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from __future__ import print_function
import sisl
import numpy as np
import matplotlib.pyplot as plt
%matplotlib inline

In TB 5 a pristine graphene flake with a hole was created.

Here you should reproduce the results of the tight-binding example 5. However, instead of removing the atoms in Python and saving the Hamiltonian for the system with a hole, you should exclude the atoms via the TBT.Atoms.Buffer block. I.e. save the full Hamiltonian for the pristine graphene flake.

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