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!
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