Task #12211 (new)
Opened 10 years ago
Last modified 9 years ago
BUG: Bulk annotations script - Insight — at Initial Version
Reported by: | pwalczysko | Owned by: | jburel |
---|---|---|---|
Priority: | blocker | Milestone: | 5.0.2 |
Component: | Insight | Version: | 5.0.1 |
Keywords: | n.a. | Cc: | ux@…, cxallan, cblackburn, spli |
Resources: | n.a. | Referenced By: | n.a. |
References: | n.a. | Remaining Time: | n.a. |
Sprint: | n.a. |
Description
The Bulk annotations script is not visible in Insight when Plate is inside a Screen.
When executing the https://www.openmicroscopy.org/private/ome-internal/testing_scenarios/BulkAnnotations.html, the execution of the script went well (user-4 in read-write-1, which is the default group, but see also https://trac.openmicroscopy.org.uk/ome/ticket/12210 for permissions problems here).
The annotations are visible in Insight in case of orphaned Plate (see screenslhot). If the script is executed on a Screen (with the plate inside), the annotations are not displayed in Insight.
see screenshot
This was repeated on localhost (5.0.1 release server) as well as on gretzky (merge build)
Web
The annotations which are missing in Insight are displayed in Web only partially, with the row titles there, but the values say "undefined" (see screenshot).
The output of the command line (first paragraph is the fully successful run of the script on orphaned plate, second paragraph the semi-successful run on a screen):
Clasifying as a blocker because this is a regression in comparison with the situation when the script was tested last time (4.4.x times)
[petr@LS25165 ~/Work/omero5-server/OMERO.server-5.0.1-190-e58c9fb-ice33-b208/lib/python]$ PYTHONPATH=$PYTHONPATH:. python omero/util/populate_metadata.py -s gretzky.openmicroscopy.org.uk -u user-4 -w ome Plate:1752 ~/Desktop/test_plate.csv INFO:omero.util.Resources:Starting INFO:omero.util.populate_metadata:Missing plate name column, skipping. INFO:omero.util.populate_metadata:Missing plate name column, skipping. INFO:omero.util.populate_metadata:Missing plate name column, skipping. INFO:omero.util.populate_metadata:Missing plate name column, skipping. INFO:omero.util.populate_metadata:Missing plate name column, skipping. INFO:omero.util.populate_metadata:Missing plate name column, skipping. INFO:omero.util.populate_metadata:Missing plate name column, skipping. INFO:omero.util.populate_metadata:Missing plate name column, skipping. INFO:omero.util.populate_metadata:Missing plate name column, skipping. INFO:omero.util.populate_metadata:Missing plate name column, skipping. INFO:omero.util.populate_metadata:Missing plate name column, skipping. INFO:omero.util.populate_metadata:Missing plate name column, skipping. INFO:omero.util.populate_metadata:Missing plate name column, skipping. INFO:omero.util.populate_metadata:Missing plate name column, skipping. INFO:omero.util.populate_metadata:Missing plate name column, skipping. INFO:omero.util.populate_metadata:Missing plate name column, skipping. INFO:omero.util.populate_metadata:Created new table OriginalFile:66092 INFO:omero.util.populate_metadata:Table initialized with 9 columns. INFO:omero.util.populate_metadata:Added data column data. INFO:omero.util.Resources:Halted [petr@LS25165 ~/Work/omero5-server/OMERO.server-5.0.1-190-e58c9fb-ice33-b208/lib/python]$ PYTHONPATH=$PYTHONPATH:. python omero/util/populate_metadata.py -s gretzky.openmicroscopy.org.uk -u user-4 -w ome Screen:651 ~/Desktop/test_screen.csv INFO:omero.util.Resources:Starting WARNING:omero.util.populate_metadata:Screen is missing plate: 365700055641 WARNING:omero.util.populate_metadata:Screen is missing plate: 365700055641 WARNING:omero.util.populate_metadata:Screen is missing plate: 365700055641 WARNING:omero.util.populate_metadata:Screen is missing plate: 365700055641 WARNING:omero.util.populate_metadata:Screen is missing plate: 365700055641 WARNING:omero.util.populate_metadata:Screen is missing plate: 365700055641 WARNING:omero.util.populate_metadata:Screen is missing plate: 365700055641 WARNING:omero.util.populate_metadata:Screen is missing plate: 365700055641 WARNING:omero.util.populate_metadata:Screen is missing plate: 365700055641 WARNING:omero.util.populate_metadata:Screen is missing plate: 365700055641 WARNING:omero.util.populate_metadata:Screen is missing plate: 365700055641 WARNING:omero.util.populate_metadata:Screen is missing plate: 365700055641 WARNING:omero.util.populate_metadata:Screen is missing plate: 365700055641 WARNING:omero.util.populate_metadata:Screen is missing plate: 365700055641 WARNING:omero.util.populate_metadata:Screen is missing plate: 365700055641 WARNING:omero.util.populate_metadata:Screen is missing plate: 365700055641 INFO:omero.util.populate_metadata:Created new table OriginalFile:66093 INFO:omero.util.populate_metadata:Table initialized with 11 columns. INFO:omero.util.populate_metadata:Added data column data. INFO:omero.util.Resources:Halted [petr@LS25165 ~/Work/omero5-server/OMERO.server-5.0.1-190-e58c9fb-ice33-b208/lib/python]$