[MINC-users] minctracc error

[Anthonin Reilhac]

Thanks Andrew, I will try this.
Anthonin


On 20 February 2010 07:41, Andrew Janke <a.janke at gmail.com> wrote:

> Hi Anthonin,
>
> On Sat, Feb 20, 2010 at 09:22, Anthonin Reilhac
> <anthonin at biospective.com> wrote:
> > I am currently experiencing issues with minctracc which crashes and
> outputs
> > this error:
> > *Error in /usr/local/bic/bin/minctracc in file init_params.c, line 593
> > Cannot calculate the COG or COV of volume 1.*
>
> minctracc really doesn't do all that well with non 3D data as only a
> small out of plane registration is needed to send things haywire. You
> can fiddle with the weights parameters but it still won't help you
> that much.   My suggestions would be to make the problem "more 3D".
> The easiest way to do this is to turn each of your 2D slices into a
> thick 3D "cylinder" as such:
>
> (assuming 1mm voxels)
>
> # First fake  3D block:
> mincconcat -concat_dimension zspace slice.mnc slice.mnc slice.mnc
> slice.mnc slice.mnc slice.mnc slice.mnc slice.mnc -step 1 -start 0
> block.mnc
>
> # then add a few blank slices top and bottom and blur the edges
> volpad -distance 4 -smooth -smooth_distance 2 block.mnc padded.mnc
>
> Then run minctracc on your resulting padded volumes.  I would set the
> out of plane rotations weights to 0:
>
>   minctracc -w_rotations 0 0 0.0174533 ...
>
> Once you have recovered a transformation you can then apply this to
> the original volumes and hope all goes well. :)
>
> volpad can be found here:
>
>   http://mavis.anu.edu.au/scripts/
>
>
>
> --
> Andrew Janke
> (a.janke at gmail.com || http://a.janke.googlepages.com/)
> Canberra->Australia    +61 (402) 700 883
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