[ome-users] 4d Nifti missing 4th dimension

[Balaji Ramalingam (Staff)]

Hi,

Thank you for submitting your files and reporting your issue.
We were able to reproduce the same locally.


A ticket has been filed on this regard,

http://trac.openmicroscopy.org/ome/ticket/13291#ticket


And we look forward to tackling this issue at the earliest.

Hope that helps.


Best,

Balaji

__________________

Mr Balaji Ramalingam

Software Developer

OME Team

School of Life Sciences

University of Dundee

From: ome-users <ome-users-bounces at lists.openmicroscopy.org.uk<mailto:ome-users-bounces at lists.openmicroscopy.org.uk>> on behalf of "Bogovic, John" <bogovicj at janelia.hhmi.org<mailto:bogovicj at janelia.hhmi.org>>
Reply-To: OME User Support List <ome-users at lists.openmicroscopy.org.uk<mailto:ome-users at lists.openmicroscopy.org.uk>>
Date: Tuesday, 13 September 2016 at 19:09
To: "ome-users at lists.openmicroscopy.org.uk<mailto:ome-users at lists.openmicroscopy.org.uk>" <ome-users at lists.openmicroscopy.org.uk<mailto:ome-users at lists.openmicroscopy.org.uk>>
Subject: [ome-users] 4d Nifti missing 4th dimension

Dear OME-devs,

I've come across an issue where some 4D Nifti files are loaded as 3D volumes.
I've uploaded an example:  "volume4d.nii" to the QA system.
The result be 4d ( 506, 506, 43, 3 ) but opens in Fiji as a 3d ( 506, 506, 43 ) stack.

Some other perhaps helpful information:
It was produced by ANTS<http://stnava.github.io/ANTs/>, and can be read correctly by MIPAV<https://mipav.cit.nih.gov/> and 3dSlicer<https://www.slicer.org/>.
As well, re-saving this file with MIPAV produces something that can be correctly read by Bioformats.

Thanks for your consideration,
John

The University of Dundee is a registered Scottish Charity, No: SC015096
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