def compute_scores(pairs_fname = 'jaccard_pairs.lst'):
with open(pairs_fname) as input:
names = [s.split() for s in input.readlines()]
for r in names:
moving_dir, moving_base, moving_ext = decompose_path(r[0])
fixed_dir, fixed_base, fixed_ext = decompose_path(r[1])
warped_name = "warpedDiff_"+moving_base+"_"+fixed_base+".nii.gz"
compute_jaccard(r[2], warped_name, False)
compute_target_overlap(r[2], warped_name, False)
def get_labeling_info():
'''
labels, colors = get_labeling_info()
'''
dirname, base, ext = rcommon.decompose_path(__file__)
common_labels_fname = dirname + 'common_labels.txt'
with open(common_labels_fname) as f:
lines=f.readlines()
colors={}
labels={}
for line in lines:
items=line.split()
if not items:
break
colors[int(items[0])]=(float(items[2])/255.0, float(items[3])/255.0, float(items[4])/255.0)
labels[int(items[0])]=items[1]
return labels, colors
def _load_dataset_info():
dirname, base, ext = rcommon.decompose_path(__file__)
fname = dirname + base + '.txt'
if _os.path.isfile(fname):
with open(fname) as f:
lines = [s.strip() for s in f.readlines()]
if len(lines) != 4:
print('Warning: expected base directories for IBSR, LPBA and Brainweb in '+fname+' in that order. Found '+str(len(lines))+' lines in file, you may get unexpected results')
else:
global _ibsr_base_dir
global _lpba_base_dir
global _brainweb_base_dir
global _scil_base_dir
_ibsr_base_dir = lines[0]
_lpba_base_dir = lines[1]
_brainweb_base_dir = lines[2]
_scil_base_dir = lines[3]
else:
print('Error: file not found. Expected base directories for IBSR, LPBA and Brainweb in text file "'+fname+'" in that order.')
def get_labeling_info():
'''
labels, colors = get_labeling_info()
'''
dirname, base, ext = rcommon.decompose_path(__file__)
common_labels_fname = dirname + 'common_labels.txt'
with open(common_labels_fname) as f:
lines = f.readlines()
colors = {}
labels = {}
for line in lines:
items = line.split()
if not items:
break
colors[int(items[0])] = (float(items[2]) / 255.0,
float(items[3]) / 255.0,
float(items[4]) / 255.0)
labels[int(items[0])] = items[1]
return labels, colors
