galaxy-tool-refactor-registry 0.2.0

Unified, code-addressable rule registry + named presets for the Galaxy tool refactoring tiers — tier 3.6, a library-first facade the CLI (and a future MCP server) compose.

galaxy-tool-refactor-registry

The rule-registry facade (tier 3.6) of the Galaxy tool refactoring framework: a single, code-addressable view over every baked-in rule across the three rule families — codemod (tier 2, structural GTR), fmt (tier 3, cosmetic GTR), and check (tier 3.5, advisory) — plus named rulesets and per-rule enable/disable, behind a library-first API.

                 galaxy-tool-refactor-registry   (this package, tier 3.6)
                        ↑                       ↑
   galaxy-tool-refactor-cli (tier 4)     galaxy-tool-refactor-mcp (tier 4, future)

It depends on the rule tiers (0.5 / 1 / 2 / 3 / 3.5); the lower tiers do not depend on it. It is the orchestration core the galaxy-tool-refactor CLI sits on top of, and the core the agent-facing MCP server sits on (galaxy-tool-refactor-mcp). All XML serialisation goes through fmt, preserving "fmt is the only tier that writes/serialises XML".

Why library-first

No click / sys.exit / printing in the call path; functions take a path, raw bytes, or a ToolDocument and return structured results; files are written only when a write_path is given; and the rule/ruleset catalogs are introspectable (list_rules() / list_rulesets()). That shape lets both the CLI and a future agent-facing MCP server be thin adapters over the same core. See ../galaxy-tool-refactor-mcp/docs/vision.md.

Rulesets

Ruleset	Contents	Notes
cosmetic	fmt cosmetic rules (GTR001/003/004)	whitespace / indent / shorthand only
default (default)	canonical codemods (GTR006/002/005/013) + cosmetic	today's format — the opinionated formatter
iuc	mirrors default (placeholder)	reserved for an IUC-specific divergence
strict	default + advisory checks	format + flag everything IUC cares about (report-only)

Membership is declared per rule (RuleMeta.rulesets): the registry derives each ruleset's code set by grouping every registered rule by the names in its meta.rulesets. Adding or changing rules and rulesets is a developer task — there are no user-defined rules or rulesets.

Selection

resolve_codes(rulesets=…, select=…, ignore=…) turns ruleset names plus --select/--ignore code lists into a concrete code set — the base is the union of the named rulesets (or the default ruleset when none are named). Precedence is ruff-style: --ignore ▸ --select ▸ --ruleset — an explicit --select replaces the rulesets' set, then --ignore subtracts. Unknown ruleset names / rule codes raise the typed UnknownRuleset / UnknownRuleCode.

Public API (by submodule import; no re-exports)

from galaxy_tool_refactor_registry.facade import (
    run, upgrade, detect, list_rulesets, list_rules,
)
from galaxy_tool_refactor_registry.resolve import resolve_codes, resolve_upgrade_codes
from galaxy_tool_refactor_registry.registry import by_code, known_codes, advisory_codes

• run(source, *, codes, write_path=None) -> FormatResult — apply the fixable rules in the selection (codemods in canonical order, then cosmetic fmt), reporting advisory findings as notes.
• upgrade(source, *, codes, write_path=None) -> UpgradeResult — profile-upgrade plus the selected fixable rules.
• detect(source, *, codes) -> DetectResult — report-only over the selection.
• by_code(code) -> RuleHandle — the uniform, callable handle for one rule (meta, family, fixable, detect(document), apply(document) or None).

Develop

Run from the workspace root (galaxy-tool-refactor/):

uv run --package galaxy-tool-refactor-registry pytest galaxy-tool-refactor-registry/tests/
uv run ruff check galaxy-tool-refactor-registry/src galaxy-tool-refactor-registry/tests
uv run mypy --config-file galaxy-tool-refactor-registry/pyproject.toml galaxy-tool-refactor-registry/src