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Automatically download and extract the GATK jar #57

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abhi18av opened this issue Mar 24, 2022 · 0 comments
Open

Automatically download and extract the GATK jar #57

abhi18av opened this issue Mar 24, 2022 · 0 comments
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enhancement New feature or request

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@abhi18av
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We should consider adding a process which automatically downloads the GATK-3.8.0 using the public URL

https://storage.googleapis.com/gatk-software/package-archive/gatk/GenomeAnalysisTK-3.8-0-ge9d806836.tar.bz2

And then unzip it via tar -xf GenomeAnalysisTK-3.8-0-ge9d806836.tar.bz2 and pass on the resultant GenomeAnalysisTK.jar through all processes.

This has some overlap with #54
@abhi18av abhi18av added the enhancement New feature or request label Mar 24, 2022
@Mxrcon Mxrcon mentioned this issue Apr 6, 2022
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[DEV] Adding a gatk_jar downloader mycobactopia-org/MTBseq-nf
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