monai-weekly 1.5.dev2506__py3-none-any.whl → 1.5.dev2507__py3-none-any.whl

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Files changed (776) 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/utils.py +6 -13
  5. monai/inferers/utils.py +1 -2
  6. monai/losses/dice.py +2 -14
  7. monai/losses/ds_loss.py +1 -3
  8. monai/networks/layers/simplelayers.py +2 -14
  9. monai/networks/utils.py +4 -16
  10. monai/transforms/compose.py +28 -11
  11. monai/transforms/croppad/array.py +1 -6
  12. monai/transforms/io/array.py +0 -1
  13. monai/transforms/transform.py +15 -6
  14. monai/transforms/utils.py +1 -2
  15. monai/utils/tf32.py +0 -10
  16. monai/visualize/class_activation_maps.py +5 -8
  17. {monai_weekly-1.5.dev2506.dist-info → monai_weekly-1.5.dev2507.dist-info}/METADATA +2 -2
  18. monai_weekly-1.5.dev2507.dist-info/RECORD +1181 -0
  19. {monai_weekly-1.5.dev2506.dist-info → monai_weekly-1.5.dev2507.dist-info}/top_level.txt +1 -0
  20. tests/apps/__init__.py +10 -0
  21. tests/apps/deepedit/__init__.py +10 -0
  22. tests/apps/deepedit/test_deepedit_transforms.py +314 -0
  23. tests/apps/deepgrow/__init__.py +10 -0
  24. tests/apps/deepgrow/test_deepgrow_dataset.py +109 -0
  25. tests/apps/deepgrow/transforms/__init__.py +10 -0
  26. tests/apps/deepgrow/transforms/test_deepgrow_interaction.py +97 -0
  27. tests/apps/deepgrow/transforms/test_deepgrow_transforms.py +556 -0
  28. tests/apps/detection/__init__.py +10 -0
  29. tests/apps/detection/metrics/__init__.py +10 -0
  30. tests/apps/detection/metrics/test_detection_coco_metrics.py +69 -0
  31. tests/apps/detection/networks/__init__.py +10 -0
  32. tests/apps/detection/networks/test_retinanet.py +210 -0
  33. tests/apps/detection/networks/test_retinanet_detector.py +203 -0
  34. tests/apps/detection/test_box_transform.py +370 -0
  35. tests/apps/detection/utils/__init__.py +10 -0
  36. tests/apps/detection/utils/test_anchor_box.py +88 -0
  37. tests/apps/detection/utils/test_atss_box_matcher.py +46 -0
  38. tests/apps/detection/utils/test_box_coder.py +43 -0
  39. tests/apps/detection/utils/test_detector_boxselector.py +67 -0
  40. tests/apps/detection/utils/test_detector_utils.py +96 -0
  41. tests/apps/detection/utils/test_hardnegsampler.py +54 -0
  42. tests/apps/nuclick/__init__.py +10 -0
  43. tests/apps/nuclick/test_nuclick_transforms.py +259 -0
  44. tests/apps/pathology/__init__.py +10 -0
  45. tests/apps/pathology/handlers/__init__.py +10 -0
  46. tests/apps/pathology/handlers/test_from_engine_hovernet.py +38 -0
  47. tests/apps/pathology/test_lesion_froc.py +333 -0
  48. tests/apps/pathology/test_pathology_prob_nms.py +55 -0
  49. tests/apps/pathology/test_prepare_batch_hovernet.py +70 -0
  50. tests/apps/pathology/test_sliding_window_hovernet_inference.py +303 -0
  51. tests/apps/pathology/transforms/__init__.py +10 -0
  52. tests/apps/pathology/transforms/post/__init__.py +10 -0
  53. tests/apps/pathology/transforms/post/test_generate_distance_map.py +51 -0
  54. tests/apps/pathology/transforms/post/test_generate_distance_mapd.py +70 -0
  55. tests/apps/pathology/transforms/post/test_generate_instance_border.py +49 -0
  56. tests/apps/pathology/transforms/post/test_generate_instance_borderd.py +59 -0
  57. tests/apps/pathology/transforms/post/test_generate_instance_centroid.py +53 -0
  58. tests/apps/pathology/transforms/post/test_generate_instance_centroidd.py +56 -0
  59. tests/apps/pathology/transforms/post/test_generate_instance_contour.py +58 -0
  60. tests/apps/pathology/transforms/post/test_generate_instance_contourd.py +61 -0
  61. tests/apps/pathology/transforms/post/test_generate_instance_type.py +51 -0
  62. tests/apps/pathology/transforms/post/test_generate_instance_typed.py +53 -0
  63. tests/apps/pathology/transforms/post/test_generate_succinct_contour.py +55 -0
  64. tests/apps/pathology/transforms/post/test_generate_succinct_contourd.py +57 -0
  65. tests/apps/pathology/transforms/post/test_generate_watershed_markers.py +53 -0
  66. tests/apps/pathology/transforms/post/test_generate_watershed_markersd.py +83 -0
  67. tests/apps/pathology/transforms/post/test_generate_watershed_mask.py +77 -0
  68. tests/apps/pathology/transforms/post/test_generate_watershed_maskd.py +77 -0
  69. tests/apps/pathology/transforms/post/test_hovernet_instance_map_post_processing.py +61 -0
  70. tests/apps/pathology/transforms/post/test_hovernet_instance_map_post_processingd.py +66 -0
