monai-weekly 1.5.dev2506__py3-none-any.whl → 1.5.dev2508__py3-none-any.whl
This diff represents the content of publicly available package versions that have been released to one of the supported registries. The information contained in this diff is provided for informational purposes only and reflects changes between package versions as they appear in their respective public registries.
- monai/__init__.py +1 -1
- monai/_version.py +3 -3
- monai/apps/auto3dseg/transforms.py +1 -4
- monai/data/utils.py +6 -13
- monai/handlers/__init__.py +1 -0
- monai/handlers/average_precision.py +53 -0
- monai/inferers/inferer.py +10 -7
- monai/inferers/utils.py +1 -2
- monai/losses/dice.py +2 -14
- monai/losses/ds_loss.py +1 -3
- monai/metrics/__init__.py +1 -0
- monai/metrics/average_precision.py +187 -0
- monai/networks/layers/simplelayers.py +2 -14
- monai/networks/utils.py +4 -16
- monai/transforms/compose.py +28 -11
- monai/transforms/croppad/array.py +1 -6
- monai/transforms/io/array.py +0 -1
- monai/transforms/transform.py +15 -6
- monai/transforms/utility/array.py +2 -12
- monai/transforms/utils.py +1 -2
- monai/transforms/utils_pytorch_numpy_unification.py +2 -4
- monai/utils/enums.py +3 -2
- monai/utils/module.py +6 -6
- monai/utils/tf32.py +0 -10
- monai/visualize/class_activation_maps.py +5 -8
- {monai_weekly-1.5.dev2506.dist-info → monai_weekly-1.5.dev2508.dist-info}/METADATA +21 -17
- monai_weekly-1.5.dev2508.dist-info/RECORD +1185 -0
- {monai_weekly-1.5.dev2506.dist-info → monai_weekly-1.5.dev2508.dist-info}/top_level.txt +1 -0
- tests/apps/__init__.py +10 -0
- tests/apps/deepedit/__init__.py +10 -0
- tests/apps/deepedit/test_deepedit_transforms.py +314 -0
- tests/apps/deepgrow/__init__.py +10 -0
- tests/apps/deepgrow/test_deepgrow_dataset.py +109 -0
- tests/apps/deepgrow/transforms/__init__.py +10 -0
- tests/apps/deepgrow/transforms/test_deepgrow_interaction.py +97 -0
- tests/apps/deepgrow/transforms/test_deepgrow_transforms.py +556 -0
- tests/apps/detection/__init__.py +10 -0
- tests/apps/detection/metrics/__init__.py +10 -0
- tests/apps/detection/metrics/test_detection_coco_metrics.py +69 -0
- tests/apps/detection/networks/__init__.py +10 -0
- tests/apps/detection/networks/test_retinanet.py +210 -0
- tests/apps/detection/networks/test_retinanet_detector.py +203 -0
- tests/apps/detection/test_box_transform.py +370 -0
- tests/apps/detection/utils/__init__.py +10 -0
- tests/apps/detection/utils/test_anchor_box.py +88 -0
- tests/apps/detection/utils/test_atss_box_matcher.py +46 -0
- tests/apps/detection/utils/test_box_coder.py +43 -0
- tests/apps/detection/utils/test_detector_boxselector.py +67 -0
- tests/apps/detection/utils/test_detector_utils.py +96 -0
- tests/apps/detection/utils/test_hardnegsampler.py +54 -0
- tests/apps/nuclick/__init__.py +10 -0
- tests/apps/nuclick/test_nuclick_transforms.py +259 -0
- tests/apps/pathology/__init__.py +10 -0
- tests/apps/pathology/handlers/__init__.py +10 -0
- tests/apps/pathology/handlers/test_from_engine_hovernet.py +38 -0
- tests/apps/pathology/test_lesion_froc.py +333 -0
- tests/apps/pathology/test_pathology_prob_nms.py +55 -0
- tests/apps/pathology/test_prepare_batch_hovernet.py +70 -0
- tests/apps/pathology/test_sliding_window_hovernet_inference.py +303 -0
- tests/apps/pathology/transforms/__init__.py +10 -0
- tests/apps/pathology/transforms/post/__init__.py +10 -0
- tests/apps/pathology/transforms/post/test_generate_distance_map.py +51 -0
- tests/apps/pathology/transforms/post/test_generate_distance_mapd.py +70 -0
- tests/apps/pathology/transforms/post/test_generate_instance_border.py +49 -0
- tests/apps/pathology/transforms/post/test_generate_instance_borderd.py +59 -0
- tests/apps/pathology/transforms/post/test_generate_instance_centroid.py +53 -0
- tests/apps/pathology/transforms/post/test_generate_instance_centroidd.py +56 -0
- tests/apps/pathology/transforms/post/test_generate_instance_contour.py +58 -0
- tests/apps/pathology/transforms/post/test_generate_instance_contourd.py +61 -0
- tests/apps/pathology/transforms/post/test_generate_instance_type.py +51 -0
- tests/apps/pathology/transforms/post/test_generate_instance_typed.py +53 -0
- tests/apps/pathology/transforms/post/test_generate_succinct_contour.py +55 -0
- tests/apps/pathology/transforms/post/test_generate_succinct_contourd.py +57 -0
- tests/apps/pathology/transforms/post/test_generate_watershed_markers.py +53 -0
- tests/apps/pathology/transforms/post/test_generate_watershed_markersd.py +83 -0
- tests/apps/pathology/transforms/post/test_generate_watershed_mask.py +77 -0
- tests/apps/pathology/transforms/post/test_generate_watershed_maskd.py +77 -0
- tests/apps/pathology/transforms/post/test_hovernet_instance_map_post_processing.py +61 -0
- tests/apps/pathology/transforms/post/test_hovernet_instance_map_post_processingd.py +66 -0
- tests/apps/pathology/transforms/post/test_hovernet_nuclear_type_post_processing.py +66 -0
- tests/apps/pathology/transforms/post/test_watershed.py +60 -0
- tests/apps/pathology/transforms/post/test_watershedd.py +70 -0
- tests/apps/pathology/transforms/test_pathology_he_stain.py +230 -0
- tests/apps/pathology/transforms/test_pathology_he_stain_dict.py +225 -0
- tests/apps/reconstruction/__init__.py +10 -0
- tests/apps/reconstruction/nets/__init__.py +10 -0
- tests/apps/reconstruction/nets/test_recon_net_utils.py +82 -0
- tests/apps/reconstruction/test_complex_utils.py +77 -0
- tests/apps/reconstruction/test_fastmri_reader.py +82 -0
- tests/apps/reconstruction/test_mri_utils.py +37 -0
- tests/apps/reconstruction/transforms/__init__.py +10 -0
- tests/apps/reconstruction/transforms/test_kspace_mask.py +50 -0
- tests/apps/reconstruction/transforms/test_reference_based_normalize_intensity.py +77 -0
- tests/apps/reconstruction/transforms/test_reference_based_spatial_cropd.py +57 -0
- tests/apps/test_auto3dseg_bundlegen.py +156 -0
- tests/apps/test_check_hash.py +53 -0
- tests/apps/test_cross_validation.py +74 -0
- tests/apps/test_decathlondataset.py +93 -0
- tests/apps/test_download_and_extract.py +70 -0
- tests/apps/test_download_url_yandex.py +45 -0
- tests/apps/test_mednistdataset.py +72 -0
- tests/apps/test_mmar_download.py +154 -0
- tests/apps/test_tciadataset.py +123 -0
- tests/apps/vista3d/__init__.py +10 -0
- tests/apps/vista3d/test_point_based_window_inferer.py +77 -0
- tests/apps/vista3d/test_vista3d_sampler.py +100 -0
- tests/apps/vista3d/test_vista3d_transforms.py +94 -0
- tests/bundle/__init__.py +10 -0
- tests/bundle/test_bundle_ckpt_export.py +107 -0
- tests/bundle/test_bundle_download.py +435 -0
- tests/bundle/test_bundle_get_data.py +94 -0
- tests/bundle/test_bundle_push_to_hf_hub.py +41 -0
- tests/bundle/test_bundle_trt_export.py +147 -0
- tests/bundle/test_bundle_utils.py +149 -0
- tests/bundle/test_bundle_verify_metadata.py +66 -0
- tests/bundle/test_bundle_verify_net.py +76 -0
- tests/bundle/test_bundle_workflow.py +272 -0
- tests/bundle/test_component_locator.py +38 -0
- tests/bundle/test_config_item.py +138 -0
- tests/bundle/test_config_parser.py +392 -0
- tests/bundle/test_reference_resolver.py +114 -0
- tests/config/__init__.py +10 -0
- tests/config/test_cv2_dist.py +53 -0
- tests/engines/__init__.py +10 -0
- tests/engines/test_ensemble_evaluator.py +94 -0
- tests/engines/test_prepare_batch_default.py +76 -0
- tests/engines/test_prepare_batch_default_dist.py +76 -0
- tests/engines/test_prepare_batch_diffusion.py +104 -0
- tests/engines/test_prepare_batch_extra_input.py +80 -0
- tests/fl/__init__.py +10 -0
- tests/fl/monai_algo/__init__.py +10 -0
- tests/fl/monai_algo/test_fl_monai_algo.py +251 -0
- tests/fl/monai_algo/test_fl_monai_algo_dist.py +117 -0
- tests/fl/test_fl_monai_algo_stats.py +81 -0
- tests/fl/utils/__init__.py +10 -0
- tests/fl/utils/test_fl_exchange_object.py +63 -0
- tests/handlers/__init__.py +10 -0
- tests/handlers/test_handler_average_precision.py +79 -0
- tests/handlers/test_handler_checkpoint_loader.py +182 -0
