2019-11-14 20:58:08 Hail: WARN: This Hail JAR was compiled for Spark 2.4.0, running with Spark 2.4.4. Compatibility is not guaranteed. 2019-11-14 20:58:08 SparkContext: INFO: Running Spark version 2.4.4 2019-11-14 20:58:08 SparkContext: INFO: Submitted application: Hail 2019-11-14 20:58:08 SparkContext: INFO: Spark configuration: spark.app.name=Hail spark.driver.extraClassPath=/opt/conda/default/lib/python3.6/site-packages/hail/hail-all-spark.jar spark.driver.extraJavaOptions=-Xss4M spark.driver.maxResultSize=0 spark.driver.memory=41g spark.dynamicAllocation.enabled=true spark.dynamicAllocation.maxExecutors=10000 spark.dynamicAllocation.minExecutors=1 spark.eventLog.dir=hdfs://kc1-m/user/spark/eventlog spark.eventLog.enabled=true spark.executor-memory=25g spark.executor.cores=4 spark.executor.extraClassPath=./hail-all-spark.jar spark.executor.extraJavaOptions=-Xss4M spark.executor.instances=2 spark.executor.memory=18619m spark.executorEnv.OPENBLAS_NUM_THREADS=1 spark.executorEnv.PYTHONHASHSEED=0 spark.hadoop.hive.execution.engine=mr spark.hadoop.io.compression.codecs=org.apache.hadoop.io.compress.DefaultCodec,is.hail.io.compress.BGzipCodec,is.hail.io.compress.BGzipCodecTbi,org.apache.hadoop.io.compress.GzipCodec spark.hadoop.mapreduce.input.fileinputformat.split.minsize=0 spark.history.fs.logDirectory=hdfs://kc1-m/user/spark/eventlog spark.jars=file:/opt/conda/default/lib/python3.6/site-packages/hail/hail-all-spark.jar spark.kryo.registrator=is.hail.kryo.HailKryoRegistrator spark.kryoserializer.buffer.max=1g spark.logConf=true spark.master=yarn spark.repl.local.jars=file:///opt/conda/default/lib/python3.6/site-packages/hail/hail-all-spark.jar spark.rpc.message.maxSize=512 spark.scheduler.minRegisteredResourcesRatio=0.0 spark.scheduler.mode=FAIR spark.serializer=org.apache.spark.serializer.KryoSerializer spark.shuffle.service.enabled=true spark.speculation=true spark.speculation.multiplier=3 spark.speculation.quantile=0.9 spark.sql.cbo.enabled=true spark.sql.parquet.cacheMetadata=false spark.stage.maxConsecutiveAttempts=10 spark.submit.deployMode=client spark.submit.pyFiles=/tmp/886054216a824cd3997b4357a6ac75bd/pyscripts_u_9xu2oo.zip spark.task.maxFailures=20 spark.ui.showConsoleProgress=false spark.yarn.am.attemptFailuresValidityInterval=1h spark.yarn.am.memory=640m spark.yarn.dist.jars=file:///opt/conda/default/lib/python3.6/site-packages/hail/hail-all-spark.jar spark.yarn.dist.pyFiles=file:///tmp/886054216a824cd3997b4357a6ac75bd/pyscripts_u_9xu2oo.zip spark.yarn.executor.failuresValidityInterval=1h spark.yarn.historyServer.address=kc1-m:18080 spark.yarn.isPython=true spark.yarn.jars=local:/usr/lib/spark/jars/* spark.yarn.tags=dataproc_hash_2bb5d1b4-a2f3-31b7-8465-f26051778764,dataproc_job_886054216a824cd3997b4357a6ac75bd,dataproc_master_index_0,dataproc_uuid_940c6946-9345-38bd-a1fe-7dd8566d485c 2019-11-14 20:58:08 SecurityManager: INFO: Changing view acls to: root 2019-11-14 20:58:08 SecurityManager: INFO: Changing modify acls to: root 2019-11-14 20:58:08 SecurityManager: INFO: Changing view acls groups to: 2019-11-14 20:58:08 SecurityManager: INFO: Changing modify acls groups to: 2019-11-14 20:58:08 SecurityManager: INFO: SecurityManager: authentication disabled; ui acls disabled; users with view permissions: Set(root); groups with view permissions: Set(); users with modify permissions: Set(root); groups with modify permissions: Set() 2019-11-14 20:58:09 Utils: INFO: Successfully started service 'sparkDriver' on port 37299. 2019-11-14 20:58:09 SparkEnv: INFO: Registering MapOutputTracker 2019-11-14 20:58:09 SparkEnv: INFO: Registering BlockManagerMaster 2019-11-14 20:58:09 BlockManagerMasterEndpoint: INFO: Using org.apache.spark.storage.DefaultTopologyMapper for getting topology information 2019-11-14 20:58:09 BlockManagerMasterEndpoint: INFO: BlockManagerMasterEndpoint up 2019-11-14 20:58:09 DiskBlockManager: INFO: Created local directory at /hadoop/spark/tmp/blockmgr-99cc0576-91f9-4f1c-89a5-f3cfd74daa96 2019-11-14 20:58:09 MemoryStore: INFO: MemoryStore started with capacity 21.7 GB 2019-11-14 20:58:09 SparkEnv: INFO: Registering OutputCommitCoordinator 2019-11-14 20:58:09 log: INFO: Logging initialized @4455ms 2019-11-14 20:58:09 Server: INFO: jetty-9.3.z-SNAPSHOT, build timestamp: unknown, git hash: unknown 2019-11-14 20:58:09 Server: INFO: Started @4604ms 2019-11-14 20:58:09 Utils: WARN: Service 'SparkUI' could not bind on port 4040. Attempting port 4041. 2019-11-14 20:58:09 AbstractConnector: INFO: Started ServerConnector@2739b8e8{HTTP/1.1,[http/1.1]}{0.0.0.0:4041} 2019-11-14 20:58:09 Utils: INFO: Successfully started service 'SparkUI' on port 4041. 2019-11-14 20:58:09 ContextHandler: INFO: Started o.s.j.s.ServletContextHandler@6f687a89{/jobs,null,AVAILABLE,@Spark} 2019-11-14 20:58:09 ContextHandler: INFO: Started o.s.j.s.ServletContextHandler@3068e8d3{/jobs/json,null,AVAILABLE,@Spark} 2019-11-14 20:58:09 ContextHandler: INFO: Started o.s.j.s.ServletContextHandler@55fd0035{/jobs/job,null,AVAILABLE,@Spark} 2019-11-14 20:58:09 ContextHandler: INFO: Started o.s.j.s.ServletContextHandler@47a630fc{/jobs/job/json,null,AVAILABLE,@Spark} 2019-11-14 20:58:09 ContextHandler: INFO: Started o.s.j.s.ServletContextHandler@307f76ab{/stages,null,AVAILABLE,@Spark} 2019-11-14 20:58:09 ContextHandler: INFO: Started o.s.j.s.ServletContextHandler@dbe2439{/stages/json,null,AVAILABLE,@Spark} 2019-11-14 20:58:09 ContextHandler: INFO: Started o.s.j.s.ServletContextHandler@39141f9b{/stages/stage,null,AVAILABLE,@Spark} 2019-11-14 20:58:09 ContextHandler: INFO: Started o.s.j.s.ServletContextHandler@78a167a5{/stages/stage/json,null,AVAILABLE,@Spark} 2019-11-14 20:58:09 ContextHandler: INFO: Started o.s.j.s.ServletContextHandler@61d057ed{/stages/pool,null,AVAILABLE,@Spark} 2019-11-14 20:58:09 ContextHandler: INFO: Started o.s.j.s.ServletContextHandler@318f9503{/stages/pool/json,null,AVAILABLE,@Spark} 2019-11-14 20:58:09 ContextHandler: INFO: Started o.s.j.s.ServletContextHandler@25feb28e{/storage,null,AVAILABLE,@Spark} 2019-11-14 20:58:09 ContextHandler: INFO: Started o.s.j.s.ServletContextHandler@569175db{/storage/json,null,AVAILABLE,@Spark} 2019-11-14 20:58:09 ContextHandler: INFO: Started o.s.j.s.ServletContextHandler@351d2fdb{/storage/rdd,null,AVAILABLE,@Spark} 2019-11-14 20:58:09 ContextHandler: INFO: Started o.s.j.s.ServletContextHandler@78f793f6{/storage/rdd/json,null,AVAILABLE,@Spark} 2019-11-14 20:58:09 ContextHandler: INFO: Started o.s.j.s.ServletContextHandler@28cd34a4{/environment,null,AVAILABLE,@Spark} 2019-11-14 20:58:09 ContextHandler: INFO: Started o.s.j.s.ServletContextHandler@752fa3cb{/environment/json,null,AVAILABLE,@Spark} 2019-11-14 20:58:09 ContextHandler: INFO: Started o.s.j.s.ServletContextHandler@29102942{/executors,null,AVAILABLE,@Spark} 2019-11-14 20:58:09 ContextHandler: INFO: Started o.s.j.s.ServletContextHandler@6dbc77b5{/executors/json,null,AVAILABLE,@Spark} 2019-11-14 20:58:09 ContextHandler: INFO: Started o.s.j.s.ServletContextHandler@2c9506b2{/executors/threadDump,null,AVAILABLE,@Spark} 2019-11-14 20:58:09 ContextHandler: INFO: Started o.s.j.s.ServletContextHandler@242cc910{/executors/threadDump/json,null,AVAILABLE,@Spark} 2019-11-14 20:58:09 ContextHandler: INFO: Started o.s.j.s.ServletContextHandler@c5ebeee{/static,null,AVAILABLE,@Spark} 2019-11-14 20:58:09 ContextHandler: INFO: Started o.s.j.s.ServletContextHandler@6c7b26c8{/,null,AVAILABLE,@Spark} 2019-11-14 20:58:09 ContextHandler: INFO: Started o.s.j.s.ServletContextHandler@170d0e96{/api,null,AVAILABLE,@Spark} 2019-11-14 20:58:09 ContextHandler: INFO: Started o.s.j.s.ServletContextHandler@57a19d4{/jobs/job/kill,null,AVAILABLE,@Spark} 2019-11-14 20:58:09 ContextHandler: INFO: Started o.s.j.s.ServletContextHandler@c4453c7{/stages/stage/kill,null,AVAILABLE,@Spark} 2019-11-14 20:58:09 SparkUI: INFO: Bound SparkUI to 0.0.0.0, and started at http://kc1-m.c.maclab-ukbb.internal:4041 2019-11-14 20:58:09 SparkContext: INFO: Added JAR file:/opt/conda/default/lib/python3.6/site-packages/hail/hail-all-spark.jar at spark://kc1-m.c.maclab-ukbb.internal:37299/jars/hail-all-spark.jar with timestamp 1573765089713 2019-11-14 20:58:09 FairSchedulableBuilder: WARN: Fair Scheduler configuration file not found so jobs will be scheduled in FIFO order. To use fair scheduling, configure pools in fairscheduler.xml or set spark.scheduler.allocation.file to a file that contains the configuration. 2019-11-14 20:58:09 FairSchedulableBuilder: INFO: Created default pool: default, schedulingMode: FIFO, minShare: 0, weight: 1 2019-11-14 20:58:09 Utils: INFO: Using initial executors = 2, max of spark.dynamicAllocation.initialExecutors, spark.dynamicAllocation.minExecutors and spark.executor.instances 2019-11-14 20:58:10 RMProxy: INFO: Connecting to ResourceManager at kc1-m/10.128.0.15:8032 2019-11-14 20:58:10 AHSProxy: INFO: Connecting to Application History server at kc1-m/10.128.0.15:10200 2019-11-14 20:58:10 Client: INFO: Requesting a new application from cluster with 2 NodeManagers 2019-11-14 20:58:10 Client: INFO: Verifying our application has not requested more than the maximum memory capability of the cluster (40960 MB per container) 2019-11-14 20:58:10 Client: INFO: Will allocate AM container, with 1024 MB memory including 384 MB overhead 2019-11-14 20:58:10 Client: INFO: Setting up container launch context for our AM 2019-11-14 20:58:10 Client: INFO: Setting up the launch environment for our AM container 2019-11-14 20:58:10 Client: INFO: Preparing resources for our AM container 2019-11-14 20:58:10 Client: INFO: Uploading resource file:/opt/conda/default/lib/python3.6/site-packages/hail/hail-all-spark.jar -> hdfs://kc1-m/user/root/.sparkStaging/application_1573763960059_0005/hail-all-spark.jar 2019-11-14 20:58:10 Client: INFO: Uploading resource file:/usr/lib/spark/python/lib/pyspark.zip -> hdfs://kc1-m/user/root/.sparkStaging/application_1573763960059_0005/pyspark.zip 2019-11-14 20:58:10 Client: INFO: Uploading resource file:/usr/lib/spark/python/lib/py4j-0.10.7-src.zip -> hdfs://kc1-m/user/root/.sparkStaging/application_1573763960059_0005/py4j-0.10.7-src.zip 2019-11-14 20:58:11 Client: INFO: Uploading resource file:/tmp/886054216a824cd3997b4357a6ac75bd/pyscripts_u_9xu2oo.zip -> hdfs://kc1-m/user/root/.sparkStaging/application_1573763960059_0005/pyscripts_u_9xu2oo.zip 2019-11-14 20:58:11 Client: INFO: Uploading resource file:/hadoop/spark/tmp/spark-3ecfcb5f-dcc7-4663-9f4e-06a9783f70e7/__spark_conf__8819724016861369921.zip -> hdfs://kc1-m/user/root/.sparkStaging/application_1573763960059_0005/__spark_conf__.zip 2019-11-14 20:58:12 SecurityManager: INFO: Changing view acls to: root 2019-11-14 20:58:12 SecurityManager: INFO: Changing modify acls to: root 2019-11-14 20:58:12 SecurityManager: INFO: Changing view acls groups to: 2019-11-14 20:58:12 SecurityManager: INFO: Changing modify acls groups to: 2019-11-14 20:58:12 SecurityManager: INFO: SecurityManager: authentication disabled; ui acls disabled; users with view permissions: Set(root); groups with view permissions: Set(); users with modify permissions: Set(root); groups with modify permissions: Set() 2019-11-14 20:58:13 Client: INFO: Submitting application application_1573763960059_0005 to ResourceManager 2019-11-14 20:58:13 YarnClientImpl: INFO: Submitted application application_1573763960059_0005 2019-11-14 20:58:13 SchedulerExtensionServices: INFO: Starting Yarn extension services with app application_1573763960059_0005 and attemptId None 2019-11-14 20:58:14 Client: INFO: Application report for application_1573763960059_0005 (state: ACCEPTED) 2019-11-14 20:58:14 Client: INFO: client token: N/A diagnostics: AM container is launched, waiting for AM container to Register with RM ApplicationMaster host: N/A ApplicationMaster RPC port: -1 queue: default start time: 1573765093451 final status: UNDEFINED tracking URL: http://kc1-m:8088/proxy/application_1573763960059_0005/ user: root 2019-11-14 20:58:15 Client: INFO: Application report for application_1573763960059_0005 (state: ACCEPTED) 2019-11-14 20:58:16 Client: INFO: Application report for application_1573763960059_0005 (state: RUNNING) 2019-11-14 20:58:16 Client: INFO: client token: N/A diagnostics: N/A ApplicationMaster host: 10.128.0.6 ApplicationMaster RPC port: -1 queue: default start time: 1573765093451 final status: UNDEFINED tracking URL: http://kc1-m:8088/proxy/application_1573763960059_0005/ user: root 2019-11-14 20:58:16 YarnClientSchedulerBackend: INFO: Application application_1573763960059_0005 has started running. 2019-11-14 20:58:16 YarnScheduler: INFO: Starting speculative execution thread 2019-11-14 20:58:16 Utils: INFO: Successfully started service 'org.apache.spark.network.netty.NettyBlockTransferService' on port 33975. 2019-11-14 20:58:16 NettyBlockTransferService: INFO: Server created on kc1-m.c.maclab-ukbb.internal:33975 2019-11-14 20:58:16 BlockManager: INFO: Using org.apache.spark.storage.RandomBlockReplicationPolicy for block replication policy 2019-11-14 20:58:16 BlockManagerMaster: INFO: Registering BlockManager BlockManagerId(driver, kc1-m.c.maclab-ukbb.internal, 33975, None) 2019-11-14 20:58:16 YarnClientSchedulerBackend: INFO: Add WebUI Filter. org.apache.hadoop.yarn.server.webproxy.amfilter.AmIpFilter, Map(PROXY_HOSTS -> kc1-m, PROXY_URI_BASES -> http://kc1-m:8088/proxy/application_1573763960059_0005), /proxy/application_1573763960059_0005 2019-11-14 20:58:16 BlockManagerMasterEndpoint: INFO: Registering block manager kc1-m.c.maclab-ukbb.internal:33975 with 21.7 GB RAM, BlockManagerId(driver, kc1-m.c.maclab-ukbb.internal, 33975, None) 2019-11-14 20:58:16 JettyUtils: INFO: Adding filter org.apache.hadoop.yarn.server.webproxy.amfilter.AmIpFilter to /jobs, /jobs/json, /jobs/job, /jobs/job/json, /stages, /stages/json, /stages/stage, /stages/stage/json, /stages/pool, /stages/pool/json, /storage, /storage/json, /storage/rdd, /storage/rdd/json, /environment, /environment/json, /executors, /executors/json, /executors/threadDump, /executors/threadDump/json, /static, /, /api, /jobs/job/kill, /stages/stage/kill. 2019-11-14 20:58:16 BlockManagerMaster: INFO: Registered BlockManager BlockManagerId(driver, kc1-m.c.maclab-ukbb.internal, 33975, None) 2019-11-14 20:58:16 BlockManager: INFO: external shuffle service port = 7337 2019-11-14 20:58:16 BlockManager: INFO: Initialized BlockManager: BlockManagerId(driver, kc1-m.c.maclab-ukbb.internal, 33975, None) 2019-11-14 20:58:16 YarnSchedulerBackend$YarnSchedulerEndpoint: INFO: ApplicationMaster registered as NettyRpcEndpointRef(spark-client://YarnAM) 2019-11-14 20:58:16 JettyUtils: INFO: Adding filter org.apache.hadoop.yarn.server.webproxy.amfilter.AmIpFilter to /metrics/json. 2019-11-14 20:58:16 ContextHandler: INFO: Started o.s.j.s.ServletContextHandler@826c84e{/metrics/json,null,AVAILABLE,@Spark} 2019-11-14 20:58:16 EventLoggingListener: INFO: Logging events to hdfs://kc1-m/user/spark/eventlog/application_1573763960059_0005 2019-11-14 20:58:16 Utils: INFO: Using initial executors = 2, max of spark.dynamicAllocation.initialExecutors, spark.dynamicAllocation.minExecutors and spark.executor.instances 2019-11-14 20:58:16 YarnClientSchedulerBackend: INFO: SchedulerBackend is ready for scheduling beginning after reached minRegisteredResourcesRatio: 0.0 2019-11-14 20:58:16 Hail: INFO: Hail temporary directory: hdfs://kc1-m/tmp/hail.7al8WG6g2kqY 2019-11-14 20:58:16 Hail: INFO: SparkUI: http://kc1-m.c.maclab-ukbb.internal:4041 2019-11-14 20:58:16 Hail: INFO: Running Hail version 0.2.26-228d3a30149b 2019-11-14 20:58:17 SparkContext: WARN: Using an existing SparkContext; some configuration may not take effect. 2019-11-14 20:58:18 ZlibFactory: INFO: Successfully loaded & initialized native-zlib library 2019-11-14 20:58:18 CodecPool: INFO: Got brand-new decompressor [.gz] 2019-11-14 20:58:19 MemoryStore: INFO: Block broadcast_0 stored as values in memory (estimated size 2.2 MB, free 21.7 GB) 2019-11-14 20:58:20 MemoryStore: INFO: Block broadcast_0_piece0 stored as bytes in memory (estimated size 108.4 KB, free 21.7 GB) 2019-11-14 20:58:20 BlockManagerInfo: INFO: Added broadcast_0_piece0 in memory on kc1-m.c.maclab-ukbb.internal:33975 (size: 108.4 KB, free: 21.7 GB) 2019-11-14 20:58:20 SparkContext: INFO: Created broadcast 0 from broadcast at SparkBackend.scala:21 2019-11-14 20:58:20 YarnSchedulerBackend$YarnDriverEndpoint: INFO: Registered executor NettyRpcEndpointRef(spark-client://Executor) (10.128.0.34:53990) with ID 1 2019-11-14 20:58:20 ExecutorAllocationManager: INFO: New executor 1 has registered (new total is 1) 2019-11-14 20:58:20 root: INFO: RegionPool: initialized for thread 19: Thread-6 2019-11-14 20:58:20 BlockManagerMasterEndpoint: INFO: Registering block manager kc1-w-0.c.maclab-ukbb.internal:35793 with 9.5 GB RAM, BlockManagerId(1, kc1-w-0.c.maclab-ukbb.internal, 35793, None) 2019-11-14 20:58:20 root: INFO: optimize (initial optimization): before: IR size 4: (MakeArray Array[Interval[Locus(GRCh38)]] (ApplySpecial LocusInterval Interval[Locus(GRCh38)] (Str "chr20") (False))) 2019-11-14 20:58:20 root: INFO: instruction count: 3: is/hail/codegen/generated/C0. 2019-11-14 20:58:20 root: INFO: instruction count: 41: is/hail/codegen/generated/C0.apply 2019-11-14 20:58:20 root: INFO: instruction count: 16: is/hail/codegen/generated/C0.apply 2019-11-14 20:58:20 root: INFO: instruction count: 319: is/hail/codegen/generated/C0.m1_method 2019-11-14 20:58:20 root: INFO: instruction count: 14: is/hail/codegen/generated/C0.setPartitionIndex 2019-11-14 20:58:20 root: INFO: instruction count: 6: is/hail/codegen/generated/C0.addPartitionRegion 2019-11-14 20:58:20 MemoryStore: INFO: Block broadcast_1 stored as values in memory (estimated size 2.2 MB, free 21.7 GB) 2019-11-14 20:58:20 MemoryStore: INFO: Block broadcast_1_piece0 stored as bytes in memory (estimated size 108.4 KB, free 21.7 GB) 2019-11-14 20:58:20 BlockManagerInfo: INFO: Added broadcast_1_piece0 in memory on kc1-m.c.maclab-ukbb.internal:33975 (size: 108.4 KB, free: 21.7 GB) 2019-11-14 20:58:20 SparkContext: INFO: Created broadcast 1 from broadcast at SparkBackend.scala:21 2019-11-14 20:58:20 root: INFO: optimize (initial optimization): after: IR size 1: (Literal Array[Interval[Locus(GRCh38)]] ) 2019-11-14 20:58:20 root: INFO: optimize (lower matrix to table, after): before: IR size 1: (Literal Array[Interval[Locus(GRCh38)]] ) 2019-11-14 20:58:20 root: INFO: optimize (lower matrix to table, after): after: IR size 1: (Literal Array[Interval[Locus(GRCh38)]] ) 2019-11-14 20:58:20 root: INFO: optimize (interpret non compilable, after): before: IR size 1: (Literal Array[Interval[Locus(GRCh38)]] ) 2019-11-14 20:58:20 root: INFO: optimize (interpret non compilable, after): after: IR size 1: (Literal Array[Interval[Locus(GRCh38)]] ) 2019-11-14 20:58:20 root: INFO: instruction count: 3: is/hail/codegen/generated/C_etypeEncode_2. 2019-11-14 20:58:20 root: INFO: instruction count: 7: is/hail/codegen/generated/C_etypeEncode_2.apply 2019-11-14 20:58:20 root: INFO: instruction count: 11: is/hail/codegen/generated/C_etypeEncode_2.m0_ENCODE_o_tuple_of_o_array_of_o_interval_of_o_locusEND_TO_o_struct_of_o_array_of_o_struct_of_o_struct_of_r_binaryANDr_int32ENDANDo_struct_of_r_binaryANDr_int32ENDANDr_boolANDr_boolENDEND 2019-11-14 20:58:20 root: INFO: instruction count: 21: is/hail/codegen/generated/C_etypeEncode_2.m1_write_fields_group_0 2019-11-14 20:58:20 root: INFO: instruction count: 76: is/hail/codegen/generated/C_etypeEncode_2.m2_ENCODE_o_array_of_o_tuple_of_o_tuple_of_r_binaryANDr_int32ENDANDo_tuple_of_r_binaryANDr_int32ENDANDr_boolANDr_boolEND_TO_o_array_of_o_struct_of_o_struct_of_r_binaryANDr_int32ENDANDo_struct_of_r_binaryANDr_int32ENDANDr_boolANDr_boolEND 2019-11-14 20:58:20 root: INFO: instruction count: 11: is/hail/codegen/generated/C_etypeEncode_2.m3_ENCODE_o_tuple_of_o_tuple_of_r_binaryANDr_int32ENDANDo_tuple_of_r_binaryANDr_int32ENDANDr_boolANDr_boolEND_TO_o_struct_of_o_struct_of_r_binaryANDr_int32ENDANDo_struct_of_r_binaryANDr_int32ENDANDr_boolANDr_boolEND 2019-11-14 20:58:20 root: INFO: instruction count: 65: is/hail/codegen/generated/C_etypeEncode_2.m4_write_fields_group_0 2019-11-14 20:58:20 root: INFO: instruction count: 11: is/hail/codegen/generated/C_etypeEncode_2.m5_ENCODE_o_tuple_of_r_binaryANDr_int32END_TO_o_struct_of_r_binaryANDr_int32END 2019-11-14 20:58:20 root: INFO: instruction count: 33: is/hail/codegen/generated/C_etypeEncode_2.m6_write_fields_group_0 2019-11-14 20:58:20 root: INFO: instruction count: 16: is/hail/codegen/generated/C_etypeEncode_2.m7_ENCODE_r_binary_TO_r_binary 2019-11-14 20:58:20 root: INFO: instruction count: 6: is/hail/codegen/generated/C_etypeEncode_2.m8_ENCODE_r_int32_TO_r_int32 2019-11-14 20:58:20 root: INFO: instruction count: 6: is/hail/codegen/generated/C_etypeEncode_2.m9_ENCODE_r_bool_TO_r_bool 2019-11-14 20:58:20 MemoryStore: INFO: Block broadcast_2 stored as values in memory (estimated size 104.0 B, free 21.7 GB) 2019-11-14 20:58:20 MemoryStore: INFO: Block broadcast_2_piece0 stored as bytes in memory (estimated size 81.0 B, free 21.7 GB) 2019-11-14 20:58:20 BlockManagerInfo: INFO: Added broadcast_2_piece0 in memory on kc1-m.c.maclab-ukbb.internal:33975 (size: 81.0 B, free: 21.7 GB) 2019-11-14 20:58:20 SparkContext: INFO: Created broadcast 2 from broadcast at SparkBackend.scala:21 2019-11-14 20:58:20 root: INFO: instruction count: 3: is/hail/codegen/generated/C1. 2019-11-14 20:58:20 root: INFO: instruction count: 54: is/hail/codegen/generated/C1.apply 2019-11-14 20:58:20 root: INFO: instruction count: 10: is/hail/codegen/generated/C1.apply 2019-11-14 20:58:20 root: INFO: instruction count: 14: is/hail/codegen/generated/C1.setPartitionIndex 2019-11-14 20:58:20 root: INFO: instruction count: 6: is/hail/codegen/generated/C1.addPartitionRegion 2019-11-14 20:58:20 root: INFO: instruction count: 27: is/hail/codegen/generated/C1.m3_DECODE_o_struct_of_o_array_of_o_struct_of_o_struct_of_r_binaryANDr_int32ENDANDo_struct_of_r_binaryANDr_int32ENDANDr_boolANDr_boolENDEND_TO_o_tuple_of_o_array_of_o_interval_of_o_locusEND 2019-11-14 20:58:20 root: INFO: instruction count: 28: is/hail/codegen/generated/C1.m4_read_fields_group_0 2019-11-14 20:58:20 root: INFO: instruction count: 99: is/hail/codegen/generated/C1.m5_INPLACE_DECODE_o_array_of_o_struct_of_o_struct_of_r_binaryANDr_int32ENDANDo_struct_of_r_binaryANDr_int32ENDANDr_boolANDr_boolEND_TO_o_array_of_o_tuple_of_o_tuple_of_r_binaryANDr_int32ENDANDo_tuple_of_r_binaryANDr_int32ENDANDr_boolANDr_boolEND 2019-11-14 20:58:20 root: INFO: instruction count: 21: is/hail/codegen/generated/C1.m6_INPLACE_DECODE_o_struct_of_o_struct_of_r_binaryANDr_int32ENDANDo_struct_of_r_binaryANDr_int32ENDANDr_boolANDr_boolEND_TO_o_tuple_of_o_tuple_of_r_binaryANDr_int32ENDANDo_tuple_of_r_binaryANDr_int32ENDANDr_boolANDr_boolEND 2019-11-14 20:58:20 root: INFO: instruction count: 67: is/hail/codegen/generated/C1.m7_read_fields_group_0 2019-11-14 20:58:20 root: INFO: instruction count: 14: is/hail/codegen/generated/C1.m8_INPLACE_DECODE_o_struct_of_r_binaryANDr_int32END_TO_o_tuple_of_r_binaryANDr_int32END 2019-11-14 20:58:20 root: INFO: instruction count: 17: is/hail/codegen/generated/C1.m9_read_fields_group_0 2019-11-14 20:58:20 root: INFO: instruction count: 29: is/hail/codegen/generated/C1.m10_INPLACE_DECODE_r_binary_TO_r_binary 2019-11-14 20:58:20 root: INFO: instruction count: 8: is/hail/codegen/generated/C1.m11_INPLACE_DECODE_r_int32_TO_r_int32 2019-11-14 20:58:20 root: INFO: instruction count: 8: is/hail/codegen/generated/C1.m12_INPLACE_DECODE_r_bool_TO_r_bool 2019-11-14 20:58:20 root: INFO: instruction count: 30: is/hail/codegen/generated/C1.addLiterals 2019-11-14 20:58:20 root: INFO: Time taken for CompileAndEvaluate.compile: 111.338ms 2019-11-14 20:58:20 root: INFO: Time taken for create compiled function: 10.511ms 2019-11-14 20:58:20 root: INFO: Time taken for run compiled function: 0.029ms 2019-11-14 20:58:20 root: INFO: Time taken for convert to safe value: 1.906ms 2019-11-14 20:58:21 YarnSchedulerBackend$YarnDriverEndpoint: INFO: Registered executor NettyRpcEndpointRef(spark-client://Executor) (10.128.0.34:53996) with ID 2 2019-11-14 20:58:21 ExecutorAllocationManager: INFO: New executor 2 has registered (new total is 2) 2019-11-14 20:58:21 BlockManagerMasterEndpoint: INFO: Registering block manager kc1-w-0.c.maclab-ukbb.internal:41051 with 9.5 GB RAM, BlockManagerId(2, kc1-w-0.c.maclab-ukbb.internal, 41051, None) 2019-11-14 20:58:21 root: INFO: optimize (initial optimization): before: IR size 588: (GetField rows (TableCollect (TableHead 11 (TableMapRows (TableMapRows (TableOrderBy (Alocus Aalleles) (MatrixRowsTable (MatrixFilterIntervals "[{\"start\":{\"locus\":{\"contig\":\"chr20\",\"position\":1}},\"end\":{\"locus\":{\"contig\":\"chr20\",\"position\":64444167}},\"includeStart\":true,\"includeEnd\":true}]" True (MatrixRead None False False "{\"name\":\"MatrixNativeReader\",\"path\":\"gs://broad-ukbb/broad.freeze_4/hardcalls/hardcalls.split.mt\",\"_spec\":null}")))) (Let __uid_4 (GetField info (Ref row)) (Let __uid_3 (Ref row) (InsertFields (SelectFields () (SelectFields (locus alleles rsid qual filters info a_index was_split) (Ref row))) None (locus (GetField locus (Ref __uid_3))) (alleles (GetField alleles (Ref __uid_3))) (rsid (GetField rsid (Ref __uid_3))) (qual (GetField qual (Ref __uid_3))) (filters (GetField filters (Ref __uid_3))) (`info.AC` (GetField AC (Ref __uid_4))) (`info.AF` (GetField AF (Ref __uid_4))) (`info.AN` (GetField AN (Ref __uid_4))) (`info.BaseQRankSum` (GetField BaseQRankSum (Ref __uid_4))) (`info.DB` (GetField DB (Ref __uid_4))) (`info.DP` (GetField DP (Ref __uid_4))) (`info.FS` (GetField FS (Ref __uid_4))) (`info.MQ` (GetField MQ (Ref __uid_4))) (`info.MQRankSum` (GetField MQRankSum (Ref __uid_4))) (`info.MQ_DP` (GetField MQ_DP (Ref __uid_4))) (`info.QD` (GetField QD (Ref __uid_4))) (`info.ReadPosRankSum` (GetField ReadPosRankSum (Ref __uid_4))) (`info.SOR` (GetField SOR (Ref __uid_4))) (`info.VarDP` (GetField VarDP (Ref __uid_4))) (a_index (GetField a_index (Ref __uid_3))) (was_split (GetField was_split (Ref __uid_3))))))) (InsertFields (SelectFields () (SelectFields (locus alleles rsid qual filters `info.AC` `info.AF` `info.AN` `info.BaseQRankSum` `info.DB` `info.DP` `info.FS` `info.MQ` `info.MQRankSum` `info.MQ_DP` `info.QD` `info.ReadPosRankSum` `info.SOR` `info.VarDP` a_index was_split) (Ref row))) None (locus (Let __uid_5 (If (ApplyUnaryPrimOp Bang (IsNA (GetField locus (Ref row)))) (Apply str String (GetField locus (Ref row))) (Str "NA")) (If (ApplyComparisonOp GT (Apply length Int32 (Ref __uid_5)) (I32 76)) (Apply `+` String (ApplyIR `[:*]` String (Ref __uid_5) (I32 73)) (Str "...")) (Ref __uid_5)))) (alleles (Let __uid_7 (If (ApplyUnaryPrimOp Bang (IsNA (GetField alleles (Ref row)))) (Apply `+` String (Apply `+` String (Str "[") (Apply mkString String (ArrayMap __uid_6 (GetField alleles (Ref row)) (If (ApplyUnaryPrimOp Bang (IsNA (Ref __uid_6))) (Apply `+` String (Apply `+` String (Str "\"") (Apply escapeString String (Ref __uid_6))) (Str "\"")) (Str "NA"))) (Str ","))) (Str "]")) (Str "NA")) (If (ApplyComparisonOp GT (Apply length Int32 (Ref __uid_7)) (I32 76)) (Apply `+` String (ApplyIR `[:*]` String (Ref __uid_7) (I32 73)) (Str "...")) (Ref __uid_7)))) (rsid (Let __uid_8 (If (ApplyUnaryPrimOp Bang (IsNA (GetField rsid (Ref row)))) (Apply `+` String (Apply `+` String (Str "\"") (Apply escapeString String (GetField rsid (Ref row)))) (Str "\"")) (Str "NA")) (If (ApplyComparisonOp GT (Apply length Int32 (Ref __uid_8)) (I32 76)) (Apply `+` String (ApplyIR `[:*]` String (Ref __uid_8) (I32 73)) (Str "...")) (Ref __uid_8)))) (qual (Let __uid_9 (If (ApplyUnaryPrimOp Bang (IsNA (GetField qual (Ref row)))) (Apply format String (Str "%.2e") (MakeTuple (0) (GetField qual (Ref row)))) (Str "NA")) (If (ApplyComparisonOp GT (Apply length Int32 (Ref __uid_9)) (I32 76)) (Apply `+` String (ApplyIR `[:*]` String (Ref __uid_9) (I32 73)) (Str "...")) (Ref __uid_9)))) (filters (Let __uid_11 (If (ApplyUnaryPrimOp Bang (IsNA (GetField filters (Ref row)))) (Apply `+` String (Apply `+` String (Str "{") (Apply mkString String (ArrayMap __uid_10 (ToArray (GetField filters (Ref row))) (If (ApplyUnaryPrimOp Bang (IsNA (Ref __uid_10))) (Apply `+` String (Apply `+` String (Str "\"") (Apply escapeString String (Ref __uid_10))) (Str "\"")) (Str "NA"))) (Str ","))) (Str "}")) (Str "NA")) (If (ApplyComparisonOp GT (Apply length Int32 (Ref __uid_11)) (I32 76)) (Apply `+` String (ApplyIR `[:*]` String (Ref __uid_11) (I32 73)) (Str "...")) (Ref __uid_11)))) (`info.AC` (Let __uid_13 (If (ApplyUnaryPrimOp Bang (IsNA (GetField `info.AC` (Ref row)))) (Apply `+` String (Apply `+` String (Str "[") (Apply mkString String (ArrayMap __uid_12 (GetField `info.AC` (Ref row)) (If (ApplyUnaryPrimOp Bang (IsNA (Ref __uid_12))) (Apply str String (Ref __uid_12)) (Str "NA"))) (Str ","))) (Str "]")) (Str "NA")) (If (ApplyComparisonOp GT (Apply length Int32 (Ref __uid_13)) (I32 76)) (Apply `+` String (ApplyIR `[:*]` String (Ref __uid_13) (I32 73)) (Str "...")) (Ref __uid_13)))) (`info.AF` (Let __uid_15 (If (ApplyUnaryPrimOp Bang (IsNA (GetField `info.AF` (Ref row)))) (Apply `+` String (Apply `+` String (Str "[") (Apply mkString String (ArrayMap __uid_14 (GetField `info.AF` (Ref row)) (If (ApplyUnaryPrimOp Bang (IsNA (Ref __uid_14))) (Apply format String (Str "%.2e") (MakeTuple (0) (Ref __uid_14))) (Str "NA"))) (Str ","))) (Str "]")) (Str "NA")) (If (ApplyComparisonOp GT (Apply length Int32 (Ref __uid_15)) (I32 76)) (Apply `+` String (ApplyIR `[:*]` String (Ref __uid_15) (I32 73)) (Str "...")) (Ref __uid_15)))) (`info.AN` (Let __uid_16 (If (ApplyUnaryPrimOp Bang (IsNA (GetField `info.AN` (Ref row)))) (Apply str String (GetField `info.AN` (Ref row))) (Str "NA")) (If (ApplyComparisonOp GT (Apply length Int32 (Ref __uid_16)) (I32 76)) (Apply `+` String (ApplyIR `[:*]` String (Ref __uid_16) (I32 73)) (Str "...")) (Ref __uid_16)))) (`info.BaseQRankSum` (Let __uid_17 (If (ApplyUnaryPrimOp Bang (IsNA (GetField `info.BaseQRankSum` (Ref row)))) (Apply format String (Str "%.2e") (MakeTuple (0) (GetField `info.BaseQRankSum` (Ref row)))) (Str "NA")) (If (ApplyComparisonOp GT (Apply length Int32 (Ref __uid_17)) (I32 76)) (Apply `+` String (ApplyIR `[:*]` String (Ref __uid_17) (I32 73)) (Str "...")) (Ref __uid_17)))) (`info.DB` (Let __uid_18 (If (ApplyUnaryPrimOp Bang (IsNA (GetField `info.DB` (Ref row)))) (Apply str String (GetField `info.DB` (Ref row))) (Str "NA")) (If (ApplyComparisonOp GT (Apply length Int32 (Ref __uid_18)) (I32 76)) (Apply `+` String (ApplyIR `[:*]` String (Ref __uid_18) (I32 73)) (Str "...")) (Ref __uid_18)))) (`info.DP` (Let __uid_19 (If (ApplyUnaryPrimOp Bang (IsNA (GetField `info.DP` (Ref row)))) (Apply str String (GetField `info.DP` (Ref row))) (Str "NA")) (If (ApplyComparisonOp GT (Apply length Int32 (Ref __uid_19)) (I32 76)) (Apply `+` String (ApplyIR `[:*]` String (Ref __uid_19) (I32 73)) (Str "...")) (Ref __uid_19)))) (`info.FS` (Let __uid_20 (If (ApplyUnaryPrimOp Bang (IsNA (GetField `info.FS` (Ref row)))) (Apply format String (Str "%.2e") (MakeTuple (0) (GetField `info.FS` (Ref row)))) (Str "NA")) (If (ApplyComparisonOp GT (Apply length Int32 (Ref __uid_20)) (I32 76)) (Apply `+` String (ApplyIR `[:*]` String (Ref __uid_20) (I32 73)) (Str "...")) (Ref __uid_20)))) (`info.MQ` (Let __uid_21 (If (ApplyUnaryPrimOp Bang (IsNA (GetField `info.MQ` (Ref row)))) (Apply format String (Str "%.2e") (MakeTuple (0) (GetField `info.MQ` (Ref row)))) (Str "NA")) (If (ApplyComparisonOp GT (Apply length Int32 (Ref __uid_21)) (I32 76)) (Apply `+` String (ApplyIR `[:*]` String (Ref __uid_21) (I32 73)) (Str "...")) (Ref __uid_21)))) (`info.MQRankSum` (Let __uid_22 (If (ApplyUnaryPrimOp Bang (IsNA (GetField `info.MQRankSum` (Ref row)))) (Apply format String (Str "%.2e") (MakeTuple (0) (GetField `info.MQRankSum` (Ref row)))) (Str "NA")) (If (ApplyComparisonOp GT (Apply length Int32 (Ref __uid_22)) (I32 76)) (Apply `+` String (ApplyIR `[:*]` String (Ref __uid_22) (I32 73)) (Str "...")) (Ref __uid_22)))) (`info.MQ_DP` (Let __uid_23 (If (ApplyUnaryPrimOp Bang (IsNA (GetField `info.MQ_DP` (Ref row)))) (Apply str String (GetField `info.MQ_DP` (Ref row))) (Str "NA")) (If (ApplyComparisonOp GT (Apply length Int32 (Ref __uid_23)) (I32 76)) (Apply `+` String (ApplyIR `[:*]` String (Ref __uid_23) (I32 73)) (Str "...")) (Ref __uid_23)))) (`info.QD` (Let __uid_24 (If (ApplyUnaryPrimOp Bang (IsNA (GetField `info.QD` (Ref row)))) (Apply format String (Str "%.2e") (MakeTuple (0) (GetField `info.QD` (Ref row)))) (Str "NA")) (If (ApplyComparisonOp GT (Apply length Int32 (Ref __uid_24)) (I32 76)) (Apply `+` String (ApplyIR `[:*]` String (Ref __uid_24) (I32 73)) (Str "...")) (Ref __uid_24)))) (`info.ReadPosRankSum` (Let __uid_25 (If (ApplyUnaryPrimOp Bang (IsNA (GetField `info.ReadPosRankSum` (Ref row)))) (Apply format String (Str "%.2e") (MakeTuple (0) (GetField `info.ReadPosRankSum` (Ref row)))) (Str "NA")) (If (ApplyComparisonOp GT (Apply length Int32 (Ref __uid_25)) (I32 76)) (Apply `+` String (ApplyIR `[:*]` String (Ref __uid_25) (I32 73)) (Str "...")) (Ref __uid_25)))) (`info.SOR` (Let __uid_26 (If (ApplyUnaryPrimOp Bang (IsNA (GetField `info.SOR` (Ref row)))) (Apply format String (Str "%.2e") (MakeTuple (0) (GetField `info.SOR` (Ref row)))) (Str "NA")) (If (ApplyComparisonOp GT (Apply length Int32 (Ref __uid_26)) (I32 76)) (Apply `+` String (ApplyIR `[:*]` String (Ref __uid_26) (I32 73)) (Str "...")) (Ref __uid_26)))) (`info.VarDP` (Let __uid_27 (If (ApplyUnaryPrimOp Bang (IsNA (GetField `info.VarDP` (Ref row)))) (Apply str String (GetField `info.VarDP` (Ref row))) (Str "NA")) (If (ApplyComparisonOp GT (Apply length Int32 (Ref __uid_27)) (I32 76)) (Apply `+` String (ApplyIR `[:*]` String (Ref __uid_27) (I32 73)) (Str "...")) (Ref __uid_27)))) (a_index (Let __uid_28 (If (ApplyUnaryPrimOp Bang (IsNA (GetField a_index (Ref row)))) (Apply str String (GetField a_index (Ref row))) (Str "NA")) (If (ApplyComparisonOp GT (Apply length Int32 (Ref __uid_28)) (I32 76)) (Apply `+` String (ApplyIR `[:*]` String (Ref __uid_28) (I32 73)) (Str "...")) (Ref __uid_28)))) (was_split (Let __uid_29 (If (ApplyUnaryPrimOp Bang (IsNA (GetField was_split (Ref row)))) (Apply str String (GetField was_split (Ref row))) (Str "NA")) (If (ApplyComparisonOp GT (Apply length Int32 (Ref __uid_29)) (I32 76)) (Apply `+` String (ApplyIR `[:*]` String (Ref __uid_29) (I32 73)) (Str "...")) (Ref __uid_29))))))))) 2019-11-14 20:58:21 root: INFO: optimize (initial optimization): after: IR size 555: (GetField rows (TableCollect (TableMapRows (TableHead 11 (TableOrderBy (Alocus Aalleles) (MatrixRowsTable (MatrixFilterIntervals "[{\"start\":{\"locus\":{\"contig\":\"chr20\",\"position\":1}},\"end\":{\"locus\":{\"contig\":\"chr20\",\"position\":64444167}},\"includeStart\":true,\"includeEnd\":true}]" True (MatrixRead Matrix{global:Struct{},col_key:[s],col:Struct{s:String},row_key:[[locus,alleles]],row:Struct{locus:Locus(GRCh38),alleles:Array[String],rsid:String,qual:Float64,filters:Set[String],info:Struct{AC:Array[Int32],AF:Array[Float64],AN:Int32,BaseQRankSum:Float64,DB:Boolean,DP:Int32,FS:Float64,MQ:Float64,MQRankSum:Float64,MQ_DP:Int32,QD:Float64,ReadPosRankSum:Float64,SOR:Float64,VarDP:Int32},a_index:Int32,was_split:Boolean},entry:Struct{}} False False "{\"name\":\"MatrixNativeReader\",\"path\":\"gs://broad-ukbb/broad.freeze_4/hardcalls/hardcalls.split.mt\",\"_spec\":null}"))))) (Let __iruid_1675 (GetField info (Ref row)) (Let __iruid_1676 (GetField was_split (Ref row)) (Let __iruid_1677 (GetField a_index (Ref row)) (Let __iruid_1678 (GetField VarDP (Ref __iruid_1675)) (Let __iruid_1679 (GetField SOR (Ref __iruid_1675)) (Let __iruid_1680 (GetField ReadPosRankSum (Ref __iruid_1675)) (Let __iruid_1681 (GetField QD (Ref __iruid_1675)) (Let __iruid_1682 (GetField MQ_DP (Ref __iruid_1675)) (Let __iruid_1683 (GetField MQRankSum (Ref __iruid_1675)) (Let __iruid_1684 (GetField MQ (Ref __iruid_1675)) (Let __iruid_1685 (GetField FS (Ref __iruid_1675)) (Let __iruid_1686 (GetField DP (Ref __iruid_1675)) (Let __iruid_1687 (GetField DB (Ref __iruid_1675)) (Let __iruid_1688 (GetField BaseQRankSum (Ref __iruid_1675)) (Let __iruid_1689 (GetField AN (Ref __iruid_1675)) (Let __iruid_1690 (GetField AF (Ref __iruid_1675)) (Let __iruid_1691 (GetField AC (Ref __iruid_1675)) (Let __iruid_1692 (GetField filters (Ref row)) (Let __iruid_1693 (GetField qual (Ref row)) (Let __iruid_1694 (GetField rsid (Ref row)) (Let __iruid_1695 (GetField alleles (Ref row)) (Let __iruid_1696 (GetField locus (Ref row)) (InsertFields (SelectFields () (Ref row)) None (locus (Let __iruid_1697 (If (IsNA (Ref __iruid_1696)) (Str "NA") (Apply str String (Ref __iruid_1696))) (If (ApplyComparisonOp GT (Apply length Int32 (Ref __iruid_1697)) (I32 76)) (Apply `+` String (ApplyIR `[*:*]` String (Ref __iruid_1697) (I32 0) (I32 73)) (Str "...")) (Ref __iruid_1697)))) (alleles (Let __iruid_1698 (If (IsNA (Ref __iruid_1695)) (Str "NA") (Apply `+` String (Apply `+` String (Str "[") (Apply mkString String (ArrayMap __iruid_1699 (Ref __iruid_1695) (If (IsNA (Ref __iruid_1699)) (Str "NA") (Apply `+` String (Apply `+` String (Str "\"") (Apply escapeString String (Ref __iruid_1699))) (Str "\"")))) (Str ","))) (Str "]"))) (If (ApplyComparisonOp GT (Apply length Int32 (Ref __iruid_1698)) (I32 76)) (Apply `+` String (ApplyIR `[*:*]` String (Ref __iruid_1698) (I32 0) (I32 73)) (Str "...")) (Ref __iruid_1698)))) (rsid (Let __iruid_1700 (If (IsNA (Ref __iruid_1694)) (Str "NA") (Apply `+` String (Apply `+` String (Str "\"") (Apply escapeString String (Ref __iruid_1694))) (Str "\""))) (If (ApplyComparisonOp GT (Apply length Int32 (Ref __iruid_1700)) (I32 76)) (Apply `+` String (ApplyIR `[*:*]` String (Ref __iruid_1700) (I32 0) (I32 73)) (Str "...")) (Ref __iruid_1700)))) (qual (Let __iruid_1701 (If (IsNA (Ref __iruid_1693)) (Str "NA") (Apply format String (Str "%.2e") (MakeTuple (0) (Ref __iruid_1693)))) (If (ApplyComparisonOp GT (Apply length Int32 (Ref __iruid_1701)) (I32 76)) (Apply `+` String (ApplyIR `[*:*]` String (Ref __iruid_1701) (I32 0) (I32 73)) (Str "...")) (Ref __iruid_1701)))) (filters (Let __iruid_1702 (If (IsNA (Ref __iruid_1692)) (Str "NA") (Apply `+` String (Apply `+` String (Str "{") (Apply mkString String (ArrayMap __iruid_1703 (ToArray (Ref __iruid_1692)) (If (IsNA (Ref __iruid_1703)) (Str "NA") (Apply `+` String (Apply `+` String (Str "\"") (Apply escapeString String (Ref __iruid_1703))) (Str "\"")))) (Str ","))) (Str "}"))) (If (ApplyComparisonOp GT (Apply length Int32 (Ref __iruid_1702)) (I32 76)) (Apply `+` String (ApplyIR `[*:*]` String (Ref __iruid_1702) (I32 0) (I32 73)) (Str "...")) (Ref __iruid_1702)))) (`info.AC` (Let __iruid_1704 (If (IsNA (Ref __iruid_1691)) (Str "NA") (Apply `+` String (Apply `+` String (Str "[") (Apply mkString String (ArrayMap __iruid_1705 (Ref __iruid_1691) (If (IsNA (Ref __iruid_1705)) (Str "NA") (Apply str String (Ref __iruid_1705)))) (Str ","))) (Str "]"))) (If (ApplyComparisonOp GT (Apply length Int32 (Ref __iruid_1704)) (I32 76)) (Apply `+` String (ApplyIR `[*:*]` String (Ref __iruid_1704) (I32 0) (I32 73)) (Str "...")) (Ref __iruid_1704)))) (`info.AF` (Let __iruid_1706 (If (IsNA (Ref __iruid_1690)) (Str "NA") (Apply `+` String (Apply `+` String (Str "[") (Apply mkString String (ArrayMap __iruid_1707 (Ref __iruid_1690) (If (IsNA (Ref __iruid_1707)) (Str "NA") (Apply format String (Str "%.2e") (MakeTuple (0) (Ref __iruid_1707))))) (Str ","))) (Str "]"))) (If (ApplyComparisonOp GT (Apply length Int32 (Ref __iruid_1706)) (I32 76)) (Apply `+` String (ApplyIR `[*:*]` String (Ref __iruid_1706) (I32 0) (I32 73)) (Str "...")) (Ref __iruid_1706)))) (`info.AN` (Let __iruid_1708 (If (IsNA (Ref __iruid_1689)) (Str "NA") (Apply str String (Ref __iruid_1689))) (If (ApplyComparisonOp GT (Apply length Int32 (Ref __iruid_1708)) (I32 76)) (Apply `+` String (ApplyIR `[*:*]` String (Ref __iruid_1708) (I32 0) (I32 73)) (Str "...")) (Ref __iruid_1708)))) (`info.BaseQRankSum` (Let __iruid_1709 (If (IsNA (Ref __iruid_1688)) (Str "NA") (Apply format String (Str "%.2e") (MakeTuple (0) (Ref __iruid_1688)))) (If (ApplyComparisonOp GT (Apply length Int32 (Ref __iruid_1709)) (I32 76)) (Apply `+` String (ApplyIR `[*:*]` String (Ref __iruid_1709) (I32 0) (I32 73)) (Str "...")) (Ref __iruid_1709)))) (`info.DB` (Let __iruid_1710 (If (IsNA (Ref __iruid_1687)) (Str "NA") (Apply str String (Ref __iruid_1687))) (If (ApplyComparisonOp GT (Apply length Int32 (Ref __iruid_1710)) (I32 76)) (Apply `+` String (ApplyIR `[*:*]` String (Ref __iruid_1710) (I32 0) (I32 73)) (Str "...")) (Ref __iruid_1710)))) (`info.DP` (Let __iruid_1711 (If (IsNA (Ref __iruid_1686)) (Str "NA") (Apply str String (Ref __iruid_1686))) (If (ApplyComparisonOp GT (Apply length Int32 (Ref __iruid_1711)) (I32 76)) (Apply `+` String (ApplyIR `[*:*]` String (Ref __iruid_1711) (I32 0) (I32 73)) (Str "...")) (Ref __iruid_1711)))) (`info.FS` (Let __iruid_1712 (If (IsNA (Ref __iruid_1685)) (Str "NA") (Apply format String (Str "%.2e") (MakeTuple (0) (Ref __iruid_1685)))) (If (ApplyComparisonOp GT (Apply length Int32 (Ref __iruid_1712)) (I32 76)) (Apply `+` String (ApplyIR `[*:*]` String (Ref __iruid_1712) (I32 0) (I32 73)) (Str "...")) (Ref __iruid_1712)))) (`info.MQ` (Let __iruid_1713 (If (IsNA (Ref __iruid_1684)) (Str "NA") (Apply format String (Str "%.2e") (MakeTuple (0) (Ref __iruid_1684)))) (If (ApplyComparisonOp GT (Apply length Int32 (Ref __iruid_1713)) (I32 76)) (Apply `+` String (ApplyIR `[*:*]` String (Ref __iruid_1713) (I32 0) (I32 73)) (Str "...")) (Ref __iruid_1713)))) (`info.MQRankSum` (Let __iruid_1714 (If (IsNA (Ref __iruid_1683)) (Str "NA") (Apply format String (Str "%.2e") (MakeTuple (0) (Ref __iruid_1683)))) (If (ApplyComparisonOp GT (Apply length Int32 (Ref __iruid_1714)) (I32 76)) (Apply `+` String (ApplyIR `[*:*]` String (Ref __iruid_1714) (I32 0) (I32 73)) (Str "...")) (Ref __iruid_1714)))) (`info.MQ_DP` (Let __iruid_1715 (If (IsNA (Ref __iruid_1682)) (Str "NA") (Apply str String (Ref __iruid_1682))) (If (ApplyComparisonOp GT (Apply length Int32 (Ref __iruid_1715)) (I32 76)) (Apply `+` String (ApplyIR `[*:*]` String (Ref __iruid_1715) (I32 0) (I32 73)) (Str "...")) (Ref __iruid_1715)))) (`info.QD` (Let __iruid_1716 (If (IsNA (Ref __iruid_1681)) (Str "NA") (Apply format String (Str "%.2e") (MakeTuple (0) (Ref __iruid_1681)))) (If (ApplyComparisonOp GT (Apply length Int32 (Ref __iruid_1716)) (I32 76)) (Apply `+` String (ApplyIR `[*:*]` String (Ref __iruid_1716) (I32 0) (I32 73)) (Str "...")) (Ref __iruid_1716)))) (`info.ReadPosRankSum` (Let __iruid_1717 (If (IsNA (Ref __iruid_1680)) (Str "NA") (Apply format String (Str "%.2e") (MakeTuple (0) (Ref __iruid_1680)))) (If (ApplyComparisonOp GT (Apply length Int32 (Ref __iruid_1717)) (I32 76)) (Apply `+` String (ApplyIR `[*:*]` String (Ref __iruid_1717) (I32 0) (I32 73)) (Str "...")) (Ref __iruid_1717)))) (`info.SOR` (Let __iruid_1718 (If (IsNA (Ref __iruid_1679)) (Str "NA") (Apply format String (Str "%.2e") (MakeTuple (0) (Ref __iruid_1679)))) (If (ApplyComparisonOp GT (Apply length Int32 (Ref __iruid_1718)) (I32 76)) (Apply `+` String (ApplyIR `[*:*]` String (Ref __iruid_1718) (I32 0) (I32 73)) (Str "...")) (Ref __iruid_1718)))) (`info.VarDP` (Let __iruid_1719 (If (IsNA (Ref __iruid_1678)) (Str "NA") (Apply str String (Ref __iruid_1678))) (If (ApplyComparisonOp GT (Apply length Int32 (Ref __iruid_1719)) (I32 76)) (Apply `+` String (ApplyIR `[*:*]` String (Ref __iruid_1719) (I32 0) (I32 73)) (Str "...")) (Ref __iruid_1719)))) (a_index (Let __iruid_1720 (If (IsNA (Ref __iruid_1677)) (Str "NA") (Apply str String (Ref __iruid_1677))) (If (ApplyComparisonOp GT (Apply length Int32 (Ref __iruid_1720)) (I32 76)) (Apply `+` String (ApplyIR `[*:*]` String (Ref __iruid_1720) (I32 0) (I32 73)) (Str "...")) (Ref __iruid_1720)))) (was_split (Let __iruid_1721 (If (IsNA (Ref __iruid_1676)) (Str "NA") (Apply str String (Ref __iruid_1676))) (If (ApplyComparisonOp GT (Apply length Int32 (Ref __iruid_1721)) (I32 76)) (Apply `+` String (ApplyIR `[*:*]` String (Ref __iruid_1721) (I32 0) (I32 73)) (Str "...")) (Ref __iruid_1721)))))))))))))))))))))))))))))) 2019-11-14 20:58:22 root: INFO: optimize (lower matrix to table, after): before: IR size 566: (GetField rows (TableCollect (TableMapRows (TableHead 11 (TableOrderBy (Alocus Aalleles) (TableMapRows (TableMapGlobals (TableFilterIntervals "[{\"start\":{\"locus\":{\"contig\":\"chr20\",\"position\":1}},\"end\":{\"locus\":{\"contig\":\"chr20\",\"position\":64444167}},\"includeStart\":true,\"includeEnd\":true}]" True (TableMapGlobals (TableRead Table{global:Struct{},key:[locus,alleles],row:Struct{locus:Locus(GRCh38),alleles:Array[String],rsid:String,qual:Float64,filters:Set[String],info:Struct{AC:Array[Int32],AF:Array[Float64],AN:Int32,BaseQRankSum:Float64,DB:Boolean,DP:Int32,FS:Float64,MQ:Float64,MQRankSum:Float64,MQ_DP:Int32,QD:Float64,ReadPosRankSum:Float64,SOR:Float64,VarDP:Int32},a_index:Int32,was_split:Boolean,`the entries! [877f12a8827e18f61222c6c8c5fb04a8]`:Array[Struct{}]}} False "{\"name\":\"TableNativeZippedReader\",\"pathLeft\":\"gs://broad-ukbb/broad.freeze_4/hardcalls/hardcalls.split.mt/rows\",\"pathRight\":\"gs://broad-ukbb/broad.freeze_4/hardcalls/hardcalls.split.mt/entries\",\"_specLeft\":{\"name\":\"TableSpec\",\"file_version\":65792,\"hail_version\":\"0.2.19-c6ec8b76eb26\",\"references_rel_path\":\"../references\",\"table_type\":\"Table{global:Struct{},key:[locus,alleles],row:Struct{locus:Locus(GRCh38),alleles:Array[String],rsid:String,qual:Float64,filters:Set[String],info:Struct{AC:Array[Int32],AF:Array[Float64],AN:Int32,BaseQRankSum:Float64,DB:Boolean,DP:Int32,FS:Float64,MQ:Float64,MQRankSum:Float64,MQ_DP:Int32,QD:Float64,ReadPosRankSum:Float64,SOR:Float64,VarDP:Int32},a_index:Int32,was_split:Boolean}}\",\"components\":{\"globals\":{\"name\":\"RVDComponentSpec\",\"rel_path\":\"../globals/rows\"},\"rows\":{\"name\":\"RVDComponentSpec\",\"rel_path\":\"rows\"},\"partition_counts\":{\"name\":\"PartitionCountsComponentSpec\",\"counts\":[1479,1293,1359,1348,1245,1316,1080,1089,1327,1330,1316,1414,1426,1298,1432,2533,1267,1338,1125,1440,1407,1311,1269,1313,1348,1243,1471,1493,1632,1387,1637,1393,1341,1398,1350,1405,1453,1444,1497,1549,1351,1500,1447,1363,1216,1233,1360,1371,1269,1476,1433,1506,1493,1367,1704,1392,1482,1397,1542,1435,1333,1350,1362,1690,1548,1442,1417,1507,1471,1377,1312,1361,1173,1561,1605,1424,1627,1450,1494,1403,1563,1544,1484,1436,1313,1401,1192,1332,1474,1582,1453,1440,1314,1491,1442,1311,1170,1486,1579,1536,1336,1391,1308,1275,1402,1347,1453,1288,1452,1548,1452,1283,1222,1319,1239,1385,1384,1320,1517,1267,1401,1340,1237,1366,1358,1521,1510,1527,1606,1418,1310,1421,1616,1405,1458,1458,1406,1451,1416,1453,1604,1148,1417,1362,1543,1659,1441,1510,1395,1432,1367,1295,1330,1377,1423,1355,1227,1357,1611,1414,1448,1416,1590,1357,1431,1413,1515,1514,1554,1538,1490,1525,1342,1453,1418,1465,1397,1149,1423,1423,1357,1522,1441,1328,1386,1315,1388,1254,1546,1514,1503,1536,1663,1534,1505,1359,1441,1563,1507,1424,1542,1329,1341,1453,1669,1486,1460,1534,1515,1353,1337,1456,1283,1332,1386,1470,1533,1577,1402,1458,1505,1056,1429,1573,1458,1598,1505,1487,1396,1321,1319,1118,1502,1586,1496,1613,1417,1701,1543,1490,1422,1430,1071,1456,1534,1582,1468,1454,1398,1543,1387,1473,1495,1528,1472,1409,1242,1683,1537,1496,1359,1536,1402,1371,1430,1409,1297,1236,1395,1343,1310,1498,1436,1391,1483,1545,1444,1318,1375,1336,1157,1447,1309,1425,1573,1425,1323,1467,1257,1538,1416,1366,1291,1476,1351,1464,1718,1592,1444,1860,1446,1600,1703,1535,1602,1476,1703,1452,1547,1424,1594,1593,1483,1615,1281,1492,1676,1348,1446,1510,1489,1569,1843,1586,1736,1768,1675,1490,1316,1367,1566,1569,1623,1475,1601,1551,1418,1364,1320,1618,1478,1631,1691,1817,1484,1574,1678,1481,1499,1118,1619,1440,1449,1585,1555,1603,1557,1593,1349,1702,1792,1665,1522,1666,1582,1666,1507,1543,1210,1416,1644,1527,1739,1560,1624,1753,1590,1461,1367,1422,1487,1670,1822,1449,1534,1884,1770,1713,1423,1707,1573,1448,1510,1465,1640,1512,1499,1276,1615,1600,1662,1885,1625,1558,1615,1596,1705,1535,1616,1629,1795,1559,1446,1655,1542,1374,1402,1304,1357,1571,1450,1547,1506,1607,1492,1368,1383,1527,1310,1493,1541,1639,1315,1430,1571,1291,1570,1448,1504,1544,1672,1515,1497,1527,1622,1495,1692,1484,1653,1429,1565,1473,1482,1416,1814,1574,1545,1575,1355,1495,1500,1949,1931,1654,1785,1637,1443,1539,1668,1810,1558,1424,1618,1879,2195,1880,1808,1476,1491,1543,1519,1468,1313,1295,1807,1512,1442,1407,1432,1439,1582,1423,1575,1329,1576,1700,1569,1394,1466,1289,1348,1526,1460,1443,1255,1239,1246,1023,1370,1334,1363,1247,1537,1500,1528,1584,1517,1417,1534,1660,1551,1448,1355,1442,1373,1513,1510,1572,1412,1362,1449,1349,1229,1444,1518,1471,1263,1532,1564,1569,1706,1501,1345,1469,1442,1287,1393,1473,1445,1462,1475,1295,1431,1414,1401,1474,1294,1388,1435,1445,1439,1480,1424,1475,1332,1456,1331,1423,1544,1486,1430,1317,1389,1429,1388,1342,1421,1534,1462,1562,1510,1445,1319,1415,1365,1407,1226,1456,1430,1451,1466,1391,1514,1702,1478,1200,1474,1575,1380,1523,1500,1622,1515,1506,1531,1312,1457,1569,1662,1504,1547,1698,1281,1513,1375,1213,1644,1627,1613,1722,1561,1440,1480,1238,1641,1492,1343,1430,1494,1511,1429,1573,1475,1439,1555,1590,1457,1485,1584,1523,1616,1517,1488,1583,1478,1513,1604,1469,1342,1544,1548,1416,1682,1690,1535,1482,1232,1509,1731,1823,1557,1397,1742,1879,1520,1494,1616,1253,1518,1299,1487,1689,1507,1628,1599,1387,1455,1491,1434,1207,961,1427,1398,1335,1509,1551,1381,1376,1457,1361,1525,1538,1427,1365,1461,1462,1437,1549,1528,1635,1587,1657,1489,1536,1439,1386,1391,1410,1315,1270,1404,1510,1503,1602,1528,1454,1455,1459,1599,1500,1506,1431,1494,1423,1434,1473,1360,1482,1511,1230,1738,1506,1263,1282,1516,1579,1499,1431,1175,1859,1407,1449,1386,1821,1620,1571,1703,1620,1771,1455,1442,1459,1498,1342,1402,1484,1680,1520,1308,1478,1547,1416,1520,1434,1377,1664,1575,1349,1340,1673,1541,1328,1330,1483,1458,1309,1291,1367,1370,1424,1384,1325,1422,1279,1464,1527,1348,1391,1432,1456,1567,1242,1313,1808,1302,1412,1456,1463,1419,1489,1479,1473,1368,156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2,1182,975,1195,928,1155,978,1020,1345,1299,1169,1164,1233,1126,1147,1065,1228,1162,1105,1075,1110,1144,1007,1093,1112,1116,1138,1193,1044,1104,1193,1071,1166,1223,1097,1276,1048,1190,1108,1143,1163,1008,1142,1064,1103,1164,1137,1090,1135,1105,1061,1084,1311,1019,1130,1367,1209,1202,1344,1185,1165,1291,1109,1132,1117,1194,1210,1191,1140,1154,1087,1016,1069,1536,1422,1097,899,1094,1072,1175,1149,1202,1170,1087,1324,1239,1683,1393,1072,1223,1319,1464,1617,1643,1378,1225,1288,1223,1294,1116,1408,1150,1371,1340,1230,1214,1140,1184,1231,1648,1251,1212,1285,1307,1280,1095,1250,1446,1252,1284,1135,1263,1183,1105,1296,1162,1278,1096,1550,1357,1274,1233,1276,1169,1147,1062,1339,1245,1229,1270,1171,1259,1212,1202,1154,1197,1079,1220,1318,1260,1167,1237,1234,1303,1095,1181,1321,1279,1165,1087,1077,1131,1217,1190,1223,1143,1196,1273,1416,1283,1203,1071,1173,1322,1079,1217,1245,1246,1254,1235,1145,1194,1051,1198,1275,1192,1179,1167,1217,1301,1194,1082,1202,1290,1303,1195,1346,1223,1110,1240,1241,1318,1161,1211,1165,1137,1250,1133,1188,1169,1194,1196,1083,1257,1174,1181,1086,1253,1232,1224,1088,1178,1207,1244,1273,1156,1062,1201,1344,1260,1192,1249,1307,1278,1210,1145,1083,1216,1270,1354,1263,1097,1139,1316,1323,1223,1188,1234,1167,1192,1168,1218,1182,1197,1107,1275,1231,1235,1247,1378,1531,1112,1226,1182,1228,1138,1088,1211,922,1041,1129,1050,1089,1133,1165,1305,1182,1348,1149,1156,1086,1070,1186,1174,1043,1168,1132,1212,1216,1189,1039,1085,937,1148,1245,1200,1066,1155,1120,994,974,1190,1039,1116,1092,1135,1079,1122,1023,1224,1426,1190,1300,944,1404,1274,1321,1436,1277,1189,1305,1328,1305,1247,1524,1247,1177,1213,1060,1369,1217,1161,1256,1238,1278,1074,1311,1335,1345,1003,1222,1371,1192,1112,977,1115,1089,1229,1273,1010,1217,1247,1257,1375,1223,1257,1192,1183,1136,1209,835,1000,1168,1260,1299,1238,1204,1216,1219,1195,1059,1237,1246,1149,1168,1109,1189,1251,1202,1381,1167,1786,1253,1276,1216,1117,1936,1083,1234,1221,1121,1051,1108,1199,1102,1052,1171,1155,1061,902,1131,984,1237,1331,1273,1293,1074,1067,1002,1109,1249,1221,1265,1019,1250,1147,1203,1037,1251,1275,1115,1183,1174,1254,1028,1223,1231,1270,1140,987,1144,1299,1374,1410,1056,1186,1228,1317,1128,1198,1208,1142,1183,1200,1119,1086,1212,1225,1076,1067,1045,869,909,1088,1135,1166,1311,1336,1346,1079,1136,1164,1562,1317,1124,1178,1174,1192,1283,1279,1138,1233,1198,1121,1146,1152,1342,1144,1192,1271,1213,1183,1284,1248,1206,1118,1179,1408,1074,1224,1075,1267,1143,1218,1426,1218,1317,1245,1207,1112,1145,1221,1208,1180,1146,1256,1204,1265,1439,1273,1157,1162,1174,1210,1141,1087,1179,1670,1202,1187,1198,1209,1274,1247,1308,1103,1259,1194,1302,1227,1402,1362,1286,1201,1246,1233,1146,1099,1154,1209,940,1244,1149,1174,1133,1165,1161,1209,1249,1141,1460,1156,1211,982,1096,1172,1225,1179,1223,1233,1295,1204,1180,1206,1355,1337,1307,1235,994,1029,1073,1259,1113,1105,1152,1332,1256,1352,1190,1244,1078,1162,1266,1273,1269,1143,1180,1174,1064,1268,1309,1245,1263,1188,1053,1054,1069,1082,1154,1337,1212,1211,1246,1135,1144,1433,1167,1246,1127,1253,1359,1125,1140,1117,1240,1279,1273,1157,1162,1147,1079,1070,1281,1187,1179,1201,1336,998,1263,1145,1132,1206,1150,1117,1126,1241,1204,1171,979,1019,1130,1232,1079,1076,1031,1125,1088,1253,1188,1004,1028,941,1186,879,1052,1133,1044,1029,1428,994,1045,1001,1212,1173,1210,1314,1508,1372,1279,1126,1106,1390,1238,1403,1482,1451,1441,1244,1252,1501,1349,1574,1733,1325,1167,1426,1592,1476,1683,1651,1616,1427,1665,1432,1539,1372,1500,1568,1364,1418,1435,1713,1387,1450,1577,1763,1683,1860,1821,1571,1588,1665,1479,1762,1733,1605,1319,1490,1698,1632,1344,1519,1516,1654,1583,1719,1774,1480,1157,1367,1637,1798,1496,1403,1452,1481,1203,1572,1904,1393,1223,1269,1526,1159,1583,1468,1376,1376,1424,1577,1458,1753,1641,1584,1408,1627,1456,1358,1581,1657,1248,1293,1255,1211,1446,1218,1441,1356,1232,1383,1350,1307,1418,1567,1462,1345,1451,1410,1482,1190,1326,1449,1532,1625,1406,1419,1206,1345,1298,1450,1193,1600,1511,1455,1621,1694,1661,1568,1420,1478,1729,1534,1498,1569,1259,1271,1556,1315,1292,1267,1458,1394,1456,1387,1393,1318,1541,1151,1334,1358,1560,1519,1381,1559,1529,1419,1407,1258,1356,1190,1423,1416,1206,1454,1223,1615,1662,1688,1503,1388,1412,1402,1426,1391,1690,1384,1426,1526,1559,1542,1734,1640,1510,1597,1453,1457,1240,1443,1575,1461,1333,1482,1449,1550,1400,1631,1445,902,1310,1336,1097,1343,1204,1350,1364,1398,1723,1756,1520,1603,1484,1463,1496,1061,1462,1444,1570,1650,1633,1299,1754,1704,1474,1370,1813,1797,1445,1519,1192,1618,1873,1405,1076,1749,1625,1509,1453,1561,1612,1857,1360,1311,1483,1313,1508,1566,1408,1340,1672,1455,1301,1685,1633,1682,1632,1535,1269,1589,1711,1662,1396,1248,1381,1501,1840,1574,1358,1427,1649,1049,1500,1629,1412,1430,1833,1627,1537,1620,1581,1080,1617,1636,1550,1281,1327,1701,1647,1645,1330,1235,860,1087,1437,1525,1552,1527,1267,1352,1689,1421,1298,1236,1266,1548,1418,1400,1366,1476,1555,1176,1219,1150,1210,1148,1062,1273,1288,1290,1270,846,1253,1398,1374,1291,1304,1062,1237,1256,1547,1354,1168,1203,1418,1270,1533,1555,1397,1588,1938,2242,2513,1971]}}}}") (InsertFields (Ref global) None (__cols (GetField rows (TableCollect (TableRead Table{global:Struct{},key:[],row:Struct{s:String}} False "{\"name\":\"TableNativeReader\",\"path\":\"gs://broad-ukbb/broad.freeze_4/hardcalls/hardcalls.split.mt/cols\",\"_spec\":{\"name\":\"TableSpec\",\"file_version\":65792,\"hail_version\":\"0.2.19-c6ec8b76eb26\",\"references_rel_path\":\"../references\",\"table_type\":\"Table{global:Struct{},key:[s],row:Struct{s:String}}\",\"components\":{\"globals\":{\"name\":\"RVDComponentSpec\",\"rel_path\":\"../globals/rows\"},\"rows\":{\"name\":\"RVDComponentSpec\",\"rel_path\":\"rows\"},\"partition_counts\":{\"name\":\"PartitionCountsComponentSpec\",\"counts\":[100221]}}}}"))))))) (SelectFields () (Ref global))) (SelectFields (locus alleles rsid qual filters info a_index was_split) (Ref row))))) (Let __iruid_1675 (GetField info (Ref row)) (Let __iruid_1676 (GetField was_split (Ref row)) (Let __iruid_1677 (GetField a_index (Ref row)) (Let __iruid_1678 (GetField VarDP (Ref __iruid_1675)) (Let __iruid_1679 (GetField SOR (Ref __iruid_1675)) (Let __iruid_1680 (GetField ReadPosRankSum (Ref __iruid_1675)) (Let __iruid_1681 (GetField QD (Ref __iruid_1675)) (Let __iruid_1682 (GetField MQ_DP (Ref __iruid_1675)) (Let __iruid_1683 (GetField MQRankSum (Ref __iruid_1675)) (Let __iruid_1684 (GetField MQ (Ref __iruid_1675)) (Let __iruid_1685 (GetField FS (Ref __iruid_1675)) (Let __iruid_1686 (GetField DP (Ref __iruid_1675)) (Let __iruid_1687 (GetField DB (Ref __iruid_1675)) (Let __iruid_1688 (GetField BaseQRankSum (Ref __iruid_1675)) (Let __iruid_1689 (GetField AN (Ref __iruid_1675)) (Let __iruid_1690 (GetField AF (Ref __iruid_1675)) (Let __iruid_1691 (GetField AC (Ref __iruid_1675)) (Let __iruid_1692 (GetField filters (Ref row)) (Let __iruid_1693 (GetField qual (Ref row)) (Let __iruid_1694 (GetField rsid (Ref row)) (Let __iruid_1695 (GetField alleles (Ref row)) (Let __iruid_1696 (GetField locus (Ref row)) (InsertFields (SelectFields () (Ref row)) None (locus (Let __iruid_1697 (If (IsNA (Ref __iruid_1696)) (Str "NA") (Apply str String (Ref __iruid_1696))) (If (ApplyComparisonOp GT (Apply length Int32 (Ref __iruid_1697)) (I32 76)) (Apply `+` String (ApplyIR `[*:*]` String (Ref __iruid_1697) (I32 0) (I32 73)) (Str "...")) (Ref __iruid_1697)))) (alleles (Let __iruid_1698 (If (IsNA (Ref __iruid_1695)) (Str "NA") (Apply `+` String (Apply `+` String (Str "[") (Apply mkString String (ArrayMap __iruid_1699 (Ref __iruid_1695) (If (IsNA (Ref __iruid_1699)) (Str "NA") (Apply `+` String (Apply `+` String (Str "\"") (Apply escapeString String (Ref __iruid_1699))) (Str "\"")))) (Str ","))) (Str "]"))) (If (ApplyComparisonOp GT (Apply length Int32 (Ref __iruid_1698)) (I32 76)) (Apply `+` String (ApplyIR `[*:*]` String (Ref __iruid_1698) (I32 0) (I32 73)) (Str "...")) (Ref __iruid_1698)))) (rsid (Let __iruid_1700 (If (IsNA (Ref __iruid_1694)) (Str "NA") (Apply `+` String (Apply `+` String (Str "\"") (Apply escapeString String (Ref __iruid_1694))) (Str "\""))) (If (ApplyComparisonOp GT (Apply length Int32 (Ref __iruid_1700)) (I32 76)) (Apply `+` String (ApplyIR `[*:*]` String (Ref __iruid_1700) (I32 0) (I32 73)) (Str "...")) (Ref __iruid_1700)))) (qual (Let __iruid_1701 (If (IsNA (Ref __iruid_1693)) (Str "NA") (Apply format String (Str "%.2e") (MakeTuple (0) (Ref __iruid_1693)))) (If (ApplyComparisonOp GT (Apply length Int32 (Ref __iruid_1701)) (I32 76)) (Apply `+` String (ApplyIR `[*:*]` String (Ref __iruid_1701) (I32 0) (I32 73)) (Str "...")) (Ref __iruid_1701)))) (filters (Let __iruid_1702 (If (IsNA (Ref __iruid_1692)) (Str "NA") (Apply `+` String (Apply `+` String (Str "{") (Apply mkString String (ArrayMap __iruid_1703 (ToArray (Ref __iruid_1692)) (If (IsNA (Ref __iruid_1703)) (Str "NA") (Apply `+` String (Apply `+` String (Str "\"") (Apply escapeString String (Ref __iruid_1703))) (Str "\"")))) (Str ","))) (Str "}"))) (If (ApplyComparisonOp GT (Apply length Int32 (Ref __iruid_1702)) (I32 76)) (Apply `+` String (ApplyIR `[*:*]` String (Ref __iruid_1702) (I32 0) (I32 73)) (Str "...")) (Ref __iruid_1702)))) (`info.AC` (Let __iruid_1704 (If (IsNA (Ref __iruid_1691)) (Str "NA") (Apply `+` String (Apply `+` String (Str "[") (Apply mkString String (ArrayMap __iruid_1705 (Ref __iruid_1691) (If (IsNA (Ref __iruid_1705)) (Str "NA") (Apply str String (Ref __iruid_1705)))) (Str ","))) (Str "]"))) (If (ApplyComparisonOp GT (Apply length Int32 (Ref __iruid_1704)) (I32 76)) (Apply `+` String (ApplyIR `[*:*]` String (Ref __iruid_1704) (I32 0) (I32 73)) (Str "...")) (Ref __iruid_1704)))) (`info.AF` (Let __iruid_1706 (If (IsNA (Ref __iruid_1690)) (Str "NA") (Apply `+` String (Apply `+` String (Str "[") (Apply mkString String (ArrayMap __iruid_1707 (Ref __iruid_1690) (If (IsNA (Ref __iruid_1707)) (Str "NA") (Apply format String (Str "%.2e") (MakeTuple (0) (Ref __iruid_1707))))) (Str ","))) (Str "]"))) (If (ApplyComparisonOp GT (Apply length Int32 (Ref __iruid_1706)) (I32 76)) (Apply `+` String (ApplyIR `[*:*]` String (Ref __iruid_1706) (I32 0) (I32 73)) (Str "...")) (Ref __iruid_1706)))) (`info.AN` (Let __iruid_1708 (If (IsNA (Ref __iruid_1689)) (Str "NA") (Apply str String (Ref __iruid_1689))) (If (ApplyComparisonOp GT (Apply length Int32 (Ref __iruid_1708)) (I32 76)) (Apply `+` String (ApplyIR `[*:*]` String (Ref __iruid_1708) (I32 0) (I32 73)) (Str "...")) (Ref __iruid_1708)))) (`info.BaseQRankSum` (Let __iruid_1709 (If (IsNA (Ref __iruid_1688)) (Str "NA") (Apply format String (Str "%.2e") (MakeTuple (0) (Ref __iruid_1688)))) (If (ApplyComparisonOp GT (Apply length Int32 (Ref __iruid_1709)) (I32 76)) (Apply `+` String (ApplyIR `[*:*]` String (Ref __iruid_1709) (I32 0) (I32 73)) (Str "...")) (Ref __iruid_1709)))) (`info.DB` (Let __iruid_1710 (If (IsNA (Ref __iruid_1687)) (Str "NA") (Apply str String (Ref __iruid_1687))) (If (ApplyComparisonOp GT (Apply length Int32 (Ref __iruid_1710)) (I32 76)) (Apply `+` String (ApplyIR `[*:*]` String (Ref __iruid_1710) (I32 0) (I32 73)) (Str "...")) (Ref __iruid_1710)))) (`info.DP` (Let __iruid_1711 (If (IsNA (Ref __iruid_1686)) (Str "NA") (Apply str String (Ref __iruid_1686))) (If (ApplyComparisonOp GT (Apply length Int32 (Ref __iruid_1711)) (I32 76)) (Apply `+` String (ApplyIR `[*:*]` String (Ref __iruid_1711) (I32 0) (I32 73)) (Str "...")) (Ref __iruid_1711)))) (`info.FS` (Let __iruid_1712 (If (IsNA (Ref __iruid_1685)) (Str "NA") (Apply format String (Str "%.2e") (MakeTuple (0) (Ref __iruid_1685)))) (If (ApplyComparisonOp GT (Apply length Int32 (Ref __iruid_1712)) (I32 76)) (Apply `+` String (ApplyIR `[*:*]` String (Ref __iruid_1712) (I32 0) (I32 73)) (Str "...")) (Ref __iruid_1712)))) (`info.MQ` (Let __iruid_1713 (If (IsNA (Ref __iruid_1684)) (Str "NA") (Apply format String (Str "%.2e") (MakeTuple (0) (Ref __iruid_1684)))) (If (ApplyComparisonOp GT (Apply length Int32 (Ref __iruid_1713)) (I32 76)) (Apply `+` String (ApplyIR `[*:*]` String (Ref __iruid_1713) (I32 0) (I32 73)) (Str "...")) (Ref __iruid_1713)))) (`info.MQRankSum` (Let __iruid_1714 (If (IsNA (Ref __iruid_1683)) (Str "NA") (Apply format String (Str "%.2e") (MakeTuple (0) (Ref __iruid_1683)))) (If (ApplyComparisonOp GT (Apply length Int32 (Ref __iruid_1714)) (I32 76)) (Apply `+` String (ApplyIR `[*:*]` String (Ref __iruid_1714) (I32 0) (I32 73)) (Str "...")) (Ref __iruid_1714)))) (`info.MQ_DP` (Let __iruid_1715 (If (IsNA (Ref __iruid_1682)) (Str "NA") (Apply str String (Ref __iruid_1682))) (If (ApplyComparisonOp GT (Apply length Int32 (Ref __iruid_1715)) (I32 76)) (Apply `+` String (ApplyIR `[*:*]` String (Ref __iruid_1715) (I32 0) (I32 73)) (Str "...")) (Ref __iruid_1715)))) (`info.QD` (Let __iruid_1716 (If (IsNA (Ref __iruid_1681)) (Str "NA") (Apply format String (Str "%.2e") (MakeTuple (0) (Ref __iruid_1681)))) (If (ApplyComparisonOp GT (Apply length Int32 (Ref __iruid_1716)) (I32 76)) (Apply `+` String (ApplyIR `[*:*]` String (Ref __iruid_1716) (I32 0) (I32 73)) (Str "...")) (Ref __iruid_1716)))) (`info.ReadPosRankSum` (Let __iruid_1717 (If (IsNA (Ref __iruid_1680)) (Str "NA") (Apply format String (Str "%.2e") (MakeTuple (0) (Ref __iruid_1680)))) (If (ApplyComparisonOp GT (Apply length Int32 (Ref __iruid_1717)) (I32 76)) (Apply `+` String (ApplyIR `[*:*]` String (Ref __iruid_1717) (I32 0) (I32 73)) (Str "...")) (Ref __iruid_1717)))) (`info.SOR` (Let __iruid_1718 (If (IsNA (Ref __iruid_1679)) (Str "NA") (Apply format String (Str "%.2e") (MakeTuple (0) (Ref __iruid_1679)))) (If (ApplyComparisonOp GT (Apply length Int32 (Ref __iruid_1718)) (I32 76)) (Apply `+` String (ApplyIR `[*:*]` String (Ref __iruid_1718) (I32 0) (I32 73)) (Str "...")) (Ref __iruid_1718)))) (`info.VarDP` (Let __iruid_1719 (If (IsNA (Ref __iruid_1678)) (Str "NA") (Apply str String (Ref __iruid_1678))) (If (ApplyComparisonOp GT (Apply length Int32 (Ref __iruid_1719)) (I32 76)) (Apply `+` String (ApplyIR `[*:*]` String (Ref __iruid_1719) (I32 0) (I32 73)) (Str "...")) (Ref __iruid_1719)))) (a_index (Let __iruid_1720 (If (IsNA (Ref __iruid_1677)) (Str "NA") (Apply str String (Ref __iruid_1677))) (If (ApplyComparisonOp GT (Apply length Int32 (Ref __iruid_1720)) (I32 76)) (Apply `+` String (ApplyIR `[*:*]` String (Ref __iruid_1720) (I32 0) (I32 73)) (Str "...")) (Ref __iruid_1720)))) (was_split (Let __iruid_1721 (If (IsNA (Ref __iruid_1676)) (Str "NA") (Apply str String (Ref __iruid_1676))) (If (ApplyComparisonOp GT (Apply length Int32 (Ref __iruid_1721)) (I32 76)) (Apply `+` String (ApplyIR `[*:*]` String (Ref __iruid_1721) (I32 0) (I32 73)) (Str "...")) (Ref __iruid_1721)))))))))))))))))))))))))))))) 2019-11-14 20:58:23 root: INFO: optimize (lower matrix to table, after): after: IR size 553: (GetField rows (TableCollect (TableMapRows (TableHead 11 (TableOrderBy (Alocus Aalleles) (TableRead Table{global:Struct{},key:[locus,alleles],row:Struct{locus:Locus(GRCh38),alleles:Array[String],rsid:String,qual:Float64,filters:Set[String],info:Struct{AC:Array[Int32],AF:Array[Float64],AN:Int32,BaseQRankSum:Float64,DB:Boolean,DP:Int32,FS:Float64,MQ:Float64,MQRankSum:Float64,MQ_DP:Int32,QD:Float64,ReadPosRankSum:Float64,SOR:Float64,VarDP:Int32},a_index:Int32,was_split:Boolean}} False "{\"name\":\"TableNativeZippedReader\",\"pathLeft\":\"gs://broad-ukbb/broad.freeze_4/hardcalls/hardcalls.split.mt/rows\",\"pathRight\":\"gs://broad-ukbb/broad.freeze_4/hardcalls/hardcalls.split.mt/entries\",\"options\":{\"name\":\"NativeReaderOptions\",\"intervals\":[{\"start\":{\"locus\":{\"contig\":\"chr20\",\"position\":1}},\"end\":{\"locus\":{\"contig\":\"chr20\",\"position\":64444167}},\"includeStart\":true,\"includeEnd\":true}],\"intervalPointType\":\"Struct{locus:Locus(GRCh38),alleles:Array[String]}\",\"filterIntervals\":true},\"_specLeft\":{\"name\":\"TableSpec\",\"file_version\":65792,\"hail_version\":\"0.2.19-c6ec8b76eb26\",\"references_rel_path\":\"../references\",\"table_type\":\"Table{global:Struct{},key:[locus,alleles],row:Struct{locus:Locus(GRCh38),alleles:Array[String],rsid:String,qual:Float64,filters:Set[String],info:Struct{AC:Array[Int32],AF:Array[Float64],AN:Int32,BaseQRankSum:Float64,DB:Boolean,DP:Int32,FS:Float64,MQ:Float64,MQRankSum:Float64,MQ_DP:Int32,QD:Float64,ReadPosRankSum:Float64,SOR:Float64,VarDP:Int32},a_index:Int32,was_split:Boolean}}\",\"components\":{\"globals\":{\"name\":\"RVDComponentSpec\",\"rel_path\":\"../globals/rows\"},\"rows\":{\"name\":\"RVDComponentSpec\",\"rel_path\":\"rows\"},\"partition_counts\":{\"name\":\"PartitionCountsComponentSpec\",\"counts\":[1479,1293,1359,1348,1245,1316,1080,1089,1327,1330,1316,1414,1426,1298,1432,2533,1267,1338,1125,1440,1407,1311,1269,1313,1348,1243,1471,1493,1632,1387,1637,1393,1341,1398,1350,1405,1453,1444,1497,1549,1351,1500,1447,1363,1216,1233,1360,1371,1269,1476,1433,1506,1493,1367,1704,1392,1482,1397,1542,1435,1333,1350,1362,1690,1548,1442,1417,1507,1471,1377,1312,1361,1173,1561,1605,1424,1627,1450,1494,1403,1563,1544,1484,1436,1313,1401,1192,1332,1474,1582,1453,1440,1314,1491,1442,1311,1170,1486,1579,1536,1336,1391,1308,1275,1402,1347,1453,1288,1452,1548,1452,1283,1222,1319,1239,1385,1384,1320,1517,1267,1401,1340,1237,1366,1358,1521,1510,1527,1606,1418,1310,1421,1616,1405,1458,1458,1406,1451,1416,1453,1604,1148,1417,1362,1543,1659,1441,1510,1395,1432,1367,1295,1330,1377,1423,1355,1227,1357,1611,1414,1448,1416,1590,1357,1431,1413,1515,1514,1554,1538,1490,1525,1342,1453,1418,1465,1397,1149,1423,1423,1357,1522,1441,1328,1386,1315,1388,1254,1546,1514,1503,1536,1663,1534,1505,1359,1441,1563,1507,1424,1542,1329,1341,1453,1669,1486,1460,1534,1515,1353,1337,1456,1283,1332,1386,1470,1533,1577,1402,1458,1505,1056,1429,1573,1458,1598,1505,1487,1396,1321,1319,1118,1502,1586,1496,1613,1417,1701,1543,1490,1422,1430,1071,1456,1534,1582,1468,1454,1398,1543,1387,1473,1495,1528,1472,1409,1242,1683,1537,1496,1359,1536,1402,1371,1430,1409,1297,1236,1395,1343,1310,1498,1436,1391,1483,1545,1444,1318,1375,1336,1157,1447,1309,1425,1573,1425,1323,1467,1257,1538,1416,1366,1291,1476,1351,1464,1718,1592,1444,1860,1446,1600,1703,1535,1602,1476,1703,1452,1547,1424,1594,1593,1483,1615,1281,1492,1676,1348,1446,1510,1489,1569,1843,1586,1736,1768,1675,1490,1316,1367,1566,1569,1623,1475,1601,1551,1418,1364,1320,1618,1478,1631,1691,1817,1484,1574,1678,1481,1499,1118,1619,1440,1449,1585,1555,1603,1557,1593,1349,1702,1792,1665,1522,1666,1582,1666,1507,1543,1210,1416,1644,1527,1739,1560,1624,1753,1590,1461,1367,1422,1487,1670,1822,1449,1534,1884,1770,1713,1423,1707,1573,1448,1510,1465,1640,1512,1499,1276,1615,1600,1662,1885,1625,1558,1615,1596,1705,1535,1616,1629,1795,1559,1446,1655,1542,1374,1402,1304,1357,1571,1450,1547,1506,1607,1492,1368,1383,1527,1310,1493,1541,1639,1315,1430,1571,1291,1570,1448,1504,1544,1672,1515,1497,1527,1622,1495,1692,1484,1653,1429,1565,1473,1482,1416,1814,1574,1545,1575,1355,1495,1500,1949,1931,1654,1785,1637,1443,1539,1668,1810,1558,1424,1618,1879,2195,1880,1808,1476,1491,1543,1519,1468,1313,1295,1807,1512,1442,1407,1432,1439,1582,1423,1575,1329,1576,1700,1569,1394,1466,1289,1348,1526,1460,1443,1255,1239,1246,1023,1370,1334,1363,1247,1537,1500,1528,1584,1517,1417,1534,1660,1551,1448,1355,1442,1373,1513,1510,1572,1412,1362,1449,1349,1229,1444,1518,1471,1263,1532,1564,1569,1706,1501,1345,1469,1442,1287,1393,1473,1445,1462,1475,1295,1431,1414,1401,1474,1294,1388,1435,1445,1439,1480,1424,1475,1332,1456,1331,1423,1544,1486,1430,1317,1389,1429,1388,1342,1421,1534,1462,1562,1510,1445,1319,1415,1365,1407,1226,1456,1430,1451,1466,1391,1514,1702,1478,1200,1474,1575,1380,1523,1500,1622,1515,1506,1531,1312,1457,1569,1662,1504,1547,1698,1281,1513,1375,1213,1644,1627,1613,1722,1561,1440,1480,1238,1641,1492,1343,1430,1494,1511,1429,1573,1475,1439,1555,1590,1457,1485,1584,1523,1616,1517,1488,1583,1478,1513,1604,1469,1342,1544,1548,1416,1682,1690,1535,1482,1232,1509,1731,1823,1557,1397,1742,1879,1520,1494,1616,1253,1518,1299,1487,1689,1507,1628,1599,1387,1455,1491,1434,1207,961,1427,1398,1335,1509,1551,1381,1376,1457,1361,1525,1538,1427,1365,1461,1462,1437,1549,1528,1635,1587,1657,1489,1536,1439,1386,1391,1410,1315,1270,1404,1510,1503,1602,1528,1454,1455,1459,1599,1500,1506,1431,1494,1423,1434,1473,1360,1482,1511,1230,1738,1506,1263,1282,1516,1579,1499,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2,1182,975,1195,928,1155,978,1020,1345,1299,1169,1164,1233,1126,1147,1065,1228,1162,1105,1075,1110,1144,1007,1093,1112,1116,1138,1193,1044,1104,1193,1071,1166,1223,1097,1276,1048,1190,1108,1143,1163,1008,1142,1064,1103,1164,1137,1090,1135,1105,1061,1084,1311,1019,1130,1367,1209,1202,1344,1185,1165,1291,1109,1132,1117,1194,1210,1191,1140,1154,1087,1016,1069,1536,1422,1097,899,1094,1072,1175,1149,1202,1170,1087,1324,1239,1683,1393,1072,1223,1319,1464,1617,1643,1378,1225,1288,1223,1294,1116,1408,1150,1371,1340,1230,1214,1140,1184,1231,1648,1251,1212,1285,1307,1280,1095,1250,1446,1252,1284,1135,1263,1183,1105,1296,1162,1278,1096,1550,1357,1274,1233,1276,1169,1147,1062,1339,1245,1229,1270,1171,1259,1212,1202,1154,1197,1079,1220,1318,1260,1167,1237,1234,1303,1095,1181,1321,1279,1165,1087,1077,1131,1217,1190,1223,1143,1196,1273,1416,1283,1203,1071,1173,1322,1079,1217,1245,1246,1254,1235,1145,1194,1051,1198,1275,1192,1179,1167,1217,1301,1194,1082,1202,1290,1303,1195,1346,1223,1110,1240,1241,1318,1161,1211,1165,1137,1250,1133,1188,1169,1194,1196,1083,1257,1174,1181,1086,1253,1232,1224,1088,1178,1207,1244,1273,1156,1062,1201,1344,1260,1192,1249,1307,1278,1210,1145,1083,1216,1270,1354,1263,1097,1139,1316,1323,1223,1188,1234,1167,1192,1168,1218,1182,1197,1107,1275,1231,1235,1247,1378,1531,1112,1226,1182,1228,1138,1088,1211,922,1041,1129,1050,1089,1133,1165,1305,1182,1348,1149,1156,1086,1070,1186,1174,1043,1168,1132,1212,1216,1189,1039,1085,937,1148,1245,1200,1066,1155,1120,994,974,1190,1039,1116,1092,1135,1079,1122,1023,1224,1426,1190,1300,944,1404,1274,1321,1436,1277,1189,1305,1328,1305,1247,1524,1247,1177,1213,1060,1369,1217,1161,1256,1238,1278,1074,1311,1335,1345,1003,1222,1371,1192,1112,977,1115,1089,1229,1273,1010,1217,1247,1257,1375,1223,1257,1192,1183,1136,1209,835,1000,1168,1260,1299,1238,1204,1216,1219,1195,1059,1237,1246,1149,1168,1109,1189,1251,1202,1381,1167,1786,1253,1276,1216,1117,1936,1083,1234,1221,1121,1051,1108,1199,1102,1052,1171,1155,1061,902,1131,984,1237,1331,1273,1293,1074,1067,1002,1109,1249,1221,1265,1019,1250,1147,1203,1037,1251,1275,1115,1183,1174,1254,1028,1223,1231,1270,1140,987,1144,1299,1374,1410,1056,1186,1228,1317,1128,1198,1208,1142,1183,1200,1119,1086,1212,1225,1076,1067,1045,869,909,1088,1135,1166,1311,1336,1346,1079,1136,1164,1562,1317,1124,1178,1174,1192,1283,1279,1138,1233,1198,1121,1146,1152,1342,1144,1192,1271,1213,1183,1284,1248,1206,1118,1179,1408,1074,1224,1075,1267,1143,1218,1426,1218,1317,1245,1207,1112,1145,1221,1208,1180,1146,1256,1204,1265,1439,1273,1157,1162,1174,1210,1141,1087,1179,1670,1202,1187,1198,1209,1274,1247,1308,1103,1259,1194,1302,1227,1402,1362,1286,1201,1246,1233,1146,1099,1154,1209,940,1244,1149,1174,1133,1165,1161,1209,1249,1141,1460,1156,1211,982,1096,1172,1225,1179,1223,1233,1295,1204,1180,1206,1355,1337,1307,1235,994,1029,1073,1259,1113,1105,1152,1332,1256,1352,1190,1244,1078,1162,1266,1273,1269,1143,1180,1174,1064,1268,1309,1245,1263,1188,1053,1054,1069,1082,1154,1337,1212,1211,1246,1135,1144,1433,1167,1246,1127,1253,1359,1125,1140,1117,1240,1279,1273,1157,1162,1147,1079,1070,1281,1187,1179,1201,1336,998,1263,1145,1132,1206,1150,1117,1126,1241,1204,1171,979,1019,1130,1232,1079,1076,1031,1125,1088,1253,1188,1004,1028,941,1186,879,1052,1133,1044,1029,1428,994,1045,1001,1212,1173,1210,1314,1508,1372,1279,1126,1106,1390,1238,1403,1482,1451,1441,1244,1252,1501,1349,1574,1733,1325,1167,1426,1592,1476,1683,1651,1616,1427,1665,1432,1539,1372,1500,1568,1364,1418,1435,1713,1387,1450,1577,1763,1683,1860,1821,1571,1588,1665,1479,1762,1733,1605,1319,1490,1698,1632,1344,1519,1516,1654,1583,1719,1774,1480,1157,1367,1637,1798,1496,1403,1452,1481,1203,1572,1904,1393,1223,1269,1526,1159,1583,1468,1376,1376,1424,1577,1458,1753,1641,1584,1408,1627,1456,1358,1581,1657,1248,1293,1255,1211,1446,1218,1441,1356,1232,1383,1350,1307,1418,1567,1462,1345,1451,1410,1482,1190,1326,1449,1532,1625,1406,1419,1206,1345,1298,1450,1193,1600,1511,1455,1621,1694,1661,1568,1420,1478,1729,1534,1498,1569,1259,1271,1556,1315,1292,1267,1458,1394,1456,1387,1393,1318,1541,1151,1334,1358,1560,1519,1381,1559,1529,1419,1407,1258,1356,1190,1423,1416,1206,1454,1223,1615,1662,1688,1503,1388,1412,1402,1426,1391,1690,1384,1426,1526,1559,1542,1734,1640,1510,1597,1453,1457,1240,1443,1575,1461,1333,1482,1449,1550,1400,1631,1445,902,1310,1336,1097,1343,1204,1350,1364,1398,1723,1756,1520,1603,1484,1463,1496,1061,1462,1444,1570,1650,1633,1299,1754,1704,1474,1370,1813,1797,1445,1519,1192,1618,1873,1405,1076,1749,1625,1509,1453,1561,1612,1857,1360,1311,1483,1313,1508,1566,1408,1340,1672,1455,1301,1685,1633,1682,1632,1535,1269,1589,1711,1662,1396,1248,1381,1501,1840,1574,1358,1427,1649,1049,1500,1629,1412,1430,1833,1627,1537,1620,1581,1080,1617,1636,1550,1281,1327,1701,1647,1645,1330,1235,860,1087,1437,1525,1552,1527,1267,1352,1689,1421,1298,1236,1266,1548,1418,1400,1366,1476,1555,1176,1219,1150,1210,1148,1062,1273,1288,1290,1270,846,1253,1398,1374,1291,1304,1062,1237,1256,1547,1354,1168,1203,1418,1270,1533,1555,1397,1588,1938,2242,2513,1971]}}}}"))) (Let __iruid_3332 (GetField info (Ref row)) (Let __iruid_3333 (GetField was_split (Ref row)) (Let __iruid_3334 (GetField a_index (Ref row)) (Let __iruid_3335 (GetField VarDP (Ref __iruid_3332)) (Let __iruid_3336 (GetField SOR (Ref __iruid_3332)) (Let __iruid_3337 (GetField ReadPosRankSum (Ref __iruid_3332)) (Let __iruid_3338 (GetField QD (Ref __iruid_3332)) (Let __iruid_3339 (GetField MQ_DP (Ref __iruid_3332)) (Let __iruid_3340 (GetField MQRankSum (Ref __iruid_3332)) (Let __iruid_3341 (GetField MQ (Ref __iruid_3332)) (Let __iruid_3342 (GetField FS (Ref __iruid_3332)) (Let __iruid_3343 (GetField DP (Ref __iruid_3332)) (Let __iruid_3344 (GetField DB (Ref __iruid_3332)) (Let __iruid_3345 (GetField BaseQRankSum (Ref __iruid_3332)) (Let __iruid_3346 (GetField AN (Ref __iruid_3332)) (Let __iruid_3347 (GetField AF (Ref __iruid_3332)) (Let __iruid_3348 (GetField AC (Ref __iruid_3332)) (Let __iruid_3349 (GetField filters (Ref row)) (Let __iruid_3350 (GetField qual (Ref row)) (Let __iruid_3351 (GetField rsid (Ref row)) (Let __iruid_3352 (GetField alleles (Ref row)) (Let __iruid_3353 (GetField locus (Ref row)) (InsertFields (SelectFields () (Ref row)) None (locus (Let __iruid_3354 (If (IsNA (Ref __iruid_3353)) (Str "NA") (Apply str String (Ref __iruid_3353))) (If (ApplyComparisonOp GT (Apply length Int32 (Ref __iruid_3354)) (I32 76)) (Apply `+` String (ApplyIR `[*:*]` String (Ref __iruid_3354) (I32 0) (I32 73)) (Str "...")) (Ref __iruid_3354)))) (alleles (Let __iruid_3355 (If (IsNA (Ref __iruid_3352)) (Str "NA") (Apply `+` String (Apply `+` String (Str "[") (Apply mkString String (ArrayMap __iruid_3356 (Ref __iruid_3352) (If (IsNA (Ref __iruid_3356)) (Str "NA") (Apply `+` String (Apply `+` String (Str "\"") (Apply escapeString String (Ref __iruid_3356))) (Str "\"")))) (Str ","))) (Str "]"))) (If (ApplyComparisonOp GT (Apply length Int32 (Ref __iruid_3355)) (I32 76)) (Apply `+` String (ApplyIR `[*:*]` String (Ref __iruid_3355) (I32 0) (I32 73)) (Str "...")) (Ref __iruid_3355)))) (rsid (Let __iruid_3357 (If (IsNA (Ref __iruid_3351)) (Str "NA") (Apply `+` String (Apply `+` String (Str "\"") (Apply escapeString String (Ref __iruid_3351))) (Str "\""))) (If (ApplyComparisonOp GT (Apply length Int32 (Ref __iruid_3357)) (I32 76)) (Apply `+` String (ApplyIR `[*:*]` String (Ref __iruid_3357) (I32 0) (I32 73)) (Str "...")) (Ref __iruid_3357)))) (qual (Let __iruid_3358 (If (IsNA (Ref __iruid_3350)) (Str "NA") (Apply format String (Str "%.2e") (MakeTuple (0) (Ref __iruid_3350)))) (If (ApplyComparisonOp GT (Apply length Int32 (Ref __iruid_3358)) (I32 76)) (Apply `+` String (ApplyIR `[*:*]` String (Ref __iruid_3358) (I32 0) (I32 73)) (Str "...")) (Ref __iruid_3358)))) (filters (Let __iruid_3359 (If (IsNA (Ref __iruid_3349)) (Str "NA") (Apply `+` String (Apply `+` String (Str "{") (Apply mkString String (ArrayMap __iruid_3360 (ToArray (Ref __iruid_3349)) (If (IsNA (Ref __iruid_3360)) (Str "NA") (Apply `+` String (Apply `+` String (Str "\"") (Apply escapeString String (Ref __iruid_3360))) (Str "\"")))) (Str ","))) (Str "}"))) (If (ApplyComparisonOp GT (Apply length Int32 (Ref __iruid_3359)) (I32 76)) (Apply `+` String (ApplyIR `[*:*]` String (Ref __iruid_3359) (I32 0) (I32 73)) (Str "...")) (Ref __iruid_3359)))) (`info.AC` (Let __iruid_3361 (If (IsNA (Ref __iruid_3348)) (Str "NA") (Apply `+` String (Apply `+` String (Str "[") (Apply mkString String (ArrayMap __iruid_3362 (Ref __iruid_3348) (If (IsNA (Ref __iruid_3362)) (Str "NA") (Apply str String (Ref __iruid_3362)))) (Str ","))) (Str "]"))) (If (ApplyComparisonOp GT (Apply length Int32 (Ref __iruid_3361)) (I32 76)) (Apply `+` String (ApplyIR `[*:*]` String (Ref __iruid_3361) (I32 0) (I32 73)) (Str "...")) (Ref __iruid_3361)))) (`info.AF` (Let __iruid_3363 (If (IsNA (Ref __iruid_3347)) (Str "NA") (Apply `+` String (Apply `+` String (Str "[") (Apply mkString String (ArrayMap __iruid_3364 (Ref __iruid_3347) (If (IsNA (Ref __iruid_3364)) (Str "NA") (Apply format String (Str "%.2e") (MakeTuple (0) (Ref __iruid_3364))))) (Str ","))) (Str "]"))) (If (ApplyComparisonOp GT (Apply length Int32 (Ref __iruid_3363)) (I32 76)) (Apply `+` String (ApplyIR `[*:*]` String (Ref __iruid_3363) (I32 0) (I32 73)) (Str "...")) (Ref __iruid_3363)))) (`info.AN` (Let __iruid_3365 (If (IsNA (Ref __iruid_3346)) (Str "NA") (Apply str String (Ref __iruid_3346))) (If (ApplyComparisonOp GT (Apply length Int32 (Ref __iruid_3365)) (I32 76)) (Apply `+` String (ApplyIR `[*:*]` String (Ref __iruid_3365) (I32 0) (I32 73)) (Str "...")) (Ref __iruid_3365)))) (`info.BaseQRankSum` (Let __iruid_3366 (If (IsNA (Ref __iruid_3345)) (Str "NA") (Apply format String (Str "%.2e") (MakeTuple (0) (Ref __iruid_3345)))) (If (ApplyComparisonOp GT (Apply length Int32 (Ref __iruid_3366)) (I32 76)) (Apply `+` String (ApplyIR `[*:*]` String (Ref __iruid_3366) (I32 0) (I32 73)) (Str "...")) (Ref __iruid_3366)))) (`info.DB` (Let __iruid_3367 (If (IsNA (Ref __iruid_3344)) (Str "NA") (Apply str String (Ref __iruid_3344))) (If (ApplyComparisonOp GT (Apply length Int32 (Ref __iruid_3367)) (I32 76)) (Apply `+` String (ApplyIR `[*:*]` String (Ref __iruid_3367) (I32 0) (I32 73)) (Str "...")) (Ref __iruid_3367)))) (`info.DP` (Let __iruid_3368 (If (IsNA (Ref __iruid_3343)) (Str "NA") (Apply str String (Ref __iruid_3343))) (If (ApplyComparisonOp GT (Apply length Int32 (Ref __iruid_3368)) (I32 76)) (Apply `+` String (ApplyIR `[*:*]` String (Ref __iruid_3368) (I32 0) (I32 73)) (Str "...")) (Ref __iruid_3368)))) (`info.FS` (Let __iruid_3369 (If (IsNA (Ref __iruid_3342)) (Str "NA") (Apply format String (Str "%.2e") (MakeTuple (0) (Ref __iruid_3342)))) (If (ApplyComparisonOp GT (Apply length Int32 (Ref __iruid_3369)) (I32 76)) (Apply `+` String (ApplyIR `[*:*]` String (Ref __iruid_3369) (I32 0) (I32 73)) (Str "...")) (Ref __iruid_3369)))) (`info.MQ` (Let __iruid_3370 (If (IsNA (Ref __iruid_3341)) (Str "NA") (Apply format String (Str "%.2e") (MakeTuple (0) (Ref __iruid_3341)))) (If (ApplyComparisonOp GT (Apply length Int32 (Ref __iruid_3370)) (I32 76)) (Apply `+` String (ApplyIR `[*:*]` String (Ref __iruid_3370) (I32 0) (I32 73)) (Str "...")) (Ref __iruid_3370)))) (`info.MQRankSum` (Let __iruid_3371 (If (IsNA (Ref __iruid_3340)) (Str "NA") (Apply format String (Str "%.2e") (MakeTuple (0) (Ref __iruid_3340)))) (If (ApplyComparisonOp GT (Apply length Int32 (Ref __iruid_3371)) (I32 76)) (Apply `+` String (ApplyIR `[*:*]` String (Ref __iruid_3371) (I32 0) (I32 73)) (Str "...")) (Ref __iruid_3371)))) (`info.MQ_DP` (Let __iruid_3372 (If (IsNA (Ref __iruid_3339)) (Str "NA") (Apply str String (Ref __iruid_3339))) (If (ApplyComparisonOp GT (Apply length Int32 (Ref __iruid_3372)) (I32 76)) (Apply `+` String (ApplyIR `[*:*]` String (Ref __iruid_3372) (I32 0) (I32 73)) (Str "...")) (Ref __iruid_3372)))) (`info.QD` (Let __iruid_3373 (If (IsNA (Ref __iruid_3338)) (Str "NA") (Apply format String (Str "%.2e") (MakeTuple (0) (Ref __iruid_3338)))) (If (ApplyComparisonOp GT (Apply length Int32 (Ref __iruid_3373)) (I32 76)) (Apply `+` String (ApplyIR `[*:*]` String (Ref __iruid_3373) (I32 0) (I32 73)) (Str "...")) (Ref __iruid_3373)))) (`info.ReadPosRankSum` (Let __iruid_3374 (If (IsNA (Ref __iruid_3337)) (Str "NA") (Apply format String (Str "%.2e") (MakeTuple (0) (Ref __iruid_3337)))) (If (ApplyComparisonOp GT (Apply length Int32 (Ref __iruid_3374)) (I32 76)) (Apply `+` String (ApplyIR `[*:*]` String (Ref __iruid_3374) (I32 0) (I32 73)) (Str "...")) (Ref __iruid_3374)))) (`info.SOR` (Let __iruid_3375 (If (IsNA (Ref __iruid_3336)) (Str "NA") (Apply format String (Str "%.2e") (MakeTuple (0) (Ref __iruid_3336)))) (If (ApplyComparisonOp GT (Apply length Int32 (Ref __iruid_3375)) (I32 76)) (Apply `+` String (ApplyIR `[*:*]` String (Ref __iruid_3375) (I32 0) (I32 73)) (Str "...")) (Ref __iruid_3375)))) (`info.VarDP` (Let __iruid_3376 (If (IsNA (Ref __iruid_3335)) (Str "NA") (Apply str String (Ref __iruid_3335))) (If (ApplyComparisonOp GT (Apply length Int32 (Ref __iruid_3376)) (I32 76)) (Apply `+` String (ApplyIR `[*:*]` String (Ref __iruid_3376) (I32 0) (I32 73)) (Str "...")) (Ref __iruid_3376)))) (a_index (Let __iruid_3377 (If (IsNA (Ref __iruid_3334)) (Str "NA") (Apply str String (Ref __iruid_3334))) (If (ApplyComparisonOp GT (Apply length Int32 (Ref __iruid_3377)) (I32 76)) (Apply `+` String (ApplyIR `[*:*]` String (Ref __iruid_3377) (I32 0) (I32 73)) (Str "...")) (Ref __iruid_3377)))) (was_split (Let __iruid_3378 (If (IsNA (Ref __iruid_3333)) (Str "NA") (Apply str String (Ref __iruid_3333))) (If (ApplyComparisonOp GT (Apply length Int32 (Ref __iruid_3378)) (I32 76)) (Apply `+` String (ApplyIR `[*:*]` String (Ref __iruid_3378) (I32 0) (I32 73)) (Str "...")) (Ref __iruid_3378)))))))))))))))))))))))))))))) 2019-11-14 20:58:23 root: INFO: interpreting non compilable node: TableCollect(TableMapRows(TableHead(TableOrderBy(TableRead(Table{global:Struct{},key:[locus,alleles],row:Struct{locus:Locus(GRCh38),alleles:Array[String],rsid:String,qual:Float64,filters:Set[String],info:Struct{AC:Array[Int32],AF:Array[Float64],AN:Int32,BaseQRankSum:Float64,DB:Boolean,DP:Int32,FS:Float64,MQ:Float64,MQRankSum:Float64,MQ_DP:Int32,QD:Float64,ReadPosRankSum:Float64,SOR:Float64,VarDP:Int32},a_index:Int32,was_split:Boolean}},false,TableNativeZippedReader(gs://broad-ukbb/broad.freeze_4/hardcalls/hardcalls.split.mt/rows,gs://broad-ukbb/broad.freeze_4/hardcalls/hardcalls.split.mt/entries,Some(NativeReaderOptions(WrappedArray([[chr20:1]-[chr20:64444167]]),struct{locus: locus, alleles: array},true)),TableSpec(65792,0.2.19-c6ec8b76eb26,../references,Table{global:Struct{},key:[locus,alleles],row:Struct{locus:Locus(GRCh38),alleles:Array[String],rsid:String,qual:Float64,filters:Set[String],info:Struct{AC:Array[Int32],AF:Array[Float64],AN:Int32,BaseQRankSum:Float64,DB:Boolean,DP:Int32,FS:Float64,MQ:Float64,MQRankSum:Float64,MQ_DP:Int32,QD:Float64,ReadPosRankSum:Float64,SOR:Float64,VarDP:Int32},a_index:Int32,was_split:Boolean}},Map(globals -> RVDComponentSpec(../globals/rows), rows -> RVDComponentSpec(rows), partition_counts -> PartitionCountsComponentSpec(List(1479, 1293, 1359, 1348, 1245, 1316, 1080, 1089, 1327, 1330, 1316, 1414, 1426, 1298, 1432, 2533, 1267, 1338, 1125, 1440, 1407, 1311, 1269, 1313, 1348, 1243, 1471, 1493, 1632, 1387, 1637, 1393, 1341, 1398, 1350, 1405, 1453, 1444, 1497, 1549, 1351, 1500, 1447, 1363, 1216, 1233, 1360, 1371, 1269, 1476, 1433, 1506, 1493, 1367, 1704, 1392, 1482, 1397, 1542, 1435, 1333, 1350, 1362, 1690, 1548, 1442, 1417, 1507, 1471, 1377, 1312, 1361, 1173, 1561, 1605, 1424, 1627, 1450, 1494, 1403, 1563, 1544, 1484, 1436, 1313, 1401, 1192, 1332, 1474, 1582, 1453, 1440, 1314, 1491, 1442, 1311, 1170, 1486, 1579, 1536, 1336, 1391, 1308, 1275, 1402, 1347, 1453, 1288, 1452, 1548, 1452, 1283, 1222, 1319, 1239, 1385, 1384, 1320, 1517, 1267, 1401, 1340, 1237, 1366, 1358, 1521, 1510, 1527, 1606, 1418, 1310, 1421, 1616, 1405, 1458, 1458, 1406, 1451, 1416, 1453, 1604, 1148, 1417, 1362, 1543, 1659, 1441, 1510, 1395, 1432, 1367, 1295, 1330, 1377, 1423, 1355, 1227, 1357, 1611, 1414, 1448, 1416, 1590, 1357, 1431, 1413, 1515, 1514, 1554, 1538, 1490, 1525, 1342, 1453, 1418, 1465, 1397, 1149, 1423, 1423, 1357, 1522, 1441, 1328, 1386, 1315, 1388, 1254, 1546, 1514, 1503, 1536, 1663, 1534, 1505, 1359, 1441, 1563, 1507, 1424, 1542, 1329, 1341, 1453, 1669, 1486, 1460, 1534, 1515, 1353, 1337, 1456, 1283, 1332, 1386, 1470, 1533, 1577, 1402, 1458, 1505, 1056, 1429, 1573, 1458, 1598, 1505, 1487, 1396, 1321, 1319, 1118, 1502, 1586, 1496, 1613, 1417, 1701, 1543, 1490, 1422, 1430, 1071, 1456, 1534, 1582, 1468, 1454, 1398, 1543, 1387, 1473, 1495, 1528, 1472, 1409, 1242, 1683, 1537, 1496, 1359, 1536, 1402, 1371, 1430, 1409, 1297, 1236, 1395, 1343, 1310, 1498, 1436, 1391, 1483, 1545, 1444, 1318, 1375, 1336, 1157, 1447, 1309, 1425, 1573, 1425, 1323, 1467, 1257, 1538, 1416, 1366, 1291, 1476, 1351, 1464, 1718, 1592, 1444, 1860, 1446, 1600, 1703, 1535, 1602, 1476, 1703, 1452, 1547, 1424, 1594, 1593, 1483, 1615, 1281, 1492, 1676, 1348, 1446, 1510, 1489, 1569, 1843, 1586, 1736, 1768, 1675, 1490, 1316, 1367, 1566, 1569, 1623, 1475, 1601, 1551, 1418, 1364, 1320, 1618, 1478, 1631, 1691, 1817, 1484, 1574, 1678, 1481, 1499, 1118, 1619, 1440, 1449, 1585, 1555, 1603, 1557, 1593, 1349, 1702, 1792, 1665, 1522, 1666, 1582, 1666, 1507, 1543, 1210, 1416, 1644, 1527, 1739, 1560, 1624, 1753, 1590, 1461, 1367, 1422, 1487, 1670, 1822, 1449, 1534, 1884, 1770, 1713, 1423, 1707, 1573, 1448, 1510, 1465, 1640, 1512, 1499, 1276, 1615, 1600, 1662, 1885, 1625, 1558, 1615, 1596, 1705, 1535, 1616, 1629, 1795, 1559, 1446, 1655, 1542, 1374, 1402, 1304, 1357, 1571, 1450, 1547, 1506, 1607, 1492, 1368, 1383, 1527, 1310, 1493, 1541, 1639, 1315, 1430, 1571, 1291, 1570, 1448, 1504, 1544, 1672, 1515, 1497, 1527, 1622, 1495, 1692, 1484, 1653, 1429, 1565, 1473, 1482, 1416, 1814, 1574, 1545, 1575, 1355, 1495, 1500, 1949, 1931, 1654, 1785, 1637, 1443, 1539, 1668, 1810, 1558, 1424, 1618, 1879, 2195, 1880, 1808, 1476, 1491, 1543, 1519, 1468, 1313, 1295, 1807, 1512, 1442, 1407, 1432, 1439, 1582, 1423, 1575, 1329, 1576, 1700, 1569, 1394, 1466, 1289, 1348, 1526, 1460, 1443, 1255, 1239, 1246, 1023, 1370, 1334, 1363, 1247, 1537, 1500, 1528, 1584, 1517, 1417, 1534, 1660, 1551, 1448, 1355, 1442, 1373, 1513, 1510, 1572, 1412, 1362, 1449, 1349, 1229, 1444, 1518, 1471, 1263, 1532, 1564, 1569, 1706, 1501, 1345, 1469, 1442, 1287, 1393, 1473, 1445, 1462, 1475, 1295, 1431, 1414, 1401, 1474, 1294, 1388, 1435, 1445, 1439, 1480, 1424, 1475, 1332, 1456, 1331, 1423, 1544, 1486, 1430, 1317, 1389, 1429, 1388, 1342, 1421, 1534, 1462, 1562, 1510, 1445, 1319, 1415, 1365, 1407, 1226, 1456, 1430, 1451, 1466, 1391, 1514, 1702, 1478, 1200, 1474, 1575, 1380, 1523, 1500, 1622, 1515, 1506, 1531, 1312, 1457, 1569, 1662, 1504, 1547, 1698, 1281, 1513, 1375, 1213, 1644, 1627, 1613, 1722, 1561, 1440, 1480, 1238, 1641, 1492, 1343, 1430, 1494, 1511, 1429, 1573, 1475, 1439, 1555, 1590, 1457, 1485, 1584, 1523, 1616, 1517, 1488, 1583, 1478, 1513, 1604, 1469, 1342, 1544, 1548, 1416, 1682, 1690, 1535, 1482, 1232, 1509, 1731, 1823, 1557, 1397, 1742, 1879, 1520, 1494, 1616, 1253, 1518, 1299, 1487, 1689, 1507, 1628, 1599, 1387, 1455, 1491, 1434, 1207, 961, 1427, 1398, 1335, 1509, 1551, 1381, 1376, 1457, 1361, 1525, 1538, 1427, 1365, 1461, 1462, 1437, 1549, 1528, 1635, 1587, 1657, 1489, 1536, 1439, 1386, 1391, 1410, 1315, 1270, 1404, 1510, 1503, 1602, 1528, 1454, 1455, 1459, 1599, 1500, 1506, 1431, 1494, 1423, 1434, 1473, 1360, 1482, 1511, 1230, 1738, 1506, 1263, 1282, 1516, 1579, 1499, 1431, 1175, 1859, 1407, 1449, 1386, 1821, 1620, 1571, 1703, 1620, 1771, 1455, 1442, 1459, 1498, 1342, 1402, 1484, 1680, 1520, 1308, 1478, 1547, 1416, 1520, 1434, 1377, 1664, 1575, 1349, 1340, 1673, 1541, 1328, 1330, 1483, 1458, 1309, 1291, 1367, 1370, 1424, 1384, 1325, 1422, 1279, 1464, 1527, 1348, 1391, 1432, 1456, 1567, 1242, 1313, 1808, 1302, 1412, 1456, 1463, 1419, 1489, 1479, 1473, 1368, 1564, 1701, 1564, 1679, 1691, 1497, 1554, 1417, 1507, 1406, 1531, 1552, 1726, 1884, 1502, 1331, 1815, 1610, 1530, 1458, 1448, 1594, 1691, 1612, 1461, 1331, 1571, 1563, 1504, 1149, 1443, 1394, 1372, 1258, 1354, 1388, 1352, 1169, 1343, 1616, 1642, 1510, 1448, 1399, 1357, 1329, 1439, 1548, 1497, 1454, 1256, 1324, 1467, 1616, 1517, 1684, 1467, 1640, 1314, 1609, 1455, 1628, 1636, 1654, 2057, 1533, 1370, 1660, 1412, 1554, 1419, 1414, 1528, 1421, 1390, 1184, 1506, 1441, 1587, 1476, 1413, 1757, 1495, 1432, 1424, 1398, 1413, 1500, 1594, 1921, 1418, 1447, 1369, 1490, 1424, 1375, 1305, 1320, 1433, 1493, 1476, 1575, 1538, 1463, 1367, 1568, 1696, 1395, 1834, 1613, 1544, 1350, 1557, 1385, 1363, 1505, 1625, 1483, 1424, 1417, 1492, 1778, 1436, 1587, 1557, 1462, 1540, 1341, 1597, 1397, 1549, 1642, 1598, 1487, 1472, 1551, 1690, 1552, 1707, 1778, 1757, 1660, 1457, 1516, 1422, 1457, 1469, 1449, 1471, 1737, 1432, 1821, 1811, 1402, 1483, 1511, 1467, 1605, 1826, 1484, 1684, 1578, 1270, 1631, 1524, 1383, 1504, 1575, 1599, 1520, 1419, 1395, 1307, 1694, 1509, 1558, 1514, 1813, 1589, 1532, 1389, 1560, 1169, 1638, 1691, 1501, 1266, 1543, 1524, 1519, 1696, 1546, 1507, 1561, 1444, 1432, 1471, 1474, 1581, 1419, 1652, 1842, 1096, 1371, 1704, 1644, 1614, 1393, 1394, 1304, 1509, 1423, 1542, 1420, 1376, 1656, 1446, 1472, 1527, 1388, 1340, 1544, 1566, 1382, 1419, 1436, 1451, 1491, 1479, 1391, 1328, 1324, 1527, 1478, 1770, 1631, 1393, 1524, 1582, 1521, 1481, 1339, 1515, 1522, 1392, 1426, 1527, 1635, 1467, 1546, 1463, 1480, 1685, 1727, 1437, 2080, 1511, 1457, 1489, 1483, 1283, 1471, 1431, 1494, 1418, 1437, 1607, 1414, 1529, 1463, 1287, 1449, 1294, 1292, 1762, 1333, 1322, 1545, 1558, 1626, 1454, 1548, 1580, 1272, 1543, 1358, 1568, 1527, 1413, 1550, 1605, 1399, 1576, 1487, 1471, 1552, 1310, 1462, 1359, 1436, 1728, 1559, 1548, 1718, 1437, 1299, 1426, 1383, 1616, 1811, 1490, 1608, 1496, 1615, 1485, 1597, 1370, 1548, 1468, 1321, 1474, 1494, 1453, 1498, 1538, 1657, 1447, 1521, 1534, 1402, 1443, 1399, 1639, 1586, 1499, 1466, 1597, 1552, 1355, 1372, 1420, 1392, 1333, 1477, 1414, 1382, 1331, 1321, 1515, 1720, 1548, 1395, 1347, 1427, 1428, 1207, 1154, 1344, 1448, 1491, 1376, 1595, 1636, 1383, 1490, 1885, 1809, 1538, 1622, 1545, 1573, 1649, 1598, 1513, 1610, 1663, 1614, 1875, 1416, 1623, 1488, 1790, 1482, 1570, 1679, 1493, 1437, 1446, 1804, 1530, 1581, 1759, 1409, 1502, 1284, 1424, 1588, 1626, 1608, 1591, 1473, 1547, 1751, 1752, 1450, 1691, 1655, 1590, 1308, 1649, 1540, 1529, 1623, 1212, 1391, 1536, 1598, 1578, 1501, 1538, 1655, 1489, 1245, 1509, 1474, 1535, 1744, 1521, 1767, 1465, 1619, 1616, 1353, 1301, 1492, 1628, 1379, 1500, 1560, 1422, 1408, 1503, 1416, 2043, 1560, 1512, 1337, 1219, 1331, 1288, 1056, 1143, 1284, 1337, 1425, 1425, 1670, 1585, 1331, 1219, 1270, 1319, 1056, 1348, 1419, 1526, 1565, 1713, 1649, 1578, 1669, 1637, 1638, 1427, 1291, 1142, 1281, 1731, 1584, 1818, 1687, 1566, 1542, 1488, 1514, 1731, 1616, 1516, 1678, 1645, 1602, 1466, 1525, 1584, 1508, 1370, 1725, 1866, 1382, 1550, 1674, 1564, 1613, 1570, 1535, 1552, 1543, 1791, 1471, 1667, 1438, 1571, 1530, 1501, 1542, 1568, 1446, 1657, 1657, 1654, 1501, 1527, 1483, 1521, 1508, 1245, 1552, 1675, 1589, 1370, 1537, 1451, 1463, 1486, 1509, 1628, 1618, 1544, 1674, 1621, 1498, 1489, 1489, 1446, 1686, 1478, 1619, 1453, 1449, 1438, 1468, 1533, 1452, 1520, 1391, 1472, 1454, 1371, 1399, 1380, 1421, 1309, 1298, 1511, 1408, 1450, 1113, 1305, 1444, 1316, 1456, 1293, 1321, 1422, 1460, 1456, 1827, 1445, 1490, 1598, 1667, 1258, 1128, 1627, 1599, 1600, 1582, 1562, 1320, 1434, 1332, 1623, 1588, 1629, 1776, 1505, 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1227, 1261, 1327, 1304, 1344, 1231, 1345, 1314, 1168, 1227, 1301, 1288, 1191, 1369, 1356, 1434, 1288, 1137, 1235, 1252, 1171, 1087, 1345, 1413, 1247, 1303, 1188, 1314, 1283, 1102, 1165, 1101, 1285, 1311, 1246, 1143, 1226, 1095, 1272, 1197, 1335, 1224, 1178, 1199, 1105, 1105, 1215, 1229, 1109, 1299, 1322, 1094, 1167, 1021, 1007, 1109, 1082, 1170, 1308, 1158, 1130, 1153, 1125, 1003, 1180, 1275, 1213, 1177, 1138, 1137, 1205, 1167, 1283, 1157, 1060, 1128, 1221, 1194, 1304, 1213, 1243, 1161, 1116, 1062, 1263, 1144, 1131, 1048, 1188, 1156, 1161, 1154, 1150, 1069, 1098, 1168, 1135, 1300, 1169, 1148, 1134, 1157, 1104, 1193, 1096, 927, 1144, 1150, 1097, 1200, 1159, 1163, 1262, 1257, 1209, 1232, 1272, 1061, 884, 1114, 1071, 1138, 1177, 1121, 1105, 1083, 1206, 1164, 1266, 1125, 1119, 1121, 1143, 1250, 1147, 1214, 1144, 1182, 1039, 1113, 1090, 842, 1126, 1011, 1147, 1175, 1195, 1192, 1248, 1194, 1201, 1166, 1116, 1118, 1188, 1132, 1324, 1267, 1124, 1075, 1217, 1399, 1203, 1203, 1264, 1214, 1018, 1018, 1314, 1244, 1286, 1332, 1252, 1205, 1094, 1281, 1222, 1258, 1149, 1058, 1153, 1192, 1174, 1084, 1164, 1140, 1449, 1297, 1179, 1263, 1263, 1306, 1247, 1306, 1342, 1312, 1107, 1146, 1176, 1421, 1339, 1294, 1360, 1048, 1220, 1346, 1289, 1525, 1374, 1220, 1299, 1248, 1298, 1418, 1303, 1070, 1213, 1376, 1249, 1221, 1117, 1213, 1229, 1134, 1264, 1316, 1188, 1362, 907, 1308, 1120, 1122, 1261, 1313, 1296, 1189, 1155, 994, 1304, 1145, 1520, 1215, 1157, 1022, 1274, 1293, 1320, 1330, 1198, 1365, 1223, 1277, 1602, 1308, 1165, 1192, 1170, 1328, 1352, 1211, 1434, 1186, 1136, 1293, 1394, 1352, 1175, 1281, 1321, 1312, 1250, 1151, 1197, 1156, 1295, 1356, 1376, 1229, 1142, 1296, 1339, 1328, 1213, 1570, 1485, 1364, 1172, 1237, 1268, 1195, 1245, 1110, 1262, 1396, 1234, 1271, 1364, 1268, 1292, 1289, 1345, 1116, 1073, 1032, 1106, 1113, 1279, 1304, 1063, 938, 941, 1078, 1237, 1354, 1009, 1138, 1061, 1251, 1004, 1106, 1187, 1045, 1082, 1137, 1023, 1149, 1039, 953, 1085, 1385, 1277, 1238, 1169, 1055, 1070, 1122, 1166, 1077, 1025, 1073, 847, 1023, 986, 958, 1033, 1028, 1181, 965, 1031, 1305, 1089, 1034, 1105, 1174, 1185, 1207, 1289, 1093, 1223, 1176, 1191, 1101, 1109, 1126, 1152, 1109, 1211, 978, 1107, 1154, 1011, 1073, 1054, 811, 1171, 1044, 1142, 1228, 1144, 1302, 1112, 1202, 1156, 1175, 1101, 1102, 1198, 1276, 1120, 1117, 1155, 1177, 1594, 1195, 1176, 1442, 1050, 1276, 1184, 899, 1149, 917, 1127, 1040, 1196, 1140, 1233, 1112, 1196, 1374, 1203, 1236, 1270, 1230, 1168, 1143, 1275, 1179, 1227, 961, 1284, 1081, 1188, 1252, 1222, 1088, 1163, 1254, 1185, 1109, 1118, 1295, 1458, 1206, 1235, 1246, 1402, 1000, 1170, 1277, 1243, 1212, 1101, 1062, 1130, 1348, 1078, 1109, 1203, 1067, 1144, 1068, 1185, 1147, 1269, 1106, 1085, 1136, 1019, 1114, 1358, 981, 1244, 1095, 1183, 1113, 1142, 995, 1133, 1069, 1177, 1343, 1138, 1074, 1412, 1154, 1248, 1272, 1145, 1110, 1239, 1106, 1254, 1089, 1032, 1092, 955, 1016, 941, 852, 841, 882, 974, 982, 1122, 1194, 1134, 1267, 1219, 1226, 1206, 1094, 1156, 1198, 1117, 1038, 1216, 1326, 1089, 1161, 1195, 1129, 1300, 1166, 1158, 1131, 1217, 1286, 1127, 1208, 1250, 1211, 1300, 1216, 1205, 1101, 1154, 1178, 1219, 1258, 1234, 1189, 1197, 1061, 1141, 1163, 1191, 1174, 1183, 1165, 1026, 1081, 1469, 1233, 1184, 1248, 1246, 1200, 1271, 1185, 1180, 1337, 1288, 1106, 1218, 1386, 1283, 1208, 1170, 1221, 1152, 1130, 1248, 1169, 1246, 1295, 1038, 1281, 1226, 1228, 1142, 1217, 1216, 1163, 1127, 1148, 1138, 1154, 1245, 1150, 1182, 1240, 1223, 1166, 1108, 1051, 1085, 1073, 1057, 1125, 1275, 1150, 1201, 1157, 1216, 1242, 1270, 1254, 1449, 1325, 1310, 1147, 1242, 1087, 1115, 1129, 992, 971, 1099, 1236, 1182, 1188, 1156, 1151, 1165, 1376, 1167, 1443, 1249, 1513, 1190, 1140, 1162, 1219, 1191, 1221, 1177, 988, 1167, 1375, 1175, 1268, 1175, 1013, 1187, 1386, 1177, 1179, 1211, 1226, 1283, 1220, 1262, 1115, 1196, 1217, 1165, 1157, 1154, 1122, 974, 1013, 1147, 1145, 1056, 1045, 1106, 1043, 1010, 1029, 1122, 875, 1045, 1157, 1175, 1156, 1169, 1174, 1247, 1259, 1151, 1316, 1164, 1308, 1337, 1309, 1107, 1165, 1474, 1243, 1364, 1308, 1217, 1160, 1097, 1220, 1377, 1096, 1284, 1293, 996, 1309, 1145, 1228, 1173, 1171, 1286, 1240, 1131, 1180, 1115, 1132, 1153, 990, 1003, 1186, 1299, 1246, 1117, 1190, 1247, 1161, 1060, 1351, 1150, 1018, 1223, 1172, 1147, 1221, 1132, 1162, 1055, 1105, 1195, 1358, 1142, 1147, 1199, 1132, 1219, 1198, 1185, 1143, 1167, 1236, 1245, 1116, 1238, 1261, 1250, 1232, 1182, 937, 1021, 1106, 1303, 1257, 1147, 1162, 1165, 1219, 1320, 1163, 1178, 1133, 1181, 1258, 1232, 1118, 1202, 1238, 1188, 1008, 1389, 1187, 1087, 1142, 1119, 1202, 1201, 1128, 969, 1192, 1157, 1142, 1184, 1173, 1130, 1213, 999, 1175, 1328, 1191, 1164, 1320, 1129, 1354, 1177, 1278, 1214, 1150, 1257, 1242, 1142, 1107, 1103, 1099, 971, 1030, 1038, 1223, 1179, 1153, 1168, 1197, 1215, 1063, 1101, 1163, 1120, 1131, 1147, 1148, 1243, 1118, 1271, 1235, 956, 1118, 1229, 1279, 1281, 1210, 1154, 1248, 1136, 994, 1177, 1083, 1209, 1134, 1188, 1179, 1255, 1069, 1152, 1164, 1107, 1199, 1242, 1342, 1226, 1204, 1130, 1083, 1031, 1205, 1104, 1451, 1241, 1173, 1228, 1121, 1153, 1163, 1066, 1236, 1313, 1161, 1087, 1574, 1242, 1081, 1409, 1271, 1413, 1192, 1188, 1220, 1255, 1126, 1174, 1293, 1077, 1255, 1249, 1107, 1047, 1097, 1170, 1293, 1098, 1230, 1301, 1299, 1182, 1133, 1161, 1140, 1136, 1160, 1099, 1159, 1137, 1210, 1065, 1352, 1210, 1068, 782, 1241, 898, 1161, 1151, 1193, 1206, 1148, 1066, 1103, 1171, 1172, 1372, 1138, 1183, 1176, 1141, 1387, 1153, 1129, 1226, 1291, 1129, 1216, 1118, 953, 1269, 1061, 1106, 1096, 1138, 1177, 1196, 1029, 1203, 1066, 1112, 1144, 1063, 1217, 1233, 1200, 1069, 1183, 1122, 1176, 1067, 988, 1083, 1050, 1039, 1110, 1176, 1121, 1061, 1117, 970, 1028, 1123, 1113, 1188, 1142, 1191, 1366, 1104, 938, 1116, 951, 870, 1007, 1076, 967, 1140, 1213, 1039, 1057, 994, 853, 930, 930, 1106, 1049, 1054, 1131, 1090, 1107, 1180, 1160, 1139, 1308, 1092, 1053, 1184, 1071, 1112, 1233, 1165, 1368, 1185, 1033, 1096, 1002, 1182, 975, 1195, 928, 1155, 978, 1020, 1345, 1299, 1169, 1164, 1233, 1126, 1147, 1065, 1228, 1162, 1105, 1075, 1110, 1144, 1007, 1093, 1112, 1116, 1138, 1193, 1044, 1104, 1193, 1071, 1166, 1223, 1097, 1276, 1048, 1190, 1108, 1143, 1163, 1008, 1142, 1064, 1103, 1164, 1137, 1090, 1135, 1105, 1061, 1084, 1311, 1019, 1130, 1367, 1209, 1202, 1344, 1185, 1165, 1291, 1109, 1132, 1117, 1194, 1210, 1191, 1140, 1154, 1087, 1016, 1069, 1536, 1422, 1097, 899, 1094, 1072, 1175, 1149, 1202, 1170, 1087, 1324, 1239, 1683, 1393, 1072, 1223, 1319, 1464, 1617, 1643, 1378, 1225, 1288, 1223, 1294, 1116, 1408, 1150, 1371, 1340, 1230, 1214, 1140, 1184, 1231, 1648, 1251, 1212, 1285, 1307, 1280, 1095, 1250, 1446, 1252, 1284, 1135, 1263, 1183, 1105, 1296, 1162, 1278, 1096, 1550, 1357, 1274, 1233, 1276, 1169, 1147, 1062, 1339, 1245, 1229, 1270, 1171, 1259, 1212, 1202, 1154, 1197, 1079, 1220, 1318, 1260, 1167, 1237, 1234, 1303, 1095, 1181, 1321, 1279, 1165, 1087, 1077, 1131, 1217, 1190, 1223, 1143, 1196, 1273, 1416, 1283, 1203, 1071, 1173, 1322, 1079, 1217, 1245, 1246, 1254, 1235, 1145, 1194, 1051, 1198, 1275, 1192, 1179, 1167, 1217, 1301, 1194, 1082, 1202, 1290, 1303, 1195, 1346, 1223, 1110, 1240, 1241, 1318, 1161, 1211, 1165, 1137, 1250, 1133, 1188, 1169, 1194, 1196, 1083, 1257, 1174, 1181, 1086, 1253, 1232, 1224, 1088, 1178, 1207, 1244, 1273, 1156, 1062, 1201, 1344, 1260, 1192, 1249, 1307, 1278, 1210, 1145, 1083, 1216, 1270, 1354, 1263, 1097, 1139, 1316, 1323, 1223, 1188, 1234, 1167, 1192, 1168, 1218, 1182, 1197, 1107, 1275, 1231, 1235, 1247, 1378, 1531, 1112, 1226, 1182, 1228, 1138, 1088, 1211, 922, 1041, 1129, 1050, 1089, 1133, 1165, 1305, 1182, 1348, 1149, 1156, 1086, 1070, 1186, 1174, 1043, 1168, 1132, 1212, 1216, 1189, 1039, 1085, 937, 1148, 1245, 1200, 1066, 1155, 1120, 994, 974, 1190, 1039, 1116, 1092, 1135, 1079, 1122, 1023, 1224, 1426, 1190, 1300, 944, 1404, 1274, 1321, 1436, 1277, 1189, 1305, 1328, 1305, 1247, 1524, 1247, 1177, 1213, 1060, 1369, 1217, 1161, 1256, 1238, 1278, 1074, 1311, 1335, 1345, 1003, 1222, 1371, 1192, 1112, 977, 1115, 1089, 1229, 1273, 1010, 1217, 1247, 1257, 1375, 1223, 1257, 1192, 1183, 1136, 1209, 835, 1000, 1168, 1260, 1299, 1238, 1204, 1216, 1219, 1195, 1059, 1237, 1246, 1149, 1168, 1109, 1189, 1251, 1202, 1381, 1167, 1786, 1253, 1276, 1216, 1117, 1936, 1083, 1234, 1221, 1121, 1051, 1108, 1199, 1102, 1052, 1171, 1155, 1061, 902, 1131, 984, 1237, 1331, 1273, 1293, 1074, 1067, 1002, 1109, 1249, 1221, 1265, 1019, 1250, 1147, 1203, 1037, 1251, 1275, 1115, 1183, 1174, 1254, 1028, 1223, 1231, 1270, 1140, 987, 1144, 1299, 1374, 1410, 1056, 1186, 1228, 1317, 1128, 1198, 1208, 1142, 1183, 1200, 1119, 1086, 1212, 1225, 1076, 1067, 1045, 869, 909, 1088, 1135, 1166, 1311, 1336, 1346, 1079, 1136, 1164, 1562, 1317, 1124, 1178, 1174, 1192, 1283, 1279, 1138, 1233, 1198, 1121, 1146, 1152, 1342, 1144, 1192, 1271, 1213, 1183, 1284, 1248, 1206, 1118, 1179, 1408, 1074, 1224, 1075, 1267, 1143, 1218, 1426, 1218, 1317, 1245, 1207, 1112, 1145, 1221, 1208, 1180, 1146, 1256, 1204, 1265, 1439, 1273, 1157, 1162, 1174, 1210, 1141, 1087, 1179, 1670, 1202, 1187, 1198, 1209, 1274, 1247, 1308, 1103, 1259, 1194, 1302, 1227, 1402, 1362, 1286, 1201, 1246, 1233, 1146, 1099, 1154, 1209, 940, 1244, 1149, 1174, 1133, 1165, 1161, 1209, 1249, 1141, 1460, 1156, 1211, 982, 1096, 1172, 1225, 1179, 1223, 1233, 1295, 1204, 1180, 1206, 1355, 1337, 1307, 1235, 994, 1029, 1073, 1259, 1113, 1105, 1152, 1332, 1256, 1352, 1190, 1244, 1078, 1162, 1266, 1273, 1269, 1143, 1180, 1174, 1064, 1268, 1309, 1245, 1263, 1188, 1053, 1054, 1069, 1082, 1154, 1337, 1212, 1211, 1246, 1135, 1144, 1433, 1167, 1246, 1127, 1253, 1359, 1125, 1140, 1117, 1240, 1279, 1273, 1157, 1162, 1147, 1079, 1070, 1281, 1187, 1179, 1201, 1336, 998, 1263, 1145, 1132, 1206, 1150, 1117, 1126, 1241, 1204, 1171, 979, 1019, 1130, 1232, 1079, 1076, 1031, 1125, 1088, 1253, 1188, 1004, 1028, 941, 1186, 879, 1052, 1133, 1044, 1029, 1428, 994, 1045, 1001, 1212, 1173, 1210, 1314, 1508, 1372, 1279, 1126, 1106, 1390, 1238, 1403, 1482, 1451, 1441, 1244, 1252, 1501, 1349, 1574, 1733, 1325, 1167, 1426, 1592, 1476, 1683, 1651, 1616, 1427, 1665, 1432, 1539, 1372, 1500, 1568, 1364, 1418, 1435, 1713, 1387, 1450, 1577, 1763, 1683, 1860, 1821, 1571, 1588, 1665, 1479, 1762, 1733, 1605, 1319, 1490, 1698, 1632, 1344, 1519, 1516, 1654, 1583, 1719, 1774, 1480, 1157, 1367, 1637, 1798, 1496, 1403, 1452, 1481, 1203, 1572, 1904, 1393, 1223, 1269, 1526, 1159, 1583, 1468, 1376, 1376, 1424, 1577, 1458, 1753, 1641, 1584, 1408, 1627, 1456, 1358, 1581, 1657, 1248, 1293, 1255, 1211, 1446, 1218, 1441, 1356, 1232, 1383, 1350, 1307, 1418, 1567, 1462, 1345, 1451, 1410, 1482, 1190, 1326, 1449, 1532, 1625, 1406, 1419, 1206, 1345, 1298, 1450, 1193, 1600, 1511, 1455, 1621, 1694, 1661, 1568, 1420, 1478, 1729, 1534, 1498, 1569, 1259, 1271, 1556, 1315, 1292, 1267, 1458, 1394, 1456, 1387, 1393, 1318, 1541, 1151, 1334, 1358, 1560, 1519, 1381, 1559, 1529, 1419, 1407, 1258, 1356, 1190, 1423, 1416, 1206, 1454, 1223, 1615, 1662, 1688, 1503, 1388, 1412, 1402, 1426, 1391, 1690, 1384, 1426, 1526, 1559, 1542, 1734, 1640, 1510, 1597, 1453, 1457, 1240, 1443, 1575, 1461, 1333, 1482, 1449, 1550, 1400, 1631, 1445, 902, 1310, 1336, 1097, 1343, 1204, 1350, 1364, 1398, 1723, 1756, 1520, 1603, 1484, 1463, 1496, 1061, 1462, 1444, 1570, 1650, 1633, 1299, 1754, 1704, 1474, 1370, 1813, 1797, 1445, 1519, 1192, 1618, 1873, 1405, 1076, 1749, 1625, 1509, 1453, 1561, 1612, 1857, 1360, 1311, 1483, 1313, 1508, 1566, 1408, 1340, 1672, 1455, 1301, 1685, 1633, 1682, 1632, 1535, 1269, 1589, 1711, 1662, 1396, 1248, 1381, 1501, 1840, 1574, 1358, 1427, 1649, 1049, 1500, 1629, 1412, 1430, 1833, 1627, 1537, 1620, 1581, 1080, 1617, 1636, 1550, 1281, 1327, 1701, 1647, 1645, 1330, 1235, 860, 1087, 1437, 1525, 1552, 1527, 1267, 1352, 1689, 1421, 1298, 1236, 1266, 1548, 1418, 1400, 1366, 1476, 1555, 1176, 1219, 1150, 1210, 1148, 1062, 1273, 1288, 1290, 1270, 846, 1253, 1398, 1374, 1291, 1304, 1062, 1237, 1256, 1547, 1354, 1168, 1203, 1418, 1270, 1533, 1555, 1397, 1588, 1938, 2242, 2513, 1971)))))),ArraySeq(SortField(locus,Ascending), SortField(alleles,Ascending))),11),Let(__iruid_3332,GetField(Ref(row,struct{locus: locus, alleles: array, rsid: str, qual: float64, filters: set, info: struct{AC: array, AF: array, AN: int32, BaseQRankSum: float64, DB: bool, DP: int32, FS: float64, MQ: float64, MQRankSum: float64, MQ_DP: int32, QD: float64, ReadPosRankSum: float64, SOR: float64, VarDP: int32}, a_index: int32, was_split: bool}),info),Let(__iruid_3333,GetField(Ref(row,struct{locus: locus, alleles: array, rsid: str, qual: float64, filters: set, info: struct{AC: array, AF: array, AN: int32, BaseQRankSum: float64, DB: bool, DP: int32, FS: float64, MQ: float64, MQRankSum: float64, MQ_DP: int32, QD: float64, ReadPosRankSum: float64, SOR: float64, VarDP: int32}, a_index: int32, was_split: bool}),was_split),Let(__iruid_3334,GetField(Ref(row,struct{locus: locus, alleles: array, rsid: str, qual: float64, filters: set, info: struct{AC: array, AF: array, AN: int32, BaseQRankSum: float64, DB: bool, DP: int32, FS: float64, MQ: float64, MQRankSum: float64, MQ_DP: int32, QD: float64, ReadPosRankSum: float64, SOR: float64, VarDP: int32}, a_index: int32, was_split: bool}),a_index),Let(__iruid_3335,GetField(Ref(__iruid_3332,struct{AC: array, AF: array, AN: int32, BaseQRankSum: float64, DB: bool, DP: int32, FS: float64, MQ: float64, MQRankSum: float64, MQ_DP: int32, QD: float64, ReadPosRankSum: float64, SOR: float64, VarDP: int32}),VarDP),Let(__iruid_3336,GetField(Ref(__iruid_3332,struct{AC: array, AF: array, AN: int32, BaseQRankSum: float64, DB: bool, DP: int32, FS: float64, MQ: float64, MQRankSum: float64, MQ_DP: int32, QD: float64, ReadPosRankSum: float64, SOR: float64, VarDP: int32}),SOR),Let(__iruid_3337,GetField(Ref(__iruid_3332,struct{AC: array, AF: array, AN: int32, BaseQRankSum: float64, DB: bool, DP: int32, FS: float64, MQ: float64, MQRankSum: float64, MQ_DP: int32, QD: float64, ReadPosRankSum: float64, SOR: float64, VarDP: int32}),ReadPosRankSum),Let(__iruid_3338,GetField(Ref(__iruid_3332,struct{AC: array, AF: array, AN: int32, BaseQRankSum: float64, DB: bool, DP: int32, FS: float64, MQ: float64, MQRankSum: float64, MQ_DP: int32, QD: float64, ReadPosRankSum: float64, SOR: float64, VarDP: int32}),QD),Let(__iruid_3339,GetField(Ref(__iruid_3332,struct{AC: array, AF: array, AN: int32, BaseQRankSum: float64, DB: bool, DP: int32, FS: float64, MQ: float64, MQRankSum: float64, MQ_DP: int32, QD: float64, ReadPosRankSum: float64, SOR: float64, VarDP: int32}),MQ_DP),Let(__iruid_3340,GetField(Ref(__iruid_3332,struct{AC: array, AF: array, AN: int32, BaseQRankSum: float64, DB: bool, DP: int32, FS: float64, MQ: float64, MQRankSum: float64, MQ_DP: int32, QD: float64, ReadPosRankSum: float64, SOR: float64, VarDP: int32}),MQRankSum),Let(__iruid_3341,GetField(Ref(__iruid_3332,struct{AC: array, AF: array, AN: int32, BaseQRankSum: float64, DB: bool, DP: int32, FS: float64, MQ: float64, MQRankSum: float64, MQ_DP: int32, QD: float64, ReadPosRankSum: float64, SOR: float64, VarDP: int32}),MQ),Let(__iruid_3342,GetField(Ref(__iruid_3332,struct{AC: array, AF: array, AN: int32, BaseQRankSum: float64, DB: bool, DP: int32, FS: float64, MQ: float64, MQRankSum: float64, MQ_DP: int32, QD: float64, ReadPosRankSum: float64, SOR: float64, VarDP: int32}),FS),Let(__iruid_3343,GetField(Ref(__iruid_3332,struct{AC: array, AF: array, AN: int32, BaseQRankSum: float64, DB: bool, DP: int32, FS: float64, MQ: float64, MQRankSum: float64, MQ_DP: int32, QD: float64, ReadPosRankSum: float64, SOR: float64, VarDP: int32}),DP),Let(__iruid_3344,GetField(Ref(__iruid_3332,struct{AC: array, AF: array, AN: int32, BaseQRankSum: float64, DB: bool, DP: int32, FS: float64, MQ: float64, MQRankSum: float64, MQ_DP: int32, QD: float64, ReadPosRankSum: float64, SOR: float64, VarDP: int32}),DB),Let(__iruid_3345,GetField(Ref(__iruid_3332,struct{AC: array, AF: array, AN: int32, BaseQRankSum: float64, DB: bool, DP: int32, FS: float64, MQ: float64, MQRankSum: float64, MQ_DP: int32, QD: float64, ReadPosRankSum: float64, SOR: float64, VarDP: int32}),BaseQRankSum),Let(__iruid_3346,GetField(Ref(__iruid_3332,struct{AC: array, AF: array, AN: int32, BaseQRankSum: float64, DB: bool, DP: int32, FS: float64, MQ: float64, MQRankSum: float64, MQ_DP: int32, QD: float64, ReadPosRankSum: float64, SOR: float64, VarDP: int32}),AN),Let(__iruid_3347,GetField(Ref(__iruid_3332,struct{AC: array, AF: array, AN: int32, BaseQRankSum: float64, DB: bool, DP: int32, FS: float64, MQ: float64, MQRankSum: float64, MQ_DP: int32, QD: float64, ReadPosRankSum: float64, SOR: float64, VarDP: int32}),AF),Let(__iruid_3348,GetField(Ref(__iruid_3332,struct{AC: array, AF: array, AN: int32, BaseQRankSum: float64, DB: bool, DP: int32, FS: float64, MQ: float64, MQRankSum: float64, MQ_DP: int32, QD: float64, ReadPosRankSum: float64, SOR: float64, VarDP: int32}),AC),Let(__iruid_3349,GetField(Ref(row,struct{locus: locus, alleles: array, rsid: str, qual: float64, filters: set, info: struct{AC: array, AF: array, AN: int32, BaseQRankSum: float64, DB: bool, DP: int32, FS: float64, MQ: float64, MQRankSum: float64, MQ_DP: int32, QD: float64, ReadPosRankSum: float64, SOR: float64, VarDP: int32}, a_index: int32, was_split: bool}),filters),Let(__iruid_3350,GetField(Ref(row,struct{locus: locus, alleles: array, rsid: str, qual: float64, filters: set, info: struct{AC: array, AF: array, AN: int32, BaseQRankSum: float64, DB: bool, DP: int32, FS: float64, MQ: float64, MQRankSum: float64, MQ_DP: int32, QD: float64, ReadPosRankSum: float64, SOR: float64, VarDP: int32}, a_index: int32, was_split: bool}),qual),Let(__iruid_3351,GetField(Ref(row,struct{locus: locus, alleles: array, rsid: str, qual: float64, filters: set, info: struct{AC: array, AF: array, AN: int32, BaseQRankSum: float64, DB: bool, DP: int32, FS: float64, MQ: float64, MQRankSum: float64, MQ_DP: int32, QD: float64, ReadPosRankSum: float64, SOR: float64, VarDP: int32}, a_index: int32, was_split: bool}),rsid),Let(__iruid_3352,GetField(Ref(row,struct{locus: locus, alleles: array, rsid: str, qual: float64, filters: set, info: struct{AC: array, AF: array, AN: int32, BaseQRankSum: float64, DB: bool, DP: int32, FS: float64, MQ: float64, MQRankSum: float64, MQ_DP: int32, QD: float64, ReadPosRankSum: float64, SOR: float64, VarDP: int32}, a_index: int32, was_split: bool}),alleles),Let(__iruid_3353,GetField(Ref(row,struct{locus: locus, alleles: array, rsid: str, qual: float64, filters: set, info: struct{AC: array, AF: array, AN: int32, BaseQRankSum: float64, DB: bool, DP: int32, FS: float64, MQ: float64, MQRankSum: float64, MQ_DP: int32, QD: float64, ReadPosRankSum: float64, SOR: float64, VarDP: int32}, a_index: int32, was_split: bool}),locus),InsertFields(SelectFields(Ref(row,struct{locus: locus, alleles: array, rsid: str, qual: float64, filters: set, info: struct{AC: array, AF: array, AN: int32, BaseQRankSum: float64, DB: bool, DP: int32, FS: float64, MQ: float64, MQRankSum: float64, MQ_DP: int32, QD: float64, ReadPosRankSum: float64, SOR: float64, VarDP: int32}, a_index: int32, was_split: bool}),WrappedArray()),ArrayBuffer((locus,Let(__iruid_3354,If(IsNA(Ref(__iruid_3353,locus)),Str(NA),Apply(str,ArrayBuffer(Ref(__iruid_3353,locus)),str)),If(ApplyComparisonOp(GT(int32,int32),Apply(length,ArrayBuffer(Ref(__iruid_3354,str)),int32),I32(76)),Apply(+,ArrayBuffer(ApplyIR([*:*],ArrayBuffer(Ref(__iruid_3354,str), I32(0), I32(73))), Str(...)),str),Ref(__iruid_3354,str)))), (alleles,Let(__iruid_3355,If(IsNA(Ref(__iruid_3352,array)),Str(NA),Apply(+,ArrayBuffer(Apply(+,ArrayBuffer(Str([), Apply(mkString,ArrayBuffer(ArrayMap(Ref(__iruid_3352,array),__iruid_3356,If(IsNA(Ref(__iruid_3356,str)),Str(NA),Apply(+,ArrayBuffer(Apply(+,ArrayBuffer(Str("), Apply(escapeString,ArrayBuffer(Ref(__iruid_3356,str)),str)),str), Str(")),str))), Str(,)),str)),str), Str(])),str)),If(ApplyComparisonOp(GT(int32,int32),Apply(length,ArrayBuffer(Ref(__iruid_3355,str)),int32),I32(76)),Apply(+,ArrayBuffer(ApplyIR([*:*],ArrayBuffer(Ref(__iruid_3355,str), I32(0), I32(73))), Str(...)),str),Ref(__iruid_3355,str)))), (rsid,Let(__iruid_3357,If(IsNA(Ref(__iruid_3351,str)),Str(NA),Apply(+,ArrayBuffer(Apply(+,ArrayBuffer(Str("), Apply(escapeString,ArrayBuffer(Ref(__iruid_3351,str)),str)),str), Str(")),str)),If(ApplyComparisonOp(GT(int32,int32),Apply(length,ArrayBuffer(Ref(__iruid_3357,str)),int32),I32(76)),Apply(+,ArrayBuffer(ApplyIR([*:*],ArrayBuffer(Ref(__iruid_3357,str), I32(0), I32(73))), Str(...)),str),Ref(__iruid_3357,str)))), (qual,Let(__iruid_3358,If(IsNA(Ref(__iruid_3350,float64)),Str(NA),Apply(format,ArrayBuffer(Str(%.2e), MakeTuple(ArraySeq((0,Ref(__iruid_3350,float64))))),str)),If(ApplyComparisonOp(GT(int32,int32),Apply(length,ArrayBuffer(Ref(__iruid_3358,str)),int32),I32(76)),Apply(+,ArrayBuffer(ApplyIR([*:*],ArrayBuffer(Ref(__iruid_3358,str), I32(0), I32(73))), Str(...)),str),Ref(__iruid_3358,str)))), (filters,Let(__iruid_3359,If(IsNA(Ref(__iruid_3349,set)),Str(NA),Apply(+,ArrayBuffer(Apply(+,ArrayBuffer(Str({), Apply(mkString,ArrayBuffer(ArrayMap(ToArray(Ref(__iruid_3349,set)),__iruid_3360,If(IsNA(Ref(__iruid_3360,str)),Str(NA),Apply(+,ArrayBuffer(Apply(+,ArrayBuffer(Str("), Apply(escapeString,ArrayBuffer(Ref(__iruid_3360,str)),str)),str), Str(")),str))), Str(,)),str)),str), Str(})),str)),If(ApplyComparisonOp(GT(int32,int32),Apply(length,ArrayBuffer(Ref(__iruid_3359,str)),int32),I32(76)),Apply(+,ArrayBuffer(ApplyIR([*:*],ArrayBuffer(Ref(__iruid_3359,str), I32(0), I32(73))), Str(...)),str),Ref(__iruid_3359,str)))), (info.AC,Let(__iruid_3361,If(IsNA(Ref(__iruid_3348,array)),Str(NA),Apply(+,ArrayBuffer(Apply(+,ArrayBuffer(Str([), Apply(mkString,ArrayBuffer(ArrayMap(Ref(__iruid_3348,array),__iruid_3362,If(IsNA(Ref(__iruid_3362,int32)),Str(NA),Apply(str,ArrayBuffer(Ref(__iruid_3362,int32)),str))), Str(,)),str)),str), Str(])),str)),If(ApplyComparisonOp(GT(int32,int32),Apply(length,ArrayBuffer(Ref(__iruid_3361,str)),int32),I32(76)),Apply(+,ArrayBuffer(ApplyIR([*:*],ArrayBuffer(Ref(__iruid_3361,str), I32(0), I32(73))), Str(...)),str),Ref(__iruid_3361,str)))), (info.AF,Let(__iruid_3363,If(IsNA(Ref(__iruid_3347,array)),Str(NA),Apply(+,ArrayBuffer(Apply(+,ArrayBuffer(Str([), Apply(mkString,ArrayBuffer(ArrayMap(Ref(__iruid_3347,array),__iruid_3364,If(IsNA(Ref(__iruid_3364,float64)),Str(NA),Apply(format,ArrayBuffer(Str(%.2e), MakeTuple(ArraySeq((0,Ref(__iruid_3364,float64))))),str))), Str(,)),str)),str), Str(])),str)),If(ApplyComparisonOp(GT(int32,int32),Apply(length,ArrayBuffer(Ref(__iruid_3363,str)),int32),I32(76)),Apply(+,ArrayBuffer(ApplyIR([*:*],ArrayBuffer(Ref(__iruid_3363,str), I32(0), I32(73))), Str(...)),str),Ref(__iruid_3363,str)))), (info.AN,Let(__iruid_3365,If(IsNA(Ref(__iruid_3346,int32)),Str(NA),Apply(str,ArrayBuffer(Ref(__iruid_3346,int32)),str)),If(ApplyComparisonOp(GT(int32,int32),Apply(length,ArrayBuffer(Ref(__iruid_3365,str)),int32),I32(76)),Apply(+,ArrayBuffer(ApplyIR([*:*],ArrayBuffer(Ref(__iruid_3365,str), I32(0), I32(73))), Str(...)),str),Ref(__iruid_3365,str)))), (info.BaseQRankSum,Let(__iruid_3366,If(IsNA(Ref(__iruid_3345,float64)),Str(NA),Apply(format,ArrayBuffer(Str(%.2e), MakeTuple(ArraySeq((0,Ref(__iruid_3345,float64))))),str)),If(ApplyComparisonOp(GT(int32,int32),Apply(length,ArrayBuffer(Ref(__iruid_3366,str)),int32),I32(76)),Apply(+,ArrayBuffer(ApplyIR([*:*],ArrayBuffer(Ref(__iruid_3366,str), I32(0), I32(73))), Str(...)),str),Ref(__iruid_3366,str)))), (info.DB,Let(__iruid_3367,If(IsNA(Ref(__iruid_3344,bool)),Str(NA),Apply(str,ArrayBuffer(Ref(__iruid_3344,bool)),str)),If(ApplyComparisonOp(GT(int32,int32),Apply(length,ArrayBuffer(Ref(__iruid_3367,str)),int32),I32(76)),Apply(+,ArrayBuffer(ApplyIR([*:*],ArrayBuffer(Ref(__iruid_3367,str), I32(0), I32(73))), Str(...)),str),Ref(__iruid_3367,str)))), (info.DP,Let(__iruid_3368,If(IsNA(Ref(__iruid_3343,int32)),Str(NA),Apply(str,ArrayBuffer(Ref(__iruid_3343,int32)),str)),If(ApplyComparisonOp(GT(int32,int32),Apply(length,ArrayBuffer(Ref(__iruid_3368,str)),int32),I32(76)),Apply(+,ArrayBuffer(ApplyIR([*:*],ArrayBuffer(Ref(__iruid_3368,str), I32(0), I32(73))), Str(...)),str),Ref(__iruid_3368,str)))), (info.FS,Let(__iruid_3369,If(IsNA(Ref(__iruid_3342,float64)),Str(NA),Apply(format,ArrayBuffer(Str(%.2e), MakeTuple(ArraySeq((0,Ref(__iruid_3342,float64))))),str)),If(ApplyComparisonOp(GT(int32,int32),Apply(length,ArrayBuffer(Ref(__iruid_3369,str)),int32),I32(76)),Apply(+,ArrayBuffer(ApplyIR([*:*],ArrayBuffer(Ref(__iruid_3369,str), I32(0), I32(73))), Str(...)),str),Ref(__iruid_3369,str)))), (info.MQ,Let(__iruid_3370,If(IsNA(Ref(__iruid_3341,float64)),Str(NA),Apply(format,ArrayBuffer(Str(%.2e), MakeTuple(ArraySeq((0,Ref(__iruid_3341,float64))))),str)),If(ApplyComparisonOp(GT(int32,int32),Apply(length,ArrayBuffer(Ref(__iruid_3370,str)),int32),I32(76)),Apply(+,ArrayBuffer(ApplyIR([*:*],ArrayBuffer(Ref(__iruid_3370,str), I32(0), I32(73))), Str(...)),str),Ref(__iruid_3370,str)))), (info.MQRankSum,Let(__iruid_3371,If(IsNA(Ref(__iruid_3340,float64)),Str(NA),Apply(format,ArrayBuffer(Str(%.2e), MakeTuple(ArraySeq((0,Ref(__iruid_3340,float64))))),str)),If(ApplyComparisonOp(GT(int32,int32),Apply(length,ArrayBuffer(Ref(__iruid_3371,str)),int32),I32(76)),Apply(+,ArrayBuffer(ApplyIR([*:*],ArrayBuffer(Ref(__iruid_3371,str), I32(0), I32(73))), Str(...)),str),Ref(__iruid_3371,str)))), (info.MQ_DP,Let(__iruid_3372,If(IsNA(Ref(__iruid_3339,int32)),Str(NA),Apply(str,ArrayBuffer(Ref(__iruid_3339,int32)),str)),If(ApplyComparisonOp(GT(int32,int32),Apply(length,ArrayBuffer(Ref(__iruid_3372,str)),int32),I32(76)),Apply(+,ArrayBuffer(ApplyIR([*:*],ArrayBuffer(Ref(__iruid_3372,str), I32(0), I32(73))), Str(...)),str),Ref(__iruid_3372,str)))), (info.QD,Let(__iruid_3373,If(IsNA(Ref(__iruid_3338,float64)),Str(NA),Apply(format,ArrayBuffer(Str(%.2e), MakeTuple(ArraySeq((0,Ref(__iruid_3338,float64))))),str)),If(ApplyComparisonOp(GT(int32,int32),Apply(length,ArrayBuffer(Ref(__iruid_3373,str)),int32),I32(76)),Apply(+,ArrayBuffer(ApplyIR([*:*],ArrayBuffer(Ref(__iruid_3373,str), I32(0), I32(73))), Str(...)),str),Ref(__iruid_3373,str)))), (info.ReadPosRankSum,Let(__iruid_3374,If(IsNA(Ref(__iruid_3337,float64)),Str(NA),Apply(format,ArrayBuffer(Str(%.2e), MakeTuple(ArraySeq((0,Ref(__iruid_3337,float64))))),str)),If(ApplyComparisonOp(GT(int32,int32),Apply(length,ArrayBuffer(Ref(__iruid_3374,str)),int32),I32(76)),Apply(+,ArrayBuffer(ApplyIR([*:*],ArrayBuffer(Ref(__iruid_3374,str), I32(0), I32(73))), Str(...)),str),Ref(__iruid_3374,str)))), (info.SOR,Let(__iruid_3375,If(IsNA(Ref(__iruid_3336,float64)),Str(NA),Apply(format,ArrayBuffer(Str(%.2e), MakeTuple(ArraySeq((0,Ref(__iruid_3336,float64))))),str)),If(ApplyComparisonOp(GT(int32,int32),Apply(length,ArrayBuffer(Ref(__iruid_3375,str)),int32),I32(76)),Apply(+,ArrayBuffer(ApplyIR([*:*],ArrayBuffer(Ref(__iruid_3375,str), I32(0), I32(73))), Str(...)),str),Ref(__iruid_3375,str)))), (info.VarDP,Let(__iruid_3376,If(IsNA(Ref(__iruid_3335,int32)),Str(NA),Apply(str,ArrayBuffer(Ref(__iruid_3335,int32)),str)),If(ApplyComparisonOp(GT(int32,int32),Apply(length,ArrayBuffer(Ref(__iruid_3376,str)),int32),I32(76)),Apply(+,ArrayBuffer(ApplyIR([*:*],ArrayBuffer(Ref(__iruid_3376,str), I32(0), I32(73))), Str(...)),str),Ref(__iruid_3376,str)))), (a_index,Let(__iruid_3377,If(IsNA(Ref(__iruid_3334,int32)),Str(NA),Apply(str,ArrayBuffer(Ref(__iruid_3334,int32)),str)),If(ApplyComparisonOp(GT(int32,int32),Apply(length,ArrayBuffer(Ref(__iruid_3377,str)),int32),I32(76)),Apply(+,ArrayBuffer(ApplyIR([*:*],ArrayBuffer(Ref(__iruid_3377,str), I32(0), I32(73))), Str(...)),str),Ref(__iruid_3377,str)))), (was_split,Let(__iruid_3378,If(IsNA(Ref(__iruid_3333,bool)),Str(NA),Apply(str,ArrayBuffer(Ref(__iruid_3333,bool)),str)),If(ApplyComparisonOp(GT(int32,int32),Apply(length,ArrayBuffer(Ref(__iruid_3378,str)),int32),I32(76)),Apply(+,ArrayBuffer(ApplyIR([*:*],ArrayBuffer(Ref(__iruid_3378,str), I32(0), I32(73))), Str(...)),str),Ref(__iruid_3378,str))))),None))))))))))))))))))))))))) 2019-11-14 20:58:23 root: INFO: instruction count: 3: is/hail/codegen/generated/C_etypeDecode_3. 2019-11-14 20:58:23 root: INFO: instruction count: 7: is/hail/codegen/generated/C_etypeDecode_3.apply 2019-11-14 20:58:23 root: INFO: instruction count: 14: is/hail/codegen/generated/C_etypeDecode_3.m0_DECODE_o_struct_of_END_TO_o_tuple_of_END 2019-11-14 20:58:24 root: INFO: instruction count: 3: is/hail/codegen/generated/C_etypeDecode_4. 2019-11-14 20:58:24 root: INFO: instruction count: 7: is/hail/codegen/generated/C_etypeDecode_4.apply 2019-11-14 20:58:24 root: INFO: instruction count: 27: is/hail/codegen/generated/C_etypeDecode_4.m0_DECODE_o_struct_of_o_struct_of_r_binaryANDr_int32ENDANDo_array_of_o_binaryANDo_binaryANDo_float64ANDo_array_of_o_binaryANDo_struct_of_o_array_of_o_int32ANDo_array_of_o_float64ANDo_int32ANDo_float64ANDo_boolANDo_int32ANDo_float64ANDo_float64ANDo_float64ANDo_int32ANDo_float64ANDo_float64ANDo_float64ANDo_int32ENDANDo_int32ANDo_boolEND_TO_o_tuple_of_o_locusANDo_array_of_o_stringANDo_stringANDo_float64ANDo_set_of_o_stringANDo_tuple_of_o_array_of_o_int32ANDo_array_of_o_float64ANDo_int32ANDo_float64ANDo_boolANDo_int32ANDo_float64ANDo_float64ANDo_float64ANDo_int32ANDo_float64ANDo_float64ANDo_float64ANDo_int32ENDANDo_int32ANDo_boolEND 2019-11-14 20:58:24 root: INFO: instruction count: 203: is/hail/codegen/generated/C_etypeDecode_4.m1_read_fields_group_0 2019-11-14 20:58:24 root: INFO: instruction count: 14: is/hail/codegen/generated/C_etypeDecode_4.m2_INPLACE_DECODE_o_struct_of_r_binaryANDr_int32END_TO_o_tuple_of_r_binaryANDr_int32END 2019-11-14 20:58:24 root: INFO: instruction count: 17: is/hail/codegen/generated/C_etypeDecode_4.m3_read_fields_group_0 2019-11-14 20:58:24 root: INFO: instruction count: 29: is/hail/codegen/generated/C_etypeDecode_4.m4_INPLACE_DECODE_r_binary_TO_r_binary 2019-11-14 20:58:24 root: INFO: instruction count: 8: is/hail/codegen/generated/C_etypeDecode_4.m5_INPLACE_DECODE_r_int32_TO_r_int32 2019-11-14 20:58:24 root: INFO: instruction count: 99: is/hail/codegen/generated/C_etypeDecode_4.m6_INPLACE_DECODE_o_array_of_o_binary_TO_o_array_of_o_binary 2019-11-14 20:58:24 root: INFO: instruction count: 29: is/hail/codegen/generated/C_etypeDecode_4.m7_INPLACE_DECODE_o_binary_TO_o_binary 2019-11-14 20:58:24 root: INFO: instruction count: 8: is/hail/codegen/generated/C_etypeDecode_4.m8_INPLACE_DECODE_o_float64_TO_o_float64 2019-11-14 20:58:24 root: INFO: instruction count: 28: is/hail/codegen/generated/C_etypeDecode_4.m9_INPLACE_DECODE_o_struct_of_o_array_of_o_int32ANDo_array_of_o_float64ANDo_int32ANDo_float64ANDo_boolANDo_int32ANDo_float64ANDo_float64ANDo_float64ANDo_int32ANDo_float64ANDo_float64ANDo_float64ANDo_int32END_TO_o_tuple_of_o_array_of_o_int32ANDo_array_of_o_float64ANDo_int32ANDo_float64ANDo_boolANDo_int32ANDo_float64ANDo_float64ANDo_float64ANDo_int32ANDo_float64ANDo_float64ANDo_float64ANDo_int32END 2019-11-14 20:58:24 root: INFO: instruction count: 353: is/hail/codegen/generated/C_etypeDecode_4.m10_read_fields_group_0 2019-11-14 20:58:24 root: INFO: instruction count: 99: is/hail/codegen/generated/C_etypeDecode_4.m11_INPLACE_DECODE_o_array_of_o_int32_TO_o_array_of_o_int32 2019-11-14 20:58:24 root: INFO: instruction count: 8: is/hail/codegen/generated/C_etypeDecode_4.m12_INPLACE_DECODE_o_int32_TO_o_int32 2019-11-14 20:58:24 root: INFO: instruction count: 99: is/hail/codegen/generated/C_etypeDecode_4.m13_INPLACE_DECODE_o_array_of_o_float64_TO_o_array_of_o_float64 2019-11-14 20:58:24 root: INFO: instruction count: 8: is/hail/codegen/generated/C_etypeDecode_4.m14_INPLACE_DECODE_o_bool_TO_o_bool 2019-11-14 20:58:24 MemoryStore: INFO: Block broadcast_3 stored as values in memory (estimated size 401.3 KB, free 21.7 GB) 2019-11-14 20:58:24 MemoryStore: INFO: Block broadcast_3_piece0 stored as bytes in memory (estimated size 28.2 KB, free 21.7 GB) 2019-11-14 20:58:24 BlockManagerInfo: INFO: Added broadcast_3_piece0 in memory on kc1-m.c.maclab-ukbb.internal:33975 (size: 28.2 KB, free: 21.7 GB) 2019-11-14 20:58:24 SparkContext: INFO: Created broadcast 3 from broadcast at HailContext.scala:617 2019-11-14 20:58:24 root: INFO: instruction count: 3: is/hail/codegen/generated/C_etypeDecode_5. 2019-11-14 20:58:24 root: INFO: instruction count: 7: is/hail/codegen/generated/C_etypeDecode_5.apply 2019-11-14 20:58:24 root: INFO: instruction count: 20: is/hail/codegen/generated/C_etypeDecode_5.m0_DECODE_o_struct_of_r_int64ANDr_array_of_r_struct_of_o_struct_of_o_struct_of_r_binaryANDr_int32ENDANDo_array_of_o_binaryENDANDr_int64ANDr_struct_of_o_int64ENDENDEND_TO_o_tuple_of_r_int64ANDr_array_of_r_tuple_of_o_tuple_of_o_locusANDo_array_of_o_stringENDANDr_int64ANDr_tuple_of_o_int64ENDENDEND 2019-11-14 20:58:24 root: INFO: instruction count: 17: is/hail/codegen/generated/C_etypeDecode_5.m1_read_fields_group_0 2019-11-14 20:58:24 root: INFO: instruction count: 8: is/hail/codegen/generated/C_etypeDecode_5.m2_INPLACE_DECODE_r_int64_TO_r_int64 2019-11-14 20:58:24 root: INFO: instruction count: 51: is/hail/codegen/generated/C_etypeDecode_5.m3_INPLACE_DECODE_r_array_of_r_struct_of_o_struct_of_o_struct_of_r_binaryANDr_int32ENDANDo_array_of_o_binaryENDANDr_int64ANDr_struct_of_o_int64ENDEND_TO_r_array_of_r_tuple_of_o_tuple_of_o_tuple_of_r_binaryANDr_int32ENDANDo_array_of_o_binaryENDANDr_int64ANDr_tuple_of_o_int64ENDEND 2019-11-14 20:58:24 root: INFO: instruction count: 21: is/hail/codegen/generated/C_etypeDecode_5.m4_INPLACE_DECODE_r_struct_of_o_struct_of_o_struct_of_r_binaryANDr_int32ENDANDo_array_of_o_binaryENDANDr_int64ANDr_struct_of_o_int64ENDEND_TO_r_tuple_of_o_tuple_of_o_tuple_of_r_binaryANDr_int32ENDANDo_array_of_o_binaryENDANDr_int64ANDr_tuple_of_o_int64ENDEND 2019-11-14 20:58:24 root: INFO: instruction count: 42: is/hail/codegen/generated/C_etypeDecode_5.m5_read_fields_group_0 2019-11-14 20:58:24 root: INFO: instruction count: 21: is/hail/codegen/generated/C_etypeDecode_5.m6_INPLACE_DECODE_o_struct_of_o_struct_of_r_binaryANDr_int32ENDANDo_array_of_o_binaryEND_TO_o_tuple_of_o_tuple_of_r_binaryANDr_int32ENDANDo_array_of_o_binaryEND 2019-11-14 20:58:24 root: INFO: instruction count: 53: is/hail/codegen/generated/C_etypeDecode_5.m7_read_fields_group_0 2019-11-14 20:58:24 root: INFO: instruction count: 14: is/hail/codegen/generated/C_etypeDecode_5.m8_INPLACE_DECODE_o_struct_of_r_binaryANDr_int32END_TO_o_tuple_of_r_binaryANDr_int32END 2019-11-14 20:58:24 root: INFO: instruction count: 17: is/hail/codegen/generated/C_etypeDecode_5.m9_read_fields_group_0 2019-11-14 20:58:24 root: INFO: instruction count: 29: is/hail/codegen/generated/C_etypeDecode_5.m10_INPLACE_DECODE_r_binary_TO_r_binary 2019-11-14 20:58:24 root: INFO: instruction count: 8: is/hail/codegen/generated/C_etypeDecode_5.m11_INPLACE_DECODE_r_int32_TO_r_int32 2019-11-14 20:58:24 root: INFO: instruction count: 99: is/hail/codegen/generated/C_etypeDecode_5.m12_INPLACE_DECODE_o_array_of_o_binary_TO_o_array_of_o_binary 2019-11-14 20:58:24 root: INFO: instruction count: 29: is/hail/codegen/generated/C_etypeDecode_5.m13_INPLACE_DECODE_o_binary_TO_o_binary 2019-11-14 20:58:24 root: INFO: instruction count: 21: is/hail/codegen/generated/C_etypeDecode_5.m14_INPLACE_DECODE_r_struct_of_o_int64END_TO_r_tuple_of_o_int64END 2019-11-14 20:58:24 root: INFO: instruction count: 28: is/hail/codegen/generated/C_etypeDecode_5.m15_read_fields_group_0 2019-11-14 20:58:24 root: INFO: instruction count: 8: is/hail/codegen/generated/C_etypeDecode_5.m16_INPLACE_DECODE_o_int64_TO_o_int64 2019-11-14 20:58:24 root: INFO: instruction count: 3: is/hail/codegen/generated/C_etypeDecode_6. 2019-11-14 20:58:24 root: INFO: instruction count: 7: is/hail/codegen/generated/C_etypeDecode_6.apply 2019-11-14 20:58:24 root: INFO: instruction count: 20: is/hail/codegen/generated/C_etypeDecode_6.m0_DECODE_o_struct_of_r_array_of_r_struct_of_r_int64ANDr_int64ANDo_struct_of_o_struct_of_r_binaryANDr_int32ENDANDo_array_of_o_binaryENDANDr_int64ANDr_struct_of_o_int64ENDENDEND_TO_o_tuple_of_r_array_of_r_tuple_of_r_int64ANDr_int64ANDo_tuple_of_o_locusANDo_array_of_o_stringENDANDr_int64ANDr_tuple_of_o_int64ENDENDEND 2019-11-14 20:58:24 root: INFO: instruction count: 10: is/hail/codegen/generated/C_etypeDecode_6.m1_read_fields_group_0 2019-11-14 20:58:24 root: INFO: instruction count: 51: is/hail/codegen/generated/C_etypeDecode_6.m2_INPLACE_DECODE_r_array_of_r_struct_of_r_int64ANDr_int64ANDo_struct_of_o_struct_of_r_binaryANDr_int32ENDANDo_array_of_o_binaryENDANDr_int64ANDr_struct_of_o_int64ENDEND_TO_r_array_of_r_tuple_of_r_int64ANDr_int64ANDo_tuple_of_o_tuple_of_r_binaryANDr_int32ENDANDo_array_of_o_binaryENDANDr_int64ANDr_tuple_of_o_int64ENDEND 2019-11-14 20:58:24 root: INFO: instruction count: 21: is/hail/codegen/generated/C_etypeDecode_6.m3_INPLACE_DECODE_r_struct_of_r_int64ANDr_int64ANDo_struct_of_o_struct_of_r_binaryANDr_int32ENDANDo_array_of_o_binaryENDANDr_int64ANDr_struct_of_o_int64ENDEND_TO_r_tuple_of_r_int64ANDr_int64ANDo_tuple_of_o_tuple_of_r_binaryANDr_int32ENDANDo_array_of_o_binaryENDANDr_int64ANDr_tuple_of_o_int64ENDEND 2019-11-14 20:58:24 root: INFO: instruction count: 56: is/hail/codegen/generated/C_etypeDecode_6.m4_read_fields_group_0 2019-11-14 20:58:24 root: INFO: instruction count: 8: is/hail/codegen/generated/C_etypeDecode_6.m5_INPLACE_DECODE_r_int64_TO_r_int64 2019-11-14 20:58:24 root: INFO: instruction count: 21: is/hail/codegen/generated/C_etypeDecode_6.m6_INPLACE_DECODE_o_struct_of_o_struct_of_r_binaryANDr_int32ENDANDo_array_of_o_binaryEND_TO_o_tuple_of_o_tuple_of_r_binaryANDr_int32ENDANDo_array_of_o_binaryEND 2019-11-14 20:58:24 root: INFO: instruction count: 53: is/hail/codegen/generated/C_etypeDecode_6.m7_read_fields_group_0 2019-11-14 20:58:24 root: INFO: instruction count: 14: is/hail/codegen/generated/C_etypeDecode_6.m8_INPLACE_DECODE_o_struct_of_r_binaryANDr_int32END_TO_o_tuple_of_r_binaryANDr_int32END 2019-11-14 20:58:24 root: INFO: instruction count: 17: is/hail/codegen/generated/C_etypeDecode_6.m9_read_fields_group_0 2019-11-14 20:58:24 root: INFO: instruction count: 29: is/hail/codegen/generated/C_etypeDecode_6.m10_INPLACE_DECODE_r_binary_TO_r_binary 2019-11-14 20:58:24 root: INFO: instruction count: 8: is/hail/codegen/generated/C_etypeDecode_6.m11_INPLACE_DECODE_r_int32_TO_r_int32 2019-11-14 20:58:24 root: INFO: instruction count: 99: is/hail/codegen/generated/C_etypeDecode_6.m12_INPLACE_DECODE_o_array_of_o_binary_TO_o_array_of_o_binary 2019-11-14 20:58:24 root: INFO: instruction count: 29: is/hail/codegen/generated/C_etypeDecode_6.m13_INPLACE_DECODE_o_binary_TO_o_binary 2019-11-14 20:58:24 root: INFO: instruction count: 21: is/hail/codegen/generated/C_etypeDecode_6.m14_INPLACE_DECODE_r_struct_of_o_int64END_TO_r_tuple_of_o_int64END 2019-11-14 20:58:24 root: INFO: instruction count: 28: is/hail/codegen/generated/C_etypeDecode_6.m15_read_fields_group_0 2019-11-14 20:58:24 root: INFO: instruction count: 8: is/hail/codegen/generated/C_etypeDecode_6.m16_INPLACE_DECODE_o_int64_TO_o_int64 2019-11-14 20:58:24 SparkContext: INFO: Starting job: runJob at ContextRDD.scala:432 2019-11-14 20:58:24 DAGScheduler: INFO: Got job 0 (runJob at ContextRDD.scala:432) with 1 output partitions 2019-11-14 20:58:24 DAGScheduler: INFO: Final stage: ResultStage 0 (runJob at ContextRDD.scala:432) 2019-11-14 20:58:24 DAGScheduler: INFO: Parents of final stage: List() 2019-11-14 20:58:24 DAGScheduler: INFO: Missing parents: List() 2019-11-14 20:58:24 DAGScheduler: INFO: Submitting ResultStage 0 (MapPartitionsRDD[2] at mapPartitions at ContextRDD.scala:263), which has no missing parents 2019-11-14 20:58:24 MemoryStore: INFO: Block broadcast_4 stored as values in memory (estimated size 196.8 KB, free 21.7 GB) 2019-11-14 20:58:24 MemoryStore: INFO: Block broadcast_4_piece0 stored as bytes in memory (estimated size 71.1 KB, free 21.7 GB) 2019-11-14 20:58:24 BlockManagerInfo: INFO: Added broadcast_4_piece0 in memory on kc1-m.c.maclab-ukbb.internal:33975 (size: 71.1 KB, free: 21.7 GB) 2019-11-14 20:58:24 SparkContext: INFO: Created broadcast 4 from broadcast at DAGScheduler.scala:1161 2019-11-14 20:58:24 DAGScheduler: INFO: Submitting 1 missing tasks from ResultStage 0 (MapPartitionsRDD[2] at mapPartitions at ContextRDD.scala:263) (first 15 tasks are for partitions Vector(0)) 2019-11-14 20:58:24 YarnScheduler: INFO: Adding task set 0.0 with 1 tasks 2019-11-14 20:58:24 FairSchedulableBuilder: INFO: Added task set TaskSet_0.0 tasks to pool default 2019-11-14 20:58:24 TaskSetManager: INFO: Starting task 0.0 in stage 0.0 (TID 0, kc1-w-0.c.maclab-ukbb.internal, executor 2, partition 0, PROCESS_LOCAL, 8165 bytes) 2019-11-14 20:58:25 BlockManagerInfo: INFO: Added broadcast_4_piece0 in memory on kc1-w-0.c.maclab-ukbb.internal:41051 (size: 71.1 KB, free: 9.5 GB) 2019-11-14 20:58:25 BlockManagerInfo: INFO: Added broadcast_3_piece0 in memory on kc1-w-0.c.maclab-ukbb.internal:41051 (size: 28.2 KB, free: 9.5 GB) 2019-11-14 20:58:27 TaskSetManager: INFO: Finished task 0.0 in stage 0.0 (TID 0) in 2983 ms on kc1-w-0.c.maclab-ukbb.internal (executor 2) (1/1) 2019-11-14 20:58:27 YarnScheduler: INFO: Removed TaskSet 0.0, whose tasks have all completed, from pool default 2019-11-14 20:58:27 DAGScheduler: INFO: ResultStage 0 (runJob at ContextRDD.scala:432) finished in 3.265 s 2019-11-14 20:58:27 DAGScheduler: INFO: Job 0 finished: runJob at ContextRDD.scala:432, took 3.322782 s 2019-11-14 20:58:27 root: INFO: couldn't lower TableMapRows: is.hail.expr.ir.agg.UnsupportedExtraction: no scans to extract in TableMapRows 2019-11-14 20:58:28 root: INFO: initop (Begin) 2019-11-14 20:58:28 root: INFO: optimize (Compile): before: IR size 1: (Begin) 2019-11-14 20:58:28 root: INFO: optimize (Compile): after: IR size 1: (Begin) 2019-11-14 20:58:28 root: INFO: instruction count: 3: is/hail/codegen/generated/C7. 2019-11-14 20:58:28 root: INFO: instruction count: 15: is/hail/codegen/generated/C7.apply 2019-11-14 20:58:28 root: INFO: instruction count: 16: is/hail/codegen/generated/C7.apply 2019-11-14 20:58:28 root: INFO: instruction count: 14: is/hail/codegen/generated/C7.setPartitionIndex 2019-11-14 20:58:28 root: INFO: instruction count: 6: is/hail/codegen/generated/C7.addPartitionRegion 2019-11-14 20:58:28 root: INFO: seqop (Begin) 2019-11-14 20:58:28 root: INFO: optimize (Compile): before: IR size 1: (Begin) 2019-11-14 20:58:28 root: INFO: optimize (Compile): after: IR size 1: (Begin) 2019-11-14 20:58:28 root: INFO: instruction count: 3: is/hail/codegen/generated/C8. 