Your message dated Wed, 28 Dec 2022 10:04:22 +0000 with message-id <e1patim-00flhj...@fasolo.debian.org> and subject line Bug#1026757: fixed in gatk-native-bindings 1.0.0+dfsg-2 has caused the Debian Bug report #1026757, regarding gatk-native-bindings: FTBFS: make[1]: *** [debian/rules:13: override_dh_auto_build] Error 25 to be marked as done.
This means that you claim that the problem has been dealt with. If this is not the case it is now your responsibility to reopen the Bug report if necessary, and/or fix the problem forthwith. (NB: If you are a system administrator and have no idea what this message is talking about, this may indicate a serious mail system misconfiguration somewhere. Please contact ow...@bugs.debian.org immediately.) -- 1026757: https://bugs.debian.org/cgi-bin/bugreport.cgi?bug=1026757 Debian Bug Tracking System Contact ow...@bugs.debian.org with problems
--- Begin Message ---Source: gatk-native-bindings Version: 1.0.0-2.1 Severity: serious Justification: FTBFS Tags: bookworm sid ftbfs User: lu...@debian.org Usertags: ftbfs-20221220 ftbfs-bookworm Hi, During a rebuild of all packages in sid, your package failed to build on amd64. Relevant part (hopefully): > make[1]: Entering directory '/<<PKGBUILDDIR>>' > dh_auto_build -- jar > mkdir -p .gradle/init.d > cp /usr/share/gradle-debian-helper/init.gradle .gradle/init.d/ > gradle --info --console plain --offline --stacktrace --no-daemon > --refresh-dependencies --gradle-user-home .gradle -Duser.home=. > -Duser.name=debian -Ddebian.package=gatk-native-bindings > -Dfile.encoding=UTF-8 --parallel --max-workers=8 jar > OpenJDK 64-Bit Server VM warning: Ignoring option --illegal-access=permit; > support was removed in 17.0 > Initialized native services in: /<<PKGBUILDDIR>>/.gradle/native > To honour the JVM settings for this build a new JVM will be forked. Please > consider using the daemon: > https://docs.gradle.org/4.4.1/userguide/gradle_daemon.html. > Starting process 'Gradle build daemon'. Working directory: > /<<PKGBUILDDIR>>/.gradle/daemon/4.4.1 Command: > /usr/lib/jvm/java-17-openjdk-amd64/bin/java > -Xbootclasspath/a:/usr/share/java/gradle-helper-hook.jar:/usr/share/java/maven-repo-helper.jar > -Dfile.encoding=UTF-8 -Duser.country -Duser.language=en -Duser.variant -cp > /usr/share/gradle/lib/gradle-launcher-4.4.1.jar > org.gradle.launcher.daemon.bootstrap.GradleDaemon 4.4.1 > Successfully started process 'Gradle build daemon' > An attempt to start the daemon took 1.208 secs. > The client will now receive all logging from the daemon (pid: 1153077). The > daemon log file: /<<PKGBUILDDIR>>/.gradle/daemon/4.4.1/daemon-1153077.out.log > Daemon will be stopped at the end of the build stopping after processing > Closing daemon's stdin at end of input. > The daemon will no longer process any standard input. > Using 8 worker leases. > Creating new cache for fileHashes, path > /<<PKGBUILDDIR>>/.gradle/caches/4.4.1/fileHashes/fileHashes.bin, access > org.gradle.cache.internal.DefaultCacheAccess@1ec3cd8a > Creating new cache for resourceHashesCache, path > /<<PKGBUILDDIR>>/.gradle/caches/4.4.1/fileHashes/resourceHashesCache.bin, > access org.gradle.cache.internal.DefaultCacheAccess@1ec3cd8a > Creating new cache for fileHashes, path > /<<PKGBUILDDIR>>/.gradle/4.4.1/fileHashes/fileHashes.bin, access > org.gradle.cache.internal.DefaultCacheAccess@27eb4497 > > FAILURE: Build failed with an exception. > > * What went wrong: > Could not create service of type ScriptPluginFactory using > BuildScopeServices.createScriptPluginFactory(). > > Could not create service of type PluginResolutionStrategyInternal using > > BuildScopeServices.createPluginResolutionStrategy(). > > * Try: > Run with --debug option to get more log output. Run with --scan to get full > insights. > > * Exception is: > org.gradle.internal.service.ServiceCreationException: Could not create > service of type ScriptPluginFactory using > BuildScopeServices.createScriptPluginFactory(). > at > org.gradle.internal.service.DefaultServiceRegistry$FactoryMethodService.invokeMethod(DefaultServiceRegistry.java:797) > at > org.gradle.internal.service.DefaultServiceRegistry$FactoryService.create(DefaultServiceRegistry.java:748) > at > org.gradle.internal.service.DefaultServiceRegistry$ManagedObjectProvider.getInstance(DefaultServiceRegistry.java:574) > at > org.gradle.internal.service.DefaultServiceRegistry$SingletonService.get(DefaultServiceRegistry.java:623) > at > org.gradle.internal.service.DefaultServiceRegistry$FactoryService.assembleParameters(DefaultServiceRegistry.java:761) > at > org.gradle.internal.service.DefaultServiceRegistry$FactoryService.create(DefaultServiceRegistry.java:747) > at > org.gradle.internal.service.DefaultServiceRegistry$ManagedObjectProvider.getInstance(DefaultServiceRegistry.java:574) > at > org.gradle.internal.service.DefaultServiceRegistry$SingletonService.get(DefaultServiceRegistry.java:623) > at > org.gradle.internal.service.DefaultServiceRegistry$FactoryService.assembleParameters(DefaultServiceRegistry.java:761) > at > org.gradle.internal.service.DefaultServiceRegistry$FactoryService.create(DefaultServiceRegistry.java:747) > at > org.gradle.internal.service.DefaultServiceRegistry$ManagedObjectProvider.getInstance(DefaultServiceRegistry.java:574) > at > org.gradle.internal.service.DefaultServiceRegistry$SingletonService.get(DefaultServiceRegistry.java:623) > at > org.gradle.internal.service.DefaultServiceRegistry.doGet(DefaultServiceRegistry.java:344) > at > org.gradle.internal.service.DefaultServiceRegistry.get(DefaultServiceRegistry.java:325) > at > org.gradle.initialization.DefaultGradleLauncherFactory.doNewInstance(DefaultGradleLauncherFactory.java:174) > at > org.gradle.initialization.DefaultGradleLauncherFactory.newInstance(DefaultGradleLauncherFactory.java:106) > at > org.gradle.launcher.exec.InProcessBuildActionExecuter.execute(InProcessBuildActionExecuter.java:40) > at > org.gradle.launcher.exec.InProcessBuildActionExecuter.execute(InProcessBuildActionExecuter.java:30) > at > org.gradle.launcher.exec.BuildTreeScopeBuildActionExecuter.execute(BuildTreeScopeBuildActionExecuter.java:39) > at > org.gradle.launcher.exec.BuildTreeScopeBuildActionExecuter.execute(BuildTreeScopeBuildActionExecuter.java:25) > at > org.gradle.tooling.internal.provider.ContinuousBuildActionExecuter.execute(ContinuousBuildActionExecuter.java:80) > at > org.gradle.tooling.internal.provider.ContinuousBuildActionExecuter.execute(ContinuousBuildActionExecuter.java:53) > at > org.gradle.tooling.internal.provider.ServicesSetupBuildActionExecuter.execute(ServicesSetupBuildActionExecuter.java:57) > at > org.gradle.tooling.internal.provider.ServicesSetupBuildActionExecuter.execute(ServicesSetupBuildActionExecuter.java:32) > at > org.gradle.tooling.internal.provider.GradleThreadBuildActionExecuter.execute(GradleThreadBuildActionExecuter.java:36) > at > org.gradle.tooling.internal.provider.GradleThreadBuildActionExecuter.execute(GradleThreadBuildActionExecuter.java:25) > at > org.gradle.tooling.internal.provider.ParallelismConfigurationBuildActionExecuter.execute(ParallelismConfigurationBuildActionExecuter.java:43) > at > org.gradle.tooling.internal.provider.ParallelismConfigurationBuildActionExecuter.execute(ParallelismConfigurationBuildActionExecuter.java:29) > at > org.gradle.tooling.internal.provider.StartParamsValidatingActionExecuter.execute(StartParamsValidatingActionExecuter.java:69) > at > org.gradle.tooling.internal.provider.StartParamsValidatingActionExecuter.execute(StartParamsValidatingActionExecuter.java:30) > at > org.gradle.tooling.internal.provider.SessionFailureReportingActionExecuter.execute(SessionFailureReportingActionExecuter.java:59) > at > org.gradle.tooling.internal.provider.SessionFailureReportingActionExecuter.execute(SessionFailureReportingActionExecuter.java:44) > at > org.gradle.tooling.internal.provider.SetupLoggingActionExecuter.execute(SetupLoggingActionExecuter.java:45) > at > org.gradle.tooling.internal.provider.SetupLoggingActionExecuter.execute(SetupLoggingActionExecuter.java:30) > at > org.gradle.launcher.daemon.server.exec.ExecuteBuild.doBuild(ExecuteBuild.java:67) > at > org.gradle.launcher.daemon.server.exec.BuildCommandOnly.execute(BuildCommandOnly.java:36) > at > org.gradle.launcher.daemon.server.api.DaemonCommandExecution.proceed(DaemonCommandExecution.java:122) > at > org.gradle.launcher.daemon.server.exec.WatchForDisconnection.execute(WatchForDisconnection.java:37) > at > org.gradle.launcher.daemon.server.api.DaemonCommandExecution.proceed(DaemonCommandExecution.java:122) > at > org.gradle.launcher.daemon.server.exec.ResetDeprecationLogger.execute(ResetDeprecationLogger.java:26) > at > org.gradle.launcher.daemon.server.api.DaemonCommandExecution.proceed(DaemonCommandExecution.java:122) > at > org.gradle.launcher.daemon.server.exec.RequestStopIfSingleUsedDaemon.execute(RequestStopIfSingleUsedDaemon.java:34) > at > org.gradle.launcher.daemon.server.api.DaemonCommandExecution.proceed(DaemonCommandExecution.java:122) > 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:122) > at > org.gradle.launcher.daemon.server.exec.LogAndCheckHealth.execute(LogAndCheckHealth.java:50) > at > org.gradle.launcher.daemon.server.api.DaemonCommandExecution.proceed(DaemonCommandExecution.java:122) > at > org.gradle.launcher.daemon.server.exec.LogToClient.doBuild(LogToClient.java:62) > at > org.gradle.launcher.daemon.server.exec.BuildCommandOnly.execute(BuildCommandOnly.java:36) > at > org.gradle.launcher.daemon.server.api.DaemonCommandExecution.proceed(DaemonCommandExecution.java:122) > at > org.gradle.launcher.daemon.server.exec.EstablishBuildEnvironment.doBuild(EstablishBuildEnvironment.java:82) > at > org.gradle.launcher.daemon.server.exec.BuildCommandOnly.execute(BuildCommandOnly.java:36) > at > org.gradle.launcher.daemon.server.api.DaemonCommandExecution.proceed(DaemonCommandExecution.java:122) > at > org.gradle.launcher.daemon.server.exec.StartBuildOrRespondWithBusy$1.run(StartBuildOrRespondWithBusy.java:50) > at > org.gradle.launcher.daemon.server.DaemonStateCoordinator$1.run(DaemonStateCoordinator.java:295) > at > org.gradle.internal.concurrent.ExecutorPolicy$CatchAndRecordFailures.onExecute(ExecutorPolicy.java:63) > at > org.gradle.internal.concurrent.ManagedExecutorImpl$1.run(ManagedExecutorImpl.java:46) > at > org.gradle.internal.concurrent.ThreadFactoryImpl$ManagedThreadRunnable.run(ThreadFactoryImpl.java:55) > Caused by: org.gradle.internal.service.ServiceCreationException: Could not > create service of type PluginResolutionStrategyInternal using > BuildScopeServices.createPluginResolutionStrategy(). > at > org.gradle.internal.service.DefaultServiceRegistry$FactoryMethodService.invokeMethod(DefaultServiceRegistry.java:797) > at > org.gradle.internal.service.DefaultServiceRegistry$FactoryService.create(DefaultServiceRegistry.java:748) > at > org.gradle.internal.service.DefaultServiceRegistry$ManagedObjectProvider.getInstance(DefaultServiceRegistry.java:574) > at > org.gradle.internal.service.DefaultServiceRegistry$SingletonService.get(DefaultServiceRegistry.java:623) > at > org.gradle.internal.service.DefaultServiceRegistry$FactoryService.assembleParameters(DefaultServiceRegistry.java:761) > at > org.gradle.internal.service.DefaultServiceRegistry$FactoryService.create(DefaultServiceRegistry.java:747) > at > org.gradle.internal.service.DefaultServiceRegistry$ManagedObjectProvider.getInstance(DefaultServiceRegistry.java:574) > at > org.gradle.internal.service.DefaultServiceRegistry$SingletonService.get(DefaultServiceRegistry.java:623) > at > org.gradle.internal.service.DefaultServiceRegistry.doGet(DefaultServiceRegistry.java:344) > at > org.gradle.internal.service.DefaultServiceRegistry.get(DefaultServiceRegistry.java:325) > at > org.gradle.internal.service.scopes.BuildScopeServices.defaultScriptPluginFactory(BuildScopeServices.java:300) > at > org.gradle.internal.service.scopes.BuildScopeServices.createScriptPluginFactory(BuildScopeServices.java:287) > at > java.base/jdk.internal.reflect.NativeMethodAccessorImpl.invoke0(Native Method) > at > java.base/jdk.internal.reflect.NativeMethodAccessorImpl.invoke(NativeMethodAccessorImpl.java:77) > at > java.base/jdk.internal.reflect.DelegatingMethodAccessorImpl.invoke(DelegatingMethodAccessorImpl.java:43) > at org.gradle.internal.reflect.JavaMethod.invoke(JavaMethod.java:73) > at > org.gradle.internal.service.ReflectionBasedServiceMethod.invoke(ReflectionBasedServiceMethod.java:35) > at > org.gradle.internal.service.DefaultServiceRegistry$FactoryMethodService.invokeMethod(DefaultServiceRegistry.java:795) > ... 60 more > Caused by: org.gradle.api.GradleException: Could not generate a proxy class > for class > org.gradle.plugin.management.internal.DefaultPluginResolutionStrategy. > at > org.gradle.api.internal.AbstractClassGenerator.generateUnderLock(AbstractClassGenerator.java:223) > at > org.gradle.api.internal.AbstractClassGenerator.generate(AbstractClassGenerator.java:79) > at > org.gradle.api.internal.ClassGeneratorBackedInstantiator.newInstance(ClassGeneratorBackedInstantiator.java:36) > at > org.gradle.plugin.internal.PluginUsePluginServiceRegistry$BuildScopeServices.createPluginResolutionStrategy(PluginUsePluginServiceRegistry.java:113) > at > java.base/jdk.internal.reflect.NativeMethodAccessorImpl.invoke0(Native Method) > at > java.base/jdk.internal.reflect.NativeMethodAccessorImpl.invoke(NativeMethodAccessorImpl.java:77) > at > java.base/jdk.internal.reflect.DelegatingMethodAccessorImpl.invoke(DelegatingMethodAccessorImpl.java:43) > at org.gradle.internal.reflect.JavaMethod.invoke(JavaMethod.java:73) > at > org.gradle.internal.service.ReflectionBasedServiceMethod.invoke(ReflectionBasedServiceMethod.java:35) > at > org.gradle.internal.service.DefaultServiceRegistry$FactoryMethodService.invokeMethod(DefaultServiceRegistry.java:795) > ... 