Index

_

__call__() (camfi.cli.Commander method) (camfi.datamodel.autoannotation.ImageTransform method) (camfi.plotting.matplotlib.MatplotlibWingbeatSuppFigPlotter method) (camfi.wingbeat.WingbeatSuppFigPlotter method) __config__ (camfi.datamodel.autoannotation.Prediction attribute) (camfi.datamodel.autoannotation.Target attribute) (camfi.datamodel.autoannotation.TargetPredictionABC attribute) (camfi.datamodel.via.ViaProject attribute) __dict__ (camfi.datamodel.autoannotation.TargetPredictionABC.Config attribute) (camfi.datamodel.via.ViaProject.Config attribute) __eq__() (camfi.wingbeat.WingbeatExtractor method) __ge__() (camfi.wingbeat.BcesResult method) __gt__() (camfi.wingbeat.BcesResult method) __hash__() (camfi.wingbeat.WingbeatExtractor method) __init__() (camfi.cli.Commander method) (camfi.util.SubDirDict method) (camfi.util.Timezone method)

__le__() (camfi.wingbeat.BcesResult method) __lt__() (camfi.wingbeat.BcesResult method) __or__() (camfi.datamodel.via.ViaProject method) __repr__() (camfi.util.SubDirDict method) (camfi.util.Timezone method) __str__() (camfi.util.Timezone method) __weakref__ (camfi.cli.Commander attribute) (camfi.cli.ConfigParseError attribute) (camfi.datamodel.autoannotation.CamfiDataset attribute) (camfi.datamodel.autoannotation.TargetPredictionABC.Config attribute) (camfi.datamodel.via.ViaProject.Config attribute) (camfi.projectconfig.ParameterUnspecifiedError attribute) (camfi.util.SubDirDict attribute) (camfi.util.Timezone attribute)

A

add_margin() (camfi.datamodel.geometry.BoundingBox method) alias_generator() (camfi.datamodel.via.ViaProject.Config method) all_fields_have_same_length() (camfi.datamodel.autoannotation.Prediction class method) (camfi.datamodel.autoannotation.TargetPredictionABC class method) all_masks_same_shape() (camfi.datamodel.autoannotation.TargetPredictionABC class method) annotate() (camfi.annotator.Annotator method) (camfi.cli.Commander method) (camfi.projectconfig.CamfiConfig method) annotate_img() (camfi.annotator.Annotator method) AnnotationValidationResult (class in camfi.annotator)

Annotator (class in camfi.annotator) AnnotatorConfig (class in camfi.projectconfig) AnnotatorConfigUnspecifiedError apply_image_filters() (camfi.projectconfig.CamfiConfig method) apply_region_filters() (camfi.projectconfig.CamfiConfig method) apply_to_tensor_dict() (camfi.datamodel.autoannotation.ImageTransform method) (camfi.transform.Compose method) (camfi.transform.RandomHorizontalFlip method) as_circle() (camfi.datamodel.geometry.PolylineShapeAttributes method) as_point() (camfi.datamodel.geometry.CircleShapeAttributes method) autocorrelation() (in module camfi.wingbeat)

B

BcesEM (class in camfi.wingbeat)

BcesResult (class in camfi.wingbeat) BoundingBox (class in camfi.datamodel.geometry)

C

CameraConfig (class in camfi.projectconfig) CameraConfigUnspecifiedError camfi module camfi.annotator module camfi.cli module camfi.datamodel module camfi.datamodel.autoannotation module camfi.datamodel.geometry module camfi.datamodel.locationtime module camfi.datamodel.region_filter_config module camfi.datamodel.via module camfi.datamodel.via_region_attributes module camfi.datamodel.weather module

camfi.models module camfi.plotting module camfi.plotting.matplotlib module camfi.projectconfig module camfi.transform module camfi.util module camfi.wingbeat module CamfiConfig (class in camfi.projectconfig) CamfiDataset (class in camfi.datamodel.autoannotation) CircleShapeAttributes (class in camfi.datamodel.geometry) cmds() (camfi.cli.Commander class method) Commander (class in camfi.cli) Compose (class in camfi.transform) ConfigParseError convert_to_circle() (camfi.annotator.Annotator method) copy_annotation_model() (in module camfi.annotator) corrector() (camfi.datamodel.locationtime.LocationTime method) crop_image() (camfi.datamodel.geometry.BoundingBox method)

