[W::hts_idx_load2] The index file is older than the data file: /tmp/nxf.XXXXP1cGE0/xgen-exome-hyb-panel-v2-targets-hg38_AND_altera_v3_targets_postQC_hg38_chr21.bed.gz.tbi
[W::hts_idx_load2] The index file is older than the data file: /tmp/nxf.XXXXP1cGE0/xgen-exome-hyb-panel-v2-targets-hg38_AND_altera_v3_targets_postQC_hg38_chr21.bed.gz.tbi
[W::hts_idx_load2] The index file is older than the data file: /tmp/nxf.XXXXP1cGE0/xgen-exome-hyb-panel-v2-targets-hg38_AND_altera_v3_targets_postQC_hg38_chr21.bed.gz.tbi
[W::hts_idx_load2] The index file is older than the data file: /tmp/nxf.XXXXP1cGE0/xgen-exome-hyb-panel-v2-targets-hg38_AND_altera_v3_targets_postQC_hg38_chr21.bed.gz.tbi
[W::hts_idx_load2] The index file is older than the data file: /tmp/nxf.XXXXP1cGE0/xgen-exome-hyb-panel-v2-targets-hg38_AND_altera_v3_targets_postQC_hg38_chr21.bed.gz.tbi
[2026-06-04T17:17:49.609684Z] [nf-c1a9e5abaea8c240e7502b204818f1fe-294f4-lbzlr] [613_1] [WorkflowRunner] Initiating pyFlow run
[2026-06-04T17:17:49.610535Z] [nf-c1a9e5abaea8c240e7502b204818f1fe-294f4-lbzlr] [613_1] [WorkflowRunner] pyFlowClientWorkflowClass: MantaWorkflow
[2026-06-04T17:17:49.610548Z] [nf-c1a9e5abaea8c240e7502b204818f1fe-294f4-lbzlr] [613_1] [WorkflowRunner] pyFlowVersion: 1.1.20
[2026-06-04T17:17:49.610552Z] [nf-c1a9e5abaea8c240e7502b204818f1fe-294f4-lbzlr] [613_1] [WorkflowRunner] pythonVersion: 2.7.15.final.0
[2026-06-04T17:17:49.610556Z] [nf-c1a9e5abaea8c240e7502b204818f1fe-294f4-lbzlr] [613_1] [WorkflowRunner] WorkingDir: '/tmp/nxf.XXXXP1cGE0'
[2026-06-04T17:17:49.610560Z] [nf-c1a9e5abaea8c240e7502b204818f1fe-294f4-lbzlr] [613_1] [WorkflowRunner] ProcessCmdLine: '/var/tmp/manta/runWorkflow.py -m local -j 14'
[2026-06-04T17:17:49.610566Z] [nf-c1a9e5abaea8c240e7502b204818f1fe-294f4-lbzlr] [613_1] [WorkflowRunner] [RunParameters] mode: local
[2026-06-04T17:17:49.610570Z] [nf-c1a9e5abaea8c240e7502b204818f1fe-294f4-lbzlr] [613_1] [WorkflowRunner] [RunParameters] nCores: 14
[2026-06-04T17:17:49.610574Z] [nf-c1a9e5abaea8c240e7502b204818f1fe-294f4-lbzlr] [613_1] [WorkflowRunner] [RunParameters] memMb: 761556
[2026-06-04T17:17:49.610577Z] [nf-c1a9e5abaea8c240e7502b204818f1fe-294f4-lbzlr] [613_1] [WorkflowRunner] [RunParameters] dataDir: /var/tmp/manta/workspace/pyflow.data
[2026-06-04T17:17:49.610581Z] [nf-c1a9e5abaea8c240e7502b204818f1fe-294f4-lbzlr] [613_1] [WorkflowRunner] [RunParameters] isDryRun: False
[2026-06-04T17:17:49.610585Z] [nf-c1a9e5abaea8c240e7502b204818f1fe-294f4-lbzlr] [613_1] [WorkflowRunner] [RunParameters] isContinue: False
[2026-06-04T17:17:49.610588Z] [nf-c1a9e5abaea8c240e7502b204818f1fe-294f4-lbzlr] [613_1] [WorkflowRunner] [RunParameters] isForceContinue: True
[2026-06-04T17:17:49.610591Z] [nf-c1a9e5abaea8c240e7502b204818f1fe-294f4-lbzlr] [613_1] [WorkflowRunner] [RunParameters] mailTo: ''
[2026-06-04T17:17:49.611467Z] [nf-c1a9e5abaea8c240e7502b204818f1fe-294f4-lbzlr] [613_1] [TaskRunner:masterWorkflow] Starting task specification for master workflow
[2026-06-04T17:17:49.611745Z] [nf-c1a9e5abaea8c240e7502b204818f1fe-294f4-lbzlr] [613_1] [MantaWorkflow] Initiating Manta workflow version: 1.6.0
[2026-06-04T17:17:49.611998Z] [nf-c1a9e5abaea8c240e7502b204818f1fe-294f4-lbzlr] [613_1] [WorkflowRunner] Adding command task 'getAlignmentStats_makeTmpDir' to master workflow
[2026-06-04T17:17:49.612714Z] [nf-c1a9e5abaea8c240e7502b204818f1fe-294f4-lbzlr] [613_1] [WorkflowRunner] Adding command task 'getAlignmentStats_generateStats_000' to master workflow
