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User Story #4650 (closed)

Opened 10 years ago

Closed 8 years ago

HIC: import data into OMERO

Reported by: jamoore Owned by:
Priority: major Milestone: Unscheduled
Component: General Keywords: n.a.
Cc: Story Points: n.a.
Sprint: n.a. Importance: n.a.
Total Remaining Time: 1.0d Estimated Remaining Time: n.a.

Description (last modified by jmoore)

Initially from the command-line and then using the same API from other clients, users should be able to take tabular data, formatted according to some general rules, and be able to create a data set in OMERO (stored in OmeroTables) or append to an existing data set both more rows and more columns.

For example:

bin/omero med load --csv ...

API options might could be taken from matplotlib.mlab.csv2rec:

csv2rec(fname, comments='#', skiprows=0, checkrows=0,
  delimiter=',', converterd=None, names=None, missing='', 
  missingd=None, use_mrecords=False)

If the tabular format itself is not sufficient descriptive, some metadata file may be needed. If that's the case, some investigation should be done of possible existing schemas. One example of extended metadata that may be needed is the AAA information for each column. Also for this reason, the initial import should be included in the auditing system.

Note: use of "med" above is subject to decision on the name of the project

Change History (4)

comment:1 Changed 10 years ago by jmoore

  • Description modified (diff)

comment:2 Changed 10 years ago by cxallan

  • Milestone changed from OMERO-Beta4.3 to Unscheduled

comment:3 Changed 8 years ago by agilo

  • Status changed from new to accepted

Updated status, related task in progress

comment:4 Changed 8 years ago by jamoore

  • Resolution set to invalid
  • Status changed from accepted to closed

Closing all specific HIC tasks.

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