install-snpy

#!/bin/bash

# This script will install SNooPy in the "best" way possible. In order, we
# will try to do the following:
# 1) Check for anaconda (conda) environment and install into that
# 2) Create a new conda environment and install into that
# 3) Create a venv and install into that using pip

if [ "$1" = "-h" ] ; then
   echo "Usage:  install-snpy [location]"
   echo "  Install SNooPy into a virtual environment called [location]."
   echo "  [location] is optional, default is 'snpy'"
   exit
fi

if [ $# -lt 1 ] ; then
   location="snpy"
else
   location=$1
fi

mandatory_packages="numpy scipy astropy ipython matplotlib pandas h5py onnxruntime"
optional_packages="emcee pymysql"


echo "Checking for conda..."
CONDA=$(which conda 2> /dev/null)
if [ $? -eq 1 ] ; then
   echo "conda not found, falling back on venv"
   PY=$(which python 2> /dev/null)
   if [ $? -eq 1 ] ; then
      PY=$(which python3 2> /dev/null)
      if [ $? -eq 1 ] ; then
         echo "No python found! Install python before you run this script."
         exit 1
      fi
   fi
   version=$($PY -V)
   if [ "$(echo -e 'Python 3.0.0\n${version}' | sort -V -r | head -1)" = "Python 3.0.0" ] ; then
      echo "You must be running Python 3 to use this script"
      exit 1
   fi

   # Now check to see if we are already in an environment
   base=$($PY -c "import sys;print(sys.exec_prefix)")
   if [ -f ${base}/pyvenv.cfg ] ; then
      echo "You already seem to be in a virtual environment."
      while true; do
         read -p "Should I install SNooPy into this venv? (y/n)" yn
         case $yn in
            [Yy]* ) break;;
            [Nn]* ) exit ;;
            * ) echo "answer y/n";;

         esac
      done
   else
      echo "Creating new venv environment in $location"
      $PY -m venv $location
      source $location/bin/activate
      base=$($PY -c "import sys;print(sys.exec_prefix)")
   fi
   
   PIP=$(which pip 2> /dev/null)
   if [ $? -eq 1 ] ; then
      echo "I can't find pip. Please install it and re-run this script"
      exit 1
   fi

   for package in $mandatory_packages ; do
      echo "Installing $package..."
      $PIP install $package > ${package}.log 2>&1 || (echo "$package failed to install, abort!"; exit)
   done

   for package in $optional_packages ; do
      echo "Installing $package..."
      $PIP install $package > ${package}.log 2>&1 || echo "optional $package failed to install"
   done

else
   # We have a conda environment. Yay! Check to see if we have the env
   # already

   # To access conda functionality we need to do some initialization
   #source $(conda info --base)/etc/profile.d/conda.sh
   eval "$(conda shell.bash hook)"
   conda activate $location > /dev/null 2>&1
   if [ $? -eq 0 ] ; then
      python -c "import snpy"
      if [ $? -eq 0 ] ; then
         echo "You already seem to have a version of SNooPY isntalled."
         echo "You should probably run update-snpy to update to the latest"
         echo "version."
         exit
      fi
   else
      echo "Creating new virtual environment $location"
      conda create -n $location -y > env.log 2>&1
      if [ $? -ne 0 ] ; then
         echo "Failed to create a conda environment. You may not have a"
         echo "properly set-up version. Abort!"
         exit
      fi
      echo "Done"
      conda activate $location
   fi

   # We still need pip to install SNooPy from source, so check it
   PIP=$(which pip 2> /dev/null)
   if [ $? -ne 0 ] ; then
      echo "Installing PIP..."
      conda install -y pip > pip.log 2>&1 || (echo "Installation of PIP failed. Check pip.log. Abort!"; exit)
      PIP=$(which pip 2> /dev/null)
      rm pip.log
   fi

   # Now we have activated the environment, install the software
   for package in $mandatory_packages ; do
      echo "Installing ${package}..."
      conda install -y $package > ${package}.log 2>&1 || (echo "Installation of $package failed. Check ${package}.log. Abort!"; exit)
      rm ${package}.log
   done

   for package in $optional_packages ; do
      echo "Installing ${package}..."
      conda install -y $package > ${package}.log 2>&1
      if [ $? -ne 0 ] ; then
         echo "Trying PIP..."
         pip install $package > ${package}.log 2>&1 || echo "Installation of optional package $package failed. Check ${package}.log"
      else
         rm ${package}.log
      fi
   done

fi

# Okay, at this point, we should be in a proper virtual environment
cd $(python -c "import sys;print(sys.exec_prefix)")
echo "Downloading SNooPy from git..."
git clone https://github.com/obscode/snpy > git.log 2>&1
if [ $? -ne 0 ] ; then
   echo "Downloading from git failed, abort!. Check git.log"
   exit
fi

cd snpy
$PIP install . > snpy.log 2>&1
echo "Done!  With any luck, SNooPy has been successfully installed into the"
echo "virtual environment ${location}. From now on, if you want to run"
echo "SNooPy, you will need to activate this virtual environment first. Then"
echo "simply run 'snpy'. You can also periodically update SNooPy by running"
echo "'update-snpy' on the command-line."