[W::hts_idx_load2] The index file is older than the data file: /tmp/nxf.XXXXjZHYLz/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.XXXXjZHYLz/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.XXXXjZHYLz/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.XXXXjZHYLz/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.XXXXjZHYLz/xgen-exome-hyb-panel-v2-targets-hg38_AND_altera_v3_targets_postQC_hg38_chr21.bed.gz.tbi
[2026-06-05T15:19:12.782262Z] [nf-0c0ea5238c9a4a3c0d7fe7c311e9f96d-79926-vbhfl] [621_1] [WorkflowRunner] Initiating pyFlow run
[2026-06-05T15:19:12.783497Z] [nf-0c0ea5238c9a4a3c0d7fe7c311e9f96d-79926-vbhfl] [621_1] [WorkflowRunner] pyFlowClientWorkflowClass: MantaWorkflow
[2026-06-05T15:19:12.783522Z] [nf-0c0ea5238c9a4a3c0d7fe7c311e9f96d-79926-vbhfl] [621_1] [WorkflowRunner] pyFlowVersion: 1.1.20
[2026-06-05T15:19:12.783527Z] [nf-0c0ea5238c9a4a3c0d7fe7c311e9f96d-79926-vbhfl] [621_1] [WorkflowRunner] pythonVersion: 2.7.15.final.0
[2026-06-05T15:19:12.783532Z] [nf-0c0ea5238c9a4a3c0d7fe7c311e9f96d-79926-vbhfl] [621_1] [WorkflowRunner] WorkingDir: '/tmp/nxf.XXXXjZHYLz'
[2026-06-05T15:19:12.783536Z] [nf-0c0ea5238c9a4a3c0d7fe7c311e9f96d-79926-vbhfl] [621_1] [WorkflowRunner] ProcessCmdLine: '/var/tmp/manta/runWorkflow.py -m local -j 14'
[2026-06-05T15:19:12.783543Z] [nf-0c0ea5238c9a4a3c0d7fe7c311e9f96d-79926-vbhfl] [621_1] [WorkflowRunner] [RunParameters] mode: local
[2026-06-05T15:19:12.783546Z] [nf-0c0ea5238c9a4a3c0d7fe7c311e9f96d-79926-vbhfl] [621_1] [WorkflowRunner] [RunParameters] nCores: 14
[2026-06-05T15:19:12.783550Z] [nf-0c0ea5238c9a4a3c0d7fe7c311e9f96d-79926-vbhfl] [621_1] [WorkflowRunner] [RunParameters] memMb: 3096076
[2026-06-05T15:19:12.783553Z] [nf-0c0ea5238c9a4a3c0d7fe7c311e9f96d-79926-vbhfl] [621_1] [WorkflowRunner] [RunParameters] dataDir: /var/tmp/manta/workspace/pyflow.data
[2026-06-05T15:19:12.783558Z] [nf-0c0ea5238c9a4a3c0d7fe7c311e9f96d-79926-vbhfl] [621_1] [WorkflowRunner] [RunParameters] isDryRun: False
[2026-06-05T15:19:12.783561Z] [nf-0c0ea5238c9a4a3c0d7fe7c311e9f96d-79926-vbhfl] [621_1] [WorkflowRunner] [RunParameters] isContinue: False
[2026-06-05T15:19:12.783564Z] [nf-0c0ea5238c9a4a3c0d7fe7c311e9f96d-79926-vbhfl] [621_1] [WorkflowRunner] [RunParameters] isForceContinue: True
[2026-06-05T15:19:12.783568Z] [nf-0c0ea5238c9a4a3c0d7fe7c311e9f96d-79926-vbhfl] [621_1] [WorkflowRunner] [RunParameters] mailTo: ''
[2026-06-05T15:19:12.784595Z] [nf-0c0ea5238c9a4a3c0d7fe7c311e9f96d-79926-vbhfl] [621_1] [TaskRunner:masterWorkflow] Starting task specification for master workflow
[2026-06-05T15:19:12.784653Z] [nf-0c0ea5238c9a4a3c0d7fe7c311e9f96d-79926-vbhfl] [621_1] [MantaWorkflow] Initiating Manta workflow version: 1.6.0
[2026-06-05T15:19:12.784922Z] [nf-0c0ea5238c9a4a3c0d7fe7c311e9f96d-79926-vbhfl] [621_1] [WorkflowRunner] Adding command task 'getAlignmentStats_makeTmpDir' to master workflow
[2026-06-05T15:19:12.785846Z] [nf-0c0ea5238c9a4a3c0d7fe7c311e9f96d-79926-vbhfl] [621_1] [WorkflowRunner] Adding command task 'getAlignmentStats_generateStats_000' to master workflow
[2026-06-05T15:19:12.786075Z] [nf-0c0ea5238c9a4a3c0d7fe7c311e9f96d-79926-vbhfl] [621_1] [TaskManager] Launching command task: 'getAlignmentStats_makeTmpDir' from master workflow
[2026-06-05T15:19:12.786303Z] [nf-0c0ea5238c9a4a3c0d7fe7c311e9f96d-79926-vbhfl] [621_1] [WorkflowRunner] Adding command task 'getAlignmentStats_generateStats_001' to master workflow
