[ome-users] Elements Opener

[Jean-Marie Burel (Staff)]

Dear Eric


Thanks for you post


Users can already open their images in any 3rd party tool e.g. NIS Elements Viewer, using the "Open With" option available in OMERO.insight,

By default the exchange format between OMERO and the external application is OME-TIFF.

To use the original format e.g. nd2, you will need to replace, in container.xml, false by true for the following entry:

<entry name="/services/OpenWith/Original" type="boolean">false</entry>

This flag is global so it will apply to all the 3rd party applications used that way. Also it will only work for the file formats Elements currently supports.


This might be sufficient for what you have in mind.


Note that OMERO.web has an Open With option but it does not allow to communicate with Desktop applications. The functionality is only able to open images/datasets in other OMERO.web apps.



For further integration, Elements will need to be able to interact with the OMERO API.

We will certainly be interested to move that discussion forward.


Cheers

Jean-Marie

From: ome-users <ome-users-bounces at lists.openmicroscopy.org.uk<mailto:ome-users-bounces at lists.openmicroscopy.org.uk>> on behalf of "Munro, Ian" <i.munro at imperial.ac.uk<mailto:i.munro at imperial.ac.uk>>
Reply-To: OME User Support List <ome-users at lists.openmicroscopy.org.uk<mailto:ome-users at lists.openmicroscopy.org.uk>>
Date: Monday, 24 September 2018 at 11:36
To: OME User Support List <ome-users at lists.openmicroscopy.org.uk<mailto:ome-users at lists.openmicroscopy.org.uk>>
Subject: Re: [ome-users] Elements Opener


Hi Eric


If Eclipse can interface to Java then this may be of use: https://github.com/flimfit/omeUiUtils


It was written to provide a lightweight interface to allow the user to Graphically select Images or Datasets from OMERO.  Unfortunately it would need some slight updating to work with the current version of OMERO , as I havent been keeping it up-to-date but I suspect the OME team could assist with that. Of course, they may also have a better solution available now.


Best Wishes


Ian

[https://avatars1.githubusercontent.com/u/20959969?s=400&v=4]<https://github.com/flimfit/omeUiUtils>

flimfit/omeUiUtils<https://github.com/flimfit/omeUiUtils>
github.com
Utilities for adding OMERO functionality to desktop clients. - flimfit/omeUiUtils



________________________________
From: ome-users <ome-users-bounces at lists.openmicroscopy.org.uk<mailto:ome-users-bounces at lists.openmicroscopy.org.uk>> on behalf of Griffis, Eric <egriffis at ucsd.edu<mailto:egriffis at ucsd.edu>>
Sent: 23 September 2018 23:25:02
To: OME User Support List; richard.gruskin at nikon.com<mailto:richard.gruskin at nikon.com>
Subject: [ome-users] Elements Opener


Hi All,



We’re having an OMERO server built here at UCSD for the users of our new Nikon Imaging Center. I really loved the OMERO opener within ImageJ. Would it be possible to implement something similar within Elements, to allow users to open their OMERO DBs and images in Elements and then do and save their analyses in Elements?



Thanks,



Eric





Eric Griffis, Ph.D.



Director

Nikon Imaging Center

Leichtag 483

9500 Gilman Drive; Mail code 0694

University of California, San Diego

La Jolla, CA 92093-0694



Email:  egriffis at ucsd.edu<mailto:egriffis at ucsd.edu>

Phone: 858-246-3162





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