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


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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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