop.hdfs.protocolPB.PBHelper.convert(PBHelper.java:1363) at org.apache.hadoop.hdfs.protocolPB.ClientNamenodeProtocolTranslatorPB.getListing(ClientNamenodeProtocolTranslatorPB.java:518) at org.apache.hadoop.hdfs.DFSClient.listPaths(DFSClient.java:1743) at org.apache.hadoop.hdfs.DistributedFileSystem$15.init(DistributedFileSystem.java:738) at org.apache.hadoop.hdfs.DistributedFileSystem.listLocatedStatus(DistributedFileSystem.java:727) at org.apache.hadoop.fs.FileSystem.listLocatedStatus(FileSystem.java:1662) at org.apache.hadoop.fs.FileSystem$5.init(FileSystem.java:1724) at org.apache.hadoop.fs.FileSystem.listFiles(FileSystem.java:1721) at com.ebay.ss.niffler.miner.speller.SpellQueryLaunch$$anonfun$main$2.apply(SpellQuery.scala:1125) at com.ebay.ss.niffler.miner.speller.SpellQueryLaunch$$anonfun$main$2.apply(SpellQuery.scala:1123) at scala.collection.IndexedSeqOptimized$class.foreach(IndexedSeqOptimized.scala:33) at scala.collection.mutable.ArrayOps$ofRef.foreach(ArrayOps.scala:108) at com.ebay.ss.niffler.miner.speller.SpellQueryLaunch$.main(SpellQuery.scala:1123) at com.ebay.ss.niffler.miner.speller.SpellQueryLaunch.main(SpellQuery.scala) at sun.reflect.NativeMethodAccessorImpl.invoke0(Native Method) at sun.reflect.NativeMethodAccessorImpl.invoke(NativeMethodAccessorImpl.java:57) at sun.reflect.DelegatingMethodAccessorImpl.invoke(DelegatingMethodAccessorImpl.java:43) at java.lang.reflect.Method.invoke(Method.java:606) at org.apache.spark.deploy.yarn.ApplicationMaster$$anon$2.run(ApplicationMaster.scala:427) 15/03/26 14:22:43 INFO yarn.ApplicationMaster:
Re: Can't access file in spark, but can in hadoop
Actually I did figure this out eventually. I’m running on a Hortonworks cluster hdp 2.3.1 (hadoop 2.4.1). Spark bundles the org/apache/hadoop/hdfs/… classes along with the spark-assembly jar. This turns out to introduce a small incompatibility with hdp 2.3.1. I carved these classes out of the jar, and put a distro-provided jar into the class path for the hdfs classes, and this fixed the problem. Ideally there would be an exclusion in the pom to deal with this. Dale. From: Zhan Zhang zzh...@hortonworks.commailto:zzh...@hortonworks.com Date: Friday, March 27, 2015 at 4:28 PM To: Johnson, Dale daljohn...@ebay.commailto:daljohn...@ebay.com Cc: Ted Yu yuzhih...@gmail.commailto:yuzhih...@gmail.com, user user@spark.apache.orgmailto:user@spark.apache.org Subject: Re: Can't access file in spark, but can in hadoop Probably guava version conflicts issue. What spark version did you use, and which hadoop version it compile against? Thanks. Zhan Zhang On Mar 27, 2015, at 12:13 PM, Johnson, Dale daljohn...@ebay.commailto:daljohn...@ebay.com wrote: Yes, I could recompile the hdfs client with more logging, but I don’t have the day or two to spare right this week. One more thing about this, the cluster is Horton Works 2.1.3 [.0] They seem to have a claim of supporting spark on Horton Works 2.2 Dale. From: Ted Yu yuzhih...@gmail.commailto:yuzhih...@gmail.com Date: Thursday, March 26, 2015 at 4:54 PM To: Johnson, Dale daljohn...@ebay.commailto:daljohn...@ebay.com Cc: user user@spark.apache.orgmailto:user@spark.apache.org Subject: Re: Can't access file in spark, but can in hadoop Looks like the following assertion failed: Preconditions.checkState(storageIDsCount == locs.size()); locs is ListDatanodeInfoProto Can you enhance the assertion to log more information ? Cheers On Thu, Mar 26, 2015 at 3:06 PM, Dale Johnson daljohn...