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User Story #4271 (accepted)

Opened 13 years ago

Last modified 13 years ago

Batch annotation import

Reported by: cxallan Owned by:
Priority: minor Milestone: Unscheduled
Component: General Keywords: n.a.
Cc: jburel Story Points: n.a.
Sprint: n.a. Importance: n.a.
Total Remaining Time: 0.0d Estimated Remaining Time: n.a.

Description (last modified by wmoore)

Overarching story for the import of batch annotations. The basic initial workflow to be investigated is:

  • Python script takes Plate, Project or Dataset input container and CSV file
  • CSV headers are parsed, locating key referential columns such as "plate", "well", "column", "row" or "image"
  • An OmeroTables instance is created with the source annotation data and associated with the target container (namespace: openmicroscopy.org/omero/batch_annotation)

Additional functionality to be explored:

  • Annotation templates which use OmeroScripts and the DeleteSpecification of wiki:Delete to specify OMERO model entities and fields to update based on the batch annotation source.
  • OmeroScripts integrations with OMERO.insight to allow the upload of an attachment and subsequent processing of the batch annotation file in a completely user driven manner.
  • Batch Annotation on Import - #1797.

Change History (3)

comment:1 Changed 13 years ago by jburel

  • Cc jburel added

comment:2 Changed 13 years ago by agilo

  • Status changed from new to accepted

Updated status, related task in progress

comment:3 Changed 13 years ago by wmoore

  • Description modified (diff)
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