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From Todd Lipcon <t...@cloudera.com>
Subject Re: problem with LZO compressor on write only loads
Date Mon, 03 Jan 2011 18:18:53 GMT
Hi Friso,

Which OS are you running? Particularly, which version of glibc?

Can you try running with the environment variable MALLOC_ARENA_MAX=1 set?


On Mon, Jan 3, 2011 at 8:15 AM, Friso van Vollenhoven <
fvanvollenhoven@xebia.com> wrote:

> Hi all,
> I seem to run into a problem that occurs when using LZO compression on a
> heavy write only load. I am using 0.90 RC1 and, thus, the LZO compressor
> code that supports the reinit() method (from Kevin Weil's github, version
> 0.4.8). There are some more Hadoop LZO incarnations, so I am pointing my
> question to this list.
> It looks like the compressor uses direct byte buffers to store the original
> and compressed bytes in memory, so the native code can work with it without
> the JVM having to copy anything around. The direct buffers are possibly
> reused after a reinit() call, but will often be newly created in the init()
> method, because the existing buffer can be the wrong size for reusing. The
> latter case will leave the previously used buffers by the compressor
> instance eligible for garbage collection. I think the problem is that this
> collection never occurs (in time), because the GC does not consider it
> necessary yet. The GC does not know about the native heap and based on the
> state of the JVM heap, there is no reason to finalize these objects yet.
> However, direct byte buffers are only freed in the finalizer, so the native
> heap keeps growing. On write only loads, a full GC will rarely happen,
> because the max heap will not grow far beyond the mem stores (no block cache
> is used). So what happens is that the machine starts using swap before the
> GC will ever clean up the direct byte buffers. I am guessing that without
> the reinit() support, the buffers were collected earlier because the
> referring objects would also be collected every now and then or things would
> perhaps just never promote to an older generation.
> When I do a pmap on a running RS after it has grown to some 40Gb resident
> size (with a 16Gb heap), it will show a lot of near 64M anon blocks
> (presumably native heap). I show this before with the 0.4.6 version of
> Hadoop LZO, but that was under normal load. After that I went back to a
> HBase version that does not require the reinit(). Now I am on 0.90 with the
> new LZO, but never did a heavy load like this one with that, until now...
> Can anyone with a better understanding of the LZO code confirm that the
> above could be the case? If so, would it be possible to change the LZO
> compressor (and decompressor) to use maybe just one fixed size buffer (they
> all appear near 64M anyway) or possibly reuse an existing buffer also when
> it is not the exact required size but just large enough to make do? Having
> short lived direct byte buffers is apparently a discouraged practice. If
> anyone can provide some pointers on what to look out for, I could invest
> some time in creating a patch.
> Thanks,
> Friso

Todd Lipcon
Software Engineer, Cloudera

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