Feb-10 13:09:51.729 [main] DEBUG nextflow.cli.Launcher - $> nextflow run nf-core/mag -profile conda -c laird.config --input SG_R1R2.csv --outdir SG_mags -r 5.3.0 --skip_metabinner Feb-10 13:09:51.832 [main] DEBUG nextflow.cli.CmdRun - N E X T F L O W ~ version 25.10.0 Feb-10 13:09:51.845 [main] DEBUG nextflow.scm.ProviderConfig - Using SCM config path: /home/UNN/w20041368/.nextflow/scm Feb-10 13:09:52.645 [main] DEBUG nextflow.scm.AssetManager - Git config: /home/UNN/w20041368/.nextflow/assets/nf-core/mag/.git/config; branch: main; remote: origin; url: https://github.com/nf-core/mag.git Feb-10 13:09:52.670 [main] DEBUG nextflow.plugin.PluginsFacade - Using Default plugin manager Feb-10 13:09:52.677 [main] INFO o.pf4j.DefaultPluginStatusProvider - Enabled plugins: [] Feb-10 13:09:52.677 [main] INFO o.pf4j.DefaultPluginStatusProvider - Disabled plugins: [] Feb-10 13:09:52.680 [main] INFO org.pf4j.DefaultPluginManager - PF4J version 3.12.0 in 'deployment' mode Feb-10 13:09:52.696 [main] DEBUG nextflow.scm.RepositoryFactory - Found Git repository result: [RepositoryFactory] Feb-10 13:09:52.706 [main] DEBUG nextflow.scm.AssetManager - Git config: /home/UNN/w20041368/.nextflow/assets/nf-core/mag/.git/config; branch: main; remote: origin; url: https://github.com/nf-core/mag.git Feb-10 13:09:53.450 [main] DEBUG nextflow.config.ConfigBuilder - Found config base: /home/UNN/w20041368/.nextflow/assets/nf-core/mag/nextflow.config Feb-10 13:09:53.452 [main] DEBUG nextflow.config.ConfigBuilder - User config file: /home/UNN/w20041368/laird.config Feb-10 13:09:53.453 [main] DEBUG nextflow.config.ConfigBuilder - Parsing config file: /home/UNN/w20041368/.nextflow/assets/nf-core/mag/nextflow.config Feb-10 13:09:53.454 [main] DEBUG nextflow.config.ConfigBuilder - Parsing config file: /home/UNN/w20041368/laird.config Feb-10 13:09:53.467 [main] DEBUG nextflow.config.ConfigBuilder - Applying config profile: `conda` Feb-10 13:09:53.908 [main] DEBUG nextflow.plugin.PluginsFacade - Using Default plugin manager Feb-10 13:09:53.908 [main] DEBUG nextflow.plugin.PluginsFacade - Using Default plugin manager Feb-10 13:09:54.299 [main] DEBUG nextflow.plugin.PluginsFacade - Using Default plugin manager Feb-10 13:09:54.300 [main] DEBUG nextflow.plugin.PluginsFacade - Using Default plugin manager Feb-10 13:09:55.056 [main] DEBUG nextflow.config.ConfigBuilder - Applying config profile: `conda` Feb-10 13:09:55.090 [main] DEBUG nextflow.config.ConfigBuilder - Available config profiles: [bih, cfc_dev, uzl_omics, ifb_core, embl_hd, denbi_qbic, alice, mjolnir_globe, uppmax, giga, incliva, ilifu, ki_luria, uge, icr_alma, rosalind_uge, lugh, mccleary, unibe_ibu, vai, czbiohub_aws, jax, roslin, iris, tes, scw, unc_longleaf, tigem, tubingen_apg, apollo, ipop_up, vsc_calcua, pdc_kth, ceci_nic5, ccga_cau, humantechnopole, stjude, daisybio, eddie, medair, biowulf, apptainer, bi, test_minimal, bigpurple, adcra, cedars, pawsey_setonix, vsc_kul_uhasselt, pawsey_nimbus, rki, ucl_myriad, utd_ganymede, charliecloud, fred_hutch, seattlechildrens, icr_davros, ceres, munin, rosalind, hasta, cfc, emulate_amd64, uzh, shu_bmrc, ebi_codon_slurm, test_alternatives, ebc, ccga_dx, test_hybrid, crick, ku_sund_danhead, marvin, lrz_cm4, shifter, biohpc_gen, mana, mamba, york_viking, unc_lccc, wehi, awsbatch, wustl_htcf, arcc, ceci_dragon2, imperial, maestro, software_license, cannon, genotoul, nci_gadi, abims, eva_grace, janelia, nu_genomics, googlebatch, oist, sahmri, kaust, alliance_canada, arm64, mpcdf, leicester, vsc_ugent, create, sage, cambridge, jex, test_assembly_input, podman, ebi_codon, cheaha, xanadu, nyu_hpc, test, marjorie, test_longreadonly_alternatives, computerome, ucd_sonic, gpu, test_single_end, seg_globe, mssm, sanger, dkfz, bluebear, pasteur, einstein, ethz_euler, m3c, test_full, imb, ucl_cscluster, tuos_stanage, azurebatch, seadragon, crukmi, csiro_petrichor, qmul_apocrita, wave, docker, engaging, gis, hypatia, psmn, eva, unity, cropdiversityhpc, nygc, fgcz, conda, crg, singularity, mpcdf_viper, pe2, dirac, self_hosted_runner, tufts, uw_hyak_pedslabs, binac2, debug, hki_genie, genouest, cbe, unsw_katana, utd_juno, phoenix, seawulf, test_longreadonly, uod_hpc, fub_curta, lovelace, uct_hpc, aws_tower, binac, fsu_draco] Feb-10 13:09:55.149 [main] DEBUG nextflow.plugin.PluginsFacade - Setting up plugin manager > mode=prod; embedded=false; plugins-dir=/home/UNN/w20041368/.nextflow/plugins; core-plugins: nf-amazon@3.4.1,nf-azure@1.20.2,nf-cloudcache@0.5.0,nf-codecommit@0.5.0,nf-console@1.3.0,nf-google@1.23.3,nf-k8s@1.2.2,nf-tower@1.17.1,nf-wave@1.16.1 Feb-10 13:09:55.154 [main] INFO o.pf4j.DefaultPluginStatusProvider - Enabled plugins: [] Feb-10 13:09:55.154 [main] INFO o.pf4j.DefaultPluginStatusProvider - Disabled plugins: [] Feb-10 13:09:55.156 [main] INFO org.pf4j.DefaultPluginManager - PF4J version 3.12.0 in 'deployment' mode Feb-10 13:09:55.168 [main] DEBUG nextflow.util.RetryConfig - Missing nextflow session - using default retry config Feb-10 13:09:55.194 [main] INFO org.pf4j.AbstractPluginManager - No plugins Feb-10 13:09:55.194 [main] DEBUG nextflow.plugin.PluginsFacade - Plugins declared=[nf-schema@2.5.1] Feb-10 13:09:55.195 [main] DEBUG nextflow.plugin.PluginsFacade - Plugins default=[] Feb-10 13:09:55.195 [main] DEBUG nextflow.plugin.PluginsFacade - Plugins resolved requirement=[nf-schema@2.5.1] Feb-10 13:09:55.822 [main] DEBUG n.plugin.HttpPluginRepository - Registry request: https://registry.nextflow.io/api/v1/plugins/dependencies?plugins=nf-schema%402.5.1&nextflowVersion=25.10.0 - code: 200 - body: {"plugins":[{"id":"nf-schema","downloadCount":186629,"downloadGhCount":528587,"releases":[{"version":"2.5.1","url":"https://registry.nextflow.io/api/v1/plugins/nf-schema/2.5.1/download/nf-schema-2.5.1.zip","date":"2025-09-02T14:48:39.714892Z","sha512sum":"82c9c17a9f77319386e670e7b52cf79b067320001f083ccdfec77dada9fd53499506200fd10b493cf8f6fc0420f42e2314481c353ca14b3a92f354bf07ad5c13","requires":">=25.04.0","dependsOn":[],"downloadCount":103207,"downloadGhCount":38321,"status":"PUBLISHED","spec":null,"description":null}],"projectUrl":"https://github.com/nextflow-io/nf-schema","provider":"nextflow-io","description":null}]} Feb-10 13:09:55.875 [main] DEBUG nextflow.plugin.PluginUpdater - Installing plugin nf-schema version: 2.5.1 Feb-10 13:09:55.883 [main] INFO org.pf4j.AbstractPluginManager - Plugin 'nf-schema@2.5.1' resolved Feb-10 13:09:55.883 [main] INFO org.pf4j.AbstractPluginManager - Start plugin 'nf-schema@2.5.1' Feb-10 13:09:55.887 [main] DEBUG nextflow.plugin.BasePlugin - Plugin started nf-schema@2.5.1 Feb-10 13:09:55.892 [main] DEBUG n.secret.LocalSecretsProvider - Secrets store: /home/UNN/w20041368/.nextflow/secrets/store.json Feb-10 13:09:55.893 [main] DEBUG nextflow.secret.SecretsLoader - Discovered secrets providers: [nextflow.secret.LocalSecretsProvider@6c19769c] - activable => nextflow.secret.LocalSecretsProvider@6c19769c Feb-10 13:09:55.895 [main] DEBUG nextflow.cli.CmdRun - Applied DSL=2 by global default Feb-10 13:09:55.895 [main] DEBUG nextflow.cli.CmdRun - Launching `https://github.com/nf-core/mag` [magical_montalcini] DSL2 - revision: ccfb744aab [5.3.0] Feb-10 13:09:55.949 [main] DEBUG nextflow.Session - Session UUID: d917ea66-2606-4c6c-91e1-33491083b217 Feb-10 13:09:55.950 [main] DEBUG nextflow.Session - Run name: magical_montalcini Feb-10 13:09:55.950 [main] DEBUG nextflow.Session - Executor pool size: 192 Feb-10 13:09:55.956 [main] DEBUG nextflow.file.FilePorter - File porter settings maxRetries=3; maxTransfers=50; pollTimeout=null Feb-10 13:09:55.959 [main] DEBUG nextflow.util.ThreadPoolBuilder - Creating thread pool 'FileTransfer' minSize=10; maxSize=576; workQueue=LinkedBlockingQueue[-1]; allowCoreThreadTimeout=false Feb-10 13:09:55.971 [main] DEBUG nextflow.cli.CmdRun - Version: 25.10.0 build 10289 Created: 22-10-2025 16:26 UTC (17:26 BST) System: Linux 4.18.0-553.94.1.el8_10.x86_64 Runtime: Groovy 4.0.28 on OpenJDK 64-Bit Server VM 17.0.10+7 Encoding: UTF-8 (UTF-8) Process: 3180473@laird [127.0.0.1] CPUs: 192 - Mem: 2 TB (1.2 TB) - Swap: 29.8 GB (29.7 GB) Feb-10 13:09:55.981 [main] DEBUG nextflow.Session - Work-dir: /home/UNN/w20041368/work [xfs] Feb-10 13:09:56.006 [main] DEBUG nextflow.executor.ExecutorFactory - Extension executors providers=[] Feb-10 13:09:56.015 [main] DEBUG nextflow.Session - Observer factory (v2): LinObserverFactory Feb-10 13:09:56.017 [main] DEBUG nextflow.Session - Observer factory (v2): DefaultObserverFactory Feb-10 13:09:56.028 [main] DEBUG nextflow.Session - Observer factory (v2): ValidationObserverFactory Feb-10 13:09:56.068 [main] DEBUG nextflow.cache.CacheFactory - Using Nextflow cache factory: nextflow.cache.DefaultCacheFactory Feb-10 13:09:56.077 [main] DEBUG nextflow.util.CustomThreadPool - Creating default thread pool > poolSize: 193; maxThreads: 1000 Feb-10 13:09:56.121 [main] DEBUG nextflow.Session - Session start Feb-10 13:09:56.125 [main] DEBUG nextflow.trace.TraceFileObserver - Workflow started -- trace file: SG_mags/pipeline_info/execution_trace_2026-02-10_13-09-53.txt Feb-10 13:09:56.234 [main] DEBUG nextflow.script.ScriptRunner - > Launching execution Feb-10 13:09:56.965 [main] DEBUG nextflow.script.IncludeDef - Loading included plugin extensions with names: [paramsSummaryMap:paramsSummaryMap]; plugin Id: nf-schema Feb-10 13:09:56.972 [main] DEBUG n.validation.config.ValidationConfig - Set `validation.monochromeLogs` to false Feb-10 13:09:56.974 [main] DEBUG n.validation.config.ValidationConfig - Added the following parameters to the ignored parameters: [genomes] Feb-10 13:09:57.418 [main] DEBUG nextflow.script.IncludeDef - Loading included plugin extensions with names: [paramsSummaryLog:paramsSummaryLog]; plugin Id: nf-schema Feb-10 13:09:57.419 [main] DEBUG nextflow.script.IncludeDef - Loading included plugin extensions with names: [validateParameters:validateParameters]; plugin Id: nf-schema Feb-10 13:09:57.420 [main] DEBUG nextflow.script.IncludeDef - Loading included plugin extensions with names: [paramsHelp:paramsHelp]; plugin Id: nf-schema Feb-10 13:09:57.423 [main] DEBUG nextflow.script.IncludeDef - Loading included plugin extensions with names: [paramsSummaryMap:paramsSummaryMap]; plugin Id: nf-schema Feb-10 13:09:57.423 [main] DEBUG nextflow.script.IncludeDef - Loading included plugin extensions with names: [samplesheetToList:samplesheetToList]; plugin Id: nf-schema Feb-10 13:09:57.424 [main] DEBUG nextflow.script.IncludeDef - Loading included plugin extensions with names: [paramsHelp:paramsHelp]; plugin Id: nf-schema Feb-10 13:10:03.054 [main] DEBUG nextflow.script.IncludeDef - Loading included plugin extensions with names: [paramsSummaryLog:paramsSummaryLog]; plugin Id: nf-schema Feb-10 13:10:03.055 [main] DEBUG nextflow.script.IncludeDef - Loading included plugin extensions with names: [validateParameters:validateParameters]; plugin Id: nf-schema Feb-10 13:10:03.055 [main] DEBUG nextflow.script.IncludeDef - Loading included plugin extensions with names: [paramsHelp:paramsHelp]; plugin Id: nf-schema Feb-10 13:10:03.057 [main] DEBUG nextflow.script.IncludeDef - Loading included plugin extensions with names: [paramsSummaryMap:paramsSummaryMap]; plugin Id: nf-schema Feb-10 13:10:03.057 [main] DEBUG nextflow.script.IncludeDef - Loading included plugin extensions with names: [samplesheetToList:samplesheetToList]; plugin Id: nf-schema Feb-10 13:10:03.057 [main] DEBUG nextflow.script.IncludeDef - Loading included plugin extensions with names: [paramsHelp:paramsHelp]; plugin Id: nf-schema Feb-10 13:10:03.462 [main] INFO nextflow.Nextflow - ------------------------------------------------------ ,--./,-. ___ __ __ __ ___ /,-._.--~' |\ | |__ __ / ` / \ |__) |__ } { | \| | \__, \__/ | \ |___ \`-._,-`-, `._,._,' nf-core/mag 5.3.0 ------------------------------------------------------ Feb-10 13:10:03.490 [main] INFO nextflow.Nextflow - Input/output options input : SG_R1R2.csv outdir : SG_mags Reference genome options igenomes_ignore : true igenomes_base : null Generic options trace_report_suffix : 2026-02-10_13-09-53 Taxonomic profiling options gtdb_db : /home/UNN/w20041368/databases/gtdbtk/release226 gtdbtk_min_completeness : 50.0 gtdbtk_max_contamination: 10.0 Gene prediction and annotation options prokka_with_compliance : true prokka_compliance_centre: MyLab Binning options skip_concoct : true skip_comebin : true skip_metabinner : true Bin quality check options run_busco : true checkm_download_url : null checkm2_db : /home/UNN/w20041368/databases/checkm2/CheckM2_database/uniref100.KO.1.dmnd Core Nextflow options revision : 5.3.0 runName : magical_montalcini launchDir : /home/UNN/w20041368 workDir : /home/UNN/w20041368/work projectDir : /home/UNN/w20041368/.nextflow/assets/nf-core/mag userName : w20041368 profile : conda configFiles : /home/UNN/w20041368/.nextflow/assets/nf-core/mag/nextflow.config, /home/UNN/w20041368/laird.config !! Only displaying parameters that differ from the pipeline defaults !! ------------------------------------------------------ Feb-10 13:10:03.491 [main] INFO nextflow.Nextflow - * The pipeline https://doi.org/10.1093/nargab/lqac007 * The nf-core framework https://doi.org/10.1038/s41587-020-0439-x * Software dependencies https://github.com/nf-core/mag/blob/main/CITATIONS.md Feb-10 13:10:03.510 [main] DEBUG n.v.parameters.ParameterValidator - Starting parameters validation Feb-10 13:10:03.679 [main] DEBUG n.v.v.evaluators.SchemaEvaluator - Started validating /home/UNN/w20041368/SG_R1R2.csv Feb-10 13:10:03.726 [main] DEBUG n.v.v.evaluators.SchemaEvaluator - Validation of file 'SG_R1R2.csv' passed! Feb-10 13:10:04.231 [main] WARN n.v.logging.ValidationLogger - The following invalid input values have been detected: * --max_cpus: 192 * --max_time: 72.h * --max_memory: 2048.GB * --binqc_tool: checkm2 Feb-10 13:10:04.233 [main] DEBUG n.v.parameters.ParameterValidator - Finishing parameters validation Feb-10 13:10:04.310 [main] DEBUG n.script.dsl.ProcessConfigBuilder - Config settings `withLabel:process_medium` matches labels `process_medium` for process with name NFCORE_MAG:MAG:SHORTREAD_PREPROCESSING:FASTQC_RAW Feb-10 13:10:04.313 [main] DEBUG n.script.dsl.ProcessConfigBuilder - Config settings `withName:FASTQC_RAW` matches process NFCORE_MAG:MAG:SHORTREAD_PREPROCESSING:FASTQC_RAW Feb-10 13:10:04.326 [main] DEBUG nextflow.executor.ExecutorFactory - << taskConfig executor: local Feb-10 13:10:04.326 [main] DEBUG nextflow.executor.ExecutorFactory - >> processorType: 'local' Feb-10 13:10:04.334 [main] DEBUG nextflow.executor.Executor - [warm up] executor > local Feb-10 13:10:04.340 [main] DEBUG n.processor.LocalPollingMonitor - Creating local task monitor for executor 'local' > cpus=192; memory=2 TB; capacity=192; pollInterval=100ms; dumpInterval=5m Feb-10 13:10:04.342 [main] DEBUG n.processor.TaskPollingMonitor - >>> barrier register (monitor: local) Feb-10 13:10:04.358 [main] DEBUG nextflow.processor.TaskProcessor - Creating process 'NFCORE_MAG:MAG:SHORTREAD_PREPROCESSING:FASTQC_RAW': maxForks=8; fair=false; array=0 Feb-10 13:10:04.386 [main] DEBUG n.script.dsl.ProcessConfigBuilder - Config settings `withLabel:process_medium` matches labels `process_medium` for process with name NFCORE_MAG:MAG:SHORTREAD_PREPROCESSING:FASTP Feb-10 13:10:04.387 [main] DEBUG n.script.dsl.ProcessConfigBuilder - Config settings `withName:FASTP` matches process NFCORE_MAG:MAG:SHORTREAD_PREPROCESSING:FASTP Feb-10 13:10:04.394 [main] DEBUG nextflow.executor.ExecutorFactory - << taskConfig executor: local Feb-10 13:10:04.394 [main] DEBUG nextflow.executor.ExecutorFactory - >> processorType: 'local' Feb-10 13:10:04.395 [main] DEBUG nextflow.processor.TaskProcessor - Creating process 'NFCORE_MAG:MAG:SHORTREAD_PREPROCESSING:FASTP': maxForks=8; fair=false; array=0 