def test_ids(self):
from libcellml import Annotator, Parser
annotator = Annotator()
parser = Parser()
model = parser.parseModel(file_contents("annotator/unique_ids.cellml"))
annotator.setModel(model)
self.assertEqual(24, len(annotator.ids()))
def test_duplicate_count(self):
from libcellml import Annotator, Parser
annotator = Annotator()
parser = Parser()
model = parser.parseModel(file_contents("annotator/lots_of_duplicate_ids.cellml"))
annotator.setModel(model)
self.assertEqual(8, annotator.itemCount("duplicateId1"))
self.assertEqual(7, annotator.itemCount("duplicateId3"))
def test_auto_ids(self):
from libcellml import Annotator, Parser, Variable
annotator = Annotator()
parser = Parser()
model_string = file_contents("annotator/unique_ids.cellml")
model = parser.parseModel(model_string)
annotator.setModel(model)
annotator.clearAllIds()
annotator.assignAllIds()
self.assertEqual("b4da55", model.id())
self.assertEqual("b4da56", model.importSource(0).id())
self.assertEqual("b4da57", model.importSource(1).id())
self.assertEqual("b4da58", model.units(0).id())
self.assertEqual("b4da59", model.units(1).id())
self.assertEqual("b4da5a", model.units(2).id())
self.assertEqual("b4da5b", model.units(3).id())
self.assertEqual("b4da5c", model.units(1).unitId(0))
self.assertEqual("b4da5d", model.component(0).id())
self.assertEqual("b4da5e", model.component(1).id())
self.assertEqual("b4da5f", model.component(1).component(0).id())
self.assertEqual("b4da60", model.component(1).variable(0).id())
self.assertEqual("b4da61", model.component(1).variable(1).id())
self.assertEqual("b4da62",
model.component(1).component(0).variable(0).id())
self.assertEqual("b4da63",
model.component(1).component(0).variable(1).id())
self.assertEqual("b4da64", model.component(1).reset(0).id())
self.assertEqual("b4da65", model.component(1).reset(0).resetValueId())
self.assertEqual("b4da66", model.component(1).reset(0).testValueId())
c2v1 = model.component("component2").variable("variable1")
c2v2 = model.component("component2").variable("variable2")
c3v1 = model.component("component3").variable("variable1")
c3v2 = model.component("component3").variable("variable2")
self.assertEqual("b4da67",
Variable.equivalenceConnectionId(c2v1, c3v1))
self.assertEqual("b4da67",
Variable.equivalenceConnectionId(c2v2, c3v2))
self.assertEqual("b4da68", Variable.equivalenceMappingId(c2v1, c3v1))
self.assertEqual("b4da69", Variable.equivalenceMappingId(c2v2, c3v2))
self.assertEqual("b4da6a",
model.component("component2").encapsulationId())
self.assertEqual("b4da6b",
model.component("component3").encapsulationId())
self.assertEqual("b4da6c", model.encapsulationId())
def test_raise_non_unique_issue(self):
from libcellml import Annotator, Parser
annotator = Annotator()
parser = Parser()
non_unique_message = 'The identifier \'duplicateId\' occurs 29 times in the model so a unique item cannot be located.'
model = parser.parseModel(file_contents('annotator/duplicate_ids.cellml'))
annotator.setModel(model)
annotator.item('duplicateId')
self.assertEqual(1, annotator.issueCount())
self.assertEqual(non_unique_message, annotator.issue(0).description())
def test_auto_ids_group(self):
from libcellml import Annotator, Component, Model
from libcellml.enums import CellmlElementType_COMPONENT
annotator = Annotator()
model = Model()
component1 = Component("c1")
component2 = Component("c2")
component3 = Component("c3")
model.addComponent(component1)
model.addComponent(component2)
component2.addComponent(component3)
annotator.setModel(model)
self.assertEqual("", model.id())
self.assertEqual("", component1.id())
self.assertEqual("", component2.id())
self.assertEqual("", component3.id())
annotator.assignIds(CellmlElementType_COMPONENT)
self.assertEqual("", model.id())
self.assertEqual("b4da55", component1.id())
self.assertEqual("b4da56", component2.id())
self.assertEqual("b4da57", component3.id())
def test_raise_not_found_issue(self):
from libcellml import Annotator, Parser
annotator = Annotator()
parser = Parser()
message = 'Could not find an item with an id of \'i_dont_exist\' in the model.'
