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

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Files changed (779) hide show
  1. monai/__init__.py +1 -1
  2. monai/_version.py +3 -3
  3. monai/apps/auto3dseg/transforms.py +1 -4
  4. monai/data/meta_tensor.py +5 -0
  5. monai/data/utils.py +6 -13
  6. monai/inferers/utils.py +1 -2
  7. monai/losses/dice.py +2 -14
  8. monai/losses/ds_loss.py +1 -3
  9. monai/networks/layers/simplelayers.py +2 -14
  10. monai/networks/utils.py +4 -16
  11. monai/transforms/compose.py +28 -11
  12. monai/transforms/croppad/array.py +1 -6
  13. monai/transforms/io/array.py +0 -1
  14. monai/transforms/transform.py +15 -6
  15. monai/transforms/utils.py +1 -2
  16. monai/utils/jupyter_utils.py +1 -1
  17. monai/utils/tf32.py +0 -10
  18. monai/visualize/class_activation_maps.py +5 -8
  19. monai/visualize/img2tensorboard.py +2 -2
  20. {monai_weekly-1.5.dev2505.dist-info → monai_weekly-1.5.dev2507.dist-info}/METADATA +2 -2
  21. monai_weekly-1.5.dev2507.dist-info/RECORD +1181 -0
  22. {monai_weekly-1.5.dev2505.dist-info → monai_weekly-1.5.dev2507.dist-info}/top_level.txt +1 -0
  23. tests/apps/__init__.py +10 -0
  24. tests/apps/deepedit/__init__.py +10 -0
  25. tests/apps/deepedit/test_deepedit_transforms.py +314 -0
  26. tests/apps/deepgrow/__init__.py +10 -0
  27. tests/apps/deepgrow/test_deepgrow_dataset.py +109 -0
  28. tests/apps/deepgrow/transforms/__init__.py +10 -0
  29. tests/apps/deepgrow/transforms/test_deepgrow_interaction.py +97 -0
  30. tests/apps/deepgrow/transforms/test_deepgrow_transforms.py +556 -0
  31. tests/apps/detection/__init__.py +10 -0
  32. tests/apps/detection/metrics/__init__.py +10 -0
  33. tests/apps/detection/metrics/test_detection_coco_metrics.py +69 -0
  34. tests/apps/detection/networks/__init__.py +10 -0
  35. tests/apps/detection/networks/test_retinanet.py +210 -0
  36. tests/apps/detection/networks/test_retinanet_detector.py +203 -0
  37. tests/apps/detection/test_box_transform.py +370 -0
  38. tests/apps/detection/utils/__init__.py +10 -0
  39. tests/apps/detection/utils/test_anchor_box.py +88 -0
  40. tests/apps/detection/utils/test_atss_box_matcher.py +46 -0
  41. tests/apps/detection/utils/test_box_coder.py +43 -0
  42. tests/apps/detection/utils/test_detector_boxselector.py +67 -0
  43. tests/apps/detection/utils/test_detector_utils.py +96 -0
  44. tests/apps/detection/utils/test_hardnegsampler.py +54 -0
  45. tests/apps/nuclick/__init__.py +10 -0
  46. tests/apps/nuclick/test_nuclick_transforms.py +259 -0
  47. tests/apps/pathology/__init__.py +10 -0
  48. tests/apps/pathology/handlers/__init__.py +10 -0
  49. tests/apps/pathology/handlers/test_from_engine_hovernet.py +38 -0
  50. tests/apps/pathology/test_lesion_froc.py +333 -0
  51. tests/apps/pathology/test_pathology_prob_nms.py +55 -0
  52. tests/apps/pathology/test_prepare_batch_hovernet.py +70 -0
  53. tests/apps/pathology/test_sliding_window_hovernet_inference.py +303 -0
  54. tests/apps/pathology/transforms/__init__.py +10 -0
  55. tests/apps/pathology/transforms/post/__init__.py +10 -0
  56. tests/apps/pathology/transforms/post/test_generate_distance_map.py +51 -0
  57. tests/apps/pathology/transforms/post/test_generate_distance_mapd.py +70 -0
  58. tests/apps/pathology/transforms/post/test_generate_instance_border.py +49 -0
  59. tests/apps/pathology/transforms/post/test_generate_instance_borderd.py +59 -0
  60. tests/apps/pathology/transforms/post/test_generate_instance_centroid.py +53 -0
  61. tests/apps/pathology/transforms/post/test_generate_instance_centroidd.py +56 -0
  62. tests/apps/pathology/transforms/post/test_generate_instance_contour.py +58 -0
  63. tests/apps/pathology/transforms/post/test_generate_instance_contourd.py +61 -0
  64. tests/apps/pathology/transforms/post/test_generate_instance_type.py +51 -0
  65. tests/apps/pathology/transforms/post/test_generate_instance_typed.py +53 -0
  66. tests/apps/pathology/transforms/post/test_generate_succinct_contour.py +55 -0
  67. tests/apps/pathology/transforms/post/test_generate_succinct_contourd.py +57 -0
  68. tests/apps/pathology/transforms/post/test_generate_watershed_markers.py +53 -0
  69. tests/apps/pathology/transforms/post/test_generate_watershed_markersd.py +83 -0
  70. tests/apps/pathology/transforms/post/test_generate_watershed_mask.py +77 -0
  71. tests/apps/pathology/transforms/post/test_generate_watershed_maskd.py +77 -0
  72. tests/apps/pathology/transforms/post/test_hovernet_instance_map_post_processing.py +61 -0
  73. tests/apps/pathology/transforms/post/test_hovernet_instance_map_post_processingd.py +66 -0
  74. tests/apps/pathology/transforms/post/test_hovernet_nuclear_type_post_processing.py +66 -0
  75. tests/apps/pathology/transforms/post/test_watershed.py +60 -0
  76. tests/apps/pathology/transforms/post/test_watershedd.py +70 -0
  77. tests/apps/pathology/transforms/test_pathology_he_stain.py +230 -0
  78. tests/apps/pathology/transforms/test_pathology_he_stain_dict.py +225 -0
  79. tests/apps/reconstruction/__init__.py +10 -0
  80. tests/apps/reconstruction/nets/__init__.py +10 -0
  81. tests/apps/reconstruction/nets/test_recon_net_utils.py +82 -0
  82. tests/apps/reconstruction/test_complex_utils.py +77 -0
  83. tests/apps/reconstruction/test_fastmri_reader.py +82 -0
  84. tests/apps/reconstruction/test_mri_utils.py +37 -0
  85. tests/apps/reconstruction/transforms/__init__.py +10 -0
  86. tests/apps/reconstruction/transforms/test_kspace_mask.py +50 -0
  87. tests/apps/reconstruction/transforms/test_reference_based_normalize_intensity.py +77 -0
  88. tests/apps/reconstruction/transforms/test_reference_based_spatial_cropd.py +57 -0
