We Keep Coding

"No dependency satisfies type class org.neo4j.kernel.api.index.SchemaIndexProvider" when building über-jar

I have manually downloaded and added the libraries log4j, jsoup and neo4j for a project in Intellij Idea.
Before adding neo4j, I could build a jar as an artifact with all the libraries extracted to it so i could directly copy it somewhere and run with java -jar file.jar.
When I run the application in IntelliJ Idea it always works!
Now i get the following error when running the jar:
Error: A JNI error has occurred, please check your installation and try again Exception in thread "main" java.lang.SecurityException: Invalid signature file digest for Manifest main attributes
at sun.security.util.SignatureFileVerifier.processImpl(SignatureFileVerifier.java:314)
at sun.security.util.SignatureFileVerifier.process(SignatureFileVerifier.java:268)
at java.util.jar.JarVerifier.processEntry(JarVerifier.java:316)
at java.util.jar.JarVerifier.update(JarVerifier.java:228)
at java.util.jar.JarFile.initializeVerifier(JarFile.java:383)
at java.util.jar.JarFile.getInputStream(JarFile.java:450)
at sun.misc.JarIndex.getJarIndex(JarIndex.java:137)
at sun.misc.URLClassPath$JarLoader$1.run(URLClassPath.java:839)
at sun.misc.URLClassPath$JarLoader$1.run(URLClassPath.java:831)
at java.security.AccessController.doPrivileged(Native Method)
at sun.misc.URLClassPath$JarLoader.ensureOpen(URLClassPath.java:830)
at sun.misc.URLClassPath$JarLoader.<init>(URLClassPath.java:803)
at sun.misc.URLClassPath$3.run(URLClassPath.java:530)
at sun.misc.URLClassPath$3.run(URLClassPath.java:520)
at java.security.AccessController.doPrivileged(Native Method)
at sun.misc.URLClassPath.getLoader(URLClassPath.java:519)
at sun.misc.URLClassPath.getLoader(URLClassPath.java:492)
at sun.misc.URLClassPath.getNextLoader(URLClassPath.java:457)
at sun.misc.URLClassPath.getResource(URLClassPath.java:211)
at java.net.URLClassLoader$1.run(URLClassLoader.java:365)
at java.net.URLClassLoader$1.run(URLClassLoader.java:362)
at java.security.AccessController.doPrivileged(Native Method)
at java.net.URLClassLoader.findClass(URLClassLoader.java:361)
at java.lang.ClassLoader.loadClass(ClassLoader.java:424)
at sun.misc.Launcher$AppClassLoader.loadClass(Launcher.java:331)
at java.lang.ClassLoader.loadClass(ClassLoader.java:357)
at sun.launcher.LauncherHelper.checkAndLoadMain(LauncherHelper.java:495)
I already searched for the error and found that a library seems to be signed and I can't just pack it into another jar, because it thinks it was modified then.
The suggested solution was to exclude the signing files through the build system.
I tried to manually delete the BCKEY.dsa and the BCKEY.sf files (only signing files in META-INF folder) in the resulting jar but then I get the following error:
Exception in thread "main" java.lang.RuntimeException: Error starting org.neo4j.kernel.impl.factory.CommunityFacadeFactory, /home/xuiqzy/Documents/uni/4.Semester/PRG_practicum/WikiXtractor/data
at org.neo4j.kernel.impl.factory.GraphDatabaseFacadeFactory.newFacade(GraphDatabaseFacadeFactory.java:144)
at org.neo4j.kernel.impl.factory.CommunityFacadeFactory.newFacade(CommunityFacadeFactory.java:40)
at org.neo4j.kernel.impl.factory.GraphDatabaseFacadeFactory.newFacade(GraphDatabaseFacadeFactory.java:108)
at org.neo4j.graphdb.factory.GraphDatabaseFactory.newDatabase(GraphDatabaseFactory.java:100)
at org.neo4j.graphdb.factory.GraphDatabaseFactory.lambda$createDatabaseCreator$0(GraphDatabaseFactory.java:89)
at org.neo4j.graphdb.factory.GraphDatabaseBuilder.newGraphDatabase(GraphDatabaseBuilder.java:183)
at org.neo4j.graphdb.factory.GraphDatabaseFactory.newEmbeddedDatabase(GraphDatabaseFactory.java:65)
at de.bened.wikixtractor.DatabaseManager.initialize(DatabaseManager.java:43)
at de.bened.wikixtractor.Main.main(Main.java:83)
Caused by: org.neo4j.kernel.lifecycle.LifecycleException: Component 'org.neo4j.kernel.NeoStoreDataSource#5c67716' was successfully initialized, but failed to start. Please see attached cause exception.
at org.neo4j.kernel.lifecycle.LifeSupport$LifecycleInstance.start(LifeSupport.java:444)
at org.neo4j.kernel.lifecycle.LifeSupport.start(LifeSupport.java:107)
at org.neo4j.kernel.impl.transaction.state.DataSourceManager.start(DataSourceManager.java:99)
at org.neo4j.kernel.lifecycle.LifeSupport$LifecycleInstance.start(LifeSupport.java:434)
at org.neo4j.kernel.lifecycle.LifeSupport.start(LifeSupport.java:107)
at org.neo4j.kernel.impl.factory.GraphDatabaseFacadeFactory.newFacade(GraphDatabaseFacadeFactory.java:140)
... 8 more
Caused by: org.neo4j.kernel.impl.util.UnsatisfiedDependencyException: No dependency satisfies type class org.neo4j.kernel.api.index.SchemaIndexProvider
at org.neo4j.kernel.impl.util.Dependencies.resolveDependency(Dependencies.java:71)
at org.neo4j.kernel.impl.util.Dependencies.resolveDependency(Dependencies.java:67)
at org.neo4j.kernel.NeoStoreDataSource.start(NeoStoreDataSource.java:418)
at org.neo4j.kernel.lifecycle.LifeSupport$LifecycleInstance.start(LifeSupport.java:434)
... 13 more
I also searched that error, a META-INF/services/org.neo4j.kernel.extension.KernelExtensionFactory file exists in my jar, there are also the jars lucene-analyzers-commen, lucene-codecs, lucene-core, lucene-queryparser, neo4j-lucene-index and neo4j-lucene-upgrade all integrated in the über-jar and the build in IntelliJ Idea seems to have enough dependencies, too.
So I'm a bit clueless why the jar doesn't work as opposed to the build in the IDE.
Long term I'm willing to switch to a build system but for now:
Is there a way to get the jar to run?
Any help or pointers in the right direction are appreciated! :)

Java: Including jar in classpath

I created a Java project in Eclipse and created a simple class with a main method.
Problem: when I run the program(without any server etc), I get the following error:
Exception in thread "main" java.lang.NoClassDefFoundError: org/apache/commons/codec/DecoderException
at autoPEC.main(autoPEC.java:6)
Caused by: java.lang.ClassNotFoundException: org.apache.commons.codec.DecoderException
at java.net.URLClassLoader$1.run(URLClassLoader.java:200)
at java.security.AccessController.doPrivileged(Native Method)
at java.net.URLClassLoader.findClass(URLClassLoader.java:188)
at java.lang.ClassLoader.loadClass(ClassLoader.java:307)
at sun.misc.Launcher$AppClassLoader.loadClass(Launcher.java:301)
at java.lang.ClassLoader.loadClass(ClassLoader.java:252)
at java.lang.ClassLoader.loadClassInternal(ClassLoader.java:320)
... 1 more
What I tried to solve the problem: included path to commons-codec.jar in the environment variables JAVA_HOME by putting a semicolon after the jdk path
Result: class still does not run
I think that the problem could be that I am not correctly including the classpath. How should I do this?

Google the missing jar and include it in the Java Build path

Reason for this exception is missing of a jar.
please add the jar(Commons-codec.jar) file needed for this org.apache.commons.codec.DecoderException
Download it from here
http://commons.apache.org/proper/commons-codec/download_codec.cgi
then put it in your classpath

Exception in thread "main" java.lang.NoClassDefFoundError:

I am trying to run a java program and I am getting the following run time error.The error is shown below.
Exception in thread "main" java.lang.NoClassDefFoundError: org/apache/http/params/SyncBasicHttpParams
at org.apache.http.impl.client.DefaultHttpClient.createHttpParams(DefaultHttpClient.java:157)
at org.apache.http.impl.client.AbstractHttpClient.getParams(AbstractHttpClient.java:448)
at org.apache.http.impl.client.AbstractHttpClient.createClientConnectionManager(AbstractHttpClient.java:309)
at org.apache.http.impl.client.AbstractHttpClient.getConnectionManager(AbstractHttpClient.java:466)
at org.apache.http.impl.client.AbstractHttpClient.createHttpContext(AbstractHttpClient.java:286)
at org.apache.http.impl.client.AbstractHttpClient.execute(AbstractHttpClient.java:851)
at org.apache.http.impl.client.AbstractHttpClient.execute(AbstractHttpClient.java:805)
at org.apache.http.impl.client.AbstractHttpClient.execute(AbstractHttpClient.java:784)
at net.floodlightcontroller.core.internal.PacketStreamerClient.registerForPackets(PacketStreamerClient.java:90)
at net.floodlightcontroller.core.internal.PacketStreamerClient.main(PacketStreamerClient.java:51)
Caused by: java.lang.ClassNotFoundException: org.apache.http.params.SyncBasicHttpParams
at java.net.URLClassLoader$1.run(URLClassLoader.java:366)
at java.net.URLClassLoader$1.run(URLClassLoader.java:355)
at java.security.AccessController.doPrivileged(Native Method)
at java.net.URLClassLoader.findClass(URLClassLoader.java:354)
at java.lang.ClassLoader.loadClass(ClassLoader.java:424)
at sun.misc.Launcher$AppClassLoader.loadClass(Launcher.java:308)
at java.lang.ClassLoader.loadClass(ClassLoader.java:357)
... 10 more
The error is java.lang.NoClassDefFoundError
Now the Obvious reason of NoClassDefFoundError is that a particular class is not available in Classpath, so we need to add that into Classpath or we need to check why it’s not available in Classpath if we are expecting it to be.
Now the files that I have added to the classpath are the following.
export CLASSPATH=$(JARS=(./lib/*.jar); IFS=:; echo "${JARS[*]}")
export CLASSPATH=$CLASSPATH:~/.m2/repository/org/apache/httpcomponents/httpclient/4.0.1/httpclient-4.0.1.jar
export CLASSPATH=$CLASSPATH:~/.m2/repository/org/apache/httpcomponents/httpcore/4.0.1/httpcore-4.0.1.jar
export CLASSPATH=$CLASSPATH:~/.m2/repository/commons-logging/commons-logging/1.1.1/commons-logging-1.1.1.jar
export CLASSPAHT=$CLASSPATH:~/ms_thesis/ONOS/httpcore-4.1.jar
#export CLASSPATH=$CLASSPATH:~/ms_thesis/ONOS/lib/httpclient-4.2.jar
export CLASSPATH=$CLASSPATH:~/google-gson-2.2.4/gson-2.2.4.jar
What jar file should I add to find "org/apache/http/params/SyncBasicHttpParams" I am very new to java and don't know how to debug this issue.

According to the official documentation, the class that you seek is only in httpcore since 4.1. You'll want to pull a new JAR.

org/apache/http/params/SyncBasicHttpParams class is under httpcore-4.1-alpha1.jar , which can be downloaded from
http://mirrors.ibiblio.org/pub/mirrors/maven2/org/apache/httpcomponents/httpcore/4.1-alpha1/httpcore-4.1-alpha1.jar
In future if you need to find a jar for a class, then you can use this link, this is generally helpful:
http://www.findjar.com/

In your case it seems to br you missing out some necessory jar files to include in your project
otherwise you any one of your linked is giving an exception mainly because of static method invocation or intialization

Here's the link to get the jar file httpcore-4.1

Jsoup error at run time: Exception in thread "main" java.lang.NoClassDefFoundError

I am getting the following error
Exception in thread "main" java.lang.NoClassDefFoundError: org/jsoup/Jsoup
at Main.main(Main.java:42)
Caused by: java.lang.ClassNotFoundException: org.jsoup.Jsoup
at java.net.URLClassLoader$1.run(URLClassLoader.java:366)
at java.net.URLClassLoader$1.run(URLClassLoader.java:355)
at java.security.AccessController.doPrivileged(Native Method)
at java.net.URLClassLoader.findClass(URLClassLoader.java:354)
at java.lang.ClassLoader.loadClass(ClassLoader.java:423)
at sun.misc.Launcher$AppClassLoader.loadClass(Launcher.java:308)
at java.lang.ClassLoader.loadClass(ClassLoader.java:356)
... 1 more
Now what I have done so far:
I created a libs folder in my project folder and added the Jsoup.jar there. Then in eclipse I click properties, add external Jar and added it. I see the referenced library.
But the issue still persist. I dont get compilation errors. So this is a runtime issue. Appreciate the help.
Edit:
I have found the following
If I compile using
javac -classpath /path/to/jsoup.jar myclass.java
and then
java -classpath /path/to/jsoup.jar myclass
It runs perfect.
Now. This is not working for me because I am going to use my application on a computer that does not have Jsoup. So how to I resolve this runtime issue?

