[W::hts_idx_load2] The index file is older than the data file: /tmp/nxf.XXXX3kpm8K/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.XXXX3kpm8K/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.XXXX3kpm8K/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.XXXX3kpm8K/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.XXXX3kpm8K/xgen-exome-hyb-panel-v2-targets-hg38_AND_altera_v3_targets_postQC_hg38_chr21.bed.gz.tbi
[2026-05-28T23:01:21.851356Z] [nf-a5ab4b79607f853233390cc4e9c72b39-c8591-bpknd] [747_1] [WorkflowRunner] Initiating pyFlow run
[2026-05-28T23:01:21.851958Z] [nf-a5ab4b79607f853233390cc4e9c72b39-c8591-bpknd] [747_1] [WorkflowRunner] pyFlowClientWorkflowClass: MantaWorkflow
[2026-05-28T23:01:21.851972Z] [nf-a5ab4b79607f853233390cc4e9c72b39-c8591-bpknd] [747_1] [WorkflowRunner] pyFlowVersion: 1.1.20
[2026-05-28T23:01:21.851979Z] [nf-a5ab4b79607f853233390cc4e9c72b39-c8591-bpknd] [747_1] [WorkflowRunner] pythonVersion: 2.7.15.final.0
[2026-05-28T23:01:21.851987Z] [nf-a5ab4b79607f853233390cc4e9c72b39-c8591-bpknd] [747_1] [WorkflowRunner] WorkingDir: '/tmp/nxf.XXXX3kpm8K'
[2026-05-28T23:01:21.851992Z] [nf-a5ab4b79607f853233390cc4e9c72b39-c8591-bpknd] [747_1] [WorkflowRunner] ProcessCmdLine: '/var/tmp/manta/runWorkflow.py -m local -j 14'
[2026-05-28T23:01:21.851999Z] [nf-a5ab4b79607f853233390cc4e9c72b39-c8591-bpknd] [747_1] [WorkflowRunner] [RunParameters] mode: local
[2026-05-28T23:01:21.852005Z] [nf-a5ab4b79607f853233390cc4e9c72b39-c8591-bpknd] [747_1] [WorkflowRunner] [RunParameters] nCores: 14
[2026-05-28T23:01:21.852010Z] [nf-a5ab4b79607f853233390cc4e9c72b39-c8591-bpknd] [747_1] [WorkflowRunner] [RunParameters] memMb: 1523801
[2026-05-28T23:01:21.852015Z] [nf-a5ab4b79607f853233390cc4e9c72b39-c8591-bpknd] [747_1] [WorkflowRunner] [RunParameters] dataDir: /var/tmp/manta/workspace/pyflow.data
[2026-05-28T23:01:21.852020Z] [nf-a5ab4b79607f853233390cc4e9c72b39-c8591-bpknd] [747_1] [WorkflowRunner] [RunParameters] isDryRun: False
[2026-05-28T23:01:21.852025Z] [nf-a5ab4b79607f853233390cc4e9c72b39-c8591-bpknd] [747_1] [WorkflowRunner] [RunParameters] isContinue: False
[2026-05-28T23:01:21.852030Z] [nf-a5ab4b79607f853233390cc4e9c72b39-c8591-bpknd] [747_1] [WorkflowRunner] [RunParameters] isForceContinue: True
[2026-05-28T23:01:21.852035Z] [nf-a5ab4b79607f853233390cc4e9c72b39-c8591-bpknd] [747_1] [WorkflowRunner] [RunParameters] mailTo: ''
[2026-05-28T23:01:21.852427Z] [nf-a5ab4b79607f853233390cc4e9c72b39-c8591-bpknd] [747_1] [TaskRunner:masterWorkflow] Starting task specification for master workflow
[2026-05-28T23:01:21.852516Z] [nf-a5ab4b79607f853233390cc4e9c72b39-c8591-bpknd] [747_1] [MantaWorkflow] Initiating Manta workflow version: 1.6.0
[2026-05-28T23:01:21.852749Z] [nf-a5ab4b79607f853233390cc4e9c72b39-c8591-bpknd] [747_1] [WorkflowRunner] Adding command task 'getAlignmentStats_makeTmpDir' to master workflow
[2026-05-28T23:01:21.853226Z] [nf-a5ab4b79607f853233390cc4e9c72b39-c8591-bpknd] [747_1] [WorkflowRunner] Adding command task 'getAlignmentStats_generateStats_000' to master workflow
[2026-05-28T23:01:21.853604Z] [nf-a5ab4b79607f853233390cc4e9c72b39-c8591-bpknd] [747_1] [TaskManager] Launching command task: 'getAlignmentStats_makeTmpDir' from master workflow
[2026-05-28T23:01:21.853793Z] [nf-a5ab4b79607f853233390cc4e9c72b39-c8591-bpknd] [747_1] [WorkflowRunner] Adding command task 'getAlignmentStats_generateStats_001' to master workflow
