Refactored FindEigen.cmake to adhere to cmake guidelines
Adapted master CMakeLists.txt to changes in find modules

Substitutes DEBIAN_STYLE_LIBEXEC flag and manages location and name of lib and libexec folders on Debian/Ubuntu-based systems

fix master CMakeLists.txt to only add -Wno-attributes for newer compilers (not all older compilers have that option)

added skeleton for Linux deployment with CPack

added CPack configuration to create complete bundle dmg on OSX with "make package"

relative paths

RuleBased conop is an experimental new interface for processing
structures in the conop module. The class exposes a single method
Process with takes care of the complete conop procedure. There are
still a few methods missing, they will be added shortly.

The Transform class was moved from the mol module to the geom module. A typedef
was put into the mol namespace in C++, and a similar alias was put into the
mol python module, with an added deprecation warning.

folder because it breaks the make clean command

added cmake option to set hidden visibility for gcc compiles; fixed several missing visibility declarations

Fixes BZDNG-385

Mainly Marco's work

to check for breaking of the in_sequence property.
Added an SetInSequence() function to the ChainHandle to check and update
the in_sequence property