Index

_

__init__() (monailabel.client.client.MONAILabelClient method) (monailabel.client.client.MONAILabelClientException method) (monailabel.datastore.local.LocalDatastore method) (monailabel.deepedit.handlers.TensorBoardImageHandler method) (monailabel.interfaces.tasks.infer.InferTask method) (monailabel.interfaces.tasks.infer_v2.InferTask method) (monailabel.tasks.infer.basic_infer.BasicInferTask method) (monailabel.tasks.train.basic_train.BasicTrainTask method) (monailabel.transform.post.MergeAllPreds method)

A

action_apps() (monailabel.main.Main method) action_datasets() (monailabel.main.Main method) action_plugins() (monailabel.main.Main method) action_start_server() (monailabel.main.Main method) add_cache_transform() (monailabel.tasks.infer.basic_infer.BasicInferTask method) add_image() (monailabel.datastore.dsa.DSADatastore method) (monailabel.datastore.local.LocalDatastore method) (monailabel.interfaces.datastore.Datastore method) add_session() (monailabel.utils.sessions.Sessions method) AddBackgroundScribblesFromROId (class in monailabel.scribbles.transforms) AddClickGuidanced (class in monailabel.deepedit.transforms) AddGuidanceSignald (class in monailabel.deepedit.transforms) AddInitialSeedPointd (class in monailabel.deepedit.transforms) ANNOTATION (monailabel.interfaces.tasks.infer_v2.InferType attribute) APP_ERROR (monailabel.interfaces.exception.MONAILabelError attribute) APP_INFERENCE_FAILED (monailabel.interfaces.exception.MONAILabelError attribute) APP_INIT_ERROR (monailabel.interfaces.exception.MONAILabelError attribute)

app_instance() (in module monailabel.interfaces.utils.app) APP_TRAIN_FAILED (monailabel.interfaces.exception.MONAILabelError attribute) ApplyCRFOptimisationd (class in monailabel.scribbles.transforms) ApplyGraphCutOptimisationd (class in monailabel.scribbles.transforms) args_apps() (monailabel.main.Main method) args_datasets() (monailabel.main.Main method) args_parser() (monailabel.main.Main method) args_plugins() (monailabel.main.Main method) args_start_server() (monailabel.main.Main method) AsyncTask (class in monailabel.utils.async_tasks.task) attach() (monailabel.deepedit.handlers.TensorBoard2DImageHandler method) (monailabel.deepedit.handlers.TensorBoardImageHandler method) (monailabel.tasks.train.handler.PublishStatsAndModel method) auth_enabled() (monailabel.client.client.MONAILabelClient method) auth_token() (monailabel.client.client.MONAILabelClient method) (monailabel.interfaces.config.TaskConfig method) auth_valid_token() (monailabel.client.client.MONAILabelClient method)

B

base_path (monailabel.datastore.local.LocalDatastoreModel attribute) BasicInferTask (class in monailabel.tasks.infer.basic_infer) BasicTrainTask (class in monailabel.tasks.train.basic_train) BatchInferImageType (class in monailabel.interfaces.tasks.batch_infer) BatchInferTask (class in monailabel.interfaces.tasks.batch_infer) bounding_box() (monailabel.deepedit.transforms.SpatialCropGuidanced method)

BoundingBoxd (class in monailabel.transform.post) BundleConstants (class in monailabel.tasks.infer.bundle) (class in monailabel.tasks.train.bundle) BundleInferTask (class in monailabel.tasks.infer.bundle) BundleTrainTask (class in monailabel.tasks.train.bundle) bytes_to_str() (in module monailabel.client.client)

C

CacheTransformDatad (class in monailabel.transform.cache) CallBackTypes (class in monailabel.tasks.infer.basic_infer) class_args_to_exp() (in module monailabel.utils.others.class_utils) CLASS_INIT_ERROR (monailabel.interfaces.exception.MONAILabelError attribute) CLASSIFICATION (monailabel.interfaces.tasks.infer_v2.InferType attribute) ClassificationWriter (class in monailabel.transform.writer) cleanup() (monailabel.sam2.infer.ImageCache method) (monailabel.tasks.train.basic_train.BasicTrainTask method) clear() (monailabel.tasks.infer.basic_infer.BasicInferTask method) clear_cache() (in module monailabel.interfaces.utils.app) (monailabel.tasks.infer.basic_infer.BasicInferTask method) close() (monailabel.deepedit.handlers.TensorBoardImageHandler method) config() (monailabel.interfaces.tasks.infer_v2.InferTask method) (monailabel.interfaces.tasks.train.TrainTask method) (monailabel.tasks.infer.basic_infer.BasicInferTask method) (monailabel.tasks.train.basic_train.BasicTrainTask method) (monailabel.tasks.train.bundle.BundleTrainTask method)

configs() (monailabel.tasks.infer.bundle.BundleConstants method) (monailabel.tasks.train.bundle.BundleConstants method) Context (class in monailabel.tasks.train.basic_train) create_asap_annotations_xml() (in module monailabel.utils.others.pathology) create_dataset_from_path() (in module monailabel.utils.others.generic) create_dsa_annotations_json() (in module monailabel.utils.others.pathology) create_infer_wsi_tasks() (in module monailabel.interfaces.utils.wsi) create_infer_wsi_tasks_from_tiles() (in module monailabel.interfaces.utils.wsi) create_session() (monailabel.client.client.MONAILabelClient method) create_slicer_detection_json() (in module monailabel.utils.others.detection) CVATDatastore (class in monailabel.datastore.cvat)

