Added default parameter options to isis3VarInit, which can be overridden by the user.

#!/usr/bin/env python

#!/usr/bin/env python

import argparse

import os

import os

import sys

#Author:  Tyler Wilson

#Date  :  2018-10-05

#Description:  This script sets ISISROOT/ISIS3DATA/ISIS3TESTDATA for the user and is executed

#within the conda environment created for their ISIS3 installation.

#The data directory and test directory are optional command line arguments.  If the user chooses

#not to set them, they will both be placed created on the same level as the $ISISROOT directory

#within the conda environment.

parser = argparse.ArgumentParser(description='Usage:  ./isis3VarInit --data_dir <data dir path> --test_dir <test dir path')

#Might need to make these command line args.

isisroot = '$CONDA_PREFIX'

isisroot = '$CONDA_PREFIX'

data_dir='$CONDA_PREFIX/..data'

data_dir='$CONDA_PREFIX/..data'

testdata_dir='$CONDA_PREFIX/..testData'

testdata_dir='$CONDA_PREFIX/..testData'

parser.add_argument("--data_dir",default= data_dir,help="ISIS3 Mission Data Directory")

parser.add_argument("--test_dir",default=testdata_dir,help="ISIS3 Mission Test Data Directory")

args=parser.parse_args()

if (data_dir != args.data_dir):

    os.system("mkdir -p "+args.data_dir)

    data_dir = args.data_dir

if (testdata_dir != args.test_dir):

    os.system("mkdir -p "+args.test_dir)

    testdata_dir=args.test_dir

os.popen('mkdir -p '+isisroot+'/etc/conda/activate.d')

os.popen('mkdir -p '+isisroot+'/etc/conda/activate.d')

os.popen('mkdir -p '+isisroot+'/etc/conda/deactivate.d')

os.popen('mkdir -p '+isisroot+'/etc/conda/deactivate.d')

os.system("echo -n '' >"+isisroot+"/etc/conda/activate.d/env_vars.sh")

os.popen("echo -n '' >"+isisroot+"/etc/conda/activate.d/env_vars.sh")

os.popen("echo -n '' >"+isisroot+"/etc/conda/deactivate.d/env_vars.sh")

os.popen("echo -n '' >"+isisroot+"/etc/conda/deactivate.d/env_vars.sh")

os.popen('touch '+isisroot+'/etc/conda/activate.d/env_vars.sh')

os.popen('touch '+isisroot+'/etc/conda/activate.d/env_vars.sh')

os.popen('touch '+isisroot+'/etc/conda/activate.d/env_vars.sh')

os.popen('touch '+isisroot+'/etc/conda/activate.d/env_vars.sh')

os.popen("echo '#!/bin/sh' >> "+isisroot+ "/etc/conda/activate.d/env_vars.sh")

os.popen("echo '#!/bin/sh' >> "+isisroot+ "/etc/conda/activate.d/env_vars.sh")

os.popen("echo 'export ISISROOT="+isisroot+"' >>"+isisroot+"/etc/conda/activate.d/env_vars.sh")

os.popen("echo 'export ISISROOT="+isisroot+"' >>"+isisroot+"/etc/conda/activate.d/env_vars.sh")

os.popen("echo 'export ISIS3DATA="+data_dir+"' >>"+isisroot+"/etc/conda/activate.d/env_vars.sh")

os.popen("echo 'export ISIS3DATA="+data_dir+"' >>"+isisroot+"/etc/conda/activate.d/env_vars.sh")

os.popen("echo 'unset ISIS3DATA' >>"+isisroot+"/etc/conda/deactivate.d/env_vars.sh")

os.popen("echo 'unset ISIS3DATA' >>"+isisroot+"/etc/conda/deactivate.d/env_vars.sh")

os.popen("echo 'unset ISIS3TESTDATA' >>"+isisroot+"/etc/conda/deactivate.d/env_vars.sh")

os.popen("echo 'unset ISIS3TESTDATA' >>"+isisroot+"/etc/conda/deactivate.d/env_vars.sh")