rtpwilliams/Summit_RNAseq_container:latest

$ singularity pull shub://rtpwilliams/Summit_RNAseq_container:latest

Singularity Recipe

BootStrap: docker
From: ubuntu:16.04

%files
    environment.yml

%post

    # install some system deps
    apt-get -y update
    apt-get -y install locales curl bzip2 less unzip git wget vim ant default-jdk
    # this is a X11 dep 
    apt-get -y install libxext6
    # tools to open PDF and HTML files
    apt-get -y install firefox xpdf
    # some extra devel libs
    apt-get -y install zlib1g-dev libssl-dev libpng-dev uuid-dev
    # other
    locale-gen en_US.UTF-8
    apt-get clean

    # download and install miniconda3
    curl -sSL -O https://repo.continuum.io/miniconda/Miniconda3-latest-Linux-x86_64.sh
    bash Miniconda3-latest-Linux-x86_64.sh -p /opt/conda -b
    rm -fr Miniconda3-latest-Linux-x86_64.sh
    export PATH=/opt/conda/bin:$PATH
    conda update -n base conda

    # download software through environment.yml and set as default environment
    echo ". /opt/conda/etc/profile.d/conda.sh" >> ~/.bashrc
    echo "source activate summit_rnaseq" > ~/.bashrc
    /opt/conda/bin/conda env create -f environment.yml

%environment
    export PATH=/opt/conda/envs/summit_rnaseq/bin:$PATH
    export LANG=en_US.UTF-8
    export LANGUAGE=en_US:en
    export LC_ALL=en_US.UTF-8
    export XDG_RUNTIME_DIR=""
    export PATH=/opt/conda/bin:$PATH

%runscript
    exec "$@"

Collection


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Metrics

key value
id /containers/rtpwilliams-Summit_RNAseq_container-latest
collection name rtpwilliams/Summit_RNAseq_container
branch master
tag latest
commit 4a3e0f8d01e613b9b788e0c0b919dbae949ec09e
version (container hash) bf2b6a7224f780c4a9a00a919a98a0c2
build date 2020-04-09T16:46:54.266Z
size (MB) 4819.0
size (bytes) 2270765087
SIF Download URL (please use pull with shub://)
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