This MathWorld page gives this definition of a Fourier transform: $$F(k) = \int_{-\infty}^{\infty} f(x) e^{-2\pi i k x}dx.$$ But, I wish to speak in terms of linear frequency $\nu$ and time $t$ rather than in terms of wavenumber $k$ and position $x$, so I will use the substitutions $k \rightarrow \nu$ and $x \rightarrow t$ rewrite this as: $$F(\nu) = \int_{-\infty}^{\infty} f(t) e^{-i2\pi \nu t}dt \; \; \; \text{(eq. 1).}$$
Is this substitution valid, or did I miss a factor?
Now, angular frequency $\omega$ and linear frequency $\nu$ are related by $\omega = 2 \pi \nu$ so I can rewrite in terms of the angular frequency $\omega$: $$F({\omega\over2\pi}) = F(\nu) = \int_{-\infty}^{\infty} f(t) e^{-i\omega t}dt \; \; \; \text{(eq. 2).}$$ However, my physics professor's distributed notes give this definition of the Fourier transform $F(\omega)$ of $f(t)$: $$F(\omega) = \frac{1}{2\pi} \int_{-\infty}^{\infty} f(t) e^{-i\omega t}dt \; \; \; \text{(eq. 3)}$$
How can I convert equation (2) to equation (3), to obtain the $\frac{1}{2\pi}$ factor?
The answer is, as always, in wikipedia. In your derivation, the factor that is not coming up in the direct transformation, will show up in the inverse one. In your professor's, the factor that is in the direct transform will not be present in the inverse one. As long as you define them matching each other, you will be ok. It is also pretty common to split the difference and have a $1/\sqrt{2\pi}$ in front of each.