connor-lab/singularity-recipes:abricate

$ singularity pull shub://connor-lab/singularity-recipes:abricate

Singularity Recipe

Bootstrap: docker
From: centos:latest


%post
    yum -y update

    yum install -y git make
    yum install -y bzip2 bzip2-devel gcc ncurses-devel perl-App-cpanminus unzip xz-devel zlib-devel

    cpanm LWP::Simple Text::CSV Bio::Perl JSON File::Slurp List::MoreUtils

    curl -fsSL 'https://ftp.ncbi.nlm.nih.gov/blast/executables/blast+/2.7.1/ncbi-blast-2.7.1+-x64-linux.tar.gz' | tar -xz -C /usr/local/bin
    find /usr/local/bin/ncbi-blast*/bin -maxdepth 1 -executable -type f -exec ln -s {} /usr/local/bin \;

    curl -fsSL 'ftp://emboss.open-bio.org/pub/EMBOSS/EMBOSS-6.6.0.tar.gz' | tar -xz -C /usr/local/bin
    cd /usr/local/bin/EMBOSS-6.6.0 && ./configure --without-x && make install

    git clone https://github.com/tseemann/abricate.git /usr/local/bin/abricate-latest
    ln -s /usr/local/bin/abricate-latest/bin/* /usr/local/bin

    abricate --setupdb

Collection


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Metrics

key value
id /containers/connor-lab-singularity-recipes-abricate
collection name connor-lab/singularity-recipes
branch master
tag abricate
commit a43cefa7f62c25a6726a49f5634f285ba75ea6a9
version (container hash) 7b9f93a4c9cd9b6a5e37e06aa4f883d3
build date 2019-02-07T11:31:15.368Z
size (MB) 2403
size (bytes) 564142111
SIF Download URL (please use pull with shub://)
Datalad URL View on Datalad
Singularity Recipe Singularity Recipe on Datalad
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