[BUG] dicom_seg_writer_operator.py -> process_images(...) does not accept numpy array

[kavmar]

Hi,

I would like to result my app a DICOM SEG and I am trying to use dicom_seg_writer for it. This is how I emit the data from my segmentation operator:

emit_data = data[0]["pred"].cpu().numpy()
emit_data = np.squeeze(emit_data, 0)
emit_data = emit_data.T.astype(np.uint16)

op_output.emit(emit_data, self.output_name_seg)

I checked that the data is a numpy array in debugger. However, according to dicom_seg_writer_operator.py lines 291 a 292:

elif not isinstance(image, np.ndarray):
raise ValueError("'image' is not a numpy array, Image object, or supported image file.")

While lines before are trying to convert image to numpy the 291 will not pass even if the image is numpy.

Am I missing something?

@CPBridge as discussed in highdicom, you contributed this operator, could you please doublecheck?

Thanks

[CPBridge]

Hi @kavmar sorry it has taken me a while to get around to looking at this. I think somehow this got broken since I originally wrote it.

Can you see whether #515 fixes your problem?

[kavmar]

Hi @CPBridge. Thanks a lot. Yes this is what I also did earlier on my local environment and it fixed the problem.