[2026-05-28T23:01:21.854184Z] [nf-a5ab4b79607f853233390cc4e9c72b39-c8591-bpknd] [747_1] [WorkflowRunner] Adding command task 'getAlignmentStats_mergeStats' to master workflow
[2026-05-28T23:01:21.854590Z] [nf-a5ab4b79607f853233390cc4e9c72b39-c8591-bpknd] [747_1] [WorkflowRunner] Adding command task 'getAlignmentStats_removeTmpDir' to master workflow
[2026-05-28T23:01:21.854757Z] [nf-a5ab4b79607f853233390cc4e9c72b39-c8591-bpknd] [747_1] [WorkflowRunner] Adding command task 'summarizeStats' to master workflow
[2026-05-28T23:01:21.854923Z] [nf-a5ab4b79607f853233390cc4e9c72b39-c8591-bpknd] [747_1] [WorkflowRunner] Adding command task 'makeGraphTmpDir' to master workflow
[2026-05-28T23:01:21.856952Z] [nf-a5ab4b79607f853233390cc4e9c72b39-c8591-bpknd] [747_1] [TaskRunner:getAlignmentStats_makeTmpDir] Task initiated on local node
[2026-05-28T23:01:21.887964Z] [nf-a5ab4b79607f853233390cc4e9c72b39-c8591-bpknd] [747_1] [TaskManager] Completed command task: 'getAlignmentStats_makeTmpDir' launched from master workflow
[2026-05-28T23:01:21.888409Z] [nf-a5ab4b79607f853233390cc4e9c72b39-c8591-bpknd] [747_1] [TaskManager] Launching command task: 'getAlignmentStats_generateStats_000' from master workflow
[2026-05-28T23:01:21.888900Z] [nf-a5ab4b79607f853233390cc4e9c72b39-c8591-bpknd] [747_1] [TaskManager] Launching command task: 'getAlignmentStats_generateStats_001' from master workflow
[2026-05-28T23:01:21.891921Z] [nf-a5ab4b79607f853233390cc4e9c72b39-c8591-bpknd] [747_1] [TaskRunner:getAlignmentStats_generateStats_000] Task initiated on local node
[2026-05-28T23:01:21.892688Z] [nf-a5ab4b79607f853233390cc4e9c72b39-c8591-bpknd] [747_1] [TaskRunner:getAlignmentStats_generateStats_001] Task initiated on local node
[2026-05-28T23:01:22.177808Z] [nf-a5ab4b79607f853233390cc4e9c72b39-c8591-bpknd] [747_1] [WorkflowRunner] Adding command task 'makeLocusGraph_chromId_020_chr21-5117103-5117231_0000_to_chromId_020_chr21-39269899-39270033_0000' to master workflow
[2026-05-28T23:01:22.475758Z] [nf-a5ab4b79607f853233390cc4e9c72b39-c8591-bpknd] [747_1] [WorkflowRunner] Adding command task 'makeLocusGraph_chromId_020_chr21-39270283-39270433_0000_to_chromId_020_chr21-46664295-46664374_0000' to master workflow
[2026-05-28T23:01:22.476090Z] [nf-a5ab4b79607f853233390cc4e9c72b39-c8591-bpknd] [747_1] [WorkflowRunner] Adding sub-workflow task 'mergeLocusGraphInputList' to master workflow
[2026-05-28T23:01:22.476203Z] [nf-a5ab4b79607f853233390cc4e9c72b39-c8591-bpknd] [747_1] [WorkflowRunner] Adding command task 'mergeLocusGraph' to master workflow
[2026-05-28T23:01:22.476291Z] [nf-a5ab4b79607f853233390cc4e9c72b39-c8591-bpknd] [747_1] [WorkflowRunner] Adding command task 'checkLocusGraph' to master workflow
[2026-05-28T23:01:22.476376Z] [nf-a5ab4b79607f853233390cc4e9c72b39-c8591-bpknd] [747_1] [WorkflowRunner] Adding command task 'removeTmpDir' to master workflow
[2026-05-28T23:01:22.476459Z] [nf-a5ab4b79607f853233390cc4e9c72b39-c8591-bpknd] [747_1] [WorkflowRunner] Adding command task 'locusGraphStats' to master workflow
[2026-05-28T23:01:22.476761Z] [nf-a5ab4b79607f853233390cc4e9c72b39-c8591-bpknd] [747_1] [WorkflowRunner] Adding command task 'makeHyGenDir' to master workflow
[2026-05-28T23:01:22.476912Z] [nf-a5ab4b79607f853233390cc4e9c72b39-c8591-bpknd] [747_1] [WorkflowRunner] Adding command task 'generateCandidateSV_0000' to master workflow
