|
||||||||||
PREV CLASS NEXT CLASS | FRAMES NO FRAMES | |||||||||
SUMMARY: NESTED | FIELD | CONSTR | METHOD | DETAIL: FIELD | CONSTR | METHOD |
java.lang.Objectorg.biojava.ontology.io.OboParser
public class OboParser
Parses an OBO file.
OboParser parser = new OboParser(); InputStream inStream = this.getClass().getResourceAsStream("/files/ontology/biosapiens.obo"); BufferedReader oboFile = new BufferedReader ( new InputStreamReader ( inStream ) ); try { Ontology ontology = parser.parseOBO(oboFile, "BioSapiens", "the BioSapiens ontology"); Set keys = ontology.getTerms(); Iterator iter = keys.iterator(); while (iter.hasNext()){ System.out.println(iter.next()); } } catch (Exception e){ e.printStackTrace(); }
Constructor Summary | |
---|---|
OboParser()
|
Method Summary | |
---|---|
Ontology |
parseOBO(java.io.BufferedReader oboFile,
java.lang.String ontoName,
java.lang.String ontoDescription)
Parse a OBO file and return its content as a BioJava Ontology object |
Methods inherited from class java.lang.Object |
---|
clone, equals, finalize, getClass, hashCode, notify, notifyAll, toString, wait, wait, wait |
Constructor Detail |
---|
public OboParser()
Method Detail |
---|
public Ontology parseOBO(java.io.BufferedReader oboFile, java.lang.String ontoName, java.lang.String ontoDescription) throws ParseException, java.io.IOException
oboFile
- the file to be parsedontoName
- ontoDescription
-
ParseException
java.io.IOException
|
||||||||||
PREV CLASS NEXT CLASS | FRAMES NO FRAMES | |||||||||
SUMMARY: NESTED | FIELD | CONSTR | METHOD | DETAIL: FIELD | CONSTR | METHOD |