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ZipException thrown when using jogl in eclipse

This is Eclipse project build path:
files in project:
rob#work:~/git/thegame$ ll lib/linux32/
total 708
drwxr-xr-x 2 rob rob 4096 Mar 22 02:37 ./
drwxr-xr-x 4 rob rob 4096 Mar 22 02:23 ../
-rw-r--r-- 1 rob rob 8704 Mar 10 14:00 libgluegen-rt.so
-rw-r--r-- 1 rob rob 666380 Mar 11 03:22 libjogl_desktop.so
-rw-r--r-- 1 rob rob 5944 Mar 11 03:22 libnativewindow_awt.so
-rw-r--r-- 1 rob rob 26604 Mar 11 03:22 libnativewindow_x11.so
rob#work:~/git/thegame$ ll jar/
total 3308
drwxr-xr-x 3 rob rob 4096 Mar 22 02:28 ./
drwxr-xr-x 8 rob rob 4096 Mar 22 02:22 ../
-rw-r--r-- 1 rob rob 289171 Mar 10 14:00 gluegen-rt.jar
drwxr-xr-x 4 rob rob 4096 Mar 22 02:28 javadocs/
-rw-r--r-- 1 rob rob 3082066 Mar 11 03:23 jogl-all.jar
Error when trying to execute application:
Catched ZipException: error in opening zip file, while addNativeJarLibsImpl(classFromJavaJar class com.jogamp.common.os.Platform, classJarURI jar:file:/home/rob/git/thegame/jar/gluegen-rt.jar!/com/jogamp/common/os/Platform.class, nativeJarBaseName gluegen-rt-natives-linux-i586.jar): [ file:/home/rob/git/thegame/jar/gluegen-rt.jar -> file:/home/rob/git/thegame/jar/ ] + gluegen-rt-natives-linux-i586.jar -> slim: jar:file:/home/rob/git/thegame/jar/gluegen-rt-natives-linux-i586.jar!/
Catched ZipException: error in opening zip file, while addNativeJarLibsImpl(classFromJavaJar class jogamp.nativewindow.NWJNILibLoader, classJarURI jar:file:/home/rob/git/thegame/jar/jogl-all.jar!/jogamp/nativewindow/NWJNILibLoader.class, nativeJarBaseName jogl-all-natives-linux-i586.jar): [ file:/home/rob/git/thegame/jar/jogl-all.jar -> file:/home/rob/git/thegame/jar/ ] + jogl-all-natives-linux-i586.jar -> slim: jar:file:/home/rob/git/thegame/jar/jogl-all-natives-linux-i586.jar!/
Catched IOException: TempJarCache: addNativeLibs: jar:file:/home/rob/git/thegame/jar/jogl-all-natives-linux-i586.jar!/, previous load attempt failed, while addNativeJarLibsImpl(classFromJavaJar class jogamp.nativewindow.NWJNILibLoader, classJarURI jar:file:/home/rob/git/thegame/jar/jogl-all.jar!/jogamp/nativewindow/NWJNILibLoader.class, nativeJarBaseName jogl-all-natives-linux-i586.jar): [ file:/home/rob/git/thegame/jar/jogl-all.jar -> file:/home/rob/git/thegame/jar/ ] + jogl-all-natives-linux-i586.jar -> slim: jar:file:/home/rob/git/thegame/jar/jogl-all-natives-linux-i586.jar!/
Catched IOException: TempJarCache: addNativeLibs: jar:file:/home/rob/git/thegame/jar/jogl-all-natives-linux-i586.jar!/, previous load attempt failed, while addNativeJarLibsImpl(classFromJavaJar class jogamp.nativewindow.NWJNILibLoader, classJarURI jar:file:/home/rob/git/thegame/jar/jogl-all.jar!/jogamp/nativewindow/NWJNILibLoader.class, nativeJarBaseName jogl-all-natives-linux-i586.jar): [ file:/home/rob/git/thegame/jar/jogl-all.jar -> file:/home/rob/git/thegame/jar/ ] + jogl-all-natives-linux-i586.jar -> slim: jar:file:/home/rob/git/thegame/jar/jogl-all-natives-linux-i586.jar!/
Main.java
import java.awt.event.WindowAdapter;
import java.awt.event.WindowEvent;
import javax.media.opengl.GLCapabilities;
import javax.media.opengl.GLProfile;
import javax.media.opengl.awt.GLCanvas;
import javax.swing.JFrame;
public class Main
{
public static void main(String[] args)
{
// setup OpenGL Version 2
GLProfile profile = GLProfile.get(GLProfile.GL2);
GLCapabilities capabilities = new GLCapabilities(profile);
// The canvas is the widget that's drawn in the JFrame
GLCanvas glcanvas = new GLCanvas(capabilities);
glcanvas.addGLEventListener(new Renderer());
glcanvas.setSize( 300, 300 );
JFrame frame = new JFrame( "Hello World" );
frame.getContentPane().add( glcanvas);
// shutdown the program on windows close event
frame.addWindowListener(new WindowAdapter() {
public void windowClosing(WindowEvent ev) {
System.exit(0);
}
});
frame.setSize( frame.getContentPane().getPreferredSize() );
frame.setVisible( true );
}
}

