fix: update docs and fix typos#18

Draft

arthurdjn wants to merge 64 commits intomainfrom

Commits on Aug 21, 2025

add inference for nnunet
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update env
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fix processes and unused cli args
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fix cmd
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fix cli to support input csv
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fix evaluation script column names
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fix connected components connectivity
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add training and preprocessing scripts
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add scripts
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rework csv export
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update scripts
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update scripts for inference and evaluation
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update docs
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better logs
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add refinement script
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remove refinement step
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add single plan script and some schedule stuff
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renames
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fix scripts
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update the scripts
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update scripts
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test

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add script to export / convert our corrected TTB masks
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with organs
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prepare for task91_*

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use preds instead of proba as it make ram overflow

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import

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cleaner as it s done later

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remove deprecated & add pt crop

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handle the one model case

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faster majority voting

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lint

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correct resampling

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ruff

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fix error

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wip
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wip
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inference fixes
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typo
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fix tmp dir
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ensure uint8 for preds
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wip ensembling
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update config
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add configs
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name of docker image
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update configs
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linting
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update dockerfile
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ensemble
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add report
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smaller ensemble
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docker and report
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FINAL
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funcs

paul-bd
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add changes
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update lock
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ifx linting
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update scripts
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updage env
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update report
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update docs
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cleanup
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update docs
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add changes
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