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import array |
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import numpy as np |
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import struct |
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import StringIO |
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class Nd2Reader(object): |
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""" |
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Reads .nd2 files, provides an interface to the metadata, and generates numpy arrays from the image data. |
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""" |
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def __init__(self, filename): |
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self._filename = filename |
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self._file_handler = None |
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@property |
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def file_handler(self): |
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if self._file_handler is None: |
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self._file_handler = open(self._filename, "rb") |
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return self._file_handler |
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@property |
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def chunk_map_location(self): |
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""" |
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The position in bytes from the beginning of the file where the chunk map begins. |
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The chunk map is a series of string labels followed by the position (in bytes) of the respective data. |
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""" |
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self.file_handler.seek(-8, 2) |
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return struct.unpack("Q", self.file_handler.read(8))[0] |
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def read_chunk(self, location): |
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pass |
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@staticmethod |
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def as_numpy_array(arr): |
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return np.frombuffer(arr) |