def test_UnitDefinition_copyConstructor(self):
o1 = libsbml.UnitDefinition(2,4)
o1.setId("c")
self.assert_( o1.getId() == "c" )
o2 = libsbml.UnitDefinition(o1)
self.assert_( o2.getId() == "c" )
self.assert_( o2.getParentSBMLObject() == o1.getParentSBMLObject() )
o2 = None
o1 = None
pass
def test_UnitDefinition_assignmentOperator(self):
o1 = libsbml.UnitDefinition(2,4)
o1.setId("c")
self.assert_( o1.getId() == "c" )
o2 = libsbml.UnitDefinition(2,4)
o2 = o1
self.assert_( o2.getId() == "c" )
self.assert_( o2.getParentSBMLObject() == o1.getParentSBMLObject() )
o2 = None
o1 = None
pass
def test_Model_getUnitDefinitionById(self):
ud1 = libsbml.UnitDefinition(2, 4)
ud2 = libsbml.UnitDefinition(2, 4)
ud1.setId("mmls")
ud2.setId("volume")
ud1.createUnit()
ud2.createUnit()
self.M.addUnitDefinition(ud1)
self.M.addUnitDefinition(ud2)
self.assert_(self.M.getNumUnitDefinitions() == 2)
self.assert_(self.M.getUnitDefinition("mmls") != ud1)
self.assert_(self.M.getUnitDefinition("volume") != ud2)
self.assert_(self.M.getUnitDefinition("rototillers") == None)
pass
def test_Model_add_get_UnitDefinitions(self):
ud1 = libsbml.UnitDefinition(2, 4)
ud2 = libsbml.UnitDefinition(2, 4)
ud1.setId("ud1")
ud2.setId("ud2")
ud1.createUnit()
ud2.createUnit()
self.M.addUnitDefinition(ud1)
self.M.addUnitDefinition(ud2)
self.assert_(self.M.getNumUnitDefinitions() == 2)
self.assert_(self.M.getUnitDefinition(0) != ud1)
self.assert_(self.M.getUnitDefinition(1) != ud2)
self.assert_(self.M.getUnitDefinition(2) == None)
pass
def test_Model_getUnitDefinition(self):
ud1 = libsbml.UnitDefinition(2, 4)
ud2 = libsbml.UnitDefinition(2, 4)
ud1.setId("mmls")
ud2.setId("volume")
ud1.createUnit()
ud2.createUnit()
self.M.addUnitDefinition(ud1)
self.M.addUnitDefinition(ud2)
self.assert_(self.M.getNumUnitDefinitions() == 2)
ud1 = self.M.getUnitDefinition(0)
ud2 = self.M.getUnitDefinition(1)
self.assert_(("mmls" == ud1.getId()))
self.assert_(("volume" == ud2.getId()))
pass
def test_UnitDefinition_isVariantOfSubstancePerTime_4(self):
ud = libsbml.UnitDefinition(2,2)
dim = ud.createUnit()
dim.setKind(libsbml.UnitKind_forName("dimensionless"))
perTime = ud.createUnit()
perTime.setKind(libsbml.UnitKind_forName("second"))
perTime.setExponent(-1)
u = ud.createUnit()
self.assertEqual( False, ud.isVariantOfSubstancePerTime() )
u.setKind(libsbml.UNIT_KIND_KILOGRAM)
u.setExponent(1)
self.assertEqual( True, ud.isVariantOfSubstancePerTime() )
u.setScale(-1)
perTime.setScale(-1)
self.assertEqual( True, ud.isVariantOfSubstancePerTime() )
u.setMultiplier(2)
self.assertEqual( True, ud.isVariantOfSubstancePerTime() )
u.setOffset(3)
self.assertEqual( True, ud.isVariantOfSubstancePerTime() )
u.setExponent(-3)
self.assertEqual( False, ud.isVariantOfSubstancePerTime() )
u.setExponent(1)
perTime.setExponent(-3)
self.assertEqual( False, ud.isVariantOfSubstancePerTime() )
perTime.setExponent(-1)
ud.addUnit(dim)
self.assertEqual( True, ud.isVariantOfSubstancePerTime() )
_dummyList = [ ud ]; _dummyList[:] = []; del _dummyList
pass
def test_UnitDefinition(self):
ud = libsbml.UnitDefinition(2, 4)
self.assertEqual(False, (ud.hasRequiredAttributes()))
ud.setId("ud")
self.assertEqual(True, ud.hasRequiredAttributes())
ud = None
pass
