main.py

"""
Blood-Brain Omics Benchmark API

FastAPI + DuckDB backend serving benchmark results.
Queries Parquet files remotely via DuckDB httpfs — no data downloaded to disk.
DuckDB reads only the needed columns/row groups per query via HTTP range requests.

Data source modes (in priority order):
  1. Remote: HF Dataset repo via httpfs (default, zero RAM footprint)
  2. Local: files in BENCHMARK_DATA_DIR (for local dev)

Endpoints:
    GET /api/v1/registry              - Full registry metadata
    GET /api/v1/maxn/heatmap          - Blood x brain heatmap data
    GET /api/v1/maxn/detail           - Per-module results for one combination
    GET /api/v1/maxn/panel_summary    - One panel across all outcomes (mean/min/max)
    GET /api/v1/maxn/outcome_summary  - One outcome across all panels (mean/min/max)
    GET /api/v1/maxn/target_comparison - Per-panel performance for a specific target
    GET /api/v1/h2h/blood             - Blood H2H comparison
    GET /api/v1/h2h/blood/summary     - H2H win counts
    GET /api/v1/h2h/brain             - Brain H2H comparison
    GET /api/v1/h2h/models            - Model H2H comparison (future)
    GET /api/v1/temporal              - Temporal decay results
    GET /api/v1/features              - Feature importance for a target
    GET /api/v1/features/cross        - Cross-target feature importance
    GET /api/v1/health                - Health check (DB row counts)
    GET /api/v1/ready                 - Readiness probe (SELECT 1)
"""

import asyncio
import json
import logging
import os
import time
import traceback
import urllib.request
from typing import Optional

import duckdb
from fastapi import FastAPI, HTTPException, Query, Request
from fastapi.middleware.cors import CORSMiddleware
from fastapi.responses import JSONResponse, Response

logging.basicConfig(
    level=logging.INFO,
    format="%(asctime)s %(levelname)s %(name)s: %(message)s",
)
logger = logging.getLogger("blood_brain_api")

# =============================================================================
# Configuration
# =============================================================================

# HF Dataset repo for remote Parquet queries
HF_DATASET = os.environ.get(
    "HF_DATASET", "stasaking/blood-brain-benchmark"
)
HF_BASE_URL = f"https://huggingface.co/datasets/{HF_DATASET}/resolve/main"

# Local fallback for dev
DATA_DIR = os.environ.get(
    "BENCHMARK_DATA_DIR",
    os.path.join(os.path.dirname(__file__), "..", "data")
)

# DuckDB resource settings — tuned for HF Spaces CPU Basic (2 GB RAM, 2 vCPU).
# Override via environment variables when running on larger hardware.
DUCKDB_MEMORY_LIMIT = os.environ.get("DUCKDB_MEMORY_LIMIT", "512MB")
DUCKDB_THREADS = int(os.environ.get("DUCKDB_THREADS", "1"))
DUCKDB_TEMP_DIR = os.environ.get("DUCKDB_TEMP_DIR", "/tmp/duckdb_tmp")

# Concurrency cap — bound in-flight queries to avoid OOM/process crash on
# CPU Basic. Excess requests get 429 and the frontend can retry.
MAX_INFLIGHT = int(os.environ.get("API_MAX_INFLIGHT", "8"))

# Response cache TTL (seconds) — absorbs repeat queries from rapid clicks.
CACHE_TTL = float(os.environ.get("API_CACHE_TTL", "60"))
CACHE_MAX_ENTRIES = int(os.environ.get("API_CACHE_MAX_ENTRIES", "256"))

app = FastAPI(
    title="Blood-Brain Omics Benchmark API",
    version="1.0.0",
    description="Interactive exploration of blood omics → brain phenotype predictions",
)

app.add_middleware(
    CORSMiddleware,
    allow_origins=["*"],
    allow_methods=["*"],
    allow_headers=["*"],
)


# =============================================================================
# Concurrency cap + response cache
# =============================================================================

# Bound the number of in-flight requests so that bursts cannot OOM/crash the
# DuckDB process on CPU Basic. Excess requests fast-fail with 429 instead of
# wedging the worker.
_inflight_sem = asyncio.Semaphore(MAX_INFLIGHT)

