mcw-rcc/qiime2:2019.1

$ singularity pull shub://mcw-rcc/qiime2:2019.1

Singularity Recipe

Bootstrap: docker
From: ubuntu:16.04

%labels
Maintainer Matthew Flister
Version 2019.1

%help
This container runs QIIME2.

%environment
    export PATH=/opt/miniconda3/bin:$PATH

%runscript
    source activate qiime2-2019.1
    exec qiime "${@}"

%post
    # default mount points
    mkdir -p /scratch/global /scratch/local /rcc/stor1/refdata /rcc/stor1/projects /rcc/stor1/depts
    
    # Install necessary packages
    apt-get update && apt-get install -y --no-install-recommends \
        build-essential \
        gcc-multilib \
        ca-certificates \
        locales \
        wget
    apt-get clean
    echo "LC_ALL=en_US.UTF-8" >> /etc/environment
    echo "en_US.UTF-8 UTF-8" >> /etc/locale.gen
    echo "LANG=en_US.UTF-8" > /etc/locale.conf
    locale-gen en_US.UTF-8

    # Install miniconda
    wget https://repo.continuum.io/miniconda/Miniconda3-latest-Linux-x86_64.sh -O miniconda3.sh
    bash miniconda3.sh -b -p /opt/miniconda3
    rm miniconda3.sh
    export PATH="/opt/miniconda3/bin:$PATH"
    
    # Install QIIME 2
    wget https://data.qiime2.org/distro/core/qiime2-2019.1-py36-linux-conda.yml
    conda env create -n qiime2-2019.1 --file qiime2-2019.1-py36-linux-conda.yml
    rm qiime2-2019.1-py36-linux-conda.yml

Collection


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key value
id /containers/mcw-rcc-qiime2-2019.1
collection name mcw-rcc/qiime2
branch 2019.1
tag 2019.1
commit 54bbd74484f0905b38501679aa8eec04d6bc22ee
version (container hash) 50f870c880b591f43158b8c73b30d995
build date 2020-03-06T12:26:31.495Z
size (MB) 6683
size (bytes) 2891517983
SIF Download URL (please use pull with shub://)
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