When you download the JARs directly, some web browsers might wrap it into a ZIP file for "security" reasons. Rather download the 7z archive here and take the JARs it contains. You should follow these detailed instructions, it should work in Eclipse.
I remind you that the separated native libraries are no longer required in JOGL 2, rather use the JARs containing the native libraries, it is a lot less error prone, just put them into the same directory than the Java libraries relying on them (jogl-all.jar and gluegen-rt.jar).

Why FileNotFoundException is thrown while it exists on linux

This is the first time i have encounter such problem with file access by Java on linux. The problem is just like the header says - FileNotFoundException is thrown when file actually exists. Moreover application with same configuration (props.txt file) runs like it should on windows.
Let me provide a little bit of console output
datasu#dedi2392:~/netcrawler/dkpto$ ls -l
total 20
-rwxrw-rw- 1 datasu datasu 114 Aug 7 15:53 autoupdate
drwxr-xr-x 4 datasu datasu 4096 Aug 8 11:57 data
drwxr-xr-x 2 datasu datasu 4096 Aug 8 11:57 log
-rw-rw-rw- 1 datasu datasu 32 Aug 8 12:44 props.txt
-rwxrw-rw- 1 datasu datasu 126 Aug 8 12:55 propsUpdate
datasu#dedi2392:~/netcrawler/dkpto$ ./propsUpdate
Parent: /usr/home/datasu/netcrawler/dkpto
1# -> propsUpdate
2# -> autoupdate
3# -> props.txt
4# -> data
5# -> log
(No such file or directory)ava.io.FileNotFoundException: /usr/home/datasu/netcrawler/dkpto/props.txt
at java.io.FileInputStream.open(Native Method)
at java.io.FileInputStream.(Unknown Source)
at netcrawler.Autoupdater.readProperties(Autoupdater.java:71)
at netcrawler.Autoupdater.start(Autoupdater.java:54)
at netcrawler.Autoupdater.main(Autoupdater.java:47)
datasu#dedi2392:~/netcrawler/dkpto$ java -version
java version "1.6.0_45"
Java(TM) SE Runtime Environment (build 1.6.0_45-b06)
Java HotSpot(TM) 64-Bit Server VM (build 20.45-b01, mixed mode)
datasu#dedi2392:~/netcrawler/dkpto$
and here is Java code responsible for generating that output (at least after calling ./propsUpdate)
private void readProperties(String args) throws FileNotFoundException, IOException {
System.out.println("Parent: " + new File(args).getAbsoluteFile().getParentFile().getAbsolutePath());
CommonTools.PrintArray(new File(args).getAbsoluteFile().getParentFile().list());
properties.load(new FileInputStream(new File(args).getAbsoluteFile())); // this line throws the exception
stageNumber = Integer.parseInt(properties.getProperty(PROP_STAGE_NUMBER_KEY, "0"));
}
So why the props.txt file is not found when it is actually there ?

The string "args" probably has a nonprinting character at the end, like a space. You could use String.trim() to remove such characters before using that variable.

Is your home folder really this path?
/usr/home/datasu
/home/datasu is where it normally is on linux.
Also, try changing that line to this:
properties.load(new FileInputStream(new File(args));
If you're calling that as ./propsUpdate ./props.txt that will work from the current working directory.

