Develop Reference

Reading a large compressed file using Apache Commons Compress

I'm trying to read a bz2 file using Apache Commons Compress.
The following code works for a small file.
However for a large file (over 500MB), it ends after reading a few thousands lines without any error.
try {
InputStream fin = new FileInputStream("/data/file.bz2");
BufferedInputStream bis = new BufferedInputStream(fin);
CompressorInputStream input = new CompressorStreamFactory()
.createCompressorInputStream(bis);
BufferedReader br = new BufferedReader(new InputStreamReader(input,
"UTF-8"));
String line = "";
while ((line = br.readLine()) != null) {
System.out.println(line);
}
} catch (Exception e) {
e.printStackTrace();
}
Is there another good way to read a large compressed file?

I was having the same problem with a large file, until I noticed that CompressorStreamFactory has a couple of overloaded constructors that take a boolean decompressUntilEOF parameter.
Simply changing to the following may be all that's missing...
CompressorInputStream input = new CompressorStreamFactory(true)
.createCompressorInputStream(bis);
Clearly, whoever wrote this factory seems to think it's better to create new compressor input streams at certain points, with the same underlying buffered input stream so that the new one picks up where the last one left off. They seem to think that's a better default, or preferred way of doing it over allowing one stream to decompress data all the way to the end of the file. I've no doubt they are cleverer than me, and I haven't worked out what trap I'm setting for future me by setting this parameter to true. Maybe someone will tell me in the comments! :-)

Using OpenCSV to convert CSV file to XML using byte array in input

I have a question:
I'm trying to convert my CSV file to XML file and I'm seeing the response of this post: Java lib or app to convert CSV to XML file?
I see that I need use this OpenCSV library and in particular, I must use this code:
CSVReader reader = new CSVReader(new FileReader(startFile));
where String startFile = "./startData.csv";
Now, I don't get a String as startFile, but I have a byte[] because, for other question, I have convert my file in byte[]. How can I use this code with byte[]?
Are there alternatives?
Thanks

Since CSVReader's constructor takes a Reader as parameter, you can pretty much pass anything that's readable to it.
So in your case, you may try using a bytes stream reader, as in:
CSVReader reader = new CSVReader(
new InputStreamReader(
new ByteArrayInputStream(yourByteArray)));

Java reading a file different methods

It seems that there are many, many ways to read text files in Java (BufferedReader, DataInputStream etc.) My personal favorite is Scanner with a File in the constructor (it's just simpler, works with mathy data processing better, and has familiar syntax).
Boris the Spider also mentioned Channel and RandomAccessFile.
Can someone explain the pros and cons of each of these methods? To be specific, when would I want to use each?
(edit) I think I should be specific and add that I have a strong preference for the Scanner method. So the real question is, when wouldn't I want to use it?

Lets start at the beginning. The question is what do you want to do?
It's important to understand what a file actually is. A file is a collection of bytes on a disc, these bytes are your data. There are various levels of abstraction above that that Java provides:
File(Input|Output)Stream - read these bytes as a stream of byte.
File(Reader|Writer) - read from a stream of bytes as a stream of char.
Scanner - read from a stream of char and tokenise it.
RandomAccessFile - read these bytes as a searchable byte[].
FileChannel - read these bytes in a safe multithreaded way.
On top of each of those there are the Decorators, for example you can add buffering with BufferedXXX. You could add linebreak awareness to a FileWriter with PrintWriter. You could turn an InputStream into a Reader with an InputStreamReader (currently the only way to specify character encoding for a Reader).
So - when wouldn't I want to use it [a Scanner]?.
You would not use a Scanner if you wanted to, (these are some examples):
Read in data as bytes
Read in a serialized Java object
Copy bytes from one file to another, maybe with some filtering.
It is also worth nothing that the Scanner(File file) constructor takes the File and opens a FileInputStream with the platform default encoding - this is almost always a bad idea. It is generally recognised that you should specify the encoding explicitly to avoid nasty encoding based bugs. Further the stream isn't buffered.
So you may be better off with
try (final Scanner scanner = new Scanner(new BufferedInputStream(new FileInputStream())), "UTF-8") {
//do stuff
}
Ugly, I know.
It's worth noting that Java 7 Provides a further layer of abstraction to remove the need to loop over files - these are in the Files class:
byte[] Files.readAllBytes(Path path)
List<String> Files.readAllLines(Path path, Charset cs)
Both these methods read the entire file into memory, which might not be appropriate. In Java 8 this is further improved by adding support for the new Stream API:
Stream<String> Files.lines(Path path, Charset cs)
Stream<Path> Files.list(Path dir)
For example to get a Stream of words from a Path you can do:
final Stream<String> words = Files.lines(Paths.get("myFile.txt")).
flatMap((in) -> Arrays.stream(in.split("\\b")));

