sporada/file-setup
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Use pyFlow for file setup service

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Patrick Jentsch
2021-04-12 14:55:14 +02:00
parent 0c8b3421c6
commit 3c9a800886
5 changed files with 254 additions and 85 deletions
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@ -1,7 +1,7 @@
FROM debian:buster-slim
LABEL authors="Patrick Jentsch <p.jentsch@uni-bielefeld.de>, Stephan Porada <sporada@uni-bielefeld.de>"
LABEL authors="Patrick Jentsch <p.jentsch@uni-bielefeld.de>, Stephan Porada <porada@posteo.de>"
ENV LANG=C.UTF-8
@ -9,17 +9,38 @@ ENV LANG=C.UTF-8
RUN apt-get update \
&& apt-get install --no-install-recommends --yes \
wget
# Install the NLP pipeline and it's dependencies #
## Install pyFlow ##
ENV PYFLOW_VERSION=1.1.20
RUN wget --no-check-certificate --quiet \
"https://github.com/Illumina/pyflow/releases/download/v${PYFLOW_VERSION}/pyflow-${PYFLOW_VERSION}.tar.gz" \
&& tar -xzf "pyflow-${PYFLOW_VERSION}.tar.gz" \
&& cd "pyflow-${PYFLOW_VERSION}" \
&& apt-get install --no-install-recommends --yes \
python2.7 \
&& python2.7 setup.py build install \
&& cd .. \
&& rm -r "pyflow-${PYFLOW_VERSION}" "pyflow-${PYFLOW_VERSION}.tar.gz"
## Further dependencies ##
RUN apt-get install --no-install-recommends --yes \
imagemagick \
procps \
python3.7 \
zip \
&& rm -r /var/lib/apt/lists/*
RUN mv /etc/ImageMagick-6/policy.xml /etc/ImageMagick-6/policy.xml.bak
&& mv /etc/ImageMagick-6/policy.xml /etc/ImageMagick-6/policy.xml.bak
## Install Pipeline ##
COPY file-setup /usr/local/bin
RUN rm -r /var/lib/apt/lists/*
ENTRYPOINT ["file-setup"]
CMD ["--help"]