This PR fixes #23 by creating data_processed_scseg and data_processed_lesionseg clean folders inside the specified <PATH_OUTPUT> via the sct_run_batch command. Additionally, it get rids of user arguments for the task and the centerline method to make things simpler as previously discussed.
I have ran training on SC segmentation with um/ivadomed_scseg_training branch and on lesion segmentation with the um/baseline_ivadomed_training branch using the newly created repositories from this current PR, and it works without any errors.
This PR fixes #23 by creating
data_processed_scseganddata_processed_lesionsegclean folders inside the specified<PATH_OUTPUT>via thesct_run_batchcommand. Additionally, it get rids of user arguments for the task and the centerline method to make things simpler as previously discussed.I have ran training on SC segmentation with
um/ivadomed_scseg_trainingbranch and on lesion segmentation with theum/baseline_ivadomed_trainingbranch using the newly created repositories from this current PR, and it works without any errors.