model = parser.parseModel(file_contents('annotator/unique_ids.cellml'))
annotator.setModel(model)
annotator.item('i_dont_exist')
self.assertEqual(1, annotator.issueCount())
self.assertEqual(message, annotator.issue(0).description())
def test_is_unique(self):
from libcellml import Annotator, Parser
annotator = Annotator()
parser = Parser()
model = parser.parseModel(file_contents("annotator/unique_ids.cellml"))
annotator.setModel(model)
self.assertTrue(annotator.isUnique("variable_3"))
model = parser.parseModel(file_contents("annotator/lots_of_duplicate_ids.cellml"))
annotator.setModel(model)
self.assertFalse(annotator.isUnique("duplicateId2"))
def test_item(self):
from libcellml import Annotator, CellmlElementType, Model, Parser
annotator = Annotator()
model = Model()
parser = Parser()
model_string = file_contents("annotator/unique_ids.cellml")
model = parser.parseModel(model_string)
annotator.setModel(model)
self.assertEqual(CellmlElementType.UNDEFINED,
annotator.item("not_an_id")[0])
self.assertEqual(CellmlElementType.UNDEFINED,
annotator.item("not_an_id", 3)[0])
self.assertEqual(CellmlElementType.MAP_VARIABLES,
annotator.item("map_variables_2")[0])
# For coverage purposes only.
annotator._itemCellmlElement("not_an_id", 0)
def test_has_model(self):
from libcellml import Annotator, Parser
annotator = Annotator()
parser = Parser()
self.assertFalse(annotator.hasModel())
model = parser.parseModel(file_contents("annotator/unique_ids.cellml"))
annotator.setModel(model)
self.assertTrue(annotator.hasModel())
def test_assign_by_type(self):
from libcellml import Annotator, Parser, Variable
from libcellml import Unit, VariablePair
annotator = Annotator()
parser = Parser()
model_string = file_contents("annotator/no_ids.cellml")
model = parser.parseModel(model_string)
annotator.setModel(model)
c = model.component(0)
self.assertEqual("", model.id())
annotator.assignModelId(model)
self.assertEqual("b4da55", model.id())
self.assertEqual("", model.encapsulationId())
annotator.assignEncapsulationId(model)
self.assertEqual("b4da56", model.encapsulationId())
self.assertEqual("", c.id())
annotator.assignComponentId(c)
self.assertEqual("b4da57", c.id())
self.assertEqual("", c.encapsulationId())
annotator.assignComponentRefId(c)
self.assertEqual("b4da58", c.encapsulationId())
c2v1 = model.component("component2").variable("variable1")
c3v1 = model.component("component3").variable("variable1")
self.assertEqual("", Variable.equivalenceConnectionId(c2v1, c3v1))
annotator.assignConnectionId(VariablePair(c2v1, c3v1))
self.assertEqual("b4da59",
Variable.equivalenceConnectionId(c2v1, c3v1))
self.assertEqual("", Variable.equivalenceMappingId(c2v1, c3v1))
annotator.assignMapVariablesId(VariablePair(c2v1, c3v1))
self.assertEqual("b4da5a", Variable.equivalenceMappingId(c2v1, c3v1))
c3v2 = model.component("component3").variable("variable2")
self.assertEqual("", c3v2.id())
annotator.assignVariableId(c3v2)
self.assertEqual("b4da5b", c3v2.id())
u = model.units(1)
self.assertEqual("", u.id())
annotator.assignUnitsId(u)
self.assertEqual("b4da5c", u.id())
r = model.component("component2").reset(0)
self.assertEqual("", r.id())
annotator.assignResetId(r)
self.assertEqual("b4da5d", r.id())
self.assertEqual("", r.testValueId())
annotator.assignTestValueId(r)
self.assertEqual("b4da5e", r.testValueId())
self.assertEqual("", r.resetValueId())
annotator.assignResetValueId(r)
self.assertEqual("b4da5f", r.resetValueId())
i = model.importSource(0)
