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
@@ -0,0 +1,71 @@
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 copy import deepcopy
16
+
17
+ from parameterized import parameterized
18
+
19
+ from monai.transforms import generate_label_classes_crop_centers
20
+ from monai.utils.misc import set_determinism
21
+ from tests.test_utils import TEST_NDARRAYS, assert_allclose
22
+
23
+ TEST_CASE_1 = [
24
+ {
25
+ "spatial_size": [2, 2, 2],
26
+ "num_samples": 2,
27
+ "ratios": [1, 2],
28
+ "label_spatial_shape": [3, 3, 3],
29
+ "indices": [[3, 12, 21], [1, 9, 18]],
30
+ },
31
+ tuple,
32
+ 2,
33
+ 3,
34
+ ]
35
+
36
+ TEST_CASE_2 = [
37
+ {
38
+ "spatial_size": [2, 2, 2],
39
+ "num_samples": 1,
40
+ "ratios": None,
41
+ "label_spatial_shape": [3, 3, 3],
42
+ "indices": [[3, 12, 21], [1, 9, 18]],
43
+ },
44
+ tuple,
45
+ 1,
46
+ 3,
47
+ ]
48
+
49
+
50
+ class TestGenerateLabelClassesCropCenters(unittest.TestCase):
51
+ @parameterized.expand([TEST_CASE_1, TEST_CASE_2])
52
+ def test_type_shape(self, input_data, expected_type, expected_count, expected_shape):
53
+ results = []
54
+ for p in TEST_NDARRAYS + (None,):
55
+ input_data = deepcopy(input_data)
56
+ if p is not None:
57
+ input_data["indices"] = p(input_data["indices"])
58
+ set_determinism(0)
59
+ result = generate_label_classes_crop_centers(**input_data)
60
+ self.assertIsInstance(result, expected_type)
61
+ self.assertEqual(len(result), expected_count)
62
+ self.assertEqual(len(result[0]), expected_shape)
63
+ # check for consistency between numpy, torch and torch.cuda
64
+ results.append(result)
65
+ if len(results) > 1:
66
+ for x, y in zip(result[0], result[-1]):
67
+ assert_allclose(x, y, type_test=False)
68
+
69
+
70
+ if __name__ == "__main__":
71
+ unittest.main()
@@ -0,0 +1,76 @@
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 copy import deepcopy
16
+
17
+ from parameterized import parameterized
18
+
19
+ from monai.transforms import generate_pos_neg_label_crop_centers
20
+ from monai.utils.misc import set_determinism
21
+ from tests.test_utils import TEST_NDARRAYS, assert_allclose
22
+
23
+ TESTS = [
24
+ [
25
+ {
26
+ "spatial_size": [2, 2, 2],
27
+ "num_samples": 2,
28
+ "pos_ratio": 1.0,
29
+ "label_spatial_shape": [3, 3, 3],
30
+ "fg_indices": [1, 9, 18],
31
+ "bg_indices": [3, 12, 21],
32
+ },
33
+ tuple,
34
+ 2,
35
+ 3,
36
+ ],
37
+ [
38
+ {
39
+ "spatial_size": [2, 2, 2],
40
+ "num_samples": 2,
41
+ "pos_ratio": 0.0,
42
+ "label_spatial_shape": [3, 3, 3],
43
+ "fg_indices": [],
44
+ "bg_indices": [3, 12, 21],
45
+ },
46
+ tuple,
47
+ 2,
48
+ 3,
49
+ ],
50
+ ]
51
+
52
+
53
+ class TestGeneratePosNegLabelCropCenters(unittest.TestCase):
54
+ @parameterized.expand(TESTS)
55
+ def test_type_shape(self, input_data, expected_type, expected_count, expected_shape):
56
+ results = []
57