SCANNER:
can parse primitive types and strings using regular expressions.
A Scanner breaks its input into tokens using a delimiter pattern, which by default matches whitespace. The resulting tokens may then be converted into values of different types.more can be read at http://docs.oracle.com/javase/7/docs/api/java/util/Scanner.html
DATA INPUT STREAM:
Lets an application read primitive Java data types from an underlying input stream in a machine-independent way. An application uses a data output stream to write data that can later be read by a data input stream.DataInputStream is not necessarily safe for multithreaded access. Thread safety is optional and is the responsibility of users of methods in this class. More can be read at http://docs.oracle.com/javase/7/docs/api/java/io/DataInputStream.html
BufferedReader:
Reads text from a character-input stream, buffering characters so as to provide for the efficient reading of characters, arrays, and lines.The buffer size may be specified, or the default size may be used. The default is large enough for most purposes.In general, each read request made of a Reader causes a corresponding read request to be made of the underlying character or byte stream. It is therefore advisable to wrap a BufferedReader around any Reader whose read() operations may be costly, such as FileReaders and InputStreamReaders. For example,
BufferedReader in = new BufferedReader(new FileReader("foo.in"));
will buffer the input from the specified file. Without buffering, each invocation of read() or readLine() could cause bytes to be read from the file, converted into characters, and then returned, which can be very inefficient.Programs that use DataInputStreams for textual input can be localized by replacing each DataInputStream with an appropriate BufferedReader.More detail are at http://docs.oracle.com/javase/7/docs/api/java/io/BufferedReader.html

NOTE: This approach is outdated. As Boris points out in his comment. I will leave it here for history, but you should use methods available in JDK.
It depends on what kind of operation you are doing and the size of the file you are reading.
In most of the cases, I recommend using commons-io for small files.
byte[] data = FileUtils.readFileToByteArray(new File("myfile"));
You can read it as string or character array...
Now, you are handing big files, or changing parts of a file directly on the filesystem, then the best it to use a RandomAccessFile and potentially even a FileChannel to do "nio" style.

Using BufferedReader
BufferedReader reader;
char[] buffer = new char[10];
reader = new BufferedReader(new FileReader("FILE_PATH"));
//or
reader = Files.newBufferedReader(Path.get("FILE_PATH"));
while (reader.read(buffer) != -1) {
System.out.print(new String(buffer));
buffer = new char[10];
}
//or
while (buffReader.ready()) {
System.out.println(
buffReader.readLine());
}
reader.close();
Using FileInputStream-Read Binary Files to Bytes
FileInputStream fis;
byte[] buffer = new byte[10];
fis = new FileInputStream("FILE_PATH");
//or
fis=Files.newInoutSream(Paths.get("FILE_PATH"))
while (fis.read(buffer) != -1) {
System.out.print(new String(buffer));
buffer = new byte[10];
}
fis.close();
Using Files– Read Small File to List of Strings
List<String> allLines = Files.readAllLines(Paths.get("FILE_PATH"));
for (String line : allLines) {
System.out.println(line);
}
Using Scanner – Read Text File as Iterator
Scanner scanner = new Scanner(new File("FILE_PATH"));
while (scanner.hasNextLine()) {
System.out.println(scanner.nextLine());
}
scanner.close();
Using RandomAccessFile-Reading Files in Read-Only Mode
RandomAccessFile file = new RandomAccessFile("FILE_PATH", "r");
String str;
while ((str = file.readLine()) != null) {
System.out.println(str);
}
file.close();
Using Files.lines-Reading lines as stream
Stream<String> lines = Files.lines(Paths.get("FILE_PATH") .forEach(s -> System.out.println(s));
Using FileChannel-for increasing performance by using off-heap memory furthermore using MappedByteBuffer
FileInputStream i = new FileInputStream(("FILE_PATH");
ReadableByteChannel r = i.getChannel();
ByteBuffer buffer = ByteBuffer.allocateDirect(16 * 1024);
while (r.read(buffer) != -1) {
buffer.flip();
while (buffer.hasRemaining()) {
System.out.print((char) buffer.get());
}
buffer.clear();
}

