Add command line option parsing
This commit is contained in:
parent
8420a54c97
commit
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GPG Key ID:
62BEE9264BF17311
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@ -22,3 +22,5 @@
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# virtual machine crash logs, see http://www.java.com/en/download/help/error_hotspot.xml
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hs_err_pid*
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.idea
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.gradle
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plugins {
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id 'java'
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}
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group 'de.vanitasvitae'
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version '1.0-SNAPSHOT'
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sourceCompatibility = 1.8
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repositories {
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mavenCentral()
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// Apache Repository for Commons CLI
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maven { url "https://repository.apache.org/content/groups/snapshots/" }
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}
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dependencies {
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// Apache Commons CLI for parsing command line arguments
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compile 'commons-cli:commons-cli:1.5-SNAPSHOT'
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// Testing
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testCompile group: 'junit', name: 'junit', version: '4.12'
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}
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distributionBase=GRADLE_USER_HOME
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distributionPath=wrapper/dists
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distributionUrl=https\://services.gradle.org/distributions/gradle-4.8-bin.zip
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zipStoreBase=GRADLE_USER_HOME
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zipStorePath=wrapper/dists
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#!/usr/bin/env sh
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##############################################################################
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##
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## Gradle start up script for UN*X
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##
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##############################################################################
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# Attempt to set APP_HOME
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# Resolve links: $0 may be a link
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PRG="$0"
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# Need this for relative symlinks.
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while [ -h "$PRG" ] ; do
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ls=`ls -ld "$PRG"`
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link=`expr "$ls" : '.*-> \(.*\)$'`
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if expr "$link" : '/.*' > /dev/null; then
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PRG="$link"
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else
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PRG=`dirname "$PRG"`"/$link"
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fi
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done
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SAVED="`pwd`"
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cd "`dirname \"$PRG\"`/" >/dev/null
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APP_HOME="`pwd -P`"
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cd "$SAVED" >/dev/null
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APP_NAME="Gradle"
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APP_BASE_NAME=`basename "$0"`
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# Add default JVM options here. You can also use JAVA_OPTS and GRADLE_OPTS to pass JVM options to this script.
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DEFAULT_JVM_OPTS=""
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# Use the maximum available, or set MAX_FD != -1 to use that value.
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MAX_FD="maximum"
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warn () {
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echo "$*"
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}
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die () {
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echo
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echo "$*"
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echo
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exit 1
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}
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# OS specific support (must be 'true' or 'false').
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cygwin=false
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msys=false
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darwin=false
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nonstop=false
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case "`uname`" in
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CYGWIN* )
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cygwin=true
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;;
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Darwin* )
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darwin=true
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;;
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MINGW* )
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msys=true
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;;
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NONSTOP* )
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nonstop=true
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;;
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esac
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CLASSPATH=$APP_HOME/gradle/wrapper/gradle-wrapper.jar
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# Determine the Java command to use to start the JVM.
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if [ -n "$JAVA_HOME" ] ; then
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if [ -x "$JAVA_HOME/jre/sh/java" ] ; then
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# IBM's JDK on AIX uses strange locations for the executables
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JAVACMD="$JAVA_HOME/jre/sh/java"
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else
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JAVACMD="$JAVA_HOME/bin/java"
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fi
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if [ ! -x "$JAVACMD" ] ; then
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die "ERROR: JAVA_HOME is set to an invalid directory: $JAVA_HOME
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Please set the JAVA_HOME variable in your environment to match the
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location of your Java installation."
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fi
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else
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JAVACMD="java"
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which java >/dev/null 2>&1 || die "ERROR: JAVA_HOME is not set and no 'java' command could be found in your PATH.
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Please set the JAVA_HOME variable in your environment to match the
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location of your Java installation."
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fi
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# Increase the maximum file descriptors if we can.