@ebay.commailto:daljohn...@ebay.com wrote: There seems to be a special kind of corrupted according to Spark state of file in HDFS. I have isolated a set of files (maybe 1% of all files I need to work with) which are producing the following stack dump when I try to sc.textFile() open them. When I try to open directories, most large directories contain at least one file of this type. Curiously, the following two lines fail inside of a Spark job, but not inside of a Scoobi job: val conf = new org.apache.hadoop.conf.Configuration val fs = org.apache.hadoop.fs.FileSystem.get(conf) The stack trace follows: 15/03/26 14:22:43 INFO yarn.ApplicationMaster: Final app status: FAILED, exitCode: 15, (reason: User class threw exception: null) Exception in thread Driver java.lang.IllegalStateException at org.spark-project.guava.common.base.Preconditions.checkState(Preconditions.java:133) at org.apache.hadoop.hdfs.protocolPB.PBHelper.convert(PBHelper.java:673) at org.apache.hadoop.hdfs.protocolPB.PBHelper.convertLocatedBlock(PBHelper.java:1100) at org.apache.hadoop.hdfs.protocolPB.PBHelper.convert(PBHelper.java:1118) at org.apache.hadoop.hdfs.protocolPB.PBHelper.convert(PBHelper.java:1251) at org.apache.hadoop.hdfs.protocolPB.PBHelper.convert(PBHelper.java:1354) at org.apache.hadoop.hdfs.protocolPB.PBHelper.convert(PBHelper.java:1363) at org.apache.hadoop.hdfs.protocolPB.ClientNamenodeProtocolTranslatorPB.getListing(ClientNamenodeProtocolTranslatorPB.java:518) at org.apache.hadoop.hdfs.DFSClient.listPaths(DFSClient.java:1743) at org.apache.hadoop.hdfs.DistributedFileSystem$15.init(DistributedFileSystem.java:738) at org.apache.hadoop.hdfs.DistributedFileSystem.listLocatedStatus(DistributedFileSystem.java:727) at org.apache.hadoop.fs.FileSystem.listLocatedStatus(FileSystem.java:1662) at org.apache.hadoop.fs.FileSystem$5.init(FileSystem.java:1724) at org.apache.hadoop.fs.FileSystem.listFiles(FileSystem.java:1721) at com.ebay.ss.niffler.miner.speller.SpellQueryLaunch$$anonfun$main$2.apply(SpellQuery.scala:1125) at com.ebay.ss.niffler.miner.speller.SpellQueryLaunch$$anonfun$main$2.apply(SpellQuery.scala:1123) at scala.collection.IndexedSeqOptimized$class.foreach(IndexedSeqOptimized.scala:33) at scala.collection.mutable.ArrayOps$ofRef.foreach(ArrayOps.scala:108) at com.ebay.ss.niffler.miner.speller.SpellQueryLaunch$.main(SpellQuery.scala:1123) at com.ebay.ss.niffler.miner.speller.SpellQueryLaunch.main(SpellQuery.scala) at sun.reflect.NativeMethodAccessorImpl.invoke0(Native Method) at sun.reflect.NativeMethodAccessorImpl.invoke(NativeMethodAccessorImpl.java:57) at sun.reflect.DelegatingMethodAccessorImpl.invoke(DelegatingMethodAccessorImpl.java:43) at java.lang.reflect.Method.invoke(Method.java:606) at org.apache.spark.deploy.yarn.ApplicationMaster$$anon$2.run(ApplicationMaster.scala:427) 15/03/26 14:22:43 INFO yarn.ApplicationMaster: Invoking sc stop from shutdown hook It
Re: Can't access file in spark, but can in hadoop