  71. tests/apps/pathology/transforms/post/test_hovernet_nuclear_type_post_processing.py +66 -0
  72. tests/apps/pathology/transforms/post/test_watershed.py +60 -0
  73. tests/apps/pathology/transforms/post/test_watershedd.py +70 -0
  74. tests/apps/pathology/transforms/test_pathology_he_stain.py +230 -0
  75. tests/apps/pathology/transforms/test_pathology_he_stain_dict.py +225 -0
  76. tests/apps/reconstruction/__init__.py +10 -0
  77. tests/apps/reconstruction/nets/__init__.py +10 -0
  78. tests/apps/reconstruction/nets/test_recon_net_utils.py +82 -0
  79. tests/apps/reconstruction/test_complex_utils.py +77 -0
  80. tests/apps/reconstruction/test_fastmri_reader.py +82 -0
  81. tests/apps/reconstruction/test_mri_utils.py +37 -0
  82. tests/apps/reconstruction/transforms/__init__.py +10 -0
  83. tests/apps/reconstruction/transforms/test_kspace_mask.py +50 -0
  84. tests/apps/reconstruction/transforms/test_reference_based_normalize_intensity.py +77 -0
  85. tests/apps/reconstruction/transforms/test_reference_based_spatial_cropd.py +57 -0
  86. tests/apps/test_auto3dseg_bundlegen.py +156 -0
  87. tests/apps/test_check_hash.py +53 -0
  88. tests/apps/test_cross_validation.py +74 -0
  89. tests/apps/test_decathlondataset.py +93 -0
  90. tests/apps/test_download_and_extract.py +70 -0
  91. tests/apps/test_download_url_yandex.py +45 -0
  92. tests/apps/test_mednistdataset.py +72 -0
  93. tests/apps/test_mmar_download.py +154 -0
  94. tests/apps/test_tciadataset.py +123 -0
  95. tests/apps/vista3d/__init__.py +10 -0
  96. tests/apps/vista3d/test_point_based_window_inferer.py +77 -0
  97. tests/apps/vista3d/test_vista3d_sampler.py +100 -0
  98. tests/apps/vista3d/test_vista3d_transforms.py +94 -0
  99. tests/bundle/__init__.py +10 -0
  100. tests/bundle/test_bundle_ckpt_export.py +107 -0
  101. tests/bundle/test_bundle_download.py +435 -0
  102. tests/bundle/test_bundle_get_data.py +94 -0
  103. tests/bundle/test_bundle_push_to_hf_hub.py +41 -0
  104. tests/bundle/test_bundle_trt_export.py +147 -0
  105. tests/bundle/test_bundle_utils.py +149 -0
  106. tests/bundle/test_bundle_verify_metadata.py +66 -0
  107. tests/bundle/test_bundle_verify_net.py +76 -0
  108. tests/bundle/test_bundle_workflow.py +272 -0
  109. tests/bundle/test_component_locator.py +38 -0
  110. tests/bundle/test_config_item.py +138 -0
  111. tests/bundle/test_config_parser.py +392 -0
  112. tests/bundle/test_reference_resolver.py +114 -0
  113. tests/config/__init__.py +10 -0
  114. tests/config/test_cv2_dist.py +53 -0
  115. tests/engines/__init__.py +10 -0
  116. tests/engines/test_ensemble_evaluator.py +94 -0
  117. tests/engines/test_prepare_batch_default.py +76 -0
  118. tests/engines/test_prepare_batch_default_dist.py +76 -0
  119. tests/engines/test_prepare_batch_diffusion.py +104 -0
  120. tests/engines/test_prepare_batch_extra_input.py +80 -0
  121. tests/fl/__init__.py +10 -0
  122. tests/fl/monai_algo/__init__.py +10 -0
  123. tests/fl/monai_algo/test_fl_monai_algo.py +251 -0
  124. tests/fl/monai_algo/test_fl_monai_algo_dist.py +117 -0
  125. tests/fl/test_fl_monai_algo_stats.py +81 -0
  126. tests/fl/utils/__init__.py +10 -0
  127. tests/fl/utils/test_fl_exchange_object.py +63 -0
  128. tests/handlers/__init__.py +10 -0
  129. tests/handlers/test_handler_checkpoint_loader.py +182 -0
  130. tests/handlers/test_handler_checkpoint_saver.py +233 -0
  131. tests/handlers/test_handler_classification_saver.py +64 -0
  132. tests/handlers/test_handler_classification_saver_dist.py +77 -0
  133. tests/handlers/test_handler_clearml_image.py +65 -0
  134. tests/handlers/test_handler_clearml_stats.py +65 -0
  135. tests/handlers/test_handler_confusion_matrix.py +104 -0
  136. tests/handlers/test_handler_confusion_matrix_dist.py +70 -0
  137. tests/handlers/test_handler_decollate_batch.py +66 -0
  138. tests/handlers/test_handler_early_stop.py +68 -0
  139. tests/handlers/test_handler_garbage_collector.py +73 -0
  140. tests/handlers/test_handler_hausdorff_distance.py +111 -0
  141. tests/handlers/test_handler_ignite_metric.py +191 -0
  142. tests/handlers/test_handler_lr_scheduler.py +94 -0
  143. tests/handlers/test_handler_mean_dice.py +98 -0
  144. tests/handlers/test_handler_mean_iou.py +76 -0
  145. tests/handlers/test_handler_metrics_reloaded.py +149 -0
  146. tests/handlers/test_handler_metrics_saver.py +89 -0
  147. tests/handlers/test_handler_metrics_saver_dist.py +120 -0
  148. tests/handlers/test_handler_mlflow.py +296 -0
  149. tests/handlers/test_handler_nvtx.py +93 -0
  150. tests/handlers/test_handler_panoptic_quality.py +89 -0
  151. tests/handlers/test_handler_parameter_scheduler.py +136 -0
  152. tests/handlers/test_handler_post_processing.py +74 -0
  153. tests/handlers/test_handler_prob_map_producer.py +111 -0
  154. tests/handlers/test_handler_regression_metrics.py +160 -0
  155. tests/handlers/test_handler_regression_metrics_dist.py +245 -0
  156. tests/handlers/test_handler_rocauc.py +48 -0
  157. tests/handlers/test_handler_rocauc_dist.py +54 -0
  158. tests/handlers/test_handler_stats.py +281 -0
  159. tests/handlers/test_handler_surface_distance.py +113 -0
  160. tests/handlers/test_handler_tb_image.py +61 -0
  161. tests/handlers/test_handler_tb_stats.py +166 -0
  162. tests/handlers/test_handler_validation.py +59 -0
  163. tests/handlers/test_trt_compile.py +145 -0
  164. tests/handlers/test_write_metrics_reports.py +68 -0
  165. tests/inferers/__init__.py +10 -0
  166. tests/inferers/test_avg_merger.py +179 -0
  167. tests/inferers/test_controlnet_inferers.py +1310 -0
  168. tests/inferers/test_diffusion_inferer.py +236 -0
  169. tests/inferers/test_latent_diffusion_inferer.py +824 -0
  170. tests/inferers/test_patch_inferer.py +309 -0
  171. tests/inferers/test_saliency_inferer.py +55 -0
  172. tests/inferers/test_slice_inferer.py +57 -0
  173. tests/inferers/test_sliding_window_inference.py +377 -0
  174. tests/inferers/test_sliding_window_splitter.py +284 -0
  175. tests/inferers/test_wsi_sliding_window_splitter.py +249 -0
  176. tests/inferers/test_zarr_avg_merger.py +326 -0
  177. tests/integration/__init__.py +10 -0
  178. tests/integration/test_auto3dseg_ensemble.py +211 -0
  179. tests/integration/test_auto3dseg_hpo.py +189 -0
  180. tests/integration/test_deepedit_interaction.py +122 -0
  181. tests/integration/test_downsample_block.py +50 -0
  182. tests/integration/test_hovernet_nuclear_type_post_processingd.py +71 -0
  183. tests/integration/test_integration_autorunner.py +201 -0
  184. tests/integration/test_integration_bundle_run.py +240 -0
  185. tests/integration/test_integration_classification_2d.py +282 -0
  186. tests/integration/test_integration_determinism.py +95 -0
  187. tests/integration/test_integration_fast_train.py +231 -0
  188. tests/integration/test_integration_gpu_customization.py +159 -0
  189. tests/integration/test_integration_lazy_samples.py +219 -0
  190. tests/integration/test_integration_nnunetv2_runner.py +96 -0
  191. tests/integration/test_integration_segmentation_3d.py +304 -0
  192. tests/integration/test_integration_sliding_window.py +100 -0
  193. tests/integration/test_integration_stn.py +133 -0
  194. tests/integration/test_integration_unet_2d.py +67 -0
  195. tests/integration/test_integration_workers.py +61 -0
  196. tests/integration/test_integration_workflows.py +365 -0
  197. tests/integration/test_integration_workflows_adversarial.py +173 -0
  198. tests/integration/test_integration_workflows_gan.py +158 -0
  199. tests/integration/test_loader_semaphore.py +48 -0
  200. tests/integration/test_mapping_filed.py +122 -0
  201. tests/integration/test_meta_affine.py +183 -0
  202. tests/integration/test_metatensor_integration.py +114 -0
  203. tests/integration/test_module_list.py +76 -0
  204. tests/integration/test_one_of.py +283 -0
  205. tests/integration/test_pad_collation.py +124 -0
  206. tests/integration/test_reg_loss_integration.py +107 -0
  207. tests/integration/test_retinanet_predict_utils.py +154 -0
  208. tests/integration/test_seg_loss_integration.py +159 -0
  209. tests/integration/test_spatial_combine_transforms.py +185 -0
  210. tests/integration/test_testtimeaugmentation.py +186 -0
  211. tests/integration/test_vis_gradbased.py +69 -0
  212. tests/integration/test_vista3d_utils.py +159 -0
  213. tests/losses/__init__.py +10 -0
  214. tests/losses/deform/__init__.py +10 -0
  215. tests/losses/deform/test_bending_energy.py +88 -0
  216. tests/losses/deform/test_diffusion_loss.py +117 -0
  217. tests/losses/image_dissimilarity/__init__.py +10 -0
  218. tests/losses/image_dissimilarity/test_global_mutual_information_loss.py +150 -0
  219. tests/losses/image_dissimilarity/test_local_normalized_cross_correlation_loss.py +162 -0
  220. tests/losses/test_adversarial_loss.py +94 -0
  221. tests/losses/test_barlow_twins_loss.py +109 -0
