Under some circumstances when using the GOLD API there may be a discrepancy between the calculated fitness score and the final fitness score displayed in the ligand log file. For example, the ligand log file may contain something like this:

GOLD fitness breakdown of terms:

Fitness = S(hb_ext) + 1.3750*S(vdw_ext) + S(hb_int) + 1.0000*S(vdw_int) + S(cust)

   Fitness  S(hb_ext) S(vdw_ext)  S(hb_int) S(vdw_int) S(cust)
    73.02      17.94      28.28       0.00      -3.73    3.32

The S(cust) term may have been incorrectly included in the final fitness score more than once. Such a discrepancy could be due to a known issue with the GOLD API. For reasons of efficiency, the fitness is not always recalculated, but sometimes simply copied if no changes have been made to an individual during a previous iteration of the GA. To resolve this issue, GOLD must be prevented from re-adding the custom_score term.​

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