Improved configuration and identification.

[FrederikSchaff]

This is more a memo than a concrete rfc.

Instead of using difficult command line options, add support for advanced configuration files (e.g. YAML). Something like providing the input design matrix and a configuration file. In addition, adding an option to track the unique id's of any configuration generated. This could, e.g., be done by holding all configurations in the same file and, based on the size of each set (information is automatically added by the python script) the range of consecutive ids is saved and thus fixed.

This would also allow to regenerate a specific single configuration from just the id.