Mercurial > repos > greg > create_streamlines

comparison create_streamlines.py @ 14:68a58b26d6df draft

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author greg
date Thu, 30 Nov 2017 10:16:18 -0500
parents ab72c2d00e5a
children 010f61a2276d
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13:ab72c2d00e5a 14:68a58b26d6df
43 # TODO: do not hard-code 'stanford_hardi' 43 # TODO: do not hard-code 'stanford_hardi'
44 input_dir = 'stanford_hardi' 44 input_dir = 'stanford_hardi'
45 os.mkdir(input_dir) 45 os.mkdir(input_dir)
46 for f in os.listdir(args.input_extra_files_path): 46 for f in os.listdir(args.input_extra_files_path):
47 shutil.copy(os.path.join(args.input_extra_files_path, f), input_dir) 47 shutil.copy(os.path.join(args.input_extra_files_path, f), input_dir)
48 hard_img, gtab = read_stanford_hardi() 48 hardi_img, gtab = read_stanford_hardi()
49 data = hardi_img.get_data() 49 data = hardi_img.get_data()
50 labels_file = os.path.join(input_dir, "aparc-reduced.nii.gz") 50 labels_file = os.path.join(input_dir, "aparc-reduced.nii.gz")
51 labels_img = nib.load(labels_file) 51 labels_img = nib.load(labels_file)
52 labels = labels_img.get_data() 52 labels = labels_img.get_data()
53 53