[2026-06-05T15:19:12.786406Z] [nf-0c0ea5238c9a4a3c0d7fe7c311e9f96d-79926-vbhfl] [621_1] [WorkflowRunner] Adding command task 'getAlignmentStats_mergeStats' to master workflow
[2026-06-05T15:19:12.786690Z] [nf-0c0ea5238c9a4a3c0d7fe7c311e9f96d-79926-vbhfl] [621_1] [WorkflowRunner] Adding command task 'getAlignmentStats_removeTmpDir' to master workflow
[2026-06-05T15:19:12.786829Z] [nf-0c0ea5238c9a4a3c0d7fe7c311e9f96d-79926-vbhfl] [621_1] [WorkflowRunner] Adding command task 'summarizeStats' to master workflow
[2026-06-05T15:19:12.786945Z] [nf-0c0ea5238c9a4a3c0d7fe7c311e9f96d-79926-vbhfl] [621_1] [WorkflowRunner] Adding command task 'makeGraphTmpDir' to master workflow
[2026-06-05T15:19:12.791261Z] [nf-0c0ea5238c9a4a3c0d7fe7c311e9f96d-79926-vbhfl] [621_1] [TaskRunner:getAlignmentStats_makeTmpDir] Task initiated on local node
[2026-06-05T15:19:12.821601Z] [nf-0c0ea5238c9a4a3c0d7fe7c311e9f96d-79926-vbhfl] [621_1] [TaskManager] Completed command task: 'getAlignmentStats_makeTmpDir' launched from master workflow
[2026-06-05T15:19:12.822009Z] [nf-0c0ea5238c9a4a3c0d7fe7c311e9f96d-79926-vbhfl] [621_1] [TaskManager] Launching command task: 'getAlignmentStats_generateStats_001' from master workflow
[2026-06-05T15:19:12.822730Z] [nf-0c0ea5238c9a4a3c0d7fe7c311e9f96d-79926-vbhfl] [621_1] [TaskManager] Launching command task: 'getAlignmentStats_generateStats_000' from master workflow
[2026-06-05T15:19:12.826001Z] [nf-0c0ea5238c9a4a3c0d7fe7c311e9f96d-79926-vbhfl] [621_1] [TaskRunner:getAlignmentStats_generateStats_000] Task initiated on local node
[2026-06-05T15:19:13.054980Z] [nf-0c0ea5238c9a4a3c0d7fe7c311e9f96d-79926-vbhfl] [621_1] [WorkflowRunner] Adding command task 'makeLocusGraph_chromId_020_chr21-5117103-5117231_0000_to_chromId_020_chr21-39269899-39270033_0000' to master workflow
[2026-06-05T15:19:13.297434Z] [nf-0c0ea5238c9a4a3c0d7fe7c311e9f96d-79926-vbhfl] [621_1] [WorkflowRunner] Adding command task 'makeLocusGraph_chromId_020_chr21-39270283-39270433_0000_to_chromId_020_chr21-46664295-46664374_0000' to master workflow
[2026-06-05T15:19:13.297710Z] [nf-0c0ea5238c9a4a3c0d7fe7c311e9f96d-79926-vbhfl] [621_1] [WorkflowRunner] Adding sub-workflow task 'mergeLocusGraphInputList' to master workflow
[2026-06-05T15:19:13.297797Z] [nf-0c0ea5238c9a4a3c0d7fe7c311e9f96d-79926-vbhfl] [621_1] [WorkflowRunner] Adding command task 'mergeLocusGraph' to master workflow
[2026-06-05T15:19:13.297864Z] [nf-0c0ea5238c9a4a3c0d7fe7c311e9f96d-79926-vbhfl] [621_1] [WorkflowRunner] Adding command task 'checkLocusGraph' to master workflow
[2026-06-05T15:19:13.297932Z] [nf-0c0ea5238c9a4a3c0d7fe7c311e9f96d-79926-vbhfl] [621_1] [WorkflowRunner] Adding command task 'removeTmpDir' to master workflow
[2026-06-05T15:19:13.297997Z] [nf-0c0ea5238c9a4a3c0d7fe7c311e9f96d-79926-vbhfl] [621_1] [WorkflowRunner] Adding command task 'locusGraphStats' to master workflow
[2026-06-05T15:19:13.298211Z] [nf-0c0ea5238c9a4a3c0d7fe7c311e9f96d-79926-vbhfl] [621_1] [WorkflowRunner] Adding command task 'makeHyGenDir' to master workflow
[2026-06-05T15:19:13.298345Z] [nf-0c0ea5238c9a4a3c0d7fe7c311e9f96d-79926-vbhfl] [621_1] [WorkflowRunner] Adding command task 'generateCandidateSV_0000' to master workflow
[2026-06-05T15:19:13.298442Z] [nf-0c0ea5238c9a4a3c0d7fe7c311e9f96d-79926-vbhfl] [621_1] [WorkflowRunner] Adding command task 'fixVcfHeader_sortCandidateSV' to master workflow
