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 +1,81 @@
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 torch
17
+ from parameterized import parameterized
18
+
19
+ from monai.data import MetaTensor
20
+ from monai.transforms.utility.array import ApplyTransformToPoints
21
+ from monai.utils import set_determinism
22
+
23
+ set_determinism(seed=0)
24
+
25
+ DATA_2D = torch.rand(1, 64, 64)
26
+ DATA_3D = torch.rand(1, 64, 64, 64)
27
+ POINT_2D_WORLD = torch.tensor([[[2, 2], [2, 4], [4, 6]]])
28
+ POINT_2D_IMAGE = torch.tensor([[[1, 1], [1, 2], [2, 3]]])
29
+ POINT_2D_IMAGE_RAS = torch.tensor([[[-1, -1], [-1, -2], [-2, -3]]])
30
+ POINT_3D_WORLD = torch.tensor([[[2, 4, 6], [8, 10, 12]], [[14, 16, 18], [20, 22, 24]]])
31
+ POINT_3D_IMAGE = torch.tensor([[[-8, 8, 6], [-2, 14, 12]], [[4, 20, 18], [10, 26, 24]]])
32
+ POINT_3D_IMAGE_RAS = torch.tensor([[[-12, 0, 6], [-18, -6, 12]], [[-24, -12, 18], [-30, -18, 24]]])
33
+ AFFINE_1 = torch.tensor([[2, 0, 0, 0], [0, 2, 0, 0], [0, 0, 1, 0], [0, 0, 0, 1]])
34
+ AFFINE_2 = torch.tensor([[1, 0, 0, 10], [0, 1, 0, -4], [0, 0, 1, 0], [0, 0, 0, 1]])
35
+
36
+ TEST_CASES = [
37
+ [MetaTensor(DATA_2D, affine=AFFINE_1), POINT_2D_WORLD, None, True, False, POINT_2D_IMAGE],
38
+ [None, MetaTensor(POINT_2D_IMAGE, affine=AFFINE_1), None, False, False, POINT_2D_WORLD],
39
+ [None, MetaTensor(POINT_2D_IMAGE, affine=AFFINE_1), AFFINE_1, False, False, POINT_2D_WORLD],
40
+ [MetaTensor(DATA_2D, affine=AFFINE_1), POINT_2D_WORLD, None, True, True, POINT_2D_IMAGE_RAS],
41
+ [MetaTensor(DATA_3D, affine=AFFINE_2), POINT_3D_WORLD, None, True, False, POINT_3D_IMAGE],
42
+ [
43
+ MetaTensor(DATA_3D, affine=AFFINE_2),
44
+ MetaTensor(POINT_3D_IMAGE, affine=AFFINE_2),
45
+ None,
46
+ False,
47
+ False,
48
+ POINT_3D_WORLD,
49
+ ],
50
+ [MetaTensor(DATA_3D, affine=AFFINE_2), POINT_3D_WORLD, None, True, True, POINT_3D_IMAGE_RAS],
51
+ ]
52
+
53
+ TEST_CASES_WRONG = [
54
+ [POINT_2D_WORLD, True, None],
55
+ [POINT_2D_WORLD.unsqueeze(0), False, None],
56
+ [POINT_3D_WORLD[..., 0:1], False, None],
57
+ [POINT_3D_WORLD, False, torch.tensor([[[1, 0, 0, 10], [0, 1, 0, -4], [0, 0, 1, 0], [0, 0, 0, 1]]])],
58
+ ]
59
+
60
+
61
+ class TestCoordinateTransform(unittest.TestCase):
62
+ @parameterized.expand(TEST_CASES)
63
+ def test_transform_coordinates(self, image, points, affine, invert_affine, affine_lps_to_ras, expected_output):
64
+ transform = ApplyTransformToPoints(
65
+ dtype=torch.int64, affine=affine, invert_affine=invert_affine, affine_lps_to_ras=affine_lps_to_ras
66
+ )
67
+ affine = image.affine if image is not None else None
68
+ output = transform(points, affine)
69
+ self.assertTrue(torch.allclose(output, expected_output))
70
+ invert_out = transform.inverse(output)
71
+ self.assertTrue(torch.allclose(invert_out, points))
72
+
73
+ @parameterized.expand(TEST_CASES_WRONG)
74
+ def test_wrong_input(self, input, invert_affine, affine):
75
