iints-sdk-python35 0.0.18__tar.gz

iints_sdk_python35-0.0.18/LICENSE

@@ -0,0 +1,28 @@
+MIT License
+
+Copyright (c) 2026 IINTS-AF Contributors
+
+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.
+
+ACADEMIC USE DISCLAIMER:
+This software is intended for academic research purposes only. It is not 
+intended for clinical use or as a medical device. Users must comply with 
+all applicable regulations and obtain proper approvals before any clinical 
+application. The authors disclaim any responsibility for clinical use of 
+this software.

iints_sdk_python35-0.0.18/PKG-INFO

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+Metadata-Version: 2.4
+Name: iints-sdk-python35
+Version: 0.0.18
+Summary: A pre-clinical Edge-AI SDK for diabetes management validation.
+Author-email: Rune Bobbaers <rune.bobbaers@gmail.com>
+Project-URL: Homepage, https://github.com/python35/IINTS-SDK
+Classifier: Programming Language :: Python :: 3
+Classifier: Programming Language :: Python :: 3.10
+Classifier: Programming Language :: Python :: 3.11
+Classifier: Programming Language :: Python :: 3.12
+Classifier: Programming Language :: Python :: 3.13
+Classifier: License :: OSI Approved :: MIT License
+Classifier: Operating System :: OS Independent
+Classifier: Development Status :: 3 - Alpha
+Requires-Python: >=3.10
+Description-Content-Type: text/markdown
+License-File: LICENSE
+Requires-Dist: fpdf2>=2.8.0
+Requires-Dist: matplotlib>=3.5.0
+Requires-Dist: numpy>=1.24.0
+Requires-Dist: openpyxl>=3.0.0
+Requires-Dist: pandas>=2.0.0
+Requires-Dist: pillow>=12.1.1
+Requires-Dist: pydantic>=2.0.0
+Requires-Dist: PyYAML
+Requires-Dist: rich>=12.0.0
+Requires-Dist: scipy>=1.9.0
+Requires-Dist: seaborn>=0.11.0
+Requires-Dist: typer[all]
+Provides-Extra: dev
+Requires-Dist: pytest>=7.0.0; extra == "dev"
+Requires-Dist: flake8; extra == "dev"
+Requires-Dist: mypy; extra == "dev"
+Requires-Dist: pandas-stubs; extra == "dev"
+Requires-Dist: types-PyYAML; extra == "dev"
+Requires-Dist: types-psutil; extra == "dev"
+Provides-Extra: torch
+Requires-Dist: torch>=1.9.0; extra == "torch"
+Provides-Extra: nightscout
+Requires-Dist: py-nightscout; extra == "nightscout"
+Provides-Extra: research
+Requires-Dist: torch>=2.0.0; extra == "research"
+Requires-Dist: pyarrow>=12.0.0; extra == "research"
+Requires-Dist: h5py>=3.10.0; extra == "research"
+Requires-Dist: onnx>=1.16.0; extra == "research"
+Requires-Dist: onnxscript>=0.1.0; extra == "research"
+Dynamic: license-file
+
+# IINTS-AF SDK
+[![PyPI version](https://badge.fury.io/py/iints-sdk-python35.svg)](https://badge.fury.io/py/iints-sdk-python35)
+[![Open In Colab](https://colab.research.google.com/assets/colab-badge.svg)](https://colab.research.google.com/github/python35/IINTS-SDK/blob/main/examples/notebooks/00_Quickstart.ipynb)
+[![Python Package CI](https://github.com/python35/IINTS-SDK/actions/workflows/python-package.yml/badge.svg)](https://github.com/python35/IINTS-SDK/actions/workflows/python-package.yml)
+[![Coverage](https://raw.githubusercontent.com/python35/IINTS-SDK/main/badges/coverage.svg)](https://github.com/python35/IINTS-SDK/actions/workflows/health-badges.yml)
+[![Docs Coverage](https://raw.githubusercontent.com/python35/IINTS-SDK/main/badges/docs.svg)](https://github.com/python35/IINTS-SDK/actions/workflows/health-badges.yml)
+[![Site](https://img.shields.io/badge/site-IINTS--AF-0a66c2?style=flat&logo=firefox-browser&logoColor=white)](https://python35.github.io/IINTS-Site/index.html)
+
+<div style="text-align:center;">
+  <img src="Ontwerp zonder titel.png" alt="" style="display:block; margin:0 auto;">
+</div>
+
+## Intelligent Insulin Titration System for Artificial Pancreas
+
+IINTS-AF is a **safety-first simulation and validation platform** for insulin dosing algorithms. It lets you test AI or classical controllers on virtual patients, enforce deterministic safety constraints, and generate audit-ready clinical reports before anything touches a real patient.
+
+**In one session you can**:
+* Run a clinic-safe preset and compare against PID and standard pump baselines
+* Import real-world CGM CSV into a standard schema + scenario JSON
+* Use the bundled demo CGM data pack (zero setup)
+* Export a clean PDF report plus full audit trail (JSONL/CSV)
+* Stress-test sensor noise, pump limits, and human-in-the-loop interventions
+* Generate patient profiles with ISF/ICR + dawn phenomenon
+
+**Who it’s for**:
+* Diabetes researchers and clinicians validating new control strategies
+* ML engineers benchmarking AI controllers with medical safety rails
+* Developers building decision-support systems for closed-loop insulin delivery
+
+## Installation
+
+Install the SDK directly via PyPI:
+
+```bash
+pip install iints-sdk-python35
