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Task #7292 (closed)

Opened 11 years ago

Closed 10 years ago

Last modified 10 years ago

Bug: "Original metadata" tab not displayed for screening data

Reported by: mlinkert Owned by: jburel
Priority: major Milestone: OMERO-4.4
Component: Insight Version: n.a.
Keywords: n.a. Cc: timo.a.miettinen@…, vilja.pietiainen@…, ruben.munoz@…, jburel, atarkowska, wmoore,
Resources: n.a. Referenced By: n.a.
References: n.a. Remaining Time: 0.0d
Sprint: 2012-02-28 (9)

Description

The "Original metadata" tab is missing in Insight and Web when viewing screening data imported with Importer or Insight 4.3.3 against gretzky.

The "Original metadata" tab is present when using the same exact clients and server to import/view non-screening data. For example, test_images_good/al3d/Iron Plate.al3d has the tab, but test_images_good/bd_pathway/2009-05-01_000/Experiment.exp does not.

See also this thread on ome-devel:

http://lists.openmicroscopy.org.uk/pipermail/ome-devel/2011-November/002089.html

Attachments (2)

7292-insight.tiff (213.6 KB) - added by jburel 11 years ago.
Screen shot 2012-01-06 at 14.21.20.png (210.7 KB) - added by wmoore 11 years ago.

Download all attachments as: .zip

Change History (26)

comment:1 Changed 11 years ago by mlinkert

  • Cc timo.a.miettinen@… vilja.pietiainen@… added

comment:2 Changed 11 years ago by jburel

  • Milestone changed from Unscheduled to Usability Backlog

comment:3 Changed 11 years ago by jburel

  • Milestone changed from Usability Backlog to OMERO-Beta4.4
  • Owner set to jburel
  • Sprint set to 2012-01-17 (6)

comment:4 Changed 11 years ago by jburel

  • Remaining Time set to 0.5
  • Status changed from new to accepted

Changed 11 years ago by jburel

comment:5 Changed 11 years ago by jburel

  • Component changed from Client to Web

Add to insight (see screenshot). Passing ticket to Web component

comment:6 Changed 11 years ago by jburel

  • Owner jburel deleted
  • Status changed from accepted to new

comment:7 follow-up: Changed 11 years ago by wmoore

Where can I find some data that has these companion files?

comment:8 in reply to: ↑ 7 Changed 11 years ago by mlinkert

Replying to wmoore:

Where can I find some data that has these companion files?

Any screening data should show the problem; I used test_images_good/bd_pathway/2009-05-01_000/Experiment.exp in my initial test. It looks like Jean-Marie was using the files in test_images_good/flex/ when he made the above screenshot.

comment:9 Changed 11 years ago by wmoore

From JM:
"I use 003003000.flex". Files are File Annotations with companion ns.

comment:10 Changed 11 years ago by jburel

Full ns is: openmicroscopy.org/omero/import/companionFile and is declared in Constants.ice

Changed 11 years ago by wmoore

comment:11 Changed 11 years ago by wmoore

I'm still having trouble getting a file that displays companion files in Insight. Using an old Insight and server build, I imported a Flex file and this didn't show any companion files. I rebuilt the server with develop branch and used Insight from http://hudson.openmicroscopy.org.uk/job/OMERO-merge-blue/45/artifact/src/target/pkg/OMERO.clients-4.3.3-70e9387d-b45.mac.zip but this doesn't display companion files for the image I'd already imported. I tried importing again with this Insight & server but got some crash that is probably due to bioformat version mismatch: https://trac.openmicroscopy.org.uk/ome/attachment/ticket/7292/Screen%20shot%202012-01-06%20at%2014.21.20.png

What version of the server do I need to use with this build of Insight?

comment:12 Changed 11 years ago by wmoore

  • Owner set to wmoore

comment:13 Changed 11 years ago by cxallan

The problem that you have there in the screenshot has to do with missing slf4j JARs not a version mismatch or a server problem. Looks like build 48 has that fixed:

http://hudson.openmicroscopy.org.uk/job/OMERO-merge-blue/48/

comment:14 Changed 11 years ago by Jean-marie Burel <j.burel@…>

(In [fa4632337df5279dfeb62c33271a0b78d2d1c8e8/ome.git] on branch develop) Display original metadata and companion

When the user clicks on a well sample
Display original metadata and/or companion files
linked to the plate (see #7292)

comment:15 Changed 11 years ago by jburel

  • Sprint changed from 2012-01-17 (6) to 2012-01-31 (7)

Moved from sprint 2012-01-17 (6)

comment:16 Changed 11 years ago by jmoore

  • Sprint changed from 2012-01-31 (7) to 2012-02-14 (8)

Moved from sprint 2012-01-31 (7)

comment:17 Changed 11 years ago by jburel

  • Sprint changed from 2012-02-14 (8) to 2012-02-28 (9)

Moved from sprint 2012-02-14 (8)

comment:18 Changed 11 years ago by wmoore

  • Owner changed from wmoore to jburel

https://github.com/will-moore/openmicroscopy/tree/sprint9-web-backlog has commits:

Fixed in web.

JM: I noticed in Insight (built from develop) that if I load the Image by clicking Plate-Acquisition and then Image, then the companion files are visible on the image, but if I go back and click on Plate, then on Image (without clicking on Plate Acquisition) the Image in the right hand panel does NOT display the companion files.

comment:19 Changed 11 years ago by jburel

  • Component changed from Web to Insight

comment:20 Changed 10 years ago by jburel

To test:

  • I load the Image by clicking Plate-Acquisition and then Image, then the companion files are visible on the image,
  • I go back and click on Plate, then on Image (without clicking on Plate Acquisition) the Image in the right hand panel does display the companion files.

comment:21 Changed 10 years ago by jburel

  • Remaining Time changed from 0.5 to 0
  • Status changed from new to closed

comment:22 Changed 10 years ago by jburel <j.burel@…>

  • Resolution set to fixed

(In [292c60356ee89019da8613defae150f56660f33b/ome.git] on branch develop) Fix display companion files when selecting a well (close #7292)

comment:23 Changed 10 years ago by Will Moore <will@…>

(In [d727b9b4acd1204e84f622c17b98aeaa15095595/ome.git] on branch develop) Adding getPlate() to ImageWrapper? for SPW companion files. See #7292

comment:24 Changed 10 years ago by Will Moore <will@…>

(In [7aa612f746624cfc3775e475351c501185b780b6/ome.git] on branch develop) BaseContainer? loads companion files with Orig metadata. See #7292

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