+ transform = ApplyTransformToPoints(dtype=torch.int64, invert_affine=invert_affine)
76
+ with self.assertRaises(ValueError):
77
+ transform(input, affine)
78
+
79
+
80
+ if __name__ == "__main__":
81
+ unittest.main()
@@ -0,0 +1,185 @@
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 torch
17
+ from parameterized import parameterized
18
+
19
+ from monai.data import MetaTensor
20
+ from monai.transforms.utility.dictionary import ApplyTransformToPointsd
21
+ from monai.utils import set_determinism
22
+
23
+ set_determinism(seed=0)
24
+
25
+ DATA_2D = torch.rand(1, 64, 64)
26
+ DATA_3D = torch.rand(1, 64, 64, 64)
27
+ POINT_2D_WORLD = torch.tensor([[[2, 2], [2, 4], [4, 6]]])
28
+ POINT_2D_IMAGE = torch.tensor([[[1, 1], [1, 2], [2, 3]]])
29
+ POINT_2D_IMAGE_RAS = torch.tensor([[[-1, -1], [-1, -2], [-2, -3]]])
30
+ POINT_3D_WORLD = torch.tensor([[[2, 4, 6], [8, 10, 12]], [[14, 16, 18], [20, 22, 24]]])
31
+ POINT_3D_IMAGE = torch.tensor([[[-8, 8, 6], [-2, 14, 12]], [[4, 20, 18], [10, 26, 24]]])
32
+ POINT_3D_IMAGE_RAS = torch.tensor([[[-12, 0, 6], [-18, -6, 12]], [[-24, -12, 18], [-30, -18, 24]]])
33
+ AFFINE_1 = torch.tensor([[2, 0, 0, 0], [0, 2, 0, 0], [0, 0, 1, 0], [0, 0, 0, 1]])
34
+ AFFINE_2 = torch.tensor([[1, 0, 0, 10], [0, 1, 0, -4], [0, 0, 1, 0], [0, 0, 0, 1]])
35
+
36
+ TEST_CASES = [
37
+ [MetaTensor(DATA_2D, affine=AFFINE_1), POINT_2D_WORLD, None, True, False, POINT_2D_IMAGE], # use image affine
38
+ [None, MetaTensor(POINT_2D_IMAGE, affine=AFFINE_1), None, False, False, POINT_2D_WORLD], # use point affine
39
+ [None, MetaTensor(POINT_2D_IMAGE, affine=AFFINE_1), AFFINE_1, False, False, POINT_2D_WORLD], # use input affine
40
+ [None, POINT_2D_WORLD, AFFINE_1, True, False, POINT_2D_IMAGE], # use input affine
41
+ [
42
+ MetaTensor(DATA_2D, affine=AFFINE_1),
43
+ POINT_2D_WORLD,
44
+ None,
45
+ True,
46
+ True,
47
+ POINT_2D_IMAGE_RAS,
48
+ ], # test affine_lps_to_ras
49
+ [MetaTensor(DATA_3D, affine=AFFINE_2), POINT_3D_WORLD, None, True, False, POINT_3D_IMAGE],
50
+ ["affine", POINT_3D_WORLD, None, True, False, POINT_3D_IMAGE], # use refer_data itself
51
+ [
52
+ MetaTensor(DATA_3D, affine=AFFINE_2),
53
+ MetaTensor(POINT_3D_IMAGE, affine=AFFINE_2),
54
+ None,
55
+ False,
56
+ False,
57
+ POINT_3D_WORLD,
58
+ ],
59
+ [MetaTensor(DATA_3D, affine=AFFINE_2), POINT_3D_WORLD, None, True, True, POINT_3D_IMAGE_RAS],
60
+ [MetaTensor(DATA_3D, affine=AFFINE_2), POINT_3D_WORLD, None, True, True, POINT_3D_IMAGE_RAS],
61
+ ]
62
+ TEST_CASES_SEQUENCE = [
63
+ [
64
+ (MetaTensor(DATA_2D, affine=AFFINE_1), MetaTensor(DATA_3D, affine=AFFINE_2)),
65
+ [POINT_2D_WORLD, POINT_3D_WORLD],
66
+ None,
67
+ True,
68
+ False,
69
+ ["image_1", "image_2"],
70
+ [POINT_2D_IMAGE, POINT_3D_IMAGE],
71
+ ], # use image affine
72
+ [
73
+ (MetaTensor(DATA_2D, affine=AFFINE_1), MetaTensor(DATA_3D, affine=AFFINE_2)),
74
+ [POINT_2D_WORLD, POINT_3D_WORLD],
75
+ None,
76
+ True,
77
+ True,
