aberrant 0.5.0__tar.gz

aberrant-0.5.0/.editorconfig

@@ -0,0 +1,17 @@
+root = true
+
+[*.py]
+charset = utf-8
+end_of_line = lf
+insert_final_newline = true
+indent_style = space
+indent_size = 4
+trim_trailing_whitespace = true
+
+[*.{md,yml,yaml,toml}]
+charset = utf-8
+end_of_line = lf
+insert_final_newline = true
+indent_style = space
+indent_size = 2
+trim_trailing_whitespace = true

aberrant-0.5.0/.github/ISSUE_TEMPLATE/bug_report.md

@@ -0,0 +1,29 @@
+---
+name: Bug report
+about: Report a reproducible problem in ABERRANT
+title: "[Bug] "
+labels: bug
+assignees: ""
+---
+
+## Summary
+
+Describe the bug clearly.
+
+## Reproduction
+
+1. Environment (OS, Python version, ABERRANT version)
+2. Exact steps
+3. Minimal code snippet
+
+## Expected behavior
+
+What should happen.
+
+## Actual behavior
+
+What happened instead.
+
+## Additional context
+
+Logs, traceback, screenshots, or sample data details.

aberrant-0.5.0/.github/ISSUE_TEMPLATE/config.yml

@@ -0,0 +1 @@
+blank_issues_enabled: false

aberrant-0.5.0/.github/ISSUE_TEMPLATE/feature_request.md

@@ -0,0 +1,23 @@
+---
+name: Feature request
+about: Propose a new capability or improvement
+title: "[Feature] "
+labels: enhancement
+assignees: ""
+---
+
+## Problem
+
+What problem are you trying to solve?
+
+## Proposal
+
+Describe the proposed API or behavior.
+
+## Alternatives considered
+
+List alternatives and tradeoffs.
+
+## Additional context
+
+Benchmarks, prior art, or related issues.

aberrant-0.5.0/.github/dependabot.yml

@@ -0,0 +1,10 @@
+version: 2
+updates:
+  - package-ecosystem: "github-actions"
+    directory: "/"
+    schedule:
+      interval: "weekly"
+  - package-ecosystem: "pip"
+    directory: "/"
+    schedule:
+      interval: "weekly"

aberrant-0.5.0/.github/pull_request_template.md

@@ -0,0 +1,15 @@
+## Summary
+
+Describe what changed and why.
+
+## Checklist
+
+- [ ] Tests added/updated for behavior changes
+- [ ] `ruff` passes locally
+- [ ] `mypy` passes for touched modules
+- [ ] Docs updated for user-facing changes
+- [ ] `CHANGELOG.md` updated under `Unreleased`
+
+## Risk
+
+Describe rollout risk and potential regressions.

aberrant-0.5.0/.github/workflows/ci.yml

@@ -0,0 +1,108 @@
+name: CI
+
+on:
+  pull_request:
+  push:
+    branches:
+      - main
+
+permissions:
+  contents: read
+
+jobs:
+  lint-type-test:
+    strategy:
+      fail-fast: false
+      matrix:
+        os: [ubuntu-latest, windows-latest]
+        python-version: ["3.10", "3.11", "3.12"]
+    runs-on: ${{ matrix.os }}
+    steps:
+      - name: Checkout
+        uses: actions/checkout@v6
+
+      - name: Install uv
+        uses: astral-sh/setup-uv@v7
+
+      - name: Install Python
+        run: uv python install ${{ matrix.python-version }}
+
+      - name: Install dependencies
+        run: uv sync --extra dev
+
+      - name: Ruff
+        run: uv run python -m ruff check .
+
+      - name: Mypy
+        run: >
+          uv run python -m mypy
+          aberrant/base/model.py
+          aberrant/base/transformer.py
+          aberrant/base/pipeline.py
+          aberrant/model/threshold.py
+          aberrant/model/quantile_threshold.py
+          aberrant/model/__init__.py
+          aberrant/model/iforest/__init__.py
+          aberrant/model/distance/__init__.py
+          aberrant/model/svm/__init__.py
+          aberrant/model/deep/__init__.py
+
+      - name: Unit tests
+        run: uv run python -m pytest tests/models tests/drift tests/transformers -q
+
+  integration-smoke:
+    runs-on: ubuntu-latest
+    steps:
+      - name: Checkout
+        uses: actions/checkout@v6
+
+      - name: Install uv
+        uses: astral-sh/setup-uv@v7
+
+      - name: Install Python
+        run: uv python install 3.11
+
+      - name: Install dependencies
+        run: uv sync --extra dev
+
+      - name: Integration smoke
+        run: uv run python -m pytest tests/test_public_imports.py tests/integration -q
+
+  coverage:
+    runs-on: ubuntu-latest
+    steps:
+      - name: Checkout
+        uses: actions/checkout@v6
+
+      - name: Install uv
+        uses: astral-sh/setup-uv@v7
+
+      - name: Install Python
+        run: uv python install 3.11
+
+      - name: Install dependencies
+        run: uv sync --extra dev
+
+      - name: Coverage
+        run: uv run python -m pytest tests/models tests/drift tests/transformers --cov=aberrant --cov-report=xml --cov-report=term-missing -q
+
+      - name: Upload coverage artifact
+        uses: actions/upload-artifact@v7
+        with:
+          name: coverage-xml
+          path: coverage.xml
+
+  build:
+    runs-on: ubuntu-latest
+    steps:
+      - name: Checkout
+        uses: actions/checkout@v6
+
+      - name: Install uv
+        uses: astral-sh/setup-uv@v7
+
+      - name: Install Python
+        run: uv python install 3.11
+
+      - name: Build sdist and wheel
+        run: uv build

