@Override public void traverse(IntactObject intactObject, IntactVisitor... visitors) { if (intactObject instanceof Institution) { return; } super.traverse(intactObject, visitors); }
protected void traverse(Collection<? extends IntactObject> objs, IntactVisitor[] visitors) { if (objs == null || objs.isEmpty()) { return; } for (IntactObject obj : objs) { traverse(obj, visitors); } previousHierarchyLevel(); }
protected void traverseAnnotatedObjectCommon(AnnotatedObject ao, IntactVisitor ... visitors) { traverse(ao.getAnnotations(), visitors); traverse(ao.getAliases(), visitors); traverse(ao.getXrefs(), visitors); // check if this element has been traversed already, to avoid cyclic recursion if (recursionChecker.isAlreadyTraversed(ao)) { return; } traverse(ao.getOwner(), visitors); }
protected void traverseExperiment(Experiment experiment, IntactVisitor ... visitors) { if (experiment == null) return; for (IntactVisitor visitor : visitors) { visitor.visitExperiment(experiment); } // check if this element has been traversed already, to avoid cyclic recursion if (recursionChecker.isAlreadyTraversed(experiment)) { return; } traverse(experiment.getCvIdentification(), visitors); traverse(experiment.getCvInteraction(), visitors); traverse(experiment.getBioSource(), visitors); traverse(experiment.getPublication(), visitors); traverse(experiment.getInteractions(), visitors); }
protected void traversePublication(Publication publication, IntactVisitor ... visitors) { if (publication == null) return; for (IntactVisitor visitor : visitors) { visitor.visitPublication(publication); traverse(publication.getExperiments(), visitors); } }
/** * Prints an IntactObject recursively * @param intactObject * @param ps */ public static void printIntactObject(IntactObject intactObject, PrintStream ps) { DefaultTraverser traverser = new DefaultTraverser(); traverser.traverse(intactObject, new PrintVisitor(ps)); }
protected void traverseAnnotation(Annotation annotation, IntactVisitor... visitors) { if (annotation == null) return; for (IntactVisitor visitor : visitors) { visitor.visitAnnotation(annotation); } // check if this element has been traversed already, to avoid cyclic recursion if (recursionChecker.isAlreadyTraversed(annotation)) { return; } traverse(annotation.getCvTopic(), visitors); traverse(annotation.getOwner(), visitors); }
protected void traverseAnnotation(Annotation annotation, IntactVisitor... visitors) { if (annotation == null) return; for (IntactVisitor visitor : visitors) { visitor.visitAnnotation(annotation); } // check if this element has been traversed already, to avoid cyclic recursion if (recursionChecker.isAlreadyTraversed(annotation)) { return; } traverse(annotation.getCvTopic(), visitors); traverse(annotation.getOwner(), visitors); }
protected void traverseAlias(Alias alias, IntactVisitor... visitors) { if (alias == null) return; for (IntactVisitor visitor : visitors) { visitor.visitAlias(alias); } // check if this element has been traversed already, to avoid cyclic recursion if (recursionChecker.isAlreadyTraversed(alias)) { return; } traverse(alias.getCvAliasType(), visitors); traverse(alias.getOwner(), visitors); }
protected void traverseBioSource(BioSource bioSource, IntactVisitor ... visitors) { if (bioSource == null) return; for (IntactVisitor visitor : visitors) { visitor.visitBioSource(bioSource); } // check if this element has been traversed already, to avoid cyclic recursion if (recursionChecker.isAlreadyTraversed(bioSource)) { return; } traverse(bioSource.getCvCellType(), visitors); traverse(bioSource.getCvTissue(), visitors); }
protected void traverseInteractor(Interactor interactor, IntactVisitor ... visitors) { if (interactor == null) return; for (IntactVisitor visitor : visitors) { visitor.visitInteractor(interactor); } // check if this element has been traversed already, to avoid cyclic recursion if (recursionChecker.isAlreadyTraversed(interactor)) { return; } traverse(interactor.getCvInteractorType(), visitors); traverse(interactor.getBioSource(), visitors); }
protected void traverseRange(Range range, IntactVisitor... visitors) { if (range == null) return; for (IntactVisitor visitor : visitors) { visitor.visitRange(range); } // check if this element has been traversed already, to avoid cyclic recursion if (recursionChecker.isAlreadyTraversed(range)) { return; } traverse(range.getFromCvFuzzyType(), visitors); traverse(range.getToCvFuzzyType(), visitors); }
protected void traverseParameter(Parameter parameter, IntactVisitor... visitors) { if (parameter == null) return; for (IntactVisitor visitor : visitors) { visitor.visitParameter(parameter); } // check if this element has been traversed already, to avoid cyclic recursion if (recursionChecker.isAlreadyTraversed(parameter)) { return; } traverse(parameter.getCvParameterType(), visitors); traverse(parameter.getCvParameterUnit(), visitors); }
protected void traverseInteractor(Interactor interactor, IntactVisitor ... visitors) { if (interactor == null) return; for (IntactVisitor visitor : visitors) { visitor.visitInteractor(interactor); } // check if this element has been traversed already, to avoid cyclic recursion if (recursionChecker.isAlreadyTraversed(interactor)) { return; } traverse(interactor.getCvInteractorType(), visitors); traverse(interactor.getBioSource(), visitors); }
protected void traversePublication(Publication publication, IntactVisitor ... visitors) { if (publication == null) return; for (IntactVisitor visitor : visitors) { visitor.visitPublication(publication); traverse(publication.getExperiments(), visitors); } }
protected void traverseAlias(Alias alias, IntactVisitor... visitors) { if (alias == null) return; for (IntactVisitor visitor : visitors) { visitor.visitAlias(alias); } // check if this element has been traversed already, to avoid cyclic recursion if (recursionChecker.isAlreadyTraversed(alias)) { return; } traverse(alias.getCvAliasType(), visitors); traverse(alias.getOwner(), visitors); }
protected void traverseParameter(Parameter parameter, IntactVisitor... visitors) { if (parameter == null) return; for (IntactVisitor visitor : visitors) { visitor.visitParameter(parameter); } // check if this element has been traversed already, to avoid cyclic recursion if (recursionChecker.isAlreadyTraversed(parameter)) { return; } traverse(parameter.getCvParameterType(), visitors); traverse(parameter.getCvParameterUnit(), visitors); }
/** * Prints an IntactObject recursively * @param intactObject * @param ps */ public static void printIntactObject(IntactObject intactObject, PrintStream ps) { DefaultTraverser traverser = new DefaultTraverser(); traverser.traverse(intactObject, new PrintVisitor(ps)); }
protected void traverseConfidence(Confidence confidence, IntactVisitor... visitors) { if (confidence == null) return; for (IntactVisitor visitor : visitors) { visitor.visitConfidence(confidence); } // check if this element has been traversed already, to avoid cyclic recursion if (recursionChecker.isAlreadyTraversed(confidence)) { return; } traverse(confidence.getCvConfidenceType(), visitors); }
protected void traverseConfidence(Confidence confidence, IntactVisitor... visitors) { if (confidence == null) return; for (IntactVisitor visitor : visitors) { visitor.visitConfidence(confidence); } // check if this element has been traversed already, to avoid cyclic recursion if (recursionChecker.isAlreadyTraversed(confidence)) { return; } traverse(confidence.getCvConfidenceType(), visitors); }