This invention relates to a system and method to improve the signal to noise ratio (SNR) of optical spectrometers that are limited by nonrandom or fixed pattern noise. A signal from a sample is collected using a short test exposure, a total observation time to maximize SNR is calculated, and the total observation time is achieved by averaging multiple exposures whose time is selected based on the time dependent noise structure of the detector. Moreover, with a priori knowledge of the time dependent noise structure of the spectrometer, this method is easily automatable and can maximize SNR for a spectrum of an unknown compound without any user input.