gistfile1.txt

Dec-09 13:23:24.838 [main] DEBUG nextflow.cli.Launcher - $> /home/rajohvik/bin/nextflow run main.nf --runfile runfile-tiny --steps manta,vep --project b2015110
Dec-09 13:23:27.232 [main] INFO  nextflow.cli.CmdRun - N E X T F L O W  ~  version 0.22.6
Dec-09 13:23:27.354 [main] INFO  nextflow.cli.CmdRun - Launching `main.nf` [pedantic_boyd] - revision: 82b13cfe82
Dec-09 13:23:27.540 [main] DEBUG nextflow.config.ConfigBuilder - Found config local: nextflow.config
Dec-09 13:23:27.543 [main] DEBUG nextflow.config.ConfigBuilder - Parsing config file: /pica/h1/rajohvik/Work/wgs-structvar/nextflow.config
Dec-09 13:23:28.752 [main] DEBUG nextflow.config.ConfigBuilder - Setting config profile: 'standard'
Dec-09 13:23:29.151 [main] DEBUG nextflow.Session - Session uuid: ad156df5-3768-43d4-aa68-c15e4ff3b425
Dec-09 13:23:29.151 [main] DEBUG nextflow.Session - Run name: pedantic_boyd
Dec-09 13:23:29.233 [main] DEBUG nextflow.Session - Executor pool size: 16
Dec-09 13:23:29.434 [main] DEBUG nextflow.cli.CmdRun -
  Version: 0.22.6 build 4116
  Modified: 04-12-2016 21:50 UTC (22:50 CEST)
  System: Linux 2.6.32-642.11.1.el6.x86_64
  Runtime: Groovy 2.4.7 on Java HotSpot(TM) 64-Bit Server VM 1.8.0_92-b14
  Encoding: UTF-8 (UTF-8)
  Process: 37553@milou1.uppmax.uu.se [130.238.139.2]
  CPUs: 16 - Mem: 126 GB (2.7 GB) - Swap: 8 GB (7.9 GB)
Dec-09 13:23:29.739 [main] DEBUG nextflow.Session - Work-dir: /home/rajohvik/glob/work [lustre]
Dec-09 13:23:30.308 [main] DEBUG nextflow.Session - Session start invoked
Dec-09 13:23:30.311 [main] DEBUG nextflow.processor.TaskDispatcher - Dispatcher > start
Dec-09 13:23:30.312 [main] DEBUG nextflow.trace.TraceFileObserver - Flow starting -- trace file: /pica/h1/rajohvik/Work/wgs-structvar/trace.txt
Dec-09 13:23:30.378 [main] DEBUG nextflow.script.ScriptRunner - > Script parsing
Dec-09 13:23:32.646 [main] DEBUG nextflow.script.ScriptRunner - > Launching execution
Dec-09 13:23:33.839 [main] INFO  nextflow.Nextflow - ======================
Dec-09 13:23:33.840 [main] INFO  nextflow.Nextflow - WGS-structvar pipeline
Dec-09 13:23:33.840 [main] INFO  nextflow.Nextflow - ======================
Dec-09 13:23:33.840 [main] INFO  nextflow.Nextflow - Bamfile    :
Dec-09 13:23:33.840 [main] INFO  nextflow.Nextflow - Scriptdir  : /pica/h1/rajohvik/Work/wgs-structvar
Dec-09 13:23:33.840 [main] INFO  nextflow.Nextflow - Revision   : af54c5980a597618f0d451723086b5ce258636fa
Dec-09 13:23:33.841 [main] INFO  nextflow.Nextflow - Work dir   : /home/rajohvik/glob/work
Dec-09 13:23:33.841 [main] INFO  nextflow.Nextflow - Output dir : results
Dec-09 13:23:33.841 [main] INFO  nextflow.Nextflow - Project    : b2015110
Dec-09 13:23:33.841 [main] INFO  nextflow.Nextflow - Will run   : manta, vep
Dec-09 13:23:33.841 [main] INFO  nextflow.Nextflow -
Dec-09 13:23:34.933 [main] DEBUG nextflow.processor.ProcessFactory - << taskConfig executor: slurm
Dec-09 13:23:34.933 [main] DEBUG nextflow.processor.ProcessFactory - >> processorType: 'slurm'
Dec-09 13:23:35.036 [main] DEBUG nextflow.executor.Executor - Initializing executor: slurm
Dec-09 13:23:35.038 [main] INFO  nextflow.executor.Executor - [warm up] executor > slurm
Dec-09 13:23:35.139 [main] DEBUG n.processor.TaskPollingMonitor - Creating task monitor for executor 'slurm' > capacity: 30; pollInterval: 10s; dumpInterval: 10s
Dec-09 13:23:35.141 [main] DEBUG nextflow.processor.TaskDispatcher - Starting monitor: TaskPollingMonitor
Dec-09 13:23:35.142 [main] DEBUG n.processor.TaskPollingMonitor - >>> barrier register (monitor: slurm)
Dec-09 13:23:35.232 [main] DEBUG nextflow.executor.Executor - Invoke register for executor: slurm
Dec-09 13:23:35.233 [main] DEBUG n.executor.AbstractGridExecutor - Creating executor 'slurm' > queue-stat-interval: 1m
Dec-09 13:23:35.533 [main] DEBUG nextflow.Session - >>> barrier register (process: index_bamfile)
Dec-09 13:23:35.635 [main] DEBUG nextflow.processor.TaskProcessor - Creating operator > index_bamfile -- maxForks: 16
Dec-09 13:23:35.833 [Actor Thread 3] DEBUG nextflow.processor.TaskProcessor - <index_bamfile> Poison pill arrived
Dec-09 13:23:35.837 [Actor Thread 3] DEBUG nextflow.processor.TaskProcessor - <index_bamfile> After stop
Dec-09 13:23:35.837 [Actor Thread 1] DEBUG nextflow.processor.StateObj - <index_bamfile> State before poison: StateObj[submitted: 0; completed: 0; poisoned: false ]
Dec-09 13:23:35.838 [Actor Thread 1] DEBUG nextflow.processor.TaskProcessor - <index_bamfile> Sending poison pills and terminating process
Dec-09 13:23:35.938 [Actor Thread 1] DEBUG nextflow.Session - <<< barrier arrive (process: index_bamfile)
Dec-09 13:23:36.133 [main] DEBUG nextflow.processor.ProcessFactory - << taskConfig executor: slurm
Dec-09 13:23:36.133 [main] DEBUG nextflow.processor.ProcessFactory - >> processorType: 'slurm'
Dec-09 13:23:36.134 [main] DEBUG nextflow.executor.Executor - Initializing executor: slurm
Dec-09 13:23:36.135 [main] DEBUG n.executor.AbstractGridExecutor - Creating executor 'slurm' > queue-stat-interval: 1m
Dec-09 13:23:36.135 [main] DEBUG nextflow.Session - >>> barrier register (process: manta)
Dec-09 13:23:36.143 [main] DEBUG nextflow.processor.TaskProcessor - Creating operator > manta -- maxForks: 16
Dec-09 13:23:36.240 [main] DEBUG nextflow.processor.ProcessFactory - << taskConfig executor: slurm
Dec-09 13:23:36.240 [main] DEBUG nextflow.processor.ProcessFactory - >> processorType: 'slurm'
Dec-09 13:23:36.240 [main] DEBUG nextflow.executor.Executor - Initializing executor: slurm
Dec-09 13:23:36.241 [main] DEBUG n.executor.AbstractGridExecutor - Creating executor 'slurm' > queue-stat-interval: 1m
Dec-09 13:23:36.242 [main] DEBUG nextflow.Session - >>> barrier register (process: create_fastq)
Dec-09 13:23:36.334 [Actor Thread 3] DEBUG nextflow.processor.TaskProcessor - <manta> Poison pill arrived
Dec-09 13:23:36.335 [Actor Thread 1] DEBUG nextflow.processor.StateObj - <manta> State before poison: StateObj[submitted: 7; completed: 0; poisoned: false ]
Dec-09 13:23:36.435 [main] DEBUG nextflow.processor.TaskProcessor - Creating operator > create_fastq -- maxForks: 16
Dec-09 13:23:36.533 [Actor Thread 10] DEBUG nextflow.processor.TaskProcessor - <create_fastq> Poison pill arrived
Dec-09 13:23:36.536 [Actor Thread 1] DEBUG nextflow.processor.StateObj - <create_fastq> State before poison: StateObj[submitted: 0; completed: 0; poisoned: false ]
Dec-09 13:23:36.536 [Actor Thread 1] DEBUG nextflow.processor.TaskProcessor - <create_fastq> Sending poison pills and terminating process
Dec-09 13:23:36.536 [Actor Thread 1] DEBUG nextflow.Session - <<< barrier arrive (process: create_fastq)
Dec-09 13:23:36.634 [Actor Thread 10] DEBUG nextflow.processor.TaskProcessor - <create_fastq> After stop
Dec-09 13:23:36.839 [main] DEBUG nextflow.processor.ProcessFactory - << taskConfig executor: slurm
Dec-09 13:23:36.840 [main] DEBUG nextflow.processor.ProcessFactory - >> processorType: 'slurm'
Dec-09 13:23:36.840 [main] DEBUG nextflow.executor.Executor - Initializing executor: slurm
Dec-09 13:23:36.840 [main] DEBUG n.executor.AbstractGridExecutor - Creating executor 'slurm' > queue-stat-interval: 1m
Dec-09 13:23:36.841 [main] DEBUG nextflow.Session - >>> barrier register (process: fermikit)
Dec-09 13:23:37.033 [main] DEBUG nextflow.processor.TaskProcessor - Creating operator > fermikit -- maxForks: 16
Dec-09 13:23:37.232 [Actor Thread 10] DEBUG nextflow.processor.TaskProcessor - <fermikit> Poison pill arrived
Dec-09 13:23:37.232 [Actor Thread 1] DEBUG nextflow.processor.StateObj - <fermikit> State before poison: StateObj[submitted: 7; completed: 0; poisoned: false ]
Dec-09 13:23:37.331 [main] DEBUG nextflow.processor.ProcessFactory - << taskConfig executor: slurm
Dec-09 13:23:37.332 [main] DEBUG nextflow.processor.ProcessFactory - >> processorType: 'slurm'
Dec-09 13:23:37.332 [main] DEBUG nextflow.executor.Executor - Initializing executor: slurm
Dec-09 13:23:37.332 [main] DEBUG n.executor.AbstractGridExecutor - Creating executor 'slurm' > queue-stat-interval: 1m
Dec-09 13:23:37.336 [main] DEBUG nextflow.Session - >>> barrier register (process: mask_vcfs)
Dec-09 13:23:37.438 [main] DEBUG nextflow.processor.TaskProcessor - Creating *combiner* operator for each param(s) at index(es): [0]
Dec-09 13:23:37.538 [Actor Thread 10] DEBUG nextflow.processor.TaskProcessor - <fermikit> After stop
Dec-09 13:23:37.635 [Actor Thread 1] DEBUG nextflow.processor.TaskProcessor - <fermikit> Sending poison pills and terminating process
Dec-09 13:23:37.636 [Actor Thread 1] DEBUG nextflow.Session - <<< barrier arrive (process: fermikit)
Dec-09 13:23:37.940 [main] DEBUG nextflow.processor.TaskProcessor - Creating operator > mask_vcfs -- maxForks: 16
Dec-09 13:23:38.235 [Actor Thread 5] DEBUG nextflow.executor.GridTaskHandler - Launching process > manta (chr21-1) -- work folder: /home/rajohvik/glob/work/1c/bcaeaa326c871612dff36f12854322
Dec-09 13:23:38.236 [main] DEBUG nextflow.processor.ProcessFactory - << taskConfig executor: slurm
Dec-09 13:23:38.236 [main] DEBUG nextflow.processor.ProcessFactory - >> processorType: 'slurm'
Dec-09 13:23:38.236 [main] DEBUG nextflow.executor.Executor - Initializing executor: slurm
Dec-09 13:23:38.236 [main] DEBUG n.executor.AbstractGridExecutor - Creating executor 'slurm' > queue-stat-interval: 1m
Dec-09 13:23:38.237 [main] DEBUG nextflow.Session - >>> barrier register (process: intersect_files)
Dec-09 13:23:38.334 [main] DEBUG nextflow.processor.TaskProcessor - Creating operator > intersect_files -- maxForks: 16
Dec-09 13:23:38.434 [main] DEBUG nextflow.processor.ProcessFactory - << taskConfig executor: slurm
Dec-09 13:23:38.435 [main] DEBUG nextflow.processor.ProcessFactory - >> processorType: 'slurm'
Dec-09 13:23:38.435 [main] DEBUG nextflow.executor.Executor - Initializing executor: slurm
Dec-09 13:23:38.435 [main] DEBUG n.executor.AbstractGridExecutor - Creating executor 'slurm' > queue-stat-interval: 1m
Dec-09 13:23:38.436 [main] DEBUG nextflow.Session - >>> barrier register (process: normalize_vcf)
Dec-09 13:23:38.443 [main] DEBUG nextflow.processor.TaskProcessor - Creating operator > normalize_vcf -- maxForks: 16
Dec-09 13:23:38.633 [main] DEBUG nextflow.processor.ProcessFactory - << taskConfig executor: slurm
Dec-09 13:23:38.634 [main] DEBUG nextflow.processor.ProcessFactory - >> processorType: 'slurm'
Dec-09 13:23:38.634 [main] DEBUG nextflow.executor.Executor - Initializing executor: slurm
Dec-09 13:23:38.634 [main] DEBUG n.executor.AbstractGridExecutor - Creating executor 'slurm' > queue-stat-interval: 1m
Dec-09 13:23:38.635 [main] DEBUG nextflow.Session - >>> barrier register (process: variant_effect_predictor)
Dec-09 13:23:38.736 [main] DEBUG nextflow.processor.TaskProcessor - Creating operator > variant_effect_predictor -- maxForks: 16
Dec-09 13:23:38.835 [main] DEBUG nextflow.processor.ProcessFactory - << taskConfig executor: slurm
Dec-09 13:23:38.836 [main] DEBUG nextflow.processor.ProcessFactory - >> processorType: 'slurm'
Dec-09 13:23:38.836 [main] DEBUG nextflow.executor.Executor - Initializing executor: slurm
Dec-09 13:23:38.836 [main] DEBUG n.executor.AbstractGridExecutor - Creating executor 'slurm' > queue-stat-interval: 1m
Dec-09 13:23:38.837 [main] DEBUG nextflow.Session - >>> barrier register (process: snpEff)
Dec-09 13:23:38.935 [main] DEBUG nextflow.processor.TaskProcessor - Creating operator > snpEff -- maxForks: 16
Dec-09 13:23:38.936 [main] DEBUG nextflow.script.ScriptRunner - > Await termination
Dec-09 13:23:38.936 [main] DEBUG nextflow.Session - Session await
Dec-09 13:23:39.141 [Actor Thread 7] DEBUG nextflow.executor.GridTaskHandler - Launching process > manta (chr21-3) -- work folder: /home/rajohvik/glob/work/3c/e2cfe00d1eeeae5ca7647ba2196183
Dec-09 13:23:39.142 [Actor Thread 5] INFO  nextflow.Session - [1c/bcaeaa] Submitted process > manta (chr21-1)
Dec-09 13:23:39.443 [Actor Thread 7] INFO  nextflow.Session - [3c/e2cfe0] Submitted process > manta (chr21-3)
Dec-09 13:23:39.443 [Actor Thread 4] DEBUG nextflow.executor.GridTaskHandler - Launching process > manta (chr21-0) -- work folder: /home/rajohvik/glob/work/86/fd9142f984449cf56f9c56d0517142
Dec-09 13:23:39.651 [Actor Thread 4] INFO  nextflow.Session - [86/fd9142] Submitted process > manta (chr21-0)
Dec-09 13:23:39.651 [Actor Thread 9] DEBUG nextflow.executor.GridTaskHandler - Launching process > manta (chr21-5) -- work folder: /home/rajohvik/glob/work/d1/b1b3b80f2fae4bb6922d30f3e2b9db
Dec-09 13:23:39.950 [Actor Thread 9] INFO  nextflow.Session - [d1/b1b3b8] Submitted process > manta (chr21-5)
Dec-09 13:23:39.950 [Actor Thread 11] DEBUG nextflow.executor.GridTaskHandler - Launching process > manta (chr21-6) -- work folder: /home/rajohvik/glob/work/f0/e9f6f30392948b85976774f1535e4a
Dec-09 13:23:40.059 [Actor Thread 11] INFO  nextflow.Session - [f0/e9f6f3] Submitted process > manta (chr21-6)
Dec-09 13:23:40.059 [Actor Thread 6] DEBUG nextflow.executor.GridTaskHandler - Launching process > manta (chr21-2) -- work folder: /home/rajohvik/glob/work/33/e62d854cc52f8c07bd99014f0f7de5
Dec-09 13:23:40.250 [Actor Thread 6] INFO  nextflow.Session - [33/e62d85] Submitted process > manta (chr21-2)
Dec-09 13:23:40.251 [Actor Thread 8] DEBUG nextflow.executor.GridTaskHandler - Launching process > manta (chr21-4) -- work folder: /home/rajohvik/glob/work/56/e05d27a23103bd7012b5088f100249
Dec-09 13:23:40.351 [Actor Thread 8] INFO  nextflow.Session - [56/e05d27] Submitted process > manta (chr21-4)
