Index

_

__getitem__() (in module malpolon.data.datasets.geolifeclef2022.MicroGeoLifeCLEF2022Dataset) (malpolon.data.datasets.geolifeclef2022.GeoLifeCLEF2022Dataset method) (malpolon.data.datasets.geolifeclef2022.MiniGeoLifeCLEF2022Dataset method) (malpolon.data.datasets.geolifeclef2023.CSVTimeSeriesProvider method) (malpolon.data.datasets.geolifeclef2023.JpegPatchProvider method) (malpolon.data.datasets.geolifeclef2023.MetaPatchProvider method) (malpolon.data.datasets.geolifeclef2023.MetaTimeSeriesProvider method) (malpolon.data.datasets.geolifeclef2023.MultipleCSVTimeSeriesProvider method) (malpolon.data.datasets.geolifeclef2023.MultipleRasterPatchProvider method) (malpolon.data.datasets.geolifeclef2023.PatchesDataset method) (malpolon.data.datasets.geolifeclef2023.PatchesDatasetMultiLabel method) (malpolon.data.datasets.geolifeclef2023.PatchProvider method) (malpolon.data.datasets.geolifeclef2023.RasterPatchProvider method) (malpolon.data.datasets.geolifeclef2023.TimeSeriesDataset method) (malpolon.data.datasets.geolifeclef2023.TimeSeriesProvider method) (malpolon.data.datasets.geolifeclef2024.CSVTimeSeriesProvider method) (malpolon.data.datasets.geolifeclef2024.JpegPatchProvider method) (malpolon.data.datasets.geolifeclef2024.MetaPatchProvider method) (malpolon.data.datasets.geolifeclef2024.MetaTimeSeriesProvider method) (malpolon.data.datasets.geolifeclef2024.MultipleCSVTimeSeriesProvider method) (malpolon.data.datasets.geolifeclef2024.MultipleRasterPatchProvider method) (malpolon.data.datasets.geolifeclef2024.PatchesDataset method) (malpolon.data.datasets.geolifeclef2024.PatchesDatasetMultiLabel method) (malpolon.data.datasets.geolifeclef2024.PatchProvider method) (malpolon.data.datasets.geolifeclef2024.RasterPatchProvider method) (malpolon.data.datasets.geolifeclef2024.TimeSeriesDataset method) (malpolon.data.datasets.geolifeclef2024.TimeSeriesProvider method) (malpolon.data.datasets.geolifeclef2024_pre_extracted.TestDataset method) (malpolon.data.datasets.geolifeclef2024_pre_extracted.TestDatasetHabitat method) (malpolon.data.datasets.geolifeclef2024_pre_extracted.TrainDataset method) (malpolon.data.datasets.geolifeclef2024_pre_extracted.TrainDatasetHabitat method) (malpolon.data.datasets.torchgeo_concat.ConcatPatchRasterDataset method) (malpolon.data.datasets.torchgeo_datasets.RasterTorchGeoDataset method) (malpolon.data.environmental_raster.PatchExtractor method) (malpolon.data.environmental_raster.Raster method) __init__() (malpolon.data.datasets.geolifeclef2024_pre_extracted.GLC24Datamodule method) (malpolon.data.datasets.torchgeo_concat.ConcatPatchRasterDataset method) (malpolon.data.datasets.torchgeo_concat.ConcatTorchGeoDataModule method) (malpolon.data.datasets.torchgeo_datasets.RasterTorchGeoDataset method) (malpolon.data.datasets.torchgeo_sentinel2.Sentinel2TorchGeoDataModule method) (malpolon.models.custom_models.glc2024_multimodal_ensemble_model.MultimodalEnsemble method) (malpolon.models.custom_models.glc2024_pre_extracted_prediction_system.ClassificationSystemGLC24 method) (malpolon.models.custom_models.multi_modal.HomogeneousMultiModalModel method) (malpolon.models.custom_models.multi_modal.MultiModalModel method) (malpolon.models.standard_prediction_systems.ClassificationSystem method) (malpolon.models.standard_prediction_systems.GenericPredictionSystem method)

