test_class.file: base/datadebug/src/test/java/org/openscience/cdk/debug/DebugAtomTypeTest.java
test_class.identifier: DebugAtomTypeTest
test_class.superclass: extends AbstractAtomTypeTest
test_case.body: @Test
      public void testCompare_DiffBondOrderSum() {
          DebugAtomType at1 = new DebugAtomType("C");
          DebugAtomType at2 = new DebugAtomType("C");
          at1.setBondOrderSum(1.5);
          at2.setBondOrderSum(2.0);
          Assert.assertFalse(at1.compare(at2));
      }
test_case.class_method_signature: DebugAtomTypeTest.testCompare_DiffBondOrderSum()
test_case.full_signature: @Test public void testCompare_DiffBondOrderSum()
test_case.identifier: testCompare_DiffBondOrderSum
test_case.invocations: setBondOrderSum setBondOrderSum assertFalse compare
test_case.modifiers: @Test public
test_case.parameters: ()
test_case.return: void
test_case.signature: void testCompare_DiffBondOrderSum()
focal_class.declarator: serialVersionUID = 1427549696666679540L
focal_class.modifier: private static final
focal_class.original_string: private static final long serialVersionUID = 1427549696666679540L;
focal_class.type: long
focal_class.var_name: serialVersionUID
focal_class.declarator: logger           = LoggingToolFactory.createLoggingTool(DebugAtomType.class)
focal_class.original_string: ILoggingTool              logger           = LoggingToolFactory.createLoggingTool(DebugAtomType.class);
focal_class.type: ILoggingTool
focal_class.var_name: logger
focal_class.file: base/datadebug/src/main/java/org/openscience/cdk/debug/DebugAtomType.java
focal_class.identifier: DebugAtomType
focal_class.interfaces: implements IAtomType
focal_class.class_method_signature: DebugAtomType.DebugAtomType(String elementSymbol)
focal_class.full_signature: public  DebugAtomType(String elementSymbol)
focal_class.identifier: DebugAtomType
focal_class.modifiers: public
focal_class.parameters: (String elementSymbol)
focal_class.signature:  DebugAtomType(String elementSymbol)
focal_class.class_method_signature: DebugAtomType.DebugAtomType(String identifier, String elementSymbol)
focal_class.full_signature: public  DebugAtomType(String identifier, String elementSymbol)
focal_class.identifier: DebugAtomType
focal_class.modifiers: public
focal_class.parameters: (String identifier, String elementSymbol)
focal_class.signature:  DebugAtomType(String identifier, String elementSymbol)
focal_class.class_method_signature: DebugAtomType.DebugAtomType(IElement element)
focal_class.full_signature: public  DebugAtomType(IElement element)
focal_class.identifier: DebugAtomType
focal_class.modifiers: public
focal_class.parameters: (IElement element)
focal_class.signature:  DebugAtomType(IElement element)
focal_class.class_method_signature: DebugAtomType.getAtomicNumber()
focal_class.full_signature: @Override public Integer getAtomicNumber()
focal_class.identifier: getAtomicNumber
focal_class.modifiers: @Override public
focal_class.parameters: ()
focal_class.return: Integer
focal_class.signature: Integer getAtomicNumber()
focal_class.class_method_signature: DebugAtomType.setAtomicNumber(Integer atomicNumber)
focal_class.full_signature: @Override public void setAtomicNumber(Integer atomicNumber)
focal_class.identifier: setAtomicNumber
focal_class.modifiers: @Override public
focal_class.parameters: (Integer atomicNumber)
focal_class.return: void
focal_class.signature: void setAtomicNumber(Integer atomicNumber)
focal_class.class_method_signature: DebugAtomType.getSymbol()
focal_class.full_signature: @Override public String getSymbol()
focal_class.identifier: getSymbol
focal_class.modifiers: @Override public
focal_class.parameters: ()
focal_class.return: String
focal_class.signature: String getSymbol()
focal_class.class_method_signature: DebugAtomType.setSymbol(String symbol)
focal_class.full_signature: @Override public void setSymbol(String symbol)
focal_class.identifier: setSymbol
focal_class.modifiers: @Override public
focal_class.parameters: (String symbol)
focal_class.return: void
focal_class.signature: void setSymbol(String symbol)
focal_class.class_method_signature: DebugAtomType.addListener(IChemObjectListener col)
focal_class.full_signature: @Override public void addListener(IChemObjectListener col)
focal_class.identifier: addListener
focal_class.modifiers: @Override public
focal_class.parameters: (IChemObjectListener col)
focal_class.return: void
focal_class.signature: void addListener(IChemObjectListener col)
focal_class.class_method_signature: DebugAtomType.getListenerCount()
focal_class.full_signature: @Override public int getListenerCount()
focal_class.identifier: getListenerCount
focal_class.modifiers: @Override public
focal_class.parameters: ()
focal_class.return: int
focal_class.signature: int getListenerCount()