[2026-06-05T15:19:13.298554Z] [nf-0c0ea5238c9a4a3c0d7fe7c311e9f96d-79926-vbhfl] [621_1] [WorkflowRunner] Adding sub-workflow task 'sortCandidateSVInputList' to master workflow
[2026-06-05T15:19:13.298620Z] [nf-0c0ea5238c9a4a3c0d7fe7c311e9f96d-79926-vbhfl] [621_1] [WorkflowRunner] Adding command task 'sort_sortCandidateSV' to master workflow
[2026-06-05T15:19:13.298684Z] [nf-0c0ea5238c9a4a3c0d7fe7c311e9f96d-79926-vbhfl] [621_1] [WorkflowRunner] Adding command task 'tabix_sortCandidateSV' to master workflow
[2026-06-05T15:19:13.298750Z] [nf-0c0ea5238c9a4a3c0d7fe7c311e9f96d-79926-vbhfl] [621_1] [WorkflowRunner] Adding command task 'fixVcfHeader_sortDiploidSV' to master workflow
[2026-06-05T15:19:13.298844Z] [nf-0c0ea5238c9a4a3c0d7fe7c311e9f96d-79926-vbhfl] [621_1] [WorkflowRunner] Adding sub-workflow task 'sortDiploidSVInputList' to master workflow
[2026-06-05T15:19:13.298918Z] [nf-0c0ea5238c9a4a3c0d7fe7c311e9f96d-79926-vbhfl] [621_1] [WorkflowRunner] Adding command task 'sort_sortDiploidSV' to master workflow
[2026-06-05T15:19:13.298980Z] [nf-0c0ea5238c9a4a3c0d7fe7c311e9f96d-79926-vbhfl] [621_1] [WorkflowRunner] Adding command task 'tabix_sortDiploidSV' to master workflow
[2026-06-05T15:19:13.299044Z] [nf-0c0ea5238c9a4a3c0d7fe7c311e9f96d-79926-vbhfl] [621_1] [WorkflowRunner] Adding command task 'fixVcfHeader_sortSomaticSV' to master workflow
[2026-06-05T15:19:13.299139Z] [nf-0c0ea5238c9a4a3c0d7fe7c311e9f96d-79926-vbhfl] [621_1] [WorkflowRunner] Adding sub-workflow task 'sortSomaticSVInputList' to master workflow
[2026-06-05T15:19:13.299203Z] [nf-0c0ea5238c9a4a3c0d7fe7c311e9f96d-79926-vbhfl] [621_1] [WorkflowRunner] Adding command task 'sort_sortSomaticSV' to master workflow
[2026-06-05T15:19:13.299266Z] [nf-0c0ea5238c9a4a3c0d7fe7c311e9f96d-79926-vbhfl] [621_1] [WorkflowRunner] Adding command task 'tabix_sortSomaticSV' to master workflow
[2026-06-05T15:19:13.299344Z] [nf-0c0ea5238c9a4a3c0d7fe7c311e9f96d-79926-vbhfl] [621_1] [WorkflowRunner] Adding command task 'extractSmallIndels' to master workflow
[2026-06-05T15:19:13.299407Z] [nf-0c0ea5238c9a4a3c0d7fe7c311e9f96d-79926-vbhfl] [621_1] [WorkflowRunner] Adding command task 'extractSmallIndels_tabix' to master workflow
[2026-06-05T15:19:13.299504Z] [nf-0c0ea5238c9a4a3c0d7fe7c311e9f96d-79926-vbhfl] [621_1] [WorkflowRunner] Adding sub-workflow task 'sortEdgeRuntimeLogsInputList' to master workflow
[2026-06-05T15:19:13.299574Z] [nf-0c0ea5238c9a4a3c0d7fe7c311e9f96d-79926-vbhfl] [621_1] [WorkflowRunner] Adding command task 'sortEdgeRuntimeLogs' to master workflow
[2026-06-05T15:19:13.299620Z] [nf-0c0ea5238c9a4a3c0d7fe7c311e9f96d-79926-vbhfl] [621_1] [TaskRunner:masterWorkflow] Finished task specification for master workflow
[2026-06-05T15:19:15.496267Z] [nf-0c0ea5238c9a4a3c0d7fe7c311e9f96d-79926-vbhfl] [621_1] [TaskRunner:getAlignmentStats_generateStats_001] Task initiated on local node
[2026-06-05T15:19:15.520845Z] [nf-0c0ea5238c9a4a3c0d7fe7c311e9f96d-79926-vbhfl] [621_1] [TaskManager] Completed command task: 'getAlignmentStats_generateStats_000' launched from master workflow
[2026-06-05T15:19:19.091283Z] [nf-0c0ea5238c9a4a3c0d7fe7c311e9f96d-79926-vbhfl] [621_1] [TaskManager] Completed command task: 'getAlignmentStats_generateStats_001' launched from master workflow
