[W::hts_idx_load2] The index file is older than the data file: /tmp/nxf.XXXXZZrGsD/chr21_34799195-34799564.bed.gz.tbi
[W::hts_idx_load2] The index file is older than the data file: /tmp/nxf.XXXXZZrGsD/chr21_34799195-34799564.bed.gz.tbi
[W::hts_idx_load2] The index file is older than the data file: /tmp/nxf.XXXXZZrGsD/chr21_34799195-34799564.bed.gz.tbi
[2026-06-08T20:35:12.241308Z] [nf-0981960a27a79d2d198d8551a70e7a73-6600b-drksh] [700_1] [WorkflowRunner] Initiating pyFlow run
[2026-06-08T20:35:12.242247Z] [nf-0981960a27a79d2d198d8551a70e7a73-6600b-drksh] [700_1] [WorkflowRunner] pyFlowClientWorkflowClass: StrelkaSomaticWorkflow
[2026-06-08T20:35:12.242274Z] [nf-0981960a27a79d2d198d8551a70e7a73-6600b-drksh] [700_1] [WorkflowRunner] pyFlowVersion: 1.1.20
[2026-06-08T20:35:12.242280Z] [nf-0981960a27a79d2d198d8551a70e7a73-6600b-drksh] [700_1] [WorkflowRunner] pythonVersion: 2.7.15.final.0
[2026-06-08T20:35:12.242284Z] [nf-0981960a27a79d2d198d8551a70e7a73-6600b-drksh] [700_1] [WorkflowRunner] WorkingDir: '/tmp/nxf.XXXXZZrGsD'
[2026-06-08T20:35:12.242288Z] [nf-0981960a27a79d2d198d8551a70e7a73-6600b-drksh] [700_1] [WorkflowRunner] ProcessCmdLine: '/var/tmp/strelka/runWorkflow.py -m local -j 8'
[2026-06-08T20:35:12.242293Z] [nf-0981960a27a79d2d198d8551a70e7a73-6600b-drksh] [700_1] [WorkflowRunner] [RunParameters] mode: local
[2026-06-08T20:35:12.242297Z] [nf-0981960a27a79d2d198d8551a70e7a73-6600b-drksh] [700_1] [WorkflowRunner] [RunParameters] nCores: 8
[2026-06-08T20:35:12.242300Z] [nf-0981960a27a79d2d198d8551a70e7a73-6600b-drksh] [700_1] [WorkflowRunner] [RunParameters] memMb: 3096076
[2026-06-08T20:35:12.242304Z] [nf-0981960a27a79d2d198d8551a70e7a73-6600b-drksh] [700_1] [WorkflowRunner] [RunParameters] dataDir: /var/tmp/strelka/workspace/pyflow.data
[2026-06-08T20:35:12.242307Z] [nf-0981960a27a79d2d198d8551a70e7a73-6600b-drksh] [700_1] [WorkflowRunner] [RunParameters] isDryRun: False
[2026-06-08T20:35:12.242311Z] [nf-0981960a27a79d2d198d8551a70e7a73-6600b-drksh] [700_1] [WorkflowRunner] [RunParameters] isContinue: False
[2026-06-08T20:35:12.242314Z] [nf-0981960a27a79d2d198d8551a70e7a73-6600b-drksh] [700_1] [WorkflowRunner] [RunParameters] isForceContinue: True
[2026-06-08T20:35:12.242318Z] [nf-0981960a27a79d2d198d8551a70e7a73-6600b-drksh] [700_1] [WorkflowRunner] [RunParameters] mailTo: ''
[2026-06-08T20:35:12.243231Z] [nf-0981960a27a79d2d198d8551a70e7a73-6600b-drksh] [700_1] [TaskRunner:masterWorkflow] Starting task specification for master workflow
[2026-06-08T20:35:12.243291Z] [nf-0981960a27a79d2d198d8551a70e7a73-6600b-drksh] [700_1] [StrelkaSomaticWorkflow] Initiating Strelka somatic workflow version: 2.9.10
[2026-06-08T20:35:12.248988Z] [nf-0981960a27a79d2d198d8551a70e7a73-6600b-drksh] [700_1] [WorkflowRunner] Adding sub-workflow task 'CallGenome' to master workflow
[2026-06-08T20:35:12.249708Z] [nf-0981960a27a79d2d198d8551a70e7a73-6600b-drksh] [700_1] [TaskManager] Launching sub-workflow task: 'CallGenome' from master workflow
[2026-06-08T20:35:12.249926Z] [nf-0981960a27a79d2d198d8551a70e7a73-6600b-drksh] [700_1] [TaskRunner:masterWorkflow] Finished task specification for master workflow
[2026-06-08T20:35:12.250506Z] [nf-0981960a27a79d2d198d8551a70e7a73-6600b-drksh] [700_1] [TaskRunner:CallGenome] Starting task specification for sub-workflow
[2026-06-08T20:35:12.250676Z] [nf-0981960a27a79d2d198d8551a70e7a73-6600b-drksh] [700_1] [WorkflowRunner] Adding command task 'CallGenome+makeTmpDir' to sub-workflow 'CallGenome'
[2026-06-08T20:35:12.252084Z] [nf-0981960a27a79d2d198d8551a70e7a73-6600b-drksh] [700_1] [TaskManager] Launching command task: 'CallGenome+makeTmpDir' from sub-workflow 'CallGenome'
[2026-06-08T20:35:12.252777Z] [nf-0981960a27a79d2d198d8551a70e7a73-6600b-drksh] [700_1] [WorkflowRunner] Adding command task 'CallGenome+callGenomeSegment_chromId_020_chr21_0000' to sub-workflow 'CallGenome'
[2026-06-08T20:35:12.253025Z] [nf-0981960a27a79d2d198d8551a70e7a73-6600b-drksh] [700_1] [WorkflowRunner] Adding command task 'CallGenome+fixVcfHeader_chromId_020_chr21_0000' to sub-workflow 'CallGenome'
[2026-06-08T20:35:12.254567Z] [nf-0981960a27a79d2d198d8551a70e7a73-6600b-drksh] [700_1] [WorkflowRunner] Adding command task 'CallGenome+compressSegmentOutput_chromId_020_chr21_0000' to sub-workflow 'CallGenome'
[2026-06-08T20:35:12.255190Z] [nf-0981960a27a79d2d198d8551a70e7a73-6600b-drksh] [700_1] [WorkflowRunner] Adding command task 'CallGenome+callGenomeSegment_chromId_020_chr21_0001' to sub-workflow 'CallGenome'
[2026-06-08T20:35:12.255329Z] [nf-0981960a27a79d2d198d8551a70e7a73-6600b-drksh] [700_1] [WorkflowRunner] Adding command task 'CallGenome+compressSegmentOutput_chromId_020_chr21_0001' to sub-workflow 'CallGenome'
[2026-06-08T20:35:12.255711Z] [nf-0981960a27a79d2d198d8551a70e7a73-6600b-drksh] [700_1] [TaskRunner:CallGenome+makeTmpDir] Task initiated on local node
[2026-06-08T20:35:12.255845Z] [nf-0981960a27a79d2d198d8551a70e7a73-6600b-drksh] [700_1] [WorkflowRunner] Adding command task 'CallGenome+callGenomeSegment_chromId_020_chr21_0002' to sub-workflow 'CallGenome'
[2026-06-08T20:35:12.255995Z] [nf-0981960a27a79d2d198d8551a70e7a73-6600b-drksh] [700_1] [WorkflowRunner] Adding command task 'CallGenome+compressSegmentOutput_chromId_020_chr21_0002' to sub-workflow 'CallGenome'
[2026-06-08T20:35:12.266874Z] [nf-0981960a27a79d2d198d8551a70e7a73-6600b-drksh] [700_1] [WorkflowRunner] Adding command task 'CallGenome+callGenomeSegment_chromId_020_chr21_0003' to sub-workflow 'CallGenome'
[2026-06-08T20:35:12.266960Z] [nf-0981960a27a79d2d198d8551a70e7a73-6600b-drksh] [700_1] [WorkflowRunner] Adding command task 'CallGenome+compressSegmentOutput_chromId_020_chr21_0003' to sub-workflow 'CallGenome'
[2026-06-08T20:35:12.267026Z] [nf-0981960a27a79d2d198d8551a70e7a73-6600b-drksh] [700_1] [WorkflowRunner] Adding command task 'CallGenome+completedAllGenomeSegments' to sub-workflow 'CallGenome'
[2026-06-08T20:35:12.267108Z] [nf-0981960a27a79d2d198d8551a70e7a73-6600b-drksh] [700_1] [WorkflowRunner] Adding command task 'CallGenome+SNV_concat_vcf' to sub-workflow 'CallGenome'
[2026-06-08T20:35:12.267177Z] [nf-0981960a27a79d2d198d8551a70e7a73-6600b-drksh] [700_1] [WorkflowRunner] Adding command task 'CallGenome+SNV_index_vcf' to sub-workflow 'CallGenome'
[2026-06-08T20:35:12.267248Z] [nf-0981960a27a79d2d198d8551a70e7a73-6600b-drksh] [700_1] [WorkflowRunner] Adding command task 'CallGenome+Indel_concat_vcf' to sub-workflow 'CallGenome'
[2026-06-08T20:35:12.267328Z] [nf-0981960a27a79d2d198d8551a70e7a73-6600b-drksh] [700_1] [WorkflowRunner] Adding command task 'CallGenome+Indel_index_vcf' to sub-workflow 'CallGenome'
[2026-06-08T20:35:12.267404Z] [nf-0981960a27a79d2d198d8551a70e7a73-6600b-drksh] [700_1] [WorkflowRunner] Adding command task 'CallGenome+mergeRunStats' to sub-workflow 'CallGenome'
[2026-06-08T20:35:12.267474Z] [nf-0981960a27a79d2d198d8551a70e7a73-6600b-drksh] [700_1] [WorkflowRunner] Adding command task 'CallGenome+removeTmpDir' to sub-workflow 'CallGenome'
[2026-06-08T20:35:12.267519Z] [nf-0981960a27a79d2d198d8551a70e7a73-6600b-drksh] [700_1] [TaskRunner:CallGenome] Finished task specification for sub-workflow
[2026-06-08T20:35:12.288373Z] [nf-0981960a27a79d2d198d8551a70e7a73-6600b-drksh] [700_1] [TaskManager] Completed command task: 'CallGenome+makeTmpDir' launched from sub-workflow 'CallGenome'
[2026-06-08T20:35:12.288708Z] [nf-0981960a27a79d2d198d8551a70e7a73-6600b-drksh] [700_1] [TaskManager] Launching command task: 'CallGenome+callGenomeSegment_chromId_020_chr21_0003' from sub-workflow 'CallGenome'
[2026-06-08T20:35:12.290439Z] [nf-0981960a27a79d2d198d8551a70e7a73-6600b-drksh] [700_1] [TaskManager] Launching command task: 'CallGenome+callGenomeSegment_chromId_020_chr21_0002' from sub-workflow 'CallGenome'
[2026-06-08T20:35:12.292675Z] [nf-0981960a27a79d2d198d8551a70e7a73-6600b-drksh] [700_1] [TaskRunner:CallGenome+callGenomeSegment_chromId_020_chr21_0003] Task initiated on local node
[2026-06-08T20:35:12.293262Z] [nf-0981960a27a79d2d198d8551a70e7a73-6600b-drksh] [700_1] [TaskManager] Launching command task: 'CallGenome+callGenomeSegment_chromId_020_chr21_0000' from sub-workflow 'CallGenome'
[2026-06-08T20:35:12.293990Z] [nf-0981960a27a79d2d198d8551a70e7a73-6600b-drksh] [700_1] [TaskRunner:CallGenome+callGenomeSegment_chromId_020_chr21_0002] Task initiated on local node
[2026-06-08T20:35:12.295646Z] [nf-0981960a27a79d2d198d8551a70e7a73-6600b-drksh] [700_1] [TaskManager] Launching command task: 'CallGenome+callGenomeSegment_chromId_020_chr21_0001' from sub-workflow 'CallGenome'
[2026-06-08T20:35:12.296830Z] [nf-0981960a27a79d2d198d8551a70e7a73-6600b-drksh] [700_1] [TaskRunner:CallGenome+callGenomeSegment_chromId_020_chr21_0000] Task initiated on local node
[2026-06-08T20:35:12.300342Z] [nf-0981960a27a79d2d198d8551a70e7a73-6600b-drksh] [700_1] [TaskRunner:CallGenome+callGenomeSegment_chromId_020_chr21_0001] Task initiated on local node
[2026-06-08T20:35:12.410695Z] [nf-0981960a27a79d2d198d8551a70e7a73-6600b-drksh] [700_1] [TaskManager] Completed command task: 'CallGenome+callGenomeSegment_chromId_020_chr21_0001' launched from sub-workflow 'CallGenome'
[2026-06-08T20:35:12.410769Z] [nf-0981960a27a79d2d198d8551a70e7a73-6600b-drksh] [700_1] [TaskManager] Completed command task: 'CallGenome+callGenomeSegment_chromId_020_chr21_0000' launched from sub-workflow 'CallGenome'
[2026-06-08T20:35:12.411079Z] [nf-0981960a27a79d2d198d8551a70e7a73-6600b-drksh] [700_1] [TaskManager] Launching command task: 'CallGenome+compressSegmentOutput_chromId_020_chr21_0001' from sub-workflow 'CallGenome'
[2026-06-08T20:35:12.411355Z] [nf-0981960a27a79d2d198d8551a70e7a73-6600b-drksh] [700_1] [TaskManager] Launching command task: 'CallGenome+fixVcfHeader_chromId_020_chr21_0000' from sub-workflow 'CallGenome'
[2026-06-08T20:35:12.414071Z] [nf-0981960a27a79d2d198d8551a70e7a73-6600b-drksh] [700_1] [TaskRunner:CallGenome+fixVcfHeader_chromId_020_chr21_0000] Task initiated on local node
[2026-06-08T20:35:12.415186Z] [nf-0981960a27a79d2d198d8551a70e7a73-6600b-drksh] [700_1] [TaskRunner:CallGenome+compressSegmentOutput_chromId_020_chr21_0001] Task initiated on local node
[2026-06-08T20:35:12.475097Z] [nf-0981960a27a79d2d198d8551a70e7a73-6600b-drksh] [700_1] [TaskManager] Completed command task: 'CallGenome+compressSegmentOutput_chromId_020_chr21_0001' launched from sub-workflow 'CallGenome'
[2026-06-08T20:35:12.475136Z] [nf-0981960a27a79d2d198d8551a70e7a73-6600b-drksh] [700_1] [TaskManager] Completed command task: 'CallGenome+fixVcfHeader_chromId_020_chr21_0000' launched from sub-workflow 'CallGenome'
[2026-06-08T20:35:12.475361Z] [nf-0981960a27a79d2d198d8551a70e7a73-6600b-drksh] [700_1] [TaskManager] Launching command task: 'CallGenome+compressSegmentOutput_chromId_020_chr21_0000' from sub-workflow 'CallGenome'
[2026-06-08T20:35:12.477894Z] [nf-0981960a27a79d2d198d8551a70e7a73-6600b-drksh] [700_1] [TaskRunner:CallGenome+compressSegmentOutput_chromId_020_chr21_0000] Task initiated on local node
[2026-06-08T20:35:12.539076Z] [nf-0981960a27a79d2d198d8551a70e7a73-6600b-drksh] [700_1] [TaskManager] Completed command task: 'CallGenome+compressSegmentOutput_chromId_020_chr21_0000' launched from sub-workflow 'CallGenome'
[2026-06-08T20:35:13.608715Z] [nf-0981960a27a79d2d198d8551a70e7a73-6600b-drksh] [700_1] [TaskManager] Completed command task: 'CallGenome+callGenomeSegment_chromId_020_chr21_0002' launched from sub-workflow 'CallGenome'
[2026-06-08T20:35:13.609052Z] [nf-0981960a27a79d2d198d8551a70e7a73-6600b-drksh] [700_1] [TaskManager] Launching command task: 'CallGenome+compressSegmentOutput_chromId_020_chr21_0002' from sub-workflow 'CallGenome'
[2026-06-08T20:35:13.611632Z] [nf-0981960a27a79d2d198d8551a70e7a73-6600b-drksh] [700_1] [TaskRunner:CallGenome+compressSegmentOutput_chromId_020_chr21_0002] Task initiated on local node
[2026-06-08T20:35:13.673289Z] [nf-0981960a27a79d2d198d8551a70e7a73-6600b-drksh] [700_1] [TaskManager] Completed command task: 'CallGenome+compressSegmentOutput_chromId_020_chr21_0002' launched from sub-workflow 'CallGenome'
[2026-06-08T20:35:41.693903Z] [nf-0981960a27a79d2d198d8551a70e7a73-6600b-drksh] [700_1] [TaskManager] Completed command task: 'CallGenome+callGenomeSegment_chromId_020_chr21_0003' launched from sub-workflow 'CallGenome'
[2026-06-08T20:35:41.694602Z] [nf-0981960a27a79d2d198d8551a70e7a73-6600b-drksh] [700_1] [TaskManager] Launching command task: 'CallGenome+compressSegmentOutput_chromId_020_chr21_0003' from sub-workflow 'CallGenome'
[2026-06-08T20:35:41.697558Z] [nf-0981960a27a79d2d198d8551a70e7a73-6600b-drksh] [700_1] [TaskRunner:CallGenome+compressSegmentOutput_chromId_020_chr21_0003] Task initiated on local node
[2026-06-08T20:35:41.758793Z] [nf-0981960a27a79d2d198d8551a70e7a73-6600b-drksh] [700_1] [TaskManager] Completed command task: 'CallGenome+compressSegmentOutput_chromId_020_chr21_0003' launched from sub-workflow 'CallGenome'
[2026-06-08T20:35:41.758944Z] [nf-0981960a27a79d2d198d8551a70e7a73-6600b-drksh] [700_1] [TaskManager] Completed command task: 'CallGenome+completedAllGenomeSegments' launched from sub-workflow 'CallGenome'
[2026-06-08T20:35:41.759064Z] [nf-0981960a27a79d2d198d8551a70e7a73-6600b-drksh] [700_1] [TaskManager] Launching command task: 'CallGenome+mergeRunStats' from sub-workflow 'CallGenome'
[2026-06-08T20:35:41.759685Z] [nf-0981960a27a79d2d198d8551a70e7a73-6600b-drksh] [700_1] [TaskManager] Launching command task: 'CallGenome+Indel_concat_vcf' from sub-workflow 'CallGenome'
[2026-06-08T20:35:41.761718Z] [nf-0981960a27a79d2d198d8551a70e7a73-6600b-drksh] [700_1] [TaskManager] Launching command task: 'CallGenome+SNV_concat_vcf' from sub-workflow 'CallGenome'
[2026-06-08T20:35:41.762271Z] [nf-0981960a27a79d2d198d8551a70e7a73-6600b-drksh] [700_1] [TaskRunner:CallGenome+mergeRunStats] Task initiated on local node
[2026-06-08T20:35:41.764497Z] [nf-0981960a27a79d2d198d8551a70e7a73-6600b-drksh] [700_1] [TaskRunner:CallGenome+Indel_concat_vcf] Task initiated on local node
[2026-06-08T20:35:41.765231Z] [nf-0981960a27a79d2d198d8551a70e7a73-6600b-drksh] [700_1] [TaskRunner:CallGenome+SNV_concat_vcf] Task initiated on local node
[2026-06-08T20:35:41.794058Z] [nf-0981960a27a79d2d198d8551a70e7a73-6600b-drksh] [700_1] [TaskManager] Completed command task: 'CallGenome+SNV_concat_vcf' launched from sub-workflow 'CallGenome'