D

datalist() (monailabel.datastore.dsa.DSADatastore method) (monailabel.datastore.local.LocalDatastore method) (monailabel.interfaces.datastore.Datastore method) DataModel (class in monailabel.datastore.local) Datastore (class in monailabel.interfaces.datastore) datastore() (monailabel.client.client.MONAILabelClient method) DEEPEDIT (monailabel.interfaces.tasks.infer_v2.InferType attribute) DEEPGROW (monailabel.interfaces.tasks.infer_v2.InferType attribute) DefaultLabelTag (class in monailabel.interfaces.datastore) description (monailabel.datastore.local.LocalDatastoreModel attribute) description() (monailabel.datastore.cvat.CVATDatastore method) (monailabel.datastore.dsa.DSADatastore method) (monailabel.datastore.local.LocalDatastore method) (monailabel.interfaces.datastore.Datastore method)

DETECTION (monailabel.interfaces.tasks.infer_v2.InferType attribute) DetectionWriter (class in monailabel.transform.writer) detector() (monailabel.tasks.infer.basic_infer.BasicInferTask method) (monailabel.tasks.infer.bundle.BundleInferTask method) device_list() (in module monailabel.utils.others.generic) device_map() (in module monailabel.utils.others.generic) Dice (class in monailabel.tasks.scoring.dice) dicom_web_download_series() (in module monailabel.datastore.utils.dicom) dicom_web_upload_dcm() (in module monailabel.datastore.utils.dicom) download_file() (in module monailabel.utils.others.generic) download_from_cvat() (monailabel.datastore.cvat.CVATDatastore method) download_label() (monailabel.client.client.MONAILabelClient method) DSADatastore (class in monailabel.datastore.dsa) dump_data() (in module monailabel.interfaces.utils.transform) DumpImagePrediction2Dd (class in monailabel.transform.post)

E

encode_multipart_formdata() (monailabel.client.client.MONAILabelUtils static method) entropy_3d_volume() (monailabel.tasks.scoring.epistemic.EpistemicScoring method) entropy_volume() (monailabel.tasks.scoring.epistemic_v2.EpistemicScoring method) Epistemic (class in monailabel.tasks.activelearning.epistemic) EpistemicScoring (class in monailabel.tasks.scoring.epistemic) (class in monailabel.tasks.scoring.epistemic_v2)

error (monailabel.client.client.MONAILabelClientException attribute) (monailabel.interfaces.exception.ImageNotFoundException attribute) (monailabel.interfaces.exception.LabelNotFoundException attribute) (monailabel.interfaces.exception.MONAILabelException attribute) event_names() (monailabel.tasks.train.basic_train.BasicTrainTask method) ext (monailabel.datastore.local.DataModel attribute) ExtremePointsd (class in monailabel.transform.post)

F

file_checksum() (in module monailabel.utils.others.generic) file_ext() (in module monailabel.utils.others.generic) filter_by_tag() (monailabel.datastore.local.LocalDatastoreModel method) FINAL (monailabel.interfaces.datastore.DefaultLabelTag attribute)

finalize() (monailabel.tasks.train.basic_train.BasicTrainTask method) FindContoursd (class in monailabel.transform.post) First (class in monailabel.tasks.activelearning.first) from_engine_idx() (in module monailabel.tasks.train.utils)

G

generate_key() (in module monailabel.datastore.utils.dicom) get_annotations_by_image_id() (monailabel.datastore.dsa.DSADatastore method) get_basename() (in module monailabel.utils.others.generic) get_basename_no_ext() (in module monailabel.utils.others.generic) get_bundle_models() (in module monailabel.utils.others.generic) get_cache_dir() (monailabel.tasks.train.basic_train.BasicTrainTask method) get_class_info() (in module monailabel.utils.others.class_utils) get_class_names() (in module monailabel.utils.others.class_utils) get_class_of_subclass() (in module monailabel.utils.others.class_utils) get_class_of_subclass_from_file() (in module monailabel.utils.others.class_utils) get_color() (in module monailabel.utils.others.label_colors) get_content_type() (monailabel.client.client.MONAILabelUtils static method) get_cvat_project_id() (monailabel.datastore.cvat.CVATDatastore method) get_cvat_task_id() (monailabel.datastore.cvat.CVATDatastore method) get_dataset_archive() (monailabel.datastore.dsa.DSADatastore method) (monailabel.datastore.local.LocalDatastore method) (monailabel.interfaces.datastore.Datastore method) get_eps() (in module monailabel.scribbles.utils) get_filename() (monailabel.client.client.MONAILabelUtils static method) get_image() (monailabel.datastore.dsa.DSADatastore method) (monailabel.datastore.local.LocalDatastore method) (monailabel.interfaces.datastore.Datastore method) get_image_info() (monailabel.datastore.dsa.DSADatastore method) (monailabel.datastore.local.LocalDatastore method) (monailabel.interfaces.datastore.Datastore method) get_image_uri() (monailabel.datastore.dsa.DSADatastore method) (monailabel.datastore.local.LocalDatastore method) (monailabel.interfaces.datastore.Datastore method) get_images() (monailabel.interfaces.tasks.batch_infer.BatchInferTask method) get_label() (monailabel.datastore.dsa.DSADatastore method) (monailabel.datastore.local.LocalDatastore method) (monailabel.interfaces.datastore.Datastore method)

