# None
# import of local modules
import hcp.hcp7t.archive as hcp7t_archive
import hcp.hcp7t.resting_state_stats.one_subject_completion_checker as one_subject_completion_checker
import hcp.hcp7t.subject as hcp7t_subject
import utils.file_utils as file_utils
# authorship information
__author__ = "Timothy B. Brown"
__copyright__ = "Copyright 2016, The Human Connectome Project"
__maintainer__ = "Timothy B. Brown"
# configure logging and create module logger
logging.config.fileConfig(file_utils.get_logging_config_file_name(__file__))
logger = logging.getLogger(file_utils.get_logger_name(__file__))
DNM = "---" # Does Not Matter
NA = "N/A" # Not Available
DATE_FORMAT = '%Y-%m-%d %H:%M:%S'
def get_resource_name(scan_name):
return scan_name + '_RSS'
def _is_subject_complete(subject_results_dict):
for scan, scan_results_dict in subject_results_dict.items():
if scan_results_dict['files_exist'] == 'FALSE':
return False
# import of third party modules
# import of local modules
import hcp.hcp3t.archive as hcp3t_archive
import hcp.hcp3t.bedpostx.one_subject_completion_checker as one_subject_completion_checker
import hcp.hcp3t.subject as hcp3t_subject
import utils.file_utils as file_utils
# authorship information
__author__ = "Timothy B. Brown"
__copyright__ = "Copyright 2016, The Human Connectome Project"
__maintainer__ = "Timothy B. Brown"
# configure logging and create module logger
logging.config.fileConfig(file_utils.get_logging_config_file_name(__file__))
logger = logging.getLogger(file_utils.get_logger_name(__file__))
# module constants
DNM = "---" # Does Not Matter
NA = "N/A" # Not Available
DATE_FORMAT = '%Y-%m-%d %H:%M:%S'
if __name__ == '__main__':
# get list of subjects to check
subject_file_name = file_utils.get_subjects_file_name(__file__)
logger.info("Retrieving subject list from: " + subject_file_name)
subject_list = hcp3t_subject.read_subject_info_list(subject_file_name,
separator='\t')
# open complete and incomplete files for writing
import utils.file_utils as file_utils
import utils.my_configparser as my_configparser
import utils.os_utils as os_utils
# authorship information
__author__ = "Timothy B. Brown"
__copyright__ = "Copyright 2016, The Human Connectome Project"
__maintainer__ = "Timothy B. Brown"
# configure logging and create a module logger
logging_config_file_name=file_utils.get_logging_config_file_name(__file__)
print(os.path.basename(__file__)+":", "Getting logging configuration from:", logging_config_file_name)
logging.config.fileConfig(logging_config_file_name)
logger_name=file_utils.get_logger_name(__file__)
print(os.path.basename(__file__)+":", "logger name:", logger_name)
logger = logging.getLogger(logger_name)
class BatchSubmitter(batch_submitter.BatchSubmitter):
def __init__(self):
super().__init__(hcp7t_archive.Hcp7T_Archive())
def submit_jobs(self, subject_list):
# Read the configuration file
config_file_name = file_utils.get_config_file_name(__file__)
logger.info("Reading configuration from file: " + config_file_name)
