Re: [Freesurfer] Freeview problems

External Email - Use Caution You can check the post (quoted below) to verify the setup for the 7.4..1 release. Instead of running the freeview command as listed in the post, you can run the mri_info command with no arguments to get the help info about the command line options.

Re: [Freesurfer] Freeview problems

ysg> From: freesurfer-boun...@nmr.mgh.harvard.edu on behalf of Huang, Yujing Sent: Monday, April 15, 2024 5:27:35 PM To: Freesurfer support list Subject: Re: [Freesurfer] Freeview problems I don’t think you pass the arguments correctly to mri_info. You need to specify an input

Re: [Freesurfer] Freeview problems

://surfer.nmr.mgh.harvard.edu/fswiki/SetupConfiguration_Mac Also, which version of Freesurfer you are using? Best, Yujing From: freesurfer-boun...@nmr.mgh.harvard.edu On Behalf Of Savoia, Alice (Stud. FPN) Sent: Monday, April 15, 2024 11:12 AM To: Freesurfer support list Subject: Re: [Freesurfer] Freeview

Re: [Freesurfer] Freeview problems

l 15, 2024 4:44 PM To: Freesurfer support list Subject: Re: [Freesurfer] Freeview problems Can you try ‘mri_info --voxel 0 0 0’? Just wanted to make sure the license file is read properly. Best, Yujing From: freesurfer-boun...@nmr.mgh.harvard.edu On Behalf Of Savoia, Alice (Stud.

Re: [Freesurfer] Freeview problems

Can you set the terminal output? From: freesurfer-boun...@nmr.mgh.harvard.edu On Behalf Of Savoia, Alice (Stud. FPN) Sent: Monday, April 15, 2024 11:03 AM To: Freesurfer support list Subject: Re: [Freesurfer] Freeview problems External Email - Use Caution I think is not reading

Re: [Freesurfer] Freeview problems

Sent: Monday, April 15, 2024 4:44 PM To: Freesurfer support list Subject: Re: [Freesurfer] Freeview problems Can you try ‘mri_info --voxel 0 0 0’? Just wanted to make sure the license file is read properly. Best, Yujing From: freesurfer-boun...@nmr.mgh.harvard.edu On Behalf

Re: [Freesurfer] Freeview problems

ang, Ruopeng mailto:rwa...@mgh.harvard.edu>> Sent: Monday, April 15, 2024 4:40 PM To: Freesurfer support list mailto:freesurfer@nmr.mgh.harvard.edu>> Subject: Re: [Freesurfer] Freeview problems Can you confirm where your license file is? Ruopeng On Apr 15, 2024, at 10:36 AM, Savoia, Alice (

Re: [Freesurfer] Freeview problems

External Email - Use Caution Is in the freesurfer directory From: freesurfer-boun...@nmr.mgh.harvard.edu on behalf of Wang, Ruopeng Sent: Monday, April 15, 2024 4:40 PM To: Freesurfer support list Subject: Re: [Freesurfer] Freeview problems

Re: [Freesurfer] Freeview problems

Can you confirm where your license file is? Ruopeng On Apr 15, 2024, at 10:36 AM, Savoia, Alice (Stud. FPN) mailto:a.sav...@student.maastrichtuniversity.nl>> wrote: External Email - Use Caution To whom it may concern, I am using freesurfer package on a MacBook Pro (macOS Sonoma,

[Freesurfer] Freeview problems

External Email - Use Caution To whom it may concern, I am using freesurfer package on a MacBook Pro (macOS Sonoma, Version 14.1), but freeview shuts down immediately when I try to open any file. The license is in the correct place. Thank you for your help, Best regards.

Re: [Freesurfer] Freeview crashes when trying to load volumes

I would also check if the license file is installed properly. On Jan 15, 2024, at 7:06 PM, fsbuild mailto:fsbu...@contbay.com>> wrote: External Email - Use Caution It would help for us to know what your machine is running, e.g., linux or MacOS (Intel or Silicon Mac) - and what the

Re: [Freesurfer] Freeview crashes when trying to load volumes

External Email - Use Caution It would help for us to know what your machine is running, e.g., linux or MacOS (Intel or Silicon Mac) - and what the version is for the operating system, e.g. Linux Ubuntu 22, MacOS 12, etc. If you are running Linux on Windows thru either WSL or a

[Freesurfer] Freeview crashes when trying to load volumes

External Email - Use Caution Hello, Please could I get some advice on my installation? I've downloaded version 7.4.0 using the same steps described in the installation video

Re: [Freesurfer] Freeview keeps aborting.

