Gradle + Spring project will jlink, but not run using gradle inside IDE

Question

I am trying to both run and jlink a project that uses Gradle, Spring, and JavaFX. In my first attempt, I had been able to configure some simple files for my project that allow me to run it, but not jlink it. For my more recent attempt, I used this project as a template to tinker with. The result allows me to jlink but not run. I suspect what I have to do to get it to work is to transfer settings from the jlink task to the run task. I am guessing that the way to do this is to use the application plugin, though I don't know what settings need to be set, or what the syntax is for writing them.

build.gradle

plugins {
    id 'application'
    id 'org.springframework.boot' version '2.2.4.RELEASE'
    id 'io.spring.dependency-management' version '1.0.10.RELEASE'
    id 'org.openjfx.javafxplugin' version '0.0.8'
    id 'org.beryx.jlink' version '2.22.0'
}
group 'group'
sourceCompatibility = '14'
targetCompatibility = '14'
mainClassName = 'mod/app.Main'
jar {
    enabled = true;
    manifest.attributes('Main-Class': 'mod/app.Main')
}

repositories {
    jcenter()
    mavenCentral()
    mavenLocal()
}
javafx {
    version = '14.0.1'
    modules = [ 'javafx.controls']
}
jlink {
    addOptions('--strip-debug', '--compress', '2', '--no-header-files', '--no-man-pages')
    launcher {
        name = 'start-app'
        customImage {
            appModules = ['group.merged.module']
        }
        jvmArgs = [
                '--add-reads', 'group.merged.module=mod',
                '-cp', '../app/*'
        ]
    }
    mergedModule {
        additive = true
        uses 'ch.qos.logback.classic.spi.Configurator'
    }
    jpackage {
        imageName = 'start-app'
        skipInstaller = true
        installerName = 'start-app'
        installerType = 'pkg'
    }
    forceMerge('log4j-api')
}

dependencies {
    implementation 'mysql:mysql-connector-java:8.0.16'
    implementation 'com.h2database:h2:1.4.200'
    implementation 'org.jasypt:jasypt:1.9.3'
    implementation 'com.github.javafaker:javafaker:1.0.2'
    implementation ('org.controlsfx:controlsfx:11.0.2'){exclude group: 'org.openjfx'}
    implementation 'javax.servlet:javax.servlet-api:4.0.1'
    implementation 'org.springframework.boot:spring-boot-starter'
}

module-info.java

module mod {
    requires javafx.controls;
    requires org.controlsfx.controls;
    requires spring.boot.autoconfigure;
    requires spring.context;
    requires spring.boot;
    requires spring.beans;
    requires jasypt;
    requires javafaker;
    requires java.sql;
    requires java.naming;

    opens app to spring.core;

    exports app;
}

Both build.gradle and module-info.java have been modified from their original form in the template project and inserted into my project. Both spring.factories, and application.properties remain unmodified from their original form and are inserted into my project. No other files have been moved.

> Task :run FAILED
Error occurred during initialization of boot layer
java.lang.module.ResolutionException: Modules org.yaml.snakeyaml and snakeyaml export package org.yaml.snakeyaml.error to module org.apache.logging.slf4j
4 actionable tasks: 3 executed, 1 up-to-date

* Exception is:
org.gradle.api.tasks.TaskExecutionException: Execution failed for task ':run'.
    at org.gradle.api.internal.tasks.execution.ExecuteActionsTaskExecuter.lambda$executeIfValid$1(ExecuteActionsTaskExecuter.java:205)
    at org.gradle.internal.Try$Failure.ifSuccessfulOrElse(Try.java:263)
    at org.gradle.api.internal.tasks.execution.ExecuteActionsTaskExecuter.executeIfValid(ExecuteActionsTaskExecuter.java:203)
    at org.gradle.api.internal.tasks.execution.ExecuteActionsTaskExecuter.execute(ExecuteActionsTaskExecuter.java:184)
    at org.gradle.api.internal.tasks.execution.CleanupStaleOutputsExecuter.execute(CleanupStaleOutputsExecuter.java:114)
    at org.gradle.api.internal.tasks.execution.FinalizePropertiesTaskExecuter.execute(FinalizePropertiesTaskExecuter.java:46)
    at org.gradle.api.internal.tasks.execution.ResolveTaskExecutionModeExecuter.execute(ResolveTaskExecutionModeExecuter.java:62)
    at org.gradle.api.internal.tasks.execution.SkipTaskWithNoActionsExecuter.execute(SkipTaskWithNoActionsExecuter.java:57)
    at org.gradle.api.internal.tasks.execution.SkipOnlyIfTaskExecuter.execute(SkipOnlyIfTaskExecuter.java:56)
    at org.gradle.api.internal.tasks.execution.CatchExceptionTaskExecuter.execute(CatchExceptionTaskExecuter.java:36)
    at org.gradle.api.internal.tasks.execution.EventFiringTaskExecuter$1.executeTask(EventFiringTaskExecuter.java:77)
    at org.gradle.api.internal.tasks.execution.EventFiringTaskExecuter$1.call(EventFiringTaskExecuter.java:55)
    at org.gradle.api.internal.tasks.execution.EventFiringTaskExecuter$1.call(EventFiringTaskExecuter.java:52)
    at org.gradle.internal.operations.DefaultBuildOperationExecutor$CallableBuildOperationWorker.execute(DefaultBuildOperationExecutor.java:416)
    at org.gradle.internal.operations.DefaultBuildOperationExecutor$CallableBuildOperationWorker.execute(DefaultBuildOperationExecutor.java:406)
    at org.gradle.internal.operations.DefaultBuildOperationExecutor$1.execute(DefaultBuildOperationExecutor.java:165)
    at org.gradle.internal.operations.DefaultBuildOperationExecutor.execute(DefaultBuildOperationExecutor.java:250)
    at org.gradle.internal.operations.DefaultBuildOperationExecutor.execute(DefaultBuildOperationExecutor.java:158)
    at org.gradle.internal.operations.DefaultBuildOperationExecutor.call(DefaultBuildOperationExecutor.java:102)
    at org.gradle.internal.operations.DelegatingBuildOperationExecutor.call(DelegatingBuildOperationExecutor.java:36)
    at org.gradle.api.internal.tasks.execution.EventFiringTaskExecuter.execute(EventFiringTaskExecuter.java:52)
    at org.gradle.execution.plan.LocalTaskNodeExecutor.execute(LocalTaskNodeExecutor.java:41)
    at org.gradle.execution.taskgraph.DefaultTaskExecutionGraph$InvokeNodeExecutorsAction.execute(DefaultTaskExecutionGraph.java:372)
    at org.gradle.execution.taskgraph.DefaultTaskExecutionGraph$InvokeNodeExecutorsAction.execute(DefaultTaskExecutionGraph.java:359)
    at org.gradle.execution.taskgraph.DefaultTaskExecutionGraph$BuildOperationAwareExecutionAction.execute(DefaultTaskExecutionGraph.java:352)
    at org.gradle.execution.taskgraph.DefaultTaskExecutionGraph$BuildOperationAwareExecutionAction.execute(DefaultTaskExecutionGraph.java:338)
    at org.gradle.execution.plan.DefaultPlanExecutor$ExecutorWorker.lambda$run$0(DefaultPlanExecutor.java:127)
    at org.gradle.execution.plan.DefaultPlanExecutor$ExecutorWorker.execute(DefaultPlanExecutor.java:191)
    at org.gradle.execution.plan.DefaultPlanExecutor$ExecutorWorker.executeNextNode(DefaultPlanExecutor.java:182)
    at org.gradle.execution.plan.DefaultPlanExecutor$ExecutorWorker.run(DefaultPlanExecutor.java:124)
    at org.gradle.internal.concurrent.ExecutorPolicy$CatchAndRecordFailures.onExecute(ExecutorPolicy.java:64)
    at org.gradle.internal.concurrent.ManagedExecutorImpl$1.run(ManagedExecutorImpl.java:48)
    at org.gradle.internal.concurrent.ThreadFactoryImpl$ManagedThreadRunnable.run(ThreadFactoryImpl.java:56)
Caused by: org.gradle.process.internal.ExecException: Process 'command 'C:\Program Files\Java\jdk 14.0.2.12 Adopt\bin\java.exe'' finished with non-zero exit value 1
    at org.gradle.process.internal.DefaultExecHandle$ExecResultImpl.assertNormalExitValue(DefaultExecHandle.java:417)
    at org.gradle.process.internal.DefaultJavaExecAction.execute(DefaultJavaExecAction.java:40)
    at org.gradle.api.tasks.JavaExec.exec(JavaExec.java:132)
    at java.base/jdk.internal.reflect.NativeMethodAccessorImpl.invoke0(Native Method)
    at java.base/jdk.internal.reflect.NativeMethodAccessorImpl.invoke(NativeMethodAccessorImpl.java:62)
    at java.base/jdk.internal.reflect.DelegatingMethodAccessorImpl.invoke(DelegatingMethodAccessorImpl.java:43)
    at org.gradle.internal.reflect.JavaMethod.invoke(JavaMethod.java:104)
    at org.gradle.api.internal.project.taskfactory.StandardTaskAction.doExecute(StandardTaskAction.java:49)
    at org.gradle.api.internal.project.taskfactory.StandardTaskAction.execute(StandardTaskAction.java:42)
    at org.gradle.api.internal.project.taskfactory.StandardTaskAction.execute(StandardTaskAction.java:28)
    at org.gradle.api.internal.AbstractTask$TaskActionWrapper.execute(AbstractTask.java:727)
    at org.gradle.api.internal.AbstractTask$TaskActionWrapper.execute(AbstractTask.java:694)
    at org.gradle.api.internal.tasks.execution.ExecuteActionsTaskExecuter$3.run(ExecuteActionsTaskExecuter.java:568)
    at org.gradle.internal.operations.DefaultBuildOperationExecutor$RunnableBuildOperationWorker.execute(DefaultBuildOperationExecutor.java:402)
    at org.gradle.internal.operations.DefaultBuildOperationExecutor$RunnableBuildOperationWorker.execute(DefaultBuildOperationExecutor.java:394)
    at org.gradle.internal.operations.DefaultBuildOperationExecutor$1.execute(DefaultBuildOperationExecutor.java:165)
    at org.gradle.internal.operations.DefaultBuildOperationExecutor.execute(DefaultBuildOperationExecutor.java:250)
    at org.gradle.internal.operations.DefaultBuildOperationExecutor.execute(DefaultBuildOperationExecutor.java:158)
    at org.gradle.internal.operations.DefaultBuildOperationExecutor.run(DefaultBuildOperationExecutor.java:92)
    at org.gradle.internal.operations.DelegatingBuildOperationExecutor.run(DelegatingBuildOperationExecutor.java:31)
    at org.gradle.api.internal.tasks.execution.ExecuteActionsTaskExecuter.executeAction(ExecuteActionsTaskExecuter.java:553)
    at org.gradle.api.internal.tasks.execution.ExecuteActionsTaskExecuter.executeActions(ExecuteActionsTaskExecuter.java:536)
    at org.gradle.api.internal.tasks.execution.ExecuteActionsTaskExecuter.access$300(ExecuteActionsTaskExecuter.java:109)
    at org.gradle.api.internal.tasks.execution.ExecuteActionsTaskExecuter$TaskExecution.executeWithPreviousOutputFiles(ExecuteActionsTaskExecuter.java:276)
    at org.gradle.api.internal.tasks.execution.ExecuteActionsTaskExecuter$TaskExecution.execute(ExecuteActionsTaskExecuter.java:265)
    at org.gradle.internal.execution.steps.ExecuteStep.lambda$execute$1(ExecuteStep.java:33)
    at org.gradle.internal.execution.steps.ExecuteStep.execute(ExecuteStep.java:33)
    at org.gradle.internal.execution.steps.ExecuteStep.execute(ExecuteStep.java:26)
    at org.gradle.internal.execution.steps.CleanupOutputsStep.execute(CleanupOutputsStep.java:67)
    at org.gradle.internal.execution.steps.CleanupOutputsStep.execute(CleanupOutputsStep.java:36)
    at org.gradle.internal.execution.steps.ResolveInputChangesStep.execute(ResolveInputChangesStep.java:49)
    at org.gradle.internal.execution.steps.ResolveInputChangesStep.execute(ResolveInputChangesStep.java:34)
    at org.gradle.internal.execution.steps.CancelExecutionStep.execute(CancelExecutionStep.java:43)