Yes, I could recompile the hdfs client with more logging, but I don’t have the day or two to spare right this week. One more thing about this, the cluster is Horton Works 2.1.3 [.0] They seem to have a claim of supporting spark on Horton Works 2.2 Dale. From: Ted Yu yuzhih...@gmail.commailto:yuzhih...@gmail.com Date: Thursday, March 26, 2015 at 4:54 PM To: Johnson, Dale daljohn...@ebay.commailto:daljohn...@ebay.com Cc: user user@spark.apache.orgmailto:user@spark.apache.org Subject: Re: Can't access file in spark, but can in hadoop Looks like the following assertion failed: Preconditions.checkState(storageIDsCount == locs.size()); locs is ListDatanodeInfoProto Can you enhance the assertion to log more information ? Cheers On Thu, Mar 26, 2015 at 3:06 PM, Dale Johnson daljohn...@ebay.commailto:daljohn...@ebay.com wrote: There seems to be a special kind of corrupted according to Spark state of file in HDFS. I have isolated a set of files (maybe 1% of all files I need to work with) which are producing the following stack dump when I try to sc.textFile() open them. When I try to open directories, most large directories contain at least one file of this type. Curiously, the following two lines fail inside of a Spark job, but not inside of a Scoobi job: val conf = new org.apache.hadoop.conf.Configuration val fs = org.apache.hadoop.fs.FileSystem.get(conf) The stack trace follows: 15/03/26 14:22:43 INFO yarn.ApplicationMaster: Final app status: FAILED, exitCode: 15, (reason: User class threw exception: null) Exception in thread Driver java.lang.IllegalStateException at org.spark-project.guava.common.base.Preconditions.checkState(Preconditions.java:133) at org.apache.hadoop.hdfs.protocolPB.PBHelper.convert(PBHelper.java:673) at org.apache.hadoop.hdfs.protocolPB.PBHelper.convertLocatedBlock(PBHelper.java:1100) at org.apache.hadoop.hdfs.protocolPB.PBHelper.convert(PBHelper.java:1118) at org.apache.hadoop.hdfs.protocolPB.PBHelper.convert(PBHelper.java:1251) at org.apache.hadoop.hdfs.protocolPB.PBHelper.convert(PBHelper.java:1354) at org.apache.hadoop.hdfs.protocolPB.PBHelper.convert(PBHelper.java:1363) at org.apache.hadoop.hdfs.protocolPB.ClientNamenodeProtocolTranslatorPB.getListing(ClientNamenodeProtocolTranslatorPB.java:518) at org.apache.hadoop.hdfs.DFSClient.listPaths(DFSClient.java:1743) at org.apache.hadoop.hdfs.DistributedFileSystem$15.init(DistributedFileSystem.java:738) at org.apache.hadoop.hdfs.DistributedFileSystem.listLocatedStatus(DistributedFileSystem.java:727) at org.apache.hadoop.fs.FileSystem.listLocatedStatus(FileSystem.java:1662) at org.apache.hadoop.fs.FileSystem$5.init(FileSystem.java:1724) at org.apache.hadoop.fs.FileSystem.listFiles(FileSystem.java:1721) at com.ebay.ss.niffler.miner.speller.SpellQueryLaunch$$anonfun$main$2.apply(SpellQuery.scala:1125) at com.ebay.ss.niffler.miner.speller.SpellQueryLaunch$$anonfun$main$2.apply(SpellQuery.scala:1123) at scala.collection.IndexedSeqOptimized$class.foreach(IndexedSeqOptimized.scala:33) at scala.collection.mutable.ArrayOps$ofRef.foreach(ArrayOps.scala:108) at com.ebay.ss.niffler.miner.speller.SpellQueryLaunch$.main(SpellQuery.scala:1123) at com.ebay.ss.niffler.miner.speller.SpellQueryLaunch.main(SpellQuery.scala) at sun.reflect.NativeMethodAccessorImpl.invoke0(Native Method) at sun.reflect.NativeMethodAccessorImpl.invoke(NativeMethodAccessorImpl.java:57) at sun.reflect.DelegatingMethodAccessorImpl.invoke(DelegatingMethodAccessorImpl.java:43) at java.lang.reflect.Method.invoke(Method.java:606) at org.apache.spark.deploy.yarn.ApplicationMaster$$anon$2.run(ApplicationMaster.scala:427) 15/03/26 14:22:43 INFO yarn.ApplicationMaster: Invoking sc stop from shutdown hook It appears to have found the three copies of the given HDFS block, but is performing some sort of validation with them before giving