Mark Schreiber
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Activity overview
Latest activity by Mark Schreiber-
Mark Schreiber commented,
I found the solution. I was running the built GATK jar file in a Docker container that didn't contain the libgomp library which turns out to be a required dependency of the intel AVX native code in...
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Mark Schreiber commented,
Sorry, by "official" I mean the one bundled with the latest GATK release available here https://github.com/broadinstitute/gatk/releases/tag/4.2.6.1
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Mark Schreiber created a post,
How can I build the GATK jar so that the intel native libraries are available?
AnsweredWhen I build the GATK jar from source using git lfs install && \ git clone --branch 4.2.6.1 https://github.com/broadinstitute/gatk.git && \ cd gatk && \ ./gradlew The package builds succes...
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Mark Schreiber created a post,
What code changes would I need to make to enable direct reads from S3?
If not an error, choose a category for your question(REQUIRED):a)How do I (......)? I would like to add to GATK the ability to read/ write from and to S3 directly. Where in GATK and/ or HTSJDK wou...