Oh, I was mistaken about the GATK link. picard-tools depends on gkl, and igv and artemis depend on picard-tools
On Sat, Feb 8, 2020 at 4:22 PM Jun Aruga <jar...@redhat.com> wrote: > 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 <jar...@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.cru...@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 > > jar...@redhat.com / IRC: jaruga > > > > -- > Jun | He - His - Him > jar...@redhat.com / IRC: jaruga > > -- Michael R. Crusoe
