test_class.file: storage/io/src/test/java/org/openscience/cdk/io/PMPReaderTest.java
test_class.identifier: PMPReaderTest
test_class.superclass: extends SimpleChemObjectReaderTest
test_case.body: @Test
      public void testAccepts() {
          PMPReader reader = new PMPReader();
          Assert.assertTrue(reader.accepts(ChemFile.class));
      }
test_case.class_method_signature: PMPReaderTest.testAccepts()
test_case.full_signature: @Test public void testAccepts()
test_case.identifier: testAccepts
test_case.invocations: assertTrue accepts
test_case.modifiers: @Test public
test_case.parameters: ()
test_case.return: void
test_case.signature: void testAccepts()
focal_class.declarator: PMP_ZORDER   = "ZOrder"
focal_class.modifier: private static final
focal_class.original_string: private static final String   PMP_ZORDER   = "ZOrder";
focal_class.type: String
focal_class.var_name: PMP_ZORDER
focal_class.declarator: PMP_ID       = "Id"
focal_class.modifier: private static final
focal_class.original_string: private static final String   PMP_ID       = "Id";
focal_class.type: String
focal_class.var_name: PMP_ID
focal_class.declarator: input
focal_class.modifier: private
focal_class.original_string: private BufferedReader        input;
focal_class.type: BufferedReader
focal_class.var_name: input
focal_class.declarator: logger       = LoggingToolFactory.createLoggingTool(PMPReader.class)
focal_class.modifier: private static
focal_class.original_string: private static ILoggingTool   logger       = LoggingToolFactory.createLoggingTool(PMPReader.class);
focal_class.type: ILoggingTool
focal_class.var_name: logger
focal_class.declarator: modelStructure
focal_class.modifier: private
focal_class.original_string: private IAtomContainer        modelStructure;
focal_class.type: IAtomContainer
focal_class.var_name: modelStructure
focal_class.declarator: chemObject
focal_class.modifier: private
focal_class.original_string: private IChemObject           chemObject;
focal_class.type: IChemObject
focal_class.var_name: chemObject
focal_class.declarator: atomids      = new Hashtable<>()
focal_class.modifier: private
focal_class.original_string: private Map<Integer, Integer> atomids      = new Hashtable<>();
focal_class.type: Map<Integer, Integer>
focal_class.var_name: atomids
focal_class.declarator: atomGivenIds = new Hashtable<>()
focal_class.modifier: private
focal_class.original_string: private Map<Integer, Integer> atomGivenIds = new Hashtable<>();
focal_class.type: Map<Integer, Integer>
focal_class.var_name: atomGivenIds
focal_class.declarator: bondids      = new Hashtable<>()
focal_class.modifier: private
focal_class.original_string: private Map<Integer, Integer> bondids      = new Hashtable<>();
focal_class.type: Map<Integer, Integer>
focal_class.var_name: bondids
focal_class.declarator: bondAtomOnes = new Hashtable<>()
focal_class.modifier: private
focal_class.original_string: private Map<Integer, Integer> bondAtomOnes = new Hashtable<>();
focal_class.type: Map<Integer, Integer>
focal_class.var_name: bondAtomOnes
focal_class.declarator: bondAtomTwos = new Hashtable<>()
focal_class.modifier: private
focal_class.original_string: private Map<Integer, Integer> bondAtomTwos = new Hashtable<>();
focal_class.type: Map<Integer, Integer>
focal_class.var_name: bondAtomTwos
focal_class.declarator: bondOrders   = new Hashtable<>()
focal_class.modifier: private
focal_class.original_string: private Map<Integer, Double>  bondOrders   = new Hashtable<>();
focal_class.type: Map<Integer, Double>
focal_class.var_name: bondOrders
focal_class.declarator: objHeader
focal_class.original_string: Pattern                       objHeader;
focal_class.type: Pattern
focal_class.var_name: objHeader
focal_class.declarator: objCommand
focal_class.original_string: Pattern                       objCommand;
focal_class.type: Pattern
focal_class.var_name: objCommand
focal_class.declarator: atomTypePattern
focal_class.original_string: Pattern                       atomTypePattern;
focal_class.type: Pattern
focal_class.var_name: atomTypePattern
focal_class.declarator: lineNumber
focal_class.original_string: int                           lineNumber;
focal_class.type: int
focal_class.var_name: lineNumber
focal_class.declarator: bondCounter  = 0
focal_class.original_string: int                           bondCounter  = 0;
focal_class.type: int
focal_class.var_name: bondCounter
focal_class.declarator: rebonder
focal_class.modifier: private
focal_class.original_string: private RebondTool            rebonder;
focal_class.type: RebondTool
focal_class.var_name: rebonder
focal_class.file: storage/io/src/main/java/org/openscience/cdk/io/PMPReader.java
focal_class.identifier: PMPReader
focal_class.class_method_signature: PMPReader.PMPReader(Reader input)
focal_class.full_signature: public  PMPReader(Reader input)
focal_class.identifier: PMPReader
focal_class.modifiers: public
focal_class.parameters: (Reader input)
focal_class.signature:  PMPReader(Reader input)
focal_class.class_method_signature: PMPReader.PMPReader(InputStream input)
focal_class.full_signature: public  PMPReader(InputStream input)
focal_class.identifier: PMPReader
focal_class.modifiers: public
focal_class.parameters: (InputStream input)