  89. tests/apps/test_auto3dseg_bundlegen.py +156 -0
  90. tests/apps/test_check_hash.py +53 -0
  91. tests/apps/test_cross_validation.py +74 -0
  92. tests/apps/test_decathlondataset.py +93 -0
  93. tests/apps/test_download_and_extract.py +70 -0
  94. tests/apps/test_download_url_yandex.py +45 -0
  95. tests/apps/test_mednistdataset.py +72 -0
  96. tests/apps/test_mmar_download.py +154 -0
  97. tests/apps/test_tciadataset.py +123 -0
  98. tests/apps/vista3d/__init__.py +10 -0
  99. tests/apps/vista3d/test_point_based_window_inferer.py +77 -0
  100. tests/apps/vista3d/test_vista3d_sampler.py +100 -0
  101. tests/apps/vista3d/test_vista3d_transforms.py +94 -0
  102. tests/bundle/__init__.py +10 -0
  103. tests/bundle/test_bundle_ckpt_export.py +107 -0
  104. tests/bundle/test_bundle_download.py +435 -0
  105. tests/bundle/test_bundle_get_data.py +94 -0
  106. tests/bundle/test_bundle_push_to_hf_hub.py +41 -0
  107. tests/bundle/test_bundle_trt_export.py +147 -0
  108. tests/bundle/test_bundle_utils.py +149 -0
  109. tests/bundle/test_bundle_verify_metadata.py +66 -0
  110. tests/bundle/test_bundle_verify_net.py +76 -0
  111. tests/bundle/test_bundle_workflow.py +272 -0
  112. tests/bundle/test_component_locator.py +38 -0
  113. tests/bundle/test_config_item.py +138 -0
  114. tests/bundle/test_config_parser.py +392 -0
  115. tests/bundle/test_reference_resolver.py +114 -0
  116. tests/config/__init__.py +10 -0
  117. tests/config/test_cv2_dist.py +53 -0
  118. tests/engines/__init__.py +10 -0
  119. tests/engines/test_ensemble_evaluator.py +94 -0
  120. tests/engines/test_prepare_batch_default.py +76 -0
  121. tests/engines/test_prepare_batch_default_dist.py +76 -0
  122. tests/engines/test_prepare_batch_diffusion.py +104 -0
  123. tests/engines/test_prepare_batch_extra_input.py +80 -0
  124. tests/fl/__init__.py +10 -0
  125. tests/fl/monai_algo/__init__.py +10 -0
  126. tests/fl/monai_algo/test_fl_monai_algo.py +251 -0
  127. tests/fl/monai_algo/test_fl_monai_algo_dist.py +117 -0
  128. tests/fl/test_fl_monai_algo_stats.py +81 -0
  129. tests/fl/utils/__init__.py +10 -0
  130. tests/fl/utils/test_fl_exchange_object.py +63 -0
  131. tests/handlers/__init__.py +10 -0
  132. tests/handlers/test_handler_checkpoint_loader.py +182 -0
  133. tests/handlers/test_handler_checkpoint_saver.py +233 -0
  134. tests/handlers/test_handler_classification_saver.py +64 -0
  135. tests/handlers/test_handler_classification_saver_dist.py +77 -0
  136. tests/handlers/test_handler_clearml_image.py +65 -0
  137. tests/handlers/test_handler_clearml_stats.py +65 -0
  138. tests/handlers/test_handler_confusion_matrix.py +104 -0
  139. tests/handlers/test_handler_confusion_matrix_dist.py +70 -0
  140. tests/handlers/test_handler_decollate_batch.py +66 -0
  141. tests/handlers/test_handler_early_stop.py +68 -0
  142. tests/handlers/test_handler_garbage_collector.py +73 -0
  143. tests/handlers/test_handler_hausdorff_distance.py +111 -0
  144. tests/handlers/test_handler_ignite_metric.py +191 -0
  145. tests/handlers/test_handler_lr_scheduler.py +94 -0
  146. tests/handlers/test_handler_mean_dice.py +98 -0
  147. tests/handlers/test_handler_mean_iou.py +76 -0
  148. tests/handlers/test_handler_metrics_reloaded.py +149 -0
  149. tests/handlers/test_handler_metrics_saver.py +89 -0
  150. tests/handlers/test_handler_metrics_saver_dist.py +120 -0
  151. tests/handlers/test_handler_mlflow.py +296 -0
  152. tests/handlers/test_handler_nvtx.py +93 -0
  153. tests/handlers/test_handler_panoptic_quality.py +89 -0
  154. tests/handlers/test_handler_parameter_scheduler.py +136 -0
  155. tests/handlers/test_handler_post_processing.py +74 -0
  156. tests/handlers/test_handler_prob_map_producer.py +111 -0
  157. tests/handlers/test_handler_regression_metrics.py +160 -0
  158. tests/handlers/test_handler_regression_metrics_dist.py +245 -0
  159. tests/handlers/test_handler_rocauc.py +48 -0
  160. tests/handlers/test_handler_rocauc_dist.py +54 -0
  161. tests/handlers/test_handler_stats.py +281 -0
  162. tests/handlers/test_handler_surface_distance.py +113 -0
  163. tests/handlers/test_handler_tb_image.py +61 -0
  164. tests/handlers/test_handler_tb_stats.py +166 -0
  165. tests/handlers/test_handler_validation.py +59 -0
  166. tests/handlers/test_trt_compile.py +145 -0
  167. tests/handlers/test_write_metrics_reports.py +68 -0
  168. tests/inferers/__init__.py +10 -0
  169. tests/inferers/test_avg_merger.py +179 -0
  170. tests/inferers/test_controlnet_inferers.py +1310 -0
  171. tests/inferers/test_diffusion_inferer.py +236 -0
  172. tests/inferers/test_latent_diffusion_inferer.py +824 -0
  173. tests/inferers/test_patch_inferer.py +309 -0
  174. tests/inferers/test_saliency_inferer.py +55 -0
  175. tests/inferers/test_slice_inferer.py +57 -0
  176. tests/inferers/test_sliding_window_inference.py +377 -0
  177. tests/inferers/test_sliding_window_splitter.py +284 -0
  178. tests/inferers/test_wsi_sliding_window_splitter.py +249 -0
  179. tests/inferers/test_zarr_avg_merger.py +326 -0
  180. tests/integration/__init__.py +10 -0
  181. tests/integration/test_auto3dseg_ensemble.py +211 -0
  182. tests/integration/test_auto3dseg_hpo.py +189 -0
  183. tests/integration/test_deepedit_interaction.py +122 -0
  184. tests/integration/test_downsample_block.py +50 -0
  185. tests/integration/test_hovernet_nuclear_type_post_processingd.py +71 -0
  186. tests/integration/test_integration_autorunner.py +201 -0
  187. tests/integration/test_integration_bundle_run.py +240 -0
  188. tests/integration/test_integration_classification_2d.py +282 -0
  189. tests/integration/test_integration_determinism.py +95 -0
  190. tests/integration/test_integration_fast_train.py +231 -0
