ous-uio-bioinfo-core/containerised_ATACseq_pipeline:solexaqa
$ singularity pull shub://ous-uio-bioinfo-core/containerised_ATACseq_pipeline:solexaqa
Singularity Recipe
Bootstrap: docker
From: ubuntu:bionic-20191029
%environment
SOLEXAQA="/usr/local/SolexaQA++_v3.1.7.1/Linux_x64"
CONDA="/usr/local/miniconda3/bin"
export PATH="${SOLEXAQA}:${CONDA}:${PATH}"
%post
apt-get update && apt-get install -y wget unzip
wget https://repo.continuum.io/miniconda/Miniconda3-latest-Linux-x86_64.sh
bash Miniconda3-latest-Linux-x86_64.sh -b -f -u -p /usr/local/miniconda3
rm Miniconda3-latest-Linux-x86_64.sh
wget -O - https://sourceforge.net/projects/solexaqa/files/latest/download/SolexaQA++_v3.1.7.1.zip \
> /usr/local/SolexaQA++_v3.1.7.1.zip
cd /usr/local/
mkdir SolexaQA++_v3.1.7.1
unzip SolexaQA++_v3.1.7.1.zip -d SolexaQA++_v3.1.7.1
ls -la
SOLEXAQA="/usr/local/SolexaQA++_v3.1.7.1/Linux_x64"
CONDA="/usr/local/miniconda3/bin"
PATH="${SOLEXAQA}:${CONDA}:${PATH}"
conda config --add channels conda-forge
conda install -y r-base=3.6.2 fonts-conda-ecosystem=1
echo "PATH=${PATH}"
mkdir /cluster /work /tsd /projects
%runscript
echo "Running ubuntu bionic container with SolexaQA++ v3.1.7.1 and R v3.6.2."
exec /bin/bash "$@"
Collection
- Name: ous-uio-bioinfo-core/containerised_ATACseq_pipeline
- License: MIT License
View on Datalad
Metrics
key | value |
---|---|
id | /containers/ous-uio-bioinfo-core-containerised_ATACseq_pipeline-solexaqa |
collection name | ous-uio-bioinfo-core/containerised_ATACseq_pipeline |
branch | master |
tag | solexaqa |
commit | d2eb117398b087dae36fce0f7172b036c843cb8b |
version (container hash) | cf10479f590d310d20722d110f76ae19d89082aaec41ddfde3305230fb752ebd |
build date | 2020-10-12T18:20:21.603Z |
size (MB) | 661.59765625 |
size (bytes) | 693735424 |
SIF | Download URL (please use pull with shub://) |
Datalad URL | View on Datalad |
Singularity Recipe | Singularity Recipe on Datalad |
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