Hi Idil
do you know what shell you are using in the terminal that you are trying
to call freeview from?
On Tue, 11 Jul 2017, Yagmur Ozdemir 19 wrote:
Hello,
I only followed the steps in the install/download page and installed tcsh
because it was not running recon-all. Are you saying that I should set up
freeview by sourcing those three files and use the *.csh extension? When
opening the terminal again after recon-all to run this I did not do any
additional set up. I also remember using .sh when following the steps on the
install page. The system does not recognize freeview even when I just use the
command alone.
Sorry my knowledge pertaining to software use is pretty elementary and there is
no one to ask.
Thank you for the help,
Idil
________________________________________
From: freesurfer-boun...@nmr.mgh.harvard.edu
[freesurfer-boun...@nmr.mgh.harvard.edu] on behalf of Bruce Fischl
[fis...@nmr.mgh.harvard.edu]
Sent: Tuesday, July 11, 2017 6:03 PM
To: Freesurfer support list
Subject: Re: [Freesurfer] freeview command error
Hi Idil
how do you setup freesurfer? If you are using bash (and it looks like you
are) you should source the *.sh file, not the *.csh. Also, note that you
should use T1.mgz not T1/mgz in your freeview command line
cheers
Bruce
On Tue, 11 Jul
2017, Yagmur Ozdemir 19 wrote:
Hello,
I am installing Freesurfer with my limited coding knowledge and this problem
with freeview came up when I was trying to view the volumes of recon-ed subject.
lab@lab-ThinkStation-E31:~/Desktop/freesurfer/subjects$ freeview -v
practice/mri/T1/mgz
No command 'freeview' found, did you mean:
Command 'treeview' from package 'treeview' (multiverse)
freeview: command not found
I checked and freeview is in the bin, and I even tried to install it according
to its file by sourcing tcl_setup and others, but then this error comes up:
lab@lab-ThinkStation-E31:~/Desktop/freesurfer/bin$ source tcl_setup
bash: tcl_setup: line 47: syntax error near unexpected token `setenv'
bash: tcl_setup: line 47: ` if ( -e $TCLLIBPATH/tcl8.3 ) setenv TCL_LIBRARY
$TCLLIBPATH/tcl8.3'
Can someone please give me any direction for how to solve this issue. I would
appreciate the help very much.
(Freesurfer version 6 & Ubuntu 16.04)
Thank you all,
Idil
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