- tests/handlers/test_handler_checkpoint_saver.py +233 -0
- tests/handlers/test_handler_classification_saver.py +64 -0
- tests/handlers/test_handler_classification_saver_dist.py +77 -0
- tests/handlers/test_handler_clearml_image.py +65 -0
- tests/handlers/test_handler_clearml_stats.py +65 -0
- tests/handlers/test_handler_confusion_matrix.py +104 -0
- tests/handlers/test_handler_confusion_matrix_dist.py +70 -0
- tests/handlers/test_handler_decollate_batch.py +66 -0
- tests/handlers/test_handler_early_stop.py +68 -0
- tests/handlers/test_handler_garbage_collector.py +73 -0
- tests/handlers/test_handler_hausdorff_distance.py +111 -0
- tests/handlers/test_handler_ignite_metric.py +191 -0
- tests/handlers/test_handler_lr_scheduler.py +94 -0
- tests/handlers/test_handler_mean_dice.py +98 -0
- tests/handlers/test_handler_mean_iou.py +76 -0
- tests/handlers/test_handler_metrics_reloaded.py +149 -0
- tests/handlers/test_handler_metrics_saver.py +89 -0
- tests/handlers/test_handler_metrics_saver_dist.py +120 -0
- tests/handlers/test_handler_mlflow.py +296 -0
- tests/handlers/test_handler_nvtx.py +93 -0
- tests/handlers/test_handler_panoptic_quality.py +89 -0
- tests/handlers/test_handler_parameter_scheduler.py +136 -0
- tests/handlers/test_handler_post_processing.py +74 -0
- tests/handlers/test_handler_prob_map_producer.py +111 -0
- tests/handlers/test_handler_regression_metrics.py +160 -0
- tests/handlers/test_handler_regression_metrics_dist.py +245 -0
- tests/handlers/test_handler_rocauc.py +48 -0
- tests/handlers/test_handler_rocauc_dist.py +54 -0
- tests/handlers/test_handler_stats.py +281 -0
- tests/handlers/test_handler_surface_distance.py +113 -0
- tests/handlers/test_handler_tb_image.py +61 -0
- tests/handlers/test_handler_tb_stats.py +166 -0
- tests/handlers/test_handler_validation.py +59 -0
- tests/handlers/test_trt_compile.py +145 -0
- tests/handlers/test_write_metrics_reports.py +68 -0
- tests/inferers/__init__.py +10 -0
- tests/inferers/test_avg_merger.py +179 -0
- tests/inferers/test_controlnet_inferers.py +1388 -0
- tests/inferers/test_diffusion_inferer.py +236 -0
- tests/inferers/test_latent_diffusion_inferer.py +884 -0
- tests/inferers/test_patch_inferer.py +309 -0
- tests/inferers/test_saliency_inferer.py +55 -0
- tests/inferers/test_slice_inferer.py +57 -0
- tests/inferers/test_sliding_window_inference.py +377 -0
- tests/inferers/test_sliding_window_splitter.py +284 -0
- tests/inferers/test_wsi_sliding_window_splitter.py +249 -0
- tests/inferers/test_zarr_avg_merger.py +326 -0
- tests/integration/__init__.py +10 -0
- tests/integration/test_auto3dseg_ensemble.py +211 -0
- tests/integration/test_auto3dseg_hpo.py +189 -0
- tests/integration/test_deepedit_interaction.py +122 -0
- tests/integration/test_downsample_block.py +50 -0
- tests/integration/test_hovernet_nuclear_type_post_processingd.py +71 -0
- tests/integration/test_integration_autorunner.py +201 -0
- tests/integration/test_integration_bundle_run.py +240 -0
- tests/integration/test_integration_classification_2d.py +282 -0
- tests/integration/test_integration_determinism.py +95 -0
- tests/integration/test_integration_fast_train.py +231 -0
- tests/integration/test_integration_gpu_customization.py +159 -0
- tests/integration/test_integration_lazy_samples.py +219 -0
- tests/integration/test_integration_nnunetv2_runner.py +96 -0
- tests/integration/test_integration_segmentation_3d.py +304 -0
- tests/integration/test_integration_sliding_window.py +100 -0
- tests/integration/test_integration_stn.py +133 -0
- tests/integration/test_integration_unet_2d.py +67 -0
- tests/integration/test_integration_workers.py +61 -0
- tests/integration/test_integration_workflows.py +365 -0
- tests/integration/test_integration_workflows_adversarial.py +173 -0
- tests/integration/test_integration_workflows_gan.py +158 -0
- tests/integration/test_loader_semaphore.py +48 -0
- tests/integration/test_mapping_filed.py +122 -0
- tests/integration/test_meta_affine.py +183 -0
- tests/integration/test_metatensor_integration.py +114 -0
- tests/integration/test_module_list.py +76 -0
- tests/integration/test_one_of.py +283 -0
- tests/integration/test_pad_collation.py +124 -0
- tests/integration/test_reg_loss_integration.py +107 -0
- tests/integration/test_retinanet_predict_utils.py +154 -0
- tests/integration/test_seg_loss_integration.py +159 -0
- tests/integration/test_spatial_combine_transforms.py +185 -0
- tests/integration/test_testtimeaugmentation.py +186 -0
- tests/integration/test_vis_gradbased.py +69 -0
- tests/integration/test_vista3d_utils.py +159 -0
- tests/losses/__init__.py +10 -0
- tests/losses/deform/__init__.py +10 -0
- tests/losses/deform/test_bending_energy.py +88 -0
- tests/losses/deform/test_diffusion_loss.py +117 -0
- tests/losses/image_dissimilarity/__init__.py +10 -0
- tests/losses/image_dissimilarity/test_global_mutual_information_loss.py +150 -0
- tests/losses/image_dissimilarity/test_local_normalized_cross_correlation_loss.py +162 -0
- tests/losses/test_adversarial_loss.py +94 -0
- tests/losses/test_barlow_twins_loss.py +109 -0
- tests/losses/test_cldice_loss.py +51 -0
- tests/losses/test_contrastive_loss.py +86 -0
- tests/losses/test_dice_ce_loss.py +123 -0
- tests/losses/test_dice_focal_loss.py +124 -0
- tests/losses/test_dice_loss.py +227 -0
- tests/losses/test_ds_loss.py +189 -0
- tests/losses/test_focal_loss.py +379 -0
- tests/losses/test_generalized_dice_focal_loss.py +85 -0
- tests/losses/test_generalized_dice_loss.py +221 -0
- tests/losses/test_generalized_wasserstein_dice_loss.py +234 -0
- tests/losses/test_giou_loss.py +62 -0
- tests/losses/test_hausdorff_loss.py +264 -0
- tests/losses/test_masked_dice_loss.py +152 -0
- tests/losses/test_masked_loss.py +87 -0
- tests/losses/test_multi_scale.py +86 -0
- tests/losses/test_nacl_loss.py +167 -0
- tests/losses/test_perceptual_loss.py +122 -0
- tests/losses/test_spectral_loss.py +86 -0
- tests/losses/test_ssim_loss.py +59 -0
- tests/losses/test_sure_loss.py +72 -0
- tests/losses/test_tversky_loss.py +198 -0
- tests/losses/test_unified_focal_loss.py +66 -0
- tests/metrics/__init__.py +10 -0
- tests/metrics/test_compute_average_precision.py +162 -0
- tests/metrics/test_compute_confusion_matrix.py +294 -0
- tests/metrics/test_compute_f_beta.py +80 -0
- tests/metrics/test_compute_fid_metric.py +40 -0
- tests/metrics/test_compute_froc.py +143 -0
- tests/metrics/test_compute_generalized_dice.py +240 -0
- tests/metrics/test_compute_meandice.py +306 -0
- tests/metrics/test_compute_meaniou.py +223 -0
- tests/metrics/test_compute_mmd_metric.py +56 -0
- tests/metrics/test_compute_multiscalessim_metric.py +83 -0
- tests/metrics/test_compute_panoptic_quality.py +113 -0
- tests/metrics/test_compute_regression_metrics.py +196 -0
- tests/metrics/test_compute_roc_auc.py +155 -0
- tests/metrics/test_compute_variance.py +147 -0
- tests/metrics/test_cumulative.py +63 -0
- tests/metrics/test_cumulative_average.py +74 -0
- tests/metrics/test_cumulative_average_dist.py +48 -0
- tests/metrics/test_hausdorff_distance.py +209 -0
- tests/metrics/test_label_quality_score.py +134 -0
- tests/metrics/test_loss_metric.py +57 -0
- tests/metrics/test_metrics_reloaded.py +96 -0
- tests/metrics/test_ssim_metric.py +78 -0
- tests/metrics/test_surface_dice.py +416 -0
- tests/metrics/test_surface_distance.py +186 -0
- tests/networks/__init__.py +10 -0
- tests/networks/blocks/__init__.py +10 -0
- tests/networks/blocks/dints_block/__init__.py +10 -0
- tests/networks/blocks/dints_block/test_acn_block.py +41 -0
- tests/networks/blocks/dints_block/test_factorized_increase.py +37 -0
- tests/networks/blocks/dints_block/test_factorized_reduce.py +37 -0
- tests/networks/blocks/dints_block/test_p3d_block.py +78 -0
- tests/networks/blocks/test_adn.py +86 -0
- tests/networks/blocks/test_convolutions.py +156 -0
- tests/networks/blocks/test_crf_cpu.py +513 -0
- tests/networks/blocks/test_crf_cuda.py +528 -0
- tests/networks/blocks/test_crossattention.py +185 -0