[2026-05-28T23:01:22.477027Z] [nf-a5ab4b79607f853233390cc4e9c72b39-c8591-bpknd] [747_1] [WorkflowRunner] Adding command task 'fixVcfHeader_sortCandidateSV' to master workflow
[2026-05-28T23:01:22.477159Z] [nf-a5ab4b79607f853233390cc4e9c72b39-c8591-bpknd] [747_1] [WorkflowRunner] Adding sub-workflow task 'sortCandidateSVInputList' to master workflow
[2026-05-28T23:01:22.477240Z] [nf-a5ab4b79607f853233390cc4e9c72b39-c8591-bpknd] [747_1] [WorkflowRunner] Adding command task 'sort_sortCandidateSV' to master workflow
[2026-05-28T23:01:22.477320Z] [nf-a5ab4b79607f853233390cc4e9c72b39-c8591-bpknd] [747_1] [WorkflowRunner] Adding command task 'tabix_sortCandidateSV' to master workflow
[2026-05-28T23:01:22.477402Z] [nf-a5ab4b79607f853233390cc4e9c72b39-c8591-bpknd] [747_1] [WorkflowRunner] Adding command task 'fixVcfHeader_sortDiploidSV' to master workflow
[2026-05-28T23:01:22.477521Z] [nf-a5ab4b79607f853233390cc4e9c72b39-c8591-bpknd] [747_1] [WorkflowRunner] Adding sub-workflow task 'sortDiploidSVInputList' to master workflow
[2026-05-28T23:01:22.477610Z] [nf-a5ab4b79607f853233390cc4e9c72b39-c8591-bpknd] [747_1] [WorkflowRunner] Adding command task 'sort_sortDiploidSV' to master workflow
[2026-05-28T23:01:22.477691Z] [nf-a5ab4b79607f853233390cc4e9c72b39-c8591-bpknd] [747_1] [WorkflowRunner] Adding command task 'tabix_sortDiploidSV' to master workflow
[2026-05-28T23:01:22.477773Z] [nf-a5ab4b79607f853233390cc4e9c72b39-c8591-bpknd] [747_1] [WorkflowRunner] Adding command task 'fixVcfHeader_sortSomaticSV' to master workflow
[2026-05-28T23:01:22.477892Z] [nf-a5ab4b79607f853233390cc4e9c72b39-c8591-bpknd] [747_1] [WorkflowRunner] Adding sub-workflow task 'sortSomaticSVInputList' to master workflow
[2026-05-28T23:01:22.477971Z] [nf-a5ab4b79607f853233390cc4e9c72b39-c8591-bpknd] [747_1] [WorkflowRunner] Adding command task 'sort_sortSomaticSV' to master workflow
[2026-05-28T23:01:22.478059Z] [nf-a5ab4b79607f853233390cc4e9c72b39-c8591-bpknd] [747_1] [WorkflowRunner] Adding command task 'tabix_sortSomaticSV' to master workflow
[2026-05-28T23:01:22.478148Z] [nf-a5ab4b79607f853233390cc4e9c72b39-c8591-bpknd] [747_1] [WorkflowRunner] Adding command task 'extractSmallIndels' to master workflow
[2026-05-28T23:01:22.478225Z] [nf-a5ab4b79607f853233390cc4e9c72b39-c8591-bpknd] [747_1] [WorkflowRunner] Adding command task 'extractSmallIndels_tabix' to master workflow
[2026-05-28T23:01:22.478342Z] [nf-a5ab4b79607f853233390cc4e9c72b39-c8591-bpknd] [747_1] [WorkflowRunner] Adding sub-workflow task 'sortEdgeRuntimeLogsInputList' to master workflow
[2026-05-28T23:01:22.478429Z] [nf-a5ab4b79607f853233390cc4e9c72b39-c8591-bpknd] [747_1] [WorkflowRunner] Adding command task 'sortEdgeRuntimeLogs' to master workflow
[2026-05-28T23:01:22.478479Z] [nf-a5ab4b79607f853233390cc4e9c72b39-c8591-bpknd] [747_1] [TaskRunner:masterWorkflow] Finished task specification for master workflow
[2026-05-28T23:01:26.237703Z] [nf-a5ab4b79607f853233390cc4e9c72b39-c8591-bpknd] [747_1] [TaskManager] Completed command task: 'getAlignmentStats_generateStats_000' launched from master workflow
[2026-05-28T23:01:39.157031Z] [nf-a5ab4b79607f853233390cc4e9c72b39-c8591-bpknd] [747_1] [TaskManager] Completed command task: 'getAlignmentStats_generateStats_001' launched from master workflow
[2026-05-28T23:01:39.158076Z] [nf-a5ab4b79607f853233390cc4e9c72b39-c8591-bpknd] [747_1] [TaskManager] Launching command task: 'getAlignmentStats_mergeStats' from master workflow
[2026-05-28T23:01:39.161344Z] [nf-a5ab4b79607f853233390cc4e9c72b39-c8591-bpknd] [747_1] [TaskRunner:getAlignmentStats_mergeStats] Task initiated on local node
[2026-05-28T23:01:39.222230Z] [nf-a5ab4b79607f853233390cc4e9c72b39-c8591-bpknd] [747_1] [TaskManager] Completed command task: 'getAlignmentStats_mergeStats' launched from master workflow
[2026-05-28T23:01:39.222907Z] [nf-a5ab4b79607f853233390cc4e9c72b39-c8591-bpknd] [747_1] [TaskManager] Launching command task: 'summarizeStats' from master workflow
[2026-05-28T23:01:39.223173Z] [nf-a5ab4b79607f853233390cc4e9c72b39-c8591-bpknd] [747_1] [TaskManager] Launching command task: 'makeGraphTmpDir' from master workflow
[2026-05-28T23:01:39.223771Z] [nf-a5ab4b79607f853233390cc4e9c72b39-c8591-bpknd] [747_1] [TaskManager] Launching command task: 'getAlignmentStats_removeTmpDir' from master workflow
[2026-05-28T23:01:39.227248Z] [nf-a5ab4b79607f853233390cc4e9c72b39-c8591-bpknd] [747_1] [TaskRunner:summarizeStats] Task initiated on local node
[2026-05-28T23:01:39.229047Z] [nf-a5ab4b79607f853233390cc4e9c72b39-c8591-bpknd] [747_1] [TaskRunner:makeGraphTmpDir] Task initiated on local node
[2026-05-28T23:01:39.230135Z] [nf-a5ab4b79607f853233390cc4e9c72b39-c8591-bpknd] [747_1] [TaskRunner:getAlignmentStats_removeTmpDir] Task initiated on local node
[2026-05-28T23:01:39.289912Z] [nf-a5ab4b79607f853233390cc4e9c72b39-c8591-bpknd] [747_1] [TaskManager] Completed command task: 'summarizeStats' launched from master workflow
[2026-05-28T23:01:39.290004Z] [nf-a5ab4b79607f853233390cc4e9c72b39-c8591-bpknd] [747_1] [TaskManager] Completed command task: 'makeGraphTmpDir' launched from master workflow
[2026-05-28T23:01:39.290043Z] [nf-a5ab4b79607f853233390cc4e9c72b39-c8591-bpknd] [747_1] [TaskManager] Completed command task: 'getAlignmentStats_removeTmpDir' launched from master workflow
[2026-05-28T23:01:39.290675Z] [nf-a5ab4b79607f853233390cc4e9c72b39-c8591-bpknd] [747_1] [TaskManager] Launching command task: 'makeLocusGraph_chromId_020_chr21-5117103-5117231_0000_to_chromId_020_chr21-39269899-39270033_0000' from master workflow
[2026-05-28T23:01:39.291003Z] [nf-a5ab4b79607f853233390cc4e9c72b39-c8591-bpknd] [747_1] [TaskManager] Launching command task: 'makeLocusGraph_chromId_020_chr21-39270283-39270433_0000_to_chromId_020_chr21-46664295-46664374_0000' from master workflow
[2026-05-28T23:01:39.314055Z] [nf-a5ab4b79607f853233390cc4e9c72b39-c8591-bpknd] [747_1] [TaskRunner:makeLocusGraph_chromId_020_chr21-5117103-5117231_0000_to_chromId_020_chr21-39269899-39270033_0000] Task initiated on local node
[2026-05-28T23:01:39.317014Z] [nf-a5ab4b79607f853233390cc4e9c72b39-c8591-bpknd] [747_1] [TaskRunner:makeLocusGraph_chromId_020_chr21-39270283-39270433_0000_to_chromId_020_chr21-46664295-46664374_0000] Task initiated on local node
[2026-05-28T23:02:01.059185Z] [nf-a5ab4b79607f853233390cc4e9c72b39-c8591-bpknd] [747_1] [TaskManager] Completed command task: 'makeLocusGraph_chromId_020_chr21-5117103-5117231_0000_to_chromId_020_chr21-39269899-39270033_0000' launched from master workflow
