[Biopython-dev] Local blast problem

Sarah Kummerfeld sarah at staff.cs.usyd.edu.au
Tue Sep 11 00:46:17 EDT 2001


Just wondering whether anyone know about an intermittent
problem with locally run blast. 

I'm running lots of blast searches on a very small
database. It will work for a while, or sometimes for
the whole program. But other times it will core dump.

Occasionally I get a python traceback which suggests
that it tried to read a stream that was not there,
but other times there is no error, it just dumps

If I run blast on its own (not from my python program)
it sometimes does the same thing. One time I rebooted
my machine (linux) and found that a blast search I had
run just before and that had crashed, now worked. 

I couldn't find anything helpful in the core file.

I had thought it might be some new memory I put in,
so I had it replaced -- but still have the problem.

Any suggestions would be greatly appreciated!


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