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laramiel avatar laramiel commented on May 25, 2024

The main issue is that you are not incrementing your chunk index in your iterator.
Also, you don't actually need to read the tensorstore as part of the iterator, you could instead generate tensorstore.DimExpression as in the following:

class TensorStoreIterator():
  def __init__(self, shape, num_chunks=32):
    self.shape = shape
    self.i = 0
    self.num_chunks = num_chunks
    self.chunk_size = int(np.ceil(self.shape[0] / num_chunks))

  def __len__(self):
    return self.num_chunks

  def __iter__(self):
    return self

  def __next__(self):
    if self.i >= self.num_chunks:
      raise StopIteration
    chunk_start = self.i * self.chunk_size
    chunk_end = min(chunk_start + self.chunk_size, self.shape[0])
    self.i += 1
    return ts.d[0][chunk_start:chunk_end]

Then, perhaps, something like this will work:

ts_data_iter = TensorStoreIterator(store.shape)

list(ts_data_iter)

But you might not want to chunk solely on the "x" dimension. You might also look at the google-research connectomics repository, which uses tensorstore for chunk-based processing:

https://github.com/google-research/connectomics

from tensorstore.

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