  191. tests/integration/test_integration_gpu_customization.py +159 -0
  192. tests/integration/test_integration_lazy_samples.py +219 -0
  193. tests/integration/test_integration_nnunetv2_runner.py +96 -0
  194. tests/integration/test_integration_segmentation_3d.py +304 -0
  195. tests/integration/test_integration_sliding_window.py +100 -0
  196. tests/integration/test_integration_stn.py +133 -0
  197. tests/integration/test_integration_unet_2d.py +67 -0
  198. tests/integration/test_integration_workers.py +61 -0
  199. tests/integration/test_integration_workflows.py +365 -0
  200. tests/integration/test_integration_workflows_adversarial.py +173 -0
  201. tests/integration/test_integration_workflows_gan.py +158 -0
  202. tests/integration/test_loader_semaphore.py +48 -0
  203. tests/integration/test_mapping_filed.py +122 -0
  204. tests/integration/test_meta_affine.py +183 -0
  205. tests/integration/test_metatensor_integration.py +114 -0
  206. tests/integration/test_module_list.py +76 -0
  207. tests/integration/test_one_of.py +283 -0
  208. tests/integration/test_pad_collation.py +124 -0
  209. tests/integration/test_reg_loss_integration.py +107 -0
  210. tests/integration/test_retinanet_predict_utils.py +154 -0
  211. tests/integration/test_seg_loss_integration.py +159 -0
  212. tests/integration/test_spatial_combine_transforms.py +185 -0
  213. tests/integration/test_testtimeaugmentation.py +186 -0
  214. tests/integration/test_vis_gradbased.py +69 -0
  215. tests/integration/test_vista3d_utils.py +159 -0
  216. tests/losses/__init__.py +10 -0
  217. tests/losses/deform/__init__.py +10 -0
  218. tests/losses/deform/test_bending_energy.py +88 -0
  219. tests/losses/deform/test_diffusion_loss.py +117 -0
  220. tests/losses/image_dissimilarity/__init__.py +10 -0
  221. tests/losses/image_dissimilarity/test_global_mutual_information_loss.py +150 -0
  222. tests/losses/image_dissimilarity/test_local_normalized_cross_correlation_loss.py +162 -0
  223. tests/losses/test_adversarial_loss.py +94 -0
  224. tests/losses/test_barlow_twins_loss.py +109 -0
  225. tests/losses/test_cldice_loss.py +51 -0
  226. tests/losses/test_contrastive_loss.py +86 -0
  227. tests/losses/test_dice_ce_loss.py +123 -0
  228. tests/losses/test_dice_focal_loss.py +124 -0
  229. tests/losses/test_dice_loss.py +227 -0
  230. tests/losses/test_ds_loss.py +189 -0
  231. tests/losses/test_focal_loss.py +379 -0
  232. tests/losses/test_generalized_dice_focal_loss.py +85 -0
  233. tests/losses/test_generalized_dice_loss.py +221 -0
  234. tests/losses/test_generalized_wasserstein_dice_loss.py +234 -0
  235. tests/losses/test_giou_loss.py +62 -0
  236. tests/losses/test_hausdorff_loss.py +264 -0
  237. tests/losses/test_masked_dice_loss.py +152 -0
  238. tests/losses/test_masked_loss.py +87 -0
  239. tests/losses/test_multi_scale.py +86 -0
  240. tests/losses/test_nacl_loss.py +167 -0
  241. tests/losses/test_perceptual_loss.py +122 -0
  242. tests/losses/test_spectral_loss.py +86 -0
  243. tests/losses/test_ssim_loss.py +59 -0
  244. tests/losses/test_sure_loss.py +72 -0
  245. tests/losses/test_tversky_loss.py +198 -0
  246. tests/losses/test_unified_focal_loss.py +66 -0
  247. tests/metrics/__init__.py +10 -0
  248. tests/metrics/test_compute_confusion_matrix.py +294 -0
  249. tests/metrics/test_compute_f_beta.py +80 -0
  250. tests/metrics/test_compute_fid_metric.py +40 -0
  251. tests/metrics/test_compute_froc.py +143 -0
  252. tests/metrics/test_compute_generalized_dice.py +240 -0
  253. tests/metrics/test_compute_meandice.py +306 -0
  254. tests/metrics/test_compute_meaniou.py +223 -0
  255. tests/metrics/test_compute_mmd_metric.py +56 -0
  256. tests/metrics/test_compute_multiscalessim_metric.py +83 -0
  257. tests/metrics/test_compute_panoptic_quality.py +113 -0
  258. tests/metrics/test_compute_regression_metrics.py +196 -0
  259. tests/metrics/test_compute_roc_auc.py +155 -0
  260. tests/metrics/test_compute_variance.py +147 -0
  261. tests/metrics/test_cumulative.py +63 -0
  262. tests/metrics/test_cumulative_average.py +74 -0
  263. tests/metrics/test_cumulative_average_dist.py +48 -0
  264. tests/metrics/test_hausdorff_distance.py +209 -0
  265. tests/metrics/test_label_quality_score.py +134 -0
  266. tests/metrics/test_loss_metric.py +57 -0
  267. tests/metrics/test_metrics_reloaded.py +96 -0
  268. tests/metrics/test_ssim_metric.py +78 -0
  269. tests/metrics/test_surface_dice.py +416 -0
  270. tests/metrics/test_surface_distance.py +186 -0
  271. tests/networks/__init__.py +10 -0
  272. tests/networks/blocks/__init__.py +10 -0
  273. tests/networks/blocks/dints_block/__init__.py +10 -0
  274. tests/networks/blocks/dints_block/test_acn_block.py +41 -0
  275. tests/networks/blocks/dints_block/test_factorized_increase.py +37 -0
  276. tests/networks/blocks/dints_block/test_factorized_reduce.py +37 -0
  277. tests/networks/blocks/dints_block/test_p3d_block.py +78 -0
  278. tests/networks/blocks/test_adn.py +86 -0
  279. tests/networks/blocks/test_convolutions.py +156 -0
  280. tests/networks/blocks/test_crf_cpu.py +513 -0
  281. tests/networks/blocks/test_crf_cuda.py +528 -0
  282. tests/networks/blocks/test_crossattention.py +185 -0
  283. tests/networks/blocks/test_denseblock.py +105 -0
  284. tests/networks/blocks/test_dynunet_block.py +116 -0
  285. tests/networks/blocks/test_fpn_block.py +88 -0
  286. tests/networks/blocks/test_localnet_block.py +121 -0
  287. tests/networks/blocks/test_mlp.py +78 -0
  288. tests/networks/blocks/test_patchembedding.py +212 -0
  289. tests/networks/blocks/test_regunet_block.py +103 -0
  290. tests/networks/blocks/test_se_block.py +85 -0
  291. tests/networks/blocks/test_se_blocks.py +78 -0
