mirror of
https://github.com/the-jordan-lab/docs.git
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84 lines
2.6 KiB
Python
Executable File
84 lines
2.6 KiB
Python
Executable File
#!/usr/bin/env python3
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"""
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Test script to verify environment setup for Lab Agent.
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Run this in your Codespace to diagnose issues.
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"""
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import os
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import sys
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import importlib
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import subprocess
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def check_dependency(module_name):
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"""Check if a Python module is installed and can be imported."""
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try:
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importlib.import_module(module_name)
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return True
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except ImportError:
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return False
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def check_command(command):
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"""Check if a shell command exists and can be executed."""
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try:
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subprocess.run(command, shell=True, check=True, capture_output=True)
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return True
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except subprocess.CalledProcessError:
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return False
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def main():
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print("🔍 Lab Agent Environment Test")
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print("-----------------------------")
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# Check Python version
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print(f"Python version: {sys.version}")
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# Check required modules
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print("\n📦 Checking Python dependencies:")
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dependencies = [
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"openai", "yaml", "chromadb", "git", "Bio", "requests",
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"langchain", "faiss", "json"
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]
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for dep in dependencies:
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status = "✅" if check_dependency(dep) else "❌"
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print(f"{status} {dep}")
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# Check environment variables
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print("\n🔑 Checking environment variables:")
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env_vars = ["OPENAI_API_KEY", "GITHUB_TOKEN"]
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for var in env_vars:
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value = os.environ.get(var)
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if value:
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# Hide actual key values
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display = f"{value[:4]}...{value[-4:]}" if len(value) > 8 else "****"
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print(f"✅ {var} = {display}")
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else:
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print(f"❌ {var} is not set")
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# Check file structure
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print("\n📁 Checking repository structure:")
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directories = ["Agent", "Protocols", "Experiments", "Data", "Templates"]
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for directory in directories:
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if os.path.isdir(directory):
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print(f"✅ {directory}/ exists")
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else:
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print(f"❌ {directory}/ is missing")
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# Check GitHub CLI
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print("\n🔧 Checking GitHub CLI:")
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if check_command("gh --version"):
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print("✅ GitHub CLI is installed")
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# Check if authenticated
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if check_command("gh auth status"):
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print("✅ GitHub CLI is authenticated")
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else:
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print("❌ GitHub CLI is not authenticated")
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else:
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print("❌ GitHub CLI is not installed")
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print("\n-----------------------------")
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print("If you see any ❌ errors above, they need to be fixed before the Lab Agent will work properly.")
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print("For GitHub authentication in Codespaces, try running 'gh auth status' and follow any prompts.")
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if __name__ == "__main__":
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main() |