fix some minor inconsistencies in the naming of a few guc variables
add deprecations
Merge pull request #364 from rvianello/fix_guc_parameter_names

fix some minor inconsistencies in the naming of a few guc variables
Option prealigned added to GetConformerRMSMatrix
Fix reaction regression test of the cartridge
Merge pull request #366 from NadineSchneider/master

Fix reaction regression test of the cartridge
Merge pull request #365 from sriniker/master

Option "prealigned" added to GetConformerRMSMatrix
final(?) update before release
move onto the next release tags