Exception

gistfile1.txt

java.lang.IllegalArgumentException: Cannot handle replace call to list in ij.Menus's public static synchronized java.lang.String[] getPlugins()
	at net.imagej.patcher.CodeHacker.replaceCallInMethod(CodeHacker.java:725)
	at net.imagej.patcher.CodeHacker.replaceCallInMethod(CodeHacker.java:650)
	at net.imagej.patcher.LegacyExtensions.addExtraPlugins(LegacyExtensions.java:477)
	at net.imagej.patcher.LegacyExtensions.injectHooks(LegacyExtensions.java:175)
	at net.imagej.patcher.LegacyInjector.inject(LegacyInjector.java:308)
	at net.imagej.patcher.LegacyInjector.injectHooks(LegacyInjector.java:109)
	at net.imagej.patcher.LegacyEnvironment.initialize(LegacyEnvironment.java:101)
	at net.imagej.patcher.LegacyEnvironment.applyPatches(LegacyEnvironment.java:495)
	at net.imagej.patcher.LegacyInjector.preinit(LegacyInjector.java:397)
	at net.imagej.patcher.LegacyInjector.preinit(LegacyInjector.java:376)
	at fiji.Debug.<clinit>(Debug.java:14)
	at de.mpi_dortmund.ij.boxtools.boxtrainer.BoxTrainer_.main(BoxTrainer_.java:388)
Caused by: java.lang.RuntimeException: java.io.IOException: invalid constant type: 18 at 168
	at javassist.CtClassType.getClassFile2(CtClassType.java:204)
	at javassist.compiler.MemberResolver.lookupMethod(MemberResolver.java:98)
	at javassist.compiler.MemberResolver.lookupMethod(MemberResolver.java:84)
	at javassist.compiler.TypeChecker.atMethodCallCore(TypeChecker.java:711)
	at javassist.compiler.TypeChecker.atCallExpr(TypeChecker.java:688)
	at javassist.compiler.JvstTypeChecker.atCallExpr(JvstTypeChecker.java:157)
	at javassist.compiler.ast.CallExpr.accept(CallExpr.java:46)
	at javassist.compiler.CodeGen.doTypeCheck(CodeGen.java:242)
	at javassist.compiler.CodeGen.atStmnt(CodeGen.java:330)
	at javassist.compiler.ast.Stmnt.accept(Stmnt.java:50)
	at javassist.compiler.CodeGen.atIfStmnt(CodeGen.java:391)
	at javassist.compiler.CodeGen.atStmnt(CodeGen.java:355)
	at javassist.compiler.ast.Stmnt.accept(Stmnt.java:50)
	at javassist.compiler.Javac.compileStmnt(Javac.java:569)
	at javassist.expr.MethodCall.replace(MethodCall.java:235)
	at net.imagej.patcher.CodeHacker$7.edit(CodeHacker.java:686)
	at javassist.expr.ExprEditor.loopBody(ExprEditor.java:192)
	at javassist.expr.ExprEditor.doit(ExprEditor.java:91)
	at javassist.CtBehavior.instrument(CtBehavior.java:679)
	at net.imagej.patcher.CodeHacker$EagerExprEditor.instrument(CodeHacker.java:1278)
	at net.imagej.patcher.CodeHacker.replaceCallInMethod(CodeHacker.java:670)
	... 11 more
Caused by: java.io.IOException: invalid constant type: 18 at 168
	at javassist.bytecode.ConstPool.readOne(ConstPool.java:1044)
	at javassist.bytecode.ConstPool.read(ConstPool.java:984)
	at javassist.bytecode.ConstPool.<init>(ConstPool.java:125)
	at javassist.bytecode.ClassFile.read(ClassFile.java:770)
	at javassist.bytecode.ClassFile.<init>(ClassFile.java:114)
	at javassist.CtClassType.getClassFile2(CtClassType.java:191)
	... 31 more
java.lang.IllegalArgumentException: Cannot handle app name in ij.ImageJ's public <init>(java.applet.Applet applet, int mode)
	at net.imagej.patcher.CodeHacker.replaceAppNameInCall(CodeHacker.java:446)
	at net.imagej.patcher.LegacyExtensions.insertAppNameHooks(LegacyExtensions.java:406)
	at net.imagej.patcher.LegacyExtensions.injectHooks(LegacyExtensions.java:291)
	at net.imagej.patcher.LegacyInjector.inject(LegacyInjector.java:308)
	at net.imagej.patcher.LegacyInjector.injectHooks(LegacyInjector.java:109)
	at net.imagej.patcher.LegacyEnvironment.initialize(LegacyEnvironment.java:101)
	at net.imagej.patcher.LegacyEnvironment.applyPatches(LegacyEnvironment.java:495)
	at net.imagej.patcher.LegacyInjector.preinit(LegacyInjector.java:397)
	at net.imagej.patcher.LegacyInjector.preinit(LegacyInjector.java:376)
	at fiji.Debug.<clinit>(Debug.java:14)
	at de.mpi_dortmund.ij.boxtools.boxtrainer.BoxTrainer_.main(BoxTrainer_.java:388)
Caused by: java.lang.RuntimeException: java.io.IOException: invalid constant type: 18 at 1
