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

This diff represents the content of publicly available package versions that have been released to one of the supported registries. The information contained in this diff is provided for informational purposes only and reflects changes between package versions as they appear in their respective public registries.
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
  334. tests/networks/nets/regunet/__init__.py +10 -0
  335. tests/networks/nets/regunet/test_localnet.py +86 -0
  336. tests/networks/nets/regunet/test_regunet.py +88 -0
  337. tests/networks/nets/test_ahnet.py +224 -0
  338. tests/networks/nets/test_attentionunet.py +88 -0
  339. tests/networks/nets/test_autoencoder.py +95 -0
  340. tests/networks/nets/test_autoencoderkl.py +337 -0
  341. tests/networks/nets/test_basic_unet.py +102 -0
  342. tests/networks/nets/test_basic_unetplusplus.py +109 -0
  343. tests/networks/nets/test_bundle_init_bundle.py +55 -0
  344. tests/networks/nets/test_cell_sam_wrapper.py +58 -0
  345. tests/networks/nets/test_controlnet.py +215 -0
  346. tests/networks/nets/test_daf3d.py +62 -0
  347. tests/networks/nets/test_densenet.py +121 -0
  348. tests/networks/nets/test_diffusion_model_unet.py +585 -0
  349. tests/networks/nets/test_dints_network.py +168 -0
  350. tests/networks/nets/test_discriminator.py +59 -0
  351. tests/networks/nets/test_dynunet.py +181 -0
  352. tests/networks/nets/test_efficientnet.py +400 -0
  353. tests/networks/nets/test_flexible_unet.py +341 -0
  354. tests/networks/nets/test_fullyconnectednet.py +69 -0
  355. tests/networks/nets/test_generator.py +59 -0
  356. tests/networks/nets/test_globalnet.py +103 -0
  357. tests/networks/nets/test_highresnet.py +67 -0
  358. tests/networks/nets/test_hovernet.py +218 -0
  359. tests/networks/nets/test_mednext.py +122 -0
  360. tests/networks/nets/test_milmodel.py +92 -0
  361. tests/networks/nets/test_net_adapter.py +68 -0
  362. tests/networks/nets/test_network_consistency.py +86 -0
  363. tests/networks/nets/test_patch_gan_dicriminator.py +179 -0
  364. tests/networks/nets/test_quicknat.py +57 -0
  365. tests/networks/nets/test_resnet.py +340 -0
  366. tests/networks/nets/test_segresnet.py +120 -0
  367. tests/networks/nets/test_segresnet_ds.py +156 -0
  368. tests/networks/nets/test_senet.py +151 -0
  369. tests/networks/nets/test_spade_autoencoderkl.py +295 -0
  370. tests/networks/nets/test_spade_diffusion_model_unet.py +574 -0
  371. tests/networks/nets/test_spade_vaegan.py +140 -0
  372. tests/networks/nets/test_swin_unetr.py +139 -0
  373. tests/networks/nets/test_torchvision_fc_model.py +201 -0
  374. tests/networks/nets/test_transchex.py +84 -0
  375. tests/networks/nets/test_transformer.py +108 -0
  376. tests/networks/nets/test_unet.py +208 -0
  377. tests/networks/nets/test_unetr.py +137 -0
  378. tests/networks/nets/test_varautoencoder.py +127 -0
  379. tests/networks/nets/test_vista3d.py +84 -0
  380. tests/networks/nets/test_vit.py +139 -0
  381. tests/networks/nets/test_vitautoenc.py +112 -0
  382. tests/networks/nets/test_vnet.py +81 -0
  383. tests/networks/nets/test_voxelmorph.py +280 -0
  384. tests/networks/nets/test_vqvae.py +274 -0
  385. tests/networks/nets/test_vqvaetransformer_inferer.py +295 -0
  386. tests/networks/schedulers/__init__.py +10 -0
  387. tests/networks/schedulers/test_scheduler_ddim.py +83 -0
  388. tests/networks/schedulers/test_scheduler_ddpm.py +104 -0
  389. tests/networks/schedulers/test_scheduler_pndm.py +108 -0
  390. tests/networks/test_bundle_onnx_export.py +71 -0
  391. tests/networks/test_convert_to_onnx.py +106 -0
  392. tests/networks/test_convert_to_torchscript.py +46 -0
  393. tests/networks/test_convert_to_trt.py +79 -0
  394. tests/networks/test_save_state.py +73 -0
  395. tests/networks/test_to_onehot.py +63 -0
  396. tests/networks/test_varnet.py +63 -0
  397. tests/networks/utils/__init__.py +10 -0
  398. tests/networks/utils/test_copy_model_state.py +187 -0
  399. tests/networks/utils/test_eval_mode.py +34 -0
  400. tests/networks/utils/test_freeze_layers.py +61 -0
  401. tests/networks/utils/test_replace_module.py +98 -0
  402. tests/networks/utils/test_train_mode.py +34 -0
  403. tests/optimizers/__init__.py +10 -0
  404. tests/optimizers/test_generate_param_groups.py +105 -0
  405. tests/optimizers/test_lr_finder.py +108 -0
  406. tests/optimizers/test_lr_scheduler.py +71 -0
  407. tests/optimizers/test_optim_novograd.py +100 -0
  408. tests/profile_subclass/__init__.py +10 -0
  409. tests/profile_subclass/cprofile_profiling.py +29 -0
  410. tests/profile_subclass/min_classes.py +30 -0
  411. tests/profile_subclass/profiling.py +73 -0
  412. tests/profile_subclass/pyspy_profiling.py +41 -0
  413. tests/transforms/__init__.py +10 -0
  414. tests/transforms/compose/__init__.py +10 -0
  415. tests/transforms/compose/test_compose.py +758 -0
  416. tests/transforms/compose/test_some_of.py +258 -0
  417. tests/transforms/croppad/__init__.py +10 -0
  418. tests/transforms/croppad/test_rand_weighted_crop.py +224 -0
