File Info

Filename
.command.log
Full Path
s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/8d/b2bac87c27fd07aed858bdea31588d/.command.log
Size
63.3 KB
Task
DAQ:CONTROL_VARIANT_CALLING:CONTROL_SOMATIC_VC:BAM_VARIANT_CALLING_SOMATIC_STRELKA:STRELKA_SOMATIC (positive_somatic_control_1;chr19_15162349-15162662.bed)
Attempt

Content

View in new tab 
  Downloading: s3://natera-platform-sandbox/pipeline-resources/ngi-igenomes/igenomes/Homo_sapiens/GATK/GRCh38/Sequence/WholeGenomeFasta/Homo_sapiens_assembly38.fasta
  Downloading: s3://natera-platform-sandbox/pipeline-resources/AIH/dna_daq/stored-normals/reference-NA12878-downsampled-500k.bam
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/6c/02718e86eff8a2d9a131a839cf928e/HCC1395_tumor.recalibrated.bam.bai
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/8d/b2bac87c27fd07aed858bdea31588d/.command.sh
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/6c/02718e86eff8a2d9a131a839cf928e/HCC1395_tumor.recalibrated.bam
  Downloading: s3://natera-platform-sandbox/pipeline-resources/ngi-igenomes/igenomes/Homo_sapiens/GATK/GRCh38/Annotation/intervals/altera_padded_intervals/scatter/chr19_15162349-15162662.bed.gz.tbi
  Downloading: s3://natera-platform-sandbox/pipeline-resources/ngi-igenomes/igenomes/Homo_sapiens/GATK/GRCh38/Sequence/WholeGenomeFasta/Homo_sapiens_assembly38.fasta.fai
  Downloading: s3://natera-platform-sandbox/pipeline-resources/AIH/dna_daq/stored-normals/reference-NA12878-downsampled-500k.bam.bai
  Downloading: s3://natera-platform-sandbox/pipeline-resources/ngi-igenomes/igenomes/Homo_sapiens/GATK/GRCh38/Annotation/intervals/altera_padded_intervals/scatter/chr19_15162349-15162662.bed.gz
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/8d/b2bac87c27fd07aed858bdea31588d/.command.run
==> STAGING COMPLETE (10 inputs)


Successfully created workflow run script.
To execute the workflow, run the following script and set appropriate options:

/var/tmp/strelka/runWorkflow.py
[2026-05-28T05:36:12.661194Z] [nf-8db2bac87c27fd07aed858bdea31588d-51bc2-68mhs] [609_1] [WorkflowRunner] Initiating pyFlow run
[2026-05-28T05:36:12.663516Z] [nf-8db2bac87c27fd07aed858bdea31588d-51bc2-68mhs] [609_1] [WorkflowRunner] pyFlowClientWorkflowClass: StrelkaSomaticWorkflow
[2026-05-28T05:36:12.663536Z] [nf-8db2bac87c27fd07aed858bdea31588d-51bc2-68mhs] [609_1] [WorkflowRunner] pyFlowVersion: 1.1.20
[2026-05-28T05:36:12.663540Z] [nf-8db2bac87c27fd07aed858bdea31588d-51bc2-68mhs] [609_1] [WorkflowRunner] pythonVersion: 2.7.15.final.0
[2026-05-28T05:36:12.663544Z] [nf-8db2bac87c27fd07aed858bdea31588d-51bc2-68mhs] [609_1] [WorkflowRunner] WorkingDir: '/tmp/nxf.XXXXA0DCtm'
[2026-05-28T05:36:12.663548Z] [nf-8db2bac87c27fd07aed858bdea31588d-51bc2-68mhs] [609_1] [WorkflowRunner] ProcessCmdLine: '/var/tmp/strelka/runWorkflow.py -m local -j 8'
[2026-05-28T05:36:12.663553Z] [nf-8db2bac87c27fd07aed858bdea31588d-51bc2-68mhs] [609_1] [WorkflowRunner] [RunParameters] mode: local
[2026-05-28T05:36:12.663557Z] [nf-8db2bac87c27fd07aed858bdea31588d-51bc2-68mhs] [609_1] [WorkflowRunner] [RunParameters] nCores: 8
[2026-05-28T05:36:12.663560Z] [nf-8db2bac87c27fd07aed858bdea31588d-51bc2-68mhs] [609_1] [WorkflowRunner] [RunParameters] memMb: 3047507
[2026-05-28T05:36:12.663564Z] [nf-8db2bac87c27fd07aed858bdea31588d-51bc2-68mhs] [609_1] [WorkflowRunner] [RunParameters] dataDir: /var/tmp/strelka/workspace/pyflow.data
[2026-05-28T05:36:12.663568Z] [nf-8db2bac87c27fd07aed858bdea31588d-51bc2-68mhs] [609_1] [WorkflowRunner] [RunParameters] isDryRun: False
[2026-05-28T05:36:12.663572Z] [nf-8db2bac87c27fd07aed858bdea31588d-51bc2-68mhs] [609_1] [WorkflowRunner] [RunParameters] isContinue: False
[2026-05-28T05:36:12.663575Z] [nf-8db2bac87c27fd07aed858bdea31588d-51bc2-68mhs] [609_1] [WorkflowRunner] [RunParameters] isForceContinue: True
[2026-05-28T05:36:12.663580Z] [nf-8db2bac87c27fd07aed858bdea31588d-51bc2-68mhs] [609_1] [WorkflowRunner] [RunParameters] mailTo: ''
[2026-05-28T05:36:12.664427Z] [nf-8db2bac87c27fd07aed858bdea31588d-51bc2-68mhs] [609_1] [TaskRunner:masterWorkflow] Starting task specification for master workflow
[2026-05-28T05:36:12.664533Z] [nf-8db2bac87c27fd07aed858bdea31588d-51bc2-68mhs] [609_1] [StrelkaSomaticWorkflow] Initiating Strelka somatic workflow version: 2.9.10
[2026-05-28T05:36:12.670859Z] [nf-8db2bac87c27fd07aed858bdea31588d-51bc2-68mhs] [609_1] [WorkflowRunner] Adding sub-workflow task 'CallGenome' to master workflow
[2026-05-28T05:36:12.671641Z] [nf-8db2bac87c27fd07aed858bdea31588d-51bc2-68mhs] [609_1] [TaskManager] Launching sub-workflow task: 'CallGenome' from master workflow
[2026-05-28T05:36:12.671929Z] [nf-8db2bac87c27fd07aed858bdea31588d-51bc2-68mhs] [609_1] [TaskRunner:CallGenome] Starting task specification for sub-workflow
[2026-05-28T05:36:12.672341Z] [nf-8db2bac87c27fd07aed858bdea31588d-51bc2-68mhs] [609_1] [TaskRunner:masterWorkflow] Finished task specification for master workflow
[2026-05-28T05:36:12.672467Z] [nf-8db2bac87c27fd07aed858bdea31588d-51bc2-68mhs] [609_1] [WorkflowRunner] Adding command task 'CallGenome+makeTmpDir' to sub-workflow 'CallGenome'
[2026-05-28T05:36:12.672837Z] [nf-8db2bac87c27fd07aed858bdea31588d-51bc2-68mhs] [609_1] [WorkflowRunner] Adding command task 'CallGenome+callGenomeSegment_chromId_001_chr2_0000' to sub-workflow 'CallGenome'
[2026-05-28T05:36:12.672931Z] [nf-8db2bac87c27fd07aed858bdea31588d-51bc2-68mhs] [609_1] [WorkflowRunner] Adding command task 'CallGenome+fixVcfHeader_chromId_001_chr2_0000' to sub-workflow 'CallGenome'
[2026-05-28T05:36:12.673004Z] [nf-8db2bac87c27fd07aed858bdea31588d-51bc2-68mhs] [609_1] [WorkflowRunner] Adding command task 'CallGenome+compressSegmentOutput_chromId_001_chr2_0000' to sub-workflow 'CallGenome'
[2026-05-28T05:36:12.673121Z] [nf-8db2bac87c27fd07aed858bdea31588d-51bc2-68mhs] [609_1] [WorkflowRunner] Adding command task 'CallGenome+callGenomeSegment_chromId_001_chr2_0001' to sub-workflow 'CallGenome'
[2026-05-28T05:36:12.673186Z] [nf-8db2bac87c27fd07aed858bdea31588d-51bc2-68mhs] [609_1] [WorkflowRunner] Adding command task 'CallGenome+compressSegmentOutput_chromId_001_chr2_0001' to sub-workflow 'CallGenome'
[2026-05-28T05:36:12.673303Z] [nf-8db2bac87c27fd07aed858bdea31588d-51bc2-68mhs] [609_1] [WorkflowRunner] Adding command task 'CallGenome+callGenomeSegment_chromId_001_chr2_0002' to sub-workflow 'CallGenome'
[2026-05-28T05:36:12.673367Z] [nf-8db2bac87c27fd07aed858bdea31588d-51bc2-68mhs] [609_1] [WorkflowRunner] Adding command task 'CallGenome+compressSegmentOutput_chromId_001_chr2_0002' to sub-workflow 'CallGenome'
[2026-05-28T05:36:12.673704Z] [nf-8db2bac87c27fd07aed858bdea31588d-51bc2-68mhs] [609_1] [WorkflowRunner] Adding command task 'CallGenome+callGenomeSegment_chromId_001_chr2_0003' to sub-workflow 'CallGenome'
[2026-05-28T05:36:12.674058Z] [nf-8db2bac87c27fd07aed858bdea31588d-51bc2-68mhs] [609_1] [WorkflowRunner] Adding command task 'CallGenome+compressSegmentOutput_chromId_001_chr2_0003' to sub-workflow 'CallGenome'
[2026-05-28T05:36:12.674157Z] [nf-8db2bac87c27fd07aed858bdea31588d-51bc2-68mhs] [609_1] [TaskManager] Launching command task: 'CallGenome+makeTmpDir' from sub-workflow 'CallGenome'
[2026-05-28T05:36:12.675124Z] [nf-8db2bac87c27fd07aed858bdea31588d-51bc2-68mhs] [609_1] [WorkflowRunner] Adding command task 'CallGenome+callGenomeSegment_chromId_001_chr2_0004' to sub-workflow 'CallGenome'
[2026-05-28T05:36:12.675525Z] [nf-8db2bac87c27fd07aed858bdea31588d-51bc2-68mhs] [609_1] [WorkflowRunner] Adding command task 'CallGenome+compressSegmentOutput_chromId_001_chr2_0004' to sub-workflow 'CallGenome'
[2026-05-28T05:36:12.677072Z] [nf-8db2bac87c27fd07aed858bdea31588d-51bc2-68mhs] [609_1] [WorkflowRunner] Adding command task 'CallGenome+callGenomeSegment_chromId_001_chr2_0005' to sub-workflow 'CallGenome'
[2026-05-28T05:36:12.677657Z] [nf-8db2bac87c27fd07aed858bdea31588d-51bc2-68mhs] [609_1] [WorkflowRunner] Adding command task 'CallGenome+compressSegmentOutput_chromId_001_chr2_0005' to sub-workflow 'CallGenome'
[2026-05-28T05:36:12.678095Z] [nf-8db2bac87c27fd07aed858bdea31588d-51bc2-68mhs] [609_1] [TaskRunner:CallGenome+makeTmpDir] Task initiated on local node