+ for p in TEST_NDARRAYS + (None,):
58
+ input_data = deepcopy(input_data)
59
+ if p is not None:
60
+ for k in ["fg_indices", "bg_indices"]:
61
+ input_data[k] = p(input_data[k])
62
+ set_determinism(0)
63
+ result = generate_pos_neg_label_crop_centers(**input_data)
64
+ self.assertIsInstance(result, expected_type)
65
+ self.assertEqual(len(result), expected_count)
66
+ self.assertEqual(len(result[0]), expected_shape)
67
+ # check for consistency between numpy, torch and torch.cuda
68
+ results.append(result)
69
+ if len(results) > 1:
70
+ # compare every crop center
71
+ for x, y in zip(results[0], results[-1]):
72
+ assert_allclose(x, y, type_test=False)
73
+
74
+
75
+ if __name__ == "__main__":
76
+ unittest.main()
@@ -0,0 +1,114 @@
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
+ from parameterized import parameterized
18
+
19
+ from monai.transforms import generate_spatial_bounding_box
20
+ from tests.test_utils import TEST_NDARRAYS
21
+
22
+ TESTS = []
23
+ for p in TEST_NDARRAYS:
24
+ TESTS.append(
25
+ [
26
+ {
27
+ "img": p(
28
+ np.array([[[0, 0, 0, 0, 0], [0, 1, 2, 1, 0], [0, 2, 3, 2, 0], [0, 1, 2, 1, 0], [0, 0, 0, 0, 0]]])
29
+ ),
30
+ "select_fn": lambda x: x > 0,
31
+ "channel_indices": None,
32
+ "margin": 0,
33
+ },
34
+ ([1, 1], [4, 4]),
35
+ ]
36
+ )
37
+ TESTS.append(
38
+ [
39
+ {
40
+ "img": p(
41
+ np.array([[[0, 0, 0, 0, 0], [0, 1, 1, 1, 0], [0, 1, 3, 1, 0], [0, 1, 1, 1, 0], [0, 0, 0, 0, 0]]])
42
+ ),
43
+ "select_fn": lambda x: x > 1,
44
+ "channel_indices": None,
45
+ "margin": 0,
46
+ },
47
+ ([2, 2], [3, 3]),
48
+ ]
49
+ )
50
+ TESTS.append(
51
+ [
52
+ {
53
+ "img": p(
54
+ np.array([[[0, 0, 0, 0, 0], [0, 1, 2, 1, 0], [0, 2, 3, 2, 0], [0, 1, 2, 1, 0], [0, 0, 0, 0, 0]]])
55
+ ),
56
+ "select_fn": lambda x: x > 0,
57
+ "channel_indices": 0,
58
+ "margin": 0,
59
+ },
60
+ ([1, 1], [4, 4]),
61
+ ]
62
+ )
63
+ TESTS.append(
64
+ [
65
+ {
66
+ "img": p(
67
+ np.array([[[0, 0, 0, 0, 0], [0, 1, 2, 1, 0], [0, 2, 3, 2, 0], [0, 0, 0, 0, 0], [0, 0, 0, 0, 0]]])
68
+ ),
69
+ "select_fn": lambda x: x > 0,
70
+ "channel_indices": None,
71
+ "margin": 1,
72
+ },
73
+ ([0, 0], [4, 5]),
74
+ ]
75
+ )
76
+ TESTS.append(
77
+ [
78
+ {
79
+ "img": p(
80
+ np.array([[[0, 0, 0, 0, 0], [0, 1, 2, 1, 0], [0, 2, 3, 2, 0], [0, 1, 2, 1, 0], [0, 0, 0, 0, 0]]])
81
+ ),
82
+ "select_fn": lambda x: x > 0,
83
+ "channel_indices": None,
84
+ "margin": [2, 1],
85
+ "allow_smaller": False,
86
+ },
87
+ ([-1, 0], [6, 5]),
88
+ ]
89
+ )
90
+ TESTS.append(
91
+ [
92
+ {
93
+ "img": p(
94
+ np.array([[[0, 0, 0, 0, 0], [0, 1, 2, 1, 0], [0, 2, 3, 2, 0], [0, 1, 2, 1, 0], [0, 0, 0, 0, 0]]])
95
+ ),
96
+ "select_fn": lambda x: x > 0,
97
+ "channel_indices": None,
98
+ "margin": [2, 1],
99
+ "allow_smaller": True,
100
+ },
101
+ ([0, 0], [5, 5]),
102
+ ]
103
+ )
104
+
105
+
106