# Tiny TTL cache keyed on (path, query_string). Frontend rapid clicks
# (e.g. switching panels) repeatedly hit the same URLs — caching them
# absorbs the load before it ever reaches DuckDB.
_cache: dict[str, tuple[float, int, bytes, str]] = {}
_CACHEABLE_PATH_PREFIXES = (
    "/api/v1/registry",
    "/api/v1/maxn/",
    "/api/v1/h2h/",
    "/api/v1/temporal",
    "/api/v1/features",
)


def _cache_key(request: Request) -> Optional[str]:
    if request.method != "GET":
        return None
    path = request.url.path
    if not any(path.startswith(p) for p in _CACHEABLE_PATH_PREFIXES):
        return None
    return f"{path}?{request.url.query}"


def _cache_get(key: str) -> Optional[tuple[int, bytes, str]]:
    entry = _cache.get(key)
    if entry is None:
        return None
    expires, status, body, ctype = entry
    if expires < time.monotonic():
        _cache.pop(key, None)
        return None
    return status, body, ctype


def _cache_put(key: str, status: int, body: bytes, ctype: str) -> None:
    if status != 200:
        return
    if len(_cache) >= CACHE_MAX_ENTRIES:
        # Cheap eviction: drop the oldest-expiring entry.
        oldest = min(_cache.items(), key=lambda kv: kv[1][0])[0]
        _cache.pop(oldest, None)
    _cache[key] = (time.monotonic() + CACHE_TTL, status, body, ctype)


@app.middleware("http")
async def cache_and_throttle(request: Request, call_next):
    key = _cache_key(request)
    if key is not None:
        hit = _cache_get(key)
        if hit is not None:
            status, body, ctype = hit
            return Response(
                content=body, status_code=status, media_type=ctype,
                headers={"x-cache": "hit"},
            )

    # Bound concurrency. If saturated, fail fast with 429 rather than queue
    # indefinitely (queueing under sustained load is what crashes the worker).
    try:
        await asyncio.wait_for(_inflight_sem.acquire(), timeout=0.05)
    except asyncio.TimeoutError:
        return JSONResponse(
            status_code=429,
            content={"error": "busy", "detail": "Server busy, please retry."},
            headers={"retry-after": "1"},
        )

    try:
        response = await call_next(request)
    finally:
        _inflight_sem.release()

    if key is not None and response.status_code == 200:
        # Buffer the streaming body so we can both cache and return it.
        body_chunks = [chunk async for chunk in response.body_iterator]
        body = b"".join(body_chunks)
        ctype = response.headers.get("content-type", "application/json")
        _cache_put(key, response.status_code, body, ctype)
        return Response(
            content=body, status_code=response.status_code, media_type=ctype,
            headers={"x-cache": "miss"},
        )
    return response


# =============================================================================
# Middleware: request logging + unhandled-exception handler
# =============================================================================

@app.middleware("http")
async def log_requests(request: Request, call_next):
    start = time.monotonic()
    try:
        response = await call_next(request)
    except Exception:
        elapsed = (time.monotonic() - start) * 1000
        logger.error(
            "UNHANDLED %s %s — %.1f ms\n%s",
            request.method, request.url.path, elapsed,
            traceback.format_exc(),
        )
        return JSONResponse(
            status_code=500,
            content={"error": "internal_server_error", "detail": "An unexpected error occurred."},
        )
    elapsed = (time.monotonic() - start) * 1000
    logger.info(
        "%s %s %d %.1f ms",
        request.method, request.url.path, response.status_code, elapsed,
    )
    return response

# =============================================================================
# Startup: configure DuckDB with httpfs views or local tables
# =============================================================================

db = None
registry = None


def _resolve_parquet(filename: str) -> str:
    """Return remote URL or local path for a Parquet file."""
    local_path = os.path.join(DATA_DIR, filename)
    if os.path.exists(local_path):
        return local_path
    return f"{HF_BASE_URL}/{filename}"


@app.on_event("startup")
def startup():
    global db, registry

    # Ensure DuckDB temp directory exists before connecting.
    os.makedirs(DUCKDB_TEMP_DIR, exist_ok=True)

    # Initialize DuckDB with resource limits suitable for CPU Basic.
    db = duckdb.connect(":memory:")
    db.execute("INSTALL httpfs; LOAD httpfs;")
    db.execute(f"SET memory_limit='{DUCKDB_MEMORY_LIMIT}';")
    db.execute(f"SET threads={DUCKDB_THREADS};")
    db.execute(f"SET temp_directory='{DUCKDB_TEMP_DIR}';")
    db.execute("SET preserve_insertion_order=false;")

