Debugging OfBiz in Eclipse gives MissingResourceException - eclipse

I downloaded the OfBiz Java application and the following line throws an MissingResourceException:
ResourceBundle res = ResourceBundle.getBundle(settingsResourceName);
The value of settingsResourceName is "cache", but I cannot find any file called cache.properties or cache_en.properties.
Where should I be looking? I'm new to Java. All my research on SO says there should be such a file.
I imported OfBiz in Eclipse using the Import menu option and selecting Existing Project from File System (I'm not in front of my dev machine so I don't remember the exact wording). But I chose the root folder of the downloaded OfBiz.
I then added the appropriate VM Arguments in the Run Configuration to get it to run properly at least. And that's it, on the first Run I got the above error. I think it has to do with a missing class path but I don't know what to add to class path.
Here is the stack trace:
ERROR StatusLogger No log4j2 configuration file found. Using default configuration: logging only errors to the console.
Exception in thread "main" java.lang.ExceptionInInitializerError
at org.apache.ofbiz.base.util.Debug.<clinit>(Debug.java:68)
at org.apache.ofbiz.base.container.ContainerLoader.load(ContainerLoader.java:61)
at org.apache.ofbiz.base.start.StartupControlPanel.loadStartupLoaders(StartupControlPanel.java:202)
at org.apache.ofbiz.base.start.StartupControlPanel.start(StartupControlPanel.java:69)
at org.apache.ofbiz.base.start.Start.main(Start.java:84)
Caused by: java.util.MissingResourceException: Can't find bundle for base name cache, locale en
at java.util.ResourceBundle.throwMissingResourceException(ResourceBundle.java:1564)
at java.util.ResourceBundle.getBundleImpl(ResourceBundle.java:1387)
at java.util.ResourceBundle.getBundle(ResourceBundle.java:773)
at org.apache.ofbiz.base.util.cache.UtilCache.setPropertiesParams(UtilCache.java:174)
at org.apache.ofbiz.base.util.cache.UtilCache.setPropertiesParams(UtilCache.java:170)
at org.apache.ofbiz.base.util.cache.UtilCache.setPropertiesParams(UtilCache.java:166)
at org.apache.ofbiz.base.util.cache.UtilCache.<init>(UtilCache.java:124)
at org.apache.ofbiz.base.util.cache.UtilCache.createUtilCache(UtilCache.java:769)
at org.apache.ofbiz.base.util.UtilProperties.<clinit>(UtilProperties.java:75)
... 5 more
UPDATE:
My mistake, I found two files both called cache.properties in the following folders:
ofbiz-trunk/build/resources/main
ofbiz-trunk/framework/base/config
But these are folders, not packages. I tried putting them in the .classpath but that did not work, I still kept getting the same error.

As suspected, I knew it was because of a missing reference to a class path. After looking at a section on this page: http://www.opensourcestrategies.com/ofbiz/ofbiz_eclipse.php, I learned that I was supposed to go to the Java Build Path and in the Libraries tab, click on Add Class Folder, then point that to ofbiz-trunk/framework/base/config. Which is where I have one of the cache.properties files.

Related

Getting error log while previewing report from Jasper [duplicate]

I am getting a NoClassDefFoundError when I run my Java application. What is typically the cause of this?
While it's possible that this is due to a classpath mismatch between compile-time and run-time, it's not necessarily true.
It is important to keep two or three different exceptions straight in our head in this case:
java.lang.ClassNotFoundException This exception indicates that the class was not found on the classpath. This indicates that we were trying to load the class definition, and the class did not exist on the classpath.
java.lang.NoClassDefFoundError This exception indicates that the JVM looked in its internal class definition data structure for the definition of a class and did not find it. This is different than saying that it could not be loaded from the classpath. Usually this indicates that we previously attempted to load a class from the classpath, but it failed for some reason - now we're trying to use the class again (and thus need to load it, since it failed last time), but we're not even going to try to load it, because we failed loading it earlier (and reasonably suspect that we would fail again). The earlier failure could be a ClassNotFoundException or an ExceptionInInitializerError (indicating a failure in the static initialization block) or any number of other problems. The point is, a NoClassDefFoundError is not necessarily a classpath problem.
This is caused when there is a class file that your code depends on and it is present at compile time but not found at runtime. Look for differences in your build time and runtime classpaths.
Here is the code to illustrate java.lang.NoClassDefFoundError. Please see Jared's answer for detailed explanation.
NoClassDefFoundErrorDemo.java
public class NoClassDefFoundErrorDemo {
public static void main(String[] args) {
try {
// The following line would throw ExceptionInInitializerError
SimpleCalculator calculator1 = new SimpleCalculator();
} catch (Throwable t) {
System.out.println(t);
}
// The following line would cause NoClassDefFoundError
SimpleCalculator calculator2 = new SimpleCalculator();
}
}
SimpleCalculator.java
public class SimpleCalculator {
static int undefined = 1 / 0;
}
NoClassDefFoundError In Java
Definition:
Java Virtual Machine is not able to find a particular class at runtime which was available at compile time.