[2026-05-28T05:36:12.678435Z] [nf-8db2bac87c27fd07aed858bdea31588d-51bc2-68mhs] [609_1] [WorkflowRunner] Adding command task 'CallGenome+callGenomeSegment_chromId_001_chr2_0006' to sub-workflow 'CallGenome'
[2026-05-28T05:36:12.678523Z] [nf-8db2bac87c27fd07aed858bdea31588d-51bc2-68mhs] [609_1] [WorkflowRunner] Adding command task 'CallGenome+compressSegmentOutput_chromId_001_chr2_0006' to sub-workflow 'CallGenome'
[2026-05-28T05:36:12.678680Z] [nf-8db2bac87c27fd07aed858bdea31588d-51bc2-68mhs] [609_1] [WorkflowRunner] Adding command task 'CallGenome+callGenomeSegment_chromId_001_chr2_0007' to sub-workflow 'CallGenome'
[2026-05-28T05:36:12.678765Z] [nf-8db2bac87c27fd07aed858bdea31588d-51bc2-68mhs] [609_1] [WorkflowRunner] Adding command task 'CallGenome+compressSegmentOutput_chromId_001_chr2_0007' to sub-workflow 'CallGenome'
[2026-05-28T05:36:12.678963Z] [nf-8db2bac87c27fd07aed858bdea31588d-51bc2-68mhs] [609_1] [WorkflowRunner] Adding command task 'CallGenome+callGenomeSegment_chromId_001_chr2_0008' to sub-workflow 'CallGenome'
[2026-05-28T05:36:12.679040Z] [nf-8db2bac87c27fd07aed858bdea31588d-51bc2-68mhs] [609_1] [WorkflowRunner] Adding command task 'CallGenome+compressSegmentOutput_chromId_001_chr2_0008' to sub-workflow 'CallGenome'
[2026-05-28T05:36:12.679171Z] [nf-8db2bac87c27fd07aed858bdea31588d-51bc2-68mhs] [609_1] [WorkflowRunner] Adding command task 'CallGenome+callGenomeSegment_chromId_001_chr2_0009' to sub-workflow 'CallGenome'
[2026-05-28T05:36:12.679300Z] [nf-8db2bac87c27fd07aed858bdea31588d-51bc2-68mhs] [609_1] [WorkflowRunner] Adding command task 'CallGenome+compressSegmentOutput_chromId_001_chr2_0009' to sub-workflow 'CallGenome'
[2026-05-28T05:36:12.679676Z] [nf-8db2bac87c27fd07aed858bdea31588d-51bc2-68mhs] [609_1] [WorkflowRunner] Adding command task 'CallGenome+callGenomeSegment_chromId_001_chr2_0010' to sub-workflow 'CallGenome'
[2026-05-28T05:36:12.679901Z] [nf-8db2bac87c27fd07aed858bdea31588d-51bc2-68mhs] [609_1] [WorkflowRunner] Adding command task 'CallGenome+compressSegmentOutput_chromId_001_chr2_0010' to sub-workflow 'CallGenome'
[2026-05-28T05:36:12.680051Z] [nf-8db2bac87c27fd07aed858bdea31588d-51bc2-68mhs] [609_1] [WorkflowRunner] Adding command task 'CallGenome+callGenomeSegment_chromId_001_chr2_0011' to sub-workflow 'CallGenome'
[2026-05-28T05:36:12.680119Z] [nf-8db2bac87c27fd07aed858bdea31588d-51bc2-68mhs] [609_1] [WorkflowRunner] Adding command task 'CallGenome+compressSegmentOutput_chromId_001_chr2_0011' to sub-workflow 'CallGenome'
[2026-05-28T05:36:12.680233Z] [nf-8db2bac87c27fd07aed858bdea31588d-51bc2-68mhs] [609_1] [WorkflowRunner] Adding command task 'CallGenome+callGenomeSegment_chromId_001_chr2_0012' to sub-workflow 'CallGenome'
[2026-05-28T05:36:12.680302Z] [nf-8db2bac87c27fd07aed858bdea31588d-51bc2-68mhs] [609_1] [WorkflowRunner] Adding command task 'CallGenome+compressSegmentOutput_chromId_001_chr2_0012' to sub-workflow 'CallGenome'
[2026-05-28T05:36:12.680413Z] [nf-8db2bac87c27fd07aed858bdea31588d-51bc2-68mhs] [609_1] [WorkflowRunner] Adding command task 'CallGenome+callGenomeSegment_chromId_001_chr2_0013' to sub-workflow 'CallGenome'
[2026-05-28T05:36:12.680483Z] [nf-8db2bac87c27fd07aed858bdea31588d-51bc2-68mhs] [609_1] [WorkflowRunner] Adding command task 'CallGenome+compressSegmentOutput_chromId_001_chr2_0013' to sub-workflow 'CallGenome'
[2026-05-28T05:36:12.680619Z] [nf-8db2bac87c27fd07aed858bdea31588d-51bc2-68mhs] [609_1] [WorkflowRunner] Adding command task 'CallGenome+callGenomeSegment_chromId_001_chr2_0014' to sub-workflow 'CallGenome'
[2026-05-28T05:36:12.680698Z] [nf-8db2bac87c27fd07aed858bdea31588d-51bc2-68mhs] [609_1] [WorkflowRunner] Adding command task 'CallGenome+compressSegmentOutput_chromId_001_chr2_0014' to sub-workflow 'CallGenome'
[2026-05-28T05:36:12.680836Z] [nf-8db2bac87c27fd07aed858bdea31588d-51bc2-68mhs] [609_1] [WorkflowRunner] Adding command task 'CallGenome+callGenomeSegment_chromId_001_chr2_0015' to sub-workflow 'CallGenome'
[2026-05-28T05:36:12.681040Z] [nf-8db2bac87c27fd07aed858bdea31588d-51bc2-68mhs] [609_1] [WorkflowRunner] Adding command task 'CallGenome+compressSegmentOutput_chromId_001_chr2_0015' to sub-workflow 'CallGenome'
[2026-05-28T05:36:12.681529Z] [nf-8db2bac87c27fd07aed858bdea31588d-51bc2-68mhs] [609_1] [WorkflowRunner] Adding command task 'CallGenome+callGenomeSegment_chromId_001_chr2_0016' to sub-workflow 'CallGenome'
[2026-05-28T05:36:12.681624Z] [nf-8db2bac87c27fd07aed858bdea31588d-51bc2-68mhs] [609_1] [WorkflowRunner] Adding command task 'CallGenome+compressSegmentOutput_chromId_001_chr2_0016' to sub-workflow 'CallGenome'
[2026-05-28T05:36:12.681761Z] [nf-8db2bac87c27fd07aed858bdea31588d-51bc2-68mhs] [609_1] [WorkflowRunner] Adding command task 'CallGenome+callGenomeSegment_chromId_001_chr2_0017' to sub-workflow 'CallGenome'
[2026-05-28T05:36:12.681880Z] [nf-8db2bac87c27fd07aed858bdea31588d-51bc2-68mhs] [609_1] [WorkflowRunner] Adding command task 'CallGenome+compressSegmentOutput_chromId_001_chr2_0017' to sub-workflow 'CallGenome'
[2026-05-28T05:36:12.682058Z] [nf-8db2bac87c27fd07aed858bdea31588d-51bc2-68mhs] [609_1] [WorkflowRunner] Adding command task 'CallGenome+callGenomeSegment_chromId_001_chr2_0018' to sub-workflow 'CallGenome'
[2026-05-28T05:36:12.682126Z] [nf-8db2bac87c27fd07aed858bdea31588d-51bc2-68mhs] [609_1] [WorkflowRunner] Adding command task 'CallGenome+compressSegmentOutput_chromId_001_chr2_0018' to sub-workflow 'CallGenome'
[2026-05-28T05:36:12.682239Z] [nf-8db2bac87c27fd07aed858bdea31588d-51bc2-68mhs] [609_1] [WorkflowRunner] Adding command task 'CallGenome+callGenomeSegment_chromId_001_chr2_0019' to sub-workflow 'CallGenome'
[2026-05-28T05:36:12.682306Z] [nf-8db2bac87c27fd07aed858bdea31588d-51bc2-68mhs] [609_1] [WorkflowRunner] Adding command task 'CallGenome+compressSegmentOutput_chromId_001_chr2_0019' to sub-workflow 'CallGenome'
[2026-05-28T05:36:12.683475Z] [nf-8db2bac87c27fd07aed858bdea31588d-51bc2-68mhs] [609_1] [WorkflowRunner] Adding command task 'CallGenome+callGenomeSegment_chromId_001_chr2_0020' to sub-workflow 'CallGenome'
[2026-05-28T05:36:12.683828Z] [nf-8db2bac87c27fd07aed858bdea31588d-51bc2-68mhs] [609_1] [WorkflowRunner] Adding command task 'CallGenome+compressSegmentOutput_chromId_001_chr2_0020' to sub-workflow 'CallGenome'
[2026-05-28T05:36:12.683949Z] [nf-8db2bac87c27fd07aed858bdea31588d-51bc2-68mhs] [609_1] [WorkflowRunner] Adding command task 'CallGenome+callGenomeSegment_chromId_018_chr19_0000' to sub-workflow 'CallGenome'
[2026-05-28T05:36:12.684012Z] [nf-8db2bac87c27fd07aed858bdea31588d-51bc2-68mhs] [609_1] [WorkflowRunner] Adding command task 'CallGenome+compressSegmentOutput_chromId_018_chr19_0000' to sub-workflow 'CallGenome'
[2026-05-28T05:36:12.684196Z] [nf-8db2bac87c27fd07aed858bdea31588d-51bc2-68mhs] [609_1] [WorkflowRunner] Adding command task 'CallGenome+callGenomeSegment_chromId_018_chr19_0001' to sub-workflow 'CallGenome'
[2026-05-28T05:36:12.684265Z] [nf-8db2bac87c27fd07aed858bdea31588d-51bc2-68mhs] [609_1] [WorkflowRunner] Adding command task 'CallGenome+compressSegmentOutput_chromId_018_chr19_0001' to sub-workflow 'CallGenome'
[2026-05-28T05:36:12.684375Z] [nf-8db2bac87c27fd07aed858bdea31588d-51bc2-68mhs] [609_1] [WorkflowRunner] Adding command task 'CallGenome+callGenomeSegment_chromId_018_chr19_0002' to sub-workflow 'CallGenome'
[2026-05-28T05:36:12.684438Z] [nf-8db2bac87c27fd07aed858bdea31588d-51bc2-68mhs] [609_1] [WorkflowRunner] Adding command task 'CallGenome+compressSegmentOutput_chromId_018_chr19_0002' to sub-workflow 'CallGenome'
[2026-05-28T05:36:12.684554Z] [nf-8db2bac87c27fd07aed858bdea31588d-51bc2-68mhs] [609_1] [WorkflowRunner] Adding command task 'CallGenome+callGenomeSegment_chromId_018_chr19_0003' to sub-workflow 'CallGenome'
[2026-05-28T05:36:12.684624Z] [nf-8db2bac87c27fd07aed858bdea31588d-51bc2-68mhs] [609_1] [WorkflowRunner] Adding command task 'CallGenome+compressSegmentOutput_chromId_018_chr19_0003' to sub-workflow 'CallGenome'
[2026-05-28T05:36:12.684771Z] [nf-8db2bac87c27fd07aed858bdea31588d-51bc2-68mhs] [609_1] [WorkflowRunner] Adding command task 'CallGenome+callGenomeSegment_chromId_018_chr19_0004' to sub-workflow 'CallGenome'
