[ome-users] OMERO.figure >> buttons and sliders in Preview window missing

[Kenneth Gillen (Staff)]

Hi Martin,

>Leica_16bit_bad_pyramid.lif
Is this a file you’d expect OMERO to import, and properly render? The
filename, `bad_pyramid` suggests you know of issues. I.e. is this
something you`d like to the Bio-Formats team to look at?  (a separate
issue to the OMERO.figure issue perhaps?)

For me, this image loads in an OMERO 5.3.3 with Figure 3.1.1 server,
though (perhaps suggested by the filename), looks odd: yellowish
background, random spots. However, I can add labels, rotate, zoom and edit
the channels, which implies your Figure issue is not related to the image,
but to the setup of Figure.

>Leica_8bit_good_pyramid.lif
And this second image, when loading into the same server, I see error:
`Image Leica_8bit_good_pyramid.lif is too big for OMERO.figure`. Is it
happily loaded by your own OMERO.figure?


The next thing I can think of is that some OMERO.web requirements are not
satisfied.

If you could confirm which versions of the OMERO.web requirements
OMERO.web is configured to use, we can rule that out:

e.g. your equivalent of: ~omero/omerowebvenv/bin/pip freeze

Which will determine if you need to re-install/upgrade the OMERO.web
requirements, outlined in the install docs ubuntu walkthrough [1].

If re-installing the web requirements doesn’t yield and instant result, if
you could also send us your OMERO configuration via omero config get
--hide-password, and your server’s Blitz-0.log, and master.err


[1]
https://docs.openmicroscopy.org/omero/5.3.3/sysadmins/unix/install-web/walk
through/omeroweb-install-ubuntu-ice3.6.html or

All the best,

Kenny

--

Kenneth Gillen


OME System Administrator

Wellcome Trust Centre for Gene Regulation & Expression
School of Life Sciences
CTIR 2
University of Dundee
Dow Street
Dundee  DD1 5EH
United Kingdom

Tel: +44 (0) 1382 388797


http://www.twitter.com/openmicroscopy

----

Dear Kenny,

I've uploaded the logs:

nginx_access.log
nginx_error.log

OMEROweb_inspect_figure_missing_buttons.log

I also tried reinstalling, but that didn't change anything.

Best,

Martin







On 19/07/2017 17:08, "ome-users on behalf of Kenneth Gillen (Staff)"
<ome-users-bounces at lists.openmicroscopy.org.uk on behalf of
k.h.gillen at dundee.ac.uk> wrote:

>It would be worth retrying the install of the plugin at the least.
>
>Then I¹d be thinking about at least sending us a .tar.gz or .zip of your
>OMEROweb.log and your NGINX log. Perhaps there¹s something in the NGINX
>log, for example, which is showing 404s or 5xx responses which might point
>to what is going on.
>
>You can send us logs via http://qa.openmicroscopy.org.uk/qa/upload/
>
>It¹d be interesting to hear if anyone else has come across this one. My
>own OMERO server upgraded to this version without issues on RHEL7, rather
>than Ubuntu.
>
>
>All the best,
>
>Kenny
>
>--
>
>Kenneth Gillen
>
>OME System Administrator
>
>Wellcome Trust Centre for Gene Regulation & Expression
>School of Life Sciences
>CTIR 2
>University of Dundee
>Dow Street
>Dundee  DD1 5EH
>United Kingdom
>
>Tel: +44 (0) 1382 388797
>
>
>http://www.twitter.com/openmicroscopy
>
>
>
>
>
>
>
>
>On 19/07/2017 15:08, "ome-users on behalf of Martin Wlotzka"
><ome-users-bounces at lists.openmicroscopy.org.uk on behalf of
>martin.wlotzka at uni-heidelberg.de> wrote:
>
>>Hi Kenny,
>>
>>yes I recently upgraded from 3.1.0 to 3.1.1, and the buttons / sliders
>>were there in 3.1.0. I already tried downgrading again, but that didn't
>>bring them back.
>>
>>-- Martin
>>
>>
>>On 19.07.2017 15:55, Kenneth Gillen (Staff) wrote:
>>> Hi Martin,
>>>
>>> Has OMERO.figure always been like this on this server? Was it, for
>>> example, installed, or upgraded recently?
>>>
>>> Many thanks
>>>
>>> Kenny
>>>
>>> --
>>>
>>> Kenneth Gillen
>>>
>>>
>>> OME System Administrator
>>>
>>> Wellcome Trust Centre for Gene Regulation & Expression
>>> School of Life Sciences
>>> CTIR 2
>>> University of Dundee
>>> Dow Street
>>> Dundee  DD1 5EH
>>> United Kingdom
>>>
>>> Tel: +44 (0) 1382 388797
>>>
>>>
>>> http://www.twitter.com/openmicroscopy
>>>
>>>
>>>
>>>
>>>
>>>
>>> On 19/07/2017 14:28, "ome-users on behalf of Martin Wlotzka"
>>> <ome-users-bounces at lists.openmicroscopy.org.uk on behalf of
>>> martin.wlotzka at uni-heidelberg.de> wrote:
>>>
>>>> Dear all,
>>>>
>>>> when I open images in OMERO.figure, the sliders and buttons for
>>>>channel
>>>> adjustment, image rotation etc. are missing in the "Preview" window.
>>>> There is only the zoom slider, no matter how many images I add to the
>>>> page, and how many of them I select for editing. Any idea what could
>>>>be
>>>> the reason?
>>>>
>>>> I run OMERO 5.3.3 and Figure 3.1.1. on Ubuntu 16.04.
>>>>
>>>> Best regards,
>>>>
>>>> Martin
>>>>
>>>> _______________________________________________
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>>>
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>>
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>
>
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