Recent developments in Computer-aided Diagnosis (CAD) systems as a countermeasure to the increasing number of untreated cases of eye diseases related to visual impairment (such as diabetic retinopathy or age-related macular degeneration) have the potential to yield in low-to-mid income countries a comfortable and accessible alternative to obtaining a general ophthalmological study necessary for follow-up medical attention. In this work, a multi-stage ensemble-based system for the diagnosis of glaucomatous optic neuropathy (GON) is proposed. GON diagnosis is based on a binary classification procedure working in conjunction with a multi-stage block based on image preprocessing and feature extraction. Our preliminary data show similar results compared to current studies considering metrics such as Accuracy, Sensitivity, Specificity, AUC (AUROC), $F_1\mathrm{score}$, and the use of Matthews Correlation Coefficient (MCC) as an additional performance metric is proposed.