#!/usr/bin/env python
# -*- coding: utf-8 -*-
import sys
from niftynet import main
if __name__ == "__main__":
sys.exit(main())
mystr = "".join(mystr[:-1] + list(DirSave_N) + list('\n'))
mylist[indSave[0]] = mystr
#write where model is located
mystr = list(mylist[indModel[0]])
mystr = "".join(mystr[:-1] + list(DirModel) + list('\n'))
mylist[indModel[0]] = mystr
# Write to a new config file
f = open('config_inf.ini', 'w')
f.write(''.join(mylist))
f.close()
sys.argv = [
'', 'inference', '-a', 'net_segment', '--conf',
os.path.join('config_inf.ini'), '--batch_size', '1'
]
niftynet.main()
#
## Postprocess to get individual neurons
F1All = np.zeros([len(name), thresh.size[-1], minArea.size[-1]])
if DirMask is not None:
for ind in range(len(name)):
recall, precision, F1 = matlabLib.multiple_postProcessJaccard(
SZ,
DirSave_N,
DirMask,
name[ind],
AvgArea,
minArea,
thresh,
JThresh,