  222. tests/losses/test_cldice_loss.py +51 -0
  223. tests/losses/test_contrastive_loss.py +86 -0
  224. tests/losses/test_dice_ce_loss.py +123 -0
  225. tests/losses/test_dice_focal_loss.py +124 -0
  226. tests/losses/test_dice_loss.py +227 -0
  227. tests/losses/test_ds_loss.py +189 -0
  228. tests/losses/test_focal_loss.py +379 -0
  229. tests/losses/test_generalized_dice_focal_loss.py +85 -0
  230. tests/losses/test_generalized_dice_loss.py +221 -0
  231. tests/losses/test_generalized_wasserstein_dice_loss.py +234 -0
  232. tests/losses/test_giou_loss.py +62 -0
  233. tests/losses/test_hausdorff_loss.py +264 -0
  234. tests/losses/test_masked_dice_loss.py +152 -0
  235. tests/losses/test_masked_loss.py +87 -0
  236. tests/losses/test_multi_scale.py +86 -0
  237. tests/losses/test_nacl_loss.py +167 -0
  238. tests/losses/test_perceptual_loss.py +122 -0
  239. tests/losses/test_spectral_loss.py +86 -0
  240. tests/losses/test_ssim_loss.py +59 -0
  241. tests/losses/test_sure_loss.py +72 -0
  242. tests/losses/test_tversky_loss.py +198 -0
  243. tests/losses/test_unified_focal_loss.py +66 -0
  244. tests/metrics/__init__.py +10 -0
  245. tests/metrics/test_compute_confusion_matrix.py +294 -0
  246. tests/metrics/test_compute_f_beta.py +80 -0
  247. tests/metrics/test_compute_fid_metric.py +40 -0
  248. tests/metrics/test_compute_froc.py +143 -0
  249. tests/metrics/test_compute_generalized_dice.py +240 -0
  250. tests/metrics/test_compute_meandice.py +306 -0
  251. tests/metrics/test_compute_meaniou.py +223 -0
  252. tests/metrics/test_compute_mmd_metric.py +56 -0
  253. tests/metrics/test_compute_multiscalessim_metric.py +83 -0
  254. tests/metrics/test_compute_panoptic_quality.py +113 -0
  255. tests/metrics/test_compute_regression_metrics.py +196 -0
  256. tests/metrics/test_compute_roc_auc.py +155 -0
  257. tests/metrics/test_compute_variance.py +147 -0
  258. tests/metrics/test_cumulative.py +63 -0
  259. tests/metrics/test_cumulative_average.py +74 -0
  260. tests/metrics/test_cumulative_average_dist.py +48 -0
  261. tests/metrics/test_hausdorff_distance.py +209 -0
  262. tests/metrics/test_label_quality_score.py +134 -0
  263. tests/metrics/test_loss_metric.py +57 -0
  264. tests/metrics/test_metrics_reloaded.py +96 -0
  265. tests/metrics/test_ssim_metric.py +78 -0
  266. tests/metrics/test_surface_dice.py +416 -0
  267. tests/metrics/test_surface_distance.py +186 -0
  268. tests/networks/__init__.py +10 -0
  269. tests/networks/blocks/__init__.py +10 -0
  270. tests/networks/blocks/dints_block/__init__.py +10 -0
  271. tests/networks/blocks/dints_block/test_acn_block.py +41 -0
  272. tests/networks/blocks/dints_block/test_factorized_increase.py +37 -0
  273. tests/networks/blocks/dints_block/test_factorized_reduce.py +37 -0
  274. tests/networks/blocks/dints_block/test_p3d_block.py +78 -0
  275. tests/networks/blocks/test_adn.py +86 -0
  276. tests/networks/blocks/test_convolutions.py +156 -0
  277. tests/networks/blocks/test_crf_cpu.py +513 -0
  278. tests/networks/blocks/test_crf_cuda.py +528 -0
  279. tests/networks/blocks/test_crossattention.py +185 -0
  280. tests/networks/blocks/test_denseblock.py +105 -0
  281. tests/networks/blocks/test_dynunet_block.py +116 -0
  282. tests/networks/blocks/test_fpn_block.py +88 -0
  283. tests/networks/blocks/test_localnet_block.py +121 -0
  284. tests/networks/blocks/test_mlp.py +78 -0
  285. tests/networks/blocks/test_patchembedding.py +212 -0
  286. tests/networks/blocks/test_regunet_block.py +103 -0
  287. tests/networks/blocks/test_se_block.py +85 -0
  288. tests/networks/blocks/test_se_blocks.py +78 -0
  289. tests/networks/blocks/test_segresnet_block.py +57 -0
  290. tests/networks/blocks/test_selfattention.py +232 -0
  291. tests/networks/blocks/test_simple_aspp.py +87 -0
  292. tests/networks/blocks/test_spatialattention.py +55 -0
  293. tests/networks/blocks/test_subpixel_upsample.py +87 -0
  294. tests/networks/blocks/test_text_encoding.py +49 -0
  295. tests/networks/blocks/test_transformerblock.py +90 -0
  296. tests/networks/blocks/test_unetr_block.py +158 -0
  297. tests/networks/blocks/test_upsample_block.py +134 -0
  298. tests/networks/blocks/warp/__init__.py +10 -0
  299. tests/networks/blocks/warp/test_dvf2ddf.py +72 -0
  300. tests/networks/blocks/warp/test_warp.py +250 -0
  301. tests/networks/layers/__init__.py +10 -0
  302. tests/networks/layers/filtering/__init__.py +10 -0