78
+ ["image_1", "image_2"],
79
+ [POINT_2D_IMAGE_RAS, POINT_3D_IMAGE_RAS],
80
+ ], # test affine_lps_to_ras
81
+ [
82
+ (None, None),
83
+ [MetaTensor(POINT_2D_IMAGE, affine=AFFINE_1), MetaTensor(POINT_3D_IMAGE, affine=AFFINE_2)],
84
+ None,
85
+ False,
86
+ False,
87
+ None,
88
+ [POINT_2D_WORLD, POINT_3D_WORLD],
89
+ ], # use point affine
90
+ [
91
+ (None, None),
92
+ [POINT_2D_WORLD, POINT_2D_WORLD],
93
+ AFFINE_1,
94
+ True,
95
+ False,
96
+ None,
97
+ [POINT_2D_IMAGE, POINT_2D_IMAGE],
98
+ ], # use input affine
99
+ [
100
+ (MetaTensor(DATA_2D, affine=AFFINE_1), MetaTensor(DATA_3D, affine=AFFINE_2)),
101
+ [MetaTensor(POINT_2D_IMAGE, affine=AFFINE_1), MetaTensor(POINT_3D_IMAGE, affine=AFFINE_2)],
102
+ None,
103
+ False,
104
+ False,
105
+ ["image_1", "image_2"],
106
+ [POINT_2D_WORLD, POINT_3D_WORLD],
107
+ ],
108
+ ]
109
+
110
+ TEST_CASES_WRONG = [
111
+ [POINT_2D_WORLD, True, None, None],
112
+ [POINT_2D_WORLD.unsqueeze(0), False, None, None],
113
+ [POINT_3D_WORLD[..., 0:1], False, None, None],
114
+ [POINT_3D_WORLD, False, torch.tensor([[[1, 0, 0, 10], [0, 1, 0, -4], [0, 0, 1, 0], [0, 0, 0, 1]]]), None],
115
+ [POINT_3D_WORLD, False, None, "image"],
116
+ [POINT_3D_WORLD, False, None, []],
117
+ ]
118
+
119
+
120
+ class TestCoordinateTransform(unittest.TestCase):
121
+ @parameterized.expand(TEST_CASES)
122
+ def test_transform_coordinates(self, image, points, affine, invert_affine, affine_lps_to_ras, expected_output):
123
+ data = {
124
+ "image": image,
125
+ "point": points,
126
+ "affine": torch.tensor([[1, 0, 0, 10], [0, 1, 0, -4], [0, 0, 1, 0], [0, 0, 0, 1]]),
127
+ }
128
+ refer_keys = "image" if (image is not None and image != "affine") else image
129
+ transform = ApplyTransformToPointsd(
130
+ keys="point",
131
+ refer_keys=refer_keys,
132
+ dtype=torch.int64,
133
+ affine=affine,
134
+ invert_affine=invert_affine,
135
+ affine_lps_to_ras=affine_lps_to_ras,
136
+ )
137
+ output = transform(data)
138
+
139
+ self.assertTrue(torch.allclose(output["point"], expected_output))
140
+ invert_out = transform.inverse(output)
141
+ self.assertTrue(torch.allclose(invert_out["point"], points))
142
+
143
+ @parameterized.expand(TEST_CASES_SEQUENCE)
144
+ def test_transform_coordinates_sequences(
145
+ self, image, points, affine, invert_affine, affine_lps_to_ras, refer_keys, expected_output
146
+ ):
147
+ data = {"image_1": image[0], "image_2": image[1], "point_1": points[0], "point_2": points[1]}
148
+ keys = ["point_1", "point_2"]
149
+ transform = ApplyTransformToPointsd(
150
+ keys=keys,
151
+ refer_keys=refer_keys,
152
+ dtype=torch.int64,
153
+ affine=affine,
154
+ invert_affine=invert_affine,
155
+ affine_lps_to_ras=affine_lps_to_ras,
156
+ )
157
+ output = transform(data)
158
+
159
+ self.assertTrue(torch.allclose(output["point_1"], expected_output[0]))
160
+ self.assertTrue(torch.allclose(output["point_2"], expected_output[1]))
161
