<h1 id="possible-java-ports-of-algorithms">Possible Java ports of Algorithms</h1>

<p>We would be interested in having Java ports of the following algorithms:</p>

<p><code class="highlighter-rouge">- Blast</code><br />

<code class="highlighter-rouge">- Hmmer3</code><br />

<code class="highlighter-rouge">- Dssp (some parts already available)</code></p>

<h3 id="couple-of-tools-that-might-be-useful-for-porting-to-java">Couple of tools that might be useful for porting to Java</h3>

<p>This software is available for $119 with a 15 day return.

<a href="http://www.tangiblesoftwaresolutions.com/Product_Details/CPlusPlus_to_Java_Converter_Details.html">http://www.tangiblesoftwaresolutions.com/Product_Details/CPlusPlus_to_Java_Converter_Details.html</a>

It won’t do perfect code but will get you close.</p>

<p>This is also an interesting approach <a href="http://code.google.com/p/cibyl/">http://code.google.com/p/cibyl/</a>

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.</p>

<p>I have used this before and works reasonably well.

<a href="http://tech.novosoft-us.com/product_c2j.jsp">http://tech.novosoft-us.com/product_c2j.jsp</a> You get a Jar file that

maps all the ansi C libraries.</p>