Dec-09 13:23:40.352 [Actor Thread 3] DEBUG nextflow.processor.TaskProcessor - <manta> After stop
Dec-09 13:23:55.239 [Thread-1] DEBUG n.processor.TaskPollingMonitor - !! executor slurm > tasks to be completed: 7 -- first: TaskHandler[jobId: 9297362; id: 4; name: manta (chr21-1); status: SUBMITTED; exit: -; workDir: /home/rajohvik/glob/work/1c/bcaeaa326c871612dff36f12854322 started: -; exited: -; ]
Dec-09 13:24:05.241 [Thread-1] DEBUG n.processor.TaskPollingMonitor - !! executor slurm > tasks to be completed: 7 -- first: TaskHandler[jobId: 9297362; id: 4; name: manta (chr21-1); status: SUBMITTED; exit: -; workDir: /home/rajohvik/glob/work/1c/bcaeaa326c871612dff36f12854322 started: -; exited: -; ]
Dec-09 13:24:15.242 [Thread-1] DEBUG n.processor.TaskPollingMonitor - !! executor slurm > tasks to be completed: 7 -- first: TaskHandler[jobId: 9297362; id: 4; name: manta (chr21-1); status: SUBMITTED; exit: -; workDir: /home/rajohvik/glob/work/1c/bcaeaa326c871612dff36f12854322 started: -; exited: -; ]
Dec-09 13:24:25.245 [Thread-1] DEBUG n.processor.TaskPollingMonitor - !! executor slurm > tasks to be completed: 7 -- first: TaskHandler[jobId: 9297362; id: 4; name: manta (chr21-1); status: SUBMITTED; exit: -; workDir: /home/rajohvik/glob/work/1c/bcaeaa326c871612dff36f12854322 started: -; exited: -; ]
Dec-09 13:24:35.246 [Thread-1] DEBUG n.processor.TaskPollingMonitor - !! executor slurm > tasks to be completed: 7 -- first: TaskHandler[jobId: 9297362; id: 4; name: manta (chr21-1); status: SUBMITTED; exit: -; workDir: /home/rajohvik/glob/work/1c/bcaeaa326c871612dff36f12854322 started: -; exited: -; ]
Dec-09 13:24:45.247 [Thread-1] DEBUG n.processor.TaskPollingMonitor - !! executor slurm > tasks to be completed: 7 -- first: TaskHandler[jobId: 9297362; id: 4; name: manta (chr21-1); status: SUBMITTED; exit: -; workDir: /home/rajohvik/glob/work/1c/bcaeaa326c871612dff36f12854322 started: -; exited: -; ]
Dec-09 13:24:55.248 [Thread-1] DEBUG n.processor.TaskPollingMonitor - !! executor slurm > tasks to be completed: 7 -- first: TaskHandler[jobId: 9297362; id: 4; name: manta (chr21-1); status: SUBMITTED; exit: -; workDir: /home/rajohvik/glob/work/1c/bcaeaa326c871612dff36f12854322 started: -; exited: -; ]
Dec-09 13:25:05.251 [Thread-1] DEBUG n.processor.TaskPollingMonitor - !! executor slurm > tasks to be completed: 7 -- first: TaskHandler[jobId: 9297362; id: 4; name: manta (chr21-1); status: SUBMITTED; exit: -; workDir: /home/rajohvik/glob/work/1c/bcaeaa326c871612dff36f12854322 started: -; exited: -; ]
Dec-09 13:25:15.252 [Thread-1] DEBUG n.processor.TaskPollingMonitor - !! executor slurm > tasks to be completed: 7 -- first: TaskHandler[jobId: 9297362; id: 4; name: manta (chr21-1); status: SUBMITTED; exit: -; workDir: /home/rajohvik/glob/work/1c/bcaeaa326c871612dff36f12854322 started: -; exited: -; ]
Dec-09 13:25:25.254 [Thread-1] DEBUG n.processor.TaskPollingMonitor - !! executor slurm > tasks to be completed: 7 -- first: TaskHandler[jobId: 9297362; id: 4; name: manta (chr21-1); status: SUBMITTED; exit: -; workDir: /home/rajohvik/glob/work/1c/bcaeaa326c871612dff36f12854322 started: -; exited: -; ]
Dec-09 13:25:35.257 [Thread-1] DEBUG n.processor.TaskPollingMonitor - !! executor slurm > tasks to be completed: 7 -- first: TaskHandler[jobId: 9297362; id: 4; name: manta (chr21-1); status: SUBMITTED; exit: -; workDir: /home/rajohvik/glob/work/1c/bcaeaa326c871612dff36f12854322 started: -; exited: -; ]
Dec-09 13:25:45.258 [Thread-1] DEBUG n.processor.TaskPollingMonitor - !! executor slurm > tasks to be completed: 7 -- first: TaskHandler[jobId: 9297362; id: 4; name: manta (chr21-1); status: SUBMITTED; exit: -; workDir: /home/rajohvik/glob/work/1c/bcaeaa326c871612dff36f12854322 started: -; exited: -; ]
Dec-09 13:25:55.260 [Thread-1] DEBUG n.processor.TaskPollingMonitor - !! executor slurm > tasks to be completed: 7 -- first: TaskHandler[jobId: 9297362; id: 4; name: manta (chr21-1); status: SUBMITTED; exit: -; workDir: /home/rajohvik/glob/work/1c/bcaeaa326c871612dff36f12854322 started: -; exited: -; ]
Dec-09 13:26:05.262 [Thread-1] DEBUG n.processor.TaskPollingMonitor - !! executor slurm > tasks to be completed: 7 -- first: TaskHandler[jobId: 9297362; id: 4; name: manta (chr21-1); status: SUBMITTED; exit: -; workDir: /home/rajohvik/glob/work/1c/bcaeaa326c871612dff36f12854322 started: -; exited: -; ]
Dec-09 13:26:15.263 [Thread-1] DEBUG n.processor.TaskPollingMonitor - !! executor slurm > tasks to be completed: 7 -- first: TaskHandler[jobId: 9297362; id: 4; name: manta (chr21-1); status: SUBMITTED; exit: -; workDir: /home/rajohvik/glob/work/1c/bcaeaa326c871612dff36f12854322 started: -; exited: -; ]
Dec-09 13:26:25.266 [Thread-1] DEBUG n.processor.TaskPollingMonitor - !! executor slurm > tasks to be completed: 7 -- first: TaskHandler[jobId: 9297362; id: 4; name: manta (chr21-1); status: SUBMITTED; exit: -; workDir: /home/rajohvik/glob/work/1c/bcaeaa326c871612dff36f12854322 started: -; exited: -; ]
Dec-09 13:26:35.267 [Thread-1] DEBUG n.processor.TaskPollingMonitor - !! executor slurm > tasks to be completed: 7 -- first: TaskHandler[jobId: 9297362; id: 4; name: manta (chr21-1); status: SUBMITTED; exit: -; workDir: /home/rajohvik/glob/work/1c/bcaeaa326c871612dff36f12854322 started: -; exited: -; ]
Dec-09 13:26:45.269 [Thread-1] DEBUG n.processor.TaskPollingMonitor - !! executor slurm > tasks to be completed: 7 -- first: TaskHandler[jobId: 9297362; id: 4; name: manta (chr21-1); status: SUBMITTED; exit: -; workDir: /home/rajohvik/glob/work/1c/bcaeaa326c871612dff36f12854322 started: -; exited: -; ]
Dec-09 13:26:55.272 [Thread-1] DEBUG n.processor.TaskPollingMonitor - !! executor slurm > tasks to be completed: 7 -- first: TaskHandler[jobId: 9297362; id: 4; name: manta (chr21-1); status: SUBMITTED; exit: -; workDir: /home/rajohvik/glob/work/1c/bcaeaa326c871612dff36f12854322 started: -; exited: -; ]
Dec-09 13:27:05.273 [Thread-1] DEBUG n.processor.TaskPollingMonitor - !! executor slurm > tasks to be completed: 7 -- first: TaskHandler[jobId: 9297362; id: 4; name: manta (chr21-1); status: SUBMITTED; exit: -; workDir: /home/rajohvik/glob/work/1c/bcaeaa326c871612dff36f12854322 started: -; exited: -; ]
Dec-09 13:27:15.274 [Thread-1] DEBUG n.processor.TaskPollingMonitor - !! executor slurm > tasks to be completed: 7 -- first: TaskHandler[jobId: 9297362; id: 4; name: manta (chr21-1); status: SUBMITTED; exit: -; workDir: /home/rajohvik/glob/work/1c/bcaeaa326c871612dff36f12854322 started: -; exited: -; ]
Dec-09 13:27:25.275 [Thread-1] DEBUG n.processor.TaskPollingMonitor - !! executor slurm > tasks to be completed: 7 -- first: TaskHandler[jobId: 9297362; id: 4; name: manta (chr21-1); status: SUBMITTED; exit: -; workDir: /home/rajohvik/glob/work/1c/bcaeaa326c871612dff36f12854322 started: -; exited: -; ]
Dec-09 13:27:35.276 [Thread-1] DEBUG n.processor.TaskPollingMonitor - !! executor slurm > tasks to be completed: 7 -- first: TaskHandler[jobId: 9297362; id: 4; name: manta (chr21-1); status: SUBMITTED; exit: -; workDir: /home/rajohvik/glob/work/1c/bcaeaa326c871612dff36f12854322 started: -; exited: -; ]
Dec-09 13:27:45.277 [Thread-1] DEBUG n.processor.TaskPollingMonitor - !! executor slurm > tasks to be completed: 7 -- first: TaskHandler[jobId: 9297362; id: 4; name: manta (chr21-1); status: SUBMITTED; exit: -; workDir: /home/rajohvik/glob/work/1c/bcaeaa326c871612dff36f12854322 started: -; exited: -; ]
Dec-09 13:27:55.280 [Thread-1] DEBUG n.processor.TaskPollingMonitor - !! executor slurm > tasks to be completed: 7 -- first: TaskHandler[jobId: 9297362; id: 4; name: manta (chr21-1); status: SUBMITTED; exit: -; workDir: /home/rajohvik/glob/work/1c/bcaeaa326c871612dff36f12854322 started: -; exited: -; ]
Dec-09 13:28:05.281 [Thread-1] DEBUG n.processor.TaskPollingMonitor - !! executor slurm > tasks to be completed: 7 -- first: TaskHandler[jobId: 9297362; id: 4; name: manta (chr21-1); status: SUBMITTED; exit: -; workDir: /home/rajohvik/glob/work/1c/bcaeaa326c871612dff36f12854322 started: -; exited: -; ]
Dec-09 13:28:15.282 [Thread-1] DEBUG n.processor.TaskPollingMonitor - !! executor slurm > tasks to be completed: 7 -- first: TaskHandler[jobId: 9297362; id: 4; name: manta (chr21-1); status: SUBMITTED; exit: -; workDir: /home/rajohvik/glob/work/1c/bcaeaa326c871612dff36f12854322 started: -; exited: -; ]
Dec-09 13:28:25.284 [Thread-1] DEBUG n.processor.TaskPollingMonitor - !! executor slurm > tasks to be completed: 7 -- first: TaskHandler[jobId: 9297362; id: 4; name: manta (chr21-1); status: SUBMITTED; exit: -; workDir: /home/rajohvik/glob/work/1c/bcaeaa326c871612dff36f12854322 started: -; exited: -; ]
Dec-09 13:28:35.286 [Thread-1] DEBUG n.processor.TaskPollingMonitor - !! executor slurm > tasks to be completed: 7 -- first: TaskHandler[jobId: 9297362; id: 4; name: manta (chr21-1); status: SUBMITTED; exit: -; workDir: /home/rajohvik/glob/work/1c/bcaeaa326c871612dff36f12854322 started: -; exited: -; ]
Dec-09 13:28:45.287 [Thread-1] DEBUG n.processor.TaskPollingMonitor - !! executor slurm > tasks to be completed: 7 -- first: TaskHandler[jobId: 9297362; id: 4; name: manta (chr21-1); status: SUBMITTED; exit: -; workDir: /home/rajohvik/glob/work/1c/bcaeaa326c871612dff36f12854322 started: -; exited: -; ]
Dec-09 13:28:55.288 [Thread-1] DEBUG n.processor.TaskPollingMonitor - !! executor slurm > tasks to be completed: 7 -- first: TaskHandler[jobId: 9297362; id: 4; name: manta (chr21-1); status: SUBMITTED; exit: -; workDir: /home/rajohvik/glob/work/1c/bcaeaa326c871612dff36f12854322 started: -; exited: -; ]
Dec-09 13:29:05.289 [Thread-1] DEBUG n.processor.TaskPollingMonitor - !! executor slurm > tasks to be completed: 7 -- first: TaskHandler[jobId: 9297362; id: 4; name: manta (chr21-1); status: SUBMITTED; exit: -; workDir: /home/rajohvik/glob/work/1c/bcaeaa326c871612dff36f12854322 started: -; exited: -; ]
Dec-09 13:29:15.291 [Thread-1] DEBUG n.processor.TaskPollingMonitor - !! executor slurm > tasks to be completed: 7 -- first: TaskHandler[jobId: 9297362; id: 4; name: manta (chr21-1); status: SUBMITTED; exit: -; workDir: /home/rajohvik/glob/work/1c/bcaeaa326c871612dff36f12854322 started: -; exited: -; ]
Dec-09 13:29:25.292 [Thread-1] DEBUG n.processor.TaskPollingMonitor - !! executor slurm > tasks to be completed: 7 -- first: TaskHandler[jobId: 9297362; id: 4; name: manta (chr21-1); status: SUBMITTED; exit: -; workDir: /home/rajohvik/glob/work/1c/bcaeaa326c871612dff36f12854322 started: -; exited: -; ]
Dec-09 13:29:35.293 [Thread-1] DEBUG n.processor.TaskPollingMonitor - !! executor slurm > tasks to be completed: 7 -- first: TaskHandler[jobId: 9297362; id: 4; name: manta (chr21-1); status: SUBMITTED; exit: -; workDir: /home/rajohvik/glob/work/1c/bcaeaa326c871612dff36f12854322 started: -; exited: -; ]
Dec-09 13:29:45.294 [Thread-1] DEBUG n.processor.TaskPollingMonitor - !! executor slurm > tasks to be completed: 7 -- first: TaskHandler[jobId: 9297362; id: 4; name: manta (chr21-1); status: SUBMITTED; exit: -; workDir: /home/rajohvik/glob/work/1c/bcaeaa326c871612dff36f12854322 started: -; exited: -; ]
Dec-09 13:29:55.296 [Thread-1] DEBUG n.processor.TaskPollingMonitor - !! executor slurm > tasks to be completed: 7 -- first: TaskHandler[jobId: 9297362; id: 4; name: manta (chr21-1); status: SUBMITTED; exit: -; workDir: /home/rajohvik/glob/work/1c/bcaeaa326c871612dff36f12854322 started: -; exited: -; ]
Dec-09 13:30:05.297 [Thread-1] DEBUG n.processor.TaskPollingMonitor - !! executor slurm > tasks to be completed: 7 -- first: TaskHandler[jobId: 9297362; id: 4; name: manta (chr21-1); status: SUBMITTED; exit: -; workDir: /home/rajohvik/glob/work/1c/bcaeaa326c871612dff36f12854322 started: -; exited: -; ]
Dec-09 13:30:15.298 [Thread-1] DEBUG n.processor.TaskPollingMonitor - !! executor slurm > tasks to be completed: 7 -- first: TaskHandler[jobId: 9297362; id: 4; name: manta (chr21-1); status: SUBMITTED; exit: -; workDir: /home/rajohvik/glob/work/1c/bcaeaa326c871612dff36f12854322 started: -; exited: -; ]
Dec-09 13:30:25.306 [Thread-1] DEBUG n.processor.TaskPollingMonitor - !! executor slurm > tasks to be completed: 7 -- first: TaskHandler[jobId: 9297362; id: 4; name: manta (chr21-1); status: SUBMITTED; exit: -; workDir: /home/rajohvik/glob/work/1c/bcaeaa326c871612dff36f12854322 started: -; exited: -; ]
Dec-09 13:30:35.308 [Thread-1] DEBUG n.processor.TaskPollingMonitor - !! executor slurm > tasks to be completed: 7 -- first: TaskHandler[jobId: 9297362; id: 4; name: manta (chr21-1); status: SUBMITTED; exit: -; workDir: /home/rajohvik/glob/work/1c/bcaeaa326c871612dff36f12854322 started: -; exited: -; ]
Dec-09 13:30:45.309 [Thread-1] DEBUG n.processor.TaskPollingMonitor - !! executor slurm > tasks to be completed: 7 -- first: TaskHandler[jobId: 9297362; id: 4; name: manta (chr21-1); status: SUBMITTED; exit: -; workDir: /home/rajohvik/glob/work/1c/bcaeaa326c871612dff36f12854322 started: -; exited: -; ]
Dec-09 13:30:55.328 [Thread-1] DEBUG n.processor.TaskPollingMonitor - !! executor slurm > tasks to be completed: 7 -- first: TaskHandler[jobId: 9297362; id: 4; name: manta (chr21-1); status: SUBMITTED; exit: -; workDir: /home/rajohvik/glob/work/1c/bcaeaa326c871612dff36f12854322 started: -; exited: -; ]
Dec-09 13:30:55.450 [Actor Thread 18] DEBUG nextflow.executor.GridTaskHandler - Launching process > mask_vcfs (chr21-5 manta.vcf) -- work folder: /home/rajohvik/glob/work/fb/f39e6628051ee85347fbce7b501d21