focal_class.class_method_signature: DebugAtomType.removeListener(IChemObjectListener col)
focal_class.full_signature: @Override public void removeListener(IChemObjectListener col)
focal_class.identifier: removeListener
focal_class.modifiers: @Override public
focal_class.parameters: (IChemObjectListener col)
focal_class.return: void
focal_class.signature: void removeListener(IChemObjectListener col)
focal_class.class_method_signature: DebugAtomType.notifyChanged()
focal_class.full_signature: @Override public void notifyChanged()
focal_class.identifier: notifyChanged
focal_class.modifiers: @Override public
focal_class.parameters: ()
focal_class.return: void
focal_class.signature: void notifyChanged()
focal_class.class_method_signature: DebugAtomType.notifyChanged(IChemObjectChangeEvent evt)
focal_class.full_signature: @Override public void notifyChanged(IChemObjectChangeEvent evt)
focal_class.identifier: notifyChanged
focal_class.modifiers: @Override public
focal_class.parameters: (IChemObjectChangeEvent evt)
focal_class.return: void
focal_class.signature: void notifyChanged(IChemObjectChangeEvent evt)
focal_class.class_method_signature: DebugAtomType.setProperty(Object description, Object property)
focal_class.full_signature: @Override public void setProperty(Object description, Object property)
focal_class.identifier: setProperty
focal_class.modifiers: @Override public
focal_class.parameters: (Object description, Object property)
focal_class.return: void
focal_class.signature: void setProperty(Object description, Object property)
focal_class.class_method_signature: DebugAtomType.removeProperty(Object description)
focal_class.full_signature: @Override public void removeProperty(Object description)
focal_class.identifier: removeProperty
focal_class.modifiers: @Override public
focal_class.parameters: (Object description)
focal_class.return: void
focal_class.signature: void removeProperty(Object description)
focal_class.class_method_signature: DebugAtomType.getProperty(Object description)
focal_class.full_signature: @Override public T getProperty(Object description)
focal_class.identifier: getProperty
focal_class.modifiers: @Override public
focal_class.parameters: (Object description)
focal_class.return: T
focal_class.signature: T getProperty(Object description)
focal_class.class_method_signature: DebugAtomType.getProperties()
focal_class.full_signature: @Override public Map<Object, Object> getProperties()
focal_class.identifier: getProperties
focal_class.modifiers: @Override public
focal_class.parameters: ()
focal_class.return: Map<Object, Object>
focal_class.signature: Map<Object, Object> getProperties()
focal_class.class_method_signature: DebugAtomType.getID()
focal_class.full_signature: @Override public String getID()
focal_class.identifier: getID
focal_class.modifiers: @Override public
focal_class.parameters: ()
focal_class.return: String
focal_class.signature: String getID()
focal_class.class_method_signature: DebugAtomType.setID(String identifier)
focal_class.full_signature: @Override public void setID(String identifier)
focal_class.identifier: setID
focal_class.modifiers: @Override public
focal_class.parameters: (String identifier)
focal_class.return: void
focal_class.signature: void setID(String identifier)
focal_class.class_method_signature: DebugAtomType.setFlag(int flagType, boolean flagValue)
focal_class.full_signature: @Override public void setFlag(int flagType, boolean flagValue)
focal_class.identifier: setFlag
focal_class.modifiers: @Override public
focal_class.parameters: (int flagType, boolean flagValue)
focal_class.return: void
focal_class.signature: void setFlag(int flagType, boolean flagValue)
focal_class.class_method_signature: DebugAtomType.getFlag(int flagType)
focal_class.full_signature: @Override public boolean getFlag(int flagType)
focal_class.identifier: getFlag
focal_class.modifiers: @Override public
focal_class.parameters: (int flagType)
focal_class.return: boolean
focal_class.signature: boolean getFlag(int flagType)
focal_class.class_method_signature: DebugAtomType.addProperties(Map<Object, Object> properties)
focal_class.full_signature: @Override public void addProperties(Map<Object, Object> properties)
focal_class.identifier: addProperties
focal_class.modifiers: @Override public
focal_class.parameters: (Map<Object, Object> properties)
focal_class.return: void
focal_class.signature: void addProperties(Map<Object, Object> properties)
focal_class.class_method_signature: DebugAtomType.setFlags(boolean[] flagsNew)
focal_class.full_signature: @Override public void setFlags(boolean[] flagsNew)
focal_class.identifier: setFlags
focal_class.modifiers: @Override public
focal_class.parameters: (boolean[] flagsNew)
focal_class.return: void
focal_class.signature: void setFlags(boolean[] flagsNew)
