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setup_linux.sh
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##################### COPYRIGHT NOTICE - BSD License #########################
# Copyright (c) 2015, Regents of the University of California and
# the pSCANNER Project
# All rights reserved.
#
# Redistribution and use in source and binary forms, with or without
# modification, are permitted provided that the following conditions are
# met:
#
# * Redistributions of source code must retain the above copyright
# notice, this list of conditions and the following disclaimer.
# * Redistributions in binary form must reproduce the above copyright
# notice, this list of conditions and the following disclaimer in the
# documentation and/or other materials provided with the distribution.
#
# THIS SOFTWARE IS PROVIDED BY THE COPYRIGHT HOLDERS AND CONTRIBUTORS "AS
# IS" AND ANY EXPRESS OR IMPLIED WARRANTIES, INCLUDING, BUT NOT LIMITED
# TO, THE IMPLIED WARRANTIES OF MERCHANTABILITY AND FITNESS FOR A
# PARTICULAR PURPOSE ARE DISCLAIMED. IN NO EVENT SHALL THE COPYRIGHT OWNER
# OR CONTRIBUTORS BE LIABLE FOR ANY DIRECT, INDIRECT, INCIDENTAL, SPECIAL,
# EXEMPLARY, OR CONSEQUENTIAL DAMAGES (INCLUDING, BUT NOT LIMITED TO,
# PROCUREMENT OF SUBSTITUTE GOODS OR SERVICES; LOSS OF USE, DATA, OR
# PROFITS; OR BUSINESS INTERRUPTION) HOWEVER CAUSED AND ON ANY THEORY OF
# LIABILITY, WHETHER IN CONTRACT, STRICT LIABILITY, OR TORT (INCLUDING
# NEGLIGENCE OR OTHERWISE) ARISING IN ANY WAY OUT OF THE USE OF THIS
# SOFTWARE, EVEN IF ADVISED OF THE POSSIBILITY OF SUCH DAMAGE.
##############################################################################
# Written by Tsung-Ting Kuo
mkdir lib
mkdir bin
mkdir arff
mkdir xml
mkdir brat_inp
mkdir brat_inp/CHF
mkdir brat_inp/CHF/training
mkdir brat_inp/CHF/testing
mkdir brat_inp/WMO
mkdir brat_inp/WMO/training
mkdir brat_inp/WMO/testing
mkdir brat_inp/KD
mkdir brat_inp/KD/training
mkdir brat_inp/KD/testing
mkdir data_sent
mkdir data_sent/CHF
mkdir data_sent/CHF/training
mkdir data_sent/CHF/testing
mkdir data_sent/WMO
mkdir data_sent/WMO/training
mkdir data_sent/WMO/testing
mkdir data_sent/KD
mkdir data_sent/KD/training
mkdir data_sent/KD/testing
mkdir single
mkdir single/ctakes_brat_out
mkdir single/ctakes_brat_out/CHF
mkdir single/ctakes_brat_out/CHF/training
mkdir single/ctakes_brat_out/CHF/testing
mkdir single/ctakes_brat_out/WMO
mkdir single/ctakes_brat_out/WMO/training
mkdir single/ctakes_brat_out/WMO/testing
mkdir single/ctakes_brat_out/KD
mkdir single/ctakes_brat_out/KD/training
mkdir single/ctakes_brat_out/KD/testing
mkdir single/metamap_brat_out
mkdir single/metamap_brat_out/CHF
mkdir single/metamap_brat_out/CHF/training
mkdir single/metamap_brat_out/CHF/testing
mkdir single/metamap_brat_out/WMO
mkdir single/metamap_brat_out/WMO/training
mkdir single/metamap_brat_out/WMO/testing
mkdir single/metamap_brat_out/KD
mkdir single/metamap_brat_out/KD/training
mkdir single/metamap_brat_out/KD/testing
wget https://sourceforge.net/projects/mulan/files/mulan-1-5/mulan-1.5.0.zip/download -O mulan-1.5.0.zip
unzip mulan-1.5.0.zip
cp -f mulan/dist/mulan.jar lib/mulan-1.5.0.jar
rm -rf mulan
rm mulan-1.5.0.zip
wget https://sourceforge.net/projects/weka/files/weka-3-7/3.7.10/weka-3-7-10.zip/download -O weka-3-7-10.zip
unzip weka-3-7-10.zip
cp -f weka-3-7-10/weka.jar lib/weka-3-7-10.jar
rm -rf weka-3-7-10
rm weka-3-7-10.zip
wget http://archive.apache.org/dist/commons/math/binaries/commons-math-1.2.zip
unzip commons-math-1.2.zip
cp -f commons-math-1.2/commons-math-1.2.jar lib/commons-math-1.2.jar
rm -rf commons-math-1.2
rm commons-math-1.2.zip
wget http://www.csie.ntu.edu.tw/~d97944007/utility/utility.jar
mv utility.jar lib
javac -cp .:bin:lib/* -d bin src/*.java