[Biopython-dev] [Biopython] Upcoming NCBI BLAST XML2 format

Peter Cock p.j.a.cock at googlemail.com
Wed May 6 14:49:55 UTC 2015

On Wed, May 6, 2015 at 3:22 PM, Martin Mokrejs
<mmokrejs at fold.natur.cuni.cz> wrote:
> Hi,
>   are you aware of new changes in BLAST's XML format? Time for feedback
> before it emerges. ;-)
> ftp://ftp.ncbi.nlm.nih.gov/blast/documents/NEWXML/xml2.pdf
> Martin

Yes, but thanks for double checking:


I'm a little nervous about the idea that BLAST+ will not provide single
(large) XML files for multiple-query searches, and instead appears to
be going to produce one file per query and a manifest xinclude file.

This sounds problematic for things like parsing via stdout.

What have you noticed?


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