The Atiyah-Patodi-Singer(APS) index theorem attracts attention for understanding physics on the surface of materials in topological phases. The mathematical set-up for this theorem is, however, not directly related to the physical fermion system, as it imposes on the fermion fields a non-local boundary condition known as the APS boundary condition by hand, which is unlikely to be realized in the materials. In this work, we attempt to reformulate the APS index in a physicist-friendly way for a simple set-up with $U(1)$ or $SU(N)$ gauge group on a flat four-dimensional Euclidean space. We find that the same index as APS is obtained from the domain-wall fermion Dirac operator with a local boundary condition, which is naturally given by the kink structure in the mass term. As the boundary condition does not depend on the gauge fields, our new definition of the index is easy to compute with the standard Fujikawa method.
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