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Add combined Julia and bam-readcounts Dockerfile

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Signed-off-by: Thomas A. Christensen II <25492070+MillironX@users.noreply.github.com>
This commit is contained in:
Thomas A. Christensen II 2021-11-15 12:21:34 -06:00
parent 23b8e08df4
commit 593b7f222c
Signed by: millironx
GPG key ID: 139C07724802BC5D
1 changed files with 77 additions and 0 deletions
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FROM mgibio/bam-readcount:1.0.0
## Copied from https://github.com/docker-library/julia/blob/master/1.6/buster/Dockerfile
RUN set -eux; \
apt-get update; \
apt-get install -y --no-install-recommends \
ca-certificates \
# ERROR: no download agent available; install curl, wget, or fetch
curl \
; \
rm -rf /var/lib/apt/lists/*
ENV JULIA_PATH /usr/local/julia
ENV PATH $JULIA_PATH/bin:$PATH
# https://julialang.org/juliareleases.asc
# Julia (Binary signing key) <buildbot@julialang.org>
ENV JULIA_GPG 3673DF529D9049477F76B37566E3C7DC03D6E495
# https://julialang.org/downloads/
ENV JULIA_VERSION 1.6.3
RUN set -eux; \
\
savedAptMark="$(apt-mark showmanual)"; \
if ! command -v gpg > /dev/null; then \
apt-get update; \
apt-get install -y --no-install-recommends \
gnupg \
dirmngr \
; \
rm -rf /var/lib/apt/lists/*; \
fi; \
\
# https://julialang.org/downloads/#julia-command-line-version
# https://julialang-s3.julialang.org/bin/checksums/julia-1.6.3.sha256
# this "case" statement is generated via "update.sh"
dpkgArch="$(dpkg --print-architecture)"; \
case "${dpkgArch##*-}" in \
# amd64
amd64) tarArch='x86_64'; dirArch='x64'; sha256='c7459c334cd7c3e4a297baf52535937c6bad640e60882f9201a73bab9394314b' ;; \
# arm32v7
armhf) tarArch='armv7l'; dirArch='armv7l'; sha256='7cf08affbad206bd3c1ef8bc117bf0aa6ac95d1666bf4c06f9d530cff29b2067' ;; \
# arm64v8
arm64) tarArch='aarch64'; dirArch='aarch64'; sha256='df1a7e96f83b60fda54fd14713a373e37ac2d80fd11dbd708a77c8a22ab86e25' ;; \
# i386
i386) tarArch='i686'; dirArch='x86'; sha256='06e3d64813e4ba6019d8d79e918c48af4943700bd1eb689c481d82a64f8c280a' ;; \
# ppc64le
ppc64el) tarArch='ppc64le'; dirArch='ppc64le'; sha256='a3cb6f58ee93bbd3bd72ecd45b9f37bf5e16e9c0ef30ba17c809ec7cbb84ee96' ;; \
*) echo >&2 "error: current architecture ($dpkgArch) does not have a corresponding Julia binary release"; exit 1 ;; \
esac; \
\
folder="$(echo "$JULIA_VERSION" | cut -d. -f1-2)"; \
curl -fL -o julia.tar.gz.asc "https://julialang-s3.julialang.org/bin/linux/${dirArch}/${folder}/julia-${JULIA_VERSION}-linux-${tarArch}.tar.gz.asc"; \
curl -fL -o julia.tar.gz "https://julialang-s3.julialang.org/bin/linux/${dirArch}/${folder}/julia-${JULIA_VERSION}-linux-${tarArch}.tar.gz"; \
\
echo "${sha256} *julia.tar.gz" | sha256sum -c -; \
\
export GNUPGHOME="$(mktemp -d)"; \
gpg --batch --keyserver keyserver.ubuntu.com --recv-keys "$JULIA_GPG"; \
gpg --batch --verify julia.tar.gz.asc julia.tar.gz; \
command -v gpgconf > /dev/null && gpgconf --kill all; \
rm -rf "$GNUPGHOME" julia.tar.gz.asc; \
\
mkdir "$JULIA_PATH"; \
tar -xzf julia.tar.gz -C "$JULIA_PATH" --strip-components 1; \
rm julia.tar.gz; \
\
apt-mark auto '.*' > /dev/null; \
[ -z "$savedAptMark" ] || apt-mark manual $savedAptMark; \
apt-get purge -y --auto-remove -o APT::AutoRemove::RecommendsImportant=false; \
\
# smoke test
julia --version
CMD ["julia"]