Mar-15 01:07:45.645 [main] DEBUG nextflow.cli.Launcher - $> nextflow run nf-core/riboseq -profile docker --input Sample_sheet.csv --outdir Riboseq_out --genome mm10 --trimmer fastp --star_index false Mar-15 01:07:45.825 [main] DEBUG nextflow.cli.CmdRun - N E X T F L O W ~ version 24.10.0 Mar-15 01:07:45.903 [main] DEBUG nextflow.plugin.PluginsFacade - Setting up plugin manager > mode=prod; embedded=false; plugins-dir=/root/.nextflow/plugins; core-plugins: nf-amazon@2.9.0,nf-azure@1.10.1,nf-cloudcache@0.4.2,nf-codecommit@0.2.2,nf-console@1.1.4,nf-google@1.15.2,nf-tower@1.9.3,nf-wave@1.7.2 Mar-15 01:07:45.974 [main] INFO o.pf4j.DefaultPluginStatusProvider - Enabled plugins: [] Mar-15 01:07:45.977 [main] INFO o.pf4j.DefaultPluginStatusProvider - Disabled plugins: [] Mar-15 01:07:45.988 [main] INFO org.pf4j.DefaultPluginManager - PF4J version 3.12.0 in 'deployment' mode Mar-15 01:07:46.037 [main] INFO org.pf4j.AbstractPluginManager - No plugins Mar-15 01:07:46.064 [main] DEBUG nextflow.scm.ProviderConfig - Using SCM config path: /root/.nextflow/scm Mar-15 01:07:47.820 [main] DEBUG nextflow.scm.AssetManager - Git config: /root/.nextflow/assets/nf-core/riboseq/.git/config; branch: null; remote: origin; url: https://github.com/nf-core/riboseq.git Mar-15 01:07:47.882 [main] DEBUG nextflow.scm.RepositoryFactory - Found Git repository result: [RepositoryFactory] Mar-15 01:07:47.901 [main] DEBUG nextflow.scm.AssetManager - Git config: /root/.nextflow/assets/nf-core/riboseq/.git/config; branch: null; remote: origin; url: https://github.com/nf-core/riboseq.git Mar-15 01:07:49.250 [main] INFO nextflow.scm.AssetManager - NOTE: Your local project version looks outdated - a different revision is available in the remote repository [235e008eda] Mar-15 01:07:49.270 [main] DEBUG nextflow.config.ConfigBuilder - Found config base: /root/.nextflow/assets/nf-core/riboseq/nextflow.config Mar-15 01:07:49.273 [main] DEBUG nextflow.config.ConfigBuilder - Parsing config file: /root/.nextflow/assets/nf-core/riboseq/nextflow.config Mar-15 01:07:49.289 [main] DEBUG n.secret.LocalSecretsProvider - Secrets store: /root/.nextflow/secrets/store.json Mar-15 01:07:49.293 [main] DEBUG nextflow.secret.SecretsLoader - Discovered secrets providers: [nextflow.secret.LocalSecretsProvider@5ef85555] - activable => nextflow.secret.LocalSecretsProvider@5ef85555 Mar-15 01:07:49.332 [main] DEBUG nextflow.config.ConfigBuilder - Applying config profile: `docker` Mar-15 01:07:52.729 [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, ccga_med, tes, scw, unc_longleaf, tigem, tubingen_apg, google, apollo, ipop_up, vsc_calcua, pdc_kth, googlels, ceci_nic5, humantechnopole, stjude, daisybio, eddie, medair, biowulf, apptainer, bi, bigpurple, adcra, cedars, pawsey_setonix, vsc_kul_uhasselt, pawsey_nimbus, ucl_myriad, utd_ganymede, charliecloud, seattlechildrens, icr_davros, ceres, munin, arm, rosalind, hasta, cfc, uzh, shu_bmrc, ebi_codon_slurm, ebc, ccga_dx, crick, ku_sund_danhead, marvin, biohpc_gen, shifter, mana, mamba, york_viking, unc_lccc, wehi, awsbatch, wustl_htcf, arcc, ceci_dragon2, imperial, maestro, software_license, genotoul, nci_gadi, abims, janelia, nu_genomics, googlebatch, oist, sahmri, kaust, mpcdf, leicester, vsc_ugent, create, sage, cambridge, jex, podman, ebi_codon, cheaha, xanadu, nyu_hpc, test, marjorie, computerome, ucd_sonic, seg_globe, sanger, dkfz, bluebear, pasteur, einstein, ethz_euler, m3c, test_full, imb, ucl_cscluster, tuos_stanage, azurebatch, hki, seadragon, crukmi, csiro_petrichor, qmul_apocrita, docker, engaging, gis, hypatia, psmn, eva, unity, nygc, fgcz, conda, crg, singularity, mpcdf_viper, pe2, self_hosted_runner, tufts, uw_hyak_pedslabs, debug, genouest, cbe, unsw_katana, phoenix, gitpod, seawulf, uod_hpc, fub_curta, uct_hpc, aws_tower, binac] Mar-15 01:07:52.852 [main] DEBUG nextflow.cli.CmdRun - Applied DSL=2 from script declaration Mar-15 01:07:52.854 [main] DEBUG nextflow.cli.CmdRun - Launching `https://github.com/nf-core/riboseq` [sleepy_leibniz] DSL2 - revision: 3d3e57978c [master] Mar-15 01:07:52.857 [main] DEBUG nextflow.plugin.PluginsFacade - Plugins declared=[nf-validation@1.1.3] Mar-15 01:07:52.858 [main] DEBUG nextflow.plugin.PluginsFacade - Plugins default=[] Mar-15 01:07:52.859 [main] DEBUG nextflow.plugin.PluginsFacade - Plugins resolved requirement=[nf-validation@1.1.3] Mar-15 01:07:52.859 [main] DEBUG nextflow.plugin.PluginUpdater - Installing plugin nf-validation version: 1.1.3 Mar-15 01:07:52.872 [main] INFO org.pf4j.AbstractPluginManager - Plugin 'nf-validation@1.1.3' resolved Mar-15 01:07:52.872 [main] INFO org.pf4j.AbstractPluginManager - Start plugin 'nf-validation@1.1.3' Mar-15 01:07:52.891 [main] DEBUG nextflow.plugin.BasePlugin - Plugin started nf-validation@1.1.3 Mar-15 01:07:52.972 [main] DEBUG nextflow.Session - Session UUID: 0e9e3fd0-3140-4f52-87bf-78f6c344dbdd Mar-15 01:07:52.973 [main] DEBUG nextflow.Session - Run name: sleepy_leibniz Mar-15 01:07:52.974 [main] DEBUG nextflow.Session - Executor pool size: 32 Mar-15 01:07:52.986 [main] DEBUG nextflow.file.FilePorter - File porter settings maxRetries=3; maxTransfers=50; pollTimeout=null Mar-15 01:07:52.994 [main] DEBUG nextflow.util.ThreadPoolBuilder - Creating thread pool 'FileTransfer' minSize=10; maxSize=96; workQueue=LinkedBlockingQueue[10000]; allowCoreThreadTimeout=false Mar-15 01:07:53.090 [main] DEBUG nextflow.cli.CmdRun - Version: 24.10.0 build 5928 Created: 27-10-2024 18:36 UTC (28-10-2024 00:06 IDT) System: Linux 6.8.0-50-generic Runtime: Groovy 4.0.23 on OpenJDK 64-Bit Server VM 19.0.2+7-Ubuntu-0ubuntu322.04 Encoding: UTF-8 (UTF-8) Process: 2758336@manoj-PowerEdge-T620 [127.0.1.1] CPUs: 32 - Mem: 503.8 GB (34.3 GB) - Swap: 128 GB (50.5 GB) Mar-15 01:07:53.115 [main] DEBUG nextflow.Session - Work-dir: /media/manoj/Data/Manoj/Riboseq/work [ext2/ext3] Mar-15 01:07:53.179 [main] DEBUG nextflow.executor.ExecutorFactory - Extension executors providers=[] Mar-15 01:07:53.194 [main] DEBUG nextflow.Session - Observer factory: DefaultObserverFactory Mar-15 01:07:53.284 [main] DEBUG nextflow.cache.CacheFactory - Using Nextflow cache factory: nextflow.cache.DefaultCacheFactory Mar-15 01:07:53.301 [main] DEBUG nextflow.util.CustomThreadPool - Creating default thread pool > poolSize: 33; maxThreads: 1000 Mar-15 01:07:53.411 [main] DEBUG nextflow.Session - Session start Mar-15 01:07:53.415 [main] DEBUG nextflow.trace.TraceFileObserver - Workflow started -- trace file: /media/manoj/Data/Manoj/Riboseq/Riboseq_out/pipeline_info/execution_trace_2025-03-15_01-07-51.txt Mar-15 01:07:53.788 [main] DEBUG nextflow.script.ScriptRunner - > Launching execution Mar-15 01:08:00.457 [main] DEBUG nextflow.script.IncludeDef - Loading included plugin extensions with names: [paramsSummaryMap:paramsSummaryMap]; plugin Id: nf-validation Mar-15 01:08:00.909 [main] DEBUG nextflow.script.IncludeDef - Loading included plugin extensions with names: [paramsHelp:paramsHelp]; plugin Id: nf-validation Mar-15 01:08:00.910 [main] DEBUG nextflow.script.IncludeDef - Loading included plugin extensions with names: [paramsSummaryLog:paramsSummaryLog]; plugin Id: nf-validation Mar-15 01:08:00.912 [main] DEBUG nextflow.script.IncludeDef - Loading included plugin extensions with names: [validateParameters:validateParameters]; plugin Id: nf-validation Mar-15 01:08:00.917 [main] DEBUG nextflow.script.IncludeDef - Loading included plugin extensions with names: [paramsSummaryMap:paramsSummaryMap]; plugin Id: nf-validation Mar-15 01:08:00.918 [main] DEBUG nextflow.script.IncludeDef - Loading included plugin extensions with names: [fromSamplesheet:fromSamplesheet]; plugin Id: nf-validation Mar-15 01:08:02.944 [main] DEBUG nextflow.script.IncludeDef - Loading included plugin extensions with names: [paramsHelp:paramsHelp]; plugin Id: nf-validation Mar-15 01:08:02.945 [main] DEBUG nextflow.script.IncludeDef - Loading included plugin extensions with names: [paramsSummaryLog:paramsSummaryLog]; plugin Id: nf-validation Mar-15 01:08:02.946 [main] DEBUG nextflow.script.IncludeDef - Loading included plugin extensions with names: [validateParameters:validateParameters]; plugin Id: nf-validation Mar-15 01:08:02.951 [main] DEBUG nextflow.script.IncludeDef - Loading included plugin extensions with names: [paramsSummaryMap:paramsSummaryMap]; plugin Id: nf-validation Mar-15 01:08:02.952 [main] DEBUG nextflow.script.IncludeDef - Loading included plugin extensions with names: [fromSamplesheet:fromSamplesheet]; plugin Id: nf-validation Mar-15 01:08:03.433 [main] DEBUG nextflow.Nextflow - Using schema file: nextflow_schema.json Mar-15 01:08:03.438 [main] WARN nextflow.script.ScriptBinding - Access to undefined parameter `monochromeLogs` -- Initialise it to a default value eg. `params.monochromeLogs = some_value` Mar-15 01:08:03.460 [main] INFO nextflow.Nextflow - ------------------------------------------------------ ,--./,-.  ___ __ __ __ ___ /,-._.--~'  |\ | |__ __ / ` / \ |__) |__ } {  | \| | \__, \__/ | \ |___ \`-._,-`-, `._,._,'  nf-core/riboseq v1.0.1-g3d3e579 ------------------------------------------------------ Core Nextflow options revision : master runName : sleepy_leibniz containerEngine : docker launchDir : /media/manoj/Data/Manoj/Riboseq workDir : /media/manoj/Data/Manoj/Riboseq/work projectDir : /root/.nextflow/assets/nf-core/riboseq userName : root profile : docker configFiles :  Input/output options input : Sample_sheet.csv outdir : Riboseq_out Reference genome options genome : mm10 fasta : s3://ngi-igenomes/igenomes/Mus_musculus/UCSC/mm10/Sequence/WholeGenomeFasta/genome.fa gtf : s3://ngi-igenomes/igenomes/Mus_musculus/UCSC/mm10/Annotation/Genes/genes.gtf Read trimming options trimmer : fastp Alignment options min_mapped_reads: 5 !! Only displaying parameters that differ from the pipeline defaults !! ------------------------------------------------------ If you use nf-core/riboseq for your analysis please cite: * The pipeline https://doi.org/10.5281/zenodo.10966364 * The nf-core framework https://doi.org/10.1038/s41587-020-0439-x * Software dependencies https://github.com/nf-core/riboseq/blob/master/CITATIONS.md ------------------------------------------------------ Mar-15 01:08:03.463 [main] DEBUG nextflow.validation.SchemaValidator - Starting parameters validation Mar-15 01:08:03.481 [main] DEBUG nextflow.validation.SchemaValidator - Ignoring validation of S3 URL path 's3://ngi-igenomes/igenomes/Mus_musculus/UCSC/mm10/Annotation/Genes/genes.gtf' Mar-15 01:08:03.481 [main] DEBUG nextflow.validation.SchemaValidator - Ignoring validation of S3 URL path 's3://ngi-igenomes/igenomes/Mus_musculus/UCSC/mm10/Sequence/WholeGenomeFasta/genome.fa' Mar-15 01:08:03.664 [main] DEBUG n.validation.FilePathValidator - S3 paths are not supported by 'FilePathValidator': 's3://ngi-igenomes/igenomes/Mus_musculus/UCSC/mm10/Sequence/WholeGenomeFasta/genome.fa' Mar-15 01:08:03.665 [main] DEBUG n.validation.DirectoryPathValidator - S3 paths are not supported by 'DirectoryPathValidator': 's3://ngi-igenomes/igenomes' Mar-15 01:08:03.665 [main] DEBUG n.validation.FilePathValidator - S3 paths are not supported by 'FilePathValidator': 's3://ngi-igenomes/igenomes/Mus_musculus/UCSC/mm10/Annotation/Genes/genes.gtf' Mar-15 01:08:03.668 [main] DEBUG nextflow.validation.SchemaValidator - Starting validation: 'input': '/media/manoj/Data/Manoj/Riboseq/Sample_sheet.csv' with '/root/.nextflow/assets/nf-core/riboseq/assets/schema_input.json' Mar-15 01:08:03.726 [main] DEBUG nextflow.validation.SchemaValidator - Validation passed: 'input': '/media/manoj/Data/Manoj/Riboseq/Sample_sheet.csv' with '/root/.nextflow/assets/nf-core/riboseq/assets/schema_input.json' Mar-15 01:08:03.726 [main] DEBUG nextflow.validation.SchemaValidator - Finishing parameters validation Mar-15 01:08:03.733 [main] DEBUG nextflow.validation.SchemaValidator - Starting validation: 'Sample_sheet.csv' with '/root/.nextflow/assets/nf-core/riboseq/assets/schema_input.json' Mar-15 01:08:03.741 [main] DEBUG nextflow.validation.SchemaValidator - Validation passed: 'Sample_sheet.csv' with '/root/.nextflow/assets/nf-core/riboseq/assets/schema_input.json' Mar-15 01:08:03.830 [main] WARN nextflow.script.ScriptBinding - Access to undefined parameter `pseudo_aligner` -- Initialise it to a default value eg. `params.pseudo_aligner = some_value` Mar-15 01:08:03.853 [main] DEBUG nextflow.plugin.PluginUpdater - Installing plugin nf-amazon version: 2.9.0 Mar-15 01:08:03.864 [main] INFO org.pf4j.AbstractPluginManager - Plugin 'nf-amazon@2.9.0' resolved Mar-15 01:08:03.864 [main] INFO org.pf4j.AbstractPluginManager - Start plugin 'nf-amazon@2.9.0' Mar-15 01:08:03.957 [main] DEBUG nextflow.plugin.BasePlugin - Plugin started nf-amazon@2.9.0 Mar-15 01:08:03.983 [main] DEBUG nextflow.file.FileHelper - > Added 'S3FileSystemProvider' to list of installed providers [s3] Mar-15 01:08:03.983 [main] DEBUG nextflow.file.FileHelper - Started plugin 'nf-amazon' required to handle file: s3://ngi-igenomes/igenomes/Mus_musculus/UCSC/mm10/Sequence/WholeGenomeFasta/genome.fa Mar-15 01:08:03.997 [main] DEBUG nextflow.file.FileHelper - Creating a file system instance for provider: S3FileSystemProvider Mar-15 01:08:04.022 [main] DEBUG nextflow.cloud.aws.config.AwsConfig - AWS S3 config properties: {max_error_retry=5} Mar-15 01:08:04.989 [main] DEBUG nextflow.script.ProcessConfig - Config settings `withName:GTF_FILTER` matches process NFCORE_RIBOSEQ:PREPARE_GENOME:GTF_FILTER Mar-15 01:08:05.018 [main] DEBUG nextflow.executor.ExecutorFactory - << taskConfig executor: null Mar-15 01:08:05.019 [main] DEBUG nextflow.executor.ExecutorFactory - >> processorType: 'local' Mar-15 01:08:05.044 [main] DEBUG nextflow.executor.Executor - [warm up] executor > local Mar-15 01:08:05.058 [main] DEBUG n.processor.LocalPollingMonitor - Creating local task monitor for executor 'local' > cpus=32; memory=503.8 GB; capacity=32; pollInterval=100ms; dumpInterval=5m Mar-15 01:08:05.063 [main] DEBUG n.processor.TaskPollingMonitor - >>> barrier register (monitor: local) Mar-15 01:08:05.174 [main] DEBUG nextflow.script.ProcessConfig - Config settings `withLabel:process_high` matches labels `process_high` for process with name NFCORE_RIBOSEQ:PREPARE_GENOME:MAKE_TRANSCRIPTS_FASTA Mar-15 01:08:05.180 [main] DEBUG nextflow.script.ProcessConfig - Config settings `withName:GUNZIP_.*|MAKE_TRANSCRIPTS_FASTA` matches process NFCORE_RIBOSEQ:PREPARE_GENOME:MAKE_TRANSCRIPTS_FASTA Mar-15 01:08:05.189 [main] DEBUG nextflow.executor.ExecutorFactory - << taskConfig executor: null Mar-15 01:08:05.189 [main] DEBUG nextflow.executor.ExecutorFactory - >> processorType: 'local' Mar-15 01:08:05.237 [main] DEBUG nextflow.script.ProcessConfig - Config settings `withLabel:process_single` matches labels `process_single` for process with name NFCORE_RIBOSEQ:PREPARE_GENOME:CUSTOM_GETCHROMSIZES Mar-15 01:08:05.240 [main] DEBUG nextflow.script.ProcessConfig - Config settings `withName:CUSTOM_GETCHROMSIZES` matches process NFCORE_RIBOSEQ:PREPARE_GENOME:CUSTOM_GETCHROMSIZES Mar-15 01:08:05.256 [main] DEBUG nextflow.executor.ExecutorFactory - << taskConfig executor: null Mar-15 01:08:05.257 [main] DEBUG nextflow.executor.ExecutorFactory - >> processorType: 'local' Mar-15 01:08:05.310 [main] DEBUG nextflow.script.ProcessConfig - Config settings `withLabel:process_high` matches labels `process_high` for process with name NFCORE_RIBOSEQ:PREPARE_GENOME:SORTMERNA_INDEX Mar-15 01:08:05.315 [main] DEBUG nextflow.script.ProcessConfig - Config settings `withName:SORTMERNA_INDEX` matches process NFCORE_RIBOSEQ:PREPARE_GENOME:SORTMERNA_INDEX Mar-15 01:08:05.325 [main] DEBUG nextflow.executor.ExecutorFactory - << taskConfig executor: null Mar-15 01:08:05.326 [main] DEBUG nextflow.executor.ExecutorFactory - >> processorType: 'local' Mar-15 01:08:05.358 [main] DEBUG nextflow.script.ProcessConfig - Config settings `withLabel:process_high` matches labels `process_high` for process with name NFCORE_RIBOSEQ:PREPARE_GENOME:STAR_GENOMEGENERATE_IGENOMES Mar-15 01:08:05.360 [main] DEBUG nextflow.script.ProcessConfig - Config settings `withName:UNTAR_.*|STAR_GENOMEGENERATE|STAR_GENOMEGENERATE_IGENOMES|HISAT2_BUILD` matches process NFCORE_RIBOSEQ:PREPARE_GENOME:STAR_GENOMEGENERATE_IGENOMES Mar-15 01:08:05.368 [main] DEBUG nextflow.executor.ExecutorFactory - << taskConfig executor: null Mar-15 01:08:05.368 [main] DEBUG nextflow.executor.ExecutorFactory - >> processorType: 'local' Mar-15 01:08:05.409 [main] DEBUG nextflow.validation.SchemaValidator - Starting validation: 'Sample_sheet.csv' with '/root/.nextflow/assets/nf-core/riboseq/assets/schema_input.json' Mar-15 01:08:05.417 [main] DEBUG nextflow.validation.SchemaValidator - Validation passed: 'Sample_sheet.csv' with '/root/.nextflow/assets/nf-core/riboseq/assets/schema_input.json' Mar-15 01:08:05.434 [main] WARN nextflow.script.ScriptBinding - Access to undefined parameter `salmon_index` -- Initialise it to a default value eg. `params.salmon_index = some_value` Mar-15 01:08:05.437 [main] WARN nextflow.script.ScriptBinding - Access to undefined parameter `sortmerna_index` -- Initialise it to a default value eg. `params.sortmerna_index = some_value` Mar-15 01:08:05.480 [main] DEBUG nextflow.script.ProcessConfig - Config settings `withLabel:process_single` matches labels `process_single` for process with name NFCORE_RIBOSEQ:RIBOSEQ:PREPROCESS_RNASEQ:CAT_FASTQ Mar-15 01:08:05.483 [main] DEBUG nextflow.script.ProcessConfig - Config settings `withName:CAT_FASTQ` matches process NFCORE_RIBOSEQ:RIBOSEQ:PREPROCESS_RNASEQ:CAT_FASTQ Mar-15 01:08:05.492 [main] DEBUG nextflow.executor.ExecutorFactory - << taskConfig executor: null Mar-15 01:08:05.492 [main] DEBUG nextflow.executor.ExecutorFactory - >> processorType: 'local' Mar-15 01:08:05.538 [main] DEBUG nextflow.script.ProcessConfig - Config settings `withLabel:process_medium` matches labels `process_medium` for process with name NFCORE_RIBOSEQ:RIBOSEQ:PREPROCESS_RNASEQ:FASTQ_FASTQC_UMITOOLS_FASTP:FASTQC_RAW Mar-15 01:08:05.544 [main] DEBUG nextflow.script.ProcessConfig - Config settings `withName:.*:FASTQ_FASTQC_UMITOOLS_FASTP:FASTQC_RAW` matches process NFCORE_RIBOSEQ:RIBOSEQ:PREPROCESS_RNASEQ:FASTQ_FASTQC_UMITOOLS_FASTP:FASTQC_RAW Mar-15 01:08:05.551 [main] DEBUG nextflow.executor.ExecutorFactory - << taskConfig executor: null Mar-15 01:08:05.551 [main] DEBUG nextflow.executor.ExecutorFactory - >> processorType: 'local' Mar-15 01:08:05.596 [main] DEBUG nextflow.script.ProcessConfig - Config settings `withLabel:process_medium` matches labels `process_medium` for process with name NFCORE_RIBOSEQ:RIBOSEQ:PREPROCESS_RNASEQ:FASTQ_FASTQC_UMITOOLS_FASTP:FASTP Mar-15 01:08:05.600 [main] DEBUG nextflow.script.ProcessConfig - Config settings `withName:.*:FASTQ_FASTQC_UMITOOLS_FASTP:FASTP` matches process NFCORE_RIBOSEQ:RIBOSEQ:PREPROCESS_RNASEQ:FASTQ_FASTQC_UMITOOLS_FASTP:FASTP Mar-15 01:08:05.610 [main] DEBUG nextflow.executor.ExecutorFactory - << taskConfig executor: null Mar-15 01:08:05.610 [main] DEBUG nextflow.executor.ExecutorFactory - >> processorType: 'local' Mar-15 01:08:05.662 [main] DEBUG nextflow.script.ProcessConfig - Config settings `withLabel:process_medium` matches labels `process_medium` for process with name NFCORE_RIBOSEQ:RIBOSEQ:PREPROCESS_RNASEQ:FASTQ_FASTQC_UMITOOLS_FASTP:FASTQC_TRIM Mar-15 01:08:05.668 [main] DEBUG nextflow.script.ProcessConfig - Config settings `withName:.*:FASTQ_FASTQC_UMITOOLS_FASTP:FASTQC_TRIM` matches process NFCORE_RIBOSEQ:RIBOSEQ:PREPROCESS_RNASEQ:FASTQ_FASTQC_UMITOOLS_FASTP:FASTQC_TRIM Mar-15 01:08:05.675 [main] DEBUG nextflow.executor.ExecutorFactory - << taskConfig executor: null Mar-15 01:08:05.675 [main] DEBUG nextflow.executor.ExecutorFactory - >> processorType: 'local' Mar-15 01:08:05.810 [main] DEBUG nextflow.script.ProcessConfig - Config settings `withLabel:process_high` matches labels `process_high` for process with name NFCORE_RIBOSEQ:RIBOSEQ:PREPROCESS_RNASEQ:SORTMERNA Mar-15 01:08:05.815 [main] DEBUG nextflow.script.ProcessConfig - Config settings `withName:.*:PREPROCESS_RNASEQ:SORTMERNA` matches process NFCORE_RIBOSEQ:RIBOSEQ:PREPROCESS_RNASEQ:SORTMERNA Mar-15 01:08:05.822 [main] DEBUG nextflow.executor.ExecutorFactory - << taskConfig executor: null Mar-15 01:08:05.822 [main] DEBUG nextflow.executor.ExecutorFactory - >> processorType: 'local' Mar-15 01:08:05.875 [main] DEBUG nextflow.script.ProcessConfig - Config settings `withLabel:process_medium` matches labels `process_medium` for process with name NFCORE_RIBOSEQ:RIBOSEQ:PREPROCESS_RNASEQ:FASTQ_SUBSAMPLE_FQ_SALMON:SALMON_INDEX Mar-15 01:08:05.877 [main] DEBUG nextflow.script.ProcessConfig - Config settings `withName:SALMON_INDEX` matches process NFCORE_RIBOSEQ:RIBOSEQ:PREPROCESS_RNASEQ:FASTQ_SUBSAMPLE_FQ_SALMON:SALMON_INDEX Mar-15 01:08:05.885 [main] DEBUG nextflow.executor.ExecutorFactory - << taskConfig executor: null Mar-15 01:08:05.885 [main] DEBUG nextflow.executor.ExecutorFactory - >> processorType: 'local' Mar-15 01:08:05.902 [main] DEBUG nextflow.script.ProcessConfig - Config settings `withLabel:process_single` matches labels `process_single` for process with name NFCORE_RIBOSEQ:RIBOSEQ:PREPROCESS_RNASEQ:FASTQ_SUBSAMPLE_FQ_SALMON:FQ_SUBSAMPLE Mar-15 01:08:05.904 [main] DEBUG nextflow.script.ProcessConfig - Config settings `withName:FQ_SUBSAMPLE` matches process NFCORE_RIBOSEQ:RIBOSEQ:PREPROCESS_RNASEQ:FASTQ_SUBSAMPLE_FQ_SALMON:FQ_SUBSAMPLE Mar-15 01:08:05.913 [main] DEBUG nextflow.executor.ExecutorFactory - << taskConfig executor: null Mar-15 01:08:05.914 [main] DEBUG nextflow.executor.ExecutorFactory - >> processorType: 'local' Mar-15 01:08:05.936 [main] DEBUG nextflow.script.ProcessConfig - Config settings `withLabel:process_medium` matches labels `process_medium` for process with name NFCORE_RIBOSEQ:RIBOSEQ:PREPROCESS_RNASEQ:FASTQ_SUBSAMPLE_FQ_SALMON:SALMON_QUANT Mar-15 01:08:05.939 [main] DEBUG nextflow.script.ProcessConfig - Config settings `withName:.*:FASTQ_SUBSAMPLE_FQ_SALMON:SALMON_QUANT` matches process NFCORE_RIBOSEQ:RIBOSEQ:PREPROCESS_RNASEQ:FASTQ_SUBSAMPLE_FQ_SALMON:SALMON_QUANT Mar-15 01:08:05.946 [main] DEBUG nextflow.executor.ExecutorFactory - << taskConfig executor: null Mar-15 01:08:05.946 [main] DEBUG nextflow.executor.ExecutorFactory - >> processorType: 'local' Mar-15 01:08:06.029 [main] DEBUG nextflow.script.ProcessConfig - Config settings `withLabel:process_high` matches labels `process_high` for process with name NFCORE_RIBOSEQ:RIBOSEQ:FASTQ_ALIGN_STAR:STAR_ALIGN Mar-15 01:08:06.031 [main] DEBUG nextflow.script.ProcessConfig - Config settings `withName:STAR_ALIGN` matches process NFCORE_RIBOSEQ:RIBOSEQ:FASTQ_ALIGN_STAR:STAR_ALIGN Mar-15 01:08:06.047 [main] DEBUG nextflow.executor.ExecutorFactory - << taskConfig executor: null Mar-15 01:08:06.047 [main] DEBUG nextflow.executor.ExecutorFactory - >> processorType: 'local' Mar-15 01:08:06.085 [main] DEBUG nextflow.script.ProcessConfig - Config settings `withLabel:process_medium` matches labels `process_medium` for process with name NFCORE_RIBOSEQ:RIBOSEQ:FASTQ_ALIGN_STAR:BAM_SORT_STATS_SAMTOOLS_GENOME:SAMTOOLS_SORT Mar-15 01:08:06.090 [main] DEBUG nextflow.script.ProcessConfig - Config settings `withName:NFCORE_RIBOSEQ:RIBOSEQ:.*:BAM_SORT_STATS_SAMTOOLS_GENOME:SAMTOOLS_SORT` matches process NFCORE_RIBOSEQ:RIBOSEQ:FASTQ_ALIGN_STAR:BAM_SORT_STATS_SAMTOOLS_GENOME:SAMTOOLS_SORT Mar-15 01:08:06.097 [main] DEBUG nextflow.executor.ExecutorFactory - << taskConfig executor: null Mar-15 01:08:06.097 [main] DEBUG nextflow.executor.ExecutorFactory - >> processorType: 'local' Mar-15 01:08:06.122 [main] DEBUG nextflow.script.ProcessConfig - Config settings `withLabel:process_low` matches labels `process_low` for process with name NFCORE_RIBOSEQ:RIBOSEQ:FASTQ_ALIGN_STAR:BAM_SORT_STATS_SAMTOOLS_GENOME:SAMTOOLS_INDEX Mar-15 01:08:06.129 [main] DEBUG nextflow.script.ProcessConfig - Config settings `withName:NFCORE_RIBOSEQ:RIBOSEQ:.*:BAM_SORT_STATS_SAMTOOLS_GENOME:SAMTOOLS_INDEX` matches process NFCORE_RIBOSEQ:RIBOSEQ:FASTQ_ALIGN_STAR:BAM_SORT_STATS_SAMTOOLS_GENOME:SAMTOOLS_INDEX Mar-15 01:08:06.135 [main] DEBUG nextflow.executor.ExecutorFactory - << taskConfig executor: null Mar-15 01:08:06.136 [main] DEBUG nextflow.executor.ExecutorFactory - >> processorType: 'local' Mar-15 01:08:06.174 [main] DEBUG nextflow.script.ProcessConfig - Config settings `withLabel:process_single` matches labels `process_single` for process with name NFCORE_RIBOSEQ:RIBOSEQ:FASTQ_ALIGN_STAR:BAM_SORT_STATS_SAMTOOLS_GENOME:BAM_STATS_SAMTOOLS:SAMTOOLS_STATS Mar-15 01:08:06.178 [main] DEBUG nextflow.script.ProcessConfig - Config settings `withName:NFCORE_RIBOSEQ:RIBOSEQ:.*:BAM_SORT_STATS_SAMTOOLS_GENOME:BAM_STATS_SAMTOOLS:.*` matches process NFCORE_RIBOSEQ:RIBOSEQ:FASTQ_ALIGN_STAR:BAM_SORT_STATS_SAMTOOLS_GENOME:BAM_STATS_SAMTOOLS:SAMTOOLS_STATS Mar-15 01:08:06.185 [main] DEBUG nextflow.executor.ExecutorFactory - << taskConfig executor: null Mar-15 01:08:06.185 [main] DEBUG nextflow.executor.ExecutorFactory - >> processorType: 'local' Mar-15 01:08:06.203 [main] DEBUG nextflow.script.ProcessConfig - Config settings `withLabel:process_single` matches labels `process_single` for process with name NFCORE_RIBOSEQ:RIBOSEQ:FASTQ_ALIGN_STAR:BAM_SORT_STATS_SAMTOOLS_GENOME:BAM_STATS_SAMTOOLS:SAMTOOLS_FLAGSTAT Mar-15 01:08:06.207 [main] DEBUG nextflow.script.ProcessConfig - Config settings `withName:NFCORE_RIBOSEQ:RIBOSEQ:.*:BAM_SORT_STATS_SAMTOOLS_GENOME:BAM_STATS_SAMTOOLS:.*` matches process NFCORE_RIBOSEQ:RIBOSEQ:FASTQ_ALIGN_STAR:BAM_SORT_STATS_SAMTOOLS_GENOME:BAM_STATS_SAMTOOLS:SAMTOOLS_FLAGSTAT Mar-15 01:08:06.212 [main] DEBUG nextflow.executor.ExecutorFactory - << taskConfig executor: null Mar-15 01:08:06.213 [main] DEBUG nextflow.executor.ExecutorFactory - >> processorType: 'local' Mar-15 01:08:06.230 [main] DEBUG nextflow.script.ProcessConfig - Config settings `withLabel:process_single` matches labels `process_single` for process with name NFCORE_RIBOSEQ:RIBOSEQ:FASTQ_ALIGN_STAR:BAM_SORT_STATS_SAMTOOLS_GENOME:BAM_STATS_SAMTOOLS:SAMTOOLS_IDXSTATS Mar-15 01:08:06.235 [main] DEBUG nextflow.script.ProcessConfig - Config settings `withName:NFCORE_RIBOSEQ:RIBOSEQ:.*:BAM_SORT_STATS_SAMTOOLS_GENOME:BAM_STATS_SAMTOOLS:.*` matches process NFCORE_RIBOSEQ:RIBOSEQ:FASTQ_ALIGN_STAR:BAM_SORT_STATS_SAMTOOLS_GENOME:BAM_STATS_SAMTOOLS:SAMTOOLS_IDXSTATS Mar-15 01:08:06.240 [main] DEBUG nextflow.executor.ExecutorFactory - << taskConfig executor: null Mar-15 01:08:06.240 [main] DEBUG nextflow.executor.ExecutorFactory - >> processorType: 'local' Mar-15 01:08:06.266 [main] DEBUG nextflow.script.ProcessConfig - Config settings `withLabel:process_medium` matches labels `process_medium` for process with name NFCORE_RIBOSEQ:RIBOSEQ:FASTQ_ALIGN_STAR:BAM_SORT_STATS_SAMTOOLS_TRANSCRIPTOME:SAMTOOLS_SORT Mar-15 01:08:06.271 [main] DEBUG nextflow.script.ProcessConfig - Config settings `withName:NFCORE_RIBOSEQ:RIBOSEQ:.*:BAM_SORT_STATS_SAMTOOLS_TRANSCRIPTOME:SAMTOOLS_SORT` matches process NFCORE_RIBOSEQ:RIBOSEQ:FASTQ_ALIGN_STAR:BAM_SORT_STATS_SAMTOOLS_TRANSCRIPTOME:SAMTOOLS_SORT Mar-15 01:08:06.278 [main] DEBUG nextflow.executor.ExecutorFactory - << taskConfig executor: null Mar-15 01:08:06.278 [main] DEBUG nextflow.executor.ExecutorFactory - >> processorType: 'local' Mar-15 01:08:06.299 [main] DEBUG nextflow.script.ProcessConfig - Config settings `withLabel:process_low` matches labels `process_low` for process with name NFCORE_RIBOSEQ:RIBOSEQ:FASTQ_ALIGN_STAR:BAM_SORT_STATS_SAMTOOLS_TRANSCRIPTOME:SAMTOOLS_INDEX Mar-15 01:08:06.304 [main] DEBUG nextflow.script.ProcessConfig - Config settings `withName:NFCORE_RIBOSEQ:RIBOSEQ:.*:BAM_SORT_STATS_SAMTOOLS_TRANSCRIPTOME:SAMTOOLS_INDEX` matches process NFCORE_RIBOSEQ:RIBOSEQ:FASTQ_ALIGN_STAR:BAM_SORT_STATS_SAMTOOLS_TRANSCRIPTOME:SAMTOOLS_INDEX Mar-15 01:08:06.311 [main] DEBUG nextflow.executor.ExecutorFactory - << taskConfig executor: null Mar-15 01:08:06.311 [main] DEBUG nextflow.executor.ExecutorFactory - >> processorType: 'local' Mar-15 01:08:06.342 [main] DEBUG nextflow.script.ProcessConfig - Config settings `withLabel:process_single` matches labels `process_single` for process with name NFCORE_RIBOSEQ:RIBOSEQ:FASTQ_ALIGN_STAR:BAM_SORT_STATS_SAMTOOLS_TRANSCRIPTOME:BAM_STATS_SAMTOOLS:SAMTOOLS_STATS Mar-15 01:08:06.347 [main] DEBUG nextflow.script.ProcessConfig - Config settings `withName:NFCORE_RIBOSEQ:RIBOSEQ:.