You are viewing a plain text version of this content. The canonical link for it is here.

Posted to user@spark.apache.org by "Lin, Hao" <Ha...@finra.org> on 2016/02/01 23:35:59 UTC

try to read multiple bz2 files in s3

When I tried to read multiple bz2 files from s3, I have the following warning messages. What is the problem here?

16/02/01 22:30:30 WARN TaskSetManager: Lost task 0.0 in stage 0.0 (TID 0, 10.162.67.248): java.lang.ArrayIndexOutOfBoundsException: -1844424343
        at org.apache.hadoop.io.compress.bzip2.CBZip2InputStream.getAndMoveToFrontDecode0(CBZip2InputStream.java:1014)
        at org.apache.hadoop.io.compress.bzip2.CBZip2InputStream.getAndMoveToFrontDecode(CBZip2InputStream.java:829)
        at org.apache.hadoop.io.compress.bzip2.CBZip2InputStream.initBlock(CBZip2InputStream.java:504)
        at org.apache.hadoop.io.compress.bzip2.CBZip2InputStream.changeStateToProcessABlock(CBZip2InputStream.java:333)
        at org.apache.hadoop.io.compress.bzip2.CBZip2InputStream.read(CBZip2InputStream.java:399)
        at org.apache.hadoop.io.compress.BZip2Codec$BZip2CompressionInputStream.read(BZip2Codec.java:483)
        at java.io.InputStream.read(InputStream.java:101)
        at org.apache.hadoop.mapreduce.lib.input.CompressedSplitLineReader.fillBuffer(CompressedSplitLineReader.java:130)
        at org.apache.hadoop.util.LineReader.readDefaultLine(LineReader.java:216)
        at org.apache.hadoop.util.LineReader.readLine(LineReader.java:174)
        at org.apache.hadoop.mapreduce.lib.input.CompressedSplitLineReader.readLine(CompressedSplitLineReader.java:159)
        at org.apache.hadoop.mapred.LineRecordReader.next(LineRecordReader.java:209)
        at org.apache.hadoop.mapred.LineRecordReader.next(LineRecordReader.java:47)
        at org.apache.spark.rdd.HadoopRDD$$anon$1.getNext(HadoopRDD.scala:248)
        at org.apache.spark.rdd.HadoopRDD$$anon$1.getNext(HadoopRDD.scala:216)
        at org.apache.spark.util.NextIterator.hasNext(NextIterator.scala:73)
        at org.apache.spark.InterruptibleIterator.hasNext(InterruptibleIterator.scala:39)
        at scala.collection.Iterator$$anon$11.hasNext(Iterator.scala:327)
        at org.apache.spark.util.Utils$.getIteratorSize(Utils.scala:1553)
        at org.apache.spark.rdd.RDD$$anonfun$count$1.apply(RDD.scala:1125)
        at org.apache.spark.rdd.RDD$$anonfun$count$1.apply(RDD.scala:1125)
        at org.apache.spark.SparkContext$$anonfun$runJob$5.apply(SparkContext.scala:1850)
        at org.apache.spark.SparkContext$$anonfun$runJob$5.apply(SparkContext.scala:1850)
        at org.apache.spark.scheduler.ResultTask.runTask(ResultTask.scala:66)
        at org.apache.spark.scheduler.Task.run(Task.scala:88)
        at org.apache.spark.executor.Executor$TaskRunner.run(Executor.scala:214)
        at java.util.concurrent.ThreadPoolExecutor.runWorker(ThreadPoolExecutor.java:1142)
        at java.util.concurrent.ThreadPoolExecutor$Worker.run(ThreadPoolExecutor.java:617)
        at java.lang.Thread.run(Thread.java:745)

Confidentiality Notice::  This email, including attachments, may include non-public, proprietary, confidential or legally privileged information.  If you are not an intended recipient or an authorized agent of an intended recipient, you are hereby notified that any dissemination, distribution or copying of the information contained in or transmitted with this e-mail is unauthorized and strictly prohibited.  If you have received this email in error, please notify the sender by replying to this message and permanently delete this e-mail, its attachments, and any copies of it immediately.  You should not retain, copy or use this e-mail or any attachment for any purpose, nor disclose all or any part of the contents to any other person. Thank you.

