Upgrade MHub to uv and python3.11 #100
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- install uv 0.4.4 - use uv to install python 3.11 in a virtual environment under /app/.venv - install all mhubio and segdb dependencies with fixed versions in the virtual environment - install the medcmp package for output comparison and report generation - update mhub.run, mhub.update and mhub.version entrypoint utility scripts to use the uv managed virtual environment instead of system python.
- install all dependencies in a python 3.8 venv - outsource inference code in a separate cli script - run cli inference script in python 3.8 venv from the Runner via subprocess
- install all dependencies via uv
- install pyradiomics into a python 3.8 virtual environment
- replace pipenv with uv venv
- replace pipenv with uv venv
- entrypoint now lists all base image utility workflows
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The base image now ships with uv 0.4.4
The mhubio and segdb packages are now installed in a virtual environment using python 3.11 (bumped from 3.8)
All dependency versions are fixed now (and will be moved into package dependencies with a future update)
Some models require python 3.8, we created a new .venv38 environment with python 3.8 and installed the model dependencies there. The model logic is then outsourced into a cli script that is called from the Runner module.
Future base images likely will contain updated versions of uv since uv is actively developed and receives frequent improvements and fixes.