[2026-06-05T15:19:19.091822Z] [nf-0c0ea5238c9a4a3c0d7fe7c311e9f96d-79926-vbhfl] [621_1] [TaskManager] Launching command task: 'getAlignmentStats_mergeStats' from master workflow
[2026-06-05T15:19:19.096201Z] [nf-0c0ea5238c9a4a3c0d7fe7c311e9f96d-79926-vbhfl] [621_1] [TaskRunner:getAlignmentStats_mergeStats] Task initiated on local node
[2026-06-05T15:19:19.124712Z] [nf-0c0ea5238c9a4a3c0d7fe7c311e9f96d-79926-vbhfl] [621_1] [TaskManager] Completed command task: 'getAlignmentStats_mergeStats' launched from master workflow
[2026-06-05T15:19:19.125155Z] [nf-0c0ea5238c9a4a3c0d7fe7c311e9f96d-79926-vbhfl] [621_1] [TaskManager] Launching command task: 'summarizeStats' from master workflow
[2026-06-05T15:19:19.125732Z] [nf-0c0ea5238c9a4a3c0d7fe7c311e9f96d-79926-vbhfl] [621_1] [TaskManager] Launching command task: 'makeGraphTmpDir' from master workflow
[2026-06-05T15:19:19.128038Z] [nf-0c0ea5238c9a4a3c0d7fe7c311e9f96d-79926-vbhfl] [621_1] [TaskManager] Launching command task: 'getAlignmentStats_removeTmpDir' from master workflow
[2026-06-05T15:19:19.130646Z] [nf-0c0ea5238c9a4a3c0d7fe7c311e9f96d-79926-vbhfl] [621_1] [TaskRunner:summarizeStats] Task initiated on local node
[2026-06-05T15:19:19.131945Z] [nf-0c0ea5238c9a4a3c0d7fe7c311e9f96d-79926-vbhfl] [621_1] [TaskRunner:makeGraphTmpDir] Task initiated on local node
[2026-06-05T15:19:19.132891Z] [nf-0c0ea5238c9a4a3c0d7fe7c311e9f96d-79926-vbhfl] [621_1] [TaskRunner:getAlignmentStats_removeTmpDir] Task initiated on local node
[2026-06-05T15:19:19.160799Z] [nf-0c0ea5238c9a4a3c0d7fe7c311e9f96d-79926-vbhfl] [621_1] [TaskManager] Completed command task: 'summarizeStats' launched from master workflow
[2026-06-05T15:19:19.160880Z] [nf-0c0ea5238c9a4a3c0d7fe7c311e9f96d-79926-vbhfl] [621_1] [TaskManager] Completed command task: 'makeGraphTmpDir' launched from master workflow
[2026-06-05T15:19:19.160904Z] [nf-0c0ea5238c9a4a3c0d7fe7c311e9f96d-79926-vbhfl] [621_1] [TaskManager] Completed command task: 'getAlignmentStats_removeTmpDir' launched from master workflow
[2026-06-05T15:19:19.161249Z] [nf-0c0ea5238c9a4a3c0d7fe7c311e9f96d-79926-vbhfl] [621_1] [TaskManager] Launching command task: 'makeLocusGraph_chromId_020_chr21-39270283-39270433_0000_to_chromId_020_chr21-46664295-46664374_0000' from master workflow
[2026-06-05T15:19:19.161892Z] [nf-0c0ea5238c9a4a3c0d7fe7c311e9f96d-79926-vbhfl] [621_1] [TaskManager] Launching command task: 'makeLocusGraph_chromId_020_chr21-5117103-5117231_0000_to_chromId_020_chr21-39269899-39270033_0000' from master workflow
[2026-06-05T15:19:19.180439Z] [nf-0c0ea5238c9a4a3c0d7fe7c311e9f96d-79926-vbhfl] [621_1] [TaskRunner:makeLocusGraph_chromId_020_chr21-5117103-5117231_0000_to_chromId_020_chr21-39269899-39270033_0000] Task initiated on local node
[2026-06-05T15:19:19.181559Z] [nf-0c0ea5238c9a4a3c0d7fe7c311e9f96d-79926-vbhfl] [621_1] [TaskRunner:makeLocusGraph_chromId_020_chr21-39270283-39270433_0000_to_chromId_020_chr21-46664295-46664374_0000] Task initiated on local node
[2026-06-05T15:19:29.477436Z] [nf-0c0ea5238c9a4a3c0d7fe7c311e9f96d-79926-vbhfl] [621_1] [TaskManager] Completed command task: 'makeLocusGraph_chromId_020_chr21-5117103-5117231_0000_to_chromId_020_chr21-39269899-39270033_0000' launched from master workflow
