Mercurial > repos > da-intersect > ap11_test

annotate result_analyser.sh @ 5:795f289b64db draft

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First complete upload, containing the datatype TAR.
author da-intersect
date Wed, 10 Apr 2013 02:41:02 -0400
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1 #!/bin/bash
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2
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3 if (type -p java >> /dev/null); then
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4 _java=java
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5 elif [[ -n "$JAVA_HOME" ]] && [[ -x "$JAVA_HOME/bin/java" ]]; then
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6 _java="$JAVA_HOME/bin/java"
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7 else
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8 echo "You must install java before runing this tool"
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9 exit 1
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10 fi
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11
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12 if [[ "$_java" ]]; then
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13 version=$("$_java" -version 2>&1 | awk -F '"' '/version/ {print $2}')
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14 if ! [[ "$version" > "1.6" ]]; then
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15 echo "Java version should be > 1.6"
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16 exit 1
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17 fi
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18 fi
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19
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20 if [ $# -eq 0 ]
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21 then
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22 echo "USAGE ap11Runner.sh APPNAME [ARGS]";
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23 exit;
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24 fi
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25
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26 DIR="$( cd "$( dirname "${BASH_SOURCE[0]}" )" && pwd )"
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27
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28 jar_path="${DIR}/jars/${1}"
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29 chr_path="${DIR}/chromosome"
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30 shift
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31 tar_file="$1"
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32 shift
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33 temp_dir=$(basename "$tar_file")
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34
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35 mkdir -p /tmp/$temp_dir
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36
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37 tar -C /tmp/$temp_dir -xvf $tar_file
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38 java -jar $jar_path $@ -c "/tmp/$temp_dir"
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39 rm -rf "/tmp/$temp_dir"