+ class TestGenerateSpatialBoundingBox(unittest.TestCase):
107
+ @parameterized.expand(TESTS)
108
+ def test_value(self, input_data, expected_box):
109
+ result = generate_spatial_bounding_box(**input_data)
110
+ self.assertTupleEqual(result, expected_box)
111
+
112
+
113
+ if __name__ == "__main__":
114
+ unittest.main()
@@ -0,0 +1,57 @@
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
+ from parameterized import parameterized
18
+
19
+ from monai.transforms import get_extreme_points
20
+ from tests.test_utils import TEST_NDARRAYS
21
+
22
+ TESTS = []
23
+ for p in TEST_NDARRAYS:
24
+ TESTS.append(
25
+ [
26
+ {
27
+ "img": p(np.array([[0, 1, 0], [0, 0, 1], [0, 1, 0], [1, 0, 0]])),
28
+ "rand_state": np.random,
29
+ "background": 0,
30
+ "pert": 0.0,
31
+ },
32
+ [(0, 1), (3, 0), (3, 0), (1, 2)],
33
+ ]
34
+ )
35
+
36
+ TESTS.append(
37
+ [
38
+ {
39
+ "img": p(np.array([[0, 1, 0], [1, 1, 1], [0, 1, 0], [0, 1, 0]])),
40
+ "rand_state": np.random,
41
+ "background": 0,
42
+ "pert": 0.0,
43
+ },
44
+ [(0, 1), (3, 1), (1, 0), (1, 2)],
45
+ ]
46
+ )
47
+
48
+
49
+ class TestGetExtremePoints(unittest.TestCase):
50
+ @parameterized.expand(TESTS)
51
+ def test_type_shape(self, input_data, expected):
52
+ result = get_extreme_points(**input_data)
53
+ self.assertEqual(result, expected)
54
+
55
+
56
+ if __name__ == "__main__":
57
+ unittest.main()
@@ -0,0 +1,75 @@
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 copy import deepcopy
16
+
17
+ import numpy as np
18
+ from parameterized import parameterized
19
+
20
+ from monai.data.synthetic import create_test_image_2d, create_test_image_3d
21
+ from monai.transforms import GibbsNoise
22
+ from monai.utils.misc import set_determinism
23
+ from monai.utils.module import optional_import
24
+ from tests.test_utils import TEST_NDARRAYS, assert_allclose
25
+
26
+ _, has_torch_fft = optional_import("torch.fft", name="fftshift")
27
+
28
+ TEST_CASES = []
29
+ for shape in ((128, 64), (64, 48, 80)):
30
+ for input_type in TEST_NDARRAYS if has_torch_fft else [np.array]:
31
+ TEST_CASES.append((shape, input_type))
32
+
33
+
34
+ class TestGibbsNoise(unittest.TestCase):
35
+ def setUp(self):
36
+ set_determinism(0)
37
+ super().setUp()
38
+
39
+ def tearDown(self):
40
+ set_determinism(None)
41
+
42
+ @staticmethod
43
+ def get_data(im_shape, input_type):
44
+ create_test_image = create_test_image_2d if len(im_shape) == 2 else create_test_image_3d
45
+ im = create_test_image(*im_shape, num_objs=4, rad_max=20, noise_max=0.0, num_seg_classes=5)[0][None]
46
+ return input_type(im)
47
+
48
+ @parameterized.expand(TEST_CASES)
49
+ def test_same_result(self, im_shape, input_type):
50
+ im = self.get_data(im_shape, input_type)
51
+ alpha = 0.8
52
+ t = GibbsNoise(alpha)
53
+ out1 = t(deepcopy(im))
54
+ out2 = t(deepcopy(im))
55
+ assert_allclose(out1, out2, rtol=1e-7, atol=0, type_test="tensor")
