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

[José Salavert Torres]

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:



3027 is too big for an email

ftp://ftp.ebi.ac.uk/pub/databases/emdb/structures/EMD-3027/map/emd_3027.map.gz <ftp://ftp.ebi.ac.uk/pub/databases/emdb/structures/EMD-3027/map/emd_3027.map.gz>

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