self.assertEqual("", i.id())
annotator.assignImportSourceId(i)
self.assertEqual("b4da60", i.id())
self.assertEqual("", u.unitId(0))
annotator.assignUnitId(Unit(u, 0))
self.assertEqual("b4da61", u.unitId(0))
def test_auto_id_individual(self):
from libcellml import Annotator, CellmlElementType, Parser, Variable
from libcellml import Unit, VariablePair
annotator = Annotator()
parser = Parser()
model_string = file_contents("annotator/no_ids.cellml")
model = parser.parseModel(model_string)
annotator.setModel(model)
self.assertEqual(
"b4da55",
annotator.assignId(model.component(0),
CellmlElementType.COMPONENT))
self.assertEqual("b4da55", model.component(0).id())
self.assertEqual(
"b4da56",
annotator.assignId(model.component("component2"),
CellmlElementType.COMPONENT_REF))
self.assertEqual("b4da56",
model.component("component2").encapsulationId())
self.assertEqual(
"b4da57",
annotator.assignId(
VariablePair(
model.component("component2").variable("variable1"),
model.component("component2").variable(
"variable1").equivalentVariable(0)),
CellmlElementType.CONNECTION))
self.assertEqual(
"b4da57",
Variable.equivalenceConnectionId(
model.component("component2").variable("variable1"),
model.component("component2").variable(
"variable1").equivalentVariable(0)))
self.assertEqual("b4da58", annotator.assignId(model.importSource(0)))
self.assertEqual("b4da58", model.importSource(0).id())
self.assertEqual(
"b4da59",
annotator.assignId(
VariablePair(
model.component("component2").variable("variable2"),
model.component("component2").variable(
"variable2").equivalentVariable(0)),
CellmlElementType.MAP_VARIABLES))
self.assertEqual(
"b4da59",
Variable.equivalenceMappingId(
model.component("component2").variable("variable2"),
model.component("component2").variable(
"variable2").equivalentVariable(0)))
self.assertEqual("b4da5a",
annotator.assignId(model, CellmlElementType.MODEL))
self.assertEqual("b4da5a", model.id())
self.assertEqual(
"b4da5b",
annotator.assignId(
model.component("component2").reset(0),
CellmlElementType.RESET))
self.assertEqual("b4da5b", model.component("component2").reset(0).id())
self.assertEqual(
"b4da5c",
annotator.assignId(
model.component("component2").reset(0),
CellmlElementType.RESET_VALUE))
self.assertEqual("b4da5c",
model.component("component2").reset(0).resetValueId())
self.assertEqual(
"b4da5d",
annotator.assignId(
model.component("component2").reset(0),
CellmlElementType.TEST_VALUE))
self.assertEqual("b4da5d",
model.component("component2").reset(0).testValueId())
self.assertEqual("b4da5e", annotator.assignId(Unit(model.units(1), 0)))
self.assertEqual("b4da5e", model.units(1).unitId(0))
self.assertEqual("b4da5f", annotator.assignId(model.units(1)))
self.assertEqual("b4da5f", model.units(1).id())
self.assertEqual("b4da60",
annotator.assignId(model.component(1).variable(0)))
self.assertEqual("b4da60", model.component(1).variable(0).id())
self.assertEqual(
"b4da61", annotator.assignId(model,
CellmlElementType.ENCAPSULATION))
self.assertEqual("b4da61", model.encapsulationId())
def test_list_duplicate_ids(self):
from libcellml import Annotator, CellmlElementType, Parser
model_string = file_contents("annotator/lots_of_duplicate_ids.cellml")
parser = Parser()
annotator = Annotator()
model = parser.parseModel(model_string)
annotator.setModel(model)
id_list = annotator.duplicateIds()
expected_ids = ('duplicateId1', 'duplicateId2', 'duplicateId3',
'duplicateId4')
self.assertEqual(expected_ids, id_list)
