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somavar/annotation (sha256:5fdca67f4e4f8187899fa7b2abcd40fa864f23cfc5f3bc4564112d6a5b4f7694)

Published 2026-08-27 19:12:04 +03:00 by glitch

Installation

Pull the image from the command line:

docker pull git.zfamilyhub.ru/glitch/somavar/annotation@sha256:5fdca67f4e4f8187899fa7b2abcd40fa864f23cfc5f3bc4564112d6a5b4f7694

Digest

sha256:5fdca67f4e4f8187899fa7b2abcd40fa864f23cfc5f3bc4564112d6a5b4f7694

For more information on the Container registry, see the documentation.

About this package

Variant annotation and interpretation

Image layers

ADD file:d13afefcc2b0b02b598a3ac2598fe2187db41de1e17820e5b600a955b1429d59 in /

CMD ["bash"]

ENV LANG=C.UTF-8 LC_ALL=C.UTF-8

ENV ENV_NAME=base

ENV MAMBA_ROOT_PREFIX=/opt/conda

ENV MAMBA_EXE=/bin/micromamba

COPY /etc/ssl/certs/ca-certificates.crt /etc/ssl/certs/ca-certificates.crt # buildkit

COPY /tmp/bin/micromamba /bin/micromamba # buildkit

RUN /bin/sh -c { grep -q '^ID=alpine$' /etc/os-release && apk add --no-cache bash; } || true # buildkit

ARG MAMBA_USER=mambauser

ARG MAMBA_USER_ID=57439

ARG MAMBA_USER_GID=57439

ENV MAMBA_USER=mambauser

ENV MAMBA_USER_ID=57439

ENV MAMBA_USER_GID=57439

COPY _dockerfile_initialize_user_accounts.sh /usr/local/bin/_dockerfile_initialize_user_accounts.sh # buildkit

COPY _dockerfile_setup_root_prefix.sh /usr/local/bin/_dockerfile_setup_root_prefix.sh # buildkit

RUN |3 MAMBA_USER=mambauser MAMBA_USER_ID=57439 MAMBA_USER_GID=57439 /bin/sh -c /usr/local/bin/_dockerfile_initialize_user_accounts.sh && /usr/local/bin/_dockerfile_setup_root_prefix.sh # buildkit

USER mambauser

WORKDIR /tmp

COPY _apptainer_shell.sh /usr/local/bin/_apptainer_shell.sh # buildkit

COPY _entrypoint.sh /usr/local/bin/_entrypoint.sh # buildkit

COPY _activate_current_env.sh /usr/local/bin/_activate_current_env.sh # buildkit

ENTRYPOINT ["/usr/local/bin/_entrypoint.sh"]

CMD ["/bin/bash"]

COPY _dockerfile_shell.sh /usr/local/bin/_dockerfile_shell.sh # buildkit

SHELL [/usr/local/bin/_dockerfile_shell.sh]

USER root

SHELL [/bin/bash -o pipefail -c]

RUN /bin/bash -o pipefail -c printf 'export PATH=/opt/conda/bin:$PATH\n' > /etc/profile.d/00-conda-path.sh # buildkit

ARG PYTHON_CANCERVAR=3.10

RUN |1 PYTHON_CANCERVAR=3.10 /bin/bash -o pipefail -c micromamba create -y -n cancervar -c conda-forge -c bioconda python=${PYTHON_CANCERVAR} perl perl-app-cpanminus numpy pandas scipy scikit-learn && micromamba clean --all --yes # buildkit

ARG PYTHON_OPAI=3.11

ARG TORCH_VERSION=2.5.1

ARG NUMPY_VERSION=1.26.4

ARG PANDAS_VERSION=1.5.3

ARG SKLEARN_VERSION=1.3.2

RUN |6 PYTHON_CANCERVAR=3.10 PYTHON_OPAI=3.11 TORCH_VERSION=2.5.1 NUMPY_VERSION=1.26.4 PANDAS_VERSION=1.5.3 SKLEARN_VERSION=1.3.2 /bin/bash -o pipefail -c micromamba create -y -n opai -c conda-forge python=${PYTHON_OPAI} pytorch-cpu=${TORCH_VERSION} numpy=${NUMPY_VERSION} pandas=${PANDAS_VERSION} scikit-learn=${SKLEARN_VERSION} joblib && micromamba clean --all --yes # buildkit

LABEL org.opencontainers.image.title=annotation (ANNOVAR + CancerVar + OPAI) org.opencontainers.image.description=Variant annotation and interpretation

ARG CANCERVAR_REF=master

RUN |7 PYTHON_CANCERVAR=3.10 PYTHON_OPAI=3.11 TORCH_VERSION=2.5.1 NUMPY_VERSION=1.26.4 PANDAS_VERSION=1.5.3 SKLEARN_VERSION=1.3.2 CANCERVAR_REF=master /bin/bash -o pipefail -c apt-get update && apt-get install -y --no-install-recommends git ca-certificates && rm -rf /var/lib/apt/lists/* && git clone --depth 1 --branch ${CANCERVAR_REF} https://github.com/WGLab/CancerVar.git /opt/CancerVar # buildkit

ARG ANNOVAR_TARBALL=annovar.latest.tar.gz

COPY annovar.latest.tar.gz /tmp/annovar.tar.gz # buildkit

RUN |8 PYTHON_CANCERVAR=3.10 PYTHON_OPAI=3.11 TORCH_VERSION=2.5.1 NUMPY_VERSION=1.26.4 PANDAS_VERSION=1.5.3 SKLEARN_VERSION=1.3.2 CANCERVAR_REF=master ANNOVAR_TARBALL=annovar.latest.tar.gz /bin/bash -o pipefail -c tar -xzf /tmp/annovar.tar.gz -C /opt && rm /tmp/annovar.tar.gz # buildkit

ENV ANNOVAR_HOME=/opt/annovar CANCERVAR_HOME=/opt/CancerVar PATH=/opt/annovar:/usr/local/sbin:/usr/local/bin:/usr/sbin:/usr/bin:/sbin:/bin

RUN |8 PYTHON_CANCERVAR=3.10 PYTHON_OPAI=3.11 TORCH_VERSION=2.5.1 NUMPY_VERSION=1.26.4 PANDAS_VERSION=1.5.3 SKLEARN_VERSION=1.3.2 CANCERVAR_REF=master ANNOVAR_TARBALL=annovar.latest.tar.gz /bin/bash -o pipefail -c printf 'export PATH=/opt/annovar:$PATH\n' > /etc/profile.d/01-annovar-path.sh # buildkit

WORKDIR /work

Labels

Key	Value
org.opencontainers.image.created	2024-09-23T16:05:37.063Z
org.opencontainers.image.description	Variant annotation and interpretation
org.opencontainers.image.licenses	Apache-2.0
org.opencontainers.image.revision	37bfa82a0fc1d2085e4b722fac4f747d0fa132c5
org.opencontainers.image.source	https://github.com/mamba-org/micromamba-docker
org.opencontainers.image.title	annotation (ANNOVAR + CancerVar + OPAI)
org.opencontainers.image.url	https://github.com/mamba-org/micromamba-docker
org.opencontainers.image.version	latest

Details

Container

2026-08-27 19:12:04 +03:00

0

OCI / Docker

linux/amd64

Apache-2.0

Project website

Repository website

1.3 GiB

Versions (9) View all

759a676c 2026-09-09

1.0 2026-09-09

e68c8984 2026-09-09

3a48c398 2026-09-08

e347412f 2026-09-08