Hopefully I did this correctly: http://gate.nmr.mgh.harvard.edu/filedrop2/?p=49h8h1nu06w
Thanks!
David Saltzman
Lab Manager
Language and Brain Laboratory
Department of Speech, Language, & Hearing Sciences
University of Connecticut
________________________________ From: freesurfer-bounces@nmr.mgh.harvard.edu freesurfer-bounces@nmr.mgh.harvard.edu on behalf of Douglas N Greve greve@nmr.mgh.harvard.edu Sent: Monday, January 30, 2017 11:55:47 AM To: freesurfer@nmr.mgh.harvard.edu Subject: Re: [Freesurfer] Fw: Issue with creating inflated surface - poor surface registration?
Can you upload that subject to our filedrop? See below for link
On 01/30/2017 11:19 AM, Saltzman, David wrote:
Hello FreeSurfer Developers,
We have attempted to run the standard recon-all pipeline on multiple MRI datasets, and seem to be encountering the same error. While the recon-all log does not indicate there are any errors (so far as we can tell as novices), when we look at the inflated surfaces, there is clearly some problem creating the inflated surface, in that the hemispheres appeared to be mirrored. For the purpose of simplicity, we will include the log and scan information for the most recent anatomical scan we have to run the recon-all pipeline on. I believe the attached screenshot (anterior coronal view) will make the issue more apparent.
- FreeSurfer version: freesurfer-Darwin-lion-stable-pub-v5.3.0
- Platform: Mac OS 10.12
- recon-all.log: see attached
- Command run: recon-all -i "inputfile.nii" -subject subj1 -cortparc2
-parcstats2 -aparc2aseg -all -3T (scans were performed on a 3T scanner) 5) Scan information: Data Axes Tilt: Oblique (15.784 deg. from plumb) Data Axes Approximate Orientation: first (x) = Anterior-to-Posterior second (y) = Superior-to-Inferior third (z) = Right-to-Left [-orient ASR] R-to-L extent: -80.718 [R] -to- 94.282 [L] -step- 1.000 mm [176 voxels] A-to-P extent: -188.767 [A] -to- 58.233 [P] -step- 1.000 mm [248 voxels] I-to-S extent: -186.650 [I] -to- 68.350 [S] -step- 1.000 mm [256 voxels]
Any help would be tremendously appreciated!
Thanks,
David Saltzman
/Lab Manager/
Language and Brain Laboratory
Department of Speech, Language, & Hearing Sciences
University of Connecticut
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