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  1. Barna Package
  2. BARNA-399

AStalavista installation error from git

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    Details

    • Type: Bug
    • Status: Resolved
    • Priority: Major
    • Resolution: Duplicate
    • Affects Version/s: AStalavista 4.0 (API 1.30)
    • Fix Version/s: None
    • Component/s: Astalavista
    • Labels:
      None

      Description

      Hello,

      When I am trying to install AStalavista following git installation. The installation build is failing due not available of some dependencies.

      I tried to solve and install these dependencies but not able to find. Please help me out to sort this problem.

      $ git clone http://bitbucket.sammeth.net/scm/barna/barna.git

      $ cd barna

      $ git checkout develop

      $ cd barna.astalavista

      $ ../gradlew distDir

      :barna.commons:compileJava

      FAILURE: Build failed with an exception.

      • What went wrong:

      Could not resolve all dependencies for configuration ':barna.commons:compile'.

      > Could not find group:net.sf.samtoolsmodule:samtools, version:1.79.

        Required by: barna:barna.commons:1.31-SNAPSHOT

      • Try:

      Run with --stacktrace option to get the stack trace. Run with --info or --debug option to get more log output.

      BUILD FAILED

      Total time: 4.005 secs

      #################################################################

      I have run with stacktrace also but not able to figure out.

      $ ../gradlew distDir --stacktrace

      :barna.commons:compileJava

      FAILURE: Build failed with an exception.

      • What went wrong:

      Could not resolve all dependencies for configuration ':barna.commons:compile'.

      > Could not find group:net.sf.samtools, module:samtools, version:1.79.

        Required by:      barna:barna.commons:1.31-SNAPSHOT

      • Try: Run with --info or --debug option to get more log output.
      • Exception is:

      org.gradle.api.artifacts.ResolveException: Could not resolve all dependencies for configuration ':barna.commons:compile'.

      at org.gradle.api.internal.artifacts.ivyservice.DefaultLenientConfiguration.rethrowFailure(DefaultLenientConfiguration.java:52)

      at org.gradle.api.internal.artifacts.ivyservice.DefaultResolvedConfiguration.rethrowFailure(DefaultResolvedConfiguration.java:39)

      at org.gradle.api.internal.artifacts.ivyservice.SelfResolvingDependencyResolver$1.rethrowFailure(SelfResolvingDependencyResolver.java:86)

      at org.gradle.api.internal.artifacts.ivyservice.ErrorHandlingArtifactDependencyResolver$ErrorHandlingResolvedConfiguration.rethrowFailure(ErrorHandlingArtifactDependencyResolver.java:71)

      at org.gradle.api.internal.artifacts.configurations.DefaultConfiguration$ConfigurationFileCollection.getFiles(DefaultConfiguration.java:458)

      at org.gradle.api.internal.artifacts.configurations.DefaultConfiguration.getFiles(DefaultConfiguration.java:203)

      at org.gradle.api.internal.artifacts.configurations.DefaultConfiguration_Decorated.getFiles(Unknown Source)

      at org.gradle.api.internal.file.collections.DefaultFileCollectionResolveContext$FileTreeConverter.convertInto(DefaultFileCollectionResolveContext.java:191)

      at org.gradle.api.internal.file.collections.DefaultFileCollectionResolveContext.doResolve(DefaultFileCollectionResolveContext.java:103)

      at org.gradle.api.internal.file.collections.DefaultFileCollectionResolveContext.resolveAsFileTrees(DefaultFileCollectionResolveContext.java:75)

              at org.gradle.api.internal.file.collections.DefaultFileCollectionResolveContext$FileTreeConverter.convertInto(DefaultFileCollectionResolveContext.java:182)

              at org.gradle.api.internal.file.collections.DefaultFileCollectionResolveContext.doResolve(DefaultFileCollectionResolveContext.java:98)

              at org.gradle.api.internal.file.collections.DefaultFileCollectionResolveContext.resolveAsFileTrees(DefaultFileCollectionResolveContext.java:75)

              at org.gradle.api.internal.file.CompositeFileCollection$1.resolve(CompositeFileCollection.java:88)

