[elastix] Elastix Ubuntu New User

Robinson, Jamie j.robinson.10 at aberdeen.ac.uk
Wed Aug 10 10:20:30 CEST 2011

Hi Stefan,

Both image are 256x1024 with voxel size 2.4x2.4x1 mm. Each file is an image stack with 2 slices -  an anterior and posterior view.


From: elastix-bounces at bigr.nl [elastix-bounces at bigr.nl] on behalf of Stefan Klein [s.klein at erasmusmc.nl]
Sent: Tuesday, August 09, 2011 9:57 PM
To: elastix at bigr.nl
Subject: Re: [elastix] Elastix Ubuntu New User

Hi Jamie,
Thanks for your interest in elastix. The warnings are not a problem. They just inform you that some parameters were not specified and that elastix takes a default value.
The error means that the fixed and moving image do not have a sufficiently large initial overlap. Or maybe your moving image is much smaller than your fixed image. Could you email us:
- The size of the images
- The voxel size
Kind regards,

On 9-8-2011 19:55, Robinson, Jamie wrote:
I am working on developing some software that compares two nuclear medicine whole body bone scans both intra and intersubject. Previously, I have used a registration package bUnwarpJ  in ImageJ for this purpose. However, I was not satisfied with the results (it uses a simple sum of squared intensity differences as a metric) and would now like to try something a bit more sophisticated and stumbled across elastix.

I followed the user manual on how to install the package and downloaded the default parameter configuration files. However, upon running the command

elastix -f FS1.dcm -m FS2.dcm -p ParameterFiles/Parameters_Affine.txt -p ParameterFiles/Parameters_BSpline.txt -out .

I am met with a whole bunch of warnings before the software fails. I have attached the log file but have no idea why the software fails. Can anyone offer any help.


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