monai-weekly 1.5.dev2505__py3-none-any.whl → 1.5.dev2507__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/meta_tensor.py +5 -0
- monai/data/utils.py +6 -13
- monai/inferers/utils.py +1 -2
- monai/losses/dice.py +2 -14
- monai/losses/ds_loss.py +1 -3
- 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/utils.py +1 -2
- monai/utils/jupyter_utils.py +1 -1
- monai/utils/tf32.py +0 -10
- monai/visualize/class_activation_maps.py +5 -8
- monai/visualize/img2tensorboard.py +2 -2
- {monai_weekly-1.5.dev2505.dist-info → monai_weekly-1.5.dev2507.dist-info}/METADATA +2 -2
- monai_weekly-1.5.dev2507.dist-info/RECORD +1181 -0
- {monai_weekly-1.5.dev2505.dist-info → monai_weekly-1.5.dev2507.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_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 +1310 -0
- tests/inferers/test_diffusion_inferer.py +236 -0
- tests/inferers/test_latent_diffusion_inferer.py +824 -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_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
- tests/networks/nets/test_globalnet.py +103 -0
- tests/networks/nets/test_highresnet.py +67 -0
- tests/networks/nets/test_hovernet.py +218 -0
- tests/networks/nets/test_mednext.py +122 -0
- tests/networks/nets/test_milmodel.py +92 -0
- tests/networks/nets/test_net_adapter.py +68 -0
- tests/networks/nets/test_network_consistency.py +86 -0
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- 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.dev2505.dist-info/RECORD +0 -427
- {monai_weekly-1.5.dev2505.dist-info → monai_weekly-1.5.dev2507.dist-info}/LICENSE +0 -0
- {monai_weekly-1.5.dev2505.dist-info → monai_weekly-1.5.dev2507.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 logging
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import os
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import sys
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import tempfile
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import unittest
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from io import StringIO
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from unittest.mock import patch
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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.data.meta_tensor import MetaTensor
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from monai.transforms import DataStats
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TEST_CASE_1 = [
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{
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"prefix": "test data",
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"data_type": False,
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"data_shape": False,
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"value_range": False,
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"data_value": False,
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"additional_info": None,
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"name": "DataStats",
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},
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np.array([[0, 1], [1, 2]]),
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"test data statistics:",
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]
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TEST_CASE_2 = [
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{
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"prefix": "test data",
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"data_type": True,
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"data_shape": False,
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"value_range": False,
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"data_value": False,
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"additional_info": None,
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"name": "DataStats",
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},
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np.array([[0, 1], [1, 2]]),
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"test data statistics:\nType: <class 'numpy.ndarray'>",
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]
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TEST_CASE_3 = [
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{
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"prefix": "test data",
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"data_type": True,
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"data_shape": True,
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"value_range": False,
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"data_value": False,
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"additional_info": None,
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"name": "DataStats",
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},
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np.array([[0, 1], [1, 2]]),
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"test data statistics:\nType: <class 'numpy.ndarray'>\nShape: (2, 2)",
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]
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TEST_CASE_4 = [
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{
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"prefix": "test data",
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"data_type": True,
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"data_shape": True,
