Hi Salil - The problem is that you've set dob0 = 1 but you haven't
set b0mlist and b0plist, so it doesn't know where to find your field maps
to do the B0 unwarping.
a.y
On Wed, 6 Mar 2013, Salil Soman wrote:
Thank you.
Please see attached.
-S
On Wed, Mar 6, 2013 at 12:40 PM, Anastasia Yendiki
<ayend...@nmr.mgh.harvard.edu> wrote:
Hi Salil - Can you send your trac-all.log and dmrirc files? Thanks!
a.y
On Wed, 6 Mar 2013, Salil Soman wrote:
Dear Experts,
I am setup fs 5.2 and have successfully run freesurfer processing
on a SPGR dataset. However, when I attempt to
run Tracula on that
dataset, I keep getting a corRead(): can't open file
/path/to/ducks/COR-.info (where to path to ducks is the
patch to where my subjects
are located), with additional subsequent errors about b0mag.nii.gz
not existing.
My data is comprised of two consecutive 30 drxn plus 5 b0 GE
product acquisitions, combined into 1 dataset using
mri_concat. The data is
then sliced int 2.5mm isotropic data using mri_convert. . The bvec
file is create by transposing and then
concatenating 2 bvec files
outputed by dcm2nii using a perl script (the bval file is made in a
similar way using the bval files outputted
by dcm2nii). As I am
trying to run this on a cluster, it is easier for me to deal in
nifti's instead of dicoms, and so I am providing
the anonymized
isotropic nii file (as created by dcm2nii) as the input along with
the bvec and bval files.
I have tried checking the bval and bvec files for extra
spaces/lines (using vi), and have not found any (as I
had seen mentioned in
other posts). Any suggestions on what I may be doing incorrectly
would be greatly appreciated.
Best wishes,
Salil Soman
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