get_label_by_image_id() (monailabel.datastore.dsa.DSADatastore method) (monailabel.datastore.local.LocalDatastore method) (monailabel.interfaces.datastore.Datastore method) get_label_info() (monailabel.datastore.dsa.DSADatastore method) (monailabel.datastore.local.LocalDatastore method) (monailabel.interfaces.datastore.Datastore method) get_label_uri() (monailabel.datastore.dsa.DSADatastore method) (monailabel.datastore.local.LocalDatastore method) (monailabel.interfaces.datastore.Datastore method) get_labeled_images() (monailabel.datastore.dsa.DSADatastore method) (monailabel.datastore.local.LocalDatastore method) (monailabel.interfaces.datastore.Datastore method) get_labels_by_image_id() (monailabel.datastore.dsa.DSADatastore method) (monailabel.datastore.local.LocalDatastore method) (monailabel.interfaces.datastore.Datastore method) get_largest_cc() (monailabel.transform.post.LargestCCd static method) get_mime_type() (in module monailabel.utils.others.generic) get_path() (monailabel.interfaces.tasks.infer_v2.InferTask method) (monailabel.tasks.infer.basic_infer.BasicInferTask method) get_scu() (in module monailabel.datastore.utils.dicom) get_server_url() (monailabel.client.client.MONAILabelClient method) get_session() (monailabel.client.client.MONAILabelClient method) (monailabel.utils.sessions.Sessions method) get_unlabeled_images() (monailabel.datastore.dsa.DSADatastore method) (monailabel.datastore.local.LocalDatastore method) (monailabel.interfaces.datastore.Datastore method) get_zoo_bundle() (in module monailabel.utils.others.generic) GMMBasedGraphCut (class in monailabel.scribbles.infer) gpu_count() (in module monailabel.utils.others.generic) gpu_memory_map() (in module monailabel.utils.others.generic)

H

handle_torch_linalg_multithread() (in module monailabel.utils.others.generic) HeuristicPlanner (class in monailabel.utils.others.planner) HistogramBasedGraphCut (class in monailabel.scribbles.infer)

http_method() (monailabel.client.client.MONAILabelUtils static method) http_multipart() (monailabel.client.client.MONAILabelUtils static method) http_upload() (monailabel.client.client.MONAILabelUtils static method)

I

image (monailabel.datastore.local.ImageLabelModel attribute) image_path() (monailabel.datastore.local.LocalDatastoreModel method) ImageCache (class in monailabel.sam2.infer) ImageLabelModel (class in monailabel.datastore.local) ImageNotFoundException IMAGES_ALL (monailabel.interfaces.tasks.batch_infer.BatchInferImageType attribute) images_dir (monailabel.datastore.local.LocalDatastoreModel attribute) IMAGES_LABELED (monailabel.interfaces.tasks.batch_infer.BatchInferImageType attribute) IMAGES_UNLABELED (monailabel.interfaces.tasks.batch_infer.BatchInferImageType attribute) infer() (monailabel.client.client.MONAILabelClient method) (monailabel.interfaces.config.TaskConfig method) infer_seg() (monailabel.tasks.scoring.epistemic.EpistemicScoring method) INFERENCE_ERROR (monailabel.interfaces.exception.MONAILabelError attribute) INFERER (monailabel.tasks.infer.basic_infer.CallBackTypes attribute) inferer() (monailabel.scribbles.infer.GMMBasedGraphCut method) (monailabel.scribbles.infer.HistogramBasedGraphCut method) (monailabel.scribbles.infer.ScribblesLikelihoodInferTask method) (monailabel.tasks.infer.basic_infer.BasicInferTask method) (monailabel.tasks.infer.bundle.BundleInferTask method) InferTask (class in monailabel.interfaces.tasks.infer) (class in monailabel.interfaces.tasks.infer_v2) InferType (class in monailabel.interfaces.tasks.infer_v2) info (monailabel.datastore.local.DataModel attribute) info() (monailabel.client.client.MONAILabelClient method) (monailabel.interfaces.tasks.infer_v2.InferTask method) (monailabel.interfaces.tasks.scoring.ScoringMethod method) (monailabel.interfaces.tasks.strategy.Strategy method) (monailabel.interfaces.tasks.train.TrainTask method) (monailabel.sam2.infer.Sam2InferTask method) (monailabel.tasks.infer.basic_infer.BasicInferTask method) (monailabel.tasks.infer.bundle.BundleInferTask method) (monailabel.tasks.train.basic_train.BasicTrainTask method) (monailabel.tasks.train.bundle.BundleTrainTask method)

init() (monailabel.interfaces.config.TaskConfig method) init_cache() (in module monailabel.transform.cache) init_class() (in module monailabel.utils.others.class_utils) init_class_from_exp() (in module monailabel.utils.others.class_utils) init_log_config() (in module monailabel.utils.others.generic) Interaction (class in monailabel.deepedit.interaction) InteractiveSegmentationTransform (class in monailabel.scribbles.transforms) INVALID_INPUT (monailabel.interfaces.exception.MONAILabelError attribute) inverse_transforms() (monailabel.tasks.infer.basic_infer.BasicInferTask method) INVERT_TRANSFORMS (monailabel.tasks.infer.basic_infer.CallBackTypes attribute) is_multichannel_image() (monailabel.transform.writer.Writer method) is_openslide_supported() (in module monailabel.utils.others.generic) is_package_installed() (in module monailabel.config) is_sam2_module_available() (in module monailabel.sam2.utils) is_subclass() (in module monailabel.utils.others.class_utils) is_valid() (monailabel.interfaces.tasks.infer_v2.InferTask method) (monailabel.sam2.infer.Sam2InferTask method) (monailabel.tasks.infer.basic_infer.BasicInferTask method) (monailabel.tasks.infer.bundle.BundleInferTask method) (monailabel.tasks.train.bundle.BundleTrainTask method) iteration_completed() (monailabel.tasks.train.handler.PublishStatsAndModel method)

J

json() (monailabel.datastore.dsa.DSADatastore method) (monailabel.datastore.local.LocalDatastore method) (monailabel.interfaces.datastore.Datastore method)