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"value_range": True,
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"data_value": False,
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"additional_info": None,
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"name": "DataStats",
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},
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np.array([[0, 1], [1, 2]]),
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"test data statistics:\nType: <class 'numpy.ndarray'>\nShape: (2, 2)\nValue range: (0, 2)",
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]
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TEST_CASE_5 = [
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{
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"prefix": "test data",
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"data_type": True,
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"data_shape": True,
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"value_range": True,
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"data_value": True,
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"additional_info": None,
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"name": "DataStats",
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},
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np.array([[0, 1], [1, 2]]),
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"test data statistics:\nType: <class 'numpy.ndarray'>\nShape: (2, 2)\nValue range: (0, 2)\nValue: [[0 1]\n [1 2]]",
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]
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TEST_CASE_6 = [
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{
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"prefix": "test data",
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"data_type": True,
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"data_shape": True,
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"value_range": True,
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"data_value": True,
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"additional_info": np.mean,
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"name": "DataStats",
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},
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np.array([[0, 1], [1, 2]]),
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(
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"test data statistics:\nType: <class 'numpy.ndarray'>\nShape: (2, 2)\n"
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"Value range: (0, 2)\nValue: [[0 1]\n [1 2]]\nAdditional info: 1.0"
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),
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]
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TEST_CASE_7 = [
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{
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"prefix": "test data",
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"data_type": True,
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"data_shape": True,
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"value_range": True,
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"data_value": True,
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"additional_info": lambda x: torch.mean(x.float()),
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"name": "DataStats",
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},
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torch.tensor([[0, 1], [1, 2]]).to("cuda" if torch.cuda.is_available() else "cpu"),
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(
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"test data statistics:\nType: <class 'torch.Tensor'>\nShape: torch.Size([2, 2])\nValue range: (0, 2)\n"
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"Value: tensor([[0, 1],\n [1, 2]])\nAdditional info: 1.0"
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),
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]
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TEST_CASE_8 = [
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{
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"prefix": "test data",
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"data_type": True,
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"data_shape": True,
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"value_range": True,
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"data_value": True,
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"additional_info": np.mean,
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"name": "DataStats",
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},
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np.array([[0, 1], [1, 2]]),
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"test data statistics:\nType: <class 'numpy.ndarray'> int64\nShape: (2, 2)\nValue range: (0, 2)\n"
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"Value: [[0 1]\n [1 2]]\nAdditional info: 1.0\n",
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]
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TEST_CASE_9 = [
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np.array([[0, 1], [1, 2]]),
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"test data statistics:\nType: <class 'numpy.ndarray'> int64\nShape: (2, 2)\nValue range: (0, 2)\n"
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"Value: [[0 1]\n [1 2]]\n"
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"Meta info: '(input is not a MetaTensor)'\n"
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"Additional info: 1.0\n",
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]
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TEST_CASE_10 = [
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MetaTensor(
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torch.tensor([[0, 1], [1, 2]]),
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affine=torch.as_tensor([[2, 0, 0, 0], [0, 2, 0, 0], [0, 0, 2, 0], [0, 0, 0, 1]], dtype=torch.float64),
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meta={"some": "info"},
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),
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"test data statistics:\nType: <class 'monai.data.meta_tensor.MetaTensor'> torch.int64\n"
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"Shape: torch.Size([2, 2])\nValue range: (0, 2)\n"
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"Value: tensor([[0, 1],\n [1, 2]])\n"
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"Meta info: {'some': 'info', affine: tensor([[2., 0., 0., 0.],\n"
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" [0., 2., 0., 0.],\n"
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" [0., 0., 2., 0.],\n"
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" [0., 0., 0., 1.]], dtype=torch.float64), space: RAS}\n"
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"Additional info: 1.0\n",
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]
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class TestDataStats(unittest.TestCase):
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@parameterized.expand(
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[TEST_CASE_1, TEST_CASE_2, TEST_CASE_3, TEST_CASE_4, TEST_CASE_5, TEST_CASE_6, TEST_CASE_7, TEST_CASE_8]
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)
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def test_value(self, input_param, input_data, expected_print):
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transform = DataStats(**input_param)
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_ = transform(input_data)
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@parameterized.expand([TEST_CASE_9, TEST_CASE_10])
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def test_file(self, input_data, expected_print):
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with tempfile.TemporaryDirectory() as tempdir:
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filename = os.path.join(tempdir, "test_data_stats.log")
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handler = logging.FileHandler(filename, mode="w")
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handler.setLevel(logging.INFO)
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name = "DataStats"
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logger = logging.getLogger(name)
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logger.addHandler(handler)
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input_param = {
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"prefix": "test data",
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"data_type": True,
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"data_shape": True,
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"value_range": True,
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"data_value": True,
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"meta_info": True,
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"additional_info": np.mean,
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"name": name,
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}
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transform = DataStats(**input_param)
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_ = transform(input_data)
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for h in logger.handlers[:]:
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h.close()
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logger.removeHandler(h)
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with open(filename) as f:
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content = f.read()
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if sys.platform != "win32":
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self.assertEqual(content, expected_print)
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def test_multiple_data_stats(self):
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with patch("sys.stdout", new=StringIO()) as out:
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input_data = np.array([[0, 1], [1, 2]])
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transform = DataStats()
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_ = DataStats()
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_ = transform(input_data)
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print(out.getvalue().strip())
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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 logging
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import os
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import sys
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import tempfile
