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install.sh
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install.sh
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#!/bin/bash
############################################################################
# Copyright (c) 2015-2017 Saint Petersburg State University
# Copyright (c) 2011-2015 Saint Petersburg Academic University
# All Rights Reserved
# See file LICENSE for details.
############################################################################
# installs general QUAST pipeline and general MetaQUAST pipeline.
# MetaQUAST for de novo datasets (without references) will NOT be installed.
quast_home=$(dirname "$0")
stdout_log_fname=$quast_home/install_log.stdout
echo "Starting QUAST test... (stdout redirected to $stdout_log_fname)"
echo "" > $stdout_log_fname
echo "Starting QUAST test" >> $stdout_log_fname
$quast_home/quast.py --test >> $stdout_log_fname
return_code=$?
if [ $return_code -ne 0 ]; then
echo 'ERROR! QUAST TEST FAILED!'
exit 1
fi
echo "Starting MetaQUAST test... (stdout redirected to $stdout_log_fname)"
echo "" >> $stdout_log_fname
echo "Starting MetaQUAST test" >> $stdout_log_fname
$quast_home/metaquast.py --test >> $stdout_log_fname
return_code=$?
if [ $return_code -ne 0 ]; then
echo 'ERROR! METAQUAST TEST FAILED!'
exit 1
fi
echo 'QUAST INSTALLED SUCCESSFULLY!'
echo 'You can install full version of QUAST with ./install_full.sh (see manual.html)'
exit 0