[Bug]: FSLeyesGUI v6.0.7.4 crash, whereas v6.0.3 works

[kel-github]

Version

2024-01-12

What platform are you seeing the problem on?

Local PC with port forwarding to a second local PC

What happened

I go Neurodesk -> functional imaging -> fsl -> fsleyesGUI 6.0.7.4. The bash window opens and then disappears or minimizes to a small black segment on the neurodesktop task bar. Clicking on the minimized segment opens the task manager.

If I go Neurodesk -> functional imaging -> fsl -> fsl-6.0.7.4 and type the command fsleyes I get the following output:

fsl-6.0.7.4:~$ fsleyes
Traceback (most recent call last):
File "/opt/fsl-6.0.7.4/bin/fsleyes", line 6, in
from fsleyes.filtermain import main
File "/opt/fsl-6.0.7.4/lib/python3.11/site-packages/fsleyes/init.py", line 381, in
from fsleyes.main import embed, shutdown # noqa
^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^
File "/opt/fsl-6.0.7.4/lib/python3.11/site-packages/fsleyes/main.py", line 46, in
import fsleyes.cliserver as cliserver
File "/opt/fsl-6.0.7.4/lib/python3.11/site-packages/fsleyes/cliserver.py", line 37, in
import fsleyes.actions.applycommandline as applycli
File "/opt/fsl-6.0.7.4/lib/python3.11/site-packages/fsleyes/actions/applycommandline.py", line 28, in
import fsleyes.parseargs as parseargs
File "/opt/fsl-6.0.7.4/lib/python3.11/site-packages/fsleyes/parseargs.py", line 273, in
import fsleyes.plugins as plugins
File "/opt/fsl-6.0.7.4/lib/python3.11/site-packages/fsleyes/plugins/init.py", line 241, in
import fsleyes.views.canvaspanel as canvaspanel
File "/opt/fsl-6.0.7.4/lib/python3.11/site-packages/fsleyes/views/canvaspanel.py", line 20, in
from . import colourbarpanel
File "/opt/fsl-6.0.7.4/lib/python3.11/site-packages/fsleyes/views/colourbarpanel.py", line 15, in
import fsleyes.gl.wxglcolourbarcanvas as cbarcanvas
File "/opt/fsl-6.0.7.4/lib/python3.11/site-packages/fsleyes/gl/wxglcolourbarcanvas.py", line 14, in
import wx.glcanvas as wxgl
File "/opt/fsl-6.0.7.4/lib/python3.11/site-packages/wx/glcanvas.py", line 10, in
from ._glcanvas import *
ImportError: /lib/x86_64-linux-gnu/libc.so.6: version `GLIBC_2.34' not found (required by /.singularity.d/libs/libGLdispatch.so.0)

If I go Neurodesk -> functional imaging -> fsl -> fsleyesGUI 6.0.3 then FSLeyes opens fine.

How to reproduce

As above.

Relevant log output or screenshot

No response

[stebo85]

Dear @kel-github,

Thank you for finding this. Are you running this by any chance on a MacBook with Apple Silicon?

Thank you
Steffen

[stebo85]

I currently cannot reproduce the bug yet. Can you reproduce it here? https://play-sydney.neurodesk.org/v2/gh/neurodesk/neurodesktop/main

[kel-github]

Hey Steffen :) I cannot reproduce it at that location :( I am running the docker image on a linux PC; x86_64 6.5.0-14-generic I have deleted the instance and the home folder, and have rerun using the command found in 1.a) here <https://www.neurodesk.org/docs/getting-started/neurodesktop/linux/> - but that did not help. Is there anything else required to completely reset my environment to be 'clean'? / is there anything else you can think of that I should try? Also, cc'ing Chris as he is helping me troubleshoot :) Best, Kel