*:BAM_SORT_STATS_SAMTOOLS_TRANSCRIPTOME:BAM_STATS_SAMTOOLS:.*` matches process NFCORE_RIBOSEQ:RIBOSEQ:FASTQ_ALIGN_STAR:BAM_SORT_STATS_SAMTOOLS_TRANSCRIPTOME:BAM_STATS_SAMTOOLS:SAMTOOLS_STATS Mar-15 01:08:06.353 [main] DEBUG nextflow.executor.ExecutorFactory - << taskConfig executor: null Mar-15 01:08:06.353 [main] DEBUG nextflow.executor.ExecutorFactory - >> processorType: 'local' Mar-15 01:08:06.367 [main] DEBUG nextflow.script.ProcessConfig - Config settings `withLabel:process_single` matches labels `process_single` for process with name NFCORE_RIBOSEQ:RIBOSEQ:FASTQ_ALIGN_STAR:BAM_SORT_STATS_SAMTOOLS_TRANSCRIPTOME:BAM_STATS_SAMTOOLS:SAMTOOLS_FLAGSTAT Mar-15 01:08:06.371 [main] DEBUG nextflow.script.ProcessConfig - Config settings `withName:NFCORE_RIBOSEQ:RIBOSEQ:.*:BAM_SORT_STATS_SAMTOOLS_TRANSCRIPTOME:BAM_STATS_SAMTOOLS:.*` matches process NFCORE_RIBOSEQ:RIBOSEQ:FASTQ_ALIGN_STAR:BAM_SORT_STATS_SAMTOOLS_TRANSCRIPTOME:BAM_STATS_SAMTOOLS:SAMTOOLS_FLAGSTAT Mar-15 01:08:06.376 [main] DEBUG nextflow.executor.ExecutorFactory - << taskConfig executor: null Mar-15 01:08:06.377 [main] DEBUG nextflow.executor.ExecutorFactory - >> processorType: 'local' Mar-15 01:08:06.389 [main] DEBUG nextflow.script.ProcessConfig - Config settings `withLabel:process_single` matches labels `process_single` for process with name NFCORE_RIBOSEQ:RIBOSEQ:FASTQ_ALIGN_STAR:BAM_SORT_STATS_SAMTOOLS_TRANSCRIPTOME:BAM_STATS_SAMTOOLS:SAMTOOLS_IDXSTATS Mar-15 01:08:06.394 [main] DEBUG nextflow.script.ProcessConfig - Config settings `withName:NFCORE_RIBOSEQ:RIBOSEQ:.*:BAM_SORT_STATS_SAMTOOLS_TRANSCRIPTOME:BAM_STATS_SAMTOOLS:.*` matches process NFCORE_RIBOSEQ:RIBOSEQ:FASTQ_ALIGN_STAR:BAM_SORT_STATS_SAMTOOLS_TRANSCRIPTOME:BAM_STATS_SAMTOOLS:SAMTOOLS_IDXSTATS Mar-15 01:08:06.399 [main] DEBUG nextflow.executor.ExecutorFactory - << taskConfig executor: null Mar-15 01:08:06.399 [main] DEBUG nextflow.executor.ExecutorFactory - >> processorType: 'local' Mar-15 01:08:06.464 [main] WARN nextflow.extension.OperatorImpl - The operator `first` is useless when applied to a value channel which returns a single value by definition Mar-15 01:08:06.477 [main] DEBUG nextflow.script.ProcessConfig - Config settings `withLabel:process_medium` matches labels `process_medium` for process with name NFCORE_RIBOSEQ:RIBOSEQ:RIBOTISH_QUALITY_RIBOSEQ Mar-15 01:08:06.479 [main] DEBUG nextflow.script.ProcessConfig - Config settings `withName:RIBOTISH_QUALITY` matches process NFCORE_RIBOSEQ:RIBOSEQ:RIBOTISH_QUALITY_RIBOSEQ Mar-15 01:08:06.489 [main] DEBUG nextflow.executor.ExecutorFactory - << taskConfig executor: null Mar-15 01:08:06.489 [main] DEBUG nextflow.executor.ExecutorFactory - >> processorType: 'local' Mar-15 01:08:06.542 [main] DEBUG nextflow.script.ProcessConfig - Config settings `withLabel:process_medium` matches labels `process_medium` for process with name NFCORE_RIBOSEQ:RIBOSEQ:RIBOTISH_PREDICT_INDIVIDUAL Mar-15 01:08:06.547 [main] DEBUG nextflow.script.ProcessConfig - Config settings `withName:RIBOTISH_PREDICT_INDIVIDUAL` matches process NFCORE_RIBOSEQ:RIBOSEQ:RIBOTISH_PREDICT_INDIVIDUAL Mar-15 01:08:06.557 [main] DEBUG nextflow.executor.ExecutorFactory - << taskConfig executor: null Mar-15 01:08:06.557 [main] DEBUG nextflow.executor.ExecutorFactory - >> processorType: 'local' Mar-15 01:08:06.594 [main] DEBUG nextflow.script.ProcessConfig - Config settings `withLabel:process_medium` matches labels `process_medium` for process with name NFCORE_RIBOSEQ:RIBOSEQ:RIBOTISH_PREDICT_ALL Mar-15 01:08:06.599 [main] DEBUG nextflow.script.ProcessConfig - Config settings `withName:RIBOTISH_PREDICT_ALL` matches process NFCORE_RIBOSEQ:RIBOSEQ:RIBOTISH_PREDICT_ALL Mar-15 01:08:06.610 [main] DEBUG nextflow.executor.ExecutorFactory - << taskConfig executor: null Mar-15 01:08:06.610 [main] DEBUG nextflow.executor.ExecutorFactory - >> processorType: 'local' Mar-15 01:08:06.638 [main] DEBUG nextflow.script.ProcessConfig - Config settings `withLabel:process_single` matches labels `process_single` for process with name NFCORE_RIBOSEQ:RIBOSEQ:RIBOTRICER_PREPAREORFS Mar-15 01:08:06.641 [main] DEBUG nextflow.script.ProcessConfig - Config settings `withName:RIBOTRICER_PREPAREORFS` matches process NFCORE_RIBOSEQ:RIBOSEQ:RIBOTRICER_PREPAREORFS Mar-15 01:08:06.648 [main] DEBUG nextflow.executor.ExecutorFactory - << taskConfig executor: null Mar-15 01:08:06.648 [main] DEBUG nextflow.executor.ExecutorFactory - >> processorType: 'local' Mar-15 01:08:06.678 [main] DEBUG nextflow.script.ProcessConfig - Config settings `withLabel:process_single` matches labels `process_single` for process with name NFCORE_RIBOSEQ:RIBOSEQ:RIBOTRICER_DETECTORFS Mar-15 01:08:06.681 [main] DEBUG nextflow.script.ProcessConfig - Config settings `withName:RIBOTRICER_DETECTORFS` matches process NFCORE_RIBOSEQ:RIBOSEQ:RIBOTRICER_DETECTORFS Mar-15 01:08:06.692 [main] DEBUG nextflow.executor.ExecutorFactory - << taskConfig executor: null Mar-15 01:08:06.693 [main] DEBUG nextflow.executor.ExecutorFactory - >> processorType: 'local' Mar-15 01:08:06.742 [main] DEBUG nextflow.script.ProcessConfig - Config settings `withLabel:process_medium` matches labels `process_medium` for process with name NFCORE_RIBOSEQ:RIBOSEQ:QUANTIFY_STAR_SALMON:SALMON_QUANT Mar-15 01:08:06.747 [main] DEBUG nextflow.script.ProcessConfig - Config settings `withName:.*:QUANTIFY_STAR_SALMON:SALMON_QUANT` matches process NFCORE_RIBOSEQ:RIBOSEQ:QUANTIFY_STAR_SALMON:SALMON_QUANT Mar-15 01:08:06.754 [main] DEBUG nextflow.executor.ExecutorFactory - << taskConfig executor: null Mar-15 01:08:06.754 [main] DEBUG nextflow.executor.ExecutorFactory - >> processorType: 'local' Mar-15 01:08:06.791 [main] DEBUG nextflow.script.ProcessConfig - Config settings `withLabel:process_single` matches labels `process_single` for process with name NFCORE_RIBOSEQ:RIBOSEQ:QUANTIFY_STAR_SALMON:CUSTOM_TX2GENE Mar-15 01:08:06.796 [main] DEBUG nextflow.script.ProcessConfig - Config settings `withName:.*:QUANTIFY_STAR_SALMON:CUSTOM_TX2GENE` matches process NFCORE_RIBOSEQ:RIBOSEQ:QUANTIFY_STAR_SALMON:CUSTOM_TX2GENE Mar-15 01:08:06.801 [main] DEBUG nextflow.executor.ExecutorFactory - << taskConfig executor: null Mar-15 01:08:06.801 [main] DEBUG nextflow.executor.ExecutorFactory - >> processorType: 'local' Mar-15 01:08:06.836 [main] DEBUG nextflow.script.ProcessConfig - Config settings `withLabel:process_medium` matches labels `process_medium` for process with name NFCORE_RIBOSEQ:RIBOSEQ:QUANTIFY_STAR_SALMON:TXIMETA_TXIMPORT Mar-15 01:08:06.841 [main] DEBUG nextflow.script.ProcessConfig - Config settings `withName:.*:QUANTIFY_STAR_SALMON:TXIMETA_TXIMPORT` matches process NFCORE_RIBOSEQ:RIBOSEQ:QUANTIFY_STAR_SALMON:TXIMETA_TXIMPORT Mar-15 01:08:06.848 [main] DEBUG nextflow.executor.ExecutorFactory - << taskConfig executor: null Mar-15 01:08:06.849 [main] DEBUG nextflow.executor.ExecutorFactory - >> processorType: 'local' Mar-15 01:08:06.892 [main] DEBUG nextflow.script.ProcessConfig - Config settings `withLabel:process_medium` matches labels `process_medium` for process with name NFCORE_RIBOSEQ:RIBOSEQ:QUANTIFY_STAR_SALMON:SE_GENE Mar-15 01:08:06.898 [main] DEBUG nextflow.script.ProcessConfig - Config settings `withName:.*:QUANTIFY_STAR_SALMON:SE_.*` matches process NFCORE_RIBOSEQ:RIBOSEQ:QUANTIFY_STAR_SALMON:SE_GENE Mar-15 01:08:06.899 [main] DEBUG nextflow.script.ProcessConfig - Config settings `withName:.*:QUANTIFY_STAR_SALMON:SE_GENE` matches process NFCORE_RIBOSEQ:RIBOSEQ:QUANTIFY_STAR_SALMON:SE_GENE Mar-15 01:08:06.906 [main] DEBUG nextflow.executor.ExecutorFactory - << taskConfig executor: null Mar-15 01:08:06.906 [main] DEBUG nextflow.executor.ExecutorFactory - >> processorType: 'local' Mar-15 01:08:06.935 [main] DEBUG nextflow.script.ProcessConfig - Config settings `withLabel:process_medium` matches labels `process_medium` for process with name NFCORE_RIBOSEQ:RIBOSEQ:QUANTIFY_STAR_SALMON:SE_GENE_LENGTH_SCALED Mar-15 01:08:06.941 [main] DEBUG nextflow.script.ProcessConfig - Config settings `withName:.*:QUANTIFY_STAR_SALMON:SE_.*` matches process NFCORE_RIBOSEQ:RIBOSEQ:QUANTIFY_STAR_SALMON:SE_GENE_LENGTH_SCALED Mar-15 01:08:06.942 [main] DEBUG nextflow.script.ProcessConfig - Config settings `withName:.*:QUANTIFY_STAR_SALMON:SE_GENE_LENGTH_SCALED` matches process NFCORE_RIBOSEQ:RIBOSEQ:QUANTIFY_STAR_SALMON:SE_GENE_LENGTH_SCALED Mar-15 01:08:06.947 [main] DEBUG nextflow.executor.ExecutorFactory - << taskConfig executor: null Mar-15 01:08:06.947 [main] DEBUG nextflow.executor.ExecutorFactory - >> processorType: 'local' Mar-15 01:08:06.969 [main] DEBUG nextflow.script.ProcessConfig - Config settings `withLabel:process_medium` matches labels `process_medium` for process with name NFCORE_RIBOSEQ:RIBOSEQ:QUANTIFY_STAR_SALMON:SE_GENE_SCALED Mar-15 01:08:06.975 [main] DEBUG nextflow.script.ProcessConfig - Config settings `withName:.*:QUANTIFY_STAR_SALMON:SE_.*` matches process NFCORE_RIBOSEQ:RIBOSEQ:QUANTIFY_STAR_SALMON:SE_GENE_SCALED Mar-15 01:08:06.976 [main] DEBUG nextflow.script.ProcessConfig - Config settings `withName:.*:QUANTIFY_STAR_SALMON:SE_GENE_SCALED` matches process NFCORE_RIBOSEQ:RIBOSEQ:QUANTIFY_STAR_SALMON:SE_GENE_SCALED Mar-15 01:08:06.980 [main] DEBUG nextflow.executor.ExecutorFactory - << taskConfig executor: null Mar-15 01:08:06.981 [main] DEBUG nextflow.executor.ExecutorFactory - >> processorType: 'local' Mar-15 01:08:07.001 [main] DEBUG nextflow.script.ProcessConfig - Config settings `withLabel:process_medium` matches labels `process_medium` for process with name NFCORE_RIBOSEQ:RIBOSEQ:QUANTIFY_STAR_SALMON:SE_TRANSCRIPT Mar-15 01:08:07.007 [main] DEBUG nextflow.script.ProcessConfig - Config settings `withName:.*:QUANTIFY_STAR_SALMON:SE_.*` matches process NFCORE_RIBOSEQ:RIBOSEQ:QUANTIFY_STAR_SALMON:SE_TRANSCRIPT Mar-15 01:08:07.008 [main] DEBUG nextflow.script.ProcessConfig - Config settings `withName:.*:QUANTIFY_STAR_SALMON:SE_TRANSCRIPT` matches process NFCORE_RIBOSEQ:RIBOSEQ:QUANTIFY_STAR_SALMON:SE_TRANSCRIPT Mar-15 01:08:07.013 [main] DEBUG nextflow.executor.ExecutorFactory - << taskConfig executor: null Mar-15 01:08:07.014 [main] DEBUG nextflow.executor.ExecutorFactory - >> processorType: 'local' Mar-15 01:08:07.343 [main] DEBUG nextflow.script.ProcessConfig - Config settings `withLabel:process_single` matches labels `process_single` for process with name NFCORE_RIBOSEQ:RIBOSEQ:MULTIQC Mar-15 01:08:07.347 [main] DEBUG nextflow.script.ProcessConfig - Config settings `withName:MULTIQC` matches process NFCORE_RIBOSEQ:RIBOSEQ:MULTIQC Mar-15 01:08:07.353 [main] DEBUG nextflow.executor.ExecutorFactory - << taskConfig executor: null Mar-15 01:08:07.353 [main] DEBUG nextflow.executor.ExecutorFactory - >> processorType: 'local' Mar-15 01:08:07.382 [main] DEBUG nextflow.Session - Config process names validation disabled as requested Mar-15 01:08:07.385 [main] DEBUG nextflow.Session - Igniting dataflow network (84) Mar-15 01:08:07.387 [main] DEBUG nextflow.processor.TaskProcessor - Starting process > NFCORE_RIBOSEQ:PREPARE_GENOME:GTF_FILTER Mar-15 01:08:07.387 [main] DEBUG nextflow.processor.TaskProcessor - Starting process > NFCORE_RIBOSEQ:PREPARE_GENOME:MAKE_TRANSCRIPTS_FASTA Mar-15 01:08:07.387 [main] DEBUG nextflow.processor.TaskProcessor - Starting process > NFCORE_RIBOSEQ:PREPARE_GENOME:CUSTOM_GETCHROMSIZES Mar-15 01:08:07.388 [main] DEBUG nextflow.processor.TaskProcessor - Starting process > NFCORE_RIBOSEQ:PREPARE_GENOME:SORTMERNA_INDEX Mar-15 01:08:07.388 [main] DEBUG nextflow.processor.TaskProcessor - Starting process > NFCORE_RIBOSEQ:PREPARE_GENOME:STAR_GENOMEGENERATE_IGENOMES Mar-15 01:08:07.388 [main] DEBUG nextflow.processor.TaskProcessor - Starting process > NFCORE_RIBOSEQ:RIBOSEQ:PREPROCESS_RNASEQ:CAT_FASTQ Mar-15 01:08:07.389 [main] DEBUG nextflow.processor.TaskProcessor - Starting process > NFCORE_RIBOSEQ:RIBOSEQ:PREPROCESS_RNASEQ:FASTQ_FASTQC_UMITOOLS_FASTP:FASTQC_RAW Mar-15 01:08:07.389 [main] DEBUG nextflow.processor.TaskProcessor - Starting process > NFCORE_RIBOSEQ:RIBOSEQ:PREPROCESS_RNASEQ:FASTQ_FASTQC_UMITOOLS_FASTP:FASTP Mar-15 01:08:07.389 [main] DEBUG nextflow.processor.TaskProcessor - Starting process > NFCORE_RIBOSEQ:RIBOSEQ:PREPROCESS_RNASEQ:FASTQ_FASTQC_UMITOOLS_FASTP:FASTQC_TRIM Mar-15 01:08:07.390 [main] DEBUG nextflow.processor.TaskProcessor - Starting process > NFCORE_RIBOSEQ:RIBOSEQ:PREPROCESS_RNASEQ:SORTMERNA Mar-15 01:08:07.390 [main] DEBUG nextflow.processor.TaskProcessor - Starting process > NFCORE_RIBOSEQ:RIBOSEQ:PREPROCESS_RNASEQ:FASTQ_SUBSAMPLE_FQ_SALMON:SALMON_INDEX Mar-15 01:08:07.390 [main] DEBUG nextflow.processor.TaskProcessor - Starting process > NFCORE_RIBOSEQ:RIBOSEQ:PREPROCESS_RNASEQ:FASTQ_SUBSAMPLE_FQ_SALMON:FQ_SUBSAMPLE Mar-15 01:08:07.390 [main] DEBUG nextflow.processor.TaskProcessor - Starting process > NFCORE_RIBOSEQ:RIBOSEQ:PREPROCESS_RNASEQ:FASTQ_SUBSAMPLE_FQ_SALMON:SALMON_QUANT Mar-15 01:08:07.390 [main] DEBUG nextflow.processor.TaskProcessor - Starting process > NFCORE_RIBOSEQ:RIBOSEQ:FASTQ_ALIGN_STAR:STAR_ALIGN Mar-15 01:08:07.391 [main] DEBUG nextflow.processor.TaskProcessor - Starting process > NFCORE_RIBOSEQ:RIBOSEQ:FASTQ_ALIGN_STAR:BAM_SORT_STATS_SAMTOOLS_GENOME:SAMTOOLS_SORT Mar-15 01:08:07.391 [main] DEBUG nextflow.processor.TaskProcessor - Starting process > NFCORE_RIBOSEQ:RIBOSEQ:FASTQ_ALIGN_STAR:BAM_SORT_STATS_SAMTOOLS_GENOME:SAMTOOLS_INDEX Mar-15 01:08:07.391 [main] DEBUG nextflow.processor.TaskProcessor - Starting process > NFCORE_RIBOSEQ:RIBOSEQ:FASTQ_ALIGN_STAR:BAM_SORT_STATS_SAMTOOLS_GENOME:BAM_STATS_SAMTOOLS:SAMTOOLS_STATS Mar-15 01:08:07.391 [main] DEBUG nextflow.processor.TaskProcessor - Starting process > NFCORE_RIBOSEQ:RIBOSEQ:FASTQ_ALIGN_STAR:BAM_SORT_STATS_SAMTOOLS_GENOME:BAM_STATS_SAMTOOLS:SAMTOOLS_FLAGSTAT Mar-15 01:08:07.392 [main] DEBUG nextflow.processor.TaskProcessor - Starting process > NFCORE_RIBOSEQ:RIBOSEQ:FASTQ_ALIGN_STAR:BAM_SORT_STATS_SAMTOOLS_GENOME:BAM_STATS_SAMTOOLS:SAMTOOLS_IDXSTATS Mar-15 01:08:07.392 [main] DEBUG nextflow.processor.TaskProcessor - Starting process > NFCORE_RIBOSEQ:RIBOSEQ:FASTQ_ALIGN_STAR:BAM_SORT_STATS_SAMTOOLS_TRANSCRIPTOME:SAMTOOLS_SORT Mar-15 01:08:07.392 [main] DEBUG nextflow.processor.TaskProcessor - Starting process > NFCORE_RIBOSEQ:RIBOSEQ:FASTQ_ALIGN_STAR:BAM_SORT_STATS_SAMTOOLS_TRANSCRIPTOME:SAMTOOLS_INDEX Mar-15 01:08:07.392 [main] DEBUG nextflow.processor.TaskProcessor - Starting process > NFCORE_RIBOSEQ:RIBOSEQ:FASTQ_ALIGN_STAR:BAM_SORT_STATS_SAMTOOLS_TRANSCRIPTOME:BAM_STATS_SAMTOOLS:SAMTOOLS_STATS Mar-15 01:08:07.392 [main] DEBUG nextflow.processor.TaskProcessor - Starting process > NFCORE_RIBOSEQ:RIBOSEQ:FASTQ_ALIGN_STAR:BAM_SORT_STATS_SAMTOOLS_TRANSCRIPTOME:BAM_STATS_SAMTOOLS:SAMTOOLS_FLAGSTAT Mar-15 01:08:07.393 [main] DEBUG nextflow.processor.TaskProcessor - Starting process > NFCORE_RIBOSEQ:RIBOSEQ:FASTQ_ALIGN_STAR:BAM_SORT_STATS_SAMTOOLS_TRANSCRIPTOME:BAM_STATS_SAMTOOLS:SAMTOOLS_IDXSTATS Mar-15 01:08:07.393 [main] DEBUG nextflow.processor.TaskProcessor - Starting process > NFCORE_RIBOSEQ:RIBOSEQ:RIBOTISH_QUALITY_RIBOSEQ Mar-15 01:08:07.393 [main] DEBUG nextflow.processor.TaskProcessor - Starting process > NFCORE_RIBOSEQ:RIBOSEQ:RIBOTISH_PREDICT_INDIVIDUAL Mar-15 01:08:07.393 [main] DEBUG nextflow.processor.TaskProcessor - Starting process > NFCORE_RIBOSEQ:RIBOSEQ:RIBOTISH_PREDICT_ALL Mar-15 01:08:07.393 [main] DEBUG nextflow.processor.TaskProcessor - Starting process > NFCORE_RIBOSEQ:RIBOSEQ:RIBOTRICER_PREPAREORFS Mar-15 01:08:07.393 [main] DEBUG nextflow.processor.TaskProcessor - Starting process > NFCORE_RIBOSEQ:RIBOSEQ:RIBOTRICER_DETECTORFS Mar-15 01:08:07.393 [main] DEBUG nextflow.processor.TaskProcessor - Starting process > NFCORE_RIBOSEQ:RIBOSEQ:QUANTIFY_STAR_SALMON:SALMON_QUANT Mar-15 01:08:07.393 [main] DEBUG nextflow.processor.TaskProcessor - Starting process > NFCORE_RIBOSEQ:RIBOSEQ:QUANTIFY_STAR_SALMON:CUSTOM_TX2GENE Mar-15 01:08:07.394 [main] DEBUG nextflow.processor.TaskProcessor - Starting process > NFCORE_RIBOSEQ:RIBOSEQ:QUANTIFY_STAR_SALMON:TXIMETA_TXIMPORT Mar-15 01:08:07.394 [main] DEBUG nextflow.processor.TaskProcessor - Starting process > NFCORE_RIBOSEQ:RIBOSEQ:QUANTIFY_STAR_SALMON:SE_GENE Mar-15 01:08:07.394 [main] DEBUG nextflow.processor.TaskProcessor - Starting process > NFCORE_RIBOSEQ:RIBOSEQ:QUANTIFY_STAR_SALMON:SE_GENE_LENGTH_SCALED Mar-15 01:08:07.394 [main] DEBUG nextflow.processor.TaskProcessor - Starting process > NFCORE_RIBOSEQ:RIBOSEQ:QUANTIFY_STAR_SALMON:SE_GENE_SCALED Mar-15 01:08:07.394 [main] DEBUG nextflow.processor.TaskProcessor - Starting process > NFCORE_RIBOSEQ:RIBOSEQ:QUANTIFY_STAR_SALMON:SE_TRANSCRIPT Mar-15 01:08:07.407 [main] DEBUG nextflow.processor.TaskProcessor - Starting process > NFCORE_RIBOSEQ:RIBOSEQ:MULTIQC Mar-15 01:08:07.412 [main] DEBUG nextflow.script.ScriptRunner - Parsed script files: Script_9050fb46fdaebd04: /root/.nextflow/assets/nf-core/riboseq/./subworkflows/local/utils_nfcore_riboseq_pipeline/main.nf Script_979c946a07ad1cac: /root/.nextflow/assets/nf-core/riboseq/./workflows/riboseq/../../subworkflows/nf-core/preprocess_rnaseq/main.nf Script_56c7c9e8363ee20a: /root/.nextflow/assets/nf-core/riboseq/./workflows/riboseq/../../subworkflows/nf-core/quantify_pseudo_alignment/../../../modules/nf-core/custom/tx2gene/main.nf Script_b4e3753ed1e86538: /root/.nextflow/assets/nf-core/riboseq/./workflows/riboseq/../../modules/nf-core/ribotish/predict/main.nf Script_cdbce3e23a8f89e8: /root/.nextflow/assets/nf-core/riboseq/./workflows/riboseq/../../subworkflows/nf-core/fastq_align_star/../bam_sort_stats_samtools/../bam_stats_samtools/main.nf Script_5c4560275caa26e0: /root/.nextflow/assets/nf-core/riboseq/./workflows/riboseq/../../subworkflows/nf-core/preprocess_rnaseq/../fastq_subsample_fq_salmon/../../../modules/nf-core/fq/subsample/main.nf Script_983a07b901a9adda: /root/.nextflow/assets/nf-core/riboseq/./subworkflows/local/prepare_genome/main.nf Script_4133e0a81c0b1738: /root/.nextflow/assets/nf-core/riboseq/./workflows/riboseq/../../subworkflows/nf-core/fastq_align_star/main.nf Script_34a6e65ee7dbdbe0: /root/.nextflow/assets/nf-core/riboseq/./subworkflows/local/utils_nfcore_riboseq_pipeline/../../nf-core/utils_nextflow_pipeline/main.nf Script_a7d371fe23db7aab: /root/.nextflow/assets/nf-core/riboseq/./subworkflows/local/utils_nfcore_riboseq_pipeline/../../nf-core/utils_nfvalidation_plugin/main.nf Script_07de1df82deeb8cc: /root/.nextflow/assets/nf-core/riboseq/./subworkflows/local/prepare_genome/../../../modules/local/gtf_filter/main.nf Script_11299cb12a111d0f: /root/.nextflow/assets/nf-core/riboseq/./workflows/riboseq/../../modules/nf-core/multiqc/main.nf Script_ea16bfd655128080: /root/.nextflow/assets/nf-core/riboseq/./subworkflows/local/prepare_genome/../../../modules/nf-core/gffread/main.nf Script_13768c8fee03b0e0: /root/.nextflow/assets/nf-core/riboseq/./subworkflows/local/prepare_genome/../../../modules/nf-core/gunzip/main.nf Script_2b9f5397ae31151f: /root/.nextflow/assets/nf-core/riboseq/./workflows/riboseq/../../subworkflows/nf-core/preprocess_rnaseq/../fastq_fastqc_umitools_trimgalore/../../../modules/nf-core/umitools/extract/main.nf Script_ad119ddb6089cee6: /root/.nextflow/assets/nf-core/riboseq/./subworkflows/local/prepare_genome/../../../modules/local/star_genomegenerate_igenomes/main.nf Script_d8f4ff0ac99235df: /root/.nextflow/assets/nf-core/riboseq/./workflows/riboseq/../../subworkflows/nf-core/quantify_pseudo_alignment/../../../modules/nf-core/kallisto/quant/main.nf Script_c0c1f7456cd59257: /root/.nextflow/assets/nf-core/riboseq/./workflows/riboseq/../../subworkflows/nf-core/preprocess_rnaseq/../fastq_fastqc_umitools_fastp/main.nf Script_b7373d059a020a12: /root/.nextflow/assets/nf-core/riboseq/./workflows/riboseq/../../subworkflows/nf-core/fastq_align_star/../bam_sort_stats_samtools/../bam_stats_samtools/../../../modules/nf-core/samtools/flagstat/main.nf Script_01998db898cee87d: /root/.nextflow/assets/nf-core/riboseq/./workflows/riboseq/../../modules/nf-core/ribotish/quality/main.nf Script_477854bed279b74e: /root/.nextflow/assets/nf-core/riboseq/./workflows/riboseq/../../modules/nf-core/ribotricer/prepareorfs/main.nf Script_2dd67952041c7517: /root/.nextflow/assets/nf-core/riboseq/./workflows/riboseq/../../subworkflows/nf-core/preprocess_rnaseq/../fastq_fastqc_umitools_trimgalore/../../../modules/nf-core/trimgalore/main.nf Script_15a6f18236447b08: /root/.nextflow/assets/nf-core/riboseq/./workflows/riboseq/../../subworkflows/nf-core/preprocess_rnaseq/../../../modules/nf-core/cat/fastq/main.nf Script_be0adedc591c66cc: /root/.nextflow/assets/nf-core/riboseq/./workflows/riboseq/../../subworkflows/nf-core/utils_nfcore_pipeline/main.nf Script_ca3483cfbba7127f: /root/.nextflow/assets/nf-core/riboseq/./workflows/riboseq/../../subworkflows/nf-core/preprocess_rnaseq/../fastq_fastqc_umitools_trimgalore/../../../modules/nf-core/fastqc/main.nf Script_acf3fcc4a29b6c69: /root/.nextflow/assets/nf-core/riboseq/./workflows/riboseq/../../subworkflows/nf-core/bam_dedup_stats_samtools_umitools/../bam_stats_samtools/../../../modules/nf-core/samtools/idxstats/main.nf Script_ed09b821209fd04c: /root/.nextflow/assets/nf-core/riboseq/./workflows/riboseq/../../subworkflows/nf-core/fastq_align_star/../bam_sort_stats_samtools/../bam_stats_samtools/../../../modules/nf-core/samtools/stats/main.nf Script_53b21a7d2b16f89f: /root/.nextflow/assets/nf-core/riboseq/./subworkflows/local/prepare_genome/../../../modules/nf-core/rsem/preparereference/main.nf Script_869203474861dfb0: /root/.nextflow/assets/nf-core/riboseq/./workflows/riboseq/../../modules/nf-core/anota2seq/anota2seqrun/main.nf Script_4e7a3787780b0b2e: /root/.nextflow/assets/nf-core/riboseq/./subworkflows/local/prepare_genome/../../../modules/nf-core/salmon/index/main.nf Script_6012db1a2adb3e63: /root/.nextflow/assets/nf-core/riboseq/./workflows/riboseq/../../subworkflows/nf-core/quantify_pseudo_alignment/../../../modules/nf-core/summarizedexperiment/summarizedexperiment/main.nf Script_c38f83fffce1ef83: /root/.nextflow/assets/nf-core/riboseq/./subworkflows/local/prepare_genome/../../../modules/nf-core/bbmap/bbsplit/main.nf Script_c8f3946cfec071c8: /root/.nextflow/assets/nf-core/riboseq/./workflows/riboseq/../../modules/nf-core/ribotricer/detectorfs/main.nf Script_9892308df47cf9ae: /root/.nextflow/assets/nf-core/riboseq/./workflows/riboseq/../../modules/nf-core/samtools/sort/main.nf Script_e644fb6da94d4bab: /root/.nextflow/assets/nf-core/riboseq/./subworkflows/local/prepare_genome/../../../modules/nf-core/untar/main.nf Script_4ab78e6cd625daeb: /root/.nextflow/assets/nf-core/riboseq/./subworkflows/local/prepare_genome/../../../modules/local/gtf2bed/main.nf Script_07dc9629fb0b74a6: /root/.nextflow/assets/nf-core/riboseq/./workflows/riboseq/../../subworkflows/nf-core/fastq_align_star/../bam_sort_stats_samtools/../../../modules/nf-core/samtools/index/main.nf Script_f7dbf5a2e7337e7a: /root/.nextflow/assets/nf-core/riboseq/./workflows/riboseq/../../subworkflows/nf-core/bam_dedup_stats_samtools_umitools/../../../modules/nf-core/umitools/dedup/main.nf Script_a25682ea8940372b: /root/.nextflow/assets/nf-core/riboseq/./workflows/riboseq/../../subworkflows/nf-core/bam_dedup_stats_samtools_umitools/main.nf Script_2ca7cd5758ad747b: /root/.nextflow/assets/nf-core/riboseq/main.nf Script_46a454df7d282756: /root/.nextflow/assets/nf-core/riboseq/./subworkflows/local/prepare_genome/../../../modules/nf-core/custom/getchromsizes/main.nf Script_98dc20ee9de94b1e: /root/.nextflow/assets/nf-core/riboseq/./workflows/riboseq/main.nf Script_8b4cd5023b0747bc: /root/.nextflow/assets/nf-core/riboseq/./subworkflows/local/prepare_genome/../../../modules/nf-core/star/genomegenerate/main.nf Script_da05a45d4fc5617e: /root/.nextflow/assets/nf-core/riboseq/./workflows/riboseq/../../subworkflows/nf-core/preprocess_rnaseq/../../../modules/nf-core/sortmerna/main.nf Script_3d373e9ea7e32c45: /root/.nextflow/assets/nf-core/riboseq/./workflows/riboseq/../../subworkflows/nf-core/preprocess_rnaseq/../fastq_subsample_fq_salmon/main.nf Script_04d488c7ab8c434e: /root/.nextflow/assets/nf-core/riboseq/./subworkflows/local/prepare_genome/../../../modules/local/preprocess_transcripts_fasta_gencode/main.nf Script_c3f4bd3b3e600606: /root/.nextflow/assets/nf-core/riboseq/./workflows/riboseq/../../subworkflows/nf-core/quantify_pseudo_alignment/main.nf Script_4188f1e26d9398e8: /root/.nextflow/assets/nf-core/riboseq/./workflows/riboseq/../../subworkflows/nf-core/preprocess_rnaseq/../fastq_subsample_fq_salmon/../../../modules/nf-core/salmon/quant/main.nf Script_6832762354939fbb: /root/.nextflow/assets/nf-core/riboseq/./workflows/riboseq/../../subworkflows/nf-core/fastq_align_star/../../../modules/nf-core/star/align/main.nf Script_2b72a5be5c8fe209: /root/.nextflow/assets/nf-core/riboseq/./workflows/riboseq/../../subworkflows/nf-core/quantify_pseudo_alignment/../../../modules/nf-core/tximeta/tximport/main.nf Script_5f794e9468aa1f6f: /root/.nextflow/assets/nf-core/riboseq/./workflows/riboseq/../../subworkflows/nf-core/preprocess_rnaseq/../fastq_fastqc_umitools_trimgalore/main.nf Script_7bdb792340bdcbe3: /root/.nextflow/assets/nf-core/riboseq/./workflows/riboseq/../../subworkflows/nf-core/preprocess_rnaseq/../fastq_fastqc_umitools_fastp/../../../modules/nf-core/fastp/main.nf Script_2dde07cf67b09492: /root/.nextflow/assets/nf-core/riboseq/./subworkflows/local/prepare_genome/../../../modules/nf-core/custom/catadditionalfasta/main.nf Script_e76b9210f32f34ec: /root/.nextflow/assets/nf-core/riboseq/./workflows/riboseq/../../modules/nf-core/umitools/prepareforrsem/main.nf Script_2ebe1d1a775a7432: /root/.nextflow/assets/nf-core/riboseq/./workflows/riboseq/../../subworkflows/nf-core/fastq_align_star/../bam_sort_stats_samtools/main.nf Mar-15 01:08:07.412 [main] DEBUG nextflow.script.ScriptRunner - > Awaiting termination Mar-15 01:08:07.412 [main] DEBUG nextflow.Session - Session await Mar-15 01:08:07.424 [Actor Thread 30] DEBUG nextflow.file.FileCollector - Deleting file collector temp dir: /tmp/nxf-4880370140919470742 Mar-15 01:08:07.648 [Actor Thread 24] DEBUG nextflow.sort.BigSort - Sort completed -- entries: 1; slices: 1; internal sort time: 0.002 s; external sort time: 0.023 s; total time: 0.025 s Mar-15 01:08:07.795 [Actor Thread 24] DEBUG nextflow.file.FileCollector - Saved collect-files list to: /media/manoj/Data/Manoj/Riboseq/work/collect-file/fe350883d323c496e74e44f05e9d0d90 Mar-15 01:08:07.804 [Actor Thread 24] DEBUG nextflow.file.FileCollector - Deleting file collector temp dir: /tmp/nxf-9525763433585584249 Mar-15 01:08:07.926 [Task submitter] DEBUG n.executor.local.LocalTaskHandler - Launch cmd line: /bin/bash -ue .command.run Mar-15 01:08:07.929 [Task submitter] INFO nextflow.Session - [5d/1ea0e9] Submitted process > NFCORE_RIBOSEQ:RIBOSEQ:PREPROCESS_RNASEQ:FASTQ_FASTQC_UMITOOLS_FASTP:FASTP (Control) Mar-15 01:08:07.952 [Task submitter] DEBUG n.executor.local.LocalTaskHandler - Launch cmd line: /bin/bash -ue .command.run Mar-15 01:08:07.954 [Task submitter] INFO nextflow.Session - [0f/79b7f4] Submitted process > NFCORE_RIBOSEQ:RIBOSEQ:PREPROCESS_RNASEQ:FASTQ_FASTQC_UMITOOLS_FASTP:FASTQC_RAW (Control) Mar-15 01:08:07.971 [Task submitter] DEBUG n.executor.local.LocalTaskHandler - Launch cmd line: /bin/bash -ue .command.run Mar-15 01:08:07.972 [Task submitter] INFO nextflow.Session - [95/0b748f] Submitted process > NFCORE_RIBOSEQ:RIBOSEQ:PREPROCESS_RNASEQ:FASTQ_FASTQC_UMITOOLS_FASTP:FASTQC_RAW (Treated) Mar-15 01:08:07.987 [Task submitter] DEBUG n.executor.local.LocalTaskHandler - Launch cmd line: /bin/bash -ue .command.run Mar-15 01:08:07.988 [Task submitter] INFO nextflow.Session - [55/7a3fac] Submitted process > NFCORE_RIBOSEQ:RIBOSEQ:PREPROCESS_RNASEQ:FASTQ_FASTQC_UMITOOLS_FASTP:FASTP (Treated) Mar-15 01:08:09.547 [Actor Thread 13] DEBUG n.c.aws.util.S3CredentialsProvider - No