Feb-10 13:10:04.416 [main] DEBUG nextflow.executor.ExecutorFactory - << taskConfig executor: local Feb-10 13:10:04.416 [main] DEBUG nextflow.executor.ExecutorFactory - >> processorType: 'local' Feb-10 13:10:04.416 [main] DEBUG nextflow.processor.TaskProcessor - Creating process 'NFCORE_MAG:MAG:SHORTREAD_PREPROCESSING:BOWTIE2_PHIX_REMOVAL_BUILD': maxForks=8; fair=false; array=0 Feb-10 13:10:04.421 [main] DEBUG n.script.dsl.ProcessConfigBuilder - Config settings `withName:BOWTIE2_PHIX_REMOVAL_ALIGN` matches process NFCORE_MAG:MAG:SHORTREAD_PREPROCESSING:BOWTIE2_PHIX_REMOVAL_ALIGN Feb-10 13:10:04.426 [main] DEBUG nextflow.executor.ExecutorFactory - << taskConfig executor: local Feb-10 13:10:04.426 [main] DEBUG nextflow.executor.ExecutorFactory - >> processorType: 'local' Feb-10 13:10:04.426 [main] DEBUG nextflow.processor.TaskProcessor - Creating process 'NFCORE_MAG:MAG:SHORTREAD_PREPROCESSING:BOWTIE2_PHIX_REMOVAL_ALIGN': maxForks=8; fair=false; array=0 Feb-10 13:10:04.432 [main] DEBUG n.script.dsl.ProcessConfigBuilder - Config settings `withLabel:process_medium` matches labels `process_medium` for process with name NFCORE_MAG:MAG:SHORTREAD_PREPROCESSING:FASTQC_TRIMMED Feb-10 13:10:04.433 [main] DEBUG n.script.dsl.ProcessConfigBuilder - Config settings `withName:FASTQC_TRIMMED` matches process NFCORE_MAG:MAG:SHORTREAD_PREPROCESSING:FASTQC_TRIMMED Feb-10 13:10:04.437 [main] DEBUG nextflow.executor.ExecutorFactory - << taskConfig executor: local Feb-10 13:10:04.437 [main] DEBUG nextflow.executor.ExecutorFactory - >> processorType: 'local' Feb-10 13:10:04.437 [main] DEBUG nextflow.processor.TaskProcessor - Creating process 'NFCORE_MAG:MAG:SHORTREAD_PREPROCESSING:FASTQC_TRIMMED': maxForks=8; fair=false; array=0 Feb-10 13:10:04.447 [main] DEBUG n.script.dsl.ProcessConfigBuilder - Config settings `withLabel:process_single` matches labels `process_single` for process with name NFCORE_MAG:MAG:SHORTREAD_PREPROCESSING:CAT_FASTQ Feb-10 13:10:04.451 [main] DEBUG nextflow.executor.ExecutorFactory - << taskConfig executor: local Feb-10 13:10:04.451 [main] DEBUG nextflow.executor.ExecutorFactory - >> processorType: 'local' Feb-10 13:10:04.451 [main] DEBUG nextflow.processor.TaskProcessor - Creating process 'NFCORE_MAG:MAG:SHORTREAD_PREPROCESSING:CAT_FASTQ': maxForks=8; fair=false; array=0 Feb-10 13:10:04.466 [main] DEBUG n.script.dsl.ProcessConfigBuilder - Config settings `withLabel:process_low` matches labels `process_low` for process with name NFCORE_MAG:MAG:LONGREAD_PREPROCESSING:NANOPLOT_RAW Feb-10 13:10:04.468 [main] DEBUG n.script.dsl.ProcessConfigBuilder - Config settings `withName:NANOPLOT_RAW` matches process NFCORE_MAG:MAG:LONGREAD_PREPROCESSING:NANOPLOT_RAW Feb-10 13:10:04.472 [main] DEBUG nextflow.executor.ExecutorFactory - << taskConfig executor: local Feb-10 13:10:04.472 [main] DEBUG nextflow.executor.ExecutorFactory - >> processorType: 'local' Feb-10 13:10:04.472 [main] DEBUG nextflow.processor.TaskProcessor - Creating process 'NFCORE_MAG:MAG:LONGREAD_PREPROCESSING:NANOPLOT_RAW': maxForks=8; fair=false; array=0 Feb-10 13:10:04.477 [main] DEBUG n.script.dsl.ProcessConfigBuilder - Config settings `withLabel:process_medium` matches labels `process_medium` for process with name NFCORE_MAG:MAG:LONGREAD_PREPROCESSING:PORECHOP_ABI Feb-10 13:10:04.478 [main] DEBUG n.script.dsl.ProcessConfigBuilder - Config settings `withName:PORECHOP_ABI` matches process NFCORE_MAG:MAG:LONGREAD_PREPROCESSING:PORECHOP_ABI Feb-10 13:10:04.481 [main] DEBUG nextflow.executor.ExecutorFactory - << taskConfig executor: local Feb-10 13:10:04.481 [main] DEBUG nextflow.executor.ExecutorFactory - >> processorType: 'local' Feb-10 13:10:04.482 [main] DEBUG nextflow.processor.TaskProcessor - Creating process 'NFCORE_MAG:MAG:LONGREAD_PREPROCESSING:PORECHOP_ABI': maxForks=8; fair=false; array=0 Feb-10 13:10:04.487 [main] DEBUG n.script.dsl.ProcessConfigBuilder - Config settings `withLabel:process_low` matches labels `process_low` for process with name NFCORE_MAG:MAG:LONGREAD_PREPROCESSING:NANOLYSE Feb-10 13:10:04.487 [main] DEBUG n.script.dsl.ProcessConfigBuilder - Config settings `withName:NANOLYSE` matches process NFCORE_MAG:MAG:LONGREAD_PREPROCESSING:NANOLYSE Feb-10 13:10:04.491 [main] DEBUG nextflow.executor.ExecutorFactory - << taskConfig executor: local Feb-10 13:10:04.491 [main] DEBUG nextflow.executor.ExecutorFactory - >> processorType: 'local' Feb-10 13:10:04.491 [main] DEBUG nextflow.processor.TaskProcessor - Creating process 'NFCORE_MAG:MAG:LONGREAD_PREPROCESSING:NANOLYSE': maxForks=8; fair=false; array=0 Feb-10 13:10:04.500 [main] DEBUG n.script.dsl.ProcessConfigBuilder - Config settings `withLabel:process_low` matches labels `process_low` for process with name NFCORE_MAG:MAG:LONGREAD_PREPROCESSING:FILTLONG Feb-10 13:10:04.501 [main] DEBUG n.script.dsl.ProcessConfigBuilder - Config settings `withName:FILTLONG` matches process NFCORE_MAG:MAG:LONGREAD_PREPROCESSING:FILTLONG Feb-10 13:10:04.504 [main] DEBUG nextflow.executor.ExecutorFactory - << taskConfig executor: local Feb-10 13:10:04.504 [main] DEBUG nextflow.executor.ExecutorFactory - >> processorType: 'local' Feb-10 13:10:04.505 [main] DEBUG nextflow.processor.TaskProcessor - Creating process 'NFCORE_MAG:MAG:LONGREAD_PREPROCESSING:FILTLONG': maxForks=8; fair=false; array=0 Feb-10 13:10:04.511 [main] DEBUG n.script.dsl.ProcessConfigBuilder - Config settings `withLabel:process_low` matches labels `process_low` for process with name NFCORE_MAG:MAG:LONGREAD_PREPROCESSING:NANOPLOT_FILTERED Feb-10 13:10:04.513 [main] DEBUG n.script.dsl.ProcessConfigBuilder - Config settings `withName:NANOPLOT_FILTERED` matches process NFCORE_MAG:MAG:LONGREAD_PREPROCESSING:NANOPLOT_FILTERED Feb-10 13:10:04.516 [main] DEBUG nextflow.executor.ExecutorFactory - << taskConfig executor: local Feb-10 13:10:04.517 [main] DEBUG nextflow.executor.ExecutorFactory - >> processorType: 'local' Feb-10 13:10:04.517 [main] DEBUG nextflow.processor.TaskProcessor - Creating process 'NFCORE_MAG:MAG:LONGREAD_PREPROCESSING:NANOPLOT_FILTERED': maxForks=8; fair=false; array=0 Feb-10 13:10:04.527 [main] DEBUG n.script.dsl.ProcessConfigBuilder - Config settings `withLabel:process_single` matches labels `process_single` for process with name NFCORE_MAG:MAG:LONGREAD_PREPROCESSING:CAT_FASTQ_LONGREADS Feb-10 13:10:04.532 [main] DEBUG nextflow.executor.ExecutorFactory - << taskConfig executor: local Feb-10 13:10:04.532 [main] DEBUG nextflow.executor.ExecutorFactory - >> processorType: 'local' Feb-10 13:10:04.532 [main] DEBUG nextflow.processor.TaskProcessor - Creating process 'NFCORE_MAG:MAG:LONGREAD_PREPROCESSING:CAT_FASTQ_LONGREADS': maxForks=8; fair=false; array=0 Feb-10 13:10:04.551 [main] DEBUG n.script.dsl.ProcessConfigBuilder - Config settings `withLabel:process_single` matches labels `process_single` for process with name NFCORE_MAG:MAG:ASSEMBLY:POOL_LONG_READS Feb-10 13:10:04.557 [main] DEBUG nextflow.executor.ExecutorFactory - << taskConfig executor: local Feb-10 13:10:04.557 [main] DEBUG nextflow.executor.ExecutorFactory - >> processorType: 'local' Feb-10 13:10:04.558 [main] DEBUG nextflow.processor.TaskProcessor - Creating process 'NFCORE_MAG:MAG:ASSEMBLY:POOL_LONG_READS': maxForks=8; fair=false; array=0 Feb-10 13:10:04.565 [main] DEBUG n.script.dsl.ProcessConfigBuilder - Config settings `withLabel:process_high` matches labels `process_high` for process with name NFCORE_MAG:MAG:ASSEMBLY:SHORTREAD_ASSEMBLY:METASPADES Feb-10 13:10:04.567 [main] DEBUG n.script.dsl.ProcessConfigBuilder - Config settings `withName:METASPADES` matches process NFCORE_MAG:MAG:ASSEMBLY:SHORTREAD_ASSEMBLY:METASPADES Feb-10 13:10:04.571 [main] DEBUG nextflow.executor.ExecutorFactory - << taskConfig executor: local Feb-10 13:10:04.571 [main] DEBUG nextflow.executor.ExecutorFactory - >> processorType: 'local' Feb-10 13:10:04.572 [main] DEBUG nextflow.processor.TaskProcessor - Creating process 'NFCORE_MAG:MAG:ASSEMBLY:SHORTREAD_ASSEMBLY:METASPADES': maxForks=8; fair=false; array=0 Feb-10 13:10:04.581 [main] DEBUG n.script.dsl.ProcessConfigBuilder - Config settings `withLabel:process_high` matches labels `process_high` for process with name NFCORE_MAG:MAG:ASSEMBLY:SHORTREAD_ASSEMBLY:MEGAHIT Feb-10 13:10:04.581 [main] DEBUG n.script.dsl.ProcessConfigBuilder - Config settings `withName:MEGAHIT` matches process NFCORE_MAG:MAG:ASSEMBLY:SHORTREAD_ASSEMBLY:MEGAHIT Feb-10 13:10:04.585 [main] DEBUG nextflow.executor.ExecutorFactory - << taskConfig executor: local Feb-10 13:10:04.585 [main] DEBUG nextflow.executor.ExecutorFactory - >> processorType: 'local' Feb-10 13:10:04.586 [main] DEBUG nextflow.processor.TaskProcessor - Creating process 'NFCORE_MAG:MAG:ASSEMBLY:SHORTREAD_ASSEMBLY:MEGAHIT': maxForks=8; fair=false; array=0 Feb-10 13:10:04.600 [main] DEBUG n.script.dsl.ProcessConfigBuilder - Config settings `withLabel:process_high` matches labels `process_high` for process with name NFCORE_MAG:MAG:ASSEMBLY:HYBRID_ASSEMBLY:METASPADESHYBRID Feb-10 13:10:04.601 [main] DEBUG n.script.dsl.ProcessConfigBuilder - Config settings `withName:METASPADESHYBRID` matches process NFCORE_MAG:MAG:ASSEMBLY:HYBRID_ASSEMBLY:METASPADESHYBRID Feb-10 13:10:04.605 [main] DEBUG nextflow.executor.ExecutorFactory - << taskConfig executor: local Feb-10 13:10:04.605 [main] DEBUG nextflow.executor.ExecutorFactory - >> processorType: 'local' Feb-10 13:10:04.606 [main] DEBUG nextflow.processor.TaskProcessor - Creating process 'NFCORE_MAG:MAG:ASSEMBLY:HYBRID_ASSEMBLY:METASPADESHYBRID': maxForks=8; fair=false; array=0 Feb-10 13:10:04.622 [main] DEBUG n.script.dsl.ProcessConfigBuilder - Config settings `withLabel:process_high` matches labels `process_high` for process with name NFCORE_MAG:MAG:ASSEMBLY:LONGREAD_ASSEMBLY:FLYE Feb-10 13:10:04.623 [main] DEBUG n.script.dsl.ProcessConfigBuilder - Config settings `withName:FLYE` matches process NFCORE_MAG:MAG:ASSEMBLY:LONGREAD_ASSEMBLY:FLYE Feb-10 13:10:04.628 [main] DEBUG nextflow.executor.ExecutorFactory - << taskConfig executor: local Feb-10 13:10:04.628 [main] DEBUG nextflow.executor.ExecutorFactory - >> processorType: 'local' Feb-10 13:10:04.628 [main] DEBUG nextflow.processor.TaskProcessor - Creating process 'NFCORE_MAG:MAG:ASSEMBLY:LONGREAD_ASSEMBLY:FLYE': maxForks=8; fair=false; array=0 Feb-10 13:10:04.637 [main] DEBUG n.script.dsl.ProcessConfigBuilder - Config settings `withLabel:process_medium` matches labels `process_medium` for process with name NFCORE_MAG:MAG:ASSEMBLY:LONGREAD_ASSEMBLY:METAMDBG_ASM Feb-10 13:10:04.638 [main] DEBUG n.script.dsl.ProcessConfigBuilder - Config settings `withName:METAMDBG_ASM` matches process NFCORE_MAG:MAG:ASSEMBLY:LONGREAD_ASSEMBLY:METAMDBG_ASM Feb-10 13:10:04.641 [main] DEBUG nextflow.executor.ExecutorFactory - << taskConfig executor: local Feb-10 13:10:04.641 [main] DEBUG nextflow.executor.ExecutorFactory - >> processorType: 'local' Feb-10 13:10:04.642 [main] DEBUG nextflow.processor.TaskProcessor - Creating process 'NFCORE_MAG:MAG:ASSEMBLY:LONGREAD_ASSEMBLY:METAMDBG_ASM': maxForks=8; fair=false; array=0 Feb-10 13:10:04.651 [main] DEBUG n.script.dsl.ProcessConfigBuilder - Config settings `withLabel:process_single` matches labels `process_single` for process with name NFCORE_MAG:MAG:ASSEMBLY:GUNZIP_SHORTREAD_ASSEMBLIES Feb-10 13:10:04.656 [main] DEBUG nextflow.executor.ExecutorFactory - << taskConfig executor: local Feb-10 13:10:04.656 [main] DEBUG nextflow.executor.ExecutorFactory - >> processorType: 'local' Feb-10 13:10:04.657 [main] DEBUG nextflow.processor.TaskProcessor - Creating process 'NFCORE_MAG:MAG:ASSEMBLY:GUNZIP_SHORTREAD_ASSEMBLIES': maxForks=8; fair=false; array=0 Feb-10 13:10:04.660 [main] DEBUG n.script.dsl.ProcessConfigBuilder - Config settings `withLabel:process_single` matches labels `process_single` for process with name NFCORE_MAG:MAG:ASSEMBLY:GUNZIP_LONGREAD_ASSEMBLIES Feb-10 13:10:04.664 [main] DEBUG nextflow.executor.ExecutorFactory - << taskConfig executor: local Feb-10 13:10:04.664 [main] DEBUG nextflow.executor.ExecutorFactory - >> processorType: 'local' Feb-10 13:10:04.665 [main] DEBUG nextflow.processor.TaskProcessor - Creating process 'NFCORE_MAG:MAG:ASSEMBLY:GUNZIP_LONGREAD_ASSEMBLIES': maxForks=8; fair=false; array=0 Feb-10 13:10:04.670 [main] DEBUG n.script.dsl.ProcessConfigBuilder - Config settings `withName:QUAST` matches process NFCORE_MAG:MAG:QUAST Feb-10 13:10:04.673 [main] DEBUG nextflow.executor.ExecutorFactory - << taskConfig executor: local Feb-10 13:10:04.673 [main] DEBUG nextflow.executor.ExecutorFactory - >> processorType: 'local' Feb-10 13:10:04.674 [main] DEBUG nextflow.processor.TaskProcessor - Creating process 'NFCORE_MAG:MAG:QUAST': maxForks=8; fair=false; array=0 Feb-10 13:10:04.677 [main] DEBUG n.script.dsl.ProcessConfigBuilder - Config settings `withLabel:process_single` matches labels `process_single` for process with name NFCORE_MAG:MAG:PRODIGAL Feb-10 13:10:04.678 [main] DEBUG n.script.dsl.ProcessConfigBuilder - Config settings `withName:PRODIGAL` matches process NFCORE_MAG:MAG:PRODIGAL Feb-10 13:10:04.682 [main] DEBUG nextflow.executor.ExecutorFactory - << taskConfig executor: local Feb-10 13:10:04.682 [main] DEBUG nextflow.executor.ExecutorFactory - >> processorType: 'local' Feb-10 13:10:04.682 [main] DEBUG nextflow.processor.TaskProcessor - Creating process 'NFCORE_MAG:MAG:PRODIGAL': maxForks=8; fair=false; array=0 Feb-10 13:10:04.692 [main] DEBUG nextflow.executor.ExecutorFactory - << taskConfig executor: local Feb-10 13:10:04.692 [main] DEBUG nextflow.executor.ExecutorFactory - >> processorType: 'local' Feb-10 13:10:04.693 [main] DEBUG nextflow.processor.TaskProcessor - Creating process 'NFCORE_MAG:MAG:BINNING_PREPARATION:SHORTREAD_BINNING_PREPARATION:BOWTIE2_ASSEMBLY_BUILD': maxForks=8; fair=false; array=0 Feb-10 13:10:04.702 [main] DEBUG n.script.dsl.ProcessConfigBuilder - Config settings `withName:BOWTIE2_ASSEMBLY_ALIGN` matches process NFCORE_MAG:MAG:BINNING_PREPARATION:SHORTREAD_BINNING_PREPARATION:BOWTIE2_ASSEMBLY_ALIGN Feb-10 13:10:04.706 [main] DEBUG nextflow.executor.ExecutorFactory - << taskConfig executor: local Feb-10 13:10:04.706 [main] DEBUG nextflow.executor.ExecutorFactory - >> processorType: 'local' Feb-10 13:10:04.707 [main] DEBUG nextflow.processor.TaskProcessor - Creating process 'NFCORE_MAG:MAG:BINNING_PREPARATION:SHORTREAD_BINNING_PREPARATION:BOWTIE2_ASSEMBLY_ALIGN': maxForks=8; fair=false; array=0 Feb-10 13:10:04.716 [main] DEBUG n.script.dsl.ProcessConfigBuilder - Config settings `withLabel:process_low` matches labels `process_low` for process with name NFCORE_MAG:MAG:BINNING_PREPARATION:LONGREAD_BINNING_PREPARATION:MINIMAP2_ASSEMBLY_INDEX Feb-10 13:10:04.721 [main] DEBUG nextflow.executor.ExecutorFactory - << taskConfig executor: local Feb-10 13:10:04.721 [main] DEBUG nextflow.executor.ExecutorFactory - >> processorType: 'local' Feb-10 13:10:04.721 [main] DEBUG nextflow.processor.TaskProcessor - Creating process 'NFCORE_MAG:MAG:BINNING_PREPARATION:LONGREAD_BINNING_PREPARATION:MINIMAP2_ASSEMBLY_INDEX': maxForks=8; fair=false; array=0 Feb-10 13:10:04.735 [main] DEBUG n.script.dsl.ProcessConfigBuilder - Config settings `withLabel:process_high` matches labels `process_high` for process with name NFCORE_MAG:MAG:BINNING_PREPARATION:LONGREAD_BINNING_PREPARATION:MINIMAP2_ASSEMBLY_ALIGN Feb-10 13:10:04.737 [main] DEBUG n.script.dsl.ProcessConfigBuilder - Config settings `withName:MINIMAP2_ASSEMBLY_ALIGN` matches process NFCORE_MAG:MAG:BINNING_PREPARATION:LONGREAD_BINNING_PREPARATION:MINIMAP2_ASSEMBLY_ALIGN Feb-10 13:10:04.739 [main] DEBUG nextflow.executor.ExecutorFactory - << taskConfig executor: local Feb-10 13:10:04.740 [main] DEBUG nextflow.executor.ExecutorFactory - >> processorType: 'local' Feb-10 13:10:04.740 [main] DEBUG nextflow.processor.TaskProcessor - Creating