If a class was present during compile time but not available in java classpath during runtime.
Examples:
The class is not in Classpath, there is no sure shot way of knowing it but many times you can just have a look to print System.getproperty("java.classpath") and it will print the classpath from there you can at least get an idea of your actual runtime classpath.
A simple example of NoClassDefFoundError is class belongs to a missing JAR file or JAR was not added into classpath or sometimes jar's name has been changed by someone like in my case one of my colleagues has changed tibco.jar into tibco_v3.jar and the program is failing with java.lang.NoClassDefFoundError and I were wondering what's wrong.
Just try to run with explicitly -classpath option with the classpath you think will work and if it's working then it's a sure short sign that someone is overriding java classpath.
Permission issue on JAR file can also cause NoClassDefFoundError in Java.
Typo on XML Configuration can also cause NoClassDefFoundError in Java.
when your compiled class which is defined in a package, doesn’t present in the same package while loading like in the case of JApplet it will throw NoClassDefFoundError in Java.
Possible Solutions:
The class is not available in Java Classpath.
If you are working in J2EE environment than the visibility of Class among multiple Classloader can also cause java.lang.NoClassDefFoundError, see examples and scenario section for detailed discussion.
Check for java.lang.ExceptionInInitializerError in your log file. NoClassDefFoundError due to the failure of static initialization is quite common.
Because NoClassDefFoundError is a subclass of java.lang.LinkageError it can also come if one of it dependency like native library may not available.
Any start-up script is overriding Classpath environment variable.
You might be running your program using jar command and class was not defined in manifest file's ClassPath attribute.
Resources:
3 ways to solve NoClassDefFoundError
java.lang.NoClassDefFoundError Problem patterns
I have found that sometimes I get a NoClassDefFound error when code is compiled with an incompatible version of the class found at runtime. The specific instance I recall is with the apache axis library. There were actually 2 versions on my runtime classpath and it was picking up the out of date and incompatible version and not the correct one, causing a NoClassDefFound error. This was in a command line app where I was using a command similar to this.
set classpath=%classpath%;axis.jar
I was able to get it to pick up the proper version by using:
set classpath=axis.jar;%classpath%;
One interesting case in which you might see a lot of NoClassDefFoundErrors is when you:
throw a RuntimeException in the static block of your class Example
Intercept it (or if it just doesn't matter like it is thrown in a test case)
Try to create an instance of this class Example
static class Example {
static {
thisThrowsRuntimeException();
}
}
static class OuterClazz {
OuterClazz() {
try {
new Example();
} catch (Throwable ignored) { //simulating catching RuntimeException from static block
// DO NOT DO THIS IN PRODUCTION CODE, THIS IS JUST AN EXAMPLE in StackOverflow
}
new Example(); //this throws NoClassDefFoundError
}
}
NoClassDefError will be thrown accompanied with ExceptionInInitializerError from the static block RuntimeException.
This is especially important case when you see NoClassDefFoundErrors in your UNIT TESTS.
In a way you're "sharing" the static block execution between tests, but the initial ExceptionInInitializerError will be just in one test case. The first one that uses the problematic Example class. Other test cases that use the Example class will just throw NoClassDefFoundErrors.
This is the best solution I found so far.
Suppose we have a package called org.mypackage containing the classes:
HelloWorld (main class)
SupportClass
UtilClass
and the files defining this package are stored physically under the directory D:\myprogram (on Windows) or /home/user/myprogram (on Linux).
The file structure will look like this:
When we invoke Java, we specify the name of the application to run: org.mypackage.HelloWorld. However we must also tell Java where to look for the files and directories defining our package. So to launch the program, we have to use the following command:
I was using Spring Framework with Maven and solved this error in my project.
There was a runtime error in the class. I was reading a property as integer, but when it read the value from the property file, its value was double.
Spring did not give me a full stack trace of on which line the runtime failed.
It simply said NoClassDefFoundError. But when I executed it as a native Java application (taking it out of MVC), it gave ExceptionInInitializerError which was the true cause and which is how I traced the error.
#xli's answer gave me insight into what may be wrong in my code.
I get NoClassFoundError when classes loaded by the runtime class loader cannot access classes already loaded by the java rootloader. Because the different class loaders are in different security domains (according to java) the jvm won't allow classes already loaded by the rootloader to be resolved in the runtime loader address space.
Run your program with 'java -javaagent:tracer.jar [YOUR java ARGS]'
It produces output showing the loaded class, and the loader env that loaded the class. It's very helpful tracing why a class cannot be resolved.