[2026-06-04T17:17:49.612898Z] [nf-c1a9e5abaea8c240e7502b204818f1fe-294f4-lbzlr] [613_1] [WorkflowRunner] Adding command task 'getAlignmentStats_generateStats_001' to master workflow
[2026-06-04T17:17:49.613005Z] [nf-c1a9e5abaea8c240e7502b204818f1fe-294f4-lbzlr] [613_1] [TaskManager] Launching command task: 'getAlignmentStats_makeTmpDir' from master workflow
[2026-06-04T17:17:49.613299Z] [nf-c1a9e5abaea8c240e7502b204818f1fe-294f4-lbzlr] [613_1] [WorkflowRunner] Adding command task 'getAlignmentStats_mergeStats' to master workflow
[2026-06-04T17:17:49.614101Z] [nf-c1a9e5abaea8c240e7502b204818f1fe-294f4-lbzlr] [613_1] [WorkflowRunner] Adding command task 'getAlignmentStats_removeTmpDir' to master workflow
[2026-06-04T17:17:49.614680Z] [nf-c1a9e5abaea8c240e7502b204818f1fe-294f4-lbzlr] [613_1] [WorkflowRunner] Adding command task 'summarizeStats' to master workflow
[2026-06-04T17:17:49.615100Z] [nf-c1a9e5abaea8c240e7502b204818f1fe-294f4-lbzlr] [613_1] [WorkflowRunner] Adding command task 'makeGraphTmpDir' to master workflow
[2026-06-04T17:17:49.618081Z] [nf-c1a9e5abaea8c240e7502b204818f1fe-294f4-lbzlr] [613_1] [TaskRunner:getAlignmentStats_makeTmpDir] Task initiated on local node
[2026-06-04T17:17:49.649246Z] [nf-c1a9e5abaea8c240e7502b204818f1fe-294f4-lbzlr] [613_1] [TaskManager] Completed command task: 'getAlignmentStats_makeTmpDir' launched from master workflow
[2026-06-04T17:17:49.649687Z] [nf-c1a9e5abaea8c240e7502b204818f1fe-294f4-lbzlr] [613_1] [TaskManager] Launching command task: 'getAlignmentStats_generateStats_001' from master workflow
[2026-06-04T17:17:49.650387Z] [nf-c1a9e5abaea8c240e7502b204818f1fe-294f4-lbzlr] [613_1] [TaskManager] Launching command task: 'getAlignmentStats_generateStats_000' from master workflow
[2026-06-04T17:17:49.653557Z] [nf-c1a9e5abaea8c240e7502b204818f1fe-294f4-lbzlr] [613_1] [TaskRunner:getAlignmentStats_generateStats_001] Task initiated on local node
[2026-06-04T17:17:49.654774Z] [nf-c1a9e5abaea8c240e7502b204818f1fe-294f4-lbzlr] [613_1] [TaskRunner:getAlignmentStats_generateStats_000] Task initiated on local node
[2026-06-04T17:17:49.883244Z] [nf-c1a9e5abaea8c240e7502b204818f1fe-294f4-lbzlr] [613_1] [WorkflowRunner] Adding command task 'makeLocusGraph_chromId_020_chr21-5117103-5117231_0000_to_chromId_020_chr21-39269899-39270033_0000' to master workflow
[2026-06-04T17:17:50.129570Z] [nf-c1a9e5abaea8c240e7502b204818f1fe-294f4-lbzlr] [613_1] [WorkflowRunner] Adding command task 'makeLocusGraph_chromId_020_chr21-39270283-39270433_0000_to_chromId_020_chr21-46664295-46664374_0000' to master workflow
[2026-06-04T17:17:50.129816Z] [nf-c1a9e5abaea8c240e7502b204818f1fe-294f4-lbzlr] [613_1] [WorkflowRunner] Adding sub-workflow task 'mergeLocusGraphInputList' to master workflow
[2026-06-04T17:17:50.129916Z] [nf-c1a9e5abaea8c240e7502b204818f1fe-294f4-lbzlr] [613_1] [WorkflowRunner] Adding command task 'mergeLocusGraph' to master workflow
[2026-06-04T17:17:50.129987Z] [nf-c1a9e5abaea8c240e7502b204818f1fe-294f4-lbzlr] [613_1] [WorkflowRunner] Adding command task 'checkLocusGraph' to master workflow
[2026-06-04T17:17:50.130056Z] [nf-c1a9e5abaea8c240e7502b204818f1fe-294f4-lbzlr] [613_1] [WorkflowRunner] Adding command task 'removeTmpDir' to master workflow
[2026-06-04T17:17:50.130123Z] [nf-c1a9e5abaea8c240e7502b204818f1fe-294f4-lbzlr] [613_1] [WorkflowRunner] Adding command task 'locusGraphStats' to master workflow
