class Ui_ReactionEditDialog(object):
def setupUi(self, ReactionEditDialog):
ReactionEditDialog.setObjectName("ReactionEditDialog")
ReactionEditDialog.resize(383, 200)
self.verticalLayout = QtWidgets.QVBoxLayout(ReactionEditDialog)
self.verticalLayout.setObjectName("verticalLayout")
self.attributeWidget = ReactionAttributesDisplayWidget(ReactionEditDialog)
self.attributeWidget.setObjectName("attributeWidget")
self.verticalLayout.addWidget(self.attributeWidget)
self.tabWidget = QtWidgets.QTabWidget(ReactionEditDialog)
self.tabWidget.setTabShape(QtWidgets.QTabWidget.Rounded)
self.tabWidget.setObjectName("tabWidget")
self.metaboliteTab = StoichiometryDisplayWidget()
self.metaboliteTab.setObjectName("metaboliteTab")
self.horizontalLayout_2 = QtWidgets.QHBoxLayout(self.metaboliteTab)
self.horizontalLayout_2.setObjectName("horizontalLayout_2")
self.tabWidget.addTab(self.metaboliteTab, "")
self.geneTab = GenesDisplayWidget()
self.geneTab.setObjectName("geneTab")
self.verticalLayout_3 = QtWidgets.QVBoxLayout(self.geneTab)
self.verticalLayout_3.setObjectName("verticalLayout_3")
self.tabWidget.addTab(self.geneTab, "")
self.annotationTab = AnnotationDisplayWidget()
self.annotationTab.setObjectName("annotationTab")
self.horizontalLayout_4 = QtWidgets.QHBoxLayout(self.annotationTab)
self.horizontalLayout_4.setObjectName("horizontalLayout_4")
self.tabWidget.addTab(self.annotationTab, "")
self.evidenceTab = EvidenceDisplayWidget()
self.evidenceTab.setObjectName("evidenceTab")
self.horizontalLayout_5 = QtWidgets.QHBoxLayout(self.evidenceTab)
self.horizontalLayout_5.setObjectName("horizontalLayout_5")
self.tabWidget.addTab(self.evidenceTab, "")
self.commentTab = CommentDisplayWidget()
self.commentTab.setObjectName("commentTab")
self.verticalLayout_6 = QtWidgets.QVBoxLayout(self.commentTab)
self.verticalLayout_6.setObjectName("verticalLayout_6")
self.tabWidget.addTab(self.commentTab, "")
self.verticalLayout.addWidget(self.tabWidget)
self.buttonBox = QtWidgets.QDialogButtonBox(ReactionEditDialog)
self.buttonBox.setOrientation(QtCore.Qt.Horizontal)
self.buttonBox.setStandardButtons(QtWidgets.QDialogButtonBox.Cancel|QtWidgets.QDialogButtonBox.Save)
self.buttonBox.setObjectName("buttonBox")
self.verticalLayout.addWidget(self.buttonBox)
self.retranslateUi(ReactionEditDialog)
self.tabWidget.setCurrentIndex(0)
self.buttonBox.accepted.connect(ReactionEditDialog.accept)
self.buttonBox.rejected.connect(ReactionEditDialog.reject)
QtCore.QMetaObject.connectSlotsByName(ReactionEditDialog)
def retranslateUi(self, ReactionEditDialog):
_translate = QtCore.QCoreApplication.translate
ReactionEditDialog.setWindowTitle(_translate("ReactionEditDialog", "Edit reaction"))
self.tabWidget.setTabText(self.tabWidget.indexOf(self.metaboliteTab), _translate("ReactionEditDialog", "Metabolites"))
self.tabWidget.setTabText(self.tabWidget.indexOf(self.geneTab), _translate("ReactionEditDialog", "Genes"))
self.tabWidget.setTabText(self.tabWidget.indexOf(self.annotationTab), _translate("ReactionEditDialog", "Annotations"))
self.tabWidget.setTabText(self.tabWidget.indexOf(self.evidenceTab), _translate("ReactionEditDialog", "Evidence"))
self.tabWidget.setTabText(self.tabWidget.indexOf(self.commentTab), _translate("ReactionEditDialog", "Comment"))
def test_reaction_enormous_bounds(self):
widget = ReactionAttributesDisplayWidget()
model = Model()
reaction = Reaction(id="test", lower_bound=-999999, upper_bound=999999)
widget.set_item(reaction, model)
assert widget.lowerBoundInput.value() == -999999
assert widget.upperBoundInput.value() == 999999
assert widget.lowerBoundInput.minimum() == -999999
assert widget.upperBoundInput.maximum() == 999999
def test_standard_reaction_bounds(self):
""" Check that bounds are set to standard values when the upper and lower bound are smaller"""
widget = ReactionAttributesDisplayWidget()
model = Model()
reaction = Reaction(lower_bound=-500, upper_bound=100)
widget.set_item(reaction, model)
assert widget.lowerBoundInput.value() == -500
assert widget.lowerBoundInput.maximum() == 100.
assert widget.lowerBoundInput.minimum() == -1000.
assert widget.upperBoundInput.value() == 100
assert widget.upperBoundInput.maximum() == 1000.
assert widget.upperBoundInput.minimum() == -500.
def test_setting_objective_value(self):
widget = ReactionAttributesDisplayWidget()
model = Model()
reaction = Reaction(id="test")
model.add_reactions((reaction, ))
widget.set_item(reaction, model)
new_value = 1.