  419. tests/transforms/croppad/test_rand_weighted_cropd.py +182 -0
  420. tests/transforms/functional/__init__.py +10 -0
  421. tests/transforms/functional/test_apply.py +75 -0
  422. tests/transforms/functional/test_resample.py +50 -0
  423. tests/transforms/intensity/__init__.py +10 -0
  424. tests/transforms/intensity/test_compute_ho_ver_maps.py +75 -0
  425. tests/transforms/intensity/test_compute_ho_ver_maps_d.py +79 -0
  426. tests/transforms/intensity/test_foreground_mask.py +98 -0
  427. tests/transforms/intensity/test_foreground_maskd.py +106 -0
  428. tests/transforms/intensity/test_rand_histogram_shiftd.py +76 -0
  429. tests/transforms/intensity/test_scale_intensity_range_percentiles.py +96 -0
  430. tests/transforms/intensity/test_scale_intensity_range_percentilesd.py +100 -0
  431. tests/transforms/inverse/__init__.py +10 -0
  432. tests/transforms/inverse/test_inverse_array.py +76 -0
  433. tests/transforms/inverse/test_traceable_transform.py +59 -0
  434. tests/transforms/post/__init__.py +10 -0
  435. tests/transforms/post/test_label_filterd.py +78 -0
  436. tests/transforms/post/test_probnms.py +72 -0
  437. tests/transforms/post/test_probnmsd.py +79 -0
  438. tests/transforms/post/test_remove_small_objects.py +102 -0
  439. tests/transforms/spatial/__init__.py +10 -0
  440. tests/transforms/spatial/test_convert_box_points.py +119 -0
  441. tests/transforms/spatial/test_grid_patch.py +134 -0
  442. tests/transforms/spatial/test_grid_patchd.py +102 -0
  443. tests/transforms/spatial/test_rand_grid_patch.py +150 -0
  444. tests/transforms/spatial/test_rand_grid_patchd.py +117 -0
  445. tests/transforms/spatial/test_spatial_resampled.py +124 -0
  446. tests/transforms/test_activations.py +120 -0
  447. tests/transforms/test_activationsd.py +64 -0
  448. tests/transforms/test_adaptors.py +160 -0
  449. tests/transforms/test_add_coordinate_channels.py +53 -0
  450. tests/transforms/test_add_coordinate_channelsd.py +67 -0
  451. tests/transforms/test_add_extreme_points_channel.py +80 -0
  452. tests/transforms/test_add_extreme_points_channeld.py +77 -0
  453. tests/transforms/test_adjust_contrast.py +70 -0
  454. tests/transforms/test_adjust_contrastd.py +64 -0
  455. tests/transforms/test_affine.py +245 -0
  456. tests/transforms/test_affine_grid.py +152 -0
  457. tests/transforms/test_affined.py +190 -0
  458. tests/transforms/test_as_channel_last.py +38 -0
  459. tests/transforms/test_as_channel_lastd.py +44 -0
  460. tests/transforms/test_as_discrete.py +81 -0
  461. tests/transforms/test_as_discreted.py +82 -0
  462. tests/transforms/test_border_pad.py +49 -0
  463. tests/transforms/test_border_padd.py +45 -0
  464. tests/transforms/test_bounding_rect.py +54 -0
  465. tests/transforms/test_bounding_rectd.py +53 -0
  466. tests/transforms/test_cast_to_type.py +63 -0
  467. tests/transforms/test_cast_to_typed.py +74 -0
  468. tests/transforms/test_center_scale_crop.py +55 -0
  469. tests/transforms/test_center_scale_cropd.py +56 -0
  470. tests/transforms/test_center_spatial_crop.py +56 -0
  471. tests/transforms/test_center_spatial_cropd.py +63 -0
  472. tests/transforms/test_classes_to_indices.py +93 -0
  473. tests/transforms/test_classes_to_indicesd.py +110 -0
  474. tests/transforms/test_clip_intensity_percentiles.py +196 -0
  475. tests/transforms/test_clip_intensity_percentilesd.py +193 -0
  476. tests/transforms/test_compose_get_number_conversions.py +127 -0
  477. tests/transforms/test_concat_itemsd.py +82 -0
  478. tests/transforms/test_convert_to_multi_channel.py +59 -0
  479. tests/transforms/test_convert_to_multi_channeld.py +37 -0
  480. tests/transforms/test_copy_itemsd.py +86 -0
  481. tests/transforms/test_create_grid_and_affine.py +274 -0
  482. tests/transforms/test_crop_foreground.py +164 -0
  483. tests/transforms/test_crop_foregroundd.py +205 -0
  484. tests/transforms/test_cucim_dict_transform.py +142 -0
  485. tests/transforms/test_cucim_transform.py +141 -0
  486. tests/transforms/test_data_stats.py +221 -0
  487. tests/transforms/test_data_statsd.py +249 -0
  488. tests/transforms/test_delete_itemsd.py +58 -0
  489. tests/transforms/test_detect_envelope.py +159 -0
  490. tests/transforms/test_distance_transform_edt.py +202 -0
  491. tests/transforms/test_divisible_pad.py +49 -0
  492. tests/transforms/test_divisible_padd.py +42 -0
  493. tests/transforms/test_ensure_channel_first.py +113 -0
  494. tests/transforms/test_ensure_channel_firstd.py +85 -0
  495. tests/transforms/test_ensure_type.py +94 -0
  496. tests/transforms/test_ensure_typed.py +110 -0
  497. tests/transforms/test_fg_bg_to_indices.py +83 -0
  498. tests/transforms/test_fg_bg_to_indicesd.py +78 -0
  499. tests/transforms/test_fill_holes.py +207 -0
  500. tests/transforms/test_fill_holesd.py +209 -0
  501. tests/transforms/test_flatten_sub_keysd.py +64 -0
  502. tests/transforms/test_flip.py +83 -0
  503. tests/transforms/test_flipd.py +90 -0
  504. tests/transforms/test_fourier.py +70 -0
  505. tests/transforms/test_gaussian_sharpen.py +92 -0
  506. tests/transforms/test_gaussian_sharpend.py +92 -0