+ invert_out = transform.inverse(output)
162
+ self.assertTrue(torch.allclose(invert_out["point_1"], points[0]))
163
+
164
+ @parameterized.expand(TEST_CASES_WRONG)
165
+ def test_wrong_input(self, input, invert_affine, affine, refer_keys):
166
+ if refer_keys == []:
167
+ with self.assertRaises(ValueError):
168
+ ApplyTransformToPointsd(
169
+ keys="point", dtype=torch.int64, invert_affine=invert_affine, affine=affine, refer_keys=refer_keys
170
+ )
171
+ else:
172
+ transform = ApplyTransformToPointsd(
173
+ keys="point", dtype=torch.int64, invert_affine=invert_affine, affine=affine, refer_keys=refer_keys
174
+ )
175
+ data = {"point": input}
176
+ if refer_keys == "image":
177
+ with self.assertRaises(KeyError):
178
+ transform(data)
179
+ else:
180
+ with self.assertRaises(ValueError):
181
+ transform(data)
182
+
183
+
184
+ if __name__ == "__main__":
185
+ unittest.main()
@@ -0,0 +1,29 @@
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
+ from monai.transforms.utility.array import Identity
17
+ from tests.test_utils import TEST_NDARRAYS, NumpyImageTestCase2D, assert_allclose
18
+
19
+
20
+ class TestIdentity(NumpyImageTestCase2D):
21
+ def test_identity(self):
22
+ for p in TEST_NDARRAYS:
23
+ img = p(self.imt)
24
+ identity = Identity()
25
+ assert_allclose(img, identity(img))
26
+
27
+
28
+ if __name__ == "__main__":
29
+ unittest.main()
@@ -0,0 +1,30 @@
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
+ from monai.transforms.utility.dictionary import Identityd
17
+ from tests.test_utils import TEST_NDARRAYS, NumpyImageTestCase2D, assert_allclose
18
+
19
+
20
+ class TestIdentityd(NumpyImageTestCase2D):
21
+ def test_identityd(self):
22
+ for p in TEST_NDARRAYS:
23
+ img = p(self.imt)
24
+ data = {"img": img}
25
+ identity = Identityd(keys=data.keys())
26
+ assert_allclose(img, identity(data)["img"])
27
+
28
+
29
+ if __name__ == "__main__":
30
+ unittest.main()
@@ -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
+
16
+ from numpy import ndarray
17
+ from torch import Tensor
18
+
19
+ from monai.data.meta_tensor import MetaTensor
20
+ from monai.transforms.utility.array import Lambda
21
+ from monai.utils.type_conversion import convert_to_numpy, convert_to_tensor
22
+ from tests.test_utils import TEST_NDARRAYS, NumpyImageTestCase2D, assert_allclose
23
+
24
+
25
+ class TestLambda(NumpyImageTestCase2D):
26
+ def test_lambda_identity(self):
27
+ for p in TEST_NDARRAYS:
28
+ img = p(self.imt)
29
+
30
+ def identity_func(x):
31
+ return x
32
+
33
+ lambd = Lambda(func=identity_func)
34
+ assert_allclose(identity_func(img), lambd(img), type_test=False)
35
+
36
+ def test_lambda_slicing(self):
37
+ for p in TEST_NDARRAYS:
38
+ img = p(self.imt)
39
+
40
+ def slice_func(x):
41
+ return x[:, :, :6, ::2]
42
+
43
+ lambd = Lambda(func=slice_func)
44
+ out = lambd(img)
45
+ assert_allclose(slice_func(img), out, type_test=False)
46
+ self.assertIsInstance(out, MetaTensor)