+```
+
+### Quick Start (CLI)
+```bash
+iints quickstart --project-name iints_quickstart
+cd iints_quickstart
+iints presets run --name baseline_t1d --algo algorithms/example_algorithm.py
+```
+
+One-line full run (CSV + audit + PDF + baseline):
+```bash
+iints run-full --algo algorithms/example_algorithm.py \
+  --scenario-path scenarios/clinic_safe_baseline.json \
+  --output-dir results/run_full
+```
+By default, runs write to `results/<run_id>/` and include `config.json`, `run_metadata.json`, and `run_manifest.json`.
+
+Import real-world CGM data:
+```bash
+iints import-data --input-csv data/my_cgm.csv --output-dir results/imported
+```
+
+Try the bundled demo data pack:
+```bash
+iints import-demo --output-dir results/demo_import
+```
+
+Official real-world datasets (download on demand):
+```bash
+iints data list
+iints data info aide_t1d
+iints data fetch aide_t1d
+iints data cite aide_t1d
+```
+Some datasets require approval and are marked as `request` in the registry.
+`iints data info` prints BibTeX + citation text for easy referencing.
+
+Offline sample dataset (no download required):
+```bash
+iints data fetch sample --output-dir data_packs/sample
+```
+
+Nightscout import (optional dependency):
+```bash
+pip install iints-sdk-python35[nightscout]
+iints import-nightscout --url https://your-nightscout.example --output-dir results/nightscout_import
+```
+
+Scenario generator:
+```bash
+iints scenarios generate --name "Random Stress Test" --output-path scenarios/generated_scenario.json
+iints scenarios migrate --input-path scenarios/legacy.json
+```
+
+Parallel batch runs:
+```bash
+iints run-parallel --algo algorithms/example_algorithm.py --scenarios-dir scenarios --output-dir results/batch
+```
+
+Interactive run wizard:
+```bash
+iints run-wizard
+```
+
+Algorithm registry:
+```bash
+iints algorithms list
+iints algorithms info "PID Controller"
+```
+
+Or run the full demo workflow (import + run + report) in one script:
+```bash
+python3 examples/demo_quickstart_flow.py
+```
+
+### Quick Start (Python)
+```python
+import iints
+from iints.core.algorithms.pid_controller import PIDController
+
+outputs = iints.run_simulation(
+    algorithm=PIDController(),
+    scenario="scenarios/example_scenario.json",
+    patient_config="default_patient",
+    duration_minutes=720,
+    seed=42,
+    output_dir="results/quick_run",
+)
+```
+
+### Notebook Guide
+Hands-on Jupyter notebooks live in [`examples/notebooks/`](examples/notebooks/)  
+
+
+* Quickstart end-to-end run
+* Presets + scenario validation
+* Safety supervisor behavior
+* Audit trail + PDF report export
+* Baseline comparison + clinical metrics
+* Sensor/pump models + human-in-the-loop
+* Optional Torch/LSTM usage
+* Ablation study (with/without Supervisor)
+
+### AI Research Track (Predictor)
+IINTS-AF includes an optional research pipeline to train a glucose **predictor** that feeds the Safety Supervisor with a 30-120 minute forecast. The predictor never doses insulin; it only provides a forecast signal.
+
+Install research extras:
+```bash
+pip install iints-sdk-python35[research]
+```
+
+Train a starter predictor:
+```bash
+python research/synthesize_dataset.py --runs 25 --output data/synthetic.parquet
+python research/train_predictor.py --data data/synthetic.parquet --config research/configs/predictor.yaml --out models
+```
+
+Integrate:
+```python
+from iints.research import load_predictor_service
+predictor = load_predictor_service("models/predictor.pt")
+outputs = iints.run_simulation(..., predictor=predictor)
+```
+
+### Documentation
+* Product manual: `docs/COMPREHENSIVE_GUIDE.md`
+* Notebook index: `examples/notebooks/README.md`
+* Technical README: `docs/TECHNICAL_README.md`
+* API Stability: `API_STABILITY.md`
+* Research track: `research/README.md`
+
+### Related Work & Inspiration
+We borrow techniques from the broader CGM/APS ecosystem, while differentiating with a safety‑first, audit‑ready workflow:
+* [simglucose (UVA/Padova)](https://github.com/jxx123/simglucose): gymnasium‑style interfaces and parallel batch execution concepts.
+* [OpenAPS / oref0](https://github.com/openaps/oref0): gold‑standard IOB logic and safety‑oriented control patterns.
+* [Nightscout](https://github.com/nightscout/cgm-remote-monitor) + [py-nightscout](https://pypi.org/project/py-nightscout/): reference for human‑in‑the‑loop CGM ingest (planned connector).
+* [Tidepool OpenAPI](https://developer.tidepool.org/TidepoolApi/): basis for a future cloud import client skeleton.
+
+### Ethics & Safety
+This SDK is for **research and validation**. It is not a medical device and does not provide clinical dosing advice.
+
+> “Code shouldn’t be a secret when it’s managing a life.” — Bobbaers Rune

