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java.lang.StringIndexOutOfBoundsException: String index out of range when package name is changed

I want to read the annotations from .class file placed into random folder. I tried this:
public static void main(String[] args) throws Exception
{
final File folder = new File("/opt/test");
processAnnotatedFiles(listLocalFilesAndDirsAllLevels(folder));
}
public void processAnnotatedFiles(List<File> list) throws IOException, ClassNotFoundException {
out.println("Directory files size " + list.size());
for(int i=0; i<list.size(); i++) {
out.println("File " + list.get(i).getName());
File file = list.get(i);
String path = file.getPath();
String[] authors = getFixFromClassFile(Paths.get(path));
System.out.println(Arrays.toString(authors));
}
}
public List<File> listLocalFilesAndDirsAllLevels(File baseDir) {
List<File> collectedFilesAndDirs = new ArrayList<>();
Deque<File> remainingDirs = new ArrayDeque<>();
if(baseDir.exists()) {
remainingDirs.add(baseDir);
while(!remainingDirs.isEmpty()) {
File dir = remainingDirs.removeLast();
List<File> filesInDir = Arrays.asList(dir.listFiles());
for(File fileOrDir : filesInDir) {
// We need to process only .class files
if(fileOrDir.getName().endsWith(".class")){
collectedFilesAndDirs.add(fileOrDir);
if(fileOrDir.isDirectory()) {
remainingDirs.add(fileOrDir);
}
}
}
}
}
return collectedFilesAndDirs;
}
private String[] getFixFromClassFile(Path pathToClass) throws MalformedURLException, ClassNotFoundException {
// Create class loader based on path
URLClassLoader loader = new URLClassLoader(new URL[]{pathToClass.toUri().toURL()});
// convert path to class with package
String classWithPackage = getClassWithPackageFromPath(pathToClass);
// Load class dynamically
Class<?> clazz = loader.loadClass(classWithPackage);
Fix fix = clazz.getAnnotation(Fix.class);
if (fix == null) {
return new String[0];
}
return fix.author();
}
private String getClassWithPackageFromPath(Path pathToClass) {
final String packageStartsFrom = "com.";
final String classFileExtension = ".class";
final String pathWithDots = pathToClass.toString().replace(File.separator, ".");
return pathWithDots.substring(pathWithDots.indexOf(packageStartsFrom)).replace(classFileExtension, "");
}
I get java.lang.StringIndexOutOfBoundsException: String index out of range: -1
at java.lang.String.substring(String.java:1927)
In this part I want to create a package into random dir. It is really hard to create a valid package from path because there is no any rule package names should follow.
Can you give me some advice how this can be fixed?

loop to check if a file exists

I have a folder that must contain always one file config8, and if a new file is created in this folder the old file is deleted and replaced by the new file with the same name config8.
I write this code
File file1 = new File("/home/olfa/Bureau/config/config8");
File file2 = new File("/home/olfa/Bureau/config/config9");
while (file2.exists())
{
file1.delete();
file2.renameTo(file1); }
}
serverConnection = new ServerConnection("/home/olfa/Bureau/config/config8");
I need to add a loop to check everytime if config9 is created.

Instead of a loop try a WatchService.
Basically you would be watching a particular directory for change and then you can react on this change.
https://docs.oracle.com/javase/tutorial/essential/io/notification.html
For example :
import static java.nio.file.StandardWatchEventKinds.*;
WatchService watcher = FileSystems.getDefault().newWatchService();
Path dir = ...;
try {
WatchKey key = dir.register(watcher,
ENTRY_CREATE,
ENTRY_DELETE,
ENTRY_MODIFY);
} catch (IOException x) {
System.err.println(x);
}
Then you can process your key events.

