PDB2PKA: Fixed how hydrogens are added for state changes in some cases.
pdb2pka now writes all output of a specified directory
Fixed generated apbs input file name
Renamed temp output folder to 'workspace'
Renamed pka scripts to reflect what to use now.
Added --resume option, output respects --verbose, cleaned up interface, added PKA specific exception.
Added DEBUG option to compile scripts.
Fixed error message for exceeding MAXATOMS on server
Merge branch 'monson-dev' of https://github.com/Electrostatics/apbs-pdb2pqr into monson-dev
Merge branch 'monson-dev' of https://github.com/Electrostatics/apbs-pdb2pqr into monson-dev
Fixed typo and crash while running extentions with --clean in some cases.
Minor code cleanup.
Fixed handling of unrecognized residues.
Fixed executable name in spec file.
Added first Henderson Hasselbalch detection unit test
Merge branch 'monson-dev' of https://github.com/Electrostatics/apbs-pdb2pqr into monson-dev
Fixed flipped acid/base in Henderson-Hansselbalch detection.
removed scons to prep for update
Update scons to 2.3.2
Fixed Algorithms to compile cross platform.