Consistency between initialisation and waveform parameters

The initialisation module defines flags to control the activation of additional parameters outside the basic set (masses).

The waveform wrapper module should consistently use these flags to regulate the parameters usage.

Read the initialization module and waveform wrapper module to identify the flags for additional parameters and compare how each module applies them. Trace the parameter flow from initialization into the wrapper; done means both modules consistently use the flags to control parameters beyond masses.

Written by the indexing model from the issue text.