[2026-05-28T05:36:12.684856Z] [nf-8db2bac87c27fd07aed858bdea31588d-51bc2-68mhs] [609_1] [WorkflowRunner] Adding command task 'CallGenome+compressSegmentOutput_chromId_018_chr19_0004' to sub-workflow 'CallGenome'
[2026-05-28T05:36:12.685359Z] [nf-8db2bac87c27fd07aed858bdea31588d-51bc2-68mhs] [609_1] [WorkflowRunner] Adding command task 'CallGenome+callGenomeSegment_chromId_019_chr20_0000' to sub-workflow 'CallGenome'
[2026-05-28T05:36:12.685836Z] [nf-8db2bac87c27fd07aed858bdea31588d-51bc2-68mhs] [609_1] [WorkflowRunner] Adding command task 'CallGenome+compressSegmentOutput_chromId_019_chr20_0000' to sub-workflow 'CallGenome'
[2026-05-28T05:36:12.685963Z] [nf-8db2bac87c27fd07aed858bdea31588d-51bc2-68mhs] [609_1] [WorkflowRunner] Adding command task 'CallGenome+callGenomeSegment_chromId_019_chr20_0001' to sub-workflow 'CallGenome'
[2026-05-28T05:36:12.686044Z] [nf-8db2bac87c27fd07aed858bdea31588d-51bc2-68mhs] [609_1] [WorkflowRunner] Adding command task 'CallGenome+compressSegmentOutput_chromId_019_chr20_0001' to sub-workflow 'CallGenome'
[2026-05-28T05:36:12.686170Z] [nf-8db2bac87c27fd07aed858bdea31588d-51bc2-68mhs] [609_1] [WorkflowRunner] Adding command task 'CallGenome+callGenomeSegment_chromId_019_chr20_0002' to sub-workflow 'CallGenome'
[2026-05-28T05:36:12.686234Z] [nf-8db2bac87c27fd07aed858bdea31588d-51bc2-68mhs] [609_1] [WorkflowRunner] Adding command task 'CallGenome+compressSegmentOutput_chromId_019_chr20_0002' to sub-workflow 'CallGenome'
[2026-05-28T05:36:12.686360Z] [nf-8db2bac87c27fd07aed858bdea31588d-51bc2-68mhs] [609_1] [WorkflowRunner] Adding command task 'CallGenome+callGenomeSegment_chromId_019_chr20_0003' to sub-workflow 'CallGenome'
[2026-05-28T05:36:12.686424Z] [nf-8db2bac87c27fd07aed858bdea31588d-51bc2-68mhs] [609_1] [WorkflowRunner] Adding command task 'CallGenome+compressSegmentOutput_chromId_019_chr20_0003' to sub-workflow 'CallGenome'
[2026-05-28T05:36:12.686547Z] [nf-8db2bac87c27fd07aed858bdea31588d-51bc2-68mhs] [609_1] [WorkflowRunner] Adding command task 'CallGenome+callGenomeSegment_chromId_019_chr20_0004' to sub-workflow 'CallGenome'
[2026-05-28T05:36:12.686629Z] [nf-8db2bac87c27fd07aed858bdea31588d-51bc2-68mhs] [609_1] [WorkflowRunner] Adding command task 'CallGenome+compressSegmentOutput_chromId_019_chr20_0004' to sub-workflow 'CallGenome'
[2026-05-28T05:36:12.701145Z] [nf-8db2bac87c27fd07aed858bdea31588d-51bc2-68mhs] [609_1] [WorkflowRunner] Adding command task 'CallGenome+callGenomeSegment_chromId_019_chr20_0005' to sub-workflow 'CallGenome'
[2026-05-28T05:36:12.701285Z] [nf-8db2bac87c27fd07aed858bdea31588d-51bc2-68mhs] [609_1] [WorkflowRunner] Adding command task 'CallGenome+compressSegmentOutput_chromId_019_chr20_0005' to sub-workflow 'CallGenome'
[2026-05-28T05:36:12.701367Z] [nf-8db2bac87c27fd07aed858bdea31588d-51bc2-68mhs] [609_1] [WorkflowRunner] Adding command task 'CallGenome+completedAllGenomeSegments' to sub-workflow 'CallGenome'
[2026-05-28T05:36:12.701535Z] [nf-8db2bac87c27fd07aed858bdea31588d-51bc2-68mhs] [609_1] [WorkflowRunner] Adding command task 'CallGenome+SNV_concat_vcf' to sub-workflow 'CallGenome'
[2026-05-28T05:36:12.701609Z] [nf-8db2bac87c27fd07aed858bdea31588d-51bc2-68mhs] [609_1] [WorkflowRunner] Adding command task 'CallGenome+SNV_index_vcf' to sub-workflow 'CallGenome'
[2026-05-28T05:36:12.701700Z] [nf-8db2bac87c27fd07aed858bdea31588d-51bc2-68mhs] [609_1] [WorkflowRunner] Adding command task 'CallGenome+Indel_concat_vcf' to sub-workflow 'CallGenome'
[2026-05-28T05:36:12.701764Z] [nf-8db2bac87c27fd07aed858bdea31588d-51bc2-68mhs] [609_1] [WorkflowRunner] Adding command task 'CallGenome+Indel_index_vcf' to sub-workflow 'CallGenome'
[2026-05-28T05:36:12.701873Z] [nf-8db2bac87c27fd07aed858bdea31588d-51bc2-68mhs] [609_1] [WorkflowRunner] Adding command task 'CallGenome+mergeRunStats' to sub-workflow 'CallGenome'
[2026-05-28T05:36:12.701944Z] [nf-8db2bac87c27fd07aed858bdea31588d-51bc2-68mhs] [609_1] [WorkflowRunner] Adding command task 'CallGenome+removeTmpDir' to sub-workflow 'CallGenome'
[2026-05-28T05:36:12.703094Z] [nf-8db2bac87c27fd07aed858bdea31588d-51bc2-68mhs] [609_1] [TaskRunner:CallGenome] Finished task specification for sub-workflow
[2026-05-28T05:36:12.712884Z] [nf-8db2bac87c27fd07aed858bdea31588d-51bc2-68mhs] [609_1] [TaskManager] Completed command task: 'CallGenome+makeTmpDir' launched from sub-workflow 'CallGenome'
[2026-05-28T05:36:12.713481Z] [nf-8db2bac87c27fd07aed858bdea31588d-51bc2-68mhs] [609_1] [TaskManager] Launching command task: 'CallGenome+callGenomeSegment_chromId_018_chr19_0003' from sub-workflow 'CallGenome'
[2026-05-28T05:36:12.713798Z] [nf-8db2bac87c27fd07aed858bdea31588d-51bc2-68mhs] [609_1] [TaskManager] Launching command task: 'CallGenome+callGenomeSegment_chromId_001_chr2_0019' from sub-workflow 'CallGenome'
[2026-05-28T05:36:12.714337Z] [nf-8db2bac87c27fd07aed858bdea31588d-51bc2-68mhs] [609_1] [TaskManager] Launching command task: 'CallGenome+callGenomeSegment_chromId_001_chr2_0014' from sub-workflow 'CallGenome'
[2026-05-28T05:36:12.715273Z] [nf-8db2bac87c27fd07aed858bdea31588d-51bc2-68mhs] [609_1] [TaskManager] Launching command task: 'CallGenome+callGenomeSegment_chromId_001_chr2_0018' from sub-workflow 'CallGenome'
[2026-05-28T05:36:12.716363Z] [nf-8db2bac87c27fd07aed858bdea31588d-51bc2-68mhs] [609_1] [TaskManager] Launching command task: 'CallGenome+callGenomeSegment_chromId_019_chr20_0005' from sub-workflow 'CallGenome'
[2026-05-28T05:36:12.717131Z] [nf-8db2bac87c27fd07aed858bdea31588d-51bc2-68mhs] [609_1] [TaskManager] Launching command task: 'CallGenome+callGenomeSegment_chromId_019_chr20_0000' from sub-workflow 'CallGenome'
[2026-05-28T05:36:12.717976Z] [nf-8db2bac87c27fd07aed858bdea31588d-51bc2-68mhs] [609_1] [TaskManager] Launching command task: 'CallGenome+callGenomeSegment_chromId_018_chr19_0000' from sub-workflow 'CallGenome'
[2026-05-28T05:36:12.719155Z] [nf-8db2bac87c27fd07aed858bdea31588d-51bc2-68mhs] [609_1] [TaskManager] Launching command task: 'CallGenome+callGenomeSegment_chromId_001_chr2_0011' from sub-workflow 'CallGenome'
[2026-05-28T05:36:12.723593Z] [nf-8db2bac87c27fd07aed858bdea31588d-51bc2-68mhs] [609_1] [TaskRunner:CallGenome+callGenomeSegment_chromId_001_chr2_0019] Task initiated on local node
[2026-05-28T05:36:12.724777Z] [nf-8db2bac87c27fd07aed858bdea31588d-51bc2-68mhs] [609_1] [TaskRunner:CallGenome+callGenomeSegment_chromId_018_chr19_0003] Task initiated on local node
[2026-05-28T05:36:12.727614Z] [nf-8db2bac87c27fd07aed858bdea31588d-51bc2-68mhs] [609_1] [TaskRunner:CallGenome+callGenomeSegment_chromId_001_chr2_0014] Task initiated on local node
[2026-05-28T05:36:12.730496Z] [nf-8db2bac87c27fd07aed858bdea31588d-51bc2-68mhs] [609_1] [TaskRunner:CallGenome+callGenomeSegment_chromId_001_chr2_0018] Task initiated on local node
[2026-05-28T05:36:12.734451Z] [nf-8db2bac87c27fd07aed858bdea31588d-51bc2-68mhs] [609_1] [TaskRunner:CallGenome+callGenomeSegment_chromId_019_chr20_0005] Task initiated on local node
[2026-05-28T05:36:12.735347Z] [nf-8db2bac87c27fd07aed858bdea31588d-51bc2-68mhs] [609_1] [TaskRunner:CallGenome+callGenomeSegment_chromId_019_chr20_0000] Task initiated on local node
[2026-05-28T05:36:12.738201Z] [nf-8db2bac87c27fd07aed858bdea31588d-51bc2-68mhs] [609_1] [TaskRunner:CallGenome+callGenomeSegment_chromId_001_chr2_0011] Task initiated on local node
[2026-05-28T05:36:12.739235Z] [nf-8db2bac87c27fd07aed858bdea31588d-51bc2-68mhs] [609_1] [TaskRunner:CallGenome+callGenomeSegment_chromId_018_chr19_0000] Task initiated on local node
[2026-05-28T05:36:12.836271Z] [nf-8db2bac87c27fd07aed858bdea31588d-51bc2-68mhs] [609_1] [TaskManager] Completed command task: 'CallGenome+callGenomeSegment_chromId_019_chr20_0005' launched from sub-workflow 'CallGenome'
[2026-05-28T05:36:12.836366Z] [nf-8db2bac87c27fd07aed858bdea31588d-51bc2-68mhs] [609_1] [TaskManager] Completed command task: 'CallGenome+callGenomeSegment_chromId_018_chr19_0000' launched from sub-workflow 'CallGenome'
[2026-05-28T05:36:12.837357Z] [nf-8db2bac87c27fd07aed858bdea31588d-51bc2-68mhs] [609_1] [TaskManager] Launching command task: 'CallGenome+compressSegmentOutput_chromId_019_chr20_0005' from sub-workflow 'CallGenome'