iints_sdk_python35-0.0.18/README.md

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+# IINTS-AF SDK
+[![PyPI version](https://badge.fury.io/py/iints-sdk-python35.svg)](https://badge.fury.io/py/iints-sdk-python35)
+[![Open In Colab](https://colab.research.google.com/assets/colab-badge.svg)](https://colab.research.google.com/github/python35/IINTS-SDK/blob/main/examples/notebooks/00_Quickstart.ipynb)
+[![Python Package CI](https://github.com/python35/IINTS-SDK/actions/workflows/python-package.yml/badge.svg)](https://github.com/python35/IINTS-SDK/actions/workflows/python-package.yml)
+[![Coverage](https://raw.githubusercontent.com/python35/IINTS-SDK/main/badges/coverage.svg)](https://github.com/python35/IINTS-SDK/actions/workflows/health-badges.yml)
+[![Docs Coverage](https://raw.githubusercontent.com/python35/IINTS-SDK/main/badges/docs.svg)](https://github.com/python35/IINTS-SDK/actions/workflows/health-badges.yml)
+[![Site](https://img.shields.io/badge/site-IINTS--AF-0a66c2?style=flat&logo=firefox-browser&logoColor=white)](https://python35.github.io/IINTS-Site/index.html)
+
+<div style="text-align:center;">
+  <img src="Ontwerp zonder titel.png" alt="" style="display:block; margin:0 auto;">
+</div>
+
+## Intelligent Insulin Titration System for Artificial Pancreas
+
+IINTS-AF is a **safety-first simulation and validation platform** for insulin dosing algorithms. It lets you test AI or classical controllers on virtual patients, enforce deterministic safety constraints, and generate audit-ready clinical reports before anything touches a real patient.
+
+**In one session you can**:
+* Run a clinic-safe preset and compare against PID and standard pump baselines
+* Import real-world CGM CSV into a standard schema + scenario JSON
+* Use the bundled demo CGM data pack (zero setup)
+* Export a clean PDF report plus full audit trail (JSONL/CSV)
+* Stress-test sensor noise, pump limits, and human-in-the-loop interventions
+* Generate patient profiles with ISF/ICR + dawn phenomenon
+
+**Who it’s for**:
+* Diabetes researchers and clinicians validating new control strategies
+* ML engineers benchmarking AI controllers with medical safety rails
+* Developers building decision-support systems for closed-loop insulin delivery
+
+## Installation
+
+Install the SDK directly via PyPI:
+
+```bash
+pip install iints-sdk-python35
+```
+
+### Quick Start (CLI)
+```bash
+iints quickstart --project-name iints_quickstart
+cd iints_quickstart
+iints presets run --name baseline_t1d --algo algorithms/example_algorithm.py
+```
+
+One-line full run (CSV + audit + PDF + baseline):
+```bash
+iints run-full --algo algorithms/example_algorithm.py \
+  --scenario-path scenarios/clinic_safe_baseline.json \
+  --output-dir results/run_full
+```
+By default, runs write to `results/<run_id>/` and include `config.json`, `run_metadata.json`, and `run_manifest.json`.
+
+Import real-world CGM data:
+```bash
+iints import-data --input-csv data/my_cgm.csv --output-dir results/imported
+```
+
+Try the bundled demo data pack:
+```bash
+iints import-demo --output-dir results/demo_import
+```
+
+Official real-world datasets (download on demand):
+```bash
+iints data list
+iints data info aide_t1d
+iints data fetch aide_t1d
+iints data cite aide_t1d
+```
+Some datasets require approval and are marked as `request` in the registry.
+`iints data info` prints BibTeX + citation text for easy referencing.
+
+Offline sample dataset (no download required):
+```bash
+iints data fetch sample --output-dir data_packs/sample
+```
+
