Hi - I'm guessing that it's something in the headers rather than the
orientation that's the problem. The initial orientations shouldn't matter
in general - I'm assuming that the two timepoints are in the same
orientation anyway?
If you want to upload the images in a compressed tarfile to
http://www.fmrib.ox.ac.uk/cgi-bin/upload.cgi
and email me the ID we'll take a look. What platform are you running on?
Cheers.
On Mon, 29 Aug 2005, Jürgen Hänggi wrote:
> Dear SIENA users
>
> I have run SIENA with native T1 images that always resulted in the following
> error message:
>
> Error: nifti_image_read<T1_2002_halfwayto_scT1_2002_brain_seg>: cant
> open header file
> Error: nifti_image_open<T1_2002_halfwayto_scT1_2002_brain_seg>:
> bad header info
> Error: failed to open file T1_2002_halfwayto_scT1_2002_brain_seg
> Error:: FslCloneHeader: Null pointer passed for FSLIO
> dc: stack empty
>
> but when images are first linearly normalised with SPM2 SIENA works well.
>
> Questions:
> Are there restrictions in SIENA concerning the orientation of the images?
> Does SIENA reads only the headers or also the associated *.m files that
> contain the
> rotation parameters from reorientation in SPM?
> It is recommended to run SIENA with linearly normalised and amount of issue
> preserved images?
> Are there other parameters in the native T1 images that are able to cause
> problems with any procedure
> implemented in SIENA?
>
> Thanks a lot in advance
> Best regards
> Juergen
>
> ----------------------------------------------
> Juergen Haenggi, Ph.D. student
> Division of Psychiatry Research
> Psychiatric University Hospital
> University of Zurich, Switzerland
> P.O. Box 1931
> Lenggstrasse 31, 8032 Zurich
> 0041 44 384 26 10 (office phone)
> 0041 76 445 86 84 (mobile phone)
> 0041 44 384 26 86 (fax)
> H 115 (office room number)
> [log in to unmask] (division email)
> http://www.dpr.unizh.ch/ (division website)
> http://www.juergenhaenggi.ch (private website)
> ----------------------------------------------
>
>
--
Stephen M. Smith DPhil
Associate Director, FMRIB and Analysis Research Coordinator
Oxford University Centre for Functional MRI of the Brain
John Radcliffe Hospital, Headington, Oxford OX3 9DU, UK
+44 (0) 1865 222726 (fax 222717)
[log in to unmask] http://www.fmrib.ox.ac.uk/~steve
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