Hi Kate - The screenshot looks more like a low-b image from a diffusion
scan than a field map. In case this helps, the phase map data will have
either 2 volumes (2 phase maps acquired at different echo times) or 1
volume (the difference of 2 such phase maps).
Best,
a.y
On Thu, 11 Dec 2014, Katherine Damme wrote:
Hello
Has anyone else had the problem of tracula not recognizing the format of the
phase map?
I opened the B0 in fslview and it appeared normal (see screenshot). Any
help that you can offer would be greatly appreciated! Thank you!
Thank you!
Kate Damme
On Fri, Nov 21, 2014 at 4:02 PM, Anastasia Yendiki
<ayend...@nmr.mgh.harvard.edu> wrote:
Hi Kate - The -prep, -bedp, and -path steps need to be run
separately, in that order. You can't run them all at once
unfortunately. See:
http://surfer.nmr.mgh.harvard.edu/fswiki/FsTutorial/RunningTracula
a.y
On Wed, 29 Oct 2014, Katherine Damme wrote:
Sorry for the delay. I signed up for the course and
hoped that it would answer my question, but I am
still
unsure what went wrong.
Thank you.
On Tue, Sep 9, 2014 at 12:14 PM, Anastasia Yendiki
<ayend...@nmr.mgh.harvard.edu> wrote:
Can you please attach the trac-all.log file,
which has the entire output from beginning to end?
Ofter something goes wrong earlier that causes
the program to fail later in the process.
Also, we'll need your original configuration
file. Thanks!
On Mon, 8 Sep 2014, Katherine Damme wrote:
Hello Freesurfer Community!
Thank you Anastasia and Christopher, I
am still getting ending with errors and the log
file gives no clue that I have been able
to detect, see attached.
Any help would be appreciated!
On Thu, Sep 4, 2014 at 4:29 PM,
Anastasia Yendiki <ayend...@nmr.mgh.harvard.edu>
wrote:
Hi Kate - There is an example
configuration file for tracula in your
freesurfer distribution
($FREESURFER_HOME/bin/dmrirc.example). The same
file is also here:
http://surfer.nmr.mgh.harvard.edu/fswiki/dmrirc
If you attach your configuration
file and the log file
(scripts/trac-all.log), we can try
to troubleshoot.
a.y
On Wed, 3 Sep 2014, Katherine
Damme wrote:
> Hello Freesurfer Community!
> I have sucessfully completed
diffusion preprocessing in FSL and the
> recon-all of the structural
image and would like to use tracula for the
> tract reconstruction. I keep
having trouble with my configuration file.
>
> Does anyone have a bedpostX
tracula config file they could share as an
> example?H
>
> Thank you!
>
> Kate
>
>
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