D

default_exclude() (camfi.datamodel.autoannotation.CamfiDataset class method) dilate_idx() (in module camfi.util)

do_nothing() (camfi.cli.Commander method) dst() (camfi.util.Timezone method)

E

empty() (camfi.datamodel.autoannotation.Prediction class method) (camfi.datamodel.autoannotation.Target class method) endpoint_truncate() (in module camfi.util) exposure_time (camfi.wingbeat.WingbeatExtractor property)

extract_all_wingbeats() (camfi.projectconfig.CamfiConfig method) (in module camfi.wingbeat) extract_region_of_interest() (camfi.datamodel.geometry.PolylineShapeAttributes method) extract_wingbeats() (camfi.cli.Commander method) (camfi.wingbeat.WingbeatExtractor method)

F

filelist() (camfi.cli.Commander method) (camfi.projectconfig.CamfiConfig method) filter_annotations() (camfi.annotator.Annotator method) filter_by_score() (camfi.datamodel.autoannotation.Prediction method) filter_images() (camfi.cli.Commander method) filter_inplace() (camfi.datamodel.via.ViaProject method) filter_regions() (camfi.cli.Commander method) (camfi.datamodel.via.ViaMetadata method) FilterConfig (class in camfi.projectconfig) filtered_copy() (camfi.datamodel.via.ViaProject method) FiltersUnspecifiedError

find_best_peak() (in module camfi.wingbeat) fit() (camfi.wingbeat.BcesEM method) fit_bces() (camfi.wingbeat.BcesEM method) fit_poly() (camfi.annotator.Annotator method) formatted_json() (camfi.datamodel.via.ViaProject method) from_bounding_box() (camfi.datamodel.geometry.CircleShapeAttributes class method) from_region_dataframe() (camfi.wingbeat.BcesEM class method) from_shape() (camfi.datamodel.geometry.BoundingBox class method) from_tensor_dict() (camfi.datamodel.autoannotation.Prediction class method) (camfi.datamodel.autoannotation.Target class method) (camfi.datamodel.autoannotation.TargetPredictionABC class method) fromutc() (camfi.util.Timezone method)

G

generate_filtered_keys() (camfi.datamodel.autoannotation.CamfiDataset class method) get_area() (camfi.datamodel.geometry.BoundingBox method) get_argument_parser() (in module camfi.cli) get_autoannotated_via_project() (camfi.projectconfig.CamfiConfig method) get_bounding_box() (camfi.datamodel.geometry.CircleShapeAttributes method) (camfi.datamodel.geometry.PointShapeAttributes method) (camfi.datamodel.geometry.PolylineShapeAttributes method) (camfi.datamodel.geometry.ViaShapeAttributes method) (camfi.datamodel.via.ViaRegion method) get_bounding_boxes() (camfi.datamodel.via.ViaMetadata method) get_circle_mask() (camfi.datamodel.autoannotation.MaskMaker method) get_correctors() (camfi.datamodel.locationtime.LocationTimeCollector method) get_filepath() (camfi.wingbeat.WingbeatSuppFigPlotter method) get_image_dataframe() (camfi.projectconfig.CamfiConfig method) get_labels() (camfi.datamodel.via.ViaMetadata method)

get_location_dict() (camfi.datamodel.locationtime.LocationTimeCollector method) get_mask() (camfi.datamodel.autoannotation.MaskMaker method) get_masks() (camfi.datamodel.autoannotation.MaskMaker method) get_point_mask() (camfi.datamodel.autoannotation.MaskMaker method) get_polyline_mask() (camfi.datamodel.autoannotation.MaskMaker method) get_prediction() (camfi.annotator.Annotator method) get_subset_from_index() (camfi.datamodel.autoannotation.Prediction method) get_sun_time_dataframe() (camfi.datamodel.weather.Location method) (camfi.datamodel.weather.LocationWeatherStationCollector method) (camfi.projectconfig.CamfiConfig method) get_time_ratio() (camfi.datamodel.locationtime.LocationTime method) (camfi.datamodel.locationtime.LocationTimeCollector method) get_weather_dataframe() (camfi.datamodel.weather.LocationWeatherStationCollector method) (camfi.projectconfig.CamfiConfig method) get_weather_sun_dataframe() (camfi.datamodel.weather.LocationWeatherStationCollector method) get_wingbeat_extractor() (camfi.wingbeat.WingbeatExtractorConfig method)

