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maunei / bpipe

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Huge memory leak when scaling up #107

Open GoogleCodeExporter opened 8 years ago

GoogleCodeExporter commented 8 years ago 
I am using bpipe 0.9.8.5 to try and align and call several hundred files. My 
bpipe run file has 20 steps and passes jobs to our SGE.

The problem I am having is that a bpipe runs it takes up to 20GB of ram to run 
these several hundred files. Even after terminating bpipe and deleting the SGE 
jobs there is still 20GB of ram taken up by a java process. Is there a known 
memory leak that makes it impossible to scale bpipe up to hundreds of samples? 
Is this memory usage explainable by other causes?

Original issue reported on code.google.com by peter.gr...@gmail.com on 19 Dec 2014 at 4:29