Program: 90718
Project: 90718
Buggy source:
public JSONConfiguration(final ConfigurationFactory.ConfigurationSource configSource){
  this.configFile=configSource.getFile();
  byte[] buffer;
  try {
    final InputStream configStream=configSource.getInputStream();
    buffer=toByteArray(configStream);
    configStream.close();
    final InputStream is=new ByteArrayInputStream(buffer);
    final ObjectMapper mapper=new ObjectMapper().configure(JsonParser.Feature.ALLOW_COMMENTS,true);
    root=mapper.readTree(is);
    if (root.size() == 1) {
      final Iterator<JsonNode> i=root.getElements();
      root=i.next();
    }
    processAttributes(rootNode,root);
    Level status=Level.OFF;
    boolean verbose=false;
    PrintStream stream=System.out;
    for (    final Map.Entry<String,String> entry : rootNode.getAttributes().entrySet()) {
      if ("String_Node_Str".equalsIgnoreCase(entry.getKey())) {
        status=Level.toLevel(getSubst().replace(entry.getValue()),null);
        if (status == null) {
          status=Level.ERROR;
          messages.add("String_Node_Str" + entry.getValue() + "String_Node_Str");
        }
      }
 else       if ("String_Node_Str".equalsIgnoreCase(entry.getKey())) {
        final String dest=entry.getValue();
        if (dest != null) {
          if (dest.equalsIgnoreCase("String_Node_Str")) {
            stream=System.err;
          }
 else {
            try {
              final File destFile=FileUtils.fileFromURI(new URI(dest));
              stream=new PrintStream(new FileOutputStream(destFile));
            }
 catch (            final URISyntaxException use) {
              System.err.println("String_Node_Str" + dest + "String_Node_Str");
            }
          }
        }
      }
 else       if ("String_Node_Str".equalsIgnoreCase(entry.getKey())) {
        verbose=Boolean.parseBoolean(getSubst().replace(entry.getValue()));
      }
 else       if ("String_Node_Str".equalsIgnoreCase(entry.getKey())) {
        final String[] packages=getSubst().replace(entry.getValue()).split("String_Node_Str");
        for (        final String p : packages) {
          PluginManager.addPackage(p);
        }
      }
 else       if ("String_Node_Str".equalsIgnoreCase(entry.getKey())) {
        setName(getSubst().replace(entry.getValue()));
      }
 else       if ("String_Node_Str".equalsIgnoreCase(entry.getKey())) {
        final int interval=Integer.parseInt(getSubst().replace(entry.getValue()));
        if (interval > 0 && configFile != null) {
          monitor=new FileConfigurationMonitor(this,configFile,listeners,interval);
        }
      }
 else       if ("String_Node_Str".equalsIgnoreCase(entry.getKey())) {
        final String advertiserString=getSubst().replace(entry.getValue());
        if (advertiserString != null) {
          @SuppressWarnings("String_Node_Str") final PluginType<Advertiser> type=getPluginManager().getPluginType(advertiserString);
          if (type != null) {
            final Class<Advertiser> clazz=type.getPluginClass();
            advertiser=clazz.newInstance();
            advertisedConfiguration=new HashMap<String,String>();
            advertisedConfiguration.put("String_Node_Str",new String(buffer));
            advertisedConfiguration.put("String_Node_Str","String_Node_Str");
            advertisedConfiguration.put("String_Node_Str","String_Node_Str");
            if (configSource.getLocation() != null) {
              advertisedConfiguration.put("String_Node_Str",configSource.getLocation());
            }
          }
        }
      }
    }
    final Iterator<StatusListener> statusIter=((StatusLogger)LOGGER).getListeners();
    boolean found=false;
    while (statusIter.hasNext()) {
      final StatusListener listener=statusIter.next();
      if (listener instanceof StatusConsoleListener) {
        found=true;
        ((StatusConsoleListener)listener).setLevel(status);
        if (!verbose) {
          ((StatusConsoleListener)listener).setFilters(VERBOSE_CLASSES);
        }
      }
    }
    if (!found && status != Level.OFF) {
      final StatusConsoleListener listener=new StatusConsoleListener(status,stream);
      if (!verbose) {
        listener.setFilters(VERBOSE_CLASSES);
      }
      ((StatusLogger)LOGGER).registerListener(listener);
      for (      final String msg : messages) {
        LOGGER.error(msg);
      }
    }
    if (getName() == null) {
      setName(configSource.getLocation());
    }
  }
 catch (  final Exception ex) {
    LOGGER.error("String_Node_Str" + configSource.getLocation(),ex);
    ex.printStackTrace();
  }
}

Fixed version (ground truth):
