KatOfCats/w2rap-contigger:latest

$ singularity pull shub://KatOfCats/w2rap-contigger:latest

Singularity Recipe

Bootstrap: docker
From: gcc:5.5.0
IncludeCmd: yes

%setup
# Copy any necessary files 

%environment
 # Use bash as default shell
    SHELL=/bin/bash

    # Add paths
    PATH="/usr/local/w2rap-contigger/bin:$PATH"

    # Export paths
    export PATH


%post
    # Make gpfs folder to hold mount
    mkdir /gpfs
    mkdir /shared
    mkdir /local
    mkdir /scratch
    # Create and move to build directory
    mkdir /root/build && cd /root/build

# run OS updates
apt-get update -y  && apt-get upgrade -y

# Install cmake
cd /usr/local/
wget https://cmake.org/files/v3.4/cmake-3.4.1-Linux-x86_64.tar.gz
tar xvf cmake-3.4.1-Linux-x86_64.tar.gz
export PATH="`pwd`/cmake-3.4.1-Linux-x86_64/bin:$PATH"
rm -rf cmake-3.4.1-Linux-x86_64.tar.gz

# Install w2rap-contigger
git clone https://github.com/bioinfologics/w2rap-contigger.git
cd w2rap-contigger/
#git checkout bj
cmake -DCMAKE_CXX_COMPILER=g++ .
make -j 4

%labels
 edited from HPC UEA Team  hpc.admin@uea.ac.uk

Collection

• Name: KatOfCats/w2rap-contigger
• License: MIT License

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