# Get the collections by duplicated id.
c2v1 = model.component("component2").variable("variable1")
c2v2 = model.component("component2").variable("variable2")
c3v1 = model.component("component2").component("component3").variable(
"variable1")
c3v2 = model.component("component2").component("component3").variable(
"variable2")
c4v1 = model.component("component4").variable("variable1")
c4v2 = model.component("component4").variable("variable2")
expected_items = {
"duplicateId1": (
(CellmlElementType.UNITS, model.units("units2")),
(CellmlElementType.IMPORT, model.importSource(0)),
(CellmlElementType.MAP_VARIABLES, (c4v1, c2v1)),
(CellmlElementType.COMPONENT, model.component("component2")),
(CellmlElementType.CONNECTION, (c2v1, c3v1)),
(CellmlElementType.TEST_VALUE,
model.component("component2").reset(0)),
(CellmlElementType.COMPONENT_REF,
model.component("component2").component("component3")),
(CellmlElementType.VARIABLE,
model.component("component2").component(
"component3").variable("variable2")),
),
"duplicateId2": (
(CellmlElementType.MODEL, model),
(CellmlElementType.UNITS, model.units("units1")),
(CellmlElementType.UNITS, model.units("blob")),
(CellmlElementType.CONNECTION, (c4v2, c2v2)),
(CellmlElementType.VARIABLE, c4v2),
(CellmlElementType.COMPONENT_REF,
model.component("component2")),
(CellmlElementType.RESET,
model.component("component2").reset(0)),
(CellmlElementType.VARIABLE, c3v1),
),
"duplicateId3": (
(CellmlElementType.IMPORT, model.importSource(1)),
(CellmlElementType.UNITS, model.units("units3")),
(CellmlElementType.VARIABLE, c4v1),
(CellmlElementType.VARIABLE, c2v2),
(CellmlElementType.MAP_VARIABLES, (c2v2, c4v2)),
(CellmlElementType.COMPONENT,
model.component("component2").component("component3")),
(CellmlElementType.ENCAPSULATION, model),
),
"duplicateId4": (
(CellmlElementType.UNIT, ((model.units("units2"), 0))),
(CellmlElementType.COMPONENT, model.component("component1")),
(CellmlElementType.COMPONENT, model.component("component4")),
(CellmlElementType.MAP_VARIABLES, (c2v1, c3v1)),
(CellmlElementType.VARIABLE, c2v1),
(CellmlElementType.MAP_VARIABLES, (c2v2, c4v2)),
(CellmlElementType.RESET_VALUE,
model.component("component2").reset(0)),
)
}
for id in expected_ids:
items_with_id = annotator.items(id)
count = 0
for item in items_with_id:
self.assertEqual(item[0], expected_items[id][count][0])
