public void test_RDFAnnotation_C_parseCVTerms()
{
SBase obj = m.getCompartment(0);
XMLNode node = RDFAnnotationParser.parseCVTerms(obj);
assertTrue(node.getNumChildren() == 1);
XMLNode rdf = node.getChild(0);
assertTrue(("RDF" == rdf.getName()));
assertTrue(("rdf" == rdf.getPrefix()));
assertTrue(("http://www.w3.org/1999/02/22-rdf-syntax-ns#" == rdf.getURI()));
assertTrue(rdf.getNumChildren() == 1);
XMLNode desc = rdf.getChild(0);
assertTrue(("Description" == desc.getName()));
assertTrue(("rdf" == desc.getPrefix()));
assertTrue(("http://www.w3.org/1999/02/22-rdf-syntax-ns#" == desc.getURI()));
assertTrue(desc.getNumChildren() == 1);
XMLNode is1 = desc.getChild(0);
assertTrue(("is" == is1.getName()));
assertTrue(("bqbiol" == is1.getPrefix()));
assertTrue(is1.getNumChildren() == 1);
XMLNode Bag = is1.getChild(0);
assertTrue(("Bag" == Bag.getName()));
assertTrue(("rdf" == Bag.getPrefix()));
assertTrue(("http://www.w3.org/1999/02/22-rdf-syntax-ns#" == Bag.getURI()));
assertTrue(Bag.getNumChildren() == 4);
XMLNode li = Bag.getChild(0);
assertTrue(("li" == li.getName()));
assertTrue(("rdf" == li.getPrefix()));
assertTrue(("http://www.w3.org/1999/02/22-rdf-syntax-ns#" == li.getURI()));
assertTrue(li.getNumChildren() == 0);
XMLNode li1 = Bag.getChild(1);
assertTrue(("li" == li1.getName()));
assertTrue(("rdf" == li1.getPrefix()));
assertTrue(("http://www.w3.org/1999/02/22-rdf-syntax-ns#" == li1.getURI()));
assertTrue(li1.getNumChildren() == 0);
XMLNode li2 = Bag.getChild(2);
assertTrue(("li" == li2.getName()));
assertTrue(("rdf" == li2.getPrefix()));
assertTrue(("http://www.w3.org/1999/02/22-rdf-syntax-ns#" == li2.getURI()));
assertTrue(li2.getNumChildren() == 0);
XMLNode li3 = Bag.getChild(3);
assertTrue(("li" == li3.getName()));
assertTrue(("rdf" == li3.getPrefix()));
assertTrue(("http://www.w3.org/1999/02/22-rdf-syntax-ns#" == li3.getURI()));
assertTrue(li3.getNumChildren() == 0);
node = null;
}
public void test_XMLNode_getChildForName()
{
string xmlstr = "<annotation>\n" + " <test xmlns=\"http://test.org/\" id=\"test\">test</test>\n" + "</annotation>";
XMLNode node = new XMLNode();
XMLNode annotation = node.getChild("test");
string name = annotation.getName();
assertTrue(name == "");
node = null;
node = XMLNode.convertStringToXMLNode(xmlstr, null);
annotation = node.getChild("test");
assertTrue(("test" != annotation.getName()) == false);
node = null;
}
public void test_XMLNode_createFromToken()
{
XMLToken token;
XMLTriple triple;
XMLNode node;
triple = new XMLTriple("attr", "uri", "prefix");
token = new XMLToken(triple);
node = new XMLNode(token);
assertTrue(node != null);
assertTrue(node.getNumChildren() == 0);
assertTrue(("attr" != node.getName()) == false);
assertTrue(("prefix" != node.getPrefix()) == false);
assertTrue(("uri" != node.getURI()) == false);
assertTrue(node.getChild(1) != null);
token = null;
triple = null;
node = null;
}
public void test_XMLNode_getters()
{
XMLToken token;
