Hi Ali,
Sorry it didn’t work “out of the box.”
It was kind of a long shot.
That interpreter is for an i86 64bit system running linux.
If you are running a Mac or have a 32bit os or … it will be a problem.
If it’s the right one, it needs to be enabled for execution with the following command:
chmod –v 755 /bin/tcsh
This is system administrator stuff which I’m sure others on the list know much better than me.
I’m sure you can grab the correct version of tcsh for your OS from somewhere on the web.
Regards,
Don
Don Krieger, Ph.D.
Department of Neurological Surgery
(412)648-9654 Office
(412)521-4431 Cell/Text
From: freesurfer-bounces@nmr.mgh.harvard.edu [mailto:freesurfer-bounces@nmr.mgh.harvard.edu]
On Behalf Of Ali Radaideh
Sent: Wednesday, August 20, 2014 8:17 AM
To: Freesurfer support list
Subject: Re: [Freesurfer] tkmedit
Dear Don,
Thanks alot for the attachment. I have installed it as recommended and tried the following and I started to get the error message below
imaging@imaging-ThinkCentre-20:~$ freeview
bash: /usr/local/freesurfer/bin/freeview: /bin/tcsh: bad interpreter: Permission denied
When using sudo before the above command and entering the password i get the following message:
imaging@imaging-ThinkCentre-20:~$ sudo tkmedit -f $FREESURFER_HOME/subjects/sample-001.mgz
sudo: tkmedit: command not found
Any idea???
On Tue, Aug 19, 2014 at 4:26 PM, Krieger, Donald N. <kriegerd@upmc.edu> wrote:
Hi Ali,
You are missing the tcsh interpreter.
It should be located at /bin/tcsh typically.
It usually comes with the operating system but may not have been installed or may be in the wrong
place for freesurfer to find it.
I’ve attached a 64 bit i86 version which is from my installation of Fedora Linus.
Regards,
Don
Don Krieger, Ph.D.
Department of Neurological Surgery
University of Pittsburgh
(412)648-9654 Office
(412)521-4431 Cell/Text
From:
freesurfer-bounces@nmr.mgh.harvard.edu [mailto:freesurfer-bounces@nmr.mgh.harvard.edu]
On Behalf Of Ali Radaideh
Sent: Tuesday, August 19, 2014 8:06 AM
To: Freesurfer support list
Subject: Re: [Freesurfer] tkmedit
Thanks ZK,
I got the following message:
bash: /usr/local/freesurfer/bin/tkmedit: /bin/tcsh: bad interpreter: No such file or directory
On Tue, Aug 12, 2014 at 5:29 PM, Z K <zkaufman@nmr.mgh.harvard.edu> wrote:
Ali,
I have not encountered this issue before. Could you please provide a
screencapture or copy/paste of the terminal output when you type:
$> tkmedit -f $FREESURFER_HOME/subjects/sample-001.mgz
-Zeke
On 08/12/2014 06:48 AM, Ali Radaideh wrote:
> Dear Zeke,
>
> Thanks for your email. For some reasons your email went to the spam folder
>
> The build-stamps.txt file contents:
>
> freesurfer-Linux-centos4_x86_64-stable-pub-v5.0.0
>
> >freeview does not work
>
> Thanks,
> Ali
>
>
>
>
> On Tue, Aug 5, 2014 at 11:44 PM, Z K <zkaufman@nmr.mgh.harvard.edu
> <mailto:zkaufman@nmr.mgh.harvard.edu>> wrote:
>
> Just so its clear.. You have installed FreeSurfer on 15 Linux machines
> running Ubuntu? If so, can you please provide me with the contents of
> the build-stamps.txt file in the FREESURFER_HOME directory?
>
> Also, could you please inform me if freeview works by simply typing the
> freeview command?
>
> $> freeview
>
> -Zeke
>
>
> On 08/05/2014 04:32 PM, Ali Radaideh wrote:
> > Dear FreeSurfer experts,
> >
> > I have installed FreeSurfer on multiple machines in our image
> processing
> > lab (15 PC, Linux Ubuntu) and made sure that the setting are fine.
> > However, I have tried to test if freesurfer works or not by
> typing the
> > following:
> >
> > tkmedit bert orig.mgz
> >
> >
> > Unfortunately, I have got the following error message on all PCs
> >
> > A segfault has occurred. This is not your fault,
> > : but is most likely an unrecoverable error and has
> > : made the program unstable.
> >
> >
> > So what would be the error?
> >
> > Many thanks in advance,
> > Ali,
> >
> >
> > --
> > /Ali M. Al-Radaideh. PhD
> > Assistant Professor
> > Head of Department of Medical Imaging
> > Vice Dean of the Faculty of Allied Health Sciences
> > The Hashemite University,
> > Zarqa, Jordan
> > W.phone +962 5 3903333 ext.5422, 5355, 5364
> > Email: ali.radaideh@hu.edu.jo <mailto:ali.radaideh@hu.edu.jo>
> <mailto:ali.radaideh@hu.edu.jo <mailto:ali.radaideh@hu.edu.jo>>
> > /
> > /webpage:
http://staff.hu.edu.jo/Default.aspx?id=ABZUPDzYeqM=/
> >
> >
> >
> > _______________________________________________
> > Freesurfer mailing list
> > Freesurfer@nmr.mgh.harvard.edu
> <mailto:Freesurfer@nmr.mgh.harvard.edu>
> >
https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer
> >
> _______________________________________________
> Freesurfer mailing list
> Freesurfer@nmr.mgh.harvard.edu <mailto: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.
>
>
>
>
> --
> /Ali M. Al-Radaideh. PhD
> Assistant Professor
> Head of Department of Medical Imaging
> Vice Dean of the Faculty of Allied Health Sciences
> The Hashemite University,
> Zarqa, Jordan
> W.phone +962 5 3903333 ext.5422, 5355, 5364
> Email: ali.radaideh@hu.edu.jo <mailto:ali.radaideh@hu.edu.jo>
> /
> /webpage:
http://staff.hu.edu.jo/Default.aspx?id=ABZUPDzYeqM=/
>
>
>
> _______________________________________________
> Freesurfer mailing list
> Freesurfer@nmr.mgh.harvard.edu
>
https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer
>
_______________________________________________
Freesurfer mailing list
Freesurfer@nmr.mgh.harvard.edu
https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer
--
Ali M. Al-Radaideh. PhD
Assistant Professor
Head of Department of Medical Imaging
Vice Dean of the Faculty of Allied Health Sciences
The Hashemite University,
Zarqa, Jordan
W.phone +962 5 3903333 ext.5422, 5355, 5364
Email: ali.radaideh@hu.edu.jo
_______________________________________________
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.
--
Ali M. Al-Radaideh. PhD
Assistant Professor
Head of Department of Medical Imaging
Vice Dean of the Faculty of Allied Health Sciences
The Hashemite University,
Zarqa, Jordan
W.phone +962 5 3903333 ext.5422, 5355, 5364
Email: ali.radaideh@hu.edu.jo