[ome-users] Bioformats : 3D meshes, µCT and MRI data

[Melissa Linkert]

Hi Renaud,

> I write you to know whether you plan to extend the bioformats libary
> to more standard 3D mesh formats (such as .ply format, .stl, .obj or
> .vtk ), which are much more commonly used than amiramesh formats ?
> That would be extremely convenient and such features could
> potentially be used by many biologists.

We do currently have plans to support VTK files:

https://trac.openmicroscopy.org.uk/ome/ticket/10340

The other formats listed are not currently scheduled, but we would
certainly consider supporting them if you (or anyone else) is
interested in providing example files.  Files can be uploaded to:

http://qa.openmicroscopy.org.uk/qa/upload

though they would need to be compressed in a Zip file first.

Regards,
-Melissa

On Wed, Oct 01, 2014 at 12:04:21PM +0200, renaud.lebrun wrote:
> Hello,
> 
> I belong to a microscopy platform (http://www.mri.cnrs.fr ), and I
> myself am in charge of a X-ray microtomograph, which generates
> stackes of images (typically dicom or 3D tiffs) which bioformats
> manages well.
> 
> I got recently interested by the bioformats library and especially
> the OMERO project to handle data generated by the facility I use
> (image stacks) and derived data (3D meshes).
> 
> I saw that bioformats handles well data generated by Amira software,
> such as Amira project, Amira meshes and Amira images. I find this
> great, because this is typically the kind of derived data which are
> generated by users of µCT, CT, MRI and µMRI (and these 3D data
> acquisition methods are now commonly used by biologists).
> 
> I write you to know whether you plan to extend the bioformats libary
> to more standard 3D mesh formats (such as .ply format, .stl, .obj or
> .vtk ), which are much more commonly used than amiramesh formats ?
> That would be extremely convenient and such features could
> potentially be used by many biologists.
> 
> I thank you in advance for your answer,
> 
> Best wishes,
> Renaud
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