def test_UnitDefinition(self): ud = libsbml.UnitDefinition(2,4) self.assertEqual( False, (ud.hasRequiredElements()) ) ud.createUnit() self.assertEqual( True, ud.hasRequiredElements() ) ud = None pass
def test_UnitDefinition_createUnit(self): m = libsbml.UnitDefinition(2,2) p = m.createUnit() self.assert_( m.getNumUnits() == 1 ) self.assert_( (p).getLevel() == 2 ) self.assert_( (p).getVersion() == 2 ) _dummyList = [ m ]; _dummyList[:] = []; del _dummyList pass
def test_UnitDefinition_addUnit4(self): m = libsbml.UnitDefinition(2,2) p = None i = m.addUnit(p) self.assert_( i == libsbml.LIBSBML_OPERATION_FAILED ) self.assert_( m.getNumUnits() == 0 ) _dummyList = [ m ]; _dummyList[:] = []; del _dummyList pass
def test_UnitDefinition_addUnit3(self): m = libsbml.UnitDefinition(2,2) p = libsbml.Unit(1,2) p.setKind(libsbml.UNIT_KIND_MOLE) i = m.addUnit(p) self.assert_( i == libsbml.LIBSBML_LEVEL_MISMATCH ) self.assert_( m.getNumUnits() == 0 ) _dummyList = [ p ]; _dummyList[:] = []; del _dummyList _dummyList = [ m ]; _dummyList[:] = []; del _dummyList pass
def test_Unit_parent_create(self):
ud = libsbml.UnitDefinition(2, 4)
u = ud.createUnit()
self.assert_(ud.getNumUnits() == 1)
lo = ud.getListOfUnits()
self.assert_(lo == ud.getUnit(0).getParentSBMLObject())
self.assert_(lo == u.getParentSBMLObject())
self.assert_(ud == lo.getParentSBMLObject())
ud = None
pass
def test_UnitDefinition_clone(self):
o1 = libsbml.UnitDefinition(2,4)
o1.setId("c")
self.assert_( o1.getId() == "c" )
o2 = o1.clone()
self.assert_( o2.getId() == "c" )
self.assert_( o2.getParentSBMLObject() == o1.getParentSBMLObject() )
o2 = None
o1 = None
pass
def test_UnitDefinition_parent_add(self):
ia = libsbml.UnitDefinition(2, 4)
m = libsbml.Model(2, 4)
ia.setId("u")
ia.createUnit()
m.addUnitDefinition(ia)
ia = None
lo = m.getListOfUnitDefinitions()
self.assert_(lo == m.getUnitDefinition(0).getParentSBMLObject())
self.assert_(m == lo.getParentSBMLObject())
pass
def test_Unit_parent_add(self):
ud = libsbml.UnitDefinition(2, 4)
u = libsbml.Unit(2, 4)
u.setKind(libsbml.UNIT_KIND_MOLE)
ud.addUnit(u)
u = None
self.assert_(ud.getNumUnits() == 1)
lo = ud.getListOfUnits()
self.assert_(lo == ud.getUnit(0).getParentSBMLObject())
self.assert_(ud == lo.getParentSBMLObject())
ud = None
pass
def test_UnitDefinition_addUnit1(self): m = libsbml.UnitDefinition(2,2) p = libsbml.Unit(2,2) i = m.addUnit(p) self.assert_( i == libsbml.LIBSBML_INVALID_OBJECT ) p.setKind(libsbml.UNIT_KIND_MOLE) i = m.addUnit(p) self.assert_( i == libsbml.LIBSBML_OPERATION_SUCCESS ) self.assert_( m.getNumUnits() == 1 ) _dummyList = [ p ]; _dummyList[:] = []; del _dummyList _dummyList = [ m ]; _dummyList[:] = []; del _dummyList pass
def test_UnitDefinition_printUnits(self):
ud = libsbml.UnitDefinition(2,4)
ud.setId( "mmls")
perTime = ud.createUnit()
perTime.setKind(libsbml.UnitKind_forName("second"))
perTime.setExponent(-1)
ud_str = libsbml.UnitDefinition.printUnits(ud,False)
self.assert_(( "second (exponent = -1, multiplier = 1, scale = 0)" == ud_str ))
ud_str1 = libsbml.UnitDefinition.printUnits(ud,True)
self.assert_(( "(1 second)^-1" == ud_str1 ))
ud1 = libsbml.UnitDefinition(2,4)
ud1.setId( "mmls")
u = ud1.createUnit()
u.setKind(libsbml.UNIT_KIND_KILOGRAM)
u.setExponent(1)
u.setScale(2)
u.setMultiplier(3.0)
ud_str2 = libsbml.UnitDefinition.printUnits(ud1,False)
