Dear All,

 

I have encounter an error when running samseg for a fraction of my subjects. I am very new to FreeSurfer so there is a good chance it is a rookie mistake. The error message I get is the following:

 

Traceback (most recent call last):

  File "/home/frog/freesurfer/python/scripts/run_samseg", line 166, in <module>

    reg_only=args.reg_only

  File "/home/frog/freesurfer/python/packages/freesurfer/samseg/Samseg.py", line 132, in segment

    return self.postProcess()

  File "/home/frog/freesurfer/python/packages/freesurfer/samseg/Samseg.py", line 239, in postProcess

    posteriors, biasFields, nodePositions, _, _ = self.computeFinalSegmentation()

  File "/home/frog/freesurfer/python/packages/freesurfer/samseg/Samseg.py", line 778, in computeFinalSegmentation

    posteriors = self.gmm.getPosteriors(data, priors, self.classFractions)

  File "/home/frog/freesurfer/python/packages/freesurfer/samseg/GMM.py", line 183, in getPosteriors

    posteriors = posteriors / np.expand_dims(normalizer, 1)

MemoryError: Unable to allocate 7.15 GiB for an array with shape (21800066, 44) and data type float64

 

The it finishes without a segmentation. Does anyone know the solution to this issue ?

 

King regards

Jesper Kallehauge