Generate pipeline adaptation to data class #582
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* first commit for creation of a Predict_manager
* creation of the trainer * remove trainer's methods from MAPSManager * creation of the trainer * introduce trainer in ClinicaDL's train and resume functions * small improvements in docstrings * omission * other omissions
* get trainer out of mapsmanager folder * base training config class * task specific config classes * unit test for config classes * changes in cli to have default values from task config objects * ranem and simplify build_train_dict * unit test for train_utils * small modification in training config toml template * rename build_train_dict in the other parts of the project * modify task_launcher to use config objects * Bump sqlparse from 0.4.4 to 0.5.0 (aramis-lab#558) Bumps [sqlparse](https://github.com/andialbrecht/sqlparse) from 0.4.4 to 0.5.0. - [Changelog](https://github.com/andialbrecht/sqlparse/blob/master/CHANGELOG) - [Commits](andialbrecht/sqlparse@0.4.4...0.5.0) --- updated-dependencies: - dependency-name: sqlparse dependency-type: indirect ... Signed-off-by: dependabot[bot] <[email protected]> Co-authored-by: dependabot[bot] <49699333+dependabot[bot]@users.noreply.github.com> * typo * change _network_task attribute * omissions * patches to match CLI data * small modifications * correction * correction reconstruction default loss * add architecture command specific to the task * add use_extracted_features parameter * add VAE parameters in reconstruction * add condition on whether cli arg is default or from user * correct wrong import in resume * validators on assignment * reformat * replace literal with enum * review on CLI options * convert enum to str for train function * correct track exp issue * test for ci --------- Signed-off-by: dependabot[bot] <[email protected]> Co-authored-by: dependabot[bot] <49699333+dependabot[bot]@users.noreply.github.com>
* Creation of GenerateConfig
* add predictConfig and InterpretConfig
* add Task class * rename task_launcher and put it in train_utils + add merge_cli_and_config_file_options function * remove task_utils * add unit tests * put train call in cli files * remove train function
* reorganize train folder
* first commirt to clean last PR * add enum file + adapt prepare-data
* create get_default_from_config_class and get_type_from_config_class * add enum for losses, transformations, metrics and optimizer * add PositiveInt, PositiveFloat, NonNegativeInt and NonNegtiveFloat typing
* create prepare data config
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