# SWIG copies the pointers so can't expect a comparison to be true. Not sure how to
# compare these ...
# self.assertEqual(item[1], expected_items[id][count][1])
count = count + 1
def test_assign_by_type(self):
from libcellml import Annotator, Parser, Variable, CellmlElementType
from libcellml import UnitsItem, VariablePair
annotator = Annotator()
parser = Parser()
model_string = file_contents("annotator/no_ids.cellml")
model = parser.parseModel(model_string)
annotator.setModel(model)
c = model.component(0)
self.assertEqual("", model.id())
annotator.assignId(model)
self.assertEqual("b4da55", model.id())
self.assertEqual("", model.encapsulationId())
annotator.assignId(model, CellmlElementType.ENCAPSULATION)
self.assertEqual("b4da56", model.encapsulationId())
self.assertEqual("", c.id())
annotator.assignId(c)
self.assertEqual("b4da57", c.id())
self.assertEqual("", c.encapsulationId())
annotator.assignId(c, CellmlElementType.COMPONENT_REF)
self.assertEqual("b4da58", c.encapsulationId())
c2v1 = model.component("component2").variable("variable1")
c3v1 = model.component("component3").variable("variable1")
self.assertEqual("", Variable.equivalenceConnectionId(c2v1, c3v1))
annotator.assignId(VariablePair(c2v1, c3v1), CellmlElementType.CONNECTION)
self.assertEqual("b4da59", Variable.equivalenceConnectionId(c2v1, c3v1))
self.assertEqual("", Variable.equivalenceMappingId(c2v1, c3v1))
annotator.assignId(VariablePair(c2v1, c3v1))
self.assertEqual("b4da5a", Variable.equivalenceMappingId(c2v1, c3v1))
c3v2 = model.component("component3").variable("variable2")
self.assertEqual("", c3v2.id())
annotator.assignId(c3v2)
self.assertEqual("b4da5b", c3v2.id())
u = model.units(1)
self.assertEqual("", u.id())
annotator.assignId(u)
self.assertEqual("b4da5c", u.id())
r = model.component("component2").reset(0)
self.assertEqual("", r.id())
annotator.assignId(r)
self.assertEqual("b4da5d", r.id())
self.assertEqual("", r.testValueId())
annotator.assignId(r, CellmlElementType.TEST_VALUE)
self.assertEqual("b4da5e", r.testValueId())
self.assertEqual("", r.resetValueId())
annotator.assignId(r, CellmlElementType.RESET_VALUE)
self.assertEqual("b4da5f", r.resetValueId())
i = model.component("component1").importSource()
self.assertEqual("", i.id())
annotator.assignId(i)
self.assertEqual("b4da60", i.id())
self.assertEqual("", u.unitId(0))
annotator.assignId(UnitsItem(u, 0))
self.assertEqual("b4da61", u.unitId(0))
def test_type_based_retrieval(self):
from libcellml import Annotator, Model, Parser
annotator = Annotator()
model = Model()
parser = Parser()
model_string = file_contents("annotator/unique_ids.cellml")
model = parser.parseModel(model_string)
annotator.setModel(model)
v1v1 = (model.component("component2").variable("variable1"),
model.component("component2").component("component3").variable(
"variable1"))
v2v2 = (model.component("component2").variable("variable2"),
model.component("component2").component("component3").variable(
"variable2"))
self.assertEqual(model.name(), annotator.model("model_1").name())
self.assertEqual(model.name(),
annotator.encapsulation("encapsulation_1").name())
self.assertEqual(
model.component("component1").name(),
annotator.component("component_1").name())
self.assertEqual(
model.component("component2").name(),
annotator.component("component_2").name())
self.assertEqual(
model.component("component2").name(),
annotator.component("component_ref_1").name())
self.assertEqual(
model.component("component2").component("component3").name(),
annotator.component("component_3").name())
self.assertEqual(
model.component("component2").component("component3").name(),
annotator.componentRef("component_ref_2").name())
self.assertEqual(
model.component("component1").importSource().url(),