__len__() (in module malpolon.data.datasets.geolifeclef2022.MicroGeoLifeCLEF2022Dataset) (malpolon.data.datasets.geolifeclef2022.GeoLifeCLEF2022Dataset method) (malpolon.data.datasets.geolifeclef2022.MiniGeoLifeCLEF2022Dataset method) (malpolon.data.datasets.geolifeclef2023.CSVTimeSeriesProvider method) (malpolon.data.datasets.geolifeclef2023.JpegPatchProvider method) (malpolon.data.datasets.geolifeclef2023.MetaPatchProvider method) (malpolon.data.datasets.geolifeclef2023.MetaTimeSeriesProvider method) (malpolon.data.datasets.geolifeclef2023.MultipleCSVTimeSeriesProvider method) (malpolon.data.datasets.geolifeclef2023.MultipleRasterPatchProvider method) (malpolon.data.datasets.geolifeclef2023.PatchesDataset method) (malpolon.data.datasets.geolifeclef2023.PatchesDatasetMultiLabel method) (malpolon.data.datasets.geolifeclef2023.PatchProvider method) (malpolon.data.datasets.geolifeclef2023.RasterPatchProvider method) (malpolon.data.datasets.geolifeclef2023.TimeSeriesDataset method) (malpolon.data.datasets.geolifeclef2023.TimeSeriesProvider method) (malpolon.data.datasets.geolifeclef2024.CSVTimeSeriesProvider method) (malpolon.data.datasets.geolifeclef2024.JpegPatchProvider method) (malpolon.data.datasets.geolifeclef2024.MetaPatchProvider method) (malpolon.data.datasets.geolifeclef2024.MetaTimeSeriesProvider method) (malpolon.data.datasets.geolifeclef2024.MultipleCSVTimeSeriesProvider method) (malpolon.data.datasets.geolifeclef2024.MultipleRasterPatchProvider method) (malpolon.data.datasets.geolifeclef2024.PatchesDataset method) (malpolon.data.datasets.geolifeclef2024.PatchesDatasetMultiLabel method) (malpolon.data.datasets.geolifeclef2024.PatchProvider method) (malpolon.data.datasets.geolifeclef2024.RasterPatchProvider method) (malpolon.data.datasets.geolifeclef2024.TimeSeriesDataset method) (malpolon.data.datasets.geolifeclef2024.TimeSeriesProvider method) (malpolon.data.datasets.geolifeclef2024_pre_extracted.TestDataset method) (malpolon.data.datasets.geolifeclef2024_pre_extracted.TestDatasetHabitat method) (malpolon.data.datasets.geolifeclef2024_pre_extracted.TrainDataset method) (malpolon.data.datasets.geolifeclef2024_pre_extracted.TrainDatasetHabitat method) (malpolon.data.datasets.torchgeo_concat.ConcatPatchRasterDataset method) (malpolon.data.datasets.torchgeo_datasets.RasterTorchGeoDataset method) (malpolon.data.datasets.torchgeo_sentinel2.Sentinel2GeoSampler method) (malpolon.data.environmental_raster.PatchExtractor method) (malpolon.data.environmental_raster.Raster method)

A

add_all_bioclimatic_rasters() (malpolon.data.environmental_raster.PatchExtractor method) add_all_pedologic_rasters() (malpolon.data.environmental_raster.PatchExtractor method) add_all_rasters() (malpolon.data.environmental_raster.PatchExtractor method)

all_bands (malpolon.data.datasets.torchgeo_datasets.RasterBioclim attribute) (malpolon.data.datasets.torchgeo_sentinel2.RasterSentinel2 attribute) (malpolon.data.datasets.torchgeo_sentinel2.RasterSentinel2GLC23 attribute) append() (malpolon.data.environmental_raster.PatchExtractor method)

B

BaseDataModule (class in malpolon.data.data_module)

batch_to_device() (malpolon.models.custom_models.multi_modal.ParallelMultiModalModelStrategy method)

C

change_first_convolutional_layer_modifier() (in module malpolon.models.model_builder) change_last_layer_modifier() (in module malpolon.models.model_builder) change_last_layer_to_identity_modifier() (in module malpolon.models.model_builder) check_loss() (in module malpolon.models.utils) check_metric() (in module malpolon.models.utils) check_model() (in module malpolon.models.utils) check_optimizer() (in module malpolon.models.utils) check_scheduler() (in module malpolon.models.utils) ClassificationSystem (class in malpolon.models.standard_prediction_systems)

ClassificationSystemGLC24 (class in malpolon.models.custom_models.glc2024_pre_extracted_prediction_system) clean() (malpolon.data.environmental_raster.PatchExtractor method) ConcatPatchRasterDataset (class in malpolon.data.datasets.torchgeo_concat) ConcatTorchGeoDataModule (class in malpolon.data.datasets.torchgeo_concat) configure_optimizers() (malpolon.models.standard_prediction_systems.GenericPredictionSystem method) construct_patch_path() (in module malpolon.data.datasets.geolifeclef2024_pre_extracted) coords_transform() (malpolon.data.datasets.torchgeo_datasets.RasterTorchGeoDataset method) CrashHandler (class in malpolon.models.utils) CSVTimeSeriesProvider (class in malpolon.data.datasets.geolifeclef2023) (class in malpolon.data.datasets.geolifeclef2024)