2019-11-14 20:58:28 root: INFO: instruction count: 15: is/hail/codegen/generated/C8.apply 2019-11-14 20:58:28 root: INFO: instruction count: 22: is/hail/codegen/generated/C8.apply 2019-11-14 20:58:28 root: INFO: instruction count: 14: is/hail/codegen/generated/C8.setPartitionIndex 2019-11-14 20:58:28 root: INFO: instruction count: 6: is/hail/codegen/generated/C8.addPartitionRegion 2019-11-14 20:58:28 root: INFO: optimize (Compile): before: IR size 547: (Let __iruid_3332 (GetField info (Ref row)) (Let __iruid_3333 (GetField was_split (Ref row)) (Let __iruid_3334 (GetField a_index (Ref row)) (Let __iruid_3335 (GetField VarDP (Ref __iruid_3332)) (Let __iruid_3336 (GetField SOR (Ref __iruid_3332)) (Let __iruid_3337 (GetField ReadPosRankSum (Ref __iruid_3332)) (Let __iruid_3338 (GetField QD (Ref __iruid_3332)) (Let __iruid_3339 (GetField MQ_DP (Ref __iruid_3332)) (Let __iruid_3340 (GetField MQRankSum (Ref __iruid_3332)) (Let __iruid_3341 (GetField MQ (Ref __iruid_3332)) (Let __iruid_3342 (GetField FS (Ref __iruid_3332)) (Let __iruid_3343 (GetField DP (Ref __iruid_3332)) (Let __iruid_3344 (GetField DB (Ref __iruid_3332)) (Let __iruid_3345 (GetField BaseQRankSum (Ref __iruid_3332)) (Let __iruid_3346 (GetField AN (Ref __iruid_3332)) (Let __iruid_3347 (GetField AF (Ref __iruid_3332)) (Let __iruid_3348 (GetField AC (Ref __iruid_3332)) (Let __iruid_3349 (GetField filters (Ref row)) (Let __iruid_3350 (GetField qual (Ref row)) (Let __iruid_3351 (GetField rsid (Ref row)) (Let __iruid_3352 (GetField alleles (Ref row)) (Let __iruid_3353 (GetField locus (Ref row)) (InsertFields (SelectFields () (Ref row)) None (locus (Let __iruid_3354 (If (IsNA (Ref __iruid_3353)) (Str "NA") (Apply str String (Ref __iruid_3353))) (If (ApplyComparisonOp GT (Apply length Int32 (Ref __iruid_3354)) (I32 76)) (Apply `+` String (ApplyIR `[*:*]` String (Ref __iruid_3354) (I32 0) (I32 73)) (Str "...")) (Ref __iruid_3354)))) (alleles (Let __iruid_3355 (If (IsNA (Ref __iruid_3352)) (Str "NA") (Apply `+` String (Apply `+` String (Str "[") (Apply mkString String (ArrayMap __iruid_3356 (Ref __iruid_3352) (If (IsNA (Ref __iruid_3356)) (Str "NA") (Apply `+` String (Apply `+` String (Str "\"") (Apply escapeString String (Ref __iruid_3356))) (Str "\"")))) (Str ","))) (Str "]"))) (If (ApplyComparisonOp GT (Apply length Int32 (Ref __iruid_3355)) (I32 76)) (Apply `+` String (ApplyIR `[*:*]` String (Ref __iruid_3355) (I32 0) (I32 73)) (Str "...")) (Ref __iruid_3355)))) (rsid (Let __iruid_3357 (If (IsNA (Ref __iruid_3351)) (Str "NA") (Apply `+` String (Apply `+` String (Str "\"") (Apply escapeString String (Ref __iruid_3351))) (Str "\""))) (If (ApplyComparisonOp GT (Apply length Int32 (Ref __iruid_3357)) (I32 76)) (Apply `+` String (ApplyIR `[*:*]` String (Ref __iruid_3357) (I32 0) (I32 73)) (Str "...")) (Ref __iruid_3357)))) (qual (Let __iruid_3358 (If (IsNA (Ref __iruid_3350)) (Str "NA") (Apply format String (Str "%.2e") (MakeTuple (0) (Ref __iruid_3350)))) (If (ApplyComparisonOp GT (Apply length Int32 (Ref __iruid_3358)) (I32 76)) (Apply `+` String (ApplyIR `[*:*]` String (Ref __iruid_3358) (I32 0) (I32 73)) (Str "...")) (Ref __iruid_3358)))) (filters (Let __iruid_3359 (If (IsNA (Ref __iruid_3349)) (Str "NA") (Apply `+` String (Apply `+` String (Str "{") (Apply mkString String (ArrayMap __iruid_3360 (ToArray (Ref __iruid_3349)) (If (IsNA (Ref __iruid_3360)) (Str "NA") (Apply `+` String (Apply `+` String (Str "\"") (Apply escapeString String (Ref __iruid_3360))) (Str "\"")))) (Str ","))) (Str "}"))) (If (ApplyComparisonOp GT (Apply length Int32 (Ref __iruid_3359)) (I32 76)) (Apply `+` String (ApplyIR `[*:*]` String (Ref __iruid_3359) (I32 0) (I32 73)) (Str "...")) (Ref __iruid_3359)))) (`info.AC` (Let __iruid_3361 (If (IsNA (Ref __iruid_3348)) (Str "NA") (Apply `+` String (Apply `+` String (Str "[") (Apply mkString String (ArrayMap __iruid_3362 (Ref __iruid_3348) (If (IsNA (Ref __iruid_3362)) (Str "NA") (Apply str String (Ref __iruid_3362)))) (Str ","))) (Str "]"))) (If (ApplyComparisonOp GT (Apply length Int32 (Ref __iruid_3361)) (I32 76)) (Apply `+` String (ApplyIR `[*:*]` String (Ref __iruid_3361) (I32 0) (I32 73)) (Str "...")) (Ref __iruid_3361)))) (`info.AF` (Let __iruid_3363 (If (IsNA (Ref __iruid_3347)) (Str "NA") (Apply `+` String (Apply `+` String (Str "[") (Apply mkString String (ArrayMap __iruid_3364 (Ref __iruid_3347) (If (IsNA (Ref __iruid_3364)) (Str "NA") (Apply format String (Str "%.2e") (MakeTuple (0) (Ref __iruid_3364))))) (Str ","))) (Str "]"))) (If (ApplyComparisonOp GT (Apply length Int32 (Ref __iruid_3363)) (I32 76)) (Apply `+` String (ApplyIR `[*:*]` String (Ref __iruid_3363) (I32 0) (I32 73)) (Str "...")) (Ref __iruid_3363)))) (`info.AN` (Let __iruid_3365 (If (IsNA (Ref __iruid_3346)) (Str "NA") (Apply str String (Ref __iruid_3346))) (If (ApplyComparisonOp GT (Apply length Int32 (Ref __iruid_3365)) (I32 76)) (Apply `+` String (ApplyIR `[*:*]` String (Ref __iruid_3365) (I32 0) (I32 73)) (Str "...")) (Ref __iruid_3365)))) (`info.BaseQRankSum` (Let __iruid_3366 (If (IsNA (Ref __iruid_3345)) (Str "NA") (Apply format String (Str "%.2e") (MakeTuple (0) (Ref __iruid_3345)))) (If (ApplyComparisonOp GT (Apply length Int32 (Ref __iruid_3366)) (I32 76)) (Apply `+` String (ApplyIR `[*:*]` String (Ref __iruid_3366) (I32 0) (I32 73)) (Str "...")) (Ref __iruid_3366)))) (`info.DB` (Let __iruid_3367 (If (IsNA (Ref __iruid_3344)) (Str "NA") (Apply str String (Ref __iruid_3344))) (If (ApplyComparisonOp GT (Apply length Int32 (Ref __iruid_3367)) (I32 76)) (Apply `+` String (ApplyIR `[*:*]` String (Ref __iruid_3367) (I32 0) (I32 73)) (Str "...")) (Ref __iruid_3367)))) (`info.DP` (Let __iruid_3368 (If (IsNA (Ref __iruid_3343)) (Str "NA") (Apply str String (Ref __iruid_3343))) (If (ApplyComparisonOp GT (Apply length Int32 (Ref __iruid_3368)) (I32 76)) (Apply `+` String (ApplyIR `[*:*]` String (Ref __iruid_3368) (I32 0) (I32 73)) (Str "...")) (Ref __iruid_3368)))) (`info.FS` (Let __iruid_3369 (If (IsNA (Ref __iruid_3342)) (Str "NA") (Apply format String (Str "%.2e") (MakeTuple (0) (Ref __iruid_3342)))) (If (ApplyComparisonOp GT (Apply length Int32 (Ref __iruid_3369)) (I32 76)) (Apply `+` String (ApplyIR `[*:*]` String (Ref __iruid_3369) (I32 0) (I32 73)) (Str "...")) (Ref __iruid_3369)))) (`info.MQ` (Let __iruid_3370 (If (IsNA (Ref __iruid_3341)) (Str "NA") (Apply format String (Str "%.2e") (MakeTuple (0) (Ref __iruid_3341)))) (If (ApplyComparisonOp GT (Apply length Int32 (Ref __iruid_3370)) (I32 76)) (Apply `+` String (ApplyIR `[*:*]` String (Ref __iruid_3370) (I32 0) (I32 73)) (Str "...")) (Ref __iruid_3370)))) (`info.MQRankSum` (Let __iruid_3371 (If (IsNA (Ref __iruid_3340)) (Str "NA") (Apply format String (Str "%.2e") (MakeTuple (0) (Ref __iruid_3340)))) (If (ApplyComparisonOp GT (Apply length Int32 (Ref __iruid_3371)) (I32 76)) (Apply `+` String (ApplyIR `[*:*]` String (Ref __iruid_3371) (I32 0) (I32 73)) (Str "...")) (Ref __iruid_3371)))) (`info.MQ_DP` (Let __iruid_3372 (If (IsNA (Ref __iruid_3339)) (Str "NA") (Apply str String (Ref __iruid_3339))) (If (ApplyComparisonOp GT (Apply length Int32 (Ref __iruid_3372)) (I32 76)) (Apply `+` String (ApplyIR `[*:*]` String (Ref __iruid_3372) (I32 0) (I32 73)) (Str "...")) (Ref __iruid_3372)))) (`info.QD` (Let __iruid_3373 (If (IsNA (Ref __iruid_3338)) (Str "NA") (Apply format String (Str "%.2e") (MakeTuple (0) (Ref __iruid_3338)))) (If (ApplyComparisonOp GT (Apply length Int32 (Ref __iruid_3373)) (I32 76)) (Apply `+` String (ApplyIR `[*:*]` String (Ref __iruid_3373) (I32 0) (I32 73)) (Str "...")) (Ref __iruid_3373)))) (`info.ReadPosRankSum` (Let __iruid_3374 (If (IsNA (Ref __iruid_3337)) (Str "NA") (Apply format String (Str "%.2e") (MakeTuple (0) (Ref __iruid_3337)))) (If (ApplyComparisonOp GT (Apply length Int32 (Ref __iruid_3374)) (I32 76)) (Apply `+` String (ApplyIR `[*:*]` String (Ref __iruid_3374) (I32 0) (I32 73)) (Str "...")) (Ref __iruid_3374)))) (`info.SOR` (Let __iruid_3375 (If (IsNA (Ref __iruid_3336)) (Str "NA") (Apply format String (Str "%.2e") (MakeTuple (0) (Ref __iruid_3336)))) (If (ApplyComparisonOp GT (Apply length Int32 (Ref __iruid_3375)) (I32 76)) (Apply `+` String (ApplyIR `[*:*]` String (Ref __iruid_3375) (I32 0) (I32 73)) (Str "...")) (Ref __iruid_3375)))) (`info.VarDP` (Let __iruid_3376 (If (IsNA (Ref __iruid_3335)) (Str "NA") (Apply str String (Ref __iruid_3335))) (If (ApplyComparisonOp GT (Apply length Int32 (Ref __iruid_3376)) (I32 76)) (Apply `+` String (ApplyIR `[*:*]` String (Ref __iruid_3376) (I32 0) (I32 73)) (Str "...")) (Ref __iruid_3376)))) (a_index (Let __iruid_3377 (If (IsNA (Ref __iruid_3334)) (Str "NA") (Apply str String (Ref __iruid_3334))) (If (ApplyComparisonOp GT (Apply length Int32 (Ref __iruid_3377)) (I32 76)) (Apply `+` String (ApplyIR `[*:*]` String (Ref __iruid_3377) (I32 0) (I32 73)) (Str "...")) (Ref __iruid_3377)))) (was_split (Let __iruid_3378 (If (IsNA (Ref __iruid_3333)) (Str "NA") (Apply str String (Ref __iruid_3333))) (If (ApplyComparisonOp GT (Apply length Int32 (Ref __iruid_3378)) (I32 76)) (Apply `+` String (ApplyIR `[*:*]` String (Ref __iruid_3378) (I32 0) (I32 73)) (Str "...")) (Ref __iruid_3378))))))))))))))))))))))))))) 2019-11-14 20:58:28 root: INFO: optimize (Compile): after: IR size 547: (Let __iruid_4860 (GetField info (Ref row)) (Let __iruid_4861 (GetField was_split (Ref row)) (Let __iruid_4862 (GetField a_index (Ref row)) (Let __iruid_4863 (GetField VarDP (Ref __iruid_4860)) (Let __iruid_4864 (GetField SOR (Ref __iruid_4860)) (Let __iruid_4865 (GetField ReadPosRankSum (Ref __iruid_4860)) (Let __iruid_4866 (GetField QD (Ref __iruid_4860)) (Let __iruid_4867 (GetField MQ_DP (Ref __iruid_4860)) (Let __iruid_4868 (GetField MQRankSum (Ref __iruid_4860)) (Let __iruid_4869 (GetField MQ (Ref __iruid_4860)) (Let __iruid_4870 (GetField FS (Ref __iruid_4860)) (Let __iruid_4871 (GetField DP (Ref __iruid_4860)) (Let __iruid_4872 (GetField DB (Ref __iruid_4860)) (Let __iruid_4873 (GetField BaseQRankSum (Ref __iruid_4860)) (Let __iruid_4874 (GetField AN (Ref __iruid_4860)) (Let __iruid_4875 (GetField AF (Ref __iruid_4860)) (Let __iruid_4876 (GetField AC (Ref __iruid_4860)) (Let __iruid_4877 (GetField filters (Ref row)) (Let __iruid_4878 (GetField qual (Ref row)) (Let __iruid_4879 (GetField rsid (Ref row)) (Let __iruid_4880 (GetField alleles (Ref row)) (Let __iruid_4881 (GetField locus (Ref row)) (InsertFields (SelectFields () (Ref row)) None (locus (Let __iruid_4882 (If (IsNA (Ref __iruid_4881)) (Str "NA") (Apply str String (Ref __iruid_4881))) (If (ApplyComparisonOp GT (Apply length Int32 (Ref __iruid_4882)) (I32 76)) (Apply `+` String (ApplyIR `[*:*]` String (Ref __iruid_4882) (I32 0) (I32 73)) (Str "...")) (Ref __iruid_4882)))) (alleles (Let __iruid_4883 (If (IsNA (Ref __iruid_4880)) (Str "NA") (Apply `+` String (Apply `+` String (Str "[") (Apply mkString String (ArrayMap __iruid_4884 (Ref __iruid_4880) (If (IsNA (Ref __iruid_4884)) (Str "NA") (Apply `+` String (Apply `+` String (Str "\"") (Apply escapeString String (Ref __iruid_4884))) (Str "\"")))) (Str ","))) (Str "]"))) (If (ApplyComparisonOp GT (Apply length Int32 (Ref __iruid_4883)) (I32 76)) (Apply `+` String (ApplyIR `[*:*]` String (Ref __iruid_4883) (I32 0) (I32 73)) (Str "...")) (Ref __iruid_4883)))) (rsid (Let __iruid_4885 (If (IsNA (Ref __iruid_4879)) (Str "NA") (Apply `+` String (Apply `+` String (Str "\"") (Apply escapeString String (Ref __iruid_4879))) (Str "\""))) (If (ApplyComparisonOp GT (Apply length Int32 (Ref __iruid_4885)) (I32 76)) (Apply `+` String (ApplyIR `[*:*]` String (Ref __iruid_4885) (I32 0) (I32 73)) (Str "...")) (Ref __iruid_4885)))) (qual (Let __iruid_4886 (If (IsNA (Ref __iruid_4878)) (Str "NA") (Apply format String (Str "%.2e") (MakeTuple (0) (Ref __iruid_4878)))) (If (ApplyComparisonOp GT (Apply length Int32 (Ref __iruid_4886)) (I32 76)) (Apply `+` String (ApplyIR `[*:*]` String (Ref __iruid_4886) (I32 0) (I32 73)) (Str "...")) (Ref __iruid_4886)))) (filters (Let __iruid_4887 (If (IsNA (Ref __iruid_4877)) (Str "NA") (Apply `+` String (Apply `+` String (Str "{") (Apply mkString String (ArrayMap __iruid_4888 (ToArray (Ref __iruid_4877)) (If (IsNA (Ref __iruid_4888)) (Str "NA") (Apply `+` String (Apply `+` String (Str "\"") (Apply escapeString String (Ref __iruid_4888))) (Str "\"")))) (Str ","))) (Str "}"))) (If (ApplyComparisonOp GT (Apply length Int32 (Ref __iruid_4887)) (I32 76)) (Apply `+` String (ApplyIR `[*:*]` String (Ref __iruid_4887) (I32 0) (I32 73)) (Str "...")) (Ref __iruid_4887)))) (`info.AC` (Let __iruid_4889 (If (IsNA (Ref __iruid_4876)) (Str "NA") (Apply `+` String (Apply `+` String (Str "[") (Apply mkString String (ArrayMap __iruid_4890 (Ref __iruid_4876) (If (IsNA (Ref __iruid_4890)) (Str "NA") (Apply str String (Ref __iruid_4890)))) (Str ","))) (Str "]"))) (If (ApplyComparisonOp GT (Apply length Int32 (Ref __iruid_4889)) (I32 76)) (Apply `+` String (ApplyIR `[*:*]` String (Ref __iruid_4889) (I32 0) (I32 73)) (Str "...")) (Ref __iruid_4889)))) (`info.AF` (Let __iruid_4891 (If (IsNA (Ref __iruid_4875)) (Str "NA") (Apply `+` String (Apply `+` String (Str "[") (Apply mkString String (ArrayMap __iruid_4892 (Ref __iruid_4875) (If (IsNA (Ref __iruid_4892)) (Str "NA") (Apply format String (Str "%.2e") (MakeTuple (0) (Ref __iruid_4892))))) (Str ","))) (Str "]"))) (If (ApplyComparisonOp GT (Apply length Int32 (Ref __iruid_4891)) (I32 76)) (Apply `+` String (ApplyIR `[*:*]` String (Ref __iruid_4891) (I32 0) (I32 73)) (Str "...")) (Ref __iruid_4891)))) (`info.AN` (Let __iruid_4893 (If (IsNA (Ref __iruid_4874)) (Str "NA") (Apply str String (Ref __iruid_4874))) (If (ApplyComparisonOp GT (Apply length Int32 (Ref __iruid_4893)) (I32 76)) (Apply `+` String (ApplyIR `[*:*]` String (Ref __iruid_4893) (I32 0) (I32 73)) (Str "...")) (Ref __iruid_4893)))) (`info.BaseQRankSum` (Let __iruid_4894 (If (IsNA (Ref __iruid_4873)) (Str "NA") (Apply format String (Str "%.2e") (MakeTuple (0) (Ref __iruid_4873)))) (If (ApplyComparisonOp GT (Apply length Int32 (Ref __iruid_4894)) (I32 76)) (Apply `+` String (ApplyIR `[*:*]` String (Ref __iruid_4894) (I32 0) (I32 73)) (Str "...")) (Ref __iruid_4894)))) (`info.DB` (Let __iruid_4895 (If (IsNA (Ref __iruid_4872)) (Str "NA") (Apply str String (Ref __iruid_4872))) (If (ApplyComparisonOp GT (Apply length Int32 (Ref __iruid_4895)) (I32 76)) (Apply `+` String (ApplyIR `[*:*]` String (Ref __iruid_4895) (I32 0) (I32 73)) (Str "...")) (Ref __iruid_4895)))) (`info.DP` (Let __iruid_4896 (If (IsNA (Ref __iruid_4871)) (Str "NA") (Apply str String (Ref __iruid_4871))) (If (ApplyComparisonOp GT (Apply length Int32 (Ref __iruid_4896)) (I32 76)) (Apply `+` String (ApplyIR `[*:*]` String (Ref __iruid_4896) (I32 0) (I32 73)) (Str "...")) (Ref __iruid_4896)))) (`info.FS` (Let __iruid_4897 (If (IsNA (Ref __iruid_4870)) (Str "NA") (Apply format String (Str "%.2e") (MakeTuple (0) (Ref __iruid_4870)))) (If (ApplyComparisonOp GT (Apply length Int32 (Ref __iruid_4897)) (I32 76)) (Apply `+` String (ApplyIR `[*:*]` String (Ref __iruid_4897) (I32 0) (I32 73)) (Str "...")) (Ref __iruid_4897)))) (`info.MQ` (Let __iruid_4898 (If (IsNA (Ref __iruid_4869)) (Str "NA") (Apply format String (Str "%.2e") (MakeTuple (0) (Ref __iruid_4869)))) (If (ApplyComparisonOp GT (Apply length Int32 (Ref __iruid_4898)) (I32 76)) (Apply `+` String (ApplyIR `[*:*]` String (Ref __iruid_4898) (I32 0) (I32 73)) (Str "...")) (Ref __iruid_4898)))) (`info.MQRankSum` (Let __iruid_4899 (If (IsNA (Ref __iruid_4868)) (Str "NA") (Apply format String (Str "%.2e") (MakeTuple (0) (Ref __iruid_4868)))) (If (ApplyComparisonOp GT (Apply length Int32 (Ref __iruid_4899)) (I32 76)) (Apply `+` String (ApplyIR `[*:*]` String (Ref __iruid_4899) (I32 0) (I32 73)) (Str "...")) (Ref __iruid_4899)))) (`info.MQ_DP` (Let __iruid_4900 (If (IsNA (Ref __iruid_4867)) (Str "NA") (Apply str String (Ref __iruid_4867))) (If (ApplyComparisonOp GT (Apply length Int32 (Ref __iruid_4900)) (I32 76)) (Apply `+` String (ApplyIR `[*:*]` String (Ref __iruid_4900) (I32 0) (I32 73)) (Str "...")) (Ref __iruid_4900)))) (`info.QD` (Let __iruid_4901 (If (IsNA (Ref __iruid_4866)) (Str "NA") (Apply format String (Str "%.2e") (MakeTuple (0) (Ref __iruid_4866)))) (If (ApplyComparisonOp GT (Apply length Int32 (Ref __iruid_4901)) (I32 76)) (Apply `+` String (ApplyIR `[*:*]` String (Ref __iruid_4901) (I32 0) (I32 73)) (Str "...")) (Ref __iruid_4901)))) (`info.ReadPosRankSum` (Let __iruid_4902 (If (IsNA (Ref __iruid_4865)) (Str "NA") (Apply format String (Str "%.2e") (MakeTuple (0) (Ref __iruid_4865)))) (If (ApplyComparisonOp GT (Apply length Int32 (Ref __iruid_4902)) (I32 76)) (Apply `+` String (ApplyIR `[*:*]` String (Ref __iruid_4902) (I32 0) (I32 73)) (Str "...")) (Ref __iruid_4902)))) (`info.SOR` (Let __iruid_4903 (If (IsNA (Ref __iruid_4864)) (Str "NA") (Apply format String (Str "%.2e") (MakeTuple (0) (Ref __iruid_4864)))) (If (ApplyComparisonOp GT (Apply length Int32 (Ref __iruid_4903)) (I32 76)) (Apply `+` String (ApplyIR `[*:*]` String (Ref __iruid_4903) (I32 0) (I32 73)) (Str "...")) (Ref __iruid_4903)))) (`info.VarDP` (Let __iruid_4904 (If (IsNA (Ref __iruid_4863)) (Str "NA") (Apply str String (Ref __iruid_4863))) (If (ApplyComparisonOp GT (Apply length Int32 (Ref __iruid_4904)) (I32 76)) (Apply `+` String (ApplyIR `[*:*]` String (Ref __iruid_4904) (I32 0) (I32 73)) (Str "...")) (Ref __iruid_4904)))) (a_index (Let __iruid_4905 (If (IsNA (Ref __iruid_4862)) (Str "NA") (Apply str String (Ref __iruid_4862))) (If (ApplyComparisonOp GT (Apply length Int32 (Ref __iruid_4905)) (I32 76)) (Apply `+` String (ApplyIR `[*:*]` String (Ref __iruid_4905) (I32 0) (I32 73)) (Str "...")) (Ref __iruid_4905)))) (was_split (Let __iruid_4906 (If (IsNA (Ref __iruid_4861)) (Str "NA") (Apply str String (Ref __iruid_4861))) (If (ApplyComparisonOp GT (Apply length Int32 (Ref __iruid_4906)) (I32 76)) (Apply `+` String (ApplyIR `[*:*]` String (Ref __iruid_4906) (I32 0) (I32 73)) (Str "...")) (Ref __iruid_4906))))))))))))))))))))))))))) 2019-11-14 20:58:28 root: INFO: instruction count: 3: is/hail/codegen/generated/C_etypeEncode_10. 2019-11-14 20:58:28 root: INFO: instruction count: 7: is/hail/codegen/generated/C_etypeEncode_10.apply 2019-11-14 20:58:28 root: INFO: instruction count: 11: is/hail/codegen/generated/C_etypeEncode_10.m0_ENCODE_o_tuple_of_o_stringANDo_stringANDo_stringANDo_stringANDo_stringANDo_stringANDo_stringANDo_stringANDo_stringEND_TO_o_struct_of_o_binaryANDo_binaryANDo_binaryANDo_binaryANDo_binaryANDo_binaryANDo_binaryANDo_binaryANDo_binaryEND 2019-11-14 20:58:28 root: INFO: instruction count: 165: is/hail/codegen/generated/C_etypeEncode_10.m1_write_fields_group_0 2019-11-14 20:58:28 root: INFO: instruction count: 16: is/hail/codegen/generated/C_etypeEncode_10.m2_ENCODE_o_binary_TO_o_binary 2019-11-14 20:58:28 MemoryStore: INFO: Block broadcast_5 stored as values in memory (estimated size 120.0 B, free 21.7 GB) 2019-11-14 20:58:28 MemoryStore: INFO: Block broadcast_5_piece0 stored as bytes in memory (estimated size 102.0 B, free 21.7 GB) 2019-11-14 20:58:28 BlockManagerInfo: INFO: Added broadcast_5_piece0 in memory on kc1-m.c.maclab-ukbb.internal:33975 (size: 102.0 B, free: 21.7 GB) 2019-11-14 20:58:28 SparkContext: INFO: Created broadcast 5 from broadcast at SparkBackend.scala:21 2019-11-14 20:58:28 root: INFO: instruction count: 3: is/hail/codegen/generated/C9. 2019-11-14 20:58:28 root: INFO: instruction count: 1126: is/hail/codegen/generated/C9.apply 2019-11-14 20:58:28 root: INFO: instruction count: 28: is/hail/codegen/generated/C9.apply 2019-11-14 20:58:28 root: INFO: instruction count: 2586: is/hail/codegen/generated/C9.m1_method 2019-11-14 20:58:28 root: INFO: instruction count: 126: is/hail/codegen/generated/C9.m2_method 2019-11-14 20:58:28 root: INFO: instruction count: 33: is/hail/codegen/generated/C9.m3_method 2019-11-14 20:58:28 root: INFO: instruction count: 8: is/hail/codegen/generated/C9.m4_method 2019-11-14 20:58:28 root: INFO: instruction count: 29: is/hail/codegen/generated/C9.m5_method 2019-11-14 20:58:28 root: INFO: instruction count: 581: is/hail/codegen/generated/C9.m6_method 2019-11-14 20:58:28 root: INFO: instruction count: 8: is/hail/codegen/generated/C9.m7_method 2019-11-14 20:58:28 root: INFO: instruction count: 33: is/hail/codegen/generated/C9.m8_method 2019-11-14 20:58:28 root: INFO: instruction count: 37: is/hail/codegen/generated/C9.m9_method 2019-11-14 20:58:28 root: INFO: instruction count: 26: is/hail/codegen/generated/C9.m10_method 2019-11-14 20:58:28 root: INFO: instruction count: 47: is/hail/codegen/generated/C9.m11_method 2019-11-14 20:58:28 root: INFO: instruction count: 25: is/hail/codegen/generated/C9.m12_method 2019-11-14 20:58:28 root: INFO: instruction count: 581: is/hail/codegen/generated/C9.m13_method 2019-11-14 20:58:28 root: INFO: instruction count: 8: is/hail/codegen/generated/C9.m14_method 2019-11-14 20:58:28 root: INFO: instruction count: 26: is/hail/codegen/generated/C9.m15_method 2019-11-14 20:58:28 root: INFO: instruction count: 581: is/hail/codegen/generated/C9.m16_method 2019-11-14 20:58:28 root: INFO: instruction count: 8: is/hail/codegen/generated/C9.m17_method 2019-11-14 20:58:28 root: INFO: instruction count: 26: is/hail/codegen/generated/C9.m18_method 2019-11-14 20:58:28 root: INFO: instruction count: 48: is/hail/codegen/generated/C9.m19_method 2019-11-14 20:58:28 root: INFO: instruction count: 581: is/hail/codegen/generated/C9.m20_method 2019-11-14 20:58:28 root: INFO: instruction count: 8: is/hail/codegen/generated/C9.m21_method 2019-11-14 20:58:28 root: INFO: instruction count: 26: is/hail/codegen/generated/C9.m22_method 2019-11-14 20:58:28 root: INFO: instruction count: 581: is/hail/codegen/generated/C9.m23_method 2019-11-14 20:58:28 root: INFO: instruction count: 8: is/hail/codegen/generated/C9.m24_method 2019-11-14 20:58:28 root: INFO: instruction count: 26: is/hail/codegen/generated/C9.m25_method 2019-11-14 20:58:28 root: INFO: instruction count: 42: is/hail/codegen/generated/C9.m26_method 2019-11-14 20:58:28 root: INFO: instruction count: 581: is/hail/codegen/generated/C9.m27_method 2019-11-14 20:58:28 root: INFO: instruction count: 8: is/hail/codegen/generated/C9.m28_method 2019-11-14 20:58:28 root: INFO: instruction count: 26: is/hail/codegen/generated/C9.m29_method 2019-11-14 20:58:28 root: INFO: instruction count: 581: is/hail/codegen/generated/C9.m30_method 2019-11-14 20:58:28 root: INFO: instruction count: 8: is/hail/codegen/generated/C9.m31_method 2019-11-14 20:58:28 root: INFO: instruction count: 26: is/hail/codegen/generated/C9.m32_method 2019-11-14 20:58:28 root: INFO: instruction count: 2131: is/hail/codegen/generated/C9.m33_method 2019-11-14 20:58:28 root: INFO: instruction count: 42: is/hail/codegen/generated/C9.m34_method 2019-11-14 20:58:28 root: INFO: instruction count: 8: is/hail/codegen/generated/C9.m35_method 2019-11-14 20:58:28 root: INFO: instruction count: 29: is/hail/codegen/generated/C9.m36_method 2019-11-14 20:58:28 root: INFO: instruction count: 581: is/hail/codegen/generated/C9.m37_method 2019-11-14 20:58:28 root: INFO: instruction count: 8: is/hail/codegen/generated/C9.m38_method 2019-11-14 20:58:28 root: INFO: instruction count: 26: is/hail/codegen/generated/C9.m39_method 2019-11-14 20:58:28 root: INFO: instruction count: 48: is/hail/codegen/generated/C9.m40_method 2019-11-14 20:58:28 root: INFO: instruction count: 581: is/hail/codegen/generated/C9.m41_method 2019-11-14 20:58:28 root: INFO: instruction count: 8: is/hail/codegen/generated/C9.m42_method 2019-11-14 20:58:28 root: INFO: instruction count: 26: is/hail/codegen/generated/C9.m43_method 2019-11-14 20:58:28 root: INFO: instruction count: 42: is/hail/codegen/generated/C9.m44_method 2019-11-14 20:58:28 root: INFO: instruction count: 581: is/hail/codegen/generated/C9.m45_method 2019-11-14 20:58:28 root: INFO: instruction count: 8: is/hail/codegen/generated/C9.m46_method 2019-11-14 20:58:28 root: INFO: instruction count: 26: is/hail/codegen/generated/C9.m47_method 2019-11-14 20:58:28 root: INFO: instruction count: 581: is/hail/codegen/generated/C9.m48_method 2019-11-14 20:58:28 root: INFO: instruction count: 8: is/hail/codegen/generated/C9.m49_method 2019-11-14 20:58:28 root: INFO: instruction count: 26: is/hail/codegen/generated/C9.m50_method 2019-11-14 20:58:28 root: INFO: instruction count: 581: is/hail/codegen/generated/C9.m51_method 2019-11-14 20:58:28 root: INFO: instruction count: 8: is/hail/codegen/generated/C9.m52_method 2019-11-14 20:58:28 root: INFO: instruction count: 26: is/hail/codegen/generated/C9.m53_method 2019-11-14 20:58:28 root: INFO: instruction count: 581: is/hail/codegen/generated/C9.m54_method 2019-11-14 20:58:28 root: INFO: instruction count: 8: is/hail/codegen/generated/C9.m55_method 2019-11-14 20:58:28 root: INFO: instruction count: 26: is/hail/codegen/generated/C9.m56_method 2019-11-14 20:58:28 root: INFO: instruction count: 581: is/hail/codegen/generated/C9.m57_method 2019-11-14 20:58:28 root: INFO: instruction count: 8: is/hail/codegen/generated/C9.m58_method 2019-11-14 20:58:28 root: INFO: instruction count: 26: is/hail/codegen/generated/C9.m59_method 2019-11-14 20:58:28 root: INFO: instruction count: 581: is/hail/codegen/generated/C9.m60_method 2019-11-14 20:58:28 root: INFO: instruction count: 8: is/hail/codegen/generated/C9.m61_method 2019-11-14 20:58:28 root: INFO: instruction count: 26: is/hail/codegen/generated/C9.m62_method 2019-11-14 20:58:28 root: INFO: instruction count: 581: is/hail/codegen/generated/C9.m63_method 2019-11-14 20:58:28 root: INFO: instruction count: 8: is/hail/codegen/generated/C9.m64_method 2019-11-14 20:58:28 root: INFO: instruction count: 26: is/hail/codegen/generated/C9.m65_method 2019-11-14 20:58:28 root: INFO: instruction count: 581: is/hail/codegen/generated/C9.m66_method 2019-11-14 20:58:28 root: INFO: instruction count: 8: is/hail/codegen/generated/C9.m67_method 2019-11-14 20:58:28 root: INFO: instruction count: 26: is/hail/codegen/generated/C9.m68_method 2019-11-14 20:58:28 root: INFO: instruction count: 774: is/hail/codegen/generated/C9.m69_method 2019-11-14 20:58:28 root: INFO: instruction count: 48: is/hail/codegen/generated/C9.m70_method 2019-11-14 20:58:28 root: INFO: instruction count: 8: is/hail/codegen/generated/C9.m71_method 2019-11-14 20:58:28 root: INFO: instruction count: 29: is/hail/codegen/generated/C9.m72_method 2019-11-14 20:58:28 root: INFO: instruction count: 581: is/hail/codegen/generated/C9.m73_method 2019-11-14 20:58:28 root: INFO: instruction count: 8: is/hail/codegen/generated/C9.m74_method 2019-11-14 20:58:28 root: INFO: instruction count: 26: is/hail/codegen/generated/C9.m75_method 2019-11-14 20:58:28 root: INFO: instruction count: 42: is/hail/codegen/generated/C9.m76_method 2019-11-14 20:58:28 root: INFO: instruction count: 581: is/hail/codegen/generated/C9.m77_method 2019-11-14 20:58:28 root: INFO: instruction count: 8: is/hail/codegen/generated/C9.m78_method 2019-11-14 20:58:28 root: INFO: instruction count: 26: is/hail/codegen/generated/C9.m79_method 2019-11-14 20:58:28 root: INFO: instruction count: 581: is/hail/codegen/generated/C9.m80_method 2019-11-14 20:58:28 root: INFO: instruction count: 8: is/hail/codegen/generated/C9.m81_method 2019-11-14 20:58:28 root: INFO: instruction count: 26: is/hail/codegen/generated/C9.m82_method 2019-11-14 20:58:28 root: INFO: instruction count: 42: is/hail/codegen/generated/C9.m83_method 2019-11-14 20:58:28 root: INFO: instruction count: 581: is/hail/codegen/generated/C9.m84_method 2019-11-14 20:58:28 root: INFO: instruction count: 8: is/hail/codegen/generated/C9.m85_method 2019-11-14 20:58:28 root: INFO: instruction count: 26: is/hail/codegen/generated/C9.m86_method 2019-11-14 20:58:28 root: INFO: instruction count: 14: is/hail/codegen/generated/C9.setPartitionIndex 2019-11-14 20:58:28 root: INFO: instruction count: 6: is/hail/codegen/generated/C9.addPartitionRegion 2019-11-14 20:58:28 root: INFO: instruction count: 34: is/hail/codegen/generated/C9.m89_DECODE_o_struct_of_o_binaryANDo_binaryANDo_binaryANDo_binaryANDo_binaryANDo_binaryANDo_binaryANDo_binaryANDo_binaryEND_TO_o_tuple_of_o_stringANDo_stringANDo_stringANDo_stringANDo_stringANDo_stringANDo_stringANDo_stringANDo_stringEND 2019-11-14 20:58:28 root: INFO: instruction count: 228: is/hail/codegen/generated/C9.m90_read_fields_group_0 2019-11-14 20:58:28 root: INFO: instruction count: 29: is/hail/codegen/generated/C9.m91_INPLACE_DECODE_o_binary_TO_o_binary 2019-11-14 20:58:28 root: INFO: instruction count: 86: is/hail/codegen/generated/C9.addLiterals 2019-11-14 20:58:28 root: INFO: instruction count: 3: is/hail/codegen/generated/C_etypeEncode_11. 2019-11-14 20:58:28 root: INFO: instruction count: 7: is/hail/codegen/generated/C_etypeEncode_11.apply 2019-11-14 20:58:28 root: INFO: instruction count: 11: is/hail/codegen/generated/C_etypeEncode_11.m0_ENCODE_o_tuple_of_o_stringANDo_stringANDo_stringANDo_stringANDo_stringANDo_stringANDo_stringANDo_stringANDo_stringANDo_stringANDo_stringANDo_stringANDo_stringANDo_stringANDo_stringANDo_stringANDo_stringANDo_stringANDo_stringANDo_stringANDo_stringEND_TO_o_struct_of_o_binaryANDo_binaryANDo_binaryANDo_binaryANDo_binaryANDo_binaryANDo_binaryANDo_binaryANDo_binaryANDo_binaryANDo_binaryANDo_binaryANDo_binaryANDo_binaryANDo_binaryANDo_binaryANDo_binaryANDo_binaryANDo_binaryANDo_binaryANDo_binaryEND 2019-11-14 20:58:28 root: INFO: instruction count: 381: is/hail/codegen/generated/C_etypeEncode_11.m1_write_fields_group_0 2019-11-14 20:58:28 root: INFO: instruction count: 16: is/hail/codegen/generated/C_etypeEncode_11.m2_ENCODE_o_binary_TO_o_binary 2019-11-14 20:58:28 SparkContext: INFO: Starting job: collect at RVD.scala:676 2019-11-14 20:58:28 DAGScheduler: INFO: Got job 1 (collect at RVD.scala:676) with 1 output partitions 2019-11-14 20:58:28 DAGScheduler: INFO: Final stage: ResultStage 1 (collect at RVD.scala:676) 2019-11-14 20:58:28 DAGScheduler: INFO: Parents of final stage: List() 2019-11-14 20:58:28 DAGScheduler: INFO: Missing parents: List() 2019-11-14 20:58:28 DAGScheduler: INFO: Submitting ResultStage 1 (MapPartitionsRDD[8] at mapPartitions at ContextRDD.scala:217), which has no missing parents 2019-11-14 20:58:28 MemoryStore: INFO: Block broadcast_6 stored as values in memory (estimated size 501.5 KB, free 21.7 GB) 2019-11-14 20:58:28 MemoryStore: INFO: Block broadcast_6_piece0 stored as bytes in memory (estimated size 153.2 KB, free 21.7 GB) 2019-11-14 20:58:28 BlockManagerInfo: INFO: Added broadcast_6_piece0 in memory on kc1-m.c.maclab-ukbb.internal:33975 (size: 153.2 KB, free: 21.7 GB) 2019-11-14 20:58:28 SparkContext: INFO: Created broadcast 6 from broadcast at DAGScheduler.scala:1161 2019-11-14 20:58:28 DAGScheduler: INFO: Submitting 1 missing tasks from ResultStage 1 (MapPartitionsRDD[8] at mapPartitions at ContextRDD.scala:217) (first 15 tasks are for partitions Vector(0)) 2019-11-14 20:58:28 YarnScheduler: INFO: Adding task set 1.0 with 1 tasks 2019-11-14 20:58:28 FairSchedulableBuilder: INFO: Added task set TaskSet_1.0 tasks to pool default 2019-11-14 20:58:28 TaskSetManager: INFO: Starting task 0.0 in stage 1.0 (TID 1, kc1-w-0.c.maclab-ukbb.internal, executor 2, partition 0, PROCESS_LOCAL, 8259 bytes) 2019-11-14 20:58:28 BlockManagerInfo: INFO: Added broadcast_6_piece0 in memory on kc1-w-0.c.maclab-ukbb.internal:41051 (size: 153.2 KB, free: 9.5 GB) 2019-11-14 20:58:28 BlockManagerInfo: INFO: Added broadcast_5_piece0 in memory on kc1-w-0.c.maclab-ukbb.internal:41051 (size: 102.0 B, free: 9.5 GB) 2019-11-14 20:58:29 TaskSetManager: INFO: Finished task 0.0 in stage 1.0 (TID 1) in 826 ms on kc1-w-0.c.maclab-ukbb.internal (executor 2) (1/1) 2019-11-14 20:58:29 YarnScheduler: INFO: Removed TaskSet 1.0, whose tasks have all completed, from pool default 2019-11-14 20:58:29 DAGScheduler: INFO: ResultStage 1 (collect at RVD.scala:676) finished in 0.847 s 2019-11-14 20:58:29 DAGScheduler: INFO: Job 1 finished: collect at RVD.scala:676, took 0.852390 s 2019-11-14 20:58:29 root: INFO: instruction count: 3: is/hail/codegen/generated/C_etypeDecode_12. 2019-11-14 20:58:29 root: INFO: instruction count: 7: is/hail/codegen/generated/C_etypeDecode_12.apply 2019-11-14 20:58:29 root: INFO: instruction count: 41: is/hail/codegen/generated/C_etypeDecode_12.m0_DECODE_o_struct_of_o_binaryANDo_binaryANDo_binaryANDo_binaryANDo_binaryANDo_binaryANDo_binaryANDo_binaryANDo_binaryANDo_binaryANDo_binaryANDo_binaryANDo_binaryANDo_binaryANDo_binaryANDo_binaryANDo_binaryANDo_binaryANDo_binaryANDo_binaryANDo_binaryEND_TO_o_tuple_of_o_stringANDo_stringANDo_stringANDo_stringANDo_stringANDo_stringANDo_stringANDo_stringANDo_stringANDo_stringANDo_stringANDo_stringANDo_stringANDo_stringANDo_stringANDo_stringANDo_stringANDo_stringANDo_stringANDo_stringANDo_stringEND 2019-11-14 20:58:29 root: INFO: instruction count: 528: is/hail/codegen/generated/C_etypeDecode_12.m1_read_fields_group_0 2019-11-14 20:58:29 root: INFO: instruction count: 29: is/hail/codegen/generated/C_etypeDecode_12.m2_INPLACE_DECODE_o_binary_TO_o_binary 2019-11-14 20:58:29 root: INFO: took 5.970s 2019-11-14 20:58:29 root: INFO: optimize (interpret non compilable, after): before: IR size 2: (GetField rows (Literal Struct{rows:Array[Struct{locus:String,alleles:String,rsid:String,qual:String,filters:String,`info.AC`:String,`info.AF`:String,`info.AN`:String,`info.BaseQRankSum`:String,`info.DB`:String,`info.DP`:String,`info.FS`:String,`info.MQ`:String,`info.MQRankSum`:String,`info.MQ_DP`:String,`info.QD`:String,`info.ReadPosRankSum`:String,`info.SOR`:String,`info.VarDP`:String,a_index:String,was_split:String}],global:Struct{}} )) 2019-11-14 20:58:29 root: INFO: optimize (interpret non compilable, after): after: IR size 1: (Literal Array[Struct{locus:String,alleles:String,rsid:String,qual:String,filters:String,`info.AC`:String,`info.AF`:String,`info.AN`:String,`info.BaseQRankSum`:String,`info.DB`:String,`info.DP`:String,`info.FS`:String,`info.MQ`:String,`info.MQRankSum`:String,`info.MQ_DP`:String,`info.QD`:String,`info.ReadPosRankSum`:String,`info.SOR`:String,`info.VarDP`:String,a_index:String,was_split:String}] ) 2019-11-14 20:58:29 root: INFO: instruction count: 3: is/hail/codegen/generated/C_etypeEncode_14. 2019-11-14 20:58:29 root: INFO: instruction count: 7: is/hail/codegen/generated/C_etypeEncode_14.apply 2019-11-14 20:58:29 root: INFO: instruction count: 11: is/hail/codegen/generated/C_etypeEncode_14.m0_ENCODE_o_tuple_of_o_array_of_o_tuple_of_o_stringANDo_stringANDo_stringANDo_stringANDo_stringANDo_stringANDo_stringANDo_stringANDo_stringANDo_stringANDo_stringANDo_stringANDo_stringANDo_stringANDo_stringANDo_stringANDo_stringANDo_stringANDo_stringANDo_stringANDo_stringENDEND_TO_o_struct_of_o_array_of_o_struct_of_o_binaryANDo_binaryANDo_binaryANDo_binaryANDo_binaryANDo_binaryANDo_binaryANDo_binaryANDo_binaryANDo_binaryANDo_binaryANDo_binaryANDo_binaryANDo_binaryANDo_binaryANDo_binaryANDo_binaryANDo_binaryANDo_binaryANDo_binaryANDo_binaryENDEND 2019-11-14 20:58:29 root: INFO: instruction count: 21: is/hail/codegen/generated/C_etypeEncode_14.m1_write_fields_group_0 2019-11-14 20:58:29 root: INFO: instruction count: 76: is/hail/codegen/generated/C_etypeEncode_14.m2_ENCODE_o_array_of_o_tuple_of_o_binaryANDo_binaryANDo_binaryANDo_binaryANDo_binaryANDo_binaryANDo_binaryANDo_binaryANDo_binaryANDo_binaryANDo_binaryANDo_binaryANDo_binaryANDo_binaryANDo_binaryANDo_binaryANDo_binaryANDo_binaryANDo_binaryANDo_binaryANDo_binaryEND_TO_o_array_of_o_struct_of_o_binaryANDo_binaryANDo_binaryANDo_binaryANDo_binaryANDo_binaryANDo_binaryANDo_binaryANDo_binaryANDo_binaryANDo_binaryANDo_binaryANDo_binaryANDo_binaryANDo_binaryANDo_binaryANDo_binaryANDo_binaryANDo_binaryANDo_binaryANDo_binaryEND 2019-11-14 20:58:29 root: INFO: instruction count: 11: is/hail/codegen/generated/C_etypeEncode_14.m3_ENCODE_o_tuple_of_o_binaryANDo_binaryANDo_binaryANDo_binaryANDo_binaryANDo_binaryANDo_binaryANDo_binaryANDo_binaryANDo_binaryANDo_binaryANDo_binaryANDo_binaryANDo_binaryANDo_binaryANDo_binaryANDo_binaryANDo_binaryANDo_binaryANDo_binaryANDo_binaryEND_TO_o_struct_of_o_binaryANDo_binaryANDo_binaryANDo_binaryANDo_binaryANDo_binaryANDo_binaryANDo_binaryANDo_binaryANDo_binaryANDo_binaryANDo_binaryANDo_binaryANDo_binaryANDo_binaryANDo_binaryANDo_binaryANDo_binaryANDo_binaryANDo_binaryANDo_binaryEND 2019-11-14 20:58:29 root: INFO: instruction count: 381: is/hail/codegen/generated/C_etypeEncode_14.m4_write_fields_group_0 2019-11-14 20:58:29 root: INFO: instruction count: 16: is/hail/codegen/generated/C_etypeEncode_14.m5_ENCODE_o_binary_TO_o_binary 2019-11-14 20:58:29 MemoryStore: INFO: Block broadcast_7 stored as values in memory (estimated size 2.4 KB, free 21.7 GB) 2019-11-14 20:58:29 MemoryStore: INFO: Block broadcast_7_piece0 stored as bytes in memory (estimated size 1032.0 B, free 21.7 GB) 2019-11-14 20:58:29 BlockManagerInfo: INFO: Added broadcast_7_piece0 in memory on kc1-m.c.maclab-ukbb.internal:33975 (size: 1032.0 B, free: 21.7 GB) 2019-11-14 20:58:29 SparkContext: INFO: Created broadcast 7 from broadcast at SparkBackend.scala:21 2019-11-14 20:58:29 root: INFO: instruction count: 3: is/hail/codegen/generated/C13. 2019-11-14 20:58:29 root: INFO: instruction count: 54: is/hail/codegen/generated/C13.apply 2019-11-14 20:58:29 root: INFO: instruction count: 10: is/hail/codegen/generated/C13.apply 2019-11-14 20:58:29 root: INFO: instruction count: 14: is/hail/codegen/generated/C13.setPartitionIndex 2019-11-14 20:58:29 root: INFO: instruction count: 6: is/hail/codegen/generated/C13.addPartitionRegion 2019-11-14 20:58:29 root: INFO: instruction count: 27: is/hail/codegen/generated/C13.m3_DECODE_o_struct_of_o_array_of_o_struct_of_o_binaryANDo_binaryANDo_binaryANDo_binaryANDo_binaryANDo_binaryANDo_binaryANDo_binaryANDo_binaryANDo_binaryANDo_binaryANDo_binaryANDo_binaryANDo_binaryANDo_binaryANDo_binaryANDo_binaryANDo_binaryANDo_binaryANDo_binaryANDo_binaryENDEND_TO_o_tuple_of_o_array_of_o_tuple_of_o_stringANDo_stringANDo_stringANDo_stringANDo_stringANDo_stringANDo_stringANDo_stringANDo_stringANDo_stringANDo_stringANDo_stringANDo_stringANDo_stringANDo_stringANDo_stringANDo_stringANDo_stringANDo_stringANDo_stringANDo_stringENDEND 2019-11-14 20:58:29 root: INFO: instruction count: 28: is/hail/codegen/generated/C13.m4_read_fields_group_0 2019-11-14 20:58:29 root: INFO: instruction count: 99: is/hail/codegen/generated/C13.m5_INPLACE_DECODE_o_array_of_o_struct_of_o_binaryANDo_binaryANDo_binaryANDo_binaryANDo_binaryANDo_binaryANDo_binaryANDo_binaryANDo_binaryANDo_binaryANDo_binaryANDo_binaryANDo_binaryANDo_binaryANDo_binaryANDo_binaryANDo_binaryANDo_binaryANDo_binaryANDo_binaryANDo_binaryEND_TO_o_array_of_o_tuple_of_o_binaryANDo_binaryANDo_binaryANDo_binaryANDo_binaryANDo_binaryANDo_binaryANDo_binaryANDo_binaryANDo_binaryANDo_binaryANDo_binaryANDo_binaryANDo_binaryANDo_binaryANDo_binaryANDo_binaryANDo_binaryANDo_binaryANDo_binaryANDo_binaryEND 2019-11-14 20:58:29 root: INFO: instruction count: 35: is/hail/codegen/generated/C13.m6_INPLACE_DECODE_o_struct_of_o_binaryANDo_binaryANDo_binaryANDo_binaryANDo_binaryANDo_binaryANDo_binaryANDo_binaryANDo_binaryANDo_binaryANDo_binaryANDo_binaryANDo_binaryANDo_binaryANDo_binaryANDo_binaryANDo_binaryANDo_binaryANDo_binaryANDo_binaryANDo_binaryEND_TO_o_tuple_of_o_binaryANDo_binaryANDo_binaryANDo_binaryANDo_binaryANDo_binaryANDo_binaryANDo_binaryANDo_binaryANDo_binaryANDo_binaryANDo_binaryANDo_binaryANDo_binaryANDo_binaryANDo_binaryANDo_binaryANDo_binaryANDo_binaryANDo_binaryANDo_binaryEND 2019-11-14 20:58:29 root: INFO: instruction count: 528: is/hail/codegen/generated/C13.m7_read_fields_group_0 2019-11-14 20:58:29 root: INFO: instruction count: 29: is/hail/codegen/generated/C13.m8_INPLACE_DECODE_o_binary_TO_o_binary 2019-11-14 20:58:29 root: INFO: instruction count: 30: is/hail/codegen/generated/C13.addLiterals 2019-11-14 20:58:29 root: INFO: Time taken for CompileAndEvaluate.compile: 21.298ms 2019-11-14 20:58:29 root: INFO: Time taken for create compiled function: 2.246ms 2019-11-14 20:58:29 root: INFO: Time taken for run compiled function: 0.013ms 2019-11-14 20:58:29 root: INFO: Time taken for convert to safe value: 1.399ms 2019-11-14 20:58:29 root: INFO: optimize (initial optimization): before: IR size 1028: (GetField rows (TableCollect (TableHead 11 (TableMapRows (TableMapRows (TableOrderBy (Alocus Aalleles) (MatrixRowsTable (MatrixMapRows (MatrixFilterIntervals "[{\"start\":{\"locus\":{\"contig\":\"chr20\",\"position\":1}},\"end\":{\"locus\":{\"contig\":\"chr20\",\"position\":64444167}},\"includeStart\":true,\"includeEnd\":true}]" True (MatrixRead None False False "{\"name\":\"MatrixNativeReader\",\"path\":\"gs://broad-ukbb/broad.freeze_4/hardcalls/hardcalls.split.mt\",\"_spec\":null}")) (AggLet __cse_1 False (GetField GT (Ref g)) (InsertFields (SelectFields (locus alleles rsid qual filters info a_index was_split) (Ref va)) None (variant_qc (Let __uid_30 (MakeStruct (n_called (ApplyAggOp Sum () None ( (Apply toInt64 Int64 (ApplyUnaryPrimOp Bang (IsNA (Ref __cse_1))))))) (n_not_called (ApplyAggOp Sum () None ( (Apply toInt64 Int64 (IsNA (Ref __cse_1)))))) (n_filtered (ApplyBinaryPrimOp Subtract (TableCount (MatrixColsTable (MatrixFilterIntervals "[{\"start\":{\"locus\":{\"contig\":\"chr20\",\"position\":1}},\"end\":{\"locus\":{\"contig\":\"chr20\",\"position\":64444167}},\"includeStart\":true,\"includeEnd\":true}]" True (MatrixRead None False False "{\"name\":\"MatrixNativeReader\",\"path\":\"gs://broad-ukbb/broad.freeze_4/hardcalls/hardcalls.split.mt\",\"_spec\":null}")))) (ApplyAggOp Count () None ()))) (call_stats (ApplyAggOp CallStats () ( (ArrayLen (GetField alleles (Ref va)))) ( (Ref __cse_1))))) (Let __cse_4 (GetField call_stats (Ref __uid_30)) (Let __cse_8 (GetField homozygote_count (Ref __cse_4)) (Let __cse_5 (GetField n_called (Ref __uid_30)) (Let __cse_6 (GetField n_not_called (Ref __uid_30)) (Let __cse_7 (GetField n_filtered (Ref __uid_30)) (Let __uid_31 (If (ApplyComparisonOp EQ (ArrayLen (GetField alleles (Ref va))) (I32 2)) (Let __cse_2 (GetField call_stats (Ref __uid_30)) (Let __cse_3 (GetField homozygote_count (Ref __cse_2)) (Apply hardy_weinberg_test Struct{het_freq_hwe:Float64,p_value:Float64} (ApplyIR indexArray Int32 (Ref __cse_3) (I32 0)) (ApplyBinaryPrimOp Subtract (ApplyIR indexArray Int32 (GetField AC (Ref __cse_2)) (I32 1)) (ApplyBinaryPrimOp Multiply (I32 2) (ApplyIR indexArray Int32 (Ref __cse_3) (I32 1)))) (ApplyIR indexArray Int32 (Ref __cse_3) (I32 1))))) (NA Struct{het_freq_hwe:Float64,p_value:Float64})) (MakeStruct (AC (GetField AC (Ref __cse_4))) (AF (GetField AF (Ref __cse_4))) (AN (GetField AN (Ref __cse_4))) (homozygote_count (Ref __cse_8)) (call_rate (ApplyBinaryPrimOp FloatingPointDivide (ApplyIR toFloat64 Float64 (Ref __cse_5)) (ApplyIR toFloat64 Float64 (ApplyBinaryPrimOp Add (ApplyBinaryPrimOp Add (Ref __cse_5) (Ref __cse_6)) (Ref __cse_7))))) (n_called (Ref __cse_5)) (n_not_called (Ref __cse_6)) (n_filtered (Ref __cse_7)) (n_het (ApplyBinaryPrimOp Subtract (Ref __cse_5) (ApplyIR toInt64 Int64 (ApplyIR sum Int32 (ArrayFilter __uid_32 (Ref __cse_8) (ApplyUnaryPrimOp Bang (IsNA (Ref __uid_32)))))))) (n_non_ref (ApplyBinaryPrimOp Subtract (Ref __cse_5) (ApplyIR toInt64 Int64 (ApplyIR indexArray Int32 (Ref __cse_8) (I32 0))))) (het_freq_hwe (GetField het_freq_hwe (Ref __uid_31))) (p_value_hwe (GetField p_value (Ref __uid_31))))))))))))))))) (Let __uid_35 (GetField variant_qc (Ref row)) (Let __uid_34 (GetField info (Ref row)) (Let __uid_33 (Ref row) (InsertFields (SelectFields () (SelectFields (locus alleles rsid qual filters info a_index was_split variant_qc) (Ref row))) None (locus (GetField locus (Ref __uid_33))) (alleles (GetField alleles (Ref __uid_33))) (rsid (GetField rsid (Ref __uid_33))) (qual (GetField qual (Ref __uid_33))) (filters (GetField filters (Ref __uid_33))) (`info.AC` (GetField AC (Ref __uid_34))) (`info.AF` (GetField AF (Ref __uid_34))) (`info.AN` (GetField AN (Ref __uid_34))) (`info.BaseQRankSum` (GetField BaseQRankSum (Ref __uid_34))) (`info.DB` (GetField DB (Ref __uid_34))) (`info.DP` (GetField DP (Ref __uid_34))) (`info.FS` (GetField FS (Ref __uid_34))) (`info.MQ` (GetField MQ (Ref __uid_34))) (`info.MQRankSum` (GetField MQRankSum (Ref __uid_34))) (`info.MQ_DP` (GetField MQ_DP (Ref __uid_34))) (`info.QD` (GetField QD (Ref __uid_34))) (`info.ReadPosRankSum` (GetField ReadPosRankSum (Ref __uid_34))) (`info.SOR` (GetField SOR (Ref __uid_34))) (`info.VarDP` (GetField VarDP (Ref __uid_34))) (a_index (GetField a_index (Ref __uid_33))) (was_split (GetField was_split (Ref __uid_33))) (`variant_qc.AC` (GetField AC (Ref __uid_35))) (`variant_qc.AF` (GetField AF (Ref __uid_35))) (`variant_qc.AN` (GetField AN (Ref __uid_35))) (`variant_qc.homozygote_count` (GetField homozygote_count (Ref __uid_35))) (`variant_qc.call_rate` (GetField call_rate (Ref __uid_35))) (`variant_qc.n_called` (GetField n_called (Ref __uid_35))) (`variant_qc.n_not_called` (GetField n_not_called (Ref __uid_35))) (`variant_qc.n_filtered` (GetField n_filtered (Ref __uid_35))) (`variant_qc.n_het` (GetField n_het (Ref __uid_35))) (`variant_qc.n_non_ref` (GetField n_non_ref (Ref __uid_35))) (`variant_qc.het_freq_hwe` (GetField het_freq_hwe (Ref __uid_35))) (`variant_qc.p_value_hwe` (GetField p_value_hwe (Ref __uid_35)))))))) (InsertFields (SelectFields () (SelectFields (locus alleles rsid qual filters `info.AC` `info.AF` `info.AN` `info.BaseQRankSum` `info.DB` `info.DP` `info.FS` `info.MQ` `info.MQRankSum` `info.MQ_DP` `info.QD` `info.ReadPosRankSum` `info.SOR` `info.VarDP` a_index was_split `variant_qc.AC` `variant_qc.AF` `variant_qc.AN` `variant_qc.homozygote_count` `variant_qc.call_rate` `variant_qc.n_called` `variant_qc.n_not_called` `variant_qc.n_filtered` `variant_qc.n_het` `variant_qc.n_non_ref` `variant_qc.het_freq_hwe` `variant_qc.p_value_hwe`) (Ref row))) None (locus (Let __uid_36 (If (ApplyUnaryPrimOp Bang (IsNA (GetField locus (Ref row)))) (Apply str String (GetField locus (Ref row))) (Str "NA")) (If (ApplyComparisonOp GT (Apply length Int32 (Ref __uid_36)) (I32 76)) (Apply `+` String (ApplyIR `[:*]` String (Ref __uid_36) (I32 73)) (Str "...")) (Ref __uid_36)))) (alleles (Let __uid_38 (If (ApplyUnaryPrimOp Bang (IsNA (GetField alleles (Ref row)))) (Apply `+` String (Apply `+` String (Str "[") (Apply mkString String (ArrayMap __uid_37 (GetField alleles (Ref row)) (If (ApplyUnaryPrimOp Bang (IsNA (Ref __uid_37))) (Apply `+` String (Apply `+` String (Str "\"") (Apply escapeString String (Ref __uid_37))) (Str "\"")) (Str "NA"))) (Str ","))) (Str "]")) (Str "NA")) (If (ApplyComparisonOp GT (Apply length Int32 (Ref __uid_38)) (I32 76)) (Apply `+` String (ApplyIR `[:*]` String (Ref __uid_38) (I32 73)) (Str "...")) (Ref __uid_38)))) (rsid (Let __uid_39 (If (ApplyUnaryPrimOp Bang (IsNA (GetField rsid (Ref row)))) (Apply `+` String (Apply `+` String (Str "\"") (Apply escapeString String (GetField rsid (Ref row)))) (Str "\"")) (Str "NA")) (If (ApplyComparisonOp GT (Apply length Int32 (Ref __uid_39)) (I32 76)) (Apply `+` String (ApplyIR `[:*]` String (Ref __uid_39) (I32 73)) (Str "...")) (Ref __uid_39)))) (qual (Let __uid_40 (If (ApplyUnaryPrimOp Bang (IsNA (GetField qual (Ref row)))) (Apply format String (Str "%.2e") (MakeTuple (0) (GetField qual (Ref row)))) (Str "NA")) (If (ApplyComparisonOp GT (Apply length Int32 (Ref __uid_40)) (I32 76)) (Apply `+` String (ApplyIR `[:*]` String (Ref __uid_40) (I32 73)) (Str "...")) (Ref __uid_40)))) (filters (Let __uid_42 (If (ApplyUnaryPrimOp Bang (IsNA (GetField filters (Ref row)))) (Apply `+` String (Apply `+` String (Str "{") (Apply mkString String (ArrayMap __uid_41 (ToArray (GetField filters (Ref row))) (If (ApplyUnaryPrimOp Bang (IsNA (Ref __uid_41))) (Apply `+` String (Apply `+` String (Str "\"") (Apply escapeString String (Ref __uid_41))) (Str "\"")) (Str "NA"))) (Str ","))) (Str "}")) (Str "NA")) (If (ApplyComparisonOp GT (Apply length Int32 (Ref __uid_42)) (I32 76)) (Apply `+` String (ApplyIR `[:*]` String (Ref __uid_42) (I32 73)) (Str "...")) (Ref __uid_42)))) (`info.AC` (Let __uid_44 (If (ApplyUnaryPrimOp Bang (IsNA (GetField `info.AC` (Ref row)))) (Apply `+` String (Apply `+` String (Str "[") (Apply mkString String (ArrayMap __uid_43 (GetField `info.AC` (Ref row)) (If (ApplyUnaryPrimOp Bang (IsNA (Ref __uid_43))) (Apply str String (Ref __uid_43)) (Str "NA"))) (Str ","))) (Str "]")) (Str "NA")) (If (ApplyComparisonOp GT (Apply length Int32 (Ref __uid_44)) (I32 76)) (Apply `+` String (ApplyIR `[:*]` String (Ref __uid_44) (I32 73)) (Str "...")) (Ref __uid_44)))) (`info.AF` (Let __uid_46 (If (ApplyUnaryPrimOp Bang (IsNA (GetField `info.AF` (Ref row)))) (Apply `+` String (Apply `+` String (Str "[") (Apply mkString String (ArrayMap __uid_45 (GetField `info.AF` (Ref row)) (If (ApplyUnaryPrimOp Bang (IsNA (Ref __uid_45))) (Apply format String (Str "%.2e") (MakeTuple (0) (Ref __uid_45))) (Str "NA"))) (Str ","))) (Str "]")) (Str "NA")) (If (ApplyComparisonOp GT (Apply length Int32 (Ref __uid_46)) (I32 76)) (Apply `+` String (ApplyIR `[:*]` String (Ref __uid_46) (I32 73)) (Str "...")) (Ref __uid_46)))) (`info.AN` (Let __uid_47 (If (ApplyUnaryPrimOp Bang (IsNA (GetField `info.AN` (Ref row)))) (Apply str String (GetField `info.AN` (Ref row))) (Str "NA")) (If (ApplyComparisonOp GT (Apply length Int32 (Ref __uid_47)) (I32 76)) (Apply `+` String (ApplyIR `[:*]` String (Ref __uid_47) (I32 73)) (Str "...")) (Ref __uid_47)))) (`info.BaseQRankSum` (Let __uid_48 (If (ApplyUnaryPrimOp Bang (IsNA (GetField `info.BaseQRankSum` (Ref row)))) (Apply format String (Str "%.2e") (MakeTuple (0) (GetField `info.BaseQRankSum` (Ref row)))) (Str "NA")) (If (ApplyComparisonOp GT (Apply length Int32 (Ref __uid_48)) (I32 76)) (Apply `+` String (ApplyIR `[:*]` String (Ref __uid_48) (I32 73)) (Str "...")) (Ref __uid_48)))) (`info.DB` (Let __uid_49 (If (ApplyUnaryPrimOp Bang (IsNA (GetField `info.DB` (Ref row)))) (Apply str String (GetField `info.DB` (Ref row))) (Str "NA")) (If (ApplyComparisonOp GT (Apply length Int32 (Ref __uid_49)) (I32 76)) (Apply `+` String (ApplyIR `[:*]` String (Ref __uid_49) (I32 73)) (Str "...")) (Ref __uid_49)))) (`info.DP` (Let __uid_50 (If (ApplyUnaryPrimOp Bang (IsNA (GetField `info.DP` (Ref row)))) (Apply str String (GetField `info.DP` (Ref row))) (Str "NA")) (If (ApplyComparisonOp GT (Apply length Int32 (Ref __uid_50)) (I32 76)) (Apply `+` String (ApplyIR `[:*]` String (Ref __uid_50) (I32 73)) (Str "...")) (Ref __uid_50)))) (`info.FS` (Let __uid_51 (If (ApplyUnaryPrimOp Bang (IsNA (GetField `info.FS` (Ref row)))) (Apply format String (Str "%.2e") (MakeTuple (0) (GetField `info.FS` (Ref row)))) (Str "NA")) (If (ApplyComparisonOp GT (Apply length Int32 (Ref __uid_51)) (I32 76)) (Apply `+` String (ApplyIR `[:*]` String (Ref __uid_51) (I32 73)) (Str "...")) (Ref __uid_51)))) (`info.MQ` (Let __uid_52 (If (ApplyUnaryPrimOp Bang (IsNA (GetField `info.MQ` (Ref row)))) (Apply format String (Str "%.2e") (MakeTuple (0) (GetField `info.MQ` (Ref row)))) (Str "NA")) (If (ApplyComparisonOp GT (Apply length Int32 (Ref __uid_52)) (I32 76)) (Apply `+` String (ApplyIR `[:*]` String (Ref __uid_52) (I32 73)) (Str "...")) (Ref __uid_52)))) (`info.MQRankSum` (Let __uid_53 (If (ApplyUnaryPrimOp Bang (IsNA (GetField `info.MQRankSum` (Ref row)))) (Apply format String (Str "%.2e") (MakeTuple (0) (GetField `info.MQRankSum` (Ref row)))) (Str "NA")) (If (ApplyComparisonOp GT (Apply length Int32 (Ref __uid_53)) (I32 76)) (Apply `+` String (ApplyIR `[:*]` String (Ref __uid_53) (I32 73)) (Str "...")) (Ref __uid_53)))) (`info.MQ_DP` (Let __uid_54 (If (ApplyUnaryPrimOp Bang (IsNA (GetField `info.MQ_DP` (Ref row)))) (Apply str String (GetField `info.MQ_DP` (Ref row))) (Str "NA")) (If (ApplyComparisonOp GT (Apply length Int32 (Ref __uid_54)) (I32 76)) (Apply `+` String (ApplyIR `[:*]` String (Ref __uid_54) (I32 73)) (Str "...")) (Ref __uid_54)))) (`info.QD` (Let __uid_55 (If (ApplyUnaryPrimOp Bang (IsNA (GetField `info.QD` (Ref row)))) (Apply format String (Str "%.2e") (MakeTuple (0) (GetField `info.QD` (Ref row)))) (Str "NA")) (If (ApplyComparisonOp GT (Apply length Int32 (Ref __uid_55)) (I32 76)) (Apply `+` String (ApplyIR `[:*]` String (Ref __uid_55) (I32 73)) (Str "...")) (Ref __uid_55)))) (`info.ReadPosRankSum` (Let __uid_56 (If (ApplyUnaryPrimOp Bang (IsNA (GetField `info.ReadPosRankSum` (Ref row)))) (Apply format String (Str "%.2e") (MakeTuple (0) (GetField `info.ReadPosRankSum` (Ref row)))) (Str "NA")) (If (ApplyComparisonOp GT (Apply length Int32 (Ref __uid_56)) (I32 76)) (Apply `+` String (ApplyIR `[:*]` String (Ref __uid_56) (I32 73)) (Str "...")) (Ref __uid_56)))) (`info.SOR` (Let __uid_57 (If (ApplyUnaryPrimOp Bang (IsNA (GetField `info.SOR` (Ref row)))) (Apply format String (Str "%.2e") (MakeTuple (0) (GetField `info.SOR` (Ref row)))) (Str "NA")) (If (ApplyComparisonOp GT (Apply length Int32 (Ref __uid_57)) (I32 76)) (Apply `+` String (ApplyIR `[:*]` String (Ref __uid_57) (I32 73)) (Str "...")) (Ref __uid_57)))) (`info.VarDP` (Let __uid_58 (If (ApplyUnaryPrimOp Bang (IsNA (GetField `info.VarDP` (Ref row)))) (Apply str String (GetField `info.VarDP` (Ref row))) (Str "NA")) (If (ApplyComparisonOp GT (Apply length Int32 (Ref __uid_58)) (I32 76)) (Apply `+` String (ApplyIR `[:*]` String (Ref __uid_58) (I32 73)) (Str "...")) (Ref __uid_58)))) (a_index (Let __uid_59 (If (ApplyUnaryPrimOp Bang (IsNA (GetField a_index (Ref row)))) (Apply str String (GetField a_index (Ref row))) (Str "NA")) (If (ApplyComparisonOp GT (Apply length Int32 (Ref __uid_59)) (I32 76)) (Apply `+` String (ApplyIR `[:*]` String (Ref __uid_59) (I32 73)) (Str "...")) (Ref __uid_59)))) (was_split (Let __uid_60 (If (ApplyUnaryPrimOp Bang (IsNA (GetField was_split (Ref row)))) (Apply str String (GetField was_split (Ref row))) (Str "NA")) (If (ApplyComparisonOp GT (Apply length Int32 (Ref __uid_60)) (I32 76)) (Apply `+` String (ApplyIR `[:*]` String (Ref __uid_60) (I32 73)) (Str "...")) (Ref __uid_60)))) (`variant_qc.AC` (Let __uid_62 (If (ApplyUnaryPrimOp Bang (IsNA (GetField `variant_qc.AC` (Ref row)))) (Apply `+` String (Apply `+` String (Str "[") (Apply mkString String (ArrayMap __uid_61 (GetField `variant_qc.AC` (Ref row)) (If (ApplyUnaryPrimOp Bang (IsNA (Ref __uid_61))) (Apply str String (Ref __uid_61)) (Str "NA"))) (Str ","))) (Str "]")) (Str "NA")) (If (ApplyComparisonOp GT (Apply length Int32 (Ref __uid_62)) (I32 76)) (Apply `+` String (ApplyIR `[:*]` String (Ref __uid_62) (I32 73)) (Str "...")) (Ref __uid_62)))) (`variant_qc.AF` (Let __uid_64 (If (ApplyUnaryPrimOp Bang (IsNA (GetField `variant_qc.AF` (Ref row)))) (Apply `+` String (Apply `+` String (Str "[") (Apply mkString String (ArrayMap __uid_63 (GetField `variant_qc.AF` (Ref row)) (If (ApplyUnaryPrimOp Bang (IsNA (Ref __uid_63))) (Apply format String (Str "%.2e") (MakeTuple (0) (Ref __uid_63))) (Str "NA"))) (Str ","))) (Str "]")) (Str "NA")) (If (ApplyComparisonOp GT (Apply length Int32 (Ref __uid_64)) (I32 76)) (Apply `+` String (ApplyIR `[:*]` String (Ref __uid_64) (I32 73)) (Str "...")) (Ref __uid_64)))) (`variant_qc.AN` (Let __uid_65 (If (ApplyUnaryPrimOp Bang (IsNA (GetField `variant_qc.AN` (Ref row)))) (Apply str String (GetField `variant_qc.AN` (Ref row))) (Str "NA")) (If (ApplyComparisonOp GT (Apply length Int32 (Ref __uid_65)) (I32 76)) (Apply `+` String (ApplyIR `[:*]` String (Ref __uid_65) (I32 73)) (Str "...")) (Ref __uid_65)))) (`variant_qc.homozygote_count` (Let __uid_67 (If (ApplyUnaryPrimOp Bang (IsNA (GetField `variant_qc.homozygote_count` (Ref row)))) (Apply `+` String (Apply `+` String (Str "[") (Apply mkString String (ArrayMap __uid_66 (GetField `variant_qc.homozygote_count` (Ref row)) (If (ApplyUnaryPrimOp Bang (IsNA (Ref __uid_66))) (Apply str String (Ref __uid_66)) (Str "NA"))) (Str ","))) (Str "]")) (Str "NA")) (If (ApplyComparisonOp GT (Apply length Int32 (Ref __uid_67)) (I32 76)) (Apply `+` String (ApplyIR `[:*]` String (Ref __uid_67) (I32 73)) (Str "...")) (Ref __uid_67)))) (`variant_qc.call_rate` (Let __uid_68 (If (ApplyUnaryPrimOp Bang (IsNA (GetField `variant_qc.call_rate` (Ref row)))) (Apply format String (Str "%.2e") (MakeTuple (0) (GetField `variant_qc.call_rate` (Ref row)))) (Str "NA")) (If (ApplyComparisonOp GT (Apply length Int32 (Ref __uid_68)) (I32 76)) (Apply `+` String (ApplyIR `[:*]` String (Ref __uid_68) (I32 73)) (Str "...")) (Ref __uid_68)))) (`variant_qc.n_called` (Let __uid_69 (If (ApplyUnaryPrimOp Bang (IsNA (GetField `variant_qc.n_called` (Ref row)))) (Apply str String (GetField `variant_qc.n_called` (Ref row))) (Str "NA")) (If (ApplyComparisonOp GT (Apply length Int32 (Ref __uid_69)) (I32 76)) (Apply `+` String (ApplyIR `[:*]` String (Ref __uid_69) (I32 73)) (Str "...")) (Ref __uid_69)))) (`variant_qc.n_not_called` (Let __uid_70 (If (ApplyUnaryPrimOp Bang (IsNA (GetField `variant_qc.n_not_called` (Ref row)))) (Apply str String (GetField `variant_qc.n_not_called` (Ref row))) (Str "NA")) (If (ApplyComparisonOp GT (Apply length Int32 (Ref __uid_70)) (I32 76)) (Apply `+` String (ApplyIR `[:*]` String (Ref __uid_70) (I32 73)) (Str "...")) (Ref __uid_70)))) (`variant_qc.n_filtered` (Let __uid_71 (If (ApplyUnaryPrimOp Bang (IsNA (GetField `variant_qc.n_filtered` (Ref row)))) (Apply str String (GetField `variant_qc.n_filtered` (Ref row))) (Str "NA")) (If (ApplyComparisonOp GT (Apply length Int32 (Ref __uid_71)) (I32 76)) (Apply `+` String (ApplyIR `[:*]` String (Ref __uid_71) (I32 73)) (Str "...")) (Ref __uid_71)))) (`variant_qc.n_het` (Let __uid_72 (If (ApplyUnaryPrimOp Bang (IsNA (GetField `variant_qc.n_het` (Ref row)))) (Apply str String (GetField `variant_qc.n_het` (Ref row))) (Str "NA")) (If (ApplyComparisonOp GT (Apply length Int32 (Ref __uid_72)) (I32 76)) (Apply `+` String (ApplyIR `[:*]` String (Ref __uid_72) (I32 73)) (Str "...")) (Ref __uid_72)))) (`variant_qc.n_non_ref` (Let __uid_73 (If (ApplyUnaryPrimOp Bang (IsNA (GetField `variant_qc.n_non_ref` (Ref row)))) (Apply str String (GetField `variant_qc.n_non_ref` (Ref row))) (Str "NA")) (If (ApplyComparisonOp GT (Apply length Int32 (Ref __uid_73)) (I32 76)) (Apply `+` String (ApplyIR `[:*]` String (Ref __uid_73) (I32 73)) (Str "...")) (Ref __uid_73)))) (`variant_qc.het_freq_hwe` (Let __uid_74 (If (ApplyUnaryPrimOp Bang (IsNA (GetField `variant_qc.het_freq_hwe` (Ref row)))) (Apply format String (Str "%.2e") (MakeTuple (0) (GetField `variant_qc.het_freq_hwe` (Ref row)))) (Str "NA")) (If (ApplyComparisonOp GT (Apply length Int32 (Ref __uid_74)) (I32 76)) (Apply `+` String (ApplyIR `[:*]` String (Ref __uid_74) (I32 73)) (Str "...")) (Ref __uid_74)))) (`variant_qc.p_value_hwe` (Let __uid_75 (If (ApplyUnaryPrimOp Bang (IsNA (GetField `variant_qc.p_value_hwe` (Ref row)))) (Apply format String (Str "%.2e") (MakeTuple (0) (GetField `variant_qc.p_value_hwe` (Ref row)))) (Str "NA")) (If (ApplyComparisonOp GT (Apply length Int32 (Ref __uid_75)) (I32 76)) (Apply `+` String (ApplyIR `[:*]` String (Ref __uid_75) (I32 73)) (Str "...")) (Ref __uid_75))))))))) 2019-11-14 20:58:30 root: INFO: optimize (initial optimization): after: IR size 980: (GetField rows (TableCollect (TableMapRows (TableHead 11 (TableOrderBy (Alocus Aalleles) (MatrixRowsTable (MatrixMapRows (MatrixFilterIntervals "[{\"start\":{\"locus\":{\"contig\":\"chr20\",\"position\":1}},\"end\":{\"locus\":{\"contig\":\"chr20\",\"position\":64444167}},\"includeStart\":true,\"includeEnd\":true}]" True (MatrixRead Matrix{global:Struct{},col_key:[s],col:Struct{s:String},row_key:[[locus,alleles]],row:Struct{locus:Locus(GRCh38),alleles:Array[String],rsid:String,qual:Float64,filters:Set[String],info:Struct{AC:Array[Int32],AF:Array[Float64],AN:Int32,BaseQRankSum:Float64,DB:Boolean,DP:Int32,FS:Float64,MQ:Float64,MQRankSum:Float64,MQ_DP:Int32,QD:Float64,ReadPosRankSum:Float64,SOR:Float64,VarDP:Int32},a_index:Int32,was_split:Boolean},entry:Struct{GT:Call}} False False "{\"name\":\"MatrixNativeReader\",\"path\":\"gs://broad-ukbb/broad.freeze_4/hardcalls/hardcalls.split.mt\",\"_spec\":null}")) (AggLet __iruid_7978 False (GetField GT (Ref g)) (InsertFields (Ref va) None (variant_qc (Let __iruid_7979 (MakeStruct (n_called (ApplyAggOp Sum () None ( (Apply toInt64 Int64 (ApplyUnaryPrimOp Bang (IsNA (Ref __iruid_7978))))))) (n_not_called (ApplyAggOp Sum () None ( (Apply toInt64 Int64 (IsNA (Ref __iruid_7978)))))) (n_filtered (ApplyBinaryPrimOp Subtract (I64 100221) (ApplyAggOp Count () None ()))) (call_stats (ApplyAggOp CallStats () ( (ArrayLen (GetField alleles (Ref va)))) ( (Ref __iruid_7978))))) (Let __iruid_7980 (GetField call_stats (Ref __iruid_7979)) (Let __iruid_7981 (GetField homozygote_count (Ref __iruid_7980)) (Let __iruid_7982 (GetField n_called (Ref __iruid_7979)) (Let __iruid_7983 (GetField n_not_called (Ref __iruid_7979)) (Let __iruid_7984 (GetField n_filtered (Ref __iruid_7979)) (Let __iruid_7985 (If (ApplyComparisonOp EQ (ArrayLen (GetField alleles (Ref va))) (I32 2)) (Let __iruid_7986 (GetField call_stats (Ref __iruid_7979)) (Let __iruid_7987 (GetField homozygote_count (Ref __iruid_7986)) (Apply hardy_weinberg_test Struct{het_freq_hwe:Float64,p_value:Float64} (ArrayRef (Ref __iruid_7987) (I32 0)) (ApplyBinaryPrimOp Subtract (ArrayRef (GetField AC (Ref __iruid_7986)) (I32 1)) (ApplyBinaryPrimOp Multiply (I32 2) (ArrayRef (Ref __iruid_7987) (I32 1)))) (ArrayRef (Ref __iruid_7987) (I32 1))))) (NA Struct{het_freq_hwe:Float64,p_value:Float64})) (MakeStruct (AC (GetField AC (Ref __iruid_7980))) (AF (GetField AF (Ref __iruid_7980))) (AN (GetField AN (Ref __iruid_7980))) (homozygote_count (Ref __iruid_7981)) (call_rate (ApplyBinaryPrimOp FloatingPointDivide (Cast Float64 (Ref __iruid_7982)) (Cast Float64 (ApplyBinaryPrimOp Add (ApplyBinaryPrimOp Add (Ref __iruid_7982) (Ref __iruid_7983)) (Ref __iruid_7984))))) (n_called (Ref __iruid_7982)) (n_not_called (Ref __iruid_7983)) (n_filtered (Ref __iruid_7984)) (n_het (ApplyBinaryPrimOp Subtract (Ref __iruid_7982) (Cast Int64 (ArrayFold __iruid_7988 __iruid_7989 (ArrayFilter __iruid_7990 (Ref __iruid_7981) (ApplyUnaryPrimOp Bang (IsNA (Ref __iruid_7990)))) (I32 0) (ApplyBinaryPrimOp Add (Ref __iruid_7988) (Ref __iruid_7989)))))) (n_non_ref (ApplyBinaryPrimOp Subtract (Ref __iruid_7982) (Cast Int64 (ArrayRef (Ref __iruid_7981) (I32 0))))) (het_freq_hwe (GetField het_freq_hwe (Ref __iruid_7985))) (p_value_hwe (GetField p_value (Ref __iruid_7985)))))))))))))))))) (Let __iruid_7991 (GetField variant_qc (Ref row)) (Let __iruid_7992 (GetField info (Ref row)) (Let __iruid_7993 (GetField p_value_hwe (Ref __iruid_7991)) (Let __iruid_7994 (GetField het_freq_hwe (Ref __iruid_7991)) (Let __iruid_7995 (GetField n_non_ref (Ref __iruid_7991)) (Let __iruid_7996 (GetField n_het (Ref __iruid_7991)) (Let __iruid_7997 (GetField n_filtered (Ref __iruid_7991)) (Let __iruid_7998 (GetField n_not_called (Ref __iruid_7991)) (Let __iruid_7999 (GetField n_called (Ref __iruid_7991)) (Let __iruid_8000 (GetField call_rate (Ref __iruid_7991)) (Let __iruid_8001 (GetField homozygote_count (Ref __iruid_7991)) (Let __iruid_8002 (GetField AN (Ref __iruid_7991)) (Let __iruid_8003 (GetField AF (Ref __iruid_7991)) (Let __iruid_8004 (GetField AC (Ref __iruid_7991)) (Let __iruid_8005 (GetField was_split (Ref row)) (Let __iruid_8006 (GetField a_index (Ref row)) (Let __iruid_8007 (GetField VarDP (Ref __iruid_7992)) (Let __iruid_8008 (GetField SOR (Ref __iruid_7992)) (Let __iruid_8009 (GetField ReadPosRankSum (Ref __iruid_7992)) (Let __iruid_8010 (GetField QD (Ref __iruid_7992)) (Let __iruid_8011 (GetField MQ_DP (Ref __iruid_7992)) (Let __iruid_8012 (GetField MQRankSum (Ref __iruid_7992)) (Let __iruid_8013 (GetField MQ (Ref __iruid_7992)) (Let __iruid_8014 (GetField FS (Ref __iruid_7992)) (Let __iruid_8015 (GetField DP (Ref __iruid_7992)) (Let __iruid_8016 (GetField DB (Ref __iruid_7992)) (Let __iruid_8017 (GetField BaseQRankSum (Ref __iruid_7992)) (Let __iruid_8018 (GetField AN (Ref __iruid_7992)) (Let __iruid_8019 (GetField AF (Ref __iruid_7992)) (Let __iruid_8020 (GetField AC (Ref __iruid_7992)) (Let __iruid_8021 (GetField filters (Ref row)) (Let __iruid_8022 (GetField qual (Ref row)) (Let __iruid_8023 (GetField rsid (Ref row)) (Let __iruid_8024 (GetField alleles (Ref row)) (Let __iruid_8025 (GetField locus (Ref row)) (InsertFields (SelectFields () (Ref row)) None (locus (Let __iruid_8026 (If (IsNA (Ref __iruid_8025)) (Str "NA") (Apply str String (Ref __iruid_8025))) (If (ApplyComparisonOp GT (Apply length Int32 (Ref __iruid_8026)) (I32 76)) (Apply `+` String (ApplyIR `[*:*]` String (Ref __iruid_8026) (I32 0) (I32 73)) (Str "...")) (Ref __iruid_8026)))) (alleles (Let __iruid_8027 (If (IsNA (Ref __iruid_8024)) (Str "NA") (Apply `+` String (Apply `+` String (Str "[") (Apply mkString String (ArrayMap __iruid_8028 (Ref __iruid_8024) (If (IsNA (Ref __iruid_8028)) (Str "NA") (Apply `+` String (Apply `+` String (Str "\"") (Apply escapeString String (Ref __iruid_8028))) (Str "\"")))) (Str ","))) (Str "]"))) (If (ApplyComparisonOp GT (Apply length Int32 (Ref __iruid_8027)) (I32 76)) (Apply `+` String (ApplyIR `[*:*]` String (Ref __iruid_8027) (I32 0) (I32 73)) (Str "...")) (Ref __iruid_8027)))) (rsid (Let __iruid_8029 (If (IsNA (Ref __iruid_8023)) (Str "NA") (Apply `+` String (Apply `+` String (Str "\"") (Apply escapeString String (Ref __iruid_8023))) (Str "\""))) (If (ApplyComparisonOp GT (Apply length Int32 (Ref __iruid_8029)) (I32 76)) (Apply `+` String (ApplyIR `[*:*]` String (Ref __iruid_8029) (I32 0) (I32 73)) (Str "...")) (Ref __iruid_8029)))) (qual (Let __iruid_8030 (If (IsNA (Ref __iruid_8022)) (Str "NA") (Apply format String (Str "%.2e") (MakeTuple (0) (Ref __iruid_8022)))) (If (ApplyComparisonOp GT (Apply length Int32 (Ref __iruid_8030)) (I32 76)) (Apply `+` String (ApplyIR `[*:*]` String (Ref __iruid_8030) (I32 0) (I32 73)) (Str "...")) (Ref __iruid_8030)))) (filters (Let __iruid_8031 (If (IsNA (Ref __iruid_8021)) (Str "NA") (Apply `+` String (Apply `+` String (Str "{") (Apply mkString String (ArrayMap __iruid_8032 (ToArray (Ref __iruid_8021)) (If (IsNA (Ref __iruid_8032)) (Str "NA") (Apply `+` String (Apply `+` String (Str "\"") (Apply escapeString String (Ref __iruid_8032))) (Str "\"")))) (Str ","))) (Str "}"))) (If (ApplyComparisonOp GT (Apply length Int32 (Ref __iruid_8031)) (I32 76)) (Apply `+` String (ApplyIR `[*:*]` String (Ref __iruid_8031) (I32 0) (I32 73)) (Str "...")) (Ref __iruid_8031)))) (`info.AC` (Let __iruid_8033 (If (IsNA (Ref __iruid_8020)) (Str "NA") (Apply `+` String (Apply `+` String (Str "[") (Apply mkString String (ArrayMap __iruid_8034 (Ref __iruid_8020) (If (IsNA (Ref __iruid_8034)) (Str "NA") (Apply str String (Ref __iruid_8034)))) (Str ","))) (Str "]"))) (If (ApplyComparisonOp GT (Apply length Int32 (Ref __iruid_8033)) (I32 76)) (Apply `+` String (ApplyIR `[*:*]` String (Ref __iruid_8033) (I32 0) (I32 73)) (Str "...")) (Ref __iruid_8033)))) (`info.AF` (Let __iruid_8035 (If (IsNA (Ref __iruid_8019)) (Str "NA") (Apply `+` String (Apply `+` String (Str "[") (Apply mkString String (ArrayMap __iruid_8036 (Ref __iruid_8019) (If (IsNA (Ref __iruid_8036)) (Str "NA") (Apply format String (Str "%.2e") (MakeTuple (0) (Ref __iruid_8036))))) (Str ","))) (Str "]"))) (If (ApplyComparisonOp GT (Apply length Int32 (Ref __iruid_8035)) (I32 76)) (Apply `+` String (ApplyIR `[*:*]` String (Ref __iruid_8035) (I32 0) (I32 73)) (Str "...")) (Ref __iruid_8035)))) (`info.AN` (Let __iruid_8037 (If (IsNA (Ref __iruid_8018)) (Str "NA") (Apply str String (Ref __iruid_8018))) (If (ApplyComparisonOp GT (Apply length Int32 (Ref __iruid_8037)) (I32 76)) (Apply `+` String (ApplyIR `[*:*]` String (Ref __iruid_8037) (I32 0) (I32 73)) (Str "...")) (Ref __iruid_8037)))) (`info.BaseQRankSum` (Let __iruid_8038 (If (IsNA (Ref __iruid_8017)) (Str "NA") (Apply format String (Str "%.2e") (MakeTuple (0) (Ref __iruid_8017)))) (If (ApplyComparisonOp GT (Apply length Int32 (Ref __iruid_8038)) (I32 76)) (Apply `+` String (ApplyIR `[*:*]` String (Ref __iruid_8038) (I32 0) (I32 73)) (Str "...")) (Ref __iruid_8038)))) (`info.DB` (Let __iruid_8039 (If (IsNA (Ref __iruid_8016)) (Str "NA") (Apply str String (Ref __iruid_8016))) (If (ApplyComparisonOp GT (Apply length Int32 (Ref __iruid_8039)) (I32 76)) (Apply `+` String (ApplyIR `[*:*]` String (Ref __iruid_8039) (I32 0) (I32 73)) (Str "...")) (Ref __iruid_8039)))) (`info.DP` (Let __iruid_8040 (If (IsNA (Ref __iruid_8015)) (Str "NA") (Apply str String (Ref __iruid_8015))) (If (ApplyComparisonOp GT (Apply length Int32 (Ref __iruid_8040)) (I32 76)) (Apply `+` String (ApplyIR `[*:*]` String (Ref __iruid_8040) (I32 0) (I32 73)) (Str "...")) (Ref __iruid_8040)))) (`info.FS` (Let __iruid_8041 (If (IsNA (Ref __iruid_8014)) (Str "NA") (Apply format String (Str "%.2e") (MakeTuple (0) (Ref __iruid_8014)))) (If (ApplyComparisonOp GT (Apply length Int32 (Ref __iruid_8041)) (I32 76)) (Apply `+` String (ApplyIR `[*:*]` String (Ref __iruid_8041) (I32 0) (I32 73)) (Str "...")) (Ref __iruid_8041)))) (`info.MQ` (Let __iruid_8042 (If (IsNA (Ref __iruid_8013)) (Str "NA") (Apply format String (Str "%.2e") (MakeTuple (0) (Ref __iruid_8013)))) (If (ApplyComparisonOp GT (Apply length Int32 (Ref __iruid_8042)) (I32 76)) (Apply `+` String (ApplyIR `[*:*]` String (Ref __iruid_8042) (I32 0) (I32 73)) (Str "...")) (Ref __iruid_8042)))) (`info.MQRankSum` (Let __iruid_8043 (If (IsNA (Ref __iruid_8012)) (Str "NA") (Apply format String (Str "%.2e") (MakeTuple (0) (Ref __iruid_8012)))) (If (ApplyComparisonOp GT (Apply length Int32 (Ref __iruid_8043)) (I32 76)) (Apply `+` String (ApplyIR `[*:*]` String (Ref __iruid_8043) (I32 0) (I32 73)) (Str "...")) (Ref __iruid_8043)))) (`info.MQ_DP` (Let __iruid_8044 (If (IsNA (Ref __iruid_8011)) (Str "NA") (Apply str String (Ref __iruid_8011))) (If (ApplyComparisonOp GT (Apply length Int32 (Ref __iruid_8044)) (I32 76)) (Apply `+` String (ApplyIR `[*:*]` String (Ref __iruid_8044) (I32 0) (I32 73)) (Str "...")) (Ref __iruid_8044)))) (`info.QD` (Let __iruid_8045 (If (IsNA (Ref __iruid_8010)) (Str "NA") (Apply format String (Str "%.2e") (MakeTuple (0) (Ref __iruid_8010)))) (If (ApplyComparisonOp GT (Apply length Int32 (Ref __iruid_8045)) (I32 76)) (Apply `+` String (ApplyIR `[*:*]` String (Ref __iruid_8045) (I32 0) (I32 73)) (Str "...")) (Ref __iruid_8045)))) (`info.ReadPosRankSum` (Let __iruid_8046 (If (IsNA (Ref __iruid_8009)) (Str "NA") (Apply format String (Str "%.2e") (MakeTuple (0) (Ref __iruid_8009)))) (If (ApplyComparisonOp GT (Apply length Int32 (Ref __iruid_8046)) (I32 76)) (Apply `+` String (ApplyIR `[*:*]` String (Ref __iruid_8046) (I32 0) (I32 73)) (Str "...")) (Ref __iruid_8046)))) (`info.SOR` (Let __iruid_8047 (If (IsNA (Ref __iruid_8008)) (Str "NA") (Apply format String (Str "%.2e") (MakeTuple (0) (Ref __iruid_8008)))) (If (ApplyComparisonOp GT (Apply length Int32 (Ref __iruid_8047)) (I32 76)) (Apply `+` String (ApplyIR `[*:*]` String (Ref __iruid_8047) (I32 0) (I32 73)) (Str "...")) (Ref __iruid_8047)))) (`info.VarDP` (Let __iruid_8048 (If (IsNA (Ref __iruid_8007)) (Str "NA") (Apply str String (Ref __iruid_8007))) (If (ApplyComparisonOp GT (Apply length Int32 (Ref __iruid_8048)) (I32 76)) (Apply `+` String (ApplyIR `[*:*]` String (Ref __iruid_8048) (I32 0) (I32 73)) (Str "...")) (Ref __iruid_8048)))) (a_index (Let __iruid_8049 (If (IsNA (Ref __iruid_8006)) (Str "NA") (Apply str String (Ref __iruid_8006))) (If (ApplyComparisonOp GT (Apply length Int32 (Ref __iruid_8049)) (I32 76)) (Apply `+` String (ApplyIR `[*:*]` String (Ref __iruid_8049) (I32 0) (I32 73)) (Str "...")) (Ref __iruid_8049)))) (was_split (Let __iruid_8050 (If (IsNA (Ref __iruid_8005)) (Str "NA") (Apply str String (Ref __iruid_8005))) (If (ApplyComparisonOp GT (Apply length Int32 (Ref __iruid_8050)) (I32 76)) (Apply `+` String (ApplyIR `[*:*]` String (Ref __iruid_8050) (I32 0) (I32 73)) (Str "...")) (Ref __iruid_8050)))) (`variant_qc.AC` (Let __iruid_8051 (If (IsNA (Ref __iruid_8004)) (Str "NA") (Apply `+` String (Apply `+` String (Str "[") (Apply mkString String (ArrayMap __iruid_8052 (Ref __iruid_8004) (If (IsNA (Ref __iruid_8052)) (Str "NA") (Apply str String (Ref __iruid_8052)))) (Str ","))) (Str "]"))) (If (ApplyComparisonOp GT (Apply length Int32 (Ref __iruid_8051)) (I32 76)) (Apply `+` String (ApplyIR `[*:*]` String (Ref __iruid_8051) (I32 0) (I32 73)) (Str "...")) (Ref __iruid_8051)))) (`variant_qc.AF` (Let __iruid_8053 (If (IsNA (Ref __iruid_8003)) (Str "NA") (Apply `+` String (Apply `+` String (Str "[") (Apply mkString String (ArrayMap __iruid_8054 (Ref __iruid_8003) (If (IsNA (Ref __iruid_8054)) (Str "NA") (Apply format String (Str "%.2e") (MakeTuple (0) (Ref __iruid_8054))))) (Str ","))) (Str "]"))) (If (ApplyComparisonOp GT (Apply length Int32 (Ref __iruid_8053)) (I32 76)) (Apply `+` String (ApplyIR `[*:*]` String (Ref __iruid_8053) (I32 0) (I32 73)) (Str "...")) (Ref __iruid_8053)))) (`variant_qc.AN` (Let __iruid_8055 (If (IsNA (Ref __iruid_8002)) (Str "NA") (Apply str String (Ref __iruid_8002))) (If (ApplyComparisonOp GT (Apply length Int32 (Ref __iruid_8055)) (I32 76)) (Apply `+` String (ApplyIR `[*:*]` String (Ref __iruid_8055) (I32 0) (I32 73)) (Str "...")) (Ref __iruid_8055)))) (`variant_qc.homozygote_count` (Let __iruid_8056 (If (IsNA (Ref __iruid_8001)) (Str "NA") (Apply `+` String (Apply `+` String (Str "[") (Apply mkString String (ArrayMap __iruid_8057 (Ref __iruid_8001) (If (IsNA (Ref __iruid_8057)) (Str "NA") (Apply str String (Ref __iruid_8057)))) (Str ","))) (Str "]"))) (If (ApplyComparisonOp GT (Apply length Int32 (Ref __iruid_8056)) (I32 76)) (Apply `+` String (ApplyIR `[*:*]` String (Ref __iruid_8056) (I32 0) (I32 73)) (Str "...")) (Ref __iruid_8056)))) (`variant_qc.call_rate` (Let __iruid_8058 (If (IsNA (Ref __iruid_8000)) (Str "NA") (Apply format String (Str "%.2e") (MakeTuple (0) (Ref __iruid_8000)))) (If (ApplyComparisonOp GT (Apply length Int32 (Ref __iruid_8058)) (I32 76)) (Apply `+` String (ApplyIR `[*:*]` String (Ref __iruid_8058) (I32 0) (I32 73)) (Str "...")) (Ref __iruid_8058)))) (`variant_qc.n_called` (Let __iruid_8059 (If (IsNA (Ref __iruid_7999)) (Str "NA") (Apply str String (Ref __iruid_7999))) (If (ApplyComparisonOp GT (Apply length Int32 (Ref __iruid_8059)) (I32 76)) (Apply `+` String (ApplyIR `[*:*]` String (Ref __iruid_8059) (I32 0) (I32 73)) (Str "...")) (Ref __iruid_8059)))) (`variant_qc.n_not_called` (Let __iruid_8060 (If (IsNA (Ref __iruid_7998)) (Str "NA") (Apply str String (Ref __iruid_7998))) (If (ApplyComparisonOp GT (Apply length Int32 (Ref __iruid_8060)) (I32 76)) (Apply `+` String (ApplyIR `[*:*]` String (Ref __iruid_8060) (I32 0) (I32 73)) (Str "...")) (Ref __iruid_8060)))) (`variant_qc.n_filtered` (Let __iruid_8061 (If (IsNA (Ref __iruid_7997)) (Str "NA") (Apply str String (Ref __iruid_7997))) (If (ApplyComparisonOp GT (Apply length Int32 (Ref __iruid_8061)) (I32 76)) (Apply `+` String (ApplyIR `[*:*]` String (Ref __iruid_8061) (I32 0) (I32 73)) (Str "...")) (Ref __iruid_8061)))) (`variant_qc.n_het` (Let __iruid_8062 (If (IsNA (Ref __iruid_7996)) (Str "NA") (Apply str String (Ref __iruid_7996))) (If (ApplyComparisonOp GT (Apply length Int32 (Ref __iruid_8062)) (I32 76)) (Apply `+` String (ApplyIR `[*:*]` String (Ref __iruid_8062) (I32 0) (I32 73)) (Str "...")) (Ref __iruid_8062)))) (`variant_qc.n_non_ref` (Let __iruid_8063 (If (IsNA (Ref __iruid_7995)) (Str "NA") (Apply str String (Ref __iruid_7995))) (If (ApplyComparisonOp GT (Apply length Int32 (Ref __iruid_8063)) (I32 76)) (Apply `+` String (ApplyIR `[*:*]` String (Ref __iruid_8063) (I32 0) (I32 73)) (Str "...")) (Ref __iruid_8063)))) (`variant_qc.het_freq_hwe` (Let __iruid_8064 (If (IsNA (Ref __iruid_7994)) (Str "NA") (Apply format String (Str "%.2e") (MakeTuple (0) (Ref __iruid_7994)))) (If (ApplyComparisonOp GT (Apply length Int32 (Ref __iruid_8064)) (I32 76)) (Apply `+` String (ApplyIR `[*:*]` String (Ref __iruid_8064) (I32 0) (I32 73)) (Str "...")) (Ref __iruid_8064)))) (`variant_qc.p_value_hwe` (Let __iruid_8065 (If (IsNA (Ref __iruid_7993)) (Str "NA") (Apply format String (Str "%.2e") (MakeTuple (0) (Ref __iruid_7993)))) (If (ApplyComparisonOp GT (Apply length Int32 (Ref __iruid_8065)) (I32 76)) (Apply `+` String (ApplyIR `[*:*]` String (Ref __iruid_8065) (I32 0) (I32 73)) (Str "...")) (Ref __iruid_8065))))))))))))))))))))))))))))))))))))))))))) 2019-11-14 20:58:31 root: INFO: optimize (lower matrix to table, after): before: IR size 1023: (GetField rows (TableCollect (TableMapRows (TableHead 11 (TableOrderBy (Alocus Aalleles) (TableMapRows (TableMapGlobals (TableMapRows (TableFilterIntervals "[{\"start\":{\"locus\":{\"contig\":\"chr20\",\"position\":1}},\"end\":{\"locus\":{\"contig\":\"chr20\",\"position\":64444167}},\"includeStart\":true,\"includeEnd\":true}]" True (TableMapGlobals (TableRead Table{global:Struct{},key:[locus,alleles],row:Struct{locus:Locus(GRCh38),alleles:Array[String],rsid:String,qual:Float64,filters:Set[String],info:Struct{AC:Array[Int32],AF:Array[Float64],AN:Int32,BaseQRankSum:Float64,DB:Boolean,DP:Int32,FS:Float64,MQ:Float64,MQRankSum:Float64,MQ_DP:Int32,QD:Float64,ReadPosRankSum:Float64,SOR:Float64,VarDP:Int32},a_index:Int32,was_split:Boolean,`the entries! [877f12a8827e18f61222c6c8c5fb04a8]`:Array[Struct{GT:Call}]}} False "{\"name\":\"TableNativeZippedReader\",\"pathLeft\":\"gs://broad-ukbb/broad.freeze_4/hardcalls/hardcalls.split.mt/rows\",\"pathRight\":\"gs://broad-ukbb/broad.freeze_4/hardcalls/hardcalls.split.mt/entries\",\"_specLeft\":{\"name\":\"TableSpec\",\"file_version\":65792,\"hail_version\":\"0.2.19-c6ec8b76eb26\",\"references_rel_path\":\"../references\",\"table_type\":\"Table{global:Struct{},key:[locus,alleles],row:Struct{locus:Locus(GRCh38),alleles:Array[String],rsid:String,qual:Float64,filters:Set[String],info:Struct{AC:Array[Int32],AF:Array[Float64],AN:Int32,BaseQRankSum:Float64,DB:Boolean,DP:Int32,FS:Float64,MQ:Float64,MQRankSum:Float64,MQ_DP:Int32,QD:Float64,ReadPosRankSum:Float64,SOR:Float64,VarDP:Int32},a_index:Int32,was_split:Boolean}}\",\"components\":{\"globals\":{\"name\":\"RVDComponentSpec\",\"rel_path\":\"../globals/rows\"},\"rows\":{\"name\":\"RVDComponentSpec\",\"rel_path\":\"rows\"},\"partition_counts\":{\"name\":\"PartitionCountsComponentSpec\",\"counts\":[1479,1293,1359,1348,1245,1316,1080,1089,1327,1330,1316,1414,1426,1298,1432,2533,1267,1338,1125,1440,1407,1311,1269,1313,1348,1243,1471,1493,1632,1387,1637,1393,1341,1398,1350,1405,1453,1444,1497,1549,1351,1500,1447,1363,1216,1233,1360,1371,1269,1476,1433,1506,1493,1367,1704,1392,1482,1397,1542,1435,1333,1350,1362,1690,1548,1442,1417,1507,1471,1377,1312,1361,1173,1561,1605,1424,1627,1450,1494,1403,1563,1544,1484,1436,1313,1401,1192,1332,1474,1582,1453,1440,1314,1491,1442,1311,1170,1486,1579,1536,1336,1391,1308,1275,1402,1347,1453,1288,1452,1548,1452,1283,1222,1319,1239,1385,1384,1320,1517,1267,1401,1340,1237,1366,1358,1521,1510,1527,1606,1418,1310,1421,1616,1405,1458,1458,1406,1451,1416,1453,1604,1148,1417,1362,1543,1659,1441,1510,1395,1432,1367,1295,1330,1377,1423,1355,1227,1357,1611,1414,1448,1416,1590,1357,1431,1413,1515,1514,1554,1538,1490,1525,1342,1453,1418,1465,1397,1149,1423,1423,1357,1522,1441,1328,1386,1315,1388,1254,1546,1514,1503,1536,1663,1534,1505,1359,1441,1563,1507,1424,1542,1329,1341,1453,1669,1486,1460,1534,1515,1353,1337,1456,1283,1332,1386,1470,1533,1577,1402,1458,1505,1056,1429,1573,1458,1598,1505,1487,1396,1321,1319,1118,1502,1586,1496,1613,1417,1701,1543,1490,1422,1430,1071,1456,1534,1582,1468,1454,1398,1543,1387,1473,1495,1528,1472,1409,1242,1683,1537,1496,1359,1536,1402,1371,1430,1409,1297,1236,1395,1343,1310,1498,1436,1391,1483,1545,1444,1318,1375,1336,1157,1447,1309,1425,1573,1425,1323,1467,1257,1538,1416,1366,1291,1476,1351,1464,1718,1592,1444,1860,1446,1600,1703,1535,1602,1476,1703,1452,1547,1424,1594,1593,1483,1615,1281,1492,1676,1348,1446,1510,1489,1569,1843,1586,1736,1768,1675,1490,1316,1367,1566,1569,1623,1475,1601,1551,1418,1364,1320,1618,1478,1631,1691,1817,1484,1574,1678,1481,1499,1118,1619,1440,1449,1585,1555,1603,1557,1593,1349,1702,1792,1665,1522,1666,1582,1666,1507,1543,1210,1416,1644,1527,1739,1560,1624,1753,1590,1461,1367,1422,1487,1670,1822,1449,1534,1884,1770,1713,1423,1707,1573,1448,1510,1465,1640,1512,1499,1276,1615,1600,1662,1885,1625,1558,1615,1596,1705,1535,1616,1629,1795,1559,1446,1655,1542,1374,1402,1304,1357,1571,1450,1547,1506,1607,1492,1368,1383,1527,1310,1493,1541,1639,1315,1430,1571,1291,1570,1448,1504,1544,1672,1515,1497,1527,1622,1495,1692,1484,1653,1429,1565,1473,1482,1416,1814,1574,1545,1575,1355,1495,1500,1949,1931,1654,1785,1637,1443,1539,1668,1810,1558,1424,1618,1879,2195,1880,1808,1476,1491,1543,1519,1468,1313,1295,1807,1512,1442,1407,1432,1439,1582,1423,1575,1329,1576,1700,1569,1394,1466,1289,1348,1526,1460,1443,1255,1239,1246,1023,1370,1334,1363,1247,1537,1500,1528,1584,1517,1417,1534,1660,1551,1448,1355,1442,1373,1513,1510,1572,1412,1362,1449,1349,1229,1444,1518,1471,1263,1532,1564,1569,1706,1501,1345,1469,1442,1287,1393,1473,1445,1462,1475,1295,1431,1414,1401,1474,1294,1388,1435,1445,1439,1480,1424,1475,1332,1456,1331,1423,1544,1486,1430,1317,1389,1429,1388,1342,1421,1534,1462,1562,1510,1445,1319,1415,1365,1407,1226,1456,1430,1451,1466,1391,1514,1702,1478,1200,1474,1575,1380,1523,1500,1622,1515,1506,1531,1312,1457,1569,1662,1504,1547,1698,1281,1513,1375,1213,1644,1627,1613,1722,1561,1440,1480,1238,1641,1492,1343,1430,1494,1511,1429,1573,1475,1439,1555,1590,1457,1485,1584,1523,1616,1517,1488,1583,1478,1513,1604,1469,1342,1544,1548,1416,1682,1690,1535,1482,1232,1509,1731,1823,1557,1397,1742,1879,1520,1494,1616,1253,1518,1299,1487,1689,1507,1628,1599,1387,1455,1491,1434,1207,961,1427,1398,1335,1509,1551,1381,1376,1457,1361,1525,1538,1427,1365,1461,1462,1437,1549,1528,1635,1587,1657,1489,1536,1439,1386,1391,1410,1315,1270,1404,1510,1503,1602,1528,1454,1455,1459,1599,1500,1506,1431,1494,1423,1434,1473,1360,1482,1511,1230,1738,1506,1263,1282,1516,1579,1499,1431,1175,1859,1407,1449,1386,1821,1620,1571,1703,1620,1771,1455,1442,1459,1498,1342,1402,1484,1680,1520,1308,1478,1547,1416,1520,1434,1377,1664,1575,1349,1340,1673,1541,1328,1330,1483,1458,1309,1291,1367,1370,1424,1384,1325,1422,1279,1464,1527,1348,1391,1432,1456,1567,1242,1313,1808,1302,1412,1456,1463,1419,1489,1479,1473,1368,156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2,1182,975,1195,928,1155,978,1020,1345,1299,1169,1164,1233,1126,1147,1065,1228,1162,1105,1075,1110,1144,1007,1093,1112,1116,1138,1193,1044,1104,1193,1071,1166,1223,1097,1276,1048,1190,1108,1143,1163,1008,1142,1064,1103,1164,1137,1090,1135,1105,1061,1084,1311,1019,1130,1367,1209,1202,1344,1185,1165,1291,1109,1132,1117,1194,1210,1191,1140,1154,1087,1016,1069,1536,1422,1097,899,1094,1072,1175,1149,1202,1170,1087,1324,1239,1683,1393,1072,1223,1319,1464,1617,1643,1378,1225,1288,1223,1294,1116,1408,1150,1371,1340,1230,1214,1140,1184,1231,1648,1251,1212,1285,1307,1280,1095,1250,1446,1252,1284,1135,1263,1183,1105,1296,1162,1278,1096,1550,1357,1274,1233,1276,1169,1147,1062,1339,1245,1229,1270,1171,1259,1212,1202,1154,1197,1079,1220,1318,1260,1167,1237,1234,1303,1095,1181,1321,1279,1165,1087,1077,1131,1217,1190,1223,1143,1196,1273,1416,1283,1203,1071,1173,1322,1079,1217,1245,1246,1254,1235,1145,1194,1051,1198,1275,1192,1179,1167,1217,1301,1194,1082,1202,1290,1303,1195,1346,1223,1110,1240,1241,1318,1161,1211,1165,1137,1250,1133,1188,1169,1194,1196,1083,1257,1174,1181,1086,1253,1232,1224,1088,1178,1207,1244,1273,1156,1062,1201,1344,1260,1192,1249,1307,1278,1210,1145,1083,1216,1270,1354,1263,1097,1139,1316,1323,1223,1188,1234,1167,1192,1168,1218,1182,1197,1107,1275,1231,1235,1247,1378,1531,1112,1226,1182,1228,1138,1088,1211,922,1041,1129,1050,1089,1133,1165,1305,1182,1348,1149,1156,1086,1070,1186,1174,1043,1168,1132,1212,1216,1189,1039,1085,937,1148,1245,1200,1066,1155,1120,994,974,1190,1039,1116,1092,1135,1079,1122,1023,1224,1426,1190,1300,944,1404,1274,1321,1436,1277,1189,1305,1328,1305,1247,1524,1247,1177,1213,1060,1369,1217,1161,1256,1238,1278,1074,1311,1335,1345,1003,1222,1371,1192,1112,977,1115,1089,1229,1273,1010,1217,1247,1257,1375,1223,1257,1192,1183,1136,1209,835,1000,1168,1260,1299,1238,1204,1216,1219,1195,1059,1237,1246,1149,1168,1109,1189,1251,1202,1381,1167,1786,1253,1276,1216,1117,1936,1083,1234,1221,1121,1051,1108,1199,1102,1052,1171,1155,1061,902,1131,984,1237,1331,1273,1293,1074,1067,1002,1109,1249,1221,1265,1019,1250,1147,1203,1037,1251,1275,1115,1183,1174,1254,1028,1223,1231,1270,1140,987,1144,1299,1374,1410,1056,1186,1228,1317,1128,1198,1208,1142,1183,1200,1119,1086,1212,1225,1076,1067,1045,869,909,1088,1135,1166,1311,1336,1346,1079,1136,1164,1562,1317,1124,1178,1174,1192,1283,1279,1138,1233,1198,1121,1146,1152,1342,1144,1192,1271,1213,1183,1284,1248,1206,1118,1179,1408,1074,1224,1075,1267,1143,1218,1426,1218,1317,1245,1207,1112,1145,1221,1208,1180,1146,1256,1204,1265,1439,1273,1157,1162,1174,1210,1141,1087,1179,1670,1202,1187,1198,1209,1274,1247,1308,1103,1259,1194,1302,1227,1402,1362,1286,1201,1246,1233,1146,1099,1154,1209,940,1244,1149,1174,1133,1165,1161,1209,1249,1141,1460,1156,1211,982,1096,1172,1225,1179,1223,1233,1295,1204,1180,1206,1355,1337,1307,1235,994,1029,1073,1259,1113,1105,1152,1332,1256,1352,1190,1244,1078,1162,1266,1273,1269,1143,1180,1174,1064,1268,1309,1245,1263,1188,1053,1054,1069,1082,1154,1337,1212,1211,1246,1135,1144,1433,1167,1246,1127,1253,1359,1125,1140,1117,1240,1279,1273,1157,1162,1147,1079,1070,1281,1187,1179,1201,1336,998,1263,1145,1132,1206,1150,1117,1126,1241,1204,1171,979,1019,1130,1232,1079,1076,1031,1125,1088,1253,1188,1004,1028,941,1186,879,1052,1133,1044,1029,1428,994,1045,1001,1212,1173,1210,1314,1508,1372,1279,1126,1106,1390,1238,1403,1482,1451,1441,1244,1252,1501,1349,1574,1733,1325,1167,1426,1592,1476,1683,1651,1616,1427,1665,1432,1539,1372,1500,1568,1364,1418,1435,1713,1387,1450,1577,1763,1683,1860,1821,1571,1588,1665,1479,1762,1733,1605,1319,1490,1698,1632,1344,1519,1516,1654,1583,1719,1774,1480,1157,1367,1637,1798,1496,1403,1452,1481,1203,1572,1904,1393,1223,1269,1526,1159,1583,1468,1376,1376,1424,1577,1458,1753,1641,1584,1408,1627,1456,1358,1581,1657,1248,1293,1255,1211,1446,1218,1441,1356,1232,1383,1350,1307,1418,1567,1462,1345,1451,1410,1482,1190,1326,1449,1532,1625,1406,1419,1206,1345,1298,1450,1193,1600,1511,1455,1621,1694,1661,1568,1420,1478,1729,1534,1498,1569,1259,1271,1556,1315,1292,1267,1458,1394,1456,1387,1393,1318,1541,1151,1334,1358,1560,1519,1381,1559,1529,1419,1407,1258,1356,1190,1423,1416,1206,1454,1223,1615,1662,1688,1503,1388,1412,1402,1426,1391,1690,1384,1426,1526,1559,1542,1734,1640,1510,1597,1453,1457,1240,1443,1575,1461,1333,1482,1449,1550,1400,1631,1445,902,1310,1336,1097,1343,1204,1350,1364,1398,1723,1756,1520,1603,1484,1463,1496,1061,1462,1444,1570,1650,1633,1299,1754,1704,1474,1370,1813,1797,1445,1519,1192,1618,1873,1405,1076,1749,1625,1509,1453,1561,1612,1857,1360,1311,1483,1313,1508,1566,1408,1340,1672,1455,1301,1685,1633,1682,1632,1535,1269,1589,1711,1662,1396,1248,1381,1501,1840,1574,1358,1427,1649,1049,1500,1629,1412,1430,1833,1627,1537,1620,1581,1080,1617,1636,1550,1281,1327,1701,1647,1645,1330,1235,860,1087,1437,1525,1552,1527,1267,1352,1689,1421,1298,1236,1266,1548,1418,1400,1366,1476,1555,1176,1219,1150,1210,1148,1062,1273,1288,1290,1270,846,1253,1398,1374,1291,1304,1062,1237,1256,1547,1354,1168,1203,1418,1270,1533,1555,1397,1588,1938,2242,2513,1971]}}}}") (InsertFields (Ref global) None (__cols (GetField rows (TableCollect (TableRead Table{global:Struct{},key:[],row:Struct{s:String}} False "{\"name\":\"TableNativeReader\",\"path\":\"gs://broad-ukbb/broad.freeze_4/hardcalls/hardcalls.split.mt/cols\",\"_spec\":{\"name\":\"TableSpec\",\"file_version\":65792,\"hail_version\":\"0.2.19-c6ec8b76eb26\",\"references_rel_path\":\"../references\",\"table_type\":\"Table{global:Struct{},key:[s],row:Struct{s:String}}\",\"components\":{\"globals\":{\"name\":\"RVDComponentSpec\",\"rel_path\":\"../globals/rows\"},\"rows\":{\"name\":\"RVDComponentSpec\",\"rel_path\":\"rows\"},\"partition_counts\":{\"name\":\"PartitionCountsComponentSpec\",\"counts\":[100221]}}}}"))))))) (InsertFields (Let __iruid_8660 (MakeStruct) (ArrayAgg i (ArrayFilter i (ArrayRange (I32 0) (ArrayLen (GetField `the entries! [877f12a8827e18f61222c6c8c5fb04a8]` (Ref row))) (I32 1)) (ApplyUnaryPrimOp Bang (IsNA (ArrayRef (GetField `the entries! [877f12a8827e18f61222c6c8c5fb04a8]` (Ref row)) (Ref i))))) (AggLet sa False (ArrayRef (GetField __cols (Ref global)) (Ref i)) (AggLet g False (ArrayRef (GetField `the entries! [877f12a8827e18f61222c6c8c5fb04a8]` (Ref row)) (Ref i)) (AggLet __iruid_7978 False (GetField GT (Ref g)) (InsertFields (SelectFields (locus alleles rsid qual filters info a_index was_split) (Ref row)) None (variant_qc (Let __iruid_7979 (MakeStruct (n_called (ApplyAggOp Sum () None ( (Apply toInt64 Int64 (ApplyUnaryPrimOp Bang (IsNA (Ref __iruid_7978))))))) (n_not_called (ApplyAggOp Sum () None ( (Apply toInt64 Int64 (IsNA (Ref __iruid_7978)))))) (n_filtered (ApplyBinaryPrimOp Subtract (I64 100221) (ApplyAggOp Count () None ()))) (call_stats (ApplyAggOp CallStats () ( (ArrayLen (GetField alleles (SelectFields (locus alleles rsid qual filters info a_index was_split) (Ref row))))) ( (Ref __iruid_7978))))) (Let __iruid_7980 (GetField call_stats (Ref __iruid_7979)) (Let __iruid_7981 (GetField homozygote_count (Ref __iruid_7980)) (Let __iruid_7982 (GetField n_called (Ref __iruid_7979)) (Let __iruid_7983 (GetField n_not_called (Ref __iruid_7979)) (Let __iruid_7984 (GetField n_filtered (Ref __iruid_7979)) (Let __iruid_7985 (If (ApplyComparisonOp EQ (ArrayLen (GetField alleles (SelectFields (locus alleles rsid qual filters info a_index was_split) (Ref row)))) (I32 2)) (Let __iruid_7986 (GetField call_stats (Ref __iruid_7979)) (Let __iruid_7987 (GetField homozygote_count (Ref __iruid_7986)) (Apply hardy_weinberg_test Struct{het_freq_hwe:Float64,p_value:Float64} (ArrayRef (Ref __iruid_7987) (I32 0)) (ApplyBinaryPrimOp Subtract (ArrayRef (GetField AC (Ref __iruid_7986)) (I32 1)) (ApplyBinaryPrimOp Multiply (I32 2) (ArrayRef (Ref __iruid_7987) (I32 1)))) (ArrayRef (Ref __iruid_7987) (I32 1))))) (NA Struct{het_freq_hwe:Float64,p_value:Float64})) (MakeStruct (AC (GetField AC (Ref __iruid_7980))) (AF (GetField AF (Ref __iruid_7980))) (AN (GetField AN (Ref __iruid_7980))) (homozygote_count (Ref __iruid_7981)) (call_rate (ApplyBinaryPrimOp FloatingPointDivide (Cast Float64 (Ref __iruid_7982)) (Cast Float64 (ApplyBinaryPrimOp Add (ApplyBinaryPrimOp Add (Ref __iruid_7982) (Ref __iruid_7983)) (Ref __iruid_7984))))) (n_called (Ref __iruid_7982)) (n_not_called (Ref __iruid_7983)) (n_filtered (Ref __iruid_7984)) (n_het (ApplyBinaryPrimOp Subtract (Ref __iruid_7982) (Cast Int64 (ArrayFold __iruid_7988 __iruid_7989 (ArrayFilter __iruid_7990 (Ref __iruid_7981) (ApplyUnaryPrimOp Bang (IsNA (Ref __iruid_7990)))) (I32 0) (ApplyBinaryPrimOp Add (Ref __iruid_7988) (Ref __iruid_7989)))))) (n_non_ref (ApplyBinaryPrimOp Subtract (Ref __iruid_7982) (Cast Int64 (ArrayRef (Ref __iruid_7981) (I32 0))))) (het_freq_hwe (GetField het_freq_hwe (Ref __iruid_7985))) (p_value_hwe (GetField p_value (Ref __iruid_7985)))))))))))))))))) None (`the entries! [877f12a8827e18f61222c6c8c5fb04a8]` (GetField `the entries! [877f12a8827e18f61222c6c8c5fb04a8]` (Ref row))))) (SelectFields () (Ref global))) (SelectFields (locus alleles rsid qual filters info a_index was_split variant_qc) (Ref row))))) (Let __iruid_7991 (GetField variant_qc (Ref row)) (Let __iruid_7992 (GetField info (Ref row)) (Let __iruid_7993 (GetField p_value_hwe (Ref __iruid_7991)) (Let __iruid_7994 (GetField het_freq_hwe (Ref __iruid_7991)) (Let __iruid_7995 (GetField n_non_ref (Ref __iruid_7991)) (Let __iruid_7996 (GetField n_het (Ref __iruid_7991)) (Let __iruid_7997 (GetField n_filtered (Ref __iruid_7991)) (Let __iruid_7998 (GetField n_not_called (Ref __iruid_7991)) (Let __iruid_7999 (GetField n_called (Ref __iruid_7991)) (Let __iruid_8000 (GetField call_rate (Ref __iruid_7991)) (Let __iruid_8001 (GetField homozygote_count (Ref __iruid_7991)) (Let __iruid_8002 (GetField AN (Ref __iruid_7991)) (Let __iruid_8003 (GetField AF (Ref __iruid_7991)) (Let __iruid_8004 (GetField AC (Ref __iruid_7991)) (Let __iruid_8005 (GetField was_split (Ref row)) (Let __iruid_8006 (GetField a_index (Ref row)) (Let __iruid_8007 (GetField VarDP (Ref __iruid_7992)) (Let __iruid_8008 (GetField SOR (Ref __iruid_7992)) (Let __iruid_8009 (GetField ReadPosRankSum (Ref __iruid_7992)) (Let __iruid_8010 (GetField QD (Ref __iruid_7992)) (Let __iruid_8011 (GetField MQ_DP (Ref __iruid_7992)) (Let __iruid_8012 (GetField MQRankSum (Ref __iruid_7992)) (Let __iruid_8013 (GetField MQ (Ref __iruid_7992)) (Let __iruid_8014 (GetField FS (Ref __iruid_7992)) (Let __iruid_8015 (GetField DP (Ref __iruid_7992)) (Let __iruid_8016 (GetField DB (Ref __iruid_7992)) (Let __iruid_8017 (GetField BaseQRankSum (Ref __iruid_7992)) (Let __iruid_8018 (GetField AN (Ref __iruid_7992)) (Let __iruid_8019 (GetField AF (Ref __iruid_7992)) (Let __iruid_8020 (GetField AC (Ref __iruid_7992)) (Let __iruid_8021 (GetField filters (Ref row)) (Let __iruid_8022 (GetField qual (Ref row)) (Let __iruid_8023 (GetField rsid (Ref row)) (Let __iruid_8024 (GetField alleles (Ref row)) (Let __iruid_8025 (GetField locus (Ref row)) (InsertFields (SelectFields () (Ref row)) None (locus (Let __iruid_8026 (If (IsNA (Ref __iruid_8025)) (Str "NA") (Apply str String (Ref __iruid_8025))) (If (ApplyComparisonOp GT (Apply length Int32 (Ref __iruid_8026)) (I32 76)) (Apply `+` String (ApplyIR `[*:*]` String (Ref __iruid_8026) (I32 0) (I32 73)) (Str "...")) (Ref __iruid_8026)))) (alleles (Let __iruid_8027 (If (IsNA (Ref __iruid_8024)) (Str "NA") (Apply `+` String (Apply `+` String (Str "[") (Apply mkString String (ArrayMap __iruid_8028 (Ref __iruid_8024) (If (IsNA (Ref __iruid_8028)) (Str "NA") (Apply `+` String (Apply `+` String (Str "\"") (Apply escapeString String (Ref __iruid_8028))) (Str "\"")))) (Str ","))) (Str "]"))) (If (ApplyComparisonOp GT (Apply length Int32 (Ref __iruid_8027)) (I32 76)) (Apply `+` String (ApplyIR `[*:*]` String (Ref __iruid_8027) (I32 0) (I32 73)) (Str "...")) (Ref __iruid_8027)))) (rsid (Let __iruid_8029 (If (IsNA (Ref __iruid_8023)) (Str "NA") (Apply `+` String (Apply `+` String (Str "\"") (Apply escapeString String (Ref __iruid_8023))) (Str "\""))) (If (ApplyComparisonOp GT (Apply length Int32 (Ref __iruid_8029)) (I32 76)) (Apply `+` String (ApplyIR `[*:*]` String (Ref __iruid_8029) (I32 0) (I32 73)) (Str "...")) (Ref __iruid_8029)))) (qual (Let __iruid_8030 (If (IsNA (Ref __iruid_8022)) (Str "NA") (Apply format String (Str "%.2e") (MakeTuple (0) (Ref __iruid_8022)))) (If (ApplyComparisonOp GT (Apply length Int32 (Ref __iruid_8030)) (I32 76)) (Apply `+` String (ApplyIR `[*:*]` String (Ref __iruid_8030) (I32 0) (I32 73)) (Str "...")) (Ref __iruid_8030)))) (filters (Let __iruid_8031 (If (IsNA (Ref __iruid_8021)) (Str "NA") (Apply `+` String (Apply `+` String (Str "{") (Apply mkString String (ArrayMap __iruid_8032 (ToArray (Ref __iruid_8021)) (If (IsNA (Ref __iruid_8032)) (Str "NA") (Apply `+` String (Apply `+` String (Str "\"") (Apply escapeString String (Ref __iruid_8032))) (Str "\"")))) (Str ","))) (Str "}"))) (If (ApplyComparisonOp GT (Apply length Int32 (Ref __iruid_8031)) (I32 76)) (Apply `+` String (ApplyIR `[*:*]` String (Ref __iruid_8031) (I32 0) (I32 73)) (Str "...")) (Ref __iruid_8031)))) (`info.AC` (Let __iruid_8033 (If (IsNA (Ref __iruid_8020)) (Str "NA") (Apply `+` String (Apply `+` String (Str "[") (Apply mkString String (ArrayMap __iruid_8034 (Ref __iruid_8020) (If (IsNA (Ref __iruid_8034)) (Str "NA") (Apply str String (Ref __iruid_8034)))) (Str ","))) (Str "]"))) (If (ApplyComparisonOp GT (Apply length Int32 (Ref __iruid_8033)) (I32 76)) (Apply `+` String (ApplyIR `[*:*]` String (Ref __iruid_8033) (I32 0) (I32 73)) (Str "...")) (Ref __iruid_8033)))) (`info.AF` (Let __iruid_8035 (If (IsNA (Ref __iruid_8019)) (Str "NA") (Apply `+` String (Apply `+` String (Str "[") (Apply mkString String (ArrayMap __iruid_8036 (Ref __iruid_8019) (If (IsNA (Ref __iruid_8036)) (Str "NA") (Apply format String (Str "%.2e") (MakeTuple (0) (Ref __iruid_8036))))) (Str ","))) (Str "]"))) (If (ApplyComparisonOp GT (Apply length Int32 (Ref __iruid_8035)) (I32 76)) (Apply `+` String (ApplyIR `[*:*]` String (Ref __iruid_8035) (I32 0) (I32 73)) (Str "...")) (Ref __iruid_8035)))) (`info.AN` (Let __iruid_8037 (If (IsNA (Ref __iruid_8018)) (Str "NA") (Apply str String (Ref __iruid_8018))) (If (ApplyComparisonOp GT (Apply length Int32 (Ref __iruid_8037)) (I32 76)) (Apply `+` String (ApplyIR `[*:*]` String (Ref __iruid_8037) (I32 0) (I32 73)) (Str "...")) (Ref __iruid_8037)))) (`info.BaseQRankSum` (Let __iruid_8038 (If (IsNA (Ref __iruid_8017)) (Str "NA") (Apply format String (Str "%.2e") (MakeTuple (0) (Ref __iruid_8017)))) (If (ApplyComparisonOp GT (Apply length Int32 (Ref __iruid_8038)) (I32 76)) (Apply `+` String (ApplyIR `[*:*]` String (Ref __iruid_8038) (I32 0) (I32 73)) (Str "...")) (Ref __iruid_8038)))) (`info.DB` (Let __iruid_8039 (If (IsNA (Ref __iruid_8016)) (Str "NA") (Apply str String (Ref __iruid_8016))) (If (ApplyComparisonOp GT (Apply length Int32 (Ref __iruid_8039)) (I32 76)) (Apply `+` String (ApplyIR `[*:*]` String (Ref __iruid_8039) (I32 0) (I32 73)) (Str "...")) (Ref __iruid_8039)))) (`info.DP` (Let __iruid_8040 (If (IsNA (Ref __iruid_8015)) (Str "NA") (Apply str String (Ref __iruid_8015))) (If (ApplyComparisonOp GT (Apply length Int32 (Ref __iruid_8040)) (I32 76)) (Apply `+` String (ApplyIR `[*:*]` String (Ref __iruid_8040) (I32 0) (I32 73)) (Str "...")) (Ref __iruid_8040)))) (`info.FS` (Let __iruid_8041 (If (IsNA (Ref __iruid_8014)) (Str "NA") (Apply format String (Str "%.2e") (MakeTuple (0) (Ref __iruid_8014)))) (If (ApplyComparisonOp GT (Apply length Int32 (Ref __iruid_8041)) (I32 76)) (Apply `+` String (ApplyIR `[*:*]` String (Ref __iruid_8041) (I32 0) (I32 73)) (Str "...")) (Ref __iruid_8041)))) (`info.MQ` (Let __iruid_8042 (If (IsNA (Ref __iruid_8013)) (Str "NA") (Apply format String (Str "%.2e") (MakeTuple (0) (Ref __iruid_8013)))) (If (ApplyComparisonOp GT (Apply length Int32 (Ref __iruid_8042)) (I32 76)) (Apply `+` String (ApplyIR `[*:*]` String (Ref __iruid_8042) (I32 0) (I32 73)) (Str "...")) (Ref __iruid_8042)))) (`info.MQRankSum` (Let __iruid_8043 (If (IsNA (Ref __iruid_8012)) (Str "NA") (Apply format String (Str "%.2e") (MakeTuple (0) (Ref __iruid_8012)))) (If (ApplyComparisonOp GT (Apply length Int32 (Ref __iruid_8043)) (I32 76)) (Apply `+` String (ApplyIR `[*:*]` String (Ref __iruid_8043) (I32 0) (I32 73)) (Str "...")) (Ref __iruid_8043)))) (`info.MQ_DP` (Let __iruid_8044 (If (IsNA (Ref __iruid_8011)) (Str "NA") (Apply str String (Ref __iruid_8011))) (If (ApplyComparisonOp GT (Apply length Int32 (Ref __iruid_8044)) (I32 76)) (Apply `+` String (ApplyIR `[*:*]` String (Ref __iruid_8044) (I32 0) (I32 73)) (Str "...")) (Ref __iruid_8044)))) (`info.QD` (Let __iruid_8045 (If (IsNA (Ref __iruid_8010)) (Str "NA") (Apply format String (Str "%.2e") (MakeTuple (0) (Ref __iruid_8010)))) (If (ApplyComparisonOp GT (Apply length Int32 (Ref __iruid_8045)) (I32 76)) (Apply `+` String (ApplyIR `[*:*]` String (Ref __iruid_8045) (I32 0) (I32 73)) (Str "...")) (Ref __iruid_8045)))) (`info.ReadPosRankSum` (Let __iruid_8046 (If (IsNA (Ref __iruid_8009)) (Str "NA") (Apply format String (Str "%.2e") (MakeTuple (0) (Ref __iruid_8009)))) (If (ApplyComparisonOp GT (Apply length Int32 (Ref __iruid_8046)) (I32 76)) (Apply `+` String (ApplyIR `[*:*]` String (Ref __iruid_8046) (I32 0) (I32 73)) (Str "...")) (Ref __iruid_8046)))) (`info.SOR` (Let __iruid_8047 (If (IsNA (Ref __iruid_8008)) (Str "NA") (Apply format String (Str "%.2e") (MakeTuple (0) (Ref __iruid_8008)))) (If (ApplyComparisonOp GT (Apply length Int32 (Ref __iruid_8047)) (I32 76)) (Apply `+` String (ApplyIR `[*:*]` String (Ref __iruid_8047) (I32 0) (I32 73)) (Str "...")) (Ref __iruid_8047)))) (`info.VarDP` (Let __iruid_8048 (If (IsNA (Ref __iruid_8007)) (Str "NA") (Apply str String (Ref __iruid_8007))) (If (ApplyComparisonOp GT (Apply length Int32 (Ref __iruid_8048)) (I32 76)) (Apply `+` String (ApplyIR `[*:*]` String (Ref __iruid_8048) (I32 0) (I32 73)) (Str "...")) (Ref __iruid_8048)))) (a_index (Let __iruid_8049 (If (IsNA (Ref __iruid_8006)) (Str "NA") (Apply str String (Ref __iruid_8006))) (If (ApplyComparisonOp GT (Apply length Int32 (Ref __iruid_8049)) (I32 76)) (Apply `+` String (ApplyIR `[*:*]` String (Ref __iruid_8049) (I32 0) (I32 73)) (Str "...")) (Ref __iruid_8049)))) (was_split (Let __iruid_8050 (If (IsNA (Ref __iruid_8005)) (Str "NA") (Apply str String (Ref __iruid_8005))) (If (ApplyComparisonOp GT (Apply length Int32 (Ref __iruid_8050)) (I32 76)) (Apply `+` String (ApplyIR `[*:*]` String (Ref __iruid_8050) (I32 0) (I32 73)) (Str "...")) (Ref __iruid_8050)))) (`variant_qc.AC` (Let __iruid_8051 (If (IsNA (Ref __iruid_8004)) (Str "NA") (Apply `+` String (Apply `+` String (Str "[") (Apply mkString String (ArrayMap __iruid_8052 (Ref __iruid_8004) (If (IsNA (Ref __iruid_8052)) (Str "NA") (Apply str String (Ref __iruid_8052)))) (Str ","))) (Str "]"))) (If (ApplyComparisonOp GT (Apply length Int32 (Ref __iruid_8051)) (I32 76)) (Apply `+` String (ApplyIR `[*:*]` String (Ref __iruid_8051) (I32 0) (I32 73)) (Str "...")) (Ref __iruid_8051)))) (`variant_qc.AF` (Let __iruid_8053 (If (IsNA (Ref __iruid_8003)) (Str "NA") (Apply `+` String (Apply `+` String (Str "[") (Apply mkString String (ArrayMap __iruid_8054 (Ref __iruid_8003) (If (IsNA (Ref __iruid_8054)) (Str "NA") (Apply format String (Str "%.2e") (MakeTuple (0) (Ref __iruid_8054))))) (Str ","))) (Str "]"))) (If (ApplyComparisonOp GT (Apply length Int32 (Ref __iruid_8053)) (I32 76)) (Apply `+` String (ApplyIR `[*:*]` String (Ref __iruid_8053) (I32 0) (I32 73)) (Str "...")) (Ref __iruid_8053)))) (`variant_qc.AN` (Let __iruid_8055 (If (IsNA (Ref __iruid_8002)) (Str "NA") (Apply str String (Ref __iruid_8002))) (If (ApplyComparisonOp GT (Apply length Int32 (Ref __iruid_8055)) (I32 76)) (Apply `+` String (ApplyIR `[*:*]` String (Ref __iruid_8055) (I32 0) (I32 73)) (Str "...")) (Ref __iruid_8055)))) (`variant_qc.homozygote_count` (Let __iruid_8056 (If (IsNA (Ref __iruid_8001)) (Str "NA") (Apply `+` String (Apply `+` String (Str "[") (Apply mkString String (ArrayMap __iruid_8057 (Ref __iruid_8001) (If (IsNA (Ref __iruid_8057)) (Str "NA") (Apply str String (Ref __iruid_8057)))) (Str ","))) (Str "]"))) (If (ApplyComparisonOp GT (Apply length Int32 (Ref __iruid_8056)) (I32 76)) (Apply `+` String (ApplyIR `[*:*]` String (Ref __iruid_8056) (I32 0) (I32 73)) (Str "...")) (Ref __iruid_8056)))) (`variant_qc.call_rate` (Let __iruid_8058 (If (IsNA (Ref __iruid_8000)) (Str "NA") (Apply format String (Str "%.2e") (MakeTuple (0) (Ref __iruid_8000)))) (If (ApplyComparisonOp GT (Apply length Int32 (Ref __iruid_8058)) (I32 76)) (Apply `+` String (ApplyIR `[*:*]` String (Ref __iruid_8058) (I32 0) (I32 73)) (Str "...")) (Ref __iruid_8058)))) (`variant_qc.n_called` (Let __iruid_8059 (If (IsNA (Ref __iruid_7999)) (Str "NA") (Apply str String (Ref __iruid_7999))) (If (ApplyComparisonOp GT (Apply length Int32 (Ref __iruid_8059)) (I32 76)) (Apply `+` String (ApplyIR `[*:*]` String (Ref __iruid_8059) (I32 0) (I32 73)) (Str "...")) (Ref __iruid_8059)))) (`variant_qc.n_not_called` (Let __iruid_8060 (If (IsNA (Ref __iruid_7998)) (Str "NA") (Apply str String (Ref __iruid_7998))) (If (ApplyComparisonOp GT (Apply length Int32 (Ref __iruid_8060)) (I32 76)) (Apply `+` String (ApplyIR `[*:*]` String (Ref __iruid_8060) (I32 0) (I32 73)) (Str "...")) (Ref __iruid_8060)))) (`variant_qc.n_filtered` (Let __iruid_8061 (If (IsNA (Ref __iruid_7997)) (Str "NA") (Apply str String (Ref __iruid_7997))) (If (ApplyComparisonOp GT (Apply length Int32 (Ref __iruid_8061)) (I32 76)) (Apply `+` String (ApplyIR `[*:*]` String (Ref __iruid_8061) (I32 0) (I32 73)) (Str "...")) (Ref __iruid_8061)))) (`variant_qc.n_het` (Let __iruid_8062 (If (IsNA (Ref __iruid_7996)) (Str "NA") (Apply str String (Ref __iruid_7996))) (If (ApplyComparisonOp GT (Apply length Int32 (Ref __iruid_8062)) (I32 76)) (Apply `+` String (ApplyIR `[*:*]` String (Ref __iruid_8062) (I32 0) (I32 73)) (Str "...")) (Ref __iruid_8062)))) (`variant_qc.n_non_ref` (Let __iruid_8063 (If (IsNA (Ref __iruid_7995)) (Str "NA") (Apply str String (Ref __iruid_7995))) (If (ApplyComparisonOp GT (Apply length Int32 (Ref __iruid_8063)) (I32 76)) (Apply `+` String (ApplyIR `[*:*]` String (Ref __iruid_8063) (I32 0) (I32 73)) (Str "...")) (Ref __iruid_8063)))) (`variant_qc.het_freq_hwe` (Let __iruid_8064 (If (IsNA (Ref __iruid_7994)) (Str "NA") (Apply format String (Str "%.2e") (MakeTuple (0) (Ref __iruid_7994)))) (If (ApplyComparisonOp GT (Apply length Int32 (Ref __iruid_8064)) (I32 76)) (Apply `+` String (ApplyIR `[*:*]` String (Ref __iruid_8064) (I32 0) (I32 73)) (Str "...")) (Ref __iruid_8064)))) (`variant_qc.p_value_hwe` (Let __iruid_8065 (If (IsNA (Ref __iruid_7993)) (Str "NA") (Apply format String (Str "%.2e") (MakeTuple (0) (Ref __iruid_7993)))) (If (ApplyComparisonOp GT (Apply length Int32 (Ref __iruid_8065)) (I32 76)) (Apply `+` String (ApplyIR `[*:*]` String (Ref __iruid_8065) (I32 0) (I32 73)) (Str "...")) (Ref __iruid_8065))))))))))))))))))))))))))))))))))))))))))) 2019-11-14 20:58:31 root: INFO: Prune: InsertFields: eliminating field '__cols' 2019-11-14 20:58:31 root: INFO: Prune: InsertFields: eliminating field 'the entries! [877f12a8827e18f61222c6c8c5fb04a8]' 2019-11-14 20:58:31 root: INFO: optimize (lower matrix to table, after): after: IR size 996: (GetField rows (TableCollect (TableMapRows (TableHead 11 (TableOrderBy (Alocus Aalleles) (TableMapRows (TableRead Table{global:Struct{},key:[locus,alleles],row:Struct{locus:Locus(GRCh38),alleles:Array[String],rsid:String,qual:Float64,filters:Set[String],info:Struct{AC:Array[Int32],AF:Array[Float64],AN:Int32,BaseQRankSum:Float64,DB:Boolean,DP:Int32,FS:Float64,MQ:Float64,MQRankSum:Float64,MQ_DP:Int32,QD:Float64,ReadPosRankSum:Float64,SOR:Float64,VarDP:Int32},a_index:Int32,was_split:Boolean,`the entries! [877f12a8827e18f61222c6c8c5fb04a8]`:Array[Struct{GT:Call}]}} False "{\"name\":\"TableNativeZippedReader\",\"pathLeft\":\"gs://broad-ukbb/broad.freeze_4/hardcalls/hardcalls.split.mt/rows\",\"pathRight\":\"gs://broad-ukbb/broad.freeze_4/hardcalls/hardcalls.split.mt/entries\",\"options\":{\"name\":\"NativeReaderOptions\",\"intervals\":[{\"start\":{\"locus\":{\"contig\":\"chr20\",\"position\":1}},\"end\":{\"locus\":{\"contig\":\"chr20\",\"position\":64444167}},\"includeStart\":true,\"includeEnd\":true}],\"intervalPointType\":\"Struct{locus:Locus(GRCh38),alleles:Array[String]}\",\"filterIntervals\":true},\"_specLeft\":{\"name\":\"TableSpec\",\"file_version\":65792,\"hail_version\":\"0.2.19-c6ec8b76eb26\",\"references_rel_path\":\"../references\",\"table_type\":\"Table{global:Struct{},key:[locus,alleles],row:Struct{locus:Locus(GRCh38),alleles:Array[String],rsid:String,qual:Float64,filters:Set[String],info:Struct{AC:Array[Int32],AF:Array[Float64],AN:Int32,BaseQRankSum:Float64,DB:Boolean,DP:Int32,FS:Float64,MQ:Float64,MQRankSum:Float64,MQ_DP:Int32,QD:Float64,ReadPosRankSum:Float64,SOR:Float64,VarDP:Int32},a_index:Int32,was_split:Boolean}}\",\"components\":{\"globals\":{\"name\":\"RVDComponentSpec\",\"rel_path\":\"../globals/rows\"},\"rows\":{\"name\":\"RVDComponentSpec\",\"rel_path\":\"rows\"},\"partition_counts\":{\"name\":\"PartitionCountsComponentSpec\",\"counts\":[1479,1293,1359,1348,1245,1316,1080,1089,1327,1330,1316,1414,1426,1298,1432,2533,1267,1338,1125,1440,1407,1311,1269,1313,1348,1243,1471,1493,1632,1387,1637,1393,1341,1398,1350,1405,1453,1444,1497,1549,1351,1500,1447,1363,1216,1233,1360,1371,1269,1476,1433,1506,1493,1367,1704,1392,1482,1397,1542,1435,1333,1350,1362,1690,1548,1442,1417,1507,1471,1377,1312,1361,1173,1561,1605,1424,1627,1450,1494,1403,1563,1544,1484,1436,1313,1401,1192,1332,1474,1582,1453,1440,1314,1491,1442,1311,1170,1486,1579,1536,1336,1391,1308,1275,1402,1347,1453,1288,1452,1548,1452,1283,1222,1319,1239,1385,1384,1320,1517,1267,1401,1340,1237,1366,1358,1521,1510,1527,1606,1418,1310,1421,1616,1405,1458,1458,1406,1451,1416,1453,1604,1148,1417,1362,1543,1659,1441,1510,1395,1432,1367,1295,1330,1377,1423,1355,1227,1357,1611,1414,1448,1416,1590,1357,1431,1413,1515,1514,1554,1538,1490,1525,1342,1453,1418,1465,1397,1149,1423,1423,1357,1522,1441,1328,1386,1315,1388,1254,1546,1514,1503,1536,1663,1534,1505,1359,1441,1563,1507,1424,1542,1329,1341,1453,1669,1486,1460,1534,1515,1353,1337,1456,1283,1332,1386,1470,1533,1577,1402,1458,1505,1056,1429,1573,1458,1598,1505,1487,1396,1321,1319,1118,1502,1586,1496,1613,1417,1701,1543,1490,1422,1430,1071,1456,1534,1582,1468,1454,1398,1543,1387,1473,1495,1528,1472,1409,1242,1683,1537,1496,1359,1536,1402,1371,1430,1409,1297,1236,1395,1343,1310,1498,1436,1391,1483,1545,1444,1318,1375,1336,1157,1447,1309,1425,1573,1425,1323,1467,1257,1538,1416,1366,1291,1476,1351,1464,1718,1592,1444,1860,1446,1600,1703,1535,1602,1476,1703,1452,1547,1424,1594,1593,1483,1615,1281,1492,1676,1348,1446,1510,1489,1569,1843,1586,1736,1768,1675,1490,1316,1367,1566,1569,1623,1475,1601,1551,1418,1364,1320,1618,1478,1631,1691,1817,1484,1574,1678,1481,1499,1118,1619,1440,1449,1585,1555,1603,1557,1593,1349,1702,1792,1665,1522,1666,1582,1666,1507,1543,1210,1416,1644,1527,1739,1560,1624,1753,1590,1461,1367,1422,1487,1670,1822,1449,1534,1884,1770,1713,1423,1707,1573,1448,1510,1465,1640,1512,1499,1276,1615,1600,1662,1885,1625,1558,1615,1596,1705,1535,1616,1629,1795,1559,1446,1655,1542,1374,1402,1304,1357,1571,1450,1547,1506,1607,1492,1368,1383,1527,1310,1493,1541,1639,1315,1430,1571,1291,1570,1448,1504,1544,1672,1515,1497,1527,1622,1495,1692,1484,1653,1429,1565,1473,1482,1416,1814,1574,1545,1575,1355,1495,1500,1949,1931,1654,1785,1637,1443,1539,1668,1810,1558,1424,1618,1879,2195,1880,1808,1476,1491,1543,1519,1468,1313,1295,1807,1512,1442,1407,1432,1439,1582,1423,1575,1329,1576,1700,1569,1394,1466,1289,1348,1526,1460,1443,1255,1239,1246,1023,1370,1334,1363,1247,1537,1500,1528,1584,1517,1417,1534,1660,1551,1448,1355,1442,1373,1513,1510,1572,1412,1362,1449,1349,1229,1444,1518,1471,1263,1532,1564,1569,1706,1501,1345,1469,1442,1287,1393,1473,1445,1462,1475,1295,1431,1414,1401,1474,1294,1388,1435,1445,1439,1480,1424,1475,1332,1456,1331,1423,1544,1486,1430,1317,1389,1429,1388,1342,1421,1534,1462,1562,1510,1445,1319,1415,1365,1407,1226,1456,1430,1451,1466,1391,1514,1702,1478,1200,1474,1575,1380,1523,1500,1622,1515,1506,1531,1312,1457,1569,1662,1504,1547,1698,1281,1513,1375,1213,1644,1627,1613,1722,1561,1440,1480,1238,1641,1492,1343,1430,1494,1511,1429,1573,1475,1439,1555,1590,1457,1485,1584,1523,1616,1517,1488,1583,1478,1513,1604,1469,1342,1544,1548,1416,1682,1690,1535,1482,1232,1509,1731,1823,1557,1397,1742,1879,1520,1494,1616,1253,1518,1299,1487,1689,1507,1628,1599,1387,1455,1491,1434,1207,961,1427,1398,1335,1509,1551,1381,1376,1457,1361,1525,1538,1427,1365,1461,1462,1437,1549,1528,1635,1587,1657,1489,1536,1439,1386,1391,1410,1315,1270,1404,1510,1503,1602,1528,1454,1455,1459,1599,1500,1506,1431,1494,1423,1434,1473,1360,1482,1511,1230,1738,1506,1263,1282,1516,1579,1499,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2,1182,975,1195,928,1155,978,1020,1345,1299,1169,1164,1233,1126,1147,1065,1228,1162,1105,1075,1110,1144,1007,1093,1112,1116,1138,1193,1044,1104,1193,1071,1166,1223,1097,1276,1048,1190,1108,1143,1163,1008,1142,1064,1103,1164,1137,1090,1135,1105,1061,1084,1311,1019,1130,1367,1209,1202,1344,1185,1165,1291,1109,1132,1117,1194,1210,1191,1140,1154,1087,1016,1069,1536,1422,1097,899,1094,1072,1175,1149,1202,1170,1087,1324,1239,1683,1393,1072,1223,1319,1464,1617,1643,1378,1225,1288,1223,1294,1116,1408,1150,1371,1340,1230,1214,1140,1184,1231,1648,1251,1212,1285,1307,1280,1095,1250,1446,1252,1284,1135,1263,1183,1105,1296,1162,1278,1096,1550,1357,1274,1233,1276,1169,1147,1062,1339,1245,1229,1270,1171,1259,1212,1202,1154,1197,1079,1220,1318,1260,1167,1237,1234,1303,1095,1181,1321,1279,1165,1087,1077,1131,1217,1190,1223,1143,1196,1273,1416,1283,1203,1071,1173,1322,1079,1217,1245,1246,1254,1235,1145,1194,1051,1198,1275,1192,1179,1167,1217,1301,1194,1082,1202,1290,1303,1195,1346,1223,1110,1240,1241,1318,1161,1211,1165,1137,1250,1133,1188,1169,1194,1196,1083,1257,1174,1181,1086,1253,1232,1224,1088,1178,1207,1244,1273,1156,1062,1201,1344,1260,1192,1249,1307,1278,1210,1145,1083,1216,1270,1354,1263,1097,1139,1316,1323,1223,1188,1234,1167,1192,1168,1218,1182,1197,1107,1275,1231,1235,1247,1378,1531,1112,1226,1182,1228,1138,1088,1211,922,1041,1129,1050,1089,1133,1165,1305,1182,1348,1149,1156,1086,1070,1186,1174,1043,1168,1132,1212,1216,1189,1039,1085,937,1148,1245,1200,1066,1155,1120,994,974,1190,1039,1116,1092,1135,1079,1122,1023,1224,1426,1190,1300,944,1404,1274,1321,1436,1277,1189,1305,1328,1305,1247,1524,1247,1177,1213,1060,1369,1217,1161,1256,1238,1278,1074,1311,1335,1345,1003,1222,1371,1192,1112,977,1115,1089,1229,1273,1010,1217,1247,1257,1375,1223,1257,1192,1183,1136,1209,835,1000,1168,1260,1299,1238,1204,1216,1219,1195,1059,1237,1246,1149,1168,1109,1189,1251,1202,1381,1167,1786,1253,1276,1216,1117,1936,1083,1234,1221,1121,1051,1108,1199,1102,1052,1171,1155,1061,902,1131,984,1237,1331,1273,1293,1074,1067,1002,1109,1249,1221,1265,1019,1250,1147,1203,1037,1251,1275,1115,1183,1174,1254,1028,1223,1231,1270,1140,987,1144,1299,1374,1410,1056,1186,1228,1317,1128,1198,1208,1142,1183,1200,1119,1086,1212,1225,1076,1067,1045,869,909,1088,1135,1166,1311,1336,1346,1079,1136,1164,1562,1317,1124,1178,1174,1192,1283,1279,1138,1233,1198,1121,1146,1152,1342,1144,1192,1271,1213,1183,1284,1248,1206,1118,1179,1408,1074,1224,1075,1267,1143,1218,1426,1218,1317,1245,1207,1112,1145,1221,1208,1180,1146,1256,1204,1265,1439,1273,1157,1162,1174,1210,1141,1087,1179,1670,1202,1187,1198,1209,1274,1247,1308,1103,1259,1194,1302,1227,1402,1362,1286,1201,1246,1233,1146,1099,1154,1209,940,1244,1149,1174,1133,1165,1161,1209,1249,1141,1460,1156,1211,982,1096,1172,1225,1179,1223,1233,1295,1204,1180,1206,1355,1337,1307,1235,994,1029,1073,1259,1113,1105,1152,1332,1256,1352,1190,1244,1078,1162,1266,1273,1269,1143,1180,1174,1064,1268,1309,1245,1263,1188,1053,1054,1069,1082,1154,1337,1212,1211,1246,1135,1144,1433,1167,1246,1127,1253,1359,1125,1140,1117,1240,1279,1273,1157,1162,1147,1079,1070,1281,1187,1179,1201,1336,998,1263,1145,1132,1206,1150,1117,1126,1241,1204,1171,979,1019,1130,1232,1079,1076,1031,1125,1088,1253,1188,1004,1028,941,1186,879,1052,1133,1044,1029,1428,994,1045,1001,1212,1173,1210,1314,1508,1372,1279,1126,1106,1390,1238,1403,1482,1451,1441,1244,1252,1501,1349,1574,1733,1325,1167,1426,1592,1476,1683,1651,1616,1427,1665,1432,1539,1372,1500,1568,1364,1418,1435,1713,1387,1450,1577,1763,1683,1860,1821,1571,1588,1665,1479,1762,1733,1605,1319,1490,1698,1632,1344,1519,1516,1654,1583,1719,1774,1480,1157,1367,1637,1798,1496,1403,1452,1481,1203,1572,1904,1393,1223,1269,1526,1159,1583,1468,1376,1376,1424,1577,1458,1753,1641,1584,1408,1627,1456,1358,1581,1657,1248,1293,1255,1211,1446,1218,1441,1356,1232,1383,1350,1307,1418,1567,1462,1345,1451,1410,1482,1190,1326,1449,1532,1625,1406,1419,1206,1345,1298,1450,1193,1600,1511,1455,1621,1694,1661,1568,1420,1478,1729,1534,1498,1569,1259,1271,1556,1315,1292,1267,1458,1394,1456,1387,1393,1318,1541,1151,1334,1358,1560,1519,1381,1559,1529,1419,1407,1258,1356,1190,1423,1416,1206,1454,1223,1615,1662,1688,1503,1388,1412,1402,1426,1391,1690,1384,1426,1526,1559,1542,1734,1640,1510,1597,1453,1457,1240,1443,1575,1461,1333,1482,1449,1550,1400,1631,1445,902,1310,1336,1097,1343,1204,1350,1364,1398,1723,1756,1520,1603,1484,1463,1496,1061,1462,1444,1570,1650,1633,1299,1754,1704,1474,1370,1813,1797,1445,1519,1192,1618,1873,1405,1076,1749,1625,1509,1453,1561,1612,1857,1360,1311,1483,1313,1508,1566,1408,1340,1672,1455,1301,1685,1633,1682,1632,1535,1269,1589,1711,1662,1396,1248,1381,1501,1840,1574,1358,1427,1649,1049,1500,1629,1412,1430,1833,1627,1537,1620,1581,1080,1617,1636,1550,1281,1327,1701,1647,1645,1330,1235,860,1087,1437,1525,1552,1527,1267,1352,1689,1421,1298,1236,1266,1548,1418,1400,1366,1476,1555,1176,1219,1150,1210,1148,1062,1273,1288,1290,1270,846,1253,1398,1374,1291,1304,1062,1237,1256,1547,1354,1168,1203,1418,1270,1533,1555,1397,1588,1938,2242,2513,1971]}}}}") (ArrayAgg __iruid_10626 (ArrayFilter __iruid_10627 (ArrayRange (I32 0) (ArrayLen (GetField `the entries! [877f12a8827e18f61222c6c8c5fb04a8]` (Ref row))) (I32 1)) (ApplyUnaryPrimOp Bang (IsNA (ArrayRef (GetField `the entries! [877f12a8827e18f61222c6c8c5fb04a8]` (Ref row)) (Ref __iruid_10627))))) (AggLet __iruid_10628 False (GetField GT (ArrayRef (GetField `the entries! [877f12a8827e18f61222c6c8c5fb04a8]` (Ref row)) (Ref __iruid_10626))) (InsertFields (SelectFields (locus alleles rsid qual filters info a_index was_split) (Ref row)) None (variant_qc (Let __iruid_10629 (MakeStruct (n_called (ApplyAggOp Sum () None ( (Apply toInt64 Int64 (ApplyUnaryPrimOp Bang (IsNA (Ref __iruid_10628))))))) (n_not_called (ApplyAggOp Sum () None ( (Apply toInt64 Int64 (IsNA (Ref __iruid_10628)))))) (n_filtered (ApplyBinaryPrimOp Subtract (I64 100221) (ApplyAggOp Count () None ()))) (call_stats (ApplyAggOp CallStats () ( (ArrayLen (GetField alleles (Ref row)))) ( (Ref __iruid_10628))))) (Let __iruid_10630 (GetField call_stats (Ref __iruid_10629)) (Let __iruid_10631 (GetField homozygote_count (Ref __iruid_10630)) (Let __iruid_10632 (GetField n_called (Ref __iruid_10629)) (Let __iruid_10633 (GetField n_not_called (Ref __iruid_10629)) (Let __iruid_10634 (GetField n_filtered (Ref __iruid_10629)) (Let __iruid_10635 (If (ApplyComparisonOp EQ (ArrayLen (GetField alleles (Ref row))) (I32 2)) (Let __iruid_10636 (GetField call_stats (Ref __iruid_10629)) (Let __iruid_10637 (GetField homozygote_count (Ref __iruid_10636)) (Apply hardy_weinberg_test Struct{het_freq_hwe:Float64,p_value:Float64} (ArrayRef (Ref __iruid_10637) (I32 0)) (ApplyBinaryPrimOp Subtract (ArrayRef (GetField AC (Ref __iruid_10636)) (I32 1)) (ApplyBinaryPrimOp Multiply (I32 2) (ArrayRef (Ref __iruid_10637) (I32 1)))) (ArrayRef (Ref __iruid_10637) (I32 1))))) (NA Struct{het_freq_hwe:Float64,p_value:Float64})) (MakeStruct (AC (GetField AC (Ref __iruid_10630))) (AF (GetField AF (Ref __iruid_10630))) (AN (GetField AN (Ref __iruid_10630))) (homozygote_count (Ref __iruid_10631)) (call_rate (ApplyBinaryPrimOp FloatingPointDivide (Cast Float64 (Ref __iruid_10632)) (Cast Float64 (ApplyBinaryPrimOp Add (ApplyBinaryPrimOp Add (Ref __iruid_10632) (Ref __iruid_10633)) (Ref __iruid_10634))))) (n_called (Ref __iruid_10632)) (n_not_called (Ref __iruid_10633)) (n_filtered (Ref __iruid_10634)) (n_het (ApplyBinaryPrimOp Subtract (Ref __iruid_10632) (Cast Int64 (ArrayFold __iruid_10638 __iruid_10639 (ArrayFilter __iruid_10640 (Ref __iruid_10631) (ApplyUnaryPrimOp Bang (IsNA (Ref __iruid_10640)))) (I32 0) (ApplyBinaryPrimOp Add (Ref __iruid_10638) (Ref __iruid_10639)))))) (n_non_ref (ApplyBinaryPrimOp Subtract (Ref __iruid_10632) (Cast Int64 (ArrayRef (Ref __iruid_10631) (I32 0))))) (het_freq_hwe (GetField het_freq_hwe (Ref __iruid_10635))) (p_value_hwe (GetField p_value (Ref __iruid_10635)))))))))))))))))) (Let __iruid_10641 (GetField variant_qc (Ref row)) (Let __iruid_10642 (GetField info (Ref row)) (Let __iruid_10643 (GetField p_value_hwe (Ref __iruid_10641)) (Let __iruid_10644 (GetField het_freq_hwe (Ref __iruid_10641)) (Let __iruid_10645 (GetField n_non_ref (Ref __iruid_10641)) (Let __iruid_10646 (GetField n_het (Ref __iruid_10641)) (Let __iruid_10647 (GetField n_filtered (Ref __iruid_10641)) (Let __iruid_10648 (GetField n_not_called (Ref __iruid_10641)) (Let __iruid_10649 (GetField n_called (Ref __iruid_10641)) (Let __iruid_10650 (GetField call_rate (Ref __iruid_10641)) (Let __iruid_10651 (GetField homozygote_count (Ref __iruid_10641)) (Let __iruid_10652 (GetField AN (Ref __iruid_10641)) (Let __iruid_10653 (GetField AF (Ref __iruid_10641)) (Let __iruid_10654 (GetField AC (Ref __iruid_10641)) (Let __iruid_10655 (GetField was_split (Ref row)) (Let __iruid_10656 (GetField a_index (Ref row)) (Let __iruid_10657 (GetField VarDP (Ref __iruid_10642)) (Let __iruid_10658 (GetField SOR (Ref __iruid_10642)) (Let __iruid_10659 (GetField ReadPosRankSum (Ref __iruid_10642)) (Let __iruid_10660 (GetField QD (Ref __iruid_10642)) (Let __iruid_10661 (GetField MQ_DP (Ref __iruid_10642)) (Let __iruid_10662 (GetField MQRankSum (Ref __iruid_10642)) (Let __iruid_10663 (GetField MQ (Ref __iruid_10642)) (Let __iruid_10664 (GetField FS (Ref __iruid_10642)) (Let __iruid_10665 (GetField DP (Ref __iruid_10642)) (Let __iruid_10666 (GetField DB (Ref __iruid_10642)) (Let __iruid_10667 (GetField BaseQRankSum (Ref __iruid_10642)) (Let __iruid_10668 (GetField AN (Ref __iruid_10642)) (Let __iruid_10669 (GetField AF (Ref __iruid_10642)) (Let __iruid_10670 (GetField AC (Ref __iruid_10642)) (Let __iruid_10671 (GetField filters (Ref row)) (Let __iruid_10672 (GetField qual (Ref row)) (Let __iruid_10673 (GetField rsid (Ref row)) (Let __iruid_10674 (GetField alleles (Ref row)) (Let __iruid_10675 (GetField locus (Ref row)) (InsertFields (SelectFields () (Ref row)) None (locus (Let __iruid_10676 (If (IsNA (Ref __iruid_10675)) (Str "NA") (Apply str String (Ref __iruid_10675))) (If (ApplyComparisonOp GT (Apply length Int32 (Ref __iruid_10676)) (I32 76)) (Apply `+` String (ApplyIR `[*:*]` String (Ref __iruid_10676) (I32 0) (I32 73)) (Str "...")) (Ref __iruid_10676)))) (alleles (Let __iruid_10677 (If (IsNA (Ref __iruid_10674)) (Str "NA") (Apply `+` String (Apply `+` String (Str "[") (Apply mkString String (ArrayMap __iruid_10678 (Ref __iruid_10674) (If (IsNA (Ref __iruid_10678)) (Str "NA") (Apply `+` String (Apply `+` String (Str "\"") (Apply escapeString String (Ref __iruid_10678))) (Str "\"")))) (Str ","))) (Str "]"))) (If (ApplyComparisonOp GT (Apply length Int32 (Ref __iruid_10677)) (I32 76)) (Apply `+` String (ApplyIR `[*:*]` String (Ref __iruid_10677) (I32 0) (I32 73)) (Str "...")) (Ref __iruid_10677)))) (rsid (Let __iruid_10679 (If (IsNA (Ref __iruid_10673)) (Str "NA") (Apply `+` String (Apply `+` String (Str "\"") (Apply escapeString String (Ref __iruid_10673))) (Str "\""))) (If (ApplyComparisonOp GT (Apply length Int32 (Ref __iruid_10679)) (I32 76)) (Apply `+` String (ApplyIR `[*:*]` String (Ref __iruid_10679) (I32 0) (I32 73)) (Str "...")) (Ref __iruid_10679)))) (qual (Let __iruid_10680 (If (IsNA (Ref __iruid_10672)) (Str "NA") (Apply format String (Str "%.2e") (MakeTuple (0) (Ref __iruid_10672)))) (If (ApplyComparisonOp GT (Apply length Int32 (Ref __iruid_10680)) (I32 76)) (Apply `+` String (ApplyIR `[*:*]` String (Ref __iruid_10680) (I32 0) (I32 73)) (Str "...")) (Ref __iruid_10680)))) (filters (Let __iruid_10681 (If (IsNA (Ref __iruid_10671)) (Str "NA") (Apply `+` String (Apply `+` String (Str "{") (Apply mkString String (ArrayMap __iruid_10682 (ToArray (Ref __iruid_10671)) (If (IsNA (Ref __iruid_10682)) (Str "NA") (Apply `+` String (Apply `+` String (Str "\"") (Apply escapeString String (Ref __iruid_10682))) (Str "\"")))) (Str ","))) (Str "}"))) (If (ApplyComparisonOp GT (Apply length Int32 (Ref __iruid_10681)) (I32 76)) (Apply `+` String (ApplyIR `[*:*]` String (Ref __iruid_10681) (I32 0) (I32 73)) (Str "...")) (Ref __iruid_10681)))) (`info.AC` (Let __iruid_10683 (If (IsNA (Ref __iruid_10670)) (Str "NA") (Apply `+` String (Apply `+` String (Str "[") (Apply mkString String (ArrayMap __iruid_10684 (Ref __iruid_10670) (If (IsNA (Ref __iruid_10684)) (Str "NA") (Apply str String (Ref __iruid_10684)))) (Str ","))) (Str "]"))) (If (ApplyComparisonOp GT (Apply length Int32 (Ref __iruid_10683)) (I32 76)) (Apply `+` String (ApplyIR `[*:*]` String (Ref __iruid_10683) (I32 0) (I32 73)) (Str "...")) (Ref __iruid_10683)))) (`info.AF` (Let __iruid_10685 (If (IsNA (Ref __iruid_10669)) (Str "NA") (Apply `+` String (Apply `+` String (Str "[") (Apply mkString String (ArrayMap __iruid_10686 (Ref __iruid_10669) (If (IsNA (Ref __iruid_10686)) (Str "NA") (Apply format String (Str "%.2e") (MakeTuple (0) (Ref __iruid_10686))))) (Str ","))) (Str "]"))) (If (ApplyComparisonOp GT (Apply length Int32 (Ref __iruid_10685)) (I32 76)) (Apply `+` String (ApplyIR `[*:*]` String (Ref __iruid_10685) (I32 0) (I32 73)) (Str "...")) (Ref __iruid_10685)))) (`info.AN` (Let __iruid_10687 (If (IsNA (Ref __iruid_10668)) (Str "NA") (Apply str String (Ref __iruid_10668))) (If (ApplyComparisonOp GT (Apply length Int32 (Ref __iruid_10687)) (I32 76)) (Apply `+` String (ApplyIR `[*:*]` String (Ref __iruid_10687) (I32 0) (I32 73)) (Str "...")) (Ref __iruid_10687)))) (`info.BaseQRankSum` (Let __iruid_10688 (If (IsNA (Ref __iruid_10667)) (Str "NA") (Apply format String (Str "%.2e") (MakeTuple (0) (Ref __iruid_10667)))) (If (ApplyComparisonOp GT (Apply length Int32 (Ref __iruid_10688)) (I32 76)) (Apply `+` String (ApplyIR `[*:*]` String (Ref __iruid_10688) (I32 0) (I32 73)) (Str "...")) (Ref __iruid_10688)))) (`info.DB` (Let __iruid_10689 (If (IsNA (Ref __iruid_10666)) (Str "NA") (Apply str String (Ref __iruid_10666))) (If (ApplyComparisonOp GT (Apply length Int32 (Ref __iruid_10689)) (I32 76)) (Apply `+` String (ApplyIR `[*:*]` String (Ref __iruid_10689) (I32 0) (I32 73)) (Str "...")) (Ref __iruid_10689)))) (`info.DP` (Let __iruid_10690 (If (IsNA (Ref __iruid_10665)) (Str "NA") (Apply str String (Ref __iruid_10665))) (If (ApplyComparisonOp GT (Apply length Int32 (Ref __iruid_10690)) (I32 76)) (Apply `+` String (ApplyIR `[*:*]` String (Ref __iruid_10690) (I32 0) (I32 73)) (Str "...")) (Ref __iruid_10690)))) (`info.FS` (Let __iruid_10691 (If (IsNA (Ref __iruid_10664)) (Str "NA") (Apply format String (Str "%.2e") (MakeTuple (0) (Ref __iruid_10664)))) (If (ApplyComparisonOp GT (Apply length Int32 (Ref __iruid_10691)) (I32 76)) (Apply `+` String (ApplyIR `[*:*]` String (Ref __iruid_10691) (I32 0) (I32 73)) (Str "...")) (Ref __iruid_10691)))) (`info.MQ` (Let __iruid_10692 (If (IsNA (Ref __iruid_10663)) (Str "NA") (Apply format String (Str "%.2e") (MakeTuple (0) (Ref __iruid_10663)))) (If (ApplyComparisonOp GT (Apply length Int32 (Ref __iruid_10692)) (I32 76)) (Apply `+` String (ApplyIR `[*:*]` String (Ref __iruid_10692) (I32 0) (I32 73)) (Str "...")) (Ref __iruid_10692)))) (`info.MQRankSum` (Let __iruid_10693 (If (IsNA (Ref __iruid_10662)) (Str "NA") (Apply format String (Str "%.2e") (MakeTuple (0) (Ref __iruid_10662)))) (If (ApplyComparisonOp GT (Apply length Int32 (Ref __iruid_10693)) (I32 76)) (Apply `+` String (ApplyIR `[*:*]` String (Ref __iruid_10693) (I32 0) (I32 73)) (Str "...")) (Ref __iruid_10693)))) (`info.MQ_DP` (Let __iruid_10694 (If (IsNA (Ref __iruid_10661)) (Str "NA") (Apply str String (Ref __iruid_10661))) (If (ApplyComparisonOp GT (Apply length Int32 (Ref __iruid_10694)) (I32 76)) (Apply `+` String (ApplyIR `[*:*]` String (Ref __iruid_10694) (I32 0) (I32 73)) (Str "...")) (Ref __iruid_10694)))) (`info.QD` (Let __iruid_10695 (If (IsNA (Ref __iruid_10660)) (Str "NA") (Apply format String (Str "%.2e") (MakeTuple (0) (Ref __iruid_10660)))) (If (ApplyComparisonOp GT (Apply length Int32 (Ref __iruid_10695)) (I32 76)) (Apply `+` String (ApplyIR `[*:*]` String (Ref __iruid_10695) (I32 0) (I32 73)) (Str "...")) (Ref __iruid_10695)))) (`info.ReadPosRankSum` (Let __iruid_10696 (If (IsNA (Ref __iruid_10659)) (Str "NA") (Apply format String (Str "%.2e") (MakeTuple (0) (Ref __iruid_10659)))) (If (ApplyComparisonOp GT (Apply length Int32 (Ref __iruid_10696)) (I32 76)) (Apply `+` String (ApplyIR `[*:*]` String (Ref __iruid_10696) (I32 0) (I32 73)) (Str "...")) (Ref __iruid_10696)))) (`info.SOR` (Let __iruid_10697 (If (IsNA (Ref __iruid_10658)) (Str "NA") (Apply format String (Str "%.2e") (MakeTuple (0) (Ref __iruid_10658)))) (If (ApplyComparisonOp GT (Apply length Int32 (Ref __iruid_10697)) (I32 76)) (Apply `+` String (ApplyIR `[*:*]` String (Ref __iruid_10697) (I32 0) (I32 73)) (Str "...")) (Ref __iruid_10697)))) (`info.VarDP` (Let __iruid_10698 (If (IsNA (Ref __iruid_10657)) (Str "NA") (Apply str String (Ref __iruid_10657))) (If (ApplyComparisonOp GT (Apply length Int32 (Ref __iruid_10698)) (I32 76)) (Apply `+` String (ApplyIR `[*:*]` String (Ref __iruid_10698) (I32 0) (I32 73)) (Str "...")) (Ref __iruid_10698)))) (a_index (Let __iruid_10699 (If (IsNA (Ref __iruid_10656)) (Str "NA") (Apply str String (Ref __iruid_10656))) (If (ApplyComparisonOp GT (Apply length Int32 (Ref __iruid_10699)) (I32 76)) (Apply `+` String (ApplyIR `[*:*]` String (Ref __iruid_10699) (I32 0) (I32 73)) (Str "...")) (Ref __iruid_10699)))) (was_split (Let __iruid_10700 (If (IsNA (Ref __iruid_10655)) (Str "NA") (Apply str String (Ref __iruid_10655))) (If (ApplyComparisonOp GT (Apply length Int32 (Ref __iruid_10700)) (I32 76)) (Apply `+` String (ApplyIR `[*:*]` String (Ref __iruid_10700) (I32 0) (I32 73)) (Str "...")) (Ref __iruid_10700)))) (`variant_qc.AC` (Let __iruid_10701 (If (IsNA (Ref __iruid_10654)) (Str "NA") (Apply `+` String (Apply `+` String (Str "[") (Apply mkString String (ArrayMap __iruid_10702 (Ref __iruid_10654) (If (IsNA (Ref __iruid_10702)) (Str "NA") (Apply str String (Ref __iruid_10702)))) (Str ","))) (Str "]"))) (If (ApplyComparisonOp GT (Apply length Int32 (Ref __iruid_10701)) (I32 76)) (Apply `+` String (ApplyIR `[*:*]` String (Ref __iruid_10701) (I32 0) (I32 73)) (Str "...")) (Ref __iruid_10701)))) (`variant_qc.AF` (Let __iruid_10703 (If (IsNA (Ref __iruid_10653)) (Str "NA") (Apply `+` String (Apply `+` String (Str "[") (Apply mkString String (ArrayMap __iruid_10704 (Ref __iruid_10653) (If (IsNA (Ref __iruid_10704)) (Str "NA") (Apply format String (Str "%.2e") (MakeTuple (0) (Ref __iruid_10704))))) (Str ","))) (Str "]"))) (If (ApplyComparisonOp GT (Apply length Int32 (Ref __iruid_10703)) (I32 76)) (Apply `+` String (ApplyIR `[*:*]` String (Ref __iruid_10703) (I32 0) (I32 73)) (Str "...")) (Ref __iruid_10703)))) (`variant_qc.AN` (Let __iruid_10705 (If (IsNA (Ref __iruid_10652)) (Str "NA") (Apply str String (Ref __iruid_10652))) (If (ApplyComparisonOp GT (Apply length Int32 (Ref __iruid_10705)) (I32 76)) (Apply `+` String (ApplyIR `[*:*]` String (Ref __iruid_10705) (I32 0) (I32 73)) (Str "...")) (Ref __iruid_10705)))) (`variant_qc.homozygote_count` (Let __iruid_10706 (If (IsNA (Ref __iruid_10651)) (Str "NA") (Apply `+` String (Apply `+` String (Str "[") (Apply mkString String (ArrayMap __iruid_10707 (Ref __iruid_10651) (If (IsNA (Ref __iruid_10707)) (Str "NA") (Apply str String (Ref __iruid_10707)))) (Str ","))) (Str "]"))) (If (ApplyComparisonOp GT (Apply length Int32 (Ref __iruid_10706)) (I32 76)) (Apply `+` String (ApplyIR `[*:*]` String (Ref __iruid_10706) (I32 0) (I32 73)) (Str "...")) (Ref __iruid_10706)))) (`variant_qc.call_rate` (Let __iruid_10708 (If (IsNA (Ref __iruid_10650)) (Str "NA") (Apply format String (Str "%.2e") (MakeTuple (0) (Ref __iruid_10650)))) (If (ApplyComparisonOp GT (Apply length Int32 (Ref __iruid_10708)) (I32 76)) (Apply `+` String (ApplyIR `[*:*]` String (Ref __iruid_10708) (I32 0) (I32 73)) (Str "...")) (Ref __iruid_10708)))) (`variant_qc.n_called` (Let __iruid_10709 (If (IsNA (Ref __iruid_10649)) (Str "NA") (Apply str String (Ref __iruid_10649))) (If (ApplyComparisonOp GT (Apply length Int32 (Ref __iruid_10709)) (I32 76)) (Apply `+` String (ApplyIR `[*:*]` String (Ref __iruid_10709) (I32 0) (I32 73)) (Str "...")) (Ref __iruid_10709)))) (`variant_qc.n_not_called` (Let __iruid_10710 (If (IsNA (Ref __iruid_10648)) (Str "NA") (Apply str String (Ref __iruid_10648))) (If (ApplyComparisonOp GT (Apply length Int32 (Ref __iruid_10710)) (I32 76)) (Apply `+` String (ApplyIR `[*:*]` String (Ref __iruid_10710) (I32 0) (I32 73)) (Str "...")) (Ref __iruid_10710)))) (`variant_qc.n_filtered` (Let __iruid_10711 (If (IsNA (Ref __iruid_10647)) (Str "NA") (Apply str String (Ref __iruid_10647))) (If (ApplyComparisonOp GT (Apply length Int32 (Ref __iruid_10711)) (I32 76)) (Apply `+` String (ApplyIR `[*:*]` String (Ref __iruid_10711) (I32 0) (I32 73)) (Str "...")) (Ref __iruid_10711)))) (`variant_qc.n_het` (Let __iruid_10712 (If (IsNA (Ref __iruid_10646)) (Str "NA") (Apply str String (Ref __iruid_10646))) (If (ApplyComparisonOp GT (Apply length Int32 (Ref __iruid_10712)) (I32 76)) (Apply `+` String (ApplyIR `[*:*]` String (Ref __iruid_10712) (I32 0) (I32 73)) (Str "...")) (Ref __iruid_10712)))) (`variant_qc.n_non_ref` (Let __iruid_10713 (If (IsNA (Ref __iruid_10645)) (Str "NA") (Apply str String (Ref __iruid_10645))) (If (ApplyComparisonOp GT (Apply length Int32 (Ref __iruid_10713)) (I32 76)) (Apply `+` String (ApplyIR `[*:*]` String (Ref __iruid_10713) (I32 0) (I32 73)) (Str "...")) (Ref __iruid_10713)))) (`variant_qc.het_freq_hwe` (Let __iruid_10714 (If (IsNA (Ref __iruid_10644)) (Str "NA") (Apply format String (Str "%.2e") (MakeTuple (0) (Ref __iruid_10644)))) (If (ApplyComparisonOp GT (Apply length Int32 (Ref __iruid_10714)) (I32 76)) (Apply `+` String (ApplyIR `[*:*]` String (Ref __iruid_10714) (I32 0) (I32 73)) (Str "...")) (Ref __iruid_10714)))) (`variant_qc.p_value_hwe` (Let __iruid_10715 (If (IsNA (Ref __iruid_10643)) (Str "NA") (Apply format String (Str "%.2e") (MakeTuple (0) (Ref __iruid_10643)))) (If (ApplyComparisonOp GT (Apply length Int32 (Ref __iruid_10715)) (I32 76)) (Apply `+` String (ApplyIR `[*:*]` String (Ref __iruid_10715) (I32 0) (I32 73)) (Str "...")) (Ref __iruid_10715))))))))))))))))))))))))))))))))))))))))))) 2019-11-14 20:58:31 root: INFO: interpreting non compilable node: TableCollect(TableMapRows(TableHead(TableOrderBy(TableMapRows(TableRead(Table{global:Struct{},key:[locus,alleles],row:Struct{locus:Locus(GRCh38),alleles:Array[String],rsid:String,qual:Float64,filters:Set[String],info:Struct{AC:Array[Int32],AF:Array[Float64],AN:Int32,BaseQRankSum:Float64,DB:Boolean,DP:Int32,FS:Float64,MQ:Float64,MQRankSum:Float64,MQ_DP:Int32,QD:Float64,ReadPosRankSum:Float64,SOR:Float64,VarDP:Int32},a_index:Int32,was_split:Boolean,`the entries! [877f12a8827e18f61222c6c8c5fb04a8]`:Array[Struct{GT:Call}]}},false,TableNativeZippedReader(gs://broad-ukbb/broad.freeze_4/hardcalls/hardcalls.split.mt/rows,gs://broad-ukbb/broad.freeze_4/hardcalls/hardcalls.split.mt/entries,Some(NativeReaderOptions(WrappedArray([[chr20:1]-[chr20:64444167]]),struct{locus: locus, alleles: array},true)),TableSpec(65792,0.2.19-c6ec8b76eb26,../references,Table{global:Struct{},key:[locus,alleles],row:Struct{locus:Locus(GRCh38),alleles:Array[String],rsid:String,qual:Float64,filters:Set[String],info:Struct{AC:Array[Int32],AF:Array[Float64],AN:Int32,BaseQRankSum:Float64,DB:Boolean,DP:Int32,FS:Float64,MQ:Float64,MQRankSum:Float64,MQ_DP:Int32,QD:Float64,ReadPosRankSum:Float64,SOR:Float64,VarDP:Int32},a_index:Int32,was_split:Boolean}},Map(globals -> RVDComponentSpec(../globals/rows), rows -> RVDComponentSpec(rows), partition_counts -> PartitionCountsComponentSpec(List(1479, 1293, 1359, 1348, 1245, 1316, 1080, 1089, 1327, 1330, 1316, 1414, 1426, 1298, 1432, 2533, 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978, 1020, 1345, 1299, 1169, 1164, 1233, 1126, 1147, 1065, 1228, 1162, 1105, 1075, 1110, 1144, 1007, 1093, 1112, 1116, 1138, 1193, 1044, 1104, 1193, 1071, 1166, 1223, 1097, 1276, 1048, 1190, 1108, 1143, 1163, 1008, 1142, 1064, 1103, 1164, 1137, 1090, 1135, 1105, 1061, 1084, 1311, 1019, 1130, 1367, 1209, 1202, 1344, 1185, 1165, 1291, 1109, 1132, 1117, 1194, 1210, 1191, 1140, 1154, 1087, 1016, 1069, 1536, 1422, 1097, 899, 1094, 1072, 1175, 1149, 1202, 1170, 1087, 1324, 1239, 1683, 1393, 1072, 1223, 1319, 1464, 1617, 1643, 1378, 1225, 1288, 1223, 1294, 1116, 1408, 1150, 1371, 1340, 1230, 1214, 1140, 1184, 1231, 1648, 1251, 1212, 1285, 1307, 1280, 1095, 1250, 1446, 1252, 1284, 1135, 1263, 1183, 1105, 1296, 1162, 1278, 1096, 1550, 1357, 1274, 1233, 1276, 1169, 1147, 1062, 1339, 1245, 1229, 1270, 1171, 1259, 1212, 1202, 1154, 1197, 1079, 1220, 1318, 1260, 1167, 1237, 1234, 1303, 1095, 1181, 1321, 1279, 1165, 1087, 1077, 1131, 1217, 1190, 1223, 1143, 1196, 1273, 1416, 1283, 1203, 1071, 1173, 1322, 1079, 1217, 1245, 1246, 1254, 1235, 1145, 1194, 1051, 1198, 1275, 1192, 1179, 1167, 1217, 1301, 1194, 1082, 1202, 1290, 1303, 1195, 1346, 1223, 1110, 1240, 1241, 1318, 1161, 1211, 1165, 1137, 1250, 1133, 1188, 1169, 1194, 1196, 1083, 1257, 1174, 1181, 1086, 1253, 1232, 1224, 1088, 1178, 1207, 1244, 1273, 1156, 1062, 1201, 1344, 1260, 1192, 1249, 1307, 1278, 1210, 1145, 1083, 1216, 1270, 1354, 1263, 1097, 1139, 1316, 1323, 1223, 1188, 1234, 1167, 1192, 1168, 1218, 1182, 1197, 1107, 1275, 1231, 1235, 1247, 1378, 1531, 1112, 1226, 1182, 1228, 1138, 1088, 1211, 922, 1041, 1129, 1050, 1089, 1133, 1165, 1305, 1182, 1348, 1149, 1156, 1086, 1070, 1186, 1174, 1043, 1168, 1132, 1212, 1216, 1189, 1039, 1085, 937, 1148, 1245, 1200, 1066, 1155, 1120, 994, 974, 1190, 1039, 1116, 1092, 1135, 1079, 1122, 1023, 1224, 1426, 1190, 1300, 944, 1404, 1274, 1321, 1436, 1277, 1189, 1305, 1328, 1305, 1247, 1524, 1247, 1177, 1213, 1060, 1369, 1217, 1161, 1256, 1238, 1278, 1074, 1311, 1335, 1345, 1003, 1222, 1371, 1192, 1112, 977, 1115, 1089, 1229, 1273, 1010, 1217, 1247, 1257, 1375, 1223, 1257, 1192, 1183, 1136, 1209, 835, 1000, 1168, 1260, 1299, 1238, 1204, 1216, 1219, 1195, 1059, 1237, 1246, 1149, 1168, 1109, 1189, 1251, 1202, 1381, 1167, 1786, 1253, 1276, 1216, 1117, 1936, 1083, 1234, 1221, 1121, 1051, 1108, 1199, 1102, 1052, 1171, 1155, 1061, 902, 1131, 984, 1237, 1331, 1273, 1293, 1074, 1067, 1002, 1109, 1249, 1221, 1265, 1019, 1250, 1147, 1203, 1037, 1251, 1275, 1115, 1183, 1174, 1254, 1028, 1223, 1231, 1270, 1140, 987, 1144, 1299, 1374, 1410, 1056, 1186, 1228, 1317, 1128, 1198, 1208, 1142, 1183, 1200, 1119, 1086, 1212, 1225, 1076, 1067, 1045, 869, 909, 1088, 1135, 1166, 1311, 1336, 1346, 1079, 1136, 1164, 1562, 1317, 1124, 1178, 1174, 1192, 1283, 1279, 1138, 1233, 1198, 1121, 1146, 1152, 1342, 1144, 1192, 1271, 1213, 1183, 1284, 1248, 1206, 1118, 1179, 1408, 1074, 1224, 1075, 1267, 1143, 1218, 1426, 1218, 1317, 1245, 1207, 1112, 1145, 1221, 1208, 1180, 1146, 1256, 1204, 1265, 1439, 1273, 1157, 1162, 1174, 1210, 1141, 1087, 1179, 1670, 1202, 1187, 1198, 1209, 1274, 1247, 1308, 1103, 1259, 1194, 1302, 1227, 1402, 1362, 1286, 1201, 1246, 1233, 1146, 1099, 1154, 1209, 940, 1244, 1149, 1174, 1133, 1165, 1161, 1209, 1249, 1141, 1460, 1156, 1211, 982, 1096, 1172, 1225, 1179, 1223, 1233, 1295, 1204, 1180, 1206, 1355, 1337, 1307, 1235, 994, 1029, 1073, 1259, 1113, 1105, 1152, 1332, 1256, 1352, 1190, 1244, 1078, 1162, 1266, 1273, 1269, 1143, 1180, 1174, 1064, 1268, 1309, 1245, 1263, 1188, 1053, 1054, 1069, 1082, 1154, 1337, 1212, 1211, 1246, 1135, 1144, 1433, 1167, 1246, 1127, 1253, 1359, 1125, 1140, 1117, 1240, 1279, 1273, 1157, 1162, 1147, 1079, 1070, 1281, 1187, 1179, 1201, 1336, 998, 1263, 1145, 1132, 1206, 1150, 1117, 1126, 1241, 1204, 1171, 979, 1019, 1130, 1232, 1079, 1076, 1031, 1125, 1088, 1253, 1188, 1004, 1028, 941, 1186, 879, 1052, 1133, 1044, 1029, 1428, 994, 1045, 1001, 1212, 1173, 1210, 1314, 1508, 1372, 1279, 1126, 1106, 1390, 1238, 1403, 1482, 1451, 1441, 1244, 1252, 1501, 1349, 1574, 1733, 1325, 1167, 1426, 1592, 1476, 1683, 1651, 1616, 1427, 1665, 1432, 1539, 1372, 1500, 1568, 1364, 1418, 1435, 1713, 1387, 1450, 1577, 1763, 1683, 1860, 1821, 1571, 1588, 1665, 1479, 1762, 1733, 1605, 1319, 1490, 1698, 1632, 1344, 1519, 1516, 1654, 1583, 1719, 1774, 1480, 1157, 1367, 1637, 1798, 1496, 1403, 1452, 1481, 1203, 1572, 1904, 1393, 1223, 1269, 1526, 1159, 1583, 1468, 1376, 1376, 1424, 1577, 1458, 1753, 1641, 1584, 1408, 1627, 1456, 1358, 1581, 1657, 1248, 1293, 1255, 1211, 1446, 1218, 1441, 1356, 1232, 1383, 1350, 1307, 1418, 1567, 1462, 1345, 1451, 1410, 1482, 1190, 1326, 1449, 1532, 1625, 1406, 1419, 1206, 1345, 1298, 1450, 1193, 1600, 1511, 1455, 1621, 1694, 1661, 1568, 1420, 1478, 1729, 1534, 1498, 1569, 1259, 1271, 1556, 1315, 1292, 1267, 1458, 1394, 1456, 1387, 1393, 1318, 1541, 1151, 1334, 1358, 1560, 1519, 1381, 1559, 1529, 1419, 1407, 1258, 1356, 1190, 1423, 1416, 1206, 1454, 1223, 1615, 1662, 1688, 1503, 1388, 1412, 1402, 1426, 1391, 1690, 1384, 1426, 1526, 1559, 1542, 1734, 1640, 1510, 1597, 1453, 1457, 1240, 1443, 1575, 1461, 1333, 1482, 1449, 1550, 1400, 1631, 1445, 902, 1310, 1336, 1097, 1343, 1204, 1350, 1364, 1398, 1723, 1756, 1520, 1603, 1484, 1463, 1496, 1061, 1462, 1444, 1570, 1650, 1633, 1299, 1754, 1704, 1474, 1370, 1813, 1797, 1445, 1519, 1192, 1618, 1873, 1405, 1076, 1749, 1625, 1509, 1453, 1561, 1612, 1857, 1360, 1311, 1483, 1313, 1508, 1566, 1408, 1340, 1672, 1455, 1301, 1685, 1633, 1682, 1632, 1535, 1269, 1589, 1711, 1662, 1396, 1248, 1381, 1501, 1840, 1574, 1358, 1427, 1649, 1049, 1500, 1629, 1412, 1430, 1833, 1627, 1537, 1620, 1581, 1080, 1617, 1636, 1550, 1281, 1327, 1701, 1647, 1645, 1330, 1235, 860, 1087, 1437, 1525, 1552, 1527, 1267, 1352, 1689, 1421, 1298, 1236, 1266, 1548, 1418, 1400, 1366, 1476, 1555, 1176, 1219, 1150, 1210, 1148, 1062, 1273, 1288, 1290, 1270, 846, 1253, 1398, 1374, 1291, 1304, 1062, 1237, 1256, 1547, 1354, 1168, 1203, 1418, 1270, 1533, 1555, 1397, 1588, 1938, 2242, 2513, 1971)))))),ArrayAgg(ArrayFilter(ArrayRange(I32(0),ArrayLen(GetField(Ref(row,struct{locus: locus, alleles: array, rsid: str, qual: float64, filters: set, info: struct{AC: array, AF: array, AN: int32, BaseQRankSum: float64, DB: bool, DP: int32, FS: float64, MQ: float64, MQRankSum: float64, MQ_DP: int32, QD: float64, ReadPosRankSum: float64, SOR: float64, VarDP: int32}, a_index: int32, was_split: bool, `the entries! [877f12a8827e18f61222c6c8c5fb04a8]`: array}),the entries! [877f12a8827e18f61222c6c8c5fb04a8])),I32(1)),__iruid_10627,ApplyUnaryPrimOp(Bang(),IsNA(ArrayRef(GetField(Ref(row,struct{locus: locus, alleles: array, rsid: str, qual: float64, filters: set, info: struct{AC: array, AF: array, AN: int32, BaseQRankSum: float64, DB: bool, DP: int32, FS: float64, MQ: float64, MQRankSum: float64, MQ_DP: int32, QD: float64, ReadPosRankSum: float64, SOR: float64, VarDP: int32}, a_index: int32, was_split: bool, `the entries! [877f12a8827e18f61222c6c8c5fb04a8]`: array}),the entries! [877f12a8827e18f61222c6c8c5fb04a8]),Ref(__iruid_10627,int32))))),__iruid_10626,AggLet(__iruid_10628,GetField(ArrayRef(GetField(Ref(row,struct{locus: locus, alleles: array, rsid: str, qual: float64, filters: set, info: struct{AC: array, AF: array, AN: int32, BaseQRankSum: float64, DB: bool, DP: int32, FS: float64, MQ: float64, MQRankSum: float64, MQ_DP: int32, QD: float64, ReadPosRankSum: float64, SOR: float64, VarDP: int32}, a_index: int32, was_split: bool, `the entries! [877f12a8827e18f61222c6c8c5fb04a8]`: array}),the entries! [877f12a8827e18f61222c6c8c5fb04a8]),Ref(__iruid_10626,int32)),GT),InsertFields(SelectFields(Ref(row,struct{locus: locus, alleles: array, rsid: str, qual: float64, filters: set, info: struct{AC: array, AF: array, AN: int32, BaseQRankSum: float64, DB: bool, DP: int32, FS: float64, MQ: float64, MQRankSum: float64, MQ_DP: int32, QD: float64, ReadPosRankSum: float64, SOR: float64, VarDP: int32}, a_index: int32, was_split: bool, `the entries! [877f12a8827e18f61222c6c8c5fb04a8]`: array}),WrappedArray(locus, alleles, rsid, qual, filters, info, a_index, was_split)),ArrayBuffer((variant_qc,Let(__iruid_10629,MakeStruct(ArrayBuffer((n_called,ApplyAggOp(ArrayBuffer(),None,ArrayBuffer(Apply(toInt64,ArrayBuffer(ApplyUnaryPrimOp(Bang(),IsNA(Ref(__iruid_10628,call)))),int64)),AggSignature(Sum(),ArrayBuffer(),None,ArrayBuffer(int64)))), (n_not_called,ApplyAggOp(ArrayBuffer(),None,ArrayBuffer(Apply(toInt64,ArrayBuffer(IsNA(Ref(__iruid_10628,call))),int64)),AggSignature(Sum(),ArrayBuffer(),None,ArrayBuffer(int64)))), (n_filtered,ApplyBinaryPrimOp(Subtract(),I64(100221),ApplyAggOp(ArrayBuffer(),None,ArrayBuffer(),AggSignature(Count(),ArrayBuffer(),None,ArrayBuffer())))), (call_stats,ApplyAggOp(ArrayBuffer(),Some(ArrayBuffer(ArrayLen(GetField(Ref(row,struct{locus: locus, alleles: array, rsid: str, qual: float64, filters: set, info: struct{AC: array, AF: array, AN: int32, BaseQRankSum: float64, DB: bool, DP: int32, FS: float64, MQ: float64, MQRankSum: float64, MQ_DP: int32, QD: float64, ReadPosRankSum: float64, SOR: float64, VarDP: int32}, a_index: int32, was_split: bool, `the entries! [877f12a8827e18f61222c6c8c5fb04a8]`: array}),alleles)))),ArrayBuffer(Ref(__iruid_10628,call)),AggSignature(CallStats(),ArrayBuffer(),Some(ArrayBuffer(int32)),ArrayBuffer(call)))))),Let(__iruid_10630,GetField(Ref(__iruid_10629,struct{n_called: int64, n_not_called: int64, n_filtered: int64, call_stats: struct{AC: array, AF: array, AN: int32, homozygote_count: array}}),call_stats),Let(__iruid_10631,GetField(Ref(__iruid_10630,struct{AC: array, AF: array, AN: int32, homozygote_count: array}),homozygote_count),Let(__iruid_10632,GetField(Ref(__iruid_10629,struct{n_called: int64, n_not_called: int64, n_filtered: int64, call_stats: struct{AC: array, AF: array, AN: int32, homozygote_count: array}}),n_called),Let(__iruid_10633,GetField(Ref(__iruid_10629,struct{n_called: int64, n_not_called: int64, n_filtered: int64, call_stats: struct{AC: array, AF: array, AN: int32, homozygote_count: array}}),n_not_called),Let(__iruid_10634,GetField(Ref(__iruid_10629,struct{n_called: int64, n_not_called: int64, n_filtered: int64, call_stats: struct{AC: array, AF: array, AN: int32, homozygote_count: array}}),n_filtered),Let(__iruid_10635,If(ApplyComparisonOp(EQ(int32,int32),ArrayLen(GetField(Ref(row,struct{locus: locus, alleles: array, rsid: str, qual: float64, filters: set, info: struct{AC: array, AF: array, AN: int32, BaseQRankSum: float64, DB: bool, DP: int32, FS: float64, MQ: float64, MQRankSum: float64, MQ_DP: int32, QD: float64, ReadPosRankSum: float64, SOR: float64, VarDP: int32}, a_index: int32, was_split: bool, `the entries! [877f12a8827e18f61222c6c8c5fb04a8]`: array}),alleles)),I32(2)),Let(__iruid_10636,GetField(Ref(__iruid_10629,struct{n_called: int64, n_not_called: int64, n_filtered: int64, call_stats: struct{AC: array, AF: array, AN: int32, homozygote_count: array}}),call_stats),Let(__iruid_10637,GetField(Ref(__iruid_10636,struct{AC: array, AF: array, AN: int32, homozygote_count: array}),homozygote_count),Apply(hardy_weinberg_test,ArrayBuffer(ArrayRef(Ref(__iruid_10637,array),I32(0)), ApplyBinaryPrimOp(Subtract(),ArrayRef(GetField(Ref(__iruid_10636,struct{AC: array, AF: array, AN: int32, homozygote_count: array}),AC),I32(1)),ApplyBinaryPrimOp(Multiply(),I32(2),ArrayRef(Ref(__iruid_10637,array),I32(1)))), ArrayRef(Ref(__iruid_10637,array),I32(1))),struct{het_freq_hwe: float64, p_value: float64}))),NA(struct{het_freq_hwe: float64, p_value: float64})),MakeStruct(ArrayBuffer((AC,GetField(Ref(__iruid_10630,struct{AC: array, AF: array, AN: int32, homozygote_count: array}),AC)), (AF,GetField(Ref(__iruid_10630,struct{AC: array, AF: array, AN: int32, homozygote_count: array}),AF)), (AN,GetField(Ref(__iruid_10630,struct{AC: array, AF: array, AN: int32, homozygote_count: array}),AN)), (homozygote_count,Ref(__iruid_10631,array)), (call_rate,ApplyBinaryPrimOp(FloatingPointDivide(),Cast(Ref(__iruid_10632,int64),float64),Cast(ApplyBinaryPrimOp(Add(),ApplyBinaryPrimOp(Add(),Ref(__iruid_10632,int64),Ref(__iruid_10633,int64)),Ref(__iruid_10634,int64)),float64))), (n_called,Ref(__iruid_10632,int64)), (n_not_called,Ref(__iruid_10633,int64)), (n_filtered,Ref(__iruid_10634,int64)), (n_het,ApplyBinaryPrimOp(Subtract(),Ref(__iruid_10632,int64),Cast(ArrayFold(ArrayFilter(Ref(__iruid_10631,array),__iruid_10640,ApplyUnaryPrimOp(Bang(),IsNA(Ref(__iruid_10640,int32)))),I32(0),__iruid_10638,__iruid_10639,ApplyBinaryPrimOp(Add(),Ref(__iruid_10638,int32),Ref(__iruid_10639,int32))),int64))), (n_non_ref,ApplyBinaryPrimOp(Subtract(),Ref(__iruid_10632,int64),Cast(ArrayRef(Ref(__iruid_10631,array),I32(0)),int64))), (het_freq_hwe,GetField(Ref(__iruid_10635,struct{het_freq_hwe: float64, p_value: float64}),het_freq_hwe)), (p_value_hwe,GetField(Ref(__iruid_10635,struct{het_freq_hwe: float64, p_value: float64}),p_value))))))))))))),None),false))),ArraySeq(SortField(locus,Ascending), SortField(alleles,Ascending))),11),Let(__iruid_10641,GetField(Ref(row,struct{locus: locus, alleles: array, rsid: str, qual: float64, filters: set, info: struct{AC: array, AF: array, AN: int32, BaseQRankSum: float64, DB: bool, DP: int32, FS: float64, MQ: float64, MQRankSum: float64, MQ_DP: int32, QD: float64, ReadPosRankSum: float64, SOR: float64, VarDP: int32}, a_index: int32, was_split: bool, variant_qc: struct{AC: array, AF: array, AN: int32, homozygote_count: array, call_rate: float64, n_called: int64, n_not_called: int64, n_filtered: int64, n_het: int64, n_non_ref: int64, het_freq_hwe: float64, p_value_hwe: float64}}),variant_qc),Let(__iruid_10642,GetField(Ref(row,struct{locus: locus, alleles: array, rsid: str, qual: float64, filters: set, info: struct{AC: array, AF: array, AN: int32, BaseQRankSum: float64, DB: bool, DP: int32, FS: float64, MQ: float64, MQRankSum: float64, MQ_DP: int32, QD: float64, ReadPosRankSum: float64, SOR: float64, VarDP: int32}, a_index: int32, was_split: bool, variant_qc: struct{AC: array, AF: array, AN: int32, homozygote_count: array, call_rate: float64, n_called: int64, n_not_called: int64, n_filtered: int64, n_het: int64, n_non_ref: int64, het_freq_hwe: float64, p_value_hwe: float64}}),info),Let(__iruid_10643,GetField(Ref(__iruid_10641,struct{AC: array, AF: array, AN: int32, homozygote_count: array, call_rate: float64, n_called: int64, n_not_called: int64, n_filtered: int64, n_het: int64, n_non_ref: int64, het_freq_hwe: float64, p_value_hwe: float64}),p_value_hwe),Let(__iruid_10644,GetField(Ref(__iruid_10641,struct{AC: array, AF: array, AN: int32, homozygote_count: array, call_rate: float64, n_called: int64, n_not_called: int64, n_filtered: int64, n_het: int64, n_non_ref: int64, het_freq_hwe: float64, p_value_hwe: float64}),het_freq_hwe),Let(__iruid_10645,GetField(Ref(__iruid_10641,struct{AC: array, AF: array, AN: int32, homozygote_count: array, call_rate: float64, n_called: int64, n_not_called: int64, n_filtered: int64, n_het: int64, n_non_ref: int64, het_freq_hwe: float64, p_value_hwe: float64}),n_non_ref),Let(__iruid_10646,GetField(Ref(__iruid_10641,struct{AC: array, AF: array, AN: int32, homozygote_count: array, call_rate: float64, n_called: int64, n_not_called: int64, n_filtered: int64, n_het: int64, n_non_ref: int64, het_freq_hwe: float64, p_value_hwe: float64}),n_het),Let(__iruid_10647,GetField(Ref(__iruid_10641,struct{AC: array, AF: array, AN: int32, homozygote_count: array, call_rate: float64, n_called: int64, n_not_called: int64, n_filtered: int64, n_het: int64, n_non_ref: int64, het_freq_hwe: float64, p_value_hwe: float64}),n_filtered),Let(__iruid_10648,GetField(Ref(__iruid_10641,struct{AC: array, AF: array, AN: int32, homozygote_count: array, call_rate: float64, n_called: int64, n_not_called: int64, n_filtered: int64, n_het: int64, n_non_ref: int64, het_freq_hwe: float64, p_value_hwe: float64}),n_not_called),Let(__iruid_10649,GetField(Ref(__iruid_10641,struct{AC: array, AF: array, AN: int32, homozygote_count: array, call_rate: float64, n_called: int64, n_not_called: int64, n_filtered: int64, n_het: int64, n_non_ref: int64, het_freq_hwe: float64, p_value_hwe: float64}),n_called),Let(__iruid_10650,GetField(Ref(__iruid_10641,struct{AC: array, AF: array, AN: int32, homozygote_count: array, call_rate: float64, n_called: int64, n_not_called: int64, n_filtered: int64, n_het: int64, n_non_ref: int64, het_freq_hwe: float64, p_value_hwe: float64}),call_rate),Let(__iruid_10651,GetField(Ref(__iruid_10641,struct{AC: array, AF: array, AN: int32, homozygote_count: array, call_rate: float64, n_called: int64, n_not_called: int64, n_filtered: int64, n_het: int64, n_non_ref: int64, het_freq_hwe: float64, p_value_hwe: float64}),homozygote_count),Let(__iruid_10652,GetField(Ref(__iruid_10641,struct{AC: array, AF: array, AN: int32, homozygote_count: array, call_rate: float64, n_called: int64, n_not_called: int64, n_filtered: int64, n_het: int64, n_non_ref: int64, het_freq_hwe: float64, p_value_hwe: float64}),AN),Let(__iruid_10653,GetField(Ref(__iruid_10641,struct{AC: array, AF: array, AN: int32, homozygote_count: array, call_rate: float64, n_called: int64, n_not_called: int64, n_filtered: int64, n_het: int64, n_non_ref: int64, het_freq_hwe: float64, p_value_hwe: float64}),AF),Let(__iruid_10654,GetField(Ref(__iruid_10641,struct{AC: array, AF: array, AN: int32, homozygote_count: array, call_rate: float64, n_called: int64, n_not_called: int64, n_filtered: int64, n_het: int64, n_non_ref: int64, het_freq_hwe: float64, p_value_hwe: float64}),AC),Let(__iruid_10655,GetField(Ref(row,struct{locus: locus, alleles: array, rsid: str, qual: float64, filters: set, info: struct{AC: array, AF: array, AN: int32, BaseQRankSum: float64, DB: bool, DP: int32, FS: float64, MQ: float64, MQRankSum: float64, MQ_DP: int32, QD: float64, ReadPosRankSum: float64, SOR: float64, VarDP: int32}, a_index: int32, was_split: bool, variant_qc: struct{AC: array, AF: array, AN: int32, homozygote_count: array, call_rate: float64, n_called: int64, n_not_called: int64, n_filtered: int64, n_het: int64, n_non_ref: int64, het_freq_hwe: float64, p_value_hwe: float64}}),was_split),Let(__iruid_10656,GetField(Ref(row,struct{locus: locus, alleles: array, rsid: str, qual: float64, filters: set, info: struct{AC: array, AF: array, AN: int32, BaseQRankSum: float64, DB: bool, DP: int32, FS: float64, MQ: float64, MQRankSum: float64, MQ_DP: int32, QD: float64, ReadPosRankSum: float64, SOR: float64, VarDP: int32}, a_index: int32, was_split: bool, variant_qc: struct{AC: array, AF: array, AN: int32, homozygote_count: array, call_rate: float64, n_called: int64, n_not_called: int64, n_filtered: int64, n_het: int64, n_non_ref: int64, het_freq_hwe: float64, p_value_hwe: float64}}),a_index),Let(__iruid_10657,GetField(Ref(__iruid_10642,struct{AC: array, AF: array, AN: int32, BaseQRankSum: float64, DB: bool, DP: int32, FS: float64, MQ: float64, MQRankSum: float64, MQ_DP: int32, QD: float64, ReadPosRankSum: float64, SOR: float64, VarDP: int32}),VarDP),Let(__iruid_10658,GetField(Ref(__iruid_10642,struct{AC: array, AF: array, AN: int32, BaseQRankSum: float64, DB: bool, DP: int32, FS: float64, MQ: float64, MQRankSum: float64, MQ_DP: int32, QD: float64, ReadPosRankSum: float64, SOR: float64, VarDP: int32}),SOR),Let(__iruid_10659,GetField(Ref(__iruid_10642,struct{AC: array, AF: array, AN: int32, BaseQRankSum: float64, DB: bool, DP: int32, FS: float64, MQ: float64, MQRankSum: float64, MQ_DP: int32, QD: float64, ReadPosRankSum: float64, SOR: float64, VarDP: int32}),ReadPosRankSum),Let(__iruid_10660,GetField(Ref(__iruid_10642,struct{AC: array, AF: array, AN: int32, BaseQRankSum: float64, DB: bool, DP: int32, FS: float64, MQ: float64, MQRankSum: float64, MQ_DP: int32, QD: float64, ReadPosRankSum: float64, SOR: float64, VarDP: int32}),QD),Let(__iruid_10661,GetField(Ref(__iruid_10642,struct{AC: array, AF: array, AN: int32, BaseQRankSum: float64, DB: bool, DP: int32, FS: float64, MQ: float64, MQRankSum: float64, MQ_DP: int32, QD: float64, ReadPosRankSum: float64, SOR: float64, VarDP: int32}),MQ_DP),Let(__iruid_10662,GetField(Ref(__iruid_10642,struct{AC: array, AF: array, AN: int32, BaseQRankSum: float64, DB: bool, DP: int32, FS: float64, MQ: float64, MQRankSum: float64, MQ_DP: int32, QD: float64, ReadPosRankSum: float64, SOR: float64, VarDP: int32}),MQRankSum),Let(__iruid_10663,GetField(Ref(__iruid_10642,struct{AC: array, AF: array, AN: int32, BaseQRankSum: float64, DB: bool, DP: int32, FS: float64, MQ: float64, MQRankSum: float64, MQ_DP: int32, QD: float64, ReadPosRankSum: float64, SOR: float64, VarDP: int32}),MQ),Let(__iruid_10664,GetField(Ref(__iruid_10642,struct{AC: array, AF: array, AN: int32, BaseQRankSum: float64, DB: bool, DP: int32, FS: float64, MQ: float64, MQRankSum: float64, MQ_DP: int32, QD: float64, ReadPosRankSum: float64, SOR: float64, VarDP: int32}),FS),Let(__iruid_10665,GetField(Ref(__iruid_10642,struct{AC: array, AF: array, AN: int32, BaseQRankSum: float64, DB: bool, DP: int32, FS: float64, MQ: float64, MQRankSum: float64, MQ_DP: int32, QD: float64, ReadPosRankSum: float64, SOR: float64, VarDP: int32}),DP),Let(__iruid_10666,GetField(Ref(__iruid_10642,struct{AC: array, AF: array, AN: int32, BaseQRankSum: float64, DB: bool, DP: int32, FS: float64, MQ: float64, MQRankSum: float64, MQ_DP: int32, QD: float64, ReadPosRankSum: float64, SOR: float64, VarDP: int32}),DB),Let(__iruid_10667,GetField(Ref(__iruid_10642,struct{AC: array, AF: array, AN: int32, BaseQRankSum: float64, DB: bool, DP: int32, FS: float64, MQ: float64, MQRankSum: float64, MQ_DP: int32, QD: float64, ReadPosRankSum: float64, SOR: float64, VarDP: int32}),BaseQRankSum),Let(__iruid_10668,GetField(Ref(__iruid_10642,struct{AC: array, AF: array, AN: int32, BaseQRankSum: float64, DB: bool, DP: int32, FS: float64, MQ: float64, MQRankSum: float64, MQ_DP: int32, QD: float64, ReadPosRankSum: float64, SOR: float64, VarDP: int32}),AN),Let(__iruid_10669,GetField(Ref(__iruid_10642,struct{AC: array, AF: array, AN: int32, BaseQRankSum: float64, DB: bool, DP: int32, FS: float64, MQ: float64, MQRankSum: float64, MQ_DP: int32, QD: float64, ReadPosRankSum: float64, SOR: float64, VarDP: int32}),AF),Let(__iruid_10670,GetField(Ref(__iruid_10642,struct{AC: array, AF: array, AN: int32, BaseQRankSum: float64, DB: bool, DP: int32, FS: float64, MQ: float64, MQRankSum: float64, MQ_DP: int32, QD: float64, ReadPosRankSum: float64, SOR: float64, VarDP: int32}),AC),Let(__iruid_10671,GetField(Ref(row,struct{locus: locus, alleles: array, rsid: str, qual: float64, filters: set, info: struct{AC: array, AF: array, AN: int32, BaseQRankSum: float64, DB: bool, DP: int32, FS: float64, MQ: float64, MQRankSum: float64, MQ_DP: int32, QD: float64, ReadPosRankSum: float64, SOR: float64, VarDP: int32}, a_index: int32, was_split: bool, variant_qc: struct{AC: array, AF: array, AN: int32, homozygote_count: array, call_rate: float64, n_called: int64, n_not_called: int64, n_filtered: int64, n_het: int64, n_non_ref: int64, het_freq_hwe: float64, p_value_hwe: float64}}),filters),Let(__iruid_10672,GetField(Ref(row,struct{locus: locus, alleles: array, rsid: str, qual: float64, filters: set, info: struct{AC: array, AF: array, AN: int32, BaseQRankSum: float64, DB: bool, DP: int32, FS: float64, MQ: float64, MQRankSum: float64, MQ_DP: int32, QD: float64, ReadPosRankSum: float64, SOR: float64, VarDP: int32}, a_index: int32, was_split: bool, variant_qc: struct{AC: array, AF: array, AN: int32, homozygote_count: array, call_rate: float64, n_called: int64, n_not_called: int64, n_filtered: int64, n_het: int64, n_non_ref: int64, het_freq_hwe: float64, p_value_hwe: float64}}),qual),Let(__iruid_10673,GetField(Ref(row,struct{locus: locus, alleles: array, rsid: str, qual: float64, filters: set, info: struct{AC: array, AF: array, AN: int32, BaseQRankSum: float64, DB: bool, DP: int32, FS: float64, MQ: float64, MQRankSum: float64, MQ_DP: int32, QD: float64, ReadPosRankSum: float64, SOR: float64, VarDP: int32}, a_index: int32, was_split: bool, variant_qc: struct{AC: array, AF: array, AN: int32, homozygote_count: array, call_rate: float64, n_called: int64, n_not_called: int64, n_filtered: int64, n_het: int64, n_non_ref: int64, het_freq_hwe: float64, p_value_hwe: float64}}),rsid),Let(__iruid_10674,GetField(Ref(row,struct{locus: locus, alleles: array, rsid: str, qual: float64, filters: set, info: struct{AC: array, AF: array, AN: int32, BaseQRankSum: float64, DB: bool, DP: int32, FS: float64, MQ: float64, MQRankSum: float64, MQ_DP: int32, QD: float64, ReadPosRankSum: float64, SOR: float64, VarDP: int32}, a_index: int32, was_split: bool, variant_qc: struct{AC: array, AF: array, AN: int32, homozygote_count: array, call_rate: float64, n_called: int64, n_not_called: int64, n_filtered: int64, n_het: int64, n_non_ref: int64, het_freq_hwe: float64, p_value_hwe: float64}}),alleles),Let(__iruid_10675,GetField(Ref(row,struct{locus: locus, alleles: array, rsid: str, qual: float64, filters: set, info: struct{AC: array, AF: array, AN: int32, BaseQRankSum: float64, DB: bool, DP: int32, FS: float64, MQ: float64, MQRankSum: float64, MQ_DP: int32, QD: float64, ReadPosRankSum: float64, SOR: float64, VarDP: int32}, a_index: int32, was_split: bool, variant_qc: struct{AC: array, AF: array, AN: int32, homozygote_count: array, call_rate: float64, n_called: int64, n_not_called: int64, n_filtered: int64, n_het: int64, n_non_ref: int64, het_freq_hwe: float64, p_value_hwe: float64}}),locus),InsertFields(SelectFields(Ref(row,struct{locus: locus, alleles: array, rsid: str, qual: float64, filters: set, info: struct{AC: array, AF: array, AN: int32, BaseQRankSum: float64, DB: bool, DP: int32, FS: float64, MQ: float64, MQRankSum: float64, MQ_DP: int32, QD: float64, ReadPosRankSum: float64, SOR: float64, VarDP: int32}, a_index: int32, was_split: bool, variant_qc: struct{AC: array, AF: array, AN: int32, homozygote_count: array, call_rate: float64, n_called: int64, n_not_called: int64, n_filtered: int64, n_het: int64, n_non_ref: int64, het_freq_hwe: float64, p_value_hwe: float64}}),WrappedArray()),ArrayBuffer((locus,Let(__iruid_10676,If(IsNA(Ref(__iruid_10675,locus)),Str(NA),Apply(str,ArrayBuffer(Ref(__iruid_10675,locus)),str)),If(ApplyComparisonOp(GT(int32,int32),Apply(length,ArrayBuffer(Ref(__iruid_10676,str)),int32),I32(76)),Apply(+,ArrayBuffer(ApplyIR([*:*],ArrayBuffer(Ref(__iruid_10676,str), I32(0), I32(73))), Str(...)),str),Ref(__iruid_10676,str)))), (alleles,Let(__iruid_10677,If(IsNA(Ref(__iruid_10674,array)),Str(NA),Apply(+,ArrayBuffer(Apply(+,ArrayBuffer(Str([), Apply(mkString,ArrayBuffer(ArrayMap(Ref(__iruid_10674,array),__iruid_10678,If(IsNA(Ref(__iruid_10678,str)),Str(NA),Apply(+,ArrayBuffer(Apply(+,ArrayBuffer(Str("), Apply(escapeString,ArrayBuffer(Ref(__iruid_10678,str)),str)),str), Str(")),str))), Str(,)),str)),str), Str(])),str)),If(ApplyComparisonOp(GT(int32,int32),Apply(length,ArrayBuffer(Ref(__iruid_10677,str)),int32),I32(76)),Apply(+,ArrayBuffer(ApplyIR([*:*],ArrayBuffer(Ref(__iruid_10677,str), I32(0), I32(73))), Str(...)),str),Ref(__iruid_10677,str)))), (rsid,Let(__iruid_10679,If(IsNA(Ref(__iruid_10673,str)),Str(NA),Apply(+,ArrayBuffer(Apply(+,ArrayBuffer(Str("), Apply(escapeString,ArrayBuffer(Ref(__iruid_10673,str)),str)),str), Str(")),str)),If(ApplyComparisonOp(GT(int32,int32),Apply(length,ArrayBuffer(Ref(__iruid_10679,str)),int32),I32(76)),Apply(+,ArrayBuffer(ApplyIR([*:*],ArrayBuffer(Ref(__iruid_10679,str), I32(0), I32(73))), Str(...)),str),Ref(__iruid_10679,str)))), (qual,Let(__iruid_10680,If(IsNA(Ref(__iruid_10672,float64)),Str(NA),Apply(format,ArrayBuffer(Str(%.2e), MakeTuple(ArraySeq((0,Ref(__iruid_10672,float64))))),str)),If(ApplyComparisonOp(GT(int32,int32),Apply(length,ArrayBuffer(Ref(__iruid_10680,str)),int32),I32(76)),Apply(+,ArrayBuffer(ApplyIR([*:*],ArrayBuffer(Ref(__iruid_10680,str), I32(0), I32(73))), Str(...)),str),Ref(__iruid_10680,str)))), (filters,Let(__iruid_10681,If(IsNA(Ref(__iruid_10671,set)),Str(NA),Apply(+,ArrayBuffer(Apply(+,ArrayBuffer(Str({), Apply(mkString,ArrayBuffer(ArrayMap(ToArray(Ref(__iruid_10671,set)),__iruid_10682,If(IsNA(Ref(__iruid_10682,str)),Str(NA),Apply(+,ArrayBuffer(Apply(+,ArrayBuffer(Str("), Apply(escapeString,ArrayBuffer(Ref(__iruid_10682,str)),str)),str), Str(")),str))), Str(,)),str)),str), Str(})),str)),If(ApplyComparisonOp(GT(int32,int32),Apply(length,ArrayBuffer(Ref(__iruid_10681,str)),int32),I32(76)),Apply(+,ArrayBuffer(ApplyIR([*:*],ArrayBuffer(Ref(__iruid_10681,str), I32(0), I32(73))), Str(...)),str),Ref(__iruid_10681,str)))), (info.AC,Let(__iruid_10683,If(IsNA(Ref(__iruid_10670,array)),Str(NA),Apply(+,ArrayBuffer(Apply(+,ArrayBuffer(Str([), Apply(mkString,ArrayBuffer(ArrayMap(Ref(__iruid_10670,array),__iruid_10684,If(IsNA(Ref(__iruid_10684,int32)),Str(NA),Apply(str,ArrayBuffer(Ref(__iruid_10684,int32)),str))), Str(,)),str)),str), Str(])),str)),If(ApplyComparisonOp(GT(int32,int32),Apply(length,ArrayBuffer(Ref(__iruid_10683,str)),int32),I32(76)),Apply(+,ArrayBuffer(ApplyIR([*:*],ArrayBuffer(Ref(__iruid_10683,str), I32(0), I32(73))), Str(...)),str),Ref(__iruid_10683,str)))), (info.AF,Let(__iruid_10685,If(IsNA(Ref(__iruid_10669,array)),Str(NA),Apply(+,ArrayBuffer(Apply(+,ArrayBuffer(Str([), Apply(mkString,ArrayBuffer(ArrayMap(Ref(__iruid_10669,array),__iruid_10686,If(IsNA(Ref(__iruid_10686,float64)),Str(NA),Apply(format,ArrayBuffer(Str(%.2e), MakeTuple(ArraySeq((0,Ref(__iruid_10686,float64))))),str))), Str(,)),str)),str), Str(])),str)),If(ApplyComparisonOp(GT(int32,int32),Apply(length,ArrayBuffer(Ref(__iruid_10685,str)),int32),I32(76)),Apply(+,ArrayBuffer(ApplyIR([*:*],ArrayBuffer(Ref(__iruid_10685,str), I32(0), I32(73))), Str(...)),str),Ref(__iruid_10685,str)))), (info.AN,Let(__iruid_10687,If(IsNA(Ref(__iruid_10668,int32)),Str(NA),Apply(str,ArrayBuffer(Ref(__iruid_10668,int32)),str)),If(ApplyComparisonOp(GT(int32,int32),Apply(length,ArrayBuffer(Ref(__iruid_10687,str)),int32),I32(76)),Apply(+,ArrayBuffer(ApplyIR([*:*],ArrayBuffer(Ref(__iruid_10687,str), I32(0), I32(73))), Str(...)),str),Ref(__iruid_10687,str)))), (info.BaseQRankSum,Let(__iruid_10688,If(IsNA(Ref(__iruid_10667,float64)),Str(NA),Apply(format,ArrayBuffer(Str(%.2e), MakeTuple(ArraySeq((0,Ref(__iruid_10667,float64))))),str)),If(ApplyComparisonOp(GT(int32,int32),Apply(length,ArrayBuffer(Ref(__iruid_10688,str)),int32),I32(76)),Apply(+,ArrayBuffer(ApplyIR([*:*],ArrayBuffer(Ref(__iruid_10688,str), I32(0), I32(73))), Str(...)),str),Ref(__iruid_10688,str)))), (info.DB,Let(__iruid_10689,If(IsNA(Ref(__iruid_10666,bool)),Str(NA),Apply(str,ArrayBuffer(Ref(__iruid_10666,bool)),str)),If(ApplyComparisonOp(GT(int32,int32),Apply(length,ArrayBuffer(Ref(__iruid_10689,str)),int32),I32(76)),Apply(+,ArrayBuffer(ApplyIR([*:*],ArrayBuffer(Ref(__iruid_10689,str), I32(0), I32(73))), Str(...)),str),Ref(__iruid_10689,str)))), (info.DP,Let(__iruid_10690,If(IsNA(Ref(__iruid_10665,int32)),Str(NA),Apply(str,ArrayBuffer(Ref(__iruid_10665,int32)),str)),If(ApplyComparisonOp(GT(int32,int32),Apply(length,ArrayBuffer(Ref(__iruid_10690,str)),int32),I32(76)),Apply(+,ArrayBuffer(ApplyIR([*:*],ArrayBuffer(Ref(__iruid_10690,str), I32(0), I32(73))), Str(...)),str),Ref(__iruid_10690,str)))), (info.FS,Let(__iruid_10691,If(IsNA(Ref(__iruid_10664,float64)),Str(NA),Apply(format,ArrayBuffer(Str(%.2e), MakeTuple(ArraySeq((0,Ref(__iruid_10664,float64))))),str)),If(ApplyComparisonOp(GT(int32,int32),Apply(length,ArrayBuffer(Ref(__iruid_10691,str)),int32),I32(76)),Apply(+,ArrayBuffer(ApplyIR([*:*],ArrayBuffer(Ref(__iruid_10691,str), I32(0), I32(73))), Str(...)),str),Ref(__iruid_10691,str)))), (info.MQ,Let(__iruid_10692,If(IsNA(Ref(__iruid_10663,float64)),Str(NA),Apply(format,ArrayBuffer(Str(%.2e), MakeTuple(ArraySeq((0,Ref(__iruid_10663,float64))))),str)),If(ApplyComparisonOp(GT(int32,int32),Apply(length,ArrayBuffer(Ref(__iruid_10692,str)),int32),I32(76)),Apply(+,ArrayBuffer(ApplyIR([*:*],ArrayBuffer(Ref(__iruid_10692,str), I32(0), I32(73))), Str(...)),str),Ref(__iruid_10692,str)))), (info.MQRankSum,Let(__iruid_10693,If(IsNA(Ref(__iruid_10662,float64)),Str(NA),Apply(format,ArrayBuffer(Str(%.2e), MakeTuple(ArraySeq((0,Ref(__iruid_10662,float64))))),str)),If(ApplyComparisonOp(GT(int32,int32),Apply(length,ArrayBuffer(Ref(__iruid_10693,str)),int32),I32(76)),Apply(+,ArrayBuffer(ApplyIR([*:*],ArrayBuffer(Ref(__iruid_10693,str), I32(0), I32(73))), Str(...)),str),Ref(__iruid_10693,str)))), (info.MQ_DP,Let(__iruid_10694,If(IsNA(Ref(__iruid_10661,int32)),Str(NA),Apply(str,ArrayBuffer(Ref(__iruid_10661,int32)),str)),If(ApplyComparisonOp(GT(int32,int32),Apply(length,ArrayBuffer(Ref(__iruid_10694,str)),int32),I32(76)),Apply(+,ArrayBuffer(ApplyIR([*:*],ArrayBuffer(Ref(__iruid_10694,str), I32(0), I32(73))), Str(...)),str),Ref(__iruid_10694,str)))), (info.QD,Let(__iruid_10695,If(IsNA(Ref(__iruid_10660,float64)),Str(NA),Apply(format,ArrayBuffer(Str(%.2e), MakeTuple(ArraySeq((0,Ref(__iruid_10660,float64))))),str)),If(ApplyComparisonOp(GT(int32,int32),Apply(length,ArrayBuffer(Ref(__iruid_10695,str)),int32),I32(76)),Apply(+,ArrayBuffer(ApplyIR([*:*],ArrayBuffer(Ref(__iruid_10695,str), I32(0), I32(73))), Str(...)),str),Ref(__iruid_10695,str)))), (info.ReadPosRankSum,Let(__iruid_10696,If(IsNA(Ref(__iruid_10659,float64)),Str(NA),Apply(format,ArrayBuffer(Str(%.2e), MakeTuple(ArraySeq((0,Ref(__iruid_10659,float64))))),str)),If(ApplyComparisonOp(GT(int32,int32),Apply(length,ArrayBuffer(Ref(__iruid_10696,str)),int32),I32(76)),Apply(+,ArrayBuffer(ApplyIR([*:*],ArrayBuffer(Ref(__iruid_10696,str), I32(0), I32(73))), Str(...)),str),Ref(__iruid_10696,str)))), (info.SOR,Let(__iruid_10697,If(IsNA(Ref(__iruid_10658,float64)),Str(NA),Apply(format,ArrayBuffer(Str(%.2e), MakeTuple(ArraySeq((0,Ref(__iruid_10658,float64))))),str)),If(ApplyComparisonOp(GT(int32,int32),Apply(length,ArrayBuffer(Ref(__iruid_10697,str)),int32),I32(76)),Apply(+,ArrayBuffer(ApplyIR([*:*],ArrayBuffer(Ref(__iruid_10697,str), I32(0), I32(73))), Str(...)),str),Ref(__iruid_10697,str)))), (info.VarDP,Let(__iruid_10698,If(IsNA(Ref(__iruid_10657,int32)),Str(NA),Apply(str,ArrayBuffer(Ref(__iruid_10657,int32)),str)),If(ApplyComparisonOp(GT(int32,int32),Apply(length,ArrayBuffer(Ref(__iruid_10698,str)),int32),I32(76)),Apply(+,ArrayBuffer(ApplyIR([*:*],ArrayBuffer(Ref(__iruid_10698,str), I32(0), I32(73))), Str(...)),str),Ref(__iruid_10698,str)))), (a_index,Let(__iruid_10699,If(IsNA(Ref(__iruid_10656,int32)),Str(NA),Apply(str,ArrayBuffer(Ref(__iruid_10656,int32)),str)),If(ApplyComparisonOp(GT(int32,int32),Apply(length,ArrayBuffer(Ref(__iruid_10699,str)),int32),I32(76)),Apply(+,ArrayBuffer(ApplyIR([*:*],ArrayBuffer(Ref(__iruid_10699,str), I32(0), I32(73))), Str(...)),str),Ref(__iruid_10699,str)))), (was_split,Let(__iruid_10700,If(IsNA(Ref(__iruid_10655,bool)),Str(NA),Apply(str,ArrayBuffer(Ref(__iruid_10655,bool)),str)),If(ApplyComparisonOp(GT(int32,int32),Apply(length,ArrayBuffer(Ref(__iruid_10700,str)),int32),I32(76)),Apply(+,ArrayBuffer(ApplyIR([*:*],ArrayBuffer(Ref(__iruid_10700,str), I32(0), I32(73))), Str(...)),str),Ref(__iruid_10700,str)))), (variant_qc.AC,Let(__iruid_10701,If(IsNA(Ref(__iruid_10654,array)),Str(NA),Apply(+,ArrayBuffer(Apply(+,ArrayBuffer(Str([), Apply(mkString,ArrayBuffer(ArrayMap(Ref(__iruid_10654,array),__iruid_10702,If(IsNA(Ref(__iruid_10702,int32)),Str(NA),Apply(str,ArrayBuffer(Ref(__iruid_10702,int32)),str))), Str(,)),str)),str), Str(])),str)),If(ApplyComparisonOp(GT(int32,int32),Apply(length,ArrayBuffer(Ref(__iruid_10701,str)),int32),I32(76)),Apply(+,ArrayBuffer(ApplyIR([*:*],ArrayBuffer(Ref(__iruid_10701,str), I32(0), I32(73))), Str(...)),str),Ref(__iruid_10701,str)))), (variant_qc.AF,Let(__iruid_10703,If(IsNA(Ref(__iruid_10653,array)),Str(NA),Apply(+,ArrayBuffer(Apply(+,ArrayBuffer(Str([), Apply(mkString,ArrayBuffer(ArrayMap(Ref(__iruid_10653,array),__iruid_10704,If(IsNA(Ref(__iruid_10704,float64)),Str(NA),Apply(format,ArrayBuffer(Str(%.2e), MakeTuple(ArraySeq((0,Ref(__iruid_10704,float64))))),str))), Str(,)),str)),str), Str(])),str)),If(ApplyComparisonOp(GT(int32,int32),Apply(length,ArrayBuffer(Ref(__iruid_10703,str)),int32),I32(76)),Apply(+,ArrayBuffer(ApplyIR([*:*],ArrayBuffer(Ref(__iruid_10703,str), I32(0), I32(73))), Str(...)),str),Ref(__iruid_10703,str)))), (variant_qc.AN,Let(__iruid_10705,If(IsNA(Ref(__iruid_10652,int32)),Str(NA),Apply(str,ArrayBuffer(Ref(__iruid_10652,int32)),str)),If(ApplyComparisonOp(GT(int32,int32),Apply(length,ArrayBuffer(Ref(__iruid_10705,str)),int32),I32(76)),Apply(+,ArrayBuffer(ApplyIR([*:*],ArrayBuffer(Ref(__iruid_10705,str), I32(0), I32(73))), Str(...)),str),Ref(__iruid_10705,str)))), (variant_qc.homozygote_count,Let(__iruid_10706,If(IsNA(Ref(__iruid_10651,array)),Str(NA),Apply(+,ArrayBuffer(Apply(+,ArrayBuffer(Str([), Apply(mkString,ArrayBuffer(ArrayMap(Ref(__iruid_10651,array),__iruid_10707,If(IsNA(Ref(__iruid_10707,int32)),Str(NA),Apply(str,ArrayBuffer(Ref(__iruid_10707,int32)),str))), Str(,)),str)),str), Str(])),str)),If(ApplyComparisonOp(GT(int32,int32),Apply(length,ArrayBuffer(Ref(__iruid_10706,str)),int32),I32(76)),Apply(+,ArrayBuffer(ApplyIR([*:*],ArrayBuffer(Ref(__iruid_10706,str), I32(0), I32(73))), Str(...)),str),Ref(__iruid_10706,str)))), (variant_qc.call_rate,Let(__iruid_10708,If(IsNA(Ref(__iruid_10650,float64)),Str(NA),Apply(format,ArrayBuffer(Str(%.2e), MakeTuple(ArraySeq((0,Ref(__iruid_10650,float64))))),str)),If(ApplyComparisonOp(GT(int32,int32),Apply(length,ArrayBuffer(Ref(__iruid_10708,str)),int32),I32(76)),Apply(+,ArrayBuffer(ApplyIR([*:*],ArrayBuffer(Ref(__iruid_10708,str), I32(0), I32(73))), Str(...)),str),Ref(__iruid_10708,str)))), (variant_qc.n_called,Let(__iruid_10709,If(IsNA(Ref(__iruid_10649,int64)),Str(NA),Apply(str,ArrayBuffer(Ref(__iruid_10649,int64)),str)),If(ApplyComparisonOp(GT(int32,int32),Apply(length,ArrayBuffer(Ref(__iruid_10709,str)),int32),I32(76)),Apply(+,ArrayBuffer(ApplyIR([*:*],ArrayBuffer(Ref(__iruid_10709,str), I32(0), I32(73))), Str(...)),str),Ref(__iruid_10709,str)))), (variant_qc.n_not_called,Let(__iruid_10710,If(IsNA(Ref(__iruid_10648,int64)),Str(NA),Apply(str,ArrayBuffer(Ref(__iruid_10648,int64)),str)),If(ApplyComparisonOp(GT(int32,int32),Apply(length,ArrayBuffer(Ref(__iruid_10710,str)),int32),I32(76)),Apply(+,ArrayBuffer(ApplyIR([*:*],ArrayBuffer(Ref(__iruid_10710,str), I32(0), I32(73))), Str(...)),str),Ref(__iruid_10710,str)))), (variant_qc.n_filtered,Let(__iruid_10711,If(IsNA(Ref(__iruid_10647,int64)),Str(NA),Apply(str,ArrayBuffer(Ref(__iruid_10647,int64)),str)),If(ApplyComparisonOp(GT(int32,int32),Apply(length,ArrayBuffer(Ref(__iruid_10711,str)),int32),I32(76)),Apply(+,ArrayBuffer(ApplyIR([*:*],ArrayBuffer(Ref(__iruid_10711,str), I32(0), I32(73))), Str(...)),str),Ref(__iruid_10711,str)))), (variant_qc.n_het,Let(__iruid_10712,If(IsNA(Ref(__iruid_10646,int64)),Str(NA),Apply(str,ArrayBuffer(Ref(__iruid_10646,int64)),str)),If(ApplyComparisonOp(GT(int32,int32),Apply(length,ArrayBuffer(Ref(__iruid_10712,str)),int32),I32(76)),Apply(+,ArrayBuffer(ApplyIR([*:*],ArrayBuffer(Ref(__iruid_10712,str), I32(0), I32(73))), Str(...)),str),Ref(__iruid_10712,str)))), (variant_qc.n_non_ref,Let(__iruid_10713,If(IsNA(Ref(__iruid_10645,int64)),Str(NA),Apply(str,ArrayBuffer(Ref(__iruid_10645,int64)),str)),If(ApplyComparisonOp(GT(int32,int32),Apply(length,ArrayBuffer(Ref(__iruid_10713,str)),int32),I32(76)),Apply(+,ArrayBuffer(ApplyIR([*:*],ArrayBuffer(Ref(__iruid_10713,str), I32(0), I32(73))), Str(...)),str),Ref(__iruid_10713,str)))), (variant_qc.het_freq_hwe,Let(__iruid_10714,If(IsNA(Ref(__iruid_10644,float64)),Str(NA),Apply(format,ArrayBuffer(Str(%.2e), MakeTuple(ArraySeq((0,Ref(__iruid_10644,float64))))),str)),If(ApplyComparisonOp(GT(int32,int32),Apply(length,ArrayBuffer(Ref(__iruid_10714,str)),int32),I32(76)),Apply(+,ArrayBuffer(ApplyIR([*:*],ArrayBuffer(Ref(__iruid_10714,str), I32(0), I32(73))), Str(...)),str),Ref(__iruid_10714,str)))), (variant_qc.p_value_hwe,Let(__iruid_10715,If(IsNA(Ref(__iruid_10643,float64)),Str(NA),Apply(format,ArrayBuffer(Str(%.2e), MakeTuple(ArraySeq((0,Ref(__iruid_10643,float64))))),str)),If(ApplyComparisonOp(GT(int32,int32),Apply(length,ArrayBuffer(Ref(__iruid_10715,str)),int32),I32(76)),Apply(+,ArrayBuffer(ApplyIR([*:*],ArrayBuffer(Ref(__iruid_10715,str), I32(0), I32(73))), Str(...)),str),Ref(__iruid_10715,str))))),None)))))))))))))))))))))))))))))))))))))) 2019-11-14 20:58:31 root: INFO: instruction count: 3: is/hail/codegen/generated/C_etypeDecode_15. 2019-11-14 20:58:31 root: INFO: instruction count: 7: is/hail/codegen/generated/C_etypeDecode_15.apply 2019-11-14 20:58:31 root: INFO: instruction count: 14: is/hail/codegen/generated/C_etypeDecode_15.m0_DECODE_o_struct_of_END_TO_o_tuple_of_END 2019-11-14 20:58:32 ContextCleaner: INFO: Cleaned accumulator 27 2019-11-14 20:58:32 ContextCleaner: INFO: Cleaned accumulator 43 2019-11-14 20:58:32 ContextCleaner: INFO: Cleaned accumulator 46 2019-11-14 20:58:32 ContextCleaner: INFO: Cleaned accumulator 30 2019-11-14 20:58:32 ContextCleaner: INFO: Cleaned accumulator 38 2019-11-14 20:58:32 ContextCleaner: INFO: Cleaned accumulator 47 2019-11-14 20:58:32 ContextCleaner: INFO: Cleaned accumulator 36 2019-11-14 20:58:32 ContextCleaner: INFO: Cleaned accumulator 49 2019-11-14 20:58:32 ContextCleaner: INFO: Cleaned accumulator 50 2019-11-14 20:58:32 ContextCleaner: INFO: Cleaned accumulator 37 2019-11-14 20:58:32 ContextCleaner: INFO: Cleaned accumulator 44 2019-11-14 20:58:32 BlockManagerInfo: INFO: Removed broadcast_6_piece0 on kc1-m.c.maclab-ukbb.internal:33975 in memory (size: 153.2 KB, free: 21.7 GB) 2019-11-14 20:58:32 BlockManagerInfo: INFO: Removed broadcast_6_piece0 on kc1-w-0.c.maclab-ukbb.internal:41051 in memory (size: 153.2 KB, free: 9.5 GB) 2019-11-14 20:58:32 ContextCleaner: INFO: Cleaned accumulator 31 2019-11-14 20:58:32 ContextCleaner: INFO: Cleaned accumulator 28 2019-11-14 20:58:32 ContextCleaner: INFO: Cleaned accumulator 32 2019-11-14 20:58:32 ContextCleaner: INFO: Cleaned accumulator 39 2019-11-14 20:58:32 ContextCleaner: INFO: Cleaned accumulator 29 2019-11-14 20:58:32 ContextCleaner: INFO: Cleaned accumulator 33 2019-11-14 20:58:32 ContextCleaner: INFO: Cleaned accumulator 34 2019-11-14 20:58:32 ContextCleaner: INFO: Cleaned accumulator 45 2019-11-14 20:58:32 ContextCleaner: INFO: Cleaned accumulator 40 2019-11-14 20:58:32 ContextCleaner: INFO: Cleaned accumulator 41 2019-11-14 20:58:32 ContextCleaner: INFO: Cleaned accumulator 42 2019-11-14 20:58:32 ContextCleaner: INFO: Cleaned accumulator 26 2019-11-14 20:58:32 ContextCleaner: INFO: Cleaned accumulator 48 2019-11-14 20:58:32 ContextCleaner: INFO: Cleaned accumulator 35 2019-11-14 20:58:32 root: INFO: instruction count: 3: is/hail/codegen/generated/C_etypeDecode_16. 2019-11-14 20:58:32 root: INFO: instruction count: 7: is/hail/codegen/generated/C_etypeDecode_16.apply 2019-11-14 20:58:32 root: INFO: instruction count: 27: is/hail/codegen/generated/C_etypeDecode_16.m0_DECODE_o_struct_of_o_struct_of_r_binaryANDr_int32ENDANDo_array_of_o_binaryANDo_binaryANDo_float64ANDo_array_of_o_binaryANDo_struct_of_o_array_of_o_int32ANDo_array_of_o_float64ANDo_int32ANDo_float64ANDo_boolANDo_int32ANDo_float64ANDo_float64ANDo_float64ANDo_int32ANDo_float64ANDo_float64ANDo_float64ANDo_int32ENDANDo_int32ANDo_boolEND_TO_o_tuple_of_o_locusANDo_array_of_o_stringANDo_stringANDo_float64ANDo_set_of_o_stringANDo_tuple_of_o_array_of_o_int32ANDo_array_of_o_float64ANDo_int32ANDo_float64ANDo_boolANDo_int32ANDo_float64ANDo_float64ANDo_float64ANDo_int32ANDo_float64ANDo_float64ANDo_float64ANDo_int32ENDANDo_int32ANDo_boolEND 2019-11-14 20:58:32 root: INFO: instruction count: 203: is/hail/codegen/generated/C_etypeDecode_16.m1_read_fields_group_0 2019-11-14 20:58:32 root: INFO: instruction count: 14: is/hail/codegen/generated/C_etypeDecode_16.m2_INPLACE_DECODE_o_struct_of_r_binaryANDr_int32END_TO_o_tuple_of_r_binaryANDr_int32END 2019-11-14 20:58:32 root: INFO: instruction count: 17: is/hail/codegen/generated/C_etypeDecode_16.m3_read_fields_group_0 2019-11-14 20:58:32 root: INFO: instruction count: 29: is/hail/codegen/generated/C_etypeDecode_16.m4_INPLACE_DECODE_r_binary_TO_r_binary 2019-11-14 20:58:32 root: INFO: instruction count: 8: is/hail/codegen/generated/C_etypeDecode_16.m5_INPLACE_DECODE_r_int32_TO_r_int32 2019-11-14 20:58:32 root: INFO: instruction count: 99: is/hail/codegen/generated/C_etypeDecode_16.m6_INPLACE_DECODE_o_array_of_o_binary_TO_o_array_of_o_binary 2019-11-14 20:58:32 root: INFO: instruction count: 29: is/hail/codegen/generated/C_etypeDecode_16.m7_INPLACE_DECODE_o_binary_TO_o_binary 2019-11-14 20:58:32 root: INFO: instruction count: 8: is/hail/codegen/generated/C_etypeDecode_16.m8_INPLACE_DECODE_o_float64_TO_o_float64 2019-11-14 20:58:32 root: INFO: instruction count: 28: is/hail/codegen/generated/C_etypeDecode_16.m9_INPLACE_DECODE_o_struct_of_o_array_of_o_int32ANDo_array_of_o_float64ANDo_int32ANDo_float64ANDo_boolANDo_int32ANDo_float64ANDo_float64ANDo_float64ANDo_int32ANDo_float64ANDo_float64ANDo_float64ANDo_int32END_TO_o_tuple_of_o_array_of_o_int32ANDo_array_of_o_float64ANDo_int32ANDo_float64ANDo_boolANDo_int32ANDo_float64ANDo_float64ANDo_float64ANDo_int32ANDo_float64ANDo_float64ANDo_float64ANDo_int32END 2019-11-14 20:58:32 root: INFO: instruction count: 353: is/hail/codegen/generated/C_etypeDecode_16.m10_read_fields_group_0 2019-11-14 20:58:32 root: INFO: instruction count: 99: is/hail/codegen/generated/C_etypeDecode_16.m11_INPLACE_DECODE_o_array_of_o_int32_TO_o_array_of_o_int32 2019-11-14 20:58:32 root: INFO: instruction count: 8: is/hail/codegen/generated/C_etypeDecode_16.m12_INPLACE_DECODE_o_int32_TO_o_int32 2019-11-14 20:58:32 root: INFO: instruction count: 99: is/hail/codegen/generated/C_etypeDecode_16.m13_INPLACE_DECODE_o_array_of_o_float64_TO_o_array_of_o_float64 2019-11-14 20:58:32 root: INFO: instruction count: 8: is/hail/codegen/generated/C_etypeDecode_16.m14_INPLACE_DECODE_o_bool_TO_o_bool 2019-11-14 20:58:32 root: INFO: instruction count: 3: is/hail/codegen/generated/C_etypeDecode_17. 2019-11-14 20:58:32 root: INFO: instruction count: 7: is/hail/codegen/generated/C_etypeDecode_17.apply 2019-11-14 20:58:32 root: INFO: instruction count: 27: is/hail/codegen/generated/C_etypeDecode_17.m0_DECODE_o_struct_of_o_array_of_o_struct_of_o_int32ANDo_boolENDEND_TO_o_tuple_of_o_array_of_o_tuple_of_o_callENDEND 2019-11-14 20:58:32 root: INFO: instruction count: 28: is/hail/codegen/generated/C_etypeDecode_17.m1_read_fields_group_0 2019-11-14 20:58:32 root: INFO: instruction count: 99: is/hail/codegen/generated/C_etypeDecode_17.m2_INPLACE_DECODE_o_array_of_o_struct_of_o_int32ANDo_boolEND_TO_o_array_of_o_tuple_of_o_int32END 2019-11-14 20:58:32 root: INFO: instruction count: 21: is/hail/codegen/generated/C_etypeDecode_17.m3_INPLACE_DECODE_o_struct_of_o_int32ANDo_boolEND_TO_o_tuple_of_o_int32END 2019-11-14 20:58:32 root: INFO: instruction count: 42: is/hail/codegen/generated/C_etypeDecode_17.m4_read_fields_group_0 2019-11-14 20:58:32 root: INFO: instruction count: 8: is/hail/codegen/generated/C_etypeDecode_17.m5_INPLACE_DECODE_o_int32_TO_o_int32 2019-11-14 20:58:32 root: INFO: instruction count: 5: is/hail/codegen/generated/C_etypeDecode_17.m6_SKIP_o_bool 2019-11-14 20:58:32 root: INFO: optimize (Compile): before: IR size 4: (InsertFields (Ref left) None (`the entries! [877f12a8827e18f61222c6c8c5fb04a8]` (GetField `the entries! [877f12a8827e18f61222c6c8c5fb04a8]` (Ref right)))) 2019-11-14 20:58:32 root: INFO: optimize (Compile): after: IR size 4: (InsertFields (Ref left) None (`the entries! [877f12a8827e18f61222c6c8c5fb04a8]` (GetField `the entries! [877f12a8827e18f61222c6c8c5fb04a8]` (Ref right)))) 2019-11-14 20:58:32 root: INFO: instruction count: 3: is/hail/codegen/generated/C18. 2019-11-14 20:58:32 root: INFO: instruction count: 53: is/hail/codegen/generated/C18.apply 2019-11-14 20:58:32 root: INFO: instruction count: 22: is/hail/codegen/generated/C18.apply 2019-11-14 20:58:32 root: INFO: instruction count: 298: is/hail/codegen/generated/C18.m1_method 2019-11-14 20:58:32 root: INFO: instruction count: 14: is/hail/codegen/generated/C18.setPartitionIndex 2019-11-14 20:58:32 root: INFO: instruction count: 6: is/hail/codegen/generated/C18.addPartitionRegion 2019-11-14 20:58:32 root: INFO: couldn't lower TableMapRows: is.hail.expr.ir.agg.UnsupportedExtraction: array agg 2019-11-14 20:58:32 root: INFO: initop (Begin) 2019-11-14 20:58:32 root: INFO: seqop (Begin) 2019-11-14 20:58:32 root: INFO: optimize (Compile): before: IR size 1: (Begin) 2019-11-14 20:58:32 root: INFO: optimize (Compile): after: IR size 1: (Begin) 2019-11-14 20:58:32 root: INFO: instruction count: 3: is/hail/codegen/generated/C19. 2019-11-14 20:58:32 root: INFO: instruction count: 15: is/hail/codegen/generated/C19.apply 2019-11-14 20:58:32 root: INFO: instruction count: 22: is/hail/codegen/generated/C19.apply 2019-11-14 20:58:32 root: INFO: instruction count: 14: is/hail/codegen/generated/C19.setPartitionIndex 2019-11-14 20:58:32 root: INFO: instruction count: 6: is/hail/codegen/generated/C19.addPartitionRegion 2019-11-14 20:58:32 root: INFO: optimize (Compile): before: IR size 131: (ArrayAgg __iruid_10626 (ArrayFilter __iruid_10627 (ArrayRange (I32 0) (ArrayLen (GetField `the entries! [877f12a8827e18f61222c6c8c5fb04a8]` (Ref row))) (I32 1)) (ApplyUnaryPrimOp Bang (IsNA (ArrayRef (GetField `the entries! [877f12a8827e18f61222c6c8c5fb04a8]` (Ref row)) (Ref __iruid_10627))))) (AggLet __iruid_10628 False (GetField GT (ArrayRef (GetField `the entries! [877f12a8827e18f61222c6c8c5fb04a8]` (Ref row)) (Ref __iruid_10626))) (InsertFields (SelectFields (locus alleles rsid qual filters info a_index was_split) (Ref row)) None (variant_qc (Let __iruid_10629 (MakeStruct (n_called (ApplyAggOp Sum () None ( (Apply toInt64 Int64 (ApplyUnaryPrimOp Bang (IsNA (Ref __iruid_10628))))))) (n_not_called (ApplyAggOp Sum () None ( (Apply toInt64 Int64 (IsNA (Ref __iruid_10628)))))) (n_filtered (ApplyBinaryPrimOp Subtract (I64 100221) (ApplyAggOp Count () None ()))) (call_stats (ApplyAggOp CallStats () ( (ArrayLen (GetField alleles (Ref row)))) ( (Ref __iruid_10628))))) (Let __iruid_10630 (GetField call_stats (Ref __iruid_10629)) (Let __iruid_10631 (GetField homozygote_count (Ref __iruid_10630)) (Let __iruid_10632 (GetField n_called (Ref __iruid_10629)) (Let __iruid_10633 (GetField n_not_called (Ref __iruid_10629)) (Let __iruid_10634 (GetField n_filtered (Ref __iruid_10629)) (Let __iruid_10635 (If (ApplyComparisonOp EQ (ArrayLen (GetField alleles (Ref row))) (I32 2)) (Let __iruid_10636 (GetField call_stats (Ref __iruid_10629)) (Let __iruid_10637 (GetField homozygote_count (Ref __iruid_10636)) (Apply hardy_weinberg_test Struct{het_freq_hwe:Float64,p_value:Float64} (ArrayRef (Ref __iruid_10637) (I32 0)) (ApplyBinaryPrimOp Subtract (ArrayRef (GetField AC (Ref __iruid_10636)) (I32 1)) (ApplyBinaryPrimOp Multiply (I32 2) (ArrayRef (Ref __iruid_10637) (I32 1)))) (ArrayRef (Ref __iruid_10637) (I32 1))))) (NA Struct{het_freq_hwe:Float64,p_value:Float64})) (MakeStruct (AC (GetField AC (Ref __iruid_10630))) (AF (GetField AF (Ref __iruid_10630))) (AN (GetField AN (Ref __iruid_10630))) (homozygote_count (Ref __iruid_10631)) (call_rate (ApplyBinaryPrimOp FloatingPointDivide (Cast Float64 (Ref __iruid_10632)) (Cast Float64 (ApplyBinaryPrimOp Add (ApplyBinaryPrimOp Add (Ref __iruid_10632) (Ref __iruid_10633)) (Ref __iruid_10634))))) (n_called (Ref __iruid_10632)) (n_not_called (Ref __iruid_10633)) (n_filtered (Ref __iruid_10634)) (n_het (ApplyBinaryPrimOp Subtract (Ref __iruid_10632) (Cast Int64 (ArrayFold __iruid_10638 __iruid_10639 (ArrayFilter __iruid_10640 (Ref __iruid_10631) (ApplyUnaryPrimOp Bang (IsNA (Ref __iruid_10640)))) (I32 0) (ApplyBinaryPrimOp Add (Ref __iruid_10638) (Ref __iruid_10639)))))) (n_non_ref (ApplyBinaryPrimOp Subtract (Ref __iruid_10632) (Cast Int64 (ArrayRef (Ref __iruid_10631) (I32 0))))) (het_freq_hwe (GetField het_freq_hwe (Ref __iruid_10635))) (p_value_hwe (GetField p_value (Ref __iruid_10635))))))))))))))) 2019-11-14 20:58:32 root: INFO: optimize (Compile): after: IR size 131: (ArrayAgg __iruid_11341 (ArrayFilter __iruid_11342 (ArrayRange (I32 0) (ArrayLen (GetField `the entries! [877f12a8827e18f61222c6c8c5fb04a8]` (Ref row))) (I32 1)) (ApplyUnaryPrimOp Bang (IsNA (ArrayRef (GetField `the entries! [877f12a8827e18f61222c6c8c5fb04a8]` (Ref row)) (Ref __iruid_11342))))) (AggLet __iruid_11343 False (GetField GT (ArrayRef (GetField `the entries! [877f12a8827e18f61222c6c8c5fb04a8]` (Ref row)) (Ref __iruid_11341))) (InsertFields (SelectFields (locus alleles rsid qual filters info a_index was_split) (Ref row)) None (variant_qc (Let __iruid_11344 (MakeStruct (n_called (ApplyAggOp Sum () None ( (Apply toInt64 Int64 (ApplyUnaryPrimOp Bang (IsNA (Ref __iruid_11343))))))) (n_not_called (ApplyAggOp Sum () None ( (Apply toInt64 Int64 (IsNA (Ref __iruid_11343)))))) (n_filtered (ApplyBinaryPrimOp Subtract (I64 100221) (ApplyAggOp Count () None ()))) (call_stats (ApplyAggOp CallStats () ( (ArrayLen (GetField alleles (Ref row)))) ( (Ref __iruid_11343))))) (Let __iruid_11345 (GetField call_stats (Ref __iruid_11344)) (Let __iruid_11346 (GetField homozygote_count (Ref __iruid_11345)) (Let __iruid_11347 (GetField n_called (Ref __iruid_11344)) (Let __iruid_11348 (GetField n_not_called (Ref __iruid_11344)) (Let __iruid_11349 (GetField n_filtered (Ref __iruid_11344)) (Let __iruid_11350 (If (ApplyComparisonOp EQ (ArrayLen (GetField alleles (Ref row))) (I32 2)) (Let __iruid_11351 (GetField call_stats (Ref __iruid_11344)) (Let __iruid_11352 (GetField homozygote_count (Ref __iruid_11351)) (Apply hardy_weinberg_test Struct{het_freq_hwe:Float64,p_value:Float64} (ArrayRef (Ref __iruid_11352) (I32 0)) (ApplyBinaryPrimOp Subtract (ArrayRef (GetField AC (Ref __iruid_11351)) (I32 1)) (ApplyBinaryPrimOp Multiply (I32 2) (ArrayRef (Ref __iruid_11352) (I32 1)))) (ArrayRef (Ref __iruid_11352) (I32 1))))) (NA Struct{het_freq_hwe:Float64,p_value:Float64})) (MakeStruct (AC (GetField AC (Ref __iruid_11345))) (AF (GetField AF (Ref __iruid_11345))) (AN (GetField AN (Ref __iruid_11345))) (homozygote_count (Ref __iruid_11346)) (call_rate (ApplyBinaryPrimOp FloatingPointDivide (Cast Float64 (Ref __iruid_11347)) (Cast Float64 (ApplyBinaryPrimOp Add (ApplyBinaryPrimOp Add (Ref __iruid_11347) (Ref __iruid_11348)) (Ref __iruid_11349))))) (n_called (Ref __iruid_11347)) (n_not_called (Ref __iruid_11348)) (n_filtered (Ref __iruid_11349)) (n_het (ApplyBinaryPrimOp Subtract (Ref __iruid_11347) (Cast Int64 (ArrayFold __iruid_11353 __iruid_11354 (ArrayFilter __iruid_11355 (Ref __iruid_11346) (ApplyUnaryPrimOp Bang (IsNA (Ref __iruid_11355)))) (I32 0) (ApplyBinaryPrimOp Add (Ref __iruid_11353) (Ref __iruid_11354)))))) (n_non_ref (ApplyBinaryPrimOp Subtract (Ref __iruid_11347) (Cast Int64 (ArrayRef (Ref __iruid_11346) (I32 0))))) (het_freq_hwe (GetField het_freq_hwe (Ref __iruid_11350))) (p_value_hwe (GetField p_value (Ref __iruid_11350))))))))))))))) 2019-11-14 20:58:32 root: INFO: optimize (ArrayAgg/agg.Extract/init): before: IR size 8: (Begin (InitOp2 0 (Sum () (Int64) None) ()) (InitOp2 1 (Sum () (Int64) None) ()) (InitOp2 2 (Count () () None) ()) (InitOp2 3 (CallStats (Int32) (Call) None) ( (ArrayLen (GetField alleles (In Struct{locus:Locus(GRCh38),alleles:Array[String],rsid:String,qual:Float64,filters:Set[String],info:Struct{AC:Array[Int32],AF:Array[Float64],AN:Int32,BaseQRankSum:Float64,DB:Boolean,DP:Int32,FS:Float64,MQ:Float64,MQRankSum:Float64,MQ_DP:Int32,QD:Float64,ReadPosRankSum:Float64,SOR:Float64,VarDP:Int32},a_index:Int32,was_split:Boolean,`the entries! [877f12a8827e18f61222c6c8c5fb04a8]`:Array[Struct{GT:Call}]} 1)))))) 2019-11-14 20:58:32 root: INFO: optimize (ArrayAgg/agg.Extract/init): after: IR size 8: (Begin (InitOp2 0 (Sum () (Int64) None) ()) (InitOp2 1 (Sum () (Int64) None) ()) (InitOp2 2 (Count () () None) ()) (InitOp2 3 (CallStats (Int32) (Call) None) ( (ArrayLen (GetField alleles (In Struct{locus:Locus(GRCh38),alleles:Array[String],rsid:String,qual:Float64,filters:Set[String],info:Struct{AC:Array[Int32],AF:Array[Float64],AN:Int32,BaseQRankSum:Float64,DB:Boolean,DP:Int32,FS:Float64,MQ:Float64,MQRankSum:Float64,MQ_DP:Int32,QD:Float64,ReadPosRankSum:Float64,SOR:Float64,VarDP:Int32},a_index:Int32,was_split:Boolean,`the entries! [877f12a8827e18f61222c6c8c5fb04a8]`:Array[Struct{GT:Call}]} 1)))))) 2019-11-14 20:58:32 root: INFO: optimize (ArrayAgg/agg.Extract/perElt): before: IR size 19: (Let __iruid_11343 (GetField GT (ArrayRef (GetField `the entries! [877f12a8827e18f61222c6c8c5fb04a8]` (In Struct{locus:Locus(GRCh38),alleles:Array[String],rsid:String,qual:Float64,filters:Set[String],info:Struct{AC:Array[Int32],AF:Array[Float64],AN:Int32,BaseQRankSum:Float64,DB:Boolean,DP:Int32,FS:Float64,MQ:Float64,MQRankSum:Float64,MQ_DP:Int32,QD:Float64,ReadPosRankSum:Float64,SOR:Float64,VarDP:Int32},a_index:Int32,was_split:Boolean,`the entries! [877f12a8827e18f61222c6c8c5fb04a8]`:Array[Struct{GT:Call}]} 1)) (Ref __iruid_11341))) (Begin (SeqOp2 0 (Sum () (Int64) None) ( (Apply toInt64 Int64 (ApplyUnaryPrimOp Bang (IsNA (Ref __iruid_11343)))))) (SeqOp2 1 (Sum () (Int64) None) ( (Apply toInt64 Int64 (IsNA (Ref __iruid_11343))))) (SeqOp2 2 (Count () () None) ()) (SeqOp2 3 (CallStats (Int32) (Call) None) ( (Ref __iruid_11343))))) 2019-11-14 20:58:32 root: INFO: optimize (ArrayAgg/agg.Extract/perElt): after: IR size 19: (Let __iruid_11359 (GetField GT (ArrayRef (GetField `the entries! [877f12a8827e18f61222c6c8c5fb04a8]` (In Struct{locus:Locus(GRCh38),alleles:Array[String],rsid:String,qual:Float64,filters:Set[String],info:Struct{AC:Array[Int32],AF:Array[Float64],AN:Int32,BaseQRankSum:Float64,DB:Boolean,DP:Int32,FS:Float64,MQ:Float64,MQRankSum:Float64,MQ_DP:Int32,QD:Float64,ReadPosRankSum:Float64,SOR:Float64,VarDP:Int32},a_index:Int32,was_split:Boolean,`the entries! [877f12a8827e18f61222c6c8c5fb04a8]`:Array[Struct{GT:Call}]} 1)) (Ref __iruid_11341))) (Begin (SeqOp2 0 (Sum () (Int64) None) ( (Apply toInt64 Int64 (ApplyUnaryPrimOp Bang (IsNA (Ref __iruid_11359)))))) (SeqOp2 1 (Sum () (Int64) None) ( (Apply toInt64 Int64 (IsNA (Ref __iruid_11359))))) (SeqOp2 2 (Count () () None) ()) (SeqOp2 3 (CallStats (Int32) (Call) None) ( (Ref __iruid_11359))))) 2019-11-14 20:58:32 root: INFO: optimize (ArrayAgg/agg.Extract/postAggIR): before: IR size 106: (Let __iruid_11356 (ResultOp2 0 ( (Sum () (Int64) None) (Sum () (Int64) None) (Count () () None) (CallStats (Int32) (Call) None))) (InsertFields (SelectFields (locus alleles rsid qual filters info a_index was_split) (In Struct{locus:Locus(GRCh38),alleles:Array[String],rsid:String,qual:Float64,filters:Set[String],info:Struct{AC:Array[Int32],AF:Array[Float64],AN:Int32,BaseQRankSum:Float64,DB:Boolean,DP:Int32,FS:Float64,MQ:Float64,MQRankSum:Float64,MQ_DP:Int32,QD:Float64,ReadPosRankSum:Float64,SOR:Float64,VarDP:Int32},a_index:Int32,was_split:Boolean,`the entries! [877f12a8827e18f61222c6c8c5fb04a8]`:Array[Struct{GT:Call}]} 1)) None (variant_qc (Let __iruid_11344 (MakeStruct (n_called (GetTupleElement 0 (Ref __iruid_11356))) (n_not_called (GetTupleElement 1 (Ref __iruid_11356))) (n_filtered (ApplyBinaryPrimOp Subtract (I64 100221) (GetTupleElement 2 (Ref __iruid_11356)))) (call_stats (GetTupleElement 3 (Ref __iruid_11356)))) (Let __iruid_11345 (GetField call_stats (Ref __iruid_11344)) (Let __iruid_11346 (GetField homozygote_count (Ref __iruid_11345)) (Let __iruid_11347 (GetField n_called (Ref __iruid_11344)) (Let __iruid_11348 (GetField n_not_called (Ref __iruid_11344)) (Let __iruid_11349 (GetField n_filtered (Ref __iruid_11344)) (Let __iruid_11350 (If (ApplyComparisonOp EQ (ArrayLen (GetField alleles (In Struct{locus:Locus(GRCh38),alleles:Array[String],rsid:String,qual:Float64,filters:Set[String],info:Struct{AC:Array[Int32],AF:Array[Float64],AN:Int32,BaseQRankSum:Float64,DB:Boolean,DP:Int32,FS:Float64,MQ:Float64,MQRankSum:Float64,MQ_DP:Int32,QD:Float64,ReadPosRankSum:Float64,SOR:Float64,VarDP:Int32},a_index:Int32,was_split:Boolean,`the entries! [877f12a8827e18f61222c6c8c5fb04a8]`:Array[Struct{GT:Call}]} 1))) (I32 2)) (Let __iruid_11351 (GetField call_stats (Ref __iruid_11344)) (Let __iruid_11352 (GetField homozygote_count (Ref __iruid_11351)) (Apply hardy_weinberg_test Struct{het_freq_hwe:Float64,p_value:Float64} (ArrayRef (Ref __iruid_11352) (I32 0)) (ApplyBinaryPrimOp Subtract (ArrayRef (GetField AC (Ref __iruid_11351)) (I32 1)) (ApplyBinaryPrimOp Multiply (I32 2) (ArrayRef (Ref __iruid_11352) (I32 1)))) (ArrayRef (Ref __iruid_11352) (I32 1))))) (NA Struct{het_freq_hwe:Float64,p_value:Float64})) (MakeStruct (AC (GetField AC (Ref __iruid_11345))) (AF (GetField AF (Ref __iruid_11345))) (AN (GetField AN (Ref __iruid_11345))) (homozygote_count (Ref __iruid_11346)) (call_rate (ApplyBinaryPrimOp FloatingPointDivide (Cast Float64 (Ref __iruid_11347)) (Cast Float64 (ApplyBinaryPrimOp Add (ApplyBinaryPrimOp Add (Ref __iruid_11347) (Ref __iruid_11348)) (Ref __iruid_11349))))) (n_called (Ref __iruid_11347)) (n_not_called (Ref __iruid_11348)) (n_filtered (Ref __iruid_11349)) (n_het (ApplyBinaryPrimOp Subtract (Ref __iruid_11347) (Cast Int64 (ArrayFold __iruid_11353 __iruid_11354 (ArrayFilter __iruid_11355 (Ref __iruid_11346) (ApplyUnaryPrimOp Bang (IsNA (Ref __iruid_11355)))) (I32 0) (ApplyBinaryPrimOp Add (Ref __iruid_11353) (Ref __iruid_11354)))))) (n_non_ref (ApplyBinaryPrimOp Subtract (Ref __iruid_11347) (Cast Int64 (ArrayRef (Ref __iruid_11346) (I32 0))))) (het_freq_hwe (GetField het_freq_hwe (Ref __iruid_11350))) (p_value_hwe (GetField p_value (Ref __iruid_11350)))))))))))))) 2019-11-14 20:58:32 root: INFO: optimize (ArrayAgg/agg.Extract/postAggIR): after: IR size 106: (Let __iruid_11386 (ResultOp2 0 ( (Sum () (Int64) None) (Sum () (Int64) None) (Count () () None) (CallStats (Int32) (Call) None))) (InsertFields (SelectFields (locus alleles rsid qual filters info a_index was_split) (In Struct{locus:Locus(GRCh38),alleles:Array[String],rsid:String,qual:Float64,filters:Set[String],info:Struct{AC:Array[Int32],AF:Array[Float64],AN:Int32,BaseQRankSum:Float64,DB:Boolean,DP:Int32,FS:Float64,MQ:Float64,MQRankSum:Float64,MQ_DP:Int32,QD:Float64,ReadPosRankSum:Float64,SOR:Float64,VarDP:Int32},a_index:Int32,was_split:Boolean,`the entries! [877f12a8827e18f61222c6c8c5fb04a8]`:Array[Struct{GT:Call}]} 1)) None (variant_qc (Let __iruid_11387 (MakeStruct (n_called (GetTupleElement 0 (Ref __iruid_11386))) (n_not_called (GetTupleElement 1 (Ref __iruid_11386))) (n_filtered (ApplyBinaryPrimOp Subtract (I64 100221) (GetTupleElement 2 (Ref __iruid_11386)))) (call_stats (GetTupleElement 3 (Ref __iruid_11386)))) (Let __iruid_11388 (GetField call_stats (Ref __iruid_11387)) (Let __iruid_11389 (GetField homozygote_count (Ref __iruid_11388)) (Let __iruid_11390 (GetField n_called (Ref __iruid_11387)) (Let __iruid_11391 (GetField n_not_called (Ref __iruid_11387)) (Let __iruid_11392 (GetField n_filtered (Ref __iruid_11387)) (Let __iruid_11393 (If (ApplyComparisonOp EQ (ArrayLen (GetField alleles (In Struct{locus:Locus(GRCh38),alleles:Array[String],rsid:String,qual:Float64,filters:Set[String],info:Struct{AC:Array[Int32],AF:Array[Float64],AN:Int32,BaseQRankSum:Float64,DB:Boolean,DP:Int32,FS:Float64,MQ:Float64,MQRankSum:Float64,MQ_DP:Int32,QD:Float64,ReadPosRankSum:Float64,SOR:Float64,VarDP:Int32},a_index:Int32,was_split:Boolean,`the entries! [877f12a8827e18f61222c6c8c5fb04a8]`:Array[Struct{GT:Call}]} 1))) (I32 2)) (Let __iruid_11394 (GetField call_stats (Ref __iruid_11387)) (Let __iruid_11395 (GetField homozygote_count (Ref __iruid_11394)) (Apply hardy_weinberg_test Struct{het_freq_hwe:Float64,p_value:Float64} (ArrayRef (Ref __iruid_11395) (I32 0)) (ApplyBinaryPrimOp Subtract (ArrayRef (GetField AC (Ref __iruid_11394)) (I32 1)) (ApplyBinaryPrimOp Multiply (I32 2) (ArrayRef (Ref __iruid_11395) (I32 1)))) (ArrayRef (Ref __iruid_11395) (I32 1))))) (NA Struct{het_freq_hwe:Float64,p_value:Float64})) (MakeStruct (AC (GetField AC (Ref __iruid_11388))) (AF (GetField AF (Ref __iruid_11388))) (AN (GetField AN (Ref __iruid_11388))) (homozygote_count (Ref __iruid_11389)) (call_rate (ApplyBinaryPrimOp FloatingPointDivide (Cast Float64 (Ref __iruid_11390)) (Cast Float64 (ApplyBinaryPrimOp Add (ApplyBinaryPrimOp Add (Ref __iruid_11390) (Ref __iruid_11391)) (Ref __iruid_11392))))) (n_called (Ref __iruid_11390)) (n_not_called (Ref __iruid_11391)) (n_filtered (Ref __iruid_11392)) (n_het (ApplyBinaryPrimOp Subtract (Ref __iruid_11390) (Cast Int64 (ArrayFold __iruid_11396 __iruid_11397 (ArrayFilter __iruid_11398 (Ref __iruid_11389) (ApplyUnaryPrimOp Bang (IsNA (Ref __iruid_11398)))) (I32 0) (ApplyBinaryPrimOp Add (Ref __iruid_11396) (Ref __iruid_11397)))))) (n_non_ref (ApplyBinaryPrimOp Subtract (Ref __iruid_11390) (Cast Int64 (ArrayRef (Ref __iruid_11389) (I32 0))))) (het_freq_hwe (GetField het_freq_hwe (Ref __iruid_11393))) (p_value_hwe (GetField p_value (Ref __iruid_11393)))))))))))))) 2019-11-14 20:58:32 root: INFO: instruction count: 3: is/hail/codegen/generated/C20. 2019-11-14 20:58:32 root: INFO: instruction count: 686: is/hail/codegen/generated/C20.apply 2019-11-14 20:58:32 root: INFO: instruction count: 28: is/hail/codegen/generated/C20.apply 2019-11-14 20:58:32 root: INFO: instruction count: 17: is/hail/codegen/generated/C20.m1_create_states_group0 2019-11-14 20:58:32 root: INFO: instruction count: 7: is/hail/codegen/generated/C20.m2_new_state_group0 2019-11-14 20:58:32 root: INFO: instruction count: 185: is/hail/codegen/generated/C20.m3_method 2019-11-14 20:58:32 root: INFO: instruction count: 628: is/hail/codegen/generated/C20.m4_method 2019-11-14 20:58:32 root: INFO: instruction count: 5: is/hail/codegen/generated/C20.m5_method 2019-11-14 20:58:32 root: INFO: instruction count: 493: is/hail/codegen/generated/C20.m6_aggs_result_group0 2019-11-14 20:58:32 root: INFO: instruction count: 66: is/hail/codegen/generated/C20.m7_store_group0 2019-11-14 20:58:32 root: INFO: instruction count: 252: is/hail/codegen/generated/C20.m8_method 2019-11-14 20:58:32 root: INFO: instruction count: 1253: is/hail/codegen/generated/C20.m9_method 2019-11-14 20:58:32 root: INFO: instruction count: 194: is/hail/codegen/generated/C20.m10_method 2019-11-14 20:58:32 root: INFO: instruction count: 37: is/hail/codegen/generated/C20.m11_method 2019-11-14 20:58:32 root: INFO: instruction count: 50: is/hail/codegen/generated/C20.m12_method 2019-11-14 20:58:32 root: INFO: instruction count: 736: is/hail/codegen/generated/C20.m13_method 2019-11-14 20:58:32 root: INFO: instruction count: 14: is/hail/codegen/generated/C20.setPartitionIndex 2019-11-14 20:58:32 root: INFO: instruction count: 6: is/hail/codegen/generated/C20.addPartitionRegion 2019-11-14 20:58:32 SparkContext: INFO: Starting job: runJob at ContextRDD.scala:432 2019-11-14 20:58:32 DAGScheduler: INFO: Got job 2 (runJob at ContextRDD.scala:432) with 1 output partitions 2019-11-14 20:58:32 DAGScheduler: INFO: Final stage: ResultStage 2 (runJob at ContextRDD.scala:432) 2019-11-14 20:58:32 DAGScheduler: INFO: Parents of final stage: List() 2019-11-14 20:58:32 DAGScheduler: INFO: Missing parents: List() 2019-11-14 20:58:32 DAGScheduler: INFO: Submitting ResultStage 2 (MapPartitionsRDD[12] at mapPartitionsWithIndex at ContextRDD.scala:280), which has no missing parents 2019-11-14 20:58:32 MemoryStore: INFO: Block broadcast_8 stored as values in memory (estimated size 204.4 KB, free 21.7 GB) 2019-11-14 20:58:32 MemoryStore: INFO: Block broadcast_8_piece0 stored as bytes in memory (estimated size 77.1 KB, free 21.7 GB) 2019-11-14 20:58:32 BlockManagerInfo: INFO: Added broadcast_8_piece0 in memory on kc1-m.c.maclab-ukbb.internal:33975 (size: 77.1 KB, free: 21.7 GB) 2019-11-14 20:58:32 SparkContext: INFO: Created broadcast 8 from broadcast at DAGScheduler.scala:1161 2019-11-14 20:58:32 DAGScheduler: INFO: Submitting 1 missing tasks from ResultStage 2 (MapPartitionsRDD[12] at mapPartitionsWithIndex at ContextRDD.scala:280) (first 15 tasks are for partitions Vector(0)) 2019-11-14 20:58:32 YarnScheduler: INFO: Adding task set 2.0 with 1 tasks 2019-11-14 20:58:32 FairSchedulableBuilder: INFO: Added task set TaskSet_2.0 tasks to pool default 2019-11-14 20:58:32 TaskSetManager: INFO: Starting task 0.0 in stage 2.0 (TID 2, kc1-w-0.c.maclab-ukbb.internal, executor 2, partition 0, PROCESS_LOCAL, 7740 bytes) 2019-11-14 20:58:32 BlockManagerInfo: INFO: Added broadcast_8_piece0 in memory on kc1-w-0.c.maclab-ukbb.internal:41051 (size: 77.1 KB, free: 9.5 GB) 2019-11-14 20:58:42 TaskSetManager: INFO: Finished task 0.0 in stage 2.0 (TID 2) in 10198 ms on kc1-w-0.c.maclab-ukbb.internal (executor 2) (1/1) 2019-11-14 20:58:42 YarnScheduler: INFO: Removed TaskSet 2.0, whose tasks have all completed, from pool default 2019-11-14 20:58:42 DAGScheduler: INFO: ResultStage 2 (runJob at ContextRDD.scala:432) finished in 10.215 s 2019-11-14 20:58:42 DAGScheduler: INFO: Job 2 finished: runJob at ContextRDD.scala:432, took 10.219816 s 2019-11-14 20:58:42 root: INFO: couldn't lower TableMapRows: is.hail.expr.ir.agg.UnsupportedExtraction: no scans to extract in TableMapRows 2019-11-14 20:58:42 root: INFO: initop (Begin) 2019-11-14 20:58:42 root: INFO: seqop (Begin) 2019-11-14 20:58:42 root: INFO: optimize (Compile): before: IR size 1: (Begin) 2019-11-14 20:58:42 root: INFO: optimize (Compile): after: IR size 1: (Begin) 2019-11-14 20:58:43 root: INFO: instruction count: 3: is/hail/codegen/generated/C21. 