[2026-05-28T05:36:12.837850Z] [nf-8db2bac87c27fd07aed858bdea31588d-51bc2-68mhs] [609_1] [TaskManager] Launching command task: 'CallGenome+callGenomeSegment_chromId_001_chr2_0016' from sub-workflow 'CallGenome'
[2026-05-28T05:36:12.841659Z] [nf-8db2bac87c27fd07aed858bdea31588d-51bc2-68mhs] [609_1] [TaskRunner:CallGenome+compressSegmentOutput_chromId_019_chr20_0005] Task initiated on local node
[2026-05-28T05:36:12.842828Z] [nf-8db2bac87c27fd07aed858bdea31588d-51bc2-68mhs] [609_1] [TaskRunner:CallGenome+callGenomeSegment_chromId_001_chr2_0016] Task initiated on local node
[2026-05-28T05:36:12.902776Z] [nf-8db2bac87c27fd07aed858bdea31588d-51bc2-68mhs] [609_1] [TaskManager] Completed command task: 'CallGenome+compressSegmentOutput_chromId_019_chr20_0005' launched from sub-workflow 'CallGenome'
[2026-05-28T05:36:12.903545Z] [nf-8db2bac87c27fd07aed858bdea31588d-51bc2-68mhs] [609_1] [TaskManager] Launching command task: 'CallGenome+callGenomeSegment_chromId_001_chr2_0008' from sub-workflow 'CallGenome'
[2026-05-28T05:36:12.907236Z] [nf-8db2bac87c27fd07aed858bdea31588d-51bc2-68mhs] [609_1] [TaskRunner:CallGenome+callGenomeSegment_chromId_001_chr2_0008] Task initiated on local node
[2026-05-28T05:36:13.921107Z] [nf-8db2bac87c27fd07aed858bdea31588d-51bc2-68mhs] [609_1] [TaskManager] Completed command task: 'CallGenome+callGenomeSegment_chromId_001_chr2_0019' launched from sub-workflow 'CallGenome'
[2026-05-28T05:36:13.921916Z] [nf-8db2bac87c27fd07aed858bdea31588d-51bc2-68mhs] [609_1] [TaskManager] Launching command task: 'CallGenome+compressSegmentOutput_chromId_001_chr2_0019' from sub-workflow 'CallGenome'
[2026-05-28T05:36:13.925448Z] [nf-8db2bac87c27fd07aed858bdea31588d-51bc2-68mhs] [609_1] [TaskRunner:CallGenome+compressSegmentOutput_chromId_001_chr2_0019] Task initiated on local node
[2026-05-28T05:36:13.986566Z] [nf-8db2bac87c27fd07aed858bdea31588d-51bc2-68mhs] [609_1] [TaskManager] Completed command task: 'CallGenome+compressSegmentOutput_chromId_001_chr2_0019' launched from sub-workflow 'CallGenome'
[2026-05-28T05:36:13.986660Z] [nf-8db2bac87c27fd07aed858bdea31588d-51bc2-68mhs] [609_1] [TaskManager] Completed command task: 'CallGenome+callGenomeSegment_chromId_001_chr2_0018' launched from sub-workflow 'CallGenome'
[2026-05-28T05:36:13.987432Z] [nf-8db2bac87c27fd07aed858bdea31588d-51bc2-68mhs] [609_1] [TaskManager] Launching command task: 'CallGenome+callGenomeSegment_chromId_001_chr2_0003' from sub-workflow 'CallGenome'
[2026-05-28T05:36:13.987782Z] [nf-8db2bac87c27fd07aed858bdea31588d-51bc2-68mhs] [609_1] [TaskManager] Launching command task: 'CallGenome+callGenomeSegment_chromId_001_chr2_0004' from sub-workflow 'CallGenome'
[2026-05-28T05:36:13.992061Z] [nf-8db2bac87c27fd07aed858bdea31588d-51bc2-68mhs] [609_1] [TaskRunner:CallGenome+callGenomeSegment_chromId_001_chr2_0003] Task initiated on local node
[2026-05-28T05:36:13.992837Z] [nf-8db2bac87c27fd07aed858bdea31588d-51bc2-68mhs] [609_1] [TaskRunner:CallGenome+callGenomeSegment_chromId_001_chr2_0004] Task initiated on local node
[2026-05-28T05:36:14.019765Z] [nf-8db2bac87c27fd07aed858bdea31588d-51bc2-68mhs] [609_1] [TaskManager] Completed command task: 'CallGenome+callGenomeSegment_chromId_001_chr2_0016' launched from sub-workflow 'CallGenome'
[2026-05-28T05:36:14.020516Z] [nf-8db2bac87c27fd07aed858bdea31588d-51bc2-68mhs] [609_1] [TaskManager] Launching command task: 'CallGenome+callGenomeSegment_chromId_019_chr20_0002' from sub-workflow 'CallGenome'
[2026-05-28T05:36:14.024362Z] [nf-8db2bac87c27fd07aed858bdea31588d-51bc2-68mhs] [609_1] [TaskRunner:CallGenome+callGenomeSegment_chromId_019_chr20_0002] Task initiated on local node
[2026-05-28T05:36:14.085362Z] [nf-8db2bac87c27fd07aed858bdea31588d-51bc2-68mhs] [609_1] [TaskManager] Completed command task: 'CallGenome+callGenomeSegment_chromId_019_chr20_0002' launched from sub-workflow 'CallGenome'
[2026-05-28T05:36:14.086192Z] [nf-8db2bac87c27fd07aed858bdea31588d-51bc2-68mhs] [609_1] [TaskManager] Launching command task: 'CallGenome+callGenomeSegment_chromId_018_chr19_0002' from sub-workflow 'CallGenome'
[2026-05-28T05:36:14.089861Z] [nf-8db2bac87c27fd07aed858bdea31588d-51bc2-68mhs] [609_1] [TaskRunner:CallGenome+callGenomeSegment_chromId_018_chr19_0002] Task initiated on local node
[2026-05-28T05:36:14.351413Z] [nf-8db2bac87c27fd07aed858bdea31588d-51bc2-68mhs] [609_1] [TaskManager] Completed command task: 'CallGenome+callGenomeSegment_chromId_001_chr2_0011' launched from sub-workflow 'CallGenome'
[2026-05-28T05:36:14.352225Z] [nf-8db2bac87c27fd07aed858bdea31588d-51bc2-68mhs] [609_1] [TaskManager] Launching command task: 'CallGenome+callGenomeSegment_chromId_001_chr2_0009' from sub-workflow 'CallGenome'
[2026-05-28T05:36:14.355485Z] [nf-8db2bac87c27fd07aed858bdea31588d-51bc2-68mhs] [609_1] [TaskRunner:CallGenome+callGenomeSegment_chromId_001_chr2_0009] Task initiated on local node
[2026-05-28T05:36:14.767965Z] [nf-8db2bac87c27fd07aed858bdea31588d-51bc2-68mhs] [609_1] [TaskManager] Completed command task: 'CallGenome+callGenomeSegment_chromId_019_chr20_0000' launched from sub-workflow 'CallGenome'
[2026-05-28T05:36:14.768934Z] [nf-8db2bac87c27fd07aed858bdea31588d-51bc2-68mhs] [609_1] [TaskManager] Launching command task: 'CallGenome+compressSegmentOutput_chromId_019_chr20_0000' from sub-workflow 'CallGenome'
[2026-05-28T05:36:14.772303Z] [nf-8db2bac87c27fd07aed858bdea31588d-51bc2-68mhs] [609_1] [TaskRunner:CallGenome+compressSegmentOutput_chromId_019_chr20_0000] Task initiated on local node
[2026-05-28T05:36:14.784874Z] [nf-8db2bac87c27fd07aed858bdea31588d-51bc2-68mhs] [609_1] [TaskManager] Completed command task: 'CallGenome+callGenomeSegment_chromId_001_chr2_0008' launched from sub-workflow 'CallGenome'
[2026-05-28T05:36:14.785796Z] [nf-8db2bac87c27fd07aed858bdea31588d-51bc2-68mhs] [609_1] [TaskManager] Launching command task: 'CallGenome+callGenomeSegment_chromId_001_chr2_0013' from sub-workflow 'CallGenome'
[2026-05-28T05:36:14.788924Z] [nf-8db2bac87c27fd07aed858bdea31588d-51bc2-68mhs] [609_1] [TaskRunner:CallGenome+callGenomeSegment_chromId_001_chr2_0013] Task initiated on local node
[2026-05-28T05:36:14.817877Z] [nf-8db2bac87c27fd07aed858bdea31588d-51bc2-68mhs] [609_1] [TaskManager] Completed command task: 'CallGenome+compressSegmentOutput_chromId_019_chr20_0000' launched from sub-workflow 'CallGenome'
[2026-05-28T05:36:14.818570Z] [nf-8db2bac87c27fd07aed858bdea31588d-51bc2-68mhs] [609_1] [TaskManager] Launching command task: 'CallGenome+callGenomeSegment_chromId_001_chr2_0002' from sub-workflow 'CallGenome'
[2026-05-28T05:36:14.822152Z] [nf-8db2bac87c27fd07aed858bdea31588d-51bc2-68mhs] [609_1] [TaskRunner:CallGenome+callGenomeSegment_chromId_001_chr2_0002] Task initiated on local node
[2026-05-28T05:36:15.083309Z] [nf-8db2bac87c27fd07aed858bdea31588d-51bc2-68mhs] [609_1] [TaskManager] Completed command task: 'CallGenome+callGenomeSegment_chromId_001_chr2_0014' launched from sub-workflow 'CallGenome'
[2026-05-28T05:36:15.084143Z] [nf-8db2bac87c27fd07aed858bdea31588d-51bc2-68mhs] [609_1] [TaskManager] Launching command task: 'CallGenome+compressSegmentOutput_chromId_001_chr2_0014' from sub-workflow 'CallGenome'
[2026-05-28T05:36:15.088188Z] [nf-8db2bac87c27fd07aed858bdea31588d-51bc2-68mhs] [609_1] [TaskRunner:CallGenome+compressSegmentOutput_chromId_001_chr2_0014] Task initiated on local node
[2026-05-28T05:36:15.148978Z] [nf-8db2bac87c27fd07aed858bdea31588d-51bc2-68mhs] [609_1] [TaskManager] Completed command task: 'CallGenome+callGenomeSegment_chromId_018_chr19_0002' launched from sub-workflow 'CallGenome'
[2026-05-28T05:36:15.149069Z] [nf-8db2bac87c27fd07aed858bdea31588d-51bc2-68mhs] [609_1] [TaskManager] Completed command task: 'CallGenome+compressSegmentOutput_chromId_001_chr2_0014' launched from sub-workflow 'CallGenome'
[2026-05-28T05:36:15.149788Z] [nf-8db2bac87c27fd07aed858bdea31588d-51bc2-68mhs] [609_1] [TaskManager] Launching command task: 'CallGenome+compressSegmentOutput_chromId_018_chr19_0002' from sub-workflow 'CallGenome'
[2026-05-28T05:36:15.150206Z] [nf-8db2bac87c27fd07aed858bdea31588d-51bc2-68mhs] [609_1] [TaskManager] Launching command task: 'CallGenome+callGenomeSegment_chromId_018_chr19_0004' from sub-workflow 'CallGenome'