47
+ self.assertEqual(len(out.applied_operations), 1)
48
+ out = lambd.inverse(out)
49
+ self.assertEqual(len(out.applied_operations), 0)
50
+
51
+ def test_lambda_track_meta_false(self):
52
+ for p in TEST_NDARRAYS:
53
+ img = p(self.imt)
54
+
55
+ def to_numpy(x):
56
+ return convert_to_numpy(x)
57
+
58
+ lambd = Lambda(func=to_numpy, track_meta=False)
59
+ out = lambd(img)
60
+ self.assertIsInstance(out, ndarray)
61
+
62
+ def to_tensor(x):
63
+ return convert_to_tensor(x)
64
+
65
+ lambd = Lambda(func=to_tensor, track_meta=False)
66
+ out = lambd(img)
67
+ self.assertIsInstance(out, Tensor)
68
+
69
+
70
+ if __name__ == "__main__":
71
+ unittest.main()
@@ -0,0 +1,83 @@
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
+ from numpy import ndarray
17
+ from torch import Tensor
18
+
19
+ from monai.data.meta_tensor import MetaTensor
20
+ from monai.transforms.utility.dictionary import Lambdad
21
+ from monai.utils.type_conversion import convert_to_numpy, convert_to_tensor
22
+ from tests.test_utils import TEST_NDARRAYS, NumpyImageTestCase2D, assert_allclose
23
+
24
+
25
+ class TestLambdad(NumpyImageTestCase2D):
26
+ def test_lambdad_identity(self):
27
+ for p in TEST_NDARRAYS:
28
+ img = p(self.imt)
29
+ data = {"img": img, "prop": 1.0, "label": 1.0}
30
+
31
+ def noise_func(x):
32
+ return x + 1.0
33
+
34
+ expected = {"img": noise_func(data["img"]), "prop": 1.0, "new_label": 2.0}
35
+ ret = Lambdad(keys=["img", "prop", "label"], func=noise_func, overwrite=[True, False, "new_label"])(data)
36
+ assert_allclose(expected["img"], ret["img"], type_test=False)
37
+ assert_allclose(expected["prop"], ret["prop"], type_test=False)
38
+ assert_allclose(expected["new_label"], ret["new_label"], type_test=False)
39
+
40
+ def test_lambdad_slicing(self):
41
+ for p in TEST_NDARRAYS:
42
+ img = p(self.imt)
43
+ data = {"img": img}
44
+
45
+ def slice_func(x):
46
+ return x[:, :, :6, ::2]
47
+
48
+ lambd = Lambdad(keys=data.keys(), func=slice_func)
49
+ expected = {}
50
+ expected = slice_func(data["img"])
51
+ out = lambd(data)
52
+ out_img = out["img"]
53
+ assert_allclose(expected, out_img, type_test=False)
54
+ self.assertIsInstance(out_img, MetaTensor)
55
+ self.assertEqual(len(out_img.applied_operations), 1)
56
+ inv_img = lambd.inverse(out)["img"]
57
+ self.assertIsInstance(inv_img, MetaTensor)
58
+ self.assertEqual(len(inv_img.applied_operations), 0)
59
+
60
+ def test_lambdad_track_meta_false(self):
61
+ for p in TEST_NDARRAYS:
62
+ img = p(self.imt)
63
+ data = {"img": img}
64
+
65
+ def to_numpy(x):
66
+ return convert_to_numpy(x)
67
+
68
+ lambd = Lambdad(keys=data.keys(), func=to_numpy, track_meta=False)
69
+ out = lambd(data)
70
+ out_img = out["img"]
71
+ self.assertIsInstance(out_img, ndarray)
72
+
73
+ def to_tensor(x):
74
+ return convert_to_tensor(x)
75
+
76
+ lambd = Lambdad(keys=data.keys(), func=to_tensor, track_meta=False)
77
+ out = lambd(data)