XMLNode node;
XMLTriple triple;
XMLAttributes attr;
XMLNamespaces NS;
NS = new XMLNamespaces();
NS.add("http://test1.org/", "test1");
token = new XMLToken("This is a test");
node = new XMLNode(token);
assertTrue(node != null);
assertTrue(node.getNumChildren() == 0);
assertTrue(("This is a test" != node.getCharacters()) == false);
assertTrue(node.getChild(1) != null);
attr = new XMLAttributes();
assertTrue(attr != null);
attr.add("attr2", "value");
triple = new XMLTriple("attr", "uri", "prefix");
token = new XMLToken(triple, attr);
assertTrue(token != null);
node = new XMLNode(token);
assertTrue(("attr" != node.getName()) == false);
assertTrue(("uri" != node.getURI()) == false);
assertTrue(("prefix" != node.getPrefix()) == false);
XMLAttributes returnattr = node.getAttributes();
assertTrue(("attr2" != returnattr.getName(0)) == false);
assertTrue(("value" != returnattr.getValue(0)) == false);
token = new XMLToken(triple, attr, NS);
node = new XMLNode(token);
XMLNamespaces returnNS = node.getNamespaces();
assertTrue(returnNS.getLength() == 1);
assertTrue(returnNS.isEmpty() == false);
triple = null;
token = null;
node = null;
}
public void test_L3ModelHistory_parseModelHistory_Model()
{
XMLNode node = RDFAnnotationParser.parseModelHistory(m);
assertTrue(node.getNumChildren() == 1);
XMLNode rdf = node.getChild(0);
assertTrue(("RDF" == rdf.getName()));
assertTrue(("rdf" == rdf.getPrefix()));
assertTrue(("http://www.w3.org/1999/02/22-rdf-syntax-ns#" == rdf.getURI()));
assertTrue(rdf.getNumChildren() == 1);
XMLNode desc = rdf.getChild(0);
assertTrue(("Description" == desc.getName()));
assertTrue(("rdf" == desc.getPrefix()));
assertTrue(("http://www.w3.org/1999/02/22-rdf-syntax-ns#" == desc.getURI()));
assertTrue(desc.getNumChildren() == 4);
XMLNode creator = desc.getChild(0);
assertTrue(("creator" == creator.getName()));
assertTrue(("dcterms" == creator.getPrefix()));
assertTrue(creator.getNumChildren() == 1);
XMLNode Bag = creator.getChild(0);
assertTrue(("Bag" == Bag.getName()));
assertTrue(("rdf" == Bag.getPrefix()));
assertTrue(("http://www.w3.org/1999/02/22-rdf-syntax-ns#" == Bag.getURI()));
assertTrue(Bag.getNumChildren() == 1);
XMLNode li = Bag.getChild(0);
assertTrue(("li" == li.getName()));
assertTrue(("rdf" == li.getPrefix()));
assertTrue(("http://www.w3.org/1999/02/22-rdf-syntax-ns#" == li.getURI()));
assertTrue(li.getNumChildren() == 3);
XMLNode N = li.getChild(0);
assertTrue(("N" == N.getName()));
assertTrue(("vCard" == N.getPrefix()));
assertTrue(("http://www.w3.org/2001/vcard-rdf/3.0#" == N.getURI()));
assertTrue(N.getNumChildren() == 2);
XMLNode Family = N.getChild(0);
assertTrue(("Family" == Family.getName()));
assertTrue(("vCard" == Family.getPrefix()));
assertTrue(("http://www.w3.org/2001/vcard-rdf/3.0#" == Family.getURI()));
assertTrue(Family.getNumChildren() == 1);
XMLNode Given = N.getChild(1);
assertTrue(("Given" == Given.getName()));
assertTrue(("vCard" == Given.getPrefix()));
assertTrue(("http://www.w3.org/2001/vcard-rdf/3.0#" == Given.getURI()));
assertTrue(Given.getNumChildren() == 1);
XMLNode EMAIL = li.getChild(1);
assertTrue(("EMAIL" == EMAIL.getName()));
assertTrue(("vCard" == EMAIL.getPrefix()));
assertTrue(("http://www.w3.org/2001/vcard-rdf/3.0#" == EMAIL.getURI()));
assertTrue(EMAIL.getNumChildren() == 1);
XMLNode ORG = li.getChild(2);
assertTrue(("ORG" == ORG.getName()));
assertTrue(("vCard" == ORG.getPrefix()));
assertTrue(("http://www.w3.org/2001/vcard-rdf/3.0#" == ORG.getURI()));
assertTrue(ORG.getNumChildren() == 1);
XMLNode Orgname = ORG.getChild(0);
assertTrue(("Orgname" == Orgname.getName()));
assertTrue(("vCard" == Orgname.getPrefix()));
assertTrue(("http://www.w3.org/2001/vcard-rdf/3.0#" == Orgname.getURI()));
assertTrue(Orgname.getNumChildren() == 1);
XMLNode created = desc.getChild(1);
assertTrue(("created" == created.getName()));
assertTrue(("dcterms" == created.getPrefix()));
assertTrue(("http://purl.org/dc/terms/" == created.getURI()));
assertTrue(created.getNumChildren() == 1);
XMLNode cr_date = created.getChild(0);
assertTrue(("W3CDTF" == cr_date.getName()));
assertTrue(("dcterms" == cr_date.getPrefix()));
assertTrue(("http://purl.org/dc/terms/" == cr_date.getURI()));
assertTrue(cr_date.getNumChildren() == 1);
XMLNode modified = desc.getChild(2);
assertTrue(("modified" == modified.getName()));
assertTrue(("dcterms" == modified.getPrefix()));
assertTrue(("http://purl.org/dc/terms/" == modified.getURI()));
assertTrue(modified.getNumChildren() == 1);
XMLNode mo_date = created.getChild(0);
assertTrue(("W3CDTF" == mo_date.getName()));
assertTrue(("dcterms" == mo_date.getPrefix()));
assertTrue(("http://purl.org/dc/terms/" == mo_date.getURI()));
assertTrue(mo_date.getNumChildren() == 1);
node = null;
}
public void test_RDFAnnotation_parseCVTerms()
{
XMLNode node = RDFAnnotationParser.parseCVTerms(m.getCompartment(0));
assertTrue(node.getNumChildren() == 1);
XMLNode rdf = node.getChild(0);
assertTrue(("RDF" == rdf.getName()));
assertTrue(("rdf" == rdf.getPrefix()));
assertTrue(("http://www.w3.org/1999/02/22-rdf-syntax-ns#" == rdf.getURI()));
assertTrue(rdf.getNumChildren() == 1);
XMLNode desc = rdf.getChild(0);
assertTrue(("Description" == desc.getName()));
assertTrue(("rdf" == desc.getPrefix()));
assertTrue(("http://www.w3.org/1999/02/22-rdf-syntax-ns#" == desc.getURI()));
assertTrue(desc.getNumChildren() == 1);
XMLNode is1 = desc.getChild(0);
assertTrue(("is" == is1.getName()));
assertTrue(("bqbiol" == is1.getPrefix()));
assertTrue(is1.getNumChildren() == 1);
XMLNode Bag = is1.getChild(0);
assertTrue(("Bag" == Bag.getName()));
assertTrue(("rdf" == Bag.getPrefix()));
assertTrue(("http://www.w3.org/1999/02/22-rdf-syntax-ns#" == Bag.getURI()));
assertTrue(Bag.getNumChildren() == 4);
XMLNode li = Bag.getChild(0);
assertTrue(("li" == li.getName()));
assertTrue(("rdf" == li.getPrefix()));
assertTrue(("http://www.w3.org/1999/02/22-rdf-syntax-ns#" == li.getURI()));
