While experimenting with integrals involving the Dedekind Eta function, I came across a family of integrals which seem to follow a very simple pattern. With $y \in \mathbb{N}$, define: $$A(y) = \int_0^{\infty} \eta( i x)\,\eta(i x y)\,dx.$$ The integral can be rewritten in the following infinite series forms:
\begin{align} A(y) & = \frac{12}{\pi} \sum_{(n,m) \in \mathbb{Z}^2} \frac{(-1)^{n+m}}{(6n+1)^2+y \, (6m+1)^2} \\[8pt] & =\frac{2 \sqrt{3}}{\sqrt{y}} \sum_{n \in \mathbb{Z}} \frac{(-1)^n}{6n+1} \, \dfrac{ \sinh \frac{\pi \sqrt{y}}{3} (6n+1)}{\cosh \frac{\pi \sqrt{y}}{2} (6n+1)} \\[8pt] & = \frac{2}{\sqrt{y}} \sum_{n \in \mathbb{Z}} (-1)^n \tanh^{-1} \left( \frac{\sqrt{3}}{2} \operatorname{sech}(\pi \sqrt{y} (n+1/6))\right). \end{align}
Numerical computations seem to confirm that
\begin{align} A(1) & = \ln\left(1+ \sqrt{3} +\sqrt{3+2 \sqrt{3}} \right) \tag{1} \\[8pt] A(2) & = \frac1{\sqrt{2}} \ln \left(1+ \sqrt{2} + \sqrt{2+ 2 \sqrt{2}} \right) \tag{2} \\[8pt] A(3) & = \frac1{\sqrt{3}} \ln \left( 1+ 2^{1/3} + 2^{2/3} \right) \tag{3} \end{align}
And generally, it looks like $$A(y) = \frac1{\sqrt{y}} \,\ln u \tag{4}$$ where $u$ is the root closest to $1$ from above, of a polynomial $P_y$. I've checked dozens of different $y$'s and made a list of those polynomials - check this pastebin link. Some are missing, e.g. I could not find $P_6$. Others seem to follow patterns of their own, for example the Heegner numbers. Here's the polynomial for $y=163$:
$$\small P_{163}(u) = u^{12} + 640314 u^{10} + 1280624 u^9 + 640287 u^8 - 1280736 u^7 - 2561412 u^6 - 1280736 u^5 + 640287 u^4 + 1280624 u^3 + 640314 u^2 + 1 = 0$$
Other interesting things to look at are the behaviour of $P_y(1)$ and $P_y(-1)$, with regard to $y \pmod{24}$, and approximations to $\pi$ which follow from terminating the infinite series at its first term.
However, I have got no clue how to prove it. What would be a way to prove $(4)$? What can be said about the polynomials $P_y$? Also, can you help me find $P_6$, or other missing polynomials from my list?
Edit.
Finally, I was able to produce a closed form for this integral thanks to @DaveHuff's hints. The idea is to rewrite the infinite series as $$A(y) = \frac2{\sqrt{y}} \sum_{n=0}^{\infty} \tanh^{-1}\left( \dfrac{\cos \frac{\pi}{6} (2n+1)}{\cosh \frac{\pi \sqrt{y}}{6} (2n+1)}\right),$$ and then, using $\displaystyle \,\,\,\tanh^{-1}x = \frac12 \ln \left( \frac{1+x}{1-x} \right),$ proceed to factorize the summand and obtain $$\sqrt{y} \,A(y) = \sum_{n=1}^{\infty} \ln \left( \dfrac{(1-e^{5 \pi i n/6-\pi n\sqrt{y}/6})(1-e^{-5 \pi i n/6-\pi n\sqrt{y}/6})}{(1-e^{ \pi i n/6-\pi n\sqrt{y}/6})(1-e^{-\pi i n/6-\pi n\sqrt{y}/6})} \right),$$ which means: $$A(y) = \frac1{\sqrt{y}} \,\ln \left( \dfrac{\eta\left(\frac{i \sqrt{y}+5}{12}\right)\eta\left(\frac{i \sqrt{y}-5}{12}\right)}{\eta\left(\frac{i \sqrt{y}+1}{12}\right)\eta\left(\frac{i \sqrt{y}-1}{12}\right)}\right).$$
I still don't know enough eta quotient theory, so I don't know how to show that this eta quotient is in fact algebraic for every natural $y$ (let alone bring it to the implicit form in @TitoPiezasIII's answer), but this is still good progress.