78
+ out_img = out["img"]
79
+ self.assertIsInstance(out_img, Tensor)
80
+
81
+
82
+ if __name__ == "__main__":
83
+ 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
+ from copy import deepcopy
16
+
17
+ import numpy as np
18
+ from parameterized import parameterized
19
+
20
+ from monai.data.meta_tensor import MetaTensor
21
+ from monai.transforms.transform import Randomizable
22
+ from monai.transforms.utility.array import RandLambda
23
+ from tests.test_utils import TEST_NDARRAYS, assert_allclose
24
+
25
+
26
+ class RandTest(Randomizable):
27
+ """
28
+ randomisable transform for testing.
29
+ """
30
+
31
+ def randomize(self, data=None):
32
+ self._a = self.R.random()
33
+
34
+ def __call__(self, data):
35
+ self.randomize()
36
+ return deepcopy(data) + self._a
37
+
38
+
39
+ class TestRandLambda(unittest.TestCase):
40
+ def check(self, tr: RandLambda, img, img_orig_type, out, expected=None):
41
+ # input shouldn't change
42
+ self.assertIsInstance(img, img_orig_type)
43
+ if isinstance(img, MetaTensor):
44
+ self.assertEqual(len(img.applied_operations), 0)
45
+ # output data matches expected
46
+ assert_allclose(expected, out, type_test=False)
47
+ # output type is MetaTensor with 1 appended operation
48
+ self.assertIsInstance(out, MetaTensor)
49
+ self.assertEqual(len(out.applied_operations), 1)
50
+
51
+ # inverse
52
+ inv = tr.inverse(out)
53
+ # after inverse, input image remains unchanged
54
+ self.assertIsInstance(img, img_orig_type)
55
+ if isinstance(img, MetaTensor):
56
+ self.assertEqual(len(img.applied_operations), 0)
57
+ # after inverse, output is MetaTensor with 0 applied operations
58
+ self.assertIsInstance(inv, MetaTensor)
59
+ self.assertEqual(len(inv.applied_operations), 0)
60
+
61
+ @parameterized.expand([[p] for p in TEST_NDARRAYS])
62
+ def test_rand_lambdad_identity(self, t):
63
+ img = t(np.zeros((10, 10)))
64
+ img_t = type(img)
65
+
66
+ test_func = RandTest()
67
+ test_func.set_random_state(seed=134)
68
+ expected = test_func(img)
69
+ test_func.set_random_state(seed=134)
70
+
71
+ # default prob
72
+ tr = RandLambda(func=test_func)
73
+ ret = tr(img)
74
+ self.check(tr, img, img_t, ret, expected)
75
+
76
+ tr = RandLambda(func=test_func, prob=0.0)
77
+ ret = tr(img)
78
+ self.check(tr, img, img_t, ret, expected=img)
79
+
80
+ trans = RandLambda(func=test_func, prob=0.5)
81
+ trans.set_random_state(seed=123)
82
+ ret = trans(img)
83
+ self.check(trans, img, img_t, ret, expected=img)
84
+
85
+
86
+ if __name__ == "__main__":
87
+ unittest.main()
@@ -0,0 +1,77 @@
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.meta_tensor import MetaTensor
21
+ from monai.transforms.transform import Randomizable
22
+ from monai.transforms.utility.dictionary import RandLambdad
23
+ from tests.test_utils import TEST_NDARRAYS, assert_allclose
24
+
25
+
26
+ class RandTest(Randomizable):
27
+ """
28
+ randomisable transform for testing.
