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
- Name: connor-lab/singularity-recipes
- License: None
View on Datalad
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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