and a linux machine and got the same result.
Sorry but I cannot replicate your error.
a.y
On Thu, 20 Feb 2014, Gerit Pfuhl wrote:
tried adopted version of
dmri_motion --dwi yourDWIs.nii.gz --mat your.ecclog --bval your.bvals
--out output.txt
as well as trac-all -qa -c dmrirc_file
that you specify anywhere, it's an output of
trac-all. Do you have read permmission to that file?
a.y
On Fri, 21 Feb 2014, Gerit Pfuhl wrote:
Hi,
thanks, no doubt that the files are okay, it must be something in how
tracula is set up I supose because this is
the report we get:
File exists
could not open bvals]
Kind regards
Gerit Pfuhl
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in trac-all -prep with 5.3 occur when dmri_motion is run or
at a different step?
On Thu, 20 Feb 2014, Gerit Pfuhl wrote:
Dear Tracula Experts,
after careful checking we still cannot run trac-all -qa or dwri-motion as
the command always returns: could not
open bvals but the same file
...@nmr.mgh.harvard.eduwrote:
Then it's no surprise that the error doesn't occur in 5.2, because 5.2
doesn't run dmri_motion at all.
When you run dmri_motion on the command line, do you use the same syntax
as the one you're showing below?
On Thu, 20 Feb 2014, Gerit Pfuhl wrote:
yes,
it happens at trac-all -qa
Dear Freesurfer experts,
we are curious whether we can run trac-all -qa in 5.3. and use it as
regressors with our results from tracula 5.2.
I.e. is it advisable or shall we run the complete analysis?
Thanks,
Gerit Pfuhl
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by any
chance setting that to something other than the default number in your
configuration file?
a.y
On Mon, 15 Jul 2013, Gerit Pfuhl wrote:
Dear all,
please find attached the trac-all.log file.
Regards
Gerit
On 15 July 2013 18:14, Anastasia Yendiki ayend...@nmr.mgh.harvard.edu
wrote
the QC on the T1 data gives no obvious clue. We edit the brainmask when
there are surface issues
However, we have not quantified this data yet - a closer look may indeed
tell us more.
Thanks
Gerit
On 16 July 2013 20:52, Pfuhl, Gerit gerit.pf...@uniklinikum-dresden.dewrote:
Dear Freesurfer experts,
for one subject (out of over 80 already processed) I get i nthe last step
an error I am unable to locate. The output from the tracula -path command
says at the end: option 0 unknown.
There are no reported problems in -prep, and -bedp. The script uses default
values (I run
are
running bedpostx outside of trac-all (i.e. trac-prep then bedpostx then
trac-path) might it be an issue that is solved with installing the 5.2.
version? Would that run in freesurfer 5.1.0?
I guess we need to change the dcmrirc files only a bit.
Kind regards
Gerit Pfuhl
On 3 April 2013 16:59
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