[Biopython-dev] curious error from HMM unit test

Peter biopython at maubp.freeserve.co.uk
Thu Jan 20 12:04:23 UTC 2011

On Mon, Jan 17, 2011 at 4:37 PM, Peter <biopython at maubp.freeserve.co.uk> wrote:
> On Mon, Jan 17, 2011 at 4:17 PM, Eric Talevich <eric.talevich at gmail.com> wrote:
>> It could have been an exotic bug in Jython (or its interactions with the
>> JVM) where the JIT or garbage collector is removing local variables too
>> early. I don't see how you could provide a "fix" for it in Biopython, since
>> k definitely exists at that point in the loop in any valid Python and Jython
>> almost always handles it correctly.
> Good point - maybe that is the most likely explanation.

It has happened again on the same install of Jython 2.5.2rc3 on 64bit Linux,
previously on build 6, now on build 12:


Again, repeating the build made the error go away - but the load on the
machine would have been different etc.


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