Changed some variable names and values in the Samsara parameter reference file and the location of this file in Capsis.

Corrected the Samsara commandfile creation because we added a new parameter in the cutting algorithm and an option to export an inventory file corresponding to the end of the simulation.

Corrected the RmarkDown because there wer small changes in output variables produced by samsara.

this was caused by the grouping drop on datasets.