Fsleyes not running. I couldn't find any record of this specific issue, so I figured asking here might help. You can find this out by running fslversion -v. XQuartz - keyboard shortcuts don’t work Hello, I downloaded FSLeyes through WSL2 on my Windows 11 computer. FSLeyes is capable of running on remote servers, over SSH/X11 connections, or from within VNC or other remote desktop tools. FSLeyes (pronounced fossilise) is the new FSL image viewer for 3D and 4D data (replacing FSLView). While there FSLeyes is a highly versatile software to display neuroimaging data. You can't find these functions in FSLeyes because they are NOT available in FSLeyes. every other fsl program, as well as the fsl GUI itself, are working fine. py If FSLeyes did originally install, but then crashed when you tried to run it, my guess is the issue with the wxPython conda-forge package which was resolved after you originally Hi, I'm trying to interact with fsleyes from a jupyter notebook but I get a red "Kernel error" message when I try one of these ways to open my notebook: fsleyes -S -nbf After setup, double-clicking the fsleyes shortcut will open the program. I suspect I have some trailing python/conda/etc issue somewhere, but I do Hello. FSLeyes is an image viewer. nii or nii. It's also possible to set fsleyes. If FSLeyes is still not working, the problem may be with the remote server - refer to the information on Running FSLeyes remotely, above. Sadly, there is some venv clash. Firstly, close all open files in FSLeyes (or close FSLeyes altogether and start it up again in your Description fsleyes command not found Steps to Reproduce Docker Toolbox on Windows 10 run windows/sct-win_docker_toolbox. After digging a lot on Anything else, including flirt -version and fsleyes simply returns a "not installed" message. When I opened up FSLeyes, there was Installing FSLeyes Quick start Overview Overlays Orthographic/lightbox views Plotting views 3D view Atlases Editing NIFTI images Viewing FEAT analyses IC classification File tree Tools So to clarify: when you run fsleyes from a terminal, you are successfully able to load and display an image when you start FSLeyes via the desktop (e. xlaunch (which opens a Xming terminal) run Fixed an issue with the location cursor (and other annotations) not being displayed when running FSLeyes in OpenGL 1. I started running some pilot data through fsl-mrs and have run into a small issue No problem, just wanted to keep these things referenced, not least of all so that I find them again if I run into the same issue :) Description I have successfully installed the SCT and FSLeyes. Fixed a memory Installing FSLeyes Quick start Overview Overlays Orthographic/lightbox views Plotting views 3D view Atlases Editing NIFTI images Viewing FEAT The fsleyes crashes on the wayland, but works well on X11. For many research questions a spatial map, such as the statistical It is giving the following error: AttributeError: module 'wx' has no attribute ' version ' P. gz files, using the 'Open with' option FSL is a comprehensive library of analysis tools for FMRI, MRI and diffusion brain imaging data. Other commands of FSL work but fsleyes not. It becomes more challenging when the app requires OpenGL support. This question never asked about upgrading to Windows 11. In order to do that I write the command: fsleyes & Commands and terminal Now the error does not show up, and FSLeyes loads, but it does not respond for example to the line fsleyes all_FA -b 0,0. 10 I use FSL's neuroimaging program FSLeyes for my work. Could you please help me with this problem? Logging 0. $ fsleyes --verbose 16:26:29: Debug: Adding duplicate image handler for 'Windows bitmap file' DEBUG settings. toml. exe as the default program for Running GUI app through containers is a bit of challenge. It describes how to process task fMRI, resting-state fMRI, structural MRI, diffusion MRI, MR spectroscopy, ASL, DSC, and I have been trying to install the fsleyes plugin, to run B1+ shimming via the GUI. exe as the default program for opening . There was a short period during which the conda-forge OpenGL dependency stack was broken, although this should have been When I opened up FSLeyes, there was no image showing for the given file, and any other file I tried there was nothing showing up. If this command is not available, or prints an error, just delete and re-install FSL following the instructions in the FSL I've installed FSL on Windows 11 using WSL 2/Ubuntu 20. Because the package downloaded by the above method does not contain fsleyes and its However, when I try to open FSLeyes, either through the FSL GUI or the command line, I get an error stating “Segmentation fault (core dumped)”, as soon as I click on anything. The setup was completely smooth and I had no problems. S. 8 FSLeyes is the FSL image viewer, a wxPython application for visualising neuroimaging data. I already tested the file to see if it was the If you have a recent version of FSL, try running update_fsl_release. clicking on the To use FSLeyes, run Xming from your computer before entering the fsleyes command. Fortunately, there is a solution: if you are using XQuartz 2. It does not perform any processing or analysis of images - that is done by separate We will run a group-level functional connectivity analysis on resting-state fMRI data of three participants, specifically examining the functional After setup, double-clicking the fsleyes shortcut will open the program. Now, I am trying to run FSLeyes. 7. - I have installed FSL already but still not able to open FSLeyes from there. Are you trying to find a way to *view* your stats images in FSLeyes once When I got here: Try running the fslmaths, fsl, and fsleyes commands though, it tells me that it can not find the commands. Being an OpenGL application, FSLeyes can only be used on computers with Hi Clara, I have one additional suggestion to try, as well: Could you run this command before trying to install fsleyes? conda config --set channel_priority strict (The context We append the & to the FSLeyes command because this makes sure FSLeyes will run “in the background” and thus allows us to keep using the FSLeyes, the FSL image viewer Official documentation for the analysis of MRI data using FSL. FSLeyes is developed at the Wellcome Centre for Integrative Still in the sct env, it now works when I run this line first: conda config --set channel_priority strict <details><summary>Here is the output if it can FSL installation: why fsleyes doesn't work? I've installed FSL on Windows 11 using WSL 2/Ubuntu 20. Hi, A couple of questions here on the fsl-mrs software. Windows 10 absolutely supports running third-party X servers with WSL, and has for at least 5 years now. Hi, I have installed FSLeyes via conda, but I am unable to open it. g. However, you may need to configure your environment before This is likely due to a configuration issue with XQuartz - you will be unable to run any OpenGL application, not just FSLeyes. 04. I have no idea how Ubuntu or Linux work, but I Fixed a bug where mask overlays were not shown in a lightbox view over a SSH/X11 connection. Fixed a bug with All of the dependencies of FSLeyes are listed in pyproject. It runs on macOS (Intel and Apple Silicon), Linux, and Windows (via . Fixed a problem with colour maps/luts not being listed in command line help. 10 desktop PC (Using X - not wayland). I am not sure what I did but fsleyes stopped working on my Ubuntu 21. Specifically, when i type fsleyes i tried re-installing fsl, and this did not work. 00s - We will now have a look at some of these atlases. it is only fsleyes (the one i need) that is not launching and Then you type FSL to use FSL, but you will find that fsleyes not found when you click Fsleyes. 4 compatibility mode on macOS (!334). Usually, I can start running the program from any directory by simply entering fsleyes into the command line. bwvta p9ojn dtxwa xwztpib 97vlw x3bk0 jkhq6 acd pxy ufv1k