Update dependencies (#689)

- Update dependencies by deleting lock files and regenerating them with `gw updateDependencyLocks`.
  Deleting lock files avoids strange `some.library:some.older.version=default` entries.
  Most updated dependencies are test dependencies.
- Handle breaking changes in library commonmark.
- Fix test to close PackageServer exactly once.
  This problem surfaced because JUnit 5.11 changed override rules for lifecycle methods,
  resulting in too many instead of too few close() calls.
- Bump msgpack version
- Bump clikt version
- Bump Gradle plugin versions

pkl-doc/gradle.lockfile

@@ -1,8 +1,8 @@
 # This is a Gradle generated file for dependency locking.
 # Manual edits can break the build and are not advised.
 # This file is expected to be part of source control.
-com.github.ajalt.clikt:clikt-jvm:3.5.1=compileClasspath,default,runtimeClasspath,testCompileClasspath,testRuntimeClasspath
-com.github.ajalt.clikt:clikt:3.5.1=compileClasspath,default,implementationDependenciesMetadata,runtimeClasspath,testCompileClasspath,testImplementationDependenciesMetadata,testRuntimeClasspath
+com.github.ajalt.clikt:clikt-jvm:3.5.4=compileClasspath,runtimeClasspath,testCompileClasspath,testRuntimeClasspath
+com.github.ajalt.clikt:clikt:3.5.4=compileClasspath,implementationDependenciesMetadata,runtimeClasspath,testCompileClasspath,testImplementationDependenciesMetadata,testRuntimeClasspath
 com.google.code.findbugs:jsr305:3.0.2=testCompileClasspath,testImplementationDependenciesMetadata,testRuntimeClasspath
 com.google.errorprone:error_prone_annotations:2.18.0=testCompileClasspath,testImplementationDependenciesMetadata,testRuntimeClasspath
 com.google.guava:failureaccess:1.0.1=testCompileClasspath,testImplementationDependenciesMetadata,testRuntimeClasspath
@@ -13,12 +13,12 @@ com.google.jimfs:jimfs:1.3.0=testCompileClasspath,testImplementationDependencies
 com.ibm.icu:icu4j:58.2=validator
 com.ibm.icu:icu4j:72.1=testCompileClasspath,testImplementationDependenciesMetadata,testRuntimeClasspath
 com.shapesecurity:salvation:2.7.2=validator
-com.tunnelvisionlabs:antlr4-runtime:4.9.0=default,runtimeClasspath,testRuntimeClasspath
+com.tunnelvisionlabs:antlr4-runtime:4.9.0=runtimeClasspath,testRuntimeClasspath
 commons-codec:commons-codec:1.10=validator
 commons-io:commons-io:2.4=validator
 commons-logging:commons-logging:1.2=validator
 isorelax:isorelax:20030108=validator
-net.bytebuddy:byte-buddy:1.14.16=testCompileClasspath,testImplementationDependenciesMetadata,testRuntimeClasspath
+net.bytebuddy:byte-buddy:1.14.18=testCompileClasspath,testImplementationDependenciesMetadata,testRuntimeClasspath
 net.java.dev.jna:jna:5.6.0=kotlinCompilerClasspath,kotlinKlibCommonizerClasspath
 net.sf.saxon:Saxon-HE:9.6.0-4=validator
 nu.validator:cssvalidator:1.0.8=validator
@@ -32,18 +32,16 @@ org.apache.httpcomponents:httpcore:4.4=validator
 org.apache.logging.log4j:log4j-1.2-api:2.17.1=validator
 org.apache.logging.log4j:log4j-api:2.17.1=validator
 org.apiguardian:apiguardian-api:1.1.2=testCompileClasspath,testImplementationDependenciesMetadata,testRuntimeOnlyDependenciesMetadata
-org.assertj:assertj-core:3.26.0=testCompileClasspath,testImplementationDependenciesMetadata,testRuntimeClasspath
+org.assertj:assertj-core:3.26.3=testCompileClasspath,testImplementationDependenciesMetadata,testRuntimeClasspath
