Hi Tim. I ran bedpost_datacheck and I didn't get any errors. The output is
below. I've also attached the bvecs and bvals files. Any thoughts?
Thanks!
Kristen
dim1 128
dim2 128
dim3 73
dim4 16
datatype 4
pixdim1 -1.8000152111
pixdim2 1.7999999523
pixdim3 2.0000000000
pixdim4 1.0000000000
cal_max 0.0000
cal_min 0.0000
glmax 0
glmin 0
origin1 0
origin2 0
origin3 0
file_type ANALYZE-7.5
704301DTI//nodif
dim1 128
dim2 128
dim3 73
dim4 1
datatype 4
pixdim1 -1.8000152111
pixdim2 1.7999999523
pixdim3 2.0000000000
pixdim4 1.0000000000
cal_max 0.0000
cal_min 0.0000
glmax 0
glmin 0
origin1 0
origin2 0
origin3 0
file_type ANALYZE-7.5
704301DTI//nodif_brain_mask
dim1 128
dim2 128
dim3 73
dim4 1
datatype 4
pixdim1 1.8000152111
pixdim2 1.7999999523
pixdim3 2.0000000000
pixdim4 1.0000000000
cal_max 392.0000
cal_min 0.0000
glmax 0
glmin 0
origin1 0
origin2 0
origin3 0
file_type ANALYZE-7.5
num lines in 704301DTI//bvals
1
num words in 704301DTI//bvals
16
num lines in 704301DTI//bvecs
3
num words in 704301DTI//bvecs
48
-----Original Message-----
From: FSL - FMRIB's Software Library
To: [log in to unmask]
Sent: 11/28/2005 5:27 PM
Subject: Re: [FSL] DTIFit/Bedpost DTI analysis error
Hi -
I guess this is a problem with your bvecs/bvals files. Can you run
bedpost_datacheck on your input directory as a first step to check for
errors.
bedpost_datacheck <indir>
Thanks
Tim
On Mon, 28 Nov 2005, Kristen Lindgren wrote:
> Hello. Sorry for the recent onslaught of e-mails, but I'm just
getting into
> DTI analysis and I'm very excited to finally get going. I've been
following
> the walk-throughs and tutorials on the website for FDT, but I keep
getting
> the same error when I run DTIFit (child killed: SIGABRT). Here's what
I've
> done so far just to make sure that I haven't missed something (FYI,
I'm
> using Mac OS X Version 10.4.3):
Â>
> 1) Processed 4D diffusion weighted dataset (b0 and 15 directions)
using
> "Eddy Current Correction" -> Created data.hdr and data.img file
>
> 2) Based on instructions given in an archive e-mail, I created the
nodif and
> nodif_brain_mask files
> -Make a nodif file from this using the following command:
> avwroi corrected_file_name nodif 0 1
> -Remove the skull from this image using:
> bet nodif nodif_brain
> -Check that this has worked using:
> slices nodif nodif_brain
> -Make the brain image into a binary mask using:
> avwmaths nodif_brain -bin nodif_brain_mask
>
> 3) Created bvecs and bvals files. I normalized the values in bvals
based on
> the formula in the FAQ.
>
> 4) Ran DTIFit from the fdt_gui. I tried this two ways: 1) letting FDT
> automatically select the files and 2) manually selecting the files.
Both
> yielded the same error.
>
> Any thoughts on why this is happening? Thanks!
>
> Kristen
>
--
------------------------------------------------------------------------
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Tim Behrens
Centre for Functional MRI of the Brain
The John Radcliffe Hospital
Headley Way Oxford OX3 9DU
Oxford University
Work 01865 222782
Mobile 07980 884537
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