…

On Mon, 29 Jan 2024 at 11:48, Steffen Bollmann ***@***.***> wrote: I currently cannot reproduce the bug yet. Can you reproduce it here? https://play-sydney.neurodesk.org/v2/gh/neurodesk/neurodesktop/main — Reply to this email directly, view it on GitHub <#398 (reply in thread)>, or unsubscribe <https://github.com/notifications/unsubscribe-auth/ABXC344SUVS4AYP5XRU4RDTYQ3WXTAVCNFSM6AAAAABCOSI6E2VHI2DSMVQWIX3LMV43SRDJONRXK43TNFXW4Q3PNVWWK3TUHM4DENZVGYZTK> . You are receiving this because you were mentioned.Message ID: <NeuroDesk/neurodesk.github.io/repo-discussions/398/comments/8275635@ github.com>

-- Kelly Garner, PhD, she/her Lecturer in Computational Cognitive Science School of Psychology UNSW Google Scholar <https://scholar.google.co.uk/citations?user=nmeSlZkAAAAJ&hl=en>

--I acknowledge the Traditional Owners of the land upon which I live and work. I pay my respects to Elders past, present and emerging.--

--I seek to maintain a good work-life balance. If you receive this email outside office hours then don’t feel you have to respond. Please expect the like from me.--

[stebo85]

Dear Kelly, That’s indeed very strange. Would you have time for a quick debug session Wednesday afternoon after 1pm Brisbane time? Can you send more details in the meantime about the machine this container is running on. What linux distribution is this? How did you install docker and which version is this at? Thank you Steffen From: Kelly ***@***.***> Date: Monday, 29 January 2024 at 1:04 pm To: NeuroDesk/neurodesk.github.io ***@***.***> Cc: Steffen Bollmann ***@***.***>, Comment ***@***.***> Subject: Re: [NeuroDesk/neurodesk.github.io] [Bug]: FSLeyesGUI v6.0.7.4 crash, whereas v6.0.3 works (Discussion #398) Hey Steffen :) I cannot reproduce it at that location :( I am running the docker image on a linux PC; x86_64 6.5.0-14-generic I have deleted the instance and the home folder, and have rerun using the command found in 1.a) here <https://www.neurodesk.org/docs/getting-started/neurodesktop/linux/> - but that did not help. Is there anything else required to completely reset my environment to be 'clean'? / is there anything else you can think of that I should try? Also, cc'ing Chris as he is helping me troubleshoot :) Best, Kel

…

On Mon, 29 Jan 2024 at 11:48, Steffen Bollmann ***@***.***> wrote: I currently cannot reproduce the bug yet. Can you reproduce it here? https://play-sydney.neurodesk.org/v2/gh/neurodesk/neurodesktop/main — Reply to this email directly, view it on GitHub <#398 (reply in thread)>, or unsubscribe <https://github.com/notifications/unsubscribe-auth/ABXC344SUVS4AYP5XRU4RDTYQ3WXTAVCNFSM6AAAAABCOSI6E2VHI2DSMVQWIX3LMV43SRDJONRXK43TNFXW4Q3PNVWWK3TUHM4DENZVGYZTK> . You are receiving this because you were mentioned.Message ID: <NeuroDesk/neurodesk.github.io/repo-discussions/398/comments/8275635@ github.com>

-- Kelly Garner, PhD, she/her Lecturer in Computational Cognitive Science School of Psychology UNSW Google Scholar <https://scholar.google.co.uk/citations?user=nmeSlZkAAAAJ&hl=en>

--I acknowledge the Traditional Owners of the land upon which I live and work. I pay my respects to Elders past, present and emerging.--

--I seek to maintain a good work-life balance. If you receive this email outside office hours then don’t feel you have to respond. Please expect the like from me.-- — Reply to this email directly, view it on GitHub<#398 (comment)>, or unsubscribe<https://github.com/notifications/unsubscribe-auth/AA6V2W23RE7QAXXVEOJPXULYQ4GUBAVCNFSM6AAAAABCOSI6E2VHI2DSMVQWIX3LMV43SRDJONRXK43TNFXW4Q3PNVWWK3TUHM4DENZWGM3TQ>. You are receiving this because you commented.Message ID: ***@***.***>