Dec-09 13:30:55.634 [Actor Thread 18] INFO  nextflow.Session - [fb/f39e66] Submitted process > mask_vcfs (chr21-5 manta.vcf)
Dec-09 13:31:05.335 [Thread-1] DEBUG n.processor.TaskPollingMonitor - !! executor slurm > tasks to be completed: 7 -- first: TaskHandler[jobId: 9297362; id: 4; name: manta (chr21-1); status: SUBMITTED; exit: -; workDir: /home/rajohvik/glob/work/1c/bcaeaa326c871612dff36f12854322 started: -; exited: -; ]
Dec-09 13:31:15.367 [Thread-1] DEBUG n.processor.TaskPollingMonitor - !! executor slurm > tasks to be completed: 7 -- first: TaskHandler[jobId: 9297362; id: 4; name: manta (chr21-1); status: SUBMITTED; exit: -; workDir: /home/rajohvik/glob/work/1c/bcaeaa326c871612dff36f12854322 started: -; exited: -; ]
Dec-09 13:31:25.387 [Thread-1] DEBUG n.processor.TaskPollingMonitor - !! executor slurm > tasks to be completed: 7 -- first: TaskHandler[jobId: 9297362; id: 4; name: manta (chr21-1); status: SUBMITTED; exit: -; workDir: /home/rajohvik/glob/work/1c/bcaeaa326c871612dff36f12854322 started: -; exited: -; ]
Dec-09 13:31:35.389 [Thread-1] DEBUG n.processor.TaskPollingMonitor - !! executor slurm > tasks to be completed: 7 -- first: TaskHandler[jobId: 9297362; id: 4; name: manta (chr21-1); status: SUBMITTED; exit: -; workDir: /home/rajohvik/glob/work/1c/bcaeaa326c871612dff36f12854322 started: -; exited: -; ]
Dec-09 13:31:45.395 [Thread-1] DEBUG n.processor.TaskPollingMonitor - !! executor slurm > tasks to be completed: 7 -- first: TaskHandler[jobId: 9297362; id: 4; name: manta (chr21-1); status: SUBMITTED; exit: -; workDir: /home/rajohvik/glob/work/1c/bcaeaa326c871612dff36f12854322 started: -; exited: -; ]
Dec-09 13:31:55.396 [Thread-1] DEBUG n.processor.TaskPollingMonitor - !! executor slurm > tasks to be completed: 7 -- first: TaskHandler[jobId: 9297362; id: 4; name: manta (chr21-1); status: SUBMITTED; exit: -; workDir: /home/rajohvik/glob/work/1c/bcaeaa326c871612dff36f12854322 started: -; exited: -; ]
Dec-09 13:32:05.398 [Thread-1] DEBUG n.processor.TaskPollingMonitor - !! executor slurm > tasks to be completed: 7 -- first: TaskHandler[jobId: 9297362; id: 4; name: manta (chr21-1); status: SUBMITTED; exit: -; workDir: /home/rajohvik/glob/work/1c/bcaeaa326c871612dff36f12854322 started: -; exited: -; ]
Dec-09 13:32:15.399 [Thread-1] DEBUG n.processor.TaskPollingMonitor - !! executor slurm > tasks to be completed: 7 -- first: TaskHandler[jobId: 9297362; id: 4; name: manta (chr21-1); status: SUBMITTED; exit: -; workDir: /home/rajohvik/glob/work/1c/bcaeaa326c871612dff36f12854322 started: -; exited: -; ]
Dec-09 13:32:25.416 [Thread-1] DEBUG n.processor.TaskPollingMonitor - !! executor slurm > tasks to be completed: 7 -- first: TaskHandler[jobId: 9297362; id: 4; name: manta (chr21-1); status: SUBMITTED; exit: -; workDir: /home/rajohvik/glob/work/1c/bcaeaa326c871612dff36f12854322 started: -; exited: -; ]
Dec-09 13:32:35.424 [Thread-1] DEBUG n.processor.TaskPollingMonitor - !! executor slurm > tasks to be completed: 7 -- first: TaskHandler[jobId: 9297362; id: 4; name: manta (chr21-1); status: SUBMITTED; exit: -; workDir: /home/rajohvik/glob/work/1c/bcaeaa326c871612dff36f12854322 started: -; exited: -; ]
Dec-09 13:32:45.426 [Thread-1] DEBUG n.processor.TaskPollingMonitor - !! executor slurm > tasks to be completed: 7 -- first: TaskHandler[jobId: 9297362; id: 4; name: manta (chr21-1); status: SUBMITTED; exit: -; workDir: /home/rajohvik/glob/work/1c/bcaeaa326c871612dff36f12854322 started: -; exited: -; ]
Dec-09 13:32:55.431 [Thread-1] DEBUG n.processor.TaskPollingMonitor - !! executor slurm > tasks to be completed: 7 -- first: TaskHandler[jobId: 9297362; id: 4; name: manta (chr21-1); status: SUBMITTED; exit: -; workDir: /home/rajohvik/glob/work/1c/bcaeaa326c871612dff36f12854322 started: -; exited: -; ]
Dec-09 13:33:05.474 [Thread-1] DEBUG n.processor.TaskPollingMonitor - !! executor slurm > tasks to be completed: 7 -- first: TaskHandler[jobId: 9297362; id: 4; name: manta (chr21-1); status: SUBMITTED; exit: -; workDir: /home/rajohvik/glob/work/1c/bcaeaa326c871612dff36f12854322 started: -; exited: -; ]
Dec-09 13:33:15.488 [Thread-1] DEBUG n.processor.TaskPollingMonitor - !! executor slurm > tasks to be completed: 7 -- first: TaskHandler[jobId: 9297362; id: 4; name: manta (chr21-1); status: SUBMITTED; exit: -; workDir: /home/rajohvik/glob/work/1c/bcaeaa326c871612dff36f12854322 started: -; exited: -; ]
Dec-09 13:33:25.517 [Thread-1] DEBUG n.processor.TaskPollingMonitor - !! executor slurm > tasks to be completed: 7 -- first: TaskHandler[jobId: 9297362; id: 4; name: manta (chr21-1); status: SUBMITTED; exit: -; workDir: /home/rajohvik/glob/work/1c/bcaeaa326c871612dff36f12854322 started: -; exited: -; ]
Dec-09 13:33:25.672 [Actor Thread 22] DEBUG nextflow.executor.GridTaskHandler - Launching process > variant_effect_predictor (chr21-5 - manta_masked.vcf) -- work folder: /home/rajohvik/glob/work/48/027e988916ffcedc276712ccc49fc3
Dec-09 13:33:25.722 [Actor Thread 22] INFO  nextflow.Session - [48/027e98] Submitted process > variant_effect_predictor (chr21-5 - manta_masked.vcf)
Dec-09 13:33:35.526 [Thread-1] DEBUG n.processor.TaskPollingMonitor - !! executor slurm > tasks to be completed: 7 -- first: TaskHandler[jobId: 9297362; id: 4; name: manta (chr21-1); status: SUBMITTED; exit: -; workDir: /home/rajohvik/glob/work/1c/bcaeaa326c871612dff36f12854322 started: -; exited: -; ]
Dec-09 13:33:45.554 [Thread-1] DEBUG n.processor.TaskPollingMonitor - !! executor slurm > tasks to be completed: 7 -- first: TaskHandler[jobId: 9297362; id: 4; name: manta (chr21-1); status: SUBMITTED; exit: -; workDir: /home/rajohvik/glob/work/1c/bcaeaa326c871612dff36f12854322 started: -; exited: -; ]
Dec-09 13:33:55.573 [Thread-1] DEBUG n.processor.TaskPollingMonitor - !! executor slurm > tasks to be completed: 7 -- first: TaskHandler[jobId: 9297362; id: 4; name: manta (chr21-1); status: SUBMITTED; exit: -; workDir: /home/rajohvik/glob/work/1c/bcaeaa326c871612dff36f12854322 started: -; exited: -; ]
Dec-09 13:34:05.591 [Thread-1] DEBUG n.processor.TaskPollingMonitor - !! executor slurm > tasks to be completed: 7 -- first: TaskHandler[jobId: 9297362; id: 4; name: manta (chr21-1); status: SUBMITTED; exit: -; workDir: /home/rajohvik/glob/work/1c/bcaeaa326c871612dff36f12854322 started: -; exited: -; ]
Dec-09 13:34:15.593 [Thread-1] DEBUG n.processor.TaskPollingMonitor - !! executor slurm > tasks to be completed: 7 -- first: TaskHandler[jobId: 9297362; id: 4; name: manta (chr21-1); status: SUBMITTED; exit: -; workDir: /home/rajohvik/glob/work/1c/bcaeaa326c871612dff36f12854322 started: -; exited: -; ]
Dec-09 13:34:25.595 [Thread-1] DEBUG n.processor.TaskPollingMonitor - !! executor slurm > tasks to be completed: 7 -- first: TaskHandler[jobId: 9297362; id: 4; name: manta (chr21-1); status: SUBMITTED; exit: -; workDir: /home/rajohvik/glob/work/1c/bcaeaa326c871612dff36f12854322 started: -; exited: -; ]
Dec-09 13:34:35.597 [Thread-1] DEBUG n.processor.TaskPollingMonitor - !! executor slurm > tasks to be completed: 7 -- first: TaskHandler[jobId: 9297362; id: 4; name: manta (chr21-1); status: SUBMITTED; exit: -; workDir: /home/rajohvik/glob/work/1c/bcaeaa326c871612dff36f12854322 started: -; exited: -; ]
Dec-09 13:34:45.599 [Thread-1] DEBUG n.processor.TaskPollingMonitor - !! executor slurm > tasks to be completed: 7 -- first: TaskHandler[jobId: 9297362; id: 4; name: manta (chr21-1); status: SUBMITTED; exit: -; workDir: /home/rajohvik/glob/work/1c/bcaeaa326c871612dff36f12854322 started: -; exited: -; ]
Dec-09 13:34:55.600 [Thread-1] DEBUG n.processor.TaskPollingMonitor - !! executor slurm > tasks to be completed: 7 -- first: TaskHandler[jobId: 9297362; id: 4; name: manta (chr21-1); status: SUBMITTED; exit: -; workDir: /home/rajohvik/glob/work/1c/bcaeaa326c871612dff36f12854322 started: -; exited: -; ]
Dec-09 13:35:05.605 [Thread-1] DEBUG n.processor.TaskPollingMonitor - !! executor slurm > tasks to be completed: 7 -- first: TaskHandler[jobId: 9297362; id: 4; name: manta (chr21-1); status: SUBMITTED; exit: -; workDir: /home/rajohvik/glob/work/1c/bcaeaa326c871612dff36f12854322 started: -; exited: -; ]
Dec-09 13:35:15.607 [Thread-1] DEBUG n.processor.TaskPollingMonitor - !! executor slurm > tasks to be completed: 7 -- first: TaskHandler[jobId: 9297362; id: 4; name: manta (chr21-1); status: SUBMITTED; exit: -; workDir: /home/rajohvik/glob/work/1c/bcaeaa326c871612dff36f12854322 started: -; exited: -; ]
Dec-09 13:35:25.609 [Thread-1] DEBUG n.processor.TaskPollingMonitor - !! executor slurm > tasks to be completed: 7 -- first: TaskHandler[jobId: 9297362; id: 4; name: manta (chr21-1); status: SUBMITTED; exit: -; workDir: /home/rajohvik/glob/work/1c/bcaeaa326c871612dff36f12854322 started: -; exited: -; ]
Dec-09 13:35:35.611 [Thread-1] DEBUG n.processor.TaskPollingMonitor - !! executor slurm > tasks to be completed: 7 -- first: TaskHandler[jobId: 9297362; id: 4; name: manta (chr21-1); status: SUBMITTED; exit: -; workDir: /home/rajohvik/glob/work/1c/bcaeaa326c871612dff36f12854322 started: -; exited: -; ]
Dec-09 13:35:45.613 [Thread-1] DEBUG n.processor.TaskPollingMonitor - !! executor slurm > tasks to be completed: 7 -- first: TaskHandler[jobId: 9297362; id: 4; name: manta (chr21-1); status: SUBMITTED; exit: -; workDir: /home/rajohvik/glob/work/1c/bcaeaa326c871612dff36f12854322 started: -; exited: -; ]
Dec-09 13:35:55.614 [Thread-1] DEBUG n.processor.TaskPollingMonitor - !! executor slurm > tasks to be completed: 7 -- first: TaskHandler[jobId: 9297362; id: 4; name: manta (chr21-1); status: SUBMITTED; exit: -; workDir: /home/rajohvik/glob/work/1c/bcaeaa326c871612dff36f12854322 started: -; exited: -; ]
Dec-09 13:36:05.615 [Thread-1] DEBUG n.processor.TaskPollingMonitor - !! executor slurm > tasks to be completed: 7 -- first: TaskHandler[jobId: 9297362; id: 4; name: manta (chr21-1); status: SUBMITTED; exit: -; workDir: /home/rajohvik/glob/work/1c/bcaeaa326c871612dff36f12854322 started: -; exited: -; ]
Dec-09 13:36:15.618 [Thread-1] DEBUG n.processor.TaskPollingMonitor - !! executor slurm > tasks to be completed: 7 -- first: TaskHandler[jobId: 9297362; id: 4; name: manta (chr21-1); status: SUBMITTED; exit: -; workDir: /home/rajohvik/glob/work/1c/bcaeaa326c871612dff36f12854322 started: -; exited: -; ]
Dec-09 13:36:25.619 [Thread-1] DEBUG n.processor.TaskPollingMonitor - !! executor slurm > tasks to be completed: 7 -- first: TaskHandler[jobId: 9297362; id: 4; name: manta (chr21-1); status: SUBMITTED; exit: -; workDir: /home/rajohvik/glob/work/1c/bcaeaa326c871612dff36f12854322 started: -; exited: -; ]
Dec-09 13:36:35.621 [Thread-1] DEBUG n.processor.TaskPollingMonitor - !! executor slurm > tasks to be completed: 7 -- first: TaskHandler[jobId: 9297362; id: 4; name: manta (chr21-1); status: SUBMITTED; exit: -; workDir: /home/rajohvik/glob/work/1c/bcaeaa326c871612dff36f12854322 started: -; exited: -; ]
Dec-09 13:36:45.622 [Thread-1] DEBUG n.processor.TaskPollingMonitor - !! executor slurm > tasks to be completed: 7 -- first: TaskHandler[jobId: 9297362; id: 4; name: manta (chr21-1); status: SUBMITTED; exit: -; workDir: /home/rajohvik/glob/work/1c/bcaeaa326c871612dff36f12854322 started: -; exited: -; ]
Dec-09 13:36:55.623 [Thread-1] DEBUG n.processor.TaskPollingMonitor - !! executor slurm > tasks to be completed: 7 -- first: TaskHandler[jobId: 9297362; id: 4; name: manta (chr21-1); status: SUBMITTED; exit: -; workDir: /home/rajohvik/glob/work/1c/bcaeaa326c871612dff36f12854322 started: -; exited: -; ]
Dec-09 13:37:05.625 [Thread-1] DEBUG n.processor.TaskPollingMonitor - !! executor slurm > tasks to be completed: 7 -- first: TaskHandler[jobId: 9297362; id: 4; name: manta (chr21-1); status: SUBMITTED; exit: -; workDir: /home/rajohvik/glob/work/1c/bcaeaa326c871612dff36f12854322 started: -; exited: -; ]
Dec-09 13:37:15.627 [Thread-1] DEBUG n.processor.TaskPollingMonitor - !! executor slurm > tasks to be completed: 7 -- first: TaskHandler[jobId: 9297362; id: 4; name: manta (chr21-1); status: SUBMITTED; exit: -; workDir: /home/rajohvik/glob/work/1c/bcaeaa326c871612dff36f12854322 started: -; exited: -; ]
Dec-09 13:37:25.628 [Thread-1] DEBUG n.processor.TaskPollingMonitor - !! executor slurm > tasks to be completed: 7 -- first: TaskHandler[jobId: 9297362; id: 4; name: manta (chr21-1); status: SUBMITTED; exit: -; workDir: /home/rajohvik/glob/work/1c/bcaeaa326c871612dff36f12854322 started: -; exited: -; ]
Dec-09 13:37:35.631 [Thread-1] DEBUG n.processor.TaskPollingMonitor - !! executor slurm > tasks to be completed: 6 -- first: TaskHandler[jobId: 9297362; id: 4; name: manta (chr21-1); status: SUBMITTED; exit: -; workDir: /home/rajohvik/glob/work/1c/bcaeaa326c871612dff36f12854322 started: -; exited: -; ]
Dec-09 13:37:45.634 [Thread-1] DEBUG n.processor.TaskPollingMonitor - !! executor slurm > tasks to be completed: 6 -- first: TaskHandler[jobId: 9297362; id: 4; name: manta (chr21-1); status: SUBMITTED; exit: -; workDir: /home/rajohvik/glob/work/1c/bcaeaa326c871612dff36f12854322 started: -; exited: -; ]
Dec-09 13:37:55.635 [Thread-1] DEBUG n.processor.TaskPollingMonitor - !! executor slurm > tasks to be completed: 6 -- first: TaskHandler[jobId: 9297362; id: 4; name: manta (chr21-1); status: SUBMITTED; exit: -; workDir: /home/rajohvik/glob/work/1c/bcaeaa326c871612dff36f12854322 started: -; exited: -; ]
