Digital Trials pipeline configured for WES
Source-only snapshot of the cluster branch for WES execution. Large reference files (HPA/MANE/ensemble FASTA, model weights, ~597 MB) are omitted: they are baked into the container images at build time and mounted from the dreamdock-data PVC at runtime, and exceed the Gitea request size limit. Pipeline entry point is main.nf, which orchestrates the biotransformer, conplex and tissue modules as a single workflow. Ligand inputs are read from the eureka workspace; protein_zarr and chembl_db come from the dreamdock-data PVC.
This commit is contained in:
Olamide Isreal
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Mar-18 21:20:15.931 [main] DEBUG nextflow.cli.Launcher - $> nextflow run test.nf -params-file /data/digital-trials-data/gabe-run3/gabe-run3.json
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Mar-18 21:20:16.316 [main] DEBUG nextflow.cli.CmdRun - N E X T F L O W ~ version 25.04.3
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Mar-18 21:20:16.347 [main] DEBUG nextflow.plugin.PluginsFacade - Setting up plugin manager > mode=prod; embedded=false; plugins-dir=/home/omic/.nextflow/plugins; core-plugins: nf-amazon@2.15.0,nf-azure@1.16.0,nf-cloudcache@0.4.3,nf-codecommit@0.2.3,nf-console@1.2.1,nf-google@1.21.0,nf-k8s@1.0.0,nf-tower@1.11.3,nf-wave@1.12.1
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Mar-18 21:20:16.384 [main] INFO o.pf4j.DefaultPluginStatusProvider - Enabled plugins: []
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Mar-18 21:20:16.386 [main] INFO o.pf4j.DefaultPluginStatusProvider - Disabled plugins: []
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Mar-18 21:20:16.389 [main] INFO org.pf4j.DefaultPluginManager - PF4J version 3.12.0 in 'deployment' mode
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Mar-18 21:20:16.403 [main] INFO org.pf4j.AbstractPluginManager - No plugins
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Mar-18 21:20:16.429 [main] DEBUG nextflow.config.ConfigBuilder - Found config local: /data/bugra/digital_trials/nextflow.config
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Mar-18 21:20:16.432 [main] DEBUG nextflow.config.ConfigBuilder - Parsing config file: /data/bugra/digital_trials/nextflow.config
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Mar-18 21:20:16.471 [main] DEBUG n.secret.LocalSecretsProvider - Secrets store: /home/omic/.nextflow/secrets/store.json
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Mar-18 21:20:16.476 [main] DEBUG nextflow.secret.SecretsLoader - Discovered secrets providers: [nextflow.secret.LocalSecretsProvider@6ef81f31] - activable => nextflow.secret.LocalSecretsProvider@6ef81f31
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Mar-18 21:20:16.506 [main] DEBUG nextflow.config.ConfigBuilder - Applying config profile: `standard`
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Mar-18 21:20:17.272 [main] DEBUG nextflow.cli.CmdRun - Applied DSL=2 from script declaration
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Mar-18 21:20:17.293 [main] DEBUG nextflow.cli.CmdRun - Launching `test.nf` [zen_sax] DSL2 - revision: 0e14afbd94
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Mar-18 21:20:17.295 [main] DEBUG nextflow.plugin.PluginsFacade - Plugins default=[]
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Mar-18 21:20:17.296 [main] DEBUG nextflow.plugin.PluginsFacade - Plugins resolved requirement=[nf-tower@1.11.3]
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Mar-18 21:20:17.299 [main] DEBUG nextflow.plugin.PluginUpdater - Installing plugin nf-tower version: 1.11.3
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Mar-18 21:20:17.312 [main] INFO org.pf4j.AbstractPluginManager - Plugin 'nf-tower@1.11.3' resolved
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Mar-18 21:20:17.312 [main] INFO org.pf4j.AbstractPluginManager - Start plugin 'nf-tower@1.11.3'
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Mar-18 21:20:17.328 [main] DEBUG nextflow.plugin.BasePlugin - Plugin started nf-tower@1.11.3
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Mar-18 21:20:17.398 [main] DEBUG nextflow.Session - Session UUID: e75e46d9-ad7d-4b56-bdf1-9a1c0923dd64
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Mar-18 21:20:17.398 [main] DEBUG nextflow.Session - Run name: zen_sax
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Mar-18 21:20:17.399 [main] DEBUG nextflow.Session - Executor pool size: 80
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Mar-18 21:20:17.410 [main] DEBUG nextflow.file.FilePorter - File porter settings maxRetries=3; maxTransfers=50; pollTimeout=null
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Mar-18 21:20:17.418 [main] DEBUG nextflow.util.ThreadPoolBuilder - Creating thread pool 'FileTransfer' minSize=10; maxSize=240; workQueue=LinkedBlockingQueue[-1]; allowCoreThreadTimeout=false
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Mar-18 21:20:17.450 [main] DEBUG nextflow.cli.CmdRun -
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Version: 25.04.3 build 5949
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Created: 02-06-2025 20:56 UTC
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System: Linux 6.11.0-26-generic
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Runtime: Groovy 4.0.26 on OpenJDK 64-Bit Server VM 21.0.7+6-Ubuntu-0ubuntu124.04
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Encoding: UTF-8 (UTF-8)
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Process: 761650@k8s-node23 [127.0.1.1]
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CPUs: 80 - Mem: 251.6 GB (27.7 GB) - Swap: 0 (0)
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Mar-18 21:20:17.481 [main] DEBUG nextflow.Session - Work-dir: /data/bugra/digital_trials/work [btrfs]
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Mar-18 21:20:17.482 [main] DEBUG nextflow.Session - Script base path does not exist or is not a directory: /data/bugra/digital_trials/bin
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Mar-18 21:20:17.499 [main] DEBUG nextflow.executor.ExecutorFactory - Extension executors providers=[]
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Mar-18 21:20:17.519 [main] DEBUG nextflow.Session - Observer factory: DefaultObserverFactory
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Mar-18 21:20:17.525 [main] DEBUG nextflow.Session - Observer factory: TowerFactory
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Mar-18 21:20:17.528 [main] DEBUG nextflow.Session - Observer factory (v2): LinObserverFactory
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Mar-18 21:20:17.561 [main] DEBUG nextflow.cache.CacheFactory - Using Nextflow cache factory: nextflow.cache.DefaultCacheFactory
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Mar-18 21:20:17.574 [main] DEBUG nextflow.util.CustomThreadPool - Creating default thread pool > poolSize: 81; maxThreads: 1000
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Mar-18 21:20:17.799 [main] DEBUG nextflow.Session - Session start
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Mar-18 21:20:18.332 [main] DEBUG nextflow.script.ScriptRunner - > Launching execution
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Mar-18 21:20:19.266 [main] DEBUG nextflow.executor.ExecutorFactory - << taskConfig executor: null
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Mar-18 21:20:19.266 [main] DEBUG nextflow.executor.ExecutorFactory - >> processorType: 'local'
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Mar-18 21:20:19.274 [main] DEBUG nextflow.executor.Executor - [warm up] executor > local
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Mar-18 21:20:19.284 [main] DEBUG n.processor.LocalPollingMonitor - Creating local task monitor for executor 'local' > cpus=80; memory=251.6 GB; capacity=80; pollInterval=100ms; dumpInterval=5m
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Mar-18 21:20:19.287 [main] DEBUG n.processor.TaskPollingMonitor - >>> barrier register (monitor: local)
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Mar-18 21:20:19.324 [main] DEBUG nextflow.processor.TaskProcessor - Creating process 'HUMAN_TRANSFORMER': maxForks=0; fair=false; array=0
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Mar-18 21:20:19.430 [main] DEBUG nextflow.executor.ExecutorFactory - << taskConfig executor: null
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Mar-18 21:20:19.431 [main] DEBUG nextflow.executor.ExecutorFactory - >> processorType: 'local'
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Mar-18 21:20:19.433 [main] DEBUG nextflow.processor.TaskProcessor - Creating process 'GET_FINAL_METABOLITES_STATIC': maxForks=0; fair=false; array=0
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Mar-18 21:20:19.447 [main] DEBUG nextflow.script.ProcessConfig - Config settings `withLabel:gpu_process` matches labels `gpu_process` for process with name PREPROCESS_PROTEIN
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Mar-18 21:20:19.453 [main] DEBUG nextflow.executor.ExecutorFactory - << taskConfig executor: null
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Mar-18 21:20:19.453 [main] DEBUG nextflow.executor.ExecutorFactory - >> processorType: 'local'
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Mar-18 21:20:19.455 [main] DEBUG nextflow.processor.TaskProcessor - Creating process 'PREPROCESS_PROTEIN': maxForks=0; fair=false; array=0
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Mar-18 21:20:19.524 [main] DEBUG nextflow.executor.ExecutorFactory - << taskConfig executor: null
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Mar-18 21:20:19.525 [main] DEBUG nextflow.executor.ExecutorFactory - >> processorType: 'local'
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Mar-18 21:20:19.526 [main] DEBUG nextflow.processor.TaskProcessor - Creating process 'CONPLEX_ALL': maxForks=0; fair=false; array=0
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Mar-18 21:20:19.559 [main] DEBUG nextflow.executor.ExecutorFactory - << taskConfig executor: null
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Mar-18 21:20:19.559 [main] DEBUG nextflow.executor.ExecutorFactory - >> processorType: 'local'
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Mar-18 21:20:19.560 [main] DEBUG nextflow.processor.TaskProcessor - Creating process 'NETWORK_ENRICHMENT': maxForks=0; fair=false; array=0
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Mar-18 21:20:19.569 [main] DEBUG nextflow.executor.ExecutorFactory - << taskConfig executor: null
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Mar-18 21:20:19.569 [main] DEBUG nextflow.executor.ExecutorFactory - >> processorType: 'local'
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Mar-18 21:20:19.570 [main] DEBUG nextflow.processor.TaskProcessor - Creating process 'TISSUE_DISTRIBUTION': maxForks=0; fair=false; array=0
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Mar-18 21:20:19.595 [main] DEBUG nextflow.executor.ExecutorFactory - << taskConfig executor: null
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Mar-18 21:20:19.596 [main] DEBUG nextflow.executor.ExecutorFactory - >> processorType: 'local'
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Mar-18 21:20:19.597 [main] DEBUG nextflow.processor.TaskProcessor - Creating process 'BIO_METRICS': maxForks=0; fair=false; array=0
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Mar-18 21:20:19.600 [main] DEBUG nextflow.Session - Workflow process names [dsl2]: HUMAN_TRANSFORMER, METABOLITES_BY_MASS, GET_FINAL_METABOLITES_STATIC, CONPLEX_ALL, NETWORK_ENRICHMENT, GET_FINAL_METABOLITES, CONPLEX, BIO_METRICS, SUPER_TRANSFORMER, TISSUE_DISTRIBUTION, MERGE_DRUG, MERGE_INTERACTIONS, PREPROCESS_PROTEIN, ORDERED_SEQUENCE
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Mar-18 21:20:19.604 [main] DEBUG nextflow.Session - Igniting dataflow network (11)
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Mar-18 21:20:19.612 [main] DEBUG nextflow.processor.TaskProcessor - Starting process > HUMAN_TRANSFORMER
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Mar-18 21:20:19.613 [main] DEBUG nextflow.processor.TaskProcessor - Starting process > GET_FINAL_METABOLITES_STATIC
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Mar-18 21:20:19.614 [PathVisitor-1] DEBUG nextflow.file.PathVisitor - files for syntax: glob; folder: /data/digital-trials-data/gabe-run3/input/ligands/; pattern: *.csv; options: [:]
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Mar-18 21:20:19.614 [main] DEBUG nextflow.processor.TaskProcessor - Starting process > PREPROCESS_PROTEIN
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Mar-18 21:20:19.614 [PathVisitor-3] DEBUG nextflow.file.PathVisitor - files for syntax: glob; folder: /mnt/dreamdock-data/digital_trials/input/blank/; pattern: *.fasta; options: [:]
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Mar-18 21:20:19.615 [main] DEBUG nextflow.processor.TaskProcessor - Starting process > CONPLEX_ALL
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Mar-18 21:20:19.616 [main] DEBUG nextflow.processor.TaskProcessor - Starting process > NETWORK_ENRICHMENT
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Mar-18 21:20:19.616 [main] DEBUG nextflow.processor.TaskProcessor - Starting process > TISSUE_DISTRIBUTION
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Mar-18 21:20:19.617 [main] DEBUG nextflow.processor.TaskProcessor - Starting process > BIO_METRICS
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Mar-18 21:20:19.618 [main] DEBUG nextflow.script.ScriptRunner - Parsed script files:
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Script_e39e54e7aa543fd0: /data/bugra/digital_trials/main_biotransformer.nf
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Script_d345b7a65a8f3255: /data/bugra/digital_trials/main_conplex.nf
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Script_ec2c89c0dbf76553: /data/bugra/digital_trials/test.nf
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Script_ec01f2a38db15aa5: /data/bugra/digital_trials/main_tissue.nf
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Mar-18 21:20:19.618 [main] DEBUG nextflow.script.ScriptRunner - > Awaiting termination
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Mar-18 21:20:19.618 [main] DEBUG nextflow.Session - Session await