  507. tests/transforms/test_gaussian_smooth.py +96 -0
  508. tests/transforms/test_gaussian_smoothd.py +96 -0
  509. tests/transforms/test_generate_label_classes_crop_centers.py +71 -0
  510. tests/transforms/test_generate_pos_neg_label_crop_centers.py +76 -0
  511. tests/transforms/test_generate_spatial_bounding_box.py +114 -0
  512. tests/transforms/test_get_extreme_points.py +57 -0
  513. tests/transforms/test_gibbs_noise.py +75 -0
  514. tests/transforms/test_gibbs_noised.py +88 -0
  515. tests/transforms/test_grid_distortion.py +113 -0
  516. tests/transforms/test_grid_distortiond.py +87 -0
  517. tests/transforms/test_grid_split.py +88 -0
  518. tests/transforms/test_grid_splitd.py +96 -0
  519. tests/transforms/test_histogram_normalize.py +59 -0
  520. tests/transforms/test_histogram_normalized.py +59 -0
  521. tests/transforms/test_image_filter.py +259 -0
  522. tests/transforms/test_intensity_stats.py +73 -0
  523. tests/transforms/test_intensity_statsd.py +90 -0
  524. tests/transforms/test_inverse.py +521 -0
  525. tests/transforms/test_inverse_collation.py +147 -0
  526. tests/transforms/test_invert.py +105 -0
  527. tests/transforms/test_invertd.py +142 -0
  528. tests/transforms/test_k_space_spike_noise.py +81 -0
  529. tests/transforms/test_k_space_spike_noised.py +98 -0
  530. tests/transforms/test_keep_largest_connected_component.py +419 -0
  531. tests/transforms/test_keep_largest_connected_componentd.py +348 -0
  532. tests/transforms/test_label_filter.py +78 -0
  533. tests/transforms/test_label_to_contour.py +179 -0
  534. tests/transforms/test_label_to_contourd.py +182 -0
  535. tests/transforms/test_label_to_mask.py +69 -0
  536. tests/transforms/test_label_to_maskd.py +70 -0
  537. tests/transforms/test_load_image.py +502 -0
  538. tests/transforms/test_load_imaged.py +198 -0
  539. tests/transforms/test_load_spacing_orientation.py +149 -0
  540. tests/transforms/test_map_and_generate_sampling_centers.py +86 -0
  541. tests/transforms/test_map_binary_to_indices.py +75 -0
  542. tests/transforms/test_map_classes_to_indices.py +135 -0
  543. tests/transforms/test_map_label_value.py +89 -0
  544. tests/transforms/test_map_label_valued.py +85 -0
  545. tests/transforms/test_map_transform.py +45 -0
  546. tests/transforms/test_mask_intensity.py +74 -0
  547. tests/transforms/test_mask_intensityd.py +68 -0
  548. tests/transforms/test_mean_ensemble.py +77 -0
  549. tests/transforms/test_mean_ensembled.py +91 -0
  550. tests/transforms/test_median_smooth.py +41 -0
  551. tests/transforms/test_median_smoothd.py +65 -0
  552. tests/transforms/test_morphological_ops.py +101 -0
  553. tests/transforms/test_nifti_endianness.py +107 -0
  554. tests/transforms/test_normalize_intensity.py +143 -0
  555. tests/transforms/test_normalize_intensityd.py +81 -0
  556. tests/transforms/test_nvtx_decorator.py +289 -0
  557. tests/transforms/test_nvtx_transform.py +143 -0
  558. tests/transforms/test_orientation.py +247 -0
  559. tests/transforms/test_orientationd.py +112 -0
  560. tests/transforms/test_rand_adjust_contrast.py +45 -0
  561. tests/transforms/test_rand_adjust_contrastd.py +44 -0
  562. tests/transforms/test_rand_affine.py +201 -0
  563. tests/transforms/test_rand_affine_grid.py +212 -0
  564. tests/transforms/test_rand_affined.py +281 -0
  565. tests/transforms/test_rand_axis_flip.py +50 -0
  566. tests/transforms/test_rand_axis_flipd.py +50 -0
  567. tests/transforms/test_rand_bias_field.py +69 -0
  568. tests/transforms/test_rand_bias_fieldd.py +65 -0
  569. tests/transforms/test_rand_coarse_dropout.py +110 -0
  570. tests/transforms/test_rand_coarse_dropoutd.py +107 -0
  571. tests/transforms/test_rand_coarse_shuffle.py +65 -0
  572. tests/transforms/test_rand_coarse_shuffled.py +59 -0
  573. tests/transforms/test_rand_crop_by_label_classes.py +170 -0
  574. tests/transforms/test_rand_crop_by_label_classesd.py +159 -0
  575. tests/transforms/test_rand_crop_by_pos_neg_label.py +152 -0
  576. tests/transforms/test_rand_crop_by_pos_neg_labeld.py +172 -0
  577. tests/transforms/test_rand_cucim_dict_transform.py +162 -0
  578. tests/transforms/test_rand_cucim_transform.py +162 -0
  579. tests/transforms/test_rand_deform_grid.py +138 -0
  580. tests/transforms/test_rand_elastic_2d.py +127 -0
  581. tests/transforms/test_rand_elastic_3d.py +104 -0
  582. tests/transforms/test_rand_elasticd_2d.py +177 -0
  583. tests/transforms/test_rand_elasticd_3d.py +156 -0
  584. tests/transforms/test_rand_flip.py +60 -0
  585. tests/transforms/test_rand_flipd.py +55 -0
  586. tests/transforms/test_rand_gaussian_noise.py +48 -0
  587. tests/transforms/test_rand_gaussian_noised.py +54 -0
  588. tests/transforms/test_rand_gaussian_sharpen.py +140 -0
  589. tests/transforms/test_rand_gaussian_sharpend.py +143 -0
  590. tests/transforms/test_rand_gaussian_smooth.py +98 -0
  591. tests/transforms/test_rand_gaussian_smoothd.py +98 -0
  592. tests/transforms/test_rand_gibbs_noise.py +103 -0
  593. tests/transforms/test_rand_gibbs_noised.py +117 -0
  594. tests/transforms/test_rand_grid_distortion.py +99 -0
