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DevelopmentalImagingMCRI / MCRIBS

Surface version of the M-CRIB atlases.
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ValueError #7

Open xiaomin1111 opened 2 years ago

xiaomin1111 commented 2 years ago

Hi! When I try to run MCRIBReconAll on a dataset , the following error occurs： File "/home/wangxiaomin/MCRIBS/bin/APARC2ASEGCSFRestoreDrawEM", line 46, in NewASEGIMG[numpy.logical_and(ASEGIMG == 0, numpy.logical_and(FilledMask > 0, DrawEMLabelsIMG != DrawEMExtraCranialBackgroundLabel))] = FSCSFLabel ValueError: operands could not be broadcast together with shapes (217,290,290) (217,290,290,1)

Do you have any suggestions? Thanks!

chrisadamsonmcri commented 2 years ago

In /home/wangxiaomin/MCRIBS/bin/APARC2ASEGCSFRestoreDrawEM

Prior to that line add DrawEMLabelsIMG = numpy.squeeze(DrawEMLabelsIMG) ASEGIMG = numpy.squeeze(ASEGIMG) FilledMask = numpy.squeeze(FilledMask)

Should fix it.

xiaomin1111 commented 2 years ago

Thank you very much！The problem above has been solved. But the parcellation of the right cortex is intermittent.And the results of cortical parcellation are shown below. Do you have any idea why this might have happened?

1c39b0551c1fa2ed456746a6bb93587
chrisadamsonmcri commented 2 years ago

When that kind of thing happens I try to delete everything and run it again. Then see if it happens again.

From: xiaomin1111 @.> Sent: Thursday, 18 November 2021 7:16 PM To: DevelopmentalImagingMCRI/MCRIBS @.> Cc: Chris Adamson @.>; Comment @.> Subject: [EXTERNAL]Re: [DevelopmentalImagingMCRI/MCRIBS] ValueError (Issue #7)

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Thank you very much！The problem above has been solved. But the parcellation of the right cortex is intermittent.And the results of cortical parcellation are shown below. Do you have any idea why this might have happened? [1c39b0551c1fa2ed456746a6bb93587]https://user-images.githubusercontent.com/94094905/142376416-289b4f79-3b41-42fb-b16d-c7fc1044dbff.png

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