H

hausdorff_distance() (camfi.datamodel.geometry.PolylineShapeAttributes method)

I

image (camfi.wingbeat.WingbeatExtractor property) image_table() (camfi.cli.Commander method) ImageFilterConfig (class in camfi.projectconfig) ImageTransform (class in camfi.datamodel.autoannotation) in_box() (camfi.datamodel.geometry.BoundingBox method) (camfi.datamodel.geometry.CircleShapeAttributes method) (camfi.datamodel.geometry.PointShapeAttributes method) (camfi.datamodel.geometry.PolylineShapeAttributes method) (camfi.datamodel.geometry.ViaShapeAttributes method) (camfi.datamodel.via.ViaRegion method)

inference_dataset (camfi.projectconfig.CamfiConfig property) InferenceConfig (class in camfi.projectconfig) InferenceConfigUnspecifiedError intersection() (camfi.datamodel.geometry.BoundingBox method) intersection_over_union() (camfi.datamodel.geometry.BoundingBox method) (camfi.datamodel.geometry.ViaShapeAttributes method) is_portrait() (camfi.datamodel.geometry.BoundingBox method) items() (camfi.util.SubDirDict method)

K

keys() (camfi.util.SubDirDict method)

L

length() (camfi.datamodel.geometry.PolylineShapeAttributes method) load_all_exif_metadata() (camfi.datamodel.via.ViaProject method) (camfi.projectconfig.CamfiConfig method) load_annotation_model() (in module camfi.annotator) load_dataframe() (camfi.datamodel.weather.WeatherStation method)

load_exif() (camfi.cli.Commander method) load_exif_metadata() (camfi.datamodel.via.ViaMetadata method) Location (class in camfi.datamodel.weather) LocationTime (class in camfi.datamodel.locationtime) LocationTimeCollector (class in camfi.datamodel.locationtime) LocationWeatherStationCollector (class in camfi.datamodel.weather)

M

MaskMaker (class in camfi.datamodel.autoannotation) MaskMakerUnspecifiedError MatplotlibWingbeatFrequencyPlotter (class in camfi.plotting.matplotlib) MatplotlibWingbeatSuppFigPlotter (class in camfi.plotting.matplotlib) metadata() (camfi.datamodel.autoannotation.CamfiDataset method) module camfi camfi.annotator camfi.cli camfi.datamodel camfi.datamodel.autoannotation camfi.datamodel.geometry camfi.datamodel.locationtime camfi.datamodel.region_filter_config camfi.datamodel.via camfi.datamodel.via_region_attributes camfi.datamodel.weather camfi.models camfi.plotting camfi.plotting.matplotlib camfi.projectconfig camfi.transform camfi.util camfi.wingbeat

O

only_set_box_margin_if_not_inference_mode() (camfi.datamodel.autoannotation.CamfiDataset class method) only_set_max_annotations_if_not_inference_mode() (camfi.datamodel.autoannotation.CamfiDataset class method) only_set_min_annotations_if_not_inference_mode() (camfi.datamodel.autoannotation.CamfiDataset class method)

only_set_transform_if_not_inference_mode() (camfi.datamodel.autoannotation.CamfiDataset class method) OutputUnspecifiedError overlaps() (camfi.datamodel.geometry.BoundingBox method)

P

ParameterUnspecifiedError parse_json_file() (camfi.projectconfig.CamfiConfig class method) parse_yaml() (camfi.projectconfig.CamfiConfig class method) parse_yaml_file() (camfi.projectconfig.CamfiConfig class method) passes_filter() (camfi.datamodel.via.ViaRegion method) PlaceUnspecifiedError plot() (camfi.plotting.matplotlib.MatplotlibWingbeatFrequencyPlotter method) plot_activity_levels_summaries() (in module camfi.plotting.matplotlib)

plot_activity_levels_summary() (in module camfi.plotting.matplotlib) plot_daily_temperatures() (in module camfi.plotting.matplotlib) plot_herror_bars() (in module camfi.plotting.matplotlib) plot_maelstroms() (in module camfi.plotting.matplotlib) plot_maelstroms_with_temperature() (in module camfi.plotting.matplotlib) PointShapeAttributes (class in camfi.datamodel.geometry) PolylineShapeAttributes (class in camfi.datamodel.geometry) Prediction (class in camfi.datamodel.autoannotation) process_blur() (camfi.wingbeat.WingbeatExtractor method)