them back to spark to schedule the job. But there is an assert failing. I've tried this with 1.2.0, 1.2.1 and 1.3.0, and I get the exact same error, but I've seen the line numbers change on the HDFS libraries, but not the function names. I've tried recompiling myself with different hadoop versions, and it's the same. We're running hadoop 2.4.1 on our cluster. A google search turns up absolutely nothing on this. Any insight at all would be appreciated. Dale Johnson Applied Researcher eBay.com -- View this message in context: http://apache-spark-user-list.1001560.n3.nabble.com/Can-t-access-file-in-spark-but-can-in-hadoop-tp22251.html Sent from the Apache Spark User List mailing list archive at Nabble.com. - To unsubscribe, e-mail: user-unsubscr...@spark.apache.orgmailto:user-unsubscr...@spark.apache.org For additional commands, e-mail:
Re: Can't access file in spark, but can in hadoop
Probably guava version conflicts issue. What spark version did you use, and which hadoop version it compile against? Thanks. Zhan Zhang On Mar 27, 2015, at 12:13 PM, Johnson, Dale daljohn...@ebay.commailto:daljohn...@ebay.com wrote: Yes, I could recompile the hdfs client with more logging, but I don’t have the day or two to spare right this week. One more thing about this, the cluster is Horton Works 2.1.3 [.0] They seem to have a claim of supporting spark on Horton Works 2.2 Dale. From: Ted Yu yuzhih...@gmail.commailto:yuzhih...@gmail.com Date: Thursday, March 26, 2015 at 4:54 PM To: Johnson, Dale daljohn...@ebay.commailto:daljohn...@ebay.com Cc: user user@spark.apache.orgmailto:user@spark.apache.org Subject: Re: Can't access file in spark, but can in hadoop Looks like the following assertion failed: Preconditions.checkState(storageIDsCount == locs.size()); locs is ListDatanodeInfoProto Can you enhance the assertion to log more information ? Cheers On Thu, Mar 26, 2015 at 3:06 PM, Dale Johnson daljohn...@ebay.commailto:daljohn...@ebay.com wrote: There seems to be a special kind of corrupted according to Spark state of file in HDFS. I have isolated a set of files (maybe 1% of all files I need to work with) which are producing the following stack dump when I try to sc.textFile() open them. When I try to open directories, most large directories contain at least one file of this type. Curiously, the following two lines fail inside of a Spark job, but not inside of a Scoobi job: val conf = new org.apache.hadoop.conf.Configuration val fs = org.apache.hadoop.fs.FileSystem.get(conf) The stack trace follows: 15/03/26 14:22:43 INFO yarn.ApplicationMaster: Final app status: FAILED, exitCode: 15, (reason: User class threw exception: null) Exception in thread Driver java.lang.IllegalStateException at org.spark-project.guava.common.base.Preconditions.checkState(Preconditions.java:133) at org.apache.hadoop.hdfs.protocolPB.PBHelper.convert(PBHelper.java:673) at org.apache.hadoop.hdfs.protocolPB.PBHelper.convertLocatedBlock(PBHelper.java:1100) at org.apache.hadoop.hdfs.protocolPB.PBHelper.convert(PBHelper.java:1118) at org.apache.hadoop.hdfs.protocolPB.PBHelper.convert(PBHelper.java:1251) at org.apache.hadoop.hdfs.protocolPB.PBHelper.convert(PBHelper.java:1354) at org.apache.hadoop.hdfs.protocolPB.PBHelper.convert(PBHelper.java:1363) at org.apache.hadoop.hdfs.protocolPB.ClientNamenodeProtocolTranslatorPB.getListing(ClientNamenodeProtocolTranslatorPB.java:518) at