monai-weekly 1.5.dev2505__py3-none-any.whl → 1.5.dev2507__py3-none-any.whl

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Files changed (779) hide show
  1. monai/__init__.py +1 -1
  2. monai/_version.py +3 -3
  3. monai/apps/auto3dseg/transforms.py +1 -4
  4. monai/data/meta_tensor.py +5 -0
  5. monai/data/utils.py +6 -13
  6. monai/inferers/utils.py +1 -2
  7. monai/losses/dice.py +2 -14
  8. monai/losses/ds_loss.py +1 -3
  9. monai/networks/layers/simplelayers.py +2 -14
  10. monai/networks/utils.py +4 -16
  11. monai/transforms/compose.py +28 -11
  12. monai/transforms/croppad/array.py +1 -6
  13. monai/transforms/io/array.py +0 -1
  14. monai/transforms/transform.py +15 -6
  15. monai/transforms/utils.py +1 -2
  16. monai/utils/jupyter_utils.py +1 -1
  17. monai/utils/tf32.py +0 -10
  18. monai/visualize/class_activation_maps.py +5 -8
  19. monai/visualize/img2tensorboard.py +2 -2
  20. {monai_weekly-1.5.dev2505.dist-info → monai_weekly-1.5.dev2507.dist-info}/METADATA +2 -2
  21. monai_weekly-1.5.dev2507.dist-info/RECORD +1181 -0
  22. {monai_weekly-1.5.dev2505.dist-info → monai_weekly-1.5.dev2507.dist-info}/top_level.txt +1 -0
  23. tests/apps/__init__.py +10 -0
  24. tests/apps/deepedit/__init__.py +10 -0
  25. tests/apps/deepedit/test_deepedit_transforms.py +314 -0
  26. tests/apps/deepgrow/__init__.py +10 -0
  27. tests/apps/deepgrow/test_deepgrow_dataset.py +109 -0
  28. tests/apps/deepgrow/transforms/__init__.py +10 -0
  29. tests/apps/deepgrow/transforms/test_deepgrow_interaction.py +97 -0
  30. tests/apps/deepgrow/transforms/test_deepgrow_transforms.py +556 -0
  31. tests/apps/detection/__init__.py +10 -0
  32. tests/apps/detection/metrics/__init__.py +10 -0
  33. tests/apps/detection/metrics/test_detection_coco_metrics.py +69 -0
  34. tests/apps/detection/networks/__init__.py +10 -0
  35. tests/apps/detection/networks/test_retinanet.py +210 -0
  36. tests/apps/detection/networks/test_retinanet_detector.py +203 -0
  37. tests/apps/detection/test_box_transform.py +370 -0
  38. tests/apps/detection/utils/__init__.py +10 -0
  39. tests/apps/detection/utils/test_anchor_box.py +88 -0
  40. tests/apps/detection/utils/test_atss_box_matcher.py +46 -0
  41. tests/apps/detection/utils/test_box_coder.py +43 -0
  42. tests/apps/detection/utils/test_detector_boxselector.py +67 -0
  43. tests/apps/detection/utils/test_detector_utils.py +96 -0
  44. tests/apps/detection/utils/test_hardnegsampler.py +54 -0
  45. tests/apps/nuclick/__init__.py +10 -0
  46. tests/apps/nuclick/test_nuclick_transforms.py +259 -0
  47. tests/apps/pathology/__init__.py +10 -0
  48. tests/apps/pathology/handlers/__init__.py +10 -0
  49. tests/apps/pathology/handlers/test_from_engine_hovernet.py +38 -0
  50. tests/apps/pathology/test_lesion_froc.py +333 -0
  51. tests/apps/pathology/test_pathology_prob_nms.py +55 -0
  52. tests/apps/pathology/test_prepare_batch_hovernet.py +70 -0
  53. tests/apps/pathology/test_sliding_window_hovernet_inference.py +303 -0
  54. tests/apps/pathology/transforms/__init__.py +10 -0
  55. tests/apps/pathology/transforms/post/__init__.py +10 -0
  56. tests/apps/pathology/transforms/post/test_generate_distance_map.py +51 -0
  57. tests/apps/pathology/transforms/post/test_generate_distance_mapd.py +70 -0
  58. tests/apps/pathology/transforms/post/test_generate_instance_border.py +49 -0
  59. tests/apps/pathology/transforms/post/test_generate_instance_borderd.py +59 -0
  60. tests/apps/pathology/transforms/post/test_generate_instance_centroid.py +53 -0
  61. tests/apps/pathology/transforms/post/test_generate_instance_centroidd.py +56 -0
  62. tests/apps/pathology/transforms/post/test_generate_instance_contour.py +58 -0
  63. tests/apps/pathology/transforms/post/test_generate_instance_contourd.py +61 -0
  64. tests/apps/pathology/transforms/post/test_generate_instance_type.py +51 -0
  65. tests/apps/pathology/transforms/post/test_generate_instance_typed.py +53 -0
  66. tests/apps/pathology/transforms/post/test_generate_succinct_contour.py +55 -0
  67. tests/apps/pathology/transforms/post/test_generate_succinct_contourd.py +57 -0
  68. tests/apps/pathology/transforms/post/test_generate_watershed_markers.py +53 -0
  69. tests/apps/pathology/transforms/post/test_generate_watershed_markersd.py +83 -0
  70. tests/apps/pathology/transforms/post/test_generate_watershed_mask.py +77 -0
  71. tests/apps/pathology/transforms/post/test_generate_watershed_maskd.py +77 -0
  72. tests/apps/pathology/transforms/post/test_hovernet_instance_map_post_processing.py +61 -0
  73. tests/apps/pathology/transforms/post/test_hovernet_instance_map_post_processingd.py +66 -0
  74. tests/apps/pathology/transforms/post/test_hovernet_nuclear_type_post_processing.py +66 -0
  75. tests/apps/pathology/transforms/post/test_watershed.py +60 -0
  76. tests/apps/pathology/transforms/post/test_watershedd.py +70 -0
  77. tests/apps/pathology/transforms/test_pathology_he_stain.py +230 -0
  78. tests/apps/pathology/transforms/test_pathology_he_stain_dict.py +225 -0
  79. tests/apps/reconstruction/__init__.py +10 -0
  80. tests/apps/reconstruction/nets/__init__.py +10 -0
  81. tests/apps/reconstruction/nets/test_recon_net_utils.py +82 -0
  82. tests/apps/reconstruction/test_complex_utils.py +77 -0
  83. tests/apps/reconstruction/test_fastmri_reader.py +82 -0
  84. tests/apps/reconstruction/test_mri_utils.py +37 -0
  85. tests/apps/reconstruction/transforms/__init__.py +10 -0
  86. tests/apps/reconstruction/transforms/test_kspace_mask.py +50 -0
  87. tests/apps/reconstruction/transforms/test_reference_based_normalize_intensity.py +77 -0
  88. tests/apps/reconstruction/transforms/test_reference_based_spatial_cropd.py +57 -0
  89. tests/apps/test_auto3dseg_bundlegen.py +156 -0
  90. tests/apps/test_check_hash.py +53 -0
  91. tests/apps/test_cross_validation.py +74 -0
  92. tests/apps/test_decathlondataset.py +93 -0
  93. tests/apps/test_download_and_extract.py +70 -0
  94. tests/apps/test_download_url_yandex.py +45 -0
  95. tests/apps/test_mednistdataset.py +72 -0
  96. tests/apps/test_mmar_download.py +154 -0
