def info(self, hdf_path, channel_name=None):
"""
Print available information about HDF5 file, or specified channel.
:param hdf_path: HDF5 file of interest
:param channel_name: Print information only concerning specified channel.
:return: None
"""
if not os.path.isfile(hdf_path):
sys.exit("File not found!")
self.hdf_path = hdf_path
lmf = LightMicroscopyHDF(self.hdf_path)
if channel_name is not None:
print lmf.get_channel(channel_name)
else:
print lmf
lmf.close()
def write_affine(self, hdf_path, channel_name, affine_name, affine_path):
"""
Reads ITK produced affine file and writes it in nifti and itk compatible formats to a given channel.
:param hdf_path: path to the HDF5 file
:param channel_name: Identifies the channel to which affine will be written.
:param affine_name: Name of the affine, must be unique for channel.
:param affine_path: Path to a .txt file containing the affine parameters.
:return: None
"""
self.hdf_path = hdf_path
lmf = LightMicroscopyHDF(self.hdf_path)
channel = lmf.get_channel(channel_name)
channel.write_affine(affine_name, affine_path)
lmf.close()