Mask builders#42

Merged

matejpekar merged 79 commits intomainfrom

Apr 23, 2026

Commits on Mar 13, 2026

feat: try to migrate changes to RatioPath from RationAI masks

AdamBajger
authored and
matejpekar
committed
refactor: split into files

AdamBajger
authored and
matejpekar
committed
Update ratiopath/masks/write_big_tiff.py

vejtek
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matejpekar
committed
fix: add numpy and jaxtyping imports to mask builder modules

AdamBajger
authored and
matejpekar
committed
Update ratiopath/masks/mask_builders/receptive_field_manipulation.py

authored and
matejpekar
committed
fix: overlap naming convention

authored and
matejpekar
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fix: all imports correction

authored and
matejpekar
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refactor: move __all__ exports to top in mask builder module __init__

AdamBajger
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matejpekar
committed
fix: typo bracket

AdamBajger
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matejpekar
committed
chore: ruff check and format

AdamBajger
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matejpekar
committed
fix: test filenames

AdamBajger
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matejpekar
committed
fix: update geopandas dependency version and refactor GeoJSONParser logic

Adames4
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matejpekar
committed
fix: update lock + freeze sync
matejpekar
committed
fix: mypy
matejpekar
committed
fix: unlink overlaps file in tests which was previously left linked

AdamBajger
authored and
matejpekar
committed
Update tests/test_mask_builders.py

authored and
matejpekar
committed
Update ratiopath/masks/mask_builders/__init__.py

authored and
matejpekar
committed
Initial plan

Copilot
authored and
matejpekar
committed
fix: correct module and class names in example code

authored and
matejpekar
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fix: update docstring Args to match constructor signature

authored and
matejpekar
committed
Initial plan

Copilot
authored and
matejpekar
committed
fix: correct typo in test docstring (SImple → Simple)

authored and
matejpekar
committed
Apply suggestions from code review

authored and
matejpekar
committed
Update tests/test_mask_builders.py

authored and
matejpekar
committed
Initial plan

Copilot
authored and
matejpekar
committed
chore: run ruff format to fix linting issues

authored and
matejpekar
committed
docs: fix example code

AdamBajger
authored and
matejpekar
committed
refactor: remove obsolete field

AdamBajger
authored and
matejpekar
committed
chore: replace ellipsis by pass

authored and
matejpekar
committed
Initial plan

Copilot
authored and
matejpekar
committed
fix: correct docstring example - remove duplicate import, add numpy, fix update_batch signature

authored and
matejpekar
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fix: update all mask builder docstring examples with correct API signatures

authored and
matejpekar
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docs: add mask builders documentation and run ruff format

authored and
matejpekar
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docs: validate mkdocs builds successfully

authored and
matejpekar
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chore: add site/ to gitignore and remove from git

authored and
matejpekar
committed
docs: clarify generate_tiles_from_slide is a placeholder function

authored and
matejpekar
committed
fix: remove unnecessary pass to satisfylinter ruff

AdamBajger
authored and
matejpekar
committed
Initial plan

Copilot
authored and
matejpekar
committed
chore: run ruff format to fix linting errors

authored and
matejpekar
committed
fix: add explicit dtype parameter

AdamBajger
authored and
matejpekar
committed
docs: add docstrings

AdamBajger
authored and
matejpekar
committed
fix: inheritance param mismatches

AdamBajger
authored and
matejpekar
committed
fix: ruff formatting and linting

AdamBajger
authored and
matejpekar
committed
docs: fix OpenSLide level_dimensions use in examples

AdamBajger
authored and
matejpekar
committed
fix: enhance memory setup in AutoScalingAveragingClippingNumpyMemMapMaskBuilder2D with detailed docstring and dtype support

AdamBajger
authored and
matejpekar
committed
chore: ruff format

AdamBajger
authored and
matejpekar
committed
docs: add a short remark about the memmap tempfile behaviour

AdamBajger
authored and
matejpekar
committed
feat: implement a Factory class for composing mask builders dynamically

AdamBajger
authored and
matejpekar
committed
refactor: naming and typing

AdamBajger
authored and
matejpekar
committed
feat: debugging tests

AdamBajger
authored and
matejpekar
committed
exp: wip refactor slightly, fix tests on Windows platform

AdamBajger
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matejpekar
committed
fix: fix errors, update names

AdamBajger
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matejpekar
committed
chore: roll back random change I dont remember making

AdamBajger
authored and
matejpekar
committed
refactor: use better variable name

AdamBajger
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matejpekar
committed
fix: memmap deletion logic to not raise exceptions during garbage collection

AdamBajger
authored and
matejpekar
committed
fix: overlap counter dtype

AdamBajger
authored and
matejpekar
committed
fix: minor code redundancy

AdamBajger
authored and
matejpekar
committed
docs: update docs and formatting using ruff

AdamBajger
authored and
matejpekar
committed
fix: mypy warnings

AdamBajger
authored and
matejpekar
committed
chore: remove trailing space to make ruff happy

AdamBajger
authored and
matejpekar
committed
fix: mypy warnings for code someone else did

AdamBajger
authored and
matejpekar
committed
refactor: code structure for improved readability and maintainability
matejpekar
committed
fix: documentation
matejpekar
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fix: ruff
matejpekar
committed
fix: improved storage + docstrings
matejpekar
committed
Update docs/reference/masks/mask_builders.md

matejpekar
and
gemini-code-assist[bot]
authored
Update tests/test_mask_builders.py

matejpekar
and
gemini-code-assist[bot]
authored
fix: tests and naming
matejpekar
committed
fix: update version
matejpekar
committed
fix: version
matejpekar
committed
fix: negative values
matejpekar
committed

Commits on Apr 9, 2026

Strip ICC profile data before saving TIFF
matejpekar
authored

Commits on Apr 17, 2026

fix: edge clipping
matejpekar
committed