[Biojava-l] BLAST/Java interface

[nathan whitehouse]

Hello people at BioJava,

  I'm modifying an existing Java applet-servlet used
by this lab. 

  People want us to add BLAST to this applet.
  
  Anybody know of a good way to do this?

   Are there convenient BLAST libraries to call from
the servlet?  We've talked about calling a C or C++
library using the JNI.  I've looked around and it
seems that there's no modularized BLAST lying around
that would make this easy.  
  The simple way to do it is just call BLASTAll from
the shell with its arguments.  But this is a hack; I
want to know if there is a better way to pass objects
in and out of BLAST.

  Thanks!
  Nathan

  Nathan Whitehouse
  Shaulsky Lab
  Baylor College of Medicine
  Houston, Texas, USA 

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