[Bioperl-l] Bio::Tools::Run::RemoteBlast.pm

[Jason Stajich]

Pure perl implementation via HTTP for submitting and retrieving jobs from
NCBI blast queue.  Had to strip HTML tags from report -- did not do a
complete job there, but enough to make Bio::Tools::BPlite happy.  This has
not been tested with the alternative blast parser Bio::Tools::Blast.  
Some more work needs to be done to be smarted about how retrieval is done,
improve HTML stripping (perhaps that could go into BPlite to make it more
flexible).  Perhaps this is something someone else wants to jump in and
help on.  Turn verbose to 1 in the RemoteBlast.t if you want to see
debugging output.

Thanks go to Mike Reith for the original script which I adapted for
bioperl.

(main trunk only)

Jason Stajich
jason@chg.mc.duke.edu
Center for Human Genetics
Duke University Medical Center 
http://www.chg.duke.edu/