    at org.gradle.internal.execution.steps.TimeoutStep.executeWithoutTimeout(TimeoutStep.java:73)
    at org.gradle.internal.execution.steps.TimeoutStep.execute(TimeoutStep.java:54)
    at org.gradle.internal.execution.steps.CatchExceptionStep.execute(CatchExceptionStep.java:34)
    at org.gradle.internal.execution.steps.CreateOutputsStep.execute(CreateOutputsStep.java:44)
    at org.gradle.internal.execution.steps.SnapshotOutputsStep.execute(SnapshotOutputsStep.java:54)
    at org.gradle.internal.execution.steps.SnapshotOutputsStep.execute(SnapshotOutputsStep.java:38)
    at org.gradle.internal.execution.steps.BroadcastChangingOutputsStep.execute(BroadcastChangingOutputsStep.java:49)
    at org.gradle.internal.execution.steps.CacheStep.executeWithoutCache(CacheStep.java:159)
    at org.gradle.internal.execution.steps.CacheStep.execute(CacheStep.java:72)
    at org.gradle.internal.execution.steps.CacheStep.execute(CacheStep.java:43)
    at org.gradle.internal.execution.steps.StoreExecutionStateStep.execute(StoreExecutionStateStep.java:44)
    at org.gradle.internal.execution.steps.StoreExecutionStateStep.execute(StoreExecutionStateStep.java:33)
    at org.gradle.internal.execution.steps.RecordOutputsStep.execute(RecordOutputsStep.java:38)
    at org.gradle.internal.execution.steps.RecordOutputsStep.execute(RecordOutputsStep.java:24)
    at org.gradle.internal.execution.steps.SkipUpToDateStep.executeBecause(SkipUpToDateStep.java:92)
    at org.gradle.internal.execution.steps.SkipUpToDateStep.lambda$execute$0(SkipUpToDateStep.java:85)
    at org.gradle.internal.execution.steps.SkipUpToDateStep.execute(SkipUpToDateStep.java:55)
    at org.gradle.internal.execution.steps.SkipUpToDateStep.execute(SkipUpToDateStep.java:39)
    at org.gradle.internal.execution.steps.ResolveChangesStep.execute(ResolveChangesStep.java:76)
    at org.gradle.internal.execution.steps.ResolveChangesStep.execute(ResolveChangesStep.java:37)
    at org.gradle.internal.execution.steps.legacy.MarkSnapshottingInputsFinishedStep.execute(MarkSnapshottingInputsFinishedStep.java:36)
    at org.gradle.internal.execution.steps.legacy.MarkSnapshottingInputsFinishedStep.execute(MarkSnapshottingInputsFinishedStep.java:26)
    at org.gradle.internal.execution.steps.ResolveCachingStateStep.execute(ResolveCachingStateStep.java:94)
    at org.gradle.internal.execution.steps.ResolveCachingStateStep.execute(ResolveCachingStateStep.java:49)
    at org.gradle.internal.execution.steps.CaptureStateBeforeExecutionStep.execute(CaptureStateBeforeExecutionStep.java:79)
    at org.gradle.internal.execution.steps.CaptureStateBeforeExecutionStep.execute(CaptureStateBeforeExecutionStep.java:53)
    at org.gradle.internal.execution.steps.ValidateStep.execute(ValidateStep.java:74)
    at org.gradle.internal.execution.steps.SkipEmptyWorkStep.lambda$execute$2(SkipEmptyWorkStep.java:78)
    at org.gradle.internal.execution.steps.SkipEmptyWorkStep.execute(SkipEmptyWorkStep.java:78)
    at org.gradle.internal.execution.steps.SkipEmptyWorkStep.execute(SkipEmptyWorkStep.java:34)
    at org.gradle.internal.execution.steps.legacy.MarkSnapshottingInputsStartedStep.execute(MarkSnapshottingInputsStartedStep.java:39)
    at org.gradle.internal.execution.steps.LoadExecutionStateStep.execute(LoadExecutionStateStep.java:40)
    at org.gradle.internal.execution.steps.LoadExecutionStateStep.execute(LoadExecutionStateStep.java:28)
    at org.gradle.internal.execution.impl.DefaultWorkExecutor.execute(DefaultWorkExecutor.java:33)
    at org.gradle.api.internal.tasks.execution.ExecuteActionsTaskExecuter.executeIfValid(ExecuteActionsTaskExecuter.java:192)
    ... 30 more

Answer 1

I found that Javafaker has a split package issue regarding yaml. Removing Javafaker from my program solved this issue, although it would have been better to solve this with some code in Gradle.