Fix "Argument names in code not in docs", for: edge.lwd dLeaf_left dLeaf_right main sub rank_branches hang match_order_by_labels cex_main cex_main_left cex_main_right cex_sub
Fix "'library' or 'require' call not declared from: 'ape'" by commenting-off every "require(ape)" command in the code, since it is already mentioned in imports!
      (see: http://stackoverflow.com/questions/15648772/how-do-i-prevent-r-library-or-require-calls-not-declared-warnings-when-dev)
      The problem still persists because of .onLoad in zzz.r, but we'll look into this later...
Fix "Undocumented arguments in documentation object" for:
      * 'bakers_gamma_for_2_k_matrix'
      * 'cor_bakers_gamma'
      * 'cut_lower_fun'