[ome-devel] Errors in map-density range normalisation

[José Salavert Torres]

For entry EMD-3027 the download I attached is not exactly the same file, the one loaded in OMERO is a rotated file with IMOD.
If you can not reproduce the error with that map (very unlikely), please tell us and we will sen you the “-top” version of the file, which is rotated. That file is big for an e-mail.

> On 27 Aug 2015, at 13:05, Jean-Marie Burel (Staff) <j.burel at dundee.ac.uk> wrote:
> 
> Dear Jose
> 
> Thanks for reporting the issue and submitting the files
> It looks like a problem in the way we are rendering floating point data.
> We are currently investigating the problem and should have a fix in the next coming release
> Just to be sure, which version of the server are you using?
> 
> Regards
> Jmarie
> 
> From: ome-devel <ome-devel-bounces at lists.openmicroscopy.org.uk <mailto:ome-devel-bounces at lists.openmicroscopy.org.uk>> on behalf of José Salavert Torres <josator at ebi.ac.uk <mailto:josator at ebi.ac.uk>>
> Reply-To: OME External Developer List <ome-devel at lists.openmicroscopy.org.uk <mailto:ome-devel at lists.openmicroscopy.org.uk>>
> Date: Tuesday, 25 August 2015 10:39
> To: OME External Developer List <ome-devel at lists.openmicroscopy.org.uk <mailto:ome-devel at lists.openmicroscopy.org.uk>>
> Subject: [ome-devel] Errors in map-density range normalisation
> 
> Dear OMERO developers,
> 
> We are experimenting some errors related with the greyscale normalisation of the images, when changing the min slider in entry EMD-3027 you can notice them:
> 
> http://www.ebi.ac.uk/pdbe/emdb/3dbrowse/EMD-3027 <http://www.ebi.ac.uk/pdbe/emdb/3dbrowse/EMD-3027>
> 
> The background is switching from black to white, this happens in many other situations and is blocking our application to be released into production:
> 
> White background:
> 
> http://www.ebi.ac.uk/pdbe/emdb/empiar_omero/webgateway/render_image_region_quality/18717/88/0/100/?c=1%7C0.0029:0.01731&region=37,-1,211,211 <http://www.ebi.ac.uk/pdbe/emdb/empiar_omero/webgateway/render_image_region_quality/18717/88/0/100/?c=1|0.0029:0.01731&region=37,-1,211,211>
> 
> Black background with white dots surrounding :
> 
> http://www.ebi.ac.uk/pdbe/emdb/empiar_omero/webgateway/render_image_region_quality/18717/88/0/100?c=1|0.00054:0.01731&region=37,-1,211,211 <http://www.ebi.ac.uk/pdbe/emdb/empiar_omero/webgateway/render_image_region_quality/18717/88/0/100?c=1%7C0.00054:0.01731&region=37,-1,211,211>
> 
> In many other cases white dots appear, but should be black, like EMD-1057, with 15 white dots that should be black instead of white:
> 
> http://www.ebi.ac.uk/pdbe/emdb/3dbrowse/EMD-1057 <http://www.ebi.ac.uk/pdbe/emdb/3dbrowse/EMD-1057>
> 
> http://www.ebi.ac.uk/pdbe/emdb/empiar_omero/webgateway/render_image_region_quality/8019/87/0/100?c=1|14.9:228.1&region=26,8,147,147 <http://www.ebi.ac.uk/pdbe/emdb/empiar_omero/webgateway/render_image_region_quality/8019/87/0/100?c=1%7C14.9:228.1&region=26,8,147,147>
> 
> This are calls to render_image_region but changing jpeg compression quality, it happens also with “render_image” web gateway call which we did not modify.
> 
> 
> Can you check these errors please?
> 
> This is the map file:
> 
> 
> The University of Dundee is a registered Scottish Charity, No: SC015096
> _______________________________________________
> 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/20150827/3141ca1e/attachment.html>