Java - Read specific files in specific order from a folder [closed]

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Closed 9 years ago.
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In my Java program i process a certain amount of files.
Those Files are named in this way:
thu 21 mar 2013_01.55.22_128.txt
thu 21 mar 2013_01.55.22_129.txt
thu 21 mar 2013_01.55.22_130.txt
....
sat 23 mar 2013_01.45.55_128.txt
sat 23 mar 2013_01.45.55_129.txt
sat 23 mar 2013_01.45.55_130.txt
Where the last three numbers are the cell number.
Consider that i already read in order of date the files coming from the same cell.
Consider that all the files are on the same folder.
Consider also that this problem, but for a single cell, was correctly solved on This Post
My question now is: how can i read first all the txt coming from a specific cell (e.g 128), then all the files coming from cell 129 and so on? (below: a graphic example)
thu 21 mar 2013_01.55.22_128.txt
sat 23 mar 2013_01.45.55_128.txt
...
thu 21 mar 2013_01.55.22_129.txt
sat 23 mar 2013_01.45.55_129.txt
...
thu 21 mar 2013_01.55.22_130.txt
sat 23 mar 2013_01.45.55_130.txt
I hope I was clear

You may get all files in directory using listFiles() into array then sort it using custom comparator.
File[] files = dir.istFiles();
Array.sort(files, new Comparator<File> {
#Override
public int compare(File lhs, File rhs) {
//return -1 if lhs should go before
//0 if it doesn't matter
//1 if rhs should go after
}
});

Well, you could read the folder in order to get the File objects (or maybe just file names).
Then parse the file names, extract the cell and put the files into a map whose key is the cell.
Some pseudo code:
Map<String, List<File>> filesPerCell = new LinkedHashMap<String, List<File>>();
File[] files = folder.listFiles();
for( File file : files ) {
String filename = file.getName();
String cell = ... ; //extract from filename
List<File> l = filesPerCell.get( cell );
//create new list if l is null
l.add( file );
}
for( List<File> cellList : filesPerCell.values() ) {
//do whatever you want with the files for that cell
}

You will have your file names sorted by cell number, and inside the cell, by date/time. You could do this most easily, if your file names were like this:
cellnumber_yyyymmdd_hhmmss
where cellnumber would be the same number of digits in all cases.
Otherwise you must write a custom comparator (as #RiaD writes), but it is not trivial because of the dates that must be parsed so one could decide on later/earlier.

Sequence Files in Hadoop

How are these sequence files generated ? I saw a link about sequence file here,
http://wiki.apache.org/hadoop/SequenceFile
Are these written using default Java serializer ? and How do I read a sequence file ?

Sequence files are generated by MapReduce tasks and and can be used as common format to transfer data between MapReduce jobs.
You can read them in the following manner:
Configuration config = new Configuration();
Path path = new Path(PATH_TO_YOUR_FILE);
SequenceFile.Reader reader = new SequenceFile.Reader(FileSystem.get(config), path, config);
WritableComparable key = (WritableComparable) reader.getKeyClass().newInstance();
Writable value = (Writable) reader.getValueClass().newInstance();
while (reader.next(key, value))
// perform some operating
reader.close();
Also you can generate sequence files by yourself using SequenceFile.Writer.
The classes used in the example are the following:
import org.apache.hadoop.conf.Configuration;
import org.apache.hadoop.fs.FileSystem;
import org.apache.hadoop.fs.Path;
import org.apache.hadoop.io.SequenceFile;
import org.apache.hadoop.io.Writable;
import org.apache.hadoop.io.WritableComparable;
And are contained within the hadoop-core maven dependency:
<dependency>
<groupId>org.apache.hadoop</groupId>
<artifactId>hadoop-core</artifactId>
<version>1.2.1</version>
</dependency>

