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Ca: move misalignment tolerances to the configuration file

Merged Ca: move misalignment tolerances to the configuration file
se.gorbunov/cbmroot:mcbmSetup into master
Merged Sergey Gorbunov requested to merge se.gorbunov/cbmroot:mcbmSetup into master

Ca: move misalignment tolerances to the YAML configuration file.

MR also backports changes of !1618 (merged) from the Data Challenge 4

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