After persistently getting error : identifier \"atomicAdd\" is undefined, I\'ve found the solution to be to compile with -arch sm_20 flag. But how
You can select the options for the GPU Code Generation in this dialog:

In this case "compute_20" means that i am compiling for the virtual compute architecture 2.0 - virtual architecture influences the PTX generation stage.
The second part that comes after the coma is "sm_21".This influences the CUBIN generation stage. It defines the real GPU architecture i want to compile the PTX to.
You can find detailed description of the nvcc command line parameters that control the code generation here.