assertTrue(li.getNumChildren() == 0);
XMLNode li1 = Bag.getChild(1);
assertTrue(("li" == li1.getName()));
assertTrue(("rdf" == li1.getPrefix()));
assertTrue(("http://www.w3.org/1999/02/22-rdf-syntax-ns#" == li1.getURI()));
assertTrue(li1.getNumChildren() == 0);
XMLNode li2 = Bag.getChild(2);
assertTrue(("li" == li2.getName()));
assertTrue(("rdf" == li2.getPrefix()));
assertTrue(("http://www.w3.org/1999/02/22-rdf-syntax-ns#" == li2.getURI()));
assertTrue(li2.getNumChildren() == 0);
XMLNode li3 = Bag.getChild(3);
assertTrue(("li" == li3.getName()));
assertTrue(("rdf" == li3.getPrefix()));
assertTrue(("http://www.w3.org/1999/02/22-rdf-syntax-ns#" == li3.getURI()));
assertTrue(li3.getNumChildren() == 0);
node = null;
XMLNode node1 = RDFAnnotationParser.parseCVTerms(null);
assertTrue(node1 == null);
node1 = RDFAnnotationParser.createCVTerms(null);
assertTrue(node1 == null);
node1 = RDFAnnotationParser.parseCVTerms(m.getCompartment(2));
assertTrue(node1 == null);
node1 = RDFAnnotationParser.createCVTerms(m.getCompartment(2));
assertTrue(node1 == null);
node1 = RDFAnnotationParser.parseCVTerms(m);
assertTrue(node1 == null);
node1 = RDFAnnotationParser.createCVTerms(m);
assertTrue(node1 == null);
Compartment c = new Compartment(3, 1);
c.setMetaId("_002");
node1 = RDFAnnotationParser.parseCVTerms(c);
assertTrue(node1 == null);
node1 = RDFAnnotationParser.createCVTerms(c);
assertTrue(node1 == null);
CVTerm cv = new CVTerm(libsbml.BIOLOGICAL_QUALIFIER);
cv.setBiologicalQualifierType(23);
cv.addResource("http://myres");
c.addCVTerm(cv);
node1 = RDFAnnotationParser.createCVTerms(c);
assertTrue(node1 == null);
c = null;
Model m1 = new Model(3, 1);
m1.setMetaId("_002");
cv = new CVTerm(libsbml.MODEL_QUALIFIER);
cv.setModelQualifierType(23);
cv.addResource("http://myres");
m1.addCVTerm(cv);
node1 = RDFAnnotationParser.createCVTerms(m1);
assertTrue(node1 == null);
}
public void test_XMLNode_remove()
{
XMLAttributes attr = new XMLAttributes();
XMLTriple trp_p = new XMLTriple("parent", "", "");
XMLTriple trp_c1 = new XMLTriple("child1", "", "");
XMLTriple trp_c2 = new XMLTriple("child2", "", "");
XMLTriple trp_c3 = new XMLTriple("child3", "", "");
XMLTriple trp_c4 = new XMLTriple("child4", "", "");
XMLTriple trp_c5 = new XMLTriple("child5", "", "");
XMLNode p = new XMLNode(trp_p, attr);
XMLNode c1 = new XMLNode(trp_c1, attr);
XMLNode c2 = new XMLNode(trp_c2, attr);
XMLNode c3 = new XMLNode(trp_c3, attr);
XMLNode c4 = new XMLNode(trp_c4, attr);
XMLNode c5 = new XMLNode(trp_c5, attr);
XMLNode r;
p.addChild(c1);
p.addChild(c2);
p.addChild(c3);
p.addChild(c4);
p.addChild(c5);
r = p.removeChild(5);
assertTrue(r == null);
r = p.removeChild(1);
assertTrue(p.getNumChildren() == 4);
assertTrue(("child2" != r.getName()) == false);
r = null;
r = p.removeChild(3);
assertTrue(p.getNumChildren() == 3);
assertTrue(("child5" != r.getName()) == false);
r = null;
r = p.removeChild(0);