    # Resolve data sources (remote or local)
    results_src = _resolve_parquet("benchmark_results.parquet")
    features_src = _resolve_parquet("feature_importance.parquet")

    is_remote = results_src.startswith("http")
    mode = "remote httpfs" if is_remote else "local files"
    logger.info(
        "DuckDB settings — memory_limit=%s threads=%d temp_dir=%s mode=%s",
        DUCKDB_MEMORY_LIMIT, DUCKDB_THREADS, DUCKDB_TEMP_DIR, mode,
    )

    # Load both tables into memory for reliable, fast queries.
    # Total ~100MB in RAM — well within cpu-basic 2GB limit.
    try:
        db.execute(f"""
            CREATE TABLE results AS
            SELECT * FROM read_parquet('{results_src}')
        """)
    except Exception as exc:
        logger.error("STARTUP FAILED: could not load results table: %s", exc)
        raise RuntimeError(f"Failed to load results table: {exc}") from exc

    try:
        db.execute(f"""
            CREATE TABLE features AS
            SELECT * FROM read_parquet('{features_src}')
        """)
    except Exception as exc:
        logger.error("STARTUP FAILED: could not load features table: %s", exc)
        raise RuntimeError(f"Failed to load features table: {exc}") from exc

    n_results = db.execute("SELECT COUNT(*) FROM results").fetchone()[0]
    n_features = db.execute("SELECT COUNT(*) FROM features").fetchone()[0]
    logger.info("Tables loaded: %d results, %d features", n_results, n_features)

    # Load registry JSON (small file, always downloaded)
    registry_local = os.path.join(DATA_DIR, "benchmark_registry.json")
    if os.path.exists(registry_local):
        with open(registry_local) as f:
            registry = json.load(f)
    else:
        # Download from HF
        registry_url = f"{HF_BASE_URL}/benchmark_registry.json"
        try:
            with urllib.request.urlopen(registry_url) as resp:
                registry = json.loads(resp.read().decode())
            logger.info("Downloaded registry from %s", registry_url)
        except Exception as e:
            logger.warning("Could not load registry: %s", e)
            registry = {"project": {}, "blood_platforms": {},
                         "brain_targets": {}, "phases": {}, "models": {}}


@app.on_event("shutdown")
def shutdown():
    global db
    if db is not None:
        try:
            db.close()
            logger.info("DuckDB connection closed.")
        except Exception as exc:
            logger.warning("Error closing DuckDB connection: %s", exc)
        db = None


# =============================================================================
# Helpers
# =============================================================================

VALID_METRICS = {"r2", "pearson", "mse", "mae"}


def q(sql: str, params=None):
    """Run a query on an isolated DuckDB cursor.

    DuckDB Connection objects are NOT safe for concurrent use across
    requests — sharing the global ``db`` connection between overlapping
    FastAPI requests causes corrupted result state and hung responses.
    Cursors created via ``db.cursor()`` are cheap, isolated, and safe
    for concurrent queries against the same in-memory database.
    """
    cur = db.cursor()
    return cur.execute(sql, params) if params is not None else cur.execute(sql)


def validate_metric(metric: str) -> str:
    if metric not in VALID_METRICS:
        raise HTTPException(400, f"Invalid metric: {metric}. "
                            f"Must be one of {VALID_METRICS}")
    return metric


def covariate_phase(base_phase: str, covariates: str) -> str:
    """Map covariates param to actual phase name."""
    if covariates == "none":
        return base_phase
    elif covariates == "only":
        return f"{base_phase}_covonly"
    elif covariates == "included":
        return f"{base_phase}_withcov"
    return base_phase


# =============================================================================
# Endpoints
# =============================================================================

@app.get("/api/v1/registry")
def get_registry():
    """Full registry metadata."""
    return registry


@app.get("/api/v1/maxn/heatmap")
def maxn_heatmap(
    metric: str = Query("r2", description="Metric to aggregate"),
    covariates: str = Query("none", enum=["none", "only", "included"]),
    model: str = Query("TabPFN"),
):
    """
    Blood x brain heatmap data.
    Returns median metric across modules for each combination.
    """
    validate_metric(metric)
    phase = covariate_phase("maxn", covariates)

    rows = q(f"""
        SELECT blood_platform, brain_target,
               MEDIAN({metric}) as value,
               MEDIAN(n_samples) as n_samples,
               COUNT(*) as n_targets
        FROM results
        WHERE phase = ? AND model = ?
        GROUP BY blood_platform, brain_target
        ORDER BY blood_platform, brain_target
    """, [phase, model]).fetchall()

    if not rows:
        return {"rows": [], "cols": [], "values": [], "n_samples": [],
                "metric": metric, "covariates": covariates}

    # Build matrix
    blood_set = sorted(set(r[0] for r in rows))
    brain_set = sorted(set(r[1] for r in rows))

    values = [[None] * len(brain_set) for _ in range(len(blood_set))]
    n_samples = [[None] * len(brain_set) for _ in range(len(blood_set))]

    blood_idx = {b: i for i, b in enumerate(blood_set)}
    brain_idx = {b: i for i, b in enumerate(brain_set)}

    for blood, brain, val, ns, nt in rows:
        i = blood_idx[blood]
        j = brain_idx[brain]
        values[i][j] = round(val, 4) if val is not None else None
        n_samples[i][j] = int(ns) if ns is not None else None

    return {
        "rows": blood_set,
        "cols": brain_set,
        "values": values,
        "n_samples": n_samples,
        "metric": metric,
        "covariates": covariates,
        "model": model,
    }


@app.get("/api/v1/maxn/detail")
def maxn_detail(
    blood: str = Query(..., description="Blood platform name"),
    brain: str = Query(..., description="Brain target name"),
    covariates: str = Query("none", enum=["none", "only", "included"]),
    model: str = Query("TabPFN"),
):
    """Per-module results for one blood x brain combination."""
    phase = covariate_phase("maxn", covariates)

    rows = q("""
        SELECT target, n_samples, r2, pearson, mse, mae
        FROM results
        WHERE phase = ? AND blood_platform = ? AND brain_target = ?
              AND model = ?
        ORDER BY r2 DESC
    """, [phase, blood, brain, model]).fetchall()

    return {
        "blood": blood,
        "brain": brain,
        "covariates": covariates,
        "model": model,
        "targets": [
            {"target": r[0], "n_samples": r[1], "r2": r[2],
             "pearson": r[3], "mse": r[4], "mae": r[5]}
            for r in rows
        ],
    }


@app.get("/api/v1/h2h/blood")
def h2h_blood(
    pair: str = Query(..., description="Platform pair, e.g. SomaScan_vs_TMT"),
    brain: str = Query(..., description="Brain target name"),
    metric: str = Query("r2"),
    covariates: str = Query("none", enum=["none", "included"]),
    model: str = Query("TabPFN"),
):
    """Per-module comparison for a blood platform pair on one brain target."""
    validate_metric(metric)
    phase = "h2h_blood_withcov" if covariates == "included" else "h2h_blood"

    rows = q(f"""
        SELECT target, blood_platform, {metric}
        FROM results
        WHERE phase = ? AND h2h_pair = ? AND brain_target = ? AND model = ?
        ORDER BY target
    """, [phase, pair, brain, model]).fetchall()

    # Pivot: target -> {platform_a: val, platform_b: val}
    platforms = sorted(set(r[1] for r in rows))
    targets = {}
    for target, platform, val in rows:
        if target not in targets:
            targets[target] = {}
        targets[target][platform] = round(val, 4) if val is not None else None

    return {
        "pair": pair,
        "brain": brain,
        "platforms": platforms,
        "metric": metric,
        "targets": [
            {"target": t, **vals}
            for t, vals in sorted(targets.items())
        ],
    }


@app.get("/api/v1/h2h/blood/summary")
def h2h_blood_summary(
    metric: str = Query("r2"),
    covariates: str = Query("none", enum=["none", "included"]),
    model: str = Query("TabPFN"),
    brain: Optional[str] = Query(None, description="Restrict win counts to a single brain target"),
):
    """Win counts across blood H2H pairs.