[2026-06-04T17:17:50.130645Z] [nf-c1a9e5abaea8c240e7502b204818f1fe-294f4-lbzlr] [613_1] [WorkflowRunner] Adding command task 'makeHyGenDir' to master workflow
[2026-06-04T17:17:50.130947Z] [nf-c1a9e5abaea8c240e7502b204818f1fe-294f4-lbzlr] [613_1] [WorkflowRunner] Adding command task 'generateCandidateSV_0000' to master workflow
[2026-06-04T17:17:50.131047Z] [nf-c1a9e5abaea8c240e7502b204818f1fe-294f4-lbzlr] [613_1] [WorkflowRunner] Adding command task 'fixVcfHeader_sortCandidateSV' to master workflow
[2026-06-04T17:17:50.131166Z] [nf-c1a9e5abaea8c240e7502b204818f1fe-294f4-lbzlr] [613_1] [WorkflowRunner] Adding sub-workflow task 'sortCandidateSVInputList' to master workflow
[2026-06-04T17:17:50.131233Z] [nf-c1a9e5abaea8c240e7502b204818f1fe-294f4-lbzlr] [613_1] [WorkflowRunner] Adding command task 'sort_sortCandidateSV' to master workflow
[2026-06-04T17:17:50.131298Z] [nf-c1a9e5abaea8c240e7502b204818f1fe-294f4-lbzlr] [613_1] [WorkflowRunner] Adding command task 'tabix_sortCandidateSV' to master workflow
[2026-06-04T17:17:50.131363Z] [nf-c1a9e5abaea8c240e7502b204818f1fe-294f4-lbzlr] [613_1] [WorkflowRunner] Adding command task 'fixVcfHeader_sortDiploidSV' to master workflow
[2026-06-04T17:17:50.131460Z] [nf-c1a9e5abaea8c240e7502b204818f1fe-294f4-lbzlr] [613_1] [WorkflowRunner] Adding sub-workflow task 'sortDiploidSVInputList' to master workflow
[2026-06-04T17:17:50.131532Z] [nf-c1a9e5abaea8c240e7502b204818f1fe-294f4-lbzlr] [613_1] [WorkflowRunner] Adding command task 'sort_sortDiploidSV' to master workflow
[2026-06-04T17:17:50.131596Z] [nf-c1a9e5abaea8c240e7502b204818f1fe-294f4-lbzlr] [613_1] [WorkflowRunner] Adding command task 'tabix_sortDiploidSV' to master workflow
[2026-06-04T17:17:50.131662Z] [nf-c1a9e5abaea8c240e7502b204818f1fe-294f4-lbzlr] [613_1] [WorkflowRunner] Adding command task 'fixVcfHeader_sortSomaticSV' to master workflow
[2026-06-04T17:17:50.131759Z] [nf-c1a9e5abaea8c240e7502b204818f1fe-294f4-lbzlr] [613_1] [WorkflowRunner] Adding sub-workflow task 'sortSomaticSVInputList' to master workflow
[2026-06-04T17:17:50.131823Z] [nf-c1a9e5abaea8c240e7502b204818f1fe-294f4-lbzlr] [613_1] [WorkflowRunner] Adding command task 'sort_sortSomaticSV' to master workflow
[2026-06-04T17:17:50.131893Z] [nf-c1a9e5abaea8c240e7502b204818f1fe-294f4-lbzlr] [613_1] [WorkflowRunner] Adding command task 'tabix_sortSomaticSV' to master workflow
[2026-06-04T17:17:50.132041Z] [nf-c1a9e5abaea8c240e7502b204818f1fe-294f4-lbzlr] [613_1] [WorkflowRunner] Adding command task 'extractSmallIndels' to master workflow
[2026-06-04T17:17:50.132219Z] [nf-c1a9e5abaea8c240e7502b204818f1fe-294f4-lbzlr] [613_1] [WorkflowRunner] Adding command task 'extractSmallIndels_tabix' to master workflow
[2026-06-04T17:17:50.132607Z] [nf-c1a9e5abaea8c240e7502b204818f1fe-294f4-lbzlr] [613_1] [WorkflowRunner] Adding sub-workflow task 'sortEdgeRuntimeLogsInputList' to master workflow
[2026-06-04T17:17:50.132772Z] [nf-c1a9e5abaea8c240e7502b204818f1fe-294f4-lbzlr] [613_1] [WorkflowRunner] Adding command task 'sortEdgeRuntimeLogs' to master workflow
[2026-06-04T17:17:50.133201Z] [nf-c1a9e5abaea8c240e7502b204818f1fe-294f4-lbzlr] [613_1] [TaskRunner:masterWorkflow] Finished task specification for master workflow
[2026-06-04T17:17:52.102570Z] [nf-c1a9e5abaea8c240e7502b204818f1fe-294f4-lbzlr] [613_1] [TaskManager] Completed command task: 'getAlignmentStats_generateStats_000' launched from master workflow
