Thanks for the responses.
I plan on using the circuit shown in
figure 9–30, programming serial configuration devices in-system using the jtag interface in the Cyclone III device manual. What should the MSEL pins be connected to using this circuit? Once the serial configuration device has been programmed in system through the FPGA, does the circuit then operate in an active serial configuration manner on subsequent power ups as the serial configuration device configures the FPGA? If so, Table 9-7 indicates a MSEL2=0, MSEL1=MSEL0=1 for my desired 2.5V supply and standard POR time.
Aside from the circuitry differences, what operational differences exist between programming with the circuits shown in Figure 9-30 (Programming Serial Configuration Devices In-System Using the JTAG Interface) and Figure 9-7 (In-System Programming of Serial Configuration Devices?) What are the pros and cons of each and what would you recommend?