sct.run('sct_compute_hausdorff_distance.py -i ' +
res_gm_seg_bin.file_name + ext + ' -r ' +
im_ref_gm_seg.file_name + ext + ' -t 1 -o ' + hd_name +
' -v ' + str(self.param.verbose))
sct.run('mv ./' + hd_name + ' ../../')
os.chdir('..')
return dice_name, hd_name
########################################################################################################################
# ------------------------------------------------------ MAIN ------------------------------------------------------- #
########################################################################################################################
if __name__ == "__main__":
param = Param()
input_target_fname = None
input_sc_seg_fname = None
input_t2_data = None
input_level_fname = None
input_ref_gm_seg = None
if param.debug:
print '\n*** WARNING: DEBUG MODE ON ***\n'
fname_input = param.path_dictionary + "/errsm_34.nii.gz"
fname_input = param.path_dictionary + "/errsm_34_seg_in.nii.gz"
else:
param_default = Param()
# Initialize the parser
parser = Parser(__file__)
parser.usage.set_description(
dice_fic.close()
# sct.run(' mv ./' + dice_name + ' ../')
return dice_name
########################################################################################################################
# ------------------------------------------------------ MAIN ------------------------------------------------------- #
########################################################################################################################
if __name__ == "__main__":
param = Param()
input_target_fname = None
input_sc_seg_fname = None
input_t2_data = None
input_level_fname = None
input_ref_gm_seg = None
if param.debug:
print '\n*** WARNING: DEBUG MODE ON ***\n'
fname_input = param.path_dictionary + "/errsm_34.nii.gz"
fname_input = param.path_dictionary + "/errsm_34_seg_in.nii.gz"
else:
param_default = Param()
# Initialize the parser
parser = Parser(__file__)
parser.usage.set_description('Project all the input image slices on a PCA generated from set of t2star images')
dice_fic.write(
"\n\n--------------------------------------------------------------\nDice coefficient on the White Matter segmentation:\n"
)
dice_fic.write(output_wm)
dice_fic.close()
# sct.run(' mv ./' + dice_name + ' ../')
return dice_name
########################################################################################################################
# ------------------------------------------------------ MAIN ------------------------------------------------------- #
########################################################################################################################
if __name__ == "__main__":
param = Param()
input_target_fname = None
input_sc_seg_fname = None
input_t2_data = None
input_level_fname = None
input_ref_gm_seg = None
if param.debug:
print "\n*** WARNING: DEBUG MODE ON ***\n"
fname_input = param.path_dictionary + "/errsm_34.nii.gz"
fname_input = param.path_dictionary + "/errsm_34_seg_in.nii.gz"
else:
param_default = Param()
# Initialize the parser
parser = Parser(__file__)
parser.usage.set_description("Project all the input image slices on a PCA generated from set of t2star images")
# sct.run(' mv ./' + dice_name + ' ../')
hd_name = 'hd_' + sct.extract_fname(self.target_fname)[1] + '_' + self.param.res_type + '.txt'
sct.run('sct_compute_hausdorff_distance.py -i ' + res_gm_seg_bin.file_name + ext + ' -r ' + im_ref_gm_seg.file_name + ext + ' -t 1 -o ' + hd_name + ' -v ' + str(self.param.verbose))
sct.run('mv ./' + hd_name + ' ../../')
os.chdir('..')
return dice_name, hd_name
########################################################################################################################
# ------------------------------------------------------ MAIN ------------------------------------------------------- #
########################################################################################################################
if __name__ == "__main__":
param = Param()
input_target_fname = None
input_sc_seg_fname = None
input_t2_data = None
input_level_fname = None
input_ref_gm_seg = None
if param.debug:
print '\n*** WARNING: DEBUG MODE ON ***\n'
fname_input = param.path_dictionary + "/errsm_34.nii.gz"
fname_input = param.path_dictionary + "/errsm_34_seg_in.nii.gz"
else:
param_default = Param()
# Initialize the parser
parser = Parser(__file__)
parser.usage.set_description('Project all the input image slices on a PCA generated from set of t2star images')