[2026-06-04T17:18:00.124181Z] [nf-c1a9e5abaea8c240e7502b204818f1fe-294f4-lbzlr] [613_1] [TaskManager] Completed command task: 'getAlignmentStats_generateStats_001' launched from master workflow
[2026-06-04T17:18:00.125152Z] [nf-c1a9e5abaea8c240e7502b204818f1fe-294f4-lbzlr] [613_1] [TaskManager] Launching command task: 'getAlignmentStats_mergeStats' from master workflow
[2026-06-04T17:18:00.127608Z] [nf-c1a9e5abaea8c240e7502b204818f1fe-294f4-lbzlr] [613_1] [TaskRunner:getAlignmentStats_mergeStats] Task initiated on local node
[2026-06-04T17:18:00.189106Z] [nf-c1a9e5abaea8c240e7502b204818f1fe-294f4-lbzlr] [613_1] [TaskManager] Completed command task: 'getAlignmentStats_mergeStats' launched from master workflow
[2026-06-04T17:18:00.189485Z] [nf-c1a9e5abaea8c240e7502b204818f1fe-294f4-lbzlr] [613_1] [TaskManager] Launching command task: 'getAlignmentStats_removeTmpDir' from master workflow
[2026-06-04T17:18:00.189964Z] [nf-c1a9e5abaea8c240e7502b204818f1fe-294f4-lbzlr] [613_1] [TaskManager] Launching command task: 'summarizeStats' from master workflow
[2026-06-04T17:18:00.190372Z] [nf-c1a9e5abaea8c240e7502b204818f1fe-294f4-lbzlr] [613_1] [TaskManager] Launching command task: 'makeGraphTmpDir' from master workflow
[2026-06-04T17:18:00.193590Z] [nf-c1a9e5abaea8c240e7502b204818f1fe-294f4-lbzlr] [613_1] [TaskRunner:getAlignmentStats_removeTmpDir] Task initiated on local node
[2026-06-04T17:18:00.194866Z] [nf-c1a9e5abaea8c240e7502b204818f1fe-294f4-lbzlr] [613_1] [TaskRunner:makeGraphTmpDir] Task initiated on local node
[2026-06-04T17:18:00.195704Z] [nf-c1a9e5abaea8c240e7502b204818f1fe-294f4-lbzlr] [613_1] [TaskRunner:summarizeStats] Task initiated on local node
[2026-06-04T17:18:00.223081Z] [nf-c1a9e5abaea8c240e7502b204818f1fe-294f4-lbzlr] [613_1] [TaskManager] Completed command task: 'getAlignmentStats_removeTmpDir' launched from master workflow
[2026-06-04T17:18:00.223147Z] [nf-c1a9e5abaea8c240e7502b204818f1fe-294f4-lbzlr] [613_1] [TaskManager] Completed command task: 'summarizeStats' launched from master workflow
[2026-06-04T17:18:00.223169Z] [nf-c1a9e5abaea8c240e7502b204818f1fe-294f4-lbzlr] [613_1] [TaskManager] Completed command task: 'makeGraphTmpDir' launched from master workflow
[2026-06-04T17:18:00.223497Z] [nf-c1a9e5abaea8c240e7502b204818f1fe-294f4-lbzlr] [613_1] [TaskManager] Launching command task: 'makeLocusGraph_chromId_020_chr21-39270283-39270433_0000_to_chromId_020_chr21-46664295-46664374_0000' from master workflow
[2026-06-04T17:18:00.223823Z] [nf-c1a9e5abaea8c240e7502b204818f1fe-294f4-lbzlr] [613_1] [TaskManager] Launching command task: 'makeLocusGraph_chromId_020_chr21-5117103-5117231_0000_to_chromId_020_chr21-39269899-39270033_0000' from master workflow
[2026-06-04T17:18:00.245863Z] [nf-c1a9e5abaea8c240e7502b204818f1fe-294f4-lbzlr] [613_1] [TaskRunner:makeLocusGraph_chromId_020_chr21-39270283-39270433_0000_to_chromId_020_chr21-46664295-46664374_0000] Task initiated on local node
[2026-06-04T17:18:00.246997Z] [nf-c1a9e5abaea8c240e7502b204818f1fe-294f4-lbzlr] [613_1] [TaskRunner:makeLocusGraph_chromId_020_chr21-5117103-5117231_0000_to_chromId_020_chr21-39269899-39270033_0000] Task initiated on local node
[2026-06-04T17:18:16.893340Z] [nf-c1a9e5abaea8c240e7502b204818f1fe-294f4-lbzlr] [613_1] [TaskManager] Completed command task: 'makeLocusGraph_chromId_020_chr21-5117103-5117231_0000_to_chromId_020_chr21-39269899-39270033_0000' launched from master workflow
