[Biopython-dev] Plain text BLAST parser updated

Peter biopython at maubp.freeserve.co.uk
Tue Oct 20 10:47:29 UTC 2009

Hi all,

Just to let you know I've been doing a little work on the NCBI plain
text parser, and got it to work on multiquery output from recent
versions of BLAST (Bug 2090).


I would not describe the changes as elegant, but the plain text parser
has evolved over time to cope with more and more NCBI variations, so
some ugliness is perhaps to be expected.

If there are any regressions, please report them and we can extend the
test suite. Likewise, if you have an recent plain text BLAST files
which didn't work and still don't work - get in touch, it may be easy
to fix.

[I'd still encourage everyone to use the XML output by default, but
there are times when the plain text is the only or best option.]


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