In order to simulate the Ondes Martenot, a classic electronic musical instrument, we aim to model its circuit using Port-Hamiltonian Systems (PHS). PHS have proven to be a powerful formalism to provide models of analog electronic circuits for audio applications, as they guarantee the stability of simulations, even in the case of non-linear systems. However, some systems cannot be converted directly into PHS because their architecture cause what are called realizability conflicts. The Ondes Martenot circuit is one of those systems. In this paper, a method is introduced to resolve such conflicts automatically: problematic components are replaced by equivalent components without altering the overall structure nor the content of the modeled physical system.