Update setup and create_tables methods

[lukekim]

This pull request updates the JSON-RPC protocol for system adapters to clarify and separate the responsibilities of the setup and create_tables methods. The main changes involve removing the datasets parameter from setup and moving it to create_tables, updating the protocol, documentation, and all affected references throughout the codebase and CI workflows.

Protocol and API changes:

• The setup method now takes only run_id and metadata (no longer datasets), while create_tables now requires both run_id and datasets. This is reflected in the SetupRequest and CreateTablesRequest structs, as well as the client methods and example code. [1] [2] [3] [4] [5] [6] [7]

Documentation updates:

• Updated the protocol documentation, README.md, and skill documentation to match the new method signatures and clarify the order and purpose of the setup and create_tables calls. [1] [2] [3] [4] [5] [6]

Codebase refactoring:

• Renamed setup_request_datasets to create_tables_request_datasets in the pipeline code and updated all usages to reflect that datasets are now only required for create_tables. [1] [2] [3] [4]

CI and workflow adjustments:

• Changed CI workflow jobs to use the updated JSON-RPC payloads: setup is now called without datasets, and create_tables is called with datasets, for all supported languages. [1] [2] [3] [4] [5] [6] [7] [8] [9] [10]