diff --git a/bin/adam-submit b/bin/adam-submit index cd33c56163..2c9a156451 100755 --- a/bin/adam-submit +++ b/bin/adam-submit @@ -36,11 +36,11 @@ for ARG in "$@"; do done if [[ $DD == True ]]; then - SPARK_ARGS="${PRE_DD[@]}" - ADAM_ARGS="${POST_DD[@]}" + SPARK_ARGS=("${PRE_DD[@]}") + ADAM_ARGS=("${POST_DD[@]}") else SPARK_ARGS=() - ADAM_ARGS="${PRE_DD[@]}" + ADAM_ARGS=("${PRE_DD[@]}") fi # does the user have ADAM_OPTS set? if yes, then warn @@ -99,6 +99,6 @@ echo "Using SPARK_SUBMIT=$SPARK_SUBMIT" --class $ADAM_MAIN \ --conf spark.serializer=org.apache.spark.serializer.KryoSerializer \ --conf spark.kryo.registrator=org.bdgenomics.adam.serialization.ADAMKryoRegistrator \ - $SPARK_ARGS \ - $ADAM_CLI_JAR \ - $ADAM_ARGS + "${SPARK_ARGS[@]}" \ + "$ADAM_CLI_JAR" \ + "${ADAM_ARGS[@]}"