bijux-proteomics-knowledge 0.3.0__tar.gz
This diff represents the content of publicly available package versions that have been released to one of the supported registries. The information contained in this diff is provided for informational purposes only and reflects changes between package versions as they appear in their respective public registries.
- bijux_proteomics_knowledge-0.3.0/.gitignore +155 -0
- bijux_proteomics_knowledge-0.3.0/CHANGELOG.md +23 -0
- bijux_proteomics_knowledge-0.3.0/PKG-INFO +77 -0
- bijux_proteomics_knowledge-0.3.0/README.md +46 -0
- bijux_proteomics_knowledge-0.3.0/docs/maintainer/pypi.md +14 -0
- bijux_proteomics_knowledge-0.3.0/pyproject.toml +60 -0
- bijux_proteomics_knowledge-0.3.0/src/bijux_proteomics_knowledge/py.typed +1 -0
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# Changelog
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All notable changes for `bijux-proteomics-knowledge` are recorded here.
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## 0.3.0 - 2026-04-06
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### Added
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- Canonical package maintainer documentation and package-level architecture
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references were added.
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### Changed
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- Package metadata now follows unified repository, issue, and documentation URL
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standards.
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## 0.1.0 - 2026-04-06
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### Added
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- Evidence bundle and claim modeling with schema-aware serialization behavior.
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- Trust scoring, freshness checks, and conflict detection semantics.
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- Conflict-resolution actions and graph validation utilities.
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Metadata-Version: 2.4
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Name: bijux-proteomics-knowledge
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Version: 0.3.0
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Summary: Evidence models for Bijux Proteomics
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Project-URL: Homepage, https://bijux.io/bijux-proteomics/
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Project-URL: Documentation, https://bijux.io/bijux-proteomics/
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Project-URL: Repository, https://github.com/bijux/bijux-proteomics
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Project-URL: Issues, https://github.com/bijux/bijux-proteomics/issues
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Project-URL: Changelog, https://github.com/bijux/bijux-proteomics/blob/main/packages/bijux-proteomics-knowledge/CHANGELOG.md
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Project-URL: Security, https://github.com/bijux/bijux-proteomics/blob/main/SECURITY.md
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Author-email: Bijan Mousavi <bijan@bijux.io>
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Maintainer-email: Bijan Mousavi <bijan@bijux.io>
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License: Apache-2.0
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Keywords: conflict-resolution,evidence-graph,knowledge-governance,proteomics,trust-scoring
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Classifier: Development Status :: 3 - Alpha
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Classifier: Intended Audience :: Developers
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Classifier: Intended Audience :: Science/Research
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Classifier: License :: OSI Approved :: Apache Software License
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Classifier: Operating System :: OS Independent
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Classifier: Programming Language :: Python :: 3
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Classifier: Programming Language :: Python :: 3 :: Only
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Classifier: Programming Language :: Python :: 3.11
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Classifier: Programming Language :: Python :: 3.12
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Classifier: Programming Language :: Python :: 3.13
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Classifier: Programming Language :: Python :: 3.14
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Classifier: Typing :: Typed
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Requires-Python: >=3.11
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Requires-Dist: bijux-proteomics-foundation>=0.3.0
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Requires-Dist: pydantic>=2.0.2
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Description-Content-Type: text/markdown
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# bijux-proteomics-knowledge
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[](https://pypi.org/project/bijux-proteomics-knowledge/)
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[-0A7BBB)](https://pypi.org/project/bijux-proteomics-knowledge/)
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[](https://github.com/bijux/bijux-proteomics/blob/main/LICENSE)
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[](https://github.com/bijux/bijux-proteomics/actions/workflows/ci-bijux-proteomics-knowledge.yml)
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[](https://github.com/bijux/bijux-proteomics)
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`bijux-proteomics-knowledge` models the evidence layer that supports or blocks
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program decisions through explicit claims, trust scoring, and contradiction
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resolution.
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If you need to track why a decision was made, what evidence conflicts exist, or
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which gaps still block progression, start with this package.
