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BQ27320: How to configure fuel gauge when not depleting battery completely?

Part Number: BQ27320
Other Parts Discussed in Thread: GPCCHEM,

In my application I can discharge the battery from 4.2v to appx. 3.1v, at that point one components stops working and the system will shut down. The batteries I use can discharge down to 2.5v. When acquiring the test data for GPC, should I discharge the batteries down to 2.5volts (since this is the "battery soc" = 0%)? Or should I discharge only to 3.1v as this is the "application soc" = 0%. In either case I suppose I set the CellTermV=3100 in the config.txt file.

For now I have discharged the batteries to 3.0v in the test set. When testing the fuel gauge the soc estimate jump from 23% to 7% during discharge. I thought this might be due to overestimation of the Design Capacity, so I set both Design Capacity and Learned Full Charge Capacity to the actual mAh obtained during discharge to 3.1v, instead of the factory rating which is based on discharge to 2.5v. The soc jump was smaller this time, from 11% to 7%, and again I thought the capacity was overestimated. To my surprise, however, the Learned Full Charge Capacity had increased increased slightly instead. What can be the cause of this jump? I am using compensated EDV voltages, could that have anything to do with it? Would it be better to use fixed EDV voltages?

My question is really what is the recommended way to set up the fuel gauge in this case where the battery 0% level is not the same as the application 0% level.