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Mar-18 21:20:20.162 [Task submitter] DEBUG n.executor.local.LocalTaskHandler - Launch cmd line: /bin/bash -ue .command.run
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Mar-18 21:20:20.171 [Task submitter] INFO nextflow.Session - [72/b877a7] Submitted process > HUMAN_TRANSFORMER (22)
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Mar-18 21:20:20.185 [Task submitter] DEBUG n.executor.local.LocalTaskHandler - Launch cmd line: /bin/bash -ue .command.run
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Mar-18 21:20:20.185 [Task submitter] INFO nextflow.Session - [b8/36834c] Submitted process > HUMAN_TRANSFORMER (17)
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Mar-18 21:20:20.193 [Task submitter] DEBUG n.executor.local.LocalTaskHandler - Launch cmd line: /bin/bash -ue .command.run
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Mar-18 21:20:20.193 [Task submitter] INFO nextflow.Session - [7a/0eb83a] Submitted process > HUMAN_TRANSFORMER (45)
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Mar-18 21:20:20.201 [Task submitter] DEBUG n.executor.local.LocalTaskHandler - Launch cmd line: /bin/bash -ue .command.run
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Mar-18 21:20:20.202 [Task submitter] INFO nextflow.Session - [0f/9a0cd5] Submitted process > HUMAN_TRANSFORMER (74)
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Mar-18 21:20:20.209 [Task submitter] DEBUG n.executor.local.LocalTaskHandler - Launch cmd line: /bin/bash -ue .command.run
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Mar-18 21:20:20.210 [Task submitter] INFO nextflow.Session - [c4/e32501] Submitted process > HUMAN_TRANSFORMER (29)
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Mar-18 21:20:20.217 [Task submitter] DEBUG n.executor.local.LocalTaskHandler - Launch cmd line: /bin/bash -ue .command.run
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Mar-18 21:20:20.217 [Task submitter] INFO nextflow.Session - [32/fb9e93] Submitted process > HUMAN_TRANSFORMER (54)
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Mar-18 21:20:20.224 [Task submitter] DEBUG n.executor.local.LocalTaskHandler - Launch cmd line: /bin/bash -ue .command.run
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Mar-18 21:20:20.224 [Task submitter] INFO nextflow.Session - [fb/faa4aa] Submitted process > HUMAN_TRANSFORMER (55)
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Mar-18 21:20:20.232 [Task submitter] DEBUG n.executor.local.LocalTaskHandler - Launch cmd line: /bin/bash -ue .command.run
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Mar-18 21:20:20.233 [Task submitter] INFO nextflow.Session - [5a/faa523] Submitted process > HUMAN_TRANSFORMER (40)
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Mar-18 21:20:20.240 [Task submitter] DEBUG n.executor.local.LocalTaskHandler - Launch cmd line: /bin/bash -ue .command.run
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Mar-18 21:20:20.241 [Task submitter] INFO nextflow.Session - [7d/2fa815] Submitted process > HUMAN_TRANSFORMER (67)
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Mar-18 21:20:20.250 [Task submitter] DEBUG n.executor.local.LocalTaskHandler - Launch cmd line: /bin/bash -ue .command.run
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Mar-18 21:20:20.251 [Task submitter] INFO nextflow.Session - [2a/96b957] Submitted process > HUMAN_TRANSFORMER (35)
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Mar-18 21:20:20.265 [Task submitter] DEBUG n.executor.local.LocalTaskHandler - Launch cmd line: /bin/bash -ue .command.run
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Mar-18 21:20:20.265 [Task submitter] INFO nextflow.Session - [b9/e57dda] Submitted process > HUMAN_TRANSFORMER (9)
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Mar-18 21:20:20.272 [Task submitter] DEBUG n.executor.local.LocalTaskHandler - Launch cmd line: /bin/bash -ue .command.run
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Mar-18 21:20:20.273 [Task submitter] INFO nextflow.Session - [fd/0b14fd] Submitted process > HUMAN_TRANSFORMER (86)
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Mar-18 21:20:20.281 [Task submitter] DEBUG n.executor.local.LocalTaskHandler - Launch cmd line: /bin/bash -ue .command.run
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Mar-18 21:20:20.282 [Task submitter] INFO nextflow.Session - [a6/cc7c28] Submitted process > HUMAN_TRANSFORMER (51)
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Mar-18 21:20:20.290 [Task submitter] DEBUG n.executor.local.LocalTaskHandler - Launch cmd line: /bin/bash -ue .command.run
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Mar-18 21:20:20.291 [Task submitter] INFO nextflow.Session - [b9/7e54d8] Submitted process > HUMAN_TRANSFORMER (48)
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Mar-18 21:20:20.297 [Task submitter] DEBUG n.executor.local.LocalTaskHandler - Launch cmd line: /bin/bash -ue .command.run
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Mar-18 21:20:20.298 [Task submitter] INFO nextflow.Session - [a4/4bea8f] Submitted process > HUMAN_TRANSFORMER (1)
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Mar-18 21:20:20.305 [Task submitter] DEBUG n.executor.local.LocalTaskHandler - Launch cmd line: /bin/bash -ue .command.run
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Mar-18 21:20:20.305 [Task submitter] INFO nextflow.Session - [a4/46870e] Submitted process > HUMAN_TRANSFORMER (25)
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Mar-18 21:20:20.312 [Task submitter] DEBUG n.executor.local.LocalTaskHandler - Launch cmd line: /bin/bash -ue .command.run
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Mar-18 21:20:20.313 [Task submitter] INFO nextflow.Session - [99/0bf7d9] Submitted process > HUMAN_TRANSFORMER (13)
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Mar-18 21:20:20.322 [Task submitter] DEBUG n.executor.local.LocalTaskHandler - Launch cmd line: /bin/bash -ue .command.run
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Mar-18 21:20:20.323 [Task submitter] INFO nextflow.Session - [7f/996282] Submitted process > HUMAN_TRANSFORMER (73)
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Mar-18 21:20:20.333 [Task submitter] DEBUG n.executor.local.LocalTaskHandler - Launch cmd line: /bin/bash -ue .command.run
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Mar-18 21:20:20.333 [Task submitter] INFO nextflow.Session - [95/e721b6] Submitted process > HUMAN_TRANSFORMER (58)
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Mar-18 21:20:20.342 [Task submitter] DEBUG n.executor.local.LocalTaskHandler - Launch cmd line: /bin/bash -ue .command.run
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Mar-18 21:20:20.343 [Task submitter] INFO nextflow.Session - [4c/6bcf63] Submitted process > HUMAN_TRANSFORMER (95)
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Mar-18 21:20:20.352 [Task submitter] DEBUG n.executor.local.LocalTaskHandler - Launch cmd line: /bin/bash -ue .command.run
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Mar-18 21:20:20.353 [Task submitter] INFO nextflow.Session - [75/1131f1] Submitted process > HUMAN_TRANSFORMER (80)
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Mar-18 21:20:20.364 [Task submitter] DEBUG n.executor.local.LocalTaskHandler - Launch cmd line: /bin/bash -ue .command.run
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Mar-18 21:20:20.365 [Task submitter] INFO nextflow.Session - [21/9c8453] Submitted process > HUMAN_TRANSFORMER (70)
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Mar-18 21:20:20.375 [Task submitter] DEBUG n.executor.local.LocalTaskHandler - Launch cmd line: /bin/bash -ue .command.run
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Mar-18 21:20:20.376 [Task submitter] INFO nextflow.Session - [45/5aca40] Submitted process > HUMAN_TRANSFORMER (50)
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Mar-18 21:20:20.385 [Task submitter] DEBUG n.executor.local.LocalTaskHandler - Launch cmd line: /bin/bash -ue .command.run
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Mar-18 21:20:20.386 [Task submitter] INFO nextflow.Session - [9f/6ebe51] Submitted process > HUMAN_TRANSFORMER (100)
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Mar-18 21:20:20.394 [Task submitter] DEBUG n.executor.local.LocalTaskHandler - Launch cmd line: /bin/bash -ue .command.run
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Mar-18 21:20:20.395 [Task submitter] INFO nextflow.Session - [ab/216ae0] Submitted process > HUMAN_TRANSFORMER (5)
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Mar-18 21:20:20.404 [Task submitter] DEBUG n.executor.local.LocalTaskHandler - Launch cmd line: /bin/bash -ue .command.run
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Mar-18 21:20:20.405 [Task submitter] INFO nextflow.Session - [da/540299] Submitted process > HUMAN_TRANSFORMER (46)
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Mar-18 21:20:20.411 [Task submitter] DEBUG n.executor.local.LocalTaskHandler - Launch cmd line: /bin/bash -ue .command.run
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Mar-18 21:20:20.412 [Task submitter] INFO nextflow.Session - [b5/f38923] Submitted process > HUMAN_TRANSFORMER (39)
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Mar-18 21:20:20.418 [Task submitter] DEBUG n.executor.local.LocalTaskHandler - Launch cmd line: /bin/bash -ue .command.run
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Mar-18 21:20:20.418 [Task submitter] INFO nextflow.Session - [68/1826f5] Submitted process > HUMAN_TRANSFORMER (78)
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Mar-18 21:20:20.424 [Task submitter] DEBUG n.executor.local.LocalTaskHandler - Launch cmd line: /bin/bash -ue .command.run
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Mar-18 21:20:20.424 [Task submitter] INFO nextflow.Session - [ed/3b042b] Submitted process > HUMAN_TRANSFORMER (33)
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Mar-18 21:20:20.431 [Task submitter] DEBUG n.executor.local.LocalTaskHandler - Launch cmd line: /bin/bash -ue .command.run
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Mar-18 21:20:20.431 [Task submitter] INFO nextflow.Session - [3f/075456] Submitted process > HUMAN_TRANSFORMER (6)
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Mar-18 21:20:20.436 [Task submitter] DEBUG n.executor.local.LocalTaskHandler - Launch cmd line: /bin/bash -ue .command.run
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||||
Mar-18 21:20:20.437 [Task submitter] INFO nextflow.Session - [7a/791a5f] Submitted process > HUMAN_TRANSFORMER (31)
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Mar-18 21:20:20.442 [Task submitter] DEBUG n.executor.local.LocalTaskHandler - Launch cmd line: /bin/bash -ue .command.run
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Mar-18 21:20:20.443 [Task submitter] INFO nextflow.Session - [74/3c1d46] Submitted process > HUMAN_TRANSFORMER (60)
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Mar-18 21:20:20.449 [Task submitter] DEBUG n.executor.local.LocalTaskHandler - Launch cmd line: /bin/bash -ue .command.run
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||||
Mar-18 21:20:20.449 [Task submitter] INFO nextflow.Session - [03/bc533b] Submitted process > HUMAN_TRANSFORMER (42)
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Mar-18 21:20:20.456 [Task submitter] DEBUG n.executor.local.LocalTaskHandler - Launch cmd line: /bin/bash -ue .command.run
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||||
Mar-18 21:20:20.456 [Task submitter] INFO nextflow.Session - [22/fd1af0] Submitted process > HUMAN_TRANSFORMER (49)
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Mar-18 21:20:20.465 [Task submitter] DEBUG n.executor.local.LocalTaskHandler - Launch cmd line: /bin/bash -ue .command.run
|
||||
Mar-18 21:20:20.466 [Task submitter] INFO nextflow.Session - [43/60db45] Submitted process > HUMAN_TRANSFORMER (61)
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||||
Mar-18 21:20:20.475 [Task submitter] DEBUG n.executor.local.LocalTaskHandler - Launch cmd line: /bin/bash -ue .command.run
|
||||
Mar-18 21:20:20.476 [Task submitter] INFO nextflow.Session - [c3/96d9ca] Submitted process > HUMAN_TRANSFORMER (47)
|
||||
Mar-18 21:20:20.485 [Task submitter] DEBUG n.executor.local.LocalTaskHandler - Launch cmd line: /bin/bash -ue .command.run
|
||||
Mar-18 21:20:20.486 [Task submitter] INFO nextflow.Session - [1e/136b16] Submitted process > HUMAN_TRANSFORMER (28)
|
||||
Mar-18 21:20:20.494 [Task submitter] DEBUG n.executor.local.LocalTaskHandler - Launch cmd line: /bin/bash -ue .command.run
|
||||
Mar-18 21:20:20.495 [Task submitter] INFO nextflow.Session - [b3/18f2d8] Submitted process > HUMAN_TRANSFORMER (21)
|
||||
Mar-18 21:20:20.503 [Task submitter] DEBUG n.executor.local.LocalTaskHandler - Launch cmd line: /bin/bash -ue .command.run
|
||||
Mar-18 21:20:20.504 [Task submitter] INFO nextflow.Session - [eb/bd1719] Submitted process > HUMAN_TRANSFORMER (26)
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||||
Mar-18 21:20:20.511 [Task submitter] DEBUG n.executor.local.LocalTaskHandler - Launch cmd line: /bin/bash -ue .command.run
|
||||
Mar-18 21:20:20.512 [Task submitter] INFO nextflow.Session - [2d/813f73] Submitted process > HUMAN_TRANSFORMER (69)
|
||||
Mar-18 21:20:20.518 [Task submitter] DEBUG n.executor.local.LocalTaskHandler - Launch cmd line: /bin/bash -ue .command.run
|
||||
Mar-18 21:20:20.518 [Task submitter] INFO nextflow.Session - [d6/469d3a] Submitted process > HUMAN_TRANSFORMER (62)
|
||||
Mar-18 21:20:20.524 [Task submitter] DEBUG n.executor.local.LocalTaskHandler - Launch cmd line: /bin/bash -ue .command.run
|
||||
Mar-18 21:20:20.524 [Task submitter] INFO nextflow.Session - [7d/6149e5] Submitted process > HUMAN_TRANSFORMER (15)
|
||||
Mar-18 21:20:20.533 [Task submitter] DEBUG n.executor.local.LocalTaskHandler - Launch cmd line: /bin/bash -ue .command.run
|
||||
Mar-18 21:20:20.533 [Task submitter] INFO nextflow.Session - [b0/358e08] Submitted process > HUMAN_TRANSFORMER (4)
|
||||
Mar-18 21:20:20.539 [Task submitter] DEBUG n.executor.local.LocalTaskHandler - Launch cmd line: /bin/bash -ue .command.run
|
||||
Mar-18 21:20:20.540 [Task submitter] INFO nextflow.Session - [97/d91d94] Submitted process > HUMAN_TRANSFORMER (79)
|
||||
