Hi James,
Regarding the FSLeyes error, are you using VcxSrv? It might be worth trying
a different X server - I'd recommend trying Mobaxterm:
https://mobaxterm.mobatek.net/
Failing that, other users have reported success with Xming:
https://sourceforge.net/projects/xming/files/Xming/6.9.0.31/Xming-6-9-0-31-setup.exe/download
Regarding the home directory issue - the files have been downloaded to your
WSL/Ubuntu home directory - this is different from your Windows home
directory. The Ubuntu/WSL system is essentially a separate operating
system, similar to a virtual machine - it has an entirely separate file
system to your Windows file system.
It is possible to access WSL files from Windows - you can read about this
here:
https://www.howtogeek.com/426749/how-to-access-your-linux-wsl-files-in-windows-10/
It is also straightforward to access Windows files from WSL - your Windows
C drive is made available in the /mnt/c/ directory. For example, to change
into your Windows Downloads directory (replace "<your-username>" with your
Windows username):
cd "/mnt/c/Users/<your-username>/Downloads/"
Paul
On Tue, 30 Aug 2022 at 18:28, James Wingfield Digby <[log in to unmask]>
wrote:
> Dear Paul,
>
> Thanks a lot for response. I had previously done that but repeated and got
> FSL working. I am getting the following error with fsl eyes. The other
> issue I am having is that I have downloaded the preparatory files and
> unpacked them using commands - and they are down as being in home directory
> on Windows but not visible anywhere. Any sugestions for that? Sorry for
> questions - brand new to FSL and hoping to get a bit of practise in before
> the course.
>
> *fsleyes*
>
> ~$ fsleyes
> The program 'fsleyes' received an X Window System error.
> This probably reflects a bug in the program.
> The error was 'GLXBadContext'.
> (Details: serial 6720 error_code 154 request_code 149 minor_code 5)
> (Note to programmers: normally, X errors are reported asynchronously;
> that is, you will receive the error a while after causing it.
> To debug your program, run it with the --sync command line
> option to change this behavior. You can then get a meaningful
> backtrace from your debugger if you break on the gdk_x_error()
> function.)
>
> *windows 11 - documents in home directory but not visible *
>
> james@DESKTOP-2RQFIGB:~$ ls
> UnixIntro fmri1.tar.gz fsl_course_data rest.tar.gz
> wget-log.1 wget-log.4
> UnixIntro.tar.gz fmri2.tar.gz preCourse.tar.gz structural.tar.gz
> wget-log.2 wget-log.5
> fdt.tar.gz fmri3.tar.gz registration.tar.gz wget-log
> wget-log.3
> james@DESKTOP-2RQFIGB:~$ cd UnixIntro
> james@DESKTOP-2RQFIGB:~/UnixIntro$ ls
> design.fsf im1.nii.gz im5.nii.gz vol0000.nii.gz
> vol0004.nii.gz vol0008.nii.gz
> example_func.nii.gz im2.nii.gz settings.txt vol0001.nii.gz
> vol0005.nii.gz vol0009.nii.gz
> highres.nii.gz im3.nii.gz stim1.txt vol0002.nii.gz
> vol0006.nii.gz zstat2.nii.gz
> hr_zstat1.nii.gz im4.nii.gz visualmask.nii.gz vol0003.nii.gz
> vol0007.nii.gz
> james@DESKTOP-2RQFIGB:~/UnixIntro$ pwd
> /home/james/UnixIntro
> james@DESKTOP-2RQFIGB:~/UnixIntro$
>
> Many thanks
> James
>
>
>
>
>
>
>
>
> Many thanks
> James
>
> On Tue, Aug 30, 2022 at 10:21 AM paul mccarthy <[log in to unmask]>
> wrote:
>
>> Hi James,
>>
>> Are you using WSL? Have you installed an X server, as outlined in the FSL
>> installation instructions?
>> https://fsl.fmrib.ox.ac.uk/fsl/fslwiki/FslInstallation/Windows#Windows_Subsystem_for_Linux
>>
>> Paul
>>
>> On Sat, 27 Aug 2022 at 22:07, James WD <[log in to unmask]> wrote:
>>
>>>
>>>
>>> Trying to use FSL and getting this error message when trying to launch
>>> using fsl command. Anyone know what issue may be ? Many thanks James
>>>
>>>
>>>
>>>
>>>
>>> Application initialization failed: couldn't connect to display
>>> "localhost:0.0"
>>>
>>> Error in startup script: couldn't connect to display "localhost:0.0"
>>>
>>> while executing
>>>
>>> "load /usr/local/fsl/extras/lib/libtk8.4.so Tk"
>>>
>>> ("package ifneeded" script)
>>>
>>> invoked from within
>>>
>>> "package require Tk"
>>>
>>> invoked from within
>>>
>>> "if { [ string match -nocase *wish* $MYSHELL ] } {
>>>
>>> package require Tk
>>>
>>> # tk_focusFollowsMouse
>>>
>>> #bind Button <Enter> { focus %W ; tk::ButtonEnter ..."
>>>
>>> (file "/usr/local/fsl/tcl/fslstart.tcl" line 18)
>>>
>>> invoked from within
>>>
>>> "source [ file dirname [ info script ] ]/fslstart.tcl"
>>>
>>> (file "/usr/local/fsl/tcl/fsl.tcl" line 71)
>>>
>>> invoked from within
>>>
>>> "source ${FSLDIR}/tcl/${origname}.tcl"
>>>
>>> (file "/usr/local/fsl/bin/fsl" line 22)
>>>
>>>
>>>
>>>
>>>
>>> Sent from Mail <https://go.microsoft.com/fwlink/?LinkId=550986> for
>>> Windows
>>>
>>>
>>>
>>> *From: *James WD <[log in to unmask]>
>>> *Sent: *27 August 2022 21:54
>>> *To: *[log in to unmask]
>>> *Subject: *
>>>
>>>
>>>
>>> Sent from Mail <https://go.microsoft.com/fwlink/?LinkId=550986> for
>>> Windows
>>>
>>>
>>>
>>>
>>>
>>> ------------------------------
>>>
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>>>
>>
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>>
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