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FROM --platform=linux/x86_64 mambaorg/micromamba:0.24.0 as app | ||
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# ARG sets environment variables during the build stage | ||
ARG LIFTOFF_VER="1.6.3" | ||
ARG MINIMAP2_VER="2.24" | ||
ARG SAMTOOLS_VER="1.20" | ||
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USER root | ||
WORKDIR / | ||
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# LABEL instructions tag the image with metadata that might be important to the user | ||
# Optional, but highly recommended | ||
LABEL base.image="mambaorg/micromamba:0.24.0" | ||
LABEL dockerfile.version="1" | ||
LABEL software="liftoff" | ||
LABEL software.version=$LIFTOFF_VER | ||
LABEL description="A tool that accurately maps annotations in GFF or GTF between assemblies of the same, or closely-related species." | ||
LABEL website="https://github.com/agshumate/Liftoff" | ||
LABEL license="https://github.com/agshumate/Liftoff/blob/master/LICENSE.md" | ||
LABEL maintainer="John Arnn" | ||
LABEL maintainer.email="[email protected]" | ||
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RUN apt-get update && apt-get install -y --no-install-recommends \ | ||
wget \ | ||
ca-certificates \ | ||
perl \ | ||
zlib1g \ | ||
libncurses5 \ | ||
bzip2 \ | ||
liblzma-dev \ | ||
libcurl4-gnutls-dev \ | ||
gnuplot \ | ||
procps && \ | ||
apt-get autoclean && rm -rf /var/lib/apt/lists/* | ||
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RUN micromamba install --yes --name base --channel conda-forge --channel bioconda \ | ||
minimap2=${MINIMAP2_VER} \ | ||
python=3.9.1 \ | ||
samtools=${SAMTOOLS_VER} \ | ||
Liftoff=${LIFTOFF_VER} && \ | ||
micromamba clean --all --yes |