[Biopython-dev] [blast-announce] BLAST 2.2.22 now available

[Peter]

On Wed, Nov 4, 2009 at 5:40 PM, Peter <peter at maubp.freeserve.co.uk> wrote:
> On Tue, Oct 20, 2009 at 11:56 AM, Peter <peter at maubp.freeserve.co.uk> wrote:
>> Hi all,
>>
>> The new NCBI BLAST tools are out now, and I'd only just updated
>> my desktop to BLAST 2.2.21 this morning!
>>
>> It looks like the "old style" blastall etc (which are written in C) are
>> much the same, but we will need to add Bio.Blast.Applications
>> wrappers for the new "BLAST+" tools (written in C++).
>
> The bulk of that work is done in the main repository now.
>
> However, we still need to go through all the tools and confirm
> all their arguments are included. This could be partly automated
> since the BLAST help output is nicely formatted...

Done - with a basic unit test which confirms the list of arguments the
NCBI tools report via -help matches those we handle via the wrapper.

We still need to clarify how the -soft_masking and -use_index options
should work (i.e. do that take an argument or not), but otherwise the
wrapper code should be fit for testing (and we can update the tutorial).

Peter