D

date_format (malpolon.data.datasets.torchgeo_datasets.RasterBioclim attribute) (malpolon.data.datasets.torchgeo_sentinel2.RasterSentinel2 attribute) download() (malpolon.data.datasets.geolifeclef2024_pre_extracted.GLC24Datamodule method) (malpolon.data.datasets.geolifeclef2024_pre_extracted.GLC24DatamoduleHabitats method)

download_data_sample() (malpolon.data.datasets.torchgeo_sentinel2.Sentinel2TorchGeoDataModule method) download_weights() (malpolon.models.standard_prediction_systems.GenericPredictionSystem method)

E

escape_tex() (in module malpolon.plot.history)

export_predict_csv() (malpolon.data.data_module.BaseDataModule method) export_predict_csv_basic() (malpolon.data.data_module.BaseDataModule method)

F

filename_glob (malpolon.data.datasets.torchgeo_datasets.RasterBioclim attribute) (malpolon.data.datasets.torchgeo_sentinel2.RasterSentinel2 attribute) (malpolon.data.datasets.torchgeo_sentinel2.RasterSentinel2GLC23 attribute) filename_regex (malpolon.data.datasets.torchgeo_datasets.RasterBioclim attribute) (malpolon.data.datasets.torchgeo_sentinel2.RasterSentinel2 attribute) (malpolon.data.datasets.torchgeo_sentinel2.RasterSentinel2GLC23 attribute)

forward() (malpolon.models.custom_models.glc2024_multimodal_ensemble_model.MultimodalEnsemble method) (malpolon.models.custom_models.glc2024_pre_extracted_prediction_system.ClassificationSystemGLC24 method) (malpolon.models.custom_models.multi_modal.MultiModalModel method) (malpolon.models.standard_prediction_systems.GenericPredictionSystem method)

G

GenericPredictionSystem (class in malpolon.models.standard_prediction_systems) GeoLifeCLEF2022Dataset (class in malpolon.data.datasets.geolifeclef2022) get_dataset() (malpolon.data.data_module.BaseDataModule method) (malpolon.data.datasets.geolifeclef2024_pre_extracted.GLC24Datamodule method) (malpolon.data.datasets.geolifeclef2024_pre_extracted.GLC24DatamoduleHabitats method) (malpolon.data.datasets.torchgeo_concat.ConcatTorchGeoDataModule method) (malpolon.data.datasets.torchgeo_sentinel2.Sentinel2TorchGeoDataModule method)

get_files_path_recursively() (in module malpolon.data.utils) get_label() (malpolon.data.datasets.torchgeo_datasets.RasterTorchGeoDataset method) get_test_dataset() (malpolon.data.data_module.BaseDataModule method) get_train_dataset() (malpolon.data.data_module.BaseDataModule method) get_val_dataset() (malpolon.data.data_module.BaseDataModule method) GLC24Datamodule (class in malpolon.data.datasets.geolifeclef2024_pre_extracted) GLC24DatamoduleHabitats (class in malpolon.data.datasets.geolifeclef2024_pre_extracted)

H

HomogeneousMultiModalModel (class in malpolon.models.custom_models.multi_modal)

I

is_bbox_contained() (in module malpolon.data.utils) is_image (malpolon.data.datasets.torchgeo_datasets.RasterBioclim attribute) (malpolon.data.datasets.torchgeo_sentinel2.RasterSentinel2 attribute)

is_point_in_bbox() (in module malpolon.data.utils)

J

JpegPatchProvider (class in malpolon.data.datasets.geolifeclef2023) (class in malpolon.data.datasets.geolifeclef2024)

L

load_bioclim() (in module malpolon.data.datasets.geolifeclef2024_pre_extracted)

load_landsat() (in module malpolon.data.datasets.geolifeclef2024_pre_extracted) load_sentinel() (in module malpolon.data.datasets.geolifeclef2024_pre_extracted)

