MASTER_IP=`ifconfig eth0 |grep "inet addr" |awk '{print $2}' |awk -F: '{print $2}'`

# full genome index
toil-vg index aws:us-west-2:glennhickey2-s3-jobstore aws:us-west-2:glennhickey2-out-store/yeast --chroms $(for i in I II III IV V VI VII VIII IX X XI XII XIII XIV XV XVI; do echo "S288c.chr${i}"; done) --graphs s3://cgl-pipeline-inputs/vg_cgl/cactus_yeast/cactus_yeast.vg  --config conf.yaml --realTimeLogging --logInfo --provisioner aws --batchSystem=mesos --mesosMaster=${MASTER_IP}:5050 --nodeTypes r3.8xlarge:0.85 --maxNodes 4  --skip_id_ranges --index_name cactus-YEAST --defaultPreemptable --logFile cactus-YEAST.log

sleep 100
toil-vg index aws:us-west-2:glennhickey2-s3-jobstore aws:us-west-2:glennhickey2-out-store/yeast --chroms $(for i in I II III IV V VI VII VIII IX X XI XII XIII XIV XV XVI; do echo "S288c.chr${i}"; done) --graphs s3://cgl-pipeline-inputs/vg_cgl/cactus_yeast/cactus_yeast_SK1.vg  --config conf.yaml --realTimeLogging --logInfo --provisioner aws --batchSystem=mesos --mesosMaster=${MASTER_IP}:5050 --nodeTypes r3.8xlarge:0.85 --maxNodes 4  --skip_id_ranges --index_name cactus_SK1-YEAST --defaultPreemptable --logFile cactus_SK1-YEAST.log

sleep 100
toil-vg index aws:us-west-2:glennhickey2-s3-jobstore aws:us-west-2:glennhickey2-out-store/yeast --chroms $(for i in I II III IV V VI VII VIII IX X XI XII XIII XIV XV XVI; do echo "S288c.chr${i}"; done) --graphs s3://cgl-pipeline-inputs/vg_cgl/cactus_yeast/cactus_yeast_S288c.vg  --config conf.yaml --realTimeLogging --logInfo --provisioner aws --batchSystem=mesos --mesosMaster=${MASTER_IP}:5050 --nodeTypes r3.8xlarge:0.85 --maxNodes 4  --skip_id_ranges --index_name cactus_S288c-YEAST --defaultPreemptable --logFile cactus_S288c-YEAST.log

sleep 100
toil-vg index aws:us-west-2:glennhickey2-s3-jobstore aws:us-west-2:glennhickey2-out-store/yeast --chroms $(for i in I II III IV V VI VII VIII IX X XI XII XIII XIV XV XVI; do echo "S288c.chr${i}"; done) --graphs s3://cgl-pipeline-inputs/vg_cgl/cactus_yeast/cactus_yeast_drop_SK1.vg  --config conf.yaml --realTimeLogging --logInfo --provisioner aws --batchSystem=mesos --mesosMaster=${MASTER_IP}:5050 --nodeTypes r3.8xlarge:0.85 --maxNodes 4 --skip_id_ranges --index_name cactus_drop_SK1-YEAST --defaultPreemptable --logFile cactus_drop_SK1-YEAST.log