              at org.gradle.api.internal.file.CompositeFileCollection.getSourceCollections(CompositeFileCollection.java:143)

              at org.gradle.api.internal.file.CompositeFileTree.getSourceCollections(CompositeFileTree.java:30)

              at org.gradle.api.internal.file.CompositeFileCollection.getFiles(CompositeFileCollection.java:38)

              at org.gradle.api.internal.file.AbstractFileCollection.iterator(AbstractFileCollection.java:60)

              at org.gradle.api.internal.changedetection.DefaultFileSnapshotter.snapshot(DefaultFileSnapshotter.java:42)

              at org.gradle.api.internal.changedetection.InputFilesChangedUpToDateRule.create(InputFilesChangedUpToDateRule.java:35)

              at org.gradle.api.internal.changedetection.CompositeUpToDateRule.create(CompositeUpToDateRule.java:35)

              at org.gradle.api.internal.changedetection.DefaultTaskArtifactStateRepository$HistoricExecution.calcCurrentState(DefaultTaskArtifactStateRepository.java:80)

              at org.gradle.api.internal.changedetection.DefaultTaskArtifactStateRepository$HistoricExecution.isUpToDate(DefaultTaskArtifactStateRepository.java:88)

              at org.gradle.api.internal.changedetection.DefaultTaskArtifactStateRepository$TaskArtifactStateImpl.isUpToDate(DefaultTaskArtifactStateRepository.java:128)

              at org.gradle.api.internal.changedetection.ShortCircuitTaskArtifactStateRepository$ShortCircuitArtifactState.isUpToDate(ShortCircuitTaskArtifactStateRepository.java:77)

              at org.gradle.api.internal.changedetection.FileCacheBroadcastTaskArtifactStateRepository$1.isUpToDate(FileCacheBroadcastTaskArtifactStateRepository.java:37)

              at org.gradle.api.internal.tasks.execution.SkipUpToDateTaskExecuter.execute(SkipUpToDateTaskExecuter.java:44)

              at org.gradle.api.internal.tasks.execution.ValidatingTaskExecuter.execute(ValidatingTaskExecuter.java:57)

              at org.gradle.api.internal.tasks.execution.SkipEmptySourceFilesTaskExecuter.execute(SkipEmptySourceFilesTaskExecuter.java:41)

              at org.gradle.api.internal.tasks.execution.SkipTaskWithNoActionsExecuter.execute(SkipTaskWithNoActionsExecuter.java:51)

              at org.gradle.api.internal.tasks.execution.SkipOnlyIfTaskExecuter.execute(SkipOnlyIfTaskExecuter.java:52)

              at org.gradle.api.internal.tasks.execution.ExecuteAtMostOnceTaskExecuter.execute(ExecuteAtMostOnceTaskExecuter.java:42)

              at org.gradle.api.internal.AbstractTask.executeWithoutThrowingTaskFailure(AbstractTask.java:247)

              at org.gradle.execution.taskgraph.DefaultTaskPlanExecutor.executeTask(DefaultTaskPlanExecutor.java:52)

              at org.gradle.execution.taskgraph.DefaultTaskPlanExecutor.processTask(DefaultTaskPlanExecutor.java:38)

              at org.gradle.execution.taskgraph.DefaultTaskPlanExecutor.process(DefaultTaskPlanExecutor.java:30)

              at org.gradle.execution.taskgraph.DefaultTaskGraphExecuter.execute(DefaultTaskGraphExecuter.java:83)

              at org.gradle.execution.SelectedTaskExecutionAction.execute(SelectedTaskExecutionAction.java:29)

              at org.gradle.execution.DefaultBuildExecuter.execute(DefaultBuildExecuter.java:61)

              at org.gradle.execution.DefaultBuildExecuter.access$200(DefaultBuildExecuter.java:23)

              at org.gradle.execution.DefaultBuildExecuter$2.proceed(DefaultBuildExecuter.java:67)

              at org.gradle.api.internal.changedetection.TaskCacheLockHandlingBuildExecuter$1.run(TaskCacheLockHandlingBuildExecuter.java:31)