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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.data.meta_tensor import MetaTensor
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from monai.transforms import DataStatsd
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TEST_CASE_1 = [
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{
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"keys": "img",
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"prefix": "test data",
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"data_type": False,
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"data_shape": False,
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"value_range": False,
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"data_value": False,
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"additional_info": None,
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"name": "DataStats",
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},
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{"img": np.array([[0, 1], [1, 2]])},
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"test data statistics:",
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]
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TEST_CASE_2 = [
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{
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"keys": "img",
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"prefix": "test data",
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"data_type": True,
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"data_shape": False,
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"value_range": False,
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"data_value": False,
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"additional_info": None,
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"name": "DataStats",
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},
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{"img": np.array([[0, 1], [1, 2]])},
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"test data statistics:\nType: <class 'numpy.ndarray'>",
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]
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TEST_CASE_3 = [
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{
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"keys": "img",
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"prefix": "test data",
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"data_type": True,
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"data_shape": True,
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"value_range": False,
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"data_value": False,
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"additional_info": None,
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"name": "DataStats",
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},
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{"img": np.array([[0, 1], [1, 2]])},
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"test data statistics:\nType: <class 'numpy.ndarray'>\nShape: (2, 2)",
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]
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TEST_CASE_4 = [
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"keys": "img",
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"prefix": "test data",
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"data_shape": True,
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"value_range": True,
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"data_value": False,
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"additional_info": None,
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"name": "DataStats",
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},
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{"img": np.array([[0, 1], [1, 2]])},
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"test data statistics:\nType: <class 'numpy.ndarray'>\nShape: (2, 2)\nValue range: (0, 2)",
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]
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TEST_CASE_5 = [
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{
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"keys": "img",
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"prefix": "test data",
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"data_type": True,
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"data_shape": True,
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"value_range": True,
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"data_value": True,
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"additional_info": None,
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"name": "DataStats",
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},
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{"img": np.array([[0, 1], [1, 2]])},
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"test data statistics:\nType: <class 'numpy.ndarray'>\nShape: (2, 2)\nValue range: (0, 2)\nValue: [[0 1]\n [1 2]]",
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]
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TEST_CASE_6 = [
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{
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"keys": "img",
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"prefix": "test data",