- tests/networks/blocks/test_denseblock.py +105 -0
- tests/networks/blocks/test_dynunet_block.py +116 -0
- tests/networks/blocks/test_fpn_block.py +88 -0
- tests/networks/blocks/test_localnet_block.py +121 -0
- tests/networks/blocks/test_mlp.py +78 -0
- tests/networks/blocks/test_patchembedding.py +212 -0
- tests/networks/blocks/test_regunet_block.py +103 -0
- tests/networks/blocks/test_se_block.py +85 -0
- tests/networks/blocks/test_se_blocks.py +78 -0
- tests/networks/blocks/test_segresnet_block.py +57 -0
- tests/networks/blocks/test_selfattention.py +232 -0
- tests/networks/blocks/test_simple_aspp.py +87 -0
- tests/networks/blocks/test_spatialattention.py +55 -0
- tests/networks/blocks/test_subpixel_upsample.py +87 -0
- tests/networks/blocks/test_text_encoding.py +49 -0
- tests/networks/blocks/test_transformerblock.py +90 -0
- tests/networks/blocks/test_unetr_block.py +158 -0
- tests/networks/blocks/test_upsample_block.py +134 -0
- tests/networks/blocks/warp/__init__.py +10 -0
- tests/networks/blocks/warp/test_dvf2ddf.py +72 -0
- tests/networks/blocks/warp/test_warp.py +250 -0
- tests/networks/layers/__init__.py +10 -0
- tests/networks/layers/filtering/__init__.py +10 -0
- tests/networks/layers/filtering/test_bilateral_approx_cpu.py +399 -0
- tests/networks/layers/filtering/test_bilateral_approx_cuda.py +404 -0
- tests/networks/layers/filtering/test_bilateral_precise.py +437 -0
- tests/networks/layers/filtering/test_phl_cpu.py +259 -0
- tests/networks/layers/filtering/test_phl_cuda.py +167 -0
- tests/networks/layers/filtering/test_trainable_bilateral.py +474 -0
- tests/networks/layers/filtering/test_trainable_joint_bilateral.py +609 -0
- tests/networks/layers/test_affine_transform.py +385 -0
- tests/networks/layers/test_apply_filter.py +89 -0
- tests/networks/layers/test_channel_pad.py +51 -0
- tests/networks/layers/test_conjugate_gradient.py +56 -0
- tests/networks/layers/test_drop_path.py +46 -0
- tests/networks/layers/test_gaussian.py +317 -0
- tests/networks/layers/test_gaussian_filter.py +206 -0
- tests/networks/layers/test_get_layers.py +65 -0
- tests/networks/layers/test_gmm.py +314 -0
- tests/networks/layers/test_grid_pull.py +93 -0
- tests/networks/layers/test_hilbert_transform.py +131 -0
- tests/networks/layers/test_lltm.py +62 -0
- tests/networks/layers/test_median_filter.py +52 -0
- tests/networks/layers/test_polyval.py +55 -0
- tests/networks/layers/test_preset_filters.py +136 -0
- tests/networks/layers/test_savitzky_golay_filter.py +141 -0
- tests/networks/layers/test_separable_filter.py +87 -0
- tests/networks/layers/test_skip_connection.py +48 -0
- tests/networks/layers/test_vector_quantizer.py +89 -0
- tests/networks/layers/test_weight_init.py +50 -0
- tests/networks/nets/__init__.py +10 -0
- tests/networks/nets/dints/__init__.py +10 -0
- tests/networks/nets/dints/test_dints_cell.py +110 -0
- tests/networks/nets/dints/test_dints_mixop.py +84 -0
- tests/networks/nets/regunet/__init__.py +10 -0
- tests/networks/nets/regunet/test_localnet.py +86 -0
- tests/networks/nets/regunet/test_regunet.py +88 -0
- tests/networks/nets/test_ahnet.py +224 -0
- tests/networks/nets/test_attentionunet.py +88 -0
- tests/networks/nets/test_autoencoder.py +95 -0
- tests/networks/nets/test_autoencoderkl.py +337 -0
- tests/networks/nets/test_basic_unet.py +102 -0
- tests/networks/nets/test_basic_unetplusplus.py +109 -0
- tests/networks/nets/test_bundle_init_bundle.py +55 -0
- tests/networks/nets/test_cell_sam_wrapper.py +58 -0
- tests/networks/nets/test_controlnet.py +215 -0
- tests/networks/nets/test_daf3d.py +62 -0
- tests/networks/nets/test_densenet.py +121 -0
- tests/networks/nets/test_diffusion_model_unet.py +585 -0
- tests/networks/nets/test_dints_network.py +168 -0
- tests/networks/nets/test_discriminator.py +59 -0
- tests/networks/nets/test_dynunet.py +181 -0
- tests/networks/nets/test_efficientnet.py +400 -0
- tests/networks/nets/test_flexible_unet.py +341 -0
- tests/networks/nets/test_fullyconnectednet.py +69 -0
- tests/networks/nets/test_generator.py +59 -0
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- tests/utils/misc/test_str2list.py +33 -0
- tests/utils/test_alias.py +44 -0
- tests/utils/test_component_store.py +73 -0
- tests/utils/test_deprecated.py +455 -0
- tests/utils/test_enum_bound_interp.py +75 -0
- tests/utils/test_evenly_divisible_all_gather_dist.py +50 -0
- tests/utils/test_get_package_version.py +34 -0
- tests/utils/test_handler_logfile.py +84 -0
- tests/utils/test_handler_metric_logger.py +62 -0
- tests/utils/test_list_to_dict.py +43 -0
- tests/utils/test_look_up_option.py +87 -0
- tests/utils/test_optional_import.py +80 -0
- tests/utils/test_pad_mode.py +39 -0
- tests/utils/test_profiling.py +208 -0
- tests/utils/test_rankfilter_dist.py +77 -0
- tests/utils/test_require_pkg.py +83 -0
- tests/utils/test_sample_slices.py +43 -0
- tests/utils/test_set_determinism.py +74 -0
- tests/utils/test_squeeze_unsqueeze.py +71 -0
- tests/utils/test_state_cacher.py +67 -0
- tests/utils/test_torchscript_utils.py +113 -0
- tests/utils/test_version.py +91 -0
- tests/utils/test_version_after.py +65 -0
- tests/utils/type_conversion/__init__.py +10 -0
- tests/utils/type_conversion/test_convert_data_type.py +152 -0
- tests/utils/type_conversion/test_get_equivalent_dtype.py +65 -0
- tests/utils/type_conversion/test_safe_dtype_range.py +99 -0
- tests/visualize/__init__.py +10 -0
- tests/visualize/test_img2tensorboard.py +46 -0
- tests/visualize/test_occlusion_sensitivity.py +128 -0
- tests/visualize/test_plot_2d_or_3d_image.py +74 -0
- tests/visualize/test_vis_cam.py +98 -0
- tests/visualize/test_vis_gradcam.py +211 -0
- tests/visualize/utils/__init__.py +10 -0
- tests/visualize/utils/test_blend_images.py +63 -0
- tests/visualize/utils/test_matshow3d.py +133 -0
- monai_weekly-1.5.dev2506.dist-info/RECORD +0 -427
- {monai_weekly-1.5.dev2506.dist-info → monai_weekly-1.5.dev2508.dist-info}/LICENSE +0 -0
- {monai_weekly-1.5.dev2506.dist-info → monai_weekly-1.5.dev2508.dist-info}/WHEEL +0 -0
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# Copyright (c) MONAI Consortium
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# Licensed under the Apache License, Version 2.0 (the "License");
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# you may not use this file except in compliance with the License.
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# You may obtain a copy of the License at
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# http://www.apache.org/licenses/LICENSE-2.0
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# Unless required by applicable law or agreed to in writing, software
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# distributed under the License is distributed on an "AS IS" BASIS,
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# WITHOUT WARRANTIES OR CONDITIONS OF ANY KIND, either express or implied.
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# See the License for the specific language governing permissions and
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# limitations under the License.
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from __future__ import annotations
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import unittest
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import torch
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from parameterized import parameterized
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from monai.transforms import SobelGradientsd
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from tests.test_utils import assert_allclose
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IMAGE = torch.zeros(1, 16, 16, dtype=torch.float32)
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IMAGE[0, 8, :] = 1
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# Output with reflect padding
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OUTPUT_3x3 = torch.zeros(2, 16, 16, dtype=torch.float32)