K

key_bundle_root() (monailabel.tasks.infer.bundle.BundleConstants method) (monailabel.tasks.train.bundle.BundleConstants method) key_detector() (monailabel.tasks.infer.bundle.BundleConstants method) key_detector_ops() (monailabel.tasks.infer.bundle.BundleConstants method) key_device() (monailabel.tasks.infer.bundle.BundleConstants method) (monailabel.tasks.train.bundle.BundleConstants method) key_displayable_configs() (monailabel.tasks.infer.bundle.BundleConstants method) (monailabel.tasks.train.bundle.BundleConstants method) key_experiment_name() (monailabel.tasks.train.bundle.BundleConstants method) key_inferer() (monailabel.tasks.infer.bundle.BundleConstants method) key_network() (monailabel.tasks.train.bundle.BundleConstants method)

key_network_def() (monailabel.tasks.infer.bundle.BundleConstants method) (monailabel.tasks.train.bundle.BundleConstants method) key_postprocessing() (monailabel.tasks.infer.bundle.BundleConstants method) key_preprocessing() (monailabel.tasks.infer.bundle.BundleConstants method) key_run_name() (monailabel.tasks.train.bundle.BundleConstants method) key_tracking() (monailabel.tasks.train.bundle.BundleConstants method) key_tracking_uri() (monailabel.tasks.train.bundle.BundleConstants method) key_train_dataset_data() (monailabel.tasks.train.bundle.BundleConstants method) key_train_handlers() (monailabel.tasks.train.bundle.BundleConstants method) key_train_trainer_max_epochs() (monailabel.tasks.train.bundle.BundleConstants method) key_validate_dataset_data() (monailabel.tasks.train.bundle.BundleConstants method)

L

label() (monailabel.datastore.local.LocalDatastoreModel method) label_path() (monailabel.datastore.local.LocalDatastoreModel method) LabelNotFoundException labels (monailabel.datastore.local.ImageLabelModel attribute) labels_dir (monailabel.datastore.local.LocalDatastoreModel attribute) labels_path() (monailabel.datastore.local.LocalDatastoreModel method) LargestCCd (class in monailabel.transform.post) learn_and_apply_gmm_monai() (in module monailabel.scribbles.utils) list_images() (monailabel.datastore.dsa.DSADatastore method) (monailabel.datastore.local.LocalDatastore method) (monailabel.interfaces.datastore.Datastore method)

load() (monailabel.transform.cache.CacheTransformDatad method) load_path() (monailabel.tasks.train.basic_train.BasicTrainTask method) LoadImageExd (class in monailabel.transform.pre) LoadImageTensord (class in monailabel.transform.pre) LocalDatastore (class in monailabel.datastore.local) LocalDatastoreModel (class in monailabel.datastore.local) loss_function() (monailabel.tasks.train.basic_train.BasicTrainTask method) lr_scheduler_handler() (monailabel.tasks.train.basic_train.BasicTrainTask method)

