Hi Richard - In the listing you sent below I do see the a nodif_brain_mask.nii.gz and a control.dat, although I have no idea what control.dat is. As for data.nii.gz, it should be created as a symbolic link to dwi.nii.gz, since bedpostx indeed expects it to be called "data". I have not seen this problem before, but does it occur only when you rerun and overwrite things in the same directory, or also when you start a fresh run on a previously non-existent directory?
a.y On Thu, 16 Aug 2012, Richard Binney wrote:
Hi Anastasia et al., I previously had TRACULA running wonderfully on a test dataset. I was tasked with writing an in-house step-by-step manual for dummies. Since then, a colleague has followed my manual with a new dataset and had problems. After trying to determine whether it was her install or something about her data and failing to find anything, I returned to re-run the subject I had already successfully processed. Nothing has changed in my install (TRAC-all version etc) ODDLY, this re-run is suffering from the same problem as my colleague. We ran trac-all -prep -dmrirc and it exited without any errors. However, there seem to be some files missing from the output: control.dat data.nii.gz nodif_brain_mask.nii.gz Bedpostx will not run due to the data file being missing and I'm sure the other missing files will cause problems. What is going on? I knew to look for these files as at some point I found the following list for the \dmri\. I can not re-find a post with this list so I'm sorry if it related to a solution to our current problem. Please help Richard brain_anat_mni.nii.gz dtifit_L2.nii.gz dwi_orig_flip.nii.gz brain_anat.nii.gz dtifit_L3.nii.gz dwi_orig.mghdti.bvals brain_anat_orig.nii.gz dtifit_MD.nii.gz dwi_orig.mghdti.bvecs bvals dtifit_MO.nii.gz dwi_orig.nii.gz bvecs dtifit_S0.nii.gz dwi_snr.txt bvecs.norot dtifit_V1.nii.gz lowb_brain.nii.gz control.dat dtifit_V2.nii.gz lowb.nii.gz data.nii.gz dtifit_V3.nii.gz mni dtifit_FA.nii.gz dwi.ecclog nodif_brain_mask.nii.gz dtifit_L1.nii.gz dwi.nii.gz xfms
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