External Email - Use Caution Thank you! From: fsbuild Sent: Tuesday, January 9, 2024 4:56 PM To: freesurfer@nmr.mgh.harvard.edu Cc: Dong, Yilei Subject: Re: [Freesurfer] Freeview keeps aborting. I would check with your IT support staff about

Re: [Freesurfer] Freeview keeps aborting.

External Email - Use Caution I would check with your IT support staff about the error including asking if the machines in your cluster are setup to display X Windows sessions with image viewing applications like Freeview. If the machines support remote graphics, they should be

Re: [Freesurfer] Freeview not showing output

...@nmr.mgh.harvard.eduOn Behalf OfWang, RuopengSent:Wednesday, January 3, 2024 4:29 PMTo:Freesurfer support list freesurfer@nmr.mgh.harvard.eduSubject:Re: [Freesurfer] Freeview not showing output⚠Caution: External senderWhat if you run glxgears command? Do you see 3D spinning gears or just a blank

Re: [Freesurfer] Freeview not showing output

.harvard.edu>> On Behalf Of Wang, Ruopeng Sent: Wednesday, January 3, 2024 4:29 PM To: Freesurfer support list mailto:freesurfer@nmr.mgh.harvard.edu>> Subject: Re: [Freesurfer] Freeview not showing output ⚠ Caution: External sender What if you run glxgears command? Do you see 3D spinni

Re: [Freesurfer] Freeview not showing output

support list Subject: Re: [Freesurfer] Freeview not showing output ⚠ Caution: External sender What if you run glxgears command? Do you see 3D spinning gears or just a blank window? Ruopeng From: freesurfer-boun...@nmr.mgh.harvard.edu<mailto:freesurfer-b

Re: [Freesurfer] Freeview not showing output

: [Freesurfer] Freeview not showing output External Email - Use Caution Hello FreeSurfer Developers and Community, Hope your day has been going well and happy new year! I'm attempting to visualise FreeSurfer outputs using freeview, as described on the “Introduction to Freesurfer Output

Re: [Freesurfer] Freesurfer/Freeview Version Compatibility

Yes, that is correct On 12/20/2023 2:07 PM, Edwards, Vincent wrote: External Email - Use Caution Hi, I'm following up on my quick question from this time last week. I have several brains that I sent through recon-all using Freesurfer 7. If I wanted to use Freeview on Freesurfer

Re: [Freesurfer] Freesurfer/Freeview Version Compatibility

Yes, that is correct. On 12/13/2023 3:01 AM, Edwards, Vincent wrote: External Email - Use Caution Hello, I have several brains that I sent through recon-all using Freesurfer 7. If I wanted to use Freeview on Freesurfer version 5 to do pial/wm/and control point edits, would I be

Re: [Freesurfer] Freesurfer/Freeview Version Compatibility

External Email - Use Caution The freesurfer 6.X and 7.x release release notes summarize some changes for Freeview (listed below) since version 5 was released in 2013. If none of the improvements in features/stability are relevant to what you are doing, then I don’t see why you

[Freesurfer] Freesurfer/Freeview Version Compatibility

External Email - Use Caution Hi, I'm following up on my quick question from this time last week. I have several brains that I sent through recon-all using Freesurfer 7. If I wanted to use Freeview on Freesurfer version 5 to do pial/wm/and control point edits, would I be able

[Freesurfer] Freesurfer/Freeview Version Compatibility

External Email - Use Caution Hello, I have several brains that I sent through recon-all using Freesurfer 7. If I wanted to use Freeview on Freesurfer version 5 to do pial/wm/and control point edits, would I be able to do recon-all through Freesurfer 7? I assumed that since

Re: [Freesurfer] Freeview issue

External Email - Use Caution The Qt graphics libraries may need virtualGl over a remote X connection. So try prefacing your freeview command with "vglrun". See the introductory text about vglrun and the install commands on this page,

