[Biophp-dev] Back on track

S Clark biophp-dev@bioinformatics.org
Sat, 19 Apr 2003 14:53:34 -0600

Thanks, firstly, to Greg Tyrelle for supplying a working parser example.  I 
believe I've "got it" now...

Later today I'll be uploading the working (though minimal and still sloppily
written) ESearch module components to my "point-n-laugh" section.  Following
that, I'll work on getting the XML parser and interface for POST'ing queries
to webservers more properly separated and abstracted out for "semi-official"
release.  Once that's done, the more detailed work to get minimal useful
ESummary and EFetch modules working should not require much additional

After that I'll be getting back to the NCBI Blast interface (which you can
find a more-or-less working unrefined version of in the "point-n-laugh"
section, which is effectively capable of submitting a sequence and parameters
for a sequence query, and more-or-less properly waiting for the results
to come back.  It just doesn't do any PARSING of the results at all...)

A sort of "personal milestone" that I'm aiming for is to be able to put 
together an example "tell me about this sequence" application, which would
examine results of an NCBI Blast query and, using information pulled from
the closest matches that turn up, report things like probable taxonomic
classification, type of sequence, and pointers to likely-related pubmed
articles, and so on.  

As always, comments and suggestions are welcome.  Thanks.