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[Seg3D] Re: Creating Masks with voxels less than 1mm cubed causing issues with Analyze header


Chronological Thread 
  • From: Ayla Khan <ayla@sci.utah.edu>
  • To: seg3d@sci.utah.edu
  • Subject: [Seg3D] Re: Creating Masks with voxels less than 1mm cubed causing issues with Analyze header
  • Date: Wed, 30 Nov 2011 11:14:10 -0700
Hi Timothy,

Can you try this in a more recent version of Seg3D, v2.1.1 (http://www.sci.utah.edu/download/seg3d/) for instance, and then see if you have the same problem?

Thanks,

Ayla

On Nov 30, 2011, at 8:47 AM, Timothy Brown wrote:

Hi All,

I am using Seg3D to segment brains with a voxel dimensions less that 1mm x 1mm x 1mm.

I have noticed that the .hdr of the binary mask does not match the .hdr of the original image:

Original Image:
voxel x dimension = 0.798611
voxel y dimension = 0.798611
voxel z dimension = 0.800000
data offset = 0.000000
planar orientation = 2 (sagittal)

Binary Mask from Seg3D:
voxel x dimension = 1.000000
voxel y dimension = 1.000000
voxel z dimension = 1.000000
data offset = 0.000000
planar orientation = 1 (coronal)

There voxel dimensions and planar orientation are different.

I am using Seg3D 1.12.0

Thank you for any help.

-Timothy

Timothy Brown                 email: timothy@cis.jhu.edu
Computational Anatomist       phone: 410.516.7551
Center for Imaging Science    fax:   410.516.4557
Johns Hopkins University
301 Clark Hall
3400 N. Charles Street
Baltimore, MD 21218


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