Issue to run gatk4 spark
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6 weeks ago
Mojtaba • 0

I'm going to use some tools of "gatk" with complete capacity of my PC by "gatk-spark", But when running it, i getting this error. Please help

Exception in thread "main" java.lang.NoClassDefFoundError: org/apache/spark/Partitioner
at java.base/java.lang.Class.getDeclaredConstructors0(Native Method)
at java.base/java.lang.Class.privateGetDeclaredConstructors(Class.java:3373)
at java.base/java.lang.Class.getConstructors(Class.java:2060)
at org.broadinstitute.hellbender.utils.ClassUtils.canMakeInstances(ClassUtils.java:31)
at org.broadinstitute.hellbender.Main.extractCommandLineProgram(Main.java:336)
at org.broadinstitute.hellbender.Main.setupConfigAndExtractProgram(Main.java:186)
at org.broadinstitute.hellbender.Main.mainEntry(Main.java:208)
at org.broadinstitute.hellbender.Main.main(Main.java:306)
Caused by: java.lang.ClassNotFoundException: org.apache.spark.Partitioner
at java.base/jdk.internal.loader.BuiltinClassLoader.loadClass(BuiltinClassLoader.java:641)
at java.base/jdk.internal.loader.ClassLoaders$AppClassLoader.loadClass(ClassLoaders.java:188)
at java.base/java.lang.ClassLoader.loadClass(ClassLoader.java:525)
... 8 more
gatk spark • 129 views
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