[2026-05-28T23:02:14.329535Z] [nf-a5ab4b79607f853233390cc4e9c72b39-c8591-bpknd] [747_1] [TaskManager] Completed command task: 'makeLocusGraph_chromId_020_chr21-39270283-39270433_0000_to_chromId_020_chr21-46664295-46664374_0000' launched from master workflow
[2026-05-28T23:02:14.330243Z] [nf-a5ab4b79607f853233390cc4e9c72b39-c8591-bpknd] [747_1] [TaskManager] Launching sub-workflow task: 'mergeLocusGraphInputList' from master workflow
[2026-05-28T23:02:14.330506Z] [nf-a5ab4b79607f853233390cc4e9c72b39-c8591-bpknd] [747_1] [TaskRunner:mergeLocusGraphInputList] Starting task specification for sub-workflow
[2026-05-28T23:02:14.330783Z] [nf-a5ab4b79607f853233390cc4e9c72b39-c8591-bpknd] [747_1] [TaskRunner:mergeLocusGraphInputList] Finished task specification for sub-workflow
[2026-05-28T23:02:14.331821Z] [nf-a5ab4b79607f853233390cc4e9c72b39-c8591-bpknd] [747_1] [TaskManager] Completed sub-workflow task: 'mergeLocusGraphInputList' launched from master workflow
[2026-05-28T23:02:14.332160Z] [nf-a5ab4b79607f853233390cc4e9c72b39-c8591-bpknd] [747_1] [TaskManager] Launching command task: 'mergeLocusGraph' from master workflow
[2026-05-28T23:02:14.334870Z] [nf-a5ab4b79607f853233390cc4e9c72b39-c8591-bpknd] [747_1] [TaskRunner:mergeLocusGraph] Task initiated on local node
[2026-05-28T23:02:14.396017Z] [nf-a5ab4b79607f853233390cc4e9c72b39-c8591-bpknd] [747_1] [TaskManager] Completed command task: 'mergeLocusGraph' launched from master workflow
[2026-05-28T23:02:14.396568Z] [nf-a5ab4b79607f853233390cc4e9c72b39-c8591-bpknd] [747_1] [TaskManager] Launching command task: 'locusGraphStats' from master workflow
[2026-05-28T23:02:14.396925Z] [nf-a5ab4b79607f853233390cc4e9c72b39-c8591-bpknd] [747_1] [TaskManager] Launching command task: 'checkLocusGraph' from master workflow
[2026-05-28T23:02:14.397271Z] [nf-a5ab4b79607f853233390cc4e9c72b39-c8591-bpknd] [747_1] [TaskManager] Launching command task: 'removeTmpDir' from master workflow
[2026-05-28T23:02:14.400963Z] [nf-a5ab4b79607f853233390cc4e9c72b39-c8591-bpknd] [747_1] [TaskRunner:checkLocusGraph] Task initiated on local node
[2026-05-28T23:02:14.402417Z] [nf-a5ab4b79607f853233390cc4e9c72b39-c8591-bpknd] [747_1] [TaskRunner:locusGraphStats] Task initiated on local node
[2026-05-28T23:02:14.430394Z] [nf-a5ab4b79607f853233390cc4e9c72b39-c8591-bpknd] [747_1] [TaskManager] Completed command task: 'checkLocusGraph' launched from master workflow
[2026-05-28T23:02:14.430812Z] [nf-a5ab4b79607f853233390cc4e9c72b39-c8591-bpknd] [747_1] [TaskManager] Launching command task: 'makeHyGenDir' from master workflow
[2026-05-28T23:02:14.432341Z] [nf-a5ab4b79607f853233390cc4e9c72b39-c8591-bpknd] [747_1] [TaskRunner:removeTmpDir] Task initiated on local node
[2026-05-28T23:02:14.433303Z] [nf-a5ab4b79607f853233390cc4e9c72b39-c8591-bpknd] [747_1] [TaskRunner:makeHyGenDir] Task initiated on local node
[2026-05-28T23:02:14.434701Z] [nf-a5ab4b79607f853233390cc4e9c72b39-c8591-bpknd] [747_1] [TaskManager] Completed command task: 'locusGraphStats' launched from master workflow
[2026-05-28T23:02:14.434767Z] [nf-a5ab4b79607f853233390cc4e9c72b39-c8591-bpknd] [747_1] [TaskManager] Completed command task: 'removeTmpDir' launched from master workflow
[2026-05-28T23:02:14.466508Z] [nf-a5ab4b79607f853233390cc4e9c72b39-c8591-bpknd] [747_1] [TaskManager] Completed command task: 'makeHyGenDir' launched from master workflow
[2026-05-28T23:02:14.467012Z] [nf-a5ab4b79607f853233390cc4e9c72b39-c8591-bpknd] [747_1] [TaskManager] Launching command task: 'generateCandidateSV_0000' from master workflow
