id: 1 unit: def _initialize_detection_correction_tab() file: src/ui/ui.py start line: 0 end line: 0 size: 52 LOC McCabe index: 1 number of parameters: 1 id: 2 unit: def do_inference() file: src/engine/step4/model_dev/t5_evaluation.py start line: 0 end line: 0 size: 45 LOC McCabe index: 4 number of parameters: 1 id: 3 unit: def added_tokens() file: src/engine/step4/model_dev/utils/model.py start line: 0 end line: 0 size: 40 LOC McCabe index: 2 number of parameters: 1 id: 4 unit: def render_template_query() file: src/engine/step5/sql_processing.py start line: 0 end line: 0 size: 37 LOC McCabe index: 9 number of parameters: 3 id: 5 unit: def train() file: src/engine/step4/model_dev/t5_training.py start line: 0 end line: 0 size: 32 LOC McCabe index: 2 number of parameters: 1 id: 6 unit: def configure_optimizers() file: src/engine/step4/model_dev/utils/model.py start line: 0 end line: 0 size: 31 LOC McCabe index: 7 number of parameters: 1 id: 7 unit: def train_dataloader() file: src/engine/step4/model_dev/utils/model.py start line: 0 end line: 0 size: 31 LOC McCabe index: 1 number of parameters: 1 id: 8 unit: def _add_cm_entity() file: src/engine/step1/_extraction_helpers.py start line: 0 end line: 0 size: 30 LOC McCabe index: 13 number of parameters: 3 id: 9 unit: def __init__() file: src/engine/step4/model_dev/utils/model.py start line: 0 end line: 0 size: 29 LOC McCabe index: 5 number of parameters: 2 id: 10 unit: def execute_matching() file: src/engine/step4/model_dev/utils/metrics.py start line: 0 end line: 0 size: 28 LOC McCabe index: 6 number of parameters: 3 id: 11 unit: def _initialize_disambiguation_correction_tab() file: src/ui/ui.py start line: 0 end line: 0 size: 28 LOC McCabe index: 1 number of parameters: 1 id: 12 unit: def _display_main() file: src/ui/ui.py start line: 0 end line: 0 size: 26 LOC McCabe index: 5 number of parameters: 4 id: 13 unit: def _initialize_feedback_vsection() file: src/ui/ui.py start line: 0 end line: 0 size: 24 LOC McCabe index: 1 number of parameters: 1 id: 14 unit: def _initialize_condition_disambiguation_correction_widgets() file: src/ui/ui.py start line: 0 end line: 0 size: 24 LOC McCabe index: 3 number of parameters: 1 id: 15 unit: def get_descendent_concepts_template_from_vocab_code() file: src/engine/step5/template_definitions.py start line: 0 end line: 0 size: 23 LOC McCabe index: 5 number of parameters: 3 id: 16 unit: def get_metrics() file: src/engine/step4/model_dev/utils/metrics.py start line: 0 end line: 0 size: 22 LOC McCabe index: 3 number of parameters: 3 id: 17 unit: def _button_helper_execute_button() file: src/ui/ui.py start line: 0 end line: 0 size: 22 LOC McCabe index: 2 number of parameters: 2 id: 18 unit: def __call__() file: src/engine/step4/model_dev/t5_inference.py start line: 0 end line: 0 size: 21 LOC McCabe index: 1 number of parameters: 2 id: 19 unit: def _button_helper_record_name() file: src/ui/ui.py start line: 0 end line: 0 size: 21 LOC McCabe index: 4 number of parameters: 2 id: 20 unit: def detect_entities() file: src/engine/step1/entity_extraction.py start line: 0 end line: 0 size: 20 LOC McCabe index: 1 number of parameters: 3 id: 21 unit: def convert_to_features() file: src/engine/step4/model_dev/utils/dataset.py start line: 0 end line: 0 size: 20 LOC McCabe index: 1 number of parameters: 2 id: 22 unit: def multi_proc_inference() file: src/engine/step4/model_dev/t5_evaluation.py start line: 0 end line: 0 size: 20 LOC McCabe index: 2 number of parameters: 2 id: 23 unit: def _initialize_credentials_vsection() file: src/ui/ui.py start line: 0 end line: 0 size: 20 LOC McCabe index: 1 number of parameters: 1 id: 24 unit: def _initialize_drug_disambiguation_correction_widgets() file: src/ui/ui.py start line: 0 end line: 0 size: 20 LOC McCabe index: 3 number of parameters: 1 id: 25 unit: def split_data() file: src/engine/step4/model_dev/utils/dataset.py start line: 0 end line: 0 size: 19 LOC McCabe index: 3 number of parameters: 4 id: 26 unit: def _visualize_drug_info() file: src/ui/ui.py start line: 0 end line: 0 size: 18 LOC McCabe index: 4 number of parameters: 1 id: 27 unit: def _visualize_condition_info() file: src/ui/ui.py start line: 0 end line: 0 size: 18 LOC McCabe index: 4 number of parameters: 1 id: 28 unit: def _initialize_main_input_tab() file: src/ui/ui.py start line: 0 end line: 0 size: 15 LOC McCabe index: 1 number of parameters: 1 id: 29 unit: def val_dataloader() file: src/engine/step4/model_dev/utils/model.py start line: 0 end line: 0 size: 14 LOC McCabe index: 1 number of parameters: 1 id: 30 unit: def _initialize_widgets() file: src/ui/ui.py start line: 0 end line: 0 size: 14 LOC McCabe index: 1 number of parameters: 1 id: 31 unit: def _initialize_genearl_input_vsection() file: src/ui/ui.py start line: 0 end line: 0 size: 14 LOC McCabe index: 1 number of parameters: 1 id: 32 unit: def _button_helper_remove_name() file: src/ui/ui.py start line: 0 end line: 0 size: 14 LOC McCabe index: 5 number of parameters: 2 id: 33 unit: def connect_to_db() file: src/engine/step6/query_execution.py start line: 0 end line: 0 size: 13 LOC McCabe index: 2 number of parameters: 3 id: 34 unit: def add_drug_options() file: src/engine/step2/disambiguation_helpers.py start line: 0 end line: 0 size: 13 LOC McCabe index: 3 number of parameters: 1 id: 35 unit: def _button_helper_record_db_credentials() file: src/ui/ui.py start line: 0 end line: 0 size: 13 LOC McCabe index: 1 number of parameters: 2 id: 36 unit: def training_step() file: src/engine/step4/model_dev/utils/model.py start line: 0 end line: 0 size: 12 LOC McCabe index: 1 number of parameters: 3 id: 37 unit: def __getitem__() file: src/engine/step4/model_dev/utils/dataset.py start line: 0 end line: 0 size: 12 LOC McCabe index: 1 number of parameters: 2 id: 38 unit: def on_test_end() file: src/engine/step4/model_dev/utils/callback.py start line: 0 end line: 0 size: 12 LOC McCabe index: 5 number of parameters: 3 id: 39 unit: def inference_wrapper() file: src/engine/step4/model_dev/t5_evaluation.py start line: 0 end line: 0 size: 12 LOC McCabe index: 3 number of parameters: 4 id: 40 unit: def add_condition_options() file: src/engine/step2/disambiguation_helpers.py start line: 0 end line: 0 size: 12 LOC McCabe index: 3 number of parameters: 1 id: 41 unit: def reformat_raw_entities() file: src/ui/detection_visualizer.py start line: 0 end line: 0 size: 12 LOC McCabe index: 3 number of parameters: 1 id: 42 unit: def _button_helper_log_feedback() file: src/ui/ui.py start line: 0 end line: 0 size: 12 LOC McCabe index: 2 number of parameters: 2 id: 43 unit: def execute_query() file: src/engine/step6/query_execution.py start line: 0 end line: 0 size: 11 LOC McCabe index: 3 number of parameters: 3 id: 44 unit: def get_unique_concept_template() file: src/engine/step5/template_definitions.py start line: 0 end line: 0 size: 11 LOC McCabe index: 1 number of parameters: 3 id: 45 unit: def _step() file: src/engine/step4/model_dev/utils/model.py start line: 0 end line: 0 size: 11 LOC McCabe index: 1 number of parameters: 2 id: 46 unit: def