  292. tests/networks/blocks/test_segresnet_block.py +57 -0
  293. tests/networks/blocks/test_selfattention.py +232 -0
  294. tests/networks/blocks/test_simple_aspp.py +87 -0
  295. tests/networks/blocks/test_spatialattention.py +55 -0
  296. tests/networks/blocks/test_subpixel_upsample.py +87 -0
  297. tests/networks/blocks/test_text_encoding.py +49 -0
  298. tests/networks/blocks/test_transformerblock.py +90 -0
  299. tests/networks/blocks/test_unetr_block.py +158 -0
  300. tests/networks/blocks/test_upsample_block.py +134 -0
  301. tests/networks/blocks/warp/__init__.py +10 -0
  302. tests/networks/blocks/warp/test_dvf2ddf.py +72 -0
  303. tests/networks/blocks/warp/test_warp.py +250 -0
  304. tests/networks/layers/__init__.py +10 -0
  305. tests/networks/layers/filtering/__init__.py +10 -0
  306. tests/networks/layers/filtering/test_bilateral_approx_cpu.py +399 -0
  307. tests/networks/layers/filtering/test_bilateral_approx_cuda.py +404 -0
  308. tests/networks/layers/filtering/test_bilateral_precise.py +437 -0
  309. tests/networks/layers/filtering/test_phl_cpu.py +259 -0
  310. tests/networks/layers/filtering/test_phl_cuda.py +167 -0
  311. tests/networks/layers/filtering/test_trainable_bilateral.py +474 -0
  312. tests/networks/layers/filtering/test_trainable_joint_bilateral.py +609 -0
  313. tests/networks/layers/test_affine_transform.py +385 -0
  314. tests/networks/layers/test_apply_filter.py +89 -0
  315. tests/networks/layers/test_channel_pad.py +51 -0
  316. tests/networks/layers/test_conjugate_gradient.py +56 -0
  317. tests/networks/layers/test_drop_path.py +46 -0
  318. tests/networks/layers/test_gaussian.py +317 -0
  319. tests/networks/layers/test_gaussian_filter.py +206 -0
  320. tests/networks/layers/test_get_layers.py +65 -0
  321. tests/networks/layers/test_gmm.py +314 -0
  322. tests/networks/layers/test_grid_pull.py +93 -0
  323. tests/networks/layers/test_hilbert_transform.py +131 -0
  324. tests/networks/layers/test_lltm.py +62 -0
  325. tests/networks/layers/test_median_filter.py +52 -0
  326. tests/networks/layers/test_polyval.py +55 -0
  327. tests/networks/layers/test_preset_filters.py +136 -0
  328. tests/networks/layers/test_savitzky_golay_filter.py +141 -0
  329. tests/networks/layers/test_separable_filter.py +87 -0
  330. tests/networks/layers/test_skip_connection.py +48 -0
  331. tests/networks/layers/test_vector_quantizer.py +89 -0
  332. tests/networks/layers/test_weight_init.py +50 -0
  333. tests/networks/nets/__init__.py +10 -0
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  680. tests/transforms/test_spatial_resample.py +235 -0
  681. tests/transforms/test_squeezedim.py +62 -0
  682. tests/transforms/test_squeezedimd.py +98 -0
  683. tests/transforms/test_std_shift_intensity.py +76 -0
  684. tests/transforms/test_std_shift_intensityd.py +74 -0
  685. tests/transforms/test_threshold_intensity.py +38 -0
  686. tests/transforms/test_threshold_intensityd.py +58 -0
  687. tests/transforms/test_to_contiguous.py +47 -0
  688. tests/transforms/test_to_cupy.py +112 -0
  689. tests/transforms/test_to_cupyd.py +76 -0
  690. tests/transforms/test_to_device.py +42 -0
  691. tests/transforms/test_to_deviced.py +37 -0
  692. tests/transforms/test_to_numpy.py +85 -0
  693. tests/transforms/test_to_numpyd.py +68 -0
  694. tests/transforms/test_to_pil.py +52 -0
  695. tests/transforms/test_to_pild.py +50 -0
  696. tests/transforms/test_to_tensor.py +60 -0
  697. tests/transforms/test_to_tensord.py +71 -0
  698. tests/transforms/test_torchvision.py +66 -0
  699. tests/transforms/test_torchvisiond.py +63 -0
  700. tests/transforms/test_transform.py +62 -0
  701. tests/transforms/test_transpose.py +41 -0
  702. tests/transforms/test_transposed.py +52 -0
  703. tests/transforms/test_ultrasound_confidence_map_transform.py +711 -0
  704. tests/transforms/test_utils_pytorch_numpy_unification.py +90 -0
  705. tests/transforms/test_vote_ensemble.py +84 -0
  706. tests/transforms/test_vote_ensembled.py +107 -0
  707. tests/transforms/test_with_allow_missing_keys.py +76 -0
  708. tests/transforms/test_zoom.py +120 -0
  709. tests/transforms/test_zoomd.py +94 -0
  710. tests/transforms/transform/__init__.py +10 -0
  711. tests/transforms/transform/test_randomizable.py +52 -0
  712. tests/transforms/transform/test_randomizable_transform_type.py +37 -0
  713. tests/transforms/utility/__init__.py +10 -0
  714. tests/transforms/utility/test_apply_transform_to_points.py +81 -0
  715. tests/transforms/utility/test_apply_transform_to_pointsd.py +185 -0
  716. tests/transforms/utility/test_identity.py +29 -0
  717. tests/transforms/utility/test_identityd.py +30 -0
  718. tests/transforms/utility/test_lambda.py +71 -0
  719. tests/transforms/utility/test_lambdad.py +83 -0
  720. tests/transforms/utility/test_rand_lambda.py +87 -0
  721. tests/transforms/utility/test_rand_lambdad.py +77 -0
  722. tests/transforms/utility/test_simulatedelay.py +36 -0
  723. tests/transforms/utility/test_simulatedelayd.py +36 -0
  724. tests/transforms/utility/test_splitdim.py +52 -0
  725. tests/transforms/utility/test_splitdimd.py +96 -0
  726. tests/transforms/utils/__init__.py +10 -0
  727. tests/transforms/utils/test_correct_crop_centers.py +36 -0
  728. tests/transforms/utils/test_get_unique_labels.py +45 -0
  729. tests/transforms/utils/test_print_transform_backends.py +29 -0
  730. tests/transforms/utils/test_soft_clip.py +125 -0
  731. tests/utils/__init__.py +10 -0
  732. tests/utils/enums/__init__.py +10 -0
  733. tests/utils/enums/test_hovernet_loss.py +190 -0
  734. tests/utils/enums/test_ordering.py +289 -0
  735. tests/utils/enums/test_wsireader.py +663 -0