    If ``brain`` is provided, wins are counted only against that brain
    target (e.g. ``neuropathology``). Otherwise wins are counted across
    every brain target in the H2H phase.
    """
    validate_metric(metric)
    phase = "h2h_blood_withcov" if covariates == "included" else "h2h_blood"

    sql = f"""
        SELECT h2h_pair, brain_target, target, blood_platform, {metric}
        FROM results
        WHERE phase = ? AND model = ? AND h2h_pair IS NOT NULL
    """
    params = [phase, model]
    if brain is not None:
        sql += " AND brain_target = ?"
        params.append(brain)
    sql += " ORDER BY h2h_pair, brain_target, target"

    rows = q(sql, params).fetchall()

    # Count wins per pair
    pair_wins = {}
    current = None
    buffer = {}

    for pair, row_brain, target, platform, val in rows:
        key = (pair, row_brain, target)
        if key != current:
            if current and len(buffer) == 2:
                pair_key = current[0]
                if pair_key not in pair_wins:
                    pair_wins[pair_key] = {}
                platforms = list(buffer.keys())
                v0, v1 = buffer[platforms[0]], buffer[platforms[1]]
                if v0 is not None and v1 is not None:
                    asc = metric in ("mse", "mae")
                    winner = platforms[0] if (v0 < v1 if asc else v0 > v1) else platforms[1]
                    pair_wins[pair_key][winner] = pair_wins[pair_key].get(winner, 0) + 1
            current = key
            buffer = {}
        buffer[platform] = val

    # Process last group
    if current and len(buffer) == 2:
        pair_key = current[0]
        if pair_key not in pair_wins:
            pair_wins[pair_key] = {}
        platforms = list(buffer.keys())
        v0, v1 = buffer[platforms[0]], buffer[platforms[1]]
        if v0 is not None and v1 is not None:
            asc = metric in ("mse", "mae")
            winner = platforms[0] if (v0 < v1 if asc else v0 > v1) else platforms[1]
            pair_wins[pair_key][winner] = pair_wins[pair_key].get(winner, 0) + 1

    # Ensure both platforms appear in every pair (with explicit 0 for sweeps).
    # Frontend ranking expects two-key win maps, otherwise pairs where one
    # platform wins every target get silently dropped from the ranking.
    for pair_key, wins in pair_wins.items():
        if "_vs_" in pair_key:
            a, b = pair_key.split("_vs_", 1)
            wins.setdefault(a, 0)
            wins.setdefault(b, 0)

    return {
        "metric": metric,
        "covariates": covariates,
        "brain": brain,
        "pairs": pair_wins,
    }


@app.get("/api/v1/h2h/brain")
def h2h_brain(
    blood: str = Query(..., description="Blood platform name"),
    metric: str = Query("r2"),
    covariates: str = Query("none", enum=["none", "included"]),
    model: str = Query("TabPFN"),
):
    """Compare brain targets for one blood platform."""
    validate_metric(metric)
    phase = "h2h_brain_withcov" if covariates == "included" else "h2h_brain"

    rows = q(f"""
        SELECT h2h_pair, brain_target, target, {metric}
        FROM results
        WHERE phase = ? AND blood_platform = ? AND model = ?
        ORDER BY h2h_pair, target
    """, [phase, blood, model]).fetchall()

    # Group by pair
    pairs = {}
    for pair, brain, target, val in rows:
        if pair not in pairs:
            pairs[pair] = {}
        if target not in pairs[pair]:
            pairs[pair][target] = {}
        pairs[pair][target][brain] = round(val, 4) if val is not None else None

    return {
        "blood": blood,
        "metric": metric,
        "pairs": pairs,
    }


@app.get("/api/v1/h2h/models")
def h2h_models(
    blood: str = Query(...),
    brain: str = Query(...),
    metric: str = Query("r2"),
    covariates: str = Query("none", enum=["none", "included"]),
):
    """Compare models for one blood x brain combination (future)."""
    validate_metric(metric)
    phase = covariate_phase("maxn", covariates)

    rows = q(f"""
        SELECT target, model, {metric}
        FROM results
        WHERE phase = ? AND blood_platform = ? AND brain_target = ?
        ORDER BY target, model
    """, [phase, blood, brain]).fetchall()

    models = sorted(set(r[1] for r in rows))
    targets = {}
    for target, model, val in rows:
        if target not in targets:
            targets[target] = {}
        targets[target][model] = round(val, 4) if val is not None else None

    return {
        "blood": blood,
        "brain": brain,
        "models": models,
        "metric": metric,
        "targets": [
            {"target": t, **vals}
            for t, vals in sorted(targets.items())
        ],
    }