test_dataloader() file: src/engine/step4/model_dev/utils/model.py start line: 0 end line: 0 size: 11 LOC McCabe index: 1 number of parameters: 1 id: 47 unit: def preprocess_data() file: src/engine/step4/model_dev/utils/dataset.py start line: 0 end line: 0 size: 11 LOC McCabe index: 3 number of parameters: 2 id: 48 unit: def get_concept_name_template() file: src/engine/step5/template_definitions.py start line: 0 end line: 0 size: 10 LOC McCabe index: 1 number of parameters: 2 id: 49 unit: def get_query_length() file: src/engine/step4/model_dev/utils/metrics.py start line: 0 end line: 0 size: 10 LOC McCabe index: 1 number of parameters: 3 id: 50 unit: def freeze_embeds() file: src/engine/step4/model_dev/utils/model.py start line: 0 end line: 0 size: 10 LOC McCabe index: 4 number of parameters: 1 id: 51 unit: def get_reformatted_proc_entities() file: src/ui/detection_visualizer.py start line: 0 end line: 0 size: 10 LOC McCabe index: 3 number of parameters: 2 id: 52 unit: def prepare_visualization_input_for_processed_entities() file: src/ui/detection_visualizer.py start line: 0 end line: 0 size: 10 LOC McCabe index: 1 number of parameters: 2 id: 53 unit: def _button_helper_drug_update() file: src/ui/ui.py start line: 0 end line: 0 size: 10 LOC McCabe index: 4 number of parameters: 2 id: 54 unit: def _button_helper_condition_update() file: src/ui/ui.py start line: 0 end line: 0 size: 10 LOC McCabe index: 4 number of parameters: 2 id: 55 unit: def _update_options() file: src/ui/ui.py start line: 0 end line: 0 size: 10 LOC McCabe index: 5 number of parameters: 1 id: 56 unit: def replace_name_for_placeholder() file: src/engine/step3/nlq_processing.py start line: 0 end line: 0 size: 9 LOC McCabe index: 3 number of parameters: 2 id: 57 unit: def _reformat_cm_entity() file: src/engine/step1/_extraction_helpers.py start line: 0 end line: 0 size: 9 LOC McCabe index: 1 number of parameters: 1 id: 58 unit: def _detect_entities_with_regex() file: src/engine/step1/_extraction_helpers.py start line: 0 end line: 0 size: 9 LOC McCabe index: 3 number of parameters: 3 id: 59 unit: def get_state_template() file: src/engine/step5/template_definitions.py start line: 0 end line: 0 size: 9 LOC McCabe index: 1 number of parameters: 2 id: 60 unit: def load_model() file: src/engine/step4/model_dev/utils/model.py start line: 0 end line: 0 size: 9 LOC McCabe index: 2 number of parameters: 1 id: 61 unit: def _use_pattern_dict() file: src/engine/step2/disambiguation_helpers.py start line: 0 end line: 0 size: 9 LOC McCabe index: 4 number of parameters: 2 id: 62 unit: def prepare_visualization_input_for_raw_entities() file: src/ui/detection_visualizer.py start line: 0 end line: 0 size: 9 LOC McCabe index: 1 number of parameters: 2 id: 63 unit: def get_reformatted_nlq() file: src/ui/detection_visualizer.py start line: 0 end line: 0 size: 9 LOC McCabe index: 3 number of parameters: 2 id: 64 unit: def validation_epoch_end() file: src/engine/step4/model_dev/utils/model.py start line: 0 end line: 0 size: 8 LOC McCabe index: 2 number of parameters: 2 id: 65 unit: def __init__() file: src/engine/step4/model_dev/utils/dataset.py start line: 0 end line: 0 size: 8 LOC McCabe index: 1 number of parameters: 7 id: 66 unit: def get_dataset() file: src/engine/step4/model_dev/utils/dataset.py start line: 0 end line: 0 size: 8 LOC McCabe index: 1 number of parameters: 4 id: 67 unit: def __call__() file: src/engine/pipeline.py start line: 0 end line: 0 size: 8 LOC McCabe index: 1 number of parameters: 2 id: 68 unit: def load_dict2pattern() file: src/engine/step2/disambiguation_helpers.py start line: 0 end line: 0 size: 8 LOC McCabe index: 2 number of parameters: 1 id: 69 unit: def add_placeholders() file: src/engine/step2/entity_processing.py start line: 0 end line: 0 size: 8 LOC McCabe index: 3 number of parameters: 3 id: 70 unit: def _reformat_regex_entity() file: src/engine/step1/_extraction_helpers.py start line: 0 end line: 0 size: 7 LOC McCabe index: 1 number of parameters: 1 id: 71 unit: def _update_time_category_with_cm_record() file: src/engine/step1/_extraction_helpers.py start line: 0 end line: 0 size: 7 LOC McCabe index: 2 number of parameters: 3 id: 72 unit: def correct_gt_query() file: src/engine/step4/model_dev/utils/metrics.py start line: 0 end line: 0 size: 7 LOC McCabe index: 3 number of parameters: 1 id: 73 unit: def assert_all_frozen() file: src/engine/step4/model_dev/utils/model.py start line: 0 end line: 0 size: 7 LOC McCabe index: 1 number of parameters: 2 id: 74 unit: def forward() file: src/engine/step4/model_dev/utils/model.py start line: 0 end line: 0 size: 7 LOC McCabe index: 1 number of parameters: 0 id: 75 unit: def on_train_end() file: src/engine/step4/model_dev/utils/callback.py start line: 0 end line: 0 size: 7 LOC McCabe index: 4 number of parameters: 3 id: 76 unit: def on_validation_end() file: src/engine/step4/model_dev/utils/callback.py start line: 0 end line: 0 size: 7 LOC McCabe index: 4 number of parameters: 3 id: 77 unit: def _button_helper_detect_button() file: src/ui/ui.py start line: 0 end line: 0 size: 7 LOC McCabe index: 1 number of parameters: 2 id: 78 unit: def add_cm_entities() file: src/engine/step1/entity_extraction.py start line: 0 end line: 0 size: 6 LOC McCabe index: 1 number of parameters: 0 id: 79 unit: def set_seed() file: src/engine/step4/model_dev/utils/model.py start line: 0 end line: 0 size: 6 LOC McCabe index: 2 number of parameters: 1 id: 80 unit: def detect_entities() file: src/engine/pipeline.py start line: 0 end line: 0 size: 6 LOC McCabe index: 1 number of parameters: 2 id: 81 unit: def execute_sql_query() file: src/engine/pipeline.py start line: 0 end line: 0 size: 6 LOC McCabe index: 1 number of parameters: 2 id: 82 unit: def _triger_no_input_warning() file: src/ui/ui.py start line: 0 end line: 0 size: 6 LOC McCabe index: 1 number of parameters: 1 id: 83 unit: def _update_category_with_cm_record() file: src/engine/step1/_extraction_helpers.py start line: 0 end line: 0 size: 5 LOC McCabe index: 1 number of parameters: 3 id: 84 unit: def render_condition_template() file: src/engine/step5/rendering_functions.py start line: 0 end line: 0 size: 5 LOC McCabe index: 1 number of parameters: 2 id: 85 unit: def exact_matching() file: src/engine/step4/model_dev/utils/metrics.py start line: 0 end line: 0 size: 5 LOC McCabe index: 2 number of parameters: 2 id: 86 unit: def ids_to_clean_text() file: src/engine/step4/model_dev/utils/model.py start line: 0 end line: 0 size: 5 LOC McCabe index: 1 number of parameters: 2 id: 87 unit: def set_db_credentials() file: src/engine/pipeline.py start line: 0 end line: 0 size: 5 LOC McCabe index: 1 number of parameters: 3 id: 88 unit: def process_entities() file: src/engine/pipeline.py start line: 0 end line: 0 size: 5 LOC McCabe index: 2 number of parameters: 3 id: 89 unit: def _ethnicity_name2standard() file: src/engine/step2/disambiguation_helpers.py start line: 0 end line: 0 size: 5 LOC McCabe index: 2 number of parameters: 1 id: 90 unit: def _use_function_for_options() file: src/engine/step2/disambiguation_helpers.py