assertTrue(p.getNumChildren() == 2);
assertTrue(("child1" != r.getName()) == false);
r = null;
r = p.removeChild(1);
assertTrue(p.getNumChildren() == 1);
assertTrue(("child4" != r.getName()) == false);
r = null;
r = p.removeChild(0);
assertTrue(p.getNumChildren() == 0);
assertTrue(("child3" != r.getName()) == false);
r = null;
p.addChild(c1);
p.addChild(c2);
p.addChild(c3);
p.addChild(c4);
p.addChild(c5);
r = p.removeChild(4);
assertTrue(p.getNumChildren() == 4);
assertTrue(("child5" != r.getName()) == false);
r = null;
r = p.removeChild(3);
assertTrue(p.getNumChildren() == 3);
assertTrue(("child4" != r.getName()) == false);
r = null;
r = p.removeChild(2);
assertTrue(p.getNumChildren() == 2);
assertTrue(("child3" != r.getName()) == false);
r = null;
r = p.removeChild(1);
assertTrue(p.getNumChildren() == 1);
assertTrue(("child2" != r.getName()) == false);
r = null;
r = p.removeChild(0);
assertTrue(p.getNumChildren() == 0);
assertTrue(("child1" != r.getName()) == false);
r = null;
p.addChild(c1);
p.addChild(c2);
p.addChild(c3);
p.addChild(c4);
p.addChild(c5);
r = p.removeChild(0);
assertTrue(p.getNumChildren() == 4);
assertTrue(("child1" != r.getName()) == false);
r = null;
r = p.removeChild(0);
assertTrue(p.getNumChildren() == 3);
assertTrue(("child2" != r.getName()) == false);
r = null;
r = p.removeChild(0);
assertTrue(p.getNumChildren() == 2);
assertTrue(("child3" != r.getName()) == false);
r = null;
r = p.removeChild(0);
assertTrue(p.getNumChildren() == 1);
assertTrue(("child4" != r.getName()) == false);
r = null;
r = p.removeChild(0);
assertTrue(p.getNumChildren() == 0);
assertTrue(("child5" != r.getName()) == false);
r = null;
p.addChild(c1);
p.addChild(c2);
p.addChild(c3);
p.addChild(c4);
p.addChild(c5);
r = p.removeChild(0);
assertTrue(("child1" != r.getName()) == false);
p.insertChild(0, r);
assertTrue(p.getNumChildren() == 5);
assertTrue(("child1" != p.getChild(0).getName()) == false);
r = null;
r = p.removeChild(1);
assertTrue(("child2" != r.getName()) == false);
p.insertChild(1, r);
assertTrue(p.getNumChildren() == 5);
assertTrue(("child2" != p.getChild(1).getName()) == false);
r = null;
r = p.removeChild(2);
assertTrue(("child3" != r.getName()) == false);
p.insertChild(2, r);
assertTrue(p.getNumChildren() == 5);
assertTrue(("child3" != p.getChild(2).getName()) == false);
r = null;
r = p.removeChild(3);
assertTrue(("child4" != r.getName()) == false);
p.insertChild(3, r);
assertTrue(p.getNumChildren() == 5);
assertTrue(("child4" != p.getChild(3).getName()) == false);
r = null;
r = p.removeChild(4);
assertTrue(("child5" != r.getName()) == false);
p.insertChild(4, r);
assertTrue(p.getNumChildren() == 5);
assertTrue(("child5" != p.getChild(4).getName()) == false);
r = null;
p = null;
c1 = null;
c2 = null;
c3 = null;
c4 = null;
c5 = null;
attr = null;
trp_p = null;
trp_c1 = null;
trp_c2 = null;
trp_c3 = null;
trp_c4 = null;
trp_c5 = null;
}
public void test_XMLNode_insert()
{