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if [ "$cygwin" = "false" -a "$darwin" = "false" -a "$nonstop" = "false" ] ; then
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MAX_FD_LIMIT=`ulimit -H -n`
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if [ $? -eq 0 ] ; then
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if [ "$MAX_FD" = "maximum" -o "$MAX_FD" = "max" ] ; then
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MAX_FD="$MAX_FD_LIMIT"
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fi
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ulimit -n $MAX_FD
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if [ $? -ne 0 ] ; then
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warn "Could not set maximum file descriptor limit: $MAX_FD"
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fi
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else
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warn "Could not query maximum file descriptor limit: $MAX_FD_LIMIT"
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fi
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fi
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# For Darwin, add options to specify how the application appears in the dock
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if $darwin; then
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GRADLE_OPTS="$GRADLE_OPTS \"-Xdock:name=$APP_NAME\" \"-Xdock:icon=$APP_HOME/media/gradle.icns\""
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fi
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# For Cygwin, switch paths to Windows format before running java
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if $cygwin ; then
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APP_HOME=`cygpath --path --mixed "$APP_HOME"`
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CLASSPATH=`cygpath --path --mixed "$CLASSPATH"`
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JAVACMD=`cygpath --unix "$JAVACMD"`
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# We build the pattern for arguments to be converted via cygpath
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ROOTDIRSRAW=`find -L / -maxdepth 1 -mindepth 1 -type d 2>/dev/null`
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SEP=""
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for dir in $ROOTDIRSRAW ; do
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ROOTDIRS="$ROOTDIRS$SEP$dir"
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SEP="|"
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done
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OURCYGPATTERN="(^($ROOTDIRS))"
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# Add a user-defined pattern to the cygpath arguments
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if [ "$GRADLE_CYGPATTERN" != "" ] ; then
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OURCYGPATTERN="$OURCYGPATTERN|($GRADLE_CYGPATTERN)"
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fi
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# Now convert the arguments - kludge to limit ourselves to /bin/sh
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i=0
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for arg in "$@" ; do
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CHECK=`echo "$arg"|egrep -c "$OURCYGPATTERN" -`
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CHECK2=`echo "$arg"|egrep -c "^-"` ### Determine if an option
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if [ $CHECK -ne 0 ] && [ $CHECK2 -eq 0 ] ; then ### Added a condition
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eval `echo args$i`=`cygpath --path --ignore --mixed "$arg"`
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else
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eval `echo args$i`="\"$arg\""
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fi
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i=$((i+1))
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done
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case $i in
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(0) set -- ;;
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(1) set -- "$args0" ;;
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(2) set -- "$args0" "$args1" ;;
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(3) set -- "$args0" "$args1" "$args2" ;;
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(4) set -- "$args0" "$args1" "$args2" "$args3" ;;
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(5) set -- "$args0" "$args1" "$args2" "$args3" "$args4" ;;
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(6) set -- "$args0" "$args1" "$args2" "$args3" "$args4" "$args5" ;;
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(7) set -- "$args0" "$args1" "$args2" "$args3" "$args4" "$args5" "$args6" ;;
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(8) set -- "$args0" "$args1" "$args2" "$args3" "$args4" "$args5" "$args6" "$args7" ;;
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(9) set -- "$args0" "$args1" "$args2" "$args3" "$args4" "$args5" "$args6" "$args7" "$args8" ;;
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esac
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fi
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# Escape application args
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save () {
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for i do printf %s\\n "$i" | sed "s/'/'\\\\''/g;1s/^/'/;\$s/\$/' \\\\/" ; done
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echo " "
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}
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APP_ARGS=$(save "$@")
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# Collect all arguments for the java command, following the shell quoting and substitution rules
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eval set -- $DEFAULT_JVM_OPTS $JAVA_OPTS $GRADLE_OPTS "\"-Dorg.gradle.appname=$APP_BASE_NAME\"" -classpath "\"$CLASSPATH\"" org.gradle.wrapper.GradleWrapperMain "$APP_ARGS"
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# by default we should be in the correct project dir, but when run from Finder on Mac, the cwd is wrong
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if [ "$(uname)" = "Darwin" ] && [ "$HOME" = "$PWD" ]; then
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cd "$(dirname "$0")"
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fi
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exec "$JAVACMD" "$@"
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@ -0,0 +1,84 @@
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@if "%DEBUG%" == "" @echo off
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@rem ##########################################################################
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@rem
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@rem Gradle startup script for Windows
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@rem
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@rem ##########################################################################
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@rem Set local scope for the variables with windows NT shell
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if "%OS%"=="Windows_NT" setlocal
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set DIRNAME=%~dp0
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if "%DIRNAME%" == "" set DIRNAME=.
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set APP_BASE_NAME=%~n0
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set APP_HOME=%DIRNAME%
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@rem Add default JVM options here. You can also use JAVA_OPTS and GRADLE_OPTS to pass JVM options to this script.
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set DEFAULT_JVM_OPTS=
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@rem Find java.exe
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if defined JAVA_HOME goto findJavaFromJavaHome
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set JAVA_EXE=java.exe
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%JAVA_EXE% -version >NUL 2>&1
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if "%ERRORLEVEL%" == "0" goto init
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echo.
