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Base64 Encoded to Decoded File Conversion Problem

I am processing very large files (> 2Gig). Each input file is Base64 encoded, andI am outputting to new files after decoding. Depending on the buffer size (LARGE_BUF) and for a given input file, my input to output conversion either works fine, is missing one or more bytes, or throws an exception at the outputStream.write line (IllegalArgumentException: Last unit does not have enough bits). Here is the code snippet (could not cut and paste so my not be perfect):
.
.
final int LARGE_BUF = 1024;
byte[] inBuf = new byte[LARGE_BUF];
try(InputStream inputStream = new FileInputStream(inFile); OutputStream outStream new new FileOutputStream(outFile)) {
for(int len; (len = inputStream.read(inBuf)) > 0); ) {
String out = new String(inBuf, 0, len);
outStream.write(Base64.getMimeDecoder().decode(out.getBytes()));
}
}
For instance, for my sample input file, if LARGE_BUF is 1024, output file is 4 bytes too small, if 2*1024, I get the exception mentioned above, if 7*1024, it works correctly. Grateful for any ideas. Thank you.

First, you are converting bytes into a String, then immediately back into bytes. So, remove the use of String entirely.
Second, base64 encoding turns each sequence of three bytes into four bytes, so when decoding, you need four bytes to properly decode three bytes of original data. It is not safe to create a new decoder for each arbitrarily read sequence of bytes, which may or may not have a length which is an exact multiple of four.
Finally, Base64.Decoder has a wrap(InputStream) method which makes this considerably easier:
try (InputStream inputStream = Base64.getDecoder().wrap(
new BufferedInputStream(
Files.newInputStream(Paths.get(inFile))))) {
Files.copy(inputStream, Paths.get(outFile));
}

Pink/Purple Color with Java Resizer

I'm using Groovy&Grails and thumbnailator to resize thumbnails with this lines of code:
BufferedImage image = ImageIO.read(new FileInputStream("input.jpg"))
BufferedImage output = Thumbnails.of(image).size(400, 400).crop(Positions.CENTER).asBufferedImage()
ByteArrayOutputStream baos = new ByteArrayOutputStream()
ImageIO.write(output, "jpg", baos)
baos.flush()
OutputStream outputStream = new FileOutputStream("output.jpg")
baos.writeTo(outputStream)
baos.close()
This works in 99% of all cases (same Java, OS, Sourcecode), with input.jpg. But in some non-reproducible cases, the image will become this:
I've checked other threads, such as the following link:
Pink/Reddish tint while resizing jpeg images using java thumbnailator or imgscalr
I'm stuck with the situation that the exact same file works 99%, but in some, to be defined cases, doesn't.
My question: How can this behaviour be reproduced?

Although the input is expected to be the same every time, something must be changing. What you can do is write out the input file unchanged along with output.jpg. When you encounter the problem then you'll be able to compare it's input file with the input file of a resize that have worked.
There should be some difference. If there is, then the problem is likely in the process providing the input file. If there isn't, which would be quite surprising, then something is wrong with the resizing code.
TIP: You can use SHAx, MD5, etc to determine if the input files are different.
Confirming the input file
To confirm the input file, you can write the incoming data to a separate file.
def inputCopy = new FileOutputStream("input-SOMETHING-UNIQUE-HERE.jpg")
def input = new WritingInputStream(
new FileInputStream("input.jpg"),
inputCopy)
BufferedImage image = ImageIO.read(input)
...
inputCopy.close()
The WritingInputStream writes data to an OutputStream as it's read from an InputStream. The source code is shown below:
class WritingInputStream extends FilterInputStream {
private OutputStream output
public WritingInputStream(InputStream input, OutputStream output) {
super(input)
this.output = output
}
int read() {
int data = super.read()
output.write(data)
return data
}
int read(byte[] b) {
int result = super.read(b)
output.write(b)
return result
}
int read(byte[] b, int off, int len) {
int result = super.read(b, off, len)
output.write(b, off, len)
return result
}
}
An alternative to writing the inputCopy file out is to use an ByteArrayOutputStream and log the SHA1 of it's contents which you can then compare that to the SHA1 of the input file.

How to convert byte array to buffered image

I have a server-side java code that gets a byte array from the client. In order to do some image processing, I need to convert the byte array into a BufferedImage. I have a code that's supposed to do that here:
public void processImage(byte[] data) {
ByteArrayInputStream stream = new ByteArrayInputStream(data);
BufferedImage bufferedImage;
bufferedImage = ImageIO.read(stream);
// bufferedImage is null
//...
}
But this doesn't work; bufferedImage is null. According to the ImageIO documentation:
If no registered ImageReader claims to be able to read the resulting stream, null is returned.
How do I tell the ImageReader what image type it is. For instance, if I know the image to be JPEG (which it is, in my case), what am I supposed to do?
EDIT: Thanks for the suggestion that the file is most likely not in JPEG format. This is the client-side code I have that sends the data as String over to the server:
import org.json.JSONObject;
// Client-side code that sends image to server as String
public void sendImage() {
FileInputStream inputStream = new FileInputStream(new File("myImage.jpg"));
ByteArrayOutputStream byteStream = new ByteArrayOutputStream();
byte[] b = new byte[1024];
while ((bytesRead = inputStream.read(b)) != -1) {
byteStream.write(b,0,bytesRead);
}
byte[] byteArray = byteStream.toByteArray();
JSONObject jsonObject = new JSONObject();
jsonObject.put("data",new String(byteArray));
// ... more code here that sends jsonObject in HTTP post body
}
And this is the server-side code that calls the processImage() function:
// Server-side code that calls processImage() function
public void handleRequest(String jsonData) {
JSONObject jsonObject = new JSONObject(jsonData);
processImage(jsonObject.getString("data").getBytes());
}

The most likely explanation is that the byte array doesn't contain a JPEG image. (For instance, if you've just attempted to download it, you may have an HTML document giving an error diagnostic.) If that's the case, you'll need to find what is causing this and fix it.
However, if you "know" that the byte array contains an image with a given format, you could do something like this:
Use ImageIO.getImageReadersByFormatName or ImageIO.getImageReadersByMIMEType to get an Iterator<ImageReader>.
Pull the first ImageReader from the Iterator.
Create an MemoryCacheImageInputStream wrapping a ByteArrayInputStream for the types.
Use ImageReader.setInput to connect the reader to the ImageInputStream.
Use ImageReader.read to get the BufferedImage.

Memory problems loading a file, plus converting into hex

I'm trying to make a file hexadecimal converter (input file -> output hex string of the file)
The code I came up with is
static String open2(String path) throws FileNotFoundException, IOException,OutOfMemoryError {
System.out.println("BEGIN LOADING FILE");
StringBuilder sb = new StringBuilder();
//sb.ensureCapacity(2147483648);
int size = 262144;
FileInputStream f = new FileInputStream(path);
FileChannel ch = f.getChannel( );
byte[] barray = new byte[size];
ByteBuffer bb = ByteBuffer.wrap( barray );
while (ch.read(bb) != -1)
{
//System.out.println(sb.capacity());
sb.append(bytesToHex(barray));
bb.clear();
}
System.out.println("FILE LOADED; BRING IT BACK");
return sb.toString();
}
I am sure that "path" is a valid filename.
The problem is with big files (>=
500mb), the compiler outputs a OutOfMemoryError: Java Heap Space on the StringBuilder.append.
To create this code I followed some tips from http://nadeausoftware.com/articles/2008/02/java_tip_how_read_files_quickly but I got a doubt when I tried to force a space allocation for the StringBuilder sb: "2147483648 is too big for an int".
If I want to use this code even with very big files (let's say up to 2gb if I really have to stop somewhere) what's the better way to output a hexadecimal string conversion of the file in terms of speed?
I'm now working on copying the converted string into a file. Anyway I'm having problems of "writing the empty buffer on the file" after the eof of the original one.
static String open3(String path) throws FileNotFoundException, IOException {
System.out.println("BEGIN LOADING FILE (Hope this is the last change)");
FileWriter fos = new FileWriter("HEXTMP");
int size = 262144;
FileInputStream f = new FileInputStream(path);
FileChannel ch = f.getChannel( );
byte[] barray = new byte[size];
ByteBuffer bb = ByteBuffer.wrap( barray );
while (ch.read(bb) != -1)
{
fos.write(bytesToHex(barray));
bb.clear();
}
System.out.println("FILE LOADED; BRING IT BACK");
return "HEXTMP";
}
obviously the file HEXTMP created has a size multiple of 256k, but if the file is 257k it will be a 512 file with LOT of "000000" at the end.
I know I just have to create a last byte array with cut length.
(I used a file writer because i wanted to write the string of hex; otherwise it would have just copied the file as-is)

Why are you loading complete file?
You can load few bytes in buffer from input file, process bytes in buffer, then write processed bytes buffer to output file. Continue this till all bytes from input file are not processed.
FileInputStream fis = new FileInputStream("in file");
FileOutputStream fos = new FileOutputStream("out");
byte buffer [] = new byte[8192];
while(true){
int count = fis.read(buffer);
if(count == -1)
break;
byte[] processed = processBytesToConvert(buffer, count);
fos.write(processed);
}
fis.close();
fos.close();
So just read few bytes in buffer, convert it to hex string, get bytes from converted hex string, then write back these bytes to file, and continue for next few input bytes.

The problem here is that you try to read the whole file and store it in memory.
You should use stream, read some lines of your input file, convert them and write them in the output file. That way your program can scale, whatever the size of the input file is.

The key would be to read file in chunks instead of reading all of it in one go. Depending on its use you could vary size of the chunk. For example, if you are trying to make a hex viewer / editor determine how much content is being shown in the viewport and read only as much of data from file. Or if you are simply converting and dumping hex to another file use any chunk size that is small enough to fit in memory but big enough for performance. This should be tunable over some runs. Perhaps use filesystem NIO in Java 7 so that you can do all three tasks - reading, processing and writing - concurrently. The link included in question gives good primer on reading files.

Java - Image encoding in XML

I thought I would find a solution to this problem relatively easily, but here I am calling upon the help from ye gods to pull me out of this conundrum.
So, I've got an image and I want to store it in an XML document using Java. I have previously achieved this in VisualBasic by saving the image to a stream, converting the stream to an array, and then VB's xml class was able to encode the array as a base64 string. But, after a couple of hours of scouring the net for an equivalent solution in Java, I've come back empty handed. The only success I have had has been by:
import it.sauronsoftware.base64.*;
import java.awt.image.BufferedImage;
import org.w3c.dom.*;
...
BufferedImage img;
Element node;
...
java.io.ByteArrayOutputStream os = new java.io.ByteArrayOutputStream();
ImageIO.write(img, "png", os);
byte[] array = Base64.encode(os.toByteArray());
String ss = arrayToString(array, ",");
node.setTextContent(ss);
...
private static String arrayToString(byte[] a, String separator) {
StringBuffer result = new StringBuffer();
if (a.length > 0) {
result.append(a[0]);
for (int i=1; i<a.length; i++) {
result.append(separator);
result.append(a[i]);
}
}
return result.toString();
}
Which is okay I guess, but reversing the process to get it back to an image when I load the XML file has proved impossible. If anyone has a better way to encode/decode an image in an XML file, please step forward, even if it's just a link to another thread that would be fine.
Cheers in advance,
Hoopla.

I've done something similar (encoding and decoding in Base64) and it worked like a charm. Here's what I think you should do, using the class Base64 from the Apache Commons project:
// ENCODING
BufferedImage img = ImageIO.read(new File("image.png"));
ByteArrayOutputStream baos = new ByteArrayOutputStream();
ImageIO.write(img, "png", baos);
baos.flush();
String encodedImage = Base64.encodeToString(baos.toByteArray());
baos.close(); // should be inside a finally block
node.setTextContent(encodedImage); // store it inside node
// DECODING
String encodedImage = node.getTextContent();
byte[] bytes = Base64.decode(encodedImage);
BufferedImage image = ImageIO.read(new ByteArrayInputStream(bytes));
Hope it helps.

Apache Commons has a Base64 class that should be helpful to you:
From there, you can just write out the bytes (they are already in a readable format)

After you get your byte array
byte[] array = Base64.encode(os.toByteArray());
use an encoded String :
String encodedImg = new String( array, "utf-8");
Then you can do fun things in your xml like
<binImg string-encoding="utf-8" bin-encoding="base64" img-type="png"><![CDATA[ encodedIImg here ]]></binImg>

With Java 6, you can use DatatypeConverter to convert a byte array to a Base64 string:
byte[] imageData = ...
String base64String = DatatypeConverter.printBase64Binary(imageData);
And to convert it back:
String base64String = ...
byte[] imageData = DatatypeConverter.parseBase64Binary(base64String);

Your arrayToString() method is rather bizarre (what's the point of that separator?). Why not simply say
String s = new String(array, "US-ASCII");
The reverse operation is
byte[] array = s.getBytes("US-ASCII");
Use the ASCII encoding, which should be sufficient when dealing with Base64 encoded data. Also, I'd prefer a Base64 encoder from a reputable source like Apache Commons.

You don't need to invent your own XML data type for this. XML schema defines standard binary data types, such as base64Binary, which is exactly what you are trying to do.
Once you use the standard types, it can be converted into binary automatically by some parsers (like XMLBeans). If your parser doesn't handle it, you can find classes for base64Binary in many places since the datatype is widely used in SOAP, XMLSec etc.

most easy implementation I was able to made is as below, And this is from Server to Server XML transfer containing binary data Base64 is from the Apache Codec library:
- Reading binary data from DB and create XML
Blob blobData = oRs.getBlob("ClassByteCode");
byte[] bData = blobData.getBytes(1, (int)blobData.length());
bData = Base64.encodeBase64(bData);
String strClassByteCode = new String(bData,"US-ASCII");
on requesting server read the tag and save it in DB
byte[] bData = strClassByteCode.getBytes("US-ASCII");
bData = Base64.decodeBase64(bData);
oPrStmt.setBytes( ++nParam, bData );
easy as it can be..
I'm still working on implementing the streaming of the XML as it is generated from the first server where the XML is created and stream it to the response object, this is to take care when the XML with binary data is too large.
Vishesh Sahu

The basic problem is that you cannot have an arbitrary bytestream in an XML document, so you need to encode it somehow. A frequent encoding scheme is BASE64, but any will do as long as the recipient knows about it.

I know that the question was aking how to encode an image via XML, but it is also possible to just stream the bytes via an HTTP GET request instead of using XML and encoding an image. Note that input is a FileInputStream.
Server Code:
File f = new File(uri_string);
FileInputStream input = new FileInputStream(f);
OutputStream output = exchange.getResponseBody();
int c = 0;
while ((c = input.read()) != -1) {
output.write(c); //writes each byte to the exchange.getResponseBody();
}
result = new DownloadFileResult(int_list);
if (input != null) {input.close();}
if (output != null){ output.close();}
Client Code:
InputStream input = connection.getInputStream();
List<Integer> l = new ArrayList<>();
int b = 0;
while((b = input.read()) != -1){
l.add(b);//you can do what you wish with this list of ints ie- write them to a file. see code below.
}
Here is how you would write the Integer list to a file:
FileOutputStream out = new FileOutputStream("path/to/file.png");
for(int i : result_bytes_list){
out.write(i);
}
out.close();

node.setTextContent( base64.encodeAsString( fileBytes ) )
using org.apache.commons.codec.binary.Base64