2019-11-14 20:58:43 root: INFO: instruction count: 15: is/hail/codegen/generated/C21.apply 2019-11-14 20:58:43 root: INFO: instruction count: 22: is/hail/codegen/generated/C21.apply 2019-11-14 20:58:43 root: INFO: instruction count: 14: is/hail/codegen/generated/C21.setPartitionIndex 2019-11-14 20:58:43 root: INFO: instruction count: 6: is/hail/codegen/generated/C21.addPartitionRegion 2019-11-14 20:58:43 root: INFO: optimize (Compile): before: IR size 858: (Let __iruid_10641 (GetField variant_qc (Ref row)) (Let __iruid_10642 (GetField info (Ref row)) (Let __iruid_10643 (GetField p_value_hwe (Ref __iruid_10641)) (Let __iruid_10644 (GetField het_freq_hwe (Ref __iruid_10641)) (Let __iruid_10645 (GetField n_non_ref (Ref __iruid_10641)) (Let __iruid_10646 (GetField n_het (Ref __iruid_10641)) (Let __iruid_10647 (GetField n_filtered (Ref __iruid_10641)) (Let __iruid_10648 (GetField n_not_called (Ref __iruid_10641)) (Let __iruid_10649 (GetField n_called (Ref __iruid_10641)) (Let __iruid_10650 (GetField call_rate (Ref __iruid_10641)) (Let __iruid_10651 (GetField homozygote_count (Ref __iruid_10641)) (Let __iruid_10652 (GetField AN (Ref __iruid_10641)) (Let __iruid_10653 (GetField AF (Ref __iruid_10641)) (Let __iruid_10654 (GetField AC (Ref __iruid_10641)) (Let __iruid_10655 (GetField was_split (Ref row)) (Let __iruid_10656 (GetField a_index (Ref row)) (Let __iruid_10657 (GetField VarDP (Ref __iruid_10642)) (Let __iruid_10658 (GetField SOR (Ref __iruid_10642)) (Let __iruid_10659 (GetField ReadPosRankSum (Ref __iruid_10642)) (Let __iruid_10660 (GetField QD (Ref __iruid_10642)) (Let __iruid_10661 (GetField MQ_DP (Ref __iruid_10642)) (Let __iruid_10662 (GetField MQRankSum (Ref __iruid_10642)) (Let __iruid_10663 (GetField MQ (Ref __iruid_10642)) (Let __iruid_10664 (GetField FS (Ref __iruid_10642)) (Let __iruid_10665 (GetField DP (Ref __iruid_10642)) (Let __iruid_10666 (GetField DB (Ref __iruid_10642)) (Let __iruid_10667 (GetField BaseQRankSum (Ref __iruid_10642)) (Let __iruid_10668 (GetField AN (Ref __iruid_10642)) (Let __iruid_10669 (GetField AF (Ref __iruid_10642)) (Let __iruid_10670 (GetField AC (Ref __iruid_10642)) (Let __iruid_10671 (GetField filters (Ref row)) (Let __iruid_10672 (GetField qual (Ref row)) (Let __iruid_10673 (GetField rsid (Ref row)) (Let __iruid_10674 (GetField alleles (Ref row)) (Let __iruid_10675 (GetField locus (Ref row)) (InsertFields (SelectFields () (Ref row)) None (locus (Let __iruid_10676 (If (IsNA (Ref __iruid_10675)) (Str "NA") (Apply str String (Ref __iruid_10675))) (If (ApplyComparisonOp GT (Apply length Int32 (Ref __iruid_10676)) (I32 76)) (Apply `+` String (ApplyIR `[*:*]` String (Ref __iruid_10676) (I32 0) (I32 73)) (Str "...")) (Ref __iruid_10676)))) (alleles (Let __iruid_10677 (If (IsNA (Ref __iruid_10674)) (Str "NA") (Apply `+` String (Apply `+` String (Str "[") (Apply mkString String (ArrayMap __iruid_10678 (Ref __iruid_10674) (If (IsNA (Ref __iruid_10678)) (Str "NA") (Apply `+` String (Apply `+` String (Str "\"") (Apply escapeString String (Ref __iruid_10678))) (Str "\"")))) (Str ","))) (Str "]"))) (If (ApplyComparisonOp GT (Apply length Int32 (Ref __iruid_10677)) (I32 76)) (Apply `+` String (ApplyIR `[*:*]` String (Ref __iruid_10677) (I32 0) (I32 73)) (Str "...")) (Ref __iruid_10677)))) (rsid (Let __iruid_10679 (If (IsNA (Ref __iruid_10673)) (Str "NA") (Apply `+` String (Apply `+` String (Str "\"") (Apply escapeString String (Ref __iruid_10673))) (Str "\""))) (If (ApplyComparisonOp GT (Apply length Int32 (Ref __iruid_10679)) (I32 76)) (Apply `+` String (ApplyIR `[*:*]` String (Ref __iruid_10679) (I32 0) (I32 73)) (Str "...")) (Ref __iruid_10679)))) (qual (Let __iruid_10680 (If (IsNA (Ref __iruid_10672)) (Str "NA") (Apply format String (Str "%.2e") (MakeTuple (0) (Ref __iruid_10672)))) (If (ApplyComparisonOp GT (Apply length Int32 (Ref __iruid_10680)) (I32 76)) (Apply `+` String (ApplyIR `[*:*]` String (Ref __iruid_10680) (I32 0) (I32 73)) (Str "...")) (Ref __iruid_10680)))) (filters (Let __iruid_10681 (If (IsNA (Ref __iruid_10671)) (Str "NA") (Apply `+` String (Apply `+` String (Str "{") (Apply mkString String (ArrayMap __iruid_10682 (ToArray (Ref __iruid_10671)) (If (IsNA (Ref __iruid_10682)) (Str "NA") (Apply `+` String (Apply `+` String (Str "\"") (Apply escapeString String (Ref __iruid_10682))) (Str "\"")))) (Str ","))) (Str "}"))) (If (ApplyComparisonOp GT (Apply length Int32 (Ref __iruid_10681)) (I32 76)) (Apply `+` String (ApplyIR `[*:*]` String (Ref __iruid_10681) (I32 0) (I32 73)) (Str "...")) (Ref __iruid_10681)))) (`info.AC` (Let __iruid_10683 (If (IsNA (Ref __iruid_10670)) (Str "NA") (Apply `+` String (Apply `+` String (Str "[") (Apply mkString String (ArrayMap __iruid_10684 (Ref __iruid_10670) (If (IsNA (Ref __iruid_10684)) (Str "NA") (Apply str String (Ref __iruid_10684)))) (Str ","))) (Str "]"))) (If (ApplyComparisonOp GT (Apply length Int32 (Ref __iruid_10683)) (I32 76)) (Apply `+` String (ApplyIR `[*:*]` String (Ref __iruid_10683) (I32 0) (I32 73)) (Str "...")) (Ref __iruid_10683)))) (`info.AF` (Let __iruid_10685 (If (IsNA (Ref __iruid_10669)) (Str "NA") (Apply `+` String (Apply `+` String (Str "[") (Apply mkString String (ArrayMap __iruid_10686 (Ref __iruid_10669) (If (IsNA (Ref __iruid_10686)) (Str "NA") (Apply format String (Str "%.2e") (MakeTuple (0) (Ref __iruid_10686))))) (Str ","))) (Str "]"))) (If (ApplyComparisonOp GT (Apply length Int32 (Ref __iruid_10685)) (I32 76)) (Apply `+` String (ApplyIR `[*:*]` String (Ref __iruid_10685) (I32 0) (I32 73)) (Str "...")) (Ref __iruid_10685)))) (`info.AN` (Let __iruid_10687 (If (IsNA (Ref __iruid_10668)) (Str "NA") (Apply str String (Ref __iruid_10668))) (If (ApplyComparisonOp GT (Apply length Int32 (Ref __iruid_10687)) (I32 76)) (Apply `+` String (ApplyIR `[*:*]` String (Ref __iruid_10687) (I32 0) (I32 73)) (Str "...")) (Ref __iruid_10687)))) (`info.BaseQRankSum` (Let __iruid_10688 (If (IsNA (Ref __iruid_10667)) (Str "NA") (Apply format String (Str "%.2e") (MakeTuple (0) (Ref __iruid_10667)))) (If (ApplyComparisonOp GT (Apply length Int32 (Ref __iruid_10688)) (I32 76)) (Apply `+` String (ApplyIR `[*:*]` String (Ref __iruid_10688) (I32 0) (I32 73)) (Str "...")) (Ref __iruid_10688)))) (`info.DB` (Let __iruid_10689 (If (IsNA (Ref __iruid_10666)) (Str "NA") (Apply str String (Ref __iruid_10666))) (If (ApplyComparisonOp GT (Apply length Int32 (Ref __iruid_10689)) (I32 76)) (Apply `+` String (ApplyIR `[*:*]` String (Ref __iruid_10689) (I32 0) (I32 73)) (Str "...")) (Ref __iruid_10689)))) (`info.DP` (Let __iruid_10690 (If (IsNA (Ref __iruid_10665)) (Str "NA") (Apply str String (Ref __iruid_10665))) (If (ApplyComparisonOp GT (Apply length Int32 (Ref __iruid_10690)) (I32 76)) (Apply `+` String (ApplyIR `[*:*]` String (Ref __iruid_10690) (I32 0) (I32 73)) (Str "...")) (Ref __iruid_10690)))) (`info.FS` (Let __iruid_10691 (If (IsNA (Ref __iruid_10664)) (Str "NA") (Apply format String (Str "%.2e") (MakeTuple (0) (Ref __iruid_10664)))) (If (ApplyComparisonOp GT (Apply length Int32 (Ref __iruid_10691)) (I32 76)) (Apply `+` String (ApplyIR `[*:*]` String (Ref __iruid_10691) (I32 0) (I32 73)) (Str "...")) (Ref __iruid_10691)))) (`info.MQ` (Let __iruid_10692 (If (IsNA (Ref __iruid_10663)) (Str "NA") (Apply format String (Str "%.2e") (MakeTuple (0) (Ref __iruid_10663)))) (If (ApplyComparisonOp GT (Apply length Int32 (Ref __iruid_10692)) (I32 76)) (Apply `+` String (ApplyIR `[*:*]` String (Ref __iruid_10692) (I32 0) (I32 73)) (Str "...")) (Ref __iruid_10692)))) (`info.MQRankSum` (Let __iruid_10693 (If (IsNA (Ref __iruid_10662)) (Str "NA") (Apply format String (Str "%.2e") (MakeTuple (0) (Ref __iruid_10662)))) (If (ApplyComparisonOp GT (Apply length Int32 (Ref __iruid_10693)) (I32 76)) (Apply `+` String (ApplyIR `[*:*]` String (Ref __iruid_10693) (I32 0) (I32 73)) (Str "...")) (Ref __iruid_10693)))) (`info.MQ_DP` (Let __iruid_10694 (If (IsNA (Ref __iruid_10661)) (Str "NA") (Apply str String (Ref __iruid_10661))) (If (ApplyComparisonOp GT (Apply length Int32 (Ref __iruid_10694)) (I32 76)) (Apply `+` String (ApplyIR `[*:*]` String (Ref __iruid_10694) (I32 0) (I32 73)) (Str "...")) (Ref __iruid_10694)))) (`info.QD` (Let __iruid_10695 (If (IsNA (Ref __iruid_10660)) (Str "NA") (Apply format String (Str "%.2e") (MakeTuple (0) (Ref __iruid_10660)))) (If (ApplyComparisonOp GT (Apply length Int32 (Ref __iruid_10695)) (I32 76)) (Apply `+` String (ApplyIR `[*:*]` String (Ref __iruid_10695) (I32 0) (I32 73)) (Str "...")) (Ref __iruid_10695)))) (`info.ReadPosRankSum` (Let __iruid_10696 (If (IsNA (Ref __iruid_10659)) (Str "NA") (Apply format String (Str "%.2e") (MakeTuple (0) (Ref __iruid_10659)))) (If (ApplyComparisonOp GT (Apply length Int32 (Ref __iruid_10696)) (I32 76)) (Apply `+` String (ApplyIR `[*:*]` String (Ref __iruid_10696) (I32 0) (I32 73)) (Str "...")) (Ref __iruid_10696)))) (`info.SOR` (Let __iruid_10697 (If (IsNA (Ref __iruid_10658)) (Str "NA") (Apply format String (Str "%.2e") (MakeTuple (0) (Ref __iruid_10658)))) (If (ApplyComparisonOp GT (Apply length Int32 (Ref __iruid_10697)) (I32 76)) (Apply `+` String (ApplyIR `[*:*]` String (Ref __iruid_10697) (I32 0) (I32 73)) (Str "...")) (Ref __iruid_10697)))) (`info.VarDP` (Let __iruid_10698 (If (IsNA (Ref __iruid_10657)) (Str "NA") (Apply str String (Ref __iruid_10657))) (If (ApplyComparisonOp GT (Apply length Int32 (Ref __iruid_10698)) (I32 76)) (Apply `+` String (ApplyIR `[*:*]` String (Ref __iruid_10698) (I32 0) (I32 73)) (Str "...")) (Ref __iruid_10698)))) (a_index (Let __iruid_10699 (If (IsNA (Ref __iruid_10656)) (Str "NA") (Apply str String (Ref __iruid_10656))) (If (ApplyComparisonOp GT (Apply length Int32 (Ref __iruid_10699)) (I32 76)) (Apply `+` String (ApplyIR `[*:*]` String (Ref __iruid_10699) (I32 0) (I32 73)) (Str "...")) (Ref __iruid_10699)))) (was_split (Let __iruid_10700 (If (IsNA (Ref __iruid_10655)) (Str "NA") (Apply str String (Ref __iruid_10655))) (If (ApplyComparisonOp GT (Apply length Int32 (Ref __iruid_10700)) (I32 76)) (Apply `+` String (ApplyIR `[*:*]` String (Ref __iruid_10700) (I32 0) (I32 73)) (Str "...")) (Ref __iruid_10700)))) (`variant_qc.AC` (Let __iruid_10701 (If (IsNA (Ref __iruid_10654)) (Str "NA") (Apply `+` String (Apply `+` String (Str "[") (Apply mkString String (ArrayMap __iruid_10702 (Ref __iruid_10654) (If (IsNA (Ref __iruid_10702)) (Str "NA") (Apply str String (Ref __iruid_10702)))) (Str ","))) (Str "]"))) (If (ApplyComparisonOp GT (Apply length Int32 (Ref __iruid_10701)) (I32 76)) (Apply `+` String (ApplyIR `[*:*]` String (Ref __iruid_10701) (I32 0) (I32 73)) (Str "...")) (Ref __iruid_10701)))) (`variant_qc.AF` (Let __iruid_10703 (If (IsNA (Ref __iruid_10653)) (Str "NA") (Apply `+` String (Apply `+` String (Str "[") (Apply mkString String (ArrayMap __iruid_10704 (Ref __iruid_10653) (If (IsNA (Ref __iruid_10704)) (Str "NA") (Apply format String (Str "%.2e") (MakeTuple (0) (Ref __iruid_10704))))) (Str ","))) (Str "]"))) (If (ApplyComparisonOp GT (Apply length Int32 (Ref __iruid_10703)) (I32 76)) (Apply `+` String (ApplyIR `[*:*]` String (Ref __iruid_10703) (I32 0) (I32 73)) (Str "...")) (Ref __iruid_10703)))) (`variant_qc.AN` (Let __iruid_10705 (If (IsNA (Ref __iruid_10652)) (Str "NA") (Apply str String (Ref __iruid_10652))) (If (ApplyComparisonOp GT (Apply length Int32 (Ref __iruid_10705)) (I32 76)) (Apply `+` String (ApplyIR `[*:*]` String (Ref __iruid_10705) (I32 0) (I32 73)) (Str "...")) (Ref __iruid_10705)))) (`variant_qc.homozygote_count` (Let __iruid_10706 (If (IsNA (Ref __iruid_10651)) (Str "NA") (Apply `+` String (Apply `+` String (Str "[") (Apply mkString String (ArrayMap __iruid_10707 (Ref __iruid_10651) (If (IsNA (Ref __iruid_10707)) (Str "NA") (Apply str String (Ref __iruid_10707)))) (Str ","))) (Str "]"))) (If (ApplyComparisonOp GT (Apply length Int32 (Ref __iruid_10706)) (I32 76)) (Apply `+` String (ApplyIR `[*:*]` String (Ref __iruid_10706) (I32 0) (I32 73)) (Str "...")) (Ref __iruid_10706)))) (`variant_qc.call_rate` (Let __iruid_10708 (If (IsNA (Ref __iruid_10650)) (Str "NA") (Apply format String (Str "%.2e") (MakeTuple (0) (Ref __iruid_10650)))) (If (ApplyComparisonOp GT (Apply length Int32 (Ref __iruid_10708)) (I32 76)) (Apply `+` String (ApplyIR `[*:*]` String (Ref __iruid_10708) (I32 0) (I32 73)) (Str "...")) (Ref __iruid_10708)))) (`variant_qc.n_called` (Let __iruid_10709 (If (IsNA (Ref __iruid_10649)) (Str "NA") (Apply str String (Ref __iruid_10649))) (If (ApplyComparisonOp GT (Apply length Int32 (Ref __iruid_10709)) (I32 76)) (Apply `+` String (ApplyIR `[*:*]` String (Ref __iruid_10709) (I32 0) (I32 73)) (Str "...")) (Ref __iruid_10709)))) (`variant_qc.n_not_called` (Let __iruid_10710 (If (IsNA (Ref __iruid_10648)) (Str "NA") (Apply str String (Ref __iruid_10648))) (If (ApplyComparisonOp GT (Apply length Int32 (Ref __iruid_10710)) (I32 76)) (Apply `+` String (ApplyIR `[*:*]` String (Ref __iruid_10710) (I32 0) (I32 73)) (Str "...")) (Ref __iruid_10710)))) (`variant_qc.n_filtered` (Let __iruid_10711 (If (IsNA (Ref __iruid_10647)) (Str "NA") (Apply str String (Ref __iruid_10647))) (If (ApplyComparisonOp GT (Apply length Int32 (Ref __iruid_10711)) (I32 76)) (Apply `+` String (ApplyIR `[*:*]` String (Ref __iruid_10711) (I32 0) (I32 73)) (Str "...")) (Ref __iruid_10711)))) (`variant_qc.n_het` (Let __iruid_10712 (If (IsNA (Ref __iruid_10646)) (Str "NA") (Apply str String (Ref __iruid_10646))) (If (ApplyComparisonOp GT (Apply length Int32 (Ref __iruid_10712)) (I32 76)) (Apply `+` String (ApplyIR `[*:*]` String (Ref __iruid_10712) (I32 0) (I32 73)) (Str "...")) (Ref __iruid_10712)))) (`variant_qc.n_non_ref` (Let __iruid_10713 (If (IsNA (Ref __iruid_10645)) (Str "NA") (Apply str String (Ref __iruid_10645))) (If (ApplyComparisonOp GT (Apply length Int32 (Ref __iruid_10713)) (I32 76)) (Apply `+` String (ApplyIR `[*:*]` String (Ref __iruid_10713) (I32 0) (I32 73)) (Str "...")) (Ref __iruid_10713)))) (`variant_qc.het_freq_hwe` (Let __iruid_10714 (If (IsNA (Ref __iruid_10644)) (Str "NA") (Apply format String (Str "%.2e") (MakeTuple (0) (Ref __iruid_10644)))) (If (ApplyComparisonOp GT (Apply length Int32 (Ref __iruid_10714)) (I32 76)) (Apply `+` String (ApplyIR `[*:*]` String (Ref __iruid_10714) (I32 0) (I32 73)) (Str "...")) (Ref __iruid_10714)))) (`variant_qc.p_value_hwe` (Let __iruid_10715 (If (IsNA (Ref __iruid_10643)) (Str "NA") (Apply format String (Str "%.2e") (MakeTuple (0) (Ref __iruid_10643)))) (If (ApplyComparisonOp GT (Apply length Int32 (Ref __iruid_10715)) (I32 76)) (Apply `+` String (ApplyIR `[*:*]` String (Ref __iruid_10715) (I32 0) (I32 73)) (Str "...")) (Ref __iruid_10715)))))))))))))))))))))))))))))))))))))))) 2019-11-14 20:58:43 root: INFO: optimize (Compile): after: IR size 858: (Let __iruid_13134 (GetField variant_qc (Ref row)) (Let __iruid_13135 (GetField info (Ref row)) (Let __iruid_13136 (GetField p_value_hwe (Ref __iruid_13134)) (Let __iruid_13137 (GetField het_freq_hwe (Ref __iruid_13134)) (Let __iruid_13138 (GetField n_non_ref (Ref __iruid_13134)) (Let __iruid_13139 (GetField n_het (Ref __iruid_13134)) (Let __iruid_13140 (GetField n_filtered (Ref __iruid_13134)) (Let __iruid_13141 (GetField n_not_called (Ref __iruid_13134)) (Let __iruid_13142 (GetField n_called (Ref __iruid_13134)) (Let __iruid_13143 (GetField call_rate (Ref __iruid_13134)) (Let __iruid_13144 (GetField homozygote_count (Ref __iruid_13134)) (Let __iruid_13145 (GetField AN (Ref __iruid_13134)) (Let __iruid_13146 (GetField AF (Ref __iruid_13134)) (Let __iruid_13147 (GetField AC (Ref __iruid_13134)) (Let __iruid_13148 (GetField was_split (Ref row)) (Let __iruid_13149 (GetField a_index (Ref row)) (Let __iruid_13150 (GetField VarDP (Ref __iruid_13135)) (Let __iruid_13151 (GetField SOR (Ref __iruid_13135)) (Let __iruid_13152 (GetField ReadPosRankSum (Ref __iruid_13135)) (Let __iruid_13153 (GetField QD (Ref __iruid_13135)) (Let __iruid_13154 (GetField MQ_DP (Ref __iruid_13135)) (Let __iruid_13155 (GetField MQRankSum (Ref __iruid_13135)) (Let __iruid_13156 (GetField MQ (Ref __iruid_13135)) (Let __iruid_13157 (GetField FS (Ref __iruid_13135)) (Let __iruid_13158 (GetField DP (Ref __iruid_13135)) (Let __iruid_13159 (GetField DB (Ref __iruid_13135)) (Let __iruid_13160 (GetField BaseQRankSum (Ref __iruid_13135)) (Let __iruid_13161 (GetField AN (Ref __iruid_13135)) (Let __iruid_13162 (GetField AF (Ref __iruid_13135)) (Let __iruid_13163 (GetField AC (Ref __iruid_13135)) (Let __iruid_13164 (GetField filters (Ref row)) (Let __iruid_13165 (GetField qual (Ref row)) (Let __iruid_13166 (GetField rsid (Ref row)) (Let __iruid_13167 (GetField alleles (Ref row)) (Let __iruid_13168 (GetField locus (Ref row)) (InsertFields (SelectFields () (Ref row)) None (locus (Let __iruid_13169 (If (IsNA (Ref __iruid_13168)) (Str "NA") (Apply str String (Ref __iruid_13168))) (If (ApplyComparisonOp GT (Apply length Int32 (Ref __iruid_13169)) (I32 76)) (Apply `+` String (ApplyIR `[*:*]` String (Ref __iruid_13169) (I32 0) (I32 73)) (Str "...")) (Ref __iruid_13169)))) (alleles (Let __iruid_13170 (If (IsNA (Ref __iruid_13167)) (Str "NA") (Apply `+` String (Apply `+` String (Str "[") (Apply mkString String (ArrayMap __iruid_13171 (Ref __iruid_13167) (If (IsNA (Ref __iruid_13171)) (Str "NA") (Apply `+` String (Apply `+` String (Str "\"") (Apply escapeString String (Ref __iruid_13171))) (Str "\"")))) (Str ","))) (Str "]"))) (If (ApplyComparisonOp GT (Apply length Int32 (Ref __iruid_13170)) (I32 76)) (Apply `+` String (ApplyIR `[*:*]` String (Ref __iruid_13170) (I32 0) (I32 73)) (Str "...")) (Ref __iruid_13170)))) (rsid (Let __iruid_13172 (If (IsNA (Ref __iruid_13166)) (Str "NA") (Apply `+` String (Apply `+` String (Str "\"") (Apply escapeString String (Ref __iruid_13166))) (Str "\""))) (If (ApplyComparisonOp GT (Apply length Int32 (Ref __iruid_13172)) (I32 76)) (Apply `+` String (ApplyIR `[*:*]` String (Ref __iruid_13172) (I32 0) (I32 73)) (Str "...")) (Ref __iruid_13172)))) (qual (Let __iruid_13173 (If (IsNA (Ref __iruid_13165)) (Str "NA") (Apply format String (Str "%.2e") (MakeTuple (0) (Ref __iruid_13165)))) (If (ApplyComparisonOp GT (Apply length Int32 (Ref __iruid_13173)) (I32 76)) (Apply `+` String (ApplyIR `[*:*]` String (Ref __iruid_13173) (I32 0) (I32 73)) (Str "...")) (Ref __iruid_13173)))) (filters (Let __iruid_13174 (If (IsNA (Ref __iruid_13164)) (Str "NA") (Apply `+` String (Apply `+` String (Str "{") (Apply mkString String (ArrayMap __iruid_13175 (ToArray (Ref __iruid_13164)) (If (IsNA (Ref __iruid_13175)) (Str "NA") (Apply `+` String (Apply `+` String (Str "\"") (Apply escapeString String (Ref __iruid_13175))) (Str "\"")))) (Str ","))) (Str "}"))) (If (ApplyComparisonOp GT (Apply length Int32 (Ref __iruid_13174)) (I32 76)) (Apply `+` String (ApplyIR `[*:*]` String (Ref __iruid_13174) (I32 0) (I32 73)) (Str "...")) (Ref __iruid_13174)))) (`info.AC` (Let __iruid_13176 (If (IsNA (Ref __iruid_13163)) (Str "NA") (Apply `+` String (Apply `+` String (Str "[") (Apply mkString String (ArrayMap __iruid_13177 (Ref __iruid_13163) (If (IsNA (Ref __iruid_13177)) (Str "NA") (Apply str String (Ref __iruid_13177)))) (Str ","))) (Str "]"))) (If (ApplyComparisonOp GT (Apply length Int32 (Ref __iruid_13176)) (I32 76)) (Apply `+` String (ApplyIR `[*:*]` String (Ref __iruid_13176) (I32 0) (I32 73)) (Str "...")) (Ref __iruid_13176)))) (`info.AF` (Let __iruid_13178 (If (IsNA (Ref __iruid_13162)) (Str "NA") (Apply `+` String (Apply `+` String (Str "[") (Apply mkString String (ArrayMap __iruid_13179 (Ref __iruid_13162) (If (IsNA (Ref __iruid_13179)) (Str "NA") (Apply format String (Str "%.2e") (MakeTuple (0) (Ref __iruid_13179))))) (Str ","))) (Str "]"))) (If (ApplyComparisonOp GT (Apply length Int32 (Ref __iruid_13178)) (I32 76)) (Apply `+` String (ApplyIR `[*:*]` String (Ref __iruid_13178) (I32 0) (I32 73)) (Str "...")) (Ref __iruid_13178)))) (`info.AN` (Let __iruid_13180 (If (IsNA (Ref __iruid_13161)) (Str "NA") (Apply str String (Ref __iruid_13161))) (If (ApplyComparisonOp GT (Apply length Int32 (Ref __iruid_13180)) (I32 76)) (Apply `+` String (ApplyIR `[*:*]` String (Ref __iruid_13180) (I32 0) (I32 73)) (Str "...")) (Ref __iruid_13180)))) (`info.BaseQRankSum` (Let __iruid_13181 (If (IsNA (Ref __iruid_13160)) (Str "NA") (Apply format String (Str "%.2e") (MakeTuple (0) (Ref __iruid_13160)))) (If (ApplyComparisonOp GT (Apply length Int32 (Ref __iruid_13181)) (I32 76)) (Apply `+` String (ApplyIR `[*:*]` String (Ref __iruid_13181) (I32 0) (I32 73)) (Str "...")) (Ref __iruid_13181)))) (`info.DB` (Let __iruid_13182 (If (IsNA (Ref __iruid_13159)) (Str "NA") (Apply str String (Ref __iruid_13159))) (If (ApplyComparisonOp GT (Apply length Int32 (Ref __iruid_13182)) (I32 76)) (Apply `+` String (ApplyIR `[*:*]` String (Ref __iruid_13182) (I32 0) (I32 73)) (Str "...")) (Ref __iruid_13182)))) (`info.DP` (Let __iruid_13183 (If (IsNA (Ref __iruid_13158)) (Str "NA") (Apply str String (Ref __iruid_13158))) (If (ApplyComparisonOp GT (Apply length Int32 (Ref __iruid_13183)) (I32 76)) (Apply `+` String (ApplyIR `[*:*]` String (Ref __iruid_13183) (I32 0) (I32 73)) (Str "...")) (Ref __iruid_13183)))) (`info.FS` (Let __iruid_13184 (If (IsNA (Ref __iruid_13157)) (Str "NA") (Apply format String (Str "%.2e") (MakeTuple (0) (Ref __iruid_13157)))) (If (ApplyComparisonOp GT (Apply length Int32 (Ref __iruid_13184)) (I32 76)) (Apply `+` String (ApplyIR `[*:*]` String (Ref __iruid_13184) (I32 0) (I32 73)) (Str "...")) (Ref __iruid_13184)))) (`info.MQ` (Let __iruid_13185 (If (IsNA (Ref __iruid_13156)) (Str "NA") (Apply format String (Str "%.2e") (MakeTuple (0) (Ref __iruid_13156)))) (If (ApplyComparisonOp GT (Apply length Int32 (Ref __iruid_13185)) (I32 76)) (Apply `+` String (ApplyIR `[*:*]` String (Ref __iruid_13185) (I32 0) (I32 73)) (Str "...")) (Ref __iruid_13185)))) (`info.MQRankSum` (Let __iruid_13186 (If (IsNA (Ref __iruid_13155)) (Str "NA") (Apply format String (Str "%.2e") (MakeTuple (0) (Ref __iruid_13155)))) (If (ApplyComparisonOp GT (Apply length Int32 (Ref __iruid_13186)) (I32 76)) (Apply `+` String (ApplyIR `[*:*]` String (Ref __iruid_13186) (I32 0) (I32 73)) (Str "...")) (Ref __iruid_13186)))) (`info.MQ_DP` (Let __iruid_13187 (If (IsNA (Ref __iruid_13154)) (Str "NA") (Apply str String (Ref __iruid_13154))) (If (ApplyComparisonOp GT (Apply length Int32 (Ref __iruid_13187)) (I32 76)) (Apply `+` String (ApplyIR `[*:*]` String (Ref __iruid_13187) (I32 0) (I32 73)) (Str "...")) (Ref __iruid_13187)))) (`info.QD` (Let __iruid_13188 (If (IsNA (Ref __iruid_13153)) (Str "NA") (Apply format String (Str "%.2e") (MakeTuple (0) (Ref __iruid_13153)))) (If (ApplyComparisonOp GT (Apply length Int32 (Ref __iruid_13188)) (I32 76)) (Apply `+` String (ApplyIR `[*:*]` String (Ref __iruid_13188) (I32 0) (I32 73)) (Str "...")) (Ref __iruid_13188)))) (`info.ReadPosRankSum` (Let __iruid_13189 (If (IsNA (Ref __iruid_13152)) (Str "NA") (Apply format String (Str "%.2e") (MakeTuple (0) (Ref __iruid_13152)))) (If (ApplyComparisonOp GT (Apply length Int32 (Ref __iruid_13189)) (I32 76)) (Apply `+` String (ApplyIR `[*:*]` String (Ref __iruid_13189) (I32 0) (I32 73)) (Str "...")) (Ref __iruid_13189)))) (`info.SOR` (Let __iruid_13190 (If (IsNA (Ref __iruid_13151)) (Str "NA") (Apply format String (Str "%.2e") (MakeTuple (0) (Ref __iruid_13151)))) (If (ApplyComparisonOp GT (Apply length Int32 (Ref __iruid_13190)) (I32 76)) (Apply `+` String (ApplyIR `[*:*]` String (Ref __iruid_13190) (I32 0) (I32 73)) (Str "...")) (Ref __iruid_13190)))) (`info.VarDP` (Let __iruid_13191 (If (IsNA (Ref __iruid_13150)) (Str "NA") (Apply str String (Ref __iruid_13150))) (If (ApplyComparisonOp GT (Apply length Int32 (Ref __iruid_13191)) (I32 76)) (Apply `+` String (ApplyIR `[*:*]` String (Ref __iruid_13191) (I32 0) (I32 73)) (Str "...")) (Ref __iruid_13191)))) (a_index (Let __iruid_13192 (If (IsNA (Ref __iruid_13149)) (Str "NA") (Apply str String (Ref __iruid_13149))) (If (ApplyComparisonOp GT (Apply length Int32 (Ref __iruid_13192)) (I32 76)) (Apply `+` String (ApplyIR `[*:*]` String (Ref __iruid_13192) (I32 0) (I32 73)) (Str "...")) (Ref __iruid_13192)))) (was_split (Let __iruid_13193 (If (IsNA (Ref __iruid_13148)) (Str "NA") (Apply str String (Ref __iruid_13148))) (If (ApplyComparisonOp GT (Apply length Int32 (Ref __iruid_13193)) (I32 76)) (Apply `+` String (ApplyIR `[*:*]` String (Ref __iruid_13193) (I32 0) (I32 73)) (Str "...")) (Ref __iruid_13193)))) (`variant_qc.AC` (Let __iruid_13194 (If (IsNA (Ref __iruid_13147)) (Str "NA") (Apply `+` String (Apply `+` String (Str "[") (Apply mkString String (ArrayMap __iruid_13195 (Ref __iruid_13147) (If (IsNA (Ref __iruid_13195)) (Str "NA") (Apply str String (Ref __iruid_13195)))) (Str ","))) (Str "]"))) (If (ApplyComparisonOp GT (Apply length Int32 (Ref __iruid_13194)) (I32 76)) (Apply `+` String (ApplyIR `[*:*]` String (Ref __iruid_13194) (I32 0) (I32 73)) (Str "...")) (Ref __iruid_13194)))) (`variant_qc.AF` (Let __iruid_13196 (If (IsNA (Ref __iruid_13146)) (Str "NA") (Apply `+` String (Apply `+` String (Str "[") (Apply mkString String (ArrayMap __iruid_13197 (Ref __iruid_13146) (If (IsNA (Ref __iruid_13197)) (Str "NA") (Apply format String (Str "%.2e") (MakeTuple (0) (Ref __iruid_13197))))) (Str ","))) (Str "]"))) (If (ApplyComparisonOp GT (Apply length Int32 (Ref __iruid_13196)) (I32 76)) (Apply `+` String (ApplyIR `[*:*]` String (Ref __iruid_13196) (I32 0) (I32 73)) (Str "...")) (Ref __iruid_13196)))) (`variant_qc.AN` (Let __iruid_13198 (If (IsNA (Ref __iruid_13145)) (Str "NA") (Apply str String (Ref __iruid_13145))) (If (ApplyComparisonOp GT (Apply length Int32 (Ref __iruid_13198)) (I32 76)) (Apply `+` String (ApplyIR `[*:*]` String (Ref __iruid_13198) (I32 0) (I32 73)) (Str "...")) (Ref __iruid_13198)))) (`variant_qc.homozygote_count` (Let __iruid_13199 (If (IsNA (Ref __iruid_13144)) (Str "NA") (Apply `+` String (Apply `+` String (Str "[") (Apply mkString String (ArrayMap __iruid_13200 (Ref __iruid_13144) (If (IsNA (Ref __iruid_13200)) (Str "NA") (Apply str String (Ref __iruid_13200)))) (Str ","))) (Str "]"))) (If (ApplyComparisonOp GT (Apply length Int32 (Ref __iruid_13199)) (I32 76)) (Apply `+` String (ApplyIR `[*:*]` String (Ref __iruid_13199) (I32 0) (I32 73)) (Str "...")) (Ref __iruid_13199)))) (`variant_qc.call_rate` (Let __iruid_13201 (If (IsNA (Ref __iruid_13143)) (Str "NA") (Apply format String (Str "%.2e") (MakeTuple (0) (Ref __iruid_13143)))) (If (ApplyComparisonOp GT (Apply length Int32 (Ref __iruid_13201)) (I32 76)) (Apply `+` String (ApplyIR `[*:*]` String (Ref __iruid_13201) (I32 0) (I32 73)) (Str "...")) (Ref __iruid_13201)))) (`variant_qc.n_called` (Let __iruid_13202 (If (IsNA (Ref __iruid_13142)) (Str "NA") (Apply str String (Ref __iruid_13142))) (If (ApplyComparisonOp GT (Apply length Int32 (Ref __iruid_13202)) (I32 76)) (Apply `+` String (ApplyIR `[*:*]` String (Ref __iruid_13202) (I32 0) (I32 73)) (Str "...")) (Ref __iruid_13202)))) (`variant_qc.n_not_called` (Let __iruid_13203 (If (IsNA (Ref __iruid_13141)) (Str "NA") (Apply str String (Ref __iruid_13141))) (If (ApplyComparisonOp GT (Apply length Int32 (Ref __iruid_13203)) (I32 76)) (Apply `+` String (ApplyIR `[*:*]` String (Ref __iruid_13203) (I32 0) (I32 73)) (Str "...")) (Ref __iruid_13203)))) (`variant_qc.n_filtered` (Let __iruid_13204 (If (IsNA (Ref __iruid_13140)) (Str "NA") (Apply str String (Ref __iruid_13140))) (If (ApplyComparisonOp GT (Apply length Int32 (Ref __iruid_13204)) (I32 76)) (Apply `+` String (ApplyIR `[*:*]` String (Ref __iruid_13204) (I32 0) (I32 73)) (Str "...")) (Ref __iruid_13204)))) (`variant_qc.n_het` (Let __iruid_13205 (If (IsNA (Ref __iruid_13139)) (Str "NA") (Apply str String (Ref __iruid_13139))) (If (ApplyComparisonOp GT (Apply length Int32 (Ref __iruid_13205)) (I32 76)) (Apply `+` String (ApplyIR `[*:*]` String (Ref __iruid_13205) (I32 0) (I32 73)) (Str "...")) (Ref __iruid_13205)))) (`variant_qc.n_non_ref` (Let __iruid_13206 (If (IsNA (Ref __iruid_13138)) (Str "NA") (Apply str String (Ref __iruid_13138))) (If (ApplyComparisonOp GT (Apply length Int32 (Ref __iruid_13206)) (I32 76)) (Apply `+` String (ApplyIR `[*:*]` String (Ref __iruid_13206) (I32 0) (I32 73)) (Str "...")) (Ref __iruid_13206)))) (`variant_qc.het_freq_hwe` (Let __iruid_13207 (If (IsNA (Ref __iruid_13137)) (Str "NA") (Apply format String (Str "%.2e") (MakeTuple (0) (Ref __iruid_13137)))) (If (ApplyComparisonOp GT (Apply length Int32 (Ref __iruid_13207)) (I32 76)) (Apply `+` String (ApplyIR `[*:*]` String (Ref __iruid_13207) (I32 0) (I32 73)) (Str "...")) (Ref __iruid_13207)))) (`variant_qc.p_value_hwe` (Let __iruid_13208 (If (IsNA (Ref __iruid_13136)) (Str "NA") (Apply format String (Str "%.2e") (MakeTuple (0) (Ref __iruid_13136)))) (If (ApplyComparisonOp GT (Apply length Int32 (Ref __iruid_13208)) (I32 76)) (Apply `+` String (ApplyIR `[*:*]` String (Ref __iruid_13208) (I32 0) (I32 73)) (Str "...")) (Ref __iruid_13208)))))))))))))))))))))))))))))))))))))))) 2019-11-14 20:58:43 root: INFO: instruction count: 3: is/hail/codegen/generated/C_etypeEncode_23. 2019-11-14 20:58:43 root: INFO: instruction count: 7: is/hail/codegen/generated/C_etypeEncode_23.apply 2019-11-14 20:58:43 root: INFO: instruction count: 11: is/hail/codegen/generated/C_etypeEncode_23.m0_ENCODE_o_tuple_of_o_stringANDo_stringANDo_stringANDo_stringANDo_stringANDo_stringANDo_stringANDo_stringANDo_stringEND_TO_o_struct_of_o_binaryANDo_binaryANDo_binaryANDo_binaryANDo_binaryANDo_binaryANDo_binaryANDo_binaryANDo_binaryEND 2019-11-14 20:58:43 root: INFO: instruction count: 165: is/hail/codegen/generated/C_etypeEncode_23.m1_write_fields_group_0 2019-11-14 20:58:43 root: INFO: instruction count: 16: is/hail/codegen/generated/C_etypeEncode_23.m2_ENCODE_o_binary_TO_o_binary 2019-11-14 20:58:43 MemoryStore: INFO: Block broadcast_9 stored as values in memory (estimated size 120.0 B, free 21.7 GB) 2019-11-14 20:58:43 MemoryStore: INFO: Block broadcast_9_piece0 stored as bytes in memory (estimated size 102.0 B, free 21.7 GB) 2019-11-14 20:58:43 BlockManagerInfo: INFO: Added broadcast_9_piece0 in memory on kc1-m.c.maclab-ukbb.internal:33975 (size: 102.0 B, free: 21.7 GB) 2019-11-14 20:58:43 SparkContext: INFO: Created broadcast 9 from broadcast at SparkBackend.scala:21 2019-11-14 20:58:43 root: INFO: instruction count: 3: is/hail/codegen/generated/C22. 2019-11-14 20:58:43 root: INFO: instruction count: 1769: is/hail/codegen/generated/C22.apply 2019-11-14 20:58:43 root: INFO: instruction count: 28: is/hail/codegen/generated/C22.apply 2019-11-14 20:58:43 root: INFO: instruction count: 2586: is/hail/codegen/generated/C22.m1_method 2019-11-14 20:58:43 root: INFO: instruction count: 126: is/hail/codegen/generated/C22.m2_method 2019-11-14 20:58:43 root: INFO: instruction count: 33: is/hail/codegen/generated/C22.m3_method 2019-11-14 20:58:43 root: INFO: instruction count: 8: is/hail/codegen/generated/C22.m4_method 2019-11-14 20:58:43 root: INFO: instruction count: 29: is/hail/codegen/generated/C22.m5_method 2019-11-14 20:58:43 root: INFO: instruction count: 581: is/hail/codegen/generated/C22.m6_method 2019-11-14 20:58:43 root: INFO: instruction count: 8: is/hail/codegen/generated/C22.m7_method 2019-11-14 20:58:43 root: INFO: instruction count: 33: is/hail/codegen/generated/C22.m8_method 2019-11-14 20:58:43 root: INFO: instruction count: 37: is/hail/codegen/generated/C22.m9_method 2019-11-14 20:58:43 root: INFO: instruction count: 26: is/hail/codegen/generated/C22.m10_method 2019-11-14 20:58:43 root: INFO: instruction count: 47: is/hail/codegen/generated/C22.m11_method 2019-11-14 20:58:43 root: INFO: instruction count: 25: is/hail/codegen/generated/C22.m12_method 2019-11-14 20:58:43 root: INFO: instruction count: 581: is/hail/codegen/generated/C22.m13_method 2019-11-14 20:58:43 root: INFO: instruction count: 8: is/hail/codegen/generated/C22.m14_method 2019-11-14 20:58:43 root: INFO: instruction count: 26: is/hail/codegen/generated/C22.m15_method 2019-11-14 20:58:43 root: INFO: instruction count: 581: is/hail/codegen/generated/C22.m16_method 2019-11-14 20:58:43 root: INFO: instruction count: 8: is/hail/codegen/generated/C22.m17_method 2019-11-14 20:58:43 root: INFO: instruction count: 26: is/hail/codegen/generated/C22.m18_method 2019-11-14 20:58:43 root: INFO: instruction count: 48: is/hail/codegen/generated/C22.m19_method 2019-11-14 20:58:43 root: INFO: instruction count: 581: is/hail/codegen/generated/C22.m20_method 2019-11-14 20:58:43 root: INFO: instruction count: 8: is/hail/codegen/generated/C22.m21_method 2019-11-14 20:58:43 root: INFO: instruction count: 26: is/hail/codegen/generated/C22.m22_method 2019-11-14 20:58:43 root: INFO: instruction count: 581: is/hail/codegen/generated/C22.m23_method 2019-11-14 20:58:43 root: INFO: instruction count: 8: is/hail/codegen/generated/C22.m24_method 2019-11-14 20:58:43 root: INFO: instruction count: 26: is/hail/codegen/generated/C22.m25_method 2019-11-14 20:58:43 root: INFO: instruction count: 42: is/hail/codegen/generated/C22.m26_method 2019-11-14 20:58:43 root: INFO: instruction count: 581: is/hail/codegen/generated/C22.m27_method 2019-11-14 20:58:43 root: INFO: instruction count: 8: is/hail/codegen/generated/C22.m28_method 2019-11-14 20:58:43 root: INFO: instruction count: 26: is/hail/codegen/generated/C22.m29_method 2019-11-14 20:58:43 root: INFO: instruction count: 581: is/hail/codegen/generated/C22.m30_method 2019-11-14 20:58:43 root: INFO: instruction count: 8: is/hail/codegen/generated/C22.m31_method 2019-11-14 20:58:43 root: INFO: instruction count: 26: is/hail/codegen/generated/C22.m32_method 2019-11-14 20:58:43 root: INFO: instruction count: 2131: is/hail/codegen/generated/C22.m33_method 2019-11-14 20:58:43 root: INFO: instruction count: 42: is/hail/codegen/generated/C22.m34_method 2019-11-14 20:58:43 root: INFO: instruction count: 8: is/hail/codegen/generated/C22.m35_method 2019-11-14 20:58:43 root: INFO: instruction count: 29: is/hail/codegen/generated/C22.m36_method 2019-11-14 20:58:43 root: INFO: instruction count: 581: is/hail/codegen/generated/C22.m37_method 2019-11-14 20:58:43 root: INFO: instruction count: 8: is/hail/codegen/generated/C22.m38_method 2019-11-14 20:58:43 root: INFO: instruction count: 26: is/hail/codegen/generated/C22.m39_method 2019-11-14 20:58:43 root: INFO: instruction count: 48: is/hail/codegen/generated/C22.m40_method 2019-11-14 20:58:43 root: INFO: instruction count: 581: is/hail/codegen/generated/C22.m41_method 2019-11-14 20:58:43 root: INFO: instruction count: 8: is/hail/codegen/generated/C22.m42_method 2019-11-14 20:58:43 root: INFO: instruction count: 26: is/hail/codegen/generated/C22.m43_method 2019-11-14 20:58:43 root: INFO: instruction count: 42: is/hail/codegen/generated/C22.m44_method 2019-11-14 20:58:43 root: INFO: instruction count: 581: is/hail/codegen/generated/C22.m45_method 2019-11-14 20:58:43 root: INFO: instruction count: 8: is/hail/codegen/generated/C22.m46_method 2019-11-14 20:58:43 root: INFO: instruction count: 26: is/hail/codegen/generated/C22.m47_method 2019-11-14 20:58:43 root: INFO: instruction count: 581: is/hail/codegen/generated/C22.m48_method 2019-11-14 20:58:43 root: INFO: instruction count: 8: is/hail/codegen/generated/C22.m49_method 2019-11-14 20:58:43 root: INFO: instruction count: 26: is/hail/codegen/generated/C22.m50_method 2019-11-14 20:58:43 root: INFO: instruction count: 581: is/hail/codegen/generated/C22.m51_method 2019-11-14 20:58:43 root: INFO: instruction count: 8: is/hail/codegen/generated/C22.m52_method 2019-11-14 20:58:43 root: INFO: instruction count: 26: is/hail/codegen/generated/C22.m53_method 2019-11-14 20:58:43 root: INFO: instruction count: 581: is/hail/codegen/generated/C22.m54_method 2019-11-14 20:58:43 root: INFO: instruction count: 8: is/hail/codegen/generated/C22.m55_method 2019-11-14 20:58:43 root: INFO: instruction count: 26: is/hail/codegen/generated/C22.m56_method 2019-11-14 20:58:43 root: INFO: instruction count: 581: is/hail/codegen/generated/C22.m57_method 2019-11-14 20:58:43 root: INFO: instruction count: 8: is/hail/codegen/generated/C22.m58_method 2019-11-14 20:58:43 root: INFO: instruction count: 26: is/hail/codegen/generated/C22.m59_method 2019-11-14 20:58:43 root: INFO: instruction count: 581: is/hail/codegen/generated/C22.m60_method 2019-11-14 20:58:43 root: INFO: instruction count: 8: is/hail/codegen/generated/C22.m61_method 2019-11-14 20:58:43 root: INFO: instruction count: 26: is/hail/codegen/generated/C22.m62_method 2019-11-14 20:58:43 root: INFO: instruction count: 581: is/hail/codegen/generated/C22.m63_method 2019-11-14 20:58:43 root: INFO: instruction count: 8: is/hail/codegen/generated/C22.m64_method 2019-11-14 20:58:43 root: INFO: instruction count: 26: is/hail/codegen/generated/C22.m65_method 2019-11-14 20:58:43 root: INFO: instruction count: 581: is/hail/codegen/generated/C22.m66_method 2019-11-14 20:58:43 root: INFO: instruction count: 8: is/hail/codegen/generated/C22.m67_method 2019-11-14 20:58:43 root: INFO: instruction count: 26: is/hail/codegen/generated/C22.m68_method 2019-11-14 20:58:43 root: INFO: instruction count: 2388: is/hail/codegen/generated/C22.m69_method 2019-11-14 20:58:43 root: INFO: instruction count: 48: is/hail/codegen/generated/C22.m70_method 2019-11-14 20:58:43 root: INFO: instruction count: 8: is/hail/codegen/generated/C22.m71_method 2019-11-14 20:58:43 root: INFO: instruction count: 29: is/hail/codegen/generated/C22.m72_method 2019-11-14 20:58:43 root: INFO: instruction count: 581: is/hail/codegen/generated/C22.m73_method 2019-11-14 20:58:43 root: INFO: instruction count: 8: is/hail/codegen/generated/C22.m74_method 2019-11-14 20:58:43 root: INFO: instruction count: 26: is/hail/codegen/generated/C22.m75_method 2019-11-14 20:58:43 root: INFO: instruction count: 42: is/hail/codegen/generated/C22.m76_method 2019-11-14 20:58:43 root: INFO: instruction count: 581: is/hail/codegen/generated/C22.m77_method 2019-11-14 20:58:43 root: INFO: instruction count: 8: is/hail/codegen/generated/C22.m78_method 2019-11-14 20:58:43 root: INFO: instruction count: 26: is/hail/codegen/generated/C22.m79_method 2019-11-14 20:58:43 root: INFO: instruction count: 581: is/hail/codegen/generated/C22.m80_method 2019-11-14 20:58:43 root: INFO: instruction count: 8: is/hail/codegen/generated/C22.m81_method 2019-11-14 20:58:43 root: INFO: instruction count: 26: is/hail/codegen/generated/C22.m82_method 2019-11-14 20:58:43 root: INFO: instruction count: 42: is/hail/codegen/generated/C22.m83_method 2019-11-14 20:58:43 root: INFO: instruction count: 581: is/hail/codegen/generated/C22.m84_method 2019-11-14 20:58:43 root: INFO: instruction count: 8: is/hail/codegen/generated/C22.m85_method 2019-11-14 20:58:43 root: INFO: instruction count: 26: is/hail/codegen/generated/C22.m86_method 2019-11-14 20:58:43 root: INFO: instruction count: 47: is/hail/codegen/generated/C22.m87_method 2019-11-14 20:58:43 root: INFO: instruction count: 581: is/hail/codegen/generated/C22.m88_method 2019-11-14 20:58:43 root: INFO: instruction count: 8: is/hail/codegen/generated/C22.m89_method 2019-11-14 20:58:43 root: INFO: instruction count: 26: is/hail/codegen/generated/C22.m90_method 2019-11-14 20:58:43 root: INFO: instruction count: 581: is/hail/codegen/generated/C22.m91_method 2019-11-14 20:58:43 root: INFO: instruction count: 8: is/hail/codegen/generated/C22.m92_method 2019-11-14 20:58:43 root: INFO: instruction count: 26: is/hail/codegen/generated/C22.m93_method 2019-11-14 20:58:43 root: INFO: instruction count: 581: is/hail/codegen/generated/C22.m94_method 2019-11-14 20:58:43 root: INFO: instruction count: 8: is/hail/codegen/generated/C22.m95_method 2019-11-14 20:58:43 root: INFO: instruction count: 26: is/hail/codegen/generated/C22.m96_method 2019-11-14 20:58:43 root: INFO: instruction count: 581: is/hail/codegen/generated/C22.m97_method 2019-11-14 20:58:43 root: INFO: instruction count: 8: is/hail/codegen/generated/C22.m98_method 2019-11-14 20:58:43 root: INFO: instruction count: 26: is/hail/codegen/generated/C22.m99_method 2019-11-14 20:58:43 root: INFO: instruction count: 1604: is/hail/codegen/generated/C22.m100_method 2019-11-14 20:58:43 root: INFO: instruction count: 48: is/hail/codegen/generated/C22.m101_method 2019-11-14 20:58:43 root: INFO: instruction count: 8: is/hail/codegen/generated/C22.m102_method 2019-11-14 20:58:43 root: INFO: instruction count: 29: is/hail/codegen/generated/C22.m103_method 2019-11-14 20:58:43 root: INFO: instruction count: 581: is/hail/codegen/generated/C22.m104_method 2019-11-14 20:58:43 root: INFO: instruction count: 8: is/hail/codegen/generated/C22.m105_method 2019-11-14 20:58:43 root: INFO: instruction count: 26: is/hail/codegen/generated/C22.m106_method 2019-11-14 20:58:43 root: INFO: instruction count: 42: is/hail/codegen/generated/C22.m107_method 2019-11-14 20:58:43 root: INFO: instruction count: 581: is/hail/codegen/generated/C22.m108_method 2019-11-14 20:58:43 root: INFO: instruction count: 8: is/hail/codegen/generated/C22.m109_method 2019-11-14 20:58:43 root: INFO: instruction count: 26: is/hail/codegen/generated/C22.m110_method 2019-11-14 20:58:43 root: INFO: instruction count: 581: is/hail/codegen/generated/C22.m111_method 2019-11-14 20:58:43 root: INFO: instruction count: 8: is/hail/codegen/generated/C22.m112_method 2019-11-14 20:58:43 root: INFO: instruction count: 26: is/hail/codegen/generated/C22.m113_method 2019-11-14 20:58:43 root: INFO: instruction count: 581: is/hail/codegen/generated/C22.m114_method 2019-11-14 20:58:43 root: INFO: instruction count: 8: is/hail/codegen/generated/C22.m115_method 2019-11-14 20:58:43 root: INFO: instruction count: 26: is/hail/codegen/generated/C22.m116_method 2019-11-14 20:58:43 root: INFO: instruction count: 581: is/hail/codegen/generated/C22.m117_method 2019-11-14 20:58:43 root: INFO: instruction count: 8: is/hail/codegen/generated/C22.m118_method 2019-11-14 20:58:43 root: INFO: instruction count: 26: is/hail/codegen/generated/C22.m119_method 2019-11-14 20:58:43 root: INFO: instruction count: 581: is/hail/codegen/generated/C22.m120_method 2019-11-14 20:58:43 root: INFO: instruction count: 8: is/hail/codegen/generated/C22.m121_method 2019-11-14 20:58:43 root: INFO: instruction count: 26: is/hail/codegen/generated/C22.m122_method 2019-11-14 20:58:43 root: INFO: instruction count: 581: is/hail/codegen/generated/C22.m123_method 2019-11-14 20:58:43 root: INFO: instruction count: 8: is/hail/codegen/generated/C22.m124_method 2019-11-14 20:58:43 root: INFO: instruction count: 26: is/hail/codegen/generated/C22.m125_method 2019-11-14 20:58:43 root: INFO: instruction count: 581: is/hail/codegen/generated/C22.m126_method 2019-11-14 20:58:43 root: INFO: instruction count: 8: is/hail/codegen/generated/C22.m127_method 2019-11-14 20:58:43 root: INFO: instruction count: 26: is/hail/codegen/generated/C22.m128_method 2019-11-14 20:58:43 root: INFO: instruction count: 14: is/hail/codegen/generated/C22.setPartitionIndex 2019-11-14 20:58:43 root: INFO: instruction count: 6: is/hail/codegen/generated/C22.addPartitionRegion 2019-11-14 20:58:43 root: INFO: instruction count: 34: is/hail/codegen/generated/C22.m131_DECODE_o_struct_of_o_binaryANDo_binaryANDo_binaryANDo_binaryANDo_binaryANDo_binaryANDo_binaryANDo_binaryANDo_binaryEND_TO_o_tuple_of_o_stringANDo_stringANDo_stringANDo_stringANDo_stringANDo_stringANDo_stringANDo_stringANDo_stringEND 2019-11-14 20:58:43 root: INFO: instruction count: 228: is/hail/codegen/generated/C22.m132_read_fields_group_0 2019-11-14 20:58:43 root: INFO: instruction count: 29: is/hail/codegen/generated/C22.m133_INPLACE_DECODE_o_binary_TO_o_binary 2019-11-14 20:58:43 root: INFO: instruction count: 86: is/hail/codegen/generated/C22.addLiterals 2019-11-14 20:58:43 root: INFO: instruction count: 3: is/hail/codegen/generated/C_etypeEncode_24. 2019-11-14 20:58:43 root: INFO: instruction count: 7: is/hail/codegen/generated/C_etypeEncode_24.apply 2019-11-14 20:58:43 root: INFO: instruction count: 11: is/hail/codegen/generated/C_etypeEncode_24.m0_ENCODE_o_tuple_of_o_stringANDo_stringANDo_stringANDo_stringANDo_stringANDo_stringANDo_stringANDo_stringANDo_stringANDo_stringANDo_stringANDo_stringANDo_stringANDo_stringANDo_stringANDo_stringANDo_stringANDo_stringANDo_stringANDo_stringANDo_stringANDo_stringANDo_stringANDo_stringANDo_stringANDo_stringANDo_stringANDo_stringANDo_stringANDo_stringANDo_stringANDo_stringANDo_stringEND_TO_o_struct_of_o_binaryANDo_binaryANDo_binaryANDo_binaryANDo_binaryANDo_binaryANDo_binaryANDo_binaryANDo_binaryANDo_binaryANDo_binaryANDo_binaryANDo_binaryANDo_binaryANDo_binaryANDo_binaryANDo_binaryANDo_binaryANDo_binaryANDo_binaryANDo_binaryANDo_binaryANDo_binaryANDo_binaryANDo_binaryANDo_binaryANDo_binaryANDo_binaryANDo_binaryANDo_binaryANDo_binaryANDo_binaryANDo_binaryEND 2019-11-14 20:58:43 root: INFO: instruction count: 597: is/hail/codegen/generated/C_etypeEncode_24.m1_write_fields_group_0 2019-11-14 20:58:43 root: INFO: instruction count: 16: is/hail/codegen/generated/C_etypeEncode_24.m2_ENCODE_o_binary_TO_o_binary 2019-11-14 20:58:43 SparkContext: INFO: Starting job: collect at RVD.scala:676 2019-11-14 20:58:43 DAGScheduler: INFO: Got job 3 (collect at RVD.scala:676) with 1 output partitions 2019-11-14 20:58:43 DAGScheduler: INFO: Final stage: ResultStage 3 (collect at RVD.scala:676) 2019-11-14 20:58:43 DAGScheduler: INFO: Parents of final stage: List() 2019-11-14 20:58:43 DAGScheduler: INFO: Missing parents: List() 2019-11-14 20:58:43 DAGScheduler: INFO: Submitting ResultStage 3 (MapPartitionsRDD[18] at mapPartitions at ContextRDD.scala:217), which has no missing parents 2019-11-14 20:58:43 MemoryStore: INFO: Block broadcast_10 stored as values in memory (estimated size 580.7 KB, free 21.7 GB) 2019-11-14 20:58:43 MemoryStore: INFO: Block broadcast_10_piece0 stored as bytes in memory (estimated size 176.4 KB, free 21.7 GB) 2019-11-14 20:58:43 BlockManagerInfo: INFO: Added broadcast_10_piece0 in memory on kc1-m.c.maclab-ukbb.internal:33975 (size: 176.4 KB, free: 21.7 GB) 2019-11-14 20:58:43 SparkContext: INFO: Created broadcast 10 from broadcast at DAGScheduler.scala:1161 2019-11-14 20:58:43 DAGScheduler: INFO: Submitting 1 missing tasks from ResultStage 3 (MapPartitionsRDD[18] at mapPartitions at ContextRDD.scala:217) (first 15 tasks are for partitions Vector(0)) 2019-11-14 20:58:43 YarnScheduler: INFO: Adding task set 3.0 with 1 tasks 2019-11-14 20:58:43 FairSchedulableBuilder: INFO: Added task set TaskSet_3.0 tasks to pool default 2019-11-14 20:58:43 TaskSetManager: INFO: Starting task 0.0 in stage 3.0 (TID 3, kc1-w-0.c.maclab-ukbb.internal, executor 1, partition 0, PROCESS_LOCAL, 7834 bytes) 2019-11-14 20:58:43 BlockManagerInfo: INFO: Added broadcast_10_piece0 in memory on kc1-w-0.c.maclab-ukbb.internal:35793 (size: 176.4 KB, free: 9.5 GB) 2019-11-14 20:58:44 BlockManagerInfo: INFO: Added broadcast_3_piece0 in memory on kc1-w-0.c.maclab-ukbb.internal:35793 (size: 28.2 KB, free: 9.5 GB) 2019-11-14 20:58:45 BlockManagerInfo: INFO: Added broadcast_9_piece0 in memory on kc1-w-0.c.maclab-ukbb.internal:35793 (size: 102.0 B, free: 9.5 GB) 2019-11-14 20:58:46 TaskSetManager: INFO: Finished task 0.0 in stage 3.0 (TID 3) in 3452 ms on kc1-w-0.c.maclab-ukbb.internal (executor 1) (1/1) 2019-11-14 20:58:46 YarnScheduler: INFO: Removed TaskSet 3.0, whose tasks have all completed, from pool default 2019-11-14 20:58:46 DAGScheduler: INFO: ResultStage 3 (collect at RVD.scala:676) finished in 3.472 s 2019-11-14 20:58:46 DAGScheduler: INFO: Job 3 finished: collect at RVD.scala:676, took 3.476491 s 2019-11-14 20:58:46 root: INFO: instruction count: 3: is/hail/codegen/generated/C_etypeDecode_25. 2019-11-14 20:58:46 root: INFO: instruction count: 7: is/hail/codegen/generated/C_etypeDecode_25.apply 2019-11-14 20:58:46 root: INFO: instruction count: 25: is/hail/codegen/generated/C_etypeDecode_25.m0_DECODE_o_struct_of_o_binaryANDo_binaryANDo_binaryANDo_binaryANDo_binaryANDo_binaryANDo_binaryANDo_binaryANDo_binaryANDo_binaryANDo_binaryANDo_binaryANDo_binaryANDo_binaryANDo_binaryANDo_binaryANDo_binaryANDo_binaryANDo_binaryANDo_binaryANDo_binaryANDo_binaryANDo_binaryANDo_binaryANDo_binaryANDo_binaryANDo_binaryANDo_binaryANDo_binaryANDo_binaryANDo_binaryANDo_binaryANDo_binaryEND_TO_o_tuple_of_o_stringANDo_stringANDo_stringANDo_stringANDo_stringANDo_stringANDo_stringANDo_stringANDo_stringANDo_stringANDo_stringANDo_stringANDo_stringANDo_stringANDo_stringANDo_stringANDo_stringANDo_stringANDo_stringANDo_stringANDo_stringANDo_stringANDo_stringANDo_stringANDo_stringANDo_stringANDo_stringANDo_stringANDo_stringANDo_stringANDo_stringANDo_stringANDo_stringEND 2019-11-14 20:58:46 root: INFO: instruction count: 828: is/hail/codegen/generated/C_etypeDecode_25.m1_read_fields_group_0 2019-11-14 20:58:46 root: INFO: instruction count: 29: is/hail/codegen/generated/C_etypeDecode_25.m2_INPLACE_DECODE_o_binary_TO_o_binary 2019-11-14 20:58:46 root: INFO: took 15.171s 2019-11-14 20:58:46 root: INFO: optimize (interpret non compilable, after): before: IR size 2: (GetField rows (Literal Struct{rows:Array[Struct{locus:String,alleles:String,rsid:String,qual:String,filters:String,`info.AC`:String,`info.AF`:String,`info.AN`:String,`info.BaseQRankSum`:String,`info.DB`:String,`info.DP`:String,`info.FS`:String,`info.MQ`:String,`info.MQRankSum`:String,`info.MQ_DP`:String,`info.QD`:String,`info.ReadPosRankSum`:String,`info.SOR`:String,`info.VarDP`:String,a_index:String,was_split:String,`variant_qc.AC`:String,`variant_qc.AF`:String,`variant_qc.AN`:String,`variant_qc.homozygote_count`:String,`variant_qc.call_rate`:String,`variant_qc.n_called`:String,`variant_qc.n_not_called`:String,`variant_qc.n_filtered`:String,`variant_qc.n_het`:String,`variant_qc.n_non_ref`:String,`variant_qc.het_freq_hwe`:String,`variant_qc.p_value_hwe`:String}],global:Struct{}} )) 2019-11-14 20:58:46 root: INFO: optimize (interpret non compilable, after): after: IR size 1: (Literal Array[Struct{locus:String,alleles:String,rsid:String,qual:String,filters:String,`info.AC`:String,`info.AF`:String,`info.AN`:String,`info.BaseQRankSum`:String,`info.DB`:String,`info.DP`:String,`info.FS`:String,`info.MQ`:String,`info.MQRankSum`:String,`info.MQ_DP`:String,`info.QD`:String,`info.ReadPosRankSum`:String,`info.SOR`:String,`info.VarDP`:String,a_index:String,was_split:String,`variant_qc.AC`:String,`variant_qc.AF`:String,`variant_qc.AN`:String,`variant_qc.homozygote_count`:String,`variant_qc.call_rate`:String,`variant_qc.n_called`:String,`variant_qc.n_not_called`:String,`variant_qc.n_filtered`:String,`variant_qc.n_het`:String,`variant_qc.n_non_ref`:String,`variant_qc.het_freq_hwe`:String,`variant_qc.p_value_hwe`:String}] ) 2019-11-14 20:58:46 root: INFO: instruction count: 3: is/hail/codegen/generated/C_etypeEncode_27. 2019-11-14 20:58:46 root: INFO: instruction count: 7: is/hail/codegen/generated/C_etypeEncode_27.apply 2019-11-14 20:58:46 root: INFO: instruction count: 11: is/hail/codegen/generated/C_etypeEncode_27.m0_ENCODE_o_tuple_of_o_array_of_o_tuple_of_o_stringANDo_stringANDo_stringANDo_stringANDo_stringANDo_stringANDo_stringANDo_stringANDo_stringANDo_stringANDo_stringANDo_stringANDo_stringANDo_stringANDo_stringANDo_stringANDo_stringANDo_stringANDo_stringANDo_stringANDo_stringANDo_stringANDo_stringANDo_stringANDo_stringANDo_stringANDo_stringANDo_stringANDo_stringANDo_stringANDo_stringANDo_stringANDo_stringENDEND_TO_o_struct_of_o_array_of_o_struct_of_o_binaryANDo_binaryANDo_binaryANDo_binaryANDo_binaryANDo_binaryANDo_binaryANDo_binaryANDo_binaryANDo_binaryANDo_binaryANDo_binaryANDo_binaryANDo_binaryANDo_binaryANDo_binaryANDo_binaryANDo_binaryANDo_binaryANDo_binaryANDo_binaryANDo_binaryANDo_binaryANDo_binaryANDo_binaryANDo_binaryANDo_binaryANDo_binaryANDo_binaryANDo_binaryANDo_binaryANDo_binaryANDo_binaryENDEND 2019-11-14 20:58:46 root: INFO: instruction count: 21: is/hail/codegen/generated/C_etypeEncode_27.m1_write_fields_group_0 2019-11-14 20:58:46 root: INFO: instruction count: 76: is/hail/codegen/generated/C_etypeEncode_27.m2_ENCODE_o_array_of_o_tuple_of_o_binaryANDo_binaryANDo_binaryANDo_binaryANDo_binaryANDo_binaryANDo_binaryANDo_binaryANDo_binaryANDo_binaryANDo_binaryANDo_binaryANDo_binaryANDo_binaryANDo_binaryANDo_binaryANDo_binaryANDo_binaryANDo_binaryANDo_binaryANDo_binaryANDo_binaryANDo_binaryANDo_binaryANDo_binaryANDo_binaryANDo_binaryANDo_binaryANDo_binaryANDo_binaryANDo_binaryANDo_binaryANDo_binaryEND_TO_o_array_of_o_struct_of_o_binaryANDo_binaryANDo_binaryANDo_binaryANDo_binaryANDo_binaryANDo_binaryANDo_binaryANDo_binaryANDo_binaryANDo_binaryANDo_binaryANDo_binaryANDo_binaryANDo_binaryANDo_binaryANDo_binaryANDo_binaryANDo_binaryANDo_binaryANDo_binaryANDo_binaryANDo_binaryANDo_binaryANDo_binaryANDo_binaryANDo_binaryANDo_binaryANDo_binaryANDo_binaryANDo_binaryANDo_binaryANDo_binaryEND 2019-11-14 20:58:46 root: INFO: instruction count: 11: is/hail/codegen/generated/C_etypeEncode_27.m3_ENCODE_o_tuple_of_o_binaryANDo_binaryANDo_binaryANDo_binaryANDo_binaryANDo_binaryANDo_binaryANDo_binaryANDo_binaryANDo_binaryANDo_binaryANDo_binaryANDo_binaryANDo_binaryANDo_binaryANDo_binaryANDo_binaryANDo_binaryANDo_binaryANDo_binaryANDo_binaryANDo_binaryANDo_binaryANDo_binaryANDo_binaryANDo_binaryANDo_binaryANDo_binaryANDo_binaryANDo_binaryANDo_binaryANDo_binaryANDo_binaryEND_TO_o_struct_of_o_binaryANDo_binaryANDo_binaryANDo_binaryANDo_binaryANDo_binaryANDo_binaryANDo_binaryANDo_binaryANDo_binaryANDo_binaryANDo_binaryANDo_binaryANDo_binaryANDo_binaryANDo_binaryANDo_binaryANDo_binaryANDo_binaryANDo_binaryANDo_binaryANDo_binaryANDo_binaryANDo_binaryANDo_binaryANDo_binaryANDo_binaryANDo_binaryANDo_binaryANDo_binaryANDo_binaryANDo_binaryANDo_binaryEND 2019-11-14 20:58:46 root: INFO: instruction count: 597: is/hail/codegen/generated/C_etypeEncode_27.m4_write_fields_group_0 2019-11-14 20:58:46 root: INFO: instruction count: 16: is/hail/codegen/generated/C_etypeEncode_27.m5_ENCODE_o_binary_TO_o_binary 2019-11-14 20:58:46 MemoryStore: INFO: Block broadcast_11 stored as values in memory (estimated size 3.9 KB, free 21.7 GB) 2019-11-14 20:58:46 MemoryStore: INFO: Block broadcast_11_piece0 stored as bytes in memory (estimated size 1348.0 B, free 21.7 GB) 2019-11-14 20:58:46 BlockManagerInfo: INFO: Added broadcast_11_piece0 in memory on kc1-m.c.maclab-ukbb.internal:33975 (size: 1348.0 B, free: 21.7 GB) 2019-11-14 20:58:46 SparkContext: INFO: Created broadcast 11 from broadcast at SparkBackend.scala:21 2019-11-14 20:58:46 root: INFO: instruction count: 3: is/hail/codegen/generated/C26. 2019-11-14 20:58:46 root: INFO: instruction count: 54: is/hail/codegen/generated/C26.apply 2019-11-14 20:58:46 root: INFO: instruction count: 10: is/hail/codegen/generated/C26.apply 2019-11-14 20:58:46 root: INFO: instruction count: 14: is/hail/codegen/generated/C26.setPartitionIndex 2019-11-14 20:58:46 root: INFO: instruction count: 6: is/hail/codegen/generated/C26.addPartitionRegion 2019-11-14 20:58:46 root: INFO: instruction count: 27: is/hail/codegen/generated/C26.m3_DECODE_o_struct_of_o_array_of_o_struct_of_o_binaryANDo_binaryANDo_binaryANDo_binaryANDo_binaryANDo_binaryANDo_binaryANDo_binaryANDo_binaryANDo_binaryANDo_binaryANDo_binaryANDo_binaryANDo_binaryANDo_binaryANDo_binaryANDo_binaryANDo_binaryANDo_binaryANDo_binaryANDo_binaryANDo_binaryANDo_binaryANDo_binaryANDo_binaryANDo_binaryANDo_binaryANDo_binaryANDo_binaryANDo_binaryANDo_binaryANDo_binaryANDo_binaryENDEND_TO_o_tuple_of_o_array_of_o_tuple_of_o_stringANDo_stringANDo_stringANDo_stringANDo_stringANDo_stringANDo_stringANDo_stringANDo_stringANDo_stringANDo_stringANDo_stringANDo_stringANDo_stringANDo_stringANDo_stringANDo_stringANDo_stringANDo_stringANDo_stringANDo_stringANDo_stringANDo_stringANDo_stringANDo_stringANDo_stringANDo_stringANDo_stringANDo_stringANDo_stringANDo_stringANDo_stringANDo_stringENDEND 2019-11-14 20:58:46 root: INFO: instruction count: 28: is/hail/codegen/generated/C26.m4_read_fields_group_0 2019-11-14 20:58:46 root: INFO: instruction count: 99: is/hail/codegen/generated/C26.m5_INPLACE_DECODE_o_array_of_o_struct_of_o_binaryANDo_binaryANDo_binaryANDo_binaryANDo_binaryANDo_binaryANDo_binaryANDo_binaryANDo_binaryANDo_binaryANDo_binaryANDo_binaryANDo_binaryANDo_binaryANDo_binaryANDo_binaryANDo_binaryANDo_binaryANDo_binaryANDo_binaryANDo_binaryANDo_binaryANDo_binaryANDo_binaryANDo_binaryANDo_binaryANDo_binaryANDo_binaryANDo_binaryANDo_binaryANDo_binaryANDo_binaryANDo_binaryEND_TO_o_array_of_o_tuple_of_o_binaryANDo_binaryANDo_binaryANDo_binaryANDo_binaryANDo_binaryANDo_binaryANDo_binaryANDo_binaryANDo_binaryANDo_binaryANDo_binaryANDo_binaryANDo_binaryANDo_binaryANDo_binaryANDo_binaryANDo_binaryANDo_binaryANDo_binaryANDo_binaryANDo_binaryANDo_binaryANDo_binaryANDo_binaryANDo_binaryANDo_binaryANDo_binaryANDo_binaryANDo_binaryANDo_binaryANDo_binaryANDo_binaryEND 2019-11-14 20:58:46 root: INFO: instruction count: 19: is/hail/codegen/generated/C26.m6_INPLACE_DECODE_o_struct_of_o_binaryANDo_binaryANDo_binaryANDo_binaryANDo_binaryANDo_binaryANDo_binaryANDo_binaryANDo_binaryANDo_binaryANDo_binaryANDo_binaryANDo_binaryANDo_binaryANDo_binaryANDo_binaryANDo_binaryANDo_binaryANDo_binaryANDo_binaryANDo_binaryANDo_binaryANDo_binaryANDo_binaryANDo_binaryANDo_binaryANDo_binaryANDo_binaryANDo_binaryANDo_binaryANDo_binaryANDo_binaryANDo_binaryEND_TO_o_tuple_of_o_binaryANDo_binaryANDo_binaryANDo_binaryANDo_binaryANDo_binaryANDo_binaryANDo_binaryANDo_binaryANDo_binaryANDo_binaryANDo_binaryANDo_binaryANDo_binaryANDo_binaryANDo_binaryANDo_binaryANDo_binaryANDo_binaryANDo_binaryANDo_binaryANDo_binaryANDo_binaryANDo_binaryANDo_binaryANDo_binaryANDo_binaryANDo_binaryANDo_binaryANDo_binaryANDo_binaryANDo_binaryANDo_binaryEND 2019-11-14 20:58:46 root: INFO: instruction count: 828: is/hail/codegen/generated/C26.m7_read_fields_group_0 2019-11-14 20:58:46 root: INFO: instruction count: 29: is/hail/codegen/generated/C26.m8_INPLACE_DECODE_o_binary_TO_o_binary 2019-11-14 20:58:46 root: INFO: instruction count: 30: is/hail/codegen/generated/C26.addLiterals 2019-11-14 20:58:46 root: INFO: Time taken for CompileAndEvaluate.compile: 29.858ms 2019-11-14 20:58:46 root: INFO: Time taken for create compiled function: 2.418ms 2019-11-14 20:58:46 root: INFO: Time taken for run compiled function: 0.015ms 2019-11-14 20:58:46 root: INFO: Time taken for convert to safe value: 1.491ms 2019-11-14 20:58:46 root: INFO: optimize (initial optimization): before: IR size 123: (TableAggregate (MatrixRowsTable (MatrixMapRows (MatrixFilterIntervals "[{\"start\":{\"locus\":{\"contig\":\"chr20\",\"position\":1}},\"end\":{\"locus\":{\"contig\":\"chr20\",\"position\":64444167}},\"includeStart\":true,\"includeEnd\":true}]" True (MatrixRead None False False "{\"name\":\"MatrixNativeReader\",\"path\":\"gs://broad-ukbb/broad.freeze_4/hardcalls/hardcalls.split.mt\",\"_spec\":null}")) (AggLet __cse_1 False (GetField GT (Ref g)) (InsertFields (SelectFields (locus alleles rsid qual filters info a_index was_split) (Ref va)) None (variant_qc (Let __uid_30 (MakeStruct (n_called (ApplyAggOp Sum () None ( (Apply toInt64 Int64 (ApplyUnaryPrimOp Bang (IsNA (Ref __cse_1))))))) (n_not_called (ApplyAggOp Sum () None ( (Apply toInt64 Int64 (IsNA (Ref __cse_1)))))) (n_filtered (ApplyBinaryPrimOp Subtract (TableCount (MatrixColsTable (MatrixFilterIntervals "[{\"start\":{\"locus\":{\"contig\":\"chr20\",\"position\":1}},\"end\":{\"locus\":{\"contig\":\"chr20\",\"position\":64444167}},\"includeStart\":true,\"includeEnd\":true}]" True (MatrixRead None False False "{\"name\":\"MatrixNativeReader\",\"path\":\"gs://broad-ukbb/broad.freeze_4/hardcalls/hardcalls.split.mt\",\"_spec\":null}")))) (ApplyAggOp Count () None ()))) (call_stats (ApplyAggOp CallStats () ( (ArrayLen (GetField alleles (Ref va)))) ( (Ref __cse_1))))) (Let __cse_4 (GetField call_stats (Ref __uid_30)) (Let __cse_8 (GetField homozygote_count (Ref __cse_4)) (Let __cse_5 (GetField n_called (Ref __uid_30)) (Let __cse_6 (GetField n_not_called (Ref __uid_30)) (Let __cse_7 (GetField n_filtered (Ref __uid_30)) (Let __uid_31 (If (ApplyComparisonOp EQ (ArrayLen (GetField alleles (Ref va))) (I32 2)) (Let __cse_2 (GetField call_stats (Ref __uid_30)) (Let __cse_3 (GetField homozygote_count (Ref __cse_2)) (Apply hardy_weinberg_test Struct{het_freq_hwe:Float64,p_value:Float64} (ApplyIR indexArray Int32 (Ref __cse_3) (I32 0)) (ApplyBinaryPrimOp Subtract (ApplyIR indexArray Int32 (GetField AC (Ref __cse_2)) (I32 1)) (ApplyBinaryPrimOp Multiply (I32 2) (ApplyIR indexArray Int32 (Ref __cse_3) (I32 1)))) (ApplyIR indexArray Int32 (Ref __cse_3) (I32 1))))) (NA Struct{het_freq_hwe:Float64,p_value:Float64})) (MakeStruct (AC (GetField AC (Ref __cse_4))) (AF (GetField AF (Ref __cse_4))) (AN (GetField AN (Ref __cse_4))) (homozygote_count (Ref __cse_8)) (call_rate (ApplyBinaryPrimOp FloatingPointDivide (ApplyIR toFloat64 Float64 (Ref __cse_5)) (ApplyIR toFloat64 Float64 (ApplyBinaryPrimOp Add (ApplyBinaryPrimOp Add (Ref __cse_5) (Ref __cse_6)) (Ref __cse_7))))) (n_called (Ref __cse_5)) (n_not_called (Ref __cse_6)) (n_filtered (Ref __cse_7)) (n_het (ApplyBinaryPrimOp Subtract (Ref __cse_5) (ApplyIR toInt64 Int64 (ApplyIR sum Int32 (ArrayFilter __uid_32 (Ref __cse_8) (ApplyUnaryPrimOp Bang (IsNA (Ref __uid_32)))))))) (n_non_ref (ApplyBinaryPrimOp Subtract (Ref __cse_5) (ApplyIR toInt64 Int64 (ApplyIR indexArray Int32 (Ref __cse_8) (I32 0))))) (het_freq_hwe (GetField het_freq_hwe (Ref __uid_31))) (p_value_hwe (GetField p_value (Ref __uid_31)))))))))))))))) (AggGroupBy False (Apply contig String (GetField locus (Ref row))) (ApplyAggOp Count () None ()))) 2019-11-14 20:58:46 root: INFO: Prune: InsertFields: eliminating field 'variant_qc' 2019-11-14 20:58:46 root: INFO: optimize (initial optimization): after: IR size 10: (TableAggregate (TableKeyBy () False (MatrixRowsTable (MatrixFilterIntervals "[{\"start\":{\"locus\":{\"contig\":\"chr20\",\"position\":1}},\"end\":{\"locus\":{\"contig\":\"chr20\",\"position\":64444167}},\"includeStart\":true,\"includeEnd\":true}]" True (MatrixRead Matrix{global:Struct{},col_key:[s],col:Struct{s:String},row_key:[[locus,alleles]],row:Struct{locus:Locus(GRCh38),alleles:Array[String]},entry:Struct{}} False False "{\"name\":\"MatrixNativeReader\",\"path\":\"gs://broad-ukbb/broad.freeze_4/hardcalls/hardcalls.split.mt\",\"_spec\":null}")))) (AggGroupBy False (Apply contig String (GetField locus (Ref row))) (ApplyAggOp Count () None ()))) 2019-11-14 20:58:47 root: INFO: optimize (lower matrix to table, after): before: IR size 21: (TableAggregate (TableKeyBy () False (TableMapRows (TableMapGlobals (TableFilterIntervals "[{\"start\":{\"locus\":{\"contig\":\"chr20\",\"position\":1}},\"end\":{\"locus\":{\"contig\":\"chr20\",\"position\":64444167}},\"includeStart\":true,\"includeEnd\":true}]" True (TableMapGlobals (TableRead Table{global:Struct{},key:[locus,alleles],row:Struct{locus:Locus(GRCh38),alleles:Array[String],`the entries! [877f12a8827e18f61222c6c8c5fb04a8]`:Array[Struct{}]}} False "{\"name\":\"TableNativeZippedReader\",\"pathLeft\":\"gs://broad-ukbb/broad.freeze_4/hardcalls/hardcalls.split.mt/rows\",\"pathRight\":\"gs://broad-ukbb/broad.freeze_4/hardcalls/hardcalls.split.mt/entries\",\"_specLeft\":{\"name\":\"TableSpec\",\"file_version\":65792,\"hail_version\":\"0.2.19-c6ec8b76eb26\",\"references_rel_path\":\"../references\",\"table_type\":\"Table{global:Struct{},key:[locus,alleles],row:Struct{locus:Locus(GRCh38),alleles:Array[String],rsid:String,qual:Float64,filters:Set[String],info:Struct{AC:Array[Int32],AF:Array[Float64],AN:Int32,BaseQRankSum:Float64,DB:Boolean,DP:Int32,FS:Float64,MQ:Float64,MQRankSum:Float64,MQ_DP:Int32,QD:Float64,ReadPosRankSum:Float64,SOR:Float64,VarDP:Int32},a_index:Int32,was_split:Boolean}}\",\"components\":{\"globals\":{\"name\":\"RVDComponentSpec\",\"rel_path\":\"../globals/rows\"},\"rows\":{\"name\":\"RVDComponentSpec\",\"rel_path\":\"rows\"},\"partition_counts\":{\"name\":\"PartitionCountsComponentSpec\",\"counts\":[1479,1293,1359,1348,1245,1316,1080,1089,1327,1330,1316,1414,1426,1298,1432,2533,1267,1338,1125,1440,1407,1311,1269,1313,1348,1243,1471,1493,1632,1387,1637,1393,1341,1398,1350,1405,1453,1444,1497,1549,1351,1500,1447,1363,1216,1233,1360,1371,1269,1476,1433,1506,1493,1367,1704,1392,1482,1397,1542,1435,1333,1350,1362,1690,1548,1442,1417,1507,1471,1377,1312,1361,1173,1561,1605,1424,1627,1450,1494,1403,1563,1544,1484,1436,1313,1401,1192,1332,1474,1582,1453,1440,1314,1491,1442,1311,1170,1486,1579,1536,1336,1391,1308,1275,1402,1347,1453,1288,1452,1548,1452,1283,1222,1319,1239,1385,1384,1320,1517,1267,1401,1340,1237,1366,1358,1521,1510,1527,1606,1418,1310,1421,1616,1405,1458,1458,1406,1451,1416,1453,1604,1148,1417,1362,1543,1659,1441,1510,1395,1432,1367,1295,1330,1377,1423,1355,1227,1357,1611,1414,1448,1416,1590,1357,1431,1413,1515,1514,1554,1538,1490,1525,1342,1453,1418,1465,1397,1149,1423,1423,1357,1522,1441,1328,1386,1315,1388,1254,1546,1514,1503,1536,1663,1534,1505,1359,1441,1563,1507,1424,1542,1329,1341,1453,1669,1486,1460,1534,1515,1353,1337,1456,1283,1332,1386,1470,1533,1577,1402,1458,1505,1056,1429,1573,1458,1598,1505,1487,1396,1321,1319,1118,1502,1586,1496,1613,1417,1701,1543,1490,1422,1430,1071,1456,1534,1582,1468,1454,1398,1543,1387,1473,1495,1528,1472,1409,1242,1683,1537,1496,1359,1536,1402,1371,1430,1409,1297,1236,1395,1343,1310,1498,1436,1391,1483,1545,1444,1318,1375,1336,1157,1447,1309,1425,1573,1425,1323,1467,1257,1538,1416,1366,1291,1476,1351,1464,1718,1592,1444,1860,1446,1600,1703,1535,1602,1476,1703,1452,1547,1424,1594,1593,1483,1615,1281,1492,1676,1348,1446,1510,1489,1569,1843,1586,1736,1768,1675,1490,1316,1367,1566,1569,1623,1475,1601,1551,1418,1364,1320,1618,1478,1631,1691,1817,1484,1574,1678,1481,1499,1118,1619,1440,1449,1585,1555,1603,1557,1593,1349,1702,1792,1665,1522,1666,1582,1666,1507,1543,1210,1416,1644,1527,1739,1560,1624,1753,1590,1461,1367,1422,1487,1670,1822,1449,1534,1884,1770,1713,1423,1707,1573,1448,1510,1465,1640,1512,1499,1276,1615,1600,1662,1885,1625,1558,1615,1596,1705,1535,1616,1629,1795,1559,1446,1655,1542,1374,1402,1304,1357,1571,1450,1547,1506,1607,1492,1368,1383,1527,1310,1493,1541,1639,1315,1430,1571,1291,1570,1448,1504,1544,1672,1515,1497,1527,1622,1495,1692,1484,1653,1429,1565,1473,1482,1416,1814,1574,1545,1575,1355,1495,1500,1949,1931,1654,1785,1637,1443,1539,1668,1810,1558,1424,1618,1879,2195,1880,1808,1476,1491,1543,1519,1468,1313,1295,1807,1512,1442,1407,1432,1439,1582,1423,1575,1329,1576,1700,1569,1394,1466,1289,1348,1526,1460,1443,1255,1239,1246,1023,1370,1334,1363,1247,1537,1500,1528,1584,1517,1417,1534,1660,1551,1448,1355,1442,1373,1513,1510,1572,1412,1362,1449,1349,1229,1444,1518,1471,1263,1532,1564,1569,1706,1501,1345,1469,1442,1287,1393,1473,1445,1462,1475,1295,1431,1414,1401,1474,1294,1388,1435,1445,1439,1480,1424,1475,1332,1456,1331,1423,1544,1486,1430,1317,1389,1429,1388,1342,1421,1534,1462,1562,1510,1445,1319,1415,1365,1407,1226,1456,1430,1451,1466,1391,1514,1702,1478,1200,1474,1575,1380,1523,1500,1622,1515,1506,1531,1312,1457,1569,1662,1504,1547,1698,1281,1513,1375,1213,1644,1627,1613,1722,1561,1440,1480,1238,1641,1492,1343,1430,1494,1511,1429,1573,1475,1439,1555,1590,1457,1485,1584,1523,1616,1517,1488,1583,1478,1513,1604,1469,1342,1544,1548,1416,1682,1690,1535,1482,1232,1509,1731,1823,1557,1397,1742,1879,1520,1494,1616,1253,1518,1299,1487,1689,1507,1628,1599,1387,1455,1491,1434,1207,961,1427,1398,1335,1509,1551,1381,1376,1457,1361,1525,1538,1427,1365,1461,1462,1437,1549,1528,1635,1587,1657,1489,1536,1439,1386,1391,1410,1315,1270,1404,1510,1503,1602,1528,1454,1455,1459,1599,1500,1506,1431,1494,1423,1434,1473,1360,1482,1511,1230,1738,1506,1263,1282,1516,1579,1499,1431,1175,1859,1407,1449,1386,1821,1620,1571,1703,1620,1771,1455,1442,1459,1498,1342,1402,1484,1680,1520,1308,1478,1547,1416,1520,1434,1377,1664,1575,1349,1340,1673,1541,1328,1330,1483,1458,1309,1291,1367,1370,1424,1384,1325,1422,1279,1464,1527,1348,1391,1432,1456,1567,1242,1313,1808,1302,1412,1456,1463,1419,1489,1479,1473,1368,156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(InsertFields (Ref global) None (__cols (GetField rows (TableCollect (TableRead Table{global:Struct{},key:[],row:Struct{s:String}} False "{\"name\":\"TableNativeReader\",\"path\":\"gs://broad-ukbb/broad.freeze_4/hardcalls/hardcalls.split.mt/cols\",\"_spec\":{\"name\":\"TableSpec\",\"file_version\":65792,\"hail_version\":\"0.2.19-c6ec8b76eb26\",\"references_rel_path\":\"../references\",\"table_type\":\"Table{global:Struct{},key:[s],row:Struct{s:String}}\",\"components\":{\"globals\":{\"name\":\"RVDComponentSpec\",\"rel_path\":\"../globals/rows\"},\"rows\":{\"name\":\"RVDComponentSpec\",\"rel_path\":\"rows\"},\"partition_counts\":{\"name\":\"PartitionCountsComponentSpec\",\"counts\":[100221]}}}}"))))))) (SelectFields () (Ref global))) (SelectFields (locus alleles) (Ref row)))) (AggGroupBy False (Apply contig String (GetField locus (Ref row))) (ApplyAggOp Count () None ()))) 2019-11-14 20:58:47 root: INFO: optimize (lower matrix to table, after): after: IR size 9: (TableAggregate (TableKeyBy () False (TableRead Table{global:Struct{},key:[locus,alleles],row:Struct{locus:Locus(GRCh38),alleles:Array[String]}} False "{\"name\":\"TableNativeZippedReader\",\"pathLeft\":\"gs://broad-ukbb/broad.freeze_4/hardcalls/hardcalls.split.mt/rows\",\"pathRight\":\"gs://broad-ukbb/broad.freeze_4/hardcalls/hardcalls.split.mt/entries\",\"options\":{\"name\":\"NativeReaderOptions\",\"intervals\":[{\"start\":{\"locus\":{\"contig\":\"chr20\",\"position\":1}},\"end\":{\"locus\":{\"contig\":\"chr20\",\"position\":64444167}},\"includeStart\":true,\"includeEnd\":true}],\"intervalPointType\":\"Struct{locus:Locus(GRCh38),alleles:Array[String]}\",\"filterIntervals\":true},\"_specLeft\":{\"name\":\"TableSpec\",\"file_version\":65792,\"hail_version\":\"0.2.19-c6ec8b76eb26\",\"references_rel_path\":\"../references\",\"table_type\":\"Table{global:Struct{},key:[locus,alleles],row:Struct{locus:Locus(GRCh38),alleles:Array[String],rsid:String,qual:Float64,filters:Set[String],info:Struct{AC:Array[Int32],AF:Array[Float64],AN:Int32,BaseQRankSum:Float64,DB:Boolean,DP:Int32,FS:Float64,MQ:Float64,MQRankSum:Float64,MQ_DP:Int32,QD:Float64,ReadPosRankSum:Float64,SOR:Float64,VarDP:Int32},a_index:Int32,was_split:Boolean}}\",\"components\":{\"globals\":{\"name\":\"RVDComponentSpec\",\"rel_path\":\"../globals/rows\"},\"rows\":{\"name\":\"RVDComponentSpec\",\"rel_path\":\"rows\"},\"partition_counts\":{\"name\":\"PartitionCountsComponentSpec\",\"counts\":[1479,1293,1359,1348,1245,1316,1080,1089,1327,1330,1316,1414,1426,1298,1432,2533,1267,1338,1125,1440,1407,1311,1269,1313,1348,1243,1471,1493,1632,1387,1637,1393,1341,1398,1350,1405,1453,1444,1497,1549,1351,1500,1447,1363,1216,1233,1360,1371,1269,1476,1433,1506,1493,1367,1704,1392,1482,1397,1542,1435,1333,1350,1362,1690,1548,1442,1417,1507,1471,1377,1312,1361,1173,1561,1605,1424,1627,1450,1494,1403,1563,1544,1484,1436,1313,1401,1192,1332,1474,1582,1453,1440,1314,1491,1442,1311,1170,1486,1579,1536,1336,1391,1308,1275,1402,1347,1453,1288,1452,1548,1452,1283,1222,1319,1239,1385,1384,1320,1517,1267,1401,1340,1237,1366,1358,1521,1510,1527,1606,1418,1310,1421,1616,1405,1458,1458,1406,1451,1416,1453,1604,1148,1417,1362,1543,1659,1441,1510,1395,1432,1367,1295,1330,1377,1423,1355,1227,1357,1611,1414,1448,1416,1590,1357,1431,1413,1515,1514,1554,1538,1490,1525,1342,1453,1418,1465,1397,1149,1423,1423,1357,1522,1441,1328,1386,1315,1388,1254,1546,1514,1503,1536,1663,1534,1505,1359,1441,1563,1507,1424,1542,1329,1341,1453,1669,1486,1460,1534,1515,1353,1337,1456,1283,1332,1386,1470,1533,1577,1402,1458,1505,1056,1429,1573,1458,1598,1505,1487,1396,1321,1319,1118,1502,1586,1496,1613,1417,1701,1543,1490,1422,1430,1071,1456,1534,1582,1468,1454,1398,1543,1387,1473,1495,1528,1472,1409,1242,1683,1537,1496,1359,1536,1402,1371,1430,1409,1297,1236,1395,1343,1310,1498,1436,1391,1483,1545,1444,1318,1375,1336,1157,1447,1309,1425,1573,1425,1323,1467,1257,1538,1416,1366,1291,1476,1351,1464,1718,1592,1444,1860,1446,1600,1703,1535,1602,1476,1703,1452,1547,1424,1594,1593,1483,1615,1281,1492,1676,1348,1446,1510,1489,1569,1843,1586,1736,1768,1675,1490,1316,1367,1566,1569,1623,1475,1601,1551,1418,1364,1320,1618,1478,1631,1691,1817,1484,1574,1678,1481,1499,1118,1619,1440,1449,1585,1555,1603,1557,1593,1349,1702,1792,1665,1522,1666,1582,1666,1507,1543,1210,1416,1644,1527,1739,1560,1624,1753,1590,1461,1367,1422,1487,1670,1822,1449,1534,1884,1770,1713,1423,1707,1573,1448,1510,1465,1640,1512,1499,1276,1615,1600,1662,1885,1625,1558,1615,1596,1705,1535,1616,1629,1795,1559,1446,1655,1542,1374,1402,1304,1357,1571,1450,1547,1506,1607,1492,1368,1383,1527,1310,1493,1541,1639,1315,1430,1571,1291,1570,1448,1504,1544,1672,1515,1497,1527,1622,1495,1692,1484,1653,1429,1565,1473,1482,1416,1814,1574,1545,1575,1355,1495,1500,1949,1931,1654,1785,1637,1443,1539,1668,1810,1558,1424,1618,1879,2195,1880,1808,1476,1491,1543,1519,1468,1313,1295,1807,1512,1442,1407,1432,1439,1582,1423,1575,1329,1576,1700,1569,1394,1466,1289,1348,1526,1460,1443,1255,1239,1246,1023,1370,1334,1363,1247,1537,1500,1528,1584,1517,1417,1534,1660,1551,1448,1355,1442,1373,1513,1510,1572,1412,1362,1449,1349,1229,1444,1518,1471,1263,1532,1564,1569,1706,1501,1345,1469,1442,1287,1393,1473,1445,1462,1475,1295,1431,1414,1401,1474,1294,1388,1435,1445,1439,1480,1424,1475,1332,1456,1331,1423,1544,1486,1430,1317,1389,1429,1388,1342,1421,1534,1462,1562,1510,1445,1319,1415,1365,1407,1226,1456,1430,1451,1466,1391,1514,1702,1478,1200,1474,1575,1380,1523,1500,1622,1515,1506,1531,1312,1457,1569,1662,1504,1547,1698,1281,1513,1375,1213,1644,1627,1613,1722,1561,1440,1480,1238,1641,1492,1343,1430,1494,1511,1429,1573,1475,1439,1555,1590,1457,1485,1584,1523,1616,1517,1488,1583,1478,1513,1604,1469,1342,1544,1548,1416,1682,1690,1535,1482,1232,1509,1731,1823,1557,1397,1742,1879,1520,1494,1616,1253,1518,1299,1487,1689,1507,1628,1599,1387,1455,1491,1434,1207,961,1427,1398,1335,1509,1551,1381,1376,1457,1361,1525,1538,1427,1365,1461,1462,1437,1549,1528,1635,1587,1657,1489,1536,1439,1386,1391,1410,1315,1270,1404,1510,1503,1602,1528,1454,1455,1459,1599,1500,1506,1431,1494,1423,1434,1473,1360,1482,1511,1230,1738,1506,1263,1282,1516,1579,1499,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(AggGroupBy False (Apply contig String (GetField locus (SelectFields (locus) (Ref row)))) (ApplyAggOp Count () None ()))) 2019-11-14 20:58:47 root: INFO: interpreting non compilable node: TableAggregate(TableKeyBy(TableRead(Table{global:Struct{},key:[locus,alleles],row:Struct{locus:Locus(GRCh38),alleles:Array[String]}},false,TableNativeZippedReader(gs://broad-ukbb/broad.freeze_4/hardcalls/hardcalls.split.mt/rows,gs://broad-ukbb/broad.freeze_4/hardcalls/hardcalls.split.mt/entries,Some(NativeReaderOptions(WrappedArray([[chr20:1]-[chr20:64444167]]),struct{locus: locus, alleles: array},true)),TableSpec(65792,0.2.19-c6ec8b76eb26,../references,Table{global:Struct{},key:[locus,alleles],row:Struct{locus:Locus(GRCh38),alleles:Array[String],rsid:String,qual:Float64,filters:Set[String],info:Struct{AC:Array[Int32],AF:Array[Float64],AN:Int32,BaseQRankSum:Float64,DB:Boolean,DP:Int32,FS:Float64,MQ:Float64,MQRankSum:Float64,MQ_DP:Int32,QD:Float64,ReadPosRankSum:Float64,SOR:Float64,VarDP:Int32},a_index:Int32,was_split:Boolean}},Map(globals -> RVDComponentSpec(../globals/rows), rows -> RVDComponentSpec(rows), partition_counts -> PartitionCountsComponentSpec(List(1479, 1293, 1359, 1348, 1245, 1316, 1080, 1089, 1327, 1330, 1316, 1414, 1426, 1298, 1432, 2533, 1267, 1338, 1125, 1440, 1407, 1311, 1269, 1313, 1348, 1243, 1471, 1493, 1632, 1387, 1637, 1393, 1341, 1398, 1350, 1405, 1453, 1444, 1497, 1549, 1351, 1500, 1447, 1363, 1216, 1233, 1360, 1371, 1269, 1476, 1433, 1506, 1493, 1367, 1704, 1392, 1482, 1397, 1542, 1435, 1333, 1350, 1362, 1690, 1548, 1442, 1417, 1507, 1471, 1377, 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1441, 1244, 1252, 1501, 1349, 1574, 1733, 1325, 1167, 1426, 1592, 1476, 1683, 1651, 1616, 1427, 1665, 1432, 1539, 1372, 1500, 1568, 1364, 1418, 1435, 1713, 1387, 1450, 1577, 1763, 1683, 1860, 1821, 1571, 1588, 1665, 1479, 1762, 1733, 1605, 1319, 1490, 1698, 1632, 1344, 1519, 1516, 1654, 1583, 1719, 1774, 1480, 1157, 1367, 1637, 1798, 1496, 1403, 1452, 1481, 1203, 1572, 1904, 1393, 1223, 1269, 1526, 1159, 1583, 1468, 1376, 1376, 1424, 1577, 1458, 1753, 1641, 1584, 1408, 1627, 1456, 1358, 1581, 1657, 1248, 1293, 1255, 1211, 1446, 1218, 1441, 1356, 1232, 1383, 1350, 1307, 1418, 1567, 1462, 1345, 1451, 1410, 1482, 1190, 1326, 1449, 1532, 1625, 1406, 1419, 1206, 1345, 1298, 1450, 1193, 1600, 1511, 1455, 1621, 1694, 1661, 1568, 1420, 1478, 1729, 1534, 1498, 1569, 1259, 1271, 1556, 1315, 1292, 1267, 1458, 1394, 1456, 1387, 1393, 1318, 1541, 1151, 1334, 1358, 1560, 1519, 1381, 1559, 1529, 1419, 1407, 1258, 1356, 1190, 1423, 1416, 1206, 1454, 1223, 1615, 1662, 1688, 1503, 1388, 1412, 1402, 1426, 1391, 1690, 1384, 1426, 1526, 1559, 1542, 1734, 1640, 1510, 1597, 1453, 1457, 1240, 1443, 1575, 1461, 1333, 1482, 1449, 1550, 1400, 1631, 1445, 902, 1310, 1336, 1097, 1343, 1204, 1350, 1364, 1398, 1723, 1756, 1520, 1603, 1484, 1463, 1496, 1061, 1462, 1444, 1570, 1650, 1633, 1299, 1754, 1704, 1474, 1370, 1813, 1797, 1445, 1519, 1192, 1618, 1873, 1405, 1076, 1749, 1625, 1509, 1453, 1561, 1612, 1857, 1360, 1311, 1483, 1313, 1508, 1566, 1408, 1340, 1672, 1455, 1301, 1685, 1633, 1682, 1632, 1535, 1269, 1589, 1711, 1662, 1396, 1248, 1381, 1501, 1840, 1574, 1358, 1427, 1649, 1049, 1500, 1629, 1412, 1430, 1833, 1627, 1537, 1620, 1581, 1080, 1617, 1636, 1550, 1281, 1327, 1701, 1647, 1645, 1330, 1235, 860, 1087, 1437, 1525, 1552, 1527, 1267, 1352, 1689, 1421, 1298, 1236, 1266, 1548, 1418, 1400, 1366, 1476, 1555, 1176, 1219, 1150, 1210, 1148, 1062, 1273, 1288, 1290, 1270, 846, 1253, 1398, 1374, 1291, 1304, 1062, 1237, 1256, 1547, 1354, 1168, 1203, 1418, 1270, 1533, 1555, 1397, 1588, 1938, 2242, 2513, 1971)))))),WrappedArray(),false),AggGroupBy(Apply(contig,ArrayBuffer(GetField(SelectFields(Ref(row,struct{locus: locus, alleles: array}),WrappedArray(locus)),locus)),str),ApplyAggOp(ArrayBuffer(),None,ArrayBuffer(),AggSignature(Count(),ArrayBuffer(),None,ArrayBuffer())),false)) 2019-11-14 20:58:47 root: INFO: instruction count: 3: is/hail/codegen/generated/C_etypeDecode_28. 