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echo ERROR: JAVA_HOME is not set and no 'java' command could be found in your PATH.
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echo.
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echo Please set the JAVA_HOME variable in your environment to match the
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echo location of your Java installation.
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goto fail
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:findJavaFromJavaHome
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set JAVA_HOME=%JAVA_HOME:"=%
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set JAVA_EXE=%JAVA_HOME%/bin/java.exe
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if exist "%JAVA_EXE%" goto init
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echo.
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echo ERROR: JAVA_HOME is set to an invalid directory: %JAVA_HOME%
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echo.
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echo Please set the JAVA_HOME variable in your environment to match the
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echo location of your Java installation.
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goto fail
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:init
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@rem Get command-line arguments, handling Windows variants
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if not "%OS%" == "Windows_NT" goto win9xME_args
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:win9xME_args
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@rem Slurp the command line arguments.
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set CMD_LINE_ARGS=
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set _SKIP=2
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:win9xME_args_slurp
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if "x%~1" == "x" goto execute
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set CMD_LINE_ARGS=%*
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:execute
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@rem Setup the command line
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set CLASSPATH=%APP_HOME%\gradle\wrapper\gradle-wrapper.jar
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@rem Execute Gradle
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"%JAVA_EXE%" %DEFAULT_JVM_OPTS% %JAVA_OPTS% %GRADLE_OPTS% "-Dorg.gradle.appname=%APP_BASE_NAME%" -classpath "%CLASSPATH%" org.gradle.wrapper.GradleWrapperMain %CMD_LINE_ARGS%
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:end
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@rem End local scope for the variables with windows NT shell
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if "%ERRORLEVEL%"=="0" goto mainEnd
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:fail
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rem Set variable GRADLE_EXIT_CONSOLE if you need the _script_ return code instead of
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rem the _cmd.exe /c_ return code!
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if not "" == "%GRADLE_EXIT_CONSOLE%" exit 1
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exit /b 1
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:mainEnd
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if "%OS%"=="Windows_NT" endlocal
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:omega
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@ -0,0 +1,42 @@
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Aufgabe:
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Erzeugen eines 8 stelligen Codes zum Bekleben von Tubes einer Biobank.
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· Die Codes sollen die Zeichen a-z,A-Z,0-9 unterstützen.
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· Hierbei sollen die ersten 3 Stellen die Studiennummer kodieren,
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· die nächste Stelle den Probentyp
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· und die letzten 4 Stellen die Probennummer hochgezählt.
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Eingabe:
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Angabe einer Studiennummer, eines Probentyps und einer gewünschten Anzahl.
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Ausgabe:
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Eine HTML-Darstellung der Etiketten. (Eine Tabelle reicht hier aus.)
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Technische Voraussetzungen:
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· Das Programm soll in Java sein. Wir verwenden Spring und programmieren Web-Applikationen, dies ist für diese
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Aufgabe aber nicht erforderlich. Eine Jar-Datei mit README (Bedienungsanleitung) reicht.
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· Die Ausgabe kann eine HTML-Datei sein, die manuell geöffnet werden kann.
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· Die Eingabe kann über die Kommandozeile erfolgen, oder über eine simple GUI.
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· Es sollen 2 Studiennummern und 2 Probentypen vordefiniert werden (Hardcoded). Die Eingabe einer nicht
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definierten Studie/Typ soll sinnvoll behandelt werden.
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· Es wäre schön, wenn sich das Programm die aktuelle Nummer zu einer Studie/Typ merken würde und bei einem
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neuen Start weiterzählt.
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· Der Code sollte gut dokumentiert sein (auf Englisch)
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rootProject.name = 'imi.codes'
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package de.vanitasvitae.imi.codes;
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import org.apache.commons.cli.Option;
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import org.apache.commons.cli.Options;
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public class Arguments {
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static final Option STUDY_NUMBER = Option.builder("s")
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.longOpt("study")
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.desc("Three-letter code of the associated study")
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.required()
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.hasArg()
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.argName("SNR")
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.build();
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static final Option SAMPLE_TYPE = Option.builder("t")
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.longOpt("type")
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.desc("Type of the sample (b = blood, u = urine)")
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.required(true)
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.hasArg()
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.argName("sample type")
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.build();
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static final Option OUTPUT_DESTINATION = Option.builder("o")
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.longOpt("OUTPUT_DESTINATION")
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.desc("Filename for the generated html output")
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.hasArg()
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.argName("file name")
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.build();
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static final Option EXTERNAL_BROWSER = Option.builder("b")
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.longOpt("EXTERNAL_BROWSER")
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.desc("Open the generated HTML output in a an external browser")
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.build();
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static final Option HELP = Option.builder("h")
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.longOpt("help")
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.desc("Print this help text")
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.build();
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/**
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* Assemble and return the available command line options.
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*
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* @return command line options.
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*/
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public static Options getCommandLineOptions() {
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Options options = new Options();
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options.addOption(STUDY_NUMBER);
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options.addOption(SAMPLE_TYPE);
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options.addOption(OUTPUT_DESTINATION);
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options.addOption(EXTERNAL_BROWSER);
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options.addOption(HELP);
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return options;
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}
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}
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@ -0,0 +1,47 @@
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package de.vanitasvitae.imi.codes;
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import java.util.regex.Pattern;
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public class InputValidator {
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// Allowed characters
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private static final String ALPHABET = "[a-zA-Z0-9]";
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/*
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REGEX pattern for study numbers. Allowed are all 3-letter numbers from the alphabet [a-zA-Z0-9].
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*/
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private static final Pattern STUDY_NUMBER_MATCHER = Pattern.compile(ALPHABET+"{3}");
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/*
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REGEX pattern for sample numbers. Allowed are four-letter numbers from the alphabet [a-zA-Z0-9].
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*/
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private static final Pattern SAMPLE_NUMBER_MATCHER = Pattern.compile(ALPHABET+"{4}");
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/**
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* Validate a given study number. Valid study numbers are 3-letter codes from the alphabet [a-zA-Z0-9].
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*
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* @param in input String
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* @return unmodified input String if it matches.
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* @throws IllegalArgumentException if the input String doesn't match the regex.
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*/
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public static String validateStudyNumber(String in) {
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if (!STUDY_NUMBER_MATCHER.matcher(in).matches()) {
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throw new IllegalArgumentException("Study number does not match REGEX.");
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}
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return in;
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}
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/**
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* Validate a given sample type. Valid types are found in {@link SampleType}.#
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*
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* @param in input String
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* @return parsed {@link SampleType}.
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*
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* @throws IllegalArgumentException if the given String doesn't match a {@link SampleType}.
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* @throws NullPointerException in case the given String is {@code null}.
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*/
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public static SampleType validateSampleType(String in) {
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return SampleType.valueOf(in);
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}
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}
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@ -0,0 +1,48 @@
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package de.vanitasvitae.imi.codes;
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import org.apache.commons.cli.CommandLine;
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import org.apache.commons.cli.CommandLineParser;
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import org.apache.commons.cli.DefaultParser;
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import org.apache.commons.cli.HelpFormatter;
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import org.apache.commons.cli.Options;
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import org.apache.commons.cli.ParseException;
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public class Main {
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private static final String NAME_JAR = "imicodes";
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private static final String HELP_HEADER = "Generate ID codes for sample tubes.";
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private static final String HELP_FOOTER = "\nAuthor: Paul Schaub <paul.schaub@wwu.de>";
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public static void main(String[] args) {
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Options options = Arguments.getCommandLineOptions();
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CommandLineParser parser = new DefaultParser();
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CommandLine arguments;
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try {
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arguments = parser.parse(options, args);
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} catch (ParseException e) {
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System.out.println(e.getMessage());
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printHelp(options);
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return;
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}
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if (arguments.hasOption(Arguments.HELP)) {
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printHelp(options);
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return;
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}
|
||||
}
|
||||
|
||||
/**
|
||||
* Print a descriptive help text to the console.
|
||||
*
|
||||
* @param options {@link Options} for which we want to print a help text.
|
||||
*/
|
||||
private static void printHelp(Options options) {
|
||||
HelpFormatter formatter = new HelpFormatter();
|
||||
|
||||
formatter.printHelp(NAME_JAR, HELP_HEADER, options, HELP_FOOTER, true);
|
||||
}
|
||||
|
||||
|
||||
}
|
||||
|
|
@ -0,0 +1,20 @@
|
|||
package de.vanitasvitae.imi.codes;
|
||||
|
||||
public enum SampleType {
|
||||
|
||||
b("Blood"),
|
||||
u("Urine"),
|
||||
;
|
||||
|
||||
// Members of the enum
|
||||
|
||||
private final String name;
|
||||
|
||||
SampleType(String name) {
|
||||
this.name = name;
|
||||
}
|
||||
|
||||
public String getName() {
|
||||
return name;
|
||||
}
|
||||
}
|
||||
Loading…
Reference in New Issue