  736. tests/utils/misc/__init__.py +10 -0
  737. tests/utils/misc/test_ensure_tuple.py +53 -0
  738. tests/utils/misc/test_monai_env_vars.py +44 -0
  739. tests/utils/misc/test_monai_utils_misc.py +103 -0
  740. tests/utils/misc/test_str2bool.py +34 -0
  741. tests/utils/misc/test_str2list.py +33 -0
  742. tests/utils/test_alias.py +44 -0
  743. tests/utils/test_component_store.py +73 -0
  744. tests/utils/test_deprecated.py +455 -0
  745. tests/utils/test_enum_bound_interp.py +75 -0
  746. tests/utils/test_evenly_divisible_all_gather_dist.py +50 -0
  747. tests/utils/test_get_package_version.py +34 -0
  748. tests/utils/test_handler_logfile.py +84 -0
  749. tests/utils/test_handler_metric_logger.py +62 -0
  750. tests/utils/test_list_to_dict.py +43 -0
  751. tests/utils/test_look_up_option.py +87 -0
  752. tests/utils/test_optional_import.py +80 -0
  753. tests/utils/test_pad_mode.py +39 -0
  754. tests/utils/test_profiling.py +208 -0
  755. tests/utils/test_rankfilter_dist.py +77 -0
  756. tests/utils/test_require_pkg.py +83 -0
  757. tests/utils/test_sample_slices.py +43 -0
  758. tests/utils/test_set_determinism.py +74 -0
  759. tests/utils/test_squeeze_unsqueeze.py +71 -0
  760. tests/utils/test_state_cacher.py +67 -0
  761. tests/utils/test_torchscript_utils.py +113 -0
  762. tests/utils/test_version.py +91 -0
  763. tests/utils/test_version_after.py +65 -0
  764. tests/utils/type_conversion/__init__.py +10 -0
  765. tests/utils/type_conversion/test_convert_data_type.py +152 -0
  766. tests/utils/type_conversion/test_get_equivalent_dtype.py +65 -0
  767. tests/utils/type_conversion/test_safe_dtype_range.py +99 -0
  768. tests/visualize/__init__.py +10 -0
  769. tests/visualize/test_img2tensorboard.py +46 -0
  770. tests/visualize/test_occlusion_sensitivity.py +128 -0
  771. tests/visualize/test_plot_2d_or_3d_image.py +74 -0
  772. tests/visualize/test_vis_cam.py +98 -0
  773. tests/visualize/test_vis_gradcam.py +211 -0
  774. tests/visualize/utils/__init__.py +10 -0
  775. tests/visualize/utils/test_blend_images.py +63 -0
  776. tests/visualize/utils/test_matshow3d.py +133 -0
  777. monai_weekly-1.5.dev2505.dist-info/RECORD +0 -427
  778. {monai_weekly-1.5.dev2505.dist-info → monai_weekly-1.5.dev2507.dist-info}/LICENSE +0 -0
  779. {monai_weekly-1.5.dev2505.dist-info → monai_weekly-1.5.dev2507.dist-info}/WHEEL +0 -0
@@ -0,0 +1,124 @@
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 platform
15
+ import unittest
16
+
17
+ import numpy as np
18
+ import torch
19
+ from parameterized import parameterized
20
+
21
+ from monai.data.meta_tensor import MetaTensor
22
+ from monai.data.utils import to_affine_nd
23
+ from monai.transforms.spatial.dictionary import SpatialResampled
24
+ from tests.lazy_transforms_utils import test_resampler_lazy
25
+ from tests.test_utils import TEST_DEVICES, assert_allclose
26
+
27
+ ON_AARCH64 = platform.machine() == "aarch64"
28
+ if ON_AARCH64:
29
+ rtol, atol = 1e-1, 1e-2
30
+ else:
31
+ rtol, atol = 1e-3, 1e-4
32
+
33
+ TESTS = []
34
+
35
+ destinations_3d = [
36
+ torch.tensor([[1.0, 0.0, 0.0, 0.0], [0.0, -1.0, 0.0, 1.0], [0.0, 0.0, 1.0, 0.0], [0.0, 0.0, 0.0, 1.0]]),
37
+ torch.tensor([[-1.0, 0.0, 0.0, 1.0], [0.0, 1.0, 0.0, 0.0], [0.0, 0.0, 1.0, 0.0], [0.0, 0.0, 0.0, 1.0]]),
38
+ ]
39
+ expected_3d = [
40
+ torch.tensor([[[[4.0, 5.0, 6.0], [1.0, 2.0, 3.0]], [[10.0, 11.0, 12.0], [7.0, 8.0, 9.0]]]]),
41
+ torch.tensor([[[[7.0, 8.0, 9.0], [10.0, 11.0, 12.0]], [[1.0, 2.0, 3.0], [4.0, 5.0, 6.0]]]]),
42
+ ]
43
+
44
+ for dst, expct in zip(destinations_3d, expected_3d):
45
+ for device in TEST_DEVICES:
46
+ for align in (True, False):
47
+ for dtype in (torch.float32, torch.float64):
48
+ interp = ("nearest", "bilinear")
49
+ for interp_mode in interp:
50
+ for padding_mode in ("zeros", "border", "reflection"):
51
+ TESTS.append(
52
+ [
53
+ np.arange(12).reshape((1, 2, 2, 3)) + 1.0, # data
54
+ *device,
55
+ dst,
56
+ {
57
+ "dst_keys": "dst_affine",
58
+ "dtype": dtype,
59
+ "align_corners": align,
60
+ "mode": interp_mode,
61
+ "padding_mode": padding_mode,
62
+ },
63
+ expct,
64
+ ]
65
+ )
66
+
67
+ destinations_2d = [
68
+ torch.tensor([[1.0, 0.0, 0.0], [0.0, -1.0, 1.0], [0.0, 0.0, 1.0]]), # flip the second
69
+ torch.tensor([[-1.0, 0.0, 1.0], [0.0, 1.0, 0.0], [0.0, 0.0, 1.0]]), # flip the first
70
+ ]
71
+
72
+ expected_2d = [torch.tensor([[[2.0, 1.0], [4.0, 3.0]]]), torch.tensor([[[3.0, 4.0], [1.0, 2.0]]])]
73
+
74
+ for dst, expct in zip(destinations_2d, expected_2d):
75
+ for device in TEST_DEVICES:
76
+ for align in (False, True):
77
+ for dtype in (torch.float32, torch.float64):
78
+ for interp_mode in ("nearest", "bilinear"):
79
+ TESTS.append(
80
+ [
81
+ np.arange(4).reshape((1, 2, 2)) + 1.0, # data
82
+ *device,
83
+ dst,
84
+ {
85
+ "dst_keys": "dst_affine",
86
+ "dtype": dtype,
87
+ "align_corners": align,
88
+ "mode": interp_mode,
89
+ "padding_mode": "zeros",
90
+ },
91
+ expct,
92
+ ]
93
+ )
94
+
95
+
96
+ class TestSpatialResample(unittest.TestCase):
97
+ @parameterized.expand(TESTS)
98
+ def test_flips_inverse(self, img, device, dst_affine, kwargs, expected_output):
99
+ img = MetaTensor(img, affine=torch.eye(4)).to(device)
100
+ data = {"img": img, "dst_affine": dst_affine}
101
+ init_param = kwargs.copy()
102
+ init_param["keys"] = "img"
103
+ call_param = {"data": data}
104
+ xform = SpatialResampled(**init_param)
105
+ output_data = xform(**call_param)
106
+ out = output_data["img"]
107
+
108
+ assert_allclose(out, expected_output, rtol=1e-2, atol=1e-2)
109
+ assert_allclose(to_affine_nd(len(out.shape) - 1, out.affine), dst_affine, rtol=1e-2, atol=1e-2)
110
+
111
+ # check lazy
112
+ lazy_xform = SpatialResampled(**init_param)
113
