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Unsupported gzip encoding for NRRD reader

See original GitHub issue

I would like to open a volume and slice it with vedo using code example provided by Marco:

from vedo import load, show
from vedo.applications import Slicer

file_path = './average_template_100.nrrd'
vol = load(file_path)

plt = Slicer(vol, bg='white', bg2='lightblue', useSlider3D=False)
plt.show()

but the code fails with this error:

2020-12-01 22:41:59.342 (   1.042s) [          905B63]      vtkNrrdReader.cxx:395    ERR| vtkNrrdReader (0x7fb2b8469d40): Unsupported encoding: gzip
2020-12-01 22:41:59.342 (   1.043s) [          905B63]       vtkExecutive.cxx:753    ERR| vtkCompositeDataPipeline (0x7fb2b8445e70): Algorithm vtkNrrdReader(0x7fb2b8469d40) returned failure for request: vtkInformation (0x7fb2b55e4960)
  Debug: Off
  Modified Time: 159
  Reference Count: 1
  Registered Events: (none)
  Request: REQUEST_INFORMATION
  ALGORITHM_AFTER_FORWARD: 1
  FORWARD_DIRECTION: 0


Slicer tool
2020-12-01 22:42:00.220 (   1.920s) [          905B63]vtkSmartVolumeMapper.cx:271    ERR| vtkSmartVolumeMapper (0x7fb2b8469fa0): Could not find the requested vtkDataArray! 0, 0, -1,
2020-12-01 22:42:00.249 (   1.949s) [          905B63]vtkSmartVolumeMapper.cx:271    ERR| vtkSmartVolumeMapper (0x7fb2b8469fa0): Could not find the requested vtkDataArray! 0, 0, -1,

I have loaded the same volume within Paraview (VTK) all fine. Is it because of an older VTK version or because of how vtkNrrdReader is called? Or something else?

Issue Analytics

State:
Created 3 years ago
Comments:10 (5 by maintainers)

Top GitHub Comments

1reaction

nantillecommented, Dec 2, 2020

Thanks, worth checking in this case I suppose. Note that there’s a typo in your import (brainio instead of branio).

1reaction

FedeClaudicommented, Dec 2, 2020

@nantille you might try using brainio from Adam Tyson:

from branio import branio

volume = branio.load_any('path to file') # gives a 3D numpy array with volume data

this has worked for me in the past

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