  595. tests/transforms/test_rand_grid_distortiond.py +90 -0
  596. tests/transforms/test_rand_histogram_shift.py +92 -0
  597. tests/transforms/test_rand_k_space_spike_noise.py +92 -0
  598. tests/transforms/test_rand_k_space_spike_noised.py +76 -0
  599. tests/transforms/test_rand_rician_noise.py +52 -0
  600. tests/transforms/test_rand_rician_noised.py +52 -0
  601. tests/transforms/test_rand_rotate.py +166 -0
  602. tests/transforms/test_rand_rotate90.py +100 -0
  603. tests/transforms/test_rand_rotate90d.py +112 -0
  604. tests/transforms/test_rand_rotated.py +187 -0
  605. tests/transforms/test_rand_scale_crop.py +78 -0
  606. tests/transforms/test_rand_scale_cropd.py +98 -0
  607. tests/transforms/test_rand_scale_intensity.py +54 -0
  608. tests/transforms/test_rand_scale_intensity_fixed_mean.py +41 -0
  609. tests/transforms/test_rand_scale_intensity_fixed_meand.py +41 -0
  610. tests/transforms/test_rand_scale_intensityd.py +53 -0
  611. tests/transforms/test_rand_shift_intensity.py +52 -0
  612. tests/transforms/test_rand_shift_intensityd.py +67 -0
  613. tests/transforms/test_rand_simulate_low_resolution.py +83 -0
  614. tests/transforms/test_rand_simulate_low_resolutiond.py +73 -0
  615. tests/transforms/test_rand_spatial_crop.py +107 -0
  616. tests/transforms/test_rand_spatial_crop_samples.py +128 -0
  617. tests/transforms/test_rand_spatial_crop_samplesd.py +147 -0
  618. tests/transforms/test_rand_spatial_cropd.py +112 -0
  619. tests/transforms/test_rand_std_shift_intensity.py +43 -0
  620. tests/transforms/test_rand_std_shift_intensityd.py +38 -0
  621. tests/transforms/test_rand_zoom.py +105 -0
  622. tests/transforms/test_rand_zoomd.py +108 -0
  623. tests/transforms/test_randidentity.py +49 -0
  624. tests/transforms/test_random_order.py +144 -0
  625. tests/transforms/test_randtorchvisiond.py +65 -0
  626. tests/transforms/test_regularization.py +139 -0
  627. tests/transforms/test_remove_repeated_channel.py +34 -0
  628. tests/transforms/test_remove_repeated_channeld.py +44 -0
  629. tests/transforms/test_repeat_channel.py +34 -0
  630. tests/transforms/test_repeat_channeld.py +41 -0
  631. tests/transforms/test_resample_backends.py +65 -0
  632. tests/transforms/test_resample_to_match.py +110 -0
  633. tests/transforms/test_resample_to_matchd.py +93 -0
  634. tests/transforms/test_resampler.py +165 -0
  635. tests/transforms/test_resize.py +140 -0
  636. tests/transforms/test_resize_with_pad_or_crop.py +91 -0
  637. tests/transforms/test_resize_with_pad_or_cropd.py +86 -0
  638. tests/transforms/test_resized.py +163 -0
  639. tests/transforms/test_rotate.py +160 -0
  640. tests/transforms/test_rotate90.py +212 -0
  641. tests/transforms/test_rotate90d.py +106 -0
  642. tests/transforms/test_rotated.py +179 -0
  643. tests/transforms/test_save_classificationd.py +109 -0
  644. tests/transforms/test_save_image.py +80 -0
  645. tests/transforms/test_save_imaged.py +130 -0
  646. tests/transforms/test_savitzky_golay_smooth.py +73 -0
  647. tests/transforms/test_savitzky_golay_smoothd.py +73 -0
  648. tests/transforms/test_scale_intensity.py +76 -0
  649. tests/transforms/test_scale_intensity_fixed_mean.py +94 -0
  650. tests/transforms/test_scale_intensity_range.py +41 -0
  651. tests/transforms/test_scale_intensity_ranged.py +40 -0
  652. tests/transforms/test_scale_intensityd.py +57 -0
  653. tests/transforms/test_select_itemsd.py +41 -0
  654. tests/transforms/test_shift_intensity.py +31 -0
  655. tests/transforms/test_shift_intensityd.py +44 -0
  656. tests/transforms/test_signal_continuouswavelet.py +44 -0
  657. tests/transforms/test_signal_fillempty.py +52 -0
  658. tests/transforms/test_signal_fillemptyd.py +60 -0
  659. tests/transforms/test_signal_rand_add_gaussiannoise.py +50 -0
  660. tests/transforms/test_signal_rand_add_sine.py +52 -0
  661. tests/transforms/test_signal_rand_add_sine_partial.py +50 -0
  662. tests/transforms/test_signal_rand_add_squarepulse.py +58 -0
  663. tests/transforms/test_signal_rand_add_squarepulse_partial.py +62 -0
  664. tests/transforms/test_signal_rand_drop.py +50 -0
  665. tests/transforms/test_signal_rand_scale.py +52 -0
  666. tests/transforms/test_signal_rand_shift.py +55 -0
  667. tests/transforms/test_signal_remove_frequency.py +71 -0
  668. tests/transforms/test_smooth_field.py +177 -0
  669. tests/transforms/test_sobel_gradient.py +189 -0
  670. tests/transforms/test_sobel_gradientd.py +212 -0
  671. tests/transforms/test_spacing.py +381 -0
  672. tests/transforms/test_spacingd.py +178 -0
  673. tests/transforms/test_spatial_crop.py +82 -0
  674. tests/transforms/test_spatial_cropd.py +74 -0
  675. tests/transforms/test_spatial_pad.py +57 -0
  676. tests/transforms/test_spatial_padd.py +43 -0
  677. tests/transforms/test_spatial_resample.py +235 -0
  678. tests/transforms/test_squeezedim.py +62 -0
  679. tests/transforms/test_squeezedimd.py +98 -0
  680. tests/transforms/test_std_shift_intensity.py +76 -0
  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 +1,274 @@
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 import eval_mode