focal_class.signature:  PMPReader(InputStream input)
focal_class.class_method_signature: PMPReader.PMPReader()
focal_class.full_signature: public  PMPReader()
focal_class.identifier: PMPReader
focal_class.modifiers: public
focal_class.parameters: ()
focal_class.signature:  PMPReader()
focal_class.class_method_signature: PMPReader.getFormat()
focal_class.full_signature: @Override public IResourceFormat getFormat()
focal_class.identifier: getFormat
focal_class.modifiers: @Override public
focal_class.parameters: ()
focal_class.return: IResourceFormat
focal_class.signature: IResourceFormat getFormat()
focal_class.class_method_signature: PMPReader.setReader(Reader input)
focal_class.full_signature: @Override public void setReader(Reader input)
focal_class.identifier: setReader
focal_class.modifiers: @Override public
focal_class.parameters: (Reader input)
focal_class.return: void
focal_class.signature: void setReader(Reader input)
focal_class.class_method_signature: PMPReader.setReader(InputStream input)
focal_class.full_signature: @Override public void setReader(InputStream input)
focal_class.identifier: setReader
focal_class.modifiers: @Override public
focal_class.parameters: (InputStream input)
focal_class.return: void
focal_class.signature: void setReader(InputStream input)
focal_class.class_method_signature: PMPReader.accepts(Class<? extends IChemObject> classObject)
focal_class.full_signature: @Override @SuppressWarnings("unchecked") public boolean accepts(Class<? extends IChemObject> classObject)
focal_class.identifier: accepts
focal_class.modifiers: @Override @SuppressWarnings("unchecked") public
focal_class.parameters: (Class<? extends IChemObject> classObject)
focal_class.return: boolean
focal_class.signature: boolean accepts(Class<? extends IChemObject> classObject)
focal_class.class_method_signature: PMPReader.read(T object)
focal_class.full_signature: @Override @SuppressWarnings("unchecked") public T read(T object)
focal_class.identifier: read
focal_class.modifiers: @Override @SuppressWarnings("unchecked") public
focal_class.parameters: (T object)
focal_class.return: T
focal_class.signature: T read(T object)
focal_class.class_method_signature: PMPReader.readLine()
focal_class.full_signature: private String readLine()
focal_class.identifier: readLine
focal_class.modifiers: private
focal_class.parameters: ()
focal_class.return: String
focal_class.signature: String readLine()
focal_class.class_method_signature: PMPReader.readChemFile(IChemFile chemFile)
focal_class.full_signature: private IChemFile readChemFile(IChemFile chemFile)
focal_class.identifier: readChemFile
focal_class.modifiers: private
focal_class.parameters: (IChemFile chemFile)
focal_class.return: IChemFile
focal_class.signature: IChemFile readChemFile(IChemFile chemFile)
focal_class.class_method_signature: PMPReader.processModelCommand(String object, String command, String format, String field)
focal_class.full_signature: private void processModelCommand(String object, String command, String format, String field)
focal_class.identifier: processModelCommand
focal_class.modifiers: private
focal_class.parameters: (String object, String command, String format, String field)
focal_class.return: void
focal_class.signature: void processModelCommand(String object, String command, String format, String field)
focal_class.class_method_signature: PMPReader.constructObject(IChemObjectBuilder builder, String object)
focal_class.full_signature: private void constructObject(IChemObjectBuilder builder, String object)
focal_class.identifier: constructObject
focal_class.modifiers: private
focal_class.parameters: (IChemObjectBuilder builder, String object)
focal_class.return: void
focal_class.signature: void constructObject(IChemObjectBuilder builder, String object)
focal_class.class_method_signature: PMPReader.close()
focal_class.full_signature: @Override public void close()
focal_class.identifier: close
focal_class.modifiers: @Override public
focal_class.parameters: ()
focal_class.return: void
focal_class.signature: void close()
focal_class.superclass: extends DefaultChemObjectReader
focal_method.body: @Override
      @SuppressWarnings("unchecked")
      public boolean accepts(Class<? extends IChemObject> classObject) {
          if (IChemFile.class.equals(classObject)) return true;
          Class<?>[] interfaces = classObject.getInterfaces();
          for (Class<?> anInterface : interfaces) {
              if (IChemFile.class.equals(anInterface)) return true;
          }
          Class superClass = classObject.getSuperclass();
          if (superClass != null) return this.accepts(superClass);
          return false;
      }
focal_method.class_method_signature: PMPReader.accepts(Class<? extends IChemObject> classObject)
focal_method.full_signature: @Override @SuppressWarnings("unchecked") public boolean accepts(Class<? extends IChemObject> classObject)
focal_method.identifier: accepts
focal_method.invocations: equals getInterfaces equals getSuperclass accepts
focal_method.modifiers: @Override @SuppressWarnings("unchecked") public
focal_method.parameters: (Class<? extends IChemObject> classObject)
focal_method.return: boolean
focal_method.signature: boolean accepts(Class<? extends IChemObject> classObject)