process 'NFCORE_MAG:MAG:BINNING_PREPARATION:LONGREAD_BINNING_PREPARATION:MINIMAP2_ASSEMBLY_ALIGN': maxForks=8; fair=false; array=0 Feb-10 13:10:04.765 [main] DEBUG n.script.dsl.ProcessConfigBuilder - Config settings `withLabel:process_medium` matches labels `process_medium` for process with name NFCORE_MAG:MAG:BINNING:METABAT2_JGISUMMARIZEBAMCONTIGDEPTHS_LONGREAD Feb-10 13:10:04.766 [main] DEBUG n.script.dsl.ProcessConfigBuilder - Config settings `withName:METABAT2_JGISUMMARIZEBAMCONTIGDEPTHS_LONGREAD` matches process NFCORE_MAG:MAG:BINNING:METABAT2_JGISUMMARIZEBAMCONTIGDEPTHS_LONGREAD Feb-10 13:10:04.769 [main] DEBUG nextflow.executor.ExecutorFactory - << taskConfig executor: local Feb-10 13:10:04.769 [main] DEBUG nextflow.executor.ExecutorFactory - >> processorType: 'local' Feb-10 13:10:04.770 [main] DEBUG nextflow.processor.TaskProcessor - Creating process 'NFCORE_MAG:MAG:BINNING:METABAT2_JGISUMMARIZEBAMCONTIGDEPTHS_LONGREAD': maxForks=8; fair=false; array=0 Feb-10 13:10:04.773 [main] DEBUG n.script.dsl.ProcessConfigBuilder - Config settings `withLabel:process_medium` matches labels `process_medium` for process with name NFCORE_MAG:MAG:BINNING:METABAT2_JGISUMMARIZEBAMCONTIGDEPTHS_SHORTREAD Feb-10 13:10:04.775 [main] DEBUG n.script.dsl.ProcessConfigBuilder - Config settings `withName:METABAT2_JGISUMMARIZEBAMCONTIGDEPTHS_SHORTREAD` matches process NFCORE_MAG:MAG:BINNING:METABAT2_JGISUMMARIZEBAMCONTIGDEPTHS_SHORTREAD Feb-10 13:10:04.777 [main] DEBUG nextflow.executor.ExecutorFactory - << taskConfig executor: local Feb-10 13:10:04.777 [main] DEBUG nextflow.executor.ExecutorFactory - >> processorType: 'local' Feb-10 13:10:04.778 [main] DEBUG nextflow.processor.TaskProcessor - Creating process 'NFCORE_MAG:MAG:BINNING:METABAT2_JGISUMMARIZEBAMCONTIGDEPTHS_SHORTREAD': maxForks=8; fair=false; array=0 Feb-10 13:10:04.791 [main] DEBUG nextflow.executor.ExecutorFactory - << taskConfig executor: local Feb-10 13:10:04.791 [main] DEBUG nextflow.executor.ExecutorFactory - >> processorType: 'local' Feb-10 13:10:04.791 [main] DEBUG nextflow.processor.TaskProcessor - Creating process 'NFCORE_MAG:MAG:BINNING:CONVERT_DEPTHS': maxForks=8; fair=false; array=0 Feb-10 13:10:04.796 [main] DEBUG n.script.dsl.ProcessConfigBuilder - Config settings `withLabel:process_medium` matches labels `process_medium` for process with name NFCORE_MAG:MAG:BINNING:METABAT2_METABAT2 Feb-10 13:10:04.797 [main] DEBUG n.script.dsl.ProcessConfigBuilder - Config settings `withName:METABAT2_METABAT2` matches process NFCORE_MAG:MAG:BINNING:METABAT2_METABAT2 Feb-10 13:10:04.800 [main] DEBUG nextflow.executor.ExecutorFactory - << taskConfig executor: local Feb-10 13:10:04.800 [main] DEBUG nextflow.executor.ExecutorFactory - >> processorType: 'local' Feb-10 13:10:04.801 [main] DEBUG nextflow.processor.TaskProcessor - Creating process 'NFCORE_MAG:MAG:BINNING:METABAT2_METABAT2': maxForks=8; fair=false; array=0 Feb-10 13:10:04.812 [main] DEBUG n.script.dsl.ProcessConfigBuilder - Config settings `withLabel:process_medium` matches labels `process_medium` for process with name NFCORE_MAG:MAG:BINNING:MAXBIN2 Feb-10 13:10:04.813 [main] DEBUG n.script.dsl.ProcessConfigBuilder - Config settings `withName:MAXBIN2` matches process NFCORE_MAG:MAG:BINNING:MAXBIN2 Feb-10 13:10:04.816 [main] DEBUG nextflow.executor.ExecutorFactory - << taskConfig executor: local Feb-10 13:10:04.816 [main] DEBUG nextflow.executor.ExecutorFactory - >> processorType: 'local' Feb-10 13:10:04.816 [main] DEBUG nextflow.processor.TaskProcessor - Creating process 'NFCORE_MAG:MAG:BINNING:MAXBIN2': maxForks=8; fair=false; array=0 Feb-10 13:10:04.821 [main] DEBUG n.script.dsl.ProcessConfigBuilder - Config settings `withLabel:process_low` matches labels `process_low` for process with name NFCORE_MAG:MAG:BINNING:ADJUST_MAXBIN2_EXT Feb-10 13:10:04.822 [main] DEBUG n.script.dsl.ProcessConfigBuilder - Config settings `withName:ADJUST_MAXBIN2_EXT` matches process NFCORE_MAG:MAG:BINNING:ADJUST_MAXBIN2_EXT Feb-10 13:10:04.825 [main] DEBUG nextflow.executor.ExecutorFactory - << taskConfig executor: local Feb-10 13:10:04.825 [main] DEBUG nextflow.executor.ExecutorFactory - >> processorType: 'local' Feb-10 13:10:04.825 [main] DEBUG nextflow.processor.TaskProcessor - Creating process 'NFCORE_MAG:MAG:BINNING:ADJUST_MAXBIN2_EXT': maxForks=8; fair=false; array=0 Feb-10 13:10:04.834 [main] DEBUG n.script.dsl.ProcessConfigBuilder - Config settings `withLabel:process_medium` matches labels `process_medium` for process with name NFCORE_MAG:MAG:BINNING:SEMIBIN_SINGLEEASYBIN Feb-10 13:10:04.835 [main] DEBUG n.script.dsl.ProcessConfigBuilder - Config settings `withName:SEMIBIN_SINGLEEASYBIN` matches process NFCORE_MAG:MAG:BINNING:SEMIBIN_SINGLEEASYBIN Feb-10 13:10:04.837 [main] DEBUG nextflow.executor.ExecutorFactory - << taskConfig executor: local Feb-10 13:10:04.837 [main] DEBUG nextflow.executor.ExecutorFactory - >> processorType: 'local' Feb-10 13:10:04.838 [main] DEBUG nextflow.processor.TaskProcessor - Creating process 'NFCORE_MAG:MAG:BINNING:SEMIBIN_SINGLEEASYBIN': maxForks=8; fair=false; array=0 Feb-10 13:10:04.846 [main] DEBUG n.script.dsl.ProcessConfigBuilder - Config settings `withLabel:process_low` matches labels `process_low` for process with name NFCORE_MAG:MAG:BINNING:SEQKIT_STATS Feb-10 13:10:04.847 [main] DEBUG n.script.dsl.ProcessConfigBuilder - Config settings `withName:SEQKIT_STATS` matches process NFCORE_MAG:MAG:BINNING:SEQKIT_STATS Feb-10 13:10:04.849 [main] DEBUG nextflow.executor.ExecutorFactory - << taskConfig executor: local Feb-10 13:10:04.849 [main] DEBUG nextflow.executor.ExecutorFactory - >> processorType: 'local' Feb-10 13:10:04.849 [main] DEBUG nextflow.processor.TaskProcessor - Creating process 'NFCORE_MAG:MAG:BINNING:SEQKIT_STATS': maxForks=8; fair=false; array=0 Feb-10 13:10:04.868 [main] DEBUG n.script.dsl.ProcessConfigBuilder - Config settings `withLabel:process_low` matches labels `process_low` for process with name NFCORE_MAG:MAG:BINNING:SPLIT_FASTA Feb-10 13:10:04.868 [main] DEBUG n.script.dsl.ProcessConfigBuilder - Config settings `withName:SPLIT_FASTA` matches process NFCORE_MAG:MAG:BINNING:SPLIT_FASTA Feb-10 13:10:04.872 [main] DEBUG nextflow.executor.ExecutorFactory - << taskConfig executor: local Feb-10 13:10:04.872 [main] DEBUG nextflow.executor.ExecutorFactory - >> processorType: 'local' Feb-10 13:10:04.872 [main] DEBUG nextflow.processor.TaskProcessor - Creating process 'NFCORE_MAG:MAG:BINNING:SPLIT_FASTA': maxForks=8; fair=false; array=0 Feb-10 13:10:04.877 [main] DEBUG n.script.dsl.ProcessConfigBuilder - Config settings `withLabel:process_single` matches labels `process_single` for process with name NFCORE_MAG:MAG:BINNING:GUNZIP_BINS Feb-10 13:10:04.880 [main] DEBUG nextflow.executor.ExecutorFactory - << taskConfig executor: local Feb-10 13:10:04.880 [main] DEBUG nextflow.executor.ExecutorFactory - >> processorType: 'local' Feb-10 13:10:04.881 [main] DEBUG nextflow.processor.TaskProcessor - Creating process 'NFCORE_MAG:MAG:BINNING:GUNZIP_BINS': maxForks=8; fair=false; array=0 Feb-10 13:10:04.885 [main] DEBUG n.script.dsl.ProcessConfigBuilder - Config settings `withLabel:process_single` matches labels `process_single` for process with name NFCORE_MAG:MAG:BINNING:GUNZIP_UNBINS Feb-10 13:10:04.887 [main] DEBUG nextflow.executor.ExecutorFactory - << taskConfig executor: local Feb-10 13:10:04.887 [main] DEBUG nextflow.executor.ExecutorFactory - >> processorType: 'local' Feb-10 13:10:04.888 [main] DEBUG nextflow.processor.TaskProcessor - Creating process 'NFCORE_MAG:MAG:BINNING:GUNZIP_UNBINS': maxForks=8; fair=false; array=0 Feb-10 13:10:04.912 [main] DEBUG n.script.dsl.ProcessConfigBuilder - Config settings `withName:MAG_DEPTHS` matches process NFCORE_MAG:MAG:DEPTHS:MAG_DEPTHS Feb-10 13:10:04.915 [main] DEBUG nextflow.executor.ExecutorFactory - << taskConfig executor: local Feb-10 13:10:04.915 [main] DEBUG nextflow.executor.ExecutorFactory - >> processorType: 'local' Feb-10 13:10:04.915 [main] DEBUG nextflow.processor.TaskProcessor - Creating process 'NFCORE_MAG:MAG:DEPTHS:MAG_DEPTHS': maxForks=8; fair=false; array=0 Feb-10 13:10:04.935 [main] DEBUG n.script.dsl.ProcessConfigBuilder - Config settings `withName:MAG_DEPTHS_PLOT` matches process NFCORE_MAG:MAG:DEPTHS:MAG_DEPTHS_PLOT Feb-10 13:10:04.935 [main] DEBUG n.script.dsl.ProcessConfigBuilder - Config settings `withName:MAG_DEPTHS_PLOT|MAG_DEPTHS_SUMMARY` matches process NFCORE_MAG:MAG:DEPTHS:MAG_DEPTHS_PLOT Feb-10 13:10:04.938 [main] DEBUG nextflow.executor.ExecutorFactory - << taskConfig executor: local Feb-10 13:10:04.938 [main] DEBUG nextflow.executor.ExecutorFactory - >> processorType: 'local' Feb-10 13:10:04.938 [main] DEBUG nextflow.processor.TaskProcessor - Creating process 'NFCORE_MAG:MAG:DEPTHS:MAG_DEPTHS_PLOT': maxForks=8; fair=false; array=0 Feb-10 13:10:04.946 [main] DEBUG n.script.dsl.ProcessConfigBuilder - Config settings `withName:MAG_DEPTHS_PLOT|MAG_DEPTHS_SUMMARY` matches process NFCORE_MAG:MAG:DEPTHS:MAG_DEPTHS_SUMMARY Feb-10 13:10:04.948 [main] DEBUG nextflow.executor.ExecutorFactory - << taskConfig executor: local Feb-10 13:10:04.948 [main] DEBUG nextflow.executor.ExecutorFactory - >> processorType: 'local' Feb-10 13:10:04.950 [main] DEBUG nextflow.processor.TaskProcessor - Creating process 'NFCORE_MAG:MAG:DEPTHS:MAG_DEPTHS_SUMMARY': maxForks=8; fair=false; array=0 Feb-10 13:10:04.965 [main] DEBUG n.script.dsl.ProcessConfigBuilder - Config settings `withLabel:process_medium` matches labels `process_medium` for process with name NFCORE_MAG:MAG:BIN_QC:BUSCO_BUSCO Feb-10 13:10:04.966 [main] DEBUG n.script.dsl.ProcessConfigBuilder - Config settings `withName:BUSCO_BUSCO` matches process NFCORE_MAG:MAG:BIN_QC:BUSCO_BUSCO Feb-10 13:10:04.969 [main] DEBUG nextflow.executor.ExecutorFactory - << taskConfig executor: local Feb-10 13:10:04.969 [main] DEBUG nextflow.executor.ExecutorFactory - >> processorType: 'local' Feb-10 13:10:04.970 [main] DEBUG nextflow.processor.TaskProcessor - Creating process 'NFCORE_MAG:MAG:BIN_QC:BUSCO_BUSCO': maxForks=8; fair=false; array=0 Feb-10 13:10:04.989 [main] DEBUG n.script.dsl.ProcessConfigBuilder - Config settings `withLabel:process_single` matches labels `process_single` for process with name NFCORE_MAG:MAG:BIN_QC:CONCAT_BUSCO_TSV Feb-10 13:10:04.990 [main] DEBUG n.script.dsl.ProcessConfigBuilder - Config settings `withName:CONCAT_BUSCO_TSV|CONCAT_CHECKM_TSV|CONCAT_CHECKM2_TSV` matches process NFCORE_MAG:MAG:BIN_QC:CONCAT_BUSCO_TSV Feb-10 13:10:04.994 [main] DEBUG nextflow.executor.ExecutorFactory - << taskConfig executor: local Feb-10 13:10:04.994 [main] DEBUG nextflow.executor.ExecutorFactory - >> processorType: 'local' Feb-10 13:10:04.995 [main] DEBUG nextflow.processor.TaskProcessor - Creating process 'NFCORE_MAG:MAG:BIN_QC:CONCAT_BUSCO_TSV': maxForks=8; fair=false; array=0 Feb-10 13:10:05.012 [main] DEBUG n.script.dsl.ProcessConfigBuilder - Config settings `withName:QUAST_BINS|QUAST_BINS_SUMMARY` matches process NFCORE_MAG:MAG:QUAST_BINS Feb-10 13:10:05.015 [main] DEBUG nextflow.executor.ExecutorFactory - << taskConfig executor: local Feb-10 13:10:05.015 [main] DEBUG nextflow.executor.ExecutorFactory - >> processorType: 'local' Feb-10 13:10:05.015 [main] DEBUG nextflow.processor.TaskProcessor - Creating process 'NFCORE_MAG:MAG:QUAST_BINS': maxForks=8; fair=false; array=0 Feb-10 13:10:05.027 [main] DEBUG n.script.dsl.ProcessConfigBuilder - Config settings `withName:QUAST_BINS|QUAST_BINS_SUMMARY` matches process NFCORE_MAG:MAG:QUAST_BINS_SUMMARY Feb-10 13:10:05.030 [main] DEBUG nextflow.executor.ExecutorFactory - << taskConfig executor: local Feb-10 13:10:05.030 [main] DEBUG nextflow.executor.ExecutorFactory - >> processorType: 'local' Feb-10 13:10:05.030 [main] DEBUG nextflow.processor.TaskProcessor - Creating process 'NFCORE_MAG:MAG:QUAST_BINS_SUMMARY': maxForks=8; fair=false; array=0 Feb-10 13:10:05.056 [main] DEBUG n.script.dsl.ProcessConfigBuilder - Config settings `withLabel:process_high_memory` matches labels `process_high_memory` for process with name NFCORE_MAG:MAG:GTDBTK:GTDBTK_CLASSIFYWF Feb-10 13:10:05.057 [main] DEBUG n.script.dsl.ProcessConfigBuilder - Config settings `withName:GTDBTK_CLASSIFYWF` matches process NFCORE_MAG:MAG:GTDBTK:GTDBTK_CLASSIFYWF Feb-10 13:10:05.060 [main] DEBUG nextflow.executor.ExecutorFactory - << taskConfig executor: local Feb-10 13:10:05.060 [main] DEBUG nextflow.executor.ExecutorFactory - >> processorType: 'local' Feb-10 13:10:05.061 [main] DEBUG nextflow.processor.TaskProcessor - Creating process 'NFCORE_MAG:MAG:GTDBTK:GTDBTK_CLASSIFYWF': maxForks=8; fair=false; array=0 Feb-10 13:10:05.114 [main] DEBUG n.script.dsl.ProcessConfigBuilder - Config settings `withName:GTDBTK_SUMMARY` matches process NFCORE_MAG:MAG:GTDBTK:GTDBTK_SUMMARY Feb-10 13:10:05.116 [main] DEBUG nextflow.executor.ExecutorFactory - << taskConfig executor: local Feb-10 13:10:05.116 [main] DEBUG nextflow.executor.ExecutorFactory - >> processorType: 'local' Feb-10 13:10:05.117 [main] DEBUG nextflow.processor.TaskProcessor - Creating process 'NFCORE_MAG:MAG:GTDBTK:GTDBTK_SUMMARY': maxForks=8; fair=false; array=0 Feb-10 13:10:05.134 [main] DEBUG n.script.dsl.ProcessConfigBuilder - Config settings `withName:BIN_SUMMARY` matches process NFCORE_MAG:MAG:BIN_SUMMARY Feb-10 13:10:05.137 [main] DEBUG nextflow.executor.ExecutorFactory - << taskConfig executor: local Feb-10 13:10:05.137 [main] DEBUG nextflow.executor.ExecutorFactory - >> processorType: 'local' Feb-10 13:10:05.137 [main] DEBUG nextflow.processor.TaskProcessor - Creating process 'NFCORE_MAG:MAG:BIN_SUMMARY': maxForks=8; fair=false; array=0 Feb-10 13:10:05.148 [main] DEBUG n.script.dsl.ProcessConfigBuilder - Config settings `withLabel:process_low` matches labels `process_low` for process with name NFCORE_MAG:MAG:PROKKA Feb-10 13:10:05.148 [main] DEBUG n.script.dsl.ProcessConfigBuilder - Config settings `withName:PROKKA` matches process NFCORE_MAG:MAG:PROKKA Feb-10 13:10:05.151 [main] DEBUG nextflow.executor.ExecutorFactory - << taskConfig executor: local Feb-10 13:10:05.152 [main] DEBUG nextflow.executor.ExecutorFactory - >> processorType: 'local' Feb-10 13:10:05.152 [main] DEBUG nextflow.processor.TaskProcessor - Creating process 'NFCORE_MAG:MAG:PROKKA': maxForks=8; fair=false; array=0 Feb-10 13:10:05.256 [main] DEBUG n.script.dsl.ProcessConfigBuilder - Config settings `withLabel:process_single` matches labels `process_single` for process with name NFCORE_MAG:MAG:MULTIQC Feb-10 13:10:05.257 [main] DEBUG n.script.dsl.ProcessConfigBuilder - Config settings `withName:MULTIQC` matches process NFCORE_MAG:MAG:MULTIQC Feb-10 13:10:05.260 [main] DEBUG nextflow.executor.ExecutorFactory - << taskConfig executor: local Feb-10 13:10:05.260 [main] DEBUG nextflow.executor.ExecutorFactory - >> processorType: 'local' Feb-10 13:10:05.261 [main] DEBUG nextflow.processor.TaskProcessor - Creating process 'NFCORE_MAG:MAG:MULTIQC': maxForks=8; fair=false; array=0 Feb-10 13:10:05.276 [main] DEBUG nextflow.Session - Config process names validation disabled as requested Feb-10 13:10:05.281 [main] DEBUG nextflow.Session - Igniting dataflow network (103) Feb-10 13:10:05.281 [main] DEBUG nextflow.processor.TaskProcessor - Starting process > NFCORE_MAG:MAG:SHORTREAD_PREPROCESSING:FASTQC_RAW Feb-10 13:10:05.281 [main] DEBUG nextflow.processor.TaskProcessor - Starting process > NFCORE_MAG:MAG:SHORTREAD_PREPROCESSING:FASTP Feb-10 13:10:05.281 [main] DEBUG nextflow.processor.TaskProcessor - Starting process > NFCORE_MAG:MAG:SHORTREAD_PREPROCESSING:BOWTIE2_PHIX_REMOVAL_BUILD Feb-10 13:10:05.281 [main] DEBUG nextflow.processor.TaskProcessor - Starting process > NFCORE_MAG:MAG:SHORTREAD_PREPROCESSING:BOWTIE2_PHIX_REMOVAL_ALIGN Feb-10 13:10:05.282 [main] DEBUG nextflow.processor.TaskProcessor - Starting