If you have to solve this task with Java 1.6, you can use https://commons.apache.org/proper/commons-vfs/, version 2.1.
Here is an example for moving all incoming config files to "config8":
import org.apache.commons.vfs2.*;
import org.apache.commons.vfs2.impl.DefaultFileMonitor;
import java.io.File;
public class ConfigWatcher {
private static final String configDirName = "target/config";
private static final String configName = "config8";
private static final String absoluteConfigName = new File(configDirName + File.separator + configName).getAbsolutePath();
private FileSystemManager manager = null;
FileObject configDir = null;
private FileObject configFile = null;
private FileChangeEvent lastEvent = null;
public void watchConfig() throws Exception {
manager = VFS.getManager();
DefaultFileMonitor fm = new DefaultFileMonitor(new ConfigFileListener());
configFile = manager.resolveFile(absoluteConfigName);
configDir = manager.resolveFile(new File(configDirName).getAbsolutePath());
fm.setDelay(1000);
fm.addFile(configDir);
fm.start();
}
class ConfigFileListener implements FileListener {
public void fileCreated(FileChangeEvent fileChangeEvent) throws Exception {
FileObject latestConfigFile = fileChangeEvent.getFile();
String fileBaseName = fileChangeEvent.getFile().getName().getBaseName();
if (!configName.endsWith(fileBaseName) && !fileChangeEvent.equals(lastEvent)) {
System.out.println("new config detected - move config");
latestConfigFile.moveTo(configFile);
}
lastEvent = fileChangeEvent;
}
public void fileChanged(FileChangeEvent fileChangeEvent) {
}
public void fileDeleted(FileChangeEvent fileChangeEvent) {
}
}
public static void main(String[] args) throws Exception {
final ConfigWatcher configWatcher = new ConfigWatcher();
configWatcher.watchConfig();
while (true) {
Thread.sleep(1000);
}
}
}

Convert .doc with images to .html using xdocreport

i am converting doc to html using following code
private static final String docName = "This is a test page.docx";
private static final String outputlFolderPath = "C://";
String htmlNamePath = "docHtml1.html";
String zipName="_tmp.zip";
static File docFile = new File(outputlFolderPath+docName);
File zipFile = new File(zipName);
public void ConvertWordToHtml() {
try {
InputStream doc = new FileInputStream(new File(outputlFolderPath+docName));
System.out.println("InputStream"+doc);
XWPFDocument document = new XWPFDocument(doc);
XHTMLOptions options = XHTMLOptions.create(); //.URIResolver(new FileURIResolver(new File("word/media")));;
String root = "target";
File imageFolder = new File( root + "/images/" + doc );
options.setExtractor( new FileImageExtractor( imageFolder ) );
options.URIResolver( new FileURIResolver( imageFolder ) );
OutputStream out = new FileOutputStream(new File(htmlPath()));
XHTMLConverter.getInstance().convert(document, out, options);
} catch (Exception ex) {
}
}
public static void main(String[] args) throws IOException, ParserConfigurationException, Exception {
Convertion cwoWord=new Convertion();
cwoWord.ConvertWordToHtml();
}
public String htmlPath(){
return outputlFolderPath+htmlNamePath;
}
public String zipPath(){
// d:/_tmp.zip
return outputlFolderPath+zipName;
}
Above code is converting doc to html fine. Issue comes when i try to convert a doc file which has graphics
like circle (shown in screenshot), In this case, graphics doesn't show into html file.
Please help me out how can we maintain graphics from doc to html file as well after conversion. Thanks in Advance

You can embed the images in the html by using the following code:
Base64ImageExtractor imageExtractor = new Base64ImageExtractor();
options.setExtractor(imageExtractor);
options.URIResolver(imageExtractor);
where Base64ImageExtractor looks like:
public class Base64ImageExtractor implements IImageExtractor, IURIResolver {
private byte[] picture;
public void extract(String imagePath, byte[] imageData) throws IOException {
this.picture = imageData;
}
private static final String EMBED_IMG_SRC_PREFIX = "data:;base64,";
public String resolve(String uri) {
StringBuilder sb = new StringBuilder(picture.length + EMBED_IMG_SRC_PREFIX.length())
.append(EMBED_IMG_SRC_PREFIX)
.append(Base64Utility.encode(picture));
return sb.toString();
}
}