annotator.importSource("import_1").url())
self.assertEqual(
model.units("units1").name(),
annotator.units("units_1").name())
self.assertEqual(
model.units("units1").importSource().url(),
annotator.importSource("import_2").url())
self.assertEqual(
model.units("units2").name(),
annotator.units("units_2").name())
self.assertEqual(
model.units("units2").name(),
annotator.unit("unit_1").units().name())
self.assertEqual(0, annotator.unit("unit_1").index())
self.assertEqual(
model.component("component2").variable("variable1").name(),
annotator.variable("variable_1").name())
self.assertEqual(
model.component("component2").variable("variable2").name(),
annotator.variable("variable_2").name())
self.assertEqual(
model.component("component2").reset(0).variable().name(),
annotator.reset("reset_1").variable().name())
self.assertEqual(
model.component("component2").reset(0).testVariable().name(),
annotator.reset("reset_1").testVariable().name())
self.assertEqual(
model.component("component2").reset(0).testValue(),
annotator.testValue("test_value_1").testValue())
self.assertEqual(
model.component("component2").reset(0).resetValue(),
annotator.resetValue("reset_value_1").resetValue())
self.assertEqual(
model.component("component2").component("component3").variable(
"variable1").name(),
annotator.variable("variable_3").name())
self.assertEqual(
model.component("component2").component("component3").variable(
"variable2").name(),
annotator.variable("variable_4").name())
self.assertEqual(
v1v1[0].name(),
annotator.connection("connection_1").variable1().name())
self.assertEqual(
v1v1[1].name(),
annotator.connection("connection_1").variable2().name())
self.assertEqual(
v1v1[0].name(),
annotator.mapVariables("map_variables_1").variable1().name())
self.assertEqual(
v1v1[1].name(),
annotator.mapVariables("map_variables_1").variable2().name())
self.assertEqual(
v2v2[0].name(),
annotator.mapVariables("map_variables_2").variable1().name())
self.assertEqual(
v2v2[1].name(),
annotator.mapVariables("map_variables_2").variable2().name())
self.assertIsNone(annotator.model("i_dont_exist"))
self.assertIsNone(annotator.component("i_dont_exist"))
self.assertIsNone(annotator.variable("i_dont_exist"))
self.assertIsNone(annotator.units("i_dont_exist"))
self.assertIsNone(annotator.unit("i_dont_exist"))
self.assertIsNone(annotator.reset("i_dont_exist"))
self.assertIsNone(annotator.resetValue("i_dont_exist"))
self.assertIsNone(annotator.testValue("i_dont_exist"))
self.assertIsNone(annotator.componentRef("i_dont_exist"))
self.assertIsNone(annotator.connection("i_dont_exist"))
self.assertIsNone(annotator.importSource("i_dont_exist"))
def test_assign_id(self):
from libcellml import Annotator, Component, Model, Units
from libcellml import Unit, CellmlElementType
annotator = Annotator()
model = Model()
component1 = Component("c1")
component2 = Component("c2")
component3 = Component("c3")
component3.setId("id3")
units = Units("u1")
units.addUnit("volt")
model.addComponent(component1)
model.addComponent(component2)
component2.addComponent(component3)
model.addUnits(units)
annotator.setModel(model)
self.assertEqual("", component1.id())
self.assertEqual("", component2.id())
self.assertEqual("", units.unitId(0))
annotator.assignId(component1)
self.assertEqual("b4da55", component1.id())
self.assertEqual("", component2.id())
self.assertEqual("", units.unitId(0))
annotator.assignId(Unit(units, 0))
self.assertEqual("b4da55", component1.id())
self.assertEqual("", component2.id())
self.assertEqual("b4da56", units.unitId(0))
self.assertEqual("",
annotator.assignId(None, CellmlElementType.UNDEFINED))
item = annotator.item("id3")
annotator.assignId(item)
self.assertEqual("b4da57", component3.id())