+Nightscout import (optional dependency):
+```bash
+pip install iints-sdk-python35[nightscout]
+iints import-nightscout --url https://your-nightscout.example --output-dir results/nightscout_import
+```
+
+Scenario generator:
+```bash
+iints scenarios generate --name "Random Stress Test" --output-path scenarios/generated_scenario.json
+iints scenarios migrate --input-path scenarios/legacy.json
+```
+
+Parallel batch runs:
+```bash
+iints run-parallel --algo algorithms/example_algorithm.py --scenarios-dir scenarios --output-dir results/batch
+```
+
+Interactive run wizard:
+```bash
+iints run-wizard
+```
+
+Algorithm registry:
+```bash
+iints algorithms list
+iints algorithms info "PID Controller"
+```
+
+Or run the full demo workflow (import + run + report) in one script:
+```bash
+python3 examples/demo_quickstart_flow.py
+```
+
+### Quick Start (Python)
+```python
+import iints
+from iints.core.algorithms.pid_controller import PIDController
+
+outputs = iints.run_simulation(
+    algorithm=PIDController(),
+    scenario="scenarios/example_scenario.json",
+    patient_config="default_patient",
+    duration_minutes=720,
+    seed=42,
+    output_dir="results/quick_run",
+)
+```
+
+### Notebook Guide
+Hands-on Jupyter notebooks live in [`examples/notebooks/`](examples/notebooks/)  
+
+
+* Quickstart end-to-end run
+* Presets + scenario validation
+* Safety supervisor behavior
+* Audit trail + PDF report export
+* Baseline comparison + clinical metrics
+* Sensor/pump models + human-in-the-loop
+* Optional Torch/LSTM usage
+* Ablation study (with/without Supervisor)
+
+### AI Research Track (Predictor)
+IINTS-AF includes an optional research pipeline to train a glucose **predictor** that feeds the Safety Supervisor with a 30-120 minute forecast. The predictor never doses insulin; it only provides a forecast signal.
+
+Install research extras:
+```bash
+pip install iints-sdk-python35[research]
+```
+
+Train a starter predictor:
+```bash
+python research/synthesize_dataset.py --runs 25 --output data/synthetic.parquet
+python research/train_predictor.py --data data/synthetic.parquet --config research/configs/predictor.yaml --out models
+```
+
+Integrate:
+```python
+from iints.research import load_predictor_service
+predictor = load_predictor_service("models/predictor.pt")
+outputs = iints.run_simulation(..., predictor=predictor)
+```
+
+### Documentation
+* Product manual: `docs/COMPREHENSIVE_GUIDE.md`
+* Notebook index: `examples/notebooks/README.md`
+* Technical README: `docs/TECHNICAL_README.md`
+* API Stability: `API_STABILITY.md`
+* Research track: `research/README.md`
+
+### Related Work & Inspiration
+We borrow techniques from the broader CGM/APS ecosystem, while differentiating with a safety‑first, audit‑ready workflow:
+* [simglucose (UVA/Padova)](https://github.com/jxx123/simglucose): gymnasium‑style interfaces and parallel batch execution concepts.
+* [OpenAPS / oref0](https://github.com/openaps/oref0): gold‑standard IOB logic and safety‑oriented control patterns.
+* [Nightscout](https://github.com/nightscout/cgm-remote-monitor) + [py-nightscout](https://pypi.org/project/py-nightscout/): reference for human‑in‑the‑loop CGM ingest (planned connector).
+* [Tidepool OpenAPI](https://developer.tidepool.org/TidepoolApi/): basis for a future cloud import client skeleton.
+
+### Ethics & Safety
+This SDK is for **research and validation**. It is not a medical device and does not provide clinical dosing advice.
+
+> “Code shouldn’t be a secret when it’s managing a life.” — Bobbaers Rune