[2026-05-28T05:36:15.154004Z] [nf-8db2bac87c27fd07aed858bdea31588d-51bc2-68mhs] [609_1] [TaskRunner:CallGenome+compressSegmentOutput_chromId_018_chr19_0002] Task initiated on local node
[2026-05-28T05:36:15.155519Z] [nf-8db2bac87c27fd07aed858bdea31588d-51bc2-68mhs] [609_1] [TaskRunner:CallGenome+callGenomeSegment_chromId_018_chr19_0004] Task initiated on local node
[2026-05-28T05:36:15.215489Z] [nf-8db2bac87c27fd07aed858bdea31588d-51bc2-68mhs] [609_1] [TaskManager] Completed command task: 'CallGenome+compressSegmentOutput_chromId_018_chr19_0002' launched from sub-workflow 'CallGenome'
[2026-05-28T05:36:15.216357Z] [nf-8db2bac87c27fd07aed858bdea31588d-51bc2-68mhs] [609_1] [TaskManager] Launching command task: 'CallGenome+callGenomeSegment_chromId_019_chr20_0004' from sub-workflow 'CallGenome'
[2026-05-28T05:36:15.220596Z] [nf-8db2bac87c27fd07aed858bdea31588d-51bc2-68mhs] [609_1] [TaskRunner:CallGenome+callGenomeSegment_chromId_019_chr20_0004] Task initiated on local node
[2026-05-28T05:36:15.331099Z] [nf-8db2bac87c27fd07aed858bdea31588d-51bc2-68mhs] [609_1] [TaskManager] Completed command task: 'CallGenome+callGenomeSegment_chromId_019_chr20_0004' launched from sub-workflow 'CallGenome'
[2026-05-28T05:36:15.331916Z] [nf-8db2bac87c27fd07aed858bdea31588d-51bc2-68mhs] [609_1] [TaskManager] Launching command task: 'CallGenome+compressSegmentOutput_chromId_001_chr2_0016' from sub-workflow 'CallGenome'
[2026-05-28T05:36:15.335698Z] [nf-8db2bac87c27fd07aed858bdea31588d-51bc2-68mhs] [609_1] [TaskRunner:CallGenome+compressSegmentOutput_chromId_001_chr2_0016] Task initiated on local node
[2026-05-28T05:36:15.396353Z] [nf-8db2bac87c27fd07aed858bdea31588d-51bc2-68mhs] [609_1] [TaskManager] Completed command task: 'CallGenome+compressSegmentOutput_chromId_001_chr2_0016' launched from sub-workflow 'CallGenome'
[2026-05-28T05:36:15.397202Z] [nf-8db2bac87c27fd07aed858bdea31588d-51bc2-68mhs] [609_1] [TaskManager] Launching command task: 'CallGenome+compressSegmentOutput_chromId_018_chr19_0000' from sub-workflow 'CallGenome'
[2026-05-28T05:36:15.400830Z] [nf-8db2bac87c27fd07aed858bdea31588d-51bc2-68mhs] [609_1] [TaskRunner:CallGenome+compressSegmentOutput_chromId_018_chr19_0000] Task initiated on local node
[2026-05-28T05:36:15.461743Z] [nf-8db2bac87c27fd07aed858bdea31588d-51bc2-68mhs] [609_1] [TaskManager] Completed command task: 'CallGenome+compressSegmentOutput_chromId_018_chr19_0000' launched from sub-workflow 'CallGenome'
[2026-05-28T05:36:15.462446Z] [nf-8db2bac87c27fd07aed858bdea31588d-51bc2-68mhs] [609_1] [TaskManager] Launching command task: 'CallGenome+callGenomeSegment_chromId_019_chr20_0001' from sub-workflow 'CallGenome'
[2026-05-28T05:36:15.465667Z] [nf-8db2bac87c27fd07aed858bdea31588d-51bc2-68mhs] [609_1] [TaskRunner:CallGenome+callGenomeSegment_chromId_019_chr20_0001] Task initiated on local node
[2026-05-28T05:36:15.526870Z] [nf-8db2bac87c27fd07aed858bdea31588d-51bc2-68mhs] [609_1] [TaskManager] Completed command task: 'CallGenome+callGenomeSegment_chromId_001_chr2_0003' launched from sub-workflow 'CallGenome'
[2026-05-28T05:36:15.526957Z] [nf-8db2bac87c27fd07aed858bdea31588d-51bc2-68mhs] [609_1] [TaskManager] Completed command task: 'CallGenome+callGenomeSegment_chromId_001_chr2_0004' launched from sub-workflow 'CallGenome'
[2026-05-28T05:36:15.527676Z] [nf-8db2bac87c27fd07aed858bdea31588d-51bc2-68mhs] [609_1] [TaskManager] Launching command task: 'CallGenome+compressSegmentOutput_chromId_001_chr2_0004' from sub-workflow 'CallGenome'
[2026-05-28T05:36:15.528264Z] [nf-8db2bac87c27fd07aed858bdea31588d-51bc2-68mhs] [609_1] [TaskManager] Launching command task: 'CallGenome+compressSegmentOutput_chromId_001_chr2_0018' from sub-workflow 'CallGenome'
[2026-05-28T05:36:15.532095Z] [nf-8db2bac87c27fd07aed858bdea31588d-51bc2-68mhs] [609_1] [TaskRunner:CallGenome+compressSegmentOutput_chromId_001_chr2_0004] Task initiated on local node
[2026-05-28T05:36:15.568362Z] [nf-8db2bac87c27fd07aed858bdea31588d-51bc2-68mhs] [609_1] [TaskRunner:CallGenome+compressSegmentOutput_chromId_001_chr2_0018] Task initiated on local node
[2026-05-28T05:36:15.593048Z] [nf-8db2bac87c27fd07aed858bdea31588d-51bc2-68mhs] [609_1] [TaskManager] Completed command task: 'CallGenome+compressSegmentOutput_chromId_001_chr2_0004' launched from sub-workflow 'CallGenome'
[2026-05-28T05:36:15.593163Z] [nf-8db2bac87c27fd07aed858bdea31588d-51bc2-68mhs] [609_1] [TaskManager] Completed command task: 'CallGenome+compressSegmentOutput_chromId_001_chr2_0018' launched from sub-workflow 'CallGenome'
[2026-05-28T05:36:15.593855Z] [nf-8db2bac87c27fd07aed858bdea31588d-51bc2-68mhs] [609_1] [TaskManager] Launching command task: 'CallGenome+callGenomeSegment_chromId_001_chr2_0007' from sub-workflow 'CallGenome'
[2026-05-28T05:36:15.594384Z] [nf-8db2bac87c27fd07aed858bdea31588d-51bc2-68mhs] [609_1] [TaskManager] Launching command task: 'CallGenome+compressSegmentOutput_chromId_019_chr20_0004' from sub-workflow 'CallGenome'
[2026-05-28T05:36:15.598241Z] [nf-8db2bac87c27fd07aed858bdea31588d-51bc2-68mhs] [609_1] [TaskRunner:CallGenome+compressSegmentOutput_chromId_019_chr20_0004] Task initiated on local node
[2026-05-28T05:36:15.599463Z] [nf-8db2bac87c27fd07aed858bdea31588d-51bc2-68mhs] [609_1] [TaskRunner:CallGenome+callGenomeSegment_chromId_001_chr2_0007] Task initiated on local node
[2026-05-28T05:36:15.659259Z] [nf-8db2bac87c27fd07aed858bdea31588d-51bc2-68mhs] [609_1] [TaskManager] Completed command task: 'CallGenome+compressSegmentOutput_chromId_019_chr20_0004' launched from sub-workflow 'CallGenome'
[2026-05-28T05:36:15.660076Z] [nf-8db2bac87c27fd07aed858bdea31588d-51bc2-68mhs] [609_1] [TaskManager] Launching command task: 'CallGenome+callGenomeSegment_chromId_018_chr19_0001' from sub-workflow 'CallGenome'
[2026-05-28T05:36:15.663328Z] [nf-8db2bac87c27fd07aed858bdea31588d-51bc2-68mhs] [609_1] [TaskRunner:CallGenome+callGenomeSegment_chromId_018_chr19_0001] Task initiated on local node
[2026-05-28T05:36:15.975512Z] [nf-8db2bac87c27fd07aed858bdea31588d-51bc2-68mhs] [609_1] [TaskManager] Completed command task: 'CallGenome+callGenomeSegment_chromId_019_chr20_0001' launched from sub-workflow 'CallGenome'
[2026-05-28T05:36:15.976256Z] [nf-8db2bac87c27fd07aed858bdea31588d-51bc2-68mhs] [609_1] [TaskManager] Launching command task: 'CallGenome+callGenomeSegment_chromId_001_chr2_0001' from sub-workflow 'CallGenome'
[2026-05-28T05:36:15.980011Z] [nf-8db2bac87c27fd07aed858bdea31588d-51bc2-68mhs] [609_1] [TaskRunner:CallGenome+callGenomeSegment_chromId_001_chr2_0001] Task initiated on local node
[2026-05-28T05:36:16.091051Z] [nf-8db2bac87c27fd07aed858bdea31588d-51bc2-68mhs] [609_1] [TaskManager] Completed command task: 'CallGenome+callGenomeSegment_chromId_001_chr2_0009' launched from sub-workflow 'CallGenome'
[2026-05-28T05:36:16.091782Z] [nf-8db2bac87c27fd07aed858bdea31588d-51bc2-68mhs] [609_1] [TaskManager] Launching command task: 'CallGenome+compressSegmentOutput_chromId_001_chr2_0009' from sub-workflow 'CallGenome'
[2026-05-28T05:36:16.095125Z] [nf-8db2bac87c27fd07aed858bdea31588d-51bc2-68mhs] [609_1] [TaskRunner:CallGenome+compressSegmentOutput_chromId_001_chr2_0009] Task initiated on local node
[2026-05-28T05:36:16.099685Z] [nf-8db2bac87c27fd07aed858bdea31588d-51bc2-68mhs] [609_1] [TaskManager] Completed command task: 'CallGenome+callGenomeSegment_chromId_001_chr2_0013' launched from sub-workflow 'CallGenome'
[2026-05-28T05:36:16.100464Z] [nf-8db2bac87c27fd07aed858bdea31588d-51bc2-68mhs] [609_1] [TaskManager] Launching command task: 'CallGenome+callGenomeSegment_chromId_001_chr2_0012' from sub-workflow 'CallGenome'
[2026-05-28T05:36:16.103584Z] [nf-8db2bac87c27fd07aed858bdea31588d-51bc2-68mhs] [609_1] [TaskRunner:CallGenome+callGenomeSegment_chromId_001_chr2_0012] Task initiated on local node
[2026-05-28T05:36:16.132734Z] [nf-8db2bac87c27fd07aed858bdea31588d-51bc2-68mhs] [609_1] [TaskManager] Completed command task: 'CallGenome+compressSegmentOutput_chromId_001_chr2_0009' launched from sub-workflow 'CallGenome'
