init_folder="/home/traaffneu/joagra/code/insula"
data_folder="/project/4180000.18"
study_folder=$data_folder"/rest"
roi_folder=$data_folder"/SBA_roi"
viral_folder=$data_folder"//tracer"
template=$init_folder"/assets/template/ABI_template_200um.nii"
template_mask=$init_folder"/assets/template/mask_200um.nii"
template_50=$init_folder"/assets/template/ABI_template_50um.nii"
template_mask_50=$init_folder"/assets/template/mask_50um.nii"
atlas=$init_folder"/assets/template/ABI_atlas_reduced_200um.nii.gz"
atlas_50=$init_folder"/assets/template/ABI_atlas_reduced_50um.nii.gz"
atlas_label=$init_folder"/assets/template/ABI_atlas_reduced.csv"
qsub_env=TRUE
