Hi Anastasia,

Thank you for getting back to me.

Here are more details about my problem, I think it should help you understand more.

I run trac-all -prep -c on some DICOM files but I had the following error :

WARNING: file /Users/ismailkoubiyr/Documents/PFE/Tracula/dti/SER_5/MR.1.2.826.0.1.3680043.6.8878.22551.20150806120704.648.1017 does not contain a Siemens ASCII header

has this file been anonymized?

ERROR: cannot unpack mosiacs without ASCII header

I also tried to de-mosiac the DICOMs, it gave me the same error.

Then I converted the DICOMs into NIFTI, which allowed me not to get the previous error but something else weird happened. Now I get :

ERROR: fMRIframe: frame >= nframes

I checked the bvecs and bvals files, they seem normal, no additional space, but when the new bvecs and bvals are created, they seem messed up. I will attach you all the bvecs and bvals I used and the ones I get too.

Ideally, the DICOMs should work fine but I have no idea why I get these errors.

The bvecs and bvals are obtained from dcm2nii and then corrected to avoid any additional space.

Thank you in advance for your help.

Best,

Ismail

P.S : 3T2_bvecs.txt and 3T2_bvals.txt are the original files used.

On Jul 4, 2016, at 3:32 AM, Anastasia Yendiki <ayendiki@nmr.mgh.harvard.edu> wrote:

Hi Ismail - Are you passing the nifti volume as input to trac-all? It's
hard to tell without looking at your configuration file.

Best,
a.y

On Tue, 28 Jun 2016, Koubiyr, Ismail wrote:

Hi everyone,

I have some problems trying to run TRACULA on some DWI data. It is a mosaic Siemens DWI. I first converted the DICOM files with dcm2nii to get the bvec and bval files.
Then I run the trac-all -prep -c command and I get the following error :

WARNING: file /My/path/to/dicom does not contain a Siemens ASCII header
has this file been anonymized?
ERROR: cannot unpack mosiacs without ASCII header

I tried to unpack the mosaics with gdcmtar, but I got the same error.

Thank you in advance for your help,

Ismail
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