iints_sdk_python35-0.0.18/pyproject.toml

@@ -0,0 +1,88 @@
+[build-system]
+requires = ["setuptools>=61.0"]
+build-backend = "setuptools.build_meta"
+
+[project]
+name = "iints-sdk-python35" 
+version = "0.0.18"
+authors = [
+  { name="Rune Bobbaers", email="rune.bobbaers@gmail.com" },
+]
+description = "A pre-clinical Edge-AI SDK for diabetes management validation."
+readme = "README.md"
+requires-python = ">=3.10"
+classifiers = [
+    "Programming Language :: Python :: 3",
+    "Programming Language :: Python :: 3.10",
+    "Programming Language :: Python :: 3.11",
+    "Programming Language :: Python :: 3.12",
+    "Programming Language :: Python :: 3.13",
+    "License :: OSI Approved :: MIT License",
+    "Operating System :: OS Independent",
+    "Development Status :: 3 - Alpha",
+]
+dependencies = [
+    "fpdf2>=2.8.0",
+    "matplotlib>=3.5.0",
+    "numpy>=1.24.0",
+    "openpyxl>=3.0.0",
+    "pandas>=2.0.0",
+    "pillow>=12.1.1",
+    "pydantic>=2.0.0",
+    "PyYAML",
+    "rich>=12.0.0",
+    "scipy>=1.9.0",
+    "seaborn>=0.11.0",
+    "typer[all]",
+]
+
+[project.optional-dependencies]
+dev = [
+  "pytest>=7.0.0",
+  "flake8",
+  "mypy",
+  "pandas-stubs",
+  "types-PyYAML",
+  "types-psutil",
+]
+torch = [
+  "torch>=1.9.0",
+]
+nightscout = [
+  "py-nightscout",
+]
+research = [
+  "torch>=2.0.0",
+  "pyarrow>=12.0.0",
+  "h5py>=3.10.0",
+  "onnx>=1.16.0",
+  "onnxscript>=0.1.0",
+]
+
+[project.scripts]
+iints = "iints.cli.cli:app"
+
+[project.entry-points."iints.algorithms"]
+"PID Controller" = "iints.core.algorithms.pid_controller:PIDController"
+"Fixed Basal Bolus" = "iints.core.algorithms.fixed_basal_bolus:FixedBasalBolus"
+"Correction Bolus" = "iints.core.algorithms.correction_bolus:CorrectionBolusAlgorithm"
+"Standard Pump" = "iints.core.algorithms.standard_pump_algo:StandardPumpAlgorithm"
+"Mock Constant Dose" = "iints.core.algorithms.mock_algorithms:ConstantDoseAlgorithm"
+"Mock Random Dose" = "iints.core.algorithms.mock_algorithms:RandomDoseAlgorithm"
+
+[project.urls]
+"Homepage" = "https://github.com/python35/IINTS-SDK"
+
+[tool.setuptools.packages.find]
+where = ["src"]
+
+[tool.setuptools.package-data]
+iints = [
+  "templates/*.py",
+  "templates/scenarios/*.json",
+  "assets/*.png",
+  "data/*.json",
+  "data/virtual_patients/*.yaml",
+  "data/demo/*.csv",
+  "presets/*.json",
+]

iints_sdk_python35-0.0.18/setup.cfg

@@ -0,0 +1,4 @@
+[egg_info]
+tag_build = 
+tag_date = 0
+