Re: [Freesurfer] Freeview issue

External Email - Use Caution I did the following codes respectively:> cd> wget 

Re: [Freesurfer] Freeview issue

External Email - Use Caution Wondering if you used the freesurfer_ubuntu22-7.4.1_amd64.deb installer package from the download page and installed it from your Downloads folder via, $ sudo apt install ./freesurfer_ubuntu22-7.4.1_amd64.deb The link for that file on the downloads

Re: [Freesurfer] Freeview issue

External Email - Use Caution I have the same problem. I would greatly appreciate your help with this. Yunus Soleymani Ph.D. Candidate of Neuroimaging Tehran University of Medical Sciences

[Freesurfer] Freeview issue

External Email - Use Caution Dear Expert, Recently I installed the latest version of freesurfer in Ubuntu OS 22LTS.. Freesurfer is installed successfully, but freeview gives some errors which I pasted below. Please provide your suggestions. Thank You Ramesh freeview This

Re: [Freesurfer] Freeview misaligned surfaces "warning matrixinverse failed"

External Email - Use Caution Hi Andrei, I was referring to .bashrc file located in these directories: /root/.bashrc /home/'your_user'/.bashrc ___ Freesurfer mailing list Freesurfer@nmr.mgh.harvard.edu

Re: [Freesurfer] Freeview misaligned surfaces "warning matrixinverse failed"

External Email - Use Caution Indeed, the /usr/local/freesurfer/.bashrc file is empty Trying to set the FS_DISABLE_LANG to true or false also had no consequences. But thank you, anyway. Andrei Em ter., 17 de out. de 2023 às 07:45, fsbuild escreveu: > > From what I can see, the

Re: [Freesurfer] Freeview misaligned surfaces "warning matrixinverse failed"

External Email - Use Caution From what I can see, the freesurfer release 7 installers do not modify the shell init file, e.g., bashrc, and neither did the VM provided in the past with freesurfer 7.2.0 pre-installed have an entry with FS_DISABLE_LANG set in the bashrc file. - R.

Re: [Freesurfer] Freeview misaligned surfaces "warning matrixinverse failed"

External Email - Use Caution Hi Andrei and Freesurfer experts, We had the same problem in the past and we noticed there was an extra line in the .bashrc file of Ubuntu: export FS_DISABLE_LANG="true" Deleting this line solves the problem. The .bashrc file should contain only the

Re: [Freesurfer] Freeview misaligned surfaces "warning matrixinverse failed"

-100.566986 17.722403 > num_intersecting_faces 0 > > Em seg., 16 de out. de 2023 às 11:35, Huang, Yujing < > yhuan...@mgh.harvard.edu> escreveu: > >> mri_info is for volumes. mris_info works with surfaces. >> >> >> >> Which version of Freesurfer are

Re: [Freesurfer] Freeview misaligned surfaces "warning matrixinverse failed"

<mailto:freesurfer-boun...@nmr.mgh.harvard.edu> mailto:freesurfer-boun...@nmr.mgh.harvard.edu>> On Behalf Of Andrei Bieger Sent: Monday, October 16, 2023 10:25 AM To: Freesurfer support list mailto:freesurfer@nmr.mgh.harvard.edu>> Subject: Re: [Freesurfer] Freeview misaligned sur

Re: [Freesurfer] Freeview misaligned surfaces "warning matrixinverse failed"

Would it be possible to send us the volume and the surface files? If the volume geometric info from the surface is missing or wrong, it would be unlikely to align with the volume. Ruopeng On Oct 15, 2023, at 11:06 AM, Andrei Bieger mailto:andreibie...@gmail.com>> wrote: External

Re: [Freesurfer] freeview upgrade isn’t working/library issue

External Email - Use Caution I don't think we can guarantee upgrading freeview will work with the existing libraries in a sufficiently old freeview distribution. I’m not sure what version of Ubuntu is running from the kernel listed below, but you could create a backup of your

[Freesurfer] freeview upgrade isn’t working/library issue

External Email - Use Caution TO: freesurfer@nmr.mgh.harvard.edu FROM: matthew.hopt...@nki.rfmh.org SUBJECT: freeview upgrade isn’t working/library issue Hello FreeSurfer Developers, I followed the instructions here to upgrade freeview:

Re: [Freesurfer] Freeview output viewing error

External Email - Use Caution If you search the freesurfer mail archives for WSL you should find postings about how to setup an X-server on the windows host in order for Linux applications to run in WSL and use X-Windows to display images. We provide some documentation, however

Re: [Freesurfer] freeview (visualize pial and white surface)

freesurfer-boun...@nmr.mgh.harvard.edu on behalf of DS Sent: Thursday, August 3, 2023 3:30:12 PM To: freesurfer@nmr.mgh.harvard.edu Subject: [Freesurfer] freeview (visualize pial and white surface) External Email - Use Caution Hi experts, I have a question about freeview

Re: [Freesurfer] freeview (visualize pial and white surface)

: Thursday, August 3, 2023 3:30:12 PM To: freesurfer@nmr.mgh.harvard.edu Subject: [Freesurfer] freeview (visualize pial and white surface) External Email - Use Caution Hi experts, I have a question about freeview. Recently, when I loaded lh.pial and lh.white at the sam

Re: [Freesurfer] freeview (visualize pial and white surface)

External Email - Use Caution Would it be possible to send us the two surface files? From: freesurfer-boun...@nmr.mgh.harvard.edu on behalf of DS Sent: Thursday, August 3, 2023 3:30:12 PM To: freesurfer@nmr.mgh.harvard.edu Subject: [Freesurfer

[Freesurfer] freeview (visualize pial and white surface)

External Email - Use Caution Hi experts, I have a question about freeview. Recently, when I loaded lh.pial and lh.white at the same time, the freeview was suddenly aborted and reported the following error. ../mesa-22.0.3/src/mesa/vbo/vbo_attrib_tmp.h:234:_save_Vertex3fv:

Re: [Freesurfer] Freeview sudden termination

External Email - Use Caution .ctab is not an annotation file. Please try loading .annot files. Ruopeng On Aug 1, 2023, at 10:50 PM, Jacob Bunyamin mailto:jacob.bunya...@monash.edu>> wrote: External Email - Use Caution Hi, I am running freesurfer/7.3.2 and had an

[Freesurfer] Freeview sudden termination

External Email - Use Caution Hi, I am running freesurfer/7.3.2 and had an issue with freeview sudden termination. The error message is *sub-002/label/aparc.annot.ctabMRISreadAnnotationIntoArray: vertex index out of range: 538980362 i=2020300A, in_array_size=132205* *annot

[Freesurfer] Freeview update for FS v6.0.0 on MacOS

External Email - Use Caution Hello FreeSurfer Developers, I have installed FreeSurfer v6.0.0 in my MacOS 12.6.7 but I got Freeview crashed due to PETSC error (which has been fixed in FreeSurfer v7.1.1). For the consistency with my previous work, I do not want to upgrade to

Re: [Freesurfer] Freeview ERROR: label name '3rd-Ventricle' is duplicated (FSv6.0.0 with updated Freeview)

External Email - Use Caution Have you tried the latest Mac build of freeview? This has been fixed recently. On Jul 30, 2023, at 11:02 AM, Ha Manh Luu mailto:hal4...@med.cornell.edu>> wrote: External Email - Use Caution From: Ha Manh Luu Sent: Thursday, July 20, 2023

Re: [Freesurfer] freeview error....

External Email - Use Caution Hello Gonzalo, If you have not already done so, then I suggest installing the .deb installer package for 7.3.2 from, surfer.nmr.mgh.harvard.edu/pub/dist/freesurfer/7.3.2/freesurfer_ubuntu18-7.3.2_amd64.deb - by cd’ing to where you downloaded the above

[Freesurfer] freeview error....

