dominik-handler/AP_singu:oligominer
$ singularity pull shub://dominik-handler/AP_singu:oligominer
Singularity Recipe
#OligoMiner in singularity
Bootstrap: docker
From: ubuntu:16.04
%runscript
cd /OligoMiner
python "$@"
%post
apt-get update
apt-get -y install wget sudo
apt-get update
apt-get -y install python python-setuptools git-core bzip2
#update to version 1.19.0
wget https://repo.anaconda.com/miniconda/Miniconda2-latest-Linux-x86_64.sh && \
bash Miniconda2-latest-Linux-x86_64.sh -b -p /Software/anaconda && \
rm Miniconda2-latest-Linux-x86_64.sh
PATH="/Software/anaconda/bin:$PATH"
conda config --add channels r
conda config --add channels defaults
conda config --add channels conda-forge
conda config --add channels bioconda
conda install numpy
conda install scipy biopython scikit-learn bowtie2 jellyfish
cd /
git clone https://github.com/brianbeliveau/OligoMiner
mkdir /groups
mkdir /scratch
mkdir /scratch-ii2
%environment
PATH="PATH=/Software/anaconda/bin:${PATH}"
export $PATH
%test
Collection
- Name: dominik-handler/AP_singu
- License: None
View on Datalad
Metrics
key | value |
---|---|
id | /containers/dominik-handler-AP_singu-oligominer |
collection name | dominik-handler/AP_singu |
branch | master |
tag | oligominer |
commit | f9ab8bc372994f187d0f0f2850ca78b934eb6354 |
version (container hash) | effa157c39f7ba0f5dfcf302f3ab8571 |
build date | 2021-03-22T12:04:22.565Z |
size (MB) | 1263 |
size (bytes) | 497197087 |
SIF | Download URL (please use pull with shub://) |
Datalad URL | View on Datalad |
Singularity Recipe | Singularity Recipe on Datalad |
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