amarantos 0.1.0__tar.gz

amarantos-0.1.0/.claude/settings.local.json

@@ -0,0 +1,24 @@
+{
+  "permissions": {
+    "allow": [
+      "Bash(tree:*)",
+      "Bash(uv sync:*)",
+      "Bash(uv run pytest:*)",
+      "Bash(uv run:*)",
+      "Bash(git checkout:*)",
+      "Bash(git add:*)",
+      "Bash(git commit:*)",
+      "Bash(git push:*)",
+      "Bash(gh pr create --title \"Add initial Python package setup with hello world\" --body \"$\\(cat <<''EOF''\n## Summary\n\n- Set up amarantos as a Python package for wellness and longevity resources\n- Added README with project name explanation \\(\"unfading/immortal\" in Greek\\) and curated awesome list of longevity tools\n- Created Python package with `hello\\(\\)` function as starting point\n- Configured modern Python tooling consistent with repute repo \\(uv, hatchling, ruff, ty, pre-commit\\)\n- Added GitHub CI workflow for automated quality checks\n\n## Test plan\n\n- [x] `uv sync` completes successfully\n- [x] `uv run pytest -Werror` passes\n- [x] `uv run ruff check` passes\n- [x] `uv run ruff format --check` passes\n- [x] `uv run ty check` passes\n\n🤖 Generated with [Claude Code]\\(https://claude.com/claude-code\\)\nEOF\n\\)\")",
+      "Bash(uv add:*)",
+      "Bash(gh issue create:*)",
+      "Bash(uv remove:*)",
+      "Bash(git fetch:*)",
+      "Bash(git rebase:*)",
+      "Bash(uv lock:*)",
+      "WebSearch",
+      "Bash(ls:*)",
+      "Bash(python -m amarantos.core.cli roi:*)"
+    ]
+  }
+}

amarantos-0.1.0/.github/workflows/ci.yml

@@ -0,0 +1,27 @@
+name: CI
+
+on:
+  pull_request:
+    branches:
+      - main
+
+jobs:
+  continuous-integration:
+    runs-on: ubuntu-latest
+    steps:
+      - uses: actions/checkout@v4
+      - name: Install uv and set the python version
+        uses: astral-sh/setup-uv@v4
+        with:
+          version: "latest"
+          python-version: "3.13"
+      - name: Install dependencies
+        run: uv sync
+      - name: Lint check
+        run: uv run ruff check
+      - name: Formatting check
+        run: uv run ruff format --check
+      - name: Type check
+        run: uv run ty check
+      - name: Unit tests
+        run: uv run pytest -Werror

amarantos-0.1.0/.gitignore

@@ -0,0 +1,213 @@
+# Byte-compiled / optimized / DLL files
+__pycache__/
+*.py[codz]
+*$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
+#poetry.toml
+
+# pdm
+#   Similar to Pipfile.lock, it is generally recommended to include pdm.lock in version control.
+#   pdm recommends including project-wide configuration in pdm.toml, but excluding .pdm-python.
+#   https://pdm-project.org/en/latest/usage/project/#working-with-version-control
+#pdm.lock
+#pdm.toml
+.pdm-python
+.pdm-build/
+
+# pixi
+#   Similar to Pipfile.lock, it is generally recommended to include pixi.lock in version control.
+#pixi.lock
+#   Pixi creates a virtual environment in the .pixi directory, just like venv module creates one
+#   in the .venv directory. It is recommended not to include this directory in version control.
+.pixi
+
+# 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
+.envrc
+.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/
+
+# Abstra
+# Abstra is an AI-powered process automation framework.
+# Ignore directories containing user credentials, local state, and settings.
+# Learn more at https://abstra.io/docs
+.abstra/
+
+# Visual Studio Code
+#  Visual Studio Code specific template is maintained in a separate VisualStudioCode.gitignore 
+#  that can be found at https://github.com/github/gitignore/blob/main/Global/VisualStudioCode.gitignore
+#  and can be added to the global gitignore or merged into this file. However, if you prefer, 
+#  you could uncomment the following to ignore the entire vscode folder
+# .vscode/
+
+# Ruff stuff:
+.ruff_cache/
+
+# PyPI configuration file
+.pypirc
+
+# Cursor
+#  Cursor is an AI-powered code editor. `.cursorignore` specifies files/directories to
+#  exclude from AI features like autocomplete and code analysis. Recommended for sensitive data
+#  refer to https://docs.cursor.com/context/ignore-files
+.cursorignore
+.cursorindexingignore
+
+# Marimo
+marimo/_static/
+marimo/_lsp/
+__marimo__/
+
+# IDE
+.idea/
+
+# OS files
+.DS_Store

