genesis/trials.py

# genesis/trials.py
import requests
from typing import List, Dict

CLINICAL_TRIALS_API = "https://clinicaltrials.gov/api/query/study_fields"

def search_clinical_trials(query: str, max_results: int = 5) -> List[Dict]:
    """
    Search ClinicalTrials.gov for trials matching the query.
    
    Returns a list of dictionaries with:
    - title
    - status
    - nct_id
    - locations
    - url
    """
    try:
        params = {
            "expr": query,
            "fields": "NCTId,BriefTitle,OverallStatus,LocationCity,LocationCountry",
            "min_rnk": 1,
            "max_rnk": max_results,
            "fmt": "json"
        }
        r = requests.get(CLINICAL_TRIALS_API, params=params, timeout=15)
        r.raise_for_status()
        data = r.json()

        studies = data.get("StudyFieldsResponse", {}).get("StudyFields", [])
        results = []
        for s in studies:
            nct_id = s.get("NCTId", [""])[0]
            title = s.get("BriefTitle", [""])[0]
            status = s.get("OverallStatus", [""])[0]
            cities = s.get("LocationCity", [])
            countries = s.get("LocationCountry", [])
            locations = [f"{c}, {countries[i]}" if i < len(countries) else c 
                         for i, c in enumerate(cities)]
            results.append({
                "title": title,
                "status": status,
                "nct_id": nct_id,
                "locations": locations,
                "url": f"https://clinicaltrials.gov/study/{nct_id}"
            })
        return results
    except Exception as e:
        print(f"[ClinicalTrials] Failed: {e}")
        return []

def format_trials_markdown(trials: List[Dict]) -> str:
    """Convert trials list into markdown table."""
    if not trials:
        return "No clinical trials found."
    md = "| Title | Status | NCT ID | Locations |\n|-------|--------|--------|-----------|\n"
    for t in trials:
        loc_str = ", ".join(t["locations"]) if t["locations"] else "N/A"
        md += f"| [{t['title']}]({t['url']}) | {t['status']} | [{t['nct_id']}]({t['url']}) | {loc_str} |\n"
    return md