Do you increase zookeeper max session timeout to handle region server GC pauses? - Hortonworks
Increasing the zookeeper session timeout is often a quick first fix to GC pause "killing" in Hbase. In the longer run If you have GC pauses is because your process is trying to find memory.
There can be architectural approaches to this problem: For example does this happen during heavy writes loads in which case you consider doing bulk load when possible.
You can also look at your hbase configuration what is your overall allocated memory for Hbase and how is distributed for writes and reads. Do you flush your memstore often, does this lead to many compactions?
Lastly you can look at GC tuning. I won't dive into this one but Lars has done a nice introduction blog post on this here:http://hadoop-hbase.blogspot.ie/2014/03/hbase-gc-tuning-observations.html
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