[ome-users] OMERO.figure release 1.0.0

Wed Oct 29 17:43:28 GMT 2014

Hi Will,

Thanks for the extensive answer.

Also, I wanted to congratulate you on the plugin. It gets a fantastic acceptance from our users. They love it!

Hopefully in a next version, choosing images can be simplified, as writing down the IDs works but is a bit cumbersome.

We will re-enable the saving option, as people were a little bit clueless where to find the actual figure. For them it belongs to the context of the image, but as you explained there is nothing to be found, so a bit confusing.

Another aspect is that if you have many figures, it becomes difficult to find back the figure you want. However, opening the attachment from an image and then going straight to that figure seems much more logical in such a workflow.

P.s.: Should feature requests be made on github or on another OME server?

Kind Regards,

--
Christophe

From: William Moore [mailto:will at lifesci.dundee.ac.uk]
Sent: jeudi 9 octobre 2014 15:23
To: Christophe TREFOIS; ome-users at lists.openmicroscopy.org.uk Users
Subject: Re: [ome-users] OMERO.figure release 1.0.0

Hi,

Are you already making images "public" via the OMERO.web public user as described https://www.openmicroscopy.org/site/support/omero5/developers/Web/PublicData.html ?

 In general I have tried to make the OMERO.figure files adopt the same permissions (same group) as the
images that are used in each figure. So, by default the figure should start out with the same permissions as it's images.
(It's actually possible to combine images from different groups into a single figure, but I'm assuming most users don't do this).

However, we don't currently attach the figure to any of the images that are in the figure.
So, if you choose to move those images to a "public" group, the figure file will remain in it's original group.

If you want to also move the figure file to the "public" group, the only way to do this is to attach it to
one of the images that are in the figure, then move that image to the public group.
You can attach the figure by clicking the  Attachments [+] button in the image right panel, then browsing existing files
on OMERO and picking the figure by name.

This should cause the figure file to move to that group too.
Then, you should only need to allow the public user to access "figure" urls (by configuring the public url filter - see docs link above)
and it should just work.
I haven't actually tested this complete workflow, but it should be fine.

NB: Just before the OMERO.figure 1.0.0 release, I added code that attached the figure file to all the
images in the figure each time you Saved the figure. However, I disabled this for the release, since
it made it too easy to accidentally delete the figure file when looking at the image in web-client.
See https://github.com/will-moore/figure/issues/21#issuecomment-57457959

If you want to enable this, you can simply set LINK_TO_IMAGES = True in figure/views.py
https://github.com/will-moore/figure/blob/develop/views.py#L244

In future versions of web-client, we'll make it harder to delete figure files, then we can re-enable this linking on save.

Hope that helps,

   Will.

On 8 Oct 2014, at 17:11, Christophe TREFOIS <christophe.trefois at uni.lu<mailto:christophe.trefois at uni.lu>> wrote:

Also, sorry to bug you more, but how would you change permissions on a « figure » object?

Eg, say I have the following workflow

1.       Create figure with user: toto
2.       Finish figure that goes to publication
3.       Want to make figure public to everyone can "interact" with it

I couldn't find that in your documentation, maybe I'm blind :(

Cheers and kudos for this awesome toolü

From: Christophe TREFOIS
Sent: mercredi 8 octobre 2014 17:59
To: 'William Moore'
Subject: RE: [ome-users] OMERO.figure release 1.0.0

Sweet !

Do you know of any efforts to have the whole OMERO in this beautiful typset ?

Also, I opened some issues on git for figure1.0.0, I hope that's the place you expect feedback.

Best!

From: William Moore [mailto:will at lifesci.dundee.ac.uk]
Sent: mercredi 8 octobre 2014 15:49
To: Christophe TREFOIS
Subject: Re: [ome-users] OMERO.figure release 1.0.0

Hi,

 Yes, exactly. Twitter bootstrap makes everything easy!

Also using Raphael.js for rectangles on selected panels and backbone.js for everything else.

  Cheers,

   Will.

On 8 Oct 2014, at 14:45, Christophe TREFOIS <christophe.trefois at uni.lu<mailto:christophe.trefois at uni.lu>> wrote:

Hi Will,

Sorry I will just bluntly ask like this, but how do you get your OMERO to look so pretty ? (I'm guessing Twitter Bootstrap 3?)

Any pointers would be so welcome :)

Best,

P.s.: Installing OMERO.figure now...

From: ome-users [mailto:ome-users-bounces at lists.openmicroscopy.org.uk<mailto:users-bounces at lists.openmicroscopy.org.uk>] On Behalf Of William Moore
Sent: lundi 6 octobre 2014 16:58
To: ome-users at lists.openmicroscopy.org.uk<mailto:ome-users at lists.openmicroscopy.org.uk> Users
Subject: [ome-users] OMERO.figure release 1.0.0

Hi All,

 Today we have released OMERO.figure 1.0.0, which includes support for Z-projections.

To see the full release announcement, go to http://will-moore.github.io/figure/2014/10/06/release-1.0.0.html

A video of the new features is at https://www.youtube.com/watch?v=P0MMKtIKdFY

And there are more tutorial videos at http://will-moore.github.io/figure/videos.html

If you haven't tried OMERO.figure yet, you can read more and experiment with the demos listed on the
recently updated home page: http://will-moore.github.io/figure/

 Regards,

  Will.

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