public JSONConfiguration(final ConfigurationFactory.ConfigurationSource configSource){
  this.configFile=configSource.getFile();
  byte[] buffer;
  try {
    final InputStream configStream=configSource.getInputStream();
    buffer=toByteArray(configStream);
    configStream.close();
    final InputStream is=new ByteArrayInputStream(buffer);
    final ObjectMapper mapper=new ObjectMapper().configure(JsonParser.Feature.ALLOW_COMMENTS,true);
    root=mapper.readTree(is);
    if (root.size() == 1) {
      final Iterator<JsonNode> i=root.getElements();
      root=i.next();
    }
    processAttributes(rootNode,root);
    Level status=Level.OFF;
    boolean verbose=false;
    PrintStream stream=System.out;
    for (    final Map.Entry<String,String> entry : rootNode.getAttributes().entrySet()) {
      if ("String_Node_Str".equalsIgnoreCase(entry.getKey())) {
        status=Level.toLevel(getSubst().replace(entry.getValue()),null);
        if (status == null) {
          status=Level.ERROR;
          messages.add("String_Node_Str" + entry.getValue() + "String_Node_Str");
        }
      }
 else       if ("String_Node_Str".equalsIgnoreCase(entry.getKey())) {
        final String dest=entry.getValue();
        if (dest != null) {
          if (dest.equalsIgnoreCase("String_Node_Str")) {
            stream=System.err;
          }
 else {
            try {
              final File destFile=FileUtils.fileFromURI(new URI(dest));
              final String enc=Charset.defaultCharset().name();
              stream=new PrintStream(new FileOutputStream(destFile),true,enc);
            }
 catch (            final URISyntaxException use) {
              System.err.println("String_Node_Str" + dest + "String_Node_Str");
            }
          }
        }
      }
 else       if ("String_Node_Str".equalsIgnoreCase(entry.getKey())) {
        verbose=Boolean.parseBoolean(getSubst().replace(entry.getValue()));
      }
 else       if ("String_Node_Str".equalsIgnoreCase(entry.getKey())) {
        final String[] packages=getSubst().replace(entry.getValue()).split("String_Node_Str");
        for (        final String p : packages) {
          PluginManager.addPackage(p);
        }
      }
 else       if ("String_Node_Str".equalsIgnoreCase(entry.getKey())) {
        setName(getSubst().replace(entry.getValue()));
      }
 else       if ("String_Node_Str".equalsIgnoreCase(entry.getKey())) {
        final int interval=Integer.parseInt(getSubst().replace(entry.getValue()));
        if (interval > 0 && configFile != null) {
          monitor=new FileConfigurationMonitor(this,configFile,listeners,interval);
        }
      }
 else       if ("String_Node_Str".equalsIgnoreCase(entry.getKey())) {
        final String advertiserString=getSubst().replace(entry.getValue());
        if (advertiserString != null) {
          @SuppressWarnings("String_Node_Str") final PluginType<Advertiser> type=getPluginManager().getPluginType(advertiserString);
          if (type != null) {
            final Class<Advertiser> clazz=type.getPluginClass();
            advertiser=clazz.newInstance();
            advertisedConfiguration=new HashMap<String,String>();
            advertisedConfiguration.put("String_Node_Str",new String(buffer));
            advertisedConfiguration.put("String_Node_Str","String_Node_Str");
            advertisedConfiguration.put("String_Node_Str","String_Node_Str");
            if (configSource.getLocation() != null) {
              advertisedConfiguration.put("String_Node_Str",configSource.getLocation());
            }
          }
        }
      }
    }
    final Iterator<StatusListener> statusIter=((StatusLogger)LOGGER).getListeners();
    boolean found=false;
    while (statusIter.hasNext()) {
      final StatusListener listener=statusIter.next();
      if (listener instanceof StatusConsoleListener) {
        found=true;
        ((StatusConsoleListener)listener).setLevel(status);
        if (!verbose) {
          ((StatusConsoleListener)listener).setFilters(VERBOSE_CLASSES);
        }
      }
    }
    if (!found && status != Level.OFF) {
      final StatusConsoleListener listener=new StatusConsoleListener(status,stream);
      if (!verbose) {
        listener.setFilters(VERBOSE_CLASSES);
      }
      ((StatusLogger)LOGGER).registerListener(listener);
      for (      final String msg : messages) {
        LOGGER.error(msg);
      }
    }
    if (getName() == null) {
      setName(configSource.getLocation());
    }
  }
 catch (  final Exception ex) {
    LOGGER.error("String_Node_Str" + configSource.getLocation(),ex);
    ex.printStackTrace();
  }
}