This part is related to building on ARM.
> @GraceZou, You will have to build from source for ARM. The repo is gatk-bwamem-jni. There are instructions in the README on the repo landing page. Set the environmental variable to then point to the built library.
On Sat, Feb 8, 2020 at 4:19 PM Jun Aruga <jaruga@redhat.com> wrote:
>
> For GATK depending on GKL, I found an interesting page about building
> GATK on ARM.
>
> https://gatkforums.broadinstitute.org/gatk/discussion/9971/gatk4-beta1-problem-some-questions-about-bwa-faga-pipeline-in-gatk4-beta1
> > We use GATK4-beta1 in ARM,and have several questions about it:
>
> Jun
>
> On Sat, Feb 8, 2020 at 2:53 PM Michael Crusoe <michael.crusoe@gmail.com> wrote:
> >
> > https://github.com/Intel-HLS/GKL
> > A Java wrapper around an Intel optimized implementations of PairHMM, Smith-Waterman, and DEFLATE.
> >
> > Uses SIMD intrinsics and assembly.
> >
> > At https://salsa.debian.org/misterc-guest/gkl/tree/experimental/simde is a fork using the SIMD Everywhere library, but I lack the expertise to produce source versions of the many assembler only routines.
> >
> > Any suggestions / contributions?
> >
> > --
> > Michael R. Crusoe
>
>
>
> --
> Jun | He - His - Him
> jaruga@redhat.com / IRC: jaruga
--
Jun | He - His - Him
jaruga@redhat.com / IRC: jaruga