amarantos-0.1.0/.pre-commit-config.yaml

@@ -0,0 +1,32 @@
+repos:
+  - repo: https://github.com/pre-commit/pre-commit-hooks
+    rev: v4.6.0
+    hooks:
+      - id: trailing-whitespace
+      - id: end-of-file-fixer
+      - id: check-yaml
+      - id: check-added-large-files
+  - repo: https://github.com/tox-dev/pyproject-fmt
+    rev: v2.11.1
+    hooks:
+      - id: pyproject-fmt
+        args: [--no-generate-python-version-classifiers]
+  - repo: local
+    hooks:
+      - id: ty
+        name: ty
+        entry: uv run ty check
+        language: system
+        types: [python]
+        pass_filenames: false
+        always_run: true
+      - id: ruff-format
+        name: ruff-format
+        entry: uv run ruff format
+        language: system
+        types: [python]
+      - id: ruff-lint
+        name: ruff-lint
+        entry: uv run ruff check --fix --force-exclude
+        language: system
+        types: [python]

amarantos-0.1.0/.python-version

@@ -0,0 +1 @@
+3.13

amarantos-0.1.0/LICENSE

@@ -0,0 +1,21 @@
+MIT License
+
+Copyright (c) 2026 Zach Kurtz
+
+Permission is hereby granted, free of charge, to any person obtaining a copy
+of this software and associated documentation files (the "Software"), to deal
+in the Software without restriction, including without limitation the rights
+to use, copy, modify, merge, publish, distribute, sublicense, and/or sell
+copies of the Software, and to permit persons to whom the Software is
+furnished to do so, subject to the following conditions:
+
+The above copyright notice and this permission notice shall be included in all
+copies or substantial portions of the Software.
+
+THE SOFTWARE IS PROVIDED "AS IS", WITHOUT WARRANTY OF ANY KIND, EXPRESS OR
+IMPLIED, INCLUDING BUT NOT LIMITED TO THE WARRANTIES OF MERCHANTABILITY,
+FITNESS FOR A PARTICULAR PURPOSE AND NONINFRINGEMENT. IN NO EVENT SHALL THE
+AUTHORS OR COPYRIGHT HOLDERS BE LIABLE FOR ANY CLAIM, DAMAGES OR OTHER
+LIABILITY, WHETHER IN AN ACTION OF CONTRACT, TORT OR OTHERWISE, ARISING FROM,
+OUT OF OR IN CONNECTION WITH THE SOFTWARE OR THE USE OR OTHER DEALINGS IN THE
+SOFTWARE.

