[build-system]
requires = ["setuptools>=77"]
build-backend = "setuptools.build_meta"

[project]
name = "universal-research-mcp"
version = "0.10.1"
description = "Governed MCP for provenance-first research memory, evidence re-verification, and controlled canonical ingestion."
readme = "README.md"
requires-python = ">=3.11"
license = "MIT"
license-files = ["LICENSE"]
authors = [{name = "mp-juns"}]
keywords = ["codex", "mcp", "research", "provenance", "audit", "reproducibility", "urmcp"]
classifiers = [
  "Development Status :: 3 - Alpha",
  "Intended Audience :: Science/Research",
  "Programming Language :: Python :: 3",
  "Programming Language :: Python :: 3.11",
  "Programming Language :: Python :: 3.12",
  "Programming Language :: Python :: 3.13",
  "Topic :: Scientific/Engineering :: Information Analysis",
]
dependencies = ["mcp>=1.27,<2"]

[project.urls]
Homepage = "https://github.com/mp-juns/universal-research-mcp"
Repository = "https://github.com/mp-juns/universal-research-mcp"
Issues = "https://github.com/mp-juns/universal-research-mcp/issues"
Documentation = "https://github.com/mp-juns/universal-research-mcp/blob/main/docs/user-guide.md"

[project.optional-dependencies]
test = [
  "jsonschema[format]>=4.25",
  "numpy>=1.26",
  "pytest>=8",
  "watchdog>=4",
]
semantic = [
  "huggingface-hub>=0.23",
  "numpy>=1.26",
  "safetensors>=0.4",
  "sentence-transformers>=3",
  "torch>=2.2",
  "transformers>=4.40",
]

[project.scripts]
universal-research-mcp = "universal_research_mcp.cli:legacy_main"
universal-research-governance = "universal_research_mcp.governance_server:main"
universal-research = "universal_research_mcp.cli:main"
urmcp = "universal_research_mcp.cli:main"
urgov = "universal_research_mcp.governance.cli:main"

[tool.setuptools]
packages = ["universal_research_mcp", "universal_research_mcp.adapters", "universal_research_mcp.core", "universal_research_mcp.governance", "universal_research_mcp.indexing", "universal_research_mcp.integrations", "universal_research_mcp.integrations.codex", "universal_research_mcp.runtime", "universal_research_mcp.secure_harness", "universal_research_mcp.tools"]

[tool.setuptools.package-data]
"universal_research_mcp.governance" = ["roles/*/role.yaml", "roles/*/instructions.md", "schemas/*.json"]

[tool.ruff]
target-version = "py311"
src = ["universal_research_mcp"]

[tool.ruff.lint]
select = ["E4", "E7", "E9", "F"]

[tool.mypy]
python_version = "3.11"
files = ["universal_research_mcp"]
ignore_missing_imports = true
# Pre-existing gradual-typing categories stay excluded from the release
# gate; strict typing is re-enabled per-module below for the core boundaries.
disable_error_code = ["arg-type", "assignment", "attr-defined", "call-overload", "dict-item", "misc", "operator", "union-attr"]

[[tool.mypy.overrides]]
module = [
  "universal_research_mcp.core.claim_gate",
  "universal_research_mcp.core.canonical_io",
  "universal_research_mcp.core.ingest",
  "universal_research_mcp.public_demo",
  "universal_research_mcp.runtime.ingest_approval",
  "universal_research_mcp.runtime.project_io",
  "universal_research_mcp.runtime.model_snapshot",
]
enable_error_code = ["arg-type", "assignment", "attr-defined", "operator", "union-attr"]

[tool.setuptools.data-files]
"share/universal-research-mcp/docs" = [
  "docs/architecture.md",
  "docs/failure-policy.md",
  "docs/host-integration.md",
  "docs/legacy-retrieval-migration.md",
  "docs/public-demo.md",
  "docs/research-operations-specification.md",
  "docs/secure-harness.md",
  "docs/semantic-retrieval.md",
  "docs/security.md",
  "docs/user-guide.md",
]
"share/universal-research-mcp/docs/decisions" = ["docs/decisions/*.md"]
"share/universal-research-mcp/schemas" = ["schemas/*.json"]
"share/universal-research-mcp/packs/study_type" = ["packs/study_type/*.yaml"]
"share/universal-research-mcp/plugin/universal-research-memory" = [
  "plugin/universal-research-memory/.mcp.json",
]
"share/universal-research-mcp/plugin/universal-research-memory/.codex-plugin" = [
  "plugin/universal-research-memory/.codex-plugin/plugin.json",
]
"share/universal-research-mcp/plugin/universal-research-memory/hooks" = [
  "plugin/universal-research-memory/hooks/hooks.json",
  "plugin/universal-research-memory/hooks/session-scope.md",
]
"share/universal-research-mcp/plugin/universal-research-memory/scripts" = [
  "plugin/universal-research-memory/scripts/session_start.py",
]
"share/universal-research-mcp/plugin/universal-research-memory/skills/research-workflow" = [
  "plugin/universal-research-memory/skills/research-workflow/SKILL.md",
]
"share/universal-research-mcp/plugin/universal-research-memory/skills/research-governance" = [
  "plugin/universal-research-memory/skills/research-governance/SKILL.md",
]
"share/universal-research-mcp/plugin/universal-research-memory/skills/research-governance/agents" = [
  "plugin/universal-research-memory/skills/research-governance/agents/openai.yaml",
]