              at org.gradle.cache.internal.DefaultCacheAccess$2.create(DefaultCacheAccess.java:118)

              at org.gradle.cache.internal.DefaultCacheAccess.useCache(DefaultCacheAccess.java:133)

              at org.gradle.cache.internal.DefaultCacheAccess.useCache(DefaultCacheAccess.java:116)

              at org.gradle.cache.internal.DefaultPersistentDirectoryStore.useCache(DefaultPersistentDirectoryStore.java:129)

              at org.gradle.api.internal.changedetection.DefaultTaskArtifactStateCacheAccess.useCache(DefaultTaskArtifactStateCacheAccess.java:79)

              at org.gradle.api.internal.changedetection.TaskCacheLockHandlingBuildExecuter.execute(TaskCacheLockHandlingBuildExecuter.java:29)

              at org.gradle.execution.DefaultBuildExecuter.execute(DefaultBuildExecuter.java:61)

              at org.gradle.execution.DefaultBuildExecuter.access$200(DefaultBuildExecuter.java:23)

              at org.gradle.execution.DefaultBuildExecuter$2.proceed(DefaultBuildExecuter.java:67)

              at org.gradle.execution.DryRunBuildExecutionAction.execute(DryRunBuildExecutionAction.java:32)

              at org.gradle.execution.DefaultBuildExecuter.execute(DefaultBuildExecuter.java:61)

              at org.gradle.execution.DefaultBuildExecuter.execute(DefaultBuildExecuter.java:54)

              at org.gradle.initialization.DefaultGradleLauncher.doBuildStages(DefaultGradleLauncher.java:158)

              at org.gradle.initialization.DefaultGradleLauncher.doBuild(DefaultGradleLauncher.java:113)

              at org.gradle.initialization.DefaultGradleLauncher.run(DefaultGradleLauncher.java:81)

              at org.gradle.launcher.cli.ExecuteBuildAction.run(ExecuteBuildAction.java:38)

              at org.gradle.launcher.exec.InProcessGradleLauncherActionExecuter.execute(InProcessGradleLauncherActionExecuter.java:39)

              at org.gradle.launcher.exec.InProcessGradleLauncherActionExecuter.execute(InProcessGradleLauncherActionExecuter.java:25)

              at org.gradle.launcher.cli.RunBuildAction.run(RunBuildAction.java:50)

              at org.gradle.launcher.cli.ActionAdapter.execute(ActionAdapter.java:30)

              at org.gradle.launcher.cli.ActionAdapter.execute(ActionAdapter.java:22)

              at org.gradle.launcher.cli.CommandLineActionFactory$ParseAndBuildAction.execute(CommandLineActionFactory.java:200)

              at org.gradle.launcher.cli.CommandLineActionFactory$ParseAndBuildAction.execute(CommandLineActionFactory.java:173)

              at org.gradle.launcher.cli.CommandLineActionFactory$WithLogging.execute(CommandLineActionFactory.java:169)

              at org.gradle.launcher.cli.CommandLineActionFactory$WithLogging.execute(CommandLineActionFactory.java:138)

              at org.gradle.launcher.cli.ExceptionReportingAction.execute(ExceptionReportingAction.java:33)

              at org.gradle.launcher.cli.ExceptionReportingAction.execute(ExceptionReportingAction.java:22)

              at org.gradle.launcher.Main.doAction(Main.java:48)

              at org.gradle.launcher.bootstrap.EntryPoint.run(EntryPoint.java:45)

              at org.gradle.launcher.Main.main(Main.java:39)

              at org.gradle.launcher.bootstrap.ProcessBootstrap.runNoExit(ProcessBootstrap.java:50)

              at org.gradle.launcher.bootstrap.ProcessBootstrap.run(ProcessBootstrap.java:32)

              at org.gradle.launcher.GradleMain.main(GradleMain.java:26)

              at org.gradle.wrapper.BootstrapMainStarter.start(BootstrapMainStarter.java:33)

              at org.gradle.wrapper.WrapperExecutor.execute(WrapperExecutor.java:130)

              at org.gradle.wrapper.GradleWrapperMain.main(GradleWrapperMain.java:48)

      Caused by: org.gradle.api.internal.artifacts.ivyservice.ModuleVersionNotFoundException: Could not find group:net.sf.samtools, module:samtools, version:1.79.