Mar-18 21:20:20.545 [Task submitter] DEBUG n.executor.local.LocalTaskHandler - Launch cmd line: /bin/bash -ue .command.run
|
||||
Mar-18 21:20:20.546 [Task submitter] INFO nextflow.Session - [58/36391d] Submitted process > HUMAN_TRANSFORMER (52)
|
||||
Mar-18 21:20:20.551 [Task submitter] DEBUG n.executor.local.LocalTaskHandler - Launch cmd line: /bin/bash -ue .command.run
|
||||
Mar-18 21:20:20.552 [Task submitter] INFO nextflow.Session - [16/6dd6cf] Submitted process > HUMAN_TRANSFORMER (66)
|
||||
Mar-18 21:20:20.558 [Task submitter] DEBUG n.executor.local.LocalTaskHandler - Launch cmd line: /bin/bash -ue .command.run
|
||||
Mar-18 21:20:20.558 [Task submitter] INFO nextflow.Session - [44/42e04d] Submitted process > HUMAN_TRANSFORMER (43)
|
||||
Mar-18 21:20:20.570 [Task submitter] DEBUG n.executor.local.LocalTaskHandler - Launch cmd line: /bin/bash -ue .command.run
|
||||
Mar-18 21:20:20.571 [Task submitter] INFO nextflow.Session - [34/bc34df] Submitted process > HUMAN_TRANSFORMER (123)
|
||||
Mar-18 21:20:20.578 [Task submitter] DEBUG n.executor.local.LocalTaskHandler - Launch cmd line: /bin/bash -ue .command.run
|
||||
Mar-18 21:20:20.579 [Task submitter] INFO nextflow.Session - [23/9ecd04] Submitted process > HUMAN_TRANSFORMER (44)
|
||||
Mar-18 21:20:20.585 [Task submitter] DEBUG n.executor.local.LocalTaskHandler - Launch cmd line: /bin/bash -ue .command.run
|
||||
Mar-18 21:20:20.586 [Task submitter] INFO nextflow.Session - [72/752728] Submitted process > HUMAN_TRANSFORMER (30)
|
||||
Mar-18 21:20:28.975 [SIGINT handler] DEBUG nextflow.Session - Session aborted -- Cause: SIGINT
|
||||
Mar-18 21:20:28.996 [SIGINT handler] DEBUG nextflow.Session - The following nodes are still active:
|
||||
[process] GET_FINAL_METABOLITES_STATIC
|
||||
status=ACTIVE
|
||||
port 0: (queue) OPEN ; channel: smiles_csv
|
||||
port 1: (value) bound ; channel: chembl_db
|
||||
port 2: (cntrl) - ; channel: $
|
||||
|
||||
[process] CONPLEX_ALL
|
||||
status=ACTIVE
|
||||
port 0: (queue) OPEN ; channel: -
|
||||
port 1: (value) bound ; channel: input_zarr
|
||||
port 2: (cntrl) - ; channel: $
|
||||
|
||||
[process] NETWORK_ENRICHMENT
|
||||
status=ACTIVE
|
||||
port 0: (queue) OPEN ; channel: interactions
|
||||
port 1: (cntrl) - ; channel: $
|
||||
|
||||
[process] TISSUE_DISTRIBUTION
|
||||
status=ACTIVE
|
||||
port 0: (queue) OPEN ; channel: interaction
|
||||
port 1: (cntrl) - ; channel: $
|
||||
|
||||
[process] BIO_METRICS
|
||||
status=ACTIVE
|
||||
port 0: (queue) OPEN ; channel: -
|
||||
port 1: (cntrl) - ; channel: $
|
||||
|
||||
Mar-18 21:20:29.001 [main] DEBUG nextflow.Session - Session await > all processes finished
|
||||
Mar-18 21:20:29.002 [main] DEBUG nextflow.Session - Session await > all barriers passed
|
||||
Mar-18 21:20:29.008 [main] WARN n.processor.TaskPollingMonitor - Killing running tasks (50)
|
||||
Mar-18 21:20:29.204 [Task monitor] DEBUG n.processor.TaskPollingMonitor - Task completed > TaskHandler[id: 74; name: HUMAN_TRANSFORMER (74); status: COMPLETED; exit: 130; error: -; workDir: /data/bugra/digital_trials/work/0f/9a0cd5d97aee26e6b419677d571f1d]
|
||||
Mar-18 21:20:29.206 [Task monitor] DEBUG nextflow.util.ThreadPoolBuilder - Creating thread pool 'TaskFinalizer' minSize=10; maxSize=240; workQueue=LinkedBlockingQueue[-1]; allowCoreThreadTimeout=false
|
||||
Mar-18 21:20:29.211 [Task monitor] DEBUG n.processor.TaskPollingMonitor - Task completed > TaskHandler[id: 29; name: HUMAN_TRANSFORMER (29); status: COMPLETED; exit: 130; error: -; workDir: /data/bugra/digital_trials/work/c4/e32501010caae58fa439c623a2fecd]
|
||||
Mar-18 21:20:29.212 [Task monitor] DEBUG n.processor.TaskPollingMonitor - Task completed > TaskHandler[id: 54; name: HUMAN_TRANSFORMER (54); status: COMPLETED; exit: 130; error: -; workDir: /data/bugra/digital_trials/work/32/fb9e93711155e96b0eca9ca1a8454e]
|
||||
Mar-18 21:20:29.214 [Task monitor] DEBUG n.processor.TaskPollingMonitor - Task completed > TaskHandler[id: 55; name: HUMAN_TRANSFORMER (55); status: COMPLETED; exit: 130; error: -; workDir: /data/bugra/digital_trials/work/fb/faa4aaa5a507b07f6ad9fb9cdf2127]
|
||||
Mar-18 21:20:29.216 [Task monitor] DEBUG n.processor.TaskPollingMonitor - Task completed > TaskHandler[id: 40; name: HUMAN_TRANSFORMER (40); status: COMPLETED; exit: 130; error: -; workDir: /data/bugra/digital_trials/work/5a/faa523c3ce4d70240791b474747fde]
|
||||
Mar-18 21:20:29.217 [Task monitor] DEBUG n.processor.TaskPollingMonitor - Task completed > TaskHandler[id: 67; name: HUMAN_TRANSFORMER (67); status: COMPLETED; exit: 130; error: -; workDir: /data/bugra/digital_trials/work/7d/2fa8150c57d90a74cd338cd5ce8bfe]
|
||||
Mar-18 21:20:29.219 [Task monitor] DEBUG n.processor.TaskPollingMonitor - Task completed > TaskHandler[id: 35; name: HUMAN_TRANSFORMER (35); status: COMPLETED; exit: 130; error: -; workDir: /data/bugra/digital_trials/work/2a/96b957dfb012e27d77c31f4b94d051]
|
||||
Mar-18 21:20:29.220 [Task monitor] DEBUG n.processor.TaskPollingMonitor - Task completed > TaskHandler[id: 86; name: HUMAN_TRANSFORMER (86); status: COMPLETED; exit: 130; error: -; workDir: /data/bugra/digital_trials/work/fd/0b14fd788e43705a0d86419395e93c]
|
||||
Mar-18 21:20:29.221 [main] DEBUG n.executor.local.LocalTaskHandler - Unable to kill HUMAN_TRANSFORMER (45) -- command: kill -TERM 762008; exit: 1
|
||||
bash: line 1: kill: (762008) - No such process
|
||||
|
||||
Mar-18 21:20:29.222 [Task monitor] DEBUG n.processor.TaskPollingMonitor - Task completed > TaskHandler[id: 51; name: HUMAN_TRANSFORMER (51); status: COMPLETED; exit: 130; error: -; workDir: /data/bugra/digital_trials/work/a6/cc7c28680437f5e2c42a1709323bb7]
|
||||
Mar-18 21:20:29.223 [Task monitor] DEBUG n.processor.TaskPollingMonitor - Task completed > TaskHandler[id: 48; name: HUMAN_TRANSFORMER (48); status: COMPLETED; exit: 130; error: -; workDir: /data/bugra/digital_trials/work/b9/7e54d83d949dca0466afe4c816d12d]
|
||||
Mar-18 21:20:29.225 [Task monitor] DEBUG n.processor.TaskPollingMonitor - Task completed > TaskHandler[id: 1; name: HUMAN_TRANSFORMER (1); status: COMPLETED; exit: 130; error: -; workDir: /data/bugra/digital_trials/work/a4/4bea8fb78d84cb4e6a1b3b78de1a1d]
|
||||
Mar-18 21:20:29.226 [Task monitor] DEBUG n.processor.TaskPollingMonitor - Task completed > TaskHandler[id: 25; name: HUMAN_TRANSFORMER (25); status: COMPLETED; exit: 130; error: -; workDir: /data/bugra/digital_trials/work/a4/46870eb8ce5691c0f2149045550ad7]
|
||||
Mar-18 21:20:29.227 [TaskFinalizer-2] DEBUG nextflow.processor.TaskProcessor - Handling unexpected condition for
|
||||
task: name=HUMAN_TRANSFORMER (29); work-dir=/data/bugra/digital_trials/work/c4/e32501010caae58fa439c623a2fecd
|
||||
error [nextflow.exception.ProcessFailedException]: Process `HUMAN_TRANSFORMER (29)` terminated with an error exit status (130)
|
||||
Mar-18 21:20:29.227 [Task monitor] DEBUG n.processor.TaskPollingMonitor - Task completed > TaskHandler[id: 13; name: HUMAN_TRANSFORMER (13); status: COMPLETED; exit: 130; error: -; workDir: /data/bugra/digital_trials/work/99/0bf7d908b80de58cfef30a9ae30875]
|
||||
Mar-18 21:20:29.228 [Task monitor] DEBUG n.processor.TaskPollingMonitor - Task completed > TaskHandler[id: 73; name: HUMAN_TRANSFORMER (73); status: COMPLETED; exit: 130; error: -; workDir: /data/bugra/digital_trials/work/7f/99628294d9fb367576004fc4cff3eb]
|
||||
Mar-18 21:20:29.229 [main] DEBUG n.executor.local.LocalTaskHandler - Unable to kill HUMAN_TRANSFORMER (25) -- command: kill -TERM 762373; exit: 1
|
||||
bash: line 1: kill: (762373) - No such process
|
||||
|
||||
Mar-18 21:20:29.229 [Task monitor] DEBUG n.processor.TaskPollingMonitor - Task completed > TaskHandler[id: 58; name: HUMAN_TRANSFORMER (58); status: COMPLETED; exit: 130; error: -; workDir: /data/bugra/digital_trials/work/95/e721b6a649d83eb7e942021377d531]
|
||||
Mar-18 21:20:29.231 [Task monitor] DEBUG n.processor.TaskPollingMonitor - Task completed > TaskHandler[id: 95; name: HUMAN_TRANSFORMER (95); status: COMPLETED; exit: 130; error: -; workDir: /data/bugra/digital_trials/work/4c/6bcf63f1afb66a1ed51a58c8ef54a3]
|
||||
Mar-18 21:20:29.232 [Task monitor] DEBUG n.processor.TaskPollingMonitor - Task completed > TaskHandler[id: 80; name: HUMAN_TRANSFORMER (80); status: COMPLETED; exit: 130; error: -; workDir: /data/bugra/digital_trials/work/75/1131f1d70cc028dd7b726be37d1e31]
|
||||
Mar-18 21:20:29.233 [Task monitor] DEBUG n.processor.TaskPollingMonitor - Task completed > TaskHandler[id: 70; name: HUMAN_TRANSFORMER (70); status: COMPLETED; exit: 130; error: -; workDir: /data/bugra/digital_trials/work/21/9c8453efe5eeb789846c2451f0a13f]
|
||||
Mar-18 21:20:29.234 [Task monitor] DEBUG n.processor.TaskPollingMonitor - Task completed > TaskHandler[id: 50; name: HUMAN_TRANSFORMER (50); status: COMPLETED; exit: 130; error: -; workDir: /data/bugra/digital_trials/work/45/5aca403dc4da2c3d24fe10177924c8]
|
||||
Mar-18 21:20:29.234 [main] DEBUG n.executor.local.LocalTaskHandler - Unable to kill HUMAN_TRANSFORMER (80) -- command: kill -TERM 762532; exit: 1
|
||||
bash: line 1: kill: (762532) - No such process
|
||||
|
||||
Mar-18 21:20:29.235 [Task monitor] DEBUG n.processor.TaskPollingMonitor - Task completed > TaskHandler[id: 100; name: HUMAN_TRANSFORMER (100); status: COMPLETED; exit: 130; error: -; workDir: /data/bugra/digital_trials/work/9f/6ebe51bfe8573e36f728abd651796c]
|
||||
Mar-18 21:20:29.237 [Task monitor] DEBUG n.processor.TaskPollingMonitor - Task completed > TaskHandler[id: 5; name: HUMAN_TRANSFORMER (5); status: COMPLETED; exit: 130; error: -; workDir: /data/bugra/digital_trials/work/ab/216ae0fc95fd279206b22f34dc000a]
|
||||
Mar-18 21:20:29.238 [Task monitor] DEBUG n.processor.TaskPollingMonitor - Task completed > TaskHandler[id: 46; name: HUMAN_TRANSFORMER (46); status: COMPLETED; exit: 130; error: -; workDir: /data/bugra/digital_trials/work/da/540299373969ef3de95545b6de644f]
|
||||
Mar-18 21:20:29.239 [Task monitor] DEBUG n.processor.TaskPollingMonitor - Task completed > TaskHandler[id: 39; name: HUMAN_TRANSFORMER (39); status: COMPLETED; exit: 130; error: -; workDir: /data/bugra/digital_trials/work/b5/f389239211a370dc32541c3a4fa3e7]
|
||||
Mar-18 21:20:29.239 [main] DEBUG n.executor.local.LocalTaskHandler - Unable to kill HUMAN_TRANSFORMER (5) -- command: kill -TERM 762695; exit: 1
|
||||
bash: line 1: kill: (762695) - No such process
|
||||
|
||||
Mar-18 21:20:29.240 [Task monitor] DEBUG n.processor.TaskPollingMonitor - Task completed > TaskHandler[id: 78; name: HUMAN_TRANSFORMER (78); status: COMPLETED; exit: 130; error: -; workDir: /data/bugra/digital_trials/work/68/1826f56db8ca6748424d2048035406]
|
||||
Mar-18 21:20:29.240 [TaskFinalizer-2] INFO nextflow.processor.TaskProcessor - [c4/e32501] NOTE: Process `HUMAN_TRANSFORMER (29)` terminated with an error exit status (130) -- Execution is retried (1)
|
||||
Mar-18 21:20:29.241 [TaskFinalizer-10] DEBUG nextflow.processor.TaskProcessor - Handling unexpected condition for
|
||||
task: name=HUMAN_TRANSFORMER (48); work-dir=/data/bugra/digital_trials/work/b9/7e54d83d949dca0466afe4c816d12d
|
||||
error [nextflow.exception.ProcessFailedException]: Process `HUMAN_TRANSFORMER (48)` terminated with an error exit status (130)
|
||||
Mar-18 21:20:29.241 [Task monitor] DEBUG n.processor.TaskPollingMonitor - Task completed > TaskHandler[id: 33; name: HUMAN_TRANSFORMER (33); status: COMPLETED; exit: 130; error: -; workDir: /data/bugra/digital_trials/work/ed/3b042b5b484c9ff44f2901ae29af3b]
|
||||
Mar-18 21:20:29.242 [TaskFinalizer-10] INFO nextflow.processor.TaskProcessor - [b9/7e54d8] NOTE: Process `HUMAN_TRANSFORMER (48)` terminated with an error exit status (130) -- Execution is retried (1)
|
||||
Mar-18 21:20:29.242 [Task monitor] DEBUG n.processor.TaskPollingMonitor - Task completed > TaskHandler[id: 6; name: HUMAN_TRANSFORMER (6); status: COMPLETED; exit: 130; error: -; workDir: /data/bugra/digital_trials/work/3f/075456044e2114e2f07d282a4652f8]
|
||||
Mar-18 21:20:29.242 [TaskFinalizer-6] DEBUG nextflow.processor.TaskProcessor - Handling unexpected condition for
|
||||
task: name=HUMAN_TRANSFORMER (67); work-dir=/data/bugra/digital_trials/work/7d/2fa8150c57d90a74cd338cd5ce8bfe
|
||||
error [nextflow.exception.ProcessFailedException]: Process `HUMAN_TRANSFORMER (67)` terminated with an error exit status (130)
|
||||
Mar-18 21:20:29.243 [TaskFinalizer-6] INFO nextflow.processor.TaskProcessor - [7d/2fa815] NOTE: Process `HUMAN_TRANSFORMER (67)` terminated with an error exit status (130) -- Execution is retried (1)
|
||||
Mar-18 21:20:29.243 [Task monitor] DEBUG n.processor.TaskPollingMonitor - Task completed > TaskHandler[id: 31; name: HUMAN_TRANSFORMER (31); status: COMPLETED; exit: 130; error: -; workDir: /data/bugra/digital_trials/work/7a/791a5fc3d48e3532dd905a9d6ffe60]
|
||||
Mar-18 21:20:29.244 [TaskFinalizer-3] DEBUG nextflow.processor.TaskProcessor - Handling unexpected condition for
|
||||
task: name=HUMAN_TRANSFORMER (54); work-dir=/data/bugra/digital_trials/work/32/fb9e93711155e96b0eca9ca1a8454e
|
||||
error [nextflow.exception.ProcessFailedException]: Process `HUMAN_TRANSFORMER (54)` terminated with an error exit status (130)
|
||||
Mar-18 21:20:29.245 [TaskFinalizer-3] INFO nextflow.processor.TaskProcessor - [32/fb9e93] NOTE: Process `HUMAN_TRANSFORMER (54)` terminated with an error exit status (130) -- Execution is retried (1)
|
||||
Mar-18 21:20:29.245 [TaskFinalizer-5] DEBUG nextflow.processor.TaskProcessor - Handling unexpected condition for
|
||||
task: name=HUMAN_TRANSFORMER (40); work-dir=/data/bugra/digital_trials/work/5a/faa523c3ce4d70240791b474747fde
|
||||
error [nextflow.exception.ProcessFailedException]: Process `HUMAN_TRANSFORMER (40)` terminated with an error exit status (130)
|
||||
Mar-18 21:20:29.245 [main] DEBUG n.executor.local.LocalTaskHandler - Unable to kill HUMAN_TRANSFORMER (33) -- command: kill -TERM 762806; exit: 1
|
||||
bash: line 1: kill: (762806) - No such process
|
||||
|
||||
Mar-18 21:20:29.246 [TaskFinalizer-5] INFO nextflow.processor.TaskProcessor - [5a/faa523] NOTE: Process `HUMAN_TRANSFORMER (40)` terminated with an error exit status (130) -- Execution is retried (1)
|
||||
Mar-18 21:20:29.247 [TaskFinalizer-7] DEBUG nextflow.processor.TaskProcessor - Handling unexpected condition for
|
||||
task: name=HUMAN_TRANSFORMER (35); work-dir=/data/bugra/digital_trials/work/2a/96b957dfb012e27d77c31f4b94d051
|
||||
error [nextflow.exception.ProcessFailedException]: Process `HUMAN_TRANSFORMER (35)` terminated with an error exit status (130)
|
||||
Mar-18 21:20:29.247 [Task monitor] DEBUG n.processor.TaskPollingMonitor - Task completed > TaskHandler[id: 60; name: HUMAN_TRANSFORMER (60); status: COMPLETED; exit: 130; error: -; workDir: /data/bugra/digital_trials/work/74/3c1d464c97545d0573e617639c1996]
|
||||
Mar-18 21:20:29.248 [TaskFinalizer-7] INFO nextflow.processor.TaskProcessor - [2a/96b957] NOTE: Process `HUMAN_TRANSFORMER (35)` terminated with an error exit status (130) -- Execution is retried (1)
|
||||
Mar-18 21:20:29.248 [TaskFinalizer-1] DEBUG nextflow.processor.TaskProcessor - Handling unexpected condition for
|
||||
task: name=HUMAN_TRANSFORMER (74); work-dir=/data/bugra/digital_trials/work/0f/9a0cd5d97aee26e6b419677d571f1d
|
||||
error [nextflow.exception.ProcessFailedException]: Process `HUMAN_TRANSFORMER (74)` terminated with an error exit status (130)
|
||||
Mar-18 21:20:29.248 [Task monitor] DEBUG n.processor.TaskPollingMonitor - Task completed > TaskHandler[id: 42; name: HUMAN_TRANSFORMER (42); status: COMPLETED; exit: 130; error: -; workDir: /data/bugra/digital_trials/work/03/bc533b3f0412ff4170434e49742e08]
|
||||
Mar-18 21:20:29.249 [TaskFinalizer-1] INFO nextflow.processor.TaskProcessor - [0f/9a0cd5] NOTE: Process `HUMAN_TRANSFORMER (74)` terminated with an error exit status (130) -- Execution is retried (1)
|
||||
Mar-18 21:20:29.249 [main] DEBUG n.executor.local.LocalTaskHandler - Unable to kill HUMAN_TRANSFORMER (60) -- command: kill -TERM 762866; exit: 1
|
||||
bash: line 1: kill: (762866) - No such process
|
||||
|
||||
Mar-18 21:20:29.249 [TaskFinalizer-8] DEBUG nextflow.processor.TaskProcessor - Handling unexpected condition for
|
||||
task: name=HUMAN_TRANSFORMER (86); work-dir=/data/bugra/digital_trials/work/fd/0b14fd788e43705a0d86419395e93c
|
||||
error [nextflow.exception.ProcessFailedException]: Process `HUMAN_TRANSFORMER (86)` terminated with an error exit status (130)
|
||||
Mar-18 21:20:29.250 [TaskFinalizer-8] INFO nextflow.processor.TaskProcessor - [fd/0b14fd] NOTE: Process `HUMAN_TRANSFORMER (86)` terminated with an error exit status (130) -- Execution is retried (1)
|
||||
Mar-18 21:20:29.251 [TaskFinalizer-9] DEBUG nextflow.processor.TaskProcessor - Handling unexpected condition for
|
||||
task: name=HUMAN_TRANSFORMER (51); work-dir=/data/bugra/digital_trials/work/a6/cc7c28680437f5e2c42a1709323bb7
|
||||
error [nextflow.exception.ProcessFailedException]: Process `HUMAN_TRANSFORMER (51)` terminated with an error exit status (130)
|
||||
Mar-18 21:20:29.251 [Task monitor] DEBUG n.processor.TaskPollingMonitor - Task completed > TaskHandler[id: 49; name: HUMAN_TRANSFORMER (49); status: COMPLETED; exit: 130; error: -; workDir: /data/bugra/digital_trials/work/22/fd1af06b9e3d47711a38d32e512b6a]
|
||||
Mar-18 21:20:29.252 [Task monitor] DEBUG n.processor.TaskPollingMonitor - Task completed > TaskHandler[id: 61; name: HUMAN_TRANSFORMER (61); status: COMPLETED; exit: 130; error: -; workDir: /data/bugra/digital_trials/work/43/60db45ede0bd4446d23695ada0d61e]
|
||||
Mar-18 21:20:29.252 [TaskFinalizer-9] INFO nextflow.processor.TaskProcessor - [a6/cc7c28] NOTE: Process `HUMAN_TRANSFORMER (51)` terminated with an error exit status (130) -- Execution is retried (1)
|
||||
Mar-18 21:20:29.252 [TaskFinalizer-4] DEBUG nextflow.processor.TaskProcessor - Handling unexpected condition for
|
||||
task: name=HUMAN_TRANSFORMER (55); work-dir=/data/bugra/digital_trials/work/fb/faa4aaa5a507b07f6ad9fb9cdf2127
|
||||
error [nextflow.exception.ProcessFailedException]: Process `HUMAN_TRANSFORMER (55)` terminated with an error exit status (130)
|
||||
Mar-18 21:20:29.253 [Task monitor] DEBUG n.processor.TaskPollingMonitor - Task completed > TaskHandler[id: 47; name: HUMAN_TRANSFORMER (47); status: COMPLETED; exit: 130; error: -; workDir: /data/bugra/digital_trials/work/c3/96d9ca9db58d7b185d3a1593398cf5]
|
||||
Mar-18 21:20:29.253 [TaskFinalizer-4] INFO nextflow.processor.TaskProcessor - [fb/faa4aa] NOTE: Process `HUMAN_TRANSFORMER (55)` terminated with an error exit status (130) -- Execution is retried (1)
|
||||
Mar-18 21:20:29.253 [TaskFinalizer-8] DEBUG nextflow.processor.TaskProcessor - Handling unexpected condition for
|
||||
task: name=HUMAN_TRANSFORMER (70); work-dir=/data/bugra/digital_trials/work/21/9c8453efe5eeb789846c2451f0a13f
|
||||
error [nextflow.exception.ProcessFailedException]: Process `HUMAN_TRANSFORMER (70)` terminated with an error exit status (130)
|
||||
Mar-18 21:20:29.254 [main] DEBUG n.executor.local.LocalTaskHandler - Unable to kill HUMAN_TRANSFORMER (49) -- command: kill -TERM 762944; exit: 1
|
||||
bash: line 1: kill: (762944) - No such process
|
||||
|
||||
Mar-18 21:20:29.254 [Task monitor] DEBUG n.processor.TaskPollingMonitor - Task completed > TaskHandler[id: 28; name: HUMAN_TRANSFORMER (28); status: COMPLETED; exit: 130; error: -; workDir: /data/bugra/digital_trials/work/1e/136b163a14f2e329c0a63def34303a]
|
||||
Mar-18 21:20:29.254 [TaskFinalizer-8] INFO nextflow.processor.TaskProcessor - [21/9c8453] NOTE: Process `HUMAN_TRANSFORMER (70)` terminated with an error exit status (130) -- Execution is retried (1)
|
||||
Mar-18 21:20:29.255 [TaskFinalizer-1] DEBUG nextflow.processor.TaskProcessor - Handling unexpected condition for
|
||||
task: name=HUMAN_TRANSFORMER (80); work-dir=/data/bugra/digital_trials/work/75/1131f1d70cc028dd7b726be37d1e31
|
||||
error [nextflow.exception.ProcessFailedException]: Process `HUMAN_TRANSFORMER (80)` terminated with an error exit status (130)
|
||||
Mar-18 21:20:29.255 [Task monitor] DEBUG n.processor.TaskPollingMonitor - Task completed > TaskHandler[id: 21; name: HUMAN_TRANSFORMER (21); status: COMPLETED; exit: 130; error: -; workDir: /data/bugra/digital_trials/work/b3/18f2d8de1dee7ebd1e29c36766bb38]
|
||||
Mar-18 21:20:29.256 [TaskFinalizer-1] INFO nextflow.processor.TaskProcessor - [75/1131f1] NOTE: Process `HUMAN_TRANSFORMER (80)` terminated with an error exit status (130) -- Execution is retried (1)
|
||||
Mar-18 21:20:29.256 [TaskFinalizer-7] DEBUG nextflow.processor.TaskProcessor - Handling unexpected condition for
|
||||
task: name=HUMAN_TRANSFORMER (95); work-dir=/data/bugra/digital_trials/work/4c/6bcf63f1afb66a1ed51a58c8ef54a3
|
||||
error [nextflow.exception.ProcessFailedException]: Process `HUMAN_TRANSFORMER (95)` terminated with an error exit status (130)
|
||||
Mar-18 21:20:29.256 [Task monitor] DEBUG n.processor.TaskPollingMonitor - Task completed > TaskHandler[id: 26; name: HUMAN_TRANSFORMER (26); status: COMPLETED; exit: 130; error: -; workDir: /data/bugra/digital_trials/work/eb/bd17199be64672ed1cd2a9c2de98fc]
|
||||
Mar-18 21:20:29.257 [TaskFinalizer-7] INFO nextflow.processor.TaskProcessor - [4c/6bcf63] NOTE: Process `HUMAN_TRANSFORMER (95)` terminated with an error exit status (130) -- Execution is retried (1)
|
||||
Mar-18 21:20:29.257 [Task monitor] DEBUG n.processor.TaskPollingMonitor - Task completed > TaskHandler[id: 69; name: HUMAN_TRANSFORMER (69); status: COMPLETED; exit: 130; error: -; workDir: /data/bugra/digital_trials/work/2d/813f736812d2fe55b217ee6f3a6080]
|
||||
Mar-18 21:20:29.257 [TaskFinalizer-5] DEBUG nextflow.processor.TaskProcessor - Handling unexpected condition for
|
||||
task: name=HUMAN_TRANSFORMER (58); work-dir=/data/bugra/digital_trials/work/95/e721b6a649d83eb7e942021377d531
|
||||
error [nextflow.exception.ProcessFailedException]: Process `HUMAN_TRANSFORMER (58)` terminated with an error exit status (130)
|
||||
Mar-18 21:20:29.258 [Task monitor] DEBUG n.processor.TaskPollingMonitor - Task completed > TaskHandler[id: 62; name: HUMAN_TRANSFORMER (62); status: COMPLETED; exit: 130; error: -; workDir: /data/bugra/digital_trials/work/d6/469d3a52fd3e47c31e3f9629531225]
|
||||
Mar-18 21:20:29.258 [TaskFinalizer-5] INFO nextflow.processor.TaskProcessor - [95/e721b6] NOTE: Process `HUMAN_TRANSFORMER (58)` terminated with an error exit status (130) -- Execution is retried (1)
|
||||
Mar-18 21:20:29.258 [TaskFinalizer-3] DEBUG nextflow.processor.TaskProcessor - Handling unexpected condition for
|
||||
task: name=HUMAN_TRANSFORMER (73); work-dir=/data/bugra/digital_trials/work/7f/99628294d9fb367576004fc4cff3eb
|
||||
error [nextflow.exception.ProcessFailedException]: Process `HUMAN_TRANSFORMER (73)` terminated with an error exit status (130)
|
||||
Mar-18 21:20:29.259 [main] DEBUG n.executor.local.LocalTaskHandler - Unable to kill HUMAN_TRANSFORMER (21) -- command: kill -TERM 763075; exit: 1
|
||||
bash: line 1: kill: (763075) - No such process
|
||||
|
||||
Mar-18 21:20:29.259 [Task monitor] DEBUG n.processor.TaskPollingMonitor - Task completed > TaskHandler[id: 15; name: HUMAN_TRANSFORMER (15); status: COMPLETED; exit: 130; error: -; workDir: /data/bugra/digital_trials/work/7d/6149e5bb637d5906e412e869847053]
|
||||
Mar-18 21:20:29.259 [TaskFinalizer-3] INFO nextflow.processor.TaskProcessor - [7f/996282] NOTE: Process `HUMAN_TRANSFORMER (73)` terminated with an error exit status (130) -- Execution is retried (1)
|
||||
Mar-18 21:20:29.260 [TaskFinalizer-6] DEBUG nextflow.processor.TaskProcessor - Handling unexpected condition for
|
||||
task: name=HUMAN_TRANSFORMER (13); work-dir=/data/bugra/digital_trials/work/99/0bf7d908b80de58cfef30a9ae30875
|
||||
error [nextflow.exception.ProcessFailedException]: Process `HUMAN_TRANSFORMER (13)` terminated with an error exit status (130)
|
||||
Mar-18 21:20:29.260 [TaskFinalizer-6] INFO nextflow.processor.TaskProcessor - [99/0bf7d9] NOTE: Process `HUMAN_TRANSFORMER (13)` terminated with an error exit status (130) -- Execution is retried (1)
|
||||
Mar-18 21:20:29.260 [Task monitor] DEBUG n.processor.TaskPollingMonitor - Task completed > TaskHandler[id: 4; name: HUMAN_TRANSFORMER (4); status: COMPLETED; exit: 130; error: -; workDir: /data/bugra/digital_trials/work/b0/358e0857d3fc84723c4c6f68449def]
|
||||
Mar-18 21:20:29.261 [TaskFinalizer-10] DEBUG nextflow.processor.TaskProcessor - Handling unexpected condition for
|
||||
task: name=HUMAN_TRANSFORMER (25); work-dir=/data/bugra/digital_trials/work/a4/46870eb8ce5691c0f2149045550ad7
|
||||
error [nextflow.exception.ProcessFailedException]: Process `HUMAN_TRANSFORMER (25)` terminated with an error exit status (130)
|
||||
Mar-18 21:20:29.261 [Task monitor] DEBUG n.processor.TaskPollingMonitor - Task completed > TaskHandler[id: 79; name: HUMAN_TRANSFORMER (79); status: COMPLETED; exit: 130; error: -; workDir: /data/bugra/digital_trials/work/97/d91d948e50cf63f8b4ff02716cae35]
|
||||
Mar-18 21:20:29.262 [TaskFinalizer-10] INFO nextflow.processor.TaskProcessor - [a4/46870e] NOTE: Process `HUMAN_TRANSFORMER (25)` terminated with an error exit status (130) -- Execution is retried (1)
|
||||
Mar-18 21:20:29.262 [TaskFinalizer-2] DEBUG nextflow.processor.TaskProcessor - Handling unexpected condition for
|
||||
task: name=HUMAN_TRANSFORMER (1); work-dir=/data/bugra/digital_trials/work/a4/4bea8fb78d84cb4e6a1b3b78de1a1d
|
||||
error [nextflow.exception.ProcessFailedException]: Process `HUMAN_TRANSFORMER (1)` terminated with an error exit status (130)
|
||||
Mar-18 21:20:29.263 [Task monitor] DEBUG n.processor.TaskPollingMonitor - Task completed > TaskHandler[id: 52; name: HUMAN_TRANSFORMER (52); status: COMPLETED; exit: 130; error: -; workDir: /data/bugra/digital_trials/work/58/36391d12e7f01e89c4c4b007a48fdf]
|
||||
Mar-18 21:20:29.263 [TaskFinalizer-2] INFO nextflow.processor.TaskProcessor - [a4/4bea8f] NOTE: Process `HUMAN_TRANSFORMER (1)` terminated with an error exit status (130) -- Execution is retried (1)
|
||||
Mar-18 21:20:29.263 [TaskFinalizer-6] DEBUG nextflow.processor.TaskProcessor - Handling unexpected condition for
|
||||
task: name=HUMAN_TRANSFORMER (6); work-dir=/data/bugra/digital_trials/work/3f/075456044e2114e2f07d282a4652f8
|
||||
error [nextflow.exception.ProcessFailedException]: Process `HUMAN_TRANSFORMER (6)` terminated with an error exit status (130)
|
||||
Mar-18 21:20:29.264 [main] DEBUG n.executor.local.LocalTaskHandler - Unable to kill HUMAN_TRANSFORMER (4) -- command: kill -TERM 763174; exit: 1
|
||||
bash: line 1: kill: (763174) - No such process
|
||||
|
||||
Mar-18 21:20:29.264 [TaskFinalizer-6] INFO nextflow.processor.TaskProcessor - [3f/075456] NOTE: Process `HUMAN_TRANSFORMER (6)` terminated with an error exit status (130) -- Execution is retried (1)
|
||||
Mar-18 21:20:29.264 [TaskFinalizer-3] DEBUG nextflow.processor.TaskProcessor - Handling unexpected condition for
|
||||
task: name=HUMAN_TRANSFORMER (33); work-dir=/data/bugra/digital_trials/work/ed/3b042b5b484c9ff44f2901ae29af3b
|
||||
error [nextflow.exception.ProcessFailedException]: Process `HUMAN_TRANSFORMER (33)` terminated with an error exit status (130)
|
||||
Mar-18 21:20:29.264 [Task monitor] DEBUG n.processor.TaskPollingMonitor - Task completed > TaskHandler[id: 66; name: HUMAN_TRANSFORMER (66); status: COMPLETED; exit: 130; error: -; workDir: /data/bugra/digital_trials/work/16/6dd6cfac099d7134782d3b80712847]
|
||||
Mar-18 21:20:29.265 [TaskFinalizer-3] INFO nextflow.processor.TaskProcessor - [ed/3b042b] NOTE: Process `HUMAN_TRANSFORMER (33)` terminated with an error exit status (130) -- Execution is retried (1)
|
||||
Mar-18 21:20:29.265 [Task monitor] DEBUG n.processor.TaskPollingMonitor - Task completed > TaskHandler[id: 43; name: HUMAN_TRANSFORMER (43); status: COMPLETED; exit: 130; error: -; workDir: /data/bugra/digital_trials/work/44/42e04d6d950d65bdc5c53a29f24aff]
|
||||
Mar-18 21:20:29.266 [TaskFinalizer-5] DEBUG nextflow.processor.TaskProcessor - Handling unexpected condition for
|
||||
task: name=HUMAN_TRANSFORMER (78); work-dir=/data/bugra/digital_trials/work/68/1826f56db8ca6748424d2048035406
|
||||
error [nextflow.exception.ProcessFailedException]: Process `HUMAN_TRANSFORMER (78)` terminated with an error exit status (130)
|
||||
Mar-18 21:20:29.266 [Task monitor] DEBUG n.processor.TaskPollingMonitor - Task completed > TaskHandler[id: 123; name: HUMAN_TRANSFORMER (123); status: COMPLETED; exit: 130; error: -; workDir: /data/bugra/digital_trials/work/34/bc34dfc5b77bd45bf850bbefd1ade3]
|
||||
Mar-18 21:20:29.266 [TaskFinalizer-5] INFO nextflow.processor.TaskProcessor - [68/1826f5] NOTE: Process `HUMAN_TRANSFORMER (78)` terminated with an error exit status (130) -- Execution is retried (1)
|
||||
Mar-18 21:20:29.267 [TaskFinalizer-7] DEBUG nextflow.processor.TaskProcessor - Handling unexpected condition for
|
||||
