Then I'm sorry, I don't know what could've gone wrong there. Perhaps try asking on the FSL list?

On Thu, 18 Aug 2011, Moiyadi, Ammar wrote:

I believe I'm running the latest version of fsl for Ubuntu, 4.1.4

Ammar Moiyadi, BS Professional Research Assistant Department of Psychiatry University of Colorado Anschutz Medical Campus 303-724-5490 ________________________________________ From: Anastasia Yendiki [ayendiki@nmr.mgh.harvard.edu] Sent: Thursday, August 18, 2011 10:51 AM To: Moiyadi, Ammar Cc: freesurfer@nmr.mgh.harvard.edu Subject: Re: [Freesurfer] Trac paths error - bedpost files not found

Was this by any chance an older version of bedpost that you ran? Older versions didn't use to create mean_dsamples.nii.gz.

On Thu, 18 Aug 2011, Moiyadi, Ammar wrote:

...

Hi Freesurfers - I am encountering an error in trac-all -paths where it cannot find the mean_dsamples.nii.gz file in my dmri.bedpostX directory since it was not created during the bedpost step. Because I ran the original bedpost (not the Seychelles version) I was wondering if this output file was specific to the other version. I have a feeling bedpost is not getting through its entire process but I don't receive any error messages as feedback - once it reaches 47 slices processed it starts queing the post processing stage and then the program ends. Is it possible that the post processing stage has not completed and as a result the required files are not being created? Currently I have the following files in my bedpost output directory: dyads1.nii.gz dyads2.nii.gz mean_th1samples.nii.gz mean_th2samples.nii.gz mean_f1samples.nii.gz mean_f2samples.nii.gz mean_ph1samples.nii.gz mean_ph2samples.nii.gz merged_th1samples.nii.gz merged_th2samples.nii.gz merged_f1samples.nii.gz merged_f2samples.nii.gz merged_ph1samples.nii.gz merged_ph2samples.nii.gz nodif_brain_mask.nii.gz

It appears I am missing both the mean_dsample and dyads_dispersion files. Any ideas why these files haven't been created and when they should have been created during bedpost?

Thanks for your help,

Ammar Moiyadi _______________________________________________ Freesurfer mailing list Freesurfer@nmr.mgh.harvard.edu https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer

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