29
+ """
30
+
31
+ def randomize(self, data=None):
32
+ self._a = self.R.random()
33
+
34
+ def __call__(self, data):
35
+ self.randomize()
36
+ return data + self._a
37
+
38
+
39
+ class TestRandLambdad(unittest.TestCase):
40
+ def check(self, tr: RandLambdad, input: dict, out: dict, expected: dict):
41
+ if isinstance(input["img"], MetaTensor):
42
+ self.assertEqual(len(input["img"].applied_operations), 0)
43
+ self.assertIsInstance(out["img"], MetaTensor)
44
+ self.assertEqual(len(out["img"].applied_operations), 1)
45
+ assert_allclose(expected["img"], out["img"], type_test=False)
46
+ assert_allclose(expected["prop"], out["prop"], type_test=False)
47
+ inv = tr.inverse(out)
48
+ self.assertIsInstance(inv["img"], MetaTensor)
49
+ self.assertEqual(len(inv["img"].applied_operations), 0) # type: ignore
50
+
51
+ @parameterized.expand([[p] for p in TEST_NDARRAYS])
52
+ def test_rand_lambdad_identity(self, t):
53
+ img = t(np.zeros((10, 10)))
54
+ data = {"img": img, "prop": 1.0}
55
+
56
+ test_func = RandTest()
57
+ test_func.set_random_state(seed=134)
58
+ expected = {"img": test_func(data["img"]), "prop": 1.0}
59
+ test_func.set_random_state(seed=134)
60
+
61
+ # default prob
62
+ tr = RandLambdad(keys=["img", "prop"], func=test_func, overwrite=[True, False])
63
+ ret = tr(deepcopy(data))
64
+ self.check(tr, data, ret, expected)
65
+
66
+ tr = RandLambdad(keys=["img", "prop"], func=test_func, prob=0.0)
67
+ ret = tr(deepcopy(data))
68
+ self.check(tr, data, ret, expected=data)
69
+
70
+ trans = RandLambdad(keys=["img", "prop"], func=test_func, prob=0.5)
71
+ trans.set_random_state(seed=123)
72
+ ret = trans(deepcopy(data))
73
+ self.check(trans, data, ret, expected=data)
74
+
75
+
76
+ if __name__ == "__main__":
77
+ unittest.main()
@@ -0,0 +1,36 @@
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 time
15
+ import unittest
16
+
17
+ import numpy as np
18
+ from parameterized import parameterized
19
+
20
+ from monai.transforms.utility.array import SimulateDelay
21
+ from tests.test_utils import NumpyImageTestCase2D
22
+
23
+
24
+ class TestSimulateDelay(NumpyImageTestCase2D):
25
+ @parameterized.expand([(0.45,), (1,)])
26
+ def test_value(self, delay_test_time: float):
27
+ resize = SimulateDelay(delay_time=delay_test_time)
28
+ start: float = time.time()
29
+ _ = resize(self.imt[0])
30
+ stop: float = time.time()
31
+ measured_approximate: float = stop - start
32
+ np.testing.assert_allclose(delay_test_time, measured_approximate, rtol=0.5)
33
+
34
+
35
+ if __name__ == "__main__":
36
+ unittest.main()