task: name=HUMAN_TRANSFORMER (39); work-dir=/data/bugra/digital_trials/work/b5/f389239211a370dc32541c3a4fa3e7
|
||||
error [nextflow.exception.ProcessFailedException]: Process `HUMAN_TRANSFORMER (39)` terminated with an error exit status (130)
|
||||
Mar-18 21:20:29.268 [TaskFinalizer-7] INFO nextflow.processor.TaskProcessor - [b5/f38923] NOTE: Process `HUMAN_TRANSFORMER (39)` terminated with an error exit status (130) -- Execution is retried (1)
|
||||
Mar-18 21:20:29.268 [Task monitor] DEBUG n.processor.TaskPollingMonitor - Task completed > TaskHandler[id: 44; name: HUMAN_TRANSFORMER (44); status: COMPLETED; exit: 130; error: -; workDir: /data/bugra/digital_trials/work/23/9ecd04cb0afa1a6189c69d0c0fe507]
|
||||
Mar-18 21:20:29.268 [TaskFinalizer-1] DEBUG nextflow.processor.TaskProcessor - Handling unexpected condition for
|
||||
task: name=HUMAN_TRANSFORMER (46); work-dir=/data/bugra/digital_trials/work/da/540299373969ef3de95545b6de644f
|
||||
error [nextflow.exception.ProcessFailedException]: Process `HUMAN_TRANSFORMER (46)` terminated with an error exit status (130)
|
||||
Mar-18 21:20:29.268 [main] DEBUG n.executor.local.LocalTaskHandler - Unable to kill HUMAN_TRANSFORMER (43) -- command: kill -TERM 763252; exit: 1
|
||||
bash: line 1: kill: (763252) - No such process
|
||||
|
||||
Mar-18 21:20:29.269 [TaskFinalizer-1] INFO nextflow.processor.TaskProcessor - [da/540299] NOTE: Process `HUMAN_TRANSFORMER (46)` terminated with an error exit status (130) -- Execution is retried (1)
|
||||
Mar-18 21:20:29.269 [Task monitor] DEBUG n.processor.TaskPollingMonitor - Task completed > TaskHandler[id: 30; name: HUMAN_TRANSFORMER (30); status: COMPLETED; exit: 130; error: -; workDir: /data/bugra/digital_trials/work/72/7527282097aa9de800c0e570242280]
|
||||
Mar-18 21:20:29.269 [TaskFinalizer-8] DEBUG nextflow.processor.TaskProcessor - Handling unexpected condition for
|
||||
task: name=HUMAN_TRANSFORMER (5); work-dir=/data/bugra/digital_trials/work/ab/216ae0fc95fd279206b22f34dc000a
|
||||
error [nextflow.exception.ProcessFailedException]: Process `HUMAN_TRANSFORMER (5)` terminated with an error exit status (130)
|
||||
Mar-18 21:20:29.270 [TaskFinalizer-8] INFO nextflow.processor.TaskProcessor - [ab/216ae0] NOTE: Process `HUMAN_TRANSFORMER (5)` terminated with an error exit status (130) -- Execution is retried (1)
|
||||
Mar-18 21:20:29.270 [TaskFinalizer-4] DEBUG nextflow.processor.TaskProcessor - Handling unexpected condition for
|
||||
task: name=HUMAN_TRANSFORMER (100); work-dir=/data/bugra/digital_trials/work/9f/6ebe51bfe8573e36f728abd651796c
|
||||
error [nextflow.exception.ProcessFailedException]: Process `HUMAN_TRANSFORMER (100)` terminated with an error exit status (130)
|
||||
Mar-18 21:20:29.271 [Task monitor] DEBUG n.processor.TaskPollingMonitor - <<< barrier arrives (monitor: local) - terminating tasks monitor poll loop
|
||||
Mar-18 21:20:29.271 [TaskFinalizer-4] INFO nextflow.processor.TaskProcessor - [9f/6ebe51] NOTE: Process `HUMAN_TRANSFORMER (100)` terminated with an error exit status (130) -- Execution is retried (1)
|
||||
Mar-18 21:20:29.272 [TaskFinalizer-9] DEBUG nextflow.processor.TaskProcessor - Handling unexpected condition for
|
||||
task: name=HUMAN_TRANSFORMER (50); work-dir=/data/bugra/digital_trials/work/45/5aca403dc4da2c3d24fe10177924c8
|
||||
error [nextflow.exception.ProcessFailedException]: Process `HUMAN_TRANSFORMER (50)` terminated with an error exit status (130)
|
||||
Mar-18 21:20:29.272 [TaskFinalizer-9] INFO nextflow.processor.TaskProcessor - [45/5aca40] NOTE: Process `HUMAN_TRANSFORMER (50)` terminated with an error exit status (130) -- Execution is retried (1)
|
||||
Mar-18 21:20:29.273 [TaskFinalizer-8] DEBUG nextflow.processor.TaskProcessor - Handling unexpected condition for
|
||||
task: name=HUMAN_TRANSFORMER (21); work-dir=/data/bugra/digital_trials/work/b3/18f2d8de1dee7ebd1e29c36766bb38
|
||||
error [nextflow.exception.ProcessFailedException]: Process `HUMAN_TRANSFORMER (21)` terminated with an error exit status (130)
|
||||
Mar-18 21:20:29.273 [main] DEBUG n.trace.WorkflowStatsObserver - Workflow completed > WorkflowStats[succeededCount=0; failedCount=24; ignoredCount=0; cachedCount=0; pendingCount=524; submittedCount=0; runningCount=13; retriesCount=24; abortedCount=13; succeedDuration=0ms; failedDuration=3m 33s; cachedDuration=0ms;loadCpus=13; loadMemory=65 GB; peakRunning=50; peakCpus=50; peakMemory=250 GB; ]
|
||||
Mar-18 21:20:29.274 [TaskFinalizer-8] INFO nextflow.processor.TaskProcessor - [b3/18f2d8] NOTE: Process `HUMAN_TRANSFORMER (21)` terminated with an error exit status (130) -- Execution is retried (1)
|
||||
Mar-18 21:20:29.274 [TaskFinalizer-1] DEBUG nextflow.processor.TaskProcessor - Handling unexpected condition for
|
||||
task: name=HUMAN_TRANSFORMER (28); work-dir=/data/bugra/digital_trials/work/1e/136b163a14f2e329c0a63def34303a
|
||||
error [nextflow.exception.ProcessFailedException]: Process `HUMAN_TRANSFORMER (28)` terminated with an error exit status (130)
|
||||
Mar-18 21:20:29.275 [TaskFinalizer-1] INFO nextflow.processor.TaskProcessor - [1e/136b16] NOTE: Process `HUMAN_TRANSFORMER (28)` terminated with an error exit status (130) -- Execution is retried (1)
|
||||
Mar-18 21:20:29.275 [TaskFinalizer-7] DEBUG nextflow.processor.TaskProcessor - Handling unexpected condition for
|
||||
task: name=HUMAN_TRANSFORMER (47); work-dir=/data/bugra/digital_trials/work/c3/96d9ca9db58d7b185d3a1593398cf5
|
||||
error [nextflow.exception.ProcessFailedException]: Process `HUMAN_TRANSFORMER (47)` terminated with an error exit status (130)
|
||||
Mar-18 21:20:29.277 [TaskFinalizer-7] ERROR nextflow.processor.TaskProcessor - Execution aborted due to an unexpected error
|
||||
java.lang.NullPointerException: Cannot invoke method submit() on null object
|
||||
at org.codehaus.groovy.runtime.NullObject.invokeMethod(NullObject.java:113)
|
||||
at org.codehaus.groovy.vmplugin.v8.IndyGuardsFiltersAndSignatures.invokeGroovyObjectInvoker(IndyGuardsFiltersAndSignatures.java:151)
|
||||
at org.codehaus.groovy.vmplugin.v8.IndyInterface.fromCache(IndyInterface.java:321)
|
||||
at nextflow.processor.TaskProcessor.checkErrorStrategy(TaskProcessor.groovy:1163)
|
||||
at org.codehaus.groovy.vmplugin.v8.IndyInterface.fromCache(IndyInterface.java:321)
|
||||
at nextflow.processor.TaskProcessor.resumeOrDie(TaskProcessor.groovy:1077)
|
||||
at org.codehaus.groovy.vmplugin.v8.IndyInterface.fromCache(IndyInterface.java:321)
|
||||
at nextflow.processor.TaskProcessor.finalizeTask(TaskProcessor.groovy:2402)
|
||||
at nextflow.processor.TaskPollingMonitor.finalizeTask(TaskPollingMonitor.groovy:696)
|
||||
at nextflow.processor.TaskPollingMonitor.safeFinalizeTask(TaskPollingMonitor.groovy:686)
|
||||
at java.base/jdk.internal.reflect.DirectMethodHandleAccessor.invoke(DirectMethodHandleAccessor.java:103)
|
||||
at java.base/java.lang.reflect.Method.invoke(Method.java:580)
|
||||
at org.codehaus.groovy.reflection.CachedMethod.invoke(CachedMethod.java:343)
|
||||
at groovy.lang.MetaMethod.doMethodInvoke(MetaMethod.java:328)
|
||||
at groovy.lang.MetaClassImpl.doInvokeMethod(MetaClassImpl.java:1333)
|
||||
at groovy.lang.MetaClassImpl.invokeMethod(MetaClassImpl.java:1088)
|
||||
at groovy.lang.MetaClassImpl.invokeMethod(MetaClassImpl.java:1007)
|
||||
at org.codehaus.groovy.runtime.InvokerHelper.invokePogoMethod(InvokerHelper.java:645)
|
||||
at org.codehaus.groovy.runtime.InvokerHelper.invokeMethod(InvokerHelper.java:628)
|
||||
at org.codehaus.groovy.runtime.InvokerHelper.invokeMethodSafe(InvokerHelper.java:82)
|
||||
at nextflow.processor.TaskPollingMonitor$_checkTaskStatus_lambda8.doCall(TaskPollingMonitor.groovy:676)
|
||||
at java.base/java.util.concurrent.Executors$RunnableAdapter.call(Executors.java:572)
|
||||
at java.base/java.util.concurrent.FutureTask.run(FutureTask.java:317)
|
||||
at java.base/java.util.concurrent.ThreadPoolExecutor.runWorker(ThreadPoolExecutor.java:1144)
|
||||
at java.base/java.util.concurrent.ThreadPoolExecutor$Worker.run(ThreadPoolExecutor.java:642)
|
||||
at java.base/java.lang.Thread.run(Thread.java:1583)
|
||||
Mar-18 21:20:29.293 [TaskFinalizer-5] DEBUG nextflow.processor.TaskProcessor - Handling unexpected condition for
|
||||
task: name=HUMAN_TRANSFORMER (61); work-dir=/data/bugra/digital_trials/work/43/60db45ede0bd4446d23695ada0d61e
|
||||
error [nextflow.exception.ProcessFailedException]: Process `HUMAN_TRANSFORMER (61)` terminated with an error exit status (130)
|
||||
Mar-18 21:20:29.294 [TaskFinalizer-5] ERROR nextflow.processor.TaskProcessor - Execution aborted due to an unexpected error
|
||||
java.lang.NullPointerException: Cannot invoke method submit() on null object
|
||||
at org.codehaus.groovy.runtime.NullObject.invokeMethod(NullObject.java:113)
|
||||
at org.codehaus.groovy.vmplugin.v8.IndyGuardsFiltersAndSignatures.invokeGroovyObjectInvoker(IndyGuardsFiltersAndSignatures.java:151)
|
||||
at org.codehaus.groovy.vmplugin.v8.IndyInterface.fromCache(IndyInterface.java:321)
|
||||
at nextflow.processor.TaskProcessor.checkErrorStrategy(TaskProcessor.groovy:1163)
|
||||
at org.codehaus.groovy.vmplugin.v8.IndyInterface.fromCache(IndyInterface.java:321)
|
||||
at nextflow.processor.TaskProcessor.resumeOrDie(TaskProcessor.groovy:1077)
|
||||
at org.codehaus.groovy.vmplugin.v8.IndyInterface.fromCache(IndyInterface.java:321)
|
||||
at nextflow.processor.TaskProcessor.finalizeTask(TaskProcessor.groovy:2402)
|
||||
at nextflow.processor.TaskPollingMonitor.finalizeTask(TaskPollingMonitor.groovy:696)
|
||||
at nextflow.processor.TaskPollingMonitor.safeFinalizeTask(TaskPollingMonitor.groovy:686)
|
||||
at java.base/jdk.internal.reflect.DirectMethodHandleAccessor.invoke(DirectMethodHandleAccessor.java:103)
|
||||
at java.base/java.lang.reflect.Method.invoke(Method.java:580)
|
||||
at org.codehaus.groovy.reflection.CachedMethod.invoke(CachedMethod.java:343)
|
||||
at groovy.lang.MetaMethod.doMethodInvoke(MetaMethod.java:328)
|
||||
at groovy.lang.MetaClassImpl.doInvokeMethod(MetaClassImpl.java:1333)
|
||||
at groovy.lang.MetaClassImpl.invokeMethod(MetaClassImpl.java:1088)
|
||||
at groovy.lang.MetaClassImpl.invokeMethod(MetaClassImpl.java:1007)
|
||||
at org.codehaus.groovy.runtime.InvokerHelper.invokePogoMethod(InvokerHelper.java:645)
|
||||
at org.codehaus.groovy.runtime.InvokerHelper.invokeMethod(InvokerHelper.java:628)
|
||||
at org.codehaus.groovy.runtime.InvokerHelper.invokeMethodSafe(InvokerHelper.java:82)
|
||||
at nextflow.processor.TaskPollingMonitor$_checkTaskStatus_lambda8.doCall(TaskPollingMonitor.groovy:676)
|
||||
at java.base/java.util.concurrent.Executors$RunnableAdapter.call(Executors.java:572)
|
||||
at java.base/java.util.concurrent.FutureTask.run(FutureTask.java:317)
|
||||
at java.base/java.util.concurrent.ThreadPoolExecutor.runWorker(ThreadPoolExecutor.java:1144)
|
||||
at java.base/java.util.concurrent.ThreadPoolExecutor$Worker.run(ThreadPoolExecutor.java:642)
|
||||
at java.base/java.lang.Thread.run(Thread.java:1583)
|
||||
Mar-18 21:20:29.295 [TaskFinalizer-3] DEBUG nextflow.processor.TaskProcessor - Handling unexpected condition for
|
||||
task: name=HUMAN_TRANSFORMER (49); work-dir=/data/bugra/digital_trials/work/22/fd1af06b9e3d47711a38d32e512b6a
|
||||
error [nextflow.exception.ProcessFailedException]: Process `HUMAN_TRANSFORMER (49)` terminated with an error exit status (130)
|
||||
Mar-18 21:20:29.295 [TaskFinalizer-3] ERROR nextflow.processor.TaskProcessor - Execution aborted due to an unexpected error
|
||||
java.lang.NullPointerException: Cannot invoke method submit() on null object
|
||||
at org.codehaus.groovy.runtime.NullObject.invokeMethod(NullObject.java:113)
|
||||
at org.codehaus.groovy.vmplugin.v8.IndyGuardsFiltersAndSignatures.invokeGroovyObjectInvoker(IndyGuardsFiltersAndSignatures.java:151)
|
||||
at org.codehaus.groovy.vmplugin.v8.IndyInterface.fromCache(IndyInterface.java:321)
|
||||
at nextflow.processor.TaskProcessor.checkErrorStrategy(TaskProcessor.groovy:1163)
|
||||
at org.codehaus.groovy.vmplugin.v8.IndyInterface.fromCache(IndyInterface.java:321)
|
||||
at nextflow.processor.TaskProcessor.resumeOrDie(TaskProcessor.groovy:1077)
|
||||
at org.codehaus.groovy.vmplugin.v8.IndyInterface.fromCache(IndyInterface.java:321)
|
||||
at nextflow.processor.TaskProcessor.finalizeTask(TaskProcessor.groovy:2402)
|
||||
at nextflow.processor.TaskPollingMonitor.finalizeTask(TaskPollingMonitor.groovy:696)
|
||||
at nextflow.processor.TaskPollingMonitor.safeFinalizeTask(TaskPollingMonitor.groovy:686)
|
||||
at java.base/jdk.internal.reflect.DirectMethodHandleAccessor.invoke(DirectMethodHandleAccessor.java:103)
|
||||
at java.base/java.lang.reflect.Method.invoke(Method.java:580)
|
||||
at org.codehaus.groovy.reflection.CachedMethod.invoke(CachedMethod.java:343)
|
||||
at groovy.lang.MetaMethod.doMethodInvoke(MetaMethod.java:328)
|
||||
at groovy.lang.MetaClassImpl.doInvokeMethod(MetaClassImpl.java:1333)
|
||||
at groovy.lang.MetaClassImpl.invokeMethod(MetaClassImpl.java:1088)
|
||||
at groovy.lang.MetaClassImpl.invokeMethod(MetaClassImpl.java:1007)
|
||||
at org.codehaus.groovy.runtime.InvokerHelper.invokePogoMethod(InvokerHelper.java:645)
|
||||
at org.codehaus.groovy.runtime.InvokerHelper.invokeMethod(InvokerHelper.java:628)
|
||||
at org.codehaus.groovy.runtime.InvokerHelper.invokeMethodSafe(InvokerHelper.java:82)
|
||||
at nextflow.processor.TaskPollingMonitor$_checkTaskStatus_lambda8.doCall(TaskPollingMonitor.groovy:676)
|
||||
at java.base/java.util.concurrent.Executors$RunnableAdapter.call(Executors.java:572)
|
||||
at java.base/java.util.concurrent.FutureTask.run(FutureTask.java:317)
|
||||
at java.base/java.util.concurrent.ThreadPoolExecutor.runWorker(ThreadPoolExecutor.java:1144)
|
||||
at java.base/java.util.concurrent.ThreadPoolExecutor$Worker.run(ThreadPoolExecutor.java:642)
|
||||
at java.base/java.lang.Thread.run(Thread.java:1583)
|
||||
Mar-18 21:20:29.296 [TaskFinalizer-6] DEBUG nextflow.processor.TaskProcessor - Handling unexpected condition for
|
||||
task: name=HUMAN_TRANSFORMER (42); work-dir=/data/bugra/digital_trials/work/03/bc533b3f0412ff4170434e49742e08
|
||||
error [nextflow.exception.ProcessFailedException]: Process `HUMAN_TRANSFORMER (42)` terminated with an error exit status (130)
|
||||
Mar-18 21:20:29.296 [TaskFinalizer-6] ERROR nextflow.processor.TaskProcessor - Execution aborted due to an unexpected error
|
||||
