jchang at jeffchang.com
Thu Sep 4 02:46:38 EDT 2003
On Wednesday, September 3, 2003, at 09:14 PM, kim750 at ggbio.com wrote:
> This is Yeon-Ki.
> When I run local_blast.py in the biopython package, I have an error
> message like this:
[... traceback cut]
The "Unexpected end of stream" exception happens when the parser is
looking for a line in a file, and it can't find it before the file
ends. Either there's a bug in the parser, or there is an error in the
> I modified instances for path name as abosolute one because all the
> datafiles are sprayed through the directories. For ex, my_blast_db =
> os.path.join(absolute path).
This code doesn't look quite right. os.path.join joins bits of a path
together to form a complete path for a file. Are you sure that this is
generating a correct filename, and the filename it creates is the name
of the BLAST format file, and not another file? If the file that it
creates is not a BLAST format file, it could very well be reading the
wrong file and cause the error.
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