Dec-09 13:38:05.636 [Thread-1] DEBUG n.processor.TaskPollingMonitor - !! executor slurm > tasks to be completed: 6 -- first: TaskHandler[jobId: 9297362; id: 4; name: manta (chr21-1); status: SUBMITTED; exit: -; workDir: /home/rajohvik/glob/work/1c/bcaeaa326c871612dff36f12854322 started: -; exited: -; ]
Dec-09 13:38:05.656 [Actor Thread 26] DEBUG nextflow.executor.GridTaskHandler - Launching process > mask_vcfs (chr21-2 manta.vcf) -- work folder: /home/rajohvik/glob/work/bb/67a96a6c125ec9a211010c6b80f0c1
Dec-09 13:38:05.691 [Actor Thread 26] INFO  nextflow.Session - [bb/67a96a] Submitted process > mask_vcfs (chr21-2 manta.vcf)
Dec-09 13:38:15.638 [Thread-1] DEBUG n.processor.TaskPollingMonitor - !! executor slurm > tasks to be completed: 6 -- first: TaskHandler[jobId: 9297362; id: 4; name: manta (chr21-1); status: SUBMITTED; exit: -; workDir: /home/rajohvik/glob/work/1c/bcaeaa326c871612dff36f12854322 started: -; exited: -; ]
Dec-09 13:38:25.639 [Thread-1] DEBUG n.processor.TaskPollingMonitor - !! executor slurm > tasks to be completed: 6 -- first: TaskHandler[jobId: 9297362; id: 4; name: manta (chr21-1); status: SUBMITTED; exit: -; workDir: /home/rajohvik/glob/work/1c/bcaeaa326c871612dff36f12854322 started: -; exited: -; ]
Dec-09 13:38:35.640 [Thread-1] DEBUG n.processor.TaskPollingMonitor - !! executor slurm > tasks to be completed: 6 -- first: TaskHandler[jobId: 9297362; id: 4; name: manta (chr21-1); status: SUBMITTED; exit: -; workDir: /home/rajohvik/glob/work/1c/bcaeaa326c871612dff36f12854322 started: -; exited: -; ]
Dec-09 13:38:45.641 [Thread-1] DEBUG n.processor.TaskPollingMonitor - !! executor slurm > tasks to be completed: 6 -- first: TaskHandler[jobId: 9297362; id: 4; name: manta (chr21-1); status: SUBMITTED; exit: -; workDir: /home/rajohvik/glob/work/1c/bcaeaa326c871612dff36f12854322 started: -; exited: -; ]
Dec-09 13:38:55.642 [Thread-1] DEBUG n.processor.TaskPollingMonitor - !! executor slurm > tasks to be completed: 6 -- first: TaskHandler[jobId: 9297362; id: 4; name: manta (chr21-1); status: SUBMITTED; exit: -; workDir: /home/rajohvik/glob/work/1c/bcaeaa326c871612dff36f12854322 started: -; exited: -; ]
Dec-09 13:39:05.644 [Thread-1] DEBUG n.processor.TaskPollingMonitor - !! executor slurm > tasks to be completed: 6 -- first: TaskHandler[jobId: 9297362; id: 4; name: manta (chr21-1); status: SUBMITTED; exit: -; workDir: /home/rajohvik/glob/work/1c/bcaeaa326c871612dff36f12854322 started: -; exited: -; ]
Dec-09 13:39:15.645 [Thread-1] DEBUG n.processor.TaskPollingMonitor - !! executor slurm > tasks to be completed: 6 -- first: TaskHandler[jobId: 9297362; id: 4; name: manta (chr21-1); status: SUBMITTED; exit: -; workDir: /home/rajohvik/glob/work/1c/bcaeaa326c871612dff36f12854322 started: -; exited: -; ]
Dec-09 13:39:25.646 [Thread-1] DEBUG n.processor.TaskPollingMonitor - !! executor slurm > tasks to be completed: 6 -- first: TaskHandler[jobId: 9297362; id: 4; name: manta (chr21-1); status: SUBMITTED; exit: -; workDir: /home/rajohvik/glob/work/1c/bcaeaa326c871612dff36f12854322 started: -; exited: -; ]
Dec-09 13:39:35.648 [Thread-1] DEBUG n.processor.TaskPollingMonitor - !! executor slurm > tasks to be completed: 6 -- first: TaskHandler[jobId: 9297362; id: 4; name: manta (chr21-1); status: SUBMITTED; exit: -; workDir: /home/rajohvik/glob/work/1c/bcaeaa326c871612dff36f12854322 started: -; exited: -; ]
Dec-09 13:39:45.649 [Thread-1] DEBUG n.processor.TaskPollingMonitor - !! executor slurm > tasks to be completed: 6 -- first: TaskHandler[jobId: 9297362; id: 4; name: manta (chr21-1); status: SUBMITTED; exit: -; workDir: /home/rajohvik/glob/work/1c/bcaeaa326c871612dff36f12854322 started: -; exited: -; ]
Dec-09 13:39:55.650 [Thread-1] DEBUG n.processor.TaskPollingMonitor - !! executor slurm > tasks to be completed: 6 -- first: TaskHandler[jobId: 9297362; id: 4; name: manta (chr21-1); status: SUBMITTED; exit: -; workDir: /home/rajohvik/glob/work/1c/bcaeaa326c871612dff36f12854322 started: -; exited: -; ]
Dec-09 13:40:05.651 [Thread-1] DEBUG n.processor.TaskPollingMonitor - !! executor slurm > tasks to be completed: 6 -- first: TaskHandler[jobId: 9297362; id: 4; name: manta (chr21-1); status: SUBMITTED; exit: -; workDir: /home/rajohvik/glob/work/1c/bcaeaa326c871612dff36f12854322 started: -; exited: -; ]
Dec-09 13:40:15.653 [Thread-1] DEBUG n.processor.TaskPollingMonitor - !! executor slurm > tasks to be completed: 6 -- first: TaskHandler[jobId: 9297362; id: 4; name: manta (chr21-1); status: SUBMITTED; exit: -; workDir: /home/rajohvik/glob/work/1c/bcaeaa326c871612dff36f12854322 started: -; exited: -; ]
Dec-09 13:40:25.655 [Thread-1] DEBUG n.processor.TaskPollingMonitor - !! executor slurm > tasks to be completed: 6 -- first: TaskHandler[jobId: 9297362; id: 4; name: manta (chr21-1); status: SUBMITTED; exit: -; workDir: /home/rajohvik/glob/work/1c/bcaeaa326c871612dff36f12854322 started: -; exited: -; ]
Dec-09 13:40:35.656 [Thread-1] DEBUG n.processor.TaskPollingMonitor - !! executor slurm > tasks to be completed: 6 -- first: TaskHandler[jobId: 9297362; id: 4; name: manta (chr21-1); status: SUBMITTED; exit: -; workDir: /home/rajohvik/glob/work/1c/bcaeaa326c871612dff36f12854322 started: -; exited: -; ]
Dec-09 13:40:45.657 [Thread-1] DEBUG n.processor.TaskPollingMonitor - !! executor slurm > tasks to be completed: 6 -- first: TaskHandler[jobId: 9297362; id: 4; name: manta (chr21-1); status: SUBMITTED; exit: -; workDir: /home/rajohvik/glob/work/1c/bcaeaa326c871612dff36f12854322 started: -; exited: -; ]
Dec-09 13:40:55.659 [Thread-1] DEBUG n.processor.TaskPollingMonitor - !! executor slurm > tasks to be completed: 6 -- first: TaskHandler[jobId: 9297362; id: 4; name: manta (chr21-1); status: SUBMITTED; exit: -; workDir: /home/rajohvik/glob/work/1c/bcaeaa326c871612dff36f12854322 started: -; exited: -; ]
Dec-09 13:41:05.661 [Thread-1] DEBUG n.processor.TaskPollingMonitor - !! executor slurm > tasks to be completed: 6 -- first: TaskHandler[jobId: 9297362; id: 4; name: manta (chr21-1); status: SUBMITTED; exit: -; workDir: /home/rajohvik/glob/work/1c/bcaeaa326c871612dff36f12854322 started: -; exited: -; ]
Dec-09 13:41:15.663 [Thread-1] DEBUG n.processor.TaskPollingMonitor - !! executor slurm > tasks to be completed: 6 -- first: TaskHandler[jobId: 9297362; id: 4; name: manta (chr21-1); status: SUBMITTED; exit: -; workDir: /home/rajohvik/glob/work/1c/bcaeaa326c871612dff36f12854322 started: -; exited: -; ]
Dec-09 13:41:25.665 [Thread-1] DEBUG n.processor.TaskPollingMonitor - !! executor slurm > tasks to be completed: 6 -- first: TaskHandler[jobId: 9297362; id: 4; name: manta (chr21-1); status: SUBMITTED; exit: -; workDir: /home/rajohvik/glob/work/1c/bcaeaa326c871612dff36f12854322 started: -; exited: -; ]
Dec-09 13:41:25.692 [Actor Thread 30] DEBUG nextflow.executor.GridTaskHandler - Launching process > variant_effect_predictor (chr21-2 - manta_masked.vcf) -- work folder: /home/rajohvik/glob/work/af/dbe09f88224db5072eb19fa70ed7c5
Dec-09 13:41:25.747 [Actor Thread 30] INFO  nextflow.Session - [af/dbe09f] Submitted process > variant_effect_predictor (chr21-2 - manta_masked.vcf)
Dec-09 13:41:35.666 [Thread-1] DEBUG n.processor.TaskPollingMonitor - !! executor slurm > tasks to be completed: 6 -- first: TaskHandler[jobId: 9297362; id: 4; name: manta (chr21-1); status: SUBMITTED; exit: -; workDir: /home/rajohvik/glob/work/1c/bcaeaa326c871612dff36f12854322 started: -; exited: -; ]
Dec-09 13:41:45.667 [Thread-1] DEBUG n.processor.TaskPollingMonitor - !! executor slurm > tasks to be completed: 6 -- first: TaskHandler[jobId: 9297362; id: 4; name: manta (chr21-1); status: SUBMITTED; exit: -; workDir: /home/rajohvik/glob/work/1c/bcaeaa326c871612dff36f12854322 started: -; exited: -; ]
Dec-09 13:41:55.669 [Thread-1] DEBUG n.processor.TaskPollingMonitor - !! executor slurm > tasks to be completed: 6 -- first: TaskHandler[jobId: 9297362; id: 4; name: manta (chr21-1); status: SUBMITTED; exit: -; workDir: /home/rajohvik/glob/work/1c/bcaeaa326c871612dff36f12854322 started: -; exited: -; ]
Dec-09 13:42:05.670 [Thread-1] DEBUG n.processor.TaskPollingMonitor - !! executor slurm > tasks to be completed: 6 -- first: TaskHandler[jobId: 9297362; id: 4; name: manta (chr21-1); status: SUBMITTED; exit: -; workDir: /home/rajohvik/glob/work/1c/bcaeaa326c871612dff36f12854322 started: -; exited: -; ]
Dec-09 13:42:15.672 [Thread-1] DEBUG n.processor.TaskPollingMonitor - !! executor slurm > tasks to be completed: 6 -- first: TaskHandler[jobId: 9297362; id: 4; name: manta (chr21-1); status: SUBMITTED; exit: -; workDir: /home/rajohvik/glob/work/1c/bcaeaa326c871612dff36f12854322 started: -; exited: -; ]
Dec-09 13:42:25.674 [Thread-1] DEBUG n.processor.TaskPollingMonitor - !! executor slurm > tasks to be completed: 6 -- first: TaskHandler[jobId: 9297362; id: 4; name: manta (chr21-1); status: SUBMITTED; exit: -; workDir: /home/rajohvik/glob/work/1c/bcaeaa326c871612dff36f12854322 started: -; exited: -; ]
Dec-09 13:42:35.677 [Thread-1] DEBUG n.processor.TaskPollingMonitor - !! executor slurm > tasks to be completed: 6 -- first: TaskHandler[jobId: 9297362; id: 4; name: manta (chr21-1); status: SUBMITTED; exit: -; workDir: /home/rajohvik/glob/work/1c/bcaeaa326c871612dff36f12854322 started: -; exited: -; ]
Dec-09 13:42:45.678 [Thread-1] DEBUG n.processor.TaskPollingMonitor - !! executor slurm > tasks to be completed: 6 -- first: TaskHandler[jobId: 9297362; id: 4; name: manta (chr21-1); status: SUBMITTED; exit: -; workDir: /home/rajohvik/glob/work/1c/bcaeaa326c871612dff36f12854322 started: -; exited: -; ]
Dec-09 13:42:55.681 [Thread-1] DEBUG n.processor.TaskPollingMonitor - !! executor slurm > tasks to be completed: 6 -- first: TaskHandler[jobId: 9297362; id: 4; name: manta (chr21-1); status: SUBMITTED; exit: -; workDir: /home/rajohvik/glob/work/1c/bcaeaa326c871612dff36f12854322 started: -; exited: -; ]
Dec-09 13:42:55.699 [Actor Thread 32] DEBUG nextflow.executor.GridTaskHandler - Launching process > mask_vcfs (chr21-6 manta.vcf) -- work folder: /home/rajohvik/glob/work/c6/bfa13a390646c2942cbf60ed9eeac7
Dec-09 13:42:55.733 [Actor Thread 32] INFO  nextflow.Session - [c6/bfa13a] Submitted process > mask_vcfs (chr21-6 manta.vcf)
Dec-09 13:43:05.683 [Thread-1] DEBUG n.processor.TaskPollingMonitor - !! executor slurm > tasks to be completed: 6 -- first: TaskHandler[jobId: 9297362; id: 4; name: manta (chr21-1); status: SUBMITTED; exit: -; workDir: /home/rajohvik/glob/work/1c/bcaeaa326c871612dff36f12854322 started: -; exited: -; ]
Dec-09 13:43:15.684 [Thread-1] DEBUG n.processor.TaskPollingMonitor - !! executor slurm > tasks to be completed: 6 -- first: TaskHandler[jobId: 9297362; id: 4; name: manta (chr21-1); status: SUBMITTED; exit: -; workDir: /home/rajohvik/glob/work/1c/bcaeaa326c871612dff36f12854322 started: -; exited: -; ]
Dec-09 13:43:25.687 [Thread-1] DEBUG n.processor.TaskPollingMonitor - !! executor slurm > tasks to be completed: 6 -- first: TaskHandler[jobId: 9297362; id: 4; name: manta (chr21-1); status: SUBMITTED; exit: -; workDir: /home/rajohvik/glob/work/1c/bcaeaa326c871612dff36f12854322 started: -; exited: -; ]
Dec-09 13:43:35.693 [Thread-1] DEBUG n.processor.TaskPollingMonitor - !! executor slurm > tasks to be completed: 6 -- first: TaskHandler[jobId: 9297362; id: 4; name: manta (chr21-1); status: SUBMITTED; exit: -; workDir: /home/rajohvik/glob/work/1c/bcaeaa326c871612dff36f12854322 started: -; exited: -; ]
Dec-09 13:43:45.694 [Thread-1] DEBUG n.processor.TaskPollingMonitor - !! executor slurm > tasks to be completed: 6 -- first: TaskHandler[jobId: 9297362; id: 4; name: manta (chr21-1); status: SUBMITTED; exit: -; workDir: /home/rajohvik/glob/work/1c/bcaeaa326c871612dff36f12854322 started: -; exited: -; ]
Dec-09 13:43:55.695 [Thread-1] DEBUG n.processor.TaskPollingMonitor - !! executor slurm > tasks to be completed: 6 -- first: TaskHandler[jobId: 9297362; id: 4; name: manta (chr21-1); status: SUBMITTED; exit: -; workDir: /home/rajohvik/glob/work/1c/bcaeaa326c871612dff36f12854322 started: -; exited: -; ]
Dec-09 13:44:05.696 [Thread-1] DEBUG n.processor.TaskPollingMonitor - !! executor slurm > tasks to be completed: 6 -- first: TaskHandler[jobId: 9297362; id: 4; name: manta (chr21-1); status: SUBMITTED; exit: -; workDir: /home/rajohvik/glob/work/1c/bcaeaa326c871612dff36f12854322 started: -; exited: -; ]
Dec-09 13:44:15.698 [Thread-1] DEBUG n.processor.TaskPollingMonitor - !! executor slurm > tasks to be completed: 6 -- first: TaskHandler[jobId: 9297362; id: 4; name: manta (chr21-1); status: SUBMITTED; exit: -; workDir: /home/rajohvik/glob/work/1c/bcaeaa326c871612dff36f12854322 started: -; exited: -; ]
Dec-09 13:44:25.700 [Thread-1] DEBUG n.processor.TaskPollingMonitor - !! executor slurm > tasks to be completed: 6 -- first: TaskHandler[jobId: 9297362; id: 4; name: manta (chr21-1); status: SUBMITTED; exit: -; workDir: /home/rajohvik/glob/work/1c/bcaeaa326c871612dff36f12854322 started: -; exited: -; ]
Dec-09 13:44:35.701 [Thread-1] DEBUG n.processor.TaskPollingMonitor - !! executor slurm > tasks to be completed: 6 -- first: TaskHandler[jobId: 9297362; id: 4; name: manta (chr21-1); status: SUBMITTED; exit: -; workDir: /home/rajohvik/glob/work/1c/bcaeaa326c871612dff36f12854322 started: -; exited: -; ]
Dec-09 13:44:45.702 [Thread-1] DEBUG n.processor.TaskPollingMonitor - !! executor slurm > tasks to be completed: 6 -- first: TaskHandler[jobId: 9297362; id: 4; name: manta (chr21-1); status: SUBMITTED; exit: -; workDir: /home/rajohvik/glob/work/1c/bcaeaa326c871612dff36f12854322 started: -; exited: -; ]
