from brats_toolkit.preprocessor import Preprocessor

# instantiate
prep = Preprocessor()

# define inputs and outputs
inputDir = "example_data/input_preprocessor_batch_processing/exams_to_preprocess"
outputDir = "example_data/output_preprocessor_batch"


# execute it
prep.batch_preprocess(
    exam_import_folder=inputDir,
    exam_export_folder=outputDir,
    # this way the brain extraction will run on gpu
    mode="gpu",
    confirm=True,
    skipUpdate=False,
    gpuid="0",
)