Hi - you should definitely NOT be running normalisation before running eddy_correct. Any
registration processes to other spaces should happen later on.
Cheers.
On Thu, 18 Jan 2007 12:12:06 -0000, Shan Shen <[log in to unmask]> wrote:
>Thanks, Steve.
>
>My input filename contains no space. However, the data have been
>preprocessed, including registration, normalization using SPM. I am
>wondering whether this could be a reason.
>
>
>
>
>
>Dr Shan Shen
>
>-----Original Message-----
>From: FSL - FMRIB's Software Library [mailto:[log in to unmask]] On
>Behalf Of Stephen Smith
>Sent: 18 January 2007 11:30
>To: [log in to unmask]
>Subject: Re: [FSL] Error message in Eddy current correction
>
>Hi, it's not clear what this error is referring to. You should view all
>timepoints of the data being fed
>into eddy_correct, and also the data output by it, to see if it's clear
>whether there is a problem
>here. The output should have all timepoint volumes nicely aligned to
>each other. Was the input
>filename itself maybe illegal, for example containing a space?
>
>Cheers, Steve.
>
>
>
>On Wed, 17 Jan 2007 15:13:57 -0000, Shan Shen <[log in to unmask]>
>wrote:
>
>>Hi, everybody,
>>
>>I've just started to use FSL to analyze my DTI data. The first step,
>>eddy current correction gave error messages as follows:
>>
>>Errors: processing vol0000.nii.gz
>> processing vol0001.nii.gz
>> ....
>> processing vol00012.nii.gz
>>
>>My data has 12 directions and one B0 image. Despite the errors, it does
>>generate a data.nii.gz file as named before the start. I would like to
>>know what the errors mean and whether the data.nii.gz file is the
>>corrected data and still can be used in the next step?
>>
>>Many thanks
>>
>>Dr Shan Shen
>>
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