[Biojava-l] Running apps with Java

[Phillip Lord]

>>>>> "Tom" == Tom Oinn <tmo at ebi.ac.uk> writes:

  Tom> Isn't this what the ACD files in EMBOSS are doing? Perhaps not
  Tom> reinventing the wheel would be good? Admittedly ACD is not the
  Tom> most parsable file format to work with, but we have an XML
  Tom> dialect of it which is (part of Martin's Soaplab).


  Tom> Martin - is the XML schema available somewhere? I can't find it
  Tom> from the webpage...


  Tom> Tom

  Tom> Patrick McConnell wrote:
  >> For maximum flexibility and ease of use, I think describing the
  >> parameters

  >> in an external (editable) file would be preferrable.  I do not
  >> think it would be too hard to come up with an XML schema for
  >> describing how programs should be run.  Something like: <program>


PISE also does this. http://www.pasteur.fr/recherche/unites/sis/Pise/

Phil