20
+ from monai.networks.nets.vqvae import VQVAE
21
+ from tests.test_utils import SkipIfBeforePyTorchVersion
22
+
23
+ TEST_CASES = [
24
+ [
25
+ {
26
+ "spatial_dims": 2,
27
+ "in_channels": 1,
28
+ "out_channels": 1,
29
+ "channels": (4, 4),
30
+ "num_res_layers": 1,
31
+ "num_res_channels": (4, 4),
32
+ "downsample_parameters": ((2, 4, 1, 1),) * 2,
33
+ "upsample_parameters": ((2, 4, 1, 1, 0),) * 2,
34
+ "num_embeddings": 8,
35
+ "embedding_dim": 8,
36
+ },
37
+ (1, 1, 8, 8),
38
+ (1, 1, 8, 8),
39
+ ],
40
+ [
41
+ {
42
+ "spatial_dims": 3,
43
+ "in_channels": 1,
44
+ "out_channels": 1,
45
+ "channels": (4, 4),
46
+ "num_res_layers": 1,
47
+ "num_res_channels": 4,
48
+ "downsample_parameters": ((2, 4, 1, 1),) * 2,
49
+ "upsample_parameters": ((2, 4, 1, 1, 0),) * 2,
50
+ "num_embeddings": 8,
51
+ "embedding_dim": 8,
52
+ },
53
+ (1, 1, 8, 8, 8),
54
+ (1, 1, 8, 8, 8),
55
+ ],
56
+ [
57
+ {
58
+ "spatial_dims": 2,
59
+ "in_channels": 1,
60
+ "out_channels": 1,
61
+ "channels": (4, 4),
62
+ "num_res_layers": 1,
63
+ "num_res_channels": (4, 4),
64
+ "downsample_parameters": (2, 4, 1, 1),
65
+ "upsample_parameters": ((2, 4, 1, 1, 0),) * 2,
66
+ "num_embeddings": 8,
67
+ "embedding_dim": 8,
68
+ },
69
+ (1, 1, 8, 8),
70
+ (1, 1, 8, 8),
71
+ ],
72
+ [
73
+ {
74
+ "spatial_dims": 3,
75
+ "in_channels": 1,
76
+ "out_channels": 1,
77
+ "channels": (4, 4),
78
+ "num_res_layers": 1,
79
+ "num_res_channels": (4, 4),
80
+ "downsample_parameters": ((2, 4, 1, 1),) * 2,
81
+ "upsample_parameters": (2, 4, 1, 1, 0),
82
+ "num_embeddings": 8,
83
+ "embedding_dim": 8,
84
+ },
85
+ (1, 1, 8, 8, 8),
86
+ (1, 1, 8, 8, 8),
87
+ ],
88
+ ]
89
+
90
+ TEST_LATENT_SHAPE = {
91
+ "spatial_dims": 2,
92
+ "in_channels": 1,
93
+ "out_channels": 1,
94
+ "downsample_parameters": ((2, 4, 1, 1),) * 2,
95
+ "upsample_parameters": ((2, 4, 1, 1, 0),) * 2,
96
+ "num_res_layers": 1,
97
+ "channels": (8, 8),
98
+ "num_res_channels": (8, 8),
99
+ "num_embeddings": 16,
100
+ "embedding_dim": 8,
101
+ }
102
+
103
+
104
+ class TestVQVAE(unittest.TestCase):
105
+ @parameterized.expand(TEST_CASES)
106
+ def test_shape(self, input_param, input_shape, expected_shape):
107
+ device = "cuda" if torch.cuda.is_available() else "cpu"
108
+
109
+ net = VQVAE(**input_param).to(device)
110
+
111
+ with eval_mode(net):
112
+ result, _ = net(torch.randn(input_shape).to(device))
113
+
114
+ self.assertEqual(result.shape, expected_shape)
115
+
116
+ @parameterized.expand(TEST_CASES)
117
+ @SkipIfBeforePyTorchVersion((1, 11))
118
+ def test_shape_with_checkpoint(self, input_param, input_shape, expected_shape):
119
+ device = "cuda" if torch.cuda.is_available() else "cpu"
120
+ input_param = input_param.copy()
121
+ input_param.update({"use_checkpointing": True})
122
+
123
+ net = VQVAE(**input_param).to(device)
124
+
125
+ with eval_mode(net):
126
+ result, _ = net(torch.randn(input_shape).to(device))
127
+
128
+ self.assertEqual(result.shape, expected_shape)
129
+
130
+ # Removed this test case since TorchScript currently does not support activation checkpoint.
131
+ # def test_script(self):
132
+ # net = VQVAE(
133
+ # spatial_dims=2,
134
+ # in_channels=1,
135
+ # out_channels=1,
136
+ # downsample_parameters=((2, 4, 1, 1),) * 2,
137
+ # upsample_parameters=((2, 4, 1, 1, 0),) * 2,
138
+ # num_res_layers=1,
139
+ # channels=(8, 8),
140
+ # num_res_channels=(8, 8),
141
+ # num_embeddings=16,
142
+ # embedding_dim=8,
143
+ # ddp_sync=False,
144
+ # )
145
+ # test_data = torch.randn(1, 1, 16, 16)
146
+ # test_script_save(net, test_data)
147
+
148
+ def test_channels_not_same_size_of_num_res_channels(self):
149
+ with self.assertRaises(ValueError):
150
+ VQVAE(
151
+ spatial_dims=2,
152
+ in_channels=1,
153
+ out_channels=1,
154
+ channels=(16, 16),
155
+ num_res_channels=(16, 16, 16),
156
+ downsample_parameters=((2, 4, 1, 1),) * 2,
157
+ upsample_parameters=((2, 4, 1, 1, 0),) * 2,
158
+ )
159
+
160
+ def test_channels_not_same_size_of_downsample_parameters(self):
161
+ with self.assertRaises(ValueError):
162
+ VQVAE(
163
+ spatial_dims=2,
164
+ in_channels=1,
165
+ out_channels=1,
166
+ channels=(16, 16),
167
+ num_res_channels=(16, 16),
168
+ downsample_parameters=((2, 4, 1, 1),) * 3,
169
+ upsample_parameters=((2, 4, 1, 1, 0),) * 2,
170
+ )
171
+
172
+ def test_channels_not_same_size_of_upsample_parameters(self):
173
+ with self.assertRaises(ValueError):
174
+ VQVAE(
175
+ spatial_dims=2,
176
+ in_channels=1,
177
+ out_channels=1,
178
+ channels=(16, 16),
179
+ num_res_channels=(16, 16),
180
+ downsample_parameters=((2, 4, 1, 1),) * 2,
181
+ upsample_parameters=((2, 4, 1, 1, 0),) * 3,
182
+ )
183
+
184
+ def test_downsample_parameters_not_sequence_or_int(self):
185
+ with self.assertRaises(ValueError):
186
+ VQVAE(
187
+ spatial_dims=2,
188
+ in_channels=1,
189
+ out_channels=1,
190
+ channels=(16, 16),
191
+ num_res_channels=(16, 16),
192
+ downsample_parameters=(("test", 4, 1, 1),) * 2,
193
+ upsample_parameters=((2, 4, 1, 1, 0),) * 2,
194
+ )
195
+
196
+ def test_upsample_parameters_not_sequence_or_int(self):
197