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## What this package owns
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- evidence record and bundle models with schema-aware serialization
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- trust and freshness scoring for evidence posture
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- conflict detection, resolution actions, and claim belief updates
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- evidence graph validation and decision-lineage construction
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## What this package does not own
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- core program stage transitions and review gate ownership
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- candidate ranking policy and scenario decision synthesis
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- lab scheduling and assay execution outcomes
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## Source map
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- [`src/bijux_proteomics_knowledge/evidence.py`](https://github.com/bijux/bijux-proteomics/blob/main/packages/bijux-proteomics-knowledge/src/bijux_proteomics_knowledge/evidence.py) for evidence models, scoring, and conflict detection
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- [`src/bijux_proteomics_knowledge/resolution.py`](https://github.com/bijux/bijux-proteomics/blob/main/packages/bijux-proteomics-knowledge/src/bijux_proteomics_knowledge/resolution.py) for conflict-resolution policies
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- [`src/bijux_proteomics_knowledge/graph.py`](https://github.com/bijux/bijux-proteomics/blob/main/packages/bijux-proteomics-knowledge/src/bijux_proteomics_knowledge/graph.py) for evidence graph rules
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- [`src/bijux_proteomics_knowledge/claims.py`](https://github.com/bijux/bijux-proteomics/blob/main/packages/bijux-proteomics-knowledge/src/bijux_proteomics_knowledge/claims.py) for claim modeling and knowledge gap audits
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- [`tests`](https://github.com/bijux/bijux-proteomics/tree/main/packages/bijux-proteomics-knowledge/tests) for executable package expectations
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## Read this next
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- [Architecture](https://github.com/bijux/bijux-proteomics/blob/main/packages/bijux-proteomics-knowledge/docs/ARCHITECTURE.md)
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- [Boundaries](https://github.com/bijux/bijux-proteomics/blob/main/packages/bijux-proteomics-knowledge/docs/BOUNDARIES.md)
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- [Contracts](https://github.com/bijux/bijux-proteomics/blob/main/packages/bijux-proteomics-knowledge/docs/CONTRACTS.md)
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- [PyPI maintainer notes](https://github.com/bijux/bijux-proteomics/blob/main/packages/bijux-proteomics-knowledge/docs/maintainer/pypi.md)
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## Primary entrypoint
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- import-first library package; no console script is published
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# bijux-proteomics-knowledge
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[](https://pypi.org/project/bijux-proteomics-knowledge/)
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[-0A7BBB)](https://pypi.org/project/bijux-proteomics-knowledge/)
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[](https://github.com/bijux/bijux-proteomics/blob/main/LICENSE)
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[](https://github.com/bijux/bijux-proteomics/actions/workflows/ci-bijux-proteomics-knowledge.yml)
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[](https://github.com/bijux/bijux-proteomics)
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`bijux-proteomics-knowledge` models the evidence layer that supports or blocks
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program decisions through explicit claims, trust scoring, and contradiction
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resolution.
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If you need to track why a decision was made, what evidence conflicts exist, or
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which gaps still block progression, start with this package.
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## What this package owns
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- evidence record and bundle models with schema-aware serialization
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- trust and freshness scoring for evidence posture
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- conflict detection, resolution actions, and claim belief updates
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- evidence graph validation and decision-lineage construction
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## What this package does not own
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- core program stage transitions and review gate ownership
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- candidate ranking policy and scenario decision synthesis
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- lab scheduling and assay execution outcomes
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## Source map
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- [`src/bijux_proteomics_knowledge/evidence.py`](https://github.com/bijux/bijux-proteomics/blob/main/packages/bijux-proteomics-knowledge/src/bijux_proteomics_knowledge/evidence.py) for evidence models, scoring, and conflict detection
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- [`src/bijux_proteomics_knowledge/resolution.py`](https://github.com/bijux/bijux-proteomics/blob/main/packages/bijux-proteomics-knowledge/src/bijux_proteomics_knowledge/resolution.py) for conflict-resolution policies
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- [`src/bijux_proteomics_knowledge/graph.py`](https://github.com/bijux/bijux-proteomics/blob/main/packages/bijux-proteomics-knowledge/src/bijux_proteomics_knowledge/graph.py) for evidence graph rules
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- [`src/bijux_proteomics_knowledge/claims.py`](https://github.com/bijux/bijux-proteomics/blob/main/packages/bijux-proteomics-knowledge/src/bijux_proteomics_knowledge/claims.py) for claim modeling and knowledge gap audits
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- [`tests`](https://github.com/bijux/bijux-proteomics/tree/main/packages/bijux-proteomics-knowledge/tests) for executable package expectations
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## Read this next