[2026-06-05T15:19:36.345302Z] [nf-0c0ea5238c9a4a3c0d7fe7c311e9f96d-79926-vbhfl] [621_1] [TaskManager] Completed command task: 'makeLocusGraph_chromId_020_chr21-39270283-39270433_0000_to_chromId_020_chr21-46664295-46664374_0000' launched from master workflow
[2026-06-05T15:19:36.346223Z] [nf-0c0ea5238c9a4a3c0d7fe7c311e9f96d-79926-vbhfl] [621_1] [TaskManager] Launching sub-workflow task: 'mergeLocusGraphInputList' from master workflow
[2026-06-05T15:19:36.346578Z] [nf-0c0ea5238c9a4a3c0d7fe7c311e9f96d-79926-vbhfl] [621_1] [TaskRunner:mergeLocusGraphInputList] Starting task specification for sub-workflow
[2026-06-05T15:19:36.346799Z] [nf-0c0ea5238c9a4a3c0d7fe7c311e9f96d-79926-vbhfl] [621_1] [TaskRunner:mergeLocusGraphInputList] Finished task specification for sub-workflow
[2026-06-05T15:19:36.347867Z] [nf-0c0ea5238c9a4a3c0d7fe7c311e9f96d-79926-vbhfl] [621_1] [TaskManager] Completed sub-workflow task: 'mergeLocusGraphInputList' launched from master workflow
[2026-06-05T15:19:36.348196Z] [nf-0c0ea5238c9a4a3c0d7fe7c311e9f96d-79926-vbhfl] [621_1] [TaskManager] Launching command task: 'mergeLocusGraph' from master workflow
[2026-06-05T15:19:36.351853Z] [nf-0c0ea5238c9a4a3c0d7fe7c311e9f96d-79926-vbhfl] [621_1] [TaskRunner:mergeLocusGraph] Task initiated on local node
[2026-06-05T15:19:36.412621Z] [nf-0c0ea5238c9a4a3c0d7fe7c311e9f96d-79926-vbhfl] [621_1] [TaskManager] Completed command task: 'mergeLocusGraph' launched from master workflow
[2026-06-05T15:19:36.413017Z] [nf-0c0ea5238c9a4a3c0d7fe7c311e9f96d-79926-vbhfl] [621_1] [TaskManager] Launching command task: 'checkLocusGraph' from master workflow
[2026-06-05T15:19:36.413549Z] [nf-0c0ea5238c9a4a3c0d7fe7c311e9f96d-79926-vbhfl] [621_1] [TaskManager] Launching command task: 'locusGraphStats' from master workflow
[2026-06-05T15:19:36.413938Z] [nf-0c0ea5238c9a4a3c0d7fe7c311e9f96d-79926-vbhfl] [621_1] [TaskManager] Launching command task: 'removeTmpDir' from master workflow
[2026-06-05T15:19:36.418861Z] [nf-0c0ea5238c9a4a3c0d7fe7c311e9f96d-79926-vbhfl] [621_1] [TaskRunner:checkLocusGraph] Task initiated on local node
[2026-06-05T15:19:36.419163Z] [nf-0c0ea5238c9a4a3c0d7fe7c311e9f96d-79926-vbhfl] [621_1] [TaskRunner:locusGraphStats] Task initiated on local node
[2026-06-05T15:19:36.420042Z] [nf-0c0ea5238c9a4a3c0d7fe7c311e9f96d-79926-vbhfl] [621_1] [TaskRunner:removeTmpDir] Task initiated on local node
[2026-06-05T15:19:36.477966Z] [nf-0c0ea5238c9a4a3c0d7fe7c311e9f96d-79926-vbhfl] [621_1] [TaskManager] Completed command task: 'checkLocusGraph' launched from master workflow
[2026-06-05T15:19:36.478029Z] [nf-0c0ea5238c9a4a3c0d7fe7c311e9f96d-79926-vbhfl] [621_1] [TaskManager] Completed command task: 'locusGraphStats' launched from master workflow
[2026-06-05T15:19:36.478050Z] [nf-0c0ea5238c9a4a3c0d7fe7c311e9f96d-79926-vbhfl] [621_1] [TaskManager] Completed command task: 'removeTmpDir' launched from master workflow
[2026-06-05T15:19:36.478374Z] [nf-0c0ea5238c9a4a3c0d7fe7c311e9f96d-79926-vbhfl] [621_1] [TaskManager] Launching command task: 'makeHyGenDir' from master workflow
[2026-06-05T15:19:36.481688Z] [nf-0c0ea5238c9a4a3c0d7fe7c311e9f96d-79926-vbhfl] [621_1] [TaskRunner:makeHyGenDir] Task initiated on local node
[2026-06-05T15:19:36.510575Z] [nf-0c0ea5238c9a4a3c0d7fe7c311e9f96d-79926-vbhfl] [621_1] [TaskManager] Completed command task: 'makeHyGenDir' launched from master workflow
[2026-06-05T15:19:36.510910Z] [nf-0c0ea5238c9a4a3c0d7fe7c311e9f96d-79926-vbhfl] [621_1] [TaskManager] Launching command task: 'generateCandidateSV_0000' from master workflow