AWS credentials available - falling back to anonymous access Mar-15 01:08:12.712 [FileTransfer-1] DEBUG nextflow.file.FilePorter - Copying foreign file s3://ngi-igenomes/igenomes/Mus_musculus/UCSC/mm10/Sequence/WholeGenomeFasta/genome.fa to work dir: /media/manoj/Data/Manoj/Riboseq/work/stage-0e9e3fd0-3140-4f52-87bf-78f6c344dbdd/d9/adbc1b807179c06ae9ca76ebe10cde/genome.fa Mar-15 01:08:12.713 [FileTransfer-2] DEBUG nextflow.file.FilePorter - Copying foreign file s3://ngi-igenomes/igenomes/Mus_musculus/UCSC/mm10/Annotation/Genes/genes.gtf to work dir: /media/manoj/Data/Manoj/Riboseq/work/stage-0e9e3fd0-3140-4f52-87bf-78f6c344dbdd/31/38f05479e5ca3c7df0e4fe7a1876f1/genes.gtf Mar-15 01:08:12.879 [FileTransfer-2] DEBUG n.cloud.aws.nio.S3FileSystemProvider - S3 download file from=s3://ngi-igenomes/igenomes/Mus_musculus/UCSC/mm10/Annotation/Genes/genes.gtf to=/media/manoj/Data/Manoj/Riboseq/work/stage-0e9e3fd0-3140-4f52-87bf-78f6c344dbdd/31/38f05479e5ca3c7df0e4fe7a1876f1/genes.gtf Mar-15 01:08:12.879 [FileTransfer-2] DEBUG nextflow.cloud.aws.nio.S3Client - Creating S3 transfer manager pool - chunk-size=104857600; max-treads=10; Mar-15 01:08:12.880 [FileTransfer-2] DEBUG nextflow.util.ThreadPoolBuilder - Creating thread pool 'S3TransferManager' minSize=10; maxSize=10; workQueue=LinkedBlockingQueue[10000]; allowCoreThreadTimeout=false Mar-15 01:08:13.251 [FileTransfer-1] DEBUG n.cloud.aws.nio.S3FileSystemProvider - S3 download file from=s3://ngi-igenomes/igenomes/Mus_musculus/UCSC/mm10/Sequence/WholeGenomeFasta/genome.fa to=/media/manoj/Data/Manoj/Riboseq/work/stage-0e9e3fd0-3140-4f52-87bf-78f6c344dbdd/d9/adbc1b807179c06ae9ca76ebe10cde/genome.fa Mar-15 01:08:14.712 [Actor Thread 23] INFO nextflow.file.FilePorter - Staging foreign file: s3://ngi-igenomes/igenomes/Mus_musculus/UCSC/mm10/Sequence/WholeGenomeFasta/genome.fa Mar-15 01:08:16.527 [FileTransfer-3] DEBUG nextflow.file.FilePorter - Copying foreign file https://raw.githubusercontent.com/biocore/sortmerna/v4.3.4/data/rRNA_databases/rfam-5.8s-database-id98.fasta to work dir: /media/manoj/Data/Manoj/Riboseq/work/stage-0e9e3fd0-3140-4f52-87bf-78f6c344dbdd/2d/bbed4fec1dfc5064aad4b4b41ca1f0/rfam-5.8s-database-id98.fasta Mar-15 01:08:16.527 [FileTransfer-4] DEBUG nextflow.file.FilePorter - Copying foreign file https://raw.githubusercontent.com/biocore/sortmerna/v4.3.4/data/rRNA_databases/rfam-5s-database-id98.fasta to work dir: /media/manoj/Data/Manoj/Riboseq/work/stage-0e9e3fd0-3140-4f52-87bf-78f6c344dbdd/48/5e69e46a6a5b7e90d6d355bbe75264/rfam-5s-database-id98.fasta Mar-15 01:08:16.528 [FileTransfer-5] DEBUG nextflow.file.FilePorter - Copying foreign file https://raw.githubusercontent.com/biocore/sortmerna/v4.3.4/data/rRNA_databases/silva-arc-16s-id95.fasta to work dir: /media/manoj/Data/Manoj/Riboseq/work/stage-0e9e3fd0-3140-4f52-87bf-78f6c344dbdd/b6/1134366eed6382e7394e967f0e96a9/silva-arc-16s-id95.fasta Mar-15 01:08:16.528 [FileTransfer-6] DEBUG nextflow.file.FilePorter - Copying foreign file https://raw.githubusercontent.com/biocore/sortmerna/v4.3.4/data/rRNA_databases/silva-arc-23s-id98.fasta to work dir: /media/manoj/Data/Manoj/Riboseq/work/stage-0e9e3fd0-3140-4f52-87bf-78f6c344dbdd/6f/976cf18eb34d568e25fc93b77892e5/silva-arc-23s-id98.fasta Mar-15 01:08:16.529 [FileTransfer-7] DEBUG nextflow.file.FilePorter - Copying foreign file https://raw.githubusercontent.com/biocore/sortmerna/v4.3.4/data/rRNA_databases/silva-bac-16s-id90.fasta to work dir: /media/manoj/Data/Manoj/Riboseq/work/stage-0e9e3fd0-3140-4f52-87bf-78f6c344dbdd/ae/e473bb2171ea40b427da74aa38712f/silva-bac-16s-id90.fasta Mar-15 01:08:16.530 [FileTransfer-8] DEBUG nextflow.file.FilePorter - Copying foreign file https://raw.githubusercontent.com/biocore/sortmerna/v4.3.4/data/rRNA_databases/silva-bac-23s-id98.fasta to work dir: /media/manoj/Data/Manoj/Riboseq/work/stage-0e9e3fd0-3140-4f52-87bf-78f6c344dbdd/15/22ed6423c4016e72d9a1291f1338e3/silva-bac-23s-id98.fasta Mar-15 01:08:16.530 [FileTransfer-9] DEBUG nextflow.file.FilePorter - Copying foreign file https://raw.githubusercontent.com/biocore/sortmerna/v4.3.4/data/rRNA_databases/silva-euk-18s-id95.fasta to work dir: /media/manoj/Data/Manoj/Riboseq/work/stage-0e9e3fd0-3140-4f52-87bf-78f6c344dbdd/c2/d3227c44ca28d2e005b7170bd10dc2/silva-euk-18s-id95.fasta Mar-15 01:08:16.531 [FileTransfer-10] DEBUG nextflow.file.FilePorter - Copying foreign file https://raw.githubusercontent.com/biocore/sortmerna/v4.3.4/data/rRNA_databases/silva-euk-28s-id98.fasta to work dir: /media/manoj/Data/Manoj/Riboseq/work/stage-0e9e3fd0-3140-4f52-87bf-78f6c344dbdd/ab/18a0094c46ef0a190455669959190b/silva-euk-28s-id98.fasta Mar-15 01:08:16.712 [Actor Thread 13] INFO nextflow.file.FilePorter - Staging foreign file: s3://ngi-igenomes/igenomes/Mus_musculus/UCSC/mm10/Annotation/Genes/genes.gtf Mar-15 01:11:19.916 [Actor Thread 13] DEBUG nextflow.util.HashBuilder - Hash asset file sha-256: /root/.nextflow/assets/nf-core/riboseq/bin/filter_gtf.py Mar-15 01:11:20.297 [Task submitter] DEBUG n.executor.local.LocalTaskHandler - Launch cmd line: /bin/bash -ue .command.run Mar-15 01:11:20.298 [Task submitter] INFO nextflow.Session - [7a/6db856] Submitted process > NFCORE_RIBOSEQ:PREPARE_GENOME:CUSTOM_GETCHROMSIZES (genome.fa) Mar-15 01:11:20.318 [Task submitter] DEBUG n.executor.local.LocalTaskHandler - Launch cmd line: /bin/bash -ue .command.run Mar-15 01:11:20.319 [Task submitter] INFO nextflow.Session - [db/1e5eb6] Submitted process > NFCORE_RIBOSEQ:PREPARE_GENOME:GTF_FILTER (genome.fa) Mar-15 01:11:41.382 [Task monitor] DEBUG n.processor.TaskPollingMonitor - Task completed > TaskHandler[id: 1; name: NFCORE_RIBOSEQ:PREPARE_GENOME:CUSTOM_GETCHROMSIZES (genome.fa); status: COMPLETED; exit: 0; error: -; workDir: /media/manoj/Data/Manoj/Riboseq/work/7a/6db85642ef91d721ac46b6d0fc6087] Mar-15 01:11:41.385 [Task monitor] DEBUG nextflow.util.ThreadPoolBuilder - Creating thread pool 'TaskFinalizer' minSize=10; maxSize=96; workQueue=LinkedBlockingQueue[10000]; allowCoreThreadTimeout=false Mar-15 01:11:41.816 [TaskFinalizer-1] DEBUG nextflow.processor.TaskProcessor - Process NFCORE_RIBOSEQ:PREPARE_GENOME:CUSTOM_GETCHROMSIZES > Skipping output binding because one or more optional files are missing: fileoutparam<2:1> Mar-15 01:11:47.493 [Task monitor] DEBUG n.processor.TaskPollingMonitor - Task completed > TaskHandler[id: 2; name: NFCORE_RIBOSEQ:PREPARE_GENOME:GTF_FILTER (genome.fa); status: COMPLETED; exit: 0; error: -; workDir: /media/manoj/Data/Manoj/Riboseq/work/db/1e5eb6aa722a84b1023e7c2bcef865] Mar-15 01:11:49.530 [Task submitter] DEBUG n.executor.local.LocalTaskHandler - Launch cmd line: /bin/bash -ue .command.run Mar-15 01:11:49.531 [Task submitter] INFO nextflow.Session - [89/ed5247] Submitted process > NFCORE_RIBOSEQ:RIBOSEQ:RIBOTRICER_PREPAREORFS (null) Mar-15 01:13:05.227 [Task monitor] DEBUG n.processor.TaskPollingMonitor - !! executor local > tasks to be completed: 5 -- submitted tasks are shown below ~> TaskHandler[id: 4; name: NFCORE_RIBOSEQ:RIBOSEQ:PREPROCESS_RNASEQ:FASTQ_FASTQC_UMITOOLS_FASTP:FASTP (Control); status: RUNNING; exit: -; error: -; workDir: /media/manoj/Data/Manoj/Riboseq/work/5d/1ea0e93a8ef2f3edabd955dd058516] ~> TaskHandler[id: 3; name: NFCORE_RIBOSEQ:RIBOSEQ:PREPROCESS_RNASEQ:FASTQ_FASTQC_UMITOOLS_FASTP:FASTQC_RAW (Control); status: RUNNING; exit: -; error: -; workDir: /media/manoj/Data/Manoj/Riboseq/work/0f/79b7f4d88206ba24737d02ce540f52] ~> TaskHandler[id: 6; name: NFCORE_RIBOSEQ:RIBOSEQ:PREPROCESS_RNASEQ:FASTQ_FASTQC_UMITOOLS_FASTP:FASTQC_RAW (Treated); status: RUNNING; exit: -; error: -; workDir: /media/manoj/Data/Manoj/Riboseq/work/95/0b748f671ef66a76576b29074c3952] ~> TaskHandler[id: 5; name: NFCORE_RIBOSEQ:RIBOSEQ:PREPROCESS_RNASEQ:FASTQ_FASTQC_UMITOOLS_FASTP:FASTP (Treated); status: RUNNING; exit: -; error: -; workDir: /media/manoj/Data/Manoj/Riboseq/work/55/7a3fac3011618b7b8e5f2a16abdfc8] ~> TaskHandler[id: 10; name: NFCORE_RIBOSEQ:RIBOSEQ:RIBOTRICER_PREPAREORFS (null); status: RUNNING; exit: -; error: -; workDir: /media/manoj/Data/Manoj/Riboseq/work/89/ed5247d446451f44dc5d4487fd4515] Mar-15 01:13:20.622 [Task submitter] DEBUG n.processor.TaskPollingMonitor - %% executor local > tasks in the submission queue: 3 -- tasks to be submitted are shown below ~> TaskHandler[id: 7; name: NFCORE_RIBOSEQ:PREPARE_GENOME:SORTMERNA_INDEX ([]); status: NEW; exit: -; error: -; workDir: /media/manoj/Data/Manoj/Riboseq/work/94/bdc8416d1525fbaac4dc450dcbd873] ~> TaskHandler[id: 8; name: NFCORE_RIBOSEQ:PREPARE_GENOME:MAKE_TRANSCRIPTS_FASTA (rsem/genome.fa); status: NEW; exit: -; error: -; workDir: /media/manoj/Data/Manoj/Riboseq/work/a7/64b98ad082f6eda906fdc5a9a83935] ~> TaskHandler[id: 9; name: NFCORE_RIBOSEQ:PREPARE_GENOME:STAR_GENOMEGENERATE_IGENOMES (genome.fa); status: NEW; exit: -; error: -; workDir: /media/manoj/Data/Manoj/Riboseq/work/7b/023a6933e71e3331a170f4a26456ce] Mar-15 01:14:29.781 [Task monitor] DEBUG n.processor.TaskPollingMonitor - Task completed > TaskHandler[id: 10; name: NFCORE_RIBOSEQ:RIBOSEQ:RIBOTRICER_PREPAREORFS (null); status: COMPLETED; exit: 0; error: -; workDir: /media/manoj/Data/Manoj/Riboseq/work/89/ed5247d446451f44dc5d4487fd4515] Mar-15 01:14:29.792 [TaskFinalizer-3] DEBUG nextflow.util.ThreadPoolBuilder - Creating thread pool 'PublishDir' minSize=10; maxSize=96; workQueue=LinkedBlockingQueue[10000]; allowCoreThreadTimeout=false Mar-15 01:14:58.941 [Task monitor] DEBUG n.processor.TaskPollingMonitor - Task completed > TaskHandler[id: 5; name: NFCORE_RIBOSEQ:RIBOSEQ:PREPROCESS_RNASEQ:FASTQ_FASTQC_UMITOOLS_FASTP:FASTP (Treated); status: COMPLETED; exit: 0; error: -; workDir: /media/manoj/Data/Manoj/Riboseq/work/55/7a3fac3011618b7b8e5f2a16abdfc8] Mar-15 01:14:58.959 [Task submitter] DEBUG n.executor.local.LocalTaskHandler - Launch cmd line: /bin/bash -ue .command.run Mar-15 01:14:58.960 [Task submitter] INFO nextflow.Session - [94/bdc841] Submitted process > NFCORE_RIBOSEQ:PREPARE_GENOME:SORTMERNA_INDEX ([]) Mar-15 01:14:58.961 [TaskFinalizer-4] DEBUG nextflow.processor.TaskProcessor - Process NFCORE_RIBOSEQ:RIBOSEQ:PREPROCESS_RNASEQ:FASTQ_FASTQC_UMITOOLS_FASTP:FASTP > Skipping output binding because one or more optional files are missing: fileoutparam<5:1> Mar-15 01:14:58.961 [TaskFinalizer-4] DEBUG nextflow.processor.TaskProcessor - Process NFCORE_RIBOSEQ:RIBOSEQ:PREPROCESS_RNASEQ:FASTQ_FASTQC_UMITOOLS_FASTP:FASTP > Skipping output binding because one or more optional files are missing: fileoutparam<6:1> Mar-15 01:15:16.543 [Task monitor] DEBUG n.processor.TaskPollingMonitor - Task completed > TaskHandler[id: 4; name: NFCORE_RIBOSEQ:RIBOSEQ:PREPROCESS_RNASEQ:FASTQ_FASTQC_UMITOOLS_FASTP:FASTP (Control); status: COMPLETED; exit: 0; error: -; workDir: /media/manoj/Data/Manoj/Riboseq/work/5d/1ea0e93a8ef2f3edabd955dd058516] Mar-15 01:15:16.555 [Task submitter] DEBUG n.executor.local.LocalTaskHandler - Launch cmd line: /bin/bash -ue .command.run Mar-15 01:15:16.556 [Task submitter] INFO nextflow.Session - [fc/2c251c] Submitted process > NFCORE_RIBOSEQ:RIBOSEQ:PREPROCESS_RNASEQ:FASTQ_FASTQC_UMITOOLS_FASTP:FASTQC_TRIM (Treated) Mar-15 01:15:16.563 [TaskFinalizer-5] DEBUG nextflow.processor.TaskProcessor - Process NFCORE_RIBOSEQ:RIBOSEQ:PREPROCESS_RNASEQ:FASTQ_FASTQC_UMITOOLS_FASTP:FASTP > Skipping output binding because one or more optional files are missing: fileoutparam<5:1> Mar-15 01:15:16.563 [TaskFinalizer-5] DEBUG nextflow.processor.TaskProcessor - Process NFCORE_RIBOSEQ:RIBOSEQ:PREPROCESS_RNASEQ:FASTQ_FASTQC_UMITOOLS_FASTP:FASTP > Skipping output binding because one or more optional files are missing: fileoutparam<6:1> Mar-15 01:15:16.589 [Actor Thread 23] DEBUG nextflow.file.SortFileCollector - FileCollector temp dir not removed: null Mar-15 01:18:05.302 [Task monitor] DEBUG n.processor.TaskPollingMonitor - !! executor local > tasks to be completed: 4 -- submitted tasks are shown below ~> TaskHandler[id: 3; name: NFCORE_RIBOSEQ:RIBOSEQ:PREPROCESS_RNASEQ:FASTQ_FASTQC_UMITOOLS_FASTP:FASTQC_RAW (Control); status: RUNNING; exit: -; error: -; workDir: /media/manoj/Data/Manoj/Riboseq/work/0f/79b7f4d88206ba24737d02ce540f52] ~> TaskHandler[id: 6; name: NFCORE_RIBOSEQ:RIBOSEQ:PREPROCESS_RNASEQ:FASTQ_FASTQC_UMITOOLS_FASTP:FASTQC_RAW (Treated); status: RUNNING; exit: -; error: -; workDir: /media/manoj/Data/Manoj/Riboseq/work/95/0b748f671ef66a76576b29074c3952] ~> TaskHandler[id: 7; name: NFCORE_RIBOSEQ:PREPARE_GENOME:SORTMERNA_INDEX ([]); status: RUNNING; exit: -; error: -; workDir: /media/manoj/Data/Manoj/Riboseq/work/94/bdc8416d1525fbaac4dc450dcbd873] ~> TaskHandler[id: 11; name: NFCORE_RIBOSEQ:RIBOSEQ:PREPROCESS_RNASEQ:FASTQ_FASTQC_UMITOOLS_FASTP:FASTQC_TRIM (Treated); status: RUNNING; exit: -; error: -; workDir: /media/manoj/Data/Manoj/Riboseq/work/fc/2c251cd4914ae821376dc73e483ea9] Mar-15 01:18:20.679 [Task submitter] DEBUG n.processor.TaskPollingMonitor - %% executor local > tasks in the submission queue: 3 -- tasks to be submitted are shown below ~> TaskHandler[id: 8; name: NFCORE_RIBOSEQ:PREPARE_GENOME:MAKE_TRANSCRIPTS_FASTA (rsem/genome.fa); status: NEW; exit: -; error: -; workDir: /media/manoj/Data/Manoj/Riboseq/work/a7/64b98ad082f6eda906fdc5a9a83935] ~> TaskHandler[id: 9; name: NFCORE_RIBOSEQ:PREPARE_GENOME:STAR_GENOMEGENERATE_IGENOMES (genome.fa); status: NEW; exit: -; error: -; workDir: /media/manoj/Data/Manoj/Riboseq/work/7b/023a6933e71e3331a170f4a26456ce] ~> TaskHandler[id: 12; name: NFCORE_RIBOSEQ:RIBOSEQ:PREPROCESS_RNASEQ:FASTQ_FASTQC_UMITOOLS_FASTP:FASTQC_TRIM (Control); status: NEW; exit: -; error: -; workDir: /media/manoj/Data/Manoj/Riboseq/work/ec/f0fd75379261b5b0354bb8e17347b0] Mar-15 01:19:24.478 [Task monitor] DEBUG n.processor.TaskPollingMonitor - Task completed > TaskHandler[id: 11; name: NFCORE_RIBOSEQ:RIBOSEQ:PREPROCESS_RNASEQ:FASTQ_FASTQC_UMITOOLS_FASTP:FASTQC_TRIM (Treated); status: COMPLETED; exit: 0; error: -; workDir: /media/manoj/Data/Manoj/Riboseq/work/fc/2c251cd4914ae821376dc73e483ea9] Mar-15 01:19:24.497 [Task submitter] DEBUG n.executor.local.LocalTaskHandler - Launch cmd line: /bin/bash -ue .command.run Mar-15 01:19:24.498 [Task submitter] INFO nextflow.Session - [ec/f0fd75] Submitted process > NFCORE_RIBOSEQ:RIBOSEQ:PREPROCESS_RNASEQ:FASTQ_FASTQC_UMITOOLS_FASTP:FASTQC_TRIM (Control) Mar-15 01:19:33.833 [Task monitor] DEBUG n.processor.TaskPollingMonitor - Task completed > TaskHandler[id: 7; name: NFCORE_RIBOSEQ:PREPARE_GENOME:SORTMERNA_INDEX ([]); status: COMPLETED; exit: 0; error: -; workDir: /media/manoj/Data/Manoj/Riboseq/work/94/bdc8416d1525fbaac4dc450dcbd873] Mar-15 01:19:33.842 [TaskFinalizer-7] DEBUG nextflow.processor.TaskProcessor - Process NFCORE_RIBOSEQ:PREPARE_GENOME:SORTMERNA_INDEX > Skipping output binding because one or more optional files are missing: fileoutparam<0:1> Mar-15 01:19:33.842 [TaskFinalizer-7] DEBUG nextflow.processor.TaskProcessor - Process NFCORE_RIBOSEQ:PREPARE_GENOME:SORTMERNA_INDEX > Skipping output binding because one or more optional files are missing: fileoutparam<1:1> Mar-15 01:19:33.844 [Task submitter] DEBUG n.executor.local.LocalTaskHandler - Launch cmd line: /bin/bash -ue .command.run Mar-15 01:19:33.845 [Task submitter] INFO nextflow.Session - [a7/64b98a] Submitted process > NFCORE_RIBOSEQ:PREPARE_GENOME:MAKE_TRANSCRIPTS_FASTA (rsem/genome.fa) Mar-15 01:20:18.863 [Task monitor] DEBUG n.processor.TaskPollingMonitor - Task completed > TaskHandler[id: 8; name: NFCORE_RIBOSEQ:PREPARE_GENOME:MAKE_TRANSCRIPTS_FASTA (rsem/genome.fa); status: COMPLETED; exit: 0; error: -; workDir: /media/manoj/Data/Manoj/Riboseq/work/a7/64b98ad082f6eda906fdc5a9a83935] Mar-15 01:20:18.876 [Task submitter] DEBUG n.executor.local.LocalTaskHandler - Launch cmd line: /bin/bash -ue .command.run Mar-15 01:20:18.877 [Task submitter] INFO nextflow.Session - [7b/023a69] Submitted process > NFCORE_RIBOSEQ:PREPARE_GENOME:STAR_GENOMEGENERATE_IGENOMES (genome.fa) Mar-15 01:20:54.769 [Task monitor] DEBUG n.processor.TaskPollingMonitor - Task completed > TaskHandler[id: 3; name: NFCORE_RIBOSEQ:RIBOSEQ:PREPROCESS_RNASEQ:FASTQ_FASTQC_UMITOOLS_FASTP:FASTQC_RAW (Control); status: COMPLETED; exit: 0; error: -; workDir: /media/manoj/Data/Manoj/Riboseq/work/0f/79b7f4d88206ba24737d02ce540f52] Mar-15 01:21:07.718 [Task monitor] DEBUG n.processor.TaskPollingMonitor - Task completed > TaskHandler[id: 6; name: NFCORE_RIBOSEQ:RIBOSEQ:PREPROCESS_RNASEQ:FASTQ_FASTQC_UMITOOLS_FASTP:FASTQC_RAW (Treated); status: COMPLETED; exit: 0; error: -; workDir: /media/manoj/Data/Manoj/Riboseq/work/95/0b748f671ef66a76576b29074c3952] Mar-15 01:21:07.733 [Task submitter] DEBUG n.executor.local.LocalTaskHandler - Launch cmd line: /bin/bash -ue .command.run Mar-15 01:21:07.733 [Task submitter] INFO nextflow.Session - [90/38706e] Submitted process > NFCORE_RIBOSEQ:RIBOSEQ:PREPROCESS_RNASEQ:SORTMERNA (Control) Mar-15 01:23:05.385 [Task monitor] DEBUG n.processor.TaskPollingMonitor - !! executor local > tasks to be completed: 3 -- submitted tasks are shown below ~> TaskHandler[id: 12; name: NFCORE_RIBOSEQ:RIBOSEQ:PREPROCESS_RNASEQ:FASTQ_FASTQC_UMITOOLS_FASTP:FASTQC_TRIM (Control); status: RUNNING; exit: -; error: -; workDir: /media/manoj/Data/Manoj/Riboseq/work/ec/f0fd75379261b5b0354bb8e17347b0] ~> TaskHandler[id: 9; name: NFCORE_RIBOSEQ:PREPARE_GENOME:STAR_GENOMEGENERATE_IGENOMES (genome.fa); status: RUNNING; exit: -; error: -; workDir: /media/manoj/Data/Manoj/Riboseq/work/7b/023a6933e71e3331a170f4a26456ce] ~> TaskHandler[id: 14; name: NFCORE_RIBOSEQ:RIBOSEQ:PREPROCESS_RNASEQ:SORTMERNA (Control); status: RUNNING; exit: -; error: -; workDir: /media/manoj/Data/Manoj/Riboseq/work/90/38706e8a2818b155bdeb9a7d4d134a] Mar-15 01:23:20.797 [Task submitter] DEBUG n.processor.TaskPollingMonitor - %% executor local > tasks in the submission queue: 1 -- tasks to be submitted are shown below ~> TaskHandler[id: 13; name: NFCORE_RIBOSEQ:RIBOSEQ:PREPROCESS_RNASEQ:SORTMERNA (Treated); status: NEW; exit: -; error: -; workDir: /media/manoj/Data/Manoj/Riboseq/work/52/b815cfde8ab711fe08b07fb80c7ba3] Mar-15 01:27:52.924 [Task monitor] DEBUG n.processor.TaskPollingMonitor - Task completed > TaskHandler[id: 12; name: NFCORE_RIBOSEQ:RIBOSEQ:PREPROCESS_RNASEQ:FASTQ_FASTQC_UMITOOLS_FASTP:FASTQC_TRIM (Control); status: COMPLETED; exit: 0; error: -; workDir: /media/manoj/Data/Manoj/Riboseq/work/ec/f0fd75379261b5b0354bb8e17347b0] Mar-15 01:28:05.444 [Task monitor] DEBUG n.processor.TaskPollingMonitor - !! executor local > tasks to be completed: 2 -- submitted tasks are shown below ~> TaskHandler[id: 9; name: NFCORE_RIBOSEQ:PREPARE_GENOME:STAR_GENOMEGENERATE_IGENOMES (genome.fa); status: RUNNING; exit: -; error: -; workDir: /media/manoj/Data/Manoj/Riboseq/work/7b/023a6933e71e3331a170f4a26456ce] ~> TaskHandler[id: 14; name: NFCORE_RIBOSEQ:RIBOSEQ:PREPROCESS_RNASEQ:SORTMERNA (Control); status: RUNNING; exit: -; error: -; workDir: /media/manoj/Data/Manoj/Riboseq/work/90/38706e8a2818b155bdeb9a7d4d134a] Mar-15 01:28:20.939 [Task submitter] DEBUG n.processor.TaskPollingMonitor - %% executor local > tasks in the submission queue: 1 -- tasks to be submitted are shown below ~> TaskHandler[id: 13; name: NFCORE_RIBOSEQ:RIBOSEQ:PREPROCESS_RNASEQ:SORTMERNA (Treated); status: NEW; exit: -; error: -; workDir: /media/manoj/Data/Manoj/Riboseq/work/52/b815cfde8ab711fe08b07fb80c7ba3] Mar-15 01:33:05.453 [Task monitor] DEBUG n.processor.TaskPollingMonitor - !! executor local > tasks to be completed: 2 -- submitted tasks are shown below ~> TaskHandler[id: 9; name: NFCORE_RIBOSEQ:PREPARE_GENOME:STAR_GENOMEGENERATE_IGENOMES (genome.fa); status: RUNNING; exit: -; error: -; workDir: /media/manoj/Data/Manoj/Riboseq/work/7b/023a6933e71e3331a170f4a26456ce] ~> TaskHandler[id: 14; name: NFCORE_RIBOSEQ:RIBOSEQ:PREPROCESS_RNASEQ:SORTMERNA (Control); status: RUNNING; exit: -; error: -; workDir: /media/manoj/Data/Manoj/Riboseq/work/90/38706e8a2818b155bdeb9a7d4d134a] Mar-15 01:33:21.084 [Task submitter] DEBUG n.processor.TaskPollingMonitor - %% executor local > tasks in the submission queue: 1 -- tasks to be submitted are shown below ~> TaskHandler[id: 13; name: NFCORE_RIBOSEQ:RIBOSEQ:PREPROCESS_RNASEQ:SORTMERNA (Treated); status: NEW; exit: -; error: -; workDir: /media/manoj/Data/Manoj/Riboseq/work/52/b815cfde8ab711fe08b07fb80c7ba3] Mar-15 01:38:05.486 [Task monitor] DEBUG n.processor.TaskPollingMonitor - !! executor local > tasks to be completed: 2 -- submitted tasks are shown below ~> TaskHandler[id: 9; name: NFCORE_RIBOSEQ:PREPARE_GENOME:STAR_GENOMEGENERATE_IGENOMES (genome.fa); status: RUNNING; exit: -; error: -; workDir: /media/manoj/Data/Manoj/Riboseq/work/7b/023a6933e71e3331a170f4a26456ce] ~> TaskHandler[id: 14; name: NFCORE_RIBOSEQ:RIBOSEQ:PREPROCESS_RNASEQ:SORTMERNA (Control); status: RUNNING; exit: -; error: -; workDir: /media/manoj/Data/Manoj/Riboseq/work/90/38706e8a2818b155bdeb9a7d4d134a] Mar-15 01:38:21.220 [Task submitter] DEBUG n.processor.TaskPollingMonitor - %% executor local > tasks in the submission queue: 1 -- tasks to be submitted are shown below ~> TaskHandler[id: 13; name: NFCORE_RIBOSEQ:RIBOSEQ:PREPROCESS_RNASEQ:SORTMERNA (Treated); status: NEW; exit: -; error: -; workDir: /media/manoj/Data/Manoj/Riboseq/work/52/b815cfde8ab711fe08b07fb80c7ba3] Mar-15 01:43:05.519 [Task monitor] DEBUG n.processor.TaskPollingMonitor - !! executor local > tasks to be completed: 2 -- submitted tasks are shown below ~> TaskHandler[id: 9; name: NFCORE_RIBOSEQ:PREPARE_GENOME:STAR_GENOMEGENERATE_IGENOMES (genome.fa); status: RUNNING; exit: -; error: -; workDir: /media/manoj/Data/Manoj/Riboseq/work/7b/023a6933e71e3331a170f4a26456ce] ~> TaskHandler[id: 14; name: NFCORE_RIBOSEQ:RIBOSEQ:PREPROCESS_RNASEQ:SORTMERNA (Control); status: RUNNING; exit: -; error: -; workDir: /media/manoj/Data/Manoj/Riboseq/work/90/38706e8a2818b155bdeb9a7d4d134a] Mar-15 01:43:21.343 [Task submitter] DEBUG n.processor.TaskPollingMonitor - %% executor local > tasks in the submission queue: 1 -- tasks to be submitted are shown below ~> TaskHandler[id: 13; name: NFCORE_RIBOSEQ:RIBOSEQ:PREPROCESS_RNASEQ:SORTMERNA (Treated); status: NEW; exit: -; error: -; workDir: /media/manoj/Data/Manoj/Riboseq/work/52/b815cfde8ab711fe08b07fb80c7ba3] Mar-15 01:48:05.605 [Task monitor] DEBUG n.processor.TaskPollingMonitor - !! executor local > tasks to be completed: 2 -- submitted tasks are shown below ~> TaskHandler[id: 9; name: NFCORE_RIBOSEQ:PREPARE_GENOME:STAR_GENOMEGENERATE_IGENOMES (genome.fa); status: RUNNING; exit: -; error: -; workDir: /media/manoj/Data/Manoj/Riboseq/work/7b/023a6933e71e3331a170f4a26456ce] ~> TaskHandler[id: 14; name: NFCORE_RIBOSEQ:RIBOSEQ:PREPROCESS_RNASEQ:SORTMERNA (Control); status: RUNNING; exit: -; error: -; workDir: /media/manoj/Data/Manoj/Riboseq/work/90/38706e8a2818b155bdeb9a7d4d134a] Mar-15 01:48:21.468 [Task submitter] DEBUG n.processor.TaskPollingMonitor - %% executor local > tasks in the submission queue: 1 -- tasks to be submitted are shown below ~> TaskHandler[id: 13; name: NFCORE_RIBOSEQ:RIBOSEQ:PREPROCESS_RNASEQ:SORTMERNA (Treated); status: NEW; exit: -; error: -; workDir: /media/manoj/Data/Manoj/Riboseq/work/52/b815cfde8ab711fe08b07fb80c7ba3] Mar-15 01:51:15.078 [Task monitor] DEBUG n.processor.TaskPollingMonitor - Task completed > TaskHandler[id: 9; name: NFCORE_RIBOSEQ:PREPARE_GENOME:STAR_GENOMEGENERATE_IGENOMES (genome.fa); status: COMPLETED; exit: 0; error: -; workDir: /media/manoj/Data/Manoj/Riboseq/work/7b/023a6933e71e3331a170f4a26456ce] Mar-15 01:51:15.098 [Task submitter] DEBUG n.executor.local.LocalTaskHandler - Launch cmd line: /bin/bash -ue .command.run Mar-15 01:51:15.099 [Task submitter] INFO nextflow.Session - [52/b815cf] Submitted process > NFCORE_RIBOSEQ:RIBOSEQ:PREPROCESS_RNASEQ:SORTMERNA (Treated) Mar-15 01:53:05.629 [Task monitor] DEBUG n.processor.TaskPollingMonitor - !! executor local > tasks to be completed: 2 -- submitted tasks are shown below ~> TaskHandler[id: 14; name: NFCORE_RIBOSEQ:RIBOSEQ:PREPROCESS_RNASEQ:SORTMERNA (Control); status: RUNNING; exit: -; error: -; workDir: /media/manoj/Data/Manoj/Riboseq/work/90/38706e8a2818b155bdeb9a7d4d134a] ~> TaskHandler[id: 13; name: NFCORE_RIBOSEQ:RIBOSEQ:PREPROCESS_RNASEQ:SORTMERNA (Treated); status: RUNNING; exit: -; error: -; workDir: /media/manoj/Data/Manoj/Riboseq/work/52/b815cfde8ab711fe08b07fb80c7ba3] Mar-15 01:58:05.645 [Task monitor] DEBUG n.processor.TaskPollingMonitor - !! executor local > tasks to be completed: 2 -- submitted tasks are shown below ~> TaskHandler[id: 14; name: NFCORE_RIBOSEQ:RIBOSEQ:PREPROCESS_RNASEQ:SORTMERNA (Control); status: RUNNING; exit: -; error: -; workDir: /media/manoj/Data/Manoj/Riboseq/work/90/38706e8a2818b155bdeb9a7d4d134a] ~> TaskHandler[id: 13; name: NFCORE_RIBOSEQ:RIBOSEQ:PREPROCESS_RNASEQ:SORTMERNA (Treated); status: RUNNING; exit: -; error: -; workDir: /media/manoj/Data/Manoj/Riboseq/work/52/b815cfde8ab711fe08b07fb80c7ba3] Mar-15 02:03:05.668 [Task monitor] DEBUG n.processor.TaskPollingMonitor - !! executor local > tasks to be completed: 2 -- submitted tasks are shown below ~> TaskHandler[id: 14; name: NFCORE_RIBOSEQ:RIBOSEQ:PREPROCESS_RNASEQ:SORTMERNA (Control); status: RUNNING; exit: -; error: -; workDir: /media/manoj/Data/Manoj/Riboseq/work/90/38706e8a2818b155bdeb9a7d4d134a] ~> TaskHandler[id: 13; name: NFCORE_RIBOSEQ:RIBOSEQ:PREPROCESS_RNASEQ:SORTMERNA (Treated); status: RUNNING; exit: -; error: -; workDir: /media/manoj/Data/Manoj/Riboseq/work/52/b815cfde8ab711fe08b07fb80c7ba3] Mar-15 02:08:05.719 [Task monitor] DEBUG n.processor.TaskPollingMonitor - !! executor local > tasks to be completed: 2 -- submitted tasks are shown below ~> TaskHandler[id: 14; name: NFCORE_RIBOSEQ:RIBOSEQ:PREPROCESS_RNASEQ:SORTMERNA (Control); status: RUNNING; exit: -; error: -; workDir: /media/manoj/Data/Manoj/Riboseq/work/90/38706e8a2818b155bdeb9a7d4d134a] ~> TaskHandler[id: 13; name: NFCORE_RIBOSEQ:RIBOSEQ:PREPROCESS_RNASEQ:SORTMERNA (Treated); status: RUNNING; exit: -; error: -; workDir: /media/manoj/Data/Manoj/Riboseq/work/52/b815cfde8ab711fe08b07fb80c7ba3] Mar-15 02:13:05.741 [Task monitor] DEBUG n.processor.TaskPollingMonitor - !! executor local > tasks to be completed: 2 -- submitted tasks are shown below ~> TaskHandler[id: 14; name: NFCORE_RIBOSEQ:RIBOSEQ:PREPROCESS_RNASEQ:SORTMERNA (Control); status: RUNNING; exit: -; error: -; workDir: /media/manoj/Data/Manoj/Riboseq/work/90/38706e8a2818b155bdeb9a7d4d134a] ~> TaskHandler[id: 13; name: NFCORE_RIBOSEQ:RIBOSEQ:PREPROCESS_RNASEQ:SORTMERNA (Treated); status: RUNNING; exit: -; error: -; workDir: /media/manoj/Data/Manoj/Riboseq/work/52/b815cfde8ab711fe08b07fb80c7ba3] Mar-15 02:18:05.760 [Task monitor] DEBUG n.processor.TaskPollingMonitor - !! executor local > tasks to be completed: 2 -- submitted tasks are shown below ~> TaskHandler[id: 14; name: NFCORE_RIBOSEQ:RIBOSEQ:PREPROCESS_RNASEQ:SORTMERNA (Control); status: RUNNING; exit: -; error: -; workDir: /media/manoj/Data/Manoj/Riboseq/work/90/38706e8a2818b155bdeb9a7d4d134a] ~> TaskHandler[id: 13; name: NFCORE_RIBOSEQ:RIBOSEQ:PREPROCESS_RNASEQ:SORTMERNA (Treated); status: RUNNING; exit: -; error: -; workDir: /media/manoj/Data/Manoj/Riboseq/work/52/b815cfde8ab711fe08b07fb80c7ba3] Mar-15 02:23:05.771 [Task monitor] DEBUG n.processor.TaskPollingMonitor - !! executor local > tasks to be completed: 2 -- submitted tasks are shown below ~> TaskHandler[id: 14; name: NFCORE_RIBOSEQ:RIBOSEQ:PREPROCESS_RNASEQ:SORTMERNA (Control); status: RUNNING; exit: -; error: -; workDir: /media/manoj/Data/Manoj/Riboseq/work/90/38706e8a2818b155bdeb9a7d4d134a] ~> TaskHandler[id: 13; name: NFCORE_RIBOSEQ:RIBOSEQ:PREPROCESS_RNASEQ:SORTMERNA (Treated); status: RUNNING; exit: -; error: -; workDir: /media/manoj/Data/Manoj/Riboseq/work/52/b815cfde8ab711fe08b07fb80c7ba3] Mar-15 02:28:05.783 [Task monitor] DEBUG n.processor.TaskPollingMonitor - !! executor local > tasks to be completed: 2 -- submitted tasks are shown below ~> TaskHandler[id: 14; name: NFCORE_RIBOSEQ:RIBOSEQ:PREPROCESS_RNASEQ:SORTMERNA (Control); status: RUNNING; exit: -; error: -; workDir: /media/manoj/Data/Manoj/Riboseq/work/90/38706e8a2818b155bdeb9a7d4d134a] ~> TaskHandler[id: 13; name: NFCORE_RIBOSEQ:RIBOSEQ:PREPROCESS_RNASEQ:SORTMERNA (Treated); status: RUNNING; exit: -; error: -; workDir: /media/manoj/Data/Manoj/Riboseq/work/52/b815cfde8ab711fe08b07fb80c7ba3] Mar-15 02:33:05.879 [Task monitor] DEBUG n.processor.TaskPollingMonitor - !! executor local > tasks to be completed: 2 -- submitted tasks are shown below ~> TaskHandler[id: 14; name: NFCORE_RIBOSEQ:RIBOSEQ:PREPROCESS_RNASEQ:SORTMERNA (Control); status: RUNNING; exit: -; error: -; workDir: /media/manoj/Data/Manoj/Riboseq/work/90/38706e8a2818b155bdeb9a7d4d134a] ~> TaskHandler[id: 13; name: NFCORE_RIBOSEQ:RIBOSEQ:PREPROCESS_RNASEQ:SORTMERNA (Treated); status: RUNNING; exit: -; error: -; workDir: /media/manoj/Data/Manoj/Riboseq/work/52/b815cfde8ab711fe08b07fb80c7ba3] Mar-15 02:38:05.945 [Task monitor] DEBUG n.processor.TaskPollingMonitor - !! executor local > tasks to be completed: 2 -- submitted tasks are shown below ~> TaskHandler[id: 14; name: NFCORE_RIBOSEQ:RIBOSEQ:PREPROCESS_RNASEQ:SORTMERNA (Control); status: RUNNING; exit: -; error: -; workDir: /media/manoj/Data/Manoj/Riboseq/work/90/38706e8a2818b155bdeb9a7d4d134a] ~> TaskHandler[id: 13; name: NFCORE_RIBOSEQ:RIBOSEQ:PREPROCESS_RNASEQ:SORTMERNA (Treated); status: RUNNING; exit: -; error: -; workDir: /media/manoj/Data/Manoj/Riboseq/work/52/b815cfde8ab711fe08b07fb80c7ba3] Mar-15 02:43:05.973 [Task monitor] DEBUG n.processor.TaskPollingMonitor - !! executor local > tasks to be completed: 2 -- submitted tasks are shown below ~> TaskHandler[id: 14; name: NFCORE_RIBOSEQ:RIBOSEQ:PREPROCESS_RNASEQ:SORTMERNA (Control); status: RUNNING; exit: -; error: -; workDir: /media/manoj/Data/Manoj/Riboseq/work/90/38706e8a2818b155bdeb9a7d4d134a] ~> TaskHandler[id: 13; name: NFCORE_RIBOSEQ:RIBOSEQ:PREPROCESS_RNASEQ:SORTMERNA (Treated); status: RUNNING; exit: -; error: -; workDir: /media/manoj/Data/Manoj/Riboseq/work/52/b815cfde8ab711fe08b07fb80c7ba3] Mar-15 02:48:06.062 [Task monitor] DEBUG n.processor.TaskPollingMonitor - !! executor local > tasks to be completed: 2 -- submitted tasks are shown below ~> TaskHandler[id: 14; name: NFCORE_RIBOSEQ:RIBOSEQ:PREPROCESS_RNASEQ:SORTMERNA (Control); status: RUNNING; exit: -; error: -; workDir: /media/manoj/Data/Manoj/Riboseq/work/90/38706e8a2818b155bdeb9a7d4d134a] ~> TaskHandler[id: 13; name: NFCORE_RIBOSEQ:RIBOSEQ:PREPROCESS_RNASEQ:SORTMERNA (Treated); status: RUNNING; exit: -; error: -; workDir: /media/manoj/Data/Manoj/Riboseq/work/52/b815cfde8ab711fe08b07fb80c7ba3] Mar-15 02:53:06.124 [Task monitor] DEBUG n.processor.TaskPollingMonitor - !! executor local > tasks to be completed: 2 -- submitted tasks are shown below ~> TaskHandler[id: 14; name: NFCORE_RIBOSEQ:RIBOSEQ:PREPROCESS_RNASEQ:SORTMERNA (Control); status: RUNNING; exit: -; error: -; workDir: /media/manoj/Data/Manoj/Riboseq/work/90/38706e8a2818b155bdeb9a7d4d134a] ~> TaskHandler[id: 13; name: NFCORE_RIBOSEQ:RIBOSEQ:PREPROCESS_RNASEQ:SORTMERNA (Treated); status: RUNNING; exit: -; error: -; workDir: /media/manoj/Data/Manoj/Riboseq/work/52/b815cfde8ab711fe08b07fb80c7ba3] Mar-15 02:58:06.166 [Task monitor] DEBUG n.processor.TaskPollingMonitor - !! executor local > tasks to be completed: 2 -- submitted tasks are shown below ~> TaskHandler[id: 14; name: NFCORE_RIBOSEQ:RIBOSEQ:PREPROCESS_RNASEQ:SORTMERNA (Control); status: RUNNING; exit: -; error: -; workDir: /media/manoj/Data/Manoj/Riboseq/work/90/38706e8a2818b155bdeb9a7d4d134a] ~> TaskHandler[id: 13; name: NFCORE_RIBOSEQ:RIBOSEQ:PREPROCESS_RNASEQ:SORTMERNA (Treated); status: RUNNING; exit: -; error: -; workDir: /media/manoj/Data/Manoj/Riboseq/work/52/b815cfde8ab711fe08b07fb80c7ba3] Mar-15 03:03:06.205 [Task monitor] DEBUG n.processor.TaskPollingMonitor - !! executor local > tasks to be completed: 2 -- submitted tasks are shown below ~> TaskHandler[id: 14; name: NFCORE_RIBOSEQ:RIBOSEQ:PREPROCESS_RNASEQ:SORTMERNA (Control); status: RUNNING; exit: -; error: -; workDir: /media/manoj/Data/Manoj/Riboseq/work/90/38706e8a2818b155bdeb9a7d4d134a] ~> TaskHandler[id: 13; name: NFCORE_RIBOSEQ:RIBOSEQ:PREPROCESS_RNASEQ:SORTMERNA (Treated); status: RUNNING; exit: -; error: -; workDir: /media/manoj/Data/Manoj/Riboseq/work/52/b815cfde8ab711fe08b07fb80c7ba3] Mar-15 03:08:06.239 [Task monitor] DEBUG n.processor.TaskPollingMonitor - !! executor local > tasks to be completed: 2 -- submitted tasks are shown below ~> TaskHandler[id: 14; name: NFCORE_RIBOSEQ:RIBOSEQ:PREPROCESS_RNASEQ:SORTMERNA (Control); status: RUNNING; exit: -; error: -; workDir: /media/manoj/Data/Manoj/Riboseq/work/90/38706e8a2818b155bdeb9a7d4d134a] ~> TaskHandler[id: 13; name: NFCORE_RIBOSEQ:RIBOSEQ:PREPROCESS_RNASEQ:SORTMERNA (Treated); status: RUNNING; exit: -; error: -; workDir: /media/manoj/Data/Manoj/Riboseq/work/52/b815cfde8ab711fe08b07fb80c7ba3] Mar-15 03:13:06.270 [Task monitor] DEBUG n.processor.TaskPollingMonitor - !! executor local > tasks to be completed: 2 -- submitted tasks are shown below ~> TaskHandler[id: 14; name: NFCORE_RIBOSEQ:RIBOSEQ:PREPROCESS_RNASEQ:SORTMERNA (Control); status: RUNNING; exit: -; error: -; workDir: /media/manoj/Data/Manoj/Riboseq/work/90/38706e8a2818b155bdeb9a7d4d134a] ~> TaskHandler[id: 13; name: NFCORE_RIBOSEQ:RIBOSEQ:PREPROCESS_RNASEQ:SORTMERNA (Treated); status: RUNNING; exit: -; error: -; workDir: /media/manoj/Data/Manoj/Riboseq/work/52/b815cfde8ab711fe08b07fb80c7ba3] Mar-15 03:18:06.301 [Task monitor] DEBUG n.processor.TaskPollingMonitor - !! executor local > tasks to be completed: 2 -- submitted tasks are shown below ~> TaskHandler[id: 14; name: NFCORE_RIBOSEQ:RIBOSEQ:PREPROCESS_RNASEQ:SORTMERNA (Control); status: RUNNING; exit: -; error: -; workDir: /media/manoj/Data/Manoj/Riboseq/work/90/38706e8a2818b155bdeb9a7d4d134a] ~> TaskHandler[id: 13; name: NFCORE_RIBOSEQ:RIBOSEQ:PREPROCESS_RNASEQ:SORTMERNA (Treated); status: RUNNING; exit: -; error: -; workDir: /media/manoj/Data/Manoj/Riboseq/work/52/b815cfde8ab711fe08b07fb80c7ba3] Mar-15 03:23:06.347 [Task monitor] DEBUG n.processor.TaskPollingMonitor - !! executor local > tasks to be completed: 2 -- submitted tasks are shown below ~> TaskHandler[id: 14; name: NFCORE_RIBOSEQ:RIBOSEQ:PREPROCESS_RNASEQ:SORTMERNA (Control); status: RUNNING; exit: -; error: -; workDir: /media/manoj/Data/Manoj/Riboseq/work/90/38706e8a2818b155bdeb9a7d4d134a] ~> TaskHandler[id: 13; name: NFCORE_RIBOSEQ:RIBOSEQ:PREPROCESS_RNASEQ:SORTMERNA (Treated); status: RUNNING; exit: -; error: -; workDir: /media/manoj/Data/Manoj/Riboseq/work/52/b815cfde8ab711fe08b07fb80c7ba3] Mar-15 03:28:06.397 [Task monitor] DEBUG n.processor.TaskPollingMonitor - !! executor local > tasks to be completed: 2 -- submitted tasks are shown below ~> TaskHandler[id: 14; name: NFCORE_RIBOSEQ:RIBOSEQ:PREPROCESS_RNASEQ:SORTMERNA (Control); status: RUNNING; exit: -; error: -; workDir: /media/manoj/Data/Manoj/Riboseq/work/90/38706e8a2818b155bdeb9a7d4d134a] ~> TaskHandler[id: 13; name: NFCORE_RIBOSEQ:RIBOSEQ:PREPROCESS_RNASEQ:SORTMERNA (Treated); status: RUNNING; exit: -; error: -; workDir: /media/manoj/Data/Manoj/Riboseq/work/52/b815cfde8ab711fe08b07fb80c7ba3] Mar-15 03:33:06.432 [Task monitor] DEBUG n.processor.TaskPollingMonitor - !! executor local > tasks to be completed: 2 -- submitted tasks are shown below ~> TaskHandler[id: 14; name: NFCORE_RIBOSEQ:RIBOSEQ:PREPROCESS_RNASEQ:SORTMERNA (Control); status: RUNNING; exit: -; error: -; workDir: /media/manoj/Data/Manoj/Riboseq/work/90/38706e8a2818b155bdeb9a7d4d134a] ~> TaskHandler[id: 13; name: NFCORE_RIBOSEQ:RIBOSEQ:PREPROCESS_RNASEQ:SORTMERNA (Treated); status: RUNNING; exit: -; error: -; workDir: /media/manoj/Data/Manoj/Riboseq/work/52/b815cfde8ab711fe08b07fb80c7ba3] Mar-15 03:38:06.455 [Task monitor] DEBUG n.processor.TaskPollingMonitor - !! executor local > tasks to be completed: 2 -- submitted tasks are shown below ~> TaskHandler[id: 14; name: NFCORE_RIBOSEQ:RIBOSEQ:PREPROCESS_RNASEQ:SORTMERNA (Control); status: RUNNING; exit: -; error: -; workDir: /media/manoj/Data/Manoj/Riboseq/work/90/38706e8a2818b155bdeb9a7d4d134a] ~> TaskHandler[id: 13; name: NFCORE_RIBOSEQ:RIBOSEQ:PREPROCESS_RNASEQ:SORTMERNA (Treated); status: RUNNING; exit: -; error: -; workDir: /media/manoj/Data/Manoj/Riboseq/work/52/b815cfde8ab711fe08b07fb80c7ba3] Mar-15 03:43:06.504 [Task monitor] DEBUG n.processor.TaskPollingMonitor - !! executor local > tasks to be completed: 2 -- submitted tasks are shown below ~> TaskHandler[id: 14; name: NFCORE_RIBOSEQ:RIBOSEQ:PREPROCESS_RNASEQ:SORTMERNA (Control); status: RUNNING; exit: -; error: -; workDir: /media/manoj/Data/Manoj/Riboseq/work/90/38706e8a2818b155bdeb9a7d4d134a] ~> TaskHandler[id: 13; name: NFCORE_RIBOSEQ:RIBOSEQ:PREPROCESS_RNASEQ:SORTMERNA (Treated); status: RUNNING; exit: -; error: -; workDir: /media/manoj/Data/Manoj/Riboseq/work/52/b815cfde8ab711fe08b07fb80c7ba3] Mar-15 03:48:06.529 [Task monitor] DEBUG n.processor.TaskPollingMonitor - !! executor local > tasks to be completed: 2 -- submitted tasks are shown below ~> TaskHandler[id: 14; name: NFCORE_RIBOSEQ:RIBOSEQ:PREPROCESS_RNASEQ:SORTMERNA (Control); status: RUNNING; exit: -; error: -; workDir: /media/manoj/Data/Manoj/Riboseq/work/90/38706e8a2818b155bdeb9a7d4d134a] ~> TaskHandler[id: 13; name: NFCORE_RIBOSEQ:RIBOSEQ:PREPROCESS_RNASEQ:SORTMERNA (Treated); status: RUNNING; exit: -; error: -; workDir: /media/manoj/Data/Manoj/Riboseq/work/52/b815cfde8ab711fe08b07fb80c7ba3] Mar-15 03:53:06.578 [Task monitor] DEBUG n.processor.TaskPollingMonitor - !! executor local > tasks to be completed: 2 -- submitted tasks are shown below ~> TaskHandler[id: 14; name: NFCORE_RIBOSEQ:RIBOSEQ:PREPROCESS_RNASEQ:SORTMERNA (Control); status: RUNNING; exit: -; error: -; workDir: /media/manoj/Data/Manoj/Riboseq/work/90/38706e8a2818b155bdeb9a7d4d134a] ~> TaskHandler[id: 13; name: NFCORE_RIBOSEQ:RIBOSEQ:PREPROCESS_RNASEQ:SORTMERNA (Treated); status: RUNNING; exit: -; error: -; workDir: /media/manoj/Data/Manoj/Riboseq/work/52/b815cfde8ab711fe08b07fb80c7ba3] Mar-15 03:58:06.627 [Task monitor] DEBUG n.processor.TaskPollingMonitor - !! executor local > tasks to be completed: 2 -- submitted tasks are shown below ~> TaskHandler[id: 14; name: NFCORE_RIBOSEQ:RIBOSEQ:PREPROCESS_RNASEQ:SORTMERNA (Control); status: RUNNING; exit: -; error: -; workDir: /media/manoj/Data/Manoj/Riboseq/work/90/38706e8a2818b155bdeb9a7d4d134a] ~> TaskHandler[id: 13; name: NFCORE_RIBOSEQ:RIBOSEQ:PREPROCESS_RNASEQ:SORTMERNA (Treated); status: RUNNING; exit: -; error: -; workDir: /media/manoj/Data/Manoj/Riboseq/work/52/b815cfde8ab711fe08b07fb80c7ba3] Mar-15 04:03:06.671 [Task monitor] DEBUG n.processor.TaskPollingMonitor - !! executor local > tasks to be completed: 2 -- submitted tasks are shown below ~> TaskHandler[id: 14; name: NFCORE_RIBOSEQ:RIBOSEQ:PREPROCESS_RNASEQ:SORTMERNA (Control); status: RUNNING; exit: -; error: -; workDir: /media/manoj/Data/Manoj/Riboseq/work/90/38706e8a2818b155bdeb9a7d4d134a] ~> TaskHandler[id: 13; name: NFCORE_RIBOSEQ:RIBOSEQ:PREPROCESS_RNASEQ:SORTMERNA (Treated); status: RUNNING; exit: -; error: -; workDir: /media/manoj/Data/Manoj/Riboseq/work/52/b815cfde8ab711fe08b07fb80c7ba3] Mar-15 04:08:06.718 [Task monitor] DEBUG n.processor.TaskPollingMonitor - !! executor local > tasks to be completed: 2 -- submitted tasks are shown below ~> TaskHandler[id: 14; name: NFCORE_RIBOSEQ:RIBOSEQ:PREPROCESS_RNASEQ:SORTMERNA (Control); status: RUNNING; exit: -; error: -; workDir: /media/manoj/Data/Manoj/Riboseq/work/90/38706e8a2818b155bdeb9a7d4d134a] ~> TaskHandler[id: 13; name: NFCORE_RIBOSEQ:RIBOSEQ:PREPROCESS_RNASEQ:SORTMERNA (Treated); status: RUNNING; exit: -; error: -; workDir: /media/manoj/Data/Manoj/Riboseq/work/52/b815cfde8ab711fe08b07fb80c7ba3] Mar-15 04:13:06.755 [Task monitor] DEBUG n.processor.TaskPollingMonitor - !! executor local > tasks to be completed: 2 -- submitted tasks are shown below ~> TaskHandler[id: 14; name: NFCORE_RIBOSEQ:RIBOSEQ:PREPROCESS_RNASEQ:SORTMERNA (Control); status: RUNNING; exit: -; error: -; workDir: /media/manoj/Data/Manoj/Riboseq/work/90/38706e8a2818b155bdeb9a7d4d134a] ~> TaskHandler[id: 13; name: NFCORE_RIBOSEQ:RIBOSEQ:PREPROCESS_RNASEQ:SORTMERNA (Treated); status: RUNNING; exit: -; error: -; workDir: /media/manoj/Data/Manoj/Riboseq/work/52/b815cfde8ab711fe08b07fb80c7ba3] Mar-15 04:18:06.781 [Task monitor] DEBUG n.processor.TaskPollingMonitor - !! executor local > tasks to be completed: 2 -- submitted tasks are shown below ~> TaskHandler[id: 14; name: NFCORE_RIBOSEQ:RIBOSEQ:PREPROCESS_RNASEQ:SORTMERNA (Control); status: RUNNING; exit: -; error: -; workDir: /media/manoj/Data/Manoj/Riboseq/work/90/38706e8a2818b155bdeb9a7d4d134a] ~> TaskHandler[id: 13; name: NFCORE_RIBOSEQ:RIBOSEQ:PREPROCESS_RNASEQ:SORTMERNA (Treated); status: RUNNING; exit: -; error: -; workDir: /media/manoj/Data/Manoj/Riboseq/work/52/b815cfde8ab711fe08b07fb80c7ba3] Mar-15 04:23:06.815 [Task monitor] DEBUG n.processor.TaskPollingMonitor - !! executor local > tasks to be completed: 2 -- submitted tasks are shown below ~> TaskHandler[id: 14; name: NFCORE_RIBOSEQ:RIBOSEQ:PREPROCESS_RNASEQ:SORTMERNA (Control); status: RUNNING; exit: -; error: -; workDir: /media/manoj/Data/Manoj/Riboseq/work/90/38706e8a2818b155bdeb9a7d4d134a] ~> TaskHandler[id: 13; name: NFCORE_RIBOSEQ:RIBOSEQ:PREPROCESS_RNASEQ:SORTMERNA (Treated); status: RUNNING; exit: -; error: -; workDir: /media/manoj/Data/Manoj/Riboseq/work/52/b815cfde8ab711fe08b07fb80c7ba3] Mar-15 04:28:06.877 [Task monitor] DEBUG n.processor.TaskPollingMonitor - !! executor local > tasks to be completed: 2 -- submitted tasks are shown below ~> TaskHandler[id: 14; name: NFCORE_RIBOSEQ:RIBOSEQ:PREPROCESS_RNASEQ:SORTMERNA (Control); status: RUNNING; exit: -; error: -; workDir: /media/manoj/Data/Manoj/Riboseq/work/90/38706e8a2818b155bdeb9a7d4d134a] ~> TaskHandler[id: 13; name: NFCORE_RIBOSEQ:RIBOSEQ:PREPROCESS_RNASEQ:SORTMERNA (Treated); status: RUNNING; exit: -; error: -; workDir: /media/manoj/Data/Manoj/Riboseq/work/52/b815cfde8ab711fe08b07fb80c7ba3] Mar-15 04:33:06.937 [Task monitor] DEBUG n.processor.TaskPollingMonitor - !! executor local > tasks to be completed: 2 -- submitted tasks are shown below ~> TaskHandler[id: 14; name: NFCORE_RIBOSEQ:RIBOSEQ:PREPROCESS_RNASEQ:SORTMERNA (Control); status: RUNNING; exit: -; error: -; workDir: /media/manoj/Data/Manoj/Riboseq/work/90/38706e8a2818b155bdeb9a7d4d134a] ~> TaskHandler[id: 13; name: NFCORE_RIBOSEQ:RIBOSEQ:PREPROCESS_RNASEQ:SORTMERNA (Treated); status: RUNNING; exit: -; error: -; workDir: /media/manoj/Data/Manoj/Riboseq/work/52/b815cfde8ab711fe08b07fb80c7ba3] Mar-15 04:38:06.984 [Task monitor] DEBUG n.processor.TaskPollingMonitor - !! executor local > tasks to be completed: 2 -- submitted tasks are shown below ~> TaskHandler[id: 14; name: NFCORE_RIBOSEQ:RIBOSEQ:PREPROCESS_RNASEQ:SORTMERNA (Control); status: RUNNING; exit: -; error: -; workDir: /media/manoj/Data/Manoj/Riboseq/work/90/38706e8a2818b155bdeb9a7d4d134a] ~> TaskHandler[id: 13; name: NFCORE_RIBOSEQ:RIBOSEQ:PREPROCESS_RNASEQ:SORTMERNA (Treated); status: RUNNING; exit: -; error: -; workDir: /media/manoj/Data/Manoj/Riboseq/work/52/b815cfde8ab711fe08b07fb80c7ba3] Mar-15 04:43:07.047 [Task monitor] DEBUG n.processor.TaskPollingMonitor - !! executor local > tasks to be completed: 2 -- submitted tasks are shown below ~> TaskHandler[id: 14; name: NFCORE_RIBOSEQ:RIBOSEQ:PREPROCESS_RNASEQ:SORTMERNA (Control); status: RUNNING; exit: -; error: -; workDir: /media/manoj/Data/Manoj/Riboseq/work/90/38706e8a2818b155bdeb9a7d4d134a] ~> TaskHandler[id: 13; name: NFCORE_RIBOSEQ:RIBOSEQ:PREPROCESS_RNASEQ:SORTMERNA (Treated); status: RUNNING; exit: -; error: -; workDir: /media/manoj/Data/Manoj/Riboseq/work/52/b815cfde8ab711fe08b07fb80c7ba3] Mar-15 04:48:07.102 [Task monitor] DEBUG n.processor.TaskPollingMonitor - !! executor local > tasks to be completed: 2 -- submitted tasks are shown below ~> TaskHandler[id: 14; name: NFCORE_RIBOSEQ:RIBOSEQ:PREPROCESS_RNASEQ:SORTMERNA (Control); status: RUNNING; exit: -; error: -; workDir: /media/manoj/Data/Manoj/Riboseq/work/90/38706e8a2818b155bdeb9a7d4d134a] ~> TaskHandler[id: 13; name: NFCORE_RIBOSEQ:RIBOSEQ:PREPROCESS_RNASEQ:SORTMERNA (Treated); status: RUNNING; exit: -; error: -; workDir: /media/manoj/Data/Manoj/Riboseq/work/52/b815cfde8ab711fe08b07fb80c7ba3] Mar-15 04:53:07.144 [Task monitor] DEBUG n.processor.TaskPollingMonitor - !! executor local > tasks to be completed: 2 -- submitted tasks are shown below ~> TaskHandler[id: 14; name: NFCORE_RIBOSEQ:RIBOSEQ:PREPROCESS_RNASEQ:SORTMERNA (Control); status: RUNNING; exit: -; error: -; workDir: /media/manoj/Data/Manoj/Riboseq/work/90/38706e8a2818b155bdeb9a7d4d134a] ~> TaskHandler[id: 13; name: NFCORE_RIBOSEQ:RIBOSEQ:PREPROCESS_RNASEQ:SORTMERNA (Treated); status: RUNNING; exit: -; error: -; workDir: /media/manoj/Data/Manoj/Riboseq/work/52/b815cfde8ab711fe08b07fb80c7ba3] Mar-15 04:58:07.182 [Task monitor] DEBUG n.processor.TaskPollingMonitor - !! executor local > tasks to be completed: 2 -- submitted tasks are shown below ~> TaskHandler[id: 14; name: NFCORE_RIBOSEQ:RIBOSEQ:PREPROCESS_RNASEQ:SORTMERNA (Control); status: RUNNING; exit: -; error: -; workDir: /media/manoj/Data/Manoj/Riboseq/work/90/38706e8a2818b155bdeb9a7d4d134a] ~> TaskHandler[id: 13; name: NFCORE_RIBOSEQ:RIBOSEQ:PREPROCESS_RNASEQ:SORTMERNA (Treated); status: RUNNING; exit: -; error: -; workDir: /media/manoj/Data/Manoj/Riboseq/work/52/b815cfde8ab711fe08b07fb80c7ba3] Mar-15 05:03:07.202 [Task monitor] DEBUG n.processor.TaskPollingMonitor - !! executor local > tasks to be completed: 2 -- submitted tasks are shown below ~> TaskHandler[id: 14; name: NFCORE_RIBOSEQ:RIBOSEQ:PREPROCESS_RNASEQ:SORTMERNA (Control); status: RUNNING; exit: -; error: -; workDir: /media/manoj/Data/Manoj/Riboseq/work/90/38706e8a2818b155bdeb9a7d4d134a] ~> TaskHandler[id: 13; name: NFCORE_RIBOSEQ:RIBOSEQ:PREPROCESS_RNASEQ:SORTMERNA (Treated); status: RUNNING; exit: -; error: -; workDir: /media/manoj/Data/Manoj/Riboseq/work/52/b815cfde8ab711fe08b07fb80c7ba3] Mar-15 05:08:07.241 [Task monitor] DEBUG n.processor.TaskPollingMonitor - !! executor local > tasks to be completed: 2 -- submitted tasks are shown below ~> TaskHandler[id: 14; name: NFCORE_RIBOSEQ:RIBOSEQ:PREPROCESS_RNASEQ:SORTMERNA (Control); status: RUNNING; exit: -; error: -; workDir: /media/manoj/Data/Manoj/Riboseq/work/90/38706e8a2818b155bdeb9a7d4d134a] ~> TaskHandler[id: 13; name: NFCORE_RIBOSEQ:RIBOSEQ:PREPROCESS_RNASEQ:SORTMERNA (Treated); status: RUNNING; exit: -; error: -; workDir: /media/manoj/Data/Manoj/Riboseq/work/52/b815cfde8ab711fe08b07fb80c7ba3] Mar-15 05:13:07.290 [Task monitor] DEBUG n.processor.TaskPollingMonitor - !! executor local > tasks to be completed: 2 -- submitted tasks are shown below ~> TaskHandler[id: 14; name: NFCORE_RIBOSEQ:RIBOSEQ:PREPROCESS_RNASEQ:SORTMERNA (Control); status: RUNNING; exit: -; error: -; workDir: /media/manoj/Data/Manoj/Riboseq/work/90/38706e8a2818b155bdeb9a7d4d134a] ~> TaskHandler[id: 13; name: NFCORE_RIBOSEQ:RIBOSEQ:PREPROCESS_RNASEQ:SORTMERNA (Treated); status: RUNNING; exit: -; error: -; workDir: /media/manoj/Data/Manoj/Riboseq/work/52/b815cfde8ab711fe08b07fb80c7ba3] Mar-15 05:18:07.334 [Task monitor] DEBUG n.processor.TaskPollingMonitor - !! executor local > tasks to be completed: 2 -- submitted tasks are shown below ~> TaskHandler[id: 14; name: NFCORE_RIBOSEQ:RIBOSEQ:PREPROCESS_RNASEQ:SORTMERNA (Control); status: RUNNING; exit: -; error: -; workDir: /media/manoj/Data/Manoj/Riboseq/work/90/38706e8a2818b155bdeb9a7d4d134a] ~> TaskHandler[id: 13; name: NFCORE_RIBOSEQ:RIBOSEQ:PREPROCESS_RNASEQ:SORTMERNA (Treated); status: RUNNING; exit: -; error: -; workDir: /media/manoj/Data/Manoj/Riboseq/work/52/b815cfde8ab711fe08b07fb80c7ba3] Mar-15 05:23:07.370 [Task monitor] DEBUG n.processor.TaskPollingMonitor - !! executor local > tasks to be completed: 2 -- submitted tasks are shown below ~> TaskHandler[id: 14; name: NFCORE_RIBOSEQ:RIBOSEQ:PREPROCESS_RNASEQ:SORTMERNA (Control); status: RUNNING; exit: -; error: -; workDir: /media/manoj/Data/Manoj/Riboseq/work/90/38706e8a2818b155bdeb9a7d4d134a] ~> TaskHandler[id: 13; name: NFCORE_RIBOSEQ:RIBOSEQ:PREPROCESS_RNASEQ:SORTMERNA (Treated); status: RUNNING; exit: -; error: -; workDir: /media/manoj/Data/Manoj/Riboseq/work/52/b815cfde8ab711fe08b07fb80c7ba3] Mar-15 05:28:07.423 [Task monitor] DEBUG n.processor.TaskPollingMonitor - !! executor local > tasks to be completed: 2 -- submitted tasks are shown below ~> TaskHandler[id: 14; name: NFCORE_RIBOSEQ:RIBOSEQ:PREPROCESS_RNASEQ:SORTMERNA (Control); status: RUNNING; exit: -; error: -; workDir: /media/manoj/Data/Manoj/Riboseq/work/90/38706e8a2818b155bdeb9a7d4d134a] ~> TaskHandler[id: 13; name: NFCORE_RIBOSEQ:RIBOSEQ:PREPROCESS_RNASEQ:SORTMERNA (Treated); status: RUNNING; exit: -; error: -; workDir: /media/manoj/Data/Manoj/Riboseq/work/52/b815cfde8ab711fe08b07fb80c7ba3] Mar-15 05:33:07.465 [Task monitor] DEBUG n.processor.TaskPollingMonitor - !! executor local > tasks to be completed: 2 -- submitted tasks are shown below ~> TaskHandler[id: 14; name: NFCORE_RIBOSEQ:RIBOSEQ:PREPROCESS_RNASEQ:SORTMERNA (Control); status: RUNNING; exit: -; error: -; workDir: /media/manoj/Data/Manoj/Riboseq/work/90/38706e8a2818b155bdeb9a7d4d134a] ~> TaskHandler[id: 13; name: NFCORE_RIBOSEQ:RIBOSEQ:PREPROCESS_RNASEQ:SORTMERNA (Treated); status: RUNNING; exit: -; error: -; workDir: /media/manoj/Data/Manoj/Riboseq/work/52/b815cfde8ab711fe08b07fb80c7ba3] Mar-15 05:38:07.534 [Task monitor] DEBUG n.processor.TaskPollingMonitor - !! executor local > tasks to be completed: 2 -- submitted tasks are shown below ~> TaskHandler[id: 14; name: NFCORE_RIBOSEQ:RIBOSEQ:PREPROCESS_RNASEQ:SORTMERNA (Control); status: RUNNING; exit: -; error: -; workDir: /media/manoj/Data/Manoj/Riboseq/work/90/38706e8a2818b155bdeb9a7d4d134a] ~> TaskHandler[id: 13; name: NFCORE_RIBOSEQ:RIBOSEQ:PREPROCESS_RNASEQ:SORTMERNA (Treated); status: RUNNING; exit: -; error: -; workDir: /media/manoj/Data/Manoj/Riboseq/work/52/b815cfde8ab711fe08b07fb80c7ba3] Mar-15 05:43:07.594 [Task monitor] DEBUG n.processor.TaskPollingMonitor - !! executor local > tasks to be completed: 2 -- submitted tasks are shown below ~> TaskHandler[id: 14; name: NFCORE_RIBOSEQ:RIBOSEQ:PREPROCESS_RNASEQ:SORTMERNA (Control); status: RUNNING; exit: -; error: -; workDir: /media/manoj/Data/Manoj/Riboseq/work/90/38706e8a2818b155bdeb9a7d4d134a] ~> TaskHandler[id: 13; name: NFCORE_RIBOSEQ:RIBOSEQ:PREPROCESS_RNASEQ:SORTMERNA (Treated); status: RUNNING; exit: -; error: -; workDir: /media/manoj/Data/Manoj/Riboseq/work/52/b815cfde8ab711fe08b07fb80c7ba3] Mar-15 05:48:07.643 [Task monitor] DEBUG n.processor.TaskPollingMonitor - !! executor local > tasks to be completed: 2 -- submitted tasks are shown below ~> TaskHandler[id: 14; name: NFCORE_RIBOSEQ:RIBOSEQ:PREPROCESS_RNASEQ:SORTMERNA (Control); status: RUNNING; exit: -; error: -; workDir: /media/manoj/Data/Manoj/Riboseq/work/90/38706e8a2818b155bdeb9a7d4d134a] ~> TaskHandler[id: 13; name: NFCORE_RIBOSEQ:RIBOSEQ:PREPROCESS_RNASEQ:SORTMERNA (Treated); status: RUNNING; exit: -; error: -; workDir: /media/manoj/Data/Manoj/Riboseq/work/52/b815cfde8ab711fe08b07fb80c7ba3] Mar-15 05:53:07.699 [Task monitor] DEBUG n.processor.TaskPollingMonitor - !! executor local > tasks to be completed: 2 -- submitted tasks are shown below ~> TaskHandler[id: 14; name: NFCORE_RIBOSEQ:RIBOSEQ:PREPROCESS_RNASEQ:SORTMERNA (Control); status: RUNNING; exit: -; error: -; workDir: /media/manoj/Data/Manoj/Riboseq/work/90/38706e8a2818b155bdeb9a7d4d134a] ~> TaskHandler[id: 13; name: NFCORE_RIBOSEQ:RIBOSEQ:PREPROCESS_RNASEQ:SORTMERNA (Treated); status: RUNNING; exit: -; error: -; workDir: /media/manoj/Data/Manoj/Riboseq/work/52/b815cfde8ab711fe08b07fb80c7ba3] Mar-15 05:58:07.735 [Task monitor] DEBUG n.processor.TaskPollingMonitor - !! executor local > tasks to be completed: 2 -- submitted tasks are shown below ~> TaskHandler[id: 14; name: NFCORE_RIBOSEQ:RIBOSEQ:PREPROCESS_RNASEQ:SORTMERNA (Control); status: RUNNING; exit: -; error: -; workDir: /media/manoj/Data/Manoj/Riboseq/work/90/38706e8a2818b155bdeb9a7d4d134a] ~> TaskHandler[id: 13; name: NFCORE_RIBOSEQ:RIBOSEQ:PREPROCESS_RNASEQ:SORTMERNA (Treated); status: RUNNING; exit: -; error: -; workDir: /media/manoj/Data/Manoj/Riboseq/work/52/b815cfde8ab711fe08b07fb80c7ba3] Mar-15 06:03:07.779 [Task monitor] DEBUG n.processor.TaskPollingMonitor - !! executor local > tasks to be completed: 2 -- submitted tasks are shown below ~> TaskHandler[id: 14; name: NFCORE_RIBOSEQ:RIBOSEQ:PREPROCESS_RNASEQ:SORTMERNA (Control); status: RUNNING; exit: -; error: -; workDir: /media/manoj/Data/Manoj/Riboseq/work/90/38706e8a2818b155bdeb9a7d4d134a] ~> TaskHandler[id: 13; name: NFCORE_RIBOSEQ:RIBOSEQ:PREPROCESS_RNASEQ:SORTMERNA (Treated); status: RUNNING; exit: -; error: -; workDir: /media/manoj/Data/Manoj/Riboseq/work/52/b815cfde8ab711fe08b07fb80c7ba3] Mar-15 06:08:07.795 [Task monitor] DEBUG n.processor.TaskPollingMonitor - !! executor local > tasks to be completed: 2 -- submitted tasks are shown below ~> TaskHandler[id: 14; name: NFCORE_RIBOSEQ:RIBOSEQ:PREPROCESS_RNASEQ:SORTMERNA (Control); status: RUNNING; exit: -; error: -; workDir: /media/manoj/Data/Manoj/Riboseq/work/90/38706e8a2818b155bdeb9a7d4d134a] ~> TaskHandler[id: 13; name: NFCORE_RIBOSEQ:RIBOSEQ:PREPROCESS_RNASEQ:SORTMERNA (Treated); status: RUNNING; exit: -; error: -; workDir: /media/manoj/Data/Manoj/Riboseq/work/52/b815cfde8ab711fe08b07fb80c7ba3] Mar-15 06:13:07.867 [Task monitor] DEBUG n.processor.TaskPollingMonitor - !! executor local > tasks to be completed: 2 -- submitted tasks are shown below ~> TaskHandler[id: 14; name: NFCORE_RIBOSEQ:RIBOSEQ:PREPROCESS_RNASEQ:SORTMERNA (Control); status: RUNNING; exit: -; error: -; workDir: /media/manoj/Data/Manoj/Riboseq/work/90/38706e8a2818b155bdeb9a7d4d134a] ~> TaskHandler[id: 13; name: NFCORE_RIBOSEQ:RIBOSEQ:PREPROCESS_RNASEQ:SORTMERNA (Treated); status: RUNNING; exit: -; error: -; workDir: /media/manoj/Data/Manoj/Riboseq/work/52/b815cfde8ab711fe08b07fb80c7ba3] Mar-15 06:18:07.927 [Task monitor] DEBUG n.processor.TaskPollingMonitor - !! executor local > tasks to be completed: 2 -- submitted tasks are shown below ~> TaskHandler[id: 14; name: NFCORE_RIBOSEQ:RIBOSEQ:PREPROCESS_RNASEQ:SORTMERNA (Control); status: RUNNING; exit: -; error: -; workDir: /media/manoj/Data/Manoj/Riboseq/work/90/38706e8a2818b155bdeb9a7d4d134a] ~> TaskHandler[id: 13; name: NFCORE_RIBOSEQ:RIBOSEQ:PREPROCESS_RNASEQ:SORTMERNA (Treated); status: RUNNING; exit: -; error: -; workDir: /media/manoj/Data/Manoj/Riboseq/work/52/b815cfde8ab711fe08b07fb80c7ba3] Mar-15 06:23:07.973 [Task monitor] DEBUG n.processor.TaskPollingMonitor - !! executor local > tasks to be completed: 2 -- submitted tasks are shown below ~> TaskHandler[id: 14; name: NFCORE_RIBOSEQ:RIBOSEQ:PREPROCESS_RNASEQ:SORTMERNA (Control); status: RUNNING; exit: -; error: -; workDir: /media/manoj/Data/Manoj/Riboseq/work/90/38706e8a2818b155bdeb9a7d4d134a] ~> TaskHandler[id: 13; name: NFCORE_RIBOSEQ:RIBOSEQ:PREPROCESS_RNASEQ:SORTMERNA (Treated); status: RUNNING; exit: -; error: -; workDir: /media/manoj/Data/Manoj/Riboseq/work/52/b815cfde8ab711fe08b07fb80c7ba3] Mar-15 06:28:08.052 [Task monitor] DEBUG n.processor.TaskPollingMonitor - !! executor local > tasks to be completed: 2 -- submitted tasks are shown below ~> TaskHandler[id: 14; name: NFCORE_RIBOSEQ:RIBOSEQ:PREPROCESS_RNASEQ:SORTMERNA (Control); status: RUNNING; exit: -; error: -; workDir: /media/manoj/Data/Manoj/Riboseq/work/90/38706e8a2818b155bdeb9a7d4d134a] ~> TaskHandler[id: 13; name: NFCORE_RIBOSEQ:RIBOSEQ:PREPROCESS_RNASEQ:SORTMERNA (Treated); status: RUNNING; exit: -; error: -; workDir: /media/manoj/Data/Manoj/Riboseq/work/52/b815cfde8ab711fe08b07fb80c7ba3] Mar-15 06:33:08.095 [Task monitor] DEBUG n.processor.TaskPollingMonitor - !! executor local > tasks to be completed: 2 -- submitted tasks are shown below ~> TaskHandler[id: 14; name: NFCORE_RIBOSEQ:RIBOSEQ:PREPROCESS_RNASEQ:SORTMERNA (Control); status: RUNNING; exit: -; error: -; workDir: /media/manoj/Data/Manoj/Riboseq/work/90/38706e8a2818b155bdeb9a7d4d134a] ~> TaskHandler[id: 13; name: NFCORE_RIBOSEQ:RIBOSEQ:PREPROCESS_RNASEQ:SORTMERNA (Treated); status: RUNNING; exit: -; error: -; workDir: /media/manoj/Data/Manoj/Riboseq/work/52/b815cfde8ab711fe08b07fb80c7ba3] Mar-15 06:38:08.156 [Task monitor] DEBUG n.processor.TaskPollingMonitor - !! executor local > tasks to be completed: 2 -- submitted tasks are shown below ~> TaskHandler[id: 14; name: NFCORE_RIBOSEQ:RIBOSEQ:PREPROCESS_RNASEQ:SORTMERNA (Control); status: RUNNING; exit: -; error: -; workDir: /media/manoj/Data/Manoj/Riboseq/work/90/38706e8a2818b155bdeb9a7d4d134a] ~> TaskHandler[id: 13; name: NFCORE_RIBOSEQ:RIBOSEQ:PREPROCESS_RNASEQ:SORTMERNA (Treated); status: RUNNING; exit: -; error: -; workDir: /media/manoj/Data/Manoj/Riboseq/work/52/b815cfde8ab711fe08b07fb80c7ba3] Mar-15 06:43:08.204 [Task monitor] DEBUG n.processor.TaskPollingMonitor - !! executor local > tasks to be completed: 2 -- submitted tasks are shown below ~> TaskHandler[id: 14; name: NFCORE_RIBOSEQ:RIBOSEQ:PREPROCESS_RNASEQ:SORTMERNA (Control); status: RUNNING; exit: -; error: -; workDir: /media/manoj/Data/Manoj/Riboseq/work/90/38706e8a2818b155bdeb9a7d4d134a] ~> TaskHandler[id: 13; name: NFCORE_RIBOSEQ:RIBOSEQ:PREPROCESS_RNASEQ:SORTMERNA (Treated); status: RUNNING; exit: -; error: -; workDir: /media/manoj/Data/Manoj/Riboseq/work/52/b815cfde8ab711fe08b07fb80c7ba3] Mar-15 06:48:08.264 [Task monitor] DEBUG n.processor.TaskPollingMonitor - !! executor local > tasks to be completed: 2 -- submitted tasks are shown below ~> TaskHandler[id: 14; name: NFCORE_RIBOSEQ:RIBOSEQ:PREPROCESS_RNASEQ:SORTMERNA (Control); status: RUNNING; exit: -; error: -; workDir: /media/manoj/Data/Manoj/Riboseq/work/90/38706e8a2818b155bdeb9a7d4d134a] ~> TaskHandler[id: 13; name: NFCORE_RIBOSEQ:RIBOSEQ:PREPROCESS_RNASEQ:SORTMERNA (Treated); status: RUNNING; exit: -; error: -; workDir: /media/manoj/Data/Manoj/Riboseq/work/52/b815cfde8ab711fe08b07fb80c7ba3] Mar-15 06:53:08.321 [Task monitor] DEBUG n.processor.TaskPollingMonitor - !! executor local > tasks to be completed: 2 -- submitted tasks are shown below ~> TaskHandler[id: 14; name: NFCORE_RIBOSEQ:RIBOSEQ:PREPROCESS_RNASEQ:SORTMERNA (Control); status: RUNNING; exit: -; error: -; workDir: /media/manoj/Data/Manoj/Riboseq/work/90/38706e8a2818b155bdeb9a7d4d134a] ~> TaskHandler[id: 13; name: NFCORE_RIBOSEQ:RIBOSEQ:PREPROCESS_RNASEQ:SORTMERNA (Treated); status: RUNNING; exit: -; error: -; workDir: /media/manoj/Data/Manoj/Riboseq/work/52/b815cfde8ab711fe08b07fb80c7ba3] Mar-15 06:58:08.390 [Task monitor] DEBUG n.processor.TaskPollingMonitor - !! executor local > tasks to be completed: 2 -- submitted tasks are shown below ~> TaskHandler[id: 14; name: NFCORE_RIBOSEQ:RIBOSEQ:PREPROCESS_RNASEQ:SORTMERNA (Control); status: RUNNING; exit: -; error: -; workDir: /media/manoj/Data/Manoj/Riboseq/work/90/38706e8a2818b155bdeb9a7d4d134a] ~> TaskHandler[id: 13; name: NFCORE_RIBOSEQ:RIBOSEQ:PREPROCESS_RNASEQ:SORTMERNA (Treated); status: RUNNING; exit: -; error: -; workDir: /media/manoj/Data/Manoj/Riboseq/work/52/b815cfde8ab711fe08b07fb80c7ba3] Mar-15 07:03:08.445 [Task monitor] DEBUG n.processor.TaskPollingMonitor - !! executor local > tasks to be completed: 2 -- submitted tasks are shown below ~> TaskHandler[id: 14; name: NFCORE_RIBOSEQ:RIBOSEQ:PREPROCESS_RNASEQ:SORTMERNA (Control); status: RUNNING; exit: -; error: -; workDir: /media/manoj/Data/Manoj/Riboseq/work/90/38706e8a2818b155bdeb9a7d4d134a] ~> TaskHandler[id: 13; name: NFCORE_RIBOSEQ:RIBOSEQ:PREPROCESS_RNASEQ:SORTMERNA (Treated); status: RUNNING; exit: -; error: -; workDir: /media/manoj/Data/Manoj/Riboseq/work/52/b815cfde8ab711fe08b07fb80c7ba3] Mar-15 07:08:08.479 [Task monitor] DEBUG n.processor.TaskPollingMonitor - !! executor local > tasks to be completed: 2 -- submitted tasks are shown below ~> TaskHandler[id: 14; name: NFCORE_RIBOSEQ:RIBOSEQ:PREPROCESS_RNASEQ:SORTMERNA (Control); status: RUNNING; exit: -; error: -; workDir: /media/manoj/Data/Manoj/Riboseq/work/90/38706e8a2818b155bdeb9a7d4d134a] ~> TaskHandler[id: 13; name: NFCORE_RIBOSEQ:RIBOSEQ:PREPROCESS_RNASEQ:SORTMERNA (Treated); status: RUNNING; exit: -; error: -; workDir: /media/manoj/Data/Manoj/Riboseq/work/52/b815cfde8ab711fe08b07fb80c7ba3] Mar-15 07:13:08.553 [Task monitor] DEBUG n.processor.TaskPollingMonitor - !! executor local > tasks to be completed: 2 -- submitted tasks are shown below ~> TaskHandler[id: 14; name: NFCORE_RIBOSEQ:RIBOSEQ:PREPROCESS_RNASEQ:SORTMERNA (Control); status: RUNNING; exit: -; error: -; workDir: /media/manoj/Data/Manoj/Riboseq/work/90/38706e8a2818b155bdeb9a7d4d134a] ~> TaskHandler[id: 13; name: NFCORE_RIBOSEQ:RIBOSEQ:PREPROCESS_RNASEQ:SORTMERNA (Treated); status: RUNNING; exit: -; error: -; workDir: /media/manoj/Data/Manoj/Riboseq/work/52/b815cfde8ab711fe08b07fb80c7ba3] Mar-15 07:16:17.281 [Task monitor] DEBUG n.processor.TaskPollingMonitor - Task completed > TaskHandler[id: 13; name: NFCORE_RIBOSEQ:RIBOSEQ:PREPROCESS_RNASEQ:SORTMERNA (Treated); status: COMPLETED; exit: 0; error: -; workDir: /media/manoj/Data/Manoj/Riboseq/work/52/b815cfde8ab711fe08b07fb80c7ba3] Mar-15 07:16:17.315 [Actor Thread 13] DEBUG nextflow.Nextflow - FQ/SUBSAMPLE found 2 FASTQ files Mar-15 07:16:17.354 [Task submitter] DEBUG n.executor.local.LocalTaskHandler - Launch cmd line: /bin/bash -ue .command.run Mar-15 07:16:17.355 [Task submitter] INFO nextflow.Session - [1a/4df0f5] Submitted process > NFCORE_RIBOSEQ:RIBOSEQ:PREPROCESS_RNASEQ:FASTQ_SUBSAMPLE_FQ_SALMON:FQ_SUBSAMPLE (Treated) Mar-15 07:16:18.138 [Task submitter] DEBUG n.executor.local.LocalTaskHandler - Launch cmd line: /bin/bash -ue .command.run Mar-15 07:16:18.139 [Task submitter] INFO nextflow.Session - [67/b766d2] Submitted process > NFCORE_RIBOSEQ:RIBOSEQ:PREPROCESS_RNASEQ:FASTQ_SUBSAMPLE_FQ_SALMON:SALMON_INDEX (genome.transcripts.fa) Mar-15 07:17:43.716 [Task monitor] DEBUG n.processor.TaskPollingMonitor - Task completed > TaskHandler[id: 15; name: NFCORE_RIBOSEQ:RIBOSEQ:PREPROCESS_RNASEQ:FASTQ_SUBSAMPLE_FQ_SALMON:FQ_SUBSAMPLE (Treated); status: COMPLETED; exit: 0; error: -; workDir: /media/manoj/Data/Manoj/Riboseq/work/1a/4df0f5673ef645862445d4aa2b2871] Mar-15 07:18:08.644 [Task monitor] DEBUG n.processor.TaskPollingMonitor - !! executor local > tasks to be completed: 2 -- submitted tasks are shown below ~> TaskHandler[id: 14; name: NFCORE_RIBOSEQ:RIBOSEQ:PREPROCESS_RNASEQ:SORTMERNA (Control); status: RUNNING; exit: -; error: -; workDir: /media/manoj/Data/Manoj/Riboseq/work/90/38706e8a2818b155bdeb9a7d4d134a] ~> TaskHandler[id: 16; name: NFCORE_RIBOSEQ:RIBOSEQ:PREPROCESS_RNASEQ:FASTQ_SUBSAMPLE_FQ_SALMON:SALMON_INDEX (genome.transcripts.fa); status: RUNNING; exit: -; error: -; workDir: /media/manoj/Data/Manoj/Riboseq/work/67/b766d29097b3940c3f2d7fc76cadf9] Mar-15 07:23:08.655 [Task monitor] DEBUG n.processor.TaskPollingMonitor - !! executor local > tasks to be completed: 2 -- submitted tasks are shown below ~> TaskHandler[id: 14; name: NFCORE_RIBOSEQ:RIBOSEQ:PREPROCESS_RNASEQ:SORTMERNA (Control); status: RUNNING; exit: -; error: -; workDir: /media/manoj/Data/Manoj/Riboseq/work/90/38706e8a2818b155bdeb9a7d4d134a] ~> TaskHandler[id: 16; name: NFCORE_RIBOSEQ:RIBOSEQ:PREPROCESS_RNASEQ:FASTQ_SUBSAMPLE_FQ_SALMON:SALMON_INDEX (genome.transcripts.fa); status: RUNNING; exit: -; error: -; workDir: /media/manoj/Data/Manoj/Riboseq/work/67/b766d29097b3940c3f2d7fc76cadf9] Mar-15 07:28:08.665 [Task monitor] DEBUG n.processor.TaskPollingMonitor - !! executor local > tasks to be completed: 2 -- submitted tasks are shown below ~> TaskHandler[id: 14; name: NFCORE_RIBOSEQ:RIBOSEQ:PREPROCESS_RNASEQ:SORTMERNA (Control); status: RUNNING; exit: -; error: -; workDir: /media/manoj/Data/Manoj/Riboseq/work/90/38706e8a2818b155bdeb9a7d4d134a] ~> TaskHandler[id: 16; name: NFCORE_RIBOSEQ:RIBOSEQ:PREPROCESS_RNASEQ:FASTQ_SUBSAMPLE_FQ_SALMON:SALMON_INDEX (genome.transcripts.fa); status: RUNNING; exit: -; error: -; workDir: /media/manoj/Data/Manoj/Riboseq/work/67/b766d29097b3940c3f2d7fc76cadf9] Mar-15 07:33:08.713 [Task monitor] DEBUG n.processor.TaskPollingMonitor - !! executor local > tasks to be completed: 2 -- submitted tasks are shown below ~> TaskHandler[id: 14; name: NFCORE_RIBOSEQ:RIBOSEQ:PREPROCESS_RNASEQ:SORTMERNA (Control); status: RUNNING; exit: -; error: -; workDir: /media/manoj/Data/Manoj/Riboseq/work/90/38706e8a2818b155bdeb9a7d4d134a] ~> TaskHandler[id: 16; name: NFCORE_RIBOSEQ:RIBOSEQ:PREPROCESS_RNASEQ:FASTQ_SUBSAMPLE_FQ_SALMON:SALMON_INDEX (genome.transcripts.fa); status: RUNNING; exit: -; error: -; workDir: /media/manoj/Data/Manoj/Riboseq/work/67/b766d29097b3940c3f2d7fc76cadf9] Mar-15 07:38:08.722 [Task monitor] DEBUG n.processor.TaskPollingMonitor - !! executor local > tasks to be completed: 2 -- submitted tasks are shown below ~> TaskHandler[id: 14; name: NFCORE_RIBOSEQ:RIBOSEQ:PREPROCESS_RNASEQ:SORTMERNA (Control); status: RUNNING; exit: -; error: -; workDir: /media/manoj/Data/Manoj/Riboseq/work/90/38706e8a2818b155bdeb9a7d4d134a] ~> TaskHandler[id: 16; name: NFCORE_RIBOSEQ:RIBOSEQ:PREPROCESS_RNASEQ:FASTQ_SUBSAMPLE_FQ_SALMON:SALMON_INDEX (genome.transcripts.fa); status: RUNNING; exit: -; error: -; workDir: /media/manoj/Data/Manoj/Riboseq/work/67/b766d29097b3940c3f2d7fc76cadf9] Mar-15 07:43:08.771 [Task monitor] DEBUG n.processor.TaskPollingMonitor - !! executor local > tasks to be completed: 2 -- submitted tasks are shown below ~> TaskHandler[id: 14; name: NFCORE_RIBOSEQ:RIBOSEQ:PREPROCESS_RNASEQ:SORTMERNA (Control); status: RUNNING; exit: -; error: -; workDir: /media/manoj/Data/Manoj/Riboseq/work/90/38706e8a2818b155bdeb9a7d4d134a] ~> TaskHandler[id: 16; name: NFCORE_RIBOSEQ:RIBOSEQ:PREPROCESS_RNASEQ:FASTQ_SUBSAMPLE_FQ_SALMON:SALMON_INDEX (genome.transcripts.fa); status: RUNNING; exit: -; error: -; workDir: /media/manoj/Data/Manoj/Riboseq/work/67/b766d29097b3940c3f2d7fc76cadf9] Mar-15 07:48:08.814 [Task monitor] DEBUG n.processor.TaskPollingMonitor - !! executor local > tasks to be completed: 2 -- submitted tasks are shown below ~> TaskHandler[id: 14; name: NFCORE_RIBOSEQ:RIBOSEQ:PREPROCESS_RNASEQ:SORTMERNA (Control); status: RUNNING; exit: -; error: -; workDir: /media/manoj/Data/Manoj/Riboseq/work/90/38706e8a2818b155bdeb9a7d4d134a] ~> TaskHandler[id: 16; name: NFCORE_RIBOSEQ:RIBOSEQ:PREPROCESS_RNASEQ:FASTQ_SUBSAMPLE_FQ_SALMON:SALMON_INDEX (genome.transcripts.fa); status: RUNNING; exit: -; error: -; workDir: /media/manoj/Data/Manoj/Riboseq/work/67/b766d29097b3940c3f2d7fc76cadf9] Mar-15 07:53:08.854 [Task monitor] DEBUG n.processor.TaskPollingMonitor - !! executor local > tasks to be completed: 2 -- submitted tasks are shown below ~> TaskHandler[id: 14; name: NFCORE_RIBOSEQ:RIBOSEQ:PREPROCESS_RNASEQ:SORTMERNA (Control); status: RUNNING; exit: -; error: -; workDir: /media/manoj/Data/Manoj/Riboseq/work/90/38706e8a2818b155bdeb9a7d4d134a] ~> TaskHandler[id: 16; name: NFCORE_RIBOSEQ:RIBOSEQ:PREPROCESS_RNASEQ:FASTQ_SUBSAMPLE_FQ_SALMON:SALMON_INDEX (genome.transcripts.fa); status: RUNNING; exit: -; error: -; workDir: /media/manoj/Data/Manoj/Riboseq/work/67/b766d29097b3940c3f2d7fc76cadf9] Mar-15 07:58:08.895 [Task monitor] DEBUG n.processor.TaskPollingMonitor - !! executor local > tasks to be completed: 2 -- submitted tasks are shown below ~> TaskHandler[id: 14; name: NFCORE_RIBOSEQ:RIBOSEQ:PREPROCESS_RNASEQ:SORTMERNA (Control); status: RUNNING; exit: -; error: -; workDir: /media/manoj/Data/Manoj/Riboseq/work/90/38706e8a2818b155bdeb9a7d4d134a] ~> TaskHandler[id: 16; name: NFCORE_RIBOSEQ:RIBOSEQ:PREPROCESS_RNASEQ:FASTQ_SUBSAMPLE_FQ_SALMON:SALMON_INDEX (genome.transcripts.fa); status: RUNNING; exit: -; error: -; workDir: /media/manoj/Data/Manoj/Riboseq/work/67/b766d29097b3940c3f2d7fc76cadf9] Mar-15 08:02:56.694 [Task monitor] DEBUG n.processor.TaskPollingMonitor - Task completed > TaskHandler[id: 16; name: NFCORE_RIBOSEQ:RIBOSEQ:PREPROCESS_RNASEQ:FASTQ_SUBSAMPLE_FQ_SALMON:SALMON_INDEX (genome.transcripts.fa); status: COMPLETED; exit: 0; error: -; workDir: /media/manoj/Data/Manoj/Riboseq/work/67/b766d29097b3940c3f2d7fc76cadf9] Mar-15 08:02:56.753 [Task submitter] DEBUG n.executor.local.LocalTaskHandler - Launch cmd line: /bin/bash -ue .command.run Mar-15 08:02:56.754 [Task submitter] INFO nextflow.Session - [cc/79cbe1] Submitted process > NFCORE_RIBOSEQ:RIBOSEQ:PREPROCESS_RNASEQ:FASTQ_SUBSAMPLE_FQ_SALMON:SALMON_QUANT (Treated) Mar-15 08:03:08.909 [Task monitor] DEBUG n.processor.TaskPollingMonitor - !! executor local > tasks to be completed: 2 -- submitted tasks are shown below ~> TaskHandler[id: 14; name: NFCORE_RIBOSEQ:RIBOSEQ:PREPROCESS_RNASEQ:SORTMERNA (Control); status: RUNNING; exit: -; error: -; workDir: /media/manoj/Data/Manoj/Riboseq/work/90/38706e8a2818b155bdeb9a7d4d134a] ~> TaskHandler[id: 17; name: NFCORE_RIBOSEQ:RIBOSEQ:PREPROCESS_RNASEQ:FASTQ_SUBSAMPLE_FQ_SALMON:SALMON_QUANT (Treated); status: RUNNING; exit: -; error: -; workDir: /media/manoj/Data/Manoj/Riboseq/work/cc/79cbe1824373fab56ced0e81410241] Mar-15 08:04:16.020 [Task monitor] DEBUG n.processor.TaskPollingMonitor - Task completed > TaskHandler[id: 17; name: NFCORE_RIBOSEQ:RIBOSEQ:PREPROCESS_RNASEQ:FASTQ_SUBSAMPLE_FQ_SALMON:SALMON_QUANT (Treated); status: COMPLETED; exit: 0; error: -; workDir: /media/manoj/Data/Manoj/Riboseq/work/cc/79cbe1824373fab56ced0e81410241] Mar-15 08:04:16.079 [Task submitter] DEBUG n.executor.local.LocalTaskHandler - Launch cmd line: /bin/bash -ue .command.run Mar-15 08:04:16.080 [Task submitter] INFO nextflow.Session - [cb/62ddc1] Submitted process > NFCORE_RIBOSEQ:RIBOSEQ:FASTQ_ALIGN_STAR:STAR_ALIGN (Treated) Mar-15 08:04:16.998 [Task monitor] DEBUG n.processor.TaskPollingMonitor - Task completed > TaskHandler[id: 18; name: NFCORE_RIBOSEQ:RIBOSEQ:FASTQ_ALIGN_STAR:STAR_ALIGN (Treated); status: COMPLETED; exit: 105; error: -; workDir: /media/manoj/Data/Manoj/Riboseq/work/cb/62ddc13bd0836e9601e1929b6abe68] Mar-15 08:04:17.008 [TaskFinalizer-7] DEBUG nextflow.processor.TaskProcessor - Handling unexpected condition for task: name=NFCORE_RIBOSEQ:RIBOSEQ:FASTQ_ALIGN_STAR:STAR_ALIGN (Treated); work-dir=/media/manoj/Data/Manoj/Riboseq/work/cb/62ddc13bd0836e9601e1929b6abe68 error [nextflow.exception.ProcessFailedException]: Process `NFCORE_RIBOSEQ:RIBOSEQ:FASTQ_ALIGN_STAR:STAR_ALIGN (Treated)` terminated with an error exit status (105) Mar-15 08:04:17.044 [TaskFinalizer-7] ERROR nextflow.processor.TaskProcessor - Error executing process > 'NFCORE_RIBOSEQ:RIBOSEQ:FASTQ_ALIGN_STAR:STAR_ALIGN (Treated)' Caused by: Process `NFCORE_RIBOSEQ:RIBOSEQ:FASTQ_ALIGN_STAR:STAR_ALIGN (Treated)` terminated with an error exit status (105) Command executed: STAR \ --genomeDir star \ --readFilesIn input1/Treated_1.non_rRNA.fastq.gz input2/Treated_2.non_rRNA.fastq.gz \ --runThreadN 12 \ --outFileNamePrefix Treated. \ \ --sjdbGTFfile genome.filtered.gtf \ --outSAMattrRGline 'ID:Treated' 'SM:Treated' \ --alignSJDBoverhangMin 1 --alignEndsType EndToEnd --outFilterMultimapNmax 20 --outSAMattributes All --outSAMstrandField intronMotif --outSAMtype BAM Unsorted --quantMode TranscriptomeSAM --quantTranscriptomeBan Singleend --readFilesCommand zcat --runRNGseed 0 --twopassMode Basic if [ -f Treated.Unmapped.out.mate1 ]; then mv Treated.Unmapped.out.mate1 Treated.unmapped_1.fastq gzip Treated.unmapped_1.fastq fi if [ -f Treated.Unmapped.out.mate2 ]; then mv Treated.Unmapped.out.mate2 Treated.unmapped_2.fastq gzip Treated.unmapped_2.fastq fi cat <<-END_VERSIONS > versions.yml "NFCORE_RIBOSEQ:RIBOSEQ:FASTQ_ALIGN_STAR:STAR_ALIGN": star: $(STAR --version | sed -e "s/STAR_//g") samtools: $(echo $(samtools --version 2>&1) | sed 's/^.*samtools //; s/Using.*$//') gawk: $(echo $(gawk --version 2>&1) | sed 's/^.*GNU Awk //; s/, .*$//') END_VERSIONS Command exit status: 105 Command output: STAR --genomeDir star --readFilesIn input1/Treated_1.non_rRNA.fastq.gz input2/Treated_2.non_rRNA.fastq.gz --runThreadN 12 --outFileNamePrefix Treated. --sjdbGTFfile genome.filtered.gtf --outSAMattrRGline ID:Treated SM:Treated --alignSJDBoverhangMin 1 --alignEndsType EndToEnd --outFilterMultimapNmax 20 --outSAMattributes All --outSAMstrandField intronMotif --outSAMtype BAM Unsorted --quantMode TranscriptomeSAM --quantTranscriptomeBan Singleend --readFilesCommand zcat --runRNGseed 0 --twopassMode Basic STAR version: 2.7.10a compiled: 2022-01-14T18:50:00-05:00 :/home/dobin/data/STAR/STARcode/STAR.master/source Mar 15 02:34:16 ..... started STAR run Mar 15 02:34:16 ..... loading genome Command error: STAR --genomeDir star --readFilesIn input1/Treated_1.non_rRNA.fastq.gz input2/Treated_2.non_rRNA.fastq.gz --runThreadN 12 --outFileNamePrefix Treated. --sjdbGTFfile genome.filtered.gtf --outSAMattrRGline ID:Treated SM:Treated --alignSJDBoverhangMin 1 --alignEndsType EndToEnd --outFilterMultimapNmax 20 --outSAMattributes All --outSAMstrandField intronMotif --outSAMtype BAM Unsorted --quantMode TranscriptomeSAM --quantTranscriptomeBan Singleend --readFilesCommand zcat --runRNGseed 0 --twopassMode Basic STAR version: 2.7.10a compiled: 2022-01-14T18:50:00-05:00 :/home/dobin/data/STAR/STARcode/STAR.master/source Mar 15 02:34:16 ..... started STAR run Mar 15 02:34:16 ..... loading genome EXITING because of FATAL ERROR: Genome version: 20201 is INCOMPATIBLE with running STAR version: 2.7.10a SOLUTION: please re-generate genome from scratch with running version of STAR, or with version: 2.7.4a Mar 15 02:34:16 ...... FATAL ERROR, exiting Work dir: /media/manoj/Data/Manoj/Riboseq/work/cb/62ddc13bd0836e9601e1929b6abe68 Container: quay.io/biocontainers/mulled-v2-1fa26d1ce03c295fe2fdcf85831a92fbcbd7e8c2:ded3841da0194af2701c780e9b3d653a85d27489-0 Tip: when you have fixed the problem you can continue the execution adding the option `-resume` to the run command line Mar-15 08:04:17.051 [TaskFinalizer-7] INFO nextflow.Session - Execution cancelled -- Finishing pending tasks before exit Mar-15 08:04:17.058 [main] DEBUG nextflow.Session - Session await > all processes finished Mar-15 08:04:17.067 [Actor Thread 24] DEBUG nextflow.processor.TaskProcessor - Handling unexpected condition for task: name=NFCORE_RIBOSEQ:RIBOSEQ:RIBOTRICER_DETECTORFS; work-dir=null error [java.lang.InterruptedException]: java.lang.InterruptedException Mar-15 08:04:17.077 [Actor Thread 16] DEBUG nextflow.sort.BigSort - Sort completed -- entries: 14; slices: 1; internal sort time: 0.011 s; external sort time: 0.003 s; total time: 0.014 s Mar-15 08:04:17.093 [Actor Thread 16] DEBUG nextflow.file.FileCollector - Saved collect-files list to: /media/manoj/Data/Manoj/Riboseq/work/collect-file/f438a4c50176bba070ac6e46d674abe8 Mar-15 08:04:17.096 [Actor Thread 16] DEBUG nextflow.file.FileCollector - Deleting file collector temp dir: /tmp/nxf-14004498817007242408 Mar-15 08:08:08.942 [Task monitor] DEBUG n.processor.TaskPollingMonitor - !! executor local > tasks to be completed: 1 -- submitted tasks are shown below ~> TaskHandler[id: 14; name: NFCORE_RIBOSEQ:RIBOSEQ:PREPROCESS_RNASEQ:SORTMERNA (Control); status: RUNNING; exit: -; error: -; workDir: /media/manoj/Data/Manoj/Riboseq/work/90/38706e8a2818b155bdeb9a7d4d134a] Mar-15 08:12:21.515 [SIGINT handler] DEBUG nextflow.Session - Session aborted -- Cause: SIGINT Mar-15 08:12:21.523 [Task monitor] DEBUG n.processor.TaskPollingMonitor - <<< barrier arrives (monitor: local) - terminating tasks monitor poll loop Mar-15 08:12:21.523 [main] DEBUG nextflow.Session - Session await > all barriers passed Mar-15 08:12:21.539 [main] INFO nextflow.Nextflow - -[nf-core/riboseq] Pipeline completed with errors- Mar-15 08:12:21.549 [main] WARN n.processor.TaskPollingMonitor - Killing running tasks (1) Mar-15 08:12:21.568 [main] DEBUG n.trace.WorkflowStatsObserver - Workflow completed > WorkflowStats[succeededCount=16; failedCount=1; ignoredCount=0; cachedCount=0; pendingCount=0; submittedCount=0; runningCount=0; retriesCount=0; abortedCount=1; succeedDuration=3d 10h 15m 3s; failedDuration=10.5s; cachedDuration=0ms;loadCpus=0; loadMemory=0; peakRunning=6; peakCpus=30; peakMemory=180 GB; ] Mar-15 08:12:21.568 [main] DEBUG nextflow.trace.TraceFileObserver - Workflow completed -- saving trace file Mar-15 08:12:21.571 [main] DEBUG nextflow.trace.ReportObserver - Workflow completed -- rendering execution report Mar-15 08:12:21.660 [SIGINT handler] DEBUG nextflow.Session - Thread[#65,JGit-FileStoreAttributeReader-1,5,main] java.base@19.0.2/jdk.internal.misc.Unsafe.park(Native Method) java.base@19.0.2/java.util.concurrent.locks.LockSupport.park(LockSupport.java:371) java.base@19.0.2/java.util.concurrent.locks.AbstractQueuedSynchronizer$ConditionNode.block(AbstractQueuedSynchronizer.java:506) java.base@19.0.2/java.util.concurrent.ForkJoinPool.unmanagedBlock(ForkJoinPool.java:3745) java.base@19.0.2/java.util.concurrent.ForkJoinPool.managedBlock(ForkJoinPool.java:3690) java.base@19.0.2/java.util.concurrent.locks.AbstractQueuedSynchronizer$ConditionObject.await(AbstractQueuedSynchronizer.java:1625) java.base@19.0.2/java.util.concurrent.LinkedBlockingQueue.take(LinkedBlockingQueue.java:435) java.base@19.0.2/java.util.concurrent.ThreadPoolExecutor.getTask(ThreadPoolExecutor.java:1070) java.base@19.0.2/java.util.concurrent.ThreadPoolExecutor.runWorker(ThreadPoolExecutor.java:1130) java.base@19.0.2/java.util.concurrent.ThreadPoolExecutor$Worker.run(ThreadPoolExecutor.java:642) java.base@19.0.2/java.lang.Thread.run(Thread.java:1589) Thread[#155,FileTransfer-5,5,main] java.base@19.0.2/jdk.internal.misc.Unsafe.park(Native Method) java.base@19.0.2/java.util.concurrent.locks.LockSupport.park(LockSupport.java:371) java.base@19.0.2/java.util.concurrent.locks.AbstractQueuedSynchronizer$ConditionNode.block(AbstractQueuedSynchronizer.java:506) java.base@19.0.2/java.util.concurrent.ForkJoinPool.unmanagedBlock(ForkJoinPool.java:3745) java.base@19.0.2/java.util.concurrent.ForkJoinPool.managedBlock(ForkJoinPool.java:3690) java.base@19.0.2/java.util.concurrent.locks.AbstractQueuedSynchronizer$ConditionObject.await(AbstractQueuedSynchronizer.java:1625) java.base@19.0.2/java.util.concurrent.LinkedBlockingQueue.take(LinkedBlockingQueue.java:435) java.base@19.0.2/java.util.concurrent.ThreadPoolExecutor.getTask(ThreadPoolExecutor.java:1070) java.base@19.0.2/java.util.concurrent.ThreadPoolExecutor.runWorker(ThreadPoolExecutor.java:1130) java.base@19.0.2/java.util.concurrent.ThreadPoolExecutor$Worker.run(ThreadPoolExecutor.java:642) java.base@19.0.2/java.lang.Thread.run(Thread.java:1589) Thread[#86,Actor Thread 13,5,main] java.base@19.0.2/jdk.internal.misc.Unsafe.park(Native Method) java.base@19.0.2/java.util.concurrent.locks.LockSupport.park(LockSupport.java:371) java.base@19.0.2/java.util.concurrent.SynchronousQueue$TransferStack$SNode.block(SynchronousQueue.java:288) java.base@19.0.2/java.util.concurrent.ForkJoinPool.unmanagedBlock(ForkJoinPool.java:3745) java.base@19.0.2/java.util.concurrent.ForkJoinPool.managedBlock(ForkJoinPool.java:3690) java.base@19.0.2/java.util.concurrent.SynchronousQueue$TransferStack.transfer(SynchronousQueue.java:397) java.base@19.0.2/java.util.concurrent.SynchronousQueue.take(SynchronousQueue.java:886) java.base@19.0.2/java.util.concurrent.ThreadPoolExecutor.getTask(ThreadPoolExecutor.java:1070) java.base@19.0.2/java.util.concurrent.ThreadPoolExecutor.runWorker(ThreadPoolExecutor.java:1130) java.base@19.0.2/java.util.concurrent.ThreadPoolExecutor$Worker.run(ThreadPoolExecutor.java:642) java.base@19.0.2/java.lang.Thread.run(Thread.java:1589) Thread[#137,S3TransferManager-6,5,main] java.base@19.0.2/jdk.internal.misc.Unsafe.park(Native Method) java.base@19.0.2/java.util.concurrent.locks.LockSupport.park(LockSupport.java:371) java.base@19.0.2/java.util.concurrent.locks.AbstractQueuedSynchronizer$ConditionNode.block(AbstractQueuedSynchronizer.java:506) java.base@19.0.2/java.util.concurrent.ForkJoinPool.unmanagedBlock(ForkJoinPool.java:3745) java.base@19.0.2/java.util.concurrent.ForkJoinPool.managedBlock(ForkJoinPool.java:3690) java.base@19.0.2/java.util.concurrent.locks.AbstractQueuedSynchronizer$ConditionObject.await(AbstractQueuedSynchronizer.java:1625) java.base@19.0.2/java.util.concurrent.LinkedBlockingQueue.take(LinkedBlockingQueue.java:435) java.base@19.0.2/java.util.concurrent.ThreadPoolExecutor.getTask(ThreadPoolExecutor.java:1070) java.base@19.0.2/java.util.concurrent.ThreadPoolExecutor.runWorker(ThreadPoolExecutor.java:1130) java.base@19.0.2/java.util.concurrent.ThreadPoolExecutor$Worker.run(ThreadPoolExecutor.java:642) java.base@19.0.2/java.lang.Thread.run(Thread.java:1589) Thread[#143,S3TransferManager-10,5,main] java.base@19.0.2/jdk.internal.misc.Unsafe.park(Native Method) java.base@19.0.2/java.util.concurrent.locks.LockSupport.park(LockSupport.java:371) java.base@19.0.2/java.util.concurrent.locks.AbstractQueuedSynchronizer$ConditionNode.block(AbstractQueuedSynchronizer.java:506) java.base@19.0.2/java.util.concurrent.ForkJoinPool.unmanagedBlock(ForkJoinPool.java:3745) java.base@19.0.2/java.util.concurrent.ForkJoinPool.managedBlock(ForkJoinPool.java:3690) java.base@19.0.2/java.util.concurrent.locks.AbstractQueuedSynchronizer$ConditionObject.await(AbstractQueuedSynchronizer.java:1625) java.base@19.0.2/java.util.concurrent.LinkedBlockingQueue.take(LinkedBlockingQueue.java:435) java.base@19.0.2/java.util.concurrent.ThreadPoolExecutor.getTask(ThreadPoolExecutor.java:1070) java.base@19.0.2/java.util.concurrent.ThreadPoolExecutor.runWorker(ThreadPoolExecutor.java:1130) java.base@19.0.2/java.util.concurrent.ThreadPoolExecutor$Worker.run(ThreadPoolExecutor.java:642) java.base@19.0.2/java.lang.Thread.run(Thread.java:1589) Thread[#133,S3TransferManager-3,5,main] java.base@19.0.2/jdk.internal.misc.Unsafe.park(Native Method) java.base@19.0.2/java.util.concurrent.locks.LockSupport.park(LockSupport.java:371) java.base@19.0.2/java.util.concurrent.locks.AbstractQueuedSynchronizer$ConditionNode.block(AbstractQueuedSynchronizer.java:506) java.base@19.0.2/java.util.concurrent.ForkJoinPool.unmanagedBlock(ForkJoinPool.java:3745) java.base@19.0.2/java.util.concurrent.ForkJoinPool.managedBlock(ForkJoinPool.java:3690) java.base@19.0.2/java.util.concurrent.locks.AbstractQueuedSynchronizer$ConditionObject.await(AbstractQueuedSynchronizer.java:1625) java.base@19.0.2/java.util.concurrent.LinkedBlockingQueue.take(LinkedBlockingQueue.java:435) java.base@19.0.2/java.util.concurrent.ThreadPoolExecutor.getTask(ThreadPoolExecutor.java:1070) java.base@19.0.2/java.util.concurrent.ThreadPoolExecutor.runWorker(ThreadPoolExecutor.java:1130) java.base@19.0.2/java.util.concurrent.ThreadPoolExecutor$Worker.run(ThreadPoolExecutor.java:642) java.base@19.0.2/java.lang.Thread.run(Thread.java:1589) Thread[#135,S3TransferManager-5,5,main] java.base@19.0.2/jdk.internal.misc.Unsafe.park(Native Method) java.base@19.0.2/java.util.concurrent.locks.LockSupport.park(LockSupport.java:371) java.base@19.0.2/java.util.concurrent.locks.AbstractQueuedSynchronizer$ConditionNode.block(AbstractQueuedSynchronizer.java:506) java.base@19.0.2/java.util.concurrent.ForkJoinPool.unmanagedBlock(ForkJoinPool.java:3745) java.base@19.0.2/java.util.concurrent.ForkJoinPool.managedBlock(ForkJoinPool.java:3690) java.base@19.0.2/java.util.concurrent.locks.AbstractQueuedSynchronizer$ConditionObject.await(AbstractQueuedSynchronizer.java:1625) java.base@19.0.2/java.util.concurrent.LinkedBlockingQueue.take(LinkedBlockingQueue.java:435) java.base@19.0.2/java.util.concurrent.ThreadPoolExecutor.getTask(ThreadPoolExecutor.java:1070) java.base@19.0.2/java.util.concurrent.ThreadPoolExecutor.runWorker(ThreadPoolExecutor.java:1130) java.base@19.0.2/java.util.concurrent.ThreadPoolExecutor$Worker.run(ThreadPoolExecutor.java:642) java.base@19.0.2/java.lang.Thread.run(Thread.java:1589) Thread[#139,S3TransferManager-8,5,main] java.base@19.0.2/jdk.internal.misc.Unsafe.park(Native