[ome-devel] optimised viewer for time laps data

[Curtis Rueden]

Hi Kai,

> viewing the images in FIJI when fetched via the FIJI-OMERO-connector
> using virtual stack.

I am curious: do you mean ImageJ-OMERO [1]? Or the OMERO.insight-ij
integration [2]?

Regards,
Curtis

[1] https://github.com/imagej/imagej-omero
[2] http://help.openmicroscopy.org/imagej.html

--
Curtis Rueden
LOCI software architect - http://loci.wisc.edu/software
ImageJ2 lead, Fiji maintainer - http://imagej.net/User:Rueden
Did you know ImageJ has a forum? http://forum.imagej.net/


On Fri, Jan 20, 2017 at 6:37 AM, Kai Schleicher <kai.schleicher at unibas.ch>
wrote:

> Hi,
>
> In our facility we have a couple of users that store large time laps
> datasets in OMERO.
> Viewing these, i.e. replaying and scrolling around in these tl files is
> however problematic when using the OMERO viewer, with several seconds long
> pauses when jumping between frames depending on the size of the images
> (e.g. ).
>
> I did however notice that there are performance difference depending on
> the viewer that is used. Here I have tested the web-viewer,
> desctop-client-viewer and viewing the images in FIJI when fetched via the
> FIJI-OMERO-connector using virtual stack.
>
> While the desktop-clients-viewer performs about 40% faster than the
> web-client, the FIJI-OMERO connector provided another increase of about 40%
> in replay speed compared to the desktop-client.
>
> While I am aware that these viewers are not meant to be optimal for
> tl-data, my tests make me wonder if it would be possible to write a simple
> viewer (e.g. in python) dedicated to only this task and optimise it for
> speed.
> I apologise if this question is very naive (and I am also _not_ asking you
> to write a new viewer :)), but I was simply wondering if there is any
> potential improving the situation for our users by this approach.
>
> Of course, if you happen to know other factors that also influence the
> speed at which tl data is replayed, e.g. the file format used, let me know
> and I'd be happy to try them outI'd be happy to know and try them out.
>
> Thanks for your help and cheers,
> Kai
>
> --
>
> Please note my NEW PHONE NUMBERS: +41 61 207 57 31 (direct) +41 61 207 22
>>> 50 (central)<<
>>>
>> Kai Schleicher, PhD | Research Associate in Advanced Light Microscopy |
> Biozentrum, University of Basel | Klingelbergstrasse 50/70 | CH-4056 Basel |
> Phone: +41 61 207 57 31 (direct) +41 61 207 22 50 (central) |
> kai.schleicher at unibas.ch | www.biozentrum.unibas.ch |
> www.microscopynetwork.unibas.ch
>
> _______________________________________________
> ome-devel mailing list
> ome-devel at lists.openmicroscopy.org.uk
> http://lists.openmicroscopy.org.uk/mailman/listinfo/ome-devel
>
-------------- next part --------------
An HTML attachment was scrubbed...
URL: <http://lists.openmicroscopy.org.uk/pipermail/ome-devel/attachments/20170120/7b9aa718/attachment.html>