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2 FROM python:3.8-buster
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3
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4 # set author
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5 MAINTAINER Lain Pavot <lain.pavot@inra.fr>
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6
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7 # set encoding
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8 ENV LC_ALL en_US.UTF-8
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9 ENV LANG en_US.UTF-8
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10 ENV R_BASE_VERSION 4.0.3
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11
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12 ENV PLANEMO_VENV_LOCATION /planemo-venv
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13 ENV CONDA /tmp/conda
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14
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15 RUN \
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16 apt-get update \
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17 && apt-get install -y --no-install-recommends \
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18 ed \
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19 less \
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20 locales \
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21 vim-tiny \
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22 wget \
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23 ca-certificates \
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24 fonts-texgyre \
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25 && echo "en_US.UTF-8 UTF-8" >> /etc/locale.gen \
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26 && locale-gen en_US.utf8 \
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27 && /usr/sbin/update-locale LANG=en_US.UTF-8 \
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28 && echo "deb http://http.debian.net/debian buster main" > /etc/apt/sources.list.d/debian-unstable.list \
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29 && echo 'APT::Default-Release "stable";' > /etc/apt/apt.conf.d/default \
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30 && echo 'APT::Install-Recommends "false";' > /etc/apt/apt.conf.d/90local-no-recommends \
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31 && apt-get update \
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32 && apt-get upgrade -y \
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33 && apt-get install -y --no-install-recommends \
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34 git \
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35 littler \
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36 libhdf5-dev \
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37 r-cran-littler \
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38 r-base \
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39 r-base-dev \
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40 r-recommended \
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41 python-virtualenv \
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42 && R -e 'install.packages("batch", repos="http://cran.us.r-project.org")' \
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43 && pip install virtualenv \
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44 && python -m virtualenv "$PLANEMO_VENV_LOCATION" \
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45 && . "$PLANEMO_VENV_LOCATION"/bin/activate \
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46 && pip install --upgrade pip setuptools \
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47 && pip install planemo numpy \
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48 && planemo conda_init --conda_prefix "$CONDA" \
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49 && apt-get clean autoclean \
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50 && apt-get autoremove --yes \
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51 && rm -rf /var/lib/{apt,dpkg,cache,log}/ \
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52 && rm -rf /usr/bin/X11 \
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53 && rm -rf /tmp/* ;
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54
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55 CMD []
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56
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