Re: [Freesurfer] Installation problem on ubuntu 12.04.

[Markus Gschwind]

Dear Zeke,

Thanks for stepping in!

$ LIBGL_DEBUG=verbose tkmedit bert orig.mgz
libGL: OpenDriver: trying /usr/lib/x86_64-linux-gnu/dri/tls/swrast_dri.so
libGL: OpenDriver: trying /usr/lib/x86_64-linux-gnu/dri/swrast_dri.so
libGL error: failed to load driver: swrast
Reading /usr/local/freesurfer/tktools/tkm_common.tcl
Reading /usr/local/freesurfer/tktools/tkm_wrappers.tcl
Reading /usr/local/freesurfer/lib/tcl/fsgdfPlot.tcl
Reading /usr/local/freesurfer/tktools/tkUtils.tcl

tkmedit seems fine though.


~$ glxgears
libGL error: failed to load driver: swrast
libGL error: Try again with LIBGL_DEBUG=verbose for more details.
21147 frames in 5.1 seconds = 4139.989 FPS
5715 frames in 5.0 seconds = 1135.272 FPS
5716 frames in 5.2 seconds = 1108.204 FPS
5715 frames in 5.1 seconds = 1110.123 FPS
5716 frames in 5.2 seconds = 1104.290 FPS
5455 frames in 5.2 seconds = 1058.021 FPS
etc.

I see three 3D gears (blue, red and green) which kind of wiggle...

I mean, is this error really a problem or could I possible live with it?

Thank you!

Makrus

2014/1/28 Z K 

> Markus,
>
> I have never seen those errors before. But a little googling suggested
> perhaps running the program as follows:
>
> ~$ LIBGL_DEBUG=verbose ./tkmedit bert orig.mgz
>
> Im a little at a lose at what else to try because we have freesurfer
> installed on pretty much stock Ubuntu platforms and it runs as expected.
> Could you also try typing "glxgears" and tell me if a 3D window popups
> up displaying turning gears, or perhaps an error message is displayed?
>
> -Zeke
>
> On 01/28/2014 03:40 AM, Markus Gschwind wrote:
> > Dear all,
> >
> > For the error
> >
> > freeview.bin: error while loading shared libraries: libjpeg.so.62:
> > cannot open shared object file: No such file or directory
> >
> >
> > sudo apt-get install libjpeg62
> >
> > did the trick. Freeview is running fine
> >
> > For the error
> > *libGL error: failed to load driver: swrast*
> > *libGL error: Try again with LIBGL_DEBUG=verbose for more details.*
> > *
> > *
> > Any ideas?
> >
> > Thank you in advance!
> > Markus
> >
> > 2014/1/27 Markus Gschwind  > >
> >
> > Dear experts!
> >
> > I installed freesurfer on a machine running Ubuntu 12.04.
> >
> > I have got some error messages when testing:
> >
> > ~$ freeview -v $SUBJECTS_DIR/bert/mri/norm.mgz -v
> > $SUBJECTS_DIR/bert/mri/aseg.mgz:colormap=lut:opacity=0.2 -f
> > $SUBJECTS_DIR/bert/surf/lh.white:edgecolor=yellow -f
> > $SUBJECTS_DIR/bert/surf/rh.white:edgecolor=yellow -f
> > $SUBJECTS_DIR/bert/surf/lh.pial:annot=aparc:edgecolor=red -f
> > $SUBJECTS_DIR/bert/surf/rh.pial:annot=aparc:edgecolor=red
> > *freeview.bin: error while loading shared libraries: libjpeg.so.62:
> > cannot open shared object file: No such file or directory*
> >
> >
> > ~$ tkmedit bert orig.mgz
> > *libGL error: failed to load driver: swrast*
> > *libGL error: Try again with LIBGL_DEBUG=verbose for more details.*
> >
> > and the same error also for tkurfer.
> >
> > Thank you for your help!
> >
> > Kind regards,
> > Markus
> >
> >
> >
> >
> > ___
> > Freesurfer mailing list
> > Freesurfer@nmr.mgh.harvard.edu
> > https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer
> >
> ___
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> https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer
>
>
> The information in this e-mail is intended only for the person to whom it
> is
> addressed. If you believe this e-mail was sent to you in error and the
> e-mail
> contains patient information, please contact the Partners Compliance
> HelpLine at
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The information in this e-mail is intended only for the person to whom it is
addressed. If you believe this e-mail was sent to you in error and the e-mail
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Re: [Freesurfer] Installation problem on ubuntu 12.04.