self.assert_(( "kilogram (exponent = 1, multiplier = 3, scale = 2)" == ud_str2 ))
ud_str3 = libsbml.UnitDefinition.printUnits(ud1,True)
self.assert_(( "(300 kilogram)^1" == ud_str3 ))
pass
def test_UnitDefinition_createWithName(self): ud = libsbml.UnitDefinition(2,4) ud.setName( "mmol_per_liter_per_sec") self.assert_( ud.getTypeCode() == libsbml.SBML_UNIT_DEFINITION ) self.assert_( ud.getMetaId() == "" ) self.assert_( ud.getNotes() == None ) self.assert_( ud.getAnnotation() == None ) self.assert_( ud.getId() == "" ) self.assert_(( "mmol_per_liter_per_sec" == ud.getName() )) self.assertEqual( True, ud.isSetName() ) self.assert_( ud.getNumUnits() == 0 ) _dummyList = [ ud ]; _dummyList[:] = []; del _dummyList pass
def test_internal_consistency_check_99905_unitdef(self):
d = libsbml.SBMLDocument(2,4)
u = libsbml.UnitDefinition(2,4)
d.setLevelAndVersion(2,2,False)
m = d.createModel()
u.setId("ud")
u.setSBOTerm(9)
u.createUnit()
m.addUnitDefinition(u)
errors = d.checkInternalConsistency()
self.assert_( errors == 0 )
d = None
pass
def test_UnitDefinition_ancestor_add(self):
ia = libsbml.UnitDefinition(2,4)
m = libsbml.Model(2,4)
ia.setId("u")
ia.createUnit()
m.addUnitDefinition(ia)
ia = None
lo = m.getListOfUnitDefinitions()
obj = m.getUnitDefinition(0)
self.assert_( obj.getAncestorOfType(libsbml.SBML_MODEL) == m )
self.assert_( obj.getAncestorOfType(libsbml.SBML_LIST_OF) == lo )
self.assert_( obj.getAncestorOfType(libsbml.SBML_DOCUMENT) == None )
self.assert_( obj.getAncestorOfType(libsbml.SBML_EVENT) == None )
pass
def test_Unit_ancestor_add(self): ud = libsbml.UnitDefinition(2,4) u = libsbml.Unit(2,4) u.setKind(libsbml.UNIT_KIND_MOLE) ud.addUnit(u) u = None self.assert_( ud.getNumUnits() == 1 ) lo = ud.getListOfUnits() obj = ud.getUnit(0) self.assert_( obj.getAncestorOfType(libsbml.SBML_UNIT_DEFINITION) == ud ) self.assert_( obj.getAncestorOfType(libsbml.SBML_LIST_OF) == lo ) self.assert_( obj.getAncestorOfType(libsbml.SBML_DOCUMENT) == None ) self.assert_( obj.getAncestorOfType(libsbml.SBML_COMPARTMENT) == None ) ud = None pass
def test_internal_consistency_check_99904_unitdef(self):
d = libsbml.SBMLDocument(2,4)
u = libsbml.UnitDefinition(2,4)
d.setLevelAndVersion(1,2,False)
m = d.createModel()
c = m.createCompartment()
c.setId("cc")
u.setId("ud")
u.setMetaId("mmm")
u.createUnit()
m.addUnitDefinition(u)
errors = d.checkInternalConsistency()
self.assert_( errors == 0 )
d = None
pass
def test_Model_addUnitDefinition5(self):
m = libsbml.Model(2, 2)
ud = libsbml.UnitDefinition(2, 2)
ud.setId("ud")
ud.createUnit()
ud1 = libsbml.UnitDefinition(2, 2)
ud1.setId("ud")
ud1.createUnit()
i = m.addUnitDefinition(ud)
self.assert_(i == libsbml.LIBSBML_OPERATION_SUCCESS)
self.assert_(m.getNumUnitDefinitions() == 1)
i = m.addUnitDefinition(ud1)
self.assert_(i == libsbml.LIBSBML_DUPLICATE_OBJECT_ID)
self.assert_(m.getNumUnitDefinitions() == 1)
_dummyList = [ud]
_dummyList[:] = []
del _dummyList
_dummyList = [ud1]
_dummyList[:] = []
del _dummyList
_dummyList = [m]
_dummyList[:] = []
del _dummyList
pass
def test_Model_addUnitDefinition3(self):
m = libsbml.Model(2, 2)
ud = libsbml.UnitDefinition(1, 2)
ud.createUnit()
ud.setId("ud")
i = m.addUnitDefinition(ud)
self.assert_(i == libsbml.LIBSBML_LEVEL_MISMATCH)
