ml-research-platform / tabular_models.py
unknown
feat: add pose, general-objects, skin, brain, tabular endpoints
af3091e
"""Tabular classification bundles: Titanic, Heart Disease, Wine Quality.
Each bundle is trained lazily on first access from CSVs in ``sample_data/``.
Per-request contributions use:
- Titanic (LogisticRegression): signed ``coef * (x_scaled)`` per feature
- Heart / Wine (GradientBoostingClassifier): LOCO-style approximation —
substitute each feature with the training mean/mode and compute Δprob.
All three bundles expose a uniform ``predict(payload)`` callable returning the
unified response schema consumed by the ``/tabular/*`` endpoints.
"""
from __future__ import annotations
import os
import threading
from dataclasses import dataclass
from typing import Any, Callable
import numpy as np
import pandas as pd
from sklearn.compose import ColumnTransformer
from sklearn.ensemble import GradientBoostingClassifier
from sklearn.linear_model import LogisticRegression
from sklearn.pipeline import Pipeline
from sklearn.preprocessing import OneHotEncoder, StandardScaler
_DATA_DIR = os.path.join(os.path.dirname(os.path.abspath(__file__)), "sample_data")
_lock = threading.Lock()
_bundles: dict[str, "TabularBundle"] = {}
@dataclass
class TabularBundle:
name: str
pipeline: Pipeline
feature_order: list[str]
categorical: list[str]
numeric: list[str]
class_labels: list[str]
model_label: str
target_type: str # "binary" or "multiclass"
baseline: dict[str, Any] # training means / modes for LOCO substitution
positive_class: str | None = None # for binary display
def predict(self, payload: dict[str, Any]) -> dict[str, Any]:
"""Run prediction + contributions on a single row payload."""
row = {f: payload.get(f, self.baseline[f]) for f in self.feature_order}
x_df = pd.DataFrame([row], columns=self.feature_order)
proba = self.pipeline.predict_proba(x_df)[0]
classes = [str(c) for c in self.pipeline.classes_]
probabilities = {
label_for_class(self.class_labels, classes, c): float(p)
for c, p in zip(classes, proba)
}
top_idx = int(np.argmax(proba))
top_class_raw = classes[top_idx]
top_class_label = label_for_class(self.class_labels, classes, top_class_raw)
# Contributions
if isinstance(self.pipeline.named_steps["clf"], LogisticRegression):
contributions = _logreg_contributions(
self.pipeline, x_df, self.feature_order, self.numeric, self.categorical
)
else:
contributions = _loco_contributions(
self.pipeline,
x_df,
self.feature_order,
self.baseline,
top_idx,
)
# Top-1 probability for gauge
confidence = float(proba[top_idx])
# Build feature_importance (signed) sorted by |contribution|
fi_list = [
{
"feature": feat,
"value": _display_value(row[feat]),
"contribution": float(contrib),
}
for feat, contrib in contributions.items()
]
fi_list.sort(key=lambda d: abs(d["contribution"]), reverse=True)
return {
"prediction": top_class_label,
"confidence": confidence,
"probabilities": probabilities,
"feature_importance": fi_list,
"feature_order": self.feature_order,
"model": self.model_label,
"target_type": self.target_type,
}
def label_for_class(class_labels: list[str], classes: list[str], raw: str) -> str:
"""Map model class output (may be '0','1' or string) to display label."""
try:
idx = classes.index(raw)
if idx < len(class_labels):
return class_labels[idx]
except ValueError:
pass
return raw
def _display_value(v: Any) -> Any:
if isinstance(v, float):
if v != v: # NaN
return None
return round(float(v), 3)
return v
# ─── Contribution helpers ───
def _logreg_contributions(
pipeline: Pipeline,
x_df: pd.DataFrame,
feature_order: list[str],
numeric: list[str],
categorical: list[str],
) -> dict[str, float]:
"""Compute signed coef * x_scaled contribution per original feature.
For one-hot encoded categoricals we sum over all dummy columns tied to the
original feature so the contribution aggregates cleanly for the UI.
