gearslaboratory/gears-singularity:gears-taudem

$ singularity pull shub://gearslaboratory/gears-singularity:gears-taudem

Singularity Recipe

BootStrap: debootstrap
OSVersion: bionic
MirrorURL: http://archive.ubuntu.com/ubuntu/
Include: bash

# TauDEM ## 
# https://github.com/dtarb/TauDEM #

%environment
    PATH=$PATH:/usr/local/taudem/
    export PATH

%post
  apt-get clean && apt-get -y update && apt-get install -y locales && locale-gen en_US.UTF-8
	
  # Add to sources list:
  sed -i 's/main/main restricted universe/g' /etc/apt/sources.list
  apt-get -y update

  # Latest R
  apt-get install -y software-properties-common
  # add-apt-repository ppa:edd/r-3.5
  # apt-get update

  # Install misc. utilities:
  apt-get install -y libopenblas-dev r-base-core r-base-dev libcurl4-openssl-dev \
  	libopenmpi-dev openmpi-bin openmpi-common openmpi-doc openssh-client openssh-server \
  	libssh-dev wget vim git nano git cmake gfortran g++ curl wget python autoconf \
  	bzip2 libtool libtool-bin libxml2-dev unzip
  
  # taudem dependencies
  apt-get install -y libgdal-dev libproj-dev python-gdal python3-gdal unzip libibverbs-dev mpich 
  git clone -b Develop https://github.com/dtarb/TauDEM.git
  cd TauDEM
  cd src && mkdir build && cd build
  cmake ..
  make && make install

Collection

• Name: gearslaboratory/gears-singularity
• License: None

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