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Hi FS experts,
I am attempting to implement the patch on version 7.3.2 for issues with thalamic segmentation. I followed the instructions found here:
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has detected a possible fraud attempt from "secure-web.cisco.com" claiming to be https://surfer.nmr.mgh.harvard.edu/pub/dist/freesurfer/7.3.2-patch/readme.txt and placed the scripts in their designated directories. However, I received the same
error as before. The output indicates that the core.py script is located in the '$FREESURFER/python/packages/freesurfer/subregions/' directory, as opposed to the directory I was instructed to put the core.py script in ('$FREESURFER/python/packages/gems/subregions/').
Should I replace the core.py script within '$FREESURFER/python/packages/freesurfer/subregions/'? Or is there another course of action that I
can do that may solve this issue?
Here is the exact error, if that is at all helpful:
Step 2: aligning atlas to reference segmentation
Traceback (most recent call last):
File "/usr/local/freesurfer-7.3.2/python/scripts/segment_subregions", line 99, in <module>
subregions.run_cross_sectional(args.structure, parameters)
File "/usr/local/freesurfer-7.3.2/python/packages/freesurfer/subregions/process.py", line 52, in run_cross_sectional
model.align_atlas_to_seg()
File "/usr/local/freesurfer-7.3.2/python/packages/freesurfer/subregions/core.py", line 240, in align_atlas_to_seg
mask = mask.resize(1, interp='nearest')
TypeError: resize() got an unexpected keyword argument 'interp'
Thank you in advance for your help!
Best Wishes,
Katie
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Department of Psychology and Neuroscience | Temple University