 org.checkerframework:checker-qual:3.33.0=testCompileClasspath,testImplementationDependenciesMetadata,testRuntimeClasspath
-org.commonmark:commonmark-ext-gfm-tables:0.21.0=default
-org.commonmark:commonmark-ext-gfm-tables:0.22.0=compileClasspath,implementationDependenciesMetadata,runtimeClasspath,testCompileClasspath,testImplementationDependenciesMetadata,testRuntimeClasspath
-org.commonmark:commonmark:0.21.0=default
-org.commonmark:commonmark:0.22.0=compileClasspath,implementationDependenciesMetadata,runtimeClasspath,testCompileClasspath,testImplementationDependenciesMetadata,testRuntimeClasspath
+org.commonmark:commonmark-ext-gfm-tables:0.23.0=compileClasspath,implementationDependenciesMetadata,runtimeClasspath,testCompileClasspath,testImplementationDependenciesMetadata,testRuntimeClasspath
+org.commonmark:commonmark:0.23.0=compileClasspath,implementationDependenciesMetadata,runtimeClasspath,testCompileClasspath,testImplementationDependenciesMetadata,testRuntimeClasspath
 org.eclipse.jetty:jetty-util-ajax:9.4.18.v20190429=validator
 org.eclipse.jetty:jetty-util:9.4.18.v20190429=validator
 org.graalvm.js:js:23.0.2=testCompileClasspath,testImplementationDependenciesMetadata,testRuntimeClasspath
 org.graalvm.regex:regex:23.0.2=testCompileClasspath,testImplementationDependenciesMetadata,testRuntimeClasspath
-org.graalvm.sdk:graal-sdk:23.0.2=default,runtimeClasspath,testCompileClasspath,testImplementationDependenciesMetadata,testRuntimeClasspath
-org.graalvm.truffle:truffle-api:23.0.2=default,runtimeClasspath,testCompileClasspath,testImplementationDependenciesMetadata,testRuntimeClasspath
+org.graalvm.sdk:graal-sdk:23.0.2=runtimeClasspath,testCompileClasspath,testImplementationDependenciesMetadata,testRuntimeClasspath
+org.graalvm.truffle:truffle-api:23.0.2=runtimeClasspath,testCompileClasspath,testImplementationDependenciesMetadata,testRuntimeClasspath
 org.jetbrains.intellij.deps:trove4j:1.0.20200330=kotlinCompilerClasspath,kotlinKlibCommonizerClasspath
 org.jetbrains.kotlin:kotlin-compiler-embeddable:1.7.10=kotlinCompilerClasspath,kotlinKlibCommonizerClasspath
 org.jetbrains.kotlin:kotlin-daemon-embeddable:1.7.10=kotlinCompilerClasspath,kotlinKlibCommonizerClasspath
@@ -58,26 +56,26 @@ org.jetbrains.kotlin:kotlin-scripting-compiler-embeddable:1.7.10=kotlinCompilerP
 org.jetbrains.kotlin:kotlin-scripting-compiler-impl-embeddable:1.7.10=kotlinCompilerPluginClasspathMain,kotlinCompilerPluginClasspathTest
 org.jetbrains.kotlin:kotlin-scripting-jvm:1.7.10=kotlinCompilerPluginClasspathMain,kotlinCompilerPluginClasspathTest
 org.jetbrains.kotlin:kotlin-serialization:1.7.10=kotlinCompilerPluginClasspathMain,kotlinCompilerPluginClasspathTest
-org.jetbrains.kotlin:kotlin-stdlib-common:1.7.10=apiDependenciesMetadata,compileClasspath,default,implementationDependenciesMetadata,kotlinCompilerClasspath,kotlinCompilerPluginClasspathMain,kotlinCompilerPluginClasspathTest,kotlinKlibCommonizerClasspath,runtimeClasspath,testCompileClasspath,testImplementationDependenciesMetadata,testRuntimeClasspath
-org.jetbrains.kotlin:kotlin-stdlib-jdk7:1.7.10=apiDependenciesMetadata,compileClasspath,default,implementationDependenciesMetadata,runtimeClasspath,testCompileClasspath,testImplementationDependenciesMetadata,testRuntimeClasspath
