GATK build

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2.5 years ago

jiahui • 0

When I type ./gradlew bundle to build GATK, the error was shown in the screen

* What went wrong:
A problem occurred evaluating root project 'gatk'.
> Execution of "git lfs pull --include src/main/resources/large" failed with exit code: 1.  git-lfs is required to build GATK but may not be installed. See https://github.com/broadinstitute/gatk#building for information on how to build GATK.

GATK • 1.2k views

ADD COMMENT • link updated 14 months ago by Ram 43k • written 2.5 years ago by jiahui • 0

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Does anyone can help me？

ADD REPLY • link 2.5 years ago by jiahui • 0

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why would you need to build gatk ?

otherwise, did you install git-lfs ?

ADD REPLY • link 2.5 years ago by Pierre Lindenbaum 161k

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Yes！I finished installing git-lfs, but when I run ./gradlew bundle, it would show that error. Or how can I use gatk to call SNP without build GATK?

ADD REPLY • link 2.5 years ago by jiahui • 0

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can I use gatk to call SNP without build GATK

yes, just download it: https://github.com/broadinstitute/gatk/releases/tag/4.2.2.0

ADD REPLY • link 2.5 years ago by Pierre Lindenbaum 161k

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