docs: sync with current server, refactor, and trace format

[RaoulSchaffranek]

Audits the documentation against the running node and the current code, fixing drift that accumulated since the dependency-inversion / ChainStore refactor and the trace-format change.

How this was verified

Started komet-node on a fresh chain and replayed every end-user example. The README quick-start is fully accurate — all four signed envelopes execute in order, the invoke returns the documented hash (c7099cbe…), and the traceTransaction output matches byte-for-byte. Also confirmed the live response shapes of getHealth, getNetwork, getVersionInfo, getLatestLedger, getFeeStats, getTransaction, getTransactions, getLedgers, getLedgerEntries, simulateTransaction, and the DUPLICATE/NOT_FOUND/null-trace paths against server.md.

Changes

• README: make build-kdist → make kdist-build (the former target does not exist).
• server.md: class structure, Startup, and handle_rpc examples rewritten for the injected interpreter/encoder/store; the removed StellarRpcServer(io_dir=…, network_passphrase=…) constructor replaced with build_server(…); mem field added to the trace example; captiveCoreVersion → komet 0.1.86; created-directories list completed.
• architecture.md: "eleven" → "thirteen" RPC methods (adds simulateTransaction, getEvents); receipt shape gains applicationOrder/feeBump; new ChainStore component + injected-collaborators note; init directory list completed.
• transaction.md: build_tx_request now documented as a 3-tuple with uploaded_wasms; build_simulate_request documented.
• interpreter.md: run()'s commit keyword and commit=False dry runs documented.
• node-semantics.md: mem field added to the trace example and field table.
• notes.md: dropped the stale "ScMap return values are not yet encoded" note (scval_from_json now decodes vec/map).

Note

captiveCoreVersion is generated at runtime from the installed komet version. pyproject.toml pins v0.1.86, so the docs use that; the local .venv currently has 0.1.84 and would need uv sync to match.