feat: begin setup of MedSAM2 benchmarking - #1

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Commits on Jun 8, 2026

docs: correct name of model prepare file in README
katy-scott
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d6a4db9
refactor: move scripts into the scripts directory
katy-scott
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48096ba

Commits on Jun 10, 2026

refactor: move scripts back out into main directory
katy-scott
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7a8f0aa
build: add simpleitk, damply, and med-imagetools
katy-scott
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8a80abf

Commits on Jun 19, 2026

Commits on Aug 10, 2026

build: switched to pyproject toml configuration
katy-scott
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d38ff61
refactor: reorg to python package setup
katy-scott
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10f7507
feat: MedSAM2 nifti to NPZ conversion script
katy-scott
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5458066
docs: update docstrings for most functions in npz converter
katy-scott
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5fb2c3a
build: dependency update for medsam npz conversion
katy-scott
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99d42d8
build: add readii for display functions
katy-scott
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57ba5df
docs: devnotes for decision about RECIST calculation
katy-scott
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55d07b3
feat: comparing RECIST calculation methods
katy-scott
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bc2d1f3
docs: correct inline comments for generate_recist function
katy-scott
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8e1e684
docs: add more docstrings to nifti to npz script
katy-scott
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e3c4786
feat: anat_window input argument and beginning of med-imagetools based pair builder
katy-scott
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f1e932c
docs: devnote on multiple lesion handling
katy-scott
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ef0ba3f

Commits on Aug 11, 2026

refactor: move prepare to the dedicated medSAM2 directory
katy-scott
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9f3c0df
feat: pair builder using med-imagetools index
katy-scott
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595a10d
build: updated pixi lock version
katy-scott
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30f2453
build: add click package
katy-scott
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40dc3a8
refactor: remove dataset name from end of out_dir path
katy-scott
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916a7bf
refactor: update to use functions from conver_nifti_to_recist_npz
katy-scott
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6ae3a19
feat: click cli inputs for medsam2 prepare
katy-scott
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351d299
docs: update docstring for run_dataset with new inputs
katy-scott
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ab652ee

Commits on Aug 14, 2026