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porting starterware usb to sysbios

I'm using SYS/BIOS 6 with the Industrial SDK v1.0.0.4 on CCS v5.1.1.00031. I'm trying to port over the STARTERWARE USB device mass storage class example to SYS/BIOS. The example claims to use microSD for the storage media, but in actuality it only accesses RAM. The problem is that the storage memory access occurs in the USB's ISR. We don't want to access actual I/O (storage memory such as microSD card or SPI Flash) in the ISR since this could take an unspecified amount of time. Has anyone been able to abstract the device mass storage memory access outside of the USB ISR? This would essentially make the USB code task aware instead of entirely interrupt driven. Any help or advice would be appreciated.