  303. tests/networks/layers/filtering/test_bilateral_approx_cpu.py +399 -0
  304. tests/networks/layers/filtering/test_bilateral_approx_cuda.py +404 -0
  305. tests/networks/layers/filtering/test_bilateral_precise.py +437 -0
  306. tests/networks/layers/filtering/test_phl_cpu.py +259 -0
  307. tests/networks/layers/filtering/test_phl_cuda.py +167 -0
  308. tests/networks/layers/filtering/test_trainable_bilateral.py +474 -0
  309. tests/networks/layers/filtering/test_trainable_joint_bilateral.py +609 -0
  310. tests/networks/layers/test_affine_transform.py +385 -0
  311. tests/networks/layers/test_apply_filter.py +89 -0
  312. tests/networks/layers/test_channel_pad.py +51 -0
  313. tests/networks/layers/test_conjugate_gradient.py +56 -0
  314. tests/networks/layers/test_drop_path.py +46 -0
  315. tests/networks/layers/test_gaussian.py +317 -0
  316. tests/networks/layers/test_gaussian_filter.py +206 -0
  317. tests/networks/layers/test_get_layers.py +65 -0
  318. tests/networks/layers/test_gmm.py +314 -0
  319. tests/networks/layers/test_grid_pull.py +93 -0
  320. tests/networks/layers/test_hilbert_transform.py +131 -0
  321. tests/networks/layers/test_lltm.py +62 -0
  322. tests/networks/layers/test_median_filter.py +52 -0
  323. tests/networks/layers/test_polyval.py +55 -0
  324. tests/networks/layers/test_preset_filters.py +136 -0
  325. tests/networks/layers/test_savitzky_golay_filter.py +141 -0
  326. tests/networks/layers/test_separable_filter.py +87 -0
  327. tests/networks/layers/test_skip_connection.py +48 -0
  328. tests/networks/layers/test_vector_quantizer.py +89 -0
  329. tests/networks/layers/test_weight_init.py +50 -0
  330. tests/networks/nets/__init__.py +10 -0
  331. tests/networks/nets/dints/__init__.py +10 -0
  332. tests/networks/nets/dints/test_dints_cell.py +110 -0
  333. tests/networks/nets/dints/test_dints_mixop.py +84 -0
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  681. tests/transforms/test_std_shift_intensityd.py +74 -0
  682. tests/transforms/test_threshold_intensity.py +38 -0
  683. tests/transforms/test_threshold_intensityd.py +58 -0
  684. tests/transforms/test_to_contiguous.py +47 -0
  685. tests/transforms/test_to_cupy.py +112 -0
  686. tests/transforms/test_to_cupyd.py +76 -0
  687. tests/transforms/test_to_device.py +42 -0
  688. tests/transforms/test_to_deviced.py +37 -0
  689. tests/transforms/test_to_numpy.py +85 -0
  690. tests/transforms/test_to_numpyd.py +68 -0
  691. tests/transforms/test_to_pil.py +52 -0
  692. tests/transforms/test_to_pild.py +50 -0
  693. tests/transforms/test_to_tensor.py +60 -0
  694. tests/transforms/test_to_tensord.py +71 -0
  695. tests/transforms/test_torchvision.py +66 -0
  696. tests/transforms/test_torchvisiond.py +63 -0
  697. tests/transforms/test_transform.py +62 -0
  698. tests/transforms/test_transpose.py +41 -0
  699. tests/transforms/test_transposed.py +52 -0
  700. tests/transforms/test_ultrasound_confidence_map_transform.py +711 -0
  701. tests/transforms/test_utils_pytorch_numpy_unification.py +90 -0
  702. tests/transforms/test_vote_ensemble.py +84 -0
  703. tests/transforms/test_vote_ensembled.py +107 -0
  704. tests/transforms/test_with_allow_missing_keys.py +76 -0
  705. tests/transforms/test_zoom.py +120 -0
  706. tests/transforms/test_zoomd.py +94 -0
  707. tests/transforms/transform/__init__.py +10 -0
  708. tests/transforms/transform/test_randomizable.py +52 -0
  709. tests/transforms/transform/test_randomizable_transform_type.py +37 -0
  710. tests/transforms/utility/__init__.py +10 -0
  711. tests/transforms/utility/test_apply_transform_to_points.py +81 -0
  712. tests/transforms/utility/test_apply_transform_to_pointsd.py +185 -0
  713. tests/transforms/utility/test_identity.py +29 -0
  714. tests/transforms/utility/test_identityd.py +30 -0
  715. tests/transforms/utility/test_lambda.py +71 -0
  716. tests/transforms/utility/test_lambdad.py +83 -0
  717. tests/transforms/utility/test_rand_lambda.py +87 -0
  718. tests/transforms/utility/test_rand_lambdad.py +77 -0
  719. tests/transforms/utility/test_simulatedelay.py +36 -0
  720. tests/transforms/utility/test_simulatedelayd.py +36 -0
  721. tests/transforms/utility/test_splitdim.py +52 -0
  722. tests/transforms/utility/test_splitdimd.py +96 -0
  723. tests/transforms/utils/__init__.py +10 -0
  724. tests/transforms/utils/test_correct_crop_centers.py +36 -0
  725. tests/transforms/utils/test_get_unique_labels.py +45 -0