process > NFCORE_MAG:MAG:SHORTREAD_PREPROCESSING:FASTQC_TRIMMED Feb-10 13:10:05.282 [main] DEBUG nextflow.processor.TaskProcessor - Starting process > NFCORE_MAG:MAG:SHORTREAD_PREPROCESSING:CAT_FASTQ Feb-10 13:10:05.282 [main] DEBUG nextflow.processor.TaskProcessor - Starting process > NFCORE_MAG:MAG:LONGREAD_PREPROCESSING:NANOPLOT_RAW Feb-10 13:10:05.282 [main] DEBUG nextflow.processor.TaskProcessor - Starting process > NFCORE_MAG:MAG:LONGREAD_PREPROCESSING:PORECHOP_ABI Feb-10 13:10:05.282 [main] DEBUG nextflow.processor.TaskProcessor - Starting process > NFCORE_MAG:MAG:LONGREAD_PREPROCESSING:NANOLYSE Feb-10 13:10:05.282 [main] DEBUG nextflow.processor.TaskProcessor - Starting process > NFCORE_MAG:MAG:LONGREAD_PREPROCESSING:FILTLONG Feb-10 13:10:05.282 [main] DEBUG nextflow.processor.TaskProcessor - Starting process > NFCORE_MAG:MAG:LONGREAD_PREPROCESSING:NANOPLOT_FILTERED Feb-10 13:10:05.282 [main] DEBUG nextflow.processor.TaskProcessor - Starting process > NFCORE_MAG:MAG:LONGREAD_PREPROCESSING:CAT_FASTQ_LONGREADS Feb-10 13:10:05.282 [main] DEBUG nextflow.processor.TaskProcessor - Starting process > NFCORE_MAG:MAG:ASSEMBLY:POOL_LONG_READS Feb-10 13:10:05.282 [main] DEBUG nextflow.processor.TaskProcessor - Starting process > NFCORE_MAG:MAG:ASSEMBLY:SHORTREAD_ASSEMBLY:METASPADES Feb-10 13:10:05.282 [main] DEBUG nextflow.processor.TaskProcessor - Starting process > NFCORE_MAG:MAG:ASSEMBLY:SHORTREAD_ASSEMBLY:MEGAHIT Feb-10 13:10:05.283 [main] DEBUG nextflow.processor.TaskProcessor - Starting process > NFCORE_MAG:MAG:ASSEMBLY:HYBRID_ASSEMBLY:METASPADESHYBRID Feb-10 13:10:05.283 [main] DEBUG nextflow.processor.TaskProcessor - Starting process > NFCORE_MAG:MAG:ASSEMBLY:LONGREAD_ASSEMBLY:FLYE Feb-10 13:10:05.283 [main] DEBUG nextflow.processor.TaskProcessor - Starting process > NFCORE_MAG:MAG:ASSEMBLY:LONGREAD_ASSEMBLY:METAMDBG_ASM Feb-10 13:10:05.283 [main] DEBUG nextflow.processor.TaskProcessor - Starting process > NFCORE_MAG:MAG:ASSEMBLY:GUNZIP_SHORTREAD_ASSEMBLIES Feb-10 13:10:05.283 [main] DEBUG nextflow.processor.TaskProcessor - Starting process > NFCORE_MAG:MAG:ASSEMBLY:GUNZIP_LONGREAD_ASSEMBLIES Feb-10 13:10:05.283 [main] DEBUG nextflow.processor.TaskProcessor - Starting process > NFCORE_MAG:MAG:QUAST Feb-10 13:10:05.283 [main] DEBUG nextflow.processor.TaskProcessor - Starting process > NFCORE_MAG:MAG:PRODIGAL Feb-10 13:10:05.283 [main] DEBUG nextflow.processor.TaskProcessor - Starting process > NFCORE_MAG:MAG:BINNING_PREPARATION:SHORTREAD_BINNING_PREPARATION:BOWTIE2_ASSEMBLY_BUILD Feb-10 13:10:05.283 [main] DEBUG nextflow.processor.TaskProcessor - Starting process > NFCORE_MAG:MAG:BINNING_PREPARATION:SHORTREAD_BINNING_PREPARATION:BOWTIE2_ASSEMBLY_ALIGN Feb-10 13:10:05.283 [main] DEBUG nextflow.processor.TaskProcessor - Starting process > NFCORE_MAG:MAG:BINNING_PREPARATION:LONGREAD_BINNING_PREPARATION:MINIMAP2_ASSEMBLY_INDEX Feb-10 13:10:05.283 [main] DEBUG nextflow.processor.TaskProcessor - Starting process > NFCORE_MAG:MAG:BINNING_PREPARATION:LONGREAD_BINNING_PREPARATION:MINIMAP2_ASSEMBLY_ALIGN Feb-10 13:10:05.283 [main] DEBUG nextflow.processor.TaskProcessor - Starting process > NFCORE_MAG:MAG:BINNING:METABAT2_JGISUMMARIZEBAMCONTIGDEPTHS_LONGREAD Feb-10 13:10:05.283 [main] DEBUG nextflow.processor.TaskProcessor - Starting process > NFCORE_MAG:MAG:BINNING:METABAT2_JGISUMMARIZEBAMCONTIGDEPTHS_SHORTREAD Feb-10 13:10:05.283 [main] DEBUG nextflow.processor.TaskProcessor - Starting process > NFCORE_MAG:MAG:BINNING:CONVERT_DEPTHS Feb-10 13:10:05.283 [main] DEBUG nextflow.processor.TaskProcessor - Starting process > NFCORE_MAG:MAG:BINNING:METABAT2_METABAT2 Feb-10 13:10:05.283 [main] DEBUG nextflow.processor.TaskProcessor - Starting process > NFCORE_MAG:MAG:BINNING:MAXBIN2 Feb-10 13:10:05.284 [main] DEBUG nextflow.processor.TaskProcessor - Starting process > NFCORE_MAG:MAG:BINNING:ADJUST_MAXBIN2_EXT Feb-10 13:10:05.284 [main] DEBUG nextflow.processor.TaskProcessor - Starting process > NFCORE_MAG:MAG:BINNING:SEMIBIN_SINGLEEASYBIN Feb-10 13:10:05.284 [main] DEBUG nextflow.processor.TaskProcessor - Starting process > NFCORE_MAG:MAG:BINNING:SEQKIT_STATS Feb-10 13:10:05.284 [main] DEBUG nextflow.processor.TaskProcessor - Starting process > NFCORE_MAG:MAG:BINNING:SPLIT_FASTA Feb-10 13:10:05.284 [main] DEBUG nextflow.processor.TaskProcessor - Starting process > NFCORE_MAG:MAG:BINNING:GUNZIP_BINS Feb-10 13:10:05.284 [main] DEBUG nextflow.processor.TaskProcessor - Starting process > NFCORE_MAG:MAG:BINNING:GUNZIP_UNBINS Feb-10 13:10:05.284 [main] DEBUG nextflow.processor.TaskProcessor - Starting process > NFCORE_MAG:MAG:DEPTHS:MAG_DEPTHS Feb-10 13:10:05.284 [main] DEBUG nextflow.processor.TaskProcessor - Starting process > NFCORE_MAG:MAG:DEPTHS:MAG_DEPTHS_PLOT Feb-10 13:10:05.284 [main] DEBUG nextflow.processor.TaskProcessor - Starting process > NFCORE_MAG:MAG:DEPTHS:MAG_DEPTHS_SUMMARY Feb-10 13:10:05.284 [main] DEBUG nextflow.processor.TaskProcessor - Starting process > NFCORE_MAG:MAG:BIN_QC:BUSCO_BUSCO Feb-10 13:10:05.284 [main] DEBUG nextflow.processor.TaskProcessor - Starting process > NFCORE_MAG:MAG:BIN_QC:CONCAT_BUSCO_TSV Feb-10 13:10:05.284 [main] DEBUG nextflow.processor.TaskProcessor - Starting process > NFCORE_MAG:MAG:QUAST_BINS Feb-10 13:10:05.284 [main] DEBUG nextflow.processor.TaskProcessor - Starting process > NFCORE_MAG:MAG:QUAST_BINS_SUMMARY Feb-10 13:10:05.284 [main] DEBUG nextflow.processor.TaskProcessor - Starting process > NFCORE_MAG:MAG:GTDBTK:GTDBTK_CLASSIFYWF Feb-10 13:10:05.284 [main] DEBUG nextflow.processor.TaskProcessor - Starting process > NFCORE_MAG:MAG:GTDBTK:GTDBTK_SUMMARY Feb-10 13:10:05.284 [main] DEBUG nextflow.processor.TaskProcessor - Starting process > NFCORE_MAG:MAG:BIN_SUMMARY Feb-10 13:10:05.284 [main] DEBUG nextflow.processor.TaskProcessor - Starting process > NFCORE_MAG:MAG:PROKKA Feb-10 13:10:05.290 [main] DEBUG nextflow.processor.TaskProcessor - Starting process > NFCORE_MAG:MAG:MULTIQC Feb-10 13:10:05.292 [main] DEBUG nextflow.script.ScriptRunner - Parsed script files: Script_8251928f53ed1e0e: /home/UNN/w20041368/.nextflow/assets/nf-core/mag/modules/nf-core/multiqc/main.nf Script_dd0ed63eca067f78: /home/UNN/w20041368/.nextflow/assets/nf-core/mag/modules/nf-core/porechop/porechop/main.nf Script_657f9677ab6f5bab: /home/UNN/w20041368/.nextflow/assets/nf-core/mag/modules/nf-core/nanolyse/main.nf Script_ebeae4d7d4cc3739: /home/UNN/w20041368/.nextflow/assets/nf-core/mag/modules/local/bowtie2_removal_build/main.nf Script_70439736a1e82cbd: /home/UNN/w20041368/.nextflow/assets/nf-core/mag/modules/nf-core/bbmap/bbnorm/main.nf Script_b150cf969b83c25c: /home/UNN/w20041368/.nextflow/assets/nf-core/mag/modules/nf-core/concoct/concoct/main.nf Script_662f3a1abb073f82: /home/UNN/w20041368/.nextflow/assets/nf-core/mag/modules/nf-core/catpack/bins/main.nf Script_9e61b79b569950a4: /home/UNN/w20041368/.nextflow/assets/nf-core/mag/modules/nf-core/fastqc/main.nf Script_a780234b47eb3af3: /home/UNN/w20041368/.nextflow/assets/nf-core/mag/modules/nf-core/gunzip/main.nf Script_4025689c3a6538fe: /home/UNN/w20041368/.nextflow/assets/nf-core/mag/modules/local/quast_run/main.nf Script_4194fa5c869cc45e: /home/UNN/w20041368/.nextflow/assets/nf-core/mag/modules/nf-core/tiara/tiara/main.nf Script_41e96a0d16f0d8ff: /home/UNN/w20041368/.nextflow/assets/nf-core/mag/modules/nf-core/dastool/fastatocontig2bin/main.nf Script_3bf7f154d84f5c84: /home/UNN/w20041368/.nextflow/assets/nf-core/mag/modules/nf-core/metaeuk/easypredict/main.nf Script_7514ea371afe940e: /home/UNN/w20041368/.nextflow/assets/nf-core/mag/subworkflows/local/domain_classification/main.nf Script_0dc6e56b9ad870f8: /home/UNN/w20041368/.nextflow/assets/nf-core/mag/subworkflows/local/depths/main.nf Script_a30e01e4c5daf8d3: /home/UNN/w20041368/.nextflow/assets/nf-core/mag/modules/nf-core/gunc/mergecheckm/main.nf Script_91dc0e2bf71ccbd5: /home/UNN/w20041368/.nextflow/assets/nf-core/mag/modules/nf-core/samtools/index/main.nf Script_f9b92fd2f5e3dc64: /home/UNN/w20041368/.nextflow/assets/nf-core/mag/modules/local/quast_bins_summary/main.nf Script_6ad5c748a98a6dff: /home/UNN/w20041368/.nextflow/assets/nf-core/mag/modules/nf-core/metamdbg/asm/main.nf Script_efe58f48004f5040: /home/UNN/w20041368/.nextflow/assets/nf-core/mag/modules/nf-core/genomad/download/main.nf Script_212dbd25fd780c86: /home/UNN/w20041368/.nextflow/assets/nf-core/mag/subworkflows/local/virus_identification/main.nf Script_c37b17fdb817b5bb: /home/UNN/w20041368/.nextflow/assets/nf-core/mag/subworkflows/local/binning_preparation/main.nf Script_d528be07f57947da: /home/UNN/w20041368/.nextflow/assets/nf-core/mag/main.nf Script_bb4e65cd6032cf4c: /home/UNN/w20041368/.nextflow/assets/nf-core/mag/modules/nf-core/genomad/endtoend/main.nf Script_0f34fafa78b47e29: /home/UNN/w20041368/.nextflow/assets/nf-core/mag/modules/nf-core/bcftools/consensus/main.nf Script_63cdd9b01cccc42b: /home/UNN/w20041368/.nextflow/assets/nf-core/mag/subworkflows/nf-core/fasta_binning_concoct/main.nf Script_f6d38642093dbada: /home/UNN/w20041368/.nextflow/assets/nf-core/mag/modules/local/metabinner_bins/main.nf Script_e93df427c124c36f: /home/UNN/w20041368/.nextflow/assets/nf-core/mag/modules/nf-core/checkm2/databasedownload/main.nf Script_bace9cdec1116a15: /home/UNN/w20041368/.nextflow/assets/nf-core/mag/modules/nf-core/dastool/dastool/main.nf Script_b3b461fa5bd7a897: /home/UNN/w20041368/.nextflow/assets/nf-core/mag/modules/nf-core/concoct/concoctcoveragetable/main.nf Script_2cfdc1c6875129ad: /home/UNN/w20041368/.nextflow/assets/nf-core/mag/modules/nf-core/samtools/stats/main.nf Script_81f205bf73e1c71b: /home/UNN/w20041368/.nextflow/assets/nf-core/mag/subworkflows/local/gtdbtk/main.nf Script_df0239fdae301a8f: /home/UNN/w20041368/.nextflow/assets/nf-core/mag/modules/nf-core/untar/main.nf Script_b8b62a34d287bdc9: /home/UNN/w20041368/.nextflow/assets/nf-core/mag/modules/local/adjust_maxbin2_ext/main.nf Script_6eeb1af847bda27f: /home/UNN/w20041368/.nextflow/assets/nf-core/mag/modules/local/samtools_unmapped/main.nf Script_813e94ec303a525f: /home/UNN/w20041368/.nextflow/assets/nf-core/mag/modules/nf-core/metabat2/metabat2/main.nf Script_b6d0813b09b6ca8a: /home/UNN/w20041368/.nextflow/assets/nf-core/mag/modules/nf-core/semibin/singleeasybin/main.nf Script_0d109a154882f7e8: /home/UNN/w20041368/.nextflow/assets/nf-core/mag/subworkflows/local/binning_metabinner/main.nf Script_db164bad42e517c1: /home/UNN/w20041368/.nextflow/assets/nf-core/mag/modules/nf-core/concoct/cutupfasta/main.nf Script_db1972f38147b3af: /home/UNN/w20041368/.nextflow/assets/nf-core/mag/modules/nf-core/checkm2/predict/main.nf Script_7a2713b22124d60a: /home/UNN/w20041368/.nextflow/assets/nf-core/mag/modules/nf-core/mmseqs/databases/main.nf Script_6410fd0eca0904d6: /home/UNN/w20041368/.nextflow/assets/nf-core/mag/modules/nf-core/porechop/abi/main.nf Script_e74d725da9a5a8b6: /home/UNN/w20041368/.nextflow/assets/nf-core/mag/subworkflows/local/utils_nfcore_mag_pipeline/main.nf Script_7957a57dfe21d7fe: /home/UNN/w20041368/.nextflow/assets/nf-core/mag/modules/local/dastool_rename_post/main.nf Script_14b00020b4ade65c: /home/UNN/w20041368/.nextflow/assets/nf-core/mag/modules/local/metabinner_kmer/main.nf Script_65af6306252bcdd8: /home/UNN/w20041368/.nextflow/assets/nf-core/mag/modules/nf-core/fastp/main.nf Script_b4270ad5e23c436e: /home/UNN/w20041368/.nextflow/assets/nf-core/mag/modules/nf-core/busco/busco/main.nf Script_40116f323c6ad0c6: /home/UNN/w20041368/.nextflow/assets/nf-core/mag/modules/nf-core/minimap2/index/main.nf Script_266804253673db68: /home/UNN/w20041368/.nextflow/assets/nf-core/mag/subworkflows/local/tiara/main.nf Script_6deb43439613eab0: /home/UNN/w20041368/.nextflow/assets/nf-core/mag/modules/nf-core/trimmomatic/main.nf Script_20843753a8cd6739: /home/UNN/w20041368/.nextflow/assets/nf-core/mag/modules/nf-core/catpack/summarise/main.nf Script_4aba19d34066bf38: /home/UNN/w20041368/.nextflow/assets/nf-core/mag/subworkflows/local/catpack/main.nf Script_1955679f7c9f1ae5: /home/UNN/w20041368/.nextflow/assets/nf-core/mag/modules/nf-core/chopper/main.nf Script_f843d7ba3ed6fbd6: /home/UNN/w20041368/.nextflow/assets/nf-core/mag/modules/nf-core/pydamage/analyze/main.nf Script_06363cf71021ec61: /home/UNN/w20041368/.nextflow/assets/nf-core/mag/subworkflows/local/assembly/main.nf Script_33a0d7c4dda22918: /home/UNN/w20041368/.nextflow/assets/nf-core/mag/modules/nf-core/prokka/main.nf Script_5977f542cd315b9b: /home/UNN/w20041368/.nextflow/assets/nf-core/mag/subworkflows/nf-core/utils_nfcore_pipeline/main.nf Script_5ff9eb1b3a5204c8: /home/UNN/w20041368/.nextflow/assets/nf-core/mag/modules/nf-core/concoct/mergecutupclustering/main.nf Script_56671e7eb97988f1: /home/UNN/w20041368/.nextflow/assets/nf-core/mag/subworkflows/local/assembly_hybrid/main.nf Script_28ac14b407a6961a: /home/UNN/w20041368/.nextflow/assets/nf-core/mag/modules/nf-core/qsv/cat/main.nf Script_4779b6382e5427ab: /home/UNN/w20041368/.nextflow/assets/nf-core/mag/modules/nf-core/cat/fastq/main.nf Script_4821fb75ee0f2f86: /home/UNN/w20041368/.nextflow/assets/nf-core/mag/modules/nf-core/spades/main.nf Script_e88099979b0dc296: /home/UNN/w20041368/.nextflow/assets/nf-core/mag/modules/local/metabinner_metabinner/main.nf Script_f9211ae55c6b16d3: /home/UNN/w20041368/.nextflow/assets/nf-core/mag/modules/nf-core/gunc/run/main.nf Script_23affc3ebac1b76d: /home/UNN/w20041368/.nextflow/assets/nf-core/mag/modules/local/mag_depths/main.nf Script_c1b2357227a88ecb: /home/UNN/w20041368/.nextflow/assets/nf-core/mag/subworkflows/local/hostremoval_longread/main.nf Script_91f093f8fa020b21: /home/UNN/w20041368/.nextflow/assets/nf-core/mag/subworkflows/local/preprocessing_shortread/main.nf Script_0fe15fa61b14c664: /home/UNN/w20041368/.nextflow/assets/nf-core/mag/subworkflows/local/binning_preparation_longread/main.nf Script_1cc890cf593d0c7d: /home/UNN/w20041368/.nextflow/assets/nf-core/mag/modules/nf-core/nanoplot/main.nf Script_0bda468c90074740: /home/UNN/w20041368/.nextflow/assets/nf-core/mag/subworkflows/local/bin_qc/main.nf Script_db0156ba853576e7: /home/UNN/w20041368/.nextflow/assets/nf-core/mag/modules/nf-core/megahit/main.nf Script_7980eeb2bd5b6b62: /home/UNN/w20041368/.nextflow/assets/nf-core/mag/modules/local/gtdbtk_summary/main.nf Script_b7dadd61d296a4e5: /home/UNN/w20041368/.nextflow/assets/nf-core/mag/modules/local/mag_depths_plot/main.nf Script_6376ecee437dba61: /home/UNN/w20041368/.nextflow/assets/nf-core/mag/modules/nf-core/bcftools/index/main.nf Script_67daa6ceb8b6ffc7: /home/UNN/w20041368/.nextflow/assets/nf-core/mag/modules/nf-core/metabat2/jgisummarizebamcontigdepths/main.nf Script_67898bd06725ed49: /home/UNN/w20041368/.nextflow/assets/nf-core/mag/modules/local/tiara_classify/main.nf Script_18859c9c1fd5b262: /home/UNN/w20041368/.nextflow/assets/nf-core/mag/modules/local/bowtie2_assembly_align/main.nf Script_f99a723b0cb72db5: /home/UNN/w20041368/.nextflow/assets/nf-core/mag/modules/local/bin_summary/main.nf Script_26b8873bf995475d: /home/UNN/w20041368/.nextflow/assets/nf-core/mag/modules/local/mag_depths_summary/main.nf Script_dda9bf2b9386c53e: /home/UNN/w20041368/.nextflow/assets/nf-core/mag/modules/nf-core/prodigal/main.nf Script_cf56eeee381ccdd0: /home/UNN/w20041368/.nextflow/assets/nf-core/mag/modules/local/bigmag_summary/main.nf Script_52e48ae8eff41df3: /home/UNN/w20041368/.nextflow/assets/nf-core/mag/modules/local/bowtie2_removal_align/main.nf Script_cd6dfe9a263c2e4a: /home/UNN/w20041368/.nextflow/assets/nf-core/mag/workflows/mag.nf Script_506879f771734a14: /home/UNN/w20041368/.nextflow/assets/nf-core/mag/modules/local/gtdbtk_db_preparation/main.nf Script_3b6d187f886ac6f1: /home/UNN/w20041368/.nextflow/assets/nf-core/mag/modules/nf-core/bcftools/view/main.nf Script_3d42c4742b2bee98: /home/UNN/w20041368/.nextflow/assets/nf-core/mag/modules/nf-core/samtools/faidx/main.nf