help='Prefix used in the result files')
arg_parser.add_argument('--hemi',
default='',
choices=HEMI_CHOICE,
help='Mandatory for surface-based analysis.')
arguments = arg_parser.parse_args()
config_file = arguments.configuration_file
categories = arguments.categories
parameters = arguments.parameters
prefix = arguments.prefix
hemi = HEMI_CHOICE[arguments.hemi]
""" LOAD DATA USING DATALOADER """
subjects, covariate_names, covariates, processing_parameters, affine_matrix, output_dir, \
results_io, type_data = helper_functions.load_data_from_config_file(config_file)
if type_data == 'surf':
if hemi == '':
raise ValueError(
'Please, specify the hemisphere for surface-based analysis. See arguments.'
)
if parameters:
# Load user defined parameters
try:
parameters_path = path.normpath(path.join(output_dir, parameters))
with open(parameters_path, 'rb') as f:
udp = eval(f.read())
print()
print('User defined parameters have been successfully loaded.')
except IOError as ioe:
arguments = arguments_parser.parse_args()
config_file = arguments.configuration_file
method = arguments.method
method_func = METHOD_CHOICES[method]
dirs = arguments.dirs
cluster_size = arguments.cluster_size
p_thresholds = arguments.p_thresholds
gamma = arguments.gamma
percentile_filter = arguments.percentile_filter
gm_threshold = arguments.gm_threshold
labels = arguments.labels
hemi = HEMI_CHOICE[arguments.hemi]
""" LOAD DATA USING DATALOADER """
subjects, covariate_names, covariates, processing_parameters, \
affine_matrix, output_dir, results_io, type_data = helper_functions.load_data_from_config_file(config_file)
if type_data == 'surf':
if hemi == '':
raise ValueError(
'Please, specify the hemisphere for surface-based analysis. See arguments.'
)
""" LOAD RESULTS DATA """
if dirs is None:
# Find prediction parameters inside results folder
pathname = path.join(output_dir, '**',
hemi + '*prediction_parameters.mha')
print(pathname)
for p in glob(pathname):
n, category, pred_p, corr_p, proc = helper_functions.get_results_from_path(
p, results_io, subjects, covariate_names, covariates,