// ClassLoaderTracer.java
// From: https://blogs.oracle.com/sundararajan/entry/tracing_class_loading_1_5
import java.lang.instrument.*;
import java.security.*;
// manifest.mf
// Premain-Class: ClassLoadTracer
// jar -cvfm tracer.jar manifest.mf ClassLoaderTracer.class
// java -javaagent:tracer.jar [...]
public class ClassLoadTracer
{
public static void premain(String agentArgs, Instrumentation inst)
{
final java.io.PrintStream out = System.out;
inst.addTransformer(new ClassFileTransformer() {
public byte[] transform(ClassLoader loader, String className, Class classBeingRedefined, ProtectionDomain protectionDomain, byte[] classfileBuffer) throws IllegalClassFormatException {
String pd = (null == protectionDomain) ? "null" : protectionDomain.getCodeSource().toString();
out.println(className + " loaded by " + loader + " at " + new java.util.Date() + " in " + pd);
// dump stack trace of the thread loading class
Thread.dumpStack();
// we just want the original .class bytes to be loaded!
// we are not instrumenting it...
return null;
}
});
}
}
The technique below helped me many times:
System.out.println(TheNoDefFoundClass.class.getProtectionDomain().getCodeSource().getLocation());
where the TheNoDefFoundClass is the class that might be "lost" due to a preference for an older version of the same library used by your program. This most frequently happens with the cases, when the client software is being deployed into a dominant container, armed with its own classloaders and tons of ancient versions of most popular libs.
Java ClassNotFoundException vs NoClassDefFoundError
[ClassLoader]
Static vs Dynamic class loading
Static(Implicit) class loading - result of reference, instantiation, or inheritance.
MyClass myClass = new MyClass();
Dynamic(Explicit) class loading is result of Class.forName(), loadClass(), findSystemClass()
MyClass myClass = (MyClass) Class.forName("MyClass").newInstance();
Every class has a ClassLoader which uses loadClass(String name); that is why
explicit class loader uses implicit class loader
NoClassDefFoundError is a part of explicit class loader. It is Error to guarantee that during compilation this class was presented but now (in run time) it is absent.
ClassNotFoundException is a part of implicit class loader. It is Exception to be elastic with scenarios where additionally it can be used - for example reflection.
In case you have generated-code (EMF, etc.) there can be too many static initialisers which consume all stack space.
See Stack Overflow question How to increase the Java stack size?.
Two different checkout copies of the same project
In my case, the problem was Eclipse's inability to differentiate between two different copies of the same project. I have one locked on trunk (SVN version control) and the other one working in one branch at a time. I tried out one change in the working copy as a JUnit test case, which included extracting a private inner class to be a public class on its own and while it was working, I open the other copy of the project to look around at some other part of the code that needed changes. At some point, the NoClassDefFoundError popped up complaining that the private inner class was not there; double-clicking in the stack trace brought me to the source file in the wrong project copy.
Closing the trunk copy of the project and running the test case again got rid of the problem.
I fixed my problem by disabling the preDexLibraries for all modules:
dexOptions {
preDexLibraries false
...
I got this error when I add Maven dependency of another module to my project, the issue was finally solved by add -Xss2m to my program's JVM option(It's one megabyte by default since JDK5.0). It's believed the program does not have enough stack to load class.
In my case I was getting this error due to a mismatch in the JDK versions. When I tried to run the application from Intelij it wasn't working but then running it from the command line worked. This is because Intelij was attempting to run it with the Java 11 JDK that was setup but on the command line it was running with the Java 8 JDK. After switching that setting under File > Project Structure > Project Settings > Project SDK, it worked for me.
Update [https://www.infoq.com/articles/single-file-execution-java11/]:
In Java SE 11, you get the option to launch a single source code file
directly, without intermediate compilation. Just for your convenience,
so that newbies like you don't have to run javac + java (of course,
leaving them confused why that is).
NoClassDefFoundError can also occur when a static initializer tries to load a resource bundle that is not available in runtime, for example a properties file that the affected class tries to load from the META-INF directory, but isn’t there. If you don’t catch NoClassDefFoundError, sometimes you won’t be able to see the full stack trace; to overcome this you can temporarily use a catch clause for Throwable:
try {
// Statement(s) that cause(s) the affected class to be loaded
} catch (Throwable t) {
Logger.getLogger("<logger-name>").info("Loading my class went wrong", t);
}
I was getting NoClassDefFoundError while trying to deploy application on Tomcat/JBOSS servers. I played with different dependencies to resolve the issue, but kept getting the same error. Marked all javax.* dependencies as provided in pom.xml, And war literally had no Dependency in it. Still the issue kept popping up.
Finally realized that src/main/webapps/WEB-INF/classes had classes folder which was getting copied into my war, so instead of compiled classes, this classes were getting copied, hence no dependency change was resolving the issue.