77 more > Caused by: org.gradle.internal.UncheckedException: > java.lang.IllegalAccessException: module java.base does not open java.lang to > unnamed module @47faa49c > at > org.gradle.internal.UncheckedException.throwAsUncheckedException(UncheckedException.java:63) > at > org.gradle.internal.UncheckedException.throwAsUncheckedException(UncheckedException.java:40) > at org.gradle.internal.reflect.JavaMethod.invoke(JavaMethod.java:76) > at > org.gradle.internal.classloader.ClassLoaderUtils$LookupClassDefiner.defineClass(ClassLoaderUtils.java:142) > at > org.gradle.internal.classloader.ClassLoaderUtils.define(ClassLoaderUtils.java:92) > at > org.gradle.model.internal.asm.AsmClassGenerator.define(AsmClassGenerator.java:58) > at > org.gradle.model.internal.asm.AsmClassGenerator.define(AsmClassGenerator.java:54) > at > org.gradle.api.internal.AsmBackedClassGenerator$ClassBuilderImpl.generate(AsmBackedClassGenerator.java:967) > at > org.gradle.api.internal.AbstractClassGenerator.generateUnderLock(AbstractClassGenerator.java:221) > ... 86 more > Caused by: java.lang.IllegalAccessException: module java.base does not open > java.lang to unnamed module @47faa49c > at > java.base/jdk.internal.reflect.NativeMethodAccessorImpl.invoke0(Native Method) > at > java.base/jdk.internal.reflect.NativeMethodAccessorImpl.invoke(NativeMethodAccessorImpl.java:77) > at > java.base/jdk.internal.reflect.DelegatingMethodAccessorImpl.invoke(DelegatingMethodAccessorImpl.java:43) > at org.gradle.internal.reflect.JavaMethod.invoke(JavaMethod.java:73) > ... 92 more > > > * Get more help at https://help.gradle.org > > BUILD FAILED in 2s > dh_auto_build: error: gradle --info --console plain --offline --stacktrace > --no-daemon --refresh-dependencies --gradle-user-home .gradle -Duser.home=. > -Duser.name=debian -Ddebian.package=gatk-native-bindings > -Dfile.encoding=UTF-8 --parallel --max-workers=8 jar returned exit code 1 > make[1]: *** [debian/rules:13: override_dh_auto_build] Error 25 The full build log is available from: http://qa-logs.debian.net/2022/12/20/gatk-native-bindings_1.0.0-2.1_unstable.log All bugs filed during this archive rebuild are listed at: https://bugs.debian.org/cgi-bin/pkgreport.cgi?tag=ftbfs-20221220;users=lu...@debian.org or: https://udd.debian.org/bugs/?release=na&merged=ign&fnewerval=7&flastmodval=7&fusertag=only&fusertagtag=ftbfs-20221220&fusertaguser=lu...@debian.org&allbugs=1&cseverity=1&ctags=1&caffected=1#results A list of current common problems and possible solutions is available at http://wiki.debian.org/qa.debian.org/FTBFS . You're welcome to contribute! If you reassign this bug to another package, please mark it as 'affects'-ing this package. See https://www.debian.org/Bugs/server-control#affects If you fail to reproduce this, please provide a build log and diff it with mine so that we can identify if something relevant changed in the meantime.
