Hi ZeKe,
I am getting this error during Tracula procedure somewhere between bbregister!
BR
Hello Amir,
According to the log file you've attached, recon-all finished to completion without any errors. Are you sure you are encountering a memory error? If so, why?
-Zeke
On 07/24/2013 11:28 AM, amirhossein manzouri wrote:
Kindly find attached the recon-all.log
On Wed, Jul 24, 2013 at 4:50 PM, Z K <zkaufman@nmr.mgh.harvard.edu
<mailto:zkaufman@nmr.mgh.harvard.edu>> wrote:
Hello Amir,
Thanks for that... could you also please provide the recon-all.log
file? It will be located in
$SUBJECT_DIR/subject_name/__scripts/recon-all.log
-Zeke
On 07/24/2013 03:01 AM, amirhossein manzouri wrote:
Hi,
The content is :
freesurfer-Darwin-snowleopard-__i686-stable-pub-v5.3.0
Can it help?
On Mon, Jul 22, 2013 at 10:31 PM, Z K
<zkaufman@nmr.mgh.harvard.edu <mailto:zkaufman@nmr.mgh.harvard.edu>
<mailto:zkaufman@nmr.mgh.__harvard.edu
<mailto:zkaufman@nmr.mgh.harvard.edu>>> wrote:
Hello Amirhossein,
Can you please provide me with the contents of
build-stamp.txt in
the /Applications/freesurfer directory?
-Zeke
On 07/22/2013 04:23 PM, amirhossein manzouri wrote:
Hi,
Yes I am getting the memory error with version 5.3,
exactly the
one that
is reported in this link:
https://mail.nmr.mgh.harvard.____edu/pipermail//freesurfer/____2011-July/019392.html
<https://mail.nmr.mgh.harvard.__edu/pipermail//freesurfer/__2011-July/019392.html
<https://mail.nmr.mgh.harvard.edu/pipermail//freesurfer/2011-July/019392.html>>
Thanks,
On Mon, Jul 22, 2013 at 8:15 PM, Anastasia Yendiki
<ayendiki@nmr.mgh.harvard.edu
<mailto:ayendiki@nmr.mgh.harvard.edu>
<mailto:ayendiki@nmr.mgh.__harvard.edu
<mailto:ayendiki@nmr.mgh.harvard.edu>>
<mailto:ayendiki@nmr.mgh.
<mailto:ayendiki@nmr.mgh.>__har__vard.edu <http://harvard.edu>
<mailto:ayendiki@nmr.mgh.__harvard.edu
<mailto:ayendiki@nmr.mgh.harvard.edu>>>> wrote:
Hi Amirhossein - That fix applied only to the 5.1
version. I'd
recommend using the 5.3 version for tracula. Are
you getting a
memory error, and if so with which version?
Thanks,
a.y
On Mon, 22 Jul 2013, amirhossein manzouri wrote:
Dear Anastasia,
I am trying to download the
dmri_5.1_snow_leopard.tar.__gz from
FreeSurfer
website to solve memory problem but it is not
available. Would
you please
check the source to the link?
On Wed, Jul 17, 2013 at 5:51 PM, amirhossein
manzouri
<a.h.manzouri@gmail.com
<mailto:a.h.manzouri@gmail.com> <mailto:a.h.manzouri@gmail.com
<mailto:a.h.manzouri@gmail.com>__>
<mailto:a.h.manzouri@gmail.com
<mailto:a.h.manzouri@gmail.com>
<mailto:a.h.manzouri@gmail.com
<mailto:a.h.manzouri@gmail.com>__>__>> wrote:
The format of my bval file was wrong so
I edited
your
file and
tried and it worked, also bvec should be in
three columns
as you
have mentioned before.
On Wed, Jul 17, 2013 at 5:11 PM, Anastasia Yendiki
<ayendiki@nmr.mgh.harvard.edu
<mailto:ayendiki@nmr.mgh.harvard.edu>
<mailto:ayendiki@nmr.mgh.__harvard.edu
<mailto:ayendiki@nmr.mgh.harvard.edu>>
<mailto:ayendiki@nmr.mgh.
<mailto:ayendiki@nmr.mgh.>__har__vard.edu <http://harvard.edu>
<mailto:ayendiki@nmr.mgh.__harvard.edu
<mailto:ayendiki@nmr.mgh.harvard.edu>>>> wrote:
Good to hear! Can you please share with
all of
us what was
wrong with your original files? It may help
others who
have the same problem in the future.
Thanks!
On Wed, 17 Jul 2013, amirhossein
manzouri wrote:
Thanks Anastasia,
IT HELPED!
On Tue, Jul 16, 2013 at 5:25 PM,
Anastasia
Yendiki
<ayendiki@nmr.mgh.harvard.edu <mailto:ayendiki@nmr.mgh.harvard.edu>
<mailto:ayendiki@nmr.mgh.__harvard.edu
<mailto:ayendiki@nmr.mgh.harvard.edu>>
<mailto:ayendiki@nmr.mgh.
<mailto:ayendiki@nmr.mgh.>__har__vard.edu <http://harvard.edu>
<mailto:ayendiki@nmr.mgh.__harvard.edu
<mailto:ayendiki@nmr.mgh.harvard.edu>>>>
wrote:
Hi Amirhossein - I'm
attaching sample
files.
a.y
On Tue, 16 Jul 2013,
amirhossein
manzouri wrote:
Hi Anastasia,
I have tried both ,
3-row and
3-column format and still
wrong bvecc and bval
from flip4fsl. Could
you please
send me a sample of your
original files so I
can compare?
On Mon, Jul 15, 2013
at 7:44 PM,
Anastasia Yendiki
<ayendiki@nmr.mgh.harvard.edu <mailto:ayendiki@nmr.mgh.harvard.edu>
<mailto:ayendiki@nmr.mgh.__harvard.edu
<mailto:ayendiki@nmr.mgh.harvard.edu>>
<mailto:ayendiki@nmr.mgh.
<mailto:ayendiki@nmr.mgh.>__har__vard.edu <http://harvard.edu>
<mailto:ayendiki@nmr.mgh.__harvard.edu
<mailto:ayendiki@nmr.mgh.harvard.edu>>>>
wrote:
Hi Amirhossein
- Are your
original bvecs/bvals in
3-row format
instead of
3-column format?
http://surfer.nmr.mgh.harvard.______edu/fswiki/FsTutorial/____Tracula
<http://surfer.nmr.mgh.__harva__rd.edu/fswiki/FsTutorial/____Tracula
<http://harvard.edu/fswiki/FsTutorial/__Tracula>
<http://surfer.nmr.mgh.__harvard.edu/fswiki/FsTutorial/__Tracula
<http://surfer.nmr.mgh.harvard.edu/fswiki/FsTutorial/Tracula>>>
Thanks,
a.y
On Mon, 15 Jul
2013,
amirhossein manzouri wrote:
Dear Experts,
I am
running trac-all
-prep -c dmrirc on my
DWI
data.
After flip4fsl
step I get the attached
bval
and bvec
file which
the bvec one is wrong so
the
process exits
with
error in dtifit.
I have also attached
original
bvec and
bval.
--
Best regards,
Amirhossein Manzouri
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Best regards,
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Best regards,
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--
Best regards,
Amirhossein Manzouri
--
Best regards,
Amirhossein Manzouri
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--
Best regards,
Amirhossein Manzouri