Genetic Algorithms

So I’ve been trying to play around with this program called “Fragmenter2.java,” which is located on sylow at /home/mattv/Summer08/utils/split, but can’t get it to run once I compile it. It requires a CDK package and in order to compile it I had to type sudo javac -cp cdk-1.-0.3.jar Fragmenter2.java. That spat out a few warnings about unchecked or unsafe operations but it compiled successfully. When trying to run it though I get an error that seems like some source file, etc. is missing. To run it, I typed sudo java -cp cdk-1.-0.3.jar Fragmenter2. Can someone take a look at it to see what is going on? I’m not the greatest when it comes to Java. This seems like a good program for splitting molecules. However, it doesn’t split rings – maybe we can modify that part of it? It doesn’t seem too hard to modify… the code is well-documented. This might help: http://cheminfo.informatics.indiana.edu/~rguha/code/java/#frags

-Chris

PS – Sylow is back up