start line: 0 end line: 0 size: 5 LOC McCabe index: 2 number of parameters: 2 id: 91 unit: def add_omop_disambiguation_options() file: src/engine/step2/entity_processing.py start line: 0 end line: 0 size: 5 LOC McCabe index: 3 number of parameters: 1 id: 92 unit: def _button_helper_clear_credentials() file: src/ui/ui.py start line: 0 end line: 0 size: 5 LOC McCabe index: 1 number of parameters: 2 id: 93 unit: def _button_helper_drug_info() file: src/ui/ui.py start line: 0 end line: 0 size: 5 LOC McCabe index: 2 number of parameters: 2 id: 94 unit: def _button_helper_condition_info() file: src/ui/ui.py start line: 0 end line: 0 size: 5 LOC McCabe index: 2 number of parameters: 2 id: 95 unit: def add_gender_entities() file: src/engine/step1/entity_extraction.py start line: 0 end line: 0 size: 4 LOC McCabe index: 1 number of parameters: 3 id: 96 unit: def add_ethnicity_entities() file: src/engine/step1/entity_extraction.py start line: 0 end line: 0 size: 4 LOC McCabe index: 1 number of parameters: 3 id: 97 unit: def add_race_entities() file: src/engine/step1/entity_extraction.py start line: 0 end line: 0 size: 4 LOC McCabe index: 1 number of parameters: 3 id: 98 unit: def get_average_metrics() file: src/engine/step4/model_dev/utils/metrics.py start line: 0 end line: 0 size: 4 LOC McCabe index: 1 number of parameters: 1 id: 99 unit: def _generative_step() file: src/engine/step4/model_dev/utils/model.py start line: 0 end line: 0 size: 4 LOC McCabe index: 1 number of parameters: 2 id: 100 unit: def clear_credentials() file: src/engine/pipeline.py start line: 0 end line: 0 size: 4 LOC McCabe index: 2 number of parameters: 1 id: 101 unit: def _initialize_general_output_vsection() file: src/ui/ui.py start line: 0 end line: 0 size: 4 LOC McCabe index: 1 number of parameters: 1 id: 102 unit: def _initialize_disambiguation_info_output_widget() file: src/ui/ui.py start line: 0 end line: 0 size: 4 LOC McCabe index: 1 number of parameters: 1 id: 103 unit: def visualize_entities() file: src/ui/ui.py start line: 0 end line: 0 size: 4 LOC McCabe index: 1 number of parameters: 3 id: 104 unit: def _display_name_info() file: src/ui/ui.py start line: 0 end line: 0 size: 4 LOC McCabe index: 1 number of parameters: 2 id: 105 unit: def render_drug_template() file: src/engine/step5/rendering_functions.py start line: 0 end line: 0 size: 3 LOC McCabe index: 1 number of parameters: 2 id: 106 unit: def render_gender_template() file: src/engine/step5/rendering_functions.py start line: 0 end line: 0 size: 3 LOC McCabe index: 1 number of parameters: 2 id: 107 unit: def render_race_template() file: src/engine/step5/rendering_functions.py start line: 0 end line: 0 size: 3 LOC McCabe index: 1 number of parameters: 2 id: 108 unit: def render_ethnicity_template() file: src/engine/step5/rendering_functions.py start line: 0 end line: 0 size: 3 LOC McCabe index: 1 number of parameters: 2 id: 109 unit: def get_state_name_template() file: src/engine/step5/template_definitions.py start line: 0 end line: 0 size: 3 LOC McCabe index: 1 number of parameters: 1 id: 110 unit: def freeze_params() file: src/engine/step4/model_dev/utils/model.py start line: 0 end line: 0 size: 3 LOC McCabe index: 2 number of parameters: 2 id: 111 unit: def __init__() file: src/engine/step4/model_dev/t5_inference.py start line: 0 end line: 0 size: 3 LOC McCabe index: 1 number of parameters: 2 id: 112 unit: def __init__() file: src/engine/pipeline.py start line: 0 end line: 0 size: 3 LOC McCabe index: 1 number of parameters: 2 id: 113 unit: def replace_name_for_placeholder() file: src/engine/pipeline.py start line: 0 end line: 0 size: 3 LOC McCabe index: 1 number of parameters: 3 id: 114 unit: def ml_call() file: src/engine/pipeline.py start line: 0 end line: 0 size: 3 LOC McCabe index: 1 number of parameters: 2 id: 115 unit: def __init__() file: src/ui/ui.py start line: 0 end line: 0 size: 3 LOC McCabe index: 1 number of parameters: 2 id: 116 unit: def _button_helper_clear_output() file: src/ui/ui.py start line: 0 end line: 0 size: 3 LOC McCabe index: 1 number of parameters: 2 id: 117 unit: def render_state_template() file: src/engine/step5/rendering_functions.py start line: 0 end line: 0 size: 2 LOC McCabe index: 1 number of parameters: 2 id: 118 unit: def lmap() file: src/engine/step4/model_dev/utils/model.py start line: 0 end line: 0 size: 2 LOC McCabe index: 1 number of parameters: 3 id: 119 unit: def is_logger() file: src/engine/step4/model_dev/utils/model.py start line: 0 end line: 0 size: 2 LOC McCabe index: 1 number of parameters: 1 id: 120 unit: def parse_score() file: src/engine/step4/model_dev/utils/model.py start line: 0 end line: 0 size: 2 LOC McCabe index: 2 number of parameters: 2 id: 121 unit: def validation_step() file: src/engine/step4/model_dev/utils/model.py start line: 0 end line: 0 size: 2 LOC McCabe index: 1 number of parameters: 3 id: 122 unit: def __len__() file: src/engine/step4/model_dev/utils/dataset.py start line: 0 end line: 0 size: 2 LOC McCabe index: 1 number of parameters: 1 id: 123 unit: def credentials_exist() file: src/engine/pipeline.py start line: 0 end line: 0 size: 2 LOC McCabe index: 1 number of parameters: 0 id: 124 unit: def _open_redshift_connection() file: src/engine/pipeline.py start line: 0 end line: 0 size: 2 LOC McCabe index: 1 number of parameters: 0 id: 125 unit: def _close_redshift_connection() file: src/engine/pipeline.py start line: 0 end line: 0 size: 2 LOC McCabe index: 1 number of parameters: 0 id: 126 unit: def render_template_query() file: src/engine/pipeline.py start line: 0 end line: 0 size: 2 LOC McCabe index: 1 number of parameters: 3 id: 127 unit: def _gender_name2standard() file: src/engine/step2/disambiguation_helpers.py start line: 0 end line: 0 size: 2 LOC McCabe index: 1 number of parameters: 1 id: 128 unit: def _race_name2standard() file: src/engine/step2/disambiguation_helpers.py start line: 0 end line: 0 size: 2 LOC McCabe index: 1 number of parameters: 1 id: 129 unit: def _state_name2standard() file: src/engine/step2/disambiguation_helpers.py start line: 0 end line: 0 size: 2 LOC McCabe index: 1 number of parameters: 1 id: 130 unit: def add_gender_options() file: src/engine/step2/disambiguation_helpers.py start line: 0 end line: 0 size: 2 LOC McCabe index: 1 number of parameters: 1 id: 131 unit: def add_race_options() file: src/engine/step2/disambiguation_helpers.py start line: 0 end line: 0 size: 2 LOC McCabe index: 1 number of parameters: 1 id: 132 unit: def add_state_options() file: src/engine/step2/disambiguation_helpers.py start line: 0 end line: 0 size: 2 LOC McCabe index: 1 number of parameters: 1 id: 133 unit: def add_ethnicity_options() file: src/engine/step2/disambiguation_helpers.py start line: 0 end line: 0 size: 2 LOC McCabe index: 1 number of parameters: 1 id: 134 unit: def add_time_options() file: src/engine/step2/disambiguation_helpers.py start line: 0 end line: 0 size: 2 LOC McCabe index: 1 number of parameters: 1 id: 135 unit: def main() file: src/ui/ui.py start line: 0 end line: 0 size: 2 LOC McCabe index: 1 number of parameters: 1