Hence be careful if any previously compiled data is getting copied, After deleting classes folder and fresh compilation, It worked!..
If someone comes here because of java.lang.NoClassDefFoundError: org/apache/log4j/Logger error, in my case it was produced because I used log4j 2 (but I didn't add all the files that come with it), and some dependency library used log4j 1. The solution was to add the Log4j 1.x bridge: the jar log4j-1.2-api-<version>.jar which comes with log4j 2. More info in the log4j 2 migration.
This error can be caused by unchecked Java version requirements.
In my case I was able to resolve this error, while building a high-profile open-source project, by switching from Java 9 to Java 8 using SDKMAN!.
sdk list java
sdk install java 8u152-zulu
sdk use java 8u152-zulu
Then doing a clean install as described below.
When using Maven as your build tool, it is sometimes helpful -- and usually gratifying, to do a clean 'install' build with testing disabled.
mvn clean install -DskipTests
Now that everything has been built and installed, you can go ahead and run the tests.
mvn test
I got NoClassDefFound errors when I didn't export a class on the "Order and Export" tab in the Java Build Path of my project. Make sure to put a checkmark in the "Order and Export" tab of any dependencies you add to the project's build path. See Eclipse warning: XXXXXXXXXXX.jar will not be exported or published. Runtime ClassNotFoundExceptions may result.
It could also be because you copy the code file from an IDE with a certain package name and you want to try to run it using terminal. You will have to remove the package name from the code first.
This happens to me.
Everyone talks here about some Java configuration stuff, JVM problems etc., in my case the error was not related to these topics at all and had a very trivial and easy to solve reason: I had a wrong annotation at my endpoint in my Controller (Spring Boot application).
I have had an interesting issue wiht NoClassDefFoundError in JavaEE working with Liberty server. I was using IMS resource adapters and my server.xml had already resource adapter for imsudbJXA.rar.
When I added new adapter for imsudbXA.rar, I would start getting this error for instance objects for DLIException, IMSConnectionSpec or SQLInteractionSpec.
I could not figure why but I resolved it by creating new server.xml for my work using only imsudbXA.rar. I am sure using multiple resource adapters in server.xml is fine, I just had no time to look into that.
I had this error but could not figure out the solution based on this thread but solved it myself.
For my problem I was compiling this code:
package valentines;
import java.math.BigInteger;
import java.util.ArrayList;
public class StudentSolver {
public static ArrayList<Boolean> solve(ArrayList<ArrayList<BigInteger>> problems) {
//DOING WORK HERE
}
public static void main(String[] args){
//TESTING SOLVE FUNCTION
}
}
I was then compiling this code in a folder structure that was like /ProjectName/valentines
Compiling it worked fine but trying to execute: java StudentSolver
I was getting the NoClassDefError.
To fix this I simply removed: package valentines;
I'm not very well versed in java packages and such but this how I fixed my error so sorry if this was already answered by someone else but I couldn't interpret it to my problem.
My solution to this was to "avail" the classpath contents for the specific classes that were missing. In my case, I had 2 dependencies, and though I was able to compile successfully using javac ..., I was not able to run the resulting class file using java ..., because a Dynamic class in the BouncyCastle jar could not be loaded at runtime.
javac --classpath "ext/commons-io-2.11.0;ext/bc-fips-1.0.2.3" hello.java
So at compile time and by runtime, the JVM is aware of where to fetch Apache Commons and BouncyCastle dependencies, however, when running this, I got
Error: Unable to initialize main class hello
Caused by: java.lang.NoClassDefFoundError:
org/bouncycastle/jcajce/provider/BouncyCastleFipsProvider
And I therefore manually created a new folder named ext at the same location, as per the classpath, where I then placed the BouncyCastle jar to ensure it would be found at runtime. You can place the jar relative to the class file or the jar file as long as the resulting manifest has the location of the jar specified. Note I only need to avail the one jar containing the missing class file.
Java was unable to find the class A in runtime.
Class A was in maven project ArtClient from a different workspace.
So I imported ArtClient to my Eclipse project.
Two of my projects was using ArtClient as dependency.
I changed library reference to project reference for these ones (Build Path -> Configure Build Path).
And the problem gone away.
I had the same problem, and I was stock for many hours.
I found the solution. In my case, there was the static method defined due to that. The JVM can not create the another object of that class.
For example,
private static HttpHost proxy = new HttpHost(proxyHost, Integer.valueOf(proxyPort), "http");
I got this message after removing two files from the SRC library, and when I brought them back I kept seeing this error message.
My solution was: Restart Eclipse. Since then I haven't seen this message again :-)

Google OR tools

I am learning to solve some optimisation programs using google or-tools.
I started with their example code and I an trying to run it in intellij.
But when I write the code and compile I get the following error.