[2026-06-05T15:19:36.514639Z] [nf-0c0ea5238c9a4a3c0d7fe7c311e9f96d-79926-vbhfl] [621_1] [TaskRunner:generateCandidateSV_0000] Task initiated on local node
[2026-06-05T15:19:40.682340Z] [nf-0c0ea5238c9a4a3c0d7fe7c311e9f96d-79926-vbhfl] [621_1] [TaskManager] Completed command task: 'generateCandidateSV_0000' launched from master workflow
[2026-06-05T15:19:40.682924Z] [nf-0c0ea5238c9a4a3c0d7fe7c311e9f96d-79926-vbhfl] [621_1] [TaskManager] Launching sub-workflow task: 'sortEdgeRuntimeLogsInputList' from master workflow
[2026-06-05T15:19:40.683309Z] [nf-0c0ea5238c9a4a3c0d7fe7c311e9f96d-79926-vbhfl] [621_1] [TaskRunner:sortEdgeRuntimeLogsInputList] Starting task specification for sub-workflow
[2026-06-05T15:19:40.683579Z] [nf-0c0ea5238c9a4a3c0d7fe7c311e9f96d-79926-vbhfl] [621_1] [TaskManager] Launching command task: 'fixVcfHeader_sortDiploidSV' from master workflow
[2026-06-05T15:19:40.683785Z] [nf-0c0ea5238c9a4a3c0d7fe7c311e9f96d-79926-vbhfl] [621_1] [TaskRunner:sortEdgeRuntimeLogsInputList] Finished task specification for sub-workflow
[2026-06-05T15:19:40.684148Z] [nf-0c0ea5238c9a4a3c0d7fe7c311e9f96d-79926-vbhfl] [621_1] [TaskManager] Launching command task: 'fixVcfHeader_sortSomaticSV' from master workflow
[2026-06-05T15:19:40.684372Z] [nf-0c0ea5238c9a4a3c0d7fe7c311e9f96d-79926-vbhfl] [621_1] [TaskManager] Launching command task: 'fixVcfHeader_sortCandidateSV' from master workflow
[2026-06-05T15:19:40.684762Z] [nf-0c0ea5238c9a4a3c0d7fe7c311e9f96d-79926-vbhfl] [621_1] [TaskManager] Completed sub-workflow task: 'sortEdgeRuntimeLogsInputList' launched from master workflow
[2026-06-05T15:19:40.685371Z] [nf-0c0ea5238c9a4a3c0d7fe7c311e9f96d-79926-vbhfl] [621_1] [TaskManager] Launching command task: 'sortEdgeRuntimeLogs' from master workflow
[2026-06-05T15:19:40.690420Z] [nf-0c0ea5238c9a4a3c0d7fe7c311e9f96d-79926-vbhfl] [621_1] [TaskRunner:fixVcfHeader_sortDiploidSV] Task initiated on local node
[2026-06-05T15:19:40.692824Z] [nf-0c0ea5238c9a4a3c0d7fe7c311e9f96d-79926-vbhfl] [621_1] [TaskRunner:fixVcfHeader_sortSomaticSV] Task initiated on local node
[2026-06-05T15:19:40.692983Z] [nf-0c0ea5238c9a4a3c0d7fe7c311e9f96d-79926-vbhfl] [621_1] [TaskRunner:fixVcfHeader_sortCandidateSV] Task initiated on local node
[2026-06-05T15:19:40.693694Z] [nf-0c0ea5238c9a4a3c0d7fe7c311e9f96d-79926-vbhfl] [621_1] [TaskRunner:sortEdgeRuntimeLogs] Task initiated on local node
[2026-06-05T15:19:40.751218Z] [nf-0c0ea5238c9a4a3c0d7fe7c311e9f96d-79926-vbhfl] [621_1] [TaskManager] Completed command task: 'sortEdgeRuntimeLogs' launched from master workflow
[2026-06-05T15:19:40.751274Z] [nf-0c0ea5238c9a4a3c0d7fe7c311e9f96d-79926-vbhfl] [621_1] [TaskManager] Completed command task: 'fixVcfHeader_sortCandidateSV' launched from master workflow
[2026-06-05T15:19:40.751304Z] [nf-0c0ea5238c9a4a3c0d7fe7c311e9f96d-79926-vbhfl] [621_1] [TaskManager] Completed command task: 'fixVcfHeader_sortSomaticSV' launched from master workflow
[2026-06-05T15:19:40.751326Z] [nf-0c0ea5238c9a4a3c0d7fe7c311e9f96d-79926-vbhfl] [621_1] [TaskManager] Completed command task: 'fixVcfHeader_sortDiploidSV' launched from master workflow
[2026-06-05T15:19:40.751642Z] [nf-0c0ea5238c9a4a3c0d7fe7c311e9f96d-79926-vbhfl] [621_1] [TaskManager] Launching sub-workflow task: 'sortDiploidSVInputList' from master workflow