[2026-05-28T23:02:14.470001Z] [nf-a5ab4b79607f853233390cc4e9c72b39-c8591-bpknd] [747_1] [TaskRunner:generateCandidateSV_0000] Task initiated on local node
[2026-05-28T23:02:21.634847Z] [nf-a5ab4b79607f853233390cc4e9c72b39-c8591-bpknd] [747_1] [TaskManager] Completed command task: 'generateCandidateSV_0000' launched from master workflow
[2026-05-28T23:02:21.635197Z] [nf-a5ab4b79607f853233390cc4e9c72b39-c8591-bpknd] [747_1] [TaskManager] Launching sub-workflow task: 'sortEdgeRuntimeLogsInputList' from master workflow
[2026-05-28T23:02:21.635455Z] [nf-a5ab4b79607f853233390cc4e9c72b39-c8591-bpknd] [747_1] [TaskRunner:sortEdgeRuntimeLogsInputList] Starting task specification for sub-workflow
[2026-05-28T23:02:21.635770Z] [nf-a5ab4b79607f853233390cc4e9c72b39-c8591-bpknd] [747_1] [TaskManager] Launching command task: 'fixVcfHeader_sortSomaticSV' from master workflow
[2026-05-28T23:02:21.636093Z] [nf-a5ab4b79607f853233390cc4e9c72b39-c8591-bpknd] [747_1] [TaskRunner:sortEdgeRuntimeLogsInputList] Finished task specification for sub-workflow
[2026-05-28T23:02:21.636497Z] [nf-a5ab4b79607f853233390cc4e9c72b39-c8591-bpknd] [747_1] [TaskManager] Launching command task: 'fixVcfHeader_sortDiploidSV' from master workflow
[2026-05-28T23:02:21.637048Z] [nf-a5ab4b79607f853233390cc4e9c72b39-c8591-bpknd] [747_1] [TaskManager] Launching command task: 'fixVcfHeader_sortCandidateSV' from master workflow
[2026-05-28T23:02:21.640644Z] [nf-a5ab4b79607f853233390cc4e9c72b39-c8591-bpknd] [747_1] [TaskRunner:fixVcfHeader_sortSomaticSV] Task initiated on local node
[2026-05-28T23:02:21.641107Z] [nf-a5ab4b79607f853233390cc4e9c72b39-c8591-bpknd] [747_1] [TaskManager] Completed sub-workflow task: 'sortEdgeRuntimeLogsInputList' launched from master workflow
[2026-05-28T23:02:21.641428Z] [nf-a5ab4b79607f853233390cc4e9c72b39-c8591-bpknd] [747_1] [TaskRunner:fixVcfHeader_sortDiploidSV] Task initiated on local node
[2026-05-28T23:02:21.643221Z] [nf-a5ab4b79607f853233390cc4e9c72b39-c8591-bpknd] [747_1] [TaskManager] Launching command task: 'sortEdgeRuntimeLogs' from master workflow
[2026-05-28T23:02:21.643776Z] [nf-a5ab4b79607f853233390cc4e9c72b39-c8591-bpknd] [747_1] [TaskRunner:fixVcfHeader_sortCandidateSV] Task initiated on local node
[2026-05-28T23:02:21.646112Z] [nf-a5ab4b79607f853233390cc4e9c72b39-c8591-bpknd] [747_1] [TaskRunner:sortEdgeRuntimeLogs] Task initiated on local node
[2026-05-28T23:02:21.707326Z] [nf-a5ab4b79607f853233390cc4e9c72b39-c8591-bpknd] [747_1] [TaskManager] Completed command task: 'fixVcfHeader_sortCandidateSV' launched from master workflow
[2026-05-28T23:02:21.707383Z] [nf-a5ab4b79607f853233390cc4e9c72b39-c8591-bpknd] [747_1] [TaskManager] Completed command task: 'fixVcfHeader_sortSomaticSV' launched from master workflow
[2026-05-28T23:02:21.707410Z] [nf-a5ab4b79607f853233390cc4e9c72b39-c8591-bpknd] [747_1] [TaskManager] Completed command task: 'sortEdgeRuntimeLogs' launched from master workflow
[2026-05-28T23:02:21.707435Z] [nf-a5ab4b79607f853233390cc4e9c72b39-c8591-bpknd] [747_1] [TaskManager] Completed command task: 'fixVcfHeader_sortDiploidSV' launched from master workflow
[2026-05-28T23:02:21.707689Z] [nf-a5ab4b79607f853233390cc4e9c72b39-c8591-bpknd] [747_1] [TaskManager] Launching sub-workflow task: 'sortCandidateSVInputList' from master workflow