RE: try to read multiple bz2 files in s3

Posted by "Lin, Hao" <Ha...@finra.org>.

Hi Xiangrui,

For the following problem, I found out an issue ticket you posted before https://issues.apache.org/jira/browse/HADOOP-10614

I wonder if this has been fixed in Spark 1.5.2 which I believe so. Any suggestion on how to fix it?

Thanks
Hao


From: Lin, Hao [mailto:Hao.Lin@finra.org]
Sent: Tuesday, February 02, 2016 10:38 AM
To: Robert Collich; user
Subject: RE: try to read multiple bz2 files in s3

Hi Robert,

I just use textFile. Here is the simple code:

val fs3File=sc.textFile("s3n://my bucket/myfolder/")
fs3File.count

do you suggest I should use sc.parallelize?

many thanks

From: Robert Collich [mailto:rcollich@gmail.com]
Sent: Monday, February 01, 2016 6:54 PM
To: Lin, Hao; user
Subject: Re: try to read multiple bz2 files in s3

Hi Hao,

Could you please post the corresponding code? Are you using textFile or sc.parallelize?

On Mon, Feb 1, 2016 at 2:36 PM Lin, Hao <Ha...@finra.org>> wrote:
When I tried to read multiple bz2 files from s3, I have the following warning messages. What is the problem here?

16/02/01 22:30:30 WARN TaskSetManager: Lost task 0.0 in stage 0.0 (TID 0, 10.162.67.248): java.lang.ArrayIndexOutOfBoundsException: -1844424343
        at org.apache.hadoop.io.compress.bzip2.CBZip2InputStream.getAndMoveToFrontDecode0(CBZip2InputStream.java:1014)
        at org.apache.hadoop.io.compress.bzip2.CBZip2InputStream.getAndMoveToFrontDecode(CBZip2InputStream.java:829)
        at org.apache.hadoop.io.compress.bzip2.CBZip2InputStream.initBlock(CBZip2InputStream.java:504)
        at org.apache.hadoop.io.compress.bzip2.CBZip2InputStream.changeStateToProcessABlock(CBZip2InputStream.java:333)
        at org.apache.hadoop.io.compress.bzip2.CBZip2InputStream.read(CBZip2InputStream.java:399)
        at org.apache.hadoop.io.compress.BZip2Codec$BZip2CompressionInputStream.read(BZip2Codec.java:483)
        at java.io.InputStream.read(InputStream.java:101)
        at org.apache.hadoop.mapreduce.lib.input.CompressedSplitLineReader.fillBuffer(CompressedSplitLineReader.java:130)
        at org.apache.hadoop.util.LineReader.readDefaultLine(LineReader.java:216)
        at org.apache.hadoop.util.LineReader.readLine(LineReader.java:174)
        at org.apache.hadoop.mapreduce.lib.input.CompressedSplitLineReader.readLine(CompressedSplitLineReader.java:159)
        at org.apache.hadoop.mapred.LineRecordReader.next(LineRecordReader.java:209)
        at org.apache.hadoop.mapred.LineRecordReader.next(LineRecordReader.java:47)
        at org.apache.spark.rdd.HadoopRDD$$anon$1.getNext(HadoopRDD.scala:248)
        at org.apache.spark.rdd.HadoopRDD$$anon$1.getNext(HadoopRDD.scala:216)
        at org.apache.spark.util.NextIterator.hasNext(NextIterator.scala:73)
        at org.apache.spark.InterruptibleIterator.hasNext(InterruptibleIterator.scala:39)
        at scala.collection.Iterator$$anon$11.hasNext(Iterator.scala:327)
        at org.apache.spark.util.Utils$.getIteratorSize(Utils.scala:1553)
        at org.apache.spark.rdd.RDD$$anonfun$count$1.apply(RDD.scala:1125)
        at org.apache.spark.rdd.RDD$$anonfun$count$1.apply(RDD.scala:1125)
        at org.apache.spark.SparkContext$$anonfun$runJob$5.apply(SparkContext.scala:1850)
        at org.apache.spark.SparkContext$$anonfun$runJob$5.apply(SparkContext.scala:1850)
        at org.apache.spark.scheduler.ResultTask.runTask(ResultTask.scala:66)
        at org.apache.spark.scheduler.Task.run(Task.scala:88)
        at org.apache.spark.executor.Executor$TaskRunner.run(Executor.scala:214)
        at java.util.concurrent.ThreadPoolExecutor.runWorker(ThreadPoolExecutor.java:1142)
        at java.util.concurrent.ThreadPoolExecutor$Worker.run(ThreadPoolExecutor.java:617)
        at java.lang.Thread.run(Thread.java:745)
Confidentiality Notice:: This email, including attachments, may include non-public, proprietary, confidential or legally privileged information. If you are not an intended recipient or an authorized agent of an intended recipient, you are hereby notified that any dissemination, distribution or copying of the information contained in or transmitted with this e-mail is unauthorized and strictly prohibited. If you have received this email in error, please notify the sender by replying to this message and permanently delete this e-mail, its attachments, and any copies of it immediately. You should not retain, copy or use this e-mail or any attachment for any purpose, nor disclose all or any part of the contents to any other person. Thank you.
Confidentiality Notice:: This email, including attachments, may include non-public, proprietary, confidential or legally privileged information. If you are not an intended recipient or an authorized agent of an intended recipient, you are hereby notified that any dissemination, distribution or copying of the information contained in or transmitted with this e-mail is unauthorized and strictly prohibited. If you have received this email in error, please notify the sender by replying to this message and permanently delete this e-mail, its attachments, and any copies of it immediately. You should not retain, copy or use this e-mail or any attachment for any purpose, nor disclose all or any part of the contents to any other person. Thank you.

