print 'pt_id {}: VOI JSON file was NOT found!'.format(pt_id)
continue
for jj in voi_lps_paths:
# determine breast side
info_fname = os.path.basename(jj)
check = re.search(r'{}_(\w+)_(\d+).info.json'.format(pt_id),
info_fname)
if check:
breast_side = check.group(1)
else:
print 'pt_id {}: cannot determine breast side!'.format(pt_id)
print 'breast_side: {}'.format(breast_side)
# initialize a Dataframe for each patient data chunk
CENTER, HALFLENGTHS, time_sorted_IMNAMES = ImSeg.GetImInfo(jj)
# DMI MRI volumes (from brtool output)
pt_series_dir = glob.glob('{}/{:0>3d}/*/*'.format(imdir, pt_id))[0]
pt_dmi_list = [
'{}/dce/{}'.format(pt_series_dir, ff) for ff in time_sorted_IMNAMES
]
print 'image file dmi name: {}'.format(pt_dmi_list[0])
dceSeries = dmi.DMI(pt_dmi_list[0])
mri_itk_img = ITKImageHelper.generate_oriented_itkImage(dceSeries)
IG_mri_img = image_geometry.ImageGeometry(mri_itk_img)
voxsize = IG_mri_img.samplingRCS
for ii in range(len(voxsize)):
tmp_dict = {}
