new elementsdb-switch and command line options parsing parts moved around to accomodate.
New switch (just sets a variable) made some moving around necessary. Elements db cannot be parsed right at the start anymore, neither the config file before the command line switches. Hence, the following is now in operation:
- first parse through all options for stuff just setting variables, giving help et al
- parse elements db
- parse config file if present
- parse again through options for those that actually operate on a given configuration or add atoms (parsing xyz) ...
This was necessary, as 'make check' could not be made workable otherwise and its "bad behaviour" if the code assumes the elements.db to be in the same dir as the exe.