Exception in thread "main" java.lang.UnsatisfiedLinkError: com.google.ortools.linearsolver.operations_research_linear_solverJNI.MPSolver_CLP_LINEAR_PROGRAMMING_get()I
at com.google.ortools.linearsolver.operations_research_linear_solverJNI.MPSolver_CLP_LINEAR_PROGRAMMING_get(Native Method)
at com.google.ortools.linearsolver.MPSolver$OptimizationProblemType.<clinit>(MPSolver.java:221)
I searched for some answers and I found that it requires jniortools.dll .
But I am working with ubuntu. Hence i assume i need to load the libjniortools.so file , am I right?.
So I included the line
static {
System.loadLibrary("libjniortools");
}
and I have a lib folder wherein I have put both com.google.ortools.jar and protobuf.jar along with all the other lib files that were present when I extracted the zip file(basically copy pasted the lib folder from extracted zip file).
I have added the jar paths in intellij as shown in figure
enter image description here
*the last 2 line of dependency in image
Then I have also tried giving the lib path in VM-options:
-Djava.library.path=/home/surajvashistha/IdeaProjects/LPModel/lib
After all this, I get the following error
Exception in thread "main" java.lang.UnsatisfiedLinkError: no libjniortools in java.library.path
at java.lang.ClassLoader.loadLibrary(ClassLoader.java:1860)
at java.lang.Runtime.loadLibrary0(Runtime.java:871)
at java.lang.System.loadLibrary(System.java:1124)
at LP.<clinit>
I am stuck here and not able to move forward. Can anyone help?

Java Illegal Argument Exception thrown when opening NetLogo model in Jython

I am trying to control NetLogo's API using Jython 2.7.0 (on Java 1.8.0_131) running on OS X El Capitan (10.11.6) to run experiments. In trying to run the following code:
import site
site.addsitedir("/Users/nqe/NetLogo/NetLogo 6.0.1/Java/")
import org.nlogo.headless.HeadlessWorkspace as hw
workspace = hw.newInstance()
workspace.open("models/Sample Models/Earth Science/Fire.nlogo")
workspace.command("set density 62")
workspace.command("random-seed 0")
workspace.command("setup")
workspace.command("repeat 50 [ go ]")
print (workspace.report("burned-trees"))
workspace.dispose()
I get the following error:
at scala.Predef$.require(Predef.scala:264)
at org.nlogo.generate.PrimitiveCache$.read$1(PrimitiveCache.scala:22)
at org.nlogo.generate.PrimitiveCache$.$anonfun$getClassReader$1(PrimitiveCache.scala:26)
at scala.collection.mutable.AbstractMap.getOrElseUpdate(Map.scala:80)
at org.nlogo.generate.PrimitiveCache$.getClassReader(PrimitiveCache.scala:26)
at org.nlogo.generate.PeepholeSafeChecker.processClass(PeepholeSafeChecker.scala:49)
at org.nlogo.generate.PeepholeSafeChecker.isSafe(PeepholeSafeChecker.scala:42)
at org.nlogo.generate.Generator$InstructionGenerator.generateInstruction(Generator.scala:190)
at org.nlogo.generate.Generator$InstructionGenerator.generateBodyMethod(Generator.scala:124)
at org.nlogo.generate.Generator$InstructionGenerator.generate(Generator.scala:99)
at org.nlogo.generate.Generator.org$nlogo$generate$Generator$$recurse(Generator.scala:29)
at org.nlogo.generate.Generator.$anonfun$recurse$1(Generator.scala:31)
at scala.collection.TraversableLike.$anonfun$map$1(TraversableLike.scala:234)
at scala.collection.mutable.ArrayOps$ofRef.foreach(ArrayOps.scala:193)
at scala.collection.TraversableLike.map$(TraversableLike.scala:234)
at scala.collection.mutable.ArrayOps$ofRef.map(ArrayOps.scala:193)
at org.nlogo.generate.Generator.org$nlogo$generate$Generator$$recurse(Generator.scala:31)
at org.nlogo.generate.Generator.$anonfun$generate$1(Generator.scala:25)
at scala.collection.TraversableLike.$anonfun$map$1(TraversableLike.scala:234)
at scala.collection.mutable.ArrayOps$ofRef.foreach(ArrayOps.scala:193)
at scala.collection.TraversableLike.map$(TraversableLike.scala:234)
at scala.collection.mutable.ArrayOps$ofRef.map(ArrayOps.scala:193)
at org.nlogo.generate.Generator.generate(Generator.scala:25)
at org.nlogo.compile.CompilerMain$.assembleProcedure(CompilerMain.scala:79)
at org.nlogo.compile.CompilerMain$.$anonfun$compile$2(CompilerMain.scala:55)
at scala.collection.TraversableLike.$anonfun$map$1(TraversableLike.scala:234)
at scala.collection.immutable.List.foreach(List.scala:378)
at scala.collection.TraversableLike.map$(TraversableLike.scala:234)
at scala.collection.immutable.List.map(List.scala:284)
at org.nlogo.compile.CompilerMain$.compile(CompilerMain.scala:55)
at org.nlogo.compile.Compiler.compileProgram(Compiler.scala:52)
at org.nlogo.headless.HeadlessModelOpener.openFromModel(HeadlessModelOpener.scala:54)
at org.nlogo.headless.HeadlessWorkspace.openModel(HeadlessWorkspace.scala:532)
at org.nlogo.headless.HeadlessWorkspace.open(HeadlessWorkspace.scala:499)
at sun.reflect.NativeMethodAccessorImpl.invoke0(Native Method)
at sun.reflect.NativeMethodAccessorImpl.invoke(NativeMethodAccessorImpl.java:62)
at sun.reflect.DelegatingMethodAccessorImpl.invoke(DelegatingMethodAccessorImpl.java:43)
at java.lang.reflect.Method.invoke(Method.java:498)
java.lang.IllegalArgumentException: java.lang.IllegalArgumentException: requirement failed
In case the "import site" part is not clear, I did the following:
Create a jython script to write all .jar files in "/Users/nqe/NetLogo/NetLogo 6.0.1/Java/" to a .pth file.
