├── .gitignore ├── CONTRIBUTING.md ├── LICENSE ├── README.md ├── connectomics ├── .editorconfig ├── common │ ├── array.py │ ├── array_test.py │ ├── async_lib.py │ ├── beam_utils.py │ ├── beam_utils_test.py │ ├── binaries.py │ ├── bounding_box.py │ ├── bounding_box_test.py │ ├── box_generator.py │ ├── box_generator_test.py │ ├── counters.py │ ├── counters_test.py │ ├── file.py │ ├── file_test.py │ ├── geom_utils.py │ ├── gin_utils.py │ ├── gin_utils_test.py │ ├── graph_utils.py │ ├── import_util.py │ ├── io_utils.py │ ├── io_utils_test.py │ ├── jax_utils.py │ ├── jax_utils_test.py │ ├── metadata_utils.py │ ├── object_utils.py │ ├── opencv_utils.py │ ├── opencv_utils_test.py │ ├── sharding.py │ ├── ts_utils.py │ ├── tuples.py │ ├── tuples_test.py │ ├── union_find.py │ ├── union_find_test.py │ ├── utils.py │ └── utils_test.py ├── jax │ ├── checkpoint.py │ ├── config_util.py │ ├── config_util_test.py │ ├── grain_util.py │ ├── grain_util_test.py │ ├── inputs │ │ ├── tensorloader.py │ │ └── tensorloader_test.py │ ├── metrics.py │ ├── metrics_test.py │ ├── models │ │ ├── activation.py │ │ ├── attention.py │ │ ├── attention_test.py │ │ ├── convstack.py │ │ ├── initializer.py │ │ ├── normalization.py │ │ ├── normalization_test.py │ │ └── util.py │ ├── parameter_replacement_util.py │ ├── parameter_replacement_util_test.py │ ├── training.py │ ├── util.py │ └── util_test.py ├── metrics │ ├── ellipticity.py │ └── ellipticity_test.py ├── pipeline │ ├── beam │ │ ├── README.md │ │ ├── compute_dfbyf.py │ │ ├── compute_percentiles.py │ │ ├── example.gin │ │ ├── pipeline_test.py │ │ ├── requirements.txt │ │ ├── reshard_tensor.py │ │ ├── run_pipeline.py │ │ └── setup.py │ ├── dask │ │ ├── cluster.py │ │ ├── plugins.py │ │ └── runner.py │ ├── launch_local_dask_cluster.py │ ├── materialize_tensor.py │ └── process_volume_dask.py ├── segclr │ ├── README.md │ ├── classification │ │ ├── README.md │ │ ├── classifier_utils.py │ │ ├── evaluation.py │ │ ├── evaluation_utils.py │ │ ├── model_configs.py │ │ ├── model_def.py │ │ ├── model_handler.py │ │ └── uncertainty_utils.py │ ├── encoders.py │ ├── inference.py │ ├── model.py │ ├── model_util.py │ ├── objective.py │ ├── reader.py │ ├── resnet.py │ └── tf2 │ │ ├── data_augmentation_util.py │ │ ├── data_input_util.py │ │ ├── data_shaping_util.py │ │ ├── legacy_model.py │ │ ├── metrics.py │ │ ├── model.py │ │ ├── objective.py │ │ └── resnet.py ├── segmentation │ ├── consistency.py │ ├── consistency_test.py │ ├── labels.py │ ├── labels_test.py │ ├── process.py │ ├── process_test.py │ ├── rag.py │ └── rag_test.py └── volume │ ├── base.py │ ├── base_test.py │ ├── decorators.py │ ├── decorators_test.py │ ├── descriptor.py │ ├── descriptor_test.py │ ├── mask.py │ ├── mask_test.py │ ├── metadata.py │ ├── metadata_test.py │ ├── processor │ ├── __init__.py │ ├── contrast.py │ ├── filters.py │ ├── filters_test.py │ ├── noop.py │ └── segmentation.py │ ├── subvolume.py │ ├── subvolume_processor.py │ ├── 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