  97. tests/apps/test_tciadataset.py +123 -0
  98. tests/apps/vista3d/__init__.py +10 -0
  99. tests/apps/vista3d/test_point_based_window_inferer.py +77 -0
  100. tests/apps/vista3d/test_vista3d_sampler.py +100 -0
  101. tests/apps/vista3d/test_vista3d_transforms.py +94 -0
  102. tests/bundle/__init__.py +10 -0
  103. tests/bundle/test_bundle_ckpt_export.py +107 -0
  104. tests/bundle/test_bundle_download.py +435 -0
  105. tests/bundle/test_bundle_get_data.py +94 -0
  106. tests/bundle/test_bundle_push_to_hf_hub.py +41 -0
  107. tests/bundle/test_bundle_trt_export.py +147 -0
  108. tests/bundle/test_bundle_utils.py +149 -0
  109. tests/bundle/test_bundle_verify_metadata.py +66 -0
  110. tests/bundle/test_bundle_verify_net.py +76 -0
  111. tests/bundle/test_bundle_workflow.py +272 -0
  112. tests/bundle/test_component_locator.py +38 -0
  113. tests/bundle/test_config_item.py +138 -0
  114. tests/bundle/test_config_parser.py +392 -0
  115. tests/bundle/test_reference_resolver.py +114 -0
  116. tests/config/__init__.py +10 -0
  117. tests/config/test_cv2_dist.py +53 -0
  118. tests/engines/__init__.py +10 -0
  119. tests/engines/test_ensemble_evaluator.py +94 -0
  120. tests/engines/test_prepare_batch_default.py +76 -0
  121. tests/engines/test_prepare_batch_default_dist.py +76 -0
  122. tests/engines/test_prepare_batch_diffusion.py +104 -0
  123. tests/engines/test_prepare_batch_extra_input.py +80 -0
  124. tests/fl/__init__.py +10 -0
  125. tests/fl/monai_algo/__init__.py +10 -0
  126. tests/fl/monai_algo/test_fl_monai_algo.py +251 -0
  127. tests/fl/monai_algo/test_fl_monai_algo_dist.py +117 -0
  128. tests/fl/test_fl_monai_algo_stats.py +81 -0
  129. tests/fl/utils/__init__.py +10 -0
  130. tests/fl/utils/test_fl_exchange_object.py +63 -0
  131. tests/handlers/__init__.py +10 -0
  132. tests/handlers/test_handler_checkpoint_loader.py +182 -0
  133. tests/handlers/test_handler_checkpoint_saver.py +233 -0
  134. tests/handlers/test_handler_classification_saver.py +64 -0
  135. tests/handlers/test_handler_classification_saver_dist.py +77 -0
  136. tests/handlers/test_handler_clearml_image.py +65 -0
  137. tests/handlers/test_handler_clearml_stats.py +65 -0
  138. tests/handlers/test_handler_confusion_matrix.py +104 -0
  139. tests/handlers/test_handler_confusion_matrix_dist.py +70 -0
  140. tests/handlers/test_handler_decollate_batch.py +66 -0
  141. tests/handlers/test_handler_early_stop.py +68 -0
  142. tests/handlers/test_handler_garbage_collector.py +73 -0
  143. tests/handlers/test_handler_hausdorff_distance.py +111 -0
  144. tests/handlers/test_handler_ignite_metric.py +191 -0
  145. tests/handlers/test_handler_lr_scheduler.py +94 -0
  146. tests/handlers/test_handler_mean_dice.py +98 -0
  147. tests/handlers/test_handler_mean_iou.py +76 -0
  148. tests/handlers/test_handler_metrics_reloaded.py +149 -0
  149. tests/handlers/test_handler_metrics_saver.py +89 -0
  150. tests/handlers/test_handler_metrics_saver_dist.py +120 -0
  151. tests/handlers/test_handler_mlflow.py +296 -0
  152. tests/handlers/test_handler_nvtx.py +93 -0
  153. tests/handlers/test_handler_panoptic_quality.py +89 -0
  154. tests/handlers/test_handler_parameter_scheduler.py +136 -0
  155. tests/handlers/test_handler_post_processing.py +74 -0
  156. tests/handlers/test_handler_prob_map_producer.py +111 -0
  157. tests/handlers/test_handler_regression_metrics.py +160 -0
  158. tests/handlers/test_handler_regression_metrics_dist.py +245 -0
  159. tests/handlers/test_handler_rocauc.py +48 -0
  160. tests/handlers/test_handler_rocauc_dist.py +54 -0
  161. tests/handlers/test_handler_stats.py +281 -0
  162. tests/handlers/test_handler_surface_distance.py +113 -0
  163. tests/handlers/test_handler_tb_image.py +61 -0
  164. tests/handlers/test_handler_tb_stats.py +166 -0
  165. tests/handlers/test_handler_validation.py +59 -0
  166. tests/handlers/test_trt_compile.py +145 -0
  167. tests/handlers/test_write_metrics_reports.py +68 -0
  168. tests/inferers/__init__.py +10 -0
  169. tests/inferers/test_avg_merger.py +179 -0
  170. tests/inferers/test_controlnet_inferers.py +1310 -0
  171. tests/inferers/test_diffusion_inferer.py +236 -0
  172. tests/inferers/test_latent_diffusion_inferer.py +824 -0
  173. tests/inferers/test_patch_inferer.py +309 -0
  174. tests/inferers/test_saliency_inferer.py +55 -0
  175. tests/inferers/test_slice_inferer.py +57 -0
  176. tests/inferers/test_sliding_window_inference.py +377 -0
  177. tests/inferers/test_sliding_window_splitter.py +284 -0
  178. tests/inferers/test_wsi_sliding_window_splitter.py +249 -0
  179. tests/inferers/test_zarr_avg_merger.py +326 -0
  180. tests/integration/__init__.py +10 -0
  181. tests/integration/test_auto3dseg_ensemble.py +211 -0
  182. tests/integration/test_auto3dseg_hpo.py +189 -0
  183. tests/integration/test_deepedit_interaction.py +122 -0
  184. tests/integration/test_downsample_block.py +50 -0
  185. tests/integration/test_hovernet_nuclear_type_post_processingd.py +71 -0
  186. tests/integration/test_integration_autorunner.py +201 -0
  187. tests/integration/test_integration_bundle_run.py +240 -0
  188. tests/integration/test_integration_classification_2d.py +282 -0
  189. tests/integration/test_integration_determinism.py +95 -0
  190. tests/integration/test_integration_fast_train.py +231 -0
  191. tests/integration/test_integration_gpu_customization.py +159 -0
  192. tests/integration/test_integration_lazy_samples.py +219 -0
  193. tests/integration/test_integration_nnunetv2_runner.py +96 -0
  194. tests/integration/test_integration_segmentation_3d.py +304 -0
  195. tests/integration/test_integration_sliding_window.py +100 -0
  196. tests/integration/test_integration_stn.py +133 -0
  197. tests/integration/test_integration_unet_2d.py +67 -0
  198. tests/integration/test_integration_workers.py +61 -0
  199. tests/integration/test_integration_workflows.py +365 -0
  200. tests/integration/test_integration_workflows_adversarial.py +173 -0
  201. tests/integration/test_integration_workflows_gan.py +158 -0
  202. tests/integration/test_loader_semaphore.py +48 -0