[2026-06-04T17:18:27.511096Z] [nf-c1a9e5abaea8c240e7502b204818f1fe-294f4-lbzlr] [613_1] [TaskManager] Completed command task: 'makeLocusGraph_chromId_020_chr21-39270283-39270433_0000_to_chromId_020_chr21-46664295-46664374_0000' launched from master workflow
[2026-06-04T17:18:27.512221Z] [nf-c1a9e5abaea8c240e7502b204818f1fe-294f4-lbzlr] [613_1] [TaskManager] Launching sub-workflow task: 'mergeLocusGraphInputList' from master workflow
[2026-06-04T17:18:27.512548Z] [nf-c1a9e5abaea8c240e7502b204818f1fe-294f4-lbzlr] [613_1] [TaskRunner:mergeLocusGraphInputList] Starting task specification for sub-workflow
[2026-06-04T17:18:27.512830Z] [nf-c1a9e5abaea8c240e7502b204818f1fe-294f4-lbzlr] [613_1] [TaskRunner:mergeLocusGraphInputList] Finished task specification for sub-workflow
[2026-06-04T17:18:27.513834Z] [nf-c1a9e5abaea8c240e7502b204818f1fe-294f4-lbzlr] [613_1] [TaskManager] Completed sub-workflow task: 'mergeLocusGraphInputList' launched from master workflow
[2026-06-04T17:18:27.514138Z] [nf-c1a9e5abaea8c240e7502b204818f1fe-294f4-lbzlr] [613_1] [TaskManager] Launching command task: 'mergeLocusGraph' from master workflow
[2026-06-04T17:18:27.516994Z] [nf-c1a9e5abaea8c240e7502b204818f1fe-294f4-lbzlr] [613_1] [TaskRunner:mergeLocusGraph] Task initiated on local node
[2026-06-04T17:18:27.578509Z] [nf-c1a9e5abaea8c240e7502b204818f1fe-294f4-lbzlr] [613_1] [TaskManager] Completed command task: 'mergeLocusGraph' launched from master workflow
[2026-06-04T17:18:27.578880Z] [nf-c1a9e5abaea8c240e7502b204818f1fe-294f4-lbzlr] [613_1] [TaskManager] Launching command task: 'checkLocusGraph' from master workflow
[2026-06-04T17:18:27.579248Z] [nf-c1a9e5abaea8c240e7502b204818f1fe-294f4-lbzlr] [613_1] [TaskManager] Launching command task: 'removeTmpDir' from master workflow
[2026-06-04T17:18:27.579653Z] [nf-c1a9e5abaea8c240e7502b204818f1fe-294f4-lbzlr] [613_1] [TaskManager] Launching command task: 'locusGraphStats' from master workflow
[2026-06-04T17:18:27.582957Z] [nf-c1a9e5abaea8c240e7502b204818f1fe-294f4-lbzlr] [613_1] [TaskRunner:checkLocusGraph] Task initiated on local node
[2026-06-04T17:18:27.584114Z] [nf-c1a9e5abaea8c240e7502b204818f1fe-294f4-lbzlr] [613_1] [TaskRunner:removeTmpDir] Task initiated on local node
[2026-06-04T17:18:27.585051Z] [nf-c1a9e5abaea8c240e7502b204818f1fe-294f4-lbzlr] [613_1] [TaskRunner:locusGraphStats] Task initiated on local node
[2026-06-04T17:18:27.613348Z] [nf-c1a9e5abaea8c240e7502b204818f1fe-294f4-lbzlr] [613_1] [TaskManager] Completed command task: 'checkLocusGraph' launched from master workflow
[2026-06-04T17:18:27.613420Z] [nf-c1a9e5abaea8c240e7502b204818f1fe-294f4-lbzlr] [613_1] [TaskManager] Completed command task: 'removeTmpDir' launched from master workflow
[2026-06-04T17:18:27.613446Z] [nf-c1a9e5abaea8c240e7502b204818f1fe-294f4-lbzlr] [613_1] [TaskManager] Completed command task: 'locusGraphStats' launched from master workflow
[2026-06-04T17:18:27.613752Z] [nf-c1a9e5abaea8c240e7502b204818f1fe-294f4-lbzlr] [613_1] [TaskManager] Launching command task: 'makeHyGenDir' from master workflow
[2026-06-04T17:18:27.616291Z] [nf-c1a9e5abaea8c240e7502b204818f1fe-294f4-lbzlr] [613_1] [TaskRunner:makeHyGenDir] Task initiated on local node
[2026-06-04T17:18:27.645654Z] [nf-c1a9e5abaea8c240e7502b204818f1fe-294f4-lbzlr] [613_1] [TaskManager] Completed command task: 'makeHyGenDir' launched from master workflow
