Searched on Google with the first line of a JAVA stack trace?

We can recommend more relevant solutions and speed up debugging when you paste your entire stack trace with the exception message. Try a sample exception.

Recommended solutions based on your search

Samebug tips

  1. ,
    Expert tip

    A few things cause this exception:
    1) Check if you have all jars and if they're in the correct path.
    2) Your classpath might be broken, you can define it in the command line with java -cp yourClassPath or at your IDE if you're using one.

  2. ,

    you can change your scala version to 2.11.11

Solutions on the web

via GitHub by akiezun
, 1 year ago
org/apache/commons/compress/utils/CountingOutputStream
via GitHub by fleharty
, 2 years ago
org/apache/commons/compress/utils/CountingOutputStream
via GitHub by ghost
, 2 years ago
org/apache/commons/compress/utils/CountingOutputStream
via GitHub by tinuthomas
, 2 years ago
org/apache/commons/compress/utils/CountingOutputStream
java.lang.NoClassDefFoundError: org/apache/commons/compress/utils/CountingOutputStream at htsjdk.samtools.cram.build.CramIO.writeContainerForSamFileHeader(CramIO.java:269) at htsjdk.samtools.cram.build.CramIO.writeCramHeader(CramIO.java:183) at htsjdk.samtools.cram.build.CramIO.writeHeader(CramIO.java:118) at htsjdk.samtools.CRAMContainerStreamWriter.writeHeader(CRAMContainerStreamWriter.java:116) at htsjdk.samtools.CRAMFileWriter.writeHeader(CRAMFileWriter.java:119) at htsjdk.samtools.SAMFileWriterImpl.setHeader(SAMFileWriterImpl.java:142) at htsjdk.samtools.CRAMFileWriter.<init>(CRAMFileWriter.java:105) at htsjdk.samtools.SAMFileWriterFactory.createCRAMWriterWithSettings(SAMFileWriterFactory.java:485) at htsjdk.samtools.SAMFileWriterFactory.makeCRAMWriter(SAMFileWriterFactory.java:435) at htsjdk.samtools.SAMFileWriterFactory.makeWriter(SAMFileWriterFactory.java:381) at picard.sam.RevertSam$RevertSamWriter.<init>(RevertSam.java:556) at picard.sam.RevertSam.doWork(RevertSam.java:222) at picard.cmdline.CommandLineProgram.instanceMain(CommandLineProgram.java:208) at picard.cmdline.PicardCommandLine.instanceMain(PicardCommandLine.java:95) at picard.cmdline.PicardCommandLine.instanceMain(PicardCommandLine.java:100) at picard.cmdline.CommandLineProgramTest.runPicardCommandLine(CommandLineProgramTest.java:48) at picard.sam.RevertSamTest.testOutputByReadGroupWithOutputMap(RevertSamTest.java:172) 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) at org.testng.internal.MethodInvocationHelper.invokeMethod(MethodInvocationHelper.java:86) at org.testng.internal.Invoker.invokeMethod(Invoker.java:643) at org.testng.internal.Invoker.invokeTestMethod(Invoker.java:820) at org.testng.internal.Invoker.invokeTestMethods(Invoker.java:1128) at org.testng.internal.TestMethodWorker.invokeTestMethods(TestMethodWorker.java:129) at org.testng.internal.TestMethodWorker.run(TestMethodWorker.java:112) at org.testng.TestRunner.privateRun(TestRunner.java:782) at org.testng.TestRunner.run(TestRunner.java:632) at org.testng.SuiteRunner.runTest(SuiteRunner.java:366) at org.testng.SuiteRunner.runSequentially(SuiteRunner.java:361) at org.testng.SuiteRunner.privateRun(SuiteRunner.java:319) at org.testng.SuiteRunner.run(SuiteRunner.java:268) at org.testng.SuiteRunnerWorker.runSuite(SuiteRunnerWorker.java:52) at org.testng.SuiteRunnerWorker.run(SuiteRunnerWorker.java:86) at org.testng.TestNG.runSuitesSequentially(TestNG.java:1244) at org.testng.TestNG.runSuitesLocally(TestNG.java:1169) at org.testng.TestNG.run(TestNG.java:1064) at org.gradle.api.internal.tasks.testing.testng.TestNGTestClassProcessor.runTests(TestNGTestClassProcessor.java:133) at org.gradle.api.internal.tasks.testing.testng.TestNGTestClassProcessor.stop(TestNGTestClassProcessor.java:83) at org.gradle.api.internal.tasks.testing.SuiteTestClassProcessor.stop(SuiteTestClassProcessor.java:61) 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) at org.gradle.messaging.dispatch.ReflectionDispatch.dispatch(ReflectionDispatch.java:35) at org.gradle.messaging.dispatch.ReflectionDispatch.dispatch(ReflectionDispatch.java:24) at org.gradle.messaging.dispatch.ContextClassLoaderDispatch.dispatch(ContextClassLoaderDispatch.java:32) at org.gradle.messaging.dispatch.ProxyDispatchAdapter$DispatchingInvocationHandler.invoke(ProxyDispatchAdapter.java:93) at com.sun.proxy.$Proxy2.stop(Unknown Source) at org.gradle.api.internal.tasks.testing.worker.TestWorker.stop(TestWorker.java:120) at sun.reflect.NativeMethodAccessorImpl.invoke0(Native Method) at sun.reflect.NativeMethodAccessorImpl.invoke(NativeMethodAccessorImpl.java:62) at sun.reflect.DelegatingMethodAccessorImpl.invoke(DelegatingMethodAccessorImpl.java:43) at java.lang.reflect.Method.invoke(Method.java:498) at org.gradle.messaging.dispatch.ReflectionDispatch.dispatch(ReflectionDispatch.java:35) at org.gradle.messaging.dispatch.ReflectionDispatch.dispatch(ReflectionDispatch.java:24) at org.gradle.messaging.remote.internal.hub.MessageHub$Handler.run(MessageHub.java:364) at org.gradle.internal.concurrent.ExecutorPolicy$CatchAndRecordFailures.onExecute(ExecutorPolicy.java:54) at org.gradle.internal.concurrent.StoppableExecutorImpl$1.run(StoppableExecutorImpl.java:40) at java.util.concurrent.ThreadPoolExecutor.runWorker(ThreadPoolExecutor.java:1142) at java.util.concurrent.ThreadPoolExecutor$Worker.run(ThreadPoolExecutor.java:617) at java.lang.Thread.run(Thread.java:745)Caused by: java.lang.ClassNotFoundException: org.apache.commons.compress.utils.CountingOutputStream at java.net.URLClassLoader.findClass(URLClassLoader.java:381) 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) ... 63 more