For any closed Gaussian surface,
\[
\boxed{\Phi=\frac{Q_{\text{enclosed}}}{\varepsilon_{0}}}
\]
Always calculate the net enclosed charge only.
Remember:
\[
\boxed{
\begin{aligned}
\text{Positive enclosed charge} &\Rightarrow \text{Positive flux},\\
\text{Negative enclosed charge} &\Rightarrow \text{Negative flux},\\
\text{External charges} &\Rightarrow \text{No effect on net flux}.
\end{aligned}
}
\]