Nrrd ITK-SCIFIO Bug

[Curtis Rueden]

Hi Matt,

Thanks for your suggestions. To be clear, in microscopy these days, it is
quite common to have an experiment stored as a single file (in e.g. Leica
LIF format), which contains many loosely related N-dimensional images from
the same experiment, but dimensionally different. So you might have, e.g.:

512 x 512 (single image plane)
768 x 512 x 12 T x 5 Z
1024 x 1024 x 3 C x 100 T
... etc., with very few rules or limitations on the number of images, or
their structure.

It would be great if in ITK there were a way to represent this in a general
way. SCIFIO & Bio-Formats handle it by allowing you to specify the image
index you want to retrieve. (From the information so far, it sounds like
the VideoIO may not be powerful enough, and/or may not match the intended
use case here?) What would be the best way forward to pursue such an
enhancement?

Thanks,
Curtis


On Tue, Jul 2, 2013 at 3:13 PM, Mark Hiner <hiner at wisc.edu> wrote:

>
> On Tue, Jul 2, 2013 at 2:55 PM, Matt McCormick <matt.mccormick at kitware.com
> > wrote:
>
>> TemporalDataObject?
>>
>
> So is this incompatible with the ImageReaders, because it's a sibling of
> ImageBase <http://www.itk.org/Doxygen/html/classitk_1_1ImageBase.html>?
> Is there a separate VideoReader/VideoWriter class? (didn't see one in the video
> module <http://www.itk.org/Doxygen/html/group__ITKVideoCore.html>...)
>
> I don't love the idea of creating another ImageIO... but can't I just
> make, essentially, a TemporalDataObject that extends ImageBase, and
> specifically holds a list of image series?
>
> It doesn't even have to be a circular list.. it can just hold offsets into
> the data..
>
-------------- next part --------------
An HTML attachment was scrubbed...
URL: <http://scif.io/pipermail/scifio/attachments/20130702/4f5b257d/attachment-0001.html>