[2026-06-04T17:18:27.645992Z] [nf-c1a9e5abaea8c240e7502b204818f1fe-294f4-lbzlr] [613_1] [TaskManager] Launching command task: 'generateCandidateSV_0000' from master workflow
[2026-06-04T17:18:27.648674Z] [nf-c1a9e5abaea8c240e7502b204818f1fe-294f4-lbzlr] [613_1] [TaskRunner:generateCandidateSV_0000] Task initiated on local node
[2026-06-04T17:18:33.562461Z] [nf-c1a9e5abaea8c240e7502b204818f1fe-294f4-lbzlr] [613_1] [TaskManager] Completed command task: 'generateCandidateSV_0000' launched from master workflow
[2026-06-04T17:18:33.562848Z] [nf-c1a9e5abaea8c240e7502b204818f1fe-294f4-lbzlr] [613_1] [TaskManager] Launching sub-workflow task: 'sortEdgeRuntimeLogsInputList' from master workflow
[2026-06-04T17:18:33.563272Z] [nf-c1a9e5abaea8c240e7502b204818f1fe-294f4-lbzlr] [613_1] [TaskRunner:sortEdgeRuntimeLogsInputList] Starting task specification for sub-workflow
[2026-06-04T17:18:33.563530Z] [nf-c1a9e5abaea8c240e7502b204818f1fe-294f4-lbzlr] [613_1] [TaskManager] Launching command task: 'fixVcfHeader_sortSomaticSV' from master workflow
[2026-06-04T17:18:33.563665Z] [nf-c1a9e5abaea8c240e7502b204818f1fe-294f4-lbzlr] [613_1] [TaskRunner:sortEdgeRuntimeLogsInputList] Finished task specification for sub-workflow
[2026-06-04T17:18:33.564027Z] [nf-c1a9e5abaea8c240e7502b204818f1fe-294f4-lbzlr] [613_1] [TaskManager] Launching command task: 'fixVcfHeader_sortDiploidSV' from master workflow
[2026-06-04T17:18:33.564628Z] [nf-c1a9e5abaea8c240e7502b204818f1fe-294f4-lbzlr] [613_1] [TaskManager] Launching command task: 'fixVcfHeader_sortCandidateSV' from master workflow
[2026-06-04T17:18:33.566947Z] [nf-c1a9e5abaea8c240e7502b204818f1fe-294f4-lbzlr] [613_1] [TaskManager] Completed sub-workflow task: 'sortEdgeRuntimeLogsInputList' launched from master workflow
[2026-06-04T17:18:33.569754Z] [nf-c1a9e5abaea8c240e7502b204818f1fe-294f4-lbzlr] [613_1] [TaskRunner:fixVcfHeader_sortSomaticSV] Task initiated on local node
[2026-06-04T17:18:33.570315Z] [nf-c1a9e5abaea8c240e7502b204818f1fe-294f4-lbzlr] [613_1] [TaskRunner:fixVcfHeader_sortDiploidSV] Task initiated on local node
[2026-06-04T17:18:33.570603Z] [nf-c1a9e5abaea8c240e7502b204818f1fe-294f4-lbzlr] [613_1] [TaskManager] Launching command task: 'sortEdgeRuntimeLogs' from master workflow
[2026-06-04T17:18:33.570826Z] [nf-c1a9e5abaea8c240e7502b204818f1fe-294f4-lbzlr] [613_1] [TaskRunner:fixVcfHeader_sortCandidateSV] Task initiated on local node
[2026-06-04T17:18:33.573141Z] [nf-c1a9e5abaea8c240e7502b204818f1fe-294f4-lbzlr] [613_1] [TaskRunner:sortEdgeRuntimeLogs] Task initiated on local node
[2026-06-04T17:18:33.634935Z] [nf-c1a9e5abaea8c240e7502b204818f1fe-294f4-lbzlr] [613_1] [TaskManager] Completed command task: 'fixVcfHeader_sortSomaticSV' launched from master workflow
[2026-06-04T17:18:33.634998Z] [nf-c1a9e5abaea8c240e7502b204818f1fe-294f4-lbzlr] [613_1] [TaskManager] Completed command task: 'fixVcfHeader_sortCandidateSV' launched from master workflow
[2026-06-04T17:18:33.635022Z] [nf-c1a9e5abaea8c240e7502b204818f1fe-294f4-lbzlr] [613_1] [TaskManager] Completed command task: 'sortEdgeRuntimeLogs' launched from master workflow
[2026-06-04T17:18:33.635042Z] [nf-c1a9e5abaea8c240e7502b204818f1fe-294f4-lbzlr] [613_1] [TaskManager] Completed command task: 'fixVcfHeader_sortDiploidSV' launched from master workflow
[2026-06-04T17:18:33.635320Z] [nf-c1a9e5abaea8c240e7502b204818f1fe-294f4-lbzlr] [613_1] [TaskManager] Launching sub-workflow task: 'sortCandidateSVInputList' from master workflow
[2026-06-04T17:18:33.635677Z] [nf-c1a9e5abaea8c240e7502b204818f1fe-294f4-lbzlr] [613_1] [TaskRunner:sortCandidateSVInputList] Starting task specification for sub-workflow
[2026-06-04T17:18:33.635877Z] [nf-c1a9e5abaea8c240e7502b204818f1fe-294f4-lbzlr] [613_1] [TaskManager] Launching sub-workflow task: 'sortDiploidSVInputList' from master workflow
[2026-06-04T17:18:33.636040Z] [nf-c1a9e5abaea8c240e7502b204818f1fe-294f4-lbzlr] [613_1] [TaskRunner:sortCandidateSVInputList] Finished task specification for sub-workflow
[2026-06-04T17:18:33.636210Z] [nf-c1a9e5abaea8c240e7502b204818f1fe-294f4-lbzlr] [613_1] [TaskRunner:sortDiploidSVInputList] Starting task specification for sub-workflow
[2026-06-04T17:18:33.636340Z] [nf-c1a9e5abaea8c240e7502b204818f1fe-294f4-lbzlr] [613_1] [TaskManager] Launching sub-workflow task: 'sortSomaticSVInputList' from master workflow
[2026-06-04T17:18:33.636523Z] [nf-c1a9e5abaea8c240e7502b204818f1fe-294f4-lbzlr] [613_1] [TaskRunner:sortDiploidSVInputList] Finished task specification for sub-workflow
[2026-06-04T17:18:33.636763Z] [nf-c1a9e5abaea8c240e7502b204818f1fe-294f4-lbzlr] [613_1] [TaskRunner:sortSomaticSVInputList] Starting task specification for sub-workflow
[2026-06-04T17:18:33.636942Z] [nf-c1a9e5abaea8c240e7502b204818f1fe-294f4-lbzlr] [613_1] [TaskManager] Completed sub-workflow task: 'sortCandidateSVInputList' launched from master workflow
[2026-06-04T17:18:33.637039Z] [nf-c1a9e5abaea8c240e7502b204818f1fe-294f4-lbzlr] [613_1] [TaskRunner:sortSomaticSVInputList] Finished task specification for sub-workflow
[2026-06-04T17:18:33.637163Z] [nf-c1a9e5abaea8c240e7502b204818f1fe-294f4-lbzlr] [613_1] [TaskManager] Completed sub-workflow task: 'sortDiploidSVInputList' launched from master workflow
[2026-06-04T17:18:33.637191Z] [nf-c1a9e5abaea8c240e7502b204818f1fe-294f4-lbzlr] [613_1] [TaskManager] Completed sub-workflow task: 'sortSomaticSVInputList' launched from master workflow
[2026-06-04T17:18:33.637359Z] [nf-c1a9e5abaea8c240e7502b204818f1fe-294f4-lbzlr] [613_1] [TaskManager] Launching command task: 'sort_sortCandidateSV' from master workflow
[2026-06-04T17:18:33.637764Z] [nf-c1a9e5abaea8c240e7502b204818f1fe-294f4-lbzlr] [613_1] [TaskManager] Launching command task: 'sort_sortDiploidSV' from master workflow
[2026-06-04T17:18:33.639259Z] [nf-c1a9e5abaea8c240e7502b204818f1fe-294f4-lbzlr] [613_1] [TaskManager] Launching command task: 'sort_sortSomaticSV' from master workflow
[2026-06-04T17:18:33.640715Z] [nf-c1a9e5abaea8c240e7502b204818f1fe-294f4-lbzlr] [613_1] [TaskRunner:sort_sortCandidateSV] Task initiated on local node
[2026-06-04T17:18:33.642421Z] [nf-c1a9e5abaea8c240e7502b204818f1fe-294f4-lbzlr] [613_1] [TaskRunner:sort_sortDiploidSV] Task initiated on local node
[2026-06-04T17:18:33.643337Z] [nf-c1a9e5abaea8c240e7502b204818f1fe-294f4-lbzlr] [613_1] [TaskRunner:sort_sortSomaticSV] Task initiated on local node
[2026-06-04T17:18:33.705082Z] [nf-c1a9e5abaea8c240e7502b204818f1fe-294f4-lbzlr] [613_1] [TaskManager] Completed command task: 'sort_sortCandidateSV' launched from master workflow
[2026-06-04T17:18:33.705142Z] [nf-c1a9e5abaea8c240e7502b204818f1fe-294f4-lbzlr] [613_1] [TaskManager] Completed command task: 'sort_sortDiploidSV' launched from master workflow
