Hi Shinn,
In the Processing Method, you can assign a name for each peak that elutes in the subsequent chromatogram. After this step, in the Run Samples window, you can assign which vials are used for the different levels of standard you're using (or one, if you're doing single-level calibration). Also in the Run Samples window, there is a button (or, in one of the menus, can't recall which one at the moment) called Amounts. Here you can copy all of the peak names from the Processing Method that you set up previously.
Between these steps, you've assigned the peaks' identities, set which vials the standards solution(s) are in, and told the software from where to get the data to form calibration curves.
This also may be done after a sample sequence is complete from the Alter Sample menu in the Browse Project Window.
Please, see what you think, and thank you.