Script_64de01d227e3b201: /home/UNN/w20041368/.nextflow/assets/nf-core/mag/modules/local/bowtie2_assembly_build/main.nf Script_1f22cbf03c5f9be9: /home/UNN/w20041368/.nextflow/assets/nf-core/mag/modules/nf-core/gunc/downloaddb/main.nf Script_f1971722a53971bb: /home/UNN/w20041368/.nextflow/assets/nf-core/mag/subworkflows/local/ancient_dna/main.nf Script_3b6a023d0cd9454f: /home/UNN/w20041368/.nextflow/assets/nf-core/mag/modules/nf-core/comebin/runcomebin/main.nf Script_7db1bb188e84be6d: /home/UNN/w20041368/.nextflow/assets/nf-core/mag/modules/local/mag_depths_convert/main.nf Script_8c6cd303ae812c8b: /home/UNN/w20041368/.nextflow/assets/nf-core/mag/modules/nf-core/minimap2/align/main.nf Script_b14e0cd8589072ea: /home/UNN/w20041368/.nextflow/assets/nf-core/mag/subworkflows/local/binning_refinement/main.nf Script_4471055256c8528a: /home/UNN/w20041368/.nextflow/assets/nf-core/mag/modules/nf-core/catpack/download/main.nf Script_f295035081b79947: /home/UNN/w20041368/.nextflow/assets/nf-core/mag/modules/nf-core/concoct/extractfastabins/main.nf Script_cb6f7bf8062184a5: /home/UNN/w20041368/.nextflow/assets/nf-core/mag/subworkflows/local/binning/main.nf Script_c212a94dc596b68c: /home/UNN/w20041368/.nextflow/assets/nf-core/mag/modules/local/split_fasta/main.nf Script_4003276f9cf44671: /home/UNN/w20041368/.nextflow/assets/nf-core/mag/modules/nf-core/catpack/addnames/main.nf Script_bb60c3e169955274: /home/UNN/w20041368/.nextflow/assets/nf-core/mag/modules/nf-core/gtdbtk/classifywf/main.nf Script_fe7c72f9826fe609: /home/UNN/w20041368/.nextflow/assets/nf-core/mag/modules/nf-core/seqtk/mergepe/main.nf Script_030d8cefcf7d8f97: /home/UNN/w20041368/.nextflow/assets/nf-core/mag/modules/local/dastool_rename_pre/main.nf Script_f93ae1b28ada1448: /home/UNN/w20041368/.nextflow/assets/nf-core/mag/modules/nf-core/adapterremoval/main.nf Script_62d89200d0221fda: /home/UNN/w20041368/.nextflow/assets/nf-core/mag/modules/nf-core/catpack/prepare/main.nf Script_a75fdad29f24c934: /home/UNN/w20041368/.nextflow/assets/nf-core/mag/modules/local/metabinner_tooshort/main.nf Script_934a7424f97f4b93: /home/UNN/w20041368/.nextflow/assets/nf-core/mag/subworkflows/nf-core/utils_nfschema_plugin/main.nf Script_db69602f7b4d7564: /home/UNN/w20041368/.nextflow/assets/nf-core/mag/modules/nf-core/flye/main.nf Script_4f612cfd8c52e8cd: /home/UNN/w20041368/.nextflow/assets/nf-core/mag/subworkflows/nf-core/utils_nextflow_pipeline/main.nf Script_3f47818806fdcf2b: /home/UNN/w20041368/.nextflow/assets/nf-core/mag/modules/nf-core/checkm/lineagewf/main.nf Script_029dc9a3afba34cb: /home/UNN/w20041368/.nextflow/assets/nf-core/mag/modules/nf-core/filtlong/main.nf Script_092a1ba31635ac51: /home/UNN/w20041368/.nextflow/assets/nf-core/mag/modules/nf-core/checkm/qa/main.nf Script_6f398201f7966305: /home/UNN/w20041368/.nextflow/assets/nf-core/mag/modules/nf-core/catpack/contigs/main.nf Script_880834d3bf2a3a3b: /home/UNN/w20041368/.nextflow/assets/nf-core/mag/modules/nf-core/seqkit/stats/main.nf Script_3e0ed4611d74a2b5: /home/UNN/w20041368/.nextflow/assets/nf-core/mag/modules/nf-core/maxbin2/main.nf Script_6a4dece39a7a25da: /home/UNN/w20041368/.nextflow/assets/nf-core/mag/modules/nf-core/pydamage/filter/main.nf Script_c00e1ff9da61057b: /home/UNN/w20041368/.nextflow/assets/nf-core/mag/subworkflows/local/binning_preparation_shortread/main.nf Script_ec1daa6037d5f73e: /home/UNN/w20041368/.nextflow/assets/nf-core/mag/modules/nf-core/nanoq/main.nf Script_9698f32bb5e5b60a: /home/UNN/w20041368/.nextflow/assets/nf-core/mag/subworkflows/local/preprocessing_longread/main.nf Script_5c67bd65d9a2be6c: /home/UNN/w20041368/.nextflow/assets/nf-core/mag/modules/local/quast_bins/main.nf Script_d4e9fdb559faa90b: /home/UNN/w20041368/.nextflow/assets/nf-core/mag/subworkflows/local/assembly_shortread/main.nf Script_f526ea333b3ea25e: /home/UNN/w20041368/.nextflow/assets/nf-core/mag/modules/nf-core/freebayes/main.nf Script_24a7367e95a7d52e: /home/UNN/w20041368/.nextflow/assets/nf-core/mag/subworkflows/local/assembly_longread/main.nf Feb-10 13:10:05.292 [main] DEBUG nextflow.script.ScriptRunner - > Awaiting termination Feb-10 13:10:05.292 [main] DEBUG nextflow.Session - Session await Feb-10 13:10:05.348 [Actor Thread 185] DEBUG nextflow.sort.BigSort - Sort completed -- entries: 1; slices: 1; internal sort time: 0.001 s; external sort time: 0.011 s; total time: 0.012 s Feb-10 13:10:05.348 [Actor Thread 179] DEBUG nextflow.sort.BigSort - Sort completed -- entries: 1; slices: 1; internal sort time: 0.001 s; external sort time: 0.011 s; total time: 0.012 s Feb-10 13:10:05.351 [Actor Thread 179] DEBUG nextflow.file.FileCollector - Saved collect-files list to: /home/UNN/w20041368/work/collect-file/84761f445a6f7e0ac6f83f5c828b1384 Feb-10 13:10:05.351 [Actor Thread 185] DEBUG nextflow.file.FileCollector - Saved collect-files list to: /home/UNN/w20041368/work/collect-file/0a990596f48e81187352668c909c4d9c Feb-10 13:10:05.355 [Actor Thread 180] DEBUG nextflow.conda.CondaCache - conda found local env for environment=/home/UNN/w20041368/.nextflow/assets/nf-core/mag/modules/nf-core/fastp/environment.yml; path=/home/UNN/w20041368/work/conda/env-16f81c2d4bd7c1b7c6728e895927777c Feb-10 13:10:05.355 [Actor Thread 187] DEBUG nextflow.conda.CondaCache - conda found local env for environment=/home/UNN/w20041368/.nextflow/assets/nf-core/mag/modules/nf-core/fastqc/environment.yml; path=/home/UNN/w20041368/work/conda/env-e88d3b603ce8089926a3a3fee5b86d02 Feb-10 13:10:05.358 [Actor Thread 185] DEBUG nextflow.file.FileCollector - Deleting file collector temp dir: /tmp/nxf-15623345963240358300 Feb-10 13:10:05.358 [Actor Thread 179] DEBUG nextflow.file.FileCollector - Deleting file collector temp dir: /tmp/nxf-17245751949142284491 Feb-10 13:10:05.412 [Task submitter] DEBUG n.executor.local.LocalTaskHandler - Launch cmd line: /bin/bash -ue .command.run Feb-10 13:10:05.413 [Task submitter] INFO nextflow.Session - [70/3b5f1a] Submitted process > NFCORE_MAG:MAG:SHORTREAD_PREPROCESSING:FASTP (SG_R1R2_run0) Feb-10 13:10:05.423 [Task submitter] DEBUG n.executor.local.LocalTaskHandler - Launch cmd line: /bin/bash -ue .command.run Feb-10 13:10:05.423 [Task submitter] INFO nextflow.Session - [bc/89d679] Submitted process > NFCORE_MAG:MAG:SHORTREAD_PREPROCESSING:FASTQC_RAW (SG_R1R2_run0_raw) Feb-10 13:10:32.481 [Task monitor] DEBUG n.processor.TaskPollingMonitor - Task completed > TaskHandler[id: 1; name: NFCORE_MAG:MAG:SHORTREAD_PREPROCESSING:FASTQC_RAW (SG_R1R2_run0_raw); status: COMPLETED; exit: 0; error: -; workDir: /home/UNN/w20041368/work/bc/89d679a7e22c34c8d7af57add0e075] Feb-10 13:10:32.482 [Task monitor] DEBUG nextflow.util.ThreadPoolBuilder - Creating thread pool 'TaskFinalizer' minSize=10; maxSize=576; workQueue=LinkedBlockingQueue[-1]; allowCoreThreadTimeout=false Feb-10 13:10:32.511 [TaskFinalizer-1] DEBUG nextflow.util.ThreadPoolBuilder - Creating thread pool 'PublishDir' minSize=10; maxSize=576; workQueue=LinkedBlockingQueue[-1]; allowCoreThreadTimeout=false Feb-10 13:10:45.035 [Task monitor] DEBUG n.processor.TaskPollingMonitor - Task completed > TaskHandler[id: 2; name: NFCORE_MAG:MAG:SHORTREAD_PREPROCESSING:FASTP (SG_R1R2_run0); status: COMPLETED; exit: 0; error: -; workDir: /home/UNN/w20041368/work/70/3b5f1a29e95f5e0bb458d0df0e364f] Feb-10 13:10:45.102 [TaskFinalizer-2] DEBUG nextflow.processor.TaskProcessor - Process NFCORE_MAG:MAG:SHORTREAD_PREPROCESSING:FASTP > Skipping output binding because one or more optional files are missing: fileoutparam<4:1> Feb-10 13:10:45.102 [TaskFinalizer-2] DEBUG nextflow.processor.TaskProcessor - Process NFCORE_MAG:MAG:SHORTREAD_PREPROCESSING:FASTP > Skipping output binding because one or more optional files are missing: fileoutparam<5:1> Feb-10 13:10:45.112 [Actor Thread 186] DEBUG nextflow.conda.CondaCache - conda found local env for environment=/home/UNN/w20041368/.nextflow/assets/nf-core/mag/modules/local/bowtie2_removal_build/environment.yml; path=/home/UNN/w20041368/work/conda/env-3a813064872a8a2a4ba969c159c21fef Feb-10 13:10:45.117 [Actor Thread 191] DEBUG nextflow.util.HashBuilder - Hash asset file sha-256: /home/UNN/w20041368/.nextflow/assets/nf-core/mag/assets/data/GCA_002596845.1_ASM259684v1_genomic.fna.gz Feb-10 13:10:45.129 [Task submitter] DEBUG n.executor.local.LocalTaskHandler - Launch cmd line: /bin/bash -ue .command.run Feb-10 13:10:45.129 [Task submitter] INFO nextflow.Session - [49/9f0422] Submitted process > NFCORE_MAG:MAG:SHORTREAD_PREPROCESSING:BOWTIE2_PHIX_REMOVAL_BUILD (GCA_002596845.1_ASM259684v1_genomic.fna.gz) Feb-10 13:10:45.956 [Task monitor] DEBUG n.processor.TaskPollingMonitor - Task completed > TaskHandler[id: 3; name: NFCORE_MAG:MAG:SHORTREAD_PREPROCESSING:BOWTIE2_PHIX_REMOVAL_BUILD (GCA_002596845.1_ASM259684v1_genomic.fna.gz); status: COMPLETED; exit: 0; error: -; workDir: /home/UNN/w20041368/work/49/9f0422d939768b5e55b1ec6afa949a] Feb-10 13:10:45.979 [Task submitter] DEBUG n.executor.local.LocalTaskHandler - Launch cmd line: /bin/bash -ue .command.run Feb-10 13:10:45.979 [Task submitter] INFO nextflow.Session - [06/f1689a] Submitted process > NFCORE_MAG:MAG:SHORTREAD_PREPROCESSING:BOWTIE2_PHIX_REMOVAL_ALIGN (SG_R1R2_run0) Feb-10 13:12:03.197 [Task monitor] DEBUG n.processor.TaskPollingMonitor - Task completed > TaskHandler[id: 4; name: NFCORE_MAG:MAG:SHORTREAD_PREPROCESSING:BOWTIE2_PHIX_REMOVAL_ALIGN (SG_R1R2_run0); status: COMPLETED; exit: 0; error: -; workDir: /home/UNN/w20041368/work/06/f1689acc09f67651245bdc4ee82a10] Feb-10 13:12:03.203 [TaskFinalizer-4] DEBUG nextflow.processor.TaskProcessor - Process NFCORE_MAG:MAG:SHORTREAD_PREPROCESSING:BOWTIE2_PHIX_REMOVAL_ALIGN > Skipping output binding because one or more optional files are missing: fileoutparam<1> Feb-10 13:12:03.216 [Task submitter] DEBUG n.executor.local.LocalTaskHandler - Launch cmd line: /bin/bash -ue .command.run Feb-10 13:12:03.217 [Task submitter] INFO nextflow.Session - [11/f067be] Submitted process > NFCORE_MAG:MAG:SHORTREAD_PREPROCESSING:FASTQC_TRIMMED (SG_R1R2_run0) Feb-10 13:12:03.219 [Actor Thread 191] DEBUG nextflow.conda.CondaCache - conda found local env for environment=/home/UNN/w20041368/.nextflow/assets/nf-core/mag/modules/nf-core/spades/environment.yml; path=/home/UNN/w20041368/work/conda/env-5c3f7ce713aeb2d61d07202a223dc35c Feb-10 13:12:03.221 [Actor Thread 178] DEBUG nextflow.sort.BigSort - Sort completed -- entries: 1; slices: 1; internal sort time: 0.0 s; external sort time: 0.001 s; total time: 0.001 s Feb-10 13:12:03.221 [Actor Thread 178] DEBUG nextflow.file.FileCollector - Saved collect-files list to: /home/UNN/w20041368/work/collect-file/ea5ede315ab64371d0309c26d8e870e1 Feb-10 13:12:03.222 [Actor Thread 191] DEBUG nextflow.conda.CondaCache - conda found local env for environment=/home/UNN/w20041368/.nextflow/assets/nf-core/mag/modules/nf-core/megahit/environment.yml; path=/home/UNN/w20041368/work/conda/env-c806ddd15388b38c70ea6b5343219faf Feb-10 13:12:03.222 [Actor Thread 178] DEBUG nextflow.file.FileCollector - Deleting file collector temp dir: /tmp/nxf-8164732872628430022 Feb-10 13:12:03.225 [Task submitter] DEBUG n.executor.local.LocalTaskHandler - Launch cmd line: /bin/bash -ue .command.run Feb-10 13:12:03.225 [Task submitter] INFO nextflow.Session - [60/265670] Submitted process > NFCORE_MAG:MAG:ASSEMBLY:SHORTREAD_ASSEMBLY:METASPADES (SG_R1R2) Feb-10 13:12:03.229 [Task submitter] DEBUG n.executor.local.LocalTaskHandler - Launch cmd line: /bin/bash -ue .command.run Feb-10 13:12:03.229 [Task submitter] INFO nextflow.Session - [13/d1f30f] Submitted process > NFCORE_MAG:MAG:ASSEMBLY:SHORTREAD_ASSEMBLY:MEGAHIT (SG_R1R2) Feb-10 13:12:30.235 [Task monitor] DEBUG n.processor.TaskPollingMonitor - Task completed > TaskHandler[id: 5; name: NFCORE_MAG:MAG:SHORTREAD_PREPROCESSING:FASTQC_TRIMMED (SG_R1R2_run0); status: COMPLETED; exit: 0; error: -; workDir: /home/UNN/w20041368/work/11/f067be8f4a604082135786f19c6047] Feb-10 13:14:34.344 [Task monitor] DEBUG n.processor.TaskPollingMonitor - Task completed > TaskHandler[id: 7; name: NFCORE_MAG:MAG:ASSEMBLY:SHORTREAD_ASSEMBLY:MEGAHIT (SG_R1R2); status: COMPLETED; exit: 0; error: -; workDir: /home/UNN/w20041368/work/13/d1f30f893e254d3aac7e13cce18ecc] Feb-10 13:14:34.372 [Actor Thread 191] DEBUG nextflow.conda.CondaCache - conda found local env for environment=/home/UNN/w20041368/.nextflow/assets/nf-core/mag/modules/nf-core/gunzip/environment.yml; path=/home/UNN/w20041368/work/conda/env-4e7a2806bf21778d59d5eb71300de9f9 Feb-10 13:14:34.383 [Task submitter] DEBUG n.executor.local.LocalTaskHandler - Launch cmd line: /bin/bash -ue .command.run Feb-10 13:14:34.384 [Task submitter] INFO nextflow.Session - [a3/35bef6] Submitted process > NFCORE_MAG:MAG:ASSEMBLY:GUNZIP_SHORTREAD_ASSEMBLIES (MEGAHIT-SG_R1R2.contigs.fa.gz) Feb-10 13:14:35.233 [Task monitor] DEBUG n.processor.TaskPollingMonitor - Task completed > TaskHandler[id: 8; name: NFCORE_MAG:MAG:ASSEMBLY:GUNZIP_SHORTREAD_ASSEMBLIES (MEGAHIT-SG_R1R2.contigs.fa.gz); status: COMPLETED; exit: 0; error: -; workDir: /home/UNN/w20041368/work/a3/35bef61b0df7a428cc18a321ed520f] Feb-10 13:14:35.241 [Actor Thread 178] DEBUG nextflow.conda.CondaCache - conda found local env for environment=/home/UNN/w20041368/.nextflow/assets/nf-core/mag/modules/local/quast_run/environment.yml; path=/home/UNN/w20041368/work/conda/env-74da85b827a69d2dee06796c080a0202 Feb-10 13:14:35.242 [Actor Thread 178] DEBUG nextflow.conda.CondaCache - conda found local env for environment=/home/UNN/w20041368/.nextflow/assets/nf-core/mag/modules/nf-core/prodigal/environment.yml; path=/home/UNN/w20041368/work/conda/env-f3c2acb278f459537f8d180596c064d9 Feb-10 13:14:35.249 [Task submitter] DEBUG n.executor.local.LocalTaskHandler - Launch cmd line: /bin/bash -ue .command.run Feb-10 13:14:35.250 [Task submitter] INFO nextflow.Session - [8e/d938cb] Submitted process > NFCORE_MAG:MAG:BINNING_PREPARATION:SHORTREAD_BINNING_PREPARATION:BOWTIE2_ASSEMBLY_BUILD (MEGAHIT-SG_R1R2) Feb-10 13:14:35.253 [Task submitter] DEBUG n.executor.local.LocalTaskHandler - Launch cmd line: /bin/bash -ue .command.run Feb-10 13:14:35.253 [Task submitter] INFO nextflow.Session - [a2/89dbd5] Submitted process > NFCORE_MAG:MAG:QUAST (MEGAHIT-SG_R1R2) Feb-10 13:14:35.257 [Task submitter] DEBUG n.executor.local.LocalTaskHandler - Launch cmd line: /bin/bash -ue .command.run Feb-10 13:14:35.258 [Task submitter] INFO nextflow.Session - [65/671e2a] Submitted process > NFCORE_MAG:MAG:PRODIGAL (SG_R1R2) Feb-10 13:14:36.505 [Task monitor] DEBUG n.processor.TaskPollingMonitor - Task completed > TaskHandler[id: 9; name: NFCORE_MAG:MAG:BINNING_PREPARATION:SHORTREAD_BINNING_PREPARATION:BOWTIE2_ASSEMBLY_BUILD (MEGAHIT-SG_R1R2); status: COMPLETED; exit: 0; error: -; workDir: /home/UNN/w20041368/work/8e/d938cb4515446901b149e808355bc4] Feb-10 13:14:36.526 [Actor Thread 178] DEBUG nextflow.conda.CondaCache - conda found local env for environment=/home/UNN/w20041368/.nextflow/assets/nf-core/mag/modules/local/bowtie2_assembly_align/environment.yml; path=/home/UNN/w20041368/work/conda/env-2f39e093c8022ca91fdc35be14179f04 Feb-10 13:14:36.535 [Task submitter] DEBUG n.executor.local.LocalTaskHandler - Launch cmd line: /bin/bash -ue .command.run Feb-10 13:14:36.535 [Task submitter] INFO nextflow.Session - [fd/2bb92b] Submitted process > NFCORE_MAG:MAG:BINNING_PREPARATION:SHORTREAD_BINNING_PREPARATION:BOWTIE2_ASSEMBLY_ALIGN (MEGAHIT-SG_R1R2-SG_R1R2) Feb-10 13:14:38.708 [Task monitor] DEBUG n.processor.TaskPollingMonitor - Task completed > TaskHandler[id: 11; name: NFCORE_MAG:MAG:QUAST (MEGAHIT-SG_R1R2); status: COMPLETED; exit: 0; error: -; workDir: /home/UNN/w20041368/work/a2/89dbd5b09ac3558e0de4fd12af28e6] Feb-10 13:14:39.125 [Task monitor] DEBUG n.processor.TaskPollingMonitor - Task completed > TaskHandler[id: 10; name: NFCORE_MAG:MAG:PRODIGAL (SG_R1R2); status: COMPLETED; exit: 0; error: -; workDir: /home/UNN/w20041368/work/65/671e2ac78f55a5915c1bae3ca0646c] Feb-10 13:15:04.451 [Task monitor] DEBUG n.processor.TaskPollingMonitor - !! executor local > tasks to be completed: 2 -- submitted tasks are shown below ~> TaskHandler[id: 6; name: NFCORE_MAG:MAG:ASSEMBLY:SHORTREAD_ASSEMBLY:METASPADES (SG_R1R2); status: RUNNING; exit: -; error: -; workDir: /home/UNN/w20041368/work/60/26567030e3e2c6972dd5e7d02a7d67] ~> TaskHandler[id: 12; name: NFCORE_MAG:MAG:BINNING_PREPARATION:SHORTREAD_BINNING_PREPARATION:BOWTIE2_ASSEMBLY_ALIGN (MEGAHIT-SG_R1R2-SG_R1R2); status: RUNNING; exit: -; error: -; workDir: /home/UNN/w20041368/work/fd/2bb92b8f88b3ae41ed35a7d47a59eb] Feb-10 13:20:04.522 [Task monitor] DEBUG n.processor.TaskPollingMonitor - !! executor local > tasks to be completed: 2 -- submitted tasks are shown below ~> TaskHandler[id: 6; name: NFCORE_MAG:MAG:ASSEMBLY:SHORTREAD_ASSEMBLY:METASPADES (SG_R1R2); status: RUNNING; exit: -; error: -; workDir: /home/UNN/w20041368/work/60/26567030e3e2c6972dd5e7d02a7d67] ~> TaskHandler[id: 12; name: NFCORE_MAG:MAG:BINNING_PREPARATION:SHORTREAD_BINNING_PREPARATION:BOWTIE2_ASSEMBLY_ALIGN (MEGAHIT-SG_R1R2-SG_R1R2); status: RUNNING; exit: -; error: -; workDir: /home/UNN/w20041368/work/fd/2bb92b8f88b3ae41ed35a7d47a59eb] Feb-10 13:21:19.533 [Task monitor] DEBUG n.processor.TaskPollingMonitor - Task completed > TaskHandler[id: 12; name: NFCORE_MAG:MAG:BINNING_PREPARATION:SHORTREAD_BINNING_PREPARATION:BOWTIE2_ASSEMBLY_ALIGN (MEGAHIT-SG_R1R2-SG_R1R2); status: COMPLETED; exit: 0; error: -; workDir: /home/UNN/w20041368/work/fd/2bb92b8f88b3ae41ed35a7d47a59eb] Feb-10 13:25:04.572 [Task monitor] DEBUG n.processor.TaskPollingMonitor - !! executor local > tasks to be completed: 1 -- submitted tasks are shown below ~> TaskHandler[id: 6; name: NFCORE_MAG:MAG:ASSEMBLY:SHORTREAD_ASSEMBLY:METASPADES (SG_R1R2); status: RUNNING; exit: -; error: -; workDir: /home/UNN/w20041368/work/60/26567030e3e2c6972dd5e7d02a7d67] Feb-10 13:30:04.632 [Task monitor] DEBUG n.processor.TaskPollingMonitor - !! executor local > tasks to be completed: 1 -- submitted tasks are shown below ~> TaskHandler[id: 6; name: NFCORE_MAG:MAG:ASSEMBLY:SHORTREAD_ASSEMBLY:METASPADES (SG_R1R2); status: RUNNING; exit: -; error: -; workDir: /home/UNN/w20041368/work/60/26567030e3e2c6972dd5e7d02a7d67] Feb-10 13:35:04.646 [Task monitor] DEBUG n.processor.TaskPollingMonitor - !! executor local > tasks to be completed: 1 -- submitted tasks are shown below ~> TaskHandler[id: 6; name: NFCORE_MAG:MAG:ASSEMBLY:SHORTREAD_ASSEMBLY:METASPADES (SG_R1R2); status: RUNNING; exit: -; error: -; workDir: /home/UNN/w20041368/work/60/26567030e3e2c6972dd5e7d02a7d67] Feb-10 13:40:04.667 [Task monitor] DEBUG n.processor.TaskPollingMonitor - !! executor local > tasks to be completed: 1 -- submitted tasks are shown below ~> TaskHandler[id: 6; name: NFCORE_MAG:MAG:ASSEMBLY:SHORTREAD_ASSEMBLY:METASPADES (SG_R1R2); status: RUNNING; exit: -; error: -; workDir: /home/UNN/w20041368/work/60/26567030e3e2c6972dd5e7d02a7d67] Feb-10 13:45:04.679 [Task monitor] DEBUG n.processor.TaskPollingMonitor - !! executor local > tasks to be completed: 1 -- submitted tasks are shown below ~> TaskHandler[id: 6; name: NFCORE_MAG:MAG:ASSEMBLY:SHORTREAD_ASSEMBLY:METASPADES (SG_R1R2); status: RUNNING; exit: -; error: -; workDir: /home/UNN/w20041368/work/60/26567030e3e2c6972dd5e7d02a7d67] Feb-10 13:50:04.684 [Task monitor] DEBUG n.processor.TaskPollingMonitor - !! executor local > tasks to be completed: 1 -- submitted tasks are shown below ~> TaskHandler[id: 6; name: NFCORE_MAG:MAG:ASSEMBLY:SHORTREAD_ASSEMBLY:METASPADES (SG_R1R2); status: RUNNING; exit: -; error: -; workDir: /home/UNN/w20041368/work/60/26567030e3e2c6972dd5e7d02a7d67] Feb-10 13:55:04.744 [Task monitor] DEBUG n.processor.TaskPollingMonitor - !! executor local > tasks to be completed: 1 -- submitted tasks are shown below ~> TaskHandler[id: 6; name: NFCORE_MAG:MAG:ASSEMBLY:SHORTREAD_ASSEMBLY:METASPADES (SG_R1R2); status: RUNNING; exit: -; error: -; workDir: /home/UNN/w20041368/work/60/26567030e3e2c6972dd5e7d02a7d67] Feb-10 14:00:04.821 [Task monitor] DEBUG n.processor.TaskPollingMonitor - !! executor local > tasks to be completed: 1 -- submitted tasks are shown below ~> TaskHandler[id: 6; name: NFCORE_MAG:MAG:ASSEMBLY:SHORTREAD_ASSEMBLY:METASPADES (SG_R1R2); status: RUNNING; exit: -; error: -; workDir: /home/UNN/w20041368/work/60/26567030e3e2c6972dd5e7d02a7d67] Feb-10 14:04:11.341 [Task monitor] DEBUG n.processor.TaskPollingMonitor - Task completed > TaskHandler[id: 6; name: NFCORE_MAG:MAG:ASSEMBLY:SHORTREAD_ASSEMBLY:METASPADES (SG_R1R2); status: COMPLETED; exit: 0; error: -; workDir: /home/UNN/w20041368/work/60/26567030e3e2c6972dd5e7d02a7d67] Feb-10 14:04:11.352 [TaskFinalizer-2] DEBUG nextflow.processor.TaskProcessor - Process NFCORE_MAG:MAG:ASSEMBLY:SHORTREAD_ASSEMBLY:METASPADES > Skipping output binding because one or more optional files are missing: fileoutparam<2:1> Feb-10 14:04:11.352 [TaskFinalizer-2] DEBUG nextflow.processor.TaskProcessor - Process NFCORE_MAG:MAG:ASSEMBLY:SHORTREAD_ASSEMBLY:METASPADES > Skipping output binding because one or more optional files are missing: fileoutparam<3:1> Feb-10 14:04:11.366 [Task submitter] DEBUG n.executor.local.LocalTaskHandler - Launch cmd line: /bin/bash -ue .command.run Feb-10 14:04:11.366 [Task submitter] INFO nextflow.Session - [b0/8062de] Submitted process > NFCORE_MAG:MAG:ASSEMBLY:GUNZIP_SHORTREAD_ASSEMBLIES (SPAdes-SG_R1R2.scaffolds.fa.gz) Feb-10 14:04:12.102 [Task monitor] DEBUG n.processor.TaskPollingMonitor - Task completed > TaskHandler[id: 13; name: NFCORE_MAG:MAG:ASSEMBLY:GUNZIP_SHORTREAD_ASSEMBLIES (SPAdes-SG_R1R2.scaffolds.fa.gz); status: COMPLETED; exit: 0; error: -; workDir: /home/UNN/w20041368/work/b0/8062dedc606c0719b26bf0a21da2bb] Feb-10 14:04:12.112 [Task submitter] DEBUG n.executor.local.LocalTaskHandler - Launch cmd line: /bin/bash -ue .command.run Feb-10 14:04:12.113 [Task submitter] INFO nextflow.Session - [2a/f06853] Submitted process > NFCORE_MAG:MAG:PRODIGAL (SG_R1R2) Feb-10 14:04:12.115 [Task submitter] DEBUG n.executor.local.LocalTaskHandler - Launch cmd line: /bin/bash -ue .command.run Feb-10 14:04:12.116 [Task submitter] INFO nextflow.Session - [0b/2945c0] Submitted process > NFCORE_MAG:MAG:QUAST (SPAdes-SG_R1R2) Feb-10 14:04:12.118 [Task submitter] DEBUG n.executor.local.LocalTaskHandler - Launch cmd line: /bin/bash -ue .command.run Feb-10 14:04:12.119 [Task submitter] INFO nextflow.Session - [e5/4ee183] Submitted process > NFCORE_MAG:MAG:BINNING_PREPARATION:SHORTREAD_BINNING_PREPARATION:BOWTIE2_ASSEMBLY_BUILD (SPAdes-SG_R1R2) Feb-10 14:04:14.036 [Task monitor] DEBUG n.processor.TaskPollingMonitor - Task completed > TaskHandler[id: 14; name: NFCORE_MAG:MAG:BINNING_PREPARATION:SHORTREAD_BINNING_PREPARATION:BOWTIE2_ASSEMBLY_BUILD (SPAdes-SG_R1R2); status: COMPLETED; exit: 0; error: -; workDir: /home/UNN/w20041368/work/e5/4ee183167b93071c996948212e782c] Feb-10 14:04:14.052 [Task submitter] DEBUG n.executor.local.LocalTaskHandler - Launch cmd line: /bin/bash -ue .command.run Feb-10 14:04:14.052 [Task submitter] INFO nextflow.Session - [79/5451ee] Submitted process > NFCORE_MAG:MAG:BINNING_PREPARATION:SHORTREAD_BINNING_PREPARATION:BOWTIE2_ASSEMBLY_ALIGN (SPAdes-SG_R1R2-SG_R1R2) Feb-10 14:04:15.923 [Task monitor] DEBUG n.processor.TaskPollingMonitor - Task completed > TaskHandler[id: 16; name: NFCORE_MAG:MAG:QUAST (SPAdes-SG_R1R2); status: COMPLETED; exit: 0; error: -; workDir: /home/UNN/w20041368/work/0b/2945c0292606f774a8da0a0f3f3076] Feb-10 14:04:19.223 [Task monitor] DEBUG n.processor.TaskPollingMonitor - Task completed > TaskHandler[id: 15; name: NFCORE_MAG:MAG:PRODIGAL (SG_R1R2); status: COMPLETED; exit: 0; error: -; workDir: /home/UNN/w20041368/work/2a/f06853817f16e15b703bfa6f8bb1d7] Feb-10 14:05:04.866 [Task monitor] DEBUG n.processor.TaskPollingMonitor - !! executor local > tasks to be completed: 1 -- submitted tasks are shown below ~> TaskHandler[id: 17; name: NFCORE_MAG:MAG:BINNING_PREPARATION:SHORTREAD_BINNING_PREPARATION:BOWTIE2_ASSEMBLY_ALIGN (SPAdes-SG_R1R2-SG_R1R2); status: RUNNING; exit: -; error: -; workDir: /home/UNN/w20041368/work/79/5451ee5866116a1cba9469f358d9ea] Feb-10 14:10:04.933 [Task monitor] DEBUG n.processor.TaskPollingMonitor - !! executor local > tasks to be completed: 1 -- submitted tasks are shown below ~> TaskHandler[id: 17; name: NFCORE_MAG:MAG:BINNING_PREPARATION:SHORTREAD_BINNING_PREPARATION:BOWTIE2_ASSEMBLY_ALIGN (SPAdes-SG_R1R2-SG_R1R2); status: RUNNING; exit: -; error: -; workDir: /home/UNN/w20041368/work/79/5451ee5866116a1cba9469f358d9ea] Feb-10 14:15:05.008 [Task monitor] DEBUG n.processor.TaskPollingMonitor - !! executor local > tasks to be completed: 1 -- submitted tasks are shown below ~> TaskHandler[id: 17; name: NFCORE_MAG:MAG:BINNING_PREPARATION:SHORTREAD_BINNING_PREPARATION:BOWTIE2_ASSEMBLY_ALIGN (SPAdes-SG_R1R2-SG_R1R2); status: RUNNING; exit: -; error: -; workDir: /home/UNN/w20041368/work/79/5451ee5866116a1cba9469f358d9ea] Feb-10 14:16:27.952 [Task monitor] DEBUG n.processor.TaskPollingMonitor - Task completed > TaskHandler[id: 17; name: NFCORE_MAG:MAG:BINNING_PREPARATION:SHORTREAD_BINNING_PREPARATION:BOWTIE2_ASSEMBLY_ALIGN (SPAdes-SG_R1R2-SG_R1R2); status: COMPLETED; exit: 0; error: -; workDir: /home/UNN/w20041368/work/79/5451ee5866116a1cba9469f358d9ea] Feb-10 14:16:27.964 [Actor Thread 190] DEBUG nextflow.conda.CondaCache - conda found local env for environment=/home/UNN/w20041368/.nextflow/assets/nf-core/mag/modules/nf-core/metabat2/jgisummarizebamcontigdepths/environment.yml; path=/home/UNN/w20041368/work/conda/env-5db6e0e6a2dae4260bc15009c1978fcd Feb-10 14:16:27.965 [Actor Thread 190] DEBUG nextflow.conda.CondaCache - conda found local env for environment=/home/UNN/w20041368/.nextflow/assets/nf-core/mag/modules/nf-core/semibin/singleeasybin/environment.yml; path=/home/UNN/w20041368/work/conda/env-1bccc37c0ad7ea7b5f36159a81d7977b Feb-10 14:16:27.969 [Task submitter] DEBUG n.executor.local.LocalTaskHandler - Launch cmd line: /bin/bash -ue .command.run Feb-10 14:16:27.970 [Task submitter] INFO nextflow.Session - [99/a18d3c] Submitted process > NFCORE_MAG:MAG:BINNING:METABAT2_JGISUMMARIZEBAMCONTIGDEPTHS_SHORTREAD (SG_R1R2) Feb-10 14:16:27.972 [Task submitter] DEBUG n.executor.local.LocalTaskHandler - Launch cmd line: /bin/bash -ue .command.run Feb-10 14:16:27.973 [Task submitter] INFO nextflow.Session - [bd/dd0c8c] Submitted process > NFCORE_MAG:MAG:BINNING:METABAT2_JGISUMMARIZEBAMCONTIGDEPTHS_SHORTREAD (SG_R1R2) Feb-10 14:16:27.976 [Task submitter] DEBUG n.executor.local.LocalTaskHandler - Launch cmd line: /bin/bash -ue .command.run Feb-10 14:16:27.976 [Task submitter] INFO nextflow.Session - [57/7c731f] Submitted process > NFCORE_MAG:MAG:BINNING:SEMIBIN_SINGLEEASYBIN (SG_R1R2) Feb-10 14:16:27.979 [Task submitter] DEBUG n.executor.local.LocalTaskHandler - Launch cmd line: /bin/bash -ue .command.run Feb-10 14:16:27.979 [Task submitter] INFO nextflow.Session - [f5/9c8fa3] Submitted process > NFCORE_MAG:MAG:BINNING:SEMIBIN_SINGLEEASYBIN (SG_R1R2) Feb-10 14:16:32.359 [Task monitor] DEBUG n.processor.TaskPollingMonitor - Task completed > TaskHandler[id: 19; name: NFCORE_MAG:MAG:BINNING:METABAT2_JGISUMMARIZEBAMCONTIGDEPTHS_SHORTREAD (SG_R1R2); status: COMPLETED; exit: 0; error: -; workDir: /home/UNN/w20041368/work/99/a18d3c3e260cda6e9dfe96fef3dd9c] Feb-10 14:16:32.367 [Actor Thread 184] DEBUG nextflow.conda.CondaCache - conda found local env for environment=/home/UNN/w20041368/.nextflow/assets/nf-core/mag/modules/local/mag_depths_convert/environment.yml; path=/home/UNN/w20041368/work/conda/env-a35526191b55cce7057b611dcdd90fc4 Feb-10 14:16:32.369 [Actor Thread 184] DEBUG nextflow.conda.CondaCache - conda found local env for environment=/home/UNN/w20041368/.nextflow/assets/nf-core/mag/modules/nf-core/metabat2/metabat2/environment.yml; path=/home/UNN/w20041368/work/conda/env-ff8ce4d21720010caa088ea33f8bec7f Feb-10 14:16:32.373 [Task submitter] DEBUG n.executor.local.LocalTaskHandler - Launch cmd line: /bin/bash -ue .command.run Feb-10 14:16:32.373 [Task submitter] INFO nextflow.Session - [4c/319907] Submitted process > NFCORE_MAG:MAG:BINNING:CONVERT_DEPTHS (SG_R1R2) Feb-10 14:16:32.376 [Task submitter] DEBUG n.executor.local.LocalTaskHandler - Launch cmd line: /bin/bash -ue .command.run Feb-10 14:16:32.376 [Task submitter] INFO nextflow.Session - [ee/56c369] Submitted process > NFCORE_MAG:MAG:BINNING:METABAT2_METABAT2 (SG_R1R2) Feb-10 14:16:33.132 [Task monitor] DEBUG n.processor.TaskPollingMonitor - Task completed > TaskHandler[id: 23; name: NFCORE_MAG:MAG:BINNING:METABAT2_METABAT2 (SG_R1R2); status: COMPLETED; exit: 0; error: -; workDir: /home/UNN/w20041368/work/ee/56c369cac50d58361aa88e92dfa456] Feb-10 14:16:33.137 [TaskFinalizer-9] DEBUG nextflow.processor.TaskProcessor - Process NFCORE_MAG:MAG:BINNING:METABAT2_METABAT2 > Skipping output binding because one or more optional files are missing: fileoutparam<4:1> Feb-10 14:16:33.147 [Task monitor] DEBUG n.processor.TaskPollingMonitor - Task completed > TaskHandler[id: 22; name: NFCORE_MAG:MAG:BINNING:CONVERT_DEPTHS (SG_R1R2); status: COMPLETED; exit: 0; error: -; workDir: /home/UNN/w20041368/work/4c/319907c4d17a9c0a98455c2c534b29] Feb-10 14:16:33.152 [Actor Thread 181] INFO nextflow.conda.CondaCache - Creating env using conda: /home/UNN/w20041368/.nextflow/assets/nf-core/mag/modules/local/split_fasta/environment.yml [cache /home/UNN/w20041368/work/conda/env-151807ef86e92215d8ab92d41b165a76] Feb-10 14:16:33.156 [Actor Thread 190] INFO nextflow.conda.CondaCache - Creating env using conda: /home/UNN/w20041368/.nextflow/assets/nf-core/mag/modules/nf-core/maxbin2/environment.yml [cache /home/UNN/w20041368/work/conda/env-3b5d7b5bc8dff146e0d16e8f96ea2b27] Feb-10 14:16:34.805 [Task monitor] DEBUG n.processor.TaskPollingMonitor - Task completed > TaskHandler[id: 21; name: NFCORE_MAG:MAG:BINNING:METABAT2_JGISUMMARIZEBAMCONTIGDEPTHS_SHORTREAD (SG_R1R2); status: COMPLETED; exit: 0; error: -; workDir: /home/UNN/w20041368/work/bd/dd0c8c10bfe95715f6bb84f7ca318a] Feb-10 14:16:34.817 [Task submitter] DEBUG n.executor.local.LocalTaskHandler - Launch cmd line: /bin/bash -ue .command.run Feb-10 14:16:34.818 [Task submitter] INFO nextflow.Session - [bc/81c579] Submitted process > NFCORE_MAG:MAG:BINNING:CONVERT_DEPTHS (SG_R1R2) Feb-10 14:16:34.820 [Task submitter] DEBUG n.executor.local.LocalTaskHandler - Launch cmd line: /bin/bash -ue .command.run Feb-10 14:16:34.820 [Task submitter] INFO nextflow.Session - [ec/5fa40b] Submitted process > NFCORE_MAG:MAG:BINNING:METABAT2_METABAT2 (SG_R1R2) Feb-10 14:16:35.602 [Task monitor] DEBUG n.processor.TaskPollingMonitor - Task completed > TaskHandler[id: 27; name: NFCORE_MAG:MAG:BINNING:CONVERT_DEPTHS (SG_R1R2); status: COMPLETED; exit: 0; error: -; workDir: /home/UNN/w20041368/work/bc/81c579360f284c0a5f772689e335ea] Feb-10 14:16:35.637 [Task monitor] DEBUG n.processor.TaskPollingMonitor - Task completed > TaskHandler[id: 26; name: NFCORE_MAG:MAG:BINNING:METABAT2_METABAT2 (SG_R1R2); status: COMPLETED; exit: 0; error: -; workDir: /home/UNN/w20041368/work/ec/5fa40b330b225a9bdacfc84a9a5d86] Feb-10 14:16:35.641 [TaskFinalizer-3] DEBUG nextflow.processor.TaskProcessor - Process NFCORE_MAG:MAG:BINNING:METABAT2_METABAT2 > Skipping output binding because one or more optional files are missing: fileoutparam<4:1> Feb-10 14:16:47.083 [Task monitor] DEBUG n.processor.TaskPollingMonitor - Task completed > TaskHandler[id: 18; name: NFCORE_MAG:MAG:BINNING:SEMIBIN_SINGLEEASYBIN (SG_R1R2); status: COMPLETED; exit: 0; error: -; workDir: /home/UNN/w20041368/work/57/7c731f1aae8575509a89dbe9c80106] Feb-10 14:16:47.089 [TaskFinalizer-4] DEBUG