public void test_SBMLDocument_setLevelAndVersion() { SBMLDocument d = new SBMLDocument(2,2); Model m1 = new Model(2,2); d.setModel(m1); assertTrue( d.setLevelAndVersion(2,3,false) == true ); assertTrue( d.setLevelAndVersion(2,1,false) == true ); assertTrue( d.setLevelAndVersion(1,2,false) == true ); assertTrue( d.setLevelAndVersion(1,1,false) == false ); d = null; }
public void test_internal_consistency_check_99911_model() { SBMLDocument d = new SBMLDocument(2,4); long errors; d.setLevelAndVersion(2,1,false); Model m = new Model(2,4); m.setSBOTerm(2); d.setModel(m); errors = d.checkInternalConsistency(); assertTrue( errors == 1 ); assertTrue( d.getError(0).getErrorId() == 20201 ); d = null; }
public void test_internal_consistency_check_99904_model() { SBMLDocument d = new SBMLDocument(2,4); long errors; d.setLevelAndVersion(1,2,false); Model m = new Model(2,4); Compartment c = m.createCompartment(); c.setId("cc"); m.setMetaId("mmm"); d.setModel(m); errors = d.checkInternalConsistency(); assertTrue( errors == 1 ); assertTrue( d.getError(0).getErrorId() == 20201 ); d = null; }
public void test_SBMLDocument_clone() { SBMLDocument o1 = new SBMLDocument(); o1.setLevelAndVersion(1,1,false); Model m = new Model(1,1); m.setId("foo"); o1.setModel(m); assertTrue( o1.getLevel() == 1 ); assertTrue( o1.getVersion() == 1 ); assertTrue( o1.getModel().getId() == "foo" ); assertTrue( o1.getModel().getLevel() == 1 ); assertTrue( o1.getModel().getVersion() == 1 ); assertTrue( o1.getModel().getSBMLDocument() == o1 ); SBMLDocument o2 = o1.clone(); assertTrue( o2.getLevel() == 1 ); assertTrue( o2.getVersion() == 1 ); assertTrue( o2.getModel().getId() == "foo" ); assertTrue( o2.getModel().getLevel() == 1 ); assertTrue( o2.getModel().getVersion() == 1 ); assertTrue( o2.getModel().getSBMLDocument() == o2 ); o2 = null; o1 = null; }
public void test_SBMLDocument_setLevelAndVersion_Error() { SBMLDocument d = new SBMLDocument(); d.setLevelAndVersion(2,1,true); Model m1 = new Model(2,1); Unit u = new Unit(2,1); u.setKind(libsbml.UnitKind_forName("mole")); u.setOffset(3.2); UnitDefinition ud = new UnitDefinition(2,1); ud.setId( "ud"); ud.addUnit(u); m1.addUnitDefinition(ud); d.setModel(m1); assertTrue( d.setLevelAndVersion(2,2,true) == false ); assertTrue( d.setLevelAndVersion(2,3,true) == false ); assertTrue( d.setLevelAndVersion(1,2,true) == false ); assertTrue( d.setLevelAndVersion(1,1,true) == false ); d = null; }
public void test_SBMLDocument_setModel3() { SBMLDocument d = new SBMLDocument(2,2); Model m1 = new Model(2,2); int i = d.setModel(m1); assertTrue( i == libsbml.LIBSBML_OPERATION_SUCCESS ); assertTrue( d.getModel() != null ); d = null; }
public void test_SBMLDocument_setModel2() { SBMLDocument d = new SBMLDocument(2,2); Model m1 = new Model(1,2); int i = d.setModel(m1); assertTrue( i == libsbml.LIBSBML_LEVEL_MISMATCH ); assertTrue( d.getModel() == null ); d = null; }
public void test_SBMLDocument_setModel() { SBMLDocument d = new SBMLDocument(2,4); Model m1 = new Model(2,4); Model m2 = new Model(2,4); Model mout; assertTrue( d.getModel() == null ); int i = d.setModel(m1); assertTrue( i == libsbml.LIBSBML_OPERATION_SUCCESS ); mout = d.getModel(); assertTrue( mout != null ); assertTrue( mout != m1 ); i = d.setModel(d.getModel()); assertTrue( i == libsbml.LIBSBML_OPERATION_SUCCESS ); mout = d.getModel(); assertTrue( mout != null ); assertTrue( mout != m1 ); i = d.setModel(m2); assertTrue( i == libsbml.LIBSBML_OPERATION_SUCCESS ); mout = d.getModel(); assertTrue( mout != null ); assertTrue( mout != m2 ); d = null; }
public void test_Model_parent_add() { SBMLDocument d = new SBMLDocument(2,4); Model m = new Model(2,4); d.setModel(m); assertTrue( d == d.getModel().getParentSBMLObject() ); d = null; }
public void test_create_l1v1_units() { SBMLDocument d; Model m; Compartment c; KineticLaw kl; Parameter p; Reaction r; Species s; SpeciesReference sr; Unit u; UnitDefinition ud; d = new SBMLDocument(); m = new Model(2,4); d.setModel(m); ud = m.createUnitDefinition(); ud.setName( "substance"); u = m.createUnit(); u.setKind(libsbml.UNIT_KIND_MOLE); u.setScale(-3); ud = m.createUnitDefinition(); ud.setName( "mls"); u = m.createUnit(); u.setKind(libsbml.UNIT_KIND_MOLE); u.setScale(-3); u = m.createUnit(); u.setKind(libsbml.UNIT_KIND_LITER); u.setExponent(-1); u = m.createUnit(); u.setKind(libsbml.UNIT_KIND_SECOND); u.setExponent(-1); c = m.createCompartment(); c.setName( "cell"); s = m.createSpecies(); s.setName( "x0"); s.setCompartment( "cell"); s.setInitialAmount(1); s = m.createSpecies(); s.setName( "x1"); s.setCompartment( "cell"); s.setInitialAmount(1); s = m.createSpecies(); s.setName( "s1"); s.setCompartment( "cell"); s.setInitialAmount(1); s = m.createSpecies(); s.setName( "s2"); s.setCompartment( "cell"); s.setInitialAmount(1); p = m.createParameter(); p.setName( "vm"); p.setUnits( "mls"); p.setValue(2); p = m.createParameter(); p.setName( "km"); p.setValue(2); r = m.createReaction(); r.setName( "v1"); sr = m.createReactant(); sr.setSpecies( "x0"); sr = m.createProduct(); sr.setSpecies( "s1"); kl = m.createKineticLaw(); kl.setFormula( "(vm * s1)/(km + s1)"); r = m.createReaction(); r.setName( "v2"); sr = m.createReactant(); sr.setSpecies( "s1"); sr = m.createProduct(); sr.setSpecies( "s2"); kl = m.createKineticLaw(); kl.setFormula( "(vm * s2)/(km + s2)"); r = m.createReaction(); r.setName( "v3"); sr = m.createReactant(); sr.setSpecies( "s2"); sr = m.createProduct(); sr.setSpecies( "x1"); kl = m.createKineticLaw(); kl.setFormula( "(vm * s1)/(km + s1)"); d = null; }
public void test_Model_ancestor_add() { SBMLDocument d = new SBMLDocument(2,4); Model m = new Model(2,4); d.setModel(m); assertTrue( d == d.getModel().getAncestorOfType(libsbml.SBML_DOCUMENT) ); d = null; }