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Running java code on Linux, and the code is written in IntelliJ in windows and CPLEX libraries are used, as well as I got input data from txt filex

I have a problem to run my java code on Linux. I wrote the code in IntelliJ on windows environment and it works. The code needs CPLEX libraries and I get data from txt files. Now, I want to run this code on Linux, but I got these errors:
Exception in thread "main" java.lang.NoClassDefFoundError: ilog/concert/IloException
at java.lang.Class.getDeclaredMethods0(Native Method)
at java.lang.Class.privateGetDeclaredMethods(Class.java:2701)
at java.lang.Class.privateGetMethodRecursive(Class.java:3048)
at java.lang.Class.getMethod0(Class.java:3018)
at java.lang.Class.getMethod(Class.java:1784)
at sun.launcher.LauncherHelper.validateMainClass(LauncherHelper.java:650)
at sun.launcher.LauncherHelper.checkAndLoadMain(LauncherHelper.java:632)
Caused by: java.lang.ClassNotFoundException: ilog.concert.IloException
at java.net.URLClassLoader.findClass(URLClassLoader.java:382)
at java.lang.ClassLoader.loadClass(ClassLoader.java:418)
at sun.misc.Launcher$AppClassLoader.loadClass(Launcher.java:352)
at java.lang.ClassLoader.loadClass(ClassLoader.java:351)
I compiled the code first, and then run it. I do not know how can I run my code. Could you help me please?
for compiling the code I used this command:
javac -classpath /opt/ibm/ILOG/CPLEX_Studio128/cplex/lib/cplex.jar /home/../MIP_Case1/src/MIP.java
Thank you so much for your help.