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"data_type": True,
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"data_shape": True,
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"value_range": True,
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"data_value": True,
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"additional_info": np.mean,
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"name": "DataStats",
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},
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{"img": np.array([[0, 1], [1, 2]])},
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(
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"test data statistics:\nType: <class 'numpy.ndarray'>\nShape: (2, 2)\n"
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"Value range: (0, 2)\nValue: [[0 1]\n [1 2]]\nAdditional info: 1.0"
|
117
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+
),
|
118
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+
]
|
119
|
+
|
120
|
+
TEST_CASE_7 = [
|
121
|
+
{
|
122
|
+
"keys": "img",
|
123
|
+
"prefix": "test data",
|
124
|
+
"data_type": True,
|
125
|
+
"data_shape": True,
|
126
|
+
"value_range": True,
|
127
|
+
"data_value": True,
|
128
|
+
"additional_info": lambda x: torch.mean(x.float()),
|
129
|
+
"name": "DataStats",
|
130
|
+
},
|
131
|
+
{"img": torch.tensor([[0, 1], [1, 2]]).to("cuda" if torch.cuda.is_available() else "cpu")},
|
132
|
+
(
|
133
|
+
"test data statistics:\nType: <class 'torch.Tensor'>\nShape: torch.Size([2, 2])\nValue range: (0, 2)\n"
|
134
|
+
"Value: tensor([[0, 1],\n [1, 2]])\nAdditional info: 1.0"
|
135
|
+
),
|
136
|
+
]
|
137
|
+
|
138
|
+
TEST_CASE_8 = [
|
139
|
+
{
|
140
|
+
"keys": ("img", "affine"),
|
141
|
+
"prefix": ("image", "affine"),
|
142
|
+
"data_type": True,
|
143
|
+
"data_shape": True,
|
144
|
+
"value_range": (True, False),
|
145
|
+
"data_value": (False, True),
|
146
|
+
"additional_info": (np.mean, None),
|
147
|
+
"name": "DataStats",
|
148
|
+
},
|
149
|
+
{"img": np.array([[0, 1], [1, 2]]), "affine": np.eye(2, 2)},
|
150
|
+
"affine statistics:\nType: <class 'numpy.ndarray'>\nShape: (2, 2)\nValue: [[1. 0.]\n [0. 1.]]",
|
151
|
+
]
|
152
|
+
|
153
|
+
TEST_CASE_9 = [
|
154
|
+
{
|
155
|
+
"keys": "img",
|
156
|
+
"prefix": "test data",
|
157
|
+
"data_shape": True,
|
158
|
+
"value_range": True,
|
159
|
+
"data_value": True,
|
160
|
+
"meta_info": False,
|
161
|
+
"additional_info": np.mean,
|
162
|
+
"name": "DataStats",
|
163
|
+
},
|
164
|
+
{"img": np.array([[0, 1], [1, 2]])},
|
165
|
+
"test data statistics:\nType: <class 'numpy.ndarray'> int64\nShape: (2, 2)\nValue range: (0, 2)\n"
|
166
|
+
"Value: [[0 1]\n [1 2]]\nAdditional info: 1.0\n",
|
167
|
+
]
|
168
|
+
|
169
|
+
TEST_CASE_10 = [
|
170
|
+
{"img": np.array([[0, 1], [1, 2]])},
|
171
|
+
"test data statistics:\nType: <class 'numpy.ndarray'> int64\nShape: (2, 2)\nValue range: (0, 2)\n"
|
172
|
+
"Value: [[0 1]\n [1 2]]\n"
|
173
|
+
"Meta info: '(input is not a MetaTensor)'\n"
|
174
|
+
"Additional info: 1.0\n",
|
175
|
+
]
|
176
|
+
|
177
|
+
TEST_CASE_11 = [
|
178
|
+
{
|
179
|
+
"img": (
|
180
|
+
MetaTensor(
|
181
|
+
torch.tensor([[0, 1], [1, 2]]),
|
182
|
+
affine=torch.as_tensor([[2, 0, 0, 0], [0, 2, 0, 0], [0, 0, 2, 0], [0, 0, 0, 1]], dtype=torch.float64),
|
183
|
+
meta={"some": "info"},
|
184
|
+
)
|
185
|
+
)
|
186
|
+
},
|
187
|
+
"test data statistics:\nType: <class 'monai.data.meta_tensor.MetaTensor'> torch.int64\n"
|
188
|
+
"Shape: torch.Size([2, 2])\nValue range: (0, 2)\n"
|
189
|
+
"Value: tensor([[0, 1],\n [1, 2]])\n"
|
190
|
+
"Meta info: {'some': 'info', affine: tensor([[2., 0., 0., 0.],\n"
|
191
|
+
" [0., 2., 0., 0.],\n"
|
192
|
+
" [0., 0., 2., 0.],\n"
|
193
|
+
" [0., 0., 0., 1.]], dtype=torch.float64), space: RAS}\n"
|
194
|
+
"Additional info: 1.0\n",
|
195
|
+
]
|
196
|
+
|
197
|
+
|
198
|
+
class TestDataStatsd(unittest.TestCase):
|
199
|
+
|
200
|
+
@parameterized.expand(
|
201
|
+
[
|
202
|
+
TEST_CASE_1,
|
203
|
+
TEST_CASE_2,
|
204
|
+
TEST_CASE_3,
|
205
|
+
TEST_CASE_4,
|
206
|
+
TEST_CASE_5,
|
207
|
+
TEST_CASE_6,
|
208
|
+
TEST_CASE_7,
|
209
|
+
TEST_CASE_8,
|
210
|
+
TEST_CASE_9,
|
211
|
+
]
|
212
|
+
)
|
213
|
+
def test_value(self, input_param, input_data, expected_print):
|
214
|
+
transform = DataStatsd(**input_param)
|
215
|
+
_ = transform(input_data)
|
216
|
+
|
217
|
+
@parameterized.expand([TEST_CASE_10, TEST_CASE_11])
|
218
|
+
def test_file(self, input_data, expected_print):
|
219
|
+
with tempfile.TemporaryDirectory() as tempdir:
|
220
|
+
filename = os.path.join(tempdir, "test_stats.log")
|
221
|
+
handler = logging.FileHandler(filename, mode="w")
|
222
|
+
handler.setLevel(logging.INFO)
|
223
|
+
name = "DataStats"
|
224
|
+
logger = logging.getLogger(name)
|
225
|
+
logger.addHandler(handler)
|
226
|
+
input_param = {
|
227
|
+
"keys": "img",
|
228
|
+
"prefix": "test data",
|
229
|
+
"data_shape": True,
|
230
|
+
"value_range": True,
|
231
|
+
"data_value": True,
|
232
|
+
"meta_info": True,
|
233
|
+
"additional_info": np.mean,
|
234
|
+
"name": name,
|
235
|
+
}
|
236
|
+
transform = DataStatsd(**input_param)
|
237
|
+
_ = transform(input_data)
|
238
|
+
for h in logger.handlers[:]:
|
239
|
+
h.close()
|
240
|
+
logger.removeHandler(h)
|
241
|
+
del handler
|
242
|
+
with open(filename) as f:
|
243
|
+
content = f.read()
|
244
|
+
if sys.platform != "win32":
|
245
|
+
self.assertEqual(content, expected_print)
|
246
|
+
|
247
|
+
|
248
|
+
if __name__ == "__main__":
|
249
|
+
unittest.main()
