ENH add types for Database and transforms - #667

Draft

kroq-gar78 wants to merge 39 commits into

types/02-py23-cleanupfrom

types/01-03-04-infra-geometry-database

Commits on Aug 13, 2026

pyproject: create dep group for typechecking
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fea2cae
pyproject: ignore packages without type annotations
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8172960
CI automatically save coverage with pytest
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b14e036
Typing: Transform
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f99a411
Transform: more specific annotation
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67e1bbf
Typing: cortex/xfm.py
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f115f61
Monkeytype for cortex/volume.py
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9f4c868
xfm.py: better type
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3e4df6c
Some types for align
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71f0e59
xfm.py: remove some Python 2 logic
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90c80ac
nibabel types
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69d30ee
cortex.volume: partial type annots. Could be expanded more with dimensions
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42e4d5c
volume.py: more specific types for unmask's MaskedArray return
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d761d61
volume: use scipy.ndimage instead of deprecated interpolation shim (mypy Wave 3)
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d95e9f1
xfm/align: apply Transform.reference / reference_nifti changes from fd711d8b
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f02d3dc
Typing: formats.pyx
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e7f8298
Add type stub for formats.pyx . Unsure if the right approach
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67d037c
formats.pyi read_obj types
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df6e85e
Finish formats.pyi stub
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9ec41c7
Add types to Database
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1cfe1e1
database.py: add types to lots of things
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20f961b
Cleanup type annotations
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bebc14b
Add surface-specific overloads for get_surf
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af48680
Another attempt at get_surf
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2e6514a
Fix types in database
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79f99ec
database: specify numpy types
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a182a6a
Hail mary to get Database.get_surf working
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2fd8535
Narrower type for Database.get_mask
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d9ed6eb
More cortex/database.py types
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c2f012d
database.py: fix some errors
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ae6eac1
cortex/database.py: reduce typing errors
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9224a83
more Database types
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4e13a43
database.py: annotate from movie-rendering pass
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eb7979c
database.py: more types shared with brainctm
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329d64a
Cast nibabel to NifTI images to reduce type errors
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d14208f
database.py: apply Transform.reference_nifti change from fd711d8b
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49e48b5
database: narrow literals, type auxfile fallback
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2c0c726
database.py: remove unused ignores
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afeb100

Commits on Aug 18, 2026

database: correct auxfile annotation to be Dataset
kroq-gar78
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4556e6d