=Possible Java ports of Algorithms=

We would be interested in having Java ports of the following algorithms:

 - Blast
 - Hmmer3
 - Dssp (some parts already available)


=== Couple of tools that might be useful for porting to Java ===

This software is available for $119 with a 15 day return.
http://www.tangiblesoftwaresolutions.com/Product_Details/CPlusPlus_to_Java_Converter_Details.html
It won't do perfect code but will get you close.

This is also an interesting approach http://code.google.com/p/cibyl/ where
I can't imagine would work in a I/O or computationally intensive
application. Converting ASM to Bytecode takes out all the parsing
headaches. The JIT should still be able to take over and optimize.

I have used this before and works reasonably well.
http://tech.novosoft-us.com/product_c2j.jsp You get a Jar file that maps
all the ansi C libraries.