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Forces the ConfigurableBehaviourRun3 to be always set when working with the CA

This MR forces users to always set the Configurables behaviour when working with the CA. With @bernius we had few days debugging session to find out what is going only because the CA was filling the global top algs sequence (the flag was not set). I also flip the wasMerged but when the CA is merged with rec-ex-common config.

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