M

Main (class in monailabel.main) main_worker() (in module monailabel.tasks.train.basic_train) make_histograms() (in module monailabel.scribbles.utils) make_iseg_unary() (in module monailabel.scribbles.utils) make_likelihood_image_gmm() (in module monailabel.scribbles.utils) make_likelihood_image_histogram() (in module monailabel.scribbles.utils) MakeISegUnaryd (class in monailabel.scribbles.transforms) MakeLikelihoodFromScribblesGMMd (class in monailabel.scribbles.transforms) MakeLikelihoodFromScribblesHistogramd (class in monailabel.scribbles.transforms) maxflow() (in module monailabel.scribbles.utils) md5_digest() (in module monailabel.utils.others.generic) MergeAllPreds (class in monailabel.transform.post) metadata_json() (monailabel.tasks.infer.bundle.BundleConstants method) (monailabel.tasks.train.bundle.BundleConstants method) model_computed_fields (monailabel.config.Settings attribute) (monailabel.datastore.local.DataModel attribute) (monailabel.datastore.local.ImageLabelModel attribute) (monailabel.datastore.local.LocalDatastoreModel attribute) model_config (monailabel.config.Settings attribute) (monailabel.datastore.local.DataModel attribute) (monailabel.datastore.local.ImageLabelModel attribute) (monailabel.datastore.local.LocalDatastoreModel attribute) model_fields (monailabel.config.Settings attribute) (monailabel.datastore.local.DataModel attribute) (monailabel.datastore.local.ImageLabelModel attribute) (monailabel.datastore.local.LocalDatastoreModel attribute) MODEL_IMPORT_ERROR (monailabel.interfaces.exception.MONAILabelError attribute) model_pytorch() (monailabel.tasks.infer.bundle.BundleConstants method) (monailabel.tasks.train.bundle.BundleConstants method) model_torchscript() (monailabel.tasks.infer.bundle.BundleConstants method) module monailabel monailabel.client monailabel.client.client monailabel.config monailabel.datastore monailabel.datastore.cvat monailabel.datastore.dsa monailabel.datastore.local monailabel.datastore.utils monailabel.datastore.utils.colors monailabel.datastore.utils.dicom monailabel.deepedit monailabel.deepedit.handlers monailabel.deepedit.interaction monailabel.deepedit.transforms monailabel.interfaces monailabel.interfaces.config monailabel.interfaces.datastore monailabel.interfaces.exception monailabel.interfaces.tasks monailabel.interfaces.tasks.batch_infer monailabel.interfaces.tasks.infer monailabel.interfaces.tasks.infer_v2 monailabel.interfaces.tasks.scoring monailabel.interfaces.tasks.strategy monailabel.interfaces.tasks.train monailabel.interfaces.utils monailabel.interfaces.utils.app monailabel.interfaces.utils.transform monailabel.interfaces.utils.wsi monailabel.main monailabel.sam2 monailabel.sam2.infer monailabel.sam2.utils monailabel.scribbles monailabel.scribbles.infer monailabel.scribbles.transforms monailabel.scribbles.utils monailabel.tasks monailabel.tasks.activelearning monailabel.tasks.activelearning.epistemic monailabel.tasks.activelearning.first monailabel.tasks.activelearning.random monailabel.tasks.infer monailabel.tasks.infer.basic_infer monailabel.tasks.infer.bundle monailabel.tasks.scoring monailabel.tasks.scoring.dice monailabel.tasks.scoring.epistemic monailabel.tasks.scoring.epistemic_v2 monailabel.tasks.scoring.sum monailabel.tasks.train monailabel.tasks.train.basic_train monailabel.tasks.train.bundle monailabel.tasks.train.handler monailabel.tasks.train.utils monailabel.transform monailabel.transform.cache monailabel.transform.post monailabel.transform.pre monailabel.transform.writer monailabel.utils monailabel.utils.async_tasks monailabel.utils.async_tasks.task monailabel.utils.async_tasks.utils monailabel.utils.others monailabel.utils.others.class_utils monailabel.utils.others.detection monailabel.utils.others.generic monailabel.utils.others.label_colors monailabel.utils.others.modelzoo_list monailabel.utils.others.pathology monailabel.utils.others.planner monailabel.utils.sessions module_from_file() (in module monailabel.utils.others.class_utils) MONAI_LABEL_API_STR (monailabel.config.Settings attribute) MONAI_LABEL_APP_CONF (monailabel.config.Settings attribute) MONAI_LABEL_APP_DIR (monailabel.config.Settings attribute) MONAI_LABEL_AUTH_CLIENT_ID (monailabel.config.Settings attribute) MONAI_LABEL_AUTH_ENABLE (monailabel.config.Settings attribute) MONAI_LABEL_AUTH_REALM_URI (monailabel.config.Settings attribute) MONAI_LABEL_AUTH_ROLE_ADMIN (monailabel.config.Settings attribute) MONAI_LABEL_AUTH_ROLE_ANNOTATOR (monailabel.config.Settings attribute) MONAI_LABEL_AUTH_ROLE_REVIEWER (monailabel.config.Settings attribute) MONAI_LABEL_AUTH_ROLE_USER (monailabel.config.Settings attribute) MONAI_LABEL_AUTH_TIMEOUT (monailabel.config.Settings attribute) MONAI_LABEL_AUTH_TOKEN_EMAIL (monailabel.config.Settings attribute) MONAI_LABEL_AUTH_TOKEN_NAME (monailabel.config.Settings attribute) MONAI_LABEL_AUTH_TOKEN_ROLES (monailabel.config.Settings attribute) MONAI_LABEL_AUTH_TOKEN_USERNAME (monailabel.config.Settings attribute) MONAI_LABEL_AUTO_UPDATE_SCORING (monailabel.config.Settings attribute) MONAI_LABEL_CORS_ORIGINS (monailabel.config.Settings attribute) MONAI_LABEL_DATASTORE (monailabel.config.Settings attribute) MONAI_LABEL_DATASTORE_API_KEY (monailabel.config.Settings attribute) MONAI_LABEL_DATASTORE_ASSET_PATH (monailabel.config.Settings attribute) MONAI_LABEL_DATASTORE_AUTO_RELOAD (monailabel.config.Settings attribute) MONAI_LABEL_DATASTORE_CACHE_PATH (monailabel.config.Settings attribute) MONAI_LABEL_DATASTORE_DSA_ANNOTATION_GROUPS (monailabel.config.Settings attribute) MONAI_LABEL_DATASTORE_FILE_EXT (monailabel.config.Settings attribute) MONAI_LABEL_DATASTORE_PASSWORD (monailabel.config.Settings attribute) MONAI_LABEL_DATASTORE_PROJECT (monailabel.config.Settings attribute) MONAI_LABEL_DATASTORE_READ_ONLY (monailabel.config.Settings attribute) MONAI_LABEL_DATASTORE_URL (monailabel.config.Settings attribute) MONAI_LABEL_DATASTORE_USERNAME (monailabel.config.Settings attribute) MONAI_LABEL_DICOMWEB_CACHE_EXPIRY (monailabel.config.Settings attribute) MONAI_LABEL_DICOMWEB_CACHE_PATH (monailabel.config.Settings attribute) MONAI_LABEL_DICOMWEB_CONVERT_TO_NIFTI (monailabel.config.Settings attribute) MONAI_LABEL_DICOMWEB_FETCH_BY_FRAME (monailabel.config.Settings attribute) MONAI_LABEL_DICOMWEB_PASSWORD (monailabel.config.Settings attribute) MONAI_LABEL_DICOMWEB_PROXY_TIMEOUT (monailabel.config.Settings attribute) MONAI_LABEL_DICOMWEB_READ_TIMEOUT (monailabel.config.Settings attribute) MONAI_LABEL_DICOMWEB_SEARCH_FILTER (monailabel.config.Settings attribute) MONAI_LABEL_DICOMWEB_USERNAME (monailabel.config.Settings attribute) MONAI_LABEL_INFER_CONCURRENCY (monailabel.config.Settings attribute) MONAI_LABEL_INFER_TIMEOUT (monailabel.config.Settings attribute) MONAI_LABEL_PROJECT_NAME (monailabel.config.Settings attribute) MONAI_LABEL_QIDO_PREFIX (monailabel.config.Settings attribute) MONAI_LABEL_SERVER_PORT (monailabel.config.Settings attribute) MONAI_LABEL_SESSION_EXPIRY (monailabel.config.Settings attribute) MONAI_LABEL_SESSION_PATH (monailabel.config.Settings attribute) MONAI_LABEL_SESSIONS (monailabel.config.Settings attribute) MONAI_LABEL_STOW_PREFIX (monailabel.config.Settings attribute) MONAI_LABEL_STUDIES (monailabel.config.Settings attribute) MONAI_LABEL_TASKS_BATCH_INFER (monailabel.config.Settings attribute) MONAI_LABEL_TASKS_SCORING (monailabel.config.Settings attribute) MONAI_LABEL_TASKS_STRATEGY (monailabel.config.Settings attribute) MONAI_LABEL_TASKS_TRAIN (monailabel.config.Settings attribute) MONAI_LABEL_TRACKING_ENABLED (monailabel.config.Settings attribute) MONAI_LABEL_TRACKING_URI (monailabel.config.Settings attribute) MONAI_LABEL_USE_ITK_FOR_DICOM_SEG (monailabel.config.Settings attribute) MONAI_LABEL_WADO_PREFIX (monailabel.config.Settings attribute) MONAI_SAM_MODEL_CFG (monailabel.config.Settings attribute)

