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Bash fixes for Mac (10.12) compatibility #250

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Bash fixes for Mac (10.12) compatibility #250

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36 changes: 30 additions & 6 deletions OWLTools-Runner/bin/owltools.script
100644 → 100755
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Original file line number Diff line number Diff line change
@@ -1,8 +1,22 @@
#!/bin/bash
# Path to this script/jar
PATH_TO_SELF=`which $0`
MY_NAME=`basename $0`
MY_DIR=`dirname $0`

IS_MAC="FALSE"
if uname | grep -iq Darwin; then
IS_MAC="TRUE"
fi

if [ $IS_MAC = "TRUE" ]
then
# Path to this script/jar
PATH_TO_SELF=`which "$0"`
MY_NAME=`basename "$0"`
MY_DIR=`dirname "$0"`
else
# Path to this script/jar
PATH_TO_SELF=`which $0`
MY_NAME=`basename $0`
MY_DIR=`dirname $0`
fi

# Add possibly existing java args from $MY_NAME.vmoptions file or env var
if [ -e "$PATH_TO_SELF.vmoptions" ]
Expand All @@ -21,14 +35,24 @@ fi
JAVA=`which java`

# full command
CMD="$JAVA -Xms2G $JVM_OPTIONS -DentityExmpansionLimit=4086000 -Djava.awt.headless=true -classpath $PATH_TO_SELF owltools.cli.CommandLineInterface"
if [ $IS_MAC = "TRUE" ]
then
CMD="$JAVA -Xms2G $JVM_OPTIONS -DentityExmpansionLimit=4086000 -Djava.awt.headless=true -classpath \"$MY_DIR/owltools-oort-all.jar:$MY_DIR/owltools-runner-all.jar\" owltools.cli.CommandLineInterface"
else
CMD="$JAVA -Xms2G $JVM_OPTIONS -DentityExmpansionLimit=4086000 -Djava.awt.headless=true -classpath $PATH_TO_SELF owltools.cli.CommandLineInterface"
fi

if [ $DEBUG ]
then
echo $CMD "$@"
fi

# Run
exec "$JAVA" -Xms2G $JVM_OPTIONS -DentityExmpansionLimit=4086000 -Djava.awt.headless=true -classpath $PATH_TO_SELF owltools.cli.CommandLineInterface "$@"
if [ $IS_MAC = "TRUE" ]
then
exec "$JAVA" -Xms2G $JVM_OPTIONS -DentityExmpansionLimit=4086000 -Djava.awt.headless=true -classpath "$MY_DIR/owltools-oort-all.jar:$MY_DIR/owltools-runner-all.jar" owltools.cli.CommandLineInterface "$@"
else
exec "$JAVA" -Xms2G $JVM_OPTIONS -DentityExmpansionLimit=4086000 -Djava.awt.headless=true -classpath $PATH_TO_SELF owltools.cli.CommandLineInterface "$@"
fi

exit 1