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ENH: Dynamically modify the atoms for saddle searches in aKMC #198

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@HaoZeke

As noted. The issue right now is that the config.ini lists the atoms to be displaced once. In practice for large systems (especially crystals) we might need to select only a few atoms but these atoms change per step. So we need a pre-processing step to run before each phase of the new KMC step.

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