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Maybe you want to check your .NET core version?
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sorry, but I get the same error after
conda create -n myenv python=3.6
conda activate myenv
(myenv) MacBook-Pro-4:~ AJ$ fspython -m pip install tensorflow==1.13.1
Collecting tensorflow==1.13.1
Using cached
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thank you so much. I just installed conda.
(base) MacBook-Pro-4:~ AJ$ conda -V
conda 4.9.2
Is myenv /Aplications/freesurfer/7.1.0
thank you.
aj
On Fri, Apr 16, 2021 at 10:22 PM Vishnu S wrote:
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>
> 1. Make sure
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1. Make sure you have conda installed
2. In your terminal, then
conda create -n myenv python=3.6
conda activate myenv
3. Then you should be able to install TF 1.13
On Sat, 17 Apr 2021, 08:46 AJ, wrote:
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>
>
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sorry for being non-tech, but how do I exactly do creating a conda venv
with Python 3.6.
many thanks
aj
On Fri, Apr 16, 2021 at 9:56 PM Vishnu S wrote:
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>
> Hi AJ,
>
> So tensorflow 1.13.0 is looking for Python
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Hi AJ,
So tensorflow 1.13.0 is looking for Python 3.6 as far as I know. Python
>=3.7 only supports TF2. Can you try creating a conda venv with Python 3.6
and try again?
On Sat, 17 Apr 2021, 08:23 AJ, wrote:
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>
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Thank you so much for your help.
Here's the error:
MacBook-Pro-4:~ AJ$ fspython -m pip install tensorflow==1.15
Collecting tensorflow==1.15
Using cached
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Douglas,
Here is the advice you previously offered.
You can measure the volume of the brainstem and add it on. Eg,
mri_segstats --ctab-default --seg aseg.mgz --id 16 --sum brainstem.dat
My question is:
Is this value in the brainstem.dat file accurate
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Hi Doug,
Ok, that's fine. Is it possible to visualize subcortical volume differences in
any way?
Thank you!
Julia
NIHR Maudsley Biomedical Research Centre PhD Student
Forensic & Neurodevelopmental Sciences
Institute of Psychiatry, Psychology &
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Hi Experts,
I am running the last step (-long) for a longitudinal analysis, However,
encountering an error message saying: "error: ERROR: number of asegs and
norm volumes do not match" for all the subjects I run this time. A similar
problem has been
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So yes running it from scratch would work. But I was trying to implement
fmriprep approach in which they have chosen the optimal approaches for
skull-stripping or intensity normalization via other applications like ANTs or
FSL and they imported
Hi Christina,
You’ll need to specify the version tag. You can try:
docker pull freesurfer/freesurfer:7.1.1
best,
Andrew
From: freesurfer-boun...@nmr.mgh.harvard.edu
on behalf of Chr. Roßmanith
Date: Friday, April 16, 2021 at 8:41 AM
To: freesurfer@nmr.mgh.harvard.edu
Subject:
Hi AJ,
Freesurfer ships its own python distribution, so it doesn’t matter what you
have installed on your system. Can you let us know the specific version of
macOS you are using and send the full error report from pip?
Thanks
Andrew
From: freesurfer-boun...@nmr.mgh.harvard.edu
on behalf of
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Hi Douglas,
Thank you for your response! I really appreciate it.
I ran the command – it works if I replace --i with --mov.
How can I use the new FLAIRraw.lta to create a new FLAIR-based pial
surface? For example, should I run recon-all -autorecon2
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Hi,
I have python both versions of python installed:
MacBook-Pro-4:~ AJ$ python3 --version
Python 3.9.4
MacBook-Pro-4:~ AJ$ python --version
Python 2.7.10
when installing fspython -m pip install tensorflow==1.13.1, I get the
error:
dyld: Symbol not
Yes, this is a known error that will be fixed in 7.2, thanks for
pointing it out
On 4/9/2021 2:51 AM, Yoonho Hwang wrote:
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Hello FreeSurfer Developers,
I'm attempting to compute cortical thickness and to analyze it between
groups.
So I perform
Are you trying to correct the table? You can't do that with
mri_gtlmfit-sim. That looks for clusters, which does not make sense when
you are using table data. There are a couple of ways you can do it. One
is with bonerfonni correction (ie, multiply the p-value by the number of
ROIs) or with
If you run it from scratch (recon-all -s subject -all), does it work? If
you are going to pick and chose which options to apply, then there is a
high risk of missing steps
On 4/14/2021 2:23 PM, Abdollahi, Shervin (NIH/NINDS) [C] wrote:
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Hi Douglas, Sure,
It looks like you have only a single 64 sec polar/eccen cycle to your
acquisition. Is that right? It is pretty slow.
On 4/16/2021 9:44 AM, Michaël Vanhoyland wrote:
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Dear Freesurfer team,
I'm new to fMRI analysis and want to analyse Retinotopy data. I
You can just run recon-all -s subject -qcache
this will only run the qcache
On 4/16/2021 1:57 AM, Vishnu S wrote:
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Hello,
I downloaded some FreeSurfer recon-all analyses from the ADNI dataset,
but these analyses have been run without the qcache flag.
Is
Hi Mudathir,
The two templates were created by using the same 40 subjects as a training data
set as is used by Freesurfer. The volumes were registered to a common space by
an iterative framework in which you create a mean, register individuals to it
and then re-create the mean. We then
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Dear Greve,
Thank you very much for your reply,
yes indeed i found the problem which was connected to the deletion of 1 slice
of the functional data in order to run the FSL "topup" b02b0.cnf flag.
I solved it by changing this step, using the
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Dear Freesurfer team,
I'm new to fMRI analysis and want to analyse Retinotopy data. I was following a
retinotopy analysis tutorial
(sites.psych.ualberta.ca/kylemathewson/retinotopy-in-freesurfercnl-protocol/#FUNC)
when I encountered a problem
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Hi,
I'd like to use FS 7 in a docker container. When pulling freesurfer I
get the following error message:
docker pull freesurfer/freesurfer
Using default tag: latest
Error response from daemon: manifest for freesurfer/freesurfer:latest
not found:
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Hi, Anastasia. Thanks a lot. Sure I will try your suggestions.
Mudathir
> On Mar 31, 2021, at 13:00, Yendiki, Anastasia
> wrote:
>
> Hi Mudathir - There are several ways to configure the projection from the
> volume to the surface, so you might
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