External Email - Use Caution Hi: I have Ubuntu 18.04.4 LTS and freesurfer release freesurfer-linux-ubuntu18_x86_64-7.3.2-20220804-6354275. When I run freeview, I got the error: "This application failed to start because no Qt platform plugin could be initialized. Reinstalling

Re: [Freesurfer] freeview surface edgecolor overlay

External Email - Use Caution This has been fixed in the dev build and the upcoming v7.4. You can update freeview following the instructions here:

[Freesurfer] freeview surface edgecolor overlay

External Email - Use Caution Dear freesurfer team, in freeview, setting surface edgecolor in axial/saggital/coronal slices to the overlay color seems to have stopped working between 7.1.1 and 7.2.0 (and up until 7.3.2). This might have been fixed in the development version

Re: [Freesurfer] freeview rh and lh overlay_mask files both showing in the lh hemisphere

External Email - Use Caution Would it be possible to send us the surface and the overlay and mask files so I can replicate the issue? Ruopeng On Apr 16, 2023, at 9:18 PM, Jewelia Karina Yao mailto:jewelia...@stanford.edu>> wrote: External Email - Use Caution Hi

[Freesurfer] freeview rh and lh overlay_mask files both showing in the lh hemisphere

External Email - Use Caution Hi FreeSurfer Developers, I'm trying to use freeview to load the rh and lh inflated surfaces together with overlays and overlay masks. I'm able to this separately and successfully for each hemisphere, but when I try to load the hemispheres together,

Re: [Freesurfer] Freeview segmentation fault

External Email - Use Caution You can set the environment variable FS_LICENSE to point to your license file. Some people set that in their shell init file, e.g., .bashrc, and keep the file license.txt in their home directory. For example, $ cd $HOME$ head -1

Re: [Freesurfer] Freeview segmentation fault

No, I meant the freesurfer license file. Where is the file located on your hard drive? From: freesurfer-boun...@nmr.mgh.harvard.edu on behalf of OSE KADIRI Sent: Tuesday, April 4, 2023 3:44 PM To: Freesurfer support list Subject: Re: [Freesurfer] Freeview

Re: [Freesurfer] Freeview segmentation fault

External Email - Use Caution Hello, It was added to my ~/.bashrc file. Is this what you mean? Thank you, Ose On Tue, Apr 4, 2023 at 7:57 AM Wang, Ruopeng wrote: > Where is your license file located? > > On Apr 4, 2023, at 2:26 AM, OSE KADIRI wrote: > > External Email

Re: [Freesurfer] Freeview segmentation fault

Where is your license file located? On Apr 4, 2023, at 2:26 AM, OSE KADIRI mailto:osekad...@g.ucla.edu>> wrote: External Email - Use Caution Hello, I am having some trouble using Freeview on my university cluster with my MacBook (macOS Monterey version 12.4). Freeview works fine

[Freesurfer] Freeview segmentation fault

External Email - Use Caution Hello, I am having some trouble using Freeview on my university cluster with my MacBook (macOS Monterey version 12.4). Freeview works fine from a Windows machine, but when I try to view images (using XQuartz on my Mac), I get "segmentation fault." It

Re: [Freesurfer] Freeview error

Sent: Wednesday, March 15, 2023 8:31 AM To: Freesurfer support list Subject: Re: [Freesurfer] Freeview error External Email - Use Caution Hi Yujing, It shows “-rw-rw-r-- 1 username staff 0 Mar 15 09:44 T1.mgz” and “error: mghRead(/Users/results/sub-101/mri/T1.mgz, -1): read error”. Best

Re: [Freesurfer] Freeview error

, March 15, 2023 at 20:17To: Freesurfer support list Subject: Re: [Freesurfer] Freeview errorHi, Can you check if the path is correct?  What does ‘ls -l /Users/results/sub-101/mri/T1.mgz’ show? If you do ‘mri_info /Users/results/sub-101/mri/T1.mgz’, does it report anything? Best, Yujing From: freesurfer

Re: [Freesurfer] Freeview error

: Tuesday, March 14, 2023 11:05 PM To: freesurfer@nmr.mgh.harvard.edu Subject: [Freesurfer] Freeview error External Email - Use Caution Hi, I met some errors when showing recon -all results in Freeview. I could not open the brainmask.mgz or the T1.mgz via the terminal or Freeview GUI

[Freesurfer] Freeview error

External Email - Use CautionHi, I met some errors when showing recon -all results in Freeview. I could not open the brainmask.mgz or the T1.mgz via the terminal or Freeview GUI. But they worked well with MRIcron. Could you please give me some advice on it? The errors:error:

Re: [Freesurfer] Freeview error

, 2023 12:59 PM To: freesurfer@nmr.mgh.harvard.edu Subject: [Freesurfer] Freeview error External Email - Use Caution Hi, I'm trying to open freeview in a linux node in my institution's computing cluster and an error is coming up consistently - see below. Can you please advise? Thank you

[Freesurfer] Freeview error

External Email - Use Caution Hi, I'm trying to open freeview in a linux node in my institution's computing cluster and an error is coming up consistently - see below. Can you please advise? Thank you. agc01:~ moana004$ module list > No Modulefiles Currently Loaded. > agc01:~

Re: [Freesurfer] Freeview Edit options restricted

External Email - Use Caution Also is it possible to not archive or not include email signature on that reply email. didn't mean to have my email signature on there On Tue, Mar 7, 2023 at 12:30 PM Carlos Alcocer wrote: > Thank you for your prompt response. Yes, while it does not

Re: [Freesurfer] Freeview Edit options restricted

External Email - Use Caution Thank you for your prompt response. Yes, while it does not show the brush size and certain menu options being grayed out, when I hover the cursor over these options the cursor becomes grayed out and it does not let me click on any options. For example

Re: [Freesurfer] Freeview Edit options restricted

Recon Edit mode will disable a few options. But it looks to me the Brush Size is not grayed out from your screenshot. To close the window, you can just switch to Navigate mode. Ruopeng On Mar 7, 2023, at 11:34 AM, Carlos Alcocer mailto:cd...@cornell.edu>> wrote: External Email - Use

[Freesurfer] Freeview Edit options restricted

External Email - Use Caution Hello, When I try to do recon-edit, it does not let me click on certain options ie. changin the brush size. It additionally doesnt let me exit out of or minimize it. I am running the most recent version of freesurfer (7.3.2) on linux (wsl). I

Re: [Freesurfer] Freeview displaying images in the wrong orientation

External Email - Use Caution That worked, thank you so much! Best, Nathan From: freesurfer-boun...@nmr.mgh.harvard.edu on behalf of Wang, Ruopeng Date: Monday, 27 February 2023 at 15:38 To: Freesurfer support list Subject: Re: [Freesurfer] Freeview displaying images

Re: [Freesurfer] Freeview displaying images in the wrong orientation

esurfer-boun...@nmr.mgh.harvard.edu>> on behalf of Wang, Ruopeng mailto:rwa...@mgh.harvard.edu>> Date: Wednesday, 22 February 2023 at 14:24 To: Freesurfer support list mailto:freesurfer@nmr.mgh.harvard.edu>> Subject: Re: [Freesurfer] Freeview displaying images in the wrong orientatio

Re: [Freesurfer] Freeview displaying images in the wrong orientation

Can you send us a screenshot or even better, a sample image file? Ruopeng > On Feb 22, 2023, at 7:34 AM, Nathan Kindred (PGR) > wrote: > >External Email - Use Caution > > Hi, > > When I am displaying certain images in freeview the orientation does not > match what is

[Freesurfer] Freeview displaying images in the wrong orientation

External Email - Use Caution Hi, When I am displaying certain images in freeview the orientation does not match what is displayed in both orient_mri and SPM. The coronal and horizontal views seems to be okay but the midsagittal view is often wrong with the front of the brain

[Freesurfer] Freeview Installation Error

External Email - Use Caution Hi, I have been trying to install FreeSurfer and I went to test out the freeview command but received the following error. freeview: error while loading shared libraries: libGL.so.1: cannot open shared object file: No such file or directory I am

Re: [Freesurfer] Freeview 'quit unexpectedly' before opening

External Email - Use Caution When you say you are running Mojave, I think you probably meant to write 10..14.6 (not 10.16.6). You could check you have the latest version of XQuartz (2.8.5) installed

Re: [Freesurfer] Freeview 'quit unexpectedly' before opening

Can you try the latest dev build from here? https://surfer.nmr.mgh.harvard.edu/fswiki/UpdateFreeview Ruopeng On Feb 8, 2023, at 2:28 PM, Rankin McGugin mailto:rankin.mcgu...@gmail.com>> wrote: External Email - Use Caution of course, see attached Rankin W. McGugin, PhD Research

