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 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

-boun...@nmr.mgh.harvard.edu On Behalf Of tsengyuheng1...@gmail.comSent: Tuesday, March 14, 2023 11:05 PMTo: freesurfer@nmr.mgh.harvard.eduSubject: [Freesurfer] Freeview error External Email - Use CautionHi, I met some errors when showing recon -all results in Freeview. I could

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 error on centos7

Would it be possible to send us the volume and the surface files so that we can try to replicate the issue? Thanks, Ruopeng On Mar 14, 2022, at 12:01 PM, Wen Wen mailto:wenw2...@gmail.com>> wrote: External Email - Use Caution Dear Freesurfer experts, I’m running Freeview on a

[Freesurfer] Freeview error on centos7

External Email - Use Caution Dear Freesurfer experts, I’m running Freeview on a centos7 computer and having the issue of loading surface data and 1mm volume data. The error message is *Segmentation fault (core dumped).* This issue remains no matter I work locally or remotely.

Re: [Freesurfer] freeview error after installation: Segmentation fault(core dumped) / free( ): invalid pointer, Aborted(core dumped)

人:fsbuild fsbu...@contbay.com发送时间:2021-11-18 03:05:29 (星期四)收件人:freesurfer@nmr.mgh.harvard.edu抄送:xux...@xii.ac.cn主题:Re: [Freesurfer] freeview error after installation: Segmentation fault(core dumped) / free( ): invalid pointer, Aborted(core dumped)External Email - Use CautionHello, Xuxiao,You need to go

Re: [Freesurfer] freeview error after installation: Segmentation fault(core dumped) / free( ): invalid pointer, Aborted(core dumped)

of freesurfer, or by the command "echo "export FS_LICENSE=$HOME/license.txt" $HOME/.bashrc". Do I need to create a license file manually?-原始邮件-发件人:fsbuild fsbu...@contbay.com发送时间:2021-11-17 10:16:00 (星期三)收件人:freesurfer@nmr.mgh.harvard.edu抄送:xux...@xii.ac.cn主题:Re: [

Re: [Freesurfer] freeview error after installation: Segmentation fault(core dumped) / free( ): invalid pointer, Aborted(core dumped)

FS_LICENSE=$HOME/license.txt" >> $HOME/.bashrc". Do I need to create a license file manually? -原始邮件- 发件人:fsbuild 发送时间:2021-11-17 10:16:00 (星期三) 收件人: freesurfer@nmr.mgh.harvard.edu 抄送: xux...@xii.ac.cn 主题: Re: [Freesurfer] freeview error after installation: Segmentation

Re: [Freesurfer] freeview error after installation: Segmentation fault(core dumped) / free( ): invalid pointer, Aborted(core dumped)

External Email - Use Caution Hello Xuxiao, In a terminal window in Ubuntu running under WSL, please try just running a simple X windows program like xeyes to test that your X-server is running on Windows, $ xeyes (see attachment for what it should look like) Keep an eye out

Re: [Freesurfer] Freeview Error

External Email - Use Caution Hello Gian, I suspect the freeview binary is not going to be able to run on Debian linux. We don’t build or test on Debian linux, but freeview/freesurfer should be fine on CentOS 6, CentOS7 and Ubuntu 18 for linux and also on Mac OS. Maybe someone

[Freesurfer] Freeview Error

External Email - Use Caution Dear Freesurfer developers, I'm trying to use freeview but I'm having a lot of problems. I'm not an expert in freesurfer neither in linux programming. I followed all the instructions from the installation page of freesurfer, unfortunately when I try to

[Freesurfer] freeview error

Hello FreeSurfer Experts, I'm attempting to install Freesurfer. I am trying to test my installation. $>recon-all -i sample-001.nii.gz -s bert -all $>recon-all -s bert finished without error at Wed Mar 11 19:09:43 EDT 2020 done However, after this I am getting an error

Re: [Freesurfer] Freeview error: GLXBadContext

External Email - Use Caution Hello Alek, When you say you are running Ubuntu 14 via a Windows 10 PC, do you mean you are running the add-on windows subsystem for linux (known as WSL) that allows you run an Ubuntu shell on Windows 10? And then when you say you are remotely