focal_class.class_method_signature: DebugAtomType.getFlags()
focal_class.full_signature: @Override public boolean[] getFlags()
focal_class.identifier: getFlags
focal_class.modifiers: @Override public
focal_class.parameters: ()
focal_class.return: boolean[]
focal_class.signature: boolean[] getFlags()
focal_class.class_method_signature: DebugAtomType.clone()
focal_class.full_signature: @Override public Object clone()
focal_class.identifier: clone
focal_class.modifiers: @Override public
focal_class.parameters: ()
focal_class.return: Object
focal_class.signature: Object clone()
focal_class.class_method_signature: DebugAtomType.getBuilder()
focal_class.full_signature: @Override public IChemObjectBuilder getBuilder()
focal_class.identifier: getBuilder
focal_class.modifiers: @Override public
focal_class.parameters: ()
focal_class.return: IChemObjectBuilder
focal_class.signature: IChemObjectBuilder getBuilder()
focal_class.class_method_signature: DebugAtomType.setNaturalAbundance(Double naturalAbundance)
focal_class.full_signature: @Override public void setNaturalAbundance(Double naturalAbundance)
focal_class.identifier: setNaturalAbundance
focal_class.modifiers: @Override public
focal_class.parameters: (Double naturalAbundance)
focal_class.return: void
focal_class.signature: void setNaturalAbundance(Double naturalAbundance)
focal_class.class_method_signature: DebugAtomType.setExactMass(Double exactMass)
focal_class.full_signature: @Override public void setExactMass(Double exactMass)
focal_class.identifier: setExactMass
focal_class.modifiers: @Override public
focal_class.parameters: (Double exactMass)
focal_class.return: void
focal_class.signature: void setExactMass(Double exactMass)
focal_class.class_method_signature: DebugAtomType.getNaturalAbundance()
focal_class.full_signature: @Override public Double getNaturalAbundance()
focal_class.identifier: getNaturalAbundance
focal_class.modifiers: @Override public
focal_class.parameters: ()
focal_class.return: Double
focal_class.signature: Double getNaturalAbundance()
focal_class.class_method_signature: DebugAtomType.getExactMass()
focal_class.full_signature: @Override public Double getExactMass()
focal_class.identifier: getExactMass
focal_class.modifiers: @Override public
focal_class.parameters: ()
focal_class.return: Double
focal_class.signature: Double getExactMass()
focal_class.class_method_signature: DebugAtomType.getMassNumber()
focal_class.full_signature: @Override public Integer getMassNumber()
focal_class.identifier: getMassNumber
focal_class.modifiers: @Override public
focal_class.parameters: ()
focal_class.return: Integer
focal_class.signature: Integer getMassNumber()
focal_class.class_method_signature: DebugAtomType.setMassNumber(Integer massNumber)
focal_class.full_signature: @Override public void setMassNumber(Integer massNumber)
focal_class.identifier: setMassNumber
focal_class.modifiers: @Override public
focal_class.parameters: (Integer massNumber)
focal_class.return: void
focal_class.signature: void setMassNumber(Integer massNumber)
focal_class.class_method_signature: DebugAtomType.setAtomTypeName(String identifier)
focal_class.full_signature: @Override public void setAtomTypeName(String identifier)
focal_class.identifier: setAtomTypeName
focal_class.modifiers: @Override public
focal_class.parameters: (String identifier)
focal_class.return: void
focal_class.signature: void setAtomTypeName(String identifier)
focal_class.class_method_signature: DebugAtomType.setMaxBondOrder(IBond.Order maxBondOrder)
focal_class.full_signature: @Override public void setMaxBondOrder(IBond.Order maxBondOrder)
focal_class.identifier: setMaxBondOrder
focal_class.modifiers: @Override public
focal_class.parameters: (IBond.Order maxBondOrder)
focal_class.return: void
focal_class.signature: void setMaxBondOrder(IBond.Order maxBondOrder)
focal_class.class_method_signature: DebugAtomType.setBondOrderSum(Double bondOrderSum)
focal_class.full_signature: @Override public void setBondOrderSum(Double bondOrderSum)
focal_class.identifier: setBondOrderSum
focal_class.modifiers: @Override public
focal_class.parameters: (Double bondOrderSum)
focal_class.return: void
focal_class.signature: void setBondOrderSum(Double bondOrderSum)
focal_class.class_method_signature: DebugAtomType.getAtomTypeName()
focal_class.full_signature: @Override public String getAtomTypeName()
focal_class.identifier: getAtomTypeName
focal_class.modifiers: @Override public
focal_class.parameters: ()
focal_class.return: String
focal_class.signature: String getAtomTypeName()
focal_class.class_method_signature: DebugAtomType.getMaxBondOrder()
focal_class.full_signature: @Override public IBond.Order getMaxBondOrder()
focal_class.identifier: getMaxBondOrder
focal_class.modifiers: @Override public