Method) java.base@19.0.2/java.util.concurrent.locks.LockSupport.park(LockSupport.java:371) java.base@19.0.2/java.util.concurrent.locks.AbstractQueuedSynchronizer$ConditionNode.block(AbstractQueuedSynchronizer.java:506) java.base@19.0.2/java.util.concurrent.ForkJoinPool.unmanagedBlock(ForkJoinPool.java:3745) java.base@19.0.2/java.util.concurrent.ForkJoinPool.managedBlock(ForkJoinPool.java:3690) java.base@19.0.2/java.util.concurrent.locks.AbstractQueuedSynchronizer$ConditionObject.await(AbstractQueuedSynchronizer.java:1625) java.base@19.0.2/java.util.concurrent.LinkedBlockingQueue.take(LinkedBlockingQueue.java:435) java.base@19.0.2/java.util.concurrent.ThreadPoolExecutor.getTask(ThreadPoolExecutor.java:1070) java.base@19.0.2/java.util.concurrent.ThreadPoolExecutor.runWorker(ThreadPoolExecutor.java:1130) java.base@19.0.2/java.util.concurrent.ThreadPoolExecutor$Worker.run(ThreadPoolExecutor.java:642) java.base@19.0.2/java.lang.Thread.run(Thread.java:1589) Thread[#71,AnsiLogObserver,5,main] java.base@19.0.2/java.lang.Object.wait0(Native Method) java.base@19.0.2/java.lang.Object.wait(Object.java:366) app//nextflow.trace.AnsiLogObserver.render0(AnsiLogObserver.groovy:185) java.base@19.0.2/java.lang.invoke.DirectMethodHandle$Holder.invokeVirtual(DirectMethodHandle$Holder) java.base@19.0.2/java.lang.invoke.LambdaForm$MH/0x00000008013e4400.invoke(LambdaForm$MH) java.base@19.0.2/java.lang.invoke.Invokers$Holder.invokeExact_MT(Invokers$Holder) java.base@19.0.2/jdk.internal.reflect.DirectMethodHandleAccessor.invokeImpl(DirectMethodHandleAccessor.java:155) java.base@19.0.2/jdk.internal.reflect.DirectMethodHandleAccessor.invoke(DirectMethodHandleAccessor.java:104) java.base@19.0.2/java.lang.reflect.Method.invoke(Method.java:578) app//org.codehaus.groovy.reflection.CachedMethod.invoke(CachedMethod.java:343) app//groovy.lang.MetaMethod.doMethodInvoke(MetaMethod.java:328) app//groovy.lang.MetaClassImpl.doInvokeMethod(MetaClassImpl.java:1333) app//groovy.lang.MetaClassImpl.invokeMethod(MetaClassImpl.java:1088) app//groovy.lang.MetaClassImpl.invokeMethodClosure(MetaClassImpl.java:1017) app//groovy.lang.MetaClassImpl.doInvokeMethod(MetaClassImpl.java:1207) app//groovy.lang.MetaClassImpl.invokeMethod(MetaClassImpl.java:1088) app//groovy.lang.MetaClassImpl.invokeMethod(MetaClassImpl.java:1007) app//groovy.lang.Closure.call(Closure.java:433) app//groovy.lang.Closure.call(Closure.java:412) app//groovy.lang.Closure.run(Closure.java:505) java.base@19.0.2/java.lang.Thread.run(Thread.java:1589) Thread[#95,Actor Thread 21,5,main] java.base@19.0.2/jdk.internal.misc.Unsafe.park(Native Method) java.base@19.0.2/java.util.concurrent.locks.LockSupport.park(LockSupport.java:371) java.base@19.0.2/java.util.concurrent.SynchronousQueue$TransferStack$SNode.block(SynchronousQueue.java:288) java.base@19.0.2/java.util.concurrent.ForkJoinPool.unmanagedBlock(ForkJoinPool.java:3745) java.base@19.0.2/java.util.concurrent.ForkJoinPool.managedBlock(ForkJoinPool.java:3690) java.base@19.0.2/java.util.concurrent.SynchronousQueue$TransferStack.transfer(SynchronousQueue.java:397) java.base@19.0.2/java.util.concurrent.SynchronousQueue.take(SynchronousQueue.java:886) java.base@19.0.2/java.util.concurrent.ThreadPoolExecutor.getTask(ThreadPoolExecutor.java:1070) java.base@19.0.2/java.util.concurrent.ThreadPoolExecutor.runWorker(ThreadPoolExecutor.java:1130) java.base@19.0.2/java.util.concurrent.ThreadPoolExecutor$Worker.run(ThreadPoolExecutor.java:642) java.base@19.0.2/java.lang.Thread.run(Thread.java:1589) Thread[#101,Actor Thread 27,5,main] java.base@19.0.2/jdk.internal.misc.Unsafe.park(Native Method) java.base@19.0.2/java.util.concurrent.locks.LockSupport.park(LockSupport.java:371) java.base@19.0.2/java.util.concurrent.SynchronousQueue$TransferStack$SNode.block(SynchronousQueue.java:288) java.base@19.0.2/java.util.concurrent.ForkJoinPool.unmanagedBlock(ForkJoinPool.java:3745) java.base@19.0.2/java.util.concurrent.ForkJoinPool.managedBlock(ForkJoinPool.java:3690) java.base@19.0.2/java.util.concurrent.SynchronousQueue$TransferStack.transfer(SynchronousQueue.java:397) java.base@19.0.2/java.util.concurrent.SynchronousQueue.take(SynchronousQueue.java:886) java.base@19.0.2/java.util.concurrent.ThreadPoolExecutor.getTask(ThreadPoolExecutor.java:1070) java.base@19.0.2/java.util.concurrent.ThreadPoolExecutor.runWorker(ThreadPoolExecutor.java:1130) java.base@19.0.2/java.util.concurrent.ThreadPoolExecutor$Worker.run(ThreadPoolExecutor.java:642) java.base@19.0.2/java.lang.Thread.run(Thread.java:1589) Thread[#156,FileTransfer-6,5,main] java.base@19.0.2/jdk.internal.misc.Unsafe.park(Native Method) java.base@19.0.2/java.util.concurrent.locks.LockSupport.park(LockSupport.java:371) java.base@19.0.2/java.util.concurrent.locks.AbstractQueuedSynchronizer$ConditionNode.block(AbstractQueuedSynchronizer.java:506) java.base@19.0.2/java.util.concurrent.ForkJoinPool.unmanagedBlock(ForkJoinPool.java:3745) java.base@19.0.2/java.util.concurrent.ForkJoinPool.managedBlock(ForkJoinPool.java:3690) java.base@19.0.2/java.util.concurrent.locks.AbstractQueuedSynchronizer$ConditionObject.await(AbstractQueuedSynchronizer.java:1625) java.base@19.0.2/java.util.concurrent.LinkedBlockingQueue.take(LinkedBlockingQueue.java:435) java.base@19.0.2/java.util.concurrent.ThreadPoolExecutor.getTask(ThreadPoolExecutor.java:1070) java.base@19.0.2/java.util.concurrent.ThreadPoolExecutor.runWorker(ThreadPoolExecutor.java:1130) java.base@19.0.2/java.util.concurrent.ThreadPoolExecutor$Worker.run(ThreadPoolExecutor.java:642) java.base@19.0.2/java.lang.Thread.run(Thread.java:1589) Thread[#78,Task submitter,5,main] java.base@19.0.2/jdk.internal.misc.Unsafe.park(Native Method) java.base@19.0.2/java.util.concurrent.locks.LockSupport.park(LockSupport.java:371) java.base@19.0.2/java.util.concurrent.locks.AbstractQueuedSynchronizer$ConditionNode.block(AbstractQueuedSynchronizer.java:506) java.base@19.0.2/java.util.concurrent.ForkJoinPool.unmanagedBlock(ForkJoinPool.java:3745) java.base@19.0.2/java.util.concurrent.ForkJoinPool.managedBlock(ForkJoinPool.java:3690) java.base@19.0.2/java.util.concurrent.locks.AbstractQueuedSynchronizer$ConditionObject.await(AbstractQueuedSynchronizer.java:1625) app//nextflow.processor.TaskPollingMonitor.awaitTasks(TaskPollingMonitor.groovy:388) app//nextflow.processor.TaskPollingMonitor.submitLoop(TaskPollingMonitor.groovy:412) java.base@19.0.2/java.lang.invoke.LambdaForm$DMH/0x00000008011a2800.invokeVirtual(LambdaForm$DMH) java.base@19.0.2/java.lang.invoke.LambdaForm$MH/0x00000008014a4000.invoke(LambdaForm$MH) java.base@19.0.2/java.lang.invoke.Invokers$Holder.invokeExact_MT(Invokers$Holder) java.base@19.0.2/jdk.internal.reflect.DirectMethodHandleAccessor.invokeImpl(DirectMethodHandleAccessor.java:154) java.base@19.0.2/jdk.internal.reflect.DirectMethodHandleAccessor.invoke(DirectMethodHandleAccessor.java:104) java.base@19.0.2/java.lang.reflect.Method.invoke(Method.java:578) app//org.codehaus.groovy.reflection.CachedMethod.invoke(CachedMethod.java:343) app//groovy.lang.MetaMethod.doMethodInvoke(MetaMethod.java:328) app//groovy.lang.MetaClassImpl.doInvokeMethod(MetaClassImpl.java:1333) app//groovy.lang.MetaClassImpl.invokeMethod(MetaClassImpl.java:1088) app//groovy.lang.MetaClassImpl.invokeMethodClosure(MetaClassImpl.java:1017) app//groovy.lang.MetaClassImpl.doInvokeMethod(MetaClassImpl.java:1207) app//groovy.lang.MetaClassImpl.invokeMethod(MetaClassImpl.java:1088) app//groovy.lang.MetaClassImpl.invokeMethod(MetaClassImpl.java:1007) app//groovy.lang.Closure.call(Closure.java:433) app//groovy.lang.Closure.call(Closure.java:412) app//groovy.lang.Closure.run(Closure.java:505) java.base@19.0.2/java.lang.Thread.run(Thread.java:1589) Thread[#84,Actor Thread 11,5,main] java.base@19.0.2/jdk.internal.misc.Unsafe.park(Native Method) java.base@19.0.2/java.util.concurrent.locks.LockSupport.park(LockSupport.java:371) java.base@19.0.2/java.util.concurrent.SynchronousQueue$TransferStack$SNode.block(SynchronousQueue.java:288) java.base@19.0.2/java.util.concurrent.ForkJoinPool.unmanagedBlock(ForkJoinPool.java:3745) java.base@19.0.2/java.util.concurrent.ForkJoinPool.managedBlock(ForkJoinPool.java:3690) java.base@19.0.2/java.util.concurrent.SynchronousQueue$TransferStack.transfer(SynchronousQueue.java:397) java.base@19.0.2/java.util.concurrent.SynchronousQueue.take(SynchronousQueue.java:886) java.base@19.0.2/java.util.concurrent.ThreadPoolExecutor.getTask(ThreadPoolExecutor.java:1070) java.base@19.0.2/java.util.concurrent.ThreadPoolExecutor.runWorker(ThreadPoolExecutor.java:1130) java.base@19.0.2/java.util.concurrent.ThreadPoolExecutor$Worker.run(ThreadPoolExecutor.java:642) java.base@19.0.2/java.lang.Thread.run(Thread.java:1589) Thread[#85,Actor Thread 12,5,main] java.base@19.0.2/jdk.internal.misc.Unsafe.park(Native Method) java.base@19.0.2/java.util.concurrent.locks.LockSupport.park(LockSupport.java:371) java.base@19.0.2/java.util.concurrent.SynchronousQueue$TransferStack$SNode.block(SynchronousQueue.java:288) java.base@19.0.2/java.util.concurrent.ForkJoinPool.unmanagedBlock(ForkJoinPool.java:3745) java.base@19.0.2/java.util.concurrent.ForkJoinPool.managedBlock(ForkJoinPool.java:3690) java.base@19.0.2/java.util.concurrent.SynchronousQueue$TransferStack.transfer(SynchronousQueue.java:397) java.base@19.0.2/java.util.concurrent.SynchronousQueue.take(SynchronousQueue.java:886) java.base@19.0.2/java.util.concurrent.ThreadPoolExecutor.getTask(ThreadPoolExecutor.java:1070) java.base@19.0.2/java.util.concurrent.ThreadPoolExecutor.runWorker(ThreadPoolExecutor.java:1130) java.base@19.0.2/java.util.concurrent.ThreadPoolExecutor$Worker.run(ThreadPoolExecutor.java:642) java.base@19.0.2/java.lang.Thread.run(Thread.java:1589) Thread[#160,FileTransfer-10,5,main] java.base@19.0.2/jdk.internal.misc.Unsafe.park(Native Method) java.base@19.0.2/java.util.concurrent.locks.LockSupport.park(LockSupport.java:371) java.base@19.0.2/java.util.concurrent.locks.AbstractQueuedSynchronizer$ConditionNode.block(AbstractQueuedSynchronizer.java:506) java.base@19.0.2/java.util.concurrent.ForkJoinPool.unmanagedBlock(ForkJoinPool.java:3745) java.base@19.0.2/java.util.concurrent.ForkJoinPool.managedBlock(ForkJoinPool.java:3690) java.base@19.0.2/java.util.concurrent.locks.AbstractQueuedSynchronizer$ConditionObject.await(AbstractQueuedSynchronizer.java:1625) java.base@19.0.2/java.util.concurrent.LinkedBlockingQueue.take(LinkedBlockingQueue.java:435) java.base@19.0.2/java.util.concurrent.ThreadPoolExecutor.getTask(ThreadPoolExecutor.java:1070) java.base@19.0.2/java.util.concurrent.ThreadPoolExecutor.runWorker(ThreadPoolExecutor.java:1130) java.base@19.0.2/java.util.concurrent.ThreadPoolExecutor$Worker.run(ThreadPoolExecutor.java:642) java.base@19.0.2/java.lang.Thread.run(Thread.java:1589) Thread[#76,java-sdk-http-connection-reaper,5,main] java.base@19.0.2/java.lang.Thread.sleep0(Native Method) java.base@19.0.2/java.lang.Thread.sleep(Thread.java:465) com.amazonaws.http.IdleConnectionReaper.run(IdleConnectionReaper.java:188) Thread[#223,pool-2-thread-14,5,main] java.base@19.0.2/jdk.internal.misc.Unsafe.park(Native Method) java.base@19.0.2/java.util.concurrent.locks.LockSupport.park(LockSupport.java:371) java.base@19.0.2/java.util.concurrent.locks.AbstractQueuedSynchronizer$ConditionNode.block(AbstractQueuedSynchronizer.java:506) java.base@19.0.2/java.util.concurrent.ForkJoinPool.unmanagedBlock(ForkJoinPool.java:3745) java.base@19.0.2/java.util.concurrent.ForkJoinPool.managedBlock(ForkJoinPool.java:3690) java.base@19.0.2/java.util.concurrent.locks.AbstractQueuedSynchronizer$ConditionObject.await(AbstractQueuedSynchronizer.java:1625) java.base@19.0.2/java.util.concurrent.LinkedBlockingQueue.take(LinkedBlockingQueue.java:435) java.base@19.0.2/java.util.concurrent.ThreadPoolExecutor.getTask(ThreadPoolExecutor.java:1070) java.base@19.0.2/java.util.concurrent.ThreadPoolExecutor.runWorker(ThreadPoolExecutor.java:1130) java.base@19.0.2/java.util.concurrent.ThreadPoolExecutor$Worker.run(ThreadPoolExecutor.java:642) java.base@19.0.2/java.lang.Thread.run(Thread.java:1589) Thread[#111,pool-2-thread-1,5,main] java.base@19.0.2/jdk.internal.misc.Unsafe.park(Native Method) java.base@19.0.2/java.util.concurrent.locks.LockSupport.park(LockSupport.java:371) java.base@19.0.2/java.util.concurrent.locks.AbstractQueuedSynchronizer$ConditionNode.block(AbstractQueuedSynchronizer.java:506) java.base@19.0.2/java.util.concurrent.ForkJoinPool.unmanagedBlock(ForkJoinPool.java:3745) java.base@19.0.2/java.util.concurrent.ForkJoinPool.managedBlock(ForkJoinPool.java:3690) java.base@19.0.2/java.util.concurrent.locks.AbstractQueuedSynchronizer$ConditionObject.await(AbstractQueuedSynchronizer.java:1625) java.base@19.0.2/java.util.concurrent.LinkedBlockingQueue.take(LinkedBlockingQueue.java:435) java.base@19.0.2/java.util.concurrent.ThreadPoolExecutor.getTask(ThreadPoolExecutor.java:1070) java.base@19.0.2/java.util.concurrent.ThreadPoolExecutor.runWorker(ThreadPoolExecutor.java:1130) java.base@19.0.2/java.util.concurrent.ThreadPoolExecutor$Worker.run(ThreadPoolExecutor.java:642) java.base@19.0.2/java.lang.Thread.run(Thread.java:1589) Thread[#73,Actor Thread 3,5,main] java.base@19.0.2/jdk.internal.misc.Unsafe.park(Native Method) java.base@19.0.2/java.util.concurrent.locks.LockSupport.park(LockSupport.java:371) java.base@19.0.2/java.util.concurrent.SynchronousQueue$TransferStack$SNode.block(SynchronousQueue.java:288) java.base@19.0.2/java.util.concurrent.ForkJoinPool.unmanagedBlock(ForkJoinPool.java:3745) java.base@19.0.2/java.util.concurrent.ForkJoinPool.managedBlock(ForkJoinPool.java:3690) java.base@19.0.2/java.util.concurrent.SynchronousQueue$TransferStack.transfer(SynchronousQueue.java:397) java.base@19.0.2/java.util.concurrent.SynchronousQueue.take(SynchronousQueue.java:886) java.base@19.0.2/java.util.concurrent.ThreadPoolExecutor.getTask(ThreadPoolExecutor.java:1070) java.base@19.0.2/java.util.concurrent.ThreadPoolExecutor.runWorker(ThreadPoolExecutor.java:1130) java.base@19.0.2/java.util.concurrent.ThreadPoolExecutor$Worker.run(ThreadPoolExecutor.java:642) java.base@19.0.2/java.lang.Thread.run(Thread.java:1589) Thread[#89,Actor Thread 15,5,main] java.base@19.0.2/jdk.internal.misc.Unsafe.park(Native Method) java.base@19.0.2/java.util.concurrent.locks.LockSupport.park(LockSupport.java:371) java.base@19.0.2/java.util.concurrent.SynchronousQueue$TransferStack$SNode.block(SynchronousQueue.java:288) java.base@19.0.2/java.util.concurrent.ForkJoinPool.unmanagedBlock(ForkJoinPool.java:3745) java.base@19.0.2/java.util.concurrent.ForkJoinPool.managedBlock(ForkJoinPool.java:3690) java.base@19.0.2/java.util.concurrent.SynchronousQueue$TransferStack.transfer(SynchronousQueue.java:397) java.base@19.0.2/java.util.concurrent.SynchronousQueue.take(SynchronousQueue.java:886) java.base@19.0.2/java.util.concurrent.ThreadPoolExecutor.getTask(ThreadPoolExecutor.java:1070) java.base@19.0.2/java.util.concurrent.ThreadPoolExecutor.runWorker(ThreadPoolExecutor.java:1130) java.base@19.0.2/java.util.concurrent.ThreadPoolExecutor$Worker.run(ThreadPoolExecutor.java:642) java.base@19.0.2/java.lang.Thread.run(Thread.java:1589) Thread[#177,pool-2-thread-6,5,main] java.base@19.0.2/jdk.internal.misc.Unsafe.park(Native Method) java.base@19.0.2/java.util.concurrent.locks.LockSupport.park(LockSupport.java:371) java.base@19.0.2/java.util.concurrent.locks.AbstractQueuedSynchronizer$ConditionNode.block(AbstractQueuedSynchronizer.java:506) java.base@19.0.2/java.util.concurrent.ForkJoinPool.unmanagedBlock(ForkJoinPool.java:3745) java.base@19.0.2/java.util.concurrent.ForkJoinPool.managedBlock(ForkJoinPool.java:3690) java.base@19.0.2/java.util.concurrent.locks.AbstractQueuedSynchronizer$ConditionObject.await(AbstractQueuedSynchronizer.java:1625) java.base@19.0.2/java.util.concurrent.LinkedBlockingQueue.take(LinkedBlockingQueue.java:435) java.base@19.0.2/java.util.concurrent.ThreadPoolExecutor.getTask(ThreadPoolExecutor.java:1070) java.base@19.0.2/java.util.concurrent.ThreadPoolExecutor.runWorker(ThreadPoolExecutor.java:1130) java.base@19.0.2/java.util.concurrent.ThreadPoolExecutor$Worker.run(ThreadPoolExecutor.java:642) java.base@19.0.2/java.lang.Thread.run(Thread.java:1589) Thread[#105,Actor Thread 31,5,main] java.base@19.0.2/jdk.internal.misc.Unsafe.park(Native Method) java.base@19.0.2/java.util.concurrent.locks.LockSupport.park(LockSupport.java:371) java.base@19.0.2/java.util.concurrent.SynchronousQueue$TransferStack$SNode.block(SynchronousQueue.java:288) java.base@19.0.2/java.util.concurrent.ForkJoinPool.unmanagedBlock(ForkJoinPool.java:3745) java.base@19.0.2/java.util.concurrent.ForkJoinPool.managedBlock(ForkJoinPool.java:3690) java.base@19.0.2/java.util.concurrent.SynchronousQueue$TransferStack.transfer(SynchronousQueue.java:397) java.base@19.0.2/java.util.concurrent.SynchronousQueue.take(SynchronousQueue.java:886) java.base@19.0.2/java.util.concurrent.ThreadPoolExecutor.getTask(ThreadPoolExecutor.java:1070) java.base@19.0.2/java.util.concurrent.ThreadPoolExecutor.runWorker(ThreadPoolExecutor.java:1130) java.base@19.0.2/java.util.concurrent.ThreadPoolExecutor$Worker.run(ThreadPoolExecutor.java:642) java.base@19.0.2/java.lang.Thread.run(Thread.java:1589) Thread[#116,pool-2-thread-4,5,main] java.base@19.0.2/jdk.internal.misc.Unsafe.park(Native Method) java.base@19.0.2/java.util.concurrent.locks.LockSupport.park(LockSupport.java:371) java.base@19.0.2/java.util.concurrent.locks.AbstractQueuedSynchronizer$ConditionNode.block(AbstractQueuedSynchronizer.java:506) java.base@19.0.2/java.util.concurrent.ForkJoinPool.unmanagedBlock(ForkJoinPool.java:3745) java.base@19.0.2/java.util.concurrent.ForkJoinPool.managedBlock(ForkJoinPool.java:3690) java.base@19.0.2/java.util.concurrent.locks.AbstractQueuedSynchronizer$ConditionObject.await(AbstractQueuedSynchronizer.java:1625) java.base@19.0.2/java.util.concurrent.LinkedBlockingQueue.take(LinkedBlockingQueue.java:435) java.base@19.0.2/java.util.concurrent.ThreadPoolExecutor.getTask(ThreadPoolExecutor.java:1070) java.base@19.0.2/java.util.concurrent.ThreadPoolExecutor.runWorker(ThreadPoolExecutor.java:1130) java.base@19.0.2/java.util.concurrent.ThreadPoolExecutor$Worker.run(ThreadPoolExecutor.java:642) java.base@19.0.2/java.lang.Thread.run(Thread.java:1589) Thread[#176,pool-2-thread-5,5,main] java.base@19.0.2/jdk.internal.misc.Unsafe.park(Native Method) java.base@19.0.2/java.util.concurrent.locks.LockSupport.park(LockSupport.java:371) java.base@19.0.2/java.util.concurrent.locks.AbstractQueuedSynchronizer$ConditionNode.block(AbstractQueuedSynchronizer.java:506) java.base@19.0.2/java.util.concurrent.ForkJoinPool.unmanagedBlock(ForkJoinPool.java:3745) java.base@19.0.2/java.util.concurrent.ForkJoinPool.managedBlock(ForkJoinPool.java:3690) java.base@19.0.2/java.util.concurrent.locks.AbstractQueuedSynchronizer$ConditionObject.await(AbstractQueuedSynchronizer.java:1625) java.base@19.0.2/java.util.concurrent.LinkedBlockingQueue.take(LinkedBlockingQueue.java:435) java.base@19.0.2/java.util.concurrent.ThreadPoolExecutor.getTask(ThreadPoolExecutor.java:1070) java.base@19.0.2/java.util.concurrent.ThreadPoolExecutor.runWorker(ThreadPoolExecutor.java:1130) java.base@19.0.2/java.util.concurrent.ThreadPoolExecutor$Worker.run(ThreadPoolExecutor.java:642) java.base@19.0.2/java.lang.Thread.run(Thread.java:1589) Thread[#98,Actor Thread 24,5,main] java.base@19.0.2/jdk.internal.misc.Unsafe.park(Native Method) java.base@19.0.2/java.util.concurrent.locks.LockSupport.park(LockSupport.java:371) java.base@19.0.2/java.util.concurrent.SynchronousQueue$TransferStack$SNode.block(SynchronousQueue.java:288) java.base@19.0.2/java.util.concurrent.ForkJoinPool.unmanagedBlock(ForkJoinPool.java:3745) java.base@19.0.2/java.util.concurrent.ForkJoinPool.managedBlock(ForkJoinPool.java:3690) java.base@19.0.2/java.util.concurrent.SynchronousQueue$TransferStack.transfer(SynchronousQueue.java:397) java.base@19.0.2/java.util.concurrent.SynchronousQueue.take(SynchronousQueue.java:886) java.base@19.0.2/java.util.concurrent.ThreadPoolExecutor.getTask(ThreadPoolExecutor.java:1070) java.base@19.0.2/java.util.concurrent.ThreadPoolExecutor.runWorker(ThreadPoolExecutor.java:1130) java.base@19.0.2/java.util.concurrent.ThreadPoolExecutor$Worker.run(ThreadPoolExecutor.java:642) java.base@19.0.2/java.lang.Thread.run(Thread.java:1589) Thread[#103,Actor Thread 29,5,main] java.base@19.0.2/jdk.internal.misc.Unsafe.park(Native Method) java.base@19.0.2/java.util.concurrent.locks.LockSupport.park(LockSupport.java:371) java.base@19.0.2/java.util.concurrent.SynchronousQueue$TransferStack$SNode.block(SynchronousQueue.java:288) java.base@19.0.2/java.util.concurrent.ForkJoinPool.unmanagedBlock(ForkJoinPool.java:3745) java.base@19.0.2/java.util.concurrent.ForkJoinPool.managedBlock(ForkJoinPool.java:3690) java.base@19.0.2/java.util.concurrent.SynchronousQueue$TransferStack.transfer(SynchronousQueue.java:397) java.base@19.0.2/java.util.concurrent.SynchronousQueue.take(SynchronousQueue.java:886) java.base@19.0.2/java.util.concurrent.ThreadPoolExecutor.getTask(ThreadPoolExecutor.java:1070) java.base@19.0.2/java.util.concurrent.ThreadPoolExecutor.runWorker(ThreadPoolExecutor.java:1130) java.base@19.0.2/java.util.concurrent.ThreadPoolExecutor$Worker.run(ThreadPoolExecutor.java:642) java.base@19.0.2/java.lang.Thread.run(Thread.java:1589) Thread[#75,Actor Thread 5,5,main] java.base@19.0.2/jdk.internal.misc.Unsafe.park(Native Method) java.base@19.0.2/java.util.concurrent.locks.LockSupport.park(LockSupport.java:371) java.base@19.0.2/java.util.concurrent.SynchronousQueue$TransferStack$SNode.block(SynchronousQueue.java:288) java.base@19.0.2/java.util.concurrent.ForkJoinPool.unmanagedBlock(ForkJoinPool.java:3745) java.base@19.0.2/java.util.concurrent.ForkJoinPool.managedBlock(ForkJoinPool.java:3690) java.base@19.0.2/java.util.concurrent.SynchronousQueue$TransferStack.transfer(SynchronousQueue.java:397) java.base@19.0.2/java.util.concurrent.SynchronousQueue.take(SynchronousQueue.java:886) java.base@19.0.2/java.util.concurrent.ThreadPoolExecutor.getTask(ThreadPoolExecutor.java:1070) java.base@19.0.2/java.util.concurrent.ThreadPoolExecutor.runWorker(ThreadPoolExecutor.java:1130) java.base@19.0.2/java.util.concurrent.ThreadPoolExecutor$Worker.run(ThreadPoolExecutor.java:642) java.base@19.0.2/java.lang.Thread.run(Thread.java:1589) Thread[#82,Actor Thread 9,5,main] java.base@19.0.2/jdk.internal.misc.Unsafe.park(Native Method) java.base@19.0.2/java.util.concurrent.locks.LockSupport.park(LockSupport.java:371) java.base@19.0.2/java.util.concurrent.SynchronousQueue$TransferStack$SNode.block(SynchronousQueue.java:288) java.base@19.0.2/java.util.concurrent.ForkJoinPool.unmanagedBlock(ForkJoinPool.java:3745) java.base@19.0.2/java.util.concurrent.ForkJoinPool.managedBlock(ForkJoinPool.java:3690) java.base@19.0.2/java.util.concurrent.SynchronousQueue$TransferStack.transfer(SynchronousQueue.java:397) java.base@19.0.2/java.util.concurrent.SynchronousQueue.take(SynchronousQueue.java:886) java.base@19.0.2/java.util.concurrent.ThreadPoolExecutor.getTask(ThreadPoolExecutor.java:1070) java.base@19.0.2/java.util.concurrent.ThreadPoolExecutor.runWorker(ThreadPoolExecutor.java:1130) java.base@19.0.2/java.util.concurrent.ThreadPoolExecutor$Worker.run(ThreadPoolExecutor.java:642) java.base@19.0.2/java.lang.Thread.run(Thread.java:1589) Thread[#154,FileTransfer-4,5,main] java.base@19.0.2/jdk.internal.misc.Unsafe.park(Native Method) java.base@19.0.2/java.util.concurrent.locks.LockSupport.park(LockSupport.java:371) java.base@19.0.2/java.util.concurrent.locks.AbstractQueuedSynchronizer$ConditionNode.block(AbstractQueuedSynchronizer.java:506) java.base@19.0.2/java.util.concurrent.ForkJoinPool.unmanagedBlock(ForkJoinPool.java:3745) java.base@19.0.2/java.util.concurrent.ForkJoinPool.managedBlock(ForkJoinPool.java:3690) java.base@19.0.2/java.util.concurrent.locks.AbstractQueuedSynchronizer$ConditionObject.await(AbstractQueuedSynchronizer.java:1625) java.base@19.0.2/java.util.concurrent.LinkedBlockingQueue.take(LinkedBlockingQueue.java:435) java.base@19.0.2/java.util.concurrent.ThreadPoolExecutor.getTask(ThreadPoolExecutor.java:1070) java.base@19.0.2/java.util.concurrent.ThreadPoolExecutor.runWorker(ThreadPoolExecutor.java:1130) java.base@19.0.2/java.util.concurrent.ThreadPoolExecutor$Worker.run(ThreadPoolExecutor.java:642) java.base@19.0.2/java.lang.Thread.run(Thread.java:1589) Thread[#106,Actor Thread 32,5,main] java.base@19.0.2/jdk.internal.misc.Unsafe.park(Native Method) java.base@19.0.2/java.util.concurrent.locks.LockSupport.park(LockSupport.java:371) java.base@19.0.2/java.util.concurrent.SynchronousQueue$TransferStack$SNode.block(SynchronousQueue.java:288) java.base@19.0.2/java.util.concurrent.ForkJoinPool.unmanagedBlock(ForkJoinPool.java:3745) java.base@19.0.2/java.util.concurrent.ForkJoinPool.managedBlock(ForkJoinPool.java:3690) java.base@19.0.2/java.util.concurrent.SynchronousQueue$TransferStack.transfer(SynchronousQueue.java:397) java.base@19.0.2/java.util.concurrent.SynchronousQueue.take(SynchronousQueue.java:886) java.base@19.0.2/java.util.concurrent.ThreadPoolExecutor.getTask(ThreadPoolExecutor.java:1070) java.base@19.0.2/java.util.concurrent.ThreadPoolExecutor.runWorker(ThreadPoolExecutor.java:1130) java.base@19.0.2/java.util.concurrent.ThreadPoolExecutor$Worker.run(ThreadPoolExecutor.java:642) java.base@19.0.2/java.lang.Thread.run(Thread.java:1589) Thread[#104,Actor Thread 30,5,main] java.base@19.0.2/jdk.internal.misc.Unsafe.park(Native Method) java.base@19.0.2/java.util.concurrent.locks.LockSupport.park(LockSupport.java:371) java.base@19.0.2/java.util.concurrent.SynchronousQueue$TransferStack$SNode.block(SynchronousQueue.java:288) java.base@19.0.2/java.util.concurrent.ForkJoinPool.unmanagedBlock(ForkJoinPool.java:3745) java.base@19.0.2/java.util.concurrent.ForkJoinPool.managedBlock(ForkJoinPool.java:3690) java.base@19.0.2/java.util.concurrent.SynchronousQueue$TransferStack.transfer(SynchronousQueue.java:397) java.base@19.0.2/java.util.concurrent.SynchronousQueue.take(SynchronousQueue.java:886) java.base@19.0.2/java.util.concurrent.ThreadPoolExecutor.getTask(ThreadPoolExecutor.java:1070) java.base@19.0.2/java.util.concurrent.ThreadPoolExecutor.runWorker(ThreadPoolExecutor.java:1130) java.base@19.0.2/java.util.concurrent.ThreadPoolExecutor$Worker.run(ThreadPoolExecutor.java:642) java.base@19.0.2/java.lang.Thread.run(Thread.java:1589) Thread[#100,Actor Thread 26,5,main] java.base@19.0.2/jdk.internal.misc.Unsafe.park(Native Method) java.base@19.0.2/java.util.concurrent.locks.LockSupport.park(LockSupport.java:371) java.base@19.0.2/java.util.concurrent.SynchronousQueue$TransferStack$SNode.block(SynchronousQueue.java:288) java.base@19.0.2/java.util.concurrent.ForkJoinPool.unmanagedBlock(ForkJoinPool.java:3745) java.base@19.0.2/java.util.concurrent.ForkJoinPool.managedBlock(ForkJoinPool.java:3690) java.base@19.0.2/java.util.concurrent.SynchronousQueue$TransferStack.transfer(SynchronousQueue.java:397) java.base@19.0.2/java.util.concurrent.SynchronousQueue.take(SynchronousQueue.java:886) java.base@19.0.2/java.util.concurrent.ThreadPoolExecutor.getTask(ThreadPoolExecutor.java:1070) java.base@19.0.2/java.util.concurrent.ThreadPoolExecutor.runWorker(ThreadPoolExecutor.java:1130) java.base@19.0.2/java.util.concurrent.ThreadPoolExecutor$Worker.run(ThreadPoolExecutor.java:642) java.base@19.0.2/java.lang.Thread.run(Thread.java:1589) Thread[#142,S3TransferManager-9,5,main] java.base@19.0.2/jdk.internal.misc.Unsafe.park(Native Method) java.base@19.0.2/java.util.concurrent.locks.LockSupport.park(LockSupport.java:371) java.base@19.0.2/java.util.concurrent.locks.AbstractQueuedSynchronizer$ConditionNode.block(AbstractQueuedSynchronizer.java:506) java.base@19.0.2/java.util.concurrent.ForkJoinPool.unmanagedBlock(ForkJoinPool.java:3745) java.base@19.0.2/java.util.concurrent.ForkJoinPool.managedBlock(ForkJoinPool.java:3690) java.base@19.0.2/java.util.concurrent.locks.AbstractQueuedSynchronizer$ConditionObject.await(AbstractQueuedSynchronizer.java:1625) java.base@19.0.2/java.util.concurrent.LinkedBlockingQueue.take(LinkedBlockingQueue.java:435) java.base@19.0.2/java.util.concurrent.ThreadPoolExecutor.getTask(ThreadPoolExecutor.java:1070) java.base@19.0.2/java.util.concurrent.ThreadPoolExecutor.runWorker(ThreadPoolExecutor.java:1130) java.base@19.0.2/java.util.concurrent.ThreadPoolExecutor$Worker.run(ThreadPoolExecutor.java:642) java.base@19.0.2/java.lang.Thread.run(Thread.java:1589) Thread[#159,FileTransfer-9,5,main] java.base@19.0.2/jdk.internal.misc.Unsafe.park(Native