LOG4J2 Use multiple config files using java

can log4j2 use multiple config files. I wanna run my project and load one default config file - logger.xml and after that to check if there is a second configuration from another file logger_1.xml and to add it and not to override the first one.
Here is some dummy code. In short I wanna fill up the arrayList with file paths and then to load all of them.
public class LoggerConfiguratorManager
{
public static final String LOG4J_PATH = "etc/confs/logger.xml";
private static LoggerContext context = null;
private static final ConfigurationFactory factory = XmlConfigurationFactory.getInstance();
private static ConfigurationSource configurationSource = null;
private static Configuration configuration = null;
private static final ArrayList<String> registred_logger = new ArrayList<>();
private static void loadLoggerConfig(String logger_path)
{
InputStream is = null;
try
{
if(logger_path.endsWith(".xml"))
is = new FileInputStream(logger_path);
else
{
final ZipFile archive = new ZipFile(logger_path);
final ZipEntry logger_entry = archive.getEntry(LOG4J_PATH);
if(logger_entry == null) throw new IOException("Cannot find 'logger.xml' in " + logger_path);
is = archive.getInputStream(logger_entry);
}
configurationSource = new ConfigurationSource(is);
configuration = factory.getConfiguration(configurationSource);
}
catch(IOException ex)
{
System.err.println("=============================================================================");
System.err.println("=============================== LOGGER CONFIG ===============================");
System.err.println("=============================================================================");
System.err.println("=== [ERROR] " + ex);
}
finally
{
if (configurationSource != null)
{
context = Configurator.initialize(null, configurationSource);
context.start(configuration);
try { is.close(); } catch(IOException ex) { }
}
}
}
public static void load()
{
registred_logger.add(Globals.getClassLocation(LoggerConfiguratorManager.class));
for(final String conf : registred_logger)
loadLoggerConfig(conf);
}
public static void regLoggerConf(String conf_path) { registred_logger.add(conf_path); }

I would suggest doing instead:
public class LoggerConfiguratorManager {
private static final String LOG4J_PATH = "etc/confs/log4j2.xml";
private static final StringBuffer paths = new StringBuffer(LOG4J_PATH);
public static void registerConfiguration(String confPath) {
paths.append(",").append(confPath);
}
public static void initLog4j() {
Configurator.initializer("My Config", null, paths.toString(), null);
}
}
For a full working example please see https://github.com/rgoers/CompositeConfigurationExample.

Read json file and how to change hard coding path

Question : I want to change the hard coding json file path. The path will be from detailsListHM but I dont know how to do it.
Here is my main program
public class Program {
// hard coding json file path
private static final String filePath = "C:/appSession.json";
public static void main(String[] args)
{
taskManager();
}
public static void taskManager()
{
detailsHM = jsonParser(filePath);
}
public static HashMap<String, String> jsonParser(String jsonFilePath)
{
HashMap<String, String> detailsHM = new HashMap<String, String>();
String refGene = "";
try {
// read the json file
FileReader reader = new FileReader(filePath);
} catch (FileNotFoundException ex) {
ex.printStackTrace();
}
}
}
Here is another class called CustomConfiguration
public class CustomConfiguration {
private static HashMap<String, String> detailsListHM =new HashMap<String,String>();
public static void readConfig(String a) {
//read from config.properties file
try {
String result = "";
Properties properties = new Properties();
String propFileName = a;
InputStream inputStream = new FileInputStream(propFileName);
properties.load(inputStream);
// get the property value and print it out
String lofreqPath = properties.getProperty("lofreqPath");
String bamFilePath = properties.getProperty("bamFilePath");
String bamFilePath2 = properties.getProperty("bamFilePath2");
String resultPath = properties.getProperty("resultPath");
String refGenPath = properties.getProperty("refGenPath");
String filePath = properties.getProperty("filePath");
Set keySet = properties.keySet();
List keyList = new ArrayList(keySet);
Collections.sort(keyList);
Iterator itr = keyList.iterator();
while (itr.hasNext()) {
String key = (String) itr.next();
String value = properties.getProperty(key.toString());
detailsListHM.put(key, value);
}
} catch (IOException ex) {
System.err.println("CustomConfiguration - readConfig():" + ex.getMessage());
}
}
public static HashMap<String, String> getConfigHM() {
return detailsListHM;
}

Add a new property call "json-filepath" and read like
String filePath = properties.getProperty("json-filepath");
So the end user can change the json file path even during the runtime.

you can pass the filePath parameter by using the main parameters.
public static void main(String[] args) {
String filePath = null;
if(args.length > 0) {
filePath = args[0];
}
}
And invoke your main class like this:
java Program C:/appSession.json