Index

A

apply_layout() (orcanet.utilities.visualization.TrainValPlotter method) as_array() (in module orcanet.lib.dataset_modifiers) as_recarray() (in module orcanet.lib.dataset_modifiers)

as_recarray_dist() (in module orcanet.lib.dataset_modifiers) as_recarray_dist_split() (in module orcanet.lib.dataset_modifiers) attach_block() (orcanet.builder_util.builders.BlockBuilder method)

B

BatchLogger (class in orcanet.logging) BlockBuilder (class in orcanet.builder_util.builders)

build() (orcanet.builder_util.builders.BlockBuilder method) (orcanet.model_builder.ModelBuilder method) build_with_input() (orcanet.model_builder.ModelBuilder method)

C

check_connections() (orcanet.in_out.IOHandler method) ClassificationLabels (class in orcanet.lib.label_modifiers) cleanup_models() (orcanet.core.Organizer method) close() (orcanet.h5_generator.Hdf5BatchGenerator method)

ColumnLabels (class in orcanet.lib.label_modifiers) compile_model() (orcanet.model_builder.ModelBuilder method) Configuration (class in orcanet.core) ConvBlock (class in orcanet.builder_util.layer_blocks)

D

DenseBlock (class in orcanet.builder_util.layer_blocks) dict_to_recarray() (in module orcanet.misc) (in module orcanet_contrib.orca_handler_util)

dir_y_true (in module orcanet_contrib.custom_objects)

E

EPS (in module orcanet.lib.losses)

F

find_file() (in module orcanet.misc)

from_register() (in module orcanet.misc)

G

gaussian_smooth() (in module orcanet.utilities.visualization) gen_line_cells() (in module orcanet.logging) gen_line_str() (in module orcanet.logging) get_adam() (in module orcanet.model_builder) get_all_epochs() (orcanet.in_out.IOHandler method) get_array_memsize() (in module orcanet.utilities.nn_utilities) get_batch() (orcanet.in_out.IOHandler method) get_best_epoch_fileno() (orcanet.history.HistoryHandler method) get_best_epoch_info() (orcanet.history.HistoryHandler method) get_column_names() (orcanet.history.HistoryHandler method) get_custom_objects() (in module orcanet_contrib.custom_objects) (orcanet.core.Configuration method) get_epoch_float() (orcanet.in_out.IOHandler method) get_epoch_xticks() (in module orcanet.utilities.visualization) get_file() (orcanet.in_out.IOHandler method) get_file_meta() (orcanet.h5_generator.Hdf5BatchGenerator method) get_file_sizes() (orcanet.in_out.IOHandler method) get_files() (orcanet.core.Configuration method) get_h5_generator() (in module orcanet.h5_generator) get_input_block() (in module orcanet.builder_util.builders) get_input_shapes() (orcanet.in_out.IOHandler method) get_inputs() (in module orcanet.in_out) get_latest_epoch() (orcanet.in_out.IOHandler method) get_latest_prediction_file_no() (orcanet.in_out.IOHandler method) get_learning_rate() (orcanet.in_out.IOHandler method)

get_list_file() (orcanet.core.Configuration method) get_local_files() (orcanet.in_out.IOHandler method) get_metrics() (orcanet.history.HistoryHandler method) get_model_path() (orcanet.in_out.IOHandler method) get_n_bins() (orcanet.in_out.IOHandler method) get_next_epoch() (orcanet.in_out.IOHandler method) get_no_of_files() (orcanet.in_out.IOHandler method) get_parser() (in module orcanet.utilities.summarize_training) get_pred_files_list() (orcanet.in_out.IOHandler method) get_pred_path() (orcanet.in_out.IOHandler method) get_previous_epoch() (orcanet.in_out.IOHandler method) get_register() (in module orcanet.misc) get_sgd() (in module orcanet.model_builder) get_state() (orcanet.history.HistoryHandler method) get_strategy() (orcanet.core.Organizer method) get_subfolder() (in module orcanet.in_out) (orcanet.in_out.IOHandler method) get_summary_data() (orcanet.history.HistoryHandler method) get_train_data() (orcanet.history.HistoryHandler method) get_x_values() (orcanet.h5_generator.Hdf5BatchGenerator method) get_xs_mean() (orcanet.core.Organizer method) get_xs_mean_path() (in module orcanet.utilities.nn_utilities) get_y_values() (orcanet.h5_generator.Hdf5BatchGenerator method) get_ylims() (in module orcanet.utilities.visualization) GraphEdgeConv (class in orcanet.lib.sample_modifiers)

H

h5_get_number_of_rows() (in module orcanet.in_out) h5_inference() (in module orcanet.backend)

Hdf5BatchGenerator (class in orcanet.h5_generator) HistoryHandler (class in orcanet.history)

I

import_list_file() (orcanet.core.Configuration method) InceptionBlockV2 (class in orcanet.builder_util.layer_blocks) inference() (in module orcanet.parser) (orcanet.core.Organizer method)

inference_on_file() (in module orcanet.parser) (orcanet.core.Organizer method) initialize_epoch() (orcanet.logging.BatchLogger method) IOHandler (class in orcanet.in_out)

J

JoinedModifier (class in orcanet.lib.sample_modifiers)

L

level_file() (orcanet.logging.TrainfileLogger method) lkl_normal() (in module orcanet.lib.losses) lkl_normal_tfp() (in module orcanet.lib.losses) load_saved_model() (orcanet.core.Organizer method) load_zero_center_data() (in module orcanet.utilities.nn_utilities) log_model_properties() (orcanet.model_builder.ModelBuilder method) log_start_training() (in module orcanet.logging)

log_start_validation() (in module orcanet.logging) loss_direction() (in module orcanet_contrib.custom_objects) loss_direction_grad() (in module orcanet_contrib.custom_objects) loss_mean_relative_error_energy() (in module orcanet_contrib.custom_objects) loss_uncertainty_gaussian_likelihood() (in module orcanet_contrib.custom_objects) loss_uncertainty_gaussian_likelihood_dir() (in module orcanet_contrib.custom_objects) loss_uncertainty_mae() (in module orcanet_contrib.custom_objects) loss_uncertainty_mse() (in module orcanet_contrib.custom_objects)

M

main() (in module orcanet.parser) (in module orcanet.utilities.summarize_training) (in module orcanet_contrib.parser_orcapred) (in module orcanet_contrib.parser_orcatrain) make_dataset() (in module orcanet.h5_generator) make_model_prediction() (in module orcanet.backend) make_xs_mean() (in module orcanet.utilities.nn_utilities) mean_absolute_error() (in module orcanet_contrib.custom_objects) merge_arrays() (in module orcanet.logging) ModelBuilder (class in orcanet.model_builder) modify() (orcanet.lib.sample_modifiers.JoinedModifier method) (orcanet.lib.sample_modifiers.PerInputModifier method) (orcanet.lib.sample_modifiers.Permute method) (orcanet.lib.sample_modifiers.Reshape method) module orcanet orcanet.__version__ orcanet.backend orcanet.builder_util orcanet.builder_util.builders orcanet.builder_util.layer_blocks orcanet.core orcanet.h5_generator orcanet.history orcanet.in_out orcanet.lib orcanet.lib.dataset_modifiers orcanet.lib.label_modifiers orcanet.lib.losses orcanet.lib.sample_modifiers orcanet.logging orcanet.misc orcanet.model_builder orcanet.parser orcanet.utilities orcanet.utilities.nn_utilities orcanet.utilities.summarize_training orcanet.utilities.visualization orcanet_contrib orcanet_contrib.custom_objects orcanet_contrib.orca_handler_util orcanet_contrib.parser_orcapred orcanet_contrib.parser_orcatrain

O

on_batch_end() (orcanet.logging.BatchLogger method) (orcanet.utilities.nn_utilities.RaiseOnNaN method) on_epoch_begin() (orcanet.logging.BatchLogger method) on_epoch_end() (orcanet.logging.BatchLogger method) (orcanet.utilities.nn_utilities.TimeModel method) on_predict_batch_begin() (orcanet.utilities.nn_utilities.TimeModel method) on_predict_batch_end() (orcanet.utilities.nn_utilities.TimeModel method) on_test_batch_begin() (orcanet.utilities.nn_utilities.TimeModel method) on_test_batch_end() (orcanet.utilities.nn_utilities.TimeModel method) on_train_batch_begin() (orcanet.utilities.nn_utilities.TimeModel method) on_train_batch_end() (orcanet.utilities.nn_utilities.TimeModel method) open() (orcanet.h5_generator.Hdf5BatchGenerator method) orca_dataset_modifiers() (in module orcanet_contrib.orca_handler_util) orca_label_modifiers() (in module orcanet_contrib.orca_handler_util) orca_learning_rates() (in module orcanet_contrib.orca_handler_util) orca_pred() (in module orcanet_contrib.parser_orcapred) orca_sample_modifiers() (in module orcanet_contrib.orca_handler_util) orca_train() (in module orcanet_contrib.parser_orcatrain) orcanet module orcanet.__version__ module orcanet.backend module orcanet.builder_util module orcanet.builder_util.builders module orcanet.builder_util.layer_blocks module orcanet.core module orcanet.h5_generator module orcanet.history module orcanet.in_out module orcanet.lib module

orcanet.lib.dataset_modifiers module orcanet.lib.label_modifiers module orcanet.lib.losses module orcanet.lib.sample_modifiers module orcanet.logging module orcanet.misc module orcanet.model_builder module orcanet.parser module orcanet.utilities module orcanet.utilities.nn_utilities module orcanet.utilities.summarize_training module orcanet.utilities.visualization module orcanet_contrib module orcanet_contrib.custom_objects module orcanet_contrib.orca_handler_util module orcanet_contrib.parser_orcapred module orcanet_contrib.parser_orcatrain module Organizer (class in orcanet.core) OutputCateg (class in orcanet.builder_util.layer_blocks) OutputReg (class in orcanet.builder_util.layer_blocks) OutputRegErr (class in orcanet.builder_util.layer_blocks) OutputRegNormal (class in orcanet.builder_util.layer_blocks) OutputRegNormalSplit (class in orcanet.builder_util.layer_blocks)

P

pad_to_size() (orcanet.h5_generator.Hdf5BatchGenerator method) PerInputModifier (class in orcanet.lib.sample_modifiers) Permute (class in orcanet.lib.sample_modifiers) plot_curves() (orcanet.utilities.visualization.TrainValPlotter method) plot_history() (in module orcanet.utilities.visualization) plot_lr() (orcanet.history.HistoryHandler method)

plot_metric() (orcanet.history.HistoryHandler method) predict() (in module orcanet.parser) (orcanet.core.Organizer method) print_log() (orcanet.in_out.IOHandler method) print_stats() (orcanet.utilities.nn_utilities.TimeModel method) print_timestats() (orcanet.h5_generator.Hdf5BatchGenerator method) process_label() (orcanet.lib.label_modifiers.RegressionLabels method)

R

RaiseOnNaN (class in orcanet.utilities.nn_utilities) RegressionLabels (class in orcanet.lib.label_modifiers) RegressionLabelsSplit (class in orcanet.lib.label_modifiers)

reset_cache() (orcanet.lib.sample_modifiers.GraphEdgeConv method) Reshape (class in orcanet.lib.sample_modifiers) ResnetBlock (class in orcanet.builder_util.layer_blocks) ResnetBnetBlock (class in orcanet.builder_util.layer_blocks)

S

skip_nans() (in module orcanet.utilities.visualization) sort_metrics() (in module orcanet.utilities.visualization) split_name_of_predfile() (in module orcanet.in_out) start_time() (orcanet.utilities.nn_utilities.TimeModel method) stop_time() (orcanet.utilities.nn_utilities.TimeModel method)

summarize() (in module orcanet.utilities.summarize_training) (orcanet.utilities.summarize_training.Summarizer method) summarize_dirs() (orcanet.utilities.summarize_training.Summarizer method) Summarizer (class in orcanet.utilities.summarize_training) summary_file (orcanet.history.HistoryHandler property) SummaryLogger (class in orcanet.logging)

T

TimeModel (class in orcanet.utilities.nn_utilities) to_ndarray() (in module orcanet.misc) train() (in module orcanet.parser) (orcanet.core.Organizer method) train_and_validate() (orcanet.core.Organizer method)

train_log_folder (orcanet.history.HistoryHandler property) train_model() (in module orcanet.backend) TrainfileLogger (class in orcanet.logging) TrainValPlotter (class in orcanet.utilities.visualization) TSClassifier (class in orcanet.lib.label_modifiers)

U

update_config() (orcanet.core.Configuration method) update_objects() (in module orcanet_contrib.orca_handler_util)

update_summary_plot() (in module orcanet.utilities.visualization) use_local_tmpdir() (in module orcanet.in_out)

V

val_is_due() (orcanet.core.Organizer method) validate() (orcanet.core.Organizer method)

validate_model() (in module orcanet.backend) version (in module orcanet.__version__), [1]

W

weighted_average() (in module orcanet.backend)

write_line() (orcanet.logging.SummaryLogger method) (orcanet.logging.TrainfileLogger method)

Y

yield_files() (orcanet.in_out.IOHandler method)