Thanks to Lev Khomich's answer, my problem has been solved.
However, the solution has been deprecated for a while and the new API offers more features and also easy to use.
Check out the source code of hadoop.io.SequenceFile, click here:
Configuration config = new Configuration();
Path path = new Path("/Users/myuser/sequencefile");
SequenceFile.Reader reader = new Reader(config, Reader.file(path));
WritableComparable key = (WritableComparable) reader.getKeyClass()
.newInstance();
Writable value = (Writable) reader.getValueClass().newInstance();
while (reader.next(key, value)) {
System.out.println(key);
System.out.println(value);
System.out.println("------------------------");
}
reader.close();
Extra info, here is the sample output running against the data file generated by Nutch/injector:
------------------------
https://wiki.openoffice.org/wiki/Ru/FAQ
Version: 7
Status: 1 (db_unfetched)
Fetch time: Sun Apr 13 16:12:59 MDT 2014
Modified time: Wed Dec 31 17:00:00 MST 1969
Retries since fetch: 0
Retry interval: 2592000 seconds (30 days)
Score: 1.0
Signature: null
Metadata:
------------------------
https://www.bankhapoalim.co.il/
Version: 7
Status: 1 (db_unfetched)
Fetch time: Sun Apr 13 16:12:59 MDT 2014
Modified time: Wed Dec 31 17:00:00 MST 1969
Retries since fetch: 0
Retry interval: 2592000 seconds (30 days)
Score: 1.0
Signature: null
Metadata:
Thanks!

g++: File not found

I have been developing a program lately that compiles and runs a C++ Program from a Java program, I have gotten everything working basically (or atleast to my knowledge) but then I noticed some things being printed to the Error Stream:
cdog5000#srv3:~$ java -Xmx50m -jar main2.jar
Running Command: sudo g++ --static -o "/home/cdog5000/cody.out" "/home/cdog5000/cody.cpp"
Err: g++: "/home/cdog5000/cody.cpp": No such file or directory
Err: g++: no input files
cdog5000#srv3:~$ ls -l
total 4548
-rwxr-xr-x 1 cdog5000 cdog5000 1297588 Feb 3 23:11 a.out
-rwxr-xr-x 1 cdog5000 cdog5000 7978 Feb 2 04:39 cody
-rw-r--r-- 1 cdog5000 cdog5000 106 Feb 4 02:09 cody.cpp
-rwxr-xr-x 1 cdog5000 cdog5000 1297357 Feb 4 02:09 cody.out
-rw-r--r-- 1 root root 410433 Feb 4 02:48 log.txt
-rwxr-xr-x 1 cdog5000 cdog5000 801088 Feb 1 05:24 main.jar
-rw-r--r-- 1 cdog5000 cdog5000 804802 Feb 4 02:49 main2.jar
drwxr-xr-x 3 cdog5000 cdog5000 4096 Feb 3 23:11 sandbox
cdog5000#srv3:~$ sudo g++ --static -o "/home/cdog5000/cody.out" "/home/cdog5000/cody.cpp"
As you can see it works if I do it via the SSH but not the Java code?
The Java code:
public static Exec exec(String cmd){
Exec exec = new Exec(cmd);
try {
long current = System.currentTimeMillis();
Process proc = Runtime.getRuntime().exec(cmd);
exec.setReturnValue(proc.waitFor());
exec.setRunTime(System.currentTimeMillis() - current);
BufferedInputStream bos = new BufferedInputStream(proc.getInputStream());
byte b[] = new byte[1024];
String content = "";
while(bos.read(b) != -1) {
content += new String(b);
}
exec.setStdIn(content.split("\n"));
content = "";
bos = new BufferedInputStream(proc.getErrorStream());
while(bos.read(b) != -1) {
content += new String(b);
}
exec.setStdErr(content.split("\n"));
} catch (Exception e) {
e.printStackTrace();
}
return exec;
}
Thanks for any help and it is apprectiated!

Err: g++: "/home/cdog5000/cody.cpp": No such file or directory
Is telling you the problem.
You have one level of quotes too many, so you're looking for "/home/cdog5000/cody.cpp" rather than /home/cdog5000/cody.cpp.
The Runtime.exec documentation says:
More precisely, the command string is broken into tokens using a StringTokenizer created by the call new StringTokenizer(command) with no further modification of the character categories. The tokens produced by the tokenizer are then placed in the new string array cmdarray, in the same order.
Meaning it only splits on whitespace, it doesn't handle double quotes like the shell does.
Many languages have two functions, one called exec which runs the command verbatim, and system which passes the string to the shell, where it will split words and expand wildcards.
I can't see a system call in Java, so I think you will have to use exec(String[] cmdarray) rather than exec(String command).

GCC doesn't lie like that - it looks like the file isn't there. Are you sure that you're showing us the output from the correct directories?