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Update adapters and converters#440

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FynnBe wants to merge 62 commits intomainbioimage-io/core-bioimage-io-python:mainfrom fix_torch_loadbioimage-io/core-bioimage-io-python:fix_torch_loadCopy head branch name to clipboard

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Commits

Commits on Aug 15, 2024

• Fix weight converters and return their corresponding v5 weight descr

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• Create an interface for weight conversion

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Commits on Dec 2, 2024

• fix import_callable annotation

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• improve error traceback for single weights format attempt

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• add load_state

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• update ONNXModelAdapter

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• update TorchscriptModelAdapter typing

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Commits on Dec 3, 2024

• update unzipping in tensorflow model adapter

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• add upper bounds to dependencies

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• update dev envs

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• WIP setup run expensive tests

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• WIP resource tests

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• expose sha256 arg

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Commits on Dec 4, 2024

• update torchscript adapter

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• bump spec lib version

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• Merge remote-tracking branch 'thodkatz/weight-converters' into fix_torch_load

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Commits on Dec 5, 2024

• WIP refactor backend libs

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• add summary_path arg

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• update annotation

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• fix tf seeding

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• expose test_description_in_conda_env

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• docstring formatting

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Commits on Dec 6, 2024

• absorb test_description_in_conda_env into test_description

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• Merge branch 'install_conda_envs' into fix_torch_load

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• all model adapters in backends

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• sort tests

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Commits on Dec 9, 2024

• add create_model_adapter

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• pin pyright

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• continue refactor of weight converters and backends

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• update test_weight_converters.py

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• add test_bioimageio_collection.py

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• add onnx as dev dep

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Commits on Dec 10, 2024

• add get_pre_and_postprocessing

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• use dim instead of deprecated dims arg name

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Commits on Dec 11, 2024

• update tests

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• add todo

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• udpate pytorch_to_onnx converter

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Commits on Dec 18, 2024

• expose determinism to cli test command

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• WIP unify model adapters

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Commits on Dec 19, 2024

• fix TorchscriptModelAdapter

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• update predict_sample_without_blocking

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• ensure batch and channel axes have standardized id

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Commits on Dec 20, 2024

• support validation context 'raise_errors'

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• fix ONNXModelAdapter

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• _get_axis_type ->_guess_axis_type

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• fix get_axes_infos

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• bump pyright version

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• add test cases

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Commits on Jan 7, 2025

• fix pip install with no-deps

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Commits on Jan 10, 2025

• don't ignore model.v0_4.ScaleLinearKwargs with axes not implemented

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Commits on Jan 13, 2025

• fix keras and tf backends

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Commits on Jan 14, 2025

• use AxisBase instead

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Commits on Jan 15, 2025

• remove TooFewDevicesException exception

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• improve test_mean_var_std_calculator

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Commits on Jan 24, 2025

• annotate relative and absolute tolerance

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• add check_reproducibility

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• add imagecodecs dependency

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• improve increase_available_weight_formats

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Commits on Jan 27, 2025

• make docstring test os independent

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• return Tensor instead of np.ndarray

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• append to conv report

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• avoid loguru logger in conftest.py to avoid error messages by pytest-xdist

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