"""
preprocessor: ColumnTransformer = pipeline.named_steps["prep"]
clf: LogisticRegression = pipeline.named_steps["clf"]
x_trans = preprocessor.transform(x_df)
if hasattr(x_trans, "toarray"):
x_trans = x_trans.toarray()
x_trans = np.asarray(x_trans).ravel()
coef = clf.coef_
# Binary LR → single row of coefs; multiclass → use class 1 row (positive)
if coef.shape[0] == 1:
coefs = coef[0]
else:
coefs = coef[-1]
# Map transformed column index → original feature name
feature_names_out = _get_feature_names_out(preprocessor, numeric, categorical)
per_feat: dict[str, float] = {f: 0.0 for f in feature_order}
for i, col_name in enumerate(feature_names_out):
original = _strip_prefix(col_name, numeric + categorical)
if original in per_feat:
per_feat[original] += float(coefs[i] * x_trans[i])
return per_feat
def _get_feature_names_out(
preprocessor: ColumnTransformer,
numeric: list[str],
categorical: list[str],
) -> list[str]:
"""Best-effort retrieval of column names from fitted ColumnTransformer."""
try:
return list(preprocessor.get_feature_names_out())
except Exception:
pass
names: list[str] = []
for name, transformer, cols in preprocessor.transformers_:
if name == "num":
names.extend([f"num__{c}" for c in cols])
elif name == "cat":
try:
ohe_names = transformer.get_feature_names_out(cols)
except Exception:
ohe_names = [f"cat__{c}" for c in cols]
names.extend(ohe_names)
return names
def _strip_prefix(col_name: str, originals: list[str]) -> str:
# sklearn formats: "num__age", "cat__sex_female"
for o in originals:
if col_name == f"num__{o}" or col_name.startswith(f"cat__{o}_"):
return o
if col_name == o or col_name.startswith(f"{o}_"):
return o
return col_name.split("__", 1)[-1].split("_", 1)[0]
def _loco_contributions(
pipeline: Pipeline,
x_df: pd.DataFrame,
feature_order: list[str],
baseline: dict[str, Any],
target_idx: int,
) -> dict[str, float]:
"""LOCO approximation — substitute each feature with its baseline value and
compute delta in predicted probability for the predicted class."""
base_proba = pipeline.predict_proba(x_df)[0][target_idx]
contributions: dict[str, float] = {}
for feat in feature_order:
substituted = x_df.copy()
substituted[feat] = baseline[feat]
new_proba = pipeline.predict_proba(substituted)[0][target_idx]
# contribution = base - new_with_feature_neutralised
# → positive means feature pushed probability UP
contributions[feat] = float(base_proba - new_proba)
return contributions
# ─── Bundle builders ───
def _build_titanic() -> TabularBundle:
path = os.path.join(_DATA_DIR, "titanic.csv")
df = pd.read_csv(path)
# Clean
df = df[["pclass", "sex", "age", "sibsp", "parch", "fare", "embarked", "survived"]].copy()
df["age"] = df["age"].fillna(df["age"].median())
df["fare"] = df["fare"].fillna(df["fare"].median())
df["embarked"] = df["embarked"].fillna(df["embarked"].mode().iloc[0])
df = df.dropna(subset=["survived"])
numeric = ["age", "sibsp", "parch", "fare"]
categorical = ["pclass", "sex", "embarked"]
feature_order = ["pclass", "sex", "age", "sibsp", "parch", "fare", "embarked"]
preprocessor = ColumnTransformer(
transformers=[
("num", StandardScaler(), numeric),
("cat", OneHotEncoder(handle_unknown="ignore"), categorical),
]
)
pipeline = Pipeline([
("prep", preprocessor),
("clf", LogisticRegression(max_iter=500, C=1.0)),
])
pipeline.fit(df[feature_order], df["survived"].astype(int))
baseline: dict[str, Any] = {
"pclass": int(df["pclass"].mode().iloc[0]),
"sex": df["sex"].mode().iloc[0],
"age": float(df["age"].median()),
"sibsp": int(df["sibsp"].median()),
"parch": int(df["parch"].median()),