Re: [Freesurfer] Freeview 'quit unexpectedly' before opening

Would it be possible to send us the full crash report? You can find it in the Console app. Best, Ruopeng On Feb 8, 2023, at 1:48 PM, Rankin McGugin mailto:rankin.mcgu...@gmail.com>> wrote: External Email - Use Caution Here is my error log: Last login: Wed Feb 8 12:03:23 on ttys000

[Freesurfer] Freeview 'quit unexpectedly' before opening

External Email - Use Caution Hello, I am a longtime FS user. I have read threads on this topic but no suggestions work in my case. I have the license file in place. I removed my previous version of FS and have updated to 7.3.2. However, now when I try to start Freeview, I get

Re: [Freesurfer] freeview: set file as read only (@Ruopeng)

Not that I know of. Ruopeng would know for sure. On 1/7/2023 5:00 PM, Aaron Tanenbaum wrote: External Email - Use Caution Hello, Is there a way to set a loaded volume as read only in freeview on the command line? ___ Freesurfer mailing

Re: [Freesurfer] Freeview label thickness: making the label outline thicker?

That edge thickness is for the intersecting outlines on the 2D slices. There is no settings for outline thickness for labels. Best, Ruopeng On Jan 8, 2023, at 10:58 AM, Greta Tuckute mailto:gret...@mit.edu>> wrote: Hi developers, I am using Freeview to plot overlays on inflated surfaces with

Re: [Freesurfer] freeview: set file as read only

External Email - Use Caution You could try the usual file system commands to set permissions before opening, e.g., read only, $ chmod 444 myvolume.mgz Or on the command line prior to running freeview, $ chmod 444 myvolume.mgz freeview myvolume.mgz You could put commands like

[Freesurfer] freeview: set file as read only

External Email - Use Caution Hello, Is there a way to set a loaded volume as read only in freeview on the command line? ___ Freesurfer mailing list Freesurfer@nmr.mgh.harvard.edu

Re: [Freesurfer] freeview quit unexpectedly on Mac OS M1

External Email - Use Caution Please try the following with the latest 7.3.2 release. The release page

[Freesurfer] freeview quit unexpectedly on Mac OS M1

External Email - Use Caution Hello FreeSurfer Developers, I am trying to run freesurfer which works fine up to a certain point. For example, starting freesurfer and loading a template works fine. But when I try loading a surface, freesurfer suddenly crashes after loading

Re: [Freesurfer] Freeview crashes after installing the software

External Email - Use Caution Please try the following with the latest 7.3.2 release if you are not already running 7.3.2. The release page

[Freesurfer] Freeview crashes after installing the software

External Email - Use Caution Hello, I have a MacBook Pro with Ventura 13.1 OS, 64 GB, SMC Apple M1 Max. I recently started installing the freesurfer software but unfortunately, a simple volume loading into the freeview crashes without displaying any image. I have tried

Re: [Freesurfer] Freeview quit unexpectedly

u> mailto:freesurfer@nmr.mgh.harvard.edu>> Cc: Addison, Reuben mailto:raddi...@mghihp.edu>> Subject: Re: [Freesurfer] Freeview quit unexpectedly External Email - Use Caution By crashing from the GUI do you mean that you when you try to navigate to open a file, e.g., $SUBJECTS_DIR/ber

Re: [Freesurfer] Freeview quit unexpectedly

surfer@nmr.mgh.harvard.edu Cc: Addison, Reuben Subject: Re: [Freesurfer] Freeview quit unexpectedly External Email - Use Caution By crashing from the GUI do you mean that you when you try to navigate to open a file, e.g., $SUBJECTS_DIR/bert/mri/brain.mgz, using the freeview GUI Open->

Re: [Freesurfer] Freeview quit unexpectedly

External Email - Use Caution By crashing from the GUI do you mean that you when you try to navigate to open a file, e.g., $SUBJECTS_DIR/bert/mri/brain.mgz, using the freeview GUI Open- pull down menu that you get the core dump listed below, but it works when your run

