refactor: Made `command` functions to access PackageManager unavailable from public API #3531

Job	Run time
run-determination	1s
check-config (./)	19s
check-license-headers (./)	17s
build (arduino/discovery/discovery_client)	41s
check-formatting (./)	11s
build (client_example)	42s
check-outdated (./)	12s
build (commands/daemon/term_example)	38s
check-style (./)	55s
	3m 56s

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