Confidentiality Notice::  This email, including attachments, may include non-public, proprietary, confidential or legally privileged information.  If you are not an intended recipient or an authorized agent of an intended recipient, you are hereby notified that any dissemination, distribution or copying of the information contained in or transmitted with this e-mail is unauthorized and strictly prohibited.  If you have received this email in error, please notify the sender by replying to this message and permanently delete this e-mail, its attachments, and any copies of it immediately.  You should not retain, copy or use this e-mail or any attachment for any purpose, nor disclose all or any part of the contents to any other person. Thank you.

RE: try to read multiple bz2 files in s3

Posted by "Lin, Hao" <Ha...@finra.org>.

Hi Robert,

I just use textFile. Here is the simple code:

val fs3File=sc.textFile("s3n://my bucket/myfolder/")
fs3File.count

do you suggest I should use sc.parallelize?

many thanks

From: Robert Collich [mailto:rcollich@gmail.com]
Sent: Monday, February 01, 2016 6:54 PM
To: Lin, Hao; user
Subject: Re: try to read multiple bz2 files in s3

Hi Hao,

Could you please post the corresponding code? Are you using textFile or sc.parallelize?

On Mon, Feb 1, 2016 at 2:36 PM Lin, Hao <Ha...@finra.org>> wrote:
When I tried to read multiple bz2 files from s3, I have the following warning messages. What is the problem here?

16/02/01 22:30:30 WARN TaskSetManager: Lost task 0.0 in stage 0.0 (TID 0, 10.162.67.248): java.lang.ArrayIndexOutOfBoundsException: -1844424343
        at org.apache.hadoop.io.compress.bzip2.CBZip2InputStream.getAndMoveToFrontDecode0(CBZip2InputStream.java:1014)
        at org.apache.hadoop.io.compress.bzip2.CBZip2InputStream.getAndMoveToFrontDecode(CBZip2InputStream.java:829)
        at org.apache.hadoop.io.compress.bzip2.CBZip2InputStream.initBlock(CBZip2InputStream.java:504)
        at org.apache.hadoop.io.compress.bzip2.CBZip2InputStream.changeStateToProcessABlock(CBZip2InputStream.java:333)
        at org.apache.hadoop.io.compress.bzip2.CBZip2InputStream.read(CBZip2InputStream.java:399)
        at org.apache.hadoop.io.compress.BZip2Codec$BZip2CompressionInputStream.read(BZip2Codec.java:483)
        at java.io.InputStream.read(InputStream.java:101)
        at org.apache.hadoop.mapreduce.lib.input.CompressedSplitLineReader.fillBuffer(CompressedSplitLineReader.java:130)
        at org.apache.hadoop.util.LineReader.readDefaultLine(LineReader.java:216)
        at org.apache.hadoop.util.LineReader.readLine(LineReader.java:174)
        at org.apache.hadoop.mapreduce.lib.input.CompressedSplitLineReader.readLine(CompressedSplitLineReader.java:159)
        at org.apache.hadoop.mapred.LineRecordReader.next(LineRecordReader.java:209)
        at org.apache.hadoop.mapred.LineRecordReader.next(LineRecordReader.java:47)
        at org.apache.spark.rdd.HadoopRDD$$anon$1.getNext(HadoopRDD.scala:248)
        at org.apache.spark.rdd.HadoopRDD$$anon$1.getNext(HadoopRDD.scala:216)
        at org.apache.spark.util.NextIterator.hasNext(NextIterator.scala:73)
        at org.apache.spark.InterruptibleIterator.hasNext(InterruptibleIterator.scala:39)
        at scala.collection.Iterator$$anon$11.hasNext(Iterator.scala:327)
        at org.apache.spark.util.Utils$.getIteratorSize(Utils.scala:1553)
        at org.apache.spark.rdd.RDD$$anonfun$count$1.apply(RDD.scala:1125)
        at org.apache.spark.rdd.RDD$$anonfun$count$1.apply(RDD.scala:1125)
        at org.apache.spark.SparkContext$$anonfun$runJob$5.apply(SparkContext.scala:1850)
        at org.apache.spark.SparkContext$$anonfun$runJob$5.apply(SparkContext.scala:1850)
        at org.apache.spark.scheduler.ResultTask.runTask(ResultTask.scala:66)
        at org.apache.spark.scheduler.Task.run(Task.scala:88)
        at org.apache.spark.executor.Executor$TaskRunner.run(Executor.scala:214)
        at java.util.concurrent.ThreadPoolExecutor.runWorker(ThreadPoolExecutor.java:1142)
        at java.util.concurrent.ThreadPoolExecutor$Worker.run(ThreadPoolExecutor.java:617)
        at java.lang.Thread.run(Thread.java:745)
Confidentiality Notice:: This email, including attachments, may include non-public, proprietary, confidential or legally privileged information. If you are not an intended recipient or an authorized agent of an intended recipient, you are hereby notified that any dissemination, distribution or copying of the information contained in or transmitted with this e-mail is unauthorized and strictly prohibited. If you have received this email in error, please notify the sender by replying to this message and permanently delete this e-mail, its attachments, and any copies of it immediately. You should not retain, copy or use this e-mail or any attachment for any purpose, nor disclose all or any part of the contents to any other person. Thank you.

Confidentiality Notice::  This email, including attachments, may include non-public, proprietary, confidential or legally privileged information.  If you are not an intended recipient or an authorized agent of an intended recipient, you are hereby notified that any dissemination, distribution or copying of the information contained in or transmitted with this e-mail is unauthorized and strictly prohibited.  If you have received this email in error, please notify the sender by replying to this message and permanently delete this e-mail, its attachments, and any copies of it immediately.  You should not retain, copy or use this e-mail or any attachment for any purpose, nor disclose all or any part of the contents to any other person. Thank you.

Re: try to read multiple bz2 files in s3

Posted by Robert Collich <rc...@gmail.com>.

Hi Hao,

Could you please post the corresponding code? Are you using textFile or
sc.parallelize?

On Mon, Feb 1, 2016 at 2:36 PM Lin, Hao <Ha...@finra.org> wrote:

> When I tried to read multiple bz2 files from s3, I have the following
> warning messages. What is the problem here?
>
>
>
> 16/02/01 22:30:30 WARN TaskSetManager: Lost task 0.0 in stage 0.0 (TID 0,
> 10.162.67.248): java.lang.ArrayIndexOutOfBoundsException: -1844424343
>
>         at
> org.apache.hadoop.io.compress.bzip2.CBZip2InputStream.getAndMoveToFrontDecode0(CBZip2InputStream.java:1014)
>
>         at
> org.apache.hadoop.io.compress.bzip2.CBZip2InputStream.getAndMoveToFrontDecode(CBZip2InputStream.java:829)
>
>         at
> org.apache.hadoop.io.compress.bzip2.CBZip2InputStream.initBlock(CBZip2InputStream.java:504)
>
>         at
> org.apache.hadoop.io.compress.bzip2.CBZip2InputStream.changeStateToProcessABlock(CBZip2InputStream.java:333)
>
>         at
> org.apache.hadoop.io.compress.bzip2.CBZip2InputStream.read(CBZip2InputStream.java:399)
>
>         at
> org.apache.hadoop.io.compress.BZip2Codec$BZip2CompressionInputStream.read(BZip2Codec.java:483)
>
>         at java.io.InputStream.read(InputStream.java:101)
>
>         at
> org.apache.hadoop.mapreduce.lib.input.CompressedSplitLineReader.fillBuffer(CompressedSplitLineReader.java:130)
>
>         at
> org.apache.hadoop.util.LineReader.readDefaultLine(LineReader.java:216)
>
>         at org.apache.hadoop.util.LineReader.readLine(LineReader.java:174)
>
>         at
> org.apache.hadoop.mapreduce.lib.input.CompressedSplitLineReader.readLine(CompressedSplitLineReader.java:159)
>
>         at
> org.apache.hadoop.mapred.LineRecordReader.next(LineRecordReader.java:209)
>
>         at
> org.apache.hadoop.mapred.LineRecordReader.next(LineRecordReader.java:47)
>
>         at
> org.apache.spark.rdd.HadoopRDD$$anon$1.getNext(HadoopRDD.scala:248)
>
>         at
> org.apache.spark.rdd.HadoopRDD$$anon$1.getNext(HadoopRDD.scala:216)
>
>         at
> org.apache.spark.util.NextIterator.hasNext(NextIterator.scala:73)
>
>         at
> org.apache.spark.InterruptibleIterator.hasNext(InterruptibleIterator.scala:39)
>
>         at scala.collection.Iterator$$anon$11.hasNext(Iterator.scala:327)
>
>         at org.apache.spark.util.Utils$.getIteratorSize(Utils.scala:1553)
>
>         at org.apache.spark.rdd.RDD$$anonfun$count$1.apply(RDD.scala:1125)
>
>         at org.apache.spark.rdd.RDD$$anonfun$count$1.apply(RDD.scala:1125)
>
>         at
> org.apache.spark.SparkContext$$anonfun$runJob$5.apply(SparkContext.scala:1850)
>
>         at
> org.apache.spark.SparkContext$$anonfun$runJob$5.apply(SparkContext.scala:1850)
>
>         at
> org.apache.spark.scheduler.ResultTask.runTask(ResultTask.scala:66)
>
>         at org.apache.spark.scheduler.Task.run(Task.scala:88)
>
>         at
> org.apache.spark.executor.Executor$TaskRunner.run(Executor.scala:214)
>
>         at
> java.util.concurrent.ThreadPoolExecutor.runWorker(ThreadPoolExecutor.java:1142)
>
>         at
> java.util.concurrent.ThreadPoolExecutor$Worker.run(ThreadPoolExecutor.java:617)
>
>         at java.lang.Thread.run(Thread.java:745)
> Confidentiality Notice:: This email, including attachments, may include
> non-public, proprietary, confidential or legally privileged information. If
> you are not an intended recipient or an authorized agent of an intended
> recipient, you are hereby notified that any dissemination, distribution or
> copying of the information contained in or transmitted with this e-mail is
> unauthorized and strictly prohibited. If you have received this email in
> error, please notify the sender by replying to this message and permanently
> delete this e-mail, its attachments, and any copies of it immediately. You
> should not retain, copy or use this e-mail or any attachment for any
> purpose, nor disclose all or any part of the contents to any other person.
> Thank you.
>