try:
localizer = localizer[0]
except:
logging.error('{}: no localizer or mprage found'.format(sub))
continue
try:
date, fieldstr = mtr.info_from_tarfile(localizer)
except:
logging.error('Error pulling info from {}'.format(localizer))
logging.error('skipping {}'.format(sub))
continue
arda_dirname = mtr.make_dirname(date, visitstr, fieldstr + 'T')
print arda_dirname
ardadir = mtr.os.path.join(arda, subid, arda_dirname)
exists, _ = mtr.glob_file(ardadir)
if exists:
logging.warn('{} exists, skipping'.format(ardadir))
continue
os.makedirs(ardadir)
for scan in scans:
newfile = mtr.fname_presuffix(scan, prefix = subid,
newpath = ardadir)
mtr.copy_file_withdate(scan, newfile)
logging.info('copy: {}'.format(newfile))
scannotes = glob(os.path.join(sub, '*scan*notes*.txt' ))
try:
mtr.copy_file_withdate(scannotes[0], ardadir)
logging.info('{} copy scannotes'.format(ardadir))
except:
logging.info('{} missing scan notes'.format(sub))
# meta data
logging.info(raw)
_, rawf = os.path.split(raw)
subid = mtr.get_subid(raw)
if subid is None:
logging.error('no subid in %s'%(raw))
continue
logging.info(subid)
visit_number = mtr.get_visit_number(raw)
# get estimate of series field and date
try:
field, date = mtr.get_field_date(raw)
dirname = mtr.make_dirname(date, visit_number, field)
ardadir = mtr.os.path.join(arda, subid, dirname)
exists, _ = mtr.glob_file(ardadir)
if not exists:
os.makedirs(ardadir)
arda_raw = os.path.join(ardadir, rawf)
exists, _ = mtr.glob_file(arda_raw)
copy = True
if exists:
# check if update needed
same = mtr.compare_filedates(raw, arda_raw)
if same:
logging.info('%s and %s are same, no update'%(raw,
arda_raw))
copy = False
else:
copy = True
mtr.clean_directory(ardadir)
