All java programming has been completed in the Eclipse environment.

Firstly, the pdbweb, pdbinabox, and pdbormapping packages were checked out of the pdb SVN by following instructions at http://wiki.rcsb.org/display/dev/How+to+check+out+PDB-web+via+SVN

A package was then created in the pdbweb package, inside the src package, named pDomains - and all java code used was developed in this package.

This way, classes and libraries used by the pdb can be used in the project and avoid the need for any repeated writing of functions