nextflow.processor.TaskProcessor - Process NFCORE_MAG:MAG:BINNING:SEMIBIN_SINGLEEASYBIN > Skipping output binding because one or more optional files are missing: fileoutparam<1:1> Feb-10 14:16:47.310 [Task monitor] DEBUG n.processor.TaskPollingMonitor - Task completed > TaskHandler[id: 20; name: NFCORE_MAG:MAG:BINNING:SEMIBIN_SINGLEEASYBIN (SG_R1R2); status: COMPLETED; exit: 0; error: -; workDir: /home/UNN/w20041368/work/f5/9c8fa3ebfad6760d6970ee6f5d5af1] Feb-10 14:16:47.316 [TaskFinalizer-5] DEBUG nextflow.processor.TaskProcessor - Process NFCORE_MAG:MAG:BINNING:SEMIBIN_SINGLEEASYBIN > Skipping output binding because one or more optional files are missing: fileoutparam<1:1> Feb-10 14:16:47.317 [TaskFinalizer-5] DEBUG nextflow.processor.TaskProcessor - Process NFCORE_MAG:MAG:BINNING:SEMIBIN_SINGLEEASYBIN > Skipping output binding because one or more optional files are missing: fileoutparam<4:1> Feb-10 14:17:32.511 [Actor Thread 181] DEBUG nextflow.conda.CondaCache - 'conda' create complete env=/home/UNN/w20041368/.nextflow/assets/nf-core/mag/modules/local/split_fasta/environment.yml path=/home/UNN/w20041368/work/conda/env-151807ef86e92215d8ab92d41b165a76 Feb-10 14:17:32.513 [Actor Thread 179] DEBUG nextflow.util.HashBuilder - Hash asset file sha-256: /home/UNN/w20041368/.nextflow/assets/nf-core/mag/bin/split_fasta.py Feb-10 14:17:32.520 [Task submitter] DEBUG n.executor.local.LocalTaskHandler - Launch cmd line: /bin/bash -ue .command.run Feb-10 14:17:32.521 [Task submitter] INFO nextflow.Session - [62/a77150] Submitted process > NFCORE_MAG:MAG:BINNING:SPLIT_FASTA (SPAdes-MetaBAT2-SG_R1R2) Feb-10 14:17:32.523 [Task submitter] DEBUG n.executor.local.LocalTaskHandler - Launch cmd line: /bin/bash -ue .command.run Feb-10 14:17:32.523 [Task submitter] INFO nextflow.Session - [57/62efc3] Submitted process > NFCORE_MAG:MAG:BINNING:SPLIT_FASTA (MEGAHIT-MetaBAT2-SG_R1R2) Feb-10 14:17:33.799 [Task monitor] DEBUG n.processor.TaskPollingMonitor - Task completed > TaskHandler[id: 29; name: NFCORE_MAG:MAG:BINNING:SPLIT_FASTA (SPAdes-MetaBAT2-SG_R1R2); status: COMPLETED; exit: 0; error: -; workDir: /home/UNN/w20041368/work/62/a771506c623e7bf00c3b1a0d964cd5] Feb-10 14:17:33.802 [TaskFinalizer-6] DEBUG nextflow.processor.TaskProcessor - Process NFCORE_MAG:MAG:BINNING:SPLIT_FASTA > Skipping output binding because one or more optional files are missing: fileoutparam<0:1> Feb-10 14:17:33.911 [Task monitor] DEBUG n.processor.TaskPollingMonitor - Task completed > TaskHandler[id: 24; name: NFCORE_MAG:MAG:BINNING:SPLIT_FASTA (MEGAHIT-MetaBAT2-SG_R1R2); status: COMPLETED; exit: 0; error: -; workDir: /home/UNN/w20041368/work/57/62efc319184e5cba84ddb8c03e729d] Feb-10 14:17:33.913 [TaskFinalizer-7] DEBUG nextflow.processor.TaskProcessor - Process NFCORE_MAG:MAG:BINNING:SPLIT_FASTA > Skipping output binding because one or more optional files are missing: fileoutparam<0:1> Feb-10 14:18:02.775 [Actor Thread 190] DEBUG nextflow.conda.CondaCache - 'conda' create complete env=/home/UNN/w20041368/.nextflow/assets/nf-core/mag/modules/nf-core/maxbin2/environment.yml path=/home/UNN/w20041368/work/conda/env-3b5d7b5bc8dff146e0d16e8f96ea2b27 Feb-10 14:18:02.784 [Task submitter] DEBUG n.executor.local.LocalTaskHandler - Launch cmd line: /bin/bash -ue .command.run Feb-10 14:18:02.784 [Task submitter] INFO nextflow.Session - [8f/560cc9] Submitted process > NFCORE_MAG:MAG:BINNING:MAXBIN2 (SG_R1R2) Feb-10 14:18:02.787 [Task submitter] DEBUG n.executor.local.LocalTaskHandler - Launch cmd line: /bin/bash -ue .command.run Feb-10 14:18:02.787 [Task submitter] INFO nextflow.Session - [d1/98d532] Submitted process > NFCORE_MAG:MAG:BINNING:MAXBIN2 (SG_R1R2) Feb-10 14:18:06.477 [Task monitor] DEBUG n.processor.TaskPollingMonitor - Task completed > TaskHandler[id: 25; name: NFCORE_MAG:MAG:BINNING:MAXBIN2 (SG_R1R2); status: COMPLETED; exit: 0; error: -; workDir: /home/UNN/w20041368/work/8f/560cc9d54a9969a80b74da7f1fb823] Feb-10 14:18:06.484 [TaskFinalizer-8] DEBUG nextflow.processor.TaskProcessor - Process NFCORE_MAG:MAG:BINNING:MAXBIN2 > Skipping output binding because one or more optional files are missing: fileoutparam<2:1> Feb-10 14:18:06.485 [TaskFinalizer-8] DEBUG nextflow.processor.TaskProcessor - Process NFCORE_MAG:MAG:BINNING:MAXBIN2 > Skipping output binding because one or more optional files are missing: fileoutparam<8:1> Feb-10 14:18:06.494 [Task submitter] DEBUG n.executor.local.LocalTaskHandler - Launch cmd line: /bin/bash -ue .command.run Feb-10 14:18:06.494 [Task submitter] INFO nextflow.Session - [fb/8e39fb] Submitted process > NFCORE_MAG:MAG:BINNING:SPLIT_FASTA (MEGAHIT-MaxBin2-SG_R1R2) Feb-10 14:18:06.500 [Task submitter] DEBUG n.executor.local.LocalTaskHandler - Launch cmd line: /bin/bash -ue .command.run Feb-10 14:18:06.500 [Task submitter] INFO nextflow.Session - [b0/352689] Submitted process > NFCORE_MAG:MAG:BINNING:ADJUST_MAXBIN2_EXT (MEGAHIT-SG_R1R2) Feb-10 14:18:06.513 [Task monitor] DEBUG n.processor.TaskPollingMonitor - Task completed > TaskHandler[id: 28; name: NFCORE_MAG:MAG:BINNING:MAXBIN2 (SG_R1R2); status: COMPLETED; exit: 0; error: -; workDir: /home/UNN/w20041368/work/d1/98d5327afbace7ce644f9797f67974] Feb-10 14:18:06.520 [TaskFinalizer-9] DEBUG nextflow.processor.TaskProcessor - Process NFCORE_MAG:MAG:BINNING:MAXBIN2 > Skipping output binding because one or more optional files are missing: fileoutparam<2:1> Feb-10 14:18:06.520 [TaskFinalizer-9] DEBUG nextflow.processor.TaskProcessor - Process NFCORE_MAG:MAG:BINNING:MAXBIN2 > Skipping output binding because one or more optional files are missing: fileoutparam<8:1> Feb-10 14:18:06.526 [Task submitter] DEBUG n.executor.local.LocalTaskHandler - Launch cmd line: /bin/bash -ue .command.run Feb-10 14:18:06.527 [Task submitter] INFO nextflow.Session - [97/9557ab] Submitted process > NFCORE_MAG:MAG:BINNING:ADJUST_MAXBIN2_EXT (SPAdes-SG_R1R2) Feb-10 14:18:06.529 [Task submitter] DEBUG n.executor.local.LocalTaskHandler - Launch cmd line: /bin/bash -ue .command.run Feb-10 14:18:06.530 [Task submitter] INFO nextflow.Session - [6e/24332c] Submitted process > NFCORE_MAG:MAG:BINNING:SPLIT_FASTA (SPAdes-MaxBin2-SG_R1R2) Feb-10 14:18:07.355 [Task monitor] DEBUG n.processor.TaskPollingMonitor - Task completed > TaskHandler[id: 32; name: NFCORE_MAG:MAG:BINNING:ADJUST_MAXBIN2_EXT (SPAdes-SG_R1R2); status: COMPLETED; exit: 0; error: -; workDir: /home/UNN/w20041368/work/97/9557abd227c23c8dc50c7ba8778404] Feb-10 14:18:07.356 [Task monitor] DEBUG n.processor.TaskPollingMonitor - Task completed > TaskHandler[id: 30; name: NFCORE_MAG:MAG:BINNING:ADJUST_MAXBIN2_EXT (MEGAHIT-SG_R1R2); status: COMPLETED; exit: 0; error: -; workDir: /home/UNN/w20041368/work/b0/352689df8206c190a48113bb2c4c1e] Feb-10 14:18:07.363 [Actor Thread 190] INFO nextflow.conda.CondaCache - Creating env using conda: /home/UNN/w20041368/.nextflow/assets/nf-core/mag/modules/nf-core/seqkit/stats/environment.yml [cache /home/UNN/w20041368/work/conda/env-3d528e9269ca03d0ab9096382b8a8b88] Feb-10 14:18:07.718 [Task monitor] DEBUG n.processor.TaskPollingMonitor - Task completed > TaskHandler[id: 31; name: NFCORE_MAG:MAG:BINNING:SPLIT_FASTA (MEGAHIT-MaxBin2-SG_R1R2); status: COMPLETED; exit: 0; error: -; workDir: /home/UNN/w20041368/work/fb/8e39fb556a116cab097f15a17b0370] Feb-10 14:18:07.726 [TaskFinalizer-2] DEBUG nextflow.processor.TaskProcessor - Process NFCORE_MAG:MAG:BINNING:SPLIT_FASTA > Skipping output binding because one or more optional files are missing: fileoutparam<0:1> Feb-10 14:18:07.779 [Task monitor] DEBUG n.processor.TaskPollingMonitor - Task completed > TaskHandler[id: 33; name: NFCORE_MAG:MAG:BINNING:SPLIT_FASTA (SPAdes-MaxBin2-SG_R1R2); status: COMPLETED; exit: 0; error: -; workDir: /home/UNN/w20041368/work/6e/24332c3a9fe7ab8287b8518e875094] Feb-10 14:18:07.783 [TaskFinalizer-3] DEBUG nextflow.processor.TaskProcessor - Process NFCORE_MAG:MAG:BINNING:SPLIT_FASTA > Skipping output binding because one or more optional files are missing: fileoutparam<0:1> Feb-10 14:18:23.561 [Actor Thread 190] DEBUG nextflow.conda.CondaCache - 'conda' create complete env=/home/UNN/w20041368/.nextflow/assets/nf-core/mag/modules/nf-core/seqkit/stats/environment.yml path=/home/UNN/w20041368/work/conda/env-3d528e9269ca03d0ab9096382b8a8b88 Feb-10 14:18:23.569 [Task submitter] DEBUG n.executor.local.LocalTaskHandler - Launch cmd line: /bin/bash -ue .command.run Feb-10 14:18:23.569 [Task submitter] INFO nextflow.Session - [81/1977c0] Submitted process > NFCORE_MAG:MAG:BINNING:SEQKIT_STATS (SG_R1R2) Feb-10 14:18:24.324 [Task monitor] DEBUG n.processor.TaskPollingMonitor - Task completed > TaskHandler[id: 34; name: NFCORE_MAG:MAG:BINNING:SEQKIT_STATS (SG_R1R2); status: COMPLETED; exit: 0; error: -; workDir: /home/UNN/w20041368/work/81/1977c0d2f73303bb0bb6dcdd436985] Feb-10 14:18:24.338 [Task submitter] DEBUG n.executor.local.LocalTaskHandler - Launch cmd line: /bin/bash -ue .command.run Feb-10 14:18:24.339 [Task submitter] INFO nextflow.Session - [ab/1240e5] Submitted process > NFCORE_MAG:MAG:BINNING:GUNZIP_BINS (SPAdes-MaxBin2-SG_R1R2.001.fa.gz) Feb-10 14:18:24.341 [Task submitter] DEBUG n.executor.local.LocalTaskHandler - Launch cmd line: /bin/bash -ue .command.run Feb-10 14:18:24.341 [Task submitter] INFO nextflow.Session - [ce/50de21] Submitted process > NFCORE_MAG:MAG:BINNING:GUNZIP_BINS (MEGAHIT-MaxBin2-SG_R1R2.002.fa.gz) Feb-10 14:18:24.343 [Task submitter] DEBUG n.executor.local.LocalTaskHandler - Launch cmd line: /bin/bash -ue .command.run Feb-10 14:18:24.343 [Task submitter] INFO nextflow.Session - [b4/1df527] Submitted process > NFCORE_MAG:MAG:BINNING:GUNZIP_BINS (MEGAHIT-SemiBin2-SG_R1R2_1.fa.gz) Feb-10 14:18:24.345 [Task submitter] DEBUG n.executor.local.LocalTaskHandler - Launch cmd line: /bin/bash -ue .command.run Feb-10 14:18:24.346 [Task submitter] INFO nextflow.Session - [05/3d6c6e] Submitted process > NFCORE_MAG:MAG:BINNING:GUNZIP_BINS (MEGAHIT-MaxBin2-SG_R1R2.001.fa.gz) Feb-10 14:18:25.099 [Task monitor] DEBUG n.processor.TaskPollingMonitor - Task completed > TaskHandler[id: 37; name: NFCORE_MAG:MAG:BINNING:GUNZIP_BINS (MEGAHIT-MaxBin2-SG_R1R2.001.fa.gz); status: COMPLETED; exit: 0; error: -; workDir: /home/UNN/w20041368/work/05/3d6c6ea700617a3d3d2a23f433d76d] Feb-10 14:18:25.100 [Task monitor] DEBUG n.processor.TaskPollingMonitor - Task completed > TaskHandler[id: 36; name: NFCORE_MAG:MAG:BINNING:GUNZIP_BINS (SPAdes-MaxBin2-SG_R1R2.001.fa.gz); status: COMPLETED; exit: 0; error: -; workDir: /home/UNN/w20041368/work/ab/1240e5c72b7e3ff155e7c86b184fa3] Feb-10 14:18:25.138 [Task monitor] DEBUG n.processor.TaskPollingMonitor - Task completed > TaskHandler[id: 38; name: NFCORE_MAG:MAG:BINNING:GUNZIP_BINS (MEGAHIT-MaxBin2-SG_R1R2.002.fa.gz); status: COMPLETED; exit: 0; error: -; workDir: /home/UNN/w20041368/work/ce/50de21c0a591379a52977dcea8b110] Feb-10 14:18:25.142 [Task monitor] DEBUG n.processor.TaskPollingMonitor - Task completed > TaskHandler[id: 35; name: NFCORE_MAG:MAG:BINNING:GUNZIP_BINS (MEGAHIT-SemiBin2-SG_R1R2_1.fa.gz); status: COMPLETED; exit: 0; error: -; workDir: /home/UNN/w20041368/work/b4/1df5276a7ca417fbbccc73319c45f9] Feb-10 14:18:25.153 [Actor Thread 188] DEBUG nextflow.util.HashBuilder - Hash asset file sha-256: /home/UNN/w20041368/.nextflow/assets/nf-core/mag/bin/get_mag_depths.py Feb-10 14:18:25.160 [Actor Thread 185] INFO nextflow.conda.CondaCache - Creating env using conda: /home/UNN/w20041368/.nextflow/assets/nf-core/mag/modules/nf-core/prokka/environment.yml [cache /home/UNN/w20041368/work/conda/env-032f4f71e2f3f76834e40cf9b2ecf6e2] Feb-10 14:18:25.162 [Actor Thread 175] INFO nextflow.conda.CondaCache - Creating env using conda: /home/UNN/w20041368/.nextflow/assets/nf-core/mag/modules/nf-core/busco/busco/environment.yml [cache /home/UNN/w20041368/work/conda/env-75d34e3e884060e92b365c2f3c0fdfe6] Feb-10 14:18:25.163 [Task submitter] DEBUG n.executor.local.LocalTaskHandler - Launch cmd line: /bin/bash -ue .command.run Feb-10 14:18:25.163 [Task submitter] INFO nextflow.Session - [26/34401f] Submitted process > NFCORE_MAG:MAG:QUAST_BINS (MEGAHIT-SemiBin2-unclassified-unrefined-SG_R1R2) Feb-10 14:18:25.166 [Task submitter] DEBUG n.executor.local.LocalTaskHandler - Launch cmd line: /bin/bash -ue .command.run Feb-10 14:18:25.166 [Task submitter] INFO nextflow.Session - [4f/294f08] Submitted process > NFCORE_MAG:MAG:DEPTHS:MAG_DEPTHS (SPAdes-MaxBin2-SG_R1R2) Feb-10 14:18:25.169 [Task submitter] DEBUG n.executor.local.LocalTaskHandler - Launch cmd line: /bin/bash -ue .command.run Feb-10 14:18:25.169 [Task submitter] INFO nextflow.Session - [8f/2e5b9c] Submitted process > NFCORE_MAG:MAG:QUAST_BINS (SPAdes-MaxBin2-unclassified-unrefined-SG_R1R2) Feb-10 14:18:25.171 [Task submitter] DEBUG n.executor.local.LocalTaskHandler - Launch cmd line: /bin/bash -ue .command.run Feb-10 14:18:25.172 [Task submitter] INFO nextflow.Session - [51/e074ff] Submitted process > NFCORE_MAG:MAG:DEPTHS:MAG_DEPTHS (MEGAHIT-SemiBin2-SG_R1R2) Feb-10 14:18:25.175 [Task submitter] DEBUG n.executor.local.LocalTaskHandler - Launch cmd line: /bin/bash -ue .command.run Feb-10 14:18:25.175 [Task submitter] INFO nextflow.Session - [01/e7948e] Submitted process > NFCORE_MAG:MAG:DEPTHS:MAG_DEPTHS (MEGAHIT-MaxBin2-SG_R1R2) Feb-10 14:18:25.177 [Task submitter] DEBUG n.executor.local.LocalTaskHandler - Launch cmd line: /bin/bash -ue .command.run Feb-10 14:18:25.178 [Task submitter] INFO nextflow.Session - [d7/858514] Submitted process > NFCORE_MAG:MAG:QUAST_BINS (MEGAHIT-MaxBin2-unclassified-unrefined-SG_R1R2) Feb-10 14:18:26.154 [Task monitor] DEBUG n.processor.TaskPollingMonitor - Task completed > TaskHandler[id: 50; name: NFCORE_MAG:MAG:DEPTHS:MAG_DEPTHS (MEGAHIT-SemiBin2-SG_R1R2); status: COMPLETED; exit: 0; error: -; workDir: /home/UNN/w20041368/work/51/e074ffcb0c006c69ca655e145ce6ff] Feb-10 14:18:26.196 [Task monitor] DEBUG n.processor.TaskPollingMonitor - Task completed > TaskHandler[id: 49; name: NFCORE_MAG:MAG:DEPTHS:MAG_DEPTHS (MEGAHIT-MaxBin2-SG_R1R2); status: COMPLETED; exit: 0; error: -; workDir: /home/UNN/w20041368/work/01/e7948e0e5c16e802a1419e186e72ee] Feb-10 14:18:26.259 [Task monitor] DEBUG n.processor.TaskPollingMonitor - Task completed > TaskHandler[id: 51; name: NFCORE_MAG:MAG:DEPTHS:MAG_DEPTHS (SPAdes-MaxBin2-SG_R1R2); status: COMPLETED; exit: 0; error: -; workDir: /home/UNN/w20041368/work/4f/294f0865801d88d0fa16c926c09de2] Feb-10 14:18:26.262 [Actor Thread 192] DEBUG nextflow.sort.BigSort - Sort completed -- entries: 3; slices: 1; internal sort time: 0.002 s; external sort time: 0.0 s; total time: 0.002 s Feb-10 14:18:26.264 [Actor Thread 192] DEBUG nextflow.file.FileCollector - Saved collect-files list to: /home/UNN/w20041368/work/collect-file/46d2934abc53bb4bfc9e6b2e9041cedb Feb-10 14:18:26.265 [Actor Thread 192] DEBUG nextflow.file.FileCollector - Deleting file collector temp dir: /tmp/nxf-11840929263874289639 Feb-10 14:18:26.268 [Actor Thread 177] INFO nextflow.conda.CondaCache - Creating env using conda: /home/UNN/w20041368/.nextflow/assets/nf-core/mag/modules/local/mag_depths_summary/environment.yml [cache /home/UNN/w20041368/work/conda/env-6ea2ecce7a80aa80046298e74615caf8] Feb-10 14:18:27.799 [Task monitor] DEBUG n.processor.TaskPollingMonitor - Task completed > TaskHandler[id: 48; name: NFCORE_MAG:MAG:QUAST_BINS (MEGAHIT-SemiBin2-unclassified-unrefined-SG_R1R2); status: COMPLETED; exit: 0; error: -; workDir: /home/UNN/w20041368/work/26/34401f21a88272a8619394dc07a158] Feb-10 14:18:28.274 [Task monitor] DEBUG n.processor.TaskPollingMonitor - Task completed > TaskHandler[id: 47; name: NFCORE_MAG:MAG:QUAST_BINS (SPAdes-MaxBin2-unclassified-unrefined-SG_R1R2); status: COMPLETED; exit: 0; error: -; workDir: /home/UNN/w20041368/work/8f/2e5b9c8d833fab2bcc430c485f850d] Feb-10 14:18:29.727 [Task monitor] DEBUG