I'm writing the detailed description of a computer implemented system that involves a lot of steps that I describe using flowcharts at various levels of abstraction. If I was writing the documentation for this system I would be using headings for the higher level of abstraction steps, and subheadings for the various substeps involved in the implementation so that this structure helps with understanding. However, in a patent description I wonder if all these headings and subheading are going to be interpreted as limitations. The inventive subject is not on all the step, I just add all the steps to make sure I have sufficient disclosure. Probably I'll claim some of the main steps which would correspond to headings, but I don't think I'll claim every substep.
Any opinions on this?