[Freesurfer] freeview crash

External Email - Use Caution To whom it may concern: I am a graduate student major in neurosurgery at Fudan University. Nowadays, I am learning to use freesurfer in order to segment brain sulci and gyri. However, in some situation, the freeview will crash. For example, when I l

Re: [Freesurfer] freeview crash

Hi Yusheng lh.area is not a surface. It is a scalar overlay that can be loaded onto a surface. Try loading lh.inflated or lh.white then load area or thickness on top of it using file load overlay or curvature Cheers Bruce > On Mar 22, 2021, at 10:30 PM, 超级无敌 wrote: > > Yusheng ___

[Freesurfer] Hippocampal Suubfields Segmentation Violation

External Email - Use Caution Dear FreeSurfer experts, I am trying to compute hippocampal subfields with https://secure-web.cisco.com/1f2QJwnqjis6w0KTpz2gk4AyWSMQmrO3JmYGqPPbxpD5JmmDwbJUxZvvKKZq6qt2Y3hoFg8_CcTB_QmP5hdXEqByKvJoyiipEKvwvEhB1aLd1_SovZI6F7-sjY9ZMjQxIGngrN1ZEtMTF9y2YNZb

Re: [Freesurfer] VirtualBox Ubuntu login

External Email - Use Caution Hello Sarah, I will send the information to your email shortly. - R. On Mar 22, 2021, at 22:35, Bick, Sarah wrote:External Email - Use CautionExternal Email - Use CautionI am attempting to login

[Freesurfer] VirtualBox Ubuntu login

External Email - Use Caution I am attempting to login to ubuntu via VirtualBox but am required to input a password for the “Developer” account. Could you please help me with what this is or how I can login? ___ Freesurfer mailing list F

[Freesurfer] License Agreement for re-distribution

External Email - Use Caution Hi All, I've developed an open-source software for MRI pseudonymization that uses Freesurfer so I wanted to check that I'm correctly handling the licenses.  In Freesurfer's License Agreement it says that: "If you distribute Software (as defined below)

Re: [Freesurfer] Which pial surface to trust

External Email - Use Caution A couple of questions:- 1) Do you experience similar variability with the T2 and FLAIR options or is FLAIR more variable due to it's generally lower SNR? 2) Should the spatial resolution of the T2/FLAIR scan match that of the T1 scan? Richard Message

[Freesurfer] "ERROR: crypt() returned null with 4-line file" when running via Singularity

External Email - Use Caution Hi all, I am trying to run a single subject through FreeSurfer 7.1.1 via Singularity image (pulled from the FreeSurfer DockerHub) like this: export SINGULARITYENV_FS_LICENSE=/mnt/22Q/images/license.txt export SINGULARITYENV_SUBJECTS_DIR=/mnt/22Q/dat

[Freesurfer] Research Assistant Positions at Washington University School of Medicine

External Email - Use Caution The Benzinger Imaging Core Laboratory at Washington University School of Medicine is looking for full-time Research Assistants (multiple openings available!) to work with us on magnetic resonance imaging and positr

Re: [Freesurfer] License Agreement for re-distribution

Hi Ezequiel, Just including the FS license in the software as a separate text file is fine. Best, Andrew From: freesurfer-boun...@nmr.mgh.harvard.edu on behalf of Ezequiel Mikulan Date: Monday, March 22, 2021 at 12:48 PM To: freesurfer@nmr.mgh.harvard.edu Subject: [Freesurfer] License Agree

Re: [Freesurfer] Some brain area missing after running recon-all

Hi Stef This is usually the result of a incorrectly fixed topological defect. You can confirm this if the area is present in the ?h.orig.nofix and not in the ?h.orig. The fix depends on the source of the defect. It might be as simple as drawing a single voxel back into the wm.mgz, but might ne

Re: [Freesurfer] Freesurfer 6.0.0 Container & MCR

Hi Ursula, I was just reminded that we purposely don’t include MCR in the container due to redistribution-restrictions by the MCR license. So, it’s up to the user to install or provide the MCR library if needed. best Andrew From: freesurfer-boun...@nmr.mgh.harvard.edu on behalf of Hoopes, An

Re: [Freesurfer] Problem with freesurfer measures

External Email - Use Caution Thanks!, how can I obtain the white matter volume stats using my annotation file? El mar, 16 mar 2021 a las 16:59, Douglas N. Greve () escribió: > I think they will give very similar results, but my guess is that #1 is a > little better > > On 3/8/202

Re: [Freesurfer] Freesurfer 7.1 recon-all -long exits with erros

External Email - Use Caution Dear Douglas, thank you for confirmation. My initial suspicion that fs_time caused the error was because of this part of the script: if($#outfile == 0) set outfile = /dev/stdout where it explicitly uses /dev/stdout when no output file is provid