@app.get("/api/v1/temporal")
def temporal(
    target: Optional[str] = Query(None, description="Specific target (e.g., gpath)"),
    metric: str = Query("r2"),
    covariates: str = Query("none", enum=["none", "included"]),
    model: str = Query("TabPFN"),
):
    """Temporal decay results: metric across time bins."""
    validate_metric(metric)
    phase = "temporal_withcov" if covariates == "included" else "temporal"

    if target:
        rows = q(f"""
            SELECT temporal_bin, brain_target, target, {metric}, n_samples
            FROM results
            WHERE phase = ? AND model = ? AND target = ?
            ORDER BY temporal_bin
        """, [phase, model, target]).fetchall()
    else:
        rows = q(f"""
            SELECT temporal_bin, brain_target, target, {metric}, n_samples
            FROM results
            WHERE phase = ? AND model = ?
            ORDER BY temporal_bin, target
        """, [phase, model]).fetchall()

    results = [
        {"bin": r[0], "brain_target": r[1], "target": r[2],
         "value": round(r[3], 4) if r[3] is not None else None,
         "n_samples": r[4]}
        for r in rows
    ]

    return {
        "metric": metric,
        "covariates": covariates,
        "results": results,
    }


@app.get("/api/v1/features")
def feature_importance(
    blood: str = Query(...),
    brain: str = Query(...),
    target: str = Query(...),
    phase: str = Query("maxn"),
    model: str = Query("TabPFN"),
    limit: int = Query(30, ge=1, le=100),
):
    """Top features for a specific module/target."""
    rows = q("""
        SELECT feature_name, importance, rank
        FROM features
        WHERE phase = ? AND blood_platform = ? AND brain_target = ?
              AND target = ? AND model = ?
        ORDER BY rank
        LIMIT ?
    """, [phase, blood, brain, target, model, limit]).fetchall()

    return {
        "blood": blood,
        "brain": brain,
        "target": target,
        "phase": phase,
        "features": [
            {"feature": r[0], "importance": round(r[1], 4), "rank": r[2]}
            for r in rows
        ],
    }


@app.get("/api/v1/features/cross")
def feature_cross_target(
    blood: str = Query(...),
    brain: str = Query(...),
    phase: str = Query("maxn"),
    model: str = Query("TabPFN"),
    limit: int = Query(30, ge=1, le=100),
):
    """Aggregated feature importance across all modules in a brain target."""
    rows = q("""
        SELECT feature_name,
               AVG(importance) as mean_importance,
               COUNT(DISTINCT target) as n_targets,
               MIN(rank) as best_rank
        FROM features
        WHERE phase = ? AND blood_platform = ? AND brain_target = ? AND model = ?
        GROUP BY feature_name
        ORDER BY mean_importance DESC
        LIMIT ?
    """, [phase, blood, brain, model, limit]).fetchall()

    return {
        "blood": blood,
        "brain": brain,
        "phase": phase,
        "features": [
            {"feature": r[0], "mean_importance": round(r[1], 4),
             "n_targets": r[2], "best_rank": r[3]}
            for r in rows
        ],
    }


@app.get("/api/v1/maxn/panel_summary")
def maxn_panel_summary(
    blood: str = Query(..., description="Blood platform name"),
    metric: str = Query("r2"),
    covariates: str = Query("none", enum=["none", "only", "included"]),
    model: str = Query("TabPFN"),
):
    """
    Summary of one predictor panel across all outcome panels.
    Returns mean, min, max, n_targets, and median n_samples per outcome.
    Replaces N calls to /maxn/detail with a single query.
    """
    validate_metric(metric)
    phase = covariate_phase("maxn", covariates)

    rows = q(f"""
        SELECT brain_target,
               AVG({metric}) as mean_val,
               MIN({metric}) as min_val,
               MAX({metric}) as max_val,
               COUNT(*) as n_targets,
               MEDIAN(n_samples) as n_samples
        FROM results
        WHERE phase = ? AND blood_platform = ? AND model = ?
        GROUP BY brain_target
        ORDER BY mean_val DESC
    """, [phase, blood, model]).fetchall()

    return {
        "blood": blood,
        "metric": metric,
        "covariates": covariates,
        "outcomes": [
            {
                "brain_target": r[0],
                "mean": round(r[1], 4) if r[1] is not None else None,
                "min": round(r[2], 4) if r[2] is not None else None,
                "max": round(r[3], 4) if r[3] is not None else None,
                "n_targets": r[4],
                "n_samples": int(r[5]) if r[5] is not None else None,
            }
            for r in rows
        ],
    }


