Update queries:run examples

[aclum]

Description

This PR updates the examples for queries:run to use valid nmdc identifiers and replaces part_of with associated_studies to be compliant with the berkeley schema rollout.

Fixes #734

Type of change

Please delete options that are not relevant.

• 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 not work as expected)
• This change requires a documentation update

How Has This Been Tested?

Please describe the tests that you ran to verify your changes. Provide instructions so we can reproduce. Please also list any relevant details for your test configuration, if it is not simply make up-test && make test-run.

• Test A
• Test B

Configuration Details: none

Definition of Done (DoD) Checklist:

A simple checklist of necessary activities that add verifiable/demonstrable value to the product by asserting the quality of a feature, not the functionality of that feature; the latter should be stated as acceptance criteria in the issue this PR closes. Not all activities in the PR template will be applicable to each feature since the definition of done is intended to be a comprehensive checklist. Consciously decide the applicability of value-added activities on a feature-by-feature basis.

• My code follows the style guidelines of this project (have you run black nmdc_runtime/?)
• I have performed a self-review of my code
• I have commented my code, particularly in hard-to-understand areas
• I have made corresponding changes to the documentation (in docs/ and in https://github.com/microbiomedata/NMDC_documentation/?)
• I have added tests that prove my fix is effective or that my feature works, incl. considering downstream usage (e.g. https://github.com/microbiomedata/notebook_hackathons) if applicable.
• New and existing unit and functional tests pass locally with my changes (make up-test && make test-run)

[eecavanna]

And thank you for taking the initiative to fix things like this as you encounter them! I think all future "encounter-ers" will benefit from you having taken that initiative.