  203. tests/integration/test_mapping_filed.py +122 -0
  204. tests/integration/test_meta_affine.py +183 -0
  205. tests/integration/test_metatensor_integration.py +114 -0
  206. tests/integration/test_module_list.py +76 -0
  207. tests/integration/test_one_of.py +283 -0
  208. tests/integration/test_pad_collation.py +124 -0
  209. tests/integration/test_reg_loss_integration.py +107 -0
  210. tests/integration/test_retinanet_predict_utils.py +154 -0
  211. tests/integration/test_seg_loss_integration.py +159 -0
  212. tests/integration/test_spatial_combine_transforms.py +185 -0
  213. tests/integration/test_testtimeaugmentation.py +186 -0
  214. tests/integration/test_vis_gradbased.py +69 -0
  215. tests/integration/test_vista3d_utils.py +159 -0
  216. tests/losses/__init__.py +10 -0
  217. tests/losses/deform/__init__.py +10 -0
  218. tests/losses/deform/test_bending_energy.py +88 -0
  219. tests/losses/deform/test_diffusion_loss.py +117 -0
  220. tests/losses/image_dissimilarity/__init__.py +10 -0
  221. tests/losses/image_dissimilarity/test_global_mutual_information_loss.py +150 -0
  222. tests/losses/image_dissimilarity/test_local_normalized_cross_correlation_loss.py +162 -0
  223. tests/losses/test_adversarial_loss.py +94 -0
  224. tests/losses/test_barlow_twins_loss.py +109 -0
  225. tests/losses/test_cldice_loss.py +51 -0
  226. tests/losses/test_contrastive_loss.py +86 -0
  227. tests/losses/test_dice_ce_loss.py +123 -0
  228. tests/losses/test_dice_focal_loss.py +124 -0
  229. tests/losses/test_dice_loss.py +227 -0
  230. tests/losses/test_ds_loss.py +189 -0
  231. tests/losses/test_focal_loss.py +379 -0
  232. tests/losses/test_generalized_dice_focal_loss.py +85 -0
  233. tests/losses/test_generalized_dice_loss.py +221 -0
  234. tests/losses/test_generalized_wasserstein_dice_loss.py +234 -0
  235. tests/losses/test_giou_loss.py +62 -0
  236. tests/losses/test_hausdorff_loss.py +264 -0
  237. tests/losses/test_masked_dice_loss.py +152 -0
  238. tests/losses/test_masked_loss.py +87 -0
  239. tests/losses/test_multi_scale.py +86 -0
  240. tests/losses/test_nacl_loss.py +167 -0
  241. tests/losses/test_perceptual_loss.py +122 -0
  242. tests/losses/test_spectral_loss.py +86 -0
  243. tests/losses/test_ssim_loss.py +59 -0
  244. tests/losses/test_sure_loss.py +72 -0
  245. tests/losses/test_tversky_loss.py +198 -0
  246. tests/losses/test_unified_focal_loss.py +66 -0
  247. tests/metrics/__init__.py +10 -0
  248. tests/metrics/test_compute_confusion_matrix.py +294 -0
  249. tests/metrics/test_compute_f_beta.py +80 -0
  250. tests/metrics/test_compute_fid_metric.py +40 -0
  251. tests/metrics/test_compute_froc.py +143 -0
  252. tests/metrics/test_compute_generalized_dice.py +240 -0
  253. tests/metrics/test_compute_meandice.py +306 -0
  254. tests/metrics/test_compute_meaniou.py +223 -0
  255. tests/metrics/test_compute_mmd_metric.py +56 -0
  256. tests/metrics/test_compute_multiscalessim_metric.py +83 -0
  257. tests/metrics/test_compute_panoptic_quality.py +113 -0
  258. tests/metrics/test_compute_regression_metrics.py +196 -0
  259. tests/metrics/test_compute_roc_auc.py +155 -0
  260. tests/metrics/test_compute_variance.py +147 -0
  261. tests/metrics/test_cumulative.py +63 -0
  262. tests/metrics/test_cumulative_average.py +74 -0
  263. tests/metrics/test_cumulative_average_dist.py +48 -0
  264. tests/metrics/test_hausdorff_distance.py +209 -0
  265. tests/metrics/test_label_quality_score.py +134 -0
  266. tests/metrics/test_loss_metric.py +57 -0
  267. tests/metrics/test_metrics_reloaded.py +96 -0
  268. tests/metrics/test_ssim_metric.py +78 -0
  269. tests/metrics/test_surface_dice.py +416 -0
  270. tests/metrics/test_surface_distance.py +186 -0
  271. tests/networks/__init__.py +10 -0
  272. tests/networks/blocks/__init__.py +10 -0
  273. tests/networks/blocks/dints_block/__init__.py +10 -0
  274. tests/networks/blocks/dints_block/test_acn_block.py +41 -0
  275. tests/networks/blocks/dints_block/test_factorized_increase.py +37 -0
  276. tests/networks/blocks/dints_block/test_factorized_reduce.py +37 -0
  277. tests/networks/blocks/dints_block/test_p3d_block.py +78 -0
  278. tests/networks/blocks/test_adn.py +86 -0
  279. tests/networks/blocks/test_convolutions.py +156 -0
  280. tests/networks/blocks/test_crf_cpu.py +513 -0
  281. tests/networks/blocks/test_crf_cuda.py +528 -0
  282. tests/networks/blocks/test_crossattention.py +185 -0
  283. tests/networks/blocks/test_denseblock.py +105 -0
  284. tests/networks/blocks/test_dynunet_block.py +116 -0
  285. tests/networks/blocks/test_fpn_block.py +88 -0
  286. tests/networks/blocks/test_localnet_block.py +121 -0
  287. tests/networks/blocks/test_mlp.py +78 -0
  288. tests/networks/blocks/test_patchembedding.py +212 -0
  289. tests/networks/blocks/test_regunet_block.py +103 -0
  290. tests/networks/blocks/test_se_block.py +85 -0
  291. tests/networks/blocks/test_se_blocks.py +78 -0
  292. tests/networks/blocks/test_segresnet_block.py +57 -0
  293. tests/networks/blocks/test_selfattention.py +232 -0
  294. tests/networks/blocks/test_simple_aspp.py +87 -0
  295. tests/networks/blocks/test_spatialattention.py +55 -0
  296. tests/networks/blocks/test_subpixel_upsample.py +87 -0
  297. tests/networks/blocks/test_text_encoding.py +49 -0
  298. tests/networks/blocks/test_transformerblock.py +90 -0
  299. tests/networks/blocks/test_unetr_block.py +158 -0
  300. tests/networks/blocks/test_upsample_block.py +134 -0
  301. tests/networks/blocks/warp/__init__.py +10 -0
  302. tests/networks/blocks/warp/test_dvf2ddf.py +72 -0
  303. tests/networks/blocks/warp/test_warp.py +250 -0
  304. tests/networks/layers/__init__.py +10 -0
  305. tests/networks/layers/filtering/__init__.py +10 -0
  306. tests/networks/layers/filtering/test_bilateral_approx_cpu.py +399 -0
  307. tests/networks/layers/filtering/test_bilateral_approx_cuda.py +404 -0
  308. tests/networks/layers/filtering/test_bilateral_precise.py +437 -0
  309. tests/networks/layers/filtering/test_phl_cpu.py +259 -0
  310. tests/networks/layers/filtering/test_phl_cuda.py +167 -0