org.apache.hadoop.hdfs.DFSClient.listPaths(DFSClient.java:1743) at org.apache.hadoop.hdfs.DistributedFileSystem$15.init(DistributedFileSystem.java:738) at org.apache.hadoop.hdfs.DistributedFileSystem.listLocatedStatus(DistributedFileSystem.java:727) at org.apache.hadoop.fs.FileSystem.listLocatedStatus(FileSystem.java:1662) at org.apache.hadoop.fs.FileSystem$5.init(FileSystem.java:1724) at org.apache.hadoop.fs.FileSystem.listFiles(FileSystem.java:1721) at com.ebay.ss.niffler.miner.speller.SpellQueryLaunch$$anonfun$main$2.apply(SpellQuery.scala:1125) at com.ebay.ss.niffler.miner.speller.SpellQueryLaunch$$anonfun$main$2.apply(SpellQuery.scala:1123) at scala.collection.IndexedSeqOptimized$class.foreach(IndexedSeqOptimized.scala:33) at scala.collection.mutable.ArrayOps$ofRef.foreach(ArrayOps.scala:108) at com.ebay.ss.niffler.miner.speller.SpellQueryLaunch$.main(SpellQuery.scala:1123) at com.ebay.ss.niffler.miner.speller.SpellQueryLaunch.main(SpellQuery.scala) at sun.reflect.NativeMethodAccessorImpl.invoke0(Native Method) at sun.reflect.NativeMethodAccessorImpl.invoke(NativeMethodAccessorImpl.java:57) at sun.reflect.DelegatingMethodAccessorImpl.invoke(DelegatingMethodAccessorImpl.java:43) at java.lang.reflect.Method.invoke(Method.java:606) at org.apache.spark.deploy.yarn.ApplicationMaster$$anon$2.run(ApplicationMaster.scala:427) 15/03/26 14:22:43 INFO yarn.ApplicationMaster: Invoking sc stop from shutdown hook It appears to have found the three copies of the given HDFS block, but is performing some sort of validation with them before giving them back to spark to schedule the job. But there is an assert failing. I've tried this with 1.2.0, 1.2.1 and 1.3.0, and I get the exact same error, but I've seen the line numbers change on the HDFS libraries, but not the function names. I've tried recompiling myself with different hadoop versions, and it's the same. We're running hadoop 2.4.1 on our cluster. A google search turns up absolutely nothing on this. Any insight at all would be appreciated. Dale Johnson Applied Researcher eBay.comhttp://eBay.com -- View this message in context: http://apache-spark-user-list.1001560.n3.nabble.com/Can-t-access-file-in-spark-but-can-in-hadoop-tp22251.html Sent from the Apache Spark User List
Can't access file in spark, but can in hadoop
There seems to be a special kind of corrupted according to Spark state of file in HDFS. I have isolated a set of files (maybe 1% of all files I need to work with) which are producing the following stack dump when I try to sc.textFile() open them. When I try to open directories, most large directories contain at least one file of this type. Curiously, the following two lines fail inside of a Spark job, but not inside of a Scoobi job: val conf = new org.apache.hadoop.conf.Configuration val fs = org.apache.hadoop.fs.FileSystem.get(conf) The stack trace follows: 15/03/26 14:22:43 INFO yarn.ApplicationMaster: Final app status: FAILED, exitCode: 15, (reason: User class threw exception: null) Exception in thread Driver java.lang.IllegalStateException at org.spark-project.guava.common.base.Preconditions.checkState(Preconditions.java:133) at org.apache.hadoop.hdfs.protocolPB.PBHelper.convert(PBHelper.java:673) at org.apache.hadoop.hdfs.protocolPB.PBHelper.convertLocatedBlock(PBHelper.java:1100) at org.apache.hadoop.hdfs.protocolPB.PBHelper.convert(PBHelper.java:1118) at org.apache.hadoop.hdfs.protocolPB.PBHelper.convert(PBHelper.java:1251) at