Turbomass Gold Service Manual

We have an AutoSystemXL with an FID detector connected to a Turbomass Gold MS.
We use the FID detector on the AutoSystemXL and the MS on the TurboMass Gold as separate detectors. This means one day we may have a GC-FID analysis batch to run or another day we may have a GC-MS analysis batch to run.
The TotalChrom 6.2 release notes state that we should not install TotalChrom onto a machine running Turbomass. Is this correct? If so, how do I run a GC-FID analysis batch using Turbomass 5.4 without using the MS or having it under vacuum, and without an MS method file in the sequence list?
The Turbomass User's Manual is lacking in any information on FID analysis!
Thanks in advance!
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