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Changes For September 2009

The list of the key changes for the September 2009 major release of the ome-xml data model.

The new major release of the schema has a new namespace and all version numbers are reset to 1. As a major release, any file that validated correctly using the last major release will probably not validate correctly using this new release. Some files that failed to validate before will now be valid. It is important to update any file readers and writers to understand the changes.

Version

  • The version number of all schema files is now 1.

Namespace

This schema uses the new namespace 

http://www.openmicroscopy.org/Schemas/[NameSpaceTitle]/2009-09/

For the OME schema 

http://www.openmicroscopy.org/Schemas/OME/2009-09/

and that the schema file will be located at 

http://www.openmicroscopy.org/Schemas/OME/2009-09/ome.xsd

Overview of Changes

  • Full auto-generated documentation for the schema is available at OME-2009-09

  • There will be an additional Schema file ROI.xsd

This provides support for the new version of the ROI objects. These were moved from the OME namespace to there own namespace and the objects updated to be simpler and more consistent. Existing ROI's can be updated to the new structure.

  • Some support for ROIs in OMERO.xsd has moved to be part of the full schema in ROI.xsd

  • Move MicrobeamManipulation from Image to Experiment.

At present MicrobeamManipulation is stored directly under an Image with a link to an Experiment. The structure this produces is too flexible and allow loops of references to be created. It is proposed that we move all the MicrobeamManipulation objects to be located under the Experiment and replace them in each Image with zero or more MicrobeamManipulationRef objects. This also allows one MicrobeamManipulation operation to be used in more than one Image.

  • Rework ROI in MicrobeamManipulation and in Image with its movement to the top level OME element.

As a separate issue to above the ROIs used by the MicrobeamManipulation as a Ref and stored in Image have been moved to the top level. This allows reuse of the ROI in more than one Image.

  • Merging of LogicalChannel and ChannelComponent into the new Channel.

  • Additional keys and indexes to enforce valid IDs and References, listed in the OME:OME element.

  • Support for the AnalysisModuleLibrary used by the original OME server has been removed.

  • Support for the DisplayOptions used by the original OME server has been removed.

  • Support for the Region used by the original OME server has been removed.

  • All description elements and attributes have become simple description elements based on xsd::string that preserve white space.

  • The direction of all annotation links have been reversed. Now objects in the model link to annotations, not the other way around.

  • Where possible values that are singular are now an attribute of an element and values that can be multiple are child elements of an element.

  • Units are now specified in the schema annotations.

  • Pixels now link to Channel.

  • It is now possible to define valid MetadataOnly files.

  • There is a large number of general changes and updates as part of a major clean up of the types and names used in the schema to facilitate code generation direct from the schema.

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