+ with self.assertRaises(ValueError):
198
+ VQVAE(
199
+ spatial_dims=2,
200
+ in_channels=1,
201
+ out_channels=1,
202
+ channels=(16, 16),
203
+ num_res_channels=(16, 16),
204
+ downsample_parameters=((2, 4, 1, 1),) * 2,
205
+ upsample_parameters=(("test", 4, 1, 1, 0),) * 2,
206
+ )
207
+
208
+ def test_downsample_parameter_length_different_4(self):
209
+ with self.assertRaises(ValueError):
210
+ VQVAE(
211
+ spatial_dims=2,
212
+ in_channels=1,
213
+ out_channels=1,
214
+ channels=(16, 16),
215
+ num_res_channels=(16, 16),
216
+ downsample_parameters=((2, 4, 1),) * 3,
217
+ upsample_parameters=((2, 4, 1, 1, 0),) * 2,
218
+ )
219
+
220
+ def test_upsample_parameter_length_different_5(self):
221
+ with self.assertRaises(ValueError):
222
+ VQVAE(
223
+ spatial_dims=2,
224
+ in_channels=1,
225
+ out_channels=1,
226
+ channels=(16, 16),
227
+ num_res_channels=(16, 16, 16),
228
+ downsample_parameters=((2, 4, 1, 1),) * 2,
229
+ upsample_parameters=((2, 4, 1, 1, 0, 1),) * 3,
230
+ )
231
+
232
+ def test_encode_shape(self):
233
+ device = "cuda" if torch.cuda.is_available() else "cpu"
234
+
235
+ net = VQVAE(**TEST_LATENT_SHAPE).to(device)
236
+
237
+ with eval_mode(net):
238
+ latent = net.encode(torch.randn(1, 1, 32, 32).to(device))
239
+
240
+ self.assertEqual(latent.shape, (1, 8, 8, 8))
241
+
242
+ def test_index_quantize_shape(self):
243
+ device = "cuda" if torch.cuda.is_available() else "cpu"
244
+
245
+ net = VQVAE(**TEST_LATENT_SHAPE).to(device)
246
+
247
+ with eval_mode(net):
248
+ latent = net.index_quantize(torch.randn(1, 1, 32, 32).to(device))
249
+
250
+ self.assertEqual(latent.shape, (1, 8, 8))
251
+
252
+ def test_decode_shape(self):
253
+ device = "cuda" if torch.cuda.is_available() else "cpu"
254
+
255
+ net = VQVAE(**TEST_LATENT_SHAPE).to(device)
256
+
257
+ with eval_mode(net):
258
+ latent = net.decode(torch.randn(1, 8, 8, 8).to(device))
259
+
260
+ self.assertEqual(latent.shape, (1, 1, 32, 32))
261
+
262
+ def test_decode_samples_shape(self):
263
+ device = "cuda" if torch.cuda.is_available() else "cpu"
264
+
265
+ net = VQVAE(**TEST_LATENT_SHAPE).to(device)
266
+
267
+ with eval_mode(net):
268
+ latent = net.decode_samples(torch.randint(low=0, high=16, size=(1, 8, 8)).to(device))
269
+
270
+ self.assertEqual(latent.shape, (1, 1, 32, 32))
271
+
272
+
273
+ if __name__ == "__main__":
274
+ unittest.main()
@@ -0,0 +1,295 @@
1
+ # Copyright (c) MONAI Consortium
2
+ # Licensed under the Apache License, Version 2.0 (the "License");
3
+ # you may not use this file except in compliance with the License.
4
+ # You may obtain a copy of the License at
5
+ # http://www.apache.org/licenses/LICENSE-2.0
6
+ # Unless required by applicable law or agreed to in writing, software
7
+ # distributed under the License is distributed on an "AS IS" BASIS,
8
+ # WITHOUT WARRANTIES OR CONDITIONS OF ANY KIND, either express or implied.
9
+ # See the License for the specific language governing permissions and
10
+ # limitations under the License.
11
+
12
+ from __future__ import annotations
13
+
14
+ import unittest
15
+ from unittest import skipUnless
16
+
17
+ import torch
18
+ from parameterized import parameterized
19
+
20
+ from monai.inferers import VQVAETransformerInferer
21
+ from monai.networks.nets import VQVAE, DecoderOnlyTransformer
22
+ from monai.utils import optional_import
23
+ from monai.utils.ordering import Ordering, OrderingType
24
+
25
+ einops, has_einops = optional_import("einops")
26
+ TEST_CASES = [
27
+ [
28
+ {
29
+ "spatial_dims": 2,
30
+ "in_channels": 1,
31
+ "out_channels": 1,
32
+ "channels": (8, 8),
33
+ "num_res_channels": (8, 8),
34
+ "downsample_parameters": ((2, 4, 1, 1),) * 2,
35
+ "upsample_parameters": ((2, 4, 1, 1, 0),) * 2,
36
+ "num_res_layers": 1,
37
+ "num_embeddings": 16,
38
+ "embedding_dim": 8,
39
+ },
40
+ {
41
+ "num_tokens": 16 + 1,
42
+ "max_seq_len": 4,
43
+ "attn_layers_dim": 4,
44
+ "attn_layers_depth": 2,
45
+ "attn_layers_heads": 1,
46
+ "with_cross_attention": False,
47
+ },
48
+ {"ordering_type": OrderingType.RASTER_SCAN.value, "spatial_dims": 2, "dimensions": (2, 2, 2)},
49
+ (2, 1, 8, 8),
50
+ (2, 4, 17),
51
+ (2, 2, 2),
52
+ ],
53
+ [
54
+ {
55
+ "spatial_dims": 3,
56
+ "in_channels": 1,
57
+ "out_channels": 1,
58
+ "channels": (8, 8),
59
+ "num_res_channels": (8, 8),
60
+ "downsample_parameters": ((2, 4, 1, 1),) * 2,
61
+ "upsample_parameters": ((2, 4, 1, 1, 0),) * 2,
62
+ "num_res_layers": 1,
63
+ "num_embeddings": 16,
64
+ "embedding_dim": 8,
65
+ },
66
+ {
67
+ "num_tokens": 16 + 1,
68
+ "max_seq_len": 8,
69
+ "attn_layers_dim": 4,
70
+ "attn_layers_depth": 2,
71
+ "attn_layers_heads": 1,
72
+ "with_cross_attention": False,
73
+ },
74
+ {"ordering_type": OrderingType.RASTER_SCAN.value, "spatial_dims": 3, "dimensions": (2, 2, 2, 2)},
75
+ (2, 1, 8, 8, 8),
76
+ (2, 8, 17),
77
+ (2, 2, 2, 2),
78
+ ],
79
+ ]
80
+
81
+
82
+ class TestVQVAETransformerInferer(unittest.TestCase):
83
+ @parameterized.expand(TEST_CASES)
84
+ @skipUnless(has_einops, "Requires einops")
85
+ def test_prediction_shape(
86
+ self, stage_1_params, stage_2_params, ordering_params, input_shape, logits_shape, latent_shape