|
@@ -0,0 +1,58 @@
|
|
1
|
+
# Copyright (c) MONAI Consortium
|
2
|
+
# Licensed under the Apache License, Version 2.0 (the "License");
|
3
|
+
# you may not use this file except in compliance with the License.
|
4
|
+
# You may obtain a copy of the License at
|
5
|
+
# http://www.apache.org/licenses/LICENSE-2.0
|
6
|
+
# Unless required by applicable law or agreed to in writing, software
|
7
|
+
# distributed under the License is distributed on an "AS IS" BASIS,
|
8
|
+
# WITHOUT WARRANTIES OR CONDITIONS OF ANY KIND, either express or implied.
|
9
|
+
# See the License for the specific language governing permissions and
|
10
|
+
# limitations under the License.
|
11
|
+
|
12
|
+
from __future__ import annotations
|
13
|
+
|
14
|
+
import sys
|
15
|
+
import time
|
16
|
+
import unittest
|
17
|
+
|
18
|
+
from parameterized import parameterized
|
19
|
+
|
20
|
+
from monai.transforms import DeleteItemsd
|
21
|
+
from monai.utils.enums import PostFix
|
22
|
+
|
23
|
+
TEST_CASE_1 = [{"keys": [str(i) for i in range(30)]}, 20]
|
24
|
+
|
25
|
+
TEST_CASE_2 = [{"keys": ["image/" + str(i) for i in range(30)], "sep": "/"}, 20]
|
26
|
+
|
27
|
+
TEST_CASE_3 = [{"keys": "meta_dict%0008\\|[0-9]", "sep": "%", "use_re": True}]
|
28
|
+
|
29
|
+
|
30
|
+
class TestDeleteItemsd(unittest.TestCase):
|
31
|
+
|
32
|
+
@parameterized.expand([TEST_CASE_1, TEST_CASE_2])
|
33
|
+
def test_memory(self, input_param, expected_key_size):
|
34
|
+
input_data = {"image": {}} if "sep" in input_param else {}
|
35
|
+
for i in range(50):
|
36
|
+
if "sep" in input_param:
|
37
|
+
input_data["image"][str(i)] = [time.time()] * 100000
|
38
|
+
else:
|
39
|
+
input_data[str(i)] = [time.time()] * 100000
|
40
|
+
result = DeleteItemsd(**input_param)(input_data)
|
41
|
+
if "sep" in input_param:
|
42
|
+
self.assertEqual(len(result["image"].keys()), expected_key_size)
|
43
|
+
else:
|
44
|
+
self.assertEqual(len(result.keys()), expected_key_size)
|
45
|
+
self.assertGreaterEqual(
|
46
|
+
sys.getsizeof(input_data) * float(expected_key_size) / len(input_data), sys.getsizeof(result)
|
47
|
+
)
|
48
|
+
|
49
|
+
@parameterized.expand([TEST_CASE_3])
|
50
|
+
def test_re(self, input_param):
|
51
|
+
input_data = {"image": [1, 2, 3], PostFix.meta(): {"0008|0005": 1, "0008|1050": 2, "0008test": 3}}
|
52
|
+
result = DeleteItemsd(**input_param)(input_data)
|
53
|
+
self.assertEqual(result[PostFix.meta()]["0008test"], 3)
|
54
|
+
self.assertEqual(len(result[PostFix.meta()]), 1)
|
55
|
+
|
56
|
+
|
57
|
+
if __name__ == "__main__":
|
58
|
+
unittest.main()
|
@@ -0,0 +1,159 @@
|
|
1
|
+
# Copyright (c) MONAI Consortium
|
2
|
+
# Licensed under the Apache License, Version 2.0 (the "License");
|
3
|
+
# you may not use this file except in compliance with the License.
|
4
|
+
# You may obtain a copy of the License at
|
5
|
+
# http://www.apache.org/licenses/LICENSE-2.0
|
6
|
+
# Unless required by applicable law or agreed to in writing, software
|
7
|
+
# distributed under the License is distributed on an "AS IS" BASIS,
|
8
|
+
# WITHOUT WARRANTIES OR CONDITIONS OF ANY KIND, either express or implied.
|
9
|
+
# See the License for the specific language governing permissions and
|
10
|
+
# limitations under the License.
|
11
|
+
|
12
|
+
from __future__ import annotations