kaptDebugKotlin crashes when building with Java Version 11 or higher

I'm getting an IllegalStateException/NoClassDefFoundError when trying to run the command ./gradlew :data:test on my project (https://github.com/guger/MoneyBook). This error does occur when I'm using a Java Version higher than 11. I'm not able to use the jdk bundled into the IDE, since robolectric requires Java 9 or higher, when testing against Android Q and Java 9 does not work as it provides it's version string in a format which is not recognized by robolectric.
java.lang.IllegalStateException: failed to analyze: java.lang.NoClassDefFoundError: com/sun/tools/javac/file/BaseFileObject
at org.jetbrains.kotlin.analyzer.AnalysisResult.throwIfError(AnalysisResult.kt:56)
at org.jetbrains.kotlin.cli.jvm.compiler.KotlinToJVMBytecodeCompiler.compileModules$cli(KotlinToJVMBytecodeCompiler.kt:182)
at org.jetbrains.kotlin.cli.jvm.K2JVMCompiler.doExecute(K2JVMCompiler.kt:164)
at org.jetbrains.kotlin.cli.jvm.K2JVMCompiler.doExecute(K2JVMCompiler.kt:54)
at org.jetbrains.kotlin.cli.common.CLICompiler.execImpl(CLICompiler.kt:84)
at org.jetbrains.kotlin.cli.common.CLICompiler.execImpl(CLICompiler.kt:42)
at org.jetbrains.kotlin.cli.common.CLITool.exec(CLITool.kt:104)
at org.jetbrains.kotlin.daemon.CompileServiceImpl.compile(CompileServiceImpl.kt:1558)
at java.base/jdk.internal.reflect.NativeMethodAccessorImpl.invoke0(Native Method)
at java.base/jdk.internal.reflect.NativeMethodAccessorImpl.invoke(NativeMethodAccessorImpl.java:62)
at java.base/jdk.internal.reflect.DelegatingMethodAccessorImpl.invoke(DelegatingMethodAccessorImpl.java:43)
at java.base/java.lang.reflect.Method.invoke(Method.java:567)
at java.rmi/sun.rmi.server.UnicastServerRef.dispatch(UnicastServerRef.java:359)
at java.rmi/sun.rmi.transport.Transport$1.run(Transport.java:200)
at java.rmi/sun.rmi.transport.Transport$1.run(Transport.java:197)
at java.base/java.security.AccessController.doPrivileged(AccessController.java:689)
at java.rmi/sun.rmi.transport.Transport.serviceCall(Transport.java:196)
at java.rmi/sun.rmi.transport.tcp.TCPTransport.handleMessages(TCPTransport.java:562)
at java.rmi/sun.rmi.transport.tcp.TCPTransport$ConnectionHandler.run0(TCPTransport.java:796)
at java.rmi/sun.rmi.transport.tcp.TCPTransport$ConnectionHandler.lambda$run$0(TCPTransport.java:677)
at java.base/java.security.AccessController.doPrivileged(AccessController.java:389)
at java.rmi/sun.rmi.transport.tcp.TCPTransport$ConnectionHandler.run(TCPTransport.java:676)
at java.base/java.util.concurrent.ThreadPoolExecutor.runWorker(ThreadPoolExecutor.java:1128)
at java.base/java.util.concurrent.ThreadPoolExecutor$Worker.run(ThreadPoolExecutor.java:628)
at java.base/java.lang.Thread.run(Thread.java:835) Caused by: java.lang.NoClassDefFoundError: com/sun/tools/javac/file/BaseFileObject
at org.jetbrains.kotlin.kapt3.base.javac.KaptJavaFileManager.shouldBeFiltered(KaptJavaFileManager.kt:69)
at org.jetbrains.kotlin.kapt3.base.javac.KaptJavaFileManager.list(KaptJavaFileManager.kt:49)
at jdk.compiler/com.sun.tools.javac.code.ClassFinder.list(ClassFinder.java:737)
at jdk.compiler/com.sun.tools.javac.code.ClassFinder.scanUserPaths(ClassFinder.java:674)
at jdk.compiler/com.sun.tools.javac.code.ClassFinder.fillIn(ClassFinder.java:554)
at jdk.compiler/com.sun.tools.javac.code.ClassFinder.complete(ClassFinder.java:299)
at jdk.compiler/com.sun.tools.javac.code.Symbol.complete(Symbol.java:642)
at jdk.compiler/com.sun.tools.javac.code.Symbol$PackageSymbol.members(Symbol.java:1131)
at jdk.compiler/com.sun.tools.javac.code.Symtab.listPackageModules(Symtab.java:834)
at jdk.compiler/com.sun.tools.javac.comp.Enter.visitTopLevel(Enter.java:345)
at jdk.compiler/com.sun.tools.javac.tree.JCTree$JCCompilationUnit.accept(JCTree.java:535)
at jdk.compiler/com.sun.tools.javac.comp.Enter.classEnter(Enter.java:286)
at jdk.compiler/com.sun.tools.javac.comp.Enter.classEnter(Enter.java:301)
at jdk.compiler/com.sun.tools.javac.comp.Enter.complete(Enter.java:577)
at jdk.compiler/com.sun.tools.javac.comp.Enter.main(Enter.java:561)
at jdk.compiler/com.sun.tools.javac.main.JavaCompiler.enterTrees(JavaCompiler.java:1066)
at org.jetbrains.kotlin.kapt3.base.AnnotationProcessingKt.doAnnotationProcessing(annotationProcessing.kt:66)
at org.jetbrains.kotlin.kapt3.base.AnnotationProcessingKt.doAnnotationProcessing$default(annotationProcessing.kt:35)
at org.jetbrains.kotlin.kapt3.AbstractKapt3Extension.runAnnotationProcessing(Kapt3Extension.kt:230)
at org.jetbrains.kotlin.kapt3.AbstractKapt3Extension.analysisCompleted(Kapt3Extension.kt:188)
at org.jetbrains.kotlin.kapt3.ClasspathBasedKapt3Extension.analysisCompleted(Kapt3Extension.kt:99)
at org.jetbrains.kotlin.cli.jvm.compiler.TopDownAnalyzerFacadeForJVM$analyzeFilesWithJavaIntegration$2.invoke(TopDownAnalyzerFacadeForJVM.kt:96)
at org.jetbrains.kotlin.cli.jvm.compiler.TopDownAnalyzerFacadeForJVM.analyzeFilesWithJavaIntegration(TopDownAnalyzerFacadeForJVM.kt:106)
at org.jetbrains.kotlin.cli.jvm.compiler.TopDownAnalyzerFacadeForJVM.analyzeFilesWithJavaIntegration$default(TopDownAnalyzerFacadeForJVM.kt:81)
at org.jetbrains.kotlin.cli.jvm.compiler.KotlinToJVMBytecodeCompiler$analyze$1.invoke(KotlinToJVMBytecodeCompiler.kt:555)
at org.jetbrains.kotlin.cli.jvm.compiler.KotlinToJVMBytecodeCompiler$analyze$1.invoke(KotlinToJVMBytecodeCompiler.kt:82)
at org.jetbrains.kotlin.cli.common.messages.AnalyzerWithCompilerReport.analyzeAndReport(AnalyzerWithCompilerReport.kt:107)
at org.jetbrains.kotlin.cli.jvm.compiler.KotlinToJVMBytecodeCompiler.analyze(KotlinToJVMBytecodeCompiler.kt:546)
at org.jetbrains.kotlin.cli.jvm.compiler.KotlinToJVMBytecodeCompiler.compileModules$cli(KotlinToJVMBytecodeCompiler.kt:177)
... 23 more Caused by: java.lang.ClassNotFoundException: com.sun.tools.javac.file.BaseFileObject
at java.base/java.net.URLClassLoader.findClass(URLClassLoader.java:436)
at java.base/java.lang.ClassLoader.loadClass(ClassLoader.java:588)
at java.base/java.lang.ClassLoader.loadClass(ClassLoader.java:521)
... 52 more
Does anyone experience a similar behaviour when running Android Projects on Java 11/12/13?