java.lang.NullPointerException: Cannot invoke method submit() on null object
|
||||
at org.codehaus.groovy.runtime.NullObject.invokeMethod(NullObject.java:113)
|
||||
at org.codehaus.groovy.vmplugin.v8.IndyGuardsFiltersAndSignatures.invokeGroovyObjectInvoker(IndyGuardsFiltersAndSignatures.java:151)
|
||||
at org.codehaus.groovy.vmplugin.v8.IndyInterface.fromCache(IndyInterface.java:321)
|
||||
at nextflow.processor.TaskProcessor.checkErrorStrategy(TaskProcessor.groovy:1163)
|
||||
at org.codehaus.groovy.vmplugin.v8.IndyInterface.fromCache(IndyInterface.java:321)
|
||||
at nextflow.processor.TaskProcessor.resumeOrDie(TaskProcessor.groovy:1077)
|
||||
at org.codehaus.groovy.vmplugin.v8.IndyInterface.fromCache(IndyInterface.java:321)
|
||||
at nextflow.processor.TaskProcessor.finalizeTask(TaskProcessor.groovy:2402)
|
||||
at nextflow.processor.TaskPollingMonitor.finalizeTask(TaskPollingMonitor.groovy:696)
|
||||
at nextflow.processor.TaskPollingMonitor.safeFinalizeTask(TaskPollingMonitor.groovy:686)
|
||||
at java.base/jdk.internal.reflect.DirectMethodHandleAccessor.invoke(DirectMethodHandleAccessor.java:103)
|
||||
at java.base/java.lang.reflect.Method.invoke(Method.java:580)
|
||||
at org.codehaus.groovy.reflection.CachedMethod.invoke(CachedMethod.java:343)
|
||||
at groovy.lang.MetaMethod.doMethodInvoke(MetaMethod.java:328)
|
||||
at groovy.lang.MetaClassImpl.doInvokeMethod(MetaClassImpl.java:1333)
|
||||
at groovy.lang.MetaClassImpl.invokeMethod(MetaClassImpl.java:1088)
|
||||
at groovy.lang.MetaClassImpl.invokeMethod(MetaClassImpl.java:1007)
|
||||
at org.codehaus.groovy.runtime.InvokerHelper.invokePogoMethod(InvokerHelper.java:645)
|
||||
at org.codehaus.groovy.runtime.InvokerHelper.invokeMethod(InvokerHelper.java:628)
|
||||
at org.codehaus.groovy.runtime.InvokerHelper.invokeMethodSafe(InvokerHelper.java:82)
|
||||
at nextflow.processor.TaskPollingMonitor$_checkTaskStatus_lambda8.doCall(TaskPollingMonitor.groovy:676)
|
||||
at java.base/java.util.concurrent.Executors$RunnableAdapter.call(Executors.java:572)
|
||||
at java.base/java.util.concurrent.FutureTask.run(FutureTask.java:317)
|
||||
at java.base/java.util.concurrent.ThreadPoolExecutor.runWorker(ThreadPoolExecutor.java:1144)
|
||||
at java.base/java.util.concurrent.ThreadPoolExecutor$Worker.run(ThreadPoolExecutor.java:642)
|
||||
at java.base/java.lang.Thread.run(Thread.java:1583)
|
||||
Mar-18 21:20:29.297 [TaskFinalizer-2] DEBUG nextflow.processor.TaskProcessor - Handling unexpected condition for
|
||||
task: name=HUMAN_TRANSFORMER (60); work-dir=/data/bugra/digital_trials/work/74/3c1d464c97545d0573e617639c1996
|
||||
error [nextflow.exception.ProcessFailedException]: Process `HUMAN_TRANSFORMER (60)` terminated with an error exit status (130)
|
||||
Mar-18 21:20:29.297 [TaskFinalizer-2] ERROR nextflow.processor.TaskProcessor - Execution aborted due to an unexpected error
|
||||
java.lang.NullPointerException: Cannot invoke method submit() on null object
|
||||
at org.codehaus.groovy.runtime.NullObject.invokeMethod(NullObject.java:113)
|
||||
at org.codehaus.groovy.vmplugin.v8.IndyGuardsFiltersAndSignatures.invokeGroovyObjectInvoker(IndyGuardsFiltersAndSignatures.java:151)
|
||||
at org.codehaus.groovy.vmplugin.v8.IndyInterface.fromCache(IndyInterface.java:321)
|
||||
at nextflow.processor.TaskProcessor.checkErrorStrategy(TaskProcessor.groovy:1163)
|
||||
at org.codehaus.groovy.vmplugin.v8.IndyInterface.fromCache(IndyInterface.java:321)
|
||||
at nextflow.processor.TaskProcessor.resumeOrDie(TaskProcessor.groovy:1077)
|
||||
at org.codehaus.groovy.vmplugin.v8.IndyInterface.fromCache(IndyInterface.java:321)
|
||||
at nextflow.processor.TaskProcessor.finalizeTask(TaskProcessor.groovy:2402)
|
||||
at nextflow.processor.TaskPollingMonitor.finalizeTask(TaskPollingMonitor.groovy:696)
|
||||
at nextflow.processor.TaskPollingMonitor.safeFinalizeTask(TaskPollingMonitor.groovy:686)
|
||||
at java.base/jdk.internal.reflect.DirectMethodHandleAccessor.invoke(DirectMethodHandleAccessor.java:103)
|
||||
at java.base/java.lang.reflect.Method.invoke(Method.java:580)
|
||||
at org.codehaus.groovy.reflection.CachedMethod.invoke(CachedMethod.java:343)
|
||||
at groovy.lang.MetaMethod.doMethodInvoke(MetaMethod.java:328)
|
||||
at groovy.lang.MetaClassImpl.doInvokeMethod(MetaClassImpl.java:1333)
|
||||
at groovy.lang.MetaClassImpl.invokeMethod(MetaClassImpl.java:1088)
|
||||
at groovy.lang.MetaClassImpl.invokeMethod(MetaClassImpl.java:1007)
|
||||
at org.codehaus.groovy.runtime.InvokerHelper.invokePogoMethod(InvokerHelper.java:645)
|
||||
at org.codehaus.groovy.runtime.InvokerHelper.invokeMethod(InvokerHelper.java:628)
|
||||
at org.codehaus.groovy.runtime.InvokerHelper.invokeMethodSafe(InvokerHelper.java:82)
|
||||
at nextflow.processor.TaskPollingMonitor$_checkTaskStatus_lambda8.doCall(TaskPollingMonitor.groovy:676)
|
||||
at java.base/java.util.concurrent.Executors$RunnableAdapter.call(Executors.java:572)
|
||||
at java.base/java.util.concurrent.FutureTask.run(FutureTask.java:317)
|
||||
at java.base/java.util.concurrent.ThreadPoolExecutor.runWorker(ThreadPoolExecutor.java:1144)
|
||||
at java.base/java.util.concurrent.ThreadPoolExecutor$Worker.run(ThreadPoolExecutor.java:642)
|
||||
at java.base/java.lang.Thread.run(Thread.java:1583)
|
||||
Mar-18 21:20:29.298 [TaskFinalizer-10] DEBUG nextflow.processor.TaskProcessor - Handling unexpected condition for
|
||||
task: name=HUMAN_TRANSFORMER (31); work-dir=/data/bugra/digital_trials/work/7a/791a5fc3d48e3532dd905a9d6ffe60
|
||||
error [nextflow.exception.ProcessFailedException]: Process `HUMAN_TRANSFORMER (31)` terminated with an error exit status (130)
|
||||
Mar-18 21:20:29.298 [TaskFinalizer-10] ERROR nextflow.processor.TaskProcessor - Execution aborted due to an unexpected error
|
||||
java.lang.NullPointerException: Cannot invoke method submit() on null object
|
||||
at org.codehaus.groovy.runtime.NullObject.invokeMethod(NullObject.java:113)
|
||||
at org.codehaus.groovy.vmplugin.v8.IndyGuardsFiltersAndSignatures.invokeGroovyObjectInvoker(IndyGuardsFiltersAndSignatures.java:151)
|
||||
at org.codehaus.groovy.vmplugin.v8.IndyInterface.fromCache(IndyInterface.java:321)
|
||||
at nextflow.processor.TaskProcessor.checkErrorStrategy(TaskProcessor.groovy:1163)
|
||||
at org.codehaus.groovy.vmplugin.v8.IndyInterface.fromCache(IndyInterface.java:321)
|
||||
at nextflow.processor.TaskProcessor.resumeOrDie(TaskProcessor.groovy:1077)
|
||||
at org.codehaus.groovy.vmplugin.v8.IndyInterface.fromCache(IndyInterface.java:321)
|
||||
at nextflow.processor.TaskProcessor.finalizeTask(TaskProcessor.groovy:2402)
|
||||
at nextflow.processor.TaskPollingMonitor.finalizeTask(TaskPollingMonitor.groovy:696)
|
||||
at nextflow.processor.TaskPollingMonitor.safeFinalizeTask(TaskPollingMonitor.groovy:686)
|
||||
at java.base/jdk.internal.reflect.DirectMethodHandleAccessor.invoke(DirectMethodHandleAccessor.java:103)
|
||||
at java.base/java.lang.reflect.Method.invoke(Method.java:580)
|
||||
at org.codehaus.groovy.reflection.CachedMethod.invoke(CachedMethod.java:343)
|
||||
at groovy.lang.MetaMethod.doMethodInvoke(MetaMethod.java:328)
|
||||
at groovy.lang.MetaClassImpl.doInvokeMethod(MetaClassImpl.java:1333)
|
||||
at groovy.lang.MetaClassImpl.invokeMethod(MetaClassImpl.java:1088)
|
||||
at groovy.lang.MetaClassImpl.invokeMethod(MetaClassImpl.java:1007)
|
||||
at org.codehaus.groovy.runtime.InvokerHelper.invokePogoMethod(InvokerHelper.java:645)
|
||||
at org.codehaus.groovy.runtime.InvokerHelper.invokeMethod(InvokerHelper.java:628)
|
||||
at org.codehaus.groovy.runtime.InvokerHelper.invokeMethodSafe(InvokerHelper.java:82)
|
||||
at nextflow.processor.TaskPollingMonitor$_checkTaskStatus_lambda8.doCall(TaskPollingMonitor.groovy:676)
|
||||
at java.base/java.util.concurrent.Executors$RunnableAdapter.call(Executors.java:572)
|
||||
at java.base/java.util.concurrent.FutureTask.run(FutureTask.java:317)
|
||||
at java.base/java.util.concurrent.ThreadPoolExecutor.runWorker(ThreadPoolExecutor.java:1144)
|
||||
at java.base/java.util.concurrent.ThreadPoolExecutor$Worker.run(ThreadPoolExecutor.java:642)
|
||||
at java.base/java.lang.Thread.run(Thread.java:1583)
|
||||
Mar-18 21:20:29.299 [TaskFinalizer-3] DEBUG nextflow.processor.TaskProcessor - Handling unexpected condition for
|
||||
task: name=HUMAN_TRANSFORMER (52); work-dir=/data/bugra/digital_trials/work/58/36391d12e7f01e89c4c4b007a48fdf
|
||||
error [nextflow.exception.ProcessFailedException]: Process `HUMAN_TRANSFORMER (52)` terminated with an error exit status (130)
|
||||
Mar-18 21:20:29.299 [TaskFinalizer-3] ERROR nextflow.processor.TaskProcessor - Execution aborted due to an unexpected error
|
||||
java.lang.NullPointerException: Cannot invoke method submit() on null object
|
||||
at org.codehaus.groovy.runtime.NullObject.invokeMethod(NullObject.java:113)
|
||||
at org.codehaus.groovy.vmplugin.v8.IndyGuardsFiltersAndSignatures.invokeGroovyObjectInvoker(IndyGuardsFiltersAndSignatures.java:151)
|
||||
at org.codehaus.groovy.vmplugin.v8.IndyInterface.fromCache(IndyInterface.java:321)
|
||||
at nextflow.processor.TaskProcessor.checkErrorStrategy(TaskProcessor.groovy:1163)
|
||||
at org.codehaus.groovy.vmplugin.v8.IndyInterface.fromCache(IndyInterface.java:321)
|
||||
at nextflow.processor.TaskProcessor.resumeOrDie(TaskProcessor.groovy:1077)
|
||||
at org.codehaus.groovy.vmplugin.v8.IndyInterface.fromCache(IndyInterface.java:321)
|
||||
at nextflow.processor.TaskProcessor.finalizeTask(TaskProcessor.groovy:2402)
|
||||
at nextflow.processor.TaskPollingMonitor.finalizeTask(TaskPollingMonitor.groovy:696)
|
||||
at nextflow.processor.TaskPollingMonitor.safeFinalizeTask(TaskPollingMonitor.groovy:686)
|
||||
at java.base/jdk.internal.reflect.DirectMethodHandleAccessor.invoke(DirectMethodHandleAccessor.java:103)
|
||||
at java.base/java.lang.reflect.Method.invoke(Method.java:580)
|
||||
at org.codehaus.groovy.reflection.CachedMethod.invoke(CachedMethod.java:343)
|
||||
at groovy.lang.MetaMethod.doMethodInvoke(MetaMethod.java:328)
|
||||
at groovy.lang.MetaClassImpl.doInvokeMethod(MetaClassImpl.java:1333)
|
||||
at groovy.lang.MetaClassImpl.invokeMethod(MetaClassImpl.java:1088)
|
||||
at groovy.lang.MetaClassImpl.invokeMethod(MetaClassImpl.java:1007)
|
||||
at org.codehaus.groovy.runtime.InvokerHelper.invokePogoMethod(InvokerHelper.java:645)
|
||||
at org.codehaus.groovy.runtime.InvokerHelper.invokeMethod(InvokerHelper.java:628)
|
||||
at org.codehaus.groovy.runtime.InvokerHelper.invokeMethodSafe(InvokerHelper.java:82)
|
||||
at nextflow.processor.TaskPollingMonitor$_checkTaskStatus_lambda8.doCall(TaskPollingMonitor.groovy:676)
|
||||
at java.base/java.util.concurrent.Executors$RunnableAdapter.call(Executors.java:572)
|
||||
at java.base/java.util.concurrent.FutureTask.run(FutureTask.java:317)
|
||||
at java.base/java.util.concurrent.ThreadPoolExecutor.runWorker(ThreadPoolExecutor.java:1144)
|
||||
at java.base/java.util.concurrent.ThreadPoolExecutor$Worker.run(ThreadPoolExecutor.java:642)
|
||||
at java.base/java.lang.Thread.run(Thread.java:1583)
|
||||
Mar-18 21:20:29.300 [TaskFinalizer-5] DEBUG nextflow.processor.TaskProcessor - Handling unexpected condition for
|
||||
task: name=HUMAN_TRANSFORMER (79); work-dir=/data/bugra/digital_trials/work/97/d91d948e50cf63f8b4ff02716cae35
|
||||
error [nextflow.exception.ProcessFailedException]: Process `HUMAN_TRANSFORMER (79)` terminated with an error exit status (130)
|
||||
Mar-18 21:20:29.301 [TaskFinalizer-5] ERROR nextflow.processor.TaskProcessor - Execution aborted due to an unexpected error
|
||||
java.lang.NullPointerException: Cannot invoke method submit() on null object
|
||||
at org.codehaus.groovy.runtime.NullObject.invokeMethod(NullObject.java:113)
|
||||
at org.codehaus.groovy.vmplugin.v8.IndyGuardsFiltersAndSignatures.invokeGroovyObjectInvoker(IndyGuardsFiltersAndSignatures.java:151)
|
||||
at org.codehaus.groovy.vmplugin.v8.IndyInterface.fromCache(IndyInterface.java:321)
|
||||
at nextflow.processor.TaskProcessor.checkErrorStrategy(TaskProcessor.groovy:1163)
|
||||
at org.codehaus.groovy.vmplugin.v8.IndyInterface.fromCache(IndyInterface.java:321)
|
||||
at nextflow.processor.TaskProcessor.resumeOrDie(TaskProcessor.groovy:1077)
|
||||
at org.codehaus.groovy.vmplugin.v8.IndyInterface.fromCache(IndyInterface.java:321)
|
||||
at nextflow.processor.TaskProcessor.finalizeTask(TaskProcessor.groovy:2402)
|
||||
at nextflow.processor.TaskPollingMonitor.finalizeTask(TaskPollingMonitor.groovy:696)
|
||||
at nextflow.processor.TaskPollingMonitor.safeFinalizeTask(TaskPollingMonitor.groovy:686)
|
||||
at java.base/jdk.internal.reflect.DirectMethodHandleAccessor.invoke(DirectMethodHandleAccessor.java:103)
|
||||
at java.base/java.lang.reflect.Method.invoke(Method.java:580)
|
||||
at org.codehaus.groovy.reflection.CachedMethod.invoke(CachedMethod.java:343)
|
||||
at groovy.lang.MetaMethod.doMethodInvoke(MetaMethod.java:328)
|
||||
at groovy.lang.MetaClassImpl.doInvokeMethod(MetaClassImpl.java:1333)
|
||||
at groovy.lang.MetaClassImpl.invokeMethod(MetaClassImpl.java:1088)
|
||||
at groovy.lang.MetaClassImpl.invokeMethod(MetaClassImpl.java:1007)
|
||||
at org.codehaus.groovy.runtime.InvokerHelper.invokePogoMethod(InvokerHelper.java:645)
|
||||
at org.codehaus.groovy.runtime.InvokerHelper.invokeMethod(InvokerHelper.java:628)
|
||||
at org.codehaus.groovy.runtime.InvokerHelper.invokeMethodSafe(InvokerHelper.java:82)
|
||||
at nextflow.processor.TaskPollingMonitor$_checkTaskStatus_lambda8.doCall(TaskPollingMonitor.groovy:676)
|
||||
at java.base/java.util.concurrent.Executors$RunnableAdapter.call(Executors.java:572)
|
||||
at java.base/java.util.concurrent.FutureTask.run(FutureTask.java:317)
|
||||
at java.base/java.util.concurrent.ThreadPoolExecutor.runWorker(ThreadPoolExecutor.java:1144)
|
||||
at java.base/java.util.concurrent.ThreadPoolExecutor$Worker.run(ThreadPoolExecutor.java:642)
|
||||
at java.base/java.lang.Thread.run(Thread.java:1583)
|
||||
Mar-18 21:20:29.301 [TaskFinalizer-7] DEBUG nextflow.processor.TaskProcessor - Handling unexpected condition for
|
||||
task: name=HUMAN_TRANSFORMER (4); work-dir=/data/bugra/digital_trials/work/b0/358e0857d3fc84723c4c6f68449def
|
||||
error [nextflow.exception.ProcessFailedException]: Process `HUMAN_TRANSFORMER (4)` terminated with an error exit status (130)
|
||||
Mar-18 21:20:29.301 [TaskFinalizer-7] ERROR nextflow.processor.TaskProcessor - Execution aborted due to an unexpected error