|
13
|
+
|
14
|
+
import unittest
|
15
|
+
|
16
|
+
import numpy as np
|
17
|
+
import torch
|
18
|
+
from parameterized import parameterized
|
19
|
+
|
20
|
+
from monai.transforms import DetectEnvelope
|
21
|
+
from monai.utils import OptionalImportError
|
22
|
+
from tests.test_utils import TEST_NDARRAYS, SkipIfModule, SkipIfNoModule, assert_allclose
|
23
|
+
|
24
|
+
n_samples = 500
|
25
|
+
hann_windowed_sine = np.sin(2 * np.pi * 10 * np.linspace(0, 1, n_samples)) * np.hanning(n_samples)
|
26
|
+
|
27
|
+
# SINGLE-CHANNEL VALUE TESTS
|
28
|
+
# using np.expand_dims() to add length 1 channel dimension at dimension 0
|
29
|
+
|
30
|
+
TEST_CASE_1D_SINE = [
|
31
|
+
{}, # args (empty, so use default)
|
32
|
+
np.expand_dims(hann_windowed_sine, 0), # Input data: Hann windowed sine wave
|
33
|
+
np.expand_dims(np.hanning(n_samples), 0), # Expected output: the Hann window
|
34
|
+
1e-4, # absolute tolerance
|
35
|
+
]
|
36
|
+
|
37
|
+
TEST_CASE_2D_SINE = [
|
38
|
+
{}, # args (empty, so use default (i.e. process along first spatial dimension, axis=1)
|
39
|
+
# Create 10 identical windowed sine waves as a 2D numpy array
|
40
|
+
np.expand_dims(np.stack([hann_windowed_sine] * 10, axis=1), 0),
|
41
|
+
# Expected output: Set of 10 identical Hann windows
|
42
|
+
np.expand_dims(np.stack([np.hanning(n_samples)] * 10, axis=1), 0),
|
43
|
+
1e-4, # absolute tolerance
|
44
|
+
]
|
45
|
+
|
46
|
+
TEST_CASE_3D_SINE = [
|
47
|
+
{}, # args (empty, so use default (i.e. process along first spatial dimension, axis=1)
|
48
|
+
# Create 100 identical windowed sine waves as a (n_samples x 10 x 10) 3D numpy array
|
49
|
+
np.expand_dims(np.stack([np.stack([hann_windowed_sine] * 10, axis=1)] * 10, axis=2), 0),
|
50
|
+
# Expected output: Set of 100 identical Hann windows in (n_samples x 10 x 10) 3D numpy array
|
51
|
+
np.expand_dims(np.stack([np.stack([np.hanning(n_samples)] * 10, axis=1)] * 10, axis=2), 0),
|
52
|
+
1e-4, # absolute tolerance
|
53
|
+
]
|
54
|
+
|
55
|
+
TEST_CASE_2D_SINE_AXIS_1 = [
|
56
|
+
{"axis": 2}, # set axis argument to 1
|
57
|
+
# Create 10 identical windowed sine waves as a 2D numpy array
|
58
|
+
np.expand_dims(np.stack([hann_windowed_sine] * 10, axis=1), 0),
|
59
|
+
# Expected output: absolute value of each sample of the waveform, repeated (i.e. flat envelopes)
|
60
|
+
np.expand_dims(np.abs(np.repeat(hann_windowed_sine, 10).reshape((n_samples, 10))), 0),
|
61
|
+
1e-4, # absolute tolerance
|
62
|
+
]
|
63
|
+
|
64
|
+
TEST_CASE_1D_SINE_PADDING_N = [
|
65
|
+
{"n": 512}, # args (empty, so use default)
|
66
|
+
np.expand_dims(hann_windowed_sine, 0), # Input data: Hann windowed sine wave
|
67
|
+
np.expand_dims(np.concatenate([np.hanning(500), np.zeros(12)]), 0), # Expected output: the Hann window
|
68
|
+
1e-3, # absolute tolerance
|
69
|
+
]
|
70
|
+
|
71
|
+
# MULTI-CHANNEL VALUE TEST
|
72
|
+
|
73
|
+
TEST_CASE_2_CHAN_3D_SINE = [
|
74
|
+
{}, # args (empty, so use default (i.e. process along first spatial dimension, axis=1)
|
75
|
+
# Create 100 identical windowed sine waves as a (n_samples x 10 x 10) 3D numpy array, twice (2 channels)
|
76
|
+
torch.as_tensor(np.stack([np.stack([np.stack([hann_windowed_sine] * 10, axis=1)] * 10, axis=2)] * 2, axis=0)),
|
77
|
+
