(recordernew) [deepika.sundarraman@gpu-sm01-13 fish_1]$ recOrder reconstruct -i ./label_free_initial.zarr/0/0/0 -c /hpc/projects/balla_group/imaging/zebrafish_infection/falcon/20231117_caax_mpeg_gfp_coro1a_mcherry_9dpf/fish_1/birefringence-and-phase.yml -o ./reconstruction.zarr
Generating transfer functions and storing in transfer_function_birefringence-and-phase.zarr

Generating birefringence transfer function with settings:
swing: 0.1

Generating phase transfer function with settings:
wavelength_illumination: 0.532
yx_pixel_size: 0.209
z_pixel_size: 2.0
z_padding: 0
index_of_refraction_media: 1.3
numerical_aperture_detection: 0.75
numerical_aperture_illumination: 0.2
invert_phase_contrast: false

/home/deepika.sundarraman/.conda/envs/recordernew/lib/python3.9/site-packages/waveorder/optics.py:321: UserWarning: To copy construct from a tensor, it is recommended to use sourceTensor.clone().detach() or sourceTensor.clone().detach().requires_grad_(True), rather than torch.tensor(sourceTensor).
  * torch.tensor(z_position_list)[:, None, None]
/home/deepika.sundarraman/.conda/envs/recordernew/lib/python3.9/site-packages/waveorder/optics.py:370: UserWarning: To copy construct from a tensor, it is recommended to use sourceTensor.clone().detach() or sourceTensor.clone().detach().requires_grad_(True), rather than torch.tensor(sourceTensor).
  * torch.tensor(z_position_list)[:, None, None]
Traceback (most recent call last):
  File "/home/deepika.sundarraman/.conda/envs/recordernew/bin/recOrder", line 8, in <module>
    sys.exit(cli())
  File "/home/deepika.sundarraman/.conda/envs/recordernew/lib/python3.9/site-packages/click/core.py", line 1157, in __call__
    return self.main(*args, **kwargs)
  File "/home/deepika.sundarraman/.conda/envs/recordernew/lib/python3.9/site-packages/click/core.py", line 1078, in main
    rv = self.invoke(ctx)
  File "/home/deepika.sundarraman/.conda/envs/recordernew/lib/python3.9/site-packages/click/core.py", line 1688, in invoke
    return _process_result(sub_ctx.command.invoke(sub_ctx))
  File "/home/deepika.sundarraman/.conda/envs/recordernew/lib/python3.9/site-packages/click/core.py", line 1434, in invoke
    return ctx.invoke(self.callback, **ctx.params)
  File "/home/deepika.sundarraman/.conda/envs/recordernew/lib/python3.9/site-packages/click/core.py", line 783, in invoke
    return __callback(*args, **kwargs)
  File "/home/deepika.sundarraman/Documents/Githubs/recOrder/recOrder/cli/reconstruct.py", line 48, in reconstruct
    compute_transfer_function_cli(
  File "/home/deepika.sundarraman/Documents/Githubs/recOrder/recOrder/cli/compute_transfer_function.py", line 184, in compute_transfer_function_cli
    generate_and_save_phase_transfer_function(
  File "/home/deepika.sundarraman/Documents/Githubs/recOrder/recOrder/cli/compute_transfer_function.py", line 101, in generate_and_save_phase_transfer_function
    dataset[
  File "/home/deepika.sundarraman/.conda/envs/recordernew/lib/python3.9/site-packages/iohub/ngff.py", line 617, in __setitem__
    self.create_image(key, value)
  File "/home/deepika.sundarraman/.conda/envs/recordernew/lib/python3.9/site-packages/iohub/ngff.py", line 666, in create_image
    self._group.array(
  File "/home/deepika.sundarraman/.local/lib/python3.9/site-packages/zarr/hierarchy.py", line 1187, in array
    return self._write_op(self._array_nosync, name, data, **kwargs)
  File "/home/deepika.sundarraman/.local/lib/python3.9/site-packages/zarr/hierarchy.py", line 895, in _write_op
    return f(*args, **kwargs)
  File "/home/deepika.sundarraman/.local/lib/python3.9/site-packages/zarr/hierarchy.py", line 1193, in _array_nosync
    return array(data, store=self._store, path=path, chunk_store=self._chunk_store,
  File "/home/deepika.sundarraman/.local/lib/python3.9/site-packages/zarr/creation.py", line 397, in array
    z[...] = data
  File "/home/deepika.sundarraman/.local/lib/python3.9/site-packages/zarr/core.py", line 1388, in __setitem__
    self.set_basic_selection(pure_selection, value, fields=fields)
  File "/home/deepika.sundarraman/.local/lib/python3.9/site-packages/zarr/core.py", line 1483, in set_basic_selection
    return self._set_basic_selection_nd(selection, value, fields=fields)
  File "/home/deepika.sundarraman/.local/lib/python3.9/site-packages/zarr/core.py", line 1787, in _set_basic_selection_nd
    self._set_selection(indexer, value, fields=fields)
  File "/home/deepika.sundarraman/.local/lib/python3.9/site-packages/zarr/core.py", line 1839, in _set_selection
    self._chunk_setitem(chunk_coords, chunk_selection, chunk_value, fields=fields)
  File "/home/deepika.sundarraman/.local/lib/python3.9/site-packages/zarr/core.py", line 2106, in _chunk_setitem
    self._chunk_setitem_nosync(chunk_coords, chunk_selection, value,
  File "/home/deepika.sundarraman/.local/lib/python3.9/site-packages/zarr/core.py", line 2117, in _chunk_setitem_nosync
    self.chunk_store[ckey] = self._encode_chunk(cdata)
  File "/home/deepika.sundarraman/.local/lib/python3.9/site-packages/zarr/core.py", line 2244, in _encode_chunk
    cdata = self._compressor.encode(chunk)
  File "numcodecs/blosc.pyx", line 559, in numcodecs.blosc.Blosc.encode
  File "/home/deepika.sundarraman/.local/lib/python3.9/site-packages/numcodecs/compat.py", line 155, in ensure_contiguous_ndarray
    ensure_contiguous_ndarray_like(
  File "/home/deepika.sundarraman/.local/lib/python3.9/site-packages/numcodecs/compat.py", line 121, in ensure_contiguous_ndarray_like
    raise ValueError(msg)
ValueError: Codec does not support buffers of > 2147483647 bytes