+ test_resampler_lazy(lazy_xform, output_data, init_param, call_param, output_key="img", rtol=rtol, atol=atol)
114
+
115
+ # check inverse
116
+ inverted = xform.inverse(output_data)["img"]
117
+ self.assertEqual(inverted.applied_operations, []) # no further invert after inverting
118
+ expected_affine = to_affine_nd(len(out.affine) - 1, torch.eye(4))
119
+ assert_allclose(inverted.affine, expected_affine, rtol=1e-2, atol=1e-2)
120
+ assert_allclose(inverted, img, rtol=1e-2, atol=1e-2)
121
+
122
+
123
+ if __name__ == "__main__":
124
+ unittest.main()
@@ -0,0 +1,120 @@
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.networks.layers.factories import Act
20
+ from monai.transforms import Activations
21
+ from tests.test_utils import TEST_NDARRAYS, assert_allclose
22
+
23
+ TEST_CASES = []
24
+ for p in TEST_NDARRAYS:
25
+ TEST_CASES.append(
26
+ [
27
+ {"sigmoid": True, "softmax": False, "other": None},
28
+ p([[[0.0, 1.0], [2.0, 3.0]]]),
29
+ p([[[0.5000, 0.7311], [0.8808, 0.9526]]]),
30
+ (1, 2, 2),
31
+ ]
32
+ )
33
+
34
+ TEST_CASES.append(
35
+ [
36
+ {"sigmoid": False, "softmax": True, "other": None},
37
+ p([[[0.0, 1.0]], [[2.0, 3.0]]]),
38
+ p([[[0.1192, 0.1192]], [[0.8808, 0.8808]]]),
39
+ (2, 1, 2),
40
+ ]
41
+ )
42
+
43
+ TEST_CASES.append(
44
+ [
45
+ {"sigmoid": False, "softmax": True, "other": None, "unused": True, "dim": 1},
46
+ p([[[0.0, 1.0]], [[2.0, 3.0]]]),
47
+ p([[[1.0, 1.0]], [[1.0, 1.0]]]),
48
+ (2, 1, 2),
49
+ ]
50
+ )
51
+
52
+ TEST_CASES.append(
53
+ [
54
+ {"sigmoid": False, "softmax": False, "other": torch.tanh},
55
+ p([[[0.0, 1.0], [2.0, 3.0]]]),
56
+ p([[[0.0000, 0.7616], [0.9640, 0.9951]]]),
57
+ (1, 2, 2),
58
+ ]
59
+ )
60
+
61
+ TEST_CASE_4 = [
62
+ "swish",
63
+ torch.tensor([[[-10, -8, -6, -4, -2], [0, 2, 4, 6, 8]]], dtype=torch.float32),
64
+ torch.tensor(
65
+ [[[-4.54e-04, -2.68e-03, -1.48e-02, -7.19e-02, -2.38e-01], [0.00e00, 1.76e00, 3.93e00, 5.99e00, 8.00e00]]]
66
+ ),
67
+ (1, 2, 5),
68
+ ]
69
+
70
+ TEST_CASE_5 = [
71
+ "memswish",
72
+ torch.tensor([[[-10, -8, -6, -4, -2], [0, 2, 4, 6, 8]]], dtype=torch.float32),
73
+ torch.tensor(
74
+ [[[-4.54e-04, -2.68e-03, -1.48e-02, -7.19e-02, -2.38e-01], [0.00e00, 1.76e00, 3.93e00, 5.99e00, 8.00e00]]]
75
+ ),
76
+ (1, 2, 5),
77
+ ]
78
+
79
+ TEST_CASE_6 = [
80
+ "mish",
81
+ torch.tensor([[[-10, -8, -6, -4, -2], [0, 2, 4, 6, 8]]], dtype=torch.float32),
82
+ torch.tensor(
83
+ [[[-4.54e-04, -2.68e-03, -1.49e-02, -7.26e-02, -2.53e-01], [0.00e00, 1.94e00, 4.00e00, 6.00e00, 8.00e00]]]
84
+ ),
85
+ (1, 2, 5),
86
+ ]
87
+
88
+ TEST_CASE_7 = [
89
+ "geglu",
90
+ torch.tensor([[[-10, -8, -6, -4, -2, 0], [0, 2, 4, 6, 8, 10]]], dtype=torch.float32),
91
+ torch.tensor([[[1.27e-03, 3.64e-01, 0.00e00], [0.00e00, 1.60e01, 4.00e01]]]),
92
+ (1, 2, 3),
93
+ ]
94
+
95
+
96
+ class TestActivations(unittest.TestCase):
97
+ @parameterized.expand(TEST_CASES)
98
+ def test_value_shape(self, input_param, img, out, expected_shape):
99
+ result = Activations(**input_param)(img)
100
+
101
+ def _compare(ret, out, shape):
102
+ assert_allclose(ret, out, rtol=1e-3, type_test=False)
103
+ self.assertTupleEqual(ret.shape, shape)
104
+
105
+ if isinstance(result, (list, tuple)):
106
+ for r, e in zip(result, out):
107
+ _compare(r, e, expected_shape)
108
+ else:
109
+ _compare(result, out, expected_shape)
110
+
111
+ @parameterized.expand([TEST_CASE_4, TEST_CASE_5, TEST_CASE_6, TEST_CASE_7])
112
+ def test_monai_activations_value_shape(self, input_param, img, out, expected_shape):
113
+ act = Act[input_param]()
114
+ result = act(img)
115
+ assert_allclose(result, out, rtol=1e-2, atol=1e-5)
116
+ self.assertTupleEqual(result.shape, expected_shape)
117
+
118
+
119
+ if __name__ == "__main__":
120
+ unittest.main()
@@ -0,0 +1,64 @@
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.transforms import Activationsd
20
+ from tests.test_utils import TEST_NDARRAYS, assert_allclose
21
+
22
+ TEST_CASES = []
23
+ for p in TEST_NDARRAYS:
24
+ TEST_CASES.append(
25
+ [
26
+ {"keys": ["pred", "label"], "sigmoid": False, "softmax": [True, False], "other": None, "dim": 0},
27
+ {"pred": p([[[0.0, 1.0]], [[2.0, 3.0]]]), "label": p([[[0.0, 1.0]], [[2.0, 3.0]]])},
28
+ {"pred": p([[[0.1192, 0.1192]], [[0.8808, 0.8808]]]), "label": p([[[0.0, 1.0]], [[2.0, 3.0]]])},
29
+ (2, 1, 2),
30
+ ]
31
+ )
32
+
33
+ TEST_CASES.append(
34
+ [
35
+ {"keys": ["pred", "label"], "sigmoid": False, "softmax": False, "other": [torch.tanh, None]},
36
+ {"pred": p([[[0.0, 1.0], [2.0, 3.0]]]), "label": p([[[0.0, 1.0], [2.0, 3.0]]])},
37
+ {"pred": p([[[0.0000, 0.7616], [0.9640, 0.9951]]]), "label": p([[[0.0, 1.0], [2.0, 3.0]]])},
38
+ (1, 2, 2),
39
+ ]
40
+ )
41
+
42
+ TEST_CASES.append(
43
+ [
44
+ {"keys": "pred", "sigmoid": False, "softmax": False, "other": torch.tanh},
45
+ {"pred": p([[[0.0, 1.0], [2.0, 3.0]]])},
46
+ {"pred": p([[[0.0000, 0.7616], [0.9640, 0.9951]]])},
47
+ (1, 2, 2),
48
+ ]
49
+ )
50
+
51
+
52
+ class TestActivationsd(unittest.TestCase):
53
+ @parameterized.expand(TEST_CASES)
54
+ def test_value_shape(self, input_param, test_input, output, expected_shape):
55
+ result = Activationsd(**input_param)(test_input)
56
+ assert_allclose(result["pred"], output["pred"], rtol=1e-3, type_test="tensor")
57
+ self.assertTupleEqual(result["pred"].shape, expected_shape)
58
+ if "label" in result:
59
+ assert_allclose(result["label"], output["label"], rtol=1e-3, type_test="tensor")
60
+ self.assertTupleEqual(result["label"].shape, expected_shape)
61
+
62
+
63
+ if __name__ == "__main__":
64
+ unittest.main()
@@ -0,0 +1,160 @@
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 itertools
15
+ import unittest
16
+
17
+ from monai.transforms.adaptors import FunctionSignature, adaptor, apply_alias, to_kwargs
