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Install the pipeline steps as commands - #27
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The scripts and their configs only worked from a clone. They now live in the package (deepaneseg/cli, deepaneseg/configs) and are installed as commands: deepaneseg-remove-skull, -extract-points, -preprocess, -train, -predict and -evaluate. `pip install git+<repo>` is enough to run them from any folder. configs/ is a package so that Hydra finds it once installed. Existing tests now run the modules instead of the script paths; the Docker image and CI use the commands.
youssefassis
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Sep 30, 2026
Install the pipeline steps as commands
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The scripts and configs move into the package, so every step is an installed command that runs from any folder:
Commands:
deepaneseg-remove-skull,-extract-points,-preprocess,-train,-predict,-evaluate. CI now also builds the wheel and runs the commands outside the repository.