MONAI_SAM_MODEL_PT (monailabel.config.Settings attribute) MONAI_ZOO_AUTH_TOKEN (monailabel.config.Settings attribute) MONAI_ZOO_REPO (monailabel.config.Settings attribute) MONAI_ZOO_SOURCE (monailabel.config.Settings attribute) monailabel module monailabel.client module monailabel.client.client module monailabel.config module monailabel.datastore module monailabel.datastore.cvat module monailabel.datastore.dsa module monailabel.datastore.local module monailabel.datastore.utils module monailabel.datastore.utils.colors module monailabel.datastore.utils.dicom module monailabel.deepedit module monailabel.deepedit.handlers module monailabel.deepedit.interaction module monailabel.deepedit.transforms module monailabel.interfaces module monailabel.interfaces.config module monailabel.interfaces.datastore module monailabel.interfaces.exception module monailabel.interfaces.tasks module monailabel.interfaces.tasks.batch_infer module monailabel.interfaces.tasks.infer module monailabel.interfaces.tasks.infer_v2 module monailabel.interfaces.tasks.scoring module monailabel.interfaces.tasks.strategy module monailabel.interfaces.tasks.train module monailabel.interfaces.utils module monailabel.interfaces.utils.app module monailabel.interfaces.utils.transform module monailabel.interfaces.utils.wsi module monailabel.main module monailabel.sam2 module monailabel.sam2.infer module monailabel.sam2.utils module monailabel.scribbles module monailabel.scribbles.infer module monailabel.scribbles.transforms module monailabel.scribbles.utils module monailabel.tasks module monailabel.tasks.activelearning module monailabel.tasks.activelearning.epistemic module monailabel.tasks.activelearning.first module monailabel.tasks.activelearning.random module monailabel.tasks.infer module monailabel.tasks.infer.basic_infer module monailabel.tasks.infer.bundle module monailabel.tasks.scoring module monailabel.tasks.scoring.dice module monailabel.tasks.scoring.epistemic module monailabel.tasks.scoring.epistemic_v2 module monailabel.tasks.scoring.sum module monailabel.tasks.train module monailabel.tasks.train.basic_train module monailabel.tasks.train.bundle module monailabel.tasks.train.handler module monailabel.tasks.train.utils module monailabel.transform module monailabel.transform.cache module monailabel.transform.post module monailabel.transform.pre module monailabel.transform.writer module monailabel.utils module monailabel.utils.async_tasks module monailabel.utils.async_tasks.task module monailabel.utils.async_tasks.utils module monailabel.utils.others module monailabel.utils.others.class_utils module monailabel.utils.others.detection module monailabel.utils.others.generic module monailabel.utils.others.label_colors module monailabel.utils.others.modelzoo_list module monailabel.utils.others.pathology module monailabel.utils.others.planner module monailabel.utils.sessions module MONAILabelClient (class in monailabel.client.client) MONAILabelClientException MONAILabelError (class in monailabel.client.client) (class in monailabel.interfaces.exception) MONAILabelException MONAILabelUtils (class in monailabel.client.client) monitor() (monailabel.sam2.infer.ImageCache method) msg (monailabel.client.client.MONAILabelClientException attribute) (monailabel.interfaces.exception.ImageNotFoundException attribute) (monailabel.interfaces.exception.LabelNotFoundException attribute) (monailabel.interfaces.exception.MONAILabelException attribute) multi_gpu_configs() (monailabel.tasks.train.bundle.BundleConstants method)

N

name (monailabel.datastore.local.LocalDatastoreModel attribute) name() (monailabel.datastore.cvat.CVATDatastore method) (monailabel.datastore.dsa.DSADatastore method) (monailabel.datastore.local.LocalDatastore method) (monailabel.interfaces.datastore.Datastore method)

name_to_device() (in module monailabel.utils.others.generic) network() (monailabel.tasks.train.basic_train.BasicTrainTask method) next_sample() (monailabel.client.client.MONAILabelClient method) NGC_PATH (monailabel.interfaces.config.TaskConfig attribute) NormalizeLabeld (class in monailabel.transform.pre)

O

objects (monailabel.datastore.local.LocalDatastoreModel attribute) optimizer() (monailabel.tasks.train.basic_train.BasicTrainTask method)

ORIGINAL (monailabel.interfaces.datastore.DefaultLabelTag attribute) OTHERS (monailabel.interfaces.tasks.infer_v2.InferType attribute)