      Required by:

          barna:barna.commons:1.31-SNAPSHOT

              at org.gradle.api.internal.artifacts.ivyservice.ivyresolve.LazyDependencyToModuleResolver$StaticVersionResolveResult.notFound(LazyDependencyToModuleResolver.java:159)

              at org.gradle.api.internal.artifacts.ivyservice.ivyresolve.LazyDependencyToModuleResolver$StaticVersionResolveResult.resolve(LazyDependencyToModuleResolver.java:118)

              at org.gradle.api.internal.artifacts.ivyservice.resolveengine.DependencyGraphBuilder$ModuleVersionSelectorResolveState.resolve(DependencyGraphBuilder.java:933)

              at org.gradle.api.internal.artifacts.ivyservice.resolveengine.DependencyGraphBuilder$DefaultModuleRevisionResolveState.getDescriptor(DependencyGraphBuilder.java:653)

              at org.gradle.api.internal.artifacts.ivyservice.resolveengine.DependencyGraphBuilder$DependencyEdge.calculateTargetConfigurations(DependencyGraphBuilder.java:331)

              at org.gradle.api.internal.artifacts.ivyservice.resolveengine.DependencyGraphBuilder$DependencyEdge.attachToTargetConfigurations(DependencyGraphBuilder.java:307)

              at org.gradle.api.internal.artifacts.ivyservice.resolveengine.DependencyGraphBuilder.traverseGraph(DependencyGraphBuilder.java:122)

              at org.gradle.api.internal.artifacts.ivyservice.resolveengine.DependencyGraphBuilder.resolve(DependencyGraphBuilder.java:58)

              at org.gradle.api.internal.artifacts.ivyservice.resolveengine.DefaultDependencyResolver.resolve(DefaultDependencyResolver.java:68)

              at org.gradle.api.internal.artifacts.ivyservice.CacheLockingArtifactDependencyResolver$1.create(CacheLockingArtifactDependencyResolver.java:36)

              at org.gradle.api.internal.artifacts.ivyservice.CacheLockingArtifactDependencyResolver$1.create(CacheLockingArtifactDependencyResolver.java:34)

              at org.gradle.cache.internal.DefaultCacheAccess.useCache(DefaultCacheAccess.java:133)

              at org.gradle.cache.internal.DefaultPersistentDirectoryStore.useCache(DefaultPersistentDirectoryStore.java:125)

              at org.gradle.api.internal.artifacts.ivyservice.DefaultCacheLockingManager.useCache(DefaultCacheLockingManager.java:49)

              at org.gradle.api.internal.artifacts.ivyservice.CacheLockingArtifactDependencyResolver.resolve(CacheLockingArtifactDependencyResolver.java:34)

              at org.gradle.api.internal.artifacts.ivyservice.SelfResolvingDependencyResolver.resolve(SelfResolvingDependencyResolver.java:43)

              at org.gradle.api.internal.artifacts.ivyservice.ShortcircuitEmptyConfigsArtifactDependencyResolver.resolve(ShortcircuitEmptyConfigsArtifactDependencyResolver.java:41)

              at org.gradle.api.internal.artifacts.ivyservice.ErrorHandlingArtifactDependencyResolver.resolve(ErrorHandlingArtifactDependencyResolver.java:37)

              at org.gradle.api.internal.artifacts.configurations.DefaultConfiguration.getResolvedConfiguration(DefaultConfiguration.java:236)

              at org.gradle.api.internal.artifacts.configurations.DefaultConfiguration_Decorated.getResolvedConfiguration(Unknown Source)

              at org.gradle.api.internal.artifacts.configurations.DefaultConfiguration$ConfigurationFileCollection.getFiles(DefaultConfiguration.java:456)

              ... 73 more

       

       

      BUILD FAILED

       

      Total time: 4.415 secs

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              • Assignee:
                micha M Sammeth
                Reporter:
                micha M Sammeth
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                • Created:
                  Updated:
                  Resolved: