realm-java: ConcurrentModificationException from Gradle 3.1 with Databinding and Realm 2.0

Goal

Upgrade from Realm-Java 1.2.0 to 2.0.0

Expected Results

Simple build success/sync in Android Studio.

Actual Results

$ ./gradlew clean build --stacktrace
The TaskInputs.source(Object) method has been deprecated and is scheduled to be removed in Gradle 4.0. Please use TaskInputs.file(Object).skipWhenEmpty() instead.

FAILURE: Build failed with an exception.

* What went wrong:
A problem occurred configuring project ':app'.
> java.util.ConcurrentModificationException (no error message)

* Try:
Run with --info or --debug option to get more log output.

* Exception is:
org.gradle.api.ProjectConfigurationException: A problem occurred configuring project ':app'.
        at org.gradle.configuration.project.LifecycleProjectEvaluator.addConfigurationFailure(LifecycleProjectEvaluator.java:79)
        at org.gradle.configuration.project.LifecycleProjectEvaluator.notifyAfterEvaluate(LifecycleProjectEvaluator.java:74)
        at org.gradle.configuration.project.LifecycleProjectEvaluator.evaluate(LifecycleProjectEvaluator.java:61)
        at org.gradle.api.internal.project.DefaultProject.evaluate(DefaultProject.java:573)
        at org.gradle.api.internal.project.DefaultProject.evaluate(DefaultProject.java:125)
        at org.gradle.execution.TaskPathProjectEvaluator.configureHierarchy(TaskPathProjectEvaluator.java:47)
        at org.gradle.configuration.DefaultBuildConfigurer.configure(DefaultBuildConfigurer.java:38)
        at org.gradle.initialization.DefaultGradleLauncher$2.run(DefaultGradleLauncher.java:151)
        at org.gradle.internal.Factories$1.create(Factories.java:22)
        at org.gradle.internal.progress.DefaultBuildOperationExecutor.run(DefaultBuildOperationExecutor.java:91)
        at org.gradle.internal.progress.DefaultBuildOperationExecutor.run(DefaultBuildOperationExecutor.java:53)
        at org.gradle.initialization.DefaultGradleLauncher.doBuildStages(DefaultGradleLauncher.java:148)
        at org.gradle.initialization.DefaultGradleLauncher.access$200(DefaultGradleLauncher.java:33)
        at org.gradle.initialization.DefaultGradleLauncher$1.create(DefaultGradleLauncher.java:112)
        at org.gradle.initialization.DefaultGradleLauncher$1.create(DefaultGradleLauncher.java:106)
        at org.gradle.internal.progress.DefaultBuildOperationExecutor.run(DefaultBuildOperationExecutor.java:91)
        at org.gradle.internal.progress.DefaultBuildOperationExecutor.run(DefaultBuildOperationExecutor.java:63)
        at org.gradle.initialization.DefaultGradleLauncher.doBuild(DefaultGradleLauncher.java:106)
        at org.gradle.initialization.DefaultGradleLauncher.run(DefaultGradleLauncher.java:92)
        at org.gradle.launcher.exec.GradleBuildController.run(GradleBuildController.java:66)
        at org.gradle.tooling.internal.provider.ExecuteBuildActionRunner.run(ExecuteBuildActionRunner.java:28)
        at org.gradle.launcher.exec.ChainingBuildActionRunner.run(ChainingBuildActionRunner.java:35)
        at org.gradle.launcher.exec.InProcessBuildActionExecuter.execute(InProcessBuildActionExecuter.java:41)
        at org.gradle.launcher.exec.InProcessBuildActionExecuter.execute(InProcessBuildActionExecuter.java:26)
        at org.gradle.tooling.internal.provider.ContinuousBuildActionExecuter.execute(ContinuousBuildActionExecuter.java:79)
        at org.gradle.tooling.internal.provider.ContinuousBuildActionExecuter.execute(ContinuousBuildActionExecuter.java:51)
        at org.gradle.launcher.daemon.server.exec.ExecuteBuild.doBuild(ExecuteBuild.java:59)
        at org.gradle.launcher.daemon.server.exec.BuildCommandOnly.execute(BuildCommandOnly.java:36)
        at org.gradle.launcher.daemon.server.api.DaemonCommandExecution.proceed(DaemonCommandExecution.java:120)
        at org.gradle.launcher.daemon.server.exec.WatchForDisconnection.execute(WatchForDisconnection.java:47)
        at org.gradle.launcher.daemon.server.api.DaemonCommandExecution.proceed(DaemonCommandExecution.java:120)
        at org.gradle.launcher.daemon.server.exec.ResetDeprecationLogger.execute(ResetDeprecationLogger.java:26)
        at org.gradle.launcher.daemon.server.api.DaemonCommandExecution.proceed(DaemonCommandExecution.java:120)
        at org.gradle.launcher.daemon.server.exec.RequestStopIfSingleUsedDaemon.execute(RequestStopIfSingleUsedDaemon.java:34)
        at org.gradle.launcher.daemon.server.api.DaemonCommandExecution.proceed(DaemonCommandExecution.java:120)
        at org.gradle.launcher.daemon.server.exec.ForwardClientInput$2.call(ForwardClientInput.java:74)
        at org.gradle.launcher.daemon.server.exec.ForwardClientInput$2.call(ForwardClientInput.java:72)
        at org.gradle.util.Swapper.swap(Swapper.java:38)
        at org.gradle.launcher.daemon.server.exec.ForwardClientInput.execute(ForwardClientInput.java:72)
        at org.gradle.launcher.daemon.server.api.DaemonCommandExecution.proceed(DaemonCommandExecution.java:120)
        at org.gradle.launcher.daemon.server.exec.LogAndCheckHealth.execute(LogAndCheckHealth.java:55)
        at org.gradle.launcher.daemon.server.api.DaemonCommandExecution.proceed(DaemonCommandExecution.java:120)
        at org.gradle.launcher.daemon.server.exec.LogToClient.doBuild(LogToClient.java:60)
        at org.gradle.launcher.daemon.server.exec.BuildCommandOnly.execute(BuildCommandOnly.java:36)
        at org.gradle.launcher.daemon.server.api.DaemonCommandExecution.proceed(DaemonCommandExecution.java:120)
        at org.gradle.launcher.daemon.server.exec.EstablishBuildEnvironment.doBuild(EstablishBuildEnvironment.java:72)
        at org.gradle.launcher.daemon.server.exec.BuildCommandOnly.execute(BuildCommandOnly.java:36)
        at org.gradle.launcher.daemon.server.api.DaemonCommandExecution.proceed(DaemonCommandExecution.java:120)
        at org.gradle.launcher.daemon.server.exec.HintGCAfterBuild.execute(HintGCAfterBuild.java:44)
        at org.gradle.launcher.daemon.server.api.DaemonCommandExecution.proceed(DaemonCommandExecution.java:120)
        at org.gradle.launcher.daemon.server.exec.StartBuildOrRespondWithBusy$1.run(StartBuildOrRespondWithBusy.java:50)
        at org.gradle.launcher.daemon.server.DaemonStateCoordinator$1.run(DaemonStateCoordinator.java:293)
        at org.gradle.internal.concurrent.ExecutorPolicy$CatchAndRecordFailures.onExecute(ExecutorPolicy.java:54)
        at org.gradle.internal.concurrent.StoppableExecutorImpl$1.run(StoppableExecutorImpl.java:40)
Caused by: java.util.ConcurrentModificationException
        at org.gradle.api.internal.DefaultDomainObjectCollection$IteratorImpl.next(DefaultDomainObjectCollection.java:291)
        at org.gradle.api.internal.CompositeDomainObjectSet$SetIterator.fetchNext(CompositeDomainObjectSet.java:156)
        at org.gradle.api.internal.CompositeDomainObjectSet$SetIterator.next(CompositeDomainObjectSet.java:175)
        at org.apache.commons.collections.iterators.IteratorChain.next(IteratorChain.java:265)
        at org.gradle.api.internal.CompositeDomainObjectSet$SetIterator.fetchNext(CompositeDomainObjectSet.java:156)
        at org.gradle.api.internal.CompositeDomainObjectSet$SetIterator.next(CompositeDomainObjectSet.java:175)
        at com.android.build.gradle.internal.DependencyManager.ensureConfigured(DependencyManager.java:485)
        at com.android.build.gradle.internal.DependencyManager.resolveDependencyForConfig(DependencyManager.java:267)
