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Task #11486 (new)

Opened 6 years ago

Last modified 4 years ago

RFE: viewing orphaned samples in Insight

Reported by: mtbcarroll Owned by: jburel
Priority: minor Milestone: Unscheduled
Component: Insight Version: 4.4.8
Keywords: BACKPORT-4.4 Cc: ux@…, cxallan
Resources: n.a. Referenced By: n.a.
References: n.a. Remaining Time: n.a.
Sprint: n.a.

Description

I have the suspicion that if I have a plate with both some well samples from runs and some "orphaned" samples not from runs, clicking on the plate (not run) in Insight doesn't show me in the data browser the samples that aren't in a run. Unfortunately, I don't have any good test data handy for confirming this.

Change History (12)

comment:1 Changed 6 years ago by wmoore

One way to create some test data would be to modify the Dataset_To_Plate.py script to use an existing Plate, instead of creating one.
This adds wells & images to a Plate without creating a Acquisition/Run?. I could have a go at this if you want?

comment:2 Changed 6 years ago by mtbcarroll

If it wouldn't be too much trouble, that would be great. (Also, I don't know if Andrew can easily construct something suitable.)

comment:3 Changed 6 years ago by jamoore

  • Cc cxallan added
  • Milestone changed from Unscheduled to OMERO-4.4.10

Moving for closer review with the rest of the dangling 4.4 work.

comment:4 Changed 5 years ago by jburel

  • Milestone changed from 5.1.0 to 5.1.0-m4

comment:5 Changed 5 years ago by jburel

Will: did you generate some sample files to test that ticket?

comment:6 Changed 5 years ago by wmoore

No - I haven't. Maybe we shouldn't try fixing this "BUG" unless we know of some data that causes the bug?

comment:7 Changed 5 years ago by mtbcarroll

Just import a regular plate with runs and null one of the samples' plate acquisition property in the DB?

comment:8 Changed 5 years ago by mtbcarroll

I constructed one: on trout-merge see user-5 read-write-1, screen "Trac #11486". The samples in the first eight wells are not in a run, the other half are. Insight won't show me the first half at all, Web shows me all of them but all in the run.

mtbc@ls28101:~/src/openmicroscopy$ omero hql "SELECT s.id, w.column FROM Well w, WellSample s WHERE w.plate = 1465 AND s.well = w AND s.plateAcquisition IS NULL"
Using session 05db7b76-cfa7-4158-bc2c-5095ccadce1b (user-5@trout.openmicroscopy.org:4064). Idle timeout: 10.0 min. Current group: read-write-1
 # | Col1  | Col2 
---+-------+------
 0 | 14699 | 2    
 1 | 14696 | 5    
 2 | 14694 | 3    
 3 | 14692 | 4    
 4 | 14691 | 6    
 5 | 14689 | 1    
 6 | 14688 | 7    
 7 | 14701 | 0    
(8 rows)

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mtbc@ls28101:~/src/openmicroscopy$ omero hql "SELECT s.id, w.column FROM Well w, WellSample s WHERE w.plate = 1465 AND s.well = w AND s.plateAcquisition IS NOT NULL"
Using session 05db7b76-cfa7-4158-bc2c-5095ccadce1b (user-5@trout.openmicroscopy.org:4064). Idle timeout: 10.0 min. Current group: read-write-1
 # | Col1  | Col2 
---+-------+------
 0 | 14700 | 9    
 1 | 14698 | 8    
 2 | 14697 | 14   
 3 | 14695 | 15   
 4 | 14693 | 10   
 5 | 14690 | 13   
 6 | 14687 | 11   
 7 | 14686 | 12   
(8 rows)

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Last edited 5 years ago by mtbcarroll (previous) (diff)

comment:9 Changed 5 years ago by jamoore

Referencing ticket #11752 has changed sprint.

comment:10 Changed 5 years ago by jamoore

Referencing ticket #11752 has changed sprint.

comment:11 Changed 4 years ago by jamoore

  • Milestone changed from 5.1.4 to OMERO-5.1.4

Splitting 5.1.4 due to milestone decoupling

comment:12 Changed 4 years ago by jamoore

  • Milestone changed from 5.x to Unscheduled
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