: Friday, July 17, 2020 1:45 PM
To: freesurfer@nmr.mgh.harvard.edu
Subject: Re: [Freesurfer] rtview - loading a tcl file
OK, try again:)
On 7/17/2020 1:42 PM, Nasr, Shahin,Ph.D. wrote:
the tksurfer look correct as below
tksurfer SUBJ lh inflated -aparc -tcl
/usr/local/freesurfer/dev/lib/tcl
rtv.tcl, everything works.
*From:* freesurfer-boun...@nmr.mgh.harvard.edu
on behalf of Douglas N. Greve
*Sent:* Friday, July 17, 2020 1:38 PM
*To:* freesurfer@nmr.mgh.harvard.edu
*Subject:* Re: [Freesurfer] rtview
: freesurfer-boun...@nmr.mgh.harvard.edu
on behalf of Douglas N. Greve
Sent: Friday, July 17, 2020 1:38 PM
To: freesurfer@nmr.mgh.harvard.edu
Subject: Re: [Freesurfer] rtview - loading a tcl file
sorry, they again
On 7/17/2020 1:27 PM, Nasr, Shahin,Ph.D. wrote:
tksurfer SUBJ lh inflated -aparc -tcl
...@nmr.mgh.harvard.edu
on behalf of Douglas N. Greve
*Sent:* Friday, July 17, 2020 1:22 PM
*To:* freesurfer@nmr.mgh.harvard.edu
*Subject:* Re: [Freesurfer] rtview - loading a tcl file
What is the tksurfer command that is output?
On 7/17/2020 1:13 PM, Nasr, Shahin,Ph.D. wrote:
Unfortunately it is
@nmr.mgh.harvard.edu
Subject: Re: [Freesurfer] rtview - loading a tcl file
What is the tksurfer command that is output?
On 7/17/2020 1:13 PM, Nasr, Shahin,Ph.D. wrote:
Unfortunately it is not working. My command is like this:
rtview --s SUBJ --real real.nii --imag imag.nii --eccen --hemi lh --fsig
*Subject:* Re: [Freesurfer] rtview - loading a tcl file
ok, try now
On 7/17/2020 12:49 PM, Nasr, Shahin,Ph.D. wrote:
Thanks. But as far as I see,when I use --tcl , it avoids
execution of other tcl files such as eccen-flat.tcl. What I had in
my mind was "adding" a tcl.
Sorry f
From: freesurfer-boun...@nmr.mgh.harvard.edu
on behalf of Douglas N. Greve
Sent: Friday, July 17, 2020 1:04 PM
To: freesurfer@nmr.mgh.harvard.edu
Subject: Re: [Freesurfer] rtview - loading a tcl file
ok, try now
On 7/17/2020 12:49 PM, Nasr, Shahin,Ph.D. wrote:
Thanks. But as far as I
e troubles
*From:* freesurfer-boun...@nmr.mgh.harvard.edu
on behalf of Douglas N. Greve
*Sent:* Friday, July 17, 2020 12:32 PM
*To:* freesurfer@nmr.mgh.harvard.edu
*Subject:* Re: [Freesurfer] rtview - loading a tcl file
I just added --tcl to rtview. The new version is in de
s N. Greve
Sent: Friday, July 17, 2020 12:32 PM
To: freesurfer@nmr.mgh.harvard.edu
Subject: Re: [Freesurfer] rtview - loading a tcl file
I just added --tcl to rtview. The new version is in dev
On 7/17/2020 12:23 PM, Nasr, Shahin,Ph.D. wrote:
Hi Surfers,
I was wondering if there is a way to load
I just added --tcl to rtview. The new version is in dev
On 7/17/2020 12:23 PM, Nasr, Shahin,Ph.D. wrote:
Hi Surfers,
I was wondering if there is a way to load a tcl file with rtview
command. Specifically, I need to change the color table to RYGB,
remove the aparc, ... .