  726. tests/transforms/utils/test_print_transform_backends.py +29 -0
  727. tests/transforms/utils/test_soft_clip.py +125 -0
  728. tests/utils/__init__.py +10 -0
  729. tests/utils/enums/__init__.py +10 -0
  730. tests/utils/enums/test_hovernet_loss.py +190 -0
  731. tests/utils/enums/test_ordering.py +289 -0
  732. tests/utils/enums/test_wsireader.py +663 -0
  733. tests/utils/misc/__init__.py +10 -0
  734. tests/utils/misc/test_ensure_tuple.py +53 -0
  735. tests/utils/misc/test_monai_env_vars.py +44 -0
  736. tests/utils/misc/test_monai_utils_misc.py +103 -0
  737. tests/utils/misc/test_str2bool.py +34 -0
  738. tests/utils/misc/test_str2list.py +33 -0
  739. tests/utils/test_alias.py +44 -0
  740. tests/utils/test_component_store.py +73 -0
  741. tests/utils/test_deprecated.py +455 -0
  742. tests/utils/test_enum_bound_interp.py +75 -0
  743. tests/utils/test_evenly_divisible_all_gather_dist.py +50 -0
  744. tests/utils/test_get_package_version.py +34 -0
  745. tests/utils/test_handler_logfile.py +84 -0
  746. tests/utils/test_handler_metric_logger.py +62 -0
  747. tests/utils/test_list_to_dict.py +43 -0
  748. tests/utils/test_look_up_option.py +87 -0
  749. tests/utils/test_optional_import.py +80 -0
  750. tests/utils/test_pad_mode.py +39 -0
  751. tests/utils/test_profiling.py +208 -0
  752. tests/utils/test_rankfilter_dist.py +77 -0
  753. tests/utils/test_require_pkg.py +83 -0
  754. tests/utils/test_sample_slices.py +43 -0
  755. tests/utils/test_set_determinism.py +74 -0
  756. tests/utils/test_squeeze_unsqueeze.py +71 -0
  757. tests/utils/test_state_cacher.py +67 -0
  758. tests/utils/test_torchscript_utils.py +113 -0
  759. tests/utils/test_version.py +91 -0
  760. tests/utils/test_version_after.py +65 -0
  761. tests/utils/type_conversion/__init__.py +10 -0
  762. tests/utils/type_conversion/test_convert_data_type.py +152 -0
  763. tests/utils/type_conversion/test_get_equivalent_dtype.py +65 -0
  764. tests/utils/type_conversion/test_safe_dtype_range.py +99 -0
  765. tests/visualize/__init__.py +10 -0
  766. tests/visualize/test_img2tensorboard.py +46 -0
  767. tests/visualize/test_occlusion_sensitivity.py +128 -0
  768. tests/visualize/test_plot_2d_or_3d_image.py +74 -0
  769. tests/visualize/test_vis_cam.py +98 -0
  770. tests/visualize/test_vis_gradcam.py +211 -0
  771. tests/visualize/utils/__init__.py +10 -0
  772. tests/visualize/utils/test_blend_images.py +63 -0
  773. tests/visualize/utils/test_matshow3d.py +133 -0
  774. monai_weekly-1.5.dev2506.dist-info/RECORD +0 -427
  775. {monai_weekly-1.5.dev2506.dist-info → monai_weekly-1.5.dev2507.dist-info}/LICENSE +0 -0
  776. {monai_weekly-1.5.dev2506.dist-info → monai_weekly-1.5.dev2507.dist-info}/WHEEL +0 -0
tests/networks/layers/filtering/test_bilateral_approx_cuda.py ADDED
@@ -0,0 +1,404 @@
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
+ from torch.autograd import gradcheck
20
+
21
+ from monai.networks.layers.filtering import BilateralFilter
22
+ from tests.test_utils import skip_if_no_cpp_extension, skip_if_no_cuda
23
+
24
+ TEST_CASES = [
25
+ [
26
+ # Case Description
27
+ "1 dimension, 1 channel, low spatial sigma, low color sigma",
28
+ # Spatial and Color Sigmas
29
+ (1, 0.2),
30
+ # Input
31
+ [
32
+ # Batch 0
33
+ [
34
+ # Channel 0
35
+ [1, 0, 0, 0, 1]
36
+ ],
37
+ # Batch 1
38
+ [
39
+ # Channel 0
40
+ [0, 0, 1, 0, 0]
41
+ ],
42
+ ],
43
+ # Expected
44
+ [
45
+ # Batch 0
46
+ [
47
+ # Channel 0
48
+ [1.000000, 0.000000, 0.000000, 0.000000, 1.000000]
49
+ ],
50
+ # Batch 1
51
+ [
52
+ # Channel 0
53
+ [0.000000, 0.000000, 1.000000, 0.000000, 0.000000]
54
+ ],
55
+ ],
56
+ ],
57
+ [
58
+ # Case Description
59
+ "1 dimension, 1 channel, low spatial sigma, high color sigma",
60
+ # Spatial and Color Sigmas
61
+ (1, 0.9),
62
+ # Input
63
+ [
64
+ # Batch 0
65
+ [
66
+ # Channel 0
67
+ [1, 0, 0, 0, 1]
68
+ ],
69
+ # Batch 1
70
+ [
71
+ # Channel 0
72
+ [0, 0, 1, 0, 0]
73
+ ],
74
+ ],
75
+ # Expected
76
+ [
77
+ # Batch 0
78
+ [
79
+ # Channel 0
80
+ [0.880626, 0.306148, 0.158734, 0.164534, 0.754386]
81
+ ],
82
+ # Batch 1
83
+ [
84
+ # Channel 0
85
+ [0.019010, 0.104507, 0.605634, 0.183721, 0.045619]
86
+ ],
87
+ ],
88
+ ],
89
+ [
90
+ # Case Description
91
+ "1 dimension, 1 channel, high spatial sigma, low color sigma",
92
+ # Spatial and Color Sigmas
93
+ (4, 0.2),
94
+ # Input
95
+ [
96
+ # Batch 0
97
+ [
98
+ # Channel 0
99
+ [1, 0, 0, 0, 1]
100
+ ],