XMLAttributes attr = new XMLAttributes();
XMLTriple trp_p = new XMLTriple("parent", "", "");
XMLTriple trp_c1 = new XMLTriple("child1", "", "");
XMLTriple trp_c2 = new XMLTriple("child2", "", "");
XMLTriple trp_c3 = new XMLTriple("child3", "", "");
XMLTriple trp_c4 = new XMLTriple("child4", "", "");
XMLTriple trp_c5 = new XMLTriple("child5", "", "");
XMLNode p = new XMLNode(trp_p, attr);
XMLNode c1 = new XMLNode(trp_c1, attr);
XMLNode c2 = new XMLNode(trp_c2, attr);
XMLNode c3 = new XMLNode(trp_c3, attr);
XMLNode c4 = new XMLNode(trp_c4, attr);
XMLNode c5 = new XMLNode(trp_c5, attr);
p.addChild(c2);
p.addChild(c4);
p.insertChild(0, c1);
p.insertChild(2, c3);
p.insertChild(4, c5);
assertTrue(p.getNumChildren() == 5);
assertTrue(("child1" != p.getChild(0).getName()) == false);
assertTrue(("child2" != p.getChild(1).getName()) == false);
assertTrue(("child3" != p.getChild(2).getName()) == false);
assertTrue(("child4" != p.getChild(3).getName()) == false);
assertTrue(("child5" != p.getChild(4).getName()) == false);
p.removeChildren();
p.insertChild(0, c1);
p.insertChild(0, c2);
p.insertChild(0, c3);
p.insertChild(0, c4);
p.insertChild(0, c5);
assertTrue(p.getNumChildren() == 5);
assertTrue(("child5" != p.getChild(0).getName()) == false);
assertTrue(("child4" != p.getChild(1).getName()) == false);
assertTrue(("child3" != p.getChild(2).getName()) == false);
assertTrue(("child2" != p.getChild(3).getName()) == false);
assertTrue(("child1" != p.getChild(4).getName()) == false);
p.removeChildren();
p.insertChild(1, c1);
p.insertChild(2, c2);
p.insertChild(3, c3);
p.insertChild(4, c4);
p.insertChild(5, c5);
assertTrue(p.getNumChildren() == 5);
assertTrue(("child1" != p.getChild(0).getName()) == false);
assertTrue(("child2" != p.getChild(1).getName()) == false);
assertTrue(("child3" != p.getChild(2).getName()) == false);
assertTrue(("child4" != p.getChild(3).getName()) == false);
assertTrue(("child5" != p.getChild(4).getName()) == false);
p.removeChildren();
XMLNode tmp;
tmp = p.insertChild(0, c1);
assertTrue(("child1" != tmp.getName()) == false);
tmp = p.insertChild(0, c2);
assertTrue(("child2" != tmp.getName()) == false);
tmp = p.insertChild(0, c3);
assertTrue(("child3" != tmp.getName()) == false);
tmp = p.insertChild(0, c4);
assertTrue(("child4" != tmp.getName()) == false);
tmp = p.insertChild(0, c5);
assertTrue(("child5" != tmp.getName()) == false);
p.removeChildren();
tmp = p.insertChild(1, c1);
assertTrue(("child1" != tmp.getName()) == false);
tmp = p.insertChild(2, c2);
assertTrue(("child2" != tmp.getName()) == false);
tmp = p.insertChild(3, c3);
assertTrue(("child3" != tmp.getName()) == false);
tmp = p.insertChild(4, c4);
assertTrue(("child4" != tmp.getName()) == false);
tmp = p.insertChild(5, c5);
assertTrue(("child5" != tmp.getName()) == false);
p = null;
c1 = null;
c2 = null;
c3 = null;
c4 = null;
c5 = null;
attr = null;
trp_p = null;
trp_c1 = null;
trp_c2 = null;
trp_c3 = null;
trp_c4 = null;
trp_c5 = null;
}