|
||||
java.lang.NullPointerException: Cannot invoke method submit() on null object
|
||||
at org.codehaus.groovy.runtime.NullObject.invokeMethod(NullObject.java:113)
|
||||
at org.codehaus.groovy.vmplugin.v8.IndyGuardsFiltersAndSignatures.invokeGroovyObjectInvoker(IndyGuardsFiltersAndSignatures.java:151)
|
||||
at org.codehaus.groovy.vmplugin.v8.IndyInterface.fromCache(IndyInterface.java:321)
|
||||
at nextflow.processor.TaskProcessor.checkErrorStrategy(TaskProcessor.groovy:1163)
|
||||
at org.codehaus.groovy.vmplugin.v8.IndyInterface.fromCache(IndyInterface.java:321)
|
||||
at nextflow.processor.TaskProcessor.resumeOrDie(TaskProcessor.groovy:1077)
|
||||
at org.codehaus.groovy.vmplugin.v8.IndyInterface.fromCache(IndyInterface.java:321)
|
||||
at nextflow.processor.TaskProcessor.finalizeTask(TaskProcessor.groovy:2402)
|
||||
at nextflow.processor.TaskPollingMonitor.finalizeTask(TaskPollingMonitor.groovy:696)
|
||||
at nextflow.processor.TaskPollingMonitor.safeFinalizeTask(TaskPollingMonitor.groovy:686)
|
||||
at java.base/jdk.internal.reflect.DirectMethodHandleAccessor.invoke(DirectMethodHandleAccessor.java:103)
|
||||
at java.base/java.lang.reflect.Method.invoke(Method.java:580)
|
||||
at org.codehaus.groovy.reflection.CachedMethod.invoke(CachedMethod.java:343)
|
||||
at groovy.lang.MetaMethod.doMethodInvoke(MetaMethod.java:328)
|
||||
at groovy.lang.MetaClassImpl.doInvokeMethod(MetaClassImpl.java:1333)
|
||||
at groovy.lang.MetaClassImpl.invokeMethod(MetaClassImpl.java:1088)
|
||||
at groovy.lang.MetaClassImpl.invokeMethod(MetaClassImpl.java:1007)
|
||||
at org.codehaus.groovy.runtime.InvokerHelper.invokePogoMethod(InvokerHelper.java:645)
|
||||
at org.codehaus.groovy.runtime.InvokerHelper.invokeMethod(InvokerHelper.java:628)
|
||||
at org.codehaus.groovy.runtime.InvokerHelper.invokeMethodSafe(InvokerHelper.java:82)
|
||||
at nextflow.processor.TaskPollingMonitor$_checkTaskStatus_lambda8.doCall(TaskPollingMonitor.groovy:676)
|
||||
at java.base/java.util.concurrent.Executors$RunnableAdapter.call(Executors.java:572)
|
||||
at java.base/java.util.concurrent.FutureTask.run(FutureTask.java:317)
|
||||
at java.base/java.util.concurrent.ThreadPoolExecutor.runWorker(ThreadPoolExecutor.java:1144)
|
||||
at java.base/java.util.concurrent.ThreadPoolExecutor$Worker.run(ThreadPoolExecutor.java:642)
|
||||
at java.base/java.lang.Thread.run(Thread.java:1583)
|
||||
Mar-18 21:20:29.302 [TaskFinalizer-1] DEBUG nextflow.processor.TaskProcessor - Handling unexpected condition for
|
||||
task: name=HUMAN_TRANSFORMER (15); work-dir=/data/bugra/digital_trials/work/7d/6149e5bb637d5906e412e869847053
|
||||
error [nextflow.exception.ProcessFailedException]: Process `HUMAN_TRANSFORMER (15)` terminated with an error exit status (130)
|
||||
Mar-18 21:20:29.302 [TaskFinalizer-1] ERROR nextflow.processor.TaskProcessor - Execution aborted due to an unexpected error
|
||||
java.lang.NullPointerException: Cannot invoke method submit() on null object
|
||||
at org.codehaus.groovy.runtime.NullObject.invokeMethod(NullObject.java:113)
|
||||
at org.codehaus.groovy.vmplugin.v8.IndyGuardsFiltersAndSignatures.invokeGroovyObjectInvoker(IndyGuardsFiltersAndSignatures.java:151)
|
||||
at org.codehaus.groovy.vmplugin.v8.IndyInterface.fromCache(IndyInterface.java:321)
|
||||
at nextflow.processor.TaskProcessor.checkErrorStrategy(TaskProcessor.groovy:1163)
|
||||
at org.codehaus.groovy.vmplugin.v8.IndyInterface.fromCache(IndyInterface.java:321)
|
||||
at nextflow.processor.TaskProcessor.resumeOrDie(TaskProcessor.groovy:1077)
|
||||
at org.codehaus.groovy.vmplugin.v8.IndyInterface.fromCache(IndyInterface.java:321)
|
||||
at nextflow.processor.TaskProcessor.finalizeTask(TaskProcessor.groovy:2402)
|
||||
at nextflow.processor.TaskPollingMonitor.finalizeTask(TaskPollingMonitor.groovy:696)
|
||||
at nextflow.processor.TaskPollingMonitor.safeFinalizeTask(TaskPollingMonitor.groovy:686)
|
||||
at java.base/jdk.internal.reflect.DirectMethodHandleAccessor.invoke(DirectMethodHandleAccessor.java:103)
|
||||
at java.base/java.lang.reflect.Method.invoke(Method.java:580)
|
||||
at org.codehaus.groovy.reflection.CachedMethod.invoke(CachedMethod.java:343)
|
||||
at groovy.lang.MetaMethod.doMethodInvoke(MetaMethod.java:328)
|
||||
at groovy.lang.MetaClassImpl.doInvokeMethod(MetaClassImpl.java:1333)
|
||||
at groovy.lang.MetaClassImpl.invokeMethod(MetaClassImpl.java:1088)
|
||||
at groovy.lang.MetaClassImpl.invokeMethod(MetaClassImpl.java:1007)
|
||||
at org.codehaus.groovy.runtime.InvokerHelper.invokePogoMethod(InvokerHelper.java:645)
|
||||
at org.codehaus.groovy.runtime.InvokerHelper.invokeMethod(InvokerHelper.java:628)
|
||||
at org.codehaus.groovy.runtime.InvokerHelper.invokeMethodSafe(InvokerHelper.java:82)
|
||||
at nextflow.processor.TaskPollingMonitor$_checkTaskStatus_lambda8.doCall(TaskPollingMonitor.groovy:676)
|
||||
at java.base/java.util.concurrent.Executors$RunnableAdapter.call(Executors.java:572)
|
||||
at java.base/java.util.concurrent.FutureTask.run(FutureTask.java:317)
|
||||
at java.base/java.util.concurrent.ThreadPoolExecutor.runWorker(ThreadPoolExecutor.java:1144)
|
||||
at java.base/java.util.concurrent.ThreadPoolExecutor$Worker.run(ThreadPoolExecutor.java:642)
|
||||
at java.base/java.lang.Thread.run(Thread.java:1583)
|
||||
Mar-18 21:20:29.303 [TaskFinalizer-8] DEBUG nextflow.processor.TaskProcessor - Handling unexpected condition for
|
||||
task: name=HUMAN_TRANSFORMER (62); work-dir=/data/bugra/digital_trials/work/d6/469d3a52fd3e47c31e3f9629531225
|
||||
error [nextflow.exception.ProcessFailedException]: Process `HUMAN_TRANSFORMER (62)` terminated with an error exit status (130)
|
||||
Mar-18 21:20:29.304 [TaskFinalizer-8] ERROR nextflow.processor.TaskProcessor - Execution aborted due to an unexpected error
|
||||
java.lang.NullPointerException: Cannot invoke method submit() on null object
|
||||
at org.codehaus.groovy.runtime.NullObject.invokeMethod(NullObject.java:113)
|
||||
at org.codehaus.groovy.vmplugin.v8.IndyGuardsFiltersAndSignatures.invokeGroovyObjectInvoker(IndyGuardsFiltersAndSignatures.java:151)
|
||||
at org.codehaus.groovy.vmplugin.v8.IndyInterface.fromCache(IndyInterface.java:321)
|
||||
at nextflow.processor.TaskProcessor.checkErrorStrategy(TaskProcessor.groovy:1163)
|
||||
at org.codehaus.groovy.vmplugin.v8.IndyInterface.fromCache(IndyInterface.java:321)
|
||||
at nextflow.processor.TaskProcessor.resumeOrDie(TaskProcessor.groovy:1077)
|
||||
at org.codehaus.groovy.vmplugin.v8.IndyInterface.fromCache(IndyInterface.java:321)
|
||||
at nextflow.processor.TaskProcessor.finalizeTask(TaskProcessor.groovy:2402)
|
||||
at nextflow.processor.TaskPollingMonitor.finalizeTask(TaskPollingMonitor.groovy:696)
|
||||
at nextflow.processor.TaskPollingMonitor.safeFinalizeTask(TaskPollingMonitor.groovy:686)
|
||||
at java.base/jdk.internal.reflect.DirectMethodHandleAccessor.invoke(DirectMethodHandleAccessor.java:103)
|
||||
at java.base/java.lang.reflect.Method.invoke(Method.java:580)
|
||||
at org.codehaus.groovy.reflection.CachedMethod.invoke(CachedMethod.java:343)
|
||||
at groovy.lang.MetaMethod.doMethodInvoke(MetaMethod.java:328)
|
||||
at groovy.lang.MetaClassImpl.doInvokeMethod(MetaClassImpl.java:1333)
|
||||
at groovy.lang.MetaClassImpl.invokeMethod(MetaClassImpl.java:1088)
|
||||
at groovy.lang.MetaClassImpl.invokeMethod(MetaClassImpl.java:1007)
|
||||
at org.codehaus.groovy.runtime.InvokerHelper.invokePogoMethod(InvokerHelper.java:645)
|
||||
at org.codehaus.groovy.runtime.InvokerHelper.invokeMethod(InvokerHelper.java:628)
|
||||
at org.codehaus.groovy.runtime.InvokerHelper.invokeMethodSafe(InvokerHelper.java:82)
|
||||
at nextflow.processor.TaskPollingMonitor$_checkTaskStatus_lambda8.doCall(TaskPollingMonitor.groovy:676)
|
||||
at java.base/java.util.concurrent.Executors$RunnableAdapter.call(Executors.java:572)
|
||||
at java.base/java.util.concurrent.FutureTask.run(FutureTask.java:317)
|
||||
at java.base/java.util.concurrent.ThreadPoolExecutor.runWorker(ThreadPoolExecutor.java:1144)
|
||||
at java.base/java.util.concurrent.ThreadPoolExecutor$Worker.run(ThreadPoolExecutor.java:642)
|
||||
at java.base/java.lang.Thread.run(Thread.java:1583)
|
||||
Mar-18 21:20:29.304 [TaskFinalizer-9] DEBUG nextflow.processor.TaskProcessor - Handling unexpected condition for
|
||||
task: name=HUMAN_TRANSFORMER (69); work-dir=/data/bugra/digital_trials/work/2d/813f736812d2fe55b217ee6f3a6080
|
||||
error [nextflow.exception.ProcessFailedException]: Process `HUMAN_TRANSFORMER (69)` terminated with an error exit status (130)
|
||||
Mar-18 21:20:29.305 [TaskFinalizer-9] ERROR nextflow.processor.TaskProcessor - Execution aborted due to an unexpected error
|
||||
java.lang.NullPointerException: Cannot invoke method submit() on null object
|
||||
at org.codehaus.groovy.runtime.NullObject.invokeMethod(NullObject.java:113)
|
||||
at org.codehaus.groovy.vmplugin.v8.IndyGuardsFiltersAndSignatures.invokeGroovyObjectInvoker(IndyGuardsFiltersAndSignatures.java:151)
|
||||
at org.codehaus.groovy.vmplugin.v8.IndyInterface.fromCache(IndyInterface.java:321)
|
||||
at nextflow.processor.TaskProcessor.checkErrorStrategy(TaskProcessor.groovy:1163)
|
||||
at org.codehaus.groovy.vmplugin.v8.IndyInterface.fromCache(IndyInterface.java:321)
|
||||
at nextflow.processor.TaskProcessor.resumeOrDie(TaskProcessor.groovy:1077)
|
||||
at org.codehaus.groovy.vmplugin.v8.IndyInterface.fromCache(IndyInterface.java:321)
|
||||
at nextflow.processor.TaskProcessor.finalizeTask(TaskProcessor.groovy:2402)
|
||||
at nextflow.processor.TaskPollingMonitor.finalizeTask(TaskPollingMonitor.groovy:696)
|
||||
at nextflow.processor.TaskPollingMonitor.safeFinalizeTask(TaskPollingMonitor.groovy:686)
|
||||
at java.base/jdk.internal.reflect.DirectMethodHandleAccessor.invoke(DirectMethodHandleAccessor.java:103)
|
||||
at java.base/java.lang.reflect.Method.invoke(Method.java:580)
|
||||
at org.codehaus.groovy.reflection.CachedMethod.invoke(CachedMethod.java:343)
|
||||
at groovy.lang.MetaMethod.doMethodInvoke(MetaMethod.java:328)
|
||||
at groovy.lang.MetaClassImpl.doInvokeMethod(MetaClassImpl.java:1333)
|
||||
at groovy.lang.MetaClassImpl.invokeMethod(MetaClassImpl.java:1088)
|
||||
at groovy.lang.MetaClassImpl.invokeMethod(MetaClassImpl.java:1007)
|
||||
at org.codehaus.groovy.runtime.InvokerHelper.invokePogoMethod(InvokerHelper.java:645)
|
||||
at org.codehaus.groovy.runtime.InvokerHelper.invokeMethod(InvokerHelper.java:628)
|
||||
at org.codehaus.groovy.runtime.InvokerHelper.invokeMethodSafe(InvokerHelper.java:82)
|
||||
at nextflow.processor.TaskPollingMonitor$_checkTaskStatus_lambda8.doCall(TaskPollingMonitor.groovy:676)
|
||||
at java.base/java.util.concurrent.Executors$RunnableAdapter.call(Executors.java:572)
|
||||
at java.base/java.util.concurrent.FutureTask.run(FutureTask.java:317)
|
||||
at java.base/java.util.concurrent.ThreadPoolExecutor.runWorker(ThreadPoolExecutor.java:1144)
|
||||
at java.base/java.util.concurrent.ThreadPoolExecutor$Worker.run(ThreadPoolExecutor.java:642)
|
||||
at java.base/java.lang.Thread.run(Thread.java:1583)
|
||||
Mar-18 21:20:29.305 [TaskFinalizer-4] DEBUG nextflow.processor.TaskProcessor - Handling unexpected condition for
|
||||
task: name=HUMAN_TRANSFORMER (26); work-dir=/data/bugra/digital_trials/work/eb/bd17199be64672ed1cd2a9c2de98fc
|
||||
error [nextflow.exception.ProcessFailedException]: Process `HUMAN_TRANSFORMER (26)` terminated with an error exit status (130)
|
||||
Mar-18 21:20:29.306 [TaskFinalizer-4] ERROR nextflow.processor.TaskProcessor - Execution aborted due to an unexpected error
|
||||
java.lang.NullPointerException: Cannot invoke method submit() on null object
|
||||
at org.codehaus.groovy.runtime.NullObject.invokeMethod(NullObject.java:113)
|
||||
at org.codehaus.groovy.vmplugin.v8.IndyGuardsFiltersAndSignatures.invokeGroovyObjectInvoker(IndyGuardsFiltersAndSignatures.java:151)
|
||||
at org.codehaus.groovy.vmplugin.v8.IndyInterface.fromCache(IndyInterface.java:321)
|
||||
at nextflow.processor.TaskProcessor.checkErrorStrategy(TaskProcessor.groovy:1163)
|
||||
at org.codehaus.groovy.vmplugin.v8.IndyInterface.fromCache(IndyInterface.java:321)
|
||||
at nextflow.processor.TaskProcessor.resumeOrDie(TaskProcessor.groovy:1077)
|
||||
at org.codehaus.groovy.vmplugin.v8.IndyInterface.fromCache(IndyInterface.java:321)
|
||||
at nextflow.processor.TaskProcessor.finalizeTask(TaskProcessor.groovy:2402)
|
||||
at nextflow.processor.TaskPollingMonitor.finalizeTask(TaskPollingMonitor.groovy:696)
|
||||
at nextflow.processor.TaskPollingMonitor.safeFinalizeTask(TaskPollingMonitor.groovy:686)
|
||||
at java.base/jdk.internal.reflect.DirectMethodHandleAccessor.invoke(DirectMethodHandleAccessor.java:103)
|
||||
at java.base/java.lang.reflect.Method.invoke(Method.java:580)
|
||||
at org.codehaus.groovy.reflection.CachedMethod.invoke(CachedMethod.java:343)
|
||||
at groovy.lang.MetaMethod.doMethodInvoke(MetaMethod.java:328)
|
||||
at groovy.lang.MetaClassImpl.doInvokeMethod(MetaClassImpl.java:1333)
|
||||
at groovy.lang.MetaClassImpl.invokeMethod(MetaClassImpl.java:1088)
|
||||
at groovy.lang.MetaClassImpl.invokeMethod(MetaClassImpl.java:1007)
|
||||
at org.codehaus.groovy.runtime.InvokerHelper.invokePogoMethod(InvokerHelper.java:645)
|
||||
at org.codehaus.groovy.runtime.InvokerHelper.invokeMethod(InvokerHelper.java:628)
|
||||
at org.codehaus.groovy.runtime.InvokerHelper.invokeMethodSafe(InvokerHelper.java:82)
|
||||
at nextflow.processor.TaskPollingMonitor$_checkTaskStatus_lambda8.doCall(TaskPollingMonitor.groovy:676)
|
||||
at java.base/java.util.concurrent.Executors$RunnableAdapter.call(Executors.java:572)
|
||||
at java.base/java.util.concurrent.FutureTask.run(FutureTask.java:317)
|
||||
at java.base/java.util.concurrent.ThreadPoolExecutor.runWorker(ThreadPoolExecutor.java:1144)
|
||||
at java.base/java.util.concurrent.ThreadPoolExecutor$Worker.run(ThreadPoolExecutor.java:642)
|
||||
at java.base/java.lang.Thread.run(Thread.java:1583)
|
||||
Mar-18 21:20:29.306 [TaskFinalizer-7] DEBUG nextflow.processor.TaskProcessor - Handling unexpected condition for
|
||||
task: name=HUMAN_TRANSFORMER (30); work-dir=/data/bugra/digital_trials/work/72/7527282097aa9de800c0e570242280
|
||||
error [nextflow.exception.ProcessFailedException]: Process `HUMAN_TRANSFORMER (30)` terminated with an error exit status (130)
|
||||
Mar-18 21:20:29.307 [TaskFinalizer-7] ERROR nextflow.processor.TaskProcessor - Execution aborted due to an unexpected error