P

parse_multipart() (monailabel.client.client.MONAILabelUtils static method) partition_datalist() (monailabel.tasks.train.basic_train.BasicTrainTask method) path_to_uri() (in module monailabel.utils.others.generic) PolygonWriter (class in monailabel.transform.writer) POST_TRANSFORMS (monailabel.tasks.infer.basic_infer.CallBackTypes attribute) post_transforms() (monailabel.scribbles.infer.ScribblesLikelihoodInferTask method) (monailabel.tasks.infer.basic_infer.BasicInferTask method) (monailabel.tasks.infer.bundle.BundleInferTask method) pre_process() (monailabel.tasks.train.basic_train.BasicTrainTask method)

PRE_TRAINED_PATH (monailabel.interfaces.config.TaskConfig attribute) PRE_TRANSFORMS (monailabel.tasks.infer.basic_infer.CallBackTypes attribute) pre_transforms() (monailabel.scribbles.infer.ScribblesLikelihoodInferTask method) (monailabel.tasks.infer.basic_infer.BasicInferTask method) (monailabel.tasks.infer.bundle.BundleInferTask method) prepare_stats() (in module monailabel.tasks.train.handler) print_config() (in module monailabel) processes() (in module monailabel.utils.async_tasks.utils) PublishStatsAndModel (class in monailabel.tasks.train.handler)

R

Random (class in monailabel.tasks.activelearning.random) refresh() (monailabel.datastore.dsa.DSADatastore method) (monailabel.datastore.local.LocalDatastore method) (monailabel.interfaces.datastore.Datastore method) region_wise_metrics() (in module monailabel.tasks.train.utils) region_wise_rmse() (in module monailabel.tasks.train.utils) remove_expired() (monailabel.utils.sessions.Sessions method) remove_file() (in module monailabel.utils.others.generic) remove_image() (monailabel.datastore.dsa.DSADatastore method) (monailabel.datastore.local.LocalDatastore method) (monailabel.interfaces.datastore.Datastore method) remove_label() (monailabel.datastore.dsa.DSADatastore method) (monailabel.datastore.local.LocalDatastore method) (monailabel.interfaces.datastore.Datastore method) remove_session() (monailabel.client.client.MONAILabelClient method) (monailabel.utils.sessions.Sessions method) RenameKeyd (class in monailabel.transform.post) ResizeGuidanced (class in monailabel.deepedit.transforms) Restored (class in monailabel.transform.post)

RestoreLabeld (class in monailabel.deepedit.transforms) run() (monailabel.main.Main method) (monailabel.utils.async_tasks.task.AsyncTask static method) (monailabel.utils.others.planner.HeuristicPlanner method) run2d() (monailabel.sam2.infer.Sam2InferTask method) run_3d() (monailabel.sam2.infer.Sam2InferTask method) run_background_task() (in module monailabel.utils.async_tasks.utils) run_command() (in module monailabel.utils.others.generic) run_detector() (monailabel.tasks.infer.basic_infer.BasicInferTask method) run_infer_task() (in module monailabel.interfaces.tasks.batch_infer) run_inferer() (monailabel.tasks.infer.basic_infer.BasicInferTask method) run_invert_transforms() (monailabel.tasks.infer.basic_infer.BasicInferTask method) run_main() (in module monailabel.interfaces.utils.app) run_multi_gpu() (monailabel.tasks.train.bundle.BundleTrainTask method) run_post_transforms() (monailabel.tasks.infer.basic_infer.BasicInferTask method) run_pre_transforms() (monailabel.tasks.infer.basic_infer.BasicInferTask method) run_scoring() (monailabel.tasks.scoring.epistemic_v2.EpistemicScoring method) run_single_gpu() (monailabel.tasks.train.bundle.BundleTrainTask method) run_transforms() (in module monailabel.interfaces.utils.transform)

S

Sam2InferTask (class in monailabel.sam2.infer) save() (monailabel.transform.cache.CacheTransformDatad method) save_label() (monailabel.client.client.MONAILabelClient method) (monailabel.datastore.dsa.DSADatastore method) (monailabel.datastore.local.LocalDatastore method) (monailabel.interfaces.datastore.Datastore method) save_result() (in module monailabel.interfaces.utils.app) (monailabel.client.client.MONAILabelUtils static method) scoring_method() (monailabel.interfaces.config.TaskConfig method) ScoringMethod (class in monailabel.interfaces.tasks.scoring) SCRIBBLES (monailabel.interfaces.tasks.infer_v2.InferType attribute) ScribblesLikelihoodInferTask (class in monailabel.scribbles.infer) SECS_IN_DAY (monailabel.tasks.activelearning.epistemic.Epistemic attribute) SEGMENTATION (monailabel.interfaces.tasks.infer_v2.InferType attribute) send_response() (monailabel.client.client.MONAILabelUtils static method) SERVER_ERROR (monailabel.client.client.MONAILabelError attribute) (monailabel.interfaces.exception.MONAILabelError attribute) SESSION_EXPIRED (monailabel.client.client.MONAILabelError attribute) SessionInfo (class in monailabel.utils.sessions) Sessions (class in monailabel.utils.sessions) set_description() (monailabel.datastore.dsa.DSADatastore method) (monailabel.datastore.local.LocalDatastore method) (monailabel.interfaces.datastore.Datastore method) set_loglevel() (monailabel.tasks.infer.basic_infer.BasicInferTask method)

