mbhall88/Singularity_recipes:vcftools

$ singularity pull shub://mbhall88/Singularity_recipes:vcftools

Singularity Recipe

Bootstrap: debootstrap
OSVersion: bionic
MirrorURL: http://us.archive.ubuntu.com/ubuntu/

%environment
  PATH=/usr/local/bin:$PATH

%post
    apt update
    apt install -y software-properties-common
    apt-add-repository universe
    apt update
    apt install -y git wget build-essential
    export LC_ALL=C.UTF-8
    export LANG=C.UTF-8
    echo 'export LC_ALL=C.UTF-8' >> $SINGULARITY_ENVIRONMENT
    echo 'export LANG=C.UTF-8' >> $SINGULARITY_ENVIRONMENT

    # ========================
    # INSTALL vcftools
    # ========================
    apt install -y pkg-config zlib1g-dev
    VERSION="0.1.16"
    URL=https://github.com/vcftools/vcftools/releases/download/v"$VERSION"/vcftools-"$VERSION".tar.gz
    wget -O - "$URL" | tar xzf -
    cd vcftools*
    ./configure --prefix=/usr/local
    make
    make install

    # install tabix dependency
    cd ~/
    wget -O - https://sourceforge.net/projects/samtools/files/tabix/tabix-0.2.6.tar.bz2/download | tar xjf -
    cd tabix*
    make
    echo "export PATH=$(pwd):$PATH" >> $SINGULARITY_ENVIRONMENT
    cd ..
    chmod -R 777 tabix*

Collection


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Metrics

key value
id /containers/mbhall88-Singularity_recipes-vcftools
collection name mbhall88/Singularity_recipes
branch master
tag vcftools
commit c0af79dc032d20c5ae72f756e67aa8e6e0015256
version (container hash) 20f82cf296897e90b545200ad3c508e0
build date 2018-11-12T16:21:13.071Z
size (MB) 678
size (bytes) 234303519
SIF Download URL (please use pull with shub://)
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Singularity Recipe Singularity Recipe on Datalad
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