Java - directly reading a file without downloading and storing locally [duplicate]

This question already has answers here:
How do I read / convert an InputStream into a String in Java?
(62 answers)
Closed 8 years ago.
I want to directly read a file, put it into a string without storing the file locally. I used to do this with an old project, but I don't have the source code anymore. I used to be able to get the source of my website this way.
However, I don't remember if I did it by "InputStream to String array of lines to String", or if I directly read it into a String.
Was there a function for this, or am I remembering wrong?
(Note: this function would be the PHP equivalent of file_get_contents($path))

You need to use InputStreamReader to convert from a binary input stream to a Reader which is appropriate for reading text.
After that, you need to read to the end of the reader.
Personally I'd do all this with Guava, which has convenience methods for this sort of thing, e.g. CharStreams.toString(Readable).
When you create the InputStreamReader, make sure you supply the appropriate character encoding - if you don't, you'll get junk text out (just like trying to play an MP3 file as if it were a WAV, for example).

Check out apache-commons-io and for your use case FileUtils.readFileToString(File file)
(should not be to hard to get a File form the path).
You can use the library or have a look at the code - as this is open.

There is no direct way to read a File into a String.
But there is a quick alternative - read the File into a Byte array and convert it into a String.
Untested:
File f = new File("/foo/bar");
InputStream fStream = new FileInputStream(f);
ByteArrayOutputStream bStream = new ByteArrayOutputStream();
for(int data = fStream.read(); data > -1; data = fStream.read()) {
b.write(data);
}
String theResult = new String(bStream.toByteArray(), "UTF-8");

Corrupt file when using Java to download file

This problem seems to happen inconsistently. We are using a java applet to download a file from our site, which we store temporarily on the client's machine.
Here is the code that we are using to save the file:
URL targetUrl = new URL(urlForFile);
InputStream content = (InputStream)targetUrl.getContent();
BufferedInputStream buffered = new BufferedInputStream(content);
File savedFile = File.createTempFile("temp",".dat");
FileOutputStream fos = new FileOutputStream(savedFile);
int letter;
while((letter = buffered.read()) != -1)
fos.write(letter);
fos.close();
Later, I try to access that file by using:
ObjectInputStream keyInStream = new ObjectInputStream(new FileInputStream(savedFile));
Most of the time it works without a problem, but every once in a while we get the error:
java.io.StreamCorruptedException: invalid stream header: 0D0A0D0A
which makes me believe that it isn't saving the file correctly.

I'm guessing that the operations you've done with getContent and BufferedInputStream have treated the file like an ascii file which has converted newlines or carriage returns into carriage return + newline (0x0d0a), which has confused ObjectInputStream (which expects serialized data objects.

If you are using an FTP URL, the transfer may be occurring in ASCII mode.
Try appending ";type=I" to the end of your URL.

Why are you using ObjectInputStream to read it?
As per the javadoc:
An ObjectInputStream deserializes primitive data and objects previously written using an ObjectOutputStream.
Probably the error comes from the fact you didn't write it with ObjectOutputStream.
Try reading it wit FileInputStream only.
Here's a sample for binary ( although not the most efficient way )
Here's another used for text files.

There are 3 big problems in your sample code:
You're not just treating the input as bytes
You're needlessly pulling the entire object into memory at once
You're doing multiple method calls for every single byte read and written -- use the array based read/write!
Here's a redo:
URL targetUrl = new URL(urlForFile);
InputStream is = targetUrl.getInputStream();
File savedFile = File.createTempFile("temp",".dat");
FileOutputStream fos = new FileOutputStream(savedFile);
int count;
byte[] buff = new byte[16 * 1024];
while((count = is.read(buff)) != -1) {
fos.write(buff, 0, count);
}
fos.close();
content.close();

You could also step back from the code and check to see if the file on your client is the same as the file on the server. If you get both files on an XP machine, you should be able to use the FC utility to do a compare (check FC's help if you need to run this as a binary compare as there is a switch for that). If you're on Unix, I don't know the file compare program, but I'm sure there's something.
If the files are identical, then you're looking at a problem with the code that reads the file.
If the files are not identical, focus on the code that writes your file.
Good luck!