TomHarrop/assembly-utils:agb_9c1b39c

$ singularity pull shub://TomHarrop/assembly-utils:agb_9c1b39c

Singularity Recipe

Bootstrap: shub
From: TomHarrop/assembly-utils:quast_5.0.2

%help
    Assembly Genome Browser (AGB)
    https://almiheenko.github.io/AGB

%labels
    MAINTAINER "Tom Harrop"
    VERSION "AGB 9c1b39c"

%post
    # faster apt downloads, will it break?
    export DEBIAN_FRONTEND=noninteractive
    (
        . /etc/os-release
        cat << _EOF_ > mirror.txt
deb mirror://mirrors.ubuntu.com/mirrors.txt ${UBUNTU_CODENAME} main restricted universe multiverse
deb mirror://mirrors.ubuntu.com/mirrors.txt ${UBUNTU_CODENAME}-updates main restricted universe multiverse
deb mirror://mirrors.ubuntu.com/mirrors.txt ${UBUNTU_CODENAME}-backports main restricted universe multiverse
deb mirror://mirrors.ubuntu.com/mirrors.txt ${UBUNTU_CODENAME}-security main restricted universe multiverse

_EOF_
        mv /etc/apt/sources.list /etc/apt/sources.list.bak
        cat mirror.txt /etc/apt/sources.list.bak > /etc/apt/sources.list
    )

    apt-get update
    apt-get install -y \
        cython3 \
        git \
        python3-gfapy \
        python3-networkx \
        python3-pip

    # python3 dependencies
    /usr/bin/pip3 install \
        git+git://github.com/networkx/networkx-metis@34398b7

    # agb
    /usr/bin/pip3 install \
        git+git://github.com/almiheenko/AGB.git@9c1b39c

%runscript
    exec /usr/local/bin/agb.py "$@"

Collection


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key value
id /containers/TomHarrop-assembly-utils-agb_9c1b39c
collection name TomHarrop/assembly-utils
branch master
tag agb_9c1b39c
commit e2644127f4df84725ba3dfa9c28d278e4db55b40
version (container hash) 8a6e4b5e5dabb98848486a1b9bbb2904ca12deea67ae762a6363a9354cb561f4
build date 2019-11-13T05:19:55.305Z
size (MB) 1181.85546875
size (bytes) 1239265280
SIF Download URL (please use pull with shub://)
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