  311. tests/networks/layers/filtering/test_trainable_bilateral.py +474 -0
  312. tests/networks/layers/filtering/test_trainable_joint_bilateral.py +609 -0
  313. tests/networks/layers/test_affine_transform.py +385 -0
  314. tests/networks/layers/test_apply_filter.py +89 -0
  315. tests/networks/layers/test_channel_pad.py +51 -0
  316. tests/networks/layers/test_conjugate_gradient.py +56 -0
  317. tests/networks/layers/test_drop_path.py +46 -0
  318. tests/networks/layers/test_gaussian.py +317 -0
  319. tests/networks/layers/test_gaussian_filter.py +206 -0
  320. tests/networks/layers/test_get_layers.py +65 -0
  321. tests/networks/layers/test_gmm.py +314 -0
  322. tests/networks/layers/test_grid_pull.py +93 -0
  323. tests/networks/layers/test_hilbert_transform.py +131 -0
  324. tests/networks/layers/test_lltm.py +62 -0
  325. tests/networks/layers/test_median_filter.py +52 -0
  326. tests/networks/layers/test_polyval.py +55 -0
  327. tests/networks/layers/test_preset_filters.py +136 -0
  328. tests/networks/layers/test_savitzky_golay_filter.py +141 -0
  329. tests/networks/layers/test_separable_filter.py +87 -0
  330. tests/networks/layers/test_skip_connection.py +48 -0
  331. tests/networks/layers/test_vector_quantizer.py +89 -0
  332. tests/networks/layers/test_weight_init.py +50 -0
  333. tests/networks/nets/__init__.py +10 -0
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  680. tests/transforms/test_spatial_resample.py +235 -0
  681. tests/transforms/test_squeezedim.py +62 -0
  682. tests/transforms/test_squeezedimd.py +98 -0
  683. tests/transforms/test_std_shift_intensity.py +76 -0
  684. tests/transforms/test_std_shift_intensityd.py +74 -0
  685. tests/transforms/test_threshold_intensity.py +38 -0
  686. tests/transforms/test_threshold_intensityd.py +58 -0
  687. tests/transforms/test_to_contiguous.py +47 -0
  688. tests/transforms/test_to_cupy.py +112 -0
  689. tests/transforms/test_to_cupyd.py +76 -0
  690. tests/transforms/test_to_device.py +42 -0
  691. tests/transforms/test_to_deviced.py +37 -0
  692. tests/transforms/test_to_numpy.py +85 -0
  693. tests/transforms/test_to_numpyd.py +68 -0
  694. tests/transforms/test_to_pil.py +52 -0
  695. tests/transforms/test_to_pild.py +50 -0
  696. tests/transforms/test_to_tensor.py +60 -0
  697. tests/transforms/test_to_tensord.py +71 -0
  698. tests/transforms/test_torchvision.py +66 -0
  699. tests/transforms/test_torchvisiond.py +63 -0
  700. tests/transforms/test_transform.py +62 -0
  701. tests/transforms/test_transpose.py +41 -0
  702. tests/transforms/test_transposed.py +52 -0
  703. tests/transforms/test_ultrasound_confidence_map_transform.py +711 -0
  704. tests/transforms/test_utils_pytorch_numpy_unification.py +90 -0
  705. tests/transforms/test_vote_ensemble.py +84 -0
  706. tests/transforms/test_vote_ensembled.py +107 -0
  707. tests/transforms/test_with_allow_missing_keys.py +76 -0
  708. tests/transforms/test_zoom.py +120 -0
  709. tests/transforms/test_zoomd.py +94 -0
  710. tests/transforms/transform/__init__.py +10 -0
  711. tests/transforms/transform/test_randomizable.py +52 -0
  712. tests/transforms/transform/test_randomizable_transform_type.py +37 -0
  713. tests/transforms/utility/__init__.py +10 -0
  714. tests/transforms/utility/test_apply_transform_to_points.py +81 -0
  715. tests/transforms/utility/test_apply_transform_to_pointsd.py +185 -0
  716. tests/transforms/utility/test_identity.py +29 -0
  717. tests/transforms/utility/test_identityd.py +30 -0
  718. tests/transforms/utility/test_lambda.py +71 -0
  719. tests/transforms/utility/test_lambdad.py +83 -0
  720. tests/transforms/utility/test_rand_lambda.py +87 -0
  721. tests/transforms/utility/test_rand_lambdad.py +77 -0
  722. tests/transforms/utility/test_simulatedelay.py +36 -0
  723. tests/transforms/utility/test_simulatedelayd.py +36 -0
  724. tests/transforms/utility/test_splitdim.py +52 -0
  725. tests/transforms/utility/test_splitdimd.py +96 -0
  726. tests/transforms/utils/__init__.py +10 -0
  727. tests/transforms/utils/test_correct_crop_centers.py +36 -0
  728. tests/transforms/utils/test_get_unique_labels.py +45 -0
  729. tests/transforms/utils/test_print_transform_backends.py +29 -0
  730. tests/transforms/utils/test_soft_clip.py +125 -0
  731. tests/utils/__init__.py +10 -0
  732. tests/utils/enums/__init__.py +10 -0
  733. tests/utils/enums/test_hovernet_loss.py +190 -0
  734. tests/utils/enums/test_ordering.py +289 -0
  735. tests/utils/enums/test_wsireader.py +663 -0
  736. tests/utils/misc/__init__.py +10 -0
  737. tests/utils/misc/test_ensure_tuple.py +53 -0
  738. tests/utils/misc/test_monai_env_vars.py +44 -0
  739. tests/utils/misc/test_monai_utils_misc.py +103 -0
  740. tests/utils/misc/test_str2bool.py +34 -0
  741. tests/utils/misc/test_str2list.py +33 -0
  742. tests/utils/test_alias.py +44 -0
  743. tests/utils/test_component_store.py +73 -0
  744. tests/utils/test_deprecated.py +455 -0
  745. tests/utils/test_enum_bound_interp.py +75 -0
  746. tests/utils/test_evenly_divisible_all_gather_dist.py +50 -0
  747. tests/utils/test_get_package_version.py +34 -0
  748. tests/utils/test_handler_logfile.py +84 -0
  749. tests/utils/test_handler_metric_logger.py +62 -0
  750. tests/utils/test_list_to_dict.py +43 -0
  751. tests/utils/test_look_up_option.py +87 -0
  752. tests/utils/test_optional_import.py +80 -0
  753. tests/utils/test_pad_mode.py +39 -0
  754. tests/utils/test_profiling.py +208 -0
  755. tests/utils/test_rankfilter_dist.py +77 -0
  756. tests/utils/test_require_pkg.py +83 -0
  757. tests/utils/test_sample_slices.py +43 -0
  758. tests/utils/test_set_determinism.py +74 -0
  759. tests/utils/test_squeeze_unsqueeze.py +71 -0
  760. tests/utils/test_state_cacher.py +67 -0
  761. tests/utils/test_torchscript_utils.py +113 -0
  762. tests/utils/test_version.py +91 -0
  763. tests/utils/test_version_after.py +65 -0
  764. tests/utils/type_conversion/__init__.py +10 -0
  765. tests/utils/type_conversion/test_convert_data_type.py +152 -0