R

RandomHorizontalFlip (class in camfi.transform)

read_image() (camfi.datamodel.via.ViaMetadata method) region_table() (camfi.cli.Commander method)

S

search_sun_times() (camfi.datamodel.weather.Location method) set_iff_not_inference_mode() (camfi.datamodel.autoannotation.CamfiDataset class method) shape (camfi.datamodel.geometry.BoundingBox property) smallest_enclosing_circle() (in module camfi.util) snap_to_bounds() (camfi.datamodel.geometry.CircleShapeAttributes method) (camfi.datamodel.geometry.PointShapeAttributes method) (camfi.datamodel.geometry.PolylineShapeAttributes method) (camfi.datamodel.via.ViaMetadata method) (camfi.datamodel.via.ViaRegion method)

SubDirDict (class in camfi.util)

T

table() (camfi.cli.Commander method) Target (class in camfi.datamodel.autoannotation) TargetPredictionABC (class in camfi.datamodel.autoannotation) TargetPredictionABC.Config (class in camfi.datamodel.autoannotation) Timezone (class in camfi.util) to_image_dataframe() (camfi.datamodel.via.ViaProject method) to_region_dataframe() (camfi.datamodel.via.ViaProject method) to_shapely() (camfi.datamodel.geometry.PolylineShapeAttributes method) to_tensor_dict() (camfi.datamodel.autoannotation.Prediction method) (camfi.datamodel.autoannotation.Target method) (camfi.datamodel.autoannotation.TargetPredictionABC method)

train() (camfi.cli.Commander method) train_model() (camfi.projectconfig.CamfiConfig method) (in module camfi.annotator) training_dataset (camfi.projectconfig.CamfiConfig property) TrainingConfig (class in camfi.projectconfig) TrainingConfigUnspecifiedError twilight_state() (camfi.datamodel.weather.Location method) twilight_states() (camfi.datamodel.weather.Location method) tzname() (camfi.util.Timezone method)

U

utcoffset() (camfi.util.Timezone method)

V

validate() (camfi.cli.Commander method) validate_annotations() (camfi.projectconfig.CamfiConfig method) (in module camfi.annotator) ValidationConfig (class in camfi.projectconfig) ValidationConfigUnspecifiedError values() (camfi.util.SubDirDict method) via_project (camfi.projectconfig.CamfiConfig property)

ViaFileAttributes (class in camfi.datamodel.via) ViaMetadata (class in camfi.datamodel.via) ViaProject (class in camfi.datamodel.via) ViaProject.Config (class in camfi.datamodel.via) ViaProjectUnspecifiedError ViaRegion (class in camfi.datamodel.via) ViaRegionAttributes (class in camfi.datamodel.via_region_attributes) ViaShapeAttributes (class in camfi.datamodel.geometry)

W

WeatherStation (class in camfi.datamodel.weather) weighted_intersection_over_minimum() (in module camfi.util) WingbeatExtractor (class in camfi.wingbeat) WingbeatExtractorConfig (class in camfi.wingbeat)

WingbeatExtractorConfigUnspecifiedError WingbeatSuppFigPlotter (class in camfi.wingbeat) write() (camfi.cli.Commander method) write_project() (camfi.projectconfig.CamfiConfig method)

X

x1_gt_x0() (camfi.datamodel.geometry.BoundingBox class method)

Y

y1_gt_y0() (camfi.datamodel.geometry.BoundingBox class method)

y_diff() (camfi.datamodel.geometry.ViaShapeAttributes method) yaml() (camfi.projectconfig.CamfiConfig method)

Z

zip_images() (camfi.cli.Commander method) (camfi.projectconfig.CamfiConfig method)