amarantos-0.1.0/PKG-INFO

@@ -0,0 +1,112 @@
+Metadata-Version: 2.4
+Name: amarantos
+Version: 0.1.0
+Summary: Tips and tools for personal wellness and longevity
+Project-URL: Repository, https://github.com/zkurtz/amarantos
+Author-email: Zach Kurtz <zkurtz@gmail.com>
+License-Expression: MIT
+License-File: LICENSE
+Requires-Python: >=3.13
+Requires-Dist: attrs>=25.4
+Requires-Dist: click>=8.3.1
+Requires-Dist: dummio>=1.10.2
+Requires-Dist: matplotlib>=3.10.8
+Requires-Dist: numpy>=2.2.6
+Requires-Dist: pre-commit>=4.0.1
+Requires-Dist: ruamel-yaml>=0.19.1
+Description-Content-Type: text/markdown
+
+# Amarantos
+
+Tips and tools for personal wellness and longevity. *Amarantos* (ἀμάραντος) is Greek for "unfading" or "immortal" and is the root of *amaranth*—a flower known for retaining its color even dried.
+
+> **Warning: AI-Generated Content**
+>
+> This repository was generated with AI assistance and has not been thoroughly vetted by a human. References, claims, and code may contain errors or inaccuracies. Please double-check all information against primary sources and exercise critical judgment. Treat this as a starting point for careful research, not a definitive resource.
+
+## CLI Commands
+
+```bash
+# Rank all choices by 30th percentile lifespan impact
+amarantos
+
+# Filter by domain
+amarantos --domain exercise
+
+# Show only top/bottom 5
+amarantos -n 5
+
+# Show top 3 from each domain
+amarantos --maxd 3
+```
+
+## Awesome Longevity Resources
+
+A curated list of products, tools, and resources for personal wellness and longevity.
+
+### Knowledge & Research
+
+- [Examine.com](https://examine.com/) - Evidence-based supplement and nutrition information
+- [Peter Attia's The Drive](https://peterattiamd.com/) - Longevity-focused podcast and resources
+- [FoundMyFitness](https://www.foundmyfitness.com/) - Dr. Rhonda Patrick's research on nutrition and aging
+- [Fight Aging!](https://www.fightaging.org/) - Long-running blog covering aging research news
+- [LongevityWiki](https://longevitywiki.org/) - Community-curated longevity information
+- [Longevity Protocols](https://longevity-protocols.com/) - Personal project with AI-analyzed interventions (not peer-reviewed)
+- [Bryan Johnson's Blueprint](https://blueprint.bryanjohnson.com/) - Detailed self-experimentation protocol (note: sells supplements)
+
+### Scientific Databases & Journals
+
+- [DrugAge Database](https://genomics.senescence.info/drugs/) - Database of aging-related drugs
+- [Human Ageing Genomic Resources](https://genomics.senescence.info/) - Databases on aging-related genes
+- [GeroScience](https://www.springer.com/journal/11357) - Peer-reviewed aging research journal
+
+### Communities & DAOs
+
+- [r/longevity](https://www.reddit.com/r/longevity/) - Reddit community for longevity research
+- [VitaDAO](https://www.vitadao.com/) - Decentralized collective funding longevity research
+- [LessWrong Longevity Tag](https://www.lesswrong.com/tag/life-extension) - Rationalist perspectives on life extension
+
+### GitHub Repos & Awesome Lists
+
+- [awesome-longevity (atilatech)](https://github.com/atilatech/awesome-longevity) - Comprehensive longevity resources list
+- [awesome-longevity (Rejuve)](https://github.com/Rejuve/awesome-longevity) - Therapeutics, regenerative medicine, medical AI
+- [awesome-longevity-information](https://github.com/Laurentiu-Andronache/awesome-longevity-information) - Curated healthspan extension resources
+- [longevityTools](https://github.com/tgirke/longevityTools) - R package for longevity research analysis
+- [Longevity Genie](https://github.com/longevity-genie) - Open-source AI tools for longevity research
+
+### Tracking & Measurement
+
+- [Oura Ring](https://ouraring.com/) - Sleep and activity tracking
+- [Levels](https://www.levels.com/) - Continuous glucose monitoring
+- [InsideTracker](https://www.insidetracker.com/) - Blood biomarker analysis
+- [WHOOP](https://www.whoop.com/) - Strain and recovery monitoring
+
+### Academic & Research Institutions
+
+- [National Institute on Aging (NIA)](https://www.nia.nih.gov/) - NIH's primary aging research arm
+- [Buck Institute for Research on Aging](https://www.buckinstitute.org/) - Leading independent aging research institute
+- [Lifespan Research Institute (formerly SENS)](https://www.sens.org/) - Nonprofit focused on damage-repair approaches to aging
+- [Altos Labs](https://www.altoslabs.com/) - Well-funded cellular reprogramming research
+- [Calico Labs](https://www.calicolabs.com/) - Google/Alphabet's aging research company
+- [Stanford Center on Longevity](https://longevity.stanford.edu/) - Interdisciplinary longevity research
+- [American Federation for Aging Research (AFAR)](https://www.afar.org/) - Funds aging research and education
+
+## Software Tools
+
+### Installating amarantos
+
+TODO: get on pypi.
+
+```bash
+uv add amarantos
+```
+
+## Usage
+
+```python
+import amarantos
+
+amarantos.hello()
+```
+
+TODO: build something!