org.apache.hadoop.hdfs.protocolPB.PBHelper.convert(PBHelper.java:1354) at org.apache.hadoop.hdfs.protocolPB.PBHelper.convert(PBHelper.java:1363) at org.apache.hadoop.hdfs.protocolPB.ClientNamenodeProtocolTranslatorPB.getListing(ClientNamenodeProtocolTranslatorPB.java:518) at org.apache.hadoop.hdfs.DFSClient.listPaths(DFSClient.java:1743) at org.apache.hadoop.hdfs.DistributedFileSystem$15.init(DistributedFileSystem.java:738) at org.apache.hadoop.hdfs.DistributedFileSystem.listLocatedStatus(DistributedFileSystem.java:727) at org.apache.hadoop.fs.FileSystem.listLocatedStatus(FileSystem.java:1662) at org.apache.hadoop.fs.FileSystem$5.init(FileSystem.java:1724) at org.apache.hadoop.fs.FileSystem.listFiles(FileSystem.java:1721) at com.ebay.ss.niffler.miner.speller.SpellQueryLaunch$$anonfun$main$2.apply(SpellQuery.scala:1125) at com.ebay.ss.niffler.miner.speller.SpellQueryLaunch$$anonfun$main$2.apply(SpellQuery.scala:1123) at scala.collection.IndexedSeqOptimized$class.foreach(IndexedSeqOptimized.scala:33) at scala.collection.mutable.ArrayOps$ofRef.foreach(ArrayOps.scala:108) at com.ebay.ss.niffler.miner.speller.SpellQueryLaunch$.main(SpellQuery.scala:1123) at com.ebay.ss.niffler.miner.speller.SpellQueryLaunch.main(SpellQuery.scala) at sun.reflect.NativeMethodAccessorImpl.invoke0(Native Method) at sun.reflect.NativeMethodAccessorImpl.invoke(NativeMethodAccessorImpl.java:57) at sun.reflect.DelegatingMethodAccessorImpl.invoke(DelegatingMethodAccessorImpl.java:43) at java.lang.reflect.Method.invoke(Method.java:606) at org.apache.spark.deploy.yarn.ApplicationMaster$$anon$2.run(ApplicationMaster.scala:427) 15/03/26 14:22:43 INFO yarn.ApplicationMaster: Invoking sc stop from shutdown hook It appears to have found the three copies of the given HDFS block, but is performing some sort of validation with them before giving them back to spark to schedule the job. But there is an assert failing. I've tried this with 1.2.0, 1.2.1 and 1.3.0, and I get the exact same error, but I've seen the line numbers change on the HDFS libraries, but not the function names. I've tried recompiling myself with different hadoop versions, and it's the same. We're running hadoop 2.4.1 on our cluster. A google search turns up absolutely nothing on this. Any insight at all would be appreciated. Dale Johnson Applied Researcher eBay.com -- View this message in context: http://apache-spark-user-list.1001560.n3.nabble.com/Can-t-access-file-in-spark-but-can-in-hadoop-tp22251.html Sent from the Apache Spark User List mailing list archive at Nabble.com. - To unsubscribe, e-mail: user-unsubscr...@spark.apache.org For additional commands, e-mail: user-h...@spark.apache.org
Re: Can't access file in spark, but can in hadoop
Looks like the following assertion failed: Preconditions.checkState(storageIDsCount == locs.size()); locs is ListDatanodeInfoProto Can you enhance the assertion to log more information ? Cheers On Thu, Mar 26, 2015 at 3:06 PM, Dale Johnson daljohn...