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OUTPUT_3x3[0, 7, :] = 0.5
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OUTPUT_3x3[0, 9, :] = -0.5
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# Output with zero padding
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OUTPUT_3x3_ZERO_PAD = OUTPUT_3x3.clone()
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OUTPUT_3x3_ZERO_PAD[1, 7, 0] = OUTPUT_3x3_ZERO_PAD[1, 9, 0] = 0.125
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OUTPUT_3x3_ZERO_PAD[1, 8, 0] = 0.25
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OUTPUT_3x3_ZERO_PAD[1, 7, -1] = OUTPUT_3x3_ZERO_PAD[1, 9, -1] = -0.125
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OUTPUT_3x3_ZERO_PAD[1, 8, -1] = -0.25
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OUTPUT_3x3_ZERO_PAD[0, 7, 0] = OUTPUT_3x3_ZERO_PAD[0, 7, -1] = 3.0 / 8.0
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OUTPUT_3x3_ZERO_PAD[0, 9, 0] = OUTPUT_3x3_ZERO_PAD[0, 9, -1] = -3.0 / 8.0
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TEST_CASE_0 = [{"image": IMAGE}, {"keys": "image", "kernel_size": 3, "dtype": torch.float32}, {"image": OUTPUT_3x3}]
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TEST_CASE_1 = [{"image": IMAGE}, {"keys": "image", "kernel_size": 3, "dtype": torch.float64}, {"image": OUTPUT_3x3}]
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TEST_CASE_2 = [
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{"image": IMAGE},
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{"keys": "image", "kernel_size": 3, "dtype": torch.float32, "new_key_prefix": "sobel_"},
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{"sobel_image": OUTPUT_3x3},
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]
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TEST_CASE_3 = [
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{"image": IMAGE},
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{"keys": "image", "kernel_size": 3, "spatial_axes": 0, "dtype": torch.float32},
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{"image": OUTPUT_3x3[0][None, ...]},
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]
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TEST_CASE_4 = [
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{"image": IMAGE},
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{"keys": "image", "kernel_size": 3, "spatial_axes": 1, "dtype": torch.float32},
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{"image": OUTPUT_3x3[1][None, ...]},
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]
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TEST_CASE_5 = [
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{"image": IMAGE},
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{"keys": "image", "kernel_size": 3, "spatial_axes": [1], "dtype": torch.float32},
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{"image": OUTPUT_3x3[1][None, ...]},
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]
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TEST_CASE_6 = [
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{"image": IMAGE},
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{"keys": "image", "kernel_size": 3, "spatial_axes": [0, 1], "normalize_kernels": True, "dtype": torch.float32},
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{"image": OUTPUT_3x3},
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]
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TEST_CASE_7 = [
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{"image": IMAGE},
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{"keys": "image", "kernel_size": 3, "spatial_axes": (0, 1), "padding_mode": "reflect", "dtype": torch.float32},
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{"image": OUTPUT_3x3},
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]
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TEST_CASE_8 = [
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{"image": IMAGE},
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{"keys": "image", "kernel_size": 3, "spatial_axes": (0, 1), "padding_mode": "zeros", "dtype": torch.float32},
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{"image": OUTPUT_3x3_ZERO_PAD},
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]
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TEST_CASE_9 = [ # Non-normalized kernels
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{"image": IMAGE},
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{"keys": "image", "kernel_size": 3, "spatial_axes": (0, 1), "normalize_kernels": False, "dtype": torch.float32},
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{"image": OUTPUT_3x3 * 8.0},
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]
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TEST_CASE_10 = [ # Normalized gradients and normalized kernels
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{"image": IMAGE},
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{
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"keys": "image",
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"kernel_size": 3,
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"spatial_axes": (0, 1),
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"normalize_kernels": True,
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"normalize_gradients": True,
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"dtype": torch.float32,
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},
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{"image": torch.cat([OUTPUT_3x3[0:1] + 0.5, OUTPUT_3x3[1:2]])},
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]
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TEST_CASE_11 = [ # Normalized gradients but non-normalized kernels
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{"image": IMAGE},
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{
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"keys": "image",
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"kernel_size": 3,
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"spatial_axes": (0, 1),
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"normalize_kernels": False,
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"normalize_gradients": True,
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"dtype": torch.float32,
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},
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{"image": torch.cat([OUTPUT_3x3[0:1] + 0.5, OUTPUT_3x3[1:2]])},
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]
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TEST_CASE_KERNEL_0 = [
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{"keys": "image", "kernel_size": 3, "dtype": torch.float64},
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(torch.tensor([-0.5, 0.0, 0.5], dtype=torch.float64), torch.tensor([0.25, 0.5, 0.25], dtype=torch.float64)),
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]
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TEST_CASE_KERNEL_1 = [
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{"keys": "image", "kernel_size": 5, "dtype": torch.float64},
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(
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torch.tensor([-0.1250, -0.2500, 0.0000, 0.2500, 0.1250], dtype=torch.float64),
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torch.tensor([0.0625, 0.2500, 0.3750, 0.2500, 0.0625], dtype=torch.float64),
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),
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]
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TEST_CASE_KERNEL_2 = [
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{"keys": "image", "kernel_size": 7, "dtype": torch.float64},
