Selecting atoms

To define collective variables, atoms are usually selected as groups. Each group is defined using an identifier that is unique in the context of the specific colvar component (e.g. for a distance component, the two groups are group1 and group2). The identifier is followed by a brace-delimited block containing selection keywords and other parameters, including an optional name:

• name $\langle\,$ Unique name for the atom group$\,\rangle$
  Context: atom group
  Acceptable values: string
  Description: This parameter defines a unique name for this atom group, which can be referred to in the definition of other atom groups (including in other colvars) by invoking atomsOfGroup as a selection keyword.