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How to simulate Nios 2 processor based system correctly

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Hello everyone,
I am working on Network on Chip. I made one system including Nios II Processor, uart, on-chip memory, and my vhdl file in which nios 2 sends and receive the data. For this system i have to check whether my system works correct or not...
Now i want some help regarding simulation that I invoke Modelsim Altera from Nios 2 software and compiles the file .tcl file then i want only these signals in wave window (write, write data, read, read data and so on). For this i need wave.do file but i don't know how to make it....
Please help me because i have already work on it from one month ago...
Thanks
Zeeshan Iqbal

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