Improve storage upgrade error and remove useless command arguments

This simple MR aims to:

• improve the error that could be triggered when running the storage upgrade command on a directory that is not containing the network inferred by the node (see #4892 (closed))
• introduce a new resolve_data_dir_and_config_file to factorize some code
• remove the Shared_args.Term.args from various command to avoid allowing ignored arguments -- only the necessary ones are activated.

Manually testing the MR

Try various usages of --config-file and --data-dir while running a command.

Unfortunately, there is no easy way to add a Tezt test as the configuration file do not handle data_dir for good reasons. Maybe we want to change that?

Checklist

• Document the interface of any function added or modified (see the coding guidelines)
• Document any change to the user interface, including configuration parameters (see node configuration)
• Provide automatic testing (see the testing guide).
• For new features and bug fixes, add an item in the appropriate changelog (docs/protocols/alpha.rst for the protocol and the environment, CHANGES.rst at the root of the repository for everything else).
• Select suitable reviewers using the Reviewers field below.
• Select as Assignee the next person who should take action on that MR