# For coverage only.
annotator._assignId(component2)
def test_any_cellml_element(self):
from libcellml import Annotator, AnyCellmlElement, Parser
from libcellml.enums import CellmlElementType
self.assertRaises(AttributeError, AnyCellmlElement)
parser = Parser()
model = parser.parseModel(file_contents('annotator/unique_ids.cellml'))
annotator = Annotator()
annotator.setModel(model)
item = annotator.item('component_1')
self.assertEqual(CellmlElementType.COMPONENT, item.type())
self.assertEqual('component1', item.component().name())
item = annotator.item('component_ref_1')
self.assertEqual(CellmlElementType.COMPONENT_REF, item.type())
self.assertEqual('component2', item.component().name())
item = annotator.item('connection_1')
self.assertEqual(CellmlElementType.CONNECTION, item.type())
self.assertEqual('variable1', item.variablePair().variable1().name())
self.assertEqual('variable1', item.variablePair().variable2().name())
self.assertTrue(item.variablePair().isValid())
item = annotator.item('encapsulation_1')
self.assertEqual(CellmlElementType.ENCAPSULATION, item.type())
self.assertEqual('everything', item.model().name())
item = annotator.item('import_1')
self.assertEqual(CellmlElementType.IMPORT, item.type())
self.assertEqual('some-other-model.xml', item.importSource().url())
item = annotator.item('map_variables_1')
self.assertEqual(CellmlElementType.MAP_VARIABLES, item.type())
self.assertEqual('variable1', item.variablePair().variable1().name())
self.assertEqual('variable1', item.variablePair().variable2().name())
self.assertTrue(item.variablePair().isValid())
item = annotator.item('model_1')
self.assertEqual(CellmlElementType.MODEL, item.type())
self.assertEqual('everything', item.model().name())
resetItem = annotator.item('reset_1')
self.assertEqual(CellmlElementType.RESET, resetItem.type())
self.assertEqual(1, resetItem.reset().order())
item = annotator.item('reset_value_1')
self.assertEqual(CellmlElementType.RESET_VALUE, item.type())
self.assertEqual(resetItem.reset().resetValue(), item.reset().resetValue())
item = annotator.item('test_value_1')
self.assertEqual(CellmlElementType.TEST_VALUE, item.type())
self.assertEqual(resetItem.reset().testValue(), item.reset().testValue())
item = annotator.item('unit_1')
self.assertEqual(CellmlElementType.UNIT, item.type())
self.assertEqual('units2', item.unitsItem().units().name())
self.assertTrue(item.unitsItem().isValid())
item = annotator.item('units_1')
self.assertEqual(CellmlElementType.UNITS, item.type())
self.assertEqual('units1', item.units().name())
item = annotator.item('variable_1')
self.assertEqual(CellmlElementType.VARIABLE, item.type())
self.assertEqual('variable1', item.variable().name())
def test_create_destroy(self):
from libcellml import Annotator
x = Annotator()
self.assertIsNotNone(x)
del x
model = parser.parseModel(content)
# 1.d
# Check that the parser has not raised any issues.
print_issues(parser)
# end 1
print('----------------------------------------------------------')
print(' STEP 2: Find "marco" ')
print('----------------------------------------------------------')
# 2.a
# Create an Annotator item and use the setModel function to pass in the parsed
# mystery model.
annotator = Annotator()
annotator.setModel(model)
# end 2.a
# The item function returns a AnyItem, a std.pair whose:
# - first attribute is a CellmlElementType enumeration and
# - second attribute is a std.any cast of the item itself.
# 2.b
# Retrieve the item with an id of 'marco'. Use the helper function
# cellmlElementTypeAsString to convert the enumeration of its type into a
# string for printing to the terminal.
marco_item = annotator.item('marco')
print('The item with ID "marco" is a {}'.format(
cellmlElementTypeAsString(marco_item.type())))
from libcellml import Annotator, CellmlElementType, Parser
if __name__ == "__main__":
# STEP 1
# Parse an existing CellML model from a file.
read_file = open("annotationExample.cellml", "r")
parser = Parser()
model = parser.parseModel(read_file.read())
# STEP 2
# Create an Annotator instance and pass the model to it for processing.
annotator = Annotator()
annotator.setModel(model)
# Retrieve a dictionary of all the id strings and the types of items they represent.
dictionary = annotator.dictionary()
print('Existing id strings are:')
for i, itemType in dictionary:
print(' {} = {}'.format(i, itemType))
print()
# STEP 3
# Retrieve items by their id where the item type is known.
# Retrieve a component with the id of 'yellow'. We can only do this because
# we have prior knowledge that the item with id of 'yellow' is actually
# a Component.
component = annotator.component('yellow')
# The same applies to the other item types below.