Re: [Freesurfer] Freeview quit unexpectedly

External Email - Use Caution I would downloaded and install the latest Xquartz (X-Windows for MacOS) which is version 2.8.3

Re: [Freesurfer] Freeview quit unexpectedly

Friday, December 16, 2022 10:02:56 AM To: fsbuild ; freesurfer@nmr.mgh.harvard.edu Subject: Re: [Freesurfer] Freeview quit unexpectedly Thank you. I tried the steps and it worked once. Now I try opening the file and it keeps crushing The only file that opens now without crushing is “fr

Re: [Freesurfer] Freeview quit unexpectedly

@nmr.mgh.harvard.edu Cc: Addison, Reuben Subject: Re: [Freesurfer] Freeview quit unexpectedly External Email - Use Caution Please try the following: 1) Open a new terminal window and run the bash shell as, $ arch -arm64 /bin/bash 2) set FS_LICENSE to point to your license.txt file. Say it is in your

Re: [Freesurfer] Freeview quit unexpectedly

External Email - Use Caution Please try the following: 1) Open a new terminal window and run the bash shell as, $arch -arm64 /bin/bash 2) set FS_LICENSE to point to your license.txt file. Say it is in your home directory, e.g., $HOME/license.txt. It can be anywhere but you just

[Freesurfer] Freeview quit unexpectedly

I am trying to use freeview to load a volume. I am using freesurfer 7.3.2 on the new M1 mac pro with ios ventura. Please view below the error report I am getting. Is there any work around it? I have tried different volumes but same issues Translated Report (Full Report Below)

Re: [Freesurfer] FreeView cannot open any images

freesurfer@nmr.mgh.harvard.edu Subject: [Freesurfer] FreeView cannot open any images Hello, I am attempting to use FreeView (have used it successfully for a few years, but suddenly it stopped working — cannot identify any cause. Have not updated operating system or similar). The problem is th

[Freesurfer] FreeView cannot open any images

Hello, I am attempting to use FreeView (have used it successfully for a few years, but suddenly it stopped working — cannot identify any cause. Have not updated operating system or similar). The problem is that nothing is loaded or shown. I cannot load e.g., an inflated LH surface from

Re: [Freesurfer] freeview -v file stuck loading at 99% in 7.2 but not 6.0.1

ard.edu> mailto:freesurfer@nmr.mgh.harvard.edu>> Subject: [Freesurfer] freeview -v file stuck loading at 99% in 7.2 but not 6.0.1 * External Email - Caution * Hi, If I do: $ freeview -v myfile.nii.gz If I'm pointed at my 6.0.1 freesurfer, this works fine. In 7.2, the freeview window

Re: [Freesurfer] freeview -v file stuck loading at 99% in 7.2 but not 6.0.1

you might have that write to that subdir. From: freesurfer-boun...@nmr.mgh.harvard.edu on behalf of Drucker, Daniel Date: Tuesday, November 15, 2022 at 3:01 PM To: freesurfer@nmr.mgh.harvard.edu Subject: [Freesurfer] freeview -v file stuck loading at 99% in 7.2 but not 6.0.1 * External Email

[Freesurfer] freeview -v file stuck loading at 99% in 7.2 but not 6.0.1

Hi, If I do: $ freeview -v myfile.nii.gz If I'm pointed at my 6.0.1 freesurfer, this works fine. In 7.2, the freeview window pops up, the loading bar gets to 99%, then then nothing else happens. I'm not sure what to do to debug this further. -- Daniel M. Drucker, Ph.D. Director of IT

Re: [Freesurfer] Freeview on WSL in Windows 10

Hello Monica, The login page you display is not accessible to the public. We have information about how to get started with WSL on the public wiki pages, e.g., https://surfer.nmr.mgh.harvard.edu/fswiki/FS7_wslWe talk about installing WSL version 1 and WSL version 2, though it reads like

Re: [Freesurfer] Freeview: missing voxels in reconstructed surfaces

This appears to be a rendering artifact that happens sometimes with remote display. Are you viewing remotely from a Windows machine? Ruopeng On Oct 18, 2022, at 9:45 AM, Sarah Lavelle mailto:lavel...@tcd.ie>> wrote: External Email - Use Caution Dear Freesurfer, I have an issue when

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