aberrant-0.5.0/.github/workflows/docs.yml

@@ -0,0 +1,58 @@
+name: Docs
+
+on:
+  pull_request:
+  push:
+    branches:
+      - main
+  workflow_dispatch:
+
+permissions:
+  contents: read
+  pages: write
+  id-token: write
+
+concurrency:
+  group: docs-${{ github.ref }}
+  cancel-in-progress: true
+
+jobs:
+  build:
+    runs-on: ubuntu-latest
+    steps:
+      - name: Checkout
+        uses: actions/checkout@v6
+
+      - name: Install uv
+        uses: astral-sh/setup-uv@v7
+
+      - name: Install Python
+        run: uv python install 3.12
+
+      - name: Install dependencies
+        run: uv sync --extra docs
+
+      - name: Validate docs (strict)
+        run: uv run mkdocs build --strict -f docs/mkdocs.yml
+
+      - name: Setup Pages
+        if: github.event_name == 'push' && github.ref == 'refs/heads/main'
+        uses: actions/configure-pages@v5
+
+      - name: Upload artifact
+        if: github.event_name == 'push' && github.ref == 'refs/heads/main'
+        uses: actions/upload-pages-artifact@v4
+        with:
+          path: site
+
+  deploy:
+    if: github.event_name == 'push' && github.ref == 'refs/heads/main'
+    runs-on: ubuntu-latest
+    needs: build
+    environment:
+      name: github-pages
+      url: ${{ steps.deployment.outputs.page_url }}
+    steps:
+      - name: Deploy to GitHub Pages
+        id: deployment
+        uses: actions/deploy-pages@v4

aberrant-0.5.0/.github/workflows/release.yml

@@ -0,0 +1,54 @@
+name: Release
+
+on:
+  push:
+    tags:
+      - "v*"
+  workflow_dispatch:
+
+permissions:
+  contents: read
+  id-token: write
+
+jobs:
+  build:
+    runs-on: ubuntu-latest
+    steps:
+      - name: Checkout
+        uses: actions/checkout@v6
+
+      - name: Install uv
+        uses: astral-sh/setup-uv@v7
+
+      - name: Install Python
+        run: uv python install 3.11
+
+      - name: Build distributions
+        run: uv build
+
+      - name: Upload distribution artifacts
+        uses: actions/upload-artifact@v7
+        with:
+          name: dist
+          path: dist/*
+
+  publish-pypi:
+    needs: build
+    runs-on: ubuntu-latest
+    if: startsWith(github.ref, 'refs/tags/v')
+    environment:
+      name: pypi
+      url: https://pypi.org/p/aberrant
+    permissions:
+      id-token: write
+    steps:
+      - name: Download built artifacts
+        uses: actions/download-artifact@v4
+        with:
+          name: dist
+          path: dist
+
+      - name: Publish to PyPI
+        uses: pypa/gh-action-pypi-publish@release/v1
+        with:
+          attestations: true

aberrant-0.5.0/.github/workflows/security.yml

@@ -0,0 +1,68 @@
+name: Security
+
+on:
+  pull_request:
+  push:
+    branches:
+      - main
+  schedule:
+    - cron: "0 4 * * 1"
+
+permissions:
+  contents: read
+  security-events: write
+
+jobs:
+  dependency-review:
+    if: github.event_name == 'pull_request'
+    runs-on: ubuntu-latest
+    steps:
+      - name: Dependency review
+        uses: actions/dependency-review-action@v4
+
+  pip-audit:
+    runs-on: ubuntu-latest
+    steps:
+      - name: Checkout
+        uses: actions/checkout@v6
+
+      - name: Audit dependencies
+        uses: pypa/gh-action-pip-audit@v1.1.0
+        with:
+          inputs: .
+
+  codeql:
+    runs-on: ubuntu-latest
+    steps:
+      - name: Checkout
+        uses: actions/checkout@v6
+
+      - name: Initialize CodeQL
+        uses: github/codeql-action/init@v4
+        with:
+          languages: python
+
+      - name: Autobuild
+        uses: github/codeql-action/autobuild@v4
+
+      - name: Analyze
+        uses: github/codeql-action/analyze@v4
+
+  sbom:
+    runs-on: ubuntu-latest
+    steps:
+      - name: Checkout
+        uses: actions/checkout@v6
+
+      - name: Generate SBOM
+        uses: anchore/sbom-action@v0
+        with:
+          path: .
+          format: spdx-json
+          output-file: sbom.spdx.json
+
+      - name: Upload SBOM artifact
+        uses: actions/upload-artifact@v7
+        with:
+          name: sbom
+          path: sbom.spdx.json

