keys.add("atoms-1","ATOMS","The list of atoms which can be part of a hydrogen bond. When this command is used the set of atoms that can donate a "
keys.add("atoms","ATOMS","The list of atoms which can be part of a hydrogen bond. When this command is used the set of atoms that can donate a "
"hydrogen bond is assumed to be the same as the set of atoms that can form hydrogen bonds. The atoms involved must be specified"
"as a list of labels of \\ref mcolv or labels of a \\ref multicolvarfunction actions. If you would just like to use "
"the atomic positions you can use a \\ref DENSITY command to specify a group of atoms. Specifying your atomic positions using labels of "
"other \\ref mcolv or \\ref multicolvarfunction commands is useful, however, as you can then exploit a much wider "
"variety of functions of the contact matrix as described in \\ref contactmatrix");
keys.add("atoms","HYDROGENS","The list of hydrogen atoms that can form part of a hydrogen bond. The atoms must be specified using a comma separated list, "
"an index range or by using a \\ref GROUP. A list of hydrogen atoms is always required even if you specify the other atoms using "
"DONORS and ACCEPTORS as described below.");
keys.add("atoms-2","DONORS","The list of atoms which can donate a hydrogen bond. The atoms involved must be specified "
"as a list of labels of \\ref mcolv or labels of a \\ref multicolvarfunction actions. If you would just like to use "
"the atomic positions you can use a \\ref DENSITY command to specify a group of atoms. Specifying your atomic positions using labels of "
"the atomic positions you can use a \\ref DENSITY command to specify a group of atoms. Specifying your atomic positions using labels of "
"other \\ref mcolv or \\ref multicolvarfunction commands is useful, however, as you can then exploit a much wider "
"variety of functions of the contact matrix as described in \\ref contactmatrix");
keys.add("atoms","HYDROGENS","The list of hydrogen atoms that can form part of a hydrogen bond. The atoms must be specified using a comma separated list, "
"an index range or by using a \\ref GROUP");
keys.add("numbered","SWITCH","The \\ref switchingfunction that specifies how close a pair of atoms must be together for there to be a hydrogen bond between them");
keys.add("numbered","HSWITCH","The \\ref switchingfunction that specifies how close the hydrogen must be to the donor atom of the hydrogen bond for it to be "
