test_class.declarator: atom412
test_class.modifier: private static
test_class.original_string: private static OakAtom atom412;
test_class.type: OakAtom
test_class.var_name: atom412
test_class.declarator: atom5444
test_class.modifier: private static
test_class.original_string: private static OakAtom atom5444;
test_class.type: OakAtom
test_class.var_name: atom5444
test_class.declarator: atomToModify
test_class.modifier: private static
test_class.original_string: private static OakAtom atomToModify;
test_class.type: OakAtom
test_class.var_name: atomToModify
test_class.file: singa-structure/src/test/java/bio/singa/structure/model/oak/OakAtomTest.java
test_class.identifier: OakAtomTest
test_case.body: @Test
      void getAtomName() {
          assertEquals("N2", atom412.getAtomName());
          assertEquals("N", atom5444.getAtomName());
      }
test_case.class_method_signature: OakAtomTest.getAtomName()
test_case.full_signature: @Test void getAtomName()
test_case.identifier: getAtomName
test_case.invocations: assertEquals getAtomName assertEquals getAtomName
test_case.modifiers: @Test
test_case.parameters: ()
test_case.return: void
test_case.signature: void getAtomName()
focal_class.declarator: identifier
focal_class.modifier: private final
focal_class.original_string: private final int identifier;
focal_class.type: int
focal_class.var_name: identifier
focal_class.declarator: element
focal_class.modifier: private final
focal_class.original_string: private final Element element;
focal_class.type: Element
focal_class.var_name: element
focal_class.declarator: atomName
focal_class.modifier: private final
focal_class.original_string: private final String atomName;
focal_class.type: String
focal_class.var_name: atomName
focal_class.declarator: neighbours
focal_class.modifier: private final
focal_class.original_string: private final Set<OakAtom> neighbours;
focal_class.type: Set<OakAtom>
focal_class.var_name: neighbours
focal_class.declarator: position
focal_class.modifier: private
focal_class.original_string: private Vector3D position;
focal_class.type: Vector3D
focal_class.var_name: position
focal_class.declarator: bFactor
focal_class.modifier: private
focal_class.original_string: private double bFactor;
focal_class.type: double
focal_class.var_name: bFactor
focal_class.file: singa-structure/src/main/java/bio/singa/structure/model/oak/OakAtom.java
focal_class.identifier: OakAtom
focal_class.interfaces: implements Atom
focal_class.class_method_signature: OakAtom.OakAtom(int identifier, Element element, String atomName, Vector3D position)
focal_class.full_signature: public  OakAtom(int identifier, Element element, String atomName, Vector3D position)
focal_class.identifier: OakAtom
focal_class.modifiers: public
focal_class.parameters: (int identifier, Element element, String atomName, Vector3D position)
focal_class.signature:  OakAtom(int identifier, Element element, String atomName, Vector3D position)
focal_class.class_method_signature: OakAtom.OakAtom(int identifier, Element element, String atomName)
focal_class.full_signature: public  OakAtom(int identifier, Element element, String atomName)
focal_class.identifier: OakAtom
focal_class.modifiers: public
focal_class.parameters: (int identifier, Element element, String atomName)
focal_class.signature:  OakAtom(int identifier, Element element, String atomName)
focal_class.class_method_signature: OakAtom.OakAtom(OakAtom atom)
focal_class.full_signature: public  OakAtom(OakAtom atom)
focal_class.identifier: OakAtom
focal_class.modifiers: public
focal_class.parameters: (OakAtom atom)
focal_class.signature:  OakAtom(OakAtom atom)
focal_class.class_method_signature: OakAtom.getAtomIdentifier()
focal_class.full_signature: @Override public Integer getAtomIdentifier()
focal_class.identifier: getAtomIdentifier
focal_class.modifiers: @Override public
focal_class.parameters: ()
focal_class.return: Integer
focal_class.signature: Integer getAtomIdentifier()
focal_class.class_method_signature: OakAtom.getPosition()
