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planemo upload for repository https://forgemia.inra.fr/metexplore/met4j-galaxy commit 61dbdbae896d18b519a470e056cb8b4f98394518
author metexplore
date Thu, 13 Feb 2025 15:08:22 +0000
parents 0976a6257300
children
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dcd16521b969 planemo upload for repository https://forgemia.inra.fr/metexplore/met4j-galaxy commit 5dab0a2d83a1fdd7a1878a50ba0f24e752505393
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2 FROM python:3.9.12-slim-bullseye
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4 # set author
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5 LABEL maintainer "Ludovic Cottret <ludovic.cottret@inrae.fr>"
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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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11 ENV DEBIAN_FRONTEND=noninteractive
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14 RUN useradd -ms /bin/bash galaxy_user
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15 # RUN usermod -aG sudo galaxy_user
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17 # Install dependencies
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18 RUN apt-get update \
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19 && apt-get install -y \
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20 curl \
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21 sudo \
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22 build-essential \
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23 libseccomp-dev \
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24 autoconf \
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25 automake \
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26 cryptsetup \
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27 fuse2fs \
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28 git \
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29 fuse \
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30 libfuse-dev \
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31 libglib2.0-dev \
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32 libseccomp-dev \
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33 libtool \
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34 pkg-config \
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35 runc \
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36 squashfs-tools \
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37 squashfs-tools-ng \
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38 uidmap \
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39 wget \
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40 zlib1g-dev
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42 # Install planemo
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43 RUN pip install --upgrade pip \
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44 && pip install planemo
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46 SHELL ["/bin/bash", "-c"]
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47
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48 # Install GO
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49 RUN \
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50 export VERSION=1.17.2 OS=linux ARCH=amd64 \
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51 && wget https://dl.google.com/go/go$VERSION.$OS-$ARCH.tar.gz \
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52 && tar -C /usr/local -xzvf go$VERSION.$OS-$ARCH.tar.gz \
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53 && rm go$VERSION.$OS-$ARCH.tar.gz \
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54 && echo 'export PATH=/usr/local/go/bin:$PATH' >> ~/.bashrc \
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55 && source ~/.bashrc
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56
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57 # Install Singularity
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58 RUN \
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59 echo 'export PATH=/usr/local/go/bin:$PATH' >> ~/.bashrc \
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60 && source ~/.bashrc \
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61 && export VERSION=3.10.0 \
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62 && wget https://github.com/sylabs/singularity/releases/download/v${VERSION}/singularity-ce-${VERSION}.tar.gz \
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63 && tar -xzf singularity-ce-${VERSION}.tar.gz \
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64 && cd singularity-ce-${VERSION} \
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65 && ./mconfig \
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66 && make -C builddir \
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67 && make -C builddir install \
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68 && cd .. \
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69 && rm -rf singularity-ce-${VERSION} singularity-ce-${VERSION}.tar.gz
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71 # Clean
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73 RUN apt-get clean autoclean \
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74 && apt-get autoremove --yes \
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75 && rm -rf /var/lib/{apt,dpkg,cache,log}/ \
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76 && rm -rf /usr/bin/X11 \
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77 && rm -rf /tmp/*
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80 # USER galaxyuser
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82 CMD []
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