87
+ ):
88
+ stage_1 = VQVAE(**stage_1_params)
89
+ stage_2 = DecoderOnlyTransformer(**stage_2_params)
90
+ ordering = Ordering(**ordering_params)
91
+
92
+ device = "cuda:0" if torch.cuda.is_available() else "cpu"
93
+ stage_1.to(device)
94
+ stage_2.to(device)
95
+ stage_1.eval()
96
+ stage_2.eval()
97
+
98
+ input = torch.randn(input_shape).to(device)
99
+
100
+ inferer = VQVAETransformerInferer()
101
+ prediction = inferer(inputs=input, vqvae_model=stage_1, transformer_model=stage_2, ordering=ordering)
102
+ self.assertEqual(prediction.shape, logits_shape)
103
+
104
+ @parameterized.expand(TEST_CASES)
105
+ @skipUnless(has_einops, "Requires einops")
106
+ def test_prediction_shape_shorter_sequence(
107
+ self, stage_1_params, stage_2_params, ordering_params, input_shape, logits_shape, latent_shape
108
+ ):
109
+ stage_1 = VQVAE(**stage_1_params)
110
+ max_seq_len = 3
111
+ stage_2_params_shorter = dict(stage_2_params)
112
+ stage_2_params_shorter["max_seq_len"] = max_seq_len
113
+ stage_2 = DecoderOnlyTransformer(**stage_2_params_shorter)
114
+ ordering = Ordering(**ordering_params)
115
+
116
+ device = "cuda:0" if torch.cuda.is_available() else "cpu"
117
+ stage_1.to(device)
118
+ stage_2.to(device)
119
+ stage_1.eval()
120
+ stage_2.eval()
121
+
122
+ input = torch.randn(input_shape).to(device)
123
+
124
+ inferer = VQVAETransformerInferer()
125
+ prediction = inferer(inputs=input, vqvae_model=stage_1, transformer_model=stage_2, ordering=ordering)
126
+ cropped_logits_shape = (logits_shape[0], max_seq_len, logits_shape[2])
127
+ self.assertEqual(prediction.shape, cropped_logits_shape)
128
+
129
+ @skipUnless(has_einops, "Requires einops")
130
+ def test_sample(self):
131
+
132
+ stage_1 = VQVAE(
133
+ spatial_dims=2,
134
+ in_channels=1,
135
+ out_channels=1,
136
+ channels=(8, 8),
137
+ num_res_channels=(8, 8),
138
+ downsample_parameters=((2, 4, 1, 1),) * 2,
139
+ upsample_parameters=((2, 4, 1, 1, 0),) * 2,
140
+ num_res_layers=1,
141
+ num_embeddings=16,
142
+ embedding_dim=8,
143
+ )
144
+ stage_2 = DecoderOnlyTransformer(
145
+ num_tokens=16 + 1,
146
+ max_seq_len=4,
147
+ attn_layers_dim=4,
148
+ attn_layers_depth=2,
149
+ attn_layers_heads=1,
150
+ with_cross_attention=False,
151
+ )
152
+ ordering = Ordering(ordering_type=OrderingType.RASTER_SCAN.value, spatial_dims=2, dimensions=(2, 2, 2))
153
+
154
+ device = "cuda:0" if torch.cuda.is_available() else "cpu"
155
+ stage_1.to(device)
156
+ stage_2.to(device)
157
+ stage_1.eval()
158
+ stage_2.eval()
159
+
160
+ inferer = VQVAETransformerInferer()
161
+
162
+ starting_token = 16 # from stage_1 num_embeddings
163
+
164
+ sample = inferer.sample(
165
+ latent_spatial_dim=(2, 2),
166
+ starting_tokens=starting_token * torch.ones((2, 1), device=device),
167
+ vqvae_model=stage_1,
168
+ transformer_model=stage_2,
169
+ ordering=ordering,
170
+ )
171
+ self.assertEqual(sample.shape, (2, 1, 8, 8))
172
+
173
+ @skipUnless(has_einops, "Requires einops")
174
+ def test_sample_shorter_sequence(self):
175
+ stage_1 = VQVAE(
176
+ spatial_dims=2,
177
+ in_channels=1,
178
+ out_channels=1,
179
+ channels=(8, 8),
180
+ num_res_channels=(8, 8),
181
+ downsample_parameters=((2, 4, 1, 1),) * 2,
182
+ upsample_parameters=((2, 4, 1, 1, 0),) * 2,
183
+ num_res_layers=1,
184
+ num_embeddings=16,
185
+ embedding_dim=8,
186
+ )
187
+ stage_2 = DecoderOnlyTransformer(
188
+ num_tokens=16 + 1,
189
+ max_seq_len=2,
190
+ attn_layers_dim=4,
191
+ attn_layers_depth=2,
192
+ attn_layers_heads=1,
193
+ with_cross_attention=False,
194
+ )
195
+ ordering = Ordering(ordering_type=OrderingType.RASTER_SCAN.value, spatial_dims=2, dimensions=(2, 2, 2))
196
+
197
+ device = "cuda:0" if torch.cuda.is_available() else "cpu"
198
+ stage_1.to(device)
199
+ stage_2.to(device)
200
+ stage_1.eval()
201
+ stage_2.eval()
202
+
203
+ inferer = VQVAETransformerInferer()
204
+
205
+ starting_token = 16 # from stage_1 num_embeddings
206
+
207
+ sample = inferer.sample(
208
+ latent_spatial_dim=(2, 2),
209
+ starting_tokens=starting_token * torch.ones((2, 1), device=device),
210
+ vqvae_model=stage_1,
211
+ transformer_model=stage_2,
212
+ ordering=ordering,
213
+ )
214
+ self.assertEqual(sample.shape, (2, 1, 8, 8))
215
+
216
+ @parameterized.expand(TEST_CASES)
217
+ @skipUnless(has_einops, "Requires einops")
218
+ def test_get_likelihood(
219
+ self, stage_1_params, stage_2_params, ordering_params, input_shape, logits_shape, latent_shape
220
+ ):
221
+ stage_1 = VQVAE(**stage_1_params)
222
+ stage_2 = DecoderOnlyTransformer(**stage_2_params)
223
+ ordering = Ordering(**ordering_params)
224
+
225
+ device = "cuda:0" if torch.cuda.is_available() else "cpu"
226
+ stage_1.to(device)
227
+ stage_2.to(device)
228
+ stage_1.eval()
229
+ stage_2.eval()
230
+
231
+ input = torch.randn(input_shape).to(device)
232
+
233
+ inferer = VQVAETransformerInferer()
234
+ likelihood = inferer.get_likelihood(
235
+ inputs=input, vqvae_model=stage_1, transformer_model=stage_2, ordering=ordering
236
+ )
237
+ self.assertEqual(likelihood.shape, latent_shape)
