public void setMatchingAtoms(int[] atomIndices) {
        this.matchingAtoms = new int[atomIndices.length];
        System.arraycopy(atomIndices, 0, this.matchingAtoms, 0, atomIndices.length);
        Arrays.sort(matchingAtoms);
    }
public void setMatchingAtoms ( int [ ] atomIndices ) { this . matchingAtoms = new int [ atomIndices . length ] ; System . arraycopy ( atomIndices , 0 , this . matchingAtoms , 0 , atomIndices . length ) ; Arrays . sort ( matchingAtoms ) ; }
Set the atoms of a target molecule that correspond to this group.

This method is generally only useful in the context of pharmacophore matching

@param atomIndices The indicies of the atoms in a molecule that match
the pattern for this group.
@see #getMatchingAtoms()
@see org.openscience.cdk.pharmacophore.PharmacophoreMatcher