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- [Architecture](https://github.com/bijux/bijux-proteomics/blob/main/packages/bijux-proteomics-knowledge/docs/ARCHITECTURE.md)
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- [Boundaries](https://github.com/bijux/bijux-proteomics/blob/main/packages/bijux-proteomics-knowledge/docs/BOUNDARIES.md)
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- [Contracts](https://github.com/bijux/bijux-proteomics/blob/main/packages/bijux-proteomics-knowledge/docs/CONTRACTS.md)
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- [PyPI maintainer notes](https://github.com/bijux/bijux-proteomics/blob/main/packages/bijux-proteomics-knowledge/docs/maintainer/pypi.md)
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## Primary entrypoint
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# PyPI Maintainer Notes
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- package: `bijux-proteomics-knowledge`
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- owner: Bijan Mousavi (`bijan@bijux.io`)
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- repository: `bijux/bijux-proteomics`
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Release checklist:
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1. Confirm docs and README describe current evidence and conflict semantics.
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2. Verify conflict-resolution and graph-validation tests pass.
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3. Run `make lint test quality security` from repository root.
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4. Verify `.github/workflows/publish-bijux-proteomics-knowledge.yml` is configured for tag-triggered publish (`v*`) with trusted publishing permissions.
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5. Create and push the release tag (`vX.Y.Z`) after changelog and metadata are final.
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6. Confirm the publish workflow uploaded and released both wheel and sdist artifacts.
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@@ -0,0 +1,60 @@
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[build-system]
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requires = ["hatchling>=1.27.0,<1.28"]
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build-backend = "hatchling.build"
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[project]
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name = "bijux-proteomics-knowledge"
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version = "0.3.0"
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description = "Evidence models for Bijux Proteomics"
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readme = "README.md"
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license = { text = "Apache-2.0" }
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requires-python = ">=3.11"
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authors = [{ name = "Bijan Mousavi", email = "bijan@bijux.io" }]
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maintainers = [{ name = "Bijan Mousavi", email = "bijan@bijux.io" }]
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keywords = [
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"proteomics",
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"evidence-graph",
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"trust-scoring",
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"knowledge-governance",
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"conflict-resolution",
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]
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classifiers = [
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"Development Status :: 3 - Alpha",
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"Intended Audience :: Science/Research",
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"Intended Audience :: Developers",
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"License :: OSI Approved :: Apache Software License",
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"Operating System :: OS Independent",
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"Programming Language :: Python :: 3",
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"Programming Language :: Python :: 3 :: Only",
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"Programming Language :: Python :: 3.11",
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"Programming Language :: Python :: 3.12",
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"Programming Language :: Python :: 3.13",
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"Programming Language :: Python :: 3.14",
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"Typing :: Typed",
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]
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dependencies = [
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"pydantic>=2.0.2",
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"bijux-proteomics-foundation>=0.3.0",
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]
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[project.urls]
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Homepage = "https://bijux.io/bijux-proteomics/"
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Documentation = "https://bijux.io/bijux-proteomics/"
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Repository = "https://github.com/bijux/bijux-proteomics"
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Issues = "https://github.com/bijux/bijux-proteomics/issues"
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Changelog = "https://github.com/bijux/bijux-proteomics/blob/main/packages/bijux-proteomics-knowledge/CHANGELOG.md"
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Security = "https://github.com/bijux/bijux-proteomics/blob/main/SECURITY.md"
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[tool.hatch.build]
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include = [
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"README.md",
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"CHANGELOG.md",
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"docs/maintainer/pypi.md",
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"src/bijux_proteomics_knowledge/py.typed",
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]
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[tool.hatch.build.targets.wheel]
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packages = ["src/bijux_proteomics_knowledge"]
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+
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[tool.hatch.build.targets.wheel.package-data]
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"bijux_proteomics_knowledge" = ["py.typed"]
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