dominik-handler/AP_singu:mosdepth

$ singularity pull shub://dominik-handler/AP_singu:mosdepth

Singularity Recipe

#mosdepth in singularity

Bootstrap: docker
From: ubuntu:16.04
%labels
  maintainer Dominik Handler <Dominik Handler@imba.oeaw.ac.at>
  mosdepth v0.24.0  

%runscript
    mosdepth "$@"

%post
    apt-get update
    apt-get -y install wget git-all
    apt-get -y install sudo


    apt-get clean && apt-get update && apt-get install -y \
       locales \
       language-pack-fi  \
       language-pack-en && \
       export LANGUAGE=en_US.UTF-8 && \
       export LANG=en_US.UTF-8 && \
       export LC_ALL=en_US.UTF-8 && \
       locale-gen en_US.UTF-8 && \
       dpkg-reconfigure --frontend noninteractive locales


    apt-get update
    apt-get install bzip2
    apt-get -y install python3.5 python3-dev python3-pip
 
    apt-get -y install python3-setuptools
    
    #update to version 1.19.0
    wget https://repo.continuum.io/miniconda/Miniconda3-latest-Linux-x86_64.sh && \
    bash Miniconda3-latest-Linux-x86_64.sh -b -p /Software/anaconda3 && \
    rm Miniconda3-latest-Linux-x86_64.sh
    PATH="/Software/anaconda3/bin:$PATH"

    apt-get update
    apt-get install bzip2
    apt-get -y install python3.5 python3-dev python3-pip
 
    apt-get -y install python3-setuptools
    
    #update to version 1.19.0
    wget https://repo.continuum.io/miniconda/Miniconda3-latest-Linux-x86_64.sh && \
    bash Miniconda3-latest-Linux-x86_64.sh -b -p /Software/anaconda3 && \
    rm Miniconda3-latest-Linux-x86_64.sh
    PATH="/Software/anaconda3/bin:$PATH"
    
  conda config --add channels defaults
  conda config --add channels conda-forge
  conda config --add channels bioconda

  conda install mosdepth

    cd 
    git clone https://github.com/brentp/mosdepth.git


    mkdir /groups
    mkdir /scratch
    mkdir /scratch-ii2

%environment
    PATH="PATH=/Software/anaconda3/bin:${PATH}"
    export $PATH


%test

Collection


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Metrics

key value
id /containers/dominik-handler-AP_singu-mosdepth
collection name dominik-handler/AP_singu
branch master
tag mosdepth
commit e55ba3e87926f1ae97d6e85fa8284f37f594a833
version (container hash) 52e281bbf7d26f5c96c8965df7fcf0a9
build date 2021-02-26T21:45:09.369Z
size (MB) 1524
size (bytes) 643584031
SIF Download URL (please use pull with shub://)
Datalad URL View on Datalad
Singularity Recipe Singularity Recipe on Datalad
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