I had a similar issue recently regarding to JDK9.
I used this library which solved the problem:
"com.github.pengrad:jdk9-deps:1.0"

Unfortunately, this is due to the lacking support of JDK 13 in Gradle 5.x.
Gradle 6.0 will support Java 13 (https://docs.gradle.org/6.0/release-notes.html).
Until then, there's no other possibility than waiting.

Error occurred during initialization of VM from a remote debian VM

I know my question is related to some others, but the answers I found don't work for me. That's my problem: I have to run a JAVA script on a remote debian VM (from bash). When I run the program I get this:
Error occurred during initialization of VM
java.lang.Error: java.lang.ClassNotFoundException: org.processmining.framework.util.ProMClassLoader
at java.lang.ClassLoader.initSystemClassLoader(ClassLoader.java:1469)
at java.lang.ClassLoader.getSystemClassLoader(ClassLoader.java:1436)
Caused by: java.lang.ClassNotFoundException: org.processmining.framework.util.ProMClassLoader
at java.net.URLClassLoader.findClass(URLClassLoader.java:382)
at java.lang.ClassLoader.loadClass(ClassLoader.java:424)
at sun.misc.Launcher$AppClassLoader.loadClass(Launcher.java:349)
at java.lang.ClassLoader.loadClass(ClassLoader.java:357)
at java.lang.Class.forName0(Native Method)
at java.lang.Class.forName(Class.java:348)
at java.lang.SystemClassLoaderAction.run(ClassLoader.java:2209)
at java.lang.SystemClassLoaderAction.run(ClassLoader.java:2195)
at java.security.AccessController.doPrivileged(Native Method)
at java.lang.ClassLoader.initSystemClassLoader(ClassLoader.java:1456)
at java.lang.ClassLoader.getSystemClassLoader(ClassLoader.java:1436)
As seen on stackoverflow, I already tried different display options, like
export DISPLAY=:0.0
setenv DISPLAY :0.0
unset DISPLAY
and some others, but unsuccessfully.
I suspect a GUI problem on my debian VM. An idea ?

