Also check the file type fsl is set to output.
Cheers-
Andreas
PS: See the website.
________________________________
Von: FSL - FMRIB's Software Library im Auftrag von Matt
Gesendet: Di 12.06.2007 18:36
An: [log in to unmask]
Betreff: Re: [FSL] Multiple files
How are you running MRIConvert? I suggest you run it with a commandline
like this (for the windows version):
mcverter /o .\ /f fsl /x /d /n FolderWithDICOMs/ and it should only give you
one filetype (nii) that works properly with FSL.
You should run something like:
avwroi data nodif 0 1
bet nodif nodif_brain -m -f .2
to get the brain only mask.
Peace,
Matt.
-----Original Message-----
From: FSL - FMRIB's Software Library [mailto:[log in to unmask]] On Behalf
Of Agnieszka Burzynska
Sent: Tuesday, June 12, 2007 12:11 PM
To: [log in to unmask]
Subject: Re: [FSL] Multiple files
Thanks!
Do you mean to have either .nii only or .hdr+.img? If so, now I get (with
nii only): This program has not been compiled for this data type. also: bad
header info.
Perhaps i select something wrong: while selecting input file, I go to
subjects´s folder and select .nii file of the DW sequence. Is it ok?
Thanks,
Aga
On 12.06.2007 17:23 Uhr, "Matt" <[log in to unmask]> wrote:
> Hi,
>
> Delete either the .nii or the .hdr & .img as these are the multiple files
> (you only need one of the two).
>
> Peace,
>
> Matt.
>
> -----Original Message-----
> From: FSL - FMRIB's Software Library [mailto:[log in to unmask]] On Behalf
> Of Aga Burzynska
> Sent: Tuesday, June 12, 2007 11:11 AM
> To: [log in to unmask]
> Subject: [FSL] Multiple files
>
> Dear all,
> Please forgive me such basic question, but I am just starting my work with
> FSL and FDT.
>
> After MRIconvert (dicoms to FSL nifti 4D) of my DW raw data, I got .nii,
> .img .hdr, bvecs and bvals, as expected. However, whatever I try to do
with
> FSL, I get the warning: Multiple image files detected. Is there anything
> wrong with my DISH organization?
>
> I guess to get nodif_brain_mask I need to run BET...but this also
complains.
>
> If you have any sources that would help me to solve such simple problems
> without asking you, I will be very grateful.
>
> I will be grateful for any advice,
>
> Aga (PhD candidate)
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