enabling calculation of symmetry on the fly
Changes to accommodate Mac and new BioJava.
Merge branch 'master' of github.com:rcsb/symmetry

Conflicts:
	pom.xml
Merge branch 'master' of https://github.com/pwrose/symmetry
making things work with latest BioJava SNAPSHOT
added support for on the fly bioassemblies in the symmetry modules
increased version number
Updated to use mmcif files instead of pdb files
Removed debug output
Commented out error message: Error: SuperPosition.superposeAtOrigin: axis vector undefined!
Adding CESymmParameters

Moved several parameters out of CeSymm and into the new class,
which allows them to be user-configurable and matches existing
StructureAlignment conventions
Change CESymmParameters to inherit from CECPParameters (#42)

This changes a number of results due to the change in default
maxGapSize (was 30, now 0).