How to run ControlsFX sample application using Java 11 and JavaFX 11

ControlsFX website says:
If you want to play with the ControlsFX sample application, simply
download the ControlsFX release and run the following command on the
command prompt (be sure to replace the * with the actual version
number of FXSampler and ControlsFX-samples):
java -jar controlsfx-samples-*.jar
I've downloaded ControlsFX 9.0.0 which is said to be for users of Java 9 and later.
When I run java -jar controlsfx-samples-9.0.0.jar I get
Error: Could not find or load main class fxsampler.FXSampler
Caused by: java.lang.NoClassDefFoundError: javafx/application/Application
But that's OK, as according to Run HelloWorld using JavaFX 11 guide, I have to add modules.
So I try java --module-path "C:\Program Files\Java\javafx-sdk-11\lib" --add-modules=javafx.controls -jar controlsfx-samples-9.0.0.jar and I get
Missing JavaFX application class fxsampler.FXSampler
I execute all commands from controlsfx-9.0.0 directory which contains controlsfx-9.0.0.jar, controlsfx-samples-9.0.0.jar and fxsampler-1.0.10.jar.
Output of java -version for me is:
openjdk version "11.0.1" 2018-10-16
OpenJDK Runtime Environment 18.9 (build 11.0.1+13)
OpenJDK 64-Bit Server VM 18.9 (build 11.0.1+13, mixed mode)
Any comments and suggestions are appreciated.
Thanks in advance.
EDIT:
After following Slaw's advice and running java --module-path "C:\Program Files\Java\javafx-sdk-11\lib" --add-modules=javafx.controls,javafx.fxml,javafx.web -jar controlsfx-samples-9.0.0.jar I get
Initialising FXSampler sample scanner...
Discovering projects...
Found project 'ControlsFX', with sample base package 'org.controlsfx.samples'
Exception in Application start method
java.lang.reflect.InvocationTargetException
at java.base/jdk.internal.reflect.NativeMethodAccessorImpl.invoke0(Native Method)
at java.base/jdk.internal.reflect.NativeMethodAccessorImpl.invoke(NativeMethodAccessorImpl.java:62)
at java.base/jdk.internal.reflect.DelegatingMethodAccessorImpl.invoke(DelegatingMethodAccessorImpl.java:43)
at java.base/java.lang.reflect.Method.invoke(Method.java:566)
at javafx.graphics/com.sun.javafx.application.LauncherImpl.launchApplicationWithArgs(LauncherImpl.java:464)
at javafx.graphics/com.sun.javafx.application.LauncherImpl.launchApplication(LauncherImpl.java:363)
at java.base/jdk.internal.reflect.NativeMethodAccessorImpl.invoke0(Native Method)
at java.base/jdk.internal.reflect.NativeMethodAccessorImpl.invoke(NativeMethodAccessorImpl.java:62)
at java.base/jdk.internal.reflect.DelegatingMethodAccessorImpl.invoke(DelegatingMethodAccessorImpl.java:43)
at java.base/java.lang.reflect.Method.invoke(Method.java:566)
at java.base/sun.launcher.LauncherHelper$FXHelper.main(LauncherHelper.java:1051)
Caused by: java.lang.RuntimeException: Exception in Application start method
at javafx.graphics/com.sun.javafx.application.LauncherImpl.launchApplication1(LauncherImpl.java:900)
at javafx.graphics/com.sun.javafx.application.LauncherImpl.lambda$launchApplication$2(LauncherImpl.java:195)
at java.base/java.lang.Thread.run(Thread.java:834)
Caused by: java.lang.NoClassDefFoundError: Could not initialize class impl.org.controlsfx.version.VersionChecker
at org.controlsfx.control.ControlsFXControl.(ControlsFXControl.java:35)
at org.controlsfx.control.WorldMapView.(WorldMapView.java:93)
at org.controlsfx.samples.HelloWorldMapView.(HelloWorldMapView.java:55)
at java.base/jdk.internal.reflect.NativeConstructorAccessorImpl.newInstance0(Native Method)
at java.base/jdk.internal.reflect.NativeConstructorAccessorImpl.newInstance(NativeConstructorAccessorImpl.java:62)
at java.base/jdk.internal.reflect.DelegatingConstructorAccessorImpl.newInstance(DelegatingConstructorAccessorImpl.java:45)
at java.base/java.lang.reflect.Constructor.newInstance(Constructor.java:490)
at java.base/java.lang.Class.newInstance(Class.java:584)
at fxsampler.util.SampleScanner.discoverSamples(SampleScanner.java:86)
at fxsampler.FXSampler.start(FXSampler.java:106)
at javafx.graphics/com.sun.javafx.application.LauncherImpl.lambda$launchApplication1$9(LauncherImpl.java:846)
at javafx.graphics/com.sun.javafx.application.PlatformImpl.lambda$runAndWait$12(PlatformImpl.java:455)
at javafx.graphics/com.sun.javafx.application.PlatformImpl.lambda$runLater$10(PlatformImpl.java:428)
at java.base/java.security.AccessController.doPrivileged(Native Method)
at javafx.graphics/com.sun.javafx.application.PlatformImpl.lambda$runLater$11(PlatformImpl.java:427)
at javafx.graphics/com.sun.glass.ui.InvokeLaterDispatcher$Future.run(InvokeLaterDispatcher.java:96)
at javafx.graphics/com.sun.glass.ui.win.WinApplication._runLoop(Native Method)
at javafx.graphics/com.sun.glass.ui.win.WinApplication.lambda$runLoop$3(WinApplication.java:174)
... 1 more
Exception running application fxsampler.FXSampler

