Test-drive the GATK tools and Best Practices pipelines on Terra

Check out this blog post to learn how you can get started with GATK and try out the pipelines in preconfigured workspaces (with a user-friendly interface!) without having to install anything.

Picard 2.18.23 crashing when building the JAR

lbuttigieglbuttigieg Edinburgh, UKMember
Hi there! I am following the instructions to build the JAR for Picard found in the repository Readme. I am trying to execute step ./gradlew shadowJar, but I am being presented with this error:

Exception in thread "main" java.io.IOException: Function not implemented
at sun.nio.ch.FileDispatcherImpl.lock0(Native Method)
at sun.nio.ch.FileDispatcherImpl.lock(FileDispatcherImpl.java:90)
at sun.nio.ch.FileChannelImpl.tryLock(FileChannelImpl.java:1115)
at java.nio.channels.FileChannel.tryLock(FileChannel.java:1155)
at org.gradle.wrapper.ExclusiveFileAccessManager.access(ExclusiveFileAccessManager.java:51)
at org.gradle.wrapper.Install.createDist(Install.java:48)
at org.gradle.wrapper.WrapperExecutor.execute(WrapperExecutor.java:128)
at org.gradle.wrapper.GradleWrapperMain.main(GradleWrapperMain.java:61)

Could something be wrong?


Sign In or Register to comment.