# Expected output: Set of 100 identical Hann windows in (n_samples x 10 x 10) 3D numpy array, twice (2 channels)
|
78
|
+
torch.as_tensor(np.stack([np.stack([np.stack([np.hanning(n_samples)] * 10, axis=1)] * 10, axis=2)] * 2, axis=0)),
|
79
|
+
1e-4, # absolute tolerance
|
80
|
+
]
|
81
|
+
|
82
|
+
# EXCEPTION TESTS
|
83
|
+
|
84
|
+
TEST_CASE_INVALID_AXIS_1 = [
|
85
|
+
{"axis": 3}, # set axis argument to 3 when only 3 dimensions (1 channel + 2 spatial)
|
86
|
+
np.expand_dims(np.stack([hann_windowed_sine] * 10, axis=1), 0), # Create 2D dataset
|
87
|
+
"__call__", # method expected to raise exception
|
88
|
+
]
|
89
|
+
|
90
|
+
TEST_CASE_INVALID_AXIS_2 = [
|
91
|
+
{"axis": -1}, # set axis argument negative
|
92
|
+
np.expand_dims(np.stack([hann_windowed_sine] * 10, axis=1), 0), # Create 2D dataset
|
93
|
+
"__init__", # method expected to raise exception
|
94
|
+
]
|
95
|
+
|
96
|
+
TEST_CASE_INVALID_N = [
|
97
|
+
{"n": 0}, # set FFT length to zero
|
98
|
+
np.expand_dims(np.stack([hann_windowed_sine] * 10, axis=1), 0), # Create 2D dataset
|
99
|
+
"__call__", # method expected to raise exception
|
100
|
+
]
|
101
|
+
|
102
|
+
TEST_CASE_INVALID_DTYPE = [
|
103
|
+
{},
|
104
|
+
np.expand_dims(np.array(hann_windowed_sine, dtype=complex), 0), # complex numbers are invalid
|
105
|
+
"__call__", # method expected to raise exception
|
106
|
+
]
|
107
|
+
|
108
|
+
TEST_CASE_INVALID_IMG_LEN = [
|
109
|
+
{},
|
110
|
+
np.expand_dims(np.array([]), 0), # empty array is invalid
|
111
|
+
"__call__", # method expected to raise exception
|
112
|
+
]
|
113
|
+
|
114
|
+
TEST_CASE_INVALID_OBJ = [{}, "a string", "__call__"] # method expected to raise exception
|
115
|
+
|
116
|
+
|
117
|
+
@SkipIfNoModule("torch.fft")
|
118
|
+
class TestDetectEnvelope(unittest.TestCase):
|
119
|
+
@parameterized.expand(
|
120
|
+
[
|
121
|
+
TEST_CASE_1D_SINE,
|
122
|
+
TEST_CASE_2D_SINE,
|
123
|
+
TEST_CASE_3D_SINE,
|
124
|
+
TEST_CASE_2D_SINE_AXIS_1,
|
125
|
+
TEST_CASE_1D_SINE_PADDING_N,
|
126
|
+
TEST_CASE_2_CHAN_3D_SINE,
|
127
|
+
]
|
128
|
+
)
|
129
|
+
def test_value(self, arguments, image, expected_data, atol):
|
130
|
+
for p in TEST_NDARRAYS:
|
131
|
+
result = DetectEnvelope(**arguments)(p(image))
|
132
|
+
assert_allclose(result, p(expected_data), atol=atol, type_test="tensor")
|
133
|
+
|
134
|
+
@parameterized.expand(
|
135
|
+
[
|
136
|
+
TEST_CASE_INVALID_AXIS_1,
|
137
|
+
TEST_CASE_INVALID_AXIS_2,
|
138
|
+
TEST_CASE_INVALID_N,
|
139
|
+
TEST_CASE_INVALID_DTYPE,
|
140
|
+
TEST_CASE_INVALID_IMG_LEN,
|
141
|
+
]
|
142
|
+
)
|
143
|
+
def test_value_error(self, arguments, image, method):
|
144
|
+
if method == "__init__":
|
145
|
+
self.assertRaises(ValueError, DetectEnvelope, **arguments)
|
146
|
+
elif method == "__call__":
|
147
|
+
self.assertRaises(ValueError, DetectEnvelope(**arguments), image)
|
148
|
+
else:
|
149
|
+
self.fail("Expected raising method invalid. Should be __init__ or __call__.")
|
150
|
+
|
151
|
+
|
152
|
+
@SkipIfModule("torch.fft")
|
153
|
+
class TestHilbertTransformNoFFTMod(unittest.TestCase):
|
154
|
+
def test_no_fft_module_error(self):
|
155
|
+
self.assertRaises(OptionalImportError, DetectEnvelope(), np.random.rand(1, 10))
|
156
|
+
|
157
|
+
|
158
|
+
if __name__ == "__main__":
|
159
|
+
unittest.main()
|