Fixed in PR #720. So new Maven artifacts will incorporate the fix.
Full issue history can be seen here.

Code running in Netbeans but not in command line

I downloaded the time series classification toolbox available here that I succeed to run with Netbeans (not with Eclipse due to compatibility problems) using the command
netbeans --jdkhome /usr/lib/jvm/java-1.8.0-openjdk-amd64/
I would like to be able to run it on a server so I need to be able to run it using command lines.
However I didn't succeed. My guess is that there is a problem with jdk (I'm not used to Java so it might be something else), since when I run
sudo update-alternatives --config java
I get
There are 5 choices for the alternative java (providing /usr/bin/java).
Selection Path Priority Status
------------------------------------------------------------
0 /usr/lib/jvm/java-9-openjdk-amd64/bin/java 1091 auto mode
1 /usr/bin/gij-4.8 1048 manual mode
2 /usr/bin/gij-4.9 1049 manual mode
3 /usr/bin/gij-5 1050 manual mode
* 4 /usr/lib/jvm/java-8-openjdk-amd64/jre/bin/java 1081 manual mode
5 /usr/lib/jvm/java-9-openjdk-amd64/bin/java 1091 manual mode
Which does not contains the path to the jdk I use with Netbeans.
I didn't find a way to tell Java that I wanted to use another jdk, so I tried without:
Example where I run a specific main file
From TimeSeriesClassification/src:
javac timeseriesweka/classifiers/LearnShapelets.java
java -cp ../bin:. timeseriesweka.classifiers.LearnShapelets
Error: A JNI error has occurred, please check your installation and try again
Exception in thread "main" java.lang.NoClassDefFoundError: TechnicalInformation
at java.lang.Class.getDeclaredMethods0(Native Method)
at java.lang.Class.privateGetDeclaredMethods(Class.java:2701)
at java.lang.Class.privateGetMethodRecursive(Class.java:3048)
at java.lang.Class.getMethod0(Class.java:3018)
at java.lang.Class.getMethod(Class.java:1784)
at sun.launcher.LauncherHelper.validateMainClass(LauncherHelper.java:544)
at sun.launcher.LauncherHelper.checkAndLoadMain(LauncherHelper.java:526)
Caused by: java.lang.ClassNotFoundException: TechnicalInformation
at java.net.URLClassLoader.findClass(URLClassLoader.java:381)
at java.lang.ClassLoader.loadClass(ClassLoader.java:424)
at sun.misc.Launcher$AppClassLoader.loadClass(Launcher.java:335)
at java.lang.ClassLoader.loadClass(ClassLoader.java:357)
... 7 more
Any help on how to set up correctly Java will be appreciated
With (following the answer of ACV)
java -cp ../bin/Test.jar:lib/*:. timeseriesweka.classifiers.LearnShapelets
Exception in thread "main" java.lang.BootstrapMethodError: java.lang.NoClassDefFoundError: java/lang/invoke/StringConcatFactory
at timeseriesweka.classifiers.LearnShapelets.main(LearnShapelets.java:746)
Caused by: java.lang.NoClassDefFoundError: java/lang/invoke/StringConcatFactory
... 1 more
Caused by: java.lang.ClassNotFoundException: java.lang.invoke.StringConcatFactory
at java.net.URLClassLoader.findClass(URLClassLoader.java:381)
at java.lang.ClassLoader.loadClass(ClassLoader.java:424)
at sun.misc.Launcher$AppClassLoader.loadClass(Launcher.java:335)
at java.lang.ClassLoader.loadClass(ClassLoader.java:357)
... 1 more

Try this:
-cp "../bin/Test.jar:lib/*:." instead of your:
-cp ../bin:.