[2026-06-05T15:19:40.751929Z] [nf-0c0ea5238c9a4a3c0d7fe7c311e9f96d-79926-vbhfl] [621_1] [TaskRunner:sortDiploidSVInputList] Starting task specification for sub-workflow
[2026-06-05T15:19:40.752076Z] [nf-0c0ea5238c9a4a3c0d7fe7c311e9f96d-79926-vbhfl] [621_1] [TaskManager] Launching sub-workflow task: 'sortCandidateSVInputList' from master workflow
[2026-06-05T15:19:40.752256Z] [nf-0c0ea5238c9a4a3c0d7fe7c311e9f96d-79926-vbhfl] [621_1] [TaskRunner:sortDiploidSVInputList] Finished task specification for sub-workflow
[2026-06-05T15:19:40.752421Z] [nf-0c0ea5238c9a4a3c0d7fe7c311e9f96d-79926-vbhfl] [621_1] [TaskRunner:sortCandidateSVInputList] Starting task specification for sub-workflow
[2026-06-05T15:19:40.752832Z] [nf-0c0ea5238c9a4a3c0d7fe7c311e9f96d-79926-vbhfl] [621_1] [TaskManager] Launching sub-workflow task: 'sortSomaticSVInputList' from master workflow
[2026-06-05T15:19:40.753158Z] [nf-0c0ea5238c9a4a3c0d7fe7c311e9f96d-79926-vbhfl] [621_1] [TaskRunner:sortSomaticSVInputList] Starting task specification for sub-workflow
[2026-06-05T15:19:40.753333Z] [nf-0c0ea5238c9a4a3c0d7fe7c311e9f96d-79926-vbhfl] [621_1] [TaskManager] Completed sub-workflow task: 'sortDiploidSVInputList' launched from master workflow
[2026-06-05T15:19:40.753523Z] [nf-0c0ea5238c9a4a3c0d7fe7c311e9f96d-79926-vbhfl] [621_1] [TaskRunner:sortCandidateSVInputList] Finished task specification for sub-workflow
[2026-06-05T15:19:40.753784Z] [nf-0c0ea5238c9a4a3c0d7fe7c311e9f96d-79926-vbhfl] [621_1] [TaskRunner:sortSomaticSVInputList] Finished task specification for sub-workflow
[2026-06-05T15:19:40.754138Z] [nf-0c0ea5238c9a4a3c0d7fe7c311e9f96d-79926-vbhfl] [621_1] [TaskManager] Launching command task: 'sort_sortDiploidSV' from master workflow
[2026-06-05T15:19:40.754485Z] [nf-0c0ea5238c9a4a3c0d7fe7c311e9f96d-79926-vbhfl] [621_1] [TaskManager] Completed sub-workflow task: 'sortCandidateSVInputList' launched from master workflow
[2026-06-05T15:19:40.754512Z] [nf-0c0ea5238c9a4a3c0d7fe7c311e9f96d-79926-vbhfl] [621_1] [TaskManager] Completed sub-workflow task: 'sortSomaticSVInputList' launched from master workflow
[2026-06-05T15:19:40.754797Z] [nf-0c0ea5238c9a4a3c0d7fe7c311e9f96d-79926-vbhfl] [621_1] [TaskManager] Launching command task: 'sort_sortCandidateSV' from master workflow
[2026-06-05T15:19:40.755175Z] [nf-0c0ea5238c9a4a3c0d7fe7c311e9f96d-79926-vbhfl] [621_1] [TaskManager] Launching command task: 'sort_sortSomaticSV' from master workflow
[2026-06-05T15:19:40.758091Z] [nf-0c0ea5238c9a4a3c0d7fe7c311e9f96d-79926-vbhfl] [621_1] [TaskRunner:sort_sortDiploidSV] Task initiated on local node
[2026-06-05T15:19:40.759547Z] [nf-0c0ea5238c9a4a3c0d7fe7c311e9f96d-79926-vbhfl] [621_1] [TaskRunner:sort_sortSomaticSV] Task initiated on local node
[2026-06-05T15:19:40.761147Z] [nf-0c0ea5238c9a4a3c0d7fe7c311e9f96d-79926-vbhfl] [621_1] [TaskRunner:sort_sortCandidateSV] Task initiated on local node
[2026-06-05T15:19:40.820089Z] [nf-0c0ea5238c9a4a3c0d7fe7c311e9f96d-79926-vbhfl] [621_1] [TaskManager] Completed command task: 'sort_sortDiploidSV' launched from master workflow
[2026-06-05T15:19:40.820144Z] [nf-0c0ea5238c9a4a3c0d7fe7c311e9f96d-79926-vbhfl] [621_1] [TaskManager] Completed command task: 'sort_sortCandidateSV' launched from master workflow
[2026-06-05T15:19:40.820169Z] [nf-0c0ea5238c9a4a3c0d7fe7c311e9f96d-79926-vbhfl] [621_1] [TaskManager] Completed command task: 'sort_sortSomaticSV' launched from master workflow
