ambenj/bin_das_tool:concoct
$ singularity pull shub://ambenj/bin_das_tool:concoct
Singularity Recipe
BootStrap: docker
From: ubuntu:16.04
# this command assumes at least singularity 2.3
%environment
PATH="/usr/local/anaconda/bin:$PATH"
%post
apt-get update
apt-get install -y locales
# localle update necessary for quast
locale-gen --purge "en_US.UTF-8"
update-locale LANG="en_US.UTF-8"
apt-get install -y wget curl less
apt-get install -y build-essential
# install anaconda
if [ ! -d /usr/local/anaconda ]; then
wget https://repo.anaconda.com/miniconda/Miniconda3-latest-Linux-x86_64.sh \
-O /anaconda.sh && \
bash /anaconda.sh -b -p /usr/local/anaconda && \
rm /anaconda.sh
fi
export PATH="/usr/local/anaconda/bin:$PATH"
conda config --add channels defaults
conda config --add channels bioconda
conda config --add channels conda-forge
# requirements for das_tool workflow
conda install -c bioconda concoct bedtools picard samtools bowtie2 pysam parallel
wget https://github.com/BinPro/CONCOCT/archive/1.0.0.tar.gz
tar -xzf 1.0.0.tar.gz
conda install -c bioconda -c conda-forge snakemake
%runscript
exec /bin/bash
Collection
- Name: ambenj/bin_das_tool
- License: None
View on Datalad
Metrics
key | value |
---|---|
id | /containers/ambenj-bin_das_tool-concoct |
collection name | ambenj/bin_das_tool |
branch | master |
tag | concoct |
commit | ace82aa52a9457856ac5398bc1241e442296b79b |
version (container hash) | 0f400cb69ee661b80c568925a1ace292 |
build date | 2019-06-04T20:29:11.505Z |
size (MB) | 2959 |
size (bytes) | 1419812895 |
SIF | Download URL (please use pull with shub://) |
Datalad URL | View on Datalad |
Singularity Recipe | Singularity Recipe on Datalad |
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