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ERROR! FOV=289.000 > 256 Include the flag -cw256 with recon-all! #29

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chrisgorgo opened this issue Jul 27, 2018 · 1 comment · Fixed by #36
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ERROR! FOV=289.000 > 256 Include the flag -cw256 with recon-all! #29

chrisgorgo opened this issue Jul 27, 2018 · 1 comment · Fixed by #36
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@oesteban
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bug Something isn't working freesurfer FreeSurfer related improvements and issues
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0.0.5

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@chrisgorgo
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Originally reported at https://neurostars.org/t/freesurfer-error-fov-256

For files with unusually large FOV freesurfer needs to perform cropping. Example image
image

Suggested solution: detect if FOV is larger than 256 in any direction and add -cw256 flag to recon-all. Add a red warning to the reports to check the outputs carefully.
@oesteban oesteban transferred this issue from nipreps/fmriprep Jan 8, 2019
@oesteban oesteban added the freesurfer FreeSurfer related improvements and issues label Jan 8, 2019
@oesteban oesteban added this to To do in 0.0.5 Jan 8, 2019
@oesteban oesteban self-assigned this Jan 8, 2019
@oesteban oesteban added the bug Something isn't working label Jan 8, 2019
oesteban added a commit to oesteban/smriprep that referenced this issue Jan 9, 2019
@oesteban
[FIX] Add -cw256 flag for images with FoV > 256 voxels
658e722 
Close nipreps#29
@oesteban oesteban mentioned this issue Jan 9, 2019
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0.0.5 automation moved this from To do to Done Jan 12, 2019
@ins0mniac2
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I saw the last message at #52 which says the fix for this is now available in fmriprep. However, I just tried with 1.3.0.post3 I am still getting the error

ERROR! FOV=282.000 > 256
Include the flag -cw256 with recon-all!
Inspect orig.mgz to ensure the head is fully visible.

This was referenced Jan 22, 2020
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bug Something isn't working freesurfer FreeSurfer related improvements and issues
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[FIX] Add -cw256 flag for images with FoV > 256 voxels oesteban/smriprep
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@chrisgorgo @oesteban @ins0mniac2