focal_class.full_signature: @Override public Vector3D getPosition()
focal_class.identifier: getPosition
focal_class.modifiers: @Override public
focal_class.parameters: ()
focal_class.return: Vector3D
focal_class.signature: Vector3D getPosition()
focal_class.class_method_signature: OakAtom.setPosition(Vector3D position)
focal_class.full_signature: @Override public void setPosition(Vector3D position)
focal_class.identifier: setPosition
focal_class.modifiers: @Override public
focal_class.parameters: (Vector3D position)
focal_class.return: void
focal_class.signature: void setPosition(Vector3D position)
focal_class.class_method_signature: OakAtom.getBFactor()
focal_class.full_signature: public double getBFactor()
focal_class.identifier: getBFactor
focal_class.modifiers: public
focal_class.parameters: ()
focal_class.return: double
focal_class.signature: double getBFactor()
focal_class.class_method_signature: OakAtom.setBFactor(double bFactor)
focal_class.full_signature: public void setBFactor(double bFactor)
focal_class.identifier: setBFactor
focal_class.modifiers: public
focal_class.parameters: (double bFactor)
focal_class.return: void
focal_class.signature: void setBFactor(double bFactor)
focal_class.class_method_signature: OakAtom.getElement()
focal_class.full_signature: @Override public Element getElement()
focal_class.identifier: getElement
focal_class.modifiers: @Override public
focal_class.parameters: ()
focal_class.return: Element
focal_class.signature: Element getElement()
focal_class.class_method_signature: OakAtom.getAtomName()
focal_class.full_signature: @Override public String getAtomName()
focal_class.identifier: getAtomName
focal_class.modifiers: @Override public
focal_class.parameters: ()
focal_class.return: String
focal_class.signature: String getAtomName()
focal_class.class_method_signature: OakAtom.addNeighbour(OakAtom node)
focal_class.full_signature: public void addNeighbour(OakAtom node)
focal_class.identifier: addNeighbour
focal_class.modifiers: public
focal_class.parameters: (OakAtom node)
focal_class.return: void
focal_class.signature: void addNeighbour(OakAtom node)
focal_class.class_method_signature: OakAtom.getNeighbours()
focal_class.full_signature: public Set<OakAtom> getNeighbours()
focal_class.identifier: getNeighbours
focal_class.modifiers: public
focal_class.parameters: ()
focal_class.return: Set<OakAtom>
focal_class.signature: Set<OakAtom> getNeighbours()
focal_class.class_method_signature: OakAtom.getCopy()
focal_class.full_signature: public OakAtom getCopy()
focal_class.identifier: getCopy
focal_class.modifiers: public
focal_class.parameters: ()
focal_class.return: OakAtom
focal_class.signature: OakAtom getCopy()
focal_class.class_method_signature: OakAtom.toString()
focal_class.full_signature: @Override public String toString()
focal_class.identifier: toString
focal_class.modifiers: @Override public
focal_class.parameters: ()
focal_class.return: String
focal_class.signature: String toString()
focal_class.class_method_signature: OakAtom.equals(Object o)
focal_class.full_signature: @Override public boolean equals(Object o)
focal_class.identifier: equals
focal_class.modifiers: @Override public
focal_class.parameters: (Object o)
focal_class.return: boolean
focal_class.signature: boolean equals(Object o)
focal_class.class_method_signature: OakAtom.hashCode()
focal_class.full_signature: @Override public int hashCode()
focal_class.identifier: hashCode
focal_class.modifiers: @Override public
focal_class.parameters: ()
focal_class.return: int
focal_class.signature: int hashCode()
focal_method.body: @Override
      public String getAtomName() {
          return atomName;
      }
focal_method.class_method_signature: OakAtom.getAtomName()
focal_method.full_signature: @Override public String getAtomName()
focal_method.identifier: getAtomName
focal_method.modifiers: @Override public
focal_method.parameters: ()
focal_method.return: String
focal_method.signature: String getAtomName()