Examples of org.biojava.bio.BioError

org.biojava.bio.BioError
A nestable biological error. Catch this whenever it, or one of it's sub-classes are thrown and you know what to do once you've got it. Note: in general, you should not be catching errors. However, there are cases where it is necisary e.g. for logging. You will nearly always want to either re-throw the Error, throw a new Error or exit the current thread. Throw this when something has gone wrong and in general people should not be handeling it. @author Matthew Pocock @since 1.0

          return onto.createTriple(st, tt, rt, null, null);
        } else {
          return onto.createTerm(termName, "");
        }
      } catch (AlreadyExistsException aee) {
        throw new BioError("Assertion Failure: Could not create term", aee);
      } catch (ChangeVetoException cve) {
        throw new BioError("Assertion Failure: Could not create term", cve);
      }
    }
  }

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      return (Triple) onto.getTriples(sub, obj, rel).iterator().next();
    } else {
      try {
        return onto.createTriple(sub, obj, rel, null, null);
      } catch (AlreadyExistsException aee) {
        throw new BioError("Assertion Failure: Could not create triple",aee);
      } catch (ChangeVetoException cve) {
        throw new BioError("Assertion Failure: Could not create triple", cve);
      }
    }
  }

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     } catch (AlreadyExistsException ex) {
              throw new ParseException(ex, "Duplication in ontology");
          } catch (OntologyException ex) {
              throw new ParseException(ex);
          } catch (ChangeVetoException ex) {
              throw new BioError("Error accessing newly created ontology",ex);
          }
          
  }

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Related Classes of org.biojava.bio.BioError

org.biojava.ontology.io.OboParser

org.biojava.ontology.io.TabDelimParser

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