101
+ # Batch 1
102
+ [
103
+ # Channel 0
104
+ [0, 0, 1, 0, 0]
105
+ ],
106
+ ],
107
+ # Expected
108
+ [
109
+ # Batch 0
110
+ [
111
+ # Channel 0
112
+ [1.000000, 0.000000, 0.000000, 0.000000, 1.000000]
113
+ ],
114
+ # Batch 1
115
+ [
116
+ # Channel 0
117
+ [0.000000, 0.000000, 1.000000, 0.000000, 0.000000]
118
+ ],
119
+ ],
120
+ ],
121
+ [
122
+ # Case Description
123
+ "1 dimension, 1 channel, high spatial sigma, high color sigma",
124
+ # Sigmas
125
+ (4, 0.9),
126
+ # Input
127
+ [
128
+ # Batch 0
129
+ [
130
+ # Channel 0
131
+ [1, 0, 0, 0, 1]
132
+ ],
133
+ # Batch 1
134
+ [
135
+ # Channel 0
136
+ [0, 0, 1, 0, 0]
137
+ ],
138
+ ],
139
+ # Expected
140
+ [
141
+ # Batch 0
142
+ [
143
+ # Channel 0
144
+ [0.497667, 0.268683, 0.265026, 0.261467, 0.495981]
145
+ ],
146
+ # Batch 1
147
+ [
148
+ # Channel 0
149
+ [0.149889, 0.148226, 0.367978, 0.144023, 0.141317]
150
+ ],
151
+ ],
152
+ ],
153
+ [
154
+ # Case Description
155
+ "1 dimension, 4 channel, low spatial sigma, high color sigma",
156
+ # Spatial and Color Sigmas
157
+ (1, 0.9),
158
+ # Input
159
+ [
160
+ # Batch 0
161
+ [
162
+ # Channel 0
163
+ [1, 0, 0, 0, 0],
164
+ # Channel 1
165
+ [1, 0, 1, 0, 0],
166
+ # Channel 2
167
+ [0, 0, 1, 0, 1],
168
+ # Channel 3
169
+ [0, 0, 0, 0, 1],
170
+ ]
171
+ ],
172
+ # Expected
173
+ [
174
+ # Batch 0
175
+ [
176
+ # Channel 0
177
+ [0.988107, 0.061340, 0.001565, 0.000011, 0.000000],
178
+ # Channel 1
179
+ [0.988107, 0.061340, 0.998000, 0.000016, 0.000123],
180
+ # Channel 2
181
+ [0.000000, 0.000000, 0.996435, 0.000006, 0.999236],
182
+ # Channel 3
183
+ [0.000000, 0.000000, 0.000000, 0.000000, 0.999113],
184
+ ]
185
+ ],
186
+ ],
187
+ [
188
+ # Case Description
189
+ "2 dimension, 1 channel, high spatial sigma, high color sigma",
190
+ # Sigmas
191
+ (4, 0.9),
192
+ # Input
193
+ [
194
+ # Batch 0
195
+ [
196
+ # Channel 0
197
+ [[1, 0, 0, 0, 1], [0, 0, 0, 0, 0], [0, 0, 0, 0, 0], [0, 0, 0, 0, 0], [1, 0, 0, 0, 1]]
198
+ ],
199
+ # Batch 1
200
+ [
201
+ # Channel 0
202
+ [[0, 0, 0, 0, 0], [0, 0, 0, 0, 0], [0, 0, 1, 0, 0], [0, 0, 0, 0, 0], [0, 0, 0, 0, 0]]
203
+ ],
204
+ ],
205
+ # Expected
206
+ [
207
+ # Batch 0
208
+ [
209
+ # Channel 0
210
+ [
211
+ [0.211469, 0.094356, 0.092973, 0.091650, 0.211894],
212
+ [0.093755, 0.091753, 0.090524, 0.089343, 0.088384],
213
+ [0.091803, 0.089783, 0.088409, 0.087346, 0.086927],
214
+ [0.089938, 0.088126, 0.086613, 0.085601, 0.085535],
215
+ [0.208359, 0.086535, 0.085179, 0.084210, 0.205858],
216
+ ]
217
+ ],
218
+ # Batch 1
219
+ [
220
+ # Channel 0
221
+ [
222
+ [0.032760, 0.030146, 0.027442, 0.024643, 0.021744],
223
+ [0.030955, 0.029416, 0.026574, 0.023629, 0.020841],
224
+ [0.028915, 0.027834, 0.115442, 0.022515, 0.020442],
225
+ [0.026589, 0.025447, 0.024319, 0.021286, 0.019964],
226
+ [0.023913, 0.022704, 0.021510, 0.020388, 0.019379],
227
+ ]
228
+ ],
229
+ ],
230
+ ],
231
+ [
232
+ # Case Description
233
+ "2 dimension, 4 channel, high spatial sigma, high color sigma",
234
+ # Spatial and Color Sigmas
235
+ (4, 0.9),
236
+ # Input
237
+ [
238
+ # Batch 0
239
+ [
240
+ # Channel 0
241
+ [[1, 0, 0, 0, 0], [0, 0, 0, 0, 0], [0, 0, 0, 0, 0], [0, 0, 0, 0, 0], [0, 0, 0, 0, 1]],
242
+ # Channel 1
243
+ [[1, 0, 1, 0, 0], [0, 0, 0, 0, 0], [0, 0, 0, 0, 0], [0, 0, 0, 0, 0], [0, 0, 1, 0, 1]],
244
+ # Channel 2
245
+ [[0, 0, 1, 0, 1], [0, 0, 0, 0, 0], [0, 0, 0, 0, 0], [0, 0, 0, 0, 0], [1, 0, 1, 0, 0]],
246
+ # Channel 3
247
+ [[0, 0, 0, 0, 1], [0, 0, 0, 0, 0], [0, 0, 0, 0, 0], [0, 0, 0, 0, 0], [1, 0, 0, 0, 0]],
248
+ ]
249
+ ],
250
+ # Expected
251
+ [
252
+ # Batch 0
253
+ [
254
+ # Channel 0
255
+ [
256
+ [0.557349, 0.011031, 0.001800, 0.011265, 0.000631],
257
+ [0.009824, 0.010361, 0.010429, 0.010506, 0.010595],
258
+ [0.008709, 0.009252, 0.009688, 0.009714, 0.009744],
259
+ [0.007589, 0.008042, 0.008576, 0.008887, 0.008852],
260
+ [0.000420, 0.006827, 0.001048, 0.007763, 0.190722],
261
+ ],
262
+ # Channel 1
263
+ [
264
+ [0.614072, 0.011045, 0.925766, 0.011287, 0.007548],
265
+ [0.009838, 0.010382, 0.010454, 0.010536, 0.010630],
266
+ [0.008727, 0.009277, 0.009720, 0.009751, 0.009787],
267
+ [0.007611, 0.008071, 0.008613, 0.008932, 0.008904],
268
+ [0.027088, 0.006859, 0.950749, 0.007815, 0.230270],
269
+ ],
270
+ # Channel 2
271
+ [
272
+ [0.056723, 0.000150, 0.973790, 0.000233, 0.990814],
273
+ [0.000151, 0.000214, 0.000257, 0.000307, 0.000364],
274
+ [0.000186, 0.000257, 0.000328, 0.000384, 0.000449],