|
||||
java.lang.NullPointerException: Cannot invoke method submit() on null object
|
||||
at org.codehaus.groovy.runtime.NullObject.invokeMethod(NullObject.java:113)
|
||||
at org.codehaus.groovy.vmplugin.v8.IndyGuardsFiltersAndSignatures.invokeGroovyObjectInvoker(IndyGuardsFiltersAndSignatures.java:151)
|
||||
at org.codehaus.groovy.vmplugin.v8.IndyInterface.fromCache(IndyInterface.java:321)
|
||||
at nextflow.processor.TaskProcessor.checkErrorStrategy(TaskProcessor.groovy:1163)
|
||||
at org.codehaus.groovy.vmplugin.v8.IndyInterface.fromCache(IndyInterface.java:321)
|
||||
at nextflow.processor.TaskProcessor.resumeOrDie(TaskProcessor.groovy:1077)
|
||||
at org.codehaus.groovy.vmplugin.v8.IndyInterface.fromCache(IndyInterface.java:321)
|
||||
at nextflow.processor.TaskProcessor.finalizeTask(TaskProcessor.groovy:2402)
|
||||
at nextflow.processor.TaskPollingMonitor.finalizeTask(TaskPollingMonitor.groovy:696)
|
||||
at nextflow.processor.TaskPollingMonitor.safeFinalizeTask(TaskPollingMonitor.groovy:686)
|
||||
at java.base/jdk.internal.reflect.DirectMethodHandleAccessor.invoke(DirectMethodHandleAccessor.java:103)
|
||||
at java.base/java.lang.reflect.Method.invoke(Method.java:580)
|
||||
at org.codehaus.groovy.reflection.CachedMethod.invoke(CachedMethod.java:343)
|
||||
at groovy.lang.MetaMethod.doMethodInvoke(MetaMethod.java:328)
|
||||
at groovy.lang.MetaClassImpl.doInvokeMethod(MetaClassImpl.java:1333)
|
||||
at groovy.lang.MetaClassImpl.invokeMethod(MetaClassImpl.java:1088)
|
||||
at groovy.lang.MetaClassImpl.invokeMethod(MetaClassImpl.java:1007)
|
||||
at org.codehaus.groovy.runtime.InvokerHelper.invokePogoMethod(InvokerHelper.java:645)
|
||||
at org.codehaus.groovy.runtime.InvokerHelper.invokeMethod(InvokerHelper.java:628)
|
||||
at org.codehaus.groovy.runtime.InvokerHelper.invokeMethodSafe(InvokerHelper.java:82)
|
||||
at nextflow.processor.TaskPollingMonitor$_checkTaskStatus_lambda8.doCall(TaskPollingMonitor.groovy:676)
|
||||
at java.base/java.util.concurrent.Executors$RunnableAdapter.call(Executors.java:572)
|
||||
at java.base/java.util.concurrent.FutureTask.run(FutureTask.java:317)
|
||||
at java.base/java.util.concurrent.ThreadPoolExecutor.runWorker(ThreadPoolExecutor.java:1144)
|
||||
at java.base/java.util.concurrent.ThreadPoolExecutor$Worker.run(ThreadPoolExecutor.java:642)
|
||||
at java.base/java.lang.Thread.run(Thread.java:1583)
|
||||
Mar-18 21:20:29.307 [TaskFinalizer-3] DEBUG nextflow.processor.TaskProcessor - Handling unexpected condition for
|
||||
task: name=HUMAN_TRANSFORMER (44); work-dir=/data/bugra/digital_trials/work/23/9ecd04cb0afa1a6189c69d0c0fe507
|
||||
error [nextflow.exception.ProcessFailedException]: Process `HUMAN_TRANSFORMER (44)` terminated with an error exit status (130)
|
||||
Mar-18 21:20:29.308 [TaskFinalizer-3] ERROR nextflow.processor.TaskProcessor - Execution aborted due to an unexpected error
|
||||
java.lang.NullPointerException: Cannot invoke method submit() on null object
|
||||
at org.codehaus.groovy.runtime.NullObject.invokeMethod(NullObject.java:113)
|
||||
at org.codehaus.groovy.vmplugin.v8.IndyGuardsFiltersAndSignatures.invokeGroovyObjectInvoker(IndyGuardsFiltersAndSignatures.java:151)
|
||||
at org.codehaus.groovy.vmplugin.v8.IndyInterface.fromCache(IndyInterface.java:321)
|
||||
at nextflow.processor.TaskProcessor.checkErrorStrategy(TaskProcessor.groovy:1163)
|
||||
at org.codehaus.groovy.vmplugin.v8.IndyInterface.fromCache(IndyInterface.java:321)
|
||||
at nextflow.processor.TaskProcessor.resumeOrDie(TaskProcessor.groovy:1077)
|
||||
at org.codehaus.groovy.vmplugin.v8.IndyInterface.fromCache(IndyInterface.java:321)
|
||||
at nextflow.processor.TaskProcessor.finalizeTask(TaskProcessor.groovy:2402)
|
||||
at nextflow.processor.TaskPollingMonitor.finalizeTask(TaskPollingMonitor.groovy:696)
|
||||
at nextflow.processor.TaskPollingMonitor.safeFinalizeTask(TaskPollingMonitor.groovy:686)
|
||||
at java.base/jdk.internal.reflect.DirectMethodHandleAccessor.invoke(DirectMethodHandleAccessor.java:103)
|
||||
at java.base/java.lang.reflect.Method.invoke(Method.java:580)
|
||||
at org.codehaus.groovy.reflection.CachedMethod.invoke(CachedMethod.java:343)
|
||||
at groovy.lang.MetaMethod.doMethodInvoke(MetaMethod.java:328)
|
||||
at groovy.lang.MetaClassImpl.doInvokeMethod(MetaClassImpl.java:1333)
|
||||
at groovy.lang.MetaClassImpl.invokeMethod(MetaClassImpl.java:1088)
|
||||
at groovy.lang.MetaClassImpl.invokeMethod(MetaClassImpl.java:1007)
|
||||
at org.codehaus.groovy.runtime.InvokerHelper.invokePogoMethod(InvokerHelper.java:645)
|
||||
at org.codehaus.groovy.runtime.InvokerHelper.invokeMethod(InvokerHelper.java:628)
|
||||
at org.codehaus.groovy.runtime.InvokerHelper.invokeMethodSafe(InvokerHelper.java:82)
|
||||
at nextflow.processor.TaskPollingMonitor$_checkTaskStatus_lambda8.doCall(TaskPollingMonitor.groovy:676)
|
||||
at java.base/java.util.concurrent.Executors$RunnableAdapter.call(Executors.java:572)
|
||||
at java.base/java.util.concurrent.FutureTask.run(FutureTask.java:317)
|
||||
at java.base/java.util.concurrent.ThreadPoolExecutor.runWorker(ThreadPoolExecutor.java:1144)
|
||||
at java.base/java.util.concurrent.ThreadPoolExecutor$Worker.run(ThreadPoolExecutor.java:642)
|
||||
at java.base/java.lang.Thread.run(Thread.java:1583)
|
||||
Mar-18 21:20:29.308 [TaskFinalizer-10] DEBUG nextflow.processor.TaskProcessor - Handling unexpected condition for
|
||||
task: name=HUMAN_TRANSFORMER (123); work-dir=/data/bugra/digital_trials/work/34/bc34dfc5b77bd45bf850bbefd1ade3
|
||||
error [nextflow.exception.ProcessFailedException]: Process `HUMAN_TRANSFORMER (123)` terminated with an error exit status (130)
|
||||
Mar-18 21:20:29.309 [TaskFinalizer-10] ERROR nextflow.processor.TaskProcessor - Execution aborted due to an unexpected error
|
||||
java.lang.NullPointerException: Cannot invoke method submit() on null object
|
||||
at org.codehaus.groovy.runtime.NullObject.invokeMethod(NullObject.java:113)
|
||||
at org.codehaus.groovy.vmplugin.v8.IndyGuardsFiltersAndSignatures.invokeGroovyObjectInvoker(IndyGuardsFiltersAndSignatures.java:151)
|
||||
at org.codehaus.groovy.vmplugin.v8.IndyInterface.fromCache(IndyInterface.java:321)
|
||||
at nextflow.processor.TaskProcessor.checkErrorStrategy(TaskProcessor.groovy:1163)
|
||||
at org.codehaus.groovy.vmplugin.v8.IndyInterface.fromCache(IndyInterface.java:321)
|
||||
at nextflow.processor.TaskProcessor.resumeOrDie(TaskProcessor.groovy:1077)
|
||||
at org.codehaus.groovy.vmplugin.v8.IndyInterface.fromCache(IndyInterface.java:321)
|
||||
at nextflow.processor.TaskProcessor.finalizeTask(TaskProcessor.groovy:2402)
|
||||
at nextflow.processor.TaskPollingMonitor.finalizeTask(TaskPollingMonitor.groovy:696)
|
||||
at nextflow.processor.TaskPollingMonitor.safeFinalizeTask(TaskPollingMonitor.groovy:686)
|
||||
at java.base/jdk.internal.reflect.DirectMethodHandleAccessor.invoke(DirectMethodHandleAccessor.java:103)
|
||||
at java.base/java.lang.reflect.Method.invoke(Method.java:580)
|
||||
at org.codehaus.groovy.reflection.CachedMethod.invoke(CachedMethod.java:343)
|
||||
at groovy.lang.MetaMethod.doMethodInvoke(MetaMethod.java:328)
|
||||
at groovy.lang.MetaClassImpl.doInvokeMethod(MetaClassImpl.java:1333)
|
||||
at groovy.lang.MetaClassImpl.invokeMethod(MetaClassImpl.java:1088)
|
||||
at groovy.lang.MetaClassImpl.invokeMethod(MetaClassImpl.java:1007)
|
||||
at org.codehaus.groovy.runtime.InvokerHelper.invokePogoMethod(InvokerHelper.java:645)
|
||||
at org.codehaus.groovy.runtime.InvokerHelper.invokeMethod(InvokerHelper.java:628)
|
||||
at org.codehaus.groovy.runtime.InvokerHelper.invokeMethodSafe(InvokerHelper.java:82)
|
||||
at nextflow.processor.TaskPollingMonitor$_checkTaskStatus_lambda8.doCall(TaskPollingMonitor.groovy:676)
|
||||
at java.base/java.util.concurrent.Executors$RunnableAdapter.call(Executors.java:572)
|
||||
at java.base/java.util.concurrent.FutureTask.run(FutureTask.java:317)
|
||||
at java.base/java.util.concurrent.ThreadPoolExecutor.runWorker(ThreadPoolExecutor.java:1144)
|
||||
at java.base/java.util.concurrent.ThreadPoolExecutor$Worker.run(ThreadPoolExecutor.java:642)
|
||||
at java.base/java.lang.Thread.run(Thread.java:1583)
|
||||
Mar-18 21:20:29.309 [TaskFinalizer-2] DEBUG nextflow.processor.TaskProcessor - Handling unexpected condition for
|
||||
task: name=HUMAN_TRANSFORMER (43); work-dir=/data/bugra/digital_trials/work/44/42e04d6d950d65bdc5c53a29f24aff
|
||||
error [nextflow.exception.ProcessFailedException]: Process `HUMAN_TRANSFORMER (43)` terminated with an error exit status (130)
|
||||
Mar-18 21:20:29.310 [TaskFinalizer-2] ERROR nextflow.processor.TaskProcessor - Execution aborted due to an unexpected error
|
||||
java.lang.NullPointerException: Cannot invoke method submit() on null object
|
||||
at org.codehaus.groovy.runtime.NullObject.invokeMethod(NullObject.java:113)
|
||||
at org.codehaus.groovy.vmplugin.v8.IndyGuardsFiltersAndSignatures.invokeGroovyObjectInvoker(IndyGuardsFiltersAndSignatures.java:151)
|
||||
at org.codehaus.groovy.vmplugin.v8.IndyInterface.fromCache(IndyInterface.java:321)
|
||||
at nextflow.processor.TaskProcessor.checkErrorStrategy(TaskProcessor.groovy:1163)
|
||||
at org.codehaus.groovy.vmplugin.v8.IndyInterface.fromCache(IndyInterface.java:321)
|
||||
at nextflow.processor.TaskProcessor.resumeOrDie(TaskProcessor.groovy:1077)
|
||||
at org.codehaus.groovy.vmplugin.v8.IndyInterface.fromCache(IndyInterface.java:321)
|
||||
at nextflow.processor.TaskProcessor.finalizeTask(TaskProcessor.groovy:2402)
|
||||
at nextflow.processor.TaskPollingMonitor.finalizeTask(TaskPollingMonitor.groovy:696)
|
||||
at nextflow.processor.TaskPollingMonitor.safeFinalizeTask(TaskPollingMonitor.groovy:686)
|
||||
at java.base/jdk.internal.reflect.DirectMethodHandleAccessor.invoke(DirectMethodHandleAccessor.java:103)
|
||||
at java.base/java.lang.reflect.Method.invoke(Method.java:580)
|
||||
at org.codehaus.groovy.reflection.CachedMethod.invoke(CachedMethod.java:343)
|
||||
at groovy.lang.MetaMethod.doMethodInvoke(MetaMethod.java:328)
|
||||
at groovy.lang.MetaClassImpl.doInvokeMethod(MetaClassImpl.java:1333)
|
||||
at groovy.lang.MetaClassImpl.invokeMethod(MetaClassImpl.java:1088)
|
||||
at groovy.lang.MetaClassImpl.invokeMethod(MetaClassImpl.java:1007)
|
||||
at org.codehaus.groovy.runtime.InvokerHelper.invokePogoMethod(InvokerHelper.java:645)
|
||||
at org.codehaus.groovy.runtime.InvokerHelper.invokeMethod(InvokerHelper.java:628)
|
||||
at org.codehaus.groovy.runtime.InvokerHelper.invokeMethodSafe(InvokerHelper.java:82)
|
||||
at nextflow.processor.TaskPollingMonitor$_checkTaskStatus_lambda8.doCall(TaskPollingMonitor.groovy:676)
|
||||
at java.base/java.util.concurrent.Executors$RunnableAdapter.call(Executors.java:572)
|
||||
at java.base/java.util.concurrent.FutureTask.run(FutureTask.java:317)
|
||||
at java.base/java.util.concurrent.ThreadPoolExecutor.runWorker(ThreadPoolExecutor.java:1144)
|
||||
at java.base/java.util.concurrent.ThreadPoolExecutor$Worker.run(ThreadPoolExecutor.java:642)
|
||||
at java.base/java.lang.Thread.run(Thread.java:1583)
|
||||
Mar-18 21:20:29.310 [TaskFinalizer-6] DEBUG nextflow.processor.TaskProcessor - Handling unexpected condition for
|
||||
task: name=HUMAN_TRANSFORMER (66); work-dir=/data/bugra/digital_trials/work/16/6dd6cfac099d7134782d3b80712847
|
||||
error [nextflow.exception.ProcessFailedException]: Process `HUMAN_TRANSFORMER (66)` terminated with an error exit status (130)
|
||||
Mar-18 21:20:29.311 [TaskFinalizer-6] ERROR nextflow.processor.TaskProcessor - Execution aborted due to an unexpected error
|
||||
java.lang.NullPointerException: Cannot invoke method submit() on null object
|
||||
at org.codehaus.groovy.runtime.NullObject.invokeMethod(NullObject.java:113)
|
||||
at org.codehaus.groovy.vmplugin.v8.IndyGuardsFiltersAndSignatures.invokeGroovyObjectInvoker(IndyGuardsFiltersAndSignatures.java:151)
|
||||
at org.codehaus.groovy.vmplugin.v8.IndyInterface.fromCache(IndyInterface.java:321)
|
||||
at nextflow.processor.TaskProcessor.checkErrorStrategy(TaskProcessor.groovy:1163)
|
||||
at org.codehaus.groovy.vmplugin.v8.IndyInterface.fromCache(IndyInterface.java:321)
|
||||
at nextflow.processor.TaskProcessor.resumeOrDie(TaskProcessor.groovy:1077)
|
||||
at org.codehaus.groovy.vmplugin.v8.IndyInterface.fromCache(IndyInterface.java:321)
|
||||
at nextflow.processor.TaskProcessor.finalizeTask(TaskProcessor.groovy:2402)
|
||||
at nextflow.processor.TaskPollingMonitor.finalizeTask(TaskPollingMonitor.groovy:696)
|
||||
at nextflow.processor.TaskPollingMonitor.safeFinalizeTask(TaskPollingMonitor.groovy:686)
|
||||
at java.base/jdk.internal.reflect.DirectMethodHandleAccessor.invoke(DirectMethodHandleAccessor.java:103)
|
||||
at java.base/java.lang.reflect.Method.invoke(Method.java:580)
|
||||
at org.codehaus.groovy.reflection.CachedMethod.invoke(CachedMethod.java:343)
|
||||
at groovy.lang.MetaMethod.doMethodInvoke(MetaMethod.java:328)
|
||||
at groovy.lang.MetaClassImpl.doInvokeMethod(MetaClassImpl.java:1333)
|
||||
at groovy.lang.MetaClassImpl.invokeMethod(MetaClassImpl.java:1088)
|
||||
at groovy.lang.MetaClassImpl.invokeMethod(MetaClassImpl.java:1007)
|
||||
at org.codehaus.groovy.runtime.InvokerHelper.invokePogoMethod(InvokerHelper.java:645)
|
||||
at org.codehaus.groovy.runtime.InvokerHelper.invokeMethod(InvokerHelper.java:628)
|
||||
at org.codehaus.groovy.runtime.InvokerHelper.invokeMethodSafe(InvokerHelper.java:82)
|
||||
at nextflow.processor.TaskPollingMonitor$_checkTaskStatus_lambda8.doCall(TaskPollingMonitor.groovy:676)
|
||||
at java.base/java.util.concurrent.Executors$RunnableAdapter.call(Executors.java:572)
|
||||
at java.base/java.util.concurrent.FutureTask.run(FutureTask.java:317)
|
||||
at java.base/java.util.concurrent.ThreadPoolExecutor.runWorker(ThreadPoolExecutor.java:1144)
|
||||
at java.base/java.util.concurrent.ThreadPoolExecutor$Worker.run(ThreadPoolExecutor.java:642)
|
||||
at java.base/java.lang.Thread.run(Thread.java:1583)
|
||||
Mar-18 21:20:29.452 [main] DEBUG nextflow.cache.CacheDB - Closing CacheDB done
|
||||
Mar-18 21:20:29.612 [main] INFO org.pf4j.AbstractPluginManager - Stop plugin 'nf-tower@1.11.3'
|
||||
Mar-18 21:20:29.612 [main] DEBUG nextflow.plugin.BasePlugin - Plugin stopped nf-tower
|
||||
Mar-18 21:20:29.614 [main] DEBUG nextflow.script.ScriptRunner - > Execution complete -- Goodbye
|
||||
Reference in New Issue
Block a user