-org.jetbrains.kotlin:kotlin-stdlib-jdk8:1.7.10=apiDependenciesMetadata,compileClasspath,default,implementationDependenciesMetadata,runtimeClasspath,testCompileClasspath,testImplementationDependenciesMetadata,testRuntimeClasspath
-org.jetbrains.kotlin:kotlin-stdlib:1.7.10=apiDependenciesMetadata,compileClasspath,default,implementationDependenciesMetadata,kotlinCompilerClasspath,kotlinCompilerPluginClasspathMain,kotlinCompilerPluginClasspathTest,kotlinKlibCommonizerClasspath,runtimeClasspath,testCompileClasspath,testImplementationDependenciesMetadata,testRuntimeClasspath
+org.jetbrains.kotlin:kotlin-stdlib-common:1.7.10=apiDependenciesMetadata,compileClasspath,implementationDependenciesMetadata,kotlinCompilerClasspath,kotlinCompilerPluginClasspathMain,kotlinCompilerPluginClasspathTest,kotlinKlibCommonizerClasspath,runtimeClasspath,testCompileClasspath,testImplementationDependenciesMetadata,testRuntimeClasspath
+org.jetbrains.kotlin:kotlin-stdlib-jdk7:1.7.10=apiDependenciesMetadata,compileClasspath,implementationDependenciesMetadata,runtimeClasspath,testCompileClasspath,testImplementationDependenciesMetadata,testRuntimeClasspath
+org.jetbrains.kotlin:kotlin-stdlib-jdk8:1.7.10=apiDependenciesMetadata,compileClasspath,implementationDependenciesMetadata,runtimeClasspath,testCompileClasspath,testImplementationDependenciesMetadata,testRuntimeClasspath
+org.jetbrains.kotlin:kotlin-stdlib:1.7.10=apiDependenciesMetadata,compileClasspath,implementationDependenciesMetadata,kotlinCompilerClasspath,kotlinCompilerPluginClasspathMain,kotlinCompilerPluginClasspathTest,kotlinKlibCommonizerClasspath,runtimeClasspath,testCompileClasspath,testImplementationDependenciesMetadata,testRuntimeClasspath
 org.jetbrains.kotlin:kotlin-tooling-core:1.7.10=kotlinCompilerPluginClasspathMain,kotlinCompilerPluginClasspathTest
 org.jetbrains.kotlin:kotlin-util-io:1.7.10=kotlinCompilerPluginClasspathMain,kotlinCompilerPluginClasspathTest
-org.jetbrains.kotlinx:kotlinx-html-jvm:0.8.1=compileClasspath,default,implementationDependenciesMetadata,runtimeClasspath,testCompileClasspath,testImplementationDependenciesMetadata,testRuntimeClasspath
-org.jetbrains.kotlinx:kotlinx-serialization-bom:1.5.1=compileClasspath,default,runtimeClasspath,testCompileClasspath,testRuntimeClasspath
-org.jetbrains.kotlinx:kotlinx-serialization-core-jvm:1.5.1=compileClasspath,default,runtimeClasspath,testCompileClasspath,testRuntimeClasspath
-org.jetbrains.kotlinx:kotlinx-serialization-core:1.5.1=compileClasspath,default,implementationDependenciesMetadata,runtimeClasspath,testCompileClasspath,testImplementationDependenciesMetadata,testRuntimeClasspath
-org.jetbrains.kotlinx:kotlinx-serialization-json-jvm:1.5.1=compileClasspath,default,runtimeClasspath,testCompileClasspath,testRuntimeClasspath
-org.jetbrains.kotlinx:kotlinx-serialization-json:1.5.1=compileClasspath,default,implementationDependenciesMetadata,runtimeClasspath,testCompileClasspath,testImplementationDependenciesMetadata,testRuntimeClasspath
-org.jetbrains:annotations:13.0=apiDependenciesMetadata,compileClasspath,default,implementationDependenciesMetadata,kotlinCompilerClasspath,kotlinCompilerPluginClasspathMain,kotlinCompilerPluginClasspathTest,kotlinKlibCommonizerClasspath,runtimeClasspath,testCompileClasspath,testImplementationDependenciesMetadata,testRuntimeClasspath