"fare": float(df["fare"].median()),
"embarked": df["embarked"].mode().iloc[0],
}
return TabularBundle(
name="titanic-survival",
pipeline=pipeline,
feature_order=feature_order,
categorical=categorical,
numeric=numeric,
class_labels=["Did not survive", "Survived"],
model_label="LogisticRegression (Titanic)",
target_type="binary",
baseline=baseline,
positive_class="Survived",
)
def _build_heart() -> TabularBundle:
path = os.path.join(_DATA_DIR, "heart.csv")
df = pd.read_csv(path)
# UCI Cleveland: num 0 = no disease, 1-4 = presence — bin to binary
df = df[[
"age", "sex", "cp", "trestbps", "chol", "fbs",
"restecg", "thalach", "exang", "oldpeak", "num",
]].copy()
df = df.apply(pd.to_numeric, errors="coerce").dropna()
df["target"] = (df["num"] > 0).astype(int)
df = df.drop(columns=["num"])
feature_order = [
"age", "sex", "cp", "trestbps", "chol", "fbs",
"restecg", "thalach", "exang", "oldpeak",
]
numeric = feature_order[:]
categorical: list[str] = []
preprocessor = ColumnTransformer(
transformers=[("num", StandardScaler(), numeric)]
)
pipeline = Pipeline([
("prep", preprocessor),
("clf", GradientBoostingClassifier(n_estimators=150, max_depth=3, random_state=0)),
])
pipeline.fit(df[feature_order], df["target"])
baseline = {f: float(df[f].mean()) for f in feature_order}
return TabularBundle(
name="heart-disease",
pipeline=pipeline,
feature_order=feature_order,
categorical=categorical,
numeric=numeric,
class_labels=["Low risk", "Elevated risk"],
model_label="GradientBoosting (UCI Cleveland Heart)",
target_type="binary",
baseline=baseline,
positive_class="Elevated risk",
)
def _build_wine() -> TabularBundle:
path = os.path.join(_DATA_DIR, "wine_red.csv")
df = pd.read_csv(path, sep=";")
df.columns = [c.strip().replace(" ", "_") for c in df.columns]
df = df.dropna()
# Bin quality → 3 classes
def _bin(q: float) -> int:
if q <= 4:
return 0 # low
if q <= 6:
return 1 # medium
return 2 # high
df["target"] = df["quality"].apply(_bin)
feature_order = [
"alcohol", "volatile_acidity", "sulphates", "citric_acid",
"residual_sugar", "chlorides", "pH", "density",
]
numeric = feature_order[:]
categorical: list[str] = []
preprocessor = ColumnTransformer(
transformers=[("num", StandardScaler(), numeric)]
)
pipeline = Pipeline([
("prep", preprocessor),
("clf", GradientBoostingClassifier(n_estimators=200, max_depth=3, random_state=0)),
])
pipeline.fit(df[feature_order], df["target"])
baseline = {f: float(df[f].mean()) for f in feature_order}
return TabularBundle(
name="wine-quality",
pipeline=pipeline,
feature_order=feature_order,
categorical=categorical,
numeric=numeric,
class_labels=["Low (≤4)", "Medium (5–6)", "High (≥7)"],
model_label="GradientBoosting (Wine Quality — Red)",
target_type="multiclass",
baseline=baseline,
positive_class=None,
)
_BUILDERS: dict[str, Callable[[], TabularBundle]] = {
"titanic-survival": _build_titanic,
"heart-disease": _build_heart,
"wine-quality": _build_wine,
}
def get_bundle(name: str) -> TabularBundle:
if name in _bundles:
return _bundles[name]
with _lock:
if name in _bundles:
return _bundles[name]
if name not in _BUILDERS:
raise KeyError(f"Unknown tabular bundle: {name}")
_bundles[name] = _BUILDERS[name]()
return _bundles[name]
def schema_summary(name: str) -> dict[str, Any]:
"""Return baseline/metadata for warmup introspection."""
bundle = get_bundle(name)
return {
"name": bundle.name,
"model": bundle.model_label,
"features": bundle.feature_order,
"numeric": bundle.numeric,
"categorical": bundle.categorical,
"classes": bundle.class_labels,
"target_type": bundle.target_type,
"baseline": bundle.baseline,
}