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--- Begin Message ---Source: gatk-native-bindings Source-Version: 1.0.0+dfsg-2 Done: Pierre Gruet <p...@debian.org> We believe that the bug you reported is fixed in the latest version of gatk-native-bindings, which is due to be installed in the Debian FTP archive. A summary of the changes between this version and the previous one is attached. Thank you for reporting the bug, which will now be closed. If you have further comments please address them to 1026...@bugs.debian.org, and the maintainer will reopen the bug report if appropriate. Debian distribution maintenance software pp. Pierre Gruet <p...@debian.org> (supplier of updated gatk-native-bindings package) (This message was generated automatically at their request; if you believe that there is a problem with it please contact the archive administrators by mailing ftpmas...@ftp-master.debian.org) -----BEGIN PGP SIGNED MESSAGE----- Hash: SHA512 Format: 1.8 Date: Wed, 28 Dec 2022 10:26:09 +0100 Source: gatk-native-bindings Architecture: source Version: 1.0.0+dfsg-2 Distribution: unstable Urgency: medium Maintainer: Debian Java Maintainers <pkg-java-maintain...@lists.alioth.debian.org> Changed-By: Pierre Gruet <p...@debian.org> Closes: 1026757 Changes: gatk-native-bindings (1.0.0+dfsg-2) unstable; urgency=medium . * Team upload * Stopping exporting ANT_HOME and JAVA_HOME in debian/rules (Closes: #1026757) * Providing a longer description of the binary package Checksums-Sha1: 5a663de50ff4f099f9406edfa1cc5659400accb0 2201 gatk-native-bindings_1.0.0+dfsg-2.dsc f65b5e34739b4c11c376ca7329284fe67888667b 5544 gatk-native-bindings_1.0.0+dfsg-2.debian.tar.xz bd3373f5e33ee527361f9ee4b69595d112b97e81 14086 gatk-native-bindings_1.0.0+dfsg-2_amd64.buildinfo Checksums-Sha256: a7d239673b57f649d614071b2f273409c75869f8860557de109aa295ca5c7feb 2201 gatk-native-bindings_1.0.0+dfsg-2.dsc b195651410f8c89c471002d1ba8f1786dc184209c04129dc9590effd2445052b 5544 gatk-native-bindings_1.0.0+dfsg-2.debian.tar.xz 717f1bce2684a68ad7b00caaba3c969e15a910637a41a0efa819ac07cbb4b8d8 14086 gatk-native-bindings_1.0.0+dfsg-2_amd64.buildinfo Files: 91c91098cce64c9e903ce8d93a995dfe 2201 java optional gatk-native-bindings_1.0.0+dfsg-2.dsc 529bf54eec9a820829a35a283a8ff57e 5544 java optional gatk-native-bindings_1.0.0+dfsg-2.debian.tar.xz 060713eda2756d9017595d629814c781 14086 java optional gatk-native-bindings_1.0.0+dfsg-2_amd64.buildinfo -----BEGIN PGP SIGNATURE----- iQIzBAEBCgAdFiEEM8soQxPpC9J9y0UjYAMWptwndHYFAmOsD5IACgkQYAMWptwn dHZ8ChAAp5awX0/OEtE1HrW9jLt3ymF9nFmqLHr7I9B5usaHvlf4wV9WV0I4s1Uu 8Gl5UG52Z4o0G6vnZFvfOC0MWJAXS7h0QPzWFJghj8PtBIQ4zn8aSepCKcJNnOcP KRhFJxFHKrX3Ol+3rfvMPSWLyJ4+zcaAItHAePWBXG7uj4FW1KC33mOvUyxXLkmF bhdkBciNEPrjzr4A2Q+BSpGYmBk7ePRl2uuXQo6iosVcGc57/3YWN/rroyoh/026 +Sy/LNmmhue3vhLtLr8yK8i46wNapa0XNJFOlkG/EzO7HA4dOvA5CCmNWYUWl9wq eLIrxaZb0IsM0CcHWPFiIX2ZOdsADMdOjcdrLdvslul0PFT7NjND5XVDI8ljwkYE CjaYXG62IZtix1oftM++7Q0XeC0Q6st+zOEPlnGd8K4lbe/CL5gjQcS/I6GzgZV/ zWgdE87+MgnqDl5+sDZ7CjRF8p+QaWggiWe+4o87nUmUwCkTHyv4NdcXWo04PGHQ 3Q2+latawBbkERQfBlNPj75xjHBqBnuiPWiNuZRydq90uCQVLMXxmgUEqKIZ0b5f GbK3iUkPzEowVrsH6BLmNJs7GDncw00B26agW4ORNvQV/AWtAeemNoHVMeRZf+7V qOVKhzQIeeuLyJmUZh5/eiAARgDXMi2nD69kBUNiAZn/WWix4Ns= =QFGN -----END PGP SIGNATURE-----
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