n.processor.TaskPollingMonitor - Task completed > TaskHandler[id: 45; name: NFCORE_MAG:MAG:QUAST_BINS (MEGAHIT-MaxBin2-unclassified-unrefined-SG_R1R2); status: COMPLETED; exit: 0; error: -; workDir: /home/UNN/w20041368/work/d7/858514fddadb7eb119690671db83b7] Feb-10 14:18:29.734 [Actor Thread 187] DEBUG nextflow.sort.BigSort - Sort completed -- entries: 3; slices: 1; internal sort time: 0.001 s; external sort time: 0.0 s; total time: 0.001 s Feb-10 14:18:29.736 [Actor Thread 187] DEBUG nextflow.file.FileCollector - Saved collect-files list to: /home/UNN/w20041368/work/collect-file/35fc8a8a9b11551d6bab12c79425491a Feb-10 14:18:29.737 [Actor Thread 187] DEBUG nextflow.file.FileCollector - Deleting file collector temp dir: /tmp/nxf-7588971316729607982 Feb-10 14:18:29.745 [Task submitter] DEBUG n.executor.local.LocalTaskHandler - Launch cmd line: /bin/bash -ue .command.run Feb-10 14:18:29.745 [Task submitter] INFO nextflow.Session - [04/dd4f7a] Submitted process > NFCORE_MAG:MAG:QUAST_BINS_SUMMARY Feb-10 14:18:30.481 [Task monitor] DEBUG n.processor.TaskPollingMonitor - Task completed > TaskHandler[id: 53; name: NFCORE_MAG:MAG:QUAST_BINS_SUMMARY; status: COMPLETED; exit: 0; error: -; workDir: /home/UNN/w20041368/work/04/dd4f7ada28c4a8e8fec0517bff5cf0] Feb-10 14:19:41.564 [Actor Thread 185] DEBUG nextflow.conda.CondaCache - 'conda' create complete env=/home/UNN/w20041368/.nextflow/assets/nf-core/mag/modules/nf-core/prokka/environment.yml path=/home/UNN/w20041368/work/conda/env-032f4f71e2f3f76834e40cf9b2ecf6e2 Feb-10 14:19:41.573 [Task submitter] DEBUG n.executor.local.LocalTaskHandler - Launch cmd line: /bin/bash -ue .command.run Feb-10 14:19:41.574 [Task submitter] INFO nextflow.Session - [5e/c25bca] Submitted process > NFCORE_MAG:MAG:PROKKA (MEGAHIT-SemiBin2-SG_R1R2_1) Feb-10 14:19:41.577 [Task submitter] DEBUG n.executor.local.LocalTaskHandler - Launch cmd line: /bin/bash -ue .command.run Feb-10 14:19:41.577 [Task submitter] INFO nextflow.Session - [04/acc0f3] Submitted process > NFCORE_MAG:MAG:PROKKA (SPAdes-MaxBin2-SG_R1R2.001) Feb-10 14:19:41.582 [Task submitter] DEBUG n.executor.local.LocalTaskHandler - Launch cmd line: /bin/bash -ue .command.run Feb-10 14:19:41.582 [Task submitter] INFO nextflow.Session - [f7/453379] Submitted process > NFCORE_MAG:MAG:PROKKA (MEGAHIT-MaxBin2-SG_R1R2.002) Feb-10 14:19:41.586 [Task submitter] DEBUG n.executor.local.LocalTaskHandler - Launch cmd line: /bin/bash -ue .command.run Feb-10 14:19:41.586 [Task submitter] INFO nextflow.Session - [ef/b3ddaf] Submitted process > NFCORE_MAG:MAG:PROKKA (MEGAHIT-MaxBin2-SG_R1R2.001) Feb-10 14:19:51.335 [Task monitor] DEBUG n.processor.TaskPollingMonitor - Task completed > TaskHandler[id: 46; name: NFCORE_MAG:MAG:PROKKA (MEGAHIT-SemiBin2-SG_R1R2_1); status: COMPLETED; exit: 0; error: -; workDir: /home/UNN/w20041368/work/5e/c25bca03d67b53018bd237a13db9e0] Feb-10 14:19:51.893 [Task monitor] DEBUG n.processor.TaskPollingMonitor - Task completed > TaskHandler[id: 42; name: NFCORE_MAG:MAG:PROKKA (MEGAHIT-MaxBin2-SG_R1R2.001); status: COMPLETED; exit: 0; error: -; workDir: /home/UNN/w20041368/work/ef/b3ddafea8191a9addf3d2f1556399a] Feb-10 14:19:59.561 [Task monitor] DEBUG n.processor.TaskPollingMonitor - Task completed > TaskHandler[id: 44; name: NFCORE_MAG:MAG:PROKKA (SPAdes-MaxBin2-SG_R1R2.001); status: COMPLETED; exit: 0; error: -; workDir: /home/UNN/w20041368/work/04/acc0f32603f79a4890f2a53d9e92c0] Feb-10 14:20:01.540 [Task monitor] DEBUG n.processor.TaskPollingMonitor - Task completed > TaskHandler[id: 43; name: NFCORE_MAG:MAG:PROKKA (MEGAHIT-MaxBin2-SG_R1R2.002); status: COMPLETED; exit: 0; error: -; workDir: /home/UNN/w20041368/work/f7/45337976a1693a38bd4dc178acb3eb] Feb-10 14:20:05.074 [Task monitor] DEBUG n.processor.TaskPollingMonitor - !! executor local > No more task to compute -- The following nodes are still active: [process] NFCORE_MAG:MAG:DEPTHS:MAG_DEPTHS_SUMMARY status=ACTIVE port 0: (value) bound ; channel: mag_depths port 1: (cntrl) - ; channel: $ [process] NFCORE_MAG:MAG:BIN_QC:BUSCO_BUSCO status=ACTIVE port 0: (queue) closed; channel: - port 1: (value) bound ; channel: mode port 2: (value) bound ; channel: lineage port 3: (value) bound ; channel: busco_lineages_path port 4: (value) bound ; channel: config_file port 5: (value) bound ; channel: clean_intermediates port 6: (cntrl) - ; channel: $ [process] NFCORE_MAG:MAG:BIN_QC:CONCAT_BUSCO_TSV status=ACTIVE port 0: (queue) OPEN ; channel: - port 1: (value) bound ; channel: mode port 2: (value) bound ; channel: out_format port 3: (value) bound ; channel: skip_input_format_check port 4: (cntrl) - ; channel: $ [process] NFCORE_MAG:MAG:GTDBTK:GTDBTK_CLASSIFYWF status=ACTIVE port 0: (queue) OPEN ; channel: - port 1: (value) bound ; channel: - port 2: (value) bound ; channel: use_pplacer_scratch_dir port 3: (cntrl) - ; channel: $ [process] NFCORE_MAG:MAG:GTDBTK:GTDBTK_SUMMARY status=ACTIVE port 0: (value) OPEN ; channel: qc_discarded_bins port 1: (value) OPEN ; channel: gtdbtk_summaries port 2: (value) bound ; channel: filtered_bins port 3: (value) bound ; channel: failed_bins port 4: (cntrl) - ; channel: $ [process] NFCORE_MAG:MAG:BIN_SUMMARY status=ACTIVE port 0: (value) OPEN ; channel: bin_depths port 1: (value) bound ; channel: quast_sum port 2: (value) OPEN ; channel: gtdbtk_sum port 3: (queue) OPEN ; channel: cat_sum port 4: (queue) OPEN ; channel: busco_sum port 5: (queue) OPEN ; channel: checkm_sum port 6: (queue) OPEN ; channel: checkm2_sum port 7: (cntrl) - ; channel: $ [process] NFCORE_MAG:MAG:MULTIQC status=ACTIVE port 0: (value) OPEN ; channel: multiqc_files port 1: (value) bound ; channel: multiqc_config port 2: (value) bound ; channel: extra_multiqc_config port 3: (value) bound ; channel: multiqc_logo port 4: (value) bound ; channel: replace_names port 5: (value) bound ; channel: sample_names port 6: (cntrl) - ; channel: $ Feb-10 14:20:13.956 [Actor Thread 177] DEBUG nextflow.conda.CondaCache - 'conda' create complete env=/home/UNN/w20041368/.nextflow/assets/nf-core/mag/modules/local/mag_depths_summary/environment.yml path=/home/UNN/w20041368/work/conda/env-6ea2ecce7a80aa80046298e74615caf8 Feb-10 14:20:13.957 [Actor Thread 189] DEBUG nextflow.util.HashBuilder - Hash asset file sha-256: /home/UNN/w20041368/.nextflow/assets/nf-core/mag/bin/get_mag_depths_summary.py Feb-10 14:20:13.964 [Task submitter] DEBUG n.executor.local.LocalTaskHandler - Launch cmd line: /bin/bash -ue .command.run Feb-10 14:20:13.964 [Task submitter] INFO nextflow.Session - [d8/1f0c9b] Submitted process > NFCORE_MAG:MAG:DEPTHS:MAG_DEPTHS_SUMMARY Feb-10 14:20:14.912 [Task monitor] DEBUG n.processor.TaskPollingMonitor - Task completed > TaskHandler[id: 52; name: NFCORE_MAG:MAG:DEPTHS:MAG_DEPTHS_SUMMARY; status: COMPLETED; exit: 0; error: -; workDir: /home/UNN/w20041368/work/d8/1f0c9b6f06d68ebb722dfad610af3b] Feb-10 14:21:09.178 [Actor Thread 175] DEBUG nextflow.conda.CondaCache - 'conda' create complete env=/home/UNN/w20041368/.nextflow/assets/nf-core/mag/modules/nf-core/busco/busco/environment.yml path=/home/UNN/w20041368/work/conda/env-75d34e3e884060e92b365c2f3c0fdfe6 Feb-10 14:21:09.186 [Task submitter] DEBUG n.executor.local.LocalTaskHandler - Launch cmd line: /bin/bash -ue .command.run Feb-10 14:21:09.186 [Task submitter] INFO nextflow.Session - [a6/f1adc1] Submitted process > NFCORE_MAG:MAG:BIN_QC:BUSCO_BUSCO (MEGAHIT-MaxBin2-SG_R1R2) Feb-10 14:21:09.188 [Task submitter] DEBUG n.executor.local.LocalTaskHandler - Launch cmd line: /bin/bash -ue .command.run Feb-10 14:21:09.189 [Task submitter] INFO nextflow.Session - [06/b5e24e] Submitted process > NFCORE_MAG:MAG:BIN_QC:BUSCO_BUSCO (MEGAHIT-SemiBin2-SG_R1R2) Feb-10 14:21:09.191 [Task submitter] DEBUG n.executor.local.LocalTaskHandler - Launch cmd line: /bin/bash -ue .command.run Feb-10 14:21:09.191 [Task submitter] INFO nextflow.Session - [d3/e51723] Submitted process > NFCORE_MAG:MAG:BIN_QC:BUSCO_BUSCO (SPAdes-MaxBin2-SG_R1R2) Feb-10 14:22:23.036 [Task monitor] DEBUG n.processor.TaskPollingMonitor - Task completed > TaskHandler[id: 39; name: NFCORE_MAG:MAG:BIN_QC:BUSCO_BUSCO (MEGAHIT-MaxBin2-SG_R1R2); status: COMPLETED; exit: 1; error: -; workDir: /home/UNN/w20041368/work/a6/f1adc1aeebc19caec3ffa3752ad146] Feb-10 14:22:23.039 [TaskFinalizer-1] DEBUG nextflow.processor.TaskProcessor - Handling unexpected condition for task: name=NFCORE_MAG:MAG:BIN_QC:BUSCO_BUSCO (MEGAHIT-MaxBin2-SG_R1R2); work-dir=/home/UNN/w20041368/work/a6/f1adc1aeebc19caec3ffa3752ad146 error [nextflow.exception.ProcessFailedException]: Process `NFCORE_MAG:MAG:BIN_QC:BUSCO_BUSCO (MEGAHIT-MaxBin2-SG_R1R2)` terminated with an error exit status (1) Feb-10 14:22:23.044 [TaskFinalizer-1] INFO nextflow.processor.TaskProcessor - [a6/f1adc1] NOTE: Process `NFCORE_MAG:MAG:BIN_QC:BUSCO_BUSCO (MEGAHIT-MaxBin2-SG_R1R2)` terminated with an error exit status (1) -- Error is ignored Feb-10 14:22:26.410 [Task monitor] DEBUG n.processor.TaskPollingMonitor - Task completed > TaskHandler[id: 40; name: NFCORE_MAG:MAG:BIN_QC:BUSCO_BUSCO (SPAdes-MaxBin2-SG_R1R2); status: COMPLETED; exit: 1; error: -; workDir: /home/UNN/w20041368/work/d3/e51723e8bf130ce972c3d5de06848a] Feb-10 14:22:26.413 [TaskFinalizer-2] DEBUG nextflow.processor.TaskProcessor - Handling unexpected condition for task: name=NFCORE_MAG:MAG:BIN_QC:BUSCO_BUSCO (SPAdes-MaxBin2-SG_R1R2); work-dir=/home/UNN/w20041368/work/d3/e51723e8bf130ce972c3d5de06848a error [nextflow.exception.ProcessFailedException]: Process `NFCORE_MAG:MAG:BIN_QC:BUSCO_BUSCO (SPAdes-MaxBin2-SG_R1R2)` terminated with an error exit status (1) Feb-10 14:22:26.413 [TaskFinalizer-2] INFO nextflow.processor.TaskProcessor - [d3/e51723] NOTE: Process `NFCORE_MAG:MAG:BIN_QC:BUSCO_BUSCO (SPAdes-MaxBin2-SG_R1R2)` terminated with an error exit status (1) -- Error is ignored Feb-10 14:23:13.453 [Task monitor] DEBUG n.processor.TaskPollingMonitor - Task completed > TaskHandler[id: 41; name: NFCORE_MAG:MAG:BIN_QC:BUSCO_BUSCO (MEGAHIT-SemiBin2-SG_R1R2); status: COMPLETED; exit: 1; error: -; workDir: /home/UNN/w20041368/work/06/b5e24e542ed6330077a4cd1e3aef42] Feb-10 14:23:13.456 [TaskFinalizer-3] DEBUG nextflow.processor.TaskProcessor - Handling unexpected condition for task: name=NFCORE_MAG:MAG:BIN_QC:BUSCO_BUSCO (MEGAHIT-SemiBin2-SG_R1R2); work-dir=/home/UNN/w20041368/work/06/b5e24e542ed6330077a4cd1e3aef42 error [nextflow.exception.ProcessFailedException]: Process `NFCORE_MAG:MAG:BIN_QC:BUSCO_BUSCO (MEGAHIT-SemiBin2-SG_R1R2)` terminated with an error exit status (1) Feb-10 14:23:13.457 [TaskFinalizer-3] INFO nextflow.processor.TaskProcessor - [06/b5e24e] NOTE: Process `NFCORE_MAG:MAG:BIN_QC:BUSCO_BUSCO (MEGAHIT-SemiBin2-SG_R1R2)` terminated with an error exit status (1) -- Error is ignored Feb-10 14:23:13.469 [Actor Thread 181] DEBUG nextflow.util.HashBuilder - Hash asset file sha-256: /home/UNN/w20041368/.nextflow/assets/nf-core/mag/bin/summary_gtdbtk.py Feb-10 14:23:13.475 [Task submitter] DEBUG n.executor.local.LocalTaskHandler - Launch cmd line: /bin/bash -ue .command.run Feb-10 14:23:13.475 [Task submitter] INFO nextflow.Session - [c1/d2a7dc] Submitted process > NFCORE_MAG:MAG:GTDBTK:GTDBTK_SUMMARY Feb-10 14:23:14.440 [Task monitor] DEBUG n.processor.TaskPollingMonitor - Task completed > TaskHandler[id: 54; name: NFCORE_MAG:MAG:GTDBTK:GTDBTK_SUMMARY; status: COMPLETED; exit: 1; error: -; workDir: /home/UNN/w20041368/work/c1/d2a7dc1cab7a87b50aa4ff750b20c7] Feb-10 14:23:14.442 [TaskFinalizer-4] DEBUG nextflow.processor.TaskProcessor - Handling unexpected condition for task: name=NFCORE_MAG:MAG:GTDBTK:GTDBTK_SUMMARY; work-dir=/home/UNN/w20041368/work/c1/d2a7dc1cab7a87b50aa4ff750b20c7 error [nextflow.exception.ProcessFailedException]: Process `NFCORE_MAG:MAG:GTDBTK:GTDBTK_SUMMARY` terminated with an error exit status (1) Feb-10 14:23:14.453 [TaskFinalizer-4] ERROR nextflow.processor.TaskProcessor - Error executing process > 'NFCORE_MAG:MAG:GTDBTK:GTDBTK_SUMMARY' Caused by: Process `NFCORE_MAG:MAG:GTDBTK:GTDBTK_SUMMARY` terminated with an error exit status (1) Command executed: summary_gtdbtk.py --extension fa --out gtdbtk_summary.tsv cat <<-END_VERSIONS > versions.yml "NFCORE_MAG:MAG:GTDBTK:GTDBTK_SUMMARY": python: $(python --version 2>&1 | sed 's/Python //g') pandas: $(python -c "import pkg_resources; print(pkg_resources.get_distribution('pandas').version)") END_VERSIONS Command exit status: 1 Command output: (empty) Command error: Either --summaries, --filtered_bins, --failed_bins or --qc_discarded_bins must be specified! Work dir: /home/UNN/w20041368/work/c1/d2a7dc1cab7a87b50aa4ff750b20c7 Tip: view the complete command output by changing to the process work dir and entering the command `cat .command.out` Feb-10 14:23:14.456 [TaskFinalizer-4] INFO nextflow.Session - Execution cancelled -- Finishing pending tasks before exit Feb-10 14:23:14.460 [TaskFinalizer-4] ERROR nextflow.Nextflow - Pipeline failed. Please refer to troubleshooting docs: https://nf-co.re/docs/usage/troubleshooting Feb-10 14:23:14.461 [Task monitor] DEBUG n.processor.TaskPollingMonitor - <<< barrier arrives (monitor: local) - terminating tasks monitor poll loop Feb-10 14:23:14.461 [Actor Thread 175] DEBUG nextflow.util.HashBuilder - Hash asset file sha-256: /home/UNN/w20041368/.nextflow/assets/nf-core/mag/bin/combine_tables.py Feb-10 14:23:14.463 [main] DEBUG nextflow.Session - Session await > all processes finished Feb-10 14:23:14.463 [main] DEBUG nextflow.Session - Session await > all barriers passed Feb-10 14:23:14.467 [Actor Thread 181] DEBUG nextflow.processor.TaskProcessor - Handling unexpected condition for task: name=NFCORE_MAG:MAG:BIN_SUMMARY; work-dir=null error [java.lang.InterruptedException]: java.lang.InterruptedException Feb-10 14:23:14.478 [Actor Thread 180] DEBUG nextflow.sort.BigSort - Sort completed -- entries: 27; slices: 1; internal sort time: 0.009 s; external sort time: 0.003 s; total time: 0.012 s Feb-10 14:23:14.480 [Actor Thread 180] DEBUG nextflow.file.FileCollector - Saved collect-files list to: /home/UNN/w20041368/work/collect-file/05aa69498d7e42c9a6aba3d97f171de6 Feb-10 14:23:14.481 [Actor Thread 180] DEBUG nextflow.file.FileCollector - Deleting file collector temp dir: /tmp/nxf-14876591878145229117 Feb-10 14:23:14.484 [main] DEBUG nextflow.util.ThreadPoolManager - Thread pool 'TaskFinalizer' shutdown completed (hard=false) Feb-10 14:23:14.484 [main] DEBUG nextflow.util.ThreadPoolManager - Thread pool 'PublishDir' shutdown completed (hard=false) Feb-10 14:23:14.488 [main] INFO nextflow.Nextflow - -[nf-core/mag] Pipeline completed with errors- Feb-10 14:23:14.493 [main] DEBUG n.trace.WorkflowStatsObserver - Workflow completed > WorkflowStats[succeededCount=50; failedCount=4; ignoredCount=3; cachedCount=0; pendingCount=1; submittedCount=0; runningCount=0; retriesCount=0; abortedCount=0; succeedDuration=3d 12h 43m 32s; failedDuration=45m 52s; cachedDuration=0ms;loadCpus=0; loadMemory=0; peakRunning=6; peakCpus=110; peakMemory=1.5 TB; ] Feb-10 14:23:14.721 [main] DEBUG nextflow.trace.ReportObserver - Workflow completed -- rendering execution report Feb-10 14:23:15.112 [main] DEBUG nextflow.trace.TimelineObserver - Workflow completed -- rendering execution timeline Feb-10 14:23:15.157 [main] DEBUG nextflow.trace.TraceFileObserver - Workflow completed -- saving trace file Feb-10 14:23:15.161 [main] DEBUG nextflow.cache.CacheDB - Closing CacheDB done Feb-10 14:23:15.185 [main] INFO org.pf4j.AbstractPluginManager - Stop plugin 'nf-schema@2.5.1' Feb-10 14:23:15.186 [main] DEBUG nextflow.plugin.BasePlugin - Plugin stopped nf-schema Feb-10 14:23:15.186 [main] DEBUG nextflow.util.ThreadPoolManager - Thread pool 'FileTransfer' shutdown completed (hard=false) Feb-10 14:23:15.187 [main] DEBUG nextflow.script.ScriptRunner - > Execution complete -- Goodbye