Resolve NXCALS-7778 "Fix pytimber get aligned"

Fixes problem, adds integration tests, but changes output. Previously, get aligned returned elements and dimensions (what is against PyTimber convention). Now, it will return reshaped arrays. That is consistent with behaviour of previous pytimber (version 3). Closes NXCALS-7778

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• d048ee6b - NXCALS-7778 Make methods protected

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• 54d19302 - NXCALS-7778 Fix tests and improve typing

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• 83ada39b - NXCALS-7778 Fix formatting

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mentioned in commit c32ccdcc