Jul-03 12:08:15.992 [main] DEBUG nextflow.cli.Launcher - $> nextflow run -profile docker test.nf Jul-03 12:08:16.116 [main] DEBUG nextflow.cli.CmdRun - N E X T F L O W ~ version 25.04.3 Jul-03 12:08:16.165 [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 Jul-03 12:08:16.218 [main] INFO o.pf4j.DefaultPluginStatusProvider - Enabled plugins: [] Jul-03 12:08:16.219 [main] INFO o.pf4j.DefaultPluginStatusProvider - Disabled plugins: [] Jul-03 12:08:16.223 [main] INFO org.pf4j.DefaultPluginManager - PF4J version 3.12.0 in 'deployment' mode Jul-03 12:08:16.239 [main] INFO org.pf4j.AbstractPluginManager - No plugins Jul-03 12:08:16.269 [main] DEBUG nextflow.config.ConfigBuilder - Found config local: /data/bugra/metabolite-screen/nf_metabol_screen/nextflow.config Jul-03 12:08:16.274 [main] DEBUG nextflow.config.ConfigBuilder - Parsing config file: /data/bugra/metabolite-screen/nf_metabol_screen/nextflow.config Jul-03 12:08:16.319 [main] DEBUG n.secret.LocalSecretsProvider - Secrets store: /home/omic/.nextflow/secrets/store.json Jul-03 12:08:16.323 [main] DEBUG nextflow.secret.SecretsLoader - Discovered secrets providers: [nextflow.secret.LocalSecretsProvider@1ddd3478] - activable => nextflow.secret.LocalSecretsProvider@1ddd3478 Jul-03 12:08:16.339 [main] DEBUG nextflow.config.ConfigBuilder - Applying config profile: `docker` Jul-03 12:08:17.003 [main] DEBUG nextflow.config.ConfigBuilder - Available config profiles: [k8s, docker] Jul-03 12:08:17.044 [main] DEBUG nextflow.cli.CmdRun - Applied DSL=2 by global default Jul-03 12:08:17.064 [main] DEBUG nextflow.cli.CmdRun - Launching `test.nf` [insane_snyder] DSL2 - revision: 49b8a74e0c Jul-03 12:08:17.066 [main] DEBUG nextflow.plugin.PluginsFacade - Plugins default=[] Jul-03 12:08:17.066 [main] DEBUG nextflow.plugin.PluginsFacade - Plugins resolved requirement=[] Jul-03 12:08:17.150 [main] DEBUG nextflow.Session - Session UUID: 8cc53326-d69c-4269-9519-4eb256ccbbd2 Jul-03 12:08:17.151 [main] DEBUG nextflow.Session - Run name: insane_snyder Jul-03 12:08:17.152 [main] DEBUG nextflow.Session - Executor pool size: 80 Jul-03 12:08:17.163 [main] DEBUG nextflow.file.FilePorter - File porter settings maxRetries=3; maxTransfers=50; pollTimeout=null Jul-03 12:08:17.180 [main] DEBUG nextflow.util.ThreadPoolBuilder - Creating thread pool 'FileTransfer' minSize=10; maxSize=240; workQueue=LinkedBlockingQueue[-1]; allowCoreThreadTimeout=false Jul-03 12:08:17.322 [main] DEBUG nextflow.cli.CmdRun - Version: 25.04.3 build 5949 Created: 02-06-2025 20:56 UTC System: Linux 6.11.0-26-generic Runtime: Groovy 4.0.26 on OpenJDK 64-Bit Server VM 21.0.7+6-Ubuntu-0ubuntu124.04 Encoding: UTF-8 (UTF-8) Process: 3786432@k8s-node23 [127.0.1.1] CPUs: 80 - Mem: 251.6 GB (220.7 GB) - Swap: 0 (0) Jul-03 12:08:17.386 [main] DEBUG nextflow.Session - Work-dir: /data/bugra/metabolite-screen/nf_metabol_screen/work [btrfs] Jul-03 12:08:17.386 [main] DEBUG nextflow.Session - Script base path does not exist or is not a directory: /data/bugra/metabolite-screen/nf_metabol_screen/bin Jul-03 12:08:17.401 [main] DEBUG nextflow.executor.ExecutorFactory - Extension executors providers=[] Jul-03 12:08:17.413 [main] DEBUG nextflow.Session - Observer factory: DefaultObserverFactory Jul-03 12:08:17.440 [main] DEBUG nextflow.Session - Observer factory (v2): LinObserverFactory Jul-03 12:08:17.469 [main] DEBUG nextflow.cache.CacheFactory - Using Nextflow cache factory: nextflow.cache.DefaultCacheFactory Jul-03 12:08:17.483 [main] DEBUG nextflow.util.CustomThreadPool - Creating default thread pool > poolSize: 81; maxThreads: 1000 Jul-03 12:08:17.707 [main] DEBUG nextflow.Session - Session start Jul-03 12:08:17.717 [main] DEBUG nextflow.trace.TraceFileObserver - Workflow started -- trace file: /data/bugra/metabolite-screen/nf_metabol_screen/execution_trace.txt Jul-03 12:08:17.950 [main] DEBUG nextflow.script.ScriptRunner - > Launching execution Jul-03 12:08:18.079 [main] DEBUG nextflow.script.ScriptRunner - Parsed script files: Script_e80a6c5924994093: /data/bugra/metabolite-screen/nf_metabol_screen/test.nf Script_181c5ac3efe09ab5: /data/bugra/metabolite-screen/nf_metabol_screen/main.nf Jul-03 12:08:18.081 [main] DEBUG nextflow.Session - Session aborted -- Cause: No such property: chunks for class: nextflow.script.WorkflowBinding Jul-03 12:08:18.096 [main] ERROR nextflow.cli.Launcher - @unknown groovy.lang.MissingPropertyException: No such property: chunks for class: nextflow.script.WorkflowBinding at groovy.lang.Binding.getVariable(Binding.java:61) at nextflow.script.WorkflowBinding.getVariable(WorkflowBinding.groovy:143) at groovy.lang.Binding.getProperty(Binding.java:117) at nextflow.script.WorkflowBinding.getProperty(WorkflowBinding.groovy:132) at org.codehaus.groovy.runtime.InvokerHelper.getProperty(InvokerHelper.java:167) at groovy.lang.Closure.getPropertyTryThese(Closure.java:325) at groovy.lang.Closure.getPropertyDelegateFirst(Closure.java:315) at groovy.lang.Closure.getProperty(Closure.java:301) at org.codehaus.groovy.vmplugin.v8.IndyInterface.fromCache(IndyInterface.java:321) at Script_e80a6c5924994093$_runScript_closure1$_closure2.doCall(Script_e80a6c5924994093:13) 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 org.codehaus.groovy.runtime.metaclass.ClosureMetaClass.invokeMethod(ClosureMetaClass.java:280) at groovy.lang.MetaClassImpl.invokeMethod(MetaClassImpl.java:1007) at groovy.lang.Closure.call(Closure.java:433) at groovy.lang.Closure.call(Closure.java:412) at nextflow.script.WorkflowDef.run0(WorkflowDef.groovy:205) at nextflow.script.WorkflowDef.run(WorkflowDef.groovy:189) at nextflow.script.BindableDef.invoke_a(BindableDef.groovy:51) at org.codehaus.groovy.vmplugin.v8.IndyInterface.fromCache(IndyInterface.java:321) at nextflow.script.BaseScript.run0(BaseScript.groovy:182) at org.codehaus.groovy.vmplugin.v8.IndyInterface.fromCache(IndyInterface.java:321) at nextflow.script.BaseScript.run(BaseScript.groovy:193) at nextflow.script.parser.v1.ScriptLoaderV1.runScript(ScriptLoaderV1.groovy:246) at nextflow.script.parser.v1.ScriptLoaderV1.runScript(ScriptLoaderV1.groovy) at nextflow.script.ScriptRunner.run(ScriptRunner.groovy:246) at nextflow.script.ScriptRunner.execute(ScriptRunner.groovy:139) at nextflow.cli.CmdRun.run(CmdRun.groovy:379) at nextflow.cli.Launcher.run(Launcher.groovy:513) at nextflow.cli.Launcher.main(Launcher.groovy:673)