Method) java.base@19.0.2/java.util.concurrent.locks.LockSupport.park(LockSupport.java:371) java.base@19.0.2/java.util.concurrent.locks.AbstractQueuedSynchronizer$ConditionNode.block(AbstractQueuedSynchronizer.java:506) java.base@19.0.2/java.util.concurrent.ForkJoinPool.unmanagedBlock(ForkJoinPool.java:3745) java.base@19.0.2/java.util.concurrent.ForkJoinPool.managedBlock(ForkJoinPool.java:3690) java.base@19.0.2/java.util.concurrent.locks.AbstractQueuedSynchronizer$ConditionObject.await(AbstractQueuedSynchronizer.java:1625) java.base@19.0.2/java.util.concurrent.LinkedBlockingQueue.take(LinkedBlockingQueue.java:435) java.base@19.0.2/java.util.concurrent.ThreadPoolExecutor.getTask(ThreadPoolExecutor.java:1070) java.base@19.0.2/java.util.concurrent.ThreadPoolExecutor.runWorker(ThreadPoolExecutor.java:1130) java.base@19.0.2/java.util.concurrent.ThreadPoolExecutor$Worker.run(ThreadPoolExecutor.java:642) java.base@19.0.2/java.lang.Thread.run(Thread.java:1589) Thread[#8,Reference Handler,10,system] java.base@19.0.2/java.lang.ref.Reference.waitForReferencePendingList(Native Method) java.base@19.0.2/java.lang.ref.Reference.processPendingReferences(Reference.java:245) java.base@19.0.2/java.lang.ref.Reference$ReferenceHandler.run(Reference.java:207) Thread[#74,Actor Thread 4,5,main] java.base@19.0.2/jdk.internal.misc.Unsafe.park(Native Method) java.base@19.0.2/java.util.concurrent.locks.LockSupport.park(LockSupport.java:371) java.base@19.0.2/java.util.concurrent.SynchronousQueue$TransferStack$SNode.block(SynchronousQueue.java:288) java.base@19.0.2/java.util.concurrent.ForkJoinPool.unmanagedBlock(ForkJoinPool.java:3745) java.base@19.0.2/java.util.concurrent.ForkJoinPool.managedBlock(ForkJoinPool.java:3690) java.base@19.0.2/java.util.concurrent.SynchronousQueue$TransferStack.transfer(SynchronousQueue.java:397) java.base@19.0.2/java.util.concurrent.SynchronousQueue.take(SynchronousQueue.java:886) java.base@19.0.2/java.util.concurrent.ThreadPoolExecutor.getTask(ThreadPoolExecutor.java:1070) java.base@19.0.2/java.util.concurrent.ThreadPoolExecutor.runWorker(ThreadPoolExecutor.java:1130) java.base@19.0.2/java.util.concurrent.ThreadPoolExecutor$Worker.run(ThreadPoolExecutor.java:642) java.base@19.0.2/java.lang.Thread.run(Thread.java:1589) Thread[#92,Actor Thread 18,5,main] java.base@19.0.2/jdk.internal.misc.Unsafe.park(Native Method) java.base@19.0.2/java.util.concurrent.locks.LockSupport.park(LockSupport.java:371) java.base@19.0.2/java.util.concurrent.SynchronousQueue$TransferStack$SNode.block(SynchronousQueue.java:288) java.base@19.0.2/java.util.concurrent.ForkJoinPool.unmanagedBlock(ForkJoinPool.java:3745) java.base@19.0.2/java.util.concurrent.ForkJoinPool.managedBlock(ForkJoinPool.java:3690) java.base@19.0.2/java.util.concurrent.SynchronousQueue$TransferStack.transfer(SynchronousQueue.java:397) java.base@19.0.2/java.util.concurrent.SynchronousQueue.take(SynchronousQueue.java:886) java.base@19.0.2/java.util.concurrent.ThreadPoolExecutor.getTask(ThreadPoolExecutor.java:1070) java.base@19.0.2/java.util.concurrent.ThreadPoolExecutor.runWorker(ThreadPoolExecutor.java:1130) java.base@19.0.2/java.util.concurrent.ThreadPoolExecutor$Worker.run(ThreadPoolExecutor.java:642) java.base@19.0.2/java.lang.Thread.run(Thread.java:1589) Thread[#198,pool-2-thread-10,5,main] java.base@19.0.2/jdk.internal.misc.Unsafe.park(Native Method) java.base@19.0.2/java.util.concurrent.locks.LockSupport.park(LockSupport.java:371) java.base@19.0.2/java.util.concurrent.locks.AbstractQueuedSynchronizer$ConditionNode.block(AbstractQueuedSynchronizer.java:506) java.base@19.0.2/java.util.concurrent.ForkJoinPool.unmanagedBlock(ForkJoinPool.java:3745) java.base@19.0.2/java.util.concurrent.ForkJoinPool.managedBlock(ForkJoinPool.java:3690) java.base@19.0.2/java.util.concurrent.locks.AbstractQueuedSynchronizer$ConditionObject.await(AbstractQueuedSynchronizer.java:1625) java.base@19.0.2/java.util.concurrent.LinkedBlockingQueue.take(LinkedBlockingQueue.java:435) java.base@19.0.2/java.util.concurrent.ThreadPoolExecutor.getTask(ThreadPoolExecutor.java:1070) java.base@19.0.2/java.util.concurrent.ThreadPoolExecutor.runWorker(ThreadPoolExecutor.java:1130) java.base@19.0.2/java.util.concurrent.ThreadPoolExecutor$Worker.run(ThreadPoolExecutor.java:642) java.base@19.0.2/java.lang.Thread.run(Thread.java:1589) Thread[#231,SIGINT handler,9,system] java.base@19.0.2/java.lang.Thread.dumpThreads(Native Method) java.base@19.0.2/java.lang.Thread.getAllStackTraces(Thread.java:2621) app//nextflow.util.SysHelper.dumpThreads(SysHelper.groovy:188) app//nextflow.Session.abort(Session.groovy:800) app//nextflow.Session$_registerSignalHandlers_closure17.doCall(Session.groovy:489) java.base@19.0.2/java.lang.invoke.DirectMethodHandle$Holder.invokeSpecial(DirectMethodHandle$Holder) java.base@19.0.2/java.lang.invoke.LambdaForm$MH/0x000000080117d800.invoke(LambdaForm$MH) java.base@19.0.2/java.lang.invoke.Invokers$Holder.invokeExact_MT(Invokers$Holder) java.base@19.0.2/jdk.internal.reflect.DirectMethodHandleAccessor.invokeImpl(DirectMethodHandleAccessor.java:155) java.base@19.0.2/jdk.internal.reflect.DirectMethodHandleAccessor.invoke(DirectMethodHandleAccessor.java:104) java.base@19.0.2/java.lang.reflect.Method.invoke(Method.java:578) app//org.codehaus.groovy.reflection.CachedMethod.invoke(CachedMethod.java:343) app//groovy.lang.MetaMethod.doMethodInvoke(MetaMethod.java:328) app//org.codehaus.groovy.runtime.metaclass.ClosureMetaClass.invokeMethod(ClosureMetaClass.java:279) app//groovy.lang.MetaClassImpl.invokeMethod(MetaClassImpl.java:1007) app//groovy.lang.Closure.call(Closure.java:433) app//org.codehaus.groovy.runtime.ConvertedClosure.invokeCustom(ConvertedClosure.java:52) app//org.codehaus.groovy.runtime.ConversionHandler.invoke(ConversionHandler.java:113) jdk.proxy1/jdk.proxy1.$Proxy29.handle(Unknown Source) jdk.unsupported@19.0.2/sun.misc.Signal$InternalMiscHandler.handle(Signal.java:198) java.base@19.0.2/jdk.internal.misc.Signal$1.run(Signal.java:219) java.base@19.0.2/java.lang.Thread.run(Thread.java:1589) Thread[#134,S3TransferManager-4,5,main] java.base@19.0.2/jdk.internal.misc.Unsafe.park(Native Method) java.base@19.0.2/java.util.concurrent.locks.LockSupport.park(LockSupport.java:371) java.base@19.0.2/java.util.concurrent.locks.AbstractQueuedSynchronizer$ConditionNode.block(AbstractQueuedSynchronizer.java:506) java.base@19.0.2/java.util.concurrent.ForkJoinPool.unmanagedBlock(ForkJoinPool.java:3745) java.base@19.0.2/java.util.concurrent.ForkJoinPool.managedBlock(ForkJoinPool.java:3690) java.base@19.0.2/java.util.concurrent.locks.AbstractQueuedSynchronizer$ConditionObject.await(AbstractQueuedSynchronizer.java:1625) java.base@19.0.2/java.util.concurrent.LinkedBlockingQueue.take(LinkedBlockingQueue.java:435) java.base@19.0.2/java.util.concurrent.ThreadPoolExecutor.getTask(ThreadPoolExecutor.java:1070) java.base@19.0.2/java.util.concurrent.ThreadPoolExecutor.runWorker(ThreadPoolExecutor.java:1130) java.base@19.0.2/java.util.concurrent.ThreadPoolExecutor$Worker.run(ThreadPoolExecutor.java:642) java.base@19.0.2/java.lang.Thread.run(Thread.java:1589) Thread[#227,pool-2-thread-16,5,main] java.base@19.0.2/jdk.internal.misc.Unsafe.park(Native Method) java.base@19.0.2/java.util.concurrent.locks.LockSupport.park(LockSupport.java:371) java.base@19.0.2/java.util.concurrent.locks.AbstractQueuedSynchronizer$ConditionNode.block(AbstractQueuedSynchronizer.java:506) java.base@19.0.2/java.util.concurrent.ForkJoinPool.unmanagedBlock(ForkJoinPool.java:3745) java.base@19.0.2/java.util.concurrent.ForkJoinPool.managedBlock(ForkJoinPool.java:3690) java.base@19.0.2/java.util.concurrent.locks.AbstractQueuedSynchronizer$ConditionObject.await(AbstractQueuedSynchronizer.java:1625) java.base@19.0.2/java.util.concurrent.LinkedBlockingQueue.take(LinkedBlockingQueue.java:435) java.base@19.0.2/java.util.concurrent.ThreadPoolExecutor.getTask(ThreadPoolExecutor.java:1070) java.base@19.0.2/java.util.concurrent.ThreadPoolExecutor.runWorker(ThreadPoolExecutor.java:1130) java.base@19.0.2/java.util.concurrent.ThreadPoolExecutor$Worker.run(ThreadPoolExecutor.java:642) java.base@19.0.2/java.lang.Thread.run(Thread.java:1589) Thread[#138,S3TransferManager-7,5,main] java.base@19.0.2/jdk.internal.misc.Unsafe.park(Native Method) java.base@19.0.2/java.util.concurrent.locks.LockSupport.park(LockSupport.java:371) java.base@19.0.2/java.util.concurrent.locks.AbstractQueuedSynchronizer$ConditionNode.block(AbstractQueuedSynchronizer.java:506) java.base@19.0.2/java.util.concurrent.ForkJoinPool.unmanagedBlock(ForkJoinPool.java:3745) java.base@19.0.2/java.util.concurrent.ForkJoinPool.managedBlock(ForkJoinPool.java:3690) java.base@19.0.2/java.util.concurrent.locks.AbstractQueuedSynchronizer$ConditionObject.await(AbstractQueuedSynchronizer.java:1625) java.base@19.0.2/java.util.concurrent.LinkedBlockingQueue.take(LinkedBlockingQueue.java:435) java.base@19.0.2/java.util.concurrent.ThreadPoolExecutor.getTask(ThreadPoolExecutor.java:1070) java.base@19.0.2/java.util.concurrent.ThreadPoolExecutor.runWorker(ThreadPoolExecutor.java:1130) java.base@19.0.2/java.util.concurrent.ThreadPoolExecutor$Worker.run(ThreadPoolExecutor.java:642) java.base@19.0.2/java.lang.Thread.run(Thread.java:1589) Thread[#228,pool-2-thread-17,5,main] java.base@19.0.2/jdk.internal.misc.Unsafe.park(Native Method) java.base@19.0.2/java.util.concurrent.locks.LockSupport.park(LockSupport.java:371) java.base@19.0.2/java.util.concurrent.locks.AbstractQueuedSynchronizer$ConditionNode.block(AbstractQueuedSynchronizer.java:506) java.base@19.0.2/java.util.concurrent.ForkJoinPool.unmanagedBlock(ForkJoinPool.java:3745) java.base@19.0.2/java.util.concurrent.ForkJoinPool.managedBlock(ForkJoinPool.java:3690) java.base@19.0.2/java.util.concurrent.locks.AbstractQueuedSynchronizer$ConditionObject.await(AbstractQueuedSynchronizer.java:1625) java.base@19.0.2/java.util.concurrent.LinkedBlockingQueue.take(LinkedBlockingQueue.java:435) java.base@19.0.2/java.util.concurrent.ThreadPoolExecutor.getTask(ThreadPoolExecutor.java:1070) java.base@19.0.2/java.util.concurrent.ThreadPoolExecutor.runWorker(ThreadPoolExecutor.java:1130) java.base@19.0.2/java.util.concurrent.ThreadPoolExecutor$Worker.run(ThreadPoolExecutor.java:642) java.base@19.0.2/java.lang.Thread.run(Thread.java:1589) Thread[#79,Actor Thread 6,5,main] java.base@19.0.2/jdk.internal.misc.Unsafe.park(Native Method) java.base@19.0.2/java.util.concurrent.locks.LockSupport.park(LockSupport.java:371) java.base@19.0.2/java.util.concurrent.SynchronousQueue$TransferStack$SNode.block(SynchronousQueue.java:288) java.base@19.0.2/java.util.concurrent.ForkJoinPool.unmanagedBlock(ForkJoinPool.java:3745) java.base@19.0.2/java.util.concurrent.ForkJoinPool.managedBlock(ForkJoinPool.java:3690) java.base@19.0.2/java.util.concurrent.SynchronousQueue$TransferStack.transfer(SynchronousQueue.java:397) java.base@19.0.2/java.util.concurrent.SynchronousQueue.take(SynchronousQueue.java:886) java.base@19.0.2/java.util.concurrent.ThreadPoolExecutor.getTask(ThreadPoolExecutor.java:1070) java.base@19.0.2/java.util.concurrent.ThreadPoolExecutor.runWorker(ThreadPoolExecutor.java:1130) java.base@19.0.2/java.util.concurrent.ThreadPoolExecutor$Worker.run(ThreadPoolExecutor.java:642) java.base@19.0.2/java.lang.Thread.run(Thread.java:1589) Thread[#90,Actor Thread 16,5,main] java.base@19.0.2/jdk.internal.misc.Unsafe.park(Native Method) java.base@19.0.2/java.util.concurrent.locks.LockSupport.park(LockSupport.java:371) java.base@19.0.2/java.util.concurrent.SynchronousQueue$TransferStack$SNode.block(SynchronousQueue.java:288) java.base@19.0.2/java.util.concurrent.ForkJoinPool.unmanagedBlock(ForkJoinPool.java:3745) java.base@19.0.2/java.util.concurrent.ForkJoinPool.managedBlock(ForkJoinPool.java:3690) java.base@19.0.2/java.util.concurrent.SynchronousQueue$TransferStack.transfer(SynchronousQueue.java:397) java.base@19.0.2/java.util.concurrent.SynchronousQueue.take(SynchronousQueue.java:886) java.base@19.0.2/java.util.concurrent.ThreadPoolExecutor.getTask(ThreadPoolExecutor.java:1070) java.base@19.0.2/java.util.concurrent.ThreadPoolExecutor.runWorker(ThreadPoolExecutor.java:1130) java.base@19.0.2/java.util.concurrent.ThreadPoolExecutor$Worker.run(ThreadPoolExecutor.java:642) java.base@19.0.2/java.lang.Thread.run(Thread.java:1589) Thread[#80,Actor Thread 7,5,main] java.base@19.0.2/jdk.internal.misc.Unsafe.park(Native Method) java.base@19.0.2/java.util.concurrent.locks.LockSupport.park(LockSupport.java:371) java.base@19.0.2/java.util.concurrent.SynchronousQueue$TransferStack$SNode.block(SynchronousQueue.java:288) java.base@19.0.2/java.util.concurrent.ForkJoinPool.unmanagedBlock(ForkJoinPool.java:3745) java.base@19.0.2/java.util.concurrent.ForkJoinPool.managedBlock(ForkJoinPool.java:3690) java.base@19.0.2/java.util.concurrent.SynchronousQueue$TransferStack.transfer(SynchronousQueue.java:397) java.base@19.0.2/java.util.concurrent.SynchronousQueue.take(SynchronousQueue.java:886) java.base@19.0.2/java.util.concurrent.ThreadPoolExecutor.getTask(ThreadPoolExecutor.java:1070) java.base@19.0.2/java.util.concurrent.ThreadPoolExecutor.runWorker(ThreadPoolExecutor.java:1130) java.base@19.0.2/java.util.concurrent.ThreadPoolExecutor$Worker.run(ThreadPoolExecutor.java:642) java.base@19.0.2/java.lang.Thread.run(Thread.java:1589) Thread[#96,Actor Thread 22,5,main] java.base@19.0.2/jdk.internal.misc.Unsafe.park(Native Method) java.base@19.0.2/java.util.concurrent.locks.LockSupport.park(LockSupport.java:371) java.base@19.0.2/java.util.concurrent.SynchronousQueue$TransferStack$SNode.block(SynchronousQueue.java:288) java.base@19.0.2/java.util.concurrent.ForkJoinPool.unmanagedBlock(ForkJoinPool.java:3745) java.base@19.0.2/java.util.concurrent.ForkJoinPool.managedBlock(ForkJoinPool.java:3690) java.base@19.0.2/java.util.concurrent.SynchronousQueue$TransferStack.transfer(SynchronousQueue.java:397) java.base@19.0.2/java.util.concurrent.SynchronousQueue.take(SynchronousQueue.java:886) java.base@19.0.2/java.util.concurrent.ThreadPoolExecutor.getTask(ThreadPoolExecutor.java:1070) java.base@19.0.2/java.util.concurrent.ThreadPoolExecutor.runWorker(ThreadPoolExecutor.java:1130) java.base@19.0.2/java.util.concurrent.ThreadPoolExecutor$Worker.run(ThreadPoolExecutor.java:642) java.base@19.0.2/java.lang.Thread.run(Thread.java:1589) Thread[#158,FileTransfer-8,5,main] java.base@19.0.2/jdk.internal.misc.Unsafe.park(Native Method) java.base@19.0.2/java.util.concurrent.locks.LockSupport.park(LockSupport.java:371) java.base@19.0.2/java.util.concurrent.locks.AbstractQueuedSynchronizer$ConditionNode.block(AbstractQueuedSynchronizer.java:506) java.base@19.0.2/java.util.concurrent.ForkJoinPool.unmanagedBlock(ForkJoinPool.java:3745) java.base@19.0.2/java.util.concurrent.ForkJoinPool.managedBlock(ForkJoinPool.java:3690) java.base@19.0.2/java.util.concurrent.locks.AbstractQueuedSynchronizer$ConditionObject.await(AbstractQueuedSynchronizer.java:1625) java.base@19.0.2/java.util.concurrent.LinkedBlockingQueue.take(LinkedBlockingQueue.java:435) java.base@19.0.2/java.util.concurrent.ThreadPoolExecutor.getTask(ThreadPoolExecutor.java:1070) java.base@19.0.2/java.util.concurrent.ThreadPoolExecutor.runWorker(ThreadPoolExecutor.java:1130) java.base@19.0.2/java.util.concurrent.ThreadPoolExecutor$Worker.run(ThreadPoolExecutor.java:642) java.base@19.0.2/java.lang.Thread.run(Thread.java:1589) Thread[#93,Actor Thread 19,5,main] java.base@19.0.2/jdk.internal.misc.Unsafe.park(Native Method) java.base@19.0.2/java.util.concurrent.locks.LockSupport.park(LockSupport.java:371) java.base@19.0.2/java.util.concurrent.SynchronousQueue$TransferStack$SNode.block(SynchronousQueue.java:288) java.base@19.0.2/java.util.concurrent.ForkJoinPool.unmanagedBlock(ForkJoinPool.java:3745) java.base@19.0.2/java.util.concurrent.ForkJoinPool.managedBlock(ForkJoinPool.java:3690) java.base@19.0.2/java.util.concurrent.SynchronousQueue$TransferStack.transfer(SynchronousQueue.java:397) java.base@19.0.2/java.util.concurrent.SynchronousQueue.take(SynchronousQueue.java:886) java.base@19.0.2/java.util.concurrent.ThreadPoolExecutor.getTask(ThreadPoolExecutor.java:1070) java.base@19.0.2/java.util.concurrent.ThreadPoolExecutor.runWorker(ThreadPoolExecutor.java:1130) java.base@19.0.2/java.util.concurrent.ThreadPoolExecutor$Worker.run(ThreadPoolExecutor.java:642) java.base@19.0.2/java.lang.Thread.run(Thread.java:1589) Thread[#112,pool-2-thread-2,5,main] java.base@19.0.2/jdk.internal.misc.Unsafe.park(Native Method) java.base@19.0.2/java.util.concurrent.locks.LockSupport.park(LockSupport.java:371) java.base@19.0.2/java.util.concurrent.locks.AbstractQueuedSynchronizer$ConditionNode.block(AbstractQueuedSynchronizer.java:506) java.base@19.0.2/java.util.concurrent.ForkJoinPool.unmanagedBlock(ForkJoinPool.java:3745) java.base@19.0.2/java.util.concurrent.ForkJoinPool.managedBlock(ForkJoinPool.java:3690) java.base@19.0.2/java.util.concurrent.locks.AbstractQueuedSynchronizer$ConditionObject.await(AbstractQueuedSynchronizer.java:1625) java.base@19.0.2/java.util.concurrent.LinkedBlockingQueue.take(LinkedBlockingQueue.java:435) java.base@19.0.2/java.util.concurrent.ThreadPoolExecutor.getTask(ThreadPoolExecutor.java:1070) java.base@19.0.2/java.util.concurrent.ThreadPoolExecutor.runWorker(ThreadPoolExecutor.java:1130) java.base@19.0.2/java.util.concurrent.ThreadPoolExecutor$Worker.run(ThreadPoolExecutor.java:642) java.base@19.0.2/java.lang.Thread.run(Thread.java:1589) Thread[#181,pool-2-thread-7,5,main] java.base@19.0.2/jdk.internal.misc.Unsafe.park(Native Method) java.base@19.0.2/java.util.concurrent.locks.LockSupport.park(LockSupport.java:371) java.base@19.0.2/java.util.concurrent.locks.AbstractQueuedSynchronizer$ConditionNode.block(AbstractQueuedSynchronizer.java:506) java.base@19.0.2/java.util.concurrent.ForkJoinPool.unmanagedBlock(ForkJoinPool.java:3745) java.base@19.0.2/java.util.concurrent.ForkJoinPool.managedBlock(ForkJoinPool.java:3690) java.base@19.0.2/java.util.concurrent.locks.AbstractQueuedSynchronizer$ConditionObject.await(AbstractQueuedSynchronizer.java:1625) java.base@19.0.2/java.util.concurrent.LinkedBlockingQueue.take(LinkedBlockingQueue.java:435) java.base@19.0.2/java.util.concurrent.ThreadPoolExecutor.getTask(ThreadPoolExecutor.java:1070) java.base@19.0.2/java.util.concurrent.ThreadPoolExecutor.runWorker(ThreadPoolExecutor.java:1130) java.base@19.0.2/java.util.concurrent.ThreadPoolExecutor$Worker.run(ThreadPoolExecutor.java:642) java.base@19.0.2/java.lang.Thread.run(Thread.java:1589) Thread[#128,FileTransfer-1,5,main] java.base@19.0.2/jdk.internal.misc.Unsafe.park(Native Method) java.base@19.0.2/java.util.concurrent.locks.LockSupport.park(LockSupport.java:371) java.base@19.0.2/java.util.concurrent.locks.AbstractQueuedSynchronizer$ConditionNode.block(AbstractQueuedSynchronizer.java:506) java.base@19.0.2/java.util.concurrent.ForkJoinPool.unmanagedBlock(ForkJoinPool.java:3745) java.base@19.0.2/java.util.concurrent.ForkJoinPool.managedBlock(ForkJoinPool.java:3690) java.base@19.0.2/java.util.concurrent.locks.AbstractQueuedSynchronizer$ConditionObject.await(AbstractQueuedSynchronizer.java:1625) java.base@19.0.2/java.util.concurrent.LinkedBlockingQueue.take(LinkedBlockingQueue.java:435) java.base@19.0.2/java.util.concurrent.ThreadPoolExecutor.getTask(ThreadPoolExecutor.java:1070) java.base@19.0.2/java.util.concurrent.ThreadPoolExecutor.runWorker(ThreadPoolExecutor.java:1130) java.base@19.0.2/java.util.concurrent.ThreadPoolExecutor$Worker.run(ThreadPoolExecutor.java:642) java.base@19.0.2/java.lang.Thread.run(Thread.java:1589) Thread[#132,S3TransferManager-2,5,main] java.base@19.0.2/jdk.internal.misc.Unsafe.park(Native Method) java.base@19.0.2/java.util.concurrent.locks.LockSupport.park(LockSupport.java:371) java.base@19.0.2/java.util.concurrent.locks.AbstractQueuedSynchronizer$ConditionNode.block(AbstractQueuedSynchronizer.java:506) java.base@19.0.2/java.util.concurrent.ForkJoinPool.unmanagedBlock(ForkJoinPool.java:3745) java.base@19.0.2/java.util.concurrent.ForkJoinPool.managedBlock(ForkJoinPool.java:3690) java.base@19.0.2/java.util.concurrent.locks.AbstractQueuedSynchronizer$ConditionObject.await(AbstractQueuedSynchronizer.java:1625) java.base@19.0.2/java.util.concurrent.LinkedBlockingQueue.take(LinkedBlockingQueue.java:435) java.base@19.0.2/java.util.concurrent.ThreadPoolExecutor.getTask(ThreadPoolExecutor.java:1070) java.base@19.0.2/java.util.concurrent.ThreadPoolExecutor.runWorker(ThreadPoolExecutor.java:1130) java.base@19.0.2/java.util.concurrent.ThreadPoolExecutor$Worker.run(ThreadPoolExecutor.java:642) java.base@19.0.2/java.lang.Thread.run(Thread.java:1589) Thread[#69,Thread-4,5,main] java.base@19.0.2/jdk.internal.misc.Unsafe.park(Native Method) java.base@19.0.2/java.util.concurrent.locks.LockSupport.parkNanos(LockSupport.java:269) java.base@19.0.2/java.util.concurrent.locks.AbstractQueuedSynchronizer$ConditionObject.awaitNanos(AbstractQueuedSynchronizer.java:1674) java.base@19.0.2/java.util.concurrent.LinkedBlockingDeque.pollFirst(LinkedBlockingDeque.java:515) java.base@19.0.2/java.util.concurrent.LinkedBlockingDeque.poll(LinkedBlockingDeque.java:677) app//nextflow.util.SimpleAgent.run(SimpleAgent.groovy:89) java.base@19.0.2/java.lang.invoke.LambdaForm$DMH/0x00000008011a2800.invokeVirtual(LambdaForm$DMH) java.base@19.0.2/java.lang.invoke.LambdaForm$MH/0x00000008014a4000.invoke(LambdaForm$MH) java.base@19.0.2/java.lang.invoke.Invokers$Holder.invokeExact_MT(Invokers$Holder) java.base@19.0.2/jdk.internal.reflect.DirectMethodHandleAccessor.invokeImpl(DirectMethodHandleAccessor.java:154) java.base@19.0.2/jdk.internal.reflect.DirectMethodHandleAccessor.invoke(DirectMethodHandleAccessor.java:104) java.base@19.0.2/java.lang.reflect.Method.invoke(Method.java:578) app//org.codehaus.groovy.reflection.CachedMethod.invoke(CachedMethod.java:343) app//groovy.lang.MetaMethod.doMethodInvoke(MetaMethod.java:328) app//groovy.lang.MetaClassImpl.doInvokeMethod(MetaClassImpl.java:1333) app//groovy.lang.MetaClassImpl.invokeMethod(MetaClassImpl.java:1088) app//groovy.lang.MetaClassImpl.invokeMethodClosure(MetaClassImpl.java:1017) app//groovy.lang.MetaClassImpl.doInvokeMethod(MetaClassImpl.java:1207) app//groovy.lang.MetaClassImpl.invokeMethod(MetaClassImpl.java:1088) app//groovy.lang.MetaClassImpl.invokeMethod(MetaClassImpl.java:1007) app//groovy.lang.Closure.call(Closure.java:433) app//groovy.lang.Closure.call(Closure.java:412) app//groovy.lang.Closure.run(Closure.java:505) java.base@19.0.2/java.lang.Thread.run(Thread.java:1589) Thread[#94,Actor Thread 20,5,main] java.base@19.0.2/jdk.internal.misc.Unsafe.park(Native Method) java.base@19.0.2/java.util.concurrent.locks.LockSupport.park(LockSupport.java:371) java.base@19.0.2/java.util.concurrent.SynchronousQueue$TransferStack$SNode.block(SynchronousQueue.java:288) java.base@19.0.2/java.util.concurrent.ForkJoinPool.unmanagedBlock(ForkJoinPool.java:3745) java.base@19.0.2/java.util.concurrent.ForkJoinPool.managedBlock(ForkJoinPool.java:3690) java.base@19.0.2/java.util.concurrent.SynchronousQueue$TransferStack.transfer(SynchronousQueue.java:397) java.base@19.0.2/java.util.concurrent.SynchronousQueue.take(SynchronousQueue.java:886) java.base@19.0.2/java.util.concurrent.ThreadPoolExecutor.getTask(ThreadPoolExecutor.java:1070) java.base@19.0.2/java.util.concurrent.ThreadPoolExecutor.runWorker(ThreadPoolExecutor.java:1130) java.base@19.0.2/java.util.concurrent.ThreadPoolExecutor$Worker.run(ThreadPoolExecutor.java:642) java.base@19.0.2/java.lang.Thread.run(Thread.java:1589) Thread[#83,Actor Thread 10,5,main] java.base@19.0.2/jdk.internal.misc.Unsafe.park(Native Method) java.base@19.0.2/java.util.concurrent.locks.LockSupport.park(LockSupport.java:371) java.base@19.0.2/java.util.concurrent.SynchronousQueue$TransferStack$SNode.block(SynchronousQueue.java:288) java.base@19.0.2/java.util.concurrent.ForkJoinPool.unmanagedBlock(ForkJoinPool.java:3745) java.base@19.0.2/java.util.concurrent.ForkJoinPool.managedBlock(ForkJoinPool.java:3690) java.base@19.0.2/java.util.concurrent.SynchronousQueue$TransferStack.transfer(SynchronousQueue.java:397) java.base@19.0.2/java.util.concurrent.SynchronousQueue.take(SynchronousQueue.java:886) java.base@19.0.2/java.util.concurrent.ThreadPoolExecutor.getTask(ThreadPoolExecutor.java:1070) java.base@19.0.2/java.util.concurrent.ThreadPoolExecutor.runWorker(ThreadPoolExecutor.java:1130) java.base@19.0.2/java.util.concurrent.ThreadPoolExecutor$Worker.run(ThreadPoolExecutor.java:642) java.base@19.0.2/java.lang.Thread.run(Thread.java:1589) Thread[#114,pool-2-thread-3,5,main] java.base@19.0.2/jdk.internal.misc.Unsafe.park(Native Method) java.base@19.0.2/java.util.concurrent.locks.LockSupport.park(LockSupport.java:371) java.base@19.0.2/java.util.concurrent.locks.AbstractQueuedSynchronizer$ConditionNode.block(AbstractQueuedSynchronizer.java:506) java.base@19.0.2/java.util.concurrent.ForkJoinPool.unmanagedBlock(ForkJoinPool.java:3745) java.base@19.0.2/java.util.concurrent.ForkJoinPool.managedBlock(ForkJoinPool.java:3690) java.base@19.0.2/java.util.concurrent.locks.AbstractQueuedSynchronizer$ConditionObject.await(AbstractQueuedSynchronizer.java:1625) java.base@19.0.2/java.util.concurrent.LinkedBlockingQueue.take(LinkedBlockingQueue.java:435) java.base@19.0.2/java.util.concurrent.ThreadPoolExecutor.getTask(ThreadPoolExecutor.java:1070) java.base@19.0.2/java.util.concurrent.ThreadPoolExecutor.runWorker(ThreadPoolExecutor.java:1130) java.base@19.0.2/java.util.concurrent.ThreadPoolExecutor$Worker.run(ThreadPoolExecutor.java:642) java.base@19.0.2/java.lang.Thread.run(Thread.java:1589) Thread[#219,pool-2-thread-12,5,main] java.base@19.0.2/jdk.internal.misc.Unsafe.park(Native Method) java.base@19.0.2/java.util.concurrent.locks.LockSupport.park(LockSupport.java:371) java.base@19.0.2/java.util.concurrent.locks.AbstractQueuedSynchronizer$ConditionNode.block(AbstractQueuedSynchronizer.java:506) java.base@19.0.2/java.util.concurrent.ForkJoinPool.unmanagedBlock(ForkJoinPool.java:3745) java.base@19.0.2/java.util.concurrent.ForkJoinPool.managedBlock(ForkJoinPool.java:3690) java.base@19.0.2/java.util.concurrent.locks.AbstractQueuedSynchronizer$ConditionObject.await(AbstractQueuedSynchronizer.java:1625) java.base@19.0.2/java.util.concurrent.LinkedBlockingQueue.take(LinkedBlockingQueue.java:435) java.base@19.0.2/java.util.concurrent.ThreadPoolExecutor.getTask(ThreadPoolExecutor.java:1070) java.base@19.0.2/java.util.concurrent.ThreadPoolExecutor.runWorker(ThreadPoolExecutor.java:1130) java.base@19.0.2/java.util.concurrent.ThreadPoolExecutor$Worker.run(ThreadPoolExecutor.java:642) java.base@19.0.2/java.lang.Thread.run(Thread.java:1589) Thread[#9,Finalizer,8,system] java.base@19.0.2/java.lang.Object.wait0(Native Method) java.base@19.0.2/java.lang.Object.wait(Object.java:366) java.base@19.0.2/java.lang.Object.wait(Object.java:339) java.base@19.0.2/java.lang.ref.NativeReferenceQueue.await(NativeReferenceQueue.java:48) java.base@19.0.2/java.lang.ref.ReferenceQueue.remove0(ReferenceQueue.java:158) java.base@19.0.2/java.lang.ref.NativeReferenceQueue.remove(NativeReferenceQueue.java:89) java.base@19.0.2/java.lang.ref.Finalizer$FinalizerThread.run(Finalizer.java:173) Thread[#10,Signal Dispatcher,9,system] Thread[#72,Actor Thread 2,5,main] java.base@19.0.2/jdk.internal.misc.Unsafe.park(Native Method) java.base@19.0.2/java.util.concurrent.locks.LockSupport.park(LockSupport.java:371) java.base@19.0.2/java.util.concurrent.SynchronousQueue$TransferStack$SNode.block(SynchronousQueue.java:288) java.base@19.0.2/java.util.concurrent.ForkJoinPool.unmanagedBlock(ForkJoinPool.java:3745) java.base@19.0.2/java.util.concurrent.ForkJoinPool.managedBlock(ForkJoinPool.java:3690) java.base@19.0.2/java.util.concurrent.SynchronousQueue$TransferStack.transfer(SynchronousQueue.java:397) java.base@19.0.2/java.util.concurrent.SynchronousQueue.take(SynchronousQueue.java:886) java.base@19.0.2/java.util.concurrent.ThreadPoolExecutor.getTask(ThreadPoolExecutor.java:1070) java.base@19.0.2/java.util.concurrent.ThreadPoolExecutor.runWorker(ThreadPoolExecutor.java:1130) java.base@19.0.2/java.util.concurrent.ThreadPoolExecutor$Worker.run(ThreadPoolExecutor.java:642) java.base@19.0.2/java.lang.Thread.run(Thread.java:1589) Thread[#201,pool-2-thread-11,5,main] java.base@19.0.2/jdk.internal.misc.Unsafe.park(Native