[kel-github]

Hi Steffen, I would love a debug session! I can't do Wednesday or Thursday though :( I can do Friday any time after midday, and pretty much any time next week. I am running the docker image on a linux PC with the following specs: kernel version: 14~22.04.1-Ubuntu SMP PREEMPT_DYNAMIC Mon Nov 20 18:15:30 UTC 2 release: 6.5.0-14-generic architecture: x86_64 I can also give you the details of the machine I am port forwarding to, if that could help? Chris installed docker following this: https://docs.docker.com/engine/install/ubuntu/ I am using version 25.0.0, build e758fe5 Let me know if I can provide any further intel :) Kel On Mon, 29 Jan 2024 at 14:51, Steffen Bollmann ***@***.***> wrote:

…

Dear Kelly, That’s indeed very strange. Would you have time for a quick debug session Wednesday afternoon after 1pm Brisbane time? Can you send more details in the meantime about the machine this container is running on. What linux distribution is this? How did you install docker and which version is this at? Thank you Steffen From: Kelly ***@***.***> Date: Monday, 29 January 2024 at 1:04 pm To: NeuroDesk/neurodesk.github.io ***@***.***> Cc: Steffen Bollmann ***@***.***>, Comment ***@***.***> Subject: Re: [NeuroDesk/neurodesk.github.io] [Bug]: FSLeyesGUI v6.0.7.4 crash, whereas v6.0.3 works (Discussion #398) Hey Steffen :) I cannot reproduce it at that location :( I am running the docker image on a linux PC; x86_64 6.5.0-14-generic I have deleted the instance and the home folder, and have rerun using the command found in 1.a) here <https://www.neurodesk.org/docs/getting-started/neurodesktop/linux/> - but that did not help. Is there anything else required to completely reset my environment to be 'clean'? / is there anything else you can think of that I should try? Also, cc'ing Chris as he is helping me troubleshoot :) Best, Kel On Mon, 29 Jan 2024 at 11:48, Steffen Bollmann ***@***.***> wrote: > I currently cannot reproduce the bug yet. Can you reproduce it here? > https://play-sydney.neurodesk.org/v2/gh/neurodesk/neurodesktop/main > > — > Reply to this email directly, view it on GitHub > < #398 (reply in thread)>, > or unsubscribe > < https://github.com/notifications/unsubscribe-auth/ABXC344SUVS4AYP5XRU4RDTYQ3WXTAVCNFSM6AAAAABCOSI6E2VHI2DSMVQWIX3LMV43SRDJONRXK43TNFXW4Q3PNVWWK3TUHM4DENZVGYZTK> > . > You are receiving this because you were mentioned.Message ID: > <NeuroDesk/neurodesk.github.io/repo-discussions/398/comments/8275635@ > github.com> > -- Kelly Garner, PhD, she/her Lecturer in Computational Cognitive Science School of Psychology UNSW Google Scholar <https://scholar.google.co.uk/citations?user=nmeSlZkAAAAJ&hl=en> --I acknowledge the Traditional Owners of the land upon which I live and work. I pay my respects to Elders past, present and emerging.-- --I seek to maintain a good work-life balance. If you receive this email outside office hours then don’t feel you have to respond. Please expect the like from me.-- — Reply to this email directly, view it on GitHub< #398 (comment)>, or unsubscribe< https://github.com/notifications/unsubscribe-auth/AA6V2W23RE7QAXXVEOJPXULYQ4GUBAVCNFSM6AAAAABCOSI6E2VHI2DSMVQWIX3LMV43SRDJONRXK43TNFXW4Q3PNVWWK3TUHM4DENZWGM3TQ>. You are receiving this because you commented.Message ID: ***@***.***> — Reply to this email directly, view it on GitHub <#398 (comment)>, or unsubscribe <https://github.com/notifications/unsubscribe-auth/ABXC344QTQDCUPO7ZHCMYJ3YQ4MDHAVCNFSM6AAAAABCOSI6E2VHI2DSMVQWIX3LMV43SRDJONRXK43TNFXW4Q3PNVWWK3TUHM4DENZWGYZTK> . You are receiving this because you were mentioned.Message ID: <NeuroDesk/neurodesk.github.io/repo-discussions/398/comments/8276635@ github.com>

