I am interested in the relation between the Atiyah-Patodi-Singer-$\eta$ invariant and spin topological quantum field theory. In the paper Gapped Boundary Phases of Topological Insulators via Weak Coupling by Seiberg and Witten, they presented such relation between the two.
Let the $3+1$ dimensional manifold $X$ be the world volume of a topological insulator. Its bounday $W$ is a $2+1$ dimensional manifold. Let $\chi$ be a massless Dirac fermion on the bounday manifold $W$. Then, integrating out the boundary fermion
$$\int_{W}d^{3}x\,i\bar{\chi}D \!\!\!\!/\,\chi\,, $$
where $D_{\mu}=\partial_{\mu}+iA_{\mu}$, one has the partition function
$$\mathcal{Z}=|\det(iD)|e^{-i\pi\eta(A)/2}.$$
So far, this is just the standard parity anomaly in odd dimensions.
On page 35, the authors claimed that the factor $\Phi=e^{-i\pi\eta/2}$ is actually the partition function of a topological quantum field theory, called spin-Ising TQFT. The name comes from the fact that it is related with the 2D Ising model of CFT. The authors explained that this is due to the Free-Dai theorem.
I don't really understand much from the paper of Freed-Dai theorem because of its heavy mathematics. But from my understanding, it is saying that the $\eta$ invariant is some kind of topological invariant and cobordism invariant, which satisfies the gluing and surgery axioms of TQFT. Thus, the factor $\Phi=e^{-i\pi\eta/2}$ can be treated as the partition function of some TQFT.
Now the question is why this TQFT is the so-called spin-Ising TQFT. The authors claim that the partition function of the spin-Ising TQFT should be of modulus $1$ because the $\mathbb{Z}_{2}$ chiral ring generated by the field $\psi$ (from the 2D Ising model $\left\{1,\sigma,\psi\right\}$) has only one representation.
Question 1: Why does the fact that the chiral algebra has one representation makes its partition function being of modulus $1$?
The authors then showed an example, taking the manifold $W$ to be $S^{2}\times S^{1}$, that the partition function of the corresponding spin-Ising TQFT is $\pm 1$, which is indeed a phase. Then, by Freed-Dai theorem, they claimed that in general the partition function of a spin-Ising TQFT should be $\Phi=e^{-i\pi\eta/2}$.
I don't really understand much from the paper of Freed-Dai theorem. Could anyone please enlighten me on how one should apply that theorem to this case?
The authors explained in the following that if $W$ has a boundary $\Sigma$, then the product of the path integral of the chiral fermion $\psi$ on $\Sigma$ and the factor $\Phi$ is smooth and well-defined because of the Freed-Dai theorem.
However, in our case, the manifold $W$ itself is the boundary of the $3+1$-manifold $X$, and so $W$ has no bounday at all. How should one understand the explanation provided by the authors?