old_contents: #!/usr/bin/env bash
  # Script to setup stuff in an anaconda environment
  # Written by Joe Jeffers and Rob Schaefer
  # Email: jeffe174@umn.edu, schae234@umn.edu
  
  NAME="ponytools"
  
  function usage(){
  cat <<EOF
      Usage: $0 [flags]
  
      Flags
      -----
      -h | --help
          print help message
      -b | --base
          Base installation directory for $NAME (default: ~/.$NAME).
  EOF
  exit 0
  }
  
  # Configurable variables
  BASE=$HOME/.$NAME
  
  RED='\033[0;31m'
  GREEN='\033[0;32m'
  NC='\033[0m'
  
  function red(){
      printf "${RED}$1${NC}\n"
  }
  function green(){
      printf "${GREEN}$1${NC}\n"
  }
  
  while [[ $# > 0 ]]
  do
  key="$1"
  case $key in 
      -h|--help)
      usage
      shift
      ;;
      -b|--base)
      BASE=$2
      shift
      ;;
      *)  
          #unknown options
      ;;
  esac
  shift
  done
  
  
  #===================================================
  #----------Check for internet connection------------
  #===================================================
  wget -q --tries=10 --timeout=20 --spider http://github.com
  if [[ $? -ne 0 ]]; then
          echo "Check your internet connection and try again."
  		exit
  fi
  
  export CWD=$(pwd)
  #===================================================
  #----------Setup the build Environment--------------
  #===================================================
  echo "Setting up the build environment"
  source $HOME/.bashrc
  mkdir -p $BASE
  mkdir -p $BASE/conda
  mkdir -p $BASE/bin 
  mkdir -p $BASE/lib 
  
  cd $BASE
  
  export LD_LIBRARY_PATH=$BASE/lib:$LD_LIBRARY_PATH
  export PATH=$PATH:$BASE/bin:$BASE/conda/bin
  
  #===================================================
  #----------------Install conda ---------------------
  #===================================================
  # if ! hash conda 2>/dev/null
  if [ ! -e $BASE/conda/bin/conda ]
  then
      cd $BASE
  	wget https://repo.continuum.io/miniconda/Miniconda3-latest-Linux-x86_64.sh -O miniconda.sh
  	bash miniconda.sh -b -f -p $BASE/conda
  	rm -f miniconda.sh
  else
      green "Conda Already Installed" 
  fi
  
  #===================================================
  #----------Build the Conda Environment--------------
  #===================================================
  if [ ! -d $BASE/conda/envs/$NAME ]
  then
      echo "Making the conda virtual environment named $NAME in $BASE"
      conda remove -y --name $NAME --all
      conda config --add envs_dirs $BASE/conda/envs
      conda config --append channels conda-forge
      conda config --append channels blaze
      conda create -y -n $NAME python=3 setuptools pip cython numpy scipy pandas \
          matplotlib ipython ipdb pytest-cov 
  else
      green 'conda already installed'
  fi
  
  #===================================================
  #----------Activate the Conda Environment-----------
  #===================================================
  green "activating $NAME"
  source $BASE/conda/bin/activate $NAME
  green 'checking python'
  which python
  
  
  
new_contents: #!/usr/bin/env bash
  # Script to setup stuff in an anaconda environment
  # Written by Joe Jeffers and Rob Schaefer
  # Email: jeffe174@umn.edu, schae234@umn.edu
  
  NAME="ponytools"
  
  function usage(){
  cat <<EOF
      Usage: $0 [flags]
  
      Flags
      -----
      -h | --help
          print help message
      -b | --base
          Base installation directory for $NAME (default: ~/.$NAME).
  EOF
  exit 0
  }
  
  # Configurable variables
  BASE=$HOME/.$NAME
  
  RED='\033[0;31m'
  GREEN='\033[0;32m'
  NC='\033[0m'
  
  function red(){
      printf "${RED}$1${NC}\n"
  }
  function green(){
      printf "${GREEN}$1${NC}\n"
  }
  
  while [[ $# > 0 ]]
  do
  key="$1"
  case $key in 
      -h|--help)
      usage
      shift
      ;;
      -b|--base)
      BASE=$2
      shift
      ;;
      *)  
          #unknown options
      ;;
  esac
  shift
  done
  
  
  #===================================================
  #----------Check for internet connection------------
  #===================================================
  wget -q --tries=10 --timeout=20 --spider http://github.com
  if [[ $? -ne 0 ]]; then
          echo "Check your internet connection and try again."
  		exit
  fi
  
  export CWD=$(pwd)
  #===================================================
  #----------Setup the build Environment--------------
  #===================================================
  echo "Setting up the build environment"
  source $HOME/.bashrc
  mkdir -p $BASE
  mkdir -p $BASE/conda
  mkdir -p $BASE/bin 
  mkdir -p $BASE/lib 
  
  cd $BASE
  
  export LD_LIBRARY_PATH=$BASE/lib:$LD_LIBRARY_PATH
  export PATH=$PATH:$BASE/bin:$BASE/conda/bin
  
  #===================================================
  #----------------Install conda ---------------------
  #===================================================
  # if ! hash conda 2>/dev/null
  if [ ! -e $BASE/conda/bin/conda ]
  then
      cd $BASE
  	wget https://repo.continuum.io/miniconda/Miniconda3-latest-Linux-x86_64.sh -O miniconda.sh
  	bash miniconda.sh -b -f -p $BASE/conda
  	rm -f miniconda.sh
  else
      green "Conda Already Installed" 
  fi
  
  #===================================================
  #----------Build the Conda Environment--------------
  #===================================================
  if [ ! -d $BASE/conda/envs/$NAME ]
  then
      echo "Making the conda virtual environment named $NAME in $BASE"
      conda remove -y --name $NAME --all
      conda config --add envs_dirs $BASE/conda/envs
      conda config --append channels conda-forge
      conda config --append channels blaze
      conda create -y -n $NAME python=3 setuptools pip cython numpy scipy pandas \
          matplotlib ipython ipdb pytest-cov 
  else
      green 'conda already installed'
  fi
  
  #===================================================
  #----------Activate the Conda Environment-----------
  #===================================================
  green "activating $NAME"
  source $BASE/conda/bin/activate $NAME
  green 'checking python'
  which python
  
  #==================================================
  #-----------------Install Camoco-------------------
  #=================================================
  green "Installing $NAME"
  cd $CWD
  python setup.py install
  python -c 'import ponytools'
  if [ $? -eq 1 ]
  then
      red '$NAME failed to install!'
      exit 1
  else
      green '$NAME installed!'
  fi
  source deactivate 
  
  
  
subject: add ponytools package