aberrant-0.5.0/.gitignore

@@ -0,0 +1,181 @@
+# Project
+.idea
+.claude
+nul
+CLAUDE.md
+
+# Byte-compiled / optimized / DLL files
+__pycache__/
+*.py[cod]
+*$py.class
+
+# C extensions
+*.so
+
+# Distribution / packaging
+.Python
+build/
+develop-eggs/
+dist/
+downloads/
+eggs/
+.eggs/
+lib/
+lib64/
+parts/
+sdist/
+var/
+wheels/
+share/python-wheels/
+*.egg-info/
+.installed.cfg
+*.egg
+MANIFEST
+
+# PyInstaller
+#  Usually these files are written by a python script from a template
+#  before PyInstaller builds the exe, so as to inject date/other infos into it.
+*.manifest
+*.spec
+
+# Installer logs
+pip-log.txt
+pip-delete-this-directory.txt
+
+# Unit test / coverage reports
+htmlcov/
+.tox/
+.nox/
+.coverage
+.coverage.*
+.cache
+nosetests.xml
+coverage.xml
+*.cover
+*.py,cover
+.hypothesis/
+.pytest_cache/
+cover/
+
+# Translations
+*.mo
+*.pot
+
+# Django stuff:
+*.log
+local_settings.py
+db.sqlite3
+db.sqlite3-journal
+
+# Flask stuff:
+instance/
+.webassets-cache
+
+# Scrapy stuff:
+.scrapy
+
+# Sphinx documentation
+docs/_build/
+
+# PyBuilder
+.pybuilder/
+target/
+
+# Jupyter Notebook
+.ipynb_checkpoints
+
+# IPython
+profile_default/
+ipython_config.py
+
+# pyenv
+#   For a library or package, you might want to ignore these files since the code is
+#   intended to run in multiple environments; otherwise, check them in:
+# .python-version
+
+# pipenv
+#   According to pypa/pipenv#598, it is recommended to include Pipfile.lock in version control.
+#   However, in case of collaboration, if having platform-specific dependencies or dependencies
+#   having no cross-platform support, pipenv may install dependencies that don't work, or not
+#   install all needed dependencies.
+#Pipfile.lock
+
+# UV
+#   Similar to Pipfile.lock, it is generally recommended to include uv.lock in version control.
+#   This is especially recommended for binary packages to ensure reproducibility, and is more
+#   commonly ignored for libraries.
+#uv.lock
+
+# poetry
+#   Similar to Pipfile.lock, it is generally recommended to include poetry.lock in version control.
+#   This is especially recommended for binary packages to ensure reproducibility, and is more
+#   commonly ignored for libraries.
+#   https://python-poetry.org/docs/basic-usage/#commit-your-poetrylock-file-to-version-control
+#poetry.lock
+
+# pdm
+#   Similar to Pipfile.lock, it is generally recommended to include pdm.lock in version control.
+#pdm.lock
+#   pdm stores project-wide configurations in .pdm.toml, but it is recommended to not include it
+#   in version control.
+#   https://pdm.fming.dev/latest/usage/project/#working-with-version-control
+.pdm.toml
+.pdm-python
+.pdm-build/
+
+# PEP 582; used by e.g. github.com/David-OConnor/pyflow and github.com/pdm-project/pdm
+__pypackages__/
+
+# Celery stuff
+celerybeat-schedule
+celerybeat.pid
+
+# SageMath parsed files
+*.sage.py
+
+# Environments
+.env
+.venv
+env/
+venv/
+ENV/
+env.bak/
+venv.bak/
+
+# Spyder project settings
+.spyderproject
+.spyproject
+
+# Rope project settings
+.ropeproject
+
+# mkdocs documentation
+/site
+
+# mypy
+.mypy_cache/
+.dmypy.json
+dmypy.json
+
+# Pyre type checker
+.pyre/
+
+# pytype static type analyzer
+.pytype/
+
+# Cython debug symbols
+cython_debug/
+
+# PyCharm
+#  JetBrains specific template is maintained in a separate JetBrains.gitignore that can
+#  be found at https://github.com/github/gitignore/blob/main/Global/JetBrains.gitignore
+#  and can be added to the global gitignore or merged into this file.  For a more nuclear
+#  option (not recommended) you can uncomment the following to ignore the entire idea folder.
+#.idea/
+
+# PyPI configuration file
+.pypirc
+
+# AI coding assistant
+.claude
+/.codex

