Hi Amirhossein - If your error happens when bbregister is run, then it's not the error that the dmri_5.1_snow_leopard.tar.gz fix was meant to address. In any case that fix is not relevant to you b/c you're using 5.3 and not 5.1. Can you please send your trac-all.log to establish where exactly the error is happening?
Thanks, a.y On Thu, 25 Jul 2013, amirhossein manzouri wrote:
Hi ZeKe,
I am getting this error during Tracula procedure somewhere between
bbregister!
BR
On Jul 24, 2013 5:42 PM, "Z K" <zkauf...@nmr.mgh.harvard.edu> wrote:
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
<zkauf...@nmr.mgh.harvard.edu
<mailto:zkauf...@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
<zkauf...@nmr.mgh.harvard.edu
<mailto:zkauf...@nmr.mgh.harvard.edu>
<mailto:zkauf...@nmr.mgh.__harvard.edu
<mailto:zkauf...@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/01
9392.html
<https://mail.nmr.mgh.harvard.__edu/pipermail//freesurfer/__2011-July/01939
2.html
<https://mail.nmr.mgh.harvard.edu/pipermail//freesurfer/2011-July/019392.ht
ml>>
Thanks,
On Mon, Jul 22, 2013 at 8:15 PM,
Anastasia Yendiki
<ayend...@nmr.mgh.harvard.edu
<mailto:ayend...@nmr.mgh.harvard.edu>
<mailto:ayend...@nmr.mgh.__harvard.edu
<mailto:ayend...@nmr.mgh.harvard.edu>>
<mailto:ayend...@nmr.mgh.
<mailto:ayend...@nmr.mgh.>__har__vard.edu
<http://harvard.edu>
<mailto:ayend...@nmr.mgh.__harvard.edu
<mailto:ayend...@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.manzo...@gmail.com
<mailto:a.h.manzo...@gmail.com>
<mailto:a.h.manzo...@gmail.com
<mailto:a.h.manzo...@gmail.com>__>
<mailto:a.h.manzo...@gmail.com
<mailto:a.h.manzo...@gmail.com>
<mailto:a.h.manzo...@gmail.com
<mailto:a.h.manzo...@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
<ayend...@nmr.mgh.harvard.edu
<mailto:ayend...@nmr.mgh.harvard.edu>
<mailto:ayend...@nmr.mgh.__harvard.edu
<mailto:ayend...@nmr.mgh.harvard.edu>>
<mailto:ayend...@nmr.mgh.
<mailto:ayend...@nmr.mgh.>__har__vard.edu
<http://harvard.edu>
<mailto:ayend...@nmr.mgh.__harvard.edu
<mailto:ayend...@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
<ayend...@nmr.mgh.harvard.edu
<mailto:ayend...@nmr.mgh.harvard.edu>
<mailto:ayend...@nmr.mgh.__harvard.edu
<mailto:ayend...@nmr.mgh.harvard.edu>>
<mailto:ayend...@nmr.mgh.
<mailto:ayend...@nmr.mgh.>__har__vard.edu
<http://harvard.edu>
<mailto:ayend...@nmr.mgh.__harvard.edu
<mailto:ayend...@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
<ayend...@nmr.mgh.harvard.edu
<mailto:ayend...@nmr.mgh.harvard.edu>
<mailto:ayend...@nmr.mgh.__harvard.edu
<mailto:ayend...@nmr.mgh.harvard.edu>>
<mailto:ayend...@nmr.mgh.
<mailto:ayend...@nmr.mgh.>__har__vard.edu
<http://harvard.edu>
<mailto:ayend...@nmr.mgh.__harvard.edu
<mailto:ayend...@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
The information in
this e-mail is
intended only
for the
person to whom
it is
addressed. If you
believe this
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sent to you in
error and the
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--
Best regards,
Amirhossein Manzouri
--
Best regards,
Amirhossein
Manzouri
--
Best regards,
Amirhossein Manzouri
--
Best regards,
Amirhossein Manzouri
--
Best regards,
Amirhossein Manzouri
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--
Best regards,
Amirhossein Manzouri
--
Best regards,
Amirhossein Manzouri
_______________________________________________ Freesurfer mailing list Freesurfer@nmr.mgh.harvard.edu https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer The information in this e-mail is intended only for the person to whom it is addressed. If you believe this e-mail was sent to you in error and the e-mail contains patient information, please contact the Partners Compliance HelpLine at http://www.partners.org/complianceline . If the e-mail was sent to you in error but does not contain patient information, please contact the sender and properly dispose of the e-mail.