-org.junit.jupiter:junit-jupiter-api:5.10.2=testCompileClasspath,testImplementationDependenciesMetadata,testRuntimeClasspath,testRuntimeOnlyDependenciesMetadata
-org.junit.jupiter:junit-jupiter-engine:5.10.2=testCompileClasspath,testImplementationDependenciesMetadata,testRuntimeClasspath,testRuntimeOnlyDependenciesMetadata
-org.junit.jupiter:junit-jupiter-params:5.10.2=testCompileClasspath,testImplementationDependenciesMetadata,testRuntimeClasspath
-org.junit.platform:junit-platform-commons:1.10.2=testCompileClasspath,testImplementationDependenciesMetadata,testRuntimeClasspath,testRuntimeOnlyDependenciesMetadata
-org.junit.platform:junit-platform-engine:1.10.2=testCompileClasspath,testImplementationDependenciesMetadata,testRuntimeClasspath,testRuntimeOnlyDependenciesMetadata
-org.junit:junit-bom:5.10.2=testCompileClasspath,testImplementationDependenciesMetadata,testRuntimeClasspath,testRuntimeOnlyDependenciesMetadata
+org.jetbrains.kotlinx:kotlinx-html-jvm:0.8.1=compileClasspath,implementationDependenciesMetadata,runtimeClasspath,testCompileClasspath,testImplementationDependenciesMetadata,testRuntimeClasspath
+org.jetbrains.kotlinx:kotlinx-serialization-bom:1.5.1=compileClasspath,runtimeClasspath,testCompileClasspath,testRuntimeClasspath
+org.jetbrains.kotlinx:kotlinx-serialization-core-jvm:1.5.1=compileClasspath,runtimeClasspath,testCompileClasspath,testRuntimeClasspath
+org.jetbrains.kotlinx:kotlinx-serialization-core:1.5.1=compileClasspath,implementationDependenciesMetadata,runtimeClasspath,testCompileClasspath,testImplementationDependenciesMetadata,testRuntimeClasspath
+org.jetbrains.kotlinx:kotlinx-serialization-json-jvm:1.5.1=compileClasspath,runtimeClasspath,testCompileClasspath,testRuntimeClasspath
+org.jetbrains.kotlinx:kotlinx-serialization-json:1.5.1=compileClasspath,implementationDependenciesMetadata,runtimeClasspath,testCompileClasspath,testImplementationDependenciesMetadata,testRuntimeClasspath
+org.jetbrains:annotations:13.0=apiDependenciesMetadata,compileClasspath,implementationDependenciesMetadata,kotlinCompilerClasspath,kotlinCompilerPluginClasspathMain,kotlinCompilerPluginClasspathTest,kotlinKlibCommonizerClasspath,runtimeClasspath,testCompileClasspath,testImplementationDependenciesMetadata,testRuntimeClasspath
+org.junit.jupiter:junit-jupiter-api:5.11.2=testCompileClasspath,testImplementationDependenciesMetadata,testRuntimeClasspath,testRuntimeOnlyDependenciesMetadata
+org.junit.jupiter:junit-jupiter-engine:5.11.2=testCompileClasspath,testImplementationDependenciesMetadata,testRuntimeClasspath,testRuntimeOnlyDependenciesMetadata
+org.junit.jupiter:junit-jupiter-params:5.11.2=testCompileClasspath,testImplementationDependenciesMetadata,testRuntimeClasspath
+org.junit.platform:junit-platform-commons:1.11.2=testCompileClasspath,testImplementationDependenciesMetadata,testRuntimeClasspath,testRuntimeOnlyDependenciesMetadata
+org.junit.platform:junit-platform-engine:1.11.2=testCompileClasspath,testImplementationDependenciesMetadata,testRuntimeClasspath,testRuntimeOnlyDependenciesMetadata
+org.junit:junit-bom:5.11.2=testCompileClasspath,testImplementationDependenciesMetadata,testRuntimeClasspath,testRuntimeOnlyDependenciesMetadata
 org.opentest4j:opentest4j:1.3.0=testCompileClasspath,testImplementationDependenciesMetadata,testRuntimeClasspath,testRuntimeOnlyDependenciesMetadata
