Dear Anastasia,
using the command you told me I solved the problem with the bvecs file, however
I get this error
dmri_train(8994) malloc: *** mmap(size=159744) failed (error code=12)
*** error: can't allocate region
*** set a breakpoint in malloc_error_break to debug
MRIalloc(218, 182, 182): cou
Thanks! Got you.
If only there can be a header/meta info/tag added into mgh -- that would be
great.
I believe it can help prevent errors and improve processing efficiency :)
Best,
Daniel
--
Yung-Jui "Daniel" Yang, PhD
Postdoctoral Researcher
Yale Child Study Center
New Haven, CT
(203) 737-5454
You can use in a loop with your subjects. It extracts the fields I want
and some others including the etiv to a table named AsegVol. You may
change the number of the fields to get what you need. The code I am
sending you addresses hippocampus, putamen and caudate (both sides).
Hi Lucia - Glad to hear the bvecs problem got solved.
About the memory problem: Can you please click on the apple on the top
left of your screen and go to "About This Mac" and give me the info on the
little window that pops up?
Thanks,
a.y
On Wed, 2 Oct 2013, Lucia Billeci wrote:
> Dear Anas
Hi Jorge
Thank you for your answer our question about CM. I worked so far and the
results are in line with glm_fit as you predicted.
If we would like to compare the groups (4th column in our qdec.table, with
(responder = 1), (non-responder = 2) coded) the CM.C would be [0 0 1 0] ?
We have unbal
Thanks. And can you also check which freesurfer build you're using? Look
for the line that says "build-stamp" towards the beginning of your
trac-all.log file.
On Wed, 2 Oct 2013, Lucia Billeci wrote:
Hi Anastasia
These are the information:
Mac OS X 10.7.5
Processor 3.4 Ghz Intel Core i7
Hi Lucia - You are using an older version of tracula (from freesurfer 5.1
instead of 5.3). This version used to have memory issues in the mac build.
There is an update of the 5.1 mac build that addresses the memory issue,
but since you are just starting out, I *highly* recommend to use the 5.3
Thanks a lot Anastasia for your help. I will install the new version and run it
on my data.
Best wishes
Lucia
Inizio messaggio inoltrato:
> Da: Anastasia Yendiki
> Oggetto: Re: [Freesurfer] Error running TRACULA
> Data: 02 ottobre 2013 17:23:42 GMT+02:00
> A: Lucia Billeci
> Cc: freesurfer@
Hmm, when I run asegstats2table EstimatedTotalIntraCranialVol is the
last column. What version are you using?
doug
On 10/02/2013 02:50 AM, Daniel Ferreira wrote:
> Dear Douglas,
>
> Thanks for your quick answer. Yes, all my subjects have the measure
> "EstimatedTotalIntraCranialVol" in their "a
Hi,
I want to test activity outside the brain (around eyes/retina) but when
I use "-no-mask" flag in my mkanalysis-sess (to be able to see activity
outside brain) as below:
mkanalysis-sess -analysis RetinaPrj_nomask -fwhm 2 -paradigm Conds.par
-mni305 1 -event-related -polyfit 2 -gammafit 2.2
Does the same thing happen if you use the 2mm instead of the 1mm?
On 10/02/2013 02:21 PM, SHAHIN NASR wrote:
> Hi,
> I want to test activity outside the brain (around eyes/retina) but
> when I use "-no-mask" flag in my mkanalysis-sess (to be able to see
> activity outside brain) as below:
>
Hello Freesurfer experts,
I am having difficulty when trying to extract LGI values from a specific label
I made. mris_anatomical seems to work when I run it with an annotation, so I am
not sure why I am having this error.
mris_anatomical_stats -l sub200/label/lh.precuneus.label -t
sub200/surf/
I still receive the same error message (1mm is now 2mm in the message).
outanadir =
/autofs/cluster/tootell/pitcairn/1/shahin/Retina_Prj/Sbj_53/abir/bold/RetinaPrj_nomask2
Error using MRIread (line 76)
ERROR: cannot determine format of
/autofs/cluster/tootell/pitcairn/1/shahin/Retina_Prj/Sbj_53/ab
Hi, FreeSurfer experts
I have a question regarding visualizing the cortical projections of a fiber
bundle using FreeSurfer based on the data from a group of subjects. Since I am
interested in seeing both the cortical projections on the surface and the
trajectory of the fiber bundle derived fro
Dear Colleagues,
The Neurobureau is excited to announce a stipend program for Brainhack
2013. The stipend program was created following a generous grant from
Siemens Healthcare to assist young investigators in attending Brainhack
2013. Without their support, the stipend program would not exist.
T
Dear FS experts,
I was trying to find the gray matter volume of superior temporal gyrus (STG)
for schizophrenia patients using freesurfer.
I ran recon-all and generated the rh/lh.aparc.volume.stats using qdec.
>From that, I got the volume for left hand lh_superiortemporal_volume,=11893.
Out of
Dear All,
Sorry for this email.
I think I made some mistakes. When I redone the analysis, the values were same.
Kindly ignore the email.
From: Anupa AV
To: Freesurfer ; Bruce Fischl
Sent: Thursday, October 3, 2013 11:06 AM
Subject: Difference in GMV generat
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