Thanks
Hi Surfers,
I was wondering if there is a way to load a tcl file with rtview command.
Specifically, I need to change the color table to RYGB, remove the aparc, ... .
Thanks
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Hi Freesurfers
Sorry for my previous email today (see below), I found a bug in my SPM code.
Now, the fsig.nii image works fine and does the job.
However, I have some additional questions:
1. Is there a way I can change the colour specification for rtview e.g.
swapping red and green c
Sorry, try now
On 07/22/2013 12:28 PM, Nicholas Paul Denisuk wrote:
> Dear Freesurfer Users,
>
> I am running a retinotopic analysis in the 5.1.0 version of
> freesurfer. As tksurfer is not ideal for viewing the retinotopic
> data, I have been trying to find a download for rtview. I tried to go
>
Dear Freesurfer Users,
I am running a retinotopic analysis in the 5.1.0 version of
freesurfer. As tksurfer is not ideal for viewing the retinotopic
data, I have been trying to find a download for rtview. I tried to go
to the following link:
ftp://surfer.nmr.mgh.harvard.edu/transfer/outgoing/flat
a-ha! I forgot to add .gz
sorry for the silly error.
thanks.
michelle
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The information in this e-mail is intended only for the person
It really thinks that eccen/real.nii does not exist. What does
ls -l eccen/real.nii
return?
Michelle Umali wrote:
> Hi Doug,
> Here is the output
> Thanks. -Michelle
>
> BOTANICA:/usr/local/freesurfer/subjects/retinotopy/sj25/bold/rtopy.self.rh>
> rtview.sh --debug --s sj25 --lh --eccen --real ecc
Hi Doug,
Here is the output
Thanks. -Michelle
BOTANICA:/usr/local/freesurfer/subjects/retinotopy/sj25/bold/rtopy.self.rh>
rtview.sh --debug --s sj25 --lh --eccen --real eccen/real.nii --imag
eccen/imag.nii --fsig eccen/fsig.nii
set echo = 1 ;
breaksw
breaksw
end
end
while ( $#argv != 0 )
while (
Can you run it with --debug and send me the terminal output?
Michelle Umali wrote:
> Dear All,
> I am still having trouble generating polar and eccen maps with rtview.
>
> I did this:
> cd $SUBJECTS_DIR/retinotopy/sj07/bold/rtopy.self.lh
> rtview.sh --s sj07 --lh --eccen \
> --real eccen/real.n
Dear All,
I am still having trouble generating polar and eccen maps with rtview.
I did this:
cd $SUBJECTS_DIR/retinotopy/sj07/bold/rtopy.self.lh
rtview.sh --s sj07 --lh --eccen \
--real eccen/real.nii --imag eccen/imag.nii --fsig eccen/fsig.nii
The subjectname file is in $SUBJECTS_DIR/retinot
Hi Michelle
many of the FS binaries use knowledge of the standard directory tree
under SUBJECTS_DIR to do things like lookup the original coordinates of a
flattened or inflated vertex, which is why you need the --s and --lh.
cheers
Bruce
On
Thu, 13 Oct 2011, Michelle Umali wrote:
Dear Fre
Dear Freesurfers,
I know this is a very simple question. I'm just having trouble specifying
the correct directories for rtview based on the example. When I run rtview,
it can't find the image files that really do exist in the directory.
For the following example in the help section: I did what I
Can you send a picture?
Michelle Umali wrote:
> Hi Freesurfers!
> I ran rtview, and I couldn't find a color bar/legend. I'm just
> wondering how thow the colors get assigned. Is each color a position
> of wedge stimulus?
>
> I'm trying to define V1/V2/V3 boundaries and was wondering how to g
Hi Freesurfers!
I ran rtview, and I couldn't find a color bar/legend. I'm just
wondering how thow the colors get assigned. Is each color a position
of wedge stimulus?
I'm trying to define V1/V2/V3 boundaries and was wondering how to get
the horizontal and vertical meridians.
Any help wo
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