[2026-05-28T05:36:16.133410Z] [nf-8db2bac87c27fd07aed858bdea31588d-51bc2-68mhs] [609_1] [TaskManager] Launching command task: 'CallGenome+compressSegmentOutput_chromId_019_chr20_0001' from sub-workflow 'CallGenome'
[2026-05-28T05:36:16.136771Z] [nf-8db2bac87c27fd07aed858bdea31588d-51bc2-68mhs] [609_1] [TaskRunner:CallGenome+compressSegmentOutput_chromId_019_chr20_0001] Task initiated on local node
[2026-05-28T05:36:16.198058Z] [nf-8db2bac87c27fd07aed858bdea31588d-51bc2-68mhs] [609_1] [TaskManager] Completed command task: 'CallGenome+compressSegmentOutput_chromId_019_chr20_0001' launched from sub-workflow 'CallGenome'
[2026-05-28T05:36:16.199081Z] [nf-8db2bac87c27fd07aed858bdea31588d-51bc2-68mhs] [609_1] [TaskManager] Launching command task: 'CallGenome+callGenomeSegment_chromId_001_chr2_0000' from sub-workflow 'CallGenome'
[2026-05-28T05:36:16.202764Z] [nf-8db2bac87c27fd07aed858bdea31588d-51bc2-68mhs] [609_1] [TaskRunner:CallGenome+callGenomeSegment_chromId_001_chr2_0000] Task initiated on local node
[2026-05-28T05:36:16.231633Z] [nf-8db2bac87c27fd07aed858bdea31588d-51bc2-68mhs] [609_1] [TaskManager] Completed command task: 'CallGenome+callGenomeSegment_chromId_018_chr19_0003' launched from sub-workflow 'CallGenome'
[2026-05-28T05:36:16.232328Z] [nf-8db2bac87c27fd07aed858bdea31588d-51bc2-68mhs] [609_1] [TaskManager] Launching command task: 'CallGenome+compressSegmentOutput_chromId_018_chr19_0003' from sub-workflow 'CallGenome'
[2026-05-28T05:36:16.235328Z] [nf-8db2bac87c27fd07aed858bdea31588d-51bc2-68mhs] [609_1] [TaskRunner:CallGenome+compressSegmentOutput_chromId_018_chr19_0003] Task initiated on local node
[2026-05-28T05:36:16.296571Z] [nf-8db2bac87c27fd07aed858bdea31588d-51bc2-68mhs] [609_1] [TaskManager] Completed command task: 'CallGenome+compressSegmentOutput_chromId_018_chr19_0003' launched from sub-workflow 'CallGenome'
[2026-05-28T05:36:16.297305Z] [nf-8db2bac87c27fd07aed858bdea31588d-51bc2-68mhs] [609_1] [TaskManager] Launching command task: 'CallGenome+callGenomeSegment_chromId_001_chr2_0020' from sub-workflow 'CallGenome'
[2026-05-28T05:36:16.300567Z] [nf-8db2bac87c27fd07aed858bdea31588d-51bc2-68mhs] [609_1] [TaskRunner:CallGenome+callGenomeSegment_chromId_001_chr2_0020] Task initiated on local node
[2026-05-28T05:36:16.863599Z] [nf-8db2bac87c27fd07aed858bdea31588d-51bc2-68mhs] [609_1] [TaskManager] Completed command task: 'CallGenome+callGenomeSegment_chromId_001_chr2_0007' launched from sub-workflow 'CallGenome'
[2026-05-28T05:36:16.863737Z] [nf-8db2bac87c27fd07aed858bdea31588d-51bc2-68mhs] [609_1] [TaskManager] Completed command task: 'CallGenome+callGenomeSegment_chromId_001_chr2_0001' launched from sub-workflow 'CallGenome'
[2026-05-28T05:36:16.864410Z] [nf-8db2bac87c27fd07aed858bdea31588d-51bc2-68mhs] [609_1] [TaskManager] Launching command task: 'CallGenome+compressSegmentOutput_chromId_001_chr2_0007' from sub-workflow 'CallGenome'
[2026-05-28T05:36:16.864851Z] [nf-8db2bac87c27fd07aed858bdea31588d-51bc2-68mhs] [609_1] [TaskManager] Launching command task: 'CallGenome+compressSegmentOutput_chromId_019_chr20_0002' from sub-workflow 'CallGenome'
[2026-05-28T05:36:16.868348Z] [nf-8db2bac87c27fd07aed858bdea31588d-51bc2-68mhs] [609_1] [TaskRunner:CallGenome+compressSegmentOutput_chromId_019_chr20_0002] Task initiated on local node
[2026-05-28T05:36:16.869733Z] [nf-8db2bac87c27fd07aed858bdea31588d-51bc2-68mhs] [609_1] [TaskRunner:CallGenome+compressSegmentOutput_chromId_001_chr2_0007] Task initiated on local node
[2026-05-28T05:36:16.929516Z] [nf-8db2bac87c27fd07aed858bdea31588d-51bc2-68mhs] [609_1] [TaskManager] Completed command task: 'CallGenome+compressSegmentOutput_chromId_001_chr2_0007' launched from sub-workflow 'CallGenome'
[2026-05-28T05:36:16.929605Z] [nf-8db2bac87c27fd07aed858bdea31588d-51bc2-68mhs] [609_1] [TaskManager] Completed command task: 'CallGenome+compressSegmentOutput_chromId_019_chr20_0002' launched from sub-workflow 'CallGenome'
[2026-05-28T05:36:16.930190Z] [nf-8db2bac87c27fd07aed858bdea31588d-51bc2-68mhs] [609_1] [TaskManager] Launching command task: 'CallGenome+callGenomeSegment_chromId_001_chr2_0017' from sub-workflow 'CallGenome'
[2026-05-28T05:36:16.930602Z] [nf-8db2bac87c27fd07aed858bdea31588d-51bc2-68mhs] [609_1] [TaskManager] Launching command task: 'CallGenome+compressSegmentOutput_chromId_001_chr2_0001' from sub-workflow 'CallGenome'
[2026-05-28T05:36:16.934484Z] [nf-8db2bac87c27fd07aed858bdea31588d-51bc2-68mhs] [609_1] [TaskRunner:CallGenome+compressSegmentOutput_chromId_001_chr2_0001] Task initiated on local node
[2026-05-28T05:36:16.935913Z] [nf-8db2bac87c27fd07aed858bdea31588d-51bc2-68mhs] [609_1] [TaskRunner:CallGenome+callGenomeSegment_chromId_001_chr2_0017] Task initiated on local node
[2026-05-28T05:36:16.995548Z] [nf-8db2bac87c27fd07aed858bdea31588d-51bc2-68mhs] [609_1] [TaskManager] Completed command task: 'CallGenome+compressSegmentOutput_chromId_001_chr2_0001' launched from sub-workflow 'CallGenome'
[2026-05-28T05:36:16.996253Z] [nf-8db2bac87c27fd07aed858bdea31588d-51bc2-68mhs] [609_1] [TaskManager] Launching command task: 'CallGenome+callGenomeSegment_chromId_001_chr2_0005' from sub-workflow 'CallGenome'
[2026-05-28T05:36:16.999858Z] [nf-8db2bac87c27fd07aed858bdea31588d-51bc2-68mhs] [609_1] [TaskRunner:CallGenome+callGenomeSegment_chromId_001_chr2_0005] Task initiated on local node
[2026-05-28T05:36:17.110885Z] [nf-8db2bac87c27fd07aed858bdea31588d-51bc2-68mhs] [609_1] [TaskManager] Completed command task: 'CallGenome+callGenomeSegment_chromId_001_chr2_0012' launched from sub-workflow 'CallGenome'
[2026-05-28T05:36:17.111579Z] [nf-8db2bac87c27fd07aed858bdea31588d-51bc2-68mhs] [609_1] [TaskManager] Launching command task: 'CallGenome+compressSegmentOutput_chromId_001_chr2_0011' from sub-workflow 'CallGenome'
[2026-05-28T05:36:17.115501Z] [nf-8db2bac87c27fd07aed858bdea31588d-51bc2-68mhs] [609_1] [TaskRunner:CallGenome+compressSegmentOutput_chromId_001_chr2_0011] Task initiated on local node
[2026-05-28T05:36:17.176352Z] [nf-8db2bac87c27fd07aed858bdea31588d-51bc2-68mhs] [609_1] [TaskManager] Completed command task: 'CallGenome+compressSegmentOutput_chromId_001_chr2_0011' launched from sub-workflow 'CallGenome'
[2026-05-28T05:36:17.177044Z] [nf-8db2bac87c27fd07aed858bdea31588d-51bc2-68mhs] [609_1] [TaskManager] Launching command task: 'CallGenome+callGenomeSegment_chromId_001_chr2_0015' from sub-workflow 'CallGenome'
[2026-05-28T05:36:17.180982Z] [nf-8db2bac87c27fd07aed858bdea31588d-51bc2-68mhs] [609_1] [TaskRunner:CallGenome+callGenomeSegment_chromId_001_chr2_0015] Task initiated on local node
[2026-05-28T05:36:17.592980Z] [nf-8db2bac87c27fd07aed858bdea31588d-51bc2-68mhs] [609_1] [TaskManager] Completed command task: 'CallGenome+callGenomeSegment_chromId_001_chr2_0000' launched from sub-workflow 'CallGenome'
[2026-05-28T05:36:17.593641Z] [nf-8db2bac87c27fd07aed858bdea31588d-51bc2-68mhs] [609_1] [TaskManager] Launching command task: 'CallGenome+compressSegmentOutput_chromId_001_chr2_0012' from sub-workflow 'CallGenome'
[2026-05-28T05:36:17.597086Z] [nf-8db2bac87c27fd07aed858bdea31588d-51bc2-68mhs] [609_1] [TaskRunner:CallGenome+compressSegmentOutput_chromId_001_chr2_0012] Task initiated on local node
[2026-05-28T05:36:17.658424Z] [nf-8db2bac87c27fd07aed858bdea31588d-51bc2-68mhs] [609_1] [TaskManager] Completed command task: 'CallGenome+compressSegmentOutput_chromId_001_chr2_0012' launched from sub-workflow 'CallGenome'
[2026-05-28T05:36:17.658528Z] [nf-8db2bac87c27fd07aed858bdea31588d-51bc2-68mhs] [609_1] [TaskManager] Completed command task: 'CallGenome+callGenomeSegment_chromId_001_chr2_0002' launched from sub-workflow 'CallGenome'
[2026-05-28T05:36:17.659255Z] [nf-8db2bac87c27fd07aed858bdea31588d-51bc2-68mhs] [609_1] [TaskManager] Launching command task: 'CallGenome+callGenomeSegment_chromId_001_chr2_0010' from sub-workflow 'CallGenome'
[2026-05-28T05:36:17.659622Z] [nf-8db2bac87c27fd07aed858bdea31588d-51bc2-68mhs] [609_1] [TaskManager] Launching command task: 'CallGenome+callGenomeSegment_chromId_001_chr2_0006' from sub-workflow 'CallGenome'
[2026-05-28T05:36:17.663690Z] [nf-8db2bac87c27fd07aed858bdea31588d-51bc2-68mhs] [609_1] [TaskRunner:CallGenome+callGenomeSegment_chromId_001_chr2_0006] Task initiated on local node