I then placed this .pith file into said the .../Java/ directory with the .jar files.
This allows me to access all the .jar dependencies from sys.path when needing to the import various API features of NetLogo.
I can't figure out exactly what causes this error, for in running on python interactive mode, I was able to successfully create a new instance of NetLogo JVM using the hw.newInstance() command (I could see a Java icon pop up when running this code), and the open command threw the appropriate errors if I fail to specify a url, for example.
Because of this, I thought it might have something to do with my JVM not being configured properly, so I tried a few things.
First, I checked that I was able to actually run the java example of controlling NetLogo API in headless mode found here: https://github.com/NetLogo/NetLogo/wiki/Controlling-API. I was able to run the code given here using these commands:
javadir=/Users/nqe/NetLogo/ControlAPI/
netjardir=/Users/nqe/NetLogo/NetLogo\ 6.0.1/Java/netlogo-mac-app.jar
javaname=Example1
javac -cp "${javadir}":"${netjardir}" $javaname.java
java -cp "${javadir}":"${netjardir}" $javaname
without changing any JVM settings manually. Nevertheless, I went ahead and tried changing things in my JVM settings when running the jython code such as the path to docs and extensions, but in particular, to the ./lib directory. Unfortunately, specifying the following JVM setting:
-Djava.library.path=~/JRE/Contents/Home/jre/lib/
does nothing to help the cause. Note that the ~ here is short for being in the NetLogo 6.0.1 directory and that this was the only lib directory I could find.
Finally, I discord this: when I try to run the above jython script when only specifying the path to netlogo-mac-app.jar, I AM NOT ABLE TO IMPORT the headless class stuff. Hence, the compilation/ running of the java while specifying only this one .jar classpath could possibly be somehow accessing some useful meta-data necessary for NetLogo to work (I don't know if this is possible with my level of Java background).
Upon thinking this, I found a NetLogo.cfg file in ~/NetLogo 6.0.1.app/Contents/Java/ that contains the following info:
[Application]
app.name=NetLogo
app.mainjar=netlogo-mac-app.jar
app.version=6.0.1
app.preferences.id=org/nlogo/app
app.mainclass=org/nlogo/app/MacApplication
app.classpath=$APPDIR/../../Java/args4j-2.0.12.jar:$APPDIR/../../Java/asm-5.0.3.jar:$APPDIR/../../Java/asm-5.0.3.jar:$APPDIR/../../Java/asm-all-5.0.4.jar:$APPDIR/../../Java/asm-all-5.0.4.jar:$APPDIR/../../Java/asm-analysis-5.0.3.jar:$APPDIR/../../Java/asm-analysis-5.0.3.jar:$APPDIR/../../Java/asm-tree-5.0.3.jar:$APPDIR/../../Java/asm-tree-5.0.3.jar:$APPDIR/../../Java/asm-util-5.0.3.jar:$APPDIR/../../Java/asm-util-5.0.3.jar:$APPDIR/../../Java/behaviorsearch.jar:$APPDIR/../../Java/commons-codec-1.10.jar:$APPDIR/../../Java/commons-codec-1.10.jar:$APPDIR/../../Java/commons-logging-1.1.1.jar:$APPDIR/../../Java/commons-logging-1.1.1.jar:$APPDIR/../../Java/gluegen-rt-2.3.2.jar:$APPDIR/../../Java/gluegen-rt-2.3.2.jar:$APPDIR/../../Java/httpclient-4.2.jar:$APPDIR/../../Java/httpclient-4.2.jar:$APPDIR/../../Java/httpcore-4.2.jar:$APPDIR/../../Java/httpcore-4.2.jar:$APPDIR/../../Java/httpmime-4.2.jar:$APPDIR/../../Java/httpmime-4.2.jar:$APPDIR/../../Java/java-objc-bridge-1.0.0.jar:$APPDIR/../../Java/jcommon-1.0.16.jar:$APPDIR/../../Java/jfreechart-1.0.