Skip to content
GitLab
Closed
Issue created by Pierre Paleo@paleoOwner

Crash with "bamboo_0004" when using binning

Dataset: bamboo_0004

/home/esrf/paleo/.venv/py38_ubuntu20_pow9/lib/python3.8/site-packages/skcuda/cublas.py:284: UserWarning: creating CUBLAS context to get version number
  warnings.warn('creating CUBLAS context to get version number')
Computing final flats/darks for bamboo_0004_0000.nx
Wrote final flats and darks to /tmp/nabu_flatfield_k860k2pd/bamboo_0004_0000_nabu_processes.hdf5
Estimating center of rotation
CenterOfRotationSlidingWindow({})
Estimated center of rotation: 909.39
Overwriting configuration: start_z = 1080 and end_z = 1080
Going to reconstruct slices (1080, 1080)

Processing sub-volume (1080, 1081)
Creating a new pipeline object
Data shape for flatfield is (2300, 1, 1280)
Data shape for take_log is (2300, 1, 1280)
Data shape for build_sino is (2300, 1, 1280)
Allocating sinos: (1, 1150, 1648)
Allocating recs: (1, 1650, 1650)
Estimated center of rotation: 454.50
Data shape for reconstruction is (1150, 1648)
Data shape for flatfield is (2300, 1, 1280)
Reading data
Region = (None, None, 1080, 1081)
End Reading data
Transfering radios to GPU
Allocating radios: (2300, 1, 1280)
Applying flat-field
End Applying flat-field
Taking logarithm
End Taking logarithm
Building sinograms
End Building sinograms
Reconstruction
Traceback (most recent call last):
  File "/home/esrf/paleo/.venv/py38_ubuntu20_pow9/bin/nabu", line 8, in <module>
    sys.exit(main())
  File "/home/esrf/paleo/.venv/py38_ubuntu20_pow9/lib/python3.8/site-packages/nabu/resources/cli/reconstruct.py", line 147, in main
    R.reconstruct()
  File "/home/esrf/paleo/.venv/py38_ubuntu20_pow9/lib/python3.8/site-packages/nabu/app/local_reconstruction.py", line 299, in reconstruct
    self.pipeline.process_chunk(sub_region=task["sub_region"])
  File "/home/esrf/paleo/.venv/py38_ubuntu20_pow9/lib/python3.8/site-packages/nabu/app/fullfield.py", line 706, in process_chunk
    self._process_chunk()
  File "/home/esrf/paleo/.venv/py38_ubuntu20_pow9/lib/python3.8/site-packages/nabu/app/fullfield.py", line 693, in _process_chunk
    self._reconstruct()
  File "/home/esrf/paleo/.venv/py38_ubuntu20_pow9/lib/python3.8/site-packages/nabu/app/utils.py", line 32, in wrapper
    res = func(*args, **kwargs)
  File "/home/esrf/paleo/.venv/py38_ubuntu20_pow9/lib/python3.8/site-packages/nabu/app/fullfield.py", line 649, in _reconstruct
    self.reconstruction.fbp(
  File "/home/esrf/paleo/.venv/py38_ubuntu20_pow9/lib/python3.8/site-packages/nabu/reconstruction/fbp.py", line 323, in filtered_backprojection
    return self.backproj(self._d_sino, output=output)
  File "/home/esrf/paleo/.venv/py38_ubuntu20_pow9/lib/python3.8/site-packages/nabu/reconstruction/fbp.py", line 309, in backproj
    d_slice = self._set_output(output, check=do_checks)
  File "/home/esrf/paleo/.venv/py38_ubuntu20_pow9/lib/python3.8/site-packages/nabu/reconstruction/fbp.py", line 300, in _set_output
    assert output.shape == self.slice_shape, "Expected output shape %s but got %s" % (self.slice_shape, output.shape)
AssertionError: Expected output shape (1648, 1648) but got (1650, 1650)

It seems to occur only when CoR is on the left.

Edited by Pierre Paleo