-- Kelly Garner, PhD, she/her Lecturer in Computational Cognitive Science School of Psychology UNSW Google Scholar <https://scholar.google.co.uk/citations?user=nmeSlZkAAAAJ&hl=en>

--I acknowledge the Traditional Owners of the land upon which I live and work. I pay my respects to Elders past, present and emerging.--

--I seek to maintain a good work-life balance. If you receive this email outside office hours then don’t feel you have to respond. Please expect the like from me.--

[stebo85]

Ok, that's helpful. I cannot reproduce it in Ubutnu 22.04 - so I guess there must be something else going on. Friday is packed for me unfortunately, would tomorrow Tuesday 10am Brisbane time or 2.30pm work?

[kel-github]

I could do tomorrow at 3pm, if that works? If not, next week I am free as a bird :)

…

On Mon, 29 Jan 2024 at 16:57, Steffen Bollmann ***@***.***> wrote: Ok, that's helpful. I cannot reproduce it in Ubutnu 22.04 - so I guess there must be something else going on. Friday is packed for me unfortunately, would tomorrow Tuesday 10am Brisbane time or 2.30pm work? — Reply to this email directly, view it on GitHub <#398 (reply in thread)>, or unsubscribe <https://github.com/notifications/unsubscribe-auth/ABXC343WPMKVLYX6YWBYF43YQ424NAVCNFSM6AAAAABCOSI6E2VHI2DSMVQWIX3LMV43SRDJONRXK43TNFXW4Q3PNVWWK3TUHM4DENZXGI2DS> . You are receiving this because you were mentioned.Message ID: <NeuroDesk/neurodesk.github.io/repo-discussions/398/comments/8277249@ github.com>

-- Kelly Garner, PhD, she/her Lecturer in Computational Cognitive Science School of Psychology UNSW Google Scholar <https://scholar.google.co.uk/citations?user=nmeSlZkAAAAJ&hl=en>

--I acknowledge the Traditional Owners of the land upon which I live and work. I pay my respects to Elders past, present and emerging.--

--I seek to maintain a good work-life balance. If you receive this email outside office hours then don’t feel you have to respond. Please expect the like from me.--

[stebo85]

Ok, I can try to shuffle meetings around to make this work. This is 3pm Brisbane time, so 4pm Sydney time?

[kel-github]

Oh, don't shuffle! I can make your 2:30pm :) *can't encode time differences

…

On Mon, 29 Jan 2024 at 17:29, Steffen Bollmann ***@***.***> wrote: Ok, I can try to shuffle meetings around to make this work. This is 3pm Brisbane time, so 4pm Sydney time? — Reply to this email directly, view it on GitHub <#398 (reply in thread)>, or unsubscribe <https://github.com/notifications/unsubscribe-auth/ABXC34ZIRX3DOLSZWSIITO3YQ46VXAVCNFSM6AAAAABCOSI6E2VHI2DSMVQWIX3LMV43SRDJONRXK43TNFXW4Q3PNVWWK3TUHM4DENZXGQ2DS> . You are receiving this because you were mentioned.Message ID: <NeuroDesk/neurodesk.github.io/repo-discussions/398/comments/8277449@ github.com>

-- Kelly Garner, PhD, she/her Lecturer in Computational Cognitive Science School of Psychology UNSW Google Scholar <https://scholar.google.co.uk/citations?user=nmeSlZkAAAAJ&hl=en>

--I acknowledge the Traditional Owners of the land upon which I live and work. I pay my respects to Elders past, present and emerging.--

--I seek to maintain a good work-life balance. If you receive this email outside office hours then don’t feel you have to respond. Please expect the like from me.--