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"""
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Test Suite for Cancer@Home v2
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Run with: pytest test_cancer_at_home.py
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"""
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import pytest
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from pathlib import Path
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class TestConfiguration:
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"""Test configuration file"""
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def test_config_exists(self):
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"""Check if config file exists"""
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assert Path("config.yml").exists()
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def test_requirements_exists(self):
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"""Check if requirements file exists"""
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assert Path("requirements.txt").exists()
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class TestBOINC:
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"""Test BOINC integration"""
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def test_boinc_client_import(self):
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"""Test BOINC client can be imported"""
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from backend.boinc import BOINCClient
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assert BOINCClient is not None
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def test_boinc_task_submission(self):
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"""Test task submission"""
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from backend.boinc import BOINCClient
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client = BOINCClient()
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task_id = client.submit_task("test_task", "test_input.txt")
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assert task_id is not None
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assert task_id.startswith("wu_")
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task = client.get_task_status(task_id)
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assert task is not None
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assert task.status == "pending"
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class TestGDC:
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"""Test GDC integration"""
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def test_gdc_client_import(self):
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"""Test GDC client can be imported"""
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from backend.gdc import GDCClient
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assert GDCClient is not None
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def test_gdc_client_initialization(self):
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"""Test GDC client initialization"""
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from backend.gdc import GDCClient
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client = GDCClient()
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assert client.api_url == "https://api.gdc.cancer.gov"
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class TestPipeline:
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"""Test bioinformatics pipeline"""
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def test_fastq_processor_import(self):
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"""Test FASTQ processor import"""
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from backend.pipeline import FASTQProcessor
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assert FASTQProcessor is not None
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def test_blast_runner_import(self):
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"""Test BLAST runner import"""
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from backend.pipeline import BLASTRunner
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assert BLASTRunner is not None
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def test_variant_caller_import(self):
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"""Test variant caller import"""
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from backend.pipeline import VariantCaller
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assert VariantCaller is not None
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class TestNeo4j:
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"""Test Neo4j integration"""
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def test_db_manager_import(self):
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"""Test database manager import"""
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from backend.neo4j import DatabaseManager
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assert DatabaseManager is not None
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def test_repositories_import(self):
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"""Test repository imports"""
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from backend.neo4j import (
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GeneRepository,
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MutationRepository,
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PatientRepository,
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CancerTypeRepository
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)
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assert GeneRepository is not None
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assert MutationRepository is not None
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assert PatientRepository is not None
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assert CancerTypeRepository is not None
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class TestAPI:
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"""Test API endpoints"""
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def test_api_import(self):
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"""Test API can be imported"""
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from backend.api import app
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assert app is not None
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def test_api_title(self):
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"""Test API metadata"""
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from backend.api import app
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assert app.title == "Cancer@Home v2"
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assert app.version == "2.0.0"
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class TestDirectoryStructure:
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"""Test directory structure"""
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def test_backend_exists(self):
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"""Check backend directory"""
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assert Path("backend").exists()
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assert Path("backend/__init__.py").exists()
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def test_modules_exist(self):
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"""Check all modules exist"""
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modules = [
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"backend/api",
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"backend/boinc",
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"backend/gdc",
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"backend/neo4j",
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"backend/pipeline"
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]
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for module in modules:
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assert Path(module).exists()
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assert Path(f"{module}/__init__.py").exists()
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def test_frontend_exists(self):
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"""Check frontend files"""
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assert Path("frontend").exists()
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assert Path("frontend/index.html").exists()
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def test_documentation_exists(self):
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"""Check documentation files"""
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docs = [
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"README.md",
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"QUICKSTART.md",
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"USER_GUIDE.md",
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"GRAPHQL_EXAMPLES.md",
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"PROJECT_SUMMARY.md"
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]
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for doc in docs:
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assert Path(doc).exists()
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class TestSetupScripts:
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"""Test setup scripts"""
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def test_setup_scripts_exist(self):
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"""Check setup scripts"""
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assert Path("setup.ps1").exists()
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assert Path("setup.sh").exists()
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def test_run_script_exists(self):
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"""Check run script"""
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assert Path("run.py").exists()
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def test_docker_compose_exists(self):
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"""Check Docker compose file"""
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assert Path("docker-compose.yml").exists()
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if __name__ == "__main__":
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pytest.main([__file__, "-v"])
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