  766. tests/utils/type_conversion/test_get_equivalent_dtype.py +65 -0
  767. tests/utils/type_conversion/test_safe_dtype_range.py +99 -0
  768. tests/visualize/__init__.py +10 -0
  769. tests/visualize/test_img2tensorboard.py +46 -0
  770. tests/visualize/test_occlusion_sensitivity.py +128 -0
  771. tests/visualize/test_plot_2d_or_3d_image.py +74 -0
  772. tests/visualize/test_vis_cam.py +98 -0
  773. tests/visualize/test_vis_gradcam.py +211 -0
  774. tests/visualize/utils/__init__.py +10 -0
  775. tests/visualize/utils/test_blend_images.py +63 -0
  776. tests/visualize/utils/test_matshow3d.py +133 -0
  777. monai_weekly-1.5.dev2505.dist-info/RECORD +0 -427
  778. {monai_weekly-1.5.dev2505.dist-info → monai_weekly-1.5.dev2507.dist-info}/LICENSE +0 -0
  779. {monai_weekly-1.5.dev2505.dist-info → monai_weekly-1.5.dev2507.dist-info}/WHEEL +0 -0
@@ -0,0 +1,234 @@
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
+ import torch.nn as nn
19
+ import torch.nn.functional as F
20
+ import torch.optim as optim
21
+
22
+ from monai.losses import GeneralizedWassersteinDiceLoss
23
+ from tests.test_utils import test_script_save
24
+
25
+
26
+ class TestGeneralizedWassersteinDiceLoss(unittest.TestCase):
27
+ def test_bin_seg_2d(self):
28
+ target = torch.tensor([[0, 0, 0, 0], [0, 1, 1, 0], [0, 1, 1, 0], [0, 0, 0, 0]])
29
+
30
+ # add another dimension corresponding to the batch (batch size = 1 here)
31
+ target = target.unsqueeze(0)
32
+ pred_very_good = 1000 * F.one_hot(target, num_classes=2).permute(0, 3, 1, 2).float()
33
+ pred_very_poor = 1000 * F.one_hot(1 - target, num_classes=2).permute(0, 3, 1, 2).float()
34
+
35
+ for weight_mode in ["default", "GDL"]:
36
+ # initialize the loss
37
+ loss = GeneralizedWassersteinDiceLoss(
38
+ dist_matrix=np.array([[0.0, 1.0], [1.0, 0.0]]), weighting_mode=weight_mode
39
+ )
40
+
41
+ # the loss for pred_very_good should be close to 0
42
+ loss_good = float(loss.forward(pred_very_good, target))
43
+ self.assertAlmostEqual(loss_good, 0.0, places=3)
44
+
45
+ # same test, but with target with a class dimension
46
+ target_4dim = target.unsqueeze(1)
47
+ loss_good = float(loss.forward(pred_very_good, target_4dim))
48
+ self.assertAlmostEqual(loss_good, 0.0, places=3)
49
+
50
+ # the loss for pred_very_poor should be close to 1
51
+ loss_poor = float(loss.forward(pred_very_poor, target))
52
+ self.assertAlmostEqual(loss_poor, 1.0, places=3)
53
+
54
+ def test_different_target_data_type(self):
55
+ """
56
+ Test if the loss is compatible with all the integer types
57
+ for the target segmentation.
58
+ """
59
+ # define 2d examples
60
+ target = torch.tensor([[0, 0, 0, 0], [0, 1, 1, 0], [0, 1, 1, 0], [0, 0, 0, 0]])
61
+
62
+ # add another dimension corresponding to the batch (batch size = 1 here)
63
+ target = target.unsqueeze(0) # shape (1, H, W)
64
+ pred_very_good = 1000 * F.one_hot(target, num_classes=2).permute(0, 3, 1, 2).float()
65
+
66
+ target_uint8 = target.to(torch.uint8)
67
+ target_int8 = target.to(torch.int8)
68
+ target_short = target.short()
69
+ target_int = target.int()
70
+ target_long = target.long()
71
+ target_list = [target_uint8, target_int8, target_short, target_int, target_long]
72
+
73
+ for w_mode in ["default", "GDL"]:
74
+ # initialize the loss
75
+ loss = GeneralizedWassersteinDiceLoss(dist_matrix=np.array([[0.0, 1.0], [1.0, 0.0]]), weighting_mode=w_mode)
76
+
77
+ # The test should pass irrespectively of the integer type used
78
+ for t in target_list:
79
+ # the loss for pred_very_good should be close to 0
80
+ loss_good = float(loss.forward(pred_very_good, t))
81
+ self.assertAlmostEqual(loss_good, 0.0, places=3)
82
+
83
+ def test_empty_class_2d(self):
84
+ num_classes = 2
85
+ target = torch.tensor([[0, 0, 0, 0], [0, 0, 0, 0], [0, 0, 0, 0], [0, 0, 0, 0]])
86
+
87
+ # add another dimension corresponding to the batch (batch size = 1 here)
88
+ target = target.unsqueeze(0)
89
+ pred_very_good = 1000 * F.one_hot(target, num_classes=num_classes).permute(0, 3, 1, 2).float()
90
+ pred_very_poor = 1000 * F.one_hot(1 - target, num_classes=num_classes).permute(0, 3, 1, 2).float()
91
+
92
+ for w_mode in ["default", "GDL"]:
93
+ # initialize the loss
94
+ loss = GeneralizedWassersteinDiceLoss(dist_matrix=np.array([[0.0, 1.0], [1.0, 0.0]]), weighting_mode=w_mode)
95
+
96
+ # loss for pred_very_good should be close to 0
97
+ loss_good = float(loss.forward(pred_very_good, target))
98
+ self.assertAlmostEqual(loss_good, 0.0, places=3)
99
+
100
+ # loss for pred_very_poor should be close to 1
101
+ loss_poor = float(loss.forward(pred_very_poor, target))
102
+ self.assertAlmostEqual(loss_poor, 1.0, places=3)
103
+
104
+ def test_bin_seg_3d(self):
105
+ # define 3d examples
106
+ target = torch.tensor(
107
+ [
108
+ # raw 0
109
+ [[0, 0, 0, 0], [0, 1, 1, 0], [0, 1, 1, 0], [0, 0, 0, 0]],
110
+ # raw 1
111
+ [[0, 0, 0, 0], [0, 1, 1, 0], [0, 1, 1, 0], [0, 0, 0, 0]],
112
+ # raw 2
113
+ [[0, 0, 0, 0], [0, 1, 1, 0], [0, 1, 1, 0], [0, 0, 0, 0]],
114
+ ]
115
+ )
116
+
117
+ # add another dimension corresponding to the batch (batch size = 1 here)
118
+ target = target.unsqueeze(0) # shape (1, H, W, D)
119
+ pred_very_good = 1000 * F.one_hot(target, num_classes=2).permute(0, 4, 1, 2, 3).float()
120
+ pred_very_poor = 1000 * F.one_hot(1 - target, num_classes=2).permute(0, 4, 1, 2, 3).float()
121
+
122
+ for w_mode in ["default", "GDL"]:
123
+ # initialize the loss
124
+ loss = GeneralizedWassersteinDiceLoss(dist_matrix=np.array([[0.0, 1.0], [1.0, 0.0]]), weighting_mode=w_mode)
125
+
126
+ # mean dice loss for pred_very_good should be close to 0
127
+ loss_good = float(loss.forward(pred_very_good, target))
128
+ self.assertAlmostEqual(loss_good, 0.0, places=3)
129
+
130
+ # mean dice loss for pred_very_poor should be close to 1
131
+ loss_poor = float(loss.forward(pred_very_poor, target))
132
+ self.assertAlmostEqual(loss_poor, 1.0, places=3)
133
+
134
+ def test_convergence(self):
135
+ """
136
+ The goal of this test is to assess if the gradient of the loss function
137
+ is correct by testing if we can train a one layer neural network
138
+ to segment one image.