238
+
239
+ @parameterized.expand(TEST_CASES)
240
+ @skipUnless(has_einops, "Requires einops")
241
+ def test_get_likelihood_shorter_sequence(
242
+ self, stage_1_params, stage_2_params, ordering_params, input_shape, logits_shape, latent_shape
243
+ ):
244
+ stage_1 = VQVAE(**stage_1_params)
245
+ max_seq_len = 3
246
+ stage_2_params_shorter = dict(stage_2_params)
247
+ stage_2_params_shorter["max_seq_len"] = max_seq_len
248
+ stage_2 = DecoderOnlyTransformer(**stage_2_params_shorter)
249
+ ordering = Ordering(**ordering_params)
250
+
251
+ device = "cuda:0" if torch.cuda.is_available() else "cpu"
252
+ stage_1.to(device)
253
+ stage_2.to(device)
254
+ stage_1.eval()
255
+ stage_2.eval()
256
+
257
+ input = torch.randn(input_shape).to(device)
258
+
259
+ inferer = VQVAETransformerInferer()
260
+ likelihood = inferer.get_likelihood(
261
+ inputs=input, vqvae_model=stage_1, transformer_model=stage_2, ordering=ordering
262
+ )
263
+ self.assertEqual(likelihood.shape, latent_shape)
264
+
265
+ @parameterized.expand(TEST_CASES)
266
+ @skipUnless(has_einops, "Requires einops")
267
+ def test_get_likelihood_resampling(
268
+ self, stage_1_params, stage_2_params, ordering_params, input_shape, logits_shape, latent_shape
269
+ ):
270
+ stage_1 = VQVAE(**stage_1_params)
271
+ stage_2 = DecoderOnlyTransformer(**stage_2_params)
272
+ ordering = Ordering(**ordering_params)
273
+
274
+ device = "cuda:0" if torch.cuda.is_available() else "cpu"
275
+ stage_1.to(device)
276
+ stage_2.to(device)
277
+ stage_1.eval()
278
+ stage_2.eval()
279
+
280
+ input = torch.randn(input_shape).to(device)
281
+
282
+ inferer = VQVAETransformerInferer()
283
+ likelihood = inferer.get_likelihood(
284
+ inputs=input,
285
+ vqvae_model=stage_1,
286
+ transformer_model=stage_2,
287
+ ordering=ordering,
288
+ resample_latent_likelihoods=True,
289
+ resample_interpolation_mode="nearest",
290
+ )
291
+ self.assertEqual(likelihood.shape, input_shape)
292
+
293
+
294
+ if __name__ == "__main__":
295
+ unittest.main()
@@ -0,0 +1,10 @@
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.
@@ -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
+ import torch
17
+ from parameterized import parameterized
18
+
19
+ from monai.networks.schedulers import DDIMScheduler
20
+ from tests.test_utils import assert_allclose
21
+
22
+ TEST_2D_CASE = []
23
+ for beta_schedule in ["linear_beta", "scaled_linear_beta"]:
24
+ TEST_2D_CASE.append([{"schedule": beta_schedule}, (2, 6, 16, 16), (2, 6, 16, 16)])
25
+
26
+ TEST_3D_CASE = []
27
+ for beta_schedule in ["linear_beta", "scaled_linear_beta"]:
28
+ TEST_3D_CASE.append([{"schedule": beta_schedule}, (2, 6, 16, 16, 16), (2, 6, 16, 16, 16)])
29
+
30
+ TEST_CASES = TEST_2D_CASE + TEST_3D_CASE
31
+
32
+ TEST_FULl_LOOP = [
33
+ [{"schedule": "linear_beta"}, (1, 1, 2, 2), torch.Tensor([[[[-0.9579, -0.6457], [0.4684, -0.9694]]]])]
34
+ ]
35
+
36
+
37
+ class TestDDPMScheduler(unittest.TestCase):
38
+ @parameterized.expand(TEST_CASES)
39
+ def test_add_noise(self, input_param, input_shape, expected_shape):
40
+ scheduler = DDIMScheduler(**input_param)
41
+ scheduler.set_timesteps(num_inference_steps=100)
42
+ original_sample = torch.zeros(input_shape)
43
+ noise = torch.randn_like(original_sample)
44
+ timesteps = torch.randint(0, scheduler.num_train_timesteps, (original_sample.shape[0],)).long()
45
+
46
+ noisy = scheduler.add_noise(original_samples=original_sample, noise=noise, timesteps=timesteps)
47
+ self.assertEqual(noisy.shape, expected_shape)
48
+
49
+ @parameterized.expand(TEST_CASES)
50
+ def test_step_shape(self, input_param, input_shape, expected_shape):
51
+ scheduler = DDIMScheduler(**input_param)
52
+ scheduler.set_timesteps(num_inference_steps=100)
53
+ model_output = torch.randn(input_shape)
54
+ sample = torch.randn(input_shape)
55
+ output_step = scheduler.step(model_output=model_output, timestep=500, sample=sample)
56
+ self.assertEqual(output_step[0].shape, expected_shape)
57
+ self.assertEqual(output_step[1].shape, expected_shape)
58
+
59
+ @parameterized.expand(TEST_FULl_LOOP)
60
+ def test_full_timestep_loop(self, input_param, input_shape, expected_output):
61
+ scheduler = DDIMScheduler(**input_param)
62
+ scheduler.set_timesteps(50)
63
+ torch.manual_seed(42)
64
+ model_output = torch.randn(input_shape)
65
+ sample = torch.randn(input_shape)
66
+ for t in range(50):
67
+ sample, _ = scheduler.step(model_output=model_output, timestep=t, sample=sample)
68
+ assert_allclose(sample, expected_output, rtol=1e-3, atol=1e-3)
69
+
70
+ def test_set_timesteps(self):
71
+ scheduler = DDIMScheduler(num_train_timesteps=1000)
72
+ scheduler.set_timesteps(num_inference_steps=100)
73
+ self.assertEqual(scheduler.num_inference_steps, 100)
74
+ self.assertEqual(len(scheduler.timesteps), 100)
75
+
76
+ def test_set_timesteps_with_num_inference_steps_bigger_than_num_train_timesteps(self):
77
+ scheduler = DDIMScheduler(num_train_timesteps=1000)
78
+ with self.assertRaises(ValueError):
79
+ scheduler.set_timesteps(num_inference_steps=2000)
80
+
81
+
82
+ if __name__ == "__main__":
83
+ unittest.main()