focal_class.parameters: ()
focal_class.return: IBond.Order
focal_class.signature: IBond.Order getMaxBondOrder()
focal_class.class_method_signature: DebugAtomType.getBondOrderSum()
focal_class.full_signature: @Override public Double getBondOrderSum()
focal_class.identifier: getBondOrderSum
focal_class.modifiers: @Override public
focal_class.parameters: ()
focal_class.return: Double
focal_class.signature: Double getBondOrderSum()
focal_class.class_method_signature: DebugAtomType.setFormalCharge(Integer charge)
focal_class.full_signature: @Override public void setFormalCharge(Integer charge)
focal_class.identifier: setFormalCharge
focal_class.modifiers: @Override public
focal_class.parameters: (Integer charge)
focal_class.return: void
focal_class.signature: void setFormalCharge(Integer charge)
focal_class.class_method_signature: DebugAtomType.getFormalCharge()
focal_class.full_signature: @Override public Integer getFormalCharge()
focal_class.identifier: getFormalCharge
focal_class.modifiers: @Override public
focal_class.parameters: ()
focal_class.return: Integer
focal_class.signature: Integer getFormalCharge()
focal_class.class_method_signature: DebugAtomType.setFormalNeighbourCount(Integer count)
focal_class.full_signature: @Override public void setFormalNeighbourCount(Integer count)
focal_class.identifier: setFormalNeighbourCount
focal_class.modifiers: @Override public
focal_class.parameters: (Integer count)
focal_class.return: void
focal_class.signature: void setFormalNeighbourCount(Integer count)
focal_class.class_method_signature: DebugAtomType.getFormalNeighbourCount()
focal_class.full_signature: @Override public Integer getFormalNeighbourCount()
focal_class.identifier: getFormalNeighbourCount
focal_class.modifiers: @Override public
focal_class.parameters: ()
focal_class.return: Integer
focal_class.signature: Integer getFormalNeighbourCount()
focal_class.class_method_signature: DebugAtomType.setHybridization(IAtomType.Hybridization hybridization)
focal_class.full_signature: @Override public void setHybridization(IAtomType.Hybridization hybridization)
focal_class.identifier: setHybridization
focal_class.modifiers: @Override public
focal_class.parameters: (IAtomType.Hybridization hybridization)
focal_class.return: void
focal_class.signature: void setHybridization(IAtomType.Hybridization hybridization)
focal_class.class_method_signature: DebugAtomType.getHybridization()
focal_class.full_signature: @Override public IAtomType.Hybridization getHybridization()
focal_class.identifier: getHybridization
focal_class.modifiers: @Override public
focal_class.parameters: ()
focal_class.return: IAtomType.Hybridization
focal_class.signature: IAtomType.Hybridization getHybridization()
focal_class.class_method_signature: DebugAtomType.setCovalentRadius(Double radius)
focal_class.full_signature: @Override public void setCovalentRadius(Double radius)
focal_class.identifier: setCovalentRadius
focal_class.modifiers: @Override public
focal_class.parameters: (Double radius)
focal_class.return: void
focal_class.signature: void setCovalentRadius(Double radius)
focal_class.class_method_signature: DebugAtomType.getCovalentRadius()
focal_class.full_signature: @Override public Double getCovalentRadius()
focal_class.identifier: getCovalentRadius
focal_class.modifiers: @Override public
focal_class.parameters: ()
focal_class.return: Double
focal_class.signature: Double getCovalentRadius()
focal_class.class_method_signature: DebugAtomType.setValency(Integer valency)
focal_class.full_signature: @Override public void setValency(Integer valency)
focal_class.identifier: setValency
focal_class.modifiers: @Override public
focal_class.parameters: (Integer valency)
focal_class.return: void
focal_class.signature: void setValency(Integer valency)
focal_class.class_method_signature: DebugAtomType.getValency()
focal_class.full_signature: @Override public Integer getValency()
focal_class.identifier: getValency
focal_class.modifiers: @Override public
focal_class.parameters: ()
focal_class.return: Integer
focal_class.signature: Integer getValency()
focal_class.superclass: extends AtomType
focal_method.body: @Override
      public void setBondOrderSum(Double bondOrderSum) {
          logger.debug("Setting bond order sum: ", bondOrderSum);
          super.setBondOrderSum(bondOrderSum);
      }
focal_method.class_method_signature: DebugAtomType.setBondOrderSum(Double bondOrderSum)
focal_method.full_signature: @Override public void setBondOrderSum(Double bondOrderSum)
focal_method.identifier: setBondOrderSum
focal_method.invocations: debug setBondOrderSum
focal_method.modifiers: @Override public
focal_method.parameters: (Double bondOrderSum)
focal_method.return: void
focal_method.signature: void setBondOrderSum(Double bondOrderSum)