motroy/singularity-poppunk:latest

$ singularity pull shub://motroy/singularity-poppunk:latest

Singularity Recipe

Bootstrap: docker
From: ubuntu:latest

%environment
export PATH="/miniconda/miniconda3/bin:/Software/PopPUNK/:/Software/PopPUNK/scripts:/Software/PopPUNK/PopPUNK/:$PATH"
export CONDARC="/.condarc"



%post
mkdir /miniconda && cd /miniconda
apt update && apt install -y git curl wget less locate build-essential openssh-server
wget https://repo.continuum.io/miniconda/Miniconda3-latest-Linux-x86_64.sh
chmod +x Miniconda3-latest-Linux-x86_64.sh 
./Miniconda3-latest-Linux-x86_64.sh -b -p /miniconda/miniconda3
/miniconda/miniconda3/bin/conda config --file /.condarc --add channels defaults
/miniconda/miniconda3/bin/conda config --file /.condarc --add channels bioconda
/miniconda/miniconda3/bin/conda config --file /.condarc --add channels conda-forge
export PATH="/miniconda/miniconda3/bin:$PATH"
export CONDARC="/.condarc"
/miniconda/miniconda3/bin/conda install -y poppunk

mkdir /Software && cd /Software
git clone https://github.com/johnlees/PopPUNK.git && cd PopPUNK
#/miniconda/miniconda3/bin/python3 poppunk-runner.py
cd test && /miniconda/miniconda3/bin/python3 run_test.py
/miniconda/miniconda3/bin/python3 clean_test.py

Collection


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Metrics

key value
id /containers/motroy-singularity-poppunk-latest
collection name motroy/singularity-poppunk
branch master
tag latest
commit f1c535b821fd3119ffaed4dcea63267edf96722c
version (container hash) 5008453c36d2930448006acf4cc6bbdd
build date 2020-08-06T15:21:37.965Z
size (MB) 3087.0
size (bytes) 1447620639
SIF Download URL (please use pull with shub://)
Datalad URL View on Datalad
Singularity Recipe Singularity Recipe on Datalad
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