[2026-06-08T20:35:41.794126Z] [nf-0981960a27a79d2d198d8551a70e7a73-6600b-drksh] [700_1] [TaskManager] Completed command task: 'CallGenome+Indel_concat_vcf' launched from sub-workflow 'CallGenome'
[2026-06-08T20:35:41.794149Z] [nf-0981960a27a79d2d198d8551a70e7a73-6600b-drksh] [700_1] [TaskManager] Completed command task: 'CallGenome+mergeRunStats' launched from sub-workflow 'CallGenome'
[2026-06-08T20:35:41.794327Z] [nf-0981960a27a79d2d198d8551a70e7a73-6600b-drksh] [700_1] [TaskManager] Launching command task: 'CallGenome+SNV_index_vcf' from sub-workflow 'CallGenome'
[2026-06-08T20:35:41.794920Z] [nf-0981960a27a79d2d198d8551a70e7a73-6600b-drksh] [700_1] [TaskManager] Launching command task: 'CallGenome+Indel_index_vcf' from sub-workflow 'CallGenome'
[2026-06-08T20:35:41.797138Z] [nf-0981960a27a79d2d198d8551a70e7a73-6600b-drksh] [700_1] [TaskRunner:CallGenome+Indel_index_vcf] Task initiated on local node
[2026-06-08T20:35:41.798099Z] [nf-0981960a27a79d2d198d8551a70e7a73-6600b-drksh] [700_1] [TaskRunner:CallGenome+SNV_index_vcf] Task initiated on local node
[2026-06-08T20:35:41.828611Z] [nf-0981960a27a79d2d198d8551a70e7a73-6600b-drksh] [700_1] [TaskManager] Completed command task: 'CallGenome+SNV_index_vcf' launched from sub-workflow 'CallGenome'
[2026-06-08T20:35:41.828677Z] [nf-0981960a27a79d2d198d8551a70e7a73-6600b-drksh] [700_1] [TaskManager] Completed command task: 'CallGenome+Indel_index_vcf' launched from sub-workflow 'CallGenome'
[2026-06-08T20:35:41.828837Z] [nf-0981960a27a79d2d198d8551a70e7a73-6600b-drksh] [700_1] [TaskManager] Launching command task: 'CallGenome+removeTmpDir' from sub-workflow 'CallGenome'
[2026-06-08T20:35:41.831355Z] [nf-0981960a27a79d2d198d8551a70e7a73-6600b-drksh] [700_1] [TaskRunner:CallGenome+removeTmpDir] Task initiated on local node
[2026-06-08T20:35:41.860891Z] [nf-0981960a27a79d2d198d8551a70e7a73-6600b-drksh] [700_1] [TaskManager] Completed command task: 'CallGenome+removeTmpDir' launched from sub-workflow 'CallGenome'
[2026-06-08T20:35:45.380825Z] [nf-0981960a27a79d2d198d8551a70e7a73-6600b-drksh] [700_1] [TaskManager] Completed sub-workflow task: 'CallGenome' launched from master workflow
[2026-06-08T20:36:00.361888Z] [nf-0981960a27a79d2d198d8551a70e7a73-6600b-drksh] [700_1] [WorkflowRunner] Strelka somatic workflow successfully completed.
[2026-06-08T20:36:00.361888Z] [nf-0981960a27a79d2d198d8551a70e7a73-6600b-drksh] [700_1] [WorkflowRunner] 
[2026-06-08T20:36:00.361888Z] [nf-0981960a27a79d2d198d8551a70e7a73-6600b-drksh] [700_1] [WorkflowRunner] 	workflow version: 2.9.10
[2026-06-08T20:36:00.361975Z] [nf-0981960a27a79d2d198d8551a70e7a73-6600b-drksh] [700_1] [WorkflowRunner] 
[2026-06-08T20:36:00.361984Z] [nf-0981960a27a79d2d198d8551a70e7a73-6600b-drksh] [700_1] [WorkflowRunner] Workflow successfully completed all tasks
[2026-06-08T20:36:00.361992Z] [nf-0981960a27a79d2d198d8551a70e7a73-6600b-drksh] [700_1] [WorkflowRunner] Elapsed time for full workflow: 48 sec