import struct import array import six def read_chunk(fh, chunk_location): """ Reads a piece of data given the location of its pointer. :param fh: an open file handle to the ND2 :param chunk_location: a pointer :type chunk_location: int :rtype: bytes """ if chunk_location is None: return None fh.seek(chunk_location) # The chunk metadata is always 16 bytes long chunk_metadata = fh.read(16) header, relative_offset, data_length = struct.unpack("IIQ", chunk_metadata) if header != 0xabeceda: raise ValueError("The ND2 file seems to be corrupted.") # We start at the location of the chunk metadata, skip over the metadata, and then proceed to the # start of the actual data field, which is at some arbitrary place after the metadata. fh.seek(chunk_location + 16 + relative_offset) return fh.read(data_length) def read_array(fh, kind, chunk_location): kinds = {'double': 'd', 'int': 'i', 'float': 'f'} if kind not in kinds: raise ValueError('You attempted to read an array of an unknown type.') raw_data = read_chunk(fh, chunk_location) if raw_data is None: return None return array.array(kinds[kind], raw_data) def _parse_unsigned_char(data): return struct.unpack("B", data.read(1))[0] def _parse_unsigned_int(data): return struct.unpack("I", data.read(4))[0] def _parse_unsigned_long(data): return struct.unpack("Q", data.read(8))[0] def _parse_double(data): return struct.unpack("d", data.read(8))[0] def _parse_string(data): value = data.read(2) while not value.endswith(six.b("\x00\x00")): # the string ends at the first instance of \x00\x00 value += data.read(2) return value.decode("utf16")[:-1].encode("utf8") def _parse_char_array(data): array_length = struct.unpack("Q", data.read(8))[0] return array.array("B", data.read(array_length)) def _parse_metadata_item(data, cursor_position): """ Reads hierarchical data, analogous to a Python dict. """ new_count, length = struct.unpack("