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Update function signatures in GPU bonded

Artem Zhmurov requested to merge gpubonded_UpdateFunctionsSignatures into master

The launchKernel(..) function should not deal with the parameters that do not change throughout the simulation run. This moves the setup of these parameters to the constructor and update function. Also, the dependency on the forcerec is now removed, which makes the GPU bonded setup easier. The PBC update is also moved into separate function in preparation for better PBC management on the GPU.

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