[2026-06-05T15:19:40.820467Z] [nf-0c0ea5238c9a4a3c0d7fe7c311e9f96d-79926-vbhfl] [621_1] [TaskManager] Launching command task: 'tabix_sortDiploidSV' from master workflow
[2026-06-05T15:19:40.820856Z] [nf-0c0ea5238c9a4a3c0d7fe7c311e9f96d-79926-vbhfl] [621_1] [TaskManager] Launching command task: 'tabix_sortSomaticSV' from master workflow
[2026-06-05T15:19:40.821142Z] [nf-0c0ea5238c9a4a3c0d7fe7c311e9f96d-79926-vbhfl] [621_1] [TaskManager] Launching command task: 'tabix_sortCandidateSV' from master workflow
[2026-06-05T15:19:40.821457Z] [nf-0c0ea5238c9a4a3c0d7fe7c311e9f96d-79926-vbhfl] [621_1] [TaskManager] Launching command task: 'extractSmallIndels' from master workflow
[2026-06-05T15:19:40.826474Z] [nf-0c0ea5238c9a4a3c0d7fe7c311e9f96d-79926-vbhfl] [621_1] [TaskRunner:extractSmallIndels] Task initiated on local node
[2026-06-05T15:19:40.830342Z] [nf-0c0ea5238c9a4a3c0d7fe7c311e9f96d-79926-vbhfl] [621_1] [TaskRunner:tabix_sortSomaticSV] Task initiated on local node
[2026-06-05T15:19:40.830638Z] [nf-0c0ea5238c9a4a3c0d7fe7c311e9f96d-79926-vbhfl] [621_1] [TaskRunner:tabix_sortDiploidSV] Task initiated on local node
[2026-06-05T15:19:40.831871Z] [nf-0c0ea5238c9a4a3c0d7fe7c311e9f96d-79926-vbhfl] [621_1] [TaskRunner:tabix_sortCandidateSV] Task initiated on local node
[2026-06-05T15:19:40.887616Z] [nf-0c0ea5238c9a4a3c0d7fe7c311e9f96d-79926-vbhfl] [621_1] [TaskManager] Completed command task: 'tabix_sortDiploidSV' launched from master workflow
[2026-06-05T15:19:40.887674Z] [nf-0c0ea5238c9a4a3c0d7fe7c311e9f96d-79926-vbhfl] [621_1] [TaskManager] Completed command task: 'tabix_sortSomaticSV' launched from master workflow
[2026-06-05T15:19:40.887700Z] [nf-0c0ea5238c9a4a3c0d7fe7c311e9f96d-79926-vbhfl] [621_1] [TaskManager] Completed command task: 'tabix_sortCandidateSV' launched from master workflow
[2026-06-05T15:19:40.887725Z] [nf-0c0ea5238c9a4a3c0d7fe7c311e9f96d-79926-vbhfl] [621_1] [TaskManager] Completed command task: 'extractSmallIndels' launched from master workflow
[2026-06-05T15:19:40.887990Z] [nf-0c0ea5238c9a4a3c0d7fe7c311e9f96d-79926-vbhfl] [621_1] [TaskManager] Launching command task: 'extractSmallIndels_tabix' from master workflow
[2026-06-05T15:19:40.891274Z] [nf-0c0ea5238c9a4a3c0d7fe7c311e9f96d-79926-vbhfl] [621_1] [TaskRunner:extractSmallIndels_tabix] Task initiated on local node
[2026-06-05T15:19:40.920117Z] [nf-0c0ea5238c9a4a3c0d7fe7c311e9f96d-79926-vbhfl] [621_1] [TaskManager] Completed command task: 'extractSmallIndels_tabix' launched from master workflow
[2026-06-05T15:19:46.404406Z] [nf-0c0ea5238c9a4a3c0d7fe7c311e9f96d-79926-vbhfl] [621_1] [WorkflowRunner] Manta workflow successfully completed.
[2026-06-05T15:19:46.404406Z] [nf-0c0ea5238c9a4a3c0d7fe7c311e9f96d-79926-vbhfl] [621_1] [WorkflowRunner] 
[2026-06-05T15:19:46.404406Z] [nf-0c0ea5238c9a4a3c0d7fe7c311e9f96d-79926-vbhfl] [621_1] [WorkflowRunner] 	workflow version: 1.6.0
[2026-06-05T15:19:46.404517Z] [nf-0c0ea5238c9a4a3c0d7fe7c311e9f96d-79926-vbhfl] [621_1] [WorkflowRunner] 
[2026-06-05T15:19:46.404524Z] [nf-0c0ea5238c9a4a3c0d7fe7c311e9f96d-79926-vbhfl] [621_1] [WorkflowRunner] Workflow successfully completed all tasks
[2026-06-05T15:19:46.404529Z] [nf-0c0ea5238c9a4a3c0d7fe7c311e9f96d-79926-vbhfl] [621_1] [WorkflowRunner] Elapsed time for full workflow: 33 sec