[2026-05-28T23:02:21.707853Z] [nf-a5ab4b79607f853233390cc4e9c72b39-c8591-bpknd] [747_1] [TaskManager] Launching sub-workflow task: 'sortDiploidSVInputList' from master workflow
[2026-05-28T23:02:21.707950Z] [nf-a5ab4b79607f853233390cc4e9c72b39-c8591-bpknd] [747_1] [TaskRunner:sortCandidateSVInputList] Starting task specification for sub-workflow
[2026-05-28T23:02:21.708147Z] [nf-a5ab4b79607f853233390cc4e9c72b39-c8591-bpknd] [747_1] [TaskRunner:sortDiploidSVInputList] Starting task specification for sub-workflow
[2026-05-28T23:02:21.708207Z] [nf-a5ab4b79607f853233390cc4e9c72b39-c8591-bpknd] [747_1] [TaskManager] Launching sub-workflow task: 'sortSomaticSVInputList' from master workflow
[2026-05-28T23:02:21.708407Z] [nf-a5ab4b79607f853233390cc4e9c72b39-c8591-bpknd] [747_1] [TaskRunner:sortCandidateSVInputList] Finished task specification for sub-workflow
[2026-05-28T23:02:21.708660Z] [nf-a5ab4b79607f853233390cc4e9c72b39-c8591-bpknd] [747_1] [TaskRunner:sortSomaticSVInputList] Starting task specification for sub-workflow
[2026-05-28T23:02:21.708743Z] [nf-a5ab4b79607f853233390cc4e9c72b39-c8591-bpknd] [747_1] [TaskRunner:sortDiploidSVInputList] Finished task specification for sub-workflow
[2026-05-28T23:02:21.708959Z] [nf-a5ab4b79607f853233390cc4e9c72b39-c8591-bpknd] [747_1] [TaskRunner:sortSomaticSVInputList] Finished task specification for sub-workflow
[2026-05-28T23:02:21.709649Z] [nf-a5ab4b79607f853233390cc4e9c72b39-c8591-bpknd] [747_1] [TaskManager] Completed sub-workflow task: 'sortCandidateSVInputList' launched from master workflow
[2026-05-28T23:02:21.709688Z] [nf-a5ab4b79607f853233390cc4e9c72b39-c8591-bpknd] [747_1] [TaskManager] Completed sub-workflow task: 'sortDiploidSVInputList' launched from master workflow
[2026-05-28T23:02:21.709711Z] [nf-a5ab4b79607f853233390cc4e9c72b39-c8591-bpknd] [747_1] [TaskManager] Completed sub-workflow task: 'sortSomaticSVInputList' launched from master workflow
[2026-05-28T23:02:21.709921Z] [nf-a5ab4b79607f853233390cc4e9c72b39-c8591-bpknd] [747_1] [TaskManager] Launching command task: 'sort_sortCandidateSV' from master workflow
[2026-05-28T23:02:21.710210Z] [nf-a5ab4b79607f853233390cc4e9c72b39-c8591-bpknd] [747_1] [TaskManager] Launching command task: 'sort_sortDiploidSV' from master workflow
[2026-05-28T23:02:21.710534Z] [nf-a5ab4b79607f853233390cc4e9c72b39-c8591-bpknd] [747_1] [TaskManager] Launching command task: 'sort_sortSomaticSV' from master workflow
[2026-05-28T23:02:21.715032Z] [nf-a5ab4b79607f853233390cc4e9c72b39-c8591-bpknd] [747_1] [TaskRunner:sort_sortDiploidSV] Task initiated on local node
[2026-05-28T23:02:21.715363Z] [nf-a5ab4b79607f853233390cc4e9c72b39-c8591-bpknd] [747_1] [TaskRunner:sort_sortSomaticSV] Task initiated on local node
[2026-05-28T23:02:21.763503Z] [nf-a5ab4b79607f853233390cc4e9c72b39-c8591-bpknd] [747_1] [TaskRunner:sort_sortCandidateSV] Task initiated on local node
[2026-05-28T23:02:21.775805Z] [nf-a5ab4b79607f853233390cc4e9c72b39-c8591-bpknd] [747_1] [TaskManager] Completed command task: 'sort_sortCandidateSV' launched from master workflow
[2026-05-28T23:02:21.775907Z] [nf-a5ab4b79607f853233390cc4e9c72b39-c8591-bpknd] [747_1] [TaskManager] Completed command task: 'sort_sortSomaticSV' launched from master workflow
[2026-05-28T23:02:21.776169Z] [nf-a5ab4b79607f853233390cc4e9c72b39-c8591-bpknd] [747_1] [TaskManager] Launching command task: 'tabix_sortCandidateSV' from master workflow