139
+ We verify that the loss is decreasing in almost all SGD steps.
140
+ """
141
+ learning_rate = 0.001
142
+ max_iter = 50
143
+
144
+ # define a simple 3d example
145
+ target_seg = torch.tensor(
146
+ [
147
+ # raw 0
148
+ [[0, 0, 0, 0], [0, 1, 1, 0], [0, 1, 1, 0], [0, 0, 0, 0]],
149
+ # raw 1
150
+ [[0, 0, 0, 0], [0, 1, 1, 0], [0, 1, 1, 0], [0, 0, 0, 0]],
151
+ # raw 2
152
+ [[0, 0, 0, 0], [0, 1, 1, 0], [0, 1, 1, 0], [0, 0, 0, 0]],
153
+ ]
154
+ )
155
+ target_seg = torch.unsqueeze(target_seg, dim=0)
156
+ image = 12 * target_seg + 27 # dummy image to segment
157
+ image = image.float()
158
+ num_classes = 2
159
+ num_voxels = 3 * 4 * 4
160
+
161
+ # define a model with one layer
162
+ class OnelayerNet(nn.Module):
163
+ def __init__(self):
164
+ super().__init__()
165
+ self.layer = nn.Linear(num_voxels, num_voxels * num_classes)
166
+
167
+ def forward(self, x):
168
+ x = x.view(-1, num_voxels)
169
+ x = self.layer(x)
170
+ x = x.view(-1, num_classes, 3, 4, 4)
171
+ return x
172
+
173
+ for w_mode in ["default", "GDL"]:
174
+ # initialise the network
175
+ net = OnelayerNet()
176
+
177
+ # initialize the loss
178
+ loss = GeneralizedWassersteinDiceLoss(dist_matrix=np.array([[0.0, 1.0], [1.0, 0.0]]), weighting_mode=w_mode)
179
+
180
+ # initialize an optimizer
181
+ optimizer = optim.Adam(net.parameters(), lr=learning_rate)
182
+
183
+ # initial difference between pred and target
184
+ pred_start = torch.argmax(net(image), dim=1)
185
+ diff_start = torch.norm(pred_start.float() - target_seg.float())
186
+
187
+ loss_history = []
188
+ # train the network
189
+ for _ in range(max_iter):
190
+ # set the gradient to zero
191
+ optimizer.zero_grad()
192
+
193
+ # forward pass
194
+ output = net(image)
195
+ loss_val = loss(output, target_seg)
196
+
197
+ # backward pass
198
+ loss_val.backward()
199
+ optimizer.step()
200
+
201
+ # stats
202
+ loss_history.append(loss_val.item())
203
+
204
+ # difference between pred and target after training
205
+ pred_end = torch.argmax(net(image), dim=1)
206
+ diff_end = torch.norm(pred_end.float() - target_seg.float())
207
+
208
+ # count the number of SGD steps in which the loss decreases
209
+ num_decreasing_steps = 0
210
+ for i in range(len(loss_history) - 1):
211
+ if loss_history[i] > loss_history[i + 1]:
212
+ num_decreasing_steps += 1
213
+ decreasing_steps_ratio = float(num_decreasing_steps) / (len(loss_history) - 1)
214
+
215
+ # verify that the loss is decreasing for sufficiently many SGD steps
216
+ self.assertTrue(decreasing_steps_ratio > 0.75)
217
+
218
+ # check that the predicted segmentation has improved
219
+ self.assertGreater(diff_start, diff_end)
220
+
221
+ def test_script(self):
222
+ target = torch.tensor([[0, 0, 0, 0], [0, 1, 1, 0], [0, 1, 1, 0], [0, 0, 0, 0]])
223
+
224
+ # add another dimension corresponding to the batch (batch size = 1 here)
225
+ target = target.unsqueeze(0)
226
+ pred_very_good = 1000 * F.one_hot(target, num_classes=2).permute(0, 3, 1, 2).float()
227
+
228
+ loss = GeneralizedWassersteinDiceLoss(dist_matrix=np.array([[0.0, 1.0], [1.0, 0.0]]), weighting_mode="default")
229
+
230
+ test_script_save(loss, pred_very_good, target)
231
+
232
+
233
+ if __name__ == "__main__":
234
+ unittest.main()
@@ -0,0 +1,62 @@
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.losses import BoxGIoULoss
21
+
22
+ TEST_CASES = [
23
+ [ # shape: (1, 4), (1, 4)
24
+ {"input": torch.tensor([[1.0, 1.0, 2.0, 2.0]]), "target": torch.tensor([[1.0, 1.0, 2.0, 2.0]])},
25
+ 0.0,
26
+ ],
27
+ [ # shape: (1, 6), (1, 6)
28
+ {
29
+ "input": torch.tensor([[1.0, 1.0, 1.0, 2.0, 2.0, 2.0]]),
30
+ "target": torch.tensor([[1.0, 1.0, 1.0, 2.0, 2.0, 2.0]]),
31
+ },
32
+ 0.0,
33
+ ],
34
+ ]
35
+
36
+
37
+ class TestGIoULoss(unittest.TestCase):
38
+
39
+ @parameterized.expand(TEST_CASES)
40
+ def test_result(self, input_data, expected_val):
41
+ loss = BoxGIoULoss()
42
+ result = loss(**input_data)
43
+ np.testing.assert_allclose(result.detach().cpu().numpy(), expected_val, atol=1e-4, rtol=1e-4)
44
+
45
+ def test_ill_shape(self):
46
+ loss = BoxGIoULoss()
47
+ with self.assertRaisesRegex(ValueError, ""):
48
+ loss(torch.ones((1, 2, 3)), torch.ones((1, 1, 2, 3)))
49
+
50
+ def test_with_cuda(self):
51
+ loss = BoxGIoULoss()
52
+ i = torch.tensor([[1.0, 1.0, 2.0, 2.0]])
53
+ j = torch.tensor([[1.0, 1.0, 2.0, 2.0]])
54
+ if torch.cuda.is_available():
55
+ i = i.cuda()
56
+ j = j.cuda()
57
+ output = loss(i, j)
58
+ np.testing.assert_allclose(output.detach().cpu().numpy(), 0.0, atol=1e-4, rtol=1e-4)
59
+
60
+
61
+ if __name__ == "__main__":
62
+ unittest.main()
@@ -0,0 +1,264 @@
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
+ from unittest.case import skipUnless
16
+
17
+ import numpy as np
18
+ import torch
19
+ from parameterized import parameterized
20
+
21
