Package | Description |
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org.sbolstandard.core2 | |
org.synbiohub.frontend |
Modifier and Type | Method and Description |
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SBOLDocument |
SBOLDocument.changeURIPrefixVersion(String URIPrefix,
String version)
Copy all objects to an a new SBOL Document and change the URI prefix/version of each object
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static SBOLDocument |
SBOLFactory.createRecursiveCopy(TopLevel topLevel)
Creates an identical copy of the given top-level and returns it in
a new SBOL document.
|
SBOLDocument |
SBOLDocument.createRecursiveCopy(TopLevel topLevel)
Creates an identical copy of the given top-level and returns it in
a new SBOLDocument.
|
SBOLDocument |
TopLevel.getDocument()
Returns the SBOL document that hosts this top-level.
|
static SBOLDocument |
SBOLReader.read(File file)
Parses the given RDF file and stores its contents in an SBOLDocument object.
|
static SBOLDocument |
SBOLReader.read(InputStream in)
Takes in a given RDF InputStream and converts the file to an SBOLDocument.
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static SBOLDocument |
SBOLReader.read(InputStream in,
String fileType)
Takes in a given InputStream and fileType, and convert the file to an SBOLDocument.
|
static SBOLDocument |
SBOLReader.read(String fileName)
Takes in the given RDF filename and converts the file to an SBOLDocument.
|
Modifier and Type | Method and Description |
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static void |
SBOLValidate.compareDocuments(String file1,
SBOLDocument doc1,
String file2,
SBOLDocument doc2)
Compares the given two SBOL documents and outputs the "standard" error output stream (System.err).
|
static void |
SBOLFactory.createCopy(SBOLDocument document)
Creates an identical copy of each top-level element of the given SBOL document, and then adds the created top-level to the corresponding
list of top-levels in the factory's internal SBOL document.
|
void |
SBOLDocument.createCopy(SBOLDocument document)
Creates an identical copy of each top-level element of a document, and then adds the created top-level to the corresponding
list of top-levels in this SBOL document.
|
static void |
SBOLFactory.setSBOLDocument(SBOLDocument sbolDocument)
Sets the internal SBOL document used by the factory to the given one.
|
static void |
SBOLValidate.validateSBOL(SBOLDocument sbolDocument,
boolean complete,
boolean compliant,
boolean bestPractice)
Validates the given SBOL document.
|
static void |
SBOLWriter.write(SBOLDocument doc,
File file)
Outputs the given SBOL document's data from the RDF/XML serialization to the given file.
|
static void |
SBOLWriter.write(SBOLDocument doc,
File file,
String fileType)
Outputs this SBOL document's data from the serialization in the given serialization format
to the given file.
|
static void |
SBOLWriter.write(SBOLDocument doc,
OutputStream out)
Outputs this SBOL document's data from the RDF/XML serialization to the given output stream.
|
static void |
SBOLWriter.write(SBOLDocument doc,
OutputStream out,
String fileType)
Serializes a given SBOLDocument and outputs the data from the serialization to the given output stream
in the specified fileType format.
|
static void |
SBOLWriter.write(SBOLDocument doc,
String filename)
Outputs this SBOL document's data from the RDF/XML serialization to a new file with the given file name.
|
static void |
SBOLWriter.write(SBOLDocument doc,
String filename,
String fileType)
Outputs this SBOL document's data from serialization in the given serialization format
to a new file with the given file name.
|
Modifier and Type | Method and Description |
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SBOLDocument |
SynBioHubFrontend.getSBOL(URI topLevelUri)
Retrieve SBOL TopLevel object from a SynBioHub instance using its URI.
|
Modifier and Type | Method and Description |
---|---|
void |
SynBioHubFrontend.removeRegistryParts(SBOLDocument document)
Remove all parts from this registry from a given SBOL document
|
void |
SynBioHubFrontend.submit(String id,
String version,
String name,
String description,
String citations,
String collections,
String overwrite_merge,
SBOLDocument document)
Submit to the SynBioHub.
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