[2026-05-28T05:36:17.664808Z] [nf-8db2bac87c27fd07aed858bdea31588d-51bc2-68mhs] [609_1] [TaskRunner:CallGenome+callGenomeSegment_chromId_001_chr2_0010] Task initiated on local node
[2026-05-28T05:36:18.125798Z] [nf-8db2bac87c27fd07aed858bdea31588d-51bc2-68mhs] [609_1] [TaskManager] Completed command task: 'CallGenome+callGenomeSegment_chromId_018_chr19_0001' launched from sub-workflow 'CallGenome'
[2026-05-28T05:36:18.126325Z] [nf-8db2bac87c27fd07aed858bdea31588d-51bc2-68mhs] [609_1] [TaskManager] Launching command task: 'CallGenome+compressSegmentOutput_chromId_001_chr2_0002' from sub-workflow 'CallGenome'
[2026-05-28T05:36:18.130153Z] [nf-8db2bac87c27fd07aed858bdea31588d-51bc2-68mhs] [609_1] [TaskRunner:CallGenome+compressSegmentOutput_chromId_001_chr2_0002] Task initiated on local node
[2026-05-28T05:36:18.191401Z] [nf-8db2bac87c27fd07aed858bdea31588d-51bc2-68mhs] [609_1] [TaskManager] Completed command task: 'CallGenome+compressSegmentOutput_chromId_001_chr2_0002' launched from sub-workflow 'CallGenome'
[2026-05-28T05:36:18.192041Z] [nf-8db2bac87c27fd07aed858bdea31588d-51bc2-68mhs] [609_1] [TaskManager] Launching command task: 'CallGenome+compressSegmentOutput_chromId_018_chr19_0001' from sub-workflow 'CallGenome'
[2026-05-28T05:36:18.195394Z] [nf-8db2bac87c27fd07aed858bdea31588d-51bc2-68mhs] [609_1] [TaskRunner:CallGenome+compressSegmentOutput_chromId_018_chr19_0001] Task initiated on local node
[2026-05-28T05:36:18.256753Z] [nf-8db2bac87c27fd07aed858bdea31588d-51bc2-68mhs] [609_1] [TaskManager] Completed command task: 'CallGenome+compressSegmentOutput_chromId_018_chr19_0001' launched from sub-workflow 'CallGenome'
[2026-05-28T05:36:18.257396Z] [nf-8db2bac87c27fd07aed858bdea31588d-51bc2-68mhs] [609_1] [TaskManager] Launching command task: 'CallGenome+fixVcfHeader_chromId_001_chr2_0000' from sub-workflow 'CallGenome'
[2026-05-28T05:36:18.261190Z] [nf-8db2bac87c27fd07aed858bdea31588d-51bc2-68mhs] [609_1] [TaskRunner:CallGenome+fixVcfHeader_chromId_001_chr2_0000] Task initiated on local node
[2026-05-28T05:36:18.322009Z] [nf-8db2bac87c27fd07aed858bdea31588d-51bc2-68mhs] [609_1] [TaskManager] Completed command task: 'CallGenome+fixVcfHeader_chromId_001_chr2_0000' launched from sub-workflow 'CallGenome'
[2026-05-28T05:36:18.322625Z] [nf-8db2bac87c27fd07aed858bdea31588d-51bc2-68mhs] [609_1] [TaskManager] Launching command task: 'CallGenome+compressSegmentOutput_chromId_001_chr2_0000' from sub-workflow 'CallGenome'
[2026-05-28T05:36:18.326256Z] [nf-8db2bac87c27fd07aed858bdea31588d-51bc2-68mhs] [609_1] [TaskRunner:CallGenome+compressSegmentOutput_chromId_001_chr2_0000] Task initiated on local node
[2026-05-28T05:36:18.387291Z] [nf-8db2bac87c27fd07aed858bdea31588d-51bc2-68mhs] [609_1] [TaskManager] Completed command task: 'CallGenome+compressSegmentOutput_chromId_001_chr2_0000' launched from sub-workflow 'CallGenome'
[2026-05-28T05:36:18.387972Z] [nf-8db2bac87c27fd07aed858bdea31588d-51bc2-68mhs] [609_1] [TaskManager] Launching command task: 'CallGenome+compressSegmentOutput_chromId_001_chr2_0013' from sub-workflow 'CallGenome'
[2026-05-28T05:36:18.391311Z] [nf-8db2bac87c27fd07aed858bdea31588d-51bc2-68mhs] [609_1] [TaskRunner:CallGenome+compressSegmentOutput_chromId_001_chr2_0013] Task initiated on local node
[2026-05-28T05:36:18.452629Z] [nf-8db2bac87c27fd07aed858bdea31588d-51bc2-68mhs] [609_1] [TaskManager] Completed command task: 'CallGenome+compressSegmentOutput_chromId_001_chr2_0013' launched from sub-workflow 'CallGenome'
[2026-05-28T05:36:18.453289Z] [nf-8db2bac87c27fd07aed858bdea31588d-51bc2-68mhs] [609_1] [TaskManager] Launching command task: 'CallGenome+compressSegmentOutput_chromId_001_chr2_0008' from sub-workflow 'CallGenome'
[2026-05-28T05:36:18.456548Z] [nf-8db2bac87c27fd07aed858bdea31588d-51bc2-68mhs] [609_1] [TaskRunner:CallGenome+compressSegmentOutput_chromId_001_chr2_0008] Task initiated on local node
[2026-05-28T05:36:18.517771Z] [nf-8db2bac87c27fd07aed858bdea31588d-51bc2-68mhs] [609_1] [TaskManager] Completed command task: 'CallGenome+compressSegmentOutput_chromId_001_chr2_0008' launched from sub-workflow 'CallGenome'
[2026-05-28T05:36:18.518346Z] [nf-8db2bac87c27fd07aed858bdea31588d-51bc2-68mhs] [609_1] [TaskManager] Launching command task: 'CallGenome+callGenomeSegment_chromId_019_chr20_0003' from sub-workflow 'CallGenome'
[2026-05-28T05:36:18.521670Z] [nf-8db2bac87c27fd07aed858bdea31588d-51bc2-68mhs] [609_1] [TaskRunner:CallGenome+callGenomeSegment_chromId_019_chr20_0003] Task initiated on local node
[2026-05-28T05:36:18.583272Z] [nf-8db2bac87c27fd07aed858bdea31588d-51bc2-68mhs] [609_1] [TaskManager] Completed command task: 'CallGenome+callGenomeSegment_chromId_001_chr2_0005' launched from sub-workflow 'CallGenome'
[2026-05-28T05:36:18.583897Z] [nf-8db2bac87c27fd07aed858bdea31588d-51bc2-68mhs] [609_1] [TaskManager] Launching command task: 'CallGenome+compressSegmentOutput_chromId_001_chr2_0003' from sub-workflow 'CallGenome'
[2026-05-28T05:36:18.587106Z] [nf-8db2bac87c27fd07aed858bdea31588d-51bc2-68mhs] [609_1] [TaskRunner:CallGenome+compressSegmentOutput_chromId_001_chr2_0003] Task initiated on local node
[2026-05-28T05:36:18.588111Z] [nf-8db2bac87c27fd07aed858bdea31588d-51bc2-68mhs] [609_1] [TaskManager] Completed command task: 'CallGenome+callGenomeSegment_chromId_019_chr20_0003' launched from sub-workflow 'CallGenome'
[2026-05-28T05:36:18.588531Z] [nf-8db2bac87c27fd07aed858bdea31588d-51bc2-68mhs] [609_1] [TaskManager] Launching command task: 'CallGenome+compressSegmentOutput_chromId_019_chr20_0003' from sub-workflow 'CallGenome'
[2026-05-28T05:36:18.591388Z] [nf-8db2bac87c27fd07aed858bdea31588d-51bc2-68mhs] [609_1] [TaskRunner:CallGenome+compressSegmentOutput_chromId_019_chr20_0003] Task initiated on local node
[2026-05-28T05:36:18.652553Z] [nf-8db2bac87c27fd07aed858bdea31588d-51bc2-68mhs] [609_1] [TaskManager] Completed command task: 'CallGenome+compressSegmentOutput_chromId_001_chr2_0003' launched from sub-workflow 'CallGenome'
[2026-05-28T05:36:18.652650Z] [nf-8db2bac87c27fd07aed858bdea31588d-51bc2-68mhs] [609_1] [TaskManager] Completed command task: 'CallGenome+compressSegmentOutput_chromId_019_chr20_0003' launched from sub-workflow 'CallGenome'
[2026-05-28T05:36:18.653137Z] [nf-8db2bac87c27fd07aed858bdea31588d-51bc2-68mhs] [609_1] [TaskManager] Launching command task: 'CallGenome+compressSegmentOutput_chromId_001_chr2_0005' from sub-workflow 'CallGenome'
[2026-05-28T05:36:18.656400Z] [nf-8db2bac87c27fd07aed858bdea31588d-51bc2-68mhs] [609_1] [TaskRunner:CallGenome+compressSegmentOutput_chromId_001_chr2_0005] Task initiated on local node
[2026-05-28T05:36:18.717590Z] [nf-8db2bac87c27fd07aed858bdea31588d-51bc2-68mhs] [609_1] [TaskManager] Completed command task: 'CallGenome+compressSegmentOutput_chromId_001_chr2_0005' launched from sub-workflow 'CallGenome'
[2026-05-28T05:36:18.733664Z] [nf-8db2bac87c27fd07aed858bdea31588d-51bc2-68mhs] [609_1] [TaskManager] Completed command task: 'CallGenome+callGenomeSegment_chromId_001_chr2_0010' launched from sub-workflow 'CallGenome'
[2026-05-28T05:36:18.734175Z] [nf-8db2bac87c27fd07aed858bdea31588d-51bc2-68mhs] [609_1] [TaskManager] Launching command task: 'CallGenome+compressSegmentOutput_chromId_001_chr2_0010' from sub-workflow 'CallGenome'
[2026-05-28T05:36:18.738116Z] [nf-8db2bac87c27fd07aed858bdea31588d-51bc2-68mhs] [609_1] [TaskRunner:CallGenome+compressSegmentOutput_chromId_001_chr2_0010] Task initiated on local node
[2026-05-28T05:36:18.798969Z] [nf-8db2bac87c27fd07aed858bdea31588d-51bc2-68mhs] [609_1] [TaskManager] Completed command task: 'CallGenome+compressSegmentOutput_chromId_001_chr2_0010' launched from sub-workflow 'CallGenome'
[2026-05-28T05:36:18.815162Z] [nf-8db2bac87c27fd07aed858bdea31588d-51bc2-68mhs] [609_1] [TaskManager] Completed command task: 'CallGenome+callGenomeSegment_chromId_001_chr2_0015' launched from sub-workflow 'CallGenome'
[2026-05-28T05:36:18.815692Z] [nf-8db2bac87c27fd07aed858bdea31588d-51bc2-68mhs] [609_1] [TaskManager] Launching command task: 'CallGenome+compressSegmentOutput_chromId_001_chr2_0015' from sub-workflow 'CallGenome'
