[Brains-users] Resample T2

[Eugene Zeien]

Check the contents of the file.  It should resemble this:
% cat T2_ACPC.init
-2.880555e-01
-8.518873e-03
-0.000000e+00
-1.129321e+01
2.057953e+01
3.854184e+00

Around here, the T2 ACPC alignment transform is generally
saved using the BRAINS2 filter as T2_ACPC.xfrm.  I believe
that `b2alignlinear` will know how to use that format.

A more common use for the 'init' format is aligning PET images,
where a standard set of rotations and translations are used to
get the image close to the MR.

Hope this helps,
gene

Simone Brockman wrote:
> Hello,
> When saving the T2 resample file, I am unable to locate the initAir filter from the filter list. There is an AIR filter which I used instead, but received the following error when running the fit for T1 and T2.
> 
> "/scratch/hjohnson/src/brains2/src/iplProg/progs-AIR5/b2alignlinear/do_b2alignlinear.cpp: 692: The initializa tion file /data/mri/pd21/10_ACPC/T2_ACPC.init provided more than the expected 6 parameters
> The initialization file contained invalid data. (AIR_READ_INIT_FILE_ERROR)"
> 
> We are currently running the stable release version of 20060313 for Redhat.
> 
> Many thanks for your assisstance
> 
> 
> Simone Brockman
> NeuroPsychiatry Unit
> Fremantle Hospital 
> Perth, Western Australia
> 
> 
> 
> 
> 
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