[Biopython-dev] [Bug 3043] test_NCBI_BLAST_tools fails

[bugzilla-daemon at portal.open-bio.org]

http://bugzilla.open-bio.org/show_bug.cgi?id=3043





------- Comment #6 from biopython-bugzilla at maubp.freeserve.co.uk  2010-05-07 07:15 EST -------
Michiel,

Could you run this test using the latest code?

I've added a hack to ignore the three "extra" arguments, -remote_verbose,
-use_test_remote_service, and -verbose so it should work. We can probably
then comment this out for general usage because...

I've also added a few real tests using the pairwise search functionality in
BLAST+ where you can search a FASTA file of queries against a FASTA file of
subjects -- without having to setup a BLAST database first. This is rather
nice. However the tool will not output XML in this mode, and it seems right
now we can't parse the plain text output. Tabular output should be fine.

Peter


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