18
+
19
+
20
+ class TestAdaptors(unittest.TestCase):
21
+
22
+ def test_function_signature(self):
23
+
24
+ def foo(image, label=None, *a, **kw):
25
+ pass
26
+
27
+ _ = FunctionSignature(foo)
28
+
29
+ def test_single_in_single_out(self):
30
+
31
+ def foo(image):
32
+ return image * 2
33
+
34
+ it = itertools.product(["image", ["image"]], [None, "image", ["image"], {"image": "image"}])
35
+ for i in it:
36
+ d = {"image": 2}
37
+ dres = adaptor(foo, i[0], i[1])(d)
38
+ self.assertEqual(dres["image"], 4)
39
+
40
+ d = {"image": 2}
41
+ dres = adaptor(foo, "image")(d)
42
+ self.assertEqual(dres["image"], 4)
43
+
44
+ d = {"image": 2}
45
+ dres = adaptor(foo, "image", "image")(d)
46
+ self.assertEqual(dres["image"], 4)
47
+
48
+ d = {"image": 2}
49
+ dres = adaptor(foo, "image", {"image": "image"})(d)
50
+ self.assertEqual(dres["image"], 4)
51
+
52
+ d = {"img": 2}
53
+ dres = adaptor(foo, "img", {"img": "image"})(d)
54
+ self.assertEqual(dres["img"], 4)
55
+
56
+ d = {"img": 2}
57
+ dres = adaptor(foo, ["img"], {"img": "image"})(d)
58
+ self.assertEqual(dres["img"], 4)
59
+
60
+ def test_multi_in_single_out(self):
61
+
62
+ def foo(image, label):
63
+ return image * label
64
+
65
+ it = itertools.product(["image", ["image"]], [None, ["image", "label"], {"image": "image", "label": "label"}])
66
+
67
+ for i in it:
68
+ d = {"image": 2, "label": 3}
69
+ dres = adaptor(foo, i[0], i[1])(d)
70
+ self.assertEqual(dres["image"], 6)
71
+ self.assertEqual(dres["label"], 3)
72
+
73
+ it = itertools.product(
74
+ ["newimage", ["newimage"]], [None, ["image", "label"], {"image": "image", "label": "label"}]
75
+ )
76
+
77
+ for i in it:
78
+ d = {"image": 2, "label": 3}
79
+ dres = adaptor(foo, i[0], i[1])(d)
80
+ self.assertEqual(dres["image"], 2)
81
+ self.assertEqual(dres["label"], 3)
82
+ self.assertEqual(dres["newimage"], 6)
83
+
84
+ it = itertools.product(["img", ["img"]], [{"img": "image", "lbl": "label"}])
85
+
86
+ for i in it:
87
+ d = {"img": 2, "lbl": 3}
88
+ dres = adaptor(foo, i[0], i[1])(d)
89
+ self.assertEqual(dres["img"], 6)
90
+ self.assertEqual(dres["lbl"], 3)
91
+
92
+ def test_default_arg_single_out(self):
93
+
94
+ def foo(a, b=2):
95
+ return a * b
96
+
97
+ d = {"a": 5}
98
+ dres = adaptor(foo, "c")(d)
99
+ self.assertEqual(dres["c"], 10)
100
+
101
+ d = {"b": 5}
102
+ with self.assertRaises(TypeError):
103
+ dres = adaptor(foo, "c")(d)
104
+
105
+ def test_multi_out(self):
106
+
107
+ def foo(a, b):
108
+ return a * b, a / b
109
+
110
+ d = {"a": 3, "b": 4}
111
+ dres = adaptor(foo, ["c", "d"])(d)
112
+ self.assertEqual(dres["c"], 12)
113
+ self.assertEqual(dres["d"], 3 / 4)
114
+
115
+ def test_dict_out(self):
116
+
117
+ def foo(a):
118
+ return {"a": a * 2}
119
+
120
+ d = {"a": 2}
121
+ dres = adaptor(foo, {"a": "a"})(d)
122
+ self.assertEqual(dres["a"], 4)
123
+
124
+ d = {"b": 2}
125
+ dres = adaptor(foo, {"a": "b"}, {"b": "a"})(d)
126
+ self.assertEqual(dres["b"], 4)
127
+
128
+
129
+ class TestApplyAlias(unittest.TestCase):
130
+
131
+ def test_apply_alias(self):
132
+
133
+ def foo(d):
134
+ d["x"] *= 2
135
+ return d
136
+
137
+ d = {"a": 1, "b": 3}
138
+ result = apply_alias(foo, {"b": "x"})(d)
139
+ self.assertDictEqual({"a": 1, "b": 6}, result)
140
+
141
+
142
+ class TestToKwargs(unittest.TestCase):
143
+
144
+ def test_to_kwargs(self):
145
+
146
+ def foo(**kwargs):
147
+ results = {k: v * 2 for k, v in kwargs.items()}
148
+ return results
149
+
150
+ def compose_like(fn, data):
151
+ data = fn(data)
152
+ return data
153
+
154
+ d = {"a": 1, "b": 2}
155
+
156
+ actual = compose_like(to_kwargs(foo), d)
157
+ self.assertDictEqual(actual, {"a": 2, "b": 4})
158
+
159
+ with self.assertRaises(TypeError):
160
+ actual = compose_like(foo, d)
@@ -0,0 +1,53 @@
1
+ # Copyright (c) MONAI Consortium
2
+ # Licensed under the Apache License, Version 2.0 (the "License");
3
+ # you may not use this file except in compliance with the License.
4
+ # You may obtain a copy of the License at
5
+ # http://www.apache.org/licenses/LICENSE-2.0
6
+ # Unless required by applicable law or agreed to in writing, software
7
+ # distributed under the License is distributed on an "AS IS" BASIS,
8
+ # WITHOUT WARRANTIES OR CONDITIONS OF ANY KIND, either express or implied.
9
+ # See the License for the specific language governing permissions and
10
+ # limitations under the License.
11
+
12
+ from __future__ import annotations
13
+
14
+ import unittest
15
+
16
+ import numpy as np
17
+ import torch
18
+ from parameterized import parameterized
19
+
20
+ from monai.transforms import AddCoordinateChannels
21
+ from tests.test_utils import TEST_NDARRAYS, assert_allclose
22
+
23
+ TESTS, TEST_CASES_ERROR_1, TEST_CASES_ERROR_2 = [], [], []
24
+ for p in TEST_NDARRAYS:
25
+ TESTS.append([{"spatial_dims": (0, 1, 2)}, p(np.random.randint(0, 2, size=(1, 3, 3, 3))), (4, 3, 3, 3)])
26
+ TESTS.append([{"spatial_dims": (0,)}, p(np.random.randint(0, 2, size=(1, 3, 3, 3))), (2, 3, 3, 3)])
27
+ TEST_CASES_ERROR_1.append([{"spatial_dims": (2,)}, p(np.random.randint(0, 2, size=(1, 3, 3)))])
28
+ TEST_CASES_ERROR_2.append([{"spatial_dims": (-1, 0, 1)}, p(np.random.randint(0, 2, size=(1, 3, 3)))])
29
+
30
+
31
+ class TestAddCoordinateChannels(unittest.TestCase):
32
+ @parameterized.expand(TESTS)
33
+ def test_shape(self, input_param, input, expected_shape):
34
+ result = AddCoordinateChannels(**input_param)(input)
35
+ self.assertEqual(type(result), type(input))
36
+ if isinstance(result, torch.Tensor):
37
+ self.assertEqual(result.device, input.device)
38
+ self.assertEqual(list(result.shape), list(expected_shape))
39
+ assert_allclose(input[0, ...], result[0, ...])
