Open Microscopy Environment

Hi,

i've added the Figure plugin but when I try and open an image with it I get a "XML Parsing Error: not well-formed" message. When I visit the URL the data seems to be there but its JSON rather than XML. Is there a config option that could fix this?

Thanks,

Matt.

Hi mattc,

Could you please paste the omero config for your OMERO.web client deployment?

That'll let us see if the plugin is properly installed. (also - did you restart OMERO.web after installing the plugin?)

In the corresponding folder of your OMERO.web deployment:

Code: Select all

bin/omero config get

Best,

Kenny

Thanks for getting back to me Kenny. My config looks like this:

Code: Select all

omero.db.name=image_db
omero.db.pass=********
omero.db.user=omero_user
*** ldap stuff ***
omero.web.application_server=wsgi-tcp
omero.web.apps=["omero_iviewer", "omero_figure"]
omero.web.open_with=[["Image viewer", "webgateway", {"supported_objects": ["image"], "script_url": "webclient/javascript/ome.openwith_viewer.js"}], ["omero_iviewer", "omero_iviewer_index", {"supported_objects": ["images", "dataset", "well"], "script_url": "omero_iviewer/openwith.js", "label": "OMERO.iviewer"}], ["omero_figure", "new_figure", {"supported_objects": ["images"], "target": "_blank", "label": "OMERO.figure"}]]
omero.web.ui.top_links=[["Data", "webindex", {"title": "Browse Data via Projects, Tags etc"}], ["History", "history", {"title": "History"}], ["Help", "https://help.openmicroscopy.org/", {"target": "new", "title": "Open OMERO user guide in a new tab"}], ["Figure", "figure_index", {"target": "_blank", "title": "Open Figure in new tab"}]]
omero.web.viewer.view=omero_iviewer.views.index

I realised after I posted that Figure is working well for some images on our DB but with others we get the spinning progress icon but nothing loads. I did try restarting OMERO.web without success i'm afraid.

Hi Matt,

The plugin configuration looks good to me.

The only other two times we've come across that particular error message it's been issues like an upgrade of the plugin with browsers or Django caching parts of the the old version.

See the two threads at

http://lists.openmicroscopy.org.uk/pipe ... 06607.html
and
viewtopic.php?f=4&t=8318

Did you replace an older or different version of the plugin with a new one?

Or if this is a fresh install, perhaps it's worth checking the versions of the prerequisites.

Is python-reportlab successfully installed in the same e.g. virtualenv which OMERO.web is using?

Best,

Kenny