amarantos-0.1.0/README.md

@@ -0,0 +1,94 @@
+# Amarantos
+
+Tips and tools for personal wellness and longevity. *Amarantos* (ἀμάραντος) is Greek for "unfading" or "immortal" and is the root of *amaranth*—a flower known for retaining its color even dried.
+
+> **Warning: AI-Generated Content**
+>
+> This repository was generated with AI assistance and has not been thoroughly vetted by a human. References, claims, and code may contain errors or inaccuracies. Please double-check all information against primary sources and exercise critical judgment. Treat this as a starting point for careful research, not a definitive resource.
+
+## CLI Commands
+
+```bash
+# Rank all choices by 30th percentile lifespan impact
+amarantos
+
+# Filter by domain
+amarantos --domain exercise
+
+# Show only top/bottom 5
+amarantos -n 5
+
+# Show top 3 from each domain
+amarantos --maxd 3
+```
+
+## Awesome Longevity Resources
+
+A curated list of products, tools, and resources for personal wellness and longevity.
+
+### Knowledge & Research
+
+- [Examine.com](https://examine.com/) - Evidence-based supplement and nutrition information
+- [Peter Attia's The Drive](https://peterattiamd.com/) - Longevity-focused podcast and resources
+- [FoundMyFitness](https://www.foundmyfitness.com/) - Dr. Rhonda Patrick's research on nutrition and aging
+- [Fight Aging!](https://www.fightaging.org/) - Long-running blog covering aging research news
+- [LongevityWiki](https://longevitywiki.org/) - Community-curated longevity information
+- [Longevity Protocols](https://longevity-protocols.com/) - Personal project with AI-analyzed interventions (not peer-reviewed)
+- [Bryan Johnson's Blueprint](https://blueprint.bryanjohnson.com/) - Detailed self-experimentation protocol (note: sells supplements)
+
+### Scientific Databases & Journals
+
+- [DrugAge Database](https://genomics.senescence.info/drugs/) - Database of aging-related drugs
+- [Human Ageing Genomic Resources](https://genomics.senescence.info/) - Databases on aging-related genes
+- [GeroScience](https://www.springer.com/journal/11357) - Peer-reviewed aging research journal
+
+### Communities & DAOs
+
+- [r/longevity](https://www.reddit.com/r/longevity/) - Reddit community for longevity research
+- [VitaDAO](https://www.vitadao.com/) - Decentralized collective funding longevity research
+- [LessWrong Longevity Tag](https://www.lesswrong.com/tag/life-extension) - Rationalist perspectives on life extension
+
+### GitHub Repos & Awesome Lists
+
+- [awesome-longevity (atilatech)](https://github.com/atilatech/awesome-longevity) - Comprehensive longevity resources list
+- [awesome-longevity (Rejuve)](https://github.com/Rejuve/awesome-longevity) - Therapeutics, regenerative medicine, medical AI
+- [awesome-longevity-information](https://github.com/Laurentiu-Andronache/awesome-longevity-information) - Curated healthspan extension resources
+- [longevityTools](https://github.com/tgirke/longevityTools) - R package for longevity research analysis
+- [Longevity Genie](https://github.com/longevity-genie) - Open-source AI tools for longevity research
+
+### Tracking & Measurement
+
+- [Oura Ring](https://ouraring.com/) - Sleep and activity tracking
+- [Levels](https://www.levels.com/) - Continuous glucose monitoring
+- [InsideTracker](https://www.insidetracker.com/) - Blood biomarker analysis
+- [WHOOP](https://www.whoop.com/) - Strain and recovery monitoring
+
+### Academic & Research Institutions
+
+- [National Institute on Aging (NIA)](https://www.nia.nih.gov/) - NIH's primary aging research arm
+- [Buck Institute for Research on Aging](https://www.buckinstitute.org/) - Leading independent aging research institute
+- [Lifespan Research Institute (formerly SENS)](https://www.sens.org/) - Nonprofit focused on damage-repair approaches to aging
+- [Altos Labs](https://www.altoslabs.com/) - Well-funded cellular reprogramming research
+- [Calico Labs](https://www.calicolabs.com/) - Google/Alphabet's aging research company
+- [Stanford Center on Longevity](https://longevity.stanford.edu/) - Interdisciplinary longevity research
+- [American Federation for Aging Research (AFAR)](https://www.afar.org/) - Funds aging research and education
+
+## Software Tools
+
+### Installating amarantos
+
+TODO: get on pypi.
+
+```bash
+uv add amarantos
+```
+
+## Usage
+
+```python
+import amarantos
+
+amarantos.hello()
+```
+
+TODO: build something!

amarantos-0.1.0/amarantos/core/loaders.py

@@ -0,0 +1,13 @@
+"""Load choice data from YAML files."""
+
+from amarantos.core.schemas import CHOICES_DIR, Choice
+
+
+def load_all_choices(domain: str | None = None) -> list[Choice]:
+    """Load all choices, optionally filtered by domain."""
+    if domain:
+        paths = sorted((CHOICES_DIR / domain).glob("*.yaml"))
+    else:
+        paths = sorted(CHOICES_DIR.glob("**/*.yaml"))
+
+    return [Choice.load(path) for path in paths]