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The structure of the data models has grown as VIVO has developed. New models, new structures, and new means of accessing the data have been added as required by the growing code. The resulting data layer has grown more complex and more error-prone.
In release 1.5, VIVO added the The RDFService interface, which has increased increases the flexibility of data sources, and promises to allow a more unified view of the knowledge base. However, the transition to RDFService is not complete, and so this adds another layer of complexity to the data issues. New structures have been added, but none removed.
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Source: a combination of union ABox and union TBox
Transition from previous methods
| Note |
|---|
TBD - What are we transitioning from? Check out VIVO-82. |
Semantics have changed: saves code, but may alter some uses.
- Always searches the stack
- OMS are facades with no internal state
- There is no way to set an OMS - set the models instead
- Keeps consistent
prior to ModelAccess | using ModelAccess | |
|---|---|---|
User Accounts Model | ctx.getAttribute("userAccountsOntModel") | ModelAccess.on(ctx).getUserAccountsModel() |
ctx.setAttribute("userAccountsOntModel", model) | ModelAccess.on(ctx).setUserAccountsModel(model) | |
DisplayModel | req.getAttribute("displayOntModel") | ModelAccess.on(req).getDisplayModel() |
session.getAttribute("displayOntModel") | ModelAccess.on(session).getDisplayModel() | |
ctx.getAttribute("displayOntModel") ModelContext.getDisplayModel(ctx) | ModelAccess.on(ctx).getDisplayModel() | |
ctx.setAttribute("displayOntModel", model) ModelContext.setDisplayModel(model, ctx) | ModelAccess.on(ctx).getDisplayModel() | |
req.setAttribute("displayOntModel", model) | ModelAccess.on(req).setDisplayModel(model) | |
"jenaOntModel" | ctx.getAttribute("jenaOntModel") | ModelAccess.on(ctx).getJenaOntModel() |
session.getAttribute("jenaOntModel") | ModelAccess.on(session).getJenaOntModel() | |
req.getAttribute("jenaOntModel") | ModelAccess.on(req).getJenaOntModel() | |
ctx.setAttribute("jenaOntModel", model) | ModelAccess.on(ctx).setOntModel(ModelID.UNION_FULL, model) | |
req.setAttribute("jenaOntModel", model) | ModelAccess.on(req).setOntModel(ModelID.UNION_FULL, model) ModelAccess.on(req).setJenaOntModel(model) | |
"baseOntModel" "assertionsModel" Base Full Model | ModelContext.getBaseOntModel(ctx) ctx.getAttribute("baseOntModel") session.getAttribute("baseOntModel") | ModelAccess.on(ctx).getOntModel(ModelID.BASE_FULL) ModelAccess.on(ctx).getBaseOntModel() |
ModelContext.setBaseOntModel(model, ctx) | ||
"inferenceModel" Inference Full Model | ctx.getAttribute("inferenceOntModel") | ModelAccess.on(ctx).getInferenceOntModel() |
Notes:
"jenaOntModel" is a previous term for the Union Full model. The convenience methods
getJenaOntModel()andsetJenaOntModel(m)support this use."baseOntModel" and "assertionsModel" are both previous terms for the Base Full model. The convenience methods
getBaseOntModel()andsetBaseOntModel(m)support this use.
prior to ModelAccess | using ModelAccess | |
|---|---|---|
ontModelSelector unionOntModelSelector | ModelContext.setOntModelSelector(model, ctx) ModelContext.getUnionOntModelSelector(ctx) ctx.getAttribute("ontModelSelector") ctx.getAttribute("unionOntModelSelector") | no mutator methods ModelAccess.on(ctx).getOntModelSelector() ModelAccess.on(ctx).getUnionOntModelSelector() |
baseOntModelSelector | ctx.getAttribute("baseOntModelSelector") | ModelAccess.on(ctx).getBaseOntModelSelector() |
inferenceOntModelSelector | ctx.getAttribute("inferenceOntModelSelector") | ModelAccess.on(ctx).getInferenceOntModelSelector() |
Notes:
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The default WebappDaoFactory is the one backed by the unionOntModelSelector. On the request level, this is also known as the "fullWebappDaoFactory". The convenience methodsgetWebappDaoFactory() and setWebappDaoFactory(wdf) support this use.
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"baseWebappDaoFactory" and "assertionsWebappDaoFactory" are both previous terms for the WebappDaoFactory backed by the baseOntModelSelector. The convenience methods getBaseWebappDaoFactory() and setBaseWebappDaoFactory(wdf) support this use.
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