assert reaction.objective_coefficient != new_value
widget.objectiveCoefficientInput.clear()
QtTest.QTest.keyClicks(widget.objectiveCoefficientInput,
str(new_value))
assert widget.objectiveCoefficientInput.value() == new_value
assert widget.content_changed is True
assert widget.valid_inputs() is True
def test_setting_lower_bound(self):
widget = ReactionAttributesDisplayWidget()
model = Model()
reaction = Reaction(id="test")
widget.set_item(reaction, model)
current_max = widget.lowerBoundInput.maximum()
current_min = widget.lowerBoundInput.minimum()
current_max_upper = widget.upperBoundInput.maximum()
widget.lowerBoundInput.clear()
QtTest.QTest.keyClicks(widget.lowerBoundInput, "-2000")
assert widget.lowerBoundInput.value() == -200.
assert widget.upperBoundInput.minimum() == -200.
assert widget.lowerBoundInput.maximum() == current_max
assert widget.lowerBoundInput.minimum() == current_min
assert widget.upperBoundInput.maximum() == current_max_upper
def test_setting_upper_bound(self):
widget = ReactionAttributesDisplayWidget()
model = Model()
reaction = Reaction(id="test")
widget.set_item(reaction, model)
# Clear input first as spinbox is already at max
current_max = widget.upperBoundInput.maximum()
current_min = widget.upperBoundInput.minimum()
current_min_lower = widget.lowerBoundInput.minimum()
widget.upperBoundInput.clear()
QtTest.QTest.keyClicks(widget.upperBoundInput, "500")
assert widget.upperBoundInput.value() == 500
assert widget.lowerBoundInput.maximum() == 500.
assert widget.upperBoundInput.maximum() == current_max
assert widget.upperBoundInput.minimum() == current_min
assert widget.lowerBoundInput.minimum() == current_min_lower
def test_changed_triggered_by_objective_coefficient_change(self):
widget = ReactionAttributesDisplayWidget()
mock = Mock()
widget.changed.connect(mock.test)
assert mock.test.called is False
QtTest.QTest.keyClicks(widget.objectiveCoefficientInput, "3")
assert mock.test.called is True
def test_changed_triggered_by_upper_bound_change(self):
widget = ReactionAttributesDisplayWidget()
mock = Mock()
widget.changed.connect(mock.test)
assert mock.test.called is False
QtTest.QTest.keyClicks(widget.upperBoundInput, "3")
assert mock.test.called is True
def test_changed_triggered_by_subsystem_change(self):
widget = ReactionAttributesDisplayWidget()
mock = Mock()
widget.changed.connect(mock.test)
assert mock.test.called is False
QtTest.QTest.keyClicks(widget.subsystemLineEdit, "A")
assert mock.test.called is True
def test_saving_changes(self):
widget = ReactionAttributesDisplayWidget()
reaction = Reaction("r1")
model = Model("id")
model.add_reactions((reaction, ))
widget.set_item(reaction, model)
new_id = "New id"
new_name = "New name"
new_subsytem = "New Subsystem"
new_upper_bound = 200.5
new_lower_bound = -300.5
new_obj_coefficient = 20.4
widget.idLineEdit.setText(new_id)
widget.nameLineEdit.setText(new_name)
widget.subsystemLineEdit.setText(new_subsytem)
widget.upperBoundInput.setValue(new_upper_bound)
widget.lowerBoundInput.setValue(new_lower_bound)
widget.objectiveCoefficientInput.setValue(new_obj_coefficient)
# Action
widget.save_state()
# Check that inputs are saved
assert reaction.id == new_id
assert reaction.name == new_name
assert reaction.subsystem == new_subsytem
assert reaction.lower_bound == new_lower_bound
assert reaction.upper_bound == new_upper_bound
assert reaction.objective_coefficient == new_obj_coefficient
def test_setting_reaction(self):
widget = ReactionAttributesDisplayWidget()
reaction = Reaction(id="id",
name="name",
subsystem="subsystem",
lower_bound=-1000.,
upper_bound=1000.)
model = Model()
model.add_reactions((reaction, ))
reaction.objective_coefficient = 1.
assert widget.idLineEdit.text() == ""
assert widget.nameLineEdit.text() == ""
assert widget.subsystemLineEdit.text() == ""
assert widget.lowerBoundInput.value() == 0.
assert widget.upperBoundInput.value() == 0.
assert widget.objectiveCoefficientInput.value() == 0.
assert widget.content_changed is False
assert widget.valid_inputs() is False
widget.set_item(reaction, model)
assert widget.idLineEdit.text() == reaction.id
assert widget.nameLineEdit.text() == reaction.name
assert widget.subsystemLineEdit.text() == reaction.subsystem
assert widget.lowerBoundInput.value() == reaction.lower_bound
assert widget.upperBoundInput.value() == reaction.upper_bound
assert widget.objectiveCoefficientInput.value(
) == reaction.objective_coefficient
assert widget.content_changed is False
assert widget.valid_inputs() is True
def test_valid_input(self):
reaction = Reaction(id="test")
model = Model()
widget = ReactionAttributesDisplayWidget()
widget.set_item(reaction, model)
assert widget.valid_inputs() is True
widget.idLineEdit.clear()
assert widget.valid_inputs() is False
def test_setting_subsystem(self):
widget = ReactionAttributesDisplayWidget()
model = Model()
reaction = Reaction(id="id")
widget.set_item(reaction, model)
assert widget.content_changed is False
assert widget.valid_inputs() is True
QtTest.QTest.keyClicks(widget.subsystemLineEdit, "Test")
assert widget.content_changed is True
assert widget.valid_inputs() is True