set_name() (monailabel.datastore.dsa.DSADatastore method) (monailabel.datastore.local.LocalDatastore method) (monailabel.interfaces.datastore.Datastore method) set_server_url() (monailabel.client.client.MONAILabelClient method) Settings (class in monailabel.config) shape_info() (in module monailabel.interfaces.utils.transform) signal() (monailabel.deepedit.transforms.AddGuidanceSignald method) SoftenProbSoftmax (class in monailabel.scribbles.transforms) SpatialCropForegroundd (class in monailabel.deepedit.transforms) SpatialCropGuidanced (class in monailabel.deepedit.transforms) start_server_init_settings() (monailabel.main.Main method) start_server_validate_args() (monailabel.main.Main method) stats() (monailabel.interfaces.tasks.train.TrainTask method) (monailabel.tasks.train.basic_train.BasicTrainTask method) status() (monailabel.datastore.dsa.DSADatastore method) (monailabel.datastore.local.LocalDatastore method) (monailabel.interfaces.datastore.Datastore method) (monailabel.utils.async_tasks.task.AsyncTask static method) stop() (monailabel.utils.async_tasks.task.AsyncTask static method) stop_background_task() (in module monailabel.utils.async_tasks.utils) store_scu() (in module monailabel.datastore.utils.dicom) Strategy (class in monailabel.interfaces.tasks.strategy) strategy() (monailabel.interfaces.config.TaskConfig method) strtobool() (in module monailabel.utils.others.generic) Sum (class in monailabel.tasks.scoring.sum)

T

tags() (monailabel.datastore.local.ImageLabelModel method) (monailabel.datastore.local.LocalDatastoreModel method) task_status() (monailabel.datastore.cvat.CVATDatastore method) TaskConfig (class in monailabel.interfaces.config) tasks() (in module monailabel.utils.async_tasks.utils) TensorBoard2DImageHandler (class in monailabel.deepedit.handlers) TensorBoardImageHandler (class in monailabel.deepedit.handlers) to_expression() (in module monailabel.utils.others.class_utils) to_hex() (in module monailabel.utils.others.label_colors) to_json() (monailabel.utils.sessions.SessionInfo method) to_rgb() (in module monailabel.utils.others.label_colors) to_str() (monailabel.utils.sessions.SessionInfo method) train() (monailabel.tasks.train.basic_train.BasicTrainTask method) train_additional_metrics() (monailabel.tasks.train.basic_train.BasicTrainTask method) train_data_loader() (monailabel.tasks.train.basic_train.BasicTrainTask method)

train_handlers() (monailabel.tasks.train.basic_train.BasicTrainTask method) train_inferer() (monailabel.tasks.train.basic_train.BasicTrainTask method) train_iteration_update() (monailabel.tasks.train.basic_train.BasicTrainTask method) train_key_metric() (monailabel.tasks.train.basic_train.BasicTrainTask method) TRAIN_METRIC_ACCURACY (monailabel.tasks.train.basic_train.BasicTrainTask attribute) TRAIN_METRIC_MEAN_DICE (monailabel.tasks.train.basic_train.BasicTrainTask attribute) train_post_transforms() (monailabel.tasks.train.basic_train.BasicTrainTask method) train_pre_transforms() (monailabel.tasks.train.basic_train.BasicTrainTask method) train_start() (monailabel.client.client.MONAILabelClient method) train_status() (monailabel.client.client.MONAILabelClient method) train_stop() (monailabel.client.client.MONAILabelClient method) trainer() (monailabel.interfaces.config.TaskConfig method) TrainTask (class in monailabel.interfaces.tasks.train) TRANSFORM_ERROR (monailabel.interfaces.exception.MONAILabelError attribute) trigger_automation() (monailabel.datastore.cvat.CVATDatastore method)

U

UNKNOWN (monailabel.client.client.MONAILabelError attribute) UNKNOWN_ERROR (monailabel.interfaces.exception.MONAILabelError attribute) unload_module() (in module monailabel.utils.others.class_utils) update_auth() (monailabel.client.client.MONAILabelClient method) update_image_info() (monailabel.datastore.dsa.DSADatastore method) (monailabel.datastore.local.LocalDatastore method) (monailabel.interfaces.datastore.Datastore method)

update_label_info() (monailabel.datastore.dsa.DSADatastore method) (monailabel.datastore.local.LocalDatastore method) (monailabel.interfaces.datastore.Datastore method) upload_image() (monailabel.client.client.MONAILabelClient method) upload_to_cvat() (monailabel.datastore.cvat.CVATDatastore method) urllib_quote_plus() (monailabel.client.client.MONAILabelUtils static method)

V

val_additional_metrics() (monailabel.tasks.train.basic_train.BasicTrainTask method) val_data_loader() (monailabel.tasks.train.basic_train.BasicTrainTask method) val_handlers() (monailabel.tasks.train.basic_train.BasicTrainTask method) val_inferer() (monailabel.tasks.train.basic_train.BasicTrainTask method) val_iteration_update() (monailabel.tasks.train.basic_train.BasicTrainTask method)

val_key_metric() (monailabel.tasks.train.basic_train.BasicTrainTask method) VAL_METRIC_ACCURACY (monailabel.tasks.train.basic_train.BasicTrainTask attribute) VAL_METRIC_MEAN_DICE (monailabel.tasks.train.basic_train.BasicTrainTask attribute) val_post_transforms() (monailabel.tasks.train.basic_train.BasicTrainTask method) val_pre_transforms() (monailabel.tasks.train.basic_train.BasicTrainTask method) variance_volume() (monailabel.tasks.scoring.epistemic_v2.EpistemicScoring method)

W

write_images() (monailabel.deepedit.handlers.TensorBoard2DImageHandler method) write_itk() (in module monailabel.transform.writer) write_nifti() (in module monailabel.transform.writer) write_seg_nrrd() (in module monailabel.transform.writer)

Writer (class in monailabel.transform.writer) WRITER (monailabel.tasks.infer.basic_infer.CallBackTypes attribute) writer() (monailabel.tasks.infer.basic_infer.BasicInferTask method) wsi_infer() (monailabel.client.client.MONAILabelClient method)