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(
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torch.tensor([-0.03125, -0.125, -0.15625, 0.0, 0.15625, 0.125, 0.03125], dtype=torch.float64),
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torch.tensor([0.015625, 0.09375, 0.234375, 0.3125, 0.234375, 0.09375, 0.015625], dtype=torch.float64),
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),
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]
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TEST_CASE_KERNEL_NON_NORMALIZED_0 = [
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{"keys": "image", "kernel_size": 3, "normalize_kernels": False, "dtype": torch.float64},
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(torch.tensor([-1.0, 0.0, 1.0], dtype=torch.float64), torch.tensor([1.0, 2.0, 1.0], dtype=torch.float64)),
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]
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TEST_CASE_KERNEL_NON_NORMALIZED_1 = [
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{"keys": "image", "kernel_size": 5, "normalize_kernels": False, "dtype": torch.float64},
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(
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torch.tensor([-1.0, -2.0, 0.0, 2.0, 1.0], dtype=torch.float64),
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torch.tensor([1.0, 4.0, 6.0, 4.0, 1.0], dtype=torch.float64),
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),
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]
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TEST_CASE_KERNEL_NON_NORMALIZED_2 = [
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{"keys": "image", "kernel_size": 7, "normalize_kernels": False, "dtype": torch.float64},
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(
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torch.tensor([-1.0, -4.0, -5.0, 0.0, 5.0, 4.0, 1.0], dtype=torch.float64),
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torch.tensor([1.0, 6.0, 15.0, 20.0, 15.0, 6.0, 1.0], dtype=torch.float64),
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),
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]
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TEST_CASE_ERROR_0 = [{"image": IMAGE}, {"keys": "image", "kernel_size": 1}] # kernel size less than 3
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TEST_CASE_ERROR_1 = [{"image": IMAGE}, {"keys": "image", "kernel_size": 4}] # even kernel size
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TEST_CASE_ERROR_2 = [{"image": IMAGE}, {"keys": "image", "spatial_axes": "horizontal"}] # wrong type direction
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TEST_CASE_ERROR_3 = [{"image": IMAGE}, {"keys": "image", "spatial_axes": 3}] # wrong direction
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TEST_CASE_ERROR_4 = [{"image": IMAGE}, {"keys": "image", "spatial_axes": [3]}] # wrong direction in a list
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TEST_CASE_ERROR_5 = [
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{"image": IMAGE},
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{"keys": "image", "spatial_axes": [0, 4]},
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] # correct and wrong direction in a list
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class SobelGradientTests(unittest.TestCase):
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backend = None
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@parameterized.expand(
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[
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TEST_CASE_0,
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TEST_CASE_1,
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TEST_CASE_2,
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TEST_CASE_3,
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TEST_CASE_4,
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TEST_CASE_5,
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TEST_CASE_6,
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TEST_CASE_7,
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TEST_CASE_8,
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TEST_CASE_9,
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TEST_CASE_10,
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TEST_CASE_11,
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]
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)
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def test_sobel_gradients(self, image_dict, arguments, expected_grad):
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sobel = SobelGradientsd(**arguments)
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grad = sobel(image_dict)
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key = "image" if "new_key_prefix" not in arguments else arguments["new_key_prefix"] + arguments["keys"]
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assert_allclose(grad[key], expected_grad[key])
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@parameterized.expand(
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[
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TEST_CASE_KERNEL_0,
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TEST_CASE_KERNEL_1,
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TEST_CASE_KERNEL_2,
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TEST_CASE_KERNEL_NON_NORMALIZED_0,
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TEST_CASE_KERNEL_NON_NORMALIZED_1,
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TEST_CASE_KERNEL_NON_NORMALIZED_2,
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]
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)
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def test_sobel_kernels(self, arguments, expected_kernels):
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sobel = SobelGradientsd(**arguments)
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self.assertEqual(sobel.kernel_diff.dtype, expected_kernels[0].dtype)
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self.assertEqual(sobel.kernel_smooth.dtype, expected_kernels[0].dtype)
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assert_allclose(sobel.kernel_diff, expected_kernels[0])
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assert_allclose(sobel.kernel_smooth, expected_kernels[1])
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@parameterized.expand(
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[
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TEST_CASE_ERROR_0,
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TEST_CASE_ERROR_1,
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TEST_CASE_ERROR_2,
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TEST_CASE_ERROR_3,
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TEST_CASE_ERROR_4,
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TEST_CASE_ERROR_5,
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]
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)
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def test_sobel_gradients_error(self, image_dict, arguments):
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with self.assertRaises(ValueError):
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sobel = SobelGradientsd(**arguments)
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sobel(image_dict)
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if __name__ == "__main__":
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unittest.main()
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# Copyright (c) MONAI Consortium
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# Licensed under the Apache License, Version 2.0 (the "License");
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# you may not use this file except in compliance with the License.
