# Copyright 2020 Division of Medical Image Computing, German Cancer Research Center (DKFZ), Heidelberg, Germany # # Licensed under the Apache License, Version 2.0 (the "License"); # you may not use this file except in compliance with the License. # You may obtain a copy of the License at # # http://www.apache.org/licenses/LICENSE-2.0 # # Unless required by applicable law or agreed to in writing, software # distributed under the License is distributed on an "AS IS" BASIS, # WITHOUT WARRANTIES OR CONDITIONS OF ANY KIND, either express or implied. # See the License for the specific language governing permissions and # limitations under the License. from batchgenerators.utilities.file_and_folder_operations import load_pickle from nnunet.experiment_planning.experiment_planner_baseline_3DUNet_v21 import ExperimentPlanner3D_v21 from nnunet.paths import * class ExperimentPlanner3D_v21_Pretrained(ExperimentPlanner3D_v21): def __init__(self, folder_with_cropped_data, preprocessed_output_folder, pretrained_model_plans_file: str, pretrained_name: str): super().__init__(folder_with_cropped_data, preprocessed_output_folder) self.pretrained_model_plans_file = pretrained_model_plans_file self.pretrained_name = pretrained_name self.data_identifier = "nnUNetData_pretrained_" + pretrained_name self.plans_fname = join(self.preprocessed_output_folder, "nnUNetPlans_pretrained_%s_plans_3D.pkl" % pretrained_name) def load_pretrained_plans(self): classes = self.plans['num_classes'] self.plans = load_pickle(self.pretrained_model_plans_file) self.plans['num_classes'] = classes self.transpose_forward = self.plans['transpose_forward'] self.preprocessor_name = self.plans['preprocessor_name'] self.plans_per_stage = self.plans['plans_per_stage'] self.plans['data_identifier'] = self.data_identifier self.save_my_plans() print(self.plans['plans_per_stage']) def run_preprocessing(self, num_threads): self.load_pretrained_plans() super().run_preprocessing(num_threads)