40
+
41
+ @parameterized.expand(TEST_CASES_ERROR_1)
42
+ def test_max_channel(self, input_param, input):
43
+ with self.assertRaises(ValueError):
44
+ AddCoordinateChannels(**input_param)(input)
45
+
46
+ @parameterized.expand(TEST_CASES_ERROR_2)
47
+ def test_channel_dim(self, input_param, input):
48
+ with self.assertRaises(ValueError):
49
+ AddCoordinateChannels(**input_param)(input)
50
+
51
+
52
+ if __name__ == "__main__":
53
+ unittest.main()
@@ -0,0 +1,67 @@
1
+ # Copyright (c) MONAI Consortium
2
+ # Licensed under the Apache License, Version 2.0 (the "License");
3
+ # you may not use this file except in compliance with the License.
4
+ # You may obtain a copy of the License at
5
+ # http://www.apache.org/licenses/LICENSE-2.0
6
+ # Unless required by applicable law or agreed to in writing, software
7
+ # distributed under the License is distributed on an "AS IS" BASIS,
8
+ # WITHOUT WARRANTIES OR CONDITIONS OF ANY KIND, either express or implied.
9
+ # See the License for the specific language governing permissions and
10
+ # limitations under the License.
11
+
12
+ from __future__ import annotations
13
+
14
+ import unittest
15
+
16
+ import numpy as np
17
+ import torch
18
+ from parameterized import parameterized
19
+
20
+ from monai.transforms import AddCoordinateChannelsd
21
+ from tests.test_utils import TEST_NDARRAYS, assert_allclose
22
+
23
+ TESTS, TEST_CASES_ERROR_1, TEST_CASES_ERROR_2 = [], [], []
24
+ for p in TEST_NDARRAYS:
25
+ TESTS.append(
26
+ [
27
+ {"spatial_dims": (0, 1, 2), "keys": ["img"]},
28
+ {"img": p(np.random.randint(0, 2, size=(1, 3, 3, 3)))},
29
+ (4, 3, 3, 3),
30
+ ]
31
+ )
32
+ TESTS.append(
33
+ [{"spatial_dims": (0,), "keys": ["img"]}, {"img": p(np.random.randint(0, 2, size=(1, 3, 3, 3)))}, (2, 3, 3, 3)]
34
+ )
35
+
36
+ TEST_CASES_ERROR_1.append(
37
+ [{"spatial_dims": (2,), "keys": ["img"]}, {"img": p(np.random.randint(0, 2, size=(1, 3, 3)))}]
38
+ )
39
+ TEST_CASES_ERROR_2.append(
40
+ [{"spatial_dims": (-1, 0, 1), "keys": ["img"]}, {"img": p(np.random.randint(0, 2, size=(1, 3, 3)))}]
41
+ )
42
+
43
+
44
+ class TestAddCoordinateChannels(unittest.TestCase):
45
+ @parameterized.expand(TESTS)
46
+ def test_shape(self, input_param, input, expected_shape):
47
+ result = AddCoordinateChannelsd(**input_param)(input)["img"]
48
+ input = input["img"]
49
+ self.assertEqual(type(result), type(input))
50
+ if isinstance(result, torch.Tensor):
51
+ self.assertEqual(result.device, input.device)
52
+ self.assertEqual(result.shape, expected_shape)
53
+ assert_allclose(input[0, ...], result[0, ...])
54
+
55
+ @parameterized.expand(TEST_CASES_ERROR_1)
56
+ def test_max_channel(self, input_param, input):
57
+ with self.assertRaises(ValueError):
58
+ AddCoordinateChannelsd(**input_param)(input)
59
+
60
+ @parameterized.expand(TEST_CASES_ERROR_2)
61
+ def test_channel_dim(self, input_param, input):
62
+ with self.assertRaises(ValueError):
63
+ AddCoordinateChannelsd(**input_param)(input)
64
+
65
+
66
+ if __name__ == "__main__":
67
+ unittest.main()
@@ -0,0 +1,80 @@
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 AddExtremePointsChannel
20
+ from tests.test_utils import TEST_NDARRAYS, assert_allclose
21
+
22
+ IMG_CHANNEL = 3
23
+ TESTS = []
24
+ for p in TEST_NDARRAYS:
25
+ for q in TEST_NDARRAYS:
26
+ TESTS.append(
27
+ [
28
+ {
29
+ "img": p(np.zeros((IMG_CHANNEL, 4, 3))),
30
+ "label": q(np.array([[[0, 1, 0], [0, 0, 1], [0, 1, 0], [1, 0, 0]]])),
31
+ "sigma": 1.0,
32
+ "rescale_min": 0.0,
33
+ "rescale_max": 1.0,
34
+ },
35
+ p(
36
+ np.array(
37
+ [
38
+ [0.38318458, 0.98615628, 0.85551184],
39
+ [0.35422316, 0.94430935, 1.0],
40
+ [0.46000731, 0.57319659, 0.46000722],
41
+ [0.64577687, 0.38318464, 0.0],
42
+ ]
43
+ )
44
+ ),
45
+ ]
46
+ )
47
+
48
+ TESTS.append(
49
+ [
50
+ {
51
+ "img": p(np.zeros((IMG_CHANNEL, 4, 3))),
52
+ "label": q(np.array([[[0, 1, 0], [1, 1, 1], [0, 1, 0], [0, 1, 0]]])),
53
+ "sigma": 1.0,
54
+ "rescale_min": 0.0,
55
+ "rescale_max": 1.0,
56
+ },
57
+ p(
58
+ np.array(
59
+ [
60
+ [0.44628328, 0.80495411, 0.44628328],
61
+ [0.6779086, 1.0, 0.67790854],
62
+ [0.33002687, 0.62079221, 0.33002687],
63
+ [0.0, 0.31848389, 0.0],
64
+ ]
65
+ )
66
+ ),
67
+ ]
68
+ )
69
+
70
+
71
+ class TestAddExtremePointsChannel(unittest.TestCase):
72
+ @parameterized.expand(TESTS)
73
+ def test_correct_results(self, input_data, expected):
74
+ add_extreme_points_channel = AddExtremePointsChannel()
75
+ result = add_extreme_points_channel(**input_data)
76
+ assert_allclose(result[IMG_CHANNEL], expected, rtol=1e-4, atol=1e-5)
77
+
78
+
79
+ if __name__ == "__main__":
80
+ unittest.main()