Not if you have kept your paper trail showing that the SMSF (the beneficial and ultimate owner of the property under the trust) provided the funds used to buy the property. In other words, any deposit came from the fund's bank AC and the borrowings are in the SMSF's name. In that case, although the purchase is in another name (the custodian or warrant provider) iot is clear the property was alway meant to be for the fund.
In NSW you can prove this at the beginning when buying the property (resulting trust) or at the end, when you transfer the property to the fund (discretionary trust evidencing terms of a resulting trust).
Disclaimer: not a lawyer (just playing one on the intarwebs), not personal advice, do your own due diligence etc etc.