M

malpolon.check_install module malpolon.data.data_module module malpolon.data.datasets.geolifeclef2022.MicroGeoLifeCLEF2022Dataset module malpolon.data.datasets.torchgeo_concat module malpolon.data.datasets.torchgeo_datasets module malpolon.data.datasets.torchgeo_sentinel2 module malpolon.data.environmental_raster module malpolon.data.get_jpeg_patches_stats module malpolon.data.utils module malpolon.models.custom_models.glc2024_multimodal_ensemble_model module malpolon.models.custom_models.glc2024_pre_extracted_prediction_system module malpolon.models.custom_models.multi_modal module malpolon.models.model_builder module malpolon.models.standard_prediction_systems module malpolon.models.utils module malpolon.plot.history module

malpolon.plot.map module malpolon_model_provider() (in module malpolon.models.model_builder) MetaPatchProvider (class in malpolon.data.datasets.geolifeclef2023) (class in malpolon.data.datasets.geolifeclef2024) MetaTimeSeriesProvider (class in malpolon.data.datasets.geolifeclef2023) (class in malpolon.data.datasets.geolifeclef2024) MiniGeoLifeCLEF2022Dataset (class in malpolon.data.datasets.geolifeclef2022) model_to_device() (malpolon.models.custom_models.multi_modal.ParallelMultiModalModelStrategy method) module malpolon.check_install malpolon.data.data_module malpolon.data.datasets.geolifeclef2022.MicroGeoLifeCLEF2022Dataset malpolon.data.datasets.torchgeo_concat malpolon.data.datasets.torchgeo_datasets malpolon.data.datasets.torchgeo_sentinel2 malpolon.data.environmental_raster malpolon.data.get_jpeg_patches_stats malpolon.data.utils malpolon.models.custom_models.glc2024_multimodal_ensemble_model malpolon.models.custom_models.glc2024_pre_extracted_prediction_system malpolon.models.custom_models.multi_modal malpolon.models.model_builder malpolon.models.standard_prediction_systems malpolon.models.utils malpolon.plot.history malpolon.plot.map MultimodalEnsemble (class in malpolon.models.custom_models.glc2024_multimodal_ensemble_model) MultiModalModel (class in malpolon.models.custom_models.multi_modal) MultipleCSVTimeSeriesProvider (class in malpolon.data.datasets.geolifeclef2023) (class in malpolon.data.datasets.geolifeclef2024) MultipleRasterPatchProvider (class in malpolon.data.datasets.geolifeclef2023) (class in malpolon.data.datasets.geolifeclef2024)

O

on_train_start() (malpolon.logging.Summary method)

P

ParallelMultiModalModelStrategy (class in malpolon.models.custom_models.multi_modal) PatchesDataset (class in malpolon.data.datasets.geolifeclef2023) (class in malpolon.data.datasets.geolifeclef2024) PatchesDatasetMultiLabel (class in malpolon.data.datasets.geolifeclef2023) (class in malpolon.data.datasets.geolifeclef2024) PatchExtractor (class in malpolon.data.environmental_raster) PatchProvider (class in malpolon.data.datasets.geolifeclef2023) (class in malpolon.data.datasets.geolifeclef2024) plot() (malpolon.data.datasets.torchgeo_datasets.RasterBioclim method) (malpolon.data.datasets.torchgeo_sentinel2.RasterSentinel2 method) (malpolon.data.environmental_raster.PatchExtractor method) plot_bands (malpolon.data.datasets.torchgeo_datasets.RasterBioclim attribute) (malpolon.data.datasets.torchgeo_sentinel2.RasterSentinel2 attribute) (malpolon.data.datasets.torchgeo_sentinel2.RasterSentinel2GLC23 attribute) plot_history() (in module malpolon.plot.history)

plot_map() (in module malpolon.plot.map) plot_metric() (in module malpolon.plot.history) plot_observation_dataset() (in module malpolon.plot.map) plot_observation_map() (in module malpolon.plot.map) point_to_bbox() (malpolon.data.datasets.torchgeo_datasets.RasterTorchGeoDataset method) predict() (malpolon.models.standard_prediction_systems.GenericPredictionSystem method) predict_dataloader() (malpolon.data.data_module.BaseDataModule method) (malpolon.data.datasets.torchgeo_concat.ConcatTorchGeoDataModule method) (malpolon.data.datasets.torchgeo_sentinel2.Sentinel2TorchGeoDataModule method) predict_logits_to_class() (malpolon.data.data_module.BaseDataModule method) predict_point() (malpolon.models.standard_prediction_systems.GenericPredictionSystem method) predict_step() (malpolon.models.custom_models.glc2024_pre_extracted_prediction_system.ClassificationSystemGLC24 method) (malpolon.models.standard_prediction_systems.GenericPredictionSystem method) prepare_data() (malpolon.data.data_module.BaseDataModule method) print_cuda_info() (in module malpolon.check_install)

