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User Story #6309 (new)

Opened 9 years ago

Last modified 4 years ago

Bio-Formats to provide strict and lax validation

Reported by: ajpatterson Owned by:
Priority: minor Milestone: Unscheduled
Component: Bio-Formats Keywords: schema, validator
Cc: jamoore, mlinkert Story Points: n.a.
Sprint: n.a. Importance: n.a.
Total Remaining Time: n.a. Estimated Remaining Time: n.a.

Description (last modified by ajpatterson)

Add support to bio-formats that will allow validation of ome files. As well as reading a completely valid ome structure, include option to find a valid ome structure hidden with other data.

The idea is to add validation code to bio-formats. This will include validation of the structure of the data (is it good ome-xml?), but also validation of the values inside the structure (is the data complete? can I find all the tiff frames needed? does it make sense as an image?). There is a small bit of this in the old online validator but it would be better to re-write it bio-formats. This could then be exposed via bf-tools and also form the backend to a new online validator.

The solution should also cope with embeded ome-xml, e.g. <Foo><OME>...</OME></Foo>

Change History (11)

comment:1 Changed 9 years ago by ajpatterson

  • Description modified (diff)

comment:2 Changed 9 years ago by ajpatterson

  • Component changed from General to Bio-Formats
  • Owner set to mlinkert-x

comment:3 Changed 9 years ago by ajpatterson

  • Cc jmoore added

comment:4 Changed 9 years ago by ajpatterson

  • Milestone changed from Unscheduled to OMERO-Beta4.3.2

Need to consider for validation work in 4.3.2 milestone.

comment:5 Changed 9 years ago by jburel

  • Cc mlinkert-x added
  • Owner mlinkert-x deleted

comment:6 Changed 9 years ago by jburel

  • Milestone changed from OMERO-Beta4.3.2 to Unscheduled

comment:7 Changed 8 years ago by ajpatterson

  • Keywords schema validator added

comment:8 Changed 8 years ago by ajpatterson

  • Milestone changed from Unscheduled to OMERO-5

comment:9 Changed 7 years ago by ajpatterson

  • Description modified (diff)

comment:10 Changed 4 years ago by jamoore

  • Milestone changed from 5.x to Unscheduled

comment:11 Changed 4 years ago by sbesson

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