Hi Alexandru,
not sure what you mean with "unmatched" error.
If this is still a problem, can you send details?
Best, Martin
On Wed, 2019-08-07 at 08:31 -0400, Alexandru Hanganu wrote:
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> Hello Martin,
>
> I was wondering - how solved the "Unmatch
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Hi Doug and Roupeng,
did you already have the chance to look into the question how to display
the color wheel with rtview and/or freeview?
Thank you! Caspar
Am Sa., 7. Sept. 2019 um 13:13 Uhr schrieb Caspar M. Schwiedrzik <
cschwie...@mail.rockefeller.
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Dear Doug,
Thanks a lot!!!
3t flag helps very much. The data looks fine now.
All the best
Agnieszka
pon., 19 sie 2019 o 15:59 Greve, Douglas N.,Ph.D.
napisał(a):
> Hi Agnieska, sorry for the delay. It looks like the contrast is slightly
> different t
Hello,
I would like to generate a custom segmentation of the cortex. That segmentation
should be restricted to a certain labeled region (e.g. a Brodmann Area). If
possible I would also like to restrict the region to the lower half or upper
half of the cortex. Let's call these new segmentations
Hi Caspar,
In freeview, once you load a overlay onto a surface, you can click on
"Configure" button under "overlay" settings on the panel to adjust
overlay display. There is a colorwheel option in it. From command-line,
it can be activated like this:
freeview -f lh.orig:overlay=lh.thickness:
Run recon-all on the anatomical templates, then use mri_vol2surf (wiht
--projfrac 0.5) to sample the segmentations onto the surface, then use
mris_seg2annot to convert to annotation
On 9/9/19 6:10 PM, Dev vasu wrote:
>
> External Email - Use Caution
>
>
> Dear all,
>
> How can i create .
It might be that the design matrix is ill-conditioned. Did it print
anything to the terminal? Also, we are not really supporting qdec
anymore, so you can try using the command-line stream (ie, mris_preproc,
mri_surf2surf, mri_glmfit, mri_glmfit-sim)
On 9/10/19 2:36 AM, James Karantonis wrote:
>
When you run rtview, it will run tksurfer. To get to the color wheel,
open View->Configure->Overlay, then select "Color Wheel" under the
"Color Scale" tab.
On 9/10/19 4:03 AM, Caspar M. Schwiedrzik wrote:
>
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>
> Hi Doug and Roupeng,
> did you already have th
If you are going to assume a shape to the hemodynamic response, then I
don't think it makes much difference. It will make a difference if you
are going to use an FIR.
On 9/9/19 10:49 AM, Nasiriavanaki, Zahra wrote:
> Hi Freesurfer experts
>
> I have a question about designing an event related ta
Yes, I think so
On 9/6/19 12:56 PM, Barletta, Valeria wrote:
> I did a correction for multiple comparison for every analysis... The
> interaction survived.
> The interaction voxels do not overlap, apparently. So can I use doss
> and consider my results ok?
> -
Hi Doug
Thank you very much for your reply. How does it make a difference if I use FIR?
Could you please explain a little bit more?
Thanks
Mona
Zahra (Mona) Nasiriavanaki
Postdoctoral Research Fellow
Martinos Center for Biomedical Imaging
Massachusetts General Hospital
149 13th Street, 149
The FIR assumes that your stimuli will be presented on a "clock", eg, on
a TR (not necessarily ever TR, but every time a stimulus is presented,
it starts on a TR). The "tick" of the clock can be the TR or it can be
an integer divisor of the TR (eg, TR/2 TR/3). The finer you make it, the
more fl
Do you mean you want to separate the volume fractions between two
adjacent segmentations rather than just all of cortex?
On 9/10/19 10:04 AM, Pfannmoeller, Joerg Peter wrote:
> Hello,
>
> I would like to generate a custom segmentation of the cortex. That
> segmentation should be restricted to a
Hello Doug,
I have two different separations that I would like to achieve. Both are about a
finer subdivision of the cortex:
1) I would like to separate the volume fractions between two directly
neighboring cortical regions (close in 2-D surface space).
2) I would like to separate the volume fr
Thank you so much.
Zahra (Mona) Nasiriavanaki
Postdoctoral Research Fellow
Martinos Center for Biomedical Imaging
Massachusetts General Hospital
149 13th Street, 149-2615
Charlestown, MA, USA, 02129
From: freesurfer-boun...@nmr.mgh.harvard.edu
on behalf
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Thank you so much again for the detailed reply.
I attempted your suggestion, following the instructions from the wiki to a T
and compiled everything from scratch, and I still get the same PETSC error from
my first post. To be thorough, I again tested
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Hello Tristan,
Please check to see that what is listed in the makefile.wiki under the section
for Ubuntu is installed on your machine. I would also try building with
the instructions in the makefile if you have not already done so; that works on
my
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Hello Martin,
thanks a lot for your reply.
It works now, and it was probably an error in my script, though the
commands that were used are correct (as per log files), so I still don't
know what went wrong. Maybe, for the future, the 'unmatched' error
Hi Tristan,
Would it be possible for you to try building against VTK 8.2 and Qt 5.12.x?
Best,
Ruopeng
On 9/10/19 2:51 PM, TRISTAN J PAUTSCH wrote:
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Thank you for the reply.
Just to clarify, everything builds successfully and there are no
errors (that I'v
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I'd be willing to try pretty much anything at this point...what would be the
best way to go about doing this?
Also, what exactly is PETSC? The error seems obviously related to it, and
Googling the issue brings up many results that aren't even related
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In fact, I think I have narrowed the issue completely down to PETSC,
irrespective of FreeSurfer/FreeView.
In a Hail Mary attempt, I downloaded the PETSC source code and compiled it from
scratch; I was going to try and replace the very out of date Fre
This usually happens when a subject was run all the way through recon-all once,
then again but only part of the way (eg, after editing). Check those subjects
to see what happened.
On 9/10/2019 5:34 PM, Swanson,Clayton wrote:
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Hello FreeSurfer Developers,
I a
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