aberrant-0.5.0/.pre-commit-config.yaml

@@ -0,0 +1,76 @@
+# This file configures the pre-commit hooks for the project.
+# For more information, see https://pre-commit.com
+
+default_install_hook_types: [pre-commit, pre-push]
+default_stages: [pre-commit]
+
+repos:
+  - repo: https://github.com/pre-commit/pre-commit-hooks
+    rev: v4.6.0
+    hooks:
+      - id: trailing-whitespace # Trims trailing whitespace.
+        stages: [pre-commit]
+      - id: end-of-file-fixer # Ensures files end with a single newline.
+        stages: [pre-commit]
+      - id: check-yaml # Checks YAML files for parseable syntax.
+        stages: [pre-commit]
+      - id: check-toml # Checks TOML files for parseable syntax.
+        stages: [pre-commit]
+      - id: check-json # Checks JSON files for parseable syntax.
+        stages: [pre-commit]
+      - id: check-added-large-files # Prevents committing large files.
+        stages: [pre-commit]
+      - id: check-case-conflict # Checks for files that would conflict on case-insensitive filesystems.
+        stages: [pre-commit]
+      - id: check-merge-conflict # Checks for files that contain merge conflict strings.
+        stages: [pre-commit]
+      - id: debug-statements # Checks for leftover debugger imports and calls (e.g., pdb, breakpoint()).
+        stages: [pre-commit]
+
+  # Ruff for linting and formatting
+  - repo: https://github.com/astral-sh/ruff-pre-commit
+    # Check for updates: https://github.com/astral-sh/ruff-pre-commit/releases
+    rev: v0.8.5
+    hooks:
+      # Run the linter
+      - id: ruff
+        args: [--fix]
+        stages: [pre-commit]
+      # Run the formatter (replaces Black)
+      - id: ruff-format
+        stages: [pre-commit]
+
+  # Type checking with mypy
+  - repo: https://github.com/pre-commit/mirrors-mypy
+    rev: v1.13.0
+    hooks:
+      - id: mypy
+        additional_dependencies: [types-all]
+        args: [--ignore-missing-imports, --strict]
+        stages: [pre-commit]
+
+  # Optional: Run tests before commit
+  - repo: local
+    hooks:
+      - id: ruff-check-pre-push
+        name: Ruff check (pre-push)
+        entry: uv run ruff check .
+        language: system
+        pass_filenames: false
+        always_run: true
+        stages: [pre-push]
+      - id: ruff-format-check-pre-push
+        name: Ruff format check (pre-push)
+        entry: uv run ruff format --check .
+        language: system
+        pass_filenames: false
+        always_run: true
+        stages: [pre-push]
+      - id: pytest-check
+        name: Run tests
+        entry: pytest
+        language: system
+        pass_filenames: false
+        always_run: true
+        args: [tests/, -v, --tb=short]
+        stages: [pre-commit]

aberrant-0.5.0/CHANGELOG.md

@@ -0,0 +1,33 @@
+# Changelog
+
+All notable changes to this project will be documented in this file.
+
+The format is based on Keep a Changelog and the project aims to follow
+Semantic Versioning.
+
+## [Unreleased]
+
+### Added
+
+- Public API exports for `aberrant.model.svm`, `aberrant.model.stat`, `aberrant.stream`,
+  `aberrant.transform`, and deep lazy exports.
+- Regression tests for feature-order stability in `OnlineIsolationForest`.
+- Regression tests for `keys=` initialization in multivariate statistical models.
+- Optional dependency extras for `parquet` and benchmark tooling.
+- Repository standards and CI/security/release workflows.
+
+### Changed
+
+- `OnlineIsolationForest` now enforces deterministic feature ordering and key-set checks.
+- Dataset module version now uses `aberrant.__version__` as single source of truth.
+- Documentation was rewritten to match the current public API.
+- `aberrant[dev]` now includes `torch` and `scikit-learn` so the full test suite can
+  run from the dev environment.
+- Integration tests now run by default (no environment-variable gate).
+
+### Fixed
+
+- `keys=` initialization path in multivariate statistical detectors.
+- Deep tests now skip gracefully when `torch` is unavailable.
+- Legacy parquet streamer now fails with a clear optional-dependency message.
+- Packaging metadata now correctly declares MIT classifier.