2019-11-14 20:58:47 root: INFO: instruction count: 7: is/hail/codegen/generated/C_etypeDecode_28.apply 2019-11-14 20:58:47 root: INFO: instruction count: 14: is/hail/codegen/generated/C_etypeDecode_28.m0_DECODE_o_struct_of_END_TO_o_tuple_of_END 2019-11-14 20:58:48 root: INFO: instruction count: 3: is/hail/codegen/generated/C_etypeDecode_29. 2019-11-14 20:58:48 root: INFO: instruction count: 7: is/hail/codegen/generated/C_etypeDecode_29.apply 2019-11-14 20:58:48 root: INFO: instruction count: 27: is/hail/codegen/generated/C_etypeDecode_29.m0_DECODE_o_struct_of_o_struct_of_r_binaryANDr_int32ENDANDo_array_of_o_binaryANDo_binaryANDo_float64ANDo_array_of_o_binaryANDo_struct_of_o_array_of_o_int32ANDo_array_of_o_float64ANDo_int32ANDo_float64ANDo_boolANDo_int32ANDo_float64ANDo_float64ANDo_float64ANDo_int32ANDo_float64ANDo_float64ANDo_float64ANDo_int32ENDANDo_int32ANDo_boolEND_TO_o_tuple_of_o_locusANDo_array_of_o_stringEND 2019-11-14 20:58:48 root: INFO: instruction count: 137: is/hail/codegen/generated/C_etypeDecode_29.m1_read_fields_group_0 2019-11-14 20:58:48 root: INFO: instruction count: 14: is/hail/codegen/generated/C_etypeDecode_29.m2_INPLACE_DECODE_o_struct_of_r_binaryANDr_int32END_TO_o_tuple_of_r_binaryANDr_int32END 2019-11-14 20:58:48 root: INFO: instruction count: 17: is/hail/codegen/generated/C_etypeDecode_29.m3_read_fields_group_0 2019-11-14 20:58:48 root: INFO: instruction count: 29: is/hail/codegen/generated/C_etypeDecode_29.m4_INPLACE_DECODE_r_binary_TO_r_binary 2019-11-14 20:58:48 root: INFO: instruction count: 8: is/hail/codegen/generated/C_etypeDecode_29.m5_INPLACE_DECODE_r_int32_TO_r_int32 2019-11-14 20:58:48 root: INFO: instruction count: 99: is/hail/codegen/generated/C_etypeDecode_29.m6_INPLACE_DECODE_o_array_of_o_binary_TO_o_array_of_o_binary 2019-11-14 20:58:48 root: INFO: instruction count: 29: is/hail/codegen/generated/C_etypeDecode_29.m7_INPLACE_DECODE_o_binary_TO_o_binary 2019-11-14 20:58:48 root: INFO: instruction count: 9: is/hail/codegen/generated/C_etypeDecode_29.m8_SKIP_o_binary 2019-11-14 20:58:48 root: INFO: instruction count: 5: is/hail/codegen/generated/C_etypeDecode_29.m9_SKIP_o_float64 2019-11-14 20:58:48 root: INFO: instruction count: 54: is/hail/codegen/generated/C_etypeDecode_29.m10_SKIP_o_array_of_o_binary 2019-11-14 20:58:48 root: INFO: instruction count: 218: is/hail/codegen/generated/C_etypeDecode_29.m11_SKIP_o_struct_of_o_array_of_o_int32ANDo_array_of_o_float64ANDo_int32ANDo_float64ANDo_boolANDo_int32ANDo_float64ANDo_float64ANDo_float64ANDo_int32ANDo_float64ANDo_float64ANDo_float64ANDo_int32END 2019-11-14 20:58:48 root: INFO: instruction count: 54: is/hail/codegen/generated/C_etypeDecode_29.m12_SKIP_o_array_of_o_int32 2019-11-14 20:58:48 root: INFO: instruction count: 5: is/hail/codegen/generated/C_etypeDecode_29.m13_SKIP_o_int32 2019-11-14 20:58:48 root: INFO: instruction count: 54: is/hail/codegen/generated/C_etypeDecode_29.m14_SKIP_o_array_of_o_float64 2019-11-14 20:58:48 root: INFO: instruction count: 5: is/hail/codegen/generated/C_etypeDecode_29.m15_SKIP_o_bool 2019-11-14 20:58:48 root: INFO: instruction count: 3: is/hail/codegen/generated/C_etypeDecode_30. 2019-11-14 20:58:48 root: INFO: instruction count: 7: is/hail/codegen/generated/C_etypeDecode_30.apply 2019-11-14 20:58:48 root: INFO: instruction count: 20: is/hail/codegen/generated/C_etypeDecode_30.m0_DECODE_o_struct_of_r_int64ANDr_array_of_r_struct_of_o_struct_of_o_struct_of_r_binaryANDr_int32ENDANDo_array_of_o_binaryENDANDr_int64ANDr_struct_of_o_int64ENDENDEND_TO_o_tuple_of_r_int64ANDr_array_of_r_tuple_of_o_tuple_of_o_locusANDo_array_of_o_stringENDANDr_int64ANDr_tuple_of_o_int64ENDENDEND 2019-11-14 20:58:48 root: INFO: instruction count: 17: is/hail/codegen/generated/C_etypeDecode_30.m1_read_fields_group_0 2019-11-14 20:58:48 root: INFO: instruction count: 8: is/hail/codegen/generated/C_etypeDecode_30.m2_INPLACE_DECODE_r_int64_TO_r_int64 2019-11-14 20:58:48 root: INFO: instruction count: 51: is/hail/codegen/generated/C_etypeDecode_30.m3_INPLACE_DECODE_r_array_of_r_struct_of_o_struct_of_o_struct_of_r_binaryANDr_int32ENDANDo_array_of_o_binaryENDANDr_int64ANDr_struct_of_o_int64ENDEND_TO_r_array_of_r_tuple_of_o_tuple_of_o_tuple_of_r_binaryANDr_int32ENDANDo_array_of_o_binaryENDANDr_int64ANDr_tuple_of_o_int64ENDEND 2019-11-14 20:58:48 root: INFO: instruction count: 21: is/hail/codegen/generated/C_etypeDecode_30.m4_INPLACE_DECODE_r_struct_of_o_struct_of_o_struct_of_r_binaryANDr_int32ENDANDo_array_of_o_binaryENDANDr_int64ANDr_struct_of_o_int64ENDEND_TO_r_tuple_of_o_tuple_of_o_tuple_of_r_binaryANDr_int32ENDANDo_array_of_o_binaryENDANDr_int64ANDr_tuple_of_o_int64ENDEND 2019-11-14 20:58:48 root: INFO: instruction count: 42: is/hail/codegen/generated/C_etypeDecode_30.m5_read_fields_group_0 2019-11-14 20:58:48 root: INFO: instruction count: 21: is/hail/codegen/generated/C_etypeDecode_30.m6_INPLACE_DECODE_o_struct_of_o_struct_of_r_binaryANDr_int32ENDANDo_array_of_o_binaryEND_TO_o_tuple_of_o_tuple_of_r_binaryANDr_int32ENDANDo_array_of_o_binaryEND 2019-11-14 20:58:48 root: INFO: instruction count: 53: is/hail/codegen/generated/C_etypeDecode_30.m7_read_fields_group_0 2019-11-14 20:58:48 root: INFO: instruction count: 14: is/hail/codegen/generated/C_etypeDecode_30.m8_INPLACE_DECODE_o_struct_of_r_binaryANDr_int32END_TO_o_tuple_of_r_binaryANDr_int32END 2019-11-14 20:58:48 root: INFO: instruction count: 17: is/hail/codegen/generated/C_etypeDecode_30.m9_read_fields_group_0 2019-11-14 20:58:48 root: INFO: instruction count: 29: is/hail/codegen/generated/C_etypeDecode_30.m10_INPLACE_DECODE_r_binary_TO_r_binary 2019-11-14 20:58:48 root: INFO: instruction count: 8: is/hail/codegen/generated/C_etypeDecode_30.m11_INPLACE_DECODE_r_int32_TO_r_int32 2019-11-14 20:58:48 root: INFO: instruction count: 99: is/hail/codegen/generated/C_etypeDecode_30.m12_INPLACE_DECODE_o_array_of_o_binary_TO_o_array_of_o_binary 2019-11-14 20:58:48 root: INFO: instruction count: 29: is/hail/codegen/generated/C_etypeDecode_30.m13_INPLACE_DECODE_o_binary_TO_o_binary 2019-11-14 20:58:48 root: INFO: instruction count: 21: is/hail/codegen/generated/C_etypeDecode_30.m14_INPLACE_DECODE_r_struct_of_o_int64END_TO_r_tuple_of_o_int64END 2019-11-14 20:58:48 root: INFO: instruction count: 28: is/hail/codegen/generated/C_etypeDecode_30.m15_read_fields_group_0 2019-11-14 20:58:48 root: INFO: instruction count: 8: is/hail/codegen/generated/C_etypeDecode_30.m16_INPLACE_DECODE_o_int64_TO_o_int64 2019-11-14 20:58:48 root: INFO: instruction count: 3: is/hail/codegen/generated/C_etypeDecode_31. 2019-11-14 20:58:48 root: INFO: instruction count: 7: is/hail/codegen/generated/C_etypeDecode_31.apply 2019-11-14 20:58:48 root: INFO: instruction count: 20: is/hail/codegen/generated/C_etypeDecode_31.m0_DECODE_o_struct_of_r_array_of_r_struct_of_r_int64ANDr_int64ANDo_struct_of_o_struct_of_r_binaryANDr_int32ENDANDo_array_of_o_binaryENDANDr_int64ANDr_struct_of_o_int64ENDENDEND_TO_o_tuple_of_r_array_of_r_tuple_of_r_int64ANDr_int64ANDo_tuple_of_o_locusANDo_array_of_o_stringENDANDr_int64ANDr_tuple_of_o_int64ENDENDEND 2019-11-14 20:58:48 root: INFO: instruction count: 10: is/hail/codegen/generated/C_etypeDecode_31.m1_read_fields_group_0 2019-11-14 20:58:48 root: INFO: instruction count: 51: is/hail/codegen/generated/C_etypeDecode_31.m2_INPLACE_DECODE_r_array_of_r_struct_of_r_int64ANDr_int64ANDo_struct_of_o_struct_of_r_binaryANDr_int32ENDANDo_array_of_o_binaryENDANDr_int64ANDr_struct_of_o_int64ENDEND_TO_r_array_of_r_tuple_of_r_int64ANDr_int64ANDo_tuple_of_o_tuple_of_r_binaryANDr_int32ENDANDo_array_of_o_binaryENDANDr_int64ANDr_tuple_of_o_int64ENDEND 2019-11-14 20:58:48 root: INFO: instruction count: 21: is/hail/codegen/generated/C_etypeDecode_31.m3_INPLACE_DECODE_r_struct_of_r_int64ANDr_int64ANDo_struct_of_o_struct_of_r_binaryANDr_int32ENDANDo_array_of_o_binaryENDANDr_int64ANDr_struct_of_o_int64ENDEND_TO_r_tuple_of_r_int64ANDr_int64ANDo_tuple_of_o_tuple_of_r_binaryANDr_int32ENDANDo_array_of_o_binaryENDANDr_int64ANDr_tuple_of_o_int64ENDEND 2019-11-14 20:58:48 root: INFO: instruction count: 56: is/hail/codegen/generated/C_etypeDecode_31.m4_read_fields_group_0 2019-11-14 20:58:48 root: INFO: instruction count: 8: is/hail/codegen/generated/C_etypeDecode_31.m5_INPLACE_DECODE_r_int64_TO_r_int64 2019-11-14 20:58:48 root: INFO: instruction count: 21: is/hail/codegen/generated/C_etypeDecode_31.m6_INPLACE_DECODE_o_struct_of_o_struct_of_r_binaryANDr_int32ENDANDo_array_of_o_binaryEND_TO_o_tuple_of_o_tuple_of_r_binaryANDr_int32ENDANDo_array_of_o_binaryEND 2019-11-14 20:58:48 root: INFO: instruction count: 53: is/hail/codegen/generated/C_etypeDecode_31.m7_read_fields_group_0 2019-11-14 20:58:48 root: INFO: instruction count: 14: is/hail/codegen/generated/C_etypeDecode_31.m8_INPLACE_DECODE_o_struct_of_r_binaryANDr_int32END_TO_o_tuple_of_r_binaryANDr_int32END 2019-11-14 20:58:48 root: INFO: instruction count: 17: is/hail/codegen/generated/C_etypeDecode_31.m9_read_fields_group_0 2019-11-14 20:58:48 root: INFO: instruction count: 29: is/hail/codegen/generated/C_etypeDecode_31.m10_INPLACE_DECODE_r_binary_TO_r_binary 2019-11-14 20:58:48 root: INFO: instruction count: 8: is/hail/codegen/generated/C_etypeDecode_31.m11_INPLACE_DECODE_r_int32_TO_r_int32 2019-11-14 20:58:48 root: INFO: instruction count: 99: is/hail/codegen/generated/C_etypeDecode_31.m12_INPLACE_DECODE_o_array_of_o_binary_TO_o_array_of_o_binary 2019-11-14 20:58:48 root: INFO: instruction count: 29: is/hail/codegen/generated/C_etypeDecode_31.m13_INPLACE_DECODE_o_binary_TO_o_binary 2019-11-14 20:58:48 root: INFO: instruction count: 21: is/hail/codegen/generated/C_etypeDecode_31.m14_INPLACE_DECODE_r_struct_of_o_int64END_TO_r_tuple_of_o_int64END 2019-11-14 20:58:48 root: INFO: instruction count: 28: is/hail/codegen/generated/C_etypeDecode_31.m15_read_fields_group_0 2019-11-14 20:58:48 root: INFO: instruction count: 8: is/hail/codegen/generated/C_etypeDecode_31.m16_INPLACE_DECODE_o_int64_TO_o_int64 2019-11-14 20:58:48 root: INFO: instruction count: 3: is/hail/codegen/generated/C_etypeEncode_32. 2019-11-14 20:58:48 root: INFO: instruction count: 7: is/hail/codegen/generated/C_etypeEncode_32.apply 2019-11-14 20:58:48 root: INFO: instruction count: 7: is/hail/codegen/generated/C_etypeEncode_32.m0_ENCODE_o_tuple_of_END_TO_o_struct_of_END 2019-11-14 20:58:48 root: INFO: instruction count: 3: is/hail/codegen/generated/C_etypeDecode_33. 2019-11-14 20:58:48 root: INFO: instruction count: 7: is/hail/codegen/generated/C_etypeDecode_33.apply 2019-11-14 20:58:48 root: INFO: instruction count: 14: is/hail/codegen/generated/C_etypeDecode_33.m0_DECODE_o_struct_of_END_TO_o_tuple_of_END 2019-11-14 20:58:48 MemoryStore: INFO: Block broadcast_12 stored as values in memory (estimated size 2.6 KB, free 21.7 GB) 2019-11-14 20:58:48 MemoryStore: INFO: Block broadcast_12_piece0 stored as bytes in memory (estimated size 937.0 B, free 21.7 GB) 2019-11-14 20:58:48 BlockManagerInfo: INFO: Added broadcast_12_piece0 in memory on kc1-m.c.maclab-ukbb.internal:33975 (size: 937.0 B, free: 21.7 GB) 2019-11-14 20:58:48 SparkContext: INFO: Created broadcast 12 from broadcast at SparkBackend.scala:21 2019-11-14 20:58:48 root: INFO: optimize (Compile): before: IR size 4: (Begin (InitOp2 0 (Group (+Void) (String +Void) ( (Count () () None))) ( (Begin (InitOp2 0 (Count () () None) ()))))) 2019-11-14 20:58:48 root: INFO: optimize (Compile): after: IR size 4: (Begin (InitOp2 0 (Group (+Void) (String +Void) ( (Count () () None))) ( (Begin (InitOp2 0 (Count () () None) ()))))) 2019-11-14 20:58:48 ContextCleaner: INFO: Cleaned accumulator 91 2019-11-14 20:58:48 ContextCleaner: INFO: Cleaned accumulator 88 2019-11-14 20:58:48 ContextCleaner: INFO: Cleaned accumulator 98 2019-11-14 20:58:48 ContextCleaner: INFO: Cleaned accumulator 53 2019-11-14 20:58:48 ContextCleaner: INFO: Cleaned accumulator 87 2019-11-14 20:58:48 ContextCleaner: INFO: Cleaned accumulator 52 2019-11-14 20:58:48 ContextCleaner: INFO: Cleaned accumulator 86 2019-11-14 20:58:48 ContextCleaner: INFO: Cleaned accumulator 64 2019-11-14 20:58:48 ContextCleaner: INFO: Cleaned accumulator 72 2019-11-14 20:58:48 ContextCleaner: INFO: Cleaned accumulator 51 2019-11-14 20:58:48 ContextCleaner: INFO: Cleaned accumulator 78 2019-11-14 20:58:48 ContextCleaner: INFO: Cleaned accumulator 83 2019-11-14 20:58:48 ContextCleaner: INFO: Cleaned accumulator 80 2019-11-14 20:58:48 ContextCleaner: INFO: Cleaned accumulator 60 2019-11-14 20:58:48 ContextCleaner: INFO: Cleaned accumulator 93 2019-11-14 20:58:48 ContextCleaner: INFO: Cleaned accumulator 84 2019-11-14 20:58:48 ContextCleaner: INFO: Cleaned accumulator 77 2019-11-14 20:58:48 ContextCleaner: INFO: Cleaned accumulator 62 2019-11-14 20:58:48 ContextCleaner: INFO: Cleaned accumulator 99 2019-11-14 20:58:48 ContextCleaner: INFO: Cleaned accumulator 71 2019-11-14 20:58:48 ContextCleaner: INFO: Cleaned accumulator 66 2019-11-14 20:58:48 ContextCleaner: INFO: Cleaned accumulator 74 2019-11-14 20:58:48 BlockManagerInfo: INFO: Removed broadcast_8_piece0 on kc1-m.c.maclab-ukbb.internal:33975 in memory (size: 77.1 KB, free: 21.7 GB) 2019-11-14 20:58:48 BlockManagerInfo: INFO: Removed broadcast_8_piece0 on kc1-w-0.c.maclab-ukbb.internal:41051 in memory (size: 77.1 KB, free: 9.5 GB) 2019-11-14 20:58:48 ContextCleaner: INFO: Cleaned accumulator 59 2019-11-14 20:58:48 ContextCleaner: INFO: Cleaned accumulator 67 2019-11-14 20:58:48 ContextCleaner: INFO: Cleaned accumulator 68 2019-11-14 20:58:48 ContextCleaner: INFO: Cleaned accumulator 76 2019-11-14 20:58:48 ContextCleaner: INFO: Cleaned accumulator 63 2019-11-14 20:58:48 ContextCleaner: INFO: Cleaned accumulator 95 2019-11-14 20:58:48 ContextCleaner: INFO: Cleaned accumulator 61 2019-11-14 20:58:48 ContextCleaner: INFO: Cleaned accumulator 56 2019-11-14 20:58:48 ContextCleaner: INFO: Cleaned accumulator 96 2019-11-14 20:58:48 ContextCleaner: INFO: Cleaned accumulator 89 2019-11-14 20:58:48 ContextCleaner: INFO: Cleaned accumulator 100 2019-11-14 20:58:48 ContextCleaner: INFO: Cleaned accumulator 94 2019-11-14 20:58:48 ContextCleaner: INFO: Cleaned accumulator 58 2019-11-14 20:58:48 ContextCleaner: INFO: Cleaned accumulator 85 2019-11-14 20:58:48 ContextCleaner: INFO: Cleaned accumulator 70 2019-11-14 20:58:48 ContextCleaner: INFO: Cleaned accumulator 69 2019-11-14 20:58:48 ContextCleaner: INFO: Cleaned accumulator 54 2019-11-14 20:58:48 ContextCleaner: INFO: Cleaned accumulator 97 2019-11-14 20:58:48 ContextCleaner: INFO: Cleaned accumulator 82 2019-11-14 20:58:48 ContextCleaner: INFO: Cleaned accumulator 55 2019-11-14 20:58:48 ContextCleaner: INFO: Cleaned accumulator 79 2019-11-14 20:58:48 ContextCleaner: INFO: Cleaned accumulator 57 2019-11-14 20:58:48 ContextCleaner: INFO: Cleaned accumulator 65 2019-11-14 20:58:48 ContextCleaner: INFO: Cleaned accumulator 90 2019-11-14 20:58:48 ContextCleaner: INFO: Cleaned accumulator 92 2019-11-14 20:58:48 root: INFO: instruction count: 3: is/hail/codegen/generated/C34. 2019-11-14 20:58:48 root: INFO: instruction count: 63: is/hail/codegen/generated/C34.apply 2019-11-14 20:58:48 root: INFO: instruction count: 14: is/hail/codegen/generated/C34.apply 2019-11-14 20:58:48 root: INFO: instruction count: 105: is/hail/codegen/generated/C34.m1_method 2019-11-14 20:58:48 root: INFO: instruction count: 1266: is/hail/codegen/generated/C34.m2_btree_insert 2019-11-14 20:58:48 root: INFO: instruction count: 275: is/hail/codegen/generated/C34.m3_btree_get 2019-11-14 20:58:48 root: INFO: instruction count: 333: is/hail/codegen/generated/C34.m4_btree_deepCopy 2019-11-14 20:58:48 root: INFO: instruction count: 12: is/hail/codegen/generated/C34.m5_copy_from_group0 2019-11-14 20:58:48 root: INFO: instruction count: 17: is/hail/codegen/generated/C34.m6_store_group0 2019-11-14 20:58:48 root: INFO: instruction count: 12: is/hail/codegen/generated/C34.m7_copy_from_group0 2019-11-14 20:58:48 root: INFO: instruction count: 17: is/hail/codegen/generated/C34.m8_store_group0 2019-11-14 20:58:48 root: INFO: instruction count: 21: is/hail/codegen/generated/C34.newAggState 2019-11-14 20:58:48 root: INFO: instruction count: 17: is/hail/codegen/generated/C34.setAggState 2019-11-14 20:58:48 root: INFO: instruction count: 7: is/hail/codegen/generated/C34.getAggOffset 2019-11-14 20:58:48 root: INFO: instruction count: 7: is/hail/codegen/generated/C34.setNumSerialized 2019-11-14 20:58:48 root: INFO: instruction count: 8: is/hail/codegen/generated/C34.setSerializedAgg 2019-11-14 20:58:48 root: INFO: instruction count: 7: is/hail/codegen/generated/C34.getSerializedAgg 2019-11-14 20:58:48 root: INFO: instruction count: 3: is/hail/codegen/generated/C34.m15_create_states_group0 2019-11-14 20:58:48 root: INFO: instruction count: 19: is/hail/codegen/generated/C34.m16_create_states_group0 2019-11-14 20:58:48 root: INFO: instruction count: 7: is/hail/codegen/generated/C34.m17_new_state_group0 2019-11-14 20:58:48 root: INFO: instruction count: 3: is/hail/codegen/generated/C34.m18_create_states_group0 2019-11-14 20:58:48 root: INFO: instruction count: 19: is/hail/codegen/generated/C34.m19_create_states_group0 2019-11-14 20:58:48 root: INFO: instruction count: 47: is/hail/codegen/generated/C34.m20_load_group0 2019-11-14 20:58:48 root: INFO: instruction count: 52: is/hail/codegen/generated/C34.m21_store_group0 2019-11-14 20:58:48 root: INFO: instruction count: 3: is/hail/codegen/generated/C34.m22_new_state_group0 2019-11-14 20:58:48 root: INFO: instruction count: 15: is/hail/codegen/generated/C34.m23_store_group0 2019-11-14 20:58:48 root: INFO: instruction count: 14: is/hail/codegen/generated/C34.setPartitionIndex 2019-11-14 20:58:48 root: INFO: instruction count: 6: is/hail/codegen/generated/C34.addPartitionRegion 2019-11-14 20:58:48 BlockManagerInfo: INFO: Removed broadcast_10_piece0 on kc1-m.c.maclab-ukbb.internal:33975 in memory (size: 176.4 KB, free: 21.7 GB) 2019-11-14 20:58:48 root: INFO: optimize (Compile): before: IR size 8: (Begin (SeqOp2 0 (Group (+Void) (String +Void) ( (Count () () None))) ( (Apply contig String (GetField locus (SelectFields (locus) (Ref row)))) (Begin (SeqOp2 0 (Count () () None) ()))))) 2019-11-14 20:58:48 root: INFO: optimize (Compile): after: IR size 7: (Begin (SeqOp2 0 (Group (+Void) (String +Void) ( (Count () () None))) ( (Apply contig String (GetField locus (Ref row))) (Begin (SeqOp2 0 (Count () () None) ()))))) 2019-11-14 20:58:48 BlockManagerInfo: INFO: Removed broadcast_10_piece0 on kc1-w-0.c.maclab-ukbb.internal:35793 in memory (size: 176.4 KB, free: 9.5 GB) 2019-11-14 20:58:48 ContextCleaner: INFO: Cleaned accumulator 75 2019-11-14 20:58:48 ContextCleaner: INFO: Cleaned accumulator 73 2019-11-14 20:58:48 ContextCleaner: INFO: Cleaned accumulator 81 2019-11-14 20:58:48 root: INFO: instruction count: 3: is/hail/codegen/generated/C35. 2019-11-14 20:58:48 root: INFO: instruction count: 22: is/hail/codegen/generated/C35.apply 2019-11-14 20:58:48 root: INFO: instruction count: 20: is/hail/codegen/generated/C35.apply 2019-11-14 20:58:48 root: INFO: instruction count: 105: is/hail/codegen/generated/C35.m1_method 2019-11-14 20:58:48 root: INFO: instruction count: 1266: is/hail/codegen/generated/C35.m2_btree_insert 2019-11-14 20:58:48 root: INFO: instruction count: 275: is/hail/codegen/generated/C35.m3_btree_get 2019-11-14 20:58:48 root: INFO: instruction count: 333: is/hail/codegen/generated/C35.m4_btree_deepCopy 2019-11-14 20:58:48 root: INFO: instruction count: 12: is/hail/codegen/generated/C35.m5_copy_from_group0 2019-11-14 20:58:48 root: INFO: instruction count: 17: is/hail/codegen/generated/C35.m6_store_group0 2019-11-14 20:58:48 root: INFO: instruction count: 12: is/hail/codegen/generated/C35.m7_copy_from_group0 2019-11-14 20:58:48 root: INFO: instruction count: 17: is/hail/codegen/generated/C35.m8_store_group0 2019-11-14 20:58:48 root: INFO: instruction count: 21: is/hail/codegen/generated/C35.newAggState 2019-11-14 20:58:48 root: INFO: instruction count: 17: is/hail/codegen/generated/C35.setAggState 2019-11-14 20:58:48 root: INFO: instruction count: 7: is/hail/codegen/generated/C35.getAggOffset 2019-11-14 20:58:48 root: INFO: instruction count: 7: is/hail/codegen/generated/C35.setNumSerialized 2019-11-14 20:58:48 root: INFO: instruction count: 8: is/hail/codegen/generated/C35.setSerializedAgg 2019-11-14 20:58:48 root: INFO: instruction count: 7: is/hail/codegen/generated/C35.getSerializedAgg 2019-11-14 20:58:48 root: INFO: instruction count: 3: is/hail/codegen/generated/C35.m15_create_states_group0 2019-11-14 20:58:48 root: INFO: instruction count: 19: is/hail/codegen/generated/C35.m16_create_states_group0 2019-11-14 20:58:48 root: INFO: instruction count: 7: is/hail/codegen/generated/C35.m17_new_state_group0 2019-11-14 20:58:48 root: INFO: instruction count: 3: is/hail/codegen/generated/C35.m18_create_states_group0 2019-11-14 20:58:48 root: INFO: instruction count: 19: is/hail/codegen/generated/C35.m19_create_states_group0 2019-11-14 20:58:48 root: INFO: instruction count: 47: is/hail/codegen/generated/C35.m20_load_group0 2019-11-14 20:58:48 root: INFO: instruction count: 52: is/hail/codegen/generated/C35.m21_store_group0 2019-11-14 20:58:48 root: INFO: instruction count: 205: is/hail/codegen/generated/C35.m22_method 2019-11-14 20:58:48 root: INFO: instruction count: 8: is/hail/codegen/generated/C35.m23_method 2019-11-14 20:58:48 root: INFO: instruction count: 3: is/hail/codegen/generated/C35.m24_new_state_group0 2019-11-14 20:58:48 root: INFO: instruction count: 12: is/hail/codegen/generated/C35.m25_copy_from_group0 2019-11-14 20:58:48 root: INFO: instruction count: 17: is/hail/codegen/generated/C35.m26_load_group0 2019-11-14 20:58:48 root: INFO: instruction count: 17: is/hail/codegen/generated/C35.m27_store_group0 2019-11-14 20:58:48 root: INFO: instruction count: 14: is/hail/codegen/generated/C35.setPartitionIndex 2019-11-14 20:58:48 root: INFO: instruction count: 6: is/hail/codegen/generated/C35.addPartitionRegion 2019-11-14 20:58:48 root: INFO: optimize (Compile): before: IR size 1: (DeserializeAggs 0 0 "{\"name\":\"BlockingBufferSpec\",\"blockSize\":32768,\"child\":{\"name\":\"StreamBlockBufferSpec\"}}" ( (Group (+Void) (String +Void) ( (Count () () None))))) 2019-11-14 20:58:48 root: INFO: optimize (Compile): after: IR size 1: (DeserializeAggs 0 0 "{\"name\":\"BlockingBufferSpec\",\"blockSize\":32768,\"child\":{\"name\":\"StreamBlockBufferSpec\"}}" ( (Group (+Void) (String +Void) ( (Count () () None))))) 2019-11-14 20:58:48 root: INFO: instruction count: 3: is/hail/codegen/generated/C36. 2019-11-14 20:58:48 root: INFO: instruction count: 37: is/hail/codegen/generated/C36.apply 2019-11-14 20:58:48 root: INFO: instruction count: 8: is/hail/codegen/generated/C36.apply 2019-11-14 20:58:48 root: INFO: instruction count: 105: is/hail/codegen/generated/C36.m1_method 2019-11-14 20:58:48 root: INFO: instruction count: 1266: is/hail/codegen/generated/C36.m2_btree_insert 2019-11-14 20:58:48 root: INFO: instruction count: 275: is/hail/codegen/generated/C36.m3_btree_get 2019-11-14 20:58:48 root: INFO: instruction count: 333: is/hail/codegen/generated/C36.m4_btree_deepCopy 2019-11-14 20:58:48 root: INFO: instruction count: 12: is/hail/codegen/generated/C36.m5_copy_from_group0 2019-11-14 20:58:48 root: INFO: instruction count: 17: is/hail/codegen/generated/C36.m6_store_group0 2019-11-14 20:58:48 root: INFO: instruction count: 12: is/hail/codegen/generated/C36.m7_copy_from_group0 2019-11-14 20:58:48 root: INFO: instruction count: 17: is/hail/codegen/generated/C36.m8_store_group0 2019-11-14 20:58:48 root: INFO: instruction count: 21: is/hail/codegen/generated/C36.newAggState 2019-11-14 20:58:48 root: INFO: instruction count: 17: is/hail/codegen/generated/C36.setAggState 2019-11-14 20:58:48 root: INFO: instruction count: 7: is/hail/codegen/generated/C36.getAggOffset 2019-11-14 20:58:48 root: INFO: instruction count: 7: is/hail/codegen/generated/C36.setNumSerialized 2019-11-14 20:58:48 root: INFO: instruction count: 8: is/hail/codegen/generated/C36.setSerializedAgg 2019-11-14 20:58:48 root: INFO: instruction count: 7: is/hail/codegen/generated/C36.getSerializedAgg 2019-11-14 20:58:48 root: INFO: instruction count: 3: is/hail/codegen/generated/C36.m15_create_states_group0 2019-11-14 20:58:48 root: INFO: instruction count: 19: is/hail/codegen/generated/C36.m16_create_states_group0 2019-11-14 20:58:48 root: INFO: instruction count: 7: is/hail/codegen/generated/C36.m17_new_state_group0 2019-11-14 20:58:48 root: INFO: instruction count: 3: is/hail/codegen/generated/C36.m18_create_states_group0 2019-11-14 20:58:48 root: INFO: instruction count: 19: is/hail/codegen/generated/C36.m19_create_states_group0 2019-11-14 20:58:48 root: INFO: instruction count: 47: is/hail/codegen/generated/C36.m20_load_group0 2019-11-14 20:58:48 root: INFO: instruction count: 52: is/hail/codegen/generated/C36.m21_store_group0 2019-11-14 20:58:48 root: INFO: instruction count: 26: is/hail/codegen/generated/C36.m22_DECODE_o_binary_TO_o_string 2019-11-14 20:58:48 root: INFO: instruction count: 7: is/hail/codegen/generated/C36.m23_grouped_nested_deserialize_init_group0 2019-11-14 20:58:48 root: INFO: instruction count: 3: is/hail/codegen/generated/C36.m24_new_state_group0 2019-11-14 20:58:48 root: INFO: instruction count: 15: is/hail/codegen/generated/C36.m25_store_group0 2019-11-14 20:58:48 root: INFO: instruction count: 419: is/hail/codegen/generated/C36.m26_btree_bulkLoad 2019-11-14 20:58:48 root: INFO: instruction count: 3: is/hail/codegen/generated/C36.m27_new_state_group0 2019-11-14 20:58:48 root: INFO: instruction count: 7: is/hail/codegen/generated/C36.m28_grouped_nested_deserialize_group0 2019-11-14 20:58:48 root: INFO: instruction count: 17: is/hail/codegen/generated/C36.m29_store_group0 2019-11-14 20:58:48 root: INFO: instruction count: 3: is/hail/codegen/generated/C36.m30_new_state_group0 2019-11-14 20:58:48 root: INFO: instruction count: 7: is/hail/codegen/generated/C36.m31_grouped_nested_deserialize_group0 2019-11-14 20:58:48 root: INFO: instruction count: 17: is/hail/codegen/generated/C36.m32_store_group0 2019-11-14 20:58:48 root: INFO: instruction count: 54: is/hail/codegen/generated/C36.m33_deserialize_aggs_group0 2019-11-14 20:58:48 root: INFO: instruction count: 14: is/hail/codegen/generated/C36.setPartitionIndex 2019-11-14 20:58:48 root: INFO: instruction count: 6: is/hail/codegen/generated/C36.addPartitionRegion 2019-11-14 20:58:48 root: INFO: optimize (Compile): before: IR size 1: (SerializeAggs 0 0 "{\"name\":\"BlockingBufferSpec\",\"blockSize\":32768,\"child\":{\"name\":\"StreamBlockBufferSpec\"}}" ( (Group (+Void) (String +Void) ( (Count () () None))))) 2019-11-14 20:58:48 root: INFO: optimize (Compile): after: IR size 1: (SerializeAggs 0 0 "{\"name\":\"BlockingBufferSpec\",\"blockSize\":32768,\"child\":{\"name\":\"StreamBlockBufferSpec\"}}" ( (Group (+Void) (String +Void) ( (Count () () None))))) 2019-11-14 20:58:48 root: INFO: instruction count: 3: is/hail/codegen/generated/C37. 2019-11-14 20:58:48 root: INFO: instruction count: 48: is/hail/codegen/generated/C37.apply 2019-11-14 20:58:48 root: INFO: instruction count: 8: is/hail/codegen/generated/C37.apply 2019-11-14 20:58:48 root: INFO: instruction count: 105: is/hail/codegen/generated/C37.m1_method 2019-11-14 20:58:48 root: INFO: instruction count: 1266: is/hail/codegen/generated/C37.m2_btree_insert 2019-11-14 20:58:48 root: INFO: instruction count: 275: is/hail/codegen/generated/C37.m3_btree_get 2019-11-14 20:58:48 root: INFO: instruction count: 333: is/hail/codegen/generated/C37.m4_btree_deepCopy 2019-11-14 20:58:48 root: INFO: instruction count: 12: is/hail/codegen/generated/C37.m5_copy_from_group0 2019-11-14 20:58:48 root: INFO: instruction count: 17: is/hail/codegen/generated/C37.m6_store_group0 2019-11-14 20:58:48 root: INFO: instruction count: 12: is/hail/codegen/generated/C37.m7_copy_from_group0 2019-11-14 20:58:48 root: INFO: instruction count: 17: is/hail/codegen/generated/C37.m8_store_group0 2019-11-14 20:58:48 root: INFO: instruction count: 21: is/hail/codegen/generated/C37.newAggState 2019-11-14 20:58:48 root: INFO: instruction count: 17: is/hail/codegen/generated/C37.setAggState 2019-11-14 20:58:48 root: INFO: instruction count: 7: is/hail/codegen/generated/C37.getAggOffset 2019-11-14 20:58:48 root: INFO: instruction count: 7: is/hail/codegen/generated/C37.setNumSerialized 2019-11-14 20:58:48 root: INFO: instruction count: 8: is/hail/codegen/generated/C37.setSerializedAgg 2019-11-14 20:58:48 root: INFO: instruction count: 7: is/hail/codegen/generated/C37.getSerializedAgg 2019-11-14 20:58:48 root: INFO: instruction count: 3: is/hail/codegen/generated/C37.m15_create_states_group0 2019-11-14 20:58:48 root: INFO: instruction count: 19: is/hail/codegen/generated/C37.m16_create_states_group0 2019-11-14 20:58:48 root: INFO: instruction count: 7: is/hail/codegen/generated/C37.m17_new_state_group0 2019-11-14 20:58:48 root: INFO: instruction count: 3: is/hail/codegen/generated/C37.m18_create_states_group0 2019-11-14 20:58:48 root: INFO: instruction count: 19: is/hail/codegen/generated/C37.m19_create_states_group0 2019-11-14 20:58:48 root: INFO: instruction count: 47: is/hail/codegen/generated/C37.m20_load_group0 2019-11-14 20:58:48 root: INFO: instruction count: 52: is/hail/codegen/generated/C37.m21_store_group0 2019-11-14 20:58:48 root: INFO: instruction count: 16: is/hail/codegen/generated/C37.m22_ENCODE_o_string_TO_o_binary 2019-11-14 20:58:48 root: INFO: instruction count: 15: is/hail/codegen/generated/C37.m23_load_group0 2019-11-14 20:58:48 root: INFO: instruction count: 7: is/hail/codegen/generated/C37.m24_grouped_nested_serialize_init_group0 2019-11-14 20:58:48 root: INFO: instruction count: 197: is/hail/codegen/generated/C37.m25_btree_bulkStore 2019-11-14 20:58:48 root: INFO: instruction count: 17: is/hail/codegen/generated/C37.m26_load_group0 2019-11-14 20:58:48 root: INFO: instruction count: 7: is/hail/codegen/generated/C37.m27_grouped_nested_serialize_group0 2019-11-14 20:58:48 root: INFO: instruction count: 17: is/hail/codegen/generated/C37.m28_load_group0 2019-11-14 20:58:48 root: INFO: instruction count: 7: is/hail/codegen/generated/C37.m29_grouped_nested_serialize_group0 2019-11-14 20:58:48 root: INFO: instruction count: 15: is/hail/codegen/generated/C37.m30_serialize_aggs_group0 2019-11-14 20:58:48 root: INFO: instruction count: 52: is/hail/codegen/generated/C37.m31_store_group0 2019-11-14 20:58:48 root: INFO: instruction count: 14: is/hail/codegen/generated/C37.setPartitionIndex 2019-11-14 20:58:48 root: INFO: instruction count: 6: is/hail/codegen/generated/C37.addPartitionRegion 2019-11-14 20:58:48 root: INFO: optimize (Compile): before: IR size 5: (Begin (DeserializeAggs 0 0 "{\"name\":\"BlockingBufferSpec\",\"blockSize\":32768,\"child\":{\"name\":\"StreamBlockBufferSpec\"}}" ( (Group (+Void) (String +Void) ( (Count () () None))))) (DeserializeAggs 1 1 "{\"name\":\"BlockingBufferSpec\",\"blockSize\":32768,\"child\":{\"name\":\"StreamBlockBufferSpec\"}}" ( (Group (+Void) (String +Void) ( (Count () () None))))) (CombOp2 0 1 (Group (+Void) (String +Void) ( (Count () () None)))) (SerializeAggs 0 0 "{\"name\":\"BlockingBufferSpec\",\"blockSize\":32768,\"child\":{\"name\":\"StreamBlockBufferSpec\"}}" ( (Group (+Void) (String +Void) ( (Count () () None)))))) 2019-11-14 20:58:48 root: INFO: optimize (Compile): after: IR size 5: (Begin (DeserializeAggs 0 0 "{\"name\":\"BlockingBufferSpec\",\"blockSize\":32768,\"child\":{\"name\":\"StreamBlockBufferSpec\"}}" ( (Group (+Void) (String +Void) ( (Count () () None))))) (DeserializeAggs 1 1 "{\"name\":\"BlockingBufferSpec\",\"blockSize\":32768,\"child\":{\"name\":\"StreamBlockBufferSpec\"}}" ( (Group (+Void) (String +Void) ( (Count () () None))))) (CombOp2 0 1 (Group (+Void) (String +Void) ( (Count () () None)))) (SerializeAggs 0 0 "{\"name\":\"BlockingBufferSpec\",\"blockSize\":32768,\"child\":{\"name\":\"StreamBlockBufferSpec\"}}" ( (Group (+Void) (String +Void) ( (Count () () None)))))) 2019-11-14 20:58:48 root: INFO: instruction count: 3: is/hail/codegen/generated/C38. 2019-11-14 20:58:48 root: INFO: instruction count: 96: is/hail/codegen/generated/C38.apply 2019-11-14 20:58:48 root: INFO: instruction count: 8: is/hail/codegen/generated/C38.apply 2019-11-14 20:58:48 root: INFO: instruction count: 105: is/hail/codegen/generated/C38.m1_method 2019-11-14 20:58:48 root: INFO: instruction count: 1266: is/hail/codegen/generated/C38.m2_btree_insert 2019-11-14 20:58:48 root: INFO: instruction count: 275: is/hail/codegen/generated/C38.m3_btree_get 2019-11-14 20:58:48 root: INFO: instruction count: 333: is/hail/codegen/generated/C38.m4_btree_deepCopy 2019-11-14 20:58:48 root: INFO: instruction count: 12: is/hail/codegen/generated/C38.m5_copy_from_group0 2019-11-14 20:58:48 root: INFO: instruction count: 17: is/hail/codegen/generated/C38.m6_store_group0 2019-11-14 20:58:48 root: INFO: instruction count: 12: is/hail/codegen/generated/C38.m7_copy_from_group0 2019-11-14 20:58:48 root: INFO: instruction count: 17: is/hail/codegen/generated/C38.m8_store_group0 2019-11-14 20:58:48 root: INFO: instruction count: 1266: is/hail/codegen/generated/C38.m9_btree_insert 2019-11-14 20:58:48 root: INFO: instruction count: 275: is/hail/codegen/generated/C38.m10_btree_get 2019-11-14 20:58:48 root: INFO: instruction count: 333: is/hail/codegen/generated/C38.m11_btree_deepCopy 2019-11-14 20:58:48 root: INFO: instruction count: 12: is/hail/codegen/generated/C38.m12_copy_from_group0 2019-11-14 20:58:48 root: INFO: instruction count: 17: is/hail/codegen/generated/C38.m13_store_group0 2019-11-14 20:58:48 root: INFO: instruction count: 12: is/hail/codegen/generated/C38.m14_copy_from_group0 2019-11-14 20:58:48 root: INFO: instruction count: 17: is/hail/codegen/generated/C38.m15_store_group0 2019-11-14 20:58:48 root: INFO: instruction count: 21: is/hail/codegen/generated/C38.newAggState 2019-11-14 20:58:48 root: INFO: instruction count: 17: is/hail/codegen/generated/C38.setAggState 2019-11-14 20:58:48 root: INFO: instruction count: 7: is/hail/codegen/generated/C38.getAggOffset 2019-11-14 20:58:48 root: INFO: instruction count: 7: is/hail/codegen/generated/C38.setNumSerialized 2019-11-14 20:58:48 root: INFO: instruction count: 8: is/hail/codegen/generated/C38.setSerializedAgg 2019-11-14 20:58:48 root: INFO: instruction count: 7: is/hail/codegen/generated/C38.getSerializedAgg 2019-11-14 20:58:48 root: INFO: instruction count: 3: is/hail/codegen/generated/C38.m22_create_states_group0 2019-11-14 20:58:48 root: INFO: instruction count: 3: is/hail/codegen/generated/C38.m23_create_states_group0 2019-11-14 20:58:48 root: INFO: instruction count: 35: is/hail/codegen/generated/C38.m24_create_states_group0 2019-11-14 20:58:48 root: INFO: instruction count: 11: is/hail/codegen/generated/C38.m25_new_state_group0 2019-11-14 20:58:48 root: INFO: instruction count: 3: is/hail/codegen/generated/C38.m26_create_states_group0 2019-11-14 20:58:48 root: INFO: instruction count: 3: is/hail/codegen/generated/C38.m27_create_states_group0 2019-11-14 20:58:48 root: INFO: instruction count: 35: is/hail/codegen/generated/C38.m28_create_states_group0 2019-11-14 20:58:48 root: INFO: instruction count: 91: is/hail/codegen/generated/C38.m29_load_group0 2019-11-14 20:58:48 root: INFO: instruction count: 101: is/hail/codegen/generated/C38.m30_store_group0 2019-11-14 20:58:48 root: INFO: instruction count: 26: is/hail/codegen/generated/C38.m31_DECODE_o_binary_TO_o_string 2019-11-14 20:58:48 root: INFO: instruction count: 7: is/hail/codegen/generated/C38.m32_grouped_nested_deserialize_init_group0 2019-11-14 20:58:48 root: INFO: instruction count: 3: is/hail/codegen/generated/C38.m33_new_state_group0 2019-11-14 20:58:48 root: INFO: instruction count: 15: is/hail/codegen/generated/C38.m34_store_group0 2019-11-14 20:58:48 root: INFO: instruction count: 419: is/hail/codegen/generated/C38.m35_btree_bulkLoad 2019-11-14 20:58:48 root: INFO: instruction count: 3: is/hail/codegen/generated/C38.m36_new_state_group0 2019-11-14 20:58:48 root: INFO: instruction count: 7: is/hail/codegen/generated/C38.m37_grouped_nested_deserialize_group0 2019-11-14 20:58:48 root: INFO: instruction count: 17: is/hail/codegen/generated/C38.m38_store_group0 2019-11-14 20:58:48 root: INFO: instruction count: 3: is/hail/codegen/generated/C38.m39_new_state_group0 2019-11-14 20:58:48 root: INFO: instruction count: 7: is/hail/codegen/generated/C38.m40_grouped_nested_deserialize_group0 2019-11-14 20:58:48 root: INFO: instruction count: 17: is/hail/codegen/generated/C38.m41_store_group0 2019-11-14 20:58:48 root: INFO: instruction count: 54: is/hail/codegen/generated/C38.m42_deserialize_aggs_group0 2019-11-14 20:58:48 root: INFO: instruction count: 7: is/hail/codegen/generated/C38.m43_grouped_nested_deserialize_init_group0 2019-11-14 20:58:48 root: INFO: instruction count: 3: is/hail/codegen/generated/C38.m44_new_state_group0 2019-11-14 20:58:48 root: INFO: instruction count: 15: is/hail/codegen/generated/C38.m45_store_group0 2019-11-14 20:58:48 root: INFO: instruction count: 419: is/hail/codegen/generated/C38.m46_btree_bulkLoad 2019-11-14 20:58:48 root: INFO: instruction count: 3: is/hail/codegen/generated/C38.m47_new_state_group0 2019-11-14 20:58:48 root: INFO: instruction count: 7: is/hail/codegen/generated/C38.m48_grouped_nested_deserialize_group0 2019-11-14 20:58:48 root: INFO: instruction count: 17: is/hail/codegen/generated/C38.m49_store_group0 2019-11-14 20:58:48 root: INFO: instruction count: 3: is/hail/codegen/generated/C38.m50_new_state_group0 2019-11-14 20:58:48 root: INFO: instruction count: 7: is/hail/codegen/generated/C38.m51_grouped_nested_deserialize_group0 2019-11-14 20:58:48 root: INFO: instruction count: 17: is/hail/codegen/generated/C38.m52_store_group0 2019-11-14 20:58:48 root: INFO: instruction count: 54: is/hail/codegen/generated/C38.m53_deserialize_aggs_group0 2019-11-14 20:58:48 root: INFO: instruction count: 10: is/hail/codegen/generated/C38.m54_grouped_nested_comb_group0 2019-11-14 20:58:48 root: INFO: instruction count: 420: is/hail/codegen/generated/C38.m55_btree_foreach 2019-11-14 20:58:48 root: INFO: instruction count: 17: is/hail/codegen/generated/C38.m56_load_group0 2019-11-14 20:58:48 root: INFO: instruction count: 3: is/hail/codegen/generated/C38.m57_new_state_group0 2019-11-14 20:58:48 root: INFO: instruction count: 12: is/hail/codegen/generated/C38.m58_copy_from_group0 2019-11-14 20:58:48 root: INFO: instruction count: 17: is/hail/codegen/generated/C38.m59_load_group0 2019-11-14 20:58:48 root: INFO: instruction count: 17: is/hail/codegen/generated/C38.m60_store_group0 2019-11-14 20:58:48 root: INFO: instruction count: 17: is/hail/codegen/generated/C38.m61_load_group0 2019-11-14 20:58:48 root: INFO: instruction count: 3: is/hail/codegen/generated/C38.m62_new_state_group0 2019-11-14 20:58:48 root: INFO: instruction count: 12: is/hail/codegen/generated/C38.m63_copy_from_group0 2019-11-14 20:58:48 root: INFO: instruction count: 17: is/hail/codegen/generated/C38.m64_load_group0 2019-11-14 20:58:48 root: INFO: instruction count: 17: is/hail/codegen/generated/C38.m65_store_group0 2019-11-14 20:58:48 root: INFO: instruction count: 16: is/hail/codegen/generated/C38.m66_ENCODE_o_string_TO_o_binary 2019-11-14 20:58:48 root: INFO: instruction count: 15: is/hail/codegen/generated/C38.m67_load_group0 2019-11-14 20:58:48 root: INFO: instruction count: 7: is/hail/codegen/generated/C38.m68_grouped_nested_serialize_init_group0 2019-11-14 20:58:48 root: INFO: instruction count: 197: is/hail/codegen/generated/C38.m69_btree_bulkStore 2019-11-14 20:58:48 root: INFO: instruction count: 17: is/hail/codegen/generated/C38.m70_load_group0 2019-11-14 20:58:48 root: INFO: instruction count: 7: is/hail/codegen/generated/C38.m71_grouped_nested_serialize_group0 2019-11-14 20:58:48 root: INFO: instruction count: 17: is/hail/codegen/generated/C38.m72_load_group0 2019-11-14 20:58:48 root: INFO: instruction count: 7: is/hail/codegen/generated/C38.m73_grouped_nested_serialize_group0 2019-11-14 20:58:48 root: INFO: instruction count: 15: is/hail/codegen/generated/C38.m74_serialize_aggs_group0 2019-11-14 20:58:48 root: INFO: instruction count: 101: is/hail/codegen/generated/C38.m75_store_group0 2019-11-14 20:58:48 root: INFO: instruction count: 14: is/hail/codegen/generated/C38.setPartitionIndex 2019-11-14 20:58:48 root: INFO: instruction count: 6: is/hail/codegen/generated/C38.addPartitionRegion 2019-11-14 20:58:48 root: INFO: optimize (Compile): before: IR size 14: (Let __iruid_13856 (ResultOp2 0 ( (Group (+Void) (String +Void) ( (Count () () None))))) (MakeTuple (0) (ToDict (ArrayMap __iruid_13857 (ToArray (GetTupleElement 0 (Ref __iruid_13856))) (MakeTuple (0 1) (GetField key (Ref __iruid_13857)) (GetTupleElement 0 (GetField value (Ref __iruid_13857)))))))) 2019-11-14 20:58:48 root: INFO: optimize (Compile): after: IR size 12: (MakeTuple (0) (ToDict (ArrayMap __iruid_13861 (ToArray (GetTupleElement 0 (ResultOp2 0 ( (Group (+Void) (String +Void) ( (Count () () None))))))) (MakeTuple (0 1) (GetField key (Ref __iruid_13861)) (GetTupleElement 0 (GetField value (Ref __iruid_13861))))))) 2019-11-14 20:58:48 root: INFO: instruction count: 3: is/hail/codegen/generated/C40. 2019-11-14 20:58:48 root: INFO: instruction count: 11: is/hail/codegen/generated/C40.apply 2019-11-14 20:58:48 root: INFO: instruction count: 14: is/hail/codegen/generated/C40.apply 2019-11-14 20:58:48 root: INFO: instruction count: 114: is/hail/codegen/generated/C40.m1_method 2019-11-14 20:58:48 root: INFO: instruction count: 33: is/hail/codegen/generated/C40.m2_method 2019-11-14 20:58:48 root: INFO: instruction count: 105: is/hail/codegen/generated/C40.m3_method 2019-11-14 20:58:48 root: INFO: instruction count: 3: is/hail/codegen/generated/C39. 2019-11-14 20:58:48 root: INFO: instruction count: 41: is/hail/codegen/generated/C39.apply 2019-11-14 20:58:48 root: INFO: instruction count: 16: is/hail/codegen/generated/C39.apply 2019-11-14 20:58:48 root: INFO: instruction count: 105: is/hail/codegen/generated/C39.m1_method 2019-11-14 20:58:48 root: INFO: instruction count: 1266: is/hail/codegen/generated/C39.m2_btree_insert 2019-11-14 20:58:48 root: INFO: instruction count: 275: is/hail/codegen/generated/C39.m3_btree_get 2019-11-14 20:58:48 root: INFO: instruction count: 333: is/hail/codegen/generated/C39.m4_btree_deepCopy 2019-11-14 20:58:48 root: INFO: instruction count: 12: is/hail/codegen/generated/C39.m5_copy_from_group0 2019-11-14 20:58:48 root: INFO: instruction count: 17: is/hail/codegen/generated/C39.m6_store_group0 2019-11-14 20:58:48 root: INFO: instruction count: 12: is/hail/codegen/generated/C39.m7_copy_from_group0 2019-11-14 20:58:48 root: INFO: instruction count: 17: is/hail/codegen/generated/C39.m8_store_group0 2019-11-14 20:58:48 root: INFO: instruction count: 21: is/hail/codegen/generated/C39.newAggState 2019-11-14 20:58:48 root: INFO: instruction count: 17: is/hail/codegen/generated/C39.setAggState 2019-11-14 20:58:48 root: INFO: instruction count: 7: is/hail/codegen/generated/C39.getAggOffset 2019-11-14 20:58:48 root: INFO: instruction count: 7: is/hail/codegen/generated/C39.setNumSerialized 2019-11-14 20:58:48 root: INFO: instruction count: 8: is/hail/codegen/generated/C39.setSerializedAgg 2019-11-14 20:58:48 root: INFO: instruction count: 7: is/hail/codegen/generated/C39.getSerializedAgg 2019-11-14 20:58:48 root: INFO: instruction count: 3: is/hail/codegen/generated/C39.m15_create_states_group0 2019-11-14 20:58:48 root: INFO: instruction count: 19: is/hail/codegen/generated/C39.m16_create_states_group0 2019-11-14 20:58:48 root: INFO: instruction count: 7: is/hail/codegen/generated/C39.m17_new_state_group0 2019-11-14 20:58:48 root: INFO: instruction count: 3: is/hail/codegen/generated/C39.m18_create_states_group0 2019-11-14 20:58:48 root: INFO: instruction count: 19: is/hail/codegen/generated/C39.m19_create_states_group0 2019-11-14 20:58:48 root: INFO: instruction count: 47: is/hail/codegen/generated/C39.m20_load_group0 2019-11-14 20:58:48 root: INFO: instruction count: 52: is/hail/codegen/generated/C39.m21_store_group0 2019-11-14 20:58:48 root: INFO: instruction count: 897: is/hail/codegen/generated/C39.m22_method 2019-11-14 20:58:48 root: INFO: instruction count: 103: is/hail/codegen/generated/C39.m23_method 2019-11-14 20:58:48 root: INFO: instruction count: 106: is/hail/codegen/generated/C39.m24_method 2019-11-14 20:58:48 root: INFO: instruction count: 122: is/hail/codegen/generated/C39.m25_method 2019-11-14 20:58:48 root: INFO: instruction count: 326: is/hail/codegen/generated/C39.m26_btree_foreach 2019-11-14 20:58:48 root: INFO: instruction count: 17: is/hail/codegen/generated/C39.m27_load_group0 2019-11-14 20:58:48 root: INFO: instruction count: 9: is/hail/codegen/generated/C39.m28_grouped_result_group0 2019-11-14 20:58:48 root: INFO: instruction count: 17: is/hail/codegen/generated/C39.m29_load_group0 2019-11-14 20:58:48 root: INFO: instruction count: 9: is/hail/codegen/generated/C39.m30_grouped_result_group0 2019-11-14 20:58:48 root: INFO: instruction count: 41: is/hail/codegen/generated/C39.m31_aggs_result_group0 2019-11-14 20:58:48 root: INFO: instruction count: 52: is/hail/codegen/generated/C39.m32_store_group0 2019-11-14 20:58:48 root: INFO: instruction count: 14: is/hail/codegen/generated/C39.setPartitionIndex 2019-11-14 20:58:48 root: INFO: instruction count: 6: is/hail/codegen/generated/C39.addPartitionRegion 2019-11-14 20:58:48 root: INFO: Aggregate: useTreeAggregate=false 2019-11-14 20:58:48 root: INFO: Aggregate: commutative=true 2019-11-14 20:58:48 SparkContext: INFO: Starting job: runJob at RVD.scala:605 2019-11-14 20:58:48 DAGScheduler: INFO: Got job 4 (runJob at RVD.scala:605) with 259 output partitions 2019-11-14 20:58:48 DAGScheduler: INFO: Final stage: ResultStage 4 (runJob at RVD.scala:605) 2019-11-14 20:58:48 DAGScheduler: INFO: Parents of final stage: List() 2019-11-14 20:58:48 DAGScheduler: INFO: Missing parents: List() 2019-11-14 20:58:48 DAGScheduler: INFO: Submitting ResultStage 4 (MapPartitionsRDD[23] at mapPartitions at ContextRDD.scala:217), which has no missing parents 2019-11-14 20:58:48 MemoryStore: INFO: Block broadcast_13 stored as values in memory (estimated size 230.8 KB, free 21.7 GB) 2019-11-14 20:58:48 MemoryStore: INFO: Block broadcast_13_piece0 stored as bytes in memory (estimated size 84.6 KB, free 21.7 GB) 2019-11-14 20:58:48 BlockManagerInfo: INFO: Added broadcast_13_piece0 in memory on kc1-m.c.maclab-ukbb.internal:33975 (size: 84.6 KB, free: 21.7 GB) 2019-11-14 20:58:48 SparkContext: INFO: Created broadcast 13 from broadcast at DAGScheduler.scala:1161 2019-11-14 20:58:48 DAGScheduler: INFO: Submitting 259 missing tasks from ResultStage 4 (MapPartitionsRDD[23] at mapPartitions at ContextRDD.scala:217) (first 15 tasks are for partitions Vector(0, 1, 2, 3, 4, 5, 6, 7, 8, 9, 10, 11, 12, 13, 14)) 2019-11-14 20:58:48 YarnScheduler: INFO: Adding task set 4.0 with 259 tasks 2019-11-14 20:58:48 FairSchedulableBuilder: INFO: Added task set TaskSet_4.0 tasks to pool default 2019-11-14 20:58:48 TaskSetManager: INFO: Starting task 0.0 in stage 4.0 (TID 4, kc1-w-0.c.maclab-ukbb.internal, executor 1, partition 0, PROCESS_LOCAL, 8165 bytes) 2019-11-14 20:58:48 TaskSetManager: INFO: Starting task 1.0 in stage 4.0 (TID 5, kc1-w-0.c.maclab-ukbb.internal, executor 2, partition 1, PROCESS_LOCAL, 8165 bytes) 2019-11-14 20:58:48 TaskSetManager: INFO: Starting task 2.0 in stage 4.0 (TID 6, kc1-w-0.c.maclab-ukbb.internal, executor 1, partition 2, PROCESS_LOCAL, 8165 bytes) 2019-11-14 20:58:48 TaskSetManager: INFO: Starting task 3.0 in stage 4.0 (TID 7, kc1-w-0.c.maclab-ukbb.internal, executor 2, partition 3, PROCESS_LOCAL, 8165 bytes) 2019-11-14 20:58:48 TaskSetManager: INFO: Starting task 4.0 in stage 4.0 (TID 8, kc1-w-0.c.maclab-ukbb.internal, executor 1, partition 4, PROCESS_LOCAL, 8165 bytes) 2019-11-14 20:58:48 TaskSetManager: INFO: Starting task 5.0 in stage 4.0 (TID 9, kc1-w-0.c.maclab-ukbb.internal, executor 2, partition 5, PROCESS_LOCAL, 8165 bytes) 2019-11-14 20:58:48 TaskSetManager: INFO: Starting task 6.0 in stage 4.0 (TID 10, kc1-w-0.c.maclab-ukbb.internal, executor 1, partition 6, PROCESS_LOCAL, 8165 bytes) 2019-11-14 20:58:48 TaskSetManager: INFO: Starting task 7.0 in stage 4.0 (TID 11, kc1-w-0.c.maclab-ukbb.internal, executor 2, partition 7, PROCESS_LOCAL, 8165 bytes) 2019-11-14 20:58:48 BlockManagerInfo: INFO: Added broadcast_13_piece0 in memory on kc1-w-0.c.maclab-ukbb.internal:41051 (size: 84.6 KB, free: 9.5 GB) 2019-11-14 20:58:48 BlockManagerInfo: INFO: Added broadcast_13_piece0 in memory on kc1-w-0.c.maclab-ukbb.internal:35793 (size: 84.6 KB, free: 9.5 GB) 2019-11-14 20:58:48 BlockManagerInfo: INFO: Added broadcast_12_piece0 in memory on kc1-w-0.c.maclab-ukbb.internal:41051 (size: 937.0 B, free: 9.5 GB) 2019-11-14 20:58:49 TaskSetManager: INFO: Starting task 8.0 in stage 4.0 (TID 12, kc1-w-0.c.maclab-ukbb.internal, executor 2, partition 8, PROCESS_LOCAL, 8165 bytes) 2019-11-14 20:58:49 TaskSetManager: INFO: Finished task 1.0 in stage 4.0 (TID 5) in 395 ms on kc1-w-0.c.maclab-ukbb.internal (executor 2) (1/259) 2019-11-14 20:58:49 root: INFO: RegionPool: initialized for thread 52: dag-scheduler-event-loop 2019-11-14 20:58:49 TaskSetManager: INFO: Starting task 9.0 in stage 4.0 (TID 13, kc1-w-0.c.maclab-ukbb.internal, executor 2, partition 9, PROCESS_LOCAL, 8165 bytes) 2019-11-14 20:58:49 TaskSetManager: INFO: Finished task 3.0 in stage 4.0 (TID 7) in 444 ms on kc1-w-0.c.maclab-ukbb.internal (executor 2) (2/259) 2019-11-14 20:58:49 TaskSetManager: INFO: Starting task 10.0 in stage 4.0 (TID 14, kc1-w-0.c.maclab-ukbb.internal, executor 2, partition 10, PROCESS_LOCAL, 8165 bytes) 2019-11-14 20:58:49 TaskSetManager: INFO: Finished task 5.0 in stage 4.0 (TID 9) in 461 ms on kc1-w-0.c.maclab-ukbb.internal (executor 2) (3/259) 2019-11-14 20:58:49 TaskSetManager: INFO: Starting task 11.0 in stage 4.0 (TID 15, kc1-w-0.c.maclab-ukbb.internal, executor 2, partition 11, PROCESS_LOCAL, 8165 bytes) 2019-11-14 20:58:49 TaskSetManager: INFO: Finished task 7.0 in stage 4.0 (TID 11) in 463 ms on kc1-w-0.c.maclab-ukbb.internal (executor 2) (4/259) 2019-11-14 20:58:49 BlockManagerInfo: INFO: Added broadcast_12_piece0 in memory on kc1-w-0.c.maclab-ukbb.internal:35793 (size: 937.0 B, free: 9.5 GB) 2019-11-14 20:58:49 TaskSetManager: INFO: Starting task 12.0 in stage 4.0 (TID 16, kc1-w-0.c.maclab-ukbb.internal, executor 2, partition 12, PROCESS_LOCAL, 8165 bytes) 2019-11-14 20:58:49 TaskSetManager: INFO: Finished task 11.0 in stage 4.0 (TID 15) in 235 ms on kc1-w-0.c.maclab-ukbb.internal (executor 2) (5/259) 2019-11-14 20:58:49 TaskSetManager: INFO: Starting task 13.0 in stage 4.0 (TID 17, kc1-w-0.c.maclab-ukbb.internal, executor 2, partition 13, PROCESS_LOCAL, 8165 bytes) 2019-11-14 20:58:49 TaskSetManager: INFO: Finished task 10.0 in stage 4.0 (TID 14) in 272 ms on kc1-w-0.c.maclab-ukbb.internal (executor 2) (6/259) 2019-11-14 20:58:49 TaskSetManager: INFO: Starting task 14.0 in stage 4.0 (TID 18, kc1-w-0.c.maclab-ukbb.internal, executor 2, partition 14, PROCESS_LOCAL, 8165 bytes) 2019-11-14 20:58:49 TaskSetManager: INFO: Finished task 9.0 in stage 4.0 (TID 13) in 319 ms on kc1-w-0.c.maclab-ukbb.internal (executor 2) (7/259) 2019-11-14 20:58:49 TaskSetManager: INFO: Starting task 15.0 in stage 4.0 (TID 19, kc1-w-0.c.maclab-ukbb.internal, executor 2, partition 15, PROCESS_LOCAL, 8165 bytes) 2019-11-14 20:58:49 TaskSetManager: INFO: Finished task 8.0 in stage 4.0 (TID 12) in 386 ms on kc1-w-0.c.maclab-ukbb.internal (executor 2) (8/259) 2019-11-14 20:58:49 TaskSetManager: INFO: Starting task 16.0 in stage 4.0 (TID 20, kc1-w-0.c.maclab-ukbb.internal, executor 2, partition 16, PROCESS_LOCAL, 8165 bytes) 2019-11-14 20:58:49 TaskSetManager: INFO: Finished task 13.0 in stage 4.0 (TID 17) in 225 ms on kc1-w-0.c.maclab-ukbb.internal (executor 2) (9/259) 2019-11-14 20:58:49 TaskSetManager: INFO: Starting task 17.0 in stage 4.0 (TID 21, kc1-w-0.c.maclab-ukbb.internal, executor 2, partition 17, PROCESS_LOCAL, 8165 bytes) 2019-11-14 20:58:49 TaskSetManager: INFO: Finished task 14.0 in stage 4.0 (TID 18) in 202 ms on kc1-w-0.c.maclab-ukbb.internal (executor 2) (10/259) 2019-11-14 20:58:49 TaskSetManager: INFO: Starting task 18.0 in stage 4.0 (TID 22, kc1-w-0.c.maclab-ukbb.internal, executor 1, partition 18, PROCESS_LOCAL, 8165 bytes) 2019-11-14 20:58:49 TaskSetManager: INFO: Finished task 2.0 in stage 4.0 (TID 6) in 982 ms on kc1-w-0.c.maclab-ukbb.internal (executor 1) (11/259) 2019-11-14 20:58:49 TaskSetManager: INFO: Starting task 19.0 in stage 4.0 (TID 23, kc1-w-0.c.maclab-ukbb.internal, executor 2, partition 19, PROCESS_LOCAL, 8165 bytes) 2019-11-14 20:58:49 TaskSetManager: INFO: Finished task 15.0 in stage 4.0 (TID 19) in 205 ms on kc1-w-0.c.maclab-ukbb.internal (executor 2) (12/259) 2019-11-14 20:58:49 TaskSetManager: INFO: Starting task 20.0 in stage 4.0 (TID 24, kc1-w-0.c.maclab-ukbb.internal, executor 1, partition 20, PROCESS_LOCAL, 8165 bytes) 2019-11-14 20:58:49 TaskSetManager: INFO: Finished task 4.0 in stage 4.0 (TID 8) in 987 ms on kc1-w-0.c.maclab-ukbb.internal (executor 1) (13/259) 2019-11-14 20:58:49 TaskSetManager: INFO: Starting task 21.0 in stage 4.0 (TID 25, kc1-w-0.c.maclab-ukbb.internal, executor 1, partition 21, PROCESS_LOCAL, 8165 bytes) 2019-11-14 20:58:49 TaskSetManager: INFO: Finished task 0.0 in stage 4.0 (TID 4) in 989 ms on kc1-w-0.c.maclab-ukbb.internal (executor 1) (14/259) 2019-11-14 20:58:49 ExecutorAllocationManager: INFO: Requesting 2 new executors because tasks are backlogged (new desired total will be 3) 2019-11-14 20:58:49 TaskSetManager: INFO: Starting task 22.0 in stage 4.0 (TID 26, kc1-w-0.c.maclab-ukbb.internal, executor 1, partition 22, PROCESS_LOCAL, 8165 bytes) 2019-11-14 20:58:49 TaskSetManager: INFO: Finished task 6.0 in stage 4.0 (TID 10) in 1136 ms on kc1-w-0.c.maclab-ukbb.internal (executor 1) (15/259) 2019-11-14 20:58:49 TaskSetManager: INFO: Starting task 23.0 in stage 4.0 (TID 27, kc1-w-0.c.maclab-ukbb.internal, executor 2, partition 23, PROCESS_LOCAL, 8165 bytes) 2019-11-14 20:58:49 TaskSetManager: INFO: Finished task 16.0 in stage 4.0 (TID 20) in 233 ms on kc1-w-0.c.maclab-ukbb.internal (executor 2) (16/259) 2019-11-14 20:58:49 TaskSetManager: INFO: Starting task 24.0 in stage 4.0 (TID 28, kc1-w-0.c.maclab-ukbb.internal, executor 1, partition 24, PROCESS_LOCAL, 8165 bytes) 2019-11-14 20:58:49 TaskSetManager: INFO: Finished task 18.0 in stage 4.0 (TID 22) in 214 ms on kc1-w-0.c.maclab-ukbb.internal (executor 1) (17/259) 2019-11-14 20:58:50 TaskSetManager: INFO: Starting task 25.0 in stage 4.0 (TID 29, kc1-w-0.c.maclab-ukbb.internal, executor 2, partition 25, PROCESS_LOCAL, 8165 bytes) 2019-11-14 20:58:50 TaskSetManager: INFO: Finished task 19.0 in stage 4.0 (TID 23) in 254 ms on kc1-w-0.c.maclab-ukbb.internal (executor 2) (18/259) 2019-11-14 20:58:50 TaskSetManager: INFO: Starting task 26.0 in stage 4.0 (TID 30, kc1-w-0.c.maclab-ukbb.internal, executor 1, partition 26, PROCESS_LOCAL, 8165 bytes) 2019-11-14 20:58:50 TaskSetManager: INFO: Finished task 20.0 in stage 4.0 (TID 24) in 252 ms on kc1-w-0.c.maclab-ukbb.internal (executor 1) (19/259) 2019-11-14 20:58:50 TaskSetManager: INFO: Starting task 27.0 in stage 4.0 (TID 31, kc1-w-0.c.maclab-ukbb.internal, executor 1, partition 27, PROCESS_LOCAL, 8165 bytes) 2019-11-14 20:58:50 TaskSetManager: INFO: Finished task 21.0 in stage 4.0 (TID 25) in 270 ms on kc1-w-0.c.maclab-ukbb.internal (executor 1) (20/259) 2019-11-14 20:58:50 TaskSetManager: INFO: Starting task 28.0 in stage 4.0 (TID 32, kc1-w-0.c.maclab-ukbb.internal, executor 2, partition 28, PROCESS_LOCAL, 8165 bytes) 2019-11-14 20:58:50 TaskSetManager: INFO: Finished task 17.0 in stage 4.0 (TID 21) in 336 ms on kc1-w-0.c.maclab-ukbb.internal (executor 2) (21/259) 2019-11-14 20:58:50 TaskSetManager: INFO: Starting task 29.0 in stage 4.0 (TID 33, kc1-w-0.c.maclab-ukbb.internal, executor 1, partition 29, PROCESS_LOCAL, 8165 bytes) 2019-11-14 20:58:50 TaskSetManager: INFO: Finished task 24.0 in stage 4.0 (TID 28) in 220 ms on kc1-w-0.c.maclab-ukbb.internal (executor 1) (22/259) 2019-11-14 20:58:50 TaskSetManager: INFO: Starting task 30.0 in stage 4.0 (TID 34, kc1-w-0.c.maclab-ukbb.internal, executor 1, partition 30, PROCESS_LOCAL, 8165 bytes) 2019-11-14 20:58:50 TaskSetManager: INFO: Finished task 22.0 in stage 4.0 (TID 26) in 282 ms on kc1-w-0.c.maclab-ukbb.internal (executor 1) (23/259) 2019-11-14 20:58:50 TaskSetManager: INFO: Starting task 31.0 in stage 4.0 (TID 35, kc1-w-0.c.maclab-ukbb.internal, executor 2, partition 31, PROCESS_LOCAL, 8165 bytes) 2019-11-14 20:58:50 TaskSetManager: INFO: Finished task 25.0 in stage 4.0 (TID 29) in 224 ms on kc1-w-0.c.maclab-ukbb.internal (executor 2) (24/259) 2019-11-14 20:58:50 TaskSetManager: INFO: Starting task 32.0 in stage 4.0 (TID 36, kc1-w-0.c.maclab-ukbb.internal, executor 1, partition 32, PROCESS_LOCAL, 8165 bytes) 2019-11-14 20:58:50 TaskSetManager: INFO: Finished task 26.0 in stage 4.0 (TID 30) in 281 ms on kc1-w-0.c.maclab-ukbb.internal (executor 1) (25/259) 2019-11-14 20:58:50 TaskSetManager: INFO: Starting task 33.0 in stage 4.0 (TID 37, kc1-w-0.c.maclab-ukbb.internal, executor 2, partition 33, PROCESS_LOCAL, 8165 bytes) 2019-11-14 20:58:50 TaskSetManager: INFO: Finished task 28.0 in stage 4.0 (TID 32) in 249 ms on kc1-w-0.c.maclab-ukbb.internal (executor 2) (26/259) 2019-11-14 20:58:50 TaskSetManager: INFO: Starting task 34.0 in stage 4.0 (TID 38, kc1-w-0.c.maclab-ukbb.internal, executor 1, partition 34, PROCESS_LOCAL, 8165 bytes) 2019-11-14 20:58:50 TaskSetManager: INFO: Finished task 27.0 in stage 4.0 (TID 31) in 298 ms on kc1-w-0.c.maclab-ukbb.internal (executor 1) (27/259) 2019-11-14 20:58:50 TaskSetManager: INFO: Starting task 35.0 in stage 4.0 (TID 39, kc1-w-0.c.maclab-ukbb.internal, executor 1, partition 35, PROCESS_LOCAL, 8165 bytes) 2019-11-14 20:58:50 TaskSetManager: INFO: Finished task 29.0 in stage 4.0 (TID 33) in 237 ms on kc1-w-0.c.maclab-ukbb.internal (executor 1) (28/259) 2019-11-14 20:58:50 TaskSetManager: INFO: Starting task 36.0 in stage 4.0 (TID 40, kc1-w-0.c.maclab-ukbb.internal, executor 1, partition 36, PROCESS_LOCAL, 8165 bytes) 2019-11-14 20:58:50 TaskSetManager: INFO: Finished task 30.0 in stage 4.0 (TID 34) in 289 ms on kc1-w-0.c.maclab-ukbb.internal (executor 1) (29/259) 2019-11-14 20:58:50 TaskSetManager: INFO: Starting task 37.0 in stage 4.0 (TID 41, kc1-w-0.c.maclab-ukbb.internal, executor 2, partition 37, PROCESS_LOCAL, 8165 bytes) 2019-11-14 20:58:50 TaskSetManager: INFO: Finished task 12.0 in stage 4.0 (TID 16) in 1060 ms on kc1-w-0.c.maclab-ukbb.internal (executor 2) (30/259) 2019-11-14 20:58:50 TaskSetManager: INFO: Starting task 38.0 in stage 4.0 (TID 42, kc1-w-0.c.maclab-ukbb.internal, executor 1, partition 38, PROCESS_LOCAL, 8165 bytes) 2019-11-14 20:58:50 TaskSetManager: INFO: Finished task 32.0 in stage 4.0 (TID 36) in 267 ms on kc1-w-0.c.maclab-ukbb.internal (executor 1) (31/259) 2019-11-14 20:58:50 TaskSetManager: INFO: Starting task 39.0 in stage 4.0 (TID 43, kc1-w-0.c.maclab-ukbb.internal, executor 1, partition 39, PROCESS_LOCAL, 8165 bytes) 2019-11-14 20:58:50 TaskSetManager: INFO: Finished task 34.0 in stage 4.0 (TID 38) in 259 ms on kc1-w-0.c.maclab-ukbb.internal (executor 1) (32/259) 2019-11-14 20:58:50 TaskSetManager: INFO: Starting task 40.0 in stage 4.0 (TID 44, kc1-w-0.c.maclab-ukbb.internal, executor 2, partition 40, PROCESS_LOCAL, 8165 bytes) 2019-11-14 20:58:50 TaskSetManager: INFO: Finished task 33.0 in stage 4.0 (TID 37) in 301 ms on kc1-w-0.c.maclab-ukbb.internal (executor 2) (33/259) 2019-11-14 20:58:50 TaskSetManager: INFO: Starting task 41.0 in stage 4.0 (TID 45, kc1-w-0.c.maclab-ukbb.internal, executor 1, partition 41, PROCESS_LOCAL, 8165 bytes) 2019-11-14 20:58:50 TaskSetManager: INFO: Finished task 35.0 in stage 4.0 (TID 39) in 270 ms on kc1-w-0.c.maclab-ukbb.internal (executor 1) (34/259) 2019-11-14 20:58:50 TaskSetManager: INFO: Starting task 42.0 in stage 4.0 (TID 46, kc1-w-0.c.maclab-ukbb.internal, executor 2, partition 42, PROCESS_LOCAL, 8165 bytes) 2019-11-14 20:58:50 TaskSetManager: INFO: Finished task 37.0 in stage 4.0 (TID 41) in 209 ms on kc1-w-0.c.maclab-ukbb.internal (executor 2) (35/259) 2019-11-14 20:58:50 TaskSetManager: INFO: Starting task 43.0 in stage 4.0 (TID 47, kc1-w-0.c.maclab-ukbb.internal, executor 1, partition 43, PROCESS_LOCAL, 8165 bytes) 2019-11-14 20:58:50 TaskSetManager: INFO: Finished task 39.0 in stage 4.0 (TID 43) in 193 ms on kc1-w-0.c.maclab-ukbb.internal (executor 1) (36/259) 2019-11-14 20:58:50 TaskSetManager: INFO: Starting task 44.0 in stage 4.0 (TID 48, kc1-w-0.c.maclab-ukbb.internal, executor 2, partition 44, PROCESS_LOCAL, 8165 bytes) 2019-11-14 20:58:50 TaskSetManager: INFO: Finished task 31.0 in stage 4.0 (TID 35) in 570 ms on kc1-w-0.c.maclab-ukbb.internal (executor 2) (37/259) 2019-11-14 20:58:50 TaskSetManager: INFO: Starting task 45.0 in stage 4.0 (TID 49, kc1-w-0.c.maclab-ukbb.internal, executor 1, partition 45, PROCESS_LOCAL, 8165 bytes) 2019-11-14 20:58:50 TaskSetManager: INFO: Finished task 36.0 in stage 4.0 (TID 40) in 348 ms on kc1-w-0.c.maclab-ukbb.internal (executor 1) (38/259) 2019-11-14 20:58:50 TaskSetManager: INFO: Starting task 46.0 in stage 4.0 (TID 50, kc1-w-0.c.maclab-ukbb.internal, executor 1, partition 46, PROCESS_LOCAL, 8165 bytes) 2019-11-14 20:58:50 TaskSetManager: INFO: Finished task 38.0 in stage 4.0 (TID 42) in 298 ms on kc1-w-0.c.maclab-ukbb.internal (executor 1) (39/259) 2019-11-14 20:58:50 ExecutorAllocationManager: INFO: Requesting 1 new executor because tasks are backlogged (new desired total will be 4) 2019-11-14 20:58:50 TaskSetManager: INFO: Starting task 47.0 in stage 4.0 (TID 51, kc1-w-0.c.maclab-ukbb.internal, executor 1, partition 47, PROCESS_LOCAL, 8165 bytes) 2019-11-14 20:58:50 TaskSetManager: INFO: Finished task 43.0 in stage 4.0 (TID 47) in 183 ms on kc1-w-0.c.maclab-ukbb.internal (executor 1) (40/259) 2019-11-14 20:58:51 TaskSetManager: INFO: Starting task 48.0 in stage 4.0 (TID 52, kc1-w-0.c.maclab-ukbb.internal, executor 1, partition 48, PROCESS_LOCAL, 8165 bytes) 2019-11-14 20:58:51 TaskSetManager: INFO: Finished task 41.0 in stage 4.0 (TID 45) in 288 ms on kc1-w-0.c.maclab-ukbb.internal (executor 1) (41/259) 2019-11-14 20:58:51 TaskSetManager: INFO: Starting task 49.0 in stage 4.0 (TID 53, kc1-w-0.c.maclab-ukbb.internal, executor 2, partition 49, PROCESS_LOCAL, 8165 bytes) 2019-11-14 20:58:51 TaskSetManager: INFO: Finished task 44.0 in stage 4.0 (TID 48) in 188 ms on kc1-w-0.c.maclab-ukbb.internal (executor 2) (42/259) 2019-11-14 20:58:51 TaskSetManager: INFO: Starting task 50.0 in stage 4.0 (TID 54, kc1-w-0.c.maclab-ukbb.internal, executor 1, partition 50, PROCESS_LOCAL, 8165 bytes) 2019-11-14 20:58:51 TaskSetManager: INFO: Finished task 46.0 in stage 4.0 (TID 50) in 200 ms on kc1-w-0.c.maclab-ukbb.internal (executor 1) (43/259) 2019-11-14 20:58:51 TaskSetManager: INFO: Starting task 51.0 in stage 4.0 (TID 55, kc1-w-0.c.maclab-ukbb.internal, executor 2, partition 51, PROCESS_LOCAL, 8165 bytes) 2019-11-14 20:58:51 TaskSetManager: INFO: Finished task 40.0 in stage 4.0 (TID 44) in 454 ms on kc1-w-0.c.maclab-ukbb.internal (executor 2) (44/259) 2019-11-14 20:58:51 TaskSetManager: INFO: Starting task 52.0 in stage 4.0 (TID 56, kc1-w-0.c.maclab-ukbb.internal, executor 1, partition 52, PROCESS_LOCAL, 8165 bytes) 2019-11-14 20:58:51 TaskSetManager: INFO: Finished task 48.0 in stage 4.0 (TID 52) in 176 ms on kc1-w-0.c.maclab-ukbb.internal (executor 1) (45/259) 2019-11-14 20:58:51 TaskSetManager: INFO: Starting task 53.0 in stage 4.0 (TID 57, kc1-w-0.c.maclab-ukbb.internal, executor 2, partition 53, PROCESS_LOCAL, 8165 bytes) 2019-11-14 20:58:51 TaskSetManager: INFO: Finished task 49.0 in stage 4.0 (TID 53) in 188 ms on kc1-w-0.c.maclab-ukbb.internal (executor 2) (46/259) 2019-11-14 20:58:51 TaskSetManager: INFO: Starting task 54.0 in stage 4.0 (TID 58, kc1-w-0.c.maclab-ukbb.internal, executor 1, partition 54, PROCESS_LOCAL, 8165 bytes) 2019-11-14 20:58:51 TaskSetManager: INFO: Finished task 47.0 in stage 4.0 (TID 51) in 231 ms on kc1-w-0.c.maclab-ukbb.internal (executor 1) (47/259) 2019-11-14 20:58:51 TaskSetManager: INFO: Starting task 55.0 in stage 4.0 (TID 59, kc1-w-0.c.maclab-ukbb.internal, executor 1, partition 55, PROCESS_LOCAL, 8165 bytes) 2019-11-14 20:58:51 TaskSetManager: INFO: Finished task 50.0 in stage 4.0 (TID 54) in 196 ms on kc1-w-0.c.maclab-ukbb.internal (executor 1) (48/259) 2019-11-14 20:58:51 TaskSetManager: INFO: Starting task 56.0 in stage 4.0 (TID 60, kc1-w-0.c.maclab-ukbb.internal, executor 2, partition 56, PROCESS_LOCAL, 8165 bytes) 2019-11-14 20:58:51 TaskSetManager: INFO: Finished task 51.0 in stage 4.0 (TID 55) in 222 ms on kc1-w-0.c.maclab-ukbb.internal (executor 2) (49/259) 2019-11-14 20:58:51 TaskSetManager: INFO: Starting task 57.0 in stage 4.0 (TID 61, kc1-w-0.c.maclab-ukbb.internal, executor 1, partition 57, PROCESS_LOCAL, 8165 bytes) 2019-11-14 20:58:51 TaskSetManager: INFO: Finished task 52.0 in stage 4.0 (TID 56) in 205 ms on kc1-w-0.c.maclab-ukbb.internal (executor 1) (50/259) 2019-11-14 20:58:51 TaskSetManager: INFO: Starting task 58.0 in stage 4.0 (TID 62, kc1-w-0.c.maclab-ukbb.internal, executor 2, partition 58, PROCESS_LOCAL, 8165 bytes) 2019-11-14 20:58:51 TaskSetManager: INFO: Finished task 23.0 in stage 4.0 (TID 27) in 1427 ms on kc1-w-0.c.maclab-ukbb.internal (executor 2) (51/259) 2019-11-14 20:58:51 TaskSetManager: INFO: Starting task 59.0 in stage 4.0 (TID 63, kc1-w-0.c.maclab-ukbb.internal, executor 2, partition 59, PROCESS_LOCAL, 8165 bytes) 2019-11-14 20:58:51 TaskSetManager: INFO: Finished task 53.0 in stage 4.0 (TID 57) in 223 ms on kc1-w-0.c.maclab-ukbb.internal (executor 2) (52/259) 2019-11-14 20:58:51 TaskSetManager: INFO: Starting task 60.0 in stage 4.0 (TID 64, kc1-w-0.c.maclab-ukbb.internal, executor 2, partition 60, PROCESS_LOCAL, 8165 bytes) 2019-11-14 20:58:51 TaskSetManager: INFO: Finished task 42.0 in stage 4.0 (TID 46) in 667 ms on kc1-w-0.c.maclab-ukbb.internal (executor 2) (53/259) 2019-11-14 20:58:51 TaskSetManager: INFO: Starting task 61.0 in stage 4.0 (TID 65, kc1-w-0.c.maclab-ukbb.internal, executor 1, partition 61, PROCESS_LOCAL, 8165 bytes) 2019-11-14 20:58:51 TaskSetManager: INFO: Finished task 45.0 in stage 4.0 (TID 49) in 588 ms on kc1-w-0.c.maclab-ukbb.internal (executor 1) (54/259) 2019-11-14 20:58:51 TaskSetManager: INFO: Starting task 62.0 in stage 4.0 (TID 66, kc1-w-0.c.maclab-ukbb.internal, executor 1, partition 62, PROCESS_LOCAL, 8165 bytes) 2019-11-14 20:58:51 TaskSetManager: INFO: Finished task 55.0 in stage 4.0 (TID 59) in 279 ms on kc1-w-0.c.maclab-ukbb.internal (executor 1) (55/259) 2019-11-14 20:58:51 TaskSetManager: INFO: Starting task 63.0 in stage 4.0 (TID 67, kc1-w-0.c.maclab-ukbb.internal, executor 2, partition 63, PROCESS_LOCAL, 8165 bytes) 2019-11-14 20:58:51 TaskSetManager: INFO: Finished task 56.0 in stage 4.0 (TID 60) in 243 ms on kc1-w-0.c.maclab-ukbb.internal (executor 2) (56/259) 2019-11-14 20:58:51 TaskSetManager: INFO: Starting task 64.0 in stage 4.0 (TID 68, kc1-w-0.c.maclab-ukbb.internal, executor 1, partition 64, PROCESS_LOCAL, 8165 bytes) 2019-11-14 20:58:51 TaskSetManager: INFO: Finished task 57.0 in stage 4.0 (TID 61) in 222 ms on kc1-w-0.c.maclab-ukbb.internal (executor 1) (57/259) 2019-11-14 20:58:51 TaskSetManager: INFO: Starting task 65.0 in stage 4.0 (TID 69, kc1-w-0.c.maclab-ukbb.internal, executor 1, partition 65, PROCESS_LOCAL, 8165 bytes) 2019-11-14 20:58:51 TaskSetManager: INFO: Finished task 54.0 in stage 4.0 (TID 58) in 393 ms on kc1-w-0.c.maclab-ukbb.internal (executor 1) (58/259) 2019-11-14 20:58:51 TaskSetManager: INFO: Starting task 66.0 in stage 4.0 (TID 70, kc1-w-0.c.maclab-ukbb.internal, executor 2, partition 66, PROCESS_LOCAL, 8165 bytes) 2019-11-14 20:58:51 TaskSetManager: INFO: Finished task 60.0 in stage 4.0 (TID 64) in 183 ms on kc1-w-0.c.maclab-ukbb.internal (executor 2) (59/259) 2019-11-14 20:58:51 TaskSetManager: INFO: Starting task 67.0 in stage 4.0 (TID 71, kc1-w-0.c.maclab-ukbb.internal, executor 1, partition 67, PROCESS_LOCAL, 8165 bytes) 2019-11-14 20:58:51 TaskSetManager: INFO: Finished task 61.0 in stage 4.0 (TID 65) in 214 ms on kc1-w-0.c.maclab-ukbb.internal (executor 1) (60/259) 2019-11-14 20:58:51 TaskSetManager: INFO: Starting task 68.0 in stage 4.0 (TID 72, kc1-w-0.c.maclab-ukbb.internal, executor 2, partition 68, PROCESS_LOCAL, 8165 bytes) 2019-11-14 20:58:51 TaskSetManager: INFO: Finished task 58.0 in stage 4.0 (TID 62) in 245 ms on kc1-w-0.c.maclab-ukbb.internal (executor 2) (61/259) 2019-11-14 20:58:51 TaskSetManager: INFO: Starting task 69.0 in stage 4.0 (TID 73, kc1-w-0.c.maclab-ukbb.internal, executor 2, partition 69, PROCESS_LOCAL, 8165 bytes) 2019-11-14 20:58:51 TaskSetManager: INFO: Finished task 59.0 in stage 4.0 (TID 63) in 265 ms on kc1-w-0.c.maclab-ukbb.internal (executor 2) (62/259) 2019-11-14 20:58:51 TaskSetManager: INFO: Starting task 70.0 in stage 4.0 (TID 74, kc1-w-0.c.maclab-ukbb.internal, executor 1, partition 70, PROCESS_LOCAL, 8165 bytes) 2019-11-14 20:58:51 TaskSetManager: INFO: Finished task 62.0 in stage 4.0 (TID 66) in 250 ms on kc1-w-0.c.maclab-ukbb.internal (executor 1) (63/259) 2019-11-14 20:58:51 TaskSetManager: INFO: Starting task 71.0 in stage 4.0 (TID 75, kc1-w-0.c.maclab-ukbb.internal, executor 1, partition 71, PROCESS_LOCAL, 8165 bytes) 2019-11-14 20:58:51 TaskSetManager: INFO: Finished task 65.0 in stage 4.0 (TID 69) in 201 ms on kc1-w-0.c.maclab-ukbb.internal (executor 1) (64/259) 2019-11-14 20:58:51 TaskSetManager: INFO: Starting task 72.0 in stage 4.0 (TID 76, kc1-w-0.c.maclab-ukbb.internal, executor 2, partition 72, PROCESS_LOCAL, 8165 bytes) 2019-11-14 20:58:51 TaskSetManager: INFO: Finished task 66.0 in stage 4.0 (TID 70) in 232 ms on kc1-w-0.c.maclab-ukbb.internal (executor 2) (65/259) 2019-11-14 20:58:51 TaskSetManager: INFO: Starting task 73.0 in stage 4.0 (TID 77, kc1-w-0.c.maclab-ukbb.internal, executor 2, partition 73, PROCESS_LOCAL, 8165 bytes) 2019-11-14 20:58:51 TaskSetManager: INFO: Finished task 63.0 in stage 4.0 (TID 67) in 289 ms on kc1-w-0.c.maclab-ukbb.internal (executor 2) (66/259) 2019-11-14 20:58:51 TaskSetManager: INFO: Starting task 74.0 in stage 4.0 (TID 78, kc1-w-0.c.maclab-ukbb.internal, executor 1, partition 74, PROCESS_LOCAL, 8165 bytes) 2019-11-14 20:58:51 TaskSetManager: INFO: Finished task 67.0 in stage 4.0 (TID 71) in 209 ms on kc1-w-0.c.maclab-ukbb.internal (executor 1) (67/259) 2019-11-14 20:58:51 TaskSetManager: INFO: Starting task 75.0 in stage 4.0 (TID 79, kc1-w-0.c.maclab-ukbb.internal, executor 1, partition 75, PROCESS_LOCAL, 8165 bytes) 2019-11-14 20:58:51 TaskSetManager: INFO: Finished task 64.0 in stage 4.0 (TID 68) in 257 ms on kc1-w-0.c.maclab-ukbb.internal (executor 1) (68/259) 2019-11-14 20:58:51 ExecutorAllocationManager: INFO: Requesting 2 new executors because tasks are backlogged (new desired total will be 6) 2019-11-14 20:58:51 TaskSetManager: INFO: Starting task 76.0 in stage 4.0 (TID 80, kc1-w-0.c.maclab-ukbb.internal, executor 2, partition 76, PROCESS_LOCAL, 8165 bytes) 2019-11-14 20:58:51 TaskSetManager: INFO: Finished task 69.0 in stage 4.0 (TID 73) in 242 ms on kc1-w-0.c.maclab-ukbb.internal (executor 2) (69/259) 2019-11-14 20:58:51 TaskSetManager: INFO: Starting task 77.0 in stage 4.0 (TID 81, kc1-w-0.c.maclab-ukbb.internal, executor 2, partition 77, PROCESS_LOCAL, 8165 bytes) 2019-11-14 20:58:51 TaskSetManager: INFO: Finished task 68.0 in stage 4.0 (TID 72) in 282 ms on kc1-w-0.c.maclab-ukbb.internal (executor 2) (70/259) 2019-11-14 20:58:52 TaskSetManager: INFO: Starting task 78.0 in stage 4.0 (TID 82, kc1-w-0.c.maclab-ukbb.internal, executor 1, partition 78, PROCESS_LOCAL, 8165 bytes) 2019-11-14 20:58:52 TaskSetManager: INFO: Finished task 70.0 in stage 4.0 (TID 74) in 228 ms on kc1-w-0.c.maclab-ukbb.internal (executor 1) (71/259) 2019-11-14 20:58:52 TaskSetManager: INFO: Starting task 79.0 in stage 4.0 (TID 83, kc1-w-0.c.maclab-ukbb.internal, executor 1, partition 79, PROCESS_LOCAL, 8165 bytes) 2019-11-14 20:58:52 TaskSetManager: INFO: Finished task 71.0 in stage 4.0 (TID 75) in 223 ms on kc1-w-0.c.maclab-ukbb.internal (executor 1) (72/259) 2019-11-14 20:58:52 TaskSetManager: INFO: Starting task 80.0 in stage 4.0 (TID 84, kc1-w-0.c.maclab-ukbb.internal, executor 2, partition 80, PROCESS_LOCAL, 8165 bytes) 2019-11-14 20:58:52 TaskSetManager: INFO: Finished task 72.0 in stage 4.0 (TID 76) in 202 ms on kc1-w-0.c.maclab-ukbb.internal (executor 2) (73/259) 2019-11-14 20:58:52 TaskSetManager: INFO: Starting task 81.0 in stage 4.0 (TID 85, kc1-w-0.c.maclab-ukbb.internal, executor 2, partition 81, PROCESS_LOCAL, 8165 bytes) 2019-11-14 20:58:52 TaskSetManager: INFO: Finished task 73.0 in stage 4.0 (TID 77) in 206 ms on kc1-w-0.c.maclab-ukbb.internal (executor 2) (74/259) 2019-11-14 20:58:52 TaskSetManager: INFO: Starting task 82.0 in stage 4.0 (TID 86, kc1-w-0.c.maclab-ukbb.internal, executor 1, partition 82, PROCESS_LOCAL, 8165 bytes) 2019-11-14 20:58:52 TaskSetManager: INFO: Finished task 74.0 in stage 4.0 (TID 78) in 208 ms on kc1-w-0.c.maclab-ukbb.internal (executor 1) (75/259) 2019-11-14 20:58:52 TaskSetManager: INFO: Starting task 83.0 in stage 4.0 (TID 87, kc1-w-0.c.maclab-ukbb.internal, executor 2, partition 83, PROCESS_LOCAL, 8165 bytes) 2019-11-14 20:58:52 TaskSetManager: INFO: Finished task 76.0 in stage 4.0 (TID 80) in 186 ms on kc1-w-0.c.maclab-ukbb.internal (executor 2) (76/259) 2019-11-14 20:58:52 TaskSetManager: INFO: Starting task 84.0 in stage 4.0 (TID 88, kc1-w-0.c.maclab-ukbb.internal, executor 1, partition 84, PROCESS_LOCAL, 8165 bytes) 2019-11-14 20:58:52 TaskSetManager: INFO: Finished task 78.0 in stage 4.0 (TID 82) in 199 ms on kc1-w-0.c.maclab-ukbb.internal (executor 1) (77/259) 2019-11-14 20:58:52 TaskSetManager: INFO: Starting task 85.0 in stage 4.0 (TID 89, kc1-w-0.c.maclab-ukbb.internal, executor 2, partition 85, PROCESS_LOCAL, 8165 bytes) 2019-11-14 20:58:52 TaskSetManager: INFO: Finished task 81.0 in stage 4.0 (TID 85) in 179 ms on kc1-w-0.c.maclab-ukbb.internal (executor 2) (78/259) 2019-11-14 20:58:52 TaskSetManager: INFO: Starting task 86.0 in stage 4.0 (TID 90, kc1-w-0.c.maclab-ukbb.internal, executor 2, partition 86, PROCESS_LOCAL, 8165 bytes) 2019-11-14 20:58:52 TaskSetManager: INFO: Finished task 80.0 in stage 4.0 (TID 84) in 194 ms on kc1-w-0.c.maclab-ukbb.internal (executor 2) (79/259) 2019-11-14 20:58:52 TaskSetManager: INFO: Starting task 87.0 in stage 4.0 (TID 91, kc1-w-0.c.maclab-ukbb.internal, executor 1, partition 87, PROCESS_LOCAL, 8165 bytes) 2019-11-14 20:58:52 TaskSetManager: INFO: Finished task 82.0 in stage 4.0 (TID 86) in 209 ms on kc1-w-0.c.maclab-ukbb.internal (executor 1) (80/259) 2019-11-14 20:58:52 TaskSetManager: INFO: Starting task 88.0 in stage 4.0 (TID 92, kc1-w-0.c.maclab-ukbb.internal, executor 1, partition 88, PROCESS_LOCAL, 8165 bytes) 2019-11-14 20:58:52 TaskSetManager: INFO: Finished task 79.0 in stage 4.0 (TID 83) in 280 ms on kc1-w-0.c.maclab-ukbb.internal (executor 1) (81/259) 2019-11-14 20:58:52 TaskSetManager: INFO: Starting task 89.0 in stage 4.0 (TID 93, kc1-w-0.c.maclab-ukbb.internal, executor 2, partition 89, PROCESS_LOCAL, 8165 bytes) 2019-11-14 20:58:52 TaskSetManager: INFO: Finished task 83.0 in stage 4.0 (TID 87) in 201 ms on kc1-w-0.c.maclab-ukbb.internal (executor 2) (82/259) 2019-11-14 20:58:52 TaskSetManager: INFO: Starting task 90.0 in stage 4.0 (TID 94, kc1-w-0.c.maclab-ukbb.internal, executor 2, partition 90, PROCESS_LOCAL, 8165 bytes) 2019-11-14 20:58:52 TaskSetManager: INFO: Finished task 77.0 in stage 4.0 (TID 81) in 437 ms on kc1-w-0.c.maclab-ukbb.internal (executor 2) (83/259) 2019-11-14 20:58:52 TaskSetManager: INFO: Starting task 91.0 in stage 4.0 (TID 95, kc1-w-0.c.maclab-ukbb.internal, executor 2, partition 91, PROCESS_LOCAL, 8165 bytes) 2019-11-14 20:58:52 TaskSetManager: INFO: Finished task 86.0 in stage 4.0 (TID 90) in 180 ms on kc1-w-0.c.maclab-ukbb.internal (executor 2) (84/259) 2019-11-14 20:58:52 TaskSetManager: INFO: Starting task 92.0 in stage 4.0 (TID 96, kc1-w-0.c.maclab-ukbb.internal, executor 1, partition 92, PROCESS_LOCAL, 8165 bytes) 2019-11-14 20:58:52 TaskSetManager: INFO: Finished task 84.0 in stage 4.0 (TID 88) in 223 ms on kc1-w-0.c.maclab-ukbb.internal (executor 1) (85/259) 2019-11-14 20:58:52 TaskSetManager: INFO: Starting task 93.0 in stage 4.0 (TID 97, kc1-w-0.c.maclab-ukbb.internal, executor 2, partition 93, PROCESS_LOCAL, 8165 bytes) 2019-11-14 20:58:52 TaskSetManager: INFO: Finished task 85.0 in stage 4.0 (TID 89) in 275 ms on kc1-w-0.c.maclab-ukbb.internal (executor 2) (86/259) 2019-11-14 20:58:52 TaskSetManager: INFO: Starting task 94.0 in stage 4.0 (TID 98, kc1-w-0.c.maclab-ukbb.internal, executor 2, partition 94, PROCESS_LOCAL, 8165 bytes) 2019-11-14 20:58:52 TaskSetManager: INFO: Finished task 89.0 in stage 4.0 (TID 93) in 196 ms on kc1-w-0.c.maclab-ukbb.internal (executor 2) (87/259) 2019-11-14 20:58:52 TaskSetManager: INFO: Starting task 95.0 in stage 4.0 (TID 99, kc1-w-0.c.maclab-ukbb.internal, executor 1, partition 95, PROCESS_LOCAL, 8165 bytes) 2019-11-14 20:58:52 TaskSetManager: INFO: Finished task 87.0 in stage 4.0 (TID 91) in 251 ms on kc1-w-0.c.maclab-ukbb.internal (executor 1) (88/259) 2019-11-14 20:58:52 TaskSetManager: INFO: Starting task 96.0 in stage 4.0 (TID 100, kc1-w-0.c.maclab-ukbb.internal, executor 1, partition 96, PROCESS_LOCAL, 8165 bytes) 2019-11-14 20:58:52 TaskSetManager: INFO: Finished task 88.0 in stage 4.0 (TID 92) in 251 ms on kc1-w-0.c.maclab-ukbb.internal (executor 1) (89/259) 2019-11-14 20:58:52 TaskSetManager: INFO: Starting task 97.0 in stage 4.0 (TID 101, kc1-w-0.c.maclab-ukbb.internal, executor 1, partition 97, PROCESS_LOCAL, 8165 bytes) 2019-11-14 20:58:52 TaskSetManager: INFO: Finished task 75.0 in stage 4.0 (TID 79) in 707 ms on kc1-w-0.c.maclab-ukbb.internal (executor 1) (90/259) 2019-11-14 20:58:52 TaskSetManager: INFO: Starting task 98.0 in stage 4.0 (TID 102, kc1-w-0.c.maclab-ukbb.internal, executor 2, partition 98, PROCESS_LOCAL, 8165 bytes) 2019-11-14 20:58:52 TaskSetManager: INFO: Finished task 90.0 in stage 4.0 (TID 94) in 225 ms on kc1-w-0.c.maclab-ukbb.internal (executor 2) (91/259) 2019-11-14 20:58:52 TaskSetManager: INFO: Starting task 99.0 in stage 4.0 (TID 103, kc1-w-0.c.maclab-ukbb.internal, executor 2, partition 99, PROCESS_LOCAL, 8165 bytes) 2019-11-14 20:58:52 TaskSetManager: INFO: Finished task 93.0 in stage 4.0 (TID 97) in 195 ms on kc1-w-0.c.maclab-ukbb.internal (executor 2) (92/259) 2019-11-14 20:58:52 TaskSetManager: INFO: Starting task 100.0 in stage 4.0 (TID 104, kc1-w-0.c.maclab-ukbb.internal, executor 1, partition 100, PROCESS_LOCAL, 8165 bytes) 2019-11-14 20:58:52 TaskSetManager: INFO: Finished task 95.0 in stage 4.0 (TID 99) in 213 ms on kc1-w-0.c.maclab-ukbb.internal (executor 1) (93/259) 2019-11-14 20:58:52 TaskSetManager: INFO: Starting task 101.0 in stage 4.0 (TID 105, kc1-w-0.c.maclab-ukbb.internal, executor 2, partition 101, PROCESS_LOCAL, 8165 bytes) 2019-11-14 20:58:52 TaskSetManager: INFO: Finished task 94.0 in stage 4.0 (TID 98) in 248 ms on kc1-w-0.c.maclab-ukbb.internal (executor 2) (94/259) 2019-11-14 20:58:52 TaskSetManager: INFO: Starting task 102.0 in stage 4.0 (TID 106, kc1-w-0.c.maclab-ukbb.internal, executor 2, partition 102, PROCESS_LOCAL, 8165 bytes) 2019-11-14 20:58:52 TaskSetManager: INFO: Finished task 91.0 in stage 4.0 (TID 95) in 356 ms on kc1-w-0.c.maclab-ukbb.internal (executor 2) (95/259) 2019-11-14 20:58:52 TaskSetManager: INFO: Starting task 103.0 in stage 4.0 (TID 107, kc1-w-0.c.maclab-ukbb.internal, executor 1, partition 103, PROCESS_LOCAL, 8165 bytes) 2019-11-14 20:58:52 TaskSetManager: INFO: Finished task 96.0 in stage 4.0 (TID 100) in 220 ms on kc1-w-0.c.maclab-ukbb.internal (executor 1) (96/259) 2019-11-14 20:58:52 TaskSetManager: INFO: Starting task 104.0 in stage 4.0 (TID 108, kc1-w-0.c.maclab-ukbb.internal, executor 1, partition 104, PROCESS_LOCAL, 8165 bytes) 2019-11-14 20:58:52 TaskSetManager: INFO: Finished task 97.0 in stage 4.0 (TID 101) in 217 ms on kc1-w-0.c.maclab-ukbb.internal (executor 1) (97/259) 2019-11-14 20:58:52 TaskSetManager: INFO: Starting task 105.0 in stage 4.0 (TID 109, kc1-w-0.c.maclab-ukbb.internal, executor 2, partition 105, PROCESS_LOCAL, 8165 bytes) 2019-11-14 20:58:52 TaskSetManager: INFO: Finished task 98.0 in stage 4.0 (TID 102) in 257 ms on kc1-w-0.c.maclab-ukbb.internal (executor 2) (98/259) 2019-11-14 20:58:52 TaskSetManager: INFO: Starting task 106.0 in stage 4.0 (TID 110, kc1-w-0.c.maclab-ukbb.internal, executor 2, partition 106, PROCESS_LOCAL, 8165 bytes) 2019-11-14 20:58:52 TaskSetManager: INFO: Finished task 99.0 in stage 4.0 (TID 103) in 174 ms on kc1-w-0.c.maclab-ukbb.internal (executor 2) (99/259) 2019-11-14 20:58:52 ExecutorAllocationManager: INFO: Requesting 4 new executors because tasks are backlogged (new desired total will be 10) 2019-11-14 20:58:52 TaskSetManager: INFO: Starting task 107.0 in stage 4.0 (TID 111, kc1-w-0.c.maclab-ukbb.internal, executor 2, partition 107, PROCESS_LOCAL, 8165 bytes) 2019-11-14 20:58:52 TaskSetManager: INFO: Finished task 101.0 in stage 4.0 (TID 105) in 188 ms on kc1-w-0.c.maclab-ukbb.internal (executor 2) (100/259) 2019-11-14 20:58:52 TaskSetManager: INFO: Starting task 108.0 in stage 4.0 (TID 112, kc1-w-0.c.maclab-ukbb.internal, executor 2, partition 108, PROCESS_LOCAL, 8165 bytes) 2019-11-14 20:58:52 TaskSetManager: INFO: Finished task 102.0 in stage 4.0 (TID 106) in 198 ms on kc1-w-0.c.maclab-ukbb.internal (executor 2) (101/259) 2019-11-14 20:58:52 TaskSetManager: INFO: Starting task 109.0 in stage 4.0 (TID 113, kc1-w-0.c.maclab-ukbb.internal, executor 1, partition 109, PROCESS_LOCAL, 8165 bytes) 2019-11-14 20:58:52 TaskSetManager: INFO: Finished task 100.0 in stage 4.0 (TID 104) in 247 ms on kc1-w-0.c.maclab-ukbb.internal (executor 1) (102/259) 2019-11-14 20:58:53 TaskSetManager: INFO: Starting task 110.0 in stage 4.0 (TID 114, kc1-w-0.c.maclab-ukbb.internal, executor 1, partition 110, PROCESS_LOCAL, 8165 bytes) 2019-11-14 20:58:53 TaskSetManager: INFO: Finished task 103.0 in stage 4.0 (TID 107) in 253 ms on kc1-w-0.c.maclab-ukbb.internal (executor 1) (103/259) 2019-11-14 20:58:53 TaskSetManager: INFO: Starting task 111.0 in stage 4.0 (TID 115, kc1-w-0.c.maclab-ukbb.internal, executor 1, partition 111, PROCESS_LOCAL, 8165 bytes) 2019-11-14 20:58:53 TaskSetManager: INFO: Finished task 92.0 in stage 4.0 (TID 96) in 606 ms on kc1-w-0.c.maclab-ukbb.internal (executor 1) (104/259) 2019-11-14 20:58:53 TaskSetManager: INFO: Starting task 112.0 in stage 4.0 (TID 116, kc1-w-0.c.maclab-ukbb.internal, executor 2, partition 112, PROCESS_LOCAL, 8165 bytes) 2019-11-14 20:58:53 TaskSetManager: INFO: Finished task 106.0 in stage 4.0 (TID 110) in 234 ms on kc1-w-0.c.maclab-ukbb.internal (executor 2) (105/259) 2019-11-14 20:58:53 TaskSetManager: INFO: Starting task 113.0 in stage 4.0 (TID 117, kc1-w-0.c.maclab-ukbb.internal, executor 2, partition 113, PROCESS_LOCAL, 8165 bytes) 2019-11-14 20:58:53 TaskSetManager: INFO: Finished task 105.0 in stage 4.0 (TID 109) in 261 ms on kc1-w-0.c.maclab-ukbb.internal (executor 2) (106/259) 2019-11-14 20:58:53 TaskSetManager: INFO: Starting task 114.0 in stage 4.0 (TID 118, kc1-w-0.c.maclab-ukbb.internal, executor 2, partition 114, PROCESS_LOCAL, 8165 bytes) 2019-11-14 20:58:53 TaskSetManager: INFO: Finished task 107.0 in stage 4.0 (TID 111) in 211 ms on kc1-w-0.c.maclab-ukbb.internal (executor 2) (107/259) 2019-11-14 20:58:53 TaskSetManager: INFO: Starting task 115.0 in stage 4.0 (TID 119, kc1-w-0.c.maclab-ukbb.internal, executor 1, partition 115, PROCESS_LOCAL, 8165 bytes) 2019-11-14 20:58:53 TaskSetManager: INFO: Finished task 104.0 in stage 4.0 (TID 108) in 500 ms on kc1-w-0.c.maclab-ukbb.internal (executor 1) (108/259) 2019-11-14 20:58:53 TaskSetManager: INFO: Starting task 116.0 in stage 4.0 (TID 120, kc1-w-0.c.maclab-ukbb.internal, executor 2, partition 116, PROCESS_LOCAL, 8165 bytes) 2019-11-14 20:58:53 TaskSetManager: INFO: Finished task 114.0 in stage 4.0 (TID 118) in 181 ms on kc1-w-0.c.maclab-ukbb.internal (executor 2) (109/259) 2019-11-14 20:58:53 TaskSetManager: INFO: Starting task 117.0 in stage 4.0 (TID 121, kc1-w-0.c.maclab-ukbb.internal, executor 2, partition 117, PROCESS_LOCAL, 8165 bytes) 2019-11-14 20:58:53 TaskSetManager: INFO: Finished task 112.0 in stage 4.0 (TID 116) in 230 ms on kc1-w-0.c.maclab-ukbb.internal (executor 2) (110/259) 2019-11-14 20:58:53 TaskSetManager: INFO: Starting task 118.0 in stage 4.0 (TID 122, kc1-w-0.c.maclab-ukbb.internal, executor 2, partition 118, PROCESS_LOCAL, 8165 bytes) 2019-11-14 20:58:53 TaskSetManager: INFO: Finished task 113.0 in stage 4.0 (TID 117) in 262 ms on kc1-w-0.c.maclab-ukbb.internal (executor 2) (111/259) 2019-11-14 20:58:53 TaskSetManager: INFO: Starting task 119.0 in stage 4.0 (TID 123, kc1-w-0.c.maclab-ukbb.internal, executor 1, partition 119, PROCESS_LOCAL, 8165 bytes) 2019-11-14 20:58:53 TaskSetManager: INFO: Finished task 110.0 in stage 4.0 (TID 114) in 417 ms on kc1-w-0.c.maclab-ukbb.internal (executor 1) (112/259) 2019-11-14 20:58:53 TaskSetManager: INFO: Starting task 120.0 in stage 4.0 (TID 124, kc1-w-0.c.maclab-ukbb.internal, executor 1, partition 120, PROCESS_LOCAL, 8165 bytes) 2019-11-14 20:58:53 TaskSetManager: INFO: Finished task 115.0 in stage 4.0 (TID 119) in 193 ms on kc1-w-0.c.maclab-ukbb.internal (executor 1) (113/259) 2019-11-14 20:58:53 TaskSetManager: INFO: Starting task 121.0 in stage 4.0 (TID 125, kc1-w-0.c.maclab-ukbb.internal, executor 1, partition 121, PROCESS_LOCAL, 8165 bytes) 2019-11-14 20:58:53 TaskSetManager: INFO: Finished task 109.0 in stage 4.0 (TID 113) in 518 ms on kc1-w-0.c.maclab-ukbb.internal (executor 1) (114/259) 2019-11-14 20:58:53 TaskSetManager: INFO: Starting task 122.0 in stage 4.0 (TID 126, kc1-w-0.c.maclab-ukbb.internal, executor 1, partition 122, PROCESS_LOCAL, 8165 bytes) 2019-11-14 20:58:53 TaskSetManager: INFO: Finished task 111.0 in stage 4.0 (TID 115) in 494 ms on kc1-w-0.c.maclab-ukbb.internal (executor 1) (115/259) 2019-11-14 20:58:53 TaskSetManager: INFO: Starting task 123.0 in stage 4.0 (TID 127, kc1-w-0.c.maclab-ukbb.internal, executor 2, partition 123, PROCESS_LOCAL, 8165 bytes) 2019-11-14 20:58:53 TaskSetManager: INFO: Finished task 108.0 in stage 4.0 (TID 112) in 589 ms on kc1-w-0.c.maclab-ukbb.internal (executor 2) (116/259) 2019-11-14 20:58:53 TaskSetManager: INFO: Starting task 124.0 in stage 4.0 (TID 128, kc1-w-0.c.maclab-ukbb.internal, executor 2, partition 124, PROCESS_LOCAL, 8165 bytes) 2019-11-14 20:58:53 TaskSetManager: INFO: Finished task 116.0 in stage 4.0 (TID 120) in 230 ms on kc1-w-0.c.maclab-ukbb.internal (executor 2) (117/259) 2019-11-14 20:58:53 TaskSetManager: INFO: Starting task 125.0 in stage 4.0 (TID 129, kc1-w-0.c.maclab-ukbb.internal, executor 2, partition 125, PROCESS_LOCAL, 8165 bytes) 2019-11-14 20:58:53 TaskSetManager: INFO: Finished task 118.0 in stage 4.0 (TID 122) in 203 ms on kc1-w-0.c.maclab-ukbb.internal (executor 2) (118/259) 2019-11-14 20:58:53 TaskSetManager: INFO: Starting task 126.0 in stage 4.0 (TID 130, kc1-w-0.c.maclab-ukbb.internal, executor 1, partition 126, PROCESS_LOCAL, 8165 bytes) 2019-11-14 20:58:53 TaskSetManager: INFO: Finished task 119.0 in stage 4.0 (TID 123) in 198 ms on kc1-w-0.c.maclab-ukbb.internal (executor 1) (119/259) 2019-11-14 20:58:53 TaskSetManager: INFO: Starting task 127.0 in stage 4.0 (TID 131, kc1-w-0.c.maclab-ukbb.internal, executor 1, partition 127, PROCESS_LOCAL, 8165 bytes) 2019-11-14 20:58:53 TaskSetManager: INFO: Finished task 120.0 in stage 4.0 (TID 124) in 201 ms on kc1-w-0.c.maclab-ukbb.internal (executor 1) (120/259) 2019-11-14 20:58:53 TaskSetManager: INFO: Starting task 128.0 in stage 4.0 (TID 132, kc1-w-0.c.maclab-ukbb.internal, executor 1, partition 128, PROCESS_LOCAL, 8165 bytes) 2019-11-14 20:58:53 TaskSetManager: INFO: Finished task 126.0 in stage 4.0 (TID 130) in 171 ms on kc1-w-0.c.maclab-ukbb.internal (executor 1) (121/259) 2019-11-14 20:58:53 TaskSetManager: INFO: Starting task 129.0 in stage 4.0 (TID 133, kc1-w-0.c.maclab-ukbb.internal, executor 1, partition 129, PROCESS_LOCAL, 8165 bytes) 2019-11-14 20:58:53 TaskSetManager: INFO: Finished task 122.0 in stage 4.0 (TID 126) in 286 ms on kc1-w-0.c.maclab-ukbb.internal (executor 1) (122/259) 2019-11-14 20:58:53 ExecutorAllocationManager: INFO: Requesting 8 new executors because tasks are backlogged (new desired total will be 18) 2019-11-14 20:58:53 TaskSetManager: INFO: Starting task 130.0 in stage 4.0 (TID 134, kc1-w-0.c.maclab-ukbb.internal, executor 1, partition 130, PROCESS_LOCAL, 8165 bytes) 2019-11-14 20:58:53 TaskSetManager: INFO: Finished task 127.0 in stage 4.0 (TID 131) in 248 ms on kc1-w-0.c.maclab-ukbb.internal (executor 1) (123/259) 2019-11-14 20:58:54 TaskSetManager: INFO: Starting task 131.0 in stage 4.0 (TID 135, kc1-w-0.c.maclab-ukbb.internal, executor 2, partition 131, PROCESS_LOCAL, 8165 bytes) 2019-11-14 20:58:54 TaskSetManager: INFO: Finished task 124.0 in stage 4.0 (TID 128) in 441 ms on kc1-w-0.c.maclab-ukbb.internal (executor 2) (124/259) 2019-11-14 20:58:54 TaskSetManager: INFO: Starting task 132.0 in stage 4.0 (TID 136, kc1-w-0.c.maclab-ukbb.internal, executor 2, partition 132, PROCESS_LOCAL, 8165 bytes) 2019-11-14 20:58:54 TaskSetManager: INFO: Finished task 123.0 in stage 4.0 (TID 127) in 475 ms on kc1-w-0.c.maclab-ukbb.internal (executor 2) (125/259) 2019-11-14 20:58:54 TaskSetManager: INFO: Starting task 133.0 in stage 4.0 (TID 137, kc1-w-0.c.maclab-ukbb.internal, executor 1, partition 133, PROCESS_LOCAL, 8165 bytes) 2019-11-14 20:58:54 TaskSetManager: INFO: Finished task 128.0 in stage 4.0 (TID 132) in 227 ms on kc1-w-0.c.maclab-ukbb.internal (executor 1) (126/259) 2019-11-14 20:58:54 TaskSetManager: INFO: Starting task 134.0 in stage 4.0 (TID 138, kc1-w-0.c.maclab-ukbb.internal, executor 2, partition 134, PROCESS_LOCAL, 8165 bytes) 2019-11-14 20:58:54 TaskSetManager: INFO: Finished task 117.0 in stage 4.0 (TID 121) in 699 ms on kc1-w-0.c.maclab-ukbb.internal (executor 2) (127/259) 2019-11-14 20:58:54 TaskSetManager: INFO: Starting task 135.0 in stage 4.0 (TID 139, kc1-w-0.c.maclab-ukbb.internal, executor 1, partition 135, PROCESS_LOCAL, 8165 bytes) 2019-11-14 20:58:54 TaskSetManager: INFO: Finished task 121.0 in stage 4.0 (TID 125) in 617 ms on kc1-w-0.c.maclab-ukbb.internal (executor 1) (128/259) 2019-11-14 20:58:54 TaskSetManager: INFO: Starting task 136.0 in stage 4.0 (TID 140, kc1-w-0.c.maclab-ukbb.internal, executor 1, partition 136, PROCESS_LOCAL, 8165 bytes) 2019-11-14 20:58:54 TaskSetManager: INFO: Finished task 129.0 in stage 4.0 (TID 133) in 352 ms on kc1-w-0.c.maclab-ukbb.internal (executor 1) (129/259) 2019-11-14 20:58:54 TaskSetManager: INFO: Starting task 137.0 in stage 4.0 (TID 141, kc1-w-0.c.maclab-ukbb.internal, executor 1, partition 137, PROCESS_LOCAL, 8165 bytes) 2019-11-14 20:58:54 TaskSetManager: INFO: Finished task 130.0 in stage 4.0 (TID 134) in 289 ms on kc1-w-0.c.maclab-ukbb.internal (executor 1) (130/259) 2019-11-14 20:58:54 TaskSetManager: INFO: Starting task 138.0 in stage 4.0 (TID 142, kc1-w-0.c.maclab-ukbb.internal, executor 1, partition 138, PROCESS_LOCAL, 8165 bytes) 2019-11-14 20:58:54 TaskSetManager: INFO: Finished task 133.0 in stage 4.0 (TID 137) in 199 ms on kc1-w-0.c.maclab-ukbb.internal (executor 1) (131/259) 2019-11-14 20:58:54 TaskSetManager: INFO: Starting task 139.0 in stage 4.0 (TID 143, kc1-w-0.c.maclab-ukbb.internal, executor 2, partition 139, PROCESS_LOCAL, 8165 bytes) 2019-11-14 20:58:54 TaskSetManager: INFO: Finished task 132.0 in stage 4.0 (TID 136) in 235 ms on kc1-w-0.c.maclab-ukbb.internal (executor 2) (132/259) 2019-11-14 20:58:54 TaskSetManager: INFO: Starting task 140.0 in stage 4.0 (TID 144, kc1-w-0.c.maclab-ukbb.internal, executor 1, partition 140, PROCESS_LOCAL, 8165 bytes) 2019-11-14 20:58:54 TaskSetManager: INFO: Finished task 135.0 in stage 4.0 (TID 139) in 158 ms on kc1-w-0.c.maclab-ukbb.internal (executor 1) (133/259) 2019-11-14 20:58:54 TaskSetManager: INFO: Starting task 141.0 in stage 4.0 (TID 145, kc1-w-0.c.maclab-ukbb.internal, executor 2, partition 141, PROCESS_LOCAL, 8165 bytes) 2019-11-14 20:58:54 TaskSetManager: INFO: Finished task 131.0 in stage 4.0 (TID 135) in 270 ms on kc1-w-0.c.maclab-ukbb.internal (executor 2) (134/259) 2019-11-14 20:58:54 TaskSetManager: INFO: Starting task 142.0 in stage 4.0 (TID 146, kc1-w-0.c.maclab-ukbb.internal, executor 2, partition 142, PROCESS_LOCAL, 8165 bytes) 2019-11-14 20:58:54 TaskSetManager: INFO: Finished task 125.0 in stage 4.0 (TID 129) in 701 ms on kc1-w-0.c.maclab-ukbb.internal (executor 2) (135/259) 2019-11-14 20:58:54 TaskSetManager: INFO: Starting task 143.0 in stage 4.0 (TID 147, kc1-w-0.c.maclab-ukbb.internal, executor 2, partition 143, PROCESS_LOCAL, 8165 bytes) 2019-11-14 20:58:54 TaskSetManager: INFO: Finished task 134.0 in stage 4.0 (TID 138) in 318 ms on kc1-w-0.c.maclab-ukbb.internal (executor 2) (136/259) 2019-11-14 20:58:54 TaskSetManager: INFO: Starting task 144.0 in stage 4.0 (TID 148, kc1-w-0.c.maclab-ukbb.internal, executor 1, partition 144, PROCESS_LOCAL, 8165 bytes) 2019-11-14 20:58:54 TaskSetManager: INFO: Finished task 137.0 in stage 4.0 (TID 141) in 164 ms on kc1-w-0.c.maclab-ukbb.internal (executor 1) (137/259) 2019-11-14 20:58:54 TaskSetManager: INFO: Starting task 145.0 in stage 4.0 (TID 149, kc1-w-0.c.maclab-ukbb.internal, executor 1, partition 145, PROCESS_LOCAL, 8165 bytes) 2019-11-14 20:58:54 TaskSetManager: INFO: Finished task 138.0 in stage 4.0 (TID 142) in 172 ms on kc1-w-0.c.maclab-ukbb.internal (executor 1) (138/259) 2019-11-14 20:58:54 TaskSetManager: INFO: Starting task 146.0 in stage 4.0 (TID 150, kc1-w-0.c.maclab-ukbb.internal, executor 2, partition 146, PROCESS_LOCAL, 8165 bytes) 2019-11-14 20:58:54 TaskSetManager: INFO: Finished task 142.0 in stage 4.0 (TID 146) in 170 ms on kc1-w-0.c.maclab-ukbb.internal (executor 2) (139/259) 2019-11-14 20:58:54 TaskSetManager: INFO: Starting task 147.0 in stage 4.0 (TID 151, kc1-w-0.c.maclab-ukbb.internal, executor 2, partition 147, PROCESS_LOCAL, 8165 bytes) 2019-11-14 20:58:54 TaskSetManager: INFO: Finished task 141.0 in stage 4.0 (TID 145) in 195 ms on kc1-w-0.c.maclab-ukbb.internal (executor 2) (140/259) 2019-11-14 20:58:54 TaskSetManager: INFO: Starting task 148.0 in stage 4.0 (TID 152, kc1-w-0.c.maclab-ukbb.internal, executor 2, partition 148, PROCESS_LOCAL, 8165 bytes) 2019-11-14 20:58:54 TaskSetManager: INFO: Finished task 139.0 in stage 4.0 (TID 143) in 236 ms on kc1-w-0.c.maclab-ukbb.internal (executor 2) (141/259) 2019-11-14 20:58:54 TaskSetManager: INFO: Starting task 149.0 in stage 4.0 (TID 153, kc1-w-0.c.maclab-ukbb.internal, executor 1, partition 149, PROCESS_LOCAL, 8165 bytes) 2019-11-14 20:58:54 TaskSetManager: INFO: Finished task 136.0 in stage 4.0 (TID 140) in 350 ms on kc1-w-0.c.maclab-ukbb.internal (executor 1) (142/259) 2019-11-14 20:58:54 TaskSetManager: INFO: Starting task 150.0 in stage 4.0 (TID 154, kc1-w-0.c.maclab-ukbb.internal, executor 2, partition 150, PROCESS_LOCAL, 8165 bytes) 2019-11-14 20:58:54 TaskSetManager: INFO: Finished task 143.0 in stage 4.0 (TID 147) in 196 ms on kc1-w-0.c.maclab-ukbb.internal (executor 2) (143/259) 2019-11-14 20:58:54 TaskSetManager: INFO: Starting task 151.0 in stage 4.0 (TID 155, kc1-w-0.c.maclab-ukbb.internal, executor 1, partition 151, PROCESS_LOCAL, 8165 bytes) 2019-11-14 20:58:54 TaskSetManager: INFO: Finished task 144.0 in stage 4.0 (TID 148) in 200 ms on kc1-w-0.c.maclab-ukbb.internal (executor 1) (144/259) 2019-11-14 20:58:54 TaskSetManager: INFO: Starting task 152.0 in stage 4.0 (TID 156, kc1-w-0.c.maclab-ukbb.internal, executor 1, partition 152, PROCESS_LOCAL, 8165 bytes) 2019-11-14 20:58:54 TaskSetManager: INFO: Finished task 145.0 in stage 4.0 (TID 149) in 211 ms on kc1-w-0.c.maclab-ukbb.internal (executor 1) (145/259) 2019-11-14 20:58:54 TaskSetManager: INFO: Starting task 153.0 in stage 4.0 (TID 157, kc1-w-0.c.maclab-ukbb.internal, executor 2, partition 153, PROCESS_LOCAL, 8165 bytes) 2019-11-14 20:58:54 TaskSetManager: INFO: Finished task 147.0 in stage 4.0 (TID 151) in 159 ms on kc1-w-0.c.maclab-ukbb.internal (executor 2) (146/259) 2019-11-14 20:58:54 TaskSetManager: INFO: Starting task 154.0 in stage 4.0 (TID 158, kc1-w-0.c.maclab-ukbb.internal, executor 1, partition 154, PROCESS_LOCAL, 8165 bytes) 2019-11-14 20:58:54 TaskSetManager: INFO: Finished task 140.0 in stage 4.0 (TID 144) in 355 ms on kc1-w-0.c.maclab-ukbb.internal (executor 1) (147/259) 2019-11-14 20:58:54 TaskSetManager: INFO: Starting task 155.0 in stage 4.0 (TID 159, kc1-w-0.c.maclab-ukbb.internal, executor 2, partition 155, PROCESS_LOCAL, 8165 bytes) 2019-11-14 20:58:54 TaskSetManager: INFO: Finished task 146.0 in stage 4.0 (TID 150) in 257 ms on kc1-w-0.c.maclab-ukbb.internal (executor 2) (148/259) 2019-11-14 20:58:54 TaskSetManager: INFO: Starting task 156.0 in stage 4.0 (TID 160, kc1-w-0.c.maclab-ukbb.internal, executor 2, partition 156, PROCESS_LOCAL, 8165 bytes) 2019-11-14 20:58:54 TaskSetManager: INFO: Finished task 148.0 in stage 4.0 (TID 152) in 230 ms on kc1-w-0.c.maclab-ukbb.internal (executor 2) (149/259) 2019-11-14 20:58:54 TaskSetManager: INFO: Starting task 157.0 in stage 4.0 (TID 161, kc1-w-0.c.maclab-ukbb.internal, executor 2, partition 157, PROCESS_LOCAL, 8165 bytes) 2019-11-14 20:58:54 TaskSetManager: INFO: Finished task 150.0 in stage 4.0 (TID 154) in 190 ms on kc1-w-0.c.maclab-ukbb.internal (executor 2) (150/259) 2019-11-14 20:58:54 TaskSetManager: INFO: Starting task 158.0 in stage 4.0 (TID 162, kc1-w-0.c.maclab-ukbb.internal, executor 1, partition 158, PROCESS_LOCAL, 8165 bytes) 2019-11-14 20:58:54 TaskSetManager: INFO: Finished task 149.0 in stage 4.0 (TID 153) in 294 ms on kc1-w-0.c.maclab-ukbb.internal (executor 1) (151/259) 2019-11-14 20:58:54 TaskSetManager: INFO: Starting task 159.0 in stage 4.0 (TID 163, kc1-w-0.c.maclab-ukbb.internal, executor 1, partition 159, PROCESS_LOCAL, 8165 bytes) 2019-11-14 20:58:54 TaskSetManager: INFO: Finished task 154.0 in stage 4.0 (TID 158) in 228 ms on kc1-w-0.c.maclab-ukbb.internal (executor 1) (152/259) 2019-11-14 20:58:54 TaskSetManager: INFO: Starting task 160.0 in stage 4.0 (TID 164, kc1-w-0.c.maclab-ukbb.internal, executor 2, partition 160, PROCESS_LOCAL, 8165 bytes) 2019-11-14 20:58:54 TaskSetManager: INFO: Finished task 153.0 in stage 4.0 (TID 157) in 239 ms on kc1-w-0.c.maclab-ukbb.internal (executor 2) (153/259) 2019-11-14 20:58:54 TaskSetManager: INFO: Starting task 161.0 in stage 4.0 (TID 165, kc1-w-0.c.maclab-ukbb.internal, executor 1, partition 161, PROCESS_LOCAL, 8165 bytes) 2019-11-14 20:58:54 TaskSetManager: INFO: Finished task 152.0 in stage 4.0 (TID 156) in 251 ms on kc1-w-0.c.maclab-ukbb.internal (executor 1) (154/259) 2019-11-14 20:58:54 ExecutorAllocationManager: INFO: Requesting 9 new executors because tasks are backlogged (new desired total will be 27) 2019-11-14 20:58:55 TaskSetManager: INFO: Starting task 162.0 in stage 4.0 (TID 166, kc1-w-0.c.maclab-ukbb.internal, executor 1, partition 162, PROCESS_LOCAL, 8165 bytes) 2019-11-14 20:58:55 TaskSetManager: INFO: Finished task 161.0 in stage 4.0 (TID 165) in 158 ms on kc1-w-0.c.maclab-ukbb.internal (executor 1) (155/259) 2019-11-14 20:58:55 TaskSetManager: INFO: Starting task 163.0 in stage 4.0 (TID 167, kc1-w-0.c.maclab-ukbb.internal, executor 1, partition 163, PROCESS_LOCAL, 8165 bytes) 2019-11-14 20:58:55 TaskSetManager: INFO: Finished task 158.0 in stage 4.0 (TID 162) in 214 ms on kc1-w-0.c.maclab-ukbb.internal (executor 1) (156/259) 2019-11-14 20:58:55 TaskSetManager: INFO: Starting task 164.0 in stage 4.0 (TID 168, kc1-w-0.c.maclab-ukbb.internal, executor 2, partition 164, PROCESS_LOCAL, 8165 bytes) 2019-11-14 20:58:55 TaskSetManager: INFO: Finished task 160.0 in stage 4.0 (TID 164) in 179 ms on kc1-w-0.c.maclab-ukbb.internal (executor 2) (157/259) 2019-11-14 20:58:55 TaskSetManager: INFO: Starting task 165.0 in stage 4.0 (TID 169, kc1-w-0.c.maclab-ukbb.internal, executor 2, partition 165, PROCESS_LOCAL, 8165 bytes) 2019-11-14 20:58:55 TaskSetManager: INFO: Finished task 157.0 in stage 4.0 (TID 161) in 319 ms on kc1-w-0.c.maclab-ukbb.internal (executor 2) (158/259) 2019-11-14 20:58:55 TaskSetManager: INFO: Starting task 166.0 in stage 4.0 (TID 170, kc1-w-0.c.maclab-ukbb.internal, executor 1, partition 166, PROCESS_LOCAL, 8165 bytes) 2019-11-14 20:58:55 TaskSetManager: INFO: Finished task 159.0 in stage 4.0 (TID 163) in 264 ms on kc1-w-0.c.maclab-ukbb.internal (executor 1) (159/259) 2019-11-14 20:58:55 TaskSetManager: INFO: Starting task 167.0 in stage 4.0 (TID 171, kc1-w-0.c.maclab-ukbb.internal, executor 2, partition 167, PROCESS_LOCAL, 8165 bytes) 2019-11-14 20:58:55 TaskSetManager: INFO: Finished task 155.0 in stage 4.0 (TID 159) in 448 ms on kc1-w-0.c.maclab-ukbb.internal (executor 2) (160/259) 2019-11-14 20:58:55 TaskSetManager: INFO: Starting task 168.0 in stage 4.0 (TID 172, kc1-w-0.c.maclab-ukbb.internal, executor 2, partition 168, PROCESS_LOCAL, 8165 bytes) 2019-11-14 20:58:55 TaskSetManager: INFO: Finished task 156.0 in stage 4.0 (TID 160) in 433 ms on kc1-w-0.c.maclab-ukbb.internal (executor 2) (161/259) 2019-11-14 20:58:55 TaskSetManager: INFO: Starting task 169.0 in stage 4.0 (TID 173, kc1-w-0.c.maclab-ukbb.internal, executor 1, partition 169, PROCESS_LOCAL, 8165 bytes) 2019-11-14 20:58:55 TaskSetManager: INFO: Finished task 162.0 in stage 4.0 (TID 166) in 200 ms on kc1-w-0.c.maclab-ukbb.internal (executor 1) (162/259) 2019-11-14 20:58:55 TaskSetManager: INFO: Starting task 170.0 in stage 4.0 (TID 174, kc1-w-0.c.maclab-ukbb.internal, executor 1, partition 170, PROCESS_LOCAL, 8165 bytes) 2019-11-14 20:58:55 TaskSetManager: INFO: Finished task 163.0 in stage 4.0 (TID 167) in 197 ms on kc1-w-0.c.maclab-ukbb.internal (executor 1) (163/259) 2019-11-14 20:58:55 TaskSetManager: INFO: Starting task 171.0 in stage 4.0 (TID 175, kc1-w-0.c.maclab-ukbb.internal, executor 2, partition 171, PROCESS_LOCAL, 8165 bytes) 2019-11-14 20:58:55 TaskSetManager: INFO: Finished task 165.0 in stage 4.0 (TID 169) in 188 ms on kc1-w-0.c.maclab-ukbb.internal (executor 2) (164/259) 2019-11-14 20:58:55 TaskSetManager: INFO: Starting task 172.0 in stage 4.0 (TID 176, kc1-w-0.c.maclab-ukbb.internal, executor 2, partition 172, PROCESS_LOCAL, 8165 bytes) 2019-11-14 20:58:55 TaskSetManager: INFO: Finished task 164.0 in stage 4.0 (TID 168) in 298 ms on kc1-w-0.c.maclab-ukbb.internal (executor 2) (165/259) 2019-11-14 20:58:55 TaskSetManager: INFO: Starting task 173.0 in stage 4.0 (TID 177, kc1-w-0.c.maclab-ukbb.internal, executor 2, partition 173, PROCESS_LOCAL, 8165 bytes) 2019-11-14 20:58:55 TaskSetManager: INFO: Finished task 167.0 in stage 4.0 (TID 171) in 246 ms on kc1-w-0.c.maclab-ukbb.internal (executor 2) (166/259) 2019-11-14 20:58:55 TaskSetManager: INFO: Starting task 174.0 in stage 4.0 (TID 178, kc1-w-0.c.maclab-ukbb.internal, executor 2, partition 174, PROCESS_LOCAL, 8165 bytes) 2019-11-14 20:58:55 TaskSetManager: INFO: Finished task 171.0 in stage 4.0 (TID 175) in 163 ms on kc1-w-0.c.maclab-ukbb.internal (executor 2) (167/259) 2019-11-14 20:58:55 TaskSetManager: INFO: Starting task 175.0 in stage 4.0 (TID 179, kc1-w-0.c.maclab-ukbb.internal, executor 2, partition 175, PROCESS_LOCAL, 8165 bytes) 2019-11-14 20:58:55 TaskSetManager: INFO: Finished task 168.0 in stage 4.0 (TID 172) in 297 ms on kc1-w-0.c.maclab-ukbb.internal (executor 2) (168/259) 2019-11-14 20:58:55 TaskSetManager: INFO: Starting task 176.0 in stage 4.0 (TID 180, kc1-w-0.c.maclab-ukbb.internal, executor 2, partition 176, PROCESS_LOCAL, 8165 bytes) 2019-11-14 20:58:55 TaskSetManager: INFO: Finished task 174.0 in stage 4.0 (TID 178) in 176 ms on kc1-w-0.c.maclab-ukbb.internal (executor 2) (169/259) 2019-11-14 20:58:55 TaskSetManager: INFO: Starting task 177.0 in stage 4.0 (TID 181, kc1-w-0.c.maclab-ukbb.internal, executor 2, partition 177, PROCESS_LOCAL, 8165 bytes) 2019-11-14 20:58:55 TaskSetManager: INFO: Finished task 173.0 in stage 4.0 (TID 177) in 210 ms on kc1-w-0.c.maclab-ukbb.internal (executor 2) (170/259) 2019-11-14 20:58:55 TaskSetManager: INFO: Starting task 178.0 in stage 4.0 (TID 182, kc1-w-0.c.maclab-ukbb.internal, executor 1, partition 178, PROCESS_LOCAL, 8165 bytes) 2019-11-14 20:58:55 TaskSetManager: INFO: Finished task 151.0 in stage 4.0 (TID 155) in 1096 ms on kc1-w-0.c.maclab-ukbb.internal (executor 1) (171/259) 2019-11-14 20:58:55 TaskSetManager: INFO: Starting task 179.0 in stage 4.0 (TID 183, kc1-w-0.c.maclab-ukbb.internal, executor 2, partition 179, PROCESS_LOCAL, 8165 bytes) 2019-11-14 20:58:55 TaskSetManager: INFO: Finished task 175.0 in stage 4.0 (TID 179) in 212 ms on kc1-w-0.c.maclab-ukbb.internal (executor 2) (172/259) 2019-11-14 20:58:55 TaskSetManager: INFO: Starting task 180.0 in stage 4.0 (TID 184, kc1-w-0.c.maclab-ukbb.internal, executor 2, partition 180, PROCESS_LOCAL, 8165 bytes) 2019-11-14 20:58:55 TaskSetManager: INFO: Finished task 172.0 in stage 4.0 (TID 176) in 379 ms on kc1-w-0.c.maclab-ukbb.internal (executor 2) (173/259) 2019-11-14 20:58:55 TaskSetManager: INFO: Starting task 181.0 in stage 4.0 (TID 185, kc1-w-0.c.maclab-ukbb.internal, executor 2, partition 181, PROCESS_LOCAL, 8165 bytes) 2019-11-14 20:58:55 TaskSetManager: INFO: Finished task 177.0 in stage 4.0 (TID 181) in 200 ms on kc1-w-0.c.maclab-ukbb.internal (executor 2) (174/259) 2019-11-14 20:58:55 TaskSetManager: INFO: Starting task 182.0 in stage 4.0 (TID 186, kc1-w-0.c.maclab-ukbb.internal, executor 2, partition 182, PROCESS_LOCAL, 8165 bytes) 2019-11-14 20:58:55 TaskSetManager: INFO: Finished task 176.0 in stage 4.0 (TID 180) in 267 ms on kc1-w-0.c.maclab-ukbb.internal (executor 2) (175/259) 2019-11-14 20:58:55 TaskSetManager: INFO: Starting task 183.0 in stage 4.0 (TID 187, kc1-w-0.c.maclab-ukbb.internal, executor 2, partition 183, PROCESS_LOCAL, 8165 bytes) 2019-11-14 20:58:55 TaskSetManager: INFO: Finished task 179.0 in stage 4.0 (TID 183) in 187 ms on kc1-w-0.c.maclab-ukbb.internal (executor 2) (176/259) 2019-11-14 20:58:55 TaskSetManager: INFO: Starting task 184.0 in stage 4.0 (TID 188, kc1-w-0.c.maclab-ukbb.internal, executor 1, partition 184, PROCESS_LOCAL, 8165 bytes) 2019-11-14 20:58:55 TaskSetManager: INFO: Finished task 178.0 in stage 4.0 (TID 182) in 197 ms on kc1-w-0.c.maclab-ukbb.internal (executor 1) (177/259) 2019-11-14 20:58:55 TaskSetManager: INFO: Starting task 185.0 in stage 4.0 (TID 189, kc1-w-0.c.maclab-ukbb.internal, executor 2, partition 185, PROCESS_LOCAL, 8165 bytes) 2019-11-14 20:58:55 TaskSetManager: INFO: Finished task 180.0 in stage 4.0 (TID 184) in 209 ms on kc1-w-0.c.maclab-ukbb.internal (executor 2) (178/259) 2019-11-14 20:58:56 TaskSetManager: INFO: Starting task 186.0 in stage 4.0 (TID 190, kc1-w-0.c.maclab-ukbb.internal, executor 2, partition 186, PROCESS_LOCAL, 8165 bytes) 2019-11-14 20:58:56 TaskSetManager: INFO: Finished task 183.0 in stage 4.0 (TID 187) in 230 ms on kc1-w-0.c.maclab-ukbb.internal (executor 2) (179/259) 2019-11-14 20:58:56 TaskSetManager: INFO: Starting task 187.0 in stage 4.0 (TID 191, kc1-w-0.c.maclab-ukbb.internal, executor 1, partition 187, PROCESS_LOCAL, 8165 bytes) 2019-11-14 20:58:56 TaskSetManager: INFO: Finished task 184.0 in stage 4.0 (TID 188) in 233 ms on kc1-w-0.c.maclab-ukbb.internal (executor 1) (180/259) 2019-11-14 20:58:56 TaskSetManager: INFO: Starting task 188.0 in stage 4.0 (TID 192, kc1-w-0.c.maclab-ukbb.internal, executor 2, partition 188, PROCESS_LOCAL, 8165 bytes) 2019-11-14 20:58:56 TaskSetManager: INFO: Finished task 185.0 in stage 4.0 (TID 189) in 174 ms on kc1-w-0.c.maclab-ukbb.internal (executor 2) (181/259) 2019-11-14 20:58:56 TaskSetManager: INFO: Starting task 189.0 in stage 4.0 (TID 193, kc1-w-0.c.maclab-ukbb.internal, executor 2, partition 189, PROCESS_LOCAL, 8165 bytes) 2019-11-14 20:58:56 TaskSetManager: INFO: Finished task 181.0 in stage 4.0 (TID 185) in 326 ms on kc1-w-0.c.maclab-ukbb.internal (executor 2) (182/259) 2019-11-14 20:58:56 TaskSetManager: INFO: Starting task 190.0 in stage 4.0 (TID 194, kc1-w-0.c.maclab-ukbb.internal, executor 2, partition 190, PROCESS_LOCAL, 8165 bytes) 2019-11-14 20:58:56 TaskSetManager: INFO: Finished task 188.0 in stage 4.0 (TID 192) in 160 ms on kc1-w-0.c.maclab-ukbb.internal (executor 2) (183/259) 2019-11-14 20:58:56 TaskSetManager: INFO: Starting task 191.0 in stage 4.0 (TID 195, kc1-w-0.c.maclab-ukbb.internal, executor 2, partition 191, PROCESS_LOCAL, 8165 bytes) 2019-11-14 20:58:56 TaskSetManager: INFO: Finished task 182.0 in stage 4.0 (TID 186) in 469 ms on kc1-w-0.c.maclab-ukbb.internal (executor 2) (184/259) 2019-11-14 20:58:56 TaskSetManager: INFO: Starting task 192.0 in stage 4.0 (TID 196, kc1-w-0.c.maclab-ukbb.internal, executor 2, partition 192, PROCESS_LOCAL, 8165 bytes) 2019-11-14 20:58:56 TaskSetManager: INFO: Finished task 186.0 in stage 4.0 (TID 190) in 239 ms on kc1-w-0.c.maclab-ukbb.internal (executor 2) (185/259) 2019-11-14 20:58:56 TaskSetManager: INFO: Starting task 193.0 in stage 4.0 (TID 197, kc1-w-0.c.maclab-ukbb.internal, executor 2, partition 193, PROCESS_LOCAL, 8165 bytes) 2019-11-14 20:58:56 TaskSetManager: INFO: Finished task 189.0 in stage 4.0 (TID 193) in 220 ms on kc1-w-0.c.maclab-ukbb.internal (executor 2) (186/259) 2019-11-14 20:58:56 TaskSetManager: INFO: Starting task 194.0 in stage 4.0 (TID 198, kc1-w-0.c.maclab-ukbb.internal, executor 2, partition 194, PROCESS_LOCAL, 8165 bytes) 2019-11-14 20:58:56 TaskSetManager: INFO: Finished task 190.0 in stage 4.0 (TID 194) in 208 ms on kc1-w-0.c.maclab-ukbb.internal (executor 2) (187/259) 2019-11-14 20:58:56 TaskSetManager: INFO: Starting task 195.0 in stage 4.0 (TID 199, kc1-w-0.c.maclab-ukbb.internal, executor 1, partition 195, PROCESS_LOCAL, 8165 bytes) 2019-11-14 20:58:56 TaskSetManager: INFO: Finished task 170.0 in stage 4.0 (TID 174) in 1236 ms on kc1-w-0.c.maclab-ukbb.internal (executor 1) (188/259) 2019-11-14 20:58:56 TaskSetManager: INFO: Starting task 196.0 in stage 4.0 (TID 200, kc1-w-0.c.maclab-ukbb.internal, executor 2, partition 196, PROCESS_LOCAL, 8165 bytes) 2019-11-14 20:58:56 TaskSetManager: INFO: Finished task 191.0 in stage 4.0 (TID 195) in 255 ms on kc1-w-0.c.maclab-ukbb.internal (executor 2) (189/259) 2019-11-14 20:58:56 TaskSetManager: INFO: Starting task 197.0 in stage 4.0 (TID 201, kc1-w-0.c.maclab-ukbb.internal, executor 2, partition 197, PROCESS_LOCAL, 8165 bytes) 2019-11-14 20:58:56 TaskSetManager: INFO: Finished task 192.0 in stage 4.0 (TID 196) in 263 ms on kc1-w-0.c.maclab-ukbb.internal (executor 2) (190/259) 2019-11-14 20:58:56 TaskSetManager: INFO: Starting task 198.0 in stage 4.0 (TID 202, kc1-w-0.c.maclab-ukbb.internal, executor 1, partition 198, PROCESS_LOCAL, 8165 bytes) 2019-11-14 20:58:56 TaskSetManager: INFO: Finished task 169.0 in stage 4.0 (TID 173) in 1385 ms on kc1-w-0.c.maclab-ukbb.internal (executor 1) (191/259) 2019-11-14 20:58:56 TaskSetManager: INFO: Starting task 199.0 in stage 4.0 (TID 203, kc1-w-0.c.maclab-ukbb.internal, executor 2, partition 199, PROCESS_LOCAL, 8165 bytes) 2019-11-14 20:58:56 TaskSetManager: INFO: Finished task 194.0 in stage 4.0 (TID 198) in 193 ms on kc1-w-0.c.maclab-ukbb.internal (executor 2) (192/259) 2019-11-14 20:58:56 TaskSetManager: INFO: Starting task 200.0 in stage 4.0 (TID 204, kc1-w-0.c.maclab-ukbb.internal, executor 1, partition 200, PROCESS_LOCAL, 8165 bytes) 2019-11-14 20:58:56 TaskSetManager: INFO: Finished task 187.0 in stage 4.0 (TID 191) in 588 ms on kc1-w-0.c.maclab-ukbb.internal (executor 1) (193/259) 2019-11-14 20:58:56 TaskSetManager: INFO: Starting task 201.0 in stage 4.0 (TID 205, kc1-w-0.c.maclab-ukbb.internal, executor 2, partition 201, PROCESS_LOCAL, 8165 bytes) 2019-11-14 20:58:56 TaskSetManager: INFO: Finished task 193.0 in stage 4.0 (TID 197) in 338 ms on kc1-w-0.c.maclab-ukbb.internal (executor 2) (194/259) 2019-11-14 20:58:56 TaskSetManager: INFO: Starting task 202.0 in stage 4.0 (TID 206, kc1-w-0.c.maclab-ukbb.internal, executor 1, partition 202, PROCESS_LOCAL, 8165 bytes) 2019-11-14 20:58:56 TaskSetManager: INFO: Finished task 195.0 in stage 4.0 (TID 199) in 244 ms on kc1-w-0.c.maclab-ukbb.internal (executor 1) (195/259) 2019-11-14 20:58:56 TaskSetManager: INFO: Starting task 203.0 in stage 4.0 (TID 207, kc1-w-0.c.maclab-ukbb.internal, executor 2, partition 203, PROCESS_LOCAL, 8165 bytes) 2019-11-14 20:58:56 TaskSetManager: INFO: Finished task 197.0 in stage 4.0 (TID 201) in 193 ms on kc1-w-0.c.maclab-ukbb.internal (executor 2) (196/259) 2019-11-14 20:58:56 TaskSetManager: INFO: Starting task 204.0 in stage 4.0 (TID 208, kc1-w-0.c.maclab-ukbb.internal, executor 2, partition 204, PROCESS_LOCAL, 8165 bytes) 2019-11-14 20:58:56 TaskSetManager: INFO: Finished task 196.0 in stage 4.0 (TID 200) in 237 ms on kc1-w-0.c.maclab-ukbb.internal (executor 2) (197/259) 2019-11-14 20:58:56 TaskSetManager: INFO: Starting task 205.0 in stage 4.0 (TID 209, kc1-w-0.c.maclab-ukbb.internal, executor 1, partition 205, PROCESS_LOCAL, 8165 bytes) 2019-11-14 20:58:56 TaskSetManager: INFO: Finished task 198.0 in stage 4.0 (TID 202) in 229 ms on kc1-w-0.c.maclab-ukbb.internal (executor 1) (198/259) 2019-11-14 20:58:56 TaskSetManager: INFO: Starting task 206.0 in stage 4.0 (TID 210, kc1-w-0.c.maclab-ukbb.internal, executor 2, partition 206, PROCESS_LOCAL, 8165 bytes) 2019-11-14 20:58:56 TaskSetManager: INFO: Finished task 199.0 in stage 4.0 (TID 203) in 248 ms on kc1-w-0.c.maclab-ukbb.internal (executor 2) (199/259) 2019-11-14 20:58:56 TaskSetManager: INFO: Starting task 207.0 in stage 4.0 (TID 211, kc1-w-0.c.maclab-ukbb.internal, executor 1, partition 207, PROCESS_LOCAL, 8165 bytes) 2019-11-14 20:58:56 TaskSetManager: INFO: Finished task 200.0 in stage 4.0 (TID 204) in 251 ms on kc1-w-0.c.maclab-ukbb.internal (executor 1) (200/259) 2019-11-14 20:58:56 TaskSetManager: INFO: Starting task 208.0 in stage 4.0 (TID 212, kc1-w-0.c.maclab-ukbb.internal, executor 2, partition 208, PROCESS_LOCAL, 8165 bytes) 2019-11-14 20:58:56 TaskSetManager: INFO: Finished task 203.0 in stage 4.0 (TID 207) in 190 ms on kc1-w-0.c.maclab-ukbb.internal (executor 2) (201/259) 2019-11-14 20:58:56 TaskSetManager: INFO: Starting task 209.0 in stage 4.0 (TID 213, kc1-w-0.c.maclab-ukbb.internal, executor 1, partition 209, PROCESS_LOCAL, 8165 bytes) 2019-11-14 20:58:56 TaskSetManager: INFO: Finished task 166.0 in stage 4.0 (TID 170) in 1874 ms on kc1-w-0.c.maclab-ukbb.internal (executor 1) (202/259) 2019-11-14 20:58:56 TaskSetManager: INFO: Starting task 210.0 in stage 4.0 (TID 214, kc1-w-0.c.maclab-ukbb.internal, executor 2, partition 210, PROCESS_LOCAL, 8165 bytes) 2019-11-14 20:58:56 TaskSetManager: INFO: Finished task 201.0 in stage 4.0 (TID 205) in 305 ms on kc1-w-0.c.maclab-ukbb.internal (executor 2) (203/259) 2019-11-14 20:58:57 TaskSetManager: INFO: Starting task 211.0 in stage 4.0 (TID 215, kc1-w-0.c.maclab-ukbb.internal, executor 2, partition 211, PROCESS_LOCAL, 8165 bytes) 2019-11-14 20:58:57 TaskSetManager: INFO: Finished task 204.0 in stage 4.0 (TID 208) in 197 ms on kc1-w-0.c.maclab-ukbb.internal (executor 2) (204/259) 2019-11-14 20:58:57 TaskSetManager: INFO: Starting task 212.0 in stage 4.0 (TID 216, kc1-w-0.c.maclab-ukbb.internal, executor 1, partition 212, PROCESS_LOCAL, 8165 bytes) 2019-11-14 20:58:57 TaskSetManager: INFO: Finished task 205.0 in stage 4.0 (TID 209) in 207 ms on kc1-w-0.c.maclab-ukbb.internal (executor 1) (205/259) 2019-11-14 20:58:57 TaskSetManager: INFO: Starting task 213.0 in stage 4.0 (TID 217, kc1-w-0.c.maclab-ukbb.internal, executor 2, partition 213, PROCESS_LOCAL, 8165 bytes) 2019-11-14 20:58:57 TaskSetManager: INFO: Finished task 206.0 in stage 4.0 (TID 210) in 196 ms on kc1-w-0.c.maclab-ukbb.internal (executor 2) (206/259) 2019-11-14 20:58:57 TaskSetManager: INFO: Starting task 214.0 in stage 4.0 (TID 218, kc1-w-0.c.maclab-ukbb.internal, executor 1, partition 214, PROCESS_LOCAL, 8165 bytes) 2019-11-14 20:58:57 TaskSetManager: INFO: Finished task 207.0 in stage 4.0 (TID 211) in 192 ms on kc1-w-0.c.maclab-ukbb.internal (executor 1) (207/259) 2019-11-14 20:58:57 TaskSetManager: INFO: Starting task 215.0 in stage 4.0 (TID 219, kc1-w-0.c.maclab-ukbb.internal, executor 2, partition 215, PROCESS_LOCAL, 8165 bytes) 2019-11-14 20:58:57 TaskSetManager: INFO: Finished task 211.0 in stage 4.0 (TID 215) in 193 ms on kc1-w-0.c.maclab-ukbb.internal (executor 2) (208/259) 2019-11-14 20:58:57 TaskSetManager: INFO: Starting task 216.0 in stage 4.0 (TID 220, kc1-w-0.c.maclab-ukbb.internal, executor 1, partition 216, PROCESS_LOCAL, 8165 bytes) 2019-11-14 20:58:57 TaskSetManager: INFO: Finished task 209.0 in stage 4.0 (TID 213) in 233 ms on kc1-w-0.c.maclab-ukbb.internal (executor 1) (209/259) 2019-11-14 20:58:57 TaskSetManager: INFO: Starting task 217.0 in stage 4.0 (TID 221, kc1-w-0.c.maclab-ukbb.internal, executor 1, partition 217, PROCESS_LOCAL, 8165 bytes) 2019-11-14 20:58:57 TaskSetManager: INFO: Finished task 212.0 in stage 4.0 (TID 216) in 203 ms on kc1-w-0.c.maclab-ukbb.internal (executor 1) (210/259) 2019-11-14 20:58:57 TaskSetManager: INFO: Starting task 218.0 in stage 4.0 (TID 222, kc1-w-0.c.maclab-ukbb.internal, executor 2, partition 218, PROCESS_LOCAL, 8165 bytes) 2019-11-14 20:58:57 TaskSetManager: INFO: Finished task 210.0 in stage 4.0 (TID 214) in 254 ms on kc1-w-0.c.maclab-ukbb.internal (executor 2) (211/259) 2019-11-14 20:58:57 TaskSetManager: INFO: Starting task 219.0 in stage 4.0 (TID 223, kc1-w-0.c.maclab-ukbb.internal, executor 1, partition 219, PROCESS_LOCAL, 8165 bytes) 2019-11-14 20:58:57 TaskSetManager: INFO: Finished task 214.0 in stage 4.0 (TID 218) in 190 ms on kc1-w-0.c.maclab-ukbb.internal (executor 1) (212/259) 2019-11-14 20:58:57 TaskSetManager: INFO: Starting task 220.0 in stage 4.0 (TID 224, kc1-w-0.c.maclab-ukbb.internal, executor 2, partition 220, PROCESS_LOCAL, 8165 bytes) 2019-11-14 20:58:57 TaskSetManager: INFO: Finished task 213.0 in stage 4.0 (TID 217) in 211 ms on kc1-w-0.c.maclab-ukbb.internal (executor 2) (213/259) 2019-11-14 20:58:57 TaskSetManager: INFO: Starting task 221.0 in stage 4.0 (TID 225, kc1-w-0.c.maclab-ukbb.internal, executor 2, partition 221, PROCESS_LOCAL, 8165 bytes) 2019-11-14 20:58:57 TaskSetManager: INFO: Finished task 208.0 in stage 4.0 (TID 212) in 415 ms on kc1-w-0.c.maclab-ukbb.internal (executor 2) (214/259) 2019-11-14 20:58:57 TaskSetManager: INFO: Starting task 222.0 in stage 4.0 (TID 226, kc1-w-0.c.maclab-ukbb.internal, executor 2, partition 222, PROCESS_LOCAL, 8165 bytes) 2019-11-14 20:58:57 TaskSetManager: INFO: Finished task 215.0 in stage 4.0 (TID 219) in 192 ms on kc1-w-0.c.maclab-ukbb.internal (executor 2) (215/259) 2019-11-14 20:58:57 TaskSetManager: INFO: Starting task 223.0 in stage 4.0 (TID 227, kc1-w-0.c.maclab-ukbb.internal, executor 1, partition 223, PROCESS_LOCAL, 8165 bytes) 2019-11-14 20:58:57 TaskSetManager: INFO: Finished task 216.0 in stage 4.0 (TID 220) in 192 ms on kc1-w-0.c.maclab-ukbb.internal (executor 1) (216/259) 2019-11-14 20:58:57 TaskSetManager: INFO: Starting task 224.0 in stage 4.0 (TID 228, kc1-w-0.c.maclab-ukbb.internal, executor 2, partition 224, PROCESS_LOCAL, 8165 bytes) 2019-11-14 20:58:57 TaskSetManager: INFO: Finished task 218.0 in stage 4.0 (TID 222) in 181 ms on kc1-w-0.c.maclab-ukbb.internal (executor 2) (217/259) 2019-11-14 20:58:57 TaskSetManager: INFO: Starting task 225.0 in stage 4.0 (TID 229, kc1-w-0.c.maclab-ukbb.internal, executor 2, partition 225, PROCESS_LOCAL, 8165 bytes) 2019-11-14 20:58:57 TaskSetManager: INFO: Finished task 220.0 in stage 4.0 (TID 224) in 173 ms on kc1-w-0.c.maclab-ukbb.internal (executor 2) (218/259) 2019-11-14 20:58:57 TaskSetManager: INFO: Starting task 226.0 in stage 4.0 (TID 230, kc1-w-0.c.maclab-ukbb.internal, executor 1, partition 226, PROCESS_LOCAL, 8165 bytes) 2019-11-14 20:58:57 TaskSetManager: INFO: Finished task 217.0 in stage 4.0 (TID 221) in 280 ms on kc1-w-0.c.maclab-ukbb.internal (executor 1) (219/259) 2019-11-14 20:58:57 TaskSetManager: INFO: Starting task 227.0 in stage 4.0 (TID 231, kc1-w-0.c.maclab-ukbb.internal, executor 1, partition 227, PROCESS_LOCAL, 8165 bytes) 2019-11-14 20:58:57 TaskSetManager: INFO: Finished task 202.0 in stage 4.0 (TID 206) in 824 ms on kc1-w-0.c.maclab-ukbb.internal (executor 1) (220/259) 2019-11-14 20:58:57 TaskSetManager: INFO: Starting task 228.0 in stage 4.0 (TID 232, kc1-w-0.c.maclab-ukbb.internal, executor 2, partition 228, PROCESS_LOCAL, 8165 bytes) 2019-11-14 20:58:57 TaskSetManager: INFO: Finished task 221.0 in stage 4.0 (TID 225) in 187 ms on kc1-w-0.c.maclab-ukbb.internal (executor 2) (221/259) 2019-11-14 20:58:57 TaskSetManager: INFO: Starting task 229.0 in stage 4.0 (TID 233, kc1-w-0.c.maclab-ukbb.internal, executor 2, partition 229, PROCESS_LOCAL, 8165 bytes) 2019-11-14 20:58:57 TaskSetManager: INFO: Finished task 222.0 in stage 4.0 (TID 226) in 183 ms on kc1-w-0.c.maclab-ukbb.internal (executor 2) (222/259) 2019-11-14 20:58:57 TaskSetManager: INFO: Starting task 230.0 in stage 4.0 (TID 234, kc1-w-0.c.maclab-ukbb.internal, executor 1, partition 230, PROCESS_LOCAL, 8165 bytes) 2019-11-14 20:58:57 TaskSetManager: INFO: Finished task 223.0 in stage 4.0 (TID 227) in 178 ms on kc1-w-0.c.maclab-ukbb.internal (executor 1) (223/259) 2019-11-14 20:58:57 TaskSetManager: INFO: Starting task 231.0 in stage 4.0 (TID 235, kc1-w-0.c.maclab-ukbb.internal, executor 1, partition 231, PROCESS_LOCAL, 8165 bytes) 2019-11-14 20:58:57 TaskSetManager: INFO: Finished task 227.0 in stage 4.0 (TID 231) in 176 ms on kc1-w-0.c.maclab-ukbb.internal (executor 1) (224/259) 2019-11-14 20:58:57 TaskSetManager: INFO: Starting task 232.0 in stage 4.0 (TID 236, kc1-w-0.c.maclab-ukbb.internal, executor 2, partition 232, PROCESS_LOCAL, 8165 bytes) 2019-11-14 20:58:57 TaskSetManager: INFO: Finished task 225.0 in stage 4.0 (TID 229) in 229 ms on kc1-w-0.c.maclab-ukbb.internal (executor 2) (225/259) 2019-11-14 20:58:57 TaskSetManager: INFO: Starting task 233.0 in stage 4.0 (TID 237, kc1-w-0.c.maclab-ukbb.internal, executor 2, partition 233, PROCESS_LOCAL, 8165 bytes) 2019-11-14 20:58:57 TaskSetManager: INFO: Finished task 224.0 in stage 4.0 (TID 228) in 330 ms on kc1-w-0.c.maclab-ukbb.internal (executor 2) (226/259) 2019-11-14 20:58:57 TaskSetManager: INFO: Starting task 234.0 in stage 4.0 (TID 238, kc1-w-0.c.maclab-ukbb.internal, executor 2, partition 234, PROCESS_LOCAL, 8165 bytes) 2019-11-14 20:58:57 TaskSetManager: INFO: Finished task 229.0 in stage 4.0 (TID 233) in 206 ms on kc1-w-0.c.maclab-ukbb.internal (executor 2) (227/259) 2019-11-14 20:58:57 TaskSetManager: INFO: Starting task 235.0 in stage 4.0 (TID 239, kc1-w-0.c.maclab-ukbb.internal, executor 1, partition 235, PROCESS_LOCAL, 8165 bytes) 2019-11-14 20:58:57 TaskSetManager: INFO: Finished task 230.0 in stage 4.0 (TID 234) in 192 ms on kc1-w-0.c.maclab-ukbb.internal (executor 1) (228/259) 2019-11-14 20:58:57 TaskSetManager: INFO: Starting task 236.0 in stage 4.0 (TID 240, kc1-w-0.c.maclab-ukbb.internal, executor 2, partition 236, PROCESS_LOCAL, 8165 bytes) 2019-11-14 20:58:57 TaskSetManager: INFO: Finished task 228.0 in stage 4.0 (TID 232) in 223 ms on kc1-w-0.c.maclab-ukbb.internal (executor 2) (229/259) 2019-11-14 20:58:57 TaskSetManager: INFO: Starting task 237.0 in stage 4.0 (TID 241, kc1-w-0.c.maclab-ukbb.internal, executor 1, partition 237, PROCESS_LOCAL, 8165 bytes) 2019-11-14 20:58:57 TaskSetManager: INFO: Finished task 226.0 in stage 4.0 (TID 230) in 342 ms on kc1-w-0.c.maclab-ukbb.internal (executor 1) (230/259) 2019-11-14 20:58:57 TaskSetManager: INFO: Starting task 238.0 in stage 4.0 (TID 242, kc1-w-0.c.maclab-ukbb.internal, executor 1, partition 238, PROCESS_LOCAL, 8165 bytes) 2019-11-14 20:58:57 TaskSetManager: INFO: Finished task 231.0 in stage 4.0 (TID 235) in 186 ms on kc1-w-0.c.maclab-ukbb.internal (executor 1) (231/259) 2019-11-14 20:58:57 TaskSetManager: INFO: Starting task 239.0 in stage 4.0 (TID 243, kc1-w-0.c.maclab-ukbb.internal, executor 1, partition 239, PROCESS_LOCAL, 8165 bytes) 2019-11-14 20:58:57 TaskSetManager: INFO: Finished task 219.0 in stage 4.0 (TID 223) in 617 ms on kc1-w-0.c.maclab-ukbb.internal (executor 1) (232/259) 2019-11-14 20:58:57 TaskSetManager: INFO: Starting task 240.0 in stage 4.0 (TID 244, kc1-w-0.c.maclab-ukbb.internal, executor 2, partition 240, PROCESS_LOCAL, 8165 bytes) 2019-11-14 20:58:57 TaskSetManager: INFO: Finished task 232.0 in stage 4.0 (TID 236) in 226 ms on kc1-w-0.c.maclab-ukbb.internal (executor 2) (233/259) 2019-11-14 20:58:57 TaskSetManager: INFO: Starting task 241.0 in stage 4.0 (TID 245, kc1-w-0.c.maclab-ukbb.internal, executor 2, partition 241, PROCESS_LOCAL, 8165 bytes) 2019-11-14 20:58:57 TaskSetManager: INFO: Finished task 234.0 in stage 4.0 (TID 238) in 201 ms on kc1-w-0.c.maclab-ukbb.internal (executor 2) (234/259) 2019-11-14 20:58:58 TaskSetManager: INFO: Starting task 242.0 in stage 4.0 (TID 246, kc1-w-0.c.maclab-ukbb.internal, executor 2, partition 242, PROCESS_LOCAL, 8165 bytes) 2019-11-14 20:58:58 TaskSetManager: INFO: Finished task 236.0 in stage 4.0 (TID 240) in 233 ms on kc1-w-0.c.maclab-ukbb.internal (executor 2) (235/259) 2019-11-14 20:58:58 TaskSetManager: INFO: Starting task 243.0 in stage 4.0 (TID 247, kc1-w-0.c.maclab-ukbb.internal, executor 1, partition 243, PROCESS_LOCAL, 8165 bytes) 2019-11-14 20:58:58 TaskSetManager: INFO: Finished task 237.0 in stage 4.0 (TID 241) in 196 ms on kc1-w-0.c.maclab-ukbb.internal (executor 1) (236/259) 2019-11-14 20:58:58 TaskSetManager: INFO: Starting task 244.0 in stage 4.0 (TID 248, kc1-w-0.c.maclab-ukbb.internal, executor 1, partition 244, PROCESS_LOCAL, 8165 bytes) 2019-11-14 20:58:58 TaskSetManager: INFO: Finished task 238.0 in stage 4.0 (TID 242) in 168 ms on kc1-w-0.c.maclab-ukbb.internal (executor 1) (237/259) 2019-11-14 20:58:58 TaskSetManager: INFO: Starting task 245.0 in stage 4.0 (TID 249, kc1-w-0.c.maclab-ukbb.internal, executor 1, partition 245, PROCESS_LOCAL, 8165 bytes) 2019-11-14 20:58:58 TaskSetManager: INFO: Finished task 235.0 in stage 4.0 (TID 239) in 347 ms on kc1-w-0.c.maclab-ukbb.internal (executor 1) (238/259) 2019-11-14 20:58:58 TaskSetManager: INFO: Starting task 246.0 in stage 4.0 (TID 250, kc1-w-0.c.maclab-ukbb.internal, executor 1, partition 246, PROCESS_LOCAL, 8165 bytes) 2019-11-14 20:58:58 TaskSetManager: INFO: Finished task 239.0 in stage 4.0 (TID 243) in 220 ms on kc1-w-0.c.maclab-ukbb.internal (executor 1) (239/259) 2019-11-14 20:58:58 TaskSetManager: INFO: Starting task 247.0 in stage 4.0 (TID 251, kc1-w-0.c.maclab-ukbb.internal, executor 2, partition 247, PROCESS_LOCAL, 8165 bytes) 2019-11-14 20:58:58 TaskSetManager: INFO: Finished task 241.0 in stage 4.0 (TID 245) in 203 ms on kc1-w-0.c.maclab-ukbb.internal (executor 2) (240/259) 2019-11-14 20:58:58 TaskSetManager: INFO: Starting task 248.0 in stage 4.0 (TID 252, kc1-w-0.c.maclab-ukbb.internal, executor 2, partition 248, PROCESS_LOCAL, 8165 bytes) 2019-11-14 20:58:58 TaskSetManager: INFO: Finished task 242.0 in stage 4.0 (TID 246) in 190 ms on kc1-w-0.c.maclab-ukbb.internal (executor 2) (241/259) 2019-11-14 20:58:58 TaskSetManager: INFO: Starting task 249.0 in stage 4.0 (TID 253, kc1-w-0.c.maclab-ukbb.internal, executor 2, partition 249, PROCESS_LOCAL, 8165 bytes) 2019-11-14 20:58:58 TaskSetManager: INFO: Finished task 233.0 in stage 4.0 (TID 237) in 507 ms on kc1-w-0.c.maclab-ukbb.internal (executor 2) (242/259) 2019-11-14 20:58:58 TaskSetManager: INFO: Starting task 250.0 in stage 4.0 (TID 254, kc1-w-0.c.maclab-ukbb.internal, executor 1, partition 250, PROCESS_LOCAL, 8165 bytes) 2019-11-14 20:58:58 TaskSetManager: INFO: Finished task 244.0 in stage 4.0 (TID 248) in 231 ms on kc1-w-0.c.maclab-ukbb.internal (executor 1) (243/259) 2019-11-14 20:58:58 TaskSetManager: INFO: Starting task 251.0 in stage 4.0 (TID 255, kc1-w-0.c.maclab-ukbb.internal, executor 1, partition 251, PROCESS_LOCAL, 8165 bytes) 2019-11-14 20:58:58 TaskSetManager: INFO: Finished task 243.0 in stage 4.0 (TID 247) in 259 ms on kc1-w-0.c.maclab-ukbb.internal (executor 1) (244/259) 2019-11-14 20:58:58 TaskSetManager: INFO: Starting task 252.0 in stage 4.0 (TID 256, kc1-w-0.c.maclab-ukbb.internal, executor 1, partition 252, PROCESS_LOCAL, 8165 bytes) 2019-11-14 20:58:58 TaskSetManager: INFO: Finished task 246.0 in stage 4.0 (TID 250) in 179 ms on kc1-w-0.c.maclab-ukbb.internal (executor 1) (245/259) 2019-11-14 20:58:58 TaskSetManager: INFO: Starting task 253.0 in stage 4.0 (TID 257, kc1-w-0.c.maclab-ukbb.internal, executor 1, partition 253, PROCESS_LOCAL, 8165 bytes) 2019-11-14 20:58:58 TaskSetManager: INFO: Finished task 245.0 in stage 4.0 (TID 249) in 217 ms on kc1-w-0.c.maclab-ukbb.internal (executor 1) (246/259) 2019-11-14 20:58:58 TaskSetManager: INFO: Starting task 254.0 in stage 4.0 (TID 258, kc1-w-0.c.maclab-ukbb.internal, executor 2, partition 254, PROCESS_LOCAL, 8165 bytes) 2019-11-14 20:58:58 TaskSetManager: INFO: Finished task 247.0 in stage 4.0 (TID 251) in 191 ms on kc1-w-0.c.maclab-ukbb.internal (executor 2) (247/259) 2019-11-14 20:58:58 TaskSetManager: INFO: Starting task 255.0 in stage 4.0 (TID 259, kc1-w-0.c.maclab-ukbb.internal, executor 2, partition 255, PROCESS_LOCAL, 8165 bytes) 2019-11-14 20:58:58 TaskSetManager: INFO: Finished task 249.0 in stage 4.0 (TID 253) in 207 ms on kc1-w-0.c.maclab-ukbb.internal (executor 2) (248/259) 2019-11-14 20:58:58 TaskSetManager: INFO: Starting task 256.0 in stage 4.0 (TID 260, kc1-w-0.c.maclab-ukbb.internal, executor 2, partition 256, PROCESS_LOCAL, 8165 bytes) 2019-11-14 20:58:58 TaskSetManager: INFO: Finished task 248.0 in stage 4.0 (TID 252) in 272 ms on kc1-w-0.c.maclab-ukbb.internal (executor 2) (249/259) 2019-11-14 20:58:58 TaskSetManager: INFO: Starting task 257.0 in stage 4.0 (TID 261, kc1-w-0.c.maclab-ukbb.internal, executor 1, partition 257, PROCESS_LOCAL, 8165 bytes) 2019-11-14 20:58:58 TaskSetManager: INFO: Finished task 250.0 in stage 4.0 (TID 254) in 210 ms on kc1-w-0.c.maclab-ukbb.internal (executor 1) (250/259) 2019-11-14 20:58:58 TaskSetManager: INFO: Starting task 258.0 in stage 4.0 (TID 262, kc1-w-0.c.maclab-ukbb.internal, executor 1, partition 258, PROCESS_LOCAL, 8165 bytes) 2019-11-14 20:58:58 TaskSetManager: INFO: Finished task 252.0 in stage 4.0 (TID 256) in 262 ms on kc1-w-0.c.maclab-ukbb.internal (executor 1) (251/259) 2019-11-14 20:58:58 TaskSetManager: INFO: Finished task 251.0 in stage 4.0 (TID 255) in 274 ms on kc1-w-0.c.maclab-ukbb.internal (executor 1) (252/259) 2019-11-14 20:58:58 TaskSetManager: INFO: Finished task 240.0 in stage 4.0 (TID 244) in 662 ms on kc1-w-0.c.maclab-ukbb.internal (executor 2) (253/259) 2019-11-14 20:58:58 TaskSetManager: INFO: Finished task 254.0 in stage 4.0 (TID 258) in 265 ms on kc1-w-0.c.maclab-ukbb.internal (executor 2) (254/259) 2019-11-14 20:58:58 TaskSetManager: INFO: Finished task 257.0 in stage 4.0 (TID 261) in 202 ms on kc1-w-0.c.maclab-ukbb.internal (executor 1) (255/259) 2019-11-14 20:58:58 TaskSetManager: INFO: Finished task 256.0 in stage 4.0 (TID 260) in 234 ms on kc1-w-0.c.maclab-ukbb.internal (executor 2) (256/259) 2019-11-14 20:58:58 TaskSetManager: INFO: Finished task 258.0 in stage 4.0 (TID 262) in 161 ms on kc1-w-0.c.maclab-ukbb.internal (executor 1) (257/259) 2019-11-14 20:58:58 TaskSetManager: INFO: Finished task 255.0 in stage 4.0 (TID 259) in 291 ms on kc1-w-0.c.maclab-ukbb.internal (executor 2) (258/259) 2019-11-14 20:58:59 TaskSetManager: INFO: Marking task 253 in stage 4.0 (on kc1-w-0.c.maclab-ukbb.internal) as speculatable because it ran more than 699 ms 2019-11-14 20:58:59 TaskSetManager: INFO: Finished task 253.0 in stage 4.0 (TID 257) in 1607 ms on kc1-w-0.c.maclab-ukbb.internal (executor 1) (259/259) 2019-11-14 20:58:59 YarnScheduler: INFO: Removed TaskSet 4.0, whose tasks have all completed, from pool default 2019-11-14 20:58:59 DAGScheduler: INFO: ResultStage 4 (runJob at RVD.scala:605) finished in 11.180 s 2019-11-14 20:58:59 DAGScheduler: INFO: Job 4 finished: runJob at RVD.scala:605, took 11.192178 s 2019-11-14 20:58:59 root: INFO: took 12.025s 2019-11-14 20:58:59 root: INFO: optimize (interpret non compilable, after): before: IR size 1: (Literal Dict[String,Int64] ) 2019-11-14 20:58:59 root: INFO: optimize (interpret non compilable, after): after: IR size 1: (Literal Dict[String,Int64] ) 2019-11-14 20:58:59 root: INFO: instruction count: 3: is/hail/codegen/generated/C_etypeEncode_42. 2019-11-14 20:58:59 root: INFO: instruction count: 7: is/hail/codegen/generated/C_etypeEncode_42.apply 2019-11-14 20:58:59 root: INFO: instruction count: 11: is/hail/codegen/generated/C_etypeEncode_42.m0_ENCODE_o_tuple_of_o_dict_of_o_stringANDo_int64END_TO_o_struct_of_o_array_of_r_struct_of_o_binaryANDo_int64ENDEND 2019-11-14 20:58:59 root: INFO: instruction count: 21: is/hail/codegen/generated/C_etypeEncode_42.m1_write_fields_group_0 2019-11-14 20:58:59 root: INFO: instruction count: 47: is/hail/codegen/generated/C_etypeEncode_42.m2_ENCODE_o_array_of_r_tuple_of_o_binaryANDo_int64END_TO_o_array_of_r_struct_of_o_binaryANDo_int64END 2019-11-14 20:58:59 root: INFO: instruction count: 11: is/hail/codegen/generated/C_etypeEncode_42.m3_ENCODE_r_tuple_of_o_binaryANDo_int64END_TO_r_struct_of_o_binaryANDo_int64END 2019-11-14 20:58:59 root: INFO: instruction count: 39: is/hail/codegen/generated/C_etypeEncode_42.m4_write_fields_group_0 2019-11-14 20:58:59 root: INFO: instruction count: 16: is/hail/codegen/generated/C_etypeEncode_42.m5_ENCODE_o_binary_TO_o_binary 2019-11-14 20:58:59 root: INFO: instruction count: 6: is/hail/codegen/generated/C_etypeEncode_42.m6_ENCODE_o_int64_TO_o_int64 2019-11-14 20:58:59 MemoryStore: INFO: Block broadcast_14 stored as values in memory (estimated size 88.0 B, free 21.7 GB) 2019-11-14 20:58:59 MemoryStore: INFO: Block broadcast_14_piece0 stored as bytes in memory (estimated size 76.0 B, free 21.7 GB) 2019-11-14 20:58:59 BlockManagerInfo: INFO: Added broadcast_14_piece0 in memory on kc1-m.c.maclab-ukbb.internal:33975 (size: 76.0 B, free: 21.7 GB) 2019-11-14 20:58:59 SparkContext: INFO: Created broadcast 14 from broadcast at SparkBackend.scala:21 2019-11-14 20:58:59 root: INFO: instruction count: 3: is/hail/codegen/generated/C41. 2019-11-14 20:58:59 root: INFO: instruction count: 54: is/hail/codegen/generated/C41.apply 2019-11-14 20:58:59 root: INFO: instruction count: 10: is/hail/codegen/generated/C41.apply 2019-11-14 20:58:59 root: INFO: instruction count: 14: is/hail/codegen/generated/C41.setPartitionIndex 2019-11-14 20:58:59 root: INFO: instruction count: 6: is/hail/codegen/generated/C41.addPartitionRegion 2019-11-14 20:58:59 root: INFO: instruction count: 27: is/hail/codegen/generated/C41.m3_DECODE_o_struct_of_o_array_of_r_struct_of_o_binaryANDo_int64ENDEND_TO_o_tuple_of_o_dict_of_o_stringANDo_int64END 2019-11-14 20:58:59 root: INFO: instruction count: 28: is/hail/codegen/generated/C41.m4_read_fields_group_0 2019-11-14 20:58:59 root: INFO: instruction count: 51: is/hail/codegen/generated/C41.m5_INPLACE_DECODE_o_array_of_r_struct_of_o_binaryANDo_int64END_TO_o_array_of_r_tuple_of_o_binaryANDo_int64END 2019-11-14 20:58:59 root: INFO: instruction count: 21: is/hail/codegen/generated/C41.m6_INPLACE_DECODE_r_struct_of_o_binaryANDo_int64END_TO_r_tuple_of_o_binaryANDo_int64END 2019-11-14 20:58:59 root: INFO: instruction count: 53: is/hail/codegen/generated/C41.m7_read_fields_group_0 2019-11-14 20:58:59 root: INFO: instruction count: 29: is/hail/codegen/generated/C41.m8_INPLACE_DECODE_o_binary_TO_o_binary 2019-11-14 20:58:59 root: INFO: instruction count: 8: is/hail/codegen/generated/C41.m9_INPLACE_DECODE_o_int64_TO_o_int64 2019-11-14 20:58:59 root: INFO: instruction count: 30: is/hail/codegen/generated/C41.addLiterals 2019-11-14 20:58:59 root: INFO: Time taken for CompileAndEvaluate.compile: 12.905ms 2019-11-14 20:58:59 root: INFO: Time taken for create compiled function: 1.255ms 2019-11-14 20:58:59 root: INFO: Time taken for run compiled function: 0.009ms 2019-11-14 20:58:59 root: INFO: Time taken for convert to safe value: 0.274ms 2019-11-14 20:59:00 SparkContext: INFO: Invoking stop() from shutdown hook 2019-11-14 20:59:00 AbstractConnector: INFO: Stopped Spark@2739b8e8{HTTP/1.1,[http/1.1]}{0.0.0.0:4041} 2019-11-14 20:59:00 SparkUI: INFO: Stopped Spark web UI at http://kc1-m.c.maclab-ukbb.internal:4041 2019-11-14 20:59:00 YarnClientSchedulerBackend: INFO: Interrupting monitor thread 2019-11-14 20:59:00 YarnClientSchedulerBackend: INFO: Shutting down all executors 2019-11-14 20:59:00 YarnSchedulerBackend$YarnDriverEndpoint: INFO: Asking each executor to shut down 2019-11-14 20:59:00 SchedulerExtensionServices: INFO: Stopping SchedulerExtensionServices (serviceOption=None, services=List(), started=false) 2019-11-14 20:59:00 YarnClientSchedulerBackend: INFO: Stopped 2019-11-14 20:59:00 MapOutputTrackerMasterEndpoint: INFO: MapOutputTrackerMasterEndpoint stopped! 2019-11-14 20:59:00 MemoryStore: INFO: MemoryStore cleared 2019-11-14 20:59:00 BlockManager: INFO: BlockManager stopped 2019-11-14 20:59:00 BlockManagerMaster: INFO: BlockManagerMaster stopped 2019-11-14 20:59:00 OutputCommitCoordinator$OutputCommitCoordinatorEndpoint: INFO: OutputCommitCoordinator stopped! 2019-11-14 20:59:00 SparkContext: INFO: Successfully stopped SparkContext 2019-11-14 20:59:00 ShutdownHookManager: INFO: Shutdown hook called 2019-11-14 20:59:00 ShutdownHookManager: INFO: Deleting directory /hadoop/spark/tmp/spark-3ecfcb5f-dcc7-4663-9f4e-06a9783f70e7 2019-11-14 20:59:00 ShutdownHookManager: INFO: Deleting directory /hadoop/spark/tmp/spark-3ecfcb5f-dcc7-4663-9f4e-06a9783f70e7/pyspark-d831e687-30fc-48ee-8367-b9f4b829e028 2019-11-14 20:59:00 ShutdownHookManager: INFO: Deleting directory /tmp/spark-f27af8de-c0e0-42ef-ad31-2327ff9b2cd1