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# You may obtain a copy of the License at
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# http://www.apache.org/licenses/LICENSE-2.0
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# Unless required by applicable law or agreed to in writing, software
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# distributed under the License is distributed on an "AS IS" BASIS,
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# WITHOUT WARRANTIES OR CONDITIONS OF ANY KIND, either express or implied.
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# See the License for the specific language governing permissions and
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# limitations under the License.
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from __future__ import annotations
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import unittest
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import numpy as np
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import torch
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from parameterized import parameterized
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from monai.config import USE_COMPILED
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from monai.data.meta_obj import set_track_meta
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from monai.data.meta_tensor import MetaTensor
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from monai.data.utils import affine_to_spacing
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from monai.transforms import Spacing
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from monai.utils import fall_back_tuple
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from tests.lazy_transforms_utils import test_resampler_lazy
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from tests.test_utils import TEST_DEVICES, TEST_NDARRAYS_ALL, assert_allclose, skip_if_quick
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TESTS: list[list] = []
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for device in TEST_DEVICES:
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TESTS.append(
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[
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{"pixdim": (1.0, 1.5), "padding_mode": "zeros", "dtype": float},
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torch.arange(4).reshape((1, 2, 2)) + 1.0, # data
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torch.eye(4),
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{},
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torch.tensor([[[1.0, 1.0], [3.0, 2.0]]]),
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*device,
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]
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)
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TESTS.append(
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[
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{"pixdim": 1.0, "padding_mode": "zeros", "dtype": float},
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torch.ones((1, 2, 1, 2)), # data
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torch.eye(4),
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{},
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torch.tensor([[[[1.0, 1.0]], [[1.0, 1.0]]]]),
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*device,
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]
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)
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TESTS.append(
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[
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{"pixdim": 2.0, "padding_mode": "zeros", "dtype": float},
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torch.arange(4).reshape((1, 2, 2)) + 1.0, # data
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torch.eye(4),
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{},
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torch.tensor([[[1.0, 0.0], [0.0, 0.0]]]),
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*device,
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]
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)
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TESTS.append(
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[
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{"pixdim": (1.0, 1.0, 1.0), "padding_mode": "zeros", "dtype": float},
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torch.ones((1, 2, 1, 2)), # data
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torch.eye(4),
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{},
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torch.tensor([[[[1.0, 1.0]], [[1.0, 1.0]]]]),
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*device,
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]
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)
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TESTS.append(
|
72
|
+
[
|
73
|
+
{"pixdim": (1.0, 0.2, 1.5), "diagonal": False, "padding_mode": "zeros", "align_corners": True},
|
74
|
+
torch.ones((1, 2, 1, 2)), # data
|
75
|
+
torch.tensor([[2, 1, 0, 4], [-1, -3, 0, 5], [0, 0, 2.0, 5], [0, 0, 0, 1]]),
|
76
|
+
{},
|
77
|
+
(
|
78
|
+
torch.tensor([[[[0.75, 0.75]], [[0.75, 0.75]], [[0.75, 0.75]]]])
|
79
|
+
if USE_COMPILED
|
80
|
+
else torch.tensor([[[[0.95527864, 0.95527864]], [[1.0, 1.0]], [[1.0, 1.0]]]])
|
81
|
+
),
|
82
|
+
*device,
|
83
|
+
]
|
84
|
+
)
|
85
|
+
TESTS.append(
|
86
|
+
[
|
87
|
+
{"pixdim": (3.0, 1.0), "padding_mode": "zeros"},
|
88
|
+
torch.arange(24).reshape((2, 3, 4)), # data
|
89
|
+