        at com.android.build.gradle.internal.DependencyManager.resolveDependencies(DependencyManager.java:159)
        at com.android.build.gradle.internal.TaskManager.resolveDependencies(TaskManager.java:364)
        at com.android.build.gradle.internal.VariantManager$9.call(VariantManager.java:636)
        at com.android.build.gradle.internal.VariantManager$9.call(VariantManager.java:633)
        at com.android.builder.profile.ThreadRecorder.record(ThreadRecorder.java:156)
        at com.android.builder.profile.ThreadRecorder.record(ThreadRecorder.java:120)
        at com.android.build.gradle.internal.profile.SpanRecorders.record(SpanRecorders.java:44)
        at com.android.build.gradle.internal.VariantManager.createVariantData(VariantManager.java:629)
        at com.android.build.gradle.internal.VariantManager.createVariantDataForProductFlavors(VariantManager.java:823)
        at com.android.build.gradle.internal.VariantManager.populateVariantDataList(VariantManager.java:512)
        at com.android.build.gradle.internal.VariantManager$1.call(VariantManager.java:269)
        at com.android.build.gradle.internal.VariantManager$1.call(VariantManager.java:266)
        at com.android.builder.profile.ThreadRecorder.record(ThreadRecorder.java:156)
        at com.android.builder.profile.ThreadRecorder.record(ThreadRecorder.java:120)
        at com.android.build.gradle.internal.VariantManager.createAndroidTasks(VariantManager.java:265)
        at com.android.build.gradle.BasePlugin$11.call(BasePlugin.java:688)
        at com.android.build.gradle.BasePlugin$11.call(BasePlugin.java:685)
        at com.android.builder.profile.ThreadRecorder.record(ThreadRecorder.java:156)
        at com.android.builder.profile.ThreadRecorder.record(ThreadRecorder.java:120)
        at com.android.build.gradle.BasePlugin.createAndroidTasks(BasePlugin.java:683)
        at com.android.build.gradle.BasePlugin$10.call(BasePlugin.java:608)
        at com.android.build.gradle.BasePlugin$10.call(BasePlugin.java:605)
        at com.android.builder.profile.ThreadRecorder.record(ThreadRecorder.java:156)
        at com.android.builder.profile.ThreadRecorder.record(ThreadRecorder.java:120)
        at com.android.build.gradle.BasePlugin.lambda$createTasks$1(BasePlugin.java:603)
        at org.gradle.internal.event.BroadcastDispatch$ActionInvocationHandler.dispatch(BroadcastDispatch.java:93)
        at org.gradle.internal.event.BroadcastDispatch$ActionInvocationHandler.dispatch(BroadcastDispatch.java:82)
        at org.gradle.internal.event.AbstractBroadcastDispatch.dispatch(AbstractBroadcastDispatch.java:44)
        at org.gradle.internal.event.BroadcastDispatch.dispatch(BroadcastDispatch.java:79)
        at org.gradle.internal.event.BroadcastDispatch.dispatch(BroadcastDispatch.java:30)
        at org.gradle.internal.dispatch.ProxyDispatchAdapter$DispatchingInvocationHandler.invoke(ProxyDispatchAdapter.java:93)
        at com.sun.proxy.$Proxy15.afterEvaluate(Unknown Source)
        at org.gradle.configuration.project.LifecycleProjectEvaluator.notifyAfterEvaluate(LifecycleProjectEvaluator.java:67)
        ... 52 more

Steps & Code to Reproduce

It’s a complicated build, but here are my app plugins:

apply plugin: 'com.android.application'
apply plugin: 'com.neenbedankt.android-apt'
apply plugin: 'me.tatarka.retrolambda'
apply plugin: 'io.fabric'
apply plugin: 'realm-android'
apply plugin: 'kotlin-android'
apply plugin: 'kotlin-android-extensions'

I wonder if maybe the ordering is important starting in 2.0?

Code Sample

Version of Realm and tooling

Realm version(s): 2.0.0

Android Studio version: 2.2.0

Gradle version: 3.1

Android Gradle Plugin version: 2.2.0

Which Android version and device: N/A