Almonds are often harvested off the ground from around trees which have been fertilized with manure. Potentially hazardous microbes are transferred from the husk to the shells during the dehusking process. During deshelling, shell dust with attached microbes escapes into the atmosphere and can permeate an entire packaging facility, contaminating previously uncontaminated packaging and food products. A sterile barrier is provided around the packaging facility. As the almonds in the shell are passed through the barrier, their shells are sanitized. After the nutmeats are removed from the shells, the nutmeats are sanitized again and packaged in packaging which has been sanitized.