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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.

New doc for developers regarding sting -> gatk renaming in 3.2

Geraldine_VdAuweraGeraldine_VdAuwera Cambridge, MAMember, Administrator, Broadie admin
edited September 2014 in Announcements

If you're a developer who uses the GATK framework, you may have noticed that the 3.2 release broke existing third-party walkers. This happened because we had to do some codebase-wide refactoring/renaming that changes package names and classpaths (most obviously, renaming all instances of "sting" to "gatk"). We're sorry for the inconvenience but this was necessary as a preparation step on the road to providing GATK as a maven artifact.

We have posted a document that details the changes and explains how to update third-party code to work with GATK framework versions 3.2 onward here.

While we're on this topic, it seems that the IntelliJ set up instructions are a little outdated (in part due to the renaming), so we'll be updating that as well in the near future.

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