I'm using a bytecode library known as ASM to alter classfiles, then I want to write each classfile back into a jar file rather than a folder filled with class files. I do this by running this code:

My problem occurs when a ZipException is throw for not being the expected size, i.e.

java.util.zip.ZipException: invalid entry compressed size (expected 695 but got 693 bytes)
    at java.util.zip.ZipOutputStream.closeEntry(Unknown Source)
    at org.steinburg.client.accessor.Accessor.accessJar(Accessor.java:64)
    at org.steinburg.client.accessor.Accessor.<init>(Accessor.java:41)
    at Loader.main(Loader.java:5)


package org.steinburg.client.accessor;

import java.io.DataInputStream;
import java.io.File;
import java.io.FileOutputStream;
import java.io.InputStream;
import java.util.Enumeration;
import java.util.jar.JarEntry;
import java.util.jar.JarFile;
import java.util.jar.JarOutputStream;

import org.objectweb.asm.ClassReader;
import org.objectweb.asm.ClassWriter;

public class Accessor {

private String input;
private File inFile;
private JarEntry jarEntry;
private JarFile jarFile;
private Enumeration<JarEntry> entries;
private InputStream is;

private String out;
private File outFile;
private FileOutputStream fos;
private JarOutputStream jos;

private byte[] bytes;

public Accessor(){
    try{
        input = new String("Input Jar.jar");
        inFile = new File(input);
        jarFile = new JarFile(inFile);
        entries = jarFile.entries();
        out = new String("Output Jar.jar");
        outFile = new File(out);
        fos = new FileOutputStream(outFile);
        jos = new JarOutputStream(fos);
        accessJar();
    } catch (Exception e) {
        e.printStackTrace();
    }
}

protected final void accessJar(){
    try {
        while (entries.hasMoreElements()){
            jarEntry = entries.nextElement();
            is = jarFile.getInputStream(jarEntry);
            if (jarEntry.getName().endsWith(".class")){
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