13.jar:$APPDIR/../../Java/jhotdraw-6.0b1.jar:$APPDIR/../../Java/jhotdraw-6.0b1.jar:$APPDIR/../../Java/jmf-2.1.1e.jar:$APPDIR/../../Java/jmf-2.1.1e.jar:$APPDIR/../../Java/jna-4.2.2.jar:$APPDIR/../../Java/jogl-all-2.3.2.jar:$APPDIR/../../Java/jogl-all-2.3.2.jar:$APPDIR/../../Java/json-simple-1.1.1.jar:$APPDIR/../../Java/json-simple-1.1.1.jar:$APPDIR/../../Java/log4j-1.2.16.jar:$APPDIR/../../Java/log4j-1.2.16.jar:$APPDIR/../../Java/macro-compat_2.12-1.1.1.jar:$APPDIR/../../Java/macro-compat_2.12-1.1.1.jar:$APPDIR/../../Java/netlogo-6.0.1.jar:$APPDIR/../../Java/netlogo-6.0.1.jar:$APPDIR/../../Java/netlogo-mac-app.jar:$APPDIR/../../Java/parboiled-core-1.1.7.jar:$APPDIR/../../Java/parboiled-core-1.1.7.jar:$APPDIR/../../Java/parboiled-java-1.1.7.jar:$APPDIR/../../Java/parboiled-java-1.1.7.jar:$APPDIR/../../Java/parboiled_2.12-2.1.3.jar:$APPDIR/../../Java/parboiled_2.12-2.1.3.jar:$APPDIR/../../Java/pegdown-1.6.0.jar:$APPDIR/../../Java/pegdown-1.6.0.jar:$APPDIR/../../Java/picocontainer-2.13.6.jar:$APPDIR/../../Java/picocontainer-2.13.6.jar:$APPDIR/../../Java/rsyntaxtextarea-2.6.0.jar:$APPDIR/../../Java/rsyntaxtextarea-2.6.0.jar:$APPDIR/../../Java/scala-library-2.12.0.jar:$APPDIR/../../Java/scala-library-2.12.1.jar:$APPDIR/../../Java/scala-library-2.12.1.jar:$APPDIR/../../Java/scala-parser-combinators_2.12-1.0.5.jar:$APPDIR/../../Java/scala-parser-combinators_2.12-1.0.5.jar:$APPDIR/../../Java/shapeless_2.12-2.3.2.jar:$APPDIR/../../Java/shapeless_2.12-2.3.2.jar
app.runtime=$APPDIR/../../JRE
app.identifier=org.nlogo.app
[JVMOptions]
-Dnetlogo.extensions.dir=$APPDIR/../../extensions
-Dnetlogo.models.dir=$APPDIR/../../models
-Dnetlogo.docs.dir=$APPDIR/../../docs
-Xdock:name=NetLogo
-Dorg.nlogo.mac.appClassName=org.nlogo.app.App$
-Xmx1024m
-Dfile.encoding=UTF-8
-Dapple.awt.graphics.UseQuartz=true
[JVMUserOptions]
[ArgOptions]
This seemed promising, but literally deleting this file had no affect on my ability to run NetLogo by opening the application/ using the Control API with Java method. As such, I am stumped, so any help would be greatly appreciated.

Oprofile not finding libraries

I'm trying to use OProfile on Eclipse (3.8). The Juno version of oprofile didn't work, so I installed the Luna one. This one at least starts up, but can never find the libraries.
Here is the error:
ns3-dev-lena-profiling-debug: error while loading shared libraries: libns3-dev-lte- debug.so: cannot open shared object file: No such file or directory
profiled app exited with the following status: 127
I know that that means I need to add the library path. So I went to Profiling Tools Configurations, and specified the path under environmental variables as:
name: LD_LIBRARY_PATH
value: {workspace_loc:ns3dev2}/build (appended)
I manually checked and the library is located in the build folder. Furthermore, this library path works fine if I debug the same project instead (or run it...).
I've deleted the configuration and remade it, but it's the same error.
I also tried adding the same path to PATH instead of LD_LIBRARY_PATH, but that doesn't make any difference. (Just tried it for the hell of it).
Any thoughts?
Edit, I get the same problem on Eclipse 4.4 (Luna). I found the logs for the errors and the error is:
!ENTRY org.eclipse.linuxtools.oprofile.core 4 0 2014-10-27 12:33:07.200
!MESSAGE opreport process error output: warning: /no-vmlinux could not be found.

