Fixes to Substitution_O family

CsJ-OneDe had repeat groups.

Deleted some duplicate entries: CsJ-OneDeOsCs, CsJ-OneDeOOss, CsJ-OneDeOsOs

Fixes to O2b and C2b to become children of their parents.

Removed O_rad from groups since it is a duplicate of OsJ, a child of OJ
Fixes to intra_H_migration family

Fixes to Cs_H_out_H/CO, Cs_H_out_H/CS, Cs_H_out_H/Ct, Cs_H_out_H/Cd to
be children of their parent Cs_H_out_H/OneDe

Replacing Cs_H_out_H/OneDe definition in rules with one from groups

Replacing R3H_SS_S definition in rules with one from groups