Hey Tim,

 

I just uploaded the files (session 377404) for Tim Behrens. Thank you so much for your help in looking at my files.

 

Roman

 

On 9/22/07, Tim Behrens <[log in to unmask]> wrote:

Can you upload your data to the upload site:
http://www.fmrib.ox.ac.uk/cgi-bin/upload.cgi

and we will have a look on Monday.

T
On 21 Sep 2007, at 21:33, Roman Loonis wrote:

> I would like to use Bedpostx to process nifti files I have already
> pre-
> processed with home software. The nifti files can be read without a
> problem on FSL view and do not pose any problem with DTIFit. The
> DTIFit
> results can be viewed with FSLview. Using the bedpostx_datacheck, the
> provided files pass the test. When I run, bedpostx I do not get any
> error
> messages. However, the program runs in about a minute and a half
> (computer
> is a pentium 3.4 GHz processor) and does not produce the expected
> files. It
> produces .bedpostx file with three folders (diff_slices, xfms,
> logs) and
> bvals, bvecs, commands.txt, and nodif_brain_mask(.img, .hdr) files.
> The
> program also produces in my original directory, a series of
> data_slice_00*.nii.gz  as well as
> nodif_brain_mask_slice_00*.nii.gz. And
> thats all. If I attempt the Probtrackx, I get the following error:
> child
> killed:segmentation violation.
>
> I obtained the log files (and I have attached them) and there
> appears to
> be an error for each of the slices. What does it mean? What should
> I do?
>
>
>
>
>
> An exception has been thrown
> Logic error:- detected by Newmat: index error: requested indices =
> 1, 2683
>
> MatrixType = Rect   # Rows = 86; # Cols = 2682
>
>
>
> Done
>
>
> Log directory is: /root/Desktop/Veronika.bedpostX/diff_slices/
> data_slice_0000
>
>
> ** ERROR (nifti_image_read): failed to find header file for '/root/
> Desktop/Veronika/nodif'
> ** ERROR: nifti_image_open(/root/Desktop/Veronika/nodif): bad
> header info
> Error: failed to open file /root/Desktop/Veronika/nodif
> Cannot open volume /root/Desktop/Veronika/nodif for reading!
>
>