torch.as_tensor(np.diag([-3.0, 0.2, 1.5, 1])),
|
90
|
+
{},
|
91
|
+
torch.tensor([[[0, 0], [4, 0], [8, 0]], [[12, 0], [16, 0], [20, 0]]]),
|
92
|
+
*device,
|
93
|
+
]
|
94
|
+
)
|
95
|
+
TESTS.append(
|
96
|
+
[
|
97
|
+
{"pixdim": (3.0, 1.0), "padding_mode": "zeros"},
|
98
|
+
torch.arange(24).reshape((2, 3, 4)), # data
|
99
|
+
torch.eye(4),
|
100
|
+
{},
|
101
|
+
torch.tensor([[[0, 1, 2, 3], [0, 0, 0, 0]], [[12, 13, 14, 15], [0, 0, 0, 0]]]),
|
102
|
+
*device,
|
103
|
+
]
|
104
|
+
)
|
105
|
+
TESTS.append(
|
106
|
+
[
|
107
|
+
{"pixdim": (1.0, 1.0), "align_corners": True},
|
108
|
+
torch.arange(24).reshape((2, 3, 4)), # data
|
109
|
+
torch.eye(4),
|
110
|
+
{},
|
111
|
+
torch.tensor(
|
112
|
+
[[[0, 1, 2, 3], [4, 5, 6, 7], [8, 9, 10, 11]], [[12, 13, 14, 15], [16, 17, 18, 19], [20, 21, 22, 23]]]
|
113
|
+
),
|
114
|
+
*device,
|
115
|
+
]
|
116
|
+
)
|
117
|
+
TESTS.append(
|
118
|
+
[
|
119
|
+
{"pixdim": (4.0, 5.0, 6.0)},
|
120
|
+
torch.arange(24).reshape((1, 2, 3, 4)), # data
|
121
|
+
torch.tensor([[-4, 0, 0, 4], [0, 5, 0, -5], [0, 0, 6, -6], [0, 0, 0, 1]]),
|
122
|
+
{},
|
123
|
+
torch.arange(24).reshape((1, 2, 3, 4)), # data
|
124
|
+
*device,
|
125
|
+
]
|
126
|
+
)
|
127
|
+
TESTS.append(
|
128
|
+
[
|
129
|
+
{"pixdim": (4.0, 5.0, 6.0), "diagonal": True},
|
130
|
+
torch.arange(24).reshape((1, 2, 3, 4)), # data
|
131
|
+
torch.tensor([[-4, 0, 0, 4], [0, 5, 0, 0], [0, 0, 6, 0], [0, 0, 0, 1]]),
|
132
|
+
{},
|
133
|
+
torch.tensor(
|
134
|
+
[[[[12, 13, 14, 15], [16, 17, 18, 19], [20, 21, 22, 23]], [[0, 1, 2, 3], [4, 5, 6, 7], [8, 9, 10, 11]]]]
|
135
|
+
),
|
136
|
+
*device,
|
137
|
+
]
|
138
|
+
)
|
139
|
+
TESTS.append(
|
140
|
+
[
|
141
|
+
{"pixdim": (4.0, 5.0, 6.0), "padding_mode": "border", "diagonal": True},
|
142
|
+
torch.arange(24).reshape((1, 2, 3, 4)), # data
|
143
|
+
torch.tensor([[-4, 0, 0, -4], [0, 5, 0, 0], [0, 0, 6, 0], [0, 0, 0, 1]]),
|
144
|
+
{},
|
145
|
+
torch.tensor(
|
146
|
+
[[[[12, 13, 14, 15], [16, 17, 18, 19], [20, 21, 22, 23]], [[0, 1, 2, 3], [4, 5, 6, 7], [8, 9, 10, 11]]]]
|
147
|
+
),
|
148
|
+
*device,
|
149
|
+
]
|
150
|
+
)
|
151
|
+
TESTS.append(
|
152
|
+
[
|
153
|
+
{"pixdim": (4.0, 5.0, 6.0), "padding_mode": "border", "diagonal": True},
|
154
|
+
torch.arange(24).reshape((1, 2, 3, 4)), # data
|
155
|
+
torch.tensor([[-4, 0, 0, -4], [0, 5, 0, 0], [0, 0, 6, 0], [0, 0, 0, 1]]),
|
156
|
+
{"mode": "nearest"},
|
157
|
+
torch.tensor(
|
158
|
+
[[[[12, 13, 14, 15], [16, 17, 18, 19], [20, 21, 22, 23]], [[0, 1, 2, 3], [4, 5, 6, 7], [8, 9, 10, 11]]]]
|
159
|
+
),
|
160
|
+
*device,
|
161
|
+
]
|
162
|
+
)
|
163
|
+
TESTS.append(
|
164
|
+
[
|
165
|
+
{"pixdim": (1.9, 4.0), "padding_mode": "zeros", "diagonal": True},
|
166
|
+
torch.arange(24).reshape((1, 4, 6)), # data
|
167
|
+
torch.tensor([[-4, 0, 0, -4], [0, 5, 0, 0], [0, 0, 6, 0], [0, 0, 0, 1]]),
|
168
|
+
{"mode": "nearest"},
|
169
|
+
torch.tensor(
|
170
|
+
[
|
171
|
+
[
|
172
|
+
[18.0, 19.0, 20.0, 20.0, 21.0, 22.0, 23.0],
|
173
|
+
[18.0, 19.0, 20.0, 20.0, 21.0, 22.0, 23.0],
|
174
|
+
[12.0, 13.0, 14.0, 14.0, 15.0, 16.0, 17.0],
|
175
|
+
[12.0, 13.0, 14.0, 14.0, 15.0, 16.0, 17.0],
|
176
|
+
[6.0, 7.0, 8.0, 8.0, 9.0, 10.0, 11.0],
|
177
|
+
[6.0, 7.0, 8.0, 8.0, 9.0, 10.0, 11.0],
|
178
|
+
[0.0, 1.0, 2.0, 2.0, 3.0, 4.0, 5.0],
|
179
|
+
]
|
180
|
+
]
|
181
|
+
),
|
182
|
+
*device,
|
183
|
+
]
|
184
|
+
)
|
185
|
+
TESTS.append(
|
186
|
+
[
|
187
|
+
{"pixdim": (5.0, 3.0), "padding_mode": "border", "diagonal": True, "dtype": torch.float32},
|
188
|
+
torch.arange(24).reshape((1, 4, 6)), # data
|
189
|
+
torch.tensor([[-4, 0, 0, 0], [0, 5, 0, 0], [0, 0, 6, 0], [0, 0, 0, 1]]),
|
190
|
+
{"mode": "bilinear"},
|
191
|
+
torch.tensor(
|
192
|
+
[
|
193
|
+
[
|
194
|
+
[18.0, 18.6, 19.2, 19.8, 20.400002, 21.0, 21.6, 22.2, 22.8],
|
195
|
+
[10.5, 11.1, 11.700001, 12.299999, 12.900001, 13.5, 14.1, 14.700001, 15.3],
|
196
|
+
[3.0, 3.6000001, 4.2000003, 4.8, 5.4000006, 6.0, 6.6000004, 7.200001, 7.8],
|
197
|
+
]
|
198
|
+
]
|
199
|
+
),
|
200
|
+
*device,
|
201
|
+
]
|
202
|
+
)
|
203
|
+
TESTS.append(
|
204
|
+
[
|
205
|
+
{"pixdim": (5.0, 3.0), "padding_mode": "zeros", "diagonal": True, "dtype": torch.float32},
|
206
|
+
torch.arange(24).reshape((1, 4, 6)), # data
|
207
|
+
torch.tensor([[-4, 0, 0, 0], [0, 5, 0, 0], [0, 0, 6, 0], [0, 0, 0, 1]]),
|
208
|
+
{"mode": "bilinear"},
|
209
|
+
torch.tensor(
|
210
|
+
[
|
211
|
+
[
|
212
|
+
[18.0000, 18.6000, 19.2000, 19.8000, 20.4000, 21.0000, 21.6000, 22.2000, 22.8000],
|
213
|
+
[10.5000, 11.1000, 11.7000, 12.3000, 12.9000, 13.5000, 14.1000, 14.7000, 15.3000],
|
214
|
+
[3.0000, 3.6000, 4.2000, 4.8000, 5.4000, 6.0000, 6.6000, 7.2000, 7.8000],
|
215
|
+
]
|
216
|
+
]
|
217
|
+
),
|
218
|
+
*device,
|
219
|
+
]
|
220
|
+
)
|
221
|
+
TESTS.append(
|
222
|
+
[
|
223
|
+
{"pixdim": [-1, -1, 0.5], "padding_mode": "zeros", "dtype": float},
|
224
|
+
torch.ones((1, 2, 1, 2)), # data
|
225
|
+
torch.eye(4),
|
226
|
+
{},
|
227
|
+
torch.tensor([[[[1.0, 1.0, 1.0]], [[1.0, 1.0, 1.0]]]]),
|
228
|
+
*device,
|
229
|
+
]
|
230
|
+
)
|
231
|
+
TESTS.append( # 5D input
|
232
|
+
[
|
233
|
+
{"pixdim": [-1, -1, 0.5], "padding_mode": "zeros", "dtype": float, "align_corners": True},
|
234
|
+
torch.ones((1, 2, 2, 2, 1)), # data
|
235
|
+
torch.eye(4),
|
236
|
+
{},
|
237
|
+
torch.ones((1, 2, 2, 3, 1)),
|
238
|
+
*device,
|
239
|
+
]
|
240
|
+
)
|
241
|
+
TESTS.append( # 5D input
|
242
|
+
[
|
243
|
+
{"pixdim": 0.5, "padding_mode": "constant", "mode": "nearest", "scale_extent": True},
|
244
|
+
torch.ones((1, 368, 336, 368)), # data
|
245
|
+
torch.tensor(
|
246
|
+
[
|
247
|
+
[0.41, 0.005, 0.008, -79.7],
|
248
|
+
[-0.0049, 0.592, 0.0664, -57.4],
|
249
|
+
[-0.0073, -0.0972, 0.404, -32.1],
|
250
|
+
[0.0, 0.0, 0.0, 1.0],
|
251
|
+
]
|
252
|
+