+ from monai.losses import HausdorffDTLoss, LogHausdorffDTLoss
22
+ from monai.utils import optional_import
23
+
24
+ _, has_scipy = optional_import("scipy")
25
+
26
+ TEST_CASES = []
27
+ for device in ["cpu", "cuda"] if torch.cuda.is_available() else ["cpu"]:
28
+ TEST_CASES.append(
29
+ [ # shape: (1, 1, 2, 2), (1, 1, 2, 2)
30
+ {"include_background": True, "sigmoid": True},
31
+ {
32
+ "input": torch.tensor([[[[1.0, -1.0], [-1.0, 1.0]]]], device=device),
33
+ "target": torch.tensor([[[[1.0, 0.0], [1.0, 1.0]]]], device=device),
34
+ },
35
+ 0.509329,
36
+ ]
37
+ )
38
+ TEST_CASES.append(
39
+ [ # shape: (1, 1, 1, 2, 2), (1, 1, 1, 2, 2)
40
+ {"include_background": True, "sigmoid": True},
41
+ {
42
+ "input": torch.tensor([[[[[1.0, -1.0], [-1.0, 1.0]]]]], device=device),
43
+ "target": torch.tensor([[[[[1.0, 0.0], [1.0, 1.0]]]]], device=device),
44
+ },
45
+ 0.509329,
46
+ ]
47
+ )
48
+ TEST_CASES.append(
49
+ [ # shape: (1, 1, 2, 2, 2), (1, 1, 2, 2, 2)
50
+ {"include_background": True, "sigmoid": True},
51
+ {
52
+ "input": torch.tensor([[[[[1.0, -1.0], [1.0, -1.0]], [[-1.0, 1.0], [-1.0, 1.0]]]]], device=device),
53
+ "target": torch.tensor([[[[[1.0, 0.0], [1.0, 0.0]], [[0.0, 0.0], [1.0, 1.0]]]]], device=device),
54
+ },
55
+ 0.375718,
56
+ ]
57
+ )
58
+ TEST_CASES.append(
59
+ [ # shape: (1, 2, 2, 2), (1, 2, 2, 2)
60
+ {"include_background": True, "sigmoid": True},
61
+ {
62
+ "input": torch.tensor([[[[1.0, -1.0], [-1.0, 1.0]], [[1.0, -1.0], [-1.0, 1.0]]]], device=device),
63
+ "target": torch.tensor([[[[1.0, 0.0], [1.0, 1.0]], [[1.0, 0.0], [0.0, 1.0]]]], device=device),
64
+ },
65
+ 0.326994,
66
+ ]
67
+ )
68
+ TEST_CASES.append(
69
+ [ # shape: (2, 1, 2, 2), (2, 1, 2, 2)
70
+ {"include_background": True, "sigmoid": True},
71
+ {
72
+ "input": torch.tensor([[[[1.0, -1.0], [-1.0, 1.0]]], [[[1.0, -1.0], [-1.0, 1.0]]]], device=device),
73
+ "target": torch.tensor([[[[1.0, 1.0], [1.0, 1.0]]], [[[1.0, 0.0], [1.0, 0.0]]]], device=device),
74
+ },
75
+ 0.455082,
76
+ ]
77
+ )
78
+ TEST_CASES.append(
79
+ [ # shape: (1, 1, 2, 2), (1, 1, 2, 2)
80
+ {"include_background": False, "sigmoid": True},
81
+ {
82
+ "input": torch.tensor([[[[1.0, -1.0], [-1.0, 1.0]], [[1.0, -1.0], [-1.0, 1.0]]]], device=device),
83
+ "target": torch.tensor([[[[1.0, 0.0], [1.0, 1.0]], [[1.0, 0.0], [0.0, 1.0]]]], device=device),
84
+ },
85
+ 0.144659,
86
+ ]
87
+ )
88
+ TEST_CASES.append(
89
+ [ # shape: (2, 2, 3, 1), (2, 1, 3, 1)
90
+ {"include_background": True, "to_onehot_y": True, "sigmoid": True, "reduction": "none"},
91
+ {
92
+ "input": torch.tensor(
93
+ [[[[-1.0], [0.0], [1.0]], [[1.0], [0.0], [-1.0]]], [[[0.0], [0.0], [0.0]], [[0.0], [0.0], [0.0]]]],
94
+ device=device,
95
+ ),
96
+ "target": torch.tensor([[[[1.0], [0.0], [0.0]]], [[[1.0], [1.0], [0.0]]]], device=device),
97
+ },
98
+ [[[[0.407765]], [[0.407765]]], [[[0.5000]], [[0.5000]]]],
99
+ ]
100
+ )
101
+ TEST_CASES.append(
102
+ [ # shape: (2, 2, 3, 1), (2, 1, 3, 1)
103
+ {"include_background": True, "to_onehot_y": True, "softmax": True},
104
+ {
105
+ "input": torch.tensor(
106
+ [[[[-1.0], [0.0], [1.0]], [[1.0], [0.0], [-1.0]]], [[[0.0], [0.0], [0.0]], [[0.0], [0.0], [0.0]]]],
107
+ device=device,
108
+ ),
109
+ "target": torch.tensor([[[[1.0], [0.0], [0.0]]], [[[1.0], [1.0], [0.0]]]], device=device),
110
+ },
111
+ 0.357016,
112
+ ]
113
+ )
114
+ TEST_CASES.append(
115
+ [ # shape: (2, 2, 3, 1), (2, 1, 3, 1)
116
+ {"include_background": True, "to_onehot_y": True, "softmax": True, "reduction": "sum"},
117
+ {
118
+ "input": torch.tensor(
119
+ [[[[-1.0], [0.0], [1.0]], [[1.0], [0.0], [-1.0]]], [[[0.0], [0.0], [0.0]], [[0.0], [0.0], [0.0]]]],
120
+ device=device,
121
+ ),
122
+ "target": torch.tensor([[[[1.0], [0.0], [0.0]]], [[[1.0], [1.0], [0.0]]]], device=device),
123
+ },
124
+ 1.428062,
125
+ ]
126
+ )
127
+ TEST_CASES.append(
128
+ [ # shape: (1, 1, 2, 2), (1, 1, 2, 2)
129
+ {"include_background": True, "sigmoid": True},
130
+ {
131
+ "input": torch.tensor([[[[1.0, -1.0], [-1.0, 1.0]]]], device=device),
132
+ "target": torch.tensor([[[[1.0, 0.0], [1.0, 1.0]]]], device=device),
133
+ },
134
+ 0.509329,
135
+ ]
136
+ )
137
+ TEST_CASES.append(
138
+ [ # shape: (2, 1, 2, 2), (2, 1, 2, 2)
139
+ {"include_background": True, "other_act": torch.tanh},
140
+ {
141
+ "input": torch.tensor([[[[1.0, -1.0], [-1.0, 1.0]]], [[[1.0, -1.0], [-1.0, 1.0]]]], device=device),
142
+ "target": torch.tensor([[[[1.0, 1.0], [1.0, 1.0]]], [[[1.0, 0.0], [1.0, 0.0]]]], device=device),
143
+ },
144
+ 1.870039,
145
+ ]
146
+ )
147
+ TEST_CASES.append(
148
+ [ # shape: (2, 2, 3), (2, 1, 3)
149
+ {"include_background": True, "to_onehot_y": True, "other_act": lambda x: torch.log_softmax(x, dim=1)},
150
+ {
151
+ "input": torch.tensor(
152
+ [[[[-1.0], [0.0], [1.0]], [[1.0], [0.0], [-1.0]]], [[[0.0], [0.0], [0.0]], [[0.0], [0.0], [0.0]]]],
153
