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shrine-medco/install/i2b2-1.7/vm-install.sh
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vm-install.sh
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#!/bin/bash
#########
# SHRINE Installation for existing i2b2 VM users.
#
# This quick install uses defaults.
#
# !!! You MUST CHANGE the default PASSWORDS before using real patient data. !!!
# !!! You MUST CHANGE the default PASSWORDS before using real patient data. !!!
# !!! You MUST CHANGE the default PASSWORDS before using real patient data. !!!
#
# @author Andrew McMurry
# @author Bill Simons
# @author Clint Gilbert
# @author Keith Dwyer
#
# http://open.med.harvard.edu/display/SHRINE
#
# Configuration params
#
# @see i2b2/i2b2.rc
# @see shrine/shrine.rc
#
#########
echo "[vm.sh] Preparing I2B2 for SHRINE"
chmod +x i2b2/*.sh
# Set this to "sqlserver" if using MSSQL.
# Will take priority over auto-detected Oracle or Postgres
db_server_type=""
if [ $# -gt 0 ]
then
db_server_type=$1
fi
if [ "$db_server_type" == "sqlserver" ]
then
echo "[vm.sh] MSSQL specified, assuming MSSQL is used for I2B2"
chmod +x i2b2/sqlserver/*.sh
cd i2b2/sqlserver
else
# check for sqlplus, which should be indicative of Oracle support
which sqlplus > /dev/null 2>&1
if [ $? -eq 0 ]
then
echo "[vm.sh] sqlplus found, assuming Oracle is used"
chmod +x i2b2/oracle/*.sh
cd i2b2/oracle
else
which psql > /dev/null 2>&1
if [ $? -eq 0 ]
then
echo "[vm.sh] psql found, assuming Postgres is used"
chmod +x i2b2/postgres/*.sh
cd i2b2/postgres
else
echo "[vm.sh] Neither sqlplus nor psql found, aborting install"
echo "[vm.sh] If you want to install just SHRINE, run ./shrine/install.sh"
exit 1
fi
fi
fi
# ./clean.sh
./prepare.sh
cd ../../
echo "[vm.sh] Installing SHRINE "
cd shrine
if [ "$db_server_type" == "sqlserver" ]
then
cd sqlserver
fi
chmod +x *.sh
# ./clean.sh
./install.sh
cd ..
echo "[vm.sh] Adding scripts to ~/.bashrc "
echo "source ~/common.rc" >> ~/.bashrc
echo "source ~/i2b2.rc" >> ~/.bashrc
echo "source ~/shrine.rc" >> ~/.bashrc
echo "source ~/i2b2-aliases.sh" >> ~/.bashrc
echo "source ~/shrine-aliases.sh" >> ~/.bashrc
echo "[vm.sh] Done. "
echo "[vm.sh] ********* "
echo "[vm.sh] You can now start shrine! "
echo "[vm.sh] Run the following commands: "
echo "[vm.sh] $ source ~/.bashrc "
echo "[vm.sh] $ shrine_startup "
echo "[vm.sh] ********* "
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