@ebay.com wrote: There seems to be a special kind of corrupted according to Spark state of file in HDFS. I have isolated a set of files (maybe 1% of all files I need to work with) which are producing the following stack dump when I try to sc.textFile() open them. When I try to open directories, most large directories contain at least one file of this type. Curiously, the following two lines fail inside of a Spark job, but not inside of a Scoobi job: val conf = new org.apache.hadoop.conf.Configuration val fs = org.apache.hadoop.fs.FileSystem.get(conf) The stack trace follows: 15/03/26 14:22:43 INFO yarn.ApplicationMaster: Final app status: FAILED, exitCode: 15, (reason: User class threw exception: null) Exception in thread Driver java.lang.IllegalStateException at org.spark-project.guava.common.base.Preconditions.checkState(Preconditions.java:133) at org.apache.hadoop.hdfs.protocolPB.PBHelper.convert(PBHelper.java:673) at org.apache.hadoop.hdfs.protocolPB.PBHelper.convertLocatedBlock(PBHelper.java:1100) at org.apache.hadoop.hdfs.protocolPB.PBHelper.convert(PBHelper.java:1118) at org.apache.hadoop.hdfs.protocolPB.PBHelper.convert(PBHelper.java:1251) at org.apache.hadoop.hdfs.protocolPB.PBHelper.convert(PBHelper.java:1354) at org.apache.hadoop.hdfs.protocolPB.PBHelper.convert(PBHelper.java:1363) at org.apache.hadoop.hdfs.protocolPB.ClientNamenodeProtocolTranslatorPB.getListing(ClientNamenodeProtocolTranslatorPB.java:518) at org.apache.hadoop.hdfs.DFSClient.listPaths(DFSClient.java:1743) at org.apache.hadoop.hdfs.DistributedFileSystem$15.init(DistributedFileSystem.java:738) at org.apache.hadoop.hdfs.DistributedFileSystem.listLocatedStatus(DistributedFileSystem.java:727) at org.apache.hadoop.fs.FileSystem.listLocatedStatus(FileSystem.java:1662) at org.apache.hadoop.fs.FileSystem$5.init(FileSystem.java:1724) at org.apache.hadoop.fs.FileSystem.listFiles(FileSystem.java:1721) at com.ebay.ss.niffler.miner.speller.SpellQueryLaunch$$anonfun$main$2.apply(SpellQuery.scala:1125) at com.ebay.ss.niffler.miner.speller.SpellQueryLaunch$$anonfun$main$2.apply(SpellQuery.scala:1123) at scala.collection.IndexedSeqOptimized$class.foreach(IndexedSeqOptimized.scala:33) at scala.collection.mutable.ArrayOps$ofRef.foreach(ArrayOps.scala:108) at com.ebay.ss.niffler.miner.speller.SpellQueryLaunch$.main(SpellQuery.scala:1123) at com.ebay.ss.niffler.miner.speller.SpellQueryLaunch.main(SpellQuery.scala) at sun.reflect.NativeMethodAccessorImpl.invoke0(Native Method) at sun.reflect.NativeMethodAccessorImpl.invoke(NativeMethodAccessorImpl.java:57) at sun.reflect.DelegatingMethodAccessorImpl.invoke(DelegatingMethodAccessorImpl.java:43) at java.lang.reflect.Method.invoke(Method.java:606) at org.apache.spark.deploy.yarn.ApplicationMaster$$anon$2.run(ApplicationMaster.scala:427) 15/03/26 14:22:43 INFO yarn.ApplicationMaster: Invoking sc stop from shutdown hook It appears to have found the three copies of the given HDFS block, but is performing some sort of validation with them before giving them back to spark to schedule the job. But there is an assert failing. I've tried this with 1.2.0, 1.2.1 and 1.3.0, and I get the exact same error, but I've seen the line numbers change on the HDFS libraries, but not the function names. I've tried recompiling myself with different hadoop versions, and it's the same. We're running hadoop 2.4.1 on our cluster. A google search turns up absolutely nothing on this. Any insight at all would be appreciated. Dale Johnson Applied Researcher eBay.com -- View this message in context: http://apache-spark-user-list.1001560.n3.nabble.com/Can-t-access-file-in-spark-but-can-in-hadoop-tp22251.html Sent from the Apache Spark User List mailing list archive at Nabble.com. - To unsubscribe, e-mail: user-unsubscr...@spark.apache.org For additional commands, e-mail: user-h...@spark.apache.org
