On 17 November 2016 at 20:23, R Edgar wrote:
> On 17 November 2016 at 18:10, June Kang wrote:
>
>> Anybody know which CUDAversion is the latest one supported by freesurfer?
>
> I'm trying to provide some support for the CUDA implementations, but I
> don't have that much time to devote to it.
>
>>
On 17 November 2016 at 18:10, June Kang wrote:
> Anybody know which CUDAversion is the latest one supported by freesurfer?
I'm trying to provide some support for the CUDA implementations, but I
don't have that much time to devote to it.
> Now I am trying to remove CUDA 8 and installing CUDA 5.5
Thanks, Doug!! I’ll give it a whirl.
> On Nov 17, 2016, at 6:40 PM, Douglas N Greve
> wrote:
>
> Use this version of mri_glmfit. It will create a file called pcc.mgh.
> This is the partial correlation coefficient
>
> https://gate.nmr.mgh.harvard.edu/safelinks/greve/mri_glmfit
>
>
>
> On 11
Use this version of mri_glmfit. It will create a file called pcc.mgh.
This is the partial correlation coefficient
https://gate.nmr.mgh.harvard.edu/safelinks/greve/mri_glmfit
On 11/17/2016 06:20 PM, Morenikeji Adebayo wrote:
> Hello Freesurfers,
>
> I'm interested in creating a group map where
Hello Freesurfers,
I'm interested in creating a group map where each vertex represents the
correlation (as a correlation coefficient) between a task-related BOLD contrast
value (ces.nii.gz) and a single covariate. This is analogous to a cortical
thickness GLM with one group and one covariate, b
Dear freesurfer developers,
Anybody know which CUDAversion is the latest one supported by freesurfer?
I just found the thread below. it's written in 2014, but experiences same
error.Successful detectcuda command, but core dump during very first step of
recon-all.
https://www.mail-archive.com/fre
Dear FS developers,
Firstly, let me thank you for FreeSurfer: I use FS almost daily, and it is
fantastic.
Now, onto the bug report:
When reading an analyze header with a modified hdr.hist.originator
field, load_analyze_hdr.m sometimes “runs out” of bytes and leaves the last
field (hdr.hist.smin)
Dear Freesurfer + CUDA users,
I am trying to run cuda-enabled recon-all procedure.My system is Ubuntu 14.04,
NVIDIA M4000, with freesurfer stable beta 20161028 + CUDA 8.0 driver.
I get the error message like below.
$ recon-all -all -s DEP030 -use-gpu
Testing for CUDA device:
nvcc: NVIDIA (R) Cu
Hi FreeSurfer Developers,
I'm running freesurfer from the HCP pipeline developed by the Washington
University in St. Louis. It ran just fine on our university's cluster, but when
I migrated the pipeline to Exacloud, Intel's HPC cluster, the recon-all command
began randomly failing. Occasionally
Thank you Bruce, it does like motion corruption but does not look that bad on
source images. I have uploaded representative subject as 1_S_5001.tar.gz.
Please let me know if you would require any other files.
Thanks,
Sneha
From: freesurfer-boun...@nmr.mgh.har
Hi Sneha
it's tough to tell what's going on and certainly those results are way
worse than what we typically find. From the little bit of data it looks
like the motion corruption is pretty bad. Is that the case?
If you upload a representative subject we will take a look
cheers
Bruce
On Thu,
So, I discovered that I could delete the files inside of the Freesurfer folder,
even though I could not delete the Freesurfer folder itself. However, when I
replaced the interior of the file with the version 6 folders, I got a bunch of
errors when I tried to run my first recon-all:
"recon-all -
you can try the labels_intersect commnad. Not sure if it has been used in
a long time, but it is what it was intended for.
cheers
Bruce
On Thu, 17 Nov 2016, Harry
R. Smolker wrote:
Hello,
I have two labels (generated from qdec analyses) that have some overlapping
vertices. I am intereste
Hello,
I have two labels (generated from qdec analyses) that have some overlapping
vertices. I am interested in creating a label that is just the overlap of the
two aforementioned labels. Is there a way to do this using Free Surfer tools?
Thanks,
Harry Smolker
_
Add --surf subjectname hemi to create a surface-based label
On 11/17/2016 11:02 AM, Sophie Wohltjen wrote:
> Hi,
>
> I'm still having this issue. I'd appreciate any insight you might have!
>
> Thanks,
> Sophie
>
> On Mon, Nov 7, 2016 at 11:32 AM Sophie Wohltjen
> mailto:sophiewohlt...@gmail.com>
> Hello everyone!
>
> I am currently using Virtual Box to run Freesurfer and I was wondering if
> my plan to put the version 6 beta on to my current virtual box was a valid
> one.
>
> My plan was to delete the Freesurfer folder off of the 5.3 virtual box and
> replace it with the Freesurfer version
Hello everyone!
I am currently using Virtual Box to run Freesurfer and I was wondering if my
plan to put the version 6 beta on to my current virtual box was a valid one.
My plan was to delete the Freesurfer folder off of the 5.3 virtual box and
replace it with the Freesurfer version 6 folder. H
Hi,
I'm still having this issue. I'd appreciate any insight you might have!
Thanks,
Sophie
On Mon, Nov 7, 2016 at 11:32 AM Sophie Wohltjen
wrote:
> Hi,
>
> I am trying to create cortical surface labels from several brain masks.
> All are .mgz files, separated by hemisphere, and aligned to fsav
On 16 November 2016 at 22:33, June Kang wrote:
> I'm attempting to run recon-all using -use-gpu option in Mac Pro 5,1 with OS
> X 10.12.1.
> I am using GTX980 rom-flashed edition, and it supports CUDA properly with
> other tools.
> Current cuda version is 8.0, and cudadetect command works perfe
Hi Anastasia!
That makes sense, thank you! So the question is how do I evaluate the
noisiness of a path?
1) Most of my isosurfaces look a lot noisier than your example on the wiki.
There's obviously no hard and fast rule here but is there any way to gauge
the noisiness of a reconstructed pat
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