Refactor protocols and simplify implementation hierarchy

.pre-commit-config.yaml

@@ -0,0 +1,21 @@
+repos:
+  - repo: https://github.com/tsvikas/sync-with-uv
+    rev: v0.4.0  # replace with the latest version
+    hooks:
+      - id: sync-with-uv
+  - repo: https://github.com/astral-sh/ruff-pre-commit
+    rev: v0.14.4
+    hooks:
+      - id: ruff-format
+        types_or: [ python, pyi ]
+
+  - repo: https://github.com/pre-commit/pre-commit-hooks
+    rev: v6.0.0
+    hooks:
+      - id: trailing-whitespace
+        types_or: [ python, pyi ]
+      - id: end-of-file-fixer
+        types_or: [ python, pyi ]
+      - id: check-yaml
+      - id: check-added-large-files
+      - id: check-merge-conflict

pyproject.toml

@@ -19,6 +19,11 @@ dependencies = [
     "deltalake>=1.0.2",
     "graphviz>=0.21",
     "gitpython>=3.1.45",
+    "starfix>=0.1.3",
+    "pygraphviz>=1.14",
+    "uuid-utils>=0.11.1",
+    "s3fs>=2025.12.0",
+    "pymongo>=4.15.5",
 ]
 readme = "README.md"
 requires-python = ">=3.11.0"
@@ -54,15 +59,16 @@ dev = [
     "ipywidgets>=8.1.7",
     "jsonschema>=4.25.0",
     "minio>=7.2.16",
+    "pre-commit>=4.4.0",
+    "pre-commit-hooks>=6.0.0",
     "pyarrow-stubs>=20.0.0.20250716",
-    "pygraphviz>=1.14",
     "pyiceberg>=0.9.1",
     "pyright>=1.1.404",
     "pytest>=8.3.5",
     "pytest-cov>=6.1.1",
     "ray[default]==2.48.0",
     "redis>=6.2.0",
-    "ruff>=0.11.11",
+    "ruff>=0.14.4",
     "sphinx>=8.2.3",
     "tqdm>=4.67.1",
 ]