[2026-05-28T23:02:21.776424Z] [nf-a5ab4b79607f853233390cc4e9c72b39-c8591-bpknd] [747_1] [TaskManager] Launching command task: 'extractSmallIndels' from master workflow
[2026-05-28T23:02:21.776807Z] [nf-a5ab4b79607f853233390cc4e9c72b39-c8591-bpknd] [747_1] [TaskManager] Launching command task: 'tabix_sortSomaticSV' from master workflow
[2026-05-28T23:02:21.781045Z] [nf-a5ab4b79607f853233390cc4e9c72b39-c8591-bpknd] [747_1] [TaskRunner:extractSmallIndels] Task initiated on local node
[2026-05-28T23:02:21.781242Z] [nf-a5ab4b79607f853233390cc4e9c72b39-c8591-bpknd] [747_1] [TaskRunner:tabix_sortCandidateSV] Task initiated on local node
[2026-05-28T23:02:21.781930Z] [nf-a5ab4b79607f853233390cc4e9c72b39-c8591-bpknd] [747_1] [TaskRunner:tabix_sortSomaticSV] Task initiated on local node
[2026-05-28T23:02:21.785175Z] [nf-a5ab4b79607f853233390cc4e9c72b39-c8591-bpknd] [747_1] [TaskManager] Completed command task: 'sort_sortDiploidSV' launched from master workflow
[2026-05-28T23:02:21.785448Z] [nf-a5ab4b79607f853233390cc4e9c72b39-c8591-bpknd] [747_1] [TaskManager] Launching command task: 'tabix_sortDiploidSV' from master workflow
[2026-05-28T23:02:21.788468Z] [nf-a5ab4b79607f853233390cc4e9c72b39-c8591-bpknd] [747_1] [TaskRunner:tabix_sortDiploidSV] Task initiated on local node
[2026-05-28T23:02:21.817540Z] [nf-a5ab4b79607f853233390cc4e9c72b39-c8591-bpknd] [747_1] [TaskManager] Completed command task: 'tabix_sortCandidateSV' launched from master workflow
[2026-05-28T23:02:21.821019Z] [nf-a5ab4b79607f853233390cc4e9c72b39-c8591-bpknd] [747_1] [TaskManager] Completed command task: 'tabix_sortSomaticSV' launched from master workflow
[2026-05-28T23:02:21.822430Z] [nf-a5ab4b79607f853233390cc4e9c72b39-c8591-bpknd] [747_1] [TaskManager] Completed command task: 'extractSmallIndels' launched from master workflow
[2026-05-28T23:02:21.822671Z] [nf-a5ab4b79607f853233390cc4e9c72b39-c8591-bpknd] [747_1] [TaskManager] Launching command task: 'extractSmallIndels_tabix' from master workflow
[2026-05-28T23:02:21.825403Z] [nf-a5ab4b79607f853233390cc4e9c72b39-c8591-bpknd] [747_1] [TaskRunner:extractSmallIndels_tabix] Task initiated on local node
[2026-05-28T23:02:21.826494Z] [nf-a5ab4b79607f853233390cc4e9c72b39-c8591-bpknd] [747_1] [TaskManager] Completed command task: 'tabix_sortDiploidSV' launched from master workflow
[2026-05-28T23:02:21.858158Z] [nf-a5ab4b79607f853233390cc4e9c72b39-c8591-bpknd] [747_1] [TaskManager] Completed command task: 'extractSmallIndels_tabix' launched from master workflow
[2026-05-28T23:02:25.627200Z] [nf-a5ab4b79607f853233390cc4e9c72b39-c8591-bpknd] [747_1] [WorkflowRunner] Manta workflow successfully completed.
[2026-05-28T23:02:25.627200Z] [nf-a5ab4b79607f853233390cc4e9c72b39-c8591-bpknd] [747_1] [WorkflowRunner] 
[2026-05-28T23:02:25.627200Z] [nf-a5ab4b79607f853233390cc4e9c72b39-c8591-bpknd] [747_1] [WorkflowRunner] 	workflow version: 1.6.0
[2026-05-28T23:02:25.627278Z] [nf-a5ab4b79607f853233390cc4e9c72b39-c8591-bpknd] [747_1] [WorkflowRunner] 
[2026-05-28T23:02:25.627285Z] [nf-a5ab4b79607f853233390cc4e9c72b39-c8591-bpknd] [747_1] [WorkflowRunner] Workflow successfully completed all tasks
[2026-05-28T23:02:25.627291Z] [nf-a5ab4b79607f853233390cc4e9c72b39-c8591-bpknd] [747_1] [WorkflowRunner] Elapsed time for full workflow: 63 sec