test

ubuntu/v16.04/bcftools/v1.14/Dockerfile

+# bcftools
+# https://github.com/samtools/bcftools/releases/tag/1.14
+
+# v1.14
+
+# base image: ubuntu:16.04 + coreutils v8.30 + gawk v5.1.0 + bc v1.07 + git v2.33.1
+FROM gmillot/bash-extended_v2.0:gitlab_v3.0
+# Warning: the name must be exactly what is written in the docker images interface, or sudo docker image ls
+
+
+LABEL Gael.Millot=gael.millot@pasteur.fr
+LABEL gitlab.dockerfiles="https://gitlab.pasteur.fr/gmillot/dockerfiles"
+
+ENV BCFTOOLS_VERSION=1.14
+ENV HTS_VERSION=1.14
+
+RUN apt-get update --fix-missing \
+    && apt-get install -y wget gcc make git libbz2-dev zlib1g zlib1g-dev liblzma5 liblzma-dev libncurses5 libncurses5-dev bzip2 libcurl4-openssl-dev libssl-dev libgetopt-complete-perl  \
+    && cd /usr/local/ \
+    && git clone https://github.com/samtools/htslib.git \
+    && cd htslib && git checkout ${HTS_VERSION} \
+    && cd .. \
+    && git clone https://github.com/samtools/bcftools.git \
+    && cd bcftools \
+    && git checkout ${BCFTOOLS_VERSION} \
+    && make \
+    && make install \
+    && rm -rf /usr/local/bcftools \
+    && rm -rf /usr/local/htslib \
+# end coreutils install
+# && apt-get remove -y wget tar xz-utils make gcc \ # inactivated because generate errors of pkg dependency
+# important to remove the dependencies after installation to save space in the image that will be built
+&& apt-get autoremove -y \
+&& apt-get clean \
+&& rm -rf /var/lib/apt/lists/*
+
+ENTRYPOINT ["/bin/bash"]
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