neuro_morpho.run
================

.. py:module:: neuro_morpho.run


Functions
---------

.. autoapisummary::

   neuro_morpho.run._config_line_filter
   neuro_morpho.run._config_line_to_pair
   neuro_morpho.run.config_str_to_dict
   neuro_morpho.run.run


Module Contents
---------------

.. py:function:: _config_line_filter(line: str) -> bool

.. py:function:: _config_line_to_pair(line: str) -> list[str]

.. py:function:: config_str_to_dict(config_str: str) -> dict

   Converts a Gin.config_str() to a dict for logging with comet.ml


.. py:function:: run(model: neuro_morpho.model.base.BaseModel, training_x_dir: str | pathlib.Path, training_y_dir: str | pathlib.Path, validating_x_dir: str | pathlib.Path, validating_y_dir: str | pathlib.Path, testing_x_dir: str | pathlib.Path, testing_y_dir: str | pathlib.Path, model_save_dir: str | pathlib.Path, model_out_y_dir: str | pathlib.Path, model_out_val_y_dir: str | pathlib.Path, model_stats_output_dir: str | pathlib.Path, labeled_stats_output_dir: str | pathlib.Path, report_output_dir: str | pathlib.Path, logger: neuro_morpho.logging.base.Logger = None, train: bool = False, get_threshold: bool = False, test: bool = False, infer: bool = False, cal_stats: bool = False)

   Run the model on the data and save the results.

   :param model: The model to run
   :type model: BaseModel
   :param data_dir: The directory containing the data
   :type data_dir: str|Path
   :param output_dir: The directory to save the results
   :type output_dir: str|Path