@app.get("/api/v1/maxn/outcome_summary")
def maxn_outcome_summary(
    brain: str = Query(..., description="Brain target name"),
    metric: str = Query("r2"),
    covariates: str = Query("none", enum=["none", "only", "included"]),
    model: str = Query("TabPFN"),
):
    """
    Summary of one outcome panel across all predictor panels.
    Returns mean, min, max, n_targets, and median n_samples per predictor.
    Replaces N calls to /maxn/detail with a single query.
    """
    validate_metric(metric)
    phase = covariate_phase("maxn", covariates)

    rows = q(f"""
        SELECT blood_platform,
               AVG({metric}) as mean_val,
               MIN({metric}) as min_val,
               MAX({metric}) as max_val,
               COUNT(*) as n_targets,
               MEDIAN(n_samples) as n_samples
        FROM results
        WHERE phase = ? AND brain_target = ? AND model = ?
        GROUP BY blood_platform
        ORDER BY mean_val DESC
    """, [phase, brain, model]).fetchall()

    return {
        "brain": brain,
        "metric": metric,
        "covariates": covariates,
        "predictors": [
            {
                "blood_platform": r[0],
                "mean": round(r[1], 4) if r[1] is not None else None,
                "min": round(r[2], 4) if r[2] is not None else None,
                "max": round(r[3], 4) if r[3] is not None else None,
                "n_targets": r[4],
                "n_samples": int(r[5]) if r[5] is not None else None,
            }
            for r in rows
        ],
    }


@app.get("/api/v1/maxn/target_comparison")
def maxn_target_comparison(
    brain: str = Query(..., description="Brain target name"),
    target: str = Query(..., description="Specific target/module name"),
    metric: str = Query("r2"),
    covariates: str = Query("none", enum=["none", "only", "included"]),
    model: str = Query("TabPFN"),
):
    """
    Per-predictor performance for a specific target within an outcome panel.
    E.g., how each blood platform predicts module m4 of bulkrnaseq_dlpfc.
    Replaces N calls to /maxn/detail with a single query.
    """
    validate_metric(metric)
    phase = covariate_phase("maxn", covariates)

    rows = q(f"""
        SELECT blood_platform, {metric}, n_samples
        FROM results
        WHERE phase = ? AND brain_target = ? AND target = ? AND model = ?
        ORDER BY {metric} DESC
    """, [phase, brain, target, model]).fetchall()

    return {
        "brain": brain,
        "target": target,
        "metric": metric,
        "covariates": covariates,
        "predictors": [
            {
                "blood_platform": r[0],
                "value": round(r[1], 4) if r[1] is not None else None,
                "n_samples": r[2],
            }
            for r in rows
        ],
    }


@app.get("/api/v1/health")
def health():
    """Health check — returns row counts or degraded status if DB unavailable."""
    if db is None:
        return JSONResponse(
            status_code=503,
            content={"status": "degraded", "detail": "Database not initialized"},
        )
    try:
        n_results = q("SELECT COUNT(*) FROM results").fetchone()[0]
        n_features = q("SELECT COUNT(*) FROM features").fetchone()[0]
    except Exception as exc:
        logger.error("Health check query failed: %s", exc)
        return JSONResponse(
            status_code=503,
            content={"status": "degraded", "detail": "Database query failed"},
        )
    return {"status": "ok", "n_results": n_results, "n_features": n_features}


@app.get("/api/v1/ready")
def ready():
    """Readiness probe — verifies DB connectivity with a trivial query."""
    if db is None:
        return JSONResponse(
            status_code=503,
            content={"ready": False, "detail": "Database not initialized"},
        )
    try:
        q("SELECT 1").fetchone()
    except Exception as exc:
        logger.error("Ready check query failed: %s", exc)
        return JSONResponse(
            status_code=503,
            content={"ready": False, "detail": "Database query failed"},
        )
    return {"ready": True}