R

Raster (class in malpolon.data.environmental_raster) RasterBioclim (class in malpolon.data.datasets.torchgeo_datasets) RasterPatchProvider (class in malpolon.data.datasets.geolifeclef2023) (class in malpolon.data.datasets.geolifeclef2024)

RasterSentinel2 (class in malpolon.data.datasets.torchgeo_sentinel2) RasterSentinel2GLC23 (class in malpolon.data.datasets.torchgeo_sentinel2) RasterTorchGeoDataset (class in malpolon.data.datasets.torchgeo_datasets) remove_state_dict_prefix() (malpolon.models.standard_prediction_systems.GenericPredictionSystem method)

S

save_checkpoint() (malpolon.models.utils.CrashHandler method) Sentinel2GeoSampler (class in malpolon.data.datasets.torchgeo_sentinel2) Sentinel2TorchGeoDataModule (class in malpolon.data.datasets.torchgeo_sentinel2) separate_files (malpolon.data.datasets.torchgeo_datasets.RasterBioclim attribute) (malpolon.data.datasets.torchgeo_sentinel2.RasterSentinel2 attribute) setup() (malpolon.data.data_module.BaseDataModule method) signal_handler() (malpolon.models.utils.CrashHandler method)

split_obs_per_species_frequency() (in module malpolon.data.utils) split_obs_spatially() (in module malpolon.data.utils) standardize() (in module malpolon.data.get_jpeg_patches_stats) standardize_by_parts() (in module malpolon.data.get_jpeg_patches_stats) state_dict_replace_key() (malpolon.models.standard_prediction_systems.GenericPredictionSystem static method) str_object() (in module malpolon.logging) strategy_name (malpolon.models.custom_models.multi_modal.ParallelMultiModalModelStrategy attribute) Summary (class in malpolon.logging)

T

test_dataloader() (malpolon.data.data_module.BaseDataModule method) (malpolon.data.datasets.torchgeo_concat.ConcatTorchGeoDataModule method) (malpolon.data.datasets.torchgeo_sentinel2.Sentinel2TorchGeoDataModule method) test_step() (malpolon.models.standard_prediction_systems.GenericPredictionSystem method) test_transform (malpolon.data.data_module.BaseDataModule property) (malpolon.data.datasets.geolifeclef2024_pre_extracted.GLC24Datamodule property) (malpolon.data.datasets.torchgeo_concat.ConcatTorchGeoDataModule property) (malpolon.data.datasets.torchgeo_sentinel2.Sentinel2TorchGeoDataModule property) TestDataset (class in malpolon.data.datasets.geolifeclef2024_pre_extracted) TestDatasetHabitat (class in malpolon.data.datasets.geolifeclef2024_pre_extracted) TimeSeriesDataset (class in malpolon.data.datasets.geolifeclef2023) (class in malpolon.data.datasets.geolifeclef2024) TimeSeriesProvider (class in malpolon.data.datasets.geolifeclef2023) (class in malpolon.data.datasets.geolifeclef2024)

timm_model_provider() (in module malpolon.models.model_builder) to_one_hot_encoding() (in module malpolon.data.utils) torchvision_model_provider() (in module malpolon.models.model_builder) train_dataloader() (malpolon.data.data_module.BaseDataModule method) (malpolon.data.datasets.torchgeo_concat.ConcatTorchGeoDataModule method) (malpolon.data.datasets.torchgeo_sentinel2.Sentinel2TorchGeoDataModule method) train_transform (malpolon.data.data_module.BaseDataModule property) (malpolon.data.datasets.geolifeclef2024_pre_extracted.GLC24Datamodule property) (malpolon.data.datasets.torchgeo_concat.ConcatTorchGeoDataModule property) (malpolon.data.datasets.torchgeo_sentinel2.Sentinel2TorchGeoDataModule property) TrainDataset (class in malpolon.data.datasets.geolifeclef2024_pre_extracted) TrainDatasetHabitat (class in malpolon.data.datasets.geolifeclef2024_pre_extracted) training_step() (malpolon.models.standard_prediction_systems.GenericPredictionSystem method)

V

val_dataloader() (malpolon.data.data_module.BaseDataModule method) (malpolon.data.datasets.geolifeclef2024_pre_extracted.GLC24Datamodule method) (malpolon.data.datasets.torchgeo_concat.ConcatTorchGeoDataModule method) (malpolon.data.datasets.torchgeo_sentinel2.Sentinel2TorchGeoDataModule method)

validation_step() (malpolon.models.standard_prediction_systems.GenericPredictionSystem method)