Go to Run configurations... menu and check classpath for Run task. It looks like you add library for Compilation step, but it doesn't set at Run step.
Edit (after comment)
I dove into the issue and found that this dependency is needed for application container. So you just need to add this library to classpath of your app server. If you use Tomcat, just put the library to the %CATALINA_HOME%\lib directory.

NoClassDefFoundError while running on 64bit machine

I am getting the following exception while service startup on a 64bit Machine.
But the code runs fine on a 32bit machine.
java.lang.NoClassDefFoundError: org/objectweb/asm/commons/EmptyVisitor
at java.lang.ClassLoader.defineClass1(Native Method)
at java.lang.ClassLoader.defineClassCond(ClassLoader.java:631)
at java.lang.ClassLoader.defineClass(ClassLoader.java:615)
at java.security.SecureClassLoader.defineClass(SecureClassLoader.java:141)
at java.net.URLClassLoader.defineClass(URLClassLoader.java:283)
at java.net.URLClassLoader.access$000(URLClassLoader.java:58)
at java.net.URLClassLoader$1.run(URLClassLoader.java:197)
at java.security.AccessController.doPrivileged(Native Method)
at java.net.URLClassLoader.findClass(URLClassLoader.java:190)
at java.lang.ClassLoader.loadClass(ClassLoader.java:306)
at sun.misc.Launcher$AppClassLoader.loadClass(Launcher.java:301)
at java.lang.ClassLoader.loadClass(ClassLoader.java:247)
at org.springframework.context.support.GenericApplicationContext.<init (GenericApplicationContext.java:103)
at org.springframework.context.support.GenericApplicationContext.<init>(GenericApplicationContext.java:125)
at org.springframework.coral.CoralApplicationContext.<init>(CoralApplicationContext.java:41)
at org.springframework.coral.CoralApplicationContext.<init>(CoralApplicationContext.java:35)
at org.springframework.coral.DisposableApplicationContext.<init>(DisposableApplicationContext.java:16)
at com.amazon.coral.spring.Launcher.<init>(Launcher.java:85)
at com.amazon.coral.spring.Launcher.main(Launcher.java:56)
Caused by: java.lang.ClassNotFoundException: org.objectweb.asm.commons.EmptyVisitor
at java.net.URLClassLoader$1.run(URLClassLoader.java:202)
at java.security.AccessController.doPrivileged(Native Method)
at java.net.URLClassLoader.findClass(URLClassLoader.java:190)
at java.lang.ClassLoader.loadClass(ClassLoader.java:306)
at sun.misc.Launcher$AppClassLoader.loadClass(Launcher.java:301)
at java.lang.ClassLoader.loadClass(ClassLoader.java:247)
... 19 more

Unless you (or the libraries you use) are using native code, the underlying platform is very seldom the problem in Java programs.
From the Javadoc of NoClassDefFoundError (http://docs.oracle.com/javase/1.4.2/docs/api/java/lang/NoClassDefFoundError.html):
Thrown if the Java Virtual Machine or a ClassLoader instance tries to
load in the definition of a class (as part of a normal method call or
as part of creating a new instance using the new expression) and no
definition of the class could be found.
The searched-for class definition existed when the currently executing
class was compiled, but the definition can no longer be found.
So it was present when the code was compiled, but not anymore when you try to run it elsewhere. The single-most typical reason for this is that the classpath is incorrectly set up, usually by not having the jar-file containing the class in question is not in the classpath. Revise your classpath definition and rerun.
If you are unfamiliar with how the classpath works I can strongly recommend reading up on the Oracle Java Tutorial.

99% likelihood is that you have a CLASSPATH environment variable on the machine where it runs, and not on the machine where it doesn't. If you're starting from a service on the latter and the command-line on the former, make that 99.9%.

Check your JAVA_HOME environment variable. If your are using eclipse IDE, check your IDE's Java Build Path.

Same problem I'm facing. I resolved the problem by adding the following 2 jar files:
asm-all 2.2.3.jar
cglib-nodep 2.1_3.jar
and remove the asm.jar and cglib.jar from the machine (64bit) where I got error.
But my question is why this problem exits in that machine. I checked CLASSPATH, PATH and JAVA_HOME environment varibles. But all are same in the two machine.

Same problem I'm facing. I resolved the problem by adding the following 2 jar files:
asm-all 3.3.1.jar
cglib-nodep 2.1.3.jar
and remove the asm.jar and cglib.jar in lib