Dec-09 13:44:55.703 [Thread-1] DEBUG n.processor.TaskPollingMonitor - !! executor slurm > tasks to be completed: 6 -- first: TaskHandler[jobId: 9297362; id: 4; name: manta (chr21-1); status: RUNNING; exit: -; workDir: /home/rajohvik/glob/work/1c/bcaeaa326c871612dff36f12854322 started: 1481287485703; exited: -; ]
Dec-09 13:45:05.704 [Thread-1] DEBUG n.processor.TaskPollingMonitor - !! executor slurm > tasks to be completed: 6 -- first: TaskHandler[jobId: 9297362; id: 4; name: manta (chr21-1); status: RUNNING; exit: -; workDir: /home/rajohvik/glob/work/1c/bcaeaa326c871612dff36f12854322 started: 1481287485703; exited: -; ]
Dec-09 13:45:15.706 [Thread-1] DEBUG n.processor.TaskPollingMonitor - !! executor slurm > tasks to be completed: 6 -- first: TaskHandler[jobId: 9297362; id: 4; name: manta (chr21-1); status: RUNNING; exit: -; workDir: /home/rajohvik/glob/work/1c/bcaeaa326c871612dff36f12854322 started: 1481287485703; exited: -; ]
Dec-09 13:45:25.712 [Thread-1] DEBUG n.processor.TaskPollingMonitor - !! executor slurm > tasks to be completed: 6 -- first: TaskHandler[jobId: 9297362; id: 4; name: manta (chr21-1); status: RUNNING; exit: -; workDir: /home/rajohvik/glob/work/1c/bcaeaa326c871612dff36f12854322 started: 1481287485703; exited: -; ]
Dec-09 13:45:25.763 [Actor Thread 35] DEBUG nextflow.executor.GridTaskHandler - Launching process > variant_effect_predictor (chr21-6 - manta_masked.vcf) -- work folder: /home/rajohvik/glob/work/b5/4651428b7a504a1e4adeb28beb1cf3
Dec-09 13:45:25.872 [Actor Thread 35] INFO  nextflow.Session - [b5/465142] Submitted process > variant_effect_predictor (chr21-6 - manta_masked.vcf)
Dec-09 13:45:35.713 [Thread-1] DEBUG n.processor.TaskPollingMonitor - !! executor slurm > tasks to be completed: 5 -- first: TaskHandler[jobId: 9297362; id: 4; name: manta (chr21-1); status: RUNNING; exit: -; workDir: /home/rajohvik/glob/work/1c/bcaeaa326c871612dff36f12854322 started: 1481287485703; exited: -; ]
Dec-09 13:45:45.737 [Thread-1] DEBUG n.processor.TaskPollingMonitor - !! executor slurm > tasks to be completed: 5 -- first: TaskHandler[jobId: 9297362; id: 4; name: manta (chr21-1); status: RUNNING; exit: -; workDir: /home/rajohvik/glob/work/1c/bcaeaa326c871612dff36f12854322 started: 1481287485703; exited: -; ]
Dec-09 13:45:55.738 [Thread-1] DEBUG n.processor.TaskPollingMonitor - !! executor slurm > tasks to be completed: 5 -- first: TaskHandler[jobId: 9297362; id: 4; name: manta (chr21-1); status: RUNNING; exit: -; workDir: /home/rajohvik/glob/work/1c/bcaeaa326c871612dff36f12854322 started: 1481287485703; exited: -; ]
Dec-09 13:46:05.740 [Thread-1] DEBUG n.processor.TaskPollingMonitor - !! executor slurm > tasks to be completed: 5 -- first: TaskHandler[jobId: 9297362; id: 4; name: manta (chr21-1); status: RUNNING; exit: -; workDir: /home/rajohvik/glob/work/1c/bcaeaa326c871612dff36f12854322 started: 1481287485703; exited: -; ]
Dec-09 13:46:15.742 [Thread-1] DEBUG n.processor.TaskPollingMonitor - !! executor slurm > tasks to be completed: 5 -- first: TaskHandler[jobId: 9297362; id: 4; name: manta (chr21-1); status: RUNNING; exit: -; workDir: /home/rajohvik/glob/work/1c/bcaeaa326c871612dff36f12854322 started: 1481287485703; exited: -; ]
Dec-09 13:46:25.781 [Thread-1] DEBUG n.processor.TaskPollingMonitor - !! executor slurm > tasks to be completed: 5 -- first: TaskHandler[jobId: 9297362; id: 4; name: manta (chr21-1); status: RUNNING; exit: -; workDir: /home/rajohvik/glob/work/1c/bcaeaa326c871612dff36f12854322 started: 1481287485703; exited: -; ]
Dec-09 13:46:35.792 [Thread-1] DEBUG n.processor.TaskPollingMonitor - !! executor slurm > tasks to be completed: 5 -- first: TaskHandler[jobId: 9297362; id: 4; name: manta (chr21-1); status: RUNNING; exit: -; workDir: /home/rajohvik/glob/work/1c/bcaeaa326c871612dff36f12854322 started: 1481287485703; exited: -; ]
Dec-09 13:46:45.797 [Thread-1] DEBUG n.processor.TaskPollingMonitor - !! executor slurm > tasks to be completed: 5 -- first: TaskHandler[jobId: 9297362; id: 4; name: manta (chr21-1); status: RUNNING; exit: -; workDir: /home/rajohvik/glob/work/1c/bcaeaa326c871612dff36f12854322 started: 1481287485703; exited: -; ]
Dec-09 13:46:55.899 [Thread-1] DEBUG n.processor.TaskPollingMonitor - !! executor slurm > tasks to be completed: 5 -- first: TaskHandler[jobId: 9297362; id: 4; name: manta (chr21-1); status: RUNNING; exit: -; workDir: /home/rajohvik/glob/work/1c/bcaeaa326c871612dff36f12854322 started: 1481287485703; exited: -; ]
Dec-09 13:47:05.901 [Thread-1] DEBUG n.processor.TaskPollingMonitor - !! executor slurm > tasks to be completed: 5 -- first: TaskHandler[jobId: 9297362; id: 4; name: manta (chr21-1); status: RUNNING; exit: -; workDir: /home/rajohvik/glob/work/1c/bcaeaa326c871612dff36f12854322 started: 1481287485703; exited: -; ]
Dec-09 13:47:15.925 [Thread-1] DEBUG n.processor.TaskPollingMonitor - !! executor slurm > tasks to be completed: 5 -- first: TaskHandler[jobId: 9297362; id: 4; name: manta (chr21-1); status: RUNNING; exit: -; workDir: /home/rajohvik/glob/work/1c/bcaeaa326c871612dff36f12854322 started: 1481287485703; exited: -; ]
Dec-09 13:47:25.926 [Thread-1] DEBUG n.processor.TaskPollingMonitor - !! executor slurm > tasks to be completed: 5 -- first: TaskHandler[jobId: 9297362; id: 4; name: manta (chr21-1); status: RUNNING; exit: -; workDir: /home/rajohvik/glob/work/1c/bcaeaa326c871612dff36f12854322 started: 1481287485703; exited: -; ]
Dec-09 13:47:35.937 [Thread-1] DEBUG n.processor.TaskPollingMonitor - !! executor slurm > tasks to be completed: 5 -- first: TaskHandler[jobId: 9297362; id: 4; name: manta (chr21-1); status: RUNNING; exit: -; workDir: /home/rajohvik/glob/work/1c/bcaeaa326c871612dff36f12854322 started: 1481287485703; exited: -; ]
Dec-09 13:47:45.939 [Thread-1] DEBUG n.processor.TaskPollingMonitor - !! executor slurm > tasks to be completed: 5 -- first: TaskHandler[jobId: 9297362; id: 4; name: manta (chr21-1); status: RUNNING; exit: -; workDir: /home/rajohvik/glob/work/1c/bcaeaa326c871612dff36f12854322 started: 1481287485703; exited: -; ]
Dec-09 13:47:55.941 [Thread-1] DEBUG n.processor.TaskPollingMonitor - !! executor slurm > tasks to be completed: 5 -- first: TaskHandler[jobId: 9297362; id: 4; name: manta (chr21-1); status: RUNNING; exit: -; workDir: /home/rajohvik/glob/work/1c/bcaeaa326c871612dff36f12854322 started: 1481287485703; exited: -; ]
Dec-09 13:48:05.942 [Thread-1] DEBUG n.processor.TaskPollingMonitor - !! executor slurm > tasks to be completed: 5 -- first: TaskHandler[jobId: 9297362; id: 4; name: manta (chr21-1); status: RUNNING; exit: -; workDir: /home/rajohvik/glob/work/1c/bcaeaa326c871612dff36f12854322 started: 1481287485703; exited: -; ]
Dec-09 13:48:15.944 [Thread-1] DEBUG n.processor.TaskPollingMonitor - !! executor slurm > tasks to be completed: 5 -- first: TaskHandler[jobId: 9297362; id: 4; name: manta (chr21-1); status: RUNNING; exit: -; workDir: /home/rajohvik/glob/work/1c/bcaeaa326c871612dff36f12854322 started: 1481287485703; exited: -; ]
Dec-09 13:48:25.945 [Thread-1] DEBUG n.processor.TaskPollingMonitor - !! executor slurm > tasks to be completed: 5 -- first: TaskHandler[jobId: 9297362; id: 4; name: manta (chr21-1); status: RUNNING; exit: -; workDir: /home/rajohvik/glob/work/1c/bcaeaa326c871612dff36f12854322 started: 1481287485703; exited: -; ]
Dec-09 13:48:35.946 [Thread-1] DEBUG n.processor.TaskPollingMonitor - !! executor slurm > tasks to be completed: 5 -- first: TaskHandler[jobId: 9297362; id: 4; name: manta (chr21-1); status: RUNNING; exit: -; workDir: /home/rajohvik/glob/work/1c/bcaeaa326c871612dff36f12854322 started: 1481287485703; exited: -; ]
Dec-09 13:48:45.947 [Thread-1] DEBUG n.processor.TaskPollingMonitor - !! executor slurm > tasks to be completed: 5 -- first: TaskHandler[jobId: 9297362; id: 4; name: manta (chr21-1); status: RUNNING; exit: -; workDir: /home/rajohvik/glob/work/1c/bcaeaa326c871612dff36f12854322 started: 1481287485703; exited: -; ]
Dec-09 13:48:56.019 [Thread-1] DEBUG n.processor.TaskPollingMonitor - !! executor slurm > tasks to be completed: 5 -- first: TaskHandler[jobId: 9297362; id: 4; name: manta (chr21-1); status: RUNNING; exit: -; workDir: /home/rajohvik/glob/work/1c/bcaeaa326c871612dff36f12854322 started: 1481287485703; exited: 2016-12-09T12:48:46Z; ]
Dec-09 13:48:56.033 [Actor Thread 38] DEBUG nextflow.executor.GridTaskHandler - Launching process > mask_vcfs (chr21-1 manta.vcf) -- work folder: /home/rajohvik/glob/work/fb/90822f61b5dda16c75206b07b5b348
Dec-09 13:48:56.067 [Actor Thread 38] INFO  nextflow.Session - [fb/90822f] Submitted process > mask_vcfs (chr21-1 manta.vcf)
Dec-09 13:49:06.020 [Thread-1] DEBUG n.processor.TaskPollingMonitor - !! executor slurm > tasks to be completed: 5 -- first: TaskHandler[jobId: 9297363; id: 5; name: manta (chr21-3); status: SUBMITTED; exit: -; workDir: /home/rajohvik/glob/work/3c/e2cfe00d1eeeae5ca7647ba2196183 started: -; exited: -; ]
Dec-09 13:49:16.021 [Thread-1] DEBUG n.processor.TaskPollingMonitor - !! executor slurm > tasks to be completed: 5 -- first: TaskHandler[jobId: 9297363; id: 5; name: manta (chr21-3); status: SUBMITTED; exit: -; workDir: /home/rajohvik/glob/work/3c/e2cfe00d1eeeae5ca7647ba2196183 started: -; exited: -; ]
Dec-09 13:49:26.022 [Thread-1] DEBUG n.processor.TaskPollingMonitor - !! executor slurm > tasks to be completed: 5 -- first: TaskHandler[jobId: 9297363; id: 5; name: manta (chr21-3); status: SUBMITTED; exit: -; workDir: /home/rajohvik/glob/work/3c/e2cfe00d1eeeae5ca7647ba2196183 started: -; exited: -; ]
Dec-09 13:49:36.023 [Thread-1] DEBUG n.processor.TaskPollingMonitor - !! executor slurm > tasks to be completed: 5 -- first: TaskHandler[jobId: 9297363; id: 5; name: manta (chr21-3); status: SUBMITTED; exit: -; workDir: /home/rajohvik/glob/work/3c/e2cfe00d1eeeae5ca7647ba2196183 started: -; exited: -; ]
Dec-09 13:49:46.024 [Thread-1] DEBUG n.processor.TaskPollingMonitor - !! executor slurm > tasks to be completed: 5 -- first: TaskHandler[jobId: 9297363; id: 5; name: manta (chr21-3); status: SUBMITTED; exit: -; workDir: /home/rajohvik/glob/work/3c/e2cfe00d1eeeae5ca7647ba2196183 started: -; exited: -; ]
Dec-09 13:49:56.025 [Thread-1] DEBUG n.processor.TaskPollingMonitor - !! executor slurm > tasks to be completed: 5 -- first: TaskHandler[jobId: 9297363; id: 5; name: manta (chr21-3); status: SUBMITTED; exit: -; workDir: /home/rajohvik/glob/work/3c/e2cfe00d1eeeae5ca7647ba2196183 started: -; exited: -; ]
Dec-09 13:50:06.026 [Thread-1] DEBUG n.processor.TaskPollingMonitor - !! executor slurm > tasks to be completed: 5 -- first: TaskHandler[jobId: 9297363; id: 5; name: manta (chr21-3); status: RUNNING; exit: -; workDir: /home/rajohvik/glob/work/3c/e2cfe00d1eeeae5ca7647ba2196183 started: 1481287796026; exited: -; ]
Dec-09 13:50:16.029 [Thread-1] DEBUG n.processor.TaskPollingMonitor - !! executor slurm > tasks to be completed: 5 -- first: TaskHandler[jobId: 9297363; id: 5; name: manta (chr21-3); status: RUNNING; exit: -; workDir: /home/rajohvik/glob/work/3c/e2cfe00d1eeeae5ca7647ba2196183 started: 1481287796026; exited: -; ]
Dec-09 13:50:26.031 [Thread-1] DEBUG n.processor.TaskPollingMonitor - !! executor slurm > tasks to be completed: 5 -- first: TaskHandler[jobId: 9297363; id: 5; name: manta (chr21-3); status: RUNNING; exit: -; workDir: /home/rajohvik/glob/work/3c/e2cfe00d1eeeae5ca7647ba2196183 started: 1481287796026; exited: -; ]
Dec-09 13:50:36.033 [Thread-1] DEBUG n.processor.TaskPollingMonitor - !! executor slurm > tasks to be completed: 5 -- first: TaskHandler[jobId: 9297363; id: 5; name: manta (chr21-3); status: RUNNING; exit: -; workDir: /home/rajohvik/glob/work/3c/e2cfe00d1eeeae5ca7647ba2196183 started: 1481287796026; exited: -; ]
Dec-09 13:50:46.035 [Thread-1] DEBUG n.processor.TaskPollingMonitor - !! executor slurm > tasks to be completed: 5 -- first: TaskHandler[jobId: 9297363; id: 5; name: manta (chr21-3); status: RUNNING; exit: -; workDir: /home/rajohvik/glob/work/3c/e2cfe00d1eeeae5ca7647ba2196183 started: 1481287796026; exited: -; ]
Dec-09 13:50:46.081 [Actor Thread 42] DEBUG nextflow.executor.GridTaskHandler - Launching process > variant_effect_predictor (chr21-1 - manta_masked.vcf) -- work folder: /home/rajohvik/glob/work/c7/688d8a3b86929e95b5c7c13d0701f0
Dec-09 13:50:47.628 [Actor Thread 42] INFO  nextflow.Session - [c7/688d8a] Submitted process > variant_effect_predictor (chr21-1 - manta_masked.vcf)
Dec-09 13:50:56.037 [Thread-1] DEBUG n.processor.TaskPollingMonitor - !! executor slurm > tasks to be completed: 4 -- first: TaskHandler[jobId: 9297363; id: 5; name: manta (chr21-3); status: RUNNING; exit: -; workDir: /home/rajohvik/glob/work/3c/e2cfe00d1eeeae5ca7647ba2196183 started: 1481287796026; exited: -; ]
Dec-09 13:51:06.039 [Thread-1] DEBUG n.processor.TaskPollingMonitor - !! executor slurm > tasks to be completed: 4 -- first: TaskHandler[jobId: 9297363; id: 5; name: manta (chr21-3); status: RUNNING; exit: -; workDir: /home/rajohvik/glob/work/3c/e2cfe00d1eeeae5ca7647ba2196183 started: 1481287796026; exited: -; ]
Dec-09 13:51:16.042 [Thread-1] DEBUG n.processor.TaskPollingMonitor - !! executor slurm > tasks to be completed: 4 -- first: TaskHandler[jobId: 9297363; id: 5; name: manta (chr21-3); status: RUNNING; exit: -; workDir: /home/rajohvik/glob/work/3c/e2cfe00d1eeeae5ca7647ba2196183 started: 1481287796026; exited: -; ]
Dec-09 13:51:26.045 [Thread-1] DEBUG n.processor.TaskPollingMonitor - !! executor slurm > tasks to be completed: 4 -- first: TaskHandler[jobId: 9297363; id: 5; name: manta (chr21-3); status: RUNNING; exit: -; workDir: /home/rajohvik/glob/work/3c/e2cfe00d1eeeae5ca7647ba2196183 started: 1481287796026; exited: -; ]
Dec-09 13:51:36.046 [Thread-1] DEBUG n.processor.TaskPollingMonitor - !! executor slurm > tasks to be completed: 4 -- first: TaskHandler[jobId: 9297363; id: 5; name: manta (chr21-3); status: RUNNING; exit: -; workDir: /home/rajohvik/glob/work/3c/e2cfe00d1eeeae5ca7647ba2196183 started: 1481287796026; exited: -; ]
Dec-09 13:51:46.048 [Thread-1] DEBUG n.processor.TaskPollingMonitor - !! executor slurm > tasks to be completed: 4 -- first: TaskHandler[jobId: 9297363; id: 5; name: manta (chr21-3); status: RUNNING; exit: -; workDir: /home/rajohvik/glob/work/3c/e2cfe00d1eeeae5ca7647ba2196183 started: 1481287796026; exited: -; ]
Dec-09 13:51:56.050 [Thread-1] DEBUG n.processor.TaskPollingMonitor - !! executor slurm > tasks to be completed: 4 -- first: TaskHandler[jobId: 9297363; id: 5; name: manta (chr21-3); status: RUNNING; exit: -; workDir: /home/rajohvik/glob/work/3c/e2cfe00d1eeeae5ca7647ba2196183 started: 1481287796026; exited: 2016-12-09T12:51:52Z; ]
Dec-09 13:51:56.071 [Actor Thread 45] DEBUG nextflow.executor.GridTaskHandler - Launching process > mask_vcfs (chr21-3 manta.vcf) -- work folder: /home/rajohvik/glob/work/b4/ae287d4fc5c6423bc620dffdc129be
Dec-09 13:51:56.113 [Actor Thread 45] INFO  nextflow.Session - [b4/ae287d] Submitted process > mask_vcfs (chr21-3 manta.vcf)
Dec-09 13:52:06.051 [Thread-1] DEBUG n.processor.TaskPollingMonitor - !! executor slurm > tasks to be completed: 4 -- first: TaskHandler[jobId: 9297364; id: 1; name: manta (chr21-0); status: SUBMITTED; exit: -; workDir: /home/rajohvik/glob/work/86/fd9142f984449cf56f9c56d0517142 started: -; exited: -; ]
Dec-09 13:52:16.052 [Thread-1] DEBUG n.processor.TaskPollingMonitor - !! executor slurm > tasks to be completed: 4 -- first: TaskHandler[jobId: 9297364; id: 1; name: manta (chr21-0); status: SUBMITTED; exit: -; workDir: /home/rajohvik/glob/work/86/fd9142f984449cf56f9c56d0517142 started: -; exited: -; ]
Dec-09 13:52:26.053 [Thread-1] DEBUG n.processor.TaskPollingMonitor - !! executor slurm > tasks to be completed: 4 -- first: TaskHandler[jobId: 9297364; id: 1; name: manta (chr21-0); status: SUBMITTED; exit: -; workDir: /home/rajohvik/glob/work/86/fd9142f984449cf56f9c56d0517142 started: -; exited: -; ]
Dec-09 13:52:36.054 [Thread-1] DEBUG n.processor.TaskPollingMonitor - !! executor slurm > tasks to be completed: 4 -- first: TaskHandler[jobId: 9297364; id: 1; name: manta (chr21-0); status: SUBMITTED; exit: -; workDir: /home/rajohvik/glob/work/86/fd9142f984449cf56f9c56d0517142 started: -; exited: -; ]
Dec-09 13:52:46.054 [Thread-1] DEBUG n.processor.TaskPollingMonitor - !! executor slurm > tasks to be completed: 4 -- first: TaskHandler[jobId: 9297364; id: 1; name: manta (chr21-0); status: SUBMITTED; exit: -; workDir: /home/rajohvik/glob/work/86/fd9142f984449cf56f9c56d0517142 started: -; exited: -; ]
Dec-09 13:52:56.056 [Thread-1] DEBUG n.processor.TaskPollingMonitor - !! executor slurm > tasks to be completed: 4 -- first: TaskHandler[jobId: 9297364; id: 1; name: manta (chr21-0); status: SUBMITTED; exit: -; workDir: /home/rajohvik/glob/work/86/fd9142f984449cf56f9c56d0517142 started: -; exited: -; ]
Dec-09 13:53:06.058 [Thread-1] DEBUG n.processor.TaskPollingMonitor - !! executor slurm > tasks to be completed: 4 -- first: TaskHandler[jobId: 9297364; id: 1; name: manta (chr21-0); status: SUBMITTED; exit: -; workDir: /home/rajohvik/glob/work/86/fd9142f984449cf56f9c56d0517142 started: -; exited: -; ]
Dec-09 13:53:16.060 [Thread-1] DEBUG n.processor.TaskPollingMonitor - !! executor slurm > tasks to be completed: 4 -- first: TaskHandler[jobId: 9297364; id: 1; name: manta (chr21-0); status: SUBMITTED; exit: -; workDir: /home/rajohvik/glob/work/86/fd9142f984449cf56f9c56d0517142 started: -; exited: -; ]
Dec-09 13:53:26.061 [Thread-1] DEBUG n.processor.TaskPollingMonitor - !! executor slurm > tasks to be completed: 4 -- first: TaskHandler[jobId: 9297364; id: 1; name: manta (chr21-0); status: SUBMITTED; exit: -; workDir: /home/rajohvik/glob/work/86/fd9142f984449cf56f9c56d0517142 started: -; exited: -; ]
Dec-09 13:53:36.062 [Thread-1] DEBUG n.processor.TaskPollingMonitor - !! executor slurm > tasks to be completed: 4 -- first: TaskHandler[jobId: 9297364; id: 1; name: manta (chr21-0); status: RUNNING; exit: -; workDir: /home/rajohvik/glob/work/86/fd9142f984449cf56f9c56d0517142 started: 1481288006062; exited: -; ]
Dec-09 13:53:46.063 [Thread-1] DEBUG n.processor.TaskPollingMonitor - !! executor slurm > tasks to be completed: 4 -- first: TaskHandler[jobId: 9297364; id: 1; name: manta (chr21-0); status: RUNNING; exit: -; workDir: /home/rajohvik/glob/work/86/fd9142f984449cf56f9c56d0517142 started: 1481288006062; exited: -; ]
Dec-09 13:53:56.065 [Thread-1] DEBUG n.processor.TaskPollingMonitor - !! executor slurm > tasks to be completed: 4 -- first: TaskHandler[jobId: 9297364; id: 1; name: manta (chr21-0); status: RUNNING; exit: -; workDir: /home/rajohvik/glob/work/86/fd9142f984449cf56f9c56d0517142 started: 1481288006062; exited: -; ]
Dec-09 13:54:06.066 [Thread-1] DEBUG n.processor.TaskPollingMonitor - !! executor slurm > tasks to be completed: 4 -- first: TaskHandler[jobId: 9297364; id: 1; name: manta (chr21-0); status: RUNNING; exit: -; workDir: /home/rajohvik/glob/work/86/fd9142f984449cf56f9c56d0517142 started: 1481288006062; exited: -; ]
Dec-09 13:54:16.067 [Thread-1] DEBUG n.processor.TaskPollingMonitor - !! executor slurm > tasks to be completed: 4 -- first: TaskHandler[jobId: 9297364; id: 1; name: manta (chr21-0); status: RUNNING; exit: -; workDir: /home/rajohvik/glob/work/86/fd9142f984449cf56f9c56d0517142 started: 1481288006062; exited: -; ]
Dec-09 13:54:26.068 [Thread-1] DEBUG n.processor.TaskPollingMonitor - !! executor slurm > tasks to be completed: 4 -- first: TaskHandler[jobId: 9297364; id: 1; name: manta (chr21-0); status: RUNNING; exit: -; workDir: /home/rajohvik/glob/work/86/fd9142f984449cf56f9c56d0517142 started: 1481288006062; exited: -; ]
Dec-09 13:54:36.069 [Thread-1] DEBUG n.processor.TaskPollingMonitor - !! executor slurm > tasks to be completed: 4 -- first: TaskHandler[jobId: 9297364; id: 1; name: manta (chr21-0); status: RUNNING; exit: -; workDir: /home/rajohvik/glob/work/86/fd9142f984449cf56f9c56d0517142 started: 1481288006062; exited: -; ]
Dec-09 13:54:36.143 [Actor Thread 49] DEBUG nextflow.executor.GridTaskHandler - Launching process > variant_effect_predictor (chr21-3 - manta_masked.vcf) -- work folder: /home/rajohvik/glob/work/24/d891b9d6aa947d48698989095830b3
Dec-09 13:54:37.657 [Actor Thread 49] INFO  nextflow.Session - [24/d891b9] Submitted process > variant_effect_predictor (chr21-3 - manta_masked.vcf)
Dec-09 13:54:46.070 [Thread-1] DEBUG n.processor.TaskPollingMonitor - !! executor slurm > tasks to be completed: 3 -- first: TaskHandler[jobId: 9297364; id: 1; name: manta (chr21-0); status: RUNNING; exit: -; workDir: /home/rajohvik/glob/work/86/fd9142f984449cf56f9c56d0517142 started: 1481288006062; exited: -; ]
Dec-09 13:54:56.072 [Thread-1] DEBUG n.processor.TaskPollingMonitor - !! executor slurm > tasks to be completed: 3 -- first: TaskHandler[jobId: 9297364; id: 1; name: manta (chr21-0); status: RUNNING; exit: -; workDir: /home/rajohvik/glob/work/86/fd9142f984449cf56f9c56d0517142 started: 1481288006062; exited: -; ]
Dec-09 13:55:06.074 [Thread-1] DEBUG n.processor.TaskPollingMonitor - !! executor slurm > tasks to be completed: 3 -- first: TaskHandler[jobId: 9297364; id: 1; name: manta (chr21-0); status: RUNNING; exit: -; workDir: /home/rajohvik/glob/work/86/fd9142f984449cf56f9c56d0517142 started: 1481288006062; exited: -; ]
Dec-09 13:55:16.077 [Thread-1] DEBUG n.processor.TaskPollingMonitor - !! executor slurm > tasks to be completed: 3 -- first: TaskHandler[jobId: 9297364; id: 1; name: manta (chr21-0); status: RUNNING; exit: -; workDir: /home/rajohvik/glob/work/86/fd9142f984449cf56f9c56d0517142 started: 1481288006062; exited: -; ]
Dec-09 13:55:26.079 [Thread-1] DEBUG n.processor.TaskPollingMonitor - !! executor slurm > tasks to be completed: 3 -- first: TaskHandler[jobId: 9297364; id: 1; name: manta (chr21-0); status: RUNNING; exit: -; workDir: /home/rajohvik/glob/work/86/fd9142f984449cf56f9c56d0517142 started: 1481288006062; exited: -; ]
Dec-09 13:55:36.082 [Thread-1] DEBUG n.processor.TaskPollingMonitor - !! executor slurm > tasks to be completed: 3 -- first: TaskHandler[jobId: 9297364; id: 1; name: manta (chr21-0); status: RUNNING; exit: -; workDir: /home/rajohvik/glob/work/86/fd9142f984449cf56f9c56d0517142 started: 1481288006062; exited: -; ]
Dec-09 13:55:46.084 [Thread-1] DEBUG n.processor.TaskPollingMonitor - !! executor slurm > tasks to be completed: 3 -- first: TaskHandler[jobId: 9297364; id: 1; name: manta (chr21-0); status: RUNNING; exit: -; workDir: /home/rajohvik/glob/work/86/fd9142f984449cf56f9c56d0517142 started: 1481288006062; exited: -; ]
Dec-09 13:55:56.085 [Thread-1] DEBUG n.processor.TaskPollingMonitor - !! executor slurm > tasks to be completed: 3 -- first: TaskHandler[jobId: 9297364; id: 1; name: manta (chr21-0); status: RUNNING; exit: -; workDir: /home/rajohvik/glob/work/86/fd9142f984449cf56f9c56d0517142 started: 1481288006062; exited: -; ]
Dec-09 13:56:06.086 [Thread-1] DEBUG n.processor.TaskPollingMonitor - !! executor slurm > tasks to be completed: 3 -- first: TaskHandler[jobId: 9297364; id: 1; name: manta (chr21-0); status: RUNNING; exit: -; workDir: /home/rajohvik/glob/work/86/fd9142f984449cf56f9c56d0517142 started: 1481288006062; exited: -; ]
Dec-09 13:56:16.087 [Thread-1] DEBUG n.processor.TaskPollingMonitor - !! executor slurm > tasks to be completed: 3 -- first: TaskHandler[jobId: 9297364; id: 1; name: manta (chr21-0); status: RUNNING; exit: -; workDir: /home/rajohvik/glob/work/86/fd9142f984449cf56f9c56d0517142 started: 1481288006062; exited: -; ]
Dec-09 13:56:26.088 [Thread-1] DEBUG n.processor.TaskPollingMonitor - !! executor slurm > tasks to be completed: 3 -- first: TaskHandler[jobId: 9297364; id: 1; name: manta (chr21-0); status: RUNNING; exit: -; workDir: /home/rajohvik/glob/work/86/fd9142f984449cf56f9c56d0517142 started: 1481288006062; exited: -; ]
Dec-09 13:56:36.091 [Thread-1] DEBUG n.processor.TaskPollingMonitor - !! executor slurm > tasks to be completed: 3 -- first: TaskHandler[jobId: 9297364; id: 1; name: manta (chr21-0); status: RUNNING; exit: -; workDir: /home/rajohvik/glob/work/86/fd9142f984449cf56f9c56d0517142 started: 1481288006062; exited: -; ]
Dec-09 13:56:46.092 [Thread-1] DEBUG n.processor.TaskPollingMonitor - !! executor slurm > tasks to be completed: 3 -- first: TaskHandler[jobId: 9297364; id: 1; name: manta (chr21-0); status: RUNNING; exit: -; workDir: /home/rajohvik/glob/work/86/fd9142f984449cf56f9c56d0517142 started: 1481288006062; exited: -; ]
Dec-09 13:56:56.093 [Thread-1] DEBUG n.processor.TaskPollingMonitor - !! executor slurm > tasks to be completed: 3 -- first: TaskHandler[jobId: 9297364; id: 1; name: manta (chr21-0); status: RUNNING; exit: -; workDir: /home/rajohvik/glob/work/86/fd9142f984449cf56f9c56d0517142 started: 1481288006062; exited: -; ]
Dec-09 13:57:06.095 [Thread-1] DEBUG n.processor.TaskPollingMonitor - !! executor slurm > tasks to be completed: 3 -- first: TaskHandler[jobId: 9297364; id: 1; name: manta (chr21-0); status: RUNNING; exit: -; workDir: /home/rajohvik/glob/work/86/fd9142f984449cf56f9c56d0517142 started: 1481288006062; exited: -; ]
Dec-09 13:57:16.096 [Thread-1] DEBUG n.processor.TaskPollingMonitor - !! executor slurm > tasks to be completed: 3 -- first: TaskHandler[jobId: 9297364; id: 1; name: manta (chr21-0); status: RUNNING; exit: -; workDir: /home/rajohvik/glob/work/86/fd9142f984449cf56f9c56d0517142 started: 1481288006062; exited: -; ]
Dec-09 13:57:26.097 [Thread-1] DEBUG n.processor.TaskPollingMonitor - !! executor slurm > tasks to be completed: 3 -- first: TaskHandler[jobId: 9297364; id: 1; name: manta (chr21-0); status: RUNNING; exit: -; workDir: /home/rajohvik/glob/work/86/fd9142f984449cf56f9c56d0517142 started: 1481288006062; exited: -; ]
Dec-09 13:57:36.099 [Thread-1] DEBUG n.processor.TaskPollingMonitor - !! executor slurm > tasks to be completed: 2 -- first: TaskHandler[jobId: 9297364; id: 1; name: manta (chr21-0); status: RUNNING; exit: -; workDir: /home/rajohvik/glob/work/86/fd9142f984449cf56f9c56d0517142 started: 1481288006062; exited: -; ]
Dec-09 13:57:46.100 [Thread-1] DEBUG n.processor.TaskPollingMonitor - !! executor slurm > tasks to be completed: 2 -- first: TaskHandler[jobId: 9297364; id: 1; name: manta (chr21-0); status: RUNNING; exit: -; workDir: /home/rajohvik/glob/work/86/fd9142f984449cf56f9c56d0517142 started: 1481288006062; exited: -; ]
Dec-09 13:57:56.103 [Thread-1] DEBUG n.processor.TaskPollingMonitor - !! executor slurm > tasks to be completed: 2 -- first: TaskHandler[jobId: 9297364; id: 1; name: manta (chr21-0); status: RUNNING; exit: -; workDir: /home/rajohvik/glob/work/86/fd9142f984449cf56f9c56d0517142 started: 1481288006062; exited: -; ]
Dec-09 13:58:06.104 [Thread-1] DEBUG n.processor.TaskPollingMonitor - !! executor slurm > tasks to be completed: 2 -- first: TaskHandler[jobId: 9297364; id: 1; name: manta (chr21-0); status: RUNNING; exit: -; workDir: /home/rajohvik/glob/work/86/fd9142f984449cf56f9c56d0517142 started: 1481288006062; exited: -; ]