56
+
57
+ @parameterized.expand(TEST_CASES)
58
+ def test_identity(self, im_shape, input_type):
59
+ im = self.get_data(im_shape, input_type)
60
+ alpha = 0.0
61
+ t = GibbsNoise(alpha)
62
+ out = t(deepcopy(im))
63
+ assert_allclose(out, im, atol=1e-2, rtol=1e-7, type_test="tensor")
64
+
65
+ @parameterized.expand(TEST_CASES)
66
+ def test_alpha_1(self, im_shape, input_type):
67
+ im = self.get_data(im_shape, input_type)
68
+ alpha = 1.0
69
+ t = GibbsNoise(alpha)
70
+ out = t(deepcopy(im))
71
+ assert_allclose(out, 0 * im, rtol=1e-7, atol=0, type_test="tensor")
72
+
73
+
74
+ if __name__ == "__main__":
75
+ unittest.main()
@@ -0,0 +1,88 @@
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 copy import deepcopy
16
+
17
+ import numpy as np
18
+ from parameterized import parameterized
19
+
20
+ from monai.data.synthetic import create_test_image_2d, create_test_image_3d
21
+ from monai.transforms import GibbsNoised
22
+ from monai.utils.misc import set_determinism
23
+ from monai.utils.module import optional_import
24
+ from tests.test_utils import TEST_NDARRAYS, assert_allclose
25
+
26
+ _, has_torch_fft = optional_import("torch.fft", name="fftshift")
27
+
28
+ TEST_CASES = []
29
+ for shape in ((128, 64), (64, 48, 80)):
30
+ for input_type in TEST_NDARRAYS if has_torch_fft else [np.array]:
31
+ TEST_CASES.append((shape, input_type))
32
+ KEYS = ["im", "label"]
33
+
34
+
35
+ class TestGibbsNoised(unittest.TestCase):
36
+ def setUp(self):
37
+ set_determinism(0)
38
+ super().setUp()
39
+
40
+ def tearDown(self):
41
+ set_determinism(None)
42
+
43
+ @staticmethod
44
+ def get_data(im_shape, input_type):
45
+ create_test_image = create_test_image_2d if len(im_shape) == 2 else create_test_image_3d
46
+ ims = create_test_image(*im_shape, rad_max=20, noise_max=0.0, num_seg_classes=5)
47
+ return {k: input_type(deepcopy(v)) for k, v in zip(KEYS, ims)}
48
+
49
+ @parameterized.expand(TEST_CASES)
50
+ def test_same_result(self, im_shape, input_type):
51
+ data = self.get_data(im_shape, input_type)
52
+ alpha = 0.8
53
+ t = GibbsNoised(KEYS, alpha)
54
+ out1 = t(deepcopy(data))
55
+ out2 = t(deepcopy(data))
56
+ for k in KEYS:
57
+ assert_allclose(out1[k], out2[k], rtol=1e-7, atol=0, type_test="tensor")
58
+
59
+ @parameterized.expand(TEST_CASES)
60
+ def test_identity(self, im_shape, input_type):
61
+ data = self.get_data(im_shape, input_type)
62
+ alpha = 0.0
63
+ t = GibbsNoised(KEYS, alpha)
64
+ out = t(deepcopy(data))
65
+ for k in KEYS:
66
+ assert_allclose(out[k], data[k], atol=1e-2, type_test="tensor")
67
+
68
+ @parameterized.expand(TEST_CASES)
69
+ def test_alpha_1(self, im_shape, input_type):
70
+ data = self.get_data(im_shape, input_type)
71
+ alpha = 1.0
72
+ t = GibbsNoised(KEYS, alpha)
73
+ out = t(deepcopy(data))
74
+ for k in KEYS:
75
+ assert_allclose(out[k], 0.0 * data[k], atol=1e-2, type_test="tensor")
76
+
77
+ @parameterized.expand(TEST_CASES)
78
+ def test_dict_matches(self, im_shape, input_type):
79
+ data = self.get_data(im_shape, input_type)
80
+ data = {KEYS[0]: deepcopy(data[KEYS[0]]), KEYS[1]: deepcopy(data[KEYS[0]])}
81
+ alpha = 1.0
82
+ t = GibbsNoised(KEYS, alpha)
83
+ out = t(deepcopy(data))
84
+ assert_allclose(out[KEYS[0]], out[KEYS[1]], rtol=1e-7, atol=0, type_test="tensor")
85
+
86
+
87
+ if __name__ == "__main__":
88
+ unittest.main()
@@ -0,0 +1,113 @@
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
+ from parameterized import parameterized
18
+
19
+ from monai.transforms import GridDistortion
20
+ from tests.test_utils import TEST_NDARRAYS_ALL, assert_allclose
21
+
22
+ TESTS = []
23
+ for p in TEST_NDARRAYS_ALL:
24
+ TESTS.append(
25
+ [
26
+ dict(num_cells=3, distort_steps=[(1.5,) * 4] * 2, mode="nearest", padding_mode="zeros"),
27
+ p(np.indices([6, 6]).astype(np.float32)),
28
+ p(
29
+ np.array(
30
+ [
31
+ [
32
+ [0.0, 0.0, 0.0, 0.0, 0.0, 0.0],
33
+ [3.0, 3.0, 3.0, 0.0, 0.0, 0.0],
34
+ [3.0, 3.0, 3.0, 0.0, 0.0, 0.0],
35
+ [0.0, 0.0, 0.0, 0.0, 0.0, 0.0],
36
+ [0.0, 0.0, 0.0, 0.0, 0.0, 0.0],
37
+ [0.0, 0.0, 0.0, 0.0, 0.0, 0.0],
38
+ ],
39
+ [
40
+ [0.0, 3.0, 3.0, 0.0, 0.0, 0.0],
41
+ [0.0, 3.0, 3.0, 0.0, 0.0, 0.0],
42
+ [0.0, 3.0, 3.0, 0.0, 0.0, 0.0],
43
+ [0.0, 0.0, 0.0, 0.0, 0.0, 0.0],
44
+ [0.0, 0.0, 0.0, 0.0, 0.0, 0.0],
45
+ [0.0, 0.0, 0.0, 0.0, 0.0, 0.0],
46
+ ],
47
+ ]
48
+ ).astype(np.float32)
49
+ ),
50
+ ]
51
+ )
52
+ num_cells = (2, 2)
53
+ distort_steps = [(1.5,) * (1 + num_cells[0]), (1.0,) * (1 + num_cells[1])]
54
+ TESTS.append(
55
+ [
56
+ dict(num_cells=num_cells, distort_steps=distort_steps, mode="bilinear", padding_mode="reflection"),
57
+ p(np.indices([6, 6]).astype(np.float32)),
58
+ p(
59
+ np.array(
60
+ [
61
+ [
62
+ [0.0, 0.0, 0.0, 0.0, 0.0, 0.0],
63
+ [2.25, 2.25, 2.25, 2.25, 2.25, 2.25],
64
+ [4.5, 4.5, 4.5, 4.5, 4.5, 4.5],
65
+ [4.5, 4.5, 4.5, 4.5, 4.5, 4.5],
66
+ [4.2500, 4.2500, 4.2500, 4.2500, 4.2500, 4.2500],
67
+ [2.0, 2.0, 2.0, 2.0, 2.0, 2.0],
68
+ ],
69
+ [
70
+ [0.0, 1.5, 3.0, 3.0, 4.5, 5.0],
71
+ [0.0, 1.5, 3.0, 3.0, 4.5, 5.0],
72
+ [0.0, 1.5, 3.0, 3.0, 4.5, 5.0],
73
+ [0.0, 1.5, 3.0, 3.0, 4.5, 5.0],
74
+ [0.0, 1.5, 3.0, 3.0, 4.5, 5.0],
75
+ [0.0, 1.5, 3.0, 3.0, 4.5, 5.0],
76
+ ],
77
+ ]
78
+ ).astype(np.float32)
79
+ ),
80
+ ]
81
+ )
82
+ TESTS.append(
83
+ [
84
+ dict(num_cells=2, distort_steps=[(1.26,) * 3] * 3, mode="nearest", padding_mode="zeros"),
85
+ p(np.indices([3, 3, 3])[:1].astype(np.float32)),
86
+ p(
87
+ np.array(
88
+ [
89
+ [
90
+ [[0.0, 0.0, 0.0], [0.0, 0.0, 0.0], [0.0, 0.0, 0.0]],
91
+ [[1.0, 1.0, 0.0], [1.0, 1.0, 0.0], [0.0, 0.0, 0.0]],
92
+ [[0.0, 0.0, 0.0], [0.0, 0.0, 0.0], [0.0, 0.0, 0.0]],
93
+ ]
94
+ ]
95