-org.organicdesign:Paguro:3.10.3=default,runtimeClasspath,testRuntimeClasspath
-org.snakeyaml:snakeyaml-engine:2.5=default,runtimeClasspath,testRuntimeClasspath
-empty=annotationProcessor,archives,compileOnly,compileOnlyDependenciesMetadata,intransitiveDependenciesMetadata,kotlinCompilerPluginClasspath,kotlinNativeCompilerPluginClasspath,kotlinScriptDef,kotlinScriptDefExtensions,runtimeOnlyDependenciesMetadata,signatures,sourcesJar,testAnnotationProcessor,testApiDependenciesMetadata,testCompileOnly,testCompileOnlyDependenciesMetadata,testIntransitiveDependenciesMetadata,testKotlinScriptDef,testKotlinScriptDefExtensions
+org.organicdesign:Paguro:3.10.3=runtimeClasspath,testRuntimeClasspath
+org.snakeyaml:snakeyaml-engine:2.5=runtimeClasspath,testRuntimeClasspath
+empty=annotationProcessor,compileOnlyDependenciesMetadata,intransitiveDependenciesMetadata,kotlinCompilerPluginClasspath,kotlinNativeCompilerPluginClasspath,kotlinScriptDef,kotlinScriptDefExtensions,runtimeOnlyDependenciesMetadata,signatures,sourcesJar,testAnnotationProcessor,testApiDependenciesMetadata,testCompileOnlyDependenciesMetadata,testIntransitiveDependenciesMetadata,testKotlinScriptDef,testKotlinScriptDefExtensions

pkl-doc/src/main/kotlin/org/pkl/doc/Markdown.kt

@@ -23,6 +23,8 @@ import org.commonmark.node.Text
 import org.commonmark.parser.InlineParser
 import org.commonmark.parser.InlineParserContext
 import org.commonmark.parser.InlineParserFactory
+import org.commonmark.parser.beta.InlineContentParserFactory
+import org.commonmark.parser.beta.LinkProcessor
 import org.commonmark.parser.delimiter.DelimiterProcessor
 import org.commonmark.renderer.html.CoreHtmlNodeRenderer
 import org.commonmark.renderer.html.HtmlNodeRendererContext
@@ -51,6 +53,14 @@ internal class MarkdownParserContext(
     return delegate.customDelimiterProcessors
   }
 
+  override fun <D : Any> getDefinition(type: Class<D>, label: String): D? {
+    @Suppress("UNCHECKED_CAST", "DEPRECATION")
+    return when (type) {
+      LinkReferenceDefinition::class.java -> getLinkReferenceDefinition(label) as D
+      else -> null
+    }
+  }
+
   /**
    * This method communicates with [MarkdownNodeRenderer] through the method's return value:
    * * `title = "pkldoc:1:$label"` -> replace link with `Code(label)`
@@ -60,6 +70,7 @@ internal class MarkdownParserContext(
    * tell whether it's resolving a short or full reference link, PklNodeRenderer can, by comparing
    * the link text to the passed through label.
    */
+  @Suppress("OVERRIDE_DEPRECATION")
   override fun getLinkReferenceDefinition(label: String): LinkReferenceDefinition {
     if (label in keywords) {
       return LinkReferenceDefinition(label, label, "pkldoc:1:$label")
@@ -85,6 +96,13 @@ internal class MarkdownParserContext(
 
     return LinkReferenceDefinition(label, destination, "pkldoc:$command:$label")
   }
+
+  override fun getCustomInlineContentParserFactories(): MutableList<InlineContentParserFactory> =
+    mutableListOf()
+
+  override fun getCustomLinkProcessors(): MutableList<LinkProcessor> = mutableListOf()
+
+  override fun getCustomLinkMarkers(): MutableSet<Char> = mutableSetOf()
 }
 
 internal class MarkdownNodeRenderer(context: HtmlNodeRendererContext) :