process_components_cif separate out functionality to split into individual cif
from discussion with Sameer.
for production want to be able to start processes that just depend on the split PDB-CCD mmcif as soon as possible
so add command line options to process_components cif
option
what
--just_mmcif
does the split into individual mmcif files but no further processing. The --output_dir must be specified with this option.
--apart_from_mmcif
used after --just_mmcif to do the rest of the processing into coordinate files images chem.xml etc. The --output_dir option must be specified with this option. --clean must not be.
--clean
remove any existing output_dir completely
not sure whether this is necessary need to sort out #29#30 first.
