Hi Anastasia

This files do not exist in dmri.bedpostX directory. I am now running bedpostx on the directory.

Knut J

On 08/17/2012 05:35 PM, Anastasia Yendiki wrote:

Hi Knut - Does merged_ph1samples.nii.gz exist in your dmri.bedpostX directory? It's one of the bedpostx output files. If not, it means bedpostx did not finish running properly. You can try running bedpostx directly on the dmri directory, not through trac-all -bedp.

Output files of bedpostx are listed here: http://www.fmrib.ox.ac.uk/fsl/fdt/fdt_bedpostx.html

a.y

On Fri, 17 Aug 2012, Knut J Bjuland wrote:

...

The Tracula script has been modifed and adopted to a local cluster. I am now able to run trac-all -prep, but trac-all bails out when I am running trac-all -bedp. Is there any work around since I am using FSL 4.1.9 with Fressurfer 5.1 I am not able to see what went wrong when I am running trac-all -bedp., but when I ran trac-all -path I get this error niiRead(): error opening file merged_ph1samples.nii.gz. Should I adjust the patch I have used to get around this error or should I run bedpostx ro another command before running trac-all -path? Will I be able to use Tracula from Freesurfer 5.2 with recon-all data used with Freesurfer 5.1?

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