[2026-06-04T17:18:33.705161Z] [nf-c1a9e5abaea8c240e7502b204818f1fe-294f4-lbzlr] [613_1] [TaskManager] Completed command task: 'sort_sortSomaticSV' launched from master workflow
[2026-06-04T17:18:33.705382Z] [nf-c1a9e5abaea8c240e7502b204818f1fe-294f4-lbzlr] [613_1] [TaskManager] Launching command task: 'tabix_sortCandidateSV' from master workflow
[2026-06-04T17:18:33.705705Z] [nf-c1a9e5abaea8c240e7502b204818f1fe-294f4-lbzlr] [613_1] [TaskManager] Launching command task: 'tabix_sortDiploidSV' from master workflow
[2026-06-04T17:18:33.706061Z] [nf-c1a9e5abaea8c240e7502b204818f1fe-294f4-lbzlr] [613_1] [TaskManager] Launching command task: 'extractSmallIndels' from master workflow
[2026-06-04T17:18:33.706476Z] [nf-c1a9e5abaea8c240e7502b204818f1fe-294f4-lbzlr] [613_1] [TaskManager] Launching command task: 'tabix_sortSomaticSV' from master workflow
[2026-06-04T17:18:33.711219Z] [nf-c1a9e5abaea8c240e7502b204818f1fe-294f4-lbzlr] [613_1] [TaskRunner:tabix_sortDiploidSV] Task initiated on local node
[2026-06-04T17:18:33.712900Z] [nf-c1a9e5abaea8c240e7502b204818f1fe-294f4-lbzlr] [613_1] [TaskRunner:tabix_sortCandidateSV] Task initiated on local node
[2026-06-04T17:18:33.714363Z] [nf-c1a9e5abaea8c240e7502b204818f1fe-294f4-lbzlr] [613_1] [TaskRunner:extractSmallIndels] Task initiated on local node
[2026-06-04T17:18:33.715392Z] [nf-c1a9e5abaea8c240e7502b204818f1fe-294f4-lbzlr] [613_1] [TaskRunner:tabix_sortSomaticSV] Task initiated on local node
[2026-06-04T17:18:33.740052Z] [nf-c1a9e5abaea8c240e7502b204818f1fe-294f4-lbzlr] [613_1] [TaskManager] Completed command task: 'tabix_sortCandidateSV' launched from master workflow
[2026-06-04T17:18:33.740125Z] [nf-c1a9e5abaea8c240e7502b204818f1fe-294f4-lbzlr] [613_1] [TaskManager] Completed command task: 'tabix_sortDiploidSV' launched from master workflow
[2026-06-04T17:18:33.743424Z] [nf-c1a9e5abaea8c240e7502b204818f1fe-294f4-lbzlr] [613_1] [TaskManager] Completed command task: 'tabix_sortSomaticSV' launched from master workflow
[2026-06-04T17:18:33.758984Z] [nf-c1a9e5abaea8c240e7502b204818f1fe-294f4-lbzlr] [613_1] [TaskManager] Completed command task: 'extractSmallIndels' launched from master workflow
[2026-06-04T17:18:33.759187Z] [nf-c1a9e5abaea8c240e7502b204818f1fe-294f4-lbzlr] [613_1] [TaskManager] Launching command task: 'extractSmallIndels_tabix' from master workflow
[2026-06-04T17:18:33.761988Z] [nf-c1a9e5abaea8c240e7502b204818f1fe-294f4-lbzlr] [613_1] [TaskRunner:extractSmallIndels_tabix] Task initiated on local node
[2026-06-04T17:18:33.791366Z] [nf-c1a9e5abaea8c240e7502b204818f1fe-294f4-lbzlr] [613_1] [TaskManager] Completed command task: 'extractSmallIndels_tabix' launched from master workflow
[2026-06-04T17:18:38.265669Z] [nf-c1a9e5abaea8c240e7502b204818f1fe-294f4-lbzlr] [613_1] [WorkflowRunner] Manta workflow successfully completed.
[2026-06-04T17:18:38.265669Z] [nf-c1a9e5abaea8c240e7502b204818f1fe-294f4-lbzlr] [613_1] [WorkflowRunner] 
[2026-06-04T17:18:38.265669Z] [nf-c1a9e5abaea8c240e7502b204818f1fe-294f4-lbzlr] [613_1] [WorkflowRunner] 	workflow version: 1.6.0
[2026-06-04T17:18:38.265753Z] [nf-c1a9e5abaea8c240e7502b204818f1fe-294f4-lbzlr] [613_1] [WorkflowRunner] 
[2026-06-04T17:18:38.265759Z] [nf-c1a9e5abaea8c240e7502b204818f1fe-294f4-lbzlr] [613_1] [WorkflowRunner] Workflow successfully completed all tasks
[2026-06-04T17:18:38.265763Z] [nf-c1a9e5abaea8c240e7502b204818f1fe-294f4-lbzlr] [613_1] [WorkflowRunner] Elapsed time for full workflow: 48 sec