add subject and object categories

[nathandunn]

Not all of these will make sense together, or maybe they should be put together with other categories. These can go in 'subject_category' or 'object_category':

"variant" "gene" "disease" "phenotype" "genotype" "pathway" "model"

[nathandunn]

Moved @cmungall comment on #4 . . .

e.g. monarch-disease-phenotype, monarch-disease-gene, ... Just calling it 'monarch-disease' will lead to confusion... unless you make this the union of all object types.. but this could be confusing as the columns may not line up

[nathandunn]

Note: https://wiki.galaxyproject.org/Admin/Tools/ToolConfigSyntax#type_Attribute_Values_and_Dependent_Attributes

For different option types.

[nathandunn]

So, we have subject and object categories for each.

Sometimes the "query" is in the subject_closure (e.g., Gene) and sometimes its in the object_closure.

• Gene -> * (subject_closure)
• Phenotype -> * (object_closure, no object_category)
• Disease -> Phenotype (subject_closure)
• Disease -> Gene (object_closure)

[nathandunn]

I think it will be preferable to do these as a one-off each.