self.assert_(m.getNumUnitDefinitions() == 0)
_dummyList = [ud]
_dummyList[:] = []
del _dummyList
_dummyList = [m]
_dummyList[:] = []
del _dummyList
pass
def test_UnitDefinition_createWithNS(self): xmlns = libsbml.XMLNamespaces() xmlns.add( "http://www.sbml.org", "testsbml") sbmlns = libsbml.SBMLNamespaces(2,1) sbmlns.addNamespaces(xmlns) object = libsbml.UnitDefinition(sbmlns) self.assert_( object.getTypeCode() == libsbml.SBML_UNIT_DEFINITION ) self.assert_( object.getMetaId() == "" ) self.assert_( object.getNotes() == None ) self.assert_( object.getAnnotation() == None ) self.assert_( object.getLevel() == 2 ) self.assert_( object.getVersion() == 1 ) self.assert_( object.getNamespaces() != None ) self.assert_( object.getNamespaces().getLength() == 2 ) _dummyList = [ object ]; _dummyList[:] = []; del _dummyList pass
def test_Unit_ancestor_create(self): ud = libsbml.UnitDefinition(2,4) u = ud.createUnit() self.assert_( ud.getNumUnits() == 1 ) lo = ud.getListOfUnits() self.assert_( u.getAncestorOfType(libsbml.SBML_UNIT_DEFINITION) == ud ) self.assert_( u.getAncestorOfType(libsbml.SBML_LIST_OF) == lo ) self.assert_( u.getAncestorOfType(libsbml.SBML_DOCUMENT) == None ) self.assert_( u.getAncestorOfType(libsbml.SBML_COMPARTMENT) == None ) obj = ud.getUnit(0) self.assert_( obj.getAncestorOfType(libsbml.SBML_UNIT_DEFINITION) == ud ) self.assert_( obj.getAncestorOfType(libsbml.SBML_LIST_OF) == lo ) self.assert_( obj.getAncestorOfType(libsbml.SBML_DOCUMENT) == None ) self.assert_( obj.getAncestorOfType(libsbml.SBML_COMPARTMENT) == None ) ud = None pass
def test_Model_addUnitDefinition1(self):
m = libsbml.Model(2, 2)
ud = libsbml.UnitDefinition(2, 2)
i = m.addUnitDefinition(ud)
self.assert_(i == libsbml.LIBSBML_INVALID_OBJECT)
ud.createUnit()
i = m.addUnitDefinition(ud)
self.assert_(i == libsbml.LIBSBML_INVALID_OBJECT)
ud.setId("ud")
i = m.addUnitDefinition(ud)
self.assert_(i == libsbml.LIBSBML_OPERATION_SUCCESS)
self.assert_(m.getNumUnitDefinitions() == 1)
_dummyList = [ud]
_dummyList[:] = []
del _dummyList
_dummyList = [m]
_dummyList[:] = []
del _dummyList
pass
def _create_unit_definition(sid, units):
""" Creates the defined unit definitions.
(kind, exponent, scale, multiplier)
"""
unit_def = libsbml.UnitDefinition(3, 1)
unit_def.setId(sid)
for data in units:
kind = data[0]
exponent = data[1]
scale = 0
multiplier = 1.0
if len(data) > 2:
scale = data[2]
if len(data) > 3:
multiplier = data[3]
FormatingTestCase._create_unit(unit_def, kind, exponent, scale,
multiplier)
return unit_def
def test_SBMLDocument_setLevelAndVersion_Error(self):
d = libsbml.SBMLDocument()
d.setLevelAndVersion(2, 1, True)
m1 = libsbml.Model(2, 1)
u = libsbml.Unit(2, 1)
u.setKind(libsbml.UnitKind_forName("mole"))
u.setOffset(3.2)
ud = libsbml.UnitDefinition(2, 1)
ud.setId("ud")
ud.addUnit(u)
m1.addUnitDefinition(ud)
d.setModel(m1)
self.assert_(d.setLevelAndVersion(2, 2, True) == False)
self.assert_(d.setLevelAndVersion(2, 3, True) == False)
self.assert_(d.setLevelAndVersion(1, 2, True) == False)
self.assert_(d.setLevelAndVersion(1, 1, True) == False)
_dummyList = [d]
_dummyList[:] = []
del _dummyList
pass
def test_UnitDefinition_L1(self): ud = libsbml.UnitDefinition(1,2) self.assertEqual( True, ud.hasRequiredElements() ) ud = None pass
