from agents.mcp import MCPServerStdio
async with MCPServerStdio(
    name="OpenAlex MCP For Author disambiguation and works",
    cache_tools_list=True,
    params={
        "command": "uvx",
        "args": [
            "--from", "git+https://github.com/drAbreu/alex-mcp.git@4.1.0",
            "alex-mcp"
        ],
        "env": {
            "OPENALEX_MAILTO": "your-email@domain.com"
        }
    },
    client_session_timeout_seconds=10
) as alex_mcp:
    await alex_mcp.connect()
    tools = await alex_mcp.list_tools()
    print(f"Available tools: {[tool.name for tool in tools]}")

# Optimized for academic research workflows
from alex_agent import run_author_research
# Enhanced functionality with streamlined data
result = await run_author_research(
    "Find J. Abreu at EMBO with recent publications"
)
# Clean, structured output for AI processing
print(f"Success: {result['workflow_metadata']['success']}")
print(f"Quality: {result['research_result']['metadata']['result_analysis']['quality_score']}/100")

# Target high-impact journal articles
works = await retrieve_author_works(
    author_id="https://openalex.org/A123456789",
    type="journal-article",      # Focus on journal publications
    open_access_is_oa=True,      # Open access only
    order_by="citations",        # Most cited first
    limit=15
)
# Career transition analysis
authors = await search_authors(
    name="J. Abreu",
    institution="EMBO",          # Current institution
    topic="Machine Learning",    # Research focus
    limit=10
)

from alex_mcp.server import search_authors_core
# Comprehensive author search
results = search_authors_core(
    name="J Abreu Vicente",
    institution="EMBO",
    topic="Machine Learning",
    limit=20
)
print(f"Found {results.total_count} candidates")
for author in results.results:
    print(f"- {author.display_name}")
    if author.affiliations:
        current_inst = author.affiliations[0].institution.display_name
        print(f"  Institution: {current_inst}")
    print(f"  Metrics: {author.cited_by_count} citations, h-index {author.summary_stats.h_index}")
    if author.x_concepts:
        fields = [c.display_name for c in author.x_concepts[:3]]
        print(f"  Research: {', '.join(fields)}")

from alex_mcp.server import retrieve_author_works_core
# Comprehensive work retrieval
works = retrieve_author_works_core(
    author_id="https://openalex.org/A5058921480",
    type="journal-article",      # Academic focus
    order_by="citations",        # Impact-based ordering
    limit=20
)
print(f"Found {works.total_count} publications")
for work in works.results:
    print(f"- {work.title}")
    if work.locations:
        journal = work.locations[0].source.display_name
        print(f"  Published in: {journal} ({work.publication_year})")
    print(f"  Impact: {work.cited_by_count} citations")
    if work.open_access and work.open_access.is_oa:
        print("  ✓ Open Access")

# Analyze career transitions
def analyze_career_path(author_result):
    affiliations = author_result.affiliations
    if len(affiliations) > 1:
        print("Career path:")
        for aff in sorted(affiliations, key=lambda x: min(x.years)):
            years = f"{min(aff.years)}-{max(aff.years)}"
            print(f"  {years}: {aff.institution.display_name}")
    
    # Research evolution
    if author_result.x_concepts:
        print("Research areas:")
        for concept in author_result.x_concepts[:5]:
            print(f"  {concept.display_name} (score: {concept.score:.2f})")
# Usage
results = search_authors_core("Jorge Abreu Vicente")
if results.results:
    analyze_career_path(results.results[0])

# For comprehensive research applications
config = {
    "max_authors_per_query": 25,     # Detailed author analysis
    "max_works_per_author": 50,      # Complete publication history
    "enable_all_filters": True,      # Full filtering capabilities
    "detailed_affiliations": True,   # Complete institutional data
    "research_concepts": True        # Detailed concept analysis
}

# Enhanced academic research agent
from alex_agent import AcademicResearchAgent
agent = AcademicResearchAgent(
    mcp_servers=[alex_mcp],  # Streamlined data processing
    model="gpt-4.1-2025-04-14"
)
# Complex research queries with structured data
result = await agent.research_author(
    "Find J. Abreu at EMBO with machine learning publications"
)
# Rich, structured output for AI reasoning
print(f"Quality Score: {result.quality_score}/100")
print(f"Author disambiguation: {result.confidence}")
print(f"Research fields: {result.research_domains}")

# Collaborative research analysis
async def research_collaboration_network(seed_author):
    # Find primary author
    authors = await alex_mcp.search_authors(seed_author)
    primary = authors['results'][0]
    
    # Get their works
    works = await alex_mcp.retrieve_author_works(
        primary['id'], 
        type="journal-article"
    )
    
    # Analyze co-authors and build network
    collaborators = set()
    for work in works['results']:
        for authorship in work.get('authorships', []):
            collaborators.add(authorship['author']['display_name'])
    
    return {
        'primary_author': primary,
        'publication_count': len(works['results']),
        'collaborator_network': list(collaborators),
        'research_impact': sum(w['cited_by_count'] for w in works['results'])
    }