Dec-09 13:58:06.121 [Actor Thread 53] DEBUG nextflow.executor.GridTaskHandler - Launching process > mask_vcfs (chr21-4 manta.vcf) -- work folder: /home/rajohvik/glob/work/8b/f57c5ef785fe31c183e4dae4327684
Dec-09 13:58:06.153 [Actor Thread 53] INFO  nextflow.Session - [8b/f57c5e] Submitted process > mask_vcfs (chr21-4 manta.vcf)
Dec-09 13:58:16.105 [Thread-1] DEBUG n.processor.TaskPollingMonitor - !! executor slurm > tasks to be completed: 2 -- first: TaskHandler[jobId: 9297364; id: 1; name: manta (chr21-0); status: RUNNING; exit: -; workDir: /home/rajohvik/glob/work/86/fd9142f984449cf56f9c56d0517142 started: 1481288006062; exited: -; ]
Dec-09 13:58:26.107 [Thread-1] DEBUG n.processor.TaskPollingMonitor - !! executor slurm > tasks to be completed: 2 -- first: TaskHandler[jobId: 9297364; id: 1; name: manta (chr21-0); status: RUNNING; exit: -; workDir: /home/rajohvik/glob/work/86/fd9142f984449cf56f9c56d0517142 started: 1481288006062; exited: 2016-12-09T12:58:19Z; ]
Dec-09 13:58:26.119 [Actor Thread 55] DEBUG nextflow.executor.GridTaskHandler - Launching process > mask_vcfs (chr21-0 manta.vcf) -- work folder: /home/rajohvik/glob/work/97/31f4de2e5d80019855d25a2486d1c0
Dec-09 13:58:26.126 [Actor Thread 54] DEBUG nextflow.processor.TaskProcessor - <manta> Sending poison pills and terminating process
Dec-09 13:58:26.126 [Actor Thread 54] DEBUG nextflow.Session - <<< barrier arrive (process: manta)
Dec-09 13:58:26.127 [Actor Thread 53] DEBUG nextflow.processor.TaskProcessor - <mask_vcfs> Poison pill arrived
Dec-09 13:58:26.127 [Actor Thread 54] DEBUG nextflow.processor.StateObj - <mask_vcfs> State before poison: StateObj[submitted: 7; completed: 5; poisoned: false ]
Dec-09 13:58:26.158 [Actor Thread 55] INFO  nextflow.Session - [97/31f4de] Submitted process > mask_vcfs (chr21-0 manta.vcf)
Dec-09 13:58:26.158 [Actor Thread 53] DEBUG nextflow.processor.TaskProcessor - <mask_vcfs> After stop
Dec-09 13:58:36.109 [Thread-1] DEBUG n.processor.TaskPollingMonitor - !! executor slurm > tasks to be completed: 2 -- first: TaskHandler[jobId: 9297930; id: 30; name: mask_vcfs (chr21-4 manta.vcf); status: SUBMITTED; exit: -; workDir: /home/rajohvik/glob/work/8b/f57c5ef785fe31c183e4dae4327684 started: -; exited: -; ]
Dec-09 13:58:46.110 [Thread-1] DEBUG n.processor.TaskPollingMonitor - !! executor slurm > tasks to be completed: 2 -- first: TaskHandler[jobId: 9297930; id: 30; name: mask_vcfs (chr21-4 manta.vcf); status: SUBMITTED; exit: -; workDir: /home/rajohvik/glob/work/8b/f57c5ef785fe31c183e4dae4327684 started: -; exited: -; ]
Dec-09 13:58:56.111 [Thread-1] DEBUG n.processor.TaskPollingMonitor - !! executor slurm > tasks to be completed: 2 -- first: TaskHandler[jobId: 9297930; id: 30; name: mask_vcfs (chr21-4 manta.vcf); status: SUBMITTED; exit: -; workDir: /home/rajohvik/glob/work/8b/f57c5ef785fe31c183e4dae4327684 started: -; exited: -; ]
Dec-09 13:59:06.113 [Thread-1] DEBUG n.processor.TaskPollingMonitor - !! executor slurm > tasks to be completed: 2 -- first: TaskHandler[jobId: 9297930; id: 30; name: mask_vcfs (chr21-4 manta.vcf); status: SUBMITTED; exit: -; workDir: /home/rajohvik/glob/work/8b/f57c5ef785fe31c183e4dae4327684 started: -; exited: -; ]
Dec-09 13:59:16.115 [Thread-1] DEBUG n.processor.TaskPollingMonitor - !! executor slurm > tasks to be completed: 2 -- first: TaskHandler[jobId: 9297930; id: 30; name: mask_vcfs (chr21-4 manta.vcf); status: SUBMITTED; exit: -; workDir: /home/rajohvik/glob/work/8b/f57c5ef785fe31c183e4dae4327684 started: -; exited: -; ]
Dec-09 13:59:26.116 [Thread-1] DEBUG n.processor.TaskPollingMonitor - !! executor slurm > tasks to be completed: 2 -- first: TaskHandler[jobId: 9297930; id: 30; name: mask_vcfs (chr21-4 manta.vcf); status: SUBMITTED; exit: -; workDir: /home/rajohvik/glob/work/8b/f57c5ef785fe31c183e4dae4327684 started: -; exited: -; ]
Dec-09 13:59:36.117 [Thread-1] DEBUG n.processor.TaskPollingMonitor - !! executor slurm > tasks to be completed: 2 -- first: TaskHandler[jobId: 9297930; id: 30; name: mask_vcfs (chr21-4 manta.vcf); status: SUBMITTED; exit: -; workDir: /home/rajohvik/glob/work/8b/f57c5ef785fe31c183e4dae4327684 started: -; exited: -; ]
Dec-09 13:59:46.118 [Thread-1] DEBUG n.processor.TaskPollingMonitor - !! executor slurm > tasks to be completed: 2 -- first: TaskHandler[jobId: 9297930; id: 30; name: mask_vcfs (chr21-4 manta.vcf); status: SUBMITTED; exit: -; workDir: /home/rajohvik/glob/work/8b/f57c5ef785fe31c183e4dae4327684 started: -; exited: -; ]
Dec-09 13:59:56.119 [Thread-1] DEBUG n.processor.TaskPollingMonitor - !! executor slurm > tasks to be completed: 2 -- first: TaskHandler[jobId: 9297930; id: 30; name: mask_vcfs (chr21-4 manta.vcf); status: SUBMITTED; exit: -; workDir: /home/rajohvik/glob/work/8b/f57c5ef785fe31c183e4dae4327684 started: -; exited: -; ]
Dec-09 14:00:06.121 [Thread-1] DEBUG n.processor.TaskPollingMonitor - !! executor slurm > tasks to be completed: 2 -- first: TaskHandler[jobId: 9297930; id: 30; name: mask_vcfs (chr21-4 manta.vcf); status: RUNNING; exit: -; workDir: /home/rajohvik/glob/work/8b/f57c5ef785fe31c183e4dae4327684 started: 1481288396120; exited: 2016-12-09T13:00:01Z; ]
Dec-09 14:00:06.400 [Actor Thread 60] DEBUG nextflow.executor.GridTaskHandler - Launching process > variant_effect_predictor (chr21-4 - manta_masked.vcf) -- work folder: /home/rajohvik/glob/work/53/7f72fa20cf1cdb9493a46d55a9371a
Dec-09 14:00:07.766 [Actor Thread 60] INFO  nextflow.Session - [53/7f72fa] Submitted process > variant_effect_predictor (chr21-4 - manta_masked.vcf)
Dec-09 14:00:16.374 [Thread-1] DEBUG n.processor.TaskPollingMonitor - !! executor slurm > tasks to be completed: 2 -- first: TaskHandler[jobId: 9297931; id: 31; name: mask_vcfs (chr21-0 manta.vcf); status: SUBMITTED; exit: -; workDir: /home/rajohvik/glob/work/97/31f4de2e5d80019855d25a2486d1c0 started: -; exited: -; ]
Dec-09 14:00:26.376 [Thread-1] DEBUG n.processor.TaskPollingMonitor - !! executor slurm > tasks to be completed: 2 -- first: TaskHandler[jobId: 9297931; id: 31; name: mask_vcfs (chr21-0 manta.vcf); status: SUBMITTED; exit: -; workDir: /home/rajohvik/glob/work/97/31f4de2e5d80019855d25a2486d1c0 started: -; exited: -; ]
Dec-09 14:00:36.384 [Thread-1] DEBUG n.processor.TaskPollingMonitor - !! executor slurm > tasks to be completed: 2 -- first: TaskHandler[jobId: 9297931; id: 31; name: mask_vcfs (chr21-0 manta.vcf); status: SUBMITTED; exit: -; workDir: /home/rajohvik/glob/work/97/31f4de2e5d80019855d25a2486d1c0 started: -; exited: 2016-12-09T13:00:34Z; ]
Dec-09 14:00:36.407 [Actor Thread 58] DEBUG nextflow.processor.TaskProcessor - <mask_vcfs> Sending poison pills and terminating process
Dec-09 14:00:36.407 [Actor Thread 58] DEBUG nextflow.Session - <<< barrier arrive (process: mask_vcfs)
Dec-09 14:00:36.410 [Actor Thread 66] DEBUG nextflow.processor.TaskProcessor - <intersect_files> Poison pill arrived
Dec-09 14:00:36.411 [Actor Thread 67] DEBUG nextflow.processor.StateObj - <intersect_files> State before poison: StateObj[submitted: 0; completed: 0; poisoned: false ]
Dec-09 14:00:36.411 [Actor Thread 66] DEBUG nextflow.processor.TaskProcessor - <intersect_files> After stop
Dec-09 14:00:36.411 [Actor Thread 67] DEBUG nextflow.processor.TaskProcessor - <intersect_files> Sending poison pills and terminating process
Dec-09 14:00:36.411 [Actor Thread 67] DEBUG nextflow.Session - <<< barrier arrive (process: intersect_files)
Dec-09 14:00:36.411 [Actor Thread 66] DEBUG nextflow.processor.TaskProcessor - <snpEff> Poison pill arrived
Dec-09 14:00:36.411 [Actor Thread 68] DEBUG nextflow.processor.TaskProcessor - <variant_effect_predictor> Poison pill arrived
Dec-09 14:00:36.411 [Actor Thread 66] DEBUG nextflow.processor.TaskProcessor - <snpEff> After stop
Dec-09 14:00:36.411 [Actor Thread 67] DEBUG nextflow.processor.StateObj - <snpEff> State before poison: StateObj[submitted: 7; completed: 7; poisoned: false ]
Dec-09 14:00:36.412 [Actor Thread 58] DEBUG nextflow.processor.StateObj - <variant_effect_predictor> State before poison: StateObj[submitted: 7; completed: 5; poisoned: false ]
Dec-09 14:00:36.412 [Actor Thread 67] DEBUG nextflow.processor.TaskProcessor - <snpEff> Sending poison pills and terminating process
Dec-09 14:00:36.412 [Actor Thread 67] DEBUG nextflow.Session - <<< barrier arrive (process: snpEff)
Dec-09 14:00:36.415 [Actor Thread 64] DEBUG nextflow.executor.GridTaskHandler - Launching process > variant_effect_predictor (chr21-0 - manta_masked.vcf) -- work folder: /home/rajohvik/glob/work/34/bb32144a5bc083a49043412e2c744e
Dec-09 14:00:37.706 [Actor Thread 64] INFO  nextflow.Session - [34/bb3214] Submitted process > variant_effect_predictor (chr21-0 - manta_masked.vcf)
Dec-09 14:00:37.707 [Actor Thread 68] DEBUG nextflow.processor.TaskProcessor - <variant_effect_predictor> After stop
Dec-09 14:00:46.387 [Thread-1] DEBUG n.processor.TaskPollingMonitor - !! executor slurm > tasks to be completed: 2 -- first: TaskHandler[jobId: 9297932; id: 33; name: variant_effect_predictor (chr21-4 - manta_masked.vcf); status: SUBMITTED; exit: -; workDir: /home/rajohvik/glob/work/53/7f72fa20cf1cdb9493a46d55a9371a started: -; exited: -; ]
Dec-09 14:00:56.415 [Thread-1] DEBUG n.processor.TaskPollingMonitor - !! executor slurm > tasks to be completed: 2 -- first: TaskHandler[jobId: 9297932; id: 33; name: variant_effect_predictor (chr21-4 - manta_masked.vcf); status: SUBMITTED; exit: -; workDir: /home/rajohvik/glob/work/53/7f72fa20cf1cdb9493a46d55a9371a started: -; exited: -; ]
Dec-09 14:01:06.416 [Thread-1] DEBUG n.processor.TaskPollingMonitor - !! executor slurm > tasks to be completed: 2 -- first: TaskHandler[jobId: 9297932; id: 33; name: variant_effect_predictor (chr21-4 - manta_masked.vcf); status: SUBMITTED; exit: -; workDir: /home/rajohvik/glob/work/53/7f72fa20cf1cdb9493a46d55a9371a started: -; exited: -; ]
Dec-09 14:01:16.446 [Thread-1] DEBUG n.processor.TaskPollingMonitor - !! executor slurm > tasks to be completed: 1 -- first: TaskHandler[jobId: 9297932; id: 33; name: variant_effect_predictor (chr21-4 - manta_masked.vcf); status: SUBMITTED; exit: -; workDir: /home/rajohvik/glob/work/53/7f72fa20cf1cdb9493a46d55a9371a started: -; exited: -; ]
Dec-09 14:01:26.774 [Thread-1] DEBUG n.processor.TaskPollingMonitor - !! executor slurm > tasks to be completed: 1 -- first: TaskHandler[jobId: 9297932; id: 33; name: variant_effect_predictor (chr21-4 - manta_masked.vcf); status: SUBMITTED; exit: -; workDir: /home/rajohvik/glob/work/53/7f72fa20cf1cdb9493a46d55a9371a started: -; exited: -; ]
Dec-09 14:01:36.851 [Thread-1] DEBUG n.processor.TaskPollingMonitor - !! executor slurm > tasks to be completed: 1 -- first: TaskHandler[jobId: 9297932; id: 33; name: variant_effect_predictor (chr21-4 - manta_masked.vcf); status: SUBMITTED; exit: -; workDir: /home/rajohvik/glob/work/53/7f72fa20cf1cdb9493a46d55a9371a started: -; exited: -; ]
Dec-09 14:01:46.854 [Thread-1] DEBUG n.processor.TaskPollingMonitor - !! executor slurm > tasks to be completed: 1 -- first: TaskHandler[jobId: 9297932; id: 33; name: variant_effect_predictor (chr21-4 - manta_masked.vcf); status: SUBMITTED; exit: -; workDir: /home/rajohvik/glob/work/53/7f72fa20cf1cdb9493a46d55a9371a started: -; exited: -; ]
Dec-09 14:01:56.863 [Thread-1] DEBUG n.processor.TaskPollingMonitor - !! executor slurm > tasks to be completed: 1 -- first: TaskHandler[jobId: 9297932; id: 33; name: variant_effect_predictor (chr21-4 - manta_masked.vcf); status: SUBMITTED; exit: -; workDir: /home/rajohvik/glob/work/53/7f72fa20cf1cdb9493a46d55a9371a started: -; exited: -; ]
Dec-09 14:02:06.879 [Thread-1] DEBUG n.processor.TaskPollingMonitor - !! executor slurm > tasks to be completed: 1 -- first: TaskHandler[jobId: 9297932; id: 33; name: variant_effect_predictor (chr21-4 - manta_masked.vcf); status: RUNNING; exit: -; workDir: /home/rajohvik/glob/work/53/7f72fa20cf1cdb9493a46d55a9371a started: 1481288516864; exited: 2016-12-09T13:02:02Z; ]
Dec-09 14:02:06.949 [Actor Thread 69] DEBUG nextflow.processor.TaskProcessor - <variant_effect_predictor> Sending poison pills and terminating process
Dec-09 14:02:06.949 [Actor Thread 69] DEBUG nextflow.Session - <<< barrier arrive (process: variant_effect_predictor)
Dec-09 14:02:16.881 [Thread-1] DEBUG n.processor.TaskPollingMonitor - !! executor slurm > tasks to be completed: 0 -- first: null
Dec-09 14:02:26.882 [Thread-1] DEBUG n.processor.TaskPollingMonitor - !! executor slurm > tasks to be completed: 0 -- first: null
Dec-09 14:02:36.883 [Thread-1] DEBUG n.processor.TaskPollingMonitor - !! executor slurm > tasks to be completed: 0 -- first: null
Dec-09 14:02:56.884 [Thread-1] DEBUG n.processor.TaskPollingMonitor - !! executor slurm > tasks to be completed: 0 -- first: null
Dec-09 14:03:06.884 [Thread-1] DEBUG n.processor.TaskPollingMonitor - !! executor slurm > tasks to be completed: 0 -- first: null
Dec-09 14:03:16.885 [Thread-1] DEBUG n.processor.TaskPollingMonitor - !! executor slurm > tasks to be completed: 0 -- first: null
Dec-09 14:03:36.885 [Thread-1] DEBUG n.processor.TaskPollingMonitor - !! executor slurm > tasks to be completed: 0 -- first: null
Dec-09 14:03:46.886 [Thread-1] DEBUG n.processor.TaskPollingMonitor - !! executor slurm > tasks to be completed: 0 -- first: null