),
|
253
|
+
{},
|
254
|
+
torch.ones((1, 302, 403, 301)),
|
255
|
+
*device,
|
256
|
+
]
|
257
|
+
)
|
258
|
+
|
259
|
+
TESTS_TORCH = []
|
260
|
+
for track_meta in (False, True):
|
261
|
+
for p in TEST_NDARRAYS_ALL:
|
262
|
+
TESTS_TORCH.append([[1.2, 1.3, 0.9], p(torch.zeros((1, 3, 4, 5))), track_meta])
|
263
|
+
|
264
|
+
TEST_INVERSE = []
|
265
|
+
for d in TEST_DEVICES:
|
266
|
+
for recompute in (False, True):
|
267
|
+
for align in (False, True):
|
268
|
+
for scale_extent in (False, True):
|
269
|
+
TEST_INVERSE.append([*d, recompute, align, scale_extent])
|
270
|
+
|
271
|
+
|
272
|
+
@skip_if_quick
|
273
|
+
class TestSpacingCase(unittest.TestCase):
|
274
|
+
@parameterized.expand(TESTS)
|
275
|
+
def test_spacing(
|
276
|
+
self,
|
277
|
+
init_param: dict,
|
278
|
+
img: torch.Tensor,
|
279
|
+
affine: torch.Tensor,
|
280
|
+
data_param: dict,
|
281
|
+
expected_output: torch.Tensor,
|
282
|
+
device: torch.device,
|
283
|
+
):
|
284
|
+
img = MetaTensor(img, affine=affine).to(device)
|
285
|
+
tr = Spacing(**init_param)
|
286
|
+
call_param = data_param.copy()
|
287
|
+
call_param["data_array"] = img
|
288
|
+
res: MetaTensor = tr(**call_param) # type: ignore
|
289
|
+
self.assertEqual(img.device, res.device)
|
290
|
+
|
291
|
+
test_resampler_lazy(tr, res, init_param=init_param, call_param=call_param)
|
292
|
+
|
293
|
+
assert_allclose(res, expected_output, atol=1e-1, rtol=1e-1)
|
294
|
+
sr = min(len(res.shape) - 1, 3)
|
295
|
+
if isinstance(init_param["pixdim"], float):
|
296
|
+
init_param["pixdim"] = [init_param["pixdim"]] * sr
|
297
|
+
init_pixdim = init_param["pixdim"][:sr]
|
298
|
+
norm = affine_to_spacing(res.affine, sr).cpu().numpy()
|
299
|
+
assert_allclose(fall_back_tuple(init_pixdim, norm), norm, type_test=False) # type: ignore
|
300
|
+
|
301
|
+
@parameterized.expand(TESTS_TORCH)
|
302
|
+
def test_spacing_torch(self, pixdim, img, track_meta: bool):
|
303
|
+
set_track_meta(track_meta)
|
304
|
+
init_param = {"pixdim": pixdim}
|
305
|
+
tr = Spacing(**init_param)
|
306
|
+
call_param = {"data_array": img}
|
307
|
+
res = tr(**call_param)
|
308
|
+
|
309
|
+
if track_meta:
|
310
|
+
self.assertIsInstance(res, MetaTensor)
|
311
|
+
new_spacing = affine_to_spacing(res.affine, 3) # type: ignore
|
312
|
+
assert_allclose(new_spacing, pixdim, type_test=False)
|
313
|
+
self.assertNotEqual(img.shape, res.shape)
|
314
|
+
test_resampler_lazy(tr, res, init_param=init_param, call_param=call_param)
|
315
|
+
else:
|
316
|
+
self.assertIsInstance(res, torch.Tensor)
|
317
|
+
self.assertNotIsInstance(res, MetaTensor)
|
318
|
+
self.assertNotEqual(img.shape, res.shape)
|
319
|
+
set_track_meta(True)
|
320
|
+
|
321
|
+
@parameterized.expand(TEST_INVERSE)
|
322
|
+
def test_inverse(self, device, recompute, align, scale_extent):
|
323
|
+
img_t = torch.rand((1, 10, 9, 8), dtype=torch.float32, device=device)
|
324
|
+
affine = torch.tensor(
|
325
|
+
[[0, 0, -1, 0], [1, 0, 0, 0], [0, 1, 0, 0], [0, 0, 0, 1]], dtype=torch.float32, device="cpu"
|
326
|
+
)
|
327
|
+
meta = {"fname": "somewhere"}
|
328
|
+
img = MetaTensor(img_t, affine=affine, meta=meta)
|
329
|
+
tr = Spacing(pixdim=[1.1, 1.2, 0.9], recompute_affine=recompute, align_corners=align, scale_extent=scale_extent)
|
330
|
+
# check that image and affine have changed
|
331
|
+
img = tr(img)
|
332
|
+
self.assertNotEqual(img.shape, img_t.shape)
|
333
|
+
l2_norm_affine = ((affine - img.affine) ** 2).sum() ** 0.5
|
334
|
+
self.assertGreater(l2_norm_affine, 5e-2)
|
335
|
+
# check that with inverse, image affine are back to how they were
|
336
|
+
img = tr.inverse(img)
|
337
|
+
self.assertEqual(img.applied_operations, [])
|
338
|
+
self.assertEqual(img.shape, img_t.shape)
|
339
|
+
l2_norm_affine = ((affine - img.affine) ** 2).sum() ** 0.5
|
340
|
+
self.assertLess(l2_norm_affine, 5e-2)
|
341
|
+
|
342
|
+
@parameterized.expand(TEST_INVERSE)
|
343
|
+
def test_inverse_mn_mx(self, device, recompute, align, scale_extent):
|
344
|
+
img_t = torch.rand((1, 10, 9, 8), dtype=torch.float32, device=device)
|
345
|
+
affine = torch.tensor(
|
346
|
+
[[0, 0, -1, 0], [1, 0, 0, 0], [0, 1, 0, 0], [0, 0, 0, 1]], dtype=torch.float32, device="cpu"
|
347
|
+
)
|
348
|
+
img = MetaTensor(img_t, affine=affine, meta={"fname": "somewhere"})
|
349
|
+
choices = [(None, None), [1.2, None], [None, 0.7], [0.7, 0.9]]
|
350
|
+
idx = np.random.choice(range(len(choices)), size=1)[0]
|
351
|
+
tr = Spacing(
|
352
|
+
pixdim=[1.1, 1.2, 0.9],
|
353
|
+
recompute_affine=recompute,
|
354
|
+
align_corners=align,
|
355
|
+
scale_extent=scale_extent,
|
356
|
+
min_pixdim=[0.9, None, choices[idx][0]],
|
357
|
+
max_pixdim=[1.1, 1.1, choices[idx][1]],
|
358
|
+
)
|
359
|
+
img_out = tr(img)
|
360
|
+
if isinstance(img_out, MetaTensor):
|
361
|
+
assert_allclose(
|
362
|
+
img_out.pixdim, [1.0, 1.125, 0.888889] if recompute else [1.0, 1.2, 0.9], type_test=False, rtol=1e-4
|
363
|
+
)
|
364
|
+
img_out = tr.inverse(img_out)
|
365
|
+
self.assertEqual(img_out.applied_operations, [])
|
366
|
+
self.assertEqual(img_out.shape, img_t.shape)
|
367
|
+
self.assertLess(((affine - img_out.affine) ** 2).sum() ** 0.5, 5e-2)
|
368
|
+
|
369
|
+
def test_property_no_change(self):
|
370
|
+
affine = torch.tensor(
|
371
|
+
[[1, 0, 0, 0], [0, 1, 0, 0], [0, 0, 1, 0], [0, 0, 0, 1]], dtype=torch.float32, device="cpu"
|
372
|
+
)
|
373
|
+
affine[:3] *= 1 - 1e-4 # make sure it's not exactly target but close to the target
|
374
|
+
img = MetaTensor(torch.rand((1, 10, 9, 8), dtype=torch.float32), affine=affine, meta={"fname": "somewhere"})
|
375
|
+
tr = Spacing(pixdim=[1.0, 1.0, 1.0])
|
376
|
+
tr(img)
|
377
|
+
assert_allclose(tr.pixdim, [1.0, 1.0, 1.0], type_test=False)
|
378
|
+
|
379
|
+
|
380
|
+
if __name__ == "__main__":
|
381
|
+
unittest.main()
|