Hi
The process did not stop after 59 slices. The last slices were processed too quickly for the script that monitors status.
You can run tractography safely (although check the dyads files in fslview to see if the anatomy looks all right)
Cheers
Saad
On 17 Jul 2012, at 12:28, Lana VASUNG wrote:
> Dear Sirs,
>
> After processing the data with bedpostx
> I have diff_slices folder with 63 slices (data_slice_000X)
> and after the disappearance of diff_slices folder
> in terminal there is report on processed slices
>
> "Queuing parallel processing stage
> 0 slices processed
> ...
> ...
> ...
> 59 slices processed
> Queuing post processing stage"
> after that I get an Error
> "Errors:/usr/share/fsl/4.1/bin/bedpostx: line 316: 12188 User defined signal 1
> $(subjdir).bedpostX/monitor
>
> So my question is if the process (written in terminal) stops after 59th slice
> does that mean that the rest of the 4 slices arent processed? (60, 61, 62 and 63rd slice)
>
> The output files in bedpost.bedpostX directory
> folder logs
> folder xfms
> commands
> and the images
> dyads1.nii.gz
> dyads1_dispersion.nii.gz
> dyads2.nii.gz
> dyads2_dispersion.nii.gz
> merged_th1samples.nii.gz
> merged_th2samples.nii.gz
> That are completley gray when I open them in FslView
> all of the rest output files have voxels of brain or so with greyscale....
>
> How can I check if the BedpostX is ok and can I run the tractography with this output?
> Or the error msg is because the process isn't complete?
--
Saad Jbabdi
University of Oxford, FMRIB Centre
JR Hospital, Headington, OX3 9DU, UK
(+44)1865-222466 (fax 717)
www.fmrib.ox.ac.uk/~saad
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