Dec-09 14:04:06.887 [Thread-1] DEBUG n.processor.TaskPollingMonitor - !! executor slurm > tasks to be completed: 0 -- first: null
Dec-09 14:04:26.888 [Thread-1] DEBUG n.processor.TaskPollingMonitor - !! executor slurm > tasks to be completed: 0 -- first: null
Dec-09 14:04:46.888 [Thread-1] DEBUG n.processor.TaskPollingMonitor - !! executor slurm > tasks to be completed: 0 -- first: null
Dec-09 14:04:56.889 [Thread-1] DEBUG n.processor.TaskPollingMonitor - !! executor slurm > tasks to be completed: 0 -- first: null
Dec-09 14:05:16.890 [Thread-1] DEBUG n.processor.TaskPollingMonitor - !! executor slurm > tasks to be completed: 0 -- first: null
Dec-09 14:05:36.890 [Thread-1] DEBUG n.processor.TaskPollingMonitor - !! executor slurm > tasks to be completed: 0 -- first: null
Dec-09 14:05:46.891 [Thread-1] DEBUG n.processor.TaskPollingMonitor - !! executor slurm > tasks to be completed: 0 -- first: null
Dec-09 14:05:56.892 [Thread-1] DEBUG n.processor.TaskPollingMonitor - !! executor slurm > tasks to be completed: 0 -- first: null
Dec-09 14:06:06.893 [Thread-1] DEBUG n.processor.TaskPollingMonitor - !! executor slurm > tasks to be completed: 0 -- first: null
Dec-09 14:06:26.894 [Thread-1] DEBUG n.processor.TaskPollingMonitor - !! executor slurm > tasks to be completed: 0 -- first: null
Dec-09 14:06:46.894 [Thread-1] DEBUG n.processor.TaskPollingMonitor - !! executor slurm > tasks to be completed: 0 -- first: null
Dec-09 14:06:56.895 [Thread-1] DEBUG n.processor.TaskPollingMonitor - !! executor slurm > tasks to be completed: 0 -- first: null
Dec-09 14:07:16.896 [Thread-1] DEBUG n.processor.TaskPollingMonitor - !! executor slurm > tasks to be completed: 0 -- first: null
Dec-09 14:07:36.896 [Thread-1] DEBUG n.processor.TaskPollingMonitor - !! executor slurm > tasks to be completed: 0 -- first: null
Dec-09 14:07:46.897 [Thread-1] DEBUG n.processor.TaskPollingMonitor - !! executor slurm > tasks to be completed: 0 -- first: null
Dec-09 14:08:06.898 [Thread-1] DEBUG n.processor.TaskPollingMonitor - !! executor slurm > tasks to be completed: 0 -- first: null
Dec-09 14:08:26.898 [Thread-1] DEBUG n.processor.TaskPollingMonitor - !! executor slurm > tasks to be completed: 0 -- first: null
Dec-09 14:08:36.899 [Thread-1] DEBUG n.processor.TaskPollingMonitor - !! executor slurm > tasks to be completed: 0 -- first: null
Dec-09 14:08:56.900 [Thread-1] DEBUG n.processor.TaskPollingMonitor - !! executor slurm > tasks to be completed: 0 -- first: null
Dec-09 14:09:16.900 [Thread-1] DEBUG n.processor.TaskPollingMonitor - !! executor slurm > tasks to be completed: 0 -- first: null
Dec-09 14:09:36.901 [Thread-1] DEBUG n.processor.TaskPollingMonitor - !! executor slurm > tasks to be completed: 0 -- first: null
Dec-09 14:09:56.902 [Thread-1] DEBUG n.processor.TaskPollingMonitor - !! executor slurm > tasks to be completed: 0 -- first: null
Dec-09 14:10:06.903 [Thread-1] DEBUG n.processor.TaskPollingMonitor - !! executor slurm > tasks to be completed: 0 -- first: null
Dec-09 14:10:26.903 [Thread-1] DEBUG n.processor.TaskPollingMonitor - !! executor slurm > tasks to be completed: 0 -- first: null
Dec-09 14:10:36.904 [Thread-1] DEBUG n.processor.TaskPollingMonitor - !! executor slurm > tasks to be completed: 0 -- first: null
Dec-09 14:10:56.905 [Thread-1] DEBUG n.processor.TaskPollingMonitor - !! executor slurm > tasks to be completed: 0 -- first: null
Dec-09 14:11:06.905 [Thread-1] DEBUG n.processor.TaskPollingMonitor - !! executor slurm > tasks to be completed: 0 -- first: null
Dec-09 14:11:26.906 [Thread-1] DEBUG n.processor.TaskPollingMonitor - !! executor slurm > tasks to be completed: 0 -- first: null
Dec-09 14:11:46.906 [Thread-1] DEBUG n.processor.TaskPollingMonitor - !! executor slurm > tasks to be completed: 0 -- first: null
Dec-09 14:11:56.907 [Thread-1] DEBUG n.processor.TaskPollingMonitor - !! executor slurm > tasks to be completed: 0 -- first: null
Dec-09 14:12:16.908 [Thread-1] DEBUG n.processor.TaskPollingMonitor - !! executor slurm > tasks to be completed: 0 -- first: null
Dec-09 14:12:26.908 [Thread-1] DEBUG n.processor.TaskPollingMonitor - !! executor slurm > tasks to be completed: 0 -- first: null
Dec-09 14:12:36.909 [Thread-1] DEBUG n.processor.TaskPollingMonitor - !! executor slurm > tasks to be completed: 0 -- first: null
Dec-09 14:12:56.909 [Thread-1] DEBUG n.processor.TaskPollingMonitor - !! executor slurm > tasks to be completed: 0 -- first: null
Dec-09 14:13:06.910 [Thread-1] DEBUG n.processor.TaskPollingMonitor - !! executor slurm > tasks to be completed: 0 -- first: null
Dec-09 14:13:26.911 [Thread-1] DEBUG n.processor.TaskPollingMonitor - !! executor slurm > tasks to be completed: 0 -- first: null
Dec-09 14:13:46.911 [Thread-1] DEBUG n.processor.TaskPollingMonitor - !! executor slurm > tasks to be completed: 0 -- first: null
Dec-09 14:13:56.913 [Thread-1] DEBUG n.processor.TaskPollingMonitor - !! executor slurm > tasks to be completed: 0 -- first: null
Dec-09 14:14:16.914 [Thread-1] DEBUG n.processor.TaskPollingMonitor - !! executor slurm > tasks to be completed: 0 -- first: null
Dec-09 14:14:26.914 [Thread-1] DEBUG n.processor.TaskPollingMonitor - !! executor slurm > tasks to be completed: 0 -- first: null
Dec-09 14:14:36.915 [Thread-1] DEBUG n.processor.TaskPollingMonitor - !! executor slurm > tasks to be completed: 0 -- first: null
Dec-09 14:14:56.915 [Thread-1] DEBUG n.processor.TaskPollingMonitor - !! executor slurm > tasks to be completed: 0 -- first: null
Dec-09 14:15:16.915 [Thread-1] DEBUG n.processor.TaskPollingMonitor - !! executor slurm > tasks to be completed: 0 -- first: null
Dec-09 14:15:36.916 [Thread-1] DEBUG n.processor.TaskPollingMonitor - !! executor slurm > tasks to be completed: 0 -- first: null
Dec-09 14:15:56.916 [Thread-1] DEBUG n.processor.TaskPollingMonitor - !! executor slurm > tasks to be completed: 0 -- first: null
Dec-09 14:16:06.917 [Thread-1] DEBUG n.processor.TaskPollingMonitor - !! executor slurm > tasks to be completed: 0 -- first: null
Dec-09 14:16:26.917 [Thread-1] DEBUG n.processor.TaskPollingMonitor - !! executor slurm > tasks to be completed: 0 -- first: null
Dec-09 14:16:36.918 [Thread-1] DEBUG n.processor.TaskPollingMonitor - !! executor slurm > tasks to be completed: 0 -- first: null
Dec-09 14:16:56.919 [Thread-1] DEBUG n.processor.TaskPollingMonitor - !! executor slurm > tasks to be completed: 0 -- first: null
Dec-09 14:17:16.919 [Thread-1] DEBUG n.processor.TaskPollingMonitor - !! executor slurm > tasks to be completed: 0 -- first: null
Dec-09 14:17:26.920 [Thread-1] DEBUG n.processor.TaskPollingMonitor - !! executor slurm > tasks to be completed: 0 -- first: null
Dec-09 14:17:46.921 [Thread-1] DEBUG n.processor.TaskPollingMonitor - !! executor slurm > tasks to be completed: 0 -- first: null
Dec-09 14:18:06.921 [Thread-1] DEBUG n.processor.TaskPollingMonitor - !! executor slurm > tasks to be completed: 0 -- first: null
Dec-09 14:18:16.922 [Thread-1] DEBUG n.processor.TaskPollingMonitor - !! executor slurm > tasks to be completed: 0 -- first: null
Dec-09 14:18:36.922 [Thread-1] DEBUG n.processor.TaskPollingMonitor - !! executor slurm > tasks to be completed: 0 -- first: null
Dec-09 14:18:56.922 [Thread-1] DEBUG n.processor.TaskPollingMonitor - !! executor slurm > tasks to be completed: 0 -- first: null
Dec-09 14:19:06.923 [Thread-1] DEBUG n.processor.TaskPollingMonitor - !! executor slurm > tasks to be completed: 0 -- first: null
Dec-09 14:19:16.924 [Thread-1] DEBUG n.processor.TaskPollingMonitor - !! executor slurm > tasks to be completed: 0 -- first: null
Dec-09 14:19:36.924 [Thread-1] DEBUG n.processor.TaskPollingMonitor - !! executor slurm > tasks to be completed: 0 -- first: null
Dec-09 14:19:56.924 [Thread-1] DEBUG n.processor.TaskPollingMonitor - !! executor slurm > tasks to be completed: 0 -- first: null
Dec-09 14:20:16.925 [Thread-1] DEBUG n.processor.TaskPollingMonitor - !! executor slurm > tasks to be completed: 0 -- first: null
Dec-09 14:20:36.926 [Thread-1] DEBUG n.processor.TaskPollingMonitor - !! executor slurm > tasks to be completed: 0 -- first: null
Dec-09 14:20:56.926 [Thread-1] DEBUG n.processor.TaskPollingMonitor - !! executor slurm > tasks to be completed: 0 -- first: null
Dec-09 14:21:06.927 [Thread-1] DEBUG n.processor.TaskPollingMonitor - !! executor slurm > tasks to be completed: 0 -- first: null
Dec-09 14:21:26.928 [Thread-1] DEBUG n.processor.TaskPollingMonitor - !! executor slurm > tasks to be completed: 0 -- first: null
Dec-09 14:21:36.929 [Thread-1] DEBUG n.processor.TaskPollingMonitor - !! executor slurm > tasks to be completed: 0 -- first: null
Dec-09 14:21:46.930 [Thread-1] DEBUG n.processor.TaskPollingMonitor - !! executor slurm > tasks to be completed: 0 -- first: null
Dec-09 14:22:06.931 [Thread-1] DEBUG n.processor.TaskPollingMonitor - !! executor slurm > tasks to be completed: 0 -- first: null
Dec-09 14:22:16.931 [Thread-1] DEBUG n.processor.TaskPollingMonitor - !! executor slurm > tasks to be completed: 0 -- first: null
Dec-09 14:22:26.932 [Thread-1] DEBUG n.processor.TaskPollingMonitor - !! executor slurm > tasks to be completed: 0 -- first: null
Dec-09 14:22:46.933 [Thread-1] DEBUG n.processor.TaskPollingMonitor - !! executor slurm > tasks to be completed: 0 -- first: null
Dec-09 14:23:06.933 [Thread-1] DEBUG n.processor.TaskPollingMonitor - !! executor slurm > tasks to be completed: 0 -- first: null
Dec-09 14:23:16.934 [Thread-1] DEBUG n.processor.TaskPollingMonitor - !! executor slurm > tasks to be completed: 0 -- first: null
Dec-09 14:23:36.935 [Thread-1] DEBUG n.processor.TaskPollingMonitor - !! executor slurm > tasks to be completed: 0 -- first: null
Dec-09 14:23:56.935 [Thread-1] DEBUG n.processor.TaskPollingMonitor - !! executor slurm > tasks to be completed: 0 -- first: null
Dec-09 14:24:06.936 [Thread-1] DEBUG n.processor.TaskPollingMonitor - !! executor slurm > tasks to be completed: 0 -- first: null
Dec-09 14:24:26.936 [Thread-1] DEBUG n.processor.TaskPollingMonitor - !! executor slurm > tasks to be completed: 0 -- first: null
Dec-09 14:24:36.937 [Thread-1] DEBUG n.processor.TaskPollingMonitor - !! executor slurm > tasks to be completed: 0 -- first: null
Dec-09 14:24:56.937 [Thread-1] DEBUG n.processor.TaskPollingMonitor - !! executor slurm > tasks to be completed: 0 -- first: null
Dec-09 14:25:16.937 [Thread-1] DEBUG n.processor.TaskPollingMonitor - !! executor slurm > tasks to be completed: 0 -- first: null
Dec-09 14:25:26.938 [Thread-1] DEBUG n.processor.TaskPollingMonitor - !! executor slurm > tasks to be completed: 0 -- first: null
Dec-09 14:25:46.938 [Thread-1] DEBUG n.processor.TaskPollingMonitor - !! executor slurm > tasks to be completed: 0 -- first: null
Dec-09 14:25:56.939 [Thread-1] DEBUG n.processor.TaskPollingMonitor - !! executor slurm > tasks to be completed: 0 -- first: null
Dec-09 14:26:16.939 [Thread-1] DEBUG n.processor.TaskPollingMonitor - !! executor slurm > tasks to be completed: 0 -- first: null
Dec-09 14:26:26.940 [Thread-1] DEBUG n.processor.TaskPollingMonitor - !! executor slurm > tasks to be completed: 0 -- first: null
Dec-09 14:26:46.941 [Thread-1] DEBUG n.processor.TaskPollingMonitor - !! executor slurm > tasks to be completed: 0 -- first: null
Dec-09 14:26:56.941 [Thread-1] DEBUG n.processor.TaskPollingMonitor - !! executor slurm > tasks to be completed: 0 -- first: null
Dec-09 14:27:16.942 [Thread-1] DEBUG n.processor.TaskPollingMonitor - !! executor slurm > tasks to be completed: 0 -- first: null
Dec-09 14:27:36.942 [Thread-1] DEBUG n.processor.TaskPollingMonitor - !! executor slurm > tasks to be completed: 0 -- first: null
Dec-09 14:27:46.943 [Thread-1] DEBUG n.processor.TaskPollingMonitor - !! executor slurm > tasks to be completed: 0 -- first: null
Dec-09 14:28:06.943 [Thread-1] DEBUG n.processor.TaskPollingMonitor - !! executor slurm > tasks to be completed: 0 -- first: null
Dec-09 14:28:26.943 [Thread-1] DEBUG n.processor.TaskPollingMonitor - !! executor slurm > tasks to be completed: 0 -- first: null
Dec-09 14:28:36.944 [Thread-1] DEBUG n.processor.TaskPollingMonitor - !! executor slurm > tasks to be completed: 0 -- first: null
Dec-09 14:28:56.945 [Thread-1] DEBUG n.processor.TaskPollingMonitor - !! executor slurm > tasks to be completed: 0 -- first: null
Dec-09 14:29:06.945 [Thread-1] DEBUG n.processor.TaskPollingMonitor - !! executor slurm > tasks to be completed: 0 -- first: null
Dec-09 14:29:26.946 [Thread-1] DEBUG n.processor.TaskPollingMonitor - !! executor slurm > tasks to be completed: 0 -- first: null
Dec-09 14:29:46.946 [Thread-1] DEBUG n.processor.TaskPollingMonitor - !! executor slurm > tasks to be completed: 0 -- first: null
Dec-09 14:29:56.947 [Thread-1] DEBUG n.processor.TaskPollingMonitor - !! executor slurm > tasks to be completed: 0 -- first: null
Dec-09 14:30:09.536 [SIGINT handler] DEBUG nextflow.Session - Session aborted -- Cause: SIGINT
Dec-09 14:30:09.538 [Thread-1] DEBUG n.processor.TaskPollingMonitor - <<< barrier arrives (monitor: slurm)
Dec-09 14:30:09.539 [main] DEBUG nextflow.Session - Session await > all process finished
Dec-09 14:30:09.539 [main] DEBUG nextflow.Session - Session await > all barriers passed
Dec-09 14:30:09.541 [Actor Thread 68] DEBUG nextflow.processor.TaskProcessor - <normalize_vcf> After stop
Dec-09 14:30:09.551 [main] DEBUG nextflow.trace.TraceFileObserver - Flow completing -- flushing trace file
Dec-09 14:30:09.746 [main] DEBUG nextflow.script.ScriptRunner - > Execution complete -- Goodbye