275
+ [0.000221, 0.000295, 0.000382, 0.000465, 0.000538],
276
+ [0.993884, 0.000333, 0.984743, 0.000532, 0.039548],
277
+ ],
278
+ # Channel 3
279
+ [
280
+ [0.000000, 0.000136, 0.049824, 0.000210, 0.983897],
281
+ [0.000136, 0.000193, 0.000232, 0.000277, 0.000329],
282
+ [0.000168, 0.000232, 0.000297, 0.000347, 0.000405],
283
+ [0.000200, 0.000266, 0.000345, 0.000420, 0.000485],
284
+ [0.967217, 0.000301, 0.035041, 0.000481, 0.000000],
285
+ ],
286
+ ]
287
+ ],
288
+ ],
289
+ [
290
+ # Case Description
291
+ "3 dimension, 1 channel, high spatial sigma, high color sigma",
292
+ # Sigmas
293
+ (4, 0.9),
294
+ # Input
295
+ [
296
+ # Batch 0
297
+ [
298
+ # Channel 0
299
+ [
300
+ # Frame 0
301
+ [[1, 0, 0, 0, 1], [0, 0, 0, 0, 0], [0, 0, 0, 0, 0], [0, 0, 0, 0, 0], [1, 0, 0, 0, 1]],
302
+ # Frame 1
303
+ [[0, 0, 0, 0, 0], [0, 0, 0, 0, 0], [0, 0, 0, 0, 0], [0, 0, 0, 0, 0], [0, 0, 0, 0, 0]],
304
+ # Frame 2
305
+ [[0, 0, 0, 0, 0], [0, 0, 0, 0, 0], [0, 0, 0, 0, 0], [0, 0, 0, 0, 0], [0, 0, 0, 0, 0]],
306
+ # Frame 3
307
+ [[0, 0, 0, 0, 0], [0, 0, 0, 0, 0], [0, 0, 0, 0, 0], [0, 0, 0, 0, 0], [0, 0, 0, 0, 0]],
308
+ # Frame 4
309
+ [[1, 0, 0, 0, 1], [0, 0, 0, 0, 0], [0, 0, 0, 0, 0], [0, 0, 0, 0, 0], [1, 0, 0, 0, 1]],
310
+ ]
311
+ ]
312
+ ],
313
+ # Expected
314
+ [
315
+ # Batch 0
316
+ [
317
+ # Channel 0
318
+ [
319
+ # Frame 0
320
+ [
321
+ [0.085451, 0.037820, 0.036880, 0.035978, 0.084296],
322
+ [0.037939, 0.036953, 0.036155, 0.035385, 0.034640],
323
+ [0.037167, 0.036302, 0.035603, 0.034931, 0.034465],
324
+ [0.036469, 0.035724, 0.035137, 0.034572, 0.034480],
325
+ [0.088942, 0.035193, 0.034682, 0.034266, 0.090568],
326
+ ],
327
+ # Frame 1
328
+ [
329
+ [0.037125, 0.035944, 0.035103, 0.033429, 0.033498],
330
+ [0.033380, 0.032653, 0.033748, 0.033073, 0.032549],
331
+ [0.034834, 0.034001, 0.033500, 0.032902, 0.032560],
332
+ [0.033972, 0.033554, 0.033220, 0.032765, 0.032570],
333
+ [0.033590, 0.033222, 0.032927, 0.032689, 0.032629],
334
+ ],
335
+ # Frame 2
336
+ [
337
+ [0.035635, 0.034468, 0.033551, 0.032818, 0.032302],
338
+ [0.034523, 0.032830, 0.032146, 0.031536, 0.031149],
339
+ [0.033612, 0.032011, 0.031664, 0.031128, 0.030839],
340
+ [0.032801, 0.031668, 0.031529, 0.031198, 0.030978],
341
+ [0.032337, 0.031550, 0.031419, 0.031383, 0.031211],
342
+ ],
343
+ # Frame 3
344
+ [
345
+ [0.034300, 0.033236, 0.032239, 0.031517, 0.031133],
346
+ [0.033357, 0.031842, 0.031035, 0.030471, 0.030126],
347
+ [0.032563, 0.031094, 0.030156, 0.029703, 0.029324],
348
+ [0.031850, 0.030505, 0.030027, 0.029802, 0.029461],
349
+ [0.031555, 0.030121, 0.029943, 0.030000, 0.029700],
350
+ ],
351
+ # Frame 4
352
+ [
353
+ [0.083156, 0.032122, 0.031204, 0.030380, 0.080582],
354
+ [0.032296, 0.030936, 0.030170, 0.029557, 0.029124],
355
+ [0.031617, 0.030293, 0.029377, 0.028886, 0.028431],
356
+ [0.031084, 0.029859, 0.028839, 0.028439, 0.027973],
357
+ [0.164616, 0.029457, 0.028484, 0.028532, 0.211082],
358
+ ],
359
+ ]
360
+ ]
361
+ ],
362
+ ],
363
+ ]
364
+
365
+
366
+ @skip_if_no_cuda
367
+ @skip_if_no_cpp_extension
368
+ class BilateralFilterTestCaseCudaApprox(unittest.TestCase):
369
+ @parameterized.expand(TEST_CASES)
370
+ def test_cuda_approx(self, test_case_description, sigmas, input, expected):
371
+ # Skip this test
372
+ if not torch.cuda.is_available():
373
+ return
374
+
375
+ # Params to determine the implementation to test
376
+ device = torch.device("cuda")
377
+ fast_approx = True
378
+
379
+ # Create input tensor and apply filter
380
+ input_tensor = torch.from_numpy(np.array(input)).to(dtype=torch.float, device=device)
381
+ output = BilateralFilter.apply(input_tensor, *sigmas, fast_approx).cpu().numpy()
382
+
383
+ # Ensure result are as expected
384
+ np.testing.assert_allclose(output, expected, atol=2e-1)
385
+
386
+ @parameterized.expand(TEST_CASES)
387
+ def test_cpu_approx_backwards(self, test_case_description, sigmas, input, expected):
388
+ # Params to determine the implementation to test
389
+ device = torch.device("cuda")
390
+ fast_approx = True
391
+
392
+ # Prepare input tensor
393
+ input_tensor = torch.from_numpy(np.array(input)).to(dtype=torch.float, device=device)
394
+ input_tensor.requires_grad = True
395
+
396
+ # Prepare args
397
+ args = (input_tensor, *sigmas, fast_approx)
398
+
399
+ # Run grad check
400
+ gradcheck(BilateralFilter.apply, args, raise_exception=False)
401
+
402
+
403
+ if __name__ == "__main__":
404
+ unittest.main()