+ ).astype(np.float32)
96
+ ),
97
+ ]
98
+ )
99
+
100
+
101
+ class TestGridDistortion(unittest.TestCase):
102
+ @parameterized.expand(TESTS)
103
+ def test_grid_distortion(self, input_param, input_data, expected_val):
104
+ g = GridDistortion(**input_param)
105
+ result = g(input_data)
106
+ if input_param["padding_mode"] != "reflection":
107
+ assert_allclose(result, expected_val, type_test=False, rtol=1e-4, atol=1e-4)
108
+ else:
109
+ assert_allclose(result.shape, expected_val.shape, type_test=False, rtol=1e-4, atol=1e-4)
110
+
111
+
112
+ if __name__ == "__main__":
113
+ unittest.main()
@@ -0,0 +1,87 @@
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
+ from parameterized import parameterized
18
+
19
+ from monai.transforms import GridDistortiond
20
+ from tests.test_utils import TEST_NDARRAYS_ALL, assert_allclose
21
+
22
+ TESTS = []
23
+ num_cells = (2, 2)
24
+ distort_steps = [(1.5,) * (1 + n_c) for n_c in num_cells]
25
+ for p in TEST_NDARRAYS_ALL:
26
+ img = np.indices([6, 6]).astype(np.float32)
27
+ TESTS.append(
28
+ [
29
+ dict(
30
+ keys=["img", "mask"],
31
+ num_cells=num_cells,
32
+ distort_steps=distort_steps,
33
+ mode=["bilinear", "nearest"],
34
+ padding_mode=["reflection", "zeros"],
35
+ ),
36
+ {"img": p(img), "mask": p(np.ones_like(img[:1]))},
37
+ p(
38
+ np.array(
39
+ [
40
+ [
41
+ [0.0, 0.0, 0.0, 0.0, 0.0, 0.0],
42
+ [2.25, 2.25, 2.25, 2.25, 2.25, 2.25],
43
+ [4.5, 4.5, 4.5, 4.5, 4.5, 4.5],
44
+ [4.5, 4.5, 4.5, 4.5, 4.5, 4.5],
45
+ [4.2500, 4.2500, 4.2500, 4.2500, 4.2500, 4.2500],
46
+ [2.0000, 2.0000, 2.0000, 2.0000, 2.0000, 2.0000],
47
+ ],
48
+ [
49
+ [0.0000, 2.2500, 4.5000, 4.5000, 4.2500, 2.0000],
50
+ [0.0000, 2.2500, 4.5000, 4.5000, 4.2500, 2.0000],
51
+ [0.0000, 2.2500, 4.5000, 4.5000, 4.2500, 2.0000],
52
+ [0.0000, 2.2500, 4.5000, 4.5000, 4.2500, 2.0000],
53
+ [0.0000, 2.2500, 4.5000, 4.5000, 4.2500, 2.0000],
54
+ [0.0000, 2.2500, 4.5000, 4.5000, 4.2500, 2.0000],
55
+ ],
56
+ ]
57
+ ).astype(np.float32)
58
+ ),
59
+ p(
60
+ np.array(
61
+ [
62
+ [
63
+ [1.0, 1.0, 1.0, 1.0, 0.0, 0.0],
64
+ [1.0, 1.0, 1.0, 1.0, 0.0, 0.0],
65
+ [1.0, 1.0, 1.0, 1.0, 0.0, 0.0],
66
+ [1.0, 1.0, 1.0, 1.0, 0.0, 0.0],
67
+ [0.0, 0.0, 0.0, 0.0, 0.0, 0.0],
68
+ [0.0, 0.0, 0.0, 0.0, 0.0, 0.0],
69
+ ]
70
+ ]
71
+ ).astype(np.float32)
72
+ ),
73
+ ]
74
+ )
75
+
76
+
77
+ class TestGridDistortiond(unittest.TestCase):
78
+ @parameterized.expand(TESTS)
79
+ def test_grid_distortiond(self, input_param, input_data, expected_val_img, expected_val_mask):
80
+ g = GridDistortiond(**input_param)
81
+ result = g(input_data)
82
+ assert_allclose(result["mask"], expected_val_mask, type_test=False, rtol=1e-4, atol=1e-4)
83
+ assert_allclose(result["img"].shape, expected_val_img.shape, type_test=False, rtol=1e-4, atol=1e-4)
84
+
85
+
86
+ if __name__ == "__main__":
87
+ unittest.main()