[2026-05-28T05:36:18.819586Z] [nf-8db2bac87c27fd07aed858bdea31588d-51bc2-68mhs] [609_1] [TaskRunner:CallGenome+compressSegmentOutput_chromId_001_chr2_0015] Task initiated on local node
[2026-05-28T05:36:18.880541Z] [nf-8db2bac87c27fd07aed858bdea31588d-51bc2-68mhs] [609_1] [TaskManager] Completed command task: 'CallGenome+compressSegmentOutput_chromId_001_chr2_0015' launched from sub-workflow 'CallGenome'
[2026-05-28T05:36:19.195934Z] [nf-8db2bac87c27fd07aed858bdea31588d-51bc2-68mhs] [609_1] [TaskManager] Completed command task: 'CallGenome+callGenomeSegment_chromId_001_chr2_0020' launched from sub-workflow 'CallGenome'
[2026-05-28T05:36:19.196548Z] [nf-8db2bac87c27fd07aed858bdea31588d-51bc2-68mhs] [609_1] [TaskManager] Launching command task: 'CallGenome+compressSegmentOutput_chromId_001_chr2_0020' from sub-workflow 'CallGenome'
[2026-05-28T05:36:19.199774Z] [nf-8db2bac87c27fd07aed858bdea31588d-51bc2-68mhs] [609_1] [TaskRunner:CallGenome+compressSegmentOutput_chromId_001_chr2_0020] Task initiated on local node
[2026-05-28T05:36:19.261175Z] [nf-8db2bac87c27fd07aed858bdea31588d-51bc2-68mhs] [609_1] [TaskManager] Completed command task: 'CallGenome+compressSegmentOutput_chromId_001_chr2_0020' launched from sub-workflow 'CallGenome'
[2026-05-28T05:36:19.576185Z] [nf-8db2bac87c27fd07aed858bdea31588d-51bc2-68mhs] [609_1] [TaskManager] Completed command task: 'CallGenome+callGenomeSegment_chromId_001_chr2_0017' launched from sub-workflow 'CallGenome'
[2026-05-28T05:36:19.576702Z] [nf-8db2bac87c27fd07aed858bdea31588d-51bc2-68mhs] [609_1] [TaskManager] Launching command task: 'CallGenome+compressSegmentOutput_chromId_001_chr2_0017' from sub-workflow 'CallGenome'
[2026-05-28T05:36:19.579879Z] [nf-8db2bac87c27fd07aed858bdea31588d-51bc2-68mhs] [609_1] [TaskRunner:CallGenome+compressSegmentOutput_chromId_001_chr2_0017] Task initiated on local node
[2026-05-28T05:36:19.641394Z] [nf-8db2bac87c27fd07aed858bdea31588d-51bc2-68mhs] [609_1] [TaskManager] Completed command task: 'CallGenome+compressSegmentOutput_chromId_001_chr2_0017' launched from sub-workflow 'CallGenome'
[2026-05-28T05:36:19.705560Z] [nf-8db2bac87c27fd07aed858bdea31588d-51bc2-68mhs] [609_1] [TaskManager] Completed command task: 'CallGenome+callGenomeSegment_chromId_001_chr2_0006' launched from sub-workflow 'CallGenome'
[2026-05-28T05:36:19.706130Z] [nf-8db2bac87c27fd07aed858bdea31588d-51bc2-68mhs] [609_1] [TaskManager] Launching command task: 'CallGenome+compressSegmentOutput_chromId_001_chr2_0006' from sub-workflow 'CallGenome'
[2026-05-28T05:36:19.709328Z] [nf-8db2bac87c27fd07aed858bdea31588d-51bc2-68mhs] [609_1] [TaskRunner:CallGenome+compressSegmentOutput_chromId_001_chr2_0006] Task initiated on local node
[2026-05-28T05:36:19.770628Z] [nf-8db2bac87c27fd07aed858bdea31588d-51bc2-68mhs] [609_1] [TaskManager] Completed command task: 'CallGenome+compressSegmentOutput_chromId_001_chr2_0006' launched from sub-workflow 'CallGenome'
[2026-05-28T05:36:20.486623Z] [nf-8db2bac87c27fd07aed858bdea31588d-51bc2-68mhs] [609_1] [TaskManager] Completed command task: 'CallGenome+callGenomeSegment_chromId_018_chr19_0004' launched from sub-workflow 'CallGenome'
[2026-05-28T05:36:20.487152Z] [nf-8db2bac87c27fd07aed858bdea31588d-51bc2-68mhs] [609_1] [TaskManager] Launching command task: 'CallGenome+compressSegmentOutput_chromId_018_chr19_0004' from sub-workflow 'CallGenome'
[2026-05-28T05:36:20.491113Z] [nf-8db2bac87c27fd07aed858bdea31588d-51bc2-68mhs] [609_1] [TaskRunner:CallGenome+compressSegmentOutput_chromId_018_chr19_0004] Task initiated on local node
[2026-05-28T05:36:20.552108Z] [nf-8db2bac87c27fd07aed858bdea31588d-51bc2-68mhs] [609_1] [TaskManager] Completed command task: 'CallGenome+compressSegmentOutput_chromId_018_chr19_0004' launched from sub-workflow 'CallGenome'
[2026-05-28T05:36:20.552426Z] [nf-8db2bac87c27fd07aed858bdea31588d-51bc2-68mhs] [609_1] [TaskManager] Completed command task: 'CallGenome+completedAllGenomeSegments' launched from sub-workflow 'CallGenome'
[2026-05-28T05:36:20.552618Z] [nf-8db2bac87c27fd07aed858bdea31588d-51bc2-68mhs] [609_1] [TaskManager] Launching command task: 'CallGenome+mergeRunStats' from sub-workflow 'CallGenome'
[2026-05-28T05:36:20.552974Z] [nf-8db2bac87c27fd07aed858bdea31588d-51bc2-68mhs] [609_1] [TaskManager] Launching command task: 'CallGenome+SNV_concat_vcf' from sub-workflow 'CallGenome'
[2026-05-28T05:36:20.553262Z] [nf-8db2bac87c27fd07aed858bdea31588d-51bc2-68mhs] [609_1] [TaskManager] Launching command task: 'CallGenome+Indel_concat_vcf' from sub-workflow 'CallGenome'
[2026-05-28T05:36:20.558988Z] [nf-8db2bac87c27fd07aed858bdea31588d-51bc2-68mhs] [609_1] [TaskRunner:CallGenome+Indel_concat_vcf] Task initiated on local node
[2026-05-28T05:36:20.560000Z] [nf-8db2bac87c27fd07aed858bdea31588d-51bc2-68mhs] [609_1] [TaskRunner:CallGenome+mergeRunStats] Task initiated on local node
[2026-05-28T05:36:20.586293Z] [nf-8db2bac87c27fd07aed858bdea31588d-51bc2-68mhs] [609_1] [TaskRunner:CallGenome+SNV_concat_vcf] Task initiated on local node
[2026-05-28T05:36:20.618225Z] [nf-8db2bac87c27fd07aed858bdea31588d-51bc2-68mhs] [609_1] [TaskManager] Completed command task: 'CallGenome+Indel_concat_vcf' launched from sub-workflow 'CallGenome'
[2026-05-28T05:36:20.618314Z] [nf-8db2bac87c27fd07aed858bdea31588d-51bc2-68mhs] [609_1] [TaskManager] Completed command task: 'CallGenome+mergeRunStats' launched from sub-workflow 'CallGenome'
[2026-05-28T05:36:20.618338Z] [nf-8db2bac87c27fd07aed858bdea31588d-51bc2-68mhs] [609_1] [TaskManager] Completed command task: 'CallGenome+SNV_concat_vcf' launched from sub-workflow 'CallGenome'
[2026-05-28T05:36:20.618608Z] [nf-8db2bac87c27fd07aed858bdea31588d-51bc2-68mhs] [609_1] [TaskManager] Launching command task: 'CallGenome+Indel_index_vcf' from sub-workflow 'CallGenome'
[2026-05-28T05:36:20.619066Z] [nf-8db2bac87c27fd07aed858bdea31588d-51bc2-68mhs] [609_1] [TaskManager] Launching command task: 'CallGenome+SNV_index_vcf' from sub-workflow 'CallGenome'
[2026-05-28T05:36:20.623324Z] [nf-8db2bac87c27fd07aed858bdea31588d-51bc2-68mhs] [609_1] [TaskRunner:CallGenome+Indel_index_vcf] Task initiated on local node
[2026-05-28T05:36:20.654408Z] [nf-8db2bac87c27fd07aed858bdea31588d-51bc2-68mhs] [609_1] [TaskRunner:CallGenome+SNV_index_vcf] Task initiated on local node
[2026-05-28T05:36:20.684219Z] [nf-8db2bac87c27fd07aed858bdea31588d-51bc2-68mhs] [609_1] [TaskManager] Completed command task: 'CallGenome+SNV_index_vcf' launched from sub-workflow 'CallGenome'
[2026-05-28T05:36:20.684324Z] [nf-8db2bac87c27fd07aed858bdea31588d-51bc2-68mhs] [609_1] [TaskManager] Completed command task: 'CallGenome+Indel_index_vcf' launched from sub-workflow 'CallGenome'
[2026-05-28T05:36:20.684585Z] [nf-8db2bac87c27fd07aed858bdea31588d-51bc2-68mhs] [609_1] [TaskManager] Launching command task: 'CallGenome+removeTmpDir' from sub-workflow 'CallGenome'
[2026-05-28T05:36:20.688736Z] [nf-8db2bac87c27fd07aed858bdea31588d-51bc2-68mhs] [609_1] [TaskRunner:CallGenome+removeTmpDir] Task initiated on local node
[2026-05-28T05:36:20.749984Z] [nf-8db2bac87c27fd07aed858bdea31588d-51bc2-68mhs] [609_1] [TaskManager] Completed command task: 'CallGenome+removeTmpDir' launched from sub-workflow 'CallGenome'
[2026-05-28T05:36:23.220925Z] [nf-8db2bac87c27fd07aed858bdea31588d-51bc2-68mhs] [609_1] [TaskManager] Completed sub-workflow task: 'CallGenome' launched from master workflow
[2026-05-28T05:36:31.552214Z] [nf-8db2bac87c27fd07aed858bdea31588d-51bc2-68mhs] [609_1] [WorkflowRunner] Strelka somatic workflow successfully completed.
[2026-05-28T05:36:31.552214Z] [nf-8db2bac87c27fd07aed858bdea31588d-51bc2-68mhs] [609_1] [WorkflowRunner] 
[2026-05-28T05:36:31.552214Z] [nf-8db2bac87c27fd07aed858bdea31588d-51bc2-68mhs] [609_1] [WorkflowRunner] 	workflow version: 2.9.10
[2026-05-28T05:36:31.552277Z] [nf-8db2bac87c27fd07aed858bdea31588d-51bc2-68mhs] [609_1] [WorkflowRunner] 
[2026-05-28T05:36:31.552285Z] [nf-8db2bac87c27fd07aed858bdea31588d-51bc2-68mhs] [609_1] [WorkflowRunner] Workflow successfully completed all tasks
[2026-05-28T05:36:31.552292Z] [nf-8db2bac87c27fd07aed858bdea31588d-51bc2-68mhs] [609_1] [WorkflowRunner] Elapsed time for full workflow: 18 sec