Migrate OME-XML changes

[mhiner-x]

Various ome.xml packages contain updated classes supporting the desired new OME-XML structure.

These classes will have to be migrated, and assessed for need of delegator classes to preserve legacy backwards compatibility.

[mhiner-x]

Because there are still active, non-delegating classes in the loci.formats package within the SCIFIO component, and those classes have dependencies on the Metadata-related classes that need to be migrated to the OME-XML component, we will not be completely restructuring the dependency hierarchy at this point. (as a circular dependency between OME-XML and SCIFIO would be introduced)


Instead, the relevant Metadata classes/code will be extracted and put into appropriate packages within the SCIFIO component itself. When conversion of loci.formats is complete, loci.formats will move to Bio-Formats-Legacy and this ome.xml code within SCIFIO can migrate to the OME-XML component as intended.


The final hierarchy will thus be:


Bio-Formats-Legacy

|

OME-XML

|

SCIFIO


As opposed to the current:


Bio-Formats-Legacy

|

SCIFIO

|

OME-XML

[mhiner-x]

As these changes will require updates to auto-generated classes, the xsd-fu script that generates many of the ome.xml.Metadata classes will also need to be updated.

Changes will be made on the branch: ​scifio-updates

[mhiner-x]

We will no longer be migrating the SCIFIO code directly into the Bio-Formats source. Instead they will be added as dependencies.