+ device=device,
154
+ ),
155
+ "target": torch.tensor([[[[1.0], [0.0], [0.0]]], [[[1.0], [1.0], [0.0]]]], device=device),
156
+ },
157
+ 4.366613,
158
+ ]
159
+ )
160
+ TEST_CASES.append(
161
+ [ # shape: (2, 1, 2, 2), (2, 1, 2, 2)
162
+ {"include_background": True, "other_act": torch.tanh, "batch": True},
163
+ {
164
+ "input": torch.tensor([[[[1.0, -0.0], [-1.0, 1.0]]], [[[1.0, -1.0], [-1.0, 1.0]]]], device=device),
165
+ "target": torch.tensor([[[[1.0, 1.0], [1.0, 1.0]]], [[[1.0, 0.0], [1.0, 0.0]]]], device=device),
166
+ },
167
+ 1.607137,
168
+ ]
169
+ )
170
+ TEST_CASES.append(
171
+ [ # shape: (2, 1, 2, 2), (2, 1, 2, 2)
172
+ {"include_background": True, "other_act": torch.tanh, "batch": True},
173
+ {
174
+ "input": torch.tensor([[[[1.0, -0.0], [-1.0, 1.0]]], [[[1.0, -1.0], [-1.0, 1.0]]]], device=device),
175
+ "target": torch.tensor([[[[1.0, 1.0], [1.0, 1.0]]], [[[1.0, 0.0], [1.0, 0.0]]]], device=device),
176
+ },
177
+ 1.607137,
178
+ ]
179
+ )
180
+ TEST_CASES.append(
181
+ [ # shape: (2, 1, 2, 2), (2, 1, 2, 2)
182
+ {"include_background": True, "other_act": torch.tanh, "batch": False},
183
+ {
184
+ "input": torch.tensor([[[[1.0, -0.0], [-1.0, 1.0]]], [[[1.0, -1.0], [-1.0, 1.0]]]], device=device),
185
+ "target": torch.tensor([[[[1.0, 1.0], [1.0, 1.0]]], [[[1.0, 0.0], [1.0, 0.0]]]], device=device),
186
+ },
187
+ 1.607137,
188
+ ]
189
+ )
190
+
191
+ TEST_CASES_LOG = [[*inputs, np.log(np.array(output) + 1)] for *inputs, output in TEST_CASES]
192
+
193
+
194
+ def _describe_test_case(test_func, test_number, params):
195
+ input_param, input_data, _ = params.args
196
+ return f"params:{input_param}, shape:{input_data['input'].shape}, device:{input_data['input'].device}"
197
+
198
+
199
+ @skipUnless(has_scipy, "Scipy required")
200
+ class TestHausdorffDTLoss(unittest.TestCase):
201
+
202
+ @parameterized.expand(TEST_CASES, doc_func=_describe_test_case)
203
+ def test_shape(self, input_param, input_data, expected_val):
204
+ result = HausdorffDTLoss(**input_param).forward(**input_data)
205
+ np.testing.assert_allclose(result.detach().cpu().numpy(), expected_val, rtol=1e-5)
206
+
207
+ def test_ill_shape(self):
208
+ loss = HausdorffDTLoss()
209
+ with self.assertRaisesRegex(AssertionError, ""):
210
+ loss.forward(torch.ones((1, 1, 2, 3)), torch.ones((1, 4, 5, 6)))
211
+
212
+ def test_ill_opts(self):
213
+ with self.assertRaisesRegex(ValueError, ""):
214
+ HausdorffDTLoss(sigmoid=True, softmax=True)
215
+ chn_input = torch.ones((1, 1, 3))
216
+ chn_target = torch.ones((1, 1, 3))
217
+ with self.assertRaisesRegex(ValueError, ""):
218
+ HausdorffDTLoss(reduction="unknown")(chn_input, chn_target)
219
+ with self.assertRaisesRegex(ValueError, ""):
220
+ HausdorffDTLoss(reduction=None)(chn_input, chn_target)
221
+
222
+ @parameterized.expand([(False, False, False), (False, True, False), (False, False, True)])
223
+ def test_input_warnings(self, include_background, softmax, to_onehot_y):
224
+ chn_input = torch.ones((1, 1, 1, 3))
225
+ chn_target = torch.ones((1, 1, 1, 3))
226
+ with self.assertWarns(Warning):
227
+ loss = HausdorffDTLoss(include_background=include_background, softmax=softmax, to_onehot_y=to_onehot_y)
228
+ loss.forward(chn_input, chn_target)
229
+
230
+
231
+ @skipUnless(has_scipy, "Scipy required")
232
+ class TesLogtHausdorffDTLoss(unittest.TestCase):
233
+
234
+ @parameterized.expand(TEST_CASES_LOG, doc_func=_describe_test_case)
235
+ def test_shape(self, input_param, input_data, expected_val):
236
+ result = LogHausdorffDTLoss(**input_param).forward(**input_data)
237
+ np.testing.assert_allclose(result.detach().cpu().numpy(), expected_val, rtol=1e-5)
238
+
239
+ def test_ill_shape(self):
240
+ loss = LogHausdorffDTLoss()
241
+ with self.assertRaisesRegex(AssertionError, ""):
242
+ loss.forward(torch.ones((1, 1, 2, 3)), torch.ones((1, 4, 5, 6)))
243
+
244
+ def test_ill_opts(self):
245
+ with self.assertRaisesRegex(ValueError, ""):
246
+ LogHausdorffDTLoss(sigmoid=True, softmax=True)
247
+ chn_input = torch.ones((1, 1, 3))
248
+ chn_target = torch.ones((1, 1, 3))
249
+ with self.assertRaisesRegex(ValueError, ""):
250
+ LogHausdorffDTLoss(reduction="unknown")(chn_input, chn_target)
251
+ with self.assertRaisesRegex(ValueError, ""):
252
+ LogHausdorffDTLoss(reduction=None)(chn_input, chn_target)
253
+
254
+ @parameterized.expand([(False, False, False), (False, True, False), (False, False, True)])
255
+ def test_input_warnings(self, include_background, softmax, to_onehot_y):
256
+ chn_input = torch.ones((1, 1, 1, 3))
257
+ chn_target = torch.ones((1, 1, 1, 3))
258
+ with self.assertWarns(Warning):
259
+ loss = LogHausdorffDTLoss(include_background=include_background, softmax=softmax, to_onehot_y=to_onehot_y)
260
+ loss.forward(chn_input, chn_target)
261
+
262
+
263
+ if __name__ == "__main__":
264
+ unittest.main()