[Z K]

Markus,

I have never seen those errors before. But a little googling suggested 
perhaps running the program as follows:

~$ LIBGL_DEBUG=verbose ./tkmedit bert orig.mgz

Im a little at a lose at what else to try because we have freesurfer 
installed on pretty much stock Ubuntu platforms and it runs as expected.
Could you also try typing "glxgears" and tell me if a 3D window popups 
up displaying turning gears, or perhaps an error message is displayed?

-Zeke

On 01/28/2014 03:40 AM, Markus Gschwind wrote:
> Dear all,
>
> For the error
>
> freeview.bin: error while loading shared libraries: libjpeg.so.62:
> cannot open shared object file: No such file or directory
>
>
> sudo apt-get install libjpeg62
>
> did the trick. Freeview is running fine
>
> For the error
> *libGL error: failed to load driver: swrast*
> *libGL error: Try again with LIBGL_DEBUG=verbose for more details.*
> *
> *
> Any ideas?
>
> Thank you in advance!
> Markus
>
> 2014/1/27 Markus Gschwind  >
>
> Dear experts!
>
> I installed freesurfer on a machine running Ubuntu 12.04.
>
> I have got some error messages when testing:
>
> ~$ freeview -v $SUBJECTS_DIR/bert/mri/norm.mgz -v
> $SUBJECTS_DIR/bert/mri/aseg.mgz:colormap=lut:opacity=0.2 -f
> $SUBJECTS_DIR/bert/surf/lh.white:edgecolor=yellow -f
> $SUBJECTS_DIR/bert/surf/rh.white:edgecolor=yellow -f
> $SUBJECTS_DIR/bert/surf/lh.pial:annot=aparc:edgecolor=red -f
> $SUBJECTS_DIR/bert/surf/rh.pial:annot=aparc:edgecolor=red
> *freeview.bin: error while loading shared libraries: libjpeg.so.62:
> cannot open shared object file: No such file or directory*
>
>
> ~$ tkmedit bert orig.mgz
> *libGL error: failed to load driver: swrast*
> *libGL error: Try again with LIBGL_DEBUG=verbose for more details.*
>
> and the same error also for tkurfer.
>
> Thank you for your help!
>
> Kind regards,
> Markus
>
>
>
>
> ___
> Freesurfer mailing list
> Freesurfer@nmr.mgh.harvard.edu
> https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer
>
___
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Freesurfer@nmr.mgh.harvard.edu
https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer


The information in this e-mail is intended only for the person to whom it is
addressed. If you believe this e-mail was sent to you in error and the e-mail
contains patient information, please contact the Partners Compliance HelpLine at
http://www.partners.org/complianceline . If the e-mail was sent to you in error
but does not contain patient information, please contact the sender and properly
dispose of the e-mail.

Re: [Freesurfer] Installation problem on ubuntu 12.04.

[Markus Gschwind]

Dear all,

For the error

> freeview.bin: error while loading shared libraries: libjpeg.so.62: cannot
> open shared object file: No such file or directory


sudo apt-get install libjpeg62

did the trick. Freeview is running fine

For the error
*libGL error: failed to load driver: swrast*
*libGL error: Try again with LIBGL_DEBUG=verbose for more details.*

Any ideas?

Thank you in advance!
Markus

2014/1/27 Markus Gschwind 

> Dear experts!
>
> I installed freesurfer on a machine running Ubuntu 12.04.
>
> I have got some error messages when testing:
>
> ~$ freeview -v $SUBJECTS_DIR/bert/mri/norm.mgz -v
> $SUBJECTS_DIR/bert/mri/aseg.mgz:colormap=lut:opacity=0.2 -f
> $SUBJECTS_DIR/bert/surf/lh.white:edgecolor=yellow -f
> $SUBJECTS_DIR/bert/surf/rh.white:edgecolor=yellow -f
> $SUBJECTS_DIR/bert/surf/lh.pial:annot=aparc:edgecolor=red -f
> $SUBJECTS_DIR/bert/surf/rh.pial:annot=aparc:edgecolor=red
> *freeview.bin: error while loading shared libraries: libjpeg.so.62: cannot
> open shared object file: No such file or directory*
>
>
> ~$ tkmedit bert orig.mgz
> *libGL error: failed to load driver: swrast*
> *libGL error: Try again with LIBGL_DEBUG=verbose for more details.*
>
> and the same error also for tkurfer.
>
> Thank you for your help!
>
> Kind regards,
> Markus
>
>
___
Freesurfer mailing list
Freesurfer@nmr.mgh.harvard.edu
https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer


The information in this e-mail is intended only for the person to whom it is
addressed. If you believe this e-mail was sent to you in error and the e-mail
contains patient information, please contact the Partners Compliance HelpLine at
http://www.partners.org/complianceline . If the e-mail was sent to you in error
but does not contain patient information, please contact the sender and properly
dispose of the e-mail.