Re: [Freesurfer] Freeview error

Is your work disk full? On 9/17/19 10:22 AM, Miguel Ángel Rivas Fernández wrote: External Email - Use Caution I tried in the command window where I started freeview but nothing happened. This is the output miguel@miguel-VirtualBox:~$ ls

Re: [Freesurfer] Freeview error

External Email - Use Caution I tried in the command window where I started freeview but nothing happened. This is the output miguel@miguel-VirtualBox:~$ ls /usr/local/freesurfer/subjects/4227/mri/brainmask.mgz /usr/local/freesurfer/subjects/4227/mri/brainmask.mgz El mar., 17

Re: [Freesurfer] Freeview error

Can you run the command in the command window that you start freeview? Ruopeng > On Sep 16, 2019, at 5:11 PM, Miguel Ángel Rivas Fernández > wrote: > > External Email - Use Caution > > > Dear Ruopeng, > > I put that command in the freeview command console and this is the

Re: [Freesurfer] Freeview error

External Email - Use Caution Dear Ruopeng, I put that command in the freeview command console and this is the output [FreeView] ls /usr/local/freesurfer/subjects/4227/mri/brainmask.mgz This is not a shell. Only freeview commands are supported. Type '-h' for all the available

[Freesurfer] Freeview error

External Email - Use Caution Dear Freesurfer devs, I tried to open the brainmask.mgz file in freeview but I obtained this error: mghRead(/usr/local/freesurfer/subjects/4227/mri/brainmask.mgz, -1): could not open file MRIread failed: Unable to read from

[Freesurfer] freeview error

External Email - Use Caution Hello freesurfer team, How can ı fix the problem? Ubuntu-brain:~$ freeview Could not set locale No such file or directory This application failed to start because it could not find or load the Qt platform plugin "xcb" in "". Reinstalling the

Re: [Freesurfer] Freeview error

Hi, this should be fixed now in the OSX dev distribution. best, Andrew From: on behalf of "Md. Mamun Al-Amin" Reply-To: FS Help Date: Saturday, September 22, 2018 at 1:15 AM To: FS Help Subject: [Freesurfer] Freeview error External Email - Use Caution Dear Experts I

[Freesurfer] Freeview error

External Email - Use Caution Dear Experts I have been encountered a problem opening Freeview window in Mac Terminal. Could you please help me troubleshooting this problem? Here is the screenshot. Thanks in advance. -- Kind regards Md. Mamun Al-Amin

Re: [Freesurfer] Freeview error

The error message says it: ERROR: MRISread: file '/Users/schumman/Non-Inf_FS_5_3/0002_WIP_3DT1_SAG_SENSE_3_1.nii/surf/lh.area.pial' has many more faces than vertices! Probably trying to use a scalar data file as a surface! You were not loading a correct surface file. lh.area.pial is a scalar

Re: [Freesurfer] Freeview error

actually the attachment doesn't have an extension, so I can't even look at it. Can you just resend as text? cheers Bruce On Sat, 27 May 2017, Schumman Resonance wrote: Attached is the full command line; as per a screen output Freeview quits.I have not tested all surface files, but Freeview

Re: [Freesurfer] Freeview error

I'll take a look, but in the future can you just send this as text embedded in the email instead of screen shots. thanks Bruce On Sat, 27 May 2017, Schumman Resonance wrote: Attached is the full command line; as per a screen output Freeview quits.I have not tested all surface files, but

Re: [Freesurfer] Freeview error

Attached is the full command line; as per a screen output Freeview quits. I have not tested all surface files, but Freeview uploads fine pial, white, inflated, orig, and sphere. Thanks! On Sat, May 27, 2017 at 8:46 PM, Bruce Fischl wrote: > Can you send us the full

Re: [Freesurfer] Freeview error

Can you send us the full command line and screen output? Cheers Bruce > On May 27, 2017, at 11:45 PM, Schumman Resonance wrote: > > Hi, > > Newbie question. > > When I try to upload a surface to Freview I get the following error: > > > [0]PETSC ERROR: >

[Freesurfer] Freeview error

Hi, Newbie question. When I try to upload a surface to Freview I get the following error: [0]PETSC ERROR: [0]PETSC ERROR: User provided function() line 0 in unknown directory unknown file [unset]: aborting job:

[Freesurfer] freeview error (libpng12.so.0) on Ubuntu

Hello all! I know there are issues with freeview use on Ubuntu, but I hit a wall in fixing them. I am currently getting this error when typing "freeview" into the command prompt: "freeview.bin: error while loading shared libraries: libpng12.so.0: cannot open shared object file: No such file

Re: [Freesurfer] Freeview error: Surface does not contain valid volume geometry information

Hi Claudia you need to send us your full command line and the various other information we ask for when reporting issues (operating system, etc..) thanks Bruce On Tue, 20 Sep 2016, Claudia Dacquino wrote: Hi all, after doing GLM analysis I'm trying to run freeview to see results, but I

[Freesurfer] Freeview error: Surface does not contain valid volume geometry information

Hi all, after doing GLM analysis I'm trying to run freeview to see results, but I get this warning: Surface does not contain valid volume geometry information. It may not align with volumes and other surfaces. What's wrong? I'm using 5.1 version. Thanks to all. Claudia -- Dott.ssa Claudia

[Freesurfer] freeview error:

Hi FreeSurfer Team, I am trying to edit longitudinal data using FreeView. The original timepoints were processed and edited using FreeSurfer 5.1. The longitudinal data was also ran using FreeSurfer 5.1. I am currently trying to edit the longitudinal data using FreeView, however FreeView

[Freesurfer] Freeview error

Dear all I installed freesurfer as supposed for linux of centos 7. I have a problem with freeview error. After install was copleteted, Tying the command : "freeview" -> freeview.bin: error while loading shared libraries: libXss.so.1: cannot open shared object file: No such file or directory

Re: [Freesurfer] freeview error

What if you just load one surface: freeview -f good_output/surf/lh.pial Does it load? Best, Ruopeng On 01/06/2015 03:23 PM, Hirsch, Gabriella wrote: Hi, I am trying to view surfaces in 3D using Freeview on my own subject data via this command (replacing the subject name); freeview -f

[Freesurfer] freeview error

Hi All, I was hoping that someone might be able to help me. When I load a surface into freeview (e.g. /Applications/freesurfer/subjects/fsaverage/surf/lh.inflated), I get an error in my terminal: Did not find any volume geometry information in the surface When I go on to load in my multiple

Re: [Freesurfer] freeview error {Disarmed}

Dear doug, bruce and others, Previously I could not view freeview -f $SUBJECTS_DIR/fsaverage/surf/lh.inflated:overlay=lh.gender_age.glmdir/lh-Avg-thickness-age-Cor/mc-z.negative.sig.cluster.mgh:overlay_threshold=2,5:annot=lh.gender_age.glmdir/lh-Avg-thickness-age-Cor/mc-z.negative.sig.ocn.annot

[Freesurfer] freeview error {Disarmed}

Dear Ruopeng, Thanks for your help, Ruopeng.I learned the groupanalysis by manu ofhttp://surfer.nmr.mgh.harvard.edu/fswiki/FsTutorial/GroupAnalysis. I ran this command on your tutorial data (buckner data). Would you please tell me where my hardware setup is inappropriate? Thanks. All the best.

[Freesurfer] freeview error

Dear Ruopeng, Thanks for your help, Ruopeng.I learned the groupanalysis by manu ofhttp://surfer.nmr.mgh.harvard.edu/fswiki/FsTutorial/GroupAnalysis. I ran this command on your tutorial data (buckner data). Would you please tell me where my hardware setup is inappropriate? Thanks. All the best.

[Freesurfer] freeview error

Hi Bruce and others, Thanks Bruce. I had installed the centos6.5 x86_64 in my computer, and setup the freesurfer-Linux-centos6_x86_64-stable-pub-v5.3.0.tar.gz, and I setup the nvidia drivers completely. Then I tried to run this command: freeview -f

[Freesurfer] freeview error

Hi Bruce and others, Thanks Bruce. I had installed the centos6.5 x86_64 in my computer, and setup the freesurfer-Linux-centos6_x86_64-stable-pub-v5.3.0.tar.gz, and I setup the nvidia drivers completely. Then I tried to run this command: freeview -f

[Freesurfer] freeview error

Hi Bruce and others, Thanks Bruce. I had installed the centos6.5 x86_64 in my computer, and setup the freesurfer-Linux-centos6_x86_64-stable-pub-v5.3.0.tar.gz, and I setup the nvidia drivers completely. Then I tried to run this command: freeview -f