Error reading manifest file "...datanucleus-core-3.0.0-release.jar!/plugin.xml"

I got a very strange error. This what I've done:
I create a project (with Netbeans) which include datanucleuse-core-3.0.0-release.jar. The project can be built successfully. It also ran smoothly when I tried to run it with Netbeans or running 'java -jar <.jar bundle>' in dist folder via command prompt.
The problem is, when I copy that dist folder into another location and tried to run it again with command prompt, it gave these errors:
Exception in thread "main" Error reading manifest file
"jar:file:/E:/!new/BTJ/NCRServer/lib/datanucleus-core-3.0.0-release.jar!/plugin.xml"
org.datanucleus.exceptions.NucleusException: Error reading manifest
file "jar:fi
le:/E:/!new/BTJ/NCRServer/lib/datanucleus-core-3.0.0-release.jar!/plugin.xml"
at org.datanucleus.plugin.NonManagedPluginRegistry.registerBundle(NonMan
agedPluginRegistry.java:481)
at org.datanucleus.plugin.NonManagedPluginRegistry.registerExtensions(No
nManagedPluginRegistry.java:219)
at org.datanucleus.plugin.NonManagedPluginRegistry.registerExtensionPoin
ts(NonManagedPluginRegistry.java:160)
at org.datanucleus.plugin.PluginManager.(PluginManager.java:62)
at org.datanucleus.NucleusContext.(NucleusContext.java:211)
at org.datanucleus.NucleusContext.(NucleusContext.java:166)
at org.datanucleus.api.jdo.JDOPersistenceManagerFactory.(JDOPersis
tenceManagerFactory.java:360)
at org.datanucleus.api.jdo.JDOPersistenceManagerFactory.createPersistenc
eManagerFactory(JDOPersistenceManagerFactory.java:290)
at org.datanucleus.api.jdo.JDOPersistenceManagerFactory.getPersistenceMa
nagerFactory(JDOPersistenceManagerFactory.java:191)
at com.ncr.server.Server.(Server.java:68)
at com.ncr.server.Server.main(Server.java:91) Caused by: java.io.FileNotFoundException: E:\ (The system cannot find the path s
pecified)
at java.util.zip.ZipFile.open(Native Method)
at java.util.zip.ZipFile.(ZipFile.java:114)
at java.util.jar.JarFile.(JarFile.java:135)
at java.util.jar.JarFile.(JarFile.java:99)
at org.datanucleus.plugin.NonManagedPluginRegistry.registerBundle(NonMan
agedPluginRegistry.java:390)
... 10 more Nested Throwables StackTrace: java.io.FileNotFoundException: E:\ (The system cannot find the path
specified)
at java.util.zip.ZipFile.open(Native Method)
at java.util.zip.ZipFile.(ZipFile.java:114)
at java.util.jar.JarFile.(JarFile.java:135)
at java.util.jar.JarFile.(JarFile.java:99)
at org.datanucleus.plugin.NonManagedPluginRegistry.registerBundle(NonMan
agedPluginRegistry.java:390)
at org.datanucleus.plugin.NonManagedPluginRegistry.registerExtensions(No
nManagedPluginRegistry.java:219)
at org.datanucleus.plugin.NonManagedPluginRegistry.registerExtensionPoin
ts(NonManagedPluginRegistry.java:160)
at org.datanucleus.plugin.PluginManager.(PluginManager.java:62)
at org.datanucleus.NucleusContext.(NucleusContext.java:211)
at org.datanucleus.NucleusContext.(NucleusContext.java:166)
at org.datanucleus.api.jdo.JDOPersistenceManagerFactory.(JDOPersis
tenceManagerFactory.java:360)
at org.datanucleus.api.jdo.JDOPersistenceManagerFactory.createPersistenc
eManagerFactory(JDOPersistenceManagerFactory.java:290)
at org.datanucleus.api.jdo.JDOPersistenceManagerFactory.getPersistenceMa
nagerFactory(JDOPersistenceManagerFactory.java:191)
at com.ncr.server.Server.(Server.java:68)
at com.ncr.server.Server.main(Server.java:91)
Anybody got clue ?
I am really sorry for everyone, especially for datanucleus members in StackOverflow.
Apparently the problem is me, not the netbeans, datanucleus API, nor anyone.
As you can see from "jar:file:/E:/!new/BTJ/NCRServer/lib/datanucleus-core-3.0.0-release.jar!/plugin.xml", I put the "dist" folder from Netbeans in "E:/!new" folder. I don't know why but the "!new" folder seems to cause the extra exclamation mark(!) in "release.jar!".
I move the dist folder into D:/ and it worked !!
So, if anyone ever experience this problem (precedence a folder's name with exclamation mark and accidentally put a project with datanucleus-core-3.0.0-release.jar inside it), that's the solution.
Thank you.