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doc: add updating zephyr dependencies #83808

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add part about updating zephyr dependencies.

sometimes dependencies change, so users should update these too.

For example it's very extreme for the nanopb module, there the protobuf python package must not be older than the nanopb module or else building will fail.

add part about updating zephyr dependencies.

Signed-off-by: Fin Maaß <[email protected]>
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