Method) java.base@19.0.2/java.util.concurrent.locks.LockSupport.park(LockSupport.java:371) java.base@19.0.2/java.util.concurrent.locks.AbstractQueuedSynchronizer$ConditionNode.block(AbstractQueuedSynchronizer.java:506) java.base@19.0.2/java.util.concurrent.ForkJoinPool.unmanagedBlock(ForkJoinPool.java:3745) java.base@19.0.2/java.util.concurrent.ForkJoinPool.managedBlock(ForkJoinPool.java:3690) java.base@19.0.2/java.util.concurrent.locks.AbstractQueuedSynchronizer$ConditionObject.await(AbstractQueuedSynchronizer.java:1625) java.base@19.0.2/java.util.concurrent.LinkedBlockingQueue.take(LinkedBlockingQueue.java:435) java.base@19.0.2/java.util.concurrent.ThreadPoolExecutor.getTask(ThreadPoolExecutor.java:1070) java.base@19.0.2/java.util.concurrent.ThreadPoolExecutor.runWorker(ThreadPoolExecutor.java:1130) java.base@19.0.2/java.util.concurrent.ThreadPoolExecutor$Worker.run(ThreadPoolExecutor.java:642) java.base@19.0.2/java.lang.Thread.run(Thread.java:1589) Thread[#81,Actor Thread 8,5,main] java.base@19.0.2/jdk.internal.misc.Unsafe.park(Native Method) java.base@19.0.2/java.util.concurrent.locks.LockSupport.park(LockSupport.java:371) java.base@19.0.2/java.util.concurrent.SynchronousQueue$TransferStack$SNode.block(SynchronousQueue.java:288) java.base@19.0.2/java.util.concurrent.ForkJoinPool.unmanagedBlock(ForkJoinPool.java:3745) java.base@19.0.2/java.util.concurrent.ForkJoinPool.managedBlock(ForkJoinPool.java:3690) java.base@19.0.2/java.util.concurrent.SynchronousQueue$TransferStack.transfer(SynchronousQueue.java:397) java.base@19.0.2/java.util.concurrent.SynchronousQueue.take(SynchronousQueue.java:886) java.base@19.0.2/java.util.concurrent.ThreadPoolExecutor.getTask(ThreadPoolExecutor.java:1070) java.base@19.0.2/java.util.concurrent.ThreadPoolExecutor.runWorker(ThreadPoolExecutor.java:1130) java.base@19.0.2/java.util.concurrent.ThreadPoolExecutor$Worker.run(ThreadPoolExecutor.java:642) java.base@19.0.2/java.lang.Thread.run(Thread.java:1589) Thread[#30,Notification Thread,9,system] Thread[#102,Actor Thread 28,5,main] java.base@19.0.2/jdk.internal.misc.Unsafe.park(Native Method) java.base@19.0.2/java.util.concurrent.locks.LockSupport.park(LockSupport.java:371) java.base@19.0.2/java.util.concurrent.SynchronousQueue$TransferStack$SNode.block(SynchronousQueue.java:288) java.base@19.0.2/java.util.concurrent.ForkJoinPool.unmanagedBlock(ForkJoinPool.java:3745) java.base@19.0.2/java.util.concurrent.ForkJoinPool.managedBlock(ForkJoinPool.java:3690) java.base@19.0.2/java.util.concurrent.SynchronousQueue$TransferStack.transfer(SynchronousQueue.java:397) java.base@19.0.2/java.util.concurrent.SynchronousQueue.take(SynchronousQueue.java:886) java.base@19.0.2/java.util.concurrent.ThreadPoolExecutor.getTask(ThreadPoolExecutor.java:1070) java.base@19.0.2/java.util.concurrent.ThreadPoolExecutor.runWorker(ThreadPoolExecutor.java:1130) java.base@19.0.2/java.util.concurrent.ThreadPoolExecutor$Worker.run(ThreadPoolExecutor.java:642) java.base@19.0.2/java.lang.Thread.run(Thread.java:1589) Thread[#131,S3TransferManager-1,5,main] java.base@19.0.2/jdk.internal.misc.Unsafe.park(Native Method) java.base@19.0.2/java.util.concurrent.locks.LockSupport.park(LockSupport.java:371) java.base@19.0.2/java.util.concurrent.locks.AbstractQueuedSynchronizer$ConditionNode.block(AbstractQueuedSynchronizer.java:506) java.base@19.0.2/java.util.concurrent.ForkJoinPool.unmanagedBlock(ForkJoinPool.java:3745) java.base@19.0.2/java.util.concurrent.ForkJoinPool.managedBlock(ForkJoinPool.java:3690) java.base@19.0.2/java.util.concurrent.locks.AbstractQueuedSynchronizer$ConditionObject.await(AbstractQueuedSynchronizer.java:1625) java.base@19.0.2/java.util.concurrent.LinkedBlockingQueue.take(LinkedBlockingQueue.java:435) java.base@19.0.2/java.util.concurrent.ThreadPoolExecutor.getTask(ThreadPoolExecutor.java:1070) java.base@19.0.2/java.util.concurrent.ThreadPoolExecutor.runWorker(ThreadPoolExecutor.java:1130) java.base@19.0.2/java.util.concurrent.ThreadPoolExecutor$Worker.run(ThreadPoolExecutor.java:642) java.base@19.0.2/java.lang.Thread.run(Thread.java:1589) Thread[#115,process reaper (pid 2815335),10,InnocuousThreadGroup] java.base@19.0.2/java.lang.ProcessHandleImpl.waitForProcessExit0(Native Method) java.base@19.0.2/java.lang.ProcessHandleImpl$1.run(ProcessHandleImpl.java:163) java.base@19.0.2/java.util.concurrent.ThreadPoolExecutor.runWorker(ThreadPoolExecutor.java:1144) java.base@19.0.2/java.util.concurrent.ThreadPoolExecutor$Worker.run(ThreadPoolExecutor.java:642) java.base@19.0.2/java.lang.Thread.run(Thread.java:1589) java.base@19.0.2/jdk.internal.misc.InnocuousThread.run(InnocuousThread.java:186) Thread[#190,pool-2-thread-9,5,main] java.base@19.0.2/jdk.internal.misc.Unsafe.park(Native Method) java.base@19.0.2/java.util.concurrent.locks.LockSupport.park(LockSupport.java:371) java.base@19.0.2/java.util.concurrent.locks.AbstractQueuedSynchronizer$ConditionNode.block(AbstractQueuedSynchronizer.java:506) java.base@19.0.2/java.util.concurrent.ForkJoinPool.unmanagedBlock(ForkJoinPool.java:3745) java.base@19.0.2/java.util.concurrent.ForkJoinPool.managedBlock(ForkJoinPool.java:3690) java.base@19.0.2/java.util.concurrent.locks.AbstractQueuedSynchronizer$ConditionObject.await(AbstractQueuedSynchronizer.java:1625) java.base@19.0.2/java.util.concurrent.LinkedBlockingQueue.take(LinkedBlockingQueue.java:435) java.base@19.0.2/java.util.concurrent.ThreadPoolExecutor.getTask(ThreadPoolExecutor.java:1070) java.base@19.0.2/java.util.concurrent.ThreadPoolExecutor.runWorker(ThreadPoolExecutor.java:1130) java.base@19.0.2/java.util.concurrent.ThreadPoolExecutor$Worker.run(ThreadPoolExecutor.java:642) java.base@19.0.2/java.lang.Thread.run(Thread.java:1589) Thread[#229,pool-2-thread-18,5,main] java.base@19.0.2/jdk.internal.misc.Unsafe.park(Native Method) java.base@19.0.2/java.util.concurrent.locks.LockSupport.park(LockSupport.java:371) java.base@19.0.2/java.util.concurrent.locks.AbstractQueuedSynchronizer$ConditionNode.block(AbstractQueuedSynchronizer.java:506) java.base@19.0.2/java.util.concurrent.ForkJoinPool.unmanagedBlock(ForkJoinPool.java:3745) java.base@19.0.2/java.util.concurrent.ForkJoinPool.managedBlock(ForkJoinPool.java:3690) java.base@19.0.2/java.util.concurrent.locks.AbstractQueuedSynchronizer$ConditionObject.await(AbstractQueuedSynchronizer.java:1625) java.base@19.0.2/java.util.concurrent.LinkedBlockingQueue.take(LinkedBlockingQueue.java:435) java.base@19.0.2/java.util.concurrent.ThreadPoolExecutor.getTask(ThreadPoolExecutor.java:1070) java.base@19.0.2/java.util.concurrent.ThreadPoolExecutor.runWorker(ThreadPoolExecutor.java:1130) java.base@19.0.2/java.util.concurrent.ThreadPoolExecutor$Worker.run(ThreadPoolExecutor.java:642) java.base@19.0.2/java.lang.Thread.run(Thread.java:1589) Thread[#107,Actor Thread 33,5,main] java.base@19.0.2/jdk.internal.misc.Unsafe.park(Native Method) java.base@19.0.2/java.util.concurrent.locks.LockSupport.park(LockSupport.java:371) java.base@19.0.2/java.util.concurrent.SynchronousQueue$TransferStack$SNode.block(SynchronousQueue.java:288) java.base@19.0.2/java.util.concurrent.ForkJoinPool.unmanagedBlock(ForkJoinPool.java:3745) java.base@19.0.2/java.util.concurrent.ForkJoinPool.managedBlock(ForkJoinPool.java:3690) java.base@19.0.2/java.util.concurrent.SynchronousQueue$TransferStack.transfer(SynchronousQueue.java:397) java.base@19.0.2/java.util.concurrent.SynchronousQueue.take(SynchronousQueue.java:886) java.base@19.0.2/java.util.concurrent.ThreadPoolExecutor.getTask(ThreadPoolExecutor.java:1070) java.base@19.0.2/java.util.concurrent.ThreadPoolExecutor.runWorker(ThreadPoolExecutor.java:1130) java.base@19.0.2/java.util.concurrent.ThreadPoolExecutor$Worker.run(ThreadPoolExecutor.java:642) java.base@19.0.2/java.lang.Thread.run(Thread.java:1589) Thread[#232,process reaper,10,InnocuousThreadGroup] java.base@19.0.2/jdk.internal.misc.Unsafe.park(Native Method) java.base@19.0.2/java.util.concurrent.locks.LockSupport.parkNanos(LockSupport.java:269) java.base@19.0.2/java.util.concurrent.SynchronousQueue$TransferStack.transfer(SynchronousQueue.java:401) java.base@19.0.2/java.util.concurrent.SynchronousQueue.poll(SynchronousQueue.java:903) java.base@19.0.2/java.util.concurrent.ThreadPoolExecutor.getTask(ThreadPoolExecutor.java:1069) java.base@19.0.2/java.util.concurrent.ThreadPoolExecutor.runWorker(ThreadPoolExecutor.java:1130) java.base@19.0.2/java.util.concurrent.ThreadPoolExecutor$Worker.run(ThreadPoolExecutor.java:642) java.base@19.0.2/java.lang.Thread.run(Thread.java:1589) java.base@19.0.2/jdk.internal.misc.InnocuousThread.run(InnocuousThread.java:186) Thread[#70,Actor Thread 1,5,main] java.base@19.0.2/jdk.internal.misc.Unsafe.park(Native Method) java.base@19.0.2/java.util.concurrent.locks.LockSupport.park(LockSupport.java:371) java.base@19.0.2/java.util.concurrent.SynchronousQueue$TransferStack$SNode.block(SynchronousQueue.java:288) java.base@19.0.2/java.util.concurrent.ForkJoinPool.unmanagedBlock(ForkJoinPool.java:3745) java.base@19.0.2/java.util.concurrent.ForkJoinPool.managedBlock(ForkJoinPool.java:3690) java.base@19.0.2/java.util.concurrent.SynchronousQueue$TransferStack.transfer(SynchronousQueue.java:397) java.base@19.0.2/java.util.concurrent.SynchronousQueue.take(SynchronousQueue.java:886) java.base@19.0.2/java.util.concurrent.ThreadPoolExecutor.getTask(ThreadPoolExecutor.java:1070) java.base@19.0.2/java.util.concurrent.ThreadPoolExecutor.runWorker(ThreadPoolExecutor.java:1130) java.base@19.0.2/java.util.concurrent.ThreadPoolExecutor$Worker.run(ThreadPoolExecutor.java:642) java.base@19.0.2/java.lang.Thread.run(Thread.java:1589) Thread[#157,FileTransfer-7,5,main] java.base@19.0.2/jdk.internal.misc.Unsafe.park(Native Method) java.base@19.0.2/java.util.concurrent.locks.LockSupport.park(LockSupport.java:371) java.base@19.0.2/java.util.concurrent.locks.AbstractQueuedSynchronizer$ConditionNode.block(AbstractQueuedSynchronizer.java:506) java.base@19.0.2/java.util.concurrent.ForkJoinPool.unmanagedBlock(ForkJoinPool.java:3745) java.base@19.0.2/java.util.concurrent.ForkJoinPool.managedBlock(ForkJoinPool.java:3690) java.base@19.0.2/java.util.concurrent.locks.AbstractQueuedSynchronizer$ConditionObject.await(AbstractQueuedSynchronizer.java:1625) java.base@19.0.2/java.util.concurrent.LinkedBlockingQueue.take(LinkedBlockingQueue.java:435) java.base@19.0.2/java.util.concurrent.ThreadPoolExecutor.getTask(ThreadPoolExecutor.java:1070) java.base@19.0.2/java.util.concurrent.ThreadPoolExecutor.runWorker(ThreadPoolExecutor.java:1130) java.base@19.0.2/java.util.concurrent.ThreadPoolExecutor$Worker.run(ThreadPoolExecutor.java:642) java.base@19.0.2/java.lang.Thread.run(Thread.java:1589) Thread[#153,FileTransfer-3,5,main] java.base@19.0.2/jdk.internal.misc.Unsafe.park(Native Method) java.base@19.0.2/java.util.concurrent.locks.LockSupport.park(LockSupport.java:371) java.base@19.0.2/java.util.concurrent.locks.AbstractQueuedSynchronizer$ConditionNode.block(AbstractQueuedSynchronizer.java:506) java.base@19.0.2/java.util.concurrent.ForkJoinPool.unmanagedBlock(ForkJoinPool.java:3745) java.base@19.0.2/java.util.concurrent.ForkJoinPool.managedBlock(ForkJoinPool.java:3690) java.base@19.0.2/java.util.concurrent.locks.AbstractQueuedSynchronizer$ConditionObject.await(AbstractQueuedSynchronizer.java:1625) java.base@19.0.2/java.util.concurrent.LinkedBlockingQueue.take(LinkedBlockingQueue.java:435) java.base@19.0.2/java.util.concurrent.ThreadPoolExecutor.getTask(ThreadPoolExecutor.java:1070) java.base@19.0.2/java.util.concurrent.ThreadPoolExecutor.runWorker(ThreadPoolExecutor.java:1130) java.base@19.0.2/java.util.concurrent.ThreadPoolExecutor$Worker.run(ThreadPoolExecutor.java:642) java.base@19.0.2/java.lang.Thread.run(Thread.java:1589) Thread[#97,Actor Thread 23,5,main] java.base@19.0.2/jdk.internal.misc.Unsafe.park(Native Method) java.base@19.0.2/java.util.concurrent.locks.LockSupport.park(LockSupport.java:371) java.base@19.0.2/java.util.concurrent.SynchronousQueue$TransferStack$SNode.block(SynchronousQueue.java:288) java.base@19.0.2/java.util.concurrent.ForkJoinPool.unmanagedBlock(ForkJoinPool.java:3745) java.base@19.0.2/java.util.concurrent.ForkJoinPool.managedBlock(ForkJoinPool.java:3690) java.base@19.0.2/java.util.concurrent.SynchronousQueue$TransferStack.transfer(SynchronousQueue.java:397) java.base@19.0.2/java.util.concurrent.SynchronousQueue.take(SynchronousQueue.java:886) java.base@19.0.2/java.util.concurrent.ThreadPoolExecutor.getTask(ThreadPoolExecutor.java:1070) java.base@19.0.2/java.util.concurrent.ThreadPoolExecutor.runWorker(ThreadPoolExecutor.java:1130) java.base@19.0.2/java.util.concurrent.ThreadPoolExecutor$Worker.run(ThreadPoolExecutor.java:642) java.base@19.0.2/java.lang.Thread.run(Thread.java:1589) Thread[#99,Actor Thread 25,5,main] java.base@19.0.2/jdk.internal.misc.Unsafe.park(Native Method) java.base@19.0.2/java.util.concurrent.locks.LockSupport.park(LockSupport.java:371) java.base@19.0.2/java.util.concurrent.SynchronousQueue$TransferStack$SNode.block(SynchronousQueue.java:288) java.base@19.0.2/java.util.concurrent.ForkJoinPool.unmanagedBlock(ForkJoinPool.java:3745) java.base@19.0.2/java.util.concurrent.ForkJoinPool.managedBlock(ForkJoinPool.java:3690) java.base@19.0.2/java.util.concurrent.SynchronousQueue$TransferStack.transfer(SynchronousQueue.java:397) java.base@19.0.2/java.util.concurrent.SynchronousQueue.take(SynchronousQueue.java:886) java.base@19.0.2/java.util.concurrent.ThreadPoolExecutor.getTask(ThreadPoolExecutor.java:1070) java.base@19.0.2/java.util.concurrent.ThreadPoolExecutor.runWorker(ThreadPoolExecutor.java:1130) java.base@19.0.2/java.util.concurrent.ThreadPoolExecutor$Worker.run(ThreadPoolExecutor.java:642) java.base@19.0.2/java.lang.Thread.run(Thread.java:1589) Thread[#222,pool-2-thread-13,5,main] java.base@19.0.2/jdk.internal.misc.Unsafe.park(Native Method) java.base@19.0.2/java.util.concurrent.locks.LockSupport.park(LockSupport.java:371) java.base@19.0.2/java.util.concurrent.locks.AbstractQueuedSynchronizer$ConditionNode.block(AbstractQueuedSynchronizer.java:506) java.base@19.0.2/java.util.concurrent.ForkJoinPool.unmanagedBlock(ForkJoinPool.java:3745) java.base@19.0.2/java.util.concurrent.ForkJoinPool.managedBlock(ForkJoinPool.java:3690) java.base@19.0.2/java.util.concurrent.locks.AbstractQueuedSynchronizer$ConditionObject.await(AbstractQueuedSynchronizer.java:1625) java.base@19.0.2/java.lang.ProcessImpl.waitFor(ProcessImpl.java:447) app//nextflow.executor.local.LocalTaskHandler$_submit_closure1.doCall(LocalTaskHandler.groovy:109) app//nextflow.executor.local.LocalTaskHandler$_submit_closure1.call(LocalTaskHandler.groovy) app//groovy.lang.Closure.run(Closure.java:505) java.base@19.0.2/java.util.concurrent.Executors$RunnableAdapter.call(Executors.java:577) java.base@19.0.2/java.util.concurrent.FutureTask.run(FutureTask.java:317) java.base@19.0.2/java.util.concurrent.ThreadPoolExecutor.runWorker(ThreadPoolExecutor.java:1144) java.base@19.0.2/java.util.concurrent.ThreadPoolExecutor$Worker.run(ThreadPoolExecutor.java:642) java.base@19.0.2/java.lang.Thread.run(Thread.java:1589) Thread[#225,pool-2-thread-15,5,main] java.base@19.0.2/jdk.internal.misc.Unsafe.park(Native Method) java.base@19.0.2/java.util.concurrent.locks.LockSupport.park(LockSupport.java:371) java.base@19.0.2/java.util.concurrent.locks.AbstractQueuedSynchronizer$ConditionNode.block(AbstractQueuedSynchronizer.java:506) java.base@19.0.2/java.util.concurrent.ForkJoinPool.unmanagedBlock(ForkJoinPool.java:3745) java.base@19.0.2/java.util.concurrent.ForkJoinPool.managedBlock(ForkJoinPool.java:3690) java.base@19.0.2/java.util.concurrent.locks.AbstractQueuedSynchronizer$ConditionObject.await(AbstractQueuedSynchronizer.java:1625) java.base@19.0.2/java.util.concurrent.LinkedBlockingQueue.take(LinkedBlockingQueue.java:435) java.base@19.0.2/java.util.concurrent.ThreadPoolExecutor.getTask(ThreadPoolExecutor.java:1070) java.base@19.0.2/java.util.concurrent.ThreadPoolExecutor.runWorker(ThreadPoolExecutor.java:1130) java.base@19.0.2/java.util.concurrent.ThreadPoolExecutor$Worker.run(ThreadPoolExecutor.java:642) java.base@19.0.2/java.lang.Thread.run(Thread.java:1589) Thread[#1,main,5,main] java.base@19.0.2/java.lang.Throwable.fillInStackTrace(Native Method) java.base@19.0.2/java.lang.Throwable.fillInStackTrace(Throwable.java:820) java.base@19.0.2/java.lang.Throwable.(Throwable.java:273) java.base@19.0.2/java.lang.Exception.(Exception.java:67) java.base@19.0.2/java.lang.RuntimeException.(RuntimeException.java:63) app//groovy.lang.GroovyRuntimeException.(GroovyRuntimeException.java:37) app//groovy.lang.MetaClassImpl.invokeConstructor(MetaClassImpl.java:1904) app//groovy.lang.MetaClassImpl.invokeConstructor(MetaClassImpl.java:1673) app//org.codehaus.groovy.runtime.InvokerHelper.invokeConstructorOf(InvokerHelper.java:676) app//org.codehaus.groovy.runtime.typehandling.DefaultTypeTransformation.continueCastOnSAM(DefaultTypeTransformation.java:389) app//org.codehaus.groovy.runtime.typehandling.DefaultTypeTransformation.continueCastOnNumber(DefaultTypeTransformation.java:326) app//org.codehaus.groovy.runtime.typehandling.DefaultTypeTransformation.castToType(DefaultTypeTransformation.java:244) app//org.codehaus.groovy.runtime.DefaultGroovyMethods.asType(DefaultGroovyMethods.java:18098) app//org.codehaus.groovy.runtime.DefaultGroovyMethods.asType(DefaultGroovyMethods.java:12227) app//org.codehaus.groovy.runtime.dgm$59.doMethodInvoke(Unknown Source) java.base@19.0.2/java.lang.invoke.LambdaForm$DMH/0x00000008010b3c00.invokeVirtual(LambdaForm$DMH) java.base@19.0.2/java.lang.invoke.LambdaForm$MH/0x000000080116b400.invoke(LambdaForm$MH) java.base@19.0.2/java.lang.invoke.LambdaForm$MH/0x0000000801106000.guardWithCatch(LambdaForm$MH) java.base@19.0.2/java.lang.invoke.DelegatingMethodHandle$Holder.delegate(DelegatingMethodHandle$Holder) java.base@19.0.2/java.lang.invoke.LambdaForm$MH/0x0000000801106c00.guard(LambdaForm$MH) java.base@19.0.2/java.lang.invoke.DelegatingMethodHandle$Holder.delegate(DelegatingMethodHandle$Holder) java.base@19.0.2/java.lang.invoke.LambdaForm$MH/0x0000000801107800.invoke(LambdaForm$MH) java.base@19.0.2/java.lang.invoke.Invokers$Holder.invokeExact_MT(Invokers$Holder) app//org.codehaus.groovy.vmplugin.v8.IndyInterface.fromCache(IndyInterface.java:321) java.base@19.0.2/java.lang.invoke.LambdaForm$DMH/0x00000008010a6800.invokeStatic(LambdaForm$DMH) java.base@19.0.2/java.lang.invoke.LambdaForm$MH/0x0000000801105800.invoke(LambdaForm$MH) java.base@19.0.2/java.lang.invoke.Invokers$Holder.linkToCallSite(Invokers$Holder) app//nextflow.trace.ResourcesAggregator$_computeSummaryMap_closure1$_closure2.doCall(ResourcesAggregator.groovy:68) java.base@19.0.2/java.lang.invoke.DirectMethodHandle$Holder.invokeSpecial(DirectMethodHandle$Holder) java.base@19.0.2/java.lang.invoke.LambdaForm$MH/0x000000080117d800.invoke(LambdaForm$MH) java.base@19.0.2/java.lang.invoke.Invokers$Holder.invokeExact_MT(Invokers$Holder) java.base@19.0.2/jdk.internal.reflect.DirectMethodHandleAccessor.invokeImpl(DirectMethodHandleAccessor.java:155) java.base@19.0.2/jdk.internal.reflect.DirectMethodHandleAccessor.invoke(DirectMethodHandleAccessor.java:104) java.base@19.0.2/java.lang.reflect.Method.invoke(Method.java:578) app//org.codehaus.groovy.reflection.CachedMethod.invoke(CachedMethod.java:343) app//groovy.lang.MetaMethod.doMethodInvoke(MetaMethod.java:328) app//org.codehaus.groovy.runtime.metaclass.ClosureMetaClass.invokeMethod(ClosureMetaClass.java:279) app//groovy.lang.MetaClassImpl.invokeMethod(MetaClassImpl.java:1007) app//groovy.lang.Closure.call(Closure.java:433) app//groovy.lang.Closure.call(Closure.java:422) app//org.codehaus.groovy.runtime.DefaultGroovyMethods.each(DefaultGroovyMethods.java:2394) app//org.codehaus.groovy.runtime.DefaultGroovyMethods.each(DefaultGroovyMethods.java:2379) app//org.codehaus.groovy.runtime.DefaultGroovyMethods.each(DefaultGroovyMethods.java:2420) app//nextflow.trace.ResourcesAggregator$_computeSummaryMap_closure1.doCall(ResourcesAggregator.groovy:66) java.base@19.0.2/java.lang.invoke.DirectMethodHandle$Holder.invokeSpecial(DirectMethodHandle$Holder) java.base@19.0.2/java.lang.invoke.LambdaForm$MH/0x000000080117d800.invoke(LambdaForm$MH) java.base@19.0.2/java.lang.invoke.Invokers$Holder.invokeExact_MT(Invokers$Holder) java.base@19.0.2/jdk.internal.reflect.DirectMethodHandleAccessor.invokeImpl(DirectMethodHandleAccessor.java:155) java.base@19.0.2/jdk.internal.reflect.DirectMethodHandleAccessor.invoke(DirectMethodHandleAccessor.java:104) java.base@19.0.2/java.lang.reflect.Method.invoke(Method.java:578) app//org.codehaus.groovy.reflection.CachedMethod.invoke(CachedMethod.java:343) app//groovy.lang.MetaMethod.doMethodInvoke(MetaMethod.java:328) app//org.codehaus.groovy.runtime.metaclass.ClosureMetaClass.invokeMethod(ClosureMetaClass.java:279) app//groovy.lang.MetaClassImpl.invokeMethod(MetaClassImpl.java:1007) app//groovy.lang.Closure.call(Closure.java:433) app//groovy.lang.Closure.call(Closure.java:422) app//org.codehaus.groovy.runtime.DefaultGroovyMethods.each(DefaultGroovyMethods.java:2394) app//org.codehaus.groovy.runtime.DefaultGroovyMethods.each(DefaultGroovyMethods.java:2379) app//org.codehaus.groovy.runtime.DefaultGroovyMethods.each(DefaultGroovyMethods.java:2432) app//nextflow.trace.ResourcesAggregator.computeSummaryMap(ResourcesAggregator.groovy:64) app//nextflow.trace.ResourcesAggregator.computeSummaryList(ResourcesAggregator.groovy:90) app//nextflow.trace.ResourcesAggregator.renderSummaryJson(ResourcesAggregator.groovy:105) app//nextflow.trace.ReportObserver.renderSummaryJson(ReportObserver.groovy:244) app//nextflow.trace.ReportObserver.renderPayloadJson(ReportObserver.groovy:248) app//nextflow.trace.ReportObserver.renderHtml(ReportObserver.groovy:259) app//nextflow.trace.ReportObserver.onFlowComplete(ReportObserver.groovy:143) app//nextflow.Session.notifyFlowComplete(Session.groovy:1155) app//nextflow.Session.shutdown0(Session.groovy:749) app//nextflow.Session.destroy(Session.groovy:694) app//nextflow.script.ScriptRunner.shutdown(ScriptRunner.groovy:260) app//nextflow.script.ScriptRunner.execute(ScriptRunner.groovy:146) app//nextflow.cli.CmdRun.run(CmdRun.groovy:376) app//nextflow.cli.Launcher.run(Launcher.groovy:503) app//nextflow.cli.Launcher.main(Launcher.groovy:658) Thread[#129,FileTransfer-2,5,main] java.base@19.0.2/jdk.internal.misc.Unsafe.park(Native Method) java.base@19.0.2/java.util.concurrent.locks.LockSupport.park(LockSupport.java:371) java.base@19.0.2/java.util.concurrent.locks.AbstractQueuedSynchronizer$ConditionNode.block(AbstractQueuedSynchronizer.java:506) java.base@19.0.2/java.util.concurrent.ForkJoinPool.unmanagedBlock(ForkJoinPool.java:3745) java.base@19.0.2/java.util.concurrent.ForkJoinPool.managedBlock(ForkJoinPool.java:3690) java.base@19.0.2/java.util.concurrent.locks.AbstractQueuedSynchronizer$ConditionObject.await(AbstractQueuedSynchronizer.java:1625) java.base@19.0.2/java.util.concurrent.LinkedBlockingQueue.take(LinkedBlockingQueue.java:435) java.base@19.0.2/java.util.concurrent.ThreadPoolExecutor.getTask(ThreadPoolExecutor.java:1070) java.base@19.0.2/java.util.concurrent.ThreadPoolExecutor.runWorker(ThreadPoolExecutor.java:1130) java.base@19.0.2/java.util.concurrent.ThreadPoolExecutor$Worker.run(ThreadPoolExecutor.java:642) java.base@19.0.2/java.lang.Thread.run(Thread.java:1589) Thread[#91,Actor Thread 17,5,main] java.base@19.0.2/jdk.internal.misc.Unsafe.park(Native Method) java.base@19.0.2/java.util.concurrent.locks.LockSupport.park(LockSupport.java:371) java.base@19.0.2/java.util.concurrent.SynchronousQueue$TransferStack$SNode.block(SynchronousQueue.java:288) java.base@19.0.2/java.util.concurrent.ForkJoinPool.unmanagedBlock(ForkJoinPool.java:3745) java.base@19.0.2/java.util.concurrent.ForkJoinPool.managedBlock(ForkJoinPool.java:3690) java.base@19.0.2/java.util.concurrent.SynchronousQueue$TransferStack.transfer(SynchronousQueue.java:397) java.base@19.0.2/java.util.concurrent.SynchronousQueue.take(SynchronousQueue.java:886) java.base@19.0.2/java.util.concurrent.ThreadPoolExecutor.getTask(ThreadPoolExecutor.java:1070) java.base@19.0.2/java.util.concurrent.ThreadPoolExecutor.runWorker(ThreadPoolExecutor.java:1130) java.base@19.0.2/java.util.concurrent.ThreadPoolExecutor$Worker.run(ThreadPoolExecutor.java:642) java.base@19.0.2/java.lang.Thread.run(Thread.java:1589) Thread[#185,pool-2-thread-8,5,main] java.base@19.0.2/jdk.internal.misc.Unsafe.park(Native Method) java.base@19.0.2/java.util.concurrent.locks.LockSupport.park(LockSupport.java:371) java.base@19.0.2/java.util.concurrent.locks.AbstractQueuedSynchronizer$ConditionNode.block(AbstractQueuedSynchronizer.java:506) java.base@19.0.2/java.util.concurrent.ForkJoinPool.unmanagedBlock(ForkJoinPool.java:3745) java.base@19.0.2/java.util.concurrent.ForkJoinPool.managedBlock(ForkJoinPool.java:3690) java.base@19.0.2/java.util.concurrent.locks.AbstractQueuedSynchronizer$ConditionObject.await(AbstractQueuedSynchronizer.java:1625) java.base@19.0.2/java.util.concurrent.LinkedBlockingQueue.take(LinkedBlockingQueue.java:435) java.base@19.0.2/java.util.concurrent.ThreadPoolExecutor.getTask(ThreadPoolExecutor.java:1070) java.base@19.0.2/java.util.concurrent.ThreadPoolExecutor.runWorker(ThreadPoolExecutor.java:1130) java.base@19.0.2/java.util.concurrent.ThreadPoolExecutor$Worker.run(ThreadPoolExecutor.java:642) java.base@19.0.2/java.lang.Thread.run(Thread.java:1589) Thread[#29,Common-Cleaner,8,InnocuousThreadGroup] java.base@19.0.2/jdk.internal.misc.Unsafe.park(Native Method) java.base@19.0.2/java.util.concurrent.locks.LockSupport.parkNanos(LockSupport.java:269) java.base@19.0.2/java.util.concurrent.locks.AbstractQueuedSynchronizer$ConditionObject.await(AbstractQueuedSynchronizer.java:1759) java.base@19.0.2/java.lang.ref.ReferenceQueue.await(ReferenceQueue.java:71) java.base@19.0.2/java.lang.ref.ReferenceQueue.remove0(ReferenceQueue.java:143) java.base@19.0.2/java.lang.ref.ReferenceQueue.remove(ReferenceQueue.java:218) java.base@19.0.2/jdk.internal.ref.CleanerImpl.run(CleanerImpl.java:140) java.base@19.0.2/java.lang.Thread.run(Thread.java:1589) java.base@19.0.2/jdk.internal.misc.InnocuousThread.run(InnocuousThread.java:186) Thread[#87,Actor Thread 14,5,main] java.base@19.0.2/jdk.internal.misc.Unsafe.park(Native Method) java.base@19.0.2/java.util.concurrent.locks.LockSupport.park(LockSupport.java:371) java.base@19.0.2/java.util.concurrent.SynchronousQueue$TransferStack$SNode.block(SynchronousQueue.java:288) java.base@19.0.2/java.util.concurrent.ForkJoinPool.unmanagedBlock(ForkJoinPool.java:3745) java.base@19.0.2/java.util.concurrent.ForkJoinPool.managedBlock(ForkJoinPool.java:3690) java.base@19.0.2/java.util.concurrent.SynchronousQueue$TransferStack.transfer(SynchronousQueue.java:397) java.base@19.0.2/java.util.concurrent.SynchronousQueue.take(SynchronousQueue.java:886) java.base@19.0.2/java.util.concurrent.ThreadPoolExecutor.getTask(ThreadPoolExecutor.java:1070) java.base@19.0.2/java.util.concurrent.ThreadPoolExecutor.runWorker(ThreadPoolExecutor.java:1130) java.base@19.0.2/java.util.concurrent.ThreadPoolExecutor$Worker.run(ThreadPoolExecutor.java:642) java.base@19.0.2/java.lang.Thread.run(Thread.java:1589) Mar-15 08:12:22.561 [main] DEBUG nextflow.trace.TimelineObserver - Workflow completed -- rendering execution timeline Mar-15 08:12:22.967 [main] DEBUG nextflow.cache.CacheDB - Closing CacheDB done Mar-15 08:12:23.010 [main] INFO org.pf4j.AbstractPluginManager - Stop plugin 'nf-amazon@2.9.0' Mar-15 08:12:23.010 [main] DEBUG nextflow.plugin.BasePlugin - Plugin stopped nf-amazon Mar-15 08:12:23.010 [main] INFO org.pf4j.AbstractPluginManager - Stop plugin 'nf-validation@1.1.3' Mar-15 08:12:23.010 [main] DEBUG nextflow.plugin.BasePlugin - Plugin stopped nf-validation Mar-15 08:12:23.015 [main] DEBUG nextflow.script.ScriptRunner - > Execution complete -- Goodbye