fix(run): Exclude dependencies with --scope when nx.json is not present

[fahslaj]

When nx.json is not present, packages being run will no longer include their dependencies when those dependencies would be filtered out by --scope. Using the flag --include-dependencies will cause them to be included again, as expected.

Description

This preserves the default behavior of lerna run --scope when useNx is true and nx.json does not exist.

Motivation and Context

#3289
#3298

How Has This Been Tested?

End to end tests have been added that cover this behavior. The functionality was also manually tested.

Types of changes

• Bug fix (non-breaking change which fixes an issue)
• New feature (non-breaking change which adds functionality)
• Breaking change (fix or feature that would cause existing functionality to change)
• Chore (change that has absolutely no effect on users)

Checklist:

• My code follows the code style of this project.
• My change requires a change to the documentation.
• I have updated the documentation accordingly.
• I have read the CONTRIBUTING document.
• I have added tests to cover my changes.
• All new and existing tests passed.

[JamesHenry]

Per discussion about verbose