def test_sort_test(self, dicom_generator, tmpdir, capsys):
filename, dicom = dicom_generator(
SeriesDescription='desc',
SeriesNumber=1,
)
dcm = Dicom(filename, dcm=dicom)
# Base Directory
root = str(tmpdir)
# Subdirectories
directory = [
'%(SeriesDescription)s',
'%(SeriesDescription)s',
]
# Filename format
file_format = '%(ImageType)s'
dcm.sort(root, directory, file_format, keep_original=False, test=True)
destination = tmpdir.join('desc_Series0001').join('desc_Series0001')
destination = destination.join('Unknown')
# The original is unmodified
assert os.path.exists(filename)
# The file was not actually copied
assert os.path.exists(str(destination)) is False
captured = capsys.readouterr()
assert captured.out == str(destination) + '\n'
def test_sort_anonymize_invalid_field(self, dicom_generator, tmpdir):
filename, dicom = dicom_generator(
PatientName='TO^BE^REMOVED',
SeriesDescription='desc',
SeriesNumber=1,
)
dcm = Dicom(filename, dcm=dicom)
# Overwrite the PatientID (this field does not exist)
dcm.set_anonymization_rules({'PatientID': 'ANON'})
# Base Directory
root = str(tmpdir)
# Subdirectories
directory = [
'%(PatientID)s',
'%(SeriesDescription)s',
]
# Filename format
file_format = '%(ImageType)s'
dcm.sort(root, directory, file_format, keep_original=False)
destination = tmpdir.join('ANON').join('desc_Series0001')
destination = str(destination.join('Unknown'))
assert os.path.exists(destination)
# Make sure the field was not added to the new DICOM
newdcm = pydicom.read_file(destination)
assert 'PatientID' not in newdcm
def test_sort_discard_original(self, dicom_generator, tmpdir):
filename, dicom = dicom_generator(
SeriesDescription='desc',
SeriesNumber=1,
)
dcm = Dicom(filename, dcm=dicom)
# Base Directory
root = str(tmpdir)
# Subdirectories
directory = [
'%(SeriesDescription)s',
'%(SeriesDescription)s',
]
# Filename format
file_format = '%(ImageType)s'
dcm.sort(root, directory, file_format, keep_original=False)
destination = tmpdir.join('desc_Series0001').join('desc_Series0001')
destination = destination.join('Unknown')
assert os.path.exists(filename) is False
assert os.path.exists(str(destination))
def test_sort_anonymize(self, dicom_generator, tmpdir):
filename, dicom = dicom_generator(
PatientName='TO^BE^REMOVED',
SeriesDescription='desc',
SeriesNumber=1,
)
dcm = Dicom(filename, dcm=dicom)
# Overwrite the PatientName
dcm.set_anonymization_rules({'PatientName': 'ANON'})
# Base Directory
root = str(tmpdir)
# Subdirectories
directory = [
'%(PatientName)s',
'%(SeriesDescription)s',
]
# Filename format
file_format = '%(ImageType)s'
dcm.sort(root, directory, file_format, keep_original=False)
destination = tmpdir.join('ANON').join('desc_Series0001')
destination = str(destination.join('Unknown'))
assert os.path.exists(destination)
# Ensure the DICOM was modified
newdcm = pydicom.read_file(destination)
assert newdcm.PatientName == 'ANON'
def test_sort_inplace(self, dicom_generator, tmpdir):
filename, dicom = dicom_generator(
'image.dcm',
SeriesDescription='desc',
SeriesNumber=1,
)
dcm = Dicom(filename, dcm=dicom)
# Base Directory
root = str(tmpdir)
# Subdirectories
directory = None
# Filename format
file_format = '%(ImageType)s'
dcm.sort(
root,
directory,
file_format,
rootdir=[os.path.dirname(filename)],
)
destination = str(tmpdir.join('image.dcm'))
assert os.path.exists(destination)