No dia 6 de Fev de 2014 00:56, "Anastasia Yendiki" <ayendiki@nmr.mgh.harvard.edu> escreveu:

Hi Liliana - This error indicates that it could not find the /home/lapsi/test/bvals file at all, not that the file had the wrong format. Does that file exist?

Also, if you run "trac-all -prep -noqa", you're telling trac-all NOT to do the QA step that calculates the motion measures, so I'm confused about what exactly you ran. The log file from scripts/trac-all.log should show you what steps were run and what the command line was.

a.y

On Wed, 22 Jan 2014, Liliana Maia wrote:

Hi,

Within the new Tracula update and with outputs resulted from trac-all -prep -noqa I ran:

dmri_motion --out './test.txt' --dwi './dwi_orig.nii.gz' --bval './bvals' --mat './dwi.ecclog'

And an error message appears:

machine  x86_64

Output motion measure file: /home/lapsi/test/motion.txt
Input transform file: /home/lapsi/test/dwi.ecclog
Input DWI file: /home/lapsi/test/dwi_orig.nii.gz
Input b-value table: /home/lapsi/test/bvals
Low-b image intensity threshold: 100
Nominal diffusivity: 0.001
Loading volume-to-baseline affine transformations
Computing between-volume head motion measures
INFO: Processed transforms for 33 volumes
Loading DWI volume series from /home/lapsi/test/dwi_orig.nii.gz
Loading b-value table from /home/lapsi/test/bvals
ERROR: Could not open /home/lapsi/test/bvals for reading


I tried with the b-values one value for each line in file bvalsT (see attachments):
dmri_motion --out 'teste.txt' --dwi 'dwi_orig.nii.gz' --bval './bvalsT' --mat 'dwi.ecclog'
,but the same error occurred.

What can I do to verify this head motion?

Thank you
 Best,

--

Liliana Maia
MEng Biomedical Engineering

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