	at javassist.CtClassType.getClassFile2(CtClassType.java:204)
	at javassist.CtClassType.subtypeOf(CtClassType.java:304)
	at javassist.CtClassType.subtypeOf(CtClassType.java:319)
	at javassist.compiler.MemberResolver.compareSignature(MemberResolver.java:235)
	at javassist.compiler.MemberResolver.lookupMethod(MemberResolver.java:107)
	at javassist.compiler.MemberResolver.lookupMethod(MemberResolver.java:84)
	at javassist.compiler.TypeChecker.atMethodCallCore(TypeChecker.java:711)
	at javassist.compiler.TypeChecker.atCallExpr(TypeChecker.java:688)
	at javassist.compiler.JvstTypeChecker.atCallExpr(JvstTypeChecker.java:157)
	at javassist.compiler.ast.CallExpr.accept(CallExpr.java:46)
	at javassist.compiler.CodeGen.doTypeCheck(CodeGen.java:242)
	at javassist.compiler.CodeGen.atStmnt(CodeGen.java:330)
	at javassist.compiler.ast.Stmnt.accept(Stmnt.java:50)
	at javassist.compiler.Javac.compileStmnt(Javac.java:569)
	at javassist.expr.MethodCall.replace(MethodCall.java:235)
	at net.imagej.patcher.CodeHacker$4.edit(CodeHacker.java:427)
	at net.imagej.patcher.CodeHacker$4.edit(CodeHacker.java:441)
	at javassist.expr.ExprEditor.loopBody(ExprEditor.java:220)
	at javassist.expr.ExprEditor.doit(ExprEditor.java:91)
	at javassist.CtBehavior.instrument(CtBehavior.java:679)
	at net.imagej.patcher.CodeHacker$EagerExprEditor.instrument(CodeHacker.java:1278)
	at net.imagej.patcher.CodeHacker.replaceAppNameInCall(CodeHacker.java:402)
	... 10 more
Caused by: java.io.IOException: invalid constant type: 18 at 1
	at javassist.bytecode.ConstPool.readOne(ConstPool.java:1044)
	at javassist.bytecode.ConstPool.read(ConstPool.java:984)
	at javassist.bytecode.ConstPool.<init>(ConstPool.java:125)
	at javassist.bytecode.ClassFile.read(ClassFile.java:770)
	at javassist.bytecode.ClassFile.<init>(ClassFile.java:114)
	at javassist.CtClassType.getClassFile2(CtClassType.java:191)
	... 31 more
java.lang.IllegalArgumentException: Cannot handle app name in ij.gui.YesNoCancelDialog's public <init>(java.awt.Frame parent, java.lang.String title, java.lang.String msg)
	at net.imagej.patcher.CodeHacker.replaceAppNameInCall(CodeHacker.java:446)
	at net.imagej.patcher.LegacyExtensions.insertAppNameHooks(LegacyExtensions.java:419)
	at net.imagej.patcher.LegacyExtensions.injectHooks(LegacyExtensions.java:291)
	at net.imagej.patcher.LegacyInjector.inject(LegacyInjector.java:308)
	at net.imagej.patcher.LegacyInjector.injectHooks(LegacyInjector.java:109)
	at net.imagej.patcher.LegacyEnvironment.initialize(LegacyEnvironment.java:101)
	at net.imagej.patcher.LegacyEnvironment.applyPatches(LegacyEnvironment.java:495)
	at net.imagej.patcher.LegacyInjector.preinit(LegacyInjector.java:397)
	at net.imagej.patcher.LegacyInjector.preinit(LegacyInjector.java:376)
	at fiji.Debug.<clinit>(Debug.java:14)
	at de.mpi_dortmund.ij.boxtools.boxtrainer.BoxTrainer_.main(BoxTrainer_.java:388)
Caused by: javassist.CannotCompileException: No code replaced!
	at net.imagej.patcher.CodeHacker$EagerExprEditor.instrument(CodeHacker.java:1280)
	at net.imagej.patcher.CodeHacker.replaceAppNameInCall(CodeHacker.java:402)
	... 10 more
Exception in thread "main" java.lang.ExceptionInInitializerError
	at de.mpi_dortmund.ij.boxtools.boxtrainer.BoxTrainer_.main(BoxTrainer_.java:388)
Caused by: java.lang.RuntimeException: Found incompatible ij.IJ class
	at net.imagej.patcher.LegacyEnvironment.initialize(LegacyEnvironment.java:113)
	at net.imagej.patcher.LegacyEnvironment.applyPatches(LegacyEnvironment.java:495)
	at net.imagej.patcher.LegacyInjector.preinit(LegacyInjector.java:397)
	at net.imagej.patcher.LegacyInjector.preinit(LegacyInjector.java:376)
	at fiji.Debug.<clinit>(Debug.java:14)
	... 1 more
Caused by: java.lang.RuntimeException: Cannot load class: ij.ImagePlus (loader: sun.misc.Launcher$AppClassLoader@1540e19d)
It appears that this class was already defined in the class loader!
Please make sure that you initialize the LegacyService before using
any ImageJ 1.x class. You can do that by adding this static initializer:

	static {
		LegacyInjector.preinit();
	}

To debug this issue, start the JVM with the option:

	-javaagent:/Users/twagner/.m2/repository/net/imagej/ij1-patcher/0.12.2/ij1-patcher-0.12.2.jar

To enforce pre-initialization, start the JVM with the option:

	-javaagent:/Users/twagner/.m2/repository/net/imagej/ij1-patcher/0.12.2/ij1-patcher-0.12.2.jar=init

	at net.imagej.patcher.CodeHacker.javaAgentHint(CodeHacker.java:828)
	at net.imagej.patcher.CodeHacker.loadClass(CodeHacker.java:807)
	at net.imagej.patcher.CodeHacker.loadClasses(CodeHacker.java:855)
	at net.imagej.patcher.LegacyInjector.injectHooks(LegacyInjector.java:116)
	at net.imagej.patcher.LegacyEnvironment.initialize(LegacyEnvironment.java:101)
	... 5 more
Caused by: java.lang.LinkageError: loader (instance of  sun/misc/Launcher$AppClassLoader): attempted  duplicate class definition for name: "ij/ImagePlus"
	at java.lang.ClassLoader.defineClass1(Native Method)
	at java.lang.ClassLoader.defineClass(ClassLoader.java:763)
	at java.lang.ClassLoader.defineClass(ClassLoader.java:642)
	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 javassist.ClassPool.toClass2(ClassPool.java:1112)
	at javassist.ClassPool.toClass(ClassPool.java:1093)
	at javassist.CtClass.toClass(CtClass.java:1181)
	at net.imagej.patcher.CodeHacker.loadClass(CodeHacker.java:801)
	... 8 more