public class BioPAXUtilities
extends java.lang.Object
Constructor and Description |
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BioPAXUtilities() |
Modifier and Type | Method and Description |
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static void |
copyURIwithAllLinks(java.lang.String namespace,
java.lang.String uri,
Model modelfrom,
Model modelto)
Extract a part of model which is necessary to define a things with uri
|
static OntModel |
extractFromModel(Model source,
Graph graph) |
static OntModel |
extractFromModel(Model source,
GraphDocument graph) |
static OntModel |
extractFromModel(Model source,
GraphDocument graph,
java.lang.String namespace,
java.lang.String importString) |
static OntModel |
extractFromModel(Model source,
Graph graph,
java.lang.String namespace,
java.lang.String importString)
From all elements in graph BIOPAX_URI attribute values are used to extract a part of the source
|
static OntModel |
extractFromModel(Model source,
java.util.Vector ids,
java.lang.String namespace,
java.lang.String importString) |
static Model |
extractURIwithAllLinks(Model source,
java.util.Vector uris,
java.lang.String namespace,
java.lang.String importString)
Extract a part of model which is necessary to define all things with uris
|
static java.lang.String |
getDefaultNsPrefix(Model source) |
static java.lang.String |
getPhysicalEntityType(PhysicalEntity ent) |
static java.lang.String |
getResourceType(Resource res) |
static Model |
loadModel(java.lang.String fn,
java.lang.String namespaceString,
java.lang.String importString)
Load the OWL model from file
|
static Model |
makeCopy(Model source,
java.lang.String namespaceString,
java.lang.String importString)
Clones the source Model
|
static int |
numberOfStatements(com.ibm.adtech.jastor.Thing thing) |
static int |
numberOfStatements(Model source) |
static void |
saveModel(Model model,
java.lang.String fn) |
static void |
saveModel(Model model,
java.lang.String fn,
java.lang.String biopaxString)
Save OWL model to the file
|
public static int numberOfStatements(com.ibm.adtech.jastor.Thing thing)
thing
- public static int numberOfStatements(Model source)
public static Model extractURIwithAllLinks(Model source, java.util.Vector uris, java.lang.String namespace, java.lang.String importString) throws java.lang.Exception
source
- uris
- namespace
- importString
- java.lang.Exception
public static void copyURIwithAllLinks(java.lang.String namespace, java.lang.String uri, Model modelfrom, Model modelto) throws java.lang.Exception
namespace
- uri
- modelfrom
- modelto
- java.lang.Exception
public static void saveModel(Model model, java.lang.String fn, java.lang.String biopaxString) throws java.lang.Exception
model
- fn
- biopaxString
- java.lang.Exception
public static void saveModel(Model model, java.lang.String fn) throws java.lang.Exception
java.lang.Exception
public static Model loadModel(java.lang.String fn, java.lang.String namespaceString, java.lang.String importString) throws java.lang.Exception
fn
- namespaceString
- importString
- java.lang.Exception
public static Model makeCopy(Model source, java.lang.String namespaceString, java.lang.String importString)
source
- namespaceString
- importString
- public static OntModel extractFromModel(Model source, Graph graph, java.lang.String namespace, java.lang.String importString) throws java.lang.Exception
source
- graph
- namespace
- importString
- java.lang.Exception
public static OntModel extractFromModel(Model source, Graph graph) throws java.lang.Exception
java.lang.Exception
public static OntModel extractFromModel(Model source, java.util.Vector ids, java.lang.String namespace, java.lang.String importString) throws java.lang.Exception
java.lang.Exception
public static OntModel extractFromModel(Model source, GraphDocument graph, java.lang.String namespace, java.lang.String importString) throws java.lang.Exception
java.lang.Exception
public static OntModel extractFromModel(Model source, GraphDocument graph) throws java.lang.Exception
java.lang.Exception
public static java.lang.String getDefaultNsPrefix(Model source)
public static java.lang.String getResourceType(Resource res)
public static java.lang.String getPhysicalEntityType(PhysicalEntity ent)