Index

A

annotations_fn (MergeAnnotationsConfig attribute) apply_mask (PytorchSegmentationConfig attribute)

autocast (ModelConfig attribute) (PytorchSegmentationConfig attribute)

B

background_color (PytorchSegmentationConfig attribute)

batch_size (ModelConfig attribute) (PytorchSegmentationConfig attribute)

C

channel_names (DataDescriptorSchema attribute) clear_border (SegmentationPostprocessingConfig attribute)

closing_radius (SegmentationPostprocessingConfig attribute) compatible_predictions_only (PolyTaxoConfig attribute)

D

default_meta (LokiInputConfig attribute) detect_duplicates (LokiInputConfig attribute) (PostprocessingConfig attribute) device (ModelConfig attribute) (PytorchSegmentationConfig attribute)

discover (LokiInputConfig attribute) draw (SegmentationConfig attribute) dtype (ModelConfig attribute) (PytorchSegmentationConfig attribute)

E

ecotaxa_taxonomy_fn (PolyTaxoConfig attribute)

F

fill_holes (SegmentationConfig attribute) filter_expr (LokiInputConfig attribute) (PostprocessingConfig attribute) (SegmentationConfig attribute)

filter_validated (PolyTaxoConfig attribute) full_frame_archive_fn (PytorchSegmentationConfig attribute)

I

ignore_patterns (EcoTaxaInputConfig attribute) (LokiInputConfig attribute)

image_fn (EcoTaxaOutputConfig attribute) input (PredictionPipelineConfig attribute) (SegmentationPipelineConfig attribute)

K

keep_background (PytorchSegmentationConfig attribute)

L

log_interval (PredictionPipelineConfig attribute) (SegmentationPipelineConfig attribute)

M

max_age (DetectDuplicatesConfig attribute) max_n_objects (EcoTaxaInputConfig attribute) maze_ipp.loki.config_schema module maze_ipp.predict.config_schema module merge_annotations (PostprocessingConfig attribute) merge_segments_distance (SegmentationPostprocessingConfig attribute) merge_telemetry (LokiInputConfig attribute) meta (ModelConfig attribute)

min_area (SegmentationPostprocessingConfig attribute) min_intensity (PytorchSegmentationConfig attribute) min_overlap (MergeAnnotationsConfig attribute) min_similarity (DetectDuplicatesConfig attribute) min_validated_overlap (MergeAnnotationsConfig attribute) model (PredictionPipelineConfig attribute) model_fn (ModelConfig attribute) (PytorchSegmentationConfig attribute) module maze_ipp.loki.config_schema maze_ipp.predict.config_schema

N

n_threads (ModelConfig attribute) (PytorchSegmentationConfig attribute) (SegmentationPostprocessingConfig attribute)

O

opening_radius (SegmentationPostprocessingConfig attribute)

output (SegmentationPipelineConfig attribute) outputs (ModelMetaSchema attribute)

P

padding (PytorchSegmentationConfig attribute) parse_shortform() (SegmentationConfig method) path (EcoTaxaInputConfig attribute) (LokiInputConfig attribute) poly_taxonomy_fn (PolyTaxoConfig attribute)

polytaxo (PredictionPipelineConfig attribute) postprocess (PytorchSegmentationConfig attribute) (SegmentationPipelineConfig attribute) prediction_constraint_rules (PolyTaxoConfig attribute) px_per_mm (ScalebarConfig attribute) pytorch (SegmentationConfig attribute)

R

rescale_max_intensity (PostprocessingConfig attribute)

S

save_meta (LokiInputConfig attribute) save_raw_descriptions (PolyTaxoConfig attribute) save_raw_h5 (PredictionPipelineConfig attribute) scalebar (PostprocessingConfig attribute) segmentation (PredictionPipelineConfig attribute) (SegmentationPipelineConfig attribute) size (TilingConfig attribute) skip_existing (EcoTaxaOutputConfig attribute)

skip_single (StitchConfig attribute) skip_unchanged_objects (PolyTaxoConfig attribute) slice (LokiInputConfig attribute) (PostprocessingConfig attribute) stitch (PytorchSegmentationConfig attribute) store_mask (EcoTaxaOutputConfig attribute) stride (TilingConfig attribute) strip_metadata (PolyTaxoConfig attribute)

T

target_dir (EcoTaxaOutputConfig attribute) (PredictionPipelineConfig attribute) taxonomy_augmentation_rules (PolyTaxoConfig attribute) threshold (PolyTaxoConfig attribute) (SegmentationConfig attribute)

threshold_brighter (ThresholdSegmentationConfig attribute) threshold_relative (PolyTaxoConfig attribute) tiling (ModelConfig attribute) tolerance (MergeTelemetryConfig attribute) type_header (EcoTaxaOutputConfig attribute)

V

valid_frames_fn (LokiInputConfig attribute)