def open_subjects_file(self):
control_location = os.getenv('XNAT_PBS_JOBS_CONTROL', default="")
options = QFileDialog.Options()
#options |= QFileDialog.DontUseNativeDialog
#subject_file_name, other_stuff = QFileDialog.getOpenFileName(self, "Open Subject File", "", "Subject Files (*.subjects);;All Files (*)", options=options)
subject_file_name, other_stuff = QFileDialog.getOpenFileName(self, "Open Subject File", control_location, "Subject Files (*.subjects);;All Files (*)", options=options)
if subject_file_name:
new_subject_list = ccf_subject.read_subject_info_list(subject_file_name, separator=":")
self.controlPanel.subject_list = new_subject_list
description=
"Batch mode submission of processing jobs for Structural Preprocessing"
)
# option arguments
#
# The --force-job-submission or -f option tells this program to ignore
# checking to see whether a set of jobs is already submitted for a
# subject/session and to go ahead and submit the jobs anyhow.
parser.add_argument('-f',
'--force-job-submission',
dest='force_job_submission',
action='store_true',
required=False,
default=False)
# parse the command line arguments
args = parser.parse_args()
# get Database credentials
xnat_server = os_utils.getenv_required('XNAT_PBS_JOBS_XNAT_SERVER')
userid, password = user_utils.get_credentials(xnat_server)
# get list of subjects to process
subject_file_name = file_utils.get_subjects_file_name(__file__)
print("Retrieving subject list from: " + subject_file_name)
subject_list = ccf_subject.read_subject_info_list(subject_file_name,
separator=":")
do_submissions(userid, password, subject_list, args.force_job_submission)
