Re: [Freesurfer] Freeview error with QT

External Email - Use Caution  If you installed freesurfer using the .deb or .rpm installers on linux, or the .pkg file on the Mac - then you should have a working Qt setup, e..g., to run freeview.   In particular on linux, if you didn’t use the .rpm or.deb freesurfer package ins

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 abov

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

External Email - Use CautionHi 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, Y. Z.  From: freesurfer-boun...@nmr.mgh.harvard.edu on behalf of Huang, Yujing Date: Wednesday, March

Re: [Freesurfer] Freeview error

Hi, 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-boun...@nmr.mgh.harvard.edu On Behalf Of tsengyuheng1...@gmail.com Sent: Tuesda

Re: [Freesurfer] Freeview error

Hi, This error suggests that your cluster instance is not able to find the swrast drivers: libGL error: unable to load driver: swrast_dri.so libGL error: failed to load driver: swrast swrast is a software renderer. It is provided by libgl1-mesa-dri library. If the library is not installed, you c

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 centos7

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

details in the attachment. What should I do to fix it?Best Xiao-原始邮件-----发件人: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) /

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

 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, In a terminal window in Ubuntu running under WSL, pleas

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 f

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 co

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 vie

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 /usr/local/freesurfer/subjects/4227/mri/brai

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 se

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 ou

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 com

Re: [Freesurfer] Freeview error

If you run: ls /usr/local/freesurfer/subjects/4227/mri/brainmask.mgz What does it show? Ruopeng On 9/16/19 4:29 PM, Miguel Ángel Rivas Fernández wrote: External Email - Use Caution Dear Freesurfer devs, I tried to open the brainmask.mgz file in freeview but I obtained this error:

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 have been enco

Re: [Freesurfer] Freeview error

Thanks that makes sense! here is the text file and embedded just in case there is anything else to it Thanks! "Last login: Sat May 27 20:26:15 on ttys000 freesurfer-Darwin-lion-stable-pub-v5.3.0 Setting up environment for FreeSurfer/FS-FAST (and FSL) FREESURFER_HOME /Applicatio

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 da

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 u

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 Fr

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 command line and screen output

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: >

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 get

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 go

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