ParserExperimentWrapper.qsub

#$ -cwd                         # run from current working directory
#$ -j y                         # join stderr to stdout
#$ -V                           # job has the same environment variables as the submission shell
#$ -l h_rt=48:00:00             # runtime limit
#$ -l mem_free=8G               # expected amount of mem
#$ -l num_proc=2                # how many processors to use
#$ -o logging                   # where to do logging
#$ -S /bin/bash
# -M twolfe18@gmail.com
# -m as                         # a=aborted b=begining e=end s=suspended

set -e

if [[ $# != 2 ]]; then
	echo "usage: $0 mode syntax-mode"
	exit 1
fi

mode=$1
syntaxMode=$2

workingDir=experiments/${mode}-${syntaxMode}/$SGE_TASK_ID

#cp="target/fnparse-1.0.0-SNAPSHOT.jar:target/fnparse-1.0.0-SNAPSHOT-jar-with-dependencies.jar"
cp=`find target -type f -name "*.jar" | tr '\n' ':'`
jvmOpts="-ea -Xmx7G -XX:ParallelGCThreads=2"

echo "${HOSTNAME}"
java -version
java -cp ${cp} ${jvmOpts} edu.jhu.hlt.fnparse.experiment.ParserTrainer \
	${mode} ${SGE_TASK_ID} ${workingDir} NA ${syntaxMode}