vbookshelf/Data-Science-Toolkit-HYA

Data Science Toolkit v2.0

Data Science trainers often lose a lot of teaching time trying to fix "it doesn't work on my machine" issues. The Data Science Toolkit removes that frustration. It's a pre-built data science env for macOS that bundles the Python 3.10 interpreter, the uv binary and all packages. Every student gets the same JupyterLab venv that they launch with a double-click. No more dependency drama.

This is a Hybrid App (HYA). The first install requires an internet connection. After that it can run offline.

• A portable folder-based app.
• No system-wide installation required.
• The Python 3.10 interpreter is included - students don't need to install a new Python version.
• The uv binary is also included - no need to install uv.
• The trainer can easily curate the list of packages.
• uv automatically resolves all dependencies to prevent clashes.
• Double-click to launch.

What packages are included?

pandas
numpy
scipy
matplotlib
scikit-learn
xgboost
lightgbm
catboost
jupyter
jupyterlab
tqdm

How to Use

System Requirements:

• Operating System: MacOS
• Computer: Apple Silicon Mac (M1, M2, M3, etc.)
• RAM: 8 GB
• Free disk Space: 740 MB

1. Download the Data-Science-Toolkit-v2.0-HYA.zip folder and unzip.
2. Right click on the Data-Science-Toolkit-v2.0-HYA folder and select: New Terminal at Folder
3. MacOS often quarantines downloaded files. To make the launch script executable, paste this command into the terminal and press Enter:

cat start-mac-app.command > temp && mv temp start-mac-app.command && chmod +x start-mac-app.command

You only need to do this once, during the setup.

4. Open the Data-Science-Toolkit-v2.0-HYA folder and double-click this file: start-mac-app.command
   If a MacOS security popup appears, click: "Allow"

5. The packages will be downloaded.

6. JupyterLab will then open. This may take a few seconds. Please be patient if you don't see anything happening. During normal use the app will open much faster.

One Command. Complete Control.

You would have noticed that, to make this app executable, this command needed to be typed in the terminal:

cat start-mac-app.command > temp && mv temp start-mac-app.command && chmod +x start-mac-app.command

To remove this requirement the start-mac-app.command file would need to be code signed. Most macOS apps distributed outside the App Store are code signed using an Apple Developer ID certificate. Code signing requires an active Apple Developer Program membership.

This project does not use code signing because it introduces a point of failure. If the Apple membership lapses, or if Apple revokes the certificate for any reason, signed apps will stop launching cleanly for new users. This risk is unacceptable.

In exchange for the minor inconvenience of typing one command into the terminal during setup, you get a reliable app that has no dependency on any third party. You have complete control.

How to add or remove packages

First, install uv (system-wide)

Paste this command into the terminal and press Enter:

wget -qO- https://astral.sh/uv/install.sh | sh

There are two ways to add new python packages.

You won’t need to worry about clashes - uv will automatically resolve all dependencies.

Option 1:

cd into the sub folder named app. Then type:

uv add <package-name>

e.g. uv add pyserial

The package will be downloaded and the pyproject.toml file will be automatically updated to include the new package name.

Option 2:

Open the pyproject.toml file in a text editor. Add the new package name/s to the list. Then cd into the app sub folder and type:

uv sync

The packages will be downloaded.

References

• Offline Data Lab
  https://huggingface.co/datasets/vbookshelf/Offline-Data-Lab-TDA

• Bioinformatics Toolkit
  https://huggingface.co/datasets/vbookshelf/Bioinformatics-Toolkit-HYA

Revision History

Version 2.0
23-March-2026
Prototype. Released for testing.

• Made changes to app launch instructions.
• Made changes to the instructions on how to add new packages.

Version 1.0
18-March-2026
Prototype. Released for testing.