mirror of
https://github.com/MillironX/nf-core_modules.git
synced 2024-09-22 00:02:04 +00:00
41 lines
No EOL
1.3 KiB
Docker
41 lines
No EOL
1.3 KiB
Docker
FROM continuumio/miniconda3:4.8.2
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LABEL authors="chris.cheshire@crick.ac.uk" \
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description="Docker image containing all requirements for the luslab/group-nextflow-clip pipeline"
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# Install apt packages
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RUN apt-get update \
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&& apt-get install -y --no-install-recommends \
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git=1:2.20.1-2+deb10u3 \
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apt-utils=1.8.2 \
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unzip=6.0-23+deb10u1 \
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procps=2:3.3.15-2 \
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build-essential=12.6 \
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zlib1g-dev=1:1.2.11.dfsg-1 \
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&& apt-get clean \
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&& rm -rf /var/lib/apt/lists/*
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# Install conda packages
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COPY environment.yml /
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RUN conda env create -f /environment.yml && conda clean -a
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ENV PATH /opt/conda/envs/luslab-clip-0.1/bin:$PATH
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# Install Paraclu
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WORKDIR /home
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RUN mkdir bin && wget http://cbrc3.cbrc.jp/~martin/paraclu/paraclu-9.zip && unzip paraclu-9.zip
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WORKDIR /home/paraclu-9
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RUN make && cp paraclu /home/bin/paraclu && cp paraclu-cut.sh /home/bin/paraclu-cut.sh
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# Install PEKA
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WORKDIR /home
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RUN wget https://raw.githubusercontent.com/ulelab/imaps/master/src/imaps/sandbox/kmers.py
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RUN mkdir src && mv kmers.py src/kmers.py
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# Install iCount
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WORKDIR /home
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RUN wget https://github.com/tomazc/iCount/archive/master.zip && mv master.zip icount.zip && unzip icount.zip
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WORKDIR /home/iCount-master
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# hadolint ignore=SC2102,DL3013
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RUN pip install -e .[test]
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# Reset work dir
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WORKDIR /home |