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GC overhead limit reached when tasktrackers start
Saptarshi Guha 2009-11-30, 16:53
Hello,
While trying to start the task tracker I get the following error in
the logs (see below).
I'm guessing its trying to clean up an aborted job( a badly coded one)
and too many files to clean up.
Does anyone know which directory its looking into so that I manually
clean it up?
Regards
S
==Error=
2009-11-30 11:39:47,989 ERROR org.apache.hadoop.mapred.TaskTracker:
Can not start task tracker because java.lang.OutOfMemoryError: GC
overhead limit exceeded
at java.util.Arrays.copyOf(Arrays.java:2882)
at java.lang.AbstractStringBuilder.expandCapacity(AbstractStringBuilder.java:100)
at java.lang.AbstractStringBuilder.append(AbstractStringBuilder.java:572)
at java.lang.StringBuilder.append(StringBuilder.java:203)
at java.io.UnixFileSystem.resolve(UnixFileSystem.java:93)
at java.io.File.<init>(File.java:207)
at java.io.File.listFiles(File.java:1056)
at org.apache.hadoop.fs.FileUtil.fullyDelete(FileUtil.java:73)
at org.apache.hadoop.fs.FileUtil.fullyDelete(FileUtil.java:91)
at org.apache.hadoop.fs.FileUtil.fullyDelete(FileUtil.java:91)
at org.apache.hadoop.fs.FileUtil.fullyDelete(FileUtil.java:91)
at org.apache.hadoop.fs.FileUtil.fullyDelete(FileUtil.java:91)
at org.apache.hadoop.fs.FileUtil.fullyDelete(FileUtil.java:91)
at org.apache.hadoop.fs.RawLocalFileSystem.delete(RawLocalFileSystem.java:269)
at org.apache.hadoop.fs.ChecksumFileSystem.delete(ChecksumFileSystem.java:438)
at org.apache.hadoop.fs.FilterFileSystem.delete(FilterFileSystem.java:143)
at org.apache.hadoop.mapred.JobConf.deleteLocalFiles(JobConf.java:270)
at org.apache.hadoop.mapred.TaskTracker.initialize(TaskTracker.java:441)
at org.apache.hadoop.mapred.TaskTracker.<init>(TaskTracker.java:934)
at org.apache.hadoop.mapred.TaskTracker.main(TaskTracker.java:2833)
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Re: GC overhead limit reached when tasktrackers start
Bill Au 2009-11-30, 17:40
Your JVM is running out of heap space so you will need to run it with a
bigger max heap size.
Bill
On Mon, Nov 30, 2009 at 11:53 AM, Saptarshi Guha
<[EMAIL PROTECTED]>wrote:
> Hello,
> While trying to start the task tracker I get the following error in
> the logs (see below).
> I'm guessing its trying to clean up an aborted job( a badly coded one)
> and too many files to clean up.
>
> Does anyone know which directory its looking into so that I manually
> clean it up?
> Regards
> S
>
> ==Error=>
> 2009-11-30 11:39:47,989 ERROR org.apache.hadoop.mapred.TaskTracker:
> Can not start task tracker because java.lang.OutOfMemoryError: GC
> overhead limit exceeded
> at java.util.Arrays.copyOf(Arrays.java:2882)
> at
> java.lang.AbstractStringBuilder.expandCapacity(AbstractStringBuilder.java:100)
> at
> java.lang.AbstractStringBuilder.append(AbstractStringBuilder.java:572)
> at java.lang.StringBuilder.append(StringBuilder.java:203)
> at java.io.UnixFileSystem.resolve(UnixFileSystem.java:93)
> at java.io.File.<init>(File.java:207)
> at java.io.File.listFiles(File.java:1056)
> at org.apache.hadoop.fs.FileUtil.fullyDelete(FileUtil.java:73)
> at org.apache.hadoop.fs.FileUtil.fullyDelete(FileUtil.java:91)
> at org.apache.hadoop.fs.FileUtil.fullyDelete(FileUtil.java:91)
> at org.apache.hadoop.fs.FileUtil.fullyDelete(FileUtil.java:91)
> at org.apache.hadoop.fs.FileUtil.fullyDelete(FileUtil.java:91)
> at org.apache.hadoop.fs.FileUtil.fullyDelete(FileUtil.java:91)
> at
> org.apache.hadoop.fs.RawLocalFileSystem.delete(RawLocalFileSystem.java:269)
> at
> org.apache.hadoop.fs.ChecksumFileSystem.delete(ChecksumFileSystem.java:438)
> at
> org.apache.hadoop.fs.FilterFileSystem.delete(FilterFileSystem.java:143)
> at
> org.apache.hadoop.mapred.JobConf.deleteLocalFiles(JobConf.java:270)
> at
> org.apache.hadoop.mapred.TaskTracker.initialize(TaskTracker.java:441)
> at org.apache.hadoop.mapred.TaskTracker.<init>(TaskTracker.java:934)
> at org.apache.hadoop.mapred.TaskTracker.main(TaskTracker.java:2833)
>
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Re: GC overhead limit reached when tasktrackers start
Todd Lipcon 2009-11-30, 17:48
That looks like the gc time overhead limit, not an actual out of memory
error.
It's probably trying to rm -rf the mapred.local.dir contents. If your TT is
stopped, feel free to remove everything from in there and try to start
again.
-Todd
On Mon, Nov 30, 2009 at 9:40 AM, Bill Au <[EMAIL PROTECTED]> wrote:
> Your JVM is running out of heap space so you will need to run it with a
> bigger max heap size.
>
> Bill
>
> On Mon, Nov 30, 2009 at 11:53 AM, Saptarshi Guha
> <[EMAIL PROTECTED]>wrote:
>
> > Hello,
> > While trying to start the task tracker I get the following error in
> > the logs (see below).
> > I'm guessing its trying to clean up an aborted job( a badly coded one)
> > and too many files to clean up.
> >
> > Does anyone know which directory its looking into so that I manually
> > clean it up?
> > Regards
> > S
> >
> > ==Error=> >
> > 2009-11-30 11:39:47,989 ERROR org.apache.hadoop.mapred.TaskTracker:
> > Can not start task tracker because java.lang.OutOfMemoryError: GC
> > overhead limit exceeded
> > at java.util.Arrays.copyOf(Arrays.java:2882)
> > at
> >
> java.lang.AbstractStringBuilder.expandCapacity(AbstractStringBuilder.java:100)
> > at
> > java.lang.AbstractStringBuilder.append(AbstractStringBuilder.java:572)
> > at java.lang.StringBuilder.append(StringBuilder.java:203)
> > at java.io.UnixFileSystem.resolve(UnixFileSystem.java:93)
> > at java.io.File.<init>(File.java:207)
> > at java.io.File.listFiles(File.java:1056)
> > at org.apache.hadoop.fs.FileUtil.fullyDelete(FileUtil.java:73)
> > at org.apache.hadoop.fs.FileUtil.fullyDelete(FileUtil.java:91)
> > at org.apache.hadoop.fs.FileUtil.fullyDelete(FileUtil.java:91)
> > at org.apache.hadoop.fs.FileUtil.fullyDelete(FileUtil.java:91)
> > at org.apache.hadoop.fs.FileUtil.fullyDelete(FileUtil.java:91)
> > at org.apache.hadoop.fs.FileUtil.fullyDelete(FileUtil.java:91)
> > at
> >
> org.apache.hadoop.fs.RawLocalFileSystem.delete(RawLocalFileSystem.java:269)
> > at
> >
> org.apache.hadoop.fs.ChecksumFileSystem.delete(ChecksumFileSystem.java:438)
> > at
> > org.apache.hadoop.fs.FilterFileSystem.delete(FilterFileSystem.java:143)
> > at
> > org.apache.hadoop.mapred.JobConf.deleteLocalFiles(JobConf.java:270)
> > at
> > org.apache.hadoop.mapred.TaskTracker.initialize(TaskTracker.java:441)
> > at
> org.apache.hadoop.mapred.TaskTracker.<init>(TaskTracker.java:934)
> > at
> org.apache.hadoop.mapred.TaskTracker.main(TaskTracker.java:2833)
> >
>
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Re: GC overhead limit reached when tasktrackers start
Bill Au 2009-11-30, 18:04
The gc overhead limit exceeded error is caused by the heap being almost out
of space. The JVM is spending more than 98% of the total time garbage
collection and less than 2% of the heap is recovered,
Bill
On Mon, Nov 30, 2009 at 12:48 PM, Todd Lipcon <[EMAIL PROTECTED]> wrote:
> That looks like the gc time overhead limit, not an actual out of memory
> error.
>
> It's probably trying to rm -rf the mapred.local.dir contents. If your TT is
> stopped, feel free to remove everything from in there and try to start
> again.
>
> -Todd
>
> On Mon, Nov 30, 2009 at 9:40 AM, Bill Au <[EMAIL PROTECTED]> wrote:
>
> > Your JVM is running out of heap space so you will need to run it with a
> > bigger max heap size.
> >
> > Bill
> >
> > On Mon, Nov 30, 2009 at 11:53 AM, Saptarshi Guha
> > <[EMAIL PROTECTED]>wrote:
> >
> > > Hello,
> > > While trying to start the task tracker I get the following error in
> > > the logs (see below).
> > > I'm guessing its trying to clean up an aborted job( a badly coded one)
> > > and too many files to clean up.
> > >
> > > Does anyone know which directory its looking into so that I manually
> > > clean it up?
> > > Regards
> > > S
> > >
> > > ==Error=> > >
> > > 2009-11-30 11:39:47,989 ERROR org.apache.hadoop.mapred.TaskTracker:
> > > Can not start task tracker because java.lang.OutOfMemoryError: GC
> > > overhead limit exceeded
> > > at java.util.Arrays.copyOf(Arrays.java:2882)
> > > at
> > >
> >
> java.lang.AbstractStringBuilder.expandCapacity(AbstractStringBuilder.java:100)
> > > at
> > > java.lang.AbstractStringBuilder.append(AbstractStringBuilder.java:572)
> > > at java.lang.StringBuilder.append(StringBuilder.java:203)
> > > at java.io.UnixFileSystem.resolve(UnixFileSystem.java:93)
> > > at java.io.File.<init>(File.java:207)
> > > at java.io.File.listFiles(File.java:1056)
> > > at org.apache.hadoop.fs.FileUtil.fullyDelete(FileUtil.java:73)
> > > at org.apache.hadoop.fs.FileUtil.fullyDelete(FileUtil.java:91)
> > > at org.apache.hadoop.fs.FileUtil.fullyDelete(FileUtil.java:91)
> > > at org.apache.hadoop.fs.FileUtil.fullyDelete(FileUtil.java:91)
> > > at org.apache.hadoop.fs.FileUtil.fullyDelete(FileUtil.java:91)
> > > at org.apache.hadoop.fs.FileUtil.fullyDelete(FileUtil.java:91)
> > > at
> > >
> >
> org.apache.hadoop.fs.RawLocalFileSystem.delete(RawLocalFileSystem.java:269)
> > > at
> > >
> >
> org.apache.hadoop.fs.ChecksumFileSystem.delete(ChecksumFileSystem.java:438)
> > > at
> > > org.apache.hadoop.fs.FilterFileSystem.delete(FilterFileSystem.java:143)
> > > at
> > > org.apache.hadoop.mapred.JobConf.deleteLocalFiles(JobConf.java:270)
> > > at
> > > org.apache.hadoop.mapred.TaskTracker.initialize(TaskTracker.java:441)
> > > at
> > org.apache.hadoop.mapred.TaskTracker.<init>(TaskTracker.java:934)
> > > at
> > org.apache.hadoop.mapred.TaskTracker.main(TaskTracker.java:2833)
> > >
> >
>
-
Re: GC overhead limit reached when tasktrackers start
Saptarshi Guha 2009-11-30, 21:32
Yes, this is it, because the TT's were running fine before the bad job.
I cleared the directory(which took forever) and it worked
Thanks
Saptarshi
On Mon, Nov 30, 2009 at 12:48 PM, Todd Lipcon <[EMAIL PROTECTED]> wrote:
> That looks like the gc time overhead limit, not an actual out of memory
> error.
>
> It's probably trying to rm -rf the mapred.local.dir contents. If your TT is
> stopped, feel free to remove everything from in there and try to start
> again.
>
> -Todd
>
> On Mon, Nov 30, 2009 at 9:40 AM, Bill Au <[EMAIL PROTECTED]> wrote:
>>
>> Your JVM is running out of heap space so you will need to run it with a
>> bigger max heap size.
>>
>> Bill
>>
>> On Mon, Nov 30, 2009 at 11:53 AM, Saptarshi Guha
>> <[EMAIL PROTECTED]>wrote:
>>
>> > Hello,
>> > While trying to start the task tracker I get the following error in
>> > the logs (see below).
>> > I'm guessing its trying to clean up an aborted job( a badly coded one)
>> > and too many files to clean up.
>> >
>> > Does anyone know which directory its looking into so that I manually
>> > clean it up?
>> > Regards
>> > S
>> >
>> > ==Error=>> >
>> > 2009-11-30 11:39:47,989 ERROR org.apache.hadoop.mapred.TaskTracker:
>> > Can not start task tracker because java.lang.OutOfMemoryError: GC
>> > overhead limit exceeded
>> > at java.util.Arrays.copyOf(Arrays.java:2882)
>> > at
>> >
>> > java.lang.AbstractStringBuilder.expandCapacity(AbstractStringBuilder.java:100)
>> > at
>> > java.lang.AbstractStringBuilder.append(AbstractStringBuilder.java:572)
>> > at java.lang.StringBuilder.append(StringBuilder.java:203)
>> > at java.io.UnixFileSystem.resolve(UnixFileSystem.java:93)
>> > at java.io.File.<init>(File.java:207)
>> > at java.io.File.listFiles(File.java:1056)
>> > at org.apache.hadoop.fs.FileUtil.fullyDelete(FileUtil.java:73)
>> > at org.apache.hadoop.fs.FileUtil.fullyDelete(FileUtil.java:91)
>> > at org.apache.hadoop.fs.FileUtil.fullyDelete(FileUtil.java:91)
>> > at org.apache.hadoop.fs.FileUtil.fullyDelete(FileUtil.java:91)
>> > at org.apache.hadoop.fs.FileUtil.fullyDelete(FileUtil.java:91)
>> > at org.apache.hadoop.fs.FileUtil.fullyDelete(FileUtil.java:91)
>> > at
>> >
>> > org.apache.hadoop.fs.RawLocalFileSystem.delete(RawLocalFileSystem.java:269)
>> > at
>> >
>> > org.apache.hadoop.fs.ChecksumFileSystem.delete(ChecksumFileSystem.java:438)
>> > at
>> > org.apache.hadoop.fs.FilterFileSystem.delete(FilterFileSystem.java:143)
>> > at
>> > org.apache.hadoop.mapred.JobConf.deleteLocalFiles(JobConf.java:270)
>> > at
>> > org.apache